Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 62 of 332
Found at i:18429645 original size:40 final size:40
Alignment explanation
Indices: 18429444--18429631 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
18429434 TATTTGGATG
* *
18429444 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * *
18429484 A-ATTTCGGGCTAAG-CCCGAAGGCATTTTTGCGAGCTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
18429523 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
18429563 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
18429603 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
18429632 AGCAAGTAGC
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 33 0.24
40 102 0.76
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:18429662 original size:119 final size:119
Alignment explanation
Indices: 18429444--18429664 Score: 304
Period size: 119 Copynumber: 1.9 Consensus size: 119
18429434 TATTTGGATG
* **
18429444 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
** * *
18429509 TTTTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGCTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
18429563 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
* *
18429627 ATTTGAGCAAG-TAGCTATAT-CTGGCTAAATTCCGAAGG
64 ATTTGAGCAAGCTA-CTATATCCGGGCTAAATCCCGAAGG
18429665 TACTCGGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.72
120 23 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGCTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:18434710 original size:40 final size:40
Alignment explanation
Indices: 18434654--18434878 Score: 357
Period size: 40 Copynumber: 5.6 Consensus size: 40
18434644 CGGATGATAA
* *
18434654 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
18434694 CCGGGCTAAG-CTCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
*
18434734 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
18434774 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
18434814 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
18434854 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18434879 AGCAAGTAGT
Statistics
Matches: 174, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 170 0.98
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:18441024 original size:19 final size:19
Alignment explanation
Indices: 18441000--18441039 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
18440990 TACTGAGTTT
18441000 GTATGTGCTAGTTGATAAA
1 GTATGTGCTAGTTGATAAA
18441019 GTATGTGCTAGTTGATAAA
1 GTATGTGCTAGTTGATAAA
18441038 GT
1 GT
18441040 TTACAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.38
Consensus pattern (19 bp):
GTATGTGCTAGTTGATAAA
Found at i:18441051 original size:27 final size:27
Alignment explanation
Indices: 18441021--18441076 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
18441011 TTGATAAAGT
18441021 ATGTGCTAGTTGATAAAGTTTACAAGA
1 ATGTGCTAGTTGATAAAGTTTACAAGA
18441048 ATGTGCTAGTTGATAAAGTTTACAAGA
1 ATGTGCTAGTTGATAAAGTTTACAAGA
18441075 AT
1 AT
18441077 TGTCCTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (27 bp):
ATGTGCTAGTTGATAAAGTTTACAAGA
Found at i:18441495 original size:9 final size:9
Alignment explanation
Indices: 18441476--18441512 Score: 65
Period size: 9 Copynumber: 4.0 Consensus size: 9
18441466 TTTAGTACCT
18441476 AGAACTTGAA
1 AGAA-TTGAA
18441486 AGAATTGAA
1 AGAATTGAA
18441495 AGAATTGAA
1 AGAATTGAA
18441504 AGAATTGAA
1 AGAATTGAA
18441513 TGCTCAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 23 0.85
10 4 0.15
ACGTcount: A:0.54, C:0.03, G:0.22, T:0.22
Consensus pattern (9 bp):
AGAATTGAA
Found at i:18445159 original size:39 final size:39
Alignment explanation
Indices: 18445105--18445183 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
18445095 ACACTATGTA
18445105 TGATTATGCTAAACCTAATTTAATAGGAACTGAGTCAAG
1 TGATTATGCTAAACCTAATTTAATAGGAACTGAGTCAAG
*
18445144 TGATTATTCTAAACCTAATTTAATAGGAACTGAGTCAAG
1 TGATTATGCTAAACCTAATTTAATAGGAACTGAGTCAAG
18445183 T
1 T
18445184 ATAGTTAGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (39 bp):
TGATTATGCTAAACCTAATTTAATAGGAACTGAGTCAAG
Found at i:18458082 original size:13 final size:13
Alignment explanation
Indices: 18458064--18458088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18458054 TTTTACGCGG
18458064 CCGTGTAACACGA
1 CCGTGTAACACGA
18458077 CCGTGTAACACG
1 CCGTGTAACACG
18458089 TCCATGTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (13 bp):
CCGTGTAACACGA
Found at i:18463465 original size:41 final size:40
Alignment explanation
Indices: 18463303--18463528 Score: 264
Period size: 40 Copynumber: 5.6 Consensus size: 40
18463293 GCTACTCGTT
* *
18463303 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATTAGTAACTCGCA
*
18463343 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATTAGTAACTCGCA
* *
18463383 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATTAGTAACTCGCA
* *
18463422 CAAATGCCTTCGGATCTTAGTCCGGATATTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTAGTAACTCGCA
* * * *
18463463 CAAATGCCTTCGGATCTTAGTCCGGATA-TGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
18463504 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
18463529 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 37 0.22
40 77 0.46
41 53 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:18463465 original size:80 final size:80
Alignment explanation
Indices: 18463303--18463528 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
18463293 GCTACTCGTT
*
18463303 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
18463368 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * **
18463383 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
18463445 GGATATTAGTATCTCGCA
64 GGAT-TTAGTAACTCGCA
* * * * * *
18463463 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
18463526 GGA
64 GGA
18463529 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 4 0.03
79 43 0.34
80 37 0.29
81 30 0.24
82 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:18463488 original size:120 final size:120
Alignment explanation
Indices: 18463303--18463528 Score: 298
Period size: 120 Copynumber: 1.9 Consensus size: 120
18463293 GCTACTCGTT
*
18463303 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
18463368 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
18463422 CAAATGCCTTC-GGATCTTAGTCCGGATATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
18463485 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
18463529 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
118 3 0.03
119 24 0.26
120 46 0.50
121 19 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:18467667 original size:3 final size:3
Alignment explanation
Indices: 18467659--18467683 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18467649 AGATATTTAC
18467659 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
18467684 AATATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18467938 original size:26 final size:25
Alignment explanation
Indices: 18467857--18467939 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 25
18467847 AATAAATAAA
18467857 AGAAAGAA-AAAA-AAGAAGAAAAAG
1 AGAAAGAAGAAAAGAA-AAGAAAAAG
* *
18467881 AAACAGAGAAGAAACGAAATAGAAATAA-
1 AGA-A-AGAAGAAAAGAAA-AGAAA-AAG
18467909 AGAAAGAAGAAAAGAAAAGAAAAAGG
1 AGAAAGAAGAAAAGAAAAGAAAAA-G
18467935 AGAAA
1 AGAAA
18467940 TTAGGGTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
24 4 0.09
25 6 0.13
26 21 0.45
27 5 0.11
28 9 0.19
29 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (25 bp):
AGAAAGAAGAAAAGAAAAGAAAAAG
Found at i:18471230 original size:6 final size:6
Alignment explanation
Indices: 18471221--18471283 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
18471211 AATAAAATTG
* * * * *
18471221 AAATGA AAATCA AAATCA AAAGAA ATATAA AAAT-A AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
18471268 GAATAA ATAATAA AAA
1 AAATAA A-AATAA AAA
18471284 AATAGGAGGA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
5 5 0.11
6 36 0.77
7 6 0.13
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:18471258 original size:17 final size:17
Alignment explanation
Indices: 18471226--18471274 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
18471216 AATTGAAATG
*
18471226 AAAATCAAAATCAAAAGA
1 AAAATAAAAAT-AAAAGA
* *
18471244 AATATAAAAATAAAATA
1 AAAATAAAAATAAAAGA
*
18471261 AAAATAAGAATAAA
1 AAAATAAAAATAAA
18471275 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAAGA
Found at i:18471264 original size:29 final size:31
Alignment explanation
Indices: 18471221--18471283 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
18471211 AATAAAATTG
*
18471221 AAATGAAAATCAAAATCAA-AAGAAAT-ATAA
1 AAATGAAAATAAAAAT-AAGAAGAAATAATAA
*
18471251 AAAT-AAAATAAAAATAAGAATAAATAATAA
1 AAATGAAAATAAAAATAAGAAGAAATAATAA
18471281 AAA
1 AAA
18471284 AATAGGAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.07
29 16 0.55
30 11 0.38
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (31 bp):
AAATGAAAATAAAAATAAGAAGAAATAATAA
Found at i:18482135 original size:27 final size:28
Alignment explanation
Indices: 18482051--18482148 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
18482041 CATGAGATTG
* * * *
18482051 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
18482080 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
18482108 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
18482135 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
18482149 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:18482159 original size:27 final size:27
Alignment explanation
Indices: 18482079--18482161 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
18482069 TAAATTGTAC
* *
18482079 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
18482107 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
18482134 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
18482161 A
1 A
18482162 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:18482162 original size:29 final size:27
Alignment explanation
Indices: 18482051--18482162 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
18482041 CATGAGATTG
** * *
18482051 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
18482080 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
18482108 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
18482135 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
18482163 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:18486744 original size:12 final size:11
Alignment explanation
Indices: 18486726--18486759 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
18486716 GATTTCATCG
18486726 TTTGTTTATTT
1 TTTGTTTATTT
18486737 TATTGTTTATTT
1 T-TTGTTTATTT
*
18486749 TTTATTTATTT
1 TTTGTTTATTT
18486760 AATTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTGTTTATTT
Found at i:18505797 original size:21 final size:21
Alignment explanation
Indices: 18505773--18505815 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18505763 TTGTATTACT
*
18505773 TATATTTCATTGTATATTATA
1 TATATTTCATTATATATTATA
*
18505794 TATATTTTATTATATATTATA
1 TATATTTCATTATATATTATA
18505815 T
1 T
18505816 TTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TATATTTCATTATATATTATA
Found at i:18505806 original size:14 final size:14
Alignment explanation
Indices: 18505787--18505892 Score: 63
Period size: 15 Copynumber: 6.9 Consensus size: 14
18505777 TTTCATTGTA
18505787 TATTATATATATTT
1 TATTATATATATTT
18505801 TATTATATATTATATTT
1 TA-T-TATA-TATATTT
18505818 TATTATATAT-TGTT
1 TATTATATATAT-TT
* *
18505832 CTCTATATTATCTTCATTT
1 -TAT-TA-TAT-AT-ATTT
18505851 TATTATATATTATTT
1 TATTATATA-TATTT
*
18505866 TATTATTTAT-TATT
1 TATTATATATAT-TT
18505880 TATTAGTATATAT
1 TATTA-TATATAT
18505893 ATAATCAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
13 2 0.03
14 15 0.21
15 23 0.32
16 12 0.17
17 14 0.19
18 3 0.04
19 2 0.03
20 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (14 bp):
TATTATATATATTT
Found at i:18505807 original size:12 final size:12
Alignment explanation
Indices: 18505785--18505894 Score: 56
Period size: 12 Copynumber: 9.4 Consensus size: 12
18505775 TATTTCATTG
18505785 TATATTATA-TA
1 TATATTATATTA
18505796 TAT-TT-TATTA
1 TATATTATATTA
*
18505806 TATATTATATTT
1 TATATTATATTA
*
18505818 TAT-TATATATTG
1 TATAT-TATATTA
*
18505830 T-TCTCTATATTA
1 TATAT-TATATTA
* *
18505842 TCTTCATTTTATTA
1 T-AT-ATTATATTA
*
18505856 TATATTATTTTA
1 TATATTATATTA
18505868 T-TATT-TATTA
1 TATATTATATTA
*
18505878 TTTATTAGTA-TA
1 TATATTA-TATTA
18505890 TATAT
1 TATAT
18505895 AATCAAAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
9 2 0.03
10 12 0.16
11 15 0.19
12 36 0.47
13 3 0.04
14 8 0.10
15 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
TATATTATATTA
Found at i:18505810 original size:33 final size:31
Alignment explanation
Indices: 18505773--18505892 Score: 106
Period size: 33 Copynumber: 3.8 Consensus size: 31
18505763 TTGTATTACT
18505773 TATATTTCATTGTATATTATATATATTTTATTA
1 TATATTTCATT-T-TATTATATATATTTTATTA
* *
18505806 TATATTAT-ATTTTATTATATAT-TGTTCTCTA
1 TATATT-TCATTTTATTATATATATTTTAT-TA
18505837 TATTATCTTCATTTTATTATATATTATTTTATTA
1 TA-TAT-TTCATTTTATTATATA-TATTTTATTA
*
18505871 TTTA-TT-A-TTTATTAGTATATAT
1 TATATTTCATTTTATTA-TATATAT
18505893 ATAATCAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
29 10 0.14
30 9 0.12
31 16 0.22
32 5 0.07
33 25 0.34
34 5 0.07
35 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (31 bp):
TATATTTCATTTTATTATATATATTTTATTA
Found at i:18517992 original size:44 final size:44
Alignment explanation
Indices: 18517929--18518278 Score: 436
Period size: 44 Copynumber: 7.9 Consensus size: 44
18517919 TGGAGATAGT
* * *
18517929 AGATTTGGCGCCTCTGTATTGACAGAGAGCAAATCAAATATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGAC
* * *
18517973 AGATTTGGAGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-AGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA-C
*
18518017 ATATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGAT-AGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA-C
* * * * * * *
18518061 AGATTTGACGTCTCTGTATCGACGGGGAGCAGATAAAAAATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGAC
**
18518105 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATTGAAGATAGA-
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGAT-GAC
* *
18518149 AGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGAC
* *
18518193 AGATTTGGCGTCTCTGTGTTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGAC
* * *
18518237 AGATTTGGCGTCTCTGTATTAGCCAAAGAGCAGATCGAAGAT
1 AGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCAAAGAT
18518279 AGCAGATCTG
Statistics
Matches: 269, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
43 3 0.01
44 245 0.91
45 21 0.08
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGAC
Found at i:18518162 original size:132 final size:132
Alignment explanation
Indices: 18517922--18518285 Score: 505
Period size: 132 Copynumber: 2.8 Consensus size: 132
18517912 TATAGATTGG
* * * * *
18517922 AGATAGTAGATTTGGCGCCTCTGTATTGACAGAGAGCAAATCAAATATGACAGATTTGGAGTCTC
1 AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAAATGACAGATTTGGCGTCTC
* *
18517987 TGTATTGTCAGAGAGCAGATCGAAGATAGCATATTTGGCGTCTCTGTATTGACAGAGAGCAGATC
66 TGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATC
18518052 AA
131 AA
* * * * * *
18518054 AGATAGCAGATTTGACGTCTCTGTATCGACGGGGAGCAGATAAAAAATAACAGATTTGGCGTCTC
1 AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAAATGACAGATTTGGCGTCTC
* * *
18518119 TGTATTGACAGAGAGCAGATTGAAGATAGAAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATC
66 TGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATC
*
18518184 GA
131 AA
* * *
18518186 AGAT-GACAGATTTGGCGTCTCTGTGTTGACAGAGAGCAGATCGAAGATGACAGATTTGGCGTCT
1 AGATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAAATGACAGATTTGGCGTCT
* *
18518250 CTGTATTAGCCAAAGAGCAGATCGAAGATAGCAGAT
65 CTGTATT-GACAGAGAGCAGATCGAAGATAGCAGAT
18518286 CTGACATTCG
Statistics
Matches: 200, Mismatches: 30, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
131 1 0.00
132 175 0.88
133 24 0.12
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (132 bp):
AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAAATGACAGATTTGGCGTCTC
TGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATC
AA
Found at i:18518334 original size:90 final size:90
Alignment explanation
Indices: 18518132--18518458 Score: 292
Period size: 90 Copynumber: 3.7 Consensus size: 90
18518122 ATTGACAGAG
* **
18518132 AGCAGATTGAAGATAGA-AGATTTGGTGTCTCTGTATT-GAC-AGAGAGCAGATCGAAGAT-GAC
1 AGCAGATCGAAGAT-GACAGATTTGGCATCTCTGTATTAGACAAG-GAGCAGATCGAAGATAG-C
* * * * *
18518193 AGATTTGGCGTCTC-TGTGTTGACA--GA
63 AGATCTGACAT-TCGTATGTTCACATCGA
* * *
18518219 GAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGCCAAAGAGCAGATCGAAGATAGCAG
1 -AGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAAGGAGCAGATCGAAGATAGCAG
*
18518284 ATCTGACATTCGTATGTTCGCATCGA
65 ATCTGACATTCGTATGTTCACATCGA
* * * ** * *
18518310 AGTAGATCGAAAATGACAGATTTGGCATCTCTGTGTTAGACGGGGAACAGATCGAAGATAGTAGA
1 AGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAAGGAGCAGATCGAAGATAGCAGA
* * *
18518375 TCTGACATTTGTATGTTTATATCGA
66 TCTGACATTCGTATGTTCACATCGA
* * * * * *
18518400 AGCAGA-CTGAAGATGACATATTTGGCCTCTCTGTTTTAGGCAAGGAGTAGATCAAAGAT
1 AGCAGATC-GAAGATGACAGATTTGGCATCTCTGTATTAGACAAGGAGCAGATCGAAGAT
18518459 TTCAGCATGG
Statistics
Matches: 196, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
87 2 0.01
88 34 0.17
89 34 0.17
90 124 0.63
91 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
AGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAAGGAGCAGATCGAAGATAGCAGA
TCTGACATTCGTATGTTCACATCGA
Found at i:18520043 original size:20 final size:22
Alignment explanation
Indices: 18519994--18520043 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 22
18519984 TCCTTTTATA
*
18519994 TATATACATTTTACATATAATT
1 TATATATATTTTACATATAATT
*
18520016 TAT-T-TATTTTA-A-ATATTT
1 TATATATATTTTACATATAATT
18520034 TATATATATT
1 TATATATATT
18520044 ATTTATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 8 0.33
19 2 0.08
20 10 0.42
21 1 0.04
22 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TATATATATTTTACATATAATT
Found at i:18520154 original size:17 final size:17
Alignment explanation
Indices: 18520122--18520166 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
18520112 TTCATTGTAC
18520122 ATTATATATATATATTTT
1 ATTATATAT-TATATTTT
18520140 ATTATATATTATATTTT
1 ATTATATATTATATTTT
18520157 ATTATATATT
1 ATTATATATT
18520167 GTTCTCTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATATATTATATTTT
Found at i:18520166 original size:12 final size:12
Alignment explanation
Indices: 18520122--18520163 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
18520112 TTCATTGTAC
18520122 ATTATATATATAT
1 ATTATAT-TATAT
*
18520135 ATTTTATTATAT
1 ATTATATTATAT
18520147 ATTATATT-T-T
1 ATTATATTATAT
18520157 ATTATAT
1 ATTATAT
18520164 ATTGTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 8 0.30
11 1 0.04
12 12 0.44
13 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATATTATAT
Found at i:18522884 original size:13 final size:14
Alignment explanation
Indices: 18522866--18522897 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18522856 TATTTGGTAA
18522866 ATTTTTT-AAAATT
1 ATTTTTTAAAAATT
18522879 ATTTTTTAAAAATT
1 ATTTTTTAAAAATT
18522893 ATTTT
1 ATTTT
18522898 CAGTGAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTTAAAAATT
Found at i:18524014 original size:20 final size:20
Alignment explanation
Indices: 18523974--18524014 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18523964 CTTCTAATTG
*
18523974 TATTTATATATATTATTATA
1 TATTTATATATAATATTATA
18523994 TATTTATATA-AATATTGATA
1 TATTTATATATAATATT-ATA
18524014 T
1 T
18524015 GCTAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTATATATAATATTATA
Found at i:18527156 original size:46 final size:45
Alignment explanation
Indices: 18527010--18527216 Score: 213
Period size: 46 Copynumber: 4.4 Consensus size: 45
18527000 TTTGTGTGTT
* *
18527010 AGTGTAAGACATGTCTGGGACATGCATTGGCCAT-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTTGA-GATGA-AGCC
* * * *
18527056 AGTGTAAGACCAAGTCTGGGACATGGCATTGGCATTGAGACGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTTGAGATG-AAGCC
* *
18527104 AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATG-AAGCC
* *
18527150 AGTGTAAGACATGTCTGGGACATGTCA-TCGACTTGATAGATG-AGCC
1 AGTGTAAGACATGTCTGGGACATG-CATTGGCCTTG--AGATGAAGCC
18527196 AGTGTAAGACCATGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
18527217 TATGGCATCG
Statistics
Matches: 137, Mismatches: 16, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
46 68 0.50
47 39 0.28
48 28 0.20
49 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGAAGCC
Found at i:18528939 original size:46 final size:43
Alignment explanation
Indices: 18528854--18528978 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 43
18528844 GTCAGGTGCT
18528854 GATGCAATGTCCCAGACATGGTCTTACACTGGCACATCTCGTA-GCC
1 GATGC-ATGTCCCAGACAT-GTC-TACACTGGCACATCTCG-AGGCC
* *
18528900 GATGCATGTTCCAGACATGTCTACCACTGGCTTATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTA-CACTGGC--ACATCTCGAGGCC
* *
18528946 AATGCATGTCCCAGACATGTCTTACACTAGCAC
1 GATGCATGTCCCAGACATGTC-TACACTGGCAC
18528979 TCGTCTCAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
43 2 0.03
44 11 0.16
45 13 0.19
46 40 0.59
47 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (43 bp):
GATGCATGTCCCAGACATGTCTACACTGGCACATCTCGAGGCC
Found at i:18534687 original size:56 final size:56
Alignment explanation
Indices: 18534601--18534720 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
18534591 ACAAGGGATG
18534601 ATGGGCAAAACATGTCATGAAACATGTTGTGTCAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTCAATGGAAAAATAAAATAAGAAGC
* *
18534657 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTCAATGGAAAAATAAAATAAGAAGC
18534713 ATGGGCAA
1 ATGGGCAA
18534721 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTCAATGGAAAAATAAAATAAGAAGC
Found at i:18536552 original size:49 final size:49
Alignment explanation
Indices: 18536483--18537033 Score: 928
Period size: 49 Copynumber: 11.5 Consensus size: 49
18536473 ATTCAGCCAA
18536483 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
18536530 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18536579 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18536626 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18536675 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18536722 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
18536771 GAAAGTG--TATATATGTGATAAGGCATAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18536818 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
18536867 GAAAGTGTATATATATGTGATAAGTCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18536916 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * *
18536965 GAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18537012 GAAAGTGTATA-A-ATGTGATAAG
1 GAAAGTGTATATATATGTGATAAG
18537034 TCCCGAAGGG
Statistics
Matches: 479, Mismatches: 15, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
47 196 0.41
48 1 0.00
49 282 0.59
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:18536647 original size:96 final size:96
Alignment explanation
Indices: 18536483--18537033 Score: 980
Period size: 96 Copynumber: 5.7 Consensus size: 96
18536473 ATTCAGCCAA
18536483 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
*
18536548 GATAAGGCCTAATGGCCAATGTGATGAATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
18536579 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
18536644 GATAAGGCCTAATGGCCGATGTGATGAATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
18536675 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
18536740 GATAAGGCCTAATGGCCGATGTGATGAATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
*
18536771 GAAAGTGTATATATGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
18536836 GATAAGGCCTAATGGCCGATGTGATGAATGT
66 GATAAGGCCTAATGGCCGATGTGATGAATGT
* *
18536867 GAAAGTGTATATATATGTGATAAGTCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATAT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
18536932 GTGATAAGGCCTAATGGCCGATGTGATGAATGT
64 GTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * *
18536965 GAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
18537028 GATAAG
66 GATAAG
18537034 TCCCGAAGGG
Statistics
Matches: 442, Mismatches: 11, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
94 10 0.02
95 1 0.00
96 338 0.76
98 93 0.21
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
GATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:18536744 original size:145 final size:144
Alignment explanation
Indices: 18536483--18537033 Score: 916
Period size: 145 Copynumber: 3.8 Consensus size: 144
18536473 ATTCAGCCAA
18536483 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGT
18536548 GATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
65 GATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
18536611 CGATGTGATGAATGT
130 CGATGTGATGAATGT
18536626 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATG
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATG
*
18536690 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
64 TGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
18536755 CCGATGTGATGAATGT
129 CCGATGTGATGAATGT
*
18536771 GAAAGTGTATATATGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGT
* *
18536836 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGTCCTAATGGC
65 GATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
*
18536901 CAATGTGATGAATGT
130 CGATGTGATGAATGT
18536916 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATG
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATG
* * * * *
18536980 TGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
64 TGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
18537034 TCCCGAAGGG
Statistics
Matches: 389, Mismatches: 11, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
143 109 0.28
144 1 0.00
145 233 0.60
147 46 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (144 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTG
ATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGT
Found at i:18537202 original size:37 final size:37
Alignment explanation
Indices: 18537152--18537267 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
18537142 CCGAGCTCTA
18537152 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
18537189 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * * *
18537226 AAGACCCGATAACTTCTTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
18537263 AAGAC
1 AAGAC
18537268 TTCGTAATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:18539270 original size:40 final size:40
Alignment explanation
Indices: 18539124--18539345 Score: 206
Period size: 40 Copynumber: 5.6 Consensus size: 40
18539114 TCGAATGATG
* * * *
18539124 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
18539164 TCCGGACTAAGAT-CCGAAGGCATTTG-GCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18539203 TCTGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18539241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** * * **
18539282 -CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTAAA
*
18539321 TCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
18539346 CATGCTAGTG
Statistics
Matches: 153, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
37 12 0.08
38 21 0.14
39 16 0.10
40 85 0.56
41 19 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18539338 original size:80 final size:80
Alignment explanation
Indices: 18539124--18539397 Score: 238
Period size: 80 Copynumber: 3.5 Consensus size: 80
18539114 TCGAATGATG
** * * *
18539124 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCATGCT-AGTGACTATATCCGGGCTAAGTTCCGAAGGCATT
18539188 TG-GCGAGTTACTA-A
65 TGTGCGAGTTACTATA
* ** * * * * *
18539202 TTCTGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGTTCCGAAGGCATT
18539265 TGTGCGAGTTACTATA
65 TGTGCGAGTTACTATA
* *
18539281 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAG-GCATTCATGCTAGTGACTATATCCGGGCTAAGTTCCGAAG-GCAT
** * * *
18539345 TCATGCTAGTGA-TGTA
64 TTGTGCGAGTTACTATA
* * * *
18539361 TCCGGGCTAGGTCTCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAG-GCATTCATGCTAGTGAC
18539398 GTGTATTCGG
Statistics
Matches: 157, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
77 37 0.24
78 26 0.17
79 11 0.07
80 59 0.38
81 24 0.15
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGTTCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:18539346 original size:40 final size:40
Alignment explanation
Indices: 18539282--18539396 Score: 178
Period size: 40 Copynumber: 2.9 Consensus size: 40
18539272 GTTACTATAA
*
18539282 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTAT
18539322 CCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
18539362 CCGGGCT-AGGTCTCGAAGAGCAATCATGCTGGTGA
1 CCGGGCTAAGTTC-CGAAGAGCATTCATGCTAGTGA
18539397 CGTGTATTCG
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.06
40 66 0.94
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTAT
Found at i:18540655 original size:56 final size:56
Alignment explanation
Indices: 18540569--18540688 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
18540559 ACAAGGGATG
18540569 ATGGGCAAAACATGTCATGAAACATGTTGTGTCAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTCAATGGAAAAATAAAATAAGAAGC
* *
18540625 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTCAATGGAAAAATAAAATAAGAAGC
18540681 ATGGGCAA
1 ATGGGCAA
18540689 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTCAATGGAAAAATAAAATAAGAAGC
Found at i:18542560 original size:47 final size:47
Alignment explanation
Indices: 18542436--18543169 Score: 1267
Period size: 47 Copynumber: 15.5 Consensus size: 47
18542426 GATTCAGCAA
18542436 GAAAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542482 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542531 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542578 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542625 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542672 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542721 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542770 GAAAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542816 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542863 GAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18542911 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
18542960 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGTTGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
18543007 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
18543054 GAAAGTGTATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
18543101 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
18543148 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
18543170 TCCCGAAGGG
Statistics
Matches: 666, Mismatches: 13, Indels: 17
0.96 0.02 0.02
Matches are distributed among these distances:
46 53 0.08
47 377 0.57
48 64 0.10
49 172 0.26
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:18543347 original size:34 final size:35
Alignment explanation
Indices: 18543309--18543389 Score: 101
Period size: 37 Copynumber: 2.3 Consensus size: 35
18543299 ACTACGATTT
* * *
18543309 CGGGTAAGACG-TGACTACGTGTGGGGATTTTGTC
1 CGGGTAAGACGATAACTACGTGTGGAGATTATGTC
*
18543343 CGGGTAAGACCCGATAACTTCGTGTGGAGATTATGTC
1 CGGGTAAGA--CGATAACTACGTGTGGAGATTATGTC
18543380 CGGGTAAGAC
1 CGGGTAAGAC
18543390 TTCGTAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 9 0.22
35 1 0.03
36 2 0.05
37 28 0.70
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (35 bp):
CGGGTAAGACGATAACTACGTGTGGAGATTATGTC
Found at i:18545689 original size:46 final size:45
Alignment explanation
Indices: 18545588--18545800 Score: 180
Period size: 46 Copynumber: 4.6 Consensus size: 45
18545578 GTGCCTATGC
* * *
18545588 CATGTCCCAGACATGGTCTTACACTGG-TACATCTC-ATAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCGA-GGCCGATG
* *
18545633 CATGTTCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATG
** * * **
18545679 CATGTCCCAGACATGTCTTACACTATCATTCGTCTCAACACCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCCGATG
* * * * *
18545725 ACATGTCCTAGACATGGTCTTACACCGACTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATG
*
18545773 CATGTCCCAGACTTGTCTTACACTGGCT
1 CATGTCCCAGACATGTCTTACACTGGCT
18545801 CACATAAGTG
Statistics
Matches: 135, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 60 0.44
47 29 0.21
48 19 0.14
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATG
Found at i:18573388 original size:40 final size:39
Alignment explanation
Indices: 18573321--18573485 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 39
18573311 GGACTAAGAT
* * *
18573321 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATATC
1 CCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTA-ATC
* * *
18573361 CCAAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAA-TC
*
18573401 CCGAAGGCATTTGTG-TGAGTTGCTATATCCGGGCTGAGA-C
1 CCGAAGGCATTTGTGCT-AGTTGTTATATCCGGGCT-A-ATC
*
18573441 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCT-AATC
18573480 CCGAAG
1 CCGAAG
18573486 ATACTTGGGT
Statistics
Matches: 105, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.15
40 84 0.80
41 3 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAATC
Found at i:18573448 original size:80 final size:80
Alignment explanation
Indices: 18573309--18573485 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
18573299 CGGATGATAA
* * *
18573309 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATATCCCAAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAGATCCCAAAGGCATTTA
*
18573374 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* * *
18573389 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCTATATCCGGGCTGAGA-CCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCT-AGATCCCAAAGGCATTT
*
18573453 GTGCGAGTTGTTATAT
65 ATGCGAGTTGTTATAT
18573469 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
18573486 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 68 0.79
81 4 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAGATCCCAAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:18580675 original size:40 final size:40
Alignment explanation
Indices: 18580556--18580723 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
18580546 CGGATGATAA
* * *
18580556 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * * *
18580596 CCGAGCTATGTCCCAAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
18580636 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
18580676 CCGGGCTGAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
18580716 CC-GGCTAA
1 CCGGGCTAA
18580724 ATCTCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 7 0.07
40 97 0.92
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:18586444 original size:21 final size:21
Alignment explanation
Indices: 18586416--18586456 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
18586406 CAAAACTTGT
18586416 ATAACTATCA-TCAAACATCC
1 ATAACTATCATTCAAACATCC
*
18586436 ATAATCTATCATTTAAACATC
1 ATAA-CTATCATTCAAACATC
18586457 AAAATACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAACTATCATTCAAACATCC
Found at i:18600810 original size:12 final size:12
Alignment explanation
Indices: 18600793--18600818 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18600783 AAAATATGGA
18600793 AATAAACAAAGT
1 AATAAACAAAGT
18600805 AATAAACAAAGT
1 AATAAACAAAGT
18600817 AA
1 AA
18600819 GCTTTATAGC
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:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AATAAACAAAGT
Found at i:18605431 original size:18 final size:17
Alignment explanation
Indices: 18605404--18605444 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
18605394 AGAAATAATC
*
18605404 AAAATTAATAAAAATAAA
1 AAAATAAAT-AAAATAAA
18605422 AAAATAAATAAAATAAA
1 AAAATAAATAAAATAAA
18605439 ATAAAT
1 A-AAAT
18605445 TTTCTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAATAAAATAAA
Found at i:18613143 original size:29 final size:28
Alignment explanation
Indices: 18613102--18613158 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
18613092 GTCTGAACTA
18613102 CTGATATCATGGCCCGAAGCCAAATCAG
1 CTGATATCATGGCCCGAAGCCAAATCAG
*
18613130 CTGATATTCATGGCCCGAATCCAAATCAG
1 CTGATA-TCATGGCCCGAAGCCAAATCAG
18613159 TATAACTCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (28 bp):
CTGATATCATGGCCCGAAGCCAAATCAG
Found at i:18617476 original size:110 final size:112
Alignment explanation
Indices: 18617264--18617486 Score: 301
Period size: 110 Copynumber: 2.0 Consensus size: 112
18617254 TTTCTTAACG
* * **
18617264 AAATTTTCACACAATCATATTATCATGCTGTAGACATTAAAATAATAATAAAATAAAAATTTTGA
1 AAATTTTCACACAAACATATTATCATGCTATAGACATT-AAATAATAATAAAATAAAAATTTCAA
*
18617329 CCTCGTATTTTTGGTTTCAAAACCACTATTCTAATTTGACTAAAAACA
65 CCTCGTATTTGTGGTTTCAAAACCACTATTCTAATTTGACTAAAAACA
*
18617377 AAATTTTCACACAAACATATTATCATGTTATAGACATT-AA-AATAATAAAATAAATAA-TTCAA
1 AAATTTTCACACAAACATATTATCATGCTATAGACATTAAATAATAATAAAATAAA-AATTTCAA
* * * *
18617439 CCTCGTATTTGTGG-TTCTAAAACCACTGTTTTGATTTGATTAAAAACA
65 CCTCGTATTTGTGGTTTC-AAAACCACTATTCTAATTTGACTAAAAACA
18617487 GGCTATTACA
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
109 3 0.03
110 56 0.57
111 4 0.04
113 35 0.36
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (112 bp):
AAATTTTCACACAAACATATTATCATGCTATAGACATTAAATAATAATAAAATAAAAATTTCAAC
CTCGTATTTGTGGTTTCAAAACCACTATTCTAATTTGACTAAAAACA
Found at i:18618529 original size:61 final size:61
Alignment explanation
Indices: 18618445--18618599 Score: 231
Period size: 61 Copynumber: 2.5 Consensus size: 61
18618435 TAGGCTTAGA
* *
18618445 GCAATAAGTGTGTTTTGATCATTACTTTAAAATAGTTCTAAAAATTACAAGGATTT-TTTCT
1 GCAATAAGTGTGTTTTGAACATTACTTTGAAATAGTTCTAAAAATTACAAGGATTTCTTT-T
* * * *
18618506 GCAATAAGTGGGTTGTGAACATTACTTTGAAATAGTTTTAAAAATTACAGGGATTTCTTTT
1 GCAATAAGTGTGTTTTGAACATTACTTTGAAATAGTTCTAAAAATTACAAGGATTTCTTTT
*
18618567 GCAGTAAGTGTGTTTTGAACATTACTTTGAAAT
1 GCAATAAGTGTGTTTTGAACATTACTTTGAAAT
18618600 GTCTGATAGG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
61 81 0.96
62 3 0.04
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (61 bp):
GCAATAAGTGTGTTTTGAACATTACTTTGAAATAGTTCTAAAAATTACAAGGATTTCTTTT
Found at i:18620037 original size:27 final size:27
Alignment explanation
Indices: 18619989--18620041 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18619979 CAGTAACAAT
*
18619989 TGGGCCTAGCCCATTAACAGAATCAAG
1 TGGGCCTAGCCCAATAACAGAATCAAG
*
18620016 TGGGCCTAAGCCCAAT-ATAGAATCAA
1 TGGGCCT-AGCCCAATAACAGAATCAA
18620042 TATAAGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAGAATCAAG
Found at i:18620875 original size:15 final size:15
Alignment explanation
Indices: 18620855--18620885 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18620845 ACAGTGAAGT
18620855 TTACACACATAGGCC
1 TTACACACATAGGCC
18620870 TTACACACATAGGCC
1 TTACACACATAGGCC
18620885 T
1 T
18620886 ACTCCCAGGC
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:0.32, C:0.32, G:0.13, T:0.23
Consensus pattern (15 bp):
TTACACACATAGGCC
Found at i:18625772 original size:43 final size:42
Alignment explanation
Indices: 18625687--18625800 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
18625677 GATGCTACTA
* * * *
18625687 TCCCAGACAGGGTCTTACACGAATCATAATACGATGTCAATG
1 TCCCAGACATGGTCTTACACGAATCACAATACAATGCCAATG
* * *
18625729 TCCCAGACATGGTCTTACGCATAATCACACTACAATGCCAATG
1 TCCCAGACATGGTCTTACAC-GAATCACAATACAATGCCAATG
* *
18625772 TCCCAGACATGCTCTTACATGTAATCACA
1 TCCCAGACATGGTCTTACACG-AATCACA
18625801 TCTCAATAAC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 18 0.31
43 41 0.69
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAATCACAATACAATGCCAATG
Found at i:18631307 original size:51 final size:51
Alignment explanation
Indices: 18631242--18631339 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
18631232 GATATATGAG
*
18631242 GCATCCGAGCTCGTTGA-ATGGTTCGAGTTCATAATGGATGTGATACATGTA
1 GCATCCGAGCTCGTTGAGA-GGTTCGAGTTCATAATAGATGTGATACATGTA
* * *
18631293 GCATCCGAGCTCGTTGAGAGGTTCGAGTTTATTATAGATGTGTTACA
1 GCATCCGAGCTCGTTGAGAGGTTCGAGTTCATAATAGATGTGATACA
18631340 AGTTATAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (51 bp):
GCATCCGAGCTCGTTGAGAGGTTCGAGTTCATAATAGATGTGATACATGTA
Found at i:18639116 original size:32 final size:32
Alignment explanation
Indices: 18639075--18639138 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
18639065 TCGTTCTAAG
18639075 ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
1 ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
18639107 ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
1 ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
18639139 CTCGACAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.31, T:0.28
Consensus pattern (32 bp):
ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
Found at i:18645018 original size:10 final size:9
Alignment explanation
Indices: 18644996--18645029 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
18644986 TTCTAAAAAG
18644996 GTTAGACTA
1 GTTAGACTA
18645005 GTTAGACATA
1 GTTAGAC-TA
18645015 GTTAGACTA
1 GTTAGACTA
*
18645024 GATAGA
1 GTTAGA
18645030 TATTTGTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (9 bp):
GTTAGACTA
Found at i:18653357 original size:27 final size:27
Alignment explanation
Indices: 18653320--18653524 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
18653310 TAAATTGTAC
*
18653320 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18653347 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
18653374 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
18653400 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
18653427 CGACACTAAGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGATTTGACTATGT
*
18653455 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
18653483 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18653510 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18653525 GACTTAATAT
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 126 0.83
28 25 0.16
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18653381 original size:54 final size:54
Alignment explanation
Indices: 18653321--18653524 Score: 241
Period size: 54 Copynumber: 3.8 Consensus size: 54
18653311 AAATTGTACA
* * *
18653321 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
** ** *
18653375 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATG-C
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTC
** *
18653428 GACACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 G-CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTC
* * *
18653484 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
18653525 GACTTAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 79 0.62
55 45 0.35
56 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
Found at i:18661418 original size:27 final size:27
Alignment explanation
Indices: 18661381--18661585 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
18661371 TAAATTGTAC
*
18661381 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18661408 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
18661435 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18661461 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
18661489 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18661516 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
18661544 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18661571 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18661586 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18661442 original size:54 final size:54
Alignment explanation
Indices: 18661382--18661585 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
18661372 AAATTGTACA
* * *
18661382 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
18661436 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
18661490 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
18661545 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
18661586 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:18664288 original size:20 final size:18
Alignment explanation
Indices: 18664265--18664301 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
18664255 ACCTAACATG
18664265 AATTAAATCTAAATCATATT
1 AATTAAAT-TAAA-CATATT
18664285 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
18664302 CAACATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:18667895 original size:16 final size:15
Alignment explanation
Indices: 18667869--18667898 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18667859 AACTATTTTA
18667869 TTACAAATTTCACTC
1 TTACAAATTTCACTC
18667884 TTACATAATTTCACT
1 TTACA-AATTTCACT
18667899 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:18668210 original size:50 final size:50
Alignment explanation
Indices: 18668112--18668382 Score: 206
Period size: 50 Copynumber: 5.4 Consensus size: 50
18668102 GTACGCATAG
* * * **
18668112 CTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACATGTAGTAGC
1 CTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACATAGTAGC
* * * **
18668161 CTGCACTTAGTATTACACACGTGACCTGACCATCTGATACATGTAGTAGC
1 CTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACATAGTAGC
* * * ** * * * *
18668211 CTGCACTTACTATTACACAAGTGATCGGAACTATCAGCTACGCATAGTAGC
1 CTGCACTTAGTACTACACACGTGA-CCTAACCATCTGGTACACATAGTAGC
* * *
18668262 CTGCACCTAGTAC-A-ACGCGTGCGACCTAACCATCTGGTACACATAGTAGT
1 CTGCACTTAGTACTACACACGT--GACCTAACCATCTGGTACACATAGTAGC
* * *** *
18668312 CTGCACTTAGTACTACACAGGTGACCTAAAACCATTTTAAACACACAGTAGC
1 CTGCACTTAGTACTACACACGTGACCT--AACCATCTGGTACACATAGTAGC
* *
18668364 CTGTACATAGTACTACACA
1 CTGCACTTAGTACTACACA
18668383 TGTGGTCTCA
Statistics
Matches: 174, Mismatches: 40, Indels: 13
0.77 0.18 0.06
Matches are distributed among these distances:
49 27 0.16
50 79 0.45
51 30 0.17
52 38 0.22
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACATAGTAGC
Found at i:18670425 original size:340 final size:341
Alignment explanation
Indices: 18669803--18670489 Score: 1162
Period size: 340 Copynumber: 2.0 Consensus size: 341
18669793 CCATAAAAAT
* * * * *
18669803 ATAATAAAAATAAATTTTAATGTGTCGAATTTGTGGTCCCAAAACCACTGTTCCGACTAGGTCAT
1 ATAATAAAAACAAATTTTAATGTGTCAAATTTGAGATCCCAAAACCACTGTTCCGACTAGGCCAT
* *
18669868 AATTCGGGATGTTACAACTCTCCCCCTTTTAGGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
66 AATTCGGGATGTTACAACTCTCCCCCCTTTAAGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
*
18669933 TGGTTCGATTTTCAAATAAACTCCACTATCTCATAATCATTGTTGAATAACTTTTACTCAGGCTA
131 TGGTTCGATTTTCAAATAAACTCCACTATCTCATAATCATTGCTGAATAACTTTTACTCAGGCTA
* *
18669998 TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGTCATGAACAATTCCGTGTTATACGACGC
196 TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGACATGAACAATTCCGTGTTATAAGACGC
* * *
18670063 ATCAATTGAATCTTGACTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCGTCGGA
261 ATCAATCGAATCTTGACTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCATCAGA
18670128 GAATAAGTATTTACAC
326 GAATAAGTATTTACAC
* ** * *
18670144 ATAATAAAAACAAATTTTACTGTGTCAAATTTGAGATCCTGAAACCACTGTTCTGACTAGGCCCT
1 ATAATAAAAACAAATTTTAATGTGTCAAATTTGAGATCCCAAAACCACTGTTCCGACTAGGCCAT
18670209 AATTCGGGATGTTA-AACTCTCCCCCCTTTAAGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
66 AATTCGGGATGTTACAACTCTCCCCCCTTTAAGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
* *
18670273 TGGTTCGATTTTCACATAAACTCCACTATCTCATAATCATTGCTGAATAACTTTTACTCGGGCTA
131 TGGTTCGATTTTCAAATAAACTCCACTATCTCATAATCATTGCTGAATAACTTTTACTCAGGCTA
*
18670338 TGTTTAATACTTAGCTCTTTAATTTCTCATGCTAAAGACATGAACAATTCCGTGTTATAAGACGC
196 TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGACATGAACAATTCCGTGTTATAAGACGC
18670403 ATCAATCGAATCTT-AGCTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCATCAG
261 ATCAATCGAATCTTGA-CTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCATCAG
18670467 AGAATAAGTATTTACAC
325 AGAATAAGTATTTACAC
18670484 ATAATA
1 ATAATA
18670490 CTTGAATCCT
Statistics
Matches: 324, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
339 1 0.00
340 254 0.78
341 69 0.21
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (341 bp):
ATAATAAAAACAAATTTTAATGTGTCAAATTTGAGATCCCAAAACCACTGTTCCGACTAGGCCAT
AATTCGGGATGTTACAACTCTCCCCCCTTTAAGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
TGGTTCGATTTTCAAATAAACTCCACTATCTCATAATCATTGCTGAATAACTTTTACTCAGGCTA
TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGACATGAACAATTCCGTGTTATAAGACGC
ATCAATCGAATCTTGACTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCATCAGA
GAATAAGTATTTACAC
Found at i:18671728 original size:15 final size:15
Alignment explanation
Indices: 18671694--18671753 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
18671684 TATAGATAAC
* * *
18671694 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
18671709 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
18671724 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
18671739 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
18671754 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:18675632 original size:50 final size:50
Alignment explanation
Indices: 18675513--18675790 Score: 256
Period size: 50 Copynumber: 5.5 Consensus size: 50
18675503 CTGGTATGCA
* * *
18675513 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA-TACACG
* * * *
18675562 TATTAGACTGCACCTAGTACTACACGCGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * ** * * ** *
18675612 TAATAGCCTACACTTAGTACTACACACGTGA-TTGAAAATATCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
* * *
18675663 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
18675713 TAGTAGCCTGCACTTAGTACTACACAGGTGACCTAAAACCATTTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
18675765 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
18675791 TGTGTTCTCA
Statistics
Matches: 183, Mismatches: 39, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
49 29 0.16
50 80 0.44
51 37 0.20
52 37 0.20
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:18681601 original size:14 final size:14
Alignment explanation
Indices: 18681582--18681612 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18681572 CAAATCACCA
18681582 GGCCAGTTTGGTTG
1 GGCCAGTTTGGTTG
18681596 GGCCAGTTTGGTTG
1 GGCCAGTTTGGTTG
18681610 GGC
1 GGC
18681613 TAAATGACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.16, G:0.45, T:0.32
Consensus pattern (14 bp):
GGCCAGTTTGGTTG
Found at i:18686620 original size:14 final size:14
Alignment explanation
Indices: 18686601--18686632 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18686591 TCAAATCACC
18686601 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
18686615 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
18686629 GGGC
1 GGGC
18686633 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:18687355 original size:23 final size:21
Alignment explanation
Indices: 18687302--18687353 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
18687292 TTTGTTGGTC
*
18687302 AAATTTTATACTTTTGTATAT
1 AAATTTTATACTTTGGTATAT
18687323 AAATTTTATACTTTGGTATAT
1 AAATTTTATACTTTGGTATAT
18687344 AAATTTTATA
1 AAATTTTATA
18687354 TATTTTCGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (21 bp):
AAATTTTATACTTTGGTATAT
Found at i:18687408 original size:17 final size:16
Alignment explanation
Indices: 18687386--18687439 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 16
18687376 AAAATGTACA
*
18687386 TATTTTCTTATATTAT
1 TATTTTTTTATATTAT
*
18687402 TATTTTTGTA-A-TAT
1 TATTTTTTTATATTAT
*
18687416 TATTTGTTTATATTAT
1 TATTTTTTTATATTAT
18687432 ATATTTTT
1 -TATTTTT
18687440 GACTCAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 11 0.37
15 2 0.07
16 11 0.37
17 6 0.20
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.69
Consensus pattern (16 bp):
TATTTTTTTATATTAT
Found at i:18688741 original size:10 final size:10
Alignment explanation
Indices: 18688726--18688772 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
18688716 CTAGGATGTG
18688726 AATTGAATTA
1 AATTGAATTA
18688736 AATTGAATTA
1 AATTGAATTA
18688746 AATTGAATATGA
1 AATTGAAT-T-A
*
18688758 AA-TGGATTA
1 AATTGAATTA
18688767 AATTGA
1 AATTGA
18688773 CATCAAATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 3 0.09
10 21 0.66
11 5 0.16
12 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (10 bp):
AATTGAATTA
Found at i:18701760 original size:18 final size:18
Alignment explanation
Indices: 18701737--18701773 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18701727 CGAGGACGAA
18701737 AATTCTTTAAGGCGGGAG
1 AATTCTTTAAGGCGGGAG
18701755 AATTCTTTAAGGCGGGAG
1 AATTCTTTAAGGCGGGAG
18701773 A
1 A
18701774 GTTGTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.27
Consensus pattern (18 bp):
AATTCTTTAAGGCGGGAG
Found at i:18702228 original size:24 final size:24
Alignment explanation
Indices: 18702196--18702245 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
18702186 AACCCTAGGA
18702196 AAGAGAAAGAAAATTAAGCAAGCC
1 AAGAGAAAGAAAATTAAGCAAGCC
*
18702220 AAGAGAAAGAAAATTAAGCATGCC
1 AAGAGAAAGAAAATTAAGCAAGCC
18702244 AA
1 AA
18702246 ATTGGGTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.12, G:0.20, T:0.10
Consensus pattern (24 bp):
AAGAGAAAGAAAATTAAGCAAGCC
Found at i:18702695 original size:21 final size:20
Alignment explanation
Indices: 18702671--18702709 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18702661 TGTGAATTGA
18702671 ATTAAATTGAATATGAAATGG
1 ATTAAATTG-ATATGAAATGG
*
18702692 ATTAAATTGATATTAAAT
1 ATTAAATTGATATGAAAT
18702710 TCATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTAAATTGATATGAAATGG
Found at i:18709040 original size:47 final size:47
Alignment explanation
Indices: 18708986--18709389 Score: 657
Period size: 47 Copynumber: 8.6 Consensus size: 47
18708976 TATTTGAATA
*
18708986 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* *
18709033 AATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* *
18709080 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
18709129 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
18709176 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
18709223 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
18709270 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * * *
18709316 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* *
18709363 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
18709390 TCCCGAAGGG
Statistics
Matches: 335, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 44 0.13
47 248 0.74
49 43 0.13
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:18709145 original size:143 final size:143
Alignment explanation
Indices: 18708986--18709389 Score: 710
Period size: 143 Copynumber: 2.9 Consensus size: 143
18708976 TATTTGAATA
18708986 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
18709051 TGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
18709116 AGCCGATGTGATG
131 AGCCGATGTGATG
18709129 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
18709194 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
*
18709257 GGCCGATGTGATG
131 AGCCGATGTGATG
*
18709270 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
18709334 TGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
18709390 TCCCGAAGGG
Statistics
Matches: 252, Mismatches: 7, Indels: 7
0.95 0.03 0.03
Matches are distributed among these distances:
140 73 0.29
141 72 0.29
142 2 0.01
143 105 0.42
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
AGCCGATGTGATG
Found at i:18716114 original size:5 final size:5
Alignment explanation
Indices: 18716104--18716141 Score: 58
Period size: 5 Copynumber: 7.2 Consensus size: 5
18716094 TTGTGTGTTC
18716104 TTTAT TTTATT TTATAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTA-T TT-TAT TTTAT TTTAT TTTAT TTTAT T
18716142 CACAAATTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 23 0.74
6 6 0.19
7 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:18720550 original size:5 final size:6
Alignment explanation
Indices: 18720531--18720567 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
18720521 TTGTGTGTTC
18720531 TTTATT TTTATT TTTATT TTTA-T TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
18720568 CTCAGTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:18723742 original size:21 final size:21
Alignment explanation
Indices: 18723713--18723755 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18723703 AGAACATGCC
*
18723713 AACAGAAGCTCGTGAGAGCTG
1 AACAAAAGCTCGTGAGAGCTG
18723734 AACAAAAGCTCGTGAGAGCTG
1 AACAAAAGCTCGTGAGAGCTG
18723755 A
1 A
18723756 TCCACCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.14
Consensus pattern (21 bp):
AACAAAAGCTCGTGAGAGCTG
Found at i:18735051 original size:46 final size:46
Alignment explanation
Indices: 18734981--18735208 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
18734971 TTTGACATGA
* * * * * * *
18734981 TGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
18735027 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
18735073 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18735119 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18735165 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
18735209 AGAGCACACT
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 163 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:18737977 original size:46 final size:44
Alignment explanation
Indices: 18737866--18737981 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 44
18737856 TTACAGATAT
18737866 CATGTCCCAGACATGGTCTTACACTAACACAGCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAACACAGCTCGTAGCCGATG
* * * * ** *
18737911 CATGTCCCAAACAAGCCTTACATTGGCTTACATCTCG-AGCCTGATG
1 CATGTCCCAGACATGTCTTACACTAAC--ACAGCTCGTAGCC-GATG
18737957 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
18737982 GCATACGAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
44 9 0.16
45 16 0.29
46 31 0.55
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAACACAGCTCGTAGCCGATG
Found at i:18740006 original size:47 final size:46
Alignment explanation
Indices: 18739936--18740291 Score: 214
Period size: 47 Copynumber: 7.7 Consensus size: 46
18739926 TTTGTGCGCT
* * * *
18739936 AGTGTAAG-GCATGTCTCGGACATGCTTCGGCCACATTTTGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCCACA-TATGAGAGCC
* * * * *
18739982 AGTGTAAGACCATGTCTAGTACATGGCATCGG-CATCCAGACGAGGGCT
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGCCA--CATATGAGAGCC
* * *
18740030 AGTGTAAGA-CATGTCTAGGACATGCATCAGCCATACTATGATAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCCACA-TATGAGAGCC
* * * *
18740076 AGTGTAAGACCATGTCTGGGACATGGCATTGG--A-AAATGAGTGCC
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGCCACATATGAGAGCC
* * *
18740120 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGACAGA-GATAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATCGG-C-C-ACATATGAGAGCC
* * * * * * * *
18740167 AGTGTAAGA-CGTGTTTGGGACACGCATCGGCTA-AGA-GATGTGCT
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCCACATATGA-GAGCC
* * ** *
18740211 AGTGTAAGA-CATGTTTGGGACATGCATTAGCACGCGTATATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGC-CAC--ATATGAGAGCC
18740259 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGC
18740292 AATATAACCC
Statistics
Matches: 241, Mismatches: 47, Indels: 40
0.73 0.14 0.12
Matches are distributed among these distances:
42 6 0.02
43 19 0.08
44 46 0.19
45 2 0.01
46 30 0.12
47 75 0.31
48 41 0.17
49 16 0.07
50 6 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCCACATATGAGAGCC
Found at i:18740100 original size:94 final size:91
Alignment explanation
Indices: 18739933--18740292 Score: 333
Period size: 94 Copynumber: 3.9 Consensus size: 91
18739923 TGATTTGTGC
* * * * * * *
18739933 GCTAGTGTAAGGCATGTCTCGGACATGCTTCGGCCACATTTTGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
* *
18739998 TAGTACATGGCATCGGCATCCAGACGAGG
66 TAGGACATGGCATCGGCAT--AGA-GAGT
* *
18740027 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
* * *
18740092 TGGGACATGGCATTGG-A-AAATGAGT
66 TAGGACATGGCATCGGCATAGA-GAGT
* * *
18740117 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCA
* * *
18740178 TGTTTGGGACA-CGCATCGGC-TAAGAGATGT
62 TGTCTAGGACATGGCATCGGCAT-AGAGA-GT
* * *
18740208 GCTAGTGTAAGACATGTTTGGGACATGCATTAGCACGCGTA-TATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCAT
18740272 GTCTAGGACATGGCATCGGCA
63 GTCTAGGACATGGCATCGGCA
18740293 ATATAACCCA
Statistics
Matches: 218, Mismatches: 31, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
89 9 0.04
90 51 0.23
91 48 0.22
92 13 0.06
93 14 0.06
94 82 0.38
95 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
TAGGACATGGCATCGGCATAGAGAGT
Found at i:18747213 original size:30 final size:30
Alignment explanation
Indices: 18747156--18747213 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
18747146 TTTTCGAGTA
**
18747156 TAGGGGCAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
18747186 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
18747214 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:18747624 original size:47 final size:45
Alignment explanation
Indices: 18747556--18747820 Score: 194
Period size: 46 Copynumber: 5.7 Consensus size: 45
18747546 TTTGTGCGCT
* * * *
18747556 AGTGTAAGACATGTCTAGGACATGCTTTGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCACA-TATGAGAGCC
* * * *
18747602 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CATCCAGACGAGGGCT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCA--CATATGAGAGCC
* * *
18747650 AGTGTAAGACATGTTTGGGACATGCATCAGCCATACTATGATAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCACA-TATGAGAGCC
* * * * * * *
18747696 AGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGA-GATGTGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATATGA-GAGCC
* * * *
18747740 AGTGTAAGACATATCTGGGACATGCATCAGCACGCGTATATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGC-CAC--ATATGAGAGCC
*
18747788 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGC
18747821 AATATAACCC
Statistics
Matches: 170, Mismatches: 35, Indels: 24
0.74 0.15 0.10
Matches are distributed among these distances:
43 2 0.01
44 30 0.18
45 2 0.01
46 48 0.28
47 30 0.18
48 34 0.20
49 17 0.10
50 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCACATATGAGAGCC
Found at i:18752420 original size:15 final size:15
Alignment explanation
Indices: 18752395--18752437 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
18752385 TTTTCTTTAA
*
18752395 AAAATTCTAAAATTT
1 AAAATTTTAAAATTT
* *
18752410 ATAATTTTAAATTTT
1 AAAATTTTAAAATTT
*
18752425 AAAATTTCAAAAT
1 AAAATTTTAAAAT
18752438 AATATATAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAATTTTAAAATTT
Found at i:18752590 original size:17 final size:17
Alignment explanation
Indices: 18752564--18752597 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18752554 TTTTTTCTAA
18752564 ATATTCTTTACAATTTT
1 ATATTCTTTACAATTTT
* *
18752581 ATATTTTTTACAGTTTT
1 ATATTCTTTACAATTTT
18752598 TAGTAATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (17 bp):
ATATTCTTTACAATTTT
Found at i:18769696 original size:11 final size:11
Alignment explanation
Indices: 18769664--18769697 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18769654 CAACAACTGA
*
18769664 AAAAAGAAAAA
1 AAAAAGAAAAG
18769675 AAAAAGAAAAG
1 AAAAAGAAAAG
*
18769686 AAAGAGAAAAG
1 AAAAAGAAAAG
18769697 A
1 A
18769698 GATAGTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:18774547 original size:10 final size:9
Alignment explanation
Indices: 18774534--18774577 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 9
18774524 GGAAATTTAT
18774534 AAAAATGATA
1 AAAAAT-ATA
18774544 AAAAGATATA
1 AAAA-ATATA
18774554 GAAAAATAATA
1 -AAAAAT-ATA
18774565 AAAAATATA
1 AAAAATATA
18774574 AAAA
1 AAAA
18774578 TTCTATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.23
10 15 0.48
11 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (9 bp):
AAAAATATA
Found at i:18774558 original size:21 final size:19
Alignment explanation
Indices: 18774534--18774577 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
18774524 GGAAATTTAT
*
18774534 AAAAATGATAAAAAGATATA
1 AAAAATAATAAAAA-ATATA
18774554 GAAAAATAATAAAAAATATA
1 -AAAAATAATAAAAAATATA
18774574 AAAA
1 AAAA
18774578 TTCTATAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 13 0.59
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (19 bp):
AAAAATAATAAAAAATATA
Found at i:18778063 original size:30 final size:30
Alignment explanation
Indices: 18778029--18778091 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
18778019 ACTTAACAAG
*
18778029 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGACTCTAAAATAATAACAAAATTAA
*
18778059 CAAATGACTTTAAAATAATAACAAAATTAA
1 CAAATGACTCTAAAATAATAACAAAATTAA
18778089 CAA
1 CAA
18778092 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGACTCTAAAATAATAACAAAATTAA
Found at i:18780477 original size:21 final size:22
Alignment explanation
Indices: 18780444--18780484 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18780434 TTCCTTTATG
*
18780444 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
18780465 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
18780485 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:18786282 original size:26 final size:26
Alignment explanation
Indices: 18786252--18786305 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
18786242 ATGGGAATAG
18786252 TTCAAATTTAGAATATTGATGTTAGA
1 TTCAAATTTAGAATATTGATGTTAGA
18786278 TTCAAATTTAGAATATTGATGTTAGA
1 TTCAAATTTAGAATATTGATGTTAGA
18786304 TT
1 TT
18786306 TACAAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (26 bp):
TTCAAATTTAGAATATTGATGTTAGA
Found at i:18790226 original size:45 final size:45
Alignment explanation
Indices: 18790143--18790228 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
18790133 TTTCAATTCT
* * *
18790143 TAATTTAACAATATTCCATTTCTCAACAATATATTAAATACTTAA
1 TAATTTAACAACATACCATTTCTCAACAATATACTAAATACTTAA
* *
18790188 TAATTTAACAACATACTATTTTTCAACAA-AGTACTAAATAC
1 TAATTTAACAACATACCATTTCTCAACAATA-TACTAAATAC
18790229 ATATTAACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 34 0.97
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (45 bp):
TAATTTAACAACATACCATTTCTCAACAATATACTAAATACTTAA
Found at i:18797828 original size:25 final size:26
Alignment explanation
Indices: 18797800--18797864 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
18797790 CAATTTATAG
18797800 CTCGTGAGAGCATACT-GA-TCTACAA
1 CTCGTGAGAGCATACTCGATTC-ACAA
* *
18797825 CTCGAGTGAGCATA-TCGATTCACAA
1 CTCGTGAGAGCATACTCGATTCACAA
18797850 CTCGT-ATGAGCATAC
1 CTCGTGA-GAGCATAC
18797865 ATGTACATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
24 1 0.03
25 29 0.91
26 2 0.06
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (26 bp):
CTCGTGAGAGCATACTCGATTCACAA
Found at i:18801545 original size:3 final size:3
Alignment explanation
Indices: 18801531--18801599 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
18801521 AAATAAATGA
* * *
18801531 AAT AAT AGT AAT AAT AAT AAT AAT AAT ACA- AGT AAA AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT -AAT AAT
* *
18801577 -TT AAT TAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AA
18801600 ATGAATTATG
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 7 0.14
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18801608 original size:24 final size:23
Alignment explanation
Indices: 18801508--18801601 Score: 72
Period size: 25 Copynumber: 4.0 Consensus size: 23
18801498 GTACAATTTG
*
18801508 TAATAAAATATATAAATAAATGAAA
1 TAATATAATA-ATAAATAAAT-AAA
18801533 TAATAGTAATAAT-AAT-AAT-AA
1 TAATA-TAATAATAAATAAATAAA
* *
18801554 TAATACAAGTAA-AAATAAATAATT
1 TAATATAA-TAATAAATAAATAA-A
18801578 TAATTATAATAATAAAT-AATAAA
1 TAA-TATAATAATAAATAAATAAA
18801601 T
1 T
18801602 GAATTATGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
20 2 0.04
21 13 0.23
22 3 0.05
23 5 0.09
24 14 0.25
25 15 0.27
26 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (23 bp):
TAATATAATAATAAATAAATAAA
Found at i:18802397 original size:22 final size:22
Alignment explanation
Indices: 18802367--18802408 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18802357 CGCTCTGATT
18802367 ATTAACACAT-TAGTGCTCTCCA
1 ATTAACACATGT-GTGCTCTCCA
*
18802389 ATTAGCACATGTGTGCTCTC
1 ATTAACACATGTGTGCTCTC
18802409 TGTTTATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ATTAACACATGTGTGCTCTCCA
Found at i:18807516 original size:13 final size:13
Alignment explanation
Indices: 18807478--18807516 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
18807468 AACTTTGTAA
18807478 AAAATATTTTAAT
1 AAAATATTTTAAT
* * *
18807491 ACAATAATATAAT
1 AAAATATTTTAAT
18807504 AAAATATTTTAAT
1 AAAATATTTTAAT
18807517 TTTATGAAAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATTTTAAT
Found at i:18807888 original size:61 final size:61
Alignment explanation
Indices: 18807818--18807941 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
18807808 GGTCAGATTG
* * *
18807818 TGGTAACATGTTGTGTACTTCATAGCTTCACTTGTTAGTAGAATTGGGATGACCCATACTT
1 TGGTAACATGTTGTATACTTCATAGCGTCACTTGTTAGTAGAATTGGAATGACCCATACTT
*
18807879 TGGTAACATGTTGTATACTTCATAGCGTCACTTGTTAGTAGAATTGGAATGACCTATACTT
1 TGGTAACATGTTGTATACTTCATAGCGTCACTTGTTAGTAGAATTGGAATGACCCATACTT
18807940 TG
1 TG
18807942 AAGAGTACAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (61 bp):
TGGTAACATGTTGTATACTTCATAGCGTCACTTGTTAGTAGAATTGGAATGACCCATACTT
Found at i:18809244 original size:28 final size:28
Alignment explanation
Indices: 18809200--18809254 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18809190 CCAAACAATA
*
18809200 TTTTCTTTTAATTTTTTTATTCTTTTAC
1 TTTTCTTTTAATCTTTTTATTCTTTTAC
*
18809228 TTTTACTTTTAA-CTTTTTATTTTTTTA
1 TTTT-CTTTTAATCTTTTTATTCTTTTA
18809255 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTCTTTTAATCTTTTTATTCTTTTAC
Found at i:18822234 original size:11 final size:11
Alignment explanation
Indices: 18822206--18822242 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
18822196 ATAGAAAGTC
18822206 TTATTTT-ATT
1 TTATTTTGATT
18822216 TTATTTTTGATT
1 TTA-TTTTGATT
18822228 TTATTTTGATT
1 TTATTTTGATT
18822239 TTAT
1 TTAT
18822243 GTTAAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 3 0.12
11 16 0.64
12 6 0.24
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (11 bp):
TTATTTTGATT
Found at i:18823096 original size:17 final size:18
Alignment explanation
Indices: 18823074--18823108 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18823064 AAAATTCTGA
18823074 ATTTATTTCCAAT-TTAC
1 ATTTATTTCCAATATTAC
*
18823091 ATTTATTTTCAATATTAC
1 ATTTATTTCCAATATTAC
18823109 TCAATTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATTTCCAATATTAC
Found at i:18824900 original size:18 final size:18
Alignment explanation
Indices: 18824877--18824912 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18824867 ATTTTACTTT
*
18824877 TATTTTATTTTACCAATG
1 TATTTTATTTTAACAATG
18824895 TATTTTATTTTAACAATG
1 TATTTTATTTTAACAATG
18824913 ATTCGAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTTTATTTTAACAATG
Found at i:18836001 original size:16 final size:16
Alignment explanation
Indices: 18835982--18836014 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18835972 GGCCCGTGTC
18835982 CTTCACACGGCGATGA
1 CTTCACACGGCGATGA
18835998 CTTCACACGGCGATGA
1 CTTCACACGGCGATGA
18836014 C
1 C
18836015 ACGTCCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (16 bp):
CTTCACACGGCGATGA
Found at i:18837213 original size:46 final size:45
Alignment explanation
Indices: 18837114--18837236 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 45
18837104 ATATCCCGAG
* * *
18837114 GCCGATGCATGTCCCAGACATGTCTTACATTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATAT-AAT
*
18837160 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATGAT-GT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCAT-ATAAT
* * *
18837205 GGCTGATGCATGTCTCAGGCATGTCTTACACT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT
18837237 GGCTCACATA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.01
46 66 0.97
47 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATATAAT
Found at i:18839059 original size:20 final size:20
Alignment explanation
Indices: 18839034--18839074 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18839024 TAACGATTGA
*
18839034 TATC-AAGATTTTGACAAGAT
1 TATCAAAGATTTAGA-AAGAT
18839054 TATCAAAGATTTAGAAAGAT
1 TATCAAAGATTTAGAAAGAT
18839074 T
1 T
18839075 TGAAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (20 bp):
TATCAAAGATTTAGAAAGAT
Found at i:18840455 original size:14 final size:14
Alignment explanation
Indices: 18840429--18840456 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18840419 TTAATTTTAC
18840429 TTTGGATTTTTTTT
1 TTTGGATTTTTTTT
18840443 TTTGGATTTTTTTT
1 TTTGGATTTTTTTT
18840457 GTTCTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (14 bp):
TTTGGATTTTTTTT
Found at i:18847439 original size:40 final size:40
Alignment explanation
Indices: 18847376--18847468 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
18847366 ATCTCTGTCT
* * *
18847376 AACCCAACACACC-A-TGTGAGGATAAAATCGACCCACCC
1 AACCCTACACACCAAGTATGAGGATAAAATCAACCCACCC
* *
18847414 AGCCCTACACACCAAGTATGAGGATAAAATCAACCCATCC
1 AACCCTACACACCAAGTATGAGGATAAAATCAACCCACCC
18847454 AACCCTACACACCAA
1 AACCCTACACACCAA
18847469 ATGGTACCGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 11 0.23
39 1 0.02
40 35 0.74
ACGTcount: A:0.41, C:0.37, G:0.11, T:0.12
Consensus pattern (40 bp):
AACCCTACACACCAAGTATGAGGATAAAATCAACCCACCC
Found at i:18860382 original size:17 final size:16
Alignment explanation
Indices: 18860363--18860412 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
18860353 TTTTTTTATT
18860363 TTTTATATTTAATTAC
1 TTTTATATTTAATTAC
*
18860379 TTTTATTGTTTAATTAC
1 TTTTA-TATTTAATTAC
*
18860396 ATTTAATGATTTAATTA
1 -TTTTAT-ATTTAATTA
18860413 ATTATCGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 5 0.18
17 11 0.39
18 12 0.43
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (16 bp):
TTTTATATTTAATTAC
Found at i:18860410 original size:18 final size:18
Alignment explanation
Indices: 18860369--18860412 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
18860359 TATTTTTTAT
* *
18860369 ATTTAATTACTTTTATTG
1 ATTTAATTACATTTAATG
18860387 -TTTAATTACATTTAATG
1 ATTTAATTACATTTAATG
18860404 ATTTAATTA
1 ATTTAATTA
18860413 ATTATCGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTAATTACATTTAATG
Found at i:18861445 original size:17 final size:16
Alignment explanation
Indices: 18861425--18861498 Score: 55
Period size: 17 Copynumber: 4.6 Consensus size: 16
18861415 ATAGATTAAT
18861425 TTATATTTTATGTATCA
1 TTATATTTTAT-TATCA
**
18861442 TTATATTAAATTAT--
1 TTATATTTTATTATCA
* * *
18861456 TTAAACTTTATTTATTA
1 TTATATTTTA-TTATCA
18861473 TTATATTTTATATATCA
1 TTATATTTTAT-TATCA
18861490 TTA-ATTTTA
1 TTATATTTTA
18861499 CAAATGATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
14 6 0.14
15 4 0.09
16 10 0.23
17 24 0.55
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (16 bp):
TTATATTTTATTATCA
Found at i:18875200 original size:24 final size:25
Alignment explanation
Indices: 18875173--18875221 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18875163 TTTTTTTTAT
*
18875173 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
18875197 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
18875222 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:18875214 original size:25 final size:23
Alignment explanation
Indices: 18875185--18875249 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
18875175 AATAAAAAAC
*
18875185 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
18875210 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
18875231 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
18875250 AGAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:18875244 original size:19 final size:20
Alignment explanation
Indices: 18875211--18875249 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
18875201 TCAAATACAT
18875211 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
18875231 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
18875250 AGAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Done.