Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014706.1 Kokia drynarioides strain JFW-HI SEQ_129745, whole genome shotgun sequence
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: 313676
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 64 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:9243 original size:29 final size:30
Alignment explanation
Indices: 9185--9739 Score: 461
Period size: 29 Copynumber: 18.8 Consensus size: 30
9175 CGAAGTCCCT
*
9185 AAACCTTCCAAAAA-TCCCATTTTTAACCCC
1 AAACCTTCCAAAAATTACCA-TTTTAACCCC
9215 AAACCTTCCAAAAATTACCATTTT-ACCCC
1 AAACCTTCCAAAAATTACCATTTTAACCCC
9244 TAAA-CTTCCAAAAA-T-CTCATTTTTAACCCC
1 -AAACCTTCCAAAAATTAC-CA-TTTTAACCCC
* *
9274 GAACCTTCCAAAAATTACCATTTT-ACGCAC
1 AAACCTTCCAAAAATTACCATTTTAAC-CCC
*
9304 GAA-CTTCCAAAAA-T-CTCATTTTTAACCCC
1 AAACCTTCCAAAAATTAC-CA-TTTTAACCCC
* * *
9333 GAACCTTCCAAAAGTTACTATTTT-ACCCC
1 AAACCTTCCAAAAATTACCATTTTAACCCC
*
9362 TGAAA-C-TCCAAAAA-TCCCATTTTAACCCC
1 --AAACCTTCCAAAAATTACCATTTTAACCCC
9391 AAACCTTCCAAAAATTACCATTTT-ACCCC
1 AAACCTTCCAAAAATTACCATTTTAACCCC
* *
9420 TAAAAC-TCCAAAAA-TCCCATTTTTTAACCCC
1 -AAACCTTCCAAAAATTACCA--TTTTAACCCC
*
9451 GAACCTTCCAAAAATTACCATTTT-ACCCTC
1 AAACCTTCCAAAAATTACCATTTTAACCC-C
* *
9481 AAAAC-TCCAAAAA-TCCCATTTTTTAACCCCC
1 AAACCTTCCAAAAATTACCA--TTTTAA-CCCC
9512 AAACCTTCCAAAAATTACCATTTT-ACGCCC
1 AAACCTTCCAAAAATTACCATTTTAAC-CCC
* *
9542 GAA-CTTCCAAAAATCTTA--TTTTTAACCCC
1 AAACCTTCCAAAAA--TTACCATTTTAACCCC
* *
9571 GAACCTTCCAAAAGTTACCATTTT-ACCCC
1 AAACCTTCCAAAAATTACCATTTTAACCCC
* *
9600 TAAAAC-TCCAAAAA-TCCCATTTTAACCCC
1 -AAACCTTCCAAAAATTACCATTTTAACCCC
* *
9629 AAACCTTCCAAAAATTATCATTTTACCCCC
1 AAACCTTCCAAAAATTACCATTTTAACCCC
* *
9659 AAA-CTTCCAAAAA-TCCCATTTTTGACCCC
1 AAACCTTCCAAAAATTACCA-TTTTAACCCC
* *
9688 GAACCTTCCAAAAATTACCATTCT-ACCTCC
1 AAACCTTCCAAAAATTACCATTTTAACC-CC
*
9718 AAA-CTTCCAAAAA-TCCCATTTT
1 AAACCTTCCAAAAATTACCATTTT
9740 CGACCTCGAA
Statistics
Matches: 433, Mismatches: 43, Indels: 100
0.75 0.07 0.17
Matches are distributed among these distances:
27 5 0.01
28 47 0.11
29 171 0.39
30 148 0.34
31 41 0.09
32 17 0.04
33 4 0.01
ACGTcount: A:0.36, C:0.33, G:0.02, T:0.28
Consensus pattern (30 bp):
AAACCTTCCAAAAATTACCATTTTAACCCC
Found at i:9255 original size:59 final size:59
Alignment explanation
Indices: 9181--9739 Score: 785
Period size: 59 Copynumber: 9.4 Consensus size: 59
9171 ACCTCGAAGT
*
9181 CCCTAAACCTTCCAAAAATCCCATTTTTAACCCCAAACCTTCCAAAAATTACCATTTTAC
1 CCCTAAA-CTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
*
9241 CCCTAAACTTCCAAAAATCTCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
1 CCCTAAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
* * * * *
9300 GCAC-GAACTTCCAAAAATCTCATTTTTAACCCCGAACCTTCCAAAAGTTACTATTTTAC
1 -CCCTAAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
*
9359 CCCTGAAAC-TCCAAAAATCCCA-TTTTAACCCCAAACCTTCCAAAAATTACCATTTTAC
1 CCCT-AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
9417 CCCTAAAAC-TCCAAAAATCCCATTTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
1 CCCT-AAACTTCCAAAAATCCCA-TTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
* *
9477 CCTCAAAAC-TCCAAAAATCCCATTTTTTAACCCCCAAACCTTCCAAAAATTACCATTTTAC
1 CC-CTAAACTTCCAAAAATCCCA-TTTTTAA-CCCCGAACCTTCCAAAAATTACCATTTTAC
* ** *
9538 GCCC-GAACTTCCAAAAATCTTATTTTTAACCCCGAACCTTCCAAAAGTTACCATTTTAC
1 -CCCTAAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
* *
9597 CCCTAAAAC-TCCAAAAATCCCA-TTTTAACCCCAAACCTTCCAAAAATTATCATTTTAC
1 CCCT-AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
* * *
9655 CCCCAAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCCAAAAATTACCATTCTAC
1 CCCTAAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
9714 CTCC-AAACTTCCAAAAATCCCATTTT
1 C-CCTAAACTTCCAAAAATCCCATTTT
9740 CGACCTCGAA
Statistics
Matches: 453, Mismatches: 32, Indels: 29
0.88 0.06 0.06
Matches are distributed among these distances:
57 4 0.01
58 108 0.24
59 208 0.46
60 89 0.20
61 42 0.09
62 2 0.00
ACGTcount: A:0.36, C:0.33, G:0.02, T:0.28
Consensus pattern (59 bp):
CCCTAAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTAC
Found at i:9752 original size:30 final size:29
Alignment explanation
Indices: 9189--9780 Score: 432
Period size: 30 Copynumber: 20.0 Consensus size: 29
9179 GTCCCTAAAC
9189 CTTCCAAAAATCCCATTTTTAACCCC-AAA
1 CTTCCAAAAATCCCA-TTTTAACCCCGAAA
* *
9218 CCTTCCAAAAATTACCATTTT-ACCCCTAAA
1 -CTTCCAAAAA-TCCCATTTTAACCCCGAAA
* *
9248 CTTCCAAAAATCTCATTTTTAACCCCGAAC
1 CTTCCAAAAATCCCA-TTTTAACCCCGAAA
* *
9278 CTTCCAAAAATTACCATTTT-ACGCACG-AA
1 CTTCCAAAAA-TCCCATTTTAAC-CCCGAAA
* *
9307 CTTCCAAAAATCTCATTTTTAACCCCGAAC
1 CTTCCAAAAATCCCA-TTTTAACCCCGAAA
* * *
9337 CTTCCAAAAGTTACTATTTT-ACCCCTGAAA
1 CTTCCAAAA-ATCCCATTTTAACCCC-GAAA
9367 C-TCCAAAAATCCCATTTTAACCCC-AAA
1 CTTCCAAAAATCCCATTTTAACCCCGAAA
* *
9394 CCTTCCAAAAATTACCATTTT-ACCCCTAAAA
1 -CTTCCAAAAA-TCCCATTTTAACCCC-GAAA
*
9425 C-TCCAAAAATCCCATTTTTTAACCCCGAAC
1 CTTCCAAAAATCCCA--TTTTAACCCCGAAA
* *
9455 CTTCCAAAAATTACCATTTT-ACCCTCAAAA
1 CTTCCAAAAA-TCCCATTTTAACCC-CGAAA
*
9485 C-TCCAAAAATCCCATTTTTTAACCCCCAAA
1 CTTCCAAAAATCCCA--TTTTAACCCCGAAA
*
9515 CCTTCCAAAAATTACCATTTT-ACGCCCG-AA
1 -CTTCCAAAAA-TCCCATTTTAAC-CCCGAAA
** *
9545 CTTCCAAAAATCTTATTTTTAACCCCGAAC
1 CTTCCAAAAATCCCA-TTTTAACCCCGAAA
* * *
9575 CTTCCAAAAGTTACCATTTT-ACCCCTAAAA
1 CTTCCAAAA-ATCCCATTTTAACCCC-GAAA
9605 C-TCCAAAAATCCCATTTTAACCCC-AAA
1 CTTCCAAAAATCCCATTTTAACCCCGAAA
** *
9632 CCTTCCAAAAATTATCATTTT-ACCCCCAAA
1 -CTTCCAAAAA-TCCCATTTTAACCCCGAAA
* *
9662 CTTCCAAAAATCCCATTTTTGACCCCGAAC
1 CTTCCAAAAATCCCA-TTTTAACCCCGAAA
* *
9692 CTTCCAAAAATTACCATTCT-ACCTCC-AAA
1 CTTCCAAAAA-TCCCATTTTAACC-CCGAAA
* *
9721 CTTCCAAAAATCCCATTTTCGACCTCGAAA
1 CTTCCAAAAATCCCATTTT-AACCCCGAAA
* * *
9751 C-TCTCAAAATTGCCATTTTTACCCTCGAAA
1 CTTC-CAAAAATCCCATTTTAACCC-CGAAA
9781 AATATTCCCG
Statistics
Matches: 453, Mismatches: 60, Indels: 98
0.74 0.10 0.16
Matches are distributed among these distances:
27 6 0.01
28 43 0.09
29 172 0.38
30 173 0.38
31 43 0.09
32 12 0.03
33 4 0.01
ACGTcount: A:0.36, C:0.33, G:0.03, T:0.29
Consensus pattern (29 bp):
CTTCCAAAAATCCCATTTTAACCCCGAAA
Found at i:14791 original size:12 final size:12
Alignment explanation
Indices: 14774--14799 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14764 AGATAGAAGG
14774 GGAGGTCGAGAA
1 GGAGGTCGAGAA
14786 GGAGGTCGAGAA
1 GGAGGTCGAGAA
14798 GG
1 GG
14800 TTGAGAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.54, T:0.08
Consensus pattern (12 bp):
GGAGGTCGAGAA
Found at i:15288 original size:56 final size:56
Alignment explanation
Indices: 15221--15331 Score: 222
Period size: 56 Copynumber: 2.0 Consensus size: 56
15211 CTCAACGGAA
15221 AACATCATAAATATGTATACATGTAATATGCAAAACATCAACCAAGATCGACTCTT
1 AACATCATAAATATGTATACATGTAATATGCAAAACATCAACCAAGATCGACTCTT
15277 AACATCATAAATATGTATACATGTAATATGCAAAACATCAACCAAGATCGACTCT
1 AACATCATAAATATGTATACATGTAATATGCAAAACATCAACCAAGATCGACTCT
15332 AAAAGAGTCG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (56 bp):
AACATCATAAATATGTATACATGTAATATGCAAAACATCAACCAAGATCGACTCTT
Found at i:16785 original size:20 final size:20
Alignment explanation
Indices: 16756--16809 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
16746 AAAATATTAA
* *
16756 GTATCAATACCTTACCTAGG
1 GTATCGATACCTTACCTAAG
*
16776 GTATCGATACCTTACCTAAT
1 GTATCGATACCTTACCTAAG
16796 GTATCGATACCTTA
1 GTATCGATACCTTA
16810 GTGCCAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (20 bp):
GTATCGATACCTTACCTAAG
Found at i:17282 original size:20 final size:20
Alignment explanation
Indices: 17257--17298 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
17247 CAAAAAATGA
17257 CATCATGGATAGTCTTTGTC
1 CATCATGGATAGTCTTTGTC
*
17277 CATCATGGGTAGTCTTTGTC
1 CATCATGGATAGTCTTTGTC
17297 CA
1 CA
17299 ACCAAAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
CATCATGGATAGTCTTTGTC
Found at i:18289 original size:27 final size:26
Alignment explanation
Indices: 18231--18291 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
18221 TTAACTATAT
* *
18231 ATTTTTTGAATTTTTAAATTTTTTTA
1 ATTTTTTGAATTTTGAAATTTTATTA
* *
18257 ATTTTTTTGTATTTTGAAATTTTAATTG
1 A-TTTTTTGAATTTTGAAATTTT-ATTA
18285 ATTTTTT
1 ATTTTTT
18292 ATTTTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 25 0.86
28 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.69
Consensus pattern (26 bp):
ATTTTTTGAATTTTGAAATTTTATTA
Found at i:21420 original size:13 final size:13
Alignment explanation
Indices: 21400--21431 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21390 GAAGGGAGAA
21400 AAAATTTTCTTTC
1 AAAATTTTCTTTC
*
21413 ATAATTTTCTTTC
1 AAAATTTTCTTTC
21426 AAAATT
1 AAAATT
21432 CAAGCATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (13 bp):
AAAATTTTCTTTC
Found at i:32126 original size:12 final size:14
Alignment explanation
Indices: 32114--32158 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
32104 ACAAAAATTT
32114 ATTT-ATTTTTTTA
1 ATTTAATTTTTTTA
*
32127 ATTTAATTTTTATA
1 ATTTAATTTTTTTA
32141 ATTTTAAATTTTTTTA
1 A-TTT-AATTTTTTTA
32157 AT
1 AT
32159 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.15
14 9 0.33
15 4 0.15
16 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTAATTTTTTTA
Found at i:38143 original size:3 final size:3
Alignment explanation
Indices: 38132--38171 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
38122 AGAAAACAAC
*
38132 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38172 AAAGAAAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:41777 original size:25 final size:27
Alignment explanation
Indices: 41748--41798 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
41738 GATAAATTGG
41748 TTTTAT-G-ATTCTATTAATGATTTTT
1 TTTTATAGAATTCTATTAATGATTTTT
41773 TTTTATAGAAATTCTATTAATGATTT
1 TTTTATAG-AATTCTATTAATGATTT
41799 GAAATGGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 1 0.04
28 16 0.70
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (27 bp):
TTTTATAGAATTCTATTAATGATTTTT
Found at i:42431 original size:140 final size:140
Alignment explanation
Indices: 42179--42459 Score: 526
Period size: 140 Copynumber: 2.0 Consensus size: 140
42169 ATTATCTCTC
42179 TATTCCTGAATTTTGAAATGCTCTGAATGATGAAGTAGTTTGAGTTGTTTGGAGTTATAACATTT
1 TATTCCTGAATTTTGAAATGCTCTGAATGATGAAGTAGTTTGAGTTGTTTGGAGTTATAACATTT
* *
42244 TTTGTTCTATGGTTGACCAATTTGTGAAATTTGAAGTACTTAACATGTTCGGCAAAAATCTTTAC
66 TTTGTTCCATGGTTGACCAATTTGTGAAATTTGAAGTACTTAACATGTTCGGAAAAAATCTTTAC
42309 AAGGTACTTA
131 AAGGTACTTA
*
42319 TATTCCTGAATTTTGAAATGCTCTGATTGATGAAGTAGTTTGAGTTGTTTGGAGTTATAACATTT
1 TATTCCTGAATTTTGAAATGCTCTGAATGATGAAGTAGTTTGAGTTGTTTGGAGTTATAACATTT
*
42384 TTTGTTCCATGGTTGACCAATTTGTGACATTTGAAGTACTTAACATGTTCGGAAAAAATCTTTAC
66 TTTGTTCCATGGTTGACCAATTTGTGAAATTTGAAGTACTTAACATGTTCGGAAAAAATCTTTAC
42449 AAGGTACTTA
131 AAGGTACTTA
42459 T
1 T
42460 GCATATGGAA
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (140 bp):
TATTCCTGAATTTTGAAATGCTCTGAATGATGAAGTAGTTTGAGTTGTTTGGAGTTATAACATTT
TTTGTTCCATGGTTGACCAATTTGTGAAATTTGAAGTACTTAACATGTTCGGAAAAAATCTTTAC
AAGGTACTTA
Found at i:47228 original size:107 final size:109
Alignment explanation
Indices: 47039--47234 Score: 297
Period size: 107 Copynumber: 1.8 Consensus size: 109
47029 CATTTATCAA
* ** * *
47039 TTTTAAATAGGATATTCAATTATTTAGGTTCATGGAAAAAATCATATCCAACACATTAGAGCATA
1 TTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAAATCATACCCAACACATTAGAGCACA
*
47104 ATTTCTCGAGTTCCCT-AAATAAATAAAAAAACATTGCCTTGGT
66 ATTTCTCGAATTCCCTAAAATAAATAAAAAAACATTGCCTTGGT
*
47147 TTTTAAATAGGATATTCAATTACTTAGGTTCAAAG-AAAAATCATACCCAACACGTTAGAGCACA
1 TTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAAATCATACCCAACACATTAGAGCACA
* *
47211 ATTTCTCTAATTTCCTAAAATAAA
66 ATTTCTCGAATTCCCTAAAATAAA
47235 ATAATATTAC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 39 0.50
108 39 0.50
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (109 bp):
TTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAAATCATACCCAACACATTAGAGCACA
ATTTCTCGAATTCCCTAAAATAAATAAAAAAACATTGCCTTGGT
Found at i:49349 original size:38 final size:38
Alignment explanation
Indices: 49307--49671 Score: 259
Period size: 38 Copynumber: 9.3 Consensus size: 38
49297 CCGTGATTAT
* *
49307 GGTAAAAGATTGAATGCTTCAATCTGCCCTTTGATCGG
1 GGTAAGAGATTGAATGCTTCAATCTGCCCTATGATCGG
* * * * **
49345 GGTAAGAGATTGATGTGTCTTCAATCTACCCTTTAATTAG
1 GGTAAGAGATTGA-ATG-CTTCAATCTGCCCTATGATCGG
* * *
49385 GGTAAAAGATTGGATGCTTCAATATGCCCTATGATCGG
1 GGTAAGAGATTGAATGCTTCAATCTGCCCTATGATCGG
* ** ** **
49423 GGTGAGAGATTGGTGTGTCTTCAATCTGCCCTCCGATTAG
1 GGTAAGAGATT-GAATG-CTTCAATCTGCCCTATGATCGG
* * * *
49463 AGTAAAAGATT-AGATGCTTCAATCTGCCCCATGATCTG
1 GGTAAGAGATTGA-ATGCTTCAATCTGCCCTATGATCGG
** * **
49501 GGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTGATTAG
1 GGTAAGAGATT-GAATG-CTTCAATCTGCCCTATGATCGG
* * *
49541 AGTAAAAGATT-AGATGCTTCAATTTGGCCC-ATGATCGG
1 GGTAAGAGATTGA-ATGCTTCAATCT-GCCCTATGATCGG
** *
49579 GGTAAGAGATTGGTTGGCTTCAATCTGCCCCATGATCGG
1 GGTAAGAGATTGAAT-GCTTCAATCTGCCCTATGATCGG
* * *
49618 GGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATCTG
1 GGTAAGAGATT-GA--ATG-CTTCAATCTGCCCTATGATCGG
49660 GGTAAGAGATTG
1 GGTAAGAGATTG
49672 GATGATGTCT
Statistics
Matches: 251, Mismatches: 59, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
38 90 0.36
39 45 0.18
40 82 0.33
41 2 0.01
42 32 0.13
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (38 bp):
GGTAAGAGATTGAATGCTTCAATCTGCCCTATGATCGG
Found at i:49389 original size:78 final size:79
Alignment explanation
Indices: 49244--49683 Score: 512
Period size: 78 Copynumber: 5.6 Consensus size: 79
49234 TGAAATGATA
* * ** * * ** *
49244 GCTTCAACCTGCCCCGTGATTAGGGTAAAAGATCGGTGTGTCTTCAATCTGCCCCGTGATTATGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTGATTAGGG
49309 TAAAAGATTGA-AT
66 TAAAAGATTGAGAT
** * * *
49322 GCTTCAATCTGCCCTTTGATCGGGGTAAGAGATTGATGTGTCTTCAATCTACCCTTTAATTAGGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTGATTAGGG
49387 TAAAAGATTG-GAT
66 TAAAAGATTGAGAT
* * * ** *
49400 GCTTCAATATGCCCTATGATCGGGGTGAGAGATTGGTGTGTCTTCAATCTGCCCTCCGATTAGAG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTGATTAGGG
49465 TAAAAGATT-AGAT
66 TAAAAGATTGAGAT
* *
49478 GCTTCAATCTGCCCCATGATCTGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTGATTAGAG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTGATTAGGG
49543 TAAAAGATT-AGAT
66 TAAAAGATTGAGAT
* * * ** **
49556 GCTTCAATTTGGCCCATGATCGGGGTAAGAGATTGGT-TGGCTTCAATCTGCCCCATGATCGGGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTGATTAGGG
*
49620 TAAGAGATTGGATGAT
66 TAAAAGATT-GA-GAT
* *
49636 GTCTTCAATCTACCCCATGATCTGGGTAAGAGATTGGATGATGTCTTC
1 G-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTC
49684 GTTTTGCTCT
Statistics
Matches: 310, Mismatches: 43, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
77 29 0.09
78 238 0.77
79 1 0.00
80 4 0.01
81 31 0.10
82 1 0.00
84 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (79 bp):
GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTGATTAGGG
TAAAAGATTGAGAT
Found at i:50047 original size:49 final size:49
Alignment explanation
Indices: 49957--50339 Score: 208
Period size: 49 Copynumber: 7.8 Consensus size: 49
49947 AGGTATAAAG
* * * * * *
49957 TTCGCCATTGCGGCTTCAACCTTTCCCT-CCATAT-TTCCATGGTACAAGT
1 TTCGCCGTTGCGGCCTCAATCTTT-CCTATCATATCTT-CATGGTACAGGA
* * *
50006 TTCGCCGTTGCGGCCTCAATCATTCCTATCACATCTTCATGGTACCGGA
1 TTCGCCGTTGCGGCCTCAATCTTTCCTATCATATCTTCATGGTACAGGA
* * * * *
50055 TTCGCCGTTGCAGCCTCAATCTTTCCCATTATATCTTCTAAGGTATC-GGG
1 TTCGCCGTTGCGGCCTCAATCTTTCCTATCATATCTTC-ATGGTA-CAGGA
* * * * *
50105 TTTGCCATTGCGGCCTCTACCTTTCCCT-TCATATCTTCATGGTACCGGA
1 TTCGCCGTTGCGGCCTCAATCTTT-CCTATCATATCTTCATGGTACAGGA
* * * * * *
50154 TTCGTCGTTGCAGCCTCAATCCTTCCCATCATATCTTCTAAGGTACCAAG-
1 TTCGCCGTTGCGGCCTCAATCTTTCCTATCATATCTTC-ATGGTA-CAGGA
* * * * *
50204 TTCACCGTTACGACCTCAACCTTTCTCT-TCATATCTTCATGGTATCA-AA
1 TTCGCCGTTGCGGCCTCAATCTTTC-CTATCATATCTTCATGGTA-CAGGA
* * * * * * * * *
50253 TTTGTCGTTACGACATCAATCCTTCCCATCATATCTTCTAAGGTACCTGG-
1 TTCGCCGTTGCGGCCTCAATCTTTCCTATCATATCTTC-ATGGTA-CAGGA
* * * *
50303 TTCGTCGTTACGACCTCAACCTTTCCCT-TCATATCTT
1 TTCGCCGTTGCGGCCTCAATCTTT-CCTATCATATCTT
50340 AATGTTCCCT
Statistics
Matches: 256, Mismatches: 63, Indels: 29
0.74 0.18 0.08
Matches are distributed among these distances:
48 7 0.03
49 136 0.53
50 105 0.41
51 8 0.03
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.35
Consensus pattern (49 bp):
TTCGCCGTTGCGGCCTCAATCTTTCCTATCATATCTTCATGGTACAGGA
Found at i:50138 original size:148 final size:148
Alignment explanation
Indices: 49922--50200 Score: 355
Period size: 148 Copynumber: 1.9 Consensus size: 148
49912 CTGTTCCAGT
* * * *
49922 CTCAATTTTTTCCTTTATATCTCTAAGGTATAAAGTTCGCCATTGCGGCTTCAACCTTTCCCTCC
1 CTCAATCTTTCCCATTATATCTCTAAGGTATAAAGTTCGCCATTGCGGCCTCAACCTTTCCCTCC
* * * *
49987 ATAT-TTCCATGGTACAAGTTTCGCCGTTGCGGCCTCAATCATTCCTATCACATCTTC-ATGGTA
66 ATATCTT-CATGGTACAAGATTCGCCGTTGCAGCCTCAATCATTCCCATCACATCTTCTAAGGTA
50050 CCGGATTCGCCGTTGCAGC
130 CCGGATTCGCCGTTGCAGC
*** * * *
50069 CTCAATCTTTCCCATTATATCTTCTAAGGTATCGGGTTTGCCATTGCGGCCTCTACCTTTCCCTT
1 CTCAATCTTTCCCATTATATC-TCTAAGGTATAAAGTTCGCCATTGCGGCCTCAACCTTTCCCTC
** * * *
50134 CATATCTTCATGGTACCGGATTCGTCGTTGCAGCCTCAATCCTTCCCATCATATCTTCTAAGGTA
65 CATATCTTCATGGTACAAGATTCGCCGTTGCAGCCTCAATCATTCCCATCACATCTTCTAAGGTA
50199 CC
130 CC
50201 AAGTTCACCG
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
147 18 0.16
148 83 0.75
149 9 0.08
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (148 bp):
CTCAATCTTTCCCATTATATCTCTAAGGTATAAAGTTCGCCATTGCGGCCTCAACCTTTCCCTCC
ATATCTTCATGGTACAAGATTCGCCGTTGCAGCCTCAATCATTCCCATCACATCTTCTAAGGTAC
CGGATTCGCCGTTGCAGC
Found at i:50151 original size:99 final size:99
Alignment explanation
Indices: 49997--50339 Score: 402
Period size: 99 Copynumber: 3.5 Consensus size: 99
49987 ATATTTCCAT
* * * * * * * *
49997 GGTACAAGTTTCGCCGTTGCGGCCTCAATCATT-CCTATCACATCTTCATGGTACCGGATTCGCC
1 GGTACCAGGTTCGCCGTTACGACCTCAACCTTTCCCT-TCATATCTTCATGGTACCGGATTCGTC
* *
50061 GTTGCAGCCTCAATCTTTCCCATTATATCTTCTAA
65 GTTGCAGCCTCAATCCTTCCCATCATATCTTCTAA
* * * * * * *
50096 GGTATCGGGTTTGCCATTGCGGCCTCTACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCG
1 GGTACCAGGTTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCG
50161 TTGCAGCCTCAATCCTTCCCATCATATCTTCTAA
66 TTGCAGCCTCAATCCTTCCCATCATATCTTCTAA
* * * * ** *
50195 GGTACCAAGTTCACCGTTACGACCTCAACCTTTCTCTTCATATCTTCATGGTATCAAATTTGTCG
1 GGTACCAGGTTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCG
* *
50260 TTAC-GACATCAATCCTTCCCATCATATCTTCTAA
66 TTGCAG-CCTCAATCCTTCCCATCATATCTTCTAA
* *
50294 GGTACCTGGTTCGTCGTTACGACCTCAACCTTTCCCTTCATATCTT
1 GGTACCAGGTTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTT
50340 AATGTTCCCT
Statistics
Matches: 208, Mismatches: 34, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
98 1 0.00
99 204 0.98
100 3 0.01
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.35
Consensus pattern (99 bp):
GGTACCAGGTTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCG
TTGCAGCCTCAATCCTTCCCATCATATCTTCTAA
Found at i:50236 original size:50 final size:50
Alignment explanation
Indices: 50068--50339 Score: 225
Period size: 50 Copynumber: 5.5 Consensus size: 50
50058 GCCGTTGCAG
* * ** * * * * *
50068 CCTCAATCTTTCCCATT-ATATCTTCTAAGGTATCGGGTTTGCCATTGCGG
1 CCTCAACCTTTCCC-TTCATATCTTCTAAGGTACCAAGTTCGTCGTTACGA
* * * *
50118 CCTCTACCTTTCCCTTCATATCTTC-ATGGTACC-GGATTCGTCGTTGC-A
1 CCTCAACCTTTCCCTTCATATCTTCTAAGGTACCAAG-TTCGTCGTTACGA
* **
50166 GCCTCAATCC-TTCCCATCATATCTTCTAAGGTACCAAGTTCACCGTTACGA
1 -CCTCAA-CCTTTCCCTTCATATCTTCTAAGGTACCAAGTTCGTCGTTACGA
* * * * *
50217 CCTCAACCTTTCTCTTCATATCTTC-ATGGTATCAAATTTGTCGTTACGA
1 CCTCAACCTTTCCCTTCATATCTTCTAAGGTACCAAGTTCGTCGTTACGA
* * **
50266 CATCAATCC-TTCCCATCATATCTTCTAAGGTACCTGGTTCGTCGTTACGA
1 CCTCAA-CCTTTCCCTTCATATCTTCTAAGGTACCAAGTTCGTCGTTACGA
50316 CCTCAACCTTTCCCTTCATATCTT
1 CCTCAACCTTTCCCTTCATATCTT
50340 AATGTTCCCT
Statistics
Matches: 177, Mismatches: 34, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
48 2 0.01
49 77 0.44
50 96 0.54
51 2 0.01
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.36
Consensus pattern (50 bp):
CCTCAACCTTTCCCTTCATATCTTCTAAGGTACCAAGTTCGTCGTTACGA
Found at i:50248 original size:148 final size:148
Alignment explanation
Indices: 49936--50249 Score: 343
Period size: 148 Copynumber: 2.1 Consensus size: 148
49926 ATTTTTTCCT
*** * *
49936 TTATATC-TCTAAGGTATAAAGTTCGCCATTGCGGCTTCAACCTTTCCCTCCATATTTCCATGGT
1 TTATATCTTCTAAGGTATCGGGTTTGCCATTGCGGCCTCAACCTTTCCCTCCATATTTCCATGGT
* * * * * * *
50000 ACAAGTTTCGCCGTTGCGGCCTCAATCATTCCTATCACATCTTCATGGTACCGGATTCGCCGTTG
66 ACAAGATTCGCCGTTGCAGCCTCAATCATTCCCATCACATCTTCAAGGTACCAGATTCACCGTTA
*
50065 CAGCCTCAATCTTTCCCA
131 CAGCCTCAACCTTTCCCA
* *
50083 TTATATCTTCTAAGGTATCGGGTTTGCCATTGCGGCCTCTACCTTTCCCTTCATATCTT-CATGG
1 TTATATCTTCTAAGGTATCGGGTTTGCCATTGCGGCCTCAACCTTTCCCTCCATAT-TTCCATGG
** * * *
50147 TACCGGATTCGTCGTTGCAGCCTCAATCCTTCCCATCATATCTTCTAAGGTACCA-AGTTCACCG
65 TACAAGATTCGCCGTTGCAGCCTCAATCATTCCCATCACATCTTC-AAGGTACCAGA-TTCACCG
*
50211 TTAC-GACCTCAACCTTTCTC-
128 TTACAG-CCTCAACCTTTCCCA
*
50231 TTCATATCTTC-ATGGTATC
1 TT-ATATCTTCTAAGGTATC
50250 AAATTTGTCG
Statistics
Matches: 139, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
147 7 0.05
148 94 0.68
149 38 0.27
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (148 bp):
TTATATCTTCTAAGGTATCGGGTTTGCCATTGCGGCCTCAACCTTTCCCTCCATATTTCCATGGT
ACAAGATTCGCCGTTGCAGCCTCAATCATTCCCATCACATCTTCAAGGTACCAGATTCACCGTTA
CAGCCTCAACCTTTCCCA
Found at i:51374 original size:12 final size:12
Alignment explanation
Indices: 51357--51398 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
51347 GACCTCTCTT
51357 TTTTTTCTTTTA
1 TTTTTTCTTTTA
51369 TTTTTTCATTTTA
1 TTTTTTC-TTTTA
*
51382 TTGTTCTCTTTT-
1 TT-TTTTCTTTTA
51394 TTTTT
1 TTTTT
51399 ATTTTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 2 0.08
12 9 0.35
13 11 0.42
14 4 0.15
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTTTCTTTTA
Found at i:51393 original size:19 final size:19
Alignment explanation
Indices: 51371--51412 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
51361 TTCTTTTATT
51371 TTTTCATTTTATTGTTC-TC
1 TTTT-ATTTTATTGTTCTTC
* *
51390 TTTTTTTTTATTTTTCTTC
1 TTTTATTTTATTGTTCTTC
51409 TTTT
1 TTTT
51413 TTGGGTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTTTATTGTTCTTC
Found at i:51398 original size:18 final size:19
Alignment explanation
Indices: 51377--51414 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
51367 TATTTTTTCA
51377 TTTTATTGTTC-TCTTTTT
1 TTTTATTGTTCTTCTTTTT
*
51395 TTTTATTTTTCTTCTTTTT
1 TTTTATTGTTCTTCTTTTT
51414 T
1 T
51415 GGGTGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTATTGTTCTTCTTTTT
Found at i:55476 original size:102 final size:104
Alignment explanation
Indices: 55370--55577 Score: 273
Period size: 102 Copynumber: 2.0 Consensus size: 104
55360 CATTTATCAA
* *
55370 TTTTAAATAGGATATTCAATTA-TTAAGGTTCAAGGATAAAATCATACCCGACACG-TTAGAGCA
1 TTTTAAATAGGATATTCAATTACTT-AGGTTCAAAGA-AAAATCATACCCAACACGTTTAG-GCA
* * * *
55433 TAATTTCTCGAGTTC-CTTAAATAAAA-AA-ATTGCCTCGAT
63 CAATTTATCGAATTCTCTAAAATAAAATAATATTGCCTCGAT
* *
55472 TTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATTATACTCAACACGTTTAGGCACAA
1 TTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAACACGTTTAGGCACAA
*
55537 TTTATCGAATTCTCTAAAATAAAATAATATTGTCTCGAT
66 TTTATCGAATTCTCTAAAATAAAATAATATTGCCTCGAT
55576 TT
1 TT
55578 AGAAATTTAC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
101 30 0.33
102 46 0.50
103 4 0.04
104 12 0.13
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (104 bp):
TTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAACACGTTTAGGCACAA
TTTATCGAATTCTCTAAAATAAAATAATATTGCCTCGAT
Found at i:57424 original size:17 final size:17
Alignment explanation
Indices: 57381--57428 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
57371 CAAAATGGAC
57381 TTTGGTTTATTATTTATT
1 TTTGGTTTATT-TTTATT
**
57399 TTTCTTTTATTTTT-TGT
1 TTTGGTTTATTTTTAT-T
57416 TTTGGTTTATTTT
1 TTTGGTTTATTTT
57429 GTACTAGGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 15 0.60
18 9 0.36
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.77
Consensus pattern (17 bp):
TTTGGTTTATTTTTATT
Found at i:60308 original size:12 final size:12
Alignment explanation
Indices: 60291--60315 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60281 AGTAAAAATC
60291 ATGCCCAAGAAA
1 ATGCCCAAGAAA
60303 ATGCCCAAGAAA
1 ATGCCCAAGAAA
60315 A
1 A
60316 GCAGAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.16, T:0.08
Consensus pattern (12 bp):
ATGCCCAAGAAA
Found at i:66395 original size:35 final size:37
Alignment explanation
Indices: 66349--66445 Score: 126
Period size: 35 Copynumber: 2.6 Consensus size: 37
66339 GAAGACTTGG
66349 TGTTTAAAAGGAAGACTTATGTCTCG-GTAGAG-GAT
1 TGTTTAAAAGGAAGACTTATGTCTCGAGTAGAGAGAT
*
66384 TGTTTAAAAGGAAGACTTATGTCTCGATTAGAGCATAAGAT
1 TGTTTAAAAGGAAGACTTATGTCTCGAGTAGAG----AGAT
*
66425 TGATTAAAAGGAAGACTTATG
1 TGTTTAAAAGGAAGACTTATG
66446 ACTTGGCAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
35 26 0.48
36 5 0.09
41 23 0.43
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (37 bp):
TGTTTAAAAGGAAGACTTATGTCTCGAGTAGAGAGAT
Found at i:66463 original size:41 final size:41
Alignment explanation
Indices: 66381--66494 Score: 113
Period size: 41 Copynumber: 2.7 Consensus size: 41
66371 CTCGGTAGAG
* * * ***
66381 GATTGTTTAAAAGGAAGACTTATGTCTCGATTAGAGCATAA
1 GATTGATTAAAAGGAAGACTTATGACTTGGCAAGAGCATAA
*
66422 GATTGATTAAAAGGAAGACTTATGACTTGGCAAGAGTATAA
1 GATTGATTAAAAGGAAGACTTATGACTTGGCAAGAGCATAA
* *
66463 GATT-ATTGTAAATGGAAGAACTTATAACTTGG
1 GATTGA-T-TAAAAGGAAG-ACTTATGACTTGG
66495 TTGGAGCATA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
40 1 0.02
41 39 0.64
42 9 0.15
43 12 0.20
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (41 bp):
GATTGATTAAAAGGAAGACTTATGACTTGGCAAGAGCATAA
Found at i:70201 original size:29 final size:28
Alignment explanation
Indices: 70153--70216 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
70143 TTATTTTTTG
*
70153 TATATTTAAAATTTAGTCTTTTTACTT-T
1 TATATTTAAAATTTAGTC-TTTTAATTGT
70181 TATATTTATGAAA-TTAGTCTTTTAATTGT
1 TATATTTA--AAATTTAGTCTTTTAATTGT
70210 TATATTT
1 TATATTT
70217 CAACATTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 15 0.47
29 14 0.44
30 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (28 bp):
TATATTTAAAATTTAGTCTTTTAATTGT
Found at i:85740 original size:80 final size:80
Alignment explanation
Indices: 85625--85906 Score: 334
Period size: 80 Copynumber: 3.5 Consensus size: 80
85615 AGTTTAACTG
* * *
85625 ACTAGAGCTG-GATTCACTTTTGTGGTTTATTCGCTAGACACTAGGTGCTAAGATTTGACAGATA
1 ACTAGAGCTGAG-CTCACTTTTGCGGTTTATTCGCTAGGCACTAGGTGCTAAGATTTGACAGATA
85689 TTTGTTGGTTAATCCA
65 TTTGTTGGTTAATCCA
* * * * *
85705 ACTAGAGCTAAGTTCACTTTTACGGTTTATTCGCTAGGCA-TTGAGTGCTAGGATTTGACAGATA
1 ACTAGAGCTGAGCTCACTTTTGCGGTTTATTCGCTAGGCACTAG-GTGCTAAGATTTGACAGATA
85769 TTTGTTGGTTAATCCA
65 TTTGTTGGTTAATCCA
* * * * * * ** *
85785 ACTAGAGCTGGGCTCACTTTCGCGGTTTATGCACTAGGCACTGGGTGCCAAGATTTGATGGATAC
1 ACTAGAGCTGAGCTCACTTTTGCGGTTTATTCGCTAGGCACTAGGTGCTAAGATTTGACAGATAT
85850 TTGTTGGTTAATCCA
66 TTGTTGGTTAATCCA
* ** * *
85865 ACTAAAGCTGAGCTCACTTTTGCATTTTATCCGCTAAGCACT
1 ACTAGAGCTGAGCTCACTTTTGCGGTTTATTCGCTAGGCACT
85907 GGATACTAAG
Statistics
Matches: 172, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.01
80 167 0.97
81 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (80 bp):
ACTAGAGCTGAGCTCACTTTTGCGGTTTATTCGCTAGGCACTAGGTGCTAAGATTTGACAGATAT
TTGTTGGTTAATCCA
Found at i:87683 original size:23 final size:23
Alignment explanation
Indices: 87630--88137 Score: 611
Period size: 23 Copynumber: 22.3 Consensus size: 23
87620 GTTCTATATC
*
87630 TATGCTTAAATATT-ATGTGATT
1 TATGCTTAAATATTAATATGATT
* **
87652 TGTATTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* *
87675 TATGATTAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
* * *
87698 TGTGCTTAAGTA-TATATGTGATT
1 TATGCTTAAATATTA-ATATGATT
*
87721 TATGGTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* *
87744 TATGCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
*
87767 TGTGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* * *
87790 TGTGCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
*
87813 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
*
87836 TATGCTCAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
*
87859 TATGATTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* * * *
87882 TGTGCTTAATTATTAATGTTATT
1 TATGCTTAAATATTAATATGATT
87905 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* *
87928 TATGCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
*
87951 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
* *
87974 TGTGCTCAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* *
87997 TATGCTTAAGTATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
88020 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* *
88043 TGT-ATTCAAATATTAATATGATT
1 TATGCTT-AAATATTAATATGATT
88066 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* *
88089 TGTGCTT-AA-A-T-A-GTGATT
1 TATGCTTAAATATTAATATGATT
88107 TATGCTTAAATATTAATGAT-ATT
1 TATGCTTAAATATTAAT-ATGATT
*
88130 TGTGCTTA
1 TATGCTTA
88138 CTTAGTAATG
Statistics
Matches: 416, Mismatches: 59, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.03
19 3 0.01
20 2 0.00
21 2 0.00
22 18 0.04
23 375 0.90
24 5 0.01
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (23 bp):
TATGCTTAAATATTAATATGATT
Found at i:88107 original size:18 final size:17
Alignment explanation
Indices: 88080--88119 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
88070 CTTAAATATT
*
88080 AATATGATTTGTGCTTA
1 AATATGATTTATGCTTA
88097 AATAGTGATTTATGCTTA
1 AATA-TGATTTATGCTTA
88115 AATAT
1 AATAT
88120 TAATGATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (17 bp):
AATATGATTTATGCTTA
Found at i:89728 original size:38 final size:38
Alignment explanation
Indices: 89677--89750 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
89667 TCTGTTGACT
89677 TTAATTGTGTATGGAAGTACCTATTAATGTTAGATCCA
1 TTAATTGTGTATGGAAGTACCTATTAATGTTAGATCCA
89715 TTAATTGTGTATGGAAGTACCTATTAATGTTAGATC
1 TTAATTGTGTATGGAAGTACCTATTAATGTTAGATC
89751 TACTTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (38 bp):
TTAATTGTGTATGGAAGTACCTATTAATGTTAGATCCA
Found at i:95603 original size:3 final size:3
Alignment explanation
Indices: 95597--95628 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
95587 ACTACAACAA
95597 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
95629 TGATGGTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:95890 original size:11 final size:11
Alignment explanation
Indices: 95876--95900 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
95866 AAAAAAATGG
95876 AAAACAAAACA
1 AAAACAAAACA
95887 AAAACAAAACA
1 AAAACAAAACA
95898 AAA
1 AAA
95901 CAATGATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAACA
Found at i:100150 original size:60 final size:59
Alignment explanation
Indices: 100007--100150 Score: 139
Period size: 60 Copynumber: 2.4 Consensus size: 59
99997 GGAATGACTT
* * * * * *
100007 TGCACCGCCGCACCAACCAGGATATGCTGCTGCATTGCCTCACCAACTCGGATATGGGGC
1 TGCACC-CAGCACCAACCAGGATATGCAGCTACATTACCTCACCAACTCGGATACGGGCC
* * *
100067 TGCACCCATGCACCAAGCTGGATATGGAGCTACATTACCGT-ACCAAC-CAGGATACGGGCC
1 TGCACCCA-GCACCAACCAGGATATGCAGCTACATTACC-TCACCAACTC-GGATACGGGCC
*
100127 TGCACCACAGCACCAACCGGGATA
1 TGCACC-CAGCACCAACCAGGATA
100151 CGGGGCTGCA
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
59 2 0.03
60 64 0.93
61 3 0.04
ACGTcount: A:0.26, C:0.34, G:0.24, T:0.16
Consensus pattern (59 bp):
TGCACCCAGCACCAACCAGGATATGCAGCTACATTACCTCACCAACTCGGATACGGGCC
Found at i:104428 original size:76 final size:76
Alignment explanation
Indices: 104302--104454 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
104292 ACTTGTGATC
104302 AACATCTACCCTTTAATAGATCTGCAAAATGCAAAGGATTAATTACTGGAATCGTATAGACACAT
1 AACATCTACCCTTTAATAGATCTGCAAAATGCAAAGGATTAATTACTGGAATCGTATAGACACAT
104367 TAAAGATTAGT
66 TAAAGATTAGT
* *
104378 AACATCTACCCTTTAATAGATGTGCAAAATGCAAAGGATTAATTACTGGAATCGTATAGATACAT
1 AACATCTACCCTTTAATAGATCTGCAAAATGCAAAGGATTAATTACTGGAATCGTATAGACACAT
104443 TAAAGATTAGT
66 TAAAGATTAGT
104454 A
1 A
104455 TTTTGTTCTA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (76 bp):
AACATCTACCCTTTAATAGATCTGCAAAATGCAAAGGATTAATTACTGGAATCGTATAGACACAT
TAAAGATTAGT
Found at i:105893 original size:23 final size:24
Alignment explanation
Indices: 105837--105944 Score: 148
Period size: 23 Copynumber: 4.6 Consensus size: 24
105827 TCATTAACAT
105837 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* **
105861 TGTTCATGAACATGTTCGCTTA-A
1 TGTTCGTGAACATGTTCAATTATA
**
105884 TGTTCGTGAACATGTTCGCTTA-A
1 TGTTCGTGAACATGTTCAATTATA
105907 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
*
105931 TGTTCATGAACATG
1 TGTTCGTGAACATG
105945 AACATACATA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
23 43 0.57
24 33 0.43
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:105900 original size:12 final size:12
Alignment explanation
Indices: 105832--105923 Score: 59
Period size: 12 Copynumber: 7.8 Consensus size: 12
105822 ATTATTCATT
105832 AACATTGTTCGTG
1 AACA-TGTTCGTG
*
105845 AACATGTTCAAT-
1 AACATGTTC-GTG
* * *
105857 TATATGTTCATG
1 AACATGTTCGTG
105869 AACATGTTCGCT-
1 AACATGTTCG-TG
*
105881 TA-ATGTTCGTG
1 AACATGTTCGTG
105892 AACATGTTCGCT-
1 AACATGTTCG-TG
*
105904 TA-ATGTTCGTG
1 AACATGTTCGTG
105915 AACATGTTC
1 AACATGTTC
105924 AATTATATGT
Statistics
Matches: 61, Mismatches: 10, Indels: 17
0.69 0.11 0.19
Matches are distributed among these distances:
10 2 0.03
11 18 0.30
12 34 0.56
13 7 0.11
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (12 bp):
AACATGTTCGTG
Found at i:108883 original size:2 final size:2
Alignment explanation
Indices: 108876--108915 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
108866 GGTTGTGGGG
*
108876 TA TA TA TA T- TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108916 GAAGTTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:109231 original size:19 final size:19
Alignment explanation
Indices: 109207--109251 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
109197 ACCTGTTTAT
109207 GGGCCGAGCTATTTGCACA
1 GGGCCGAGCTATTTGCACA
109226 GGGCCGAGCTATTTGCACA
1 GGGCCGAGCTATTTGCACA
*
109245 GGCCCGA
1 GGGCCGA
109252 AGGCCTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (19 bp):
GGGCCGAGCTATTTGCACA
Found at i:110196 original size:16 final size:17
Alignment explanation
Indices: 110166--110198 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
110156 AATAAATTTC
110166 TTTTTAAAATATTTATT
1 TTTTTAAAATATTTATT
*
110183 TTTTTAATAT-TTTATT
1 TTTTTAAAATATTTATT
110199 ATGCCCTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTAAAATATTTATT
Found at i:111538 original size:15 final size:15
Alignment explanation
Indices: 111520--111556 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
111510 TTTTTTTTTT
*
111520 TCAAATTGAGTCGAG
1 TCAAATTGAATCGAG
111535 TCAAATTGAATCGAG
1 TCAAATTGAATCGAG
*
111550 TGAAATT
1 TCAAATT
111557 ATTTGAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (15 bp):
TCAAATTGAATCGAG
Found at i:111651 original size:16 final size:16
Alignment explanation
Indices: 111630--111660 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111620 CATGTTAGAG
111630 CATATAGATTTGAAAT
1 CATATAGATTTGAAAT
*
111646 CATATATATTTGAAA
1 CATATAGATTTGAAA
111661 ACTTTTTCAA
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:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (16 bp):
CATATAGATTTGAAAT
Found at i:111836 original size:18 final size:19
Alignment explanation
Indices: 111815--111853 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
111805 TAAATTTTGA
111815 AATTTTT-ATAAA-TATTTT
1 AATTTTTGA-AAATTATTTT
111833 AATTTTTGAAAATTATTTT
1 AATTTTTGAAAATTATTTT
111852 AA
1 AA
111854 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
AATTTTTGAAAATTATTTT
Found at i:118349 original size:148 final size:148
Alignment explanation
Indices: 118081--118376 Score: 333
Period size: 148 Copynumber: 2.0 Consensus size: 148
118071 AAGAAATTTC
* * *
118081 ATCTCACTCACTAAAGTTTAATATTGCTTATACAAGTGTCATGGGATTAAAACTTTAATCTCGCA
1 ATCTCACTCACTAAAGTTTAATATTGCTTATACAAGTGTCACGGGACTAAAACTTTAATCTCACA
** * * *** * *
118146 AACCGTGCGTCTTTAAACGATTCCTTTATTTCAAACACGTTTAAATCAACCTAACCACTAATAAT
66 AACCGTGCAACCTTAAACGATTCCTTCATTTCAAACACACCTAAATCAACCTAACCACCAACAAT
* *
118211 TGAGGAGTCACCCAGAAT
131 TGAGAAGTCACACAGAAT
* * * *
118229 ATCTCACTTACTAAAGTTTAATATTG-TTGATACAAGTGTCACGGGACTAGAATTTTAGTCTCAC
1 ATCTCACTCACTAAAGTTTAATATTGCTT-ATACAAGTGTCACGGGACTAAAACTTTAATCTCAC
** ** * * **
118293 AATGCGTGCAACCTTAGGCGATTCCTTCGTTTCAAACACACCTAAGTCAGTCTAACCACCAACAA
65 AAACCGTGCAACCTTAAACGATTCCTTCATTTCAAACACACCTAAATCAACCTAACCACCAACAA
*
118358 TTGAGAATTCACACAGAAT
130 TTGAGAAGTCACACAGAAT
118377 TCCTCCAATA
Statistics
Matches: 120, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
147 2 0.02
148 118 0.98
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (148 bp):
ATCTCACTCACTAAAGTTTAATATTGCTTATACAAGTGTCACGGGACTAAAACTTTAATCTCACA
AACCGTGCAACCTTAAACGATTCCTTCATTTCAAACACACCTAAATCAACCTAACCACCAACAAT
TGAGAAGTCACACAGAAT
Found at i:128033 original size:2 final size:2
Alignment explanation
Indices: 128026--128050 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
128016 AACTAATCCT
128026 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
128051 TAATAATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:130194 original size:29 final size:28
Alignment explanation
Indices: 130132--130196 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
130122 AAAGAACCCC
* *
130132 AATTTTTATTTTATTTTATTACTAATAT
1 AATTTTTATTGTATTGTATTACTAATAT
**
130160 ATATTTTTATTGTATTGTATTACATTTTAT
1 A-ATTTTTATTGTATTGTATTAC-TAATAT
130190 AATTTTT
1 AATTTTT
130197 TTTAAAAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 25 0.81
30 5 0.16
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (28 bp):
AATTTTTATTGTATTGTATTACTAATAT
Found at i:131200 original size:2 final size:2
Alignment explanation
Indices: 131193--131217 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
131183 AAGTAACATG
131193 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
131218 TATGATCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:131336 original size:22 final size:21
Alignment explanation
Indices: 131301--131342 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
131291 ACTTGAAGGA
* *
131301 ATTAAGATGCAATTGTTTATG
1 ATTAACATGCAATTATTTATG
131322 ATTAACATGACAATTATTTAT
1 ATTAACATG-CAATTATTTAT
131343 TCCAATTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (21 bp):
ATTAACATGCAATTATTTATG
Found at i:138809 original size:32 final size:28
Alignment explanation
Indices: 138766--138824 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
138756 CCAAATAAGT
138766 CCACTTTCACTCCCAACTGCCTTTATTTTC
1 CCACTTTCACTCCCAA-T-CCTTTATTTTC
*
138796 CCACTCTTACACTCTCAATCCTTTATTTT
1 CCACT-TT-CACTCCCAATCCTTTATTTT
138825 GATGCTATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 15 0.58
31 3 0.12
32 8 0.31
ACGTcount: A:0.19, C:0.37, G:0.02, T:0.42
Consensus pattern (28 bp):
CCACTTTCACTCCCAATCCTTTATTTTC
Found at i:151571 original size:24 final size:24
Alignment explanation
Indices: 151544--151595 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
151534 CAACAGGGGC
* *
151544 AGAAACAACTTCAGTGGCTGAAAA
1 AGAAACAACTTCAATGACTGAAAA
**
151568 AGAAACGTCTTCAATGACTGAAAA
1 AGAAACAACTTCAATGACTGAAAA
151592 AGAA
1 AGAA
151596 GCGTCGTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.17
Consensus pattern (24 bp):
AGAAACAACTTCAATGACTGAAAA
Found at i:151600 original size:24 final size:24
Alignment explanation
Indices: 151552--151600 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
151542 GCAGAAACAA
* *
151552 CTTCAGTGGCTGAAAAAGAAACGT
1 CTTCAATGACTGAAAAAGAAACGT
*
151576 CTTCAATGACTGAAAAAGAAGCGT
1 CTTCAATGACTGAAAAAGAAACGT
151600 C
1 C
151601 GTCAGCAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (24 bp):
CTTCAATGACTGAAAAAGAAACGT
Found at i:151643 original size:24 final size:24
Alignment explanation
Indices: 151607--151681 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
151597 CGTCGTCAGC
151607 AACATCTTCAATGGCTGAAAAAGA
1 AACATCTTCAATGGCTGAAAAAGA
* *
151631 AACGTCTTCAATGGCTGAACAAGA
1 AACATCTTCAATGGCTGAAAAAGA
*
151655 AACATCTTCAATGGCTGAGGAAAGA
1 AACATCTTCAATGGCTGA-AAAAGA
151680 AA
1 AA
151682 GGCATCAGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 39 0.87
25 6 0.13
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (24 bp):
AACATCTTCAATGGCTGAAAAAGA
Found at i:162999 original size:15 final size:14
Alignment explanation
Indices: 162972--163007 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
162962 GAAGAGTGTG
162972 TATTTTA-CGAAAAA
1 TATTTTATCG-AAAA
162986 TATTTTATCGAAAA
1 TATTTTATCGAAAA
163000 TATTTTAT
1 TATTTTAT
163008 TTTTTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.90
15 2 0.10
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
TATTTTATCGAAAA
Found at i:166584 original size:25 final size:24
Alignment explanation
Indices: 166526--166585 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
166516 ATATTATATT
*
166526 AAAATTAAA-TTATAAATTTTACA
1 AAAAATAAATTTATAAATTTTACA
*
166549 AAAAATAAATTTATAATTTTTACCA
1 AAAAATAAATTTATAAATTTTA-CA
* *
166574 AATAATCAATTT
1 AAAAATAAATTT
166586 GTTTAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 8 0.26
24 11 0.35
25 12 0.39
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAAATAAATTTATAAATTTTACA
Found at i:166965 original size:2 final size:2
Alignment explanation
Indices: 166958--166982 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
166948 AGGACCTGAT
166958 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
166983 CAGGGGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:173742 original size:6 final size:6
Alignment explanation
Indices: 173731--173775 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
173721 ACCCAAACAG
* *
173731 AATTTA AATTTA AATTT- ATTTTA AGTTTA AATTT- -ATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
173776 CTAATGTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.12
5 4 0.12
6 25 0.76
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (6 bp):
AATTTA
Found at i:173759 original size:17 final size:17
Alignment explanation
Indices: 173733--173775 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
173723 CCAAACAGAA
173733 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
173750 TTTAAGTTTAAATTTA-
1 TTTAAATTTAAATTTAT
173766 TTTAAATTTA
1 TTTAAATTTA
173776 CTAATGTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:175375 original size:29 final size:29
Alignment explanation
Indices: 175291--175669 Score: 259
Period size: 29 Copynumber: 12.9 Consensus size: 29
175281 CCCAAAAGGT
* *
175291 CCCCGAACTTTCCAAAAATCACATTTTCAC
1 CCCCAAAC-TTCCAAAAATCACATTTTTAC
* * * * * * *
175321 CCTCGAATTTCTCCAAAATTATATTTTTGC
1 CCCCAAACTTC-CAAAAATCACATTTTTAC
175351 CCCCAAACTTCCAAAAATCACATTTTTAC
1 CCCCAAACTTCCAAAAATCACATTTTTAC
* *
175380 CCTCAAACTTCTAAAAATCACATTTTTAC
1 CCCCAAACTTCCAAAAATCACATTTTTAC
* * * * *
175409 CCTCGAATTTCTCCAAAATTACATTTTTAC
1 CCCCAAACTTC-CAAAAATCACATTTTTAC
* *
175439 CCTCAAACTTCTAAAAAAT-ACATTTTTAC
1 CCCCAAACTTC-CAAAAATCACATTTTTAC
* *
175468 CCCCGAACTTTTCC-AAAATTACATTTTTA-
1 CCCCAAAC--TTCCAAAAATCACATTTTTAC
* * * *
175497 CCCTATACTTCCAAAAATCATATTTTTGTGC
1 CCCCAAACTTCCAAAAATCACA-TTTT-TAC
* *
175528 CTCTAAACTTCCAAAAATCACATTTTTAC
1 CCCCAAACTTCCAAAAATCACATTTTTAC
*** *
175557 CCTTGAACTTCTCAAAAA-CTACA-TTTTGC
1 CCCCAAACTTC-CAAAAATC-ACATTTTTAC
*
175586 CTCCAAACTTCCAAAAATCACA-TTTTA-
1 CCCCAAACTTCCAAAAATCACATTTTTAC
* * *
175613 CCCCAAACTTTCCAAAAATTATATTTTTGC
1 CCCCAAAC-TTCCAAAAATCACATTTTTAC
* * * *
175643 CCTCAAACATGCAAAAATTACCATTTT
1 CCCCAAACTTCCAAAAATCA-CATTTT
175670 ATCACCGAAC
Statistics
Matches: 278, Mismatches: 55, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
27 11 0.04
28 32 0.12
29 121 0.44
30 92 0.33
31 22 0.08
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCCAAACTTCCAAAAATCACATTTTTAC
Found at i:175455 original size:88 final size:88
Alignment explanation
Indices: 175303--175735 Score: 322
Period size: 88 Copynumber: 4.9 Consensus size: 88
175293 CCGAACTTTC
* * * * * * *
175303 CAAAAATCACATTTTCACCCTCGAATTTCTCCAAAATTATATTTTTGCCCCCAAACTTCCAAAAA
1 CAAAAATCACATTTTTACCCTCGAACTTC-CAAAAATCACATTTTTACCCTCAAACTTCCAAAAA
175368 TCACATTTTTACCCTCAAACTTCT
65 TCACATTTTTACCCTCAAACTTCT
* * * *
175392 -AAAAATCACATTTTTACCCTCGAATTTCTCCAAAATTACATTTTTACCCTCAAACTTCTAAAAA
1 CAAAAATCACATTTTTACCCTCGAACTTC-CAAAAATCACATTTTTACCCTCAAACTTC-CAAAA
* * *
175456 AT-ACATTTTTACCCCCGAACTTTT
64 ATCACATTTTTACCCTCAAACTTCT
* * * **
175480 CCAAAATTACATTTTTACCCT--ATACTTCCAAAAATCATATTTTTGTGCCTCTAAACTTCCAAA
1 CAAAAATCACATTTTTACCCTCGA-ACTTCCAAAAATCACATTTTT-ACCCTC-AAACTTCCAAA
**
175543 AATCACATTTTTACCCTTGAACTTCT
63 AATCACATTTTTACCCTCAAACTTCT
* *
175569 CAAAAA-CTACA-TTTT-GCCTCCAAACTTCCAAAAATCACA-TTTTACCC-CAAACTTTCCAAA
1 CAAAAATC-ACATTTTTACCCT-CGAACTTCCAAAAATCACATTTTTACCCTCAAAC-TTCCAAA
* * * * *
175629 AATTATATTTTTGCCCTCAAACAT-G
63 AATCACATTTTTACCCTCAAACTTCT
* * * *
175654 CAAAAATTACCA-TTTTATCAC-CGAACATCCAAAAATTTC-CA-TTTTCCCCTC-AACTTTCC-
1 CAAAAATCA-CATTTTTA-CCCTCGAACTTCCAAAAA--TCACATTTTTACCCTCAAAC-TTCCA
* *
175713 AAAATCACATTTTCAACCTCAAA
61 AAAATCACATTTTTACCCTCAAA
175736 TTTTCCAAAA
Statistics
Matches: 282, Mismatches: 44, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
85 11 0.04
86 62 0.22
87 36 0.13
88 99 0.35
89 73 0.26
90 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (88 bp):
CAAAAATCACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAAT
CACATTTTTACCCTCAAACTTCT
Found at i:175537 original size:89 final size:88
Alignment explanation
Indices: 175354--175611 Score: 240
Period size: 89 Copynumber: 2.9 Consensus size: 88
175344 TTTTTGCCCC
* * * *
175354 CAAACTTCCAAAAATCACATTTTTACCCTCAAACTTCT-AAAAA-TCACATTTTTACC-CTCGAA
1 CAAACTTCAAAAAATCACATTTTTACCCCCGAACTTCTCAAAAACT-ACA-TTTTACCTC-CAAA
* * * **
175416 TTTCTCCAAAATTACATTTTT-ACCCT
63 CTTC-CAAAAATCACATTTTTGTGCCT
* * * * *
175442 CAAACTTCTAAAAAAT-ACATTTTTACCCCCGAACTTTTCCAAAATTACATTTTTACC-CTATAC
1 CAAACTTC-AAAAAATCACATTTTTACCCCCGAACTTCTCAAAAACTACA-TTTTACCTCCAAAC
*
175505 TTCCAAAAATCATATTTTTGTGCCT
64 TTCCAAAAATCACATTTTTGTGCCT
* ** *
175530 CTAAACTTCCAAAAATCACATTTTTACCCTTGAACTTCTCAAAAACTACATTTTGCCTCCAAACT
1 C-AAACTTCAAAAAATCACATTTTTACCCCCGAACTTCTCAAAAACTACATTTTACCTCCAAACT
175595 TCCAAAAATCACATTTT
65 TCCAAAAATCACATTTT
175612 ACCCCAAACT
Statistics
Matches: 139, Mismatches: 24, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
87 13 0.09
88 47 0.34
89 78 0.56
90 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.35
Consensus pattern (88 bp):
CAAACTTCAAAAAATCACATTTTTACCCCCGAACTTCTCAAAAACTACATTTTACCTCCAAACTT
CCAAAAATCACATTTTTGTGCCT
Found at i:175668 original size:58 final size:58
Alignment explanation
Indices: 175300--175745 Score: 347
Period size: 59 Copynumber: 7.6 Consensus size: 58
175290 TCCCCGAACT
* * * * * *
175300 TTCCAAAAATCACATTTTCACCCTCGAATTTCTCCAAAATTATATTTTTGCCCCCAAAC
1 TTCCAAAAATCACATTTTTACCCTCAAACTTC-CAAAAATTACATTTTTGCCCTCAAAC
* * * * *
175359 TTCCAAAAATCACATTTTTACCCTCAAACTTCTAAAAATCACATTTTTACCCTCGAAT
1 TTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTGCCCTCAAAC
* * * * * * *
175417 TTCTCCAAAATTACATTTTTACCCTCAAACTTCTAAAAAATACATTTTTACCCCCGAAC
1 TTC-CAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTGCCCTCAAAC
* * * * *
175476 TTTTCC-AAAATTACATTTTTACCCT-ATACTTCCAAAAATCATATTTTTGTGCCTCTAAAC
1 --TTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTG-CCCTC-AAAC
** *
175536 TTCCAAAAATCACATTTTTACCCTTGAACTTCTCAAAAACTACA-TTTTG-CCTCCAAAC
1 TTCCAAAAATCACATTTTTACCCTCAAACTTC-CAAAAATTACATTTTTGCCCT-CAAAC
*
175594 TTCCAAAAATCACA-TTTTACCC-CAAACTTTCCAAAAATTATATTTTTGCCCTCAAAC
1 TTCCAAAAATCACATTTTTACCCTCAAAC-TTCCAAAAATTACATTTTTGCCCTCAAAC
* * * * * * * *
175651 ATGCAAAAATTACCA-TTTTATCAC-CGAACATCCAAAAATTTCCA-TTTTCCCCTC-AAC
1 TTCCAAAAATCA-CATTTTTA-CCCTCAAACTTCCAAAAA-TTACATTTTTGCCCTCAAAC
* * *
175708 TTTCC-AAAATCACATTTTCAACCTCAAATTTTCCAAAA
1 -TTCCAAAAATCACATTTTTACCCTCAAA-CTTCCAAAA
175746 GTTCAATTTT
Statistics
Matches: 314, Mismatches: 54, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
56 15 0.05
57 46 0.15
58 100 0.32
59 128 0.41
60 14 0.04
61 11 0.04
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.34
Consensus pattern (58 bp):
TTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTGCCCTCAAAC
Found at i:175740 original size:29 final size:28
Alignment explanation
Indices: 175708--175797 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 28
175698 TCCCCTCAAC
175708 TTTCCAAAA-TCACATTTTCAA-CCTCAAAT
1 TTTCCAAAAGTCA-ATTTT-AATCC-CAAAT
175737 TTTCCAAAAGTTCAATTTTAATCCCAAAT
1 TTTCCAAAAG-TCAATTTTAATCCCAAAT
* * *
175766 TTTCTAAAAAATTCAATTTTGATCCCTAAAT
1 TTTC--CAAAAGTCAATTTTAATCCC-AAAT
175797 T
1 T
175798 CCTTGAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
29 20 0.38
30 20 0.38
31 12 0.23
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (28 bp):
TTTCCAAAAGTCAATTTTAATCCCAAAT
Found at i:175781 original size:30 final size:29
Alignment explanation
Indices: 175732--175797 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
175722 TTTTCAACCT
* *
175732 CAAATTTTCCAAAAGTTCAATTTTAATCC
1 CAAATTTTCAAAAAATTCAATTTTAATCC
*
175761 CAAATTTTCTAAAAAATTCAATTTTGATCC
1 CAAATTTTC-AAAAAATTCAATTTTAATCC
175791 CTAAATT
1 C-AAATT
175798 CCTTGAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 9 0.28
30 18 0.56
31 5 0.16
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (29 bp):
CAAATTTTCAAAAAATTCAATTTTAATCC
Found at i:187050 original size:39 final size:38
Alignment explanation
Indices: 186999--187088 Score: 110
Period size: 38 Copynumber: 2.3 Consensus size: 38
186989 GATTGAAGAT
* * *
186999 CCGATCTTTTACCCCAAGCCTGGGGA-AGATTACCATCAA
1 CCGATCTCTTACCACAAGCCT--GGACAGATCACCATCAA
*
187038 CCGATCTCTTACCACGAGCCTGGACAGATCACCATCAA
1 CCGATCTCTTACCACAAGCCTGGACAGATCACCATCAA
*
187076 CCAATCTCTTACC
1 CCGATCTCTTACC
187089 TCGAGCCTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 3 0.07
38 24 0.53
39 18 0.40
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.22
Consensus pattern (38 bp):
CCGATCTCTTACCACAAGCCTGGACAGATCACCATCAA
Found at i:187133 original size:39 final size:39
Alignment explanation
Indices: 187079--187495 Score: 204
Period size: 39 Copynumber: 10.7 Consensus size: 39
187069 CCATCAACCA
* * * *
187079 ATCTCTTACCTCGAGCCTAGGGCAAATTGCAACCATTCG
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCG
**
187118 ATCTTTTACCCCGAGCCTAGGGTGGA-T-CA-CC-TTCAG
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTC-G
* * * *
187154 CCAATCTCTTACCCCGAGCTTGGGGCATATTGCAGCCATTCG
1 ---ATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCG
* * * ** *
187196 ATCTTTTACCCCGAG-CTTGGGATAGA-T-CACCTTCAACCA
1 ATCTTTTACCCCGAGCCTAGGG-CAGATTGCAGC--CATTCG
* ** * * * *
187235 ATCTCTTACCCTAAG-GTTGGGACAGATTGCAGTCATTCA
1 ATCTTTTACCCCGAGCCTAGGG-CAGATTGCAGCCATTCG
* * *
187274 ATCTTTTACCCCGAGCTTAGGACGGA-T-CA-CC-TTCAG
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTC-G
* * *
187310 CCAATCTTTTACCCCGAGCCTGGGGCAAATTGCAGCCATTTG
1 ---ATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCG
*
187352 ATCTTTTACCCCGAG-CTTGGGACAGA-T-CA-CCA-TCAG
1 ATCTTTTACCCCGAGCCTAGGG-CAGATTGCAGCCATTC-G
* * *
187388 CCAATCTTTTATCCCGAG-CTTGAGACAGATTGCAGCCATTCG
1 ---ATCTTTTACCCCGAGCCTAG-GGCAGATTGCAGCCATTCG
* * *
187430 ATCTTTTACCCCGAGCCTAGGGTAGATTACAGCCATTCA
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCG
* *
187469 ATCTTTTACCCCGAGCTTGGGGCAGAT
1 ATCTTTTACCCCGAGCCTAGGGCAGAT
187496 CATCATTAGC
Statistics
Matches: 287, Mismatches: 58, Indels: 66
0.70 0.14 0.16
Matches are distributed among these distances:
35 7 0.02
36 8 0.03
37 9 0.03
38 13 0.05
39 214 0.75
40 11 0.04
41 8 0.03
42 10 0.03
43 7 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (39 bp):
ATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCG
Found at i:187265 original size:156 final size:156
Alignment explanation
Indices: 187039--187492 Score: 592
Period size: 156 Copynumber: 2.9 Consensus size: 156
187029 TACCATCAAC
* * * *
187039 CGATCTCTTACCACGAGCCT-GGACAGATCACCATCAACCAATCTCTTA-CCTCGAGCCTAGGG-
1 CGATCTTTTACCCCGAGCTTGGGACAGATCACCATCAACCAATCTCTTACCCT-GAG-CTTGGGA
* * *
187101 CAAATTGCAACCATTCGATCTTTTACCCCGAGCCTAGGGTGGATCACCTTCAGCCAATCTCTTAC
64 CAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGTGGATCACCTTCAGCCAATCTTTTAC
*
187166 CCCGAGCTTGGGGCATATTGCAGCCATT
129 CCCGAGCTTGGGGCAAATTGCAGCCATT
* * * *
187194 CGATCTTTTACCCCGAGCTTGGGATAGATCACCTTCAACCAATCTCTTACCCTAAGGTTGGGACA
1 CGATCTTTTACCCCGAGCTTGGGACAGATCACCATCAACCAATCTCTTACCCTGAGCTTGGGACA
* * * **
187259 GATTGCAGTCATTCAATCTTTTACCCCGAGCTTAGGACGGATCACCTTCAGCCAATCTTTTACCC
66 GATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGTGGATCACCTTCAGCCAATCTTTTACCC
*
187324 CGAGCCTGGGGCAAATTGCAGCCATT
131 CGAGCTTGGGGCAAATTGCAGCCATT
* * * *
187350 TGATCTTTTACCCCGAGCTTGGGACAGATCACCATCAGCCAATCTTTTATCCC-GAGCTTGAGAC
1 CGATCTTTTACCCCGAGCTTGGGACAGATCACCATCAACCAATCTCTTA-CCCTGAGCTTGGGAC
* * *** **
187414 AGATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGTAGATTACAGCCATTCAATCTTTTACC
65 AGATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGTGGATCACCTTCAGCCAATCTTTTACC
187479 CCGAGCTTGGGGCA
130 CCGAGCTTGGGGCA
187493 GATCATCATT
Statistics
Matches: 256, Mismatches: 39, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
155 21 0.08
156 229 0.89
157 6 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (156 bp):
CGATCTTTTACCCCGAGCTTGGGACAGATCACCATCAACCAATCTCTTACCCTGAGCTTGGGACA
GATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGTGGATCACCTTCAGCCAATCTTTTACCC
CGAGCTTGGGGCAAATTGCAGCCATT
Found at i:187495 original size:78 final size:78
Alignment explanation
Indices: 187039--187495 Score: 488
Period size: 78 Copynumber: 5.9 Consensus size: 78
187029 TACCATCAAC
* * ** * * * * *
187039 CGATCTCTTACCACGAGCCT-GGACAGATCACCATCAACCAATCTCTTACCTCGAGCCTAGGGCA
1 CGATCTTTTACCCCGAGCCTAGGGTAGATCACCTTCAGCCAATCTCTTACCCCGAGCTTGGGGCA
* *
187103 AATTGCAACCATT
66 GATTGCAGCCATT
*
187116 CGATCTTTTACCCCGAGCCTAGGGTGGATCACCTTCAGCCAATCTCTTACCCCGAGCTTGGGGCA
1 CGATCTTTTACCCCGAGCCTAGGGTAGATCACCTTCAGCCAATCTCTTACCCCGAGCTTGGGGCA
*
187181 TATTGCAGCCATT
66 GATTGCAGCCATT
* * ** * *
187194 CGATCTTTTACCCCGAG-CTTGGGATAGATCACCTTCAACCAATCTCTTACCCTAAGGTTGGGAC
1 CGATCTTTTACCCCGAGCCTAGGG-TAGATCACCTTCAGCCAATCTCTTACCCCGAGCTTGGGGC
*
187258 AGATTGCAGTCATT
65 AGATTGCAGCCATT
* * *** * *
187272 CAATCTTTTACCCCGAGCTTAGGACGGATCACCTTCAGCCAATCTTTTACCCCGAGCCTGGGGCA
1 CGATCTTTTACCCCGAGCCTAGGGTAGATCACCTTCAGCCAATCTCTTACCCCGAGCTTGGGGCA
*
187337 AATTGCAGCCATT
66 GATTGCAGCCATT
* * * * * * * *
187350 TGATCTTTTACCCCGAG-CTTGGGACAGATCACCATCAGCCAATCTTTTATCCCGAGCTTGAGAC
1 CGATCTTTTACCCCGAGCCTAGGG-TAGATCACCTTCAGCCAATCTCTTACCCCGAGCTTGGGGC
187414 AGATTGCAGCCATT
65 AGATTGCAGCCATT
* *** ** *
187428 CGATCTTTTACCCCGAGCCTAGGGTAGATTACAGCCATTCAATCTTTTACCCCGAGCTTGGGGCA
1 CGATCTTTTACCCCGAGCCTAGGGTAGATCACCTTCAGCCAATCTCTTACCCCGAGCTTGGGGCA
187493 GAT
66 GAT
187496 CATCATTAGC
Statistics
Matches: 315, Mismatches: 60, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
77 26 0.08
78 281 0.89
79 8 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (78 bp):
CGATCTTTTACCCCGAGCCTAGGGTAGATCACCTTCAGCCAATCTCTTACCCCGAGCTTGGGGCA
GATTGCAGCCATT
Found at i:187518 original size:39 final size:41
Alignment explanation
Indices: 187155--187495 Score: 249
Period size: 39 Copynumber: 8.7 Consensus size: 41
187145 CACCTTCAGC
* * *
187155 CAATCTCTTACCCCGAGCTTGGGGCATATTGCAGCCATT--
1 CAATCTTTTACCCCGAGCTTGGGACAGATTGCAGCCATTAG
* * *
187194 CGATCTTTTACCCCGAGCTTGGGATAGA-T-CA-CC-TTCAAC
1 CAATCTTTTACCCCGAGCTTGGGACAGATTGCAGCCATT--AG
* ** * *
187233 CAATCTCTTACCCTAAGGTTGGGACAGATTGCAGTCATT--
1 CAATCTTTTACCCCGAGCTTGGGACAGATTGCAGCCATTAG
* *
187272 CAATCTTTTACCCCGAGCTTAGGACGGA-T-CA-CC-TTCAG
1 CAATCTTTTACCCCGAGCTTGGGACAGATTGCAGCCATT-AG
* * * *
187310 CCAATCTTTTACCCCGAGCCTGGGGCAAATTGCAGCCATTTG
1 -CAATCTTTTACCCCGAGCTTGGGACAGATTGCAGCCATTAG
*
187352 --ATCTTTTACCCCGAGCTTGGGACAGA-T-CA-CCATCAG
1 CAATCTTTTACCCCGAGCTTGGGACAGATTGCAGCCATTAG
* *
187388 CCAATCTTTTATCCCGAGCTTGAGACAGATTGCAGCCATT--
1 -CAATCTTTTACCCCGAGCTTGGGACAGATTGCAGCCATTAG
* * * *
187428 CGATCTTTTACCCCGAGCCTAGGG-TAGATTACAGCCATT--
1 CAATCTTTTACCCCGAG-CTTGGGACAGATTGCAGCCATTAG
*
187467 CAATCTTTTACCCCGAGCTTGGGGCAGAT
1 CAATCTTTTACCCCGAGCTTGGGACAGAT
187496 CATCATTAGC
Statistics
Matches: 236, Mismatches: 42, Indels: 48
0.72 0.13 0.15
Matches are distributed among these distances:
35 4 0.02
36 8 0.03
37 6 0.03
38 8 0.03
39 185 0.78
40 7 0.03
41 6 0.03
42 8 0.03
43 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
CAATCTTTTACCCCGAGCTTGGGACAGATTGCAGCCATTAG
Found at i:188019 original size:17 final size:17
Alignment explanation
Indices: 187991--188040 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
187981 CCAAACATAA
187991 TGTAAATTTAAATTTAT
1 TGTAAATTTAAATTTAT
* *
188008 TTTAAGTTTAAATTTAT
1 TGTAAATTTAAATTTAT
*
188025 TGTAAATTTAAGTTTA
1 TGTAAATTTAAATTTA
188041 CATTTATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (17 bp):
TGTAAATTTAAATTTAT
Found at i:188034 original size:23 final size:22
Alignment explanation
Indices: 188008--188056 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
187998 TTAAATTTAT
188008 TTTAAGTTTAAATTTATTGTAAA
1 TTTAAGTTTAAATTTATT-TAAA
*
188031 TTTAAGTTTACATTTATTTAAA
1 TTTAAGTTTAAATTTATTTAAA
188053 TTTA
1 TTTA
188057 CTAATTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTAAGTTTAAATTTATTTAAA
Found at i:188580 original size:58 final size:58
Alignment explanation
Indices: 188496--188615 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 58
188486 ACTCATCAAC
* *
188496 AAACTAAACTCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAA-AACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCAT
* *
188554 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAGCACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
188612 AAAC
1 AAAC
188616 AACTCCTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
57 3 0.05
58 54 0.95
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:189845 original size:3 final size:3
Alignment explanation
Indices: 189837--189864 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
189827 ATATTAAATA
189837 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
189865 TTTATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:190781 original size:29 final size:29
Alignment explanation
Indices: 190756--191022 Score: 161
Period size: 29 Copynumber: 9.2 Consensus size: 29
190746 CCAAAATTAT
*
190756 ATTTTTGCCCTTAAACTTCTAAAAATCAC
1 ATTTTTACCCTTAAACTTCTAAAAATCAC
** *
190785 ATTTTTACCCTCGAACTTTTAAAAATCAC
1 ATTTTTACCCTTAAACTTCTAAAAATCAC
* ** *
190814 A-TTTTACTCC-TAAATTTACCCAAAATTAC
1 ATTTTTAC-CCTTAAACTT-CTAAAAATCAC
* * *
190843 ATTTTTGCCCCTAAACTTCTGAAAATCAC
1 ATTTTTACCCTTAAACTTCTAAAAATCAC
** * * *
190872 ATTTTTACCCTCGAA-TATCTCCAAATTTAC
1 ATTTTTACCCTTAAACT-TCT-AAAAATCAC
* * *
190902 ATTTTTTCCC--ACACTTCCAAAAATCAC
1 ATTTTTACCCTTAAACTTCTAAAAATCAC
*
190929 ATTTTTATGCCC-TAAACTTCCAAAAAT-AC
1 ATTTTTA--CCCTTAAACTTCTAAAAATCAC
** * *
190958 ATTTTTACCCCCAAACTTATTAAAAATTAC
1 ATTTTTACCCTTAAACTT-CTAAAAATCAC
* * * *
190988 ATTTTTACCCTCAAACATCCAAAAATTACC
1 ATTTTTACCCTTAAACTTCTAAAAATCA-C
191018 ATTTT
1 ATTTT
191023 CAACCTCAAA
Statistics
Matches: 185, Mismatches: 39, Indels: 27
0.74 0.16 0.11
Matches are distributed among these distances:
27 15 0.08
28 20 0.11
29 87 0.47
30 63 0.34
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (29 bp):
ATTTTTACCCTTAAACTTCTAAAAATCAC
Found at i:190839 original size:58 final size:57
Alignment explanation
Indices: 190777--191022 Score: 189
Period size: 58 Copynumber: 4.2 Consensus size: 57
190767 TAAACTTCTA
* * *
190777 AAAATCACATTTTTACCCTCGAACTTTTAAAAATCACA-TTTTACTCCTAAATTTACCC
1 AAAATTACATTTTTACCC-CAAACTTCTAAAAATCACATTTTTACTCCTAAATTT-CCC
* * * *
190835 AAAATTACATTTTTGCCCCTAAACTTCTGAAAATCACATTTTTAC-CCTCGAATATCTCC
1 AAAATTACATTTTTACCCC-AAACTTCTAAAAATCACATTTTTACTCCT-AAATTTC-CC
* * * * *
190894 AAATTTACATTTTT-TCCCACACTTCCAAAAATCACATTTTTA-TGCCCTAAACTT-CC
1 AAAATTACATTTTTACCCCAAACTTCTAAAAATCACATTTTTACT--CCTAAATTTCCC
* * * ** *
190950 AAAAATACATTTTTACCCCCAAACTTATTAAAAATTACATTTTTAC-CCTCAAACATCCA
1 AAAATTACATTTTTA-CCCCAAACTT-CTAAAAATCACATTTTTACTCCT-AAATTTCCC
191009 AAAATTACCATTTT
1 AAAATTA-CATTTT
191023 CAACCTCAAA
Statistics
Matches: 149, Mismatches: 25, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
56 14 0.09
57 25 0.17
58 54 0.36
59 50 0.34
60 6 0.04
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (57 bp):
AAAATTACATTTTTACCCCAAACTTCTAAAAATCACATTTTTACTCCTAAATTTCCC
Found at i:190852 original size:87 final size:85
Alignment explanation
Indices: 190704--190992 Score: 280
Period size: 87 Copynumber: 3.3 Consensus size: 85
190694 GCCCAAAGGT
* *
190704 CCTCGAACTT-TCCAAAAATCACATTTTCATCCCTAAATTTTTCCAAAATTATATTTTTGCCCTT
1 CCTCGAACTTAT-CAAAAATCACATTTTC-T-CCTAAA-TTTCCCAAAATTACATTTTTGCCC-T
190768 AAACTTCTAAAAATCACATTTTTAC
61 AAACTTCTAAAAATCACATTTTTAC
*
190793 CCTCGAACTT-TTAAAAATCACATTTTACTCCTAAATTTACCCAAAATTACATTTTTGCCCCTAA
1 CCTCGAACTTATCAAAAATCACATTTT-CTCCTAAATTT-CCCAAAATTACATTTTTG-CCCTAA
*
190857 ACTTCTGAAAATCACATTTTTAC
63 ACTTCTAAAAATCACATTTTTAC
* * * * * * * * * *
190880 CCTCGAA-TATCTCCAAATTTACATTTTTTCCCACACTTCCAAAAATCACATTTTTATGCCCTAA
1 CCTCGAACT-TATCAAAAATCACATTTTCTCCTAAATTTCCCAAAATTACA-TTTT-TGCCCTAA
*
190944 ACTTCCAAAAAT-ACATTTTTAC
63 ACTTCTAAAAATCACATTTTTAC
* * * *
190966 CCCCAAACTTATTAAAAATTACATTTT
1 CCTCGAACTTATCAAAAATCACATTTT
190993 TACCCTCAAA
Statistics
Matches: 170, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
86 43 0.25
87 83 0.49
88 32 0.19
89 12 0.07
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (85 bp):
CCTCGAACTTATCAAAAATCACATTTTCTCCTAAATTTCCCAAAATTACATTTTTGCCCTAAACT
TCTAAAAATCACATTTTTAC
Found at i:191081 original size:30 final size:29
Alignment explanation
Indices: 191030--191087 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
191020 TTTCAACCTC
*
191030 AAATTTTCCAAAAGTTGAATTTTAATCCA
1 AAATTTTCCAAAAGTTCAATTTTAATCCA
* *
191059 AAATTTTCCAAAAATTTCAATTTTGATCC
1 AAATTTTCC-AAAAGTTCAATTTTAATCC
191088 CCAAATTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (29 bp):
AAATTTTCCAAAAGTTCAATTTTAATCCA
Found at i:196887 original size:21 final size:20
Alignment explanation
Indices: 196858--196897 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
196848 TTAAGACTTT
196858 CATTATTAAACTTTAATTAAC
1 CATTATTAAAC-TTAATTAAC
* *
196879 CATTTTTAATCTTAATTAA
1 CATTATTAAACTTAATTAA
196898 ACCTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (20 bp):
CATTATTAAACTTAATTAAC
Found at i:198857 original size:19 final size:19
Alignment explanation
Indices: 198814--198858 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
198804 TGACTCATTG
*
198814 AGCAATACTAGCTCGTAAG
1 AGCAATACTAGCTCGTAAC
* * *
198833 AACAATACTGGCTTGTAAC
1 AGCAATACTAGCTCGTAAC
198852 AGCAATA
1 AGCAATA
198859 TTGGATCGCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (19 bp):
AGCAATACTAGCTCGTAAC
Found at i:202184 original size:18 final size:19
Alignment explanation
Indices: 202150--202186 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
202140 ATAAGCTTTG
202150 TAATCAATTTAAATTCACA
1 TAATCAATTTAAATTCACA
202169 TAATCAATTT-AATTCACA
1 TAATCAATTTAAATTCACA
202187 CAATAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATCAATTTAAATTCACA
Found at i:210093 original size:20 final size:20
Alignment explanation
Indices: 210056--210093 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
210046 TAAGAATGGA
*
210056 TTTGATTGAAGATGTTTAGG
1 TTTGATTGAAGATATTTAGG
*
210076 TTTGATTGAAGGTATTTA
1 TTTGATTGAAGATATTTA
210094 AGTTGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (20 bp):
TTTGATTGAAGATATTTAGG
Found at i:213752 original size:35 final size:35
Alignment explanation
Indices: 213684--213752 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
213674 AACTAGTTTG
* * *
213684 AAGTTTACAAAGGTTATGTTGTTAATGGATGAAGC
1 AAGTTTACAAAGGTTATGTTATCAAGGGATGAAGC
*
213719 AAGTTTACAAAGGTTATGTTATCAAGGGTTGAAG
1 AAGTTTACAAAGGTTATGTTATCAAGGGATGAAG
213753 TGTAACTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (35 bp):
AAGTTTACAAAGGTTATGTTATCAAGGGATGAAGC
Found at i:214610 original size:63 final size:63
Alignment explanation
Indices: 214525--214646 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
214515 TAACCCCGGA
* * * *
214525 GAAGGTGTTGATGGAGGGAATGATTGTGTC-TGTTGTGGTGCTTGTGTAAAATATACTAGTGCT
1 GAAGGTGTTGATGGAGGAAATGATTGTG-CGTGTTGTGATGCTTGTCTAAAATAAACTAGTGCT
* * *
214588 GAAGGTGTTTATGTAGGAAATGATTGTGCGTGTTGTGATGTTTGTCTAAAATAAACTAG
1 GAAGGTGTTGATGGAGGAAATGATTGTGCGTGTTGTGATGCTTGTCTAAAATAAACTAG
214647 GTTAGCACCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 1 0.02
63 50 0.98
ACGTcount: A:0.25, C:0.06, G:0.32, T:0.37
Consensus pattern (63 bp):
GAAGGTGTTGATGGAGGAAATGATTGTGCGTGTTGTGATGCTTGTCTAAAATAAACTAGTGCT
Found at i:216402 original size:14 final size:14
Alignment explanation
Indices: 216383--216420 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
216373 TTAAAAAATA
216383 ATTGAGAATTAAAG
1 ATTGAGAATTAAAG
* *
216397 ATTGAGGATTAAGG
1 ATTGAGAATTAAAG
216411 ATTGAGAATT
1 ATTGAGAATT
216421 GAGTATTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (14 bp):
ATTGAGAATTAAAG
Found at i:216428 original size:14 final size:13
Alignment explanation
Indices: 216383--216430 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
216373 TTAAAAAATA
216383 ATTGAGAATTAAAG
1 ATTGAGAATT-AAG
*
216397 ATTGAGGATTAAGG
1 ATTGAGAATTAA-G
*
216411 ATTGAGAATTGAG
1 ATTGAGAATTAAG
216424 TATTGAG
1 -ATTGAG
216431 CTGAAAGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 3 0.10
14 26 0.90
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (13 bp):
ATTGAGAATTAAG
Found at i:223687 original size:24 final size:24
Alignment explanation
Indices: 223660--223715 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
223650 ACATTCTCAC
223660 GGTCGTGTCACAAACCGTGTGATA
1 GGTCGTGTCACAAACCGTGTGATA
*
223684 GGTCGTGTCACAGACCGTGTGATA
1 GGTCGTGTCACAAACCGTGTGATA
223708 GGTCGTGT
1 GGTCGTGT
223716 ACCCATTCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.27
Consensus pattern (24 bp):
GGTCGTGTCACAAACCGTGTGATA
Found at i:224227 original size:21 final size:21
Alignment explanation
Indices: 224203--224244 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
224193 ACTTGAATAT
* *
224203 TTCTATCGATACTTAAATTGA
1 TTCTACCGATACTAAAATTGA
*
224224 TTCTACCGGTACTAAAATTGA
1 TTCTACCGATACTAAAATTGA
224245 CAGTGAGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TTCTACCGATACTAAAATTGA
Found at i:225005 original size:37 final size:36
Alignment explanation
Indices: 224964--225150 Score: 171
Period size: 37 Copynumber: 5.1 Consensus size: 36
224954 GCACAAATCT
* *
224964 CTACTAGACACATAGTCCGAATACATCGACACGAAGC
1 CTACTAGGCACATAGCCCGAATACA-CGACACGAAGC
* **
225001 CTACTAGGCACATAGCCCGAATACACCAGCATAAAGC
1 CTACTAGGCACATAGCCCGAATACACGA-CACGAAGC
* * *
225038 CTACTAGGCAAATAGCCCGAAAACACCGGCACGAAGC
1 CTACTAGGCACATAGCCCGAATACA-CGACACGAAGC
* * * *
225075 CTACTAGGCACACTA-CCCGAATTCACCGGCACAAAAC
1 CTACTAGGCACA-TAGCCCGAATACA-CGACACGAAGC
* * *
225112 CTATTAGGCACACAGCCCGAATACACCG-CACAAAGC
1 CTACTAGGCACATAGCCCGAATACA-CGACACGAAGC
225148 CTA
1 CTA
225151 GCACACAACC
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
36 13 0.10
37 110 0.87
38 3 0.02
ACGTcount: A:0.37, C:0.34, G:0.17, T:0.13
Consensus pattern (36 bp):
CTACTAGGCACATAGCCCGAATACACGACACGAAGC
Found at i:225085 original size:74 final size:74
Alignment explanation
Indices: 224954--225150 Score: 236
Period size: 74 Copynumber: 2.7 Consensus size: 74
224944 TGAATCATCG
* * * * *
224954 GCACAAATCTCTACTAGACACATAGTCCGAATACATCGACACGAAGCCTACTAGGCACA-TAGCC
1 GCACAAAAC-CTACTAGGCACATAGCCCGAATACACCGGCACGAAGCCTACTAGGCACACTA-CC
225018 CGAATACACCA
64 CGAATACACCA
* * * *
225029 GCATAAAGCCTACTAGGCAAATAGCCCGAAAACACCGGCACGAAGCCTACTAGGCACACTACCCG
1 GCACAAAACCTACTAGGCACATAGCCCGAATACACCGGCACGAAGCCTACTAGGCACACTACCCG
* *
225094 AATTCACCG
66 AATACACCA
* * *
225103 GCACAAAACCTATTAGGCACACAGCCCGAATACACC-GCACAAAGCCTA
1 GCACAAAACCTACTAGGCACATAGCCCGAATACACCGGCACGAAGCCTA
225151 GCACACAACC
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
73 11 0.11
74 84 0.81
75 9 0.09
ACGTcount: A:0.37, C:0.34, G:0.16, T:0.13
Consensus pattern (74 bp):
GCACAAAACCTACTAGGCACATAGCCCGAATACACCGGCACGAAGCCTACTAGGCACACTACCCG
AATACACCA
Found at i:242498 original size:22 final size:21
Alignment explanation
Indices: 242452--242498 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
242442 AATTTTCTGT
**
242452 CAAATATCTTTTAACCTTTTT
1 CAAATATCTTTTAACCTTTGC
242473 CAAATATCTTTTAACCCTTTGC
1 CAAATATCTTTTAA-CCTTTGC
242495 CAAA
1 CAAA
242499 AGATTCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (21 bp):
CAAATATCTTTTAACCTTTGC
Found at i:245129 original size:13 final size:13
Alignment explanation
Indices: 245094--245157 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
245084 TTTAGTATTA
*
245094 TTTTTGAGAAGTG
1 TTTTTGAAAAGTG
*
245107 TTTTTAAAAAGTG
1 TTTTTGAAAAGTG
* *
245120 TTTTGGAAAAAT-
1 TTTTTGAAAAGTG
245132 TATTTTGAAAAGTG
1 T-TTTTGAAAAGTG
*
245146 CTTTTGAAAAGT
1 TTTTTGAAAAGT
245158 TTAGTTTAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 1 0.02
13 40 0.98
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (13 bp):
TTTTTGAAAAGTG
Found at i:245982 original size:17 final size:17
Alignment explanation
Indices: 245962--245995 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
245952 TTTTGTTGGT
245962 TAACCCATTTTTTTTAA
1 TAACCCATTTTTTTTAA
245979 TAACCCATTTTTTTTAA
1 TAACCCATTTTTTTTAA
245996 CTAGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (17 bp):
TAACCCATTTTTTTTAA
Found at i:251266 original size:9 final size:9
Alignment explanation
Indices: 251252--251276 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
251242 GTTAAACGAA
251252 TCGAGTTGT
1 TCGAGTTGT
251261 TCGAGTTGT
1 TCGAGTTGT
251270 TCGAGTT
1 TCGAGTT
251277 AATTGAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.32, T:0.44
Consensus pattern (9 bp):
TCGAGTTGT
Found at i:258451 original size:21 final size:21
Alignment explanation
Indices: 258425--258468 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
258415 GAACTACTCA
258425 TTGTCGACTTTAGCTTTTTCT
1 TTGTCGACTTTAGCTTTTTCT
258446 TTGTCGACTTTAGCTTTTTCT
1 TTGTCGACTTTAGCTTTTTCT
258467 TT
1 TT
258469 CTTTCTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.18, G:0.14, T:0.59
Consensus pattern (21 bp):
TTGTCGACTTTAGCTTTTTCT
Found at i:259640 original size:28 final size:28
Alignment explanation
Indices: 259609--259679 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
259599 TTTGAATGCT
*
259609 TTTTTATAATATTTT-GTAAATTTTGTTA
1 TTTTTATAATATTTTAATAAATTTTG-TA
* *
259637 TTTTTTTAATAATTTTAATAATTTTTGTA
1 TTTTTATAAT-ATTTTAATAAATTTTGTA
259666 TTTTTA-AATATTTT
1 TTTTTATAATATTTT
259680 TTTCCATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.14
28 12 0.32
29 12 0.32
30 8 0.22
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (28 bp):
TTTTTATAATATTTTAATAAATTTTGTA
Found at i:259641 original size:29 final size:29
Alignment explanation
Indices: 259608--259679 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
259598 ATTTGAATGC
*
259608 TTTTTTATAATATTTT-GTAAATTTTGTTA
1 TTTTTTATAATATTTTAATAAATTTTG-TA
*
259637 TTTTTT-TAATAATTTTAATAATTTTTGTA
1 TTTTTTATAAT-ATTTTAATAAATTTTGTA
259666 -TTTTTA-AATATTTT
1 TTTTTTATAATATTTT
259680 TTTCCATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 5 0.13
28 12 0.32
29 13 0.34
30 8 0.21
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (29 bp):
TTTTTTATAATATTTTAATAAATTTTGTA
Found at i:259744 original size:7 final size:8
Alignment explanation
Indices: 259713--259741 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
259703 ATTTTTCTTC
259713 ATAATTAT
1 ATAATTAT
259721 ATAATTAT
1 ATAATTAT
259729 ATAATT-T
1 ATAATTAT
259736 ATAATT
1 ATAATT
259742 TATTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATAATTAT
Found at i:259751 original size:16 final size:14
Alignment explanation
Indices: 259732--259788 Score: 57
Period size: 16 Copynumber: 4.0 Consensus size: 14
259722 TAATTATATA
259732 ATTTATAATTTATTTT
1 ATTTATAA--TATTTT
259748 ATTTA-AATATTTT
1 ATTTATAATATTTT
259761 -TTTATAA-ATTTT
1 ATTTATAATATTTT
259773 CATTTATAATGATTTT
1 -ATTTATAAT-ATTTT
259789 TGTAATTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 9 0.25
13 8 0.22
14 7 0.19
15 2 0.06
16 10 0.28
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (14 bp):
ATTTATAATATTTT
Found at i:259814 original size:27 final size:27
Alignment explanation
Indices: 259784--259839 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
259774 ATTTATAATG
259784 ATTTTTGTAATTTTCTATTTTTT-TATA
1 ATTTTTGTAATTTT-TATTTTTTGTATA
259811 ATTTTTGTAATTTTTATTTTTTGTATA
1 ATTTTTGTAATTTTTATTTTTTGTATA
259838 AT
1 AT
259840 ATATATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (27 bp):
ATTTTTGTAATTTTTATTTTTTGTATA
Found at i:261247 original size:183 final size:183
Alignment explanation
Indices: 260955--261332 Score: 562
Period size: 183 Copynumber: 2.1 Consensus size: 183
260945 ATCGTCAAAA
* * * * * *
260955 TCGATCGATTGCGCGTTTTTCAGGGCGTACCACCTTCACCGATCGCTCGATGCTTGAATCAATAT
1 TCGAGCGATTGCACGTTTTACAAGGCGTACCACCTTCAACGATCGCTCGATGCTTGAACCAATAT
** * *
261020 TCCAAAATCGAGCGATTGCGCATGTGGACCAAAATCGCGTTCACCTGTCGCCAGTCAATAGACCA
66 TCCAAAATCGAGCGATTGAACATGTGCACCAAAATCGCGTTCACCTATCGCCAGTCAATAGACCA
* *
261085 AAATCGAAAGATTGCCTATGAAGAGACCAATTCTCGCACGAATATGCAAACTC
131 AAATCGAAAGATTGCCTATGAAGAAACCAATTCTCGCACAAATATGCAAACTC
261138 TCGAGCGATTGCACGTTTTACAAGGCGTACCACCTTCAACGATCGC-CTGATGCTTGAACCAATA
1 TCGAGCGATTGCACGTTTTACAAGGCGTACCACCTTCAACGATCGCTC-GATGCTTGAACCAATA
* *
261202 TTCCAAAATCGAGCGATTGAATATGTGCACCAAAA-CTGCGTTCACCTATCGCTAGTCAATAGAC
65 TTCCAAAATCGAGCGATTGAACATGTGCACCAAAATC-GCGTTCACCTATCGCCAGTCAATAGAC
* * * *
261266 CAAAGTCGAAAGATTGCCTGTGAATAAAGCAATTCTCGCACAAATATGCAAACTC
129 CAAAATCGAAAGATTGCCTATGAAGAAACCAATTCTCGCACAAATATGCAAACTC
261321 TCGAGCGATTGC
1 TCGAGCGATTGC
261333 GCATGCACCG
Statistics
Matches: 175, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
182 2 0.01
183 173 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (183 bp):
TCGAGCGATTGCACGTTTTACAAGGCGTACCACCTTCAACGATCGCTCGATGCTTGAACCAATAT
TCCAAAATCGAGCGATTGAACATGTGCACCAAAATCGCGTTCACCTATCGCCAGTCAATAGACCA
AAATCGAAAGATTGCCTATGAAGAAACCAATTCTCGCACAAATATGCAAACTC
Found at i:263730 original size:16 final size:16
Alignment explanation
Indices: 263709--263755 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
263699 AAAACTTAAA
263709 TAATTAAATAATTATC
1 TAATTAAATAATTATC
** *
263725 TAATTATCTAATCATC
1 TAATTAAATAATTATC
263741 TAATTAAATAATTAT
1 TAATTAAATAATTAT
263756 AAAAAAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAAATAATTATC
Found at i:269908 original size:31 final size:31
Alignment explanation
Indices: 269870--269931 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
269860 ATAGGAGGGT
269870 ATGATCTTGAAAAGAGTGAGCTGGATACTTA
1 ATGATCTTGAAAAGAGTGAGCTGGATACTTA
269901 ATGATCTTGAAAAGAGTGAGCTGGATACTTA
1 ATGATCTTGAAAAGAGTGAGCTGGATACTTA
269932 CTTGTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (31 bp):
ATGATCTTGAAAAGAGTGAGCTGGATACTTA
Found at i:271928 original size:22 final size:22
Alignment explanation
Indices: 271888--271948 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
271878 CGATCTAAGG
*
271888 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAATT
271909 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
271931 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
271949 GGAAGTAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 11 0.31
22 24 0.67
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:271939 original size:15 final size:16
Alignment explanation
Indices: 271914--271943 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
271904 GAATTAAAAA
271914 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
271930 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
271944 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:272741 original size:19 final size:19
Alignment explanation
Indices: 272717--272759 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
272707 AAACATAAAT
272717 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
272736 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
272755 TAAAT
1 TAAAT
272760 CTTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:273059 original size:38 final size:38
Alignment explanation
Indices: 273008--273083 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
272998 AAAAGTATGT
273008 CTTATTTAAGCATTATCATATTCCCCCCTACATAGCCC
1 CTTATTTAAGCATTATCATATTCCCCCCTACATAGCCC
*
273046 CTTATTTAAGCATTATCATATTCCCCCCTACTTAGCCC
1 CTTATTTAAGCATTATCATATTCCCCCCTACATAGCCC
273084 ATGCTTGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (38 bp):
CTTATTTAAGCATTATCATATTCCCCCCTACATAGCCC
Found at i:274418 original size:6 final size:6
Alignment explanation
Indices: 274407--274459 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
274397 ATAGAAAAAT
274407 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
274455 AATAA
1 AATAA
274460 TTAGGTTGCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:276918 original size:30 final size:30
Alignment explanation
Indices: 276882--276943 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
276872 GAGTTTTTTC
276882 AGCTAAACGTTCAAGCATTTGATCTATAAA
1 AGCTAAACGTTCAAGCATTTGATCTATAAA
276912 AGCTAAACGTTCAAGCATTTGATCTATAAA
1 AGCTAAACGTTCAAGCATTTGATCTATAAA
276942 AG
1 AG
276944 GAAGAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (30 bp):
AGCTAAACGTTCAAGCATTTGATCTATAAA
Found at i:280152 original size:22 final size:22
Alignment explanation
Indices: 280112--280172 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
280102 CGATCTAAGG
*
280112 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAATT
280133 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
280155 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
280173 GGAAGTCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 11 0.31
22 24 0.67
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:280163 original size:15 final size:16
Alignment explanation
Indices: 280138--280167 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
280128 GAATTAAAAA
280138 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
280154 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
280168 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:280996 original size:19 final size:19
Alignment explanation
Indices: 280972--281014 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
280962 AAACATAAAT
280972 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
280991 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
281010 TAAAT
1 TAAAT
281015 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:282887 original size:15 final size:16
Alignment explanation
Indices: 282835--282887 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
282825 GAACAATGTA
*
282835 AAATATAAAT-TTAAT
1 AAATATAAATAATAAT
*
282850 AGATATAAAGTAA-AAT
1 AAATATAAA-TAATAAT
282866 AAA-ATAAATAATAA-
1 AAATATAAATAATAAT
282880 AAATATAA
1 AAATATAA
282888 TAAATTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 6 0.19
15 19 0.61
16 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (16 bp):
AAATATAAATAATAAT
Found at i:283052 original size:15 final size:14
Alignment explanation
Indices: 283025--283059 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
283015 GAAAAATAAG
283025 TCATTTTTCAAAAA
1 TCATTTTTCAAAAA
*
283039 TCATTTTTCGAAAA
1 TCATTTTTCAAAAA
*
283053 CCATTTT
1 TCATTTT
283060 CAGTCAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (14 bp):
TCATTTTTCAAAAA
Found at i:287799 original size:9 final size:9
Alignment explanation
Indices: 287779--287831 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
287769 TGTATATTAG
*
287779 TATGGATAT
1 TATGTATAT
*
287788 TATGTATGT
1 TATGTATAT
287797 TATGTATAT
1 TATGTATAT
*
287806 TACTGTTTAT
1 TA-TGTATAT
287816 GTATGTATAT
1 -TATGTATAT
287826 TATGTA
1 TATGTA
287832 GTATATTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 23 0.62
10 12 0.32
11 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (9 bp):
TATGTATAT
Found at i:287837 original size:12 final size:13
Alignment explanation
Indices: 287762--287858 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 13
287752 AGTATGTCTG
*
287762 TTATGCATGTATA
1 TTATGTATGTATA
*
287775 TTA-GTATGGATA
1 TTATGTATGTATA
287787 TTATGTATGT-TA
1 TTATGTATGTATA
*
287799 TGTA--TAT-TACTGT
1 T-TATGTATGTA-T-A
287812 TTATGTATGTATA
1 TTATGTATGTATA
287825 TTATGTA-GTATA
1 TTATGTATGTATA
** *
287837 TTA-CAATTTATA
1 TTATGTATGTATA
287849 TTATGTATGT
1 TTATGTATGT
287859 GCAATGTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
10 1 0.02
11 4 0.06
12 31 0.49
13 21 0.33
14 4 0.06
15 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (13 bp):
TTATGTATGTATA
Found at i:289928 original size:72 final size:72
Alignment explanation
Indices: 289842--290026 Score: 262
Period size: 72 Copynumber: 2.6 Consensus size: 72
289832 CGTATATAAA
* * * * *
289842 CTGACTAGCATAAATGTGTGCAAACTGATGAGCATAAACGTATTTAAGCTGACGAGCGTAAACGT
1 CTGACAAGCGTAAATGTGTGCAAGCTGATGAGCGTAAACGTATATAAGCTGACGAGCGTAAACGT
289907 GTGCAAG
66 GTGCAAG
* * * * *
289914 CTGACGAGCGTAAATGTATGCAAGCTGACGAGCGTAAGCGTATATAAGCTGATGAGCGTAAACGT
1 CTGACAAGCGTAAATGTGTGCAAGCTGATGAGCGTAAACGTATATAAGCTGACGAGCGTAAACGT
*
289979 GTGCAAT
66 GTGCAAG
*
289986 CTGACAAGCGTAAACGTGTGCAAGCTGATGAGCGTAAACGT
1 CTGACAAGCGTAAATGTGTGCAAGCTGATGAGCGTAAACGT
290027 GTGAAAGTTG
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 98 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (72 bp):
CTGACAAGCGTAAATGTGTGCAAGCTGATGAGCGTAAACGTATATAAGCTGACGAGCGTAAACGT
GTGCAAG
Found at i:290029 original size:48 final size:48
Alignment explanation
Indices: 289827--290026 Score: 229
Period size: 48 Copynumber: 4.2 Consensus size: 48
289817 ATCAAACTGT
** * * * * *
289827 GTAAACGTATATAAACTGACTAGCATAAATGTGTGCAAACTGATGAGC
1 GTAAACGTATGCAAGCTGACGAGCGTAAACGTGTGCAAGCTGATGAGC
* ** *
289875 ATAAACGTATTTAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGC
1 GTAAACGTATGCAAGCTGACGAGCGTAAACGTGTGCAAGCTGATGAGC
* * * **
289923 GTAAATGTATGCAAGCTGACGAGCGTAAGCGTATATAAGCTGATGAGC
1 GTAAACGTATGCAAGCTGACGAGCGTAAACGTGTGCAAGCTGATGAGC
* * *
289971 GTAAACGTGTGCAATCTGACAAGCGTAAACGTGTGCAAGCTGATGAGC
1 GTAAACGTATGCAAGCTGACGAGCGTAAACGTGTGCAAGCTGATGAGC
290019 GTAAACGT
1 GTAAACGT
290027 GTGAAAGTTG
Statistics
Matches: 127, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.23
Consensus pattern (48 bp):
GTAAACGTATGCAAGCTGACGAGCGTAAACGTGTGCAAGCTGATGAGC
Found at i:290038 original size:24 final size:24
Alignment explanation
Indices: 289842--290029 Score: 205
Period size: 24 Copynumber: 7.8 Consensus size: 24
289832 CGTATATAAA
* * * *
289842 CTGACTAGCATAAATGTGTGCAAA
1 CTGACGAGCGTAAACGTGTGCAAG
* * * **
289866 CTGATGAGCATAAACGTATTTAAG
1 CTGACGAGCGTAAACGTGTGCAAG
289890 CTGACGAGCGTAAACGTGTGCAAG
1 CTGACGAGCGTAAACGTGTGCAAG
* *
289914 CTGACGAGCGTAAATGTATGCAAG
1 CTGACGAGCGTAAACGTGTGCAAG
* * **
289938 CTGACGAGCGTAAGCGTATATAAG
1 CTGACGAGCGTAAACGTGTGCAAG
* *
289962 CTGATGAGCGTAAACGTGTGCAAT
1 CTGACGAGCGTAAACGTGTGCAAG
*
289986 CTGACAAGCGTAAACGTGTGCAAG
1 CTGACGAGCGTAAACGTGTGCAAG
*
290010 CTGATGAGCGTAAACGTGTG
1 CTGACGAGCGTAAACGTGTG
290030 AAAGTTGATA
Statistics
Matches: 135, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 135 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (24 bp):
CTGACGAGCGTAAACGTGTGCAAG
Done.