Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 153 of 203
Found at i:48695066 original size:58 final size:57
Alignment explanation
Indices: 48694984--48695134 Score: 222
Period size: 58 Copynumber: 2.7 Consensus size: 57
48694974 CATTTCCGAG
*
48694984 TCATTTTGATTTGGAGAAAACCACATTCATTTTCAAATGTTCCCTATTTCTCCATTT
1 TCATTTTCATTTGGAGAAAACCACATTCATTTTCAAATGTTCCCTATTTCTCCATTT
*
48695041 TCATTTTCATTTGGGAGAAAACCACATTCATTTTCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTT-GGAGAAAACCACATTCATTTTCAAATGTTCCCTATTTCTCCATTT
* *
48695099 TCA---T--TTTGGAAAAAACCACATCCATTTTCAAATGTT
1 TCATTTTCATTTGGAGAAAACCACATTCATTTTCAAATGTT
48695135 TTTCATTTCT
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
52 27 0.30
53 3 0.03
55 1 0.01
57 11 0.12
58 47 0.53
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (57 bp):
TCATTTTCATTTGGAGAAAACCACATTCATTTTCAAATGTTCCCTATTTCTCCATTT
Found at i:48695150 original size:52 final size:52
Alignment explanation
Indices: 48694984--48695151 Score: 178
Period size: 52 Copynumber: 3.1 Consensus size: 52
48694974 CATTTCCGAG
* * * *
48694984 TCATTTTGATTT-GGAGAAAACCACATTCATTTTCAAATGTTCCCTATTTCTCCATTT
1 TCATTTTCATTTGGGAAAAAACCACATCCATTTTCAAATGTTTCCTA-TT-T-C---T
* *
48695041 TCATTTTCATTTGGGAGAAAACCACATTCATTTTCAAATGTTTCCTATTTCT
1 TCATTTTCATTTGGGAAAAAACCACATCCATTTTCAAATGTTTCCTATTTCT
* * *
48695093 CCATTTTCATTTTGGAAAAAACCACATCCATTTTCAAATGTTT-TTCATTTCT
1 TCATTTTCATTTGGGAAAAAACCACATCCATTTTCAAATGTTTCCT-ATTTCT
48695145 TCATTTT
1 TCATTTT
48695152 TACTATTTCT
Statistics
Matches: 101, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
51 1 0.01
52 52 0.51
55 1 0.01
56 1 0.01
57 13 0.13
58 33 0.33
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (52 bp):
TCATTTTCATTTGGGAAAAAACCACATCCATTTTCAAATGTTTCCTATTTCT
Found at i:48699353 original size:12 final size:12
Alignment explanation
Indices: 48699336--48699361 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48699326 CTATTAAGTC
48699336 TAGGTCAACAAT
1 TAGGTCAACAAT
48699348 TAGGTCAACAAT
1 TAGGTCAACAAT
48699360 TA
1 TA
48699362 TGGATGAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (12 bp):
TAGGTCAACAAT
Found at i:48707092 original size:33 final size:34
Alignment explanation
Indices: 48707014--48707098 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 34
48707004 TGATAAATTT
*
48707014 AAAAATATATAAAAAT-AAAAAAATATTATTCACG
1 AAAAATA-ATAATAATAAAAAAAATATTATTCACG
*
48707048 AGAAATAATAATATATAAAAATAAATATT-TTCA-G
1 AAAAATAATAATA-ATAAAAA-AAATATTATTCACG
48707082 AAAAAT-ATAATAATAAA
1 AAAAATAATAATAATAAA
48707099 TTTAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
32 5 0.11
33 11 0.24
34 14 0.31
35 8 0.18
36 7 0.16
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (34 bp):
AAAAATAATAATAATAAAAAAAATATTATTCACG
Found at i:48708300 original size:170 final size:169
Alignment explanation
Indices: 48708019--48708343 Score: 569
Period size: 170 Copynumber: 1.9 Consensus size: 169
48708009 TGGTGCCTTA
* * * *
48708019 AGTGTAGTATATTCGTTTGTAAATTTGTAATTTTTTTGAAAAAATTGTTTTATTAACCAATGTAA
1 AGTGTAGTATATTCATTTGTAAACTTGTAACTTTTTCGAAAAAATTGTTTTATTAACCAATGTAA
*
48708084 CAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGATGAATAC
66 CAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGACGAATAC
*
48708149 ACTACACTTAGGGCATTAGATCCAACACTCAGGGCTCTG
131 ACTACACTCAGGGCATTAGATCCAACACTCAGGGCTCTG
*
48708188 AGTGTAGTATATTCATTTGTAAACTTGTAACTTTTTCGAAAAAAATTGTTTTATTAACCAATGTC
1 AGTGTAGTATATTCATTTGTAAACTTGTAACTTTTTCG-AAAAAATTGTTTTATTAACCAATGTA
48708253 ACAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGACGAATA
65 ACAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGACGAATA
*
48708318 TACTACACTCAGGGCATTAGATCCAA
130 CACTACACTCAGGGCATTAGATCCAA
48708344 TAGTCTTTCA
Statistics
Matches: 147, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
169 34 0.23
170 113 0.77
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (169 bp):
AGTGTAGTATATTCATTTGTAAACTTGTAACTTTTTCGAAAAAATTGTTTTATTAACCAATGTAA
CAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGACGAATAC
ACTACACTCAGGGCATTAGATCCAACACTCAGGGCTCTG
Found at i:48717247 original size:25 final size:25
Alignment explanation
Indices: 48717209--48717256 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
48717199 TCGAACAAAT
48717209 CAAATAAAACACAGAACCAAAATCA
1 CAAATAAAACACAGAACCAAAATCA
* *
48717234 CAAATCAAATACAGAACCAAAAT
1 CAAATAAAACACAGAACCAAAAT
48717257 ATTTTCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.10
Consensus pattern (25 bp):
CAAATAAAACACAGAACCAAAATCA
Found at i:48726797 original size:79 final size:82
Alignment explanation
Indices: 48726653--48726870 Score: 220
Period size: 79 Copynumber: 2.7 Consensus size: 82
48726643 AAATCACGTA
* * ** * *
48726653 CCTTCGGAAT-TTAA-CCGGATATAG-CTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
48726714 TAGTAGCTCGCACAATTG
65 TAGTAGCTCGCACAAATG
* *
48726732 CCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-
1 CCTTC-GGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
48726793 TAGTATCTCGCACAAATG
65 TAGTAGCTCGCACAAATG
** * **
48726811 CCTTCGGATCTTAGTCCGGATATGGTCATTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
48726871 CATCATTCAA
Statistics
Matches: 116, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
78 3 0.03
79 62 0.53
80 51 0.44
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (82 bp):
CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATAT
AGTAGCTCGCACAAATG
Found at i:48726870 original size:40 final size:40
Alignment explanation
Indices: 48726667--48726870 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
48726657 CGGAATTTAA
** *
48726667 CCGGATATAGCTA-CTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TATCTCGCACAAATGCCTTCGGGACTTAGC
* * * *
48726707 CCGGTTATAGTAGCTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
* *
48726747 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
*
48726786 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTATCTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48726826 CCGGATATGGTCATTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ATCTCGCACAAATGCCTTCGGGACTTAGC
48726866 CCGGA
1 CCGGA
48726871 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 89 0.64
41 14 0.10
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48734693 original size:52 final size:52
Alignment explanation
Indices: 48734627--48734729 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
48734617 ACAAATTTTC
48734627 GATATCATACTTGCTTCACATTACCAACCCTTATGTACATACAAAAAAGATT
1 GATATCATACTTGCTTCACATTACCAACCCTTATGTACATACAAAAAAGATT
48734679 GATATCATACTTGCTTCACATTACCAACCCTTATGTACATACAAAAAAGAT
1 GATATCATACTTGCTTCACATTACCAACCCTTATGTACATACAAAAAAGAT
48734730 CAACTTAGCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (52 bp):
GATATCATACTTGCTTCACATTACCAACCCTTATGTACATACAAAAAAGATT
Found at i:48735037 original size:79 final size:82
Alignment explanation
Indices: 48734926--48735110 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
48734916 GCTACTCGTT
* * * *
48734926 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAGCTCGCACAAATGCCTTC-GGATCTGAACCC
* *
48734989 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
48735006 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTGAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAGCTCGCACAAATGCCTTCGGATCTGAACCCG
* *
48735069 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
48735086 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48735111 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAGCTCGCACAAATGCCTTCGGATCTGAACCCG
GATATAGTAACTTAGCA
Found at i:48735110 original size:40 final size:39
Alignment explanation
Indices: 48734907--48735110 Score: 209
Period size: 40 Copynumber: 5.1 Consensus size: 39
48734897 CGGAATTTAA
** *
48734907 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48734947 CCGGTTATAGTAGCTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
*
48734987 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
48735026 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTGAGT
1 CCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* *
48735066 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
48735106 CCGGA
1 CCGGA
48735111 CATCATTCAA
Statistics
Matches: 137, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
38 3 0.02
39 33 0.24
40 87 0.64
41 14 0.10
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48745740 original size:25 final size:25
Alignment explanation
Indices: 48745692--48745740 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
48745682 GTTTTTTTAT
*
48745692 TATTTAATATTAACATAATTATTTC
1 TATTTAATATTAACATAATAATTTC
*
48745717 TATTTAAATATTAATATAA-AATTT
1 TATTT-AATATTAACATAATAATTT
48745741 AAATTTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTTAATATTAACATAATAATTTC
Found at i:48748055 original size:2 final size:2
Alignment explanation
Indices: 48748048--48748076 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48748038 TTACGTCCCC
48748048 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
48748077 TACTGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:48750584 original size:13 final size:13
Alignment explanation
Indices: 48750566--48750591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48750556 ATTTTAACTG
48750566 TTTTCATTTCTAT
1 TTTTCATTTCTAT
48750579 TTTTCATTTCTAT
1 TTTTCATTTCTAT
48750592 AGATAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCATTTCTAT
Found at i:48758930 original size:43 final size:43
Alignment explanation
Indices: 48758864--48758989 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 43
48758854 GGCTCGTACA
*
48758864 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTGAACACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTGAACACATATCG
** *
48758907 ATGCCCCTGTCCCAGACAGGGTCTTACA--TGAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTGAA-CACATATCG
* ** *
48758948 ATGCCAATGTCTCAGACATAGTCTTACATGTAAACACATATC
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTGAACACATATC
48758990 AAAAATCCTA
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
41 29 0.43
42 10 0.15
43 27 0.40
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTGAACACATATCG
Found at i:48759741 original size:10 final size:10
Alignment explanation
Indices: 48759728--48759753 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
48759718 AAAAACATCA
48759728 AAAATCGAAC
1 AAAATCGAAC
48759738 AAAATCGAAC
1 AAAATCGAAC
48759748 AAAATC
1 AAAATC
48759754 CATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAATCGAAC
Found at i:48759888 original size:23 final size:23
Alignment explanation
Indices: 48759861--48759906 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
48759851 TAATTTGTTA
48759861 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
48759884 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
48759907 TACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:48763868 original size:2 final size:2
Alignment explanation
Indices: 48763863--48763888 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48763853 CACACACACA
48763863 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
48763889 TTTAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48771831 original size:24 final size:24
Alignment explanation
Indices: 48771769--48771831 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
48771759 TCATGTACAT
* *
48771769 ATAAGCTCATAGGAGCTATGAATCG
1 ATAAGCTCATA-CAACTATGAATCG
* *
48771794 GTATGCTC-TCACAACTATGAATCG
1 ATAAGCTCAT-ACAACTATGAATCG
48771818 ATAAGCTCATACAA
1 ATAAGCTCATACAA
48771832 GCTGTGGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
ATAAGCTCATACAACTATGAATCG
Found at i:48779743 original size:3 final size:3
Alignment explanation
Indices: 48779735--48779793 Score: 84
Period size: 3 Copynumber: 19.3 Consensus size: 3
48779725 AATAGAAACA
*
48779735 AAC AAC AAC AAC AAC AAC AAC AAC AAA AAC AAC AAC AAC AAC AAC AGAGC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A-A-C
48779785 AAC AA- AAC A
1 AAC AAC AAC A
48779794 GTGACAGGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.88
4 2 0.04
5 2 0.04
ACGTcount: A:0.68, C:0.29, G:0.03, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:48780412 original size:23 final size:23
Alignment explanation
Indices: 48780376--48780421 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48780366 CCCCTCCACA
48780376 TTTTTAATTATTTTAATTCAATT
1 TTTTTAATTATTTTAATTCAATT
* * *
48780399 TTTTTTATTTTTTTTATTCAATT
1 TTTTTAATTATTTTAATTCAATT
48780422 AATAATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTAATTATTTTAATTCAATT
Found at i:48780621 original size:5 final size:5
Alignment explanation
Indices: 48780611--48780635 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48780601 AAAATCCAAT
48780611 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
48780636 TTATTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:48780728 original size:23 final size:22
Alignment explanation
Indices: 48780675--48780735 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
48780665 TTTAAGCTTG
*
48780675 ATATTATTTTAAATTCATCATTA
1 ATATTA-TTTAAATTTATCATTA
48780698 ATA-T-TTTAAATTTATCATATA
1 ATATTATTTAAATTTATCAT-TA
* *
48780719 TTATTATTTACATTTAT
1 ATATTATTTAAATTTAT
48780736 TGTCTATTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 13 0.41
21 4 0.12
22 2 0.06
23 13 0.41
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTATTTAAATTTATCATTA
Found at i:48785181 original size:41 final size:41
Alignment explanation
Indices: 48785136--48785372 Score: 145
Period size: 41 Copynumber: 5.3 Consensus size: 41
48785126 CTATATTTAA
48785136 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
* * * ** *
48785177 ATTTTTTTAATATTATACATATATTCATTTACGTATGTAAGCTATATTTA-A
1 ATTTTATTAATA--ATA-A-AT-TT-A-TAACTTAAATAAG---TA-TTACT
48785228 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
* * * ** *
48785269 ATTTTTTTAATATTATACATATATTCATTTACGTATGTAAGCTATATTTA-A
1 ATTTTATTAATA--ATA-A-AT-TT-A-TAACTTAAATAAG---TA-TTACT
48785320 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
*
48785361 ATTTTTTTAATA
1 ATTTTATTAATA
48785373 TTATACATAT
Statistics
Matches: 147, Mismatches: 25, Indels: 48
0.67 0.11 0.22
Matches are distributed among these distances:
40 6 0.04
41 37 0.25
43 6 0.04
44 20 0.14
45 6 0.04
46 8 0.05
47 6 0.04
48 20 0.14
49 6 0.04
51 26 0.18
52 6 0.04
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (41 bp):
ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
Found at i:48785207 original size:51 final size:51
Alignment explanation
Indices: 48785152--48785390 Score: 166
Period size: 42 Copynumber: 5.1 Consensus size: 51
48785142 TTAATAATAA
48785152 ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
1 ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
* * * * **
48785203 A-TT-T-ACGT--AT--GTA--AGCTA-TATTTAAATTTTATTA-ATA-ATAA
1 ATTTATAACTTAAATAAGTATTA-CTATTTTTTTAATATTA-TACATATATTC
48785244 ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
1 ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
* * * * **
48785295 A-TT-T-ACGT--AT--GTA--AGCTA-TATTTAAATTTTATTA-ATA-ATAA
1 ATTTATAACTTAAATAAGTATTA-CTATTTTTTTAATATTA-TACATATATTC
48785336 ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
1 ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
48785387 ATTT
1 ATTT
48785391 TATCGTGAGG
Statistics
Matches: 136, Mismatches: 24, Indels: 56
0.63 0.11 0.26
Matches are distributed among these distances:
41 6 0.04
42 32 0.24
43 12 0.09
44 12 0.09
46 8 0.06
48 12 0.09
49 12 0.09
50 32 0.24
51 10 0.07
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.50
Consensus pattern (51 bp):
ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
Found at i:48785264 original size:92 final size:92
Alignment explanation
Indices: 48785107--48785390 Score: 568
Period size: 92 Copynumber: 3.1 Consensus size: 92
48785097 GTTTAAAAGC
48785107 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
48785172 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
48785199 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
48785264 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
48785291 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
48785356 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
48785383 ATTCATTT
1 ATTCATTT
48785391 TATCGTGAGG
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 192 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (92 bp):
ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
TTACTATTTTTTTAATATTATACATAT
Found at i:48790703 original size:66 final size:65
Alignment explanation
Indices: 48790596--48790766 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
48790586 GAGCAAATTA
* * * *
48790596 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
48790660 G
65 G
* *
48790661 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
48790726 G
65 G
* * * * *
48790727 CAGCAGCTTAAAGCAGATGCGGCAGCAAAAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
48790767 CGGCAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:48790780 original size:21 final size:21
Alignment explanation
Indices: 48790757--48790845 Score: 124
Period size: 21 Copynumber: 4.2 Consensus size: 21
48790747 GGCAGCAAAA
* *
48790757 GAAGCAGAGGCGGCAGCGAGA
1 GAAGCAGAGGCTGCAGCGAGG
* *
48790778 GAAGTACAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
**
48790799 GAAGCAGAGGCTAAAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
48790820 GAAGCAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
48790841 GAAGC
1 GAAGC
48790846 CGAGCAGCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.33, C:0.18, G:0.45, T:0.04
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCGAGG
Found at i:48790794 original size:42 final size:42
Alignment explanation
Indices: 48790748--48790836 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
48790738 AGCAGATGCG
** *
48790748 GCAGCAAAAGAAGCAGAGGCGGCAGCGAGAGAAGTACAGGCT
1 GCAGCAAAAGAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCT
* ** * * *
48790790 GCAGCGAGGGAAGCAGAGGCTAAAGCGAGGGAAGCAGAGGCT
1 GCAGCAAAAGAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCT
48790832 GCAGC
1 GCAGC
48790837 GAGGGAAGCC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.19, G:0.42, T:0.04
Consensus pattern (42 bp):
GCAGCAAAAGAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCT
Found at i:48791232 original size:43 final size:42
Alignment explanation
Indices: 48791199--48791451 Score: 215
Period size: 43 Copynumber: 5.9 Consensus size: 42
48791189 AGGTGTTGGC
* * *
48791199 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGAT-ATGGT
* ** *
48791242 CTTTAGCAGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGAT-ATGGT
**
48791285 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGAT-TAGGTT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAT-GG-T
* * * * *
48791328 CTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCG-TTTGTGGTCAAAGCGCCGCTAAAGAT-ATGGT
* **
48791372 CTATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGAT-TAGGTT
1 CT-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAT-GG-T
* * * *
48791415 CTTTCGTGGCGTTTGTGGTCAAAGTGCCGCTATAGAT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGAT
48791452 CAGGGCCGCT
Statistics
Matches: 168, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 6 0.04
43 128 0.76
44 29 0.17
45 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (42 bp):
CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATATGGT
Found at i:48791309 original size:86 final size:86
Alignment explanation
Indices: 48791174--48791432 Score: 295
Period size: 87 Copynumber: 3.0 Consensus size: 86
48791164 GCGTTTTTAA
* * ** * * * ** *
48791174 AAAAAACGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAG
1 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAG
* **
48791239 GGTCTTTAGCAGCGTTTGTGG
66 GTTCTTTAGTGGCGTTTGTGG
48791260 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAG
1 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAG
*
48791325 GTTCTTTAGTGGCGTTTTGTTG
66 GTTCTTTAGTGGCG-TTTGTGG
*** * * * *
48791347 TCGAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGATTA
1 AAAAAGCGCCACTAAAGATCATGGTCT-TTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTA
*
48791411 GGTTCTTTCGTGGCGTTTGTGG
65 GGTTCTTTAGTGGCGTTTGTGG
48791433 TCAAAGTGCC
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
86 72 0.49
87 74 0.50
88 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (86 bp):
AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAG
GTTCTTTAGTGGCGTTTGTGG
Found at i:48791384 original size:87 final size:86
Alignment explanation
Indices: 48791219--48791456 Score: 325
Period size: 87 Copynumber: 2.8 Consensus size: 86
48791209 GTTTTTGGTC
* * ** ** * * *
48791219 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
*
48791284 TCTTTAGCGGCGTTTGTGGGG
66 TCTTTAGCGGCGTTTGAGGGG
* *
48791305 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTCAAAGCGCCGCTATAGATCAGG
48791370 GTCTATT-GCGGCGTTTGAGGGG
65 GTCT-TTAGCGGCGTTTGAGGGG
* *
48791392 AAAGCGCCGCTAAAGATTAGGTTCTTTCGTGGCGTTTGTGGTCAAAGTGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
48791457 CCGCTAAAGG
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
86 58 0.43
87 74 0.55
88 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
TCTTTAGCGGCGTTTGAGGGG
Found at i:48791384 original size:130 final size:129
Alignment explanation
Indices: 48791199--48791451 Score: 321
Period size: 130 Copynumber: 2.0 Consensus size: 129
48791189 AGGTGTTGGC
*
48791199 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGAGGAAAA
*
48791264 AGCGCCACTAAAGATCATGG-TCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTT
66 AGCGCCACTAAAGATCA-GGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAGGTT
* * * * * **
48791328 CTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGG
1 CTTTAGTGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCAGCGTTTGAGGAA
* * * * * * *
48791392 AAAGCGCCGCTAAAGATTAGGTTCTTTCGTGGCGTTTGTGGTCAAAGTGCCGCTATAGAT
64 AAAGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGAT
48791452 CAGGGCCGCT
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
129 17 0.16
130 86 0.82
131 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (129 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGAGGAAAA
AGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAGGTT
Found at i:48798385 original size:7 final size:7
Alignment explanation
Indices: 48798374--48798409 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
48798364 GATCAGTAGC
*
48798374 AAGTGAC
1 AAGTGAT
48798381 AAGTGAT
1 AAGTGAT
48798388 AAGTGAT
1 AAGTGAT
48798395 AAGTGAT
1 AAGTGAT
48798402 AAGTGAT
1 AAGTGAT
48798409 A
1 A
48798410 GCTTCAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.28, T:0.25
Consensus pattern (7 bp):
AAGTGAT
Found at i:48798429 original size:65 final size:65
Alignment explanation
Indices: 48798319--48798453 Score: 182
Period size: 65 Copynumber: 2.1 Consensus size: 65
48798309 TGAGTACTTC
* * * * * *
48798319 TGATCAGTGATAAGTGATAATTGGTTGCTTTAACTACACTTATCTGATCAGT-AGCAAGTGACAA
1 TGATAAGTGATAAGTGATAAGTGATAGCTTCAACTACACTAATCTGATCAGTGA-CAAGTGACAA
48798383 G
65 G
* *
48798384 TGATAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTAATCTGATCAGTGACAAGTGATAAG
1 TGATAAGTGATAAGTGATAAGTGATAGCTTCAACTACACTAATCTGATCAGTGACAAGTGACAAG
48798449 TGATA
1 TGATA
48798454 GCTTCAGCTA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 60 0.98
66 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (65 bp):
TGATAAGTGATAAGTGATAAGTGATAGCTTCAACTACACTAATCTGATCAGTGACAAGTGACAAG
Found at i:48798452 original size:44 final size:44
Alignment explanation
Indices: 48798384--48798497 Score: 192
Period size: 44 Copynumber: 2.6 Consensus size: 44
48798374 AAGTGACAAG
* *
48798384 TGATAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTAATC
1 TGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTAATC
*
48798428 TGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTAATC
*
48798472 TGATCAGTGACAAGTGACAAGTGATA
1 TGATCAGTGACAAGTGATAAGTGATA
48798498 AGAGATAAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (44 bp):
TGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTAATC
Found at i:48798495 original size:58 final size:57
Alignment explanation
Indices: 48798433--48798603 Score: 185
Period size: 58 Copynumber: 3.1 Consensus size: 57
48798423 TAATCTGATC
*
48798433 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGTGACAAGTGACA
* * * * *
48798491 AGTGATAAGAGATAAGTGGTAGCATTAACTACACTTATCTAATCAGTG---A-TAAC-
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * * *
48798544 CG-G-CAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATTAGGGACAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACA
48798599 AGTGA
1 AGTGA
48798604 TCATACGTTA
Statistics
Matches: 89, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
50 20 0.22
51 16 0.18
52 1 0.01
53 2 0.02
54 5 0.06
55 2 0.02
56 1 0.01
58 40 0.45
59 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (57 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:48798508 original size:109 final size:106
Alignment explanation
Indices: 48798317--48798604 Score: 312
Period size: 109 Copynumber: 2.7 Consensus size: 106
48798307 TTTGAGTACT
* * * *
48798317 TCTGATCAGTGATAAGTGATAATTGGTTGCTTTAACTACACTTATCTGATCAGT-AGCAAGTGAC
1 TCTGATCAGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGA-CAAGTGAC
* * * *
48798381 AAGTGATAAGTGATAAGTGATAAGTGA-TAGCTTCAGC-TACACTAA
64 AAGTGATAAGAGATAAGTGAT-AG-CATTAACTACA-CTTA-ACTAA
*
48798426 TCTGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGTGACAAGTGACA
* *
48798491 AGTGATAAGAGATAAGTGGTAGCATTAACTACACTTATCTAA
65 AGTGATAAGAGATAAGTGATAGCATTAACTACACTTAACTAA
* ** * * * *
48798533 TCAGTGATAACCGGCAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATTAGGGACAAGTGAT
1 TC--TGATCAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGAC
48798598 AAGTGAT
64 AAGTGAT
48798605 CATACGTTAG
Statistics
Matches: 154, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
107 8 0.05
108 47 0.31
109 98 0.64
110 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (106 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAA
GTGATAAGAGATAAGTGATAGCATTAACTACACTTAACTAA
Found at i:48804664 original size:14 final size:14
Alignment explanation
Indices: 48804645--48804708 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
48804635 TTGACCAAGT
48804645 ATAAATTATTAATA
1 ATAAATTATTAATA
48804659 ATAAA-TATTATATA
1 ATAAATTATTA-ATA
48804673 ATTAAATTAACTTTAAT-
1 A-TAAATT-A--TTAATA
* *
48804690 ATAAATAATTTATA
1 ATAAATTATTAATA
48804704 ATAAA
1 ATAAA
48804709 AACTATAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
13 9 0.22
14 14 0.34
15 5 0.12
16 6 0.15
17 2 0.05
18 2 0.05
19 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATTATTAATA
Found at i:48808865 original size:125 final size:125
Alignment explanation
Indices: 48808643--48809084 Score: 713
Period size: 125 Copynumber: 3.5 Consensus size: 125
48808633 GATAAAATCA
* * *
48808643 AAGCAGGATACTTTATCAGAAGAATTTCTGAAATCGCGCCCATGTTGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
**
48808708 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
* * * *
48808768 AAGCAGGATGTTTTATCAGAAGAATTTCTGAAATTGTGCCCATGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
48808833 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTCTGAGTGAATAGTATAAAAAACACTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
48808893 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
48808958 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
* * * * * * *
48809018 AAGCATGATGCTTTATTAGAAGAATTTCTTAAATCGCACCCACATGGACGCACTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
48809083 AG
66 AG
48809085 CATGTTTAGG
Statistics
Matches: 294, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 294 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
Found at i:48811210 original size:21 final size:21
Alignment explanation
Indices: 48811163--48811215 Score: 88
Period size: 22 Copynumber: 2.5 Consensus size: 21
48811153 CTCTATCTGT
48811163 GTTAGGGTTTTTAAGTTAAGG
1 GTTAGGGTTTTTAAGTTAAGG
*
48811184 GCTTAGGGTTTTTAAGTTTAGG
1 G-TTAGGGTTTTTAAGTTAAGG
48811206 GTTAGGGTTT
1 GTTAGGGTTT
48811216 AGGGTTTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (21 bp):
GTTAGGGTTTTTAAGTTAAGG
Found at i:48811219 original size:7 final size:7
Alignment explanation
Indices: 48811199--48811229 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
48811189 GGGTTTTTAA
48811199 GTTTAGG
1 GTTTAGG
48811206 G-TTAGG
1 GTTTAGG
48811212 GTTTAGG
1 GTTTAGG
48811219 GTTTAGG
1 GTTTAGG
48811226 GTTT
1 GTTT
48811230 TTGTTAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.13, C:0.00, G:0.42, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:48811260 original size:7 final size:7
Alignment explanation
Indices: 48811248--48811287 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
48811238 GTTTGTCAAT
48811248 TAAATTA
1 TAAATTA
48811255 TAAATT-
1 TAAATTA
48811261 T-AATTA
1 TAAATTA
48811267 TAAATTA
1 TAAATTA
48811274 TAAATTTA
1 TAAA-TTA
48811282 TAAATT
1 TAAATT
48811288 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:48811260 original size:12 final size:12
Alignment explanation
Indices: 48811245--48811287 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
48811235 AAGGTTTGTC
48811245 AATTAAATTATA
1 AATTAAATTATA
*
48811257 AATTTAATTATA
1 AATTAAATTATA
48811269 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
48811284 AATT
1 AATT
48811288 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:48811387 original size:138 final size:138
Alignment explanation
Indices: 48811163--48811454 Score: 523
Period size: 138 Copynumber: 2.1 Consensus size: 138
48811153 CTCTATCTGT
* *
48811163 GTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTTAGGGTTAGGGTTTAGGGTTTAGGGT
1 GTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTTAGGGTTAGGGTTTAAGGTTTAGGGT
48811228 TTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAA
66 TTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAA
48811293 TAAATTAG
131 TAAATTAG
* * *
48811301 GTTAGGGTTTTTAAGTTAAGGGTTTATGATTTTTAAGTTTAGGGTTAGGGTTTAAGGTTTATGGT
1 GTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTTAGGGTTAGGGTTTAAGGTTTAGGGT
48811366 TTTTGTT-AGAGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTA
66 TTTTGTTAAG-GTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTA
48811430 ATAAATTAG
130 ATAAATTAG
48811439 GTTAGGGTTTTTAAGT
1 GTTAGGGTTTTTAAGT
48811455 AATAACTCAA
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
137 2 0.01
138 146 0.99
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (138 bp):
GTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTTAGGGTTAGGGTTTAAGGTTTAGGGT
TTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAA
TAAATTAG
Found at i:48811398 original size:7 final size:7
Alignment explanation
Indices: 48811386--48811425 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
48811376 GTTTGTCAAT
48811386 TAAATTA
1 TAAATTA
48811393 TAAATT-
1 TAAATTA
48811399 T-AATTA
1 TAAATTA
48811405 TAAATTA
1 TAAATTA
48811412 TAAATTTA
1 TAAA-TTA
48811420 TAAATT
1 TAAATT
48811426 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:48811398 original size:12 final size:12
Alignment explanation
Indices: 48811383--48811425 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
48811373 AGAGTTTGTC
48811383 AATTAAATTATA
1 AATTAAATTATA
*
48811395 AATTTAATTATA
1 AATTAAATTATA
48811407 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
48811422 AATT
1 AATT
48811426 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:48813812 original size:22 final size:22
Alignment explanation
Indices: 48813787--48813882 Score: 72
Period size: 22 Copynumber: 4.4 Consensus size: 22
48813777 TAGGGATTTA
*
48813787 AGAGAAATTTAGGAGAAAATTG
1 AGAGAAATTTAGGAGGAAATTG
* ** * *
48813809 AGAGCAAATTAAATATGAATTTG
1 AGAG-AAATTTAGGAGGAAATTG
*
48813832 AGAGAAATTT-GGAAGGAAATTT
1 AGAGAAATTTAGG-AGGAAATTG
*
48813854 AGAGCAAATTGA-GAGGAAATTG
1 AGAG-AAATTTAGGAGGAAATTG
48813876 AGA-AAAT
1 AGAGAAAT
48813883 AATTGAGAGA
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
20 4 0.07
22 30 0.54
23 22 0.39
ACGTcount: A:0.49, C:0.02, G:0.25, T:0.24
Consensus pattern (22 bp):
AGAGAAATTTAGGAGGAAATTG
Found at i:48813823 original size:45 final size:45
Alignment explanation
Indices: 48813774--48813863 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
48813764 AAATAATTAA
*
48813774 AAATAGGGATTTAAGAGAAATTTAGG-AGAAAATTGAGAGCAAATT
1 AAATAGGAATTTAAGAGAAATTT-GGAAGAAAATTGAGAGCAAATT
* * * *
48813819 AAATATGAATTTGAGAGAAATTTGGAAGGAAATTTAGAGCAAATT
1 AAATAGGAATTTAAGAGAAATTTGGAAGAAAATTGAGAGCAAATT
48813864 GAGAGGAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (45 bp):
AAATAGGAATTTAAGAGAAATTTGGAAGAAAATTGAGAGCAAATT
Found at i:48817499 original size:21 final size:21
Alignment explanation
Indices: 48817458--48817501 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48817448 AATGTTTATA
48817458 AATATAAACATAAATTAAAAT
1 AATATAAACATAAATTAAAAT
* *
48817479 AATA-AAACAATATATTTAAAT
1 AATATAAAC-ATAAATTAAAAT
48817500 AA
1 AA
48817502 ATAGTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
AATATAAACATAAATTAAAAT
Found at i:48826625 original size:114 final size:113
Alignment explanation
Indices: 48826367--48827138 Score: 687
Period size: 114 Copynumber: 6.8 Consensus size: 113
48826357 AAATCTCAAG
* * * * * **
48826367 ACCAAAACGCATCATTTTTGTATTGATGTATACAATAATTAGTGGCGATTATGATAAAACGCCGC
1 ACCAAAACGCA-GAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * ** ** *
48826432 TAAAGTAA-GTAATAGCGGCGCATTGTGGGAAGCGCCGCAA-AAAT-CTTA
65 TAAAGTAACATATTAGCGGCGC-TTCAGTTAAGCGCCGCAAGATATGC-TA
* * *
48826480 ACCAAAACGCAGCGTTTTGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCTGC
1 ACCAAAACGCAGAG-TTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
48826545 T-AAGTAACAATATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGC-A
65 TAAAGTAAC-ATATTAGCGGCGC-TTCAGTTAAGCGCCGCAAGATATGCTA
* * * * * **
48826594 CACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGTGCTTA-TAGGAAACGCCGC
1 -ACCAAAACGCAGAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * * * * * * *
48826658 TAAAGTATAC-TATTACCGGCGCTTCTAATAAAACGTCGCTATAT-TTCTTA
65 TAAAGTA-ACATATTAGCGGCGCTTC-AGTTAAGCGCCGCAAGATATGC-TA
* *
48826708 ACCAAAACTCAGAGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
1 ACCAAAACGCAGAG-TTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
48826773 TAAA-TAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGC-A
65 TAAAGTAACA-TATTAGCGGCGC-TTCAGTTAAGCGCCGCAAGATATGCTA
* * * * ** *
48826822 CACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTA-TAGGAAATGCCGC
1 -ACCAAAACGCAGAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * * * * *
48826886 TAAAGTATAC-TATTACCGGCGCTTCTGATAAAGCGCCGCTATAT-TTCTTA
65 TAAAGTA-ACATATTAGCGGCGCTTCAG-TTAAGCGCCGCAAGATATGC-TA
* * * *
48826936 ACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGTTTACAATAAAACGCCGC
1 ACCAAAACGCAGAG-TTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * *
48827001 TACA-TAACAGTATTAGTGGCGCTTAACGTTAAGCGCCGCAAGATATGC-A
65 TAAAGTAACA-TATTAGCGGCGCTTCA-GTTAAGCGCCGCAAGATATGCTA
* * * **
48827050 CACCAAAACGCAGAGTTTGGTATTGATGTATATTAGAATTACTGGCGCTTATTGA-AAAACGCCG
1 -ACCAAAACGCAGAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTA-CAATAAAACGCCG
48827114 CTAAAGTATAC-TATTAGCGGCGCTT
64 CTAAAGTA-ACATATTAGCGGCGCTT
48827139 TCCTAGAAGC
Statistics
Matches: 527, Mismatches: 99, Indels: 65
0.76 0.14 0.09
Matches are distributed among these distances:
112 17 0.03
113 154 0.29
114 223 0.42
115 122 0.23
116 11 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (113 bp):
ACCAAAACGCAGAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGCT
AAAGTAACATATTAGCGGCGCTTCAGTTAAGCGCCGCAAGATATGCTA
Found at i:48826709 original size:228 final size:227
Alignment explanation
Indices: 48826475--48827138 Score: 1105
Period size: 228 Copynumber: 2.9 Consensus size: 227
48826465 GCCGCAAAAA
* * *
48826475 TCTTAACCAAAACGCAGCGTTTTGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
1 TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
* *
48826540 GCTGCTAAGTAACAATATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGC
66 GCCGCTAA-TAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGC
*
48826605 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGTGCTTATAGGAAACGCCGCTAAAGTATACTA
130 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAACGCCGCTAAAGTATACTA
*
48826670 TTACCGGCGCTTCTAATAAAACGTCGCTATATT
195 TTACCGGCGCTTCTAATAAAACGCCGCTATATT
*
48826703 TCTTAACCAAAACTCAGAGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
1 TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
48826768 GCCGCTAAATAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGC
66 GCCGCT-AATAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGC
*
48826833 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAATGCCGCTAAAGTATACTA
130 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAACGCCGCTAAAGTATACTA
* *
48826898 TTACCGGCGCTTCTGATAAAGCGCCGCTATATT
195 TTACCGGCGCTTCTAATAAAACGCCGCTATATT
*
48826931 TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGTTTACAATAAAAC
1 TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
* *
48826996 GCCGCTACATAACAGTATTAGTGGCGC-TTAACGTTAAGCGCCGCAAGATATGCACACCAAAACG
66 GCCGCTA-ATAACAGTATTAGCGGCGCTTTCA-GTTAAGCGCCGCAAGATATGCACACCAAAACG
* * * *
48827060 CAGAGTTTGGTATTGATGTATATTAGAATTACTGGCGCTTATTGAAAAACGCCGCTAAAGTATAC
129 CAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAG-GAAACGCCGCTAAAGTATAC
*
48827125 TATTAGCGGCGCTT
193 TATTACCGGCGCTT
48827139 TCCTAGAAGC
Statistics
Matches: 411, Mismatches: 21, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
227 4 0.01
228 374 0.91
229 33 0.08
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (227 bp):
TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
GCCGCTAATAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGCA
GAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAACGCCGCTAAAGTATACTAT
TACCGGCGCTTCTAATAAAACGCCGCTATATT
Found at i:48827654 original size:14 final size:15
Alignment explanation
Indices: 48827619--48827658 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
48827609 GGTGTTTTGG
*
48827619 GTTTAGGGTTTAAGA
1 GTTTGGGGTTTAAGA
48827634 GTTTGGGGTTTAAGA
1 GTTTGGGGTTTAAGA
48827649 -TTTGGGGTTT
1 GTTTGGGGTTT
48827659 GGGGTTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (15 bp):
GTTTGGGGTTTAAGA
Found at i:48828070 original size:14 final size:17
Alignment explanation
Indices: 48828036--48828071 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
48828026 TATAATACAT
48828036 TAATTGAATAATATAAA
1 TAATTGAATAATATAAA
48828053 TAATT-AATAAT-T-AA
1 TAATTGAATAATATAAA
48828067 TAATT
1 TAATT
48828072 TTAAATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 6 0.32
17 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAATTGAATAATATAAA
Found at i:48830538 original size:17 final size:17
Alignment explanation
Indices: 48830516--48830608 Score: 67
Period size: 17 Copynumber: 5.9 Consensus size: 17
48830506 TTATTTTCTA
48830516 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
48830533 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
*
48830547 -ATAATTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * **
48830563 TATTAG-TATAAAAATT
1 TATAAGTTTTCTAAATT
*
48830579 TAGT-AG-TAT-TAAATT
1 TA-TAAGTTTTCTAAATT
48830594 TATAAGTTTTCTAAA
1 TATAAGTTTTCTAAA
48830609 AAGTTGTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
13 10 0.17
14 3 0.05
15 9 0.15
16 18 0.30
17 20 0.33
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:48830543 original size:30 final size:30
Alignment explanation
Indices: 48830509--48830626 Score: 98
Period size: 30 Copynumber: 3.9 Consensus size: 30
48830499 TAGTGTTTTA
*
48830509 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* *
48830539 TTTTCTAAATAATTTTTCTAAATTTATTAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* ** * *
48830569 -TATAAAAATTTAGTAGTAT-TAAATTTATAAG
1 TTTTCTAAA-TAAGT--TTTCTAAATTTATAAG
*
48830600 TTTTCTAAA-AAGTTGTTCTAGATTTAT
1 TTTTCTAAATAAGTT-TTCTAAATTTAT
48830627 TATTAATAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
28 1 0.02
29 6 0.09
30 41 0.62
31 11 0.17
32 7 0.11
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:48830559 original size:13 final size:13
Alignment explanation
Indices: 48830509--48830561 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
48830499 TAGTGTTTTA
*
48830509 TTTTCTATATAAG
1 TTTTCTAAATAAG
48830522 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
48830539 TTTTCTAAATAAT
1 TTTTCTAAATAAG
48830552 TTTTCTAAAT
1 TTTTCTAAAT
48830562 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:48830594 original size:15 final size:16
Alignment explanation
Indices: 48830557--48830595 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
48830547 ATAATTTTTC
*
48830557 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
48830573 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
48830588 TAAATTTA
1 TAAATTTA
48830596 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:48830594 original size:61 final size:61
Alignment explanation
Indices: 48830527--48830674 Score: 178
Period size: 61 Copynumber: 2.4 Consensus size: 61
48830517 ATAAGTTTTC
*
48830527 TAAATTTATAAGTTTTCTAAATAATTTTTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTAT
* *
48830588 TAAATTTATAAGTTTTCTAAA-AAGTTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTCTAAATAA-TTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * *
48830649 CAATTTTACAAGTTTTGC-AAATAATT
1 TAAATTTATAAGTTTT-CTAAATAATT
48830675 ATATTTTTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
60 3 0.04
61 68 0.89
62 5 0.07
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:48830795 original size:15 final size:15
Alignment explanation
Indices: 48830775--48830824 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
48830765 ACGATAACTT
48830775 ATAAATAATAACATA
1 ATAAATAATAACATA
48830790 ATAAAT--T-ACATA
1 ATAAATAATAACATA
*
48830802 ATACATAATAACATA
1 ATAAATAATAACATA
*
48830817 ATACATAA
1 ATAAATAA
48830825 CTTATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 10 0.32
13 1 0.03
14 1 0.03
15 19 0.61
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAATAATAACATA
Found at i:48830846 original size:21 final size:20
Alignment explanation
Indices: 48830820--48830877 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
48830810 TAACATAATA
*
48830820 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
* *
48830841 TATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
48830862 CATAACTTATATATAA
1 CATAACTTATATATAA
48830878 TCTGATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:48830895 original size:83 final size:84
Alignment explanation
Indices: 48830799--48830954 Score: 278
Period size: 84 Copynumber: 1.9 Consensus size: 84
48830789 AATAAATTAC
* *
48830799 ATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGTATAACTTACATAATAACTTCC
1 ATAATACATAATAACATAATACATAACTTATATTATAAGATTGCATAACTTACATAATAACTTCC
48830863 ATAACTTATATATAATCTG
66 ATAACTTATATATAATCTG
*
48830882 ATAATACATAATAACATAATACATAACTTATATTATAATATTGCATAACTTACATAATAACTTCC
1 ATAATACATAATAACATAATACATAACTTATATTATAAGATTGCATAACTTACATAATAACTTCC
48830947 ATAACTTA
66 ATAACTTA
48830955 ATACACCACT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 32 0.46
84 37 0.54
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.36
Consensus pattern (84 bp):
ATAATACATAATAACATAATACATAACTTATATTATAAGATTGCATAACTTACATAATAACTTCC
ATAACTTATATATAATCTG
Found at i:48830980 original size:9 final size:9
Alignment explanation
Indices: 48830962--48831843 Score: 568
Period size: 9 Copynumber: 97.1 Consensus size: 9
48830952 TTAATACACC
*
48830962 ACTTAAATA
1 ACTTACATA
48830971 ACTTACATA
1 ACTTACATA
* *
48830980 AATTAAATA
1 ACTTACATA
48830989 ACTTACATA
1 ACTTACATA
48830998 ACTTACATA
1 ACTTACATA
*
48831007 AATTA-AGTA
1 ACTTACA-TA
48831016 ACTTACATA
1 ACTTACATA
** *
48831025 AAATAAATA
1 ACTTACATA
*
48831034 ATTTACATA
1 ACTTACATA
48831043 ACTTACATA
1 ACTTACATA
* *
48831052 AATTAAATA
1 ACTTACATA
*
48831061 ACTTAAATA
1 ACTTACATA
*
48831070 ACTTGCATA
1 ACTTACATA
**
48831079 ACTTTGACCGA
1 AC-TT-ACATA
*
48831090 A-TTAAATA
1 ACTTACATA
48831098 ACTTACATA
1 ACTTACATA
48831107 ACTTACATA
1 ACTTACATA
*
48831116 AATTA-AGTA
1 ACTTACA-TA
48831125 ACTTACATA
1 ACTTACATA
** *
48831134 AAATAAATA
1 ACTTACATA
*
48831143 ATTTACATA
1 ACTTACATA
48831152 ACTTACATA
1 ACTTACATA
* *
48831161 AATTAAATA
1 ACTTACATA
*
48831170 ACTTAAATA
1 ACTTACATA
*
48831179 ACTTGCATA
1 ACTTACATA
**
48831188 ACTTTGACCGA
1 AC-TT-ACATA
*
48831199 A-TTAAATA
1 ACTTACATA
48831207 ACTTACATA
1 ACTTACATA
48831216 ACTTACATA
1 ACTTACATA
*
48831225 AATTA-AGTA
1 ACTTACA-TA
48831234 ACTTACATA
1 ACTTACATA
** *
48831243 AAATAAATA
1 ACTTACATA
*
48831252 ATTTACATA
1 ACTTACATA
48831261 ACTTACATA
1 ACTTACATA
* *
48831270 AATTAAATA
1 ACTTACATA
*
48831279 ACTTAAATA
1 ACTTACATA
*
48831288 ACTTGCATA
1 ACTTACATA
**
48831297 ACTTTGACCGA
1 AC-TT-ACATA
*
48831308 A-TTAAATA
1 ACTTACATA
48831316 ACTTACATA
1 ACTTACATA
48831325 ACTTACATA
1 ACTTACATA
*
48831334 AATTA-AGTA
1 ACTTACA-TA
48831343 ACTTACATA
1 ACTTACATA
** *
48831352 AAATAAATA
1 ACTTACATA
*
48831361 ATTTACATA
1 ACTTACATA
48831370 ACTTACATA
1 ACTTACATA
* *
48831379 AATTAAATA
1 ACTTACATA
*
48831388 ACTTAAATA
1 ACTTACATA
*
48831397 ACTTGCATA
1 ACTTACATA
**
48831406 ACTTTGACCGA
1 AC-TT-ACATA
*
48831417 A-TTAAATA
1 ACTTACATA
48831425 ACTTACATA
1 ACTTACATA
48831434 ACTTACATA
1 ACTTACATA
*
48831443 AATTA-AGTA
1 ACTTACA-TA
48831452 ACTTACATA
1 ACTTACATA
** *
48831461 AAATAAATA
1 ACTTACATA
*
48831470 ATTTACATA
1 ACTTACATA
48831479 ACTTACATA
1 ACTTACATA
* *
48831488 AATTAAATA
1 ACTTACATA
*
48831497 ACTTAAATA
1 ACTTACATA
*
48831506 ACTTGCATA
1 ACTTACATA
**
48831515 ACTTTGACCGA
1 AC-TT-ACATA
*
48831526 A-TTAAATA
1 ACTTACATA
48831534 ACTTACATA
1 ACTTACATA
48831543 ACTTACATA
1 ACTTACATA
*
48831552 AATTA-AGTAA
1 ACTTACA-T-A
48831562 CTACTTACATA
1 --ACTTACATA
48831573 ACTTACATA
1 ACTTACATA
* *
48831582 AATTAAATA
1 ACTTACATA
*
48831591 ACTTAAATA
1 ACTTACATA
48831600 ACTTACATA
1 ACTTACATA
**
48831609 ACTTTGACCGA
1 AC-TT-ACATA
*
48831620 A-TTAAATA
1 ACTTACATA
48831628 ACTTACATAATA
1 ACTTAC---ATA
48831640 ACTTACATAA
1 ACTTACAT-A
*
48831650 AC-TAAATA
1 ACTTACATA
48831658 ACTTACATA
1 ACTTACATA
48831667 ACTTACATA
1 ACTTACATA
* *
48831676 AATTAAATA
1 ACTTACATA
48831685 ACTTACATA
1 ACTTACATA
48831694 ACTTACATAA
1 ACTTACAT-A
* *** *
48831704 ATTTGTTTC
1 ACTTACATA
48831713 ACTTACATA
1 ACTTACATA
48831722 ACTTACATAATA
1 ACTTAC---ATA
*
48831734 ACTTACATT
1 ACTTACATA
*
48831743 A--TACACA
1 ACTTACATA
*
48831750 ACTCACATA
1 ACTTACATA
48831759 A-TTA-AT-
1 ACTTACATA
* *
48831765 ATTATACACA
1 ACT-TACATA
48831775 ACTTACATA
1 ACTTACATA
*
48831784 A--TACATT
1 ACTTACATA
48831791 ACTTACATA
1 ACTTACATA
48831800 ACTTACAGT-
1 ACTTACA-TA
48831809 ACTTACATA
1 ACTTACATA
48831818 A--TACATA
1 ACTTACATA
48831825 ACTTACATA
1 ACTTACATA
48831834 ACTTACATA
1 ACTTACATA
48831843 A
1 A
48831844 TACATAAAAA
Statistics
Matches: 670, Mismatches: 149, Indels: 108
0.72 0.16 0.12
Matches are distributed among these distances:
6 1 0.00
7 21 0.03
8 32 0.05
9 543 0.81
10 29 0.04
11 20 0.03
12 23 0.03
13 1 0.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:48831095 original size:109 final size:109
Alignment explanation
Indices: 48830980--48831703 Score: 1190
Period size: 109 Copynumber: 6.8 Consensus size: 109
48830970 AACTTACATA
48830980 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
1 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
48831045 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
66 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
48831089 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
1 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
48831154 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
66 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
48831198 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
1 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
48831263 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
66 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
48831307 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
1 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
48831372 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
66 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
48831416 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
1 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
48831481 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
66 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
* * *
48831525 AATTAAATAACTTACATAACTTACATAAATTAAGTAAC-TAC-T----TACATAACTTACATAAA
1 AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
* *
48831584 TTAAATAACTTAAATAAC-T---T-AC----ATAACTTTGACCG
66 TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
* * ** * * *
48831619 AATTAAATAACTTACATAATAACTTACATAAACTAAATAACTTACATAACTTACATAAATTAAAT
1 AATTAAATAACTTAC---ATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACAT
* *
48831684 AACTTACATAACTTACATAA
63 AACTTACATAAATTAAATAA
48831704 ATTTGTTTCA
Statistics
Matches: 594, Mismatches: 12, Indels: 24
0.94 0.02 0.04
Matches are distributed among these distances:
94 28 0.05
97 21 0.04
98 5 0.01
99 2 0.00
102 1 0.00
103 59 0.10
107 1 0.00
108 3 0.01
109 474 0.80
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (109 bp):
AATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAAAATAAATAATTTACATAAC
TTACATAAATTAAATAACTTAAATAACTTGCATAACTTTGACCG
Found at i:48831723 original size:94 final size:94
Alignment explanation
Indices: 48831450--48831741 Score: 421
Period size: 94 Copynumber: 3.1 Consensus size: 94
48831440 ATAAATTAAG
* *
48831450 TAACTTACATAAAATAAATAATTTACATAACTTACATAAATTAAATAACTTAAATAACTTGCATA
1 TAACTTACATAAAATAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAACTTACATA
48831515 ACTTTGACCGAATTAAATAACTTAC---A
66 ACTTTGACCGAATTAAATAACTTACATAA
* *
48831541 TAACTTACATAAATTAAGTAACTACTTACATAACTTACATAAATTAAATAACTTAAATAACTTAC
1 TAACTTACATAAAATAAAT-A--ACTTACATAACTTACATAAATTAAATAACTTAAATAACTTAC
48831606 ATAACTTTGACCGAATTAAATAACTTACATAA
63 ATAACTTTGACCGAATTAAATAACTTACATAA
* *
48831638 TAACTTACATAAACTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATA
1 TAACTTACATAAAATAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAACTTACATA
* ** * *
48831703 AATTTGTTTC-ACTTACATAACTTACATAA
66 ACTTTG-ACCGAATTAAATAACTTACATAA
48831732 TAACTTACAT
1 TAACTTACAT
48831742 TATACACAAC
Statistics
Matches: 182, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
91 17 0.09
92 1 0.01
94 144 0.79
95 1 0.01
96 1 0.01
97 18 0.10
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (94 bp):
TAACTTACATAAAATAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAACTTACATA
ACTTTGACCGAATTAAATAACTTACATAA
Found at i:48831794 original size:16 final size:16
Alignment explanation
Indices: 48831775--48831834 Score: 84
Period size: 16 Copynumber: 3.6 Consensus size: 16
48831765 ATTATACACA
48831775 ACTTACATAATACATT
1 ACTTACATAATACATT
*
48831791 ACTTACATAACTTACAGT
1 ACTTACATAA--TACATT
*
48831809 ACTTACATAATACATA
1 ACTTACATAATACATT
48831825 ACTTACATAA
1 ACTTACATAA
48831835 CTTACATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
16 24 0.62
18 15 0.38
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (16 bp):
ACTTACATAATACATT
Found at i:48835028 original size:41 final size:41
Alignment explanation
Indices: 48834971--48835054 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
48834961 TTTAATTACT
*
48834971 TAGTTTACTTTCCATTCAATAGGTTTGGAATGGGAAGAGCG
1 TAGTTTACTTTCCATTCAATAAGTTTGGAATGGGAAGAGCG
*
48835012 TAGTTTACTTTCCATTCAATAAGTTTGGAGTGGGAAGAGCG
1 TAGTTTACTTTCCATTCAATAAGTTTGGAATGGGAAGAGCG
48835053 TA
1 TA
48835055 AACGACGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (41 bp):
TAGTTTACTTTCCATTCAATAAGTTTGGAATGGGAAGAGCG
Found at i:48837439 original size:12 final size:12
Alignment explanation
Indices: 48837422--48837448 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48837412 AGCAGATGTC
48837422 GCAGCGAGAGAA
1 GCAGCGAGAGAA
48837434 GCAGCGAGAGAA
1 GCAGCGAGAGAA
48837446 GCA
1 GCA
48837449 AATAGAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.41, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:48837979 original size:85 final size:84
Alignment explanation
Indices: 48837882--48838174 Score: 281
Period size: 85 Copynumber: 3.5 Consensus size: 84
48837872 GTTTGTGAAA
*
48837882 CAAA-CGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTGAAC-AAGCGCCGCTATAGAACA
1 CAAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCATTTTT-AACTAAGCGCCGCTAAAGAACA
* *
48837943 TTA-CTTTTAGAGGCGTTTTCTTC
63 TGATCTTTT-GAGGCATTTT-TTC
* * **
48837966 CAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGA
1 CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTAACTAAGCGCCGCTAAAGAACATGA
* *
48838031 TCTTTTGCGGCATTTTTTT
66 TCTTTTGAGGCATTTTTTC
* * * ** * *
48838050 CTAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAAAATG
1 CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-ATTTTTAACTAAGCGCCGCTAAAGAACATG
* * *
48838115 ATCTTTAGCGGCGTTTTTTC
65 ATCTTTTGAGGCATTTTTTC
* * * * *
48838135 CTAAGCGCCACTAAAGAACATCATCTTTAGTGGCGTTTTT
1 CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTT
48838175 TTCTGTAAGC
Statistics
Matches: 180, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
84 44 0.24
85 130 0.72
86 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (84 bp):
CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTAACTAAGCGCCGCTAAAGAACATGA
TCTTTTGAGGCATTTTTTC
Found at i:48838104 original size:127 final size:126
Alignment explanation
Indices: 48837886--48838194 Score: 390
Period size: 127 Copynumber: 2.4 Consensus size: 126
48837876 GTGAAACAAA
** * *
48837886 CGCCGCTAAAGAACACTA-CTTTTAGCGGCATTTTTGAAC-AAGCGCCGCTATAGAACATTACTT
1 CGCCGCTAAAGAACA-TATCTTTT-GCGGCATTTTT-TTCTAAGCGCCGCTAAAGAACATGACTT
** *
48837949 TTAGAGGCGTTTTCTTCCAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
63 TTAGAGGCGTTTTCTTCCAAAGCACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
48838013 CGCCGCTAAAGAACATGATCTTTTGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
1 CGCCGCTAAAGAACAT-ATCTTTTGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGA-CTTT
* * *
48838078 T-GCGGCGTTTTTTTCCTAAGCACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
64 TAGAGGCGTTTTCTTCCAAAGCACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
* * * * *
48838140 CGCCACTAAAGAACATCATCTTTAGTGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 CGCCGCTAAAGAACAT-ATCTTTTGCGGCATTTTTTTC--TAAGCGCCGCTAAAG
48838195 TTAGCGACGT
Statistics
Matches: 160, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
126 2 0.01
127 134 0.84
128 10 0.06
129 14 0.09
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (126 bp):
CGCCGCTAAAGAACATATCTTTTGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGACTTTTA
GAGGCGTTTTCTTCCAAAGCACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
Found at i:48838161 original size:42 final size:42
Alignment explanation
Indices: 48837886--48838194 Score: 347
Period size: 42 Copynumber: 7.3 Consensus size: 42
48837876 GTGAAACAAA
* **
48837886 CGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTGAAC-AAG
1 CGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCCTAAG
* * * *
48837928 CGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCCAAAG
1 CGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCTAAG
*
48837971 TGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
* * *
48838013 CGCCGCTAAAGAACATGATCTTTTGCGGCATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
*
48838055 CGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCTAAG
* *
48838098 CACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
* * * *
48838140 CGCCACTAAAGAACATCATCTTTAGTGGCGTTTTTTTCTGTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-CTAAG
*
48838184 CGCCGCAAAAG
1 CGCCGCTAAAG
48838195 TTAGCGACGT
Statistics
Matches: 233, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.00
42 141 0.61
43 77 0.33
44 14 0.06
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
Found at i:48838175 original size:85 final size:85
Alignment explanation
Indices: 48837948--48838177 Score: 336
Period size: 85 Copynumber: 2.7 Consensus size: 85
48837938 GAACATTACT
* * *
48837948 TTTAGAGGCGTTTTCTTCCAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCTAA
1 TTTAGCGGCGTTTT-TTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAA
* *
48838012 GCGCCGCTAAAGAACATGATC
65 GCACCGCTAAAGAAAATGATC
* * * *
48838033 TTTTGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCCTAAG
1 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAG
48838098 CACCGCTAAAGAAAATGATC
66 CACCGCTAAAGAAAATGATC
* * *
48838118 TTTAGCGGCGTTTTTTCCTAAGCGCCACTAAAGAACATCATCTTTAGTGGCGTTTTTTTC
1 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
48838178 TGTAAGCGCC
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
84 34 0.27
85 94 0.73
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (85 bp):
TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAG
CACCGCTAAAGAAAATGATC
Found at i:48838901 original size:25 final size:25
Alignment explanation
Indices: 48838787--48838897 Score: 82
Period size: 25 Copynumber: 4.4 Consensus size: 25
48838777 CACACCACAA
** **
48838787 CTCGTATGAGCTTACTAATTTGTAG
1 CTCGTATGAGCTTACCGATTCATAG
48838812 CTCGTGA-GAGCTTACCGATTC-TCAG
1 CTCGT-ATGAGCTTACCGATTCAT-AG
* * * * *
48838837 CTCATATTAGCTTACCGATTTACAA
1 CTCGTATGAGCTTACCGATTCATAG
* * *
48838862 CTCGTAAGAGCATACTGATTCATAG
1 CTCGTATGAGCTTACCGATTCATAG
48838887 CTCGTATGAGC
1 CTCGTATGAGC
48838898 ATACATGTAC
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
24 2 0.03
25 62 0.95
26 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGATTCATAG
Found at i:48844158 original size:32 final size:32
Alignment explanation
Indices: 48844117--48844181 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
48844107 GTCGTCTGAC
48844117 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
1 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
48844149 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
1 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
48844181 C
1 C
48844182 TTTCTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (32 bp):
CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
Found at i:48852559 original size:3 final size:3
Alignment explanation
Indices: 48852551--48852585 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48852541 ATATATTACA
48852551 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48852586 CAGGAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48857807 original size:50 final size:50
Alignment explanation
Indices: 48857753--48858016 Score: 259
Period size: 50 Copynumber: 5.3 Consensus size: 50
48857743 GATTCGCTGT
* *
48857753 TGTGGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCGA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
** * * * *
48857803 TGTGGCTTTAAT-TTGTTCCACTGC-ATCGCCTGGGG-AGTAAGATTCGCCGT
1 TGTGGCTTTAATCTT-TTTAACTGCAAT-GTC-GGGGAAGCAAGATTCACCGA
** * *
48857853 TGTGGCTTTAGCCTTTTTAACTGCAATATCGGGGAAGCAAGATTCACCAA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* ** * * * * *
48857903 TGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGG-AGTAAGATTCTCTGT
1 TGTGGCTTTAATCTTTTTAACTGCAAT-GTC-GGGGAAGCAAGATTCACCGA
*
48857953 TGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
48858003 TGTGGCTTTAATCT
1 TGTGGCTTTAATCT
48858017 ATTCCACTAC
Statistics
Matches: 164, Mismatches: 40, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
49 14 0.09
50 136 0.83
51 14 0.09
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (50 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
Found at i:48857875 original size:100 final size:100
Alignment explanation
Indices: 48857706--48858024 Score: 505
Period size: 100 Copynumber: 3.2 Consensus size: 100
48857696 TGCTGTTGTA
* *
48857706 GCTTCAATCTGTTCCACTGCA-CTGCCTGGGAAAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTT
1 GCTTTAATCTGTTCCACTGCATC-GCCTGGG-GAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTT
*
48857770 TAACTGCAATGTCGGGGAAGCAAGATTCATCGATGTG
64 TAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
48857807 GCTTTAATTTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCCGTTGTGGCTTTAGCCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
* *
48857872 ACTGCAATATCGGGGAAGCAAGATTCACCAATGTG
66 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
48857907 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCTCTGTTGTAGCTTTAATCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
48857972 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
66 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
*
48858007 GCTTTAATCTATTCCACT
1 GCTTTAATCTGTTCCACT
48858025 ACACCGCTTG
Statistics
Matches: 200, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
100 173 0.87
101 26 0.13
102 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (100 bp):
GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
Found at i:48858386 original size:44 final size:44
Alignment explanation
Indices: 48858337--48858564 Score: 160
Period size: 44 Copynumber: 5.2 Consensus size: 44
48858327 CGATACAGGA
*
48858337 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
* * * * *** * * *
48858381 AGGCAAG-GCTAG-TGTCTTCGATCTGCTTTGCTGTCAGCGCAAGAG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCACTG-CAAC-CGAGGG
* *
48858426 -GGCAAGATCTGCTATCTTTAACCTGCTCCACTGTAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
* * * * * ** *
48858469 AGGCAAGA-CTGGTATCTTCGATCTGCTTCGCTGTC-AGTGCAGGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTG-CAACCG-AGGG
* * *
48858513 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCTATGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
48858557 AGGCAAGA
1 AGGCAAGA
48858565 CTGGGGTCTT
Statistics
Matches: 130, Mismatches: 44, Indels: 20
0.67 0.23 0.10
Matches are distributed among these distances:
43 41 0.32
44 49 0.38
45 40 0.31
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
Found at i:48858540 original size:45 final size:45
Alignment explanation
Indices: 48858403--48858540 Score: 145
Period size: 45 Copynumber: 3.1 Consensus size: 45
48858393 TGTCTTCGAT
* * *
48858403 CTGCTTTGCTGTCAGCGCAAGAGGGCAAGATCTGCTATCTTTAAC
1 CTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAAC
* * * * * * ** *
48858448 CTGCTCCACTGTAACCG-AGGGAGGCAAGA-CTGGTATCTTCGAT
1 CTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAAC
*
48858491 CTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAAC
48858536 CTGCT
1 CTGCT
48858541 CCACTGCAAC
Statistics
Matches: 69, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
43 22 0.32
44 20 0.29
45 27 0.39
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (45 bp):
CTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAAC
Found at i:48858711 original size:87 final size:87
Alignment explanation
Indices: 48858309--48858967 Score: 795
Period size: 87 Copynumber: 7.5 Consensus size: 87
48858299 ACTTGTAATC
* * * * *
48858309 TTCGATCTGTTTTGCTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTA-CTCCACTGCA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACC-AGCTCCACTGCA
* * *
48858373 ACCGAGGGAGGCAAGGCTAGTGTC
65 ACCGATGGAGGCAAGGCT-TTGTT
* ** * * * *
48858397 TTCGATCTGCTTTGCTGTCAGCGCAAGAGGGCAAGATCTGCTATCTTTAACCTGCTCCACTGTAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* * *
48858462 CCGAGGGAGGCAAGAC-TGGTAT
66 CCGATGGAGGCAAGGCTTTGT-T
* *
48858484 CTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCA
1 -TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCA
* * ** *
48858549 ACCTATGGAGGCAAGACTGGGGTC
65 ACCGATGGAGGCAAGGCT-TTGTT
* * * * * * *
48858573 TTCGATCTACTTCGCTGTCTATGCAGGAAGGTAAGATCTACTATCTTTAACCCGCTCTATTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
48858638 CCGATGGAGGCAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * *
48858660 TTTGATCTGCTTCACTGTCAATGCAGGAAAGCAAGATATGCTAT-TCTTAACCAGCTCAACTGCA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCT-TTAACCAGCTCCACTGCA
*
48858724 ACCGATAGAGGCAAGGCTTTGTT
65 ACCGATGGAGGCAAGGCTTTGTT
* *
48858747 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATATTTAACCAGCTCCATTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
48858812 CCAATGGAGGCAAGGCTTTGCTT
66 CCGATGGAGGCAAGGCTTTG-TT
* * *
48858835 TT-GATCTGCTTCACTGTCAATGCAGGAAAGCACGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
48858899 CCGGTGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
48858921 TTCTATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACTATCTT
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
48858968 CACTGATCTG
Statistics
Matches: 492, Mismatches: 70, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
86 7 0.01
87 262 0.53
88 220 0.45
90 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:48861026 original size:14 final size:14
Alignment explanation
Indices: 48860995--48861025 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
48860985 TGGCCTCTCC
48860995 TTTTCTTTTTCCTT
1 TTTTCTTTTTCCTT
48861009 TTTTCTTTTT-CTT
1 TTTTCTTTTTCCTT
48861022 TTTT
1 TTTT
48861026 TTTCAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTTCCTT
Found at i:48862567 original size:285 final size:285
Alignment explanation
Indices: 48862057--48862626 Score: 1088
Period size: 285 Copynumber: 2.0 Consensus size: 285
48862047 AAAACTACAG
48862057 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
1 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
48862122 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCTAACATTGTGTGTATGATTTCCTCGC
66 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCTAACATTGTGTGTATGATTTCCTCGC
48862187 AGAGCTTCATCTCATTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
131 AGAGCTTCATCTCATTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
*
48862252 GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTTCATAATTTTCACTTGA
196 GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTGA
48862317 ATCAGAAATAACTAATCCCCTTCCT
261 ATCAGAAATAACTAATCCCCTTCCT
48862342 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
1 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
*
48862407 TCCCTTTTCATTTGCTTTTTCGTCGATGTGAACGTTT-CTCAACATTGTGTGTATGATTTCCTCG
66 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCT-AACATTGTGTGTATGATTTCCTCG
*
48862471 CAGAGCTTCATCTCCTTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTG
130 CAGAGCTTCATCTCATTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTG
*
48862536 GGTCTCGTACCCCTTCTCGTGATGGAACTCACCATGGCTTCTTGTCTTTCCATAATTTTCACTTG
195 GGTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTG
48862601 AATCAGAAATAACTAATCCCCTTCCT
260 AATCAGAAATAACTAATCCCCTTCCT
48862627 CTTTCACGTC
Statistics
Matches: 280, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
284 2 0.01
285 278 0.99
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (285 bp):
GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCTAACATTGTGTGTATGATTTCCTCGC
AGAGCTTCATCTCATTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTGA
ATCAGAAATAACTAATCCCCTTCCT
Found at i:48871848 original size:22 final size:22
Alignment explanation
Indices: 48871797--48871848 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
48871787 ATATTATTGT
** *
48871797 TACTATTTCTTTACTATTTTAC
1 TACTATTTCACTACTATATTAC
*
48871819 TA-TCATTTCACTATTATATTAC
1 TACT-ATTTCACTACTATATTAC
48871841 TACTATTT
1 TACTATTT
48871849 TTTTGTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (22 bp):
TACTATTTCACTACTATATTAC
Found at i:48879148 original size:4 final size:5
Alignment explanation
Indices: 48879098--48879149 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
48879088 ATGGACAAGT
* * *
48879098 TTTAA TTTAA ATAAA TTTAA TTT-T TTATAA TTTAA TTTAA TTTAA -TTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT-TAA TTTAA TTTAA TTTAA TTTAA
48879147 TTT
1 TTT
48879150 TAATCTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 6 0.16
5 30 0.79
6 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:48879153 original size:25 final size:24
Alignment explanation
Indices: 48879097--48879158 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
48879087 CATGGACAAG
*
48879097 TTTTAATTTAAATAAATTTAATTT
1 TTTTAATTTAAATAAATTTAATTA
* *
48879121 TTTATAATTTAATTTAATTTAATTAA
1 TTT-TAATTTAAATAAATTTAATT-A
*
48879147 TTTTAATCTAAA
1 TTTTAATTTAAA
48879159 AGTATCACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 3 0.10
25 25 0.81
26 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTAATTTAAATAAATTTAATTA
Found at i:48882893 original size:26 final size:26
Alignment explanation
Indices: 48882857--48882910 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
48882847 AATTTTTAAC
48882857 ATAGTTTTCATCTCAATGAACTGAAA
1 ATAGTTTTCATCTCAATGAACTGAAA
48882883 ATAGTTTTCATCTCAATGAACTGAAA
1 ATAGTTTTCATCTCAATGAACTGAAA
48882909 AT
1 AT
48882911 CATTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (26 bp):
ATAGTTTTCATCTCAATGAACTGAAA
Found at i:48885716 original size:14 final size:14
Alignment explanation
Indices: 48885699--48885728 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48885689 TGTTTGGCTT
*
48885699 AAAATGTTTTCCGA
1 AAAATATTTTCCGA
48885713 AAAATATTTTCCGA
1 AAAATATTTTCCGA
48885727 AA
1 AA
48885729 TTTTCGGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (14 bp):
AAAATATTTTCCGA
Found at i:48888046 original size:5 final size:5
Alignment explanation
Indices: 48888031--48888060 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
48888021 TGAAAGGACC
48888031 ATATAT ATATT ATATT ATATT ATATT ATAT
1 ATAT-T ATATT ATATT ATATT ATATT ATAT
48888061 ATTATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:48889084 original size:20 final size:20
Alignment explanation
Indices: 48889056--48889098 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
48889046 TACTCTTTTT
*
48889056 TTTTTACTATTTT-CTTATTA
1 TTTTCACTATTTTGC-TATTA
48889076 TTTTCACTATTTTGCTATTA
1 TTTTCACTATTTTGCTATTA
48889096 TTT
1 TTT
48889099 CAATAATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTCACTATTTTGCTATTA
Found at i:48889527 original size:17 final size:17
Alignment explanation
Indices: 48889507--48889543 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
48889497 AATTAACTGA
48889507 AAATTAATATTTTTAAT
1 AAATTAATATTTTTAAT
48889524 AAATTAATATTTTTAAT
1 AAATTAATATTTTTAAT
48889541 AAA
1 AAA
48889544 ATATGTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTAATATTTTTAAT
Found at i:48894074 original size:21 final size:21
Alignment explanation
Indices: 48894048--48894090 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
48894038 TTTGGGTGGA
*
48894048 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
48894069 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
48894090 T
1 T
48894091 GGCGTGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:48897997 original size:20 final size:19
Alignment explanation
Indices: 48897968--48898007 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
48897958 CGAAAAACGA
48897968 TTTTTGAAAAATGATTTAC
1 TTTTTGAAAAATGATTTAC
48897987 TTTTCTGAAAAATGATTTAC
1 TTTT-TGAAAAATGATTTAC
48898007 T
1 T
48898008 AGAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (19 bp):
TTTTTGAAAAATGATTTAC
Found at i:48899454 original size:27 final size:29
Alignment explanation
Indices: 48899385--48899458 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 29
48899375 TGCCAATTAT
*
48899385 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AAT-AA
48899417 TTCAATATCTAACAAGCTTAAAAC-AT-A
1 TTCAATATCTAACAAGCTTAAAACAATAA
48899444 TTCAATATCTAACAA
1 TTCAATATCTAACAA
48899459 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 16 0.39
29 2 0.05
32 23 0.56
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (29 bp):
TTCAATATCTAACAAGCTTAAAACAATAA
Found at i:48900919 original size:27 final size:27
Alignment explanation
Indices: 48900859--48900919 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
48900849 ATACCACACA
**
48900859 AATATTTGATCACTATAAAAAAGATTT
1 AATATTTGATCACTATAAAAAAGATAC
* * *
48900886 AAAATTTGATCACTATAAAATATATAC
1 AATATTTGATCACTATAAAAAAGATAC
48900913 AATATTT
1 AATATTT
48900920 TAGATCGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (27 bp):
AATATTTGATCACTATAAAAAAGATAC
Found at i:48902879 original size:25 final size:24
Alignment explanation
Indices: 48902825--48902879 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
48902815 GAAGAGGAAC
*
48902825 AGGAAATTTTCTAAGAAAGAGAGA
1 AGGAAATTTGCTAAGAAAGAGAGA
* *
48902849 AAGAAATTTGGCTGAGAAAGA-ATGA
1 AGGAAATTT-GCTAAGAAAGAGA-GA
48902874 AGGAAA
1 AGGAAA
48902880 GAAAAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.51, C:0.04, G:0.27, T:0.18
Consensus pattern (24 bp):
AGGAAATTTGCTAAGAAAGAGAGA
Found at i:48902888 original size:18 final size:18
Alignment explanation
Indices: 48902865--48902904 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
48902855 TTTGGCTGAG
*
48902865 AAAGAATGAAGGAAA-GAA
1 AAAGAAAGAA-GAAAGGAA
48902883 AAAGAAAGAAGAAAGGAA
1 AAAGAAAGAAGAAAGGAA
48902901 AAAG
1 AAAG
48902905 GGGATCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (18 bp):
AAAGAAAGAAGAAAGGAA
Found at i:48904595 original size:29 final size:29
Alignment explanation
Indices: 48904553--48904610 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
48904543 AATACTAATG
*
48904553 ATAATATCATTATTGCTCAAGAGATTACT
1 ATAAAATCATTATTGCTCAAGAGATTACT
*
48904582 ATAAAATCATTATTGCTCAAGAGGTTACT
1 ATAAAATCATTATTGCTCAAGAGATTACT
48904611 CACTCCGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (29 bp):
ATAAAATCATTATTGCTCAAGAGATTACT
Found at i:48905359 original size:22 final size:23
Alignment explanation
Indices: 48905326--48905372 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
48905316 CCATTTGAGG
48905326 TTAATTTTCTCCAAAGTGCCAAT
1 TTAATTTTCTCCAAAGTGCCAAT
* *
48905349 TTAA-TTTCTCCAAGGTTCCAAT
1 TTAATTTTCTCCAAAGTGCCAAT
48905371 TT
1 TT
48905373 CAAATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (23 bp):
TTAATTTTCTCCAAAGTGCCAAT
Found at i:48907988 original size:30 final size:28
Alignment explanation
Indices: 48907954--48908034 Score: 99
Period size: 30 Copynumber: 2.8 Consensus size: 28
48907944 TTAATATTTT
*
48907954 ATTAACTTATAATTTTATATCTTTAAAAAA
1 ATTAAATTATAATTTTAT-T-TTTAAAAAA
*
48907984 ATTAAATTAATAATTATTATTTTTAAAGAA
1 ATTAAATT-ATAATT-TTATTTTTAAAAAA
*
48908014 ATTAAAGTATAATTTTATTTT
1 ATTAAATTATAATTTTATTTT
48908035 ATATTAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.15
29 6 0.13
30 22 0.48
31 7 0.15
32 4 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTAAATTATAATTTTATTTTTAAAAAA
Found at i:48919784 original size:3 final size:3
Alignment explanation
Indices: 48919727--48919765 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
48919717 TAAATATTTG
48919727 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48919766 TTTTAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48919828 original size:38 final size:34
Alignment explanation
Indices: 48919741--48919832 Score: 103
Period size: 34 Copynumber: 2.6 Consensus size: 34
48919731 TAATAATAAT
** *
48919741 AATAATAATAATAATAATAATAATATTTTAAAAC
1 AATAATAATAGCAAAAATAATAATATTTTAAAAC
* *
48919775 AATAATAATAGCAAAAATAATGATATTGTTAAAATT
1 AATAATAATAGCAAAAATAATAATATT-TTAAAA-C
48919811 AATTAATTAATAGCAAAAATAA
1 AA-TAA-TAATAGCAAAAATAA
48919833 CAAAAAGGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 23 0.47
35 6 0.12
36 2 0.04
37 3 0.06
38 15 0.31
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (34 bp):
AATAATAATAGCAAAAATAATAATATTTTAAAAC
Found at i:48920970 original size:30 final size:30
Alignment explanation
Indices: 48920936--48921001 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
48920926 TGGGATTTTG
*
48920936 TTGGGCATCGGCTTGGGTTTGTAATGGGTT
1 TTGGGCATCGGCTAGGGTTTGTAATGGGTT
* * * * *
48920966 TTGGGTATTGGGTAGGTTTTTTAATGGGTT
1 TTGGGCATCGGCTAGGGTTTGTAATGGGTT
48920996 TTGGGC
1 TTGGGC
48921002 TGGGCACAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.11, C:0.06, G:0.39, T:0.44
Consensus pattern (30 bp):
TTGGGCATCGGCTAGGGTTTGTAATGGGTT
Found at i:48925619 original size:18 final size:18
Alignment explanation
Indices: 48925598--48925632 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
48925588 AATATATAAA
48925598 AATTGATGA-ACCTGGAAT
1 AATTGA-GATACCTGGAAT
48925616 AATTGAGATACCTGGAA
1 AATTGAGATACCTGGAA
48925633 CAAATTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (18 bp):
AATTGAGATACCTGGAAT
Found at i:48931761 original size:2 final size:2
Alignment explanation
Indices: 48931754--48931780 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48931744 TGAAACAGTT
48931754 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48931781 GATTCCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48935059 original size:20 final size:20
Alignment explanation
Indices: 48935031--48935075 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48935021 TAATATGTCT
*
48935031 TGTCCTAACTGAATTAATGG
1 TGTCTTAACTGAATTAATGG
* *
48935051 TGTCTTAACTTAATTAATTG
1 TGTCTTAACTGAATTAATGG
48935071 TGTCT
1 TGTCT
48935076 AGTTTTAATT
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:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTCTTAACTGAATTAATGG
Found at i:48936042 original size:22 final size:22
Alignment explanation
Indices: 48935976--48936133 Score: 93
Period size: 23 Copynumber: 7.1 Consensus size: 22
48935966 TTTGATCCAT
*
48935976 TTTCGTACCAAAACTTATACC-
1 TTTCGTACCAAAACCTATACCA
** * * * *
48935997 TTTTTTACCTACACCAAAATCCA
1 TTTCGTACCAAAACCTATA-CCA
*
48936020 TGTCGTACCAAAACCTATACCA
1 TTTCGTACCAAAACCTATACCA
* * * * *
48936042 TTTCGTACCTACACCAAAATCTA
1 TTTCGTACCAAAACCTATA-CCA
*
48936065 TTTTGTACCAAAACCTATACCA
1 TTTCGTACCAAAACCTATACCA
* * * *
48936087 TTTCGTACCTATACCAAAACCCA
1 TTTCGTACCAAAACCTATA-CCA
* * *
48936110 TTTCCTATCAAAACCGATACCA
1 TTTCGTACCAAAACCTATACCA
48936132 TT
1 TT
48936134 CCATAATTAA
Statistics
Matches: 96, Mismatches: 37, Indels: 7
0.69 0.26 0.05
Matches are distributed among these distances:
21 12 0.12
22 40 0.42
23 44 0.46
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.30
Consensus pattern (22 bp):
TTTCGTACCAAAACCTATACCA
Found at i:48936052 original size:45 final size:45
Alignment explanation
Indices: 48935970--48936133 Score: 213
Period size: 45 Copynumber: 3.6 Consensus size: 45
48935960 GACCTTTTTG
* **
48935970 ATCCATTTTCGTACCAAAACTTATACC-TTTTTTACCTACACCAAA
1 ATCCA-TTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
*
48936015 ATCCATGTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * *
48936060 ATCTATTTTGTACCAAAACCTATACCATTTCGTACCTATACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * * *
48936105 ACCCATTTCCTATCAAAACCGATACCATT
1 ATCCATTTCGTACCAAAACCTATACCATT
48936134 CCATAATTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
44 19 0.18
45 85 0.82
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.30
Consensus pattern (45 bp):
ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
Found at i:48936072 original size:23 final size:23
Alignment explanation
Indices: 48936002--48936113 Score: 93
Period size: 22 Copynumber: 5.0 Consensus size: 23
48935992 ATACCTTTTT
*
48936002 TACCTACACCAAAATCCATGTCG
1 TACCTACACCAAAATCCATTTCG
* * * *
48936025 TACCAAAACCTATA-CCATTTCG
1 TACCTACACCAAAATCCATTTCG
* *
48936047 TACCTACACCAAAATCTATTTTG
1 TACCTACACCAAAATCCATTTCG
* * * *
48936070 TACCAAAACCTATA-CCATTTCG
1 TACCTACACCAAAATCCATTTCG
* *
48936092 TACCTATACCAAAACCCATTTC
1 TACCTACACCAAAATCCATTTC
48936114 CTATCAAAAC
Statistics
Matches: 66, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
22 33 0.50
23 33 0.50
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.28
Consensus pattern (23 bp):
TACCTACACCAAAATCCATTTCG
Found at i:48940189 original size:79 final size:81
Alignment explanation
Indices: 48940053--48940235 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
48940043 TCGAATGATG
* *
48940053 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48940117 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
48940132 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
48940194 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
48940212 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48940236 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:48940251 original size:40 final size:40
Alignment explanation
Indices: 48940054--48940237 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
48940044 CGAATGATGT
* * * *
48940054 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
48940094 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
48940134 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48940172 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48940213 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48940238 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:48940259 original size:79 final size:79
Alignment explanation
Indices: 48940106--48940270 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
48940096 GGACTAAGAT
* **
48940106 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
48940171 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
48940185 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
48940248 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48940264 CCGAAGG
1 CCGAAGG
48940271 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48942092 original size:40 final size:38
Alignment explanation
Indices: 48942009--48942094 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
48941999 GAAAAAACAA
* **
48942009 AAAAAAAGAGTGAAAATCAAAAGGAAAATAAAATTGAG
1 AAAAAAAGAGGGAAAATCAAAAGGAAAATAAAAGAGAG
48942047 AAAAAAAGAGGGAAAATTGCAAAA-GAAAATGAAAAGAGAG
1 AAAAAAAGAGGGAAAA-T-CAAAAGGAAAAT-AAAAGAGAG
48942087 TAAAAAAA
1 -AAAAAAA
48942095 AAGAAATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 15 0.37
39 7 0.17
40 12 0.29
41 7 0.17
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.10
Consensus pattern (38 bp):
AAAAAAAGAGGGAAAATCAAAAGGAAAATAAAAGAGAG
Found at i:48946366 original size:22 final size:22
Alignment explanation
Indices: 48946335--48946449 Score: 122
Period size: 22 Copynumber: 5.1 Consensus size: 22
48946325 ACCAAAATCT
* *
48946335 ATTTCATACCAAAACCTATACC
1 ATTTCGTACCAAAACCAATACC
* * * *
48946357 ATTTAGTACCTACACCAAAATCC
1 ATTTCGTACCAAAACCAATA-CC
*
48946380 ATTTCGTACCAAAACCTATACC
1 ATTTCGTACCAAAACCAATACC
* * *
48946402 ATTTCGTACCTATACCAAAACCC
1 ATTTCGTACCAAAACCAATA-CC
48946425 ATTTCGTACCAAAACCAATACC
1 ATTTCGTACCAAAACCAATACC
48946447 ATT
1 ATT
48946450 CCATAATTAA
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
22 37 0.51
23 36 0.49
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.27
Consensus pattern (22 bp):
ATTTCGTACCAAAACCAATACC
Found at i:48946384 original size:45 final size:45
Alignment explanation
Indices: 48946286--48946449 Score: 231
Period size: 45 Copynumber: 3.6 Consensus size: 45
48946276 GACCTTTTTG
* *
48946286 ATCCATTTTCATACCAAAACTTATACC-TTTCTTACCTACACCAAA
1 ATCCA-TTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* *
48946331 ATCTATTTCATACCAAAACCTATACCATTTAGTACCTACACCAAA
1 ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* *
48946376 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTATACCAAA
1 ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* * *
48946421 ACCCATTTCGTACCAAAACCAATACCATT
1 ATCCATTTCATACCAAAACCTATACCATT
48946450 CCATAATTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 20 0.19
45 88 0.81
ACGTcount: A:0.37, C:0.31, G:0.02, T:0.29
Consensus pattern (45 bp):
ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
Found at i:48946441 original size:23 final size:22
Alignment explanation
Indices: 48946325--48946449 Score: 115
Period size: 23 Copynumber: 5.5 Consensus size: 22
48946315 TCTTACCTAC
* *
48946325 ACCAAAATCTATTTCATACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
* * * * *
48946348 ACCTATACCATTTAGTACCTAC
1 ACCAAAACCATTTCGTACCAAA
48946370 ACCAAAATCCATTTCGTACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
* * * *
48946393 ACCTATACCATTTCGTACCTAT
1 ACCAAAACCATTTCGTACCAAA
48946415 ACCAAAACCCATTTCGTACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
*
48946438 ACCAATACCATT
1 ACCAAAACCATT
48946450 CCATAATTAA
Statistics
Matches: 79, Mismatches: 21, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
22 38 0.48
23 41 0.52
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.26
Consensus pattern (22 bp):
ACCAAAACCATTTCGTACCAAA
Found at i:48946468 original size:45 final size:44
Alignment explanation
Indices: 48946325--48946481 Score: 138
Period size: 45 Copynumber: 3.5 Consensus size: 44
48946315 TCTTACCTAC
* * * * * *
48946325 ACCAAAATCTATTTCATACCAAAACCTATACCATT-TAGTACCTAC
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCA-TAACTAA
* * * * *
48946370 ACCAAAATCCATTTCGTACCAAAACCTATACCATTTCGTACCTAT
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCATAACTAA
*
48946415 ACCAAAACCCATTTCGTACCAAAACCAATACCATTCCATAATTAA
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCATAACTAA
*
48946460 ACCTAAACCATATTCG-ACCAAA
1 ACCAAAACCAT-TTCGTACCAAA
48946482 CTTAGCCTAC
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
44 10 0.10
45 87 0.90
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.25
Consensus pattern (44 bp):
ACCAAAACCATTTCGTACCAAAACCAATACCATTCCATAACTAA
Found at i:48948475 original size:43 final size:42
Alignment explanation
Indices: 48948318--48948476 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 42
48948308 TATGTGATAT
*
48948318 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-AATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA-A--TA
* * * * * * * *
48948362 TGTGTAAGACCATGTTTGGGACATAGGCATCGTATATGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAATA
48948404 CGTGTAAGACC-CTGTCCT-GGACAG-TGGCATCGTTATTTGAATA
1 CGTGTAAGACCAC-GT-CTGGGAC-GTTGGCATCG-TATTTGAATA
* *
48948447 CATGTAAGACCACGTCTGAGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
48948477 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
42 27 0.31
43 29 0.33
44 28 0.32
45 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAATA
Found at i:48950465 original size:36 final size:35
Alignment explanation
Indices: 48950420--48950535 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 35
48950410 GTTACACTGT
* *
48950420 TCCCGCACATGGAGGAAGGCTTACAGGGGGTCTGGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGGTCT-GC
* *
48950456 TCCCACACATGGAGG-CGGCTTACA-AGAGTCCTGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGGT-CTGC
*
48950490 TCCCACACATGG-GGAAGGCTTAC-GAGGGTTTTGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGG-TCTGC
48950524 TCCCACACATGG
1 TCCCACACATGG
48950536 GGGACACTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
33 2 0.03
34 42 0.61
35 11 0.16
36 14 0.20
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (35 bp):
TCCCACACATGGAGGAAGGCTTACAGAGGGTCTGC
Found at i:48953921 original size:20 final size:20
Alignment explanation
Indices: 48953883--48953921 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48953873 ACCTACATGA
* *
48953883 GACACACAGCTGTGTCACAT
1 GACACACAGCTGAGACACAT
*
48953903 GACACACGGCTGAGACACA
1 GACACACAGCTGAGACACA
48953922 CATCTGTGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.31, G:0.23, T:0.13
Consensus pattern (20 bp):
GACACACAGCTGAGACACAT
Found at i:48961425 original size:16 final size:16
Alignment explanation
Indices: 48961393--48961443 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
48961383 TCTATATATA
*
48961393 TTATAATTTACAT-ATT
1 TTATAA-TTAAATAATT
48961409 TTATAATTAAATAATTT
1 TTATAATTAAATAA-TT
48961426 TTATTAA-TAAATAATT
1 TTA-TAATTAAATAATT
48961442 TT
1 TT
48961444 CAAAAAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 12 0.39
18 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATAATTAAATAATT
Done.