Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 81 of 325
Found at i:27784762 original size:18 final size:17
Alignment explanation
Indices: 27784736--27784776 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
27784726 CTGCTTCTGA
*
27784736 TTTTTTTTACTTTTGTC
1 TTTTTTTTAATTTTGTC
*
27784753 TTTTTCTTTAATTTTTTC
1 TTTTT-TTTAATTTTGTC
27784771 TTTTTT
1 TTTTTT
27784777 AAGTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTTTTAATTTTGTC
Found at i:27784872 original size:23 final size:22
Alignment explanation
Indices: 27784835--27784895 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 22
27784825 TTTTGTTCTT
27784835 AATTTTAAA-A-A-ATTTGAAA
1 AATTTTAAATATATATTTGAAA
** *
27784854 TGTTTTATAATATATATTTTTAAA
1 AATTTTA-AATATATA-TTTGAAA
27784878 AATTTTAAATATATATTT
1 AATTTTAAATATATATTT
27784896 TTGGAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 5 0.16
20 2 0.06
21 1 0.03
22 4 0.12
23 9 0.28
24 11 0.34
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
AATTTTAAATATATATTTGAAA
Found at i:27784917 original size:36 final size:35
Alignment explanation
Indices: 27784868--27784973 Score: 151
Period size: 36 Copynumber: 3.0 Consensus size: 35
27784858 TTATAATATA
* *
27784868 TATTTTTAAAAATTTTAAATATATATTTTTGGAAT
1 TATTTTTATAAATTTTAAATATATATTTTTGAAAT
*
27784903 TATTTCTTATAAATTTTAAAAATATATTTTTGAAAT
1 TATTT-TTATAAATTTTAAATATATATTTTTGAAAT
*
27784939 TAATTTTTATAAATTTTAAATAT-TATTTTTTAAAT
1 T-ATTTTTATAAATTTTAAATATATATTTTTGAAAT
27784974 ATTAAATATT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 16 0.25
36 44 0.69
37 4 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (35 bp):
TATTTTTATAAATTTTAAATATATATTTTTGAAAT
Found at i:27784959 original size:21 final size:21
Alignment explanation
Indices: 27784930--27785006 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
27784920 AAAAATATAT
27784930 TTTTGAAATTAATTTTTATAAA
1 TTTT-AAATTAATTTTTATAAA
*
27784952 TTTTAAATATTATTTTT-TAAA
1 TTTTAAAT-TAATTTTTATAAA
* *
27784973 TATTAAA-TATTTTTTAATAATA
1 TTTTAAATTAATTTTT-ATAA-A
*
27784995 TTTAATAATTAA
1 TTTTA-AATTAA
27785007 AATTTTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 6 0.14
21 17 0.40
22 15 0.36
23 2 0.05
24 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
TTTTAAATTAATTTTTATAAA
Found at i:27785278 original size:21 final size:23
Alignment explanation
Indices: 27785254--27785304 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
27785244 TTTCATATTA
27785254 TTAAAAAAAT-ATATTT--AATT
1 TTAAAAAAATAATATTTAAAATT
*
27785274 TTTAAAAAATAATATTTAAAATT
1 TTAAAAAAATAATATTTAAAATT
27785297 TTAAAAAA
1 TTAAAAAA
27785305 TTAGTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
23 11 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAAAAAAATAATATTTAAAATT
Found at i:27785287 original size:23 final size:22
Alignment explanation
Indices: 27785257--27785305 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
27785247 CATATTATTA
*
27785257 AAAAAAT-ATATTT-AATTTTT
1 AAAAAATAATATTTAAAATTTT
27785277 AAAAAATAATATTTAAAATTTT
1 AAAAAATAATATTTAAAATTTT
27785299 AAAAAAT
1 AAAAAAT
27785306 TAGTTTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
21 6 0.23
22 13 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAAATAATATTTAAAATTTT
Found at i:27785316 original size:22 final size:21
Alignment explanation
Indices: 27785257--27785366 Score: 78
Period size: 20 Copynumber: 5.5 Consensus size: 21
27785247 CATATTATTA
*
27785257 AAAAAATATATTT-AATTTTT
1 AAAAAATATATTTAAAATTTT
27785277 AAAAAATAATATTTAAAATTTT
1 AAAAAAT-ATATTTAAAATTTT
*
27785299 AAAAAAT-TAGTTT--CA----
1 AAAAAATATA-TTTAAAATTTT
*
27785314 AAAATATATATTTAAAA-TTT
1 AAAAAATATATTTAAAATTTT
*
27785334 AAAAAACA-ATTTTAAAATTTT
1 AAAAAATATA-TTTAAAATTTT
27785355 AAAAAAATATAT
1 -AAAAAATATAT
27785367 ATTATAAAAC
Statistics
Matches: 70, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
15 9 0.13
16 2 0.03
17 1 0.01
19 2 0.03
20 22 0.31
21 12 0.17
22 21 0.30
23 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (21 bp):
AAAAAATATATTTAAAATTTT
Found at i:27785487 original size:21 final size:22
Alignment explanation
Indices: 27785463--27785512 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
27785453 CTTAAAAAAA
*
27785463 GAAAAAAAATTAAAGAAAA-TT
1 GAAAAAAAATTAAAAAAAAGTT
**
27785484 GAAAAAAGTTTAAAAAAAAGTT
1 GAAAAAAAATTAAAAAAAAGTT
27785506 -AAAAAAA
1 GAAAAAAA
27785513 TCAGAAGCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (22 bp):
GAAAAAAAATTAAAAAAAAGTT
Found at i:27785500 original size:12 final size:11
Alignment explanation
Indices: 27785456--27785512 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
27785446 TATAAAACTT
27785456 AAAAAAAG--A
1 AAAAAAAGTTA
27785465 AAAAAAA-TTA
1 AAAAAAAGTTA
*
27785475 AAGAAAA-TT-
1 AAAAAAAGTTA
*
27785484 GAAAAAAGTTTA
1 AAAAAAAG-TTA
27785496 AAAAAAAGTTA
1 AAAAAAAGTTA
27785507 AAAAAA
1 AAAAAA
27785513 TCAGAAGCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 12 0.31
10 9 0.23
11 11 0.28
12 7 0.18
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (11 bp):
AAAAAAAGTTA
Found at i:27789408 original size:16 final size:17
Alignment explanation
Indices: 27789373--27789415 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
27789363 CATTTGATTG
27789373 ATTATTTTTTAACTTAA
1 ATTATTTTTTAACTTAA
27789390 ATTATTTTTATAA-TT-A
1 ATTATTTTT-TAACTTAA
27789406 ATTATCTTTT
1 ATTAT-TTTT
27789416 GAGTCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.25
17 15 0.62
18 3 0.12
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATTTTTTAACTTAA
Found at i:27793017 original size:18 final size:19
Alignment explanation
Indices: 27792992--27793039 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
27792982 TTTGCTAACC
*
27792992 ATATTTTTTATTTATTATT
1 ATATTTTTAATTTATTATT
27793011 ATATTTTTAAAATTTATTATT
1 ATATTTTT--AATTTATTATT
27793032 ATATTTTT
1 ATATTTTT
27793040 TAAAAACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
21 18 0.69
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATATTTTTAATTTATTATT
Found at i:27793027 original size:21 final size:22
Alignment explanation
Indices: 27793001--27793044 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
27792991 CATATTTTTT
27793001 ATTTATTATTATA-TTTTTAAA
1 ATTTATTATTATATTTTTTAAA
27793022 ATTTATTATTATATTTTTTAAA
1 ATTTATTATTATATTTTTTAAA
27793044 A
1 A
27793045 ACTATTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTATTATTATATTTTTTAAA
Found at i:27793050 original size:22 final size:21
Alignment explanation
Indices: 27793004--27793050 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
27792994 ATTTTTTATT
**
27793004 TATTATTATATTTTTAAAATT
1 TATTATTATATTTTTAAAAAC
27793025 TATTATTATATTTTTTAAAAAC
1 TATTATTATA-TTTTTAAAAAC
27793047 TATT
1 TATT
27793051 TATGTAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATATTTTTAAAAAC
Found at i:27793430 original size:15 final size:15
Alignment explanation
Indices: 27793410--27793440 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27793400 ACAATAAATG
27793410 TTAAATTTATTCAAT
1 TTAAATTTATTCAAT
*
27793425 TTAAATTTATTTAAT
1 TTAAATTTATTCAAT
27793440 T
1 T
27793441 CTTTTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATTTATTCAAT
Found at i:27798298 original size:21 final size:21
Alignment explanation
Indices: 27798274--27798315 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27798264 TTAGTTATGG
* * *
27798274 TAAATAATAAATTATATTTTT
1 TAAACAATAAATGATAATTTT
27798295 TAAACAATAAATGATAATTTT
1 TAAACAATAAATGATAATTTT
27798316 ATTTTAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TAAACAATAAATGATAATTTT
Found at i:27798642 original size:19 final size:19
Alignment explanation
Indices: 27798593--27798644 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
27798583 AAAACATATA
*
27798593 TTTTTATAAATTT-TATACT
1 TTTTTA-AAATTTATATAAT
*
27798612 TTTTAAATAATTTATATAAT
1 TTTTTAA-AATTTATATAAT
27798632 TTTTTAAAATTTA
1 TTTTTAAAATTTA
27798645 AAATTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.04
19 16 0.57
20 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAAATTTATATAAT
Found at i:27804441 original size:17 final size:18
Alignment explanation
Indices: 27804419--27804454 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27804409 GAACCTAATT
27804419 TTTTAAT-ATATTTTAAA
1 TTTTAATAATATTTTAAA
*
27804436 TTTTAATAATTTTTTAAA
1 TTTTAATAATATTTTAAA
27804454 T
1 T
27804455 AATAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAATAATATTTTAAA
Found at i:27806017 original size:25 final size:23
Alignment explanation
Indices: 27805965--27806019 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
27805955 TATAAATAGT
27805965 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
27805988 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
27806013 AATAGTG
1 AATAGTG
27806020 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:27806139 original size:22 final size:24
Alignment explanation
Indices: 27806081--27806226 Score: 77
Period size: 25 Copynumber: 5.8 Consensus size: 24
27806071 ATAGATATAA
* *
27806081 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
27806105 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
27806129 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
*
27806154 AGAAAAAAAATATATAAATAATATAGTAT-T
1 -----AAAAATATATACATAATATA--ATGT
* *
27806184 AAAGATATATACATAAAAT-A-GT
1 AAAAATATATACATAATATAATGT
* *
27806206 ATAATATATATACGTAATATA
1 A-AAAATATATACATAATATA
27806227 GAATTTAGAA
Statistics
Matches: 94, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
22 19 0.20
23 16 0.17
24 3 0.03
25 36 0.38
30 2 0.02
31 18 0.19
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:27806159 original size:27 final size:28
Alignment explanation
Indices: 27806129--27806200 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
27806119 TAATATAATT
27806129 AAAATATATACATAAGATAACAT-GTA-G
1 AAAATATATACATAA-ATAACATAGTATG
* * * * *
27806156 AAAAAAAATATATAAATAATATAGTATT
1 AAAATATATACATAAATAACATAGTATG
27806184 AAAGATATATACATAAA
1 AAA-ATATATACATAAA
27806201 ATAGTATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 6 0.18
27 15 0.44
28 3 0.09
29 10 0.29
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAATATATACATAAATAACATAGTATG
Found at i:27806191 original size:25 final size:25
Alignment explanation
Indices: 27806085--27806292 Score: 98
Period size: 23 Copynumber: 8.6 Consensus size: 25
27806075 ATATAAAAAA
* * * *
27806085 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
27806110 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
27806132 ATATATACATAAGATAACATGTAGAAAAAAA
1 ATATATACAT-A-AT-ATA-GT--ATTAAAG
*
27806163 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
27806188 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
27806211 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
27806235 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
27806257 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAG
*
27806280 AAATATA-ATAATA
1 ATATATACATAATA
27806293 ACAAAAAAGA
Statistics
Matches: 141, Mismatches: 28, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
21 1 0.01
22 24 0.17
23 44 0.31
24 15 0.11
25 37 0.26
27 2 0.01
28 2 0.01
29 2 0.01
30 5 0.04
31 9 0.06
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:27806613 original size:16 final size:16
Alignment explanation
Indices: 27806575--27806613 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27806565 TCTCCAAAAA
*
27806575 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
27806591 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
27806607 AATAACT
1 AAAAACT
27806614 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:27806808 original size:30 final size:30
Alignment explanation
Indices: 27806772--27806837 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
27806762 AGGTACAAGT
27806772 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
* *
27806802 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
27806832 GGTGGT
1 GGTGGT
27806838 AGCAAAGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.06, G:0.50, T:0.26
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
Found at i:27807797 original size:97 final size:93
Alignment explanation
Indices: 27807529--27808045 Score: 397
Period size: 90 Copynumber: 5.7 Consensus size: 93
27807519 TAAAAACAGA
* ** * *
27807529 AATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TT
1 AATTGAAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
27807591 TTT-A-AAACA-AAATTTG--TAAAAAGAT
65 TTTGACAAACATAAA-TTGAAAAAAAAAAT
* * ** * **
27807616 --TTTAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCATAATATGAGTTGA--TTT
1 AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
27807677 TTG-CAAAGCATAAA-TGAAAAAAAAAAAAAAAAT
66 TTGACAAA-CATAAATTG------AAAAAAAAAAT
* *
27807710 CAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 -AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
27807775 TTTGACAAACATAAATTGAAAAAAAAGA-
65 TTTGACAAACATAAATTGAAAAAAAAAAT
* *
27807803 AATTGAAAATATCTCAGCGTGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
27807866 TGGAAAAACA-AAATTTGAAAAACAGAAT
66 TTGACAAACATAAA-TTGAAAAAAAAAAT
* * * *
27807894 --TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * *
27807956 TTTGA-AACACAGAAATTG-AAGAACAGA-
65 TTTGACAA-ACATAAATTGAAAAAAAAAAT
* * * * *
27807983 AATGGAAAACACCTCAGC--GT--CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
27808044 TT
66 TT
27808046 TTGAAAGACA
Statistics
Matches: 354, Mismatches: 46, Indels: 60
0.77 0.10 0.13
Matches are distributed among these distances:
84 2 0.01
85 51 0.14
86 5 0.01
87 39 0.11
88 4 0.01
89 24 0.07
90 64 0.18
91 57 0.16
92 23 0.06
94 16 0.05
97 51 0.14
99 12 0.03
100 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (93 bp):
AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGACAAACATAAATTGAAAAAAAAAAT
Found at i:27807856 original size:90 final size:88
Alignment explanation
Indices: 27807702--27808066 Score: 396
Period size: 91 Copynumber: 4.0 Consensus size: 88
27807692 GAAAAAAAAA
** * *
27807702 AAAAAAATCAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
27807767 TTGATTTTTTTGACAAACATAAATTG
65 CTGATTTTTTTGA-AAACA-AAATTG
* *
27807793 AAAAAAAAGAAATTGAAAATATCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAG
1 -AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
27807857 TTGATTTTTTGGAAAAACAAAATTTG
65 CTGATTTTTTTG-AAAACAAAA-TTG
* * ** * *
27807883 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAG
27807948 CTGATTTTTTTGAAACACAGAAATTG
65 CTGATTTTTTTGAAA-ACA-AAATTG
* * * * * *
27807974 AAGAACAGAAATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
27808036 TGATTTTTTTTTGAAAGACAGAAATTG
66 TGA--TTTTTTTGAAA-ACA-AAATTG
27808063 AAAA
1 AAAA
27808067 TACCTCAACG
Statistics
Matches: 237, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
87 30 0.13
88 1 0.00
89 57 0.24
90 53 0.22
91 66 0.28
92 30 0.13
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
TGATTTTTTTGAAAACAAAATTG
Found at i:27807900 original size:13 final size:14
Alignment explanation
Indices: 27807868--27807900 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
27807858 TGATTTTTTG
27807868 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
27807882 GAAAAACAGAATTT
1 GAAAAACAAAATTT
27807896 GAAAA
1 GAAAA
27807901 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:27807933 original size:181 final size:174
Alignment explanation
Indices: 27807711--27808931 Score: 612
Period size: 148 Copynumber: 7.4 Consensus size: 174
27807701 AAAAAAAATC
* *
27807711 AATTGAAAATACCTCGGCGTGTGA-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AATTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
* *
27807775 TTTGACAAACATAAATTGAAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTC
63 TTTGA-AAACA-AAATTG-AAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTC
27807840 ACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTGAAAAACAGA
125 ACCTCTCGCAATATGAGTTGATTTTTT-GAAAAA-AAAATTTGAAAAACAGA
* * *
27807892 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
* * * * * *
27807957 TTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGC--GTCTTGAGGTTCAACTCAC
64 TTGAAA-ACA-AAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
* *
27808020 CTCTCGCAATATGAGCTGATTTTTT----------TTTGAAAGACAGA
127 CTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAATTTGAAAAACAGA
* * **
27808058 AATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * *
27808121 G---AC--------AAACAA-AAATTGAAATTACCTCAGC--GTCTTGAGGTTCAACTCACCTAT
66 GAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
27808172 CGCAATATGAGTTGA--TTTT----------TTTGAAAAACAGA
131 CGCAATATGAGTTGATTTTTTGAAAAAAAAATTTGAAAAACAGA
* * ** * *
27808204 AATTGAAAATACCTCAACGTGT--CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * *
27808267 ----------TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG-----CTCACCTCT
66 GAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* *
27808317 CGCAATATGAGTTGA----TT----------TTTGACAAACAAA
131 CGCAATATGAGTTGATTTTTTGAAAAAAAAATTTGAAAAACAGA
* ** * *
27808347 AATTGAAATTACCTCAGCGTGT-CCT-GAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
27808410 ----------TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* * * *
27808465 TGCAATATGAGTTGA------G--------TTTTGACAAACAAA
131 CGCAATATGAGTTGATTTTTTGAAAAAAAAATTTGAAAAACAGA
* ** * *
27808495 AATTGAAATTACCTCAGCGTGT-CCT-GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*
27808558 TTAGAAACATAAATT-AAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
65 TGA-AAACA-AAATTGAAAAAAA-G-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
**
27808622 CCTCTCGCAATATGAGTTGATTTGAAAAGCAGAATTTGTAAGGCAAAAA-TTGAAAAACAGA
126 CCTCTCGCAATATGAGTTGATTT-----------TTTG-AA-AAAAAAATTTGAAAAACAGA
*
27808683 AATTGAGAATACCTCAGCGT-T--G---AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
27808742 GAAAAACAGAAATTAAAAGCAGAAATTGAAAAATAGAAATTAAAAATACCTCGGCGTGCCCCGAG
66 G-AAAACA-AAATT-------G--A---AAAAA-AGAAATTGAAAATACCTCAGCGTGTCCTGAG
* *
27808807 GCTCAGCTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAA-TTGAAAAAACAGA
116 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA--AAAAATTTG-AAAAACAGA
* * * *
27808867 AATTGAAAATACCTCAGCGTGTGA-CCTGAGGCCCAATTCACCTCTCGCAATATGAGTTGATTTT
1 AATTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
27808931 T
65 T
27808932 TTGAAAGATA
Statistics
Matches: 880, Mismatches: 76, Indels: 159
0.79 0.07 0.14
Matches are distributed among these distances:
143 107 0.12
144 2 0.00
145 23 0.03
146 77 0.09
147 3 0.00
148 161 0.18
149 8 0.01
150 9 0.01
158 2 0.00
160 6 0.01
161 3 0.00
162 62 0.07
164 31 0.04
166 32 0.04
178 40 0.05
179 1 0.00
180 24 0.03
181 70 0.08
182 4 0.00
183 26 0.03
184 60 0.07
185 1 0.00
187 1 0.00
188 28 0.03
190 35 0.04
193 1 0.00
194 2 0.00
195 54 0.06
196 6 0.01
197 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (174 bp):
AATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTGAAAAAAAAATTTGAAAAACAGA
Found at i:27808120 original size:75 final size:74
Alignment explanation
Indices: 27807971--27808577 Score: 760
Period size: 75 Copynumber: 8.3 Consensus size: 74
27807961 AACACAGAAA
* * * *
27807971 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
27808034 GCTGATTTTTTT
65 GTTGA--TTTTT
27808046 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27808111 GTTGA--TTT
65 GTTGATTTTT
* * * * *
27808119 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27808182 GTTGATTTTT
65 GTTGATTTTT
*
27808192 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
27808257 GCTGATTTTT
65 GTTGATTTTT
*
27808267 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG-----CTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27808327 GTTGA--TTT
65 GTTGATTTTT
* * * * *
27808335 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27808400 GTTGATTTTT
65 GTTGATTTTT
*
27808410 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
27808475 GTTGA--GTT
65 GTTGATTTTT
* * * * *
27808483 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27808548 GTTGATTTTT
65 GTTGATTTTT
* *
27808558 TT-AGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
27808578 AACGAAAATT
Statistics
Matches: 469, Mismatches: 41, Indels: 45
0.85 0.07 0.08
Matches are distributed among these distances:
68 36 0.08
69 2 0.00
70 23 0.05
71 37 0.08
72 2 0.00
73 138 0.29
74 22 0.05
75 170 0.36
76 2 0.00
77 37 0.08
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:27808284 original size:148 final size:147
Alignment explanation
Indices: 27807971--27808577 Score: 770
Period size: 148 Copynumber: 4.1 Consensus size: 147
27807961 AACACAGAAA
* *
27807971 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * *
27808034 GCTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
65 GTTGA----TTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCT
27808099 CTCGCAATATGAGTTGA--TTT
126 CTCGCAATATGAGTTGATTTTT
* * *
27808119 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * *
27808182 GTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCT
65 GTTGA--TTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
*
27808247 CGCAATATGAGCTGATTTTT
128 CGCAATATGAGTTGATTTTT
* *
27808267 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG-----CTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * *
27808327 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCG
65 GTTGATTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
27808392 CAATATGAGTTGATTTTT
130 CAATATGAGTTGATTTTT
* * *
27808410 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * *
27808475 GTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCG
65 GTTGATTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
27808540 CAATATGAGTTGATTTTT
130 CAATATGAGTTGATTTTT
* *
27808558 TT-AGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
27808578 AACGAAAATT
Statistics
Matches: 417, Mismatches: 29, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
143 106 0.25
144 3 0.01
145 23 0.06
146 73 0.18
147 16 0.04
148 184 0.44
149 2 0.00
150 10 0.02
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (147 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTT
Found at i:27808789 original size:13 final size:13
Alignment explanation
Indices: 27808743--27808787 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
27808733 TTGATTTTTG
27808743 AAAAACAGAAATT
1 AAAAACAGAAATT
*
27808756 AAAAGCAGAAATT
1 AAAAACAGAAATT
*
27808769 GAAAAATAGAAATT
1 -AAAAACAGAAATT
27808783 AAAAA
1 AAAAA
27808788 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:27808834 original size:100 final size:100
Alignment explanation
Indices: 27808575--27808875 Score: 400
Period size: 100 Copynumber: 3.0 Consensus size: 100
27808565 CATAAATTAA
27808575 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
27808639 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
64 TGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
*
27808674 AAAAACAGAAATTGAGAATACCTCAGCGT---TGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
27808736 ATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 ATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * * * *
27808770 AAAAATAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
27808835 GATTTTTGAAAAGCATAAATTGAAAAAACAGAAATTG
65 GATTTTTGAAAAGCAGAAATTG-AAAAGCAGAAATTG
27808872 AAAA
1 AAAA
27808876 TACCTCAGCG
Statistics
Matches: 178, Mismatches: 15, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
95 34 0.19
96 36 0.20
97 15 0.08
99 26 0.15
100 50 0.28
102 17 0.10
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (100 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
Found at i:27808925 original size:90 final size:87
Alignment explanation
Indices: 27808756--27808931 Score: 244
Period size: 90 Copynumber: 2.0 Consensus size: 87
27808746 AACAGAAATT
* * * *
27808756 AAAAGCAGAAATTGAAAAATAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
27808821 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * * *
27808843 AAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAATTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCAC
27808908 CTCTCGCAATATGAGTTGATTTTT
63 CTCTCGCAATATGAGTTGATTTTT
27808932 TTGAAAGATA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
87 13 0.17
88 22 0.29
89 1 0.01
90 41 0.53
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:27818382 original size:15 final size:16
Alignment explanation
Indices: 27818362--27818394 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
27818352 ATATATTTTT
27818362 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
27818377 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
27818394 T
1 T
27818395 ATAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:27818456 original size:11 final size:12
Alignment explanation
Indices: 27818426--27818474 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
27818416 GTTAATTTGT
27818426 GTATTATTTTAA
1 GTATTATTTTAA
*
27818438 GAATTATTTT-A
1 GTATTATTTTAA
*
27818449 GTATTATTTTTA
1 GTATTATTTTAA
27818461 -T-TTATTTTAA
1 GTATTATTTTAA
27818471 -TATT
1 GTATT
27818475 TGTTTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.28
11 13 0.41
12 10 0.31
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (12 bp):
GTATTATTTTAA
Found at i:27818467 original size:21 final size:22
Alignment explanation
Indices: 27818441--27818507 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
27818431 ATTTTAAGAA
*
27818441 TTATTTTAGTA-TTATTTTTAT
1 TTATTTTAATATTTATTTTTAT
*
27818462 TTATTTTAATATTTGTTTTTAT
1 TTATTTTAATATTTATTTTTAT
* * *
27818484 GT-TTTTAA-ATATA-TTTGAT
1 TTATTTTAATATTTATTTTTAT
27818503 TTATT
1 TTATT
27818508 ATATTTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.16
20 5 0.14
21 16 0.43
22 10 0.27
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (22 bp):
TTATTTTAATATTTATTTTTAT
Found at i:27818509 original size:26 final size:24
Alignment explanation
Indices: 27818470--27818519 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
27818460 ATTTATTTTA
*
27818470 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
27818494 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
27818520 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:27821426 original size:21 final size:21
Alignment explanation
Indices: 27821402--27821474 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 21
27821392 TATGAAATAG
27821402 ATATAAAAAAATATATACATA
1 ATATAAAAAAATATATACATA
*
27821423 ATATAGTGTAAAAAATACATACATA
1 ATATA----AAAAAATATATACATA
*
27821448 ATATAATTAAAATATAT-CATA
1 ATATAA-AAAAATATATACATA
*
27821469 AGATAA
1 ATATAA
27821475 CATGTAGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 15 0.35
22 8 0.19
25 20 0.47
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.30
Consensus pattern (21 bp):
ATATAAAAAAATATATACATA
Found at i:27821468 original size:25 final size:26
Alignment explanation
Indices: 27821407--27821468 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
27821397 AATAGATATA
*
27821407 AAAAAATAT-ATACATAATATAGTGT
1 AAAAAATATCATACATAATATAATGT
27821432 AAAAAATA-CATACATAATATAAT-T
1 AAAAAATATCATACATAATATAATGT
*
27821456 AAAATATATCATA
1 AAAAAATATCATA
27821469 AGATAACATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 8 0.24
25 25 0.76
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (26 bp):
AAAAAATATCATACATAATATAATGT
Found at i:27821526 original size:25 final size:23
Alignment explanation
Indices: 27821488--27821554 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 23
27821478 GTAGAAAAAT
*
27821488 ATATATATAAATAATATAGTATTAA
1 ATATATATACATAATATAGTA-T-A
* *
27821513 ATATAGATACATAAAATAGTATA
1 ATATATATACATAATATAGTATA
*
27821536 ATATATATACGTAATATAG
1 ATATATATACATAATATAG
27821555 AATTTAGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 17 0.47
24 1 0.03
25 18 0.50
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (23 bp):
ATATATATACATAATATAGTATA
Found at i:27821611 original size:15 final size:15
Alignment explanation
Indices: 27821593--27821624 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27821583 GAATATATAT
*
27821593 AATATAATATTAAAA
1 AATATAATAATAAAA
27821608 AATATAATAATAAAA
1 AATATAATAATAAAA
27821623 AA
1 AA
27821625 AAGAGGGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAATAATAAAA
Found at i:27822123 original size:18 final size:18
Alignment explanation
Indices: 27822100--27822153 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
27822090 ACAAGTGGTG
27822100 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
27822118 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
27822130 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
27822148 GTGGAG
1 GTGGAG
27822154 TTGGTGGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:27822131 original size:30 final size:30
Alignment explanation
Indices: 27822095--27822161 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
27822085 TAGGTACAAG
27822095 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
27822125 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
27822155 TGGTGGT
1 TGGTGGT
27822162 AGCAAAGGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.15, C:0.06, G:0.51, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:27823077 original size:17 final size:18
Alignment explanation
Indices: 27823045--27823078 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27823035 TGGTATCAAC
*
27823045 TATTTTTTAATTTTTATG
1 TATTTTTTAATATTTATG
27823063 TATTTTTT-ATATTTAT
1 TATTTTTTAATATTTAT
27823079 ATTTAATGGT
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:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTTTTTAATATTTATG
Found at i:27823532 original size:51 final size:51
Alignment explanation
Indices: 27823456--27823559 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
27823446 TTAAAAAATT
27823456 AATTAAATGTTGATGTGTCATTCACCTGATAATCCACGTATATGCTACATC
1 AATTAAATGTTGATGTGTCATTCACCTGATAATCCACGTATATGCTACATC
27823507 AATTAAATGTTGATGTGTCATTCACCTGATAATCCACGTATATGCTACATC
1 AATTAAATGTTGATGTGTCATTCACCTGATAATCCACGTATATGCTACATC
27823558 AA
1 AA
27823560 AAAAGTTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (51 bp):
AATTAAATGTTGATGTGTCATTCACCTGATAATCCACGTATATGCTACATC
Found at i:27828277 original size:46 final size:46
Alignment explanation
Indices: 27828210--27828508 Score: 386
Period size: 46 Copynumber: 6.7 Consensus size: 46
27828200 TGGCAACCTG
27828210 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
27828256 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---T----
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
27828295 T-TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
27828340 TGTGTAAGACCATGGTTGAAAGATACTATGG--ACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
27828384 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
27828430 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
** * * *
27828476 TAAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
27828509 TCACGTCAAA
Statistics
Matches: 226, Mismatches: 16, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
38 36 0.16
39 1 0.00
41 1 0.00
43 1 0.00
44 42 0.19
45 2 0.01
46 143 0.63
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:27828302 original size:84 final size:84
Alignment explanation
Indices: 27828161--27828464 Score: 459
Period size: 84 Copynumber: 3.5 Consensus size: 84
27828151 AGTGTGCTCT
*
27828161 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTTTGTAAGACCATGGT
27828226 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
27828245 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTTTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTTTGTAAGACCATGGT
27828310 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
27828329 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGG--ACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---T----T-TGTAAG
27828392 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
27828419 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
27828465 ATGACAGAAA
Statistics
Matches: 202, Mismatches: 8, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
82 5 0.02
84 124 0.61
85 1 0.00
89 1 0.00
90 69 0.34
92 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTTTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:27828815 original size:23 final size:25
Alignment explanation
Indices: 27828770--27828816 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
27828760 AATAAATATA
*
27828770 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
27828795 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
27828817 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:27829217 original size:21 final size:22
Alignment explanation
Indices: 27829183--27829223 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27829173 GGGTGTTACA
**
27829183 AATATAAACCATATA-ATAAGT
1 AATATAAAAAATATATATAAGT
27829204 AATATAAAAAATATATATAA
1 AATATAAAAAATATATATAA
27829224 TAAAATGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATAAAAAATATATATAAGT
Found at i:27829241 original size:17 final size:18
Alignment explanation
Indices: 27829216--27829258 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
27829206 TATAAAAAAT
27829216 ATATATAAT-AAAATGTA
1 ATATATAATAAAAATGTA
*
27829233 ATATGTAATAAAAATGTA
1 ATATATAATAAAAATGTA
27829251 A-ATATAAT
1 ATATATAAT
27829259 GAAGGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
ATATATAATAAAAATGTA
Found at i:27829438 original size:17 final size:19
Alignment explanation
Indices: 27829416--27829450 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27829406 TTATAATTAA
27829416 TATTT-ATAGA-TATAAAG
1 TATTTAATAGATTATAAAG
27829433 TATTTAATAGATTATAAA
1 TATTTAATAGATTATAAA
27829451 AAAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
TATTTAATAGATTATAAAG
Found at i:27831457 original size:38 final size:38
Alignment explanation
Indices: 27831414--27831492 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
27831404 ATGACTGGAC
27831414 TAAGGTTTCTAAATAAAAAGTTAAAAGATCTTACTTTT
1 TAAGGTTTCTAAATAAAAAGTTAAAAGATCTTACTTTT
27831452 TAAGGTTTCTAAATAAAAAGTTAAAAGATCTTACTTTT
1 TAAGGTTTCTAAATAAAAAGTTAAAAGATCTTACTTTT
27831490 TAA
1 TAA
27831493 TCAAGCTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (38 bp):
TAAGGTTTCTAAATAAAAAGTTAAAAGATCTTACTTTT
Found at i:27834533 original size:15 final size:15
Alignment explanation
Indices: 27834513--27834541 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27834503 CTATATTTTT
27834513 ATATATTTTTTTAAA
1 ATATATTTTTTTAAA
27834528 ATATATTTTTTTAA
1 ATATATTTTTTTAA
27834542 TTTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATATTTTTTTAAA
Found at i:27834545 original size:23 final size:22
Alignment explanation
Indices: 27834521--27834562 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
27834511 TTATATATTT
27834521 TTTTAAAATATATTTTTT-TAA
1 TTTTAAAATATATTTTTTATAA
*
27834542 TTTTAAAAAATATTTTTTATA
1 TTTTAAAATATATTTTTTATA
27834563 TACTTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAAAATATATTTTTTATAA
Found at i:27835421 original size:16 final size:15
Alignment explanation
Indices: 27835387--27835417 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27835377 AGTGAAAAGG
27835387 TAAAAAAAAACATGT
1 TAAAAAAAAACATGT
27835402 TAAAAAAAAACATGT
1 TAAAAAAAAACATGT
27835417 T
1 T
27835418 TAAATTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
TAAAAAAAAACATGT
Found at i:27836426 original size:22 final size:22
Alignment explanation
Indices: 27836371--27836416 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
27836361 TATGAATACG
*
27836371 GAGAGATTTGTATTTTGTTCTT
1 GAGAGATTTGCATTTTGTTCTT
27836393 GAGAGATTTGCATTTTGTTCTT
1 GAGAGATTTGCATTTTGTTCTT
27836415 GA
1 GA
27836417 ACGTATTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.50
Consensus pattern (22 bp):
GAGAGATTTGCATTTTGTTCTT
Found at i:27843877 original size:11 final size:11
Alignment explanation
Indices: 27843861--27843891 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
27843851 AGACAATTTG
27843861 TAAAAATAAAA
1 TAAAAATAAAA
27843872 TAAAAATAAAA
1 TAAAAATAAAA
27843883 T-AAAATAAA
1 TAAAAATAAA
27843892 GAACACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:27861831 original size:39 final size:39
Alignment explanation
Indices: 27861748--27861844 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
27861738 TGAAACCAAT
*
27861748 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGATATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGACATAA
* * * *
27861786 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCC-GACATAA
* *
27861825 TTCCAGCACGTAGCCTGCGG
1 TACCAGCACGAAGCCTGCGG
27861845 ACCCTAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 12 0.24
39 37 0.76
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGACATAA
Found at i:27861858 original size:39 final size:39
Alignment explanation
Indices: 27861815--27861940 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
27861805 GGACTTTAGC
* * *
27861815 CCGGACATATTTCCAGCACGTAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
27861854 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
27861893 CCGGATATAATTCCAGCACATAGCCTGCAGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
27861932 CCGGATATA
1 CCGGATATA
27861941 CATCACTGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:27861861 original size:78 final size:78
Alignment explanation
Indices: 27861779--27861940 Score: 211
Period size: 78 Copynumber: 2.1 Consensus size: 78
27861769 ATTTAAACCC
* * * * *
27861779 GATATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCCTG
1 GATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTG
*
27861842 CGGACCCTAAGTCCG
64 CAGACCCTAAGTCCG
* * *
27861857 GATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCA
1 GATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCA
27861922 GACCCTAAGTCCG
66 GACCCTAAGTCCG
27861935 GATATA
1 GATATA
27861941 CATCACTGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 4 0.05
78 69 0.95
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (78 bp):
GATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCA
GACCCTAAGTCCG
Found at i:27864499 original size:7 final size:7
Alignment explanation
Indices: 27864487--27864529 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
27864477 ACGTTAACAA
27864487 ATAATTT
1 ATAATTT
27864494 ATAATTT
1 ATAATTT
27864501 ATAATTT
1 ATAATTT
27864508 ATAATTT
1 ATAATTT
27864515 ATAATTT
1 ATAATTT
27864522 ATAATTT
1 ATAATTT
27864529 A
1 A
27864530 AAAATAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATAATTT
Found at i:27865537 original size:29 final size:29
Alignment explanation
Indices: 27865477--27865546 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
27865467 AACGATAACT
*** *
27865477 TAAGTGACTAAAATGTAACATTTTAGACA
1 TAAGTGACTAAAATGTAACATGAGAGAAA
* *
27865506 TAAGTGACTAAAATGTAATATGAGATAAA
1 TAAGTGACTAAAATGTAACATGAGAGAAA
27865535 TAAAAGTGACTA
1 T--AAGTGACTA
27865547 TTTTTATAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 24 0.73
31 9 0.27
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.29
Consensus pattern (29 bp):
TAAGTGACTAAAATGTAACATGAGAGAAA
Found at i:27876788 original size:25 final size:25
Alignment explanation
Indices: 27876756--27876806 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
27876746 CTTTTATCCC
27876756 TTTTAAGTCTCATAATATTTCTTCT
1 TTTTAAGTCTCATAATATTTCTTCT
27876781 TTTTAAGTCTCATAATATTTCTTCT
1 TTTTAAGTCTCATAATATTTCTTCT
27876806 T
1 T
27876807 GTAGGTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTTAAGTCTCATAATATTTCTTCT
Found at i:27879768 original size:20 final size:21
Alignment explanation
Indices: 27879729--27879769 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27879719 AGTAATTTAC
* *
27879729 TAAAATATATAAATTCAATAA
1 TAAAATATAAAAATTAAATAA
27879750 TAAAA-ATAAAAATTAAATAA
1 TAAAATATAAAAATTAAATAA
27879770 AATGTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAATATAAAAATTAAATAA
Found at i:27880434 original size:31 final size:29
Alignment explanation
Indices: 27880360--27880435 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
27880350 TGACTTTAAT
*
27880360 ATTCAATTTGGTACCTAAAATTTATTTTG
1 ATTCAATTTGGTACTTAAAATTTATTTTG
** * *
27880389 ATTCAATTAAGTACTTAAACTTTGCTTCTTG
1 ATTCAATTTGGTACTTAAAATTT-ATT-TTG
*
27880420 GTTCAATTTGGTACTT
1 ATTCAATTTGGTACTT
27880436 GAACCTAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (29 bp):
ATTCAATTTGGTACTTAAAATTTATTTTG
Found at i:27880573 original size:58 final size:58
Alignment explanation
Indices: 27880495--27880632 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 58
27880485 AAACCAATTT
* * **
27880495 GTTCAAGTA-CTAATTCGAACC-AAAAAGGTAAGTTTAGATACTTAATTAGACAAAAAAA
1 GTTCAAGTATCAAATT-GAACCTAAAAA-CTAAGTTTAGATACCCAATTAGACAAAAAAA
** * * *
27880553 GTTCAAGTATCAAATTGAACCTTGACACTAAGTTTAGATACCCAATTGGATAAAAAAA
1 GTTCAAGTATCAAATTGAACCTAAAAACTAAGTTTAGATACCCAATTAGACAAAAAAA
* *
27880611 ATTTAAGTATCAAATTGAACCT
1 GTTCAAGTATCAAATTGAACCT
27880633 TGAGGCCAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 60 0.90
59 7 0.10
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (58 bp):
GTTCAAGTATCAAATTGAACCTAAAAACTAAGTTTAGATACCCAATTAGACAAAAAAA
Found at i:27880647 original size:58 final size:58
Alignment explanation
Indices: 27880527--27880668 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 58
27880517 AAAAGGTAAG
* * * * *
27880527 TTTAGATACTTAATTAGACAAAAAAAGTTCAAGTATCAAATTGAACCTTGACACTAAG
1 TTTAGATACCTAATTGGACAAAAAAAATTCAAGTATCAAATTGAACCTTGACACCAAA
* * * **
27880585 TTTAGATACCCAATTGGATAAAAAAAATTTAAGTATCAAATTGAACCTTGAGGCCAAA
1 TTTAGATACCTAATTGGACAAAAAAAATTCAAGTATCAAATTGAACCTTGACACCAAA
**
27880643 TTTAGGCACCTAATTGGACAAAAAAA
1 TTTAGATACCTAATTGGACAAAAAAA
27880669 CACATTAGGT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 70 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.27
Consensus pattern (58 bp):
TTTAGATACCTAATTGGACAAAAAAAATTCAAGTATCAAATTGAACCTTGACACCAAA
Found at i:27885572 original size:64 final size:64
Alignment explanation
Indices: 27885497--27885688 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
27885487 TCATTCATAA
* **
27885497 CACATCCAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
*
27885561 CACATCTAGTTAGGTGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
* ** *
27885625 CACGTCTAGTTAGGAGCATTTGATTCATTTTGATCATAATATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
27885689 GATACATGAA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 119 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:27886295 original size:176 final size:176
Alignment explanation
Indices: 27886073--27886519 Score: 617
Period size: 176 Copynumber: 2.5 Consensus size: 176
27886063 GCAGTGGAGT
* * * *** *
27886073 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCCGAGCAGATCGAAGATGGCGAATCTT
1 AGACTGAAAATTGAAAATCTTATATCCCTAAGCAGTAAAGGAGCAGATTGAAGATGGCGAATCTT
* * * * *
27886138 ATCTCCATGTATCGGCAATGGAGCAGATTTTACCATTGGCCTTATCTCTTTGAGGTAGCAAGAGA
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGACCTAATCTCTCTGAAGTAGCAAGAGA
* *
27886203 GCAGGTTGGCGATTGTAGTCTTATCTTCCTGA-GATAGTAAGGAAGC
131 GCAGGTTGGCGATTGTAGTCTTATATTCCTGATG-TAGCAAGGAAGC
* * * *
27886249 AGACTGAAAATTGAAAATTTTATATCTCTAAGTAGTAAAGGAGCAGATTGAAGATGGTGAATCTT
1 AGACTGAAAATTGAAAATCTTATATCCCTAAGCAGTAAAGGAGCAGATTGAAGATGGCGAATCTT
27886314 ATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGACCTAATCTCTCTGAAGTAGCAAGAGA
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGACCTAATCTCTCTGAAGTAGCAAGAGA
*
27886379 GCAGGTTGGCGATTGTAGTCTTATATTTCTGATGTAGCAAGGAAGC
131 GCAGGTTGGCGATTGTAGTCTTATATTCCTGATGTAGCAAGGAAGC
* * * *** *
27886425 AGACTGAAGATTGAAAATCTTATCTCCCTAGGCAGTTGCGGAGCAGATTGAGGATGGCGAATCTT
1 AGACTGAAAATTGAAAATCTTATATCCCTAAGCAGTAAAGGAGCAGATTGAAGATGGCGAATCTT
* * *
27886490 ATCTCCATGTATTGGCAATGGGGCAAATTT
66 ATCTCCATGTATCGGCAATGGAGCAGATTT
27886520 AAGTCACCAG
Statistics
Matches: 237, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
176 236 1.00
177 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (176 bp):
AGACTGAAAATTGAAAATCTTATATCCCTAAGCAGTAAAGGAGCAGATTGAAGATGGCGAATCTT
ATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGACCTAATCTCTCTGAAGTAGCAAGAGA
GCAGGTTGGCGATTGTAGTCTTATATTCCTGATGTAGCAAGGAAGC
Found at i:27886381 original size:88 final size:88
Alignment explanation
Indices: 27886113--27886382 Score: 221
Period size: 88 Copynumber: 3.1 Consensus size: 88
27886103 AGCAGTAGCC
* * *
27886113 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCATTGGC
1 GAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCATTGAC
* *
27886178 CTTATCTCTTTGAGGTAGCAAGA
66 CTTATCTCTCTGAAGTAGCAAGA
* ** * * * * * * * **
27886201 GAGCAGGTTGGCGATTGT-AGTCTTATCTTCC-TGAGAT-AGTAA-GGAAGCAGA-CTGAAAATT
1 GAGCAGATTGAAGATGGTGAATCTTATC-TCCATG-TATCGGCAATGG-AGCAGATTTTACCATT
** * *
27886261 GAAAATTTTATATCTCT-AAGTAGTAA-A
63 G---ACCTTATCTCTCTGAAGTAGCAAGA
*
27886288 GGAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGA
1 -GAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCATTGA
*
27886353 CCTAATCTCTCTGAAGTAGCAAGA
65 CCTTATCTCTCTGAAGTAGCAAGA
27886377 GAGCAG
1 GAGCAG
27886383 GTTGGCGATT
Statistics
Matches: 129, Mismatches: 39, Indels: 28
0.66 0.20 0.14
Matches are distributed among these distances:
86 8 0.06
87 29 0.22
88 57 0.44
89 28 0.22
90 7 0.05
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (88 bp):
GAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCATTGAC
CTTATCTCTCTGAAGTAGCAAGA
Found at i:27886680 original size:6 final size:6
Alignment explanation
Indices: 27886669--27886693 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27886659 CTGGGCTTAC
27886669 ACCAAA ACCAAA ACCAAA ACCAAA A
1 ACCAAA ACCAAA ACCAAA ACCAAA A
27886694 AATAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCAAA
Found at i:27886729 original size:20 final size:20
Alignment explanation
Indices: 27886692--27886730 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27886682 CCAAAACCAA
27886692 AAAATAAAACAAAAAATAAT
1 AAAATAAAACAAAAAATAAT
27886712 AAAATAAAA-AAAATAATAA
1 AAAATAAAACAAAA-AATAA
27886731 AACCAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAATAAAACAAAAAATAAT
Found at i:27888169 original size:29 final size:27
Alignment explanation
Indices: 27888137--27888196 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
27888127 TTATGTAAAT
27888137 ATTTTCTTTGAAATCTATTATATATATA
1 ATTTTCTTTGAAATCTATT-TATATATA
* * *
27888165 CATTTTCTTTTAAATTTATTTATGTATA
1 -ATTTTCTTTGAAATCTATTTATATATA
27888193 ATTT
1 ATTT
27888197 GTTTCAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.14
28 7 0.25
29 17 0.61
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (27 bp):
ATTTTCTTTGAAATCTATTTATATATA
Found at i:27888586 original size:27 final size:28
Alignment explanation
Indices: 27888546--27888613 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
27888536 ATTATTTTTG
* * * *
27888546 TATAGTATTCTTTTCAAAGTTC-TTTTTA
1 TATA-TATTATTTTAAAAATTCATTTATA
27888574 TA-ATACTTATTTTAAAAATTCATTTATA
1 TATATA-TTATTTTAAAAATTCATTTATA
27888602 TATATATTATTT
1 TATATATTATTT
27888614 ATTCTATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 2 0.06
27 13 0.39
28 15 0.45
29 3 0.09
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (28 bp):
TATATATTATTTTAAAAATTCATTTATA
Found at i:27890703 original size:46 final size:46
Alignment explanation
Indices: 27890645--27890822 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
27890635 GATATTTGGG
*
27890645 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *** * * * *
27890691 TATCCGAACTCGTTGAGTTGAGTCTGAGTTCAAGAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-A
*
27890738 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * *
27890784 CGCCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27890823 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:27890807 original size:93 final size:93
Alignment explanation
Indices: 27890643--27890815 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
27890633 AGGATATTTG
* * *
27890643 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
* *
27890708 TTGAGTCTGAGTTCAAGAGATGTAACTA
66 TCGAGTCCGAGTTCAAGAGATGTAACTA
* * *
27890736 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
27890801 TCGAGTCCGAGTTCA
66 TCGAGTCCGAGTTCA
27890816 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TCGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:27892876 original size:30 final size:28
Alignment explanation
Indices: 27892840--27892905 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
27892830 AAAATTAACC
*
27892840 TATAAAAACATAGAAATTTATATAAAAATAA
1 TATAAAAACAT-GAAAATTA-ATAAAAA-AA
**
27892871 T-TAAAATGATGAAAATTAATAAAAAAA
1 TATAAAAACATGAAAATTAATAAAAAAA
27892898 TATAAAAA
1 TATAAAAA
27892906 TATATATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
27 3 0.10
28 12 0.40
29 7 0.23
30 7 0.23
31 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (28 bp):
TATAAAAACATGAAAATTAATAAAAAAA
Found at i:27893392 original size:16 final size:17
Alignment explanation
Indices: 27893360--27893394 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27893350 AAATTAAAAG
*
27893360 AAGAAAAAGAGATATGA
1 AAGAAAAAGAGAAATGA
27893377 AAGAAAAAGA-AAATGA
1 AAGAAAAAGAGAAATGA
27893393 AA
1 AA
27893395 AAGAGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (17 bp):
AAGAAAAAGAGAAATGA
Found at i:27893405 original size:35 final size:36
Alignment explanation
Indices: 27893350--27893436 Score: 90
Period size: 36 Copynumber: 2.4 Consensus size: 36
27893340 TCTTATAATG
* *
27893350 AAATTAAAAGAAGAAAAAGAG-AT-ATGAAAGAAAAAGA
1 AAATTGAAA-AAGAGAAAGAGTATGA-GAAAG-AAAAGA
*
27893387 AAA-TGAAAAAGAGAAAGAGTGTGAGAAAGAAAAGA
1 AAATTGAAAAAGAGAAAGAGTATGAGAAAGAAAAGA
*
27893422 AAATTGAAAAGGAGA
1 AAATTGAAAAAGAGA
27893437 GTGAGATTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
35 19 0.44
36 20 0.47
37 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (36 bp):
AAATTGAAAAAGAGAAAGAGTATGAGAAAGAAAAGA
Found at i:27893441 original size:30 final size:30
Alignment explanation
Indices: 27893382--27893442 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
27893372 TATGAAAGAA
*
27893382 AAAGAAAATGAAAAAGAGAAAGAGTGTGAG
1 AAAGAAAATGAAAAAGAGAAAGAGAGTGAG
*
27893412 AAAGAAAA-GAAAATTGA-AAAGGAGAGTGAG
1 AAAGAAAATGAAAA-AGAGAAA-GAGAGTGAG
27893442 A
1 A
27893443 TTGAAGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.10
Consensus pattern (30 bp):
AAAGAAAATGAAAAAGAGAAAGAGAGTGAG
Found at i:27895337 original size:34 final size:34
Alignment explanation
Indices: 27895249--27895338 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
27895239 ATCTTAGTTA
* *
27895249 TTAAATTAAGTTGCTGGAATCAATATTCAACTTAG
1 TTAATTTAA-TTGCTGGAATAAATATTCAACTTAG
* * * * *
27895284 TTAATTGAGTTGTTAGAATAAATACTT-ATCTTAG
1 TTAATTTAATTGCTGGAATAAATA-TTCAACTTAG
27895318 TTAATTTAATTGCTGGAATAA
1 TTAATTTAATTGCTGGAATAA
27895339 TTTATTGTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
34 35 0.81
35 8 0.19
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (34 bp):
TTAATTTAATTGCTGGAATAAATATTCAACTTAG
Found at i:27895395 original size:9 final size:9
Alignment explanation
Indices: 27895383--27895432 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
27895373 AGTTAGTTAA
*
27895383 GTTTCATGT
1 GTTTAATGT
*
27895392 GTTTAAAGT
1 GTTTAATGT
*
27895401 ATTTAATGT
1 GTTTAATGT
27895410 GTTTAATGT
1 GTTTAATGT
27895419 GTTTTAATGT
1 G-TTTAATGT
27895429 GTTT
1 GTTT
27895433 GTTAATGCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
9 26 0.74
10 9 0.26
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.56
Consensus pattern (9 bp):
GTTTAATGT
Found at i:27895439 original size:12 final size:10
Alignment explanation
Indices: 27895402--27895432 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
27895392 GTTTAAAGTA
27895402 TTTAATGTG-
1 TTTAATGTGT
27895411 TTTAATGTGT
1 TTTAATGTGT
27895421 TTTAATGTGT
1 TTTAATGTGT
27895431 TT
1 TT
27895433 GTTAATGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (10 bp):
TTTAATGTGT
Found at i:27896656 original size:9 final size:9
Alignment explanation
Indices: 27896644--27896692 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
27896634 AAAAAAATAC
27896644 TTTTATAATT
1 TTTTATAA-T
27896654 TTTTATAAAGT
1 TTTTAT-AA-T
*
27896665 TTTAATAAT
1 TTTTATAAT
*
27896674 TTTTATCAT
1 TTTTATAAT
27896683 TTTTATAAT
1 TTTTATAAT
27896692 T
1 T
27896693 CTTTTGAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 17 0.52
10 8 0.24
11 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:27896657 original size:10 final size:10
Alignment explanation
Indices: 27896644--27896714 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 10
27896634 AAAAAAATAC
27896644 TTTTATAATT
1 TTTTATAATT
*
27896654 TTTTATAAAGT
1 TTTTAT-AATT
*
27896665 TTTAATAA-T
1 TTTTATAATT
*
27896674 TTTTATCA-T
1 TTTTATAATT
27896683 TTTTATAATT
1 TTTTATAATT
*
27896693 CTTTTGAGAATT
1 -TTTT-ATAATT
27896705 TTTATATAAT
1 TTT-TATAAT
27896715 CTCTAAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 15 0.31
10 9 0.18
11 19 0.39
12 6 0.12
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:27900536 original size:19 final size:19
Alignment explanation
Indices: 27900512--27900555 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
27900502 ATTGTATCAC
27900512 ATATTGTATGTGACTTCAA
1 ATATTGTATGTGACTTCAA
27900531 ATATTGTATGTGACTTCAA
1 ATATTGTATGTGACTTCAA
27900550 ATATTG
1 ATATTG
27900556 CATTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (19 bp):
ATATTGTATGTGACTTCAA
Found at i:27920963 original size:244 final size:242
Alignment explanation
Indices: 27920531--27921115 Score: 958
Period size: 244 Copynumber: 2.4 Consensus size: 242
27920521 TTAGAAGAGT
* ** * * *
27920531 TTCACATTAATAAAAAATTTAATGAAATGATA-ACACCAATAAAATTAATTAACATTTTAATTTA
1 TTCACATTAATAAGATTTTTAATAAAATAATACA-ACCAATAAAATTAATTAATATTTTAATTTA
27920595 ATAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAATTATTTTGATATAAATTTTAA
65 ATAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAATTATTTTGATATAAATTTTAA
*
27920660 AACTATTAAGTCCAAAAGTTTTGAAGTGAAAAAATCTAATTAAATAATGTACGTTGAAAAGGAAA
130 AACTATTAAGTCCAAAAATTTTGAAGTGAAAAAATCTAATTAAATAATGTACGTTGAAAAGGAAA
27920725 AGTATAATTAAAAATATTAAATAGAAGAATAAAATATTAAATAAAAAAA
195 AGTATAATTAAAAATATTAAATAGAAGAATAAAATATTAAAT-AAAAAA
* *
27920774 TTTCACATTAATAAGTTTTTTAATAAAATAATACAACGAATAAAATTAATTAATATTTTAATTTA
1 -TTCACATTAATAAGATTTTTAATAAAATAATACAACCAATAAAATTAATTAATATTTTAATTTA
*
27920839 ATAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAGTTATTTTGATATAAATTTTAA
65 ATAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAATTATTTTGATATAAATTTTAA
* *
27920904 AATTATTAAGTCCAAAAATTTTGAAGT-AAAAAATCTAATTAAATAATGTACGTTTGAAAAGGGA
130 AACTATTAAGTCCAAAAATTTTGAAGTGAAAAAATCTAATTAAATAATGTACG-TTGAAAAGGAA
27920968 AAGTATAATTAAAAATATTAAATAGAAGAATAAAATATTAAATAAAAAA
194 AAGTATAATTAAAAATATTAAATAGAAGAATAAAATATTAAATAAAAAA
*
27921017 TTCACATTAATAAGATTTTTAATAAAATAATACAACCAATAAAATTAATTAATATTTTAATTTAT
1 TTCACATTAATAAGATTTTTAATAAAATAATACAACCAATAAAATTAATTAATATTTTAATTTAA
* * * * *
27921082 TAAAAATAGAATTAATTAAGTTTTAAATATTTAA
66 TAAAAATAAAATTATTTACGATTTGAATATTTAA
27921116 AAATTATTAA
Statistics
Matches: 319, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
242 91 0.29
243 31 0.10
244 196 0.61
245 1 0.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (242 bp):
TTCACATTAATAAGATTTTTAATAAAATAATACAACCAATAAAATTAATTAATATTTTAATTTAA
TAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAATTATTTTGATATAAATTTTAAA
ACTATTAAGTCCAAAAATTTTGAAGTGAAAAAATCTAATTAAATAATGTACGTTGAAAAGGAAAA
GTATAATTAAAAATATTAAATAGAAGAATAAAATATTAAATAAAAAA
Found at i:27922939 original size:6 final size:6
Alignment explanation
Indices: 27922930--27922963 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
27922920 ATTTATATTT
* *
27922930 ATTTGG ATTTGG ATTTGG ATTTGA ATTTGA ATTT
1 ATTTGG ATTTGG ATTTGG ATTTGG ATTTGG ATTT
27922964 CTAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (6 bp):
ATTTGG
Found at i:27931397 original size:43 final size:43
Alignment explanation
Indices: 27931350--27931472 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
27931340 TAACATGTAT
* *
27931350 CGATGCCACTGTCCCACACAGGGTCTTACACG-AAGTCGATTA-A
1 CGATGCCACTGTCCCACACAAGGTCTTACACGTAA-TCG-TCATA
* * * *
27931393 CGATGCCAATGTCTCACACATGGTTTTACACGTAATCGTCATA
1 CGATGCCACTGTCCCACACAAGGTCTTACACGTAATCGTCATA
* * *
27931436 CAATGCCACTGTCCCATACAAGGTCTTACATGTAATC
1 CGATGCCACTGTCCCACACAAGGTCTTACACGTAATC
27931473 ACATCTCAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 2 0.03
43 62 0.94
44 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
CGATGCCACTGTCCCACACAAGGTCTTACACGTAATCGTCATA
Found at i:27933634 original size:64 final size:64
Alignment explanation
Indices: 27933553--27933736 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
27933543 AGACATTATG
* *
27933553 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
27933617 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
27933681 TAA
62 TAA
* * * *
27933684 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
27933737 CGAACTATAT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 23 0.23
65 4 0.04
66 18 0.18
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:27939435 original size:18 final size:18
Alignment explanation
Indices: 27939412--27939676 Score: 119
Period size: 18 Copynumber: 14.3 Consensus size: 18
27939402 GAATAATTAT
27939412 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
27939430 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
27939448 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
27939466 TTATTCAGTATCGATCAATTGATC-G
1 TTATTCAGTA---A-C-A--G-TCAG
*
27939491 ATTA-TCTAGTAACAGTCAA
1 -TTATTC-AGTAACAGTCAG
* *
27939510 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
27939527 ATATTCAGTAGCAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
27939546 TTATTCAGTAACAGTCAT
1 TTATTCAGTAACAGTCAG
* *
27939564 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAGTCAG
* * *
27939582 TTATTTAGTAA-TGATCAT
1 TTATTCAGTAACAG-TCAG
* * *
27939600 TTATTTAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
27939618 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
*
27939636 TTA-TCTAGTAACAGTCAA
1 TTATTC-AGTAACAGTCAG
* * *
27939654 TTATTCGGTAATAGTCAA
1 TTATTCAGTAACAGTCAG
27939672 TTATT
1 TTATT
27939677 TAGAAATAAT
Statistics
Matches: 185, Mismatches: 42, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
17 15 0.08
18 135 0.73
19 19 0.10
21 2 0.01
22 1 0.01
23 2 0.01
25 3 0.02
26 8 0.04
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:27939454 original size:36 final size:36
Alignment explanation
Indices: 27939412--27939694 Score: 158
Period size: 36 Copynumber: 7.6 Consensus size: 36
27939402 GAATAATTAT
* *
27939412 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
27939448 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
27939484 TTGATCGATTATCTAGTAACAGTCAATTATTTAGTAA-AATCAGA
1 -T--T--A-T-TC-AGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
27939528 -TATTCAGTAGCAATTAAGTTATTCAGTAACAGTCAT
1 TTATTCAGTAACAA-TCAGTTATTCAGTAACAATCAA
* * ** *
27939564 TTATTCAGTGACAATCAGTTATTTAGTAATGATCAT
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
27939600 TTATTTAGTAATATTCAGTTATTCAGTAACAGTCTA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
27939636 TTA-TCTAGTAACAGTCAATTATTCGGTAATAGTCAA
1 TTATTC-AGTAACAATCAGTTATTCAGTAACAATCAA
* * *
27939672 TTATTTAGAAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
27939695 TTATACCTTT
Statistics
Matches: 182, Mismatches: 51, Indels: 28
0.70 0.20 0.11
Matches are distributed among these distances:
35 7 0.04
36 129 0.71
37 18 0.10
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 6 0.03
44 17 0.09
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:27939629 original size:72 final size:72
Alignment explanation
Indices: 27939491--27939694 Score: 184
Period size: 72 Copynumber: 2.8 Consensus size: 72
27939481 CAATTGATCG
* * * * * ** *
27939491 ATTATCTAGTAACAGTCAATTATTTAGTAA-AATCAGA-TATTCAGTAGCAATTAAGTTATTCAG
1 ATTATCTAGTAACAATCAATTATTCAGTAATAGTCA-ATTATTTAGAAATAA-TCAGTTATTCAG
27939554 TAACAGTC-
64 TAACAGTCT
* * * * * *
27939562 ATTTAT-TCAGTGACAATCAGTTATTTAGTAAT-GATCATTTATTTAGTAATATTCAGTTATTCA
1 A-TTATCT-AGTAACAATCAATTATTCAGTAATAG-TCAATTATTTAGAAATAATCAGTTATTCA
27939625 GTAACAGTCT
63 GTAACAGTCT
* *
27939635 ATTATCTAGTAACAGTCAATTATTCGGTAATAGTCAATTATTTAGAAATAATCAGTTATT
1 ATTATCTAGTAACAATCAATTATTCAGTAATAGTCAATTATTTAGAAATAATCAGTTATT
27939695 TTATACCTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
71 2 0.02
72 90 0.84
73 15 0.14
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (72 bp):
ATTATCTAGTAACAATCAATTATTCAGTAATAGTCAATTATTTAGAAATAATCAGTTATTCAGTA
ACAGTCT
Found at i:27939929 original size:44 final size:45
Alignment explanation
Indices: 27939858--27939965 Score: 164
Period size: 44 Copynumber: 2.4 Consensus size: 45
27939848 ACAAATCCGG
*
27939858 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
* * *
27939903 AACGGTAAC-GTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
*
27939947 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
27939966 ACAGTAGTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 40 0.70
45 17 0.30
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
Found at i:27939960 original size:12 final size:12
Alignment explanation
Indices: 27939943--27939967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27939933 AGTGCCGAAT
27939943 CGGTAACAGTAA
1 CGGTAACAGTAA
27939955 CGGTAACAGTAA
1 CGGTAACAGTAA
27939967 C
1 C
27939968 AGTAGTCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:27941635 original size:16 final size:16
Alignment explanation
Indices: 27941616--27941654 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
27941606 AATTTTTCCC
*
27941616 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
27941632 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
27941648 TCTTTCC
1 TTTTTCC
27941655 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:27952335 original size:24 final size:27
Alignment explanation
Indices: 27952306--27952355 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
27952296 TTATATAAGA
27952306 GAAAATACT-AT-ACA-TAGTTATACT
1 GAAAATACTAATAACAGTAGTTATACT
*
27952330 GAAAATAGTAATAACAGTAGTTATAC
1 GAAAATACTAATAACAGTAGTTATAC
27952356 AAAATATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 2 0.09
26 3 0.14
27 9 0.41
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (27 bp):
GAAAATACTAATAACAGTAGTTATACT
Found at i:27962205 original size:16 final size:18
Alignment explanation
Indices: 27962186--27962223 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
27962176 GTTTTAAGAA
27962186 TTATTTG-TCTTAT-TTT
1 TTATTTGTTCTTATGTTT
*
27962202 TTATTTGTTTTTATGTTT
1 TTATTTGTTCTTATGTTT
27962220 TTAT
1 TTAT
27962224 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (18 bp):
TTATTTGTTCTTATGTTT
Found at i:27963981 original size:19 final size:19
Alignment explanation
Indices: 27963959--27964015 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
27963949 ACGAACATTT
*
27963959 ACATAATCATTTAACATAC
1 ACATCATCATTTAACATAC
27963978 ACATCATCATTTAACATAC
1 ACATCATCATTTAACATAC
*
27963997 ACATCATAATTTAATCATA
1 ACATCATCATTTAA-CATA
27964016 TTGTCCCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 31 0.89
20 4 0.11
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (19 bp):
ACATCATCATTTAACATAC
Found at i:27964668 original size:15 final size:15
Alignment explanation
Indices: 27964648--27964678 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27964638 TTTCACCCAA
27964648 ATTAAACCTCAACAT
1 ATTAAACCTCAACAT
27964663 ATTAAACCTCAACAT
1 ATTAAACCTCAACAT
27964678 A
1 A
27964679 ACACATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
ATTAAACCTCAACAT
Found at i:27967864 original size:31 final size:30
Alignment explanation
Indices: 27967820--27967878 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
27967810 TAATGATATA
*
27967820 TAAAATATTTTAAA-ATTTTAAATATAATAG
1 TAAAATATTTTAAATAATTT-AATATAATAG
*
27967850 TAAATTATATTTAAATAATTTAATATAAT
1 TAAAATAT-TTTAAATAATTTAATATAAT
27967879 GATACATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 14 0.56
32 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
TAAAATATTTTAAATAATTTAATATAATAG
Found at i:27968310 original size:17 final size:19
Alignment explanation
Indices: 27968288--27968330 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
27968278 ATGGAAATAT
27968288 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
27968305 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
27968324 AATCTTA
1 AATCTTA
27968331 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:27968320 original size:19 final size:19
Alignment explanation
Indices: 27968296--27968332 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
27968286 ATAATCTTCA
27968296 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
27968315 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
27968333 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:27968358 original size:22 final size:22
Alignment explanation
Indices: 27968296--27968355 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
27968286 ATAATCTTCA
27968296 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
27968315 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
27968337 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
27968356 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:27968648 original size:19 final size:18
Alignment explanation
Indices: 27968624--27968659 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27968614 TTTCCCGGAT
*
27968624 TTTTTTTTATATATTTTAA
1 TTTTTTTAATA-ATTTTAA
27968643 TTTTTTTAATAATTTTA
1 TTTTTTTAATAATTTTA
27968660 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTTAATAATTTTAA
Found at i:27972471 original size:21 final size:20
Alignment explanation
Indices: 27972445--27972485 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
27972435 ACATACCTAT
* *
27972445 ATATATATTAAAGATATATAC
1 ATATATAATAAA-ACATATAC
27972466 ATATATAATAAAACATATAC
1 ATATATAATAAAACATATAC
27972486 CTAGATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATATAATAAAACATATAC
Found at i:27972565 original size:27 final size:26
Alignment explanation
Indices: 27972519--27972578 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
27972509 AGGGTAATAT
*
27972519 AAAAATATATACATGAAATAGTATAA
1 AAAAATATATACATAAAATAGTATAA
* *
27972545 AAAAATATATA-ACTAATAATATTTTAA
1 AAAAATATATACA-TAA-AATAGTATAA
27972572 AAAAATA
1 AAAAATA
27972579 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 13 0.45
27 15 0.52
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (26 bp):
AAAAATATATACATAAAATAGTATAA
Found at i:27972587 original size:5 final size:6
Alignment explanation
Indices: 27972572--27972596 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27972562 AATATTTTAA
27972572 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
27972597 TACATGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:27972614 original size:23 final size:23
Alignment explanation
Indices: 27972588--27972635 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
27972578 AAAAATAAAA
27972588 ATAAAAATATAC-ATGATATATAT
1 ATAAAAATATACGAT-ATATATAT
*
27972611 ATAAACATATACGATATATATAT
1 ATAAAAATATACGATATATATAT
27972634 AT
1 AT
27972636 TAGAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (23 bp):
ATAAAAATATACGATATATATAT
Found at i:27972628 original size:21 final size:22
Alignment explanation
Indices: 27972588--27972634 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
27972578 AAAAATAAAA
27972588 ATAAAAATATACATGATATATAT
1 ATAAAAATATACA-GATATATAT
*
27972611 ATAAACATATAC-GATATATAT
1 ATAAAAATATACAGATATATAT
27972632 ATA
1 ATA
27972635 TTAGAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.52
23 11 0.48
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAAAAATATACAGATATATAT
Found at i:27973656 original size:16 final size:16
Alignment explanation
Indices: 27973635--27973667 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27973625 TAGCCCATCA
27973635 TTAATTAGAATTTGAT
1 TTAATTAGAATTTGAT
27973651 TTAATTAGAATTTGAT
1 TTAATTAGAATTTGAT
27973667 T
1 T
27973668 AGAACTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
TTAATTAGAATTTGAT
Found at i:27973773 original size:21 final size:20
Alignment explanation
Indices: 27973715--27973776 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
27973705 TAATATAAAC
* *
27973715 ATTATAAATTTTAATAAAAAT
1 ATTAAAAATTATAA-AAAAAT
* * *
27973736 ATTAAAAACTGTAAAAAAGT
1 ATTAAAAATTATAAAAAAAT
27973756 ATTAACAAATTATAAAAAAAT
1 ATTAA-AAATTATAAAAAAAT
27973777 TATATGATAC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATTAAAAATTATAAAAAAAT
Found at i:27973885 original size:16 final size:15
Alignment explanation
Indices: 27973842--27973886 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
27973832 AATTGAGAAA
27973842 TTAAGTGCTGAATTT
1 TTAAGTGCTGAATTT
* *
27973857 TT-ACTGCTAAATTT
1 TTAAGTGCTGAATTT
27973871 TATAAGTGCTGAATTT
1 T-TAAGTGCTGAATTT
27973887 ATATTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.46
15 3 0.12
16 10 0.42
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (15 bp):
TTAAGTGCTGAATTT
Found at i:27973889 original size:15 final size:15
Alignment explanation
Indices: 27973843--27973889 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
27973833 ATTGAGAAAT
27973843 TAAGTGCTGAATTT-
1 TAAGTGCTGAATTTA
* * *
27973857 TTACTGCTAAATTTTA
1 TAAGTGCTGAA-TTTA
27973873 TAAGTGCTGAATTTA
1 TAAGTGCTGAATTTA
27973888 TA
1 TA
27973890 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
14 8 0.32
15 9 0.36
16 8 0.32
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (15 bp):
TAAGTGCTGAATTTA
Found at i:27974071 original size:21 final size:23
Alignment explanation
Indices: 27974029--27974078 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
27974019 TTTTGGATAA
*
27974029 TTTTTTGTAAAAGATGCTTAATT
1 TTTTTTGTAAAAGATGCATAATT
*
27974052 TTTTTTTTAAAAG-TG-ATAATT
1 TTTTTTGTAAAAGATGCATAATT
*
27974073 TATTTT
1 TTTTTT
27974079 AATTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 2 0.08
23 12 0.50
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (23 bp):
TTTTTTGTAAAAGATGCATAATT
Found at i:27974176 original size:15 final size:16
Alignment explanation
Indices: 27974148--27974180 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27974138 TTAATCTCAC
27974148 TATTATAATATTATCA
1 TATTATAATATTATCA
*
27974164 TATT-TAATTTTATCA
1 TATTATAATATTATCA
27974179 TA
1 TA
27974181 ATAATCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATAATATTATCA
Found at i:27996279 original size:3 final size:3
Alignment explanation
Indices: 27996271--27996313 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
27996261 GCCTATACGT
27996271 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27996314 GTTTATTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27996652 original size:32 final size:29
Alignment explanation
Indices: 27996588--27996665 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 29
27996578 ATTGAGGGTC
*
27996588 TAATTAAAATTTTTAAATTTTTGTGAGAT
1 TAATTAAAATTTTCAAATTTTTGTGAGAT
* *
27996617 TAATGT-GAATTTTCAAATATTTTAAGTGAGCT
1 TAAT-TAAAATTTTCAAAT-TTTT--GTGAGAT
27996649 TAATTAAAATTTTCAAA
1 TAATTAAAATTTTCAAA
27996666 AAAATTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 14 0.35
30 5 0.12
31 1 0.03
32 20 0.50
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (29 bp):
TAATTAAAATTTTCAAATTTTTGTGAGAT
Found at i:27999538 original size:14 final size:13
Alignment explanation
Indices: 27999506--27999544 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
27999496 TATGTGTTTA
*
27999506 ATTTTTCATTAAT
1 ATTTTTAATTAAT
27999519 -TTTTTAATATAAT
1 ATTTTTAAT-TAAT
27999532 ATTTTTAATTAAT
1 ATTTTTAATTAAT
27999545 GCAATTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 7 0.30
13 8 0.35
14 8 0.35
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTTAATTAAT
Found at i:28006731 original size:25 final size:25
Alignment explanation
Indices: 28006697--28006746 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
28006687 TTATTCTTCA
28006697 GTTTGCAGATAAATCAACTAAAAAG
1 GTTTGCAGATAAATCAACTAAAAAG
28006722 GTTTGCAGATAAATCAACTAAAAAG
1 GTTTGCAGATAAATCAACTAAAAAG
28006747 CAGGAGGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (25 bp):
GTTTGCAGATAAATCAACTAAAAAG
Found at i:28015952 original size:19 final size:20
Alignment explanation
Indices: 28015920--28015961 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
28015910 GGAAAAAAAT
28015920 ATTTGAGATGGCTAGGAAGA
1 ATTTGAGATGGCTAGGAAGA
*
28015940 ATTT-AGATTGCTAGGAAGA
1 ATTTGAGATGGCTAGGAAGA
28015959 ATT
1 ATT
28015962 CTAAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.31
Consensus pattern (20 bp):
ATTTGAGATGGCTAGGAAGA
Done.