Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 11 of 255
Found at i:3190729 original size:18 final size:17
Alignment explanation
Indices: 3190694--3190741 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
3190684 AGAGGCATAT
*
3190694 ATAATATAATATAAATA
1 ATAATATAACATAAATA
3190711 ATAATATAACATGAAATA
1 ATAATATAACAT-AAATA
3190729 ATAATATAA-ATAA
1 ATAATATAACATAA
3190742 TAGTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 14 0.48
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAATATAACATAAATA
Found at i:3190730 original size:15 final size:12
Alignment explanation
Indices: 3190690--3190761 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 12
3190680 ATGGAGAGGC
3190690 ATATATAAT-ATA
1 ATATA-AATAATA
3190702 ATATAAATAATA
1 ATATAAATAATA
3190714 ATATAACATGAAATA
1 ATATAA-AT--AATA
*
3190729 ATA-ATATAAATA
1 ATATAAAT-AATA
3190741 ATAGTAAA-AATA
1 ATA-TAAATAATA
3190753 ATA-AAATAA
1 ATATAAATAA
3190762 AAAAATAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
10 3 0.06
11 5 0.10
12 29 0.57
13 4 0.08
14 3 0.06
15 7 0.14
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:3191198 original size:13 final size:13
Alignment explanation
Indices: 3191180--3191252 Score: 76
Period size: 13 Copynumber: 5.7 Consensus size: 13
3191170 GGGTGGTTTA
3191180 GGTGGCCAAGGTG
1 GGTGGCCAAGGTG
***
3191193 GGTGGCCAACAAG
1 GGTGGCCAAGGTG
*** *
3191206 GGTGGTGGA-GTA
1 GGTGGCCAAGGTG
3191218 GGTGGCCAAGGTG
1 GGTGGCCAAGGTG
3191231 GGTGGCCAAGGTG
1 GGTGGCCAAGGTG
3191244 GGTGGCCAA
1 GGTGGCCAA
3191253 CAAGGGTGGT
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
12 6 0.13
13 40 0.87
ACGTcount: A:0.19, C:0.15, G:0.51, T:0.15
Consensus pattern (13 bp):
GGTGGCCAAGGTG
Found at i:3195548 original size:26 final size:26
Alignment explanation
Indices: 3195512--3195621 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
3195502 TGATACAAAT
*
3195512 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3195538 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
3195564 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
3195590 TGATAATGGGTTAGGTAAATGTTTCG
1 TGATAATAGGTTAGGTAAATGTTCCA
3195616 TGATAA
1 TGATAA
3195622 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:3197266 original size:27 final size:27
Alignment explanation
Indices: 3197225--3197337 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
3197215 GAGGAAGCAT
*
3197225 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
3197252 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
3197279 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
3197307 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
3197333 TCTGG
1 TCTGG
3197338 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:3197330 original size:54 final size:54
Alignment explanation
Indices: 3197224--3197337 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
3197214 GGAGGAAGCA
*
3197224 TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTG
* * * *
3197278 TTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTG
1 TTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTG
3197332 TTCTGG
1 TTCTGG
3197338 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTG
Found at i:3218824 original size:18 final size:19
Alignment explanation
Indices: 3218801--3218850 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
3218791 GACATATTTC
*
3218801 ATTTAATTTTAATAGA-TA
1 ATTTAATTTTAATAAATTA
*
3218819 ATTTAATTATAATAAATTA
1 ATTTAATTTTAATAAATTA
*
3218838 A-ATAATTTTAATA
1 ATTTAATTTTAATA
3218851 TATCTTAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTTAATTTTAATAAATTA
Found at i:3222100 original size:15 final size:14
Alignment explanation
Indices: 3222077--3222114 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3222067 ATTTGTCAGT
3222077 AAAAT-ATTTTCCGA
1 AAAATGATTTT-CGA
*
3222091 AAAATGATTTTTGA
1 AAAATGATTTTCGA
3222105 AAAATGATTT
1 AAAATGATTT
3222115 ACTTTTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (14 bp):
AAAATGATTTTCGA
Found at i:3222237 original size:16 final size:14
Alignment explanation
Indices: 3222205--3222239 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3222195 CTGTATTTAC
*
3222205 ATATATTGATAAAT
1 ATATATTAATAAAT
3222219 ATATATTAATAAAT
1 ATATATTAATAAAT
*
3222233 TTATATT
1 ATATATT
3222240 TTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
ATATATTAATAAAT
Found at i:3223845 original size:25 final size:25
Alignment explanation
Indices: 3223794--3223846 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
3223784 TTGATCACTC
**
3223794 AAACTCATCTTTTGAGTTGGAATAA
1 AAACTCATCTTTTGAGAGGGAATAA
*
3223819 AAACTCATCTTTTTAGAAGGGAA-AA
1 AAACTCATCTTTTGAG-AGGGAATAA
3223844 AAA
1 AAA
3223847 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (25 bp):
AAACTCATCTTTTGAGAGGGAATAA
Found at i:3224851 original size:17 final size:17
Alignment explanation
Indices: 3224829--3224863 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3224819 TCAATCAAAT
3224829 CCAAGAAAAAGTCGTCA
1 CCAAGAAAAAGTCGTCA
3224846 CCAAGAAAAAGTCGTCA
1 CCAAGAAAAAGTCGTCA
3224863 C
1 C
3224864 AATCACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.26, G:0.17, T:0.11
Consensus pattern (17 bp):
CCAAGAAAAAGTCGTCA
Found at i:3225981 original size:13 final size:13
Alignment explanation
Indices: 3225961--3226015 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
3225951 AAAATTGAAA
3225961 TATT-AAATAATT
1 TATTAAAATAATT
3225973 TATTAAAATAATT
1 TATTAAAATAATT
* * *
3225986 AATTATATTAATT
1 TATTAAAATAATT
3225999 ATATT--AATAATT
1 -TATTAAAATAATT
3226011 TATTA
1 TATTA
3226016 TATAATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 4 0.11
12 10 0.29
13 18 0.51
14 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTAAAATAATT
Found at i:3225995 original size:9 final size:9
Alignment explanation
Indices: 3225983--3226023 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
3225973 TATTAAAATA
3225983 ATTAATTAT
1 ATTAATTAT
3225992 ATTAATTAT
1 ATTAATTAT
3226001 ATTAA-TA-
1 ATTAATTAT
*
3226008 ATTTATTAT
1 ATTAATTAT
3226017 A-TAATTA
1 ATTAATTA
3226024 AATATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
7 4 0.14
8 9 0.32
9 15 0.54
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTAATTAT
Found at i:3226000 original size:25 final size:24
Alignment explanation
Indices: 3225978--3226038 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
3225968 TAATTTATTA
3225978 AAATAATTAATTATATTAATTATAT
1 AAATAATTAATTATA-TAATTATAT
* *
3226003 TAATAATTTATTATATAATTAAATAT
1 AAATAATTAATTATATAATT--ATAT
3226029 AAATAATTAA
1 AAATAATTAA
3226039 ATATGTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.17
25 13 0.43
26 12 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATAATTAATTATATAATTATAT
Found at i:3226030 original size:22 final size:23
Alignment explanation
Indices: 3225974--3226037 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
3225964 TAAATAATTT
3225974 ATTAAA-ATAATTAATTATATTA
1 ATTAAATATAATTAATTATATTA
* *
3225996 ATTATATTAATAATTTATTATA-TA
1 ATTA-AAT-ATAATTAATTATATTA
*
3226020 ATTAAATATAAATAATTA
1 ATTAAATATAATTAATTA
3226038 AATATGTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 13 0.38
23 3 0.09
24 6 0.18
25 12 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTAAATATAATTAATTATATTA
Found at i:3226036 original size:38 final size:39
Alignment explanation
Indices: 3225960--3226037 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
3225950 TAAAATTGAA
* *
3225960 ATATTAAATAATTTATTAAAATAATTAATTATATTAATT
1 ATATTAAATAATTTATTAAAATAATTAAATATAATAATT
*
3225999 ATATT-AATAATTTATT-ATATAATTAAATATAAATAATT
1 ATATTAAATAATTTATTAAAATAATTAAATAT-AATAATT
3226037 A
1 A
3226038 AATATGTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 12 0.34
38 18 0.51
39 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (39 bp):
ATATTAAATAATTTATTAAAATAATTAAATATAATAATT
Found at i:3226604 original size:13 final size:13
Alignment explanation
Indices: 3226586--3226612 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3226576 ATATATTTGC
3226586 ATATATATATATA
1 ATATATATATATA
3226599 ATATATATATATA
1 ATATATATATATA
3226612 A
1 A
3226613 AAATTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATATATATA
Found at i:3230101 original size:14 final size:14
Alignment explanation
Indices: 3230082--3230109 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3230072 AAATTTAAAA
3230082 CATATTTTGAAATT
1 CATATTTTGAAATT
3230096 CATATTTTGAAATT
1 CATATTTTGAAATT
3230110 ATTTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
CATATTTTGAAATT
Found at i:3237392 original size:13 final size:13
Alignment explanation
Indices: 3237374--3237401 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3237364 ATAAATATAC
3237374 CTATATTTTTAAA
1 CTATATTTTTAAA
3237387 CTATATTTTTAAA
1 CTATATTTTTAAA
3237400 CT
1 CT
3237402 TAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (13 bp):
CTATATTTTTAAA
Found at i:3238294 original size:9 final size:9
Alignment explanation
Indices: 3238280--3238342 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
3238270 TTATCATACT
3238280 AAAATTAAA
1 AAAATTAAA
3238289 AAAATTTCAAA
1 AAAA-TT-AAA
3238300 AAAATCT-AA
1 AAAAT-TAAA
3238309 AAAATATAAA
1 AAAAT-TAAA
*
3238319 GAAAGTTAAA
1 -AAAATTAAA
3238329 AAAA-TAAA
1 AAAATTAAA
3238337 AAAATT
1 AAAATT
3238343 TCTAGAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 8 0.18
9 16 0.36
10 9 0.20
11 12 0.27
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAATTAAA
Found at i:3244907 original size:10 final size:10
Alignment explanation
Indices: 3244877--3245018 Score: 66
Period size: 10 Copynumber: 14.9 Consensus size: 10
3244867 TTAAATGATT
3244877 TTTTTTAT-A
1 TTTTTTATAA
3244886 TTTTTTAT-A
1 TTTTTTATAA
*
3244895 TTTTTAATAA
1 TTTTTTATAA
* *
3244905 TTTATCATAA
1 TTTTTTATAA
3244915 TTTTTTATAA
1 TTTTTTATAA
* ** **
3244925 CTAATTAGGA
1 TTTTTTATAA
* *
3244935 TATTTT-GAA
1 TTTTTTATAA
3244944 TTTTTTATAA
1 TTTTTTATAA
** *
3244954 AATTTTA-AT
1 TTTTTTATAA
3244963 TTTTTTATTAA
1 TTTTTTA-TAA
3244974 --TTTTAT-A
1 TTTTTTATAA
3244981 -TTTTTATAA
1 TTTTTTATAA
*
3244990 TTTATTATAA
1 TTTTTTATAA
** *
3245000 GCTTTTATGA
1 TTTTTTATAA
3245010 TTTTTTATA
1 TTTTTTATA
3245019 TAAATTATTT
Statistics
Matches: 95, Mismatches: 31, Indels: 13
0.68 0.22 0.09
Matches are distributed among these distances:
7 1 0.01
8 7 0.07
9 35 0.37
10 51 0.54
11 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:3244965 original size:18 final size:18
Alignment explanation
Indices: 3244936--3244989 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
3244926 TAATTAGGAT
3244936 ATTTTGAATTTTTTATAAA
1 ATTTT-AATTTTTTATAAA
*
3244955 ATTTTAATTTTTT-TATTA
1 ATTTTAATTTTTTATA-AA
3244973 ATTTT-ATATTTTTATAA
1 ATTTTAAT-TTTTTATAA
3244990 TTTATTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 4 0.13
18 19 0.63
19 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTAATTTTTTATAAA
Found at i:3244966 original size:19 final size:18
Alignment explanation
Indices: 3244944--3244989 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
3244934 ATATTTTGAA
3244944 TTTTTTATAAAATTTTAAT
1 TTTTTTATAAAATTTT-AT
*
3244963 TTTTTTAT-TAATTTTAT
1 TTTTTTATAAAATTTTAT
*
3244980 ATTTTTATAA
1 TTTTTTATAA
3244990 TTTATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 9 0.39
18 6 0.26
19 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTATAAAATTTTAT
Found at i:3249119 original size:131 final size:130
Alignment explanation
Indices: 3248955--3249237 Score: 304
Period size: 131 Copynumber: 2.2 Consensus size: 130
3248945 AATCAAGACC
* * * * * *
3248955 TAAAGGAATACTCGATTGTTTTGAACAAACGAGAAATCAC-AACCCAGCACGATAAGGCATGATT
1 TAAAGGGATATTCGATTATTTTAAACAAACGAGAAATCACTAACCCA-CACGATAAGGCACGATC
* * *
3249019 CC-CGAATTGTCAAACACC-GAGTATTGCCCTCATTTTAAAGGATTTTTAAAAGAGC-CGAGTGA
65 CCACGAATTGCCAAACACCAGA-TATCGCCCTCATTTT-AAGGA-TTTTAAAAGA-CACGAGCGA
3249081 AATTT
126 AATTT
* * * ** * * *
3249086 TGAAGGGATATTTGATTATTTTAAACAATCGAGAAATTGCTACCCCACACGTTAGGGCACGATCC
1 TAAAGGGATATTCGATTATTTTAAACAAACGAGAAATCACTAACCCACACGATAAGGCACGATCC
* * *
3249151 CACGAATTGCCAAATACCAGATATCGCCTTCATTTTAGGGATTTTAAAAGACACGAGCGAAATTT
66 CACGAATTGCCAAACACCAGATATCGCCCTCATTTTAAGGATTTTAAAAGACACGAGCGAAATTT
*
3249216 TAAAGTGATATTCGATTATTTT
1 TAAAGGGATATTCGATTATTTT
3249238 GAGCAGATGC
Statistics
Matches: 125, Mismatches: 23, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
129 1 0.01
130 40 0.32
131 50 0.40
132 32 0.26
133 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (130 bp):
TAAAGGGATATTCGATTATTTTAAACAAACGAGAAATCACTAACCCACACGATAAGGCACGATCC
CACGAATTGCCAAACACCAGATATCGCCCTCATTTTAAGGATTTTAAAAGACACGAGCGAAATTT
Found at i:3249226 original size:130 final size:132
Alignment explanation
Indices: 3249021--3249426 Score: 346
Period size: 130 Copynumber: 3.1 Consensus size: 132
3249011 GCATGATTCC
* * *
3249021 CGAATTGTCAAACACCGAGTATTGCCCTCATTTTAAAGGATTTTTAAAAGAGCCGAGTGAAATTT
1 CGAATTGCCAAACACCGAGTATCGCCCTCATTTTAAAGGATTTTTAAAAGAGCCGAGCGAAATTT
* * *
3249086 TGAAGGGATATTTGATTATTTTAAACA-ATCGAGAAATTGCTA-CCCCACACGTTAGGGCACGAT
66 TAAAGGGATATTCGATTATTTTAAACAGAT-GAGAAATTGC-AGCCCAACACGTTAGGGCACGAT
3249149 CCCA
129 CCCA
* * *
3249153 CGAATTGCCAAATACC-AGATATCGCCTTCATTTT-AGGGA-TTTTAAAAGA-CACGAGCGAAAT
1 CGAATTGCCAAACACCGAG-TATCGCCCTCATTTTAAAGGATTTTTAAAAGAGC-CGAGCGAAAT
* * * *
3249214 TTTAAAGTGATATTCGATTATTTTGAGCAGATGCGAAATTGCAGCCCAACACGTTAGGGCACGAT
64 TTTAAAGGGATATTCGATTATTTTAAACAGATGAGAAATTGCAGCCCAACACGTTAGGGCACGAT
* *
3249279 TCCG
129 CCCA
* * * * * * * *** ** *
3249283 CGAATTGCCAAACATC-A-AATCTCATCTTAGTTTAAGGGA-TTTTAAAAGATATGAATGGAATT
1 CGAATTGCCAAACACCGAGTATCGC-CCTCATTTTAAAGGATTTTTAAAAGAGCCGAGCGAAATT
** * * * * *
3249345 TCGAAGGGAAATTCGATTATTTTGAGCAAAT-ACGAAATTGCAACCCAACACGTTAGGGCACGAT
65 TTAAAGGGATATTCGATTATTTTAAACAGATGA-GAAATTGCAGCCCAACACGTTAGGGCACGAT
* *
3249409 TCCG
129 CCCA
*
3249413 CGAATTGCCGAACA
1 CGAATTGCCAAACA
3249427 TCAAATTTCG
Statistics
Matches: 230, Mismatches: 36, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
128 4 0.02
129 7 0.03
130 184 0.80
131 8 0.03
132 27 0.12
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (132 bp):
CGAATTGCCAAACACCGAGTATCGCCCTCATTTTAAAGGATTTTTAAAAGAGCCGAGCGAAATTT
TAAAGGGATATTCGATTATTTTAAACAGATGAGAAATTGCAGCCCAACACGTTAGGGCACGATCC
CA
Found at i:3249427 original size:130 final size:130
Alignment explanation
Indices: 3249118--3249432 Score: 398
Period size: 130 Copynumber: 2.4 Consensus size: 130
3249108 AAACAATCGA
* * * * * * * *
3249118 GAAATTGCTACCCCACACGTTAGGGCACGATCCCACGAATTGCCAAATACCAGATATCGCCTTCA
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCACCTTCA
* * * * * * *
3249183 TTTTAGGGATTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTCGATTATTTTGAGCAGATGC
66 TTTAAGGGATTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATAC
* * *
3249248 GAAATTGCAGCCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTCATCTT-A
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCACCTTCA
* * * * *
3249312 GTTTAAGGGATTTTAAAAGATATGAATGGAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATA
66 -TTTAAGGGATTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATA
3249377 C
130 C
*
3249378 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACATCAAAT
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAAT
3249433 TTCGTCTTCG
Statistics
Matches: 159, Mismatches: 25, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
129 1 0.01
130 158 0.99
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (130 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCACCTTCA
TTTAAGGGATTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATAC
Found at i:3253110 original size:31 final size:30
Alignment explanation
Indices: 3253027--3253114 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 30
3253017 CTATGGGCCA
*
3253027 TTTCTTTTTTTGGTCATTCAATTATGAATTT
1 TTTC-TTTTTTGGTCACTCAATTATGAATTT
**
3253058 TTT-TTAAATTGGTCACTCAATTATGAATTT
1 TTTCTT-TTTTGGTCACTCAATTATGAATTT
* *
3253088 GTTTCTTTTTTGGTGACCCAATTATGA
1 -TTTCTTTTTTGGTCACTCAATTATGA
3253115 TGTTTGGCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 2 0.04
30 21 0.45
31 22 0.47
32 2 0.04
ACGTcount: A:0.23, C:0.11, G:0.12, T:0.53
Consensus pattern (30 bp):
TTTCTTTTTTGGTCACTCAATTATGAATTT
Found at i:3260190 original size:27 final size:27
Alignment explanation
Indices: 3260145--3260249 Score: 99
Period size: 27 Copynumber: 3.9 Consensus size: 27
3260135 GCGAGGCTGC
* *
3260145 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
3260172 CAGATATTGTGGCAGAGTCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
3260198 CAGATGTATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
3260225 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
3260250 GACAGGACGC
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.11
27 56 0.86
28 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:3261880 original size:26 final size:26
Alignment explanation
Indices: 3261850--3261905 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
3261840 TGAAATTCCC
*
3261850 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
3261876 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
3261902 ATCA
1 ATCA
3261906 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:3268136 original size:27 final size:27
Alignment explanation
Indices: 3268089--3268246 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 27
3268079 GAGAGGCTGC
* *
3268089 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* **
3268116 CAGATATTGTGTCAGAATCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
3268142 CAGATCTATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
3268169 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
3268196 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
3268223 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
3268247 AGACGCTTCC
Statistics
Matches: 109, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
26 9 0.08
27 96 0.88
28 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:3268192 original size:54 final size:54
Alignment explanation
Indices: 3268107--3268246 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
3268097 GTGACGAAGT
* * ** *
3268107 CACCAGATACAGAT-ATTGTGTCAGAATCACCAGAACAGATCTATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
3268161 CACTAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
3268215 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
3268247 AGACGCTTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:3276692 original size:22 final size:22
Alignment explanation
Indices: 3276667--3276714 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
3276657 GTAGGAATAA
3276667 CTGTATCTGAACTGGAAATGTT
1 CTGTATCTGAACTGGAAATGTT
3276689 CTGTATCTGAACTGGAAATGTT
1 CTGTATCTGAACTGGAAATGTT
3276711 CTGT
1 CTGT
3276715 TATATAGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (22 bp):
CTGTATCTGAACTGGAAATGTT
Found at i:3288444 original size:23 final size:21
Alignment explanation
Indices: 3288418--3288473 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
3288408 CTTGCTTTTA
3288418 TATTATATATTGTAAGATTATTT
1 TATTATATATT-TAAGATTA-TT
*
3288441 TATTATATATATTAATATTATT
1 TATTATATAT-TTAAGATTATT
*
3288463 TATTATCTATT
1 TATTATATATT
3288474 ACTTTTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 17 0.57
24 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTATATATTTAAGATTATT
Found at i:3288530 original size:16 final size:15
Alignment explanation
Indices: 3288485--3288532 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
3288475 CTTTTCACAA
3288485 ATTATTATTATTTTAC
1 ATTATTATT-TTTTAC
* *
3288501 ATCATTATTTTTTTAT
1 ATTATTA-TTTTTTAC
3288517 ATTATTATATTTTTAC
1 ATTATTAT-TTTTTAC
3288533 TTGTATTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 23 0.88
17 2 0.08
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATTATTTTTTAC
Found at i:3288982 original size:21 final size:21
Alignment explanation
Indices: 3288943--3288983 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3288933 ACCCCATATA
*
3288943 TTTTATATATAATTATTATTC
1 TTTTATAAATAATTATTATTC
* *
3288964 TTTTATAAATATTTGTTATT
1 TTTTATAAATAATTATTATT
3288984 ATGTTTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATAAATAATTATTATTC
Found at i:3289223 original size:33 final size:33
Alignment explanation
Indices: 3289178--3289252 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
3289168 TTGATATTGT
3289178 ATTACT-CTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
*
3289210 ATTATTACTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
3289243 ATTACTACTT
1 ATTACTACTT
3289253 CGTATGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 5 0.12
33 35 0.88
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (33 bp):
ATTACTACTTTTTTGTATATCATGCATTATTTA
Found at i:3295091 original size:21 final size:19
Alignment explanation
Indices: 3295046--3295092 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
3295036 TGGAGGAAAT
3295046 AAAAAAATCCGAAACAACA
1 AAAAAAATCCGAAACAACA
*
3295065 AGAAAAATCTTCGAAACAA-A
1 AAAAAAATC--CGAAACAACA
*
3295085 GAAAAAAT
1 AAAAAAAT
3295093 TTAATCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.35
20 7 0.30
21 8 0.35
ACGTcount: A:0.66, C:0.15, G:0.09, T:0.11
Consensus pattern (19 bp):
AAAAAAATCCGAAACAACA
Found at i:3309506 original size:23 final size:21
Alignment explanation
Indices: 3309480--3309535 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
3309470 CTTGCTTTTA
3309480 TATTATATATTGTAAGATTATTT
1 TATTATATATT-TAAGATTA-TT
*
3309503 TATTATATATATTAATATTATT
1 TATTATATAT-TTAAGATTATT
*
3309525 TATTATCTATT
1 TATTATATATT
3309536 ACTTTTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 17 0.57
24 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTATATATTTAAGATTATT
Found at i:3309592 original size:16 final size:15
Alignment explanation
Indices: 3309547--3309593 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
3309537 CTTTTCACAA
3309547 ATTATTATTATTTTAC
1 ATTATTATT-TTTTAC
* *
3309563 ATCATTATTTTTTAT
1 ATTATTATTTTTTAC
3309578 ATTATTATATTTTTAC
1 ATTATTAT-TTTTTAC
3309594 TTGTATTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTATTTTTTAC
Found at i:3309720 original size:20 final size:20
Alignment explanation
Indices: 3309675--3309725 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
3309665 ATTATATTTC
*
3309675 TTATTTTCTATATATATAATT
1 TTATTTTAT-TATATATAATT
*
3309696 ATATTTTATTATATA-ACATT
1 TTATTTTATTATATATA-ATT
*
3309716 TTATTATATT
1 TTATTTTATT
3309726 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 17 0.68
21 7 0.28
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATTTTATTATATATAATT
Found at i:3310286 original size:33 final size:33
Alignment explanation
Indices: 3310241--3310315 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
3310231 TTGATATTGT
3310241 ATTACT-CTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
*
3310273 ATTATTACTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
3310306 ATTACTACTT
1 ATTACTACTT
3310316 CGTATGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 5 0.12
33 35 0.88
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (33 bp):
ATTACTACTTTTTTGTATATCATGCATTATTTA
Found at i:3317943 original size:18 final size:18
Alignment explanation
Indices: 3317907--3318078 Score: 193
Period size: 18 Copynumber: 9.9 Consensus size: 18
3317897 AATCATATCT
*
3317907 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
3317926 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
3317944 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
3317961 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
3317979 TCTAAGATTG----CA-A
1 TCTAAGATTGCAATCATA
*
3317992 TC--AGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
3318007 TCCAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
3318025 TCTAAGATTGTAA-CATA
1 TCTAAGATTGCAATCATA
*
3318042 TCTAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
3318061 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
3318079 TGAAGATTAT
Statistics
Matches: 134, Mismatches: 9, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.04
13 3 0.02
14 4 0.03
15 3 0.02
17 37 0.28
18 50 0.37
19 31 0.23
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:3317965 original size:35 final size:36
Alignment explanation
Indices: 3317907--3318078 Score: 195
Period size: 35 Copynumber: 5.0 Consensus size: 36
3317897 AATCATATCT
3317907 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
3317944 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
3317979 TCTAAGATTG----CA-ATC--AGATTG-TATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
* *
3318007 TCCAAGATTGCA-ATCATATCTAAGATTGTAA-CATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
*
3318042 TCTAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
3318079 TGAAGATTAT
Statistics
Matches: 118, Mismatches: 6, Indels: 21
0.81 0.04 0.14
Matches are distributed among these distances:
28 15 0.13
29 6 0.05
31 3 0.03
32 4 0.03
33 3 0.03
35 56 0.47
36 17 0.14
37 11 0.09
38 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:3318017 original size:81 final size:83
Alignment explanation
Indices: 3317919--3318077 Score: 277
Period size: 81 Copynumber: 1.9 Consensus size: 83
3317909 TAAGATTGTA
* * *
3317919 TATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCA-ATCATATCTA
1 TATCATATCCAAGATTGCAATCATATCTAAGATTGTAACATATCTAAGATTGCATATCACATCTA
3317983 AGATTGCA-ATCAGATTG
66 AGATTGCATATCAGATTG
3318000 TATCATATCCAAGATTGCAATCATATCTAAGATTGTAACATATCTAAGATTGCATATCACATCTA
1 TATCATATCCAAGATTGCAATCATATCTAAGATTGTAACATATCTAAGATTGCATATCACATCTA
3318065 AGATTGCATATCA
66 AGATTGCATATCA
3318078 TTGAAGATTA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
81 52 0.71
82 17 0.23
83 4 0.05
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (83 bp):
TATCATATCCAAGATTGCAATCATATCTAAGATTGTAACATATCTAAGATTGCATATCACATCTA
AGATTGCATATCAGATTG
Found at i:3318927 original size:207 final size:207
Alignment explanation
Indices: 3318472--3319595 Score: 1901
Period size: 207 Copynumber: 5.4 Consensus size: 207
3318462 AAATCTGCTT
* * * * *
3318472 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * ** * *
3318537 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTCATAAGCACAATGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * *
3318602 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
3318666 GGAGACGCCAAA
196 GGAGACGCCAAA
* * *
3318678 CTTCGATTTGTTCTCTGACAATACAGAGATGCGAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
3318743 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
3318808 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
3318873 GGAGACGCCCAA
196 GGAGACGCCAAA
3318885 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
3318950 GTGAAAACCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
3319015 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
3319080 GGAGACGCCAAA
196 GGAGACGCCAAA
3319092 CTTCGATTTGTTCTCT-AACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
1 CTTCGATTTGTTCTCTGAA-AATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
3319156 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
3319221 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCATATCTGCTATGTGTCTGCCCTCCGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
3319286 TGGAGACGCCAAA
195 TGGAGACGCCAAA
*
3319299 CTTCGATTTGTTCTCTGATAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
3319364 GTGAAAACCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
3319429 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
3319494 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
3319506 CTTTGATTTGTTCTCTGATAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
3319571 GTGAATGCCAAATCAGCTATGTCTT
66 GTGAAAGCCAAATCAGCTATGTCTT
3319596 GGTCTATTAC
Statistics
Matches: 873, Mismatches: 42, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
206 127 0.15
207 745 0.85
208 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:3319873 original size:85 final size:85
Alignment explanation
Indices: 3319602--3319963 Score: 481
Period size: 85 Copynumber: 4.3 Consensus size: 85
3319592 TCTTGGTCTA
* * * *
3319602 TTACCTTACTGCTTAGGGG-TTAAGGTGCATTGTCTTAGATCTGCTCCTCTATTGCTTAGGGA-A
1 TTACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTAGATCTGCTCCACTACTGCTTAGGGAGA
3319665 ATAAGATCTGCAAATTTAACCTG
63 ATAAGATCTGCAAATTTAACCTG
* * *
3319688 TTACCCTACTACTTAGGGGATTAAGACGAGTCGTCATAGATCTGCTCCGCTACTGCTTAGGGAG-
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TAGATCTGCTCCACTACTGCTTAGGGAGA
*
3319752 ATAAGATCTGC-----GAACCTG
63 ATAAGATCTGCAAATTTAACCTG
* * *
3319770 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGGGGAATA
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTAGATCTGCTCCACTACTGCTTAGGGAGAATA
*
3319835 AGATCTACAAATTTAACCTG
66 AGATCTGCAAATTTAACCTG
* *
3319855 TTACCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAATA
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTAGATCTGCTCCACTACTGCTTAGGGAGAATA
3319920 AGATCTGCAAATTT-ACCTG
66 AGATCTGCAAATTTAACCTG
3319939 TTACCCTACTGCTTAGGGGATTAAG
1 TTACCCTACTGCTTAGGGGATTAAG
3319964 AGGCTGAATT
Statistics
Matches: 246, Mismatches: 19, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
79 24 0.10
80 10 0.04
81 1 0.00
82 36 0.15
84 33 0.13
85 82 0.33
86 18 0.07
87 42 0.17
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (85 bp):
TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTAGATCTGCTCCACTACTGCTTAGGGAGAATA
AGATCTGCAAATTTAACCTG
Found at i:3319908 original size:41 final size:41
Alignment explanation
Indices: 3319693--3319913 Score: 132
Period size: 41 Copynumber: 5.3 Consensus size: 41
3319683 ACCTGTTACC
* * * *
3319693 CTACTACTTAGGGGATTAAGACGAGTCGTCATAGATCTGCTCCG
1 CTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCA
* * *
3319737 CTACTGCTTAGGGAGA-TAA---GA-TCTGCGAACCTGTTACC-
1 CTACTGCTTAGGG-GATTAAGGCGAGTCTTCG-ATCTGCT-CCA
3319775 CTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCA
* * * * *** ** * *
3319816 CTACTACTTAGGGGGAATAAGATCTACAAATTTAACCTGTTACC-
1 CTACTGCTTA-GGGGATTAAG-GCGA-GTCTTCGATCTGCT-CCA
*
3319860 CTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCA
3319901 CTACTGCTTAGGG
1 CTACTGCTTAGGG
3319914 AGAATAAGAT
Statistics
Matches: 132, Mismatches: 31, Indels: 31
0.68 0.16 0.16
Matches are distributed among these distances:
37 3 0.02
38 21 0.16
39 3 0.02
40 6 0.05
41 38 0.29
42 15 0.11
43 11 0.08
44 31 0.23
45 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (41 bp):
CTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCA
Found at i:3320909 original size:8 final size:8
Alignment explanation
Indices: 3320896--3320929 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
3320886 GGCCTCTCTA
3320896 TTTTTCTT
1 TTTTTCTT
3320904 TTTTTCTT
1 TTTTTCTT
3320912 TTTTT-TT
1 TTTTTCTT
3320919 TTTTTACTT
1 TTTTT-CTT
3320928 TT
1 TT
3320930 GAAATAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 13 0.54
9 4 0.17
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTCTT
Found at i:3322426 original size:11 final size:10
Alignment explanation
Indices: 3322410--3322436 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3322400 TTATATATAA
3322410 TTTTTTTCTT
1 TTTTTTTCTT
3322420 TTTTTTTCTT
1 TTTTTTTCTT
3322430 TTTTTTT
1 TTTTTTT
3322437 GAAATGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:3326651 original size:19 final size:19
Alignment explanation
Indices: 3326627--3326752 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
3326617 AATCATATCT
*
3326627 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
3326646 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
3326664 TCTAAGATTG--TACCATA
1 TCTAAGATTGCATATCATA
3326681 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
3326699 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
3326716 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
3326735 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
3326753 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:3326688 original size:35 final size:35
Alignment explanation
Indices: 3326627--3326744 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
3326617 AATCATATCT
3326627 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
3326664 TCTAAGATTGTACCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
3326699 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
3326735 TCTAAGATTG
1 TCTAAGATTG
3326745 CATATCATTG
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 52 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:3335732 original size:313 final size:313
Alignment explanation
Indices: 3335164--3335794 Score: 1226
Period size: 313 Copynumber: 2.0 Consensus size: 313
3335154 GACCCTCAAA
3335164 CCACCGTGTACGACGAAGCGTGGGGCGCGTGTAGGACCGATGACCGGAGCGTGGCCTACGGAGGC
1 CCACCGTGTACGACGAAGCGTGGGGCGCGTGTAGGACCGATGACCGGAGCGTGGCCTACGGAGGC
3335229 CAGACCCAGAGCTCTTCTCCTCTCCCCTCTTTCAGAGGAAATTTTAAAGTTTTTTTTAACTCGGG
66 CAGACCCAGAGCTCTTCTCCTCTCCCCTCTTTCAGAGGAAATTTTAAAGTTTTTTTTAACTCGGG
3335294 TTTCAAAAGAATATAAAACTAAAAATTTGGCTTATATAGCCTTAACAGAACGACGCTGTTTTAGC
131 TTTCAAAAGAATATAAAACTAAAAATTTGGCTTATATAGCCTTAACAGAACGACGCTGTTTTAGC
*
3335359 TTAATCCAATAAGCTTAAAACGTCGTCGTATTAAGACTAAGGATCCGCACGTTGACCCGATTACC
196 TTAATCCAATAAGCTTAAAACGTCATCGTATTAAGACTAAGGATCCGCACGTTGACCCGATTACC
3335424 TGGGAAGGATCCGCGTGTTTTTGAGGATTGGGTTAATTACTCAATTGGTCCTT
261 TGGGAAGGATCCGCGTGTTTTTGAGGATTGGGTTAATTACTCAATTGGTCCTT
3335477 CCACCGTGTACGACGAAGCGTGGGGCGCGTGTAGGACCGATGACCGGAGCGTGGCCTACGGAGGC
1 CCACCGTGTACGACGAAGCGTGGGGCGCGTGTAGGACCGATGACCGGAGCGTGGCCTACGGAGGC
3335542 CAGACCCAGAGCTCTTCTCCTCTCCCCTCTTTCAGAGGAAATTTTAAAGTTTTTTTTAACTCGGG
66 CAGACCCAGAGCTCTTCTCCTCTCCCCTCTTTCAGAGGAAATTTTAAAGTTTTTTTTAACTCGGG
* *
3335607 TTTCAAATGAATATAAAACTAAAAATTTGGCTTATATAGCCTTAACAGAACGACGTTGTTTTAGC
131 TTTCAAAAGAATATAAAACTAAAAATTTGGCTTATATAGCCTTAACAGAACGACGCTGTTTTAGC
*
3335672 TTAATCCAATAAGCTTAAAACGTCATCGTATTAAGACTAAGGATCCGCGCGTTGACCCGATTACC
196 TTAATCCAATAAGCTTAAAACGTCATCGTATTAAGACTAAGGATCCGCACGTTGACCCGATTACC
3335737 TGGGAAGGATCCGCGTGTTTTTGAGGATTGGGTTAATTACTCAATTGGTCCTT
261 TGGGAAGGATCCGCGTGTTTTTGAGGATTGGGTTAATTACTCAATTGGTCCTT
3335790 CCACC
1 CCACC
3335795 TTTTTTGTGT
Statistics
Matches: 314, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
313 314 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (313 bp):
CCACCGTGTACGACGAAGCGTGGGGCGCGTGTAGGACCGATGACCGGAGCGTGGCCTACGGAGGC
CAGACCCAGAGCTCTTCTCCTCTCCCCTCTTTCAGAGGAAATTTTAAAGTTTTTTTTAACTCGGG
TTTCAAAAGAATATAAAACTAAAAATTTGGCTTATATAGCCTTAACAGAACGACGCTGTTTTAGC
TTAATCCAATAAGCTTAAAACGTCATCGTATTAAGACTAAGGATCCGCACGTTGACCCGATTACC
TGGGAAGGATCCGCGTGTTTTTGAGGATTGGGTTAATTACTCAATTGGTCCTT
Found at i:3336062 original size:20 final size:19
Alignment explanation
Indices: 3336039--3336152 Score: 79
Period size: 20 Copynumber: 5.6 Consensus size: 19
3336029 AATCTAACCC
3336039 TATATATTTATTTCTATTAT
1 TATATATTTATTT-TATTAT
*
3336059 TATATATATAATTTTATTAT
1 TATATAT-TTATTTTATTAT
* *
3336079 TAT-TATTTGTTTTATTTT
1 TATATATTTATTTTATTAT
* *
3336097 TAACCTTATTTTTATATTATATAT
1 T-A---TATATTTATTTTAT-TAT
*
3336121 TATATAATTATTTTATGTTAT
1 TATATATTTATTTTA--TTAT
3336142 TAT-TATTTATT
1 TATATATTTATT
3336153 ATATATTACT
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
18 10 0.14
19 4 0.05
20 33 0.45
21 11 0.15
22 2 0.03
23 10 0.14
24 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (19 bp):
TATATATTTATTTTATTAT
Found at i:3336112 original size:50 final size:52
Alignment explanation
Indices: 3336053--3336150 Score: 123
Period size: 50 Copynumber: 1.9 Consensus size: 52
3336043 TATTTATTTC
* *
3336053 TATTATTATA-TATATAATTTTATTATTATTATT-TGTT-TTATT-TTTAACCT
1 TATTATTATATTATAT-ATTATATAATTATT-TTATGTTATTATTATTTAACCT
*
3336103 TATTTTTATATTATATATTATATAATTATTTTATGTTATTATTATTTA
1 TATTATTATATTATATATTATATAATTATTTTATGTTATTATTATTTA
3336151 TTATATATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 2 0.05
50 25 0.61
51 10 0.24
52 4 0.10
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (52 bp):
TATTATTATATTATATATTATATAATTATTTTATGTTATTATTATTTAACCT
Found at i:3336123 original size:18 final size:18
Alignment explanation
Indices: 3336039--3336165 Score: 57
Period size: 20 Copynumber: 6.7 Consensus size: 18
3336029 AATCTAACCC
*
3336039 TATATATTTATTTCTATTAT
1 TATATA-TTATTTTTA-TAT
*
3336059 TATATATATAATTTTATTAT
1 TATATAT-TATTTTTA-TAT
3336079 TAT-TATT-TGTTTTAT-T
1 TATATATTAT-TTTTATAT
*
3336095 TTTA-ACCTTATTTTTATAT
1 TATATA--TTATTTTTATAT
* *
3336114 TATATATTATATAATTATTT
1 TATATATTAT-T-TTTATAT
* *
3336134 TATGTTATTATTATT-TAT
1 TAT-ATATTATTTTTATAT
3336152 TATATATTACTTTT
1 TATATATTA-TTTT
3336166 CACAAAATAT
Statistics
Matches: 84, Mismatches: 11, Indels: 26
0.69 0.09 0.21
Matches are distributed among these distances:
16 4 0.05
17 6 0.07
18 26 0.31
19 13 0.15
20 29 0.35
21 6 0.07
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (18 bp):
TATATATTATTTTTATAT
Found at i:3336206 original size:14 final size:14
Alignment explanation
Indices: 3336172--3336209 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3336162 TTTTCACAAA
*
3336172 ATATTATTAT-TTT
1 ATATTATTATCTAT
*
3336185 ACATTATTATCTAT
1 ATATTATTATCTAT
3336199 ATATTATTATC
1 ATATTATTATC
3336210 ATTAAAGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTATTATCTAT
Found at i:3336366 original size:21 final size:23
Alignment explanation
Indices: 3336341--3336399 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
3336331 ATCATTAATT
*
3336341 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
3336362 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
3336386 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
3336400 AATATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:3336473 original size:18 final size:18
Alignment explanation
Indices: 3336452--3336512 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
3336442 TTCTAAACCA
*
3336452 ATATATTTTTTTTATTTT
1 ATATATTTTTATTATTTT
*
3336470 ATATATAATTATTATTCTTTT
1 ATATAT--TT-TTATTATTTT
* * *
3336491 ATAAATTTTTGTTATTAT
1 ATATATTTTTATTATTTT
3336509 ATAT
1 ATAT
3336513 TGTATATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 16 0.48
19 2 0.06
20 2 0.06
21 13 0.39
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
ATATATTTTTATTATTTT
Found at i:3339383 original size:686 final size:683
Alignment explanation
Indices: 3337681--3339537 Score: 2035
Period size: 686 Copynumber: 2.6 Consensus size: 683
3337671 ATTACATTTT
* *
3337681 ACCTTTAAATTAATATTCTTAAAATTGCA--AAATATTTGAACAAGCATAGAGTTTTGATGGCTT
1 ACCTTTAAAATAATATTCTTAAAA--CCAGGAAATATTTGAACAAGCATAGAGTTTTGATGGCTT
* * * * * *
3337744 AAAACGAGCCAAATAATCATGAAAATTCTAAAATATAAAACACAATTTTTTTTA-TTT-CTT-TT
64 AAAACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTTCATTTTATTTATT
*
3337806 TAGTATTATTGTTATCCAAATTATGTTTTATTAAATTAAGCATCATATTAAATTATTTTTCTAAA
129 TAATATTATTGTTATCCAAATTATGTTTTATTAAATT-A--AT--T-TTAAA--A------T---
* * *
3337871 TTTTTTGTTGAATTTTTTATTTAAATATATTACAAAATTGTAGAATTATCACACGTGTTAAGTTA
177 TTTTTTGTTGAATTTTTTATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTA
* * * * ** * *
3337936 CTCGATAAGTTT-TTCCACTATCGAAATGCCTTGGAATCGAAATCCCAAACCGAAACCAAATCAA
242 CTCG-TAA-TTTATTACACAATCGAAAT-CCTTTGAATCGAAACCCCAAACAAAAACCGAATCCA
* *
3338000 AAACCCAAAACC--A---AAACTAAAAGTGAAAGCCCAAACTGACACCGAATCTAAAACTCCAAA
304 AACCCCAAAACCAAACTGAAACT-AAAGTGAAAGCCCAAACCGACACCGAATCTAAAACTCCAAA
* * * * *
3338060 GTGAAAACTAAACTAAAACCAAAATCG-AAACCCAAACTTAAGGCTTTTAACATATTTGGTAACT
368 CTGAAAACTAAACTGAAACCTAAATTGAAAACCC-AACTTAAGGCTTTCAACATATTTGGTAACT
* * * *
3338124 AAATTTAAGGCTTTTTAAAATCATTTATTGTTTCTCATTCTAATCGAACTTTAAATGATTTCTAC
432 ACATTTAAGGCCTTTTAAAACCATCTATTGTTTCTCATTCTAATCGAACTTTAAATGATTTCTAC
* * *
3338189 TGTATGAAATGTGATCTTTCCGTTGGTCTGTTTTTCTAGCCAAATTGAATTATGTCTTAGATGAA
497 TGTATGAAATGTAATCTTTCCATTGGTCTGTTTTTCTAGCCAAATTGAATTATGTCTTAGACGAA
* * *
3338254 CTAAGCTCCCAAAGTAGCCTAATTGAAATAGGAAACCTAGAAATTCTGAGCAAATTGCGGCGATT
562 CTAAACTCCCAAAGTAGCC--------AT----AACCTAGAAATTCTGAGCAAATTGCGACCATT
*
3338319 TGTAATATTTTTAGCACCAAAATCTTAAGCTTTTAGTGATTGGTTTTCATAAAACAAAATTTCTA
615 TGTAATATTTTGAGCACCAAAATCTTAAGCTTTTAGTGATTGGTTTTCATAAAACAAAATTTC--
3338384 GTTTTAGAATCACATTTG
678 ----T----T--CA--TG
*
3338402 ACCTTTAAAATAATATTCTTAAAACC-GGAAAATATTTGAACGAGCATAGAGTTTTGATGGCTTA
1 ACCTTTAAAATAATATTCTTAAAACCAGG-AAATATTTGAACAAGCATAGAGTTTTGATGGCTTA
3338466 AAACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTTTCATTTTCATATTA
65 AAACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAA-TTTTTTTCATTTT-AT-TTA
* * * * ** *
3338531 TTGTTATCCAAATTATGTTTTAT-TAAATTAAAAGTCATATTAAATTAATTTTCAAAA-TTTTTA
127 -T-TTA---ATATTAT-TGTTATCCAAATT--ATGTTTTATTAAATTAATTTT-AAAATTTTTTT
3338594 GTTGAATTTTTTA-TTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTACTCGGT
183 GTTGAATTTTTTATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTACTC-GT
** * * *
3338658 AGGTTATCACACAATTGAAATGCTTTGGAATCGAAACCCCAAACAAAAACCGAATCCAAACCCCA
247 AATTTATTACACAATCGAAATCCTTT-GAATCGAAACCCCAAACAAAAACCGAATCCAAACCCCA
*
3338723 AAACCGAAACTGAAACTGAAAGTGAAAGCCCAAACCGACACCAAATCTAAAACTCCAAACTGAAA
311 AAACC-AAACTGAAACT-AAAGTGAAAGCCCAAACCGACACCGAATCTAAAACTCCAAACTGAAA
* *
3338788 ACTAAACTGAAACCTAAGTTGAAAACCCAAGTTAAGGGCTTTCAACATATTTGGGTAACTACATT
374 ACTAAACTGAAACCTAAATTGAAAACCCAACTTAA-GGCTTTCAACATATTT-GGTAACTACATT
** * **
3338853 TAAGGCCTTTTAAAACCATCTATTGTTTCTCATTCTTGTCGAAGTTTAAATGATTTCTGTTGTAA
437 TAAGGCCTTTTAAAACCATCTATTGTTTCTCATTCTAATCGAACTTTAAATGATTTCTACTGT-A
* * * *
3338918 TGAAATGTAATCTTTCCATTGGTTTGTTTTTCTAGCTAAATTGAGTTTTGTCTTAGACGAACTAA
501 TGAAATGTAATCTTTCCATTGGTCTGTTTTTCTAGCCAAATTGAATTATGTCTTAGACGAACTAA
* * *
3338983 ATTCCCAAAGTAG-C-T-ACCTAGAAATTCTGAGCAAATTGTGACCATTTGTAATATTTTGAGCC
566 ACTCCCAAAGTAGCCATAACCTAGAAATTCTGAGCAAATTGCGACCATTTGTAATATTTTGAGCA
* * **
3339045 CCAAAATCTTAGGCTTTTGGTGATTGGTTTTCATAAAACGGAATTTC-T-A-G
631 CCAAAATCTTAAGCTTTTAGTGATTGGTTTTCATAAAACAAAATTTCTTCATG
*
3339095 ACCTTTAAAATAATATTCTTAAAACCAGGAAATATTTGAACAAGCATAAAGTTTTGATGGCTT-A
1 ACCTTTAAAATAATATTCTTAAAACCAGGAAATATTTGAACAAGCATAGAGTTTTGATGGCTTAA
3339159 AACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTTCCATTTTATTTCATT
66 AACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTT-CATTTTATTT-ATT
3339224 TAATATTATTGTTATCCAAATTATGTTTTATTAAATTAATTTTAAAATTTTTTTGTTGAATTTTA
129 TAATATTATTGTTATCCAAATTATGTTTTATTAAATTAATTTTAAAATTTTTTTGTTGAATTTT-
* *
3339289 TTATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTATTCAGTAATTTATTGC
193 TTATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTACTC-GTAATTTATTAC
* * *
3339354 ACAATCAAAATACCTTTGAATCAAAACCCCAAACAAAAACCGAATCCAAACTCCAAAACCAAAAC
257 ACAATCGAAAT-CCTTTGAATCGAAACCCCAAACAAAAACCGAATCCAAACCCCAAAACC-AAAC
* * * * * *
3339419 TGAAA-TTAA---AAA-CCCAAATCGACACCGTATTTAAAACCCCAAACCT-AAAACTAAATTGA
320 TGAAACTAAAGTGAAAGCCCAAACCGACACCGAATCTAAAACTCCAAA-CTGAAAACTAAACTGA
*
3339478 AACCTAAATTGAAAACCTAAACTTTTAAGGCTTTCAACATATTTAGGTAACTACATTTAA
384 AACCTAAATTGAAAACC-CAAC--TTAAGGCTTTCAACATATTT-GGTAACTACATTTAA
3339538 ACCATCTTAC
Statistics
Matches: 990, Mismatches: 103, Indels: 125
0.81 0.08 0.10
Matches are distributed among these distances:
680 54 0.05
681 7 0.01
682 31 0.03
683 8 0.01
684 35 0.04
685 9 0.01
686 125 0.13
687 4 0.00
689 3 0.00
690 3 0.00
691 10 0.01
692 50 0.05
693 59 0.06
694 2 0.00
696 1 0.00
699 1 0.00
710 85 0.09
715 6 0.01
716 95 0.10
717 19 0.02
719 2 0.00
721 97 0.10
722 80 0.08
723 24 0.02
724 67 0.07
725 70 0.07
726 2 0.00
727 1 0.00
728 3 0.00
729 7 0.01
731 2 0.00
732 10 0.01
733 6 0.01
734 12 0.01
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (683 bp):
ACCTTTAAAATAATATTCTTAAAACCAGGAAATATTTGAACAAGCATAGAGTTTTGATGGCTTAA
AACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTTCATTTTATTTATTTA
ATATTATTGTTATCCAAATTATGTTTTATTAAATTAATTTTAAAATTTTTTTGTTGAATTTTTTA
TTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTACTCGTAATTTATTACACAA
TCGAAATCCTTTGAATCGAAACCCCAAACAAAAACCGAATCCAAACCCCAAAACCAAACTGAAAC
TAAAGTGAAAGCCCAAACCGACACCGAATCTAAAACTCCAAACTGAAAACTAAACTGAAACCTAA
ATTGAAAACCCAACTTAAGGCTTTCAACATATTTGGTAACTACATTTAAGGCCTTTTAAAACCAT
CTATTGTTTCTCATTCTAATCGAACTTTAAATGATTTCTACTGTATGAAATGTAATCTTTCCATT
GGTCTGTTTTTCTAGCCAAATTGAATTATGTCTTAGACGAACTAAACTCCCAAAGTAGCCATAAC
CTAGAAATTCTGAGCAAATTGCGACCATTTGTAATATTTTGAGCACCAAAATCTTAAGCTTTTAG
TGATTGGTTTTCATAAAACAAAATTTCTTCATG
Found at i:3339495 original size:13 final size:13
Alignment explanation
Indices: 3339465--3339498 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3339455 CCCCAAACCT
3339465 AAAA-CTAAATTG
1 AAAACCTAAATTG
3339477 -AAACCTAAATTG
1 AAAACCTAAATTG
3339489 AAAACCTAAA
1 AAAACCTAAA
3339499 CTTTTAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 9 0.45
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (13 bp):
AAAACCTAAATTG
Found at i:3340004 original size:21 final size:21
Alignment explanation
Indices: 3339946--3339992 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
3339936 CAAATTAAAT
3339946 TTTATTGGATATATATAATTA
1 TTTATTGGATATATATAATTA
3339967 TTTATTGGATATATATAATTA
1 TTTATTGGATATATATAATTA
3339988 TTTAT
1 TTTAT
3339993 GTATGCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTATTGGATATATATAATTA
Found at i:3341239 original size:21 final size:22
Alignment explanation
Indices: 3341191--3341247 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
3341181 CAAGGTCTAG
*
3341191 GATCTAAAGTCTAAGATTTTAA
1 GATCTAAAGTCTAAGATTTAAA
* *
3341213 GATCTAAAGTCTAGGGTTTAAA
1 GATCTAAAGTCTAAGATTTAAA
*
3341235 G-TCTAATGTCTAA
1 GATCTAAAGTCTAA
3341248 AGTTCAAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (22 bp):
GATCTAAAGTCTAAGATTTAAA
Found at i:3341387 original size:27 final size:27
Alignment explanation
Indices: 3341349--3341402 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
3341339 GTAAGGGATA
3341349 GAAGAAGATGTGACACATCTGTTTCAT
1 GAAGAAGATGTGACACATCTGTTTCAT
* *
3341376 GAAGAAGATGTGGCGCATCTGTTTCAT
1 GAAGAAGATGTGACACATCTGTTTCAT
3341403 ACAATCCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (27 bp):
GAAGAAGATGTGACACATCTGTTTCAT
Found at i:3349795 original size:17 final size:18
Alignment explanation
Indices: 3349762--3349795 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3349752 ACTGAGGCAA
3349762 ATCAAACAAAATAAATAT
1 ATCAAACAAAATAAATAT
*
3349780 ATCAAA-AAAATTAATA
1 ATCAAACAAAATAAATA
3349796 ATAGTAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (18 bp):
ATCAAACAAAATAAATAT
Found at i:3358123 original size:15 final size:16
Alignment explanation
Indices: 3358094--3358127 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3358084 TTTTTTGAAT
*
3358094 TATTTTTATTTAAAAA
1 TATTTTTATTAAAAAA
3358110 TATTTTT-TTAAAAAA
1 TATTTTTATTAAAAAA
3358125 TAT
1 TAT
3358128 AATACACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTTATTAAAAAA
Found at i:3358677 original size:54 final size:53
Alignment explanation
Indices: 3358590--3358746 Score: 242
Period size: 54 Copynumber: 2.9 Consensus size: 53
3358580 TTTTATACAA
*
3358590 GCAAGTCCTTCAACTCAAGAACTCTTTCCATTCATCTTGTGATCACAGGCGCAG
1 GCAAGTCCTTCAACTC-AGAACTCTTTCCATTCATCTTGTGATCACAGGCACAG
* *
3358644 GCAACTCCTTCAACTCAGAAGCTCTTTCCATTCACCTTGTGATCACAGGCACAG
1 GCAAGTCCTTCAACTCAGAA-CTCTTTCCATTCATCTTGTGATCACAGGCACAG
* *
3358698 GCAAGTCCTTCAACTCAAAAACTCTTTCCATTCATCATGTGATCACAGG
1 GCAAGTCCTTCAACTC-AGAACTCTTTCCATTCATCTTGTGATCACAGG
3358747 ACAAGATAAC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
53 4 0.04
54 87 0.93
55 3 0.03
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (53 bp):
GCAAGTCCTTCAACTCAGAACTCTTTCCATTCATCTTGTGATCACAGGCACAG
Found at i:3360318 original size:24 final size:24
Alignment explanation
Indices: 3360256--3360327 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
3360246 AGAAAATTTT
3360256 TAAATTTTTAAATTTTTTT--ATA
1 TAAATTTTTAAATTTTTTTAAATA
3360278 T--ATTCTTTAGAATTTTTTTTAAATA
1 TAAATT-TTTA-AA-TTTTTTTAAATA
*
3360303 TAAATTTTTAAATTTTTATAAATA
1 TAAATTTTTAAATTTTTTTAAATA
3360327 T
1 T
3360328 TTTTTAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
20 3 0.07
21 4 0.10
22 3 0.07
23 7 0.17
24 12 0.29
25 6 0.14
26 4 0.10
27 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (24 bp):
TAAATTTTTAAATTTTTTTAAATA
Found at i:3360331 original size:20 final size:20
Alignment explanation
Indices: 3360259--3360341 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 20
3360249 AAATTTTTAA
* *
3360259 ATTTTTAAATTTTTTTATAT
1 ATTTTTAAATTTTTATAAAT
*
3360279 ATTCTTTAGAATTTTTTTTAAATAT
1 ATT-TTTA-AA-TTTTTAT-AA-AT
3360304 AAATTTTTAAATTTTTATAAAT
1 --ATTTTTAAATTTTTATAAAT
*
3360326 ATTTTTTAATTTTTAT
1 ATTTTTAAATTTTTAT
3360342 TGAGAGAGAT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
20 18 0.34
21 4 0.08
22 4 0.08
23 9 0.17
24 7 0.13
25 4 0.08
26 4 0.08
27 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (20 bp):
ATTTTTAAATTTTTATAAAT
Found at i:3363489 original size:53 final size:53
Alignment explanation
Indices: 3363420--3363527 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
3363410 CATTCGGGCA
3363420 TTGCTTTTATGAGCTCCTTGATGTGGTGGAGGAATCTTTGCGATATCTTACTG
1 TTGCTTTTATGAGCTCCTTGATGTGGTGGAGGAATCTTTGCGATATCTTACTG
*
3363473 TTGCTTTTATGAGCTCCTTGATGTGGTGGAGGAATCTTTGTGATATCTTACTG
1 TTGCTTTTATGAGCTCCTTGATGTGGTGGAGGAATCTTTGCGATATCTTACTG
3363526 TT
1 TT
3363528 TAGCACTTAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.44
Consensus pattern (53 bp):
TTGCTTTTATGAGCTCCTTGATGTGGTGGAGGAATCTTTGCGATATCTTACTG
Found at i:3366222 original size:173 final size:172
Alignment explanation
Indices: 3365865--3366239 Score: 389
Period size: 173 Copynumber: 2.2 Consensus size: 172
3365855 TTAAAGGCAG
* * *
3365865 CCTAAACACCATTGACAACCAAACCAAAACATGAACTTAGTTGATCAAAGAGGCCTAGCAACAAC
1 CCTAAATACCATTGACAACCAAACCAAAACATGAACTTAGTTGATCAAAAAGGCCTAACAACAAC
* * * ** ** * *** *
3365930 CCGAATATGTTAAGCCAAACCCCATCAAATTCGGCTTTGTATAGCATATTGTTATCAAGAATAAG
66 CCAAACATGTTAAACCAAACCCCATCAAATTCAACTTCATATAACATATTACCAACAAGAATAAG
* *** * *
3365995 AATATTTTTTTCATTTAAACCAAAGAAACAATAAATAGGGCAG
131 AATA-TTATTTCACCAAAACCAAAGAAACAATAAATAGAGCAA
*
3366038 CCTAAATACCATTGACAACCAAACCAAAACATGAACTTAGTTGATCAAAAAGGTCTAACAACAAC
1 CCTAAATACCATTGACAACCAAACCAAAACATGAACTTAGTTGATCAAAAAGGCCTAACAACAAC
**
3366103 CCAAACATGTTAAACCAAACCCGCATCGGATTCAAACTTCATATAACATATTACCAACAAGAATT
66 CCAAACATGTTAAACCAAACCC-CATCAAATTC-AACTTCATATAACATATTACCAACAAGAA-T
* * *
3366168 CA-AATCA-TATTTCACCAAAATCGAAGAAACAA-AAATCA-AGCAA
128 AAGAAT-ATTATTTCACCAAAACCAAAGAAACAATAAAT-AGAGCAA
* * *
3366211 CCTAGATACCATTTGGCAATCAAACCAAA
1 CCTAAATACCA-TTGACAACCAAACCAAA
3366240 GCTGGCATCC
Statistics
Matches: 166, Mismatches: 30, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
173 97 0.58
174 43 0.26
175 23 0.14
176 3 0.02
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.22
Consensus pattern (172 bp):
CCTAAATACCATTGACAACCAAACCAAAACATGAACTTAGTTGATCAAAAAGGCCTAACAACAAC
CCAAACATGTTAAACCAAACCCCATCAAATTCAACTTCATATAACATATTACCAACAAGAATAAG
AATATTATTTCACCAAAACCAAAGAAACAATAAATAGAGCAA
Found at i:3367617 original size:17 final size:19
Alignment explanation
Indices: 3367585--3367619 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
3367575 GAATTAAATA
3367585 ACTTAATTTCAACTAGTTT
1 ACTTAATTTCAACTAGTTT
3367604 ACTTAA-TT-AACTAGTT
1 ACTTAATTTCAACTAGTT
3367620 AAGCTCACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (19 bp):
ACTTAATTTCAACTAGTTT
Found at i:3369623 original size:21 final size:19
Alignment explanation
Indices: 3369566--3369624 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 19
3369556 TTTAAAAACA
*
3369566 TAATTGAGTGAAATATATGAT
1 TAATT-AGT-AAATATATTAT
3369587 TAATT-GTAAA-ACTATTAT
1 TAATTAGTAAATA-TATTAT
3369605 TGAATTAGTCAAATATATTA
1 T-AATTAGT-AAATATATTA
3369625 ATGTATTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
17 1 0.03
18 9 0.28
19 6 0.19
20 2 0.06
21 13 0.41
22 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (19 bp):
TAATTAGTAAATATATTAT
Found at i:3373669 original size:12 final size:12
Alignment explanation
Indices: 3373654--3373679 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3373644 TGATTTTATG
3373654 AGCCATTTTTAA
1 AGCCATTTTTAA
3373666 AGCCATTTTTAA
1 AGCCATTTTTAA
3373678 AG
1 AG
3373680 ACAATGGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (12 bp):
AGCCATTTTTAA
Found at i:3374192 original size:16 final size:18
Alignment explanation
Indices: 3374171--3374209 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3374161 TGTTGATAAT
*
3374171 TTAAAAA-A-TATATGGA
1 TTAAAAATATTATATAGA
3374187 TTAAAAATATTATATAGA
1 TTAAAAATATTATATAGA
3374205 TTAAA
1 TTAAA
3374210 TTCATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
TTAAAAATATTATATAGA
Found at i:3386228 original size:18 final size:18
Alignment explanation
Indices: 3386205--3386243 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
3386195 ACGGTATTAT
*
3386205 TAATTTTATCTCATCTAC
1 TAATTTCATCTCATCTAC
3386223 TAATTTCATCTCATCTAC
1 TAATTTCATCTCATCTAC
3386241 TAA
1 TAA
3386244 CGGCACGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTTCATCTCATCTAC
Found at i:3386508 original size:16 final size:17
Alignment explanation
Indices: 3386489--3386528 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
3386479 TTTTTAATGT
*
3386489 ATTAATTTTTATA-AAA
1 ATTAATTTTTAAATAAA
3386505 ATTAA-TTTTAAATAAA
1 ATTAATTTTTAAATAAA
3386521 ATTAATTT
1 ATTAATTT
3386529 GAACAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 13 0.62
17 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAATTTTTAAATAAA
Found at i:3386875 original size:18 final size:18
Alignment explanation
Indices: 3386852--3386887 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3386842 ATTTTGAGAG
3386852 TTAATTTTTTAAAATGAC
1 TTAATTTTTTAAAATGAC
3386870 TTAATTTTTTAAAATGAC
1 TTAATTTTTTAAAATGAC
3386888 AAATAAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
TTAATTTTTTAAAATGAC
Found at i:3391950 original size:18 final size:18
Alignment explanation
Indices: 3391927--3391974 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
3391917 AAAATGTAAG
* *
3391927 AAATGATGTTCGCATTTT
1 AAATGATGTTCACATTTC
3391945 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
3391963 AAATGATGTTCA
1 AAATGATGTTCA
3391975 AATTGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:3392498 original size:72 final size:71
Alignment explanation
Indices: 3392411--3392569 Score: 221
Period size: 72 Copynumber: 2.2 Consensus size: 71
3392401 AACTAGTTTA
* * * *
3392411 ATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATCTAT-GTGTAAT
1 ATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATCTATACT-AAAT
3392475 CTACTTTT
65 -TACTTTT
* * *
3392483 ATTAATAGTTGTTTATGTTTGGTCTTTGGTTATTGAATTTATGTTCTACTTATTTATACTAAATT
1 ATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATCTATACTAAATT
*
3392548 AGTTTT
66 ACTTTT
3392554 ATCAATAGTTGTTTAT
1 ATCAATAGTTGTTTAT
3392570 ATATGATTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
71 21 0.27
72 55 0.71
73 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.55
Consensus pattern (71 bp):
ATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATCTATACTAAATT
ACTTTT
Found at i:3394602 original size:13 final size:13
Alignment explanation
Indices: 3394584--3394644 Score: 79
Period size: 13 Copynumber: 4.7 Consensus size: 13
3394574 CTTAAAATTT
*
3394584 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
3394597 TCAAAAGCACTTTT
1 TCAAAAGCAC-TTC
*
3394611 TC-ACAGCACTTC
1 TCAAAAGCACTTC
3394623 TCAAAAGCACTTC
1 TCAAAAGCACTTC
3394636 TCAAAAGCA
1 TCAAAAGCA
3394645 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:3394610 original size:26 final size:27
Alignment explanation
Indices: 3394581--3394644 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
3394571 ACACTTAAAA
*
3394581 TTTTCAAAAGTACTTCTCAAAAGCACT
1 TTTTCAAAAGCACTTCTCAAAAGCACT
*
3394608 TTTTC-ACAGCACTTCTCAAAAGCAC-
1 TTTTCAAAAGCACTTCTCAAAAGCACT
*
3394633 TTCTCAAAAGCA
1 TTTTCAAAAGCA
3394645 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.12
26 23 0.72
27 5 0.16
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTTCAAAAGCACTTCTCAAAAGCACT
Found at i:3395667 original size:14 final size:14
Alignment explanation
Indices: 3395648--3395679 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3395638 AGGTCATTTA
3395648 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3395662 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3395676 GCCC
1 GCCC
3395680 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:3400757 original size:14 final size:14
Alignment explanation
Indices: 3400738--3400769 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3400728 AGGTCATTTA
3400738 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3400752 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3400766 GCCC
1 GCCC
3400770 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:3404863 original size:228 final size:227
Alignment explanation
Indices: 3404514--3406201 Score: 1616
Period size: 228 Copynumber: 7.4 Consensus size: 227
3404504 TAGAGTTCGA
* *
3404514 CCATCCTCCAA-CTGCTTCCCAGCAAATATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGT
1 CCATCCT-CAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGT
* * * * * ** *
3404578 CCTGAATTTTCGCTTTCACATTGTCGATCGTGTCTGAGCTCTCCACCTCCAGGGTGATTGTTTTC
65 CCTGGATCTTAGCTTTCACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAAGTGATAGTTTT-
* * * * * * * * *
3404643 CCGGTCAAGGTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGTAAAACTAGATGCAGGGTCGA
129 CCGGTCAAGGTCTTCACAAAAATCTGCATCCCACCACGAAGTCGTAACACCAAATGAAGGGTAGA
* * *
3404708 TTCCTTT-TGGATGTTATAGTCTGCAAGTGTCCTC
194 CT-CTTTCTGGATGTTATAATCCGCAAGTGTCCTC
*
3404742 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTC
* * * * * * ** *
3404807 CTGAATTTTCGCTTTCACATTGTCAACGGTGTCCGAGCTCTCGACCTCCAGGGTGATGGTTTTAC
66 CTGGATCTTAGCTTTCACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAAGTGATAGTTTT-C
* * * * * * * * *
3404872 CGGTCAAGGTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCAGGGTCGAT
130 CGGTCAAGGTCTTCACAAAAATCTGCATCCCACCACGAAGTCGTAACACCAAATGAAGGGTAGAC
3404937 TCCTTT-TGGATGTTATAATCCGCAAGTGTCCTC
195 T-CTTTCTGGATGTTATAATCCGCAAGTGTCCTC
* * * * *
3404970 CCATCCTCGAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTC
* * * * * *
3405035 TTGGATCTTGGCCTTCACATTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTC
66 CTGGATCTTAGCTTTCACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAAGTGATAG-TTTTC
* * * * * * * *
3405100 CAGTCAAAGTTTTCACAAAAATCTGCATTCCACCACGCAGTCGGAGCACCAAGTGAAGGGTAGAC
130 CGGTCAAGGTCTTCACAAAAATCTGCATCCCACCACGAAGTCGTAACACCAAATGAAGGGTAGAC
3405165 TCTTTCTGGATGTTATAATCCGCAAGTGTCCTC
195 TCTTTCTGGATGTTATAATCCGCAAGTGTCCTC
* * * * *
3405198 CCATCCTCGAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTC
* * * * * *
3405263 TTGGATCTTGGCCTTCACATTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTC
66 CTGGATCTTAGCTTTCACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAAGTGATAG-TTTTC
* * * * * * * *
3405328 CAGTCAAAGTTTTCACAAAAATCTGCATTCCACCACGCAGTCGGAGCACCAAGTGAAGGGTAGAC
130 CGGTCAAGGTCTTCACAAAAATCTGCATCCCACCACGAAGTCGTAACACCAAATGAAGGGTAGAC
* * *
3405393 TCTTTCTGGATATTATAATCTGCAAGTGTCCTA
195 TCTTTCTGGATGTTATAATCCGCAAGTGTCCTC
* * * *
3405426 CCATCTTCTAGCTG-TTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCCTTGT
1 CCATCCTCAAGCTGCTTT-CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGT
* * * * * *
3405490 CCTGGATCTTAGCTTTTACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGTCTTT
65 CCTGGATCTTAGCTTTCACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAAGTGATAGT-TTT
* * * * * *
3405555 CCGGT-GAGAGTCTTCACAAAAATTTGCATGCCACCACGGAGACGTAACACCAAATGGAGGGTAG
129 CCGGTCAAG-GTCTTCACAAAAATCTGCATCCCACCACGAAGTCGTAACACCAAATGAAGGGTAG
* * *
3405619 ACTCTTTCTGGATATTATAATCTGCAAGTGTCCTA
193 ACTCTTTCTGGATGTTATAATCCGCAAGTGTCCTC
* * * *
3405654 CCATCTTCGAGCTG-TTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCCTTGT
1 CCATCCTCAAGCTGCTTT-CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGT
* * * * * *
3405718 CCTGGATCTTAGCTTTTACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGTCTTT
65 CCTGGATCTTAGCTTTCACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAAGTGATAGT-TTT
* * * * * * *
3405783 CCGGT-GAGAGTCTTCACAAAAATTTGCATGCCACCACGGAGACGTAACACCAAATGGAGGGTCG
129 CCGGTCAAG-GTCTTCACAAAAATCTGCATCCCACCACGAAGTCGTAACACCAAATGAAGGGTAG
* * * * * * **
3405847 ATTCCTTCTGAATGTTATAGTCCGCAAGAGTTCGG
193 ACTCTTTCTGGATGTTATAATCCGCAAGTGTCCTC
* * * * *
3405882 CCATCTTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCCGGTGGGATCCCTTCCTTATC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTC
* * * * * * * * * * *
3405947 CTGAATCTTGGCCTTAACATTATCAATCGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTC
66 CTGGATCTTAGCTTTCACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAAGTGATAG-TTTTC
* * * * * * * * * * *
3406012 CAGTGAGGGTTTTTACAAAAATCTGCATCCCACCCCTAAGACG-AAGGA-CAAGGTGGAGGGTAG
130 CGGTCAAGGTCTTCACAAAAATCTGCATCCCACCACGAAGTCGTAA-CACCAA-ATGAAGGGTAG
* * * **
3406075 ACTCTTTCTGGATGTTGTAATCCGCAAGAGTTCGG
193 ACTCTTTCTGGATGTTATAATCCGCAAGTGTCCTC
* * * * * *
3406110 CCATCTTCAAGCTG-TTTACCGGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTG
1 CCATCCTCAAGCTGCTTT-CCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGAATCCCCTCCTTG
* * * * *
3406173 TCTTGGATCTTGGCCTTGACATTATCAAT
64 TCCTGGATCTTAGCTTTCACATTGTCAAT
3406202 TGTATCAGAA
Statistics
Matches: 1309, Mismatches: 138, Indels: 26
0.89 0.09 0.02
Matches are distributed among these distances:
227 22 0.02
228 1278 0.98
229 9 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (227 bp):
CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTC
CTGGATCTTAGCTTTCACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAAGTGATAGTTTTCC
GGTCAAGGTCTTCACAAAAATCTGCATCCCACCACGAAGTCGTAACACCAAATGAAGGGTAGACT
CTTTCTGGATGTTATAATCCGCAAGTGTCCTC
Found at i:3406209 original size:228 final size:227
Alignment explanation
Indices: 3404711--3406495 Score: 1600
Period size: 228 Copynumber: 7.8 Consensus size: 227
3404701 GGGTCGATTC
* * * *
3404711 CTTT-TGGATGTTATAGTCTGCAAGTGTCCTCCCATCCTCAAGCTGCTTTCCAGCAAAAATCAAC
1 CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTG-TTTCCAGCAAAAATCAAC
* * * * * * * * * * **
3404775 CTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCCTGAATTTTCGCTTTCACATTGTCAACGGTGTC
65 CTCTGCTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTC
* * * ** * * * * * * *
3404840 CGAGCTCTCGACCTCCAGGGTGATGGT-TTTACCGGTCA-AGGTCTTCACGAATATCTGCATCCC
130 AGAACTCTCCACCTCCAAAGTGATAGTCTTT-CCAGTGAGA-GTTTTCACAAAAATCTGCATGCC
* * * * * * * * *
3404903 TCCTCGAAGTCGCAA-AACCAAATGCAGGGTCGATT
193 ACCACGCAGACG-AAGCACCAAGTGGAGGGTAGACT
* * *
3404938 CCTTT-TGGATGTTATAATCCGCAAGTGTCCTCCCATCCTCGAGCTGCTTTCCAGCAAAAATCAA
1 -CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTG-TTTCCAGCAAAAATCAA
*
3405002 CCTCTGCTGGTCAGGTGGGATACCC-TCCTTATCTTGGATCTTGGCCTTCACATTATCAATTGTG
64 CCTCTGCTGGTCAGGTGGGAT-CCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTG
* * * * * * *
3405066 TCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCATTCC
128 TCAGAACTCTCCACCTCCAAAGTGATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATGCC
* * *
3405131 ACCACGCAGTCGGAGCACCAAGTGAAGGGTAGACT
193 ACCACGCAGACGAAGCACCAAGTGGAGGGTAGACT
* * *
3405166 CTTTCTGGATGTTATAATCCGCAAGTGTCCTCCCATCCTCGAGCTGCTTTCCAGCAAAAATCAAC
1 CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTG-TTTCCAGCAAAAATCAAC
*
3405231 CTCTGCTGGTCAGGTGGGATACCC-TCCTTATCTTGGATCTTGGCCTTCACATTATCAATTGTGT
65 CTCTGCTGGTCAGGTGGGAT-CCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGT
* * * * * * *
3405295 CTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCATTCCA
129 CAGAACTCTCCACCTCCAAAGTGATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATGCCA
* * *
3405360 CCACGCAGTCGGAGCACCAAGTGAAGGGTAGACT
194 CCACGCAGACGAAGCACCAAGTGGAGGGTAGACT
* * * *
3405394 CTTTCTGGATATTATAATCTGCAAGTGTCCTACCATCTTCTAGCTGTTTGCCAGCAAAAATCAAC
1 CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTGTTT-CCAGCAAAAATCAAC
* * * * * * * * *
3405459 CTCTGCTGATCTGGTGGAATCCCTTCCTTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTGTC
65 CTCTGCTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTC
* * * * * *
3405524 AGAACTCTCAACTTCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCACAAAAATTTGCATGCCAC
130 AGAACTCTCCACCTCCAAAGTGATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATGCCAC
* *
3405589 CACGGAGACGTAA-CACCAAATGGAGGGTAGACT
195 CACGCAGACG-AAGCACCAAGTGGAGGGTAGACT
* * * *
3405622 CTTTCTGGATATTATAATCTGCAAGTGTCCTACCATCTTCGAGCTGTTTGCCAGCAAAAATCAAC
1 CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTGTTT-CCAGCAAAAATCAAC
* * * * * * * * *
3405687 CTCTGCTGATCTGGTGGAATCCCTTCCTTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTGTC
65 CTCTGCTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTC
* * * * * *
3405752 AGAACTCTCAACTTCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCACAAAAATTTGCATGCCAC
130 AGAACTCTCCACCTCCAAAGTGATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATGCCAC
* * * *
3405817 CACGGAGACGTAA-CACCAAATGGAGGGTCGATT
195 CACGCAGACG-AAGCACCAAGTGGAGGGTAGACT
* * * * * *
3405850 CCTTCTGAATGTTATAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGCTTTCCAGCAAAAATCAAC
1 CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTG-TTTCCAGCAAAAATCAAC
* * * * * * *
3405915 CTCTGCTGGTCCGGTGGGATCCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCAATCGTATC
65 CTCTGCTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTC
* * * * * *
3405980 AGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTGAGGGTTTTTACAAAAATCTGCATCCCAC
130 AGAACTCTCCACCTCCAAAGTGATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATGCCAC
* ** *
3406045 CCCTAAGACGAAGGA-CAAGGTGGAGGGTAGACT
195 CACGCAGACGAAGCACCAA-GTGGAGGGTAGACT
* * * * * *
3406078 CTTTCTGGATGTTGTAATCCGCAAGAGTTCGGCCATCTTCAAGCTGTTTACCGGCAAAGAT-AAG
1 CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTGTTT-CCAGCAAAAATCAA-
* * * *
3406142 CCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTGACATTATCAATTGTAT
64 CCTCTGCTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGT
* * ** * * * * *
3406207 CAGAACTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGAGTTTTCACGAATATCTGCATGCCA
129 CAGAACTCTCCACCTCCAAAGTGATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATGCCA
* ** * * *
3406272 CCCCTTAGACGAAGCACTAGGTGGAGGGTGGACT
194 CCACGCAGACGAAGCACCAAGTGGAGGGTAGACT
* * * * * * * * * * *
3406306 CCTTT-TGGATATTGTAGTCAGCAAGAGTTCGGCCATCCTCAAGTTGTTTTCCGGCAAAGAT-AA
1 -CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTG-TTTCCAGCAAAAATCAA
* * * * * * * * * * *
3406369 GCCTTTGTTGGTCAGGAGGAATCCCTTCTTTGTCTTGGATTTTAGCCTTGACATTATCGATAGTA
64 -CCTCTGCTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTG
* * * * * * * *
3406434 TCAGAACTTTCTACCT-CAAGGGTGATGGTCTTACCAGTAAGGGTTTTCACAAAGATCTGCAT
128 TCAGAACTCTCCACCTCCAA-AGTGATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCAT
3406496 CTGCTGTCAA
Statistics
Matches: 1379, Mismatches: 161, Indels: 34
0.88 0.10 0.02
Matches are distributed among these distances:
227 22 0.02
228 1338 0.97
229 19 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (227 bp):
CTTTCTGGATGTTATAATCCGCAAGTGTCCTGCCATCTTCAAGCTGTTTCCAGCAAAAATCAACC
TCTGCTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTCA
GAACTCTCCACCTCCAAAGTGATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATGCCACC
ACGCAGACGAAGCACCAAGTGGAGGGTAGACT
Found at i:3406269 original size:684 final size:682
Alignment explanation
Indices: 3404478--3406273 Score: 1972
Period size: 684 Copynumber: 2.6 Consensus size: 682
3404468 ATGCAGTGTG
* * * * * * *
3404478 GACTCCTTCTGGATATTGTAGTCAGCTAGAGTTCGACCATCCTCCAA-CTGCTTCCCAGCAAATA
1 GACTCCTTCTGGATGTTATAGTCCGCAAGAGTTCGACCAT-CTTCAAGCTGCTTTCCAGCAAAAA
* * * * * * * *
3404542 TCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTCCTGAATTTTCGCTTTCACATTGTCGATC
65 TCAACCTCTGCTGGTCAGGTGGGAT-CCCTCCTTATCCTGAATCTTGGCCTTCACATTATCAATC
** * * * * * *
3404607 GTGTCTGAGCTCTCCACCTCCAGGGTGATTGTTTTCCCGGTCAAGGTCTTCACGAATATCTGCAT
129 GTGTCTGAGCTCTCCACCTCCAACGTGATAGTTTTTCCAGTCAAGGTTTTCACAAAAATCTGCAT
* * * * * * * *
3404672 CCCTCCTCGAAGTCGTAA-AACTAGATGCAGGGTCGATTCCTTT-TGGATGTTATAGTCTGCAAG
194 CCCACCACGAAGTCG-AAGAACAAGGTGAAGGGTAGACT-CTTTCTGGATGTTATAATCTGCAAG
* * * *
3404735 TGTCCTCCCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATCCCCT
257 TGTCCTACCATCTTCAAGCTG-TTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTT
* * * * * * *
3404800 CCTTGTCCTGAATTTTCGCTTTCACATTGTCAACGGTGTCCGAGCTCTCGACCTCCAGGGTGATG
321 CCTTGTCCTGGATCTTAGCTTTCACATTGTCAATGGTGTCAGAACTCTCAACCTCCAGGGTGATG
* * * * *
3404865 GTTTTACCGGTCAAG-GTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCA
386 GTCTTACCGGT-AAGAGTCTTCACGAATATCTGCATGCCACCACGAAGACGCAAAACCAAATGCA
* * * *
3404929 GGGTCGATTCCTTTTGGATGTTATAATCCGCAAGTGTCCTCCCATCCTCGAGCTGCTTTCCAGCA
450 GGGTAGACTCCTTTTGGATATTATAATCCGCAAGTGTCCTACCATCCTCGAGCTGCTTTCCAGCA
* * * *
3404994 AAAATCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCTTGGATCTTGGCCTTCACATTATC
515 AAAATCAACCTCTGCTGATCAGGTGGAATACCCTCCTTATCCTGGATCTTAGCCTTCACATTATC
* * * * * * * *
3405059 AATTGTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCT
580 AATGGTGTCAGAACTCTCAACCTCCAAAGTAATAGTCTTTCCAGTCAAAGTCTTCACAAAAATCT
* * * *
3405124 GCATTCCACCACGCAGTCGGAGCACCAAGTGAAGGGTA
645 GCATGCCACCACGCAGACGGAACACCAAATGAAGGGTA
* * * * ** * *
3405162 GACTCTTTCTGGATGTTATAATCCGCAAGTGTCCTCCCATCCTCGAGCTGCTTTCCAGCAAAAAT
1 GACTCCTTCTGGATGTTATAGTCCGCAAGAGTTCGACCATCTTCAAGCTGCTTTCCAGCAAAAAT
* * *
3405227 CAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCTTGGATCTTGGCCTTCACATTATCAATTG
66 CAACCTCTGCTGGTCAGGTGGGAT-CCCTCCTTATCCTGAATCTTGGCCTTCACATTATCAATCG
* * *
3405292 TGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCATT
130 TGTCTGAGCTCTCCACCTCCAACGTGATAGTTTTTCCAGTCAAGGTTTTCACAAAAATCTGCATC
* * * *
3405357 CCACCACGCAGTCGGAGCACCAA-GTGAAGGGTAGACTCTTTCTGGATATTATAATCTGCAAGTG
195 CCACCACGAAGTCGAAG-AACAAGGTGAAGGGTAGACTCTTTCTGGATGTTATAATCTGCAAGTG
* *
3405421 TCCTACCATCTTCTAGCTGTTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCC
259 TCCTACCATCTTCAAGCTGTTT-CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCC
* * ** * *
3405486 TTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGT
323 TTGTCCTGGATCTTAGCTTTCACATTGTCAATGGTGTCAGAACTCTCAACCTCCAGGGTGATGGT
* * * * * * * * *
3405551 CTTTCCGGTGAGAGTCTTCACAAAAATTTGCATGCCACCACGGAGACGTAACACCAAATGGAGGG
388 CTTACCGGTAAGAGTCTTCACGAATATCTGCATGCCACCACGAAGACGCAAAACCAAATGCAGGG
* *
3405616 TAGACT-CTTTCTGGATATTATAATCTGCAAGTGTCCTACCATCTTCGAGCTG-TTTGCCAGCAA
453 TAGACTCCTTT-TGGATATTATAATCCGCAAGTGTCCTACCATCCTCGAGCTGCTTT-CCAGCAA
* * * * *
3405679 AAATCAACCTCTGCTGATCTGGTGGAAT-CCCTTCCTTGTCCTGGATCTTAGCTTTTACATTGTC
516 AAATCAACCTCTGCTGATCAGGTGGAATACCC-TCCTTATCCTGGATCTTAGCCTTCACATTATC
* * * * *
3405743 AATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCACAAAAATTT
580 AATGGTGTCAGAACTCTCAACCTCCAAAGTAATAGTCTTTCCAGTCAAAGTCTTCACAAAAATCT
* * * *
3405808 GCATGCCACCACGGAGACGTAACACCAAATGGAGGGTC
645 GCATGCCACCACGCAGACGGAACACCAAATGAAGGGTA
* * *
3405846 GATTCCTTCTGAATGTTATAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGCTTTCCAGCAAAAAT
1 GACTCCTTCTGGATGTTATAGTCCGCAAGAGTTCGACCATCTTCAAGCTGCTTTCCAGCAAAAAT
* *
3405911 CAACCTCTGCTGGTCCGGTGGGATCCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCAATCG
66 CAACCTCTGCTGGTCAGGTGGGATCCC-TCCTTATCCTGAATCTTGGCCTTCACATTATCAATCG
* * * * * * *
3405976 TATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTGAGGGTTTTTACAAAAATCTGCATC
130 TGTCTGAGCTCTCCACCTCCAACGTGATAGTTTTTCCAGTCAAGGTTTTCACAAAAATCTGCATC
* * * * * * * *
3406041 CCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTCTTTCTGGATGTTGTAATCCGCAAGAGT
195 CCACCACGAAGTCGAAGAACAAGGTGAAGGGTAGACTCTTTCTGGATGTTATAATCTGCAAGTGT
* ** * * * *
3406106 TCGGCCATCTTCAAGCTGTTTACCGGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGATCCCTTCC
260 CCTACCATCTTCAAGCTGTTT-CCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGAATCCCTTCC
* * * * * * * * * *
3406170 TTGTCTTGGATCTTGGCCTTGACATTATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATGGT
323 TTGTCCTGGATCTTAGCTTTCACATTGTCAATGGTGTCAGAACTCTCAACCTCCAGGGTGATGGT
* * *
3406235 CTTGCCAGTAAGAGTTTTCACGAATATCTGCATGCCACC
388 CTTACCGGTAAGAGTCTTCACGAATATCTGCATGCCACC
3406274 CCTTAGACGA
Statistics
Matches: 913, Mismatches: 187, Indels: 24
0.81 0.17 0.02
Matches are distributed among these distances:
683 31 0.03
684 879 0.96
685 3 0.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (682 bp):
GACTCCTTCTGGATGTTATAGTCCGCAAGAGTTCGACCATCTTCAAGCTGCTTTCCAGCAAAAAT
CAACCTCTGCTGGTCAGGTGGGATCCCTCCTTATCCTGAATCTTGGCCTTCACATTATCAATCGT
GTCTGAGCTCTCCACCTCCAACGTGATAGTTTTTCCAGTCAAGGTTTTCACAAAAATCTGCATCC
CACCACGAAGTCGAAGAACAAGGTGAAGGGTAGACTCTTTCTGGATGTTATAATCTGCAAGTGTC
CTACCATCTTCAAGCTGTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCTTG
TCCTGGATCTTAGCTTTCACATTGTCAATGGTGTCAGAACTCTCAACCTCCAGGGTGATGGTCTT
ACCGGTAAGAGTCTTCACGAATATCTGCATGCCACCACGAAGACGCAAAACCAAATGCAGGGTAG
ACTCCTTTTGGATATTATAATCCGCAAGTGTCCTACCATCCTCGAGCTGCTTTCCAGCAAAAATC
AACCTCTGCTGATCAGGTGGAATACCCTCCTTATCCTGGATCTTAGCCTTCACATTATCAATGGT
GTCAGAACTCTCAACCTCCAAAGTAATAGTCTTTCCAGTCAAAGTCTTCACAAAAATCTGCATGC
CACCACGCAGACGGAACACCAAATGAAGGGTA
Found at i:3406299 original size:456 final size:455
Alignment explanation
Indices: 3404478--3406496 Score: 1691
Period size: 456 Copynumber: 4.4 Consensus size: 455
3404468 ATGCAGTGTG
* * * * * * * *
3404478 GACTCCTTCTGGATATTGTAGTCAGCTAGAGTTCGACCATCCTCCAA-CTGCTTCCCAGCAAATA
1 GACTCCTTCTGGATATTATAATCCGCAAGAGTCCGGCCATCCT-CAAGCTGCTTTCCAGCAAAAA
* * * * * * * * * * *
3404542 TCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTCCTGAATTTTCGCTTTCACATTGTCGATC
65 TCAACCTCTGCTGGTCAGGTGGAATCCCTTCCTTATCCTGGATCTTAGCCTTAACATTATCAATA
* * * ** * * * * * * *
3404607 GTGTCTGAGCTCTCCACCTCCAGGGTGATTGT-TTTCCCGGTCA-AGGTCTTCACGAATATCTGC
130 GTATCAGAACTCTCCACCTCCAAAGTAATAGTCTTT-CCAGTGAGA-GTTTTCACAAAAATCTGC
* * * * * * * * * *
3404670 ATCCCTCCTCGAAGTCGTAA--AACTAGATGCAGGGTCGATTCCTTT-TGGATGTTATAGTCTGC
193 ATCCCACCACGAAGACG-AAGCACCAAG-TGGAGGGTAGACT-CTTTCTGGATGTTATAATCCGC
* * * * *
3404732 AAGTGTCCTCCCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATCC
255 AAGTGTCCTACCATCTTCGAGCTG-TTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGATCC
* * * * * * * ** * * * **
3404797 CCTCCTTGTCCTGAATTTTCGCTTTCACATTGTCAACGGTGTCCGAGCTCTCGACCTCCAGGGTG
319 CTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTCAGAACTCTCCACCTCCAAAGTG
* * * * * * * * * * *
3404862 ATGGT-TTTACCGGTCAAG-GTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAA-AACCAA
384 ATAGTCTTT-CCAGT-AAGAGTTTTCACAAAAATCTGCATGCCACCACGCAGACG-AAGCACCAA
* *
3404924 ATGCAGGGTC
446 GTGGAGGGTC
* * * * ** *
3404934 GATTCCTTTTGGATGTTATAATCCGCAAGTGTCCTCCCATCCTCGAGCTGCTTTCCAGCAAAAAT
1 GACTCCTTCTGGATATTATAATCCGCAAGAGTCCGGCCATCCTCAAGCTGCTTTCCAGCAAAAAT
* * * * *
3404999 CAACCTCTGCTGGTCAGGTGGGATACCC-TCCTTATCTTGGATCTTGGCCTTCACATTATCAATT
66 CAACCTCTGCTGGTCAGGTGGAAT-CCCTTCCTTATCCTGGATCTTAGCCTTAACATTATCAATA
* * * * * * * *
3405063 GTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCAT
130 GTATCAGAACTCTCCACCTCCAAAGTAATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCAT
* * * * *
3405128 TCCACCACGCAGTCGGAGCACCAAGTGAAGGGTAGACTCTTTCTGGATGTTATAATCCGCAAGTG
195 CCCACCACGAAGACGAAGCACCAAGTGGAGGGTAGACTCTTTCTGGATGTTATAATCCGCAAGTG
* * *
3405193 TCCTCCCATCCTCGAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCC-TC
260 TCCTACCATCTTCGAGCTG-TTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGAT-CCCTTC
* * * *
3405257 CTTATCTTGGATCTTGGCCTTCACATTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTGATAG
323 CTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTCAGAACTCTCCACCTCCAAAGTGATAG
* * * * *
3405322 TTTTTCCAGTCAA-AGTTTTCACAAAAATCTGCATTCCACCACGCAGTCGGAGCACCAAGTGAAG
388 TCTTTCCAGT-AAGAGTTTTCACAAAAATCTGCATGCCACCACGCAGACGAAGCACCAAGTGGAG
*
3405386 GGTA
452 GGTC
* * * ** * *
3405390 GACTCTTTCTGGATATTATAATCTGCAAGTGTCCTACCATCTTCTAGCTG-TTTGCCAGCAAAAA
1 GACTCCTTCTGGATATTATAATCCGCAAGAGTCCGGCCATCCTCAAGCTGCTTT-CCAGCAAAAA
* * * * * * *
3405454 TCAACCTCTGCTGATCTGGTGGAATCCCTTCCTTGTCCTGGATCTTAGCTTTTACATTGTCAATG
65 TCAACCTCTGCTGGTCAGGTGGAATCCCTTCCTTATCCTGGATCTTAGCCTTAACATTATCAATA
* * * * * *
3405519 GTGTCAGAACTCTCAACTTCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCACAAAAATTTGCAT
130 GTATCAGAACTCTCCACCTCCAAAGTAATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCAT
* * * * *
3405584 GCCACCACGGAGACGTAA-CACCAAATGGAGGGTAGACTCTTTCTGGATATTATAATCTGCAAGT
195 CCCACCACGAAGACG-AAGCACCAAGTGGAGGGTAGACTCTTTCTGGATGTTATAATCCGCAAGT
* *
3405648 GTCCTACCATCTTCGAGCTGTTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTC
259 GTCCTACCATCTTCGAGCTGTTT-CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGATCCCTTC
* * * * * * * * *
3405713 CTTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAG
323 CTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTCAGAACTCTCCACCTCCAAAGTGATAG
* * * * * *
3405778 TCTTTCCGGTGAGAGTCTTCACAAAAATTTGCATGCCACCACGGAGACGTAA-CACCAAATGGAG
388 TCTTTCCAGTAAGAGTTTTCACAAAAATCTGCATGCCACCACGCAGACG-AAGCACCAAGTGGAG
3405842 GGTC
452 GGTC
* * * * * *
3405846 GATTCCTTCTGAATGTTATAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGCTTTCCAGCAAAAAT
1 GACTCCTTCTGGATATTATAATCCGCAAGAGTCCGGCCATCCTCAAGCTGCTTTCCAGCAAAAAT
* * * * *
3405911 CAACCTCTGCTGGTCCGGTGGGATCCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCAATCG
66 CAACCTCTGCTGGTCAGGTGGAATCCCTTCCTTATCCTGGATCTTAGCCTTAACATTATCAATAG
* * * *
3405976 TATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTGAGGGTTTTTACAAAAATCTGCATC
131 TATCAGAACTCTCCACCTCCAAAGTAATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATC
* * * * *
3406041 CCACCCCTAAGACGAAGGA-CAAGGTGGAGGGTAGACTCTTTCTGGATGTTGTAATCCGCAAGAG
196 CCACCACGAAGACGAAGCACCAA-GTGGAGGGTAGACTCTTTCTGGATGTTATAATCCGCAAGTG
* ** * * * *
3406105 TTCGGCCATCTTCAAGCTGTTTACCGGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGATCCCTTC
260 TCCTACCATCTTCGAGCTGTTT-CCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGGATCCCTTC
* * * * ** *
3406169 CTTGTCTTGGATCTTGGCCTTGACATTATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATGG
323 CTTGTCTTGGATCTTGGCCTTCACATTATCAATTGTGTCAGAACTCTCCACCTCCAAAGTGATAG
* * * * ** * *
3406234 TCTTGCCAGTAAGAGTTTTCACGAATATCTGCATGCCACCCCTTAGACGAAGCACTAGGTGGAGG
388 TCTTTCCAGTAAGAGTTTTCACAAAAATCTGCATGCCACCACGCAGACGAAGCACCAAGTGGAGG
*
3406299 GTG
453 GTC
* * * * * * * * *
3406302 GACTCCTTTTGGATATTGTAGTCAGCAAGAGTTCGGCCATCCTCAAGTTGTTTTCCGGCAAAGAT
1 GACTCCTTCTGGATATTATAATCCGCAAGAGTCCGGCCATCCTCAAGCTGCTTTCCAGCAAAAAT
* * * * * * * * *
3406367 -AAGCCTTTGTTGGTCAGGAGGAATCCCTTCTTTGTCTTGGATTTTAGCCTTGACATTATCGATA
66 CAA-CCTCTGCTGGTCAGGTGGAATCCCTTCCTTATCCTGGATCTTAGCCTTAACATTATCAATA
* * * * * * * * *
3406431 GTATCAGAACTTTCTACCT-CAAGGGTGATGGTCTTACCAGTAAGGGTTTTCACAAAGATCTGCA
130 GTATCAGAACTCTCCACCTCCAA-AGTAATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCA
3406495 TC
194 TC
3406497 TGCTGTCAAC
Statistics
Matches: 1280, Mismatches: 258, Indels: 50
0.81 0.16 0.03
Matches are distributed among these distances:
455 35 0.03
456 1223 0.96
457 22 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (455 bp):
GACTCCTTCTGGATATTATAATCCGCAAGAGTCCGGCCATCCTCAAGCTGCTTTCCAGCAAAAAT
CAACCTCTGCTGGTCAGGTGGAATCCCTTCCTTATCCTGGATCTTAGCCTTAACATTATCAATAG
TATCAGAACTCTCCACCTCCAAAGTAATAGTCTTTCCAGTGAGAGTTTTCACAAAAATCTGCATC
CCACCACGAAGACGAAGCACCAAGTGGAGGGTAGACTCTTTCTGGATGTTATAATCCGCAAGTGT
CCTACCATCTTCGAGCTGTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGATCCCTTCCTT
GTCTTGGATCTTGGCCTTCACATTATCAATTGTGTCAGAACTCTCCACCTCCAAAGTGATAGTCT
TTCCAGTAAGAGTTTTCACAAAAATCTGCATGCCACCACGCAGACGAAGCACCAAGTGGAGGGTC
Found at i:3406485 original size:684 final size:684
Alignment explanation
Indices: 3404478--3406495 Score: 1730
Period size: 684 Copynumber: 3.0 Consensus size: 684
3404468 ATGCAGTGTG
* * * * * * * * * *
3404478 GACTCCTTCTGGATATTGTAGTCAGCTAGAGTTCGACCATCCTCCAA-CTGCTTCCCAGCAAATA
1 GACTCCTTCTGAATGTTATAATCCGCAAGAGTCCGCCCATCCT-CAAGCTGCTTTCCAGCAAAAA
* * * * * * * * * *
3404542 TCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTCCTGAATTTTCGCTTTCACATTGTCGATC
65 TCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTAACATTATCAATC
* * * ** * * * * * * * *
3404607 GTGTCTGAGCTCTCCACCTCCAGGGTGATTGTTTTCCCGGTCAAGGTCTTCACGAATATCTGCAT
130 GTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCAT
* * * * * * * * * * *
3404672 CCCTCCTCGAAGTCGTAA--AACTAGATGCAGGGTCGATTCCTTT-TGGATGTTATAGTCTGCAA
195 CCCACCACGAAGACG-AAGCACCAAG-TGAAGGGTAGACT-CTTTCTGGATATTATAATCCGCAA
* ** * * *
3404734 GTGTCCTCCCATCCTCAAGCTGCTTT-CCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATCCC
257 GAGTCCGACCATCTTCAAGCTG-TTTACCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCC
* * * * * * * * * * * * ** *
3404798 CTCCTTGTCCTGAATTTTCGCTTTCACATTGTCAACGGTGTCCGAGCTCTCGACCTCCAGGGTGA
321 TTCCTTGTCCTGGATCTTAGCCTTGACATTATCAATGGTATCAGAACTCTCAACCTCCAAAGTAA
* * * * * * * * * * * * *
3404863 TGGTTTTACCGGTCAAG-GTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATG
386 TAGTCTTGCCAGT-AAGAGTCTTCACAAAAATCTGCATGCCACCACGGAGACGTAACACCAAATG
* * * * * * ** *
3404927 CAGGGTCGATTCCTTT-TGGATGTTATAATCCGCAAGTGTCCTCCCATCCTCGAGCTGCTTT-CC
450 GAGGGTAGACT-CTTTCTGGATATTATAATCAGCAAGAGTCCGACCATCCTCAAGCTG-TTTGCC
* * * * * * *
3404990 AGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCC-TCCTTATCTTGGATCTTGGCCTTCACA
513 AGCAAAAATCAACCTCTGCTGATCAGGAGGAAT-CCCTTCCTTGTCCTGGATCTTAGCCTTGACA
* * * * * * * * *
3405054 TTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAA-AGTTTTCACAA
577 TTATCAATAGTATCAGAACTCTCAACCTCCAAAGTAATAGTCTTACCAGT-AAGAGTTTTCACAA
* * * *
3405118 AAATCTGCATTCCACCACGCAGTCGGAGCACCAAGTGAAGGGTA
641 AAATCTGCATGCCACCACGCAGACGGAACACCAAATGAAGGGTA
* * * * *
3405162 GACTCTTTCTGGATGTTATAATCCGCAAGTGTCCTCCCATCCTCGAGCTGCTTTCCAGCAAAAAT
1 GACTCCTTCTGAATGTTATAATCCGCAAGAGTCCGCCCATCCTCAAGCTGCTTTCCAGCAAAAAT
* * * *
3405227 CAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCTTGGATCTTGGCCTTCACATTATCAATTG
66 CAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTAACATTATCAATCG
* * * * * *
3405292 TGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCATT
131 TATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCATC
* * * * *
3405357 CCACCACGCAGTCGGAGCACCAAGTGAAGGGTAGACTCTTTCTGGATATTATAATCTGCAAGTGT
196 CCACCACGAAGACGAAGCACCAAGTGAAGGGTAGACTCTTTCTGGATATTATAATCCGCAAGAGT
* * *
3405422 CCTACCATCTTCTAGCTGTTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCCT
261 CCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCCT
* * * * *
3405487 TGTCCTGGATCTTAGCTTTTACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGTC
326 TGTCCTGGATCTTAGCCTTGACATTATCAATGGTATCAGAACTCTCAACCTCCAAAGTAATAGTC
* * * *
3405552 TTTCCGGTGAGAGTCTTCACAAAAATTTGCATGCCACCACGGAGACGTAACACCAAATGGAGGGT
391 TTGCCAGTAAGAGTCTTCACAAAAATCTGCATGCCACCACGGAGACGTAACACCAAATGGAGGGT
* * * * *
3405617 AGACTCTTTCTGGATATTATAATCTGCAAGTGTCCTACCATCTTCGAGCTGTTTGCCAGCAAAAA
456 AGACTCTTTCTGGATATTATAATCAGCAAGAGTCCGACCATCCTCAAGCTGTTTGCCAGCAAAAA
* * * * * *
3405682 TCAACCTCTGCTGATCTGGTGGAATCCCTTCCTTGTCCTGGATCTTAGCTTTTACATTGTCAATG
521 TCAACCTCTGCTGATCAGGAGGAATCCCTTCCTTGTCCTGGATCTTAGCCTTGACATTATCAATA
* * * * * * *
3405747 GTGTCAGAACTCTCAACTTCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCACAAAAATTTGCAT
586 GTATCAGAACTCTCAACCTCCAAAGTAATAGTCTTACCAGTAAGAGTTTTCACAAAAATCTGCAT
* * * *
3405812 GCCACCACGGAGACGTAACACCAAATGGAGGGTC
651 GCCACCACGCAGACGGAACACCAAATGAAGGGTA
* * * * *
3405846 GATTCCTTCTGAATGTTATAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGCTTTCCAGCAAAAAT
1 GACTCCTTCTGAATGTTATAATCCGCAAGAGTCCGCCCATCCTCAAGCTGCTTTCCAGCAAAAAT
*
3405911 CAACCTCTGCTGGTCCGGTGGGAT-CCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCAATC
66 CAACCTCTGCTGGTCAGGTGGGATACCC-TCCTTATCCTGAATCTTGGCCTTAACATTATCAATC
* ** *
3405975 GTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTGAGGGTTTTTACAAAAATCTGCAT
130 GTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCAT
* * * * * *
3406040 CCCACCCCTAAGACGAAGGA-CAAGGTGGAGGGTAGACTCTTTCTGGATGTTGTAATCCGCAAGA
195 CCCACCACGAAGACGAAGCACCAA-GTGAAGGGTAGACTCTTTCTGGATATTATAATCCGCAAGA
* * * * * * *
3406104 GTTCGGCCATCTTCAAGCTGTTTACCGGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGATCCCTT
259 GTCCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAA-CCTCTGCTGATCTGGTGGAATCCCTT
* * * * * * ** * *
3406168 CCTTGTCTTGGATCTTGGCCTTGACATTATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATG
323 CCTTGTCCTGGATCTTAGCCTTGACATTATCAATGGTATCAGAACTCTCAACCTCCAAAGTAATA
* * * * ** * **
3406233 GTCTTGCCAGTAAGAGTTTTCACGAATATCTGCATGCCACCCCTTAGACG-AAGCACTAGGTGGA
388 GTCTTGCCAGTAAGAGTCTTCACAAAAATCTGCATGCCACCACGGAGACGTAA-CACCAAATGGA
* * * * * * * *
3406297 GGGTGGACTCCTTT-TGGATATTGTAGTCAGCAAGAGTTCGGCCATCCTCAAGTTGTTTTCCGGC
452 GGGTAGACT-CTTTCTGGATATTATAATCAGCAAGAGTCCGACCATCCTCAAGCTGTTTGCCAGC
* * * * * * *
3406361 AAAGAT-AAGCCTTTGTTGGTCAGGAGGAATCCCTTCTTTGTCTTGGATTTTAGCCTTGACATTA
516 AAAAATCAA-CCTCTGCTGATCAGGAGGAATCCCTTCCTTGTCCTGGATCTTAGCCTTGACATTA
* * * * * * * *
3406425 TCGATAGTATCAGAACTTTCTACCT-CAAGGGTGATGGTCTTACCAGTAAGGGTTTTCACAAAGA
580 TCAATAGTATCAGAACTCTCAACCTCCAA-AGTAATAGTCTTACCAGTAAGAGTTTTCACAAAAA
3406489 TCTGCAT
644 TCTGCAT
3406496 CTGCTGTCAA
Statistics
Matches: 1088, Mismatches: 229, Indels: 34
0.81 0.17 0.03
Matches are distributed among these distances:
683 38 0.03
684 1042 0.96
685 8 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (684 bp):
GACTCCTTCTGAATGTTATAATCCGCAAGAGTCCGCCCATCCTCAAGCTGCTTTCCAGCAAAAAT
CAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATCCTGAATCTTGGCCTTAACATTATCAATCG
TATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCATC
CCACCACGAAGACGAAGCACCAAGTGAAGGGTAGACTCTTTCTGGATATTATAATCCGCAAGAGT
CCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCCT
TGTCCTGGATCTTAGCCTTGACATTATCAATGGTATCAGAACTCTCAACCTCCAAAGTAATAGTC
TTGCCAGTAAGAGTCTTCACAAAAATCTGCATGCCACCACGGAGACGTAACACCAAATGGAGGGT
AGACTCTTTCTGGATATTATAATCAGCAAGAGTCCGACCATCCTCAAGCTGTTTGCCAGCAAAAA
TCAACCTCTGCTGATCAGGAGGAATCCCTTCCTTGTCCTGGATCTTAGCCTTGACATTATCAATA
GTATCAGAACTCTCAACCTCCAAAGTAATAGTCTTACCAGTAAGAGTTTTCACAAAAATCTGCAT
GCCACCACGCAGACGGAACACCAAATGAAGGGTA
Found at i:3411022 original size:228 final size:228
Alignment explanation
Indices: 3410625--3411348 Score: 959
Period size: 228 Copynumber: 3.2 Consensus size: 228
3410615 TAGAGTTCGA
* *
3410625 CCATCCTCCAA-CTGCTTCCCAGCAAATATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGT
1 CCATCCT-CAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGT
* * *
3410689 CCTGAATTTTCGCTTTCACATTGTCGATCGTGTCTGAGCTCTCCACCTCCAGGGTGATTGTTTTC
65 CCTGAATTTTCGCTTTCACATTGTCAATCGTGTCTGAGCTCTCCACCTCCAGGGTGATAGTTTTA
* *
3410754 CCGGTCAAGGTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGTAAAACTAAATGCAGGGTCGA
130 CCGGTCAAGGTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCAGGGTCGA
*
3410819 TTCCTTTTGGATGTTATAGTCTGCAAGTGTCCTC
195 TTCCTTTTGGATGTTATAATCTGCAAGTGTCCTC
*
3410853 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTC
* * * *
3410918 CTGAATTTTCGCTTTCACATTGTCAATGGTGTCCGAGCTCTCGACCTCCAGGGTGATGGTTTTAC
66 CTGAATTTTCGCTTTCACATTGTCAATCGTGTCTGAGCTCTCCACCTCCAGGGTGATAGTTTTAC
3410983 CGGTCAAGGTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCAGGGTCGAT
131 CGGTCAAGGTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCAGGGTCGAT
*
3411048 TCCTTTTGGATGTTATAATCCGCAAGTGTCCTC
196 TCCTTTTGGATGTTATAATCTGCAAGTGTCCTC
* * * * *
3411081 CCATCCTCGAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTATC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTC
* * * * * * * ** *
3411146 TTGGATCTTGGCCTTCACATTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTC
66 CTGAATTTTCGCTTTCACATTGTCAATCGTGTCTGAGCTCTCCACCTCCAGGGTGATAGTTTTAC
* * * * * * * * * * ** * * * *
3411211 CAGTCAAAGTTTTCACAAAAATCTGCATTCCACCACGCAGTCGGAGCACCAAGTGAAGGGTAGAC
131 CGGTCAAGGTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCAGGGTCGAT
* *
3411276 T-CTTTCTGGATATTATAATCTGCAAGTGTCCTA
196 TCCTTT-TGGATGTTATAATCTGCAAGTGTCCTC
* *
3411309 CCATCTTCGAGCTG-TTTGCCAGCAAAAATCAACCTCTGCT
1 CCATCCTCAAGCTGCTTT-CCAGCAAAAATCAACCTCTGCT
3411349 TTTACATTGT
Statistics
Matches: 441, Mismatches: 52, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
227 10 0.02
228 431 0.98
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (228 bp):
CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTC
CTGAATTTTCGCTTTCACATTGTCAATCGTGTCTGAGCTCTCCACCTCCAGGGTGATAGTTTTAC
CGGTCAAGGTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCAGGGTCGAT
TCCTTTTGGATGTTATAATCTGCAAGTGTCCTC
Found at i:3411782 original size:226 final size:225
Alignment explanation
Indices: 3411352--3412111 Score: 765
Period size: 228 Copynumber: 3.3 Consensus size: 225
3411342 CTCTGCTTTT
* * * * * * * * *
3411352 ACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCAC
1 ACATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTAATAGTCTTTCCAGTAAGAGTTTTCAC
* * * ** * * * * *
3411417 AAAAATTTGCATGCCACCACGGAGACGTAA-CACCAA-ATGGAGGGTCGATTCCTTCTGAATGTT
66 AAAAATCTGCATCCCACCCCTAAGACG-AAGGA-CAAGGTGGAGGGTAGA--CTTTCTGGATGTT
* * * * *
3411480 ATAGTCCGCTAGAGTTCGGCCATCTTCAAGCTGCTTTCCAGCAAAAATCAA-CCTCTGCTGGTCC
127 GTAGTCCGCAAGAGTTCGGCCATCTTCAAGCTG-TTTCCGGCAAAGAT-AAGCCTCTGTTGGT-C
* * * *
3411544 A-GTGGGATCCCTTCCTTATCCTGAATCTTGGCCTTA
189 AGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTG
* * * * * *
3411580 ACATTATCAATCGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTGAGGGTTTTTAC
1 ACATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTAATAGTCTTTCCAGTAAGAGTTTTCAC
*
3411645 AAAAATCTGCATCCCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTTTCTGGATGTTGTAA
66 AAAAATCTGCATCCCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTTTCTGGATGTTGTAG
*
3411710 TCCGCAAGAGTTCGGCCATCTTCAAGCTGTTTACCGGCAAAGATAAGCCTCTGTTGGTCTGGTGG
131 TCCGCAAGAGTTCGGCCATCTTCAAGCTGTTT-CCGGCAAAGATAAGCCTCTGTTGGTCAGGTGG
3411775 GATCCCTTCCTTGTCTTGGATCTTGGCCTTG
195 GATCCCTTCCTTGTCTTGGATCTTGGCCTTG
* * * * * * *
3411806 ACATTATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGAGTTTTCAC
1 ACATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTAATAGTCTTTCCAGTAAGAGTTTTCAC
* * * * * * * *
3411871 GAATATCTGCATGCCACCCCTTAGACGAAGGACTAGGTGGAGGGTGGACTCCTTTTGGATATTGT
66 AAAAATCTGCATCCCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACT--TTCTGGATGTTGT
* * * * * *
3411936 AGTCGGCAAGAGTTCGGCCATCCTCGAGTTGTTTTCCGGCAAAGATAAGCCTTTGTTGGTCAGGA
129 AGTCCGCAAGAGTTCGGCCATCTTCAAGCTG-TTTCCGGCAAAGATAAGCCTCTGTTGGTCAGGT
* * *
3412001 GGGATCCCTTCTTTGTCTTGGATTTTAGCCTTG
193 GGGATCCCTTCCTTGTCTTGGATCTTGGCCTTG
* * * * * * *
3412034 ACATTATCGATAGTATCAGAACTTTCTACCT-CAAGGGTGATGGTCTTACCAGTAAGGGTTTTCA
1 ACATTATCAATAGTATCAGAACTCTCCACCTCCAA-GGTAATAGTCTTTCCAGTAAGAGTTTTCA
*
3412098 CAAAGATCTGCATC
65 CAAAAATCTGCATC
3412112 TGCTATCAAC
Statistics
Matches: 450, Mismatches: 73, Indels: 18
0.83 0.13 0.03
Matches are distributed among these distances:
225 6 0.01
226 188 0.42
227 6 0.01
228 247 0.55
229 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (225 bp):
ACATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTAATAGTCTTTCCAGTAAGAGTTTTCAC
AAAAATCTGCATCCCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTTTCTGGATGTTGTAG
TCCGCAAGAGTTCGGCCATCTTCAAGCTGTTTCCGGCAAAGATAAGCCTCTGTTGGTCAGGTGGG
ATCCCTTCCTTGTCTTGGATCTTGGCCTTG
Found at i:3412034 original size:228 final size:228
Alignment explanation
Indices: 3411454--3412111 Score: 813
Period size: 226 Copynumber: 2.9 Consensus size: 228
3411444 TAACACCAAA
* * * * * *
3411454 TGGAGGGTCGATTCCTTCTGAATGTTATAGTCCGCTAGAGTTCGGCCATCTTCAAGCTGCTTTCC
1 TGGAGGGTAGACTCCTTCTGGATGTTGTAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGTTTTCC
* * * * * * *
3411519 AGCAAAAATCAA-CCTCTGCTGGTCCA-GTGGGATCCCTTCCTTATCCTGAATCTTGGCCTTAAC
66 GGCAAAGAT-AAGCCTCTGTTGGT-CAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTGAC
* * * * * * * * *
3411582 ATTATCAATCGTATCAGAACTCTCCACCTCCAA-CGTAATAGTTTTTCCAGTGAGGGTTTTTACA
129 ATTATCAATAGTATCAGAACTTTCCACCT-CAAGGGTGATGGTCTTACCAGTAAGGGTTTTCACA
3411646 AAAATCTGCATCCCACCCCTAAGACGAAGGACAAGG
193 AAAATCTGCATCCCACCCCTAAGACGAAGGACAAGG
* *
3411682 TGGAGGGTAGACT--TTCTGGATGTTGTAATCCGCAAGAGTTCGGCCATCTTCAAGCTGTTTACC
1 TGGAGGGTAGACTCCTTCTGGATGTTGTAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGTTTTCC
*
3411745 GGCAAAGATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTGACAT
66 GGCAAAGATAAGCCTCTGTTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTGACAT
* * * * * *
3411810 TATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGAGTTTTCACGAAT
131 TATCAATAGTATCAGAACTTTCCACCTCAAGGGTGATGGTCTTACCAGTAAGGGTTTTCACAAAA
* * *
3411875 ATCTGCATGCCACCCCTTAGACGAAGGACTAGG
196 ATCTGCATCCCACCCCTAAGACGAAGGACAAGG
* * * * * * *
3411908 TGGAGGGTGGACTCCTTTTGGATATTGTAGTCGGCAAGAGTTCGGCCATCCTCGAGTTGTTTTCC
1 TGGAGGGTAGACTCCTTCTGGATGTTGTAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGTTTTCC
* * * * *
3411973 GGCAAAGATAAGCCTTTGTTGGTCAGGAGGGATCCCTTCTTTGTCTTGGATTTTAGCCTTGACAT
66 GGCAAAGATAAGCCTCTGTTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTGACAT
* * *
3412038 TATCGATAGTATCAGAACTTTCTACCTCAAGGGTGATGGTCTTACCAGTAAGGGTTTTCACAAAG
131 TATCAATAGTATCAGAACTTTCCACCTCAAGGGTGATGGTCTTACCAGTAAGGGTTTTCACAAAA
3412103 ATCTGCATC
196 ATCTGCATC
3412112 TGCTATCAAC
Statistics
Matches: 369, Mismatches: 56, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
225 5 0.01
226 187 0.51
228 177 0.48
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (228 bp):
TGGAGGGTAGACTCCTTCTGGATGTTGTAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGTTTTCC
GGCAAAGATAAGCCTCTGTTGGTCAGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTGACAT
TATCAATAGTATCAGAACTTTCCACCTCAAGGGTGATGGTCTTACCAGTAAGGGTTTTCACAAAA
ATCTGCATCCCACCCCTAAGACGAAGGACAAGG
Found at i:3417604 original size:228 final size:228
Alignment explanation
Indices: 3417241--3418538 Score: 1095
Period size: 228 Copynumber: 5.7 Consensus size: 228
3417231 TAAAGTTCGA
* * *
3417241 CCATCCTCCAA-CTGCTTTCCAGCAAAGATCAACCTCTGCTGGTCCGGAGGAATCCCCTCCTTGT
1 CCATCCT-CAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGT
* * * * * * * *
3417305 CCTGAATCTTAGATTTCACATTGTCAATCGTGTCCGAGCTCTCCACCTCCAGGGTGATGGTTTTC
65 CCTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTA
* * * *
3417370 CCAGTCAAGGTCTTCACAAATATCTGCATTCCTCCTCTAAGGCGCAAAACCAAATGCAGGGTGGA
130 CCAGTCAAGGTCTTCACAAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGA
* *
3417435 TTCCTTTTGGATGTTATAGTCCGCAAGCGTCCTC
195 CTCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
* *
3417469 CCATCCTCAAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGGTCTGGAGGAATTCCCTCCTTGTC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGTC
* * * *
3417534 CTGAATCTTCGCTTTAACATTGTCAATGGTGTCCGAGCTCTCGACCTCCAGTGTTACGGTTTTAC
66 CTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTAC
* * * *
3417599 CAGTCAGGGTCTTAACGAATATCTGCATCCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGAC
131 CAGTCAAGGTCTTCACAAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGAC
*
3417664 TCCTTTTGGATGTTATAATCCGCAAGAGTCCTC
196 TCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
* * * * *
3417697 CCATCCTCGAGTTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTGTC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGTC
* * * * * * * * * *
3417762 TTGGATCTT-GGTCTTCACGTTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTAATAGTTTTT
66 CTGAATCTTCGCT-TTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTA
* * * * * * * *
3417826 CCAGTCAAAGTTTTCACAAAAATCTGCATTCCACCACGCAGTCGCAGCACCAAGTGCAGGGTTGA
130 CCAGTCAAGGTCTTCACAAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGA
3417891 CTCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
195 CTCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
* * * * *
3417925 CCATCCTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGATCTGGTGGGATACCCTCCTTGTC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGTC
* * * * ** * *
3417990 CTGAATCTTCGCCTTAACATTATCAATGGTATCAGAACTCTCCACCTCCAAAGTGATGGTTTTTC
66 CTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTAC
* * * * * * * * * * * * *
3418055 CGGTGAGGGTTTTTACAAATATCTGCATCCCACCCCGAAGACGAAGGA-CAAGGTGGAGGGTAGA
131 CAGTCAAGGTCTTCACAAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAA-GTGCAGGGTTGA
* * * * * **
3418119 CT-CTTTCTGGATGTTGTAATCAGCGAGGGTTCGG
195 CTCCTTT-TGGATGTTATAATCCGCAAGCGTCCTC
* * * * * *
3418153 CCATCTTCAAGTTG-TTTACCTGCAAAGAT-AAGCCTCTGTTGGTCTGGAGGGAT-CCCTTCCTT
1 CCATCCTCAAGCTGCTTT-CCAGCAAAAATCAA-CCTCTGCTGGTCTGGAGGAATACCC-TCCTT
* * * * * * * * * * * * * *
3418215 GTCTTGGATCTTGGCCTTGACATTATCAATCGTATCAGAACTTTCCACCTCGAGGGTGATGGTCT
63 GTCCTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTT
* * * * * * ** * * * * * *
3418280 TGCCCGT-AAGGGTTTTCACAAATATCTGCATGCCACCCCTTAGACGAAGGACTAGGTGGAGGGT
128 TACCAGTCAA-GGTCTTCACAAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGT
* * * * * * **
3418344 GGACTCCTTTTGGATGTTGTAGTCGGCAAGAGTTCGG
192 TGACTCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
* * * * * * * *
3418381 CCATCCTCGAGTTGTTTTCCGGCAAAAAT-AAGCCTCTGTTGGTCTGGAGGAATGCCTTCTTTGT
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAA-CCTCTGCTGGTCTGGAGGAATACCCTCCTTGT
* * * * * * * * * * * * *
3418445 CTTGGATTTTGGCCTTGACATTATCAATAGTATCGGAGCTTTCCACCTCAAGGGTGATGGTTTTA
65 CCTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTA
* *
3418510 CCAGT-AAGGGTTTTCACAAAGATCTGCAT
130 CCAGTCAA-GGTCTTCACAAATATCTGCAT
3418539 CTGCTCCCAA
Statistics
Matches: 913, Mismatches: 144, Indels: 26
0.84 0.13 0.02
Matches are distributed among these distances:
227 21 0.02
228 881 0.96
229 11 0.01
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (228 bp):
CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGTC
CTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTAC
CAGTCAAGGTCTTCACAAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGAC
TCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
Found at i:3418132 original size:456 final size:455
Alignment explanation
Indices: 3417253--3418539 Score: 1404
Period size: 456 Copynumber: 2.8 Consensus size: 455
3417243 ATCCTCCAAC
* * * * *
3417253 TGCTTTCCAGCAAAGATCAACCTCTGCTGGTCCGGAGGAATCCCCTCCTTGTCCTGAATCTTAGA
1 TGCTTTCCAGCAAAGATCAACCTCTGCTGGTCAGGAGGGAT-CCCTCCTTGTCTTGGATCTT-GG
* * *
3417318 T-TTCACATTGTCAATCGTGTCCGAGCTCTCCACCTCCAGGGTGATGGTTTTCCCAGTCAAGGTC
64 TCTTCACATTATCAATCGTGTCAGAGCTCTCCACCTCCAGGGTGATGGTTTTCCCAGTCAAGGTT
* * * * * *
3417382 TTCACAAATATCTGCATTCCTCCTCTAAGGCGCAAAACCAAATGCAGGGTGGATTCCTTTTGGAT
129 TTCACAAATATCTGCATTCCACCACTAAGACGCAGAACCAAGTGCAGGGTGGACTCCTTTTGGAT
*
3417447 GTTATAGTCCGCAAGCGTCCTCCCATCCTCAAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGGT
194 GTTATAGTCCGCAAGCGTCCTCCCATCCTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGGT
* * * * * *
3417512 CTGGAGGAATTCCCTCCTTGTCCTGAATCTTCGCTTTAACATTGTCAATGGTGTCCGAGCTCTCG
259 CTGGAGGAATACCCTCCTTGTCCTGAATCTTCGCCTTAACATTATCAATGGTATCAGAGCTCTCC
** * * * * * * * *
3417577 ACCTCCAGTGTTACGGTTTTACCAGTCAGGGTCTTAACGAATATCTGCATCCCTCCTCGAAGGCG
324 ACCTCCAAAGTGATGGTTTTACCAGTAAGGGTTTTAACAAATATCTGCATCCCACCCCGAAGACG
* * * * *
3417642 CAGAACCAAGTGCAGGGTTGACTCCTTTTGGATGTTATAATCCGCAAGAGTCCTCCCATCCTCGA
389 AAGAACCAAGTGCAGGGTAGACTCCTTTTGGATGTTATAATCAGCAAGAGTCCGCCCATCCTCAA
3417707 GT
454 GT
* *
3417709 TGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCCTCCTTGTCTTGGATCTTGGT
1 TGCTTTCCAGCAAAGATCAACCTCTGCTGGTCAGGAGGGAT-CCCTCCTTGTCTTGGATCTTGGT
* * * ** * * * *
3417774 CTTCACGTTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTAATAGTTTTTCCAGTCAAAGTTT
65 CTTCACATTATCAATCGTGTCAGAGCTCTCCACCTCCAGGGTGATGGTTTTCCCAGTCAAGGTTT
* ** * * *
3417839 TCACAAAAATCTGCATTCCACCACGCAGTCGCAGCACCAAGTGCAGGGTTGACTCCTTTTGGATG
130 TCACAAATATCTGCATTCCACCACTAAGACGCAGAACCAAGTGCAGGGTGGACTCCTTTTGGATG
* *
3417904 TTATAATCCGCAAGCGTCCTCCCATCCTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGATC
195 TTATAGTCCGCAAGCGTCCTCCCATCCTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGGTC
* * *
3417969 TGGTGGGATACCCTCCTTGTCCTGAATCTTCGCCTTAACATTATCAATGGTATCAGAACTCTCCA
260 TGGAGGAATACCCTCCTTGTCCTGAATCTTCGCCTTAACATTATCAATGGTATCAGAGCTCTCCA
* * * *
3418034 CCTCCAAAGTGATGGTTTTTCCGGTGAGGGTTTTTACAAATATCTGCATCCCACCCCGAAGACGA
325 CCTCCAAAGTGATGGTTTTACCAGTAAGGGTTTTAACAAATATCTGCATCCCACCCCGAAGACGA
* * * * * * * *
3418099 AGGA-CAAGGTGGAGGGTAGACT-CTTTCTGGATGTTGTAATCAGCGAGGGTTCGGCCATCTTCA
390 AGAACCAA-GTGCAGGGTAGACTCCTTT-TGGATGTTATAATCAGCAAGAGTCCGCCCATCCTCA
3418162 AGT
453 AGT
* * *
3418165 TG-TTTACCTGCAAAGAT-AAGCCTCTGTTGGTCTGGAGGGATCCCTTCCTTGTCTTGGATCTTG
1 TGCTTT-CCAGCAAAGATCAA-CCTCTGCTGGTCAGGAGGGATCCC-TCCTTGTCTTGGATCTTG
* * * * * * *
3418228 GCCTTGACATTATCAATCGTATCAGAACTTTCCACCTCGAGGGTGATGGTCTTGCCC-GT-AAGG
63 GTCTTCACATTATCAATCGTGTCAGAGCTCTCCACCTCCAGGGTGATGGT-TTTCCCAGTCAA-G
* * * * * * * *
3418291 GTTTTCACAAATATCTGCATGCCACCCCTTAGACGAAGGACTAGGTGGAGGGTGGACTCCTTTTG
126 GTTTTCACAAATATCTGCATTCCACCACTAAGACGCAGAACCAAGTGCAGGGTGGACTCCTTTTG
* * * * ** * * *
3418356 GATGTTGTAGTCGGCAAGAGTTCGGCCATCCTCGAGTTGTTTTCCGGCAAAAAT-AAGCCTCTGT
191 GATGTTATAGTCCGCAAGCGTCCTCCCATCCTCGAGCTGCTTTCCGGCAAAAATCAA-CCTCTGC
* * * * * * * * * *
3418420 TGGTCTGGAGGAATGCCTTCTTTGTCTTGGATTTTGGCCTTGACATTATCAATAGTATCGGAGCT
255 TGGTCTGGAGGAATACCCTCCTTGTCCTGAATCTTCGCCTTAACATTATCAATGGTATCAGAGCT
* * * *
3418485 TTCCACCT-CAAGGGTGATGGTTTTACCAGTAAGGGTTTTCACAAAGATCTGCATC
320 CTCCACCTCCAA-AGTGATGGTTTTACCAGTAAGGGTTTTAACAAATATCTGCATC
3418540 TGCTCCCAAC
Statistics
Matches: 689, Mismatches: 132, Indels: 20
0.82 0.16 0.02
Matches are distributed among these distances:
455 24 0.03
456 661 0.96
457 4 0.01
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (455 bp):
TGCTTTCCAGCAAAGATCAACCTCTGCTGGTCAGGAGGGATCCCTCCTTGTCTTGGATCTTGGTC
TTCACATTATCAATCGTGTCAGAGCTCTCCACCTCCAGGGTGATGGTTTTCCCAGTCAAGGTTTT
CACAAATATCTGCATTCCACCACTAAGACGCAGAACCAAGTGCAGGGTGGACTCCTTTTGGATGT
TATAGTCCGCAAGCGTCCTCCCATCCTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGGTCT
GGAGGAATACCCTCCTTGTCCTGAATCTTCGCCTTAACATTATCAATGGTATCAGAGCTCTCCAC
CTCCAAAGTGATGGTTTTACCAGTAAGGGTTTTAACAAATATCTGCATCCCACCCCGAAGACGAA
GAACCAAGTGCAGGGTAGACTCCTTTTGGATGTTATAATCAGCAAGAGTCCGCCCATCCTCAAGT
Found at i:3426568 original size:13 final size:13
Alignment explanation
Indices: 3426550--3426574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3426540 AAACTTCGAG
3426550 TAATTTTGTATAT
1 TAATTTTGTATAT
3426563 TAATTTTGTATA
1 TAATTTTGTATA
3426575 GTTATATTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TAATTTTGTATAT
Found at i:3437961 original size:27 final size:27
Alignment explanation
Indices: 3437921--3437975 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3437911 CCACATCCAG
*
3437921 TAAGTTAGGGCACGACATCTCGGACTT
1 TAAGTTAGGACACGACATCTCGGACTT
3437948 TAAGTTAGGACACGACATCTCGGACTT
1 TAAGTTAGGACACGACATCTCGGACTT
3437975 T
1 T
3437976 TGAGAGTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (27 bp):
TAAGTTAGGACACGACATCTCGGACTT
Found at i:3440979 original size:11 final size:12
Alignment explanation
Indices: 3440946--3440979 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
3440936 TTCCCCCTCC
3440946 CTTCTCTCTTC-
1 CTTCTCTCTTCT
3440957 CTTCTCTCTTCT
1 CTTCTCTCTTCT
3440969 C-TCTCTCTTCT
1 CTTCTCTCTTCT
3440980 TTTTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 21 0.95
12 1 0.05
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (12 bp):
CTTCTCTCTTCT
Found at i:3441461 original size:6 final size:6
Alignment explanation
Indices: 3441461--3441494 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
3441451 TTATTAGTAT
*
3441461 TATTAG TATTAG TATTAC TATTATG TATTAG TAT
1 TATTAG TATTAG TATTAG TATTA-G TATTAG TAT
3441495 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:3441621 original size:3 final size:3
Alignment explanation
Indices: 3441608--3441649 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
3441598 TATTCCAATG
* *
3441608 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3441650 GTTTATGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3441959 original size:19 final size:18
Alignment explanation
Indices: 3441915--3441963 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
3441905 ATTATCATTG
3441915 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
3441933 TAGTTATATTTTACACTATTA-
1 TA--TATATTTTA-A-TATTAT
3441954 TATATATTTT
1 TATATATTTT
3441964 TCTAGTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.07
19 8 0.30
20 9 0.33
21 3 0.11
22 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:3442420 original size:38 final size:37
Alignment explanation
Indices: 3442336--3442430 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
3442326 TATACGTACT
*
3442336 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
3442374 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
3442410 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
3442431 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:3444528 original size:19 final size:20
Alignment explanation
Indices: 3444488--3444531 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
3444478 GTTTCTTTTG
* *
3444488 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
3444507 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
3444526 GCATTA
1 GCATTA
3444532 GACTTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:3448777 original size:86 final size:86
Alignment explanation
Indices: 3448632--3448895 Score: 411
Period size: 86 Copynumber: 3.1 Consensus size: 86
3448622 AGTAAAAATT
* * * *
3448632 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
*
3448697 GCATTGACAGCGAAACAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
3448718 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
*
3448783 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
*
3448804 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* *
3448869 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
3448891 GAAGA
1 GAAGA
3448896 TGGCAGATTT
Statistics
Matches: 161, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 140 0.87
87 21 0.13
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:3449013 original size:46 final size:46
Alignment explanation
Indices: 3448951--3449183 Score: 165
Period size: 46 Copynumber: 5.2 Consensus size: 46
3448941 ATAACTCTAT
*
3448951 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
3448997 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
3449043 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
3449085 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* ** * * * *
3449131 CTTCCTGTATTTGGCAG-CAAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
3449177 CTCCCTG
1 CTCCCTG
3449184 ATTACAGTGG
Statistics
Matches: 136, Mismatches: 42, Indels: 18
0.69 0.21 0.09
Matches are distributed among these distances:
41 3 0.02
42 10 0.07
43 10 0.07
44 4 0.03
45 22 0.16
46 83 0.61
47 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:3449083 original size:134 final size:134
Alignment explanation
Indices: 3448843--3449223 Score: 674
Period size: 134 Copynumber: 2.8 Consensus size: 134
3448833 GCAGAGCTGG
*
3448843 TTGAAGATAT-CAGATCTTGCTTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
*
3448907 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
3448972 ATAGA
130 ATAGA
*
3448977 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
3449042 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
3449107 TAGA
131 TAGA
*
3449111 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * **
3449176 CCTCCCTGATTACAGTGGAGTACATTGAAGCTGATAGTTCTATCTCCC
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCC
3449224 GGGGCAAGAA
Statistics
Matches: 237, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
133 1 0.00
134 236 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:3449468 original size:132 final size:132
Alignment explanation
Indices: 3449231--3450100 Score: 1292
Period size: 132 Copynumber: 6.6 Consensus size: 132
3449221 CCCGGGGCAA
* * * *
3449231 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGACGCAGA
*
3449296 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
3449361 GT
131 GT
* * **
3449363 GAAGTAGATCGAAGATAGCAGGTCCTACCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGACGCAGA
*
3449428 TCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
3449493 GT
131 GT
* *
3449495 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGACGCAGA
* *
3449560 TATTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
3449625 GT
131 GT
* * * * * *
3449627 GAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATTGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGACGCAGA
*
3449692 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
3449757 GT
131 GT
* * * * *
3449759 GAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGACGCAGA
*
3449824 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
3449889 GT
131 GT
* * *
3449891 GAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATT-AGTAGGAAGTGGATCGAAGATGCAG
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGA-TAGGAAGTGGATCGAAGACGCAG
* ***
3449955 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* *
3450020 TGGC
130 -CGT
* * * * * * * * *
3450024 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCGAAG-ACGCA
3450089 GATCTTGTCTTC
64 GATCTTGTCTTC
3450101 AGGCATTAGC
Statistics
Matches: 683, Mismatches: 50, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 616 0.90
133 37 0.05
134 13 0.02
135 16 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGACGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:3450293 original size:132 final size:132
Alignment explanation
Indices: 3449847--3450359 Score: 415
Period size: 132 Copynumber: 3.8 Consensus size: 132
3449837 TATTGGTGGC
* * *** * * * *
3449847 GAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATCA
1 GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
* * * * ** * ** ** * *
3449911 GATCCTATCTTCCTATATTAGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTG
65 GATCTTGTCTTCATGTATT-GGCGTGAAGTAGATCGAAGATAGCAGATCCGGTCTTCAGACATTA
* *
3449974 GTGGC
129 G-CGT
* *
3449979 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
*** * * * ** *
3450044 GATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAGGCATTA
65 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCGGTCTTCAGACATTA
3450109 GCGT
129 GCGT
* * *
3450113 GAAGTAGATCGAAGATGCCGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAG
1 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
* * ** *
3450178 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGGTAGCAGATCCGGTCTTCCTATATT-G-
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCGGTCTTCAGACATTAGC
3450241 GT
131 GT
* * * * * *
3450243 AGGAAGTGGATTGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAAAAAAA
1 --GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG---AAGAA
** * * *
3450308 AATAGATCTTATCTTCGTGTATTGGCGTGAAGTAGATCGAAGATTGCAGATC
61 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATC
3450360 TTGCCTTCCT
Statistics
Matches: 314, Mismatches: 58, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
130 2 0.01
131 1 0.00
132 116 0.37
133 99 0.32
134 29 0.09
135 67 0.21
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCGGTCTTCAGACATTAGC
GT
Found at i:3450403 original size:46 final size:44
Alignment explanation
Indices: 3450311--3450416 Score: 113
Period size: 46 Copynumber: 2.4 Consensus size: 44
3450301 AAAAAAAAAT
* * * * * *
3450311 AGATCTTATCTTCGTGTATTGGCGTGAAGTAGATCGAAGATTGC
1 AGATCTTACCTTCCTGTATTGGCGCGAAGCAGATCAAAGATGGC
*
3450355 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGC
1 AGATCTTACCTTCCTGTA-TTGGC-GCGAAGCAGATCAAAGATGGC
* *
3450401 AGATTTTACCTCCCTG
1 AGATCTTACCTTCCTG
3450417 ACTACAGTGG
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 15 0.30
45 5 0.10
46 30 0.60
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (44 bp):
AGATCTTACCTTCCTGTATTGGCGCGAAGCAGATCAAAGATGGC
Found at i:3450551 original size:97 final size:95
Alignment explanation
Indices: 3450387--3450575 Score: 333
Period size: 97 Copynumber: 2.0 Consensus size: 95
3450377 GCAGCGAAGC
3450387 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
3450452 CTCCCTGCATTTGACAGTGGAATAGATTGA
66 CTCCCTGCATTTGACAGTAGAATAGATTGA
* *
3450482 AGATCAAATATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
3450547 ATCTCCCTGCATTTGACAGTAGAATAGAT
64 ATCTCCCTGCATTTGACAGTAGAATAGAT
3450576 CGGAGATTAC
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 27 0.30
97 62 0.70
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGCATTTGACAGTAGAATAGATTGA
Found at i:3451448 original size:17 final size:17
Alignment explanation
Indices: 3451426--3451464 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3451416 TCTATTTAAC
* * *
3451426 ATAAAAATATACAACAA
1 ATAAAAAAAAACAAAAA
3451443 ATAAAAAAAAACAAAAA
1 ATAAAAAAAAACAAAAA
3451460 ATAAA
1 ATAAA
3451465 TTTTTCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (17 bp):
ATAAAAAAAAACAAAAA
Found at i:3451525 original size:3 final size:3
Alignment explanation
Indices: 3451512--3451547 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
3451502 TATTCCAATG
* *
3451512 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3451548 GTTTATGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3451857 original size:19 final size:18
Alignment explanation
Indices: 3451813--3451861 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
3451803 ATTATCATTG
3451813 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
3451831 TAGTTATATTTTACACTATTA-
1 TA--TATATTTTA-A-TATTAT
3451852 TATATATTTT
1 TATATATTTT
3451862 TCTAGTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.07
19 8 0.30
20 9 0.33
21 3 0.11
22 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:3452318 original size:38 final size:37
Alignment explanation
Indices: 3452234--3452328 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
3452224 TATACGTACT
*
3452234 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
3452272 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
3452308 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
3452329 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:3455923 original size:17 final size:18
Alignment explanation
Indices: 3455895--3455928 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3455885 TATTCTCCAT
3455895 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
3455913 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
3455929 CAATTCGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:3456660 original size:12 final size:12
Alignment explanation
Indices: 3456643--3456667 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3456633 CTTGCAACGA
3456643 AGTCAACCTATT
1 AGTCAACCTATT
3456655 AGTCAACCTATT
1 AGTCAACCTATT
3456667 A
1 A
3456668 TATTCATAAA
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:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AGTCAACCTATT
Found at i:3461552 original size:24 final size:23
Alignment explanation
Indices: 3461525--3461569 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
3461515 CTCATTGGTT
3461525 TTTTA-AATTATACATTTTTTTTCA
1 TTTTAGAATT-TA-ATTTTTTTTCA
*
3461549 TTTTAGTATTTAATTTTTTTT
1 TTTTAGAATTTAATTTTTTTT
3461570 GCTATAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 7 0.37
25 3 0.16
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTAGAATTTAATTTTTTTTCA
Found at i:3463178 original size:12 final size:12
Alignment explanation
Indices: 3463161--3463185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3463151 ACCAGGGAGC
3463161 GTGAGAGAGAGA
1 GTGAGAGAGAGA
3463173 GTGAGAGAGAGA
1 GTGAGAGAGAGA
3463185 G
1 G
3463186 CTCCTAATTT
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:0.00, G:0.52, T:0.08
Consensus pattern (12 bp):
GTGAGAGAGAGA
Found at i:3466737 original size:40 final size:40
Alignment explanation
Indices: 3466691--3466815 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 40
3466681 TTTTTTATCC
* * *
3466691 AAACGCTGCTATAGATAGAGTATTAGAGGCGCTTTTTGAA
1 AAACGCTGCTATAGGTAGAGCATTAGCGGCGCTTTTTGAA
* * **
3466731 AAACGCTGCTATAGGTCGAGCATCAGCGGCGCTTTTAAAA
1 AAACGCTGCTATAGGTAGAGCATTAGCGGCGCTTTTTGAA
* * *
3466771 AAACAC-GCTATAGGTCA-ACCATTAGCGGCGCTTTCTGAA
1 AAACGCTGCTATAGGT-AGAGCATTAGCGGCGCTTTTTGAA
3466810 AAACGC
1 AAACGC
3466816 CGTAAAAAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
39 31 0.45
40 38 0.55
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (40 bp):
AAACGCTGCTATAGGTAGAGCATTAGCGGCGCTTTTTGAA
Found at i:3466812 original size:39 final size:39
Alignment explanation
Indices: 3466712--3466813 Score: 116
Period size: 39 Copynumber: 2.6 Consensus size: 39
3466702 TAGATAGAGT
* * * *
3466712 ATTAGAGGCGCTTTTTGAAAAACGCTGCTATAGGTCGAGC
1 ATTAGCGGCGC-TTTTGAAAAACACTGCTATAGGTCAACC
* *
3466752 ATCAGCGGCGCTTTTAAAAAAACAC-GCTATAGGTCAACC
1 ATTAGCGGCGCTTTT-GAAAAACACTGCTATAGGTCAACC
3466791 ATTAGCGGCGCTTTCTGAAAAAC
1 ATTAGCGGCGCTTT-TGAAAAAC
3466814 GCCGTAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.67
40 17 0.33
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTGAAAAACACTGCTATAGGTCAACC
Found at i:3466945 original size:40 final size:40
Alignment explanation
Indices: 3466857--3466969 Score: 140
Period size: 40 Copynumber: 2.8 Consensus size: 40
3466847 AGCTTTAGTG
*
3466857 GCATTAGCGGCGCTTTTTGAAAGACGCTGCTATAGATCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCTGCTATAGATCAA
* *
3466897 GCACTAGCGGCGCTTTTTGAAAAACGCTGCTATAGGT-AGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCTGCTATAGATCA-A
* *
3466937 GCATTAGCGTCGCCTTTTT-AAAAAGCGCCGCTA
1 GCATTAGCGGCG-CTTTTTGAAAAA-CGCTGCTA
3466970 ATGGTCGACC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.02
40 50 0.78
41 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCTGCTATAGATCAA
Found at i:3467188 original size:20 final size:20
Alignment explanation
Indices: 3467165--3467211 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3467155 TTTATCTGTC
3467165 TATTTATTATTTAACT-GTTT
1 TATTTATTATTTAACTAG-TT
3467185 TATTTATTATTTAACTAGTT
1 TATTTATTATTTAACTAGTT
3467205 TATTTAT
1 TATTTAT
3467212 AGTTAGGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (20 bp):
TATTTATTATTTAACTAGTT
Done.