Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000295.1 Hibiscus syriacus cultivar Beakdansim tig00000541_pilon, whole genome shotgun sequence
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: 2017499
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 5 of 9
Found at i:859920 original size:22 final size:22
Alignment explanation
Indices: 859886--859932 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
859876 CTTATTATTA
* *
859886 AATTATAATAATTATTAAATAT
1 AATTAAAAAAATTATTAAATAT
*
859908 AATTAAAAAAATTATTAATTAT
1 AATTAAAAAAATTATTAAATAT
859930 AAT
1 AAT
859933 AAATACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTAAAAAAATTATTAAATAT
Found at i:860362 original size:28 final size:28
Alignment explanation
Indices: 860330--860427 Score: 180
Period size: 28 Copynumber: 3.5 Consensus size: 28
860320 GTGATATTTG
860330 ATTCGAATAATACTTCAAATAAAGTCTT
1 ATTCGAATAATACTTCAAATAAAGTCTT
860358 ATTCGAATAATACTTCAAATAAAGTCTT
1 ATTCGAATAATACTTCAAATAAAGTCTT
*
860386 ATTCGAATAATACTTTAAATAAAGTCTT
1 ATTCGAATAATACTTCAAATAAAGTCTT
860414 -TTCGAATAATACTT
1 ATTCGAATAATACTT
860428 ACATATTAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 14 0.20
28 55 0.80
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (28 bp):
ATTCGAATAATACTTCAAATAAAGTCTT
Found at i:860766 original size:39 final size:39
Alignment explanation
Indices: 860719--860844 Score: 166
Period size: 39 Copynumber: 3.2 Consensus size: 39
860709 TTTCTACATA
* *
860719 GCCTGAAGATGTTGTGCACTCCTGGAGTCTTATACATTG
1 GCCTGAAGACGTCGTGCACTCCTGGAGTCTTATACATTG
* *
860758 GCCTGAAGACGTCGTTCACTCCTGGAGTCTTATTCATTG
1 GCCTGAAGACGTCGTGCACTCCTGGAGTCTTATACATTG
**
860797 GCCTGAAGACACCGTGCACTCCTGGAGTCTT-TA-AGTTTG
1 GCCTGAAGACGTCGTGCACTCCTGGAGTCTTATACA--TTG
860836 GCCTGAAGA
1 GCCTGAAGA
860845 TGCCAAACAA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 75 0.97
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (39 bp):
GCCTGAAGACGTCGTGCACTCCTGGAGTCTTATACATTG
Found at i:861689 original size:343 final size:333
Alignment explanation
Indices: 861107--861785 Score: 993
Period size: 343 Copynumber: 2.0 Consensus size: 333
861097 AAGGAGTTTC
* * * *
861107 ATCGATCTTCTTCCACGATCGGTCGAGGTCTCGTCATAAGGGAGGTAACCGGAGTAATCCTAAAG
1 ATCGACCTTCTTCCACGATCGCTCGAGGTCCCGTCATAAGGGAGGCAACCGGAGTAATCCTAAAG
* *
861172 TCATCAGGGAGGTGAAAGGTTAAAAAATTTCTTGAGAGTTAGGGGGCATTTTTTATATCTTTTAG
66 TCATCAGGGAGCTGAAAGGTCAAAAAATTTCTTGAGAGTTAGGGGGCATTTTTTATATCTTTTAG
*
861237 CTTCAAAGGGAGGAAATCAAGTTGTTGTGGCTCTTTTGTGAGAGTTTTTAGGTGTCTCAACCACT
131 CTTCAAAGGGAGGAAATCAAGTTGTTGTGGCTCTTTTGTGAGAGTTTTTAGATGTCTCAACCACT
861302 GCTGATGGTGGTCAGAGGGCAAAATCAGTTCCAATTATTGGTGGTCGTATGGTGGCTCTAGGTTT
196 GCTGATGGTGGTCAGAGGGCAAAATCAGTTCCAATTATTGGTGGTCGTATGGTGGCTCTAGGTTT
*
861367 TGGTGAGGACGGTCGTTAGTTATAGGGGAGGAGTTTG-AAAAAA-CGAGAGTTGAGAGAGAACAA
261 TGGTGAGGACGGTCGTGAGTTATAGGGGAGGAGTTTGAAAAAAAGCGAGAGTTGAGAGAGAACAA
861430 AAAGGACT
326 AAAGGACT
* * *
861438 ATCGACCTTCTTCCATGATCGCTCGAGGTCCCTTCATAAGGGAGGCAACCGGAGTAGTCCTAAAG
1 ATCGACCTTCTTCCACGATCGCTCGAGGTCCCGTCATAAGGGAGGCAACCGGAGTAATCCTAAAG
* * *
861503 TCATCAGGGAGCTGAAAGGTCAAAAATTTTCTTGAGAGTTATGGGGCATTTTTTATGTCTTTTAG
66 TCATCAGGGAGCTGAAAGGTCAAAAAATTTCTTGAGAGTTAGGGGGCATTTTTTATATCTTTTAG
* *
861568 CTTCGAATTTGGGGGTTTGGGGAGGAAATCGAGTTGTTGTGGCTCTTTTGTGAGAGTTTTTAGAT
131 CTTC-AA-----------AGGGAGGAAATCAAGTTGTTGTGGCTCTTTTGTGAGAGTTTTTAGAT
* *
861633 GTCTCAACCACTGCTGATGGTGGTCAGAGGGCAAAATTAGTTCCAGTTATTGGTGGTCGTATGGT
184 GTCTCAACCACTGCTGATGGTGGTCAGAGGGCAAAATCAGTTCCAATTATTGGTGGTCGTATGGT
* * * * * *
861698 GGCTCTAGGTTTTGGTGAGGGCGGTTGTGAGTTGTGGGGGAGGAGTTTGAAAAAAAAGGTGGGGA
249 GGCTCTAGGTTTTGGTGAGGACGGTCGTGAGTTATAGGGGAGGAGTTTG-AAAAAAA-G-CGAGA
861763 GTTGAGAGAGAACAAAAAGGACT
311 GTTGAGAGAGAACAAAAAGGACT
861786 TTGCTTTAGG
Statistics
Matches: 307, Mismatches: 24, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
331 122 0.40
332 2 0.01
343 151 0.49
345 6 0.02
348 26 0.08
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.30
Consensus pattern (333 bp):
ATCGACCTTCTTCCACGATCGCTCGAGGTCCCGTCATAAGGGAGGCAACCGGAGTAATCCTAAAG
TCATCAGGGAGCTGAAAGGTCAAAAAATTTCTTGAGAGTTAGGGGGCATTTTTTATATCTTTTAG
CTTCAAAGGGAGGAAATCAAGTTGTTGTGGCTCTTTTGTGAGAGTTTTTAGATGTCTCAACCACT
GCTGATGGTGGTCAGAGGGCAAAATCAGTTCCAATTATTGGTGGTCGTATGGTGGCTCTAGGTTT
TGGTGAGGACGGTCGTGAGTTATAGGGGAGGAGTTTGAAAAAAAGCGAGAGTTGAGAGAGAACAA
AAAGGACT
Found at i:862167 original size:29 final size:28
Alignment explanation
Indices: 862130--862184 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
862120 TTTTAATTTA
862130 AGTACTTTATATTATTTATTTATATTCT
1 AGTACTTTATATTATTTATTTATATTCT
* *
862158 AGTACCTTTATTTTATTTGTTTATATT
1 AGTA-CTTTATATTATTTATTTATATT
862185 TCACCATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (28 bp):
AGTACTTTATATTATTTATTTATATTCT
Found at i:862935 original size:2 final size:2
Alignment explanation
Indices: 862924--862952 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
862914 TTGAATTGTC
862924 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
862953 TACCTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:863135 original size:163 final size:164
Alignment explanation
Indices: 862941--863266 Score: 627
Period size: 163 Copynumber: 2.0 Consensus size: 164
862931 ATATATATAT
862941 ATATATATATATTACCTTATATTAAATTTTTATGTATATATTATATGTAAATATATCATGTACTT
1 ATATATATATATTACCTTATATTAAATTTTTATGTATATATTATATGTAAATATATCATGTACTT
863006 ATATTTATATTATATTATGTATACGTTTATATTAATTGGTATTTCATTTGTCGTGTGGTATATTA
66 ATATTTATATTATATTATGTATACGTTTATATTAATTGGTATTTCATTTGTCGTGTGGTATATTA
863071 TGTATTATATTTTTGCACGTAAAATATTTATAAC
131 TGTATTATATTTTTGCACGTAAAATATTTATAAC
*
863105 ATAT-TATATATTACCTTATATTATATTTTTATGTATATATTATATGTAAATATATCATGTACTT
1 ATATATATATATTACCTTATATTAAATTTTTATGTATATATTATATGTAAATATATCATGTACTT
863169 ATATTTATATTATATTATGTATACGTTTATATTAATTGGTATTTCATTTGTCGTGTGGTATATTA
66 ATATTTATATTATATTATGTATACGTTTATATTAATTGGTATTTCATTTGTCGTGTGGTATATTA
*
863234 TGTATTATATTTTTGTACGTAAAATATTTATAA
131 TGTATTATATTTTTGCACGTAAAATATTTATAA
863267 TAAGTATTCT
Statistics
Matches: 160, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
163 156 0.98
164 4 0.03
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (164 bp):
ATATATATATATTACCTTATATTAAATTTTTATGTATATATTATATGTAAATATATCATGTACTT
ATATTTATATTATATTATGTATACGTTTATATTAATTGGTATTTCATTTGTCGTGTGGTATATTA
TGTATTATATTTTTGCACGTAAAATATTTATAAC
Found at i:863633 original size:139 final size:139
Alignment explanation
Indices: 863484--863739 Score: 374
Period size: 139 Copynumber: 1.8 Consensus size: 139
863474 CTTAACTTAG
*
863484 TTTAATTTAGGAGAATTTTT-TATTTGGTCCTCGCTTTCATGCTGGAGGTTCCATTTTGACTATT
1 TTTAATTTAGGAGAATTTTTGT-TTTGGTACTCGCTTTCATGCTGGAGGTTCCATTTTGACTATT
* * * *
863548 CGATTCAATAATTTGTTAAAATTTG-TTAGG-TTAATAGTTAGAGCCTCCATTTTAGTTTTTATT
65 CGACTCAATAATTTATTAAAA-ATGATTAGGATTAATA-TTAGAGCCTACATTTTAGTTTTTATT
863611 TCACTGTAGTCC
128 TCACTGTAGTCC
* * * *
863623 TTTAATTTAGGAGAATTTTTGTTTTGGTATTCGCTTTTATGCTTGAGGTTCCATTTTGATTATTC
1 TTTAATTTAGGAGAATTTTTGTTTTGGTACTCGCTTTCATGCTGGAGGTTCCATTTTGACTATTC
*
863688 GACTCAATAATTTATTAAAAATGATTTGGATTAATATTAGAGCCTACATTTT
66 GACTCAATAATTTATTAAAAATGATTAGGATTAATATTAGAGCCTACATTTT
863740 TTTAGGTTTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
138 2 0.02
139 95 0.91
140 7 0.07
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (139 bp):
TTTAATTTAGGAGAATTTTTGTTTTGGTACTCGCTTTCATGCTGGAGGTTCCATTTTGACTATTC
GACTCAATAATTTATTAAAAATGATTAGGATTAATATTAGAGCCTACATTTTAGTTTTTATTTCA
CTGTAGTCC
Found at i:864524 original size:10 final size:9
Alignment explanation
Indices: 864501--864564 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
864491 CAGCTGGAAA
864501 ACCGGTTTG
1 ACCGGTTTG
864510 ACCGGTTTCG
1 ACCGGTTT-G
*
864520 ACCGGTTCG
1 ACCGGTTTG
* *
864529 AACCGATCTG
1 -ACCGGTTTG
*
864539 ACCGGTCTG
1 ACCGGTTTG
*
864548 AACCGATTTG
1 -ACCGGTTTG
864558 ACCGGTT
1 ACCGGTT
864565 CGACTCGACC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 23 0.52
10 21 0.48
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:864541 original size:19 final size:19
Alignment explanation
Indices: 864519--864567 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
864509 GACCGGTTTC
864519 GACCGGTTCGAACCGATCT
1 GACCGGTTCGAACCGATCT
*
864538 GACCGG-TCTGAACCGATTT
1 GACCGGTTC-GAACCGATCT
864557 GACCGGTTCGA
1 GACCGGTTCGA
864568 CTCGACCCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 23 0.85
20 2 0.07
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.22
Consensus pattern (19 bp):
GACCGGTTCGAACCGATCT
Found at i:864580 original size:38 final size:38
Alignment explanation
Indices: 864501--864580 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
864491 CAGCTGGAAA
* * * *
864501 ACCGGTTTGACCGGTTTCGACCGGTTCGAACCGATCTG
1 ACCGGTCTGACCGATTTCGACCGGTTCGAACCGACCCG
864539 ACCGGTCTGAACCGATTT-GACCGGTTCG-ACTCGACCCG
1 ACCGGTCTG-ACCGATTTCGACCGGTTCGAAC-CGACCCG
864577 ACCG
1 ACCG
864581 TTGACCCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.06
38 27 0.75
39 7 0.19
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.23
Consensus pattern (38 bp):
ACCGGTCTGACCGATTTCGACCGGTTCGAACCGACCCG
Found at i:868211 original size:3 final size:3
Alignment explanation
Indices: 868205--868254 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
868195 AAAATCGAGT
*
868205 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
868253 TT
1 TT
868255 TTTTACATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:872427 original size:29 final size:27
Alignment explanation
Indices: 872395--872472 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 27
872385 ATGCATATAT
872395 TATAAATATAAGTATAAAGTATATA-A
1 TATAAATATAAGTATAAAGTATATACA
*
872421 TTATATACTTATATA-TATAAAGTATATACA
1 -TATA-A-ATATA-AGTATAAAGTATATACA
872451 TATAAATATAAGTAT-AAGTATA
1 TATAAATATAAGTATAAAGTATA
872473 AAGTATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
26 8 0.18
27 11 0.25
28 2 0.05
29 21 0.48
30 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (27 bp):
TATAAATATAAGTATAAAGTATATACA
Found at i:873232 original size:31 final size:31
Alignment explanation
Indices: 873191--873271 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
873181 GGAATAATAA
*
873191 AAATATAAGTAT-AAGTATAATATATA-TATAT
1 AAATAAAAGTATAAAGTAT-ATATA-AGTATAT
873222 AAATAAAAGTATAAAGTATATATAAGTATAT
1 AAATAAAAGTATAAAGTATATATAAGTATAT
873253 AAATATAAA-TATAAAGTAT
1 AAATA-AAAGTATAAAGTAT
873272 TAAACTTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
30 1 0.02
31 36 0.78
32 9 0.20
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (31 bp):
AAATAAAAGTATAAAGTATATATAAGTATAT
Found at i:873255 original size:27 final size:25
Alignment explanation
Indices: 873193--873245 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
873183 AATAATAAAA
* *
873193 ATATAAGTATAAGTATAATATATAT
1 ATATAAATAAAAGTATAATATATAT
873218 ATATAAATAAAAGTATAA-AGTATAT
1 ATATAAATAAAAGTATAATA-TATAT
873243 ATA
1 ATA
873246 AGTATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (25 bp):
ATATAAATAAAAGTATAATATATAT
Found at i:873258 original size:6 final size:6
Alignment explanation
Indices: 873186--873286 Score: 64
Period size: 6 Copynumber: 15.8 Consensus size: 6
873176 TATATGGAAT
* * * *
873186 AATAAA AATATA AGTATA AGTATA ATATATA TATATA AATA-A AAGTATA
1 AATATA AATATA AATATA AATATA A-ATATA AATATA AATATA AA-TATA
873235 AAGTAT- -ATATA AGTATATA AATATA AATATA AAGTATTA AACTTATA
1 AA-TATA AATATA A--ATATA AATATA AATATA AA-TA-TA AA--TATA
873282 AATAT
1 AATAT
873287 TTAAATTAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
4 3 0.04
5 4 0.05
6 43 0.54
7 13 0.16
8 14 0.18
9 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (6 bp):
AATATA
Found at i:873281 original size:22 final size:22
Alignment explanation
Indices: 873156--873286 Score: 67
Period size: 25 Copynumber: 5.6 Consensus size: 22
873146 AACTTTTTCC
*
873156 ATAAAGTATATATATATATA-TAT
1 ATAAA-TATAAATATATA-AGTAT
* *
873179 ATGGAATAATAAAAATATAAGTAT
1 AT-AAAT-ATAAATATATAAGTAT
*
873203 AAGTATAATATATATATATAA--AT
1 -A-TA-AATATAAATATATAAGTAT
873226 A-AAAGTATAAAGTATATATAAGTAT
1 ATAAA-TAT-AA--ATATATAAGTAT
873251 ATAAATATAAATATA-AAGTAT
1 ATAAATATAAATATATAAGTAT
873272 -TAAACTTATAAATAT
1 ATAAA--TATAAATAT
873287 TTAAATTAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
19 2 0.02
20 8 0.09
21 7 0.08
22 15 0.17
23 14 0.16
24 16 0.19
25 17 0.20
26 7 0.08
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAAATATAAATATATAAGTAT
Found at i:874275 original size:44 final size:44
Alignment explanation
Indices: 874202--874286 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
874192 CATGATAATT
*
874202 TTTTTAATATTTTTTAAATTTCCACGTCAACAATCAAATAAAAC
1 TTTTTAATATTTCTTAAATTTCCACGTCAACAATCAAATAAAAC
* *
874246 TTTTTAATATTTCTTAAAGTTT-TATGTCAACAATCAAATAA
1 TTTTTAATATTTCTTAAA-TTTCCACGTCAACAATCAAATAA
874287 TATTGTTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.44
Consensus pattern (44 bp):
TTTTTAATATTTCTTAAATTTCCACGTCAACAATCAAATAAAAC
Found at i:874644 original size:60 final size:61
Alignment explanation
Indices: 874510--874644 Score: 166
Period size: 60 Copynumber: 2.2 Consensus size: 61
874500 GCACAAAGTT
* * *
874510 GCATCCCTGGGGACGCACTTTACCTGGGTTTTAGCTGACTGGGATACCACGCGGGTAAGAC
1 GCATCCCTGGGGACACACTTTACATGGGTTTTAGCTGACTCGGATACCACGCGGGTAAGAC
* * * * *
874571 GCATCCCTAGGGACACGCTTT-CATGGGATTTT-GCTGATTCGGATGCCACGGGGGTAAGAC
1 GCATCCCTGGGGACACACTTTACATGGG-TTTTAGCTGACTCGGATACCACGCGGGTAAGAC
*
874631 GCATCCCCGGGGAC
1 GCATCCCTGGGGAC
874645 GCACCTTCCA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 41 0.65
61 22 0.35
ACGTcount: A:0.19, C:0.27, G:0.32, T:0.22
Consensus pattern (61 bp):
GCATCCCTGGGGACACACTTTACATGGGTTTTAGCTGACTCGGATACCACGCGGGTAAGAC
Found at i:874917 original size:27 final size:30
Alignment explanation
Indices: 874861--874958 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
874851 AATATTGCTA
*
874861 TATTTTTTATTAATATAATTATATAAATAT
1 TATTTTTTATTAAAATAATTATATAAATAT
* *
874891 TATTTTTTATTAAAATAA-TATTTATATAAT
1 TATTTTTTATTAAAATAATTATATAAAT-AT
* * * *
874921 TATTATTTATTTAAATTTATT-TATTAATTAT
1 TATTTTTTA-TTAAAATAATTATA-TAAATAT
874952 TATTTTT
1 TATTTTT
874959 GCTAATTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
29 7 0.13
30 27 0.50
31 16 0.30
32 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TATTTTTTATTAAAATAATTATATAAATAT
Found at i:874925 original size:33 final size:31
Alignment explanation
Indices: 874861--874958 Score: 114
Period size: 33 Copynumber: 3.2 Consensus size: 31
874851 AATATTGCTA
* *
874861 TATTTTTTATT-AATATAATTATATAAATAT
1 TATTTTTTATTAAATATATTTATATAATTAT
874891 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTTTATT-AAAT-ATATTTATATAATTAT
* *
874924 TA-TTTAT-TTAAATTTATTTAT-TAATTAT
1 TATTTTTTATTAAATATATTTATATAATTAT
874952 TATTTTT
1 TATTTTT
874959 GCTAATTATA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
28 9 0.15
29 10 0.17
30 15 0.25
31 2 0.03
32 7 0.12
33 16 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
TATTTTTTATTAAATATATTTATATAATTAT
Found at i:874965 original size:28 final size:30
Alignment explanation
Indices: 874889--874956 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
874879 TTATATAAAT
* * *
874889 ATTATTTTTTATTAAAATAATATTTATATA
1 ATTATTATTTATTTAAATTATATTTATATA
874919 ATTATTATTTATTTAAATT-TATTTAT-TA
1 ATTATTATTTATTTAAATTATATTTATATA
874947 ATTATTATTT
1 ATTATTATTT
874957 TTGCTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 12 0.34
29 7 0.20
30 16 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTATTATTTATTTAAATTATATTTATATA
Found at i:875067 original size:22 final size:21
Alignment explanation
Indices: 875039--875081 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
875029 TCTTTAGACA
875039 TTTTAGTGATATGATAATATTT
1 TTTTAGT-ATATGATAATATTT
* *
875061 TTTTAGTTTATGTTAATATTT
1 TTTTAGTATATGATAATATTT
875082 ATTATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (21 bp):
TTTTAGTATATGATAATATTT
Found at i:876778 original size:21 final size:21
Alignment explanation
Indices: 876706--876778 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
876696 TATGCCATCT
876706 CTGCAGGGTTACATTCCTAGC
1 CTGCAGGGTTACATTCCTAGC
* *
876727 CCGCAAGGTTACATTCCTAGC
1 CTGCAGGGTTACATTCCTAGC
*
876748 CTGCTA-GGTTACATTCCTAGG
1 CTGC-AGGGTTACATTCCTAGC
*
876769 ATGCAGGGTT
1 CTGCAGGGTT
876779 TTATGACACC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.29
Consensus pattern (21 bp):
CTGCAGGGTTACATTCCTAGC
Found at i:880543 original size:20 final size:20
Alignment explanation
Indices: 880518--880560 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
880508 TAATAATTAA
*
880518 TATTATTTATTATAAAAAAT
1 TATTATTAATTATAAAAAAT
* *
880538 TATTATTAATTTTAAAATAT
1 TATTATTAATTATAAAAAAT
880558 TAT
1 TAT
880561 AATAATTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTATTAATTATAAAAAAT
Found at i:880566 original size:19 final size:20
Alignment explanation
Indices: 880530--880567 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
880520 TTATTTATTA
*
880530 TAAAAAATTATTATTAATTT
1 TAAAAAATTATTAATAATTT
*
880550 TAAAATATTA-TAATAATT
1 TAAAAAATTATTAATAATT
880568 CCACCTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAAAATTATTAATAATTT
Found at i:886094 original size:14 final size:14
Alignment explanation
Indices: 886075--886105 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
886065 TACAAATAAT
886075 CACGTAGGTTATGA
1 CACGTAGGTTATGA
886089 CACGTAGGTTATGA
1 CACGTAGGTTATGA
886103 CAC
1 CAC
886106 ATAGCTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (14 bp):
CACGTAGGTTATGA
Found at i:886998 original size:18 final size:18
Alignment explanation
Indices: 886975--887021 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
886965 ATGCAAAAAT
886975 GGTACCGATACCCAAAGG
1 GGTACCGATACCCAAAGG
886993 GGTACCGATACCCAAAGG
1 GGTACCGATACCCAAAGG
887011 GGTACCGATAC
1 GGTACCGATAC
887022 TACTCTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.28, T:0.13
Consensus pattern (18 bp):
GGTACCGATACCCAAAGG
Found at i:887060 original size:20 final size:21
Alignment explanation
Indices: 887035--887073 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
887025 TCTGTATAGT
887035 AGTATCGACACCA-TAGGCAC
1 AGTATCGACACCATTAGGCAC
*
887055 AGTATCGATACCATTAGGC
1 AGTATCGACACCATTAGGC
887074 CTCAACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (21 bp):
AGTATCGACACCATTAGGCAC
Found at i:890991 original size:19 final size:19
Alignment explanation
Indices: 890967--891020 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
890957 AACAAACTCT
*
890967 TAACTGCTGCTGACTCAGC
1 TAACTGCCGCTGACTCAGC
890986 TAACTGCCGCTGACTCAGC
1 TAACTGCCGCTGACTCAGC
*
891005 TAACTGCCGCTTACTC
1 TAACTGCCGCTGACTC
891021 GCTTACATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.26
Consensus pattern (19 bp):
TAACTGCCGCTGACTCAGC
Found at i:894442 original size:5 final size:5
Alignment explanation
Indices: 894432--894457 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
894422 AATTAAAGAG
894432 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
894458 TTCTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:896660 original size:23 final size:23
Alignment explanation
Indices: 896610--896661 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
896600 ATGAATATAC
* *
896610 ATAAAATTAATAGAACGAATTAT
1 ATAAAATAAATAGAACGAATTAA
*
896633 CTAAAATAAATAGAAC-AATTTAA
1 ATAAAATAAATAGAACGAA-TTAA
896656 ATAAAA
1 ATAAAA
896662 GAATAGATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.27
Consensus pattern (23 bp):
ATAAAATAAATAGAACGAATTAA
Found at i:896785 original size:6 final size:6
Alignment explanation
Indices: 896762--896829 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
896752 TCATAAGATT
* * *
896762 AAATAT AAACAA AGATAA AAATAA TCAAATAA AAATAA AAATAA AAGA-AA
1 AAATAA AAATAA AAATAA AAATAA --AAATAA AAATAA AAATAA AA-ATAA
*
896812 TAA-AA AAATAA AAA-AA AA
1 AAATAA AAATAA AAATAA AA
896830 TGTCGGTCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
5 9 0.18
6 35 0.69
7 1 0.02
8 6 0.12
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:896814 original size:9 final size:8
Alignment explanation
Indices: 896766--896827 Score: 54
Period size: 8 Copynumber: 7.1 Consensus size: 8
896756 AAGATTAAAT
896766 ATAAACAAA
1 ATAAA-AAA
896775 GATAAAAATA
1 -ATAAAAA-A
896785 ATCAAATAAA
1 AT-AAA-AAA
*
896795 A-ATAAAA
1 ATAAAAAA
896802 ATAAAAGAA
1 ATAAAA-AA
896811 ATAAAAAA
1 ATAAAAAA
896819 ATAAAAAA
1 ATAAAAAA
896827 A
1 A
896828 AATGTCGGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
7 4 0.09
8 16 0.36
9 12 0.27
10 11 0.24
11 2 0.04
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:896820 original size:17 final size:17
Alignment explanation
Indices: 896776--896824 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
896766 ATAAACAAAG
* *
896776 ATAAAAATAATCAAATAA
1 ATAAAAA-AATAAAAGAA
896794 A-AATAAAAATAAAAGAA
1 ATAA-AAAAATAAAAGAA
896811 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
896825 AAAAATGTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (17 bp):
ATAAAAAAATAAAAGAA
Found at i:896828 original size:21 final size:21
Alignment explanation
Indices: 896788--896829 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
896778 AAAAATAATC
*
896788 AAATAAAAATAAAAATAAAAG
1 AAATAAAAATAAAAAAAAAAG
*
896809 AAATAAAAAAATAAAAAAAAA
1 AAATAAAAATA-AAAAAAAAA
896830 TGTCGGTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (21 bp):
AAATAAAAATAAAAAAAAAAG
Found at i:903088 original size:7 final size:7
Alignment explanation
Indices: 903078--903118 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
903068 GAAAAAAAGA
*
903078 ATAAAAT
1 ATAATAT
903085 ATAATAT
1 ATAATAT
903092 ATAATAT
1 ATAATAT
903099 ATAATACT
1 ATAATA-T
903107 ATAATAT
1 ATAATAT
903114 ATAAT
1 ATAAT
903119 TTTTTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 25 0.78
8 7 0.22
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (7 bp):
ATAATAT
Found at i:903137 original size:2 final size:2
Alignment explanation
Indices: 903132--903162 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
903122 TTTTAAAAAC
903132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
903163 TCAAAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:903151 original size:50 final size:49
Alignment explanation
Indices: 903088--903197 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 49
903078 ATAAAATATA
* * *
903088 ATATATA-ATATATA-ATACTATA-ATATA-T-AATTTTTTTTAAAAACT
1 ATATATATATATATATATA-TATATATATATTAAAATGTTTTCAAAAACT
903133 ATATATATATATATATATATATATATATATTCAAAATGTTTTCAAAAACT
1 ATATATATATATATATATATATATATATATT-AAAATGTTTTCAAAAACT
903183 ATATAT-TATATATAT
1 ATATATATATATATAT
903198 TTCCAAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
45 7 0.12
46 11 0.20
47 8 0.14
48 1 0.02
49 9 0.16
50 20 0.36
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (49 bp):
ATATATATATATATATATATATATATATATTAAAATGTTTTCAAAAACT
Found at i:903205 original size:37 final size:35
Alignment explanation
Indices: 903144--903272 Score: 170
Period size: 37 Copynumber: 3.5 Consensus size: 35
903134 TATATATATA
903144 TATATATATATATATATATTCAAAATGTTTTCAAAAAC
1 TATATAT-TATATATAT-TTCAAAAT-TTTTCAAAAAC
903182 TATATATTATATATATTTCCAAAATATTTTCAAAAAC
1 TATATATTATATATATTT-CAAAAT-TTTTCAAAAAC
*
903219 TATATATTATATATATTTTCAAAATTTTAT-AAAAATA
1 TATATATTATATATA-TTTCAAAATTTT-TCAAAAA-C
903256 TATATATTATATATATT
1 TATATATTATATATATT
903273 AAATAGTATC
Statistics
Matches: 85, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
36 12 0.14
37 63 0.74
38 10 0.12
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.47
Consensus pattern (35 bp):
TATATATTATATATATTTCAAAATTTTTCAAAAAC
Found at i:906313 original size:16 final size:17
Alignment explanation
Indices: 906292--906323 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
906282 AAGGGAGAGA
906292 AAAATAAAAAA-AAAAC
1 AAAATAAAAAATAAAAC
906308 AAAATAAAAAATAAAA
1 AAAATAAAAAATAAAA
906324 AAGAAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAATAAAAC
Found at i:908262 original size:35 final size:35
Alignment explanation
Indices: 908213--908314 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
908203 AAGTTATTTG
* *
908213 AATCAAGCCTTCACAAAAAAGCAGTGGAGCAATGC
1 AATCTAGCCTTCACAAAAAAGCAGTGAAGCAATGC
* * *
908248 AATCTAGCATTCACAAAAGAGTAGTGAAGCAATGC
1 AATCTAGCCTTCACAAAAAAGCAGTGAAGCAATGC
* * * * *
908283 AATTTAGCCTTCATAAAAGAGTAGTGACGCAA
1 AATCTAGCCTTCACAAAAAAGCAGTGAAGCAA
908315 GATAAGATCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.20
Consensus pattern (35 bp):
AATCTAGCCTTCACAAAAAAGCAGTGAAGCAATGC
Found at i:908501 original size:11 final size:11
Alignment explanation
Indices: 908485--908510 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
908475 CCGAATTCGA
908485 TTATTTTTATG
1 TTATTTTTATG
908496 TTATTTTTATG
1 TTATTTTTATG
908507 TTAT
1 TTAT
908511 ATTATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (11 bp):
TTATTTTTATG
Found at i:908586 original size:17 final size:17
Alignment explanation
Indices: 908564--908596 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
908554 ATTAAACTAG
908564 AAGGCCCAATTACAACC
1 AAGGCCCAATTACAACC
*
908581 AAGGCCCGATTACAAC
1 AAGGCCCAATTACAAC
908597 AAAACCCGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.33, G:0.15, T:0.12
Consensus pattern (17 bp):
AAGGCCCAATTACAACC
Found at i:908772 original size:23 final size:23
Alignment explanation
Indices: 908742--908813 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
908732 GTCGTTGTAA
908742 CCATAGGGCTATTCCGACCGCCG
1 CCATAGGGCTATTCCGACCGCCG
* ** ***
908765 CCATAGGG-TACT-C-ATTGTAA
1 CCATAGGGCTATTCCGACCGCCG
908785 CCATAGGGCTATTCCGACCGCCG
1 CCATAGGGCTATTCCGACCGCCG
908808 CCATAG
1 CCATAG
908814 TGGTATGATA
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
20 10 0.29
21 4 0.12
22 4 0.12
23 16 0.47
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.21
Consensus pattern (23 bp):
CCATAGGGCTATTCCGACCGCCG
Found at i:908797 original size:43 final size:44
Alignment explanation
Indices: 908736--908818 Score: 159
Period size: 43 Copynumber: 1.9 Consensus size: 44
908726 ATCCTAGTCG
908736 TTGTAACCATAGGGCTATTCCGACCGCCGCCATAG-GGTACTCA
1 TTGTAACCATAGGGCTATTCCGACCGCCGCCATAGTGGTACTCA
908779 TTGTAACCATAGGGCTATTCCGACCGCCGCCATAGTGGTA
1 TTGTAACCATAGGGCTATTCCGACCGCCGCCATAGTGGTA
908819 TGATATCTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (44 bp):
TTGTAACCATAGGGCTATTCCGACCGCCGCCATAGTGGTACTCA
Found at i:909414 original size:9 final size:9
Alignment explanation
Indices: 909400--909424 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
909390 TCGCTCGGTT
909400 AGAGAGAGA
1 AGAGAGAGA
909409 AGAGAGAGA
1 AGAGAGAGA
909418 AGAGAGA
1 AGAGAGA
909425 AAAGGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
AGAGAGAGA
Found at i:912545 original size:40 final size:40
Alignment explanation
Indices: 912484--912645 Score: 265
Period size: 40 Copynumber: 4.1 Consensus size: 40
912474 GTAATATTTG
912484 CACCGTAGTGC--TACACATAAGGTCGTGCCCACCATATA
1 CACCGTAGTGCATTACACATAAGGTCGTGCCCACCATATA
912522 CACCGTAGTGCATTACACATAAGGTCGTGCCCACCATATA
1 CACCGTAGTGCATTACACATAAGGTCGTGCCCACCATATA
* *
912562 CACCGTAATGCATTACACATAAGGTCGTGCCTACCATATA
1 CACCGTAGTGCATTACACATAAGGTCGTGCCCACCATATA
* *
912602 CATCGTAGTGCATTACACATAAGATCGTGCCCACCATATTA
1 CACCGTAGTGCATTACACATAAGGTCGTGCCCACCATA-TA
912643 CAC
1 CAC
912646 TTAATGTCCT
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 11 0.10
40 99 0.87
41 4 0.04
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (40 bp):
CACCGTAGTGCATTACACATAAGGTCGTGCCCACCATATA
Found at i:914579 original size:20 final size:20
Alignment explanation
Indices: 914527--914580 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
914517 TACTAGCAGG
*
914527 GGGTATCGATACCATAGTAG
1 GGGTATCGATACCATAGTAA
* * *
914547 GGTAGTATTGATACGATGGTAA
1 GG--GTATCGATACCATAGTAA
914569 GGGTATCGATAC
1 GGGTATCGATAC
914581 TAGGCAACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 11 0.41
22 16 0.59
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:914649 original size:95 final size:95
Alignment explanation
Indices: 914472--914649 Score: 223
Period size: 95 Copynumber: 1.9 Consensus size: 95
914462 TACCATGATA
* * * * *
914472 AAGGGTATCGATACCAAGCAACTTCGAATCTAATTTTGGTATCGATACTAGCAGGGGGTATCGAT
1 AAGGGTATCGATACCAAGCAACATCAAACCTAATTTTGGTATCGATACCAACAGGGGGTATCGAT
* *
914537 ACCATAGTAGGGTAGTATTGATACGATGGT
66 ACCATAGTAGAGAAGTATTGATACGATGGT
* * * * *
914567 AAGGGTATCGATACTAGGCAACATCAAACCTATTTTTTGTATCGATACCCAAC-GGGGGTATTGA
1 AAGGGTATCGATACCAAGCAACATCAAACCTAATTTTGGTATCGATA-CCAACAGGGGGTATCGA
*
914631 TACCATAGTATAGAAGTAT
65 TACCATAGTAGAGAAGTAT
914650 CGGTACCAGG
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
95 66 0.96
96 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (95 bp):
AAGGGTATCGATACCAAGCAACATCAAACCTAATTTTGGTATCGATACCAACAGGGGGTATCGAT
ACCATAGTAGAGAAGTATTGATACGATGGT
Found at i:915125 original size:48 final size:48
Alignment explanation
Indices: 915054--915145 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
915044 ATTAATCACC
*
915054 GTACATGAACCTTGTGTACAAATCCACGA-AATTCATCATGAGTTGATG
1 GTACATGAACCTTGTGTACAAATCCAC-ATAATTCATCACGAGTTGATG
* *
915102 GTACATGCACCTTGTGTGCAAATCCACATAATTCATCACGAGTT
1 GTACATGAACCTTGTGTACAAATCCACATAATTCATCACGAGTT
915146 AATGAATCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (48 bp):
GTACATGAACCTTGTGTACAAATCCACATAATTCATCACGAGTTGATG
Found at i:915256 original size:54 final size:53
Alignment explanation
Indices: 915102--915261 Score: 167
Period size: 55 Copynumber: 2.9 Consensus size: 53
915092 TGAGTTGATG
** * *
915102 GTACATGCACCTTGTGTGCAAATCCACATAATTCATCACGAGTTAATGAATCACC
1 GTACATGCA-CTTGTGTGCAAAT-CACGGAATTCATCATGAGTTGATGAATCACC
* * * * *
915157 ATACAGGAACTTCGTGTGCATATTCATGGAATTCATCATGAGTTGATGAATCACC
1 GTACATGCACTT-GTGTGCA-AATCACGGAATTCATCATGAGTTGATGAATCACC
* * *
915212 GTACATGCACTATGTGTGCAACTCACGGAATTTATCATGGGTTGATGAAT
1 GTACATGCACT-TGTGTGCAAATCACGGAATTCATCATGAGTTGATGAAT
915262 TCCCGTATAG
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
54 29 0.34
55 54 0.63
56 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (53 bp):
GTACATGCACTTGTGTGCAAATCACGGAATTCATCATGAGTTGATGAATCACC
Found at i:915276 original size:54 final size:55
Alignment explanation
Indices: 915131--915276 Score: 163
Period size: 55 Copynumber: 2.7 Consensus size: 55
915121 AAATCCACAT
* * * * * *
915131 AATTCATCACGAGTTAATGAATCACCATACAGGAACT-TCGTGTGCATATTCATGG
1 AATTCATCATGAGTTGATGAATCACCGTACAGGCACTAT-GTGTGCATACTCACGG
*
915186 AATTCATCATGAGTTGATGAATCACCGTACATGCACTATGTGTGCA-ACTCACGG
1 AATTCATCATGAGTTGATGAATCACCGTACAGGCACTATGTGTGCATACTCACGG
* * *
915240 AATTTATCATGGGTTGATGAATTC-CCGTATAGGCACT
1 AATTCATCATGAGTTGATGAA-TCACCGTACAGGCACT
915277 GATTATGAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
54 36 0.46
55 41 0.53
56 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (55 bp):
AATTCATCATGAGTTGATGAATCACCGTACAGGCACTATGTGTGCATACTCACGG
Found at i:922286 original size:95 final size:95
Alignment explanation
Indices: 922131--922357 Score: 260
Period size: 95 Copynumber: 2.4 Consensus size: 95
922121 ATATCGATGA
* * * * *
922131 GGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGTAACTTCGAATCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGGTAA-GGGTATCGATACTAAGTAACATCAAACCTAATTTTGGTATCG
* * * *
922196 ATA-CTAGTAGGGGATATCGGTATCATAGTAG
65 ATACCCA-AAGGGGATATCGATACCATAGTAG
* *
922227 GGTAGTATCGATACCATGGTAAGGGTATCGATACTAGGTAACATCAAACCTATTTTTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACTAAGTAACATCAAACCTAATTTTGGTATCGA
* *
922292 TACCCAAAGGGGGTATCGATACCATAGTAT
66 TACCCAAAGGGGATATCGATACCATAGTAG
* * * *
922322 AGAAGTATCGGTACCATGGT-AGTAGTATCGATACTA
1 GGTAGTATCGATACCATGGTAAG-GGTATCGATACTA
922358 TGTGGATAGA
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
94 2 0.02
95 87 0.78
96 23 0.21
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACTAAGTAACATCAAACCTAATTTTGGTATCGA
TACCCAAAGGGGATATCGATACCATAGTAG
Found at i:922775 original size:55 final size:55
Alignment explanation
Indices: 922691--923057 Score: 406
Period size: 55 Copynumber: 6.7 Consensus size: 55
922681 CAGGCACTTC
* * * *
922691 GTGTGCATATCCACGGAATTCATCATGAGTTGATGAATCATCGTACATGTACCTT
1 GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACATGCACCTT
* * * *
922746 GTGTGTAAATCCACGGAATTCATCATGAGTTGATGAATCAACGTACAAGCACCTT
1 GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACATGCACCTT
** *
922801 GTGCACAAATCCACAGAATTCATCATGAGTTCATGAATCACCGTACATGCACCTT
1 GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACATGCACCTT
* *
922856 GTGTGCAAATCCACAGATTTCATCATGAGTTGATGAATCACCGTACATACACCTT
1 GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACATGCACCTT
* *
922911 ATGTGCAAATCC-CTAGAATTCATCATGAGTTGATGAATCACCGTACA-G-ACACTAC
1 GTGTGCAAATCCAC-AGAATTCATCATGAGTTGATGAATCACCGTACATGCAC-CT-T
* * * * * * *
922966 GTGTACATATTCA-TGAAATTCATCATAAGTTGATGAATCACTGTACATGCA-CTAA
1 GTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATCACCGTACATGCACCT-T
** *
923021 GTGTGCAGCT-CAC-GTAATTCATCATGGGTTGATGAAT
1 GTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAAT
923058 TCCCGTATAG
Statistics
Matches: 269, Mismatches: 35, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.01
54 27 0.10
55 238 0.88
56 1 0.00
57 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (55 bp):
GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACATGCACCTT
Found at i:927479 original size:40 final size:40
Alignment explanation
Indices: 927423--927504 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
927413 TGCAGGTTTA
* *
927423 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATATG
927463 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATATG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATATG
927503 TA
1 TA
927505 GCACTAAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
TAATACACTTCAGTGTATATGGTGGGCACGACCTTATATG
Found at i:927703 original size:47 final size:44
Alignment explanation
Indices: 927609--927726 Score: 155
Period size: 47 Copynumber: 2.6 Consensus size: 44
927599 GTAACCATGC
*
927609 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATAGGAA
* * * *
927653 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--T-AATGGCAAGTATATAGGAA
*
927700 AAATAAGCTTACGAGCTTATGGGATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
927727 ATTGTAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 25 0.38
45 1 0.02
46 1 0.02
47 38 0.58
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATAGGAA
Found at i:928140 original size:12 final size:12
Alignment explanation
Indices: 928123--928147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
928113 AATTTTCAGA
928123 AATTACTGTAGC
1 AATTACTGTAGC
928135 AATTACTGTAGC
1 AATTACTGTAGC
928147 A
1 A
928148 TGAACAATAA
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:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
AATTACTGTAGC
Found at i:929191 original size:40 final size:40
Alignment explanation
Indices: 929147--929273 Score: 157
Period size: 40 Copynumber: 3.1 Consensus size: 40
929137 ACCGTAGTTC
*
929147 TACACATAAGGTCGTGCCCACCATATACATTATAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACTATAGTGCAT
* * * *
929187 TACACATAAGGTTGTGCCTACCATATACACCATAGTGGAT
1 TACACATAAGGTCGTGCCCACCATATACACTATAGTGCAT
* * *
929227 TACACATAAGGTCGCGCTCACCATAATACACT-TAGTGTCCT
1 TACACATAAGGTCGTGCCCACCAT-ATACACTATAGTG-CAT
929268 TACACA
1 TACACA
929274 CTATAGTGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 60 0.82
41 13 0.18
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACTATAGTGCAT
Found at i:933558 original size:22 final size:22
Alignment explanation
Indices: 933527--933577 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
933517 GAGAACTTGG
* *
933527 CTACACTCCACTTGTAGCTTTA
1 CTACATTCCACTTGTAGCTCTA
933549 CTACATTCCACTTGTAGCTCTA
1 CTACATTCCACTTGTAGCTCTA
*
933571 CCACATT
1 CTACATT
933578 ATGAGACTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.33, G:0.08, T:0.35
Consensus pattern (22 bp):
CTACATTCCACTTGTAGCTCTA
Found at i:933878 original size:17 final size:17
Alignment explanation
Indices: 933856--933890 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
933846 AATTGTGTAT
933856 AGTAAAATCAAATGAAA
1 AGTAAAATCAAATGAAA
933873 AGTAAAATCAAATGAAA
1 AGTAAAATCAAATGAAA
933890 A
1 A
933891 TGCAAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AGTAAAATCAAATGAAA
Found at i:940360 original size:81 final size:81
Alignment explanation
Indices: 940221--940632 Score: 621
Period size: 81 Copynumber: 5.1 Consensus size: 81
940211 TGTTTTAAAA
* * * * *
940221 TAAAAGATTTATTGCCTAGATGTGCATTTGATAGAAA-GATGTCAATCGTGCCACTTAGATGAAA
1 TAAAAGATTTATTACCTAGCTGTGCATTTGACAGAAATG-TGTCAATCATGCCAGTTAGATGAAA
*
940285 GGTTAAATTCCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * *
940302 TAAAAGATTTATTACCTAGCTGTGTATTTGACATAACTGTGTCAATCATACTAGTTAGATGAAAG
1 TAAAAGATTTATTACCTAGCTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
*
940367 GTTAAATACCTTTAAG
66 GTTAAATACCTTTGAG
* *
940383 TAAAAGATTCATTACCTAGCTGTGCATTTGACAGAAATGTGTTAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTTATTACCTAGCTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
940448 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
940464 TAAAAGATTTATTGCCTAGCTGTGCATGTGACAGAAATGTGTCAATAATGCCAGTTAGATTAAAG
1 TAAAAGATTTATTACCTAGCTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
940529 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
940545 TAAAAGATTTATTACCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAATA
1 TAAAAGATTTATTACCTAGCTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAA-A
940610 -GTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
940626 TAAAAGA
1 TAAAAGA
940633 CTAAATGTTT
Statistics
Matches: 298, Mismatches: 31, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
81 296 0.99
82 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (81 bp):
TAAAAGATTTATTACCTAGCTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:947345 original size:81 final size:81
Alignment explanation
Indices: 947208--947538 Score: 473
Period size: 81 Copynumber: 4.1 Consensus size: 81
947198 TTGTTTTTAA
* * * * *
947208 AAAATGATTTATTGCCTAGCTTTGCATTTGATAGAAATGTGTCAATCGTGCCAGTTAGATGGAAG
1 AAAA-GATTTATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
947273 GTAAAATTCCTTTGAGT
65 GTTAAATACCTTTGAGT
* * *
947290 AAATGATTTATTGCCTAGCTGTGCATTTGACAGAAAGGTGTTAATCATGCGAGTTAGATGAAAGG
1 AAAAGATTTATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
*
947355 TTAAATAACTTTGAGT
66 TTAAATACCTTTGAGT
* *
947371 AAAAGATTTGTTGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
1 AAAAGATTTATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
947436 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * * * *
947452 AAAAGATTTATTGCCTAGATGTGCATTTGACAAAAAGGTGTCATTTATGCTAGTTAGATGAAAGT
1 AAAAGATTTATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
*
947517 TTAAATATCTTTGAGT
66 TTAAATACCTTTGAGT
947533 AAAAGA
1 AAAAGA
947539 CTAAATTCTT
Statistics
Matches: 223, Mismatches: 26, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
81 220 0.99
82 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (81 bp):
AAAAGATTTATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
TTAAATACCTTTGAGT
Found at i:949084 original size:59 final size:59
Alignment explanation
Indices: 949014--949174 Score: 250
Period size: 59 Copynumber: 2.7 Consensus size: 59
949004 ATGACACTAA
* * * *
949014 GTGTACTAAAATGTTGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
*
949073 GTGTGCTAAAATGATGAGAAATTTATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * *
949132 ATGTGCTAAAATGATAAGAAATTCATATTAAGTGTATGAATTT
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTT
949175 TTGTAGGGGA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 93 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (59 bp):
GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
Found at i:949501 original size:68 final size:68
Alignment explanation
Indices: 949392--949804 Score: 578
Period size: 68 Copynumber: 6.1 Consensus size: 68
949382 AGTTAAAAGA
949392 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
949457 GCC
66 GCC
* *
949460 TTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAATGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
949525 ACC
66 GCC
* * * * *
949528 ATTGAGGCCTAACTGTGCATATGACAGAAAGTTTTCATTTCTGCCAGTTAGATAAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
949593 GCC
66 GCC
* * * *
949596 TTTGAGGCCTAACTGTGCATATAACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
949661 -CC
66 GCC
* * **
949663 TTTGAGGCCTAACTGTGCATATTACAGAAATGTGAAATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
949728 GCC
66 GCC
* * ** * * *
949731 TTTGAGACCTAACTATGCA-ATTGGGAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAG
1 TTTGAGGCCTAACTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAG
*
949795 TACC
65 TGCC
*
949799 GTTGAG
1 TTTGAG
949805 TAAAAAAATA
Statistics
Matches: 303, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
67 61 0.20
68 242 0.80
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:949873 original size:81 final size:81
Alignment explanation
Indices: 949736--950054 Score: 383
Period size: 81 Copynumber: 3.9 Consensus size: 81
949726 GTGCCTTTGA
* * *
949736 GACCTAACTATGCAATTGGGAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGT
1 GACCTAACTATGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
*
949801 TGAGTAAAAAAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
949817 GACCTAATTGTGCAATTTGCAGAAAAGTGTCAATTATGCCAGCTAGATGAACGGTTAAGTACCAT
1 GACCTAACTATGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
949882 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * * *
949898 GGCCTACCTGTTCAATTGGCAGAAAGGTGTCAATTATGCTAGTTATATGAACGGTTAAGTACCGT
1 GACCTAACTATGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
* *
949963 TAATTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
949979 GGCCTAACTATGCAATTGGTAG-AAAG-GTACTAATTATTCCAGTTAGATGAACAGAT-AGATAC
1 GACCTAACTATGCAATTGGCAGAAAAGTGT-C-AATTATGCCAGTTAGATGAACGGTTAAG-TAC
950041 CGTTGAGTAAAAGA
63 CGTTGAGTAAAAGA
950055 TGAAAAGTTA
Statistics
Matches: 202, Mismatches: 33, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
79 2 0.01
80 6 0.03
81 194 0.96
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (81 bp):
GACCTAACTATGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
TGAGTAAAAGAATAAT
Found at i:953295 original size:3 final size:3
Alignment explanation
Indices: 953287--953330 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
953277 GCATGTAAAT
* * *
953287 TAA TAA TAA TAA TTAA TAA TAA TAA TAT TAA AAA TAA TTA TAA T
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
953331 GAAATATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:953302 original size:13 final size:13
Alignment explanation
Indices: 953284--953330 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
953274 CCTGCATGTA
953284 AATTAATAATAAT
1 AATTAATAATAAT
953297 AATTAATAATAAT
1 AATTAATAATAAT
* *
953310 AA-TATTAAAAAT
1 AATTAATAATAAT
953322 AATT-ATAAT
1 AATTAATAAT
953331 GAAATATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAATAATAAT
Found at i:957362 original size:19 final size:19
Alignment explanation
Indices: 957322--957363 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
957312 ATCCAATTTT
* *
957322 GGTATCGATATCGATATGG
1 GGTATCGATATCCATATAG
957341 GGTATCGATA-CCATAGTAG
1 GGTATCGATATCCATA-TAG
957360 GGTA
1 GGTA
957364 GTATTGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (19 bp):
GGTATCGATATCCATATAG
Found at i:957404 original size:95 final size:95
Alignment explanation
Indices: 957248--957468 Score: 236
Period size: 95 Copynumber: 2.3 Consensus size: 95
957238 GATTCAATCA
* * *
957248 GTATCGATACCATTG-AGGTAGTATCGATACCATGATAAAGGGTATCGATACCCAGCAACATCGA
1 GTATCGATACCATAGTAGGTAGTATCGATACAATGATAAAGGGTATCGACACCCAGCAACATC-A
* * * *
957312 ATCC-AATTTTGGTATCGATA-TCGATATGGG
65 AACCTAATTTTAGTATCGATACCCGA-AGGGG
* * *
957342 GTATCGATACCATAGTAGGGTAGTATTGATACAATGGT-AAGGGTATCGACA-CTAGACAACATC
1 GTATCGATACCATAGTA-GGTAGTATCGATACAATGATAAAGGGTATCGACACCCAG-CAACATC
* *
957405 AAACCTATTTTTATTATCGATACCCGAAGGGG
64 AAACCTAATTTTAGTATCGATACCCGAAGGGG
* *
957437 GTATCGATACCATAGTATAGAAGTATCGATAC
1 GTATCGATACCATAGTA-GGTAGTATCGATAC
957469 CATAGTATAG
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
94 21 0.20
95 65 0.61
96 20 0.19
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (95 bp):
GTATCGATACCATAGTAGGTAGTATCGATACAATGATAAAGGGTATCGACACCCAGCAACATCAA
ACCTAATTTTAGTATCGATACCCGAAGGGG
Found at i:957465 original size:22 final size:22
Alignment explanation
Indices: 957437--957485 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
957427 CCCGAAGGGG
957437 GTATCGATACCATAGTATAGAA
1 GTATCGATACCATAGTATAGAA
957459 GTATCGATACCATAGTATAGAA
1 GTATCGATACCATAGTATAGAA
957481 GTATC
1 GTATC
957486 AGTACTAGGG
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:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGAA
Found at i:957917 original size:59 final size:59
Alignment explanation
Indices: 957840--958000 Score: 218
Period size: 59 Copynumber: 2.7 Consensus size: 59
957830 ATGACACTAG
* **
957840 GTGTGCTAAAATGTTGAGAAATTCATACTAAGTGTATGAATTTCCT-TATAGGGTTC-TT
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTT-CTGTATAGGGCACTTT
* *
957898 GATGTGCTAAAATGATGAGAAATTTATACTAAGTGTATGCATTTCTGTATAGGGCACTTT
1 G-TGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTT
* * *
957958 GTGTGCTAAAATGATAAGAAATTCATATTAAGTGTAAGAATTT
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTT
958001 TTGCAGGGGA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
58 3 0.03
59 84 0.93
60 3 0.03
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (59 bp):
GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTT
Found at i:958631 original size:68 final size:68
Alignment explanation
Indices: 958218--958592 Score: 617
Period size: 68 Copynumber: 5.5 Consensus size: 68
958208 AGTTAAAAGA
* * *
958218 TTTGAGGCTTAATTGTGCATATGACATAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
958283 GCC
66 GCC
*
958286 TTTGAGGCCTAACTGTGCATATAACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
958351 GCC
66 GCC
958354 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
958419 GCC
66 GCC
* * * * *
958422 TTTGAGTCCTAACTATGCATATGACAGAAATGTGTTATTTATGCCGGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
958487 GCC
66 GCC
* *
958490 TTTGAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
958555 ACC
66 GCC
*
958558 TTTGAGGCCTAACTGTGCA-ATTGGCAGAAAGGTGT
1 TTTGAGGCCTAACTGTGCATA-TGACAGAAAGGTGT
958593 TAATTATACC
Statistics
Matches: 286, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
67 1 0.00
68 285 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:958701 original size:81 final size:81
Alignment explanation
Indices: 958563--958739 Score: 255
Period size: 81 Copynumber: 2.2 Consensus size: 81
958553 GTACCTTTGA
* * * *
958563 GGCCTAACTGTGCAATTGGCAGAAAGGTGTTAATTATACCAACTAGATGAATAGTTAAGTACCGT
1 GGCCTAACTGTGCAACTGGAAGAAAGGTGTCAATTATACCAACTAGATGAACAGTTAAGTACCGT
*
958628 TGAGCAAAAGAATAAT
66 TAAGCAAAAGAATAAT
* ** * *
958644 GGCCTAACTGTGCAACTGGAAGAAAGGTGTCAATTATGCCAGTTGGATGAACGGTTAAGTACCGT
1 GGCCTAACTGTGCAACTGGAAGAAAGGTGTCAATTATACCAACTAGATGAACAGTTAAGTACCGT
*
958709 TAAGTAAAAGAATAAT
66 TAAGCAAAAGAATAAT
958725 GGCCTAACTGTGCAA
1 GGCCTAACTGTGCAA
958740 TTGGTATTGT
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 85 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (81 bp):
GGCCTAACTGTGCAACTGGAAGAAAGGTGTCAATTATACCAACTAGATGAACAGTTAAGTACCGT
TAAGCAAAAGAATAAT
Found at i:959567 original size:48 final size:47
Alignment explanation
Indices: 959458--959581 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 47
959448 TTTATTACAT
*
959458 TTTATCCCATAAGCTCATAAGCTTA-TTTTTACCAAAATACTTACCA
1 TTTATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCA
* * * *
959504 TTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTCTTCAATATACTTGCCA
1 TTT--ATTCCATAAGCTCATAAGCTTATTTTTTAC--CAAAATACTTACCA
*
959555 TTT-TTCCGTAAGCTCATAAGCTTATTT
1 TTTATTCCATAAGCTCATAAGCTTATTT
959582 GCATGGTTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 3 0.05
48 42 0.64
49 6 0.09
51 15 0.23
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (47 bp):
TTTATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCA
Found at i:963571 original size:27 final size:29
Alignment explanation
Indices: 963541--963603 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 29
963531 TTTTTTTATC
*
963541 TCTCATTTTTTATCTTTTTCTT-TTC-TT
1 TCTCATTTTTCATCTTTTTCTTCTTCGTT
* *
963568 TCTC-GTTTTCATTTTTTTCTTCTTCGTT
1 TCTCATTTTTCATCTTTTTCTTCTTCGTT
963596 T-TCATTTT
1 TCTCATTTT
963604 CTTTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 14 0.48
27 9 0.31
28 6 0.21
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (29 bp):
TCTCATTTTTCATCTTTTTCTTCTTCGTT
Found at i:963583 original size:33 final size:33
Alignment explanation
Indices: 963543--963626 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 33
963533 TTTTTATCTC
*
963543 TCATTTTTTATCTTTTTC-TTTTC-TTTCTCGTTT
1 TCATTTTTT-TCTTCTTCGTTTTCATTT-TCGTTT
*
963576 TCATTTTTTTCTTCTTCGTTTTCATTTTCTTTT
1 TCATTTTTTTCTTCTTCGTTTTCATTTTCGTTT
963609 TC-TATTTTTTCTTTCTTC
1 TCAT-TTTTTTC-TTCTTC
963627 TTCTATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 8 0.18
33 28 0.62
34 9 0.20
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (33 bp):
TCATTTTTTTCTTCTTCGTTTTCATTTTCGTTT
Found at i:963586 original size:17 final size:15
Alignment explanation
Indices: 963543--963622 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 15
963533 TTTTTATCTC
963543 TCATTTTTTATCTTTT
1 TCATTTTTT-TCTTTT
963559 TC-TTTTCTTTCTCGTTT
1 TCATTTT-TTTCT--TTT
*
963576 TCATTTTTTTCTTCT
1 TCATTTTTTTCTTTT
*
963591 TCGTTTTCATTTTCTTTT
1 TC-ATTT--TTTTCTTTT
963609 TC-TATTTTTTCTTT
1 TCAT-TTTTTTCTTT
963623 CTTCTTCTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
15 19 0.36
16 8 0.15
17 12 0.23
18 14 0.26
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (15 bp):
TCATTTTTTTCTTTT
Found at i:963590 original size:20 final size:22
Alignment explanation
Indices: 963561--963611 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
963551 TATCTTTTTC
963561 TTTTCTTTC-TCGTTTTCATTT
1 TTTTCTTTCTTCGTTTTCATTT
963582 TTTTC-TTCTTCGTTTTCATTT
1 TTTTCTTTCTTCGTTTTCATTT
*
963603 TCTT-TTTCT
1 TTTTCTTTCT
963612 ATTTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTCTTTCTTCGTTTTCATTT
Found at i:963604 original size:27 final size:25
Alignment explanation
Indices: 963541--963624 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 25
963531 TTTTTTTATC
*
963541 TCTCATTTTTTATCTTTTTCTTTTCTT
1 TCTCATTTTCT-T-TTTTTCTTTTCTT
*
963568 TCTCGTTTTCATTTTTTTCTTCTTCGTT
1 TCTCATTTTC-TTTTTTTCTT-TTC-TT
*
963596 T-TCATTTTCTTTTTCTATTTTTTCTT
1 TCTCATTTTCTTTTT-T-TCTTTTCTT
963622 TCT
1 TCT
963625 TCTTCTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
26 16 0.34
27 24 0.51
28 7 0.15
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (25 bp):
TCTCATTTTCTTTTTTTCTTTTCTT
Found at i:963616 original size:19 final size:19
Alignment explanation
Indices: 963556--963644 Score: 53
Period size: 19 Copynumber: 4.7 Consensus size: 19
963546 TTTTTTATCT
* *
963556 TTTTC-TTTTCTTTCTC-G
1 TTTTCATTTTCTTTTTCTA
*
963573 TTTTCATTTT-TTTCTTCTTCG
1 TTTTCATTTTCTTT-TTC-T-A
963594 TTTTCATTTTCTTTTTCTA
1 TTTTCATTTTCTTTTTCTA
* *
963613 TTTT-TTCTTTCTTCTTCTA
1 TTTTCAT-TTTCTTTTTCTA
963632 TTTT-ATTCTTCTT
1 TTTTCATT-TTCTT
963645 CTTATAATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
17 8 0.14
18 8 0.14
19 25 0.42
20 1 0.02
21 14 0.24
22 3 0.05
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTCATTTTCTTTTTCTA
Found at i:963618 original size:21 final size:21
Alignment explanation
Indices: 963573--963635 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
963563 TTCTTTCTCG
*
963573 TTTTCATTTT-TTTCTTCT-TCG
1 TTTTCATTTTCTTT-TTCTAT-T
963594 TTTTCATTTTCTTTTTCTATT
1 TTTTCATTTTCTTTTTCTATT
*
963615 TTTTC--TTTCTTCTTCTATT
1 TTTTCATTTTCTTTTTCTATT
963634 TT
1 TT
963636 ATTCTTCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 15 0.39
21 19 0.50
22 4 0.11
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTCATTTTCTTTTTCTATT
Found at i:963645 original size:19 final size:19
Alignment explanation
Indices: 963584--963647 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
963574 TTTCATTTTT
*
963584 TTCTTCTTCGT-TTTCATT-
1 TTCTTCTTC-TATTTTATTC
*
963602 TTCTTTTTCTATTTT-TTC
1 TTCTTCTTCTATTTTATTC
963620 TTTCTTCTTCTATTTTATTC
1 -TTCTTCTTCTATTTTATTC
963640 TTCTTCTT
1 TTCTTCTT
963648 ATAATATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 3 0.08
18 11 0.28
19 22 0.56
20 3 0.08
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.72
Consensus pattern (19 bp):
TTCTTCTTCTATTTTATTC
Found at i:964748 original size:6 final size:6
Alignment explanation
Indices: 964737--964761 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
964727 ACACTTGTAT
964737 CATGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC C
964762 TATGGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:966035 original size:46 final size:47
Alignment explanation
Indices: 965915--966036 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 47
965905 TTTCTTACAT
*
965915 TTTATCCCATAAGCTCATAAGCTTA-TTTTTACCAAAATACTTACCA
1 TTTATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCA
* ** * *
965961 TTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCAATATACTTGCCA
1 TTT--ATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCA
*
966010 TTT-TTCCGTAAGCTCATAAGCTTATTT
1 TTTATTCCATAAGCTCATAAGCTTATTT
966037 GCATGGTTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 25 0.38
48 20 0.31
49 20 0.31
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (47 bp):
TTTATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCA
Found at i:972277 original size:20 final size:20
Alignment explanation
Indices: 972248--972299 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
972238 GTTAGGGTAT
*
972248 CGATATTGATAGAACAATAC
1 CGATACTGATAGAACAATAC
972268 CGATACTGATAGAACAATAC
1 CGATACTGATAGAACAATAC
972288 CGATACT-ATAGA
1 CGATACTGATAGA
972300 CCTAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.23
Consensus pattern (20 bp):
CGATACTGATAGAACAATAC
Found at i:972472 original size:22 final size:20
Alignment explanation
Indices: 972420--972491 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 20
972410 ATGCAAAAAT
* *
972420 GGTATCGATACCGTAATA-G
1 GGTATCGATACCATAGTACG
* * *
972439 AGTATTGGTACCATAGTACAG
1 GGTATCGATACCATAGTAC-G
* *
972460 TTGTATCGATACCATGGTACG
1 -GGTATCGATACCATAGTACG
972481 GGTATCGATAC
1 GGTATCGATAC
972492 TATTGTGCCT
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
19 13 0.32
20 10 0.25
21 2 0.05
22 15 0.38
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAGTACG
Found at i:972885 original size:56 final size:56
Alignment explanation
Indices: 972798--973049 Score: 407
Period size: 56 Copynumber: 4.5 Consensus size: 56
972788 ATTACCAAAT
* * *
972798 GGCACTATGTGTGC-AAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
* ** *
972853 GGCACTTTGTGTGCAAAAACTAATAAATTCATAACGAGTTTATGAATTTTAGTATA
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
*
972909 GACACTTTGTGTGCAAAAACTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
*
972965 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
*
973021 GGCACTTTATGTGCAAAAACTAAGAAATT
1 GGCACTTTGTGTGCAAAAACTAAGAAATT
973050 ATATGAAATT
Statistics
Matches: 183, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
55 13 0.07
56 170 0.93
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (56 bp):
GGCACTTTGTGTGCAAAAACTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
Found at i:976229 original size:56 final size:56
Alignment explanation
Indices: 976154--976349 Score: 277
Period size: 56 Copynumber: 3.5 Consensus size: 56
976144 ATTACCAAAT
* * *
976154 GGCACTATGTGTGC-AAAACTAAGAAATTCTTAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTATGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * * *
976209 GGTACTTTGTGTGCAAAAACTAATAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTATGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * *
976265 GGCATTTTATGTGCAAAAACTAAGAAATTCATAATAAGTTTATAAATTTCCGTATG
1 GGCACTTTATGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
976321 GCCACTTTATCTGCAAAAACTAAGAAATT
1 GGCACTTTATGTGCAAAAACTAAGAAATT
976350 ATATGAATTT
Statistics
Matches: 125, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
55 12 0.10
56 113 0.90
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (56 bp):
GGCACTTTATGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
Found at i:977010 original size:25 final size:25
Alignment explanation
Indices: 976964--977012 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
976954 AAAAGGTGTC
*
976964 AGTGGTCCCCTCCTAAGTGGCTGGG
1 AGTGGTCCCCTCCTAAGAGGCTGGG
* **
976989 AGTGGTTCCCTCCTCGGAGGCTGG
1 AGTGGTCCCCTCCTAAGAGGCTGG
977013 TAACTGGGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.10, C:0.29, G:0.37, T:0.24
Consensus pattern (25 bp):
AGTGGTCCCCTCCTAAGAGGCTGGG
Found at i:986428 original size:28 final size:28
Alignment explanation
Indices: 986388--986444 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
986378 CATAAGTATA
* *
986388 TCATATATGTTTAGTTTCGCACTAAATC
1 TCATATATATTTAGTTTCACACTAAATC
*
986416 TCATATTTATTTAGTTTCACACTAAATC
1 TCATATATATTTAGTTTCACACTAAATC
986444 T
1 T
986445 TATACTCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.46
Consensus pattern (28 bp):
TCATATATATTTAGTTTCACACTAAATC
Found at i:986677 original size:45 final size:45
Alignment explanation
Indices: 986618--987234 Score: 765
Period size: 45 Copynumber: 13.7 Consensus size: 45
986608 TTTCAAGTTT
* * * * *
986618 ATAATACACTGTTATGCATTTCCTTTATGGCATCATTTCATACCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * *
986663 ATAATACACCGTTATGTATTTCATTTATGGCATCATTTCATGTCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * *
986708 TTAATGCACCGTTATGCATTTCAATTATGACATCCTTTCATGTCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * *
986753 TTAATGCACCGTTATGCATTTCATTTTTGGCATCCTTTCATGTCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * *
986798 ATAATGCACCATTATGTATTCCATTTAGGGCATCCTTTCATGCCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * *
986843 TTAATGTACCATTATGCATTTCATTTATGGCATCCTTTCATGCCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * *
986888 TTAATTCACCGTTATGTATTTCATTTATGGCATCCTTTCATACCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * *
986933 ATAATGCACTGTTATGCATTTC-TTTATGGCATCCTTTTATGCCA
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * * *
986977 ATAATGTACCATTGTGCATTTCATTTATGACATCATTTCATGGCCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCAT-GCCG
*
987023 ATAATGCACTGTTATGCATTTCATTTATGGCATCCTTTCATGCC-
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* *
987067 ATTAATGCACCGTTATGCATTTTATTTATGGCATCCTTTCATACC-
1 A-TAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * *
987112 ATTAATGTATCGTTATTCATTTCATTTATGGCATCCTTTCATGCTG
1 A-TAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
* * *
987158 TTAATGCACCGTTATGCATTTTATTTATGGCATCCTTTCATGTCG
1 ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
*
987203 TTAATGCACCGTTATGCATTTCATTTA-GGCAT
1 ATAATGCACCGTTATGCATTTCATTTATGGCAT
987235 TAATTTTATA
Statistics
Matches: 499, Mismatches: 69, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
44 43 0.09
45 418 0.84
46 38 0.08
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (45 bp):
ATAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCG
Found at i:993026 original size:25 final size:25
Alignment explanation
Indices: 992969--993041 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
992959 TCTTAGACGG
*
992969 TGGCCGTGGAGATCTTTGGGTTTTC
1 TGGCGGTGGAGATCTTTGGGTTTTC
992994 TGGCGGTGGAGATCTTTGGGTTTTC
1 TGGCGGTGGAGATCTTTGGGTTTTC
* *
993019 TGGTGGTGGAG-GCTTT-GGTTTTC
1 TGGCGGTGGAGATCTTTGGGTTTTC
993042 GGGGTTGCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 7 0.16
24 4 0.09
25 34 0.76
ACGTcount: A:0.07, C:0.12, G:0.40, T:0.41
Consensus pattern (25 bp):
TGGCGGTGGAGATCTTTGGGTTTTC
Found at i:1001936 original size:8 final size:8
Alignment explanation
Indices: 1001923--1001950 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1001913 AGATTCTCCC
1001923 ATATGTAT
1 ATATGTAT
1001931 ATATGTAT
1 ATATGTAT
1001939 ATATGTAT
1 ATATGTAT
1001947 ATAT
1 ATAT
1001951 ATCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:1005463 original size:11 final size:10
Alignment explanation
Indices: 1005435--1005522 Score: 64
Period size: 10 Copynumber: 8.8 Consensus size: 10
1005425 TTTGCTTGAA
1005435 GAAAAAAGAA-
1 GAAAAAA-AAT
1005445 GAAGAAAAAAT
1 GAA-AAAAAAT
1005456 GAGAAAAAAAT
1 GA-AAAAAAAT
1005467 G--AAAAAAT
1 GAAAAAAAAT
1005475 --AAAAAAAT
1 GAAAAAAAAT
1005483 -AATAAAAAAT
1 GAA-AAAAAAT
1005493 -AATAAAAAAT
1 GAA-AAAAAAT
1005503 GAATGAAAAAAT
1 GAA--AAAAAAT
1005515 GAAAAAAA
1 GAAAAAAA
1005523 TGAGGGTTCA
Statistics
Matches: 69, Mismatches: 1, Indels: 16
0.80 0.01 0.19
Matches are distributed among these distances:
8 14 0.20
9 1 0.01
10 27 0.39
11 16 0.23
12 11 0.16
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
GAAAAAAAAT
Found at i:1005498 original size:21 final size:23
Alignment explanation
Indices: 1005468--1005522 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
1005458 GAAAAAAATG
1005468 AAAA-AATAAAAAAAT-AAT-AA
1 AAAATAATAAAAAAATGAATGAA
1005488 AAAATAAT-AAAAAATGAATGAA
1 AAAATAATAAAAAAATGAATGAA
*
1005510 AAAATGA-AAAAAA
1 AAAATAATAAAAAA
1005523 TGAGGGTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 11 0.37
21 6 0.20
22 13 0.43
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (23 bp):
AAAATAATAAAAAAATGAATGAA
Found at i:1005511 original size:12 final size:10
Alignment explanation
Indices: 1005459--1005523 Score: 66
Period size: 10 Copynumber: 6.6 Consensus size: 10
1005449 AAAAAATGAG
1005459 AAAAA-AATGA
1 AAAAATAAT-A
1005469 AAAAAT-A-A
1 AAAAATAATA
1005477 AAAAATAATA
1 AAAAATAATA
1005487 AAAAATAATA
1 AAAAATAATA
1005497 AAAAATGAATGA
1 AAAAAT-AAT-A
*
1005509 AAAAATGA-A
1 AAAAATAATA
1005518 AAAAAT
1 AAAAAT
1005524 GAGGGTTCAA
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
8 7 0.14
9 8 0.16
10 23 0.47
11 4 0.08
12 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.15
Consensus pattern (10 bp):
AAAAATAATA
Found at i:1006589 original size:55 final size:55
Alignment explanation
Indices: 1006520--1007060 Score: 718
Period size: 55 Copynumber: 9.9 Consensus size: 55
1006510 AGGTTTCCCA
* * *
1006520 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAAGGAGAAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
1006575 ACGATTGTTGAAGATTGTTCAAGTCTCGTACTCTCTAAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
1006630 ACGTTTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
1006685 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
1006740 ACGTTTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGAC
1006796 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
1006851 ACG-TTCGTTGAAGATTGTTTGAGTTTCATTCTCTCTGAAGAAAATAGGGAGCAGGC
1 ACGATT-GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGAC
* * * *
1006907 ATGATTATTG-AGAATTGTTCGAGTCTCATACTCTCT-AAAAAATAGGGAGTAGAC
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * ** * *
1006961 ACGATTATCG-AGAATCGTTTGAGTCTTGTACTCTCTGAAAAAATGGGGAGCAGAC
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
** * * *
1007016 ACGATTGACGAAGATT-TTCGAGT-T-TTACTCCCTGAAGCAATAGGG
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGG
1007061 GATAAAACCA
Statistics
Matches: 435, Mismatches: 44, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
52 16 0.04
53 1 0.00
54 51 0.12
55 271 0.62
56 94 0.22
57 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:1007947 original size:20 final size:21
Alignment explanation
Indices: 1007906--1007947 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1007896 GAGAAAACAG
1007906 AAAGGGAAAACACACACAAAA
1 AAAGGGAAAACACACACAAAA
1007927 AAAGGAGAAAACA-AC-CAAAA
1 AAAGG-GAAAACACACACAAAA
1007947 A
1 A
1007948 TACTCGAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 7 0.35
22 7 0.35
ACGTcount: A:0.69, C:0.17, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAGGGAAAACACACACAAAA
Found at i:1008423 original size:25 final size:25
Alignment explanation
Indices: 1008395--1008448 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
1008385 TCTTAGACGG
1008395 TGGCCATGGAGATCTTTGGGTTTTA
1 TGGCCATGGAGATCTTTGGGTTTTA
** *
1008420 TGGCGGTGGAGATCTTTGGGTTTTC
1 TGGCCATGGAGATCTTTGGGTTTTA
1008445 TGGC
1 TGGC
1008449 GGTGGAGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.37, T:0.39
Consensus pattern (25 bp):
TGGCCATGGAGATCTTTGGGTTTTA
Found at i:1008449 original size:25 final size:25
Alignment explanation
Indices: 1008401--1008467 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
1008391 ACGGTGGCCA
*
1008401 TGGAGATCTTTGGGTTTTATGGCGG
1 TGGAGATCTTTGGGTTTTCTGGCGG
1008426 TGGAGATCTTTGGGTTTTCTGGCGG
1 TGGAGATCTTTGGGTTTTCTGGCGG
*
1008451 TGGAG-GCTTT-GGTTTTC
1 TGGAGATCTTTGGGTTTTC
1008468 GGGGTTGCAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.17
24 4 0.10
25 29 0.73
ACGTcount: A:0.09, C:0.10, G:0.39, T:0.42
Consensus pattern (25 bp):
TGGAGATCTTTGGGTTTTCTGGCGG
Found at i:1011271 original size:45 final size:44
Alignment explanation
Indices: 1011217--1011439 Score: 223
Period size: 45 Copynumber: 5.0 Consensus size: 44
1011207 TCATTTACAA
* ** *
1011217 CATCCTTTCATGCTTATAATGCATTGTTATGCATTTTATTTATGG
1 CATCATTTCATGCTT-TAATGCACCGTTATGCATTTCATTTATGG
*
1011262 CATCATTTCATGCTGATAATGCACCGTTATGCATTTCATTTATGG
1 CATCATTTCATGCT-TTAATGCACCGTTATGCATTTCATTTATGG
* * * * *
1011307 TATCACTTCATTTCGTTAATGCAACGTTATGCATTTCATTTATGG
1 CATCATTTCA-TGCTTTAATGCACCGTTATGCATTTCATTTATGG
* * *
1011352 CATCCTTTCGTGCTGTTATTGCACCGTTATGCATTTCATTTATGG
1 CATCATTTCATGCT-TTAATGCACCGTTATGCATTTCATTTATGG
* * ** * *
1011397 CATC-TTTTATTTCGATAATGCACCGCTATGCATTTCAATTATG
1 CATCATTTCA-TGCTTTAATGCACCGTTATGCATTTCATTTATG
1011440 TCACTCTTTC
Statistics
Matches: 147, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
44 30 0.20
45 115 0.78
46 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (44 bp):
CATCATTTCATGCTTTAATGCACCGTTATGCATTTCATTTATGG
Found at i:1011449 original size:89 final size:89
Alignment explanation
Indices: 1011244--1011451 Score: 274
Period size: 90 Copynumber: 2.3 Consensus size: 89
1011234 AATGCATTGT
* *
1011244 TATGCATTTTATTTATGGCATCATTTCATGCTGATAATGCACCGTTATGCATTTCATTTATGGTA
1 TATGCATTTCATTTATGGCATC-TTTCATGCTGATAATGCACCGTTATGCATTTCATTTATGGCA
* *
1011309 TCACTTCATTTCGTTAATGCAACGT
65 TCACTTCATTTCGATAATGCAACGC
* * *
1011334 TATGCATTTCATTTATGGCATCCTTTCGTGCTGTTATTGCACCGTTATGCATTTCATTTATGGCA
1 TATGCATTTCATTTATGGCAT-CTTTCATGCTGATAATGCACCGTTATGCATTTCATTTATGGCA
* * *
1011399 TC-TTTTATTTCGATAATGCACCGC
65 TCACTTCATTTCGATAATGCAACGC
* *
1011423 TATGCATTTCAATTATGTCACTCTTTCAT
1 TATGCATTTCATTTATGGCA-TCTTTCAT
1011452 TTATGACATC
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
89 41 0.40
90 61 0.59
91 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (89 bp):
TATGCATTTCATTTATGGCATCTTTCATGCTGATAATGCACCGTTATGCATTTCATTTATGGCAT
CACTTCATTTCGATAATGCAACGC
Found at i:1011455 original size:61 final size:62
Alignment explanation
Indices: 1011385--1011501 Score: 182
Period size: 62 Copynumber: 1.9 Consensus size: 62
1011375 CCGTTATGCA
* * *
1011385 TTTCATTTATGGCAT-CTTTTATTTCGATAATGCACCGCTATGCATTTCAATTATGTCACTC
1 TTTCATTTATGACATCCTTTCATTTCGATAATGCACCGCTATGCATTCCAATTATGTCACTC
* *
1011446 TTTCATTTATGACATCCTTTCATTTCGATAATGCACCGTTATGCATTCCATTTATG
1 TTTCATTTATGACATCCTTTCATTTCGATAATGCACCGCTATGCATTCCAATTATG
1011502 GCATCCTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 14 0.28
62 36 0.72
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.44
Consensus pattern (62 bp):
TTTCATTTATGACATCCTTTCATTTCGATAATGCACCGCTATGCATTCCAATTATGTCACTC
Found at i:1011463 original size:106 final size:107
Alignment explanation
Indices: 1011340--1011545 Score: 274
Period size: 106 Copynumber: 1.9 Consensus size: 107
1011330 ACGTTATGCA
* * * * *
1011340 TTTCATTTATGGCATCCTTTCGTGCT-GTTATTGCACCGTTATGCATTTCATTTATGGCAT-CTT
1 TTTCATTTATGACATCCTTTCAT-CTCGATAATGCACCGTTATGCATTCCATTTATGGCATCCTT
* *
1011403 TTAT-TTCGATAATGCACCGCTATGCATTTCAATTATGTCACTC
65 TCATGTT-GATAATGCACCGCTATACATTTCAATTATGTCACTC
*
1011446 TTTCATTTATGACATCCTTTCATTTCGATAATGCACCGTTATGCATTCCATTTATGGCATCCTTT
1 TTTCATTTATGACATCCTTTCATCTCGATAATGCACCGTTATGCATTCCATTTATGGCATCCTTT
* * *
1011511 CATGTTGTTAATGCACCGTTATACATTTCATTTAT
66 CATGTTGATAATGCACCGCTATACATTTCAATTAT
1011546 TGCATCCTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
105 1 0.01
106 52 0.60
107 31 0.36
108 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (107 bp):
TTTCATTTATGACATCCTTTCATCTCGATAATGCACCGTTATGCATTCCATTTATGGCATCCTTT
CATGTTGATAATGCACCGCTATACATTTCAATTATGTCACTC
Found at i:1011478 original size:151 final size:151
Alignment explanation
Indices: 1011295--1011599 Score: 425
Period size: 151 Copynumber: 2.0 Consensus size: 151
1011285 CCGTTATGCA
** * *
1011295 TTTCATTTATGGTATCACTTCATTTCGTTAATGCAACGTTATGCATTTCATTTATGGCATCCTTT
1 TTTCATTTATGACATCACTTCATTTCGATAATGCAACGTTATGCATTCCATTTATGGCATCCTTT
* * * * ** * *
1011360 CGTGCTGTTATTGCACCGTTATGCATTTCATTTATGGCAT-CTTTTATTTCGATAATGCACCGCT
66 CATGCTGTTAATGCACCGTTATACATTTCATTTATGGCATCCTTTCATGCCGACAATACACCGCT
*
1011424 ATGCATTTCAATTATGTCACTC
131 ATGCATTTCAATTATGGCA-TC
*
1011446 TTTCATTTATGACATC-CTTTCATTTCGATAATGCACCGTTATGCATTCCATTTATGGCATCCTT
1 TTTCATTTATGACATCAC-TTCATTTCGATAATGCAACGTTATGCATTCCATTTATGGCATCCTT
* *
1011510 TCATGTTGTTAATGCACCGTTATACATTTCATTTATTGCATCCTTTCATGCCGACAATACACCGC
65 TCATGCTGTTAATGCACCGTTATACATTTCATTTATGGCATCCTTTCATGCCGACAATACACCGC
*
1011575 TATGCATTTCATTTATGGCATC
130 TATGCATTTCAATTATGGCATC
1011597 TTT
1 TTT
1011600 TCATGTCGTT
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
150 1 0.01
151 98 0.73
152 36 0.27
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (151 bp):
TTTCATTTATGACATCACTTCATTTCGATAATGCAACGTTATGCATTCCATTTATGGCATCCTTT
CATGCTGTTAATGCACCGTTATACATTTCATTTATGGCATCCTTTCATGCCGACAATACACCGCT
ATGCATTTCAATTATGGCATC
Found at i:1011507 original size:45 final size:45
Alignment explanation
Indices: 1011446--1012270 Score: 966
Period size: 45 Copynumber: 18.3 Consensus size: 45
1011436 TATGTCACTC
* ** *
1011446 TTTCATTTATGACATCCTTTCATTTCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* ** *
1011491 TTCCATTTATGGCATCCTTTCATGTTGTTAATGCACCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* ** * *
1011536 TTTCATTTATTGCATCCTTTCATGCCGACAATACACCGCTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* * *
1011581 TTTCATTTATGGCATCTTTTCATGTCGTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* * * * * *
1011626 TTTCATTTACGACATCCTTTGATACCGATAATGCATCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* * * * ** * * *
1011671 TTTTAATTATGACATCTTTTCATTTCGTGAATGCACTGTTGTGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
*
1011716 TTTCATTTATGTCATCCTTTCATGCCGTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* **
1011761 TTTCATTTATGACATCCTTTCATGCCGTTAATGCACTATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* *
1011806 TTTCATTTATGGCATCATTTCATGCCGTTAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
** * *
1011851 TTTCATTTATGGCATCCTTTCATATCGATAATGCACCGTTATGTA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
** * *
1011896 TTTCATTTATGGCATCCTTTCATGTTGTTAATGCACCATTATTCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
** * *
1011941 TTTCATTTATGGCAAACTTTCATGCCGATAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* *
1011986 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
1012031 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
** ** ** *
1012076 TTTCATTTCCGATATCCTTTCATATCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* * ** * * * *
1012121 TTTTAATTATGAAATCCTTTCATGTCGTTAATACACTGTTATCCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
* * * * * **
1012166 TTTTAATTATGGCATCATTTCATGCCGTTATTGCGCAATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
** *
1012211 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCTTCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
1012256 TTTCATTTATGGCAT
1 TTTCATTTATGGCAT
1012271 TCATTTTAGA
Statistics
Matches: 665, Mismatches: 115, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 665 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.42
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCGTTAATGCACCGTTATGCA
Found at i:1011588 original size:196 final size:197
Alignment explanation
Indices: 1011254--1011816 Score: 531
Period size: 180 Copynumber: 2.9 Consensus size: 197
1011244 TATGCATTTT
* * *
1011254 ATTTATGGCATCATTTCATGCTGATAATGCACCGTTATGCATTTCATTTATGGTATCACTTCATT
1 ATTTATGACATCATTTCATGCTGATAATGCACCGTTATGCATTCCATTTATGGCATCACTTCATT
* * * ** * * *
1011319 TCGTTAATGCAACGTTATGCATTTCATTTATGGCATCCTTTCGTGCTGTTATTGCACCGTTATGC
66 TCGTTAATGCAACGTTATACATTTCATTTATGGCATCCTTTCATGCCGACAATACACCGCTATGC
*
1011384 ATTTCATTTATGGCATCTTTT-ATTTCGATAATGCACCGCTATGCATTTCAATTATGTCACTCTT
131 ATTTCATTTATGGCATCTTTTCATGTCGATAATGCACCGCTATGCATTTCAATTATGTCACTCTT
1011448 TC
196 TC
* *
1011450 ATTTATGACATCCTTTCAT-TTCGATAATGCACCGTTATGCATTCCATTTATGGCATC-CTTTCA
1 ATTTATGACATCATTTCATGCT-GATAATGCACCGTTATGCATTCCATTTATGGCATCAC-TTCA
* *
1011513 TGTT-GTTAATGCACCGTTATACATTTCATTTATTGCATCCTTTCATGCCGACAATACACCGCTA
64 T-TTCGTTAATGCAACGTTATACATTTCATTTATGGCATCCTTTCATGCCGACAATACACCGCTA
*
1011577 TGCATTTCATTTATGGCATCTTTTCATGTCGTTAATGCA---C--TG--------TTATG-CA--
128 TGCATTTCATTTATGGCATCTTTTCATGTCGATAATGCACCGCTATGCATTTCAATTATGTCACT
1011626 -TTTC
193 CTTTC
* * * * * * ** * * **
1011630 ATTTACGACATCCTTTGATACCGATAATGCATCGTTATGCATTTTAATTATGACATCTTTTCATT
1 ATTTATGACATCATTTCATGCTGATAATGCACCGTTATGCATTCCATTTATGGCATCACTTCATT
* * * * ** * *
1011695 TCGTGAATGC-ACTGTTGTGCATTTCATTTATGTCATCCTTTCATGCCGTTAATGCACCGTTATG
66 TCGTTAATGCAAC-GTTATACATTTCATTTATGGCATCCTTTCATGCCGACAATACACCGCTATG
* * * * *** *
1011759 CATTTCATTTATGACATCCTTTCATGCCGTTAATGCACTATTATGCATTTCATTTATG
130 CATTTCATTTATGGCATCTTTTCATGTCGATAATGCACCGCTATGCATTTCAATTATG
1011817 GCATCATTTC
Statistics
Matches: 305, Mismatches: 41, Indels: 45
0.78 0.10 0.12
Matches are distributed among these distances:
179 3 0.01
180 140 0.46
183 2 0.01
184 5 0.02
185 2 0.01
192 2 0.01
193 5 0.02
194 1 0.00
195 2 0.01
196 129 0.42
197 14 0.05
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (197 bp):
ATTTATGACATCATTTCATGCTGATAATGCACCGTTATGCATTCCATTTATGGCATCACTTCATT
TCGTTAATGCAACGTTATACATTTCATTTATGGCATCCTTTCATGCCGACAATACACCGCTATGC
ATTTCATTTATGGCATCTTTTCATGTCGATAATGCACCGCTATGCATTTCAATTATGTCACTCTT
TC
Found at i:1011628 original size:241 final size:241
Alignment explanation
Indices: 1011204--1011695 Score: 607
Period size: 241 Copynumber: 2.0 Consensus size: 241
1011194 TTATCTTTTA
** **
1011204 TTTTCATTTACAACATCCTTTCATGCTTATAATGCATTGTTATGCATTTTATTTATGGCATCATT
1 TTTTCATTTACAACATCCTTTCAT-CTTATAATGCACCGTTATGCATTCCATTTATGGCATCATT
* * ** ** * *
1011269 TCATGCTGATAATGCACCGTTATGCATTTCATTTATGGTATCACTTCATTTCGTTAATGCAACGT
65 TCATGCTGATAATGCACCGTTATACATTTCATTTATGGCATCACTTCATGCCGACAATACAACGC
* * * *
1011334 TATGCATTTCATTTATGGCATCCTTTCGTGCTGTTATTGCACCGTTATGCATTTCATTTATGGCA
130 TATGCATTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCATTTCATTTACGACA
* ** *
1011399 T-CTTTTATTTCGATAATGCACCGCTATGCATTTCAATTATGTCA-C
195 TCCTTTGATACCGATAATGCACCGCTATGCATTTCAATTATGACATC
** *
1011444 TCTTTCATTTATGACATCCTTTCAT-TTCGATAATGCACCGTTATGCATTCCATTTATGGCATCC
1 T-TTTCATTTACAACATCCTTTCATCTT--ATAATGCACCGTTATGCATTCCATTTATGGCATCA
* * * *
1011508 TTTCATGTTGTTAATGCACCGTTATACATTTCATTTATTGCATC-CTTTCATGCCGACAATACAC
63 TTTCATGCTGATAATGCACCGTTATACATTTCATTTATGGCATCAC-TTCATGCCGACAATACAA
* *
1011572 CGCTATGCATTTCATTTATGGCATCTTTTCATG-TCGTTAATGCACTGTTATGCATTTCATTTAC
127 CGCTATGCATTTCATTTATGGCATCCTTTCATGCT-GTTAATGCACCGTTATGCATTTCATTTAC
* * *
1011636 GACATCCTTTGATACCGATAATGCATCGTTATGCATTTTAATTATGACATC
191 GACATCCTTTGATACCGATAATGCACCGCTATGCATTTCAATTATGACATC
1011687 TTTTCATTT
1 TTTTCATTT
1011696 CGTGAATGCA
Statistics
Matches: 213, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
239 2 0.01
240 3 0.01
241 162 0.76
242 44 0.21
243 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (241 bp):
TTTTCATTTACAACATCCTTTCATCTTATAATGCACCGTTATGCATTCCATTTATGGCATCATTT
CATGCTGATAATGCACCGTTATACATTTCATTTATGGCATCACTTCATGCCGACAATACAACGCT
ATGCATTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCATTTCATTTACGACAT
CCTTTGATACCGATAATGCACCGCTATGCATTTCAATTATGACATC
Found at i:1012801 original size:95 final size:95
Alignment explanation
Indices: 1012690--1012889 Score: 267
Period size: 95 Copynumber: 2.1 Consensus size: 95
1012680 CTCTACCATG
*
1012690 GTATCGATATTTCTATACTAT-ACTACCGATACTCCCTTTCAATATCGATACCATTTCCACATTC
1 GTATCGATACTTCTATACTATGA-TACCGATACTCCCTTTCAATATCGATACCATTTCCACATTC
* * * * *
1012754 TGTAATTCATTGTATCGATACCTTTCTCTTA
65 TGGAATCCATAGTATAGATACATTTCTCTTA
* * * * *
1012785 GTATCGATACTTCTATATTATGATACCTATATTCCCTTTCAATATCGATACCATTTCTATATTCT
1 GTATCGATACTTCTATACTATGATACCGATACTCCCTTTCAATATCGATACCATTTCCACATTCT
* *
1012850 GGAATCCCTAGTATAGATACATTTCTCTTG
66 GGAATCCATAGTATAGATACATTTCTCTTA
1012880 GTATCGATAC
1 GTATCGATAC
1012890 CCACAGCAGT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 90 0.99
96 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (95 bp):
GTATCGATACTTCTATACTATGATACCGATACTCCCTTTCAATATCGATACCATTTCCACATTCT
GGAATCCATAGTATAGATACATTTCTCTTA
Found at i:1014890 original size:79 final size:79
Alignment explanation
Indices: 1014759--1014916 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
1014749 TAATTAATGA
1014759 TATGAAAGAACTTATGGAAGTTTCATTTCTGTAATTCTGTGAAATGAATGAATTTCGAGAATGAA
1 TATGAAAGAACTTATGGAAGTTTCATTTCTGTAATTCTGTGAAATGAATGAATTTCGAGAATGAA
1014824 ATTCTTTTAAGGAG
66 ATTCTTTTAAGGAG
1014838 TATGAAAGAACTTATGGAAGTTTCATTTCTGTAATTCTGTGAAATGAATGAATTTCGAGAATGAA
1 TATGAAAGAACTTATGGAAGTTTCATTTCTGTAATTCTGTGAAATGAATGAATTTCGAGAATGAA
1014903 ATTCTTTTAAGGAG
66 ATTCTTTTAAGGAG
1014917 GGAGAATTGT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (79 bp):
TATGAAAGAACTTATGGAAGTTTCATTTCTGTAATTCTGTGAAATGAATGAATTTCGAGAATGAA
ATTCTTTTAAGGAG
Found at i:1015737 original size:13 final size:13
Alignment explanation
Indices: 1015690--1015734 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
1015680 CTGCCCAAGT
*
1015690 CTGACCCGCCGAC
1 CTGACCCGCCTAC
*
1015703 CCGACCCGCCTAC
1 CTGACCCGCCTAC
*
1015716 CTGACCTGCCTAC
1 CTGACCCGCCTAC
1015729 CTGACC
1 CTGACC
1015735 TGCTTGACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.53, G:0.18, T:0.13
Consensus pattern (13 bp):
CTGACCCGCCTAC
Found at i:1017589 original size:31 final size:31
Alignment explanation
Indices: 1017551--1017626 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 31
1017541 TAAGGTGACC
*
1017551 CTTGGGTAGGCTCTGCGGCC-CTGAGATTTTT
1 CTTGGGTAGGCTCTGCGGCCAC-GAGAATTTT
*
1017582 CTTGGGTAGGCCTCTGTGGCCACGAGAATTTT
1 CTTGGGTAGG-CTCTGCGGCCACGAGAATTTT
1017614 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
1017627 GCAGACCCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 13 0.32
32 27 0.66
33 1 0.02
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.33
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGCGGCCACGAGAATTTT
Found at i:1019306 original size:15 final size:16
Alignment explanation
Indices: 1019286--1019316 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1019276 GATTAAGACA
1019286 TTTGCATA-ATTACAT
1 TTTGCATACATTACAT
1019301 TTTGCATACATTACAT
1 TTTGCATACATTACAT
1019317 AAGATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTGCATACATTACAT
Found at i:1019639 original size:88 final size:88
Alignment explanation
Indices: 1019445--1019642 Score: 202
Period size: 88 Copynumber: 2.2 Consensus size: 88
1019435 ACTTGGCGTT
* *
1019445 CTTTAGAGGAAGGAGTAAGATCGTCCCCTAGTTTGGCATCCTTTAGAGAAAGGAGTAGATCACCC
1 CTTTAGAGGAAGGAGTAAGATCATCCCCTAGTTTGACATCCTTTAGAGAAAGGAGTAGATCACCC
*
1019510 ACCGATAATTACATATTAGCATC
66 ACCAATAATTACATATTAGCATC
* * * * * ** *
1019533 CTTCAAAGGAATGTGTAAGATTATCTTCT-GATTTGACATCCTTTAGAGAGAGGAGTAGATCACC
1 CTTTAGAGGAAGGAGTAAGATCATCCCCTAG-TTTGACATCCTTTAGAGAAAGGAGTAGATCACC
* * * * **
1019597 CACTAATGATTGCGA-CTTAGTGTC
65 CACCAATAATTAC-ATATTAGCATC
*
1019621 CTTTAGAGAAAGGAGTAAGATC
1 CTTTAGAGGAAGGAGTAAGATC
1019643 GTTCACCGAT
Statistics
Matches: 85, Mismatches: 23, Indels: 4
0.76 0.21 0.04
Matches are distributed among these distances:
87 1 0.01
88 83 0.98
89 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (88 bp):
CTTTAGAGGAAGGAGTAAGATCATCCCCTAGTTTGACATCCTTTAGAGAAAGGAGTAGATCACCC
ACCAATAATTACATATTAGCATC
Found at i:1026229 original size:18 final size:18
Alignment explanation
Indices: 1026206--1026252 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
1026196 CAACGGTCAA
* *
1026206 CGGGTCGGGTCAATGGAT
1 CGGGTCGGGTCAACGGAC
*
1026224 CGGGTCGGGTCAACGGGC
1 CGGGTCGGGTCAACGGAC
1026242 CGGGTCGGGTC
1 CGGGTCGGGTC
1026253 GGGTTGTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.11, C:0.23, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGAC
Found at i:1031336 original size:18 final size:18
Alignment explanation
Indices: 1031313--1031354 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1031303 AGTCAACGGT
1031313 TCGGGTCAACGGATCGGG
1 TCGGGTCAACGGATCGGG
*
1031331 TCGGGTCAACGGGTCGGG
1 TCGGGTCAACGGATCGGG
1031349 TCGGGT
1 TCGGGT
1031355 TGTGACCGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.19
Consensus pattern (18 bp):
TCGGGTCAACGGATCGGG
Found at i:1033660 original size:17 final size:17
Alignment explanation
Indices: 1033638--1033670 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1033628 ATGTTTCGCA
1033638 TAAAAAACACTAAGTAT
1 TAAAAAACACTAAGTAT
*
1033655 TAAAAAACCCTAAGTA
1 TAAAAAACACTAAGTA
1033671 CAAAACTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAAAAACACTAAGTAT
Found at i:1033755 original size:21 final size:21
Alignment explanation
Indices: 1033729--1033770 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1033719 TGAAAACTAC
* *
1033729 AAAATCCTAATTTACTAAAAA
1 AAAATCCAAACTTACTAAAAA
1033750 AAAATCCAAACTTACTAAAAA
1 AAAATCCAAACTTACTAAAAA
1033771 TCCAAACTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAATCCAAACTTACTAAAAA
Found at i:1033984 original size:14 final size:14
Alignment explanation
Indices: 1033965--1034011 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
1033955 CAAACATTAA
*
1033965 CTAACTAAAAAACT
1 CTAACTAAAAAACC
1033979 CTAACTAAAAAACC
1 CTAACTAAAAAACC
* *
1033993 CTAAGT-ATAAACC
1 CTAACTAAAAAACC
1034006 CTAACT
1 CTAACT
1034012 TCTTTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (14 bp):
CTAACTAAAAAACC
Done.