Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 62 of 373
Found at i:18678428 original size:47 final size:47
Alignment explanation
Indices: 18678341--18678536 Score: 275
Period size: 47 Copynumber: 4.1 Consensus size: 47
18678331 TTAGGATTTT
** * *
18678341 ATGTGATGAATGTGAATGTGTATTTATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCA--TATATGTGATAAGGCCGAATGGCCA
18678390 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
18678437 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
18678484 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18678531 ATGTGA
1 ATGTGA
18678537 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
47 114 0.86
49 19 0.14
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:18678443 original size:22 final size:22
Alignment explanation
Indices: 18678372--18678443 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
18678362 ATTTATATGA
18678372 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
18678394 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
18678419 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
18678441 GAT
1 GAT
18678444 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:18678492 original size:25 final size:25
Alignment explanation
Indices: 18678417--18678492 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
18678407 ATGCATATAT
18678417 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
18678442 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
18678464 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
18678489 GTGA
1 GTGA
18678493 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:18678569 original size:48 final size:48
Alignment explanation
Indices: 18678506--18678986 Score: 743
Period size: 48 Copynumber: 9.8 Consensus size: 48
18678496 TGAACATGCA
18678506 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
18678554 TATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
*
18678606 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAGG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
18678654 TATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
18678702 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
18678750 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
18678800 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
18678848 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
18678896 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
* *
18678948 TATATGTGGTAAAGCCGAATGGCTAGTGTAAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
18678987 GGCGATGTGC
Statistics
Matches: 401, Mismatches: 16, Indels: 32
0.89 0.04 0.07
Matches are distributed among these distances:
47 3 0.01
48 258 0.64
49 6 0.01
50 46 0.11
51 3 0.01
52 83 0.21
53 2 0.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:18678819 original size:194 final size:196
Alignment explanation
Indices: 18678506--18678969 Score: 817
Period size: 194 Copynumber: 2.4 Consensus size: 196
18678496 TGAACATGCA
18678506 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
18678571 AATGGTCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
66 AATGGTCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
18678636 AAATATGTATGAGATAGGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATAT
131 AAATATGTATGAGATAGGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATAT
18678701 G
196 G
*
18678702 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
18678767 AATGGTCAATGTG-AA-ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
66 AATGGTCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
18678830 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
131 AAATATGTATGAGATAGGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATAT
18678895 G
196 G
* *
18678896 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAA
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATGTATATGTGGTAA
18678960 AGCCGAATGG
61 AGCCGAATGG
18678970 CTAGTGTAAA
Statistics
Matches: 257, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
193 1 0.00
194 139 0.54
195 2 0.01
196 78 0.30
197 1 0.00
198 36 0.14
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (196 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGTCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
AAATATGTATGAGATAGGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATAT
G
Found at i:18678855 original size:146 final size:146
Alignment explanation
Indices: 18678506--18678986 Score: 799
Period size: 146 Copynumber: 3.3 Consensus size: 146
18678496 TGAACATGCA
18678506 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
18678571 AATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAATG
66 AATGGCT-AATGTG--A-A-ATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATG
* *
18678634 TG-AA-ATATGTATGAGATAGG
125 TGAAATATATATATGAGATATG
*
18678654 TATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
18678719 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
66 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
18678784 ATATATATGAGATATG
131 ATATATATGAGATATG
18678800 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
18678865 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
66 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTG-AA-
18678930 ATATATATATGAGATATG
129 ATATATATATGAGATATG
* *
18678948 TATATGTGGTAAAGCCGAATGGCTAGTGTAAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
18678987 GGCGATGTGC
Statistics
Matches: 319, Mismatches: 8, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
144 42 0.13
145 4 0.01
146 140 0.44
147 2 0.01
148 130 0.41
149 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (146 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
ATATATATGAGATATG
Found at i:18679239 original size:37 final size:37
Alignment explanation
Indices: 18679136--18679240 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
18679126 ATATATTCCA
**
18679136 GGTAAGACCCGATGACTACGTGTGGAGATAATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
*
18679173 GGTAAGACCCAATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
18679210 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
18679241 CGTCTGAGCT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:18683685 original size:46 final size:46
Alignment explanation
Indices: 18683635--18683807 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
18683625 TGGTTGAGCA
* *
18683635 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTACGAACG
* * * * * * *
18683681 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGAAAT-GTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGTTACGA-ACG
* *
18683728 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTACGAACG
* *
18683774 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18683808 AGGGCGGGTT
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 66 0.65
47 33 0.33
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTACGAACG
Found at i:18683791 original size:93 final size:93
Alignment explanation
Indices: 18683632--18683802 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
18683622 GGATGGTTGA
* * * * * *
18683632 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
18683697 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
18683725 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
18683790 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18683803 ACTTAAGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:18689232 original size:46 final size:45
Alignment explanation
Indices: 18689182--18689354 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
18689172 TGGTTGAGCA
*
18689182 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATG-GAATG
* * * *
18689228 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGAA-T--G
* * *
18689273 CATCCGAACTCGTTGAGTTGAGTCTGAGTTTACTTATGGTTGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATG-GAATG
* *
18689321 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
18689355 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGAATG
Found at i:18689338 original size:93 final size:93
Alignment explanation
Indices: 18689179--18689349 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
18689169 GGATGGTTGA
* *
18689179 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18689244 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCTGAGTTCGTGAAATGTAACTAG
* * * * *
18689272 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTTACTTATGGTTGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18689337 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
18689350 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAAATGTAACTAG
Found at i:18702303 original size:46 final size:46
Alignment explanation
Indices: 18702250--18702425 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
18702240 TATTTGGGCA
*
18702250 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
18702296 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GAAGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
18702343 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
18702389 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18702426 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 64 0.59
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18702405 original size:93 final size:93
Alignment explanation
Indices: 18702246--18702417 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
18702236 GGGATATTTG
* * *
18702246 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
18702311 TTGAGTCCGAGTTCGTGAGAAGTAACTA
66 TTGAGTCCGAGTTCGTGAGAAGTAACTA
* *
18702339 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
18702404 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
18702418 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGAAGTAACTA
Found at i:18702706 original size:31 final size:31
Alignment explanation
Indices: 18702671--18702733 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
18702661 GTGATATGAA
18702671 TGTCTTGGTGATGATTATGCAAATGATGTTT
1 TGTCTTGGTGATGATTATGCAAATGATGTTT
18702702 TGTCTTGGTGATGATTATGCAAATGATGTTT
1 TGTCTTGGTGATGATTATGCAAATGATGTTT
18702733 T
1 T
18702734 ATATTTGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.46
Consensus pattern (31 bp):
TGTCTTGGTGATGATTATGCAAATGATGTTT
Found at i:18705421 original size:15 final size:15
Alignment explanation
Indices: 18705401--18705469 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
18705391 GTATCTTGGG
18705401 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
18705416 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
18705431 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
18705446 TTTCTATATCTTGGA
1 TTTCTTTATCCTGGA
18705461 TTTCTTTAT
1 TTTCTTTAT
18705470 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:18705470 original size:30 final size:30
Alignment explanation
Indices: 18705392--18705479 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
18705382 CAGAGTATCG
* * * *
18705392 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTA
*
18705422 TAT-TCTGGATTTCTTTATTCTGGGTTTCTA
1 TATCT-TGGATTTCTTTATTCTGGATTTCTA
*
18705452 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
18705480 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTA
Found at i:18707924 original size:46 final size:44
Alignment explanation
Indices: 18707871--18708039 Score: 136
Period size: 46 Copynumber: 3.8 Consensus size: 44
18707861 TTTGGGCATT
*
18707871 CGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AA-GTC
* * *
18707917 CGAACTCGTTGAGTCCGAGTTCGTGAGATGTAAC-TA--G--GC-A-TC
1 CGAACTCGTTGAGT-TGAG-TC-CGAG-T-TCACTTATGGATGCAAGTC
* * *
18707959 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AA-GTC
*
18708005 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18708040 GTGGGTTACA
Statistics
Matches: 100, Mismatches: 9, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
37 3 0.03
38 2 0.02
39 3 0.03
40 3 0.03
41 3 0.03
42 17 0.17
44 2 0.02
46 51 0.51
47 3 0.03
48 3 0.03
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (44 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGTC
Found at i:18722836 original size:26 final size:26
Alignment explanation
Indices: 18722806--18722861 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
18722796 TGAAATTCCC
18722806 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
18722832 ATCATGGAAGATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18722858 ATCA
1 ATCA
18722862 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18729726 original size:17 final size:17
Alignment explanation
Indices: 18729704--18729736 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18729694 CACTAAAATT
*
18729704 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
18729721 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
18729737 GTTCACTAAC
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:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:18732675 original size:27 final size:27
Alignment explanation
Indices: 18732645--18732843 Score: 281
Period size: 27 Copynumber: 7.4 Consensus size: 27
18732635 GGCATAATAA
*
18732645 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
18732672 TCATTTTACTCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
18732699 TCATTTTACCCTACAGGGGTATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
* *
18732726 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
18732753 TCATTTTACCCTACAGTGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
18732780 TCATTTTACCCTATAGGGGAATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
18732807 TTATTTTACCCTACAGGGATATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
18732834 TCATTTTACC
1 TCATTTTACC
18732844 TATTTTAGGG
Statistics
Matches: 149, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:18732692 original size:54 final size:54
Alignment explanation
Indices: 18732645--18732843 Score: 310
Period size: 54 Copynumber: 3.7 Consensus size: 54
18732635 GGCATAATAA
* * * *
18732645 TCATTTTACCATACAGGGGTATTACGGTCATTTTACTCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATAGGGGCATTACGG
18732699 TCATTTTACCCTACAGGGGTATTAC-GATCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACAG-TCATTTTACCCTATAGGGGCATTACGG
* *
18732753 TCATTTTACCCTACAGTGGTATTACAGTCATTTTACCCTATAGGGGAATTACGG
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATAGGGGCATTACGG
* *
18732807 TTATTTTACCCTACAGGGATATTACAGTCATTTTACC
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACC
18732844 TATTTTAGGG
Statistics
Matches: 135, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
53 1 0.01
54 133 0.99
55 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTATAGGGGCATTACGG
Found at i:18735555 original size:16 final size:17
Alignment explanation
Indices: 18735530--18735568 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
18735520 ACTATAGTTT
*
18735530 TCAGTCTTCC-ACAGAC
1 TCAGTTTTCCTACAGAC
*
18735546 TCAGTTTTCCTACAGTC
1 TCAGTTTTCCTACAGAC
18735563 TCAGTT
1 TCAGTT
18735569 AACTCAGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (17 bp):
TCAGTTTTCCTACAGAC
Found at i:18736444 original size:28 final size:28
Alignment explanation
Indices: 18736394--18736459 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
18736384 CTATTCAGTA
* * *
18736394 ATAGT-ACAGTCTGGGCGTTAGCCCTAT
1 ATAGTAACAGTCTGGGCCTAAGCCCAAT
*
18736421 ATAGTAACAGTGTGGGCCTAAGCCCAAT
1 ATAGTAACAGTCTGGGCCTAAGCCCAAT
* *
18736449 ACAGTATCAGT
1 ATAGTAACAGT
18736460 ACAGTGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (28 bp):
ATAGTAACAGTCTGGGCCTAAGCCCAAT
Found at i:18736841 original size:27 final size:27
Alignment explanation
Indices: 18736810--18737008 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
18736800 GTCATAATCA
* * *
18736810 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
* *
18736837 TCATTTTACTCTACAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
*
18736864 TCATTTTACCCTATAGGGACATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
* * ** * *
18736891 TCATTTTAACCAATAGTTGCATCACCG
1 TCATTTTACCCTATAGGGGCATTACGG
* * *
18736918 TCATTTTACCCTACAGGGGTATTACTG
1 TCATTTTACCCTATAGGGGCATTACGG
18736945 TCATTTTACCCTATAGGGGCATTACGGG
1 TCATTTTACCCTATAGGGGCATTAC-GG
* *
18736973 T-ATTTTACCCTATAGGGGTATTGCGG
1 TCATTTTACCCTATAGGGGCATTACGG
18736999 TCATTTTACC
1 TCATTTTACC
18737009 TATTTTGGGA
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.02
27 139 0.97
28 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGCATTACGG
Found at i:18736939 original size:108 final size:108
Alignment explanation
Indices: 18736810--18737006 Score: 315
Period size: 108 Copynumber: 1.8 Consensus size: 108
18736800 GTCATAATCA
*
18736810 TCATTTTACCATACAGGGGTATTACGGTCATTTTACTCTACAGGGGCATTAC-GGTCATTTTACC
1 TCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGGT-ATTTTACC
18736874 CTATAGGGACATTACGGTCATTTTAACCAATAGTTGCATCACCG
65 CTATAGGGACATTACGGTCATTTTAACCAATAGTTGCATCACCG
* * *
18736918 TCATTTTACCCTACAGGGGTATTACTGTCATTTTACCCTATAGGGGCATTACGGGTATTTTACCC
1 TCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGGTATTTTACCC
** *
18736983 TATAGGGGTATTGCGGTCATTTTA
66 TATAGGGACATTACGGTCATTTTA
18737007 CCTATTTTGG
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 78 0.96
109 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (108 bp):
TCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGGTATTTTACCC
TATAGGGACATTACGGTCATTTTAACCAATAGTTGCATCACCG
Found at i:18737002 original size:81 final size:81
Alignment explanation
Indices: 18736810--18737008 Score: 256
Period size: 81 Copynumber: 2.5 Consensus size: 81
18736800 GTCATAATCA
* * *
18736810 TCATTTTACCATACAGGGGTATTACGGTCATTTTACTCTACAGGGGCATTACGGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCC
18736875 TATAGGGACATTACGG
66 TATAGGGACATTACGG
* * ** * * * * *
18736891 TCATTTTAACCAATAGTTGCATCACCGTCATTTTACCCTACAGGGGTATTACTGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCC
*
18736956 TATAGGGGCATTACGGG
66 TATAGGGACATTAC-GG
*
18736973 T-ATTTTACCCTATAGGGGTATTGCGGTCATTTTACC
1 TCATTTTACCCTATAGGGGTATTACGGTCATTTTACC
18737009 TATTTTGGGA
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
81 93 0.97
82 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCC
TATAGGGACATTACGG
Found at i:18762168 original size:8 final size:8
Alignment explanation
Indices: 18762127--18762168 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
18762117 ATGGATTGGC
18762127 AAAAGCC-
1 AAAAGCCG
18762134 AAAATGCC-
1 AAAA-GCCG
18762142 AAAAGCCG
1 AAAAGCCG
18762150 AAAAGCCG
1 AAAAGCCG
*
18762158 AAAAGCTG
1 AAAAGCCG
18762166 AAA
1 AAA
18762169 GTTGGGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.55, C:0.21, G:0.19, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:18762309 original size:18 final size:19
Alignment explanation
Indices: 18762275--18762311 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18762265 AGAATTGGCC
18762275 AAATGGGCCGAGATGGGCT
1 AAATGGGCCGAGATGGGCT
*
18762294 AAATGGGCC-TGATGGGCT
1 AAATGGGCCGAGATGGGCT
18762312 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.24, C:0.16, G:0.41, T:0.19
Consensus pattern (19 bp):
AAATGGGCCGAGATGGGCT
Found at i:18762444 original size:29 final size:28
Alignment explanation
Indices: 18762412--18762496 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
18762402 TGGTATATAT
*
18762412 GAATGAAAATTGGGCCTCGTGGGCCATAA
1 GAAT-AAAATTGGGCCTAGTGGGCCATAA
* * **
18762441 GAATATGAACTGGGCC-AGATGGGCCATTT
1 GAATA-AAATTGGGCCTAG-TGGGCCATAA
*
18762470 GAATAAGATTGGGCCTAGTGGGCCATA
1 GAATAAAATTGGGCCTAGTGGGCCATA
18762497 TGCATGTATG
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
28 17 0.39
29 27 0.61
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.22
Consensus pattern (28 bp):
GAATAAAATTGGGCCTAGTGGGCCATAA
Found at i:18764531 original size:15 final size:15
Alignment explanation
Indices: 18764511--18764540 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18764501 TCCAAGGGAA
*
18764511 GTATGTGGGTGCAAG
1 GTATGTGGATGCAAG
18764526 GTATGTGGATGCAAG
1 GTATGTGGATGCAAG
18764541 AAGGAAGGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.43, T:0.27
Consensus pattern (15 bp):
GTATGTGGATGCAAG
Found at i:18772811 original size:5 final size:5
Alignment explanation
Indices: 18772782--18772871 Score: 55
Period size: 5 Copynumber: 17.8 Consensus size: 5
18772772 ATCCTCCTTT
*
18772782 TTTTA -TTTA TTCTTA TTTTTA TTTTG TTTTA TTTTA TTTTTA TTTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
* * *
18772830 GTTT- TTCT- TTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
18772872 GAAAGACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 3 0.04
4 9 0.13
5 29 0.43
6 25 0.37
7 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:18772813 original size:16 final size:15
Alignment explanation
Indices: 18772781--18772838 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
18772771 AATCCTCCTT
18772781 TTTTTATTTATTCTTA
1 TTTTTATTT-TTCTTA
*
18772797 TTTTTATTTTGTTTTA
1 TTTTTATTTT-TCTTA
18772813 -TTTTA--TTT-TTA
1 TTTTTATTTTTCTTA
18772824 TTTTTAGTTTTTCTT
1 TTTTTA-TTTTTCTT
18772839 TTTATTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
11 3 0.09
12 6 0.17
13 2 0.06
15 9 0.26
16 15 0.43
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTTCTTA
Found at i:18772817 original size:27 final size:27
Alignment explanation
Indices: 18772782--18772834 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
18772772 ATCCTCCTTT
18772782 TTTTATTTATTCTTATTTTTA-TTTTG
1 TTTTATTTATTCTTATTTTTAGTTTTG
*
18772808 TTTTATTTTATTTTTATTTTTAGTTTT
1 TTTTA-TTTATTCTTATTTTTAGTTTT
18772835 TCTTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 15 0.62
28 4 0.17
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (27 bp):
TTTTATTTATTCTTATTTTTAGTTTTG
Found at i:18772818 original size:21 final size:22
Alignment explanation
Indices: 18772787--18772827 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
18772777 CCTTTTTTTA
18772787 TTTATTCTTATTTTTATTTTGT
1 TTTATTCTTATTTTTATTTTGT
18772809 TTTATT-TTATTTTTATTTT
1 TTTATTCTTATTTTTATTTT
18772828 TAGTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTATTCTTATTTTTATTTTGT
Found at i:18772834 original size:7 final size:6
Alignment explanation
Indices: 18772787--18772851 Score: 64
Period size: 6 Copynumber: 11.2 Consensus size: 6
18772777 CCTTTTTTTA
* *
18772787 TTTATT CTTATT TTTA-T TTT-GT TTTA-T TTTATT TTTATT TTTAGTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT
* *
18772833 TTTCTT TTTATT TTCATT T
1 TTTATT TTTATT TTTATT T
18772852 CAATTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 13 0.26
6 32 0.64
7 5 0.10
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:18775776 original size:13 final size:13
Alignment explanation
Indices: 18775760--18775792 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18775750 TTTAATTAAA
*
18775760 TTAGTTAATTAGT
1 TTAGATAATTAGT
18775773 TTAGATAATTAGT
1 TTAGATAATTAGT
18775786 TTA-ATAA
1 TTAGATAA
18775793 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:18794255 original size:22 final size:23
Alignment explanation
Indices: 18794207--18794257 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
18794197 GAAAATCATG
*
18794207 TAATTAAGCATAATTTCACATAC
1 TAATTAAGCATAAATTCACATAC
* * *
18794230 TAATTAAGTA-AAATTCACTTAT
1 TAATTAAGCATAAATTCACATAC
18794252 TAATTA
1 TAATTA
18794258 CTCAAGATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (23 bp):
TAATTAAGCATAAATTCACATAC
Found at i:18796242 original size:17 final size:17
Alignment explanation
Indices: 18796202--18796244 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18796192 ACTAAGACAT
*
18796202 AAAAATAAACACCTAAA
1 AAAAATAAACAACTAAA
18796219 AAGAAATAAA-AACTAAA
1 AA-AAATAAACAACTAAA
18796236 GAAAAATAA
1 -AAAAATAA
18796245 TTTCTCCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.74, C:0.09, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAATAAACAACTAAA
Found at i:18796959 original size:34 final size:34
Alignment explanation
Indices: 18796916--18796981 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
18796906 ATCATAGATC
18796916 TCTTTAAGAATAATCTTCCCAATATTGATGGACT
1 TCTTTAAGAATAATCTTCCCAATATTGATGGACT
18796950 TCTTTAAGAATAATCTTCCCAATATTGATGGA
1 TCTTTAAGAATAATCTTCCCAATATTGATGGA
18796982 GCTTTCTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (34 bp):
TCTTTAAGAATAATCTTCCCAATATTGATGGACT
Found at i:18800002 original size:28 final size:28
Alignment explanation
Indices: 18799893--18800001 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
18799883 AAAACACTAG
* * *
18799893 TAAAGGAAGCATTTGTGGCAATCTCAAT
1 TAAAGGAAGCCTTTGTGGCTATCTCAGT
*
18799921 TAAAGGAAGCCTTTGTGGCGATCTCAGT
1 TAAAGGAAGCCTTTGTGGCTATCTCAGT
* * *
18799949 TAAAAGAAGCCTTTGTGCCTATCTCTGT
1 TAAAGGAAGCCTTTGTGGCTATCTCAGT
18799977 TAAAGGAAGCCTTTGTGGCTATCTC
1 TAAAGGAAGCCTTTGTGGCTATCTC
18800002 TAAAAAGGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (28 bp):
TAAAGGAAGCCTTTGTGGCTATCTCAGT
Found at i:18802016 original size:29 final size:29
Alignment explanation
Indices: 18801956--18802027 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
18801946 TAATCAACCA
*
18801956 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
18801985 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
*
18802014 CGCACACCTAGTGC
1 CGCACACTTAGTGC
18802028 AAATCTCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:18817184 original size:30 final size:30
Alignment explanation
Indices: 18817150--18817216 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
18817140 CACACGAGCA
* * *
18817150 GACACATGGGTGTGTGTCTCAACTATGTGT
1 GACACACGGGCGTGTATCTCAACTATGTGT
*
18817180 GACACACGGGCGTGTATCTCAACTGTGTGT
1 GACACACGGGCGTGTATCTCAACTATGTGT
18817210 GACACAC
1 GACACAC
18817217 TGCCATGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (30 bp):
GACACACGGGCGTGTATCTCAACTATGTGT
Found at i:18826538 original size:12 final size:13
Alignment explanation
Indices: 18826526--18826575 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
18826516 TAATTTTTTT
18826526 AATTATAAATTTA
1 AATTATAAATTTA
18826539 AATT-TAAATTTA
1 AATTATAAATTTA
* * *
18826551 AATTTTACGATTTT
1 AATTATA-AATTTA
18826565 AATTATAAATT
1 AATTATAAATT
18826576 ATGTTATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 12 0.39
13 9 0.29
14 10 0.32
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
AATTATAAATTTA
Found at i:18826542 original size:6 final size:6
Alignment explanation
Indices: 18826526--18826555 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
18826516 TAATTTTTTT
18826526 AATTATA AATTTA AATTTA AATTTA AATTT
1 AATT-TA AATTTA AATTTA AATTTA AATTT
18826556 TACGATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:18846631 original size:88 final size:87
Alignment explanation
Indices: 18846379--18846644 Score: 220
Period size: 88 Copynumber: 3.0 Consensus size: 87
18846369 GGGTTGAAGA
* * ** * *
18846379 ATGAGTCTTATCTTTCTAAGACAGCAAGAAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAG
1 ATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAG
*
18846444 CAGTAGTGGAGCAGATCGAAAG
66 TAGTAGTGGAGCAGATCGAAAG
* * * * * * * * *
18846466 AGGCGATCTTATC-TCCATGTATCGGT---AATGAAGCAGATTTATGCCTCG-AG-CCTTATCTC
1 ATGAG-TCTTATCTTCC-TG-A--GGTAGCAAGGAAGCAGACTGAAG-ATTGAAGATCTTATCTC
* * * * *
18846525 CCTGAAGTTGTAGAGGAGCGAGTTCGAGAT
60 CCT-AAGTAGTAGTGGAGC-AGATCGAAAG
18846555 ATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAG
1 ATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAG
*
18846620 TAGTAGTGGAGCAGATCGAAGG
66 TAGTAGTGGAGCAGATCGAAAG
18846642 ATG
1 ATG
18846645 GCGAATCTTA
Statistics
Matches: 129, Mismatches: 36, Indels: 28
0.67 0.19 0.15
Matches are distributed among these distances:
85 3 0.02
87 28 0.22
88 70 0.54
89 27 0.21
91 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (87 bp):
ATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAG
TAGTAGTGGAGCAGATCGAAAG
Found at i:18846758 original size:178 final size:172
Alignment explanation
Indices: 18846239--18847028 Score: 732
Period size: 178 Copynumber: 4.5 Consensus size: 172
18846229 GCGACATTGG
* * ** * * *
18846239 TGAAGATGGAAGATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATCG-AAGATGGCTAATCTTAT
1 TGAAGATTGAAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAAGATGGCGAATCTTAT
* * * * * *
18846303 CTCCATCTATCAGCAATGAAGCAGATTTGAGCCACCAGCCTTATCTCTCTAAGGTTGCAAGAGAG
65 CTCCATGTATCGGCAATGAAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGG-TGC-AGGGAG
* * * ** * *
18846368 CGGGTTGAAGAATGAGTCTTATCTTTCTAAGACAGCAAGAAAGTAGAC
128 C-GGTTGAATAA--AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
18846416 TGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGA-GGCG-ATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGATGGCGAATCTTATC
* * * * *
18846479 TCCATGTATCGGTAATGAAGCAGA-TTTATGCCTCGAGCCTTATCTCCCTGAAGTTGTAGAGGAG
66 TCCATGTATCGGCAATGAAGCAGATTTTA-GCCACTAGCCTTATCTCCCT-AAGGTGCAG-GGAG
*
18846543 CGAGTTCGAGATATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
128 CG-GTT-GA-ATA-AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* *
18846592 TGAAGATTGAAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGGATGGCGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGATGGCGAATCTTATC
* * * *
18846657 TCCATGTATCGGCACT-AGAGCAGATTTTAGCCACTAACCTAACCTCCCTAAAGGTGCAGTGGAG
66 TCCATGTATCGGCAATGA-AGCAGATTTTAGCCACTAGCCTTATCTCCCT-AAGGTGCAG-GGAG
* * *
18846721 CAGGCTTTATATACAAGTCTTATCCTCCTGAGGTAGCAAGGAAACAGAC
128 C-GG-TTGA-ATA-AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* * * * *
18846770 TGAGGATTGAAGATCTTATCCCCCTAAGCAGTAGTGGAGTAGATC-AAATATGGTGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGATGGCGAATCTTATC
* * * * *
18846834 TCCATGTATCGGCAATGGAGCAGATTTTCGCCACTAGCCTTATCTCTCTAAGGTAGCAAGAGAAC
66 TCCATGTATCGGCAATGAAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGT-GC-AGGGAGC
* ** *
18846899 ATGTTGAGGATATTGGTCTTATCTTCCTGATGTAGCAAGGAAGCAGAC
129 -GGTTGA--ATA-AAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* * * * * *** *
18846947 TAAAGATTGAGGATCTTGTTTCCCTTAAGCAGCT-GTGGAGCAGGTC-AAAGACAACAAATCTTA
1 TGAAGATTGAAGATCTTATCTCCC-TAAGCAG-TAGTGGAGCAGATCGAAAGATGGCGAATCTTA
* *
18847010 TCTCTATGTATCGACAATG
64 TCTCCATGTATCGGCAATG
18847029 GAATAGATTT
Statistics
Matches: 508, Mismatches: 85, Indels: 39
0.80 0.13 0.06
Matches are distributed among these distances:
174 6 0.01
175 55 0.11
176 110 0.22
177 149 0.29
178 180 0.35
179 8 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (172 bp):
TGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGATGGCGAATCTTATC
TCCATGTATCGGCAATGAAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTGCAGGGAGCGG
TTGAATAAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
Found at i:18847396 original size:16 final size:17
Alignment explanation
Indices: 18847371--18847404 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18847361 AAACCAAAAT
18847371 AAAACAAATA-AATAAA
1 AAAACAAATACAATAAA
*
18847387 AAAACCAATACAATAAA
1 AAAACAAATACAATAAA
18847404 A
1 A
18847405 GTCCATCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAACAAATACAATAAA
Found at i:18851525 original size:26 final size:26
Alignment explanation
Indices: 18851496--18851548 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
18851486 TCCAACATGC
18851496 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
18851522 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
18851548 A
1 A
18851549 AAACTCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:18852936 original size:26 final size:26
Alignment explanation
Indices: 18852897--18852978 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
18852887 TAAAATTCCA
18852897 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
18852923 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18852949 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18852975 ATCA
1 ATCA
18852979 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18867432 original size:93 final size:93
Alignment explanation
Indices: 18867318--18867489 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18867308 CGCCGATAAG
*
18867318 CGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18867383 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
18867411 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18867476 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18867490 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18867486 original size:46 final size:46
Alignment explanation
Indices: 18867313--18867486 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
18867303 TAACCCGCCG
* * *
18867313 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
* *
18867359 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCC
*
18867408 -TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
*
18867452 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18867487 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
Found at i:18869790 original size:13 final size:13
Alignment explanation
Indices: 18869768--18869800 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18869758 AAGGATTTGT
18869768 TTAT-TAAACTAA
1 TTATCTAAACTAA
18869780 TTATCTAAACTAA
1 TTATCTAAACTAA
*
18869793 TTAACTAA
1 TTATCTAA
18869801 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:18872719 original size:4 final size:5
Alignment explanation
Indices: 18872660--18872752 Score: 59
Period size: 5 Copynumber: 17.8 Consensus size: 5
18872650 TATGTCTTTC
* *
18872660 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
*
18872708 AAAA- ATAAAT AAAAT AAAAT GAAAT AAAAAT AAGAAT -AAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAA
18872753 AAGGAGGATT
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 34 0.49
6 29 0.41
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:18878162 original size:13 final size:13
Alignment explanation
Indices: 18878140--18878172 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18878130 AAGGATTTGT
18878140 TTAT-TAAACTAA
1 TTATCTAAACTAA
18878152 TTATCTAAACTAA
1 TTATCTAAACTAA
*
18878165 TTAACTAA
1 TTATCTAA
18878173 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:18883482 original size:3 final size:3
Alignment explanation
Indices: 18883413--18883469 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
18883403 AATCAATCTC
18883413 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18883461 TAT TAT TAT
1 TAT TAT TAT
18883470 GTCTCAATTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18884152 original size:43 final size:43
Alignment explanation
Indices: 18884105--18884277 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 43
18884095 ACGCCACTAT
* *
18884105 AGAACATGACTTTTAGCGGCGCTTTCCCCACAAACACCGCTAA
1 AGAACATGACCTTTAGCGGCACTTTCCCCACAAACACCGCTAA
* * ** * *
18884148 AGAACATGACCTTTAGTGGCATTTTCCCCACAGGCGCTGCTAA
1 AGAACATGACCTTTAGCGGCACTTTCCCCACAAACACCGCTAA
* ** * *
18884191 AGAACATGACCTTTAACGGTGCTTTCTCCACAAGCACCGCTAA
1 AGAACATGACCTTTAGCGGCACTTTCCCCACAAACACCGCTAA
* * * * * * *
18884234 AGAACCTAACTTTTAG-GGCACTTTTCCCAAAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCACTTTCCCCACAAACACCGCTAA
18884276 AG
1 AG
18884278 GTCATGAAAA
Statistics
Matches: 101, Mismatches: 29, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
42 20 0.20
43 81 0.80
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCACTTTCCCCACAAACACCGCTAA
Found at i:18884921 original size:23 final size:23
Alignment explanation
Indices: 18884894--18884970 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
18884884 ATAAACTAAA
18884894 TTTCAGCAACTAAACAATTCAAT
1 TTTCAGCAACTAAACAATTCAAT
*
18884917 TTTCAG-TACTTAAA-AACTTCAAT
1 TTTCAGCAAC-TAAACAA-TTCAAT
* * ** *
18884940 TTACAACATTTAAACACTTCAAT
1 TTTCAGCAACTAAACAATTCAAT
*
18884963 TTGCAGCA
1 TTTCAGCA
18884971 CTTTAACACT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
22 4 0.10
23 36 0.88
24 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
TTTCAGCAACTAAACAATTCAAT
Found at i:18884954 original size:46 final size:46
Alignment explanation
Indices: 18884904--18884999 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 46
18884894 TTTCAGCAAC
* * *
18884904 TAAACAATTCAATTTTCAGTACTTAAAAACTTCAATTTACAACATT
1 TAAACAATTCAATTTGCAGCACTTAAAAACTTCAATTTACAACATG
* * * * *
18884950 TAAACACTTCAATTTGCAGCACTTTAACACTTTAATTTGCAACATG
1 TAAACAATTCAATTTGCAGCACTTAAAAACTTCAATTTACAACATG
18884996 TAAA
1 TAAA
18885000 AATAAAATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (46 bp):
TAAACAATTCAATTTGCAGCACTTAAAAACTTCAATTTACAACATG
Found at i:18884978 original size:23 final size:23
Alignment explanation
Indices: 18884906--18884990 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
18884896 TCAGCAACTA
* * * *
18884906 AACAATTCAATTTTCAGTACTTA
1 AACACTTCAATTTGCAGCACTTT
* * *
18884929 AAAACTTCAATTTACAACA-TTT
1 AACACTTCAATTTGCAGCACTTT
18884951 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTGCAGCACTTT
*
18884975 AACACTTTAATTTGCA
1 AACACTTCAATTTGCA
18884991 ACATGTAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 2 0.04
23 45 0.90
24 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (23 bp):
AACACTTCAATTTGCAGCACTTT
Found at i:18890210 original size:160 final size:158
Alignment explanation
Indices: 18889890--18890504 Score: 557
Period size: 160 Copynumber: 3.8 Consensus size: 158
18889880 CTTAAACACT
* * * * * * *
18889890 TCAATTTACAACATTTAAACACTTCAATTTACAACATTCAAACA-CTTCAATTTGCAGC-ATTGT
1 TCAATTAACAACATTTAAACACCTCAA-TTACAATATTAAAACATC-TCAATTTCCAGCAACT-A
* * ** * *
18889953 AACACTTCAATTTATAGCATTTAAATACTTCAATTTGTAGCACTTTAACA-TCTCAATTAACAAC
63 AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTTAACACT-TCAATTTACAGC
* * **
18890017 ATTTATACAGCTCAA-TTACAGCGA-TAAAACATC
126 ATTTAAACA-CTCAATTTACTGC-ACTTTAACATC
** * ** * * * * **
18890050 TCAATTTCCAGCAACTAAACACTTCAATTTACAATATTTAAGCA-CTTCAATTTACAGCATTTAA
1 TCAATTAACAACATTTAAACACCTCAA-TTACAATATTAAAACATC-TCAATTTCCAGCAACTAA
* * * *
18890114 GCAATTCAATTTATAGCATTT-AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCAT
64 ACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTACAGCAT
*
18890178 TTAAACACTGCAATTTGCTGCACTTTAACATC
128 TTAAACACT-CAATTTACTGCACTTTAACATC
* **
18890210 TCAATTAACAACATTTATACACCTCAATTACAGCGA-TAAAACATCTCAATTTCCAGCAACTAAA
1 TCAATTAACAACATTTAAACACCTCAATTACA-ATATTAAAACATCTCAATTTCCAGCAACTAAA
* * * * * *
18890274 CACTTCTATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAGCACTTCAATTTACAGCATT
65 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAA-CACTTCAATTTACAGCATT
* *
18890339 TAAACACTTCAATTTTCAT-CGCTTTAACATC
129 TAAACAC-TCAATTTAC-TGCACTTTAACATC
* * *
18890370 TCAATTAACAATATTTATACACCTCAATTAC-ATCAATAAAACATCTCAATTTCCAGCAACTAAA
1 TCAATTAACAACATTTAAACACCTCAATTACAAT-ATTAAAACATCTCAATTTCCAGCAACTAAA
* * *
18890434 CACTTCAATTTGCAGTATTTAAACACTTCAATTTATAGCATTTAAACACTTCAATTTACAGCATT
65 CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTT-AACACTTCAATTTACAGCATT
18890499 TAAACA
129 TAAACA
18890505 GCAGCAACCA
Statistics
Matches: 386, Mismatches: 55, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
158 2 0.01
159 92 0.24
160 286 0.74
161 6 0.02
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (158 bp):
TCAATTAACAACATTTAAACACCTCAATTACAATATTAAAACATCTCAATTTCCAGCAACTAAAC
ACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAACACTTCAATTTACAGCATTTA
AACACTCAATTTACTGCACTTTAACATC
Found at i:18890502 original size:23 final size:23
Alignment explanation
Indices: 18889760--18890504 Score: 507
Period size: 23 Copynumber: 32.6 Consensus size: 23
18889750 TAATTCTAAC
18889760 ACAGCACTTT-AACACTTCAATTT
1 ACAGCA-TTTAAACACTTCAATTT
* *
18889783 ACAACACTTT-AACA-TCTCAATTA
1 ACAGCA-TTTAAACACT-TCAATTT
* * *
18889806 ACAACATTTATACTCCTT-AA-TT
1 ACAGCATTTAAAC-ACTTCAATTT
*
18889828 ACAGCGA-TAAAACATCTT-AATTT
1 ACAGC-ATTTAAACA-CTTCAATTT
* ** *
18889851 CCAGCAACTAAACATTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
* * *
18889874 GCAGTACTTAAACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
*
18889897 ACAACATTTAAACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
* *
18889920 ACAACATTCAAACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
*
18889943 GCAGCATTGT-AACACTTCAATTT
1 ACAGCATT-TAAACACTTCAATTT
* *
18889966 ATAGCATTTAAATACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
** *
18889989 GTAGCACTTT-AACA-TCTCAATTA
1 ACAGCA-TTTAAACACT-TCAATTT
* *
18890012 ACAACATTTATACAGC-TCAA-TT
1 ACAGCATTTAAACA-CTTCAATTT
*
18890034 ACAGCGA-TAAAACA-TCTCAATTT
1 ACAGC-ATTTAAACACT-TCAATTT
* **
18890057 CCAGCAACTAAACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
** *
18890080 ACAATATTTAAGCACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
* *
18890103 ACAGCATTTAAGCAATTCAATTT
1 ACAGCATTTAAACACTTCAATTT
*
18890126 ATAGCATTT-AACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
*
18890148 GCAGCACTTT-AACACTTCAATTT
1 ACAGCA-TTTAAACACTTCAATTT
*
18890171 ACAGCATTTAAACACTGCAATTT
1 ACAGCATTTAAACACTTCAATTT
* * *
18890194 GCTGCACTTT-AACA-TCTCAATTA
1 ACAGCA-TTTAAACACT-TCAATTT
* * *
18890217 ACAACATTTATACACCTCAA-TT
1 ACAGCATTTAAACACTTCAATTT
*
18890239 ACAGCGA-TAAAACA-TCTCAATTT
1 ACAGC-ATTTAAACACT-TCAATTT
* ** *
18890262 CCAGCAACTAAACACTTCTATTT
1 ACAGCATTTAAACACTTCAATTT
* * * *
18890285 GCAGTACTTAAAAACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
* *
18890308 ACAACATTTAAGCACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
18890331 ACAGCATTTAAACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
* *
18890354 TCATCGC-TTT-AACA-TCTCAATTA
1 ACA--GCATTTAAACACT-TCAATTT
** * *
18890377 ACAATATTTATACACCTCAA-TT
1 ACAGCATTTAAACACTTCAATTT
* * *
18890399 ACATCAATAAAACA-TCTCAATTT
1 ACAGCATTTAAACACT-TCAATTT
* **
18890422 CCAGCAACTAAACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
* *
18890445 GCAGTATTTAAACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
*
18890468 ATAGCATTTAAACACTTCAATTT
1 ACAGCATTTAAACACTTCAATTT
18890491 ACAGCATTTAAACA
1 ACAGCATTTAAACA
18890505 GCAGCAACCA
Statistics
Matches: 563, Mismatches: 117, Indels: 84
0.74 0.15 0.11
Matches are distributed among these distances:
22 96 0.17
23 451 0.80
24 13 0.02
25 3 0.01
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (23 bp):
ACAGCATTTAAACACTTCAATTT
Found at i:18893312 original size:3 final size:3
Alignment explanation
Indices: 18893306--18893334 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18893296 TTTTTCTCTT
18893306 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18893335 TACTAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18893740 original size:21 final size:21
Alignment explanation
Indices: 18893716--18893778 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
18893706 GGGTTTTATG
*
18893716 GTTTAAAATTTAAGATTTAGA
1 GTTTAAGATTTAAGATTTAGA
* * *
18893737 GTTTAGGGTTTAAGGTTTAGA
1 GTTTAAGATTTAAGATTTAGA
*
18893758 GTTTTAAGATTTAGGATTTAG
1 G-TTTAAGATTTAAGATTTAG
18893779 GATTTTGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (21 bp):
GTTTAAGATTTAAGATTTAGA
Found at i:18893741 original size:14 final size:15
Alignment explanation
Indices: 18893717--18893783 Score: 52
Period size: 14 Copynumber: 4.7 Consensus size: 15
18893707 GGTTTTATGG
*
18893717 TTTAAAATTTA-AGA
1 TTTAAGATTTAGAGA
*
18893731 TTT-AGAGTTTAG-GG
1 TTTAAGA-TTTAGAGA
* *
18893745 TTTAAGGTTTAGAGT
1 TTTAAGATTTAGAGA
18893760 TTTAAGATTTAG-GA
1 TTTAAGATTTAGAGA
*
18893774 TTTAGGATTT
1 TTTAAGATTT
18893784 TGTATTTAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 2 0.05
14 26 0.62
15 14 0.33
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.46
Consensus pattern (15 bp):
TTTAAGATTTAGAGA
Found at i:18893742 original size:36 final size:37
Alignment explanation
Indices: 18893700--18893784 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 37
18893690 TAGTGTCTAT
*
18893700 AGTTTAGGGTTTTATGGTTTA-AAATTTAAGATTTAG
1 AGTTTAGGGTTTTAAGGTTTAGAAATTTAAGATTTAG
**
18893736 AGTTTAGGG-TTTAAGGTTTAGAGTTTTAAGATTTAG
1 AGTTTAGGGTTTTAAGGTTTAGAAATTTAAGATTTAG
*
18893772 -GATTTAGGATTTT
1 AG-TTTAGGGTTTT
18893785 GTATTTAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 11 0.26
36 28 0.67
37 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (37 bp):
AGTTTAGGGTTTTAAGGTTTAGAAATTTAAGATTTAG
Found at i:18894220 original size:40 final size:40
Alignment explanation
Indices: 18894130--18894421 Score: 372
Period size: 40 Copynumber: 7.3 Consensus size: 40
18894120 AATATTTTTT
* * *
18894130 GCGGTGTTTTTCAGAAAGCGCCGCTAATGCTCGAATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCG-ATCTATA
* * *
18894171 GCGGCGTTTTTTAAAAAGTGCTGCTAATGCTCTATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* *
18894211 GCGGTGTTTTTTAAAAAGCGCCGCTAATGCTCGATTTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
** *
18894251 -ATGCGTTTTTT-AAAAGCGCCGCTAATGCTCGACCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* *
18894289 GCGACGTTTTTTAAAAAGCGCCGCTAATACTCGATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
** * * *
18894329 GCGTTGTATTTTAAAAAGTGCTGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
*
18894369 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTTGATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* *
18894409 GTGGCATTTTTTA
1 GCGGCGTTTTTTA
18894422 TCCAAATGCC
Statistics
Matches: 214, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
38 25 0.12
39 16 0.07
40 146 0.68
41 27 0.13
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:18901451 original size:27 final size:29
Alignment explanation
Indices: 18901388--18901451 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
18901378 AAAAAATAAT
* *
18901388 ATAAATATATTATATGATATAATAGCTTA
1 ATAAATATATTATATGAAATAATAGCTAA
*
18901417 ATATATAT-TTATAT-AAATAATA-CTAA
1 ATAAATATATTATATGAAATAATAGCTAA
18901443 ATTAAATAT
1 A-TAAATAT
18901452 GTGTGAAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 4 0.13
27 13 0.43
28 6 0.20
29 7 0.23
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (29 bp):
ATAAATATATTATATGAAATAATAGCTAA
Found at i:18901647 original size:58 final size:57
Alignment explanation
Indices: 18901565--18901699 Score: 145
Period size: 56 Copynumber: 2.4 Consensus size: 57
18901555 ACAATTAACG
* * *
18901565 AATAATAAAATAATACAT--AATTTAT-AATAAAAATGTAAGGAATAATATATATAGTA-A
1 AATAATATAATAATA-ATAAAATTTATAAAT-AAAATGT-A-GAATAATATAAATAATATA
* *
18901622 AAT-ATATAATGTATAATAAAATTTATAAATAAAATGTATAATAATATAAATAATATA
1 AATAATATAAT-AATAATAAAATTTATAAATAAAATGTAGAATAATATAAATAATATA
18901679 AATAATATAATAATAATAAAA
1 AATAATATAATAATAATAAAA
18901700 ATAATTTGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
56 22 0.33
57 20 0.30
58 21 0.32
59 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (57 bp):
AATAATATAATAATAATAAAATTTATAAATAAAATGTAGAATAATATAAATAATATA
Found at i:18901648 original size:12 final size:12
Alignment explanation
Indices: 18901629--18901665 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
18901619 TAAAATATAT
18901629 AATGTATAATAA
1 AATGTATAATAA
*
18901641 AATTTATAAATAA
1 AATGTAT-AATAA
18901654 AATGTATAATAA
1 AATGTATAATAA
18901666 TATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:18901654 original size:13 final size:13
Alignment explanation
Indices: 18901629--18901662 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18901619 TAAAATATAT
18901629 AATGTAT-AATAA
1 AATGTATAAATAA
*
18901641 AATTTATAAATAA
1 AATGTATAAATAA
18901654 AATGTATAA
1 AATGTATAA
18901663 TAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:18901673 original size:9 final size:9
Alignment explanation
Indices: 18901661--18901702 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
18901651 TAAAATGTAT
18901661 AATAATATA
1 AATAATATA
18901670 AATAATATA
1 AATAATATA
18901679 AATAATAT-
1 AATAATATA
18901687 AATAATAATA
1 AATAAT-ATA
18901697 AA-AATA
1 AATAATA
18901703 ATTTGATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.23
9 22 0.71
10 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:18901701 original size:58 final size:58
Alignment explanation
Indices: 18901565--18901701 Score: 142
Period size: 58 Copynumber: 2.4 Consensus size: 58
18901555 ACAATTAACG
* * *
18901565 AATA-ATAA-AATAATACATAATTTATAATAAAAATGTAAGGAATAATATATATAGTAA
1 AATATATAATAATAATA-AAAATTTATAATAAAAATGTAAGGAATAATATAAATAATAA
* *
18901622 AATATATAATGTATAAT-AAAATTTATAA-ATAAAATGT-A-TAATAATATAAATAATATA
1 AATATATAAT-AATAATAAAAATTTATAATA-AAAATGTAAGGAATAATATAAATAATA-A
18901679 AATAATATAATAATAATAAAAAT
1 AAT-ATATAATAATAATAAAAAT
18901702 AATTTGATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
56 14 0.21
57 15 0.22
58 33 0.49
60 5 0.07
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (58 bp):
AATATATAATAATAATAAAAATTTATAATAAAAATGTAAGGAATAATATAAATAATAA
Found at i:18903340 original size:44 final size:44
Alignment explanation
Indices: 18903275--18904054 Score: 540
Period size: 44 Copynumber: 17.3 Consensus size: 44
18903265 CCCCACCAAC
* * *
18903275 ACAGAGACGTCAAATCAACTATCTTCGATCTACTCTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
*
18903319 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
* * * * * * *
18903363 ATAGAAATGCCAAATCTGCTATCTTCGATATGCTTTC-CATCAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGA-CAAT
*
18903407 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
* * * *
18903451 ACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGGCAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
*
18903495 ACAGAGACGCCAAATCTACTATCTTCGATCTGTTCTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
*
18903539 ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
* * *
18903583 ACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCTGTCAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
* * * * * * *
18903627 TCAGAGATGCCAGATGT-C-ATCTTCGATCTACTCTCTGTCACT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
* * * * ** *
18903669 ATAGAGATGCCAAATCTGCTATCTTTAGAGATGC-CAAATCT-ACTAT
1 ACAGAGACGCCAAATCTACTATC-TTCGATCTGCTC---TCTGACAAT
*** * ** * * **
18903715 -CTTCGATCTGTTCTCTGACAATATAGAGATGC--CAAATCTGCTATCTTTGATCTGCTCTCTT
1 ACAGAGA-C-G--C-C--A-AATCTA-CTAT-CTTC-GATCTGC--TC-----TCTG-AC-AAT
* ** *** * * * *
18903776 ACA-ATACAGAGAGGCCAAATCTGCTATCTTTGATCAGCTCTCTGACAAT
1 ACAGAGAC-GCCAAATCTACTAT-CT-TC---GATCTGCTCTCTGACAAT
* * * *
18903825 ACAGAGATGCCAAATCTGCTATCTTGGATCTACTCTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
* *
18903869 ACAAAGACACCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
* * * *
18903913 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGTCAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
* * * *
18903957 ACAGAGATG-CAAGATGT-C-ATCTTCAATCTGCTCTCTGTCAAT
1 ACAGAGACGCCAA-ATCTACTATCTTCGATCTGCTCTCTGACAAT
* * *
18903999 ACAGAGACGCCAAATCTACTATCTTCAATCTGTTTTCTGACAAT
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
18904043 ACAGAGACGCCA
1 ACAGAGACGCCA
18904055 GATGTCACCG
Statistics
Matches: 578, Mismatches: 120, Indels: 76
0.75 0.16 0.10
Matches are distributed among these distances:
42 67 0.12
43 11 0.02
44 427 0.74
45 9 0.02
46 2 0.00
47 5 0.01
48 2 0.00
49 10 0.02
50 4 0.01
51 4 0.01
52 1 0.00
53 12 0.02
54 3 0.01
55 2 0.00
56 4 0.01
58 9 0.02
60 3 0.01
61 2 0.00
62 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (44 bp):
ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
Found at i:18903517 original size:132 final size:131
Alignment explanation
Indices: 18903275--18904054 Score: 617
Period size: 132 Copynumber: 5.8 Consensus size: 131
18903265 CCCCACCAAC
* * * *
18903275 ACAGAGACGTCAAATCAACTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTA
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * *
18903340 TCTTCGATCTGCTCTCTAACAATATAGAAATGCCAAATCTGCTATCTTCGATATGCTTTCCATCA
66 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCT-CTATCTTCGATCTGCTTTCCATCA
18903405 AT
130 AT
* *
18903407 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTA
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * *
18903472 TCTTTGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTACTATCTTCGATCTG-TTCTCTGA-
66 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCT-CTATCTTCGATCTGCTT-TC-CAT
18903535 CAAT
128 CAAT
*
18903539 ACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * * * * * ** *
18903604 TCCTCGATCTGCTCTCTGTCAATTCAGAGATGCCAGATGTC-ATCTTCGATCTACTCTCTGTCAC
66 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTCTATCTTCGATCTGCTTTCCATCAA
18903668 T
131 T
* * * * ** * ***
18903669 ATAGAGATGCCAAATCTGCTATCTTTAGAGATGC-CAAATCT-ACTAT-CTTCGATCTGTTCTCT
1 ACAGAGACGCCAAATCTACTATC-TTCGATCTGCTC---TCTGACAATACAGAGA-C-G--C-C-
* ** * *
18903731 GACAATATAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTTACAATACAGAGAGGCCAAAT
56 -A-AATCT-GCTAT--C---T-T-----C---GATCTGCTCTCTGACAATACAGAGATGCCAAAT
* * * *
18903796 CTGCTATCTTTGATCAGCTCTCTGA-CAAT
104 CT-CTATCTTCGATCTGCTTTC-CATCAAT
* * * * * * *
18903825 ACAGAGATGCCAAATCTGCTATCTTGGATCTACTCTCTGACAATACAAAGACACCAAATCTACTA
1 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* *
18903890 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGTCA
66 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCT-CTATCTTCGATCTGCTTTCCATCA
18903955 AT
130 AT
* * * * *
18903957 ACAGAGATG-CAAGATGT-C-ATCTTCAATCTGCTCTCTGTCAATACAGAGACGCCAAATCTACT
1 ACAGAGACGCCAA-ATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
18904019 ATCTTCAATCTGTTTTCTGACAATACAGAGACGCCA
65 ATCTTCGATCTGCTCTCTGACAATACAGAGATGCCA
18904055 GATGTCACCG
Statistics
Matches: 522, Mismatches: 87, Indels: 80
0.76 0.13 0.12
Matches are distributed among these distances:
130 107 0.20
131 18 0.03
132 279 0.53
133 5 0.01
135 2 0.00
136 1 0.00
138 1 0.00
139 4 0.01
140 4 0.01
141 1 0.00
142 1 0.00
144 1 0.00
146 3 0.01
147 4 0.01
148 1 0.00
150 1 0.00
151 2 0.00
153 3 0.01
154 34 0.07
155 10 0.02
156 40 0.08
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (131 bp):
ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTCTATCTTCGATCTGCTTTCCATCAA
T
Found at i:18903697 original size:24 final size:24
Alignment explanation
Indices: 18903670--18903717 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
18903660 TCTGTCACTA
*
18903670 TAGAGATGCCAAATCTGCTATCTT
1 TAGAGATGCCAAATCTACTATCTT
18903694 TAGAGATGCCAAATCTACTATCTT
1 TAGAGATGCCAAATCTACTATCTT
18903718 CGATCTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (24 bp):
TAGAGATGCCAAATCTACTATCTT
Found at i:18903730 original size:68 final size:66
Alignment explanation
Indices: 18903629--18903762 Score: 196
Period size: 68 Copynumber: 2.0 Consensus size: 66
18903619 CTGTCAATTC
* * * *
18903629 AGAGATGCCAGATGTCATCTTCGATCTACTCTCTGTCACTATAGAGATGCCAAATCTGCTATCTT
1 AGAGATGCCAAATCTCATCTTCGATCTACTCTCTGACAATATAGAGATGCCAAATCTGCTATCTT
18903694 T
66 T
**
18903695 AGAGATGCCAAATCTACTATCTTCGATCTGTTCTCTGACAATATAGAGATGCCAAATCTGCTATC
1 AGAGATGCCAAATCT-C-ATCTTCGATCTACTCTCTGACAATATAGAGATGCCAAATCTGCTATC
18903760 TTT
64 TTT
18903763 GATCTGCTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 13 0.22
67 1 0.02
68 46 0.77
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (66 bp):
AGAGATGCCAAATCTCATCTTCGATCTACTCTCTGACAATATAGAGATGCCAAATCTGCTATCTT
T
Found at i:18903974 original size:330 final size:330
Alignment explanation
Indices: 18903364--18904023 Score: 1018
Period size: 330 Copynumber: 2.0 Consensus size: 330
18903354 TCTAACAATA
*
18903364 TAGAAATGCCAAATCTGCTATCTTCGATATGCTTTCCATCAATACAGAGATGCCAAATCTACTAT
1 TAGAAATGCCAAATCTACTATCTTCGATATGCTTTCCATCAATACAGAGATGCCAAATCTACTAT
* * *
18903429 CTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGGCAA
66 CTTCGATCTGCTCTCTGACAATACAGAGAGGCCAAATCTGCTATCTTTGATCAGCTCTCTGACAA
** * *
18903494 TACAGAGACGCCAAATCTACTATCTTCGATCTGTTCTCTGACAATACAGAGACGCCAAATCTACT
131 TACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAAAGACACCAAATCTACT
* *
18903559 ATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCTGTC
196 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCCGTC
* * * * * * *
18903624 AATTCAGAGATGCCAGATGTCATCTTCGATCTACTCTCTGTCACTATAGAGATGCCAAATCTGCT
261 AATACAGAGATGCAAGATGTCATCTTCAATCTACTCTCTGTCAATACAGAGACGCCAAATCTACT
18903689 ATCTT
326 ATCTT
* * * * *
18903694 TAGAGATGCCAAATCTACTATCTTCGATCTG-TTCTCTGA-CAATATAGAGATGCCAAATCTGCT
1 TAGAAATGCCAAATCTACTATCTTCGATATGCTT-TC-CATCAATACAGAGATGCCAAATCTACT
* *
18903757 ATCTTTGATCTGCTCTCTTACAATACAGAGAGGCCAAATCTGCTATCTTTGATCAGCTCTCTGAC
64 ATCTTCGATCTGCTCTCTGACAATACAGAGAGGCCAAATCTGCTATCTTTGATCAGCTCTCTGAC
* * *
18903822 AATACAGAGATGCCAAATCTGCTATCTTGGATCTACTCTCTGACAATACAAAGACACCAAATCTA
129 AATACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAAAGACACCAAATCTA
* *
18903887 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCG
194 CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCCG
*
18903952 TCAATACAGAGATGCAAGATGTCATCTTCAATCTGCTCTCTGTCAATACAGAGACGCCAAATCTA
259 TCAATACAGAGATGCAAGATGTCATCTTCAATCTACTCTCTGTCAATACAGAGACGCCAAATCTA
18904017 CTATCTT
324 CTATCTT
18904024 CAATCTGTTT
Statistics
Matches: 298, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
329 2 0.01
330 295 0.99
331 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (330 bp):
TAGAAATGCCAAATCTACTATCTTCGATATGCTTTCCATCAATACAGAGATGCCAAATCTACTAT
CTTCGATCTGCTCTCTGACAATACAGAGAGGCCAAATCTGCTATCTTTGATCAGCTCTCTGACAA
TACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTGACAATACAAAGACACCAAATCTACT
ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCCGTC
AATACAGAGATGCAAGATGTCATCTTCAATCTACTCTCTGTCAATACAGAGACGCCAAATCTACT
ATCTT
Found at i:18910290 original size:27 final size:29
Alignment explanation
Indices: 18910227--18910290 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
18910217 AAACAATAAT
*
18910227 ATAAATATATTATATGATATAATAGCTTA
1 ATAAATATATTATATGAAATAATAGCTTA
*
18910256 ATATATAT-TTATAT-AAATAATA-CTATA
1 ATAAATATATTATATGAAATAATAGCT-TA
*
18910283 TTAAATAT
1 ATAAATAT
18910291 GTGTGAAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.50
28 6 0.20
29 7 0.23
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
ATAAATATATTATATGAAATAATAGCTTA
Found at i:18910487 original size:12 final size:12
Alignment explanation
Indices: 18910468--18910504 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
18910458 TAAAATATAT
18910468 AATGTATAATAA
1 AATGTATAATAA
*
18910480 AATTTATAAATAA
1 AATGTAT-AATAA
18910493 AATGTATAATAA
1 AATGTATAATAA
18910505 TATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:18910493 original size:13 final size:13
Alignment explanation
Indices: 18910468--18910501 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18910458 TAAAATATAT
18910468 AATGTAT-AATAA
1 AATGTATAAATAA
*
18910480 AATTTATAAATAA
1 AATGTATAAATAA
18910493 AATGTATAA
1 AATGTATAA
18910502 TAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:18910513 original size:25 final size:26
Alignment explanation
Indices: 18910461--18910518 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
18910451 TATATAGTAA
* **
18910461 AATATATAATGTATAATAAAATTTAT
1 AATATAAAATGTATAATAAAATAAAT
*
18910487 AA-ATAAAATGTATAATAATATAAAT
1 AATATAAAATGTATAATAAAATAAAT
18910512 AATATAA
1 AATATAA
18910519 TAATAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (26 bp):
AATATAAAATGTATAATAAAATAAAT
Found at i:18910517 original size:17 final size:17
Alignment explanation
Indices: 18910497--18910532 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
18910487 AAATAAAATG
18910497 TATAATAAT-ATAAATAA
1 TATAATAATAATAAA-AA
18910514 TATAATAATAATAAAAA
1 TATAATAATAATAAAAA
18910531 TA
1 TA
18910533 ATTTGATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAATAATAATAAAAA
Found at i:18913216 original size:31 final size:29
Alignment explanation
Indices: 18913159--18913229 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 29
18913149 TTTTTTAAAT
18913159 ATGTATAATAAAATTAAAATTAAAATTTC
1 ATGTATAATAAAATTAAAATTAAAATTTC
* *
18913188 ATGTATACATATAAATTATAATTTAAATTTC
1 ATGTATA-ATA-AAATTAAAATTAAAATTTC
18913219 AAATGTATAAT
1 --ATGTATAAT
18913230 TACACCAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 7 0.19
30 3 0.08
31 17 0.47
32 2 0.06
33 7 0.19
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (29 bp):
ATGTATAATAAAATTAAAATTAAAATTTC
Found at i:18924409 original size:8 final size:8
Alignment explanation
Indices: 18924396--18924427 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
18924386 TTTTAAATTG
18924396 AATAAAAT
1 AATAAAAT
18924404 AATAAAAT
1 AATAAAAT
18924412 AATAAAAT
1 AATAAAAT
18924420 AATAAAAT
1 AATAAAAT
18924428 GAACATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAAAAT
Found at i:18928263 original size:47 final size:47
Alignment explanation
Indices: 18928203--18928304 Score: 143
Period size: 47 Copynumber: 2.2 Consensus size: 47
18928193 CTATTTGGCC
* *
18928203 TTTGTGGCGTATTCTGTATGTTGCCTTTGTGGCA-TACTCTGATAGCA
1 TTTGTGGCATATTCTGTATGTTGCCTTTGTGG-AGTACTCTAATAGCA
** *
18928250 TTTGTGGCATATTCTGTATGTTTTCTTTGTGGAGTACTCTAATAGCC
1 TTTGTGGCATATTCTGTATGTTGCCTTTGTGGAGTACTCTAATAGCA
18928297 TTTGTGGC
1 TTTGTGGC
18928305 GTATCTATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 1 0.02
47 48 0.98
ACGTcount: A:0.15, C:0.16, G:0.25, T:0.45
Consensus pattern (47 bp):
TTTGTGGCATATTCTGTATGTTGCCTTTGTGGAGTACTCTAATAGCA
Found at i:18928320 original size:21 final size:21
Alignment explanation
Indices: 18928274--18928330 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
18928264 TGTATGTTTT
*
18928274 CTTTGTGGAGTACTCTAATAGC
1 CTTTGTGGCGTA-TCTAATAGC
*
18928296 CTTTGTGGCGTATCTATTTAGC
1 CTTTGTGGCGTATCTA-ATAGC
*
18928318 TTTTGTGGCGTAT
1 CTTTGTGGCGTAT
18928331 TCTGATAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.44
Consensus pattern (21 bp):
CTTTGTGGCGTATCTAATAGC
Found at i:18932006 original size:18 final size:17
Alignment explanation
Indices: 18931980--18932013 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18931970 GAAAAAGGGG
*
18931980 TTAAGTTTCGATTGAATA
1 TTAAATTTCGA-TGAATA
18931998 TTAAATTTCGATGAAT
1 TTAAATTTCGATGAAT
18932014 GTATATGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (17 bp):
TTAAATTTCGATGAATA
Found at i:18934947 original size:77 final size:77
Alignment explanation
Indices: 18934820--18934974 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
18934810 CGGATGCGGT
*
18934820 TCACTTGACCGTTTTCTCAGGGATTGTCCCAAAAGAATTGAAAAGGAGATATTACCAGCTCTAAA
1 TCACTTGACCGTTTTCTCAGGGATTGTCCCAAAAGAATTGAAAAGGAGATATTAACAGCTCTAAA
18934885 GCCGAGCAATCC
66 GCCGAGCAATCC
18934897 TCACTTGACCGTTTTCTCAGGGATTGTCCCAAAAGAATTGAAAAGGAGATATTAACAGCTCTAAA
1 TCACTTGACCGTTTTCTCAGGGATTGTCCCAAAAGAATTGAAAAGGAGATATTAACAGCTCTAAA
*
18934962 GCCGATCAATCC
66 GCCGAGCAATCC
18934974 T
1 T
18934975 ATTGGGAGAG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (77 bp):
TCACTTGACCGTTTTCTCAGGGATTGTCCCAAAAGAATTGAAAAGGAGATATTAACAGCTCTAAA
GCCGAGCAATCC
Found at i:18945936 original size:46 final size:48
Alignment explanation
Indices: 18945886--18946008 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
18945876 TGTGCACTAG
18945886 TGTAAGATATGTTTGGGACATGCATCGGCCAC-A-AT-TTGAGAGCCAA
1 TGTAAGATATGTTTGGGACATGCATCGGCCACGAGATATTGA-AGCCAA
* * * * * *
18945932 TGTAAGATATGTCTGGGACATGCTTTGGCCTCGAGATATTTAAGCCAG
1 TGTAAGATATGTTTGGGACATGCATCGGCCACGAGATATTGAAGCCAA
*
18945980 TGTAAGACATGTTTGGGACATGCATCGGC
1 TGTAAGATATGTTTGGGACATGCATCGGC
18946009 ATTGAGACGA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 28 0.44
47 1 0.02
48 32 0.50
49 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
TGTAAGATATGTTTGGGACATGCATCGGCCACGAGATATTGAAGCCAA
Found at i:18946057 original size:94 final size:94
Alignment explanation
Indices: 18945884--18946064 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 94
18945874 TTTGTGCACT
* *** *
18945884 AGTGTAAGATATGTTTGGGACATGCATCGGCCACAATTTGAGAGCCAATGTAAGATATGTCTGGG
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCACAAGACGAGAGCCAATGTAAGACATGTCTGGG
* **
18945949 ACATGCTTTGGCCTCGAGATATTTAAGCC
66 ACATGCATCAGCCTCGAGATATTTAAGCC
** * *
18945978 AGTGTAAGACATGTTTGGGACATGCATCGG-CATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCA-CAAGACGAGAGCCAATGTAAGACATGTCTGG
*
18946042 GACATGCATCAGCCTCGCGATAT
65 GACATGCATCAGCCTCGAGATAT
18946065 ACAAGCTAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 2 0.03
94 71 0.97
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (94 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCACAAGACGAGAGCCAATGTAAGACATGTCTGGG
ACATGCATCAGCCTCGAGATATTTAAGCC
Found at i:18946091 original size:94 final size:94
Alignment explanation
Indices: 18945923--18946095 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 94
18945913 GCCACAATTT
* * ** ** *
18945923 GAGAGCCAATGTAAGATATGTCTGGGACATGCTTTGGCCTCGAGATATTTAAGCCAGTGTAAGAC
1 GAGAGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCCAGTATAAGAC
*
18945988 ATGTTTGGGACATGCATCGGCATTGAGAC
66 ATGTCTGGGACATGCATCGGCATTGAGAC
* * * * *
18946017 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATATACAAGCTAGTATACGAC
1 GAGAGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCCAGTATAAGAC
*
18946082 CTGTCTGGGACATG
66 ATGTCTGGGACATG
18946096 GCGCCAGCTT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
94 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
GAGAGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCCAGTATAAGAC
ATGTCTGGGACATGCATCGGCATTGAGAC
Found at i:18946222 original size:49 final size:47
Alignment explanation
Indices: 18946020--18946225 Score: 120
Period size: 49 Copynumber: 4.3 Consensus size: 47
18946010 TTGAGACGAG
* *
18946020 AGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGCGATAT-ACA
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCAT-AGCC-CGCTATATGA-A
* * * * **
18946068 AGCTAGTATACGACCTGTCTGGGACATGGC---GCCAGCT-TGTTGCCT
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATAGCCCGCTAT-ATG-AA
* * * * * * * *
18946113 ATC-AGTGTCAGAACTGTCTCGGACATGGCATCGACACCGATAGATGAG
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATAG-C-CCGCTATATGAA
* *
18946161 AGCCAGTATAAGACCTGTCTGGGACATGGCATTAGCCTCGCTATATGAA
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCA-TAGCC-CGCTATATGAA
18946210 AGCTAGTGTAAGACCT
1 AGCTAGTGTAAGACCT
18946226 TGCACGTTAA
Statistics
Matches: 114, Mismatches: 31, Indels: 25
0.67 0.18 0.15
Matches are distributed among these distances:
43 1 0.01
44 24 0.21
45 5 0.04
47 1 0.01
48 28 0.25
49 53 0.46
50 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (47 bp):
AGCTAGTGTAAGACCTGTCTGGGACATGGCATAGCCCGCTATATGAA
Found at i:18946605 original size:22 final size:21
Alignment explanation
Indices: 18946580--18946627 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
18946570 AGCACGGCCA
*
18946580 TGTTATAATGACCATACGGGCG
1 TGTT-TAACGACCATACGGGCG
*
18946602 TGTTTCACGACCATACGGGCG
1 TGTTTAACGACCATACGGGCG
18946623 TGTTT
1 TGTTT
18946628 CCCTTCCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (21 bp):
TGTTTAACGACCATACGGGCG
Found at i:18946615 original size:21 final size:21
Alignment explanation
Indices: 18946589--18946628 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
18946579 ATGTTATAAT
18946589 GACCATACGGGCGTGTTTCAC
1 GACCATACGGGCGTGTTTCAC
18946610 GACCATACGGGCGTGTTTC
1 GACCATACGGGCGTGTTTC
18946629 CCTTCCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (21 bp):
GACCATACGGGCGTGTTTCAC
Found at i:18953002 original size:48 final size:46
Alignment explanation
Indices: 18952911--18953036 Score: 119
Period size: 48 Copynumber: 2.7 Consensus size: 46
18952901 ACCACAATAT
* * * * * *
18952911 GAGAGCCAGTGTAAGACATATCTAGGAAATGCTTCAGCCTTGAGATATT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCATTGAG---TC
* **
18952960 TA-AGCTAGTGTAAGACATGTCTGGGACATGCTTTGGCATTGAGTC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCATTGAGTC
* *
18953005 GAGATCTAGTGTAAGACATGTTTGGGACATGC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGC
18953037 ATGAACCTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
45 2 0.03
46 27 0.42
48 34 0.53
49 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCATTGAGTC
Found at i:18953163 original size:49 final size:49
Alignment explanation
Indices: 18953103--18953228 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
18953093 TGTTGTGTGT
* *
18953103 CAGTGTAAGACCTGCCTGGGACATGGCATC-GACACTGA-TAGATGAGAGC
1 CAGTGTAAGACCTGCCTGGGACATGGCATCAG-C-CTCACTAGATGAAAGC
*** *
18953152 CAGTGTAAGACCTGCCTAAAACATGGCATCAGCCTCACTATATGAAAGC
1 CAGTGTAAGACCTGCCTGGGACATGGCATCAGCCTCACTAGATGAAAGC
* *
18953201 TAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGCCTGGGACATGGC
18953229 GTCGGTATCT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 3 0.05
49 48 0.76
50 12 0.19
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGCCTGGGACATGGCATCAGCCTCACTAGATGAAAGC
Found at i:18954470 original size:20 final size:21
Alignment explanation
Indices: 18954431--18954470 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18954421 GTTATAATGA
**
18954431 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
18954452 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
18954471 ATTTTAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:18966988 original size:28 final size:28
Alignment explanation
Indices: 18966949--18967004 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
18966939 AGCTCTGAAC
18966949 TTTTCAGCCCTGTGTTTACGGATCTTAT
1 TTTTCAGCCCTGTGTTTACGGATCTTAT
18966977 TTTTCAGCCCTGTGTTTACGGATCTTAT
1 TTTTCAGCCCTGTGTTTACGGATCTTAT
18967005 CTACTGGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (28 bp):
TTTTCAGCCCTGTGTTTACGGATCTTAT
Found at i:18969308 original size:53 final size:54
Alignment explanation
Indices: 18969244--18969450 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 54
18969234 TTCCTTTTTA
* *
18969244 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
18969297 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * * * * *
18969351 TAGTTTATCAATGCTAGGTCTTGACATGTTATTACATGATTTCCTTGCCTTTTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
18969406 AACTTGCCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
18969451 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 36, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
53 47 0.41
54 33 0.28
55 36 0.31
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:18973919 original size:32 final size:32
Alignment explanation
Indices: 18973880--18973946 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
18973870 TATGACATTT
*
18973880 ATACAATTCACAACATAACATTTAATTCAAGC
1 ATACAATTCAAAACATAACATTTAATTCAAGC
**
18973912 ATACAATTCAAAATGTAACATTTAATTCAAGC
1 ATACAATTCAAAACATAACATTTAATTCAAGC
18973944 ATA
1 ATA
18973947 TAAACATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.18, G:0.04, T:0.30
Consensus pattern (32 bp):
ATACAATTCAAAACATAACATTTAATTCAAGC
Found at i:18976349 original size:32 final size:31
Alignment explanation
Indices: 18976272--18976353 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
18976262 CTTCCTGCAT
* * *
18976272 TAAAATCCAACCAAATACAAAAAATATAGTA
1 TAAAATACAACCAAAAACAAAAAATATAGCA
* * * *
18976303 TAAAATGCAGCCAAAAACAACAAATTTAGCA
1 TAAAATACAACCAAAAACAAAAAATATAGCA
18976334 TAAAAATACAACCAAAAACA
1 T-AAAATACAACCAAAAACA
18976354 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.62
32 16 0.38
ACGTcount: A:0.61, C:0.18, G:0.05, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAAAAAATATAGCA
Found at i:18976609 original size:21 final size:21
Alignment explanation
Indices: 18976585--18976679 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 21
18976575 TCTGCTGCCA
* *
18976585 TCGCTGCTTCCTCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
* *
18976606 TCGCT-CGTGCCTCTGCCTCTC
1 TCGCTGC-TGCCGCTGCCTCCC
* * *
18976627 TCACTGATGCCGCTACCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
*
18976648 TCGCTGCTGTCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
* *
18976669 TCTCTACTGCC
1 TCGCTGCTGCC
18976680 TCGGCCCTAA
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
20 1 0.02
21 57 0.98
ACGTcount: A:0.04, C:0.48, G:0.17, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCGCTGCCTCCC
Found at i:18977121 original size:13 final size:14
Alignment explanation
Indices: 18977096--18977124 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18977086 TGATGAATTG
18977096 AATTAAACAATTAT
1 AATTAAACAATTAT
18977110 AATTAAAC-ATTAT
1 AATTAAACAATTAT
18977123 AA
1 AA
18977125 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:18977313 original size:17 final size:19
Alignment explanation
Indices: 18977277--18977313 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18977267 ACAATATAGC
18977277 AGTAAAAATATTATTTAAT
1 AGTAAAAATATTATTTAAT
18977296 AGTAAAAAT-TTA-TTAAT
1 AGTAAAAATATTATTTAAT
18977313 A
1 A
18977314 TTTGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AGTAAAAATATTATTTAAT
Found at i:18982310 original size:43 final size:45
Alignment explanation
Indices: 18982262--18982409 Score: 167
Period size: 44 Copynumber: 3.4 Consensus size: 45
18982252 TTCGTAAGCT
* *
18982262 AGTTATGTAAATTATGATATCAAATATATTTAAGT-A-TTATGTA
1 AGTTATGTAAGTTATGATATCAAATATATTTAAGTAAGTTATATA
* * *
18982305 AGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATATA
1 AGTTATGTAAGTTATGATATCAAATATATTTAAGTAAGTTATATA
**** **
18982350 AGTTATGTAAGTTATG-TAAGTTATATATTTATCTAAGTTATATA
1 AGTTATGTAAGTTATGATATCAAATATATTTAAGTAAGTTATATA
*
18982394 AGTTATCTAAGTTATG
1 AGTTATGTAAGTTATG
18982410 TAAGTTATAT
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
43 31 0.33
44 41 0.44
45 22 0.23
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (45 bp):
AGTTATGTAAGTTATGATATCAAATATATTTAAGTAAGTTATATA
Found at i:18982312 original size:9 final size:9
Alignment explanation
Indices: 18982298--18982515 Score: 194
Period size: 9 Copynumber: 24.7 Consensus size: 9
18982288 TATTTAAGTA
18982298 TTATGTAAG
1 TTATGTAAG
18982307 TTATGTAAG
1 TTATGTAAG
*
18982316 TTATGATATG
1 TTATG-TAAG
* * *
18982326 ATATAT-AT
1 TTATGTAAG
18982334 TTATGTAAG
1 TTATGTAAG
*
18982343 TTATATAAG
1 TTATGTAAG
18982352 TTATGTAAG
1 TTATGTAAG
18982361 TTATGTAAG
1 TTATGTAAG
* *
18982370 TTATAT-AT
1 TTATGTAAG
*
18982378 TTATCTAAG
1 TTATGTAAG
*
18982387 TTATATAAG
1 TTATGTAAG
*
18982396 TTATCTAAG
1 TTATGTAAG
18982405 TTATGTAAG
1 TTATGTAAG
* *
18982414 TTATAT-AT
1 TTATGTAAG
*
18982422 TTATCTAAG
1 TTATGTAAG
18982431 TTATGTAAG
1 TTATGTAAG
* *
18982440 TTATAT-AT
1 TTATGTAAG
*
18982448 TTATCTAAG
1 TTATGTAAG
*
18982457 TTATATAAG
1 TTATGTAAG
* *
18982466 TTATAT-AT
1 TTATGTAAG
*
18982474 TTATCTAAG
1 TTATGTAAG
*
18982483 TTATATAAG
1 TTATGTAAG
18982492 TTATGTAAG
1 TTATGTAAG
*
18982501 TTTTGTAAG
1 TTATGTAAG
18982510 TTATGT
1 TTATGT
18982516 TAAATATTTA
Statistics
Matches: 169, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
8 28 0.17
9 135 0.80
10 6 0.04
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18982389 original size:44 final size:44
Alignment explanation
Indices: 18982298--18982513 Score: 270
Period size: 44 Copynumber: 4.7 Consensus size: 44
18982288 TATTTAAGTA
* * * *
18982298 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAG
1 TTATATAAGTTATGTAAGTTATG-TAAGTTATATATTTATCTAAG
18982343 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAG
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAG
*
18982387 TTATATAAGTTATCTAAGTTATGTAAGTTATATATTTATCTAAG
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAG
* * *
18982431 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATATATTTATCTAAG
1 ---T-T-A--TATA-AGTTATGTAAGTTATGTAAGTTATATATTTATCTAAG
*
18982483 TTATATAAGTTATGTAAGTTTTGTAAGTTAT
1 TTATATAAGTTATGTAAGTTATGTAAGTTAT
18982514 GTTAAATATT
Statistics
Matches: 152, Mismatches: 11, Indels: 17
0.84 0.06 0.09
Matches are distributed among these distances:
44 81 0.53
45 26 0.17
47 2 0.01
48 2 0.01
49 2 0.01
51 4 0.03
52 35 0.23
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (44 bp):
TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAG
Found at i:18982432 original size:26 final size:26
Alignment explanation
Indices: 18982343--18982495 Score: 200
Period size: 26 Copynumber: 5.8 Consensus size: 26
18982333 TTTATGTAAG
* * *
18982343 TTATATAAGTTATGTAAGTTATGTAAG
1 TTATCTAAGTTATGTAAGTTATAT-AT
* * * *
18982370 TTATAT-ATTTATCTAAGTTATATAAG
1 TTATCTAAGTTATGTAAGTTATAT-AT
18982396 TTATCTAAGTTATGTAAGTTATATAT
1 TTATCTAAGTTATGTAAGTTATATAT
18982422 TTATCTAAGTTATGTAAGTTATATAT
1 TTATCTAAGTTATGTAAGTTATATAT
*
18982448 TTATCTAAGTTATATAAGTTATATAT
1 TTATCTAAGTTATGTAAGTTATATAT
*
18982474 TTATCTAAGTTATATAAGTTAT
1 TTATCTAAGTTATGTAAGTTAT
18982496 GTAAGTTTTG
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
26 96 0.82
27 21 0.18
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (26 bp):
TTATCTAAGTTATGTAAGTTATATAT
Found at i:18982470 original size:52 final size:53
Alignment explanation
Indices: 18982387--18982513 Score: 193
Period size: 52 Copynumber: 2.4 Consensus size: 53
18982377 TTTATCTAAG
* *
18982387 TTATATAAGTTATCTAAGTTATGTAAGTTATATATTTATCTAAGTTATGTAAG
1 TTATATAAGTTATCTAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
*
18982440 TTATAT-ATTTATCTAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
1 TTATATAAGTTATCTAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
* * *
18982492 TTATGTAAGTTTTGTAAGTTAT
1 TTATATAAGTTATCTAAGTTAT
18982514 GTTAAATATT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 48 0.73
53 18 0.27
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (53 bp):
TTATATAAGTTATCTAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
Found at i:18982645 original size:15 final size:15
Alignment explanation
Indices: 18982625--18982680 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
18982615 GTAAGTTGCG
18982625 AATTAAATAATATTT
1 AATTAAATAATATTT
18982640 AATTAAATAATATTT
1 AATTAAATAATATTT
18982655 -A-TAAA-AATTATTTT
1 AATTAAATAA-TA-TTT
18982669 AATTAAATAATA
1 AATTAAATAATA
18982681 CTAAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAAATAATATTT
Found at i:18982688 original size:28 final size:29
Alignment explanation
Indices: 18982637--18982709 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 29
18982627 TTAAATAATA
* *
18982637 TTTAATTAAATAATATTTATAAAAATTAT
1 TTTAATTAAATAATATCTAAAAAAATTAT
18982666 TTTAATTAAATAATA-CTAAAAAAATTAT
1 TTTAATTAAATAATATCTAAAAAAATTAT
*
18982694 TTTAATTCAATAATAT
1 TTTAATTAAATAATAT
18982710 ACATGTCGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 25 0.62
29 15 0.38
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTAATTAAATAATATCTAAAAAAATTAT
Found at i:18984607 original size:26 final size:26
Alignment explanation
Indices: 18984571--18984680 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
18984561 TGATACAAAT
18984571 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18984597 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18984623 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18984649 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18984675 TGATAA
1 TGATAA
18984681 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:18986167 original size:28 final size:27
Alignment explanation
Indices: 18986122--18986197 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
18986112 AAAAGTAGCT
* * *
18986122 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTATG-ATGCA
* *
18986150 AAATTACTGTTATCCCCCTA-GGTGCA
1 AAATTACTGTTATACCCCTATGATGCA
*
18986176 AAATTACCGTTATACCCCTATG
1 AAATTACTGTTATACCCCTATG
18986198 GTTAATTTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 21 0.52
27 2 0.05
28 17 0.43
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (27 bp):
AAATTACTGTTATACCCCTATGATGCA
Found at i:18986341 original size:27 final size:27
Alignment explanation
Indices: 18986302--18986388 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
18986292 GGAAGCGTTA
*
18986302 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
18986329 TGGTGGCTCTGCCACATATATCTGCTC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
18986356 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTG-ATC
18986384 TGGTG
1 TGGTG
18986389 ACTTTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
27 45 0.87
28 7 0.13
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.33
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGATC
Found at i:18986402 original size:27 final size:26
Alignment explanation
Indices: 18986302--18986405 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
18986292 GGAAGCGTTA
* *
18986302 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
*
18986329 TGGTGGCTCTGCCACATATATCTGCTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
18986356 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTG-ATC
* * *
18986384 TGGTGACTTTGTCACATTATCT
1 TGGTGGCTCTGCCACATTATCT
18986406 ATTCTGGCAG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
26 1 0.01
27 50 0.75
28 16 0.24
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Found at i:18986405 original size:54 final size:54
Alignment explanation
Indices: 18986302--18986405 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
18986292 GGAAGCGTTA
*
18986302 TGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGCTC
1 TGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGCTC
* * * * *
18986356 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTTTGTCACAT-TATCT
1 TGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
18986406 ATTCTGGCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 26 0.60
55 17 0.40
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGCTC
Found at i:18988939 original size:41 final size:39
Alignment explanation
Indices: 18988894--18989067 Score: 140
Period size: 40 Copynumber: 4.3 Consensus size: 39
18988884 TAGCTCTACC
* *
18988894 TTTTGTGGCGTTTGGAACTAAAGCGCCACTATATCTCAGTT
1 TTTTGCGGCGTTTGGAA-TAAAACGCCACTAT-TCTCAGTT
** * *
18988935 TTTTGCGATGTTTTGAA-AAAACGCCACTATTTCTCAATT
1 TTTTGCGGCGTTTGGAATAAAACGCCACTA-TTCTCAGTT
*
18988974 TTTTGCGGCATTTTGG-ATGAAAACGCCACTATTACTCAGTT
1 TTTTGCGGC-GTTTGGAAT-AAAACGCCACTATT-CTCAGTT
** *
18989015 TTTAAC-GCGTTATGG-ATAAAAATGCCACTATTGCTCAGTT
1 TTTTGCGGCGTT-TGGAAT-AAAACGCCACTATT-CTCAGTT
*
18989055 TTTAGCGGCGTTT
1 TTTTGCGGCGTTT
18989068 TGTTTCAAAC
Statistics
Matches: 108, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
39 28 0.26
40 40 0.37
41 40 0.37
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (39 bp):
TTTTGCGGCGTTTGGAATAAAACGCCACTATTCTCAGTT
Found at i:18988970 original size:39 final size:40
Alignment explanation
Indices: 18988917--18989057 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
18988907 GGAACTAAAG
* *
18988917 CGCCACTATATCTCAGTTTTTTGCGATGTTTTGA-AAAAA
1 CGCCACTATTTCTCAGTTTTTTGCGATGTTTGGATAAAAA
* *
18988956 CGCCACTATTTCTCAATTTTTTGCGGCAT-TTTGGATGAAAA
1 CGCCACTATTTCTCAGTTTTTTGC-G-ATGTTTGGATAAAAA
* ** *
18988997 CGCCACTATTACTCAGTTTTTAACG-CGTTATGGATAAAAA
1 CGCCACTATTTCTCAGTTTTTTGCGATGTT-TGGATAAAAA
* *
18989037 TGCCACTATTGCTCAGTTTTT
1 CGCCACTATTTCTCAGTTTTT
18989058 AGCGGCGTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
39 24 0.28
40 35 0.41
41 26 0.31
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (40 bp):
CGCCACTATTTCTCAGTTTTTTGCGATGTTTGGATAAAAA
Found at i:18991478 original size:13 final size:12
Alignment explanation
Indices: 18991460--18991503 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
18991450 AATATATATT
18991460 AACCCAAGTACCC
1 AACCCAA-TACCC
18991473 AACCCAAT--CC
1 AACCCAATACCC
18991483 AACCCAATTACCC
1 AACCCAA-TACCC
18991496 AACCCAAT
1 AACCCAAT
18991504 CATAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 2 0.07
13 16 0.57
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.11
Consensus pattern (12 bp):
AACCCAATACCC
Found at i:18991494 original size:23 final size:23
Alignment explanation
Indices: 18991460--18991504 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
18991450 AATATATATT
18991460 AACCCAAGTACCCAACCCAATCC
1 AACCCAAGTACCCAACCCAATCC
*
18991483 AACCCAATTACCCAACCCAATC
1 AACCCAAGTACCCAACCCAATC
18991505 ATAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.47, G:0.02, T:0.11
Consensus pattern (23 bp):
AACCCAAGTACCCAACCCAATCC
Done.