Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 28 of 290
Found at i:9545917 original size:56 final size:58
Alignment explanation
Indices: 9545826--9545974 Score: 153
Period size: 56 Copynumber: 2.6 Consensus size: 58
9545816 ATCGTATAAC
* * * * *
9545826 AGGACTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTC-A-AAGAGCTTA-ATT
1 AGGATTACCAGTCCAGGCTAAATCCCTAATATAACGTATACTCGAGAAGA-ATTATATT
*
9545882 AGGATTACCAGTCCAGGCTAAA-CCCTAATCGTAACGTATACTCGAGAAGAATTATATT
1 AGGATTACCAGTCCAGGCTAAATCCCTAAT-ATAACGTATACTCGAGAAGAATTATATT
** * * *
9545940 AGGATTACTTGTCCAAGCTAAATCCTTTATATAAC
1 AGGATTACCAGTCCAGGCTAAATCCCTAATATAAC
9545975 AAGGTCAAGA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
55 5 0.07
56 32 0.42
57 4 0.05
58 30 0.39
59 5 0.07
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (58 bp):
AGGATTACCAGTCCAGGCTAAATCCCTAATATAACGTATACTCGAGAAGAATTATATT
Found at i:9548120 original size:6 final size:6
Alignment explanation
Indices: 9547258--9548119 Score: 1715
Period size: 6 Copynumber: 143.7 Consensus size: 6
9547248 AGTTAATTTG
9547258 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547306 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547354 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547402 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547450 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547498 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547546 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547594 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547642 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547690 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547738 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547786 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547834 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547882 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547930 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9547978 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9548026 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
*
9548074 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTAT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
9548120 AGTTGTTTTT
Statistics
Matches: 855, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 855 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:9548129 original size:1 final size:1
Alignment explanation
Indices: 9547258--9548119 Score: 437
Period size: 1 Copynumber: 862.0 Consensus size: 1
9547248 AGTTAATTTG
* * * * * * * * * * *
9547258 TTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * *
9547323 TTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547388 CTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547453 TCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547518 TTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547583 TTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547648 TTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * *
9547713 TTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547778 CTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547843 TCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547908 TTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9547973 TTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
9548038 TTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
9548103 TTTTTCTTTTTATTTTT
1 TTTTTTTTTTTTTTTTT
9548120 AGTTGTTTTT
Statistics
Matches: 575, Mismatches: 286, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 575 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.83
Consensus pattern (1 bp):
T
Found at i:9549139 original size:17 final size:17
Alignment explanation
Indices: 9549117--9549156 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
9549107 GTTCTTGTAC
9549117 AAAAAAAAGAAAATTGA
1 AAAAAAAAGAAAATTGA
9549134 AAAAAAAAGAAAATTGA
1 AAAAAAAAGAAAATTGA
9549151 AAAAAA
1 AAAAAA
9549157 TATATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAAAAAAGAAAATTGA
Found at i:9551334 original size:27 final size:26
Alignment explanation
Indices: 9551286--9551345 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
9551276 GCGAGGCTAC
*
9551286 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
9551313 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
9551339 TAGATAT
1 CAGATAT
9551346 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:9556089 original size:47 final size:47
Alignment explanation
Indices: 9556035--9556370 Score: 447
Period size: 47 Copynumber: 7.1 Consensus size: 47
9556025 TTAGGATTTT
** * *
9556035 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * *
9556082 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GAGATAAGGCCGAATGGCCA
* *
9556133 ATGTGATGAATGTGAACATGCGTATGTGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * *
9556180 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * * *
9556227 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
9556274 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * * * *
9556321 ATGTGATGGATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
9556368 ATG
1 ATG
9556371 CGAAATGTGT
Statistics
Matches: 265, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 217 0.82
49 11 0.04
51 37 0.14
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:9556267 original size:25 final size:25
Alignment explanation
Indices: 9556192--9556267 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
9556182 GTGATGAATG
9556192 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
* * * *
9556217 CG-A-ATG-GCCA-ATGTGATGAATG-
1 TGAACATGCG-TATGTGTGAT-AAGGC
9556239 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
9556264 TGAA
1 TGAA
9556268 TGGCCAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 8 0.22
25 12 0.33
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (25 bp):
TGAACATGCGTATGTGTGATAAGGC
Found at i:9556480 original size:46 final size:46
Alignment explanation
Indices: 9556344--9556480 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
9556334 GAACATGTAT
* *
9556344 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
9556390 ATATGAGGTAAAGCCGAATGGCTAGTGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
9556436 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
9556481 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:9556718 original size:37 final size:37
Alignment explanation
Indices: 9556665--9556776 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
9556655 GTGGTGACTA
*
9556665 TGTCTGGGTTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGG-TAAGACCCGATAACTTCGTGTGGAGATTT
* *
9556703 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
9556740 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
9556777 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
37 62 0.90
38 7 0.10
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
Found at i:9562577 original size:46 final size:46
Alignment explanation
Indices: 9562524--9562699 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
9562514 TGGTTGAGCA
9562524 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
9562570 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
9562615 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
9562663 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9562700 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:9562680 original size:93 final size:93
Alignment explanation
Indices: 9562521--9562692 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
9562511 GGATGGTTGA
* * *
9562521 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
9562586 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
9562614 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
9562679 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
9562693 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:9565124 original size:71 final size:71
Alignment explanation
Indices: 9565008--9565149 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
9564998 CCTGGAAAGT
*
9565008 CAAGGAATATGAATCCTCGTTCCCAAGCTTCAACTGGGCAATCATATGGGAATTATAAGAAGCAA
1 CAAGGAATATGAATCCTCATTCCCAAGCTTCAACTGGGCAATCATATGGGAATTATAAGAAGCAA
9565073 AATGTG
66 AATGTG
*
9565079 CAAGGAATATGAATCCTCATTCCCAAGCTTCAGCTGGGCAATCATATGGGAATTATAAGAAGCAA
1 CAAGGAATATGAATCCTCATTCCCAAGCTTCAACTGGGCAATCATATGGGAATTATAAGAAGCAA
9565144 AATGTG
66 AATGTG
9565150 GGTCCTAAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (71 bp):
CAAGGAATATGAATCCTCATTCCCAAGCTTCAACTGGGCAATCATATGGGAATTATAAGAAGCAA
AATGTG
Found at i:9570214 original size:46 final size:46
Alignment explanation
Indices: 9570164--9571074 Score: 1777
Period size: 46 Copynumber: 19.8 Consensus size: 46
9570154 TGGTTGAGCA
9570164 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570210 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570256 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570302 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570348 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570394 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570440 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570486 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570532 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570578 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570670 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570762 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570808 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570854 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570900 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9570946 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
**
9570992 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
9571038 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9571075 GCGGGTTACA
Statistics
Matches: 860, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 860 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:9580718 original size:39 final size:39
Alignment explanation
Indices: 9580664--9580747 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
9580654 AGTGATCAAA
* *
9580664 TTGTTTTTTGTGCAATCTATTTGTAAGTATGTCTAGAAT
1 TTGTTTTTTGTGCAATCCATTTGTAAGTATATCTAGAAT
* *
9580703 TTGTTTTTTGTGCAATCCGTTTGTAAGTCTATCTAGAAT
1 TTGTTTTTTGTGCAATCCATTTGTAAGTATATCTAGAAT
9580742 TTGTTT
1 TTGTTT
9580748 AGTCATTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (39 bp):
TTGTTTTTTGTGCAATCCATTTGTAAGTATATCTAGAAT
Found at i:9583932 original size:20 final size:20
Alignment explanation
Indices: 9583907--9583951 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9583897 AGGGACTAAA
* *
9583907 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
9583927 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
9583947 ATGAA
1 ATGAA
9583952 TGCATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:9586299 original size:31 final size:30
Alignment explanation
Indices: 9586226--9586308 Score: 109
Period size: 29 Copynumber: 2.8 Consensus size: 30
9586216 TTCATTCTCG
*
9586226 ACATATACTGGGCCGAAGCC-TTTCATTTA
1 ACATATACTGGGCCGAAGCCTTTTCATTAA
9586255 ACGAT-TACTGGGCCGAAGCCTTTTCA-TAA
1 AC-ATATACTGGGCCGAAGCCTTTTCATTAA
9586284 ATCATATCACTGGGCCGAAGCCTTT
1 A-CATAT-ACTGGGCCGAAGCCTTT
9586309 ACTATAAACG
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
29 22 0.46
30 9 0.19
31 17 0.35
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (30 bp):
ACATATACTGGGCCGAAGCCTTTTCATTAA
Found at i:9586783 original size:27 final size:27
Alignment explanation
Indices: 9586753--9586857 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 27
9586743 GGGGCAAAAT
*
9586753 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * *
9586780 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* *
9586807 GAT-ATTTCTACTCTACAAGGGTAT-TAC
1 GGTAATTT-TACCCTACAAGGGTATCT-C
* * * *
9586834 GATAATTCTACCTTACAGGGGTAT
1 GGTAATTTTACCCTACAAGGGTAT
9586858 TTAAGTAATT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.06
27 56 0.89
28 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATCTC
Found at i:9586858 original size:27 final size:27
Alignment explanation
Indices: 9586782--9586872 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
9586772 GGTATCTCGG
* *
9586782 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCTTACAGGGGTATTACGA
* *
9586809 TATTTCTA-CTCTACAAGGGTATTACGA
1 TAATTCTACCT-TACAGGGGTATTACGA
*
9586836 TAATTCTACCTTACAGGGGTATTTAAG-
1 TAATTCTACCTTACAGGGGTA-TTACGA
9586863 TAATTCTACC
1 TAATTCTACC
9586873 CCATAGGGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
26 1 0.02
27 47 0.87
28 6 0.11
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (27 bp):
TAATTCTACCTTACAGGGGTATTACGA
Found at i:9586883 original size:54 final size:52
Alignment explanation
Indices: 9586754--9586885 Score: 147
Period size: 54 Copynumber: 2.5 Consensus size: 52
9586744 GGGCAAAATG
* * *
9586754 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCCACAAGGGTAT-TCGATAATTCTACCCTACAGGGGTATTTA
* * * *
9586807 GATATTTCTACTCTACAAGGGTATTACGATAATTCTACCTTACAGGGGTATTTAA
1 G-TAATTCTACCCCACAAGGGTATT-CGATAATTCTACCCTACAGGGGTATTT-A
* *
9586862 GTAATTCTACCCCATAGGGGTATT
1 GTAATTCTACCCCACAAGGGTATT
9586886 TCAATCATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
53 2 0.03
54 61 0.95
55 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (52 bp):
GTAATTCTACCCCACAAGGGTATTCGATAATTCTACCCTACAGGGGTATTTA
Found at i:9586956 original size:27 final size:27
Alignment explanation
Indices: 9586932--9587111 Score: 213
Period size: 27 Copynumber: 6.7 Consensus size: 27
9586922 CTGTAAATTG
* *
9586932 GGGGTACTTTAGTAATTTTACAAATC-
1 GGGGTATTTTGGTAATTTTACAAATCA
** * *
9586958 GAGGGTATTTCAGTAATTTCACAAATTA
1 G-GGGTATTTTGGTAATTTTACAAATCA
* *
9586986 GGGGTCTTTTGGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAATCA
*
9587013 -GGGTATTTTGGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAATCA
*
9587039 GGGGTATTTTGGTAATTTCACAAA-CTA
1 GGGGTATTTTGGTAATTTTACAAATC-A
*
9587066 GGGGTATTTTGGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAATCA
*
9587093 GGGGTATTTTGGGAATTTT
1 GGGGTATTTTGGTAATTTT
9587112 TCTAATCGAG
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.20
27 106 0.79
28 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGGTATTTTGGTAATTTTACAAATCA
Found at i:9586984 original size:54 final size:53
Alignment explanation
Indices: 9586932--9587151 Score: 219
Period size: 54 Copynumber: 4.1 Consensus size: 53
9586922 CTGTAAATTG
* * **
9586932 GGGGTACTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATTA
1 GGGGTACTTTGGTAATTTTACAAA-CGAGGGTATTTCAGTAATTTTACAAACCA
* **
9586986 GGGGT-CTTTTGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAACCA
1 GGGGTAC-TTTGGTAATTTTACAAACGAGGGTATTTCAGTAATTTTACAAACCA
* * * **
9587039 GGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
1 GGGGTACTTTGGTAATTTTACAAACGA-GGGTATTTCAGTAATTTTACAAACCA
* * * * **
9587093 GGGGTATTTTGGGAATTTTTCTAATCGAGGGTA-TTCAGTAATTTTGTAAACCA
1 GGGGTACTTTGGTAATTTTAC-AAACGAGGGTATTTCAGTAATTTTACAAACCA
*
9587146 AGGGTA
1 GGGGTA
9587152 TTTCAGTAAC
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
53 68 0.48
54 70 0.49
55 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (53 bp):
GGGGTACTTTGGTAATTTTACAAACGAGGGTATTTCAGTAATTTTACAAACCA
Found at i:9587033 original size:80 final size:81
Alignment explanation
Indices: 9586932--9587136 Score: 290
Period size: 80 Copynumber: 2.6 Consensus size: 81
9586922 CTGTAAATTG
* * * *
9586932 GGGGTACTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATTAGGGGTCTTTTG
1 GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACTAGGGGTATTTTG
9586997 GTAATTTTACAAACCA
66 GTAATTTTACAAACCA
* **
9587013 -GGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTT
1 GGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTCAGTAATTTCACAAACTAGGGGTATTTT
9587076 GGTAATTTTACAAACCA
65 GGTAATTTTACAAACCA
* * *
9587093 GGGGTATTTTGGGAATTTTTCTAATCGAGGGTA-TTCAGTAATTT
1 GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
9587137 TGTAAACCAA
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
79 2 0.02
80 79 0.73
81 25 0.23
82 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACTAGGGGTATTTTG
GTAATTTTACAAACCA
Found at i:9587149 original size:26 final size:27
Alignment explanation
Indices: 9587120--9587170 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
9587110 TTTCTAATCG
* *
9587120 AGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAACTTGGTAAACCA
9587146 AGGGTATTTCAGTAACTTGGTAAAC
1 AGGGTATTTCAGTAACTTGGTAAAC
9587171 TAAAGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (27 bp):
AGGGTATTTCAGTAACTTGGTAAACCA
Found at i:9587178 original size:26 final size:27
Alignment explanation
Indices: 9587126--9587179 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
9587116 ATCGAGGGTA
* * *
9587126 TTCAGTAATTTTGTAAACCAAGGGTAT
1 TTCAGTAACTTGGTAAACCAAGAGTAT
*
9587153 TTCAGTAACTTGGTAAACTAA-AGTAT
1 TTCAGTAACTTGGTAAACCAAGAGTAT
9587179 T
1 T
9587180 CTAAACAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (27 bp):
TTCAGTAACTTGGTAAACCAAGAGTAT
Found at i:9587760 original size:22 final size:22
Alignment explanation
Indices: 9587735--9587783 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
9587725 CGCCACCTTC
9587735 CTGCCTCTTATGTGGCACTACT
1 CTGCCTCTTATGTGGCACTACT
9587757 CTGCCTCTTATGTGGCACTACT
1 CTGCCTCTTATGTGGCACTACT
*
9587779 TTGCC
1 CTGCC
9587784 ACTAGACCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (22 bp):
CTGCCTCTTATGTGGCACTACT
Found at i:9591087 original size:46 final size:45
Alignment explanation
Indices: 9591037--9591212 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
9591027 TGGTTGAGCA
* * *
9591037 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATG-AAACG
* * *
9591083 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--A--CG
* *
9591130 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGAGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGA-AACG
* * **
9591176 ACCGAGCTCATTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
9591213 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAAACG
Found at i:9591193 original size:93 final size:93
Alignment explanation
Indices: 9591034--9591203 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
9591024 GGATGGTTGA
* * *
9591034 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAACGACCGAACTCATTGAGT
9591099 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
9591127 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATG-AGAACGACCGAGCTCATTGAG
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCA-AACGACCGAACTCATTGAG
9591191 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
9591204 TGCTTATGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAACGACCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:9593090 original size:29 final size:29
Alignment explanation
Indices: 9593055--9593112 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
9593045 GCACGAAATG
9593055 AAAGTTGTGATTGTGATGCAAATATCTAT
1 AAAGTTGTGATTGTGATGCAAATATCTAT
9593084 AAAGTTGTGATTGTGATGCAAATATCTAT
1 AAAGTTGTGATTGTGATGCAAATATCTAT
9593113 GTTTGTTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (29 bp):
AAAGTTGTGATTGTGATGCAAATATCTAT
Found at i:9595491 original size:43 final size:43
Alignment explanation
Indices: 9595444--9595528 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
9595434 TCGTGAAGAA
*
9595444 ATTTTATGCATAAAGTGCTTAAATTGAAATTAGGGACTAAATC
1 ATTTTATGCATAAAGTGCTTAAATTGAAATTAGAGACTAAATC
9595487 ATTTTATGCATAAAGTGCTTAAATTGAAATTAGAGACTAAAT
1 ATTTTATGCATAAAGTGCTTAAATTGAAATTAGAGACTAAAT
9595529 AGAATAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.35
Consensus pattern (43 bp):
ATTTTATGCATAAAGTGCTTAAATTGAAATTAGAGACTAAATC
Found at i:9596720 original size:46 final size:46
Alignment explanation
Indices: 9596670--9596845 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
9596660 TGGTTGAGCA
9596670 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
9596716 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * * *
9596761 CATCCGAACTCGTTAAGTTGAGTCTGAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * **
9596809 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9596846 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.56
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:9596826 original size:93 final size:93
Alignment explanation
Indices: 9596667--9596836 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
9596657 GGATGGTTGA
* * *
9596667 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
9596732 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
9596760 GCATCCGAACTCGTTAAGTTGAGTCTGAGTTCACTCATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
9596825 TGAGTCCGAGTT
66 TGAGTCCGAGTT
9596837 TGCTTATGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:9602474 original size:143 final size:143
Alignment explanation
Indices: 9602310--9602595 Score: 554
Period size: 143 Copynumber: 2.0 Consensus size: 143
9602300 ACATATATCG
*
9602310 AAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATTGATGCCATGG
1 AAATCACATATCCATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATTGATGCCATGG
9602375 TCTTACTCGCACATCACATATCGGAATCCTTACACATATACGGGGCTTTTGAACGTCATAACTCG
66 TCTTACTCGCACATCACATATCGGAATCCTTACACATATACGGGGCTTTTGAACGTCATAACTCG
9602440 GTCGAAACGAATC
131 GTCGAAACGAATC
*
9602453 AAATCACATATCCATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATTGATGCCATGG
1 AAATCACATATCCATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATTGATGCCATGG
9602518 TCTTACTCGCACATCACATATCGGAATCCTTACACATATACGGGGCTTTTGAACGTCATAACTCG
66 TCTTACTCGCACATCACATATCGGAATCCTTACACATATACGGGGCTTTTGAACGTCATAACTCG
9602583 GTCGAAACGAATC
131 GTCGAAACGAATC
9602596 TGTAAATATA
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 141 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (143 bp):
AAATCACATATCCATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATTGATGCCATGG
TCTTACTCGCACATCACATATCGGAATCCTTACACATATACGGGGCTTTTGAACGTCATAACTCG
GTCGAAACGAATC
Found at i:9606941 original size:10 final size:10
Alignment explanation
Indices: 9606926--9606957 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
9606916 TAAATACATT
9606926 TAATTAAAGA
1 TAATTAAAGA
9606936 TAATTAAAGA
1 TAATTAAAGA
9606946 TAATTAAA-A
1 TAATTAAAGA
9606955 TAA
1 TAA
9606958 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:9606983 original size:27 final size:26
Alignment explanation
Indices: 9606953--9607015 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
9606943 AGATAATTAA
9606953 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
9606980 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
9607007 AATATAAAT
1 AATA-AAAT
9607016 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:9607002 original size:15 final size:15
Alignment explanation
Indices: 9606982--9607011 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9606972 ATAATCCTAA
*
9606982 TAATTATCTTAATAT
1 TAATTATCCTAATAT
9606997 TAATTATCCTAATAT
1 TAATTATCCTAATAT
9607012 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:9607798 original size:96 final size:96
Alignment explanation
Indices: 9607629--9607988 Score: 668
Period size: 96 Copynumber: 3.8 Consensus size: 96
9607619 CTTAGGAAAA
* *
9607629 ATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTACTCAGCCCAA
1 ATATCGAACCTTCTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTACTCAGCCCAA
9607694 CACATTCCTAATTATTATTTTTCCTAAGAAC
66 CACATTCCTAATTATTATTTTTCCTAAGAAC
9607725 ATATCGAACCTTCTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTACTCAGCCCAA
1 ATATCGAACCTTCTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTACTCAGCCCAA
9607790 CACATTCCTAATTATTATTTTTCCTAAGAAC
66 CACATTCCTAATTATTATTTTTCCTAAGAAC
9607821 ATATCGAACCTTCTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTACTCAGCCCAA
1 ATATCGAACCTTCTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTACTCAGCCCAA
9607886 CACATTCCTAATTATTATTTTTCCTAAGAAC
66 CACATTCCTAATTATTATTTTTCCTAAGAAC
* *
9607917 ATATCGAACCTTCTGACGCGAAGAGAGATGACAGCCAAGCA-CCTCACCCCGGTTACTCAGCCTA
1 ATATCGAACCTTCTGACGCGAAGAGAGATGACAGCCAAGCACCCT-ACCCCAGTTACTCAGCCCA
9607981 ACACATTC
65 ACACATTC
9607989 TTAGAAATTA
Statistics
Matches: 259, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
95 3 0.01
96 256 0.99
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.23
Consensus pattern (96 bp):
ATATCGAACCTTCTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTACTCAGCCCAA
CACATTCCTAATTATTATTTTTCCTAAGAAC
Found at i:9608760 original size:18 final size:16
Alignment explanation
Indices: 9608738--9608782 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
9608728 TTAATATCTG
9608738 AATAAAATAAAATAATA
1 AATAAAATAAAATAA-A
9608755 ATATAAAAT-AAATAAA
1 A-ATAAAATAAAATAAA
9608771 AATAAAA-AAAAT
1 AATAAAATAAAAT
9608783 TGGGTTGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 7 0.27
18 7 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAAATAAAATAAA
Found at i:9623211 original size:27 final size:27
Alignment explanation
Indices: 9623153--9623329 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
9623143 TAAATTGTAC
* *
9623153 AGCACTATGTGTGCG-ATTTACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
9623179 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
9623205 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
9623233 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
9623261 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
9623288 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
9623315 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9623330 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 13 0.10
27 91 0.72
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:9623266 original size:82 final size:80
Alignment explanation
Indices: 9623154--9623308 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
9623144 AAATTGTACA
* * *
9623154 GCACTATGTGTGCGATTTACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
9623218 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
** *
9623234 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
9623299 TGCGAGTTGA
64 TGCGAATTGA
9623309 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 14 0.22
81 3 0.05
82 47 0.72
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:9623320 original size:82 final size:80
Alignment explanation
Indices: 9623150--9623329 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 80
9623140 GATTAAATTG
* * *
9623150 TACAGCACTATGTGTGCGATTTACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
9623215 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * ** *
9623230 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
9623294 AAGTGTGCGAGTTGATTA
63 AAGTGTGCGAATTGACCA
* *
9623312 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
9623330 GACTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 16 0.20
81 4 0.05
82 62 0.76
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:9633131 original size:42 final size:42
Alignment explanation
Indices: 9633020--9633174 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
9633010 TACTACACCA
* * ** *
9633020 ATGCCATATCCCAAATATGGTCTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * * * *
9633062 ATGCTAATAGCCCAGTTATGGTTTTACACGAAATATCATATCT
1 ATGC-CATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
9633105 ATGCCATATCCCAGATATGTTCTTACATGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCG
*
9633147 ATGCCATATCCCAGATGTGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
9633175 ATAGTCTCGG
Statistics
Matches: 89, Mismatches: 22, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
42 56 0.63
43 33 0.37
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:9633742 original size:73 final size:73
Alignment explanation
Indices: 9633624--9633991 Score: 341
Period size: 73 Copynumber: 5.0 Consensus size: 73
9633614 TCCGACAGAT
* * * * * *
9633624 TATCTATAATGTCGTAG-AGTCTTTCCAGCTATGGTTTTACACAATATAACCCCATGTTTGCTAA
1 TATCTATGATGTCGTAGCA-TCTTT-TAGCTATGGTCTTACACAATATAACCTCATGTTTACTAT
*
9633688 CCCAGTGGAC
64 CCCAGTAGAC
* * * *
9633698 TACCTATGATGTCGTAGCATCTTTTAGCTATGGTCTTACACAATATAGCCTCGTGTTTACTGT--
1 TATCTATGATGTCGTAGCATCTTTTAGCTATGGTCTTACACAATATAACCTCATGTTTACTATCC
* *
9633761 CATGACAAAC
66 CA-G-TAGAC
** *** * * *
9633771 TATCTATGATGTTATATTGTCTTTCAACTATGGTCTTACACAATATAACCTCGTGTTTACTATCC
1 TATCTATGATGTCGTAGCATCTTTTAGCTATGGTCTTACACAATATAACCTCATGTTTACTATCC
9633836 C-GATAGAC
66 CAG-TAGAC
* * * * * * * * *
9633844 TATTTATGATGCCATAACATCTTTTGGCTATGATCTTACATAATATAATCC-CTTGTTTATTATC
1 TATCTATGATGTCGTAGCATCTTTTAGCTATGGTCTTACACAATATAA-CCTCATGTTTACTATC
*
9633908 CCAGCAGAC
65 CCAGTAGAC
* * *
9633917 TATCTATGATGTCGTAGCATATTTTAGCTATGGTCTTACACAATACAACCTCATGTTTACTGTCC
1 TATCTATGATGTCGTAGCATCTTTTAGCTATGGTCTTACACAATATAACCTCATGTTTACTATCC
9633982 CAGTAGAC
66 CAGTAGAC
9633990 TA
1 TA
9633992 CTAAAGGATG
Statistics
Matches: 234, Mismatches: 52, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
71 2 0.01
72 3 0.01
73 204 0.87
74 23 0.10
75 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (73 bp):
TATCTATGATGTCGTAGCATCTTTTAGCTATGGTCTTACACAATATAACCTCATGTTTACTATCC
CAGTAGAC
Found at i:9636397 original size:32 final size:32
Alignment explanation
Indices: 9636359--9636422 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
9636349 AAGAATTAAA
9636359 CACACATAATTGAGAACAAAAAACTAAATATT
1 CACACATAATTGAGAACAAAAAACTAAATATT
9636391 CACACATAATTGAGAACAAAAAACTAAATATT
1 CACACATAATTGAGAACAAAAAACTAAATATT
9636423 TATTGTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (32 bp):
CACACATAATTGAGAACAAAAAACTAAATATT
Found at i:9638549 original size:12 final size:12
Alignment explanation
Indices: 9638532--9638570 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
9638522 AAACAAAAAC
9638532 AAATAACAA-TAA
1 AAATAA-AAGTAA
9638544 AAATAAAAGTAA
1 AAATAAAAGTAA
*
9638556 AAGTAAAAGTAA
1 AAATAAAAGTAA
9638568 AAA
1 AAA
9638571 AAATTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (12 bp):
AAATAAAAGTAA
Found at i:9638578 original size:22 final size:22
Alignment explanation
Indices: 9638543--9638597 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
9638533 AATAACAATA
*
9638543 AAAATAAAAGTAAA-AGTAAAAGT
1 AAAA-AAAAGTAAATA-TAAAACT
*
9638566 AAAAAAAATTAAATATAAAACT
1 AAAAAAAAGTAAATATAAAACT
*
9638588 AAATAAAAGT
1 AAAAAAAAGT
9638598 CAATGATCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAAAAAAGTAAATATAAAACT
Found at i:9638585 original size:12 final size:11
Alignment explanation
Indices: 9638543--9638597 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
9638533 AATAACAATA
9638543 AAAATAAAAGT
1 AAAATAAAAGT
9638554 AAAAGTAAAAGT
1 AAAA-TAAAAGT
*
9638566 AAAA-AAAATT
1 AAAATAAAAGT
*
9638576 AAATATAAAACT
1 AAA-ATAAAAGT
9638588 -AAATAAAAGT
1 AAAATAAAAGT
9638598 CAATGATCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 15 0.39
11 7 0.18
12 16 0.42
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (11 bp):
AAAATAAAAGT
Found at i:9647730 original size:25 final size:25
Alignment explanation
Indices: 9647683--9647731 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
9647673 AAATAGCCAA
*
9647683 TTTAACAGGAAGCTCATGTAGAGCC
1 TTTAACAGGAAGCTCATGAAGAGCC
*
9647708 TTTAATCAGGATGCTCAT-AAGAGC
1 TTTAA-CAGGAAGCTCATGAAGAGC
9647732 TAAGGTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (25 bp):
TTTAACAGGAAGCTCATGAAGAGCC
Found at i:9653386 original size:184 final size:183
Alignment explanation
Indices: 9653072--9653417 Score: 566
Period size: 184 Copynumber: 1.9 Consensus size: 183
9653062 CTTCGAAACA
* **
9653072 TTTACACATATCAGCCTTAGTCAGAACCCATTCTCTGGCATATTTGCTCAACTGAACAAATTCTC
1 TTTACACATATCAGCCTCAGTCAGAACCCATTCTCTGGCATATTTGCTCAACCAAACAAATTCTC
* *
9653137 ACTCATATTTAGATACAGTCATGTTTCCCTATTTGAGCTATAAAAATTCTTTATTTTTCTGATCT
66 ACTCATATTCAGATACAGTCATGTTTCCCTATTTGAGCTATAAAAATTCTTTATTTTTATGATCT
* * *
9653202 AGAAATTTTTTACTAATGTACTTTTTTTCTGAAATTTGTCTAAACTTTGAAATG
131 AGAAATTTCTGACTAATGT-CTTTCTTTCTGAAATTTGTCTAAACTTTGAAATG
9653256 TTTACACATATCAGCCTCAGTCAGAACCCATTCTCTGGCATATTTGCTCAACCAAACAAATTCTC
1 TTTACACATATCAGCCTCAGTCAGAACCCATTCTCTGGCATATTTGCTCAACCAAACAAATTCTC
* * * * *
9653321 CCTCGTATTCAGATACAGTCATGTTTCCTTGTTTGAGCTATAAAAATTCTTTCTTTTTATGATCT
66 ACTCATATTCAGATACAGTCATGTTTCCCTATTTGAGCTATAAAAATTCTTTATTTTTATGATCT
9653386 AGAAATTTCTGACTAATGTCTTTCTTTCTGAA
131 AGAAATTTCTGACTAATGTCTTTCTTTCTGAA
9653418 TTTTTTCTGT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
183 12 0.08
184 137 0.92
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (183 bp):
TTTACACATATCAGCCTCAGTCAGAACCCATTCTCTGGCATATTTGCTCAACCAAACAAATTCTC
ACTCATATTCAGATACAGTCATGTTTCCCTATTTGAGCTATAAAAATTCTTTATTTTTATGATCT
AGAAATTTCTGACTAATGTCTTTCTTTCTGAAATTTGTCTAAACTTTGAAATG
Found at i:9655613 original size:23 final size:23
Alignment explanation
Indices: 9655583--9655632 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
9655573 CCATAATTGG
9655583 GAAGTTTACAAAGAA-CTTATCGA
1 GAAGTTTACAAA-AACCTTATCGA
*
9655606 GAAGTTTACAAAAACCTTATCGG
1 GAAGTTTACAAAAACCTTATCGA
9655629 GAAG
1 GAAG
9655633 CTTCGAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (23 bp):
GAAGTTTACAAAAACCTTATCGA
Found at i:9668524 original size:17 final size:17
Alignment explanation
Indices: 9668502--9668535 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9668492 GAAGGTAGAT
9668502 TATATTTATGAATAGTG
1 TATATTTATGAATAGTG
9668519 TATATTTATGAATAGTG
1 TATATTTATGAATAGTG
9668536 AAAGGTCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (17 bp):
TATATTTATGAATAGTG
Found at i:9671123 original size:32 final size:32
Alignment explanation
Indices: 9671082--9671142 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
9671072 GAAAATGAAT
*
9671082 ATATCAATTTCTTTAAATGATTGAGAAACTAA
1 ATATCAATTTCTTTAAATGATTAAGAAACTAA
*
9671114 ATATTAATTTCTTTAAATGATTAAGAAAC
1 ATATCAATTTCTTTAAATGATTAAGAAAC
9671143 AAAGTATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (32 bp):
ATATCAATTTCTTTAAATGATTAAGAAACTAA
Found at i:9671722 original size:17 final size:17
Alignment explanation
Indices: 9671681--9671722 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
9671671 GCTTATTATA
*
9671681 TATATT-TATTTAAATG
1 TATATTATATTTAAAAG
*
9671697 TGT-TTATATTTAAAAG
1 TATATTATATTTAAAAG
9671713 TATATTATAT
1 TATATTATAT
9671723 CTGATTTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.10
16 13 0.62
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TATATTATATTTAAAAG
Found at i:9677045 original size:49 final size:49
Alignment explanation
Indices: 9676928--9677741 Score: 1308
Period size: 49 Copynumber: 16.5 Consensus size: 49
9676918 TTCCATCACG
* * * * * * * *
9676928 TGTGTAGTACTAACTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGT-TGGTCGCA
* *
9676978 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677027 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677076 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677125 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677174 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677223 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677272 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677321 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677370 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677419 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677468 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677517 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
** * *** * *
9677566 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACT-CAATGACT-TCCATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--CGTA-TAC-CGGATTGTTGGTCGCA
* * * * * * * *
9677617 TGTGTAGTACTAACTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGT-TGGTCGCA
* *
9677667 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9677716 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
9677742 TGCGTATCAG
Statistics
Matches: 722, Mismatches: 35, Indels: 15
0.94 0.05 0.02
Matches are distributed among these distances:
48 3 0.00
49 602 0.83
50 79 0.11
51 34 0.05
52 4 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
Found at i:9684423 original size:53 final size:53
Alignment explanation
Indices: 9684324--9684425 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
9684314 GCTTTCGGAG
* * * *
9684324 TCCCGGTAGCTCGATAAAGCTTATGCTAGTAATAATTTAACTTAGGGTTGGAA
1 TCCCAGTAGCTCGATAAAGCTTATGCTAGCAATAATTCAACCTAGGGTTGGAA
** * *
9684377 TCCCAGTAGCTCGATTTAGCTTATGTTAGCAATAATTCGACCTAGGGTT
1 TCCCAGTAGCTCGATAAAGCTTATGCTAGCAATAATTCAACCTAGGGTT
9684426 CATATTTGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (53 bp):
TCCCAGTAGCTCGATAAAGCTTATGCTAGCAATAATTCAACCTAGGGTTGGAA
Found at i:9685263 original size:49 final size:49
Alignment explanation
Indices: 9685091--9686000 Score: 1676
Period size: 49 Copynumber: 18.5 Consensus size: 49
9685081 TGAGTACACG
* * ** ** *
9685091 TGTGTAGTACTAAGCGCAGGCTACTACGTGTACCATACAGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTT-GGTCGCA
* * * * * * *
9685141 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGT-TGGTCGCA
9685191 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685240 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685289 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685338 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685387 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685436 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685485 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685534 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685583 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685632 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685681 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685730 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685779 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685828 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685877 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685926 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
9685975 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
9686001 TGCGTATCAG
Statistics
Matches: 843, Mismatches: 16, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
49 766 0.91
50 77 0.09
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTGTTGGTCGCA
Found at i:9687834 original size:31 final size:31
Alignment explanation
Indices: 9687796--9687859 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
9687786 CCTTTTCATA
9687796 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
9687827 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
9687858 TT
1 TT
9687860 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:9688128 original size:23 final size:23
Alignment explanation
Indices: 9688074--9688191 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
9688064 CCTAGCCTCT
*
9688074 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9688097 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
9688121 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
9688143 TTTAATAACTGAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9688166 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9688189 TTT
1 TTT
9688192 TACACTTCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
22 22 0.24
23 46 0.51
24 22 0.24
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:9688144 original size:46 final size:47
Alignment explanation
Indices: 9688074--9688193 Score: 208
Period size: 45 Copynumber: 2.6 Consensus size: 47
9688064 CCTAGCCTCT
* *
9688074 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCATAAGCCC
9688121 TTTAATAACT-GGGCATAAGCCC-TTTAATAACTGAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCATAAGCCC
9688166 TTTAATAACTGGGGCATAAGCCCTTTTA
1 TTTAATAACTGGGGCATAAGCCCTTTTA
9688194 CACTTCCTCC
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
45 32 0.46
46 23 0.33
47 14 0.20
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCATAAGCCC
Found at i:9688267 original size:20 final size:20
Alignment explanation
Indices: 9688242--9688308 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
9688232 TTGTGATTAC
9688242 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
9688262 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
9688282 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
9688302 ACCATGT
1 ATCATGT
9688309 TTATCTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:9688273 original size:11 final size:11
Alignment explanation
Indices: 9688242--9688297 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
9688232 TTGTGATTAC
9688242 ATCATGTGCAT
1 ATCATGTGCAT
*
9688253 ATCA--TACAT
1 ATCATGTGCAT
9688262 ATCATGTGCAT
1 ATCATGTGCAT
*
9688273 ATCA--TACAT
1 ATCATGTGCAT
*
9688282 GTCATGTGCAT
1 ATCATGTGCAT
9688293 ATCAT
1 ATCAT
9688298 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:9688377 original size:25 final size:25
Alignment explanation
Indices: 9688345--9688392 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9688335 ATACATAAAC
* * *
9688345 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
9688370 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
9688393 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:9690380 original size:40 final size:40
Alignment explanation
Indices: 9690280--9690451 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
9690270 GCTCCTCGTT
* * *
9690280 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
9690320 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
9690359 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
9690399 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
9690439 CAAATGCCTTCGG
1 CAAATGCCTTCGG
9690452 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:9707600 original size:39 final size:39
Alignment explanation
Indices: 9707545--9707685 Score: 176
Period size: 39 Copynumber: 3.6 Consensus size: 39
9707535 TATTCGAATG
* *
9707545 ATATCCCGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATAT-CCGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9707585 ATATCCGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
9707624 ATATCCGGGCTAAGACCCGAAGGAATTTGTGCGAGTTG-CT
1 ATATCCGGG-TAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* * *
9707664 ATATCTGGCTAAATCCCGAAGG
1 ATATCCGGGTAAGTCCCGAAGG
9707686 TAGTTGGGTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
39 53 0.59
40 35 0.39
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
ATATCCGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:9714844 original size:40 final size:40
Alignment explanation
Indices: 9714781--9715200 Score: 804
Period size: 40 Copynumber: 10.5 Consensus size: 40
9714771 TATTCGAATG
* * * *
9714781 ATATCCGTGCTAAATCCCAAAGGCATCTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9714821 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9714861 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9714901 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9714941 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9714981 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9715021 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9715061 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9715101 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9715141 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
9715181 ATATCCGGGCTAAGTCCCGA
1 ATATCCGGGCTAAGTCCCGA
9715201 CTTGATTGAA
Statistics
Matches: 376, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 376 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:9715248 original size:22 final size:22
Alignment explanation
Indices: 9715223--9715271 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
9715213 GTGGAGTAAG
9715223 TATGATTTTGAGAATATGCATA
1 TATGATTTTGAGAATATGCATA
9715245 TATGATTTTGAGAATATGCATA
1 TATGATTTTGAGAATATGCATA
9715267 TATGA
1 TATGA
9715272 AATTATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (22 bp):
TATGATTTTGAGAATATGCATA
Found at i:9725860 original size:8 final size:7
Alignment explanation
Indices: 9725836--9725866 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
9725826 TATGTTACTA
9725836 AAAATAT
1 AAAATAT
9725843 AAAATAT
1 AAAATAT
9725850 AAAATATT
1 AAAATA-T
9725858 AAAATAT
1 AAAATAT
9725865 AA
1 AA
9725867 TTTTCCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:9725860 original size:15 final size:14
Alignment explanation
Indices: 9725836--9725866 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
9725826 TATGTTACTA
9725836 AAAATATAAAATAT
1 AAAATATAAAATAT
9725850 AAAATATTAAAATAT
1 AAAATA-TAAAATAT
9725865 AA
1 AA
9725867 TTTTCCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATATAAAATAT
Found at i:9726270 original size:14 final size:14
Alignment explanation
Indices: 9726248--9726277 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9726238 TTTGCTTGGT
9726248 TTAGGGTTTTAGGG
1 TTAGGGTTTTAGGG
*
9726262 TTAGTGTTTTAGGG
1 TTAGGGTTTTAGGG
9726276 TT
1 TT
9726278 TTTAAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTTAGGG
Found at i:9726635 original size:125 final size:124
Alignment explanation
Indices: 9726471--9727059 Score: 831
Period size: 125 Copynumber: 4.7 Consensus size: 124
9726461 AACTTCTTAT
* * *
9726471 TTTTTTCTATAGTAGTATCTAAAAATAATAATTTTGAGAAGACGTTT-TAGAACAAATAGTGTCG
1 TTTTTTCTACAGTAGTATCT-GAAA-AATAATTTTGAGAAGACGTTTCT-GAACAAATAGTGTCC
* * * *
9726535 AAAATGCTTCAAGTAGGATGCACTGCCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGC
63 AAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * *
9726597 TTTTTTCTACAGTAGTATTTGAAAAATTAATTTTGAGAAGACGTTTTTGAACAAATAGTATCCAA
1 TTTTTTCTACAGTAGTATCTGAAAAA-TAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * * *
9726662 AACGCTTCAAGCATGATGCATTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGGA-AC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGT-GGACGC
* *
9726722 TTTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGCCCAAA
1 TTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * *
9726787 ATGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCATGTTGACGC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* *
9726846 TCTTTTTCTACAATAGTTTCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
1 T-TTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * *
9726911 AATGCTTTAACCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGTTCCCACGTGGACGC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * *
9726971 TCTTTTTCTACAGTAGTATCTGAAAAATACTTTTGAGAAGACCTTTCTGAATAAATAGTGTCCAA
1 T-TTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
*
9727036 AACGCTTCAAGCAGGATGCACTGT
65 AATGCTTCAAGCAGGATGCACTGT
9727060 TTGTAACACC
Statistics
Matches: 412, Mismatches: 46, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
123 2 0.00
124 87 0.21
125 302 0.73
126 21 0.05
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (124 bp):
TTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
Found at i:9726940 original size:249 final size:249
Alignment explanation
Indices: 9726471--9727059 Score: 853
Period size: 249 Copynumber: 2.4 Consensus size: 249
9726461 AACTTCTTAT
* *
9726471 TTTTTTCTATAGTAGTATCTAAAAATAATAATTTTGAGAAGACGTTT-TAGAACAAATAGTGTCG
1 TTTTTTCTACAGTAGTATCT-AAAA-AATAATTTTGAGAAGACGTTTCT-GAACAAATAGTGTCC
* * *
9726535 AAAATGCTTCAAGTAGGATGCACTGCCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTTT
63 AAAATGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACATAGACGCTTT
* *
9726600 TTTCTACAGTAGTATTTGAAAAATTAATTTTGAGAAGACGTTTTTGAACAAATAGTATCCAAAAC
128 TTTCTACAATAGTATTTGAAAAATTAATTTTGAGAAGACGTTTCTGAACAAATAGTATCCAAAAC
* * * *
9726665 GCTTCAAGCATGATGCATTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGGA-AC
193 GCTTCAACCAGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCACGT-GGACAC
*
9726722 TTTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGCCCAAA
1 TTTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
** *
9726787 ATGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCATGTTGACGCTCTTTT
66 ATGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACATAGACGCT-TTTT
* *
9726852 TCTACAATAGT-TTCTGAAAAA-TAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAATG
130 TCTACAATAGTATT-TGAAAAATTAATTTTGAGAAGACGTTTCTGAACAAATAGTATCCAAAACG
* * * *
9726915 CTTTAACCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGTTCCCACGTGGACGC
194 CTTCAACCAGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACAC
* * * *
9726971 TCTTTTTCTACAGTAGTATCTGAAAAATACTTTTGAGAAGACCTTTCTGAATAAATAGTGTCCAA
1 T-TTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
*
9727036 AACGCTTCAAGCAGGATGCACTGT
65 AATGCTTCAAGCAGGATGCACTGT
9727060 TTGTAACACC
Statistics
Matches: 306, Mismatches: 27, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
248 3 0.01
249 177 0.58
250 107 0.35
251 19 0.06
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (249 bp):
TTTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ATGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACATAGACGCTTTTTT
CTACAATAGTATTTGAAAAATTAATTTTGAGAAGACGTTTCTGAACAAATAGTATCCAAAACGCT
TCAACCAGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACAC
Found at i:9728692 original size:27 final size:27
Alignment explanation
Indices: 9728630--9728694 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
9728620 GGGCATATTC
9728630 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
9728657 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
9728684 GTCTTTTTACC
1 GTCATTTTACC
9728695 TAATAGAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:9728778 original size:27 final size:27
Alignment explanation
Indices: 9728748--9729074 Score: 112
Period size: 27 Copynumber: 12.1 Consensus size: 27
9728738 GTAAATCTAC
*
9728748 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
** *
9728775 AAACTAATAGTATTTCCA-TAATTTT-T
1 AAACTAAGGGTATTT-TAGTAATTTTGT
* *
9728801 AGAAAGTCAAGGGTATTTCT-GTAACTTTGT
1 --AAACT-AAGGGTATTT-TAGTAATTTTGT
* * * **
9728831 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * ** **
9728858 AAATTGAGGGTATTTCGGTAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * * **
9728885 AAACCAGGGGTATTTTAGCAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * *
9728912 AAGCT-AGGGTATTTTGGTAATTTTACT
1 AAACTAAGGGTATTTTAGTAATTTT-GT
* * * ** ***
9728939 GATC-GAGGGTATTTCGGTAATTTAAC
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * *
9728965 AAACCAGGGGTATTTTAGCAATTTT-T
1 AAACTAAGGGTATTTTAGTAATTTTGT
** * *
9728991 ACAGGT-AGGGTATTTTGGTAATTTTACT
1 A-AACTAAGGGTATTTTAGTAATTTT-GT
* * * * *
9729019 GATC-GAGGGTATTTTGGTAATTTTGC
1 AAACTAAGGGTATTTTAGTAATTTTGT
*
9729045 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
9729072 AAA
1 AAA
9729075 TCGAGGGTAA
Statistics
Matches: 225, Mismatches: 60, Indels: 30
0.71 0.19 0.10
Matches are distributed among these distances:
26 39 0.17
27 159 0.71
28 11 0.05
29 15 0.07
30 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AAACTAAGGGTATTTTAGTAATTTTGT
Found at i:9728894 original size:54 final size:54
Alignment explanation
Indices: 9728836--9729083 Score: 218
Period size: 53 Copynumber: 4.6 Consensus size: 54
9728826 TTTGTAAATT
* *
9728836 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC
* * * * ** *
9728890 AGGGGTATTTTAGCAATTTTAC-AAGCTAGGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC
* * * * * ***
9728943 -GAGGGTATTTCGGTAATTTAACAAA-CCAGGGGTATTTTAGCAATTTTTAC-AGGT
1 AG-GGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAA-TTTTACAAACC
** *
9728997 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGCAAACC
1 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC
* * **
9729050 AAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTA
9729084 AAACAGTAAT
Statistics
Matches: 150, Mismatches: 36, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
52 6 0.04
53 75 0.50
54 63 0.42
55 6 0.04
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACC
Found at i:9728947 original size:80 final size:79
Alignment explanation
Indices: 9728838--9729069 Score: 365
Period size: 80 Copynumber: 2.9 Consensus size: 79
9728828 TGTAAATTAG
** *
9728838 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
9728903 CAATTTTACAAGCTA
66 CAATTTTAC-AGCTA
*
9728918 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCGGTAATTTAACAAACCAGGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
*
9728983 CAATTTTTACAGGTA
66 CAA-TTTTACAGCTA
* * *
9728998 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
*
9729063 TAATTTT
66 CAATTTT
9729070 GTAAATCGAG
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 4 0.03
80 131 0.93
81 6 0.04
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.41
Consensus pattern (79 bp):
GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
CAATTTTACAGCTA
Found at i:9729081 original size:27 final size:27
Alignment explanation
Indices: 9728838--9729083 Score: 164
Period size: 27 Copynumber: 9.2 Consensus size: 27
9728828 TGTAAATTAG
* *
9728838 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
9728865 GGGTATTTCGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * * *
9728891 GGGGTATTTTAGCAATTTTA-CAAGCTA
1 -GGGTATTTTGGTAATTTTATAAATCGA
*
9728918 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTTGGTAATTTTA-TAAATCGA
* * * *
9728945 GGGTATTTCGGTAATTTAACAAA-CCA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * *
9728971 GGGGTATTTTAGCAATTTT-TACA-GGTA
1 -GGGTATTTTGGTAATTTTATAAATCG-A
*
9728998 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTTGGTAATTTTA-TAAATCGA
** * *
9729025 GGGTATTTTGGTAATTTTGCAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
9729052 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
9729079 GGGTA
1 GGGTA
9729084 AAACAGTAAT
Statistics
Matches: 169, Mismatches: 39, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
26 40 0.24
27 127 0.75
28 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:9729091 original size:27 final size:27
Alignment explanation
Indices: 9729061--9729191 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
9729051 AGGGTATTTT
*
9729061 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
**
9729088 AGTAATTCTGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
9729115 AATAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
9729142 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
9729169 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
9729192 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:9733408 original size:18 final size:19
Alignment explanation
Indices: 9733371--9733409 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
9733361 TACCTGTCAT
*
9733371 TTTAAGCATAAAAATTGAA
1 TTTAAGCATAAAAATAGAA
*
9733390 TTTAA-CATAAAACTAGAA
1 TTTAAGCATAAAAATAGAA
9733408 TT
1 TT
9733410 CCATGCCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (19 bp):
TTTAAGCATAAAAATAGAA
Found at i:9735635 original size:16 final size:16
Alignment explanation
Indices: 9735602--9735636 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9735592 GAAAATCCCG
*
9735602 AAATGCCGAAAAGTCA
1 AAATGCCGAAAAGCCA
*
9735618 AAATGCCGAAATGCCA
1 AAATGCCGAAAAGCCA
9735634 AAA
1 AAA
9735637 AACCAGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.11
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:9735796 original size:17 final size:18
Alignment explanation
Indices: 9735763--9735796 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9735753 CCAGGCCAGA
9735763 ATGGGCTAAATGGGCCCG
1 ATGGGCTAAATGGGCCCG
9735781 ATGGGCTAAA-GGGCCC
1 ATGGGCTAAATGGGCCC
9735797 ATCATAGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.24, C:0.24, G:0.38, T:0.15
Consensus pattern (18 bp):
ATGGGCTAAATGGGCCCG
Found at i:9735948 original size:29 final size:29
Alignment explanation
Indices: 9735870--9735973 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
9735860 AATGAGATCA
* *
9735870 GGCCTAATAGGCCATATGAATGTGGTTTG
1 GGCCTAATGGGCCATATGAATGTGATTTG
** *
9735899 GGCCTAGCGGGCCATACGAATGTGATTTG
1 GGCCTAATGGGCCATATGAATGTGATTTG
* * ** *
9735928 GGCCTAATGGGCAACATGAAT-AAAATTG
1 GGCCTAATGGGCCATATGAATGTGATTTG
*
9735956 GGCCTAGTGGGCCATATG
1 GGCCTAATGGGCCATATG
9735974 TATGCATGTA
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
28 19 0.32
29 40 0.68
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
GGCCTAATGGGCCATATGAATGTGATTTG
Found at i:9738543 original size:16 final size:16
Alignment explanation
Indices: 9738524--9738558 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
9738514 GAATAATTTT
9738524 TGTGATTATGATACTA
1 TGTGATTATGATACTA
9738540 TGTGATTATGATACTA
1 TGTGATTATGATACTA
9738556 TGT
1 TGT
9738559 CTTTGTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (16 bp):
TGTGATTATGATACTA
Found at i:9741242 original size:21 final size:21
Alignment explanation
Indices: 9741218--9741276 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
9741208 TAGGGGTAAG
* *
9741218 GGTTTATGTTTTA-GGATTTAA
1 GGTTTACGATTTAGGGA-TTAA
9741239 GGTTTACGATTTAGGGATTAA
1 GGTTTACGATTTAGGGATTAA
* *
9741260 GGATTAAGAGTTTAGGG
1 GGTTTACGA-TTTAGGG
9741277 TTTAGATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.27, C:0.02, G:0.31, T:0.41
Consensus pattern (21 bp):
GGTTTACGATTTAGGGATTAA
Found at i:9741445 original size:14 final size:14
Alignment explanation
Indices: 9741423--9741476 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
9741413 TTAATTATCA
*
9741423 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
* *
9741437 TTATGGTTTAAGAT
1 TTATGGTTTAGGGT
*
9741451 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
9741465 TTAAGGTTTAGG
1 TTATGGTTTAGG
9741477 AGTTAATTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:9741532 original size:14 final size:15
Alignment explanation
Indices: 9741507--9741535 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9741497 TTGATGATGA
9741507 ATTATGGGTTTAGGG
1 ATTATGGGTTTAGGG
9741522 ATTAT-GGTTTAGGG
1 ATTATGGGTTTAGGG
9741536 TTGGAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
ATTATGGGTTTAGGG
Found at i:9741579 original size:7 final size:7
Alignment explanation
Indices: 9741512--9741625 Score: 72
Period size: 7 Copynumber: 16.1 Consensus size: 7
9741502 GATGAATTAT
9741512 GGGTTTA
1 GGGTTTA
*
9741519 GGGATTA
1 GGGTTTA
*
9741526 TGGTTTA
1 GGGTTTA
9741533 GGG-TT-
1 GGGTTTA
9741538 GGAGTTTA
1 GG-GTTTA
* *
9741546 AGGTGTA
1 GGGTTTA
*
9741553 GTGGTTTG
1 G-GGTTTA
*
9741561 GGGTTAA
1 GGGTTTA
*
9741568 TGGTTTA
1 GGGTTTA
9741575 GGGTTTA
1 GGGTTTA
*
9741582 GTGTTTA
1 GGGTTTA
*
9741589 GTGTTTA
1 GGGTTTA
*
9741596 TGGG-ATA
1 -GGGTTTA
*
9741603 GGGGTTA
1 GGGTTTA
9741610 GAGGTTTA
1 G-GGTTTA
9741618 GGGTTTA
1 GGGTTTA
9741625 G
1 G
9741626 ATTAATTAGT
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
5 2 0.02
6 6 0.07
7 59 0.73
8 14 0.17
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:9742463 original size:16 final size:16
Alignment explanation
Indices: 9742410--9742463 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
9742400 ATATTAAATA
*
9742410 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTCAAG
9742426 ATTTCAAATTTTC-A-
1 ATTTCAAATTTTCAAG
9742440 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
9742452 ATTTCAAATTTT
1 ATTTCAAATTTT
9742464 ATCTAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
15 1 0.03
16 18 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:9742480 original size:20 final size:18
Alignment explanation
Indices: 9742403--9742497 Score: 56
Period size: 18 Copynumber: 5.3 Consensus size: 18
9742393 AATTTATATA
9742403 TTAAATAATT-TC-AAATT
1 TTAAAT-ATTATCTAAATT
*
9742420 TTAAAGATT-TC-AAATT
1 TTAAATATTATCTAAATT
* *
9742436 TTCAATAATTTTC-AAGATT
1 TTAAAT-ATTATCTAA-ATT
* *
9742455 TCAAATTTTATCTAATTATT
1 TTAAATATTATCTAA--ATT
*
9742475 TTAAATATTATTTAAATT
1 TTAAATATTATCTAAATT
9742493 TTAAA
1 TTAAA
9742498 AAATTATTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
16 14 0.23
17 8 0.13
18 16 0.26
19 9 0.15
20 15 0.24
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.49
Consensus pattern (18 bp):
TTAAATATTATCTAAATT
Found at i:9742505 original size:19 final size:18
Alignment explanation
Indices: 9742472--9742507 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9742462 TTATCTAATT
*
9742472 ATTTTAAATATTATTTAA
1 ATTTTAAAAATTATTTAA
9742490 ATTTTAAAAAATTATTTA
1 ATTTT-AAAAATTATTTA
9742508 TTTAAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAAAAATTATTTAA
Found at i:9747453 original size:42 final size:43
Alignment explanation
Indices: 9747397--9747496 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
9747387 AGTGGTGATT
* **
9747397 TTTAGCGGCGTTTTTAAGGAAAGCGTGGCTAAA-AACATGACC
1 TTTAGCGGCCTTTTTAAGGAAAGCGCCGCTAAAGAACATGACC
* ** **
9747439 TTTAGTGGCCTTTTTTGGGAAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCCTTTTTAAGGAAAGCGCCGCTAAAGAACATGACC
9747482 TTTAGCGGCCTTTTT
1 TTTAGCGGCCTTTTT
9747497 TTACATAAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 27 0.56
43 21 0.44
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCCTTTTTAAGGAAAGCGCCGCTAAAGAACATGACC
Found at i:9751043 original size:17 final size:19
Alignment explanation
Indices: 9751001--9751044 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9750991 ATGAAATTTT
*
9751001 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
9751020 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
9751038 AA-TATTA
1 AATTATTA
9751045 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:9763663 original size:17 final size:17
Alignment explanation
Indices: 9763641--9763677 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9763631 AGTCTCTATC
*
9763641 AGTTTTGCTACAGTCTT
1 AGTTTTACTACAGTCTT
*
9763658 AGTTTTACTACAGTTTT
1 AGTTTTACTACAGTCTT
9763675 AGT
1 AGT
9763678 ATACACTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.49
Consensus pattern (17 bp):
AGTTTTACTACAGTCTT
Found at i:9766274 original size:12 final size:12
Alignment explanation
Indices: 9766257--9766281 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9766247 TTTTGGATGA
9766257 ATTTGATTGAAT
1 ATTTGATTGAAT
9766269 ATTTGATTGAAT
1 ATTTGATTGAAT
9766281 A
1 A
9766282 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTTGATTGAAT
Found at i:9768284 original size:23 final size:22
Alignment explanation
Indices: 9768253--9768296 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9768243 TGAAATAAAA
*
9768253 GTTTAATATTGTAATTTGTTTTT
1 GTTTAATA-TATAATTTGTTTTT
*
9768276 GTTTGATATATAATTTGTTTT
1 GTTTAATATATAATTTGTTTT
9768297 GATATATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (22 bp):
GTTTAATATATAATTTGTTTTT
Found at i:9768619 original size:32 final size:32
Alignment explanation
Indices: 9768578--9768705 Score: 229
Period size: 32 Copynumber: 4.0 Consensus size: 32
9768568 ATATACTACG
*
9768578 ATAGTGTGATGACTTCTGACATTTAAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
9768610 ATAGTGTGATGACTTCTGACATTTGAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
*
9768642 ATAGTGTGATGACTTCTGCCATTTGAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
*
9768674 ATAGTGTGATGACTTCTGCCATTTGAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
9768706 GTTTTCATAT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 94 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (32 bp):
ATAGTGTGATGACTTCTGACATTTGAAAATGT
Found at i:9772347 original size:93 final size:93
Alignment explanation
Indices: 9772237--9772409 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
9772227 CGCCCATAAG
* *
9772237 CGAACTCCGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGAATCAACTCA
1 CGAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
9772302 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
9772330 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
*
9772395 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
9772410 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:9772405 original size:46 final size:46
Alignment explanation
Indices: 9772230--9772405 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
9772220 TGTAACCCGC
* * * *
9772230 CCATAAGCGAACTCCGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
9772276 CCATAAGTGAACTCGGAATCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* *
9772326 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
9772369 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
9772406 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:9782369 original size:27 final size:27
Alignment explanation
Indices: 9782338--9782515 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
9782328 TAAATTGTAC
9782338 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** * *
9782365 TGCACTAAGTGTGCGAAATGAATAT-A
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9782391 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
9782419 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
9782447 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9782474 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
9782501 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9782516 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:9782506 original size:82 final size:81
Alignment explanation
Indices: 9782335--9782515 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
9782325 GATTAAATTG
*
9782335 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATAATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATAATGCACTAA
9782400 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
9782416 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-AT-TACGTAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATA-AT-GCAC
* **
9782479 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
9782498 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
9782516 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.02
81 20 0.24
82 62 0.74
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATAATGCACTAA
GTGTGCGAATTGACCA
Found at i:9790346 original size:27 final size:26
Alignment explanation
Indices: 9790315--9790492 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
9790305 TAAATTGTAC
9790315 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
9790342 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
9790368 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
9790396 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
9790424 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
9790451 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
9790478 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9790493 GACTCGATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:9790431 original size:82 final size:81
Alignment explanation
Indices: 9790316--9790471 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9790306 AAATTGTACA
*
9790316 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
9790380 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
9790397 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
9790462 TGCGAGTTGA
65 TGCGAATTGA
9790472 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:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9790483 original size:82 final size:81
Alignment explanation
Indices: 9790312--9790492 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
9790302 GATTAAATTG
*
9790312 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
9790377 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
9790393 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
9790457 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
9790475 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
9790493 GACTCGATAT
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):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:9791655 original size:193 final size:193
Alignment explanation
Indices: 9791320--9791699 Score: 699
Period size: 193 Copynumber: 2.0 Consensus size: 193
9791310 TTTCATGAGG
9791320 AAGTAACGAAAAGATCATATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCA
1 AAGTAACGAAAAGATCATATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCA
9791385 GAACGGTTTCTGGATTTCCTGCTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAG
66 GAACGGTTTCTGGATTTCCTGCTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAG
*
9791450 AAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAG-TTTCTATAGAAACAAACAACATC
131 AAGTCATACCATATATGGACAGATTCCTCTCTGAGTCTAGTTTTC-ATAGAAACAAACAACATC
9791513 AAGTAACGAAAAGATCATATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCA
1 AAGTAACGAAAAGATCATATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCA
9791578 GAACGGTTTCTGGATTTCCTGCTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAG
66 GAACGGTTTCTGGATTTCCTGCTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAG
** * *
9791643 GGGTCGTACCATATATGTACAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAAC
131 AAGTCATACCATATATGGACAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAAC
9791700 GGCATCAGTA
Statistics
Matches: 181, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
193 177 0.98
194 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (193 bp):
AAGTAACGAAAAGATCATATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCA
GAACGGTTTCTGGATTTCCTGCTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAG
AAGTCATACCATATATGGACAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACAACATC
Found at i:9793018 original size:50 final size:50
Alignment explanation
Indices: 9792959--9793054 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
9792949 AAGTGCTAAT
9792959 ATTTTGTTATATATGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
1 ATTTTGTTATATATGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
**
9793009 ATTTTGTTATATATGGTATGTGGTGTATGCTTTATAAATGGAGTTT
1 ATTTTGTTATATATGGTATGTCATGTATGCTTTATAAATGGAGTTT
9793055 TAGCTTTGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (50 bp):
ATTTTGTTATATATGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
Found at i:9793689 original size:21 final size:21
Alignment explanation
Indices: 9793663--9793732 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
9793653 ATTTAGAAGT
9793663 TTTAAAAACAAGTTGAAACCA
1 TTTAAAAACAAGTTGAAACCA
* *
9793684 TTTAAAAACAA-TT--CACGA
1 TTTAAAAACAAGTTGAAACCA
*
9793702 -GTAAAAACAAGTTGAAACCA
1 TTTAAAAACAAGTTGAAACCA
*
9793722 TTTAGAAACAA
1 TTTAAAAACAA
9793733 TTCACGAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 9 0.24
18 5 0.13
20 5 0.13
21 19 0.50
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.23
Consensus pattern (21 bp):
TTTAAAAACAAGTTGAAACCA
Found at i:9793707 original size:38 final size:38
Alignment explanation
Indices: 9793665--9793741 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
9793655 TTAGAAGTTT
9793665 TAAAAACAAGTTGAAACCATTTAAAAACAATTCACGAG
1 TAAAAACAAGTTGAAACCATTTAAAAACAATTCACGAG
*
9793703 TAAAAACAAGTTGAAACCATTTAGAAACAATTCACGAG
1 TAAAAACAAGTTGAAACCATTTAAAAACAATTCACGAG
9793741 T
1 T
9793742 TATTGGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.22
Consensus pattern (38 bp):
TAAAAACAAGTTGAAACCATTTAAAAACAATTCACGAG
Found at i:9799728 original size:19 final size:19
Alignment explanation
Indices: 9799706--9799745 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9799696 TTTATTATAA
*
9799706 TATTTTATTAT-TTTAGTTT
1 TATTTTATAATATTTA-TTT
9799725 TATTTTATAATATTTATTT
1 TATTTTATAATATTTATTT
9799744 TA
1 TA
9799746 AGTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TATTTTATAATATTTATTT
Found at i:9801549 original size:105 final size:105
Alignment explanation
Indices: 9801414--9801626 Score: 381
Period size: 105 Copynumber: 2.0 Consensus size: 105
9801404 AAAACCCTAC
* *
9801414 ACATCACAGTAGTGACAACTGACAACACAAAACTAAAGAACCAATAACTGCTAGCAGTGAAGTGT
1 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
*
9801479 ATTAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
66 ATTAACCAAAGTTCACGTGCAGTCTCATTTTCACAGGCAT
*
9801519 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAATCAATAACTGCTAGCAGTAAAGTGT
1 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
*
9801584 ATTAACCACAGTTCACGTGCAGTCTCATTTTCACAGGCAT
66 ATTAACCAAAGTTCACGTGCAGTCTCATTTTCACAGGCAT
9801624 ACA
1 ACA
9801627 CCAATGCATG
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (105 bp):
ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
ATTAACCAAAGTTCACGTGCAGTCTCATTTTCACAGGCAT
Found at i:9805264 original size:15 final size:15
Alignment explanation
Indices: 9805244--9805284 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
9805234 TCACCTTCTT
9805244 CTTCTATACAATCTG
1 CTTCTATACAATCTG
9805259 CTTCTATACAATCTG
1 CTTCTATACAATCTG
*
9805274 CTACTATACAA
1 CTTCTATACAA
9805285 CCCAAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (15 bp):
CTTCTATACAATCTG
Found at i:9818748 original size:57 final size:57
Alignment explanation
Indices: 9818681--9818795 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
9818671 ATAAGTGAGA
9818681 AAAAATACATCAACCAGATGAGTTTTACTTTTCAATTTTTATTTTAATAAAAAGAGT
1 AAAAATACATCAACCAGATGAGTTTTACTTTTCAATTTTTATTTTAATAAAAAGAGT
*
9818738 AAAAATACATCAACTAGATGAGTTTTACTTTTCAATTTTTATTTTAATAAAAAGAGT
1 AAAAATACATCAACCAGATGAGTTTTACTTTTCAATTTTTATTTTAATAAAAAGAGT
9818795 A
1 A
9818796 TTGCCAAAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.39
Consensus pattern (57 bp):
AAAAATACATCAACCAGATGAGTTTTACTTTTCAATTTTTATTTTAATAAAAAGAGT
Found at i:9819030 original size:22 final size:22
Alignment explanation
Indices: 9819005--9819049 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9818995 AATGTTAGTG
9819005 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
9819027 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
9819049 T
1 T
9819050 TTTTTATTAA
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:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:9824569 original size:22 final size:22
Alignment explanation
Indices: 9824541--9824585 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9824531 AGGGGGAGTG
9824541 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
9824563 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
9824585 T
1 T
9824586 TTTTATTAAA
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:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:9830025 original size:33 final size:33
Alignment explanation
Indices: 9829981--9830071 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 33
9829971 TAATACGCCT
* *
9829981 GCTCCTGTCCAGCAACTAAACACTCACATTCCA
1 GCTCCTGTCCAGCAACCAAACACTCACATCCCA
* *
9830014 GCTCCTATCCAGCAACCAGACACTCACATCCCA
1 GCTCCTGTCCAGCAACCAAACACTCACATCCCA
9830047 GCTCCTGTCCAGCAACCAAACACTC
1 GCTCCTGTCCAGCAACCAAACACTC
9830072 CCACTCAGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.30, C:0.43, G:0.10, T:0.18
Consensus pattern (33 bp):
GCTCCTGTCCAGCAACCAAACACTCACATCCCA
Found at i:9836087 original size:46 final size:46
Alignment explanation
Indices: 9836019--9836108 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
9836009 TTTATTGCAA
* *
9836019 TAAGAGTTTTAGTTTTATTTATTTTCTTTATTATATCAGGTTTTAT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTTAT
*
9836065 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
9836109 TATTTCCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (46 bp):
TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTTAT
Found at i:9844067 original size:40 final size:39
Alignment explanation
Indices: 9844036--9844245 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
9844026 GGACTAAGAT
* *
9844036 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
9844076 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
9844116 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
9844156 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
9844196 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
9844235 CCGAAGGCATT
1 CCGAAGGCATT
9844246 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:9844199 original size:120 final size:120
Alignment explanation
Indices: 9843983--9844245 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
9843973 TTGAATGCTG
* *
9843983 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
9844047 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
9844103 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
9844166 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
9844222 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
9844246 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:9844265 original size:79 final size:80
Alignment explanation
Indices: 9843984--9844280 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
9843974 TGAATGCTGT
* ** * * * **
9843984 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
9844047 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
9844064 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
9844128 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
9844144 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
9844208 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
9844223 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
9844281 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:9849905 original size:21 final size:21
Alignment explanation
Indices: 9849879--9849920 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9849869 TGCATGGATT
9849879 GGGTGAAAATTATTAAATTCC
1 GGGTGAAAATTATTAAATTCC
9849900 GGGTGAAAATTATTAAATTCC
1 GGGTGAAAATTATTAAATTCC
9849921 ATTCACCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
GGGTGAAAATTATTAAATTCC
Found at i:9851881 original size:31 final size:31
Alignment explanation
Indices: 9851843--9851909 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
9851833 TACATTAGTA
9851843 GTCACCTAACTATT-AGTAAA-TTTCTTTTCTG
1 GTCACCTAACTATTCA--AAATTTTCTTTTCTG
*
9851874 GTCACCTAACTATTCAAAATTTTCTTTTTTG
1 GTCACCTAACTATTCAAAATTTTCTTTTCTG
9851905 GTCAC
1 GTCAC
9851910 TGGTTAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 3 0.09
31 29 0.88
32 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (31 bp):
GTCACCTAACTATTCAAAATTTTCTTTTCTG
Found at i:9856690 original size:36 final size:36
Alignment explanation
Indices: 9856650--9856726 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
9856640 GACTAGTTAA
9856650 CACTTAACATTAACATATAAGCAGATATAAATGTTC
1 CACTTAACATTAACATATAAGCAGATATAAATGTTC
9856686 CACTTAACATTAACATATAAGCAGATATAAATGTTC
1 CACTTAACATTAACATATAAGCAGATATAAATGTTC
9856722 CACTT
1 CACTT
9856727 TGAACATGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (36 bp):
CACTTAACATTAACATATAAGCAGATATAAATGTTC
Found at i:9881763 original size:46 final size:46
Alignment explanation
Indices: 9881606--9881872 Score: 222
Period size: 46 Copynumber: 5.7 Consensus size: 46
9881596 TGGATATATT
* *
9881606 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTA--TG
* * * * *
9881655 TGCTGATGCATGTCCCAGACATGTCTTACACTAGC-A-CA-ACTCTTA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAGT-ATG
*
9881700 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATAGTATG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAGTATG
* * ** * * *
9881746 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCAT-AGTATG
* * * * *
9881792 GCCGATGCCATGT-CCAGATATTTTCTTACATTGGCTATCATAATGTG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTGGCTATCATAGTATG
*
9881839 GCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
9881873 GCCCAAATCA
Statistics
Matches: 171, Mismatches: 36, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
44 31 0.18
45 2 0.01
46 70 0.41
47 36 0.21
48 12 0.07
49 14 0.08
50 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAGTATG
Done.