Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 148 of 216
Found at i:46742294 original size:28 final size:28
Alignment explanation
Indices: 46742263--46742367 Score: 97
Period size: 28 Copynumber: 3.8 Consensus size: 28
46742253 AAGCAAATGG
*
46742263 AAAACTATAAAATATGAAAAATAAGGGA
1 AAAACTATAAAATTTGAAAAATAAGGGA
** * *
46742291 AAAA-TGA-AAAATCTAAAAAAATAAAGGT
1 AAAACT-ATAAAAT-TTGAAAAATAAGGGA
* *
46742319 AAAACTATAAAATTTGAAAAATATGGGC
1 AAAACTATAAAATTTGAAAAATAAGGGA
* *
46742347 AAAATTGTAAAATTTGAAAAA
1 AAAACTATAAAATTTGAAAAA
46742368 ACAGGGGATA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
27 6 0.10
28 49 0.80
29 6 0.10
ACGTcount: A:0.62, C:0.04, G:0.12, T:0.22
Consensus pattern (28 bp):
AAAACTATAAAATTTGAAAAATAAGGGA
Found at i:46742367 original size:56 final size:56
Alignment explanation
Indices: 46742232--46742367 Score: 159
Period size: 56 Copynumber: 2.4 Consensus size: 56
46742222 TAAAATTCAA
* *
46742232 GGCAAAATTGTAAAATTTGTAAAGCAAATGGAAAACTATAAAATATGAAAAATAAG
1 GGCAAAATTGTAAAATTTGAAAAACAAATGGAAAACTATAAAATATGAAAAATAAG
* * * * * * *
46742288 GG-AAAAATGAAAAATCT-AAAAAAATAAAGGTAAAACTATAAAATTTGAAAAATATG
1 GGCAAAATTGTAAAATTTGAAAAACA-AATGG-AAAACTATAAAATATGAAAAATAAG
46742344 GGCAAAATTGTAAAATTTGAAAAA
1 GGCAAAATTGTAAAATTTGAAAAA
46742368 ACAGGGGATA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
54 4 0.06
55 16 0.25
56 27 0.42
57 12 0.19
58 5 0.08
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (56 bp):
GGCAAAATTGTAAAATTTGAAAAACAAATGGAAAACTATAAAATATGAAAAATAAG
Found at i:46743428 original size:21 final size:21
Alignment explanation
Indices: 46743387--46743428 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
46743377 ATTAATATAA
* *
46743387 TAATACTTGATTATATTATTT
1 TAATACTTAATTATATCATTT
46743408 TAATACTTCAATTATA-CATTT
1 TAATACTT-AATTATATCATTT
46743429 ATGACCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (21 bp):
TAATACTTAATTATATCATTT
Found at i:46745666 original size:45 final size:44
Alignment explanation
Indices: 46745560--46745669 Score: 121
Period size: 45 Copynumber: 2.5 Consensus size: 44
46745550 ATCAACATAA
* * * **
46745560 TTTTGTTGTGTACCACAACCATAGGTAGATCCCATCTGCAATGT
1 TTTTGTTGTGAACCACAACCAAAGATAGATCCCATCTGCAACAT
* * *
46745604 TTTTGCTGTGAACCCACAGCCAAAGATAGATTCCATCTGCAACAT
1 TTTTGTTGTGAA-CCACAACCAAAGATAGATCCCATCTGCAACAT
*
46745649 TTTTGTTGTGCATCCACAACC
1 TTTTGTTGTG-AACCACAACC
46745670 CAACGACAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
44 10 0.19
45 42 0.79
46 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (44 bp):
TTTTGTTGTGAACCACAACCAAAGATAGATCCCATCTGCAACAT
Found at i:46748394 original size:11 final size:11
Alignment explanation
Indices: 46748378--46748415 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
46748368 AATTTTTTAA
46748378 TTTTAAAATAT
1 TTTTAAAATAT
*
46748389 TTTTAAAATAC
1 TTTTAAAATAT
46748400 TTTTAAAATACT
1 TTTTAAAATA-T
46748412 TTTT
1 TTTT
46748416 TATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:46753277 original size:35 final size:35
Alignment explanation
Indices: 46753229--46753351 Score: 131
Period size: 35 Copynumber: 3.5 Consensus size: 35
46753219 GATGGCGATA
* * *
46753229 AGGTCTTTTGGGGCGAAATTGTGGAAACAATTATT
1 AGGTCCTTCGGGGCGAAATTGTGGAAACGATTATT
* * ** *
46753264 AGGTCATTCGGGGCGACACCGTGGAAATGATTATT
1 AGGTCCTTCGGGGCGAAATTGTGGAAACGATTATT
* *
46753299 AGGTCCTTCGGGGCGACATCT-TAGAAACGATTATT
1 AGGTCCTTCGGGGCGAAAT-TGTGGAAACGATTATT
*
46753334 AGGTCCTTCAGGGCGAAA
1 AGGTCCTTCGGGGCGAAA
46753352 CCTTGAAAGA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 73 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (35 bp):
AGGTCCTTCGGGGCGAAATTGTGGAAACGATTATT
Found at i:46755149 original size:11 final size:11
Alignment explanation
Indices: 46755133--46755207 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
46755123 GATAATCACT
46755133 TTAATATTAAA
1 TTAATATTAAA
46755144 TTAATA--AAA
1 TTAATATTAAA
*
46755153 -TACTATTAAGA
1 TTAATATTAA-A
46755164 -TAAGTATTAAA
1 TTAA-TATTAAA
46755175 TTTAAT-TTAATA
1 -TTAATATTAA-A
46755187 TTAACTATTAAA
1 TTAA-TATTAAA
*
46755199 ATAATATTA
1 TTAATATTA
46755208 TTTTTGAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 23 0.44
12 13 0.25
13 7 0.13
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:46755197 original size:18 final size:18
Alignment explanation
Indices: 46755154--46755207 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
46755144 TTAATAAAAT
*
46755154 ACTATTAAGATAAGTATTA
1 ACTATTAAAATAA-TATTA
* **
46755173 AAT-TTAATTTAATATTA
1 ACTATTAAAATAATATTA
46755190 ACTATTAAAATAATATTA
1 ACTATTAAAATAATATTA
46755208 TTTTTGAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.25
18 19 0.68
19 2 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (18 bp):
ACTATTAAAATAATATTA
Found at i:46759494 original size:21 final size:21
Alignment explanation
Indices: 46759469--46759511 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
46759459 GTCATATTGG
*
46759469 CTAGCCACACGATCGTGTAAC
1 CTAGCCACACGACCGTGTAAC
46759490 CTAGCCACACGACCGTGTAAC
1 CTAGCCACACGACCGTGTAAC
46759511 C
1 C
46759512 CCTTCATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.37, G:0.19, T:0.16
Consensus pattern (21 bp):
CTAGCCACACGACCGTGTAAC
Found at i:46760022 original size:4 final size:4
Alignment explanation
Indices: 46760023--46761470 Score: 1779
Period size: 4 Copynumber: 361.8 Consensus size: 4
46760013 GCATGCATGC
* * * * * *
46760023 ATGT ATGAT ATGC ATGC ATGC ATGT ATGAT ATGC ATGC ATGC ATGT ATGAT
1 ATGT ATG-T ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATG-T
* * * * *
46760074 ATGC ATGC ATGC ATGT AT-T CATGT ATGC ATGC ATGT AT-T CATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT -ATGT ATGT
* * * * *
46760122 ATGC ATAT ATGT ATGC ATGT ATGC ATGC ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46760170 ATGT ATGT ATGT ATGT TTGT ATGT ATGT ATGT ATGT ATAT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46760218 ATGT ATGC ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
46760266 ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATAT ATGT ATGC ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46760314 ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
46760362 ATGT ATGT ATGC ATGC ATGT ATGT ATGC ATGC ATGT ATGC ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
46760410 ATGC ATGC ATGC ATGT ATGC ATAT ATGT ATGC ATGT ATGT ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
46760458 ATGT ATGT ATGT ATGT ATCT ATGT ATGC ATAT ATGT ATGC ATAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
46760506 ATGC ATGT ATGT ATGC ATGC ATGT ATGT ATGT ATGT ATAT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46760554 ATAT ATGT ATGC ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
46760602 ATGT ATGT ATGT ATGT ATAT ATGT ATGT ATAT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
46760650 ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
46760698 ATGT ATGC ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * **
46760744 GTGT GTGT ATAT ATGT ATAC ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
46760792 ATGT ATGT ATGT ATGC ATGT ATGT ATGC ATGC ATGT ATGC ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
46760840 ATGT ATGT ATAT ATGT ATGT ATAT ATGT ATGT ATGT ATAT ATAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
46760888 ATGT ATGT ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46760936 ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT AGGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
46760984 ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
46761032 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46761080 ATGT ATGT ATGT ATAT ATAT ATGT ATGG ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
46761128 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
46761176 ATGT ATGT ATGT ATGG ATGC ATGT ATGT ATGT ATGC ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
46761224 ATAT ATGT ATGC ATGT ATGT AGGG ATGT ATGT ATGT AGGG ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
46761272 ATGT ATGT ATGT AGGG ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46761320 ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
46761368 ATGT ATGC ATGC ATGT ATGT ATGT ATGC ATGC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46761416 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGC ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46761464 ATGT ATG
1 ATGT ATG
46761471 CATGATATTC
Statistics
Matches: 1265, Mismatches: 170, Indels: 18
0.87 0.12 0.01
Matches are distributed among these distances:
2 2 0.00
3 2 0.00
4 1247 0.99
5 14 0.01
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:46775322 original size:21 final size:21
Alignment explanation
Indices: 46775272--46775322 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
46775262 AATTATAAAT
* *
46775272 AAAAAATTTCTAAAAATTTAA
1 AAAAAATATCTAAAAATCTAA
* * *
46775293 AATATATATGTAAAAATCTAA
1 AAAAAATATCTAAAAATCTAA
46775314 AAAAAATAT
1 AAAAAATAT
46775323 TAAGATTTTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAAATATCTAAAAATCTAA
Found at i:46775806 original size:15 final size:16
Alignment explanation
Indices: 46775775--46775807 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46775765 TCTTATGTTA
46775775 TTGGGTTTAACAATTT
1 TTGGGTTTAACAATTT
*
46775791 TTGGGTTTTA-AATTT
1 TTGGGTTTAACAATTT
46775806 TT
1 TT
46775808 AATATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (16 bp):
TTGGGTTTAACAATTT
Found at i:46776784 original size:22 final size:22
Alignment explanation
Indices: 46776749--46776790 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
46776739 GTACTTAAAA
46776749 TTTTTTCTTTAAAA-AAAAAGC
1 TTTTTTCTTTAAAATAAAAAGC
*
46776770 TTTTTTTTTTCAAAATAAAAA
1 TTTTTTCTTT-AAAATAAAAA
46776791 TAGAATGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTTCTTTAAAATAAAAAGC
Found at i:46781736 original size:19 final size:20
Alignment explanation
Indices: 46781712--46781754 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
46781702 TTTATTTTTT
46781712 ATAAAAA-AACATTAAAAAA
1 ATAAAAACAACATTAAAAAA
* *
46781731 ATAAAAACAAGATTTAAAAA
1 ATAAAAACAACATTAAAAAA
46781751 ATAA
1 ATAA
46781755 TAACTTACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (20 bp):
ATAAAAACAACATTAAAAAA
Found at i:46794254 original size:94 final size:94
Alignment explanation
Indices: 46794116--46794346 Score: 259
Period size: 94 Copynumber: 2.5 Consensus size: 94
46794106 GAAGCTGCAA
* * * *
46794116 CTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGG-TCGAATCTACCATAGCGAATCTTATA
1 CTACAAATCCTATATCCCTGAAGTTGCAGTGGATC-GGATTGAATCTACCATAGCGAATCTTATA
** *
46794180 TCCTTAAAGTTGCAGTGGAGCGAA-ATGAAG
65 TCCCCAAAGTTGCAGTAGAG-GAAGATGAAG
* * *
46794210 TTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGATTGAATCTACCATAGTGAATCTTATCT
1 CTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGATTGAATCTACCATAGCGAATCTTATAT
* * *
46794275 CCCCGAAGTTGTAGTAGAGTAAGATGAAG
66 CCCCAAAGTTGCAGTAGAGGAAGATGAAG
* * * * * *
46794304 CTACAAATCTTATATCTCTAAAGTTACAGTGTATCGAATTGAA
1 CTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGATTGAA
46794347 GCTATAATTC
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 4 0.03
94 111 0.97
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (94 bp):
CTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGATTGAATCTACCATAGCGAATCTTATAT
CCCCAAAGTTGCAGTAGAGGAAGATGAAG
Found at i:46794421 original size:138 final size:138
Alignment explanation
Indices: 46794171--46794443 Score: 307
Period size: 138 Copynumber: 2.0 Consensus size: 138
46794161 TACCATAGCG
* *
46794171 AATCTTATATCCTTAAAGTTGCAGTGGAGCGAAATGAAGTTACAAATCCTATATCCCTGAAGTTG
1 AATCTTATATCCTTAAAGTTACAGTGGAGCGAAATGAAGCTACAAATCCTATATCCCTGAAGTTG
* * * * * *** * * *
46794236 CAGTGGATCGGATTGAATCTACCATAGTGAATCTTATCTCCCCGAAGTTGTAGTAGAGTAAGATG
66 CAGCGGATCAGATTGAAACTACAACAACAAATCTTATCTCCCCGAAGTTGCAATAGAGAAAGATG
46794301 AAGCTACA
131 AAGCTACA
* * * * *
46794309 AATCTTATAT-CTCTAAAGTTACAGTGTATCGAATTGAAGCTATAATTCCTATATCCCTGAAGTT
1 AATCTTATATCCT-TAAAGTTACAGTGGAGCGAAATGAAGCTACAAATCCTATATCCCTGAAGTT
* * ** *
46794373 GCGGCGGAAT-AGATTGAAACTACAACAACAAATCTTGTCTCCTTGAAGTTGCAATGGAGAAAGA
65 GCAGCGG-ATCAGATTGAAACTACAACAACAAATCTTATCTCCCCGAAGTTGCAATAGAGAAAGA
46794437 TGAAGCT
129 TGAAGCT
46794444 GTGGCACTAA
Statistics
Matches: 110, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
137 2 0.02
138 106 0.96
139 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (138 bp):
AATCTTATATCCTTAAAGTTACAGTGGAGCGAAATGAAGCTACAAATCCTATATCCCTGAAGTTG
CAGCGGATCAGATTGAAACTACAACAACAAATCTTATCTCCCCGAAGTTGCAATAGAGAAAGATG
AAGCTACA
Found at i:46812181 original size:15 final size:15
Alignment explanation
Indices: 46812161--46812190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46812151 AAGCCCTAAG
*
46812161 AAAATAGAATTAGAA
1 AAAATAGAAATAGAA
46812176 AAAATAGAAATAGAA
1 AAAATAGAAATAGAA
46812191 TATTTAGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAATAGAAATAGAA
Found at i:46814694 original size:5 final size:5
Alignment explanation
Indices: 46814684--46814709 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46814674 GAACAAATAT
46814684 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
46814710 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:46821554 original size:19 final size:19
Alignment explanation
Indices: 46821530--46821566 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46821520 TGGCCAGTGT
46821530 TGGTCCTAGCATTAGACAA
1 TGGTCCTAGCATTAGACAA
*
46821549 TGGTCCTAGCATTGGACA
1 TGGTCCTAGCATTAGACA
46821567 GGGCTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (19 bp):
TGGTCCTAGCATTAGACAA
Found at i:46837661 original size:23 final size:23
Alignment explanation
Indices: 46837624--46837674 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
46837614 GTTGTTTCTT
46837624 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
46837647 TGTAATA-CCCTGAAAATTACTAC
1 TGTAATATCCC-GAAAATTACTAC
*
46837670 AGTAA
1 TGTAA
46837675 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:46840852 original size:9 final size:9
Alignment explanation
Indices: 46840831--46840864 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
46840821 CTGGTTAGTG
46840831 TTTAAGTTGT
1 TTTAA-TTGT
*
46840841 TTTAATTTT
1 TTTAATTGT
46840850 TTTAATTGT
1 TTTAATTGT
46840859 TTTAAT
1 TTTAAT
46840865 GGTGGGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (9 bp):
TTTAATTGT
Found at i:46840929 original size:18 final size:18
Alignment explanation
Indices: 46840896--46840934 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
46840886 TTCTAAACAT
*
46840896 TTTTTTAATTTTAATT-A
1 TTTTTTAATTTAAATTCA
46840913 TTTTTTAAGTTTAAATTCA
1 TTTTTTAA-TTTAAATTCA
46840932 TTT
1 TTT
46840935 GCTGACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAAATTCA
Found at i:46841041 original size:30 final size:30
Alignment explanation
Indices: 46841005--46841065 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
46840995 CTGAAAAAAT
* *
46841005 TCGGTTAACCGACTGCATTCGGTTAATCGG
1 TCGGTTAACCGACCGAATTCGGTTAATCGG
46841035 TCGGTTAACCGACCGAATTCGGTTAATCGG
1 TCGGTTAACCGACCGAATTCGGTTAATCGG
46841065 T
1 T
46841066 TGGTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (30 bp):
TCGGTTAACCGACCGAATTCGGTTAATCGG
Found at i:46841188 original size:12 final size:13
Alignment explanation
Indices: 46841156--46841210 Score: 74
Period size: 13 Copynumber: 3.9 Consensus size: 13
46841146 CAATTATCCA
46841156 ACCCAACCCAATT
1 ACCCAACCCAATT
46841169 ACCCAACCCAATT
1 ACCCAACCCAATT
46841182 ACCAACCTAACCCAATT
1 A-C--CC-AACCCAATT
46841199 ACCCAACCCAAT
1 ACCCAACCCAAT
46841211 AAAACTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
13 22 0.58
14 3 0.08
16 3 0.08
17 10 0.26
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:46841194 original size:30 final size:31
Alignment explanation
Indices: 46841146--46841210 Score: 114
Period size: 30 Copynumber: 2.1 Consensus size: 31
46841136 TTAATAAATA
46841146 CAATTATCCAACCCAACCCAATTACCCAACC
1 CAATTATCCAACCCAACCCAATTACCCAACC
*
46841177 CAATTA-CCAACCTAACCCAATTACCCAACC
1 CAATTATCCAACCCAACCCAATTACCCAACC
46841207 CAAT
1 CAAT
46841211 AAAACTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 27 0.82
31 6 0.18
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (31 bp):
CAATTATCCAACCCAACCCAATTACCCAACC
Found at i:46841291 original size:38 final size:39
Alignment explanation
Indices: 46841191--46841307 Score: 218
Period size: 39 Copynumber: 3.0 Consensus size: 39
46841181 TACCAACCTA
46841191 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
46841230 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
*
46841269 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
46841307 A
1 A
46841308 ACTATTAAGA
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
38 29 0.38
39 48 0.62
ACGTcount: A:0.50, C:0.29, G:0.03, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:46841484 original size:37 final size:37
Alignment explanation
Indices: 46841438--46841512 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
46841428 TGTTAATTTC
*
46841438 AAGAATTATGTAATGTTTTTAATTACGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTACGTAGTGATTCA
* *
46841475 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTACGTAGTGATTCA
46841512 A
1 A
46841513 TCGGGTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTACGTAGTGATTCA
Found at i:46848955 original size:5 final size:5
Alignment explanation
Indices: 46848945--46848976 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
46848935 GCTCCCTCCG
*
46848945 TTTCT TTTCT TTTCT TTTCT TTTCT TTGCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
46848977 CTCCTTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTCT
Found at i:46848965 original size:15 final size:15
Alignment explanation
Indices: 46848945--46849018 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
46848935 GCTCCCTCCG
*
46848945 TTTCTTTTCTTTTCT
1 TTTCTTTTCTTTGCT
46848960 TTTCTTTTCTTTGC-
1 TTTCTTTTCTTTGCT
*
46848974 TTTC--TCCTTTGC-
1 TTTCTTTTCTTTGCT
*
46848986 TTTC-TTCCTTTGCT
1 TTTCTTTTCTTTGCT
*
46849000 TTGCTTTCTCCTTTGCT
1 TTTCTTT-T-CTTTGCT
46849017 TT
1 TT
46849019 CTCCAGTCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
12 11 0.22
13 8 0.16
14 7 0.14
15 15 0.30
17 9 0.18
ACGTcount: A:0.00, C:0.26, G:0.07, T:0.68
Consensus pattern (15 bp):
TTTCTTTTCTTTGCT
Found at i:46849003 original size:18 final size:17
Alignment explanation
Indices: 46848963--46849018 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
46848953 CTTTTCTTTT
*
46848963 CTTTTCTTTGCTTTCTC
1 CTTTGCTTTGCTTTCTC
46848980 CTTTGCTTT-C--T-TC
1 CTTTGCTTTGCTTTCTC
46848993 CTTTGCTTTGCTTTCTC
1 CTTTGCTTTGCTTTCTC
46849010 CTTTGCTTT
1 CTTTGCTTT
46849019 CTCCAGTCGG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 11 0.32
14 2 0.06
16 2 0.06
17 19 0.56
ACGTcount: A:0.00, C:0.29, G:0.09, T:0.62
Consensus pattern (17 bp):
CTTTGCTTTGCTTTCTC
Found at i:46849004 original size:30 final size:30
Alignment explanation
Indices: 46848963--46849020 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
46848953 CTTTTCTTTT
*
46848963 CTTTTCTTTGCTTTCTCCTTTGCTTTCTTC
1 CTTTGCTTTGCTTTCTCCTTTGCTTTCTTC
46848993 CTTTGCTTTGCTTTCTCCTTTGCTTTCT
1 CTTTGCTTTGCTTTCTCCTTTGCTTTCT
46849021 CCAGTCGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.00, C:0.29, G:0.09, T:0.62
Consensus pattern (30 bp):
CTTTGCTTTGCTTTCTCCTTTGCTTTCTTC
Found at i:46849022 original size:12 final size:13
Alignment explanation
Indices: 46848968--46849020 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 13
46848958 CTTTTCTTTT
46848968 CTTTGCTTTC-TC
1 CTTTGCTTTCTTC
46848980 CTTTGCTTTCTTC
1 CTTTGCTTTCTTC
46848993 CTTTGCTTTGCTTTCTC
1 CTTTGCTTT-C--T-TC
46849010 CTTTGCTTTCT
1 CTTTGCTTTCT
46849021 CCAGTCGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.28
13 11 0.31
14 2 0.06
16 2 0.06
17 11 0.31
ACGTcount: A:0.00, C:0.30, G:0.09, T:0.60
Consensus pattern (13 bp):
CTTTGCTTTCTTC
Found at i:46851326 original size:37 final size:40
Alignment explanation
Indices: 46851283--46851481 Score: 130
Period size: 41 Copynumber: 5.0 Consensus size: 40
46851273 TGCTTAATTG
46851283 TTTTATTAAATTATATA-AGAATAT-TAAT-TATTAATAA
1 TTTTATTAAATTATATATAGAATATATAATATATTAATAA
**
46851320 TTTTATTAAATTATATATTTTAAT-TATAATATATTTAATAA
1 TTTTATTAAATTATATA-TAGAATATATAATATA-TTAATAA
* * *** * *
46851361 TAATTATGTTAATT-TATATTTTATAGTATCATATATT-ATGA
1 T-TTTAT-TAAATTATATATAGAATA-TATAATATATTAATAA
* * *
46851402 TTTGAGTAAATTCATATA-AGAATAT-TAAT-TATTAAGAA
1 TTTTATTAAATT-ATATATAGAATATATAATATATTAATAA
**
46851440 TTTTATTAAATTATATATTTTAAT-TATAATATATTTAATAA
1 TTTTATTAAATTATATA-TAGAATATATAATATA-TTAATAA
46851481 T
1 T
46851482 AATTATGTTT
Statistics
Matches: 123, Mismatches: 22, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
37 26 0.21
38 17 0.14
39 20 0.16
40 9 0.07
41 28 0.23
42 10 0.08
43 13 0.11
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (40 bp):
TTTTATTAAATTATATATAGAATATATAATATATTAATAA
Found at i:46851352 original size:18 final size:18
Alignment explanation
Indices: 46851306--46851353 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
46851296 TATAAGAATA
*
46851306 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
46851322 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
46851339 TTAATTATAATATAT
1 TTAATTATAATATAT
46851354 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:46851358 original size:15 final size:15
Alignment explanation
Indices: 46851323--46851374 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46851313 TTAATAATTT
*
46851323 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46851337 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46851351 TATTTAATAATAAT-
1 TATTTAATTATAATA
46851365 TATGTTAATT
1 TAT-TTAATT
46851375 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46851473 original size:16 final size:16
Alignment explanation
Indices: 46851452--46851493 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46851442 TTATTAAATT
*
46851452 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46851468 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46851483 AT-TATGTTTAA
1 ATATAT-TTTAA
46851494 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46851478 original size:15 final size:15
Alignment explanation
Indices: 46851443--46851484 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46851433 TTAAGAATTT
*
46851443 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46851457 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46851471 TATTTAATAATAAT
1 TATTTAATTATAAT
46851485 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46851723 original size:45 final size:44
Alignment explanation
Indices: 46851619--46851728 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
46851609 TTTTCCATTA
46851619 TGCTATTACACCTCTA-T---TT-CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * * ***
46851658 TACTATTACGCCTTTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
46851703 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
46851729 CCTCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 13 0.23
40 1 0.02
43 2 0.04
44 16 0.29
45 24 0.43
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:46851728 original size:16 final size:16
Alignment explanation
Indices: 46851707--46851744 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46851697 TTGATTTGCT
*
46851707 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
46851723 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
46851739 AATACA
1 ATTACA
46851745 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:46851873 original size:15 final size:15
Alignment explanation
Indices: 46851853--46851883 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46851843 AAAATAACAT
46851853 AACTCTTGACATTTC
1 AACTCTTGACATTTC
*
46851868 AACTCTTGACCTTTC
1 AACTCTTGACATTTC
46851883 A
1 A
46851884 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACATTTC
Found at i:46854520 original size:19 final size:19
Alignment explanation
Indices: 46854474--46854518 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
46854464 TTATTTAATT
*
46854474 TAATTTTTATATTTATAAA
1 TAATTTTTATATATATAAA
46854493 TAATTTTTATATAT-TAAA
1 TAATTTTTATATATATAAA
46854511 TAATTTTT
1 TAATTTTT
46854519 TAAAATATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATTTTTATATATATAAA
Found at i:46860213 original size:16 final size:16
Alignment explanation
Indices: 46860166--46860214 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
46860156 TTAAAAATTA
46860166 ATAAGAAATGAAAATA-
1 ATAAGAAAT-AAAATAT
* *
46860182 AAAAGAATTAATAATAT
1 ATAAGAAATAA-AATAT
46860199 ATAAGAAATAAAATAT
1 ATAAGAAATAAAATAT
46860215 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 2 0.07
16 16 0.59
17 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (16 bp):
ATAAGAAATAAAATAT
Found at i:46878245 original size:35 final size:35
Alignment explanation
Indices: 46878194--46878264 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
46878184 CTTATACAAG
*
46878194 AATATAGTTACAAGGAACACAAATATTATCAATGA
1 AATATAGCTACAAGGAACACAAATATTATCAATGA
*
46878229 AATATAGCTACGAGGAACACAAATATTATCAATGA
1 AATATAGCTACAAGGAACACAAATATTATCAATGA
46878264 A
1 A
46878265 CTTATACAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.24
Consensus pattern (35 bp):
AATATAGCTACAAGGAACACAAATATTATCAATGA
Found at i:46882365 original size:20 final size:20
Alignment explanation
Indices: 46882340--46882381 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
46882330 ATGGTAAAAG
46882340 AGAAGGTTGAGGAGTATCAA
1 AGAAGGTTGAGGAGTATCAA
* *
46882360 AGAAGGTTGTGGAGTATTAA
1 AGAAGGTTGAGGAGTATCAA
46882380 AG
1 AG
46882382 TGGTAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.36, T:0.24
Consensus pattern (20 bp):
AGAAGGTTGAGGAGTATCAA
Found at i:46893683 original size:5 final size:5
Alignment explanation
Indices: 46893673--46893705 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
46893663 CCATCACCAT
46893673 ATATC ATATC ATATC ATATC ATATC ATATC ATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATA
46893706 AATATCAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATC
Found at i:46896697 original size:67 final size:67
Alignment explanation
Indices: 46896576--46896992 Score: 416
Period size: 67 Copynumber: 6.3 Consensus size: 67
46896566 TGGGGAAATG
* * * * * *
46896576 ATGTATAATACCATAGCTCGACTATGGCAACATAAAAAGTCTGTTAGGACATTAAACATGGGGTA
1 ATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTATGTCAGGACATTAAACATGGGGTA
46896641 TA
66 TA
* * *
46896643 ATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTATGTCAGTATATTAAACATGAGGTA
1 ATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTATGTCAGGACATTAAACATGGGGTA
46896708 TA
66 TA
* * * * ** * *
46896710 ATGTGTAACACCATAGCTCGACTATGGAAACATAGAGAGTTTGCCAATACATTAATCATGAGGTA
1 ATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTATGTCAGGACATTAAACATGGGGTA
46896775 TA
66 TA
* * * * * * *
46896777 ATGTGTAAAACCCTAGCTCGGCTATGGCAACATAAAGAGTATAGT-AGGACATTTAATATGGGAT
1 ATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTAT-GTCAGGACATTAAACATGGGGT
*
46896841 ATG
65 ATA
* ** * *
46896844 ATATGTAAGACCATAGCTCGACTATGGCAATGTA-A-AG-A-GTCCATGACATTAAACATGGGAT
1 ATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTATGT-CAGGACATTAAACATGGGGT
*
46896905 ATG
65 ATA
* * * **
46896908 ATATGTAAAACCATAGCTCGATTATGGCAACATAGAGA--ATCCACTAGGACATTAAACATGGGG
1 ATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTAT-GTC-AGGACATTAAACATGGGG
*
46896971 TATG
64 TATA
46896975 ATGTGTAAGACCATAGCT
1 ATGTGTAAGACCATAGCT
46896993 TGGCTATGAT
Statistics
Matches: 292, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
62 2 0.01
64 50 0.17
65 4 0.01
66 3 0.01
67 232 0.79
68 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (67 bp):
ATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTATGTCAGGACATTAAACATGGGGTA
TA
Found at i:46896851 original size:134 final size:132
Alignment explanation
Indices: 46896573--46897021 Score: 460
Period size: 134 Copynumber: 3.4 Consensus size: 132
46896563 TAATGGGGAA
* * * * ** **
46896573 ATGATGTATAATACCATAGCTCGACTATGGCAACATAAAAAGTCTGTTAGGACATTAAACATGGG
1 ATGATGTGTAAGACCATAGCTCGACTATGGAAACATAAAGAGTCTGCCAATACATTAAACAT-GG
* * *
46896638 GTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTAT-GTCAGTATATTAAACAT
65 GTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGAGAGTATAGT-AGGACATTAAACAT
46896702 GAGGT
129 G-GGT
* * * * *
46896707 ATAATGTGTAACACCATAGCTCGACTATGGAAACATAGAGAGTTTGCCAATACATTAATCATGAG
1 ATGATGTGTAAGACCATAGCTCGACTATGGAAACATAAAGAGTCTGCCAATACATTAAACATG-G
* * * * *
46896772 GTATAATGTGTAAAACCCTAGCTCGGCTATGGCAACATAAAGAGTATAGTAGGACATTTAATATG
65 GTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGAGAGTATAGTAGGACATTAAACATG
46896837 GGAT
130 GG-T
* * **
46896841 ATGATATGTAAGACCATAGCTCGACTATGGCAATGTAAAGAG--T-CC-ATGACATTAAACATGG
1 ATGATGTGTAAGACCATAGCTCGACTATGGAAACATAAAGAGTCTGCCAAT-ACATTAAACATGG
* * * * ** *
46896902 GATATGATATGTAAAACCATAGCTCGATTATGGCAACATAGAGAATCCACTAGGACATTAAACAT
65 G-TATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGAGAGTATAGTAGGACATTAAACAT
46896967 GGGGT
129 -GGGT
* * *
46896972 ATGATGTGTAAGACCATAGCTTGGCTAT-GATAACATATAGAGTCTGCCAA
1 ATGATGTGTAAGACCATAGCTCGACTATGGA-AACATAAAGAGTCTGCCAA
46897022 GAAATAAATG
Statistics
Matches: 257, Mismatches: 47, Indels: 21
0.79 0.14 0.06
Matches are distributed among these distances:
130 5 0.02
131 98 0.38
132 4 0.02
133 4 0.02
134 143 0.56
135 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (132 bp):
ATGATGTGTAAGACCATAGCTCGACTATGGAAACATAAAGAGTCTGCCAATACATTAAACATGGG
TATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGAGAGTATAGTAGGACATTAAACATGG
GT
Found at i:46905994 original size:11 final size:11
Alignment explanation
Indices: 46905974--46906016 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
46905964 AAAAAGAAAC
46905974 TTAA-GAAAAA
1 TTAATGAAAAA
46905984 TTAATGAAAAAA
1 TTAATG-AAAAA
*
46905996 CTTAATGAAAAC
1 -TTAATGAAAAA
46906008 TTAATGAAA
1 TTAATGAAA
46906017 TTAGTTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 4 0.14
11 10 0.34
12 9 0.31
13 6 0.21
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (11 bp):
TTAATGAAAAA
Found at i:46905997 original size:23 final size:24
Alignment explanation
Indices: 46905970--46906016 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
46905960 ACTTAAAAAG
46905970 AAACTTAA-GAAAAATTAATGAAA
1 AAACTTAATGAAAAATTAATGAAA
*
46905993 AAACTTAATGAAAACTTAATGAAA
1 AAACTTAATGAAAAATTAATGAAA
46906017 TTAGTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (24 bp):
AAACTTAATGAAAAATTAATGAAA
Found at i:46906396 original size:15 final size:16
Alignment explanation
Indices: 46906368--46906397 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46906358 GGTTGTTTAT
46906368 CATATTTATTATTTGA
1 CATATTTATTATTTGA
46906384 CATATTT-TTATTTG
1 CATATTTATTATTTG
46906398 CATGTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (16 bp):
CATATTTATTATTTGA
Found at i:46911321 original size:26 final size:25
Alignment explanation
Indices: 46911200--46911324 Score: 90
Period size: 26 Copynumber: 4.9 Consensus size: 25
46911190 TTTTTCATCC
* * *
46911200 CAATTTTACTCCAGTAAAATTTTAA
1 CAATTTTACCCCAGAAAAATTTTGA
** * * *
46911225 TGATTTTACCCCCGATAATTTTTGA
1 CAATTTTACCCCAGAAAAATTTTGA
** *
46911250 CAATTTTACGTTC-GATAAGATTTTGA
1 CAATTTTAC-CCCAGA-AAAATTTTGA
* *
46911276 CAATTTTACCCAAAATAAAATTTTGA
1 CAATTTTACCCCAGA-AAAATTTTGA
46911302 CAATTTTACCCCTAGAAAAATTT
1 CAATTTTACCCC-AGAAAAATTT
46911325 CAAGAAAAAT
Statistics
Matches: 74, Mismatches: 22, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
25 26 0.35
26 46 0.62
27 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (25 bp):
CAATTTTACCCCAGAAAAATTTTGA
Found at i:46915995 original size:47 final size:47
Alignment explanation
Indices: 46915944--46916548 Score: 1041
Period size: 47 Copynumber: 12.7 Consensus size: 47
46915934 TTAGGATTCT
* * *
46915944 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
46915991 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46916038 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46916085 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46916132 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
46916181 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
46916230 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46916277 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
46916326 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46916373 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46916420 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
46916467 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
46916514 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46916549 TCCCGAAGGG
Statistics
Matches: 540, Mismatches: 13, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 396 0.73
49 143 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:46916723 original size:37 final size:37
Alignment explanation
Indices: 46916667--46916745 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46916657 CCGAGCTCTA
* * *
46916667 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
46916704 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46916741 AAGAC
1 AAGAC
46916746 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46918480 original size:40 final size:40
Alignment explanation
Indices: 46917957--46918465 Score: 820
Period size: 40 Copynumber: 12.7 Consensus size: 40
46917947 GAGAATTGAG
46917957 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
46917997 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
46918037 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
46918077 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTAGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
46918117 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
46918157 AGTGATATATCCGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
46918197 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
46918237 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
46918277 AGTGATATATCCAGGTTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
46918317 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
46918357 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
46918397 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
46918437 GGTGTTATATCCGGGCTAGGTCCCGAAGA
1 AGTGATATATCCGGGCTAAGTCCCGAAGA
46918466 ACAATCATGC
Statistics
Matches: 434, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 434 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:46922342 original size:47 final size:47
Alignment explanation
Indices: 46922291--46922799 Score: 876
Period size: 47 Copynumber: 10.7 Consensus size: 47
46922281 TTAGGATTCT
* * *
46922291 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
46922338 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46922385 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
46922434 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46922481 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
46922530 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46922577 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46922624 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46922671 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
46922718 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
46922765 ATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46922800 CTTGTGTCAG
Statistics
Matches: 445, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 350 0.79
49 94 0.21
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:46922962 original size:37 final size:37
Alignment explanation
Indices: 46922906--46922984 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
46922896 CCGAGCTCTA
* * *
46922906 AAGACCCGATGATTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAATTACGTGTGGAGATTATGTCCGGGT
46922943 AAGACCCGATAACTT-CGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAA-TTACGTGTGGAGATTATGTCCGGGT
46922980 AAGAC
1 AAGAC
46922985 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAATTACGTGTGGAGATTATGTCCGGGT
Found at i:46937784 original size:76 final size:73
Alignment explanation
Indices: 46937538--46937784 Score: 207
Period size: 76 Copynumber: 3.3 Consensus size: 73
46937528 ATTACAGCAC
* * * * *
46937538 ATCTTCGTCAGTTTACCTGACTAGTGTTAGGCACT-TCATTCTCTTCGTTGGTTTATCCAACTAG
1 ATCTTCGTCAGTTTACCTGATTAGTG-TAGGCA-TATCATTATATTCG-TCGATTATCCAACTAG
* *
46937602 CTCTAGGTGCAA
63 AT-TGGGTGCAA
** * * * *
46937614 ATCTTCGTCAGTTTACCTGA--AAAG-A-ACATATTATTATATTCGTCGAATTATCCTACTAGCG
1 ATCTTCGTCAGTTTACCTGATTAGTGTAGGCATATCATTATATTCGTCG-ATTATCCAACTAG-A
*
46937675 CTGGGTGCAA
64 TTGGGTGCAA
** *
46937685 ATCTTCGTCAGTTTACCAAATTAGTGCTAGGCATATCATTATATTCGTCAGATTATCCGACTAGA
1 ATCTTCGTCAGTTTACCTGATTAGTG-TAGGCATATCATTATATTCGTC-GATTATCCAACTAG-
**
46937750 ATTGGGCACAA
63 ATTGGGTGCAA
46937761 ATCTTCGTCAGTTTACCTGATTAG
1 ATCTTCGTCAGTTTACCTGATTAG
46937785 AGCTGGACAC
Statistics
Matches: 136, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
70 3 0.02
71 48 0.35
72 1 0.01
73 2 0.01
74 2 0.01
75 1 0.01
76 78 0.57
77 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (73 bp):
ATCTTCGTCAGTTTACCTGATTAGTGTAGGCATATCATTATATTCGTCGATTATCCAACTAGATT
GGGTGCAA
Found at i:46942887 original size:61 final size:61
Alignment explanation
Indices: 46942822--46943009 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 61
46942812 TTATAGTATT
46942822 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * *
46942883 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAA-ATT-A-TATTTTA-TAATAT
1 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTT-AATATTAAGAATTTTATTAA-AT
46942941 C
61 C
* * * * *
46942942 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
46943003 ATATATT
1 ATATATT
46943010 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
58 11 0.11
59 30 0.31
60 8 0.08
61 35 0.36
62 12 0.12
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:46942897 original size:120 final size:120
Alignment explanation
Indices: 46942757--46943044 Score: 461
Period size: 120 Copynumber: 2.4 Consensus size: 120
46942747 AGTATGATGA
* * * * *
46942757 TAAATTATTTATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAATATC
* *
46942822 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
66 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
* *
46942877 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAATAT
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAATAT
* *
46942941 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
65 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
46942997 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
46943045 ATATGATTAA
Statistics
Matches: 153, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 2 0.01
120 149 0.97
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAATATC
ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
Found at i:46942943 original size:59 final size:58
Alignment explanation
Indices: 46942766--46943044 Score: 153
Period size: 61 Copynumber: 4.7 Consensus size: 58
46942756 ATAAATTATT
* * * * *
46942766 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATA
1 TATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAATATCATA
* * * * * * *
46942825 TATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTAA-ATCATA
1 TATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAATATCATA
46942886 TATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAATATCATA
1 TATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAATATCATA
* * ** * * *
46942945 TATTATGATTTGAGTAAATTCATATAAGAATATTGATTA-TT-AA-GA-ATTTTATTAA-ATTAT
1 TATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAATATCAT
46943005 A
58 A
*
46943006 TATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 TATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
46943045 ATATGATTAA
Statistics
Matches: 165, Mismatches: 32, Indels: 48
0.67 0.13 0.20
Matches are distributed among these distances:
54 9 0.05
55 4 0.02
56 3 0.02
57 5 0.03
58 13 0.08
59 34 0.21
60 15 0.09
61 45 0.27
62 15 0.09
63 5 0.03
64 1 0.01
65 6 0.04
66 10 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
TATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAATATCATA
Found at i:46943018 original size:18 final size:17
Alignment explanation
Indices: 46942990--46943024 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46942980 ATTATTAAGA
*
46942990 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46943007 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46943025 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46943214 original size:39 final size:40
Alignment explanation
Indices: 46943171--46943275 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
46943161 TTTCCTTATG
46943171 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
46943210 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
46943255 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
46943276 ACGCCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:46943269 original size:45 final size:44
Alignment explanation
Indices: 46943169--46943277 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 44
46943159 TTTTTCCTTA
46943169 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
46943208 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
46943253 TGCTATTACACCTCTATTCCATTAC
1 TGCTATTACACCTCTATTCCATTAC
46943278 GCCTCTAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 24 0.42
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:46949299 original size:40 final size:39
Alignment explanation
Indices: 46949255--46949394 Score: 126
Period size: 40 Copynumber: 3.6 Consensus size: 39
46949245 TGGTGAACAA
* *
46949255 ATCTTCGTCGATTTACGTGACTAGTGTTAGGCACATCATT
1 ATCTTCGTCGATTTAC-TGACTAGTGCTGGGCACATCATT
* * *
46949295 ATCTTCGTCGATTTATCCGACTAGCGCTGGGCGCA--A--
1 ATCTTCGTCGATTTA-CTGACTAGTGCTGGGCACATCATT
* * *
46949331 ATCTTCGTCAATTTACCTTACTAGTACTGGGCACATCATT
1 ATCTTCGTCGATTTA-CTGACTAGTGCTGGGCACATCATT
* *
46949371 ATCTTCATCGATTTATTCGACTAG
1 ATCTTCGTCGATTTACT-GACTAG
46949395 CGCAGGGCGC
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
36 28 0.36
38 2 0.03
39 1 0.01
40 46 0.59
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.36
Consensus pattern (39 bp):
ATCTTCGTCGATTTACTGACTAGTGCTGGGCACATCATT
Found at i:46949345 original size:36 final size:36
Alignment explanation
Indices: 46949295--46949579 Score: 114
Period size: 36 Copynumber: 7.7 Consensus size: 36
46949285 GCACATCATT
*
46949295 ATCTTCGTCGATTTATCCGACTAGCGCTGGGCGCAA
1 ATCTTCGTCAATTTATCCGACTAGCGCTGGGCGCAA
* ** *
46949331 ATCTTCGTCAATTTA-CCTTACTAGTACTGGGCACATCA
1 ATCTTCGTCAATTTATCC-GACTAGCGCTGGGCGCA--A
* * * *
46949369 TTATCTTCATCGATTTATTCGACTAGCGCAGGGCGCAA
1 --ATCTTCGTCAATTTATCCGACTAGCGCTGGGCGCAA
* * ** * *
46949407 ATCTTTGTCAGTTTA-CCTGACTATAGCTGGACACATCA
1 ATCTTCGTCAATTTATCC-GACTAGCGCTGGGCGCA--A
* * *
46949445 TTATATTCATC-A--TATCCGACTAGCGCTGGGTGCAA
1 --ATCTTCGTCAATTTATCCGACTAGCGCTGGGCGCAA
* * ** * * *
46949480 ATCTTCGCCAGTTTATCTTACTAGTGCTTGGCACATCA
1 ATCTTCGTCAATTTATCCGACTAGCGCTGGGCGCA--A
* * *
46949518 TTATATTTGACAGA-TTATCCGACTAGCGCTGGGCGCAA
1 --ATCTTCGTCA-ATTTATCCGACTAGCGCTGGGCGCAA
* * *
46949556 ATCTTCGTTAGTTTATCTGACTAG
1 ATCTTCGTCAATTTATCCGACTAG
46949580 TGCTAGGCAC
Statistics
Matches: 171, Mismatches: 57, Indels: 42
0.63 0.21 0.16
Matches are distributed among these distances:
33 6 0.04
35 4 0.02
36 83 0.49
37 14 0.08
38 7 0.04
40 56 0.33
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (36 bp):
ATCTTCGTCAATTTATCCGACTAGCGCTGGGCGCAA
Found at i:46949382 original size:76 final size:75
Alignment explanation
Indices: 46949252--46949590 Score: 393
Period size: 76 Copynumber: 4.5 Consensus size: 75
46949242 TTTTGGTGAA
* * *
46949252 CAAATCTTCGTC-GATTTACGTGACTAGTGTTAGGCACATCATTATCTTCGTCGATTTATCCGAC
1 CAAATCTTCGTCAG-TTTACCTGACTAGTGCTAGGCACATCATTATCTTCATCGA-TTATCCGAC
46949316 TAGCGCTGGGCG
64 TAGCGCTGGGCG
* * * * *
46949328 CAAATCTTCGTCAATTTACCTTACTAGTACTGGGCACATCATTATCTTCATCGATTTATTCGACT
1 CAAATCTTCGTCAGTTTACCTGACTAGTGCTAGGCACATCATTATCTTCATCGA-TTATCCGACT
*
46949393 AGCGCAGGGCG
65 AGCGCTGGGCG
* *
46949404 CAAATCTTTGTCAGTTTACCTGACTA-TAGCT-GGACACATCATTATATTCATC-A-TATCCGAC
1 CAAATCTTCGTCAGTTTACCTGACTAGT-GCTAGG-CACATCATTATCTTCATCGATTATCCGAC
*
46949465 TAGCGCTGGGTG
64 TAGCGCTGGGCG
* * * * * *
46949477 CAAATCTTCGCCAGTTTATCTTACTAGTGCTTGGCACATCATTATATTTGA-CAGATTATCCGAC
1 CAAATCTTCGTCAGTTTACCTGACTAGTGCTAGGCACATCATTAT-CTTCATC-GATTATCCGAC
46949541 TAGCGCTGGGCG
64 TAGCGCTGGGCG
* *
46949553 CAAATCTTCGTTAGTTTATCTGACTAGTGCTAGGCACA
1 CAAATCTTCGTCAGTTTACCTGACTAGTGCTAGGCACA
46949591 ACCTCTATAT
Statistics
Matches: 226, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
73 54 0.24
74 6 0.03
75 5 0.02
76 161 0.71
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (75 bp):
CAAATCTTCGTCAGTTTACCTGACTAGTGCTAGGCACATCATTATCTTCATCGATTATCCGACTA
GCGCTGGGCG
Found at i:46949541 original size:149 final size:149
Alignment explanation
Indices: 46949252--46949578 Score: 394
Period size: 149 Copynumber: 2.2 Consensus size: 149
46949242 TTTTGGTGAA
* * * *
46949252 CAAATCTTCGTC-GATTTACGTGACTAGT-GTTAGG-CACATCATTATCTTCGTCGATTTATCCG
1 CAAATCTTCGTCAG-TTTACCTGACTA-TAGCT-GGACACATCATTATATTCATC-A--TATCCG
*
46949314 ACTAGCGCTGGGCGCAAATCTTCGTCAATTTACCTTACTAGTACTGGGCACATCATTATCTTCAT
60 ACTAGCGCTGGGCGCAAATCTTCGCCAATTTACCTTACTAGTACTGGGCACATCATTATCTTCAT
*
46949379 CGATTTATTCGACTAGCGCAGGGCG
125 CGATTTATCCGACTAGCGCAGGGCG
*
46949404 CAAATCTTTGTCAGTTTACCTGACTATAGCTGGACACATCATTATATTCATCATATCCGACTAGC
1 CAAATCTTCGTCAGTTTACCTGACTATAGCTGGACACATCATTATATTCATCATATCCGACTAGC
* * * * * * *
46949469 GCTGGGTGCAAATCTTCGCCAGTTTATCTTACTAGTGCTTGGCACATCATTATATTTGA-CAGA-
66 GCTGGGCGCAAATCTTCGCCAATTTACCTTACTAGTACTGGGCACATCATTAT-CTTCATC-GAT
*
46949532 TTATCCGACTAGCGCTGGGCG
129 TTATCCGACTAGCGCAGGGCG
* *
46949553 CAAATCTTCGTTAGTTTATCTGACTA
1 CAAATCTTCGTCAGTTTACCTGACTA
46949579 GTGCTAGGCA
Statistics
Matches: 152, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
149 102 0.67
150 5 0.03
151 4 0.03
152 40 0.26
153 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (149 bp):
CAAATCTTCGTCAGTTTACCTGACTATAGCTGGACACATCATTATATTCATCATATCCGACTAGC
GCTGGGCGCAAATCTTCGCCAATTTACCTTACTAGTACTGGGCACATCATTATCTTCATCGATTT
ATCCGACTAGCGCAGGGCG
Found at i:46953189 original size:41 final size:40
Alignment explanation
Indices: 46953131--46953487 Score: 367
Period size: 41 Copynumber: 8.8 Consensus size: 40
46953121 GACCTTTCGG
* * *
46953131 GGCTTTAGCGGCTTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
* * * *
46953171 GAGCTTTAGCGGTGTTTTTTAAAAAGCGCTGCTAATACTC-
1 G-GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
* * ** *
46953211 GAGCTTTAGCGGCTTTTTTAAAAAAGCACTTCTAATCCTCA
1 G-GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
*
46953252 GGCTTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
1 GGC-TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
* *
46953293 GGCTTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
1 GGC-TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
* *
46953334 GGCCTTTAGTGGCGTTTTTAAAAAAGCGCCACTAATGCTCA
1 GG-CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
* * * * * * *
46953375 GGCTTTTAGTGCCATTTTTGAAGAAGCACAGCTAATGCTCA
1 GGC-TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
* ** *
46953416 GGCTTTTAGCGGCTTTTTTAAAAAA-CATCGCTAATGCTCGG
1 GGC-TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC-A
*
46953457 GGCTTTAGCAGCGTTTTTAAAAAAGCGCCGC
1 GGCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
46953488 AAAAACATTT
Statistics
Matches: 266, Mismatches: 44, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
40 69 0.26
41 196 0.74
42 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
Found at i:46953279 original size:122 final size:121
Alignment explanation
Indices: 46953134--46953482 Score: 382
Period size: 122 Copynumber: 2.9 Consensus size: 121
46953124 CTTTCGGGGC
* * *
46953134 TTTAGCGGCTTTTTTGAGAAAGCGCCGCTAATGCTCAGAGC-TTTAGCGGTGTTTTTTAAAAAGC
1 TTTAGCAGCATTTTTGAAAAAGCGCCGCTAATGCTCAG-GCTTTTAGCGG-GTTTTTTAAAAAGC
* * **
46953198 GCTGCTAATACTCGAGCTTTAGCGGCTTTTTTAAAAAAGCACTTCTAATCCTCAGGCT
64 GCTGCTAATGCTCGAGCTTTAGCGGCGTTTTTAAAAAAGCACCACTAATCCTCAGGCT
* * * *
46953256 TTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTGAATAAGCG
1 TTTAGCAGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGG-GTTTTTTAAAAAGCG
* * * *
46953321 CCGCTAATGCTC-AGGCCTTTAGTGGCGTTTTTAAAAAAGCGCCACTAATGCTCAGGCT
65 CTGCTAATGCTCGA-G-CTTTAGCGGCGTTTTTAAAAAAGCACCACTAATCCTCAGGCT
* * * * * *
46953379 TTTAG-TGCCATTTTTGAAGAAGCACAGCTAATGCTCAGGCTTTTAGCGGCTTTTTTAAAAAAC-
1 TTTAGCAG-CATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGGTTTTTTAAAAAGCG
* * *
46953442 ATCGCTAATGCTCGGGGCTTTAGCAGCGTTTTTAAAAAAGC
65 CT-GCTAATGCTC-GAGCTTTAGCGGCGTTTTTAAAAAAGC
46953483 GCCGCAAAAA
Statistics
Matches: 190, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
121 3 0.02
122 109 0.57
123 78 0.41
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (121 bp):
TTTAGCAGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGGTTTTTTAAAAAGCGC
TGCTAATGCTCGAGCTTTAGCGGCGTTTTTAAAAAAGCACCACTAATCCTCAGGCT
Found at i:46953901 original size:14 final size:15
Alignment explanation
Indices: 46953873--46953905 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
46953863 AAGGTTTATA
46953873 GATTATGGAATTAGG
1 GATTATGGAATTAGG
46953888 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
46953902 GATT
1 GATT
46953906 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:46954064 original size:126 final size:128
Alignment explanation
Indices: 46953934--46954189 Score: 288
Period size: 128 Copynumber: 2.0 Consensus size: 128
46953924 CTTAGGGGTT
* * * * *
46953934 AGGGGTTAGAGG-TTAAGAGTTAGTGATTTAAGGTTTAGAGATTCGG-GGTCGGGTTA-GGGTTT
1 AGGGGTTAG-GGTTTAAGAGTTA-TGATTTAAGATTTAGAGATTAGGAGATAGGGGTAGGGGTTT
* *
46953996 AAGGTTTAGATTAATTAAT-ATTTTTAATTTATATATTAATTAAG-TTCTTATATAATTGTAAAA
64 AAGGCTTAGATTAATTAATGATTTTTAATTTATATATTAAAT-AGTTTCTTATATAATTGTAAAA
46954059 G
128 G
* * * * * * *
46954060 AGGGGTTAGGGTTTAATATTTATGTTTTATGATTTAGGGTTTAGGAGATAGGGGTAGGGGTTTAG
1 AGGGGTTAGGGTTTAAGAGTTATGATTTAAGATTTAGAGATTAGGAGATAGGGGTAGGGGTTTAA
* ** *
46954125 GGCTTAGATTATTTGGTGTTTTTTAATTTATATATTAAATAGTTTCTTATATAATTGTAAAAG
66 GGCTTAGATTAATTAATGATTTTTAATTTATATATTAAATAGTTTCTTATATAATTGTAAAAG
46954188 AG
1 AG
46954190 ATAATTTTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
125 19 0.18
126 24 0.22
127 22 0.21
128 42 0.39
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (128 bp):
AGGGGTTAGGGTTTAAGAGTTATGATTTAAGATTTAGAGATTAGGAGATAGGGGTAGGGGTTTAA
GGCTTAGATTAATTAATGATTTTTAATTTATATATTAAATAGTTTCTTATATAATTGTAAAAG
Found at i:46956227 original size:17 final size:17
Alignment explanation
Indices: 46956205--46956241 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
46956195 CAGAAGGTGT
*
46956205 TTCAAAGAGGTGGTTCA
1 TTCAAAAAGGTGGTTCA
46956222 TTCAAAAAGGTGGTTCA
1 TTCAAAAAGGTGGTTCA
46956239 TTC
1 TTC
46956242 TTTGCTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (17 bp):
TTCAAAAAGGTGGTTCA
Found at i:46958639 original size:17 final size:17
Alignment explanation
Indices: 46958614--46958646 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46958604 TTATTTTTAT
46958614 TTAAATATAATTATTAA
1 TTAAATATAATTATTAA
*
46958631 TTAATTATAATTATTA
1 TTAAATATAATTATTA
46958647 TAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATATAATTATTAA
Found at i:46958660 original size:20 final size:20
Alignment explanation
Indices: 46958623--46958665 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
46958613 TTTAAATATA
* * * *
46958623 ATTATTAATTAATTATAATT
1 ATTATAAATAAATAATAACT
46958643 ATTATAAATAAATAATAACT
1 ATTATAAATAAATAATAACT
46958663 ATT
1 ATT
46958666 GGGATTAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATAAATAAATAATAACT
Found at i:46958749 original size:10 final size:10
Alignment explanation
Indices: 46958731--46958768 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
46958721 AGGATTTTAG
46958731 TATTTAATTA
1 TATTTAATTA
*
46958741 TAATTAATTA
1 TATTTAATTA
46958751 TTATTTAATTA
1 -TATTTAATTA
46958762 TATTTAA
1 TATTTAA
46958769 AAAAGTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTAATTA
Found at i:46959161 original size:5 final size:5
Alignment explanation
Indices: 46959153--46959178 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46959143 GAGATGAAAT
46959153 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
46959179 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:46959726 original size:16 final size:16
Alignment explanation
Indices: 46959705--46959735 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46959695 AGGGAAAATA
46959705 AAAAGTTTTAGGGAAT
1 AAAAGTTTTAGGGAAT
46959721 AAAAGTTTTAGGGAA
1 AAAAGTTTTAGGGAA
46959736 AGTAAATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (16 bp):
AAAAGTTTTAGGGAAT
Found at i:46960780 original size:20 final size:20
Alignment explanation
Indices: 46960755--46960814 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
46960745 AATTAAATTT
46960755 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATTAA
* *
46960775 ATTTAAATTTAAAAATA-GAA
1 ATTTAAA-ATAAAAATATTAA
* *
46960795 AATTAAAATATCAAATATTA
1 ATTTAAAATA-AAAATATTA
46960815 TTGAAAACAC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 2 0.06
20 20 0.65
21 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
ATTTAAAATAAAAATATTAA
Found at i:46960797 original size:21 final size:21
Alignment explanation
Indices: 46960755--46960805 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
46960745 AATTAAATTT
**
46960755 ATTTAAA-ATAAAAATATTAA
1 ATTTAAATATAAAAATAGAAA
*
46960775 ATTTAAATTTAAAAATAGAAA
1 ATTTAAATATAAAAATAGAAA
*
46960796 ATTAAAATAT
1 ATTTAAATAT
46960806 CAAATATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTTAAATATAAAAATAGAAA
Found at i:46964209 original size:21 final size:21
Alignment explanation
Indices: 46964179--46964220 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46964169 TTTGCAAAAG
* *
46964179 ATGTGTATTGGATTGAATTGA
1 ATGTGAATTGGATTAAATTGA
*
46964200 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATTAAATTGA
46964221 GCTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
ATGTGAATTGGATTAAATTGA
Found at i:46964632 original size:25 final size:26
Alignment explanation
Indices: 46964577--46964639 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
46964567 TTAGCTCTTA
* * *
46964577 TGAGCATCCC-ATTATATGGCTCTCT
1 TGAGCTTCCCGATTATATGGATCCCT
*
46964602 TAAGCTTCCCGATTA-ATGGATCCCT
1 TGAGCTTCCCGATTATATGGATCCCT
*
46964627 TGAGCTTTCCGAT
1 TGAGCTTCCCGAT
46964640 ACTTAATGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 27 0.87
26 4 0.13
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCGATTATATGGATCCCT
Found at i:46964708 original size:24 final size:24
Alignment explanation
Indices: 46964656--46964734 Score: 106
Period size: 23 Copynumber: 3.3 Consensus size: 24
46964646 TGGCTTTCCA
*
46964656 GAGCTTCTCGATATTGGCT-TTAT
1 GAGCTTCTCGATATTGGCTCGTAT
46964679 GAGCTTCTCGATATTGGCTCGTAT
1 GAGCTTCTCGATATTGGCTCGTAT
* * *
46964703 GAGCTTCTCGATAATTTGCTCGCAA
1 GAGCTTCTCGAT-ATTGGCTCGTAT
46964728 GAGCTTC
1 GAGCTTC
46964735 CCGTTATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.38
24 15 0.30
25 16 0.32
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (24 bp):
GAGCTTCTCGATATTGGCTCGTAT
Found at i:46964781 original size:25 final size:25
Alignment explanation
Indices: 46964720--46964795 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
46964710 TCGATAATTT
* * *
46964720 GCTCGCAAGAGCTTCCCGTTATATA
1 GCTCGAAAGAGCTTCCCGTTACATG
* *
46964745 GCT-TACATGAGCTTCCCGTTACATG
1 GCTCGA-AAGAGCTTCCCGTTACATG
*
46964770 GCTCGAAAGAGCTTCCCAATTACATG
1 GCTCGAAAGAGCTTCCC-GTTACATG
46964796 CTTGTATAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
25 32 0.80
26 8 0.20
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
GCTCGAAAGAGCTTCCCGTTACATG
Found at i:46970486 original size:42 final size:43
Alignment explanation
Indices: 46970381--46970495 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 43
46970371 TCGTACAATG
* * * * **
46970381 CCAACGTCCCAGACGTGATCTTACATGTAATCAAATAACGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGACA
* * * *
46970424 CCAATATTCCAGACAGGGTCTTACACGTAATCATAT-ACGACA
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGACA
46970466 CCAATGTCCCAGACATGGTCTTACACGTAA
1 CCAATGTCCCAGACATGGTCTTACACGTAA
46970496 ATCTCAAATT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 31 0.53
43 28 0.47
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGACA
Found at i:46972394 original size:14 final size:14
Alignment explanation
Indices: 46972375--46972406 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
46972365 AAATTTTGAA
*
46972375 AAGAAAGATAATTT
1 AAGAAAAATAATTT
46972389 AAGAAAAATAATTT
1 AAGAAAAATAATTT
46972403 AAGA
1 AAGA
46972407 CTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (14 bp):
AAGAAAAATAATTT
Found at i:46972442 original size:18 final size:19
Alignment explanation
Indices: 46972410--46972459 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
46972400 TTTAAGACTT
*
46972410 AAATTTTGA-AAAC-TTAA
1 AAATTTGGAGAAACTTTAA
46972427 AAATTTGGAGAAACTTTAA
1 AAATTTGGAGAAACTTTAA
*
46972446 AACTTTGGAGAAAC
1 AAATTTGGAGAAAC
46972460 GAGTTTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.28
18 4 0.14
19 17 0.59
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (19 bp):
AAATTTGGAGAAACTTTAA
Found at i:46972765 original size:57 final size:57
Alignment explanation
Indices: 46972690--46972868 Score: 182
Period size: 57 Copynumber: 3.1 Consensus size: 57
46972680 AATCAACCTG
* * * * *
46972690 TTCTTGCTAGGGACTATTTACTATTTTCGCCAGAGAATATTTTCTGTTCATTCCTCTT
1 TTCTTGC-AGGGAATATTTACTGTTTACGCCAGAGAATATTTTCTGTTCACTCGTCTT
* * ** * *
46972748 TTCTTGCAGGGAATATTTACTGTTTACGCCAAAAAATATTTAATGCTCACTCGACTT
1 TTCTTGCAGGGAATATTTACTGTTTACGCCAGAGAATATTTTCTGTTCACTCGTCTT
* ** * *
46972805 TTCTTGCA-GGAATGTAAACTGTTTACTCCAGAGAATA-TTTCATGTTGACTCGTCTT
1 TTCTTGCAGGGAATATTTACTGTTTACGCCAGAGAATATTTTC-TGTTCACTCGTCTT
46972861 TTCTTGCA
1 TTCTTGCA
46972869 TCGTTTTTTC
Statistics
Matches: 98, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
55 2 0.02
56 42 0.43
57 47 0.48
58 7 0.07
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (57 bp):
TTCTTGCAGGGAATATTTACTGTTTACGCCAGAGAATATTTTCTGTTCACTCGTCTT
Found at i:46972843 original size:56 final size:57
Alignment explanation
Indices: 46972745--46972868 Score: 151
Period size: 56 Copynumber: 2.2 Consensus size: 57
46972735 GTTCATTCCT
**
46972745 CTTTTCTTGCAGGGAATATTTACTGTTTACGCCAAAAAATATTTAATGCTCACTCGA
1 CTTTTCTTGCAGGGAATATAAACTGTTTACGCCAAAAAATATTTAATGCTCACTCGA
* * * * * * * *
46972802 CTTTTCTTGCA-GGAATGTAAACTGTTTACTCCAGAGAATATTTCATGTTGACTCGT
1 CTTTTCTTGCAGGGAATATAAACTGTTTACGCCAAAAAATATTTAATGCTCACTCGA
46972858 CTTTTCTTGCA
1 CTTTTCTTGCA
46972869 TCGTTTTTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
56 46 0.81
57 11 0.19
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (57 bp):
CTTTTCTTGCAGGGAATATAAACTGTTTACGCCAAAAAATATTTAATGCTCACTCGA
Found at i:46981669 original size:46 final size:46
Alignment explanation
Indices: 46981587--46981676 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
46981577 TCATTTGTAT
* * *
46981587 AAATTTTAAAACTTTACTATTACGATAAATTCTTTATATATTAAGA
1 AAATTATAAAACTTTACTATCACGATAAATTATTTATATATTAAGA
* * * *
46981633 AAATTATAAAATTTTACTATCAGGGTCAATTATTTATATATTAA
1 AAATTATAAAACTTTACTATCACGATAAATTATTTATATATTAA
46981677 AATTTTGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (46 bp):
AAATTATAAAACTTTACTATCACGATAAATTATTTATATATTAAGA
Found at i:46981841 original size:64 final size:64
Alignment explanation
Indices: 46981773--46981903 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
46981763 GTTCCTATTC
46981773 TAAATTAAATGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
1 TAAATTAAATGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
* *
46981837 TAAATTAAATGATTAAAACTTTATTTTATATTAATATTTCTATGTTTCTCCTAAATTTTATTGT
1 TAAATTAAATGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
46981901 TAA
1 TAA
46981904 GACAATTTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (64 bp):
TAAATTAAATGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
Found at i:46981895 original size:32 final size:32
Alignment explanation
Indices: 46981795--46981897 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
46981785 TTAAAAATTT
*
46981795 ATTTTATATTAATATTTCTATATTTCTCCTAA
1 ATTTTATATTAATATTTCTATGTTTCTCCTAA
* ** **** **
46981827 ATTTTATTGTTAA-A-TTAAATGATTAAAACTTT
1 ATTTTA-TATTAATATTTCTATG-TTTCTCCTAA
46981859 ATTTTATATTAATATTTCTATGTTTCTCCTAA
1 ATTTTATATTAATATTTCTATGTTTCTCCTAA
46981891 ATTTTAT
1 ATTTTAT
46981898 TGTTAAGACA
Statistics
Matches: 48, Mismatches: 19, Indels: 8
0.64 0.25 0.11
Matches are distributed among these distances:
31 9 0.19
32 29 0.60
33 10 0.21
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (32 bp):
ATTTTATATTAATATTTCTATGTTTCTCCTAA
Found at i:46983527 original size:37 final size:37
Alignment explanation
Indices: 46983486--46983597 Score: 99
Period size: 37 Copynumber: 3.0 Consensus size: 37
46983476 ATTTCAAAAA
* *
46983486 TAATA-TTATTTTAATATATTTAATATTAATTTTAAT-T
1 TAATACTTATCTTAATA-ATATAATATTAA-TTTAATAT
* *
46983523 TAATACTTATCTTGATAATATATTATTAATTTAATAT
1 TAATACTTATCTTAATAATATAATATTAATTTAATAT
*
46983560 TAAAGTGAC-TATCTTAATATTA-AAT-TTAATTTAATAT
1 T-AA-T-ACTTATCTTAATAATATAATATTAATTTAATAT
46983597 T
1 T
46983598 TATCTTGTAG
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
36 6 0.10
37 30 0.48
38 13 0.21
39 12 0.19
40 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.53
Consensus pattern (37 bp):
TAATACTTATCTTAATAATATAATATTAATTTAATAT
Found at i:46983581 original size:68 final size:66
Alignment explanation
Indices: 46983503--46983697 Score: 217
Period size: 68 Copynumber: 3.0 Consensus size: 66
46983493 ATTTTAATAT
* *
46983503 ATTTAATATTAATTTTAATTTAATACTTATCTTGATAATATATTATTAATTTAATATTAAAGTGA
1 ATTTAATATTAAATTTAATTTAATATTTATCTTGATAATATATTATTAATTTAATATTAAAGTGA
*
46983568 CT
66 -G
**
46983570 ATCTTAATATTAAATTTAATTTAATATTTATCTTG-TAGATA-AACATT-ATATTAA-ATT-AA-
1 AT-TTAATATTAAATTTAATTTAATATTTATCTTGATA-ATATATTATTAAT-TTAATATTAAAG
46983629 T-AG
63 TGAG
* *
46983632 ATTTAATATTAAATTTAATCTAATATTTATCATGATAAGTAT-TATATTAATTTAATATTAAAGT
1 ATTTAATATTAAATTTAATTTAATATTTATCTTGATAA-TATAT-TATTAATTTAATATTAAAGT
46983696 GA
64 GA
46983698 TTAAGTTTAA
Statistics
Matches: 107, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
61 31 0.29
62 6 0.06
63 8 0.07
64 6 0.06
65 4 0.04
66 6 0.06
67 13 0.12
68 33 0.31
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (66 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTGATAATATATTATTAATTTAATATTAAAGTGA
G
Found at i:46983701 original size:58 final size:59
Alignment explanation
Indices: 46983575--46983708 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 59
46983565 TGACTATCTT
* * *
46983575 AATATTAAATTTAATTTAATATTTATCTTGTAGATAAACATTATATTAAATTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATC-TATAGATAAACATTATATTAAATTAATA-ATTA
** *
46983636 AATATTAAATTTAATCTAATATTTATC-AT-GATAAGTATTATATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTATAGATAAACATTATATTAAATTAATAATTA
*
46983692 AAGTGATTAAGTTTAAT
1 AA-T-ATTAAATTTAAT
46983709 TATAATTGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 31 0.48
59 1 0.02
61 26 0.41
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (59 bp):
AATATTAAATTTAATCTAATATTTATCTATAGATAAACATTATATTAAATTAATAATTA
Found at i:46994042 original size:16 final size:16
Alignment explanation
Indices: 46993990--46994029 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
46993980 TTTTTATTTT
* *
46993990 TATTAAAAAATTATTA
1 TATTAAATAATAATTA
46994006 TATTAAATAATAATTA
1 TATTAAATAATAATTA
46994022 TATTAAAT
1 TATTAAAT
46994030 TATGATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTAAATAATAATTA
Found at i:46994149 original size:44 final size:46
Alignment explanation
Indices: 46994094--46994189 Score: 117
Period size: 44 Copynumber: 2.1 Consensus size: 46
46994084 TATTACAACA
* * *
46994094 TTTATTCTATTCAATCAAACACA-AGAA-TA-TTATTACAATTCTAT
1 TTTATTCTATTCAACCAAACA-ATAGAATTACTGATTACAACTCTAT
* *
46994138 TTTATTTTATTCAACCAAACAATTGAATTACTGATTACAACTCTAT
1 TTTATTCTATTCAACCAAACAATAGAATTACTGATTACAACTCTAT
46994184 TTTATT
1 TTTATT
46994190 ATAGTCTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 2 0.05
46 19 0.43
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.44
Consensus pattern (46 bp):
TTTATTCTATTCAACCAAACAATAGAATTACTGATTACAACTCTAT
Found at i:46995213 original size:18 final size:18
Alignment explanation
Indices: 46995185--46995219 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46995175 CAAAAAATTT
46995185 TAAAAAAAATT-TAAAAA
1 TAAAAAAAATTCTAAAAA
46995202 TAAAATAAAATTCTAAAA
1 TAAAA-AAAATTCTAAAA
46995220 TATATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAAAAATTCTAAAAA
Found at i:46995351 original size:26 final size:28
Alignment explanation
Indices: 46995290--46995351 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
46995280 CAAAAATTCT
**
46995290 AAATTCTAAAATTAATATATATATTTCTA
1 AAATT-TAAAATTAATATATATATTGATA
*
46995319 AACATTTAAAATT-ATATATAT-TTGATG
1 AA-ATTTAAAATTAATATATATATTGATA
46995346 AAATTT
1 AAATTT
46995352 GTCTATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 5 0.17
28 8 0.28
29 9 0.31
30 3 0.10
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (28 bp):
AAATTTAAAATTAATATATATATTGATA
Found at i:46996244 original size:22 final size:22
Alignment explanation
Indices: 46996214--46996255 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
46996204 TGATTTTTGG
46996214 TTTTGGGTGAATGGTTTAGGGT
1 TTTTGGGTGAATGGTTTAGGGT
*
46996236 TTTTTGGTGAATGGTTTAGG
1 TTTTGGGTGAATGGTTTAGG
46996256 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (22 bp):
TTTTGGGTGAATGGTTTAGGGT
Found at i:46996438 original size:95 final size:97
Alignment explanation
Indices: 46996286--46996525 Score: 217
Period size: 98 Copynumber: 2.5 Consensus size: 97
46996276 GGTTTTTAAG
* * * * *
46996286 GTTTAGGGTTTTAAAGAAAAAATTAAA-TAAATAAGGG-ATTAGGGTTTTTCAATTAAATTGATT
1 GTTTAGGTTTTTAAAGAAAAAA-TAAATTAAATTAGGGTA-TAGGATTTTTCAAGTAAATTAATT
* * * * * *
46996349 -A-TAATTTTTTCAAAATT-GTATT-AGGTTTCGT
64 AAGAAAATGTTTAAAAATTAG-ATTAAGATTTAGT
*
46996380 GTTTATGGTTTTTAAAGAAAAAATAAATTAAATTAGGGTATAGGATTTCTT-GAGTAAATTAATT
1 GTTTA-GGTTTTTAAAGAAAAAATAAATTAAATTAGGGTATAGGATTT-TTCAAGTAAATTAATT
46996444 AAGAAAATGTTTAAAAATTAGATTAAGATTTAGT
64 AAGAAAATGTTTAAAAATTAGATTAAGATTTAGT
* * * *
46996478 GTTTAGGGTTTTT-AAGTAAAAACTCAATTAAATTAGGGTTTGGGATTT
1 GTTTA-GGTTTTTAAAG-AAAAAATAAATTAAATTAGGGTATAGGATTT
46996526 AGGGTTACTT
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
94 9 0.08
95 42 0.35
96 4 0.03
97 18 0.15
98 47 0.39
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.41
Consensus pattern (97 bp):
GTTTAGGTTTTTAAAGAAAAAATAAATTAAATTAGGGTATAGGATTTTTCAAGTAAATTAATTAA
GAAAATGTTTAAAAATTAGATTAAGATTTAGT
Found at i:46996796 original size:125 final size:126
Alignment explanation
Indices: 46996557--46997102 Score: 776
Period size: 125 Copynumber: 4.3 Consensus size: 126
46996547 TTGTTAATTT
* * * *
46996557 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATTGCTCCTGAAAAAATAATTTCGAGTAAAC
1 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
46996622 ATTTTTGAGCAAATAAG-GTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
66 ATTTCTGAGCAAAT-AGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
* *
46996683 AAAGAAGCTCTCA-GTGGATGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
46996747 ATTTCTAAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
66 ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
* * * * * * *
46996808 AAAGAAGCTCTCACGTGGACT-CGTTTTTGCTAGAGTAGATCTTGAAAAAATAATTTTGAGTTGA
1 AAAGAAGCTCCCACGTGGA-TGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGA
* * * *
46996872 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGTATGCTTCGTTAGCAAAAGTACTG
65 CATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
*
46996934 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTTGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * *
46996999 GTTTCTGAGCAAAT-GTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTG
66 ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
** * *
46997059 AAAGAAGCTCCCATATGGACGCGTTTTTGCTACAGTAGCTCCTG
1 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCTCCTG
46997103 TTTGGCCTAA
Statistics
Matches: 375, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
124 2 0.01
125 194 0.52
126 178 0.47
127 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
ATTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
Found at i:46997030 original size:251 final size:251
Alignment explanation
Indices: 46996557--46997102 Score: 808
Period size: 251 Copynumber: 2.2 Consensus size: 251
46996547 TTGTTAATTT
* * * *
46996557 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATTGCTCCTGAAAAAATAATTTCGAGTAAAC
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTAAAC
* *
46996622 ATTTTTGAGCAAATAAGGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
66 ATTTCTGAGCAAATAAGGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTGAAAG
*
46996687 AAGCTCTCAGTGGATGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGACATTTC
131 AAGCTCCCAGTGGATGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGACATTTC
* *
46996752 TAAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTG
196 TAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTCGTCAGCAAAAGTACTG
* * * * * **
46996808 AAAGAAGCTCTCACGTGGACTCGTTTTTGCTAGAGTAGATCTTGAAAAAATAATTTTGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTAAAC
* * * *
46996873 GTTTCTGAGCAAAT-AGTGTCAAAAACGCTTTAAGTAGTATGCTTCGTTAGCAAAAGTACTGAAA
66 ATTTCTGAGCAAATAAG-GTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTGAAA
* *
46996937 GAAGCTCCCACGTGGATGCGCTTTTGCTACAGTTGCTCCTGAAAAAATAATTTCGAGTAGACGTT
130 GAAGCTCCCA-GTGGATGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGACATT
* * *
46997002 TCTGAGCAAAT-GTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTG
194 TCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTCGTCAGCAAAAGTACTG
** *
46997059 AAAGAAGCTCCCATATGGACGCGTTTTTGCTACAGTAGCTCCTG
1 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGATCCTG
46997103 TTTGGCCTAA
Statistics
Matches: 261, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
250 2 0.01
251 197 0.75
252 62 0.24
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (251 bp):
AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTAAAC
ATTTCTGAGCAAATAAGGTCAAAAACGCTTTAAGCAGGATGCTTCGTCAGCAAAAGTACTGAAAG
AAGCTCCCAGTGGATGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGACATTTC
TAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTCGTCAGCAAAAGTACTG
Found at i:47000191 original size:38 final size:38
Alignment explanation
Indices: 47000149--47000229 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
47000139 AAAGAAAATC
*
47000149 TATTCTATTAAAAATATTAAAGTAAATTACAATTACTT
1 TATTCTATTAAAAATATTAAAATAAATTACAATTACTT
47000187 TATTCTATTAAAAATATTAAAATAAATTACAATTACTT
1 TATTCTATTAAAAATATTAAAATAAATTACAATTACTT
47000225 TATTC
1 TATTC
47000230 AAAACTTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (38 bp):
TATTCTATTAAAAATATTAAAATAAATTACAATTACTT
Found at i:47000559 original size:21 final size:22
Alignment explanation
Indices: 47000533--47000584 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
47000523 GCTCCGACGA
47000533 GATTCTGGTTCCTCCGGT-GGG
1 GATTCTGGTTCCTCCGGTAGGG
*
47000554 GATTCTGGTTCTTCCGGTAGGG
1 GATTCTGGTTCCTCCGGTAGGG
47000576 GA-TCTGGTT
1 GATTCTGGTT
47000585 GTCGGTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.08, C:0.19, G:0.37, T:0.37
Consensus pattern (22 bp):
GATTCTGGTTCCTCCGGTAGGG
Found at i:47000852 original size:18 final size:18
Alignment explanation
Indices: 47000826--47000868 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
47000816 GACTACAAAA
* *
47000826 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
47000844 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
47000862 AGGATAC
1 AGGATAC
47000869 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:47002702 original size:29 final size:29
Alignment explanation
Indices: 47002665--47002721 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
47002655 TTAAAAAAAT
*
47002665 AAAATTTAAAACTTTTTTAAAAATAATTA
1 AAAAATTAAAACTTTTTTAAAAATAATTA
*
47002694 AAAAATTAAAGCTTTTTTAAAAATAATT
1 AAAAATTAAAACTTTTTTAAAAATAATT
47002722 TGAGAGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAAATTAAAACTTTTTTAAAAATAATTA
Found at i:47002755 original size:33 final size:33
Alignment explanation
Indices: 47002718--47002781 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
47002708 TTTTAAAAAT
47002718 AATTTGAGAGGAA-ATT-GAGAGGAAATTGAGAAG
1 AATTTGAGA-GAATATTAGAGA-GAAATTGAGAAG
*
47002751 AATTTGAGAGAATATTAGAGAGAATTTGAGA
1 AATTTGAGAGAATATTAGAGAGAAATTGAGA
47002782 GAAAGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 3 0.11
33 21 0.75
34 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (33 bp):
AATTTGAGAGAATATTAGAGAGAAATTGAGAAG
Found at i:47002773 original size:12 final size:10
Alignment explanation
Indices: 47002718--47002784 Score: 71
Period size: 11 Copynumber: 6.2 Consensus size: 10
47002708 TTTTAAAAAT
47002718 AATTTGAGAGG
1 AATTTGAGA-G
*
47002729 AAATTGAGAGG
1 AATTTGAGA-G
*
47002740 AAATTGAGAAG
1 AATTTGAG-AG
47002751 AATTTGAGAG
1 AATTTGAGAG
47002761 AATATTAGAGAG
1 AAT-TT-GAGAG
47002773 AATTTGAGAG
1 AATTTGAGAG
47002783 AA
1 AA
47002785 AGGATTTAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
10 12 0.24
11 30 0.59
12 9 0.18
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:47009883 original size:14 final size:14
Alignment explanation
Indices: 47009846--47009891 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
47009836 TTATAAATGA
47009846 AATTAGAATTGATTT
1 AATTAGAATT-ATTT
47009861 -ATGTA-AATTATTT
1 AAT-TAGAATTATTT
*
47009874 AATTAGAATTAATT
1 AATTAGAATTATTT
47009888 AATT
1 AATT
47009892 TTTGGAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 6 0.22
14 19 0.70
15 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (14 bp):
AATTAGAATTATTT
Found at i:47011243 original size:11 final size:12
Alignment explanation
Indices: 47011215--47011247 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
47011205 TTGCCCATCT
47011215 TTTTATATATTTG
1 TTTTATA-ATTTG
47011228 TTTTATAATTTG
1 TTTTATAATTTG
47011240 -TTTATAAT
1 TTTTATAAT
47011248 CTTTATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 5 0.25
13 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TTTTATAATTTG
Found at i:47015494 original size:25 final size:24
Alignment explanation
Indices: 47015448--47015499 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
47015438 TGGCCACACC
* **
47015448 CTCGATAGTCACATGATTGTGTCT
1 CTCGATAGTCACACGACCGTGTCT
*
47015472 CTCGCATAGTCACACGACCGTGTGT
1 CTCG-ATAGTCACACGACCGTGTCT
47015497 CTC
1 CTC
47015500 ACATGGCTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (24 bp):
CTCGATAGTCACACGACCGTGTCT
Found at i:47022458 original size:33 final size:34
Alignment explanation
Indices: 47022395--47022458 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
47022385 TAACAATAAG
*
47022395 TTATTCCAACAATTAAATAAACTAAGATAAGCAT
1 TTATTCCAACAATTAAATAAACTAAAATAAGCAT
* * *
47022429 TTATTCTAGCAATT-AATTAACTAAAATAAG
1 TTATTCCAACAATTAAATAAACTAAAATAAG
47022459 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (34 bp):
TTATTCCAACAATTAAATAAACTAAAATAAGCAT
Found at i:47023806 original size:92 final size:92
Alignment explanation
Indices: 47023649--47023835 Score: 320
Period size: 92 Copynumber: 2.0 Consensus size: 92
47023639 TCCTTGTATG
*
47023649 GAAAAAGCTATAACAATGTATTGTGATAACGGTGCAGCAATAACTAATACCAAGAAAATAAGAAG
1 GAAAAAGCTATAACAATGTATTGTGATAACAGTGCAGCAATAACTAATACCAAGAAAATAAGAAG
47023714 TCACAAGAGAACCAAACATATTGACCA
66 TCACAAGAGAACCAAACATATTGACCA
* * * *
47023741 GAAAAAGCTATAACAATGTATTGTGATAATAGTGCTGTAATAACTAATACCAAGGAAATAAGAAG
1 GAAAAAGCTATAACAATGTATTGTGATAACAGTGCAGCAATAACTAATACCAAGAAAATAAGAAG
*
47023806 TCACAAGAGGACCAAACATATTGACCA
66 TCACAAGAGAACCAAACATATTGACCA
47023833 GAA
1 GAA
47023836 GTATTACTTG
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (92 bp):
GAAAAAGCTATAACAATGTATTGTGATAACAGTGCAGCAATAACTAATACCAAGAAAATAAGAAG
TCACAAGAGAACCAAACATATTGACCA
Found at i:47024134 original size:15 final size:15
Alignment explanation
Indices: 47024114--47024143 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47024104 TTCACTATTA
*
47024114 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
47024129 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
47024144 GCATGCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:47025798 original size:20 final size:20
Alignment explanation
Indices: 47025775--47025812 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
47025765 TTTTATTAAT
47025775 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
47025795 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
47025813 AGTTTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:47030945 original size:13 final size:12
Alignment explanation
Indices: 47030929--47030978 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
47030919 TTTAAACTAA
47030929 ACTTTTCAAAAGC
1 ACTTTTCAAAA-C
*
47030942 ACTTCTCAATAAC
1 ACTTTTCAA-AAC
*
47030955 ACTTTTCCACAAC
1 ACTTTT-CAAAAC
47030968 ACTTTTCAAAA
1 ACTTTTCAAAA
47030979 GTATTGCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 4 0.13
13 23 0.74
14 4 0.13
ACGTcount: A:0.38, C:0.28, G:0.02, T:0.32
Consensus pattern (12 bp):
ACTTTTCAAAAC
Found at i:47034143 original size:6 final size:6
Alignment explanation
Indices: 47034132--47034159 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
47034122 AAGAGTAATC
47034132 ATTAAA ATTAAA ATTAAA ATTAAA ATTA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTA
47034160 TTAATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATTAAA
Found at i:47035010 original size:14 final size:15
Alignment explanation
Indices: 47034991--47035028 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
47034981 TCAGTCAAAT
47034991 TTTCTTTTTCTTTC-
1 TTTCTTTTTCTTTCA
*
47035005 TTTCTTTTTGTTTCA
1 TTTCTTTTTCTTTCA
47035020 GTTTCTTTT
1 -TTTCTTTT
47035029 ATATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTCTTTTTCTTTCA
Found at i:47037746 original size:19 final size:19
Alignment explanation
Indices: 47037724--47037761 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47037714 AATAATTTTT
47037724 AAAAATTGGAAAAAAATTA
1 AAAAATTGGAAAAAAATTA
*
47037743 AAAAGTTGGAAAAAAATTA
1 AAAAATTGGAAAAAAATTA
47037762 GTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (19 bp):
AAAAATTGGAAAAAAATTA
Found at i:47038738 original size:10 final size:9
Alignment explanation
Indices: 47038723--47038780 Score: 53
Period size: 10 Copynumber: 6.0 Consensus size: 9
47038713 TTTAAAAAAA
47038723 TTACAATCTT
1 TTACAAT-TT
47038733 TTACAATTT
1 TTACAATTT
* *
47038742 CTAATAATTT
1 -TTACAATTT
*
47038752 TTATAATTT
1 TTACAATTT
47038761 CTTACAATATT
1 -TTACAAT-TT
47038772 TTACAATTT
1 TTACAATTT
47038781 CTATTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 12 0.29
10 27 0.66
11 2 0.05
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (9 bp):
TTACAATTT
Done.