Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 221 of 770
Found at i:65978840 original size:28 final size:27
Alignment explanation
Indices: 65978746--65978837 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 27
65978736 GAATAATTCG
*
65978746 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTG-CATTCTCA
*
65978774 ATATCTCGCCACACTAAGTGCATTCTCA
1 ATATTTCG-CACACTAAGTGCATTCTCA
*
65978802 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTG-CATTCTCA
65978830 ATATTTCG
1 ATATTTCG
65978838 TACCCAAGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 10 0.17
28 37 0.64
29 11 0.19
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (27 bp):
ATATTTCGCACACTAAGTGCATTCTCA
Found at i:65987258 original size:24 final size:24
Alignment explanation
Indices: 65987226--65987281 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
65987216 AGTTGGCTAT
65987226 GGTCGTGGTCGAGAAGGACATGAC
1 GGTCGTGGTCGAGAAGGACATGAC
* *
65987250 GGTCGTGGTCGAGAAGGGCATGGC
1 GGTCGTGGTCGAGAAGGACATGAC
*
65987274 AGTCGTGG
1 GGTCGTGG
65987282 AGAACCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.16, G:0.46, T:0.18
Consensus pattern (24 bp):
GGTCGTGGTCGAGAAGGACATGAC
Found at i:65994488 original size:13 final size:13
Alignment explanation
Indices: 65994470--65994496 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65994460 GCTCGACAGG
65994470 GACACGCCCGTGT
1 GACACGCCCGTGT
65994483 GACACGCCCGTGT
1 GACACGCCCGTGT
65994496 G
1 G
65994497 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:65995437 original size:43 final size:43
Alignment explanation
Indices: 65995363--65995445 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
65995353 ATCGACATCG
* * *
65995363 TATTTGATTTCGTGTAAGACCCTATCTGGGACAG-TGGCATCAA
1 TATTTGATTACATGTAAGACCCTATCGGGGAC-GTTGGCATCAA
65995406 TATTTGATTACATGTAAGACCAC-ATCGGGGACGTTGGCAT
1 TATTTGATTACATGTAAGACC-CTATCGGGGACGTTGGCAT
65995446 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACCCTATCGGGGACGTTGGCATCAA
Found at i:65996297 original size:19 final size:19
Alignment explanation
Indices: 65996273--65996310 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
65996263 TGTATGATTT
65996273 GGATTTGAAATTGGTTGAA
1 GGATTTGAAATTGGTTGAA
65996292 GGATTTGAAATTGGTTGAA
1 GGATTTGAAATTGGTTGAA
65996311 AATATGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.37
Consensus pattern (19 bp):
GGATTTGAAATTGGTTGAA
Found at i:66001271 original size:27 final size:27
Alignment explanation
Indices: 66001231--66001285 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
66001221 CTTGACGACC
*
66001231 CTAAGAAGTTATTTAAGTAGATGAGGT
1 CTAAGAAGTAATTTAAGTAGATGAGGT
66001258 CTAAGAAGTAATTTAAGTAGATGAGGT
1 CTAAGAAGTAATTTAAGTAGATGAGGT
66001285 C
1 C
66001286 AGAAGAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (27 bp):
CTAAGAAGTAATTTAAGTAGATGAGGT
Found at i:66001339 original size:55 final size:55
Alignment explanation
Indices: 66001278--66001401 Score: 185
Period size: 55 Copynumber: 2.3 Consensus size: 55
66001268 ATTTAAGTAG
* *
66001278 ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTGTCCTAGTTTGAACT
1 ATGAGGTCAGAAGAATAGTCTATGGAGCATCTCTCAACTTATCCTAGTTTGAACT
* * * * *
66001333 ATGAGGTCGGAAGAATTGTCTATGGAGCATCTCTTAACTTATCCTGGTTTGAATT
1 ATGAGGTCAGAAGAATAGTCTATGGAGCATCTCTCAACTTATCCTAGTTTGAACT
66001388 ATGAGGTCAGAAGA
1 ATGAGGTCAGAAGA
66001402 TAAGTAGTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (55 bp):
ATGAGGTCAGAAGAATAGTCTATGGAGCATCTCTCAACTTATCCTAGTTTGAACT
Found at i:66028252 original size:27 final size:27
Alignment explanation
Indices: 66028211--66028264 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
66028201 TGTCATGTGA
* *
66028211 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
66028238 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
66028265 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:66028599 original size:49 final size:49
Alignment explanation
Indices: 66028510--66028604 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
66028500 TCTATTGTGA
* *
66028510 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
66028559 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
66028605 GCCTTGTCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:66040500 original size:40 final size:40
Alignment explanation
Indices: 66040443--66040605 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
66040433 TGAATGATAC
* * * *
66040443 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
66040483 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
66040523 CCGGGCTAAGACCC-AAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
66040562 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
66040602 CCGG
1 CCGG
66040606 TTGAATCCCG
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 29 0.29
40 68 0.68
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:66050412 original size:40 final size:40
Alignment explanation
Indices: 66050359--66050492 Score: 250
Period size: 40 Copynumber: 3.4 Consensus size: 40
66050349 TTGAGAGTTA
*
66050359 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
66050399 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
66050439 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
66050479 TATATCCGGGCTAA
1 TATATCCGGGCTAA
66050493 ACCTCGAAGG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:66050501 original size:80 final size:79
Alignment explanation
Indices: 66050359--66050512 Score: 247
Period size: 80 Copynumber: 1.9 Consensus size: 79
66050349 TTGAGAGTTA
* * *
66050359 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGACCCGAAG-G
*
66050424 CATTCGTGCTAGTGT
65 AATTCGTGCTAGTGT
66050439 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA-ACCTCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGACC-CGAAGG
66050503 AATTCGTGCT
65 AATTCGTGCT
66050513 GGAATTATGA
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
79 12 0.17
80 57 0.83
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (79 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGACCCGAAGGA
ATTCGTGCTAGTGT
Found at i:66050651 original size:55 final size:56
Alignment explanation
Indices: 66050520--66050674 Score: 213
Period size: 55 Copynumber: 2.8 Consensus size: 56
66050510 GCTGGAATTA
* * * * *
66050520 TGAGGCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGT-CCAGATCAGTAAT
* **
66050577 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGT-TAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTCCAGATCAGTAAT
*
66050632 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCACTATGTGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGT
66050675 GCAAAATCAG
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 50 0.56
57 39 0.44
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (56 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTCCAGATCAGTAAT
Found at i:66050673 original size:28 final size:28
Alignment explanation
Indices: 66050524--66050676 Score: 121
Period size: 28 Copynumber: 5.5 Consensus size: 28
66050514 GAATTATGAG
* * * * *
66050524 GCACTGTGTGTGCAAGCTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTTTAATCGA
* * ** * *
66050552 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTCTTTAATCGA
*
66050580 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATCGA
** ** *
66050609 GCACTATGTGTTAGA-TT-GGTAATTGA
1 GCACTATGTGTGCGAGTTCTTTAATCGA
66050635 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATCGA
66050664 GCACTATGTGTGC
1 GCACTATGTGTGC
66050677 AAAATCAGTC
Statistics
Matches: 94, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
26 5 0.05
27 15 0.16
28 47 0.50
29 27 0.29
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTTAATCGA
Found at i:66056409 original size:24 final size:24
Alignment explanation
Indices: 66056340--66056401 Score: 124
Period size: 24 Copynumber: 2.6 Consensus size: 24
66056330 ATCAACTCCA
66056340 CACACATAGTGCCATACTACACCG
1 CACACATAGTGCCATACTACACCG
66056364 CACACATAGTGCCATACTACACCG
1 CACACATAGTGCCATACTACACCG
66056388 CACACATAGTGCCA
1 CACACATAGTGCCA
66056402 ATGTACACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.34, C:0.37, G:0.13, T:0.16
Consensus pattern (24 bp):
CACACATAGTGCCATACTACACCG
Found at i:66068739 original size:74 final size:78
Alignment explanation
Indices: 66068620--66068858 Score: 314
Period size: 74 Copynumber: 3.1 Consensus size: 78
66068610 TGAATGATAC
*
66068620 CCGGGCTAAG-CCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGG-ATTTGTGCTAGTG-TTATATCCGGGCTAAGACCCGAAGGCATTTG
66068684 TGCGAGTTG-TATA-
64 TGCGAGTTGTTATAT
66068697 CCGGG-TAAGACCCGAAGG-TTTGTGCTAGTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTG
1 CCGGGCTAAGACCCGAAGGATTTGTGCTAGTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTG
66068760 CGAGTTGTTATAT
66 CGAGTTGTTATAT
* * * *
66068773 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CC-GGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGG-ATTTGTGCTAG-TGTTATATCCGGGCTAAGACCCGAAGGCATTTG
** *
66068836 TGCTTGTGGTTATAT
64 TGCGAGTTGTTATAT
66068851 CC-GGCTAA
1 CCGGGCTAA
66068859 ATTCGAAGAA
Statistics
Matches: 147, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
74 40 0.27
75 15 0.10
76 9 0.06
77 32 0.22
78 34 0.23
79 11 0.07
80 6 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGATTTGTGCTAGTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTG
CGAGTTGTTATAT
Found at i:66068866 original size:38 final size:40
Alignment explanation
Indices: 66068620--66068858 Score: 311
Period size: 40 Copynumber: 6.2 Consensus size: 40
66068610 TGAATGATAC
* *
66068620 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
66068659 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
66068697 CCGGG-TAAGACCCGAAGG--TTTGTGCTAG-TGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
66068733 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
66068773 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
66068812 CC-GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
66068851 CC-GGCTAA
1 CCGGGCTAA
66068859 ATTCGAAGAA
Statistics
Matches: 179, Mismatches: 12, Indels: 18
0.86 0.06 0.09
Matches are distributed among these distances:
34 2 0.01
35 13 0.07
36 5 0.03
37 26 0.15
38 35 0.20
39 32 0.18
40 64 0.36
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:66076764 original size:40 final size:40
Alignment explanation
Indices: 66076709--66076955 Score: 313
Period size: 40 Copynumber: 6.2 Consensus size: 40
66076699 TGAATGATAC
* * *
66076709 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* * *
66076749 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
66076789 CCGGGTTAAGACCCGAAGGCA-TTGTGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
66076828 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
66076868 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
66076908 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
66076948 CC-GGCTAA
1 CCGGGCTAA
66076956 ATTCCGAAGA
Statistics
Matches: 182, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.01
39 37 0.20
40 139 0.76
41 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:66076838 original size:79 final size:80
Alignment explanation
Indices: 66076705--66076935 Score: 349
Period size: 79 Copynumber: 2.9 Consensus size: 80
66076695 CATTTGAATG
* *
66076705 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
66076770 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* *
66076785 ATACCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
*
66076849 TTTGTGCGAGTTGTT
66 TTTGTGCGAGTTGCT
* * * *
66076864 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
*
66076928 AATTGTGC
65 ATTTGTGC
66076936 TTGTGGTTAT
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
79 74 0.54
80 61 0.45
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:66076920 original size:119 final size:120
Alignment explanation
Indices: 66076709--66076955 Score: 410
Period size: 119 Copynumber: 2.1 Consensus size: 120
66076699 TGAATGATAC
* * *
66076709 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
66076774 TGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGC-ATTGTGCTAGTGATTATAT
66 TGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
66076828 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
* *
66076892 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
65 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
66076948 CC-GGCTAA
1 CCGGGCTAA
66076956 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
119 99 0.82
120 21 0.17
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:66085784 original size:15 final size:15
Alignment explanation
Indices: 66085736--66085785 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
66085726 CAAAGATAAC
66085736 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
66085750 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
* *
66085765 GAGAAACCCAGAATA
1 AAGAAAACCAGAATA
66085780 AAGAAA
1 AAGAAA
66085786 TCCAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 9 0.31
15 19 0.66
16 1 0.03
ACGTcount: A:0.62, C:0.14, G:0.16, T:0.08
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:66085811 original size:30 final size:30
Alignment explanation
Indices: 66085737--66085793 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
66085727 AAAGATAACA
* *
66085737 AGAAAACC-GAATAAAGAAATCCAAGATAG
1 AGAAACCCAGAATAAAGAAATCCAAAATAG
66085766 AGAAACCCAGAATAAAGAAATCCAAAAT
1 AGAAACCCAGAATAAAGAAATCCAAAAT
66085794 TAAAAGATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.60, C:0.16, G:0.14, T:0.11
Consensus pattern (30 bp):
AGAAACCCAGAATAAAGAAATCCAAAATAG
Found at i:66088865 original size:92 final size:93
Alignment explanation
Indices: 66088754--66088924 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
66088744 CGCCCATAAG
* *
66088754 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66088818 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
66088846 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66088911 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
66088925 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 49 0.66
93 25 0.34
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:66088898 original size:46 final size:46
Alignment explanation
Indices: 66088747--66088921 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
66088737 TGTAACCCGC
* * * *
66088747 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
66088793 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
66088842 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
66088885 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
66088922 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 22 0.20
46 48 0.44
47 24 0.22
48 2 0.02
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:66092222 original size:44 final size:44
Alignment explanation
Indices: 66092168--66092257 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
66092158 TGCATAAGGG
* *
66092168 TATTTTAGTAATTATTACCTATTGCTAAGGTTTCATGCTTATTC
1 TATTTCAGTAATTATTACCTACTGCTAAGGTTTCATGCTTATTC
66092212 TATTTCAGTAATTATTACCTACTGCTAAGGTTTCATGCTTATTC
1 TATTTCAGTAATTATTACCTACTGCTAAGGTTTCATGCTTATTC
66092256 TA
1 TA
66092258 ACGTTTACCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.48
Consensus pattern (44 bp):
TATTTCAGTAATTATTACCTACTGCTAAGGTTTCATGCTTATTC
Found at i:66097938 original size:20 final size:20
Alignment explanation
Indices: 66097913--66097965 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
66097903 GCTTATGAGG
66097913 CCAACATGACCCATTTTGGC
1 CCAACATGACCCATTTTGGC
66097933 CCAACATGACCCATTTTGGC
1 CCAACATGACCCATTTTGGC
*
66097953 CCAACATGGCCCA
1 CCAACATGACCCA
66097966 AAACGGCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (20 bp):
CCAACATGACCCATTTTGGC
Found at i:66100365 original size:30 final size:30
Alignment explanation
Indices: 66100331--66100390 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
66100321 TGCCGAGATG
66100331 AGATTACATGTAAGACCATGTCAGGGACAT
1 AGATTACATGTAAGACCATGTCAGGGACAT
66100361 AGATTACATGTAAGACCATGTCAGGGACAT
1 AGATTACATGTAAGACCATGTCAGGGACAT
66100391 TCGCATTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (30 bp):
AGATTACATGTAAGACCATGTCAGGGACAT
Found at i:66100457 original size:43 final size:43
Alignment explanation
Indices: 66100362--66100523 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 43
66100352 CAGGGACATA
* * * * * *
66100362 GATTACATGTAAGACCATGTCAGGGACATTCGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
* *
66100405 GATTGCGTGTAAGACCATGTTTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
* * *
66100448 GATTACGTGTAAGACCCTGTCTGGGA-AGTGGCATCG-ATATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA-ATGC
* * *
66100490 GATAACATGTAAGACCATAG-CTGGGATA-TGGCAT
1 GATTACGTGTAAGACCAT-GTCTGGGACATTGGCAT
66100524 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 36 0.37
43 56 0.57
44 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:66108434 original size:49 final size:49
Alignment explanation
Indices: 66108362--66108654 Score: 227
Period size: 49 Copynumber: 5.9 Consensus size: 49
66108352 GCCGAAGTTA
*
66108362 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * * * *
66108411 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGAGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACAG
** ** * * * * *
66108461 T-TAATACATGTAGTAGCCTACACTTAGTACAACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * * *
66108508 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTTCACATGCGACCAATTA-
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-CAG
* * * * *
66108560 TCCGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * *
66108608 TTTTCGGGTACGCATAGGAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
66108655 TCACAATAGA
Statistics
Matches: 188, Mismatches: 43, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 1 0.01
49 107 0.57
50 3 0.02
51 71 0.38
52 1 0.01
53 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
Found at i:66108539 original size:51 final size:51
Alignment explanation
Indices: 66108471--66108649 Score: 236
Period size: 51 Copynumber: 3.5 Consensus size: 51
66108461 TTAATACATG
* *
66108471 TAGTAGCCTACACTTAGTACAACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCA
* * * * * * * *
66108522 TAGTAGCCTGCACTTAGTACTTCACATGCGA-C-CAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCA
66108571 TAGTAGCCTACACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCA
* *
66108622 TAGGAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTACACTTAGTACTACACATG
66108650 CGACCTCACA
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 40 0.38
50 2 0.02
51 64 0.60
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTACACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCA
Found at i:66108574 original size:100 final size:100
Alignment explanation
Indices: 66108465--66108654 Score: 335
Period size: 100 Copynumber: 1.9 Consensus size: 100
66108455 TCACCATTAA
* *
66108465 TACATGTAGTAGCCTACACTTAGTACAACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCC
1 TACACGTAGTAGCCTACACTTAGTACAACACACGTGATCACAGTTTTCGGGTACGCATAGGAGCC
*
66108530 TGCACTTAGTACTTCACATGCGACCAATTATCCGG
66 TGCACTTAGTACTACACATGCGACCAATTATCCGG
* *
66108565 TACACGTAGTAGCCTACACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCATAGGAGCC
1 TACACGTAGTAGCCTACACTTAGTACAACACACGTGATCACAGTTTTCGGGTACGCATAGGAGCC
66108630 TGCACTTAGTACTACACATGCGACC
66 TGCACTTAGTACTACACATGCGACC
66108655 TCACAATAGA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
TACACGTAGTAGCCTACACTTAGTACAACACACGTGATCACAGTTTTCGGGTACGCATAGGAGCC
TGCACTTAGTACTACACATGCGACCAATTATCCGG
Found at i:66110314 original size:72 final size:72
Alignment explanation
Indices: 66110197--66110342 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
66110187 ATCGTTTAAG
*
66110197 TGGTTAATTTGAGAAAAGGAAAAAATCGTGTAAAATGAAAAAGTTGTATTCTATTTGATAAAGGT
1 TGGTTAATTTGAGAAAAGGAAAAAATCGCGTAAAATGAAAAAGTTGTATTCTATTTGATAAAGGT
66110262 GTCTAAT
66 GTCTAAT
** *
66110269 TGGTTAATTTGAGAAAAGGACTAAATCGCGTAAAATGCAAAAGTTGTATTCTATTTGATAAAGGT
1 TGGTTAATTTGAGAAAAGGAAAAAATCGCGTAAAATGAAAAAGTTGTATTCTATTTGATAAAGGT
66110334 GTCTAAT
66 GTCTAAT
66110341 TG
1 TG
66110343 CTATGGCTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (72 bp):
TGGTTAATTTGAGAAAAGGAAAAAATCGCGTAAAATGAAAAAGTTGTATTCTATTTGATAAAGGT
GTCTAAT
Found at i:66114302 original size:40 final size:40
Alignment explanation
Indices: 66114223--66114410 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
66114213 TGAATGATAC
* * * * * *
66114223 CCGGGCTAAGTCCCGGAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
*
66114263 CTGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
66114303 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
66114343 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
66114383 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGTTAAGACCCGAAGGCATTTGTGC
66114411 TTGTGGTTAT
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 131 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:66114357 original size:80 final size:80
Alignment explanation
Indices: 66114219--66114430 Score: 302
Period size: 80 Copynumber: 2.7 Consensus size: 80
66114209 CAATTGAATG
* * * * * *
66114219 ATACCCGGGCTAAGTCCCGGAGGCATTTATGCTAG-TGATTATATCTGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
66114283 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
66114299 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
66114364 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
66114379 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
66114431 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 6 0.05
80 110 0.93
81 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:66117451 original size:2 final size:2
Alignment explanation
Indices: 66117444--66117481 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
66117434 ACCAGAACAG
66117444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66117482 GTGGCTAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66120136 original size:26 final size:27
Alignment explanation
Indices: 66120107--66120158 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
66120097 CAGAGGCTGC
*
66120107 CAGATAT-TGTGACGAAGTCACCAGAA
1 CAGATATATGTGACGAAGCCACCAGAA
* *
66120133 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATATATGTGACGAAGCCACCAGA
66120159 TTGCGGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (27 bp):
CAGATATATGTGACGAAGCCACCAGAA
Found at i:66120521 original size:26 final size:27
Alignment explanation
Indices: 66120407--66120537 Score: 149
Period size: 27 Copynumber: 4.9 Consensus size: 27
66120397 TAAAATGGTA
* * *
66120407 ATTT-TACCCCACAAGGGTATCTCGGT
1 ATTTCTACCCTACAGGGGTATTTCGGT
* * * **
66120433 AATTCTACCTTACAGGAGTATTTCAAT
1 ATTTCTACCCTACAGGGGTATTTCGGT
*
66120460 AATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAGGGGTATTTCGGT
*
66120487 ATTTTTACCCTACAGGGGTATTTC-GT
1 ATTTCTACCCTACAGGGGTATTTCGGT
*
66120513 ATTTCTACCCTACAAGGGTATTTCG
1 ATTTCTACCCTACAGGGGTATTTCG
66120538 ATAATTTTGT
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 27 0.31
27 60 0.69
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (27 bp):
ATTTCTACCCTACAGGGGTATTTCGGT
Found at i:66120545 original size:54 final size:55
Alignment explanation
Indices: 66120407--66120545 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 55
66120397 TAAAATGGTA
* * * *
66120407 ATTT-TACCCCACAAGGGTATCTCGGTAA-TTCTACCTTACAGGAGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTTACCCTACAGGAGTATTTCAAT
* * * *
66120460 AATTCTACCCTACAGGGGTATTTCGGT-ATTTTTACCCTACAGGGGTATTTC-GT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTTACCCTACAGGAGTATTTCAAT
*
66120513 ATTTCTACCCTACAAGGGTATTTCGATAATTTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTT
66120546 GTAAATCGAG
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 29 0.40
54 43 0.60
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (55 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTTTTACCCTACAGGAGTATTTCAAT
Found at i:66120623 original size:27 final size:27
Alignment explanation
Indices: 66120593--66120657 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
66120583 CGTACTTTGG
66120593 TAATTTTACAAGTCGAAGGTATTTCAA
1 TAATTTTACAAGTCGAAGGTATTTCAA
* * * *
66120620 TAATTTTACAGGTCGAGGGTATTTTAG
1 TAATTTTACAAGTCGAAGGTATTTCAA
*
66120647 TAATTTCACAA
1 TAATTTTACAA
66120658 ATCAGGGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAAGGTATTTCAA
Found at i:66120666 original size:27 final size:27
Alignment explanation
Indices: 66120636--66120813 Score: 232
Period size: 27 Copynumber: 6.6 Consensus size: 27
66120626 TACAGGTCGA
* * *
66120636 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
66120663 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
66120690 AGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
66120717 CGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
66120744 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
66120771 GGGTATTTTGGTCATTTTGTAAACCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
*
66120797 AGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
66120814 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 15 0.11
27 117 0.89
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:66120673 original size:81 final size:81
Alignment explanation
Indices: 66120579--66120778 Score: 215
Period size: 81 Copynumber: 2.5 Consensus size: 81
66120569 TTCTGTAAAT
* * ** **
66120579 CAAGCGTACTTTGGTAATTTTACAAGTC-GAAGGTATTTCAATAATTTTACAGGTCGAG-GGTAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAG-AGGTATTTCAATAATTTTACA-AACGAGCGGTAT
*
66120642 TTTAGTAATTTCACAAAT
64 TTTAGTAATTTCACAAAC
* *** *
66120660 CAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTTACAAACTAGCGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTCAATAATTTTACAAACGAGCGGTATTT
* * *
66120725 TGGTAATTTTATAAAC
66 TAGTAATTTCACAAAC
* *
66120741 CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTT
66120779 TGGTCATTTT
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 3 0.03
81 95 0.96
82 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTCAATAATTTTACAAACGAGCGGTATTT
TAGTAATTTCACAAAC
Found at i:66121767 original size:19 final size:19
Alignment explanation
Indices: 66121745--66121783 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
66121735 TTTCTAGGTG
*
66121745 TGACAAAAGTTCTACAAGT
1 TGACAAAAGTTCTAAAAGT
66121764 TGACAAAAGTTCTAAAAGT
1 TGACAAAAGTTCTAAAAGT
66121783 T
1 T
66121784 TGCAGTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (19 bp):
TGACAAAAGTTCTAAAAGT
Found at i:66123731 original size:6 final size:6
Alignment explanation
Indices: 66123710--66123782 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
66123700 ACAACCTACT
* * *
66123710 AAAAT- AAAATT AAAATA GAAATA AAGATA AAAATAA AAAATA GAAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA -AAAATA
* * *
66123759 AGAATA AGAAT- AAAAGA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
66123783 TTTTTTATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
5 8 0.15
6 35 0.64
7 12 0.22
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:66123755 original size:25 final size:26
Alignment explanation
Indices: 66123721--66123773 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
66123711 AAATAAAATT
66123721 AAAATAG-AAATAA-AGATAAAAATAA
1 AAAATAGAAAATAAGA-ATAAAAATAA
*
66123746 AAAATAGAAAATAAGAATAAGAATAA
1 AAAATAGAAAATAAGAATAAAAATAA
66123772 AA
1 AA
66123774 GAAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 17 0.68
27 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.15
Consensus pattern (26 bp):
AAAATAGAAAATAAGAATAAAAATAA
Found at i:66123765 original size:26 final size:25
Alignment explanation
Indices: 66123721--66123773 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
66123711 AAATAAAATT
66123721 AAAATAGAAATAAAGATAAAAATAA
1 AAAATAGAAATAAAGATAAAAATAA
*
66123746 AAAATAGAAA-ATAAGAATAAGAATAA
1 AAAATAGAAATA-AAG-ATAAAAATAA
66123772 AA
1 AA
66123774 GAAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 13 0.52
26 11 0.44
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.15
Consensus pattern (25 bp):
AAAATAGAAATAAAGATAAAAATAA
Found at i:66128009 original size:10 final size:10
Alignment explanation
Indices: 66127996--66128024 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
66127986 ATGATTAAAT
66127996 GACATTAGTG
1 GACATTAGTG
66128006 GACATTAGTG
1 GACATTAGTG
66128016 GACATTAGT
1 GACATTAGT
66128025 TGATAGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (10 bp):
GACATTAGTG
Found at i:66135105 original size:40 final size:40
Alignment explanation
Indices: 66135040--66135260 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
66135030 ATTCGGATTG
*
66135040 ATAACCGGGCTAAG-CCCGAATGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
66135079 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
66135119 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
66135159 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
66135199 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
66135239 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
66135261 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 28 0.17
40 139 0.83
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:66143830 original size:40 final size:40
Alignment explanation
Indices: 66143765--66144008 Score: 285
Period size: 40 Copynumber: 6.1 Consensus size: 40
66143755 CGGAATACAA
* ** * * *
66143765 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* *
66143805 CCGGATATAACGACTTGCACAAATGCCTTCAGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
66143845 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
66143885 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
66143925 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
* ** * * *
66143965 CCAGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
66144005 CCGG
1 CCGG
66144009 GTATCATTCA
Statistics
Matches: 178, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 177 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:66144196 original size:123 final size:123
Alignment explanation
Indices: 66143977--66144438 Score: 852
Period size: 123 Copynumber: 3.8 Consensus size: 123
66143967 AGATATAATT
* * * * * * *
66143977 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
66144042 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
*
66144100 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACGTATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
66144165 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66144223 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
66144288 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66144346 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
66144411 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
66144439 CACATAATTC
Statistics
Matches: 330, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 330 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
Found at i:66144286 original size:64 final size:64
Alignment explanation
Indices: 66144218--66144410 Score: 143
Period size: 64 Copynumber: 3.1 Consensus size: 64
66144208 GAACACAAAC
66144218 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * **
66144282 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCGA-ACACA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTC-ATACACA
* *
66144338 AAC
62 CAT
66144341 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
66144405 ATATCA
1 ATATCA
66144411 ATAATCATTA
Statistics
Matches: 84, Mismatches: 32, Indels: 26
0.59 0.23 0.18
Matches are distributed among these distances:
58 1 0.01
59 23 0.27
60 8 0.10
61 7 0.08
62 7 0.08
63 8 0.10
64 29 0.35
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:66146449 original size:30 final size:30
Alignment explanation
Indices: 66146413--66146543 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
66146403 GACAAGATTG
* * * * *
66146413 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
66146443 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
66146471 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
66146501 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
66146530 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66146544 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:66146504 original size:58 final size:58
Alignment explanation
Indices: 66146413--66146543 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
66146403 GACAAGATTG
* * * * * *
66146413 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
66146471 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
66146530 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66146544 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:66156897 original size:40 final size:40
Alignment explanation
Indices: 66156832--66157078 Score: 365
Period size: 40 Copynumber: 6.2 Consensus size: 40
66156822 TCTTCGGAAT
* ** *
66156832 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
66156871 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
66156911 TTAGCCCGGATA-AACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
66156950 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
66156990 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
66157030 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
66157070 TTAGCCCGG
1 TTAGCCCGG
66157079 GTATCATTCA
Statistics
Matches: 190, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 41 0.22
40 148 0.78
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:66165142 original size:39 final size:40
Alignment explanation
Indices: 66165067--66165309 Score: 329
Period size: 39 Copynumber: 6.2 Consensus size: 40
66165057 TTCTTCGAAT
* ** *
66165067 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
66165106 TTAACCCGGGTATAGCAACTCGCACAAATG-CTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
66165145 TTAGCCCGGATA-AACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
66165184 TTAGCCCGGATATAACAACT--CACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
66165222 TTAGCCC-GATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
66165261 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
66165301 TTAGCCCGG
1 TTAGCCCGG
66165310 GTATCATTCA
Statistics
Matches: 182, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
37 12 0.07
38 40 0.22
39 67 0.37
40 62 0.34
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:66165248 original size:77 final size:78
Alignment explanation
Indices: 66165067--66165308 Score: 321
Period size: 77 Copynumber: 3.1 Consensus size: 78
66165057 TTCTTCGAAT
* * ** * * * *
66165067 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
1 TTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT-GCACA
66165132 AATG-CTTCGGGTC
65 AATGCCTTCGGGTC
*
66165145 TTAGCCCGGATA-AACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT-CACG
1 TTAGCCC-GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTGCACA
66165208 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
*
66165222 TTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCAT
1 TTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACT-GCAC
*
66165286 AAATGCCTTCGGGAC
64 AAATGCCTTCGGGTC
66165301 TTAGCCCG
1 TTAGCCCG
66165309 GGTATCATTC
Statistics
Matches: 146, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
76 11 0.08
77 61 0.42
78 47 0.32
79 27 0.18
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (78 bp):
TTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTGCACAA
ATGCCTTCGGGTC
Found at i:66175955 original size:11 final size:11
Alignment explanation
Indices: 66175939--66175964 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66175929 GTAAACACCA
66175939 AAAATAATTTT
1 AAAATAATTTT
66175950 AAAATAATTTT
1 AAAATAATTTT
66175961 AAAA
1 AAAA
66175965 CCTCGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:66189783 original size:168 final size:168
Alignment explanation
Indices: 66189488--66189824 Score: 568
Period size: 168 Copynumber: 2.0 Consensus size: 168
66189478 TAGCCATTGG
66189488 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
1 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
* * * *
66189553 GTTATGTTATGAATTTGTTATCAAAGGTTGCTATTGCCTAATTTAATCCAAGGTAGGTTTATAAC
66 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
**
66189618 CAGTTATGCATGTAATGGTATGCCT-TGTTAAAGGATGA
131 CACCTATGCATGTAATGGTATGCCTCT-TTAAAGGATGA
* * *
66189656 AATGGCTAGTATTGGTTCATTTTGGTATTACTAAGTAGATTATTATGATATACATATACACATGT
1 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
66189721 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
66 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
*
66189786 CACCTATGCATGTAATGGTATGCCTCTTTAAATGATGA
131 CACCTATGCATGTAATGGTATGCCTCTTTAAAGGATGA
66189824 A
1 A
66189825 TTTGCCTATT
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
168 157 0.99
169 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (168 bp):
AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
CACCTATGCATGTAATGGTATGCCTCTTTAAAGGATGA
Found at i:66195978 original size:29 final size:28
Alignment explanation
Indices: 66195945--66196029 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 28
66195935 TGCGAGTTAT
66195945 ACTGATTTGGCTTCACGCCATGCATATCG
1 ACTGATTTGGCTTCA-GCCATGCATATCG
* *
66195974 ACTGATTTTGCTTCGGGCCATGCATATCG
1 ACTGATTTGGCTTC-AGCCATGCATATCG
*
66196003 ACTAATTTGGCTTCGAGCCATG-ATATC
1 ACTGATTTGGCTTC-AGCCATGCATATC
66196030 AGTACTTCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 5 0.10
29 45 0.90
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
ACTGATTTGGCTTCAGCCATGCATATCG
Found at i:66199245 original size:24 final size:24
Alignment explanation
Indices: 66199213--66199261 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
66199203 CCAATATTCC
66199213 AACATGCTTATAACTTCAAATCTT
1 AACATGCTTATAACTTCAAATCTT
66199237 AACATGCTTATAACTTCAAATCTT
1 AACATGCTTATAACTTCAAATCTT
66199261 A
1 A
66199262 CTCTACCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (24 bp):
AACATGCTTATAACTTCAAATCTT
Found at i:66200006 original size:40 final size:39
Alignment explanation
Indices: 66199937--66200075 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 39
66199927 GCTTGATATC
* * * *
66199937 TCGCACACTAAGTGTCGTACATAGCCGAAGCAATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGC-ATATCAAA
* *
66199977 TCGCAAACTAAGTGCCATATATAGTCGAAGC-TATC---
1 TCGCACACTAAGTGCCATATATAGCCGAAGCATATCAAA
* *
66200012 TCG-ATACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGC-ATATCAAA
*
66200051 TCGCACATTAAGTGCCATATATAGC
1 TCGCACACTAAGTGCCATATATAGC
66200076 TGATTTGTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
34 25 0.30
35 3 0.04
36 3 0.04
38 3 0.04
39 3 0.04
40 45 0.55
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCATATCAAA
Found at i:66200064 original size:74 final size:75
Alignment explanation
Indices: 66199933--66200074 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 75
66199923 GAATGCTTGA
* *
66199933 TATCTCGCACACTAAGTGTCGTACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
1 TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
66199998 TAGTCGAAGC
66 TAGTCGAAGC
* * * * * *
66200008 TATCTCG-ATACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCGCACATTAAGTGCCATATA
1 TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
66200072 TAG
66 TAG
66200075 CTGATTTGTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 52 0.88
75 7 0.12
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (75 bp):
TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
TAGTCGAAGC
Found at i:66205459 original size:49 final size:49
Alignment explanation
Indices: 66205406--66205730 Score: 466
Period size: 49 Copynumber: 6.8 Consensus size: 49
66205396 TTAGGATTTT
*
66205406 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
66205455 ATGTGATGAATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
66205504 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
66205553 ATGTGATGAAGGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * *
66205602 ATGTGATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAACGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
66205649 ATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCC-AAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA-TGGCCG
* * *
66205696 ACGTGATGGATGTGGAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
66205731 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
46 2 0.01
47 89 0.35
48 7 0.03
49 156 0.61
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:66207294 original size:7 final size:7
Alignment explanation
Indices: 66207282--66207306 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66207272 GTTGTCTTCT
66207282 TGTTTGA
1 TGTTTGA
66207289 TGTTTGA
1 TGTTTGA
66207296 TGTTTGA
1 TGTTTGA
66207303 TGTT
1 TGTT
66207307 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:66208240 original size:27 final size:28
Alignment explanation
Indices: 66208184--66208253 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
66208174 AAATTTGAAC
66208184 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
66208212 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
66208239 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66208254 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:66210421 original size:743 final size:742
Alignment explanation
Indices: 66208991--66210486 Score: 2202
Period size: 743 Copynumber: 2.0 Consensus size: 742
66208981 TTAGCCATGG
66208991 GAATGGTCATTCATGATCACTTTTGGTATATGTATGACAAACTCTAGTTGATCCATGGAGGATCA
1 GAATGGTCATTCATGATCACTTTTGGTATATGTATGACAAACTCTAGTTGATCCATGGAGGATCA
* * *
66209056 TGAAATAGGTAAAGTTGCCTTAAAAATAGATGCTGACAGCAGCAGTGATGTATATTTGAAAAATC
66 TGAAATAGGTAAAGTTACCTTAAAAATAGATGCTGACAGCAGCAGTGATGTAGATGTGAAAAATC
*
66209121 ACTAAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTATGTGAATGAACCTTGATGAATCTA
131 ACTAAAAATAGTAGGAATGGAATTAAATAGCGAATAAATTATGTGAATGAACCTTGATGAATCTA
* * * * *
66209186 TTTTCATAGGAAAGCAAGAAAATGATCATGTGAACAGTATGTTAAGAGAAATTTAAGTTTTTGTG
196 TTTTCATAGGAAAGCAAGAAAACGATCATATGAACAGTATATTAAGAGAAATTAAAGTTTTCGTG
* * *
66209251 AGACAGGGCCAGAACAGTTTCTGGATCCCCTGTTCCGACTTTGGAAATTCATTGTAAATTAACCC
261 AGACAGGGCCAGAACAGTTTCTGGATCCCCTGATCCGACTTTGGAAATTCATTATAAATTAACCA
* * * * *
66209316 GAGATAATTAGAAGTCATGCCATATATTCATAGTTTCCTTTTTGAGTCTAGTTTCTATAGAAACA
326 GAGACAATTACAAGTCAAGACATATATTCATAGATTCCTTTTTGAGTCTAGTTTCTATAGAAACA
*
66209381 AACGGAACCAGTATTGAAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCACAAAGGTCAGGGT
391 AACGGAACCAGTATTGAAGCCCTGTACAAGGAGATATCCAAATCGTAATGCACAAAGGTCAGGGT
** * *
66209446 AGTCAAGCCTTGAAACAGGGGAGATTTTAACTAATAAACTGTACTAATTGGGCCGACCAAAAATT
456 ACCCAAGCCCTGAAACAGGGGAGATTTTAACTAATAAACTGTACTAATTGGCCCGACCAAAAATT
* *
66209511 CTAGAAAAAAAATTTTAGATGCAAATATGAGTCTAGTTTTAGGGAAAAATCACAAAACTGATTTT
521 CTAGAAAAAAAATTGTAGATGCAAATATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTT
66209576 CGAGTTGTGGAACGCAAGATATGATTTTTAAGGTGACAGTGACGCAGCTTGCCAGCCTGCCTGGA
586 CGAGTTGTGGAACGCAAGATATGATTTTTAAGGTGACAGTGACGCAGCTTGCCAGCCTGCCTGGA
* * * * *
66209641 AAATTTTAAATGGACTGTGAAATTAATTAAGTTAAGTCTG-TATGCACCTTGTGTTCGACTCCTG
651 AAATTTTAAATGGACTGTGAAATAAATGAAGTTAAGTCGGTTA-GCACCTCGTGTTCGACTCCGG
66209705 CAACGGTCTCGGGCACAGGGTGTTACAA
715 CAACGGTCTCGGGCACAGGGTGTTACAA
*
66209733 GAATGGTTATTCATGATCACTTTTGGTATATGTATGACAAACTCTAGTTGATCCATGGAGGATCA
1 GAATGGTCATTCATGATCACTTTTGGTATATGTATGACAAACTCTAGTTGATCCATGGAGGATCA
* * *
66209798 TGAAATAGGTAAAGTTTACCTTAAAAATAGATGCTGGCAGCAGTAGTGATGTGGATGTGAAAAAT
66 TGAAATAGGTAAAG-TTACCTTAAAAATAGATGCTGACAGCAGCAGTGATGTAGATGTGAAAAAT
** *
66209863 CTTTAAAAATAGTAGGAATGGAATTAAATGGCGAATAAATTATGT-AATCGAACCTTGATGAATC
130 CACTAAAAATAGTAGGAATGGAATTAAATAGCGAATAAATTATGTGAAT-GAACCTTGATGAATC
* * * **
66209927 TATTTTCATAGGAAAGTAACG-AAACGTTCATATGAACAGTATATTATGAGAGGTTAAAGTTTTC
194 TATTTTCATAGGAAAGCAA-GAAAACGATCATATGAACAGTATATTAAGAGAAATTAAAGTTTTC
* *
66209991 GTGAGACAGGGCCAGAACGGTTTCTGGATCCCCTGATCTGACTTTGGAAATTCATTATAAATTAA
258 GTGAGACAGGGCCAGAACAGTTTCTGGATCCCCTGATCCGACTTTGGAAATTCATTATAAATTAA
* *
66210056 CCAGAGACATTTACAAGTCAAGACATATATTTATAGATTCCTTTTTGAGTCTAGTTTCTATAGAA
323 CCAGAGACAATTACAAGTCAAGACATATATTCATAGATTCCTTTTTGAGTCTAGTTTCTATAGAA
* * * * **
66210121 ACAAACGGCATCAGTATTGAATCCCTGTACAGGGAGATATCCAAATCGTAATGCATGAAGGTCAG
388 ACAAACGGAACCAGTATTGAAGCCCTGTACAAGGAGATATCCAAATCGTAATGCACAAAGGTCAG
* * *
66210186 TGTACCCGCA-CCCTGTAACAGGGGAGGA-TTTAACTAATAAACTGTACTAATTGGCCCGACCAA
453 GGTACCC-AAGCCCTGAAACAGGGGA-GATTTTAACTAATAAACTGTACTAATTGGCCCGACCAA
* * * *
66210249 AAATTCTAG-AAAAAAATCTGTAGATGGATAA-ATGAGTCTAGTTTCGGGGAAAAATTACGAAAC
516 AAATTCTAGAAAAAAAAT-TGTAGATGCA-AATATGAGTCTAGTTTCAGGGAAAAATCACAAAAC
* ** * *
66210312 TGATTTTTGAGTTGTGGAACTTAAGTTATGATTTTTAAGGTGACAGTGACGCAG-TTAGCCAGTC
579 TGATTTTCGAGTTGTGGAACGCAAGATATGATTTTTAAGGTGACAGTGACGCAGCTT-GCCAGCC
* *
66210376 -GTCTGGAAAATTTTTAAATGGACTGTGAGAGTAAATGAA-TTAAGTCGGTTAGCACCTCGTGTT
643 TGCCTGGAAAA-TTTTAAATGGACTGTGA-AATAAATGAAGTTAAGTCGGTTAGCACCTCGTGTT
* *
66210439 CGACTCCGGCAACGGTCTCGGGTACGGGGTGTTACAA
706 CGACTCCGGCAACGGTCTCGGGCACAGGGTGTTACAA
**
66210476 GTTTGGTCATT
1 GAATGGTCATT
66210487 GGTGTAGCAA
Statistics
Matches: 673, Mismatches: 70, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
742 100 0.15
743 558 0.83
744 15 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (742 bp):
GAATGGTCATTCATGATCACTTTTGGTATATGTATGACAAACTCTAGTTGATCCATGGAGGATCA
TGAAATAGGTAAAGTTACCTTAAAAATAGATGCTGACAGCAGCAGTGATGTAGATGTGAAAAATC
ACTAAAAATAGTAGGAATGGAATTAAATAGCGAATAAATTATGTGAATGAACCTTGATGAATCTA
TTTTCATAGGAAAGCAAGAAAACGATCATATGAACAGTATATTAAGAGAAATTAAAGTTTTCGTG
AGACAGGGCCAGAACAGTTTCTGGATCCCCTGATCCGACTTTGGAAATTCATTATAAATTAACCA
GAGACAATTACAAGTCAAGACATATATTCATAGATTCCTTTTTGAGTCTAGTTTCTATAGAAACA
AACGGAACCAGTATTGAAGCCCTGTACAAGGAGATATCCAAATCGTAATGCACAAAGGTCAGGGT
ACCCAAGCCCTGAAACAGGGGAGATTTTAACTAATAAACTGTACTAATTGGCCCGACCAAAAATT
CTAGAAAAAAAATTGTAGATGCAAATATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTT
CGAGTTGTGGAACGCAAGATATGATTTTTAAGGTGACAGTGACGCAGCTTGCCAGCCTGCCTGGA
AAATTTTAAATGGACTGTGAAATAAATGAAGTTAAGTCGGTTAGCACCTCGTGTTCGACTCCGGC
AACGGTCTCGGGCACAGGGTGTTACAA
Found at i:66212274 original size:29 final size:29
Alignment explanation
Indices: 66212242--66212328 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
66212232 AATCTCTTTC
*
66212242 ATATGGCCTATGAGGCCCAAATCACATTT
1 ATATGGCCTATTAGGCCCAAATCACATTT
* *
66212271 ATATGGCCTATTAGGCCCAAATCATATTC
1 ATATGGCCTATTAGGCCCAAATCACATTT
* *
66212300 ATATGGCC-ATTAGGACCAAAACACATTT
1 ATATGGCCTATTAGGCCCAAATCACATTT
66212328 A
1 A
66212329 CAGTCATGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 17 0.33
29 34 0.67
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (29 bp):
ATATGGCCTATTAGGCCCAAATCACATTT
Found at i:66216352 original size:57 final size:57
Alignment explanation
Indices: 66216298--66216406 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
66216288 CTGTATATAG
* * *
66216298 CCCACTAGG-CTC-AATCTCTTTCATATGGCCCATGAGGCCCAAATCACATTTATATGA
1 CCCACTAGGTC-CAAATCTCATTCATAT-GACCATGAGGCCCAAAACACATTTATATGA
* *
66216355 CCCATTAGGTCCAAATCTCATTCATATGACCATTAGGCCCAAAACACATTTA
1 CCCACTAGGTCCAAATCTCATTCATATGACCATGAGGCCCAAAACACATTTA
66216407 CAGTTATGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
57 31 0.69
58 14 0.31
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (57 bp):
CCCACTAGGTCCAAATCTCATTCATATGACCATGAGGCCCAAAACACATTTATATGA
Found at i:66216353 original size:29 final size:29
Alignment explanation
Indices: 66216320--66216406 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
66216310 AATCTCTTTC
*
66216320 ATATGGCCCATGAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
* * * *
66216349 ATATGACCCATTAGGTCCAAATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTT
* *
66216378 ATAT-GACCATTAGGCCCAAAACACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
66216406 A
1 A
66216407 CAGTTATGCT
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
28 19 0.40
29 28 0.60
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTT
Found at i:66221334 original size:79 final size:80
Alignment explanation
Indices: 66221251--66221397 Score: 172
Period size: 79 Copynumber: 1.9 Consensus size: 80
66221241 TATGGTAACC
* * *
66221251 CGCACCAAGGCCTACGGGACTTAACCCAGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCAGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
66221314 CCCGAATAGAATGACT
65 CCCGAATAGAATGACT
* * * * * * * *
66221330 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCAGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
66221395 CCG
66 CCG
66221398 GTTATAATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
78 1 0.02
79 29 0.53
80 25 0.45
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCAGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGAATAGAATGACT
Found at i:66221382 original size:40 final size:40
Alignment explanation
Indices: 66221291--66221404 Score: 129
Period size: 40 Copynumber: 2.9 Consensus size: 40
66221281 TATCACGATT
* * * ** *
66221291 GCACAAATGCCTTCGGGTCTTAGCCCGAATAGAATGACTC
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
66221331 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
66221371 GCACCATTGCCTTCGGGTCTTAACCCGGTTATAA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAA
66221405 TTTCCAGCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:66238075 original size:43 final size:43
Alignment explanation
Indices: 66238020--66238119 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
66238010 GAAAATGATT
* *
66238020 TAGCCC-AGACGGGTAATCCATTGATCTTGGTATAGAAAGGATC
1 TAGCCCGA-ACGGGTAATCCATTGACCTCGGTATAGAAAGGATC
*
66238063 TAGCCCGAACGGGTAATCCGTTGACCTCGGTATAGAAAGGATC
1 TAGCCCGAACGGGTAATCCATTGACCTCGGTATAGAAAGGATC
* *
66238106 TAACCCGGACGGGT
1 TAGCCCGAACGGGT
66238120 GCTCCTTGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 50 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (43 bp):
TAGCCCGAACGGGTAATCCATTGACCTCGGTATAGAAAGGATC
Found at i:66241616 original size:49 final size:50
Alignment explanation
Indices: 66241542--66241741 Score: 197
Period size: 53 Copynumber: 3.9 Consensus size: 50
66241532 ACGCGGGTAC
* * * *
66241542 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT-TTGAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGATATCCTTCTTGAAA
*
66241591 CTTACCATTGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTT-ATGAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGATATCCTT--CTTGA--AA
* * * * *
66241644 CTCACCAATACCATGCCTTGACATGGTATTACATGATTTCCTTGCCTTAGAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGATATCCTT--CTT-GAAA
* *
66241697 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTGCCATGCCTTGACATGGTCTTACATGATATCCTT
66241742 AAACCCTAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 39 0.31
51 1 0.01
52 2 0.02
53 46 0.37
54 5 0.04
55 32 0.26
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.36
Consensus pattern (50 bp):
CTTACCATTGCCATGCCTTGACATGGTCTTACATGATATCCTTCTTGAAA
Found at i:66248816 original size:16 final size:16
Alignment explanation
Indices: 66248797--66248827 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66248787 CTTCTTCACT
66248797 TACTGACTTACTTAAA
1 TACTGACTTACTTAAA
*
66248813 TACTTACTTACTTAA
1 TACTGACTTACTTAA
66248828 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:0.19, G:0.03, T:0.42
Consensus pattern (16 bp):
TACTGACTTACTTAAA
Found at i:66248833 original size:20 final size:20
Alignment explanation
Indices: 66248794--66248833 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
66248784 AAACTTCTTC
* *
66248794 ACTTACTGACTTACTTAAAT
1 ACTTACTGACTTAATCAAAT
*
66248814 ACTTACTTACTTAATCAAAT
1 ACTTACTGACTTAATCAAAT
66248834 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:0.20, G:0.03, T:0.40
Consensus pattern (20 bp):
ACTTACTGACTTAATCAAAT
Found at i:66249207 original size:55 final size:55
Alignment explanation
Indices: 66249018--66249218 Score: 215
Period size: 53 Copynumber: 3.8 Consensus size: 55
66249008 ACGCGGGTAC
* * *
66249018 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACCTTATGAAA
* ** *
66249067 CTTA-CAATTGCCATGTCTTAACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACCTTATGAAA
* * *
66249120 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGATTTCCTTACCTTA-GAAA
1 CTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACCTTATGAAA
* *
66249173 CCTTACCAATTTCCATGCCTTGGCATGGTATTACATGGTATCCTTA
1 -CTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTA
66249219 AACCCTAATG
Statistics
Matches: 126, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
48 1 0.01
49 35 0.28
50 1 0.01
52 1 0.01
53 44 0.35
54 12 0.10
55 32 0.25
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (55 bp):
CTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACCTTATGAAA
Found at i:66249209 original size:108 final size:102
Alignment explanation
Indices: 66249021--66249217 Score: 241
Period size: 102 Copynumber: 1.9 Consensus size: 102
66249011 CGGGTACCTT
* * * * *
66249021 ACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTTTTGAAACTTACAATTGCCATGTCTT
1 ACCAATGCCATGACTTGGCATGGTCTTACATGATATCCTTTTGAAACTTACAATTGCCATGCCTT
*
66249086 AACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
66 AACATGGTATTACATGGTATCCTTGCCTTATGAACTC
* * *
66249123 ACCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTACCTTAGAAACCTTACCAATTTCCA
1 ACCAATGCCATGACTTGGCATGGTCTTACATGATATCCTT---TT-GAAA-CTTA-CAATTGCCA
**
66249188 TGCCTTGGCATGGTATTACATGGTATCCTT
60 TGCCTTAACATGGTATTACATGGTATCCTT
66249218 AAACCCTAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
102 34 0.44
105 2 0.03
106 4 0.05
107 4 0.05
108 34 0.44
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (102 bp):
ACCAATGCCATGACTTGGCATGGTCTTACATGATATCCTTTTGAAACTTACAATTGCCATGCCTT
AACATGGTATTACATGGTATCCTTGCCTTATGAACTC
Found at i:66258795 original size:42 final size:42
Alignment explanation
Indices: 66258748--66258854 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
66258738 TATTGGTCTC
66258748 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
66258790 GGCACTAAGTGTGTGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
66258832 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
66258855 ATTGTACAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:66258928 original size:27 final size:28
Alignment explanation
Indices: 66258862--66258931 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
66258852 AAAATTGTAC
** *
66258862 AGCACTAAGTGTGCGAATTTGGTTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
66258890 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
66258917 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66258932 GATTCACTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:66263399 original size:39 final size:39
Alignment explanation
Indices: 66263281--66263463 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
66263271 TCGTTCAAAC
* * ** * **
66263281 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
66263321 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
66263361 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
66263400 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
66263439 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
66263464 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:66270833 original size:39 final size:39
Alignment explanation
Indices: 66270715--66270897 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
66270705 TCGTTCAAAC
* * ** * **
66270715 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
66270755 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
66270795 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
66270834 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
66270873 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
66270898 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:66274191 original size:40 final size:40
Alignment explanation
Indices: 66274132--66274312 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
66274122 ACCCAAGTAT
* * *
66274132 CTTCGGGATTTA-TCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
66274171 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* **
66274211 CTTCGGGACTTAGCCCAGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
66274251 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66274291 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
66274313 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.08
40 116 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:66285753 original size:40 final size:40
Alignment explanation
Indices: 66285561--66285746 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
66285551 TCGAATGATG
* * *
66285561 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
66285601 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66285641 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66285681 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66285722 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66285747 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66285753 original size:80 final size:80
Alignment explanation
Indices: 66285561--66285779 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
66285551 TCGAATGATG
* * **
66285561 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
66285625 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
66285641 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
66285703 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
66285722 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
66285780 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:66292116 original size:30 final size:30
Alignment explanation
Indices: 66292080--66292180 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
66292070 GACAAGATTG
* * *
66292080 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
66292110 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
66292138 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
66292167 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66292181 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:66292192 original size:29 final size:28
Alignment explanation
Indices: 66292109--66292184 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
66292099 AAAATTGTAC
* *
66292109 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
66292137 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
66292166 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
66292185 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:66299965 original size:30 final size:30
Alignment explanation
Indices: 66299929--66300029 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
66299919 GACAAGATTG
* * *
66299929 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
66299959 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
66299987 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
66300016 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66300030 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:66300041 original size:29 final size:28
Alignment explanation
Indices: 66299958--66300033 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
66299948 AAAATTGTAC
* *
66299958 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
66299986 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
66300015 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
66300034 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:66304676 original size:40 final size:40
Alignment explanation
Indices: 66304484--66304669 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
66304474 TCGAATGATG
* * *
66304484 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
66304524 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66304564 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66304604 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66304645 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66304670 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66304676 original size:80 final size:80
Alignment explanation
Indices: 66304484--66304702 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
66304474 TCGAATGATG
* * **
66304484 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
66304548 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
66304564 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
66304626 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
66304645 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
66304703 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:66308214 original size:10 final size:10
Alignment explanation
Indices: 66308199--66308229 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
66308189 GAGTTCAACT
*
66308199 AAAGAGTACG
1 AAAGAGTACC
66308209 AAAGAGTACC
1 AAAGAGTACC
66308219 AAAGAGTACC
1 AAAGAGTACC
66308229 A
1 A
66308230 GACTTCGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.16, G:0.23, T:0.10
Consensus pattern (10 bp):
AAAGAGTACC
Found at i:66308775 original size:80 final size:78
Alignment explanation
Indices: 66308630--66308830 Score: 249
Period size: 80 Copynumber: 2.5 Consensus size: 78
66308620 CAGAATCTAA
* * *** *
66308630 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACCAATG
1 CCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACCAATG
66308695 CCTTCGGGTCTAAGC
64 CCTTCGGGTCTAAGC
* *
66308710 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAATG
1 CCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACCAATG
*
66308775 CCTTCGGGTCTTAGC
64 CCTTCGGGTCTAAGC
* *
66308790 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CCGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCC
66308831 TGGGTTTCAT
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 101 0.96
81 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (78 bp):
CCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACCAATGCC
TTCGGGTCTAAGC
Found at i:66308828 original size:40 final size:39
Alignment explanation
Indices: 66308630--66308830 Score: 206
Period size: 40 Copynumber: 5.0 Consensus size: 39
66308620 CAGAATCTAA
* * *
66308630 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66308670 CCGGATTTGGTA-ACTTGCACCAATGCCTTCGGGTCTAAGC
1 CCGGATAT--AACACTAGCACAAATGCCTTCGGGTCTTAGC
* *
66308710 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
66308750 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
66308790 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
66308830 C
1 C
66308831 TGGGTTTCAT
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
40 134 0.98
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66316374 original size:10 final size:10
Alignment explanation
Indices: 66316359--66316389 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
66316349 GAGTTCAACT
66316359 AAAGAGTACC
1 AAAGAGTACC
66316369 AAAGAGTACC
1 AAAGAGTACC
66316379 AAAGAGTACC
1 AAAGAGTACC
66316389 A
1 A
66316390 GACTTCGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (10 bp):
AAAGAGTACC
Found at i:66318487 original size:40 final size:40
Alignment explanation
Indices: 66318432--66318641 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
66318422 AACATTGGAA
66318432 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
66318472 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
66318512 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
66318552 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
66318591 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
66318632 CTATATCCGG
1 ATATATCCGG
66318642 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:66326624 original size:40 final size:40
Alignment explanation
Indices: 66326569--66326778 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
66326559 AACATTGGAA
66326569 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
66326609 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
66326649 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
66326689 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
66326728 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
66326769 CTATATCCGG
1 ATATATCCGG
66326779 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:66330119 original size:39 final size:40
Alignment explanation
Indices: 66329941--66330123 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
66329931 CCGCACCAAG
* * * * * * * *
66329941 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
66329981 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
66330021 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
66330061 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
66330100 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
66330124 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:66338063 original size:40 final size:40
Alignment explanation
Indices: 66338004--66338172 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
66337994 CGGGACTTTA
* * *
66338004 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
66338044 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
66338084 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
66338124 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
66338164 CCCGGATAT
1 CCCGGATAT
66338173 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:66348814 original size:47 final size:47
Alignment explanation
Indices: 66348751--66349050 Score: 483
Period size: 47 Copynumber: 6.4 Consensus size: 47
66348741 CCCTTCGGGA
* *
66348751 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
66348798 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66348845 CTTATCGCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66348892 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
66348939 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66348986 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66349033 CTTATCACATATACACAC
1 CTTATCACATATATACAC
66349051 CTTGTACATC
Statistics
Matches: 234, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 234 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:66353202 original size:40 final size:40
Alignment explanation
Indices: 66352929--66353200 Score: 447
Period size: 40 Copynumber: 6.8 Consensus size: 40
66352919 ATTTTGTCCA
*
66352929 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66352968 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
66353008 AGCACGAATGCTCTTTGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
66353048 AGCACGAATGCTCTTTGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* *
66353088 TGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* * * *
66353128 AGCACGAATGCTCTTCGGGACCTAGTCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
66353168 AGCACGAATGCTCTTCGGGACTTAGCCCAGATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
66353201 TAACATACTG
Statistics
Matches: 220, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 11 0.05
40 209 0.95
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
Found at i:66355113 original size:47 final size:47
Alignment explanation
Indices: 66355050--66355348 Score: 483
Period size: 47 Copynumber: 6.4 Consensus size: 47
66355040 CCCTTCGGGA
* *
66355050 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
66355097 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66355144 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66355191 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCA-TCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
66355237 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66355284 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66355331 CTTATCACATATACACAC
1 CTTATCACATATATACAC
66355349 CTTGTACATC
Statistics
Matches: 234, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 45 0.19
47 189 0.81
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:66355303 original size:140 final size:141
Alignment explanation
Indices: 66355050--66355348 Score: 483
Period size: 140 Copynumber: 2.1 Consensus size: 141
66355040 CCCTTCGGGA
*
66355050 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * *
66355115 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
66 CTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
66355180 GGCCATTCGGC
131 GGCCATTAGGC
* *
66355191 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCA-TCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * * *
66355255 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 CTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66355320 GGCCATTAGGC
131 GGCCATTAGGC
*
66355331 CTTATCACATATACACAC
1 CTTATCACATATATACAC
66355349 CTTGTACATC
Statistics
Matches: 146, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
140 108 0.74
141 38 0.26
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:66359366 original size:119 final size:120
Alignment explanation
Indices: 66359224--66359494 Score: 474
Period size: 119 Copynumber: 2.3 Consensus size: 120
66359214 ATTTTGTCCA
*
66359224 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAG
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAG
*
66359288 CCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66 CCCGGATACATCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATACATCACC
66359343 AGCACGAATGCTCTT-GGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAG
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAG
* * * *
66359407 CCCGGATATATCACCAGCACGAATGCTCTTCGGGACCTAGTCCGGATATATCACT
66 CCCGGATACATCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATACATCACC
66359462 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
66359495 TAACATACTG
Statistics
Matches: 144, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 124 0.86
120 20 0.14
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (120 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAG
CCCGGATACATCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATACATCACC
Found at i:66359496 original size:40 final size:40
Alignment explanation
Indices: 66359224--66359494 Score: 474
Period size: 40 Copynumber: 6.8 Consensus size: 40
66359214 ATTTTGTCCA
*
66359224 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66359263 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66359303 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66359343 AGCACGAATGCTCTT-GGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
66359382 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* * * *
66359422 AGCACGAATGCTCTTCGGGACCTAGTCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66359462 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
66359495 TAACATACTG
Statistics
Matches: 223, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 50 0.22
40 173 0.78
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
Found at i:66361411 original size:47 final size:47
Alignment explanation
Indices: 66361348--66361647 Score: 483
Period size: 47 Copynumber: 6.4 Consensus size: 47
66361338 CCCTTCGGGA
* *
66361348 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
66361395 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66361442 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66361489 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
66361536 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66361583 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66361630 CTTATCACATATACACAC
1 CTTATCACATATATACAC
66361648 CTTGTACATC
Statistics
Matches: 234, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 234 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:66365796 original size:40 final size:40
Alignment explanation
Indices: 66365523--66365794 Score: 447
Period size: 40 Copynumber: 6.8 Consensus size: 40
66365513 ATTTTGTCCA
*
66365523 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66365562 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* *
66365602 AGCACGAATGCTCTTTGGGACTTAGCCTGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
66365642 AGCACGAATGCTCTTTGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* *
66365682 TGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* * * *
66365722 AGCACGAATGCTCTTCGGGACCTAGTCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66365762 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
66365795 TAACATACTG
Statistics
Matches: 219, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 11 0.05
40 208 0.95
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
Found at i:66367706 original size:47 final size:47
Alignment explanation
Indices: 66367643--66367942 Score: 483
Period size: 47 Copynumber: 6.4 Consensus size: 47
66367633 CCCTTCGGGA
* *
66367643 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
66367690 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66367737 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66367784 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
66367831 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66367878 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66367925 CTTATCACATATACACAC
1 CTTATCACATATATACAC
66367943 CTTGTACATC
Statistics
Matches: 234, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 234 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:66374510 original size:82 final size:82
Alignment explanation
Indices: 66374373--66374534 Score: 252
Period size: 82 Copynumber: 2.0 Consensus size: 82
66374363 ACTTGTTCAG
*
66374373 ATTGACCATGTGATCCCCTGTTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
1 ATTGACCATGTGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
66374438 AAATATAGTCTATATGT
66 AAATATAGTCTATATGT
* * * * * *
66374455 ATTGACTATGTGATTCTCTATTCTGACTTTGATAAATCATTAAACTTTGTACAAAAATAATTAAG
1 ATTGACCATGTGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
*
66374520 AAATATAGTTTATAT
66 AAATATAGTCTATAT
66374535 TTCTAGATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (82 bp):
ATTGACCATGTGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
AAATATAGTCTATATGT
Found at i:66375944 original size:82 final size:82
Alignment explanation
Indices: 66375807--66375968 Score: 252
Period size: 82 Copynumber: 2.0 Consensus size: 82
66375797 ACTTGTTCAG
*
66375807 ATTGACCATGTGATCCCCTGTTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
1 ATTGACCATGTGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
66375872 AAATATAGTCTATATGT
66 AAATATAGTCTATATGT
* * * * * *
66375889 ATTGACTATGTGATTCTCTATTCTGACTTTGATAAATCATTAAACTTTGTACAAAAATAATTAAG
1 ATTGACCATGTGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
*
66375954 AAATATAGTTTATAT
66 AAATATAGTCTATAT
66375969 TTCTAGATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (82 bp):
ATTGACCATGTGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
AAATATAGTCTATATGT
Found at i:66377378 original size:82 final size:82
Alignment explanation
Indices: 66377241--66377402 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 82
66377231 ACTTGTTCAG
*
66377241 ATTGACCATATGATCCCCTGTTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
1 ATTGACCATATGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
66377306 AAATATAGTCTATATGT
66 AAATATAGTCTATATGT
* * * * * * *
66377323 ATTGACTATGTGATCCTCTATTCTGACTTTGATAAATTATTAAACTTTGTACAAAAATAATTAAG
1 ATTGACCATATGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
*
66377388 AAATATAGTTTATAT
66 AAATATAGTCTATAT
66377403 TTCTAGATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (82 bp):
ATTGACCATATGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
AAATATAGTCTATATGT
Found at i:66378810 original size:82 final size:82
Alignment explanation
Indices: 66378673--66378834 Score: 252
Period size: 82 Copynumber: 2.0 Consensus size: 82
66378663 ACTTGTTCAG
*
66378673 ATTGACCATATGATCCCCTGTTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
1 ATTGACCATATGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
66378738 AAATATAGTCTATATGT
66 AAATATAGTCTATATGT
* * * * * *
66378755 ATTGACTATGTGATCCTCTATTCTGACTTTGATAAATCATTAAACTTTGTACAAAAATAATTAAG
1 ATTGACCATATGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
*
66378820 AAATATAGTTTATAT
66 AAATATAGTCTATAT
66378835 TTCTAGATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (82 bp):
ATTGACCATATGATCCCCTATTCTGAATCTGATAAATCATTAAAATTTGTACAAAAATAATTAAG
AAATATAGTCTATATGT
Found at i:66385228 original size:71 final size:68
Alignment explanation
Indices: 66385139--66385323 Score: 241
Period size: 71 Copynumber: 2.6 Consensus size: 68
66385129 GGGATGTATC
*
66385139 CCATGTAGACAAGAGAGCTACAGGAGAGATAAA-TGAAGCTAGGTCGCA-T-GTGTGATTCCAAG
1 CCATGTAGACAAGAGAGCTAC---A-AGATAAATTG--GCTAGGTCACAGTGGTGTGATTCCAAG
66385201 TGAAGGACA
60 TGAAGGACA
66385210 CCATGTAGACAAGAGAGCTACAAGATAAATTGGCTAGGTCACATGGGTGGTGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACAAGATAAATTGGCTAGGTCACA---GTGGTGTGATTCCAAGTGA
66385275 AGGACA
63 AGGACA
* *
66385281 CCATGTAGACAAGAGAGCTACGAGATAAATTTGCTAGGTCACA
1 CCATGTAGACAAGAGAGCTACAAGATAAATTGGCTAGGTCACA
66385324 TAGGTGGTAC
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
66 10 0.10
67 7 0.07
68 3 0.03
70 1 0.01
71 84 0.80
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACAAGATAAATTGGCTAGGTCACAGTGGTGTGATTCCAAGTGAAGG
ACA
Found at i:66385324 original size:71 final size:71
Alignment explanation
Indices: 66385188--66385331 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 71
66385178 TAGGTCGCAT
66385188 GTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAAATTGGCTAGGTCACA
1 GTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAAATTGGCTAGGTCACA
*
66385253 TGGGTG
66 TAGGTG
* *
66385259 GTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAATTTGCTAGGTCACA
1 GTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAAATTGGCTAGGTCACA
66385324 TAGGTG
66 TAGGTG
66385330 GT
1 GT
66385332 ACTAAGTGTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (71 bp):
GTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAAATTGGCTAGGTCACA
TAGGTG
Found at i:66388033 original size:40 final size:39
Alignment explanation
Indices: 66387939--66388089 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
66387929 GGATATAGCG
* * * *
66387939 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTAATA
1 ACTCGCACAAAAGCCTTCGGGACTTAACCCGGTTTAGTA
* * *
66387977 GCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACAAAAGCCTTCGGGACTTAACCCGG-TTTAGTA
* * * *
66388017 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTC
1 ACTCGCACAAAAGCCTTCGGGACTTAACCCGG-TTTAGTA
* *
66388057 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAAAGCCTTCGGGACTTAACCCGG
66388090 ATACCATTCG
Statistics
Matches: 92, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
38 27 0.29
40 40 0.43
41 25 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAAAGCCTTCGGGACTTAACCCGGTTTAGTA
Found at i:66396047 original size:40 final size:39
Alignment explanation
Indices: 66395952--66396103 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
66395942 GGATATAGCG
* * * *
66395952 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTTAATA
1 ACTCGCACAAAAGCCTTCGGGACTTAACCCGGTTTAGTA
* * *
66395991 GCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACAAAAGCCTTCGGGACTTAACCCGG-TTTAGTA
* * * *
66396031 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTC
1 ACTCGCACAAAAGCCTTCGGGACTTAACCCGG-TTTAGTA
* *
66396071 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAAAGCCTTCGGGACTTAACCCGG
66396104 ATACCATTCG
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 27 0.29
40 41 0.44
41 25 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAAGCCTTCGGGACTTAACCCGGTTTAGTA
Found at i:66399748 original size:84 final size:84
Alignment explanation
Indices: 66399607--66399760 Score: 236
Period size: 84 Copynumber: 1.8 Consensus size: 84
66399597 TAAGATGCCA
* ** ** *
66399607 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACATTGATGCCATATCTCAGATAGGGTCT
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCACATCAATGCCATATCCCAGATAGGGTCT
66399672 TATACAAAGTCTCATTTCG
66 TATACAAAGTCTCATTTCG
* *
66399691 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCAATGCCATATCCCAGATATGGTCT
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCACATCAATGCCATATCCCAGATAGGGTCT
66399756 TATAC
66 TATAC
66399761 GGGATCTCGT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (84 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCACATCAATGCCATATCCCAGATAGGGTCT
TATACAAAGTCTCATTTCG
Found at i:66399768 original size:42 final size:42
Alignment explanation
Indices: 66399605--66399757 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 42
66399595 AATAAGATGC
* * ** *
66399605 CAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACAT
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAT
** * * * * *
66399647 TGATGCCATATCTCAGATAGGGTCTTATAC-AAAGTCTCATTT
1 CAATGCCATATCCCAGACATGGTCTTACACGAAA-TCTCATAT
* *
66399689 CGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATAT
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAT
*
66399731 CAATGCCATATCCCAGATATGGTCTTA
1 CAATGCCATATCCCAGACATGGTCTTA
66399758 TACGGGATCT
Statistics
Matches: 87, Mismatches: 22, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
41 1 0.01
42 83 0.95
43 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAT
Found at i:66403319 original size:13 final size:12
Alignment explanation
Indices: 66403301--66403333 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
66403291 TTCGAAGTTG
66403301 AAAAAAAAATTC
1 AAAAAAAAATTC
66403313 AAAAAAAAATTC
1 AAAAAAAAATTC
66403325 AAAAAAAAA
1 AAAAAAAAA
66403334 GGTTCTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:66404460 original size:49 final size:50
Alignment explanation
Indices: 66404394--66404508 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 50
66404384 AAATCATGTG
*
66404394 AAAA-TGAAAAAGAGAGTGAAAGAAAAG-AAAGAACTTGAACGAGAAAAT
1 AAAATTGAAAAAGAGAGTGAAAGAAAAGAAAAGAACTTGAACAAGAAAAT
66404442 AAAATTGAAAAAGAGAGTGAAAGAAAAGAAAAAGAACTTGAACAAGAAAAT
1 AAAATTGAAAAAGAGAGTGAAAGAAAAG-AAAAGAACTTGAACAAGAAAAT
66404493 AAAATTGAAAAAGAGA
1 AAAATTGAAAAAGAGA
66404509 TTGAGAGTGG
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
48 4 0.06
49 23 0.37
51 36 0.57
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.11
Consensus pattern (50 bp):
AAAATTGAAAAAGAGAGTGAAAGAAAAGAAAAGAACTTGAACAAGAAAAT
Found at i:66404500 original size:18 final size:18
Alignment explanation
Indices: 66404435--66404506 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
66404425 AACTTGAACG
66404435 AGAAAATAAAATTGAAAA
1 AGAAAATAAAATTGAAAA
* * *
66404453 AGAGAGTGAAA--G-AAA
1 AGAAAATAAAATTGAAAA
* *
66404468 AGAAAA-AGAACTTGAACA
1 AGAAAATA-AAATTGAAAA
66404486 AGAAAATAAAATTGAAAA
1 AGAAAATAAAATTGAAAA
66404504 AGA
1 AGA
66404507 GATTGAGAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
15 9 0.23
16 1 0.03
17 1 0.03
18 27 0.69
19 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.12
Consensus pattern (18 bp):
AGAAAATAAAATTGAAAA
Found at i:66419956 original size:29 final size:29
Alignment explanation
Indices: 66419923--66419996 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
66419913 GTGACGAGAT
66419923 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
66419952 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
66419981 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66419997 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Done.