Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 90 of 203
Found at i:28496853 original size:54 final size:54
Alignment explanation
Indices: 28496788--28496901 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
28496778 TCACTTTCTG
* * * * *
28496788 GATTTTTCGAATCTCAT-GATTTGTTGATTTACGATCATGATCTTTTACTTATGA
1 GATTTTACGAATCTCATAG-TTTGCTGATTTACGATCACGATCATTTACTTAAGA
* * *
28496842 GATTTTACGAATCTCGTAGTTTGCTGATTTACGATGACGATCATTTACTTAAGG
1 GATTTTACGAATCTCATAGTTTGCTGATTTACGATCACGATCATTTACTTAAGA
28496896 GATTTT
1 GATTTT
28496902 GTGAGGCTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 50 0.98
55 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.45
Consensus pattern (54 bp):
GATTTTACGAATCTCATAGTTTGCTGATTTACGATCACGATCATTTACTTAAGA
Found at i:28497172 original size:54 final size:54
Alignment explanation
Indices: 28497103--28497211 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
28497093 GATCTAGCAA
* * * *
28497103 TCTGCTAATTTACGATAATGACCTT-TTAGTTATGGGATTTTACAAATATCACGG
1 TCTGCTAATTCACGATAACGACCTTCTT-CTTATGAGATTTTACAAATATCACGG
* * *
28497157 TCTGCTAATTCACGATGACGACCTTCTTCTTATGAGATTTTACGAATCTCACGG
1 TCTGCTAATTCACGATAACGACCTTCTTCTTATGAGATTTTACAAATATCACGG
28497211 T
1 T
28497212 TCGCTGATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 45 0.96
55 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (54 bp):
TCTGCTAATTCACGATAACGACCTTCTTCTTATGAGATTTTACAAATATCACGG
Found at i:28497748 original size:54 final size:54
Alignment explanation
Indices: 28497588--28497847 Score: 187
Period size: 54 Copynumber: 4.8 Consensus size: 54
28497578 GCGCGGTCCA
* * * * **
28497588 CTAATTTATGATGATGACCTTTTACTTATGAGATTTTATGAATCTCGCGGTTAG
1 CTAATTTATGATCATGACCTTTTACTTATGGGATTTTATGAATCTCACGATCCG
* * * * * *
28497642 CTCATTTACGATGACGACCTTTTACATATGGGACTTTATGAATCTCACGATCCG
1 CTAATTTATGATCATGACCTTTTACTTATGGGATTTTATGAATCTCACGATCCG
* ** * *
28497696 CTAATTTATGATCATGACTTTTTACTTATGGGATTTTACAAATATCACGATCCA
1 CTAATTTATGATCATGACCTTTTACTTATGGGATTTTATGAATCTCACGATCCG
* * ** * * **** ** * *
28497750 TTGATTTATGATCACAACCTTCTAGTTACAATATTTTATGAATCTCGTGTTTCG
1 CTAATTTATGATCATGACCTTTTACTTATGGGATTTTATGAATCTCACGATCCG
* ** * * *
28497804 CTGATTTACAATCATGACCTTCTACTTATAGGATTTTAAGAATC
1 CTAATTTATGATCATGACCTTTTACTTATGGGATTTTATGAATC
28497848 ACGTGGTTCG
Statistics
Matches: 156, Mismatches: 50, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 156 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (54 bp):
CTAATTTATGATCATGACCTTTTACTTATGGGATTTTATGAATCTCACGATCCG
Found at i:28498464 original size:54 final size:54
Alignment explanation
Indices: 28498183--28498465 Score: 230
Period size: 54 Copynumber: 5.2 Consensus size: 54
28498173 TACATCCGAA
* * * *
28498183 ATTTTACGAATCTTACGGTCCGCTGATTTATGATCATGACTTTCTACTTACGGG
1 ATTTTACGAATCTCACGGTCCGCTGATTTATGATCACGACCTTCTACTTACGTG
* * * * * * *
28498237 ATTTTACAAATATCACGGTCTGCTAATTTATGATCACAACCTACTATTTACAG-G
1 ATTTTACGAATCTCACGGTCCGCTGATTTATGATCACGACCTTCTACTTAC-GTG
* * *** * *
28498291 ATTCTATGAATCTTGTGATCCACTGATTTATGATCACGACCTTCTACTTACGTG
1 ATTTTACGAATCTCACGGTCCGCTGATTTATGATCACGACCTTCTACTTACGTG
* ** * * * ** * *
28498345 GTTTTAAAAATCTCACGGTCTGTTCATTTACAATCACGACCTTTTACTTA-TTAG
1 ATTTTACGAATCTCACGGTCCGCTGATTTATGATCACGACCTTCTACTTACGT-G
* * * *
28498399 TTTTTGA-GAATCTCGCGGTCCACTGATTTATGATCACGACCTACTACTTACGTG
1 ATTTT-ACGAATCTCACGGTCCGCTGATTTATGATCACGACCTTCTACTTACGTG
28498453 ATTTTACGAATCT
1 ATTTTACGAATCT
28498466 AGACGTGTTG
Statistics
Matches: 170, Mismatches: 53, Indels: 12
0.72 0.23 0.05
Matches are distributed among these distances:
53 3 0.02
54 164 0.96
55 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (54 bp):
ATTTTACGAATCTCACGGTCCGCTGATTTATGATCACGACCTTCTACTTACGTG
Found at i:28498465 original size:108 final size:107
Alignment explanation
Indices: 28498154--28498465 Score: 329
Period size: 108 Copynumber: 2.9 Consensus size: 107
28498144 GCTTTAGTTG
* * * * *
28498154 ATTTACAATCACGACCTTTTACATCCGAAATTTTACGAATCTTACGGTCCGCTGATTTATGATCA
1 ATTTACAATCACGACCTTTTACTTAC-AGATTTTACGAATCTTGCGGTCCACTGATTTATGATCA
* * * *
28498219 TGACTTTCTACTTACGGGATTTTACAAATATCACGGTCTGCTA
65 CGACCTTCTACTTACGTGATTTTACAAATCTCACGGTCTGCTA
** * ** * * * * *
28498262 ATTTATGATCACAACCTACTATTTACAGGATTCTATGAATCTTGTGATCCACTGATTTATGATCA
1 ATTTACAATCACGACCTTTTACTTACA-GATTTTACGAATCTTGCGGTCCACTGATTTATGATCA
* * * *
28498327 CGACCTTCTACTTACGTGGTTTTAAAAATCTCACGGTCTGTTC
65 CGACCTTCTACTTACGTGATTTTACAAATCTCACGGTCTGCTA
* * *
28498370 ATTTACAATCACGACCTTTTACTTATTAGTTTTTGA-GAATCTCGCGGTCCACTGATTTATGATC
1 ATTTACAATCACGACCTTTTACTTA-CAGATTTT-ACGAATCTTGCGGTCCACTGATTTATGATC
* *
28498434 ACGACCTACTACTTACGTGATTTTACGAATCT
64 ACGACCTTCTACTTACGTGATTTTACAAATCT
28498466 AGACGTGTTG
Statistics
Matches: 162, Mismatches: 39, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
107 1 0.01
108 159 0.98
109 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (107 bp):
ATTTACAATCACGACCTTTTACTTACAGATTTTACGAATCTTGCGGTCCACTGATTTATGATCAC
GACCTTCTACTTACGTGATTTTACAAATCTCACGGTCTGCTA
Found at i:28499616 original size:54 final size:53
Alignment explanation
Indices: 28499558--28499740 Score: 197
Period size: 54 Copynumber: 3.4 Consensus size: 53
28499548 TACGATAATG
* * * * *
28499558 ACCTTCTACTTAAGAGATTTTGCGAATCTCACGGTCTACTAATTTACAATGAGA
1 ACCTTCTACTTAAGAGATTTTACGAATCT-ACGGTCTACTGATTTACGATCACA
* *
28499612 ACCTTTTACTTATAG-GATTTTACGAATCTATCGGTCCACTGATTTACGATCACA
1 ACCTTCTACTTA-AGAGATTTTACGAATCTA-CGGTCTACTGATTTACGATCACA
* * * ** *
28499666 ACCTTCTACTTAAGGGATTTTATGGATCTTGTGGTCTGCTGATTTACGATCACA
1 ACCTTCTACTTAAGAGATTTTACGAATC-TACGGTCTACTGATTTACGATCACA
*
28499720 ACCTTCTACTTACGAGATTTT
1 ACCTTCTACTTAAGAGATTTT
28499741 GTAAATCTTG
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 3 0.03
54 103 0.94
55 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (53 bp):
ACCTTCTACTTAAGAGATTTTACGAATCTACGGTCTACTGATTTACGATCACA
Found at i:28499739 original size:108 final size:107
Alignment explanation
Indices: 28499489--28499740 Score: 245
Period size: 108 Copynumber: 2.3 Consensus size: 107
28499479 AAGCATGAGT
* * * *
28499489 TGATTTAAAATCACGACCTTCTACTTTCAGTATTTTACAAATCACATGGTCCGCTGACTTACGAT
1 TGATTTACAATCACAACCTTCTACTTACAG-ATTTTACAAATCACATGGTCCACTGACTTACGAT
** *
28499554 AATGACCTTCTACTTAAGAGATTTTGCGAATCTCACGGTCTAC
65 AACAACCTTCTACTTAAGAGATTTTACGAATCTCACGGTCTAC
* * * * * * * *
28499597 TAATTTACAATGAGAACCTTTTACTTATAGGATTTTACGAATC-TATCGGTCCACTGATTTACGA
1 TGATTTACAATCACAACCTTCTACTTACA-GATTTTACAAATCACAT-GGTCCACTGACTTACGA
* * * * *** *
28499661 TCACAACCTTCTACTTAAGGGATTTTATGGATCTTGTGGTCTGC
64 TAACAACCTTCTACTTAAGAGATTTTACGAATCTCACGGTCTAC
*
28499705 TGATTTACGATCACAACCTTCTACTTACGAGATTTT
1 TGATTTACAATCACAACCTTCTACTTAC-AGATTTT
28499741 GTAAATCTTG
Statistics
Matches: 112, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
107 2 0.02
108 108 0.96
109 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (107 bp):
TGATTTACAATCACAACCTTCTACTTACAGATTTTACAAATCACATGGTCCACTGACTTACGATA
ACAACCTTCTACTTAAGAGATTTTACGAATCTCACGGTCTAC
Found at i:28499749 original size:54 final size:54
Alignment explanation
Indices: 28499650--28499766 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 54
28499640 TATCGGTCCA
* ** **
28499650 CTGATTTACGATCACAACCTTCTACTTAAGGGATTTTATGGATCTTGTGGTCTG
1 CTGATTTACGATCACAACCTTCTACTTAAGAGATTTTATAAATCTTGCAGTCTG
* *
28499704 CTGATTTACGATCACAACCTTCTACTTACGAGATTTTGTAAATCTTGCAGTCTG
1 CTGATTTACGATCACAACCTTCTACTTAAGAGATTTTATAAATCTTGCAGTCTG
*
28499758 TTGATTTAC
1 CTGATTTAC
28499767 AATTACGACA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (54 bp):
CTGATTTACGATCACAACCTTCTACTTAAGAGATTTTATAAATCTTGCAGTCTG
Found at i:28500137 original size:54 final size:54
Alignment explanation
Indices: 28500047--28500199 Score: 200
Period size: 54 Copynumber: 2.9 Consensus size: 54
28500037 AAAGCTTCAA
* * * * **
28500047 TTGATTTACAATCACG-CATTTTACTTACGAGATTTTATGAATCTAACAGTCTT
1 TTGATTTACGATCACGACCTTTTACTTACGTGATTTTACGAATCTAACAGTCCG
* * *
28500100 TTGATTTACGATCACGACCTTCTACTTACGTGATTTTACGAATCTTACGGTCCG
1 TTGATTTACGATCACGACCTTTTACTTACGTGATTTTACGAATCTAACAGTCCG
* *
28500154 TTGATTTACGATCACAACCTTTTACTTATGTGATTTTACGAATCTA
1 TTGATTTACGATCACGACCTTTTACTTACGTGATTTTACGAATCTA
28500200 GGCATGTTGA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 15 0.17
54 71 0.83
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (54 bp):
TTGATTTACGATCACGACCTTTTACTTACGTGATTTTACGAATCTAACAGTCCG
Found at i:28500420 original size:396 final size:397
Alignment explanation
Indices: 28499704--28500588 Score: 1104
Period size: 397 Copynumber: 2.2 Consensus size: 397
28499694 TTGTGGTCTG
* *** * * *
28499704 CTGATTTACGATCACAACCTTCTACTTACGAGATTTTGTAAATCTTGCAGTCTGTTGATTTACAA
1 CTGATTTACGATCACGACCTTCTACTTACGAGATTTTACGAATCTTGCGGTCCGTTGATTTACGA
* * * * * * *
28499769 TTACGACATTATACTTATATGATTTTACGGATCTAGACGTGTTGAGGAAGAACTTAAAATCGACC
66 TCACAACCTTATACTTATGTGATTTTACGAATCTAGACATGTTGAGGAAGAACTCAAAATCGACC
* * * * * * *
28499834 TCTTTGCCTTTAAAGCAAGTTAGATGCTAGAGATGATGAATATAAGGGTGTTGAGAATGAATTCA
131 ACTCTGCCTTTAAAGCAAGTTAAATGCTAGAAATGATGAATATAAAGGTGTTGAGAATAAACTCA
* *
28499899 AAACTGACCATGAAAGATGGATGATAGAGGAATTAATTTTGTTAAATTGCCTTTGTGATGCTGAA
196 AAACTGACCATGAAAGATGGAGGATAGAGGAATTAATTTTGTTAAATTACCTTTGTGATGCTGAA
* * * * *
28499964 GCTAGTTTTCTTCACCATAGGTCTGTAGTAAGGCTTGAAATGGATCAATCTACTAAAAAAAGTAA
261 GCTAGTTCTCTTCACCATACGTCTGAAATAAGGCTTGAAATGGATCAATCTACTAAAAAAAGGAA
* *
28500029 CTTTTTAAAAAGCTTCAATTGATTTACAATCA-CGCATTTTACTTACGAGATTTTATGAATCTAA
326 CTCTTTAAAAAGCTTCAATTGATTTACAATCATCACATTTTACTTACGAGATTTTATGAATCTAA
**
28500093 CAGTCTT
391 CAGTCCA
* * *
28500100 TTGATTTACGATCACGACCTTCTACTTACGTGATTTTACGAATCTTACGGTCCGTTGATTTACGA
1 CTGATTTACGATCACGACCTTCTACTTACGAGATTTTACGAATCTTGCGGTCCGTTGATTTACGA
* * *
28500165 TCACAACCTTTTACTTATGTGATTTTACGAATCTAGGCATGTTGAGGATGAACTCAAAA-CTGAC
66 TCACAACCTTATACTTATGTGATTTTACGAATCTAGACATGTTGAGGAAGAACTCAAAATC-GAC
* *
28500229 CACTCTGCCTTTCAGAA-CAAGTTAAATGCTAGAAATGATGACTATAAATGTGTTGAGGAA-AAA
130 CACTCTGCCTTT-A-AAGCAAGTTAAATGCTAGAAATGATGAATATAAAGGTGTTGA-GAATAAA
* * * *
28500292 CTCAAAACTGACCTTG-AA-A-GGAGGATAGCGGAATTAATTTTGTTATATTACCTTTGTGA-GG
192 CTCAAAACTGACCATGAAAGATGGAGGATAGAGGAATTAATTTTGTTAAATTACCTTTGTGATGC
* ** *
28500353 TAGAAGCTAGTTCTCTTCACCATACGTCTGAAATGAGGCTTGAAATGGATTGATCTGCTCAAAAA
257 T-GAAGCTAGTTCTCTTCACCATACGTCTGAAATAAGGCTTGAAATGGATCAATCTACT--AAAA
* * * * *
28500418 AAAGGAACTCTTTCAAAAGCTTCAGTTGATTTACAATCATTACCTTTTACTTACGGGATTTTATG
319 AAAGGAACTCTTTAAAAAGCTTCAATTGATTTACAATCATCACATTTTACTTACGAGATTTTATG
*
28500483 AATCTAGCAGTCCA
384 AATCTAACAGTCCA
* * * *
28500497 CTGATTTACGATCATGACCTTCTACTTACGAGATTTTACGAATCTCGTGGTCCGTTGATTTATGA
1 CTGATTTACGATCACGACCTTCTACTTACGAGATTTTACGAATCTTGCGGTCCGTTGATTTACGA
*
28500562 TCACAACCTTCTACTTATG-GTATTTTA
66 TCACAACCTTATACTTATGTG-ATTTTA
28500589 TAAATCTCGT
Statistics
Matches: 418, Mismatches: 62, Indels: 17
0.84 0.12 0.03
Matches are distributed among these distances:
393 2 0.00
394 85 0.20
395 2 0.00
396 159 0.38
397 165 0.39
398 5 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (397 bp):
CTGATTTACGATCACGACCTTCTACTTACGAGATTTTACGAATCTTGCGGTCCGTTGATTTACGA
TCACAACCTTATACTTATGTGATTTTACGAATCTAGACATGTTGAGGAAGAACTCAAAATCGACC
ACTCTGCCTTTAAAGCAAGTTAAATGCTAGAAATGATGAATATAAAGGTGTTGAGAATAAACTCA
AAACTGACCATGAAAGATGGAGGATAGAGGAATTAATTTTGTTAAATTACCTTTGTGATGCTGAA
GCTAGTTCTCTTCACCATACGTCTGAAATAAGGCTTGAAATGGATCAATCTACTAAAAAAAGGAA
CTCTTTAAAAAGCTTCAATTGATTTACAATCATCACATTTTACTTACGAGATTTTATGAATCTAA
CAGTCCA
Found at i:28500519 original size:397 final size:396
Alignment explanation
Indices: 28499651--28500588 Score: 1118
Period size: 396 Copynumber: 2.4 Consensus size: 396
28499641 ATCGGTCCAC
* * * * * ** *
28499651 TGATTTACGATCACAACCTTCTACTTAAGGGATTTTATGGATCTTGTGGTCTGCTGATTTACGAT
1 TGATTTACAATCA-AACCTTTTACTTACGGGATTTTATGAATCTAGCAGTCTACTGATTTACGAT
* *** * * * * * *
28499716 CACAACCTTCTACTTACGAGATTTTGTAAATCTTGCAGTCTGTTGATTTACAATTACGACATTAT
65 CACGACCTTCTACTTACGAGATTTTACGAATCTTGCGGTCCGTTGATTTACGATCACAACCTTAT
* * * * * *
28499781 ACTTATATGATTTTACGGATCTAGACGTGTTGAGGAAGAACTTAAAATCGACCTCTTTGCCTTTA
130 ACTTATGTGATTTTACGAATCTAGACATGTTGAGGAAGAACTCAAAATCGACCACTCTGCCTTTA
* * * * *
28499846 AAGCAAGTTAGATGCTAGAGATGATGAATATAAGGGTGTTGAGAATGAATTCAAAACTGACCATG
195 AAGCAAGTTAAATGCTAGAAATGATGAATATAAAGGTGTTGAGAATAAACTCAAAACTGACCATG
* * *
28499911 AAAGATGGATGATAGAGGAATTAATTTTGTTAAATTGCCTTTGTGATGCTGAAGCTAGTTTTCTT
260 AAAGATGGAGGATAGAGGAATTAATTTTGTTAAATTACCTTTGTGATGCTGAAGCTAGTTCTCTT
* * * * *
28499976 CACCATAGGTCTGTAGTAAGGCTTGAAATGGATCAATCTACTAAAAAAAGTAACTTTTTAAAAAG
325 CACCATACGTCTGAAATAAGGCTTGAAATGGATCAATCTACTAAAAAAAGGAACTCTTTAAAAAG
28500041 CTTCAAT
390 CTTCAAT
** * * * **
28500048 TGATTTACAATCACGCATTTTACTTACGAGATTTTATGAATCTAACAGTCTTTTGATTTACGATC
1 TGATTTACAATCAAACCTTTTACTTACGGGATTTTATGAATCTAGCAGTCTACTGATTTACGATC
* * *
28500113 ACGACCTTCTACTTACGTGATTTTACGAATCTTACGGTCCGTTGATTTACGATCACAACCTTTTA
66 ACGACCTTCTACTTACGAGATTTTACGAATCTTGCGGTCCGTTGATTTACGATCACAACCTTATA
* *
28500178 CTTATGTGATTTTACGAATCTAGGCATGTTGAGGATGAACTCAAAA-CTGACCACTCTGCCTTTC
131 CTTATGTGATTTTACGAATCTAGACATGTTGAGGAAGAACTCAAAATC-GACCACTCTGCCTTT-
* *
28500242 AGAA-CAAGTTAAATGCTAGAAATGATGACTATAAATGTGTTGAGGAA-AAACTCAAAACTGACC
194 A-AAGCAAGTTAAATGCTAGAAATGATGAATATAAAGGTGTTGA-GAATAAACTCAAAACTGACC
* * * *
28500305 TTG-AA-A-GGAGGATAGCGGAATTAATTTTGTTATATTACCTTTGTGA-GGTAGAAGCTAGTTC
257 ATGAAAGATGGAGGATAGAGGAATTAATTTTGTTAAATTACCTTTGTGATGCT-GAAGCTAGTTC
* ** *
28500366 TCTTCACCATACGTCTGAAATGAGGCTTGAAATGGATTGATCTGCTCAAAAAAAAGGAACTCTTT
321 TCTTCACCATACGTCTGAAATAAGGCTTGAAATGGATCAATCTACT--AAAAAAAGGAACTCTTT
* *
28500431 CAAAAGCTTCAGT
384 AAAAAGCTTCAAT
* *
28500444 TGATTTACAATCATTACCTTTTACTTACGGGATTTTATGAATCTAGCAGTCCACTGATTTACGAT
1 TGATTTACAATCA-AACCTTTTACTTACGGGATTTTATGAATCTAGCAGTCTACTGATTTACGAT
* * * * *
28500509 CATGACCTTCTACTTACGAGATTTTACGAATCTCGTGGTCCGTTGATTTATGATCACAACCTTCT
65 CACGACCTTCTACTTACGAGATTTTACGAATCTTGCGGTCCGTTGATTTACGATCACAACCTTAT
28500574 ACTTATG-GTATTTTA
130 ACTTATGTG-ATTTTA
28500589 TAAATCTCGT
Statistics
Matches: 457, Mismatches: 75, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
393 2 0.00
394 85 0.19
395 2 0.00
396 186 0.41
397 177 0.39
398 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (396 bp):
TGATTTACAATCAAACCTTTTACTTACGGGATTTTATGAATCTAGCAGTCTACTGATTTACGATC
ACGACCTTCTACTTACGAGATTTTACGAATCTTGCGGTCCGTTGATTTACGATCACAACCTTATA
CTTATGTGATTTTACGAATCTAGACATGTTGAGGAAGAACTCAAAATCGACCACTCTGCCTTTAA
AGCAAGTTAAATGCTAGAAATGATGAATATAAAGGTGTTGAGAATAAACTCAAAACTGACCATGA
AAGATGGAGGATAGAGGAATTAATTTTGTTAAATTACCTTTGTGATGCTGAAGCTAGTTCTCTTC
ACCATACGTCTGAAATAAGGCTTGAAATGGATCAATCTACTAAAAAAAGGAACTCTTTAAAAAGC
TTCAAT
Found at i:28500526 original size:54 final size:54
Alignment explanation
Indices: 28500444--28500651 Score: 218
Period size: 54 Copynumber: 3.9 Consensus size: 54
28500434 AAGCTTCAGT
* * * * **
28500444 TGATTTACAATCATTACCTTTTACTTACGGGATTTTATGAATCTAGCAGTCCAC
1 TGATTTACGATCATAACCTTCTACTTACGGGATTTTACGAATCTAGTGGTCCAC
* * * **
28500498 TGATTTACGATCATGACCTTCTACTTACGAGATTTTACGAATCTCGTGGTCCGT
1 TGATTTACGATCATAACCTTCTACTTACGGGATTTTACGAATCTAGTGGTCCAC
* * * * ** *
28500552 TGATTTATGATCACAACCTTCTACTTATGGTATTTTATAAATCTCGTGGTCCAC
1 TGATTTACGATCATAACCTTCTACTTACGGGATTTTACGAATCTAGTGGTCCAC
* * * *
28500606 TTATTTACGATCATAACCTTCTAATTCCAGGATTTTACGAATCTAG
1 TGATTTACGATCATAACCTTCTACTTACGGGATTTTACGAATCTAG
28500652 GCATGTTGAG
Statistics
Matches: 123, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (54 bp):
TGATTTACGATCATAACCTTCTACTTACGGGATTTTACGAATCTAGTGGTCCAC
Found at i:28501053 original size:54 final size:53
Alignment explanation
Indices: 28500914--28501053 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 53
28500904 TTACTATCAC
* * * *
28500914 GACCTATTACTT-TCGGTATTTTACGAATCTCACGGTCCACTGATTTACGATGAA
1 GACCTTTTACTTAT-GG-ATTTTACGAATCTCGCAGTCCACTGATTTACAATGAA
* * * * *
28500968 AATCTTCTACTTATGAGATTTTACGAATCTCGCAGTCTATTGATTTACAATGAA
1 GACCTTTTACTTATG-GATTTTACGAATCTCGCAGTCCACTGATTTACAATGAA
*
28501022 GACCTTTTACTTATAGGATTTTAAGAATCTCG
1 GACCTTTTACTTAT-GGATTTTACGAATCTCG
28501054 TGGTCCTTTG
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
54 67 0.96
55 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (53 bp):
GACCTTTTACTTATGGATTTTACGAATCTCGCAGTCCACTGATTTACAATGAA
Found at i:28501134 original size:108 final size:108
Alignment explanation
Indices: 28500902--28501166 Score: 239
Period size: 108 Copynumber: 2.5 Consensus size: 108
28500892 GCATCAATTA
* * * * * * *
28500902 ATTTACTATCACGACCTATTACTT-TCGGTATTTTACGAATCTCACGGTCCACTGATTTACGATG
1 ATTTACAATCACGACCTTTTACTTATAGG-ATTTTAAGAATCTCATGGTCCACTGAATTACGATC
*
28500966 AAAATCTTCTACTTATGAGATTTTACGAATCTCGCAGTCTATTG
65 AAAATCTTCTACTTATGAGATTTTACGAATCTCGCAGTCCATTG
* * * **
28501010 ATTTACAATGAAGACCTTTTACTTATAGGATTTTAAGAATCTCGTGGTCCTTTGAATTACGATCA
1 ATTTACAATCACGACCTTTTACTTATAGGATTTTAAGAATCTCATGGTCCACTGAATTACGATCA
* * * * * * * * *
28501075 CAA-CTGTCTATTTATGGGATTTTATGGATCTTGCGGTCCGTTT
66 AAATCT-TCTACTTATGAGATTTTACGAATCTCGCAGTCCATTG
* * * * *
28501118 ATTTACGATCACGACCTTCTT-CTTACAAGATTTCATGAATCTCATGGTC
1 ATTTACAATCACGACCTT-TTACTTATAGGATTTTAAGAATCTCATGGTC
28501167 TGCTGATTTT
Statistics
Matches: 124, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
107 2 0.02
108 117 0.94
109 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (108 bp):
ATTTACAATCACGACCTTTTACTTATAGGATTTTAAGAATCTCATGGTCCACTGAATTACGATCA
AAATCTTCTACTTATGAGATTTTACGAATCTCGCAGTCCATTG
Found at i:28501950 original size:54 final size:53
Alignment explanation
Indices: 28501885--28502214 Score: 202
Period size: 54 Copynumber: 6.1 Consensus size: 53
28501875 CACAACCTAT
* *
28501885 TACTTACAGGATTTTACGAATCTCAATATCTGCTGATTTACGATGACGACCTTC
1 TACTTACAGGATTTTACGAATCTC-ATATCTGCTAATTTACGATCACGACCTTC
* * * * * *
28501939 TACTTATAGGATTTTACGAATCTTGCA-ATCTGTTGATTTACGATTATGACCATC
1 TACTTACAGGATTTTACGAATC-T-CATATCTGCTAATTTACGATCACGACCTTC
* * * * * * * * *
28501993 TATTTA-TGAAATTTTATGGATCT-AGTGGTCCGCTAATTTAAGATCACAACCTTC
1 TACTTACAG-GATTTTACGAATCTCA-T-ATCTGCTAATTTACGATCACGACCTTC
* * ** * * **
28502047 TACTTACGGGATTTTACGAATATCGCGATTTGTTAATTTGTGATCACGACCTTC
1 TACTTACAGGATTTTACGAATCTC-ATATCTGCTAATTTACGATCACGACCTTC
* * * * *
28502101 TACTTA-AGGGATTTTACAAATCTCGTGGTCTGCTGATTTACGATCACAACCTTC
1 TACTTACA-GGATTTTACGAATCTCAT-ATCTGCTAATTTACGATCACGACCTTC
* * ** * *
28502155 TACTTACGGGATTTTATGAATCTCGCA-ATCCACTAATTTACGATCATGACCTTT
1 TACTTACAGGATTTTACGAATCT--CATATCTGCTAATTTACGATCACGACCTTC
28502209 TACTTA
1 TACTTA
28502215 TGAGATTTTA
Statistics
Matches: 205, Mismatches: 57, Indels: 28
0.71 0.20 0.10
Matches are distributed among these distances:
51 1 0.00
53 2 0.01
54 197 0.96
55 3 0.01
56 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (53 bp):
TACTTACAGGATTTTACGAATCTCATATCTGCTAATTTACGATCACGACCTTC
Found at i:28502051 original size:108 final size:108
Alignment explanation
Indices: 28501933--28502230 Score: 308
Period size: 108 Copynumber: 2.8 Consensus size: 108
28501923 TACGATGACG
** * * * * *
28501933 ACCTTCTACTTATAGGATTTTACGAATCTTGCAATCTGTTGATTTACGATTATGACCATCTATTT
1 ACCTTCTACTTACGGGATTTTACGAATCTCGCAATCTGTTAATTTACGATCACGACCATCTACTT
* ***
28501998 ATGAAATTTTATGGATCTAGTGGTCCGCTAATTTAAGATCACA
66 AAGAAATTTTACAAATCTAGTGGTCCGCTAATTTAAGATCACA
* * * ** *
28502041 ACCTTCTACTTACGGGATTTTACGAATATCGCGATTTGTTAATTTGTGATCACGACCTTCTACTT
1 ACCTTCTACTTACGGGATTTTACGAATCTCGCAATCTGTTAATTTACGATCACGACCATCTACTT
** * * * *
28502106 AAGGGATTTTACAAATCTCGTGGTCTGCTGATTTACGATCACA
66 AAGAAATTTTACAAATCTAGTGGTCCGCTAATTTAAGATCACA
* *** * * *
28502149 ACCTTCTACTTACGGGATTTTATGAATCTCGCAATCCACTAATTTACGATCATGACCTTTTACTT
1 ACCTTCTACTTACGGGATTTTACGAATCTCGCAATCTGTTAATTTACGATCACGACCATCTACTT
* *
28502214 ATGAGATTTTACAAATC
66 AAGAAATTTTACAAATC
28502231 ACGCGATTTA
Statistics
Matches: 154, Mismatches: 36, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
108 154 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (108 bp):
ACCTTCTACTTACGGGATTTTACGAATCTCGCAATCTGTTAATTTACGATCACGACCATCTACTT
AAGAAATTTTACAAATCTAGTGGTCCGCTAATTTAAGATCACA
Found at i:28502171 original size:162 final size:162
Alignment explanation
Indices: 28501930--28502239 Score: 345
Period size: 162 Copynumber: 1.9 Consensus size: 162
28501920 ATTTACGATG
* * * * **
28501930 ACGACCTTCTACTTATAGGATTTTACGAATCTTGCAATCTGTTGATTTACGATTATGACCATCTA
1 ACGACCTTCTACTTATAGGATTTTACAAATCTCGCAATCTGCTGATTTACGATCACAACCATCTA
* * * *** * *
28501995 TTTATGAAATTTTATGGATCTAGTGGTCCGCTAATTTAAGATCACAACCTTCTACTTACGGGATT
66 CTTACGAAATTTTATGAATCTAGCAATCCACTAATTTAAGATCACAACCTTCTACTTACGAGATT
*
28502060 TTACGAAT-ATCGCGATTTGTTAATTTGTGATC
131 TTACAAATCA-CGCGATTTGTTAATTTGTGATC
*** *
28502092 ACGACCTTCTACTTA-AGGGATTTTACAAATCTCGTGGTCTGCTGATTTACGATCACAACCTTCT
1 ACGACCTTCTACTTATA-GGATTTTACAAATCTCGCAATCTGCTGATTTACGATCACAACCATCT
** * * ** * *
28502156 ACTTACGGGATTTTATGAATCTCGCAATCCACTAATTTACGATCATGACCTTTTACTTATGAGAT
65 ACTTACGAAATTTTATGAATCTAGCAATCCACTAATTTAAGATCACAACCTTCTACTTACGAGAT
28502221 TTTACAAATCACGCGATTT
130 TTTACAAATCACGCGATTT
28502240 ATTGATTCAC
Statistics
Matches: 119, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
161 1 0.01
162 117 0.98
163 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (162 bp):
ACGACCTTCTACTTATAGGATTTTACAAATCTCGCAATCTGCTGATTTACGATCACAACCATCTA
CTTACGAAATTTTATGAATCTAGCAATCCACTAATTTAAGATCACAACCTTCTACTTACGAGATT
TTACAAATCACGCGATTTGTTAATTTGTGATC
Found at i:28502284 original size:108 final size:108
Alignment explanation
Indices: 28502034--28502285 Score: 272
Period size: 108 Copynumber: 2.3 Consensus size: 108
28502024 GCTAATTTAA
* * **** **
28502034 GATCACAACCTTCTACTTACGGGATTTTACGAATATCGCGATTTGTTAATTTGTGATCACGACCT
1 GATCACAACCTTCTACTTACGGGATTTTACGAATCTCGCAATCCACTAATTTACGATCACGACCT
* * * * * *
28502099 TCTACTTAAGGGATTTTACAAATCTCGTGGTCTGCTGATTTAC
66 TCTACTTAAGAGATTTTACAAATCACGCGATCTACTGATTCAC
* *
28502142 GATCACAACCTTCTACTTACGGGATTTTATGAATCTCGCAATCCACTAATTTACGATCATGACCT
1 GATCACAACCTTCTACTTACGGGATTTTACGAATCTCGCAATCCACTAATTTACGATCACGACCT
* * * *
28502207 TTTACTTATGAGATTTTACAAATCACGCGATTTATTGATTCAC
66 TCTACTTAAGAGATTTTACAAATCACGCGATCTACTGATTCAC
** **
28502250 GATCATGACCTTCTA-TTGACTTGATTTTACGAATCT
1 GATCACAACCTTCTACTT-ACGGGATTTTACGAATCT
28502286 AAGCGTGTTC
Statistics
Matches: 118, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
107 2 0.02
108 116 0.98
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (108 bp):
GATCACAACCTTCTACTTACGGGATTTTACGAATCTCGCAATCCACTAATTTACGATCACGACCT
TCTACTTAAGAGATTTTACAAATCACGCGATCTACTGATTCAC
Found at i:28502600 original size:54 final size:55
Alignment explanation
Indices: 28502518--28502816 Score: 212
Period size: 54 Copynumber: 5.5 Consensus size: 55
28502508 AAAGAGTTTT
* ** * * *
28502518 ACCTTTTACTTACGGGATTTTACGAATCTCGA-AGTTTGCTAACTTATGATGATG
1 ACCTTCTACTTACGGGATTTTACGAATCTCGACAGTCCGCTAACTTACGATCACG
* *
28502572 ACCTTCTACTTACGGGATTTTACGAATCTC-ACAGTCCGCTGATTTACGATCACG
1 ACCTTCTACTTACGGGATTTTACGAATCTCGACAGTCCGCTAACTTACGATCACG
* * ** * * * *
28502626 ACCTTCTACTTATGGGATTTTACAAATCTCG-TGGTCCACTGATTTACGATCACA
1 ACCTTCTACTTACGGGATTTTACGAATCTCGACAGTCCGCTAACTTACGATCACG
* ** * ** * * * *
28502680 ACCTTCTAGTTATAGGATTTTACGAATCTCG-CGGTCTACTGATTTACAATCATG
1 ACCTTCTACTTACGGGATTTTACGAATCTCGACAGTCCGCTAACTTACGATCACG
* ** * ** * * *
28502734 ACCTTCTACTTAAGAAATTTTACAAATCTC-ATGGTCCGTTAATTTACGATCATG
1 ACCTTCTACTTACGGGATTTTACGAATCTCGACAGTCCGCTAACTTACGATCACG
* * * *
28502788 TCCTTTTACTTATGGGATTTTACAAATCT
1 ACCTTCTACTTACGGGATTTTACGAATCT
28502817 AGCTATCCAT
Statistics
Matches: 203, Mismatches: 39, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
53 1 0.00
54 202 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (55 bp):
ACCTTCTACTTACGGGATTTTACGAATCTCGACAGTCCGCTAACTTACGATCACG
Found at i:28502707 original size:108 final size:108
Alignment explanation
Indices: 28502571--28502899 Score: 401
Period size: 108 Copynumber: 3.0 Consensus size: 108
28502561 TTATGATGAT
* * * *
28502571 GACCTTCTACTTACGGGATTTTACGAATCTCACAGTCCGCTGATTTACGATCACGACCTTCTACT
1 GACCTTCTACTTATGGGATTTTACGAATCTCACAGTCCACTGATTTACAATCATGACCTTCTACT
*
28502636 TATGGGATTTTACAAATCTCGTGGTCCACTGATTTACGATCAC
66 TATGGGATTTTACAAATCTCGTGGTCCATTGATTTACGATCAC
* * * * * *
28502679 AACCTTCTAGTTATAGGATTTTACGAATCTCGCGGTCTACTGATTTACAATCATGACCTTCTACT
1 GACCTTCTACTTATGGGATTTTACGAATCTCACAGTCCACTGATTTACAATCATGACCTTCTACT
* ** * * * *
28502744 TAAGAAATTTTACAAATCTCATGGTCCGTTAATTTACGATCAT
66 TATGGGATTTTACAAATCTCGTGGTCCATTGATTTACGATCAC
* * * * *
28502787 GTCCTTTTACTTATGGGATTTTACAAATCT-AGCTA-TCCATTGATTTACAATCATGACATTCTA
1 GACCTTCTACTTATGGGATTTTACGAATCTCA-C-AGTCCACTGATTTACAATCATGACCTTCTA
* *
28502850 CTTATAGGATTTTACGAATCTCGTGGTCCATTGATTTACGATCAC
64 CTTATGGGATTTTACAAATCTCGTGGTCCATTGATTTACGATCAC
28502895 GACCT
1 GACCT
28502900 ACTATTGACG
Statistics
Matches: 180, Mismatches: 39, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
108 180 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (108 bp):
GACCTTCTACTTATGGGATTTTACGAATCTCACAGTCCACTGATTTACAATCATGACCTTCTACT
TATGGGATTTTACAAATCTCGTGGTCCATTGATTTACGATCAC
Found at i:28502800 original size:162 final size:162
Alignment explanation
Indices: 28502569--28502899 Score: 430
Period size: 162 Copynumber: 2.0 Consensus size: 162
28502559 ACTTATGATG
* ** * *
28502569 ATGACCTTCTACTTACGGGATTTTACGAATCTCACAGTCCGCTGATTTACGATCACGACCTTCTA
1 ATGACCTTCTACTTAAGAAATTTTACAAATCTCACAGTCCGCTAATTTACGATCACGACCTTCTA
* * * * *
28502634 CTTATGGGATTTTACAAATCTCG-TGGTCCACTGATTTACGATCACAACCTTCTAGTTATAGGAT
66 CTTATGGGATTTTACAAATCTAGCT-ATCCACTGATTTACAATCACAACATTCTACTTATAGGAT
*
28502698 TTTACGAATCTCGCGGTCTACTGATTTACAATC
130 TTTACGAATCTCGCGGTCCACTGATTTACAATC
** * * * *
28502731 ATGACCTTCTACTTAAGAAATTTTACAAATCTCATGGTCCGTTAATTTACGATCATGTCCTTTTA
1 ATGACCTTCTACTTAAGAAATTTTACAAATCTCACAGTCCGCTAATTTACGATCACGACCTTCTA
* **
28502796 CTTATGGGATTTTACAAATCTAGCTATCCATTGATTTACAATCATGACATTCTACTTATAGGATT
66 CTTATGGGATTTTACAAATCTAGCTATCCACTGATTTACAATCACAACATTCTACTTATAGGATT
* * *
28502861 TTACGAATCTCGTGGTCCATTGATTTACGATC
131 TTACGAATCTCGCGGTCCACTGATTTACAATC
*
28502893 ACGACCT
1 ATGACCT
28502900 ACTATTGACG
Statistics
Matches: 144, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
162 143 0.99
163 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (162 bp):
ATGACCTTCTACTTAAGAAATTTTACAAATCTCACAGTCCGCTAATTTACGATCACGACCTTCTA
CTTATGGGATTTTACAAATCTAGCTATCCACTGATTTACAATCACAACATTCTACTTATAGGATT
TTACGAATCTCGCGGTCCACTGATTTACAATC
Found at i:28502833 original size:54 final size:55
Alignment explanation
Indices: 28502569--28502899 Score: 341
Period size: 54 Copynumber: 6.1 Consensus size: 55
28502559 ACTTATGATG
* * * * **
28502569 ATGACCTTCTACTTACGGGATTTTACGAATCTCAC-AGTCCGCTGATTTACGATC
1 ATGACCTTCTACTTATGGGATTTTACAAATCTCGCTGGTCCATTGATTTACGATC
* *
28502623 ACGACCTTCTACTTATGGGATTTTACAAATCTCG-TGGTCCACTGATTTACGATC
1 ATGACCTTCTACTTATGGGATTTTACAAATCTCGCTGGTCCATTGATTTACGATC
** * * * * * *
28502677 ACAACCTTCTAGTTATAGGATTTTACGAATCTCGC-GGTCTACTGATTTACAATC
1 ATGACCTTCTACTTATGGGATTTTACAAATCTCGCTGGTCCATTGATTTACGATC
* ** * * *
28502731 ATGACCTTCTACTTAAGAAATTTTACAAATCTC-ATGGTCCGTTAATTTACGATC
1 ATGACCTTCTACTTATGGGATTTTACAAATCTCGCTGGTCCATTGATTTACGATC
* * * * *
28502785 ATGTCCTTTTACTTATGGGATTTTACAAATCTAGCT-ATCCATTGATTTACAATC
1 ATGACCTTCTACTTATGGGATTTTACAAATCTCGCTGGTCCATTGATTTACGATC
* * *
28502839 ATGACATTCTACTTATAGGATTTTACGAATCTCG-TGGTCCATTGATTTACGATC
1 ATGACCTTCTACTTATGGGATTTTACAAATCTCGCTGGTCCATTGATTTACGATC
*
28502893 ACGACCT
1 ATGACCT
28502900 ACTATTGACG
Statistics
Matches: 225, Mismatches: 47, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
53 1 0.00
54 223 0.99
55 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (55 bp):
ATGACCTTCTACTTATGGGATTTTACAAATCTCGCTGGTCCATTGATTTACGATC
Found at i:28503235 original size:639 final size:636
Alignment explanation
Indices: 28501922--28503128 Score: 1369
Period size: 639 Copynumber: 1.9 Consensus size: 636
28501912 ATCTGCTGAT
* * * ** ** * * * * *
28501922 TTACGATGACGACCTTCTACTTATAGGATTTTACGAATCTTGCAATCTGTTGATTTACGATTATG
1 TTACGATGATGACATTCGACTTACGGGATTTTACGAATCTCACAGTCCGCTGATTTACGATCACG
* * ** *** *
28501987 ACCATCTATTTATGAAATTTTATGGATCTAGTGGTCCGCTAATTTAAGATCACAACCTTCTACTT
66 ACCTTCTACTTATGGGATTTTACAAATCTAGTGGTCCACTAATTTAAGATCACAACCTTCTACTT
* * ** *** **
28502052 ACGGGATTTTACGAATATCGCGATTTGTTAATTTGTGATCACGACCTTCTACTTAAGGGATTTTA
131 ACAGGATTTTACGAATATCGCGATCTACTAATTTACAATCACGACCTTCTACTTAAGAAATTTTA
* * * ** *
28502117 CAAATCTCGTGGTCTGCTGATTTACGATCACAACCTTCTACTTACGGGATTTTATGAATCTCGCA
196 CAAATCTCATGGTCCGCTAATTTACGATCACAACCTTCTACTTACGGGATTTTACAAATCTAGCA
* * * **
28502182 ATCCACTAATTTACGATCATGACCTTTTACTTATGAGATTTTACAAATCACGCGATTTATTGATT
261 ATCCACTAATTTACAATCATGACATTCTACTTATGAGATTTTACAAATCACGCGATCCATTGATT
* * * * * * *
28502247 CACGATCATGACCTTCTATTGACTTGATTTTACGAATCTAAGCGTGTTCAAGAAGAACTAAAAAC
326 CACGATCACGACCTACTATTGACGTAATTATACAAATCTAAGCATGTTCAAGAAGAACTAAAAAC
* * *
28502312 TGACCTTTCTACCCTTCAAAACAAATTTAATGCTAGAGATGATTAATATAATCGTGTTAAGGAAG
391 TGACCTCTCTACCCTTCAAAACAAAGTTAATGCTAGAGATGATTAATATAAGCGTGTTAAGGAAG
*
28502377 AACTCAAAACTGACCTTGGAATAAGGAGGCTAGAGAAATCAAATTTGTTACATTGCCCTTGTGAG
456 AACTCAAAACTGACCTT-GAATAAGGAGACTAGAGAAATCAAATTTGTTACATTGCCCTTGTGAG
* * * * *
28502442 GCTGAACCAAGTTCTCTTCACCAAACGTTTGAAATGGGGTTTGAAATGGATCGGTCTATTAAAAA
520 GCTGAACCAAGTTCTCTTCACCAAACGTCTGAAATGAGGCTTGAAATGGATCGATCTATCAAAAA
* ** *** * *
28502507 GAAAGAGTTTTACCTTTTACTTACGGGATTTTACGAATCTCGAAGTTTGCTAAC
585 AAAAGAACTTTA-CTAAAACTTACGGGATTTTACGAATCACGAACTTT-CTAAC
* * *
28502561 TTATGATGATGACCTTCTACTTACGGGATTTTACGAATCTCACAGTCCGCTGATTTACGATCACG
1 TTACGATGATGACATTCGACTTACGGGATTTTACGAATCTCACAGTCCGCTGATTTACGATCACG
* * * *
28502626 ACCTTCTACTTATGGGATTTTACAAATCTCGTGGTCCACTGATTTACGATCACAACCTTCTAGTT
66 ACCTTCTACTTATGGGATTTTACAAATCTAGTGGTCCACTAATTTAAGATCACAACCTTCTACTT
* * * * *
28502691 ATAGGATTTTACGAATCTCGCGGTCTACTGATTTACAATCATGACCTTCTACTTAAGAAATTTTA
131 ACAGGATTTTACGAATATCGCGATCTACTAATTTACAATCACGACCTTCTACTTAAGAAATTTTA
* *** * * *
28502756 CAAATCTCATGGTCCGTTAATTTACGATCATGTCCTTTTACTTATGGGATTTTACAAATCTAGCT
196 CAAATCTCATGGTCCGCTAATTTACGATCACAACCTTCTACTTACGGGATTTTACAAATCTAGCA
* * * * * *
28502821 ATCCATTGATTTACAATCATGACATTCTACTTAT-AGGATTTTACGAATCTCGTGGTCCATTGAT
261 ATCCACTAATTTACAATCATGACATTCTACTTATGA-GATTTTACAAATCACGCGATCCATTGAT
* * *
28502885 TTACGATCACGACCTACTATTGACGTAATTATACAAATCTAGGCATGTTGAAGAAGAACTAAAAA
325 TCACGATCACGACCTACTATTGACGTAATTATACAAATCTAAGCATGTTCAAGAAGAACTAAAAA
* ** * * * *
28502950 CTGACCTCTCTGCTTTTCAGAGC-AAGTTAGATGCTAGAGATGATTAATATAGGCGTGTTGAGGA
390 CTGACCTCTCTACCCTTCAAAACAAAGTTA-ATGCTAGAGATGATTAATATAAGCGTGTTAAGGA
* * * * *
28503014 AGAACTCAAAACTGACCTT-AA-AAGGAGATTAGAGGAATTAAATTTGTTACCTTGCCTTTGTGA
454 AGAACTCAAAACTGACCTTGAATAAGGAGACTAGAGAAATCAAATTTGTTACATTGCCCTTGTGA
* * * *
28503077 GGCTGAAGCTAGTTCTCTTCACCATATGTCTGAAATGAGGCTTGAAATGGAT
519 GGCTGAACCAAGTTCTCTTCACCAAACGTCTGAAATGAGGCTTGAAATGGAT
28503129 TGATTTGCAC
Statistics
Matches: 472, Mismatches: 94, Indels: 7
0.82 0.16 0.01
Matches are distributed among these distances:
636 81 0.17
637 2 0.00
638 6 0.01
639 383 0.81
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (636 bp):
TTACGATGATGACATTCGACTTACGGGATTTTACGAATCTCACAGTCCGCTGATTTACGATCACG
ACCTTCTACTTATGGGATTTTACAAATCTAGTGGTCCACTAATTTAAGATCACAACCTTCTACTT
ACAGGATTTTACGAATATCGCGATCTACTAATTTACAATCACGACCTTCTACTTAAGAAATTTTA
CAAATCTCATGGTCCGCTAATTTACGATCACAACCTTCTACTTACGGGATTTTACAAATCTAGCA
ATCCACTAATTTACAATCATGACATTCTACTTATGAGATTTTACAAATCACGCGATCCATTGATT
CACGATCACGACCTACTATTGACGTAATTATACAAATCTAAGCATGTTCAAGAAGAACTAAAAAC
TGACCTCTCTACCCTTCAAAACAAAGTTAATGCTAGAGATGATTAATATAAGCGTGTTAAGGAAG
AACTCAAAACTGACCTTGAATAAGGAGACTAGAGAAATCAAATTTGTTACATTGCCCTTGTGAGG
CTGAACCAAGTTCTCTTCACCAAACGTCTGAAATGAGGCTTGAAATGGATCGATCTATCAAAAAA
AAAGAACTTTACTAAAACTTACGGGATTTTACGAATCACGAACTTTCTAAC
Found at i:28503286 original size:54 final size:54
Alignment explanation
Indices: 28503174--28503346 Score: 143
Period size: 54 Copynumber: 3.2 Consensus size: 54
28503164 GCTTTAGTTG
* * * * * * **
28503174 ATTTACAATCACTACCTTTTACTTA-CGAAATATTACGAATCTCG-AGGTCTACGG
1 ATTTACGATCACAACCTTCTACTTACCG-GATTTTACGAATCTCGTA-GTCCACTA
** * * * *
28503228 ATTTACGATCACGGCCTTCTACTTACCGTATTTTATGAATCTCGTGGTCCATTA
1 ATTTACGATCACAACCTTCTACTTACCGGATTTTACGAATCTCGTAGTCCACTA
* ** *
28503282 ATTTATGATCACAACCTTCTACTTATGGGATTTTACGAATCTCGTAGTCCGCTA
1 ATTTACGATCACAACCTTCTACTTACCGGATTTTACGAATCTCGTAGTCCACTA
*
28503336 ATTTACAATCA
1 ATTTACGATCA
28503347 TGACGTTCTA
Statistics
Matches: 93, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
54 91 0.98
55 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (54 bp):
ATTTACGATCACAACCTTCTACTTACCGGATTTTACGAATCTCGTAGTCCACTA
Found at i:28503689 original size:456 final size:453
Alignment explanation
Indices: 28502719--28503725 Score: 1198
Period size: 453 Copynumber: 2.2 Consensus size: 453
28502709 CGCGGTCTAC
* * * * * *
28502719 TGATTTACAATCATGACCTTCTACTTAAGAAATTTTACAAATCTC-ATGGTC--CGTTAATTTAC
1 TGATTTACAATCACGACCTTTTACTTACGAAATATTACGAATCTCGA-GGTCTACG--GATTTAC
* * * ** * * * * ** ** *
28502781 GATCATGTCCTTTTACTTATGGGATTTTACAAATCTAGCT-ATCCATTGATTTACAATCATGACA
63 GATCACGACCTTCTACTTACCGGATTTTACGAATCTCG-TGGTCCATTAATTTATGATCACAACC
* * * * *
28502845 TTCTACTTATAGGATTTTACGAATCTCGTGGTCCATTGATTTACGATCACGACCTACTATTGACG
127 TTCTACTTATAGGATTTTACGAATCTCGTAGTCCACTAATTTACAATCACGACCTACTACTGACG
** * ** *
28502910 TAATTATACAAATCTAGGCATGTTGAAGAAGAACTAAAAACTGACCTCTCTGCTTTTCAGAGCAA
192 TAATTATACAAATCTAAACATGTCGAAGAAGAACTAAAAACTGACCTCTCTGCCCTTCAAAGCAA
* * *
28502975 GTTAGATGCTAGAGATGATTAATATAGGCGTGTTGAGGAAGAACTCAAAACTGACCTTAAAAGGA
257 GTTAGATGCTAGAGATGATTAATATAGGCGTGTTAAGGAAGAACTCAAAACTAACCTTAAAAGAA
* * * * **
28503040 GATTAGAGGAATTAAATTTGTTACCTTGCCTTTGTGAGGCTGAAGCTAGTTCTCTTCACCATATG
322 GATTAGAGGAATCAAATTTGTTACATTGCCTTTGTAAGGCTGAACCTAGTTCTCTTCACCATACA
* * *
28503105 TCTGAAATGAGGCTTGAAATGGATTGATTTGCACAGAAAAATAAGAAACTTTCTAAAAAGCTTTA
387 TCTAAAATGAGGCTTGAAATGGATCGATTTGCACAGAAAAACAAGAAACTTTCTAAAAAGCTTTA
28503170 GT
452 GT
*
28503172 TGATTTACAATCACTACCTTTTACTTACGAAATATTACGAATCTCGAGGTCTACGGATTTACGAT
1 TGATTTACAATCACGACCTTTTACTTACGAAATATTACGAATCTCGAGGTCTACGGATTTACGAT
* * *
28503237 CACGGCCTTCTACTTACCGTATTTTATGAATCTCGTGGTCCATTAATTTATGATCACAACCTTCT
66 CACGACCTTCTACTTACCGGATTTTACGAATCTCGTGGTCCATTAATTTATGATCACAACCTTCT
* * * * * *
28503302 ACTTATGGGATTTTACGAATCTCGTAGTCCGCTAATTTACAATCATGACGTTCTACTGACGTGAT
131 ACTTATAGGATTTTACGAATCTCGTAGTCCACTAATTTACAATCACGACCTACTACTGACGTAAT
* * * * *
28503367 TCTACGAATTTAAACATGTCGATGAAGAATTAAAAACTGACCTCTCTGCCCTTCAAAGCAAGTTA
196 TATACAAATCTAAACATGTCGAAGAAGAACTAAAAACTGACCTCTCTGCCCTTCAAAGCAAGTTA
*
28503432 GATGCTAGAGATGATTAATATAGGCGTGTTAAGGAAGAACTTAAAACTAACCTTGAAAGATTGAA
261 GATGCTAGAGATGATTAATATAGGCGTGTTAAGGAAGAACTCAAAACTAACCTT-AAA-A--GAA
*
28503497 GA-TAGAGGAATCAAATTTGTTACATTGCCTTTGTAAGGCTGAACCTAGTT-TTTTGCACCATAC
322 GATTAGAGGAATCAAATTTGTTACATTGCCTTTGTAAGGCTGAACCTAGTTCTCTT-CACCATAC
* * *
28503560 ATCTAAAATGAGGCTTGAAATGGATCGATTTGCTCAGAAAAACAAGGAACTTTCTTAAAAGCTTT
386 ATCTAAAATGAGGCTTGAAATGGATCGATTTGCACAGAAAAACAAGAAACTTTCTAAAAAGCTTT
*
28503625 GGT
451 AGT
* *** * * ***
28503628 TGATTTACAATCACGAGCTTTTACTTACGGGTTATTATGAATCTCGAGGTTTGTTGATTTACGAT
1 TGATTTACAATCACGACCTTTTACTTACGAAATATTACGAATCTCGAGGTCTACGGATTTACGAT
* * * *
28503693 GACTACTTTCTACTTACGGGATTTTACGAATCT
66 CACGACCTTCTACTTACCGGATTTTACGAATCT
28503726 TGCAATTCGG
Statistics
Matches: 465, Mismatches: 80, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
452 1 0.00
453 258 0.55
454 4 0.01
455 6 0.01
456 192 0.41
457 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (453 bp):
TGATTTACAATCACGACCTTTTACTTACGAAATATTACGAATCTCGAGGTCTACGGATTTACGAT
CACGACCTTCTACTTACCGGATTTTACGAATCTCGTGGTCCATTAATTTATGATCACAACCTTCT
ACTTATAGGATTTTACGAATCTCGTAGTCCACTAATTTACAATCACGACCTACTACTGACGTAAT
TATACAAATCTAAACATGTCGAAGAAGAACTAAAAACTGACCTCTCTGCCCTTCAAAGCAAGTTA
GATGCTAGAGATGATTAATATAGGCGTGTTAAGGAAGAACTCAAAACTAACCTTAAAAGAAGATT
AGAGGAATCAAATTTGTTACATTGCCTTTGTAAGGCTGAACCTAGTTCTCTTCACCATACATCTA
AAATGAGGCTTGAAATGGATCGATTTGCACAGAAAAACAAGAAACTTTCTAAAAAGCTTTAGT
Found at i:28503708 original size:54 final size:54
Alignment explanation
Indices: 28503626--28503824 Score: 195
Period size: 54 Copynumber: 3.7 Consensus size: 54
28503616 AAAAGCTTTG
* * *
28503626 GTTGATTTACAATCACGAGCTTTTACTTACGGG-TTATTATGAATCTCGAGGTTT
1 GTTGATTTACGATCACGACCTTCTACTTACGGGATT-TTATGAATCTCGAGGTTT
* * * * * * *
28503680 GTTGATTTACGATGACTACTTTCTACTTACGGGATTTTACGAATCTTGCA-ATTC
1 GTTGATTTACGATCACGACCTTCTACTTACGGGATTTTATGAATCTCG-AGGTTT
* * * * * *
28503734 GGTGATTTACGATGACGACCATCTATTTACGGGATTTTATGAATCTCGTGGTCT
1 GTTGATTTACGATCACGACCTTCTACTTACGGGATTTTATGAATCTCGAGGTTT
* * *
28503788 GCTGATTTACGATCACAACCTTCTACTTATGGGATTT
1 GTTGATTTACGATCACGACCTTCTACTTACGGGATTT
28503825 AACAAATCTT
Statistics
Matches: 115, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
54 112 0.97
55 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (54 bp):
GTTGATTTACGATCACGACCTTCTACTTACGGGATTTTATGAATCTCGAGGTTT
Found at i:28503770 original size:456 final size:453
Alignment explanation
Indices: 28502719--28503814 Score: 1214
Period size: 456 Copynumber: 2.4 Consensus size: 453
28502709 CGCGGTCTAC
* * * * * *
28502719 TGATTTACAATCATGACCTTCTACTTAAGAAATTTTACAAATCTC-ATGGTC--CGTTAATTTAC
1 TGATTTACAATCACGACCTTTTACTTACGAAATATTACGAATCTCGA-GGTCTACG--GATTTAC
* * * ** * * * * * * **
28502781 GATCATGTCCTTTTACTTATGGGATTTTACAAATCTAGCTATCCATTGATTTACAATCATGA-CA
63 GATCACGACCTTCTACTTACCGGATTTTACGAATCTCGCAATCCAGTAATTTACGATCACAACCA
** ** *
28502845 TTCTACTTATAGGATTTTACGAATCTCGTGGTCCATTGATTTACGATCACGACCTACTATTGACG
128 -TCTACTTACGGGATTTTACGAATCTCGTGGTCCGCTGATTTACGATCACGACCTACTACTGACG
** * ** *
28502910 TAATTATACAAATCTAGGCATGTTGAAGAAGAACTAAAAACTGACCTCTCTGCTTTTCAGAGCAA
192 TAATTATACAAATCTAAACATGTCGAAGAAGAACTAAAAACTGACCTCTCTGCCCTTCAAAGCAA
* * *
28502975 GTTAGATGCTAGAGATGATTAATATAGGCGTGTTGAGGAAGAACTCAAAACTGACCTTAAAAGGA
257 GTTAGATGCTAGAGATGATTAATATAGGCGTGTTAAGGAAGAACTCAAAACTAACCTTAAAAGAA
* * * * **
28503040 GATTAGAGGAATTAAATTTGTTACCTTGCCTTTGTGAGGCTGAAGCTAGTTCTCTTCACCATATG
322 GATTAGAGGAATCAAATTTGTTACATTGCCTTTGTAAGGCTGAACCTAGTTCTCTTCACCATACA
* * *
28503105 TCTGAAATGAGGCTTGAAATGGATTGATTTGCACAGAAAAATAAGAAACTTTCTAAAAAGCTTTA
387 TCTAAAATGAGGCTTGAAATGGATCGATTTGCACAGAAAAACAAGAAACTTTCTAAAAAGCTTTA
28503170 GT
452 GT
*
28503172 TGATTTACAATCACTACCTTTTACTTACGAAATATTACGAATCTCGAGGTCTACGGATTTACGAT
1 TGATTTACAATCACGACCTTTTACTTACGAAATATTACGAATCTCGAGGTCTACGGATTTACGAT
* * * *** * * *
28503237 CACGGCCTTCTACTTACCGTATTTTATGAATCTCGTGGTCCATTAATTTATGATCACAACCTTCT
66 CACGACCTTCTACTTACCGGATTTTACGAATCTCGCAATCCAGTAATTTACGATCACAACCATCT
* * * * * * * *
28503302 ACTTATGGGATTTTACGAATCTCGTAGTCCGCTAATTTACAATCATGACGTTCTACTGACGTGAT
131 ACTTACGGGATTTTACGAATCTCGTGGTCCGCTGATTTACGATCACGACCTACTACTGACGTAAT
* * * * *
28503367 TCTACGAATTTAAACATGTCGATGAAGAATTAAAAACTGACCTCTCTGCCCTTCAAAGCAAGTTA
196 TATACAAATCTAAACATGTCGAAGAAGAACTAAAAACTGACCTCTCTGCCCTTCAAAGCAAGTTA
*
28503432 GATGCTAGAGATGATTAATATAGGCGTGTTAAGGAAGAACTTAAAACTAACCTTGAAAGATTGAA
261 GATGCTAGAGATGATTAATATAGGCGTGTTAAGGAAGAACTCAAAACTAACCTT-AAA-A--GAA
*
28503497 GA-TAGAGGAATCAAATTTGTTACATTGCCTTTGTAAGGCTGAACCTAGTT-TTTTGCACCATAC
322 GATTAGAGGAATCAAATTTGTTACATTGCCTTTGTAAGGCTGAACCTAGTTCTCTT-CACCATAC
* * *
28503560 ATCTAAAATGAGGCTTGAAATGGATCGATTTGCTCAGAAAAACAAGGAACTTTCTTAAAAGCTTT
386 ATCTAAAATGAGGCTTGAAATGGATCGATTTGCACAGAAAAACAAGAAACTTTCTAAAAAGCTTT
*
28503625 GGT
451 AGT
* *** * * ***
28503628 TGATTTACAATCACGAGCTTTTACTTACGGGTTATTATGAATCTCGAGGTTTGTTGATTTACGAT
1 TGATTTACAATCACGACCTTTTACTTACGAAATATTACGAATCTCGAGGTCTACGGATTTACGAT
* * * * * * * * * *
28503693 GACTACTTTCTACTTACGGGATTTTACGAATCTTGCAATTCGGTGATTTACGATGACGACCATCT
66 CACGACCTTCTACTTACCGGATTTTACGAATCTCGCAATCCAGTAATTTACGATCACAACCATCT
* * * * *
28503758 ATTTACGGGATTTTATGAATCTCGTGGTCTGCTGATTTACGATCACAACCTTCTACT
131 ACTTACGGGATTTTACGAATCTCGTGGTCCGCTGATTTACGATCACGACCTACTACT
28503815 TATGGGATTT
Statistics
Matches: 530, Mismatches: 104, Indels: 15
0.82 0.16 0.02
Matches are distributed among these distances:
453 256 0.48
454 5 0.01
455 6 0.01
456 259 0.49
457 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (453 bp):
TGATTTACAATCACGACCTTTTACTTACGAAATATTACGAATCTCGAGGTCTACGGATTTACGAT
CACGACCTTCTACTTACCGGATTTTACGAATCTCGCAATCCAGTAATTTACGATCACAACCATCT
ACTTACGGGATTTTACGAATCTCGTGGTCCGCTGATTTACGATCACGACCTACTACTGACGTAAT
TATACAAATCTAAACATGTCGAAGAAGAACTAAAAACTGACCTCTCTGCCCTTCAAAGCAAGTTA
GATGCTAGAGATGATTAATATAGGCGTGTTAAGGAAGAACTCAAAACTAACCTTAAAAGAAGATT
AGAGGAATCAAATTTGTTACATTGCCTTTGTAAGGCTGAACCTAGTTCTCTTCACCATACATCTA
AAATGAGGCTTGAAATGGATCGATTTGCACAGAAAAACAAGAAACTTTCTAAAAAGCTTTAGT
Found at i:28503833 original size:54 final size:54
Alignment explanation
Indices: 28503738--28503938 Score: 170
Period size: 54 Copynumber: 3.7 Consensus size: 54
28503728 CAATTCGGTG
* * * * * ** *
28503738 ATTTACGATGACGACCATCTATTTACGGGATTTTATGAATCTCGTGGTCTGCTG
1 ATTTACGATCACAACCTTCTACTTATGGGATTTTACAAATCTCGTGGTCTGCTA
* ** ***
28503792 ATTTACGATCACAACCTTCTACTTATGGGATTTAACAAATCTTATGGTGAACTA
1 ATTTACGATCACAACCTTCTACTTATGGGATTTTACAAATCTCGTGGTCTGCTA
** * ** *
28503846 ATTTGTGATCACGACCTTCTACTTAAT-CAATTTTACGAATCTCGTGGTCTGCTA
1 ATTTACGATCACAACCTTCTACTT-ATGGGATTTTACAAATCTCGTGGTCTGCTA
* * * *
28503900 ATTCACAATCACAATCGTCTACTTATGGGATTTTACAAA
1 ATTTACGATCACAACCTTCTACTTATGGGATTTTACAAA
28503939 CCTCTCAATC
Statistics
Matches: 109, Mismatches: 36, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
53 2 0.02
54 105 0.96
55 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (54 bp):
ATTTACGATCACAACCTTCTACTTATGGGATTTTACAAATCTCGTGGTCTGCTA
Found at i:28503970 original size:108 final size:107
Alignment explanation
Indices: 28503767--28503971 Score: 234
Period size: 108 Copynumber: 1.9 Consensus size: 107
28503757 TATTTACGGG
* * * * *
28503767 ATTTTATGAATCTCGTGGTCTGCTGATTTACGATCACAACCTTCTACTTATGGGATTTAACAAAT
1 ATTTTACGAATCTCGTGGTCTGCTAATTCACAATCACAACCGTCTACTTATGGGATTTAACAAAT
* ** ***
28503832 CTTATGGTGAACTAATTTGTGATCACGACCTTCTACTTAATCA
66 CTAATGCCG-ACTAATTTACAATCACGACCTTCTACTTAATCA
* *
28503875 ATTTTACGAATCTCGTGGTCTGCTAATTCACAATCACAATCGTCTACTTATGGGATTTTACAAAC
1 ATTTTACGAATCTCGTGGTCTGCTAATTCACAATCACAACCGTCTACTTATGGGATTTAACAAA-
*
28503940 CTCTCAAT-CCG-CTAATTTACAATCATGACCTT
65 -TCT-AATGCCGACTAATTTACAATCACGACCTT
28503972 TTACCTACTG
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
108 74 0.93
110 4 0.05
111 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (107 bp):
ATTTTACGAATCTCGTGGTCTGCTAATTCACAATCACAACCGTCTACTTATGGGATTTAACAAAT
CTAATGCCGACTAATTTACAATCACGACCTTCTACTTAATCA
Found at i:28505181 original size:54 final size:54
Alignment explanation
Indices: 28505048--28505204 Score: 140
Period size: 54 Copynumber: 2.9 Consensus size: 54
28505038 AAGCTTCAGT
* * * *
28505048 TGATTTACAATCAC-AACCTTTTACTTTCGAGATTTTACGAATCTCACAGTATGC
1 TGATTTACAATGACGAA-CTTTTACTTACGAGATTTTACGAAACTCACAGTATAC
** * *
28505102 TGATTTATGATGACGACCTTCTACTTACGAGATTTTACGAAACTCTA-AGTCA-AC
1 TGATTTACAATGACGAACTTTTACTTACGAGATTTTACGAAACTC-ACAGT-ATAC
* * * * * *
28505156 TGATTTACAATGATGAATTTTTACTTACTAGATTATATGAATCTCACAG
1 TGATTTACAATGACGAACTTTTACTTACGAGATTTTACGAAACTCACAG
28505205 CTCACTTATT
Statistics
Matches: 81, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 77 0.95
55 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (54 bp):
TGATTTACAATGACGAACTTTTACTTACGAGATTTTACGAAACTCACAGTATAC
Found at i:28505310 original size:54 final size:54
Alignment explanation
Indices: 28505228--28505349 Score: 127
Period size: 54 Copynumber: 2.3 Consensus size: 54
28505218 GATTACAACC
** * ** **
28505228 TTTTATGAATCTCGTGGGCCACTGATTTATTATCACGACATTATAATTAAGGGA
1 TTTTATGAATCTCGCAGGCCACTAATTTAAGATCACGACATTATAATTAAAAGA
* * * * *
28505282 TTTTATGAATCTCGCAGTCCGCTAATTTAAGATCACGACCTTCTACTTAAAAGA
1 TTTTATGAATCTCGCAGGCCACTAATTTAAGATCACGACATTATAATTAAAAGA
*
28505336 TTTTACGAATCTCG
1 TTTTATGAATCTCG
28505350 AGGTCTGTTG
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (54 bp):
TTTTATGAATCTCGCAGGCCACTAATTTAAGATCACGACATTATAATTAAAAGA
Found at i:28505364 original size:54 final size:54
Alignment explanation
Indices: 28505280--28505407 Score: 123
Period size: 54 Copynumber: 2.4 Consensus size: 54
28505270 ATAATTAAGG
* * *
28505280 GATTTTATGAATCTCGCA-GTCCGCTAATTTAAGATCACGACCTTCTACTTAAAA
1 GATTTTACGAATCTCG-AGGTCCGCTAATTTAAGATCACAACCTTCTACATAAAA
* * * * * * ***
28505334 GATTTTACGAATCTCGAGGTCTGTTGATTTACGATCGCAATCTTCTACATATGG
1 GATTTTACGAATCTCGAGGTCCGCTAATTTAAGATCACAACCTTCTACATAAAA
*
28505388 GATTTTACCAATCTCGAGGT
1 GATTTTACGAATCTCGAGGT
28505408 TTTGAGGAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
GATTTTACGAATCTCGAGGTCCGCTAATTTAAGATCACAACCTTCTACATAAAA
Found at i:28506110 original size:54 final size:54
Alignment explanation
Indices: 28506051--28506397 Score: 340
Period size: 54 Copynumber: 6.4 Consensus size: 54
28506041 GAGTTTTAGT
* * * ** * * *
28506051 TGATTTACAATCACAACCTTTTACTTATGGGATTTTTTGAATCTCGAGGTCTAT
1 TGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCGTGGTCCAC
**
28506105 TGATTTACGATCACGACCTTCTACTTATGGGATTTTAAC-AATCTCGTGGTCCGT
1 TGATTTACGATCACGACCTTCTACTTATGGGATTTT-ACGAATCTCGTGGTCCAC
** * * **
28506159 TGATTTGTGATCACGACCTTCTACTTACT-AGATTTTACAAATCTCGTGGTCTGC
1 TGATTTACGATCACGACCTTCTACTTA-TGGGATTTTACGAATCTCGTGGTCCAC
* * ** *
28506213 TGATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGCGGTCCAC
1 TGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCGTGGTCCAC
* * * * * * **
28506267 T-AGTTTATGATCATGATCTTCTACTTAAGGAATTTTACAAATCTCGTGGTCTGC
1 TGA-TTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCGTGGTCCAC
* * * * *
28506321 TGATTTACAATCACTACCTTTTGCTTATCGGATTTTACGAATCTCGTGGTCCAC
1 TGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCGTGGTCCAC
28506375 TGATTTACGATCACGACCTTCTA
1 TGATTTACGATCACGACCTTCTA
28506398 GTGACGTAAT
Statistics
Matches: 235, Mismatches: 52, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
53 3 0.01
54 230 0.98
55 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (54 bp):
TGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCGTGGTCCAC
Found at i:28506357 original size:162 final size:162
Alignment explanation
Indices: 28506051--28506397 Score: 403
Period size: 162 Copynumber: 2.1 Consensus size: 162
28506041 GAGTTTTAGT
* ** ** * *
28506051 TGATTTACAATCACAACCTTTTACTTATGGGATTTTTTGAATCTCGAGGTCTATTGATTTACGAT
1 TGATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGAGGTCCATAGATTTACGAT
* * * ***
28506116 CACGACCTTCTACTTATGGGATTTTAACAATCTCGTGGTCCGTTGATTTGTGATCACGACCTTCT
66 CACGACCTTCTACTTAAGGAATTTTAACAATCTCGTGGTCCGCTGATTTACAATCACGACCTTCT
**
28506181 ACTTACTAGATTTTACAAATCTCGTGGTCTGC
131 ACTTACTAGATTTTACAAATCTCGTGGTCCAC
* *
28506213 TGATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGCGGTCCACTAG-TTTATGA
1 TGATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGAGGTCCA-TAGATTTACGA
* * * *
28506277 TCATGATCTTCTACTTAAGGAATTTT-ACAAATCTCGTGGTCTGCTGATTTACAATCACTACCTT
65 TCACGACCTTCTACTTAAGGAATTTTAAC-AATCTCGTGGTCCGCTGATTTACAATCACGACCTT
* * * *
28506341 TTGCTTA-TCGGATTTTACGAATCTCGTGGTCCAC
129 CTACTTACT-AGATTTTACAAATCTCGTGGTCCAC
* *
28506375 TGATTTACGATCACGACCTTCTA
1 TGATTTACAATCACAACCTTCTA
28506398 GTGACGTAAT
Statistics
Matches: 155, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
161 3 0.02
162 150 0.97
163 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (162 bp):
TGATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGAGGTCCATAGATTTACGAT
CACGACCTTCTACTTAAGGAATTTTAACAATCTCGTGGTCCGCTGATTTACAATCACGACCTTCT
ACTTACTAGATTTTACAAATCTCGTGGTCCAC
Found at i:28506418 original size:108 final size:108
Alignment explanation
Indices: 28506090--28506409 Score: 396
Period size: 108 Copynumber: 3.0 Consensus size: 108
28506080 GGATTTTTTG
* ** * * *
28506090 AATCTCGAGGTCTATTGATTTACGATCACGACCTTCTACTTATGGGATTTTAAC-AATCTCGTGG
1 AATCTCGTGGTCTGCTGATTTACAATCACAACCTTCTACTTATCGGATTTT-ACGAATCTCGTGG
** *
28506154 TCCGTTGATTTGTGATCACGACCTTCTACTTAC-TAGATTTTACA
65 TCCACTGATTTATGATCACGACCTTCTACTTACGTA-ATTTTACA
*
28506198 AATCTCGTGGTCTGCTGATTTACAATCACAACCTTCTACTTA-CAGGATTTTACGAATCTCGCGG
1 AATCTCGTGGTCTGCTGATTTACAATCACAACCTTCTACTTATC-GGATTTTACGAATCTCGTGG
* * * *
28506262 TCCACT-AGTTTATGATCATGATCTTCTACTTAAGGAATTTTACA
65 TCCACTGA-TTTATGATCACGACCTTCTACTTACGTAATTTTACA
* * *
28506306 AATCTCGTGGTCTGCTGATTTACAATCACTACCTTTTGCTTATCGGATTTTACGAATCTCGTGGT
1 AATCTCGTGGTCTGCTGATTTACAATCACAACCTTCTACTTATCGGATTTTACGAATCTCGTGGT
* * *
28506371 CCACTGATTTACGATCACGACCTTCTAGTGACGTAATTT
66 CCACTGATTTATGATCACGACCTTCTACTTACGTAATTT
28506410 AATGAATCTA
Statistics
Matches: 181, Mismatches: 25, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
107 3 0.02
108 175 0.97
109 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (108 bp):
AATCTCGTGGTCTGCTGATTTACAATCACAACCTTCTACTTATCGGATTTTACGAATCTCGTGGT
CCACTGATTTATGATCACGACCTTCTACTTACGTAATTTTACA
Found at i:28506792 original size:54 final size:53
Alignment explanation
Indices: 28506714--28506862 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 53
28506704 GACTCTCGAG
* * * *
28506714 GTCTGCTAATTTACGATGATGACCTTCGACTTATGGGATTTTATGAAACTCATA
1 GTCTGCTAATTTATGATCACGACCTTC-ACTTATGGGATTTTACGAAACTCATA
* * * * * *
28506768 GTCTGCTGATTTATGATCACGACC-T-ACTTTTGAGATTTTACGAATCTCGTG
1 GTCTGCTAATTTATGATCACGACCTTCACTTATGGGATTTTACGAAACTCATA
* * **
28506819 GTCCGCTAATTTATGATCACGACTTTCTACTTACAGGATTTTAC
1 GTCTGCTAATTTATGATCACGACCTTC-ACTTATGGGATTTTAC
28506863 TAATCTTGCG
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
51 41 0.55
52 1 0.01
53 1 0.01
54 32 0.43
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (53 bp):
GTCTGCTAATTTATGATCACGACCTTCACTTATGGGATTTTACGAAACTCATA
Found at i:28506939 original size:108 final size:108
Alignment explanation
Indices: 28506802--28507030 Score: 300
Period size: 108 Copynumber: 2.1 Consensus size: 108
28506792 TACTTTTGAG
* * *
28506802 ATTTTACGAATCTCGTGGTCCGCTAATTTATGATCACGACTTTCTACTTAC-AGGATTTTACT-A
1 ATTTTACGAATCTCGTGGTCCACTAATTTACGATCACGACCTTCTACTTACGA-GATTTTA-TGA
*
28506865 ATCTTGCGGTGCACTGATTTACGATCACAACCTTCTACTTAAGAA
64 ATCTTGCGGTGCACTGATTTACGATCACAAACTTCTACTTAAGAA
* * *
28506910 ATTTTATGAATCTCGTGGTCCACTGATTTACGATCATGACCTTCTACTTACGAGATTTTATGAAT
1 ATTTTACGAATCTCGTGGTCCACTAATTTACGATCACGACCTTCTACTTACGAGATTTTATGAAT
* ** * * *
28506975 CTTGCGGTTCGTTGATTTACGATCACAAACTTCTACTGACGTA
66 CTTGCGGTGCACTGATTTACGATCACAAACTTCTACTTAAGAA
*
28507018 ATTTTACAAATCT
1 ATTTTACGAATCT
28507031 TGGCGTGTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
107 1 0.01
108 102 0.98
109 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (108 bp):
ATTTTACGAATCTCGTGGTCCACTAATTTACGATCACGACCTTCTACTTACGAGATTTTATGAAT
CTTGCGGTGCACTGATTTACGATCACAAACTTCTACTTAAGAA
Found at i:28506993 original size:612 final size:610
Alignment explanation
Indices: 28505683--28507187 Score: 1677
Period size: 612 Copynumber: 2.5 Consensus size: 610
28505673 ATCTTTCGGG
* * *
28505683 ATTTTACGAATCTCGTGGTTCGCTGATTTACGATCACGACCTTCTACTTACGGGATTTTACAA-C
1 ATTTTACGAATCTCGTGGTCCGCTGATTTACGATCATGACCTTCTACTTAC-GGATTTTAGAATC
* * * * * ** * *
28505747 TCAC-ATTCCACTAATTTATGATTACGACCTTCTACTTTCGTGATTTTATGAATCTAGTCGTGTT
65 TCGCGGTT-CACTGATTTACGATCACGACCTTCTACTGACGTAATTTTATGAATCTAGGCGTGTT
* * * * * * * * **
28505811 CAGGAATAACTCAAAACTGACCACTCTGCCCCTT-AGAGCAAGTTAGATGTTAGAGATTATGGAT
129 AAAGAAGAACTAAAAACTAACCTCTCTG-CCCTTCAGAGCAAGTTAGATGCTAGAGATGATTAAT
* ** *
28505875 ATAGCCACGTTGAGGAAGAACTCAAAACTGACCTTAAAAGAAGAAGAATAGATGAATC-AATCTT
193 ATAGGCGTGTTGAGGAAGAACTCAAAACTGACCTTAAAAG--G-AG-ATAGAGGAATCAAAT-TT
* * * ** *
28505939 CTTACAATT-CCTTTGTGTGACTAAAACTAGTTCTCTTCACCATATTTCTGAAACGAAGCTTGAA
253 GTTAC-ATTGCCTTTGTGAGGCTAAAACTAGTTCTCTTCACCATACGTCTAAAACGAAGCTTGAA
* * * * * * *
28506003 ATAGATTGATATTCTCAGAAAATAAGGAATTTTTTTAAGAGTTTTAGTTGATTTACAATCACAAC
317 ATAGATTGATATTCACAGAAAACAAGGAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACAAC
* *** * * *
28506068 CTTTTACTTATGGGATTTTTTGAATCTCGAGGTCTATTGATTTACGATCACGACCTTCTACTTAT
382 CTTTTACTTACGGGATTTCACGAATCTCGAGGTCTACTAATTTACGATCACGACCTTCGACTTAT
* * * * *
28506133 GGGATTTTAACAATCTCGTGGTCCGTTGATTTGTGATCACGACCTTCTACTTACTAGATTTTACA
447 GGGATTTTAACAAACTCATAGTCCGCTGATTTATGATCACGACC-TCTACTTACTAGATTTTACA
* *
28506198 AATCTCGTGGTCTGCTGATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGCGGT
511 AATCTCGTGGTCCGCTAATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGCGGT
* ** * *
28506263 CCACTAGTTTATGATCATGATCTTCTACTTAAGGA
576 CCACTAGTTTACGATCACAACCTTCTACTTAAGAA
* * * * *
28506298 ATTTTACAAATCTCGTGGTCTGCTGATTTACAATCACT-ACCTTTTGCTTATCGGATTTTACGAA
1 ATTTTACGAATCTCGTGGTCCGCTGATTTACGATCA-TGACCTTCTACTTA-CGGATTTTA-GAA
* * * * *
28506362 TCTCGTGGTCCACTGATTTACGATCACGACCTTCTAGTGACGTAATTTAATGAATCTAGGCATGT
63 TCTCGCGGTTCACTGATTTACGATCACGACCTTCTACTGACGTAATTTTATGAATCTAGGCGTGT
* **
28506427 TGAAGAAGAACTAAAAACTAACCTCTCTGCTTTTCAGAGCAAGTTAGATGCTAGAGATGATTAAT
128 TAAAGAAGAACTAAAAACTAACCTCTCTGCCCTTCAGAGCAAGTTAGATGCTAGAGATGATTAAT
28506492 ATAGGCGTGTTGAGGAAGAACTCAAAACTGACCTTAAAAGGAGATTAGAGGAATCAAATTTGTTA
193 ATAGGCGTGTTGAGGAAGAACTCAAAACTGACCTTAAAAGGAGA-TAGAGGAATCAAATTTGTTA
* * * * * *
28506557 CCTTGCCTTTGTGAGGCTGAAGCTAGTTCTCTTCACCATACGTCTAAAATGAGGCTTGAAATGGA
257 CATTGCCTTTGTGAGGCTAAAACTAGTTCTCTTCACCATACGTCTAAAACGAAGCTTGAAATAGA
*
28506622 TTGAT-TTGCACAGAAAAACAAGGAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTT
322 TTGATATT-CACAG-AAAACAAGGAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACAACCTT
* * * *
28506686 TTACTTACGGG-TTATCACGACTCTCGAGGTCTGCTAATTTACGATGATGACCTTCGACTTATGG
385 TTACTTACGGGATT-TCACGAATCTCGAGGTCTACTAATTTACGATCACGACCTTCGACTTATGG
** * * *
28506750 GATTTTATGAAACTCATAGTCTGCTGATTTATGATCACGA-C-CTACTT-TTGAGATTTTACGAA
449 GATTTTAACAAACTCATAGTCCGCTGATTTATGATCACGACCTCTACTTACT-AGATTTTACAAA
** * * * * *
28506812 TCTCGTGGTCCGCTAATTTATGATCACGACTTTCTACTTACAGGATTTTACTAATCTTGCGGTGC
513 TCTCGTGGTCCGCTAATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGCGGTCC
28506877 ACT-GATTTACGATCACAACCTTCTACTTAAGAA
578 ACTAG-TTTACGATCACAACCTTCTACTTAAGAA
* *
28506910 ATTTTATGAATCTCGTGGTCCACTGATTTACGATCATGACCTTCTACTTACGAGATTTTATGAAT
1 ATTTTACGAATCTCGTGGTCCGCTGATTTACGATCATGACCTTCTACTTACG-GATTTTA-GAAT
* ** * * ** *
28506975 CTTGCGGTTCGTTGATTTACGATCACAAACTTCTACTGACGTAATTTTACAAATCTTGGCGTGTT
64 CTCGCGGTTCACTGATTTACGATCACGACCTTCTACTGACGTAATTTTATGAATCTAGGCGTGTT
* * * * *
28507040 AAAGAAGAACTAAAAATTAGCCTCTCAT-CCCTTCAGAGCAAGTTTGATTCGAGAGATGATTAAT
129 AAAGAAGAACTAAAAACTAACCTCTC-TGCCCTTCAGAGCAAGTTAGATGCTAGAGATGATTAAT
* * * * *
28507104 ATTGGCGTGTTGAGGAAGAACTCAAAACTAATCTTAAAAGAAGGATAGAGGAATTAAATTTGTTA
193 ATAGGCGTGTTGAGGAAGAACTCAAAACTGACCTTAAAAGGA-GATAGAGGAATCAAATTTGTTA
*
28507169 CATTGCCATTGTGAGGCTA
257 CATTGCCTTTGTGAGGCTA
28507188 GAATGACGGA
Statistics
Matches: 742, Mismatches: 130, Indels: 39
0.81 0.14 0.04
Matches are distributed among these distances:
611 5 0.01
612 330 0.44
613 8 0.01
614 79 0.11
615 179 0.24
616 6 0.01
617 134 0.18
618 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (610 bp):
ATTTTACGAATCTCGTGGTCCGCTGATTTACGATCATGACCTTCTACTTACGGATTTTAGAATCT
CGCGGTTCACTGATTTACGATCACGACCTTCTACTGACGTAATTTTATGAATCTAGGCGTGTTAA
AGAAGAACTAAAAACTAACCTCTCTGCCCTTCAGAGCAAGTTAGATGCTAGAGATGATTAATATA
GGCGTGTTGAGGAAGAACTCAAAACTGACCTTAAAAGGAGATAGAGGAATCAAATTTGTTACATT
GCCTTTGTGAGGCTAAAACTAGTTCTCTTCACCATACGTCTAAAACGAAGCTTGAAATAGATTGA
TATTCACAGAAAACAAGGAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACAACCTTTTACTT
ACGGGATTTCACGAATCTCGAGGTCTACTAATTTACGATCACGACCTTCGACTTATGGGATTTTA
ACAAACTCATAGTCCGCTGATTTATGATCACGACCTCTACTTACTAGATTTTACAAATCTCGTGG
TCCGCTAATTTACAATCACAACCTTCTACTTACAGGATTTTACGAATCTCGCGGTCCACTAGTTT
ACGATCACAACCTTCTACTTAAGAA
Found at i:28507022 original size:54 final size:53
Alignment explanation
Indices: 28506802--28507032 Score: 212
Period size: 54 Copynumber: 4.3 Consensus size: 53
28506792 TACTTTTGAG
* * * * * * * * *
28506802 ATTTTACGAATCTCGTGGTCCGCTAATTTATGATCACGACTTTCTACTTACAGG
1 ATTTTATGAATCTTGCGGTCCACTGATTTACGATCACAACCTTCTACTTAC-GA
* *
28506856 ATTTTACT-AATCTTGCGGTGCACTGATTTACGATCACAACCTTCTACTTAAGAA
1 ATTTTA-TGAATCTTGCGGTCCACTGATTTACGATCACAACCTTCTACTTACG-A
* * **
28506910 ATTTTATGAATCTCGTGGTCCACTGATTTACGATCATGACCTTCTACTTACGA
1 ATTTTATGAATCTTGCGGTCCACTGATTTACGATCACAACCTTCTACTTACGA
* ** * *
28506963 GATTTTATGAATCTTGCGGTTCGTTGATTTACGATCACAAACTTCTACTGACGTA
1 -ATTTTATGAATCTTGCGGTCCACTGATTTACGATCACAACCTTCTACTTACG-A
**
28507018 ATTTTACAAATCTTG
1 ATTTTATGAATCTTG
28507033 GCGTGTTAAA
Statistics
Matches: 144, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
53 3 0.02
54 140 0.97
55 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (53 bp):
ATTTTATGAATCTTGCGGTCCACTGATTTACGATCACAACCTTCTACTTACGA
Found at i:28507997 original size:68 final size:68
Alignment explanation
Indices: 28507917--28508164 Score: 299
Period size: 68 Copynumber: 3.6 Consensus size: 68
28507907 GGACAACATT
28507917 TATACATCAAATTGGACAGCATTAATATGCTCAAAATGGACAGCATTATACATCAAATTGGACAG
1 TATACATCAAATTGGACAGCATTAATATGCTCAAAATGGACAGCATTATACATCAAATTGGACAG
28507982 CAC
66 CAC
* * *
28507985 TATACATCAAATTGGACAGCTTTAATATGCTCAAATTGGACATCATTATACATCAAATTGGACAG
1 TATACATCAAATTGGACAGCATTAATATGCTCAAAATGGACAGCATTATACATCAAATTGGACAG
28508050 CATC
66 CA-C
* * * *
28508054 AATATGC-TCAAAATGGACAGCATT-ATA--CATCAAATTGGACAGCATCAATATAC-TCAAAAT
1 --TATACATCAAATTGGACAGCATTAATATGC-TCAAAATGGACAGCAT---TATACATCAAATT
*
28508114 GGACAGCAT
60 GGACAGCAC
* * *
28508123 TATACATTAAATTGGACAGTATCAATATGCTCAAAATGGACA
1 TATACATCAAATTGGACAGCATTAATATGCTCAAAATGGACA
28508165 ACACTATAAC
Statistics
Matches: 154, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
67 5 0.03
68 92 0.60
69 7 0.05
70 40 0.26
71 10 0.06
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (68 bp):
TATACATCAAATTGGACAGCATTAATATGCTCAAAATGGACAGCATTATACATCAAATTGGACAG
CAC
Found at i:28508058 original size:114 final size:116
Alignment explanation
Indices: 28507905--28508120 Score: 366
Period size: 114 Copynumber: 1.9 Consensus size: 116
28507895 CTACCCTATT
*
28507905 TTGGACAACATTTATACATCAAATTGGACAGCATTAATATGCTCAAAATGGACAGCATTATACAT
1 TTGGACAACATTTATACATCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACAT
*
28507970 CAAATTGGACAGCA-C-TATACATCAAATTGGACAGCTTTAATATGCTCAAA
66 CAAATTGGACAGCATCATATAC-TCAAAATGGACAGCTTTAATATGCTCAAA
*
28508020 TTGGACATCA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACAT
1 TTGGACAACATTTATACATCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACAT
28508084 CAAATTGGACAGCATCAATATACTCAAAATGGACAGC
66 CAAATTGGACAGCATC-ATATACTCAAAATGGACAGC
28508121 ATTATACATT
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
114 67 0.71
115 10 0.11
116 13 0.14
117 5 0.05
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (116 bp):
TTGGACAACATTTATACATCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACAT
CAAATTGGACAGCATCATATACTCAAAATGGACAGCTTTAATATGCTCAAA
Found at i:28508147 original size:46 final size:46
Alignment explanation
Indices: 28507923--28508164 Score: 312
Period size: 46 Copynumber: 5.3 Consensus size: 46
28507913 CATTTATACA
* * *
28507923 TCAAATTGGACAGCATTAATATGC-TCAAAATGGACAGCAT---TATAC
1 TCAAAATGGACAGCATT-ATA--CATCAAATTGGACAGCATCAATATGC
* * * *
28507968 ATCAAATTGGACAGCACTATACATCAAATTGGACAGCTTTAATATGC
1 -TCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAATATGC
* *
28508015 TCAAATTGGACATCATTATACATCAAATTGGACAGCATCAATATGC
1 TCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAATATGC
*
28508061 TCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAATATAC
1 TCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAATATGC
* *
28508107 TCAAAATGGACAGCATTATACATTAAATTGGACAGTATCAATATGC
1 TCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAATATGC
28508153 TCAAAATGGACA
1 TCAAAATGGACA
28508165 ACACTATAAC
Statistics
Matches: 178, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
43 1 0.01
44 14 0.08
45 3 0.02
46 156 0.88
47 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.26
Consensus pattern (46 bp):
TCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAATATGC
Found at i:28508907 original size:41 final size:40
Alignment explanation
Indices: 28508844--28508996 Score: 128
Period size: 41 Copynumber: 3.8 Consensus size: 40
28508834 AATGTTTCGT
* * * *
28508844 ACACTAATTGCCATTGCATAGCCGAAGCTATTATAATCTCAC
1 ACACTAACTGCC-TTACATAGCCGAAGCTATT-CAACCTCAC
* *
28508886 ACACTAACTGCCTTACATAGCCGAAGCTATCTCAGCCTCGC
1 ACACTAACTGCCTTACATAGCCGAAGCTAT-TCAACCTCAC
* * * *
28508927 ACACTAAGTGCCATATATAGCCGAAGCTATTCCAA-ATCAC
1 ACACTAACTGCCTTACATAGCCGAAGCTATT-CAACCTCAC
* * * * *
28508967 ACAATAAGTGCCATAAATAGCTGAAGCTAT
1 ACACTAACTGCCTTACATAGCCGAAGCTAT
28508997 CTCGAATTTC
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 31 0.33
41 51 0.54
42 12 0.13
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (40 bp):
ACACTAACTGCCTTACATAGCCGAAGCTATTCAACCTCAC
Found at i:28508987 original size:40 final size:40
Alignment explanation
Indices: 28508861--28508996 Score: 139
Period size: 41 Copynumber: 3.4 Consensus size: 40
28508851 TTGCCATTGC
** * * *
28508861 ATAGCCGAAGCTATTATAATCTCACACACTAACTGCCTTAC
1 ATAGCCGAAGCTATTCCAA-CTCACACACTAAGTGCCATAA
* * *
28508902 ATAGCCGAAGCTA-TCTCAGCCTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATTC-CA-ACTCACACACTAAGTGCCATAA
* *
28508943 ATAGCCGAAGCTATTCCAAATCACACAATAAGTGCCATAA
1 ATAGCCGAAGCTATTCCAACTCACACACTAAGTGCCATAA
*
28508983 ATAGCTGAAGCTAT
1 ATAGCCGAAGCTAT
28508997 CTCGAATTTC
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 31 0.39
41 46 0.58
42 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (40 bp):
ATAGCCGAAGCTATTCCAACTCACACACTAAGTGCCATAA
Found at i:28508993 original size:81 final size:82
Alignment explanation
Indices: 28508844--28508999 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 82
28508834 AATGTTTCGT
* * * * * *
28508844 ACACTAATTGCCATTGCATAGCCGAAGCTATTATAATCTCACACACTAACTGCCTTACATAGCCG
1 ACACTAAGTGCCATT-CATAGCCGAAGCTATTACAATATCACACAATAACTGCCATAAATAGCCG
28508909 AAGCTATCTCAGCCTCGC
65 AAGCTATCTCAGCCTCGC
* * *
28508927 ACACTAAGTGCCATAT-ATAGCCGAAGCTATTCCAA-ATCACACAATAAGTGCCATAAATAGCTG
1 ACACTAAGTGCCAT-TCATAGCCGAAGCTATTACAATATCACACAATAACTGCCATAAATAGCCG
28508990 AAGCTATCTC
65 AAGCTATCTC
28509000 GAATTTCATA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 32 0.51
82 17 0.27
83 13 0.21
84 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.24
Consensus pattern (82 bp):
ACACTAAGTGCCATTCATAGCCGAAGCTATTACAATATCACACAATAACTGCCATAAATAGCCGA
AGCTATCTCAGCCTCGC
Found at i:28514316 original size:25 final size:26
Alignment explanation
Indices: 28514287--28514342 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
28514277 TTAATTAGTA
*
28514287 TAAAATATT-AATAATTTAAT-AAAT
1 TAAAATATTAAATAATTAAATAAAAT
28514311 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATTAAATAATTAAATAAAAT
28514337 TAAAAT
1 TAAAAT
28514343 TTAGGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.67
26 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
TAAAATATTAAATAATTAAATAAAAT
Found at i:28514935 original size:22 final size:19
Alignment explanation
Indices: 28514896--28514937 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
28514886 TGCAAAGTTG
28514896 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
28514915 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
28514937 A
1 A
28514938 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:28521755 original size:8 final size:8
Alignment explanation
Indices: 28521742--28521769 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
28521732 TCAAAATGCA
28521742 AAATTCAC
1 AAATTCAC
28521750 AAATTCAC
1 AAATTCAC
28521758 AAATTCAC
1 AAATTCAC
28521766 AAAT
1 AAAT
28521770 AATGTGACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATTCAC
Found at i:28523492 original size:27 final size:27
Alignment explanation
Indices: 28523461--28523638 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
28523451 TAAATTGTAC
28523461 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
28523488 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28523514 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
28523542 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
28523570 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28523597 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
28523624 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28523639 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:28523575 original size:82 final size:81
Alignment explanation
Indices: 28523462--28523617 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
28523452 AAATTGTACA
* *
28523462 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
28523526 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
28523543 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
28523608 TGCGAGTTGA
65 TGCGAATTGA
28523618 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:28523629 original size:82 final size:81
Alignment explanation
Indices: 28523458--28523638 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
28523448 GATTAAATTG
* *
28523458 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
28523523 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
28523539 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
28523603 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
28523621 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
28523639 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:28525429 original size:182 final size:182
Alignment explanation
Indices: 28525122--28525489 Score: 664
Period size: 182 Copynumber: 2.0 Consensus size: 182
28525112 TCAGCTACCT
28525122 TAGATGATTAAACATGCACTGATTGAGTATCATGTCAATTAATTATAATTTCAATCTGTTTAAAT
1 TAGATGATTAAACATGCACTGATTGAGTATCATGTCAATTAATTATAATTTCAATCTGTTTAAAT
*
28525187 AATTAATTCATTAGTTGCCTTACAATTGTAATGCAAGAATAACTTATTCATGGCTTTACTTAATC
66 AATTAATTCATTAGTTGCCTTACAATTGTAATGCAAGAATAACTTAGTCATGGCTTTACTTAATC
* * *
28525252 AAACATCTTACCGAGGCCTATAACAACACAAACACAATTTTAATAACTCAAG
131 AAACATCTTACCGAGGCCTATAACAACACAAAAAAAAATTTAATAACTCAAG
28525304 TAGATGATTAAACATGCACTGATTGAGTATCATGTCAATTAATTATAATTTCAATCTGTTTAAAT
1 TAGATGATTAAACATGCACTGATTGAGTATCATGTCAATTAATTATAATTTCAATCTGTTTAAAT
*
28525369 AATTAATTCATTAGTTGCCTTACAATTGTAATGCAAGAATAACTTAGTCATGGTTTTACTTAATC
66 AATTAATTCATTAGTTGCCTTACAATTGTAATGCAAGAATAACTTAGTCATGGCTTTACTTAATC
* * *
28525434 AAACATTTTTCCGAGGCCTATAACAACACAAAAAAAAATTTAATAACTCCAG
131 AAACATCTTACCGAGGCCTATAACAACACAAAAAAAAATTTAATAACTCAAG
28525486 TAGA
1 TAGA
28525490 CGAAATGCAA
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 178 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (182 bp):
TAGATGATTAAACATGCACTGATTGAGTATCATGTCAATTAATTATAATTTCAATCTGTTTAAAT
AATTAATTCATTAGTTGCCTTACAATTGTAATGCAAGAATAACTTAGTCATGGCTTTACTTAATC
AAACATCTTACCGAGGCCTATAACAACACAAAAAAAAATTTAATAACTCAAG
Found at i:28527145 original size:53 final size:53
Alignment explanation
Indices: 28527009--28527161 Score: 155
Period size: 53 Copynumber: 2.9 Consensus size: 53
28526999 AAAAGCTTTA
* * *
28527009 GTTGATTTACAATCACGACCTTTTACTTATGAGACTTTACGAATCGTGTAATCC
1 GTTGATTTACAATCACGAACTTTTACTTACGAGATTTTACGAATC-TGTAATCC
** * * ** *
28527063 ACTGATTTACAATCATG-ACTTTTTACTTACGAGATTTTATGAATCTGTGGTCT
1 GTTGATTTACAATCACGAAC-TTTTACTTACGAGATTTTACGAATCTGTAATCC
* * * *
28527116 GTTGATTTACGATCACGAACTTTAACTTACGGGATATTACGAATCT
1 GTTGATTTACAATCACGAACTTTTACTTACGAGATTTTACGAATCT
28527162 CTTGGTCTAC
Statistics
Matches: 79, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
53 41 0.52
54 38 0.48
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (53 bp):
GTTGATTTACAATCACGAACTTTTACTTACGAGATTTTACGAATCTGTAATCC
Found at i:28527605 original size:39 final size:39
Alignment explanation
Indices: 28527560--28527639 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
28527550 TTTTACGAAA
28527560 ATCGCGGTCAGTTGATTTATGATGACGACCTTTTACTGG
1 ATCGCGGTCAGTTGATTTATGATGACGACCTTTTACTGG
28527599 ATCGCGGTCAGTTGATTTATGATGACGACCTTTTACTGG
1 ATCGCGGTCAGTTGATTTATGATGACGACCTTTTACTGG
28527638 AT
1 AT
28527640 TATATGGATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (39 bp):
ATCGCGGTCAGTTGATTTATGATGACGACCTTTTACTGG
Found at i:28527772 original size:54 final size:54
Alignment explanation
Indices: 28527714--28527898 Score: 156
Period size: 54 Copynumber: 3.4 Consensus size: 54
28527704 CACGATATTC
* * * **
28527714 TACTTATGGGATTTAACAAATCTCATGGGCCGTTAATTTATTATCATGACCTTA
1 TACTTAAGGGATTTTACGAATCTCATGGGCCGTTAATTTACGATCATGACCTTA
* ** * * * *
28527768 TACTTAAGGGATTTTATGAATCTTGTAGTCCGTTGATTTACGATCATGACCTTT
1 TACTTAAGGGATTTTACGAATCTCATGGGCCGTTAATTTACGATCATGACCTTA
* * * * ** **
28527822 TACTTACA-GGATTTTACGAATCTCATGGTCTGTTGATTTATGATCGCGACCTCC
1 TACTTA-AGGGATTTTACGAATCTCATGGGCCGTTAATTTACGATCATGACCTTA
* *
28527876 TACTTACGAGATTTTACGAATCT
1 TACTTAAGGGATTTTACGAATCT
28527899 AGGTGTGCTG
Statistics
Matches: 105, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
54 104 0.99
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (54 bp):
TACTTAAGGGATTTTACGAATCTCATGGGCCGTTAATTTACGATCATGACCTTA
Found at i:28528539 original size:346 final size:345
Alignment explanation
Indices: 28527799--28528561 Score: 889
Period size: 346 Copynumber: 2.2 Consensus size: 345
28527789 CTTGTAGTCC
* * * ** ** *
28527799 GTTGATTTACGATCATGACCTTTTACTTACAGGATTTTACGAATCTCATGGTCTGTTGATTTATG
1 GTTGATTTACAATCACGACCTTTTA-TTATAGGATTTTACGAATCTCGCGGTCCATTGATTTACG
* * * *
28527864 ATCGCGACCTCCTACTTACGAGATTTTACGAATCTAGGTGTGCTGAGGAAGAACTCAAAACTAAC
65 AT--CAACCTCCTACATACGAGATTTTACGAATCTAGGTGTGCTCAAGAAGAACTCAAAACTAAC
* **
28527929 CTATCTGCCCTTCAAAGCAAGTTATATGCTAGAGATAATGAATATATGTGTGTTGAGGAAGAACT
128 CTATCTGCCCTTCAAAGCAAGTTAGATGCTAGAGATAATGAATATATGCATGTTGAGGAAGAACT
* *
28527994 CAAAACTAACCTTGAAAGAAAGATGATAATGGAATTAATTTTGTTACATTACCTTTGTGAAGCAG
193 CAAAACTAACCTTGAAAGAAAGATGATAATGGAATCAACTTTGTTACATTACCTTTGTGAAGCAG
* ** * *
28528059 AAGCTAGTTCTCTTCACCATACATCTGATATGTGGCTTTTATTTGATCGATCTGTTCAGAAAAAC
258 AAGCTAGTTCTCTTCACCATACATCTGAAATGTGGCTTGAAATGGATCGATCTGTTCAGAAAAAC
28528124 AAGGAAAATATTGAAAAGCTTCA
323 AAGGAAAATATTGAAAAGCTTCA
* * ** *
28528147 GTTGATTTACAATCACGACC-TTTATCTTTCGAGATTTTTTGAATCTCGCGATCCATTGATTTAC
1 GTTGATTTACAATCACGACCTTTTAT-TATAG-GATTTTACGAATCTCGCGGTCCATTGATTTAC
* * * * *
28528211 AATCAATCTTCTACATACGTGATTTTACGAATCTA-GTCGTGTTCAAGAAGAACTCAAAACTAAC
64 GATCAACCTCCTACATACGAGATTTTACGAATCTAGGT-GTGCTCAAGAAGAACTCAAAACTAAC
* * * * *
28528275 C-ACTCTGCCTTTCAGAGCAAGTTAGATGTTAGAGATTATGCATATA-GCCATGTTGAGGAAGAA
128 CTA-TCTGCCCTTCAAAGCAAGTTAGATGCTAGAGATAATGAATATATG-CATGTTGAGGAAGAA
* * *
28528338 CTCAAAACTGACCTTGAAAGAAGGA-GAATAGAT-GAATCAACTTTGTTACAATT-CCTTTGTGT
191 CTCAAAACTAACCTTGAAAGAAAGATG-ATA-ATGGAATCAACTTTGTTAC-ATTACCTTTGTGA
* * * * *
28528400 GGCTGAAGCTAGTTCTTTTCACTATACTTCTGAAATGTGGCTTGAAATGGATCGATCT-TCTCAG
253 AGCAGAAGCTAGTTCTCTTCACCATACATCTGAAATGTGGCTTGAAATGGATCGATCTGT-TCAG
* *
28528464 AAAAACAA-GAAACT-TTCTAAAGAGCTTCA
317 AAAAACAAGGAAAATATT-GAAA-AGCTTCA
*
28528493 GTTGATTTACAATCACGACCTTTTAGTTATAGGATTTTACGAATCTCGCGGTCCACTGATTTACG
1 GTTGATTTACAATCACGACCTTTTA-TTATAGGATTTTACGAATCTCGCGGTCCATTGATTTACG
28528558 ATCA
65 ATCA
28528562 CAACTTTCTA
Statistics
Matches: 348, Mismatches: 54, Indels: 28
0.81 0.13 0.07
Matches are distributed among these distances:
344 2 0.01
345 14 0.04
346 269 0.77
347 18 0.05
348 45 0.13
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (345 bp):
GTTGATTTACAATCACGACCTTTTATTATAGGATTTTACGAATCTCGCGGTCCATTGATTTACGA
TCAACCTCCTACATACGAGATTTTACGAATCTAGGTGTGCTCAAGAAGAACTCAAAACTAACCTA
TCTGCCCTTCAAAGCAAGTTAGATGCTAGAGATAATGAATATATGCATGTTGAGGAAGAACTCAA
AACTAACCTTGAAAGAAAGATGATAATGGAATCAACTTTGTTACATTACCTTTGTGAAGCAGAAG
CTAGTTCTCTTCACCATACATCTGAAATGTGGCTTGAAATGGATCGATCTGTTCAGAAAAACAAG
GAAAATATTGAAAAGCTTCA
Found at i:28528683 original size:108 final size:108
Alignment explanation
Indices: 28528494--28528754 Score: 310
Period size: 108 Copynumber: 2.4 Consensus size: 108
28528484 AGAGCTTCAG
* * * * * * *
28528494 TTGATTTACAATCACGACCTTTTAGTTATAGGATTTTACGAATCTCGCGGTCCACTGATTTACGA
1 TTGATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCACGGGCCACTGATTTACAA
* * * *
28528559 TCACAACTTTCTACTTACGGGGTTTTATTAATCTCGCGGTCCT-
66 TCACAACTTTCTACTTACGGGATTTTATGAATCTCACGCT-CTA
* * * *
28528602 TTGATTTACGATCACGACCTTTTACCTATGGGATTTTAAAAATCTCATGGGCCACTTATTTACAA
1 TTGATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCACGGGCCACTGATTTACAA
* * *
28528667 TCACAA-TCTTCTACTTATGGGATTTTATGAATCTCATGCTTTA
66 TCACAACT-TTCTACTTACGGGATTTTATGAATCTCACGCTCTA
* *
28528710 TTGATTTACGATCACGACCTTCTACTTATGTGATTTTACAAATCT
1 TTGATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCT
28528755 TGCGACCTGC
Statistics
Matches: 129, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
107 2 0.02
108 127 0.98
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (108 bp):
TTGATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCACGGGCCACTGATTTACAA
TCACAACTTTCTACTTACGGGATTTTATGAATCTCACGCTCTA
Found at i:28528984 original size:54 final size:54
Alignment explanation
Indices: 28528493--28528996 Score: 269
Period size: 54 Copynumber: 9.4 Consensus size: 54
28528483 AAGAGCTTCA
* * * *
28528493 GTTGATTTACAATCACGACCTTTTAGTTATAGGATTTTACGAATCTCGCGGTCC
1 GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
** * * * * * **
28528547 ACTGATTTACGATCACAACTTTCTACTTACGGGGTTTTATTAATCTCGCGGTCC
1 GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
* * * * * ** *
28528601 TTTGATTTACGATCACGACCTTTTACCTATGGGATTTTAAAAATCTCATGGGCC
1 GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
* * * ** ** * **
28528655 ACTT-ATTTACAATCACAATCTTCTACTTATGGGATTTTATGAATCTCATGCTTT
1 -GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
* * * * *
28528709 ATTGATTTACGATCACGACCTTCTACTTATGTGATTTTACAAATCTTGC-GACC
1 GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
* ** * * * ** * ** **
28528762 TGCT-ATTTACGTTGACGACCTTTTACTTATAGGATTTTATGAGTCTTACGGTAT
1 -GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
* ** * * * * * * * **
28528816 ATTGATTTAGGAGCATGGCCTTCTACTTACGTGG-TTTTACAAATATTGTGGTAT
1 GTTGATTTACAATCACGACCTTCTACTTATG-GGATTTTACAAATCTCGCGGTCC
* * * * * * ** ** *
28528870 GTTGATTTACAATCATGACATTTTACTTAAGAGAATTTATGAATCTCATGGTTC
1 GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
* * * *
28528924 GCTGATTGACAATCACGACCTTCTACTTACGGGATTTTACAAATCTCGCGGCCC
1 GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
28528978 GTTGATTTACAATCACGAC
1 GTTGATTTACAATCACGAC
28528997 TTGCTGCATA
Statistics
Matches: 328, Mismatches: 115, Indels: 14
0.72 0.25 0.03
Matches are distributed among these distances:
53 40 0.12
54 284 0.87
55 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (54 bp):
GTTGATTTACAATCACGACCTTCTACTTATGGGATTTTACAAATCTCGCGGTCC
Found at i:28530809 original size:125 final size:124
Alignment explanation
Indices: 28530642--28530919 Score: 394
Period size: 125 Copynumber: 2.2 Consensus size: 124
28530632 TCCTCTCAAT
** * * *
28530642 TTCCAGGACCTACTGTAGCAAAAGAACGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATA
1 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACAAGGCCGCGATTTCACAAATTCTTATCAAACA
** * **
28530707 GCATCCTGCTAGAAGTGATTTTATACTATTTTCTCAAAAATTTCAACTCAAAATTATATC
66 GCATCCTGCTAGAAGCAATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTAT-TC
* *
28530767 TTCCAAGACCTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTATCAAACA
1 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACAAGGCCGCGATTTCACAAATTCTTATCAAACA
* * * *
28530832 GCATCTTGCTAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT
66 GCATCCTGCTAGAAGCAATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTC
*
28530891 TTTCAGGACCTACTGTAGCAAAAGCGCGT
1 TTCCAGGACCTACTGTAGCAAAAGCGCGT
28530920 AAACGTAGGC
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
124 28 0.21
125 107 0.79
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (124 bp):
TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACAAGGCCGCGATTTCACAAATTCTTATCAAACA
GCATCCTGCTAGAAGCAATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTC
Found at i:28531495 original size:41 final size:41
Alignment explanation
Indices: 28531450--28531528 Score: 142
Period size: 41 Copynumber: 1.9 Consensus size: 41
28531440 GAGAAAGAAA
28531450 GCATAACAAGGAAGGAGGTTAAGAAACAT-AGAACCCCAATT
1 GCATAACAAGGAAGGAGGTTAAGAAACATGA-AACCCCAATT
28531491 GCATAACAAGGAAGGAGGTTAAGAAACATGAAACCCCA
1 GCATAACAAGGAAGGAGGTTAAGAAACATGAAACCCCA
28531529 TTAATTGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.13
Consensus pattern (41 bp):
GCATAACAAGGAAGGAGGTTAAGAAACATGAAACCCCAATT
Found at i:28543078 original size:51 final size:52
Alignment explanation
Indices: 28543023--28543120 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
28543013 TTTAATTAAT
* *
28543023 ATTAAAATT-TTAAAAAATTCA-AAAAGATTAT-AAAAATTATTTTTAAAAATC
1 ATTAAAATTATTAAAAAAGT-ATAAAA-ATTATAAAAAAATATTTTTAAAAATC
*
28543074 ATTAAAATTATTTAAAAAGTATAAAAATTATAAAAAAATATTTTTAA
1 ATTAAAATTATTAAAAAAGTATAAAAATTATAAAAAAATATTTTTAA
28543121 TATGTTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
51 15 0.37
52 26 0.63
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (52 bp):
ATTAAAATTATTAAAAAAGTATAAAAATTATAAAAAAATATTTTTAAAAATC
Found at i:28543089 original size:20 final size:20
Alignment explanation
Indices: 28543051--28543104 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
28543041 TCAAAAAGAT
28543051 TATAAAAATTATTTTTAAAAA-
1 TATAAAAATTA--TTTAAAAAG
*
28543072 TCATTAAAATTATTTAAAAAG
1 T-ATAAAAATTATTTAAAAAG
28543093 TATAAAAATTAT
1 TATAAAAATTAT
28543105 AAAAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 18 0.62
21 2 0.07
22 9 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TATAAAAATTATTTAAAAAG
Found at i:28548982 original size:15 final size:15
Alignment explanation
Indices: 28548958--28548992 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
28548948 AAATATATAT
*
28548958 GAACAGTAATCAATG
1 GAACAATAATCAATG
28548973 GAACAATAATCAATG
1 GAACAATAATCAATG
28548988 GAACA
1 GAACA
28548993 GTAAAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
GAACAATAATCAATG
Found at i:28555583 original size:18 final size:18
Alignment explanation
Indices: 28555547--28555584 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
28555537 TGATTTTCAG
*
28555547 GAAGATAAACAAAGGGTT
1 GAAGATAAACAAAGAGTT
28555565 GAAGA-AAACAATAGAGTT
1 GAAGATAAACAA-AGAGTT
28555583 GA
1 GA
28555585 GATCTTGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.53, C:0.05, G:0.26, T:0.16
Consensus pattern (18 bp):
GAAGATAAACAAAGAGTT
Found at i:28559472 original size:3 final size:3
Alignment explanation
Indices: 28559464--28559497 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
28559454 GCATACTTAT
28559464 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G
28559498 GTTAAGGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:28561268 original size:5 final size:5
Alignment explanation
Indices: 28561258--28561283 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
28561248 TTTTTAAAAT
28561258 TAATA TAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA TAATA TAATA T
28561284 TGTAACTTAA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:28566703 original size:172 final size:172
Alignment explanation
Indices: 28566417--28566765 Score: 662
Period size: 172 Copynumber: 2.0 Consensus size: 172
28566407 CTCGAAACCA
*
28566417 AATAAGATAATCACTTGGTAAATATTGTAATACCATATGTTTCCACATGTAAGGTTTCATTTTAG
1 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
28566482 GATGCAAATATTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
66 GATGCAAATATTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
28566547 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
131 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
28566589 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
1 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
*
28566654 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
66 GATGCAAATATTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
* *
28566719 TTGAATTTAATAACAAACTAAATTGATTGTTTCTAAATGAAT
131 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
28566761 AATAA
1 AATAA
28566766 TATCCAAATT
Statistics
Matches: 173, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 173 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (172 bp):
AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
GATGCAAATATTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
Found at i:28567507 original size:418 final size:418
Alignment explanation
Indices: 28566730--28567570 Score: 1122
Period size: 418 Copynumber: 2.0 Consensus size: 418
28566720 TGAATTTAAT
* *
28566730 AACAAACTAAATTGATTGTTTCTAAATGAATAATAATATCCAAATTTGTCCAACAAAAAAACATA
1 AACAAACTAAACTGATTGTTTCTAAATGAACAATAATATCCAAATTTGTCCAACAAAAAAACATA
* ** *
28566795 AACTAAATTGTGTCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATGAAAATTAAAAA
66 AACTAAACTCCGTCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAAAAA
* * *
28566860 AAGTTCCTAATAACAACCTAAAATGCCCAATTGCTTCTACTTCCATCGATTTTCTATTGCCCACG
131 AAGTTCCTAATAACAACCTAAAATGCCCAATTGCTTCCACTTCCACCGATTTTCTATTGCCCACA
* * * * *
28566925 AAGATGTGTCTTTCACCATCACTTGACTTTCGGTAGCTTAGACAGCCTTGCATAGAAACACTTAT
196 AAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCACAGAAACACTTAT
* * *
28566990 GTGAGTAGTAGAACCAGAATCTATCCACCAGGTGTTTCTAGATACTGAAACTAAATTAACCTTAG
261 GTGAGTAGTAGAACCAAAATCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAACCTTAG
* * **
28567055 AACATACTAAAGTAAGAATTACACCTTTATTTGCACGCCAAGCATCATATTT-AACACATTCTTT
326 AACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGCATCATATTTGAA-ACATTCTTT
* *
28567119 CTTCACATGTCTAGACTCGTTACAAAAGA
390 CTTCACATGTCCAAACTCGTTACAAAAGA
* *
28567148 AACAAACTAAACTGATTGTTT-TCGAATGAACAATAATATCCAAAATTT-TCCAACAAAGAAACA
1 AACAAACTAAACTGATTGTTTCT-AAATGAACAATAATATCC-AAATTTGTCCAACAAAAAAACA
*
28567211 TAAACTAAACTCCGTCTAAAAGAC-GATACAACAAAATTGTCTTTTAAATCTAAATAAAAATTAA
64 TAAACTAAACTCCGTCTAAAAGACAG-TACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAA
* * * *
28567275 ATAAA-TTCCTAATAGCAACCTAAAATGCCCAAATTGCTTCCATTTCTACCGATTTT-TCATTGC
128 AAAAAGTTCCTAATAACAACCTAAAATGCCC-AATTGCTTCCACTTCCACCGATTTTCT-ATTGC
* * * *
28567338 CCACAAAGATGTGTCTTTTAACACCACTTGGCTTTCGGTAGCTCAGGCAACCTTGCACAGGAACA
191 CCACAAAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCACAGAAACA
* * *
28567403 CTTATGTGAGTAGTAGAACTAAAAGT-TATCCACCAAGTGTTTCTAGGCACTGAAACTAACTTAA
256 CTTATGTGAGTAGTAGAACCAAAA-TCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAA
* * * * * * ** * *
28567467 -TTTCAGAACAGGCCAAAGTAAGAATTATAAATTTATTTGCAGGCTAGGTGTGATATTTGGAACA
320 CCTT-AGAACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGCATCATATTTGAAACA
*
28567531 TTCTTTCTTCACATGTCCAAACTTGTTACAAAAGA
384 TTCTTTCTTCACATGTCCAAACTCGTTACAAAAGA
28567566 AACAA
1 AACAA
28567571 CTCTCTGTAA
Statistics
Matches: 367, Mismatches: 48, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
417 29 0.08
418 330 0.90
419 8 0.02
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (418 bp):
AACAAACTAAACTGATTGTTTCTAAATGAACAATAATATCCAAATTTGTCCAACAAAAAAACATA
AACTAAACTCCGTCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAAAAA
AAGTTCCTAATAACAACCTAAAATGCCCAATTGCTTCCACTTCCACCGATTTTCTATTGCCCACA
AAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCACAGAAACACTTAT
GTGAGTAGTAGAACCAAAATCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAACCTTAG
AACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGCATCATATTTGAAACATTCTTTC
TTCACATGTCCAAACTCGTTACAAAAGA
Found at i:28571137 original size:25 final size:25
Alignment explanation
Indices: 28571095--28571147 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
28571085 ATTAGCAGAT
*
28571095 ATATATTATCTTAAAAATTATAAA-A
1 ATATACTATCTTAAAAATT-TAAAGA
28571120 ATATACTAT-TTAATAAATTTAAAGA
1 ATATACTATCTTAA-AAATTTAAAGA
28571145 ATA
1 ATA
28571148 AACATGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
ATATACTATCTTAAAAATTTAAAGA
Found at i:28571554 original size:16 final size:15
Alignment explanation
Indices: 28571518--28571556 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
28571508 GTTTAGTCCC
*
28571518 TAGGGTTTTTTGGTT
1 TAGGGTTTTTTGGGT
28571533 TA-GGTTTTTTAGGGT
1 TAGGGTTTTTT-GGGT
28571548 TAGGGTTTT
1 TAGGGTTTT
28571557 GTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 8 0.38
15 7 0.33
16 6 0.29
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.56
Consensus pattern (15 bp):
TAGGGTTTTTTGGGT
Found at i:28571617 original size:21 final size:21
Alignment explanation
Indices: 28571551--28571617 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
28571541 TTAGGGTTAG
28571551 GGTTTTGTTAAAATAATTTAA
1 GGTTTTGTTAAAATAATTTAA
* ** *** ** *
28571572 GATTAGGTTTGTATGGTTTAG
1 GGTTTTGTTAAAATAATTTAA
28571593 GGTTTTGTTAAAATAATTTAA
1 GGTTTTGTTAAAATAATTTAA
28571614 GGTT
1 GGTT
28571618 CTAGGTTTTA
Statistics
Matches: 28, Mismatches: 18, Indels: 0
0.61 0.39 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (21 bp):
GGTTTTGTTAAAATAATTTAA
Found at i:28571707 original size:34 final size:33
Alignment explanation
Indices: 28571663--28571778 Score: 117
Period size: 34 Copynumber: 3.5 Consensus size: 33
28571653 TTATTGTTCT
*
28571663 TTTTTTAAAAATTAATTAAATTAGAGTTTAAGGG
1 TTTTTAAAAAATTAATTAAATTAGAGTTT-AGGG
* * * *
28571697 TTTTTAAAAAATTAATTAATTTTGGGTTTAGTG
1 TTTTTAAAAAATTAATTAAATTAGAGTTTAGGG
* * **
28571730 TTTTTAAAAAAATTAATTAAATTTGGGTTTA-TT
1 TTTTT-AAAAAATTAATTAAATTAGAGTTTAGGG
*
28571763 TTTTTAAAAAAATAAT
1 TTTTTAAAAAATTAAT
28571779 ATTGTGATTA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 10 0.14
33 14 0.19
34 49 0.67
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGAGTTTAGGG
Found at i:28572027 original size:125 final size:125
Alignment explanation
Indices: 28571835--28572167 Score: 463
Period size: 125 Copynumber: 2.6 Consensus size: 125
28571825 GATTTTAGTT
* * * * * *
28571835 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGATAG-TTCTAAACAATTAGAGTAAAA
1 TTTTTCTACAGTAGTTCCT-GAAAAATAATTTTGAGAAGA-CGTTTCTGAACAAATAGTGTCAAA
* * * *
28571899 AATGATTCAAGTAGGATGCACT-ATCAGCAAAATTGATGAAAAAAGCTCCTACGTGGACACTC
64 AATGCTTCAAGCAGGATGCACTGA-CAGCAAAATTGAAGAAAAAAGCTCCCACGTGGACACTC
*
28571961 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGTGAAGACGTTTCTGAACAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAA
* * *
28572026 TGCTTCAAGCAGGATGCATTGACAGCAAAATTGAAGAAAGAAGCTCCCACGTGGACGCTC
66 TGCTTCAAGCAGGATGCACTGACAGCAAAATTGAAGAAAAAAGCTCCCACGTGGACACTC
*
28572086 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* *
28572151 ACGCTTCAAGCATGATG
65 ATGCTTCAAGCAGGATG
28572168 GGACATGTAC
Statistics
Matches: 186, Mismatches: 18, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
124 1 0.01
125 108 0.58
126 77 0.41
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAA
TGCTTCAAGCAGGATGCACTGACAGCAAAATTGAAGAAAAAAGCTCCCACGTGGACACTC
Found at i:28573373 original size:21 final size:21
Alignment explanation
Indices: 28573349--28573392 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
28573339 GTTCAGCTTT
*
28573349 CGGTGGGGGTTGGGGTTGCTC
1 CGGTGAGGGTTGGGGTTGCTC
*
28573370 CGGTGAGGGTTGTGGTTGCTC
1 CGGTGAGGGTTGGGGTTGCTC
28573391 CG
1 CG
28573393 ATTGTGGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.16, G:0.52, T:0.30
Consensus pattern (21 bp):
CGGTGAGGGTTGGGGTTGCTC
Found at i:28592488 original size:12 final size:12
Alignment explanation
Indices: 28592471--28592496 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28592461 CAAAACAGGC
28592471 TTTTAGCGGCGT
1 TTTTAGCGGCGT
28592483 TTTTAGCGGCGT
1 TTTTAGCGGCGT
28592495 TT
1 TT
28592497 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:28592651 original size:73 final size:73
Alignment explanation
Indices: 28592564--28592732 Score: 259
Period size: 73 Copynumber: 2.3 Consensus size: 73
28592554 AAAAAAAGCA
* * * *
28592564 TTAGCGTCGTTTTTGAGCAAAGCGCCGC-AAATAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACT
*
28592628 TTCGGGGAT
65 TTCAGGGAT
**
28592637 TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACCTAAGCCCAACGATTCCGTTTTCTGAACTT
1 TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACTT
28592702 TCAGGGAT
66 TCAGGGAT
28592710 TTAGCGGCGTTTTTGGTAAAGCG
1 TTAGCGGCGTTTTTGGTAAAGCG
28592733 TCGCTAAAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 11 0.12
73 77 0.88
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (73 bp):
TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACTT
TCAGGGAT
Found at i:28593251 original size:146 final size:146
Alignment explanation
Indices: 28592728--28593238 Score: 918
Period size: 146 Copynumber: 3.5 Consensus size: 146
28592718 GTTTTTGGTA
28592728 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
* *
28592793 TATAAAAAAAT-AAAAAATTTTAGAATAGCAAAACGGTGTCGTTTTGTTCAAAATGAAAAAATTT
66 TATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
*
28592857 TGCGGCGCTTTATAAG
131 TGCGGCGCTTTATAGG
* * *
28592873 AAGCGCCGCTAAAGGTAAGCAATAGCGGTGTTTCCTATAAAAATGCCGCAAAAAATAAATCAATT
1 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
28592938 TATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
66 TATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
28593003 TGCGGCGCTTTATAGG
131 TGCGGCGCTTTATAGG
* *
28593019 AAGCGTCGCTAAAGGTAAGCAATAGCGGTGTTTCCTATAAAAATGCCGCAAAAAATAAATCAATT
1 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
28593084 TATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
66 TATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
28593149 TGCGGCGCTTTATAGG
131 TGCGGCGCTTTATAGG
*
28593165 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTTC-ATAGAAAACGCCGCAAAAAATAAATCAAT
1 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATA-AAAACGCCGCAAAAAATAAATCAAT
28593229 TTATAAAAAA
65 TTATAAAAAA
28593239 TTCCCCAAAA
Statistics
Matches: 354, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
145 76 0.21
146 278 0.79
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (146 bp):
AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
TATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
TGCGGCGCTTTATAGG
Found at i:28593832 original size:14 final size:15
Alignment explanation
Indices: 28593804--28593836 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
28593794 AAGTTTTATA
28593804 GATTATGGAATTAGG
1 GATTATGGAATTAGG
28593819 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
28593833 GATT
1 GATT
28593837 CTGATTTAAG
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:28593878 original size:14 final size:14
Alignment explanation
Indices: 28593859--28593925 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
28593849 TTAATGTGAT
* *
28593859 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
28593873 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
28593887 TTAAGGGTTA--GG
1 TTAAGGGTTAGGGG
* **
28593899 TTAGGGGTTAGATG
1 TTAAGGGTTAGGGG
*
28593913 TTAAGAGTTAGGG
1 TTAAGGGTTAGGG
28593926 ATTTAGGGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 11 0.26
14 32 0.74
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:28593906 original size:26 final size:26
Alignment explanation
Indices: 28593871--28593924 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
28593861 AAGGTTTATG
* *
28593871 GGTTAAGGGTTAGGGGTTAAGGGTTA
1 GGTTAAGGGTTAGAGGTTAAGAGTTA
* *
28593897 GGTTAGGGGTTAGATGTTAAGAGTTA
1 GGTTAAGGGTTAGAGGTTAAGAGTTA
28593923 GG
1 GG
28593925 GATTTAGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.31
Consensus pattern (26 bp):
GGTTAAGGGTTAGAGGTTAAGAGTTA
Found at i:28593915 original size:19 final size:20
Alignment explanation
Indices: 28593870--28593908 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
28593860 TAAGGTTTAT
28593870 GGGTTAAGGGTTAGGGGTTAA
1 GGGTTAA-GGTTAGGGGTTAA
28593891 GGGTT-AGGTTAGGGGTTA
1 GGGTTAAGGTTAGGGGTTA
28593909 GATGTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 1 0.06
21 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.31
Consensus pattern (20 bp):
GGGTTAAGGTTAGGGGTTAA
Found at i:28594213 original size:7 final size:7
Alignment explanation
Indices: 28594203--28594334 Score: 93
Period size: 7 Copynumber: 18.4 Consensus size: 7
28594193 GATTTAAGGT
28594203 TTAGGGG
1 TTAGGGG
*
28594210 TTAGTGG
1 TTAGGGG
28594217 TTAGGGG
1 TTAGGGG
28594224 TTAGGGG
1 TTAGGGG
* *
28594231 TTAAGAG
1 TTAGGGG
*
28594238 TTAGGGAT
1 TTAGGG-G
28594246 TTAGGGG
1 TTAGGGG
**
28594253 TTAGGAC
1 TTAGGGG
* *
28594260 TTAAGGA
1 TTAGGGG
* *
28594267 TTCGGGAT
1 TTAGGG-G
* *
28594275 TTAAGGT
1 TTAGGGG
28594282 TTAGGGG
1 TTAGGGG
*
28594289 TTAGAGG
1 TTAGGGG
28594296 TTAGGGG
1 TTAGGGG
28594303 TTAGGGG
1 TTAGGGG
* *
28594310 TTAAGAG
1 TTAGGGG
*
28594317 TTAGGGAT
1 TTAGGG-G
28594325 TTAGGGG
1 TTAGGGG
28594332 TTA
1 TTA
28594335 AGACTTAAGG
Statistics
Matches: 94, Mismatches: 28, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
7 78 0.83
8 16 0.17
ACGTcount: A:0.23, C:0.02, G:0.43, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:28594263 original size:29 final size:28
Alignment explanation
Indices: 28594217--28594344 Score: 92
Period size: 29 Copynumber: 4.7 Consensus size: 28
28594207 GGGTTAGTGG
**
28594217 TTAGGGGTTAGGGGTTAAGAGTTAGGGAT
1 TTAGGGGTTAGGACTTAAG-GTTAGGGAT
*
28594246 TTAGGGGTTAGGACTTAAGGATTCGGGAT
1 TTAGGGGTTAGGACTTAAGG-TTAGGGAT
* *
28594275 TTAAGGTTTAGG------GGTTAGAGG--
1 TTAGGGGTTAGGACTTAAGGTTAG-GGAT
**
28594296 TTAGGGGTTAGGGGTTAAGAGTTAGGGAT
1 TTAGGGGTTAGGACTTAAG-GTTAGGGAT
*
28594325 TTAGGGGTTAAGACTTAAGG
1 TTAGGGGTTAGGACTTAAGG
28594345 ATTCAAGGGT
Statistics
Matches: 77, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
21 10 0.13
22 3 0.04
23 4 0.05
27 3 0.04
28 7 0.09
29 50 0.65
ACGTcount: A:0.25, C:0.02, G:0.41, T:0.31
Consensus pattern (28 bp):
TTAGGGGTTAGGACTTAAGGTTAGGGAT
Found at i:28594323 original size:79 final size:79
Alignment explanation
Indices: 28594192--28594348 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 79
28594182 TTAAAGGTTA
* *
28594192 GGATTTAAGGTTTAGGGGTTAGTGGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGGTTAG
1 GGATTTAAGGTTTAGGGGTTAGAGGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGGTTAA
28594257 GACTTAAGGATTCG
66 GACTTAAGGATTCG
28594271 GGATTTAAGGTTTAGGGGTTAGAGGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGGTTAA
1 GGATTTAAGGTTTAGGGGTTAGAGGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGGTTAA
28594336 GACTTAAGGATTC
66 GACTTAAGGATTC
28594349 AAGGGTCGGG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.24, C:0.03, G:0.41, T:0.32
Consensus pattern (79 bp):
GGATTTAAGGTTTAGGGGTTAGAGGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGGTTAA
GACTTAAGGATTCG
Found at i:28594346 original size:22 final size:22
Alignment explanation
Indices: 28594303--28594347 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
28594293 AGGTTAGGGG
* *
28594303 TTAGGGGTTAAGAGTTAGGGAT
1 TTAGGGGTTAAGACTTAAGGAT
28594325 TTAGGGGTTAAGACTTAAGGAT
1 TTAGGGGTTAAGACTTAAGGAT
28594347 T
1 T
28594348 CAAGGGTCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (22 bp):
TTAGGGGTTAAGACTTAAGGAT
Found at i:28594354 original size:22 final size:22
Alignment explanation
Indices: 28594307--28594354 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
28594297 TAGGGGTTAG
* * * *
28594307 GGGTTAAGAGTTAGGGATTTAG
1 GGGTTAAGACTTAAGGATTCAA
28594329 GGGTTAAGACTTAAGGATTCAA
1 GGGTTAAGACTTAAGGATTCAA
28594351 GGGT
1 GGGT
28594355 CGGGTTAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.38, T:0.29
Consensus pattern (22 bp):
GGGTTAAGACTTAAGGATTCAA
Found at i:28594682 original size:19 final size:18
Alignment explanation
Indices: 28594653--28594706 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
28594643 GGACCAAATT
*
28594653 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
28594671 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
28594690 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
28594707 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:28594760 original size:47 final size:48
Alignment explanation
Indices: 28594691--28594789 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
28594681 AAAAATGAAA
*
28594691 TAAAAACACTAAAATTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
28594739 TAAAAA-ACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
28594786 TAAA
1 TAAA
28594790 CAAAACTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (48 bp):
TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
Found at i:28595130 original size:16 final size:15
Alignment explanation
Indices: 28595109--28595148 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
28595099 TGGTTGAAAT
28595109 ATTTATTCCCCTCCAA
1 ATTTATTCCCCTCC-A
*
28595125 ATTTATTCCCCTTCA
1 ATTTATTCCCCTCCA
28595140 ATTT-TTCCC
1 ATTTATTCCC
28595149 ATACCCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTATTCCCCTCCA
Found at i:28599776 original size:43 final size:43
Alignment explanation
Indices: 28599528--28599779 Score: 387
Period size: 43 Copynumber: 5.9 Consensus size: 43
28599518 ACTTTTATCA
* * *
28599528 AAAGCGTCGCTAAAGATCATGTTTTTTAGTGGCGTTTGTGGTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* *
28599571 AAAGCGTCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGGTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* *
28599614 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* *
28599657 AAAGCGCCGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* *
28599700 AAGGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* *
28599743 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
28599780 TGCCTCATAA
Statistics
Matches: 195, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 195 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
Found at i:28600915 original size:3 final size:3
Alignment explanation
Indices: 28600907--28600950 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
28600897 AGGAATCAGG
28600907 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
28600951 AGCTACTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:28605761 original size:41 final size:41
Alignment explanation
Indices: 28605680--28605762 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
28605670 TTTAATTAAA
28605680 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
1 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
*
28605721 TAATAATTCAAAGAAATTAATTTAATTACTAAGTTTTCTAT
1 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
28605762 T
1 T
28605763 GTTTATGGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (41 bp):
TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
Found at i:28615128 original size:27 final size:26
Alignment explanation
Indices: 28615088--28615138 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
28615078 TTATTTTATC
*
28615088 AAAATAAATTTAAAAATCAAAAAACAA
1 AAAATAAATATAAAAAT-AAAAAACAA
*
28615115 AAAATTAATATAAAAATAAAAAAC
1 AAAATAAATATAAAAATAAAAAAC
28615139 TATCCTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.20
Consensus pattern (26 bp):
AAAATAAATATAAAAATAAAAAACAA
Found at i:28615550 original size:2 final size:2
Alignment explanation
Indices: 28615543--28615569 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
28615533 ATAAAAGAAG
28615543 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
28615570 AGGGTGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28634710 original size:43 final size:43
Alignment explanation
Indices: 28634663--28634779 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
28634653 CATACGGGTA
* * * * *
28634663 CATCATCGGATGAATCGAAGTAGTTATATTGGCACACGCAGTG
1 CATCATCGGATAAATCGAAGTAATTATACTGACACAAGCAGTG
* * *
28634706 CATCATTGGATAAATCGAAGCAATTATACTGACACAAGTAGTG
1 CATCATCGGATAAATCGAAGTAATTATACTGACACAAGCAGTG
* * *
28634749 CATCATCGAATAAATTGAAGTAATCATACTG
1 CATCATCGGATAAATCGAAGTAATTATACTG
28634780 CACGTAAGTG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (43 bp):
CATCATCGGATAAATCGAAGTAATTATACTGACACAAGCAGTG
Found at i:28637224 original size:11 final size:11
Alignment explanation
Indices: 28637208--28637243 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
28637198 ATGACCTTTA
28637208 TTTCACTATTT
1 TTTCACTATTT
28637219 TTTCACTATTT
1 TTTCACTATTT
28637230 TTTCACTATTT
1 TTTCACTATTT
28637241 TTT
1 TTT
28637244 GGAATGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTCACTATTT
Found at i:28640431 original size:67 final size:67
Alignment explanation
Indices: 28640323--28640456 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 67
28640313 GGTATATCCC
*
28640323 TCTCCTTTTTGCATTCTTTTTGGTTTCAGTGGTGAATTCTTCGTTCGATCGTTGGTGCTAGGATT
1 TCTCCTTTTTGCATTCTTTTTGGTTTCAGTGGTGAATTCTTCGTTCGATCATTGGTGCTAGGATT
28640388 TT
66 TT
* * *
28640390 TCTCCTTTTTGCATTCTTTTTGGTTTCGGTGGTGAATTCTTCGTTTGATCATTGGTGGTAGGATT
1 TCTCCTTTTTGCATTCTTTTTGGTTTCAGTGGTGAATTCTTCGTTCGATCATTGGTGCTAGGATT
28640455 TT
66 TT
28640457 GAGTTCTCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.10, C:0.15, G:0.23, T:0.51
Consensus pattern (67 bp):
TCTCCTTTTTGCATTCTTTTTGGTTTCAGTGGTGAATTCTTCGTTCGATCATTGGTGCTAGGATT
TT
Found at i:28644088 original size:25 final size:25
Alignment explanation
Indices: 28644003--28644100 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 25
28643993 ATGAGTGTCT
* * *
28644003 CGATATTTGGCTCTCACGAGCTTCT
1 CGATATATGGCTCTCATGAGCTTCC
* * * *
28644028 TGTTATATAGCTCTAATGAGCTTCC
1 CGATATATGGCTCTCATGAGCTTCC
*
28644053 CGAT-TAATGGCTCTCTTGAGCTTCC
1 CGATAT-ATGGCTCTCATGAGCTTCC
* * *
28644078 CGATATTTGGCTCGCAAGAGCTT
1 CGATATATGGCTCTCATGAGCTT
28644101 TTCGTTATAT
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (25 bp):
CGATATATGGCTCTCATGAGCTTCC
Found at i:28649159 original size:15 final size:17
Alignment explanation
Indices: 28649139--28649176 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
28649129 TTTAGTCTTG
*
28649139 ATGAATTAT-TGT-TAA
1 ATGAATTATATATATAA
28649154 ATGAATTATATATATAA
1 ATGAATTATATATATAA
28649171 ATGAAT
1 ATGAAT
28649177 ATGTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 2 0.10
17 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (17 bp):
ATGAATTATATATATAA
Found at i:28650672 original size:18 final size:18
Alignment explanation
Indices: 28650635--28650673 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
28650625 TTTAGAATTT
* *
28650635 TGGGCCCACATGCTCATG
1 TGGGCCCACAAGCCCATG
*
28650653 TGGGCCCACAAGCCCGTG
1 TGGGCCCACAAGCCCATG
28650671 TGG
1 TGG
28650674 CCAACACACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.18
Consensus pattern (18 bp):
TGGGCCCACAAGCCCATG
Found at i:28656213 original size:29 final size:29
Alignment explanation
Indices: 28656181--28656257 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
28656171 TTAACCACGG
*
28656181 ATTATGAACAAAATTGAAGGAATCAATGA
1 ATTATGAACAAAATTGAAGGAATCAACGA
* *
28656210 ATTATGAA-ATGAA-TGAAAGGAATCAACGG
1 ATTATGAACA-AAATTG-AAGGAATCAACGA
*
28656239 ATTATGAACAACATTGAAG
1 ATTATGAACAAAATTGAAG
28656258 AAAAATGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
28 3 0.08
29 33 0.85
30 3 0.08
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.23
Consensus pattern (29 bp):
ATTATGAACAAAATTGAAGGAATCAACGA
Found at i:28662709 original size:88 final size:88
Alignment explanation
Indices: 28662560--28662736 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
28662550 GAAAGCAACT
28662560 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTACTCATATTTTATCTCATTAATCTCTGTG
1 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTACTCATATTTTATCTCATTAATCTCTGTG
28662625 AGATAATATTCATTCTCCCAATA
66 AGATAATATTCATTCTCCCAATA
*
28662648 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTGCTCATATTTTATCTCATTAATCTCTGTG
1 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTACTCATATTTTATCTCATTAATCTCTGTG
28662713 AGATAATATTCATTCTCCCAATA
66 AGATAATATTCATTCTCCCAATA
28662736 T
1 T
28662737 TATCTTATTT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (88 bp):
TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTACTCATATTTTATCTCATTAATCTCTGTG
AGATAATATTCATTCTCCCAATA
Found at i:28664885 original size:24 final size:22
Alignment explanation
Indices: 28664838--28664885 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
28664828 ATCATGGTGG
28664838 AATTGCACTTAAGGCTTGGGTA
1 AATTGCACTTAAGGCTTGGGTA
* *
28664860 AATTGCATGTTAAGGACTTGGTTA
1 AATTGCA-CTTAAGG-CTTGGGTA
28664884 AA
1 AA
28664886 CACTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 6 0.27
24 9 0.41
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (22 bp):
AATTGCACTTAAGGCTTGGGTA
Found at i:28666058 original size:20 final size:21
Alignment explanation
Indices: 28666021--28666059 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
28666011 TGAAATAATA
*
28666021 TAATTTCTCATTTAATATATT
1 TAATTTCTCATATAATATATT
*
28666042 TAATTT-TCATATGATATA
1 TAATTTCTCATATAATATA
28666060 AATTATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (21 bp):
TAATTTCTCATATAATATATT
Found at i:28673313 original size:42 final size:42
Alignment explanation
Indices: 28673175--28673401 Score: 302
Period size: 42 Copynumber: 5.5 Consensus size: 42
28673165 TTTAAACAGA
* * * *
28673175 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATAT-TGT
* * * *
28673216 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
28673257 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* *
28673299 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
28673341 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
28673383 TTCACCGGCATTAAGCCTG
1 TTCACCGGCATTAAGCCTG
28673402 ATAGGCACTG
Statistics
Matches: 167, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
40 3 0.02
41 61 0.37
42 103 0.62
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:28676219 original size:114 final size:110
Alignment explanation
Indices: 28676074--28676297 Score: 315
Period size: 114 Copynumber: 2.0 Consensus size: 110
28676064 ATTCAATAGT
* * *
28676074 GATTATGGTCTTTTTCCGAAATGGAAAAATGGAATCATTTGGAAATGAATGTAGGTTTCCAAAAT
1 GATTATGGTCTTTCTCCGAAATAGAAAAATGGAATCATTTGGAAATGAATGGAGGTTTCC--AA-
* * *
28676139 GGAAATAGAAATGAAAATGATTCATTTGCAATCCTATATAGATTACTTAA
63 --AAATAGAAATGAAAATGATCCATTTGCAATACTATATAGATAACTTAA
* *
28676189 GATTATGGT-TTTCTCCGAAATAGAGAAATGGAATCATTTTGAAATGAATGGAGGTTTCCAAAAA
1 GATTATGGTCTTTCTCCGAAATAGAAAAATGGAATCATTTGGAAATGAATGGAGGTTTCCAAAAA
*
28676253 TGGAAATGAAAATGATCCATTTGCAATACTATATAGATAACTTAA
66 TAGAAATGAAAATGATCCATTTGCAATACTATATAGATAACTTAA
28676298 AATATGATAG
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
109 44 0.44
112 2 0.02
114 45 0.45
115 9 0.09
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (110 bp):
GATTATGGTCTTTCTCCGAAATAGAAAAATGGAATCATTTGGAAATGAATGGAGGTTTCCAAAAA
TAGAAATGAAAATGATCCATTTGCAATACTATATAGATAACTTAA
Found at i:28684238 original size:3 final size:3
Alignment explanation
Indices: 28684213--28684274 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
28684203 TTTTTAAAGT
* * *
28684213 TTA TT- TTA TTA ATA TTG TTA TTA TTA -TA TTA TTA TCA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28684258 TTA TATA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA T
28684275 ACCTGCATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 6 0.12
3 40 0.82
4 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:28684244 original size:8 final size:8
Alignment explanation
Indices: 28684231--28684271 Score: 66
Period size: 8 Copynumber: 5.1 Consensus size: 8
28684221 TTAATATTGT
28684231 TATTATTA
1 TATTATTA
28684239 TATTATTA
1 TATTATTA
28684247 TCATTATTA
1 T-ATTATTA
28684256 TATTA-TA
1 TATTATTA
28684263 TATTATTA
1 TATTATTA
28684271 T
1 T
28684272 TATACCTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.23
8 16 0.52
9 8 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATTA
Found at i:28684245 original size:17 final size:17
Alignment explanation
Indices: 28684213--28684275 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
28684203 TTTTTAAAGT
28684213 TTATT-TTATTA-A-TA
1 TTATTATTATTATATTA
*
28684227 TTGTTATTATTATATTA
1 TTATTATTATTATATTA
*
28684244 TTATCATTATTATATTA
1 TTATTATTATTATATTA
28684261 TATATTATTATTATA
1 T-TATTATTATTATA
28684276 CCTGCATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 4 0.10
15 6 0.15
16 1 0.02
17 18 0.44
18 12 0.29
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATTATTATTATATTA
Found at i:28684411 original size:10 final size:10
Alignment explanation
Indices: 28684386--28684489 Score: 53
Period size: 10 Copynumber: 11.1 Consensus size: 10
28684376 TTTCATAGTT
*
28684386 TTTATATAAA
1 TTTATATATA
*
28684396 TGTATATATA
1 TTTATATATA
28684406 -TT-TATAT-
1 TTTATATATA
28684413 TTTATA-ATA
1 TTTATATATA
*
28684422 TTTATACAT-
1 TTTATATATA
**
28684431 TTTCCATAT-
1 TTTATATATA
*
28684440 TTTATA-ATC
1 TTTATATATA
* *
28684449 TATATATATG
1 TTTATATATA
*
28684459 TTTATACATA
1 TTTATATATA
28684469 TTT-TATAATA
1 TTTATAT-ATA
*
28684479 TGTATATATA
1 TTTATATATA
28684489 T
1 T
28684490 ATTCATACAC
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
8 11 0.15
9 26 0.37
10 31 0.44
11 3 0.04
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (10 bp):
TTTATATATA
Found at i:28684439 original size:27 final size:28
Alignment explanation
Indices: 28684409--28684484 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 28
28684399 ATATATATTT
* *
28684409 ATATTTTATAATATTTATACATTT-TCC
1 ATATTTTATAATATATATACATTTATAC
**
28684436 ATATTTTATAATCTATATATATGTTTATAC
1 ATATTTTATAA--TATATATACATTTATAC
*
28684466 ATATTTTATAATATGTATA
1 ATATTTTATAATATATATA
28684485 TATATATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 11 0.27
28 7 0.17
29 10 0.24
30 13 0.32
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (28 bp):
ATATTTTATAATATATATACATTTATAC
Found at i:28684486 original size:22 final size:23
Alignment explanation
Indices: 28684449--28684492 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
28684439 TTTTATAATC
*
28684449 TATATATATGTTTATACATATTT
1 TATATATATGTATATACATATTT
*
28684472 TATA-ATATGTATATATATATT
1 TATATATATGTATATACATATT
28684493 CATACACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATATATGTATATACATATTT
Found at i:28684498 original size:32 final size:30
Alignment explanation
Indices: 28684435--28684503 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
28684425 ATACATTTTC
* *
28684435 CATATTTTATAATCTATATATATGTTTATA
1 CATATTTTATAATCTATATATATATTCATA
*
28684465 CATATTTTATAATATGTATATATATATTCATA
1 CATATTTTAT-A-ATCTATATATATATTCATA
28684497 CACTATT
1 CA-TATT
28684504 CAAAACTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 10 0.30
31 1 0.03
32 18 0.55
33 4 0.12
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (30 bp):
CATATTTTATAATCTATATATATATTCATA
Found at i:28693936 original size:50 final size:49
Alignment explanation
Indices: 28693758--28694040 Score: 163
Period size: 50 Copynumber: 5.7 Consensus size: 49
28693748 TTGGCATTAC
* * *
28693758 AGTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTT-CCTGGCAGTGT
* * * * ** * ** * * * *
28693808 AGTGGAACAGACTAAAACCACGATAGCGGATCTTGTTTCCCCGACATTGC
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTT-CCTGGCAGTGT
* ** * ** * *
28693858 AATTAAAAAGATTGAAGTTACAATGGCGAATCTTACTTCCTTGGCGGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCC-TGGCAGTGT
* ** * * *
28693908 AGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTTCC-GACATTGC
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTT-ACTTCCTGGCAGTGT
* * * * *
28693957 AATTGAAAAGATTGAAGCCACAATGACGAATCTTACTTTCCTGGCAGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTAC-TTCCTGGCAGTGT
* * * *
28694007 AGTGGAACATATTGAAGCTACGACTGCGAATCTT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTT
28694041 GTTTCCCGAC
Statistics
Matches: 160, Mismatches: 69, Indels: 8
0.68 0.29 0.03
Matches are distributed among these distances:
49 38 0.24
50 118 0.74
51 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (49 bp):
AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTGGCAGTGT
Found at i:28693974 original size:49 final size:49
Alignment explanation
Indices: 28693910--28694052 Score: 133
Period size: 49 Copynumber: 2.9 Consensus size: 49
28693900 GGCGGTGTAG
*
28693910 TGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTTCCGACATTGCAA
1 TGGAAAAGATTGAAGCCACGACGGCGAATCTTGTTTTCCGACATTGCAA
* * * * ** * * * *
28693959 TTGAAAAGATTGAAGCCACAATGACGAATCTTACTTTCCTGGCAGTGTAG
1 TGGAAAAGATTGAAGCCACGACGGCGAATCTTGTTTTCC-GACATTGCAA
* * * * *
28694009 TGGAACATATTGAAGCTACGACTGCGAATCTTGTTTCCCGACAT
1 TGGAAAAGATTGAAGCCACGACGGCGAATCTTGTTTTCCGACAT
28694053 CACAGTTAAA
Statistics
Matches: 69, Mismatches: 24, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
49 35 0.51
50 34 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (49 bp):
TGGAAAAGATTGAAGCCACGACGGCGAATCTTGTTTTCCGACATTGCAA
Found at i:28694007 original size:99 final size:99
Alignment explanation
Indices: 28693766--28694052 Score: 387
Period size: 99 Copynumber: 2.9 Consensus size: 99
28693756 ACAGTGGAAT
* * * * * *
28693766 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGACTAAAACCACGA
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
* *
28693831 TAGCGGATCTTGTTTCCCCGACATTGCAATTAAAA
66 CAGCGAATCTTGTTT-CCCGACATTGCAATTAAAA
**
28693866 AGATTGAAGTTACAATGGCGAATCTTAC-TTCCTTGGCGGTGTAGTGGAACAGATTGAAGCCACG
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCC-TGGCGGTGTAGTGGAACAGATTGAAGCCACG
* * *
28693930 ACGGCGAATCTTGTTTTCCGACATTGCAATTGAAA
65 ACAGCGAATCTTGTTTCCCGACATTGCAATTAAAA
* * * *
28693965 AGATTGAAGCCACAATGACGAATCTTACTTTCCTGGCAGTGTAGTGGAACATATTGAAGCTACGA
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
*
28694030 CTGCGAATCTTGTTTCCCGACAT
66 CAGCGAATCTTGTTTCCCGACAT
28694053 CACAGTTAAA
Statistics
Matches: 164, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
99 95 0.58
100 69 0.42
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (99 bp):
AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
CAGCGAATCTTGTTTCCCGACATTGCAATTAAAA
Found at i:28695531 original size:3 final size:3
Alignment explanation
Indices: 28695525--28695566 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
28695515 ATAATAATAA
*
28695525 TAT TAT TAT TAT TAT TAT CAT TAT TA- TAT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
28695567 ACCTACATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:28695746 original size:27 final size:27
Alignment explanation
Indices: 28695701--28695752 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
28695691 ATATATATTT
*
28695701 ATATTTTATAATATTTATACATTTTCC
1 ATATTTTATAATATATATACATTTTCC
* *
28695728 ATATTTTATAATCTATATATATTTT
1 ATATTTTATAATATATATACATTTT
28695753 TATACATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATTTTATAATATATATACATTTTCC
Found at i:28698896 original size:13 final size:13
Alignment explanation
Indices: 28698880--28698932 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
28698870 TTTAAACAAA
28698880 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
28698893 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
28698906 ACTTTTCCACATC
1 ACTTTTCAAAAGC
28698919 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
28698932 A
1 A
28698933 TTACCGAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:28702299 original size:17 final size:18
Alignment explanation
Indices: 28702263--28702304 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
28702253 AAGTATACTA
*
28702263 ATAATCATGAATAACCAAT
1 ATAAT-ATGAATAAACAAT
*
28702282 A-AATATGAATAAATAAT
1 ATAATATGAATAAACAAT
28702299 ATAATA
1 ATAATA
28702305 CATATGCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.60
18 7 0.35
19 1 0.05
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (18 bp):
ATAATATGAATAAACAAT
Done.