Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 117 of 770
Found at i:33541331 original size:27 final size:27
Alignment explanation
Indices: 33541283--33541335 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
33541273 CATTCTACCA
* *
33541283 TACAGGGGTATTACGGTCATTTTACAG
1 TACAAGGGTATTACAGTCATTTTACAG
* *
33541310 TACAAGGGTATTTCAGTGATTTTACA
1 TACAAGGGTATTACAGTCATTTTACA
33541336 AACTGGGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACAGTCATTTTACAG
Found at i:33557006 original size:16 final size:16
Alignment explanation
Indices: 33556987--33557044 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
33556977 TAATAAGATT
33556987 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
33557003 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
* *
33557018 TAAATATTATATTAATT
1 T-AATATTAAATTAATA
33557035 TAATATTAAA
1 TAATATTAAA
33557045 GTGATTAAGT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
15 6 0.18
16 21 0.64
17 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:33565770 original size:25 final size:24
Alignment explanation
Indices: 33565742--33565896 Score: 89
Period size: 25 Copynumber: 6.2 Consensus size: 24
33565732 AGAGCCAATG
33565742 TGGCATATTATCTAGAAAGCCTTTA
1 TGGCATATTATCT-GAAAGCCTTTA
* * *
33565767 TGGCGA-GTTATCTGAAAAGCCTATG
1 TGGC-ATATTATCTG-AAAGCCTTTA
* *
33565792 TGACATATTATCTAGAAAGGCTTTA
1 TGGCATATTATCT-GAAAGCCTTTA
* **
33565817 TGACA-AGTTATCTGAAAAACTTATA
1 TGGCATA-TTATCTGAAAGCCTT-TA
* ** *
33565842 TGGCATATTATTTAGAAAGGCCCATG
1 TGGCATATTATCT-GAAA-GCCTTTA
* *
33565868 TGACATATTATCTGAAATGCCTTTG
1 TGGCATATTATCTGAAA-GCCTTTA
33565893 TGGC
1 TGGC
33565897 GAGTTATCTA
Statistics
Matches: 98, Mismatches: 23, Indels: 18
0.71 0.17 0.13
Matches are distributed among these distances:
24 10 0.10
25 68 0.69
26 19 0.19
27 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (24 bp):
TGGCATATTATCTGAAAGCCTTTA
Found at i:33565816 original size:50 final size:50
Alignment explanation
Indices: 33565734--33565862 Score: 177
Period size: 50 Copynumber: 2.6 Consensus size: 50
33565724 AACTAAACAG
* * * *
33565734 AGCCAATGTGGCATATTATCTAGAAAGCCTTTATGGCGAGTTATCTGAAA
1 AGCCTATGTGGCATATTATCTAGAAAGGCTTTATGACAAGTTATCTGAAA
*
33565784 AGCCTATGTGACATATTATCTAGAAAGGCTTTATGACAAGTTATCTGAAA
1 AGCCTATGTGGCATATTATCTAGAAAGGCTTTATGACAAGTTATCTGAAA
* * * *
33565834 AACTTATATGGCATATTATTTAGAAAGGC
1 AGCCTATGTGGCATATTATCTAGAAAGGC
33565863 CCATGTGACA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (50 bp):
AGCCTATGTGGCATATTATCTAGAAAGGCTTTATGACAAGTTATCTGAAA
Found at i:33565922 original size:76 final size:76
Alignment explanation
Indices: 33565780--33565936 Score: 174
Period size: 76 Copynumber: 2.1 Consensus size: 76
33565770 CGAGTTATCT
* * * *
33565780 GAAAAGCCTATGTGACATATTATCTAGAAAGGCTTTATGACAAGTTATCTGAAAAACTTATATGG
1 GAAAGGCCCATGTGACATATTATCTAGAAAGCCTTTATGACAAGTTATCTGAAAAACCTATATGG
*
33565845 CATATTATTTA
66 CATATTATTAA
* * * * * *
33565856 GAAAGGCCCATGTGACATATTATCT-GAAATGCCTTTGTGGCGAGTTATCT-AAAAGGCCTCTGT
1 GAAAGGCCCATGTGACATATTATCTAGAAA-GCCTTTATGACAAGTTATCTGAAAA-ACCTATAT
*
33565919 GGCATGTTATTAA
64 GGCATATTATTAA
33565932 GAAAG
1 GAAAG
33565937 TCTTTGTGGG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
75 8 0.12
76 59 0.88
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (76 bp):
GAAAGGCCCATGTGACATATTATCTAGAAAGCCTTTATGACAAGTTATCTGAAAAACCTATATGG
CATATTATTAA
Found at i:33565927 original size:25 final size:25
Alignment explanation
Indices: 33565740--33565928 Score: 70
Period size: 25 Copynumber: 7.5 Consensus size: 25
33565730 ACAGAGCCAA
*
33565740 TGTGGCATATTATCTAGAAA-GCCTT
1 TGTGGCATATTATCTA-AAAGGCCTC
* * *
33565765 TATGGCGA-GTTATCTGAAAA-GCCTA
1 TGTGGC-ATATTATCT-AAAAGGCCTC
* *
33565790 TGTGACATATTATCTAGAAAGG-CTT
1 TGTGGCATATTATCTA-AAAGGCCTC
* * * * *
33565815 TATGACA-AGTTATCTGAAAA-ACTTA
1 TGTGGCATA-TTATCT-AAAAGGCCTC
* *
33565840 TATGGCATATTATTTAGAAAGGCC-C
1 TGTGGCATATTATCTA-AAAGGCCTC
* * * *
33565865 ATGTGACATATTATCTGAAATGCCTT
1 -TGTGGCATATTATCTAAAAGGCCTC
*
33565891 TGTGGCGA-GTTATCTAAAAGGCCTC
1 TGTGGC-ATATTATCTAAAAGGCCTC
*
33565916 TGTGGCATGTTAT
1 TGTGGCATATTAT
33565929 TAAGAAAGTC
Statistics
Matches: 122, Mismatches: 27, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
24 5 0.04
25 98 0.80
26 19 0.16
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (25 bp):
TGTGGCATATTATCTAAAAGGCCTC
Found at i:33569599 original size:29 final size:28
Alignment explanation
Indices: 33569567--33569669 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
33569557 GGGACGAGAT
* *
33569567 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
33569596 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
33569625 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
33569654 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33569670 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:33572644 original size:20 final size:20
Alignment explanation
Indices: 33572615--33572659 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33572605 AGCACATGTA
* *
33572615 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAAAACTT
*
33572635 TTCATCAAATTTTAAAACTT
1 TTCATAAAATTTTAAAACTT
33572655 TTCAT
1 TTCAT
33572660 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAAAACTT
Found at i:33580118 original size:31 final size:31
Alignment explanation
Indices: 33580083--33580145 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
33580073 CATTTTTCAT
*
33580083 ACCTTGATAAATTTTGAAATTAATCCCTCAA
1 ACCTTGATAAATTTTCAAATTAATCCCTCAA
*
33580114 ACCTTGATAACTTTTCAAATTAATCCCTCAA
1 ACCTTGATAAATTTTCAAATTAATCCCTCAA
33580145 A
1 A
33580146 TAGAAAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (31 bp):
ACCTTGATAAATTTTCAAATTAATCCCTCAA
Found at i:33584048 original size:44 final size:44
Alignment explanation
Indices: 33583974--33584092 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 44
33583964 ATGCCAATGC
33583974 CATGTCCTAGACATGGTCTTACACTAGCTT-ATCTCGTA-GCCGATG
1 CATGTCC-AGACAT-GTCTTACACTAGCTTAATCTCG-AGGCCGATG
*
33584019 CATGTCTCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTC-CAGACATGTCTTACACTAGCTTA-ATCTCGAGGCCGATG
33584065 CATGTCCCAGACATGTCTTACACTAGCT
1 CATGT-CCAGACATGTCTTACACTAGCT
33584093 CACAATAACC
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
44 14 0.21
45 13 0.19
46 39 0.58
47 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (44 bp):
CATGTCCAGACATGTCTTACACTAGCTTAATCTCGAGGCCGATG
Found at i:33592344 original size:39 final size:40
Alignment explanation
Indices: 33592280--33592377 Score: 103
Period size: 39 Copynumber: 2.5 Consensus size: 40
33592270 GATTCACTTT
* *
33592280 CAAGCATATATCATACA-AC-CTATATAATCACCTAACATA
1 CAAGCATATATCACA-ATACTCTATATAATCACATAACATA
* *
33592319 CAAGCATATATCACAATACTC-ATATAATCACATAACCTT
1 CAAGCATATATCACAATACTCTATATAATCACATAACATA
* * *
33592358 TAAGAATATGTCACAATACT
1 CAAGCATATATCACAATACT
33592378 TGAAAACATC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.02
39 48 0.96
40 1 0.02
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (40 bp):
CAAGCATATATCACAATACTCTATATAATCACATAACATA
Found at i:33597167 original size:55 final size:54
Alignment explanation
Indices: 33597038--33597220 Score: 201
Period size: 55 Copynumber: 3.4 Consensus size: 54
33597028 TTACGATTTT
* * * * *
33597038 CATGTCTTGACATGGTCTTACATG-GTACCCTTGCCTTAT-GAACTCACCATTGC
1 CATGCCTTGACATGGTCTTACATGAG-ATCCTTGCCTTATAGAACTTATCAATGC
* * *
33597091 CATGCCTTGGCATGGTCTTACATGAGATCTTTGCCTTATAGTAATTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGAGATCCTTGCCTTATAG-AACTTATCAATGC
* ** *
33597146 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACTT-TCGAATGC
1 CATGCCTTGACATGGTCTTACATGAGATCCTTGCCTTATAGAACTTATC-AATGC
*
33597200 CATGCCTTGGCATGGTCTTAC
1 CATGCCTTGACATGGTCTTAC
33597221 TTGGTATCCT
Statistics
Matches: 109, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
53 35 0.32
54 30 0.28
55 44 0.40
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGAGATCCTTGCCTTATAGAACTTATCAATGC
Found at i:33610881 original size:17 final size:17
Alignment explanation
Indices: 33610859--33610892 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33610849 GATTTATGCT
33610859 CTGGAAAGTTGTCACAA
1 CTGGAAAGTTGTCACAA
33610876 CTGGAAAGTTGTCACAA
1 CTGGAAAGTTGTCACAA
33610893 ACTCTGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (17 bp):
CTGGAAAGTTGTCACAA
Found at i:33613922 original size:82 final size:83
Alignment explanation
Indices: 33613817--33614015 Score: 258
Period size: 82 Copynumber: 2.4 Consensus size: 83
33613807 TAAACCTGGG
* *
33613817 AAAAAGATTTATAGTTTAGGTACCATTTTGTGGTATAATTTAGGTATCACTTGTCC-AAAAAAAA
1 AAAAAGA--TATAGTTTAGGTACCATTTTGTGGTATAATTTAGGTATCACTCGACCAAAAAAAAA
*
33613881 AGTTGAAATACCAACTTGAA
64 AGTTGAAATACAAACTTGAA
* *
33613901 AAAAAGATATAGTTTAGGTACCATTTTGTGGTATAGTTTAGGTATCAGTCGACCAAAAAAAAAAA
1 AAAAAGATATAGTTTAGGTACCATTTTGTGGTATAATTTAGGTATCACTCGACC-AAAAAAAAAA
* *
33613966 GTTTAAATAGAAACTTGAA
65 GTTGAAATACAAACTTGAA
* * * *
33613985 AAAAA-AAATAGTTGAAGTACCATTTTATGGT
1 AAAAAGATATAGTTTAGGTACCATTTTGTGGT
33614016 TTAAACCTAT
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
82 43 0.42
83 22 0.22
84 37 0.36
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.32
Consensus pattern (83 bp):
AAAAAGATATAGTTTAGGTACCATTTTGTGGTATAATTTAGGTATCACTCGACCAAAAAAAAAAG
TTGAAATACAAACTTGAA
Found at i:33614502 original size:31 final size:31
Alignment explanation
Indices: 33614466--33614530 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
33614456 TAAGATAGCC
33614466 CAAAAGAATCCTATTTTAATGAAGCAAGATA
1 CAAAAGAATCCTATTTTAATGAAGCAAGATA
33614497 CAAAAGAATCCTATTTTAATGAAGCAAGATA
1 CAAAAGAATCCTATTTTAATGAAGCAAGATA
33614528 CAA
1 CAA
33614531 GTTCTCTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (31 bp):
CAAAAGAATCCTATTTTAATGAAGCAAGATA
Found at i:33622771 original size:6 final size:6
Alignment explanation
Indices: 33622760--33622828 Score: 57
Period size: 6 Copynumber: 10.7 Consensus size: 6
33622750 ATTTAACCAT
* * *
33622760 TTTTTA TTTTTA TTTTTA TTTTAATA TTTTTTG TTTTTA ATTTAA TTGTTTCA
1 TTTTTA TTTTTA TTTTTA TTTT--TA -TTTTTA TTTTTA TTTTTA TT-TTT-A
*
33622813 TTTTAA TTTTTA TTTT
1 TTTTTA TTTTTA TTTT
33622829 GCTTCGTTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
6 36 0.72
7 5 0.10
8 5 0.10
9 4 0.08
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:33622790 original size:21 final size:20
Alignment explanation
Indices: 33622766--33622828 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 20
33622756 CCATTTTTTA
33622766 TTTTTATTTTTATTTTAATAT
1 TTTTTATTTTTATTTTAAT-T
* *
33622787 TTTTTGTTTTTAATTTAATT
1 TTTTTATTTTTATTTTAATT
* * * *
33622807 GTTTCATTTTAATTTTTATT
1 TTTTTATTTTTATTTTAATT
33622827 TT
1 TT
33622829 GCTTCGTTCT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTTTATTTTTATTTTAATT
Found at i:33622817 original size:14 final size:12
Alignment explanation
Indices: 33622760--33622828 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
33622750 ATTTAACCAT
*
33622760 TTTTTATTTTTA
1 TTTTTATTTTAA
33622772 TTTTTATTTTAA
1 TTTTTATTTTAA
* *
33622784 -TATT-TTTT-G
1 TTTTTATTTTAA
*
33622793 TTTTTAATTTAA
1 TTTTTATTTTAA
33622805 TTGTTTCATTTTAA
1 TT-TTT-ATTTTAA
33622819 TTTTTATTTT
1 TTTTTATTTT
33622829 GCTTCGTTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
10 7 0.16
11 6 0.13
12 18 0.40
13 6 0.13
14 8 0.18
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:33631214 original size:57 final size:58
Alignment explanation
Indices: 33631091--33631233 Score: 171
Period size: 57 Copynumber: 2.5 Consensus size: 58
33631081 CTCATTATAG
* * * * * *
33631091 AAAGGATTCAGCCCGGACAGGTAATCCTGATATAATCTCTCTCGAACATATGTTACAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAACATACGTTACAA
** * * * *
33631149 TTAGGATTTAGCCTGGACTGGTAATCCTAAT-TGAGCTCTTTTGAGCATACGTTACAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAACATACGTTACAA
33631206 AAAGGATTTAGCCTGGACTGGTAATCCT
1 AAAGGATTTAGCCTGGACTGGTAATCCT
33631234 GTAATACGAT
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
57 46 0.65
58 25 0.35
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (58 bp):
AAAGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAACATACGTTACAA
Found at i:33637090 original size:27 final size:27
Alignment explanation
Indices: 33637071--33637125 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
33637061 TTGGAGCTAT
33637071 ACTAAAAAACACTTCAATTGCGAATTC
1 ACTAAAAAACACTTCAATTGCGAATTC
* *
33637098 ACTAGAAAACACTTCAATTGTGAATTC
1 ACTAAAAAACACTTCAATTGCGAATTC
33637125 A
1 A
33637126 ACCTTCTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (27 bp):
ACTAAAAAACACTTCAATTGCGAATTC
Found at i:33648230 original size:11 final size:11
Alignment explanation
Indices: 33648212--33648245 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
33648202 GTACATATGC
33648212 TCTCTTTTTTAT
1 TCTCTTTTTT-T
33648224 T-TCTTTTTTT
1 TCTCTTTTTTT
33648234 TCTCTTTTTTT
1 TCTCTTTTTTT
33648245 T
1 T
33648246 AATATCACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.10
11 18 0.86
12 1 0.05
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTCTTTTTTT
Found at i:33651129 original size:48 final size:48
Alignment explanation
Indices: 33651073--33651388 Score: 249
Period size: 48 Copynumber: 6.6 Consensus size: 48
33651063 TGTGTGCTAA
* *
33651073 TGTAAGACCATGTTTGGAACATGGCATCGACCATGATATTAGAGCCAA
1 TGTAAGACCATGTTTGGAACATGGCATCGACCATGATATGAGAGCCAG
*
33651121 TGTAAGACCATGTTTGGAACATGGCATC-AGCAATG-TAATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGA-CCATGAT-ATGAGAGCCAG
* * * * * *
33651169 TGTAAAACCATGTCTAGG-ACATGGCATCG-GCATTGATATGTGCGCTAG
1 TGTAAGACCATGT-TTGGAACATGGCATCGACCA-TGATATGAGAGCCAG
* * * *
33651217 TGTAAGACCATGTCTGGGATATGGCATCGGTCACAT--TATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATC-GAC-CATGATATGAGAGCCAG
* * * * *
33651265 TGTAAGACCATGTCTGGGAA-GTGGCATCGA-CATTGAGACGAGAGCTAG
1 TGTAAGACCATGT-TTGGAACATGGCATCGACCA-TGATATGAGAGCCAG
* * * * * *
33651313 TGTAAGACCATGTCTGGGAA-ATGGCATTGGCC-TCAACATGTGAGCCAG
1 TGTAAGACCATGT-TTGGAACATGGCATCGACCAT-GATATGAGAGCCAG
33651361 TGTAAGACCATGTTTGGAACA-GGCATCG
1 TGTAAGACCATGTTTGGAACATGGCATCG
33651389 GCAATTCACC
Statistics
Matches: 215, Mismatches: 36, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
45 2 0.01
46 1 0.00
47 18 0.08
48 182 0.85
49 9 0.04
50 1 0.00
51 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGAACATGGCATCGACCATGATATGAGAGCCAG
Found at i:33651323 original size:144 final size:143
Alignment explanation
Indices: 33651058--33651388 Score: 357
Period size: 144 Copynumber: 2.3 Consensus size: 143
33651048 GACATTTGGG
* * * *
33651058 TGATATGTGTGCTAATGTAAGACCATGTTTGGAACATGGCATCGACCATGATATTAGAGCCAATG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACCAT-ATATGAGAGCCAATG
* *
33651123 TAAGACCATGTTTGGAACATGGCATCAGCAATGTAATGAGAGCCAGTGTAAAACCATGTCTAGGA
65 TAAGACCATGTTGGGAACATGGCATCAGCAATGTAACGAGAGCCAGTGTAAAACCATGTCTAGGA
*
33651188 CATGGCATCGGCAT
130 AATGGCATCGGCAT
* * * * *
33651202 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACAT-TATGAGAGCCAGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATC-GAC-CATATATGAGAGCCAAT
* * * *
33651266 GTAAGACCATGTCTGGGAA-GTGGCATC-GACATTG-AGACGAGAGCTAGTGTAAGACCATGTCT
64 GTAAGACCATGT-TGGGAACATGGCATCAG-CAATGTA-ACGAGAGCCAGTGTAAAACCATGTCT
* * *
33651328 GGGAAATGGCATTGGCCT
126 AGGAAATGGCATCGGCAT
** * * *
33651346 CAACATGTGAGCCAGTGTAAGACCATGTTTGGAACA-GGCATCG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCG
33651389 GCAATTCACC
Statistics
Matches: 156, Mismatches: 26, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
142 1 0.01
143 8 0.05
144 137 0.88
145 7 0.04
146 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (143 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACCATATATGAGAGCCAATGT
AAGACCATGTTGGGAACATGGCATCAGCAATGTAACGAGAGCCAGTGTAAAACCATGTCTAGGAA
ATGGCATCGGCAT
Found at i:33651358 original size:96 final size:96
Alignment explanation
Indices: 33651073--33651373 Score: 297
Period size: 96 Copynumber: 3.1 Consensus size: 96
33651063 TGTGTGCTAA
* * ** * *
33651073 TGTAAGACCATGT-TTGGAACATGGCATCGACCA-TGATATTAGAGCCAATGTAAGACCATGT-T
1 TGTAAGACCATGTCTAGG-ACATGGCATCGA-CATTGAGACGAGAGCTAGTGTAAGACCATGTCT
* * * **
33651135 TGGAACATGGCATCAGCAATGTA-ATGAGAGCCAG
64 GGGAA-ATGGCATCGGCCA-CAACATGAGAGCCAG
* * * * * *
33651169 TGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTGG
* * **
33651234 GATATGGCATCGGTCACATTATGAGAGCCAG
66 GAAATGGCATCGGCCACAACATGAGAGCCAG
*
33651265 TGTAAGACCATGTCTGGGA-AGTGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTG
1 TGTAAGACCATGTCTAGGACA-TGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTG
* * *
33651329 GGAAATGGCATTGGCCTCAACATGTGAGCCAG
65 GGAAATGGCATCGGCCACAACATGAGAGCCAG
33651361 TGTAAGACCATGT
1 TGTAAGACCATGT
33651374 TTGGAACAGG
Statistics
Matches: 170, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
95 3 0.02
96 160 0.94
97 7 0.04
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (96 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTGG
GAAATGGCATCGGCCACAACATGAGAGCCAG
Found at i:33654010 original size:29 final size:29
Alignment explanation
Indices: 33653977--33654137 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
33653967 GTGACGAGAT
33653977 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
33654006 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
33654035 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
33654064 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
33654093 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
33654122 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
33654138 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:33654156 original size:87 final size:87
Alignment explanation
Indices: 33653978--33654196 Score: 237
Period size: 87 Copynumber: 2.5 Consensus size: 87
33653968 TGACGAGATT
** * *
33653978 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTA
1 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTA
* * *
33654043 AGTGTGCGTGCTGGAAATATAT
66 AGTGTGCGAGCTGGAAAGATAC
* *
33654065 GGCACTAAGTGTGCGTGCTGGAAATATTTGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTG
1 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTA
* * * *
33654130 GGTGTGCGAGTTCGG-AGGGTAC
66 AGTGTGCGAGCT-GGAAAGATAC
** * *
33654152 GGCACTGTGTGTGCGAGCT-TAAAT-TACGTGGCACTAAGTGTGCAA
1 GGCACTAAGTGTGCGTGCTGGAAATATA--TGGCACTAAGTGTGCAA
33654197 AATCGAGTAG
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
85 1 0.01
86 4 0.04
87 104 0.94
88 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.26
Consensus pattern (87 bp):
GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTA
AGTGTGCGAGCTGGAAAGATAC
Found at i:33663863 original size:129 final size:129
Alignment explanation
Indices: 33663633--33663894 Score: 470
Period size: 129 Copynumber: 2.0 Consensus size: 129
33663623 TAACAAGTAT
*
33663633 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGTGCACCT
1 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
*
33663698 ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
66 ATCGAACAATAGTATAGTAATCGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
**
33663762 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGATGAAAAGGCAAGCGCACCT
1 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
* *
33663827 ATCGAACAATAGTATAGTAATCGCAAGACCGGGATATCATACTTAAGGGAACCAAAAGTACTAG
66 ATCGAACAATAGTATAGTAATCGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
33663891 TAAT
1 TAAT
33663895 AACTATCTTT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (129 bp):
TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
ATCGAACAATAGTATAGTAATCGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
Found at i:33667191 original size:30 final size:30
Alignment explanation
Indices: 33667134--33667192 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33667124 GCCTTTTGAA
* * *
33667134 AATATTTACAAGAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
33667164 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
33667193 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:33671883 original size:21 final size:20
Alignment explanation
Indices: 33671855--33671895 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
33671845 GTTCTGATGT
33671855 TCTTGATTATAATTCCCTTG
1 TCTTGATTATAATTCCCTTG
*
33671875 TCTTGGATTATAATTTCCTTG
1 TCTT-GATTATAATTCCCTTG
33671896 AGTAGATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (20 bp):
TCTTGATTATAATTCCCTTG
Found at i:33687144 original size:17 final size:18
Alignment explanation
Indices: 33687122--33687156 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33687112 ATTTGGGCCG
33687122 TGTGGG-CCACACGGGCA
1 TGTGGGCCCACACGGGCA
33687139 TGTGGGCCCACACGGGCA
1 TGTGGGCCCACACGGGCA
33687157 AGCCATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.17, C:0.31, G:0.40, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCA
Found at i:33699954 original size:23 final size:22
Alignment explanation
Indices: 33699924--33699970 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
33699914 TGTCGGTCTC
33699924 CTTTCTTTTCTTTCTTTATTTTT
1 CTTTCTTTTCTTTC-TTATTTTT
*
33699947 CTTTCTTTTCTTTCTTCTTTTT
1 CTTTCTTTTCTTTCTTATTTTT
33699969 CT
1 CT
33699971 ATTAATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (22 bp):
CTTTCTTTTCTTTCTTATTTTT
Found at i:33701893 original size:22 final size:22
Alignment explanation
Indices: 33701835--33701899 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
33701825 CTCCGATTAT
* *
33701835 TAGCACATTAGTGCTCTCCGTC
1 TAGCACATTAGTGCTCTCTGTA
* **
33701857 TAGCATATTCTTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
33701879 TAGCACCTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
33701900 TCATTAGTGC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:33702439 original size:20 final size:20
Alignment explanation
Indices: 33702382--33702433 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
33702372 AACTCTATCC
* * *
33702382 ATTTTGGCTTTACTTAAACT
1 ATTTTGGTTTTACTTGAAGT
33702402 ATTTTGGTTTTACTTGAAGT
1 ATTTTGGTTTTACTTGAAGT
33702422 ATTTTGGTTTTA
1 ATTTTGGTTTTA
33702434 TATGAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (20 bp):
ATTTTGGTTTTACTTGAAGT
Found at i:33702670 original size:21 final size:21
Alignment explanation
Indices: 33702628--33702670 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33702618 AATATGCCCA
*
33702628 AGGTATCAATACCAAGGGTAT
1 AGGTATCAATACCAAGGCTAT
*
33702649 AGGTATCGATACCTAA-GCTAT
1 AGGTATCAATACC-AAGGCTAT
33702670 A
1 A
33702671 AAATTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (21 bp):
AGGTATCAATACCAAGGCTAT
Found at i:33703216 original size:29 final size:27
Alignment explanation
Indices: 33703171--33703240 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 27
33703161 CGAAACCCTT
33703171 TTTTTTCTATTTTTATTTTATGGATTTA
1 TTTTTT-TATTTTTATTTTATGGATTTA
* **
33703199 TATATTTTTATTTTTATTTTCTTTATTTA
1 T-T-TTTTTATTTTTATTTTATGGATTTA
33703228 TTTTTTTATTTTT
1 TTTTTTTATTTTT
33703241 TGAATTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.30
28 2 0.05
29 20 0.54
30 4 0.11
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (27 bp):
TTTTTTTATTTTTATTTTATGGATTTA
Found at i:33703229 original size:13 final size:12
Alignment explanation
Indices: 33703195--33703238 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
33703185 ATTTTATGGA
*
33703195 TTTATATATTTT
1 TTTATTTATTTT
33703207 TATT-TTTATTTT
1 T-TTATTTATTTT
33703219 CTTTATTTATTTT
1 -TTTATTTATTTT
33703232 TTTATTT
1 TTTATTT
33703239 TTTGAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:33703247 original size:21 final size:22
Alignment explanation
Indices: 33703209--33703258 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
33703199 TATATTTTTA
*
33703209 TTTTTATTTTCTTTATTTAT-T
1 TTTTTATTTTCTTAATTTATAT
33703230 TTTTTATTTT-TTGAATTTATAT
1 TTTTTATTTTCTT-AATTTATAT
*
33703252 CTTTTAT
1 TTTTTAT
33703259 ATTATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 7 0.28
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTCTTAATTTATAT
Found at i:33703256 original size:25 final size:26
Alignment explanation
Indices: 33703183--33703266 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 26
33703173 TTTTCTATTT
* *
33703183 TTATTTTATGGATTTATATATTTTTA
1 TTATTTTTTGAATTTATATATTTTTA
** *
33703209 TT-TTTATTT-TCTTTATTTATTTTT-
1 TTATTT-TTTGAATTTATATATTTTTA
*
33703233 TTATTTTTTGAATTTATATCTTTTATA
1 TTATTTTTTGAATTTATATATTTT-TA
33703260 TTATTTT
1 TTATTTT
33703267 ATTATACTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
24 5 0.11
25 28 0.62
26 5 0.11
27 7 0.16
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (26 bp):
TTATTTTTTGAATTTATATATTTTTA
Found at i:33703297 original size:20 final size:21
Alignment explanation
Indices: 33703253--33703301 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
33703243 AATTTATATC
33703253 TTTTATATTATTTTATTATACT
1 TTTTA-ATTATTTTATTATACT
*
33703275 TTTTAATTATTTT-TTATAGT
1 TTTTAATTATTTTATTATACT
33703295 TTTTAAT
1 TTTTAAT
33703302 CTCATTATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 13 0.50
21 8 0.31
22 5 0.19
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTAATTATTTTATTATACT
Found at i:33705734 original size:34 final size:35
Alignment explanation
Indices: 33705650--33705753 Score: 106
Period size: 34 Copynumber: 3.0 Consensus size: 35
33705640 ATCCTTTGTT
33705650 TGCATACTG-TACTGAAATGGGCTAAGGCCCAAAC
1 TGCATACTGTTACTGAAATGGGCTAAGGCCCAAAC
* * * * *
33705684 TGCCT-CTATGACTGAAATGGGCTCAGGCCCAGAC
1 TGCATACTGTTACTGAAATGGGCTAAGGCCCAAAC
* * *
33705718 TG-ATACTGTTAATGAAAAGAGGCTAAGGCCCTAAC
1 TGCATACTGTTACTGAAATG-GGCTAAGGCCCAAAC
33705753 T
1 T
33705754 AGAAATAACG
Statistics
Matches: 54, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
33 3 0.06
34 38 0.70
35 13 0.24
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (35 bp):
TGCATACTGTTACTGAAATGGGCTAAGGCCCAAAC
Found at i:33713360 original size:34 final size:34
Alignment explanation
Indices: 33713311--33713406 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 34
33713301 CTTTGTTTGC
*
33713311 ATACTG-TACTGAAATGGGCTAAGGCCCAGACTG
1 ATACTGTTACTGAAATGGGCTAAGGCCCAAACTG
* *
33713344 CCT-CTGTTACTGAAATGGGCTTAGGCCCAAACTG
1 -ATACTGTTACTGAAATGGGCTAAGGCCCAAACTG
* *
33713378 ATACTGTTAATGAAAAGGGGCTAAGGCCC
1 ATACTGTTACTG-AAATGGGCTAAGGCCC
33713407 TAATTGGAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 4 0.08
34 34 0.65
35 14 0.27
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (34 bp):
ATACTGTTACTGAAATGGGCTAAGGCCCAAACTG
Found at i:33715261 original size:18 final size:18
Alignment explanation
Indices: 33715238--33715272 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33715228 CTGTTCGAAG
33715238 GAGACTTTGAGAACAAAT
1 GAGACTTTGAGAACAAAT
33715256 GAGACTTTGAGAACAAA
1 GAGACTTTGAGAACAAA
33715273 GGAATGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (18 bp):
GAGACTTTGAGAACAAAT
Found at i:33720419 original size:42 final size:43
Alignment explanation
Indices: 33720338--33720441 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 43
33720328 TGTGATTACA
* *
33720338 TGTAAGACCATGTCTGGGACATTGGAATTGTATTGTGA-TTAG
1 TGTAAGACCATGTCTGGGACATTGCAATTGTATTATGATTTAG
*
33720380 TGTAAGACCATGTCTGGGACATT-CACATCAT-TA-TATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGCA-AT--TGTATTATGATTTAG
*
33720423 TGTAAAACCATGTCTGGGA
1 TGTAAGACCATGTCTGGGA
33720442 TAGTGGCATC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
41 1 0.02
42 29 0.54
43 23 0.43
44 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGCAATTGTATTATGATTTAG
Found at i:33729431 original size:13 final size:13
Alignment explanation
Indices: 33729414--33729457 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
33729404 ATTTCAATTT
33729414 TATTTTAATAATAA
1 TATTTTAA-AATAA
33729428 -ATTTTAAAAATAA
1 TATTTT-AAAATAA
33729441 TATTTTAAAATAA
1 TATTTTAAAATAA
33729454 TATT
1 TATT
33729458 CTTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTTAAAATAA
Found at i:33739588 original size:15 final size:14
Alignment explanation
Indices: 33739568--33739597 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
33739558 ATTATTAAAA
33739568 TATTAATATAAATAT
1 TATTAATA-AAATAT
33739583 TATTAATAAAATAT
1 TATTAATAAAATAT
33739597 T
1 T
33739598 TAAAACACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTAATAAAATAT
Found at i:33739839 original size:38 final size:38
Alignment explanation
Indices: 33739789--33739875 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
33739779 ATATCGGTAT
*
33739789 TTCAATATTAAAATTAAAACATGATAATATTAAGCTTGG
1 TTCAA-ATTAAAATTAAAACATGATAATATTAAGCTTGA
*
33739828 TTTAAATTAAAATTAAAACATGATAATATTAAGCTTGA
1 TTCAAATTAAAATTAAAACATGATAATATTAAGCTTGA
33739866 TTCAAATTAA
1 TTCAAATTAA
33739876 TTTGAAGCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 41 0.91
39 4 0.09
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (38 bp):
TTCAAATTAAAATTAAAACATGATAATATTAAGCTTGA
Found at i:33748764 original size:2 final size:2
Alignment explanation
Indices: 33748753--33748797 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
33748743 TTTTAGATTA
33748753 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33748794 AT AT
1 AT AT
33748798 CCAATTTATC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:33753049 original size:44 final size:45
Alignment explanation
Indices: 33752838--33753053 Score: 192
Period size: 46 Copynumber: 4.8 Consensus size: 45
33752828 GCGATGTGTG
* * *
33752838 TGTGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCCACATTAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAC--GAGA
* * * *
33752885 -GAGCCAGTGTAAGACCATGTCTGGGATATGACATCGGCATGA-GACGA
1 TGTGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCT-ACGA-GA
* *
33752932 -GAGCTAGTGTAAGATATGT-TGGGACATGCATCGGCCT-CGAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGA
* * * *
33752974 TGTAAGCCAATGTAAGACATGTTTAGGACATGCATCGG-CTACGAGA
1 TGT--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGA
*
33753020 TGTGCTAGTGTAAGACATGTCTGGAACATGCATC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATC
33753054 AGCATGGATA
Statistics
Matches: 138, Mismatches: 21, Indels: 23
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 34 0.25
45 24 0.17
46 39 0.28
47 29 0.21
48 6 0.04
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGA
Found at i:33753067 original size:44 final size:44
Alignment explanation
Indices: 33752838--33753104 Score: 177
Period size: 44 Copynumber: 5.8 Consensus size: 44
33752828 GCGATGTGTG
* *
33752838 TGTGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCCA-CATTAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGG--CATC--GAGA
* * *
33752885 -GAGCCAGTGTAAGACCATGTCTGGGATATGACATCGGCAT-GAGA
1 TGTGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATCGAGA
* * * *
33752929 CGAGAGCTAGTGTAAGATATGT-TGGGACATGCATCGGCCTCGAGA
1 --TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA
* * * *
33752974 TGTAAGCCAATGTAAGACATGTTTAGGACATGCATCGGC-TACGAGA
1 TGT--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGA
* * * *
33753020 TGTGCTAGTGTAAGACATGTCTGGAACATGCATCAGCATGGATA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA
33753064 TGTGAGAGGC-AGTGTAAGACCATGTCTGGGACATGGCATCG
1 TGT-----GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
33753105 CATTATACCC
Statistics
Matches: 176, Mismatches: 25, Indels: 35
0.75 0.11 0.15
Matches are distributed among these distances:
43 1 0.01
44 45 0.26
45 28 0.16
46 41 0.23
47 27 0.15
48 14 0.08
49 15 0.09
50 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (44 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA
Found at i:33754741 original size:11 final size:11
Alignment explanation
Indices: 33754725--33754754 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
33754715 TTGCCGATTT
33754725 CTTCTTCTACC
1 CTTCTTCTACC
33754736 CTTCTTCTACC
1 CTTCTTCTACC
33754747 CTTCTTCT
1 CTTCTTCT
33754755 TTAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.07, C:0.43, G:0.00, T:0.50
Consensus pattern (11 bp):
CTTCTTCTACC
Found at i:33755349 original size:24 final size:24
Alignment explanation
Indices: 33755319--33755365 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
33755309 AAGTATCGGC
* *
33755319 AAAAGCCGAAATGCTGAAAAGCCA
1 AAAAGCCAAAATGCCGAAAAGCCA
33755343 AAAAGCCAAAATGCCGAAAAGCC
1 AAAAGCCAAAATGCCGAAAAGCC
33755366 GAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.23, G:0.19, T:0.06
Consensus pattern (24 bp):
AAAAGCCAAAATGCCGAAAAGCCA
Found at i:33755366 original size:8 final size:8
Alignment explanation
Indices: 33755319--33755369 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
33755309 AAGTATCGGC
33755319 AAAAGCCG
1 AAAAGCCG
* *
33755327 AAATGCTG
1 AAAAGCCG
*
33755335 AAAAGCCA
1 AAAAGCCG
33755343 AAAAGCC-
1 AAAAGCCG
33755350 AAAATGCCG
1 AAAA-GCCG
33755359 AAAAGCCG
1 AAAAGCCG
33755367 AAA
1 AAA
33755370 GTTTGGCTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 4 0.11
8 28 0.78
9 4 0.11
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:33756988 original size:40 final size:40
Alignment explanation
Indices: 33756914--33757054 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
33756904 CCGCACCAAG
* * * * * *
33756914 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
33756954 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
33756994 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
33757033 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
33757055 GTAATTTCAG
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:33757036 original size:39 final size:40
Alignment explanation
Indices: 33756914--33757095 Score: 163
Period size: 39 Copynumber: 4.6 Consensus size: 40
33756904 CCGCACCAAG
* * * * * * * *
33756914 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
33756954 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
33756994 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * * *
33757033 GCCTTCGGGTCTTAACCCGGATGTAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
33757072 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
33757096 CATTCAATTT
Statistics
Matches: 118, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.02
39 60 0.51
40 54 0.46
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:33765084 original size:39 final size:38
Alignment explanation
Indices: 33765026--33765166 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 38
33765016 CCGCACCAAG
* * * *
33765026 GCCTACGGGACTTAACCCGGATTCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATT-ACAACTTGCACAAAT
* *
33765065 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAACCCGGA-TT-ACAACTTGCACAAAT
** * * *
33765105 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGAT-TA-CAACTTGCACAAAT
33765145 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAACCCGGAT
33765167 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 20 0.24
40 65 0.76
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATTACAACTTGCACAAAT
Found at i:33765106 original size:40 final size:39
Alignment explanation
Indices: 33765055--33765166 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 39
33765045 GATTCACGAT
*
33765055 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* * *
33765095 TTGCACGAATGCCTTCGGGTCTTGGCCCGGATATAGCTAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* *
33765135 TAGCACAATTGCCTTCGGGTCTTAACCCGGAT
1 TTGCACAA-TGCCTTCGGGTCTTAGCCCGGAT
33765167 GTAATTTTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.03
40 61 0.97
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (39 bp):
TTGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:33767041 original size:29 final size:29
Alignment explanation
Indices: 33767006--33767067 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
33766996 AATGTGACTA
*
33767006 GGCCTAACGGGCCATAAAAATGTGATTTG
1 GGCCTAACGGGCCATAAAAAGGTGATTTG
* * *
33767035 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAACGGGCCATAAAAAGGTGATTTG
33767064 GGCC
1 GGCC
33767068 CAATGAGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCCTAACGGGCCATAAAAAGGTGATTTG
Found at i:33790378 original size:29 final size:29
Alignment explanation
Indices: 33790354--33790447 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
33790344 TCGCACACCC
* *
33790354 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
33790383 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
33790412 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
33790441 AGTGCCA
1 AGTGCCA
33790448 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:33790379 original size:58 final size:58
Alignment explanation
Indices: 33790316--33790447 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
33790306 AATTTAAGCC
* * * * *
33790316 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
33790374 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
33790432 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
33790448 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:33791795 original size:18 final size:18
Alignment explanation
Indices: 33791763--33791800 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
33791753 TCCACACCCA
33791763 TTTTTTTTCATCATTATCTT
1 TTTTTTTTCA-CATT-TCTT
33791783 TTTTTTTTC-CATTTCTT
1 TTTTTTTTCACATTTCTT
33791800 T
1 T
33791801 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
20 9 0.50
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTCACATTTCTT
Found at i:33798332 original size:28 final size:28
Alignment explanation
Indices: 33798275--33798333 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
33798265 CTTCGGCTTT
* *
33798275 GTATGGCACTTAGTATGTGAGATATCGA
1 GTATGGCACTTAGTATGCGAGACATCGA
* * *
33798303 GTATGGCACTTAGTGTGCGAGGCATTGA
1 GTATGGCACTTAGTATGCGAGACATCGA
33798331 GTA
1 GTA
33798334 ATCAACGACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.31
Consensus pattern (28 bp):
GTATGGCACTTAGTATGCGAGACATCGA
Found at i:33809111 original size:43 final size:44
Alignment explanation
Indices: 33808991--33809155 Score: 119
Period size: 43 Copynumber: 3.8 Consensus size: 44
33808981 ATAGGATTTT
* * * * *
33808991 CGATATGTGATTTCGTGT-AAGACCAAGTCTGGGAC-GTTGGTAT
1 CGATATTTGATTTCATGTAAAGACCATGTCTGGGACAG-TGGCAA
** * *
33809034 CGAT-TCGAGATTTACATGT-AAGACGATGTCTGGGACA-TCGGCAT
1 CGATAT-TTGATTT-CATGTAAAGACCATGTCTGGGACAGT-GGCAA
* *
33809078 CG-TATTTGATTTCATGTAAAGACCTTGTTTGGGACAGTGGCAA
1 CGATATTTGATTTCATGTAAAGACCATGTCTGGGACAGTGGCAA
* * *
33809121 CGATATTTGATTACATGT-AGGACCACGTCTGGGAC
1 CGATATTTGATTTCATGTAAAGACCATGTCTGGGAC
33809156 GTTGGCATTG
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
42 6 0.06
43 51 0.52
44 41 0.42
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (44 bp):
CGATATTTGATTTCATGTAAAGACCATGTCTGGGACAGTGGCAA
Found at i:33809138 original size:44 final size:43
Alignment explanation
Indices: 33809045--33809155 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
33809035 GATTCGAGAT
* *
33809045 TTACATGT-AAGACGATGTCTGGGACATCGGCATCGTATTTGA
1 TTACATGTAAAGACCATGTCTGGGACATCGGCAACGTATTTGA
* * *
33809087 TTTCATGTAAAGACCTTGTTTGGGACAGT-GGCAACGATATTTGA
1 TTACATGTAAAGACCATGTCTGGGACA-TCGGCAACG-TATTTGA
* *
33809131 TTACATGT-AGGACCACGTCTGGGAC
1 TTACATGTAAAGACCATGTCTGGGAC
33809156 GTTGGCATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 7 0.12
43 34 0.61
44 15 0.27
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TTACATGTAAAGACCATGTCTGGGACATCGGCAACGTATTTGA
Found at i:33812491 original size:17 final size:18
Alignment explanation
Indices: 33812452--33812492 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
33812442 CAAAAATTGG
* *
33812452 ATTCTAATAGCTATAGGT
1 ATTCAAATAGCTATAGGA
33812470 A-TCAAATAGCTAT-GGA
1 ATTCAAATAGCTATAGGA
33812486 ATTCAAA
1 ATTCAAA
33812493 ACTTAAGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 16 0.80
18 1 0.05
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (18 bp):
ATTCAAATAGCTATAGGA
Found at i:33818574 original size:25 final size:25
Alignment explanation
Indices: 33818530--33818577 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
33818520 AAAATGGCTT
*
33818530 TTGCCCTAGTTTATCAAAAAGGGCA
1 TTGCCCTAGTTTATAAAAAAGGGCA
33818555 TTGCCCTAG-TTATTAAAAAAGGG
1 TTGCCCTAGTTTA-TAAAAAAGGG
33818578 TAGGCCTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (25 bp):
TTGCCCTAGTTTATAAAAAAGGGCA
Found at i:33818789 original size:30 final size:31
Alignment explanation
Indices: 33818755--33818836 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
33818745 CGTTTATAGT
33818755 AAAGGCTTCGGCCCAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
33818785 AAAGGCTTTGG-CCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
33818815 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33818837 TTGAGATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 10 0.22
30 30 0.67
31 5 0.11
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:33826440 original size:25 final size:25
Alignment explanation
Indices: 33826395--33826465 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
33826385 GGAGGAAGTG
* *
33826395 AAAAGGGCTTTTGCCCTAGTTTACCC
1 AAAAGGGC-TTTGCCCCAGTTTACCA
* *
33826421 AAAAGCGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
33826446 AAAAGGGCTTCGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
33826466 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 32 0.82
26 7 0.18
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:33826478 original size:24 final size:24
Alignment explanation
Indices: 33826421--33826472 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
33826411 TAGTTTACCC
* *
33826421 AAAAGCGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTCGCCCCAG-TTATCA
*
33826446 AAAAGGGCTTCGCCCCAGTTATTA
1 AAAAGGGCTTCGCCCCAGTTATCA
33826470 AAA
1 AAA
33826473 GAGGCTAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTCGCCCCAGTTATCA
Found at i:33826720 original size:30 final size:31
Alignment explanation
Indices: 33826686--33826768 Score: 109
Period size: 30 Copynumber: 2.7 Consensus size: 31
33826676 CATTTACAGT
*
33826686 AAAGGCTTCGGCCCAGTGATATG-ATAATGA-
1 AAAGGCTTCGGCCCAGTGATATGAAAAAT-AC
* *
33826716 AAAGGCTTCGGCCTAGTGACATGAAAAATAC
1 AAAGGCTTCGGCCCAGTGATATGAAAAATAC
33826747 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33826769 TTGAGATTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 26 0.57
31 20 0.43
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAAAAATAC
Found at i:33833923 original size:94 final size:94
Alignment explanation
Indices: 33833762--33833941 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 94
33833752 TCCATCAAAT
* ** * *
33833762 CATATTGATTACTTGCTTTATTCAAATGTTAACCTTCATAAGTTAACTACCTTTTGAACGATTAA
1 CATATTGATTACTTGCTTTATTCAAATGTTAACCTTCAAAAAATAACTACATTTTGAACAATTAA
*
33833827 TTACACTATGTTTCTATTTTTATTTTTAA
66 TTACACTATGTTTCTAGTTTTATTTTTAA
* *
33833856 CATATTGATTACTTGCTTTATTCAAATGTTAACCTTCAAAAAAT-ATTGCATTTT-AACAATCAT
1 CATATTGATTACTTGCTTTATTCAAATGTTAACCTTCAAAAAATAACTACATTTTGAACAAT--T
*
33833919 AATTACCCTATGTTTCTAGTTTT
64 AATTACACTATGTTTCTAGTTTT
33833942 CTGTATCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 5 0.07
93 7 0.09
94 63 0.84
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (94 bp):
CATATTGATTACTTGCTTTATTCAAATGTTAACCTTCAAAAAATAACTACATTTTGAACAATTAA
TTACACTATGTTTCTAGTTTTATTTTTAA
Found at i:33835599 original size:43 final size:43
Alignment explanation
Indices: 33835521--33835655 Score: 200
Period size: 43 Copynumber: 3.2 Consensus size: 43
33835511 TAAAGGTCAT
* * * *
33835521 GACCTTTAGTGGCGC-TTTCCCACTAATGCCACTAAAAAACAC
1 GACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAAAACAC
*
33835563 GACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAACAC
1 GACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAAAACAC
* *
33835606 GACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAAATCAT
1 GACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAAAACAC
33835649 GACCTTT
1 GACCTTT
33835656 TAAAAAATTA
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 13 0.15
43 71 0.85
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.23
Consensus pattern (43 bp):
GACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAAAACAC
Found at i:33843105 original size:33 final size:32
Alignment explanation
Indices: 33843056--33843119 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
33843046 CTCGCTGCAA
* *
33843056 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
33843089 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
33843120 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:33843133 original size:27 final size:26
Alignment explanation
Indices: 33843081--33843140 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
33843071 ACATATATAT
*
33843081 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
33843107 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
33843134 ATATCTG
1 ATATCTG
33843141 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:33843526 original size:8 final size:9
Alignment explanation
Indices: 33843502--33843529 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
33843492 CTAAGTTAGT
33843502 TTATTTTTA
1 TTATTTTTA
33843511 TTATTTTTA
1 TTATTTTTA
33843520 TTATTTTTA
1 TTATTTTTA
33843529 T
1 T
33843530 ATTCTGATTT
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTTTA
Found at i:33847975 original size:27 final size:27
Alignment explanation
Indices: 33847945--33848189 Score: 339
Period size: 27 Copynumber: 9.1 Consensus size: 27
33847935 GGAAAAATGA
* * * *
33847945 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
33847972 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
33847999 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
33848026 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
33848053 TAATT-TAACCCTACAGGGGTATTTCGG
1 TAATTCT-ACCCTACAGGGGTATTTCGG
* *
33848080 TAATTCTACCTTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
33848107 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * **
33848134 TATTTCTACCCTACAAGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
33848161 AAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
33848188 TA
1 TA
33848190 TTTTACAAAT
Statistics
Matches: 191, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 189 0.99
28 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:33848205 original size:27 final size:26
Alignment explanation
Indices: 33848177--33848301 Score: 144
Period size: 27 Copynumber: 4.7 Consensus size: 26
33848167 TACCCTATAG
*
33848177 GGGTATTTCGGT-ATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
33848203 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* * *
33848230 TGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
* * *
33848257 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTAC-AAACAA
33848284 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
33848302 GTAAACCAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 12 0.14
27 71 0.84
28 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:33848342 original size:81 final size:80
Alignment explanation
Indices: 33848174--33848328 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 80
33848164 TTCTACCCTA
*
33848174 TAGGGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTT
1 TAGGGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATATT
33848239 AGTAATTTTACAAAC
66 AGTAATTTTACAAAC
* ** * ** *
33848254 TAGGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAATGGTGTAT
1 TAGGGGTATTTCGGT-ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATAT
33848319 TAGTAATTTT
65 TAGTAATTTT
33848329 GTAAATTGAG
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 14 0.21
81 52 0.79
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (80 bp):
TAGGGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATATT
AGTAATTTTACAAAC
Found at i:33848351 original size:27 final size:27
Alignment explanation
Indices: 33848321--33848474 Score: 195
Period size: 27 Copynumber: 5.7 Consensus size: 27
33848311 TGGTGTATTA
* * *
33848321 GTAATTTTGTAAATTGAGGGTAAAACT
1 GTAATTCTATAAATCGAGGGTAAAACT
33848348 GTAATTCTATAAATCGAGGGTAAAAC-
1 GTAATTCTATAAATCGAGGGTAAAACT
33848374 GATAATTCTATAAATCGAGGGTAAAA-T
1 G-TAATTCTATAAATCGAGGGTAAAACT
* *
33848401 GGTAATTCTATAAATCGAAGGTAAAACA
1 -GTAATTCTATAAATCGAGGGTAAAACT
* *
33848429 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACT
* *
33848456 GTAATTTTATAAATTGAGG
1 GTAATTCTATAAATCGAGG
33848475 ATATTTGGGT
Statistics
Matches: 112, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
26 1 0.01
27 110 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACT
Found at i:33848364 original size:81 final size:82
Alignment explanation
Indices: 33848196--33848369 Score: 185
Period size: 81 Copynumber: 2.1 Consensus size: 82
33848186 GGTATTTTAC
* *
33848196 AAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTTAGTAATTTTACAAACTAGGGGT
1 AAATCGAGGGTATTTTGGTAATTTTACAAACCAATGGTATATTAGTAATTTTACAAACTAGGGGT
*** *
33848261 ATTTTGGTAATTTTACT
66 AAACTGGTAATTCTACT
* ** * ** *
33848278 -GATCGAGGGTATTTTGGTAATTTTGTAAACCAATGGTGTATTAGTAATTTTGTAAA-TTGAGGG
1 AAATCGAGGGTATTTTGGTAATTTTACAAACCAATGGTATATTAGTAATTTTACAAACTAG-GGG
33848341 TAAAACT-GTAATTCTA-T
65 T-AAACTGGTAATTCTACT
33848358 AAATCGAGGGTA
1 AAATCGAGGGTA
33848370 AAACGATAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
80 3 0.04
81 70 0.93
82 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (82 bp):
AAATCGAGGGTATTTTGGTAATTTTACAAACCAATGGTATATTAGTAATTTTACAAACTAGGGGT
AAACTGGTAATTCTACT
Found at i:33848380 original size:54 final size:54
Alignment explanation
Indices: 33848320--33848474 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 54
33848310 ATGGTGTATT
* *
33848320 AGTAATTTTGTAAATTGAGGGTAAAACTGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACTGTAATTCTATAAATCGAGGGTAAAAC
* *
33848374 -GATAATTCTATAAATCGAGGGTAAAA-TGGTAATTCTATAAATCGAAGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAACT-GTAATTCTATAAATCGAGGGTAAAAC
* * *
33848428 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATTGAGG
1 AGTAATTCTGTAAATCGAGGGTAAAACTGTAATTCTATAAATCGAGG
33848475 ATATTTGGGT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
53 2 0.02
54 85 0.97
55 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACTGTAATTCTATAAATCGAGGGTAAAAC
Found at i:33848380 original size:81 final size:81
Alignment explanation
Indices: 33848295--33848468 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 81
33848285 GGTATTTTGG
* * ** * * * * * *
33848295 TAATTTTGTAAACCAATGGTGTATTAGTAATTTTGTAAATTGAGGGTAAAACTGTAATTCTATAA
1 TAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAAGGTAAAACAGTAATTCTATAA
33848360 ATCGAGGGTAAAACGA
66 ATCGAGGGTAAAACGA
* * * * *
33848376 TAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACAGTAATTCTGTAA
1 TAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAAGGTAAAACAGTAATTCTATAA
*
33848441 ATCGAGGGTAAAACGG
66 ATCGAGGGTAAAACGA
33848457 TAATTTTATAAA
1 TAATTTTATAAA
33848469 TTGAGGATAT
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (81 bp):
TAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAAGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAACGA
Found at i:33848469 original size:81 final size:81
Alignment explanation
Indices: 33848321--33848474 Score: 227
Period size: 81 Copynumber: 1.9 Consensus size: 81
33848311 TGGTGTATTA
* * * * *
33848321 GTAATTTTGTAAATTGAGGGTAAAACTGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTCTATAAATCGAAGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
33848386 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
33848402 GTAATTCTATAAATCGAAGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATA
1 GTAATTCTATAAATCGAAGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
*
33848467 AATTGAGG
66 AATCGAGG
33848475 ATATTTGGGT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (81 bp):
GTAATTCTATAAATCGAAGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAATG
Found at i:33850960 original size:34 final size:34
Alignment explanation
Indices: 33850915--33851011 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
33850905 TACAGTGTTG
* * *
33850915 ATCAGTCTGGGCCTAAGCCCTTATCAGTAGAAAT
1 ATCAGTGTGGGCCTTAGCCCATATCAGTAGAAAT
*
33850949 ATCAGTGTGGGCCTTAGCCCATATCAGTAGCAAT
1 ATCAGTGTGGGCCTTAGCCCATATCAGTAGAAAT
*
33850983 ATCAGTGCGGGCCTTAGCCCA-ATTCAGTA
1 ATCAGTGTGGGCCTTAGCCCATA-TCAGTA
33851012 CTGTACCAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 1 0.02
34 56 0.98
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (34 bp):
ATCAGTGTGGGCCTTAGCCCATATCAGTAGAAAT
Found at i:33869483 original size:40 final size:40
Alignment explanation
Indices: 33869404--33869580 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
33869394 CGGATGATAA
* * * *
33869404 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
33869444 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
33869484 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
33869524 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
33869564 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
33869581 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 101 0.86
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:33869848 original size:22 final size:22
Alignment explanation
Indices: 33869808--33869849 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33869798 GAATGTGCAT
*
33869808 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
33869830 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
33869850 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:33874800 original size:24 final size:24
Alignment explanation
Indices: 33874765--33874814 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
33874755 TCATAAACAC
*
33874765 CTGAAATAATCATAGAAAAATTAA
1 CTGAAATAATCACAGAAAAATTAA
*
33874789 CTGAAATGATCACAGAAAAATTAA
1 CTGAAATAATCACAGAAAAATTAA
33874813 CT
1 CT
33874815 AAGTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.10, T:0.24
Consensus pattern (24 bp):
CTGAAATAATCACAGAAAAATTAA
Found at i:33890142 original size:2 final size:2
Alignment explanation
Indices: 33890137--33890172 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
33890127 ATATGTGAGG
*
33890137 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33890173 GTAAGGGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:33890197 original size:34 final size:34
Alignment explanation
Indices: 33890157--33890224 Score: 118
Period size: 36 Copynumber: 1.9 Consensus size: 34
33890147 ATATATATAT
33890157 ATATATATATATATATGTAAGGGAGGAAATATTCCA
1 ATATATATATATATATG-AA-GGAGGAAATATTCCA
33890193 ATATATATATATATATGAAGGAGGAAATATTC
1 ATATATATATATATATGAAGGAGGAAATATTC
33890225 TGATTCACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 13 0.41
35 2 0.06
36 17 0.53
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.34
Consensus pattern (34 bp):
ATATATATATATATATGAAGGAGGAAATATTCCA
Found at i:33902929 original size:27 final size:28
Alignment explanation
Indices: 33902873--33902942 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
33902863 AAACTTGTAC
33902873 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
33902901 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
33902928 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
33902943 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:33902953 original size:27 final size:27
Alignment explanation
Indices: 33902873--33902954 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
33902863 AAACTTGTAC
* *
33902873 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
33902901 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
33902928 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
33902955 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:33907268 original size:26 final size:26
Alignment explanation
Indices: 33907237--33907288 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
33907227 ATTAATGAAC
33907237 ACAATATTTAATCAGTGCATGTTTAT
1 ACAATATTTAATCAGTGCATGTTTAT
*
33907263 ACAATATTTAATTAGTGCATGTTTAT
1 ACAATATTTAATCAGTGCATGTTTAT
33907289 TCTTCTAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (26 bp):
ACAATATTTAATCAGTGCATGTTTAT
Found at i:33911930 original size:24 final size:24
Alignment explanation
Indices: 33911898--33911984 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
33911888 AATCTCAAAT
33911898 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
33911922 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
33911946 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
33911970 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
33911985 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:33911950 original size:48 final size:48
Alignment explanation
Indices: 33911898--33912006 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
33911888 AATCTCAAAT
** *
33911898 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
33911946 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
33911994 GCACTATGTGTGC
1 GCACTATGTGTGC
33912007 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:33911997 original size:24 final size:24
Alignment explanation
Indices: 33911898--33912006 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
33911888 AATCTCAAAT
*
33911898 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
33911922 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
33911946 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
33911970 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
33911994 GCACTATGTGTGC
1 GCACTATGTGTGC
33912007 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:33920582 original size:114 final size:114
Alignment explanation
Indices: 33920381--33920606 Score: 362
Period size: 114 Copynumber: 2.0 Consensus size: 114
33920371 CATGGAGAAT
* * *
33920381 CCTTTCACAAATCTTCGGTAGTAACTGGCCAAGCCCAAAAATCTTCTAACCTCAGTTACATTTTT
1 CCTTTAACAAATCTTCGGTAGTAACCGGCCAAGCCCAAAAAGCTTCTAACCTCAGTTACATTTTT
* *
33920446 AGGTGGTTTCCATTCAATGATAGTAGAGATCTTACTTGGATCAACTCAA
66 AGGTGGTTTCCATTCAACGATAGCAGAGATCTTACTTGGATCAACTCAA
* * **
33920495 CCTTTAACAAATCTTCGGTAGTAACCGGCTAAGCCTAAAAAGCTTCTAACCTTGGTTACATTTTT
1 CCTTTAACAAATCTTCGGTAGTAACCGGCCAAGCCCAAAAAGCTTCTAACCTCAGTTACATTTTT
*
33920560 AGGTGGTTTGCATTCAACGATAGCAGAGATCTTACTTGGATCAACTC
66 AGGTGGTTTCCATTCAACGATAGCAGAGATCTTACTTGGATCAACTC
33920607 GAATGCCATC
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (114 bp):
CCTTTAACAAATCTTCGGTAGTAACCGGCCAAGCCCAAAAAGCTTCTAACCTCAGTTACATTTTT
AGGTGGTTTCCATTCAACGATAGCAGAGATCTTACTTGGATCAACTCAA
Found at i:33930935 original size:35 final size:35
Alignment explanation
Indices: 33930889--33930960 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
33930879 TTATTACCTT
33930889 ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
1 ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
33930924 ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
1 ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
33930959 AT
1 AT
33930961 ACATACCTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (35 bp):
ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
Found at i:33931257 original size:93 final size:93
Alignment explanation
Indices: 33931144--33931315 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
33931134 CGCCCATAAG
* *
33931144 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
33931209 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
33931237 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
*
33931302 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
33931316 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:33931312 original size:46 final size:46
Alignment explanation
Indices: 33931137--33931312 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
33931127 TGTAACCCGC
* * *
33931137 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
33931183 CAATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33931233 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33931276 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33931313 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.57
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33938057 original size:35 final size:35
Alignment explanation
Indices: 33938011--33938082 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
33938001 TTATTACCTT
33938011 ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
1 ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
33938046 ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
1 ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
33938081 AT
1 AT
33938083 ACATACCTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (35 bp):
ATCGTGGTTGTATCAATACTCAACCCGAGGGTTAA
Found at i:33938379 original size:93 final size:93
Alignment explanation
Indices: 33938266--33938438 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
33938256 CGCCCATAAG
* *
33938266 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
33938331 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
33938359 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTGGGACTCAACTCG
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
33938424 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
33938439 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33938434 original size:46 final size:46
Alignment explanation
Indices: 33938259--33938434 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
33938249 TGTAACCCGC
* * *
33938259 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
33938305 CAATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33938355 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
33938398 CCATAAGTGAACTGGGACTCAACTCGACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33938435 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33939971 original size:34 final size:34
Alignment explanation
Indices: 33939930--33940029 Score: 137
Period size: 34 Copynumber: 2.9 Consensus size: 34
33939920 GCCCAATTGA
*
33939930 TACTGTTACTGAAATGGGCTCAGGGCCAGACTCC
1 TACTGTTACTGAAATGGGCTCAGGCCCAGACTCC
* * *
33939964 TACTGTTACTAAAATGGGCTCATGCCCAGACTGC
1 TACTGTTACTGAAATGGGCTCAGGCCCAGACTCC
* * *
33939998 TACTGTTACCGAAATGGGCTAAGGCCCTGACT
1 TACTGTTACTGAAATGGGCTCAGGCCCAGACT
33940030 AAGACTGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (34 bp):
TACTGTTACTGAAATGGGCTCAGGCCCAGACTCC
Found at i:33942373 original size:49 final size:49
Alignment explanation
Indices: 33942299--33942398 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
33942289 TCAATTTCTA
33942299 AAAACCTGGGGGTTATGGTTAAGAGTACTTCGAGCGAGATTACTATACT
1 AAAACCTGGGGGTTATGGTTAAGAGTACTTCGAGCGAGATTACTATACT
* *
33942348 AAAACCTGGGGGTTATGGTTGAGAGTACTTCGAGCGAGATTACTGTACT
1 AAAACCTGGGGGTTATGGTTAAGAGTACTTCGAGCGAGATTACTATACT
33942397 AA
1 AA
33942399 TTCCGTTAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (49 bp):
AAAACCTGGGGGTTATGGTTAAGAGTACTTCGAGCGAGATTACTATACT
Found at i:33952374 original size:43 final size:42
Alignment explanation
Indices: 33952327--33952413 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
33952317 AAACGTCATT
* *
33952327 TTACATGTAATCAAATATCGATGCC-ACTGTCTCAGACAGGGTC
1 TTACATGGAATCAAATA-CGATGCCTA-TGTCCCAGACAGGGTC
* *
33952370 TTACATGGAATCAAATACGTTGCCTATGTCCCAGACATGGTC
1 TTACATGGAATCAAATACGATGCCTATGTCCCAGACAGGGTC
33952412 TT
1 TT
33952414 CCACGTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
42 22 0.56
43 17 0.44
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
TTACATGGAATCAAATACGATGCCTATGTCCCAGACAGGGTC
Found at i:33952425 original size:43 final size:43
Alignment explanation
Indices: 33952335--33952438 Score: 97
Period size: 42 Copynumber: 2.4 Consensus size: 43
33952325 TTTTACATGT
* * *
33952335 AATCAAATATCGATGCCACTGTCTCAGACAGGGTCTTACATGG
1 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGA
* * *
33952378 AATCAAATA-CGTTGCCTA-TGTCCCAGACATGGTCTTCCACGTA
1 AATCAAATATCGATGCC-ACTGTCCCAGACAGGGTCTTACACG-A
*
33952421 AATCATAA-GTCGATGCCA
1 AATCA-AATATCGATGCCA
33952439 ACGTCTTAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
42 25 0.51
43 16 0.33
44 8 0.16
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGA
Found at i:33956610 original size:18 final size:18
Alignment explanation
Indices: 33956587--33956622 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33956577 TTAATTGACA
33956587 CTAAGTGTGCGAGTTCAT
1 CTAAGTGTGCGAGTTCAT
33956605 CTAAGTGTGCGAGTTCAT
1 CTAAGTGTGCGAGTTCAT
33956623 TGAATGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (18 bp):
CTAAGTGTGCGAGTTCAT
Found at i:33957149 original size:27 final size:27
Alignment explanation
Indices: 33957117--33957173 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
33957107 TGAAAGCAGG
33957117 AGTATACATTCATTAGTAAATAAGCTA
1 AGTATACATTCATTAGTAAATAAGCTA
* * *
33957144 AGTATACGTTCATTATTAAATAAGTTA
1 AGTATACATTCATTAGTAAATAAGCTA
33957171 AGT
1 AGT
33957174 GAATTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (27 bp):
AGTATACATTCATTAGTAAATAAGCTA
Found at i:33965599 original size:30 final size:32
Alignment explanation
Indices: 33965523--33965605 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 32
33965513 TCAATCTCAA
33965523 CATAT-AC-TGGGCCGAAGCCTTTGCATTATT
1 CATATCACTTGGGCCGAAGCCTTTGCATTATT
* *
33965553 CATGTCACTT-GGCCGAAGCCTTTTCATTA-T
1 CATATCACTTGGGCCGAAGCCTTTGCATTATT
33965583 CATATCA-TTGGGCCGAAGCCTTT
1 CATATCACTTGGGCCGAAGCCTTT
33965606 ACTGTAAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.04
30 24 0.51
31 20 0.43
32 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (32 bp):
CATATCACTTGGGCCGAAGCCTTTGCATTATT
Found at i:33965897 original size:26 final size:25
Alignment explanation
Indices: 33965828--33965897 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
33965818 TCTTTTAATG
*
33965828 ACTGGGGCAAAGCCCTTTTTGATAA
1 ACTGGGGCAAAGCCCTTTTCGATAA
*
33965853 ACTGGGGCAAAGCCCTTTTCGGTAA
1 ACTGGGGCAAAGCCCTTTTCGATAA
33965878 ACTGGGGCAAAAGCCCTTTT
1 ACTGGGGC-AAAGCCCTTTT
33965898 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 31 0.74
26 11 0.26
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
ACTGGGGCAAAGCCCTTTTCGATAA
Found at i:33970927 original size:17 final size:18
Alignment explanation
Indices: 33970905--33970938 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33970895 GACCTTAGCC
33970905 CATTAT-AGAATAAGAAA
1 CATTATCAGAATAAGAAA
*
33970922 CATTATCAGAATTAGAA
1 CATTATCAGAATAAGAA
33970939 TCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (18 bp):
CATTATCAGAATAAGAAA
Found at i:33970938 original size:6 final size:6
Alignment explanation
Indices: 33970926--33971019 Score: 66
Period size: 6 Copynumber: 15.3 Consensus size: 6
33970916 AAGAAACATT
* * * * *
33970926 ATCAGA ATTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACATA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
33970975 ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
33971020 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
5 3 0.05
6 56 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:33970985 original size:31 final size:31
Alignment explanation
Indices: 33970947--33971019 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
33970937 AATCAAAATG
* * *
33970947 AGAATCAGAATCAGAATCAGGTGACATAATT
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
33970978 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
33971009 AAAATCAGAAT
1 AGAATCAGAAT
33971020 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:33971553 original size:27 final size:27
Alignment explanation
Indices: 33971514--33971624 Score: 154
Period size: 27 Copynumber: 4.1 Consensus size: 27
33971504 TCGATCAGTC
* *
33971514 AACAGATA-TTGTGACAGAGTCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
33971540 ATACAGATA-TTGTGGCAGAGCCACCAG
1 A-ACAGATATTTGTGGCAGAGCCACCAG
*
33971567 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
*
33971594 AAACAGATATTTGTGGCATAGCCACCAG
1 -AACAGATATTTGTGGCAGAGCCACCAG
33971622 AAC
1 AAC
33971625 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
26 8 0.10
27 44 0.56
28 27 0.34
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
AACAGATATTTGTGGCAGAGCCACCAG
Found at i:33971973 original size:81 final size:81
Alignment explanation
Indices: 33971848--33972279 Score: 593
Period size: 81 Copynumber: 5.3 Consensus size: 81
33971838 GGGGCAAAAT
* * * **
33971848 GGTAATTTTACCCCACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
33971913 CCTACAGGGGTATTTC
66 CCTACAAGGGTATTTC
* *
33971929 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
* *
33971994 CCTACAGGGGTATTTT
66 CCTACAAGGGTATTTC
* * * *
33972010 GATAATTCTATCCTAC-AGGGATATTTTGGTAATTCTACCTTACAGGGGTATTTC-GATAATTCT
1 GGTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCT
33972073 A-CCTACAAGGGTATTTC
64 ACCCTACAAGGGTATTTC
* * *
33972090 GGTAATTCTACCCTACAAAGGTATTTCCGTAATTCTACCCTATAGGGGTATTTC-GATAATTCTA
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTA
*
33972154 CCCTACAAGGGTATTTT
65 CCCTACAAGGGTATTTC
* * *
33972171 AGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTATCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
33972236 CCTACAACGGTATTTC
66 CCTACAAGGGTATTTC
* *
33972252 GATAATTCTACCCTACAGGGGTATTTCG
1 GGTAATTCTACCCTACAAGGGTATTTCG
33972280 ATAACTTTCC
Statistics
Matches: 311, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
80 72 0.23
81 238 0.77
82 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
CCTACAAGGGTATTTC
Found at i:33972278 original size:27 final size:27
Alignment explanation
Indices: 33971850--33972283 Score: 522
Period size: 27 Copynumber: 16.1 Consensus size: 27
33971840 GGCAAAATGG
* * *
33971850 TAATTTTACCCCACAGGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
33971876 GTAATTCTACCCTACAGGGGTATTTC-A
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
33971903 GTAATTCTACCCTACAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
33971931 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
33971958 TAATTCTACCATACAGGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
33971984 GTAATTCTACCCTACAGGGGTATTTTGA
1 -TAATTCTACCCTACAGGGGTATTTCGA
* * * *
33972012 TAATTCTATCCTACAGGGATATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
33972039 TAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
33972066 TAATTCTA-CCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
**
33972092 TAATTCTACCCTACAAAGGTATTTCCG-
1 TAATTCTACCCTACAGGGGTATTT-CGA
*
33972119 TAATTCTACCCTATAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
33972146 TAATTCTACCCTACAAGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
33972172 GTAATTCTACCCTACAAGGGTATTTTGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
33972200 TAATTCTATCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
**
33972226 GTAATTCTACCCTACAACGGTATTTCGA
1 -TAATTCTACCCTACAGGGGTATTTCGA
33972254 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
33972281 TAA
1 TAA
33972284 CTTTCCTGAT
Statistics
Matches: 357, Mismatches: 39, Indels: 22
0.85 0.09 0.05
Matches are distributed among these distances:
26 26 0.07
27 327 0.92
28 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:33974340 original size:6 final size:6
Alignment explanation
Indices: 33974310--33974402 Score: 50
Period size: 6 Copynumber: 15.3 Consensus size: 6
33974300 CAAAAACATT
* * * *
33974310 ATCAGA ATTAGA ATCA-A ATTGAGA ATCAGA ATCA-A ATCAG- GTGACATA
1 ATCAGA ATCAGA ATCAGA A-TCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
33974358 ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
33974403 ATGAATGCAA
Statistics
Matches: 64, Mismatches: 14, Indels: 18
0.67 0.15 0.19
Matches are distributed among these distances:
5 10 0.16
6 45 0.70
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (6 bp):
ATCAGA
Found at i:33974398 original size:31 final size:30
Alignment explanation
Indices: 33974333--33974402 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
33974323 TCAAATTGAG
* * * *
33974333 AATCAGAATCAAATCAGGTGACATAATTAG
1 AATCAGAATCAAATCAGGTAACAGAATCAA
*
33974363 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCA-AATCAGGTAACAGAATCAA
33974394 AATCAGAAT
1 AATCAGAAT
33974403 ATGAATGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (30 bp):
AATCAGAATCAAATCAGGTAACAGAATCAA
Found at i:33974993 original size:28 final size:28
Alignment explanation
Indices: 33974897--33975006 Score: 136
Period size: 27 Copynumber: 4.0 Consensus size: 28
33974887 TCGATCAGTC
* * *
33974897 AACAGATA-TTGTGACAGAGTCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
* *
33974924 TACAGATA-TTGTGGCAGAGCCACCAG-
1 AACAGATATTTGTGGCATAGCCACCAGA
*
33974950 AACAGATATTTGTGGCATAACCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
*
33974978 AATAGATATTTGTGGCATAGCCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
33975006 A
1 A
33975007 CGCTTCCTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
26 7 0.10
27 39 0.53
28 27 0.37
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (28 bp):
AACAGATATTTGTGGCATAGCCACCAGA
Found at i:33975260 original size:27 final size:27
Alignment explanation
Indices: 33975231--33975663 Score: 607
Period size: 27 Copynumber: 16.0 Consensus size: 27
33975221 GGGGCAAAAT
* * *
33975231 GGTAATTTTACCCTGCAAGGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
*
33975258 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33975285 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
33975312 ATTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33975339 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33975366 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33975393 GGTAATTCTACCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33975420 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33975447 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33975474 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33975501 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33975528 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33975555 GGTAATTCCACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33975582 GGTAATTCCACCGTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
33975609 GAAAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33975636 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33975663 G
1 G
33975664 ATAACTTTCC
Statistics
Matches: 368, Mismatches: 37, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
26 2 0.01
27 366 0.99
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:33977256 original size:40 final size:40
Alignment explanation
Indices: 33977179--33977395 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
33977169 AAACCAAGTA
* * * *
33977179 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
33977218 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33977258 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
33977298 CCTTCGGGACTTAGCCCGGATATAGTAACTTTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33977338 CCTTCGGG-CTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33977377 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33977396 TTATCATCCG
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 46 0.29
40 110 0.70
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Done.