Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_284
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: 102831
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Found at i:64 original size:43 final size:43
Alignment explanation
Indices: 2--148 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 43
1 T
2 AAGTGATATATGTGATAGGCCTAATGGCCGATGTGAT-AATGTG
1 AAGTGATATATGTGATAGGCCTAATGG-CGATGTGATGAATGTG
45 AAAGTG-TATATGTGATAGGCCTAATGGCGATGT-ATGAATGTG
1 -AAGTGATATATGTGATAGGCCTAATGGCGATGTGATGAATGTG
*
87 AAGTGTATATATGTGATAAGCCTAATGGCGAT-TGATGAATGTG
1 AAGTG-ATATATGTGATAGGCCTAATGGCGATGTGATGAATGTG
*
130 -AGTGTATATAT-TGACAGGC
1 AAGTG-ATATATGTGATAGGC
149 GAGTGGCCAA
Statistics
Matches: 96, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
41 13 0.14
42 24 0.25
43 54 0.56
44 5 0.05
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.31
Consensus pattern (43 bp):
AAGTGATATATGTGATAGGCCTAATGGCGATGTGATGAATGTG
Found at i:177 original size:86 final size:84
Alignment explanation
Indices: 2--192 Score: 201
Period size: 86 Copynumber: 2.2 Consensus size: 84
1 T
* * *
2 AAGTGATATATGTGATAGGCCTAATGGCCGATGTGATAATGTGAAAGTGTATATGTGATAGGCCT
1 AAGTGATATATGTGATAAGCCTAATGGCCGATGTGATAATGTG-AAGTGTATATGTGACAGGCCG
* *
67 AATGGCGATGTATGAATGTG
65 AATGGCAACGTATGAATGTG
*
87 AAGTGTATATATGTGATAAGCCTAATGG-CGAT-TGATGAATGTG-AGTGTATATATTGACAGG-
1 AAGTG-ATATATGTGATAAGCCTAATGGCCGATGTGAT-AATGTGAAGTGTATAT-GTGACAGGC
* *
148 CGAGTGGCCAACGTGATGGATGTG
63 CGAATGG-CAACGT-ATGAATGTG
*
172 AAAGTGAATAAATGTGATAAG
1 -AAGTG-ATATATGTGATAAG
193 TCCTGAAGGG
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
83 14 0.16
84 14 0.16
85 23 0.26
86 39 0.43
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (84 bp):
AAGTGATATATGTGATAAGCCTAATGGCCGATGTGATAATGTGAAGTGTATATGTGACAGGCCGA
ATGGCAACGTATGAATGTG
Found at i:366 original size:37 final size:37
Alignment explanation
Indices: 309--388 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
299 ATCCGAGCTC
* * *
309 TAAGACCCGATGACTACGTGTGGGGATTTTGTCCGGG
1 TAAGACCCGATAACTACGTGTGGAGATTATGTCCGGG
*
346 TAAGACCCGATAACTTCGTGTGGAGATTATGTCCGGG
1 TAAGACCCGATAACTACGTGTGGAGATTATGTCCGGG
383 TAAGAC
1 TAAGAC
389 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TAAGACCCGATAACTACGTGTGGAGATTATGTCCGGG
Found at i:917 original size:49 final size:49
Alignment explanation
Indices: 845--1028 Score: 268
Period size: 49 Copynumber: 3.8 Consensus size: 49
835 CAGCAACTAG
845 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAA
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAA
*
894 TGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAA
* * * *
941 TGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAG
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAA
* * *
990 TGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1029 AGTCCCGAAG
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
47 52 0.43
48 1 0.01
49 69 0.57
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (49 bp):
TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAA
Found at i:1009 original size:96 final size:96
Alignment explanation
Indices: 845--1030 Score: 300
Period size: 96 Copynumber: 1.9 Consensus size: 96
835 CAGCAACTAG
* * * *
845 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAA
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCAACGTGATGAA
*
910 TGTGAAAGTGTATATATGTGATAAGGCCTAA
66 TGTGAAAGTGTATAAATGTGATAAGGCCTAA
* * *
941 TGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGA
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCAACGTGATGAA
1006 TGTGAAAGTGTATAAATGTGATAAG
66 TGTGAAAGTGTATAAATGTGATAAG
1031 TCCCGAAGGG
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (96 bp):
TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCAACGTGATGAA
TGTGAAAGTGTATAAATGTGATAAGGCCTAA
Found at i:1205 original size:37 final size:37
Alignment explanation
Indices: 1149--1227 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
1139 CCGAGCTCTA
* * *
1149 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
1186 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
1223 AAGAC
1 AAGAC
1228 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:3169 original size:40 final size:39
Alignment explanation
Indices: 3083--3526 Score: 269
Period size: 40 Copynumber: 11.2 Consensus size: 39
3073 AATGATGCCC
* * *
3083 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA-CCTG
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTATATCC-G
*
3123 GACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-ATTCCG
1 GGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
* * *
3163 GGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
3202 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCG
* * * * *
3242 GGCTAAGTTTCGAAGAGCATTCGTGCTAGTGA-TGTATCCG
1 GGCTAAG-TCCGAAG-GCATTTGTGCGAGTTACTATATCCG
** * * *
3282 GGCTAAGTCCGAAGAGCATTCATGCTAGTGA-TGTATCCG
1 GGCTAAGTCCGAAG-GCATTTGTGCGAGTTACTATATCCG
* * * *
3321 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TGTATCCG
1 GGCTAAG-TCCGAAG-GCATTTGTGCGAGTTACTATATCCG
** * * *
3361 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCG
1 GGCTAAGT-CCGAAG-GCATTTGTGCGAGTTACTATATCCG
* * * * *
3401 GGCTAAGTTCCAAAGAGCATTCGTGCTAGTGA-TGTATCCG
1 GGCTAAG-TCCGAAG-GCATTTGTGCGAGTTACTATATCCG
** * * *
3441 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCG
1 GGCTAAGT-CCGAAG-GCATTTGTGCGAGTTACTATATCCG
* * *
3481 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATATCCG
1 GGCTAAG-TCCGAAG-GCATTTGTGCGAGTTACTATATCCG
*
3521 TGCTAA
1 GGCTAA
3527 ACCCCGAAGA
Statistics
Matches: 361, Mismatches: 30, Indels: 26
0.87 0.07 0.06
Matches are distributed among these distances:
39 74 0.20
40 261 0.72
41 26 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:3591 original size:40 final size:40
Alignment explanation
Indices: 3159--3579 Score: 544
Period size: 40 Copynumber: 10.6 Consensus size: 40
3149 AGTTACTAAT
* * * **
3159 TCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* * * * *
3198 TCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* **
3238 ACCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
3278 TCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
3317 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
3357 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
3397 TCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
3437 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
3477 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * *
3517 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
3557 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
3580 ATCATGCTGG
Statistics
Matches: 343, Mismatches: 36, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
39 47 0.14
40 283 0.83
41 13 0.04
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:6517 original size:47 final size:47
Alignment explanation
Indices: 6466--7292 Score: 1237
Period size: 47 Copynumber: 17.7 Consensus size: 47
6456 TTAGGATTCT
* * *
6466 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
6513 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
6562 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT-A------
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
6602 A--TG--GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
6645 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
6692 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAGGCCTAATAGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
6739 ATGTGATGGATGTGAAAGTGTATAAATGTGATAAGGCCTAATAGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
6786 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
6833 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
6880 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
6929 ATGTGATGAATGTGAAACTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
6976 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
7023 ATGTGATAAATGTGAAAGTGTATATATATGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
7070 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
7117 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
7164 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
7211 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
7258 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
7293 TCCCGAAGGG
Statistics
Matches: 719, Mismatches: 45, Indels: 32
0.90 0.06 0.04
Matches are distributed among these distances:
36 32 0.04
37 1 0.00
38 2 0.00
40 1 0.00
43 1 0.00
45 2 0.00
46 2 0.00
47 588 0.82
49 90 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:6616 original size:36 final size:36
Alignment explanation
Indices: 6569--6641 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
6559 CCGATGTGAT
6569 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
6605 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
6641 G
1 G
6642 CCGATGTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (36 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
Found at i:7466 original size:37 final size:37
Alignment explanation
Indices: 7410--7488 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
7400 CCGAGCTCTA
* * *
7410 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
7447 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
7484 AAGAC
1 AAGAC
7489 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:10958 original size:48 final size:48
Alignment explanation
Indices: 10906--11078 Score: 206
Period size: 48 Copynumber: 3.6 Consensus size: 48
10896 TACGTGTGCT
* * * *
10906 AGTGTAAAACCATGTCTAGGACATAGCATCGGCCATATTATGAGATCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCC
*
10954 AGTGTAAGACCATGTCT-GAGACATGGCATCGGCCACATTATGAGAGCT
1 AGTGTAAGACCATGTCTAG-GACATGGCATCGGCCACATTATGAGAGCC
** **
11002 AGTGTAAGACCATGTCTAGGACATGGCATCGGCTTCAACATGTA-AGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATG-AGAGCC
* * *
11050 AGTGTAAGAACATGTTTGGGACATGGCAT
1 AGTGTAAGACCATGTCTAGGACATGGCAT
11079 TGGCATTTTA
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
47 1 0.01
48 106 0.97
49 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:11052 original size:96 final size:96
Alignment explanation
Indices: 10903--11078 Score: 241
Period size: 96 Copynumber: 1.8 Consensus size: 96
10893 TGATACGTGT
* * *
10903 GCTAGTGTAAAACCATGTCTAGGACATAGCATCGGCCATATTATGAGATCCAGTGTAAGACCATG
1 GCTAGTGTAAAACCATGTCTAGGACATAGCATCGGCCATATCATGAGAGCCAGTGTAAGAACATG
10968 TCTGAGACATGGCATCGGCCACATTATGAGA
66 TCTGAGACATGGCATCGGCCACATTATGAGA
* *
10999 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTCA-A-CATGTA-AGCCAGTGTAAGAAC
1 GCTAGTGTAAAACCATGTCTAGGACATAGCATCGGC--CATATCATG-AGAGCCAGTGTAAGAAC
* *
11061 ATGTTTGGGACATGGCAT
63 ATGTCTGAGACATGGCAT
11079 TGGCATTTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
96 66 0.94
97 2 0.03
98 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (96 bp):
GCTAGTGTAAAACCATGTCTAGGACATAGCATCGGCCATATCATGAGAGCCAGTGTAAGAACATG
TCTGAGACATGGCATCGGCCACATTATGAGA
Found at i:26565 original size:27 final size:27
Alignment explanation
Indices: 26529--26701 Score: 229
Period size: 27 Copynumber: 6.4 Consensus size: 27
26519 TGGATGAGTT
*
26529 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* **
26556 TTAGAATTACTAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
26583 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
26610 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
26637 ATAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
26664 GTAGAATTACCGAGATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
26691 GTAAAATTACC
1 GTAGAATTACC
26702 ATTTTGCCCC
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:26664 original size:81 final size:81
Alignment explanation
Indices: 26529--26701 Score: 256
Period size: 81 Copynumber: 2.1 Consensus size: 81
26519 TGGATGAGTT
* * **
26529 GTAGAATTACCGAAATACCCCTGTAAGTTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCCTGTAAGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
*
26594 GAAATACCCCTGTAGG
66 GAAATACCCCTATAGG
* *
26610 GTAGAATTATCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
1 GTAGAATTACCGAAATACCCCTGTAAGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
* *
26675 GAGATACCCTTATAGG
66 GAAATACCCCTATAGG
*
26691 GTAAAATTACC
1 GTAGAATTACC
26702 ATTTTGCCCC
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTGTAAGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
GAAATACCCCTATAGG
Found at i:30451 original size:41 final size:40
Alignment explanation
Indices: 30279--30458 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
30269 CGCTCGAATA
* *
30279 CCTTCGGGACATAGCCTGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
30319 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
30359 CCTTCGGGACTTAGCCCGGAACTAGTAACTCAG-ACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTC-GCACAAATG
*
30399 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACT--CGCACAAATG
30440 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30459 TTATCATCCA
Statistics
Matches: 132, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
39 1 0.01
40 103 0.78
41 26 0.20
42 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:34821 original size:30 final size:30
Alignment explanation
Indices: 34786--34865 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
34776 CAAGAAAATC
*
34786 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* * *
34816 GAATAAAGAAATCC-AGAATAAAGAGATCTA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
34846 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
34866 CGATACTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 38 0.90
31 2 0.05
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:34825 original size:15 final size:15
Alignment explanation
Indices: 34786--34856 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
34776 CAAGAAAATC
34786 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
34801 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
34816 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
34831 GAATAAAGAGATCTA
1 GAATAAAGAAATCCA
*
34846 GGATAAAGAAA
1 GAATAAAGAAA
34857 CCCAAGATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 1 0.02
15 44 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.11, G:0.18, T:0.13
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:34865 original size:15 final size:15
Alignment explanation
Indices: 34788--34865 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
34778 AGAAAATCGA
34788 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
34803 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
34817 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
34832 AATAAAGAGATCTAGG
1 -ATAAAGAAATCCAAG
*
34848 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
34863 ATA
1 ATA
34866 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37981 original size:46 final size:46
Alignment explanation
Indices: 37818--37981 Score: 165
Period size: 46 Copynumber: 3.5 Consensus size: 46
37808 ATAAGCGGAT
* * * * *
37818 TCGGACTCAACTTAACGAGCTCGGGCGTTCGCATCCATAAGTGAAC
1 TCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAAC
* * *
37864 TCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC-T---CGAAC
1 TCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC-CATAAGTGAAC
* *
37911 TCAGACGCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAAC
1 TCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAAC
37957 TCGGACTCAACTCAACGAGTTCGGA
1 TCGGACTCAACTCAACGAGTTCGGA
37982 TGCTCAACCA
Statistics
Matches: 94, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.09
44 1 0.01
46 49 0.52
47 27 0.29
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAAC
Found at i:38000 original size:46 final size:46
Alignment explanation
Indices: 37857--38000 Score: 113
Period size: 46 Copynumber: 3.1 Consensus size: 46
37847 CGCATCCATA
37857 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CT
* * * * * *
37906 --CGAACTCAGACGCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
37950 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
37996 AGTGA
1 AGTGA
38001 CATGTCACTT
Statistics
Matches: 73, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 31 0.42
47 29 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:43916 original size:28 final size:28
Alignment explanation
Indices: 43850--44003 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
43840 ATATTAAGTC
* *
43850 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43877 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
43905 CGCACACCTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43933 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43961 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
43989 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44004 GTACAATTTA
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
27 22 0.18
28 97 0.82
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:50793 original size:27 final size:28
Alignment explanation
Indices: 50709--50806 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
50699 TATGAGATTG
* * * *
50709 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
50738 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
50766 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
50793 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
50807 GACTAAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:50817 original size:27 final size:27
Alignment explanation
Indices: 50709--50819 Score: 80
Period size: 27 Copynumber: 4.0 Consensus size: 27
50699 TATGAGATTG
* * * *
50709 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAG-CTAAA-TATATA
* * *
50738 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAG-CTAAATATATA
* * *
50766 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTAAATATATA
*
50793 GCACTGAGTGTGCG-GACTAAATATATA
1 GCACTAAGTGTGCGAG-CTAAATATATA
50820 TTTTTGAATC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 32 0.44
28 20 0.28
29 19 0.26
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTAAATATATA
Found at i:50820 original size:29 final size:27
Alignment explanation
Indices: 50709--50820 Score: 80
Period size: 28 Copynumber: 4.0 Consensus size: 27
50699 TATGAGATTG
** * *
50709 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC--GACTAAATTATATA
* **
50738 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTAAATTATATA
* **
50766 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTAAATTATATA
*
50793 GCACTGAGTGTGCGGACTAAATATATAT
1 GCACTAAGTGTGC-GACTAAAT-TATAT
50821 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 24 0.34
28 28 0.40
29 18 0.26
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTAAATTATATA
Found at i:59109 original size:27 final size:28
Alignment explanation
Indices: 59025--59122 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
59015 TATGAGATTG
* * * *
59025 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
59054 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
59082 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59109 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
59123 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59133 original size:27 final size:27
Alignment explanation
Indices: 59053--59135 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
59043 TAAATTGTAC
* * *
59053 AGCACTAAGTGTGTGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
59081 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
59108 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
59135 A
1 A
59136 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:59136 original size:29 final size:27
Alignment explanation
Indices: 59025--59136 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
59015 TATGAGATTG
** * *
59025 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
59054 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
59082 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
59109 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
59137 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 27 0.39
29 20 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:67358 original size:28 final size:28
Alignment explanation
Indices: 67295--67392 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
67285 ATATTAAGTC
*
67295 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
67322 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
67350 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
67379 CGCACACTTAGTGC
1 CGCACACTTAGTGC
67393 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:83033 original size:47 final size:47
Alignment explanation
Indices: 82942--83474 Score: 811
Period size: 47 Copynumber: 11.4 Consensus size: 47
82932 TAATTGAATA
* *
82942 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGTG-ATAAGGCCGAATGGCCAATGTGATG
*
82990 AATGTGAACATGTGTATGTGTGATAAAGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
83037 AAAGTAAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
83084 AATGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
83131 AAAGTGAACGTGTGTATGTGTGATAAAGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
83178 AAAGTAAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
83225 AATGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
83272 AAAGTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
83319 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
83366 AATGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
83413 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
83460 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
83475 AAATGTGATA
Statistics
Matches: 445, Mismatches: 39, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 418 0.94
48 19 0.04
49 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:85427 original size:23 final size:22
Alignment explanation
Indices: 85401--85453 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
85391 TGAGAGTGAA
*
85401 AAAAGAAATT-GAAGAAAGAAGAG
1 AAAAGAAATTAGAA-AAAGAA-AC
85424 AAAATG-AATTAGAAAAAGAAAC
1 AAAA-GAAATTAGAAAAAGAAAC
85446 AAAAGAAA
1 AAAAGAAA
85454 AAGACGTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:90374 original size:49 final size:50
Alignment explanation
Indices: 90318--90435 Score: 166
Period size: 50 Copynumber: 2.4 Consensus size: 50
90308 ACGCATACTA
* **
90318 GCACTTAGTACTACACATGTGA-CAAACAATCCGGTACACGTAGTAGGTT
1 GCACTTAGTACTACACATGTGACCAAACAATCCGATACACGTAGTAGCCT
** * *
90367 GCACTTAGTACTACACATGTGACCTCACCATCTGATACACGTAGTAGCCT
1 GCACTTAGTACTACACATGTGACCAAACAATCCGATACACGTAGTAGCCT
90417 GCACTTAGTACTACACATG
1 GCACTTAGTACTACACATG
90436 CGACTTAACA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
49 22 0.36
50 39 0.64
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
GCACTTAGTACTACACATGTGACCAAACAATCCGATACACGTAGTAGCCT
Found at i:97698 original size:50 final size:49
Alignment explanation
Indices: 97581--97822 Score: 247
Period size: 50 Copynumber: 4.9 Consensus size: 49
97571 AGCCGAAGCT
* * * * *
97581 ATCTGATACGCATAGTAGCCAGCACTTAGTACTACACATGTGAC-CAATA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTC-ATC
* * *
97630 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTTCACACGTGAGCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTCATC
97680 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTC--A-TC
* * * * * *
97731 ATC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTCATC
* * *
97780 AGTGTGGTACACGTAGTAGCCTGCACTTCGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
97823 TATTCACAAT
Statistics
Matches: 160, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.01
49 39 0.24
50 79 0.49
51 39 0.24
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTCATC
Found at i:97791 original size:101 final size:99
Alignment explanation
Indices: 97581--97822 Score: 290
Period size: 101 Copynumber: 2.4 Consensus size: 99
97571 AGCCGAAGCT
* * * * *
97581 ATCTGATACGCATAGTAGCCAGCACTTAGTACTACACATGTGACCAATAATCTGGTACACGTAGT
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCTGGTACACATAGT
* * *
97646 AGCCTGCACTTAGTACTTCACACGTGAGCTCACC
66 AGCCTGCACTTAGTACTACACACGCGAGCTCAAC
* * *
97680 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATC-GAGTACGCAT
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TAATCTG-GTACACAT
* *
97744 AGTAGCCTGCACTTAGTACTACACATGCGA-CTTAAC
63 AGTAGCCTGCACTTAGTACTACACACGCGAGCTCAAC
* * *
97780 AGTGTGGTACACGTAGTAGCCTGCACTTCGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
97823 TATTCACAAT
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 39 0.32
100 9 0.07
101 75 0.61
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (99 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCTGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGAGCTCAAC
Found at i:99972 original size:64 final size:64
Alignment explanation
Indices: 99891--100074 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
99881 AGACATTATG
* * *
99891 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTCCACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
99955 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
100020 AA
63 AA
* * * *
100022 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
100075 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Done.