Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 55 of 235
Found at i:18489045 original size:19 final size:18
Alignment explanation
Indices: 18489021--18489056 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18489011 CTTTCAACAA
18489021 AAATTTGGTTTCAAAAATC
1 AAATTT-GTTTCAAAAATC
*
18489040 AAATTTTTTTCAAAAAT
1 AAATTTGTTTCAAAAAT
18489057 ACCCTCTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (18 bp):
AAATTTGTTTCAAAAATC
Found at i:18490240 original size:26 final size:26
Alignment explanation
Indices: 18490211--18490261 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
18490201 CAACCTTAAC
* *
18490211 CCTAGGGGTATATCAGTAATTTTTCT
1 CCTAGGGGTAAATCAGTAAATTTTCT
*
18490237 CCTAGGGGTAAATCTGTAAATTTTC
1 CCTAGGGGTAAATCAGTAAATTTTC
18490262 CACCTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAAATTTTCT
Found at i:18490267 original size:27 final size:26
Alignment explanation
Indices: 18490211--18490267 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
18490201 CAACCTTAAC
* * *
18490211 CCTAGGGGTATATCAGTAATTTTTCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
18490237 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
18490264 CCTA
1 CCTA
18490268 TAAAGGTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:18492875 original size:23 final size:23
Alignment explanation
Indices: 18492849--18492898 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
18492839 TGTTAGGGCA
18492849 AAGAAAGCCATGAAAATGGTTTG
1 AAGAAAGCCATGAAAATGGTTTG
*
18492872 AAGAAAGCGATGAAAATGGTTTG
1 AAGAAAGCCATGAAAATGGTTTG
18492895 AAGA
1 AAGA
18492899 TTCAGCCAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.28, T:0.20
Consensus pattern (23 bp):
AAGAAAGCCATGAAAATGGTTTG
Found at i:18496702 original size:16 final size:17
Alignment explanation
Indices: 18496670--18496703 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18496660 CGGGATGGCG
18496670 TTTGTTTGATGTTTATT
1 TTTGTTTGATGTTTATT
*
18496687 TTTGTTT-ATTTTTATT
1 TTTGTTTGATGTTTATT
18496703 T
1 T
18496704 CATAAAATTT
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:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATGTTTATT
Found at i:18499214 original size:46 final size:46
Alignment explanation
Indices: 18499161--18499521 Score: 468
Period size: 46 Copynumber: 7.8 Consensus size: 46
18499151 TATTTGGGCA
*
18499161 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
18499207 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
18499253 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18499299 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
18499344 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18499392 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18499437 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18499485 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18499522 GCGGGTTACA
Statistics
Matches: 278, Mismatches: 19, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
42 4 0.01
43 10 0.04
45 6 0.02
46 181 0.65
47 58 0.21
48 6 0.02
50 9 0.03
51 4 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18499368 original size:47 final size:47
Alignment explanation
Indices: 18499299--18499467 Score: 240
Period size: 47 Copynumber: 3.6 Consensus size: 47
18499289 GATGCGAATG
18499299 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * *
18499346 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
18499392 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
18499439 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
18499468 ACTTATGGAT
Statistics
Matches: 107, Mismatches: 6, Indels: 18
0.82 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 29 0.27
47 58 0.54
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:18499408 original size:93 final size:93
Alignment explanation
Indices: 18499157--18499514 Score: 591
Period size: 93 Copynumber: 3.9 Consensus size: 93
18499147 AGGATATTTG
*
18499157 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
* *
18499222 TTGAGTCCGAGTTCGCTTATGGATGCGAA-T-
66 TTGAGTCCGAGTTCG-TGA--GATG-TAACTA
18499252 -G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
18499314 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
18499342 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
18499407 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
18499435 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
18499500 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
18499515 CTTATGGGCG
Statistics
Matches: 252, Mismatches: 6, Indels: 12
0.93 0.02 0.04
Matches are distributed among these distances:
88 2 0.01
89 5 0.02
91 3 0.01
92 75 0.30
93 166 0.66
94 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18499495 original size:139 final size:140
Alignment explanation
Indices: 18499157--18499521 Score: 489
Period size: 139 Copynumber: 2.6 Consensus size: 140
18499147 AGGATATTTG
* * *
18499157 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
18499222 TTGAGTCCGAGTTCGCTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66 TTGAGTCCGAGTTCGCTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA
18499287 TGGATGCGAAT
131 -GGATGCGAAT
* * *
18499298 -G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAACTCG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CCGAACTCG
*
18499356 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
61 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
* *
18499421 -GTGA-GATG-TAACT
126 ACTGAGGATGCGAA-T
*
18499434 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 -GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
18499499 GTTGAGTCCGAGTTCGCTTATGG
65 GTTGAGTCCGAGTTCGCTTATGG
18499522 GCGGGTTACA
Statistics
Matches: 195, Mismatches: 15, Indels: 30
0.81 0.06 0.12
Matches are distributed among these distances:
134 2 0.01
135 6 0.03
136 5 0.03
137 3 0.02
138 31 0.16
139 107 0.55
140 30 0.15
141 4 0.02
143 4 0.02
144 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (140 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGCTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA
GGATGCGAAT
Found at i:18502483 original size:15 final size:15
Alignment explanation
Indices: 18502465--18502506 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
18502455 ATCTTGGGTT
*
18502465 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
18502480 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
18502495 TCTTTATTCTGG
1 TCTTTATTCTGG
18502507 GCTTCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.55
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:18502512 original size:15 final size:15
Alignment explanation
Indices: 18502464--18502512 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
18502454 TATCTTGGGT
*
18502464 TTCTTTATCCTGGA-
1 TTCTTTATTCTGGAC
*
18502478 TCTCTTTATTCTGGAT
1 T-TCTTTATTCTGGAC
*
18502494 TTCTTTATTCTGGGC
1 TTCTTTATTCTGGAC
18502509 TTCT
1 TTCT
18502513 CAATCTTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.10, C:0.20, G:0.14, T:0.55
Consensus pattern (15 bp):
TTCTTTATTCTGGAC
Found at i:18504507 original size:46 final size:46
Alignment explanation
Indices: 18504457--18504632 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
18504447 TGGTTGAGCA
18504457 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18504503 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18504548 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
18504596 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18504633 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18504613 original size:93 final size:93
Alignment explanation
Indices: 18504454--18504624 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
18504444 GGATGGTTGA
* *
18504454 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18504519 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18504547 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18504612 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18504625 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18511962 original size:22 final size:21
Alignment explanation
Indices: 18511928--18511970 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18511918 GAATGATTTA
*
18511928 TGAGAATGGATGCTTTATGTT
1 TGAGAATGGATGCTATATGTT
*
18511949 TGAGAAATGTATGCTATATGTT
1 TGAG-AATGGATGCTATATGTT
18511971 GTGTAACAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.42
Consensus pattern (21 bp):
TGAGAATGGATGCTATATGTT
Found at i:18516513 original size:40 final size:40
Alignment explanation
Indices: 18516456--18516611 Score: 240
Period size: 40 Copynumber: 3.9 Consensus size: 40
18516446 TATTCGGATG
*
18516456 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
*
18516496 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
* * * *
18516536 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
* *
18516576 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
18516612 AGCTATATCC
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
Found at i:18516593 original size:80 final size:80
Alignment explanation
Indices: 18516460--18516623 Score: 285
Period size: 80 Copynumber: 2.0 Consensus size: 80
18516450 CGGATGATAA
* *
18516460 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTCG
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAACCGGGCTATGTCCCGAAGGCATTCG
*
18516525 TGCGAGTTA-CTATAT
66 AGCGAG-TAGCTATAT
18516540 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAACCGGGCTATGTCCCGAAGGCATTCG
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAACCGGGCTATGTCCCGAAGGCATTCG
18516605 AGCGAGTAGCTATAT
66 AGCGAGTAGCTATAT
18516620 CCGG
1 CCGG
18516624 TTAAATTCCG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 2 0.03
80 78 0.98
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAACCGGGCTATGTCCCGAAGGCATTCG
AGCGAGTAGCTATAT
Found at i:18521964 original size:15 final size:15
Alignment explanation
Indices: 18521944--18521974 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18521934 AAAATGAAAG
18521944 ATATGTGTTGGGTTA
1 ATATGTGTTGGGTTA
18521959 ATATGTGTTGGGTTA
1 ATATGTGTTGGGTTA
18521974 A
1 A
18521975 ATGAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (15 bp):
ATATGTGTTGGGTTA
Found at i:18522618 original size:42 final size:44
Alignment explanation
Indices: 18522503--18522640 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 44
18522493 GGTGTGATAT
* ** *
18522503 CGTGTAAG-ACCATGTTTGGGACATTGGCATCGACT-TGA-GATATA
1 CGTGTAAGAACCATGTCTAAGACATCGGCATCGA-TAT-ATGAT-TA
* *
18522547 CGTGTAAG-ACCATGTCTAGGACATCGGCATCG-TATATGATTT
1 CGTGTAAGAACCATGTCTAAGACATCGGCATCGATATATGATTA
* *
18522589 CGTGTAAGAACC-TTTCTAAGACAGT-GGCATCGATATTTGATTA
1 CGTGTAAGAACCATGTCTAAGACA-TCGGCATCGATATATGATTA
*
18522632 CATGTAAGA
1 CGTGTAAGA
18522641 CCACATCCGA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
42 27 0.34
43 24 0.30
44 29 0.36
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (44 bp):
CGTGTAAGAACCATGTCTAAGACATCGGCATCGATATATGATTA
Found at i:18535715 original size:15 final size:15
Alignment explanation
Indices: 18535696--18535735 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
18535686 ATGAGTCTTC
*
18535696 AAAAATAAATAGAAAT
1 AAAAATAAACA-AAAT
*
18535712 AAAAGTAAACAAAAT
1 AAAAATAAACAAAAT
18535727 AAAAATAAA
1 AAAAATAAA
18535736 ACGAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (15 bp):
AAAAATAAACAAAAT
Found at i:18543556 original size:41 final size:41
Alignment explanation
Indices: 18543505--18543601 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 41
18543495 TGGCATTACT
*
18543505 TGACAGCTTGTGTGAGCAGCATCATGTAGCTACATCTTGAC
1 TGACAGCTTGTGTGAGCAGCACCATGTAGCTACATCTTGAC
* * * **
18543546 TGACAGCTTGTGTGAGTAGCACCGTGTAGCTACATTTTGGT
1 TGACAGCTTGTGTGAGCAGCACCATGTAGCTACATCTTGAC
*
18543587 TGATAGCTTGTGTGA
1 TGACAGCTTGTGTGA
18543602 TCAGGCCCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCAGCACCATGTAGCTACATCTTGAC
Found at i:18552567 original size:40 final size:40
Alignment explanation
Indices: 18552473--18552697 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
18552463 TATTCGAATG
*
18552473 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
18552514 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
18552554 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
18552594 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
18552634 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
18552674 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
18552698 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:18552653 original size:80 final size:80
Alignment explanation
Indices: 18552473--18552733 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
18552463 TATTCGAATG
* * * *
18552473 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
18552538 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
18552554 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
18552619 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
18552634 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
18552699 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
18552713 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
18552734 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:18552687 original size:120 final size:120
Alignment explanation
Indices: 18552473--18552733 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
18552463 TATTCGAATG
* * *
18552473 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
18552538 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
18552594 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
18552657 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
18552713 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
18552734 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:18557056 original size:27 final size:27
Alignment explanation
Indices: 18557026--18557237 Score: 280
Period size: 27 Copynumber: 7.9 Consensus size: 27
18557016 CACTGCGATC
* *
18557026 AATGCCGTTGTAGGATAAAATGACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
*
18557053 AATGCCCATGTAGGGTAAAATGACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
* * *
18557080 AATGCCCCTGTAGGGTAAAATAATCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
* *
18557107 AATACCCTTGTAGGTTAAAATGACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
*
18557134 AATGCCCTTGTAGGGTAAAATAACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
* *
18557161 AATACCCTTGTAAGGTAAAATGACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
*
18557188 AATGCCCGTGTAGGGTAAAATGACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
* * * *
18557215 AATACCCCTATATGGTAAAATGA
1 AATGCCCTTGTAGGGTAAAATGA
18557238 TAATTATGCC
Statistics
Matches: 161, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
AATGCCCTTGTAGGGTAAAATGACCGT
Found at i:18566081 original size:13 final size:13
Alignment explanation
Indices: 18566063--18566091 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18566053 TTTAGTTTAA
18566063 TTAGTTAATTAGT
1 TTAGTTAATTAGT
18566076 TTAGTTAATTAGT
1 TTAGTTAATTAGT
18566089 TTA
1 TTA
18566092 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:18593899 original size:39 final size:40
Alignment explanation
Indices: 18593854--18594038 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
18593844 GCTCCTCGTT
* * *
18593854 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
18593894 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
18593933 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
18593973 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
18594014 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
18594039 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:18593954 original size:40 final size:39
Alignment explanation
Indices: 18593821--18594038 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
18593811 AAATCACGTA
* * **
18593821 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
18593860 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
18593899 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
18593939 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
18593979 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
18594019 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
18594039 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:18600884 original size:40 final size:40
Alignment explanation
Indices: 18600826--18600911 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
18600816 TTATTTGATG
*
18600826 TGGAATTGTATCCAGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCAGGCTTAAAGACCCGCAGGCTTAGTGC
* * *
18600866 TGGAATTTTATTCGGGCTTAAAGACCCGCAGGCTTAGTGC
1 TGGAATTGTATCCAGGCTTAAAGACCCGCAGGCTTAGTGC
18600906 TGGAAT
1 TGGAAT
18600912 GACATCCGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TGGAATTGTATCCAGGCTTAAAGACCCGCAGGCTTAGTGC
Found at i:18610572 original size:79 final size:81
Alignment explanation
Indices: 18610470--18610653 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
18610460 GCTCCTCGTT
* * *
18610470 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TTGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
18610532 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
18610550 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
18610614 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
18610630 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18610654 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:18610587 original size:39 final size:41
Alignment explanation
Indices: 18610470--18610653 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
18610460 GCTCCTCGTT
* * *
18610470 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
18610510 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
18610550 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
18610589 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
18610630 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18610654 CATCATTCAA
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 65 0.51
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:18614797 original size:27 final size:27
Alignment explanation
Indices: 18614767--18614944 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
18614757 ATATCGAGTC
* *
18614767 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
18614794 CGCACATTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
18614821 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
18614849 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18614876 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
18614903 AGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
18614930 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18614945 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18622853 original size:27 final size:27
Alignment explanation
Indices: 18622823--18623000 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
18622813 ATATCGAGTC
* * * *
18622823 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
18622850 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18622877 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18622905 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18622932 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18622959 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18622986 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18623001 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18622962 original size:82 final size:81
Alignment explanation
Indices: 18622844--18622999 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
18622834 TGCTATATAA
*
18622844 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18622909 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18622926 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18622990 CACTTAGTGC
65 CACTTAGTGC
18623000 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18623729 original size:73 final size:73
Alignment explanation
Indices: 18623642--18623787 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
18623632 CTTGGCCAAT
*
18623642 CAATACCAGATTTTTCTTAAAGTTTCCCCTGTTTCACTGTTTGACTATTCTGACCACTCTTCACT
1 CAATACCAGATTTTTCTTAAAGTTTCCCCTGTTTCACTGTTTGACTAATCTGACCACTCTTCACT
18623707 ACGAATCA
66 ACGAATCA
18623715 CAATACCAGATTTTTCTTAAAGTTTCCCCTGTTTCACTGTTTGACTAATCTGACCACTCTTCACT
1 CAATACCAGATTTTTCTTAAAGTTTCCCCTGTTTCACTGTTTGACTAATCTGACCACTCTTCACT
18623780 ACGAATCA
66 ACGAATCA
18623788 AATTTCTCAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (73 bp):
CAATACCAGATTTTTCTTAAAGTTTCCCCTGTTTCACTGTTTGACTAATCTGACCACTCTTCACT
ACGAATCA
Found at i:18633188 original size:39 final size:40
Alignment explanation
Indices: 18633071--18633254 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
18633061 GCTCCTCGTT
*
18633071 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
18633111 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
18633151 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
18633190 CAAATGCCTTC-GGATCTTAGTCTGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
18633231 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18633255 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 63 0.51
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:18633248 original size:79 final size:81
Alignment explanation
Indices: 18633071--18633254 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
18633061 GCTCCTCGTT
* *
18633071 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
18633135 GATTTAGTAACTCGCA
66 GATTTAGTAACTAGCA
**
18633151 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* *
18633212 TGGATATT-GTCACTTAGCA
64 CGGAT-TTAGTAAC-TAGCA
18633231 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18633255 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTAGCA
Found at i:18641059 original size:40 final size:40
Alignment explanation
Indices: 18641015--18641356 Score: 405
Period size: 40 Copynumber: 8.7 Consensus size: 40
18641005 GCTCCTCGTT
* *
18641015 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
18641055 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
18641095 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
18641134 CGAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
18641174 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
18641213 CGAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
18641253 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
18641292 CGAATACCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
18641333 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18641357 CATCATTCAA
Statistics
Matches: 259, Mismatches: 33, Indels: 21
0.83 0.11 0.07
Matches are distributed among these distances:
38 4 0.02
39 112 0.43
40 132 0.51
41 11 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18641115 original size:79 final size:79
Alignment explanation
Indices: 18641015--18641356 Score: 464
Period size: 79 Copynumber: 4.3 Consensus size: 79
18641005 GCTCCTCGTT
* * *
18641015 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACGAATGCCTTCGGGACTTAACCC
18641078 GGATTTAGTAACTCGCA
63 GGATTTAGTAACTCGCA
*
18641095 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACGAATGCCTTCGGGACTTAACCCGGA
18641160 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
**
18641174 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACGAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACGAATGCCTTCGGGA-CTTAACCCGG
18641238 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* **
18641253 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACGAATACCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACGAATGCCTTCGGGA-CTTAACCCGG
* *
18641317 ATATT-GTCACTTAGCA
65 AT-TTAGTAAC-TCGCA
18641333 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
18641357 CATCATTCAA
Statistics
Matches: 246, Mismatches: 10, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
78 14 0.06
79 211 0.86
80 21 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACGAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:18645182 original size:12 final size:12
Alignment explanation
Indices: 18645165--18645190 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18645155 ACAGGCTTGG
18645165 CATGGCCTAGCA
1 CATGGCCTAGCA
18645177 CATGGCCTAGCA
1 CATGGCCTAGCA
18645189 CA
1 CA
18645191 CGGGCATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.35, G:0.23, T:0.15
Consensus pattern (12 bp):
CATGGCCTAGCA
Found at i:18653823 original size:43 final size:44
Alignment explanation
Indices: 18653667--18653824 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 44
18653657 TTGTGTTGTT
* * * *
18653667 GTGTAAGACCACATCTGGAACATTGGCATCGACT-TATGATTTAT
1 GTGTAAGACCATATCTGGGACATTGGCATCGA-TATTTGATTTAA
* * * * *
18653711 GTGTAGGACTATGTCTGGGACATTGGCAACG-TATTTGATTTCA
1 GTGTAAGACCATATCTGGGACATTGGCATCGATATTTGATTTAA
* * *
18653754 -TGTAAGACCCTATCCGGGACAGTGGCATCGATATTTGA-TTAA
1 GTGTAAGACCATATCTGGGACATTGGCATCGATATTTGATTTAA
* * *
18653796 GTGTAAGACCATGTCTTGGACTTTGGCAT
1 GTGTAAGACCATATCTGGGACATTGGCAT
18653825 TGTATGAGCT
Statistics
Matches: 88, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 27 0.31
43 36 0.41
44 25 0.28
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
GTGTAAGACCATATCTGGGACATTGGCATCGATATTTGATTTAA
Found at i:18660887 original size:49 final size:49
Alignment explanation
Indices: 18660815--18661002 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
18660805 TGAGGTCACG
* *
18660815 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * * * *
18660864 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-TGGTCGCA
* * *
18660915 TGTGTAGTACCAAGTGCAGGCTACTATGTGTACCAAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
*
18660964 TGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
18661003 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 76 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:18660987 original size:100 final size:100
Alignment explanation
Indices: 18660810--18660997 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
18660800 TATTGTGAGG
* **
18660810 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
*
18660875 AAGTGCAGGCTACTATGCGTACCCGAAAACTATGA
66 AAGTGCAAGCTACTATGCGTACCCGAAAACTATGA
* *
18660910 TCACGTGTGTAGTACCAAGTGCAGGCTACTATGTGTACCAAATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
*
18660975 AAGTGCAAGCTACTATGTGTACC
66 AAGTGCAAGCTACTATGCGTACC
18660998 AGATAGCTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCGAAAACTATGA
Found at i:18663214 original size:46 final size:46
Alignment explanation
Indices: 18663147--18663318 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
18663137 AACCCACCCC
* *
18663147 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
*
18663193 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCA
* * *
18663241 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* *
18663286 TAGGTGAACTTGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
18663319 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 58 0.55
47 28 0.26
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:18663260 original size:93 final size:93
Alignment explanation
Indices: 18663152--18663322 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
18663142 ACCCCTAAGT
* *
18663152 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18663217 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
18663245 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18663310 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18663323 TCAACCGTCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18680167 original size:46 final size:46
Alignment explanation
Indices: 18680100--18680192 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
18680090 AAAGGAAGGA
*
18680100 AATGGGTGAAAGAAGCAAAGTCTTCATCCATGTTTCTTCCTAGCCG
1 AATGGGTGAAAGAAACAAAGTCTTCATCCATGTTTCTTCCTAGCCG
18680146 AATGGGTGAAAGAAACAAAGTCTTCATCCATGTTTCTTCCTAGCCG
1 AATGGGTGAAAGAAACAAAGTCTTCATCCATGTTTCTTCCTAGCCG
18680192 A
1 A
18680193 TTCTAAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (46 bp):
AATGGGTGAAAGAAACAAAGTCTTCATCCATGTTTCTTCCTAGCCG
Found at i:18681803 original size:40 final size:40
Alignment explanation
Indices: 18681685--18681808 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
18681675 CGGATGATAA
* * * *
18681685 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * *
18681725 CCGGGCTATGACCCGAAGACATTTATGCTAG-CGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
18681765 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
18681805 CCGG
1 CCGG
18681809 TTAAATCCCA
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:18688078 original size:13 final size:11
Alignment explanation
Indices: 18688051--18688075 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18688041 TTTATTTTCC
18688051 TTTAATATTAG
1 TTTAATATTAG
18688062 TTTAATATTAG
1 TTTAATATTAG
18688073 TTT
1 TTT
18688076 TTACAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTAATATTAG
Found at i:18706460 original size:27 final size:28
Alignment explanation
Indices: 18706323--18706473 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
18706313 GAGATTGGCG
* * * *
18706323 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
18706352 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
18706380 CTAAGTGTACGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
18706408 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
18706436 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
18706463 CTGAGTGTGCG
1 CTAAGTGTGCG
18706474 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 23 0.21
28 73 0.66
29 15 0.14
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:18711537 original size:24 final size:24
Alignment explanation
Indices: 18711510--18711556 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
18711500 ATATGTTGAC
18711510 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
18711534 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
18711557 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:18711590 original size:24 final size:24
Alignment explanation
Indices: 18711520--18711582 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
18711510 ATTCAAATCA
* * * *
18711520 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
18711544 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
18711568 GCACACATAGTGCCA
1 GCACACATAGTGCCA
18711583 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:18719332 original size:24 final size:24
Alignment explanation
Indices: 18719305--18719351 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18719295 ATATGTTGAC
18719305 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* * *
18719329 ATTCAACTCCGCCCACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
18719352 CATACTACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:18719409 original size:24 final size:24
Alignment explanation
Indices: 18719315--18719401 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
18719305 ATTCAAATCA
* * * *
18719315 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
*
18719339 GCCCACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
18719363 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
18719387 GCACACATAGTGCCA
1 GCACACATAGTGCCA
18719402 ATGTACACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.31, C:0.37, G:0.14, T:0.18
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:18725406 original size:42 final size:42
Alignment explanation
Indices: 18725337--18725453 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
18725327 CAACGCCAAC
*
18725337 GTCCCAGACGTGGTCTTACAT-ATAATCAAATATGATGCCACT
1 GTCCTAGACGTGGTCTTACATGA-AATCAAATATGATGCCACT
*
18725379 GT-CTCAGACAG-GGTCTTACATGAAATCAAATACGATGCCACT
1 GTCCT-AGAC-GTGGTCTTACATGAAATCAAATATGATGCCACT
* *
18725421 GTCCTAGACGTGGTCTTACACGAAATCACATAT
1 GTCCTAGACGTGGTCTTACATGAAATCAAATAT
18725454 TGAAATTCTA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
41 2 0.03
42 59 0.91
43 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCTAGACGTGGTCTTACATGAAATCAAATATGATGCCACT
Found at i:18727506 original size:30 final size:31
Alignment explanation
Indices: 18727449--18727506 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
18727439 TTACGAGCAT
*
18727449 AGGGGCAAAAGTGCAAAAATGTGAAAGTTTA
1 AGGGGCAAAAGTGCAAAAATGTAAAAGTTTA
* **
18727480 AGGGTCAAAA-TGCAAATTTGTAAAAGT
1 AGGGGCAAAAGTGCAAAAATGTAAAAGT
18727507 ATAATTTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 14 0.61
31 9 0.39
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (31 bp):
AGGGGCAAAAGTGCAAAAATGTAAAAGTTTA
Found at i:18727762 original size:18 final size:20
Alignment explanation
Indices: 18727726--18727772 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
18727716 AGTTGTAAGT
18727726 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
18727746 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
18727765 ATGATATA
1 AT-ATATA
18727773 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:18729385 original size:44 final size:45
Alignment explanation
Indices: 18729331--18729543 Score: 157
Period size: 47 Copynumber: 4.6 Consensus size: 45
18729321 TATGCGTGCT
18729331 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-GGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTGTAGGCC
* * * * *
18729375 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGT--AGGCC
* * * **
18729422 GATGCATGTCCCAGACATGTCTTACTCT-GGC-ACTCATAATATGGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACTC-T-GTA-GGCC
* * * * *
18729468 GAAGCATGCCCCAGACATGTCTTACACTAGACC-GCATCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAG-CCAAC-TCTGTAGGCC
*
18729514 GATGCCATGTCTCAGACATAGTCTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
18729544 GGCACACAAA
Statistics
Matches: 130, Mismatches: 27, Indels: 20
0.73 0.15 0.11
Matches are distributed among these distances:
43 5 0.04
44 29 0.22
45 4 0.03
46 33 0.25
47 44 0.34
48 13 0.10
49 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTAGGCC
Found at i:18730267 original size:12 final size:12
Alignment explanation
Indices: 18730250--18730275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18730240 CCAAAAATGT
18730250 GAAAATCATCAA
1 GAAAATCATCAA
18730262 GAAAATCATCAA
1 GAAAATCATCAA
18730274 GA
1 GA
18730276 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:18740482 original size:19 final size:19
Alignment explanation
Indices: 18740460--18740527 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
18740450 TCATATATTC
18740460 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
18740479 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
18740496 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
18740515 AAGATTGCATATC
1 AAGATTGCATATC
18740528 CTTAAAGATG
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.36
19 30 0.64
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:18740536 original size:36 final size:34
Alignment explanation
Indices: 18740460--18740527 Score: 111
Period size: 36 Copynumber: 2.0 Consensus size: 34
18740450 TCATATATTC
18740460 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCATATCTAAGATTG--TCATATCT
18740496 AAGATTGCATATCATATCTAAGATTG-CATATC
1 AAGATTGCATATCATATCTAAGATTGTCATATC
18740528 CTTAAAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 6 0.19
36 26 0.81
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (34 bp):
AAGATTGCATATCATATCTAAGATTGTCATATCT
Found at i:18744324 original size:100 final size:100
Alignment explanation
Indices: 18744210--18744403 Score: 352
Period size: 100 Copynumber: 1.9 Consensus size: 100
18744200 AATTTTATAT
18744210 TTATAGATTATGTTAATCGTGTAATTTATTTATTTTTAATTATTATCTTGAGTTTTTGGTAATTT
1 TTATAGATTATGTTAATCGTGTAATTTATTTATTTTTAATTATTATCTTGAGTTTTTGGTAATTT
* *
18744275 ATTTTTAATTTTTTAATAATATTTAGTTGTGTCAA
66 ATTTTTAAATTTTTAATAAAATTTAGTTGTGTCAA
* *
18744310 TTATAGATTATGTTAATTGTGTAATTTATTTATTTTTAATTATTATCTTGAGTTTTTGGTAGTTT
1 TTATAGATTATGTTAATCGTGTAATTTATTTATTTTTAATTATTATCTTGAGTTTTTGGTAATTT
18744375 ATTTTTAAATTTTTAATAAAATTTAGTTG
66 ATTTTTAAATTTTTAATAAAATTTAGTTG
18744404 AAAATTTTTT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.58
Consensus pattern (100 bp):
TTATAGATTATGTTAATCGTGTAATTTATTTATTTTTAATTATTATCTTGAGTTTTTGGTAATTT
ATTTTTAAATTTTTAATAAAATTTAGTTGTGTCAA
Found at i:18744608 original size:10 final size:9
Alignment explanation
Indices: 18744589--18744619 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
18744579 AATTTTTTTT
18744589 AATTTTAAA
1 AATTTTAAA
18744598 AATTTTAAA
1 AATTTTAAA
18744607 AATTTTATAA
1 AATTTTA-AA
18744617 AAT
1 AAT
18744620 AAAAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATTTTAAA
Found at i:18748766 original size:16 final size:18
Alignment explanation
Indices: 18748747--18748779 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
18748737 CATACTAAAT
18748747 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
18748763 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
18748780 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:18749350 original size:45 final size:45
Alignment explanation
Indices: 18749254--18749473 Score: 313
Period size: 45 Copynumber: 5.0 Consensus size: 45
18749244 TTTTATCAAA
* *
18749254 TCACCGGCAT-TTAGCCTGCTAGGGTCAAA-GCCCG-ATA-TCATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATT
* * * *
18749296 TCACCGGCATTATAGCCTGCTATGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
18749341 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGACTGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
18749386 TCACCGCCATCATAGCCTGCTAGGCTCAAAGACCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
18749431 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
18749474 CTGTACGATA
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
42 10 0.06
43 15 0.10
44 5 0.03
45 126 0.80
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
Found at i:18752899 original size:39 final size:40
Alignment explanation
Indices: 18752782--18753004 Score: 239
Period size: 39 Copynumber: 5.7 Consensus size: 40
18752772 GCTCCTCGTT
* **
18752782 CAAATGCCTTCGGGACATAGCCC-GTTTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
18752822 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18752862 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
18752901 CAAATTCCTTCGGG-CTTAGCTCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
18752940 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
18752981 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18753005 CATCATTCAA
Statistics
Matches: 161, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 86 0.53
40 61 0.38
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:18753945 original size:195 final size:195
Alignment explanation
Indices: 18753596--18753994 Score: 746
Period size: 195 Copynumber: 2.1 Consensus size: 195
18753586 TTCCATCAAT
*
18753596 TTAACAC-ATGCATTGCTCATTAACATGCAAAAGTTATATTCGGCCTTAGCACACAACTTGCTAG
1 TTAACACAAAGCATTGCTCATTAACATGCAAAAGTTATATTCGGCCTTAGCACACAACTTGCTAG
*
18753660 CCGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCTCACTCAAAAATGCTAAAAAGGAGGT
66 CCGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCTCACACAAAAATGCTAAAAAGGAGGT
*
18753725 TCAAGAATCATCAATCCACCATCACATGCATCATTAACAAGCTTCATATTTAGCATGCAATGGCA
131 TCAAGAATCATCAAGCCACCATCACATGCATCATTAACAAGCTTCATATTTAGCATGCAATGGCA
18753790 TTAACACAAAGCATTGCTCATTAACATGCAAAAGTTATATTCGGCCTTAGCACACAACTTGCTAG
1 TTAACACAAAGCATTGCTCATTAACATGCAAAAGTTATATTCGGCCTTAGCACACAACTTGCTAG
18753855 CCGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCTCACACAAAAATGCTAAAAAGGAGGT
66 CCGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCTCACACAAAAATGCTAAAAAGGAGGT
* *
18753920 TCAAGAATCATCAAGCCATCATCACATGCATCATTAACAAGCTTCATATTTTGCATGCAATGGCA
131 TCAAGAATCATCAAGCCACCATCACATGCATCATTAACAAGCTTCATATTTAGCATGCAATGGCA
18753985 TTAACACAAA
1 TTAACACAAA
18753995 CTCCACCTAG
Statistics
Matches: 199, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
194 7 0.04
195 192 0.96
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (195 bp):
TTAACACAAAGCATTGCTCATTAACATGCAAAAGTTATATTCGGCCTTAGCACACAACTTGCTAG
CCGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCTCACACAAAAATGCTAAAAAGGAGGT
TCAAGAATCATCAAGCCACCATCACATGCATCATTAACAAGCTTCATATTTAGCATGCAATGGCA
Found at i:18754900 original size:79 final size:79
Alignment explanation
Indices: 18754769--18754926 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
18754759 TCCCGAAACC
* *
18754769 ACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCGTCCCC
1 ACTTCCCGACTAGGGGCAACTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCGTCCCC
18754834 GAAAATCTTACCGG
66 GAAAATCTTACCGG
18754848 ACTTCCCGACTAGGGGCAACTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCGTCCCC
1 ACTTCCCGACTAGGGGCAACTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCGTCCCC
18754913 GAAAATCTTACCGG
66 GAAAATCTTACCGG
18754927 TAAATAGGTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (79 bp):
ACTTCCCGACTAGGGGCAACTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCGTCCCC
GAAAATCTTACCGG
Found at i:18760656 original size:29 final size:29
Alignment explanation
Indices: 18760593--18760697 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
18760583 NNNNNATACC
* * *
18760593 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
18760621 T-TCATATGGCCCATCAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
18760650 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
18760679 TTTATATGGCTCGTTAGGC
1 TGTATATGGCCCATTAGGC
18760698 TCTTTTTCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.02
28 16 0.25
29 46 0.72
30 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:18764767 original size:8 final size:8
Alignment explanation
Indices: 18764731--18764785 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
18764721 ACTTTAGGCT
*
18764731 TTTCGACA
1 TTTCGGCA
* *
18764739 TTTCGTCT
1 TTTCGGCA
*
18764747 TTTCAGCA
1 TTTCGGCA
18764755 TTTCGGCA
1 TTTCGGCA
*
18764763 TTTCGTCA
1 TTTCGGCA
*
18764771 TTGCGGCA
1 TTTCGGCA
18764779 TTTCGGC
1 TTTCGGC
18764786 TTTTGTCAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (8 bp):
TTTCGGCA
Found at i:18764784 original size:24 final size:24
Alignment explanation
Indices: 18764731--18764793 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
18764721 ACTTTAGGCT
* * *
18764731 TTTCGACATTTCGTCTTTTCAGCA
1 TTTCGGCATTTCGTCATTGCAGCA
*
18764755 TTTCGGCATTTCGTCATTGCGGCA
1 TTTCGGCATTTCGTCATTGCAGCA
*
18764779 TTTCGGC-TTTTGTCA
1 TTTCGGCATTTCGTCA
18764794 ATCTACTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 7 0.21
24 27 0.79
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (24 bp):
TTTCGGCATTTCGTCATTGCAGCA
Found at i:18768700 original size:29 final size:28
Alignment explanation
Indices: 18768643--18768728 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
18768633 TACCTTTATG
* * *
18768643 TGGCCCATTAAGCCTAATCATATTCATA
1 TGGCCCATTAGGCCAAATCACATTCATA
*
18768671 TGGCCCATTAGGCACAAATCACATTGATA
1 TGGCCCATTAGGC-CAAATCACATTCATA
* * *
18768700 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCAAATCACATTCATA
18768728 T
1 T
18768729 TCATGCTCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.51
29 24 0.49
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCAAATCACATTCATA
Found at i:18768809 original size:17 final size:17
Alignment explanation
Indices: 18768787--18768827 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
18768777 TGCCTATTAT
18768787 GGGCCCAACTGCCCATC
1 GGGCCCAACTGCCCATC
18768804 GGGCCCAACTGCCCATC
1 GGGCCCAACTGCCCATC
18768821 GGGCCCA
1 GGGCCCA
18768828 TTTAGCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.46, G:0.27, T:0.10
Consensus pattern (17 bp):
GGGCCCAACTGCCCATC
Found at i:18771087 original size:48 final size:48
Alignment explanation
Indices: 18771016--18771297 Score: 200
Period size: 48 Copynumber: 5.9 Consensus size: 48
18771006 AGGGTGAATT
* * * *
18771016 GCTGATGCCATGTTCCAAACATGGTCTTATATTGGCTCACATGTCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
* * * * *
18771064 GCTGATGCCATGTCCCAGACATGGTCTTACGCTAGCT--CTTGTCTCATT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTC-GA-G
* * *
18771112 ACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATG-TCGAG
* * * * *
18771160 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-TGCACATATC-AA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATGTCGAG
** * * * ***
18771207 TATCGATGCCACGTCCCAGACATGGTCTTACATTGGCTCTCACAAC-A-
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
* * *
18771254 TCGTAGATGCCATGTCCCAGACTTGGTCTTACACTGGCACACAT
1 GC-T-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
18771298 ATAACCTAAA
Statistics
Matches: 182, Mismatches: 42, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
46 5 0.03
47 4 0.02
48 168 0.92
49 1 0.01
50 3 0.02
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
Found at i:18771182 original size:96 final size:96
Alignment explanation
Indices: 18771017--18771248 Score: 281
Period size: 96 Copynumber: 2.4 Consensus size: 96
18771007 GGGTGAATTG
* * * * * *
18771017 CTGATGCCATGTTCCAAACATGGTCTTATATTGGCTCACATGTCGAGGCTGATGCCATGTCCCAG
1 CTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGTCGAGGCCGATGCCATGTCCCAA
* *** * *
18771082 ACATGGTCTTACGCTAGCT-CTTGTCTCATTA
66 ACATGGTCTTACACTAG-TGCACATATCAATA
* *
18771113 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCCCA
1 CTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATG-TCGAGGCCGATGCCATGTCCCA
18771177 AACATGGTCTTACACTAGTGCACATATCAATA
65 AACATGGTCTTACACTAGTGCACATATCAATA
*
18771209 -TCGATGCCACGTCCCAGACATGGTCTTACATTGGCTCTCA
1 CT-GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCA
18771249 CAACATCGTA
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
95 2 0.02
96 114 0.97
97 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (96 bp):
CTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGTCGAGGCCGATGCCATGTCCCAA
ACATGGTCTTACACTAGTGCACATATCAATA
Found at i:18771263 original size:96 final size:96
Alignment explanation
Indices: 18771067--18771299 Score: 263
Period size: 96 Copynumber: 2.4 Consensus size: 96
18771057 TGTCGAGGCT
* *** * * *
18771067 GATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTTGTCTCATTACTGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATACTGATGCCACGTCCCAGAC
** ** * *
18771132 ATGGTCTTACACTGGCTCTCATGATGTGGCC
66 ATGGTCTTACACTGGCTCTCACAACATCGCA
*
18771163 GATGCCATGTCCCAAACATGGTCTTACACTAG-TGCACATATCAATA-TCGATGCCACGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAATACT-GATGCCACGTCCCAG
* *
18771226 ACATGGTCTTACATTGGCTCTCACAACATCGTA
64 ACATGGTCTTACACTGGCTCTCACAACATCGCA
* * *
18771259 GATGCCATGTCCCAGACTTGGTCTTACACTGGCACACATAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT
18771300 AACCTAAATG
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
95 2 0.02
96 112 0.98
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATACTGATGCCACGTCCCAGAC
ATGGTCTTACACTGGCTCTCACAACATCGCA
Found at i:18772135 original size:17 final size:17
Alignment explanation
Indices: 18772113--18772156 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
18772103 TGCATAAGCA
18772113 TATATCATTCATTTCAT-
1 TATATCATT-ATTTCATC
*
18772130 TATATCAATATTTCATGC
1 TATATCATTATTTCAT-C
18772148 TATATCATT
1 TATATCATT
18772157 TCCATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (17 bp):
TATATCATTATTTCATC
Found at i:18772599 original size:137 final size:138
Alignment explanation
Indices: 18772361--18772623 Score: 379
Period size: 137 Copynumber: 1.9 Consensus size: 138
18772351 TTATCTTTGA
* * * * * *
18772361 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTCTATCAAGTTGCCATGGTATCTT
*
18772426 TCAACCATGGTCTTATCCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTA
66 TCAACCATGGTCTTATCCATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTA
18772491 TTTCCCGT
131 TTTCCCGT
* *
18772499 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAAG-TGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTC-TATCAAGTTGCCATGGTATCT
* * *
18772562 TTCAACCATGGTCTTA-CACGTTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
65 TTCAACCATGGTCTTATC-CATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTA
18772624 CACATTTCAT
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
136 1 0.01
137 73 0.66
138 37 0.33
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (138 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTCTATCAAGTTGCCATGGTATCTT
TCAACCATGGTCTTATCCATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTA
TTTCCCGT
Found at i:18772605 original size:91 final size:91
Alignment explanation
Indices: 18772366--18772637 Score: 377
Period size: 91 Copynumber: 3.0 Consensus size: 91
18772356 TTTGACATGA
* * *
18772366 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
18772431 CATGGTCTTATC-CATTTCATGTCACGC
65 CATGGTCTTA-CACATTTCATATCAAGC
* * *
18772458 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CTGTCATGTTGCCATGGTATCTTTCAAC
*
18772523 CATGGTCTTACACGTTTCATATCAAG-
65 CATGGTCTTACACATTTCATATCAAGC
* * * *
18772549 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TGTCATGTTGCCATGGTATCTTTCAAC
18772614 CATGGTCTTACACATTTCATATCA
65 CATGGTCTTACACATTTCATATCA
18772638 GAGAGCACAC
Statistics
Matches: 160, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
90 1 0.01
91 83 0.52
92 76 0.47
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTGTCATGTTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATATCAAGC
Found at i:18772632 original size:46 final size:46
Alignment explanation
Indices: 18772366--18772638 Score: 336
Period size: 46 Copynumber: 6.0 Consensus size: 46
18772356 TTTGACATGA
* * * * * *
18772366 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * *
18772412 TGCCATGGTATCTTTCAACCATGGTCTTATC-CATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTA-CACATTTCATATCAGGT
*** *** *
18772458 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
18772504 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAAG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
18772549 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18772595 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
18772639 AGAGCACACT
Statistics
Matches: 202, Mismatches: 21, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
45 48 0.24
46 153 0.76
47 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:18774817 original size:18 final size:20
Alignment explanation
Indices: 18774802--18774838 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18774792 TAATAATAAA
*
18774802 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
18774822 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
18774839 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:18790165 original size:62 final size:64
Alignment explanation
Indices: 18790046--18790168 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 64
18790036 TGATTAAATT
*
18790046 ATAGAAATATATTTACTTCACTCTGTCTTATACTTACTTACAAAAATTGATTAAATTAATTCAGC
1 ATAGAAATATATTTACTTCACCCTGTCTTATACTTAC-TACAAAAATTGATTAAATTAATTCAGC
* * *
18790111 ATAGGAATATTTTTACTTCACCCTGTCTTATACATT-C-AC-TAAATTGATTAAATTAATT
1 ATAGAAATATATTTACTTCACCCTGTCTTATAC-TTACTACAAAAATTGATTAAATTAATT
18790169 TAGTATGTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
62 18 0.34
63 2 0.04
65 31 0.58
66 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (64 bp):
ATAGAAATATATTTACTTCACCCTGTCTTATACTTACTACAAAAATTGATTAAATTAATTCAGC
Found at i:18799353 original size:44 final size:43
Alignment explanation
Indices: 18799297--18799443 Score: 156
Period size: 42 Copynumber: 3.4 Consensus size: 43
18799287 AATTATCGTA
* *
18799297 TAAGACCGTGTCTGGGACACTGGCATCGATTTGAAATTTACGTG
1 TAAGACCATGTCTGGGACACTGGCATCGATCTG-AATTTACGTG
* * * *
18799341 TAAGACCATGTCTTGGACATTGGCATCGTATCTG--TTTTCGTA
1 TAAGACCATGTCTGGGACACTGGCATCG-ATCTGAATTTACGTG
* ** *
18799383 TAAGACCTTGTCTGGGACAGAGGCATCGATACTGAA-TTACATG
1 TAAGACCATGTCTGGGACACTGGCATCGAT-CTGAATTTACGTG
18799426 TAAGACCATGTCTGGGAC
1 TAAGACCATGTCTGGGAC
18799444 GTCTGCATTG
Statistics
Matches: 85, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 33 0.39
43 21 0.25
44 25 0.29
45 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACACTGGCATCGATCTGAATTTACGTG
Found at i:18799916 original size:12 final size:13
Alignment explanation
Indices: 18799899--18799930 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18799889 GCAAATGTTA
18799899 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
18799911 AGTTTTGATGCAT
1 AGTTTTGATGCAT
18799924 -GTTTTGA
1 AGTTTTGA
18799931 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:18803019 original size:64 final size:64
Alignment explanation
Indices: 18802923--18803063 Score: 266
Period size: 64 Copynumber: 2.2 Consensus size: 64
18802913 AACATTCTCA
18802923 AGGCCAACTTAG-TTTTTTTTTATGCAAGGTGGACCTTAGCTCATGCCAGGATGTCATCTCTAG
1 AGGCCAACTTAGTTTTTTTTTTATGCAAGGTGGACCTTAGCTCATGCCAGGATGTCATCTCTAG
*
18802986 AGGCCAACTTAGTTTTTTTTTTATGCAAGGTGGACTTTAGCTCATGCCAGGATGTCATCTCTAG
1 AGGCCAACTTAGTTTTTTTTTTATGCAAGGTGGACCTTAGCTCATGCCAGGATGTCATCTCTAG
18803050 AGGCCAACTTAGTT
1 AGGCCAACTTAGTT
18803064 AATTTGCTAC
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 12 0.16
64 64 0.84
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (64 bp):
AGGCCAACTTAGTTTTTTTTTTATGCAAGGTGGACCTTAGCTCATGCCAGGATGTCATCTCTAG
Found at i:18803084 original size:64 final size:63
Alignment explanation
Indices: 18802923--18803090 Score: 205
Period size: 64 Copynumber: 2.6 Consensus size: 63
18802913 AACATTCTCA
* **
18802923 AGGCCAACTTAGTT-TTTTTTTATGCAAGGTGGACCTTAGCTCATGCCAGGATGTCATCTCTAG
1 AGGCCAACTTAGTTAATTTGCTA-GCAAGGTGGACCTTAGCTCATGCCAGGATGTCATCTCTAG
** ** *
18802986 AGGCCAACTTAGTTTTTTTTTTATGCAAGGTGGACTTTAGCTCATGCCAGGATGTCATCTCTAG
1 AGGCCAACTTAGTTAATTTGCTA-GCAAGGTGGACCTTAGCTCATGCCAGGATGTCATCTCTAG
*
18803050 AGGCCAACTTAGTTAATTTGCTA-CACTGGATGGACCTTAGC
1 AGGCCAACTTAGTTAATTTGCTAGCA-AGG-TGGACCTTAGC
18803091 ATGTGTAAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
62 2 0.02
63 16 0.17
64 77 0.81
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (63 bp):
AGGCCAACTTAGTTAATTTGCTAGCAAGGTGGACCTTAGCTCATGCCAGGATGTCATCTCTAG
Found at i:18806227 original size:31 final size:31
Alignment explanation
Indices: 18806192--18806254 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
18806182 TTACATTACC
18806192 ATATGACATCTTAGGTACATGTTCATTTCAA
1 ATATGACATCTTAGGTACATGTTCATTTCAA
18806223 ATATGACATCTTAGGTACATGTTCATTTCAA
1 ATATGACATCTTAGGTACATGTTCATTTCAA
18806254 A
1 A
18806255 CTTATATACA
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:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (31 bp):
ATATGACATCTTAGGTACATGTTCATTTCAA
Found at i:18814698 original size:43 final size:43
Alignment explanation
Indices: 18814640--18814799 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 43
18814630 ACATATCGTA
*
18814640 CAATGCCAACT-TCCCAGACGTGGTCTTACATATAATCACATAT
1 CAATGCC-ACTGTCCCAGACGTGGTCTTACACATAATCACATAT
*
18814683 CAATGCCACTGTCCCAGACAG-GGTCTTACACGA-ATTC-CAATAT
1 CAATGCCACTGTCCCAGAC-GTGGTCTTACAC-ATAATCAC-ATAT
* * * * *
18814726 -GATGTCGA-TATCCCAGACATGGTCTTACACGTAATCACATAT
1 CAATG-CCACTGTCCCAGACGTGGTCTTACACATAATCACATAT
* *
18814768 CGATGCCAATGTCCCAGACGTGGTCTTACACA
1 CAATGCCACTGTCCCAGACGTGGTCTTACACA
18814800 AGAACACATA
Statistics
Matches: 95, Mismatches: 12, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
42 35 0.37
43 58 0.61
44 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
CAATGCCACTGTCCCAGACGTGGTCTTACACATAATCACATAT
Found at i:18820183 original size:45 final size:45
Alignment explanation
Indices: 18820089--18820263 Score: 216
Period size: 45 Copynumber: 4.0 Consensus size: 45
18820079 TTTTATCAAA
* * *
18820089 TCACCGGCAT-TTAGCTTGCTAGGCTTGAA-GCCCG-ATA-TCATT
1 TCACCGGCATCATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATT
* * *
18820131 TCACCGGCATTATAGCCTGTTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATT
* *
18820176 TCACCGGCATCATAGCCTACTAGGCTC-AATGGCCGGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCGAA-GGCCCGAATAGTATT
*
18820221 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATCATAGCCTGCTAGGCTCGAAGGCCCGAATAGTA
18820264 CTGTACGATA
Statistics
Matches: 115, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
42 10 0.09
43 15 0.13
44 7 0.06
45 80 0.70
46 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATT
Found at i:18822372 original size:30 final size:30
Alignment explanation
Indices: 18822338--18822440 Score: 136
Period size: 30 Copynumber: 3.4 Consensus size: 30
18822328 ATTATCGAAA
* *
18822338 TATGAAAAGGGATAGCTTTGGTTGTCAAAT
1 TATGAAAAGGGATAGCTTTAGCTGTCAAAT
*
18822368 TATGAAAAGGGATAGCTTTCA-CTGTCGAAT
1 TATGAAAAGGGATAGCTTT-AGCTGTCAAAT
* * *
18822398 TATGAAAATGGATAGCTTCAGCTATCAAAT
1 TATGAAAAGGGATAGCTTTAGCTGTCAAAT
18822428 TATGAAAAGGGAT
1 TATGAAAAGGGAT
18822441 GGTGACAACC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.02
30 62 0.98
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (30 bp):
TATGAAAAGGGATAGCTTTAGCTGTCAAAT
Found at i:18822455 original size:30 final size:30
Alignment explanation
Indices: 18822421--18822630 Score: 167
Period size: 30 Copynumber: 7.1 Consensus size: 30
18822411 AGCTTCAGCT
* *
18822421 ATCAAATTATGAAAAGGGATGGTGACAACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
* * * *
18822451 ATC-AACAACGAAAAGGGATGGTAATGACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
* * * *
18822480 ATCAAACTATGAAAAGGGATAGCT-TCGGCT
1 ATCAAACTATGAAAAGGGAT-GGTGACGACC
* **
18822510 ATCAAATTATGAAAAGGGATGGTGACGTTC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
** *
18822540 ATC-AACTACAAAAAAGGATGGTGACGACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
* * * *
18822569 ATCAAAATATGAAAAGGGATAGCT-TCGACT
1 ATCAAACTATGAAAAGGGAT-GGTGACGACC
* * *
18822599 ATCAAACTATGGAAATGGATGGTGACAACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
18822629 AT
1 AT
18822631 TGTGATTTTA
Statistics
Matches: 135, Mismatches: 39, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
29 50 0.37
30 81 0.60
31 4 0.03
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (30 bp):
ATCAAACTATGAAAAGGGATGGTGACGACC
Found at i:18822465 original size:29 final size:30
Alignment explanation
Indices: 18822431--18822499 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
18822421 ATCAAATTAT
*
18822431 GAAAAGGGATGGTGACAACCATC-AACAAC
1 GAAAAGGGATGGTAACAACCATCAAACAAC
** * *
18822460 GAAAAGGGATGGTAATGACCATCAAACTAT
1 GAAAAGGGATGGTAACAACCATCAAACAAC
18822490 GAAAAGGGAT
1 GAAAAGGGAT
18822500 AGCTTCGGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.45, C:0.14, G:0.26, T:0.14
Consensus pattern (30 bp):
GAAAAGGGATGGTAACAACCATCAAACAAC
Found at i:18822500 original size:89 final size:88
Alignment explanation
Indices: 18822398--18822630 Score: 322
Period size: 89 Copynumber: 2.6 Consensus size: 88
18822388 ACTGTCGAAT
* *
18822398 TATGAAAATGGATAGCTTCAGCTATCAAATTATGAAAAGGGATGGTGACAACCATCAACAACGAA
1 TATGAAAAGGGATAGCTTC-GCTATCAAATTATGAAAAGGGATGGTGACAACCATCAACAACAAA
* * *
18822463 AAGGGATGGTAATGACCATCAAAC
65 AAAGGATGGTAACGACCATCAAAA
*** *
18822487 TATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGTTCATCAACTACAAA
1 TATGAAAAGGGATAGCTTC-GCTATCAAATTATGAAAAGGGATGGTGACAACCATCAACAACAAA
*
18822552 AAAGGATGGTGACGACCATCAAAA
65 AAAGGATGGTAACGACCATCAAAA
* * *
18822576 TATGAAAAGGGATAGCTTCGACTATCAAACTATGGAAATGGATGGTGACAACCAT
1 TATGAAAAGGGATAGCTTCG-CTATCAAATTATGAAAAGGGATGGTGACAACCAT
18822631 TGTGATTTTA
Statistics
Matches: 126, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 1 0.01
89 125 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (88 bp):
TATGAAAAGGGATAGCTTCGCTATCAAATTATGAAAAGGGATGGTGACAACCATCAACAACAAAA
AAGGATGGTAACGACCATCAAAA
Found at i:18822603 original size:119 final size:119
Alignment explanation
Indices: 18822335--18822618 Score: 265
Period size: 119 Copynumber: 2.4 Consensus size: 119
18822325 ACGATTATCG
** * * * *
18822335 AAATATGAAAAGGGATAGCTTTGGTTGTCAAATTATGAAAAGGGATAGCTTTCACTGTCGAATTA
1 AAATATGAAAAGGGATAGC-TTGACTATCAAACTATGAAAAGGGATAGCTTTCACTATCAAATTA
* * * ** *
18822400 TGAAAATGGATAGCTTCAGCTATCAAATTATGAAAAGGGATGGTGACAACCATCA
65 TGAAAAGGGATAGCTACAGCTATCAAACTACAAAAAAGGATGGTGACAACCATCA
* * * * *
18822455 ACA-ACGAAAAGGGAT-GGTAATGACCATCAAACTATGAAAAGGGATAGC-TTCGGCTATCAAAT
1 AAATATGAAAAGGGATAGCT--TGACTATCAAACTATGAAAAGGGATAGCTTTC-ACTATCAAAT
* * *
18822517 TATGAAAAGGGAT-GGTGAC-GTTCATC-AACTACAAAAAAGGATGGTGACGACCATCA
63 TATGAAAAGGGATAGCT-ACAGCT-ATCAAACTACAAAAAAGGATGGTGACAACCATCA
* *
18822573 AAATATGAAAAGGGATAGCTTCGACTATCAAACTATGGAAATGGAT
1 AAATATGAAAAGGGATAGCTT-GACTATCAAACTATGAAAAGGGAT
18822619 GGTGACAACC
Statistics
Matches: 130, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
117 1 0.01
118 36 0.28
119 89 0.68
120 4 0.03
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (119 bp):
AAATATGAAAAGGGATAGCTTGACTATCAAACTATGAAAAGGGATAGCTTTCACTATCAAATTAT
GAAAAGGGATAGCTACAGCTATCAAACTACAAAAAAGGATGGTGACAACCATCA
Found at i:18828905 original size:40 final size:40
Alignment explanation
Indices: 18828861--18829032 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
18828851 GGACTAAGAT
*
18828861 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
18828901 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
18828941 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
18828981 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
18829020 CCGAAGGCATTTG
1 CCGAAGGCATTTG
18829033 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 81 0.69
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:18828946 original size:80 final size:79
Alignment explanation
Indices: 18828861--18829032 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
18828851 GGACTAAGAT
*
18828861 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
18828925 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
18828941 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
18829006 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
18829020 CCGAAGGCATTTG
1 CCGAAGGCATTTG
18829033 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:18829050 original size:79 final size:80
Alignment explanation
Indices: 18828888--18829065 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
18828878 AGATACAAAT
* * * *
18828888 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
18828953 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
18828968 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
18829032 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
18829047 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
18829066 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:18831241 original size:27 final size:27
Alignment explanation
Indices: 18831211--18832102 Score: 1035
Period size: 27 Copynumber: 33.0 Consensus size: 27
18831201 AAAGTACTCC
18831211 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
18831238 CGATTTACAGAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
18831265 CGATTTTTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18831292 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18831319 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
18831346 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
18831373 CAATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
18831400 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
18831427 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
18831454 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18831481 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
18831508 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
18831535 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
18831562 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
18831589 CGATTTGTACAATTACCATTTTTCCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18831616 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18831643 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
18831670 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
18831697 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
18831724 CGATTTACAGAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
18831751 CGATTTTTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18831778 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
18831805 C-AGTTTACAGAATTACTATTTTTCCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
18831832 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18831859 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
18831886 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
18831913 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
18831940 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18831967 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
18831994 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
18832021 CGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
18832048 CGGTTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
18832075 CGATTTATAAAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
18832102 C
1 C
18832103 AATTGTGAAA
Statistics
Matches: 767, Mismatches: 88, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.01
27 757 0.99
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:18832214 original size:81 final size:81
Alignment explanation
Indices: 18832118--18832386 Score: 387
Period size: 81 Copynumber: 3.3 Consensus size: 81
18832108 TGAAATTACT
* *
18832118 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCAT
18832183 ATAGGGTAGAATTATC
66 ATAGGGTAGAATTATC
* *
18832199 GAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAAAATTACTGAAATACCCAT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCAT
*
18832264 ATAGGGTAGAATTACC
66 ATAGGGTAGAATTATC
* * * * * * *
18832280 AAAATAACCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCAT
18832345 ATAGGGTAGAATTATC
66 ATAGGGTAGAATTATC
* * * *
18832361 GAGATA-CCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
18832387 ATTTTGCCCC
Statistics
Matches: 167, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 16 0.10
81 151 0.90
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCAT
ATAGGGTAGAATTATC
Found at i:18832367 original size:27 final size:27
Alignment explanation
Indices: 18832111--18832368 Score: 345
Period size: 27 Copynumber: 9.6 Consensus size: 27
18832101 TCAATTGTGA
* *
18832111 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
18832138 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** *
18832165 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
18832192 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
18832219 AATTACCAAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTATAGGGTAG
* *
18832246 AATTACTGAAATACCCATATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
18832273 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
18832300 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
18832327 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
18832354 AATTATCGAGATACC
1 AATTACCGAAATACC
18832369 TTGTGGGGTA
Statistics
Matches: 199, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 199 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:18832997 original size:27 final size:27
Alignment explanation
Indices: 18832967--18833067 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
18832957 CAGTTATCGA
* *
18832967 TGGCTTTGCCACATTATCTGTTTCTGG
1 TGGCTCTGCCACAATATCTGTTTCTGG
* *
18832994 TGGCTATGCCACAAATATCAG-TTCTGG
1 TGGCTCTGCCAC-AATATCTGTTTCTGG
*
18833021 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTCTGCCACAATATCTGTTTCTGG
* *
18833048 TGACTCTGTCACAATATCTG
1 TGGCTCTGCCACAATATCTG
18833068 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
TGGCTCTGCCACAATATCTGTTTCTGG
Found at i:18833239 original size:31 final size:31
Alignment explanation
Indices: 18833204--18833280 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
18833194 TTGCATTCAC
* *
18833204 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* * *
18833235 ATTCTAATCCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
18833266 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
18833281 TTAGTTCTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:18833268 original size:6 final size:6
Alignment explanation
Indices: 18833204--18833280 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
18833194 TTGCATTCAC
* * * *
18833204 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATCCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
18833253 -TCACCTG ATTCTG ATTCTG ATTCTG ATT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATT
18833281 TTAGTTCTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
5 3 0.05
6 44 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:18838923 original size:48 final size:48
Alignment explanation
Indices: 18838871--18839055 Score: 217
Period size: 48 Copynumber: 3.9 Consensus size: 48
18838861 ACTTCATATC
* * * **
18838871 GATGCCAATGCCATATCCCAAATATGGTCTTACATGGGATCTTATACT
1 GATGCCGATGCCATATCCCAAATATGGTCTTACACGGGATCTCATTTT
* * * *
18838919 GATGCTGATGCCACATCCCAGATATAGTCTTACACGGGATCTCATTTT
1 GATGCCGATGCCATATCCCAAATATGGTCTTACACGGGATCTCATTTT
* *
18838967 GATGCCGATGTCATATCCCAAATATTGTCTTACACGGGATCTCATTTT
1 GATGCCGATGCCATATCCCAAATATGGTCTTACACGGGATCTCATTTT
* ** * * *
18839015 GATGCCGGTTTCATTTCCCAAATATGGTCTTATACGAGATC
1 GATGCCGATGCCATATCCCAAATATGGTCTTACACGGGATC
18839056 CCAATACTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (48 bp):
GATGCCGATGCCATATCCCAAATATGGTCTTACACGGGATCTCATTTT
Found at i:18838938 original size:96 final size:96
Alignment explanation
Indices: 18838829--18839008 Score: 218
Period size: 96 Copynumber: 1.9 Consensus size: 96
18838819 TAACGGTGCC
** * ***
18838829 GATGCCATGTCCCAGACATGGTCTTATTTAGGA-CTTCATATCGATGCCAATGCCATATCCCAAA
1 GATGCCACATCCCAGACATAGTCTTACACAGGATC-TCATATCGATGCCAATGCCATATCCCAAA
*
18838893 TATGGTCTTACATGGGATCTTATACTGATGCT
65 TATGGTCTTACACGGGATCTTATACTGATGCT
* * * * * *
18838925 GATGCCACATCCCAGATATAGTCTTACACGGGATCTCATTTTGATGCCGATGTCATATCCCAAAT
1 GATGCCACATCCCAGACATAGTCTTACACAGGATCTCATATCGATGCCAATGCCATATCCCAAAT
*
18838990 ATTGTCTTACACGGGATCT
66 ATGGTCTTACACGGGATCT
18839009 CATTTTGATG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
96 68 0.99
97 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (96 bp):
GATGCCACATCCCAGACATAGTCTTACACAGGATCTCATATCGATGCCAATGCCATATCCCAAAT
ATGGTCTTACACGGGATCTTATACTGATGCT
Found at i:18844254 original size:137 final size:138
Alignment explanation
Indices: 18843753--18844316 Score: 794
Period size: 138 Copynumber: 4.1 Consensus size: 138
18843743 GAGAACATAG
* * * *
18843753 ATATAATTAATTTATGAGTTTGATTCATACAAAAATATTAATTGTATATATTTTACCTAATTCAT
1 ATATAATTAATATATGAATTTGATTCATAC-AAAATATTAATTGTATATATTTTACCGAATTTAT
* ** *
18843818 TAATATAAACATTTATATTAATTAATTTCAGTCAAAATATAAAAGAAATAAAAATTAATATTATT
65 TAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTT
18843883 TTGGGAAGA
130 TTGGGAAGA
*
18843892 ATATAATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * *
18843957 AATATAAACAGTTATGTTAA-TAAGTTTCAATCAAAATATAAAATAGATGGAAATTAATATTCTT
66 AATATAAACAGTTATATTAATTAA-TTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTT
*
18844021 TTGGAAAGA
130 TTGGGAAGA
*
18844030 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* ** * *
18844095 AATATAAAGAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATGGAAATTATTATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTTT
18844160 TGGGAAGA
131 TGGGAAGA
*
18844168 ATATAATTAATATATGAATTTG-TTCATGCAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
18844232 AATATAAAC-GATTATATTAATTAATTTCAGTTCAAATATAAAAAAAAAACAT-GAACATTAATA
66 AATATAAACAG-TTATATTAATTAATTTCAG-TCAAA-AT-ATAAAAGAA-ATGGAA-ATTAATA
* *
18844295 TTCTTCTGGAAAGA
125 TTCTTTTGGGAAGA
*
18844309 ATACAATT
1 ATATAATT
18844317 CTTTTTTCTA
Statistics
Matches: 380, Mismatches: 37, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
136 1 0.00
137 68 0.18
138 242 0.64
139 33 0.09
140 9 0.02
141 27 0.07
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTTT
TGGGAAGA
Found at i:18850427 original size:9 final size:9
Alignment explanation
Indices: 18850415--18850471 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
18850405 TTTGATAAAC
18850415 ATGATATGT
1 ATGATATGT
*
18850424 ATGATATGCAC
1 ATGATATG--T
*
18850435 ATGACATGT
1 ATGATATGT
*
18850444 ATGATATGCAC
1 ATGATATG--T
18850455 ATGATATGT
1 ATGATATGT
18850464 ATGATATG
1 ATGATATG
18850472 CACATGCGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:18850438 original size:20 final size:20
Alignment explanation
Indices: 18850413--18850477 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
18850403 ATTTTGATAA
18850413 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18850433 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
18850453 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
18850473 ACATG
1 ACATG
18850478 CGATGTTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18850460 original size:11 final size:11
Alignment explanation
Indices: 18850424--18850477 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
18850414 CATGATATGT
18850424 ATGATATGCAC
1 ATGATATGCAC
* *
18850435 ATGACATG--T
1 ATGATATGCAC
18850444 ATGATATGCAC
1 ATGATATGCAC
*
18850455 ATGATATG--T
1 ATGATATGCAC
18850464 ATGATATGCAC
1 ATGATATGCAC
18850475 ATG
1 ATG
18850478 CGATGTTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18850560 original size:24 final size:24
Alignment explanation
Indices: 18850528--18850657 Score: 217
Period size: 24 Copynumber: 5.4 Consensus size: 24
18850518 GGAGGAAGTG
18850528 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
18850552 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
18850576 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
* *
18850600 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
*
18850624 CAAAAGGGC-TTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
18850647 TAAAAGAGGCT
1 TAAAAG-GGCT
18850658 AGGCCTCCAG
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 18 0.18
24 82 0.82
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTTTGCCCCAGTTAT
Found at i:18850902 original size:31 final size:32
Alignment explanation
Indices: 18850864--18850927 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
18850854 CGTTTACAGT
18850864 AAAGGCTTCGG-CCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCCAGTAATATGAAATATGA
** *
18850895 AAAGGCTTCGGCCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCCAGTAATATGAAATATGA
18850927 A
1 A
18850928 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (32 bp):
AAAGGCTTCGGCCCCAGTAATATGAAATATGA
Found at i:18851771 original size:25 final size:25
Alignment explanation
Indices: 18851743--18851838 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
18851733 ATGCTCATAA
* *
18851743 GAGCTATGAATTGGTATGCTCTCAT
1 GAGCTATGAATCGGTAAGCTCTCAT
* * *
18851768 GAGCTGTGAATCGATAAGCTCAT-AC
1 GAGCTATGAATCGGTAAGCTC-TCAT
* *
18851793 GAGCTAAGAATCAGTAAGCTCTCAT
1 GAGCTATGAATCGGTAAGCTCTCAT
* * *
18851818 GAGCTGTAAATCGATAAGCTC
1 GAGCTATGAATCGGTAAGCTC
18851839 ATACGAGCTA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
24 1 0.02
25 52 0.96
26 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (25 bp):
GAGCTATGAATCGGTAAGCTCTCAT
Found at i:18851814 original size:50 final size:50
Alignment explanation
Indices: 18851735--18851848 Score: 174
Period size: 50 Copynumber: 2.3 Consensus size: 50
18851725 ATACAAGTAT
* * ** * *
18851735 GCTCATAAGAGCTATGAATTGGTATGCTCTCATGAGCTGTGAATCGATAA
1 GCTCATACGAGCTAAGAATCAGTAAGCTCTCATGAGCTGTAAATCGATAA
18851785 GCTCATACGAGCTAAGAATCAGTAAGCTCTCATGAGCTGTAAATCGATAA
1 GCTCATACGAGCTAAGAATCAGTAAGCTCTCATGAGCTGTAAATCGATAA
18851835 GCTCATACGAGCTA
1 GCTCATACGAGCTA
18851849 TGGTGTGTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (50 bp):
GCTCATACGAGCTAAGAATCAGTAAGCTCTCATGAGCTGTAAATCGATAA
Found at i:18851846 original size:25 final size:25
Alignment explanation
Indices: 18851768--18851847 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
18851758 ATGCTCTCAT
*
18851768 GAGCTGTGAATCGATAAGCTCATAC
1 GAGCTGTAAATCGATAAGCTCATAC
* *
18851793 GAGCT-AAGAATC-AGTAAGCTC-TCAT
1 GAGCTGTA-AATCGA-TAAGCTCAT-AC
18851818 GAGCTGTAAATCGATAAGCTCATAC
1 GAGCTGTAAATCGATAAGCTCATAC
18851843 GAGCT
1 GAGCT
18851848 ATGGTGTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
24 2 0.05
25 39 0.89
26 3 0.07
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (25 bp):
GAGCTGTAAATCGATAAGCTCATAC
Found at i:18855563 original size:24 final size:23
Alignment explanation
Indices: 18855528--18855573 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
18855518 AGAACTTTTA
*
18855528 ATCAGGAAGCTCACGAAA-AGCCT
1 ATCAAGAAGCTCAC-AAAGAGCCT
18855551 ATCAAGAATGCTCACAAAGAGCC
1 ATCAAGAA-GCTCACAAAGAGCC
18855574 ATGTAATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.41, C:0.26, G:0.20, T:0.13
Consensus pattern (23 bp):
ATCAAGAAGCTCACAAAGAGCCT
Found at i:18876373 original size:21 final size:21
Alignment explanation
Indices: 18876347--18876386 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18876337 TTACATAATG
*
18876347 GTATCGCGACACCTACCCCCC
1 GTATCGCGACACCCACCCCCC
*
18876368 GTATCGCGATACCCACCCC
1 GTATCGCGACACCCACCCC
18876387 TCGGTATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.50, G:0.15, T:0.15
Consensus pattern (21 bp):
GTATCGCGACACCCACCCCCC
Found at i:18877476 original size:28 final size:28
Alignment explanation
Indices: 18877444--18877499 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
18877434 CTAAGATGTG
18877444 GATGTAATTTATTTGCACTCGCACATCA
1 GATGTAATTTATTTGCACTCGCACATCA
18877472 GATGTAATTTATTTGCACTCGCACATCA
1 GATGTAATTTATTTGCACTCGCACATCA
18877500 CCATTACTCA
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:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (28 bp):
GATGTAATTTATTTGCACTCGCACATCA
Found at i:18884706 original size:25 final size:25
Alignment explanation
Indices: 18884678--18884739 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
18884668 TTTCTAACTA
* *
18884678 ATCACTAAATTGATAAAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
* **
18884703 ATCAATAATTTCATACGATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
18884728 ATCATATAAATT
1 ATCA-ATAAATT
18884740 TTCAAGCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (25 bp):
ATCAATAAATTCATAAAATTTTCCT
Found at i:18886943 original size:79 final size:79
Alignment explanation
Indices: 18886812--18886967 Score: 258
Period size: 79 Copynumber: 2.0 Consensus size: 79
18886802 CAAAAGTTAA
* **
18886812 TTATTACCCATCTAAGACTCATATTCTTCCATAAAATTTCAGTTATCAACACATATACTTTCATG
1 TTATTACCCATCTAAGACTCATATTCTTCCATAAAATTTCAGTTATCAACACACATACTTTCACA
18886877 GTAAAACCCTAGGT
66 GTAAAACCCTAGGT
* * *
18886891 TTATTACCCATCTAAGACTCATCTTCTTCCATAATATTTTAGTTATCAACACACATACTTTCACA
1 TTATTACCCATCTAAGACTCATATTCTTCCATAAAATTTCAGTTATCAACACACATACTTTCACA
18886956 GTAAAACCCTAG
66 GTAAAACCCTAG
18886968 ACTCTTGTCT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (79 bp):
TTATTACCCATCTAAGACTCATATTCTTCCATAAAATTTCAGTTATCAACACACATACTTTCACA
GTAAAACCCTAGGT
Found at i:18892599 original size:20 final size:21
Alignment explanation
Indices: 18892574--18892612 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18892564 TCCTTAAAAC
18892574 AGGGC-ACACGCCCGTATGGA
1 AGGGCAACACGCCCGTATGGA
*
18892594 AGGGCAACATGCCCGTATG
1 AGGGCAACACGCCCGTATG
18892613 ACCAACTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTATGGA
Found at i:18895997 original size:21 final size:23
Alignment explanation
Indices: 18895953--18895997 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
18895943 ATTAAGGATT
* *
18895953 CCCTTTAGTGGTATCGCGATATC
1 CCCTTTAGTGGTATCGCAAAATC
18895976 CCCTTT-G-GGTATCGCAAAATC
1 CCCTTTAGTGGTATCGCAAAATC
18895997 C
1 C
18895998 ACCTCCCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (23 bp):
CCCTTTAGTGGTATCGCAAAATC
Found at i:18899052 original size:40 final size:40
Alignment explanation
Indices: 18898923--18899150 Score: 149
Period size: 40 Copynumber: 5.7 Consensus size: 40
18898913 AAGTTCATAT
* * * **
18898923 GGGGAGCTTCACTGATACACAACTTCATCACTTAAGCTCACGT
1 GGGGAGCTTCGCTGATACACAACTT-GTC-CATAAGCTCA-AA
* * * * * * *
18898966 GGGGAGCTTCACTGATCCACAACTTAT-TATTAGTTCATA
1 GGGGAGCTTCGCTGATACACAACTTGTCCATAAGCTCAAA
* * * * *
18899005 GAGGAGCTTTGCTGATACGCAGC-TGATCTATAAGCTCAAA
1 GGGGAGCTTCGCTGATACACAACTTG-TCCATAAGCTCAAA
* * *
18899045 GGGGAGCTCCGTTGATACACAACTTGTCCATAAGCTCACA
1 GGGGAGCTTCGCTGATACACAACTTGTCCATAAGCTCAAA
* * * *
18899085 GGGGAGCTTCGCTAATACACAACTTATCCTTAA-CTC-AT
1 GGGGAGCTTCGCTGATACACAACTTGTCCATAAGCTCAAA
* *
18899123 GGAGGAGCTTTGCCGATACACAACTTGT
1 GG-GGAGCTTCGCTGATACACAACTTGT
18899151 AAAATCATTT
Statistics
Matches: 145, Mismatches: 36, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
38 3 0.02
39 42 0.29
40 72 0.50
41 2 0.01
42 2 0.01
43 24 0.17
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (40 bp):
GGGGAGCTTCGCTGATACACAACTTGTCCATAAGCTCAAA
Done.