Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 39 of 333
Found at i:11071636 original size:17 final size:17
Alignment explanation
Indices: 11071616--11071649 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11071606 TATTTTATTA
11071616 TATATTTTATTACATAT
1 TATATTTTATTACATAT
*
11071633 TATATTTTATTATATAT
1 TATATTTTATTACATAT
11071650 ATTATTCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTTTATTACATAT
Found at i:11071687 original size:7 final size:7
Alignment explanation
Indices: 11071673--11071708 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
11071663 TTATCTTCAT
11071673 TTTATTA
1 TTTATTA
*
11071680 TATATTA
1 TTTATTA
11071687 TTCTATTA
1 TT-TATTA
11071695 TTTATTA
1 TTTATTA
11071702 TTTATTA
1 TTTATTA
11071709 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:11071705 original size:29 final size:29
Alignment explanation
Indices: 11071599--11071708 Score: 75
Period size: 29 Copynumber: 3.6 Consensus size: 29
11071589 ATTTATCAAG
* *
11071599 TTATTTGTATTTTATTATATATTTTATTACATA
1 TTATTTTTA-TTTATTATATA--TTATT-CCTA
11071632 TTATATTTTA-TTA-TATATATTATTCCCTA
1 TTAT-TTTTATTTATTATATATTATT-CCTA
11071661 -TATTATCTTCATTTTATTATATATTATT-CTA
1 TTATT-T-TT-A-TTTATTATATATTATTCCTA
11071692 TTATTTATTATTTATTA
1 TTATTT-TTATTTATTA
11071709 GTACATATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.02
28 4 0.06
29 17 0.26
30 2 0.03
31 12 0.18
32 10 0.15
33 15 0.23
34 4 0.06
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (29 bp):
TTATTTTTATTTATTATATATTATTCCTA
Found at i:11071869 original size:20 final size:18
Alignment explanation
Indices: 11071838--11071892 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
11071828 ATATTATTAT
*
11071838 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
11071856 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
*
11071876 TTTTTTATATATATTAA
1 TTTTATATATATATTAA
11071893 TTGTTTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 9 0.31
19 10 0.34
20 10 0.34
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:11071960 original size:22 final size:22
Alignment explanation
Indices: 11071918--11071960 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11071908 TCCTTTATCA
*
11071918 TTTTTATATTATTTTAAATATT
1 TTTTTATATTATTATAAATATT
*
11071940 TTTTTA-ATTATATATATATAT
1 TTTTTATATTAT-TATAAATAT
11071961 ATATATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTATATTATTATAAATATT
Found at i:11072334 original size:106 final size:106
Alignment explanation
Indices: 11072137--11072336 Score: 253
Period size: 106 Copynumber: 1.9 Consensus size: 106
11072127 TTGATTTAAG
* * * * * *
11072137 TTATATTTGCATGAAATATTATTATATATGTACTTTATGTTGTTATATTCATTATTTTCTATGTT
1 TTATATCTGCATGAAAGATTATTATATATATAATTTATGTTGTTATATTCATCATTTTCTATATT
* **
11072202 ATATTTTGCATGAAATATTACTGCATGTATATTTATGTTAT
66 ATATGTTGCATGAAATATTAAAGCATGTATATTTATGTTAT
*
11072243 TTATATCTGCATGAAAGGTTAATGTATATTATATAATTTATGTTG-T-TATTCATCATTTTCTAT
1 TTATATCTGCATGAAAGATT-AT-TATA-TATATAATTTATGTTGTTATATTCATCATTTTCTAT
*
11072306 ATTATA-GTTGCATGAAATGTTAAAGCATGTA
63 ATTATATGTTGCATGAAATATTAAAGCATGTA
11072337 GTTTATATTG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
106 38 0.47
107 23 0.29
108 5 0.06
109 14 0.17
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (106 bp):
TTATATCTGCATGAAAGATTATTATATATATAATTTATGTTGTTATATTCATCATTTTCTATATT
ATATGTTGCATGAAATATTAAAGCATGTATATTTATGTTAT
Found at i:11075661 original size:14 final size:16
Alignment explanation
Indices: 11075642--11075673 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
11075632 TCGATATCTT
11075642 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATCGCA
11075656 TTTGCATCTCATCGCA
1 TTTGCATCTCATCGCA
11075672 TT
1 TT
11075674 ATATGCATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTGCATCTCATCGCA
Found at i:11083809 original size:44 final size:44
Alignment explanation
Indices: 11083762--11084427 Score: 819
Period size: 44 Copynumber: 15.1 Consensus size: 44
11083752 TCTAGAAAGT
* * * *
11083762 AGATTTGGTGTCTCTGTATTGACAGGGAGCAGATCAAATATAGT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
11083806 AGATTTGGCGTCTCTGTATCGAC-GGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGG-GAGCAGATCGAAGATAGC
* * *
11083850 AGATTTGGTGTCTCTGTATTGATAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * *
11083894 AGATTTGGCGTCTCTGTATTGATA-GAAGGCGGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGA-GCAGATCGAAGATAGC
*
11083938 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
*
11083982 AGATTTGGCGTCTCTGTATCGACAGGGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
11084026 AGATTTGGTGTCTCTGTATTGACAGAGAGCAGATTGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
11084070 AGATTTGGCGTTTCTGTATTGACAGAGAGCTGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * * *
11084114 AGATTTGGCATTTCTGTATCGATAGGGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
11084158 AGATTTGACATCTCTGTATTGACAAGAGG-GCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGAC-AG-GGAGCAGATCGAAGATAGC
* * *
11084203 AGATTTGGCGTCTCTATATTGACAGAGAGCAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
** * *
11084247 AGATTTGGCGTCTCTGTATCAACGGGGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
*
11084291 AGATTTGGTGTCTCTGTATTGACAGAGG-GCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAG-C
*
11084335 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
11084379 AGATTTGGCATCTCTGTATTAGCCGGGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCGAAGATAGC
11084424 AGAT
1 AGAT
11084428 CTGACATTCG
Statistics
Matches: 545, Mismatches: 61, Indels: 31
0.86 0.10 0.05
Matches are distributed among these distances:
43 8 0.01
44 470 0.86
45 64 0.12
46 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
Found at i:11083999 original size:132 final size:132
Alignment explanation
Indices: 11083762--11084427 Score: 912
Period size: 132 Copynumber: 5.0 Consensus size: 132
11083752 TCTAGAAAGT
* * * *
11083762 AGATTTGGTGTCTCTGTATTGACAG-GGAGCAGATCAAATATAGTAGATTTGGCGTCTCTGTATC
1 AGATTTGGTGTCTCTGTATTGACAGAGG-GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT
* * * * * *
11083826 GACGGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTGATAGAGAGCAGATCGAAGAT
65 GACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACAGGGAGCAGATCGAAGAT
11083891 AGC
130 AGC
* * * *
11083894 AGATTTGGCGTCTCTGTATTGATAGAAGGCGGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
1 AGATTTGGTGTCTCTGTATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
11083959 ACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACAGGGAGCAGATCGAAGAT-
66 ACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACAGGGAGCAGATCGAAGATA
11084023 GAC
131 G-C
* * *
11084026 AGATTTGGTGTCTCTGTATTGACAGAGAGCAGATTGAAGAT-GACAGATTTGGCGTTTCTGTATT
1 AGATTTGGTGTCTCTGTATTGACAGAGGGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATT
* * * *
11084090 GACAGAGAGCTGATCGAAGATAGCAGATTTGGCATTTCTGTATCGATAGGGAGCAGATCGAAGAT
65 GACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACAGGGAGCAGATCGAAGAT
11084155 -GAC
130 AG-C
*** * *
11084158 AGATTTGACATCTCTGTATTGACAAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTATATT
1 AGATTTGGTGTCTCTGTATTGAC-AGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT
* * * *
11084223 GACAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATCAACGGGGAGCAGATCAAAGAT
65 GACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACAGGGAGCAGATCGAAGAT
11084288 AGC
130 AGC
11084291 AGATTTGGTGTCTCTGTATTGACAGAGGGCAGATCGAAGAT-GACAGATTTGGCGTCTCTGTATT
1 AGATTTGGTGTCTCTGTATTGACAGAGGGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATT
* * * *
11084355 GACAGAGAGCAGATCGAAGAT-GACAGATTTGGCATCTCTGTATTAGCCGGGGAGCAGATCGAAG
65 GACAGAGAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTA-TCGACAGGGAGCAGATCGAAG
11084419 ATAGC
128 ATAGC
11084424 AGAT
1 AGAT
11084428 CTGACATTCG
Statistics
Matches: 473, Mismatches: 52, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
131 3 0.01
132 329 0.70
133 140 0.30
134 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (132 bp):
AGATTTGGTGTCTCTGTATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
ACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACAGGGAGCAGATCGAAGATA
GC
Found at i:11085944 original size:18 final size:18
Alignment explanation
Indices: 11085913--11085955 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11085903 TTACATACAA
* *
11085913 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
11085931 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
11085949 TTT-TATA
1 TTTATATA
11085956 AACATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Found at i:11086044 original size:14 final size:12
Alignment explanation
Indices: 11086017--11086079 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
11086007 AGGTTAGTTG
11086017 TATTTTATTATA
1 TATTTTATTATA
11086029 TATTTTATTATA
1 TATTTTATTATA
* ***
11086041 TATATTATTCCC
1 TATTTTATTATA
*
11086053 TATATTATCT-T-
1 TATTTTAT-TATA
11086064 TATTTTATTATA
1 TATTTTATTATA
11086076 TATT
1 TATT
11086080 ATTCTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
10 1 0.02
11 8 0.19
12 32 0.76
13 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTTATTATA
Found at i:11086087 original size:15 final size:14
Alignment explanation
Indices: 11086067--11086102 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
11086057 TTATCTTTAT
11086067 TTTATTATATATTA
1 TTTATTATATATTA
*
11086081 TTCTATTATTTATTA
1 TT-TATTATATATTA
11086096 TTTATTA
1 TTTATTA
11086103 GTACATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:11086095 original size:22 final size:21
Alignment explanation
Indices: 11086017--11086102 Score: 66
Period size: 22 Copynumber: 3.8 Consensus size: 21
11086007 AGGTTAGTTG
* *
11086017 TATTTTATTATATATTTTATT
1 TATTTTATTATATATTATCTT
*
11086038 ATATATATTATTCCCTATATTATCTT
1 -TAT-T-TTATT--ATATATTATCTT
11086064 TATTTTATTATATATTATTCTAT
1 TATTTTATTATATATTA-TCT-T
*
11086087 TA-TTTATTATTTATTA
1 TATTTTATTATATATTA
11086103 GTACATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
21 7 0.13
22 19 0.36
23 9 0.17
24 6 0.11
25 3 0.06
26 9 0.17
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTATTATATATTATCTT
Found at i:11086170 original size:7 final size:7
Alignment explanation
Indices: 11086155--11086190 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
11086145 CATATATCAT
*
11086155 TATTAAA
1 TATTTAA
11086162 TATTTAA
1 TATTTAA
11086169 TATTTAA
1 TATTTAA
11086176 TATTTAA
1 TATTTAA
*
11086183 TATCTAA
1 TATTTAA
11086190 T
1 T
11086191 GTTCTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (7 bp):
TATTTAA
Found at i:11086270 original size:20 final size:18
Alignment explanation
Indices: 11086239--11086293 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
11086229 ATATTATTAT
*
11086239 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
11086257 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
11086277 TTTTATATATATATTAA
1 TTTTATATATATATTAA
11086294 TCGTTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:11086360 original size:21 final size:21
Alignment explanation
Indices: 11086319--11086376 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
11086309 TCCTTTATCA
*
11086319 TTTTTATATTATTTTAAATAT
1 TTTTTATATTATTATAAATAT
*
11086340 TTTTTA-ATTATATATATATAT
1 TTTTTATATTAT-TATAAATAT
*
11086361 TTACTTATATT-TTATA
1 TT-TTTATATTATTATA
11086377 TATGTTCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.16
21 19 0.61
22 4 0.13
23 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTATATTATTATAAATAT
Found at i:11088823 original size:77 final size:77
Alignment explanation
Indices: 11088693--11088841 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 77
11088683 TAAACCACAG
* *
11088693 TAATTTAATTCAAGAAAAGAACTAAAAATAAATAAATTCGTACAAACAAAAA-TTCTATAAAAAT
1 TAATTTAATCCAAGAAAAGAACTAAAAATAAATAAAATC-TACAAACAAAAATTTCTATAAAAAT
*
11088757 TCTAAAAGGACAA
65 ACTAAAAGGACAA
*
11088770 TAATTTAATCCAAGAAAAGAAGC-AAAAATAAATAAAAT-TA-AATACAAAGAAATTTCTATAGA
1 TAATTTAATCCAAGAAAAGAA-CTAAAAATAAATAAAATCTACAA-AC-AA-AAATTTCTATAAA
11088832 AATACTAAAA
62 AATACTAAAA
11088842 AAATTAACCC
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
74 2 0.03
75 4 0.06
76 2 0.03
77 37 0.59
78 18 0.29
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (77 bp):
TAATTTAATCCAAGAAAAGAACTAAAAATAAATAAAATCTACAAACAAAAATTTCTATAAAAATA
CTAAAAGGACAA
Found at i:11089300 original size:49 final size:48
Alignment explanation
Indices: 11089247--11089352 Score: 185
Period size: 49 Copynumber: 2.2 Consensus size: 48
11089237 AAAATAAACG
11089247 CATTAATTTAATCCAAGAAAAGAAACAAAAATAAATAAAATCATAAATA
1 CATTAATTTAATCCAAGAAAAGAAACAAAAATAAATAAAATCAT-AATA
*
11089296 CATTAATTTAATCCAAGAAAAGACACAAAAATAAATAAAATCATAATA
1 CATTAATTTAATCCAAGAAAAGAAACAAAAATAAATAAAATCATAATA
*
11089344 AATTAATTT
1 CATTAATTT
11089353 CTTAAACATA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
48 12 0.22
49 43 0.78
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (48 bp):
CATTAATTTAATCCAAGAAAAGAAACAAAAATAAATAAAATCATAATA
Found at i:11090226 original size:20 final size:21
Alignment explanation
Indices: 11090201--11090256 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
11090191 CTTTAAGAAA
*
11090201 ATATTTTAAGAATTTAAAA-T
1 ATATTTTAAGAATTCAAAACT
11090221 ATATTTTAAGAATATCAAAACT
1 ATATTTTAAGAAT-TCAAAACT
* *
11090243 TTATTTTAAAAATT
1 ATATTTTAAGAATT
11090257 GTTTAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.42
21 6 0.19
22 12 0.39
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATTTTAAGAATTCAAAACT
Found at i:11090536 original size:87 final size:90
Alignment explanation
Indices: 11090366--11090580 Score: 242
Period size: 87 Copynumber: 2.4 Consensus size: 90
11090356 CTGTAAAATA
* * *
11090366 GTAT-AAATTTCAAATTTTATTTTGATTTAAAT-ATACAATTTTACTTATTTAATTAATTTTAAA
1 GTATAAAATTTCAAATTTCATTTTGATTTAAATAAAACAATATTAC-TATTTAATTAATTTTAAA
*
11090429 TTATAAAATTTTAACTGGATAACAAT
65 TTATAAAATTTTAACAGGATAACAAT
* * *
11090455 GTATAAAATTT-AAATTTCATTTTGATTTAAATAAAAGAATATT-C-ATTTAGTTATTTTTAAAT
1 GTATAAAATTTCAAATTTCATTTTGATTTAAATAAAACAATATTACTATTTAATTAATTTTAAAT
* *
11090517 TGTAAAATTTTAACAGGATAACCAT
66 TATAAAATTTTAACAGGATAACAAT
* *
11090542 GATAATGTATAAATTTCAAATTCCATTTTGACTTAAATA
1 G-T-A--TA-AAATTTCAAATTTCATTTTGATTTAAATA
11090581 CAAAATTGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
87 39 0.36
88 1 0.01
89 26 0.24
90 13 0.12
91 2 0.02
92 6 0.06
93 20 0.19
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (90 bp):
GTATAAAATTTCAAATTTCATTTTGATTTAAATAAAACAATATTACTATTTAATTAATTTTAAAT
TATAAAATTTTAACAGGATAACAAT
Found at i:11094292 original size:35 final size:35
Alignment explanation
Indices: 11094246--11094313 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
11094236 ATTTTGAGAA
11094246 TTAACTTTCAGATGCCGTTTAAAATACAATGTGAG
1 TTAACTTTCAGATGCCGTTTAAAATACAATGTGAG
* *
11094281 TTAACTTTCAGATGCTGTTTAAAATATAATGTG
1 TTAACTTTCAGATGCCGTTTAAAATACAATGTG
11094314 TCATCTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (35 bp):
TTAACTTTCAGATGCCGTTTAAAATACAATGTGAG
Found at i:11097207 original size:5 final size:5
Alignment explanation
Indices: 11097197--11097226 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
11097187 AATGGTTTTC
*
11097197 TATTT TATTT TATTT TATTT TATTT CATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT
11097227 AGGATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:11097356 original size:15 final size:15
Alignment explanation
Indices: 11097313--11097374 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
11097303 ATAACTTAAA
*
11097313 TTCAACACTTAATTT
1 TTCAACACTTATTTT
* *
11097328 TTCAATACTAATTTT
1 TTCAACACTTATTTT
*
11097343 TTCAACATTTATTTT
1 TTCAACACTTATTTT
* *
11097358 CTCGACACTTGATTTT
1 TTCAACACTT-ATTTT
11097374 T
1 T
11097375 CAATTTATCA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
15 31 0.86
16 5 0.14
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (15 bp):
TTCAACACTTATTTT
Found at i:11099963 original size:44 final size:44
Alignment explanation
Indices: 11099900--11099984 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
11099890 ATCGTCATAA
11099900 GACTAGAGAGGAATTTCCCACAAAATAAAAATAGAAACAGATAT
1 GACTAGAGAGGAATTTCCCACAAAATAAAAATAGAAACAGATAT
*
11099944 GACTAGAGAGGCATTTCCCACAAAATAAAAATAGAAACAGA
1 GACTAGAGAGGAATTTCCCACAAAATAAAAATAGAAACAGA
11099985 CTCAAAGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.16
Consensus pattern (44 bp):
GACTAGAGAGGAATTTCCCACAAAATAAAAATAGAAACAGATAT
Found at i:11106007 original size:145 final size:145
Alignment explanation
Indices: 11105869--11106195 Score: 611
Period size: 145 Copynumber: 2.2 Consensus size: 145
11105859 GTTTCTCACA
*
11105869 TTTGCTTT-CCTAGATTTTGGCTATCTAATTGTTTCCTTTTCGAGTTTAGTTTTTTTTTTTTGGT
1 TTTGCTTTCCCTAGATTTTGGCTATCTAATTGTTTCCTTTTCAAGTTTAG-TTTTTTTTTTTGGT
11105933 GAAATTTCGAGTTTAGTTTTGATTGTTGTATGCTGGAGCTGGATCTAACATGGAAATTACTTCCT
65 GAAATTTCGAGTTTAGTTTTGATTGTTGTATGCTGGAGCTGGATCTAACATGGAAATTACTTCCT
11105998 CTGGTTGTTTCTGGAT
130 CTGGTTGTTTCTGGAT
11106014 TTTGCTTTCCCTAGATTTTGGCTATCTAATTGTTTCCTTTTCAAGTTTAGTTTTTTTTTTTGGTG
1 TTTGCTTTCCCTAGATTTTGGCTATCTAATTGTTTCCTTTTCAAGTTTAGTTTTTTTTTTTGGTG
11106079 AAATTTCGAGTTTAGTTTTGATTGTTGTATGCTGGAGCTGGATCTAACATGGAAATTACTTCCTC
66 AAATTTCGAGTTTAGTTTTGATTGTTGTATGCTGGAGCTGGATCTAACATGGAAATTACTTCCTC
11106144 TGGTTGTTTCTGGAT
131 TGGTTGTTTCTGGAT
*
11106159 TTTGCTTTCCCTAGATTTTGGCTCATATAATTGTTTC
1 TTTGCTTTCCCTAGATTTTGGCT-ATCTAATTGTTTC
11106196 TTTCCATCAA
Statistics
Matches: 178, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
145 126 0.71
146 52 0.29
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (145 bp):
TTTGCTTTCCCTAGATTTTGGCTATCTAATTGTTTCCTTTTCAAGTTTAGTTTTTTTTTTTGGTG
AAATTTCGAGTTTAGTTTTGATTGTTGTATGCTGGAGCTGGATCTAACATGGAAATTACTTCCTC
TGGTTGTTTCTGGAT
Found at i:11109739 original size:19 final size:19
Alignment explanation
Indices: 11109715--11109788 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
11109705 GTTGAATTAC
11109715 TTAATTTAATAATTATAGT
1 TTAATTTAATAATTATAGT
* *
11109734 TTAATTTTTAAATGTAATTCTAAT
1 TTAA--TTT-AA--TAATTATAGT
**
11109758 TTTTTTTAATAATTATAGT
1 TTAATTTAATAATTATAGT
*
11109777 TCAATTTAATAA
1 TTAATTTAATAA
11109789 ATTTTAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 21 0.51
21 5 0.12
22 5 0.12
24 10 0.24
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (19 bp):
TTAATTTAATAATTATAGT
Found at i:11109818 original size:24 final size:22
Alignment explanation
Indices: 11109782--11109834 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
11109772 ATAGTTCAAT
* *
11109782 TTAATAAATTTTAAAATGTTTAAG
1 TTAAAAAAATTTAAAA-G-TTAAG
11109806 TTAAAAAAATTTAAAAGTTAAG
1 TTAAAAAAATTTAAAAGTTAAG
*
11109828 TTTAAAA
1 TTAAAAA
11109835 TATCAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 11 0.42
23 1 0.04
24 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.40
Consensus pattern (22 bp):
TTAAAAAAATTTAAAAGTTAAG
Found at i:11118196 original size:12 final size:14
Alignment explanation
Indices: 11118168--11118200 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11118158 TAGAAACAAC
11118168 AAAGAAAGAGAATA
1 AAAGAAAGAGAATA
11118182 AAAGAAAGA-AA-A
1 AAAGAAAGAGAATA
11118194 AAAGAAA
1 AAAGAAA
11118201 AAAGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 2 0.11
14 9 0.47
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (14 bp):
AAAGAAAGAGAATA
Found at i:11118206 original size:15 final size:16
Alignment explanation
Indices: 11118186--11118215 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11118176 AGAATAAAAG
11118186 AAAGAA-AAAAAGAAA
1 AAAGAAGAAAAAGAAA
11118201 AAAGAAGAAAAAGAA
1 AAAGAAGAAAAAGAA
11118216 GAGGAAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAAAAGAAA
Found at i:11118223 original size:19 final size:19
Alignment explanation
Indices: 11118176--11118217 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11118166 ACAAAGAAAG
11118176 AGAATAAAAGAAAGAAAAAA
1 AGAA-AAAAGAAAGAAAAAA
11118196 AGAAAAAAG-AAGAAAAAGA
1 AGAAAAAAGAAAGAAAAA-A
11118215 AGA
1 AGA
11118218 GGAAAGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (19 bp):
AGAAAAAAGAAAGAAAAAA
Found at i:11119893 original size:17 final size:18
Alignment explanation
Indices: 11119871--11119905 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11119861 TTAAAGAATT
*
11119871 AAAAT-AATATTTTAATA
1 AAAATAAATATTTAAATA
11119888 AAAATAAATATTTAAATA
1 AAAATAAATATTTAAATA
11119906 CTCTTAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATAAATATTTAAATA
Found at i:11119968 original size:27 final size:26
Alignment explanation
Indices: 11119917--11119974 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
11119907 TCTTAAAGAT
*
11119917 ATATTTTTAATATTTTATTTTATATA
1 ATATTTTTAATATTTTATTTCATATA
*
11119943 ATATTTTTTATATTTT-TTATACATATA
1 ATATTTTTAATATTTTATT-T-CATATA
11119970 ATATT
1 ATATT
11119975 AATGAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 16 0.57
27 10 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
ATATTTTTAATATTTTATTTCATATA
Found at i:11120034 original size:22 final size:21
Alignment explanation
Indices: 11119986--11120031 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
11119976 ATGAAATATT
11119986 ATTTAATTTTTTATGACCAAA
1 ATTTAATTTTTTATGACCAAA
*
11120007 ATTTAATTTTTTGTGACCAAA
1 ATTTAATTTTTTATGACCAAA
11120028 ATTT
1 ATTT
11120032 TAACACTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTAATTTTTTATGACCAAA
Found at i:11121837 original size:27 final size:27
Alignment explanation
Indices: 11121807--11121874 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 27
11121797 TTTATGGTGT
11121807 AATATGAAAAG-AACG-TTTGTATGGCGC
1 AATATGAAAAGTAACGCTTTG--TGGCGC
11121834 AATATG-AAAGTAACGCCTTTGTGGCGC
1 AATATGAAAAGTAACG-CTTTGTGGCGC
11121861 AATATGAAAGAGTA
1 AATATGAAA-AGTA
11121875 TCCTTCATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
26 4 0.11
27 22 0.61
28 2 0.06
29 8 0.22
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (27 bp):
AATATGAAAAGTAACGCTTTGTGGCGC
Found at i:11123058 original size:20 final size:18
Alignment explanation
Indices: 11123011--11123059 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
11123001 CAAGATAAAC
11123011 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
11123028 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
11123048 ATTAAATTAATA
1 ATTAAATTAATA
11123060 ACATACAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:11125185 original size:24 final size:24
Alignment explanation
Indices: 11125142--11125201 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
11125132 TTAGCTCGCT
* **
11125142 TGAACCTTCCCGATATTGGCTCGTA
1 TGAA-CTTCCCGATAATGGCTCACA
* *
11125167 TGAGCTTCCCGTTAATGGCTCACA
1 TGAACTTCCCGATAATGGCTCACA
11125191 TGAACTTCCCG
1 TGAACTTCCCG
11125202 CTTATATGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (24 bp):
TGAACTTCCCGATAATGGCTCACA
Found at i:11129384 original size:36 final size:36
Alignment explanation
Indices: 11129343--11129416 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
11129333 GTTAATTAGA
11129343 TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
1 TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
11129379 TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
1 TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
11129415 TA
1 TA
11129417 GGCTAGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.50
Consensus pattern (36 bp):
TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
Found at i:11130796 original size:59 final size:61
Alignment explanation
Indices: 11130726--11130842 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
11130716 ATCATATTAA
* * *
11130726 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
11130785 TATTAAGTTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
11130843 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
61 1 0.02
62 30 0.59
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:11130868 original size:20 final size:18
Alignment explanation
Indices: 11130821--11130868 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
11130811 CAAGATAAAC
11130821 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
11130838 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
11130858 ATTAAATTAAT
1 ATTAAATTAAT
11130869 GAAATACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.31
18 1 0.04
19 2 0.08
20 15 0.58
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:11130908 original size:17 final size:17
Alignment explanation
Indices: 11130821--11130911 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
11130811 CAAGATAAAC
11130821 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
11130838 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAA--A-TTTAAT
*
11130858 ATTAAATT-AA-TGAA-
1 ATTAAATTAAATTTAAT
**
11130872 A-TACAATT-AAGGTAAGT
1 ATTA-AATTAAATTTAA-T
11130889 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
11130906 ATTAAA
1 ATTAAA
11130912 CTATTAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 22
0.68 0.06 0.26
Matches are distributed among these distances:
13 2 0.03
14 7 0.12
15 5 0.09
17 21 0.36
18 8 0.14
19 3 0.05
20 12 0.21
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:11135791 original size:46 final size:46
Alignment explanation
Indices: 11135726--11136041 Score: 422
Period size: 46 Copynumber: 6.9 Consensus size: 46
11135716 TTATCTTTGA
* * * * * *
11135726 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* * ** * *
11135772 CAGGTTGCCATGGTATCTTTCAACCATGATCTTATTCATTCTC-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
11135817 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* * *
11135863 CCTGTTTCCATGGTATCTTTCAACCATGGTTTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
11135909 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
11135955 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
11136001 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
11136042 CATTTTAGAA
Statistics
Matches: 242, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 41 0.17
46 198 0.82
47 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
Found at i:11145683 original size:13 final size:13
Alignment explanation
Indices: 11145667--11145697 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11145657 AAAATATGAG
11145667 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
*
11145680 AGAAAAAGAAAAT
1 AGAAAAAGAAAAA
11145693 AGAAA
1 AGAAA
11145698 GTATCTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:11155930 original size:42 final size:42
Alignment explanation
Indices: 11155883--11156025 Score: 103
Period size: 42 Copynumber: 3.2 Consensus size: 42
11155873 TGAAGTGGGC
11155883 CTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATG
1 CTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATG
** * * * *
11155925 CTGCTCACGTGAGCTATGG---AGAATTTACATCACATGAGCTATGAAGTGGG
1 CTGCTCACACGAGCTGTGGATCAGAATGTA-A--GC-T-A-C-ACG-A-T--G
11155975 CCTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATG
1 -CTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATG
11156018 CTGCTCAC
1 CTGCTCAC
11156026 GTGAGCTATG
Statistics
Matches: 74, Mismatches: 12, Indels: 30
0.64 0.10 0.26
Matches are distributed among these distances:
39 7 0.09
40 1 0.01
42 25 0.34
43 2 0.03
44 1 0.01
45 2 0.03
46 3 0.04
47 3 0.04
48 2 0.03
49 1 0.01
50 2 0.03
51 17 0.23
53 1 0.01
54 7 0.09
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (42 bp):
CTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATG
Found at i:11156020 original size:93 final size:93
Alignment explanation
Indices: 11155861--11156046 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
11155851 TCAACAATGC
11155861 TCACATGAGCTATGAAGTGGGCCTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATGC
1 TCACATGAGCTATGAAGTGGGCCTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATGC
11155926 TGCTCACGTGAGCTATGGAGAATTTACA
66 TGCTCACGTGAGCTATGGAGAATTTACA
11155954 TCACATGAGCTATGAAGTGGGCCTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATGC
1 TCACATGAGCTATGAAGTGGGCCTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATGC
11156019 TGCTCACGTGAGCTATGGAGAATTTACA
66 TGCTCACGTGAGCTATGGAGAATTTACA
11156047 ACAAATACAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (93 bp):
TCACATGAGCTATGAAGTGGGCCTGCTCACACGAGCTGTGGATCAGAATGTAAGCTACACGATGC
TGCTCACGTGAGCTATGGAGAATTTACA
Found at i:11169271 original size:38 final size:38
Alignment explanation
Indices: 11169210--11169322 Score: 127
Period size: 38 Copynumber: 2.9 Consensus size: 38
11169200 ATTTGATGTG
*
11169210 TATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAAAA
**
11169250 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * * * *
11169288 TATTCGAGATAAATCCTGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
11169323 TTATATTTGG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 54 0.84
39 2 0.03
40 8 0.12
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:11169493 original size:43 final size:43
Alignment explanation
Indices: 11169326--11169480 Score: 258
Period size: 43 Copynumber: 3.6 Consensus size: 43
11169316 GCTGGTATTA
* * *
11169326 TATTTGGGCCATCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
11169369 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
11169412 TATTCGGGCCTTCGTGCCT-GACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAG-CAGGCTTCGTGCCGGTGATGTG
11169455 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
11169481 GTAATGCCGG
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
42 1 0.01
43 103 0.98
44 1 0.01
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:11176073 original size:19 final size:20
Alignment explanation
Indices: 11176049--11176087 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11176039 AAAATATCAA
*
11176049 TTTT-AACCCTTTAAATTTT
1 TTTTAAACCCTTAAAATTTT
*
11176068 TTTTAAACTCTTAAAATTTT
1 TTTTAAACCCTTAAAATTTT
11176088 GAAATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTAAACCCTTAAAATTTT
Found at i:11179538 original size:22 final size:21
Alignment explanation
Indices: 11179490--11179534 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11179480 CTAAAGTTTG
* *
11179490 AAATTATAAAAGAATATAAGT
1 AAATAATAAAAGAATATAAAT
11179511 AAATAATAAAACGAATA-AAAT
1 AAATAATAAAA-GAATATAAAT
11179532 AAA
1 AAA
11179535 ATAAGTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (21 bp):
AAATAATAAAAGAATATAAAT
Found at i:11181197 original size:44 final size:43
Alignment explanation
Indices: 11181160--11181743 Score: 432
Period size: 44 Copynumber: 13.3 Consensus size: 43
11181150 CTGTAATTTT
* * * *
11181160 AGGGAGATAGGATTAGTAGCTTCAATCTGCTCTACTGTAACTTT
1 AGGGAGATAAGATT-GTAGCTTTAATCTGCTCTACTGCAACTTC
* * * * *
11181204 AGAGG-TATAAGATTGACATCTTCAACCTGCTCTACTGCAACTTC
1 AG-GGAGATAAGATTG-TAGCTTTAATCTGCTCTACTGCAACTTC
* *
11181248 AGGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTC
1 AGGGAGATAA-GATTGTAGCTTTAATCTGCTCTACTGCAACTTC
*
11181292 AGAGAGATAAGATTTGTAGCTTTAATCTGCT-TCACTGCAACTTC
1 AGGGAGATAAGA-TTGTAGCTTTAATCTGCTCT-ACTGCAACTTC
* *
11181336 AGGGAGATAAGATCTGTGGCTTTAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAGAT-TGTAGCTTTAATCTGCTCTACTGCAACTTC
* * * *
11181380 AGAGAGATAATG-TT-T--TTTTAACCTGCTTCT-CTGCAAATTC
1 AGGGAGATAA-GATTGTAGCTTTAATCTGC-TCTACTGCAACTTC
* * * *
11181420 AAGGAAAT-AGAATTAGTAGCTTTAATCTGCTCCACTGCAACTTT
1 AGGGAGATAAG-ATT-GTAGCTTTAATCTGCTCTACTGCAACTTC
* * * *
11181464 AGGGAGATAAGATTGGTA-TTTTCAGTATGCTCCACTGCAACTTC
1 AGGGAGATAAGATT-GTAGCTTT-AATCTGCTCTACTGCAACTTC
** * * * *
11181508 AGGGAGATAAGACTTGTAATTTTCGATCTACTCCACTACAACTTC
1 AGGGAGATAAGA-TTGTAGCTTT-AATCTGCTCTACTGCAACTTC
* * *
11181553 AGGGAGATAAGACTCGTA-ATTTCAACCTGCTCTACTGCAACTTC
1 AGGGAGATAAGA-TTGTAGCTTT-AATCTGCTCTACTGCAACTTC
** * * *
11181597 AGATAGATAAGTTTTATAGCTTTAATCTGCTCTACTGCAACTTT
1 AGGGAGATAAG-ATTGTAGCTTTAATCTGCTCTACTGCAACTTC
* * * * * *
11181641 AGAGAGATAAGATTTGCTATCTTTGATCTACTCCATTGCAACTTC
1 AGGGAGATAAGA-TTG-TAGCTTTAATCTGCTCTACTGCAACTTC
* * * * **
11181686 AGGGAGATAAGATCTATGGCTTTAATTTGCTCCACTATAACTTC
1 AGGGAGATAAGAT-TGTAGCTTTAATCTGCTCTACTGCAACTTC
*
11181730 AGAGAGATAAGATT
1 AGGGAGATAAGATT
11181744 TGCCATAATG
Statistics
Matches: 434, Mismatches: 80, Indels: 53
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 25 0.06
41 2 0.00
42 2 0.00
43 13 0.03
44 305 0.70
45 85 0.20
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (43 bp):
AGGGAGATAAGATTGTAGCTTTAATCTGCTCTACTGCAACTTC
Found at i:11181457 original size:128 final size:130
Alignment explanation
Indices: 11181170--11181518 Score: 367
Period size: 128 Copynumber: 2.7 Consensus size: 130
11181160 AGGGAGATAG
* * * * * *
11181170 GATTAGTAGCTTCAATCTGCTCTACTGTAACTTTAGAGG-TATAAGATT-G-ACATCTTCAACCT
1 GATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAG-GGAGATAAGATTGGTAC-T-TTCAATCT
* * *
11181232 GCTCTACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGA
63 GCTCCACTGCAACTTCAGGGAGATAAGGTTTATA--TTTAACCTGCTCTACTGCAAATTCAGAGA
*
11181297 GATAA
126 AATAA
* * *
11181302 GATTTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCT-GTGGCTTT-AATCTG
1 GATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-ACTTTCAATCTG
* *
11181365 CTCCACTGCAACTTCAGAGAGATAATGTTT-T-TTTAACCTGCTTCT-CTGCAAATTCA-AGGAA
64 CTCCACTGCAACTTCAGGGAGATAAGGTTTATATTTAACCTGC-TCTACTGCAAATTCAGA-GAA
11181426 AT-A
127 ATAA
* * * *
11181429 GAATTAGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATTTTCAGTATGC
1 G-ATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTACTTTCAATCTGC
11181494 TCCACTGCAACTTCAGGGAGATAAG
65 TCCACTGCAACTTCAGGGAGATAAG
11181519 ACTTGTAATT
Statistics
Matches: 184, Mismatches: 24, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
127 7 0.04
128 96 0.52
129 3 0.02
131 3 0.02
132 69 0.38
133 4 0.02
134 1 0.01
135 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (130 bp):
GATTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTACTTTCAATCTGCT
CCACTGCAACTTCAGGGAGATAAGGTTTATATTTAACCTGCTCTACTGCAAATTCAGAGAAATAA
Found at i:11181605 original size:89 final size:89
Alignment explanation
Indices: 11181444--11181607 Score: 220
Period size: 89 Copynumber: 1.8 Consensus size: 89
11181434 AGTAGCTTTA
* * * * * * **
11181444 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATTTTCAGTATGCTCCACTGCAACTTCA
1 ATCTACTCCACTACAACTTCAGGGAGATAAGACTCGTAATTTCAACATGCTCCACTGCAACTTCA
*
11181509 GGGAGATAAGACTTGTAATTTTCG
66 GAGAGATAAGACTTGTAATTTTCG
* *
11181533 ATCTACTCCACTACAACTTCAGGGAGATAAGACTCGTAATTTCAACCTGCTCTACTGCAACTTCA
1 ATCTACTCCACTACAACTTCAGGGAGATAAGACTCGTAATTTCAACATGCTCCACTGCAACTTCA
*
11181598 GATAGATAAG
66 GAGAGATAAG
11181608 TTTTATAGCT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
89 63 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (89 bp):
ATCTACTCCACTACAACTTCAGGGAGATAAGACTCGTAATTTCAACATGCTCCACTGCAACTTCA
GAGAGATAAGACTTGTAATTTTCG
Found at i:11181717 original size:133 final size:130
Alignment explanation
Indices: 11181160--11181745 Score: 458
Period size: 133 Copynumber: 4.5 Consensus size: 130
11181150 CTGTAATTTT
* * * * * *
11181160 AGGGAGATAGGAT-TAGTAGCTTCAATCTGCTCTACTGTAACTTTAGAG-GTATAAGA-TTGACA
1 AGGGAGATAAGATCTA-TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAG-ATAAGATTTG-TA
* * * * * * * * *
11181222 TCTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCA
63 GCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-TA-TTTTAATCTACTCCACTGCA
11181287 ACTTC
126 ACTTC
* * * * * * *
11181292 AGAGAGATAAGATTTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTGGCT
1 AGGGAGATAAGATCTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCT
* * * * *
11181357 TTAATCTGCTCCACTGCAACTTCAGAGAGAT-A-ATGTTT-TTTTAACCTGCTTCTCTGCAAATT
66 TTAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TTTATTTTAATCTACTCCACTGCAACTT
11181419 C
130 C
* * * * *
11181420 AAGGAAAT-AGAAT-TAGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTA-
1 AGGGAGATAAG-ATCTA-TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAG
* * * * * * *
11181482 TTTTCAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTTCGATCTACTCCACTAC
64 CTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TTATTTT-AATCTACTCCACTGC
11181547 AACTTC
125 AACTTC
* * * * *
11181553 AGGGAGATAAGACTCGTA-A--TTTCAACCTGCTCTACTGCAACTTCAGATAGATAAGTTTTATA
1 AGGGAGATAAGA-TC-TATAGCTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTA
* * * *
11181615 GCTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTTGATCTACTCCATTGC
63 GCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT--TAT-TTTAATCTACTCCACTGC
11181680 AACTTC
125 AACTTC
* * **
11181686 AGGGAGATAAGATCTATGGCTTTAATTTGCTCCACTATAACTTCAGAGAGATAAGATTTG
1 AGGGAGATAAGATCTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
11181746 CCATAATGAC
Statistics
Matches: 356, Mismatches: 73, Indels: 49
0.74 0.15 0.10
Matches are distributed among these distances:
127 6 0.02
128 93 0.26
129 1 0.00
130 4 0.01
131 8 0.02
132 83 0.23
133 146 0.41
134 13 0.04
136 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (130 bp):
AGGGAGATAAGATCTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCT
TTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTTATTTTAATCTACTCCACTGCAACTTC
Found at i:11190389 original size:13 final size:13
Alignment explanation
Indices: 11190367--11190399 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11190357 AAGGGTTTGT
11190367 TTAT-TAAACTAA
1 TTATCTAAACTAA
11190379 TTATCTAAACTAA
1 TTATCTAAACTAA
*
11190392 TTAACTAA
1 TTATCTAA
11190400 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:11194713 original size:40 final size:40
Alignment explanation
Indices: 11194658--11194739 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
11194648 TGACTAAACT
* *
11194658 AAGGGTGTACAGAGAGAAAATTGGGAAAAAGCTTTTGGGA
1 AAGGGTGCACAGAGAGAAAATTGAGAAAAAGCTTTTGGGA
11194698 AAGGGTGCACAGAGAGAAAATTGAGAAAAAGCTTTTGGGA
1 AAGGGTGCACAGAGAGAAAATTGAGAAAAAGCTTTTGGGA
11194738 AA
1 AA
11194740 ACTCGATTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.43, C:0.06, G:0.33, T:0.18
Consensus pattern (40 bp):
AAGGGTGCACAGAGAGAAAATTGAGAAAAAGCTTTTGGGA
Found at i:11199077 original size:16 final size:17
Alignment explanation
Indices: 11199045--11199077 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11199035 TTTGCAGTGT
11199045 GCCATATCTGTTACATG
1 GCCATATCTGTTACATG
*
11199062 GCCATAT-TGTTTCATG
1 GCCATATCTGTTACATG
11199078 AAGGCCTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (17 bp):
GCCATATCTGTTACATG
Found at i:11203998 original size:22 final size:21
Alignment explanation
Indices: 11203950--11203994 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11203940 CTAAAGTTTG
* *
11203950 AAATTATAAAAGAATATAAGT
1 AAATAATAAAAGAATATAAAT
11203971 AAATAATAAAACGAATA-AAAT
1 AAATAATAAAA-GAATATAAAT
11203992 AAA
1 AAA
11203995 ATAAGTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (21 bp):
AAATAATAAAAGAATATAAAT
Found at i:11216381 original size:15 final size:15
Alignment explanation
Indices: 11216351--11216391 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
11216341 ATGAGTCTTC
11216351 AAAAATAAATAGAAAAT
1 AAAAAT-AA-AGAAAAT
*
11216368 AAAAGTAAAGAAAAT
1 AAAAATAAAGAAAAT
11216383 AAAAATAAA
1 AAAAATAAA
11216392 ATGAGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 15 0.68
16 2 0.09
17 5 0.23
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAATAAAGAAAAT
Found at i:11231133 original size:50 final size:50
Alignment explanation
Indices: 11231058--11231234 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
11231048 CCATGGCAAC
*
11231058 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
11231108 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* *
11231158 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* **
11231208 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
11231235 CTGATTAGTG
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 97 0.81
51 23 0.19
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
Found at i:11231248 original size:31 final size:31
Alignment explanation
Indices: 11231210--11231420 Score: 305
Period size: 31 Copynumber: 6.8 Consensus size: 31
11231200 ACAAATGACA
*
11231210 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
11231241 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
** * *
11231272 AGTGAAAAGTGGTAGCTTCTACTGCCTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
11231303 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
11231334 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
11231365 AATGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
11231396 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
11231421 AAGTGACAAG
Statistics
Matches: 162, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 162 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:11231614 original size:49 final size:48
Alignment explanation
Indices: 11231442--11231611 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 48
11231432 AATTTCCGTA
* * * * *
11231442 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * *
11231489 TAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
*
11231535 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
* *
11231584 TAAGACCATAGCTGGGCTATGACATCGA
1 TAAGACCATAGCTGGGATATGGCATCGA
11231612 TATATGAAGA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
46 26 0.24
47 38 0.35
48 14 0.13
49 31 0.28
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:11240944 original size:17 final size:19
Alignment explanation
Indices: 11240910--11240946 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11240900 ATTATATTTC
11240910 AAAATATTAATTTGAATAA
1 AAAATATTAATTTGAATAA
11240929 AAAATATT-ATTT-AATAA
1 AAAATATTAATTTGAATAA
11240946 A
1 A
11240947 TTTTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATATTAATTTGAATAA
Found at i:11243420 original size:14 final size:14
Alignment explanation
Indices: 11243381--11243420 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11243371 ATGAATATGA
11243381 TAATATATTTTAATT
1 TAAT-TATTTTAATT
* *
11243396 TAATAAATTTAATT
1 TAATTATTTTAATT
11243410 TAATTATTTTA
1 TAATTATTTTA
11243421 TAGATCAACG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATTTTAATT
Found at i:11244336 original size:136 final size:136
Alignment explanation
Indices: 11244172--11244445 Score: 539
Period size: 136 Copynumber: 2.0 Consensus size: 136
11244162 TCGAGTCCAA
11244172 GTCGTGTTAATAGGGAGATAAAGGATAAAAATGATGATAATGAATAAGCATTTGAAATCCATGAA
1 GTCGTGTTAATAGGGAGATAAAGGATAAAAATGATGATAATGAATAAGCATTTGAAATCCATGAA
*
11244237 AATTTAAAATTGAACGTAAGATGTGGTATTCGATATTGAGATGGCAAATGGATAAGAAATAGAAG
66 AATTTAAAATTGAACGTAAGATGTGGTATTCGATATTGAGATGGAAAATGGATAAGAAATAGAAG
11244302 AAAAAT
131 AAAAAT
11244308 GTCGTGTTAATAGGGAGATAAAGGATAAAAATGATGATAATGAATAAGCATTTGAAATCCATGAA
1 GTCGTGTTAATAGGGAGATAAAGGATAAAAATGATGATAATGAATAAGCATTTGAAATCCATGAA
11244373 AATTTAAAATTGAACGTAAGATGTGGTATTCGATATTGAGATGGAAAATGGATAAGAAATAGAAG
66 AATTTAAAATTGAACGTAAGATGTGGTATTCGATATTGAGATGGAAAATGGATAAGAAATAGAAG
11244438 AAAAAT
131 AAAAAT
11244444 GT
1 GT
11244446 GAAATGAGAT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.27
Consensus pattern (136 bp):
GTCGTGTTAATAGGGAGATAAAGGATAAAAATGATGATAATGAATAAGCATTTGAAATCCATGAA
AATTTAAAATTGAACGTAAGATGTGGTATTCGATATTGAGATGGAAAATGGATAAGAAATAGAAG
AAAAAT
Found at i:11247375 original size:46 final size:45
Alignment explanation
Indices: 11247325--11247500 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 45
11247315 TGGTTGAGCA
11247325 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
11247371 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
11247416 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
11247464 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11247501 GCAGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 63 0.56
47 29 0.26
48 3 0.03
50 5 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:11247481 original size:93 final size:93
Alignment explanation
Indices: 11247322--11247493 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11247312 GGATGGTTGA
*
11247322 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
11247387 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
11247415 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
11247480 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11247494 CTTATGGGCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11254407 original size:46 final size:46
Alignment explanation
Indices: 11254357--11254532 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11254347 TGGTTGAGCA
11254357 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11254403 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11254448 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11254496 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11254533 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11254513 original size:93 final size:93
Alignment explanation
Indices: 11254354--11254525 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11254344 GGATGGTTGA
* *
11254354 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11254419 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11254447 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11254512 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11254526 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11255990 original size:90 final size:89
Alignment explanation
Indices: 11255837--11256017 Score: 263
Period size: 90 Copynumber: 2.0 Consensus size: 89
11255827 GGGCGTTACA
* * * * * *
11255837 AGTGTTGTAGATTAATACATTGCCAGATGGTTGTGAATGTAGAACGTATTTGCATATAAGAGCTG
1 AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
*
11255902 CCAAAAAATGGGTTGATGAACCACC
66 CC-AAAAATGGGTGGATGAACCACC
*
11255927 AGTGTTATAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
1 AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
**
11255992 CCAAAAATTTGTGGATGAACCACC
66 CCAAAAATGGGTGGATGAACCACC
11256016 AG
1 AG
11256018 AGTTGCAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 21 0.26
90 60 0.74
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (89 bp):
AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
CCAAAAATGGGTGGATGAACCACC
Found at i:11256039 original size:90 final size:90
Alignment explanation
Indices: 11255848--11256043 Score: 234
Period size: 90 Copynumber: 2.2 Consensus size: 90
11255838 GTGTTGTAGA
* * * * * *
11255848 TTAATACATTGCCAGATGGTTGTGAATGTAGAACGTATTTGCATATAAGAGCTGCCAAAAAATGG
1 TTAATAAACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGG
* * *
11255913 GTTGATGAACCACCAGTGTTATAGG
66 GTGGATGAACCACCAGAGTTATAAG
* **
11255938 TTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCC-AAAAATTT
1 TTAATAAACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGG
*
11256002 GTGGATGAACCACCAGAGTTGCA-AAT
66 GTGGATGAACCACCAGAGTT--ATAAG
*
11256028 TTATTAAACTGCCAGA
1 TTAATAAACTGCCAGA
11256044 ACTTCTTCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 24 0.26
90 66 0.73
91 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (90 bp):
TTAATAAACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGG
GTGGATGAACCACCAGAGTTATAAG
Found at i:11256329 original size:15 final size:15
Alignment explanation
Indices: 11256309--11256338 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11256299 GTAATAAATC
11256309 AGACAATCAGATCAT
1 AGACAATCAGATCAT
11256324 AGACAATCAGATCAT
1 AGACAATCAGATCAT
11256339 GCATTCCAAT
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:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
AGACAATCAGATCAT
Found at i:11258845 original size:30 final size:30
Alignment explanation
Indices: 11258811--11258867 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11258801 AATTGTTTTT
11258811 AAAATATT-C-ATTTAGTTCACCTAAATTATG
1 AAAATATTGCAATTTAG-TCA-CTAAATTATG
*
11258841 AAAATTTTGCAATTTAGTCACTAAATT
1 AAAATATTGCAATTTAGTCACTAAATT
11258868 TTATAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 14 0.58
31 4 0.17
32 6 0.25
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (30 bp):
AAAATATTGCAATTTAGTCACTAAATTATG
Found at i:11260982 original size:35 final size:33
Alignment explanation
Indices: 11260942--11261023 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 33
11260932 TACTTTAGCC
11260942 ATTTATTTTTCTTGAAATTTAATTTAATT-TTTATT-
1 ATTTATTTTTCTT-AAATTT--TTT-ATTATTTATTA
* *
11260977 ATTTATTTTTAATTTAATTTTTTATTATTTATTA
1 ATTTATTTTT-CTTAAATTTTTTATTATTTATTA
11261011 ATTTATTTTTCTT
1 ATTTATTTTTCTT
11261024 TCTCTTGGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 3 0.07
33 11 0.27
34 10 0.24
35 15 0.37
36 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (33 bp):
ATTTATTTTTCTTAAATTTTTTATTATTTATTA
Found at i:11260984 original size:23 final size:23
Alignment explanation
Indices: 11260958--11261020 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 23
11260948 TTTTCTTGAA
11260958 ATTTAATTTAATTTTTATTATTT
1 ATTTAATTTAATTTTTATTATTT
11260981 ATTTTTAATTTAATTTTTTATTATTT
1 A--TTTAATTTAA-TTTTTATTATTT
11261007 A-TTAATTT-ATTTTT
1 ATTTAATTTAATTTTT
11261021 CTTTCTCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.14
22 1 0.03
23 8 0.22
25 10 0.27
26 13 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
ATTTAATTTAATTTTTATTATTT
Found at i:11260991 original size:25 final size:26
Alignment explanation
Indices: 11260959--11261009 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
11260949 TTTCTTGAAA
11260959 TTTAATTTAA-TTTTTATTATTTATT
1 TTTAATTTAATTTTTTATTATTTATT
11260984 TTTAATTTAATTTTTTATTATTTATT
1 TTTAATTTAATTTTTTATTATTTATT
11261010 AATTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTAATTTAATTTTTTATTATTTATT
Found at i:11260992 original size:30 final size:33
Alignment explanation
Indices: 11260957--11261020 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
11260947 TTTTTCTTGA
11260957 AATTTAA-TTTAATT-TTTATT-ATTTATTTTT
1 AATTTAATTTTAATTATTTATTAATTTATTTTT
*
11260987 AATTTAATTTTTTATTATTTATTAATTTATTTTT
1 AATTTAA-TTTTAATTATTTATTAATTTATTTTT
11261021 CTTTCTCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 7 0.24
32 6 0.21
33 6 0.21
34 10 0.34
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (33 bp):
AATTTAATTTTAATTATTTATTAATTTATTTTT
Found at i:11267873 original size:46 final size:46
Alignment explanation
Indices: 11267823--11267995 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
11267813 TGGTTGAGCA
*
11267823 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
11267869 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
11267916 TCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
11267962 CCCGAGCCCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
11267996 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:11267979 original size:93 final size:93
Alignment explanation
Indices: 11267820--11267991 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
11267810 GGATGGTTGA
* * *
11267820 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACCCGTTGAGT
11267885 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * * *
11267913 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCCCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACCCGTTGAGT
11267978 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
11267992 CTTAGGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACCCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:11268257 original size:19 final size:20
Alignment explanation
Indices: 11268220--11268257 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
11268210 ATAAGGTGGT
11268220 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
11268240 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
11268258 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:11279506 original size:19 final size:17
Alignment explanation
Indices: 11279459--11279506 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
11279449 ATGCCATTTT
11279459 GGGTCATGTGGGCCACAC
1 GGGT-ATGTGGGCCACAC
*
11279477 GGGTGTGTGGGCCACAC
1 GGGTATGTGGGCCACAC
11279494 GGGCATATGTGGG
1 GGG--TATGTGGG
11279507 TCATGTGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 15 0.58
18 4 0.15
19 7 0.27
ACGTcount: A:0.15, C:0.21, G:0.46, T:0.19
Consensus pattern (17 bp):
GGGTATGTGGGCCACAC
Found at i:11280976 original size:17 final size:17
Alignment explanation
Indices: 11280954--11280986 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11280944 TCCAGGGACT
11280954 AAAATTGAAGGCAAAAG
1 AAAATTGAAGGCAAAAG
*
11280971 AAAATTTAAGGCAAAA
1 AAAATTGAAGGCAAAA
11280987 AGCTCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (17 bp):
AAAATTGAAGGCAAAAG
Found at i:11281167 original size:10 final size:10
Alignment explanation
Indices: 11281152--11281191 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
11281142 ATTTATTATC
11281152 ATTTATCTTT
1 ATTTATCTTT
*
11281162 AATTATCTTT
1 ATTTATCTTT
11281172 ATTTAT-TTGT
1 ATTTATCTT-T
11281182 ATTTATCTTT
1 ATTTATCTTT
11281192 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:11284203 original size:30 final size:30
Alignment explanation
Indices: 11284162--11284224 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11284152 ACTTATTTTA
*
11284162 TTGTTACTTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
11284192 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11284222 TTG
1 TTG
11284225 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11285353 original size:2 final size:2
Alignment explanation
Indices: 11285346--11285389 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
11285336 ACTTTTTCAT
*
11285346 TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11285388 TC
1 TC
11285390 GCCGTGCCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11287177 original size:3 final size:3
Alignment explanation
Indices: 11287169--11287200 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11287159 TCTCCAACAA
11287169 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11287201 CATTTTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11287330 original size:17 final size:17
Alignment explanation
Indices: 11287304--11287338 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11287294 CAATAATTTT
* *
11287304 ATTTTTTAAAATTATAA
1 ATTTTATAAAAATATAA
11287321 ATTTTATAAAAATATAA
1 ATTTTATAAAAATATAA
11287338 A
1 A
11287339 ACATATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTATAAAAATATAA
Found at i:11292578 original size:59 final size:60
Alignment explanation
Indices: 11292515--11292638 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 60
11292505 CGGCGGAATT
* * *
11292515 AAAATTC-TGAAACAAAATCAAAATCAATTTTGTTAAACGGCAGGACTAAATCCCGAAAC
1 AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
* ** * *
11292574 AAAA-TCATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCTCGAAAC
1 AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
*
11292633 AGAATT
1 AAAATT
11292639 ATTTGATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
58 2 0.04
59 51 0.94
60 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (60 bp):
AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
Found at i:11292702 original size:83 final size:85
Alignment explanation
Indices: 11292606--11292782 Score: 216
Period size: 85 Copynumber: 2.1 Consensus size: 85
11292596 ATAAATTCTG
* * * *
11292606 TTAAACGGCGGGAATAAATCTCGAAACAGA-ATTATTT-GATTAAGTCTTCATTTGGAAA-CAAA
1 TTAAACGGCGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTC-TAATTTGGAAATAAAA
* *
11292668 TTAATATTGAATAAAATCTTC
65 TTAAAATCGAATAAAATCTTC
* * * *
11292689 TTAAACGGTGGGAATAAATCCCGAAACATATTTTATTTAAATTAATTCTAATTTGGAAATAAAAT
1 TTAAACGGCGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTCTAATTTGGAAATAAAAT
*
11292754 TAAAATCGAATAAAATCTTG
66 TAAAATCGAATAAAATCTTC
*
11292774 TTAATCGGC
1 TTAAACGGC
11292783 CGAAATAGAT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
83 27 0.35
84 16 0.21
85 35 0.45
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (85 bp):
TTAAACGGCGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTCTAATTTGGAAATAAAAT
TAAAATCGAATAAAATCTTC
Found at i:11293153 original size:14 final size:14
Alignment explanation
Indices: 11293134--11293180 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
11293124 GTTAGCGGAC
*
11293134 AAATAAATAAATAT
1 AAATAAATATATAT
11293148 AAATAAACT-TATAT
1 AAATAAA-TATATAT
11293162 AAAATAAA-ATATAT
1 -AAATAAATATATAT
11293176 AAATA
1 AAATA
11293181 GAATGATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATATATAT
Found at i:11296096 original size:40 final size:40
Alignment explanation
Indices: 11296047--11296232 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
11296037 GATATATTAA
* *
11296047 ATATTCGGGTTAAATCCTGCAGGCTTCATGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* *
11296087 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* * * *
11296127 ATATCTGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATTT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* *
11296167 ATATCTGGGTTAAATCCCGCAGGCTT-AGTGCTGGT-A-CT
1 ATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAATGT
*
11296205 ATATCCGGGCTTAAAGTTCCGCAGGCTT
1 ATATCCGGG-TTAAA-TCCCGCAGGCTT
11296233 TCAGCTAGTA
Statistics
Matches: 130, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 9 0.07
39 6 0.05
40 115 0.88
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
Found at i:11297613 original size:18 final size:18
Alignment explanation
Indices: 11297590--11297629 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
11297580 CTGTGCATCC
11297590 TTAGTTTAGTTAATTAGT
1 TTAGTTTAGTTAATTAGT
11297608 TTAGTTTAGTTAATTAGT
1 TTAGTTTAGTTAATTAGT
11297626 TTAG
1 TTAG
11297630 ATAAACAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (18 bp):
TTAGTTTAGTTAATTAGT
Found at i:11300533 original size:45 final size:45
Alignment explanation
Indices: 11300467--11300598 Score: 167
Period size: 45 Copynumber: 2.9 Consensus size: 45
11300457 AGCTATTCGC
* *
11300467 CTAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCAGGA
1 CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
* *
11300512 -TAAAAATGAGTAAGATTATAGCTGAAAGACGCTATGGCATCATGA
1 CT-AAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
** * * *
11300557 CTGGAATTAGTAAGATCATAACTGAAAGACACTATGGCATCA
1 CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCA
11300599 TATGGAAGCA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
44 1 0.01
45 73 0.97
46 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (45 bp):
CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
Found at i:11300833 original size:27 final size:27
Alignment explanation
Indices: 11300752--11300903 Score: 97
Period size: 27 Copynumber: 5.6 Consensus size: 27
11300742 AGTCCACAGG
* ** *
11300752 GACACTAGACAAAGGAAGGTATGTCAG
1 GACACTAGACAAAGGGAGGTCCGTCAA
* ** * **
11300779 GACACTAAACATGGGGAAGTCCACCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
**
11300806 GACACTAGACAAAGGGAGGTTTGTCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
* **
11300833 GACACTAGATAAAATGAGGTCCGTCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
* ** * ***
11300860 GACACTAAACATGGGGATGTCCGTTGG
1 GACACTAGACAAAGGGAGGTCCGTCAA
*
11300887 GACACTAGACAAGGGGA
1 GACACTAGACAAAGGGA
11300904 AGCCAAGGTT
Statistics
Matches: 90, Mismatches: 35, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.38, C:0.18, G:0.28, T:0.16
Consensus pattern (27 bp):
GACACTAGACAAAGGGAGGTCCGTCAA
Found at i:11304085 original size:43 final size:43
Alignment explanation
Indices: 11303986--11304108 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
11303976 ATCGAGATGT
* * * * * *
11303986 GATTACATGTAAGACCATCTCTGGGACATTGGCATTGTATTGA
1 GATTACGTATAAGACCATGTCTGGGACATTAGCATCGTAATGA
* * *
11304029 GATTACGTGTAAGACCATGTCTGGGACATTTGCATCGTTAAT-C
1 GATTACGTATAAGACCATGTCTGGGACATTAGCATCG-TAATGA
* *
11304072 GATTTCGTATAAGACTC-TGTCTGGGACAGTAGCATCG
1 GATTACGTATAAGAC-CATGTCTGGGACATTAGCATCG
11304109 ATATGTGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 64 0.94
44 4 0.06
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACGTATAAGACCATGTCTGGGACATTAGCATCGTAATGA
Found at i:11304818 original size:25 final size:25
Alignment explanation
Indices: 11304788--11304837 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
11304778 ATTAGTTGAT
11304788 ATATTAATGCTTGAGAAATGGTATA
1 ATATTAATGCTTGAGAAATGGTATA
*
11304813 ATATTAATGCTTGATAAATGGTATA
1 ATATTAATGCTTGAGAAATGGTATA
11304838 TTTTGATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (25 bp):
ATATTAATGCTTGAGAAATGGTATA
Found at i:11312783 original size:24 final size:26
Alignment explanation
Indices: 11312756--11312803 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
11312746 AGCTCCAATG
11312756 AGCTGA-A-AACAATAAGCTCTTACA
1 AGCTGATATAACAATAAGCTCTTACA
* *
11312780 AGCTGATATATCAGTAAGCTCTTA
1 AGCTGATATAACAATAAGCTCTTA
11312804 TGAGCTGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 1 0.05
26 13 0.65
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (26 bp):
AGCTGATATAACAATAAGCTCTTACA
Found at i:11312809 original size:26 final size:24
Alignment explanation
Indices: 11312639--11312810 Score: 90
Period size: 23 Copynumber: 7.3 Consensus size: 24
11312629 AAGATCCTCC
* *
11312639 TGAGCTGATGAACAGTAAGCTCTAA
1 TGAGCTGA-AAACAGTAAGCTCTTA
**
11312664 TGAGCTG-AAAGGGTAAGCTC-TA
1 TGAGCTGAAAACAGTAAGCTCTTA
* *
11312686 TTGAGCTG--TACAGTAAGCTCATA
1 -TGAGCTGAAAACAGTAAGCTCTTA
** *
11312709 CAAGCTGAATA-A-TAAGCT-TATA
1 TGAGCTGAAAACAGTAAGCTCT-TA
* * **
11312731 CGAGCTG-AAACGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTTA
*
11312754 TGAGCTGAAAACAATAAGCTCTTA
1 TGAGCTGAAAACAGTAAGCTCTTA
** *
11312778 CAAGCTGATATATCAGTAAGCTCTTA
1 TGAGCTGA-A-AACAGTAAGCTCTTA
11312804 TGAGCTG
1 TGAGCTG
11312811 TGGTGAGTCC
Statistics
Matches: 110, Mismatches: 26, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
21 2 0.02
22 29 0.26
23 33 0.30
24 20 0.18
25 8 0.07
26 18 0.16
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTTA
Found at i:11318937 original size:27 final size:27
Alignment explanation
Indices: 11318897--11318963 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
11318887 AATTTGTCAT
*
11318897 AAAAGC-ATTCCTTTCAGA-TTTCGCCAC
1 AAAAGCTATT-CTTTCAAAGTTT-GCCAC
* *
11318924 AAAGGTTATTCTTTCAAAGTTTGCCAC
1 AAAAGCTATTCTTTCAAAGTTTGCCAC
11318951 AAAAGCTATTCTT
1 AAAAGCTATTCTT
11318964 AGTTGTCGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (27 bp):
AAAAGCTATTCTTTCAAAGTTTGCCAC
Found at i:11326856 original size:16 final size:14
Alignment explanation
Indices: 11326835--11326870 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
11326825 TTTTAATTTG
11326835 TAAAAATTAAATCAAA
1 TAAAAATTAAAT--AA
11326851 TAAAAATTAAATAA
1 TAAAAATTAAATAA
11326865 TAAAAA
1 TAAAAA
11326871 CAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAAAATTAAATAA
Found at i:11326924 original size:24 final size:24
Alignment explanation
Indices: 11326895--11326959 Score: 130
Period size: 24 Copynumber: 2.7 Consensus size: 24
11326885 CATTATCCAT
11326895 ATTGCATATTGAATTCAACCGGAC
1 ATTGCATATTGAATTCAACCGGAC
11326919 ATTGCATATTGAATTCAACCGGAC
1 ATTGCATATTGAATTCAACCGGAC
11326943 ATTGCATATTGAATTCA
1 ATTGCATATTGAATTCA
11326960 TATTTCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (24 bp):
ATTGCATATTGAATTCAACCGGAC
Found at i:11330864 original size:3 final size:3
Alignment explanation
Indices: 11330856--11330893 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
11330846 GAAGAAACAA
*
11330856 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11330894 GCTTAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11334649 original size:17 final size:17
Alignment explanation
Indices: 11334619--11334676 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
11334609 ATTTATAATA
11334619 ATTTTAATAATTTTCTAT
1 ATTTTAA-AATTTTCTAT
*
11334637 ATTTTAAAATTTTCCAT
1 ATTTTAAAATTTTCTAT
11334654 ATTTTTAAAATTTT-TAT
1 A-TTTTAAAATTTTCTAT
11334671 -TTTTAA
1 ATTTTAA
11334677 TTCATATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
15 6 0.16
17 12 0.32
18 19 0.51
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTAAAATTTTCTAT
Found at i:11334673 original size:15 final size:15
Alignment explanation
Indices: 11334620--11334744 Score: 71
Period size: 15 Copynumber: 7.9 Consensus size: 15
11334610 TTTATAATAA
11334620 TTTTAATAATTTTCTAT
1 TTTTAA-AATTTT-TAT
11334637 ATTTTAAAATTTTCCATAT
1 -TTTTAAAATTTT---TAT
11334656 TTTTAAAATTTTTAT
1 TTTTAAAATTTTTAT
*
11334671 TTTT--AATTCATATAT
1 TTTTAAAATT--TTTAT
*
11334686 TTTTTAAATTTTTAT
1 TTTTAAAATTTTTAT
*
11334701 TTTT--AATTCATATAAT
1 TTTTAAAATT--T-TTAT
*
11334717 TTTTATAATTTTTA-
1 TTTTAAAATTTTTAT
11334731 TTTTAATAATTTTT
1 TTTTAA-AATTTTT
11334745 TAATTTTTGA
Statistics
Matches: 89, Mismatches: 6, Indels: 27
0.73 0.05 0.22
Matches are distributed among these distances:
13 8 0.09
14 5 0.06
15 33 0.37
16 8 0.09
17 10 0.11
18 22 0.25
19 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTAAAATTTTTAT
Found at i:11334687 original size:30 final size:30
Alignment explanation
Indices: 11334652--11334734 Score: 139
Period size: 30 Copynumber: 2.7 Consensus size: 30
11334642 AAAATTTTCC
11334652 ATATTTTTAAAATTTTTATTTTTAATTCAT
1 ATATTTTTAAAATTTTTATTTTTAATTCAT
*
11334682 ATATTTTTTAAATTTTTATTTTTAATTCAT
1 ATATTTTTAAAATTTTTATTTTTAATTCAT
*
11334712 ATAATTTTTATAATTTTTATTTT
1 AT-ATTTTTAAAATTTTTATTTT
11334735 AATAATTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 31 0.63
31 18 0.37
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
ATATTTTTAAAATTTTTATTTTTAATTCAT
Found at i:11334689 original size:16 final size:16
Alignment explanation
Indices: 11334670--11334726 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
11334660 AAAATTTTTA
11334670 TTTTTAATTCATATAT
1 TTTTTAATTCATATAT
*
11334686 TTTTTAAATT--TTTA-
1 TTTTT-AATTCATATAT
11334700 TTTTTAATTCATATAAT
1 TTTTTAATTCATAT-AT
11334717 TTTTATAATT
1 TTTT-TAATT
11334727 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
13 4 0.12
14 5 0.15
15 5 0.15
16 6 0.18
17 8 0.24
18 5 0.15
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTAATTCATATAT
Found at i:11334748 original size:23 final size:24
Alignment explanation
Indices: 11334694--11334780 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 24
11334684 ATTTTTTAAA
11334694 TTTTT-ATTTTTAATTCATATAAT
1 TTTTTAATTTTTAATTCATATAAT
* *
11334717 TTTTATAATTTTTATTTTA-ATAAT
1 TTTT-TAATTTTTAATTCATATAAT
* *
11334741 TTTTTAATTTTTGAGTCATTTATAAT
1 TTTTTAATTTTTAATTCA--TATAAT
11334767 ATTTTTAAATTTTT
1 -TTTTT-AATTTTT
11334781 TTTACACTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 14 0.27
24 10 0.20
25 10 0.20
26 5 0.10
27 5 0.10
28 7 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTTAATTTTTAATTCATATAAT
Found at i:11336770 original size:12 final size:11
Alignment explanation
Indices: 11336753--11336783 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
11336743 CCTTAACTGG
11336753 TTTTTTTTAAT
1 TTTTTTTTAAT
11336764 TTTTTTTTAAT
1 TTTTTTTTAAT
11336775 TTTTTTTTA
1 TTTTTTTTA
11336784 GTTATTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTAAT
Found at i:11341392 original size:20 final size:20
Alignment explanation
Indices: 11341367--11341412 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11341357 TCCTTAAATT
*
11341367 ATTTTATTTATAAGATTATA
1 ATTTTATTTATAAAATTATA
*
11341387 ATTTTATTTATAAAATTATT
1 ATTTTATTTATAAAATTATA
11341407 ATTTTA
1 ATTTTA
11341413 ATAACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTATTTATAAAATTATA
Found at i:11341877 original size:20 final size:19
Alignment explanation
Indices: 11341829--11341879 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11341819 GAAATGAGAG
* *
11341829 AAAATTATATAAAATAATT
1 AAAATTATAAAAAAAAATT
*
11341848 AAAATGATAAAAAAAAATCT
1 AAAATTATAAAAAAAAAT-T
*
11341868 ACAATTATAAAA
1 AAAATTATAAAA
11341880 TCTTATTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATTATAAAAAAAAATT
Found at i:11344536 original size:20 final size:21
Alignment explanation
Indices: 11344499--11344545 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
11344489 GATATAATGA
*
11344499 ATTTATAAAAAAGAAAATAAT
1 ATTTTTAAAAAAGAAAATAAT
* *
11344520 ATTTTTAAAAAA-TAAATTAT
1 ATTTTTAAAAAAGAAAATAAT
11344540 ATTTTT
1 ATTTTT
11344546 GAAAGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTTTAAAAAAGAAAATAAT
Found at i:11344842 original size:42 final size:42
Alignment explanation
Indices: 11344796--11344882 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
11344786 TCAAGTGCAC
* * *
11344796 TGAAGTGCATTATCCTCCTATTTAAGAGTTGGGGAGGGGTTA
1 TGAAGCGCATTATCCTCCTATTTAAGAGTTGGAGAGGAGTTA
11344838 TGAAGCGCATTATCCTCCTATTTAAGAGTTGGAGAGGAGTTA
1 TGAAGCGCATTATCCTCCTATTTAAGAGTTGGAGAGGAGTTA
11344880 TGA
1 TGA
11344883 GTAATTATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (42 bp):
TGAAGCGCATTATCCTCCTATTTAAGAGTTGGAGAGGAGTTA
Found at i:11350943 original size:15 final size:16
Alignment explanation
Indices: 11350901--11350946 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
11350891 TTATAGACAA
11350901 AATAATAGTAATAATAT
1 AATAATAG-AATAATAT
11350918 AA-AACTA-AATAAT-T
1 AATAA-TAGAATAATAT
11350932 AATAATAGAATAATA
1 AATAATAGAATAATA
11350947 AAGTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 2 0.08
17 4 0.16
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (16 bp):
AATAATAGAATAATAT
Found at i:11352070 original size:26 final size:25
Alignment explanation
Indices: 11352027--11352087 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
11352017 TTTAAATTTT
11352027 AAAATTATATTTAATATAATAT-AATA
1 AAAATTAT-TTTAATAT-ATATCAATA
* *
11352053 AAAATTATTTTAATTATATTTCATTA
1 AAAATTATTTTAA-TATATATCAATA
11352079 AAAATTATT
1 AAAATTATT
11352088 GAACTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAATTATTTTAATATATATCAATA
Found at i:11352095 original size:25 final size:28
Alignment explanation
Indices: 11352050--11352107 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
11352040 ATATAATATA
* *
11352050 ATAAAAATTATTTTAATTATATT-TCAT
1 ATAAAAATTATTTGAACTATATTATCAT
11352077 -TAAAAATTA-TTGAACTATATTATCAT
1 ATAAAAATTATTTGAACTATATTATCAT
11352103 ATAAA
1 ATAAA
11352108 TTCGATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 10 0.37
26 13 0.48
27 4 0.15
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
ATAAAAATTATTTGAACTATATTATCAT
Found at i:11359656 original size:125 final size:124
Alignment explanation
Indices: 11359394--11359625 Score: 290
Period size: 125 Copynumber: 1.9 Consensus size: 124
11359384 AATTAGAGTG
* * * * *
11359394 CATTTGATATTCTTAATCTAATGTATTTATCTATTTAAATTTCTTTTTACTCATAATTTAAATTA
1 CATTTAATATTATTAATCTAATGTATTTACCTATTTAAATTTCTTTTTACTCACAATATAAATTA
** * * * *
11359459 TTTTTTATTTTAAGTTCCTACGTATTACATATGTGTTGTTATTATTAATCTCACAACTTA
66 TTTTTTATTTTAAGTTAATACATATTA-ATATGTATTATTATTATTAAACTCACAACTTA
11359519 CATTTAATATTATTAATCTAATGTATTTACCTATTTAAATTT-TTCTTTACTCACAATATAAATT
1 CATTTAATATTATTAATCTAATGTATTTACCTATTTAAATTTCTT-TTTACTCACAATATAAATT
* * *
11359583 ATTTTTTATTTTCA-TATAATATATATT-GTATGTATTATTATTA
65 ATTTTTTATTTTAAGT-TAATACATATTAATATGTATTATTATTA
11359626 GATTTAAACT
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
123 13 0.14
124 3 0.03
125 76 0.83
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.53
Consensus pattern (124 bp):
CATTTAATATTATTAATCTAATGTATTTACCTATTTAAATTTCTTTTTACTCACAATATAAATTA
TTTTTTATTTTAAGTTAATACATATTAATATGTATTATTATTATTAAACTCACAACTTA
Found at i:11360012 original size:22 final size:21
Alignment explanation
Indices: 11359974--11360014 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11359964 CACTACTACA
11359974 AATTAAAAGAAAAATAATAAT
1 AATTAAAAGAAAAATAATAAT
* *
11359995 AATTTAAATAAAAGATAATA
1 AATTAAAAGAAAA-ATAATA
11360015 GCCCAACAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (21 bp):
AATTAAAAGAAAAATAATAAT
Found at i:11361407 original size:5 final size:5
Alignment explanation
Indices: 11361388--11361427 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
11361378 CTTTTGTCGT
11361388 TTTTA -TTTA -TTTA TTTTA TTTTA TTTTA -TTTA TTATTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TT
11361428 AACTTTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 12 0.38
5 15 0.47
6 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:11361494 original size:22 final size:22
Alignment explanation
Indices: 11361435--11361503 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
11361425 ATTAACTTTA
11361435 AAAATTTTGAAATATATA-TTTG
1 AAAATTTT-AAATATATATTTTG
*
11361457 AAATATTTTATTAATATATATTTTT
1 AAA-ATTTTA--AATATATATTTTG
*
11361482 TAAATTTTAAATATATATTTTG
1 AAAATTTTAAATATATATTTTG
11361504 GAATTACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 16 0.40
23 5 0.12
24 14 0.35
25 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
AAAATTTTAAATATATATTTTG
Found at i:11361536 original size:22 final size:23
Alignment explanation
Indices: 11361506--11361549 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11361496 ATATTTTGGA
*
11361506 ATTACTTTTTTAA-ATTTTAAAT
1 ATTACTTTTTAAATATTTTAAAT
*
11361528 ATTATTTTTTAAATATTTTAAA
1 ATTACTTTTTAAATATTTTAAA
11361550 CTTTCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTACTTTTTAAATATTTTAAAT
Found at i:11361618 original size:21 final size:21
Alignment explanation
Indices: 11361577--11361618 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11361567 AGTTTTATAA
*
11361577 TAATTTAAATATTATTTAATT
1 TAATTTAAATATTATTAAATT
11361598 TAATTTATAATATT-TTAAATT
1 TAATTTA-AATATTATTAAATT
11361619 ATGATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTAAATATTATTAAATT
Found at i:11361627 original size:14 final size:15
Alignment explanation
Indices: 11361596--11361634 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
11361586 TATTATTTAA
*
11361596 TTTAATTTATAATAT
1 TTTAAATTATAATAT
*
11361611 TTTAAATTATGAT-T
1 TTTAAATTATAATAT
11361625 TTTAAATTAT
1 TTTAAATTAT
11361635 TTTTAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTAAATTATAATAT
Done.