Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 74 of 230
Found at i:20342038 original size:13 final size:13
Alignment explanation
Indices: 20342020--20342058 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
20342010 AGTTTCCAAA
20342020 TTTTCAAATTAAG
1 TTTTCAAATTAAG
*
20342033 TTTTCAAACATAAG
1 TTTTCAAA-TTAAG
*
20342047 CTTTCAAATTAA
1 TTTTCAAATTAA
20342059 AAATATCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:20343736 original size:35 final size:34
Alignment explanation
Indices: 20343685--20343799 Score: 126
Period size: 34 Copynumber: 3.4 Consensus size: 34
20343675 AATGTTTACA
* *
20343685 CATCATTTCTTACAGGGAATCTTTCCTGTTCACCT
1 CATCTTTTCTTGCAGGGAATCTTTCCTGTTCA-CT
* *
20343720 CGTCTTTTCTTGCAGGGAATCTTTCATGTTCA-T
1 CATCTTTTCTTGCAGGGAATCTTTCCTGTTCACT
* * *
20343753 GCATC-ATTCTTTGCAGGGAATCTTTCCTATTCACA
1 -CATCTTTTC-TTGCAGGGAATCTTTCCTGTTCACT
20343788 CATCTTTTCTTG
1 CATCTTTTCTTG
20343800 TATCATTTCT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
33 4 0.06
34 31 0.47
35 31 0.47
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (34 bp):
CATCTTTTCTTGCAGGGAATCTTTCCTGTTCACT
Found at i:20344907 original size:34 final size:34
Alignment explanation
Indices: 20344859--20345002 Score: 173
Period size: 34 Copynumber: 4.2 Consensus size: 34
20344849 TTTCTTGTCT
* *
20344859 TTTCTTGCAAGGAATATTTCCTGTTCACGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* * *
20344893 TTTCTTGCAGGGAATCTTTCCTGTTCACCTCGTCT
1 TTTCTTGCAGGGAATCTTTCCTGTTCA-CGCATCA
* *
20344928 TTTCTTGCAGGGAATCTTTCATGTTCATGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* * *
20344962 -TTCTTTGCAGGGAATCTTTCCTATTCACACATCT
1 TTTC-TTGCAGGGAATCTTTCCTGTTCACGCATCA
20344996 TTTCTTG
1 TTTCTTG
20345003 TATCATTTCT
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
33 3 0.03
34 56 0.61
35 33 0.36
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
Found at i:20344931 original size:69 final size:68
Alignment explanation
Indices: 20344855--20345002 Score: 208
Period size: 69 Copynumber: 2.2 Consensus size: 68
20344845 TCTTTTTCTT
* *
20344855 GTCTTTTCTTGCAAGGAATATTTCCTGTTCACGCATCATT-TCTTGCAGGGAATCTTTCCTGTTC
1 GTCTTTTCTTGCAAGGAATATTTCATGTTCACGCATCATTCT-TTGCAGGGAATCTTTCCTATTC
*
20344919 ACCTC
65 A-CAC
* * *
20344924 GTCTTTTCTTGCAGGGAATCTTTCATGTTCATGCATCATTCTTTGCAGGGAATCTTTCCTATTCA
1 GTCTTTTCTTGCAAGGAATATTTCATGTTCACGCATCATTCTTTGCAGGGAATCTTTCCTATTCA
20344989 CAC
66 CAC
*
20344992 ATCTTTTCTTG
1 GTCTTTTCTTG
20345003 TATCATTTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
68 12 0.17
69 58 0.82
70 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (68 bp):
GTCTTTTCTTGCAAGGAATATTTCATGTTCACGCATCATTCTTTGCAGGGAATCTTTCCTATTCA
CAC
Found at i:20347843 original size:21 final size:22
Alignment explanation
Indices: 20347806--20347850 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
20347796 GAACAAATTG
*
20347806 TTGATTCTATTTCTTTTTTTAT
1 TTGATTCTATTTCTTTTTGTAT
20347828 TTGATT-TA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
20347849 TT
1 TT
20347851 CTCTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 12 0.57
22 6 0.29
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:20347857 original size:20 final size:20
Alignment explanation
Indices: 20347806--20347850 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
20347796 GAACAAATTG
20347806 TTGATTCTATTTCTTTTTTTAT
1 TTGA-TCTA-TTCTTTTTTTAT
*
20347828 TTGATTTATTCTTTTTTGTAT
1 TTGATCTATTCTTTTTT-TAT
20347849 TT
1 TT
20347851 CTCTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (20 bp):
TTGATCTATTCTTTTTTTAT
Found at i:20352173 original size:14 final size:14
Alignment explanation
Indices: 20352149--20352187 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
20352139 TGAAATATTT
20352149 TTAAG-TTGAAAAC
1 TTAAGTTTGAAAAC
20352162 TTAAGTTTGAAAAC
1 TTAAGTTTGAAAAC
20352176 TTAA-TTTGAAAA
1 TTAAGTTTGAAAA
20352188 TTTAGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (14 bp):
TTAAGTTTGAAAAC
Found at i:20352220 original size:22 final size:21
Alignment explanation
Indices: 20352185--20352227 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
20352175 CTTAATTTGA
*
20352185 AAATTTAGAAACTTGAAAATT
1 AAATTTAGAAACTTAAAAATT
*
20352206 AAATTTTGTAAACTTAAAAATT
1 AAATTTAG-AAACTTAAAAATT
20352228 TTGAGAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATTTAGAAACTTAAAAATT
Found at i:20354353 original size:43 final size:43
Alignment explanation
Indices: 20354300--20354387 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
20354290 TTCCCTAGAT
*
20354300 TAAATCCAACAACCTAATATTATCTTCT-CCTCTTTTTAAATTC
1 TAAATCCAACAACCCAATATTATCTTCTCCCT-TTTTTAAATTC
*
20354343 TAAATTCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
1 TAAATCCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
20354386 TA
1 TA
20354388 TTTTTTCTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 39 0.93
44 3 0.07
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (43 bp):
TAAATCCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
Found at i:20366893 original size:16 final size:17
Alignment explanation
Indices: 20366874--20366906 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20366864 CTTTTTTTTC
20366874 TTTTC-TCCCTTTATTT
1 TTTTCTTCCCTTTATTT
*
20366890 TTTTCTTTCCTTTATTT
1 TTTTCTTCCCTTTATTT
20366907 CCCTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCTTCCCTTTATTT
Found at i:20369703 original size:50 final size:50
Alignment explanation
Indices: 20369626--20369781 Score: 145
Period size: 50 Copynumber: 3.2 Consensus size: 50
20369616 AAAGACTTGC
* **** *
20369626 TTTATCATTTCAATCATCAAAAATCCATCAAATCATGCTGAAAGACTTAT
1 TTTATCATTTCAATCAACAGGCTTCCATCAAATCATGCTGAGAGACTTAT
* * * * *
20369676 TTTATCATTTCAATCAACGGGCTTCCATCAAATCATGCAGAGAGTCATGT
1 TTTATCATTTCAATCAACAGGCTTCCATCAAATCATGCTGAGAGACTTAT
* * ** * *
20369726 TTTATCATTTCAGTCATCAGGCTTCTGTCAACTCAT--TCAGAGACTTAT
1 TTTATCATTTCAATCAACAGGCTTCCATCAAATCATGCTGAGAGACTTAT
20369774 TTTATCAT
1 TTTATCAT
20369782 CTTATTCTTC
Statistics
Matches: 84, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 15 0.18
50 69 0.82
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (50 bp):
TTTATCATTTCAATCAACAGGCTTCCATCAAATCATGCTGAGAGACTTAT
Found at i:20376508 original size:17 final size:19
Alignment explanation
Indices: 20376463--20376508 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
20376453 ATGTATTGAC
20376463 AATGAATTAAGATTGATAT
1 AATGAATTAAGATTGATAT
*
20376482 AATGTCAATTGAG-TT-ATAT
1 AATG--AATTAAGATTGATAT
20376501 AATGAATT
1 AATGAATT
20376509 CAGAAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 4 0.17
19 12 0.50
20 2 0.08
21 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.39
Consensus pattern (19 bp):
AATGAATTAAGATTGATAT
Found at i:20380022 original size:25 final size:25
Alignment explanation
Indices: 20379988--20380038 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
20379978 AGAGAGTAAG
*
20379988 CCACTTGTTACTAGTCAAAAAGGAA
1 CCACTAGTTACTAGTCAAAAAGGAA
*
20380013 CCACTAGTTACTGGTCAAAAAGGAA
1 CCACTAGTTACTAGTCAAAAAGGAA
20380038 C
1 C
20380039 TAAGCAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (25 bp):
CCACTAGTTACTAGTCAAAAAGGAA
Found at i:20400574 original size:6 final size:6
Alignment explanation
Indices: 20400565--20400597 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
20400555 GTATATATAT
20400565 ACATAC ACATAC ACATAC ACATAC ACATAC ACA
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACA
20400598 CCATACTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
ACATAC
Found at i:20402762 original size:13 final size:13
Alignment explanation
Indices: 20402744--20402791 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
20402734 TTTTCATTGT
20402744 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
20402757 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
*
20402770 TTTTCAGAAGTGC
1 TTTTGAGAAGTGC
20402783 TTTTGAGAA
1 TTTTGAGAA
20402792 ATTTGAGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (13 bp):
TTTTGAGAAGTGC
Found at i:20405440 original size:26 final size:26
Alignment explanation
Indices: 20405404--20405455 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
20405394 CTTGGATTTC
20405404 GCCCGAATCTCATTGATGGCCCAAAG
1 GCCCGAATCTCATTGATGGCCCAAAG
20405430 GCCCGAATCTCATTGATGGCCCAAAG
1 GCCCGAATCTCATTGATGGCCCAAAG
20405456 CTTCATCCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (26 bp):
GCCCGAATCTCATTGATGGCCCAAAG
Found at i:20405974 original size:30 final size:30
Alignment explanation
Indices: 20405939--20405999 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
20405929 AAGGGCAGAA
*
20405939 CAAAGAACCAGCAGA-AGGCAGAGATGAGGG
1 CAAAGAACCAGCAGAGA-GCAGAGATAAGGG
*
20405969 CAAAGAAGCAGCAGAGAGCAGAGATAAGGG
1 CAAAGAACCAGCAGAGAGCAGAGATAAGGG
20405999 C
1 C
20406000 GTTCGTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.44, C:0.16, G:0.36, T:0.03
Consensus pattern (30 bp):
CAAAGAACCAGCAGAGAGCAGAGATAAGGG
Found at i:20406416 original size:14 final size:15
Alignment explanation
Indices: 20406399--20406428 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20406389 AATTACATTT
20406399 TAAATATT-ATTTTA
1 TAAATATTAATTTTA
20406413 TAAATATTAATTTTA
1 TAAATATTAATTTTA
20406428 T
1 T
20406429 TCACAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATATTAATTTTA
Found at i:20417450 original size:44 final size:44
Alignment explanation
Indices: 20417402--20417485 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
20417392 ATGAACTAGT
*
20417402 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAGGATTGTCG
1 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATTGTCG
* *
20417446 GCTTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATT
1 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATT
20417486 TGCCATCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATTGTCG
Found at i:20417775 original size:44 final size:43
Alignment explanation
Indices: 20417508--20417790 Score: 126
Period size: 44 Copynumber: 6.5 Consensus size: 43
20417498 TCTGCCTCGT
20417508 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCAC
1 TGCAACTTCAGGAGGATAAGACTTGCTT-ATTAGTCTGCTCCAC
* * * * * *
20417552 TGTAACTTCAGG-GAGATAAAACTAGATT-TGA-TCTGCT-CTC
1 TGCAACTTCAGGAG-GATAAGACTTGCTTATTAGTCTGCTCCAC
* * * * *
20417592 TGCAACTTTA-GAGAGATGAGATCTAAGGTT-TTAATC--CATCCAC
1 TGCAACTTCAGGAG-GATAAGA-CT-TGCTTATTAGTCTGC-TCCAC
* * * * *
20417635 TGCAACTTCAGCGA-GAT-AGAATTGTCGGCT-TTAATTTGTTCCAC
1 TGCAACTTCAG-GAGGATAAGACTTG-C--TTATTAGTCTGCTCCAC
* * * * **
20417679 TGCAACTTCAGG-GAAATAAGATTTGCCATCTTCAGTCTGC-CTCGT
1 TGCAACTTCAGGAG-GATAAGACTTG-CTTATT-AGTCTGCTC-CAC
20417724 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCAC
1 TGCAACTTCAGGAGGATAAGACTTGCTT-ATTAGTCTGCTCCAC
20417768 TGCAACTTCAAGGA-GATAAGACT
1 TGCAACTTC-AGGAGGATAAGACT
20417791 AGATGCGATC
Statistics
Matches: 180, Mismatches: 35, Indels: 48
0.68 0.13 0.18
Matches are distributed among these distances:
39 1 0.01
40 18 0.10
41 10 0.06
42 12 0.07
43 25 0.14
44 71 0.39
45 42 0.23
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
TGCAACTTCAGGAGGATAAGACTTGCTTATTAGTCTGCTCCAC
Found at i:20417922 original size:44 final size:45
Alignment explanation
Indices: 20417816--20417937 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 45
20417806 TCGGCTTTAA
* * *
20417816 TCTGATCCATTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCCATTTTCAG
20417861 TCTGC-CTCACTGCAACTTCAG-GAGGATAAGACTTG-C-TTACTT-AG
1 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTTGCCATT--TTCAG
* * *
20417905 TCTGCTCCACTGCAACTTCTGGGAAATAAGACT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACT
20417938 AGATGCGATC
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
43 2 0.03
44 32 0.48
45 32 0.48
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCCATTTTCAG
Found at i:20417934 original size:147 final size:147
Alignment explanation
Indices: 20417659--20417954 Score: 475
Period size: 147 Copynumber: 2.0 Consensus size: 147
20417649 GATAGAATTG
* * * **
20417659 TCGGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGT
1 TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
*
20417724 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAAGGAAATAAGA
20417789 CTAGATGCGATCTACTC
131 CTAGATGCGATCTACTC
* * *
20417806 TCGGCTTTAATCTGATCCATTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAGTCTGCCTCAC
1 TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
* **
20417871 TGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCTGGGAAATAAGA
66 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAAGGAAATAAGA
*
20417936 CTAGATGCGATCTGCTC
131 CTAGATGCGATCTACTC
20417953 TC
1 TC
20417955 TGCAACTTCA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
147 136 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (147 bp):
TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAAGGAAATAAGA
CTAGATGCGATCTACTC
Found at i:20418003 original size:44 final size:44
Alignment explanation
Indices: 20417954--20418065 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
20417944 GATCTGCTCT
* * *
20417954 CTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCCGCTTCA
1 CTGCAACTTCAGGGAGATAAGAT-TATAGGCTTTAATCCGCTCCA
* * *
20417998 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTATAGGCTTTAATCCGCTCCA
* *
20418042 TTGCAACTTCAGGGAGACAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
20418066 TGACATCATC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 2 0.03
44 56 0.97
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTATAGGCTTTAATCCGCTCCA
Found at i:20434826 original size:140 final size:140
Alignment explanation
Indices: 20434620--20435305 Score: 620
Period size: 140 Copynumber: 5.0 Consensus size: 140
20434610 ATGCTTACTG
* * * * *** *
20434620 CGACACTTTTGGGGCGACACTTAT-TTAAGTGTTGGGATAGACTTGTTGACATATGTTTTAGCCA
1 CGACACTTTTGGGCCGACACTT-TCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCA
* * * *
20434684 ACTTTTTGTATAAAAGTTGGGATATGCATGCCTAAGGTAACGCTTAAATAAGAGTCAGTTTTATC
65 ACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGTTTTGTC
20434749 CAACACTATGC
130 CAACACTATGC
* * *
20434760 CGACGCTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGTCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
* * * * *
20434825 CTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATG-GTCGGCTTTGTCC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGTTTTGTCC
20434889 AACACTATGC
131 AACACTATGC
*
20434899 AGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
* * * * * *
20434964 CCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGTTTTGTCC
*
20435029 AACACTATGT
131 AACACTATGC
** *** ** * * * * ** * *
20435039 CGACACTTTT---CAAAGTGTTGTGGTAGACTTGTTGGCAT--ACGTTTTGGCCA-ACTCTTTGT
1 CGACACTTTTGGGCCGACACTT-TCCTA-A-GTGTTGGGATAGAC-TTGTCGATATACACTTTGG
** *** * * *
20435098 ATAAGAGTTGGTAT---A--T-------GCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTT
62 CCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGTTTT
20435151 GTCCAACACTATGC
127 GTCCAACACTATGC
* * * * ** *
20435165 CGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
* * * * *
20435230 CTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGTTTTGTCC
20435295 AACACTATGC
131 AACACTATGC
20435305 C
1 C
20435306 AACTTGTGTT
Statistics
Matches: 431, Mismatches: 91, Indels: 48
0.76 0.16 0.08
Matches are distributed among these distances:
126 61 0.14
127 6 0.01
128 19 0.04
129 5 0.01
133 1 0.00
135 1 0.00
137 4 0.01
138 20 0.05
139 131 0.30
140 183 0.42
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (140 bp):
CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGTTTTGTCC
AACACTATGC
Found at i:20435138 original size:126 final size:126
Alignment explanation
Indices: 20434911--20435305 Score: 382
Period size: 126 Copynumber: 3.0 Consensus size: 126
20434901 ACACTTTTGG
* * *
20434911 GCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAA
1 GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
* *
20434976 GAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTCAACACTAT
66 GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * * ** *
20435037 GTCGACACTTTTCAAAGTGTTGTGG-TAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATA
1 GCCGACACTTTTCAAAGTGTTG-GGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATA
* * *
20435101 AGAGTTGGTATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTCGGTTTTGTCCAACACTAT
65 AGAGTTGGAATATGCATGCCTAAGACAATCA-TTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * ** *
20435163 GCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACC
1 GCCGACACTTTT-------CA-------AAGTGTTGGGATAGACTTGTCGACATACACTTTGGCC
* * * * * * *
20435228 AACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTC-TTAAATAAGAGCCGGTTTTG
52 AACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TCATTAAATAAGAGTCAGTTTTG
20435292 TCCAACACTAT
116 TCCAACACTAT
20435303 GCC
1 GCC
20435306 AACTTGTGTT
Statistics
Matches: 224, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
125 1 0.00
126 117 0.52
127 2 0.01
133 2 0.01
139 2 0.01
140 99 0.44
142 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
Found at i:20435256 original size:266 final size:265
Alignment explanation
Indices: 20434816--20435303 Score: 753
Period size: 266 Copynumber: 1.8 Consensus size: 265
20434806 CGATATACAC
* *
20434816 TTTGGTCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATGGTCGG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
* *
20434881 CTTTGTCCAACACTATGCAGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTC
66 CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
* * *
20434946 GATATACACTTTGGCCAACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TGATTAA
131 GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACT-ATTAA
* *
20435010 ATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
195 ATAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
20435075 ATACGT
260 ATACGT
* *
20435081 TTTGGCCAACTCTTTGTATAAGAGTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAG-GTCG
* * *
20435146 GTTTTGTCCAACACTATGCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
65 GCTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
** * * * * *
20435211 CGACATATGCTTTGACCAACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAA
130 CGACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAA
*
20435276 ATAAGAGCCGGTTTTGTCCAACACTATG
195 ATAAGAGCCAGTTTTGTCCAACACTATG
20435304 CCAACTTGTG
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
265 56 0.28
266 142 0.71
267 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (265 bp):
TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAAA
TAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCA
TACGT
Found at i:20437785 original size:21 final size:22
Alignment explanation
Indices: 20437759--20437805 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
20437749 CTCTGCTCAA
*
20437759 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
20437780 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
20437802 ACTC
1 ACTC
20437806 ACTCCTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:20442012 original size:139 final size:139
Alignment explanation
Indices: 20441728--20442319 Score: 497
Period size: 139 Copynumber: 4.3 Consensus size: 139
20441718 TGCACGCAAA
* * * *
20441728 GCCTAAGGTAACGCTTAAATAAGAGTCAGTTTTATCCAACACTATGCCGACGCTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* *
20441793 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGTCAACTCTTTATATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
20441858 GGATATGCAT
130 GAATATGCAT
* * *
20441868 GCCTAAGGCAACACTTAAATATG-GTCGGCTTTGTCCAACACTATGCAGACACTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC-GACACTTTTGGGCCGAC
* *
20441932 ACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
20441997 GAATATGCAT
130 GAATATGCAT
* * * **
20442007 GCCTAAGACAATGA-TTAAATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTT---CAAA
1 GCCTAAGGCAA-CACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGA
*** ** * * ** * *** *** **
20442068 GTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCC---A-ACTCTTTGTATAAGAGTTGGTAT--
64 CACTT-TCCTA-A-GTGTTGGGATA-GACTT-GCCGATATACACTTTGGCCAACCCTTTATATAA
20442127 -A--T-------GCAT
124 GAGTTGGAATATGCAT
* * *
20442133 GCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATACTTTTGGGCCAAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* ** * * * * *
20442198 ACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGGTCG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
20442263 GGATATGCAT
130 GAATATGCAT
* * *
20442273 GCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC
20442320 CAACTTGTGT
Statistics
Matches: 356, Mismatches: 67, Indels: 59
0.74 0.14 0.12
Matches are distributed among these distances:
124 3 0.01
125 4 0.01
126 62 0.17
127 2 0.01
128 17 0.05
129 5 0.01
133 1 0.00
135 1 0.00
137 4 0.01
138 19 0.05
139 126 0.35
140 106 0.30
141 4 0.01
142 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (139 bp):
GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGCGACACTTTTGGGCCGACA
CTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTGG
AATATGCAT
Found at i:20442153 original size:126 final size:126
Alignment explanation
Indices: 20441926--20442320 Score: 382
Period size: 126 Copynumber: 3.0 Consensus size: 126
20441916 ACACTTTTGG
* * *
20441926 GCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAA
1 GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
* *
20441991 GAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTCAACACTAT
66 GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * * ** *
20442052 GTCGACACTTTTCAAAGTGTTGTGG-TAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATA
1 GCCGACACTTTTCAAAGTGTTG-GGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATA
* * *
20442116 AGAGTTGGTATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTCGGTTTTGTCCAACACTAT
65 AGAGTTGGAATATGCATGCCTAAGACAATCA-TTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * ** *
20442178 GCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACC
1 GCCGACACTTTT-------CA-------AAGTGTTGGGATAGACTTGTCGACATACACTTTGGCC
* * * * * * *
20442243 AACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTC-TTAAATAAGAGCCGGTTTTG
52 AACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TCATTAAATAAGAGTCAGTTTTG
20442307 TCCAACACTAT
116 TCCAACACTAT
20442318 GCC
1 GCC
20442321 AACTTGTGTT
Statistics
Matches: 224, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
125 1 0.00
126 117 0.52
127 2 0.01
133 2 0.01
139 2 0.01
140 99 0.44
142 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
Found at i:20442271 original size:266 final size:265
Alignment explanation
Indices: 20441831--20442318 Score: 753
Period size: 266 Copynumber: 1.8 Consensus size: 265
20441821 CGATATACAC
* *
20441831 TTTGGTCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATGGTCGG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
* *
20441896 CTTTGTCCAACACTATGCAGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTC
66 CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
* * *
20441961 GATATACACTTTGGCCAACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TGATTAA
131 GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACT-ATTAA
* *
20442025 ATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
195 ATAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
20442090 ATACGT
260 ATACGT
* *
20442096 TTTGGCCAACTCTTTGTATAAGAGTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAG-GTCG
* * *
20442161 GTTTTGTCCAACACTATGCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
65 GCTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
** * * * * *
20442226 CGACATATGCTTTGACCAACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAA
130 CGACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAA
*
20442291 ATAAGAGCCGGTTTTGTCCAACACTATG
195 ATAAGAGCCAGTTTTGTCCAACACTATG
20442319 CCAACTTGTG
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
265 56 0.28
266 142 0.71
267 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (265 bp):
TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAAA
TAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCA
TACGT
Found at i:20442308 original size:140 final size:140
Alignment explanation
Indices: 20442056--20442320 Score: 397
Period size: 140 Copynumber: 1.9 Consensus size: 140
20442046 CACTATGTCG
* ** * * *
20442056 ACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATAAGAGT
1 ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
* * *
20442121 TGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATAC
66 CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
20442186 TTTTGGGCCA
131 TTTTGGGCCA
* * *
20442196 ACACTTTCCTAAGTGTTG-GGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGG
1 ACACTTTCCAAAGTGTTGTGG-TAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAG
*
20442260 TCGGGATATGCATGCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
65 TCGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
20442321 AACTTGTGTT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 2 0.02
140 109 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (140 bp):
ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
TTTTGGGCCA
Found at i:20445372 original size:139 final size:139
Alignment explanation
Indices: 20445088--20445679 Score: 497
Period size: 139 Copynumber: 4.3 Consensus size: 139
20445078 TGCACGCAAA
* * * *
20445088 GCCTAAGGTAACGCTTAAATAAGAGTCAGTTTTATCCAACACTATGCCGACGCTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* *
20445153 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGTCAACTCTTTATATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
20445218 GGATATGCAT
130 GAATATGCAT
* * *
20445228 GCCTAAGGCAACACTTAAATATG-GTCGGCTTTGTCCAACACTATGCAGACACTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC-GACACTTTTGGGCCGAC
* *
20445292 ACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
20445357 GAATATGCAT
130 GAATATGCAT
* * * **
20445367 GCCTAAGACAATGA-TTAAATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTT---CAAA
1 GCCTAAGGCAA-CACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGA
*** ** * * ** * *** *** **
20445428 GTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCC---A-ACTCTTTGTATAAGAGTTGGTAT--
64 CACTT-TCCTA-A-GTGTTGGGATA-GACTT-GCCGATATACACTTTGGCCAACCCTTTATATAA
20445487 -A--T-------GCAT
124 GAGTTGGAATATGCAT
* * *
20445493 GCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATACTTTTGGGCCAAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* ** * * * * *
20445558 ACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGGTCG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
20445623 GGATATGCAT
130 GAATATGCAT
* * *
20445633 GCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC
20445680 CAACTTGTGT
Statistics
Matches: 356, Mismatches: 67, Indels: 59
0.74 0.14 0.12
Matches are distributed among these distances:
124 3 0.01
125 4 0.01
126 62 0.17
127 2 0.01
128 17 0.05
129 5 0.01
133 1 0.00
135 1 0.00
137 4 0.01
138 19 0.05
139 126 0.35
140 106 0.30
141 4 0.01
142 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (139 bp):
GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGCGACACTTTTGGGCCGACA
CTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTGG
AATATGCAT
Found at i:20445513 original size:126 final size:126
Alignment explanation
Indices: 20445286--20445680 Score: 382
Period size: 126 Copynumber: 3.0 Consensus size: 126
20445276 ACACTTTTGG
* * *
20445286 GCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAA
1 GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
* *
20445351 GAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTCAACACTAT
66 GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * * ** *
20445412 GTCGACACTTTTCAAAGTGTTGTGG-TAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATA
1 GCCGACACTTTTCAAAGTGTTG-GGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATA
* * *
20445476 AGAGTTGGTATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTCGGTTTTGTCCAACACTAT
65 AGAGTTGGAATATGCATGCCTAAGACAATCA-TTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * ** *
20445538 GCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACC
1 GCCGACACTTTT-------CA-------AAGTGTTGGGATAGACTTGTCGACATACACTTTGGCC
* * * * * * *
20445603 AACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTC-TTAAATAAGAGCCGGTTTTG
52 AACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TCATTAAATAAGAGTCAGTTTTG
20445667 TCCAACACTAT
116 TCCAACACTAT
20445678 GCC
1 GCC
20445681 AACTTGTGTT
Statistics
Matches: 224, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
125 1 0.00
126 117 0.52
127 2 0.01
133 2 0.01
139 2 0.01
140 99 0.44
142 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
Found at i:20445631 original size:266 final size:265
Alignment explanation
Indices: 20445191--20445678 Score: 753
Period size: 266 Copynumber: 1.8 Consensus size: 265
20445181 CGATATACAC
* *
20445191 TTTGGTCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATGGTCGG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
* *
20445256 CTTTGTCCAACACTATGCAGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTC
66 CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
* * *
20445321 GATATACACTTTGGCCAACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TGATTAA
131 GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACT-ATTAA
* *
20445385 ATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
195 ATAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
20445450 ATACGT
260 ATACGT
* *
20445456 TTTGGCCAACTCTTTGTATAAGAGTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAG-GTCG
* * *
20445521 GTTTTGTCCAACACTATGCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
65 GCTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
** * * * * *
20445586 CGACATATGCTTTGACCAACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAA
130 CGACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAA
*
20445651 ATAAGAGCCGGTTTTGTCCAACACTATG
195 ATAAGAGCCAGTTTTGTCCAACACTATG
20445679 CCAACTTGTG
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
265 56 0.28
266 142 0.71
267 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (265 bp):
TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAAA
TAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCA
TACGT
Found at i:20445668 original size:140 final size:140
Alignment explanation
Indices: 20445416--20445680 Score: 397
Period size: 140 Copynumber: 1.9 Consensus size: 140
20445406 CACTATGTCG
* ** * * *
20445416 ACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATAAGAGT
1 ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
* * *
20445481 TGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATAC
66 CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
20445546 TTTTGGGCCA
131 TTTTGGGCCA
* * *
20445556 ACACTTTCCTAAGTGTTG-GGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGG
1 ACACTTTCCAAAGTGTTGTGG-TAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAG
*
20445620 TCGGGATATGCATGCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
65 TCGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
20445681 AACTTGTGTT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 2 0.02
140 109 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (140 bp):
ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
TTTTGGGCCA
Found at i:20453147 original size:148 final size:146
Alignment explanation
Indices: 20452824--20453251 Score: 556
Period size: 148 Copynumber: 2.9 Consensus size: 146
20452814 CCTTATACGT
* * * *
20452824 GTCTATCTCAACCTTTTTAAGGTTACTTTAGACGAGTTTATCCCAACCTTTTTTAAAGGTTGCCT
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
* * * *
20452889 TAAACGA-GTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGGGTCTATCCCAACCTTTTTAAAA
66 TAGACAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAA
*
20452953 AGTTGCCTTAGATAAG
131 AGTTGCCTTAGACAAG
* * *
20452969 GTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGACT
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
* * * * * *
20453034 TAGACATGGTTTAT-CCAAACTTTTTAAAGGTTACCTTAGACAGGTCTATCCCAACAATTTTTTT
66 TAGACAAGGTTTATCCCAACCTTTTT-AAGGTTGCCTTAGACGGGTCTATCCCAAC--CTTTTTA
* * *
20453098 ATAGGTTGTCTTAGACAAG
128 AAAAGTTGCCTTAGACAAG
* * *
20453117 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCTAA-CTATTTTTAAAAGTTGCC
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCT-TTTTTAAAGGTTGCC
* *
20453181 TTAGACAAGTTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAA
65 TTAGACAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAA
*
20453246 AGGTTG
130 AAGTTG
20453252 GTCTTGATTA
Statistics
Matches: 243, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
145 72 0.30
146 44 0.18
147 2 0.01
148 115 0.47
149 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (146 bp):
GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
TAGACAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAA
AGTTGCCTTAGACAAG
Found at i:20453275 original size:73 final size:73
Alignment explanation
Indices: 20452827--20453251 Score: 559
Period size: 73 Copynumber: 5.8 Consensus size: 73
20452817 TATACGTGTC
* * * * * *
20452827 TATCTCAACCTTTTTAAGGTTACTTTAGACGAGTTTATCCCAACCTTTTTTAAAGGTTGCCTTAA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
* *
20452892 ACGA-GTC
66 ACAAGGTT
* * *
20452899 TATCCCAACCTTTTTAAGGTTGCCTTAAACGGGTCTATCCCAACCTTTTTAAAAAGTTGCCTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
*
20452964 ATAAGGTT
66 ACAAGGTT
*
20452972 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGACTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
*
20453037 ACATGGTT
66 ACAAGGTT
* * * * * *
20453045 TAT-CCAAACTTTTTAAAGGTTACCTTAGACAGGTCTATCCCAACAATTTTTTTATAGGTTGTCT
1 TATCCCAACCTTTTT-AAGGTTGCCTTAGACGGGTCTATCCCAAC--CTTTTTTAAAGGTTGCCT
*
20453109 TAGACAAGGTC
63 TAGACAAGGTT
* * * *
20453120 TATCTCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCTAA-CTATTTTTAAAAGTTGCCTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCT-TTTTTAAAGGTTGCCTTA
*
20453184 GACAAGTTT
65 GACAAGGTT
20453193 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTG
20453252 GTCTTGATTA
Statistics
Matches: 304, Mismatches: 42, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
72 69 0.23
73 173 0.57
74 2 0.01
75 51 0.17
76 9 0.03
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (73 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
ACAAGGTT
Found at i:20455791 original size:41 final size:44
Alignment explanation
Indices: 20455746--20455836 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 44
20455736 AGTTGGTTGG
*
20455746 GTTTTCTTTGT-AT-TTAGTGGGAAAG-GTGTCCAGCTAGG-CGC
1 GTTTTCTTTGTCATATTAGTAGGAAAGCGTGTCCAGCT-GGACGC
*
20455787 GTTTTC-TTGTCATATTAGTAGGAAAGCTTGTCCAGCTGGACGC
1 GTTTTCTTTGTCATATTAGTAGGAAAGCGTGTCCAGCTGGACGC
20455830 GTTTTCT
1 GTTTTCT
20455837 GTCCACCACC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
40 4 0.09
41 8 0.19
42 13 0.30
43 18 0.42
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.38
Consensus pattern (44 bp):
GTTTTCTTTGTCATATTAGTAGGAAAGCGTGTCCAGCTGGACGC
Found at i:20457936 original size:27 final size:27
Alignment explanation
Indices: 20457905--20457958 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20457895 CTAGTTGGAA
20457905 AATTGCCCAATTTTTTAAATTAGTCTT
1 AATTGCCCAATTTTTTAAATTAGTCTT
20457932 AATTGCCCAATTTTTTAAATTAGTCTT
1 AATTGCCCAATTTTTTAAATTAGTCTT
20457959 CTACATGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (27 bp):
AATTGCCCAATTTTTTAAATTAGTCTT
Found at i:20465333 original size:42 final size:42
Alignment explanation
Indices: 20465274--20465382 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
20465264 AGTGAGTTAT
* *
20465274 ACGGCCTGGACACACGCCCATGTCCTTGTCTGTGTGGCTCAC
1 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
20465316 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
1 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
* *
20465358 ACAGCTTGGGCACACGCCCATGTCC
1 ACGGCCTGGGCACACGCCCATGTCC
20465383 CTAGCGCTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.21
Consensus pattern (42 bp):
ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
Found at i:20467325 original size:28 final size:28
Alignment explanation
Indices: 20467294--20467350 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
20467284 GTAGATTGTA
20467294 AAAG-GTTTCTAGTTAAGCCACAAAAGCT
1 AAAGTGTTT-TAGTTAAGCCACAAAAGCT
*
20467322 AAAGTGTTTTAGTTAAGCCATAAAAGCT
1 AAAGTGTTTTAGTTAAGCCACAAAAGCT
20467350 A
1 A
20467351 GGAAGAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (28 bp):
AAAGTGTTTTAGTTAAGCCACAAAAGCT
Found at i:20473685 original size:9 final size:9
Alignment explanation
Indices: 20473673--20473716 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
20473663 TAAAAAAATG
20473673 TAACCGAAT
1 TAACCGAAT
* *
20473682 TAACTGACT
1 TAACCGAAT
20473691 TAACCGAAT
1 TAACCGAAT
*
20473700 TAATCGAAT
1 TAACCGAAT
20473709 TAACCGAA
1 TAACCGAA
20473717 ATTTAAGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (9 bp):
TAACCGAAT
Found at i:20484740 original size:16 final size:16
Alignment explanation
Indices: 20484715--20484745 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20484705 TAATTTGAGT
20484715 TTTTAAGTTTTGACAA
1 TTTTAAGTTTTGACAA
*
20484731 TTTTAGGTTTTGACA
1 TTTTAAGTTTTGACA
20484746 TTCAAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (16 bp):
TTTTAAGTTTTGACAA
Found at i:20490572 original size:16 final size:16
Alignment explanation
Indices: 20490553--20490591 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20490543 TTTTAATAAA
*
20490553 ATTAAAGCTAATTGTT
1 ATTAAAACTAATTGTT
*
20490569 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
*
20490585 AGTAAAA
1 ATTAAAA
20490592 TTATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:20490574 original size:22 final size:22
Alignment explanation
Indices: 20490525--20490579 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
20490515 TTTAATTAAC
* * *
20490525 ATTAAAATTAAAATTATTTTTT
1 ATTAAAATTAAAACTAATTGTT
* *
20490547 AATAAAATTAAAGCTAATTGTT
1 ATTAAAATTAAAACTAATTGTT
20490569 ATTAAAATTAA
1 ATTAAAATTAA
20490580 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTAAAATTAAAACTAATTGTT
Found at i:20490592 original size:16 final size:16
Alignment explanation
Indices: 20490561--20490594 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20490551 AAATTAAAGC
*
20490561 TAATTGTTATTAAAAT
1 TAATTGTTAGTAAAAT
20490577 TAATTGTTAGTAAAAT
1 TAATTGTTAGTAAAAT
20490593 TA
1 TA
20490595 TCAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (16 bp):
TAATTGTTAGTAAAAT
Found at i:20490664 original size:66 final size:67
Alignment explanation
Indices: 20490583--20490725 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 67
20490573 AAATTAATTG
*
20490583 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
20490647 GA
66 GA
*
20490649 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
20490714 TGA
65 TGA
20490717 TTAGTAAAA
1 TTAGTAAAA
20490726 CAAACTTGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
66 26 0.36
68 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:20490679 original size:9 final size:9
Alignment explanation
Indices: 20490667--20490694 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
20490657 TTTATCAAAT
20490667 TATTAATTG
1 TATTAATTG
20490676 TATTAATTG
1 TATTAATTG
20490685 TATTAATTG
1 TATTAATTG
20490694 T
1 T
20490695 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:20490831 original size:22 final size:24
Alignment explanation
Indices: 20490791--20490834 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
20490781 AAATAAACTT
20490791 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
20490815 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
20490835 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:20495853 original size:13 final size:13
Alignment explanation
Indices: 20495835--20495862 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20495825 GGTGATCACG
20495835 TTGATTCATTAAC
1 TTGATTCATTAAC
20495848 TTGATTCATTAAC
1 TTGATTCATTAAC
20495861 TT
1 TT
20495863 AATTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (13 bp):
TTGATTCATTAAC
Found at i:20495871 original size:13 final size:13
Alignment explanation
Indices: 20495838--20495871 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20495828 GATCACGTTG
*
20495838 ATTCATTAACTTG
1 ATTCATTAACTTA
20495851 ATTCATTAACTTA
1 ATTCATTAACTTA
*
20495864 ATTTATTA
1 ATTCATTA
20495872 TAAGTTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTCATTAACTTA
Found at i:20503374 original size:48 final size:48
Alignment explanation
Indices: 20503307--20503407 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
20503297 GGTAGGCAAC
20503307 TTTTTTTTTGCGCTATTTGC-TTTTTTTTAAAGATTTTTCTCAACTCTT
1 TTTTTTTTTGCGCTATTTGCTTTTTTTTTAAAGATTTTTCTCAACT-TT
* **
20503355 TTTTTTTTTGCGCTGTTTGCTTTTTTTTTTTAGATTTTTCTCAACTTT
1 TTTTTTTTTGCGCTATTTGCTTTTTTTTTAAAGATTTTTCTCAACTTT
20503403 TTTTT
1 TTTTT
20503408 GCGCTTTTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
48 26 0.53
49 23 0.47
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (48 bp):
TTTTTTTTTGCGCTATTTGCTTTTTTTTTAAAGATTTTTCTCAACTTT
Found at i:20503427 original size:44 final size:44
Alignment explanation
Indices: 20503303--20503426 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 44
20503293 GAGAGGTAGG
*
20503303 CAACTTTTTTTTTGCGCTATTTGCTTTTTTTTAAAGATTTTTCT
1 CAACTTTTTTTTTGCGCTATTTGTTTTTTTTTAAAGATTTTTCT
* **
20503347 CAACTCTTTTTTTTTTTGCGCTGTTTGCTTTTTTTTTTTAGATTTTTCT
1 CAA--C--TTTTTTTTTGCGCTATTTG-TTTTTTTTTAAAGATTTTTCT
*
20503396 CAAC-TTTTTTTTGCGCTTTTTGTTTTTTTTT
1 CAACTTTTTTTTTGCGCTATTTGTTTTTTTTT
20503427 TATTAACTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
43 9 0.13
44 20 0.29
46 1 0.01
47 1 0.01
48 18 0.26
49 21 0.30
ACGTcount: A:0.10, C:0.14, G:0.10, T:0.66
Consensus pattern (44 bp):
CAACTTTTTTTTTGCGCTATTTGTTTTTTTTTAAAGATTTTTCT
Found at i:20504015 original size:31 final size:31
Alignment explanation
Indices: 20503978--20504036 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
20503968 AATAACTCAA
20503978 TGACTTAAATAAAAACTATT-GAATAGTTTTG
1 TGACTTAAATAAAAA-TATTCGAATAGTTTTG
* *
20504009 TGACTTAAATGAAAATTTTCGAATAGTT
1 TGACTTAAATAAAAATATTCGAATAGTT
20504037 CAGTGACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (31 bp):
TGACTTAAATAAAAATATTCGAATAGTTTTG
Found at i:20504043 original size:31 final size:31
Alignment explanation
Indices: 20503978--20504044 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
20503968 AATAACTCAA
**
20503978 TGACTTAAATAAAAACTATTGAATAGTTTTG
1 TGACTTAAATAAAAACTATTGAATAGTTCAG
* *
20504009 TGACTTAAATGAAAA-TTTTCGAATAGTTCAG
1 TGACTTAAATAAAAACTATT-GAATAGTTCAG
20504040 TGACT
1 TGACT
20504045 AACTTGAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTATTGAATAGTTCAG
Found at i:20505482 original size:100 final size:100
Alignment explanation
Indices: 20505374--20505569 Score: 324
Period size: 100 Copynumber: 2.0 Consensus size: 100
20505364 TTAAAAAATA
20505374 TTTAAAATTTATATTTCATATATTAAAATATTAAAAAAAAAATCATAATAAATTATTTTTT-TAT
1 TTTAAAATTTATATTTCATATATTAAAATATT-AAAAAAAAATCATAATAAATTATTTTTTATAT
20505438 TATTACTAACG-TATCATAATATTAACTAATTTATTT
65 TATTACTAA-GATATCATAATATTAACTAATTTATTT
* * *
20505474 TTTAAAATTTATATTTCATATATTAAAATATTAACAACAAATTATAATAAATTATTTTTTATATT
1 TTTAAAATTTATATTTCATATATTAAAATATTAAAAAAAAATCATAATAAATTATTTTTTATATT
*
20505539 CTTACTAAGATATCATAATATTAACTAATTT
66 ATTACTAAGATATCATAATATTAACTAATTT
20505570 GAACATTATT
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
99 26 0.29
100 64 0.71
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (100 bp):
TTTAAAATTTATATTTCATATATTAAAATATTAAAAAAAAATCATAATAAATTATTTTTTATATT
ATTACTAAGATATCATAATATTAACTAATTTATTT
Found at i:20507319 original size:27 final size:28
Alignment explanation
Indices: 20507279--20507347 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
20507269 TAATTAATTA
* *
20507279 ATTTTTATAAATTTTATACTTT-T-AAAT
1 ATTTTAAT-AATTTTATAATTTATAAAAT
20507306 ACTTTTAATAA-TTTATAATTTATAAAAT
1 A-TTTTAATAATTTTATAATTTATAAAAT
*
20507334 ATTTTAATATTTTT
1 ATTTTAATAATTTT
20507348 TAGAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
26 9 0.26
27 12 0.34
28 14 0.40
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTTAATAATTTTATAATTTATAAAAT
Found at i:20507372 original size:7 final size:8
Alignment explanation
Indices: 20507330--20507376 Score: 58
Period size: 8 Copynumber: 5.4 Consensus size: 8
20507320 ATAATTTATA
20507330 AAATATTTT
1 AAAT-TTTT
20507339 AATATTTTTT
1 AA-A-TTTTT
20507349 AGAATTTTT
1 A-AATTTTT
20507358 AAATTTTT
1 AAATTTTT
20507366 AAATTTTT
1 AAATTTTT
20507374 AAA
1 AAA
20507377 AATTAATGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 18 0.51
9 8 0.23
10 7 0.20
11 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (8 bp):
AAATTTTT
Found at i:20522007 original size:24 final size:24
Alignment explanation
Indices: 20521979--20522026 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
20521969 TTATTTTATT
20521979 CATTTCTTCATTTTCCCTTACATA
1 CATTTCTTCATTTTCCCTTACATA
20522003 CATTTCTTCATTTTCCCTTACATA
1 CATTTCTTCATTTTCCCTTACATA
20522027 ACAAGTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (24 bp):
CATTTCTTCATTTTCCCTTACATA
Found at i:20524670 original size:29 final size:29
Alignment explanation
Indices: 20524609--20524672 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
20524599 CAAGTAAAAT
*
20524609 AAAAAAATTTCACTAACCCTATTTCATTC
1 AAAAAAATTTCACGAACCCTATTTCATTC
* *
20524638 -AAAAAATTTGAGGAACCCTATTTCATTC
1 AAAAAAATTTCACGAACCCTATTTCATTC
20524666 AAAAAAA
1 AAAAAAA
20524673 ATTTAGCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAAAAATTTCACGAACCCTATTTCATTC
Found at i:20525059 original size:14 final size:13
Alignment explanation
Indices: 20525020--20525061 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
20525010 AGCTAACGCT
20525020 ATTTTT-TAATT-
1 ATTTTTATAATTA
*
20525031 GTTTTTATAATTA
1 ATTTTTATAATTA
20525044 ATTTTTATAATCTA
1 ATTTTTATAAT-TA
20525058 ATTT
1 ATTT
20525062 ATGTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 10 0.38
14 6 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
ATTTTTATAATTA
Found at i:20525561 original size:33 final size:33
Alignment explanation
Indices: 20525498--20525561 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
20525488 AGGGGTTCAA
* * *
20525498 TTGAACTTGAGTTAAATGGTGAGGGTGTTAGGC
1 TTGAACCTGAGTTAAAGGGAGAGGGTGTTAGGC
*
20525531 TTGAACCTGAGTTAGAGGGAGAGAGG-GTTAG
1 TTGAACCTGAGTTAAAGGGAGAG-GGTGTTAG
20525562 TGGTCCTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.27, C:0.06, G:0.39, T:0.28
Consensus pattern (33 bp):
TTGAACCTGAGTTAAAGGGAGAGGGTGTTAGGC
Found at i:20525737 original size:3 final size:3
Alignment explanation
Indices: 20525729--20525753 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20525719 TGGGTTAGTA
20525729 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
20525754 GATAGTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:20532009 original size:21 final size:21
Alignment explanation
Indices: 20531970--20532011 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20531960 AGGGGAACTC
20531970 AATATTTCAATAATTTTAAGTA
1 AATATTTCAAT-ATTTTAAGTA
20531992 AATATTTTCAAT-TTTTAAGT
1 AATA-TTTCAATATTTTAAGT
20532012 GAACACACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
AATATTTCAATATTTTAAGTA
Found at i:20533669 original size:27 final size:27
Alignment explanation
Indices: 20533639--20533744 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
20533629 TTCTATTTTG
20533639 TAGATCGCAACAAAGGCTTTCATCTCT
1 TAGATCGCAACAAAGGCTTTCATCTCT
* * *
20533666 TAGATCACCAA-GAAGGCTTTCATTTCT
1 TAGATC-GCAACAAAGGCTTTCATCTCT
*
20533693 TAGATCGTC-ACAAAGTCTTTCATCTCT
1 TAGATCG-CAACAAAGGCTTTCATCTCT
* * * *
20533720 TAGGTCGCCACAAAGACTTTTATCT
1 TAGATCGCAACAAAGGCTTTCATCT
20533745 TTCTGGTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 60 0.92
28 3 0.05
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (27 bp):
TAGATCGCAACAAAGGCTTTCATCTCT
Found at i:20534959 original size:43 final size:43
Alignment explanation
Indices: 20534905--20535024 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 43
20534895 ATAATAAGAG
*
20534905 GAACATATAATAAATCAATACATATATAGAAT-ATAAT-TA-TGAT
1 GAACATGTAATAAATCAATA-ATATAT--AATCATAATATATTGAT
*
20534948 GAACATGTAATAAATCAAT-ATATATAATCATTATATATTGAT
1 GAACATGTAATAAATCAATAATATATAATCATAATATATTGAT
20534990 GAACATGTAATAAATCAAT-ATATATAATCATAATA
1 GAACATGTAATAAATCAATAATATATAATCATAATA
20535025 AGGGGGAATG
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
39 3 0.04
40 4 0.06
41 8 0.11
42 38 0.54
43 18 0.25
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (43 bp):
GAACATGTAATAAATCAATAATATATAATCATAATATATTGAT
Found at i:20544393 original size:8 final size:8
Alignment explanation
Indices: 20544380--20544417 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
20544370 TATATTGTAG
20544380 AATATATA
1 AATATATA
20544388 AATATATA
1 AATATATA
*
20544396 AATAT-GA
1 AATATATA
20544403 AATATA-A
1 AATATATA
20544410 AATATATA
1 AATATATA
20544418 CAGAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (8 bp):
AATATATA
Found at i:20544449 original size:22 final size:22
Alignment explanation
Indices: 20544387--20544452 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
20544377 TAGAATATAT
* * * *
20544387 AAATATATAAATATGAAATATA
1 AAATATATACAGAAGAAAAATA
20544409 AAATATATACAGAAGAAAAATA
1 AAATATATACAGAAGAAAAATA
20544431 AAATATATACAGAAGAAAAATA
1 AAATATATACAGAAGAAAAATA
20544453 TGGATTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (22 bp):
AAATATATACAGAAGAAAAATA
Found at i:20544554 original size:24 final size:26
Alignment explanation
Indices: 20544511--20544571 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 26
20544501 GTATGAAAAT
20544511 ATGTGTATATATGTACATAAATTA-AA
1 ATGTGTATATA-GTACATAAATTATAA
*
20544537 ATGTGTATATA-TATATAAATTATAA
1 ATGTGTATATAGTACATAAATTATAA
*
20544562 A-GTATATATA
1 ATGTGTATATA
20544572 AAAAAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 18 0.56
25 3 0.09
26 11 0.34
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
ATGTGTATATAGTACATAAATTATAA
Found at i:20547188 original size:131 final size:131
Alignment explanation
Indices: 20546734--20547176 Score: 593
Period size: 131 Copynumber: 3.4 Consensus size: 131
20546724 GGAAGACAAT
* * * * *
20546734 ATCTACAATCTTCGACCTACTTCACTACTGCTCAGGGAGATAAGG-CTAGTGGCTCAAATCTACT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCT
* * * * * * *
20546798 TCTTACTATATTGGGAAGATAAGATTCGCAATCTTCGATCTGCTCCACTACTGTTTCGGGATATA
65 TCCTACTATCTCGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATA
20546863 AG
130 AG
* * * *
20546865 ATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGAACTGGTGGCTTAAATTTGTTT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
*
20546930 CCTACTATCTCGGAAAGATAAGATTCG-CAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
66 CCTACTATCTCGGAAAGATAAGATTCGCCA-TCTTCGATCTGCTCCACTACTGTTTAGGGAGATA
20546994 AG
130 AG
20546996 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
* ** * * * * *
20547061 CCTACTATCTCGGGATTATAAGATTCGCCATGTTCGATCTGCTTCACTACTGTTTAGAGAGACAG
66 CCTACTATCTCGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAA
20547126 G
131 G
* * * *
20547127 ATCTATAATCTCCAACCTACTCCACTACTGTTCAAGGAGATAGGACTGGT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGT
20547177 TTCACCAATC
Statistics
Matches: 275, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
130 3 0.01
131 270 0.98
132 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (131 bp):
ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
CCTACTATCTCGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAA
G
Found at i:20547471 original size:24 final size:24
Alignment explanation
Indices: 20547439--20547493 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
20547429 CGGATTGCCC
20547439 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
20547463 CCACTGTAATCTTTAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
20547487 CCACTGT
1 CCACTGT
20547494 CATTTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:20548370 original size:43 final size:42
Alignment explanation
Indices: 20548304--20548402 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
20548294 CCCTAATCTA
** * *
20548304 ATCAAAATTTGAGTTGCTCTGATCACCTCATGCCCCATTTTG
1 ATCAAAATTTGAGCCGCTCTGATCACCTCATACCCAATTTTG
* *
20548346 ATCCAAAATTTGAGCCGCTTTGATCACCTCATATCCAATTTTG
1 AT-CAAAATTTGAGCCGCTCTGATCACCTCATACCCAATTTTG
*
20548389 GTCAAAATTTGAGC
1 ATCAAAATTTGAGC
20548403 TGCCCTTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 14 0.29
43 35 0.71
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (42 bp):
ATCAAAATTTGAGCCGCTCTGATCACCTCATACCCAATTTTG
Found at i:20548494 original size:11 final size:11
Alignment explanation
Indices: 20548478--20548546 Score: 74
Period size: 10 Copynumber: 6.5 Consensus size: 11
20548468 TTGGCCTCTG
20548478 CTTTTCTTTTT
1 CTTTTCTTTTT
20548489 CTTTTC-TTTT
1 CTTTTCTTTTT
20548499 CTTCTTCTTTCTT
1 CTT-TTCTTT-TT
20548512 -TTTTCTTTTT
1 CTTTTCTTTTT
*
20548522 CCTTT-TTTTT
1 CTTTTCTTTTT
20548532 CTTTT-TTTTT
1 CTTTTCTTTTT
*
20548542 GTTTT
1 CTTTT
20548547 TTTAAACAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
10 27 0.53
11 18 0.35
12 4 0.08
13 2 0.04
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.81
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:20548516 original size:33 final size:33
Alignment explanation
Indices: 20548479--20548548 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
20548469 TGGCCTCTGC
20548479 TTTTCTTTTT-CTTTTCTTTTCTTCTTCTTTCTT
1 TTTTCTTTTTCCTTTT-TTTTCTTCTTCTTTCTT
* * *
20548512 TTTTCTTTTTCCTTTTTTTTCTTTTTTTTTGTT
1 TTTTCTTTTTCCTTTTTTTTCTTCTTCTTTCTT
20548545 TTTT
1 TTTT
20548549 TAAACAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (33 bp):
TTTTCTTTTTCCTTTTTTTTCTTCTTCTTTCTT
Found at i:20548547 original size:16 final size:16
Alignment explanation
Indices: 20548479--20548547 Score: 86
Period size: 16 Copynumber: 4.2 Consensus size: 16
20548469 TGGCCTCTGC
*
20548479 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTCTTTTT
*
20548495 TTTTCTTCTTCTTTCTT
1 TTTTCTTTTTCTTT-TT
*
20548512 TTTTCTTTTTCCTTTT
1 TTTTCTTTTTCTTTTT
20548528 TTTTCTTTTT-TTTTGT
1 TTTTCTTTTTCTTTT-T
20548544 TTTT
1 TTTT
20548548 TTAAACAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 3 0.07
16 30 0.65
17 13 0.28
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTT
Found at i:20553286 original size:20 final size:24
Alignment explanation
Indices: 20553241--20553291 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 24
20553231 TATTATGTAT
20553241 ATATATATATTGTAGAATATATAA
1 ATATATATATTGTAGAATATATAA
20553265 ATATATATA-TG-A-AATATA-AA
1 ATATATATATTGTAGAATATATAA
20553285 ATATATA
1 ATATATA
20553292 CATAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 1 0.04
23 2 0.07
24 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (24 bp):
ATATATATATTGTAGAATATATAA
Found at i:20553395 original size:26 final size:27
Alignment explanation
Indices: 20553363--20553425 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
20553353 GTATGAAAAT
*
20553363 ATGTGTATATATGTACATAAATTA-AA
1 ATGTGTATATATATACATAAATTATAA
* *
20553389 ATGTGTATATGTATATATAAATTATAA
1 ATGTGTATATATATACATAAATTATAA
*
20553416 A-GTATATATA
1 ATGTGTATATA
20553426 AAAAAAGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (27 bp):
ATGTGTATATATATACATAAATTATAA
Found at i:20553511 original size:3 final size:3
Alignment explanation
Indices: 20553497--20553549 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
20553487 GGTATAAATG
20553497 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20553543 AAT AAT A
1 AAT AAT A
20553550 GTAAAAGAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20554294 original size:5 final size:5
Alignment explanation
Indices: 20554284--20554321 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
20554274 AAAAAAATCG
* *
20554284 AAAAT AAAAT -AAAT AAAAT AAAAT AAAAC AAGAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
20554322 AACGGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:20554301 original size:14 final size:14
Alignment explanation
Indices: 20554284--20554310 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20554274 AAAAAAATCG
20554284 AAAATAAAATAAAT
1 AAAATAAAATAAAT
20554298 AAAATAAAATAAA
1 AAAATAAAATAAA
20554311 ACAAGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:20556587 original size:25 final size:25
Alignment explanation
Indices: 20556551--20556598 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
20556541 TAAATGCGAA
20556551 AGGCAAAATGTGTTCAACTGGTTGT
1 AGGCAAAATGTGTTCAACTGGTTGT
* * *
20556576 AGGCAAAGTGTGTTTAATTGGTT
1 AGGCAAAATGTGTTCAACTGGTT
20556599 ATAGCCATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (25 bp):
AGGCAAAATGTGTTCAACTGGTTGT
Found at i:20556673 original size:13 final size:13
Alignment explanation
Indices: 20556655--20556699 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
20556645 CTAGATTTTT
20556655 TTAAATATTATCA
1 TTAAATATTATCA
*
20556668 TTAAATAAT-TCA
1 TTAAATATTATCA
20556680 --AAATATTATCA
1 TTAAATATTATCA
20556691 TTAAATATT
1 TTAAATATT
20556700 TCAAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
12 3 0.11
13 15 0.56
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAATATTATCA
Found at i:20556687 original size:23 final size:23
Alignment explanation
Indices: 20556657--20556706 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
20556647 AGATTTTTTT
20556657 AAATATTATCATTAAATAATTCA
1 AAATATTATCATTAAATAATTCA
*
20556680 AAATATTATCATTAAATATTTCA
1 AAATATTATCATTAAATAATTCA
20556703 AAAT
1 AAAT
20556707 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTATCATTAAATAATTCA
Found at i:20569100 original size:21 final size:21
Alignment explanation
Indices: 20569076--20569115 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20569066 TCCTAAGATG
*
20569076 TGAATTGGATTAAATTGAGTA
1 TGAATTAGATTAAATTGAGTA
*
20569097 TGAATTATATTAAATTGAG
1 TGAATTAGATTAAATTGAG
20569116 CTAAATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
TGAATTAGATTAAATTGAGTA
Found at i:20569708 original size:74 final size:75
Alignment explanation
Indices: 20569577--20569750 Score: 171
Period size: 74 Copynumber: 2.4 Consensus size: 75
20569567 AGTGTCCGTC
* * * * * * *
20569577 ATATGGCTCTTTGTGAGCTTCCCGATTAAAGGCTCTTTGTGAGCTTCCTGATATGGCTTGCTTGA
1 ATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTCGTGAGCTACCCGATATGGCTCGCATGA
20569642 ACTTCCCAAT
66 ACTTCCCAAT
* *
20569652 ATATGGCTATTCG-GAGTTTCCCGATTAATA-GCTCTTCG-GAGCTACCCGTTATTGGCTCGCAT
1 ATATGGCTATTCGTGAGCTTCCCGATTAA-AGGCTCTTCGTGAGCTACCCGATA-TGGCTCGCAT
* *
20569714 GAGCTTCCTAAT
64 GAACTTCCCAAT
* *
20569726 -TATGGCTCTT-ATGAGCTTCCC-ATTA
1 ATATGGCTATTCGTGAGCTTCCCGATTA
20569751 TACAGCCCCG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
72 4 0.05
73 27 0.33
74 39 0.48
75 12 0.15
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (75 bp):
ATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTCGTGAGCTACCCGATATGGCTCGCATGA
ACTTCCCAAT
Found at i:20574595 original size:15 final size:15
Alignment explanation
Indices: 20574575--20574603 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20574565 GTGAAATAAA
20574575 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
20574590 CTGAAATAATAAAA
1 CTGAAATAATAAAA
20574604 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:20575297 original size:107 final size:107
Alignment explanation
Indices: 20575111--20575327 Score: 434
Period size: 107 Copynumber: 2.0 Consensus size: 107
20575101 CCAGCCACAG
20575111 ACACATGTAGAAACCTATGATATCATGTAAAGTTACTAAAATATTTGTGCAAACCTTTTTTTTAA
1 ACACATGTAGAAACCTATGATATCATGTAAAGTTACTAAAATATTTGTGCAAACCTTTTTTTTAA
20575176 GTCTCAGAAAACATGAGGGCATCATCCACTTCATAATATAGA
66 GTCTCAGAAAACATGAGGGCATCATCCACTTCATAATATAGA
20575218 ACACATGTAGAAACCTATGATATCATGTAAAGTTACTAAAATATTTGTGCAAACCTTTTTTTTAA
1 ACACATGTAGAAACCTATGATATCATGTAAAGTTACTAAAATATTTGTGCAAACCTTTTTTTTAA
20575283 GTCTCAGAAAACATGAGGGCATCATCCACTTCATAATATAGA
66 GTCTCAGAAAACATGAGGGCATCATCCACTTCATAATATAGA
20575325 ACA
1 ACA
20575328 GGGGGCCTTT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 110 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (107 bp):
ACACATGTAGAAACCTATGATATCATGTAAAGTTACTAAAATATTTGTGCAAACCTTTTTTTTAA
GTCTCAGAAAACATGAGGGCATCATCCACTTCATAATATAGA
Found at i:20576205 original size:22 final size:18
Alignment explanation
Indices: 20576161--20576202 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
20576151 AATTTTAGGT
20576161 CAATTATACATACACCAA
1 CAATTATACATACACCAA
20576179 CAATTATACATACACCAA
1 CAATTATACATACACCAA
20576197 CAATTA
1 CAATTA
20576203 ATTTTAGGGT
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:20576229 original size:51 final size:51
Alignment explanation
Indices: 20576135--20576235 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
20576125 CTTGAAGTAC
* * * * *
20576135 ACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAT
1 ACATACACCAACAATTAATTTTAGGTCAAATAAAAATAAACCAACAATTAT
*
20576186 ACATACACCAACAATTAATTTTAGGGT-AAATAAAAATAAACCAAGAATTA
1 ACATACACCAACAATTAATTTTA-GGTCAAATAAAAATAAACCAACAATTA
20576236 ATTTTAGGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (51 bp):
ACATACACCAACAATTAATTTTAGGTCAAATAAAAATAAACCAACAATTAT
Found at i:20576281 original size:33 final size:33
Alignment explanation
Indices: 20576179--20576288 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
20576169 CATACACCAA
20576179 CAATTATACATACACCAACAATTAATTTTAGGGT
1 CAATTATACATACACCAACAATTAATTTTA-GGT
* * * * *
20576213 -AAATAAAAATAAACCAAGAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
20576245 CAATTATACATACACCAACAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
20576278 CAATTATACAT
1 CAATTATACAT
20576289 GCTTTATAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 3 0.05
33 62 0.95
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
CAATTATACATACACCAACAATTAATTTTAGGT
Found at i:20579514 original size:120 final size:120
Alignment explanation
Indices: 20579317--20580298 Score: 1867
Period size: 120 Copynumber: 8.2 Consensus size: 120
20579307 TTTTCAAGTT
*
20579317 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20579382 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
20579437 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20579502 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
20579557 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20579622 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
20579677 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
20579742 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
20579797 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
20579862 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTCAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
20579917 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
20579982 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
20580037 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
**
20580102 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATTTTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
20580157 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20580222 TAATATAAGAATATTAATTATTAAGAA-TTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
20580276 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
20580299 TAAATATGAT
Statistics
Matches: 847, Mismatches: 15, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
119 48 0.06
120 799 0.94
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:20580149 original size:17 final size:18
Alignment explanation
Indices: 20580129--20580164 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20580119 TTATTAAGAA
*
20580129 TTTT-ATTAAATTATATT
1 TTTTAATTAAAATATATT
20580146 TTTTAATTAAAATATATT
1 TTTTAATTAAAATATATT
20580164 T
1 T
20580165 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAATTAAAATATATT
Found at i:20580511 original size:44 final size:45
Alignment explanation
Indices: 20580446--20580536 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
20580436 ACCTCTATTC
* * *
20580446 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
20580490 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
20580535 CA
1 CA
20580537 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:20580551 original size:17 final size:16
Alignment explanation
Indices: 20580517--20580585 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
20580507 GATTAGCTAT
20580517 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20580533 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
20580550 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
20580566 TACGCCTCTAATCTAA
1 TACACCTCTAATCCAA
20580582 TACA
1 TACA
20580586 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20582187 original size:3 final size:3
Alignment explanation
Indices: 20582179--20582208 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
20582169 TATAGCTACC
*
20582179 AGA AGA AGA AGA AGA AGA AGA AGA TGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
20582209 TGTAAGCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:20584380 original size:23 final size:22
Alignment explanation
Indices: 20584349--20584407 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
20584339 TATCCAAACA
20584349 ATAACAACAAAATAGTAAGCAAC
1 ATAACAACAAAATAGT-AGCAAC
* * *
20584372 ATAATAACAAAATGGTAGCAAA
1 ATAACAACAAAATAGTAGCAAC
* *
20584394 ACAACAGCAAAATA
1 ATAACAACAAAATA
20584408 ACTAATTCAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.14
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:20588701 original size:33 final size:34
Alignment explanation
Indices: 20588648--20588711 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
20588638 TTTATTATTG
* *
20588648 TATTATTATTAAATATTATAAGTATTATTATCAT
1 TATTATTAATAAATAATATAAGTATTATTATCAT
20588682 TATTATTAATAAA-AATATAAGTATTATTAT
1 TATTATTAATAAATAATATAAGTATTATTAT
20588712 TCAACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (34 bp):
TATTATTAATAAATAATATAAGTATTATTATCAT
Found at i:20591247 original size:109 final size:109
Alignment explanation
Indices: 20591106--20591321 Score: 432
Period size: 109 Copynumber: 2.0 Consensus size: 109
20591096 CTTTTGCCGT
20591106 GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
1 GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
20591171 GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAACG
66 GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAACG
20591215 GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
1 GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
20591280 GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAA
66 GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAA
20591322 TTTTTTTTCA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 107 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (109 bp):
GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAACG
Found at i:20591386 original size:48 final size:48
Alignment explanation
Indices: 20591315--20591412 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
20591305 GTCAAATGAA
*
20591315 CCAACAATTTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
1 CCAACAAATTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
20591363 CCAACAAATTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
1 CCAACAAATTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
20591411 CC
1 CC
20591413 TCTATATGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.23, C:0.29, G:0.08, T:0.40
Consensus pattern (48 bp):
CCAACAAATTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
Found at i:20592306 original size:20 final size:19
Alignment explanation
Indices: 20592269--20592314 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
20592259 AAATGTACTA
*
20592269 ATTAA-TTTTTTGGGCCAC
1 ATTAATTTTTTTGGACCAC
20592287 ATTAATTTTCTTTGGACCAC
1 ATTAATTTT-TTTGGACCAC
20592307 ATTAATTT
1 ATTAATTT
20592315 AAGATCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.20
19 3 0.12
20 17 0.68
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (19 bp):
ATTAATTTTTTTGGACCAC
Found at i:20593163 original size:24 final size:26
Alignment explanation
Indices: 20593115--20593164 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
20593105 ACATTATTTT
20593115 AATGTAATAGAATAATAATGTATAAAA
1 AATGTAATAGAATAAT-ATGTATAAAA
*
20593142 AATGTGATAGAATAAT-TG-ATAAA
1 AATGTAATAGAATAATATGTATAAA
20593165 TTTATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
27 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (26 bp):
AATGTAATAGAATAATATGTATAAAA
Found at i:20599929 original size:69 final size:69
Alignment explanation
Indices: 20599504--20600117 Score: 421
Period size: 69 Copynumber: 8.9 Consensus size: 69
20599494 AATTATTGTT
* ** * * *
20599504 TGTAAAATCAAGGTTCGAAGGTGAAGAGCTGCAACCTCTAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACTCC
**
20599569 TAAA
66 TAGC
* * * * * *
20599573 TATAAAATCAAGGTTTGCT-GG-AGAAGAGCCACGACCTTTAACACAGTTAGCGAGAGTAAAGCT
1 TGTAAAATCAAGGTTCG-TAGGCA-AAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACT
20599636 CCTAGC
64 CCTAGC
* * * * * **
20599642 TGTAAAATCAAGGCTCGTAGGCGAAGAGCCGCAACCTCTAACACAATTAGCGA-ATGTAAAGGTC
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGA-GCAAAACTC
20599706 CTAG-
65 CTAGC
* * * * *
20599710 TGTTAGAATCAAGGTTCGTAGGCGAAGAGTCGCGAACTCTAACATAGTTAGCGAGAGCAAAACTC
1 TG-TAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACTC
* *
20599775 CCAGT
65 CTAGC
* * * * * *
20599780 TGTAAAGTCAAGGTTCGTAGGCAAAGAGTCGTGACCTCTAACATAGTTAGCTAGAGCAAATA-TT
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAA-ACTC
*
20599844 CTAGT
65 CTAGC
* * * * * * *
20599849 TGTAAAATCAAAGTTCGCAAGCAAAGAGTCACGACCTCTAACACAGTTAGTGAGAGCAAAACACC
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACTCC
20599914 TAGC
66 TAGC
* * * * * * * * *
20599918 TATAAAATCAAAGTTC-AACAGCGAAGAGCCGCGACCACTAA-AGCAATTAACGAGAGCAAAACA
1 TGTAAAATCAAGGTTCGTA-GGCAAAGAGCCGCGACCTCTAACA-CAGTTAGCGAGAGCAAAACT
*
20599981 CTTAGC
64 CCTAGC
* * ** * * * * *
20599987 TGTAAAATTAAAGTTTATAGGCAAAGAGCCACAACCAC-AA-AGCAGTTAGCGAGAGTAAAGCTT
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACA-CAGTTAGCGAGAGCAAAAC-T
*
20600050 CC-AGT
64 CCTAGC
* * * *
20600055 TGTAAAATCAAAGTTCGCAAGTG-AAA-AACCACGATCCTC--A-ACAGTTAGCGAGAGCAAAAC
1 TGTAAAATCAAGGTTCG-TAG-GCAAAGAGCCGCGA-CCTCTAACACAGTTAGCGAGAGCAAAAC
20600115 TCC
63 TCC
20600118 CATCTGTAGA
Statistics
Matches: 443, Mismatches: 85, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
66 3 0.01
67 17 0.04
68 50 0.11
69 367 0.83
70 6 0.01
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (69 bp):
TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACTCC
TAGC
Found at i:20601553 original size:31 final size:31
Alignment explanation
Indices: 20601460--20601555 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
20601450 GGCAAATTAC
* *
20601460 AAGAGTAAGTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
20601491 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
20601523 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
20601554 AA
1 AA
20601556 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:20607147 original size:46 final size:46
Alignment explanation
Indices: 20607078--20607200 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
20607068 AGGTAGGCAA
* *
20607078 CTTTTTTTTGCGCTGTTTGCTTTTTTTTTTAAGATTTTTCTCAACT
1 CTTTTTTTTGCGCTATTTGCTTTTTTTTTTAAGATTTTTCTCAAAT
*
20607124 CTTTTTTTTGCGCTATTTCCTTTTTTTTTT-AGATTTTTCTCAAAT
1 CTTTTTTTTGCGCTATTTGCTTTTTTTTTTAAGATTTTTCTCAAAT
*
20607169 -TTTTTTTTGCGCTTTTTGCTTTTTTTTATTAA
1 CTTTTTTTTGCGCTATTTGCTTTTTTTT-TTAA
20607201 CTAATTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 25 0.36
45 16 0.23
46 29 0.41
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (46 bp):
CTTTTTTTTGCGCTATTTGCTTTTTTTTTTAAGATTTTTCTCAAAT
Found at i:20607148 original size:45 final size:45
Alignment explanation
Indices: 20607078--20607195 Score: 166
Period size: 44 Copynumber: 2.6 Consensus size: 45
20607068 AGGTAGGCAA
* * *
20607078 CTTTTTTTTGCGCTGTTTGCTTTTTTTTTTAAGATTTTTCTCAACT
1 CTTTTTTTTGCGCTATTT-CCTTTTTTTTTAAGATTTTTCTCAAAT
*
20607124 CTTTTTTTTGCGCTATTTCCTTTTTTTTTTAGATTTTTCTCAAAT
1 CTTTTTTTTGCGCTATTTCCTTTTTTTTTAAGATTTTTCTCAAAT
* *
20607169 -TTTTTTTTGCGCTTTTTGCTTTTTTTT
1 CTTTTTTTTGCGCTATTTCCTTTTTTTT
20607196 ATTAACTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 25 0.38
45 24 0.36
46 17 0.26
ACGTcount: A:0.09, C:0.14, G:0.09, T:0.67
Consensus pattern (45 bp):
CTTTTTTTTGCGCTATTTCCTTTTTTTTTAAGATTTTTCTCAAAT
Found at i:20607808 original size:31 final size:31
Alignment explanation
Indices: 20607715--20607810 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
20607705 GGCAAATTAC
* *
20607715 AAGAGTAATTGAATCATAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
20607746 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
20607778 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
20607809 AA
1 AA
20607811 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:20610884 original size:2 final size:2
Alignment explanation
Indices: 20610873--20610902 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
20610863 AAATAAAAAC
20610873 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
20610903 TTATCTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:20613841 original size:16 final size:17
Alignment explanation
Indices: 20613820--20613860 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
20613810 TCCAAAGTAC
*
20613820 AATTTTATCA-TTAATT
1 AATTTTATAATTTAATT
20613836 AATTTT-TAATTTAATT
1 AATTTTATAATTTAATT
20613852 -ATTTTATAA
1 AATTTTATAA
20613861 AGACTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTATAATTTAATT
Found at i:20616204 original size:15 final size:16
Alignment explanation
Indices: 20616167--20616204 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
20616157 TGGATACCTA
*
20616167 AAAAAAATATAAATTT
1 AAAAAAATATAAACTT
*
20616183 TAAAAAAT-TAAACTT
1 AAAAAAATATAAACTT
20616198 AAAAAAA
1 AAAAAAA
20616205 CCCAAACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAATATAAACTT
Found at i:20621766 original size:56 final size:56
Alignment explanation
Indices: 20621680--20621801 Score: 192
Period size: 56 Copynumber: 2.2 Consensus size: 56
20621670 TAAAAACTAT
* * *
20621680 GTAAAATTATTAAGCCCAATAACTTTTGTTAATGGTTAGTAA-ATTTATCAAATTAA
1 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGA-TTATCAAATTAA
*
20621736 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAG
1 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAA
20621792 GTAAAATTAT
1 GTAAAATTAT
20621802 GTTATGGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (56 bp):
GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAA
Found at i:20621821 original size:23 final size:23
Alignment explanation
Indices: 20621795--20621988 Score: 145
Period size: 23 Copynumber: 7.7 Consensus size: 23
20621785 AAATTAGGTA
* *
20621795 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
* *
20621818 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
20621841 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
*
20621864 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 -AA--A--TTA-GGTTAGGGTTTTTAAAT
*
20621893 AAATTAGGTAGGTTAGGGTTTTTAATT
1 AAA-T---TAGGTTAGGGTTTTTAAAT
*
20621920 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 -AA--A--TT-AGGTTAGGGTTTTTAAAT
* *
20621949 AAATTAGGGTTAGGGTTGTTAATT
1 AAATTA-GGTTAGGGTTTTTAAAT
20621973 AAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
20621989 AAGGTTTTTA
Statistics
Matches: 150, Mismatches: 6, Indels: 30
0.81 0.03 0.16
Matches are distributed among these distances:
23 54 0.36
24 26 0.17
25 1 0.01
26 3 0.02
27 17 0.11
28 12 0.08
29 35 0.23
30 1 0.01
31 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:20621881 original size:29 final size:29
Alignment explanation
Indices: 20621847--20622158 Score: 334
Period size: 29 Copynumber: 10.6 Consensus size: 29
20621837 AAATAAATTA
20621847 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
20621876 GGTTAGGGTTTTTAATTAAATTAGG-TA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
20621903 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
20621932 GGTTAGGGTTTTTAATT-AA--A--TTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
20621956 GGTTAGGGTTGTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
20621985 GGTTAAGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * **
20622014 GGTTA-GGTTAGGGTTAGGGTTTTTAATTAAATTATG
1 GGTTAGGGTT---TTTA----ATTAAATTAGGTTA-G
** *
20622050 GTAGGGTTAGGGTTTTTAATTAAATTAGGTTAA
1 G--GTT--AGGGTTTTTAATTAAATTAGGTTAG
*
20622083 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
20622112 TGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
20622141 GGTTAGGGTTTTTAATTA
1 GGTTAGGGTTTTTAATTA
20622159 CGATTTTTAT
Statistics
Matches: 242, Mismatches: 21, Indels: 40
0.80 0.07 0.13
Matches are distributed among these distances:
24 19 0.08
25 2 0.01
26 1 0.00
27 26 0.11
28 10 0.04
29 148 0.61
31 4 0.02
33 1 0.00
34 10 0.04
35 10 0.04
36 2 0.01
38 4 0.02
40 1 0.00
41 4 0.02
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:20622011 original size:23 final size:23
Alignment explanation
Indices: 20621795--20622144 Score: 183
Period size: 29 Copynumber: 13.7 Consensus size: 23
20621785 AAATTAGGTA
* * *
20621795 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAATT
* * *
20621818 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAATT
20621841 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
20621864 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 -AA--A--TTA-GGTTAGGGTTTTTAATT
20621893 AAATTAGGTAGGTTAGGGTTTTTAATT
1 AAA-T---TAGGTTAGGGTTTTTAATT
20621920 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 -AA--A--TT-AGGTTAGGGTTTTTAATT
*
20621949 AAATTAGGGTTAGGGTTGTTAATT
1 AAATTA-GGTTAGGGTTTTTAATT
20621973 AAATTAGGTTAGGGTTAAGGTTTTTAATT
1 AAATTAGGTTA--G----GGTTTTTAATT
*
20622002 AAATTAGGTTAGGG---TTAGGTT
1 AAATTAGGTTAGGGTTTTTA-ATT
*
20622023 --A--GGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
20622042 AAATTATGGTAGGGTTAGGGTTTTTAATT
1 -AA--AT--TA-GGTTAGGGTTTTTAATT
20622071 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 -AA--A--TT-AGGTTAGGGTTTTTAATT
20622100 AAATTAGGTTAATGTTAGGGTTTTTAATT
1 AAATTA-G-----GTTAGGGTTTTTAATT
*
20622129 AAATTAGGTTAAGGTT
1 AAATTAGGTTAGGGTT
20622145 AGGGTTTTTA
Statistics
Matches: 271, Mismatches: 12, Indels: 88
0.73 0.03 0.24
Matches are distributed among these distances:
17 8 0.03
19 3 0.01
20 6 0.02
21 2 0.01
23 60 0.22
24 30 0.11
25 2 0.01
26 4 0.01
27 18 0.07
28 15 0.06
29 119 0.44
30 2 0.01
31 2 0.01
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAATT
Found at i:20622014 original size:58 final size:58
Alignment explanation
Indices: 20621846--20622158 Score: 417
Period size: 58 Copynumber: 5.3 Consensus size: 58
20621836 TAAATAAATT
20621846 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG-T-
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
*
20621902 AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTA-G---
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
20621956 -GGTTAGGGTTGTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AA--A--TTA-GGTTA
20622019 GGTTAGGGTTAGGGTTTTTAATTAAATTATGG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTA
1 ----A-GGTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
**
20622082 AGGTTAGGGTTTTTAATTAAATTAGGTTAATGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
20622140 AGGTTAGGGTTTTTAATTA
1 AGGTTAGGGTTTTTAATTA
20622159 CGATTTTTAT
Statistics
Matches: 231, Mismatches: 8, Indels: 34
0.85 0.03 0.12
Matches are distributed among these distances:
53 43 0.19
54 2 0.01
55 1 0.00
56 53 0.23
57 2 0.01
58 74 0.32
59 1 0.00
60 1 0.00
63 5 0.02
64 3 0.01
66 1 0.00
68 2 0.01
69 41 0.18
70 2 0.01
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (58 bp):
AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:20622020 original size:40 final size:40
Alignment explanation
Indices: 20621976--20622060 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
20621966 GTTAATTAAA
20621976 TTAGGTTAGGGTTAAGGTTTTTAATTAAATTA-GGTTAGGG
1 TTAGGTTAGGGTTAAGGTTTTTAATTAAATTATGG-TAGGG
*
20622016 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGGTAGGG
1 TTAGGTTAGGGTTAAGGTTTTTAATTAAATTATGGTAGGG
20622056 TTAGG
1 TTAGG
20622061 GTTTTTAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 41 0.95
41 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (40 bp):
TTAGGTTAGGGTTAAGGTTTTTAATTAAATTATGGTAGGG
Found at i:20622021 original size:11 final size:11
Alignment explanation
Indices: 20622005--20622031 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
20621995 TTTAATTAAA
20622005 TTAGGTTAGGG
1 TTAGGTTAGGG
20622016 TTAGGTTAGGG
1 TTAGGTTAGGG
20622027 TTAGG
1 TTAGG
20622032 GTTTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (11 bp):
TTAGGTTAGGG
Found at i:20622030 original size:69 final size:67
Alignment explanation
Indices: 20621952--20622147 Score: 250
Period size: 69 Copynumber: 3.0 Consensus size: 67
20621942 TTTAATTAAA
*
20621952 TTAGGGTTAGGGTTGTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTAGGGTT-TTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGT
20622017 TAGG
64 TAGG
20622021 TTAGGGTTAGGGTTTTTAATTAAATTATGG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTA---
1 TTAGGGTTAGGG-TTTTAATTAAATTA-GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGT
20622082 -AGG
64 TAGG
**
20622085 TTAGGG-T----TTTTAATTAAATTAGGTTAATGTTAGGGTTTTTAATTAAATTAGGTTAAGGTT
1 TTAGGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGTT
20622145 AGG
65 AGG
20622148 GTTTTTAATT
Statistics
Matches: 116, Mismatches: 3, Indels: 22
0.82 0.02 0.16
Matches are distributed among these distances:
57 2 0.02
58 42 0.36
59 1 0.01
63 4 0.03
64 9 0.08
69 54 0.47
70 4 0.03
ACGTcount: A:0.29, C:0.00, G:0.28, T:0.44
Consensus pattern (67 bp):
TTAGGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
GG
Found at i:20622069 original size:98 final size:93
Alignment explanation
Indices: 20621923--20622110 Score: 295
Period size: 98 Copynumber: 2.0 Consensus size: 93
20621913 TTTAATTAAA
*
20621923 TTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTGTTAATTAAATTAGGTTAGGGT
1 TTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTGTTAATTAAATTAGGTTAAGGT
20621988 TAAGGTTTTTAATTAAATTAGGTTAGGG
66 TAAGGTTTTTAATTAAATTAGGTTAGGG
* *
20622016 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGGTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 TTAGGTTAAGGTTAGGGTTTTTAATT-AA--AT--TAGGGTTAGGGTTGTTAATTAAATTAGGTT
*
20622081 AAGGTTAGGGTTTTTAATTAAATTAGGTTA
61 AAGGTTAAGGTTTTTAATTAAATTAGGTTA
20622111 ATGTTAGGGT
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
93 25 0.29
94 2 0.02
96 2 0.02
98 57 0.66
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (93 bp):
TTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTGTTAATTAAATTAGGTTAAGGT
TAAGGTTTTTAATTAAATTAGGTTAGGG
Found at i:20624528 original size:28 final size:29
Alignment explanation
Indices: 20624479--20624535 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
20624469 TGAAAATATA
20624479 AAAAAAATTTAAAATTATTTTAAAAAAAT
1 AAAAAAATTTAAAATTATTTTAAAAAAAT
*
20624508 AAAAAAATTTGAAATTA-TTTAAAAAAAT
1 AAAAAAATTTAAAATTATTTTAAAAAAAT
20624536 GAAATTGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAAAAATTTAAAATTATTTTAAAAAAAT
Found at i:20624594 original size:22 final size:22
Alignment explanation
Indices: 20624569--20624618 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
20624559 TAATATAGAT
* *
20624569 TTGA-AAGATTTTTGGAATGAAA
1 TTGAGAAGA-TTTTGAAAGGAAA
*
20624591 TTGAGAGGATTTTGAAAGGAAA
1 TTGAGAAGATTTTGAAAGGAAA
20624613 TTGAGA
1 TTGAGA
20624619 GTTTAAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
TTGAGAAGATTTTGAAAGGAAA
Done.