Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 198 of 322
Found at i:65120462 original size:47 final size:47
Alignment explanation
Indices: 65120400--65120518 Score: 202
Period size: 47 Copynumber: 2.5 Consensus size: 47
65120390 CCTTGGCATG
* *
65120400 GTCTTCCATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATA
1 GTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
* *
65120447 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
65120494 GTCTTACATGATATCCTTGTCTTAC
1 GTCTTACATGATATCCTTGTCTTAC
65120519 ATGGTATCCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (47 bp):
GTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
Found at i:65120517 original size:18 final size:18
Alignment explanation
Indices: 65120494--65120535 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
65120484 TCCAAACATG
65120494 GTCTTACATGATATCCTT
1 GTCTTACATGATATCCTT
*
65120512 GTCTTACATGGTATCCTT
1 GTCTTACATGATATCCTT
65120530 GTCTTA
1 GTCTTA
65120536 GTTCCAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (18 bp):
GTCTTACATGATATCCTT
Found at i:65120722 original size:43 final size:43
Alignment explanation
Indices: 65120672--65120757 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
65120662 ATCTCCTTAA
* *
65120672 TCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTT
1 TCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTT
* *
65120715 TCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
65120758 GAGATATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (43 bp):
TCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
Found at i:65121339 original size:30 final size:30
Alignment explanation
Indices: 65121296--65121352 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65121286 CTAACTCAAA
65121296 CTTTGGCAAAATTACAATTTTACCCCTAAAC
1 CTTTGGCAAAATTACAATTTT-CCCCTAAAC
*
65121327 CTTT-GCAGAATTACAATTTTCCCCTA
1 CTTTGGCAAAATTACAATTTTCCCCTA
65121353 GGCTCGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 6 0.24
30 15 0.60
31 4 0.16
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (30 bp):
CTTTGGCAAAATTACAATTTTCCCCTAAAC
Found at i:65126166 original size:46 final size:46
Alignment explanation
Indices: 65126067--65126186 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
65126057 TTATTTGTAG
** * *
65126067 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATCAAGACGATAGCCAA
* * *
65126115 CGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-TAAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGAT-AGCCAA
65126161 TGTAAGACATGTCTGGGACATGCATC
1 TGTAAGACATGTCTGGGACATGCATC
65126187 AGTTATTAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.02
46 42 0.67
47 14 0.22
48 6 0.10
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGATAGCCAA
Found at i:65126198 original size:46 final size:43
Alignment explanation
Indices: 65126116--65126232 Score: 119
Period size: 46 Copynumber: 2.6 Consensus size: 43
65126106 GATAGCTAGC
*
65126116 GTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAGCCAAT
1 GTAAGACATGTCTGGGACATGCATCAG-CTCAAGATGT--GCCAAT
* * *
65126162 GTAAGACATGTCTGGGACATGCATCAG-TTATTAGATGTGTCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCTCA--AGATGTGCCAAT
*
65126206 GTAAGACCACGTCTGGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
65126233 GGCACGGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
44 12 0.19
45 13 0.21
46 37 0.60
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (43 bp):
GTAAGACATGTCTGGGACATGCATCAGCTCAAGATGTGCCAAT
Found at i:65126270 original size:50 final size:50
Alignment explanation
Indices: 65126207--65126433 Score: 220
Period size: 50 Copynumber: 4.6 Consensus size: 50
65126197 TGTGTCAGTG
* *
65126207 TAAGACCACGTCTGGGACATGGCATCGGCA-CGGATATGTGAGAGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGACATC-GATATGTGAGAGCTAGTA
*
65126257 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGAGAGCTAGTA
* * * * * *
65126307 TAAGACCATGTCTAGGACATGGCATC-AGCCTCCACT-T-CGATAG-TCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGA-CATCGA-TATGTGAGAGCT-AGTA
* * *
65126356 TAAGACCATGTCTGGGACATGGCATCGAC-TTG--ATG-GATGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGA-GAGCTAGTA
* *
65126403 TAAGACCATGTCTAGGACATGGCATCAACAT
1 TAAGACCATGTCTGGGACATGGCATCGACAT
65126434 TATACCCTAT
Statistics
Matches: 152, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
46 3 0.02
47 33 0.22
48 3 0.02
49 35 0.23
50 76 0.50
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGAGAGCTAGTA
Found at i:65138906 original size:46 final size:46
Alignment explanation
Indices: 65138760--65139066 Score: 195
Period size: 46 Copynumber: 6.5 Consensus size: 46
65138750 TTTGTGTGCC
* *
65138760 AGTGTAAGATATGTCTGGGACATGCATCGACCA-C-ACTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CATCGA-GATGAGAGCT
* * * * *
65138806 AGTGTAACACCATGTCTGGGACATTGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGACATCGAGATGAGAGCT
* *
65138854 AGTGTAAGACATGTCTGGGACATGCATCGACGTCGAGATGTA-AGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATG-AGAGCT
* *
65138900 AGTGTAAGACATGTCTGGGACATGCATCGGCTAT-GAGAT--G-TCT
1 AGTGTAAGACATGTCTGGGACATGCATCGAC-ATCGAGATGAGAGCT
* * * * *
65138943 CAGTGTAAGACCAAGTCTTGGACATGGCATCGGCA-CG-TAT-AAAGCTGTT
1 -AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGATGAGAGC---T
* * *
65138992 AGTGTAAAACCATGTTTGGGACATGGCATCGACAAT-GATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-ATCGAGA--TGAGAGCT
*
65139042 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
65139067 GCGTCGGCCT
Statistics
Matches: 207, Mismatches: 32, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 14 0.07
46 68 0.33
47 29 0.14
48 50 0.24
49 5 0.02
50 24 0.12
52 1 0.00
53 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATGAGAGCT
Found at i:65148375 original size:22 final size:24
Alignment explanation
Indices: 65148329--65148396 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
65148319 CATAACAGAT
* * * *
65148329 AAATTAGCATACGCCACAAATGCC
1 AAATTAGAATATGCCATAAAGGCC
*
65148353 ATATTAG-A-ATGCCATAAAGGCC
1 AAATTAGAATATGCCATAAAGGCC
65148375 AAATTAGAATATGCCATAAAGG
1 AAATTAGAATATGCCATAAAGG
65148397 TCATTGGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 17 0.46
23 2 0.05
24 18 0.49
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (24 bp):
AAATTAGAATATGCCATAAAGGCC
Found at i:65158107 original size:20 final size:20
Alignment explanation
Indices: 65158082--65158128 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
65158072 GTTTTGATAT
65158082 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
65158102 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65158122 ACATGAT
1 ACATGAT
65158129 GCATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65158253 original size:24 final size:25
Alignment explanation
Indices: 65158176--65158259 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
65158166 AGGAAGTGCA
* **
65158176 AAAAGGGC-TATGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTA-TT
65158201 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
*
65158226 AAAAGGGGTTTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
65158250 AAAAGAGGCT
1 AAAAG-GGCT
65158260 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
24 10 0.19
25 29 0.56
26 13 0.25
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:65158504 original size:31 final size:31
Alignment explanation
Indices: 65158468--65158529 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
65158458 CGTTTACAGT
*
65158468 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
65158499 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
65158530 GATATGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:65166103 original size:20 final size:20
Alignment explanation
Indices: 65166078--65166121 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
65166068 GTTTTGATAT
65166078 ACATGAT-TGATATGATACGC
1 ACATGATATG-TATGATACGC
*
65166098 ACATGATATGTATGATATGC
1 ACATGATATGTATGATACGC
65166118 ACAT
1 ACAT
65166122 TATGTACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATACGC
Found at i:65166254 original size:24 final size:25
Alignment explanation
Indices: 65166172--65166254 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
65166162 AGGAAGTGCA
* * *
65166172 AAAAGGGC-TATGCCCCAATTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
65166196 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
65166222 AAAAGGGCTTTT-CCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
65166245 AAAAGAGGCT
1 AAAAG-GGCT
65166255 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 9 0.17
24 10 0.19
25 20 0.38
26 13 0.25
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:65166533 original size:26 final size:26
Alignment explanation
Indices: 65166497--65166547 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
65166487 AATATGAAAA
65166497 GGCTTTGAAACAAGTGA-TCGTTTTTG
1 GGCTTTGAAACAAGTGACT-GTTTTTG
65166523 GGCTTTGAAACAAGTGACTGTTTTT
1 GGCTTTGAAACAAGTGACTGTTTTT
65166548 CTTTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (26 bp):
GGCTTTGAAACAAGTGACTGTTTTTG
Found at i:65175412 original size:6 final size:6
Alignment explanation
Indices: 65175389--65175442 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
65175379 TATCAAAACT
* * *
65175389 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
65175438 AGAAT
1 AGAAT
65175443 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 1 0.03
6 34 0.87
7 3 0.08
8 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:65175597 original size:27 final size:27
Alignment explanation
Indices: 65175560--65175675 Score: 155
Period size: 27 Copynumber: 4.3 Consensus size: 27
65175550 AGCATGGCTG
*
65175560 CCAGAACAGATA-TTGTGACAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
65175586 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
65175613 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* * *
65175640 CCAGAAATAGATATTTATGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
65175668 CCAGAACA
1 CCAGAACA
65175676 CTTCCTCCAT
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
26 12 0.15
27 45 0.55
28 25 0.30
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:65175907 original size:27 final size:27
Alignment explanation
Indices: 65175877--65176017 Score: 178
Period size: 27 Copynumber: 5.2 Consensus size: 27
65175867 GGGCAAAATG
* *
65175877 GTAATTTTATCCC-ACAAGGGTATCTCA
1 GTAATTCTA-CCCTACAAGGGTATTTCA
**
65175904 GTAATTCTACCCTAC-AGAGGTATTTTG
1 GTAATTCTACCCTACAAG-GGTATTTCA
*
65175931 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
65175958 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
65175985 GTAATTCTACCCTACAAGAGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
65176012 ATAATT
1 GTAATT
65176018 TTGTAAATCG
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.05
27 92 0.93
28 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:65181282 original size:29 final size:29
Alignment explanation
Indices: 65181247--65181320 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
65181237 GTTGTGAGAT
* *
65181247 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
65181276 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
65181305 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65181321 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:65191498 original size:522 final size:522
Alignment explanation
Indices: 65190514--65192130 Score: 3090
Period size: 522 Copynumber: 3.1 Consensus size: 522
65190504 ACCTTCAAAA
65190514 ATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTCCATGCCAAACACATCAAA
1 ATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTCCATGCCAAACACATCAAA
65190579 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
66 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
* * *
65190644 ATTACCAAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
131 AATAACGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
*
65190709 AGCATAATGATCAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
196 AGCATAATGATAAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
65190774 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
261 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
65190839 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
326 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
*
65190904 ACACGCACACACAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
391 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
* *
65190969 TTAACATTATAATATCACTTCGCCGAATTTAAACAATCACATGTATATATAAATCACCTTTTATA
456 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
65191034 AC
521 AC
*
65191036 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTCCATGCCAAACACATCAAA
1 ATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTCCATGCCAAACACATCAAA
65191101 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
66 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
*
65191166 AATAACGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTAA
131 AATAACGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
65191231 AGCATAATGATAAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
196 AGCATAATGATAAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
65191296 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
261 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
65191361 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
326 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
*
65191426 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCTACAAATGAATA
391 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
65191491 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
456 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
65191556 AC
521 AC
65191558 ATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTCCATGCCAAACACATCAAA
1 ATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTCCATGCCAAACACATCAAA
65191623 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
66 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
65191688 AATAACGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
131 AATAACGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
*
65191753 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
196 AGCATAATGATAAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
65191818 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
261 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
*
65191883 TGTGGCGAACTTCCTTGACGATCCCCGAGCTTGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
326 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
65191948 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
391 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
* *
65192013 TTAACATTATAATATCACTTGGCCAAATTTAAACAATCACATGTACATATAAATCACCTTCTATA
456 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
65192078 AC
521 AC
* *
65192080 ATGCATAATTTGTATAATCATTTCAATTACTAAACTTACCTTAATTTCATG
1 ATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTCCATG
65192131 AACATAACTT
Statistics
Matches: 1076, Mismatches: 19, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
522 1076 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (522 bp):
ATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTCCATGCCAAACACATCAAA
GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
AATAACGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
AGCATAATGATAAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
AC
Found at i:65192322 original size:43 final size:43
Alignment explanation
Indices: 65192253--65192355 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 43
65192243 AACTCGTACA
* * *
65192253 ATGCCTAC-GTCCCAGAC-GAGGTCTTACATGTAATCA-ACTATCG
1 ATGCC-ACTGTCCCAGACAGAGGGCTTACACGAAATCATA-TA-CG
65192296 ATGCCACTGTCCCAGACAG-GGGCTTACACGAAATCATATACG
1 ATGCCACTGTCCCAGACAGAGGGCTTACACGAAATCATATACG
*
65192338 ATGCCAATGTCCCAGACA
1 ATGCCACTGTCCCAGACA
65192356 TGATCCTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
42 21 0.40
43 30 0.57
44 2 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGAGGGCTTACACGAAATCATATACG
Found at i:65197275 original size:16 final size:16
Alignment explanation
Indices: 65197256--65197286 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65197246 CTTCTTCACT
65197256 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
65197272 TACTTACTTACTTAA
1 TACTCACTTACTTAA
65197287 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:65197292 original size:20 final size:20
Alignment explanation
Indices: 65197253--65197292 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65197243 AAACTTCTTC
* *
65197253 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
65197273 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
65197293 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:65197540 original size:49 final size:50
Alignment explanation
Indices: 65197483--65197672 Score: 159
Period size: 53 Copynumber: 3.7 Consensus size: 50
65197473 ACACGGGTAC
* *
65197483 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT-TT-GAAA
1 CTTACCATTTCCATGACTTGACATGGTCTTACATGGTATCCTTCTTAG-AA
* * * *
65197532 CTTACCATTTCCATGTCTCGACATGGTCCTATATGGTATCCTTGCCTTATGAA
1 CTTACCATTTCCATGACTTGACATGGTCTTACATGGTATCCTT--CTTA-GAA
* * * * *
65197585 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCATTTCCATGACTTGACATGGTCTTACATGGTATCCTT--CTTA-GAA
* * * * *
65197638 CTCACCAATGCCATGCCTTGGCATGGTCTTACATG
1 CTTACCATTTCCATGACTTGACATGGTCTTACATG
65197673 AGACCTTTGC
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
49 37 0.30
52 2 0.02
53 82 0.67
54 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (50 bp):
CTTACCATTTCCATGACTTGACATGGTCTTACATGGTATCCTTCTTAGAA
Found at i:65197610 original size:53 final size:53
Alignment explanation
Indices: 65197553--65197787 Score: 214
Period size: 53 Copynumber: 4.4 Consensus size: 53
65197543 CATGTCTCGA
*
65197553 CATGGTCCTATATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
1 CATGGTCCTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
*
65197606 CATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
1 CATGGTCCTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
* * * * *
65197659 CATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAACTTATCAATACCCTGTCC-T-G
1 CATGGTCCTACATG-GTATCC-TTGCCTTAT-G-AACTCACCAATGCCATG-CCTTGG
* * * * ** *
65197713 -AT-ATCTTACATGATATCCTTGACTTA-GAAACCTTTCCAATTGCCATGCCTTGC
1 CATGGTCCTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-TGCCATGCCTTGG
*
65197766 CATGGTCTTACATGGTATCCTT
1 CATGGTCCTACATGGTATCCTT
65197788 AAACCCTAAT
Statistics
Matches: 152, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
50 3 0.02
51 8 0.05
52 25 0.16
53 79 0.52
54 5 0.03
55 30 0.20
56 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (53 bp):
CATGGTCCTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
Found at i:65205370 original size:53 final size:54
Alignment explanation
Indices: 65205281--65205549 Score: 296
Period size: 53 Copynumber: 5.0 Consensus size: 54
65205271 TATGTGATAT
* * * * *
65205281 CCTTTTGAAACTTACC-ATCGCCATGTCTCGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTCACCAAT-GCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
65205335 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
* *
65205388 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTT
1 CCTTATGAAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTG
* * * * * * *
65205441 CCTTATAGTAACTTATCAATTCCATGTCTTGACATGGTCTTACATGATATCCTTG
1 CCTTAT-GAAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
* * * *
65205496 CC-TAAGAAACCTTACCAATTTCCATTCCTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
65205550 AAACCCTAAT
Statistics
Matches: 186, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.01
53 96 0.52
54 18 0.10
55 68 0.37
56 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (54 bp):
CCTTATGAAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
Found at i:65205495 original size:108 final size:108
Alignment explanation
Indices: 65205312--65205549 Score: 295
Period size: 108 Copynumber: 2.2 Consensus size: 108
65205302 CATGTCTCGA
* *
65205312 CATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACA
1 CATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACA
* *
65205377 TGGTATCCTTGCCTTATG-AA-CTCACCAA-TGCCATGCCTTGG
66 TGATATCCTTGCC-TAAGAAACCTCACCAATTGCCATGCCTTGG
* * * * *
65205418 CATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTTATCAATTCCATGTCTTGACATGGTCTT
1 CATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATGCCATGCCTTGACATGGTCTT
* * *
65205482 ACATGATATCCTTGCCTAAGAAACCTTACCAATTTCCATTCCTTGG
63 ACATGATATCCTTGCCTAAGAAACCTCACCAATTGCCATGCCTTGG
*
65205528 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGGATCCTT
65205550 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
105 2 0.02
106 24 0.21
107 4 0.04
108 44 0.39
109 7 0.06
110 29 0.26
111 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.35
Consensus pattern (108 bp):
CATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACA
TGATATCCTTGCCTAAGAAACCTCACCAATTGCCATGCCTTGG
Found at i:65206318 original size:14 final size:14
Alignment explanation
Indices: 65206299--65206326 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65206289 CTTACAATCG
65206299 AGCTATGTCTTCCT
1 AGCTATGTCTTCCT
65206313 AGCTATGTCTTCCT
1 AGCTATGTCTTCCT
65206327 CATGTGAAAT
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:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (14 bp):
AGCTATGTCTTCCT
Found at i:65206821 original size:14 final size:14
Alignment explanation
Indices: 65206802--65206833 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
65206792 GTCTGAAAGG
65206802 CATAACCATAAACT
1 CATAACCATAAACT
65206816 CATAACCATAAACT
1 CATAACCATAAACT
65206830 CATA
1 CATA
65206834 GTGTCCGTAC
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:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
CATAACCATAAACT
Found at i:65210921 original size:43 final size:42
Alignment explanation
Indices: 65210854--65210965 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
65210844 ACTCATACAG
* * *
65210854 TGCCTATGTCCCAGACGA-GGTCTTACATGTACTGAACTAT-CCA
1 TGCCAATGTCCCAGAC-ATGGTCTTACATGAAAT-AA-TATACCA
* * *
65210897 TGCCACTGTCCCAGACATGGTCTTACATGAAATCATATACGA
1 TGCCAATGTCCCAGACATGGTCTTACATGAAATAATATACCA
*
65210939 TGCCAATGTCCCAGACATGGTTTTACA
1 TGCCAATGTCCCAGACATGGTCTTACA
65210966 CATAAATCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.05
42 29 0.49
43 27 0.46
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (42 bp):
TGCCAATGTCCCAGACATGGTCTTACATGAAATAATATACCA
Found at i:65210955 original size:42 final size:44
Alignment explanation
Indices: 65210854--65211017 Score: 135
Period size: 43 Copynumber: 3.8 Consensus size: 44
65210844 ACTCATACAG
* * * * *
65210854 TGCCTATGTCCCAGACGA-GGTCTTACATGTACTGA-ACT-ATCCA
1 TGCCAATGTCCCAGAC-ATGGTCTTACATGAAATCATA-TAATCGA
*
65210897 TGCCACTGTCCCAGACATGGTCTTACATGAAATCATAT-A-CGA
1 TGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAATCGA
* * *
65210939 TGCCAATGTCCCAGACATGGTTTTACACAT-AAATC-TCTAATTGA
1 TGCCAATGTCCCAGACATGGTCTT--ACATGAAATCATATAATCGA
* * *
65210983 TGCCAACGTCCCAGACGTGGTCTTACACGAAATCA
1 TGCCAATGTCCCAGACATGGTCTTACATGAAATCA
65211018 CATATCGTAA
Statistics
Matches: 99, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 30 0.30
43 41 0.41
44 28 0.28
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
TGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAATCGA
Found at i:65211942 original size:27 final size:27
Alignment explanation
Indices: 65211912--65211967 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
65211902 TTTTATTATT
65211912 ACATAATATTAAACATTTACAAATTTA
1 ACATAATATTAAACATTTACAAATTTA
65211939 ACATAATATTAAACATTTACAAATTTA
1 ACATAATATTAAACATTTACAAATTTA
65211966 AC
1 AC
65211968 TTTATTAATA
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:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (27 bp):
ACATAATATTAAACATTTACAAATTTA
Found at i:65214792 original size:37 final size:37
Alignment explanation
Indices: 65214742--65214817 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
65214732 GAAGCACGAG
65214742 AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
1 AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
65214779 AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
1 AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
65214816 AA
1 AA
65214818 ATAGTTGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (37 bp):
AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
Found at i:65219240 original size:29 final size:29
Alignment explanation
Indices: 65219206--65219265 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
65219196 TGTGAATTTT
*
65219206 TTAGTTTTGT-ATTGTGGTTTAATTTTCTG
1 TTAGTTTT-TCATTGTGATTTAATTTTCTG
*
65219235 TTAGTTTTTCATTTTGATTTAATTTTCTG
1 TTAGTTTTTCATTGTGATTTAATTTTCTG
65219264 TT
1 TT
65219266 TAAATTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.65
Consensus pattern (29 bp):
TTAGTTTTTCATTGTGATTTAATTTTCTG
Found at i:65230062 original size:31 final size:31
Alignment explanation
Indices: 65230022--65230085 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
65230012 TTACAAAATG
*
65230022 GTCACTGAACTGTTCA-AAAGTTTTCATTAAA
1 GTCACTGAACT-ATCAGAAAGTTTTCATTAAA
* * *
65230053 GTCATTGAACTATCAGAAAGTTTTTATTTAA
1 GTCACTGAACTATCAGAAAGTTTTCATTAAA
65230084 GT
1 GT
65230086 GAATGAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (31 bp):
GTCACTGAACTATCAGAAAGTTTTCATTAAA
Found at i:65230692 original size:18 final size:18
Alignment explanation
Indices: 65230669--65230711 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
65230659 ATTTTGTTCG
65230669 GTTTTTGATGATTTCTAT
1 GTTTTTGATGATTTCTAT
65230687 GTTTTTGATGATTTCTAT
1 GTTTTTGATGATTTCTAT
65230705 GTTTTTG
1 GTTTTTG
65230712 TAATCGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.19, T:0.63
Consensus pattern (18 bp):
GTTTTTGATGATTTCTAT
Found at i:65233865 original size:27 final size:27
Alignment explanation
Indices: 65233829--65234010 Score: 238
Period size: 27 Copynumber: 6.7 Consensus size: 27
65233819 TATTGAAATG
* * *
65233829 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
65233856 CCCGCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
65233883 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
65233910 CCCTCGATTTATAGAATTACCGTGTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
65233937 CCCTCAATTTACAGAATTACCGTTATA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
65233964 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
65233991 CTCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
65234011 TTAAATAACA
Statistics
Matches: 137, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:65234064 original size:27 final size:27
Alignment explanation
Indices: 65234034--65234158 Score: 155
Period size: 27 Copynumber: 4.6 Consensus size: 27
65234024 GTTTACCAAC
* *
65234034 TTACCAAAATA-CCCTCGATCAGTAAAA
1 TTACCAAAATACCCCT-GGTCTGTAAAA
*
65234061 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTCTGTAAAA
* * *
65234088 TTACTAAAATACCCCTGGTTTGTGAAA
1 TTACCAAAATACCCCTGGTCTGTAAAA
*
65234115 TTACCAAAATACCCTTGG-CTTGTAAAA
1 TTACCAAAATACCCCTGGTC-TGTAAAA
65234142 TTACCAAAATACCCCTG
1 TTACCAAAATACCCCTG
65234159 ATTTTTGAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 82 0.95
28 4 0.05
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (27 bp):
TTACCAAAATACCCCTGGTCTGTAAAA
Found at i:65234088 original size:81 final size:81
Alignment explanation
Indices: 65234003--65234158 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 81
65233993 CTCGATTTAC
* * * *
65234003 AAAATTACTTAAATAACATTAGTTTACCAACTTACCAAAATACCCTC-GATCAGTAAAATTACCA
1 AAAATTACTAAAATAACACTAGTTTACCAAATTACCAAAATACCCTCGGCT-AGTAAAATTACCA
65234067 AAATACCCCTGGTTTGT
65 AAATACCCCTGGTTTGT
* * * *** * *
65234084 AAAATTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAA
1 AAAATTACTAAAATAACACTAGTTTACCAAATTACCAAAATACCCTCGGCTAGTAAAATTACCAA
65234149 AATACCCCTG
66 AATACCCCTG
65234159 ATTTTTGAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATAACACTAGTTTACCAAATTACCAAAATACCCTCGGCTAGTAAAATTACCAA
AATACCCCTGGTTTGT
Found at i:65234168 original size:54 final size:54
Alignment explanation
Indices: 65234034--65234180 Score: 197
Period size: 54 Copynumber: 2.7 Consensus size: 54
65234024 GTTTACCAAC
** * *
65234034 TTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCT-GATTTGTGAAATTACCAAAATACCCCTGGCTTGTAAAA
* * *
65234088 TTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTGGCTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCCTGGCTTGTAAAA
* *
65234142 TTACCAAAATACCCCTGATTTTTGAAATTATCAAAATAC
1 TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATAC
65234181 TCTCAATTTG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 77 0.95
55 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCCTGGCTTGTAAAA
Found at i:65234169 original size:27 final size:27
Alignment explanation
Indices: 65234055--65234180 Score: 180
Period size: 27 Copynumber: 4.7 Consensus size: 27
65234045 CCCTCGATCA
65234055 GTAAAATTACCAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
65234082 GTAAAATTACTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* * *
65234109 GTGAAATTACCAAAATACCCTTGGCTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
65234136 GTAAAATTACCAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* * *
65234163 TTGAAATTATCAAAATAC
1 GTAAAATTACCAAAATAC
65234181 TCTCAATTTG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGGTTT
Found at i:65234192 original size:54 final size:54
Alignment explanation
Indices: 65234034--65234211 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
65234024 GTTTACCAAC
** * **
65234034 TTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCC-CTGGTTTGTAAAA
1 TTACCAAAATACCCCT-GATTTGTGAAATTACCAAAATACCCTC-AATTTGTAAAA
* * ****
65234088 TTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTGGCTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCTCAATTTGTAAAA
* * *
65234142 TTACCAAAATACCCCTGATTTTTGAAATTATCAAAATACTCTCAATTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCTCAATTTGTAAAA
* *
65234196 -TATCGAAATACCCCTG
1 TTACCAAAATACCCCTG
65234212 TAGGGTAGAA
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
53 14 0.13
54 86 0.83
55 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCTCAATTTGTAAAA
Found at i:65234306 original size:27 final size:27
Alignment explanation
Indices: 65234268--65234444 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
65234258 NNNNNNNNNG
*
65234268 TGTAGGGGAGAATTACTGAAATAACCC
1 TGTAGGGTAGAATTACTGAAATAACCC
* *
65234295 TGTAAGGTAGAATTA-TCGAAATACCCC
1 TGTAGGGTAGAATTACT-GAAATAACCC
* * *
65234322 TGTAGGGCAGAATTACTAAAATACCCC
1 TGTAGGGTAGAATTACTGAAATAACCC
**
65234349 TGTAAAGTAGAATTACTGAAAT-ACCC
1 TGTAGGGTAGAATTACTGAAATAACCC
* * *
65234375 TTGTAGGGTAAAAATACCGAAAT-ACTCC
1 -TGTAGGGTAGAATTACTGAAATAAC-CC
* *
65234403 TGTAGGGTAGAATTACCGAGAT-ACCC
1 TGTAGGGTAGAATTACTGAAATAACCC
* *
65234429 TTGTGGGGTAAAATTA
1 -TGTAGGGTAGAATTA
65234445 TCATTTTGCC
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.05
27 115 0.93
28 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.25
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATAACCC
Found at i:65234334 original size:54 final size:53
Alignment explanation
Indices: 65234268--65234428 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 53
65234258 NNNNNNNNNG
*
65234268 TGTAGGGGAGAATTACTGAAATAACCCTGTAAGGTAGAATTATCGAAATACCCC
1 TGTAGGGCAGAATTACTGAAATAACCCTGTAAGGTAGAATTA-CGAAATACCCC
* * * *
65234322 TGTAGGGCAGAATTACTAAAATACCCCTGTAAAGTAGAATTACTGAAATACCCT
1 TGTAGGGCAGAATTACTGAAATAACCCTGTAAGGTAGAATTAC-GAAATACCCC
* * * * * *
65234376 TGTAGGGTAAAAATACCGAAAT-ACTCCTGTAGGGTAGAATTACCGAGATACCC
1 TGTAGGGCAGAATTACTGAAATAAC-CCTGTAAGGTAGAATTA-CGAAATACCC
65234429 TTGTGGGGTA
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 87 0.97
55 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (53 bp):
TGTAGGGCAGAATTACTGAAATAACCCTGTAAGGTAGAATTACGAAATACCCC
Found at i:65234427 original size:81 final size:81
Alignment explanation
Indices: 65234276--65234428 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
65234266 NGTGTAGGGG
* * * *
65234276 AGAATTACTGAAATAACCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGCAGAATTACTAA
1 AGAATTACTGAAATAACCCTGTAAGGTAAAAATACCGAAATACCCCTGTAGGGCAGAATTACCAA
65234341 AATACCCCTGTAAAGT
66 AATACCCCTGTAAAGT
* * * *
65234357 AGAATTACTGAAAT-ACCCTTGTAGGGTAAAAATACCGAAATACTCCTGTAGGGTAGAATTACCG
1 AGAATTACTGAAATAACCC-TGTAAGGTAAAAATACCGAAATACCCCTGTAGGGCAGAATTACCA
*
65234421 AGATACCC
65 AAATACCC
65234429 TTGTGGGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.06
81 58 0.94
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (81 bp):
AGAATTACTGAAATAACCCTGTAAGGTAAAAATACCGAAATACCCCTGTAGGGCAGAATTACCAA
AATACCCCTGTAAAGT
Found at i:65234687 original size:25 final size:25
Alignment explanation
Indices: 65234649--65234739 Score: 137
Period size: 25 Copynumber: 3.6 Consensus size: 25
65234639 AGGAAGTGCT
* *
65234649 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
65234674 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
65234699 AAAAAGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
65234724 AAAAGGGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
65234740 TGTTGTTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:65234767 original size:50 final size:49
Alignment explanation
Indices: 65234648--65234768 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 49
65234638 GAGGAAGTGC
*
65234648 TAAAAG-GGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCTAGTTTA
1 TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCTAGTTTA
* * * *
65234696 CCAAAAAAGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCT-GTTGT-
1 -TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTG-CCCTAGTT-TA
*
65234746 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAGAGGCTATGCC-CCAGTT
65234769 ATATGATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
49 16 0.27
50 38 0.64
51 5 0.08
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (49 bp):
TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCTAGTTTA
Found at i:65237158 original size:27 final size:27
Alignment explanation
Indices: 65237128--65237193 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
65237118 ATTATTGAAA
65237128 TGCCCTCAATTTGTAAAATCACCGTTT
1 TGCCCTCAATTTGTAAAATCACCGTTT
*
65237155 TGCCCTCAATTTGTAAAATTACCGTTT
1 TGCCCTCAATTTGTAAAATCACCGTTT
* *
65237182 TACCCTCGATTT
1 TGCCCTCAATTT
65237194 ACAGAATTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (27 bp):
TGCCCTCAATTTGTAAAATCACCGTTT
Found at i:65237201 original size:27 final size:27
Alignment explanation
Indices: 65237148--65237391 Score: 274
Period size: 27 Copynumber: 9.1 Consensus size: 27
65237138 TTGTAAAATC
* * ** *
65237148 ACCGTTTTGCCCTCAATTTGTAAAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
65237175 ACCGTTTTACCCTCGATTTACAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* *
65237202 ACTGTTTTACCCTCGATTTATAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* *
65237229 ACC-ATTTACCCTCAATTTACAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* * *
65237255 ACCATTTTACCCTTGATTTATAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* * *
65237282 ACCATTTTACCCTCGATTTATAAAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* * *
65237309 ACTGTGTTACCCTCGATTTACAAAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* *
65237336 ACCATTATACCCTCGATTTACAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* * *
65237363 ATCGTTTTACACTCGATTTACAAAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
65237390 AC
1 AC
65237392 TAAAATACCC
Statistics
Matches: 184, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.12
27 161 0.88
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
ACCGTTTTACCCTCGATTTACAGAATT
Found at i:65237209 original size:54 final size:54
Alignment explanation
Indices: 65237151--65237391 Score: 306
Period size: 54 Copynumber: 4.5 Consensus size: 54
65237141 TAAAATCACC
* * * *
65237151 GTTTTGCCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACT
1 GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
* * *
65237205 GTTTTACCCTCGATTTATAGAATTACCA-TTTACCCTCAATTTACAGAATTACC
1 GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
* * * * *
65237258 ATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACT
1 GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
* * *
65237312 GTGTTACCCTCGATTTACAAAATTACCATTATACCCTCGATTTACAGAATTA-T
1 GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
* *
65237365 CGTTTTACACTCGATTTACAAAATTAC
1 -GTTTTACCCTCGATTTATAAAATTAC
65237392 TAAAATACCC
Statistics
Matches: 162, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 50 0.31
54 112 0.69
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
Found at i:65237354 original size:81 final size:80
Alignment explanation
Indices: 65237157--65237393 Score: 321
Period size: 81 Copynumber: 3.0 Consensus size: 80
65237147 CACCGTTTTG
** * *
65237157 CCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
* *
65237222 TAGAATTACCATTTA
66 TAAAATTACTATTTA
* * * *
65237237 CCCTCAATTTACAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
*
65237302 TAAAATTACTGTGTTA
66 TAAAATTACTAT-TTA
* * * *
65237318 CCCTCGATTTACAAAATTACCATTATACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
*
65237383 CAAAATTACTA
66 TAAAATTACTA
65237394 AAATACCCTT
Statistics
Matches: 135, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 66 0.49
81 69 0.51
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (80 bp):
CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
TAAAATTACTATTTA
Found at i:65237401 original size:81 final size:80
Alignment explanation
Indices: 65237169--65237429 Score: 290
Period size: 81 Copynumber: 3.2 Consensus size: 80
65237159 CTCAATTTGT
* * * *
65237169 AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTAC-CA
1 AAAATTACCATTATACCCTCGATTTACAGAATTAC-GTTTTACCCTCGATTTATAAAATTACTAA
* *
65237233 TTTACCCTCAATTTAC
65 ATTACCCTCGATTTAC
* * * * * **
65237249 AGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACTGT
1 AAAATTACCATTATACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTATAAAATTACTAA
*
65237314 GTTACCCTCGATTTAC
65 ATTACCCTCGATTTAC
* *
65237330 AAAATTACCATTATACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTACAAAATTACTAA
1 AAAATTACCATTATACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTATAAAATTACTAA
* * *
65237395 AATACCCTTGGTTTAC
65 ATTACCCTCGATTTAC
* **
65237411 CAAATTACCAAAATACCCT
1 AAAATTACCATTATACCCT
65237430 GGTTTGTAAA
Statistics
Matches: 152, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
80 54 0.36
81 98 0.64
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (80 bp):
AAAATTACCATTATACCCTCGATTTACAGAATTACGTTTTACCCTCGATTTATAAAATTACTAAA
TTACCCTCGATTTAC
Found at i:65237409 original size:27 final size:27
Alignment explanation
Indices: 65237384--65237561 Score: 182
Period size: 27 Copynumber: 6.7 Consensus size: 27
65237374 CTCGATTTAC
* * **
65237384 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
65237411 CAAATTACCAAAATA-CCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
65237437 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
65237464 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
65237491 AAAATTACCAAAATACCCTTTATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
65237518 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
65237545 AAAA-TATCAAAATACCC
1 AAAATTACCAAAATACCC
65237562 TTGTAGGGTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 33 0.26
27 93 0.74
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:65237453 original size:53 final size:53
Alignment explanation
Indices: 65237384--65237564 Score: 204
Period size: 54 Copynumber: 3.4 Consensus size: 53
65237374 CTCGATTTAC
***
65237384 AAAATTACTAAAATACCCTTGGTTTACCAAATTACCAAAATACCCTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTGGTTTGT
* * *
65237437 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTGGTTTGT
* ** * * * *
65237491 AAAATTACCAAAATACCCTTTATTTGTGAAATTATCAAAATACTCTCGATTTGT
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCT-GGTTTGT
65237545 AAAA-TA-TCAAAATACCCTTG
1 AAAATTACT-AAAATACCCTTG
65237565 TAGGGTAGAA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 53 0.49
54 55 0.51
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTGGTTTGT
Found at i:65237545 original size:54 final size:53
Alignment explanation
Indices: 65237374--65237563 Score: 170
Period size: 53 Copynumber: 3.6 Consensus size: 53
65237364 TCGTTTTACA
** * ** ***
65237374 CTCGATTTACAAAATTACTAAAATACCCTTGGTTTACCAAATTACCAAAATAC
1 CTCGATTTGTAAAATTACCAAAATACCCTTTATTTGTAAAATTACCAAAATAC
* * *
65237427 C-CTGGTTTGTAAAATTACTAAAATACCC-CTAGTTTGTAAAATTACCAAAATAC
1 CTC-GATTTGTAAAATTACCAAAATACCCTTTA-TTTGTAAAATTACCAAAATAC
* ** * *
65237480 CCCTGGCTTGTAAAATTACCAAAATACCCTTTATTTGTGAAATTATCAAAATAC
1 CTC-GATTTGTAAAATTACCAAAATACCCTTTATTTGTAAAATTACCAAAATAC
*
65237534 TCTCGATTTGTAAAA-TATCAAAATACCCTT
1 -CTCGATTTGTAAAATTACCAAAATACCCTT
65237564 GTAGGGTAGA
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.01
53 56 0.49
54 53 0.46
55 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.33
Consensus pattern (53 bp):
CTCGATTTGTAAAATTACCAAAATACCCTTTATTTGTAAAATTACCAAAATAC
Found at i:65237595 original size:27 final size:27
Alignment explanation
Indices: 65237554--65237793 Score: 299
Period size: 27 Copynumber: 8.9 Consensus size: 27
65237544 TAAAATATCA
*
65237554 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
65237581 AAATACCCCTATAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
*
65237608 AAATACCTCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
65237635 AAATAACCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* *
65237662 AAATACCCCTGTAGAGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
65237689 AAATACCCCTGTAAGGG-AGAATTACTG
1 AAATACCCCTGT-AGGGTAGAATTACTG
* * **
65237716 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
*
65237743 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
65237770 AGATACCCTTGT-GGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
65237794 CATTTTGCCC
Statistics
Matches: 186, Mismatches: 21, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
26 17 0.09
27 164 0.88
28 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:65238078 original size:25 final size:25
Alignment explanation
Indices: 65237997--65238062 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
65237987 AGGAAGTGCT
* * *
65237997 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
65238022 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
65238047 AAAAGGGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
65238063 TATTGTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:65262329 original size:43 final size:43
Alignment explanation
Indices: 65262268--65262434 Score: 237
Period size: 43 Copynumber: 3.9 Consensus size: 43
65262258 GCGTCGCTAA
* * *
65262268 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
65262311 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
* * *
65262354 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
*** *
65262396 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCA
65262435 TGACTTTTAG
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.35
43 74 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
Found at i:65262398 original size:85 final size:85
Alignment explanation
Indices: 65262268--65262472 Score: 241
Period size: 85 Copynumber: 2.4 Consensus size: 85
65262258 GCGTCGCTAA
* * **
65262268 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCACTTTT-ACACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACA
65262333 AACGCCGCTATAGATCA-GAAC
65 AACGCCGCTATAGATCATG-AC
* * *** *
65262354 CTTTAGCGGCACTTTTACACAAACGCCGCTATAGATCAAAACCTTTAGCGGCGCTTTTTTTATAA
1 CTTTAGCGGCACTTTTACACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACAA
65262419 ACGCCGCTATAGATCATGAC
66 ACGCCGCTATAGATCATGAC
* * * * *
65262439 TTTTAGCGACATTTTTTTCGCAAACGCCGCTAAA
1 CTTTAGCGGCA-CTTTTACACAAACGCCGCTAAA
65262473 AGTGCCATTC
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
85 67 0.66
86 34 0.34
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (85 bp):
CTTTAGCGGCACTTTTACACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACAA
ACGCCGCTATAGATCATGAC
Found at i:65262455 original size:43 final size:41
Alignment explanation
Indices: 65262268--65262470 Score: 181
Period size: 43 Copynumber: 4.8 Consensus size: 41
65262258 GCGTCGCTAA
* ** * *
65262268 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCTATAGATCA-GAC
* **
65262311 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCTATAGATCAG-AC
* * *
65262354 CTTTAGCGGCACTTTTACACAAACGCCGCTATAGATCAAAAC
1 CTTTAGCGGCATTTTTTCACAAACGCCGCTATAGATC-AGAC
* * *
65262396 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCATGAC
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCTATAGATCA-GAC
* * *
65262439 TTTTAGCGACATTTTTTTCGCAAACGCCGCTA
1 CTTTAGCGGCA-TTTTTTCACAAACGCCGCTA
65262471 AAAGTGCCAT
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
42 37 0.27
43 99 0.73
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTTCACAAACGCCGCTATAGATCAGAC
Found at i:65267056 original size:21 final size:21
Alignment explanation
Indices: 65267032--65267072 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
65267022 AACCCTAAAT
65267032 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
*
65267053 CCCTAACTCTTAATCCCTAA
1 CCCTAACTCTTAACCCCTAA
65267073 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACTCTTAACCCCTAAC
Found at i:65267309 original size:23 final size:24
Alignment explanation
Indices: 65267270--65267323 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
65267260 TATATGAAAT
*
65267270 TATTTAATATATAAATTAAAAAAA
1 TATTTAATAAATAAATTAAAAAAA
65267294 TATTTAA-AAATAAATT-AAAAAA
1 TATTTAATAAATAAATTAAAAAAA
*
65267316 TAATTAAT
1 TATTTAAT
65267324 CTAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATTTAATAAATAAATTAAAAAAA
Found at i:65267388 original size:22 final size:22
Alignment explanation
Indices: 65267353--65267416 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
65267343 TTGACCCATG
* *
65267353 AACTCATAAACCCTAAATCCCT
1 AACTCATAACCCCTAAACCCCT
*
65267375 AACTCTTAACCCCTAAACCCCT
1 AACTCATAACCCCTAAACCCCT
* *
65267397 AACCCCTAACCCCCTAAACC
1 AACTCATAA-CCCCTAAACC
65267417 TTAAATCTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 26 0.72
23 10 0.28
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (22 bp):
AACTCATAACCCCTAAACCCCT
Found at i:65267400 original size:7 final size:7
Alignment explanation
Indices: 65267371--65267409 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
65267361 AACCCTAAAT
65267371 CCCTAAC
1 CCCTAAC
* *
65267378 TCTTAAC
1 CCCTAAC
65267385 CCCTAAAC
1 CCCT-AAC
65267393 CCCTAAC
1 CCCTAAC
65267400 CCCTAAC
1 CCCTAAC
65267407 CCC
1 CCC
65267410 CTAAACCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.28, C:0.54, G:0.00, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:65267401 original size:15 final size:15
Alignment explanation
Indices: 65267381--65267413 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
65267371 CCCTAACTCT
65267381 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
*
65267396 TAACCCCTAACCCCC
1 TAACCCCTAAACCCC
65267411 TAA
1 TAA
65267414 ACCTTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:65267465 original size:15 final size:15
Alignment explanation
Indices: 65267429--65267469 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
65267419 AAATCTCAAC
65267429 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
65267443 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
65267457 CCTTAAATCCATA
1 CCTTAAATCCATA
65267470 CTCCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:65267478 original size:15 final size:15
Alignment explanation
Indices: 65267432--65267478 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65267422 TCTCAACCCT
*
65267432 TAAA-CCATAATCCC
1 TAAATCCATAATCCA
*
65267446 T-AATCCATAATCCT
1 TAAATCCATAATCCA
*
65267460 TAAATCCATACTCCA
1 TAAATCCATAATCCA
65267475 TAAA
1 TAAA
65267479 CCTTAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:65267763 original size:41 final size:40
Alignment explanation
Indices: 65267703--65267818 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
65267693 TAAAATGTTT
65267703 TTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCCTA-CCA
1 TTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGCCCC-AGCCA
* *
65267744 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAGGCA
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGCCCCAGCCA
*
65267785 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCC
1 TTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGCC
65267819 ACGAAATGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
40 2 0.03
41 62 0.91
42 4 0.06
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGCCCCAGCCA
Found at i:65267898 original size:40 final size:39
Alignment explanation
Indices: 65267854--65267932 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
65267844 TGGGCTAAGG
* * *
65267854 TTTTTTGCGGCGTTTTTTTGAAAAATGCCGCTAATGCTCA
1 TTTTTAGCGGCATTTTTTT-AAAAATGCCACTAATGCTCA
65267894 TTTTTAGCGGCATTTTTTTAAAAATGCCACTAATGCTCA
1 TTTTTAGCGGCATTTTTTTAAAAATGCCACTAATGCTCA
65267933 ATCTTTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (39 bp):
TTTTTAGCGGCATTTTTTTAAAAATGCCACTAATGCTCA
Found at i:65267940 original size:40 final size:40
Alignment explanation
Indices: 65267860--65267949 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
65267850 AAGGTTTTTT
* * *
65267860 GCGGCGTTTTTTTGAAAAATGCCGCTAATGCTCATTTTTA
1 GCGGCATTTTTTTGAAAAATGCCACTAATGCTCATCTTTA
65267900 GCGGCATTTTTTT-AAAAATGCCACTAATGCTCAATCTTTA
1 GCGGCATTTTTTTGAAAAATGCCACTAATGCTC-ATCTTTA
*
65267940 GTGGCGATTT
1 GCGGC-ATTT
65267950 CCAGAAAGCG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 18 0.41
40 22 0.50
41 4 0.09
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (40 bp):
GCGGCATTTTTTTGAAAAATGCCACTAATGCTCATCTTTA
Found at i:65270208 original size:52 final size:52
Alignment explanation
Indices: 65270152--65270270 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 52
65270142 GGGAAATTTC
65270152 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
* * * *
65270204 TCACTTAGCACATTGCCATGGACTTCTTTCACTTAGATGTCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
65270256 TCACTTAGCACAATG
1 TCACTTAGCACAATG
65270271 TCATATCCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
Found at i:65270233 original size:28 final size:27
Alignment explanation
Indices: 65270152--65270267 Score: 136
Period size: 24 Copynumber: 4.4 Consensus size: 27
65270142 GGGAAATTTC
65270152 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
65270180 TCACTTAG---ATGCCATGGGCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
65270204 TCACTTAGCACATTGCCATGGACTTCTT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
65270232 TCACTTAG---ATGTCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
65270256 TCACTTAGCACA
1 TCACTTAGCACA
65270268 ATGTCATATC
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
24 43 0.57
25 1 0.01
27 2 0.03
28 29 0.39
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:65275843 original size:51 final size:51
Alignment explanation
Indices: 65275759--65275957 Score: 278
Period size: 51 Copynumber: 3.9 Consensus size: 51
65275749 GGGATACACG
*
65275759 GTGGCCTTCACATAGTACCAC-CTT-TGTAGCCAAAGCTATTGTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGT--CCAAAGCTATTTTATTCACAAA
65275810 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * * *
65275861 GTGGCCTTCAAATAATTCCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
65275912 G-GGACCTTCACATAGTACCACACATCTGTCTAAAGCTATTTTATTC
1 GTGG-CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
65275958 CTAAGGTTCA
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.02
51 125 0.94
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:65276037 original size:52 final size:52
Alignment explanation
Indices: 65275981--65276099 Score: 193
Period size: 52 Copynumber: 2.3 Consensus size: 52
65275971 GGGAAATTTC
**
65275981 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTCATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
* * *
65276033 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATAACATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
65276085 TCACTTAGCACAATG
1 TCACTTAGCACAATG
65276100 TCATATCCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
Found at i:65276061 original size:28 final size:27
Alignment explanation
Indices: 65275981--65276096 Score: 136
Period size: 24 Copynumber: 4.4 Consensus size: 27
65275971 GGGAAATTTC
65275981 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
65276009 TCACTTAG---ATGCCATGGACTCATT
1 TCACTTAGCACATGCCATGGACTTATT
65276033 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
** *
65276061 TCACTTAG---ATAACATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
65276085 TCACTTAGCACA
1 TCACTTAGCACA
65276097 ATGTCATATC
Statistics
Matches: 76, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
24 43 0.57
25 1 0.01
27 2 0.03
28 30 0.39
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:65283172 original size:13 final size:13
Alignment explanation
Indices: 65283154--65283197 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
65283144 AATGGCTATA
65283154 TCAAGTTTTATTG
1 TCAAGTTTTATTG
*
65283167 TCAAG-TTTA-TA
1 TCAAGTTTTATTG
65283178 TCAAGTTTTATTG
1 TCAAGTTTTATTG
65283191 TCAAGTT
1 TCAAGTT
65283198 AATTAGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.22
12 8 0.30
13 13 0.48
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (13 bp):
TCAAGTTTTATTG
Found at i:65283177 original size:24 final size:24
Alignment explanation
Indices: 65283150--65283197 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
65283140 TGGGAATGGC
65283150 TATATCAAGTTTTATTGTCAAGTT
1 TATATCAAGTTTTATTGTCAAGTT
65283174 TATATCAAGTTTTATTGTCAAGTT
1 TATATCAAGTTTTATTGTCAAGTT
65283198 AATTAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.50
Consensus pattern (24 bp):
TATATCAAGTTTTATTGTCAAGTT
Found at i:65283187 original size:12 final size:12
Alignment explanation
Indices: 65283150--65283188 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
65283140 TGGGAATGGC
65283150 TATATCAAGTTT
1 TATATCAAGTTT
*
65283162 TATTGTCAAG-TT
1 TA-TATCAAGTTT
65283174 TATATCAAGTTT
1 TATATCAAGTTT
65283186 TAT
1 TAT
65283189 TGTCAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.26
12 11 0.48
13 6 0.26
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (12 bp):
TATATCAAGTTT
Found at i:65289175 original size:47 final size:47
Alignment explanation
Indices: 65289121--65289264 Score: 202
Period size: 47 Copynumber: 3.1 Consensus size: 47
65289111 TGAGGATTTT
*
65289121 ATGTGATGAATGTGAATATGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGAGATAAGGCCGAATGGCCA
* *
65289168 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGAGATAAGGCCGAATGGCCA
** * *
65289215 ATGTGATGAATGTGAGATATGCATACGTG-G-TAAAGCCGAATGGTCA
1 ATGTGATGAATGTGA-ATATGCATATATGAGATAAGGCCGAATGGCCA
65289261 ATGT
1 ATGT
65289265 AAAATATATA
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
46 18 0.20
47 60 0.68
48 10 0.11
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAATATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:65289221 original size:22 final size:22
Alignment explanation
Indices: 65289150--65289221 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
65289140 GTATATATGA
65289150 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
65289172 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
65289197 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
65289219 GAT
1 GAT
65289222 GAATGTGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:65289522 original size:37 final size:37
Alignment explanation
Indices: 65289471--65289542 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
65289461 GGAAATATAT
*
65289471 TCCGGGTAAAACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAAACCCGATAACTACGTGTGGAGATTTTG
* *
65289508 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAAACCCGATAACTACGTGTGGAGATTT
65289543 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAAACCCGATAACTACGTGTGGAGATTTTG
Found at i:65294042 original size:65 final size:65
Alignment explanation
Indices: 65293961--65294156 Score: 383
Period size: 65 Copynumber: 3.0 Consensus size: 65
65293951 CAAATAATGC
65293961 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATTTCA
1 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATTTCA
65294026 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATTTCA
1 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATTTCA
*
65294091 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATGTCA
1 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATTTCA
65294156 T
1 T
65294157 ATGCTCAACC
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 130 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (65 bp):
TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATTTCA
Found at i:65297159 original size:39 final size:40
Alignment explanation
Indices: 65296955--65297177 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
65296945 TTGAATGCTG
* * * * * *
65296955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
65296995 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
65297035 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
65297075 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
65297115 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
65297154 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
65297178 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:65297197 original size:79 final size:80
Alignment explanation
Indices: 65297030--65297212 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
65297020 GTGCGAGATA
* * *
65297030 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
65297095 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
65297110 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
65297174 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
65297189 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
65297213 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:65302187 original size:48 final size:47
Alignment explanation
Indices: 65302135--65302310 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 47
65302125 CCACATTATG
* * *
65302135 AGAGCCAGTGTAATACCATGTTTGGGACATGGCATCGGCATTGAGGC-A
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGA
* * *
65302183 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
* * * *
65302230 A-AGCCAGTCTAAGACATGTCTGGGACATGCATCGAC-TACGAGATG-
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGAGACGA
* *
65302275 ATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
65302311 AACACTTTAC
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
45 2 0.02
46 62 0.56
47 28 0.25
48 18 0.16
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
Found at i:65304569 original size:15 final size:15
Alignment explanation
Indices: 65304549--65304577 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
65304539 GGGCATAGTA
65304549 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
65304564 AAATATTTAAAAAA
1 AAATATTTAAAAAA
65304578 GAGATACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:65312001 original size:79 final size:80
Alignment explanation
Indices: 65311857--65312041 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
65311847 GCTCCTCGTT
* * *
65311857 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
65311921 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* * **
65311937 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
65312000 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
65312017 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
65312042 CATCGTTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:65312041 original size:40 final size:40
Alignment explanation
Indices: 65311857--65312041 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
65311847 GCTCCTCGTT
* * *
65311857 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
65311897 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
65311937 CAAATGCCTTTGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
65311976 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
65312017 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65312042 CATCGTTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:65314030 original size:16 final size:17
Alignment explanation
Indices: 65313998--65314031 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65313988 GGGAATGGAG
65313998 TTTGTTTGATATTTATT
1 TTTGTTTGATATTTATT
*
65314015 TTTGTTTG-TTTTTATT
1 TTTGTTTGATATTTATT
65314031 T
1 T
65314032 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATATTTATT
Found at i:65315295 original size:21 final size:21
Alignment explanation
Indices: 65315271--65315315 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
65315261 TATATCTACT
65315271 CAAGGAAATTATAATTCAA-GA
1 CAAGGAAATTATAA-TCAACGA
*
65315292 CAAGGGAATTATAATCAACGA
1 CAAGGAAATTATAATCAACGA
65315313 CAA
1 CAA
65315316 TAGAGCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (21 bp):
CAAGGAAATTATAATCAACGA
Found at i:65317011 original size:15 final size:15
Alignment explanation
Indices: 65316991--65317020 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65316981 CAACACTTGT
65316991 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
65317006 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
65317021 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:65328233 original size:27 final size:27
Alignment explanation
Indices: 65328195--65328248 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
65328185 CACAACATAG
*
65328195 CCATAAGATCTATCCTTTCGATATAAA
1 CCATAAGATCTATCATTTCGATATAAA
*
65328222 CCATAAGCTCTATCATTTCGATATAAA
1 CCATAAGATCTATCATTTCGATATAAA
65328249 TCATTCATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
CCATAAGATCTATCATTTCGATATAAA
Found at i:65331512 original size:15 final size:15
Alignment explanation
Indices: 65331449--65331511 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
65331439 AAAAATCCAT
65331449 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
65331464 ACAGAGATATCCAAG
1 ATAAAGAAATCCAAG
*
65331479 ATAAAGAAATTCCATG
1 ATAAAGAAA-TCCAAG
**
65331495 ATTTAGAAATCCAAG
1 ATAAAGAAATCCAAG
65331510 AT
1 AT
65331512 TATCAAAATG
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
15 25 0.68
16 12 0.32
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65336526 original size:17 final size:17
Alignment explanation
Indices: 65336504--65336537 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65336494 CAGGGGAAAG
*
65336504 AAAGAAGGAAGGAAAAA
1 AAAGAAAGAAGGAAAAA
65336521 AAAGAAAGAAGGAAAAA
1 AAAGAAAGAAGGAAAAA
65336538 GGGAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAGGAAAAA
Found at i:65336544 original size:21 final size:22
Alignment explanation
Indices: 65336495--65336544 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
65336485 AACAGAGAGC
*
65336495 AGGGGAAAGAAAGAAGGAAGGAA
1 AGGGAAAAGAAAGAAGGAA-GAA
*
65336518 A--AAAAAGAAAGAAGGAA-AA
1 AGGGAAAAGAAAGAAGGAAGAA
65336537 AGGGAAAA
1 AGGGAAAA
65336545 ATTGAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 6
0.71 0.10 0.19
Matches are distributed among these distances:
19 3 0.14
21 18 0.82
23 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
AGGGAAAAGAAAGAAGGAAGAA
Found at i:65338756 original size:50 final size:47
Alignment explanation
Indices: 65338632--65338762 Score: 158
Period size: 46 Copynumber: 2.7 Consensus size: 47
65338622 TATGAAATGT
*
65338632 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
65338679 -TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAACGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A
* * * * *
65338728 GTAAGACCATAGCTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
65338763 TCAAAGATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
45 5 0.07
46 37 0.51
47 1 0.01
49 1 0.01
50 29 0.40
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.18
Consensus pattern (47 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
Found at i:65340518 original size:31 final size:31
Alignment explanation
Indices: 65340483--65340546 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
65340473 CAAAGATATC
*
65340483 TTTGTTCGTGTAGATAAATTCATTTTTTTGA
1 TTTGTTCGTGTAGATAAATTCATTTTTCTGA
65340514 TTTGTTCGTGTAGATAAATTCATTTTTCTGA
1 TTTGTTCGTGTAGATAAATTCATTTTTCTGA
65340545 TT
1 TT
65340547 GATTTTATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.55
Consensus pattern (31 bp):
TTTGTTCGTGTAGATAAATTCATTTTTCTGA
Found at i:65345252 original size:17 final size:17
Alignment explanation
Indices: 65345230--65345264 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65345220 ATATGTCAGC
65345230 TCATCTACATATTTTCA
1 TCATCTACATATTTTCA
65345247 TCATCTACATATTTTCA
1 TCATCTACATATTTTCA
65345264 T
1 T
65345265 TTGGGTGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.49
Consensus pattern (17 bp):
TCATCTACATATTTTCA
Found at i:65346559 original size:20 final size:20
Alignment explanation
Indices: 65346540--65346577 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65346530 ATGTAAAAAT
*
65346540 TATATA-TTTAAAATATAAA
1 TATATATTTTAAAAAATAAA
*
65346559 TATGTATTTTAAAAAATAA
1 TATATATTTTAAAAAATAA
65346578 TATCTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TATATATTTTAAAAAATAAA
Found at i:65347140 original size:251 final size:252
Alignment explanation
Indices: 65346697--65347200 Score: 1001
Period size: 251 Copynumber: 2.0 Consensus size: 252
65346687 TTTTCAGCTC
65346697 GTATTGCTATTTTTCTACAGCACGTCAAAGTGTTATCATATTAAGAAACTTTATTTAACATGTTA
1 GTATTGCTATTTTTCTACAGCACGTCAAAGTGTTATCATATTAAGAAACTTTATTTAACATGTTA
65346762 AAGTGTTACCATGTAAGTGAAAAAAAAAATTAAAAATATAATTATAAAAAATATGTATTAGAATT
66 AAGTGTTACCATGTAAGTGAAAAAAAAAATTAAAAATATAATTATAAAAAATATGTATTAGAATT
65346827 GAATTCGGAACACAACATAATAAAAAAACTACAAATAACCCTTTAAAAATATTATGGGCTAATGT
131 GAATTCGGAACACAACATAATAAAAAAACTACAAATAACCCTTTAAAAATATTATGGGCTAATGT
65346892 CTTAAAATTAGTACAACATTAAATAATGGTTTAAATTCT-AAAAAAAAAAAACTTAG
196 CTTAAAATTAGTACAACATTAAATAATGGTTTAAATTCTAAAAAAAAAAAAACTTAG
65346948 GTATTGCTATTTTTCTACAGCACGTCAAAGTGTTATCATATTAAGAAACTTTATTTAACATGTTA
1 GTATTGCTATTTTTCTACAGCACGTCAAAGTGTTATCATATTAAGAAACTTTATTTAACATGTTA
65347013 AAGTGTTACCATGTAAGTGAAAAAAAAAATTAAAAATATAATTATAAAAAATATGTATTAGAATT
66 AAGTGTTACCATGTAAGTGAAAAAAAAAATTAAAAATATAATTATAAAAAATATGTATTAGAATT
65347078 GAATTCGGAACACAACATAATAAAAAAACTACAAATAACCCTTTAAAAATATTATGGGCTAATGT
131 GAATTCGGAACACAACATAATAAAAAAACTACAAATAACCCTTTAAAAATATTATGGGCTAATGT
65347143 CTTAAAATTAGTACAACATTAAATAATGGTTTAAATTCTAAAAAAAAAAAAACTTAG
196 CTTAAAATTAGTACAACATTAAATAATGGTTTAAATTCTAAAAAAAAAAAAACTTAG
65347200 G
1 G
65347201 AAATAAAGAG
Statistics
Matches: 252, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
251 234 0.93
252 18 0.07
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (252 bp):
GTATTGCTATTTTTCTACAGCACGTCAAAGTGTTATCATATTAAGAAACTTTATTTAACATGTTA
AAGTGTTACCATGTAAGTGAAAAAAAAAATTAAAAATATAATTATAAAAAATATGTATTAGAATT
GAATTCGGAACACAACATAATAAAAAAACTACAAATAACCCTTTAAAAATATTATGGGCTAATGT
CTTAAAATTAGTACAACATTAAATAATGGTTTAAATTCTAAAAAAAAAAAAACTTAG
Found at i:65347815 original size:20 final size:18
Alignment explanation
Indices: 65347790--65347827 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
65347780 TTTTTATATA
65347790 TTTATAAAATATTATTAAAT
1 TTTATAAAA-ATT-TTAAAT
65347810 TTTATAAAAATTTTAAAT
1 TTTATAAAAATTTTAAAT
65347828 AAAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATAAAAATTTTAAAT
Found at i:65347835 original size:21 final size:19
Alignment explanation
Indices: 65347811--65347857 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
65347801 TTATTAAATT
*
65347811 TTATAAAAATTTTAAATAAAA
1 TTATAAAAA-TTCAAA-AAAA
65347832 TTATAAAAATTCAAAAAAA
1 TTATAAAAATTCAAAAAAA
65347851 TT-TAAAA
1 TTATAAAA
65347858 TCATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 6 0.24
20 5 0.20
21 9 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TTATAAAAATTCAAAAAAA
Found at i:65357995 original size:69 final size:70
Alignment explanation
Indices: 65357863--65357995 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
65357853 TAGTTTATTA
* * * * * *
65357863 CTAATTAATTTGCTGCTGTAATGCTGTCAATTATTGTCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
65357928 CTTAG
66 CTTAG
65357933 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
65357996 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:65358961 original size:119 final size:118
Alignment explanation
Indices: 65358770--65359372 Score: 735
Period size: 119 Copynumber: 5.1 Consensus size: 118
65358760 GACTTAAGGT
* *
65358770 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCATGCTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
* *
65358835 CCGGACTTAAGGTCCACAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
66 CCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * * ** *
65358888 CCGCAGGCTAT-ATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGT
1 CCGCAGGCT-TCGTGCTGGAATTGTATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTGT
65358952 ATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
64 ATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * * *
65359007 CCACAGGCTTCGTGCTGGAATTGTATCCGAACTTAAGGTCCGCAAGCTTCGTGTTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
* * ** *
65359072 CTGGGCTTAAAGACCCGCAGGCTATAC--GCTGGAATTATATCCGGGCTTAAAGAC
66 CCGGACTT-AAGGTCCGCAGGCT-T-CGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * * *
65359126 CCACAAGCTTTGTGCTGGAATTGTATCCGGACTTAAGGTCTGCAGGCTTCGTGCTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
* ** * * *
65359191 CCGGGCTTAAAGACCCACAGGCTTCGTCCTGGAATTGTATCTGGGCTTAAAGAC
66 CCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * ** * * *
65359245 CCGCAAGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCATAGGCTTCGTGCTGGTACTATAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
* * * * * * *
65359310 TCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCCGAGCTTAAAGTC
66 CCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
*
65359363 CCGTAGGCTT
1 CCGCAGGCTT
65359373 TGTGTTGGTG
Statistics
Matches: 418, Mismatches: 59, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
117 1 0.00
118 106 0.25
119 309 0.74
120 1 0.00
121 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (118 bp):
CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
CCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
Found at i:65358971 original size:79 final size:79
Alignment explanation
Indices: 65358770--65359301 Score: 615
Period size: 79 Copynumber: 6.7 Consensus size: 79
65358760 GACTTAAGGT
** *
65358770 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCATGCTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAAGCTTCGTGCTGGAATTGTAT
* **
65358835 CCGGACTT-AAGGT
66 CCGGGCTTAAAGAC
* * * * * *
65358848 CCACAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGACCCGCAAGCT-TCGTGCTGGAATTGT
65358912 ATCCGGGCTTAAAGAC
64 ATCCGGGCTTAAAGAC
* ** *
65358928 CCGCAGGCTTTGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAAGCTTCGTGCTGGAATTGTAT
65358993 CCGGGCTTAAAGAC
66 CCGGGCTTAAAGAC
* * ** *
65359007 CCACAGGCTTCGTGCTGGAATTGTATCCGAACTTAAGGTCCGCAAGCTTCGTGTTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAAGCTTCGTGCTGGAATTGTAT
*
65359072 CTGGGCTTAAAGAC
66 CCGGGCTTAAAGAC
* * * *
65359086 CCGCAGGCTATAC--GCTGGAATTATATCCGGGCTTAAAGACCCACAAGCTTTGTGCTGGAATTG
1 CCGCAGGCT-T-CGTGCTGGAATTGTATCCGGACTT-AAGACCCGCAAGCTTCGTGCTGGAATTG
* **
65359149 TATCCGGACTT-AAGGT
63 TATCCGGGCTTAAAGAC
* * * * *
65359165 CTGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTCCTGGAATTGTA
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGACCCGCAAGCTTCGTGCTGGAATTGTA
*
65359230 TCTGGGCTTAAAGAC
65 TCCGGGCTTAAAGAC
* * ** *
65359245 CCGCAAGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCATAGGCTTCGTGCTGG
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAAGCTTCGTGCTGG
65359302 TACTATATTC
Statistics
Matches: 392, Mismatches: 52, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
77 1 0.00
78 33 0.08
79 256 0.65
80 101 0.26
81 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAAGCTTCGTGCTGGAATTGTAT
CCGGGCTTAAAGAC
Found at i:65359091 original size:198 final size:198
Alignment explanation
Indices: 65358754--65359280 Score: 860
Period size: 198 Copynumber: 2.7 Consensus size: 198
65358744 ATTTGATGTA
* * *
65358754 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCA-A-GC
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACC-CACAGGC
* *
65358817 TTCATGCTGGAATTGTATCCGGACTTAAGGTCCACAAGCTTCGTGCTGGAATTGTATCCGGGCTT
65 TTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTT
* * *
65358882 AAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGA
130 AAAGACCCGCAGGCTATACGCTGGAATTATATCCGGGCTTAAAGACCCACAAGCTTTGTGCTGGA
65358947 ATTG
195 ATTG
65358951 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCT
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCT
* * *
65359016 TCGTGCTGGAATTGTATCCGAACTTAAGGTCCGCAAGCTTCGTGTTGGAATTGTATCTGGGCTTA
66 TCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTTA
65359081 AAGACCCGCAGGCTATACGCTGGAATTATATCCGGGCTTAAAGACCCACAAGCTTTGTGCTGGAA
131 AAGACCCGCAGGCTATACGCTGGAATTATATCCGGGCTTAAAGACCCACAAGCTTTGTGCTGGAA
65359146 TTG
196 TTG
*
65359149 TATCCGGACTTAAGGTCTGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCT
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCT
* * * ** *
65359214 TCGTCCTGGAATTGTATCTGGGCTTAAAGACCCGCAAGCTTCGTGCTGGAATTGTATCCGGACTT
66 TCGTGCTGGAATTGTATCCGGACTT-AAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTT
65359279 AA
130 AA
65359281 GATCCATAGG
Statistics
Matches: 306, Mismatches: 21, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
196 2 0.01
197 55 0.18
198 213 0.70
199 36 0.12
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (198 bp):
TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCT
TCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTTA
AAGACCCGCAGGCTATACGCTGGAATTATATCCGGGCTTAAAGACCCACAAGCTTTGTGCTGGAA
TTG
Found at i:65362552 original size:43 final size:43
Alignment explanation
Indices: 65362491--65362584 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
65362481 TAGCCCAAGG
* *
65362491 GACACACGACCGTGCAACATAGCCATGTGTTGCACACAGCTGA
1 GACACACGACCGTCCAACATAGCCATGTGTCGCACACAGCTGA
* * *
65362534 GACACACGACCGTCCAACATAGCCGTGTGTCGCACACGGTTGA
1 GACACACGACCGTCCAACATAGCCATGTGTCGCACACAGCTGA
65362577 GACACACG
1 GACACACG
65362585 CCTGTGTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (43 bp):
GACACACGACCGTCCAACATAGCCATGTGTCGCACACAGCTGA
Found at i:65388989 original size:20 final size:20
Alignment explanation
Indices: 65388964--65389004 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
65388954 ATACGACTTA
65388964 AATTGAAATGAATTGATTAT
1 AATTGAAATGAATTGATTAT
65388984 AATTGAAATGAATTGATTAT
1 AATTGAAATGAATTGATTAT
65389004 A
1 A
65389005 TTTTGGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (20 bp):
AATTGAAATGAATTGATTAT
Found at i:65393389 original size:58 final size:58
Alignment explanation
Indices: 65393217--65393395 Score: 154
Period size: 58 Copynumber: 3.0 Consensus size: 58
65393207 ATACTTGGTA
65393217 GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAAC
1 GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAAC
** * * *
65393275 ACTT-AGTACCACTCATG-TGACCTAGCCA--ATTTA-TCTCGTAGCTCTCTTGT-CTACATGGT
1 GTTTCAGCA-CA-T-A-GCT--CC-ACCCATCATATAGT-TCG--GCTCTCTTGTAC-ACATGGT
**
65393334 GTCC
55 GAAC
65393338 GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAAC
1 GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAAC
65393396 ACTTAGTACC
Statistics
Matches: 90, Mismatches: 14, Indels: 34
0.65 0.10 0.25
Matches are distributed among these distances:
57 3 0.03
58 27 0.30
59 4 0.04
60 11 0.12
61 11 0.12
62 4 0.04
63 27 0.30
64 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (58 bp):
GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAAC
Found at i:65393436 original size:121 final size:121
Alignment explanation
Indices: 65393217--65393457 Score: 439
Period size: 121 Copynumber: 2.0 Consensus size: 121
65393207 ATACTTGGTA
65393217 GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAACACTTAGT
1 GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAACACTTAGT
* *
65393282 ACCACTCATGTGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCC
66 ACCACTCATGTGACCTAGCCAATATATCCCGTAGCTCTCTTGTCTACATGGTGTCC
65393338 GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAACACTTAGT
1 GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAACACTTAGT
*
65393403 ACCACTCATGTGACCTA-CTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTC
66 ACCACTCATGTGACCTAGCCA-ATATATCCCGTAGCTCTCTTGTCTACATGGTGTC
65393458 ATTCACCTGG
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
120 2 0.02
121 114 0.98
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (121 bp):
GTTTCAGCACATAGCTCCACCCATCATATAGTTCGGCTCTCTTGTACACATGGTGAACACTTAGT
ACCACTCATGTGACCTAGCCAATATATCCCGTAGCTCTCTTGTCTACATGGTGTCC
Found at i:65393504 original size:67 final size:67
Alignment explanation
Indices: 65393403--65393623 Score: 324
Period size: 67 Copynumber: 3.4 Consensus size: 67
65393393 AACACTTAGT
* *
65393403 ACCACTCATGTGACCTA-CTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCATTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCATTCACCTG
65393467 GA
66 GA
* * *
65393469 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCGCTCTTGTCTACATGGTGTCCTTCTCCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCATTCACCTG
65393534 GA
66 GA
* *
65393536 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT-A--CACATA
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCATTCACCTG
*
65393598 GT
66 GA
* *
65393600 ATCACCCATGCGACCTAGCTACAT
1 ACCACGCATGCGACCTAGCTACAT
65393624 CATAATGTCT
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
64 26 0.18
66 15 0.11
67 100 0.71
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.29
Consensus pattern (67 bp):
ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCATTCACCTG
GA
Found at i:65394391 original size:30 final size:30
Alignment explanation
Indices: 65394357--65394417 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65394347 TCCTTAACTC
65394357 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65394387 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65394417 A
1 A
65394418 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65398436 original size:40 final size:40
Alignment explanation
Indices: 65398379--65398712 Score: 434
Period size: 40 Copynumber: 8.3 Consensus size: 40
65398369 CGAATACACG
* * *
65398379 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** *
65398419 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
65398459 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
65398499 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
** *
65398539 TCACTAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
65398579 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
** *
65398619 TCACTAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
65398659 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
*
65398699 TCACTAGCATGAAT
1 TCACTAGCACGAAT
65398713 TGTGACACCC
Statistics
Matches: 251, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 251 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:65398592 original size:120 final size:120
Alignment explanation
Indices: 65398379--65398712 Score: 517
Period size: 120 Copynumber: 2.8 Consensus size: 120
65398369 CGAATACACG
* * * * *
65398379 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGG
65398444 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
* *
65398499 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGG
65398564 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
** * **
65398619 TCACTAGCACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGG
* * *
65398684 CTTAGTC-CGGATACATCACTAGCATGAAT
66 TTTAG-CACGGATATATCACTAGCACGAAT
65398713 TGTGACACCC
Statistics
Matches: 196, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
120 195 0.99
121 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGG
TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
Found at i:65401802 original size:47 final size:47
Alignment explanation
Indices: 65401750--65401869 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 47
65401740 GATAATTGTG
* * * * *
65401750 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
* * * *
65401797 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
*
65401844 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
65401870 TCCCGAAGGG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
Found at i:65402044 original size:37 final size:37
Alignment explanation
Indices: 65401988--65402066 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
65401978 CCGAGCTCTA
* * *
65401988 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
65402025 AAGACCCGATAATTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
65402062 AAGAC
1 AAGAC
65402067 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:65402457 original size:177 final size:177
Alignment explanation
Indices: 65402161--65402519 Score: 684
Period size: 177 Copynumber: 2.0 Consensus size: 177
65402151 GCGCTAAATC
65402161 ATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGATTATGTGACATC
1 ATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGATTATGTGACATC
*
65402226 GGATCAGTGTGAGAGGTTATGTGAAATCATACGATATATCTATGTCACATGAGCTCACTTTTATG
66 GGATCAGTGTGAGAGGTGATGTGAAATCATACGATATATCTATGTCACATGAGCTCACTTTTATG
*
65402291 TGAAAGTTTATCTGCCTATTGTATATGATGAGACGTGCATATTCGGT
131 TGAAAGTTTATCTGCCTATTGTATATGATGAGACGTGCAGATTCGGT
65402338 ATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGATTATGTGACATC
1 ATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGATTATGTGACATC
65402403 GGATCAGTGTGAGAGGTGATGTGAAATCATACGATATATCTATGTCACATGAGCTCACTTTTATG
66 GGATCAGTGTGAGAGGTGATGTGAAATCATACGATATATCTATGTCACATGAGCTCACTTTTATG
*
65402468 TGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCAGATTCGGT
131 TGAAAGTTTATCTGCCTATTGTATATGATGAGACGTGCAGATTCGGT
65402515 A-AAGG
1 ATAAGG
65402520 GATGGTATGC
Statistics
Matches: 179, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
176 4 0.02
177 175 0.98
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (177 bp):
ATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGATTATGTGACATC
GGATCAGTGTGAGAGGTGATGTGAAATCATACGATATATCTATGTCACATGAGCTCACTTTTATG
TGAAAGTTTATCTGCCTATTGTATATGATGAGACGTGCAGATTCGGT
Found at i:65403665 original size:40 final size:40
Alignment explanation
Indices: 65403610--65403715 Score: 178
Period size: 40 Copynumber: 2.7 Consensus size: 40
65403600 TACATTAATT
* *
65403610 CTCTTCGAGACTTAGCCCGGATACATCACCAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATG
*
65403650 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATG
65403690 CTCTTCGGGACTTAGCCCGGAT-CATC
1 CTCTTCGGGACTTAGCCCGGATACATC
65403716 GTCGAGACCT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
39 4 0.06
40 59 0.94
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATG
Found at i:65403811 original size:38 final size:38
Alignment explanation
Indices: 65403769--65403843 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
65403759 GAATTTTAAT
*
65403769 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
65403807 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
65403844 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:65404863 original size:64 final size:64
Alignment explanation
Indices: 65404762--65404891 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
65404752 GGCTTCAATA
65404762 CTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAAATATATGGCATGACT
1 CTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAAATATATGGCATGACT
*
65404826 CTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCATGACT
1 CTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAAATATATGGCATGACT
65404890 CT
1 CT
65404892 TAATTATCTC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (64 bp):
CTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAAATATATGGCATGACT
Done.