Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 20 of 91
Found at i:6579431 original size:19 final size:19
Alignment explanation
Indices: 6579371--6579431 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
6579361 TAACCGGCGC
*
6579371 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
6579390 CATCGTGCACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
6579409 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
6579428 CATC
1 CATC
6579432 ATGCACATGA
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.21, C:0.43, G:0.15, T:0.21
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:6579560 original size:2 final size:2
Alignment explanation
Indices: 6579549--6579597 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
6579539 AATCATCATG
6579549 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6579590 CA CA CA CA
1 CA CA CA CA
6579598 TATATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6582541 original size:19 final size:20
Alignment explanation
Indices: 6582500--6582543 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
6582490 TGCTTTCTTT
*
6582500 TTCAT-TTTTCATGGTTGAT
1 TTCATGTTTTCATGGTTGAA
6582519 TTCATGTTTTCATGG-TGAA
1 TTCATGTTTTCATGGTTGAA
6582538 TTCATG
1 TTCATG
6582544 GCTGGTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (20 bp):
TTCATGTTTTCATGGTTGAA
Found at i:6589829 original size:2 final size:2
Alignment explanation
Indices: 6589822--6589865 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
6589812 ACTAGTTCTG
6589822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6589862 AT AT
1 AT AT
6589866 GCGNCATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6589896 original size:69 final size:70
Alignment explanation
Indices: 6589801--6589940 Score: 257
Period size: 69 Copynumber: 2.0 Consensus size: 70
6589791 ATATTGTTTT
6589801 CATAAAGACTCACTAGTTCTGATATATATATATATATATATATATATATA-TTATA-TTATATAT
1 CATAAAGACTCACTAGTTCTGATATATATATATATATATATATATATATATTTATATTTATATAT
6589864 ATGCG
66 ATGCG
6589869 NCATAAAGACTCACTAGTTCTGATATATATATATATATATATATATATATATTTATATTTATATA
1 -CATAAAGACTCACTAGTTCTGATATATATATATATATATATATATATATATTTATATTTATATA
6589934 TATGCG
65 TATGCG
6589940 C
1 C
6589941 CAAGTAAATG
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
69 50 0.72
70 6 0.09
71 13 0.19
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (70 bp):
CATAAAGACTCACTAGTTCTGATATATATATATATATATATATATATATATTTATATTTATATAT
ATGCG
Found at i:6589898 original size:2 final size:2
Alignment explanation
Indices: 6589891--6589936 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
6589881 ACTAGTTCTG
* *
6589891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6589933 AT AT
1 AT AT
6589937 GCGCCAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:6592909 original size:25 final size:24
Alignment explanation
Indices: 6592878--6592935 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
6592868 AGGTTACCAC
6592878 TTTTCTTGTTC-ATTCTTTCTTTCTT
1 TTTTCTTGTTCTATTCTTT-TTT-TT
*
6592903 TTTTCTT-TTCTTTTCTTTTTTTT
1 TTTTCTTGTTCTATTCTTTTTTTT
*
6592926 TTTTTTTGTT
1 TTTTCTTGTT
6592936 AGTATTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 8 0.28
24 8 0.28
25 13 0.45
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (24 bp):
TTTTCTTGTTCTATTCTTTTTTTT
Found at i:6592914 original size:16 final size:16
Alignment explanation
Indices: 6592893--6592931 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
6592883 TTGTTCATTC
6592893 TTTC-TTTCTTTTTTCT
1 TTTCTTTTCTTTTTT-T
6592909 TTTCTTTTCTTTTTTT
1 TTTCTTTTCTTTTTTT
6592925 TTT-TTTT
1 TTTCTTTT
6592932 TGTTAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 10 0.45
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTCTTTTCTTTTTTT
Found at i:6592919 original size:21 final size:21
Alignment explanation
Indices: 6592893--6592932 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6592883 TTGTTCATTC
6592893 TTTCTTTCTTTTTTCTTTTCT
1 TTTCTTTCTTTTTTCTTTTCT
* *
6592914 TTTCTTTTTTTTTTTTTTT
1 TTTCTTTCTTTTTTCTTTT
6592933 GTTAGTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTCTTTCTTTTTTCTTTTCT
Found at i:6592931 original size:10 final size:10
Alignment explanation
Indices: 6592893--6592932 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
6592883 TTGTTCATTC
6592893 TTTCTTTCTTT
1 TTTCTTT-TTT
*
6592904 TTTCTTTTCT
1 TTTCTTTTTT
6592914 TTTCTTTTTT
1 TTTCTTTTTT
6592924 TTT-TTTTTT
1 TTTCTTTTTT
6592933 GTTAGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 6 0.22
10 14 0.52
11 7 0.26
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:6595205 original size:44 final size:44
Alignment explanation
Indices: 6595155--6595248 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
6595145 TCATAGTTCG
6595155 TTCACCTTCTGAATTCATCATATCGTTTATGCAATTTTACTTGA
1 TTCACCTTCTGAATTCATCATATCGTTTATGCAATTTTACTTGA
6595199 TTCACCTTCTGAATTCATCATATCGTTTATGCAATTTTACTTGA
1 TTCACCTTCTGAATTCATCATATCGTTTATGCAATTTTACTTGA
6595243 TTCACC
1 TTCACC
6595249 GACAACAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (44 bp):
TTCACCTTCTGAATTCATCATATCGTTTATGCAATTTTACTTGA
Found at i:6598053 original size:25 final size:24
Alignment explanation
Indices: 6598019--6598092 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 24
6598009 CAAATTGGAC
6598019 AAATTTTATTAATATTTATAATAA
1 AAATTTTATTAATATTTATAATAA
* * *
6598043 AAATTTTTATTTAAAAATTA-GAT--
1 AAA-TTTTA-TTAATATTTATAATAA
*
6598066 AAATCTTATTAATATTTATAATAA
1 AAATTTTATTAATATTTATAATAA
6598090 AAA
1 AAA
6598093 ATATTCAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
21 8 0.21
22 6 0.16
23 3 0.08
24 6 0.16
25 7 0.18
26 8 0.21
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
AAATTTTATTAATATTTATAATAA
Found at i:6598053 original size:47 final size:47
Alignment explanation
Indices: 6598000--6598092 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
6597990 CAATTAGAAA
* * *
6598000 TTTTATTTACAAATTGGACAAATTTTATTAATATTTATAATAAAAAT
1 TTTTATTTAAAAATTAGACAAATCTTATTAATATTTATAATAAAAAT
*
6598047 TTTTATTTAAAAATTAGATAAATCTTATTAATATTTATAATAAAAA
1 TTTTATTTAAAAATTAGACAAATCTTATTAATATTTATAATAAAAA
6598093 ATATTCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (47 bp):
TTTTATTTAAAAATTAGACAAATCTTATTAATATTTATAATAAAAAT
Found at i:6600055 original size:20 final size:21
Alignment explanation
Indices: 6600030--6600068 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6600020 TAGAATATTT
6600030 TTTAAAA-AGTAAAAAAATAA
1 TTTAAAATAGTAAAAAAATAA
*
6600050 TTTAAAATATTAAAAAAAT
1 TTTAAAATAGTAAAAAAAT
6600069 TAATGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
TTTAAAATAGTAAAAAAATAA
Found at i:6603009 original size:21 final size:22
Alignment explanation
Indices: 6602955--6603009 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
6602945 AAATATTATT
*
6602955 TATAATTATTT-TAATAAAATA
1 TATAATAATTTATAATAAAATA
*
6602976 TCATAGTAATTTATAATAAAATA
1 T-ATAATAATTTATAATAAAATA
6602999 T-TAATAATTTA
1 TATAATAATTTA
6603010 ATTTAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 10 0.34
22 8 0.28
23 11 0.38
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TATAATAATTTATAATAAAATA
Found at i:6607547 original size:27 final size:27
Alignment explanation
Indices: 6607501--6607587 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
6607491 TTTTAAGTGC
* * * *
6607501 AAAAGTGCCTAGGGGTATTCCAAGCGT
1 AAAAGCGCCTAGAGGCATTCCAAGCAT
** *
6607528 GGAAGCGCCTAGAGGCATTCCAAGTAT
1 AAAAGCGCCTAGAGGCATTCCAAGCAT
*
6607555 AAAAGCGCCT-GAGGGCATTCCAAGCAC
1 AAAAGCGCCTAGA-GGCATTCCAAGCAT
6607582 AAAAGC
1 AAAAGC
6607588 ACCCAGGAGT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 2 0.04
27 46 0.96
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (27 bp):
AAAAGCGCCTAGAGGCATTCCAAGCAT
Found at i:6609101 original size:52 final size:52
Alignment explanation
Indices: 6609039--6609194 Score: 240
Period size: 52 Copynumber: 3.0 Consensus size: 52
6609029 AATATTACGC
* *
6609039 TATTGGCCGCAAGCTTTATTGCTCACTTTTTGGCCATAGTTTGCTATTTACA
1 TATTGGCCGCAAGCTTTATTGCTCACTTCTTGGCCATAGTTTGCTATTCACA
* * *
6609091 TATTGGCCGCAAGCTTTATCGCTCGCTTCTTGACCATAGTTTGCTATTCACA
1 TATTGGCCGCAAGCTTTATTGCTCACTTCTTGGCCATAGTTTGCTATTCACA
* * *
6609143 TATTGGTCGCAAGCTTTATTGCTCACTTCTTGGCCATGGTTTACTATTCACA
1 TATTGGCCGCAAGCTTTATTGCTCACTTCTTGGCCATAGTTTGCTATTCACA
6609195 AAAAGGCCGC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 93 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (52 bp):
TATTGGCCGCAAGCTTTATTGCTCACTTCTTGGCCATAGTTTGCTATTCACA
Found at i:6610322 original size:33 final size:32
Alignment explanation
Indices: 6610280--6610380 Score: 130
Period size: 33 Copynumber: 3.1 Consensus size: 32
6610270 TAATGACATT
*
6610280 CACATCATCACCACCAACTGCAGTAGCATCATC
1 CACATCATCATCACCAACT-CAGTAGCATCATC
** *
6610313 CACATCATCATCACCAACTCCACCAGCATCATT
1 CACATCATCATCACCAACT-CAGTAGCATCATC
*
6610346 CACATCATCATCACCAACTCTAGTAGCAGCATC
1 CACATCATCATCACCAACTC-AGTAGCATCATC
6610379 CA
1 CA
6610381 TATTATTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
32 1 0.02
33 57 0.98
ACGTcount: A:0.34, C:0.40, G:0.07, T:0.20
Consensus pattern (32 bp):
CACATCATCATCACCAACTCAGTAGCATCATC
Found at i:6619937 original size:18 final size:18
Alignment explanation
Indices: 6619914--6619950 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6619904 TCCTCTGCGA
6619914 GGAGAGCCATTTCATACT
1 GGAGAGCCATTTCATACT
*
6619932 GGAGAGTCATTTCATACT
1 GGAGAGCCATTTCATACT
6619950 G
1 G
6619951 AAAGGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (18 bp):
GGAGAGCCATTTCATACT
Found at i:6623907 original size:43 final size:42
Alignment explanation
Indices: 6623837--6623963 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 42
6623827 TAACCCTCCC
*
6623837 TCAGCTCACGTGCACTCCCACACCGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACT-CCACACCGCACATAGCTGGGTCATCA
* *
6623880 TCAGTTCATGTGCACTACCACACCGCACATAGTTGGGTCATCA
1 TCAGCTCATGTGCACT-CCACACCGCACATAGCTGGGTCATCA
* *
6623923 TCAGCTCATGTGCACTCCTACACCGCGCATAGCTGGATCAT
1 TCAGCTCATGTGCACTCC-ACACCGCACATAGCTGGGTCAT
6623964 AATTATCACA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
42 2 0.03
43 73 0.97
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.23
Consensus pattern (42 bp):
TCAGCTCATGTGCACTCCACACCGCACATAGCTGGGTCATCA
Found at i:6625114 original size:20 final size:20
Alignment explanation
Indices: 6625063--6625114 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
6625053 TGAAATGGCA
*
6625063 TGGGAGCATGAAAATGGCTT
1 TGGGAGCATGAAAATGGCGT
* * **
6625083 TAGGTGGGTGAAAATGGCGT
1 TGGGAGCATGAAAATGGCGT
6625103 TGGGAGCATGAA
1 TGGGAGCATGAA
6625115 GGTGGAGGAG
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.40, T:0.23
Consensus pattern (20 bp):
TGGGAGCATGAAAATGGCGT
Found at i:6648285 original size:19 final size:19
Alignment explanation
Indices: 6648261--6648311 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
6648251 AAATTTTAGA
6648261 ATAAAATAATATTTTATTT
1 ATAAAATAATATTTTATTT
6648280 ATAAAATAATATTTTATTT
1 ATAAAATAATATTTTATTT
6648299 ATAAAATAATATT
1 ATAAAATAATATT
6648312 AAAATATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAAAATAATATTTTATTT
Found at i:6651237 original size:55 final size:54
Alignment explanation
Indices: 6651176--6651322 Score: 177
Period size: 55 Copynumber: 2.7 Consensus size: 54
6651166 AATAAGGATG
*
6651176 GGTGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAACTGATGACCGATGGTT
1 GGTGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAACTGATGACCGATGG-T
* * * ** *
6651231 GGTGATTCCAACTGTGTGCAGTGTGGGAGTGCACATGAGCTGATGATTGGTGGT
1 GGTGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAACTGATGACCGATGGT
* * *
6651285 GGTCTATATCTAGCTATGTGCAGTGTGGGAGGGCACAT
1 GGT-GAT-TCCAGCTATGTGCAGTGTGGGAGTGCACAT
6651323 AGTTGAGGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
54 4 0.05
55 48 0.62
56 26 0.33
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.29
Consensus pattern (54 bp):
GGTGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAACTGATGACCGATGGT
Found at i:6652274 original size:11 final size:11
Alignment explanation
Indices: 6652260--6652289 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6652250 AATAATATTT
6652260 TATTAATAAAA
1 TATTAATAAAA
*
6652271 TATTATTAAAA
1 TATTAATAAAA
6652282 TATTAATA
1 TATTAATA
6652290 TTTAGCCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:6652711 original size:19 final size:19
Alignment explanation
Indices: 6652687--6652724 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6652677 CCATTTGACT
6652687 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6652706 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6652725 GGTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:6654129 original size:13 final size:13
Alignment explanation
Indices: 6654111--6654135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6654101 AGAGAAATTG
6654111 TGATTTTATAAAA
1 TGATTTTATAAAA
6654124 TGATTTTATAAA
1 TGATTTTATAAA
6654136 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:6660146 original size:2 final size:2
Alignment explanation
Indices: 6660139--6660163 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6660129 TTAAATATAA
6660139 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
6660164 TTGAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6667749 original size:29 final size:29
Alignment explanation
Indices: 6667707--6667762 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6667697 AATTAAGAAA
*
6667707 ATTCAAATAAGCCCTTATTCTCTTATTGC
1 ATTCAAATAAGCCCTTATACTCTTATTGC
* *
6667736 ATTCAATTAAGCCCTTATACTTTTATT
1 ATTCAAATAAGCCCTTATACTCTTATT
6667763 TTGGATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (29 bp):
ATTCAAATAAGCCCTTATACTCTTATTGC
Found at i:6671875 original size:2 final size:2
Alignment explanation
Indices: 6671864--6671894 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6671854 AAAGCAAATC
6671864 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6671895 ATTTATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6695880 original size:211 final size:210
Alignment explanation
Indices: 6695508--6695900 Score: 572
Period size: 211 Copynumber: 1.9 Consensus size: 210
6695498 TGCCTATAAG
* * * * *
6695508 GCTACAAAACTCCTTAGATTGAGTAAAGGTATACTCAGTGCCATTGTTAGATTTCAGAATTTTAA
1 GCTACAAAACTCATTAGATAGAGTAAAGGAATACTCAGTGCCATTGTTAAATCTCAGAATTTTAA
** *
6695573 TGGTCTGGCCACTTTGGCTCTCAACAAGAGCCTTGAACCTTTTGAACACAACAAAGACCTCACTT
66 TGGTCTGGCCACTTTGGCTCTCAACAAGAAACTTGAACCTCTTGAACACAACAAAGACCTCACTT
* * *
6695638 TTACATTTGATAAAGTACACTCAACACATCCTAGTACAATCATCAATAAAAAGAGTGAATTGAGT
131 TTAAATTTGATAAAGTACACCCAACACATCCTAGGACAATCATCAATAAAAAGAGTGAATTGAGT
6695703 AAAAGTATATTCAGT
196 AAAAGTATATTCAGT
* * * *
6695718 GCTACAAAACTCATTATATAGAGTAAAGGAATAGTTAGTGCCATTGGTTAAATCTCAGGATTTTA
1 GCTACAAAACTCATTAGATAGAGTAAAGGAATACTCAGTGCCATT-GTTAAATCTCAGAATTTTA
* * *
6695783 AT-GTTTAGGCCATTTTGGTTCTCAACAAGAAACTTGAACCTCTTGAACACAACAAAGACCTCAC
65 ATGGTCT-GGCCACTTTGGCTCTCAACAAGAAACTTGAACCTCTTGAACACAACAAAGACCTCAC
* **
6695847 TTTTAAATTTGATAATGTACACCCAGTACATCCTAGGACAATCATCAATAAAAA
129 TTTTAAATTTGATAAAGTACACCCAACACATCCTAGGACAATCATCAATAAAAA
6695901 TAATGAAGCA
Statistics
Matches: 160, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
210 42 0.26
211 118 0.74
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (210 bp):
GCTACAAAACTCATTAGATAGAGTAAAGGAATACTCAGTGCCATTGTTAAATCTCAGAATTTTAA
TGGTCTGGCCACTTTGGCTCTCAACAAGAAACTTGAACCTCTTGAACACAACAAAGACCTCACTT
TTAAATTTGATAAAGTACACCCAACACATCCTAGGACAATCATCAATAAAAAGAGTGAATTGAGT
AAAAGTATATTCAGT
Found at i:6696607 original size:36 final size:36
Alignment explanation
Indices: 6696546--6696653 Score: 110
Period size: 36 Copynumber: 3.0 Consensus size: 36
6696536 AATCTAGTAT
* * * ** *
6696546 CAACTTGCCTTTTCAATAAGGTCAAGTGTAACCTTTA
1 CAACATGCCATTT-AATAAGATCAAGCATAACCTTCA
6696583 CAACATGCCATTTAATAAGATCAAGCATAACCTTCA
1 CAACATGCCATTTAATAAGATCAAGCATAACCTTCA
* * * *
6696619 TAACATGCCATTTCACAAGATCAGGCATAA-CTTCA
1 CAACATGCCATTTAATAAGATCAAGCATAACCTTCA
6696654 ACCAAAACAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
35 5 0.08
36 45 0.74
37 11 0.18
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (36 bp):
CAACATGCCATTTAATAAGATCAAGCATAACCTTCA
Found at i:6697255 original size:63 final size:63
Alignment explanation
Indices: 6697183--6697304 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 63
6697173 AGTTGTCAAC
* * * **
6697183 TCTTCATAAAGTATGT-ACCTTTTTATCTTTGAAAAATTGGTTCTTCTTTTTTAAGATGTCAGT
1 TCTTCATAAAGTAT-TCAACTTTCTATCTTTGAAAAATTGATTCTTCTTTCCTAAGATGTCAGT
* * * *
6697246 TCTTTATAAAGTCTTCAACTTTCTATCTTTGGAGAATTGATTCTTCTTTCCTAAGATGT
1 TCTTCATAAAGTATTCAACTTTCTATCTTTGAAAAATTGATTCTTCTTTCCTAAGATGT
6697305 TGGTTCCTCC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 1 0.02
63 48 0.98
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (63 bp):
TCTTCATAAAGTATTCAACTTTCTATCTTTGAAAAATTGATTCTTCTTTCCTAAGATGTCAGT
Found at i:6715137 original size:28 final size:29
Alignment explanation
Indices: 6715079--6715139 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
6715069 GTAAATTTTT
* ** *
6715079 AAAAATTACACTTTTGCCCTCGTAAAGTG
1 AAAAATTACACTTTTGACCTCAAAAACTG
*
6715108 AAAAATTACA-TTTTTACCTCAAAAACTG
1 AAAAATTACACTTTTGACCTCAAAAACTG
6715136 AAAA
1 AAAA
6715140 TTTGCCCATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTGACCTCAAAAACTG
Found at i:6719654 original size:3 final size:3
Alignment explanation
Indices: 6719646--6719670 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6719636 TCTCTTCTAT
6719646 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
6719671 CCTTCTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6730010 original size:438 final size:437
Alignment explanation
Indices: 6729195--6730073 Score: 1555
Period size: 438 Copynumber: 2.0 Consensus size: 437
6729185 AGGTTAAAAG
*
6729195 AAATTCTCAGAGAAATACAGTAAAGTGGAGAAAGAAAAGACAGAACCAAGAGGGAAAATCTCAAT
1 AAATTCTCAGAGAAATACAGAAAAGTGGAGAAAGAAAAGACAGAACCAAGAGGGAAAATCTCAAT
6729260 AATCCATTATTAAAAGCTACCAGAAACTAAAAATATCATGATGGTATTAGACTAATCTGTAACCC
66 AATCCATTATTAAAAGCTACCAGAAACTAAAAATATCATGATGGTATTAGACTAATCTGTAACCC
*
6729325 TAACATAAACACAAAATACCAAATATAACCTAAATGCGGTAAAAATTCTCTGAACACTGAAAATT
131 TAACATAAACACAAAATACCAAATATAACCTAAATGCGGTAAAAATTCTCTAAACACTGAAAATT
*
6729390 ACAAAAACACCCAAAAAAAATATATATTAATCTCTAATCATTCTCTCCCTAATTGATGCAAAACA
196 ACAAAAACACCCAAAAAAAATATATATCAATCTCTAATCATTCTCTCCCTAATTGATGCAAAACA
*
6729455 AGGGCGGGGAAGAAGAGGCGAAGAGAGCTAGAGAAAAATAAGACATAAAGGGCAGAAACACCATT
261 AGGGCGGGGAAGAAGAGGCGAAGAGAGATAGAGAAAAATAAGACA-AAAGGGCAGAAACACCATT
* *
6729520 AAAAATAAATAATCTCTACATAATTTAATTCCAATAAGCATGATCTTGTTCTGCATCAGTCTCCC
325 AAAAATAAATAATCCCTACATAATTTAATTCCAATAAACATGATCTTGTTCTGCATCAGTCTCCC
6729585 TAATCGATGCAAAACAAGGGAGAGGAAGGACAGACAAAGTAAGAATGA
390 TAATCGATGCAAAACAAGGGAGAGGAAGGACAGACAAAGTAAGAATGA
6729633 AAATTCTCAGAGAAATACAGAAAAGTGGAGAAAGAAAAGACAGAACCAAGAGGGAAAATCTCAAT
1 AAATTCTCAGAGAAATACAGAAAAGTGGAGAAAGAAAAGACAGAACCAAGAGGGAAAATCTCAAT
6729698 AATCCATTATTAAAAGCTACCAGAAACTAAAAATATCATAGATGGTATTAGACTAATCTGTAACC
66 AATCCATTATTAAAAGCTACCAGAAACTAAAAATATCAT-GATGGTATTAGACTAATCTGTAACC
*
6729763 CTAACATAAACACAAAATACCAAATATAACCTAAATGCGGTAAAAATTCTCTAAATACTGAAAAT
130 CTAACATAAACACAAAATACCAAATATAACCTAAATGCGGTAAAAATTCTCTAAACACTGAAAAT
** *
6729828 TACAAATGCACCCAAAAAAATATATATATCAATCTCTAATCATTCTTTCCCTAATTGATGCAAAA
195 TACAAAAACACCCAAAAAAA-ATATATATCAATCTCTAATCATTCTCTCCCTAATTGATGCAAAA
* * * * *
6729893 CAGGGGTGGGGAAGAAGAGGC-AGAGAGTGATAGAGAAAGATAAGAC-AAAGGGCAGAAACACCG
259 CAAGGGCGGGGAAGAAGAGGCGA-AGAGAGATAGAGAAAAATAAGACAAAAGGGCAGAAACACCA
6729956 TTAAAAATAAATAATCCCTACATAATTTAATTCCAATAAACATGATCTTGTTCTGCATCAGTCTC
323 TTAAAAATAAATAATCCCTACATAATTTAATTCCAATAAACATGATCTTGTTCTGCATCAGTCTC
* *
6730021 CCTAATTGATGCAAAACACGGGAGAGGAAGGACAGACAAAGTAAGAATGA
388 CCTAATCGATGCAAAACAAGGGAGAGGAAGGACAGACAAAGTAAGAATGA
6730071 AAA
1 AAA
6730074 AAAAAAATTA
Statistics
Matches: 421, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
438 233 0.55
439 107 0.25
440 81 0.19
ACGTcount: A:0.46, C:0.17, G:0.16, T:0.21
Consensus pattern (437 bp):
AAATTCTCAGAGAAATACAGAAAAGTGGAGAAAGAAAAGACAGAACCAAGAGGGAAAATCTCAAT
AATCCATTATTAAAAGCTACCAGAAACTAAAAATATCATGATGGTATTAGACTAATCTGTAACCC
TAACATAAACACAAAATACCAAATATAACCTAAATGCGGTAAAAATTCTCTAAACACTGAAAATT
ACAAAAACACCCAAAAAAAATATATATCAATCTCTAATCATTCTCTCCCTAATTGATGCAAAACA
AGGGCGGGGAAGAAGAGGCGAAGAGAGATAGAGAAAAATAAGACAAAAGGGCAGAAACACCATTA
AAAATAAATAATCCCTACATAATTTAATTCCAATAAACATGATCTTGTTCTGCATCAGTCTCCCT
AATCGATGCAAAACAAGGGAGAGGAAGGACAGACAAAGTAAGAATGA
Found at i:6731401 original size:2 final size:2
Alignment explanation
Indices: 6731394--6731434 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
6731384 CATGCAAACG
*
6731394 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA AA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
6731435 TCTGCAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6731556 original size:15 final size:15
Alignment explanation
Indices: 6731536--6731564 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6731526 TTATTACAGT
6731536 AATAATAACAATAAC
1 AATAATAACAATAAC
6731551 AATAATAACAATAA
1 AATAATAACAATAA
6731565 TATTGATGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAATAACAATAAC
Found at i:6732174 original size:3 final size:3
Alignment explanation
Indices: 6732166--6732199 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
6732156 AGAGAGAGAG
* *
6732166 AGA AGA AGA AGA AGA AAA AGA AGA AGC AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
6732200 AGATAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6739157 original size:21 final size:21
Alignment explanation
Indices: 6739133--6739172 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6739123 GTGAGTACGG
6739133 TTTGGTTTAATCGATTTTTAA
1 TTTGGTTTAATCGATTTTTAA
*
6739154 TTTGGTTTAATCGGTTTTT
1 TTTGGTTTAATCGATTTTT
6739173 GGTTTCGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.60
Consensus pattern (21 bp):
TTTGGTTTAATCGATTTTTAA
Found at i:6739182 original size:21 final size:21
Alignment explanation
Indices: 6739131--6739182 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
6739121 GGGTGAGTAC
6739131 GGTTTGGTTTAATCGATTTTT
1 GGTTTGGTTTAATCGATTTTT
** *
6739152 AATTTGGTTTAATCGGTTTTT
1 GGTTTGGTTTAATCGATTTTT
*
6739173 GGTTTCGTTT
1 GGTTTGGTTT
6739183 CGATAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.06, G:0.23, T:0.58
Consensus pattern (21 bp):
GGTTTGGTTTAATCGATTTTT
Found at i:6740230 original size:2 final size:2
Alignment explanation
Indices: 6740223--6740260 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6740213 GTCCAAAGAC
6740223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6740261 TTAATGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6740932 original size:44 final size:47
Alignment explanation
Indices: 6740866--6740962 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 47
6740856 AGTTTAATTT
* * **
6740866 TAATATTTTATTTATAATTTATA-TTATT-ATGATTTAA-ATATTAA
1 TAATTTTTTATTTATAATTTATACTCATTAAAAATTTAATATATTAA
* *
6740910 TAATTTTTTATTTTTTATTTATACTCATTAAAAATTTAATATATTAA
1 TAATTTTTTATTTATAATTTATACTCATTAAAAATTTAATATATTAA
6740957 TAATTT
1 TAATTT
6740963 AATAAATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 20 0.45
45 4 0.09
46 7 0.16
47 13 0.30
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (47 bp):
TAATTTTTTATTTATAATTTATACTCATTAAAAATTTAATATATTAA
Found at i:6741043 original size:26 final size:27
Alignment explanation
Indices: 6740989--6741061 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 27
6740979 ATATTTTAAA
*
6740989 ATATTTATATT-ATAATATTTTAA-T-C
1 ATATTAATATTAATAAT-TTTTAATTAC
*
6741014 ATATTAATATTAATAATTTTTAAGTTAT
1 ATATTAATATTAATAATTTTTAA-TTAC
6741042 ATATATAATATTAAT-ATTTT
1 ATAT-TAATATTAATAATTTT
6741062 AAAATTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 16 0.39
26 5 0.12
27 1 0.02
28 9 0.22
29 10 0.24
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
ATATTAATATTAATAATTTTTAATTAC
Found at i:6745235 original size:18 final size:18
Alignment explanation
Indices: 6745212--6745255 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6745202 TGACAATTTT
6745212 GGACACGACACGTTAACA
1 GGACACGACACGTTAACA
*
6745230 GGACACGACATGTTAACA
1 GGACACGACACGTTAACA
*
6745248 TGACACGA
1 GGACACGA
6745256 GAAGACACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.14
Consensus pattern (18 bp):
GGACACGACACGTTAACA
Found at i:6745595 original size:32 final size:31
Alignment explanation
Indices: 6745557--6745628 Score: 108
Period size: 32 Copynumber: 2.3 Consensus size: 31
6745547 TAATGCACAG
6745557 CGCACCACGGCACCATCAGACCACCAGACCA
1 CGCACCACGGCACCATCAGACCACCAGACCA
* *
6745588 CAGCACCACGGCACCGTCAGATCACCAGACCA
1 C-GCACCACGGCACCATCAGACCACCAGACCA
6745620 CGACACCAC
1 CG-CACCAC
6745629 CAAACCACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.05
32 35 0.95
ACGTcount: A:0.32, C:0.47, G:0.17, T:0.04
Consensus pattern (31 bp):
CGCACCACGGCACCATCAGACCACCAGACCA
Found at i:6745608 original size:24 final size:24
Alignment explanation
Indices: 6745581--6745626 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6745571 ATCAGACCAC
*
6745581 CAGACCA-CAGCACCACGGCACCGT
1 CAGACCACCAG-ACCACGACACCGT
*
6745605 CAGATCACCAGACCACGACACC
1 CAGACCACCAGACCACGACACC
6745627 ACCAAACCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.33, C:0.46, G:0.17, T:0.04
Consensus pattern (24 bp):
CAGACCACCAGACCACGACACCGT
Found at i:6745664 original size:18 final size:18
Alignment explanation
Indices: 6745638--6745686 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
6745628 CCAAACCACT
*
6745638 AGATTTTTCTTCTTCACC
1 AGATCTTTCTTCTTCACC
*
6745656 AGATCTTTCTTCGTCACC
1 AGATCTTTCTTCTTCACC
*
6745674 AAATCTTTCTTCT
1 AGATCTTTCTTCT
6745687 CTTCTTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (18 bp):
AGATCTTTCTTCTTCACC
Found at i:6756401 original size:21 final size:21
Alignment explanation
Indices: 6756359--6756401 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6756349 CCTGTACCGA
*
6756359 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
6756380 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
6756401 T
1 T
6756402 TGACCAGTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:6759412 original size:30 final size:28
Alignment explanation
Indices: 6759378--6759439 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
6759368 TTTTTGAAAT
* *
6759378 TTACACTTTTACCTTCATAAAAGTGAAAAA
1 TTACACTTTTACC--CAAAAAACTGAAAAA
* *
6759408 TTACATTTTTGCCCAAAAAACTGAAAAA
1 TTACACTTTTACCCAAAAAACTGAAAAA
6759436 TTAC
1 TTAC
6759440 CCATAGACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 17 0.61
30 11 0.39
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (28 bp):
TTACACTTTTACCCAAAAAACTGAAAAA
Found at i:6760264 original size:22 final size:22
Alignment explanation
Indices: 6760236--6760278 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6760226 TAACTTTTTC
6760236 TATATTGATTTAATTTTATTAA
1 TATATTGATTTAATTTTATTAA
* *
6760258 TATATTGTTTTCATTTTATTA
1 TATATTGATTTAATTTTATTA
6760279 TTAGGTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (22 bp):
TATATTGATTTAATTTTATTAA
Found at i:6762169 original size:21 final size:22
Alignment explanation
Indices: 6762131--6762171 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6762121 AGAAAAAACA
**
6762131 AATTATTAATTATTAATTTAAC
1 AATTATTAATTAAAAATTTAAC
6762153 AATT-TTAATTAAAAATTTA
1 AATTATTAATTAAAAATTTA
6762172 TATAACTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATTAATTAAAAATTTAAC
Found at i:6762293 original size:10 final size:9
Alignment explanation
Indices: 6762251--6762292 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
6762241 AACACAACAA
6762251 ATATATATT
1 ATATATATT
6762260 -TATATATAT
1 ATATATAT-T
6762269 ATATATATT
1 ATATATATT
6762278 AT-TATATT
1 ATATATATT
6762286 ATA-ATAT
1 ATATATAT
6762293 AATGTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 19 0.63
9 4 0.13
10 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATATATATT
Found at i:6762300 original size:18 final size:18
Alignment explanation
Indices: 6762250--6762304 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
6762240 CAACACAACA
6762250 AATATATATTTATATATAT
1 AATATA-ATTTATATATAT
*
6762269 ATATATATTATTATAT-TAT
1 A-ATATAAT-TTATATATAT
6762288 AATATAATGTTAT-TATA
1 AATATAAT-TTATATATA
6762305 AAATTTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
19 6 0.20
20 11 0.37
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
AATATAATTTATATATAT
Found at i:6762406 original size:2 final size:2
Alignment explanation
Indices: 6762361--6762391 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6762351 GTTTCATCTN
6762361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6762392 GTAAACACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6762618 original size:24 final size:24
Alignment explanation
Indices: 6762591--6762639 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
6762581 GTAAATAAAT
*
6762591 TATTTAAGTAT-TTAATTAATTCCA
1 TATTTAAGAATATTAATT-ATTCCA
6762615 TATTTAAGAATATTAATTATTCCA
1 TATTTAAGAATATTAATTATTCCA
6762639 T
1 T
6762640 TATCTAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (24 bp):
TATTTAAGAATATTAATTATTCCA
Found at i:6763872 original size:19 final size:19
Alignment explanation
Indices: 6763845--6763886 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
6763835 CCATTTGACT
*
6763845 TATTGGAGTATAATTTGAG
1 TATTTGAGTATAATTTGAG
*
6763864 TATTTGAGTATGATTTGAG
1 TATTTGAGTATAATTTGAG
6763883 -ATTT
1 TATTT
6763887 AGAAGTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (19 bp):
TATTTGAGTATAATTTGAG
Found at i:6764277 original size:22 final size:22
Alignment explanation
Indices: 6764235--6764277 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6764225 GTGGAGGATT
6764235 TCAAGAGAAAAAGTGTGAAAAA
1 TCAAGAGAAAAAGTGTGAAAAA
6764257 TCAAG-GAAAACA-TGTGAAAAA
1 TCAAGAGAAAA-AGTGTGAAAAA
6764278 GATAGGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.58, C:0.07, G:0.21, T:0.14
Consensus pattern (22 bp):
TCAAGAGAAAAAGTGTGAAAAA
Found at i:6765119 original size:15 final size:16
Alignment explanation
Indices: 6765089--6765123 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6765079 ATAAAATATT
6765089 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATTAAA
* *
6765105 ATGTTTTTTAATAAAA
1 ATGTTTTTCAATTAAA
6765121 ATG
1 ATG
6765124 ATATTTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTTCAATTAAA
Found at i:6766545 original size:15 final size:16
Alignment explanation
Indices: 6766525--6766563 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
6766515 CAGAGATTTT
6766525 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
6766540 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
6766556 G-TTTTAAA
1 GATTTTAAA
6766564 AAAAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:6769173 original size:19 final size:19
Alignment explanation
Indices: 6769146--6769183 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6769136 CCATTTGATT
6769146 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
*
6769165 TATTTGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6769184 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:6780533 original size:14 final size:14
Alignment explanation
Indices: 6780514--6780543 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6780504 TCCCAAATCA
6780514 ATTAAGATATAGAG
1 ATTAAGATATAGAG
6780528 ATTAAGATATAGAG
1 ATTAAGATATAGAG
6780542 AT
1 AT
6780544 ATTGTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (14 bp):
ATTAAGATATAGAG
Found at i:6783753 original size:38 final size:37
Alignment explanation
Indices: 6783710--6783788 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 37
6783700 CACTCTTACA
*
6783710 AAAATTTTAAAATTTTTTTAATTTGTTTTTATTCTTTT
1 AAAATTTTAAAATTTTCTTAATTTGTTTTTATT-TTTT
*
6783748 AAAATTTTATAATTTTCTTAATTTGTTTTTATTTTTT
1 AAAATTTTAAAATTTTCTTAATTTGTTTTTATTTTTT
6783785 AAAA
1 AAAA
6783789 AAATTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 8 0.21
38 31 0.79
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (37 bp):
AAAATTTTAAAATTTTCTTAATTTGTTTTTATTTTTT
Found at i:6784609 original size:22 final size:22
Alignment explanation
Indices: 6784579--6784620 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6784569 ATTACAACTA
* *
6784579 ATTTTTTTAAATAGTTTTCAAG
1 ATTTATTTAAATAATTTTCAAG
*
6784601 ATTTATTTATATAATTTTCA
1 ATTTATTTAAATAATTTTCA
6784621 TACAAACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTTATTTAAATAATTTTCAAG
Found at i:6789977 original size:2 final size:2
Alignment explanation
Indices: 6789970--6789998 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6789960 AGTTGTGAGG
6789970 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
6789999 TTAAATGAAC
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6795385 original size:21 final size:21
Alignment explanation
Indices: 6795361--6795427 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
6795351 ATCCCCCCAT
*
6795361 ATCGTGCACATAGCCGGCACC
1 ATCGTGCACATAGCCAGCACC
** * **
6795382 ATCGTGTGCAT-CCCCCCA-C
1 ATCGTGCACATAGCCAGCACC
6795401 ATCGTGCACATAGCCAGCACC
1 ATCGTGCACATAGCCAGCACC
6795422 ATCGTG
1 ATCGTG
6795428 TGCATCCCCC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 10 0.29
20 8 0.24
21 16 0.47
ACGTcount: A:0.22, C:0.39, G:0.21, T:0.18
Consensus pattern (21 bp):
ATCGTGCACATAGCCAGCACC
Found at i:6795390 original size:23 final size:23
Alignment explanation
Indices: 6795364--6795431 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 23
6795354 CCCCCATATC
*
6795364 GTGCACATAGCCGGCACCATCGT
1 GTGCACATAGCCAGCACCATCGT
* **
6795387 GTG--CAT-CCCCCCA-CATC--
1 GTGCACATAGCCAGCACCATCGT
6795404 GTGCACATAGCCAGCACCATCGT
1 GTGCACATAGCCAGCACCATCGT
6795427 GTGCA
1 GTGCA
6795432 TCCCCCCACA
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
17 3 0.09
19 7 0.21
20 8 0.24
21 7 0.21
23 8 0.24
ACGTcount: A:0.22, C:0.38, G:0.22, T:0.18
Consensus pattern (23 bp):
GTGCACATAGCCAGCACCATCGT
Found at i:6795472 original size:38 final size:40
Alignment explanation
Indices: 6795350--6795488 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 40
6795340 GGCTCATGTA
* *
6795350 CATCCCCCCATATCGTGCACATAGCCGGCACCATCGTGTG
1 CATCCCCCCACATCGTGCACATAGCCAGCACCATCGTGTG
6795390 CATCCCCCCACATCGTGCACATAGCCAGCACCATCGTGTG
1 CATCCCCCCACATCGTGCACATAGCCAGCACCATCGTGTG
* * ** *
6795430 CATCCCCCCACATCGTTCACA-A-TCAGTGCCATCGTGTA
1 CATCCCCCCACATCGTGCACATAGCCAGCACCATCGTGTG
6795468 CATCCCCCCACATCGTGCACA
1 CATCCCCCCACATCGTGCACA
6795489 CGGACACTAT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 32 0.35
39 1 0.01
40 58 0.64
ACGTcount: A:0.22, C:0.42, G:0.16, T:0.19
Consensus pattern (40 bp):
CATCCCCCCACATCGTGCACATAGCCAGCACCATCGTGTG
Found at i:6795481 original size:19 final size:19
Alignment explanation
Indices: 6795346--6795484 Score: 75
Period size: 19 Copynumber: 7.1 Consensus size: 19
6795336 ACCCGGCTCA
*
6795346 TGTACATCCCCCCATATCG
1 TGTACATCCCCCCACATCG
* * **
6795365 TGCACATAGCCGGCACCATCG
1 TGTACAT-CCCCCCA-CATCG
*
6795386 TGTGCATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* * **
6795405 TGCACATAGCCAGCACCATCG
1 TGTACAT-CCCCCCA-CATCG
*
6795426 TGTGCATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
****
6795445 T-TCACAATCAGTGC-CATCG
1 TGT-AC-ATCCCCCCACATCG
6795464 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
6795483 TG
1 TG
6795485 CACACGGACA
Statistics
Matches: 83, Mismatches: 29, Indels: 16
0.65 0.23 0.12
Matches are distributed among these distances:
18 5 0.06
19 38 0.46
20 21 0.25
21 19 0.23
ACGTcount: A:0.22, C:0.41, G:0.17, T:0.21
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:6795609 original size:2 final size:2
Alignment explanation
Indices: 6795598--6795644 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
6795588 ATTCATCATG
6795598 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6795639 CA CA CA
1 CA CA CA
6795645 TATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6795649 original size:2 final size:2
Alignment explanation
Indices: 6795644--6795688 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6795634 ACACACACAC
6795644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6795686 AT A
1 AT A
6795689 ATCATATTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6804990 original size:22 final size:22
Alignment explanation
Indices: 6804974--6805016 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6804964 GGTTTTTCTC
*
6804974 TTTTTTTCTTTTAGTTTGTTTA
1 TTTTTTTATTTTAGTTTGTTTA
**
6804996 TTTTTTTATTTTTCTTTGTTT
1 TTTTTTTATTTTAGTTTGTTT
6805017 TCTTTTGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.81
Consensus pattern (22 bp):
TTTTTTTATTTTAGTTTGTTTA
Found at i:6807811 original size:20 final size:21
Alignment explanation
Indices: 6807788--6807835 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
6807778 TATTTTGAAG
* *
6807788 TTGTTTTTTTGTTATTGTT-T
1 TTGTTTGTTTCTTATTGTTCT
6807808 TTGTTTGTTTCTTATTGTTCT
1 TTGTTTGTTTCTTATTGTTCT
6807829 TTGTTTG
1 TTGTTTG
6807836 GGATTTGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.04, C:0.04, G:0.17, T:0.75
Consensus pattern (21 bp):
TTGTTTGTTTCTTATTGTTCT
Found at i:6809876 original size:54 final size:54
Alignment explanation
Indices: 6809808--6809922 Score: 187
Period size: 54 Copynumber: 2.1 Consensus size: 54
6809798 GTTTAAAGAA
* *
6809808 TATGTAAGTTTATGTTAATTAGAAGTG-AATTTTTAACAACAAATATGCATTACT
1 TATGTAAGTTTATGTAAATTAAAAGTGTAA-TTTTAACAACAAATATGCATTACT
*
6809862 TATGTAAGTTTATGTAAATTAAAAGTGTAATTTTAATAACAAATATGCATTACT
1 TATGTAAGTTTATGTAAATTAAAAGTGTAATTTTAACAACAAATATGCATTACT
6809916 TATGTAA
1 TATGTAA
6809923 ATTAACCATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 55 0.96
55 2 0.04
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (54 bp):
TATGTAAGTTTATGTAAATTAAAAGTGTAATTTTAACAACAAATATGCATTACT
Found at i:6820363 original size:76 final size:77
Alignment explanation
Indices: 6820204--6820366 Score: 199
Period size: 77 Copynumber: 2.1 Consensus size: 77
6820194 AATGCCATCT
* * ** * * *
6820204 ATTTTAATTTTGAGTGATTCATAAAAAATAGAAAATTATTTCTTATTTTAAAGTGAATTCTTAAA
1 ATTTTAATTTTGAGTAATTCATAAAAAATAGAAAATTAGTTCACACTATAAAGTAAATTCTTAAA
6820269 ATTAAGGATAGA
66 ATTAAGGATAGA
6820281 ATTTTAATTTTGAGTAATTCATAAAAAATA-AGAAATT-GTTCAACACTATAAAG-AAATTAC-T
1 ATTTTAATTTTGAGTAATTCATAAAAAATAGA-AAATTAGTTC-ACACTATAAAGTAAATT-CTT
*
6820342 AAAATTAAGGATAGC
63 AAAATTAAGGATAGA
6820357 ATTTTAATTT
1 ATTTTAATTT
6820367 GAAAAATTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
76 33 0.44
77 42 0.56
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (77 bp):
ATTTTAATTTTGAGTAATTCATAAAAAATAGAAAATTAGTTCACACTATAAAGTAAATTCTTAAA
ATTAAGGATAGA
Found at i:6822198 original size:21 final size:21
Alignment explanation
Indices: 6822174--6822216 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6822164 CTTGTGTCCA
6822174 GAACAAGACTCTTGGGATATT
1 GAACAAGACTCTTGGGATATT
*
6822195 GAACAAGACTCTTGGTATATT
1 GAACAAGACTCTTGGGATATT
6822216 G
1 G
6822217 TCGTTGATCT
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:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (21 bp):
GAACAAGACTCTTGGGATATT
Found at i:6822544 original size:81 final size:81
Alignment explanation
Indices: 6822418--6822579 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
6822408 CTTAAAAAAT
6822418 CATTTAAGAGATATCATCATCATTTTAGGAGGATAAGTGTCAAAAATTAAAAATAAATAAAGAAA
1 CATTTAAGAGATATCATCATCATTTTAGGAGGATAAGTGTCAAAAATTAAAAATAAATAAAGAAA
6822483 TTTGGCCAAAAATAAG
66 TTTGGCCAAAAATAAG
6822499 CATTTAAGAGATATCATCATCATTTTAGGAGGATAAGTGTCAAAAATTAAAAATAAATAAAGAAA
1 CATTTAAGAGATATCATCATCATTTTAGGAGGATAAGTGTCAAAAATTAAAAATAAATAAAGAAA
6822564 TTTGGCCAAAAATAAG
66 TTTGGCCAAAAATAAG
6822580 GAAGATCATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (81 bp):
CATTTAAGAGATATCATCATCATTTTAGGAGGATAAGTGTCAAAAATTAAAAATAAATAAAGAAA
TTTGGCCAAAAATAAG
Found at i:6827408 original size:2 final size:2
Alignment explanation
Indices: 6827401--6827436 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6827391 AAATCTCCCC
6827401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6827437 TATTTTTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6827492 original size:2 final size:2
Alignment explanation
Indices: 6827485--6827518 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6827475 ACCTACCTAC
6827485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6827519 AGTTTTGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6827947 original size:27 final size:28
Alignment explanation
Indices: 6827916--6827989 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
6827906 AAATCACGTT
*
6827916 AAAAATATAATTGTTACACGTCATGTTC
1 AAAAATATAATTGTTACACGTCATATTC
* *
6827944 AAAAATGTAGTTGTTACACGTCATATT-
1 AAAAATATAATTGTTACACGTCATATTC
* * *
6827971 GAAGATTTAATTGTTACAC
1 AAAAATATAATTGTTACAC
6827990 ACAAATTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 15 0.38
28 24 0.62
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (28 bp):
AAAAATATAATTGTTACACGTCATATTC
Found at i:6828343 original size:29 final size:29
Alignment explanation
Indices: 6828311--6828368 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
6828301 CTATTCAAAA
*
6828311 AAATTAAAATAAATTCTTAT-TCTTTTATT
1 AAATTAAAATAAATCCTTATAT-TTTTATT
* *
6828340 AAATTCAATTAAATCCTTATATTTTTATT
1 AAATTAAAATAAATCCTTATATTTTTATT
6828369 TTATGTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (29 bp):
AAATTAAAATAAATCCTTATATTTTTATT
Found at i:6835646 original size:28 final size:29
Alignment explanation
Indices: 6835614--6835671 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6835604 TACATAATAC
*
6835614 TATTTACAAT-AAATTTTTATTTTTTTAT
1 TATTTACAATCAAATTTTTATATTTTTAT
**
6835642 TATTTTTAATCAAATTTTTATATTTTTAT
1 TATTTACAATCAAATTTTTATATTTTTAT
6835671 T
1 T
6835672 TTATATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (29 bp):
TATTTACAATCAAATTTTTATATTTTTAT
Found at i:6836356 original size:387 final size:388
Alignment explanation
Indices: 6835744--6836784 Score: 1971
Period size: 387 Copynumber: 2.7 Consensus size: 388
6835734 TAATGATAAA
6835744 ATATTATATTATTATTCGTTATGATATGTCAGCAAGTTACATGACATACAATAACAAATAATATT
1 ATATTATATTATTATTCGTTATGATATGTCAGCAAGTTACATGACATACAATAACAAATAATATT
* * * *
6835809 TTAAATAACAAAATTTAATC-ATTATTAGTTATAAAAACTTATTTGATTTAAAAAAAATATAAAA
66 TTAAATAACAAGATTTAATCAATTATAAGTCATAAGAACTTATTTGA-TTAAAAAAAATATAAAA
6835873 CTTAATTAAACATAAAAAATATAAAAATCTATTTGAATTTTTTTAAAATTGTTTTACGAACTATT
130 CTTAATTAAACATAAAAAATATAAAAATCTATTTGAATTTTTTTAAAATTGTTTTACGAACTATT
6835938 TTAGATTTTTTTTTTATTTTTGAAAGTATTATAATATCATCTTTTTACATGTTTGGGTATAATTA
195 TTAGATTTTTTTTTTATTTTTGAAAGTATTATAATATCATCTTTTTACATGTTTGGGTATAATTA
* *
6836003 AAAAATTGTTTATCAAAATACTCTTATATTTTTATTTTATATTCAATATACTCTTATCTTAAGTC
260 AAAAATTATATATCAAAATACTCTTATATTTTTATTTTATATTCAATATACTCTTATCTTAAGTC
6836068 AAAATATCATATATCATTTTATACTTATATTAATAAAGATAAAATATTATATGATAATATTATC
325 AAAATATCATATATCATTTTATACTTATATTAATAAAGATAAAATATTATATGATAATATTATC
6836132 ATATTATATTATTATTCGTTATGATATGTCAGCAAGTTACATGACATACAATAACAAATAATATT
1 ATATTATATTATTATTCGTTATGATATGTCAGCAAGTTACATGACATACAATAACAAATAATATT
6836197 TTAAATAACAAGATTTAATCAATTATAAGTCATAAGAACTTATTTGATT-AAAAAAATATAAAAC
66 TTAAATAACAAGATTTAATCAATTATAAGTCATAAGAACTTATTTGATTAAAAAAAATATAAAAC
6836261 TTAATTAAACATAAAAAATATAAAAATCTATTTGAATTTTTTTAAAATTGTTTTACGAACTATTT
131 TTAATTAAACATAAAAAATATAAAAATCTATTTGAATTTTTTTAAAATTGTTTTACGAACTATTT
6836326 TAGATTTTTTTTTTATTTTTGAAAGTATTATAATATCATCTTTTTACATGTTTGGGTATAATTAA
196 TAGATTTTTTTTTTATTTTTGAAAGTATTATAATATCATCTTTTTACATGTTTGGGTATAATTAA
6836391 AAAATTATATATCAAAATACTCTTATATTTTTATTTTATATTCAATATACTCTTATCTTAAGTCA
261 AAAATTATATATCAAAATACTCTTATATTTTTATTTTATATTCAATATACTCTTATCTTAAGTCA
6836456 AAATATCATATATCATTTTATACTTATATTAATAAAGATAAAATATTATATGATAATATTATC
326 AAATATCATATATCATTTTATACTTATATTAATAAAGATAAAATATTATATGATAATATTATC
6836519 ATATTATATTATTATTCGTTATGATATGTCAGCAAGTTACATGACATACAATAACAAATAATATT
1 ATATTATATTATTATTCGTTATGATATGTCAGCAAGTTACATGACATACAATAACAAATAATATT
6836584 TTAAATAACAAGATTTAATCAATTATAAGTCATAAGAACTTATTTGATTAAAAAAAATATAAAAC
66 TTAAATAACAAGATTTAATCAATTATAAGTCATAAGAACTTATTTGATTAAAAAAAATATAAAAC
*
6836649 TTAATTAAACATAAAAAATATAAAAATCTATTTGAATTTTTTTAAAATTGTTTTATGAACTATTT
131 TTAATTAAACATAAAAAATATAAAAATCTATTTGAATTTTTTTAAAATTGTTTTACGAACTATTT
* *
6836714 TAGATTTTTTTTTT-TTTTTTAAAGGATTATAATATCATCTTTTTACATGTTTGGGTATAATTAA
196 TAGATTTTTTTTTTATTTTTGAAAGTATTATAATATCATCTTTTTACATGTTTGGGTATAATTAA
6836778 AAAATTA
261 AAAATTA
6836785 ATTTAATATA
Statistics
Matches: 642, Mismatches: 9, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
387 440 0.69
388 179 0.28
389 23 0.04
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (388 bp):
ATATTATATTATTATTCGTTATGATATGTCAGCAAGTTACATGACATACAATAACAAATAATATT
TTAAATAACAAGATTTAATCAATTATAAGTCATAAGAACTTATTTGATTAAAAAAAATATAAAAC
TTAATTAAACATAAAAAATATAAAAATCTATTTGAATTTTTTTAAAATTGTTTTACGAACTATTT
TAGATTTTTTTTTTATTTTTGAAAGTATTATAATATCATCTTTTTACATGTTTGGGTATAATTAA
AAAATTATATATCAAAATACTCTTATATTTTTATTTTATATTCAATATACTCTTATCTTAAGTCA
AAATATCATATATCATTTTATACTTATATTAATAAAGATAAAATATTATATGATAATATTATC
Found at i:6836649 original size:26 final size:26
Alignment explanation
Indices: 6836615--6836684 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
6836605 ATTATAAGTC
**
6836615 ATAAGAACTTATTTGATTAAAAAAAAT
1 ATAA-AACTTATTTGAACAAAAAAAAT
* * *
6836642 ATAAAACTTAATTAAACATAAAAAAT
1 ATAAAACTTATTTGAACAAAAAAAAT
*
6836668 ATAAAAATCTATTTGAA
1 ATAAAACT-TATTTGAA
6836685 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (26 bp):
ATAAAACTTATTTGAACAAAAAAAAT
Found at i:6838225 original size:31 final size:30
Alignment explanation
Indices: 6838187--6838265 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
6838177 ATTTTAAAAA
*
6838187 AATTAAATAAAATACTTATATTTTTATTTTT
1 AATTAAAT-AAATACTTATACTTTTATTTTT
*
6838218 AATTAAATAAGT-CATTATACTTTTATTTTT
1 AATTAAATAAATAC-TTATACTTTTATTTTT
* *
6838248 TATCAAATAAATACTTAT
1 AATTAAATAAATACTTAT
6838266 GACTCATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.02
30 31 0.76
31 9 0.22
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (30 bp):
AATTAAATAAATACTTATACTTTTATTTTT
Found at i:6840024 original size:52 final size:52
Alignment explanation
Indices: 6839954--6840057 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
6839944 GCTCCAACAG
6839954 GAAAACCCACGAGTAAAATTCCTTTACGGTTTAAGTAAACAAGAAACAGCAA
1 GAAAACCCACGAGTAAAATTCCTTTACGGTTTAAGTAAACAAGAAACAGCAA
6840006 GAAAACCCACGAGTAAAATTCCTTTACGGTTTAAGTAAACAAGAAACAGCAA
1 GAAAACCCACGAGTAAAATTCCTTTACGGTTTAAGTAAACAAGAAACAGCAA
6840058 AGAGCCTCGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (52 bp):
GAAAACCCACGAGTAAAATTCCTTTACGGTTTAAGTAAACAAGAAACAGCAA
Found at i:6844179 original size:32 final size:31
Alignment explanation
Indices: 6844130--6844193 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
6844120 CTTGATGTGC
* *
6844130 TTTTAGCTTTAGAAGCATGTGGATGCTTTCT
1 TTTTAGCTTTAGAAGCATGCGGAGGCTTTCT
*
6844161 TTTTAGCCTTTGGAAGCATGCGGAGGCTTTCT
1 TTTTAG-CTTTAGAAGCATGCGGAGGCTTTCT
6844193 T
1 T
6844194 GCTGTATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 6 0.21
32 23 0.79
ACGTcount: A:0.17, C:0.16, G:0.25, T:0.42
Consensus pattern (31 bp):
TTTTAGCTTTAGAAGCATGCGGAGGCTTTCT
Found at i:6846696 original size:67 final size:66
Alignment explanation
Indices: 6846608--6846794 Score: 191
Period size: 67 Copynumber: 2.8 Consensus size: 66
6846598 GGTTGATAAG
* * *
6846608 GCATTGCGTAACTAGTGTTTAGGGCATTGCATGACTGGTATGTAGGCATTGCATGA-TCGATTTT
1 GCATTGCGTGACTAGTTTTTAGGGCATTGCATGATTGGT-TGTAGGCATTGCATGACT-GATTTT
*
6846672 TAG
64 TAA
* * * * * * * * *
6846675 GTATTGCGTGACTAGTTTTTAGGGTATTACATCATTGGTTTTTGGGGCATTACGTGACTGGTTTT
1 GCATTGCGTGACTAGTTTTTAGGGCATTGCATGATTGG-TTGT-AGGCATTGCATGACTGATTTT
6846740 TAA
64 TAA
6846743 GCATTGCGTGACTAG-TTTTA-GGCATTGCATGATTGGTTGATAGGCATTGCAT
1 GCATTGCGTGACTAGTTTTTAGGGCATTGCATGATTGGTTG-TAGGCATTGCAT
6846795 TACTTAGGCA
Statistics
Matches: 95, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
65 10 0.11
66 14 0.15
67 38 0.40
68 32 0.34
69 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.39
Consensus pattern (66 bp):
GCATTGCGTGACTAGTTTTTAGGGCATTGCATGATTGGTTGTAGGCATTGCATGACTGATTTTTA
A
Found at i:6846700 original size:23 final size:22
Alignment explanation
Indices: 6846606--6846770 Score: 109
Period size: 23 Copynumber: 7.4 Consensus size: 22
6846596 TTGGTTGATA
* *
6846606 AGGCATTGCGTAACTAGTGTTT
1 AGGCATTGCGTGACTAGTTTTT
* * * *
6846628 AGGGCATTGCATGACTGGTATGT
1 A-GGCATTGCGTGACTAGTTTTT
* *
6846651 AGGCATTGCATGA-TCGATTTTT
1 AGGCATTGCGTGACTAG-TTTTT
*
6846673 AGGTATTGCGTGACTAGTTTTT
1 AGGCATTGCGTGACTAGTTTTT
* * * * * *
6846695 AGGGTATTACATCATTGGTTTTT
1 A-GGCATTGCGTGACTAGTTTTT
* * *
6846718 GGGGCATTACGTGACTGGTTTTT
1 -AGGCATTGCGTGACTAGTTTTT
*
6846741 AAGCATTGCGTGACTAG-TTTT
1 AGGCATTGCGTGACTAGTTTTT
6846762 AGGCATTGC
1 AGGCATTGC
6846771 ATGATTGGTT
Statistics
Matches: 112, Mismatches: 26, Indels: 11
0.75 0.17 0.07
Matches are distributed among these distances:
21 14 0.12
22 46 0.41
23 52 0.46
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.39
Consensus pattern (22 bp):
AGGCATTGCGTGACTAGTTTTT
Found at i:6846957 original size:22 final size:22
Alignment explanation
Indices: 6846932--6846988 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
6846922 GTAACTAGCA
6846932 TGTAGGCATTGCGTGACTGATT
1 TGTAGGCATTGCGTGACTGATT
* * *
6846954 TGTAAGCATTACGTGATTGATT
1 TGTAGGCATTGCGTGACTGATT
*
6846976 TTTAGGGCATTGC
1 TGTA-GGCATTGC
6846989 TTGAATATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.39
Consensus pattern (22 bp):
TGTAGGCATTGCGTGACTGATT
Found at i:6848559 original size:22 final size:22
Alignment explanation
Indices: 6848481--6848559 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
6848471 GGTTGATAAG
*
6848481 GCATTGTGTGAC-AGTTTTTTAA
1 GCATTGTGTGACTAG-TTATTAA
* * * *
6848503 GCATTGTGTGATTGGATATTAG
1 GCATTGTGTGACTAGTTATTAA
6848525 GCATTGTGTGACTAGTTATTAA
1 GCATTGTGTGACTAGTTATTAA
*
6848547 GTATTGTGTGACT
1 GCATTGTGTGACT
6848560 TAGGCATTGC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
22 45 0.98
23 1 0.02
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.43
Consensus pattern (22 bp):
GCATTGTGTGACTAGTTATTAA
Found at i:6854784 original size:59 final size:59
Alignment explanation
Indices: 6854716--6855070 Score: 422
Period size: 59 Copynumber: 5.9 Consensus size: 59
6854706 CCCACGACAA
* * * * *
6854716 GTTCGATTTAAAAATTAAAATTTCTAGACTTAATTTTGGCTCGACCTATCTTAAAACAG
1 GTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAG
* ** * * *
6854775 GTTCAATTTAAAAAATTGGTATTCCTAGACTTGATCTAGGTTCGACCTATTTTAAAATAG
1 GTTCGATTT-AAAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAG
* * * * *
6854835 GTTCGATTCAAAAATTAAAATTCCTAGACTTAATCTAGGTTCGACCTATCTCAAAACAG
1 GTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAG
* * * * * *
6854894 GTTCGATTCAAATATTGAAATTCCTAGACTTTATCTAAGCTCGACCTATCTCAAAATAG
1 GTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAG
* *
6854953 ATTCGATTTTAAAAAAATTGACATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAG
1 GTTCGA-TTT--AAAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAG
* * * *
6855015 GTTCGATTCAAAAATTGAAATTCCTAAACTTGATCTAGGTTCAACCTATCTTAAAA
1 GTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAA
6855071 TAGATTCAAC
Statistics
Matches: 252, Mismatches: 40, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
59 152 0.60
60 49 0.19
61 2 0.01
62 49 0.19
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (59 bp):
GTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAG
Found at i:6855004 original size:180 final size:178
Alignment explanation
Indices: 6854698--6855070 Score: 494
Period size: 180 Copynumber: 2.1 Consensus size: 178
6854688 TTTTTAAGTA
* ** * * * **
6854698 CGACCTATCCCACGACAAGTTCGATTTAAAAATTAAAATTTCTAGACTTAATTTTGGCTCGACCT
1 CGACCTATCTCAAAACAAGTTCGATTCAAAAATTAAAATTCCTAGACTTAATCTAAGCTCGACCT
* * ** * *
6854763 ATCTTAAAACAGGTTCAATTTAAAAAATTGGTATTCCTAGACTTGATCTAGGTTCGACCTATTTT
66 ATCTCAAAACAGATTCAATTTAAAAAATTGACATTCCTAGACTTGATCTAGGCTCGACCTATCTT
* *
6854828 AAAATAGGTTCGATTCAAAAATTAAAATTCCTAGACTTAATCTAGGTT
131 AAAACAGGTTCGATTCAAAAATTAAAATTCCTAAACTTAATCTAGGTT
* * * *
6854876 CGACCTATCTCAAAACAGGTTCGATTCAAATATTGAAATTCCTAGACTTTATCTAAGCTCGACCT
1 CGACCTATCTCAAAACAAGTTCGATTCAAAAATTAAAATTCCTAGACTTAATCTAAGCTCGACCT
* *
6854941 ATCTCAAAATAGATTCGATTTTAAAAAAATTGACATTCCTAGACTTGATCTAGGCTCGACCTATC
66 ATCTCAAAACAGATTC-AATTT-AAAAAATTGACATTCCTAGACTTGATCTAGGCTCGACCTATC
* *
6855006 TTAAAACAGGTTCGATTCAAAAATTGAAATTCCTAAACTTGATCTAGGTT
129 TTAAAACAGGTTCGATTCAAAAATTAAAATTCCTAAACTTAATCTAGGTT
* *
6855056 CAACCTATCTTAAAA
1 CGACCTATCTCAAAA
6855071 TAGATTCAAC
Statistics
Matches: 167, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
178 66 0.40
179 4 0.02
180 97 0.58
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (178 bp):
CGACCTATCTCAAAACAAGTTCGATTCAAAAATTAAAATTCCTAGACTTAATCTAAGCTCGACCT
ATCTCAAAACAGATTCAATTTAAAAAATTGACATTCCTAGACTTGATCTAGGCTCGACCTATCTT
AAAACAGGTTCGATTCAAAAATTAAAATTCCTAAACTTAATCTAGGTT
Found at i:6855012 original size:121 final size:118
Alignment explanation
Indices: 6854717--6855077 Score: 479
Period size: 121 Copynumber: 3.0 Consensus size: 118
6854707 CCACGACAAG
* * * * *
6854717 TTCGATTTAAAAATTAAAATTTCTAGACTTAATTTTGGCTCGACCTATCTTAAAACAGGTTCAAT
1 TTCGATTAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTTAAAACAGGTTCGA-
* ** * *
6854782 TTAAAAAATTGGTATTCCTAGACTTGATCTAGGTTCGACCTATTTTAAAATAGG
65 TTCAAAAATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATCTTAAAATAGA
* * *
6854836 TTCGATTCAAAAATTAAAATTCCTAGACTTAATCTAGGTTCGACCTATCTCAAAACAGGTTCGAT
1 TTCGATTAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTTAAAACAGGTTCGAT
* * * * *
6854901 TCAAATATTGAAATTCCTAGACTTTATCTAAGCTCGACCTATCTCAAAATAGA
66 TCAAAAATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATCTTAAAATAGA
* * *
6854954 TTCGATTTTAAAAAAATTGACATTCCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTC
1 TTCGA--TT-AAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTTAAAACAGGTTC
* *
6855019 GATTCAAAAATTGAAATTCCTAAACTTGATCTAGGTTCAACCTATCTTAAAATAGA
63 GATTCAAAAATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATCTTAAAATAGA
6855075 TTC
1 TTC
6855078 AACTTAATTG
Statistics
Matches: 209, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
118 49 0.23
119 57 0.27
120 2 0.01
121 101 0.48
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (118 bp):
TTCGATTAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTTAAAACAGGTTCGAT
TCAAAAATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATCTTAAAATAGA
Found at i:6856007 original size:18 final size:16
Alignment explanation
Indices: 6855984--6856017 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
6855974 TCCCTTCCTT
6855984 TTTATTTATATTTGTTTA
1 TTTATTT-TATTT-TTTA
6856002 TTTATTTTATTTTTTA
1 TTTATTTTATTTTTTA
6856018 AAGCATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTTTTTA
Found at i:6859045 original size:20 final size:20
Alignment explanation
Indices: 6859020--6859061 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
6859010 GACCCCATTA
6859020 GACTTATTGGAGTATAATTT
1 GACTTATTGGAGTATAATTT
*
6859040 GACTTATTGGAGTATGATTT
1 GACTTATTGGAGTATAATTT
6859060 GA
1 GA
6859062 GGTTTAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.43
Consensus pattern (20 bp):
GACTTATTGGAGTATAATTT
Found at i:6869327 original size:22 final size:22
Alignment explanation
Indices: 6869302--6869350 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
6869292 TTATTTGTAG
6869302 GCATTAAGTGAATGGATATTAT
1 GCATTAAGTGAATGGATATTAT
**
6869324 GCATTGTGTGAATGGATATTAT
1 GCATTAAGTGAATGGATATTAT
6869346 GCATT
1 GCATT
6869351 GTATGAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (22 bp):
GCATTAAGTGAATGGATATTAT
Found at i:6869351 original size:22 final size:22
Alignment explanation
Indices: 6869309--6869373 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
6869299 TAGGCATTAA
6869309 GTGAATGGATATTATGCATTGT
1 GTGAATGGATATTATGCATTGT
6869331 GTGAATGGATATTATGCATTGT
1 GTGAATGGATATTATGCATTGT
* ** *
6869353 ATGAATATATATTAGGCATTG
1 GTGAATGGATATTATGCATTG
6869374 CGTGTCTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.40
Consensus pattern (22 bp):
GTGAATGGATATTATGCATTGT
Found at i:6869762 original size:189 final size:189
Alignment explanation
Indices: 6869408--6869800 Score: 513
Period size: 189 Copynumber: 2.1 Consensus size: 189
6869398 TGATTGGTTT
* * ** * * * * * * *
6869408 TTATGTATTGTGTGACGTAGGGCCAATTCGTGACTGAGTATTTTTGCATAACGTGAGTGGATGTG
1 TTATGTATTGCGTGACGTTGGATCAATACATGACTGATTATGTTGGCATAACGTGAGTGGATATT
* *
6869473 AGGCATTGCA-TGACTTATTATTAGGTATTGCG-GATTGGCTTATAGGCGTTGCGTGAATTGTGC
66 AGGCATTG-AGTGACTTATTATTAGGTATTGCGAGACTGGCTTATAGGCGTTGTGTGAATTGTGC
* * * *
6869536 AATGCATATCTTGTTTTGAGACATTTCTTGACTACTTTTTTGACATTGTGTGACTGGTTG
130 AATGCATATCTTGTTTTGAGACATTTCTTGACTACTTTTTAGACATTGCGTGACTAGTTA
* * * *
6869596 TTATATATTGCGTGGCGTTGGA-CAAATACATGACTGATTATGTTAGCATAATGTGAGTGGATAT
1 TTATGTATTGCGTGACGTTGGATC-AATACATGACTGATTATGTTGGCATAACGTGAGTGGATAT
*
6869660 TAGGCATTGAGTGACTTATTATTAGGTATTGCGAGACTGGCTTATAGGCGTTGTGTGAATTGTAC
65 TAGGCATTGAGTGACTTATTATTAGGTATTGCGAGACTGGCTTATAGGCGTTGTGTGAATTGTGC
* * *
6869725 AATGCATATCTTGTTTTGAGACATTTCTTGGCTACTTTTTAGGCATTGCGTGACTAGTTT
130 AATGCATATCTTGTTTTGAGACATTTCTTGACTACTTTTTAGACATTGCGTGACTAGTTA
*
6869785 TTATGTATTCCGTGAC
1 TTATGTATTGCGTGAC
6869801 TTGTTGTTAT
Statistics
Matches: 177, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
187 2 0.01
188 80 0.45
189 95 0.54
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.40
Consensus pattern (189 bp):
TTATGTATTGCGTGACGTTGGATCAATACATGACTGATTATGTTGGCATAACGTGAGTGGATATT
AGGCATTGAGTGACTTATTATTAGGTATTGCGAGACTGGCTTATAGGCGTTGTGTGAATTGTGCA
ATGCATATCTTGTTTTGAGACATTTCTTGACTACTTTTTAGACATTGCGTGACTAGTTA
Found at i:6869785 original size:22 final size:22
Alignment explanation
Indices: 6869760--6869801 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6869750 TCTTGGCTAC
*
6869760 TTTTTAGGCATTGCGTGACTAG
1 TTTTTAGGCATTCCGTGACTAG
* *
6869782 TTTTTATGTATTCCGTGACT
1 TTTTTAGGCATTCCGTGACT
6869802 TGTTGTTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (22 bp):
TTTTTAGGCATTCCGTGACTAG
Found at i:6869810 original size:22 final size:22
Alignment explanation
Indices: 6869773--6869822 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
6869763 TTAGGCATTG
*
6869773 CGTGACTAGTTTTTATGTATTC
1 CGTGACTAGTTGTTATGTATTC
*
6869795 CGTGACTTGTTGTTATGTATTC
1 CGTGACTAGTTGTTATGTATTC
*
6869817 CATGAC
1 CGTGAC
6869823 ATTGGGCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (22 bp):
CGTGACTAGTTGTTATGTATTC
Found at i:6869956 original size:211 final size:211
Alignment explanation
Indices: 6869620--6870004 Score: 585
Period size: 211 Copynumber: 1.8 Consensus size: 211
6869610 GCGTTGGACA
**
6869620 AATACATGACTGATTATGTTAGCATAATGTGAGTGGATATTAGGCATTGAGTGACTTATTATTAG
1 AATACATGACTGATTATGTTAGCATAACATGAGTGGATATTAGGCATTGAGTGACTTATTATTAG
* * ** *
6869685 GTATTGCGAGACTGGCTTATAGGCGTTGTGTGAATTGTACAATGCATATCTTGTTTTGAGACATT
66 ATATTGCAAGACTGGCTTATAGGCGTACTGTGAATTGTACAATGCATATATTGTTTTGAGACATT
* * * * *
6869750 TCTTGGCTACTTTTTAGGCATTGCGTGACTAGTTTTTATGTATTCCGTGACTTGTTGTTATGTAT
131 TCTTGACTACTTTTTAGACATTGCATGACTAGTTATTAGGTATTCCGTGACTTGTTGTTATGTAT
6869815 TCCATGACATTGGGCC
196 TCCATGACATTGGGCC
* *
6869831 AATACGTGACT-ATTTATGTTGGCATAACATGAGTGGATATTAGGCATTGAGTGACTTATTATTA
1 AATACATGACTGA-TTATGTTAGCATAACATGAGTGGATATTAGGCATTGAGTGACTTATTATTA
*
6869895 GATATTGCAAGACTGGCTTATAGGCGCTACT-TGAATTGTGCAATGCATATATTGTTTTGAGACA
65 GATATTGCAAGACTGGCTTATAGGCG-TACTGTGAATTGTACAATGCATATATTGTTTTGAGACA
* *
6869959 TTTCTTGACTACTTTTTAGATATTGCATGATTAGTTATTAGGTATT
129 TTTCTTGACTACTTTTTAGACATTGCATGACTAGTTATTAGGTATT
6870005 GCGTAACATT
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
210 1 0.01
211 152 0.98
212 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.40
Consensus pattern (211 bp):
AATACATGACTGATTATGTTAGCATAACATGAGTGGATATTAGGCATTGAGTGACTTATTATTAG
ATATTGCAAGACTGGCTTATAGGCGTACTGTGAATTGTACAATGCATATATTGTTTTGAGACATT
TCTTGACTACTTTTTAGACATTGCATGACTAGTTATTAGGTATTCCGTGACTTGTTGTTATGTAT
TCCATGACATTGGGCC
Found at i:6875911 original size:22 final size:22
Alignment explanation
Indices: 6875883--6875926 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6875873 ATGAGTAACG
* *
6875883 TGCCTAAGATGGGGTCATGCAA
1 TGCCTAAAATGAGGTCATGCAA
*
6875905 TGCCTAAAATTAGGTCATGCAA
1 TGCCTAAAATGAGGTCATGCAA
6875927 CACATGAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (22 bp):
TGCCTAAAATGAGGTCATGCAA
Found at i:6877883 original size:23 final size:23
Alignment explanation
Indices: 6877864--6877908 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6877854 ATGAGTCATG
6877864 CAATACCATATCAAATAGTCACA
1 CAATACCATATCAAATAGTCACA
* * *
6877887 CAATTCCATATTAACTAGTCAC
1 CAATACCATATCAAATAGTCAC
6877909 GCGATTTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (23 bp):
CAATACCATATCAAATAGTCACA
Found at i:6877921 original size:23 final size:23
Alignment explanation
Indices: 6877869--6878167 Score: 257
Period size: 23 Copynumber: 13.2 Consensus size: 23
6877859 TCATGCAATA
* * * *
6877869 CCATATCAAATAGTCACACAATT
1 CCATATTAACTAGTCACGCGATT
6877892 CCATATTAACTAGTCACGCGATT
1 CCATATTAACTAGTCACGCGATT
*** *
6877915 TTGTATTAACTACTCACGCGATT
1 CCATATTAACTAGTCACGCGATT
* *
6877938 CCATATCAACTAGTCACGCAATT
1 CCATATTAACTAGTCACGCGATT
6877961 CC--A--AA-TAGTCACGCGATT
1 CCATATTAACTAGTCACGCGATT
*
6877979 CCATATTAACTAGTCACGTGATT
1 CCATATTAACTAGTCACGCGATT
**
6878002 CCATATTAACTAGTCACATGATT
1 CCATATTAACTAGTCACGCGATT
* * *
6878025 CCATATCACCTAGTCACTCGATT
1 CCATATTAACTAGTCACGCGATT
* **
6878048 CCATATCAACTAGTCACTAGATT
1 CCATATTAACTAGTCACGCGATT
* **
6878071 CCATATCAACTAGTCATACGATT
1 CCATATTAACTAGTCACGCGATT
** * * *
6878094 TTATATCAACTAGTCACACAATT
1 CCATATTAACTAGTCACGCGATT
* * * *
6878117 CAATATCAACTAGTCACACAATT
1 CCATATTAACTAGTCACGCGATT
* *
6878140 CAATATCAACTAGTCACGCGATT
1 CCATATTAACTAGTCACGCGATT
*
6878163 TCATA
1 CCATA
6878168 CACACCATTC
Statistics
Matches: 235, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
18 14 0.06
19 2 0.01
20 1 0.00
21 1 0.00
22 2 0.01
23 215 0.91
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.30
Consensus pattern (23 bp):
CCATATTAACTAGTCACGCGATT
Found at i:6878062 original size:69 final size:69
Alignment explanation
Indices: 6877869--6878156 Score: 298
Period size: 69 Copynumber: 4.2 Consensus size: 69
6877859 TCATGCAATA
* * *** * *
6877869 CCATATCAAATAGTCACACAATTCCATATTAACTAGTCACGCGATTTTGTATTAACTACTCACGC
1 CCATATCAACTAGTCACACAATTCCATATCAACTAGTCACGCGATTCCATATCAACTAGTCACGC
6877934 GATT
66 GATT
* * *
6877938 CCATATCAACTAGTCACGCAATTCC--A--AA-TAGTCACGCGATTCCATATTAACTAGTCACGT
1 CCATATCAACTAGTCACACAATTCCATATCAACTAGTCACGCGATTCCATATCAACTAGTCACGC
6877998 GATT
66 GATT
* ** * * **
6878002 CCATATTAACTAGTCACATGATTCCATATCACCTAGTCACTCGATTCCATATCAACTAGTCACTA
1 CCATATCAACTAGTCACACAATTCCATATCAACTAGTCACGCGATTCCATATCAACTAGTCACGC
6878067 GATT
66 GATT
* * ** * * * *
6878071 CCATATCAACTAGTCATACGATTTTATATCAACTAGTCACACAATTCAATATCAACTAGTCACAC
1 CCATATCAACTAGTCACACAATTCCATATCAACTAGTCACGCGATTCCATATCAACTAGTCACGC
*
6878136 AATT
66 GATT
*
6878140 CAATATCAACTAGTCAC
1 CCATATCAACTAGTCAC
6878157 GCGATTTCAT
Statistics
Matches: 184, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
64 52 0.28
65 2 0.01
66 1 0.01
67 1 0.01
68 1 0.01
69 127 0.69
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (69 bp):
CCATATCAACTAGTCACACAATTCCATATCAACTAGTCACGCGATTCCATATCAACTAGTCACGC
GATT
Found at i:6878499 original size:26 final size:27
Alignment explanation
Indices: 6878462--6878518 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
6878452 TGCCTTTCTC
6878462 TTTGTTAAATGATACAAAAAAGAATAA
1 TTTGTTAAATGATACAAAAAAGAATAA
*
6878489 TTTG-TAAATGATACAATAAAGAATAA
1 TTTGTTAAATGATACAAAAAAGAATAA
6878515 TTTG
1 TTTG
6878519 GAGATAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (27 bp):
TTTGTTAAATGATACAAAAAAGAATAA
Found at i:6878528 original size:26 final size:26
Alignment explanation
Indices: 6878468--6878529 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
6878458 TCTCTTTGTT
* *
6878468 AAATGATACAAAAAAGAATAATTTGT
1 AAATAATACAAAAAAGAATAATTTGG
* *
6878494 AAATGATACAATAAAGAATAATTTGG
1 AAATAATACAAAAAAGAATAATTTGG
*
6878520 AGATAATACA
1 AAATAATACA
6878530 CAACAATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (26 bp):
AAATAATACAAAAAAGAATAATTTGG
Found at i:6880081 original size:40 final size:40
Alignment explanation
Indices: 6879995--6880198 Score: 223
Period size: 40 Copynumber: 5.0 Consensus size: 40
6879985 AAAGATCTTA
* *
6879995 AACATAAACTTAAATAACTTGAAA-ACAAATATCCATACAAC
1 AACATAAACTTAAATAAC-T-AAACACAAAGATCCAAACAAC
* * * *
6880036 GATATAAACTTAAATAACTATACACAAAGATCCAAATAAC
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAC
* *
6880076 AATATAAACTTAAATAACTAAACACAAAGATCCAAACAAAT
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAAC-AAC
* *
6880117 AACATAAACTTAAATAACTAAACACATATATCCAAACAACAAC
1 AACATAAACTTAAATAACTAAACACAAAGATCC--A-AACAAC
* * *
6880160 AACATAAACTTAAATAACTAAA-ATAAATACCCAAACAAC
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAC
6880199 TAGTTACACA
Statistics
Matches: 141, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
39 8 0.06
40 50 0.35
41 48 0.34
42 7 0.05
43 25 0.18
44 3 0.02
ACGTcount: A:0.58, C:0.20, G:0.02, T:0.20
Consensus pattern (40 bp):
AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAC
Found at i:6880094 original size:81 final size:84
Alignment explanation
Indices: 6879995--6880178 Score: 225
Period size: 81 Copynumber: 2.2 Consensus size: 84
6879985 AAAGATCTTA
* * * * *
6879995 AACATAAACTTAAATAACTTGAAA-ACAAATATCCATAC-AACGATATAAACTTAAATAACTATA
1 AACATAAACTTAAATAACTT-AAACACAAAGATCCAAACAAACAACATAAACTTAAATAACTAAA
*
6880058 CACAAAGATCC-A-AATAAC
65 CACAAAGATCCAACAACAAC
* *
6880076 AATATAAACTTAAATAAC-TAAACACAAAGATCCAAACAAATAACATAAACTTAAATAACTAAAC
1 AACATAAACTTAAATAACTTAAACACAAAGATCCAAACAAACAACATAAACTTAAATAACTAAAC
* *
6880140 ACATATATCCAAACAACAAC
66 ACAAAGATCC-AACAACAAC
6880160 AACATAAACTTAAATAACT
1 AACATAAACTTAAATAACT
6880179 AAAATAAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.03
80 13 0.15
81 47 0.55
83 1 0.01
84 22 0.26
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (84 bp):
AACATAAACTTAAATAACTTAAACACAAAGATCCAAACAAACAACATAAACTTAAATAACTAAAC
ACAAAGATCCAACAACAAC
Found at i:6883039 original size:2 final size:2
Alignment explanation
Indices: 6883032--6883057 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6883022 ATTTGTGTCT
6883032 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6883058 AGAAAATATC
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):
TA
Found at i:6884746 original size:16 final size:16
Alignment explanation
Indices: 6884725--6884758 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6884715 TCACCTTCAT
6884725 TTTCTTCTTATTTTTC
1 TTTCTTCTTATTTTTC
* *
6884741 TTTCTTTTTCTTTTTC
1 TTTCTTCTTATTTTTC
6884757 TT
1 TT
6884759 CTCTCCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTCTTATTTTTC
Found at i:6886417 original size:86 final size:86
Alignment explanation
Indices: 6886309--6886623 Score: 330
Period size: 86 Copynumber: 3.8 Consensus size: 86
6886299 CTGTTGCTAG
* *
6886309 GGAGAAAAGAAAGAAGAATGAGCGTGGCAATTGGGGAAGAAAAAGGATTAAAGGAGCATGGGGTG
1 GGAGAAAAGAAAGAAGAAGGAGCGTGGCAACTGGGGAAGAAAAAGGATTAAAGGAGCATGGGGTG
*
6886374 ACAAGGCGTGGCTGTGGTTAA
66 ACAAGGCGTGGCTGTGGTTGA
* * * * * **
6886395 AGAGAAAAGAAAGAAGAATGAGCGTGGTAACTGAGGAAAAAAAAGGATTGCAGGAGC-----GTG
1 GGAGAAAAGAAAGAAGAAGGAGCGTGGCAACTGGGGAAGAAAAAGGATTAAAGGAGCATGGGGTG
* *
6886455 ---AGGCGTAG-TAGTGGTTGC
66 ACAAGGCGTGGCT-GTGGTTGA
*
6886473 GGAGAAAAGAAAGAAGAAGGAGCGTGGCAACTGGGGAAGAAAAAGGACTGAAA-GAGCATGGGGC
1 GGAGAAAAGAAAGAAGAAGGAGCGTGGCAACTGGGGAAGAAAAAGGA-TTAAAGGAGCATGGGG-
* *
6886537 T-ACAGGGCGTGGCTGTGGTTGG
64 TGACAAGGCGTGGCTGTGGTTGA
* ** * *
6886559 GGAGAAAAGAAAGAAAAAGGAGCGTGGCAGTTGGGGAA-AAAAAGGGATTGAAGGAGCGTGGGGT
1 GGAGAAAAGAAAGAAGAAGGAGCGTGGCAACTGGGGAAGAAAAA-GGATTAAAGGAGCATGGGGT
6886623 G
65 G
6886624 TGGCTGTGGC
Statistics
Matches: 187, Mismatches: 27, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
77 1 0.01
78 59 0.32
79 2 0.01
81 3 0.02
83 1 0.01
84 1 0.01
85 9 0.05
86 110 0.59
87 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.41, T:0.13
Consensus pattern (86 bp):
GGAGAAAAGAAAGAAGAAGGAGCGTGGCAACTGGGGAAGAAAAAGGATTAAAGGAGCATGGGGTG
ACAAGGCGTGGCTGTGGTTGA
Found at i:6886548 original size:164 final size:165
Alignment explanation
Indices: 6886265--6886688 Score: 489
Period size: 164 Copynumber: 2.6 Consensus size: 165
6886255 CTCTAGCTGG
* * * * * * * *
6886265 GGAAGAAAAAGGACTAAAGGAGCGTGGGGTGTGGCTGTTGCTAG-GGAGAAAAGAAAGAAGAATG
1 GGAAAAAAAAGGATTGAAGGAGCGTGAGGCGTAGCTGTGGCT-GCGGAGAAAAGAAAGAAGAAGG
* *
6886329 AGCGTGGCAATTGGGGAAGAAAAAGGA-TTAAAGGAGCATGGGGTGACAAGGCGTGGCTGTGGTT
65 AGCGTGGCAACTGGGGAAGAAAAAGGACTGAAAGGAGCATGGGGTGACAAGGCGTGGCTGTGGTT
* * *
6886393 AAAGAGAAAAGAAAGAAGAATGAGCGTGGTAACTGA
130 AAAGAGAAAAGAAAGAAAAAGGAGCGTGGCAACTGA
* *
6886429 GGAAAAAAAAGGATTGCAGGAGCGTGAGGCGTAG-TAGTGGTTGCGGAGAAAAGAAAGAAGAAGG
1 GGAAAAAAAAGGATTGAAGGAGCGTGAGGCGTAGCT-GTGGCTGCGGAGAAAAGAAAGAAGAAGG
*
6886493 AGCGTGGCAACTGGGGAAGAAAAAGGACTGAAA-GAGCATGGGGCT-ACAGGGCGTGGCTGTGGT
65 AGCGTGGCAACTGGGGAAGAAAAAGGACTGAAAGGAGCATGGGG-TGACAAGGCGTGGCTGTGGT
*** ** *
6886556 TGGGGAGAAAAGAAAGAAAAAGGAGCGTGGCAGTTGG
129 TAAAGAGAAAAGAAAGAAAAAGGAGCGTGGCAACTGA
* * * * *
6886593 GGAAAAAAAGGGATTGAAGGAGCGTGGGGTGTGGCTGTGGCTGGGGAGAAAAGAAAGAAGAAGGA
1 GGAAAAAAAAGGATTGAAGGAGCGTGAGGCGTAGCTGTGGCTGCGGAGAAAAGAAAGAAGAAGGA
*** * **
6886658 GCACAGCAGCTGGGGAAGACCAAGGACTGAA
66 GCGTGGCAACTGGGGAAGAAAAAGGACTGAA
6886689 GGAACGACTA
Statistics
Matches: 220, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
163 2 0.01
164 212 0.96
165 6 0.03
ACGTcount: A:0.37, C:0.09, G:0.41, T:0.13
Consensus pattern (165 bp):
GGAAAAAAAAGGATTGAAGGAGCGTGAGGCGTAGCTGTGGCTGCGGAGAAAAGAAAGAAGAAGGA
GCGTGGCAACTGGGGAAGAAAAAGGACTGAAAGGAGCATGGGGTGACAAGGCGTGGCTGTGGTTA
AAGAGAAAAGAAAGAAAAAGGAGCGTGGCAACTGA
Found at i:6886689 original size:78 final size:78
Alignment explanation
Indices: 6886545--6886691 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 78
6886535 GCTACAGGGC
* *** * *
6886545 GTGGCTGTGGTTGGGGAGAAAAGAAAGAAAAAGGAGCGTGGCAGTTGGGGAAAAAAAGGGATTGA
1 GTGGCTGTGGCTGGGGAGAAAAGAAAGAAAAAGGAGCACAGCAGCTGGGGAAAAAAAGGGACTGA
6886610 AGGAGCGTGGGGT
66 AGGAGCGTGGGGT
* **
6886623 GTGGCTGTGGCTGGGGAGAAAAGAAAGAAGAAGGAGCACAGCAGCTGGGGAAGACCAA-GGACTG
1 GTGGCTGTGGCTGGGGAGAAAAGAAAGAAAAAGGAGCACAGCAGCTGGGGAA-AAAAAGGGACTG
6886687 AAGGA
65 AAGGA
6886692 ACGACTAGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 56 0.95
79 3 0.05
ACGTcount: A:0.35, C:0.09, G:0.44, T:0.12
Consensus pattern (78 bp):
GTGGCTGTGGCTGGGGAGAAAAGAAAGAAAAAGGAGCACAGCAGCTGGGGAAAAAAAGGGACTGA
AGGAGCGTGGGGT
Found at i:6887985 original size:17 final size:17
Alignment explanation
Indices: 6887955--6888005 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
6887945 AAATAAAAAA
*
6887955 TAAA-TATATTTATATT
1 TAAAGTATATATATATT
*
6887971 TAAAGTATATATATACT
1 TAAAGTATATATATATT
*
6887988 AAAAGTATTAGTATATAT
1 TAAAGTA-TA-TATATAT
6888006 ATAATATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 2 0.07
19 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAAGTATATATATATT
Found at i:6889398 original size:12 final size:12
Alignment explanation
Indices: 6889381--6889414 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6889371 TCAACAACAA
*
6889381 TTGCATCTGCAT
1 TTGCATCTCCAT
*
6889393 TTGCATGTCCAT
1 TTGCATCTCCAT
6889405 TTGCATCTCC
1 TTGCATCTCC
6889415 GTCTGCATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.41
Consensus pattern (12 bp):
TTGCATCTCCAT
Found at i:6890856 original size:307 final size:309
Alignment explanation
Indices: 6890284--6890905 Score: 1059
Period size: 307 Copynumber: 2.0 Consensus size: 309
6890274 ACTCACTTCA
* * *
6890284 TAAAATCTTATGCGAAATGAATAATGAAAAACATTAGAGTATGACACACTATGTGAAATGCCTAT
1 TAAAATCTTATGCAAAAAGAATAATGAAAAACATTAGAGTATGACACACTATGTGAAACGCCTAT
*
6890349 ATAAATCCGTAGATATGGTAATGTTTCTTCTCTGCTACTCCCACCGCTAGAGGTTTGAAAACCCC
66 ATAAATCCGTAGAGATGGTAATGTTTCTTCTCTGCTACTCCCACCGCTAGAGGTTTGAAAACCCC
*
6890414 TTATCAAGTAATCGACGGTTAGACTCTAAATGTATGTGCCCCATGAGAATGCATTCCAACCGTCG
131 TCATCAAGTAATCGACGGTTAGACTCTAAATGTATGTGCCCCATGAGAATGCATTCCAACCGTCG
* * * *
6890479 ATGTTCTCGACCAACAATAACAACCATGAAATCACTGATAGTTTGTAGCCTTGACCGAATTAAGC
196 ATGTTCTCGACCAACAACAACAACCATGAAATCACTGATAGTCTGTAGCCTTGACCGAATAAAAC
*
6890544 ATTGCTCGCGATCAAGACGA-GGCCATCTTGGTCACATCTGCCTCCTAC
261 ATTGCTCGCGATCAAGACGAGGGCCATCTTGGTCACATCTACCTCCTAC
* * *
6890592 TGAAATCTTATGCAAAAAGAATAATGATAAACATTAGAGTATGGCACACTATGTGAAACGCCTAT
1 TAAAATCTTATGCAAAAAGAATAATGAAAAACATTAGAGTATGACACACTATGTGAAACGCCTAT
6890657 ATAAATCCGTAGAGATGGTAATGTTTCTTCTCTGCTACTCCCACCGCTAGAGGTTTG-AAACCCC
66 ATAAATCCGTAGAGATGGTAATGTTTCTTCTCTGCTACTCCCACCGCTAGAGGTTTGAAAACCCC
*
6890721 TCATCAAGTAATCGACGGTTAGACTCTAAATGTATGTGCCCCATGAGAATGCATTCCAACCGTTG
131 TCATCAAGTAATCGACGGTTAGACTCTAAATGTATGTGCCCCATGAGAATGCATTCCAACCGTCG
* * * *
6890786 ATGTTCTCGACCAACGACAACAACCATGGAATCACTGATAGTCTGTAGTCTTGATCGAATAAAAC
196 ATGTTCTCGACCAACAACAACAACCATGAAATCACTGATAGTCTGTAGCCTTGACCGAATAAAAC
*
6890851 ATTGCTCGCGATCAAGACGAGGGCCATCTTGGTCATATCTACCTCCTAC
261 ATTGCTCGCGATCAAGACGAGGGCCATCTTGGTCACATCTACCTCCTAC
6890900 TAAAAT
1 TAAAAT
6890906 TGTCCTCCTT
Statistics
Matches: 293, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
307 147 0.50
308 146 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (309 bp):
TAAAATCTTATGCAAAAAGAATAATGAAAAACATTAGAGTATGACACACTATGTGAAACGCCTAT
ATAAATCCGTAGAGATGGTAATGTTTCTTCTCTGCTACTCCCACCGCTAGAGGTTTGAAAACCCC
TCATCAAGTAATCGACGGTTAGACTCTAAATGTATGTGCCCCATGAGAATGCATTCCAACCGTCG
ATGTTCTCGACCAACAACAACAACCATGAAATCACTGATAGTCTGTAGCCTTGACCGAATAAAAC
ATTGCTCGCGATCAAGACGAGGGCCATCTTGGTCACATCTACCTCCTAC
Found at i:6901565 original size:25 final size:24
Alignment explanation
Indices: 6901516--6901566 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
6901506 TGTTTGTCAG
*
6901516 AGAAAGAGACAGAGGGAGAGAAAA
1 AGAAAGAGACAGAGGAAGAGAAAA
*
6901540 AGAAAGAAGAGAGAGGAAGAAGAAAA
1 AGAAAG-AGACAGAGGAAG-AGAAAA
6901566 A
1 A
6901567 AATTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 10 0.43
26 7 0.30
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (24 bp):
AGAAAGAGACAGAGGAAGAGAAAA
Found at i:6910153 original size:8 final size:7
Alignment explanation
Indices: 6910123--6910152 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
6910113 TTTTTATTTT
6910123 ATTAAAA
1 ATTAAAA
6910130 ATTCAAAA
1 ATT-AAAA
6910138 ATTAAAA
1 ATTAAAA
6910145 ATTAAAA
1 ATTAAAA
6910152 A
1 A
6910153 ACCAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (7 bp):
ATTAAAA
Found at i:6910153 original size:15 final size:15
Alignment explanation
Indices: 6910123--6910153 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6910113 TTTTTATTTT
*
6910123 ATTAAAAATTCAAAA
1 ATTAAAAATTAAAAA
6910138 ATTAAAAATTAAAAA
1 ATTAAAAATTAAAAA
6910153 A
1 A
6910154 CCAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATTAAAAATTAAAAA
Done.