Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 10 of 145
Found at i:4191355 original size:44 final size:44
Alignment explanation
Indices: 4191271--4191364 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
4191261 CCTTTATTTT
* * * *
4191271 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTATAATCTCAAGGAGATAAGATTACTAGCTTC
* *
4191315 AATCTGCTCCGCTATAATCTCAAGGAGATAAGATTTCTAGCTTC
1 AATCTGCTCCACTATAATCTCAAGGAGATAAGATTACTAGCTTC
4191359 AATCTG
1 AATCTG
4191365 ATGCGATCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTATAATCTCAAGGAGATAAGATTACTAGCTTC
Found at i:4205005 original size:19 final size:19
Alignment explanation
Indices: 4204981--4205018 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4204971 CCCTTTACAA
*
4204981 GCGTTTTTTCGGTTCTTAT
1 GCGTTTTTCCGGTTCTTAT
4205000 GCGTTTTTCCGGTTCTTAT
1 GCGTTTTTCCGGTTCTTAT
4205019 ATCTATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.18, G:0.21, T:0.55
Consensus pattern (19 bp):
GCGTTTTTCCGGTTCTTAT
Found at i:4205206 original size:22 final size:22
Alignment explanation
Indices: 4205158--4205206 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4205148 GACGTGGCGT
*
4205158 GTACGGAGACGAGGGCGCGCAC
1 GTACGAAGACGAGGGCGCGCAC
* *
4205180 TTACGAAGACGAGGGCGCGCGC
1 GTACGAAGACGAGGGCGCGCAC
4205202 GTACG
1 GTACG
4205207 GAGTCTCGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.27, G:0.43, T:0.08
Consensus pattern (22 bp):
GTACGAAGACGAGGGCGCGCAC
Found at i:4205476 original size:25 final size:25
Alignment explanation
Indices: 4205438--4205486 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4205428 GACTATGGAC
4205438 ATTTTAAAATTTGGCTTTATTTTTT
1 ATTTTAAAATTTGGCTTTATTTTTT
*
4205463 ATTTATAAAA-TTGGGTTTATTTTT
1 ATTT-TAAAATTTGGCTTTATTTTT
4205487 GGTTTACGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (25 bp):
ATTTTAAAATTTGGCTTTATTTTTT
Found at i:4205492 original size:25 final size:26
Alignment explanation
Indices: 4205438--4205492 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
4205428 GACTATGGAC
*
4205438 ATTT-TAAAATTTGGCTTTATTTTTT
1 ATTTATAAAATTTGGCTTTATTTTTG
*
4205463 ATTTATAAAA-TTGGGTTTATTTTTG
1 ATTTATAAAATTTGGCTTTATTTTTG
*
4205488 GTTTA
1 ATTTA
4205493 CGGGCCCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (26 bp):
ATTTATAAAATTTGGCTTTATTTTTG
Found at i:4231306 original size:8 final size:7
Alignment explanation
Indices: 4231275--4231305 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
4231265 TTGTTCACAC
4231275 TTCTATTT
1 TTCT-TTT
4231283 TTCTTTT
1 TTCTTTT
4231290 TTCTTTT
1 TTCTTTT
4231297 TTCTTTT
1 TTCTTTT
4231304 TT
1 TT
4231306 TACCCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (7 bp):
TTCTTTT
Found at i:4231841 original size:40 final size:40
Alignment explanation
Indices: 4231786--4231861 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
4231776 CTTTTATATG
*
4231786 ATGTCAAAGCATCTTTCAGC-TATGGTTTTACCCATTTTTT
1 ATGTCAAAGCATCTTTCA-CTTATGGTCTTACCCATTTTTT
*
4231826 ATGTCATAA-CATCTTTCACTTATGGTCTTACTCATT
1 ATGTCA-AAGCATCTTTCACTTATGGTCTTACCCATT
4231862 GTCGTGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 1 0.03
40 29 0.91
41 2 0.06
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.45
Consensus pattern (40 bp):
ATGTCAAAGCATCTTTCACTTATGGTCTTACCCATTTTTT
Found at i:4234810 original size:19 final size:18
Alignment explanation
Indices: 4234786--4234824 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4234776 GGTGTCACAA
*
4234786 AAGGACCCGATTTAAGACT
1 AAGGACCAGATTTAA-ACT
*
4234805 AAGGACCATATTTAAACT
1 AAGGACCAGATTTAAACT
4234823 AA
1 AA
4234825 ATAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (18 bp):
AAGGACCAGATTTAAACT
Found at i:4236252 original size:18 final size:18
Alignment explanation
Indices: 4236219--4236253 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4236209 ACACTTCAAT
* *
4236219 TTTTTTTCTTTTTTTACC
1 TTTTTTTCCTTATTTACC
4236237 TTTTTTTCCTTATTTAC
1 TTTTTTTCCTTATTTAC
4236254 GGAATTGCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTCCTTATTTACC
Found at i:4238968 original size:34 final size:35
Alignment explanation
Indices: 4238924--4238990 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4238914 CTGTAAAATG
4238924 TTTTCCGTAAAATGATTT-CTAGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
4238958 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
4238991 CTAGCGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:4241000 original size:34 final size:34
Alignment explanation
Indices: 4240962--4241042 Score: 144
Period size: 34 Copynumber: 2.4 Consensus size: 34
4240952 CCACATCAAT
*
4240962 TTTTTCAAGAACAGGTTTTCAATATCTTAAGCAG
1 TTTTTCAAGAACAGGTTTTCAATATCTTAAACAG
*
4240996 TTTTTCAAGAACAGTTTTTCAATATCTTAAACAG
1 TTTTTCAAGAACAGGTTTTCAATATCTTAAACAG
4241030 TTTTTCAAGAACA
1 TTTTTCAAGAACA
4241043 AGAAGAAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (34 bp):
TTTTTCAAGAACAGGTTTTCAATATCTTAAACAG
Found at i:4241002 original size:20 final size:19
Alignment explanation
Indices: 4240971--4241037 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
4240961 TTTTTTCAAG
*
4240971 AACAGGTTTTCAATATCTT
1 AACAGTTTTTCAATATCTT
*
4240990 AAGCAGTTTTTC-A-A---G
1 AA-CAGTTTTTCAATATCTT
4241005 AACAGTTTTTCAATATCTT
1 AACAGTTTTTCAATATCTT
4241024 AAACAGTTTTTCAA
1 -AACAGTTTTTCAA
4241038 GAACAAGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
14 9 0.24
15 3 0.08
16 1 0.03
18 1 0.03
19 3 0.08
20 21 0.55
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (19 bp):
AACAGTTTTTCAATATCTT
Found at i:4247059 original size:50 final size:50
Alignment explanation
Indices: 4246986--4247176 Score: 184
Period size: 50 Copynumber: 3.7 Consensus size: 50
4246976 TCTTGTACTT
* * * * **
4246986 CCAATTCCATATCCCAGATATGGTCTTACACGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** *
4247036 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * * * *
4247086 CCAACGCCATGTCTCAGAAATGCTCTTACATAGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
4247142 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
4247177 TCTCATCAAC
Statistics
Matches: 111, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 76 0.68
53 2 0.02
56 33 0.30
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:4248897 original size:21 final size:20
Alignment explanation
Indices: 4248862--4248901 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4248852 ACTGGAGTTA
*
4248862 ATTTTTAAATTTAAATTTAT
1 ATTTTAAAATTTAAATTTAT
4248882 ATTTTAAAATTTTAAATTTA
1 ATTTTAAAA-TTTAAATTTA
4248902 ATTACAGTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTAAAATTTAAATTTAT
Found at i:4258438 original size:113 final size:114
Alignment explanation
Indices: 4258224--4258445 Score: 412
Period size: 113 Copynumber: 1.9 Consensus size: 114
4258214 ATATTTTATT
4258224 TGAATCTTACTACTCACTGTCAATTTTTTTTTTATAGATTTTTTATCATTTAAGTCCAAGAGCTA
1 TGAATCTTACTACTCACTGTCAA-TTTTTTTTTATAGATTTTTTATCATTTAAGTCCAAGAGCTA
4258289 GCAAGTGGAAATTTTTTTTATTTAGACCCTTTTATAATTTATAATTGATC
65 GCAAGTGGAAATTTTTTTTATTTAGACCCTTTTATAATTTATAATTGATC
4258339 TGAATCTTACTACTCACTGTCAA-TTTTTTTTATAGATTTTTTATCACTTTAAGTCCAAGAGCTA
1 TGAATCTTACTACTCACTGTCAATTTTTTTTTATAGATTTTTTATCA-TTTAAGTCCAAGAGCTA
4258403 GCAAGTGGAAA-TTTTTTTATTTAGACCCTTTTATAATTTATAA
65 GCAAGTGGAAATTTTTTTTATTTAGACCCTTTTATAATTTATAA
4258446 AATTTTAAAT
Statistics
Matches: 106, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
113 55 0.52
114 28 0.26
115 23 0.22
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (114 bp):
TGAATCTTACTACTCACTGTCAATTTTTTTTTATAGATTTTTTATCATTTAAGTCCAAGAGCTAG
CAAGTGGAAATTTTTTTTATTTAGACCCTTTTATAATTTATAATTGATC
Found at i:4260284 original size:29 final size:31
Alignment explanation
Indices: 4260220--4260285 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
4260210 AAATATTCAT
* * *
4260220 TAAA-AAATATATACATGTACATATATAAAG
1 TAAATAAACATATACATATACATATATAAAC
*
4260250 AAAATAAACATATACATATA-A-ATATAAAC
1 TAAATAAACATATACATATACATATATAAAC
4260279 TAAATAA
1 TAAATAA
4260286 TAATAATTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 13 0.43
30 4 0.13
31 13 0.43
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.27
Consensus pattern (31 bp):
TAAATAAACATATACATATACATATATAAAC
Found at i:4260305 original size:20 final size:20
Alignment explanation
Indices: 4260280--4260317 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4260270 AATATAAACT
4260280 AAATAATAATAATTACATAC
1 AAATAATAATAATTACATAC
4260300 AAATAATAATAATTACAT
1 AAATAATAATAATTACAT
4260318 TATTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAATAATAATTACATAC
Found at i:4262007 original size:10 final size:10
Alignment explanation
Indices: 4261992--4262017 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4261982 AAGTAAAAGA
4261992 TATATATATG
1 TATATATATG
4262002 TATATATATG
1 TATATATATG
4262012 TATATA
1 TATATA
4262018 AAAATTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:4262303 original size:3 final size:3
Alignment explanation
Indices: 4262237--4262283 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
4262227 AAACTAATAC
* *
4262237 AAT AAT AAT ACAT -AT AAT AAT AAT AAT AAT AAT AAT AGT AGT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4262282 AA
1 AA
4262284 CCTTATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4264013 original size:50 final size:50
Alignment explanation
Indices: 4263959--4264539 Score: 332
Period size: 50 Copynumber: 11.6 Consensus size: 50
4263949 ACACCGCCAA
* * * **
4263959 GGAAGTAAAATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAAATTTGG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAATTCAG
* * * * *** * ****
4264009 GGAAGCAAGATTCATCGTTATAGCTTCAATCTGTTCCGCTACACCGCCAG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAATTCAG
* * * * *
4264059 GGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAAATGC-AATGTCGG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAAT-TCAG
* * ** * * ****
4264109 GGAAGCAAGATTCGCCATTGTAACTTCAATCTGTTCAACTGCACCGCCAG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAATTCAG
* * * *
4264159 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGC-AATGTCGG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAAT-TCAG
* * * ** * * *
4264209 GGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTGCACTGCACCA-CCAA
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCA-AATTCAG
* ** * *
4264259 GGAAGTAAGATTCATTGTTGTGGCTTCAATCTTTTTAATTGC-AATGTCGG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAAT-TCAG
** * * * * ** * **
4264309 GGAAGCAAGATTTGCCAG-TGTAGCTTCTATATGTTCCACTGCACAGCCAG
1 GGAAGCAAGATTCACC-GTTGTGGCTTCAATCTTTTTAACTGCAAATTCAG
* * * *
4264359 GAAAGTAAGATTCACCATTGTGGCTTCAATCTTTTTAATTGCAACA-TCAG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAA-ATTCAG
** * ** ** *
4264409 GGAAGCAAGATTTGCCGTTGTGGCTTCAATCTGTTCCACT-CACCTCCAG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAATTCAG
* * * * *
4264458 GGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGC-AATGTCGG
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAAT-TCAG
* *
4264508 GGAAGCAAGATTCACCATTGTAGCTTCAATCT
1 GGAAGCAAGATTCACCGTTGTGGCTTCAATCT
4264540 ATTCCACTGC
Statistics
Matches: 379, Mismatches: 138, Indels: 28
0.70 0.25 0.05
Matches are distributed among these distances:
48 1 0.00
49 39 0.10
50 335 0.88
51 3 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
GGAAGCAAGATTCACCGTTGTGGCTTCAATCTTTTTAACTGCAAATTCAG
Found at i:4264090 original size:100 final size:100
Alignment explanation
Indices: 4263915--4264566 Score: 869
Period size: 100 Copynumber: 6.5 Consensus size: 100
4263905 TTGATATGAT
* * * *
4263915 AAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAAATTCACCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGT
*
4263980 GGCTTCAATCTTTTTAATTGCAAAT-TTGGGGAAGC
66 GGCTTCAATCTTTTTAATTGC-AATGTCGGGGAAGC
** * * * *
4264015 AAGATTCATCGTTATAGCTTCAATCTGTTCCGCTACACCGCCAGGGAAGTAAGATTCGCCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGT
* *
4264080 GGCTTTAATCTTTTTAAATGCAATGTCGGGGAAGC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * *
4264115 AAGATTCGCCATTGTAACTTCAATCTGTTCAACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGT
4264180 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * * **
4264215 AAGATTCACTGTTGTAGCTTCAATCTGTTGCACTGCACCACCAAGGAAGTAAGATTCATTGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGT
4264280 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * * *
4264315 AAGATTTGCCAG-TGTAGCTTCTATATGTTCCACTGCACAGCCAGGAAAGTAAGATTCACCATTG
1 AAGATTCGCC-GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTG
** *
4264379 TGGCTTCAATCTTTTTAATTGCAACATCAGGGAAGC
65 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * *
4264415 AAGATTTGCCGTTGTGGCTTCAATCTGTTCCACT-CACCTCCAGGGAAGTAAGATTCGCCATTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGT
4264479 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * **
4264514 AAGATTCACCATTGTAGCTTCAATCTATTCCACTGCACTGCCAGAAAAGTAAG
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAG
4264567 TGATAGGGGG
Statistics
Matches: 483, Mismatches: 65, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
99 91 0.19
100 391 0.81
101 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (100 bp):
AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGT
GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
Found at i:4265989 original size:100 final size:100
Alignment explanation
Indices: 4265853--4266992 Score: 1518
Period size: 100 Copynumber: 11.4 Consensus size: 100
4265843 GACTCGTATC
** * * * * * *
4265853 AGTAAGATTCGTCATTGTGGCTTCAATCTTTCTAATTGCAATGTCAGGGAAGCATGATTCACCAT
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
* *
4265918 TGTAGCTTCAATCTGTTCCACTACACCTCCAGGGA
66 TGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
* *
4265953 AGTAAGATTTC-CCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCGCCA
1 AGTAAGA-TTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCG
* * *
4266017 TTGTA-CATTCAATCTATTCCACTGTACCGCCAGGGA
65 TTGTAGC-TTCAATCTGTTCCACTGCACCACCAGGGA
* * * *
4266053 AGTAAGATTCACCATTGTGGCTTTAATCTTTTTAATTGCAAAGTTGGGGAAGCAAGATTCGCCGT
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
4266118 TGTA-CTTCAATCTGTTCCACTGCACCACCAGGGA
66 TGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
*** * * * *
4266152 AGTAAGATTCGTTGTTATGGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGTTTCGCCAT
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
*
4266217 TGTAGCTTCAATTTGTTCCACTGCACCACCAGAGG-
66 TGTAGCTTCAATCTGTTCCACTGCACCACCAG-GGA
* * * * *
4266252 AGTAAGATTCCCCGTTGTGGTTTCAATCTTTTTAATTGCAATGTTGGGAAAGCAAGATTCGTCGT
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
* * * *
4266317 TGTACCTTCAATCTATTCTACTGCACAACCAGGGA
66 TGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
* * *
4266352 AGTAAGGTTCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCGCCGT
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
* * **
4266417 TGTACCTTCAATCTATTCCACTGCACTGCCAGGGA
66 TGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
* * *
4266452 AGTAAGATTCACCGTCGTGGCTTCAATCTTTTTAATTGGAATGTCGGGGAAGCAAGATT-GACCA
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG-CCG
* *
4266516 TTGTAACTTCAATCTGTTCCACTGCACCTCCAGGGA
65 TTGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
* * *
4266552 AGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCGT
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
* * * *
4266617 TGTAGCTTCAATCTGTTCCACTTCATCGCTAGGGA
66 TGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
* *
4266652 AGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGT
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
* *
4266717 TGTAGCTTCAATCTGTTCCACTACACCGCCAGGGA
66 TGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
* * *
4266752 AGTAAGATTCATCATTGTGGCTTCAATCTTTTTAATCT-CAATGTCGGGGAAGCAAGATTCGTCG
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAAT-TGCAATGTCGGGGAAGCAAGATTCGCCG
** *
4266816 TTACAACTTCAATCTGTTCCACTGCACCACCAGGGA
65 TTGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
* * *
4266852 AGTAAGATTCACCGTTGTGGCTTCAATATTTTTAATTGCAATGTAGGGGAAGCATGATTCGCCGT
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
* ** *
4266917 TGTAGCTTCAGTCCATTCCACTGCACCGCCAGGGA
66 TGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
* * *
4266952 AGTAAGATTCGCCGTTGTGGCTTCAATCCTTTTAACTGCAA
1 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAA
4266993 CCTCAGGGGT
Statistics
Matches: 919, Mismatches: 111, Indels: 20
0.88 0.11 0.02
Matches are distributed among these distances:
99 92 0.10
100 821 0.89
101 6 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (100 bp):
AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
TGTAGCTTCAATCTGTTCCACTGCACCACCAGGGA
Found at i:4266990 original size:50 final size:49
Alignment explanation
Indices: 4265853--4266992 Score: 609
Period size: 50 Copynumber: 22.8 Consensus size: 49
4265843 GACTCGTATC
* * * *
4265853 AGTAAGATTCGTCATTGTGGCTTCAATCTTTCTAATTGCAATGTCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCTTT-TAACTGCAATGCCAGGGA
* * * * * ** * *
4265903 AGCATGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCT-CCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAACTGCA-ATGCCAGGGA
* *
4265953 AGTAAGATTTC-CCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-GAGGA
1 AGTAAGA-TTCGCCGTTGTGGCTTCAATC-TTTTAACTGCAATGCCAG-GGA
* * * ** * **
4266003 AGCAAGATTCGCCATTGT-ACATTCAATCTATTCCACTGTACCGCCAGGGA
1 AGTAAGATTCGCCGTTGTGGC-TTCAATCT-TTTAACTGCAATGCCAGGGA
* * * * * ***
4266053 AGTAAGATTCACCATTGTGGCTTTAATCTTTTTAATTGCAAAGTTGGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAACTGCAATGCCAGGGA
* * ** ***
4266103 AGCAAGATTCGCCGTTGT-ACTTCAATCTGTTCCACTGCACCACCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAACTGCAATGCCAGGGA
** * * * *
4266152 AGTAAGATTCGTTGTTATGGCTTCAATCTATTTAATTGCAATGTCGGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAACTGCAATGCCAGGGA
* * * * * ***
4266202 AGCAAGTTTCGCCATTGTAGCTTCAAT-TTGTTCCACTGCACCACCAGAGG-
1 AGTAAGATTCGCCGTTGTGGCTTCAATCTT-TT-AACTGCAATGCCAG-GGA
* * * **
4266252 AGTAAGATTCCCCGTTGTGGTTTCAATCTTTTTAATTGCAATG-TTGGGAA
1 AGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAACTGCAATGCCAGGG-A
* * ** *
4266302 AGCAAGATTCGTCGTTGTACCTTCAATCTATTCT-ACTGCACA-ACCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TT-TAACTGCA-ATGCCAGGGA
* * * * *
4266352 AGTAAGGTTCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAACTGCAATGCCAGGGA
* ** ** *
4266402 AGCAAGATTCGCCGTTGTACCTTCAATCTATTCCACTGCACTGCCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAACTGCAATGCCAGGGA
* * * * * *
4266452 AGTAAGATTCACCGTCGTGGCTTCAATCTTTTTAATTGGAATGTCGGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAACTGCAATGCCAGGGA
* * ** ** *
4266502 AGCAAGATT-GACCATTGTAACTTCAATCTGTTCCACTGCACCT-CCAGGGA
1 AGTAAGATTCG-CCGTTGTGGCTTCAATCT-TTTAACTGCA-ATGCCAGGGA
* * * *
4266552 AGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAACTGCAATGCCAGGGA
* * * ** * *
4266602 AGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTTC-ATCGCTAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAACTGCAAT-GCCAGGGA
* * * *
4266652 AGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAACTGCAATGCCAGGGA
* * ** * **
4266702 AGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAACTGCAATGCCAGGGA
** * * *
4266752 AGTAAGATTCATCATTGTGGCTTCAATCTTTTTAATCT-CAATGTCGGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAA-CTGCAATGCCAGGGA
* * **** ** ***
4266802 AGCAAGATTCGTCGTTACAACTTCAATCTGTTCCACTGCACCACCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAACTGCAATGCCAGGGA
* * * *
4266852 AGTAAGATTCACCGTTGTGGCTTCAATATTTTTAATTGCAATG-TAGGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAAT-CTTTTAACTGCAATGCCA-GGGA
* * * * * ** **
4266902 AGCATGATTCGCCGTTGTAGCTTCAGTCCATTCCACTGCACCGCCAGGGA
1 AGTAAGATTCGCCGTTGTGGCTTCAAT-CTTTTAACTGCAATGCCAGGGA
4266952 AGTAAGATTCGCCGTTGTGGCTTCAATCCTTTTAACTGCAA
1 AGTAAGATTCGCCGTTGTGGCTTCAAT-CTTTTAACTGCAA
4266993 CCTCAGGGGT
Statistics
Matches: 785, Mismatches: 257, Indels: 96
0.69 0.23 0.08
Matches are distributed among these distances:
48 4 0.01
49 57 0.07
50 691 0.88
51 31 0.04
52 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (49 bp):
AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAACTGCAATGCCAGGGA
Found at i:4267895 original size:17 final size:16
Alignment explanation
Indices: 4267860--4267908 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
4267850 GGCCTCTCCT
*
4267860 TTTTCTTTTTCGTTCTTC
1 TTTTCTTTTT--TTTTTC
4267878 TTTTCTTTTATTTTTTC
1 TTTTCTTTT-TTTTTTC
4267895 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
4267909 CAAGTGAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 5 0.17
17 14 0.48
18 9 0.31
19 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:4271039 original size:74 final size:74
Alignment explanation
Indices: 4270913--4271057 Score: 238
Period size: 74 Copynumber: 2.0 Consensus size: 74
4270903 TCTTGTATTT
* * *
4270913 AAAAAAGGGATCATGGCCAGTAAGTTAGGACACGATCTTCTCTTCATTCCCGAGATCGCTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTCTCTTAATCCCCGAGATCGCTTAAAA
4270978 CTTGAGACA
66 CTTGAGACA
*
4270987 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATC-TCTTCTTAATCCCCGAGATCGTTTAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTC-TCTTAATCCCCGAGATCGCTTAAA
4271051 ACTTGAG
65 ACTTGAG
4271058 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
73 2 0.03
74 64 0.97
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (74 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTCTCTTAATCCCCGAGATCGCTTAAAA
CTTGAGACA
Found at i:4271465 original size:16 final size:16
Alignment explanation
Indices: 4271444--4271474 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4271434 AAGTAAAAGA
4271444 TATATATATGTATATG
1 TATATATATGTATATG
4271460 TATATATATGTATAT
1 TATATATATGTATAT
4271475 AAAAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (16 bp):
TATATATATGTATATG
Found at i:4271918 original size:3 final size:3
Alignment explanation
Indices: 4271912--4271953 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4271902 AACAATACCT
4271912 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4271954 GAAAAGAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4272098 original size:50 final size:50
Alignment explanation
Indices: 4272036--4272134 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
4272026 TTGTGACATC
*
4272036 CGCAAAATGAGGGGGACCAAAACAGTAAATATCCCGCCCTCCAAAACGCG
1 CGCAAAAGGAGGGGGACCAAAACAGTAAATATCCCGCCCTCCAAAACGCG
4272086 CGCAAAAGGAGGGGGACCAAAACAGTAAATATCCCGCCCTCCAAAACGC
1 CGCAAAAGGAGGGGGACCAAAACAGTAAATATCCCGCCCTCCAAAACGC
4272135 ATCACTTTGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.38, C:0.30, G:0.22, T:0.09
Consensus pattern (50 bp):
CGCAAAAGGAGGGGGACCAAAACAGTAAATATCCCGCCCTCCAAAACGCG
Found at i:4274070 original size:20 final size:20
Alignment explanation
Indices: 4274045--4274097 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
4274035 AAAATTACAA
**
4274045 AAAAATTTAAAATGTTTTTT
1 AAAAATTTAAAATAATTTTT
* *
4274065 AAAAATTCAATATAATTTTT
1 AAAAATTTAAAATAATTTTT
4274085 -AAAATTTAAAATA
1 AAAAATTTAAAATA
4274098 TTTATAACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAAATTTAAAATAATTTTT
Found at i:4274282 original size:11 final size:11
Alignment explanation
Indices: 4274266--4274290 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4274256 AAGTATCTTA
4274266 TTTTTTATTAT
1 TTTTTTATTAT
4274277 TTTTTTATTAT
1 TTTTTTATTAT
4274288 TTT
1 TTT
4274291 GTGTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:4274602 original size:6 final size:6
Alignment explanation
Indices: 4274593--4274621 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4274583 TCAAAAATAA
4274593 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
4274622 ATTTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:4274639 original size:19 final size:17
Alignment explanation
Indices: 4274630--4274662 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4274620 ATATTTATAA
4274630 ATTTTTAAAAAAATTAT
1 ATTTTTAAAAAAATTAT
4274647 ATTTTT-AAAAAATTAT
1 ATTTTTAAAAAAATTAT
4274663 NNNNNNNNNN
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTTAAAAAAATTAT
Found at i:4274781 original size:3 final size:3
Alignment explanation
Indices: 4274773--4274805 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4274763 NNNNNNNNNN
*
4274773 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4274806 TTTCTTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:4274991 original size:25 final size:24
Alignment explanation
Indices: 4274954--4275000 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
4274944 ATCTTACTTG
*
4274954 TAATATAAATCATATATT-TAAACA
1 TAATAAAAATCATA-ATTATAAACA
4274978 TAATAAAATATCATAATTATAAA
1 TAATAAAA-ATCATAATTATAAA
4275001 TTGATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (24 bp):
TAATAAAAATCATAATTATAAACA
Found at i:4275095 original size:35 final size:36
Alignment explanation
Indices: 4275004--4275155 Score: 211
Period size: 36 Copynumber: 4.3 Consensus size: 36
4274994 TTATAAATTG
*
4275004 ATTTAAATTATTTTATACCTAATACAAT--TTTTTA
1 ATTTAAAATATTTTATACCTAATACAATCATTTTTA
*
4275038 ATTTAAAATATTTTATACCTAATGCAATCATTTTTA
1 ATTTAAAATATTTTATACCTAATACAATCATTTTTA
* *
4275074 ATTTAAAA-AATTTATTCCTAATACAATCATTTTTA
1 ATTTAAAATATTTTATACCTAATACAATCATTTTTA
* *
4275109 ATTTAAAATATTTTATACCTAATGCAATCATTTGTA
1 ATTTAAAATATTTTATACCTAATACAATCATTTTTA
*
4275145 TTTTTAAAATA
1 -ATTTAAAATA
4275156 AAAATTCTTA
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
34 26 0.25
35 32 0.31
36 37 0.36
37 9 0.09
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (36 bp):
ATTTAAAATATTTTATACCTAATACAATCATTTTTA
Found at i:4279757 original size:21 final size:20
Alignment explanation
Indices: 4279709--4279762 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4279699 GAAGCATATC
* **
4279709 TAATGATAATTTTTTTTTCA
1 TAATCATAATTTTTTTTAAA
*
4279729 TTATCATAATTTTTTTTAAA
1 TAATCATAATTTTTTTTAAA
4279749 TAATCCATAATTTT
1 TAAT-CATAATTTT
4279763 AAAGAATCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (20 bp):
TAATCATAATTTTTTTTAAA
Found at i:4282045 original size:349 final size:350
Alignment explanation
Indices: 4281395--4282093 Score: 1391
Period size: 349 Copynumber: 2.0 Consensus size: 350
4281385 CATTTAAAAA
4281395 ATATAATTTTATGATATATTAATTTAAGATTTATAAATAGTAAATAAGCTAAAATTTAAGATTTT
1 ATATAATTTTATGATATATTAATTTAAGATTTATAAATAGTAAATAAGCTAAAATTTAAGATTTT
4281460 AGGGGGCTTTGCTTTGCTGAACACCCTGTAGCAGTGCCGCCCTTACTATTCAATAATATATATAT
66 AGGGGGCTTTGCTTTGCTGAACACCCTGTAGCAGTGCCGCCCTTACTATTCAATAATATATATAT
4281525 ATATATAGACACACGTGACAATATAAGTAATGCAAAGCAAAATTTTAATAGTTATCAACATAAGG
131 ATATATAGACACACGTGACAATATAAGTAATGCAAAGCAAAATTTTAATAGTTATCAACATAAGG
4281590 TTTAAATTACTTCTTTCTCATTTACTTAAAATTCATAATTATTATCATATTTCTTAAAAAATATA
196 TTTAAATTACTTCTTTCTCATTTACTTAAAATTCATAATTATTATCATATTTCTTAAAAAATATA
4281655 TTCATTTTAATGCAGAAAGCTATATAGAATGGCTATCATAATGTTATACACATTAATAATGGTAA
261 TTCATTTTAATGCAGAAAGCTATATAGAATGGCTATCATAATGTTATACACATTAATAATGGTAA
4281720 TCAAAAAAAAAAAGTTCCATGTCTT
326 TCAAAAAAAAAAAGTTCCATGTCTT
4281745 ATATAATTTT-TGATATATTAATTTAAGATTTATAAATAGTAAATAAGCTAAAATTTAAGATTTT
1 ATATAATTTTATGATATATTAATTTAAGATTTATAAATAGTAAATAAGCTAAAATTTAAGATTTT
4281809 AGGGGGCTTTGCTTTGCTGAACACCCTGTAGCAGTGCCGCCCTTACTATTCAATAATATATATAT
66 AGGGGGCTTTGCTTTGCTGAACACCCTGTAGCAGTGCCGCCCTTACTATTCAATAATATATATAT
4281874 ATATATAGACACACGTGACAATATAAGTAATGCAAAGCAAAATTTTAATAGTTATCAACATAAGG
131 ATATATAGACACACGTGACAATATAAGTAATGCAAAGCAAAATTTTAATAGTTATCAACATAAGG
4281939 TTTAAATTACTTCTTTCTCATTTACTTAAAATTCATAATTATTATCATATTTCTTAAAAAATATA
196 TTTAAATTACTTCTTTCTCATTTACTTAAAATTCATAATTATTATCATATTTCTTAAAAAATATA
4282004 TTCATTTTAATGCAGAAAGCTATATAGAATGGCTATCATAATGTTATACACATTAATAATGGTAA
261 TTCATTTTAATGCAGAAAGCTATATAGAATGGCTATCATAATGTTATACACATTAATAATGGTAA
4282069 TCAAAAAAAAAAAGTTCCATGTCTT
326 TCAAAAAAAAAAAGTTCCATGTCTT
4282094 TGTTCATTTT
Statistics
Matches: 349, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
349 339 0.97
350 10 0.03
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (350 bp):
ATATAATTTTATGATATATTAATTTAAGATTTATAAATAGTAAATAAGCTAAAATTTAAGATTTT
AGGGGGCTTTGCTTTGCTGAACACCCTGTAGCAGTGCCGCCCTTACTATTCAATAATATATATAT
ATATATAGACACACGTGACAATATAAGTAATGCAAAGCAAAATTTTAATAGTTATCAACATAAGG
TTTAAATTACTTCTTTCTCATTTACTTAAAATTCATAATTATTATCATATTTCTTAAAAAATATA
TTCATTTTAATGCAGAAAGCTATATAGAATGGCTATCATAATGTTATACACATTAATAATGGTAA
TCAAAAAAAAAAAGTTCCATGTCTT
Found at i:4282777 original size:21 final size:21
Alignment explanation
Indices: 4282739--4282788 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
4282729 TTACAAATTT
**
4282739 ATATTAAATATTTTTTTAAAG
1 ATATTAAATATTCATTTAAAG
*
4282760 ATATTAAATATTCATTTAATG
1 ATATTAAATATTCATTTAAAG
*
4282781 TTATTAAA
1 ATATTAAA
4282789 ACTTACCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
ATATTAAATATTCATTTAAAG
Found at i:4285326 original size:71 final size:71
Alignment explanation
Indices: 4285200--4285426 Score: 314
Period size: 71 Copynumber: 3.2 Consensus size: 71
4285190 TAGTGGCATC
* *
4285200 TTTTAA-AAAGCGTCGCAAAAAACCTAAGCCCAACGACG-TCGTTTTGTGAGCTTTCGGGGATTT
1 TTTTAAGAAAGCGCCGCAAAAAACCTAAG-CCAACGACGCT-GTTTTGTGAGTTTTCGGGGATTT
*
4285263 AGCGGTGT
64 AGCGGCGT
* *
4285271 TTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCTGTTTTGTGAGTTTTCGGGGATTTAA
1 TTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCTGTTTTGTGAGTTTTCGGGGATTTAG
4285336 CGGCGT
66 CGGCGT
* * * * *
4285342 TTTTAAGAAAGCACAGCAAAAAACCTAAGCCAAAACAACACCGTTTTGTGAGTTTTCGGGGATTT
1 TTTTAAGAAAGCGCCGCAAAAAACCTAAGCC--AACGACGCTGTTTTGTGAGTTTTCGGGGATTT
4285407 AGCGGCGT
64 AGCGGCGT
4285415 TTTTAAGAAAGC
1 TTTTAAGAAAGC
4285427 ACTGCTAATG
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
71 70 0.50
72 22 0.16
73 48 0.34
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (71 bp):
TTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCTGTTTTGTGAGTTTTCGGGGATTTAG
CGGCGT
Found at i:4285479 original size:114 final size:114
Alignment explanation
Indices: 4285331--4285540 Score: 323
Period size: 114 Copynumber: 1.8 Consensus size: 114
4285321 TTTTCGGGGA
* *
4285331 TTTAACGGCGTTTTTAAGAAAGCACAGCAAAAAACCTAAGCCAAAACA-ACACCGTTTTGTGAGT
1 TTTAACGGCGTTTTTAAGAAAGCACAGCAAAAAACCTAACCCAAAA-AGACACCGTTTTGTGAGC
4285395 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACTGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACTGCTAATGCTCAGGGC
* * * * *
4285445 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAACCCAAAAAGACGCCGTTTTGTGAGCT
1 TTTAACGGCGTTTTTAAGAAAGCACAGCAAAAAACCTAACCCAAAAAGACACCGTTTTGTGAGCT
* *
4285510 TTCGGGGATTTAGCGGCTTTTTTGAGAAAGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGC
4285541 GCCGCAAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
113 1 0.01
114 85 0.99
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (114 bp):
TTTAACGGCGTTTTTAAGAAAGCACAGCAAAAAACCTAACCCAAAAAGACACCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACTGCTAATGCTCAGGGC
Found at i:4285573 original size:72 final size:73
Alignment explanation
Indices: 4285445--4285617 Score: 253
Period size: 72 Copynumber: 2.4 Consensus size: 73
4285435 TGCTCAGGGC
* *
4285445 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAACCCAAAAAGACGCCGTTTTGTGAGCT
1 TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAACCCAAAAAGACACCGTTTTGTGAGCT
4285510 TTCGGGGA
66 TTCGGGGA
* * *
4285518 TTTAGCGGCTTTTTTGAGAAAGCGCCGC-AAAAACCTAAGCCAAAACGACATCGTTTTGTGAGCT
1 TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAACCCAAAAAGACACCGTTTTGTGAGCT
4285582 TTCGGGGA
66 TTCGGGGA
*
4285590 TTTAGCGACGCTTTCTT-A-AAAGCGCCGC
1 TTTAGCG--GCTTTTTTGAGAAAGCGCCGC
4285618 TAATGCTTAA
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
72 57 0.62
73 28 0.30
74 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (73 bp):
TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAACCCAAAAAGACACCGTTTTGTGAGCT
TTCGGGGA
Found at i:4285589 original size:186 final size:186
Alignment explanation
Indices: 4285260--4286101 Score: 1112
Period size: 186 Copynumber: 4.5 Consensus size: 186
4285250 CTTTCGGGGA
* * * *
4285260 TTTAGCGGTGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AACGACGCTGTTTTGTGAGTTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAGACGCCGTTTTGTGAGCTT
* * * * * *
4285324 TCGGGGATTTAACGGCGTTTTTAAGAAAGCACAGCAAAAAACCTAAGCCAAAACAACACCGTTTT
66 TCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACATCGTTTT
* * *
4285389 GTGAGTTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACTGCTAATGCTCAGGGC
131 GTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
4285445 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAACCCAAAAAGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AAAAGACGCCGTTTTGTGAGCT
*
4285510 TTCGGGGATTTAGCGGCTTTTTTGAGAAAGCGCCGC-AAAAACCTAAGCCAAAACGACATCGTTT
65 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACATCGTTT
* * * *
4285574 TGTGAGCTTTCGGGGATTTAGCGACGCTTTCTT-A-AAAGCGCCGCTAATGCTTAAGGT
130 TGTGAGCTTTCGGGGATTTAGCGGCG-TTT-TTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
4285631 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAAGATGCCATTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AAAAGACGCCGTTTTGTGAGCT
* *
4285696 TTCGGGGATTTA---GAGTTTTTGAGAAAGCGCCGTAAAAAAACCTAAGCCAAAACGACA-CTGT
65 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCG-CAAAAAACCTAAGCCAAAACGACATC-GT
* *
4285757 TTTGTGAGCTTTCAGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGG-
128 TTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
4285815 TTTAGCGGCGTTTTAGAGAAAGCACCGCAAAAAACCTAAGCCAAAAGTATGCCATTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAG-ACGCCGTTTTGTGAGCT
* * * * *
4285880 TTCAGGGATTTAGCGGCGATTTTGAGAAAGCGCTGCAAAAAACCTAAGCCAAAACTACGTCGTTT
65 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACATCGTTT
* * * * * * * *
4285945 TGTGAGCTTTTGGCGATTTAGTGGCGTTTATAAGGAAGCGCCGCCAATGATTAGGGC
130 TGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
4286002 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAGACGCCGTTTTGTGAGCTT
4286067 TCGGGGATTTAGCTGG-GTTTTT-AGGAAAGCGCCGC
66 TCGGGGATTTAGC-GGCGTTTTTGA-GAAAGCGCCGC
4286102 TAATGCTCAA
Statistics
Matches: 582, Mismatches: 58, Indels: 33
0.86 0.09 0.05
Matches are distributed among these distances:
183 25 0.04
184 73 0.13
185 110 0.19
186 256 0.44
187 116 0.20
188 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (186 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAGACGCCGTTTTGTGAGCTT
TCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACATCGTTTT
GTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:4285723 original size:70 final size:71
Alignment explanation
Indices: 4285640--4285779 Score: 210
Period size: 71 Copynumber: 2.0 Consensus size: 71
4285630 TTTTAGCGGC
* ** *
4285640 GTTTTTGAGAAAGCGCCG-CAAAAAACCTAAGCCAAAAAGATGCCATTTTGTGAGCTTTCGGGGA
1 GTTTTTGAGAAAGCGCCGTAAAAAAACCTAAGCCAAAAAGACACCATTTTGTGAGCTTTCAGGGA
4285704 TTTAGA
66 TTTAGA
* **
4285710 GTTTTTGAGAAAGCGCCGTAAAAAAACCTAAGCCAAAACGACACTGTTTTGTGAGCTTTCAGGGA
1 GTTTTTGAGAAAGCGCCGTAAAAAAACCTAAGCCAAAAAGACACCATTTTGTGAGCTTTCAGGGA
4285775 TTTAG
66 TTTAG
4285780 CGGCGTTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 18 0.29
71 44 0.71
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (71 bp):
GTTTTTGAGAAAGCGCCGTAAAAAAACCTAAGCCAAAAAGACACCATTTTGTGAGCTTTCAGGGA
TTTAGA
Found at i:4285945 original size:371 final size:367
Alignment explanation
Indices: 4285260--4286078 Score: 1149
Period size: 371 Copynumber: 2.2 Consensus size: 367
4285250 CTTTCGGGGA
* * *
4285260 TTTAGCGGTGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCTGTTTTGTGAGTTTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCCGTTTTGTGAGCTTT
* *
4285325 CGGGGATTTAACGGCGTTTTTAAGAAAGCACAGCAAAAAACCTAAGCCAAAACAACACCGTTTTG
66 CGGGGATTT-A--GAGTTTTTAAGAAAGCACAGAAAAAAACCTAAGCCAAAACAACACCGTTTTG
* * *
4285390 TGAGTTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACTGCTAATGCTCAGGGCTTTAGCGGCG
128 TGAGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCG
* * * *
4285455 TTTTTGAGAAAGCGCCGCAAAAAACCTAACCCAAAAAGACGCCGTTTTGTGAGCTTTCGGGGATT
193 TTTTAGAGAAAGCACCGCAAAAAACCTAACCCAAAAAGACGCCATTTTGTGAGCTTTCAGGGATT
**
4285520 TAGCGGCTTTTTTGAGAAAGCGCCGCAAAAACCTAAGCCAAAACGACATCGTTTTGTGAGCTTTC
258 TAGCGGCGATTTTGAGAAAGCGCCGCAAAAACCTAAGCCAAAACGACATCGTTTTGTGAGCTTTC
* * * * *
4285585 GGGGATTTAGCGACGCTTTCTTAA-AAGCGCCGCTAATGCTTAAGGT
323 GGCGATTTAGCGACG-TTT-ATAAGAAGCGCCGCCAATGATTAAGGC
* * *
4285631 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAAGATGCCATTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC--AACGACGCCGTTTTGTGAGCT
* * * * *
4285696 TTCGGGGATTTAGAGTTTTTGAGAAAGCGCCGTAAAAAAACCTAAGCCAAAACGACACTGTTTTG
64 TTCGGGGATTTAGAGTTTTTAAGAAAGCACAG-AAAAAAACCTAAGCCAAAACAACACCGTTTTG
* *
4285761 TGAGCTTTCAGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGG-TTTAGCGGCG
128 TGAGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCG
* *
4285825 TTTTAGAGAAAGCACCGCAAAAAACCTAAGCC-AAAAGTATGCCATTTTGTGAGCTTTCAGGGAT
193 TTTTAGAGAAAGCACCGCAAAAAACCTAACCCAAAAAG-ACGCCATTTTGTGAGCTTTCAGGGAT
* * *
4285889 TTAGCGGCGATTTTGAGAAAGCGCTGCAAAAAACCTAAGCCAAAACTACGTCGTTTTGTGAGCTT
257 TTAGCGGCGATTTTGAGAAAGCGCCGC-AAAAACCTAAGCCAAAACGACATCGTTTTGTGAGCTT
* * * *
4285954 TTGGCGATTTAGTGGCGTTTATAAGGAAGCGCCGCCAATGATTAGGGC
321 TCGGCGATTTAGCGACGTTTATAA-GAAGCGCCGCCAATGATTAAGGC
* *
4286002 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAG-CCAACGACGCCGTTTTGTGAGCTT
4286067 TCGGGGATTTAG
65 TCGGGGATTTAG
4286079 CTGGGTTTTT
Statistics
Matches: 397, Mismatches: 43, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
369 8 0.02
370 134 0.34
371 225 0.57
372 3 0.01
373 27 0.07
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (367 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCCGTTTTGTGAGCTTT
CGGGGATTTAGAGTTTTTAAGAAAGCACAGAAAAAAACCTAAGCCAAAACAACACCGTTTTGTGA
GCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTT
TAGAGAAAGCACCGCAAAAAACCTAACCCAAAAAGACGCCATTTTGTGAGCTTTCAGGGATTTAG
CGGCGATTTTGAGAAAGCGCCGCAAAAACCTAAGCCAAAACGACATCGTTTTGTGAGCTTTCGGC
GATTTAGCGACGTTTATAAGAAGCGCCGCCAATGATTAAGGC
Found at i:4285984 original size:73 final size:72
Alignment explanation
Indices: 4285809--4285988 Score: 220
Period size: 73 Copynumber: 2.5 Consensus size: 72
4285799 CCGCTAATGC
* * *
4285809 TCAGGG-TTTAGCGGCGTTTTAGAGAAAGCACCGCAAAAAACCTAAGCCAAAAGTATGCCATTTT
1 TCAGGGATTTAGCGGCGTTTTA-AGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCATTTT
4285873 GTGAGCTT
65 GTGAGCTT
* * * *
4285881 TCAGGGATTTAGCGGCGATTTTGAGAAAGCGCTGCAAAAAACCTAAGCCAAAACTACGTCGTTTT
1 TCAGGGATTTAGCGGCG-TTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCATTTT
4285946 GTGAGCTT
65 GTGAGCTT
* * *
4285954 T-TGGCGATTTAGTGGCGTTTATAAGGAAGCGCCGC
1 TCAGG-GATTTAGCGGCGTTT-TAAGAAAGCGCCGC
4285989 CAATGATTAG
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
72 11 0.12
73 77 0.84
74 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (72 bp):
TCAGGGATTTAGCGGCGTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCATTTTG
TGAGCTT
Found at i:4286312 original size:14 final size:14
Alignment explanation
Indices: 4286293--4286341 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
4286283 TATCACTATA
*
4286293 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
4286307 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
4286321 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
4286335 GTTTAGG
1 GTTTAGG
4286342 TGTTACCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:4286397 original size:51 final size:52
Alignment explanation
Indices: 4286320--4286441 Score: 205
Period size: 51 Copynumber: 2.4 Consensus size: 52
4286310 TAGGGTATAT
*
4286320 GGTTTA-GAGTTTAAGGTTTAGGTGTTACCATTTTAAGGTTTATAGATTATG
1 GGTTTAGGGGTTTAAGGTTTAGGTGTTACCATTTTAAGGTTTATAGATTATG
4286371 GGTTTAGGGGTTTAAGGTTTA-GTGTTACCATTTTAAGGTTTATAGATTATG
1 GGTTTAGGGGTTTAAGGTTTAGGTGTTACCATTTTAAGGTTTATAGATTATG
*
4286422 GGTTTAGGGG-TTATGGTTTA
1 GGTTTAGGGGTTTAAGGTTTA
4286442 TGGTTTAAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
50 9 0.13
51 46 0.68
52 13 0.19
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.45
Consensus pattern (52 bp):
GGTTTAGGGGTTTAAGGTTTAGGTGTTACCATTTTAAGGTTTATAGATTATG
Found at i:4286448 original size:21 final size:21
Alignment explanation
Indices: 4286417--4286531 Score: 74
Period size: 21 Copynumber: 5.5 Consensus size: 21
4286407 GGTTTATAGA
4286417 TTATGGGTTTAGGGGTTATGGT
1 TTAT-GGTTTAGGGGTTATGGT
** * *
4286439 TTATGGTTTAAAGGCTAGGGT
1 TTATGGTTTAGGGGTTATGGT
* *
4286460 TTAAGGTTTAGAGGTTAT-GT
1 TTATGGTTTAGGGGTTATGGT
** * *
4286480 GCAT-GTTAAGGGCTTATGGTT
1 TTATGGTTTAGGGGTTATGG-T
* *
4286501 TTAGGGTTTA-GGTTTATGGT
1 TTATGGTTTAGGGGTTATGGT
*
4286521 TTAGGGTTTAG
1 TTATGGTTTAG
4286532 ATTAACTAGT
Statistics
Matches: 70, Mismatches: 19, Indels: 9
0.71 0.19 0.09
Matches are distributed among these distances:
19 10 0.14
20 15 0.21
21 37 0.53
22 8 0.11
ACGTcount: A:0.19, C:0.03, G:0.35, T:0.43
Consensus pattern (21 bp):
TTATGGTTTAGGGGTTATGGT
Found at i:4286525 original size:20 final size:21
Alignment explanation
Indices: 4286493--4286531 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4286483 TGTTAAGGGC
4286493 TTATGGTTTTAGGGTTTAGGT
1 TTATGGTTTTAGGGTTTAGGT
4286514 TTATGG-TTTAGGGTTTAG
1 TTATGGTTTTAGGGTTTAG
4286532 ATTAACTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.51
Consensus pattern (21 bp):
TTATGGTTTTAGGGTTTAGGT
Found at i:4286528 original size:14 final size:14
Alignment explanation
Indices: 4286417--4286531 Score: 56
Period size: 14 Copynumber: 7.8 Consensus size: 14
4286407 GGTTTATAGA
*
4286417 TTATGGGTTTAGGGG
1 TTAT-GGTTTAGGGT
*
4286432 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
* *
4286446 TTAAAGG-CTAGGGT
1 TT-ATGGTTTAGGGT
*
4286460 TTAAGGTTTAGAGG-
1 TTATGGTTTAG-GGT
*
4286474 TTATGTGCATGTTAAGGGC
1 TTATG-G--T-TT-AGGGT
4286493 TTATGGTTTTAGGGT
1 TTATGG-TTTAGGGT
*
4286508 TTA-GGTTTATGGT
1 TTATGGTTTAGGGT
*
4286521 TTAGGGTTTAG
1 TTATGGTTTAG
4286532 ATTAACTAGT
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
13 14 0.18
14 32 0.41
15 17 0.22
16 2 0.03
17 2 0.03
18 5 0.06
19 7 0.09
ACGTcount: A:0.19, C:0.03, G:0.35, T:0.43
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:4286822 original size:21 final size:21
Alignment explanation
Indices: 4286796--4286892 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
4286786 TAGGGATTAT
* * *
4286796 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAGGGGTTAGGAGTTAA
* *
4286817 GGTTTAGGGGTTAGTAGTTAG
1 GGTTTAGGGGTTAGGAGTTAA
* * *
4286838 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTAGGGGTTAGGAGTTAA
*
4286859 GGATTTAGGGGTTAGGATTTAA
1 GG-TTTAGGGGTTAGGAGTTAA
*
4286881 GGATTTAAGGGT
1 GG-TTTAGGGGT
4286893 CGGGTTAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
21 36 0.58
22 26 0.42
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (21 bp):
GGTTTAGGGGTTAGGAGTTAA
Found at i:4286830 original size:7 final size:7
Alignment explanation
Indices: 4286820--4286874 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
4286810 GATTTAAGGT
4286820 TTAGGGG
1 TTAGGGG
**
4286827 TTAGTAG
1 TTAGGGG
4286834 TTAGGGG
1 TTAGGGG
4286841 TTAGGGG
1 TTAGGGG
* *
4286848 TTAAGAG
1 TTAGGGG
*
4286855 TTAGGGAT
1 TTAGGG-G
4286863 TTAGGGG
1 TTAGGGG
4286870 TTAGG
1 TTAGG
4286875 ATTTAAGGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:4286869 original size:22 final size:22
Alignment explanation
Indices: 4286819--4286892 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
4286809 GGATTTAAGG
4286819 TTTAGGGGTT-AGTAGTTAGGG-
1 TTTAGGGGTTAAG-AGTTAGGGA
*
4286840 GTTAGGGGTTAAGAGTTAGGGA
1 TTTAGGGGTTAAGAGTTAGGGA
* * *
4286862 TTTAGGGGTTAGGATTTAAGGA
1 TTTAGGGGTTAAGAGTTAGGGA
*
4286884 TTTAAGGGT
1 TTTAGGGGT
4286893 CGGGTTAGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 17 0.38
22 28 0.62
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (22 bp):
TTTAGGGGTTAAGAGTTAGGGA
Found at i:4290737 original size:43 final size:43
Alignment explanation
Indices: 4290534--4290739 Score: 277
Period size: 43 Copynumber: 4.8 Consensus size: 43
4290524 GATATGTTTT
* * *
4290534 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAAGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
* * * * *
4290577 TAGCGGCGTTTGTGGTAAAAGTGCCGTTAAAAGTCATGATCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
* * *
4290620 TAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
* * * *
4290663 TAGCGGCGTTTGCGTGAAAAGCGCCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
4290706 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT
4290740 GTTAGCGGTT
Statistics
Matches: 146, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
Found at i:4293473 original size:23 final size:24
Alignment explanation
Indices: 4293443--4293494 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
4293433 TTATTTTTTT
* *
4293443 TAATTTTAATTCAT-TTTATTTAA
1 TAATTTTAATTAATATTAATTTAA
4293466 TAATTTTAATTAATATTAATTTAA
1 TAATTTTAATTAATATTAATTTAA
4293490 -AATTT
1 TAATTT
4293495 AATCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TAATTTTAATTAATATTAATTTAA
Found at i:4295033 original size:16 final size:15
Alignment explanation
Indices: 4295008--4295037 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4294998 ATTAAATTAA
4295008 TTAACTAAATGCAAT
1 TTAACTAAATGCAAT
4295023 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
4295038 ATAAGATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
TTAACTAAATGCAAT
Found at i:4297636 original size:12 final size:12
Alignment explanation
Indices: 4297619--4297649 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4297609 GGCAAGCAGT
4297619 CATGTCCCAGCC
1 CATGTCCCAGCC
4297631 CATGTCCCAGCC
1 CATGTCCCAGCC
*
4297643 CGTGTCC
1 CATGTCC
4297650 GTACCCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.48, G:0.19, T:0.19
Consensus pattern (12 bp):
CATGTCCCAGCC
Found at i:4298943 original size:25 final size:23
Alignment explanation
Indices: 4298915--4298974 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 23
4298905 AGAGCTATTA
* *
4298915 ATCGGGAAGCTCTAGATAGCCATAT
1 ATCGGGAAGCTCAAGAGAGCC--AT
* * *
4298940 ATCGAGAAGTTCAAGCGAGCCAT
1 ATCGGGAAGCTCAAGAGAGCCAT
4298963 ATCGGGAAGCTC
1 ATCGGGAAGCTC
4298975 CGGGAAGCCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 12 0.43
25 16 0.57
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (23 bp):
ATCGGGAAGCTCAAGAGAGCCAT
Found at i:4303927 original size:20 final size:22
Alignment explanation
Indices: 4303881--4303927 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
4303871 ATTTTTTTTG
*
4303881 AATTTTATATAATAGTCTTATA
1 AATTTTATATAATAGTCTTACA
*
4303903 AATTTTA-ATAATGGT-TTACA
1 AATTTTATATAATAGTCTTACA
4303923 AATTT
1 AATTT
4303928 ATAAAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 7 0.30
22 7 0.30
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (22 bp):
AATTTTATATAATAGTCTTACA
Found at i:4304076 original size:19 final size:21
Alignment explanation
Indices: 4304052--4304094 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
4304042 TTAGCAAAAA
4304052 TTTAAAATA-ATTCTTTT-TT
1 TTTAAAATAGATTCTTTTATT
*
4304071 TTT-AAATAGATTTTTTTATT
1 TTTAAAATAGATTCTTTTATT
4304091 TTTA
1 TTTA
4304095 CACATGAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 5 0.25
19 10 0.50
20 5 0.25
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTAAAATAGATTCTTTTATT
Found at i:4304086 original size:18 final size:19
Alignment explanation
Indices: 4304051--4304092 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4304041 TTTAGCAAAA
*
4304051 ATTTAAAATAATTCTTTTT
1 ATTTTAAATAATTCTTTTT
4304070 -TTTTAAATAGATT-TTTTT
1 ATTTTAAATA-ATTCTTTTT
4304088 ATTTT
1 ATTTT
4304093 TACACATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTAAATAATTCTTTTT
Found at i:4305482 original size:22 final size:21
Alignment explanation
Indices: 4305440--4305482 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4305430 TAGTTTTAGG
*
4305440 TTTAGTTTTCTCTATGTTTTT
1 TTTAGTTTTCTCTAAGTTTTT
4305461 TTTAGTTTTTCTCTACAGTTTT
1 TTTAG-TTTTCTCTA-AGTTTT
4305483 CTAGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.67
Consensus pattern (21 bp):
TTTAGTTTTCTCTAAGTTTTT
Found at i:4308907 original size:59 final size:60
Alignment explanation
Indices: 4308841--4308956 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 60
4308831 ACCACTTTAA
* * * *
4308841 TATTAAATTAATATAATACTTATC-AAGATAAATATTAGATTTAATTTAATATTAGATCT
1 TATTAAATTAATAGAATACTTATCAAAGATAAACATTAAATTAAATTTAATATTAGATCT
* *
4308900 TATTAAATTTATAGAATATTTATCTAGAAGATAAACATTAAATTAAATTTAATATTA
1 TATTAAATTAATAGAATACTTATC-A-AAGATAAACATTAAATTAAATTTAATATTA
4308957 AGATAATCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.43
Consensus pattern (60 bp):
TATTAAATTAATAGAATACTTATCAAAGATAAACATTAAATTAAATTTAATATTAGATCT
Found at i:4308983 original size:20 final size:18
Alignment explanation
Indices: 4308936--4308984 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
4308926 GAAGATAAAC
4308936 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
4308953 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
4308973 ATTAAATTAATA
1 ATTAAATTAATA
4308985 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:4309828 original size:33 final size:33
Alignment explanation
Indices: 4309786--4309850 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
4309776 TTATAAAAGT
*
4309786 AATTCATCTAACTGCTTTGTCCAATGACCTCGC
1 AATTCATCTAACTACTTTGTCCAATGACCTCGC
* *
4309819 AATTCATCTAACTATTTTGTCCGATGACCTCG
1 AATTCATCTAACTACTTTGTCCAATGACCTCG
4309851 TCATGTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (33 bp):
AATTCATCTAACTACTTTGTCCAATGACCTCGC
Found at i:4311756 original size:18 final size:18
Alignment explanation
Indices: 4311733--4311767 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4311723 AGAACACTTA
* *
4311733 TATGTTGTTATGTGAACG
1 TATGTTGATATGCGAACG
4311751 TATGTTGATATGCGAAC
1 TATGTTGATATGCGAAC
4311768 CCTGAAAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (18 bp):
TATGTTGATATGCGAACG
Found at i:4312487 original size:15 final size:16
Alignment explanation
Indices: 4312454--4312487 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4312444 AAAGTCCAAG
*
4312454 AAAATTTGAGCTCGTA
1 AAAACTTGAGCTCGTA
4312470 AAAACTTGAGCTCG-A
1 AAAACTTGAGCTCGTA
4312485 AAA
1 AAA
4312488 GCTCAAGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.24
Consensus pattern (16 bp):
AAAACTTGAGCTCGTA
Found at i:4312646 original size:11 final size:11
Alignment explanation
Indices: 4312630--4312655 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4312620 TGATACTATT
4312630 TAAAATATAAA
1 TAAAATATAAA
4312641 TAAAATATAAA
1 TAAAATATAAA
4312652 TAAA
1 TAAA
4312656 TGATCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAATATAAA
Found at i:4320947 original size:17 final size:17
Alignment explanation
Indices: 4320895--4320947 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
4320885 AGAGTCATAT
*
4320895 TTTTTAAAATAA-TATA
1 TTTTTAAAATAACTTTA
* *
4320911 TTTTTTAAATATCTTATA
1 TTTTTAAAATAACTT-TA
*
4320929 TTTTAAAAATAACTTTA
1 TTTTTAAAATAACTTTA
4320946 TT
1 TT
4320948 CCTTTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 10 0.34
17 5 0.17
18 14 0.48
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTAAAATAACTTTA
Found at i:4323077 original size:47 final size:47
Alignment explanation
Indices: 4323023--4323113 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
4323013 TTTAAACAAC
*
4323023 GTATGATTCATATATGTGCTTGTTCATTAAGTCTAAAGTTATGGCAT
1 GTATGATTCATATATGTGCTTGCTCATTAAGTCTAAAGTTATGGCAT
4323070 GTATGATTCATATATGTGCTTGCTCATTAAGTCTAAAGTTATGG
1 GTATGATTCATATATGTGCTTGCTCATTAAGTCTAAAGTTATGG
4323114 TTTCCTATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (47 bp):
GTATGATTCATATATGTGCTTGCTCATTAAGTCTAAAGTTATGGCAT
Found at i:4330750 original size:19 final size:19
Alignment explanation
Indices: 4330726--4330777 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
4330716 NNNNNNNNNN
4330726 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
4330745 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
4330764 TAAGATTGCATATC
1 TAAGATTGCATATC
4330778 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:4335917 original size:389 final size:388
Alignment explanation
Indices: 4335200--4335976 Score: 1536
Period size: 389 Copynumber: 2.0 Consensus size: 388
4335190 AGTGTAAAAC
4335200 CTATAGTCACTTCTCAAGAGGAAGACGAACAGGAACTAGTGGCACGGTTGGAGTCAGTATGGGTG
1 CTATAGTCACTTCTCAAGAGGAAGACGAACAGGAACTAGTGGCACGGTTGGAGTCAGTATGGGTG
4335265 GAACAAAAGATACAGTTGTACGATCTGAAGCTTGAGTTCTTTTTAGGGCTTATGCTATTTGGGCT
66 GAACAAAAGATACAGTTGTACGATCTGAAGCTTGAGTTCTTTTTAGGGCTTATGCTATTTGGGCT
4335330 CATAAAGAAGCCTAAGCTCTTGATGTTATTGTTGCTACCTTTTCTCTCTTTGATGTTACTGTACA
131 CATAAAGAAGCCTAAGCTCTTGATGTTATTGTTGCTACCTTTTCTCTCTTTGATGTTACTGTACA
4335395 TGTAACACCCTCAACCCAACCCGATTTGTAACACCCCAAACCCGGCCTAGACGTTACGGCTGAAT
196 TGTAACACCCTCAACCCAACCCGATTTGTAACACCCCAAACCCGGCCTAGACGTTACGGCTGAAT
4335460 CTGGCGATGTCACATGGAAAGGGATTTGAAGACAAGATTGTCTAGTTTAAAAACTGTTACAGTAA
261 CTGGCGATGTCACATGGAAAGGGATTTGAAGACAAGATTGTCTAGTTTAAAAACTGTTACAGTAA
*
4335525 GTTAGCTTTTATTTAATTAAAAAAAACTAGTTTGATTTGCTTTAAAACTTGTCTCTTAGCGGAA
326 GTTAGCTTTTATTTAATTAAAAAAAACTAG-TCGATTTGCTTTAAAACTTGTCTCTTAGCGGAA
4335589 CTATAGTCACTTCTCAAGAGGAAGACGAACAGGAACTAGTGGCACGGTTGGAGTCAGTATGGGTG
1 CTATAGTCACTTCTCAAGAGGAAGACGAACAGGAACTAGTGGCACGGTTGGAGTCAGTATGGGTG
4335654 GAACAAAAGATACAGTTGTACGATCTGAAGCTTGAGTTCTTTTTAGGGCTTATGCTATTTGGGCT
66 GAACAAAAGATACAGTTGTACGATCTGAAGCTTGAGTTCTTTTTAGGGCTTATGCTATTTGGGCT
4335719 CATAAAGAAGCCTAAGCTCTTGATGTTATTGTTGCTACCTTTTCTCTCTTTGATGTTACTGTACA
131 CATAAAGAAGCCTAAGCTCTTGATGTTATTGTTGCTACCTTTTCTCTCTTTGATGTTACTGTACA
4335784 TGTAACACCCTCAACCCAACCCGATTTGTAACACCCCAAACCCGGCCTAGACGTTACGGCTGAAT
196 TGTAACACCCTCAACCCAACCCGATTTGTAACACCCCAAACCCGGCCTAGACGTTACGGCTGAAT
4335849 CTGGCGATGTCACATGGAAAGGGATTTGAAGACAAGATTGTCTAGTTTAAAAACTGTTACAGTAA
261 CTGGCGATGTCACATGGAAAGGGATTTGAAGACAAGATTGTCTAGTTTAAAAACTGTTACAGTAA
4335914 GTTAGCTTTTATTTAATTAAAAAAAACTAGTCGATTTGCTTTAAAACTTGTCTCTTAGCGGAA
326 GTTAGCTTTTATTTAATTAAAAAAAACTAGTCGATTTGCTTTAAAACTTGTCTCTTAGCGGAA
4335977 ACTTTAGTAA
Statistics
Matches: 387, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
388 32 0.08
389 355 0.92
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (388 bp):
CTATAGTCACTTCTCAAGAGGAAGACGAACAGGAACTAGTGGCACGGTTGGAGTCAGTATGGGTG
GAACAAAAGATACAGTTGTACGATCTGAAGCTTGAGTTCTTTTTAGGGCTTATGCTATTTGGGCT
CATAAAGAAGCCTAAGCTCTTGATGTTATTGTTGCTACCTTTTCTCTCTTTGATGTTACTGTACA
TGTAACACCCTCAACCCAACCCGATTTGTAACACCCCAAACCCGGCCTAGACGTTACGGCTGAAT
CTGGCGATGTCACATGGAAAGGGATTTGAAGACAAGATTGTCTAGTTTAAAAACTGTTACAGTAA
GTTAGCTTTTATTTAATTAAAAAAAACTAGTCGATTTGCTTTAAAACTTGTCTCTTAGCGGAA
Found at i:4346444 original size:28 final size:28
Alignment explanation
Indices: 4346376--4346491 Score: 155
Period size: 28 Copynumber: 4.2 Consensus size: 28
4346366 CACTAAAGAA
* * * *
4346376 ATTCATTT-AGAGTTTGCCACAAAGG-C
1 ATTCTTTTCAGAGTTCGCCAAAAAGGTT
* *
4346402 ATTCCTTTCAAAGTTCGCCAAAAAGGTT
1 ATTCTTTTCAGAGTTCGCCAAAAAGGTT
4346430 ATTCTTTTCAGAGTTCGCCAAAAAGGTT
1 ATTCTTTTCAGAGTTCGCCAAAAAGGTT
*
4346458 ATTCTTTTCAGAGTTCGCCACAAAGGTT
1 ATTCTTTTCAGAGTTCGCCAAAAAGGTT
4346486 ATTCTT
1 ATTCTT
4346492 AACTGTTGTG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 7 0.09
27 14 0.17
28 59 0.74
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (28 bp):
ATTCTTTTCAGAGTTCGCCAAAAAGGTT
Found at i:4346807 original size:23 final size:24
Alignment explanation
Indices: 4346781--4346835 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
4346771 TACATACACC
*
4346781 CAAACA-AAATACACATCTTATAG
1 CAAACATAAATACACATCTCATAG
* *
4346804 CAAACATTACATACATATCTCATAG
1 CAAACA-TAAATACACATCTCATAG
4346829 CAAACAT
1 CAAACAT
4346836 TACATACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.22
24 1 0.04
25 20 0.74
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.24
Consensus pattern (24 bp):
CAAACATAAATACACATCTCATAG
Found at i:4346823 original size:25 final size:25
Alignment explanation
Indices: 4346789--4346844 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
4346779 CCCAAACAAA
* *
4346789 ATACACATCTTATAGCAAACATTAC
1 ATACATATCTCATAGCAAACATTAC
4346814 ATACATATCTCATAGCAAACATTAC
1 ATACATATCTCATAGCAAACATTAC
4346839 ATACAT
1 ATACAT
4346845 TTATATACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.29
Consensus pattern (25 bp):
ATACATATCTCATAGCAAACATTAC
Found at i:4350035 original size:29 final size:30
Alignment explanation
Indices: 4350003--4350206 Score: 117
Period size: 30 Copynumber: 6.9 Consensus size: 30
4349993 AAGAGATAGC
* *
4350003 TTCGACTATCG-ATTATGAAAAGGGATGGT
1 TTCGACCATCGAACTATGAAAAGGGATGGT
* * *
4350032 TTCGACCAT-TAACAATGAAAGGGGATGGT
1 TTCGACCATCGAACTATGAAAAGGGATGGT
** *
4350061 GACGACCATCGAACTATGAAAAGGGATGGC
1 TTCGACCATCGAACTATGAAAAGGGATGGT
* * * * *
4350091 TTCGGCTATCGAACTATGAAAATGGATAGC
1 TTCGACCATCGAACTATGAAAAGGGATGGT
**** * * *
4350121 TTCGGTTGTCAAATTATGAAAAAGGATGGT
1 TTCGACCATCGAACTATGAAAAGGGATGGT
** * * * *
4350151 GACGACCA-CCAAATATGAAAAGGGATAGC
1 TTCGACCATCGAACTATGAAAAGGGATGGT
* * * *
4350180 TTCGGCTATTGAACTATGAAAAAGGAT
1 TTCGACCATCGAACTATGAAAAGGGAT
4350207 AACTTTGGTG
Statistics
Matches: 129, Mismatches: 43, Indels: 5
0.73 0.24 0.03
Matches are distributed among these distances:
29 50 0.39
30 79 0.61
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (30 bp):
TTCGACCATCGAACTATGAAAAGGGATGGT
Found at i:4350176 original size:89 final size:90
Alignment explanation
Indices: 4350054--4350238 Score: 257
Period size: 89 Copynumber: 2.1 Consensus size: 90
4350044 CAATGAAAGG
* * * *
4350054 GGATGGTGACGACCATCGAACTATGAAAAGGGATGGCTTCGGCTATCGAACTATGAAAATGGATA
1 GGATGGTGACGACCATCCAAATATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAAGGATA
* *
4350119 GCTTCGGTTG-TCAAATTATGAAAAA
66 ACTTCGG-TGATCAAATTACGAAAAA
*
4350144 GGATGGTGACGACCA-CCAAATATGAAAAGGGATAGCTTCGGCTATTGAACTATGAAAAAGGATA
1 GGATGGTGACGACCATCCAAATATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAAGGATA
* * *
4350208 ACTTTGGTGATCGAATTACGAAAAG
66 ACTTCGGTGATCAAATTACGAAAAA
4350233 GGATGG
1 GGATGG
4350239 GTTAACCATC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
88 2 0.02
89 67 0.80
90 15 0.18
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.23
Consensus pattern (90 bp):
GGATGGTGACGACCATCCAAATATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAAGGATA
ACTTCGGTGATCAAATTACGAAAAA
Found at i:4350207 original size:30 final size:30
Alignment explanation
Indices: 4349933--4350207 Score: 127
Period size: 29 Copynumber: 9.3 Consensus size: 30
4349923 TCGACAAATA
* ** *
4349933 AAAAAGGAAAGCTTCATCTATCGAA-TACG
1 AAAAAGGATAGCTTCGGCTATCGAACTATG
* *
4349962 -AAAAGAGATAGCTTCGGCTATGGAA-TA-C
1 AAAAAG-GATAGCTTCGGCTATCGAACTATG
* *
4349990 AAAAAGAGATAGCTTCGACTATCG-ATTATG
1 AAAAAG-GATAGCTTCGGCTATCGAACTATG
* * * * * * *
4350020 AAAAGGGATGGTTTCGACCAT-TAACAATG
1 AAAAAGGATAGCTTCGGCTATCGAACTATG
** * * * *
4350049 AAAGGGGAT-GGTGACGACCATCGAACTATG
1 AAAAAGGATAGCT-TCGGCTATCGAACTATG
* *
4350079 AAAAGGGATGGCTTCGGCTATCGAACTATG
1 AAAAAGGATAGCTTCGGCTATCGAACTATG
* * * * *
4350109 AAAATGGATAGCTTCGGTTGTCAAATTATG
1 AAAAAGGATAGCTTCGGCTATCGAACTATG
* * * * * *
4350139 AAAAAGGAT-GGTGACGACCA-CCAAATATG
1 AAAAAGGATAGCT-TCGGCTATCGAACTATG
* *
4350168 AAAAGGGATAGCTTCGGCTATTGAACTATG
1 AAAAAGGATAGCTTCGGCTATCGAACTATG
4350198 AAAAAGGATA
1 AAAAAGGATA
4350208 ACTTTGGTGA
Statistics
Matches: 186, Mismatches: 49, Indels: 21
0.73 0.19 0.08
Matches are distributed among these distances:
28 8 0.04
29 92 0.49
30 84 0.45
31 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (30 bp):
AAAAAGGATAGCTTCGGCTATCGAACTATG
Found at i:4357748 original size:30 final size:30
Alignment explanation
Indices: 4357605--4357763 Score: 121
Period size: 29 Copynumber: 5.4 Consensus size: 30
4357595 TCATCGAAAA
* *
4357605 ATGAAAAGGGATAGCTTCCACTATCGAA-T
1 ATGAAAAGGGATGGCTTCGACTATCGAACT
* * * * *
4357634 ACGAAAAGGGATAGCTTCGGCTGTCG-ATT
1 ATGAAAAGGGATGGCTTCGACTATCGAACT
* * *
4357663 ATGAAAAGGGATGG-TGACGACCATC-AACA
1 ATGAAAAGGGATGGCT-TCGACTATCGAACT
* * * *
4357692 ATGAAAACGGATGG-TGACAACCATCGAACT
1 ATGAAAAGGGATGGCT-TCGACTATCGAACT
*
4357722 ATGAAAAGGGATGGCTTCGGCTATCGAACT
1 ATGAAAAGGGATGGCTTCGACTATCGAACT
*
4357752 ATGGAAAGGGAT
1 ATGAAAAGGGAT
4357764 AACTTGGTTA
Statistics
Matches: 104, Mismatches: 21, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
28 2 0.02
29 64 0.62
30 37 0.36
31 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGACTATCGAACT
Found at i:4358191 original size:13 final size:13
Alignment explanation
Indices: 4358173--4358198 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4358163 AGGTTAATAA
4358173 GGTCAATGTTTAT
1 GGTCAATGTTTAT
4358186 GGTCAATGTTTAT
1 GGTCAATGTTTAT
4358199 ATATTGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
GGTCAATGTTTAT
Found at i:4365511 original size:15 final size:14
Alignment explanation
Indices: 4365490--4365525 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
4365480 ATAATCATTA
*
4365490 ATAATTATCTTAAT
1 ATAATTATCCTAAT
4365504 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
4365519 ATAATTA
1 ATAATTA
4365526 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:4365898 original size:25 final size:25
Alignment explanation
Indices: 4365870--4366082 Score: 198
Period size: 25 Copynumber: 8.6 Consensus size: 25
4365860 AACATGCCAA
* *
4365870 AAAGGCTTTTCAGAGAGTT-AGCTAT
1 AAAGGCTTTTCAGAGAGTTCA-CCAC
*
4365895 AAAGGCTTTACAGAGAGTTCACCAC
1 AAAGGCTTTTCAGAGAGTTCACCAC
* * **
4365920 AAAGGCTTTACAGAGGGTTTGCCAC
1 AAAGGCTTTTCAGAGAGTTCACCAC
* *
4365945 AAAGGCTTTTCAGAGGGTTCACCAT
1 AAAGGCTTTTCAGAGAGTTCACCAC
* * **
4365970 AAAGGCTTTTTAGAGGGTT-TGCAC
1 AAAGGCTTTTCAGAGAGTTCACCAC
* **
4365994 AAAGGCTTTTCAGAGGGTTTGCCAC
1 AAAGGCTTTTCAGAGAGTTCACCAC
*
4366019 AAAAGCTTTGT-AGAGAGTTCACCAC
1 AAAGGCTTT-TCAGAGAGTTCACCAC
* * *
4366044 AAAAGCTTTTCAAAGAGTTCACCAT
1 AAAGGCTTTTCAGAGAGTTCACCAC
*
4366069 AAAGGCTTTACAGA
1 AAAGGCTTTTCAGA
4366083 TAATTTGTGT
Statistics
Matches: 158, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
24 21 0.13
25 135 0.85
26 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAGGCTTTTCAGAGAGTTCACCAC
Found at i:4366008 original size:99 final size:100
Alignment explanation
Indices: 4365870--4366082 Score: 257
Period size: 99 Copynumber: 2.1 Consensus size: 100
4365860 AACATGCCAA
* *
4365870 AAAGGCTTTTCAGAGAGTTAGCTATAAAGGCTTTACAGAGAGTTCACCACAAAGGCTTTACAGAG
1 AAAGGCTTTTCAGAGAGTTAGCTACAAAGGCTTTACAGAGAGTTCACCACAAAAGCTTTACAGAG
* ** * * *
4365935 GGTTTGCCACAAAGGCTTTTCAGAGGGTTCACCAT
66 AGTTCACCACAAAAGCTTTTCAAAGAGTTCACCAT
* * * * * ** **
4365970 AAAGGCTTTTTAGAGGGTTTGC-ACAAAGGCTTTTCAGAGGGTTTGCCACAAAAGCTTTGTAGAG
1 AAAGGCTTTTCAGAGAGTTAGCTACAAAGGCTTTACAGAGAGTTCACCACAAAAGCTTTACAGAG
4366034 AGTTCACCACAAAAGCTTTTCAAAGAGTTCACCAT
66 AGTTCACCACAAAAGCTTTTCAAAGAGTTCACCAT
*
4366069 AAAGGCTTTACAGA
1 AAAGGCTTTTCAGA
4366083 TAATTTGTGT
Statistics
Matches: 94, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
99 75 0.80
100 19 0.20
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (100 bp):
AAAGGCTTTTCAGAGAGTTAGCTACAAAGGCTTTACAGAGAGTTCACCACAAAAGCTTTACAGAG
AGTTCACCACAAAAGCTTTTCAAAGAGTTCACCAT
Found at i:4366018 original size:74 final size:75
Alignment explanation
Indices: 4365864--4366082 Score: 273
Period size: 74 Copynumber: 2.9 Consensus size: 75
4365854 TTAGATAACA
* * *
4365864 TGCCAAAAAGGCTTTTCAGAGAGTT-AGCTATAAAGGCTTTACAGAGAGTTCACCACAAAGGCTT
1 TGCCACAAAGGCTTTTCAGAGAGTTCA-CCATAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTT
4365928 TACAGAGGGTT
65 TACAGAGGGTT
* * * **
4365939 TGCCACAAAGGCTTTTCAGAGGGTTCACCATAAAGGCTTTTTAGAGGGTT-TGCACAAAGGCTTT
1 TGCCACAAAGGCTTTTCAGAGAGTTCACCATAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTTT
*
4366003 TCAGAGGGTT
66 ACAGAGGGTT
* * * * *
4366013 TGCCACAAAAGCTTTGT-AGAGAGTTCACCACAAAAGCTTTTCAAAGAGTTCACCATAAAGGCTT
1 TGCCACAAAGGCTTT-TCAGAGAGTTCACCATAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTT
4366077 TACAGA
65 TACAGA
4366083 TAATTTGTGT
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
74 62 0.51
75 58 0.48
76 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (75 bp):
TGCCACAAAGGCTTTTCAGAGAGTTCACCATAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTTT
ACAGAGGGTT
Found at i:4369591 original size:41 final size:41
Alignment explanation
Indices: 4369505--4369591 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
4369495 TGTATTGGGT
* * *
4369505 CTTGAACCCAGCAGGCTTTGTACCGGTGTATTGTAACAAGT
1 CTTGAACCCAACAGGCTTTGTACCGATGTATTGTAACAAGC
* * *
4369546 CTTGAACCCAACAGGCTTTGTGCTGATGTATTG-AATCAGGC
1 CTTGAACCCAACAGGCTTTGTACCGATGTATTGTAA-CAAGC
4369587 CTTGA
1 CTTGA
4369592 GCCTACGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.05
41 37 0.95
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
CTTGAACCCAACAGGCTTTGTACCGATGTATTGTAACAAGC
Found at i:4376930 original size:20 final size:20
Alignment explanation
Indices: 4376905--4376952 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
4376895 GTCGAATACA
4376905 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
* *
4376925 ATCACATTTCATTACTCAAT
1 ATCACATTTCATAACCCAAT
4376945 ATCACATT
1 ATCACATT
4376953 CATTTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:4382546 original size:20 final size:20
Alignment explanation
Indices: 4382521--4382568 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
4382511 GTCAAATAAA
4382521 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
*
4382541 ATCACATTTCATAACTCAAT
1 ATCACATTTCATAACCCAAT
4382561 ATCACATT
1 ATCACATT
4382569 CATTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:4382989 original size:13 final size:13
Alignment explanation
Indices: 4382973--4382999 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4382963 TACAAGTATC
4382973 ATATATATATCAA
1 ATATATATATCAA
4382986 ATATATATATCAA
1 ATATATATATCAA
4382999 A
1 A
4383000 GTTCACAAGT
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:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATATATATCAA
Found at i:4385753 original size:25 final size:25
Alignment explanation
Indices: 4385725--4385773 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4385715 CTGTTTTTGA
* *
4385725 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
4385750 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
4385774 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:4388410 original size:17 final size:17
Alignment explanation
Indices: 4388377--4388409 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4388367 ATGGGGCCGA
4388377 ATTTTCTTTTTTATTTT
1 ATTTTCTTTTTTATTTT
4388394 ATTTTC-TTTTTATTTT
1 ATTTTCTTTTTTATTTT
4388410 TGTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
ATTTTCTTTTTTATTTT
Found at i:4390222 original size:25 final size:25
Alignment explanation
Indices: 4390176--4390224 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4390166 CTGTTTTTGA
*
4390176 TAGTATATCTCGAAACTGCTATAGG
1 TAGTATATCTCGAAACTACTATAGG
*
4390201 TAGTATATACT-GATACTACTATAG
1 TAGTATAT-CTCGAAACTACTATAG
4390225 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (25 bp):
TAGTATATCTCGAAACTACTATAGG
Found at i:4395385 original size:17 final size:17
Alignment explanation
Indices: 4395359--4395408 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
4395349 ATGGGGCTAA
*
4395359 ATTTTCTTTTTTATTTT
1 ATTTTATTTTTTATTTT
4395376 ATTTTA-TTTTTATTTT
1 ATTTTATTTTTTATTTT
*
4395392 -TGTTATTTTTTTATTTT
1 ATTTTA-TTTTTTATTTT
4395409 CAAATTCCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 15 0.52
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (17 bp):
ATTTTATTTTTTATTTT
Found at i:4395399 original size:9 final size:8
Alignment explanation
Indices: 4395365--4395408 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
4395355 CTAAATTTTC
4395365 TTTTTTAT
1 TTTTTTAT
4395373 TTTATTT-T
1 TTT-TTTAT
*
4395381 ATTTTTAT
1 TTTTTTAT
4395389 TTTTGTTAT
1 TTTT-TTAT
4395398 TTTTTTAT
1 TTTTTTAT
4395406 TTT
1 TTT
4395409 CAAATTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 3 0.10
8 17 0.55
9 11 0.35
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (8 bp):
TTTTTTAT
Found at i:4397199 original size:17 final size:18
Alignment explanation
Indices: 4397158--4397201 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
4397148 AATATGACCT
*
4397158 TTATGGATTTTTCTTAAA
1 TTATGGATTTTTATTAAA
* *
4397176 TTTTGGATTTTTATT-AG
1 TTATGGATTTTTATTAAA
4397193 TTATGGATT
1 TTATGGATT
4397202 ATAACTACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.59
Consensus pattern (18 bp):
TTATGGATTTTTATTAAA
Found at i:4398523 original size:20 final size:20
Alignment explanation
Indices: 4398498--4398545 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
4398488 GTCGAATAAA
4398498 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
*
4398518 ATCACATTTCATAACTCAAT
1 ATCACATTTCATAACCCAAT
4398538 ATCACATT
1 ATCACATT
4398546 CATTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:4401528 original size:36 final size:37
Alignment explanation
Indices: 4401459--4401530 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
4401449 CTACCTTCAT
* * *
4401459 CCGATTTGCTTCCATGTTTCTTTGCTTTTCTTTTCTG
1 CCGATTTGCTCCCATGATTATTTGCTTTTCTTTTCTG
*
4401496 CCGATTTGCTCCCA-GATTATTTTCTTTTCTTTTCT
1 CCGATTTGCTCCCATGATTATTTGCTTTTCTTTTCT
4401531 TTTCTGCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 18 0.58
37 13 0.42
ACGTcount: A:0.08, C:0.25, G:0.11, T:0.56
Consensus pattern (37 bp):
CCGATTTGCTCCCATGATTATTTGCTTTTCTTTTCTG
Found at i:4401528 original size:41 final size:38
Alignment explanation
Indices: 4401475--4401586 Score: 134
Period size: 41 Copynumber: 2.8 Consensus size: 38
4401465 TGCTTCCATG
* **
4401475 TTTCTTTGCTTTTCTTTTCTGCCGATTTGCTCCCAGATTA
1 TTTCTTTTCTTTTCTTTTCTGCCGATTTGCTCCC--ACCA
* *
4401515 TTTTCTTTTCTTTTCTTTTCTGCCAATTTGCTCCCCCCA
1 -TTTCTTTTCTTTTCTTTTCTGCCGATTTGCTCCCACCA
*
4401554 TTTCTTTTCTTTTCTTTTTCGGCCGATTTGCTC
1 TTTCTTTTCTTTTC-TTTTCTGCCGATTTGCTC
4401587 AGTTTCTGCC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
38 14 0.22
39 17 0.27
41 32 0.51
ACGTcount: A:0.07, C:0.28, G:0.10, T:0.55
Consensus pattern (38 bp):
TTTCTTTTCTTTTCTTTTCTGCCGATTTGCTCCCACCA
Found at i:4403040 original size:13 final size:13
Alignment explanation
Indices: 4403022--4403046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4403012 TTCATCAAAG
4403022 AGCATTCAAATTA
1 AGCATTCAAATTA
4403035 AGCATTCAAATT
1 AGCATTCAAATT
4403047 GGCTTTCAAA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
AGCATTCAAATTA
Found at i:4403954 original size:37 final size:36
Alignment explanation
Indices: 4403911--4403994 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 36
4403901 ATCATAAATA
4403911 AATAAACTAATCAATGTTCA-AACTTTGAACATGCTTT
1 AATAAACTAATCAATG-TCAGAA-TTTGAACATGCTTT
* *
4403948 ATTAAACTAATCAATGTGAGGAATTTGAACATGCTTT
1 AATAAACTAATCAATGTCA-GAATTTGAACATGCTTT
*
4403985 AATGAACTAA
1 AATAAACTAA
4403995 CTGTTAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 2 0.05
37 37 0.90
38 2 0.05
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (36 bp):
AATAAACTAATCAATGTCAGAATTTGAACATGCTTT
Found at i:4404119 original size:22 final size:18
Alignment explanation
Indices: 4404075--4404116 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
4404065 AATTTTAGGT
4404075 CAATTATACATACACCAA
1 CAATTATACATACACCAA
4404093 CAATTATACATACACCAA
1 CAATTATACATACACCAA
4404111 CAATTA
1 CAATTA
4404117 ATTTTAGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
CAATTATACATACACCAA
Found at i:4404131 original size:51 final size:51
Alignment explanation
Indices: 4404046--4404149 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
4404036 AAACTTGAAG
* *
4404046 TATATATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAAT
1 TATACATACACCAACAATTAATTTTAGGTCAATTATACATACACCAACAAT
4404097 TATACATACACCAACAATTAATTTTAGGTCAATTATACATACACCAACAAT
1 TATACATACACCAACAATTAATTTTAGGTCAATTATACATACACCAACAAT
4404148 TA
1 TA
4404150 NNNNNNNNNN
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (51 bp):
TATACATACACCAACAATTAATTTTAGGTCAATTATACATACACCAACAAT
Found at i:4408896 original size:39 final size:40
Alignment explanation
Indices: 4408853--4408957 Score: 95
Period size: 44 Copynumber: 2.5 Consensus size: 40
4408843 CTCCATTATG
4408853 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
** * *** *
4408892 CTATTACGTCTATATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
4408937 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
4408958 ACACCTCTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
39 13 0.26
40 5 0.10
44 17 0.34
45 15 0.30
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:4408955 original size:45 final size:44
Alignment explanation
Indices: 4408851--4408960 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
4408841 TTCTCCATTA
4408851 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* ** * ***
4408890 TACTATTACGTCTATATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
4408935 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
4408961 CCTCTAATCC
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
39 14 0.26
40 1 0.02
44 16 0.30
45 23 0.43
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:4408960 original size:16 final size:16
Alignment explanation
Indices: 4408939--4408976 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4408929 TTGATTTGCT
*
4408939 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
4408955 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
4408971 AATACA
1 ATTACA
4408977 GCAAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:4410790 original size:16 final size:17
Alignment explanation
Indices: 4410744--4410791 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
4410734 AAACTTAAAA
4410744 TAATATAATAATTATAAT
1 TAATATAA-AATTATAAT
* *
4410762 TAATATTAAATTATATT
1 TAATATAAAATTATAAT
4410779 TAA-ATAAAATTAT
1 TAATATAAAATTAT
4410792 TGATATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 9 0.33
17 11 0.41
18 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATATAAAATTATAAT
Found at i:4413227 original size:14 final size:15
Alignment explanation
Indices: 4413210--4413238 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4413200 GAATATGGTA
4413210 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
4413224 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
4413239 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:4423443 original size:59 final size:59
Alignment explanation
Indices: 4423379--4423560 Score: 139
Period size: 59 Copynumber: 3.1 Consensus size: 59
4423369 TTGCAAAATT
4423379 ATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTATAATTAA
1 ATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTATAATTAA
* * * ** * * * * * *
4423438 ATTAATTAACCAA-AT-G-CAATTTAAC-C--TAACCGTATCTTAATCA-ATAATTGCAAAATT-
1 ATTAATTTA-CAAGTTGGTAAATAAAACACAATAACTGGA--GTGAT-AGGT-ATT--ATAATTA
4423495 -
59 A
4423495 ATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTATAATTAA
1 ATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTATAATTAA
4423554 ATTAATT
1 ATTAATT
4423561 AACCAAATGC
Statistics
Matches: 85, Mismatches: 22, Indels: 32
0.61 0.16 0.23
Matches are distributed among these distances:
54 6 0.07
56 8 0.09
57 24 0.28
58 2 0.02
59 31 0.36
60 8 0.09
62 6 0.07
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (59 bp):
ATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTATAATTAA
Found at i:4423552 original size:57 final size:57
Alignment explanation
Indices: 4423375--4423552 Score: 127
Period size: 57 Copynumber: 3.1 Consensus size: 57
4423365 ATAATTGCAA
4423375 AATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTAT
1 AATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTAT
* * * ** * * * * *
4423432 AATTAAATTAATTAACCAA-AT-G-CAATTTAAC-C--TAACCGTATCTTAATCA-ATAATTGCA
1 AATT--ATTAATTTA-CAAGTTGGTAAATAAAACACAATAACTGGA--GTGAT-AGGT-ATT--A
*
4423490 A
57 T
4423491 AATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTAT
1 AATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTAT
4423548 AATTA
1 AATTA
4423553 AATTAATTAA
Statistics
Matches: 83, Mismatches: 22, Indels: 32
0.61 0.16 0.23
Matches are distributed among these distances:
54 6 0.07
56 8 0.10
57 29 0.35
58 2 0.02
59 24 0.29
60 8 0.10
62 6 0.07
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (57 bp):
AATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTGATAGGTATTAT
Found at i:4423560 original size:116 final size:116
Alignment explanation
Indices: 4423356--4423587 Score: 464
Period size: 116 Copynumber: 2.0 Consensus size: 116
4423346 GGACTGTATC
4423356 TCTTAATCAATAATTGCAAAATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTG
1 TCTTAATCAATAATTGCAAAATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTG
4423421 ATAGGTATTATAATTAAATTAATTAACCAAATGCAATTTAACCTAACCGTA
66 ATAGGTATTATAATTAAATTAATTAACCAAATGCAATTTAACCTAACCGTA
4423472 TCTTAATCAATAATTGCAAAATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTG
1 TCTTAATCAATAATTGCAAAATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTG
4423537 ATAGGTATTATAATTAAATTAATTAACCAAATGCAATTTAACCTAACCGTA
66 ATAGGTATTATAATTAAATTAATTAACCAAATGCAATTTAACCTAACCGTA
4423588 ATAAATGAAA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (116 bp):
TCTTAATCAATAATTGCAAAATTATTAATTTACAAGTTGGTAAATAAAACACAATAACTGGAGTG
ATAGGTATTATAATTAAATTAATTAACCAAATGCAATTTAACCTAACCGTA
Found at i:4426539 original size:50 final size:50
Alignment explanation
Indices: 4426474--4426617 Score: 162
Period size: 50 Copynumber: 2.9 Consensus size: 50
4426464 TTCTGTACTA
* * * * * ** *
4426474 CCAATGCCATATCCCAGAGATGGTCTTTCATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCGGAG
* * *
4426524 CCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGAG
1 CCAATGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCGGAG
* **
4426574 CCAACGCCATGTCCCAAACATGGTCTTACATAGGACCTCTCATA
1 CCAATGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATA
4426618 ATATCAATGA
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
CCAATGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCGGAG
Found at i:4428712 original size:16 final size:17
Alignment explanation
Indices: 4428686--4428717 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4428676 ATCACACAGA
4428686 AATTCTTAATCAACCAT
1 AATTCTTAATCAACCAT
4428703 AATT-TTAATCAACCA
1 AATTCTTAATCAACCA
4428718 AAGAGAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTCTTAATCAACCAT
Found at i:4432172 original size:15 final size:15
Alignment explanation
Indices: 4432154--4432184 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4432144 CCGAATACCA
4432154 TCACTTGAAACTATG
1 TCACTTGAAACTATG
4432169 TCACTTGAAACTATG
1 TCACTTGAAACTATG
4432184 T
1 T
4432185 GTCCCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
TCACTTGAAACTATG
Found at i:4436437 original size:51 final size:51
Alignment explanation
Indices: 4436313--4436502 Score: 192
Period size: 51 Copynumber: 3.8 Consensus size: 51
4436303 ATTATTATCA
* * * *
4436313 TTCGATACAAGTAGTAGCCTTCACATAG---TACACACGTGATC-AAA-CT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAATCT
* *
4436359 TTCCGGTTCACGTAGTAGCCTGTACATAGTACTACACACGTGACCAAAATCT
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAATCT
* * * **
4436411 TTCGGTACACATAGTAGCCTGCACATAGTACTACATATGTGACCATTATCT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAATCT
* * * **
4436462 ATCGATACACGTAGTAGCCTGTAGTTAGTACTACACACGTG
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
4436503 TTTATAGGCA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
46 2 0.02
47 21 0.18
50 12 0.10
51 78 0.67
52 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAATCT
Found at i:4439470 original size:96 final size:96
Alignment explanation
Indices: 4439293--4439471 Score: 259
Period size: 96 Copynumber: 1.9 Consensus size: 96
4439283 TCTTCTCTTG
** *
4439293 TTGGATATTTAATTGGACATTGGAAACCCTTATGAACTTTTGAACTACACCAATAACATTTCACA
1 TTGGATATTTAATTGGACATCAGAAACCCTCATGAACTTTTGAACTACACCAATAACATTTCACA
** * * *
4439358 AAATTTTATAGCTCAATCTTATTCTCTCTAT
66 AAAGGTGAGAGATCAATCTTATTCTCTCTAT
* *
4439389 TTGGATATTTAATTGGACATCAGAAACCCTCATGATCTTTTGAACTACACTAATAACATTTCACA
1 TTGGATATTTAATTGGACATCAGAAACCCTCATGAACTTTTGAACTACACCAATAACATTTCACA
*
4439454 ATAGGTGAGAGATCAATC
66 AAAGGTGAGAGATCAATC
4439472 GTACTCCTCT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (96 bp):
TTGGATATTTAATTGGACATCAGAAACCCTCATGAACTTTTGAACTACACCAATAACATTTCACA
AAAGGTGAGAGATCAATCTTATTCTCTCTAT
Found at i:4442639 original size:14 final size:15
Alignment explanation
Indices: 4442615--4442643 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4442605 TCACCGCCTT
4442615 ATTTCTCCTTCTCTC
1 ATTTCTCCTTCTCTC
4442630 ATTT-TCCTTCTCTC
1 ATTTCTCCTTCTCTC
4442644 TCCATCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTCTCCTTCTCTC
Found at i:4445130 original size:73 final size:73
Alignment explanation
Indices: 4445011--4445158 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
4445001 AACCAATAAG
4445011 TAAGAAGGAAAACCTATGTTCTTTTTAGTACTATCACCAAACATATCTAGTGTATAATTGAGGAC
1 TAAGAAGGAAAACCTATGTTCTTTTTAGTACTATCACCAAACATATCTAGTGTATAATTGAGGAC
4445076 TCAAATGT
66 TCAAATGT
*
4445084 TAAGAAGGAAAACCTATGTTCTTTTTAGTACTATCACCGAACATATCTAGTGTATAATTGAGGAC
1 TAAGAAGGAAAACCTATGTTCTTTTTAGTACTATCACCAAACATATCTAGTGTATAATTGAGGAC
4445149 TCAAATGT
66 TCAAATGT
4445157 TA
1 TA
4445159 TTTTGCCTAG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (73 bp):
TAAGAAGGAAAACCTATGTTCTTTTTAGTACTATCACCAAACATATCTAGTGTATAATTGAGGAC
TCAAATGT
Found at i:4446725 original size:36 final size:36
Alignment explanation
Indices: 4446684--4446753 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
4446674 TGATCTAAGG
4446684 ATAAACTTACATCAAATAAAAGTTAAAATCTAAACT
1 ATAAACTTACATCAAATAAAAGTTAAAATCTAAACT
4446720 ATAAACTTACATCAAATAAAAGTTAAAATCTAAA
1 ATAAACTTACATCAAATAAAAGTTAAAATCTAAA
4446754 ATACGTGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (36 bp):
ATAAACTTACATCAAATAAAAGTTAAAATCTAAACT
Found at i:4449255 original size:24 final size:24
Alignment explanation
Indices: 4449223--4449275 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4449213 GGAATCATTT
4449223 GGAAACCAT-TAGGAGGTTTTTATG
1 GGAAACCATAT-GGAGGTTTTTATG
4449247 GGAAACCATATGGAGGTTTTTATG
1 GGAAACCATATGGAGGTTTTTATG
4449271 GGAAA
1 GGAAA
4449276 AATAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (24 bp):
GGAAACCATATGGAGGTTTTTATG
Found at i:4450268 original size:14 final size:14
Alignment explanation
Indices: 4450249--4450286 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
4450239 GTTTGCCAGT
*
4450249 AAAATGTTTTCTAG
1 AAAATGATTTCTAG
*
4450263 AAAATGATTTCTGG
1 AAAATGATTTCTAG
4450277 AAAATGATTT
1 AAAATGATTT
4450287 ACTTTTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTAG
Found at i:4454558 original size:432 final size:432
Alignment explanation
Indices: 4453755--4454619 Score: 1730
Period size: 432 Copynumber: 2.0 Consensus size: 432
4453745 TCCCCAACAT
4453755 AAAATCAAAATCAAAATTAAGCACTTAAATGGAATGAAGTAGGTCATGTGGCCACCGCTGAGTCC
1 AAAATCAAAATCAAAATTAAGCACTTAAATGGAATGAAGTAGGTCATGTGGCCACCGCTGAGTCC
4453820 TCCGCCGCACCGATCCTTTTAAGACTGGGGGTTACCTATATAGATAAATCTAAAGGGTGAGTTTA
66 TCCGCCGCACCGATCCTTTTAAGACTGGGGGTTACCTATATAGATAAATCTAAAGGGTGAGTTTA
4453885 CAAAAACTCAGTGTGTAATCCCATATATACAAGTAGACAGAAAGCAATCACAATCTGGGCCTAAG
131 CAAAAACTCAGTGTGTAATCCCATATATACAAGTAGACAGAAAGCAATCACAATCTGGGCCTAAG
4453950 CCTCTTTTCAGTATTAGATCCAGTTTTAGTTAGGGCCTTAGCCCATTTCAGTAAAGGTGCAGTCA
196 CCTCTTTTCAGTATTAGATCCAGTTTTAGTTAGGGCCTTAGCCCATTTCAGTAAAGGTGCAGTCA
4454015 TGCATTAGGGTCTTGGCCCATTACAGTATCAATAATTAGTACAGTATCAGTTATGCGATCACAAA
261 TGCATTAGGGTCTTGGCCCATTACAGTATCAATAATTAGTACAGTATCAGTTATGCGATCACAAA
4454080 ATCCTACTCAGCCAGCCTCTACACTCTATCTCCATCCAACCCTACACTCTATGTGGGGATATAAT
326 ATCCTACTCAGCCAGCCTCTACACTCTATCTCCATCCAACCCTACACTCTATGTGGGGATATAAT
4454145 CAACTCACCCATCCCTACACTCTAAGTAGCATCGAATATGGC
391 CAACTCACCCATCCCTACACTCTAAGTAGCATCGAATATGGC
4454187 AAAATCAAAATCAAAATTAAGCACTTAAATGGAATGAAGTAGGTCATGTGGCCACCGCTGAGTCC
1 AAAATCAAAATCAAAATTAAGCACTTAAATGGAATGAAGTAGGTCATGTGGCCACCGCTGAGTCC
4454252 TCCGCCGCACCGATCCTTTTAAGACTGGGGGTTACCTATATAGATAAATCTAAAGGGTGAGTTTA
66 TCCGCCGCACCGATCCTTTTAAGACTGGGGGTTACCTATATAGATAAATCTAAAGGGTGAGTTTA
4454317 CAAAAACTCAGTGTGTAATCCCATATATACAAGTAGACAGAAAGCAATCACAATCTGGGCCTAAG
131 CAAAAACTCAGTGTGTAATCCCATATATACAAGTAGACAGAAAGCAATCACAATCTGGGCCTAAG
4454382 CCTCTTTTCAGTATTAGATCCAGTTTTAGTTAGGGCCTTAGCCCATTTCAGTAAAGGTGCAGTCA
196 CCTCTTTTCAGTATTAGATCCAGTTTTAGTTAGGGCCTTAGCCCATTTCAGTAAAGGTGCAGTCA
4454447 TGCATTAGGGTCTTGGCCCATTACAGTATCAATAATTAGTACAGTATCAGTTATGCGATCACAAA
261 TGCATTAGGGTCTTGGCCCATTACAGTATCAATAATTAGTACAGTATCAGTTATGCGATCACAAA
4454512 ATCCTACTCAGCCAGCCTCTACACTCTATCTCCATCCAACCCTACACTCTATGTGGGGATATAAT
326 ATCCTACTCAGCCAGCCTCTACACTCTATCTCCATCCAACCCTACACTCTATGTGGGGATATAAT
4454577 CAACTCACCCATCCCTACACTCTAAGTAGCATCGAATATGGC
391 CAACTCACCCATCCCTACACTCTAAGTAGCATCGAATATGGC
4454619 A
1 A
4454620 CTATACAGTA
Statistics
Matches: 433, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
432 433 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (432 bp):
AAAATCAAAATCAAAATTAAGCACTTAAATGGAATGAAGTAGGTCATGTGGCCACCGCTGAGTCC
TCCGCCGCACCGATCCTTTTAAGACTGGGGGTTACCTATATAGATAAATCTAAAGGGTGAGTTTA
CAAAAACTCAGTGTGTAATCCCATATATACAAGTAGACAGAAAGCAATCACAATCTGGGCCTAAG
CCTCTTTTCAGTATTAGATCCAGTTTTAGTTAGGGCCTTAGCCCATTTCAGTAAAGGTGCAGTCA
TGCATTAGGGTCTTGGCCCATTACAGTATCAATAATTAGTACAGTATCAGTTATGCGATCACAAA
ATCCTACTCAGCCAGCCTCTACACTCTATCTCCATCCAACCCTACACTCTATGTGGGGATATAAT
CAACTCACCCATCCCTACACTCTAAGTAGCATCGAATATGGC
Done.