Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 271 of 425
Found at i:83329534 original size:27 final size:28
Alignment explanation
Indices: 83329477--83329546 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
83329467 AAATTTGTAC
**
83329477 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
83329505 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
83329532 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
83329547 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:83329555 original size:27 final size:27
Alignment explanation
Indices: 83329477--83329558 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
83329467 AAATTTGTAC
* *
83329477 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
83329505 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
83329532 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
83329559 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:83331903 original size:27 final size:26
Alignment explanation
Indices: 83331857--83331916 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
83331847 GCGAGGCTGC
83331857 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGTCACCAGA-A
* * *
83331884 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
*
83331910 CAAATAT
1 CAGATAT
83331917 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:83332789 original size:81 final size:81
Alignment explanation
Indices: 83332635--83332954 Score: 455
Period size: 81 Copynumber: 4.0 Consensus size: 81
83332625 CAAAATGGTA
* * * *
83332635 ATTT-TACCCCACGAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTCAATAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
*
83332699 ACAAAGGTATTTCGGT
66 ACAAGGGTATTTCGGT
*
83332715 ATTTCT-CCCATACACGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCC
1 ATTTCTACCC-TACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCC
* *
83332779 TACAGGGGTATTTCGAT
65 TACAAGGGTATTTCGGT
* *
83332796 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
*
83332861 ACAAGGGTATTTTGGT
66 ACAAGGGTATTTCGGT
* * * **
83332877 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
* *
83332942 ATAGGGGTATTTC
66 ACAAGGGTATTTC
83332955 AATAATTTTG
Statistics
Matches: 215, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
80 7 0.03
81 205 0.95
82 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
ACAAGGGTATTTCGGT
Found at i:83332961 original size:27 final size:27
Alignment explanation
Indices: 83332631--83332954 Score: 400
Period size: 27 Copynumber: 12.0 Consensus size: 27
83332621 CGGGCAAAAT
* * * *
83332631 GGTAATTTTACCCCACGAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
83332658 GGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
** *
83332685 AATAATTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
83332712 GGTATTTCT-CCCATACACGGGTATTTC
1 GGTAATTCTACCC-TACAAGGGTATTTC
*
83332739 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
83332766 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
83332793 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
83332820 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
83332847 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
83332874 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
83332901 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
83332928 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
83332955 AATAATTTTG
Statistics
Matches: 261, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
26 6 0.02
27 250 0.96
28 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:83332976 original size:27 final size:27
Alignment explanation
Indices: 83332946--83333138 Score: 115
Period size: 27 Copynumber: 7.2 Consensus size: 27
83332936 TACCCTATAG
*
83332946 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTATAAATCGA
*** ** * *
83332973 GGGTAAAACGGTAATTCTGTAAATCG-
1 GGGTATTTCAATAATTTTATAAATCGA
* * *
83332999 GGGTACTTT-GATAATTTTACAAGTCGA
1 GGGTA-TTTCAATAATTTTATAAATCGA
* * * *
83333026 GGATATTTCAGTAATTTTATAAATTGG
1 GGGTATTTCAATAATTTTATAAATCGA
*
83333053 GGGTATTTTAATAATTTTGA-AAA-CTGA
1 GGGTATTTCAATAATTTT-ATAAATC-GA
* *
83333080 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCAATAATTTTATAAATCGA
* *** * *
83333107 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTTCAATAATTTTATAAATCGA
83333134 GGGTA
1 GGGTA
83333139 CTTTTGTAAT
Statistics
Matches: 124, Mismatches: 35, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
26 21 0.17
27 101 0.81
28 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTATAAATCGA
Found at i:83333087 original size:54 final size:53
Alignment explanation
Indices: 83332945--83333103 Score: 135
Period size: 54 Copynumber: 3.0 Consensus size: 53
83332935 CTACCCTATA
* * *** * *
83332945 GGGGTATTTCAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA-TC
1 GGGGTATTTTAATAATTTTGAAAATCGAGGGTATTTC-GTAATTTTATAAATTC
* * * * *
83332998 GGGGTACTTTGATAATTTT-ACAAGTCGAGGATATTTCAGTAATTTTATAAATTG
1 GGGGTATTTTAATAATTTTGA-AAATCGAGGGTATTTC-GTAATTTTATAAATTC
*
83333052 GGGGTATTTTAATAATTTTGAAAA-CTGAGGGTATTTCGATAATTTTACAAAT
1 GGGGTATTTTAATAATTTTGAAAATC-GAGGGTATTTCG-TAATTTTATAAAT
83333104 CGAGGATATT
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
53 40 0.48
54 42 0.51
55 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (53 bp):
GGGGTATTTTAATAATTTTGAAAATCGAGGGTATTTCGTAATTTTATAAATTC
Found at i:83341282 original size:28 final size:28
Alignment explanation
Indices: 83341213--83341312 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
83341203 GACAAGATTG
* * *
83341213 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATATA
*
83341243 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
83341271 GCACTAAGTGTGCGAG-CTAATGTATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATATA
83341299 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
83341313 GATTCACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 3 0.05
28 42 0.67
30 18 0.29
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:83349082 original size:28 final size:28
Alignment explanation
Indices: 83349013--83349113 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
83349003 GACAAGATTG
* * * *
83349013 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
83349043 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
83349071 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
83349100 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
83349114 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:83349107 original size:29 final size:28
Alignment explanation
Indices: 83349042--83349113 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
83349032 AAAATTGTAC
*
83349042 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
83349070 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
83349099 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
83349114 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:83352176 original size:39 final size:40
Alignment explanation
Indices: 83352088--83352265 Score: 199
Period size: 39 Copynumber: 4.5 Consensus size: 40
83352078 CAAACCAGTA
* * *
83352088 CCTTCGGGATTTAG-CCGGATATAGCT-ACTAC-CTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACT-CGCACAAATG
83352127 -C-TCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
83352165 -CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
83352204 CCTTCGGGACTTTTAGCCCCAGATAT-GTAACTTGCAACAAATG
1 CCTTCGGGAC--TTAG-CCCGGATATAGTAACTCGC-ACAAATG
83352247 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
83352266 TTATCATCCG
Statistics
Matches: 124, Mismatches: 6, Indels: 17
0.84 0.04 0.12
Matches are distributed among these distances:
37 12 0.10
38 21 0.17
39 36 0.29
40 13 0.10
41 4 0.03
42 13 0.10
43 25 0.20
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:83352245 original size:43 final size:40
Alignment explanation
Indices: 83352128--83352265 Score: 208
Period size: 39 Copynumber: 3.4 Consensus size: 40
83352118 CCTCAACTGC
*
83352128 TCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG-CT
1 TCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCT
83352167 TCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCT
*
83352207 TCGGGACTTTTAGCCCCAGATAT-GTAACTTGCAACAAATGCCT
1 TCGGGAC--TTAG-CCCGGATATAGTAACTTGC-ACAAATGCCT
83352250 TCGGGACTTAGCCCGG
1 TCGGGACTTAGCCCGG
83352266 TTATCATCCG
Statistics
Matches: 91, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
39 36 0.40
40 13 0.14
41 4 0.04
42 13 0.14
43 25 0.27
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCT
Found at i:83354253 original size:39 final size:40
Alignment explanation
Indices: 83354075--83354257 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
83354065 CCGCACCAAG
* * * * * * * *
83354075 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
83354115 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
83354155 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
83354195 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
83354234 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
83354258 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:83362236 original size:40 final size:40
Alignment explanation
Indices: 83362162--83362307 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
83362152 CCGCACCAAG
* * * * * *
83362162 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
83362202 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
83362242 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
83362282 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
83362308 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:83362322 original size:40 final size:40
Alignment explanation
Indices: 83362194--83362345 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
83362184 ATCACGATTT
* * * * *
83362194 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
83362234 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
83362274 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
83362314 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
83362346 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:83368283 original size:28 final size:28
Alignment explanation
Indices: 83368235--83368303 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
83368225 ATTTAAACCC
*
83368235 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
83368262 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
83368290 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
83368304 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:83370126 original size:19 final size:18
Alignment explanation
Indices: 83370089--83370132 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
83370079 ATACATACAG
83370089 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
83370106 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
83370125 TACTAATT
1 TAATAATT
83370133 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:83372552 original size:28 final size:28
Alignment explanation
Indices: 83372504--83372572 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
83372494 ATTTAAACCC
*
83372504 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
83372531 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
83372559 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
83372573 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:83374405 original size:19 final size:18
Alignment explanation
Indices: 83374368--83374411 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
83374358 ATACATACAG
83374368 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
83374385 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
83374404 TACTAATT
1 TAATAATT
83374412 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:83380088 original size:27 final size:27
Alignment explanation
Indices: 83379933--83380136 Score: 204
Period size: 27 Copynumber: 7.6 Consensus size: 27
83379923 ACACTACAAA
* * * *
83379933 GGTATTTTGGTAATTTTACATTACA-AG
1 GGTATTTCGATAATTTTACA-AACAGGG
83379960 GGTATTTCGATAATTTTACAAATCA-GG
1 GGTATTTCGATAATTTTACAAA-CAGGG
* *
83379987 GGTGTTTCGATAATTTTACAAATC-GAG
1 GGTATTTCGATAATTTTACAAA-CAGGG
* ** *
83380014 GCTATTTCGATAATTTTACAAATTGAG
1 GGTATTTCGATAATTTTACAAACAGGG
83380041 GGTATTTCGATAATTTTACAAACAGGG
1 GGTATTTCGATAATTTTACAAACAGGG
*
83380068 GGTATTTCGGTAATTTTACAAACCA-GG
1 GGTATTTCGATAATTTTACAAA-CAGGG
* *
83380095 GGTACTTCG-TAATTTTACAAACTGGG
1 GGTATTTCGATAATTTTACAAACAGGG
83380121 GGTATTTC-AGTAATTT
1 GGTATTTCGA-TAATTT
83380137 CTCTTTATTA
Statistics
Matches: 153, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
25 1 0.01
26 22 0.14
27 128 0.84
28 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAACAGGG
Found at i:83383624 original size:34 final size:34
Alignment explanation
Indices: 83383585--83383652 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
83383575 TCAAACATAC
83383585 CAAGTAGGTACCTGTGTCACTCACAAAAAGGTTT
1 CAAGTAGGTACCTGTGTCACTCACAAAAAGGTTT
83383619 CAAGTAGGTACCTGTGTCACTCACAAAAAGGTTT
1 CAAGTAGGTACCTGTGTCACTCACAAAAAGGTTT
83383653 TACTTTCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (34 bp):
CAAGTAGGTACCTGTGTCACTCACAAAAAGGTTT
Found at i:83383906 original size:46 final size:46
Alignment explanation
Indices: 83383843--83383967 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
83383833 CTCTTGCAGT
* *
83383843 CAATGCATATCCTAGACATGTCTTACACTGGCT-TACGTCTCAATGC
1 CAATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAATGC
* * * *
83383889 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTTAATGC
1 CAATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGC
*
83383935 CAATGCCATGTCCCA-AAATGGTCTTACACTGGC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGGC
83383968 CCACATAATG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 45 0.67
47 22 0.33
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CAATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGC
Found at i:83389971 original size:27 final size:26
Alignment explanation
Indices: 83389940--83390020 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
83389930 GGGCAAAATA
*
83389940 GTCATTTTACCCTACAAGGGTATGTC
1 GTCATTTTACACTACAAGGGTATGTC
* *
83389966 GTTCATTTTACACTACAAGGGTGTTTC
1 G-TCATTTTACACTACAAGGGTATGTC
* *
83389993 AGTAATTTTACACTTCAAGGGTATGTC
1 -GTCATTTTACACTACAAGGGTATGTC
83390020 G
1 G
83390021 ATAATTGTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 43 0.93
28 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCATTTTACACTACAAGGGTATGTC
Found at i:83390051 original size:27 final size:27
Alignment explanation
Indices: 83390012--83390214 Score: 104
Period size: 27 Copynumber: 7.6 Consensus size: 27
83390002 ACACTTCAAG
* * * **
83390012 GGTATGTCGATAATTGTGCAAATCGGG
1 GGTATTTCAATAATTGTACAAATCGAC
* * *
83390039 GGTGTTTCAATAATTTTACAAATTGAC
1 GGTATTTCAATAATTGTACAAATCGAC
* ** *
83390066 GGTATTTCAATAATTTTACAAATTAAG
1 GGTATTTCAATAATTGTACAAATCGAC
*** * *
83390093 GGTATTTTGGTAATTTTACAAATCGAG
1 GGTATTTCAATAATTGTACAAATCGAC
* * * * *
83390120 GGTGTTTTAGTAATTTTACAAATCGAG
1 GGTATTTCAATAATTGTACAAATCGAC
* ** * * *
83390147 GGTGTTTCGGTAATTTTACAAATTGAG
1 GGTATTTCAATAATTGTACAAATCGAC
* *
83390174 GGTATTTCAGTAATT-T-CACAATCGAG
1 GGTATTTCAATAATTGTACA-AATCGAC
*
83390200 GGTATTTCAGTAATT
1 GGTATTTCAATAATT
83390215 TCTCTTTATT
Statistics
Matches: 151, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
25 2 0.01
26 22 0.15
27 127 0.84
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTATTTCAATAATTGTACAAATCGAC
Found at i:83390070 original size:54 final size:53
Alignment explanation
Indices: 83389983--83390215 Score: 218
Period size: 54 Copynumber: 4.3 Consensus size: 53
83389973 TTACACTACA
* * * * *
83389983 AGGGTGTTTCAGTAATTTTAC-ACTTCAAGGGTATGTCGATAATTGTGCAAATCG
1 AGGGTGTTTCAGTAATTTTACAAATT-GAGGGTAT-TCAATAATTTTACAAATCG
* * * **
83390037 GGGGTGTTTCAATAATTTTACAAATTGACGGTATTTCAATAATTTTACAAATTA
1 AGGGTGTTTCAGTAATTTTACAAATTGAGGGTA-TTCAATAATTTTACAAATCG
* ** * * * *
83390091 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTTAGTAATTTTACAAATCG
1 AGGGTGTTTCAGTAATTTTACAAATTGAGGGT-ATTCAATAATTTTACAAATCG
* * *
83390145 AGGGTGTTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTGTTTCAGTAATTTTACAAATTGAGGGTA-TTCAATAATTTTACAAATCG
*
83390198 AGGGTATTTCAGTAATTT
1 AGGGTGTTTCAGTAATTT
83390216 CTCTTTATTA
Statistics
Matches: 145, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
53 21 0.14
54 120 0.83
55 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
AGGGTGTTTCAGTAATTTTACAAATTGAGGGTATTCAATAATTTTACAAATCG
Found at i:83390074 original size:81 final size:80
Alignment explanation
Indices: 83389989--83390215 Score: 226
Period size: 81 Copynumber: 2.8 Consensus size: 80
83389979 TACAAGGGTG
* * *
83389989 TTTCAGTAATTTTACACTTCAAGGGTATGTCGATAATTGTGCAAATCGGGGGTGTTTCAATAATT
1 TTTCAGTAATTTTACAATT-AAGGGTATGTCGATAATTGTACAAATCGAGGGTGTTTCAATAATT
*
83390054 TTACAAATTGACGGTA
65 TTACAAATCGACGGTA
* * * * * * *
83390070 TTTCAATAATTTTACAAATTAAGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTTAGTAATT
1 TTTCAGTAATTTTAC-AATTAAGGGTATGTCGATAATTGTACAAATCGAGGGTGTTTCAATAATT
* *
83390135 TTACAAATCGAGGGTG
65 TTACAAATCGACGGTA
* * * * *
83390151 TTTCGGTAATTTTACAAATTGAGGGTATTTC-AGTAATT-T-CACAATCGAGGGTATTTCAGTAA
1 TTTCAGTAATTTTAC-AATTAAGGGTATGTCGA-TAATTGTACA-AATCGAGGGTGTTTCAATAA
83390213 TTT
63 TTT
83390216 CTCTTTATTA
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.02
80 22 0.18
81 96 0.78
82 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (80 bp):
TTTCAGTAATTTTACAATTAAGGGTATGTCGATAATTGTACAAATCGAGGGTGTTTCAATAATTT
TACAAATCGACGGTA
Found at i:83391933 original size:87 final size:87
Alignment explanation
Indices: 83391787--83391957 Score: 288
Period size: 87 Copynumber: 2.0 Consensus size: 87
83391777 ACCATACGCC
*
83391787 TTGTAACACCCTAAATTTGGGCCTAGAAGTATTGGGCCTTGAGTGTGGGTTCGTAAGGAGAATTT
1 TTGTAACACCCTAAATTTGGGCCTAGAAGTATTGGGCCTCGAGTGTGGGTTCGTAAGGAGAATTT
83391852 ATATAGGTATTTAATTGTGTCA
66 ATATAGGTATTTAATTGTGTCA
* * * **
83391874 TTGTAACACCCTGAATTTGGGCCTGGAAGTATTGGGCCTCGAGTGTGGGTTTGTAAGGAGGTTTT
1 TTGTAACACCCTAAATTTGGGCCTAGAAGTATTGGGCCTCGAGTGTGGGTTCGTAAGGAGAATTT
83391939 ATATAGGTATTTAATTGTG
66 ATATAGGTATTTAATTGTG
83391958 CAATGAAAGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (87 bp):
TTGTAACACCCTAAATTTGGGCCTAGAAGTATTGGGCCTCGAGTGTGGGTTCGTAAGGAGAATTT
ATATAGGTATTTAATTGTGTCA
Found at i:83392890 original size:27 final size:27
Alignment explanation
Indices: 83392851--83392930 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
83392841 TTAGAATACT
*
83392851 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACCGAAATACCC
* *
83392879 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACCGAAATACCC
* *
83392906 -TCGATTTGTAAATTTACCGAAATAC
1 TTAG-TTTGTAAAATTACCGAAATAC
83392931 ATTCGACTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.05
27 35 0.80
28 7 0.16
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACCGAAATACCC
Found at i:83392936 original size:27 final size:27
Alignment explanation
Indices: 83392860--83392958 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
83392850 TTTAGTTTAC
*
83392860 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATA-CCTTCGATTTG
* * *
83392887 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTCGATTTG
* * *
83392914 TAAATTTACCGAAATACATTCGACTTG
1 TAAAATTACCGAAATACCTTCGATTTG
83392941 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
83392959 CCCGATTTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 7 0.12
27 51 0.88
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTCGATTTG
Found at i:83393247 original size:27 final size:27
Alignment explanation
Indices: 83392955--83393246 Score: 365
Period size: 27 Copynumber: 10.8 Consensus size: 27
83392945 ATTACCAAAG
*
83392955 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
83392982 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
83393009 TACCC-CTGATTTACATAATTATCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
83393036 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
83393063 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
83393090 TACCACT-GATTTACATAATTATCGTTT
1 TACC-CTCGATTTACAGAATTACCGTTT
*
83393117 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
83393144 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
83393171 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
83393198 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
83393225 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
83393247 TAAAATACCC
Statistics
Matches: 236, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.01
27 231 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:83393255 original size:27 final size:27
Alignment explanation
Indices: 83393198--83393395 Score: 157
Period size: 27 Copynumber: 7.3 Consensus size: 27
83393188 ATTACTGTTT
* *****
83393198 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
*
83393225 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
83393252 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
83393279 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* ***
83393306 TACCCTTGGTTTGTGAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** **
83393333 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
83393360 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
83393387 TACCCTTGA
1 TACCCTTGA
83393396 CTTTCTAAAA
Statistics
Matches: 143, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 141 0.99
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:83393272 original size:54 final size:54
Alignment explanation
Indices: 83393160--83393364 Score: 142
Period size: 54 Copynumber: 3.8 Consensus size: 54
83393150 CGATTTACAG
* * **** * ** *
83393160 AATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAG
1 AATTACCGTTTTACCCTTGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
* *
83393214 AATTACTGTTTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTGTAA
1 AATTACCGTTTTACCCTTGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
**** * * * *
83393268 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGA
1 AATTACCGTTTTACCCTTGA-TTTATAAAATTACTAAAATACCCTTGGTTTGTAA
**** ** * *
83393322 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCC
1 AATTACCGTTTTACCCTTGATTTATAAAATTACTAAAATACCC
83393365 CTGATTTACA
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 123 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (54 bp):
AATTACCGTTTTACCCTTGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
Found at i:83393283 original size:81 final size:80
Alignment explanation
Indices: 83393198--83393395 Score: 193
Period size: 81 Copynumber: 2.4 Consensus size: 80
83393188 ATTACTGTTT
***** * ***
83393198 TACCCTTGATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTTGATTTACA-AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAATT
83393263 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * * ***
83393279 TACCCCTAGTTTGTA-AAATTACCAAAATACCCTTGGTTTGTGAAATTACCAAAATACCCTCAAT
1 TA-CCCTTGATT-TACAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAAT
83393343 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
83393360 TACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGA
1 TACCCTTGATTTACAAA-TTACCA-AAATACCCTTGA
83393396 CTTTCTAAAA
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
79 2 0.02
80 11 0.12
81 70 0.75
82 8 0.09
83 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (80 bp):
TACCCTTGATTTACAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:83393388 original size:54 final size:54
Alignment explanation
Indices: 83393239--83393392 Score: 181
Period size: 54 Copynumber: 2.8 Consensus size: 54
83393229 CTTGATTTAC
* *
83393239 AAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTTGG-TT-TACAAATTACCAAAATACCCTCTAATTTGT
**
83393293 AAAATTACCAAAATACCCTTGGTTTGTGAAATTACCAAAATACCCTC-AATTTGT
1 AAAATTACCAAAATACCCTTGGTTT-ACAAATTACCAAAATACCCTCTAATTTGT
* *
83393347 AAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCT
1 AAAATTACCAAAATACCCTTGGTTTACAAA-TTACCA-AAATACCCT
83393393 TGACTTTCTA
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
52 1 0.01
53 7 0.08
54 79 0.90
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTACAAATTACCAAAATACCCTCTAATTTGT
Found at i:83393446 original size:27 final size:27
Alignment explanation
Indices: 83393403--83393454 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
83393393 TGACTTTCTA
*
83393403 AAAATTATAGAAGTACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
83393430 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
83393455 GTTGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:83393572 original size:27 final size:27
Alignment explanation
Indices: 83393508--83393572 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
83393498 ACCCCTAAAA
*
83393508 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
83393535 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
83393562 GGTAAAATGAC
1 GGTAAAATGAC
83393573 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:83394760 original size:25 final size:25
Alignment explanation
Indices: 83394731--83394778 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
83394721 TTATAATATG
* *
83394731 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
83394756 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
83394779 GTTTATATAT
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:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:83394829 original size:9 final size:9
Alignment explanation
Indices: 83394817--83394873 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
83394807 TTTGATAAAC
83394817 ATGATATGT
1 ATGATATGT
*
83394826 ATGATATGCAC
1 ATGATATG--T
*
83394837 ATGACATGT
1 ATGATATGT
*
83394846 ATGATATGCAC
1 ATGATATG--T
83394857 ATGATATGT
1 ATGATATGT
83394866 ATGATATG
1 ATGATATG
83394874 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:83394840 original size:20 final size:20
Alignment explanation
Indices: 83394815--83394885 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
83394805 ATTTTGATAA
83394815 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
83394835 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
83394855 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
83394875 ACATGAGATGT
1 ACATGATATGT
83394886 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:83394862 original size:11 final size:11
Alignment explanation
Indices: 83394826--83394880 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
83394816 CATGATATGT
83394826 ATGATATGCAC
1 ATGATATGCAC
* *
83394837 ATGACATG--T
1 ATGATATGCAC
83394846 ATGATATGCAC
1 ATGATATGCAC
*
83394857 ATGATATG--T
1 ATGATATGCAC
83394866 ATGATATGCAC
1 ATGATATGCAC
83394877 ATGA
1 ATGA
83394881 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:83394962 original size:23 final size:23
Alignment explanation
Indices: 83394932--83395097 Score: 251
Period size: 23 Copynumber: 7.1 Consensus size: 23
83394922 AGGAAGTGCA
*
83394932 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
83394955 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
83394978 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
83395002 AAAGGGCTTATGGCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
83395025 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
83395049 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
83395072 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
83395095 AAA
1 AAA
83395098 AGAGGCAAGG
Statistics
Matches: 129, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
23 88 0.68
24 41 0.32
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:83395019 original size:47 final size:47
Alignment explanation
Indices: 83394932--83395099 Score: 266
Period size: 47 Copynumber: 3.6 Consensus size: 47
83394922 AGGAAGTGCA
* *
83394932 AAAGGGCTTATGCCCCAATTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
83394978 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGGCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
83395025 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
83395072 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
83395100 AGGCAAGGCC
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 21 0.19
47 91 0.81
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:83395043 original size:70 final size:71
Alignment explanation
Indices: 83394930--83395097 Score: 259
Period size: 70 Copynumber: 2.4 Consensus size: 71
83394920 GGAGGAAGTG
* * * *
83394930 CAAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
83394994 AGTTAT
66 AGTTAT
*
83395000 CAAAAGGGCTTATGGCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
83395065 AGTTAT
66 AGTTAT
* *
83395071 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
83395098 AGAGGCAAGG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
70 68 0.76
71 21 0.24
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
AGTTAT
Found at i:83395302 original size:42 final size:42
Alignment explanation
Indices: 83395239--83395330 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
83395229 TAGTCTCCCC
* **
83395239 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
83395281 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
83395323 AAATGGGC
1 AAATGGGC
83395331 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:83396467 original size:13 final size:13
Alignment explanation
Indices: 83396438--83396467 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
83396428 GTAACCACAG
83396438 TTTCAGAAAAATA
1 TTTCAGAAAAATA
83396451 -TTCAGAAAAATA
1 TTTCAGAAAAATA
83396463 TTTCA
1 TTTCA
83396468 AATACTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (13 bp):
TTTCAGAAAAATA
Found at i:83402061 original size:47 final size:47
Alignment explanation
Indices: 83401979--83402126 Score: 199
Period size: 47 Copynumber: 3.2 Consensus size: 47
83401969 AGCCCAACCT
* * *
83401979 TGGTCTTACAT-GGATCACATATCACACTGATGCCATATCCCAGATA
1 TGGTCTTACATAGAAGCACATATCACACCGATGCCATATCCCAGATA
* *
83402025 TGGTCTTACATAGAAGCACGTATCACACGGATGCCATATCCCAGATA
1 TGGTCTTACATAGAAGCACATATCACACCGATGCCATATCCCAGATA
* * * * *
83402072 TGGTCTTATACAGAAGCTCATAACACACCGATTCCATATCCCAGATA
1 TGGTCTTACATAGAAGCACATATCACACCGATGCCATATCCCAGATA
83402119 TGGTCTTA
1 TGGTCTTA
83402127 TATGGAAATC
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 11 0.12
47 79 0.88
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (47 bp):
TGGTCTTACATAGAAGCACATATCACACCGATGCCATATCCCAGATA
Found at i:83414983 original size:51 final size:51
Alignment explanation
Indices: 83414924--83415027 Score: 174
Period size: 51 Copynumber: 2.0 Consensus size: 51
83414914 ATCTTTAATA
*
83414924 AGTCTATTCTCTAGA-AAGATAGAGAGAGCATTATTCAAATTTTGTACTATG
1 AGTCTATTCTCCA-ATAAGATAGAGAGAGCATTATTCAAATTTTGTACTATG
*
83414975 AGTCTATTCTCCAATAAGATAGAGAGAGCATTATTCGAATTTTGTACTATG
1 AGTCTATTCTCCAATAAGATAGAGAGAGCATTATTCAAATTTTGTACTATG
83415026 AG
1 AG
83415028 AAAAATAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (51 bp):
AGTCTATTCTCCAATAAGATAGAGAGAGCATTATTCAAATTTTGTACTATG
Found at i:83430650 original size:13 final size:13
Alignment explanation
Indices: 83430634--83430658 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83430624 TTAAATCAGT
83430634 TAATTAGTTTAAA
1 TAATTAGTTTAAA
83430647 TAATTAGTTTAA
1 TAATTAGTTTAA
83430659 TAAAAAAAAC
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):
TAATTAGTTTAAA
Found at i:83431690 original size:32 final size:32
Alignment explanation
Indices: 83431649--83431713 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
83431639 AAATCTCAAG
83431649 ACCATTCCATCACATAAATTATACCATAAATC
1 ACCATTCCATCACATAAATTATACCATAAATC
83431681 ACCATTCCATCACATAAATTATACCATAAATC
1 ACCATTCCATCACATAAATTATACCATAAATC
83431713 A
1 A
83431714 TACTTACAAA
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:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (32 bp):
ACCATTCCATCACATAAATTATACCATAAATC
Found at i:83432611 original size:44 final size:44
Alignment explanation
Indices: 83432429--83432594 Score: 112
Period size: 42 Copynumber: 3.9 Consensus size: 44
83432419 AGCTCGTACA
* * *
83432429 ATGCCAATGTCCCAGACGTGGTCTTACA--TATAATCGA-ATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTA-AATC-ACAAATCG
* * * * * * * * *
83432472 ATACCACTGTCCC-GACAGGGTCTAACAC-AAAATTATATA-CA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
* *
83432513 ATGCTAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
* * *
83432557 TTGCCAATGTCCCAGACGTGGTCTTACATG-AAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACA
83432595 TATCAGAATC
Statistics
Matches: 93, Mismatches: 25, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
41 11 0.12
42 30 0.32
43 25 0.27
44 27 0.29
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
Found at i:83441857 original size:61 final size:61
Alignment explanation
Indices: 83441739--83441887 Score: 165
Period size: 61 Copynumber: 2.4 Consensus size: 61
83441729 TAGAGTTTTG
* * * *
83441739 CCACAAAGGCTTTCTTATCTAGAGTTATGCCACAAAGGCTATCATTTACATTCAGTACTCG
1 CCACAAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGCTATCATTTACATTCAGTACTCA
* * * * * * *
83441800 TCACAGAGGCTTTCCTATCCAGAGTTGTTCCACAAAGGTTGTCCTTTATA-TCTAGTACTCA
1 CCACAAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGCTATCATTTACATTC-AGTACTCA
* *
83441861 CCAAAAAGGTTTTCCTATCCAGAGTTG
1 CCACAAAGGCTTTCCTATCCAGAGTTG
83441888 AAACACCCCA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
60 2 0.03
61 70 0.97
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (61 bp):
CCACAAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGCTATCATTTACATTCAGTACTCA
Found at i:83442693 original size:28 final size:28
Alignment explanation
Indices: 83442652--83442707 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
83442642 TAATAGAGTA
*
83442652 AACTTAATAGCATAGCATATTGTACTTT
1 AACTTAATAACATAGCATATTGTACTTT
83442680 AACTTAATAACATAGCATATTGTACTTT
1 AACTTAATAACATAGCATATTGTACTTT
83442708 TATAATAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (28 bp):
AACTTAATAACATAGCATATTGTACTTT
Found at i:83442712 original size:23 final size:26
Alignment explanation
Indices: 83442655--83442715 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
83442645 TAGAGTAAAC
*
83442655 TTAATAGCATAGCATATTGTACTTTAA
1 TTAATAACATAGCATATTGTACTTT-A
83442682 CTTAATAACATAGCATATTGTACTTT-
1 -TTAATAACATAGCATATTGTACTTTA
83442708 TATAATAA
1 T-TAATAA
83442716 GAGATTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 1 0.03
26 6 0.19
28 24 0.77
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.41
Consensus pattern (26 bp):
TTAATAACATAGCATATTGTACTTTA
Found at i:83443706 original size:27 final size:27
Alignment explanation
Indices: 83443668--83443721 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
83443658 GAGCTCACAT
*
83443668 AAAACTGTGTTTT-AAAATCATATTTTC
1 AAAACTGTGTTTTGAAAAT-AAATTTTC
*
83443695 AAAATTGTGTTTTGAAAATAAATTTTC
1 AAAACTGTGTTTTGAAAATAAATTTTC
83443722 GTAGCTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (27 bp):
AAAACTGTGTTTTGAAAATAAATTTTC
Found at i:83445594 original size:20 final size:20
Alignment explanation
Indices: 83445569--83445608 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
83445559 TATATAAATT
83445569 TATTTAGAGATTTAATTAAA
1 TATTTAGAGATTTAATTAAA
* *
83445589 TATTTATATATTTAATTAAA
1 TATTTAGAGATTTAATTAAA
83445609 ATAGTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTAGAGATTTAATTAAA
Found at i:83447098 original size:26 final size:26
Alignment explanation
Indices: 83447069--83447132 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
83447059 TGCAACTTAC
* *
83447069 CTGGTGAACCCAGTTCACCACACAAA
1 CTGGCGAACCCAGTTCACCAAACAAA
* * *
83447095 CTGGCGAACCTTAGTTTACCAAACAGA
1 CTGGCGAACC-CAGTTCACCAAACAAA
83447122 CTGGCGAACCC
1 CTGGCGAACCC
83447133 CTAGCTCGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (26 bp):
CTGGCGAACCCAGTTCACCAAACAAA
Found at i:83447124 original size:27 final size:27
Alignment explanation
Indices: 83447080--83447131 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
83447070 TGGTGAACCC
*
83447080 AGTTCACCACACAAACTGGCGAACCTT
1 AGTTCACCAAACAAACTGGCGAACCTT
* *
83447107 AGTTTACCAAACAGACTGGCGAACC
1 AGTTCACCAAACAAACTGGCGAACC
83447132 CCTAGCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (27 bp):
AGTTCACCAAACAAACTGGCGAACCTT
Found at i:83448340 original size:34 final size:34
Alignment explanation
Indices: 83448296--83448364 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
83448286 TGTTGTTATG
*
83448296 AACATATCTATGTATATTTGAGTTATTAAAACTA
1 AACATATCTATGTATACTTGAGTTATTAAAACTA
*
83448330 AACATGTCTATGTATACTTGAGTTATTAAAACTA
1 AACATATCTATGTATACTTGAGTTATTAAAACTA
83448364 A
1 A
83448365 GTTTGTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (34 bp):
AACATATCTATGTATACTTGAGTTATTAAAACTA
Found at i:83452489 original size:44 final size:45
Alignment explanation
Indices: 83452316--83452537 Score: 213
Period size: 45 Copynumber: 5.0 Consensus size: 45
83452306 ATGTCATCTC
* *
83452316 ATATCGATGCC-ACTGTCCCAGACAGGGTCTTACACGAATA-A-A-
1 ATATCGATGCCAAC-GTCCCAGACATGGTCTTACACGAAAACACAT
* * * * * * * *
83452358 ATA-CGATGTCGATGTCCTAGACATAGTCTTACATGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
* ** *
83452402 ATATCGATGCCAATGTCCCAGATGTGGTCTTACAGGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
*
83452447 ATATCGATGCCAGCGTCCCAGAC-TGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
* * * * *
83452491 ATATCAATGTCAACGTCCTAGACGTGGTCTTACAAGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
83452536 AT
1 AT
83452538 TGGAATCCTA
Statistics
Matches: 147, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
41 25 0.17
42 5 0.03
43 1 0.01
44 42 0.29
45 74 0.50
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (45 bp):
ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
Found at i:83454198 original size:49 final size:49
Alignment explanation
Indices: 83454126--83454319 Score: 221
Period size: 49 Copynumber: 3.9 Consensus size: 49
83454116 GCCGAAGCTA
*
83454126 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * *
83454175 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACAG
** * * * *
83454225 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* *
83454273 TTTTAGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -TCT--GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
83454320 TCACAATAGA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 41 0.34
50 40 0.33
51 38 0.31
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
Found at i:83454255 original size:50 final size:50
Alignment explanation
Indices: 83454137--83454323 Score: 220
Period size: 50 Copynumber: 3.7 Consensus size: 50
83454127 CTGGTACGCA
* *
83454137 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAGTCTAGTACACG
* *
83454186 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTCACCAGTCTAGTACACG
* * * * *
83454236 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCA-CAGTTTTAGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAG-TCTA--GTACACG
83454287 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAC
83454324 AATAGATCAT
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
47 2 0.02
48 3 0.03
49 33 0.28
50 40 0.34
51 37 0.31
53 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAGTCTAGTACACG
Found at i:83454310 original size:101 final size:99
Alignment explanation
Indices: 83454137--83454323 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 99
83454127 CTGGTACGCA
* *
83454137 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
*
83454202 GTACTACACATGTGACCTCACCATCTAATACACG
66 GTACTACACATGCGACCTCACCATCTAATACACG
* * * *
83454236 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTAGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG-TCT--GGTACACATAGTAGCCTGCAC
83454300 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACATGCGACCTCAC
83454324 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 32 0.41
101 42 0.54
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTCACCATCTAATACACG
Found at i:83458973 original size:49 final size:50
Alignment explanation
Indices: 83458899--83459101 Score: 212
Period size: 50 Copynumber: 4.0 Consensus size: 50
83458889 TAGCCAAAGC
* *
83458899 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* * * *
83458947 TAGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAC
1 TA-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* ** * * * *
83458998 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACA-A
* * * *
83459049 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTCACAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGAC-CACAA
83459100 TA
1 TA
83459102 GATCATTCGT
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
48 2 0.02
49 38 0.30
50 44 0.35
51 39 0.31
52 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
Found at i:83466788 original size:3 final size:3
Alignment explanation
Indices: 83466780--83466804 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
83466770 GATCCCGAAA
83466780 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
83466805 TCCCATAGAG
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:83471359 original size:42 final size:42
Alignment explanation
Indices: 83471245--83471392 Score: 104
Period size: 43 Copynumber: 3.5 Consensus size: 42
83471235 TATGACATCG
* * *
83471245 TGTAAGACCGTGTCTGGGACACAA-GCCTCG-ATTGAGATTTACA
1 TGTAAGACCCTGTCTGGGACA-AAGGCATCGTATT-AAATTT-CA
* * * ** * ** *
83471288 TTTAAGACCATGTCTAGGACATCGACATCGTATTTTATTTCG
1 TGTAAGACCCTGTCTGGGACAAAGGCATCGTATTAAATTTCA
* *
83471330 TGTAAGACCCTGTCTGGGACAAAGGCATCGATATTGAATTACA
1 TGTAAGACCCTGTCTGGGACAAAGGCATCG-TATTAAATTTCA
83471373 TGTAAGACCAC-GTCTGGGAC
1 TGTAAGACC-CTGTCTGGGAC
83471393 GTTGGCATTG
Statistics
Matches: 81, Mismatches: 20, Indels: 8
0.74 0.18 0.07
Matches are distributed among these distances:
42 25 0.31
43 52 0.64
44 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACAAAGGCATCGTATTAAATTTCA
Found at i:83478723 original size:25 final size:25
Alignment explanation
Indices: 83478685--83478735 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
83478675 AAAATTGGGG
83478685 TTTGAAAAGAGTTTTTCTAAAATTT
1 TTTGAAAAGAGTTTTTCTAAAATTT
*
83478710 TTTGAAAAGGGTTTTTCTAAAATTT
1 TTTGAAAAGAGTTTTTCTAAAATTT
83478735 T
1 T
83478736 GTTTTGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (25 bp):
TTTGAAAAGAGTTTTTCTAAAATTT
Found at i:83480482 original size:43 final size:43
Alignment explanation
Indices: 83480400--83480547 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
83480390 TGTGACATCG
* * * * *
83480400 TGTAAGACCATGTCTGGGACACAAGCCTCGAT-TGAGATTTACG
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGATTTACA
* *
83480443 TATAAGACCATGTTTGGGACA-ACGGCATCG-TATTTGATTT-CA
1 TGTAAGACCATGTCTGGGACAGA-GGCATCGATA-TTGATTTACA
* * *
83480485 TGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTACA
*
83480528 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
83480548 GTCAGCATTG
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
42 33 0.39
43 51 0.60
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTACA
Found at i:83484995 original size:27 final size:27
Alignment explanation
Indices: 83484965--83485019 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
83484955 CATTTGGTGC
83484965 CATGCGATACAGTGTGGTAGACACTAG
1 CATGCGATACAGTGTGGTAGACACTAG
83484992 CATGCGATACAGTGTGGTAGACACTAG
1 CATGCGATACAGTGTGGTAGACACTAG
83485019 C
1 C
83485020 GAACTGCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (27 bp):
CATGCGATACAGTGTGGTAGACACTAG
Found at i:83486905 original size:2 final size:2
Alignment explanation
Indices: 83486898--83486927 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
83486888 ATGAACCCTT
83486898 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
83486928 TATAACTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:83491455 original size:27 final size:26
Alignment explanation
Indices: 83491417--83491643 Score: 244
Period size: 27 Copynumber: 8.5 Consensus size: 26
83491407 AAGACCTTAG
*
83491417 TTTGTAAAATTACCGAAATACCCCCGA
1 TTTGTAAAATTACTGAAATACCCCC-A
*
83491444 TTTGTAAAATTACTGAAATACTCCCA
1 TTTGTAAAATTACTGAAATACCCCCA
**
83491470 GTTTGTAAAATTACTGAAATACCCTGGA
1 -TTTGTAAAATTACTGAAATACCC-CCA
*
83491498 TTTGTAAAATTA-TCGAAATACCCCTAA
1 TTTGTAAAATTACT-GAAATACCCC-CA
*
83491525 TTTGTAAAATTACTGAAATATCCCCA
1 TTTGTAAAATTACTGAAATACCCCCA
* * *
83491551 GTTTGTAAAATTA-TCAAAATACCTCAA
1 -TTTGTAAAATTACT-GAAATACCCCCA
* *
83491578 TTTGTAAAATTATTGAAATACCCCGGA
1 TTTGTAAAATTACTGAAATACCCC-CA
*
83491605 -TTGTAAAATTACTAAAATACCCCCA
1 TTTGTAAAATTACTGAAATACCCCCA
83491630 GTTTGTAAAATTAC
1 -TTTGTAAAATTAC
83491644 ACAAAATATC
Statistics
Matches: 170, Mismatches: 19, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
25 1 0.01
26 45 0.26
27 122 0.72
28 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
TTTGTAAAATTACTGAAATACCCCCA
Found at i:83491500 original size:54 final size:53
Alignment explanation
Indices: 83491415--83491643 Score: 286
Period size: 54 Copynumber: 4.3 Consensus size: 53
83491405 TTAAGACCTT
* * *
83491415 AGTTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTA-CTGAAATACTCCC
1 AGTTTGTAAAATTACTGAAATACCCCGGATTTGTAAAATTATC-AAAATAC-CCC
* *
83491469 AGTTTGTAAAATTACTGAAATACCCTGGATTTGTAAAATTATCGAAATACCCC
1 AGTTTGTAAAATTACTGAAATACCCCGGATTTGTAAAATTATCAAAATACCCC
* * *
83491522 TAATTTGTAAAATTACTGAAATATCCCCAG-TTTGTAAAATTATCAAAATACCTC
1 -AGTTTGTAAAATTACTGAAATA-CCCCGGATTTGTAAAATTATCAAAATACCCC
* *
83491576 AATTTGTAAAATTATTGAAATACCCCGGA-TTGTAAAATTA-CTAAAATACCCCC
1 AGTTTGTAAAATTACTGAAATACCCCGGATTTGTAAAATTATC-AAAATA-CCCC
83491629 AGTTTGTAAAATTAC
1 AGTTTGTAAAATTAC
83491644 ACAAAATATC
Statistics
Matches: 156, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
51 1 0.01
52 22 0.14
53 40 0.26
54 88 0.56
55 5 0.03
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (53 bp):
AGTTTGTAAAATTACTGAAATACCCCGGATTTGTAAAATTATCAAAATACCCC
Found at i:83491552 original size:81 final size:80
Alignment explanation
Indices: 83491417--83491651 Score: 323
Period size: 81 Copynumber: 2.9 Consensus size: 80
83491407 AAGACCTTAG
*
83491417 TTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAAATACTCCCAGTTTGTAAAATT
1 TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACTGAAATAC-CCCAGTTTGTAAAATT
* **
83491482 ACT-GAAATACCCTGGA
65 ACTCAAAATA-CCTCAA
**
83491498 TTTGTAAAATTATCGAAATACCCCTAATTTGTAAAATTACTGAAATATCCCCAGTTTGTAAAATT
1 TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACTGAAATA-CCCCAGTTTGTAAAATT
83491563 A-TCAAAATACCTCAA
65 ACTCAAAATACCTCAA
* * *
83491578 TTTGTAAAATTATTGAAATACCCCGGA-TTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATT
1 TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACTGAAATA-CCCCAGTTTGTAAAATT
*
83491642 ACACAAAATA
65 ACTCAAAATA
83491652 TCCTTGTAGT
Statistics
Matches: 139, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 36 0.26
80 36 0.26
81 66 0.47
82 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (80 bp):
TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACTGAAATACCCCAGTTTGTAAAATTA
CTCAAAATACCTCAA
Found at i:83492077 original size:22 final size:22
Alignment explanation
Indices: 83492045--83492103 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
83492035 TAATCTGATT
*
83492045 ATGGCTCTGTGCCAACCTAAAA
1 ATGGCTTTGTGCCAACCTAAAA
* * * **
83492067 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAA
83492089 ATGGCTTTGTGCCAA
1 ATGGCTTTGTGCCAA
83492104 ATGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAA
Found at i:83492526 original size:31 final size:33
Alignment explanation
Indices: 83492482--83492546 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
83492472 TGTCACTGTA
* * *
83492482 TTGGGCTTAGGCCCACTT-ATTTTGTTATTGGT
1 TTGGGCTTAGGCCCAATTGATTCTGTTATAGGT
83492514 TTGGGC-TAGGCCCAATTGATTCTGTTATAGGT
1 TTGGGCTTAGGCCCAATTGATTCTGTTATAGGT
83492546 T
1 T
83492547 GTGATCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (33 bp):
TTGGGCTTAGGCCCAATTGATTCTGTTATAGGT
Found at i:83494364 original size:17 final size:18
Alignment explanation
Indices: 83494342--83494380 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
83494332 GTGGCATAAG
83494342 TCAG-TATCCTCTAGTTT
1 TCAGATATCCTCTAGTTT
83494359 TCAGTATATCCTCTAGTTT
1 TCAG-ATATCCTCTAGTTT
83494378 TCA
1 TCA
83494381 CACTACATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
19 16 0.80
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (18 bp):
TCAGATATCCTCTAGTTT
Found at i:83496918 original size:31 final size:31
Alignment explanation
Indices: 83496883--83496946 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
83496873 CCTTTTCATG
83496883 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
83496914 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
83496945 TT
1 TT
83496947 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:83497184 original size:24 final size:24
Alignment explanation
Indices: 83497138--83497279 Score: 182
Period size: 24 Copynumber: 6.0 Consensus size: 24
83497128 GCTTTATCAT
*
83497138 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
83497163 ATAACTGAGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
83497187 ATAACTGGGGCATAAG-CCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
* *
83497209 ATAACTCGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
83497233 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
83497257 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
83497280 TCACTTCCTT
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
22 15 0.14
23 11 0.10
24 68 0.65
25 11 0.10
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:83497228 original size:46 final size:47
Alignment explanation
Indices: 83497138--83497278 Score: 171
Period size: 46 Copynumber: 3.0 Consensus size: 47
83497128 GCTTTATCAT
* *
83497138 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGAGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTG-GGCATAAGCCCTTTCA
**
83497187 ATAACTGGGGCATAAG-CCTTTT-ATAACTCGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCCCTTTCA
*
83497233 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCCCTTT
83497279 TTCACTTCCT
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
46 35 0.42
47 12 0.14
48 26 0.31
49 10 0.12
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCCCTTTCA
Found at i:83497354 original size:20 final size:20
Alignment explanation
Indices: 83497329--83497389 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
83497319 TTATGATTAC
83497329 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
83497349 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
83497369 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
83497389 A
1 A
83497390 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:83497464 original size:25 final size:25
Alignment explanation
Indices: 83497432--83497479 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83497422 ATACATAAGC
* * *
83497432 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
83497457 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
83497480 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:83511051 original size:19 final size:19
Alignment explanation
Indices: 83511027--83511065 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
83511017 CGAGTAATGA
83511027 ATACTCGATTGTTATTGTC
1 ATACTCGATTGTTATTGTC
83511046 ATACTCGATTGTTATTGTC
1 ATACTCGATTGTTATTGTC
83511065 A
1 A
83511066 GATGATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (19 bp):
ATACTCGATTGTTATTGTC
Found at i:83516324 original size:11 final size:11
Alignment explanation
Indices: 83516291--83516326 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
83516281 GGTCACTCAC
83516291 TTTCTCTTTTT
1 TTTCTCTTTTT
**
83516302 AATCTCTTTTT
1 TTTCTCTTTTT
83516313 TTTCTCTTTTT
1 TTTCTCTTTTT
83516324 TTT
1 TTT
83516327 TTAAGATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTCTTTTT
Found at i:83518202 original size:19 final size:20
Alignment explanation
Indices: 83518178--83518222 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
83518168 ATAGAAATAC
83518178 AAATAAA-AAAT-TGATATAA
1 AAATAAATAAATGT-ATATAA
*
83518197 AAATAAATAAATGTATATGA
1 AAATAAATAAATGTATATAA
83518217 AAATAA
1 AAATAA
83518223 CCCACTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
AAATAAATAAATGTATATAA
Found at i:83519155 original size:6 final size:6
Alignment explanation
Indices: 83519144--83519176 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
83519134 AAGAGGATAC
83519144 GGACAT GGACAT GGACAT GGACAT GGACAT GGA
1 GGACAT GGACAT GGACAT GGACAT GGACAT GGA
83519177 GAAACGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.36, T:0.15
Consensus pattern (6 bp):
GGACAT
Found at i:83541570 original size:40 final size:40
Alignment explanation
Indices: 83541497--83541640 Score: 184
Period size: 40 Copynumber: 3.5 Consensus size: 40
83541487 ACCCAAGTAT
* *
83541497 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
83541536 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* *
83541576 CTTCGGGACTTAGCCTGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
*
83541619 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
83541641 CATCTGAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
39 12 0.13
40 48 0.53
41 1 0.01
43 29 0.32
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:83553593 original size:24 final size:24
Alignment explanation
Indices: 83553561--83553624 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
83553551 TATGTACCAT
83553561 GTGATAGGGGTTCGTACATGACTA
1 GTGATAGGGGTTCGTACATGACTA
* * *
83553585 GTGATAGGGGTTCGCACATGTCTG
1 GTGATAGGGGTTCGTACATGACTA
*
83553609 GTGATAAGGGTTCGTA
1 GTGATAGGGGTTCGTA
83553625 TGGTGTTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.22, C:0.12, G:0.36, T:0.30
Consensus pattern (24 bp):
GTGATAGGGGTTCGTACATGACTA
Found at i:83570222 original size:16 final size:16
Alignment explanation
Indices: 83570203--83570234 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83570193 AATTATTTTA
83570203 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
83570219 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
83570235 ACTCATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:83570501 original size:50 final size:50
Alignment explanation
Indices: 83570444--83570825 Score: 374
Period size: 50 Copynumber: 7.6 Consensus size: 50
83570434 CAGATATGCG
* * * * *
83570444 TAGTAGCCTGCACTTAGTACTACATACGTGACTTATCCATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACA
** * **
83570494 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAA-C-GTGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTG-GTACACA
* * * *
83570545 TAGCAGCTTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACA
* * * *
83570595 TAGCAGCCTGCACTTATTACTACACATGCGACCTATCAATCCGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACA
* * * * *
83570645 TAATAGCCTGCACTTAGTACTACACACGTGACCTAAGC-ATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-ATCAATCTGGTACACA
* ** * * ** *
83570695 TAGTAGCCTACACTTAGTACTACACATGTGATCGAAACTATCAAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAATCTGGTACACA
* * * *
83570746 TAGTAGCCTGCACTTAGTACTACACATGAGACCTAACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACA
*
83570796 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
83570826 TTCTCACAAT
Statistics
Matches: 273, Mismatches: 51, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.01
50 193 0.71
51 75 0.27
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACA
Found at i:83570567 original size:101 final size:99
Alignment explanation
Indices: 83570444--83570825 Score: 426
Period size: 101 Copynumber: 3.8 Consensus size: 99
83570434 CAGATATGCG
* * * * *
83570444 TAGTAGCCTGCACTTAGTACTACATACGTGACTTATCCATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
*
83570509 AGTACTACACATGTGATCGAAGTTAACGTGTATGCA
66 AGTACTACACATGTGATCGAA-TTAACG-GTACGCA
* * * * * * * * *
83570545 TAGCAGCTTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACATAGCAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
* * ** * *
83570610 ATTACTACACATGCGA-CCTATCAATCCGGTACACA
66 AGTACTACACATGTGATCGAATTAA--CGGTACGCA
* *
83570645 TAATAGCCTGCACTTAGTACTACACACGTGACCTAAGC-ATCTGATACACGTAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGATACACGTAGTAGCCTGCACT
* * *
83570709 TAGTACTACACATGTGATCGAAACTATCAAGTACGCA
65 TAGTACTACACATGTGATCG-AATTAAC-GGTACGCA
* * *
83570746 TAGTAGCCTGCACTTAGTACTACACATGAGACCTAACAATCTGATACACGTAGTAGCCTGCACAT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
83570811 AGTACTACACATGTG
66 AGTACTACACATGTG
83570826 TTCTCACAAT
Statistics
Matches: 232, Mismatches: 42, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
99 3 0.01
100 75 0.32
101 152 0.66
102 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACATGTGATCGAATTAACGGTACGCA
Found at i:83570645 original size:24 final size:24
Alignment explanation
Indices: 83570565--83570645 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
83570555 CACTTAGTAC
83570565 TACACATGCGACCTATCAATCCGG
1 TACACATGCGACCTATCAATCCGG
* * *
83570589 TACACATAGC-AGCCTGCACTTATTAC--
1 TACACAT-GCGA-CCT--A-TCAATCCGG
83570615 TACACATGCGACCTATCAATCCGG
1 TACACATGCGACCTATCAATCCGG
83570639 TACACAT
1 TACACAT
83570646 AATAGCCTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
22 4 0.09
23 1 0.02
24 15 0.35
25 10 0.23
26 8 0.19
27 1 0.02
28 4 0.09
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (24 bp):
TACACATGCGACCTATCAATCCGG
Found at i:83570748 original size:151 final size:151
Alignment explanation
Indices: 83570448--83570821 Score: 421
Period size: 151 Copynumber: 2.5 Consensus size: 151
83570438 TATGCGTAGT
* * * * *
83570448 AGCCTGCACTTAGTACTACATACGTGACTTATCCATCTGGTACACGTAGTAGCCTGCACTTAGTA
1 AGCCTGCACTTAGTACTACACATGAGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTA
* * * * * *
83570513 CTACACATGTGATCGAAGTTAACGTGTATGCATAGCAGCTTGCACTTAGTACTACACATGCGACC
66 CTACACACGTGACCGAAGTCAACGTGTATACATAGCAGCCTACACTTAGTACTACACATGCGACC
* * **
83570578 TATCAATCCGGTACACATAGC
131 AAACAATCAAGTACACATAGC
* * * * *
83570599 AGCCTGCACTTATTACTACACATGCGACCTATCAATCCGGTACACATAATAGCCTGCACTTAGTA
1 AGCCTGCACTTAGTACTACACATGAGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTA
* * * *
83570664 CTACACACGTGACCTAAG-CATC-TG-ATACACGTAGTAGCCTACACTTAGTACTACACATGTGA
66 CTACACACGTGACCGAAGTCAACGTGTATACA--TAGCAGCCTACACTTAGTACTACACATGCGA
* * * *
83570726 TCGAAACTATCAAGTACGCATAGT
129 -CCAAACAATCAAGTACACATAGC
* * *
83570750 AGCCTGCACTTAGTACTACACATGAGACCTAACAATCTGATACACGTAGTAGCCTGCACATAGTA
1 AGCCTGCACTTAGTACTACACATGAGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTA
83570815 CTACACA
66 CTACACA
83570822 TGTGTTCTCA
Statistics
Matches: 185, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
148 4 0.02
149 2 0.01
150 29 0.16
151 150 0.81
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (151 bp):
AGCCTGCACTTAGTACTACACATGAGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTA
CTACACACGTGACCGAAGTCAACGTGTATACATAGCAGCCTACACTTAGTACTACACATGCGACC
AAACAATCAAGTACACATAGC
Found at i:83570806 original size:201 final size:201
Alignment explanation
Indices: 83570447--83570823 Score: 556
Period size: 201 Copynumber: 1.9 Consensus size: 201
83570437 ATATGCGTAG
* * * * *
83570447 TAGCCTGCACTTAGTACTACATACGTGACTTATCCATCTGGTACACGTAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGT
** ** * * *
83570512 ACTACACATGTGATCGAAGTTAACGTGTATGCATAGCAGCTTGCACTTAGTACTACACATGCGAC
66 ACTACACATGTGATCGAAACTAACAAGTACGCATAGCAGCCTGCACTTAGTACTACACATGAGAC
* * * *
83570577 CTATCAATCCGGTACACATAGCAGCCTGCACTTATTACTACACATGCGACCTATCAATCCGGTAC
131 CTAACAATCCGATACACATAGCAGCCTGCACATAGTACTACACATGCGACCTATCAATCCGGTAC
83570642 ACATAA
196 ACATAA
*
83570648 TAGCCTGCACTTAGTACTACACACGTGACCTAAGCATCTGATACACGTAGTAGCCTACACTTAGT
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGT
* *
83570713 ACTACACATGTGATCGAAACTATCAAGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGAC
66 ACTACACATGTGATCGAAACTAACAAGTACGCATAGCAGCCTGCACTTAGTACTACACATGAGAC
* * *
83570778 CTAACAATCTGATACACGTAGTAGCCTGCACATAGTACTACACATG
131 CTAACAATCCGATACACATAGCAGCCTGCACATAGTACTACACATG
83570824 TGTTCTCACA
Statistics
Matches: 154, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
201 154 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (201 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGT
ACTACACATGTGATCGAAACTAACAAGTACGCATAGCAGCCTGCACTTAGTACTACACATGAGAC
CTAACAATCCGATACACATAGCAGCCTGCACATAGTACTACACATGCGACCTATCAATCCGGTAC
ACATAA
Found at i:83571498 original size:75 final size:75
Alignment explanation
Indices: 83571409--83571561 Score: 279
Period size: 75 Copynumber: 2.0 Consensus size: 75
83571399 TAGCTTACTA
* *
83571409 ATTAGTCACATTATTCATATGGGTCCAAAAATCATACATTCACAAATTTACATTTTGACCCCTAA
1 ATTAGTCACATTATTCATATGGGTCCAAAAATCATACATTCACAAATTTACAGTTTGAACCCTAA
83571474 ACTTTCACAT
66 ACTTTCACAT
83571484 ATTAGTCACATTATTCATATGGGTCCAAAAATCATACATTCACAAATTTACAGTTTGAACCCTAA
1 ATTAGTCACATTATTCATATGGGTCCAAAAATCATACATTCACAAATTTACAGTTTGAACCCTAA
*
83571549 ACTTTCAGAT
66 ACTTTCACAT
83571559 ATT
1 ATT
83571562 TGCACTTTGG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (75 bp):
ATTAGTCACATTATTCATATGGGTCCAAAAATCATACATTCACAAATTTACAGTTTGAACCCTAA
ACTTTCACAT
Found at i:83573885 original size:15 final size:14
Alignment explanation
Indices: 83573860--83573919 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
83573850 TATAGATAAC
*
83573860 AAGAAAACCAAGATT
1 AAGAAATCCAAGA-T
*
83573875 AAGAAGTCCAAGAT
1 AAGAAATCCAAGAT
*
83573889 AGAGAAATCCAGGAT
1 A-AGAAATCCAAGAT
83573904 AAGGAAATCCAAGAT
1 AA-GAAATCCAAGAT
83573919 A
1 A
83573920 CAACATCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 3 0.08
15 35 0.92
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:83573895 original size:30 final size:30
Alignment explanation
Indices: 83573861--83573919 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
83573851 ATAGATAACA
*
83573861 AGAAAACCAAGATTAA-GAAGTCCAAGATAG
1 AGAAAACCAAGA-TAAGGAAATCCAAGATAG
* *
83573891 AGAAATCCAGGATAAGGAAATCCAAGATA
1 AGAAAACCAAGATAAGGAAATCCAAGATA
83573920 CAACATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.14, G:0.20, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAGGAAATCCAAGATAG
Found at i:83577354 original size:16 final size:16
Alignment explanation
Indices: 83577335--83577366 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83577325 AAATGTTTTA
83577335 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
83577351 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
83577367 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:83577641 original size:50 final size:50
Alignment explanation
Indices: 83577577--83577913 Score: 302
Period size: 50 Copynumber: 6.7 Consensus size: 50
83577567 CTGGTATGCA
* *
83577577 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACG
* *** * * * *
83577627 TAGTAGCCTACACTTAGTACTACACACATGACTTATCCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACG
* * **
83577677 TAGTAGCCTGCACTTAGCACTACACATGCGACCTATCAATCCAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACG
* * * *
83577727 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACG
* * * * ** * * *
83577777 TAGTAACTTGGACTTAGTACTACACACATGC-TCGAAACTATC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACT--ACACATGCGACCTAACAATCTGA-TACACG
* * * * *
83577828 TAGCAGCTTGCACTTAGTACTGCACATGCAACCTAACAATCTGGTACA-G
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACG
* * *
83577877 ATAGTAGCCTGCACTTAGTACTAGACACGTGACCTAA
1 -TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
83577914 AACTGTCTTA
Statistics
Matches: 230, Mismatches: 51, Indels: 12
0.78 0.17 0.04
Matches are distributed among these distances:
49 7 0.03
50 185 0.80
51 32 0.14
52 6 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACG
Found at i:83588883 original size:44 final size:44
Alignment explanation
Indices: 83588811--83588895 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
83588801 TTATATGTAT
* * * * *
83588811 CGCATCCGTTATGAACTCGGACCTACTCAACGAGTTCGGATGCC
1 CGCATCCATAATGAACCCAGACCAACTCAACGAGTTCGGATGCC
*
83588855 CGCATCCATAATGAACCCAGACCAACTCAATGAGTTCGGAT
1 CGCATCCATAATGAACCCAGACCAACTCAACGAGTTCGGAT
83588896 TTCTTAATGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (44 bp):
CGCATCCATAATGAACCCAGACCAACTCAACGAGTTCGGATGCC
Found at i:83592247 original size:40 final size:39
Alignment explanation
Indices: 83592087--83592249 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
83592077 TGTGTATGAA
*
83592087 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
83592126 TGTGTGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
83592165 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
83592204 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
83592244 TGTGCG
1 TGTGCG
83592250 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:83592265 original size:40 final size:40
Alignment explanation
Indices: 83592104--83592285 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
83592094 ATTGTGATAT
* * *** *
83592104 CCGGGCTAAG-CCCGAAGGCAATTGTGTGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
83592143 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
83592182 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
83592221 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
83592261 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
83592286 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 80 0.64
40 45 0.36
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:83600176 original size:40 final size:39
Alignment explanation
Indices: 83600016--83600178 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
83600006 TGTGTATGAA
*
83600016 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
83600055 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
83600094 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
83600133 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
83600173 TGTGCG
1 TGTGCG
83600179 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:83600194 original size:40 final size:39
Alignment explanation
Indices: 83600016--83600209 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
83600006 TGTGTATGAA
* *
83600016 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
83600055 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
83600094 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
83600133 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
83600173 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
83600210 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:83603796 original size:24 final size:24
Alignment explanation
Indices: 83603764--83603895 Score: 142
Period size: 24 Copynumber: 5.5 Consensus size: 24
83603754 GAAATGACAT
*
83603764 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* **
83603788 TGGCACTATTTGTATGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
83603812 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
83603836 TGGCACTACT-TGTGTGGATTAGCAA
1 TGGCACTA-TGTGTGCGGATTTG-AA
* * **
83603861 -GGCACTATGTGTGCGGGTTAGCG
1 TGGCACTATGTGTGCGGATTTGAA
83603884 TGGCACTATGTG
1 TGGCACTATGTG
83603896 CGAATTTTCT
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
23 1 0.01
24 87 0.96
25 3 0.03
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:83603835 original size:48 final size:49
Alignment explanation
Indices: 83603764--83603876 Score: 176
Period size: 48 Copynumber: 2.3 Consensus size: 49
83603754 GAAATGACAT
* * *
83603764 TGGCACTATGTGTGCGAATTTGAATGGCACTATTTGTATGGATTTG-AA
1 TGGCACTATGTGTGCGGATTTGAATGGCACTACTTGTATGGATTAGCAA
*
83603812 TGGCACTATGTGTGCGGATTTGAATGGCACTACTTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTGAATGGCACTACTTGTATGGATTAGCAA
83603861 -GGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
83603877 GTTAGCGTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
48 58 0.97
49 2 0.03
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (49 bp):
TGGCACTATGTGTGCGGATTTGAATGGCACTACTTGTATGGATTAGCAA
Found at i:83610184 original size:16 final size:16
Alignment explanation
Indices: 83610165--83610197 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
83610155 TATATATTAG
*
83610165 AAATATGTTATAATAT
1 AAATAAGTTATAATAT
83610181 AAATAAGTTATAATAT
1 AAATAAGTTATAATAT
83610197 A
1 A
83610198 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AAATAAGTTATAATAT
Found at i:83612816 original size:39 final size:39
Alignment explanation
Indices: 83612762--83612948 Score: 311
Period size: 39 Copynumber: 4.8 Consensus size: 39
83612752 TGTTCGGGTA
*
83612762 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTCTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
83612801 ATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
83612840 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
83612879 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* * *
83612918 ATATCCAGGTTAAGTCCCGAAGGCATTTGTG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTG
83612949 AGGGCTACCA
Statistics
Matches: 141, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 126 0.89
40 15 0.11
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:83614815 original size:24 final size:24
Alignment explanation
Indices: 83614779--83614870 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
83614769 GAAATGACAT
*
83614779 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTAGAA
* * *
83614803 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGAATTAG-AA
* * *
83614828 -GGAACTATGTGTGCGAGTTAGCA
1 TGGCACTATGTGTGCGAATTAGAA
83614851 TGGCACTATGTGTGCGAATT
1 TGGCACTATGTGTGCGAATT
83614871 TCCTTGACCG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 1 0.02
24 51 0.94
25 2 0.04
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTAGAA
Found at i:83617648 original size:20 final size:22
Alignment explanation
Indices: 83617600--83617648 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
83617590 ATAAATCACT
83617600 TGTCATGTATTATCATTCTTCCA
1 TGTCATGTA-TATCATTCTTCCA
* *
83617623 TTTCATGTA-AT-ATTCTTTCA
1 TGTCATGTATATCATTCTTCCA
83617643 TGTCAT
1 TGTCAT
83617649 ATTTCCATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 13 0.57
21 2 0.09
23 8 0.35
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.51
Consensus pattern (22 bp):
TGTCATGTATATCATTCTTCCA
Found at i:83629022 original size:42 final size:42
Alignment explanation
Indices: 83628962--83629045 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
83628952 GAGAAGTAGA
* *
83628962 GTTTGGTATTGAGTTGGTGCCTGGGACAACTCCTCTCTCTAT
1 GTTTGGTATTGAGCTGGTGCCTGGGACAACTCCTATCTCTAT
*
83629004 GTTTGGTATTGAGCTGGTGTCTGGGACAACTCCTATCTCTAT
1 GTTTGGTATTGAGCTGGTGCCTGGGACAACTCCTATCTCTAT
83629046 TGCTCCGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.38
Consensus pattern (42 bp):
GTTTGGTATTGAGCTGGTGCCTGGGACAACTCCTATCTCTAT
Found at i:83632072 original size:40 final size:40
Alignment explanation
Indices: 83632024--83632191 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
83632014 CGGAATACAA
83632024 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * * *
83632064 CCAGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
83632104 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
83632144 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
83632184 CCGGATAT
1 CCGGATAT
83632192 CATTCAATTG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 106 0.96
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:83632164 original size:80 final size:80
Alignment explanation
Indices: 83632024--83632191 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
83632014 CGGAATACAA
* *
83632024 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCAGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCAGATATAACGACTAGCACAAATG
*
83632089 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** * *
83632104 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCAGATATAACG--ACTAGCACAAA
*
83632167 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
83632184 CCGGATAT
1 CCGGATAT
83632192 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCAGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:83646390 original size:48 final size:47
Alignment explanation
Indices: 83646278--83646406 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 47
83646268 AATTGATAAG
* * * *
83646278 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAAATTATCCCGGAG
1 TACCTATACCACGGCCCGTAGCCAAATCAAGGTAAATCATCCCGGAA
* * * * *
83646325 TACCT-TAAGCACGGCCCGTAGTCAAATCAAGGTAAACTCCTCTCTGAA
1 TACCTAT-ACCACGGCCCGTAGCCAAATCAAGGTAAA-TCATCCCGGAA
*
83646373 TACCTATACCACGGCCCGTAGCCAAATTAAGGTA
1 TACCTATACCACGGCCCGTAGCCAAATCAAGGTA
83646407 TTATTCGTAC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 35 0.52
49 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (47 bp):
TACCTATACCACGGCCCGTAGCCAAATCAAGGTAAATCATCCCGGAA
Found at i:83648238 original size:40 final size:40
Alignment explanation
Indices: 83648193--83648440 Score: 304
Period size: 40 Copynumber: 6.2 Consensus size: 40
83648183 CGGAATACAA
* *
83648193 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
83648233 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
83648273 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
83648313 CCGGATATAACGACTCGCACAAATGCCTT-GTGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCG-GGTCTTAGC
* *
83648353 TCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
83648393 CCGGATATAGTC-ACTAGCAC-AATTGCCTTCAGGTCTTAAC
1 CCGGATATA-ACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
*
83648433 CCAGATAT
1 CCGGATAT
83648441 CATTCAATTG
Statistics
Matches: 181, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 176 0.97
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:83648421 original size:80 final size:80
Alignment explanation
Indices: 83648193--83648401 Score: 366
Period size: 80 Copynumber: 2.6 Consensus size: 80
83648183 CGGAATACAA
* **
83648193 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
83648258 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAGC
83648273 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
83648338 CCTT-GTGGTATTAGC
66 CCTTCG-GGTATTAGC
*
83648353 TCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA
83648402 GTCACTAGCA
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
79 1 0.01
80 123 0.99
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
CCTTCGGGTATTAGC
Found at i:83648440 original size:80 final size:80
Alignment explanation
Indices: 83648193--83648440 Score: 363
Period size: 80 Copynumber: 3.1 Consensus size: 80
83648183 CGGAATACAA
* **
83648193 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
*
83648258 CCTTCGGGTATTAGC
66 CCTTCAGGTATTAGC
83648273 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
**
83648338 CCTTGTGGTATTAGC
66 CCTTCAGGTATTAGC
* * * *
83648353 TCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTCGCACAAAT
* *
83648417 GCCTTCAGGTCTTAAC
65 GCCTTCAGGTATTAGC
*
83648433 CCAGATAT
1 CCGGATAT
83648441 CATTCAATTG
Statistics
Matches: 152, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 151 0.99
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
CCTTCAGGTATTAGC
Found at i:83656324 original size:40 final size:40
Alignment explanation
Indices: 83656279--83656525 Score: 338
Period size: 40 Copynumber: 6.2 Consensus size: 40
83656269 CGGAATACAA
* *
83656279 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
83656319 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
83656359 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
83656399 CCGGATATAACGACTCGCACAAATGCCTT-GGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
83656438 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
83656478 CCGGATATAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
83656518 CCGGATAT
1 CCGGATAT
83656526 CATTCAATTG
Statistics
Matches: 185, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.20
40 147 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:83656412 original size:80 final size:80
Alignment explanation
Indices: 83656279--83656525 Score: 399
Period size: 80 Copynumber: 3.1 Consensus size: 80
83656269 CGGAATACAA
* **
83656279 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
83656344 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAGC
83656359 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
83656424 CCTT-GGGTATTAGC
66 CCTTCGGGTATTAGC
* * *
83656438 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTCGCACAAAT
* *
83656502 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAGC
83656518 CCGGATAT
1 CCGGATAT
83656526 CATTCAATTG
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
79 74 0.47
80 83 0.53
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
CCTTCGGGTATTAGC
Found at i:83656477 original size:119 final size:120
Alignment explanation
Indices: 83656279--83656525 Score: 356
Period size: 119 Copynumber: 2.1 Consensus size: 120
83656269 CGGAATACAA
* * *
83656279 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACCACACGCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTCGCACAAATG
* *
83656344 CCTTCGGGTATTAGCCCGGATATA-ACAACTTGCACGAA-TGCCTTCGGGTCTTAGC
66 CCTTCGGGTATTAGCCCGGATATAGAC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
* * * *
83656399 CCGGATATAACGACTCGCACAAATGCCTT-GGGTATTAGCCCGGATATAACAACTTGCACGAATG
1 CCGGATATAACCACACGCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTCGCACAAATG
* *
83656463 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
66 CCTTCGGGTATTAGCCCGGATATAGACACTAGCACAATTGCCTTCGGGTCTTAAC
83656518 CCGGATAT
1 CCGGATAT
83656526 CATTCAATTG
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
118 2 0.02
119 85 0.75
120 27 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CCGGATATAACCACACGCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTCGCACAAATG
CCTTCGGGTATTAGCCCGGATATAGACACTAGCACAATTGCCTTCGGGTCTTAAC
Found at i:83658133 original size:40 final size:39
Alignment explanation
Indices: 83658088--83658294 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
83658078 CGGAATACAA
*
83658088 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
83658128 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
83658168 CCGGATTTAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
83658208 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTATC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
83658248 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
83658288 CCGGATA
1 CCGGATA
83658295 CCATTCAATT
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 135 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:83658228 original size:80 final size:81
Alignment explanation
Indices: 83658088--83658293 Score: 251
Period size: 80 Copynumber: 2.6 Consensus size: 81
83658078 CGGAATACAA
*
83658088 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
83658152 -GCCTTCGGGTATTAGC
65 GGCCTTCGGGTATTAGC
* *
83658168 CCGGATTTAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
* *
83658231 GGCCTTCGGGTCTTATC
65 GGCCTTCGGGTATTAGC
** ** * *
83658248 CCGGATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACCACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGAT
83658294 ACCATTCAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 4 0.04
80 102 0.93
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
GCCTTCGGGTATTAGC
Done.