Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007381.1 Hibiscus syriacus cultivar Beakdansim tig00019833_pilon, 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: 118051
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:8105 original size:14 final size:14
Alignment explanation
Indices: 8086--8112 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8076 GATAAATCTT
8086 CTCCTCACATTCTG
1 CTCCTCACATTCTG
8100 CTCCTCACATTCT
1 CTCCTCACATTCT
8113 CATCTGCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.44, G:0.04, T:0.37
Consensus pattern (14 bp):
CTCCTCACATTCTG
Found at i:9446 original size:19 final size:17
Alignment explanation
Indices: 9422--9463 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9412 TCCATTAGGG
*
9422 TATTTTTTTAGTTTTTTTT
1 TATTTTTTT-G-TATTTTT
9441 TATTTTTTTGTATTTTT
1 TATTTTTTTGTATTTTT
9458 TATTTT
1 TATTTT
9464 GTGTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 1 0.05
19 9 0.41
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (17 bp):
TATTTTTTTGTATTTTT
Found at i:9468 original size:16 final size:17
Alignment explanation
Indices: 9436--9468 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9426 TTTTTAGTTT
*
9436 TTTTTTATTTTTTTGTA
1 TTTTTTATTTTTGTGTA
9453 TTTTTTA-TTTTGTGTA
1 TTTTTTATTTTTGTGTA
9469 ATATAAATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTTTATTTTTGTGTA
Found at i:10230 original size:2 final size:2
Alignment explanation
Indices: 10223--10256 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
10213 ATTATACTTG
10223 TA TA TA TA TA TA -A 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 T
10257 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18906 original size:58 final size:59
Alignment explanation
Indices: 18804--18923 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 59
18794 GGAGGGTTGG
* * * *
18804 TTAGAGCCATATTGTTGAGTTTAACTTTTCATTGCAACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATTGAGTTTAACCTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
* *
18863 TTAGAGCCATATTATTGTGTTT-ACCTTTCATTGCGACTAGGAGGGCTCGAAAGGACAC
1 TTAGAGCCATATTATTGAGTTTAACCTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
18921 TTA
1 TTA
18924 TCCATCTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 35 0.64
59 20 0.36
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (59 bp):
TTAGAGCCATATTATTGAGTTTAACCTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
Found at i:23309 original size:60 final size:59
Alignment explanation
Indices: 23196--23317 Score: 181
Period size: 60 Copynumber: 2.1 Consensus size: 59
23186 GGAGGTTTGG
* *
23196 TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
** * *
23255 TTAGAGCCATATTATCGTGTTTGCATTTTTCATTGCAACTAGGAGGGCTCGATAGGACAC
1 TTAGAGCCATATTATCAAGTTTGC-CTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
23315 TTA
1 TTA
23318 TCCATCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
59 22 0.39
60 34 0.61
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (59 bp):
TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
Found at i:26017 original size:2 final size:2
Alignment explanation
Indices: 26010--26068 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
26000 CTCTAACCAT
26010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26052 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
26069 TTCTTCAGTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28219 original size:51 final size:50
Alignment explanation
Indices: 28163--28259 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
28153 TAAAAAAAAT
*
28163 AGTAGCCAAAACAGAAATAAATAGTGACCAAAATGCATA-AAATTGAAGAAC
1 AGTAGCCAAAACAGAAATAAACAGTGACCAAAAT--ATATAAATTGAAGAAC
* * *
28214 AGTAGCCAAATCAGAAATAAACGGTGACTAAAATATATAAATTGAA
1 AGTAGCCAAAACAGAAATAAACAGTGACCAAAATATATAAATTGAA
28260 AGTATCACGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
49 3 0.07
50 8 0.20
51 30 0.73
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (50 bp):
AGTAGCCAAAACAGAAATAAACAGTGACCAAAATATATAAATTGAAGAAC
Found at i:29557 original size:67 final size:67
Alignment explanation
Indices: 29446--29609 Score: 220
Period size: 67 Copynumber: 2.4 Consensus size: 67
29436 AAATTTCGGC
* * *
29446 TTCAAGTGAAACTGTCTCAAGCGAGATAAAACTATATTTCGAGAGAAAAAATCTCTAAGGCTTAT
1 TTCAAGAGAAACTGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAAAATCTCAAAGGCTTAT
29511 GT
66 GT
* * * * * * *
29513 TTCAAGAGAAAATGTCTCAAGCGAGACGAAACTTTGTTTGGAGAGAAAGAATCTCAAAGGTTTAT
1 TTCAAGAGAAACTGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAAAATCTCAAAGGCTTAT
29578 GT
66 GT
**
29580 TTCAAGAGAAACCATCTCAAGCGAGACAAA
1 TTCAAGAGAAACTGTCTCAAGCGAGACAAA
29610 TTTTTTTTAG
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 83 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (67 bp):
TTCAAGAGAAACTGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAAAATCTCAAAGGCTTAT
GT
Found at i:32439 original size:9 final size:8
Alignment explanation
Indices: 32393--32438 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
32383 ACTTGATTTG
32393 TTTTCTTT
1 TTTTCTTT
32401 CTTTTCCTTT
1 -TTTT-CTTT
*
32411 TTTTCTCT
1 TTTTCTTT
*
32419 TTTTCTTC
1 TTTTCTTT
32427 TTTTCTTT
1 TTTTCTTT
32435 TTTT
1 TTTT
32439 TTCACCTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 20 0.62
9 8 0.25
10 4 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:41638 original size:5 final size:5
Alignment explanation
Indices: 41628--41652 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
41618 CTCATGTTTA
41628 TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT
41653 GTGAGCCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGATT
Found at i:43119 original size:34 final size:34
Alignment explanation
Indices: 43076--43144 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
43066 TCCTTCGGGT
43076 CATCAGTAAGTCTTCCGAGCATGATGATCAAATC
1 CATCAGTAAGTCTTCCGAGCATGATGATCAAATC
* * *
43110 CATCAGTAAGTCTTTCGAGCATGATGCTTAAATC
1 CATCAGTAAGTCTTCCGAGCATGATGATCAAATC
43144 C
1 C
43145 TTTGGGCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (34 bp):
CATCAGTAAGTCTTCCGAGCATGATGATCAAATC
Found at i:43208 original size:79 final size:79
Alignment explanation
Indices: 43104--43270 Score: 226
Period size: 79 Copynumber: 2.1 Consensus size: 79
43094 GCATGATGAT
* * * * ** *
43104 CAAATCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTGGGCCATCTTAAGCCTTCACC
1 CAAATCCATCAGTAAGCCTTCCGAGCATGACGATTAAATCCTCCGGGCCATCTTAAGCCTTCAAC
*
43169 GAAGTGTAGTGAAG
66 GAAGAGTAGTGAAG
* * * *
43183 TAAATCCATCAGTAAGCCTTCCGAGCATGACGATTAAGTCCTCCGGGCCATTTTAAGCCTTTAAC
1 CAAATCCATCAGTAAGCCTTCCGAGCATGACGATTAAATCCTCCGGGCCATCTTAAGCCTTCAAC
43248 GAAGAGTAGTGAAG
66 GAAGAGTAGTGAAG
43262 CAAATCCAT
1 CAAATCCAT
43271 TTTAAGCCTT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (79 bp):
CAAATCCATCAGTAAGCCTTCCGAGCATGACGATTAAATCCTCCGGGCCATCTTAAGCCTTCAAC
GAAGAGTAGTGAAG
Found at i:43274 original size:37 final size:37
Alignment explanation
Indices: 43230--43307 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
43220 GTCCTCCGGG
* *
43230 CCATTTTAAGCCTTTAACGAAGAGTAGTGAAGCAAAT
1 CCATTTTAAGCCTTCAACGAAGAGTAGTGAAGCAAAA
* *
43267 CCATTTTAAGCCTTCATCGGAGAGTAGTGAAGCAAAA
1 CCATTTTAAGCCTTCAACGAAGAGTAGTGAAGCAAAA
43304 CCAT
1 CCAT
43308 CAGTAAGCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (37 bp):
CCATTTTAAGCCTTCAACGAAGAGTAGTGAAGCAAAA
Found at i:43308 original size:116 final size:116
Alignment explanation
Indices: 43151--43383 Score: 342
Period size: 116 Copynumber: 2.0 Consensus size: 116
43141 ATCCTTTGGG
* * *
43151 CCATCTTAAGCCTTCACCGAAGTGTAGTGAAGTAAATCCATCAGTAAGCCTTCCGAGCATGACGA
1 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAACCATCAGTAAGCCTTCCGAGCATGACGA
* * *
43216 TTAAGTCCTCCGGGCCATTTTAAGCCTTTAAC-GAAGAGTAGTGAAGCAAAT
66 TGAAGTCCTCCGGGCCATCTTAAGCC-TTAACGGAAGAATAGTGAAGCAAAT
* * * *
43267 CCATTTTAAGCCTTCATCGGAGAGTAGTGAAGCAAAACCATCAGTAAGCCTTCTGAGCATGACGA
1 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAACCATCAGTAAGCCTTCCGAGCATGACGA
* *
43332 TGAAGTCCTCTGGGCCATCTTAAGCCTTCACGGAAGAATAGTGAAGCAAAT
66 TGAAGTCCTCCGGGCCATCTTAAGCCTTAACGGAAGAATAGTGAAGCAAAT
43383 C
1 C
43384 TATCAATTTG
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 4 0.04
116 100 0.96
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (116 bp):
CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAACCATCAGTAAGCCTTCCGAGCATGACGA
TGAAGTCCTCCGGGCCATCTTAAGCCTTAACGGAAGAATAGTGAAGCAAAT
Found at i:43641 original size:134 final size:134
Alignment explanation
Indices: 43392--44000 Score: 906
Period size: 134 Copynumber: 4.6 Consensus size: 134
43382 TCTATCAATT
43392 TGATATTCCCTTCAGAAGAAGT-GAAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTG
1 TGATATTCCCTTCAGAAGAAGTCG-AACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTG
*
43456 ACAGTGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCC
65 ACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCC
43521 AGATC
130 AGATC
* * *
43526 TAATATTCCCTTCAGAAGAAGTCGAACATATCACTCTTTTTCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGTCGAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
* * *
43591 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTAACATCTGAATGGATCAACTCATCCA
66 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
43656 GATC
131 GATC
* * * * *
43660 TGATATTCCCTTCAAAAGAAGTGGAACAGATCACTATTTTTCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGTCGAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
*
43725 CAG-GGAACAAGTCTACCATGATTCAATTTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
66 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
43789 GATC
131 GATC
* * * * * *
43793 TGATATTCCATTCAGAAG-AGGCGGAACAGATCATTCTCTTCCAAGATTTGATAATCCCTGAGTG
1 TGATATTCCCTTCAGAAGAAGTC-GAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTG
* *
43857 ACAGAGGAACAAGTCTACCACGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCC
65 ACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCC
43922 AGATC
130 AGATC
* * * *
43927 TGATATTCCCTTCAGAAGAAG-CGGAACAAATAACTCATC--CCTAGATCTGATATTCCCTGAGT
1 TGATATTCCCTTCAGAAGAAGTC-GAACAAATCACTC-TCTTTCAAGATTTGATATTCCCTGAGT
*
43989 GACAGCAGAACA
64 GACAGCGGAACA
44001 GATCCCTTAT
Statistics
Matches: 434, Mismatches: 36, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
132 2 0.00
133 147 0.34
134 280 0.65
135 5 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (134 bp):
TGATATTCCCTTCAGAAGAAGTCGAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
GATC
Found at i:43868 original size:267 final size:267
Alignment explanation
Indices: 43392--43993 Score: 931
Period size: 267 Copynumber: 2.3 Consensus size: 267
43382 TCTATCAATT
* *
43392 TGATATTCCCTTCAGAAGAAGTGAAACAAATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGTGGAACAAATCACTAT-TTTCAAGATTTGATATTCCCTGAGTGA
43457 CAGTGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
65 CAGTGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
* * * * * *
43522 GATCTAATATTCCCTTCAGAAGAAGTCGAACATATCACTCTTTTTCAAGATTTGATATTCCCTGA
130 GATCTAATATTCCATTCAGAAGAAGGCGAACAGATCACTCTCTTCCAAGATTTGATAATCCCTGA
* * * *
43587 GTGACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTAACATCTGAATGGATCAACTCA
195 GTGACAGAGGAACAAGTCTACCACGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACTCA
43652 TCCAGATC
260 TCCAGATC
* *
43660 TGATATTCCCTTCAAAAGAAGTGGAACAGATCACTATTTTTCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGTGGAACAAATCACTA-TTTTCAAGATTTGATATTCCCTGAGTGA
*
43725 CAG-GGAACAAGTCTACCATGATTCAATTTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
65 CAGTGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
* *
43789 GATCTGATATTCCATTCAGAAG-AGGCGGAACAGATCATTCTCTTCCAAGATTTGATAATCCCTG
130 GATCTAATATTCCATTCAGAAGAAGGC-GAACAGATCACTCTCTTCCAAGATTTGATAATCCCTG
*
43853 AGTGACAGAGGAACAAGTCTACCACGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTC
194 AGTGACAGAGGAACAAGTCTACCACGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACTC
43918 ATCCAGATC
259 ATCCAGATC
* * ** * *
43927 TGATATTCCCTTCAGAAGAAGCGGAACAAATAACTCA-TCCCTAGATCTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGTGGAACAAATCACT-ATTTTCAAGATTTGATATTCCCTGAGTGA
43991 CAG
65 CAG
43994 CAGAACAGAT
Statistics
Matches: 305, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
266 29 0.10
267 212 0.70
268 63 0.21
269 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (267 bp):
TGATATTCCCTTCAGAAGAAGTGGAACAAATCACTATTTTCAAGATTTGATATTCCCTGAGTGAC
AGTGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCAG
ATCTAATATTCCATTCAGAAGAAGGCGAACAGATCACTCTCTTCCAAGATTTGATAATCCCTGAG
TGACAGAGGAACAAGTCTACCACGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACTCAT
CCAGATC
Found at i:49622 original size:10 final size:10
Alignment explanation
Indices: 49609--49641 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
49599 AAAATGAAGT
49609 AAATAAATTA
1 AAATAAATTA
*
49619 AAATAAAGT-
1 AAATAAATTA
49628 AAATAAATTA
1 AAATAAATTA
49638 AAAT
1 AAAT
49642 GAAAATGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAATAAATTA
Found at i:49622 original size:19 final size:19
Alignment explanation
Indices: 49594--49644 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
49584 CCTTCACATT
49594 TAAA-TAAAATGAAGTAAA
1 TAAATTAAAATGAAGTAAA
*
49612 TAAATTAAAATAAAGTAAA
1 TAAATTAAAATGAAGTAAA
49631 TAAATTAAAATGAA
1 TAAATTAAAATGAA
49645 AATGAACTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (19 bp):
TAAATTAAAATGAAGTAAA
Found at i:51214 original size:2 final size:2
Alignment explanation
Indices: 51201--51257 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
51191 ACTATATAGT
51201 TA TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51241 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
51258 TCCACATTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51923 original size:34 final size:34
Alignment explanation
Indices: 51885--52059 Score: 176
Period size: 34 Copynumber: 5.2 Consensus size: 34
51875 ACACAATGCA
* * *
51885 TCATCCAAAAGGTGCCTCCAAAATTCATGATATT
1 TCATCAAAAAGGTGCCTCCAAAAGTCATGATGTT
* **
51919 TCATCAAAAAAGGTGTCTCCAAAAAACATG-T-TT
1 TCATC-AAAAAGGTGCCTCCAAAAGTCATGATGTT
* *
51952 T-ATCTAAAAGGTACCTCCAAAAGTCATGATGTT
1 TCATCAAAAAGGTGCCTCCAAAAGTCATGATGTT
* * * *
51985 TTATAAAAAAGGTGCCTCCAAAAGACATGTTGTT
1 TCATCAAAAAGGTGCCTCCAAAAGTCATGATGTT
* * *
52019 TCATCCAAATGGTGCCTCCAAAAGTTATGATGTTT
1 TCATCAAAAAGGTGCCTCCAAAAGTCATGATG-TT
52054 TCATCA
1 TCATCA
52060 CACATTTTCA
Statistics
Matches: 114, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
31 19 0.17
32 4 0.04
33 6 0.05
34 58 0.51
35 27 0.24
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (34 bp):
TCATCAAAAAGGTGCCTCCAAAAGTCATGATGTT
Found at i:52053 original size:68 final size:67
Alignment explanation
Indices: 51885--52059 Score: 221
Period size: 66 Copynumber: 2.6 Consensus size: 67
51875 ACACAATGCA
* * *
51885 TCATCCAAAAGGTGCCTCCAAAA-TTCATGATATTTCATCAAAAAAGGTGTCTCCAAAAAACATG
1 TCATCCAAAAGGTGCCTCCAAAAGTT-ATGATGTTTTATCAAAAAAGGTGCCTCCAAAAAACATG
51949 TTT
65 TTT
* * * *
51952 T-ATCTAAAAGGTACCTCCAAAAGTCATGATGTTTTAT-AAAAAAGGTGCCTCCAAAAGACATGT
1 TCATCCAAAAGGTGCCTCCAAAAGTTATGATGTTTTATCAAAAAAGGTGCCTCCAAAAAACATG-
52015 TGTT
65 T-TT
*
52019 TCATCCAAATGGTGCCTCCAAAAGTTATGATGTTTTCATCA
1 TCATCCAAAAGGTGCCTCCAAAAGTTATGATGTTTT-ATCA
52060 CACATTTTCA
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
65 23 0.25
66 30 0.33
67 5 0.05
68 30 0.33
69 2 0.02
70 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (67 bp):
TCATCCAAAAGGTGCCTCCAAAAGTTATGATGTTTTATCAAAAAAGGTGCCTCCAAAAAACATGT
TT
Found at i:52966 original size:29 final size:29
Alignment explanation
Indices: 52925--53096 Score: 137
Period size: 29 Copynumber: 6.2 Consensus size: 29
52915 CTGTTGACCG
* * *
52925 GGTGGTATTTTGGTAATTCTTTCAAAAAT
1 GGTGATATTTTGGTAATTATTTTAAAAAT
*
52954 GGTGATATTTTGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTAAAAAT
* * *
52983 GGTGTTATTTTCGTAATT-TTTTTAAAA-
1 GGTGATATTTTGGTAATTATTTTAAAAAT
* * *
53010 GTTGATA--TT--T--TT-TTTAAAAAAA
1 GGTGATATTTTGGTAATTATTTTAAAAAT
** *
53032 AATGATATTTTGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTAAAAAT
* * *
53061 GGTGATATTTTAGAAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTAAAAAT
53090 GGTGATA
1 GGTGATA
53097 ATTGTGTAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
21 9 0.08
22 5 0.04
23 1 0.01
24 2 0.02
25 2 0.02
26 1 0.01
27 5 0.04
28 10 0.09
29 80 0.70
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTTTAAAAAT
Found at i:58615 original size:29 final size:29
Alignment explanation
Indices: 58550--58752 Score: 218
Period size: 29 Copynumber: 7.1 Consensus size: 29
58540 CCGTTGATCG
* * *
58550 GGTGGTATTTTTGTAATTA-TTTCAAAAT
1 GGTGCTATTTTAGTAATTATTTTGAAAAT
* *
58578 GGTGGTATTTTGGTAATTATTTTGAAAAT
1 GGTGCTATTTTAGTAATTATTTTGAAAAT
*
58607 GGTGCTATTTTCA-TAATT-TTTTTAAAA-
1 GGTGCTATTTT-AGTAATTATTTTGAAAAT
* * * * *
58634 GTTGATATTTTCGTAATTTTTTTTAAAA-
1 GGTGCTATTTTAGTAATTATTTTGAAAAT
* * *
58662 AGTGCTATTTTGGTAATTGTTTTGAAAAT
1 GGTGCTATTTTAGTAATTATTTTGAAAAT
*
58691 GGTGCTATTTTAGAAATTATTTTGAAAAT
1 GGTGCTATTTTAGTAATTATTTTGAAAAT
*
58720 GGTGCTATTTTAGAAATTATTTTGAAAAT
1 GGTGCTATTTTAGTAATTATTTTGAAAAT
58749 GGTG
1 GGTG
58753 ATAATTGTGT
Statistics
Matches: 152, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
27 14 0.09
28 57 0.38
29 81 0.53
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.49
Consensus pattern (29 bp):
GGTGCTATTTTAGTAATTATTTTGAAAAT
Found at i:59517 original size:24 final size:25
Alignment explanation
Indices: 59465--59522 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
59455 ATTTTTGACG
*
59465 GGATTTTGATATGATACTTGACTAT
1 GGATTTTGATATGATACATGACTAT
*
59490 -GATTTTTATATGATACATGAC-AT
1 GGATTTTGATATGATACATGACTAT
*
59513 GGATTATGAT
1 GGATTTTGAT
59523 CTGCTACTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (25 bp):
GGATTTTGATATGATACATGACTAT
Found at i:65158 original size:19 final size:20
Alignment explanation
Indices: 65134--65188 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
65124 ATCTAATTTT
65134 GGTATCGATACCATA-AAGG
1 GGTATCGATACCATAGAAGG
* * *
65153 GGTATCGGTACGATAGTAGG
1 GGTATCGATACCATAGAAGG
65173 GTAGTATCGATACCAT
1 G--GTATCGATACCAT
65189 GGTAAGAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.46
20 4 0.14
22 11 0.39
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCATAGAAGG
Found at i:65259 original size:95 final size:95
Alignment explanation
Indices: 65076--65265 Score: 267
Period size: 96 Copynumber: 2.0 Consensus size: 95
65066 ATACCGTTGA
* * * *
65076 GGTAGTATCGATATCATTGTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGGTAAGAGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCG
*
65141 ATACCATAAAGGGGTATCGGTACGATAGTAG
66 ATACCA-AAAGGAGTATCGGTACGATAGTAG
*
65172 GGTAGTATCGATACCATGGTAAGAGTATCGTTACCAAGCAAA-ATCGAACCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGGTAAGAGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCG
**
65236 ATAACC-GGAGGAAGTATCGGTACGATAGTA
66 AT-ACCAAAAGG-AGTATCGGTACGATAGTA
65266 TTGAAGTATC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
94 3 0.04
95 40 0.48
96 41 0.49
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGAGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCG
ATACCAAAAGGAGTATCGGTACGATAGTAG
Found at i:65296 original size:95 final size:95
Alignment explanation
Indices: 65079--65276 Score: 256
Period size: 95 Copynumber: 2.1 Consensus size: 95
65069 CCGTTGAGGT
* * * *
65079 AGTATCGATATCATTGTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATCGATA
1 AGTATCGATACCATGGTAAGAGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATA
* *
65144 CCATAAAGGGGTATCGGTACGATAGTAGGGT
66 CCA-AAAGGAGTATCGGTACGATAGTAGGGA
*
65175 AGTATCGATACCATGGTAAGAGTATCGTTACCAAGCAAA-ATCGAACCTAATTTTGGTATCGATA
1 AGTATCGATACCATGGTAAGAGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGAT-
** **
65239 ACC-GGAGGAAGTATCGGTACGATAGTATTGA
65 ACCAAAAGG-AGTATCGGTACGATAGTAGGGA
65270 AGTATCG
1 AGTATCG
65277 GTACTTGGGT
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
94 3 0.03
95 48 0.54
96 38 0.43
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (95 bp):
AGTATCGATACCATGGTAAGAGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATA
CCAAAAGGAGTATCGGTACGATAGTAGGGA
Found at i:65890 original size:78 final size:79
Alignment explanation
Indices: 65696--66002 Score: 508
Period size: 79 Copynumber: 3.9 Consensus size: 79
65686 AAACGAATGA
* * *
65696 AAAAGAATAATGCATATGGGTGCATTAGTGGCATGGAAGGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
65761 TACATTGTCAGTAT
66 TACATTGTCAGTAT
65775 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
*
65840 TACATTGTCAG-CT
66 TACATTGTCAGTAT
65853 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
*
65918 TACATAGTCAGTAT
66 TACATTGTCAGTAT
** * * *
65932 AAAAGAATAATGTGTATGGGTGCATTATTGGCATGAAAGGATGCTATCGCTAAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
*
65997 TGCATT
66 TACATT
66003 ATTAGCATAA
Statistics
Matches: 214, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 76 0.36
79 138 0.64
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
TACATTGTCAGTAT
Found at i:65984 original size:157 final size:157
Alignment explanation
Indices: 65696--66002 Score: 524
Period size: 157 Copynumber: 2.0 Consensus size: 157
65686 AAACGAATGA
* *
65696 AAAAGAATAATGCATATGGGTGCATTAGTGGCATGGAAGGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
*
65761 TACATTGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
66 TACATAGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
*
65826 AAAATGTATATGGGTACATTGTCAGCT
131 AAAATGCATATGGGTACATTGTCAGCT
*
65853 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
** * *
65918 TACATAGTCAGTATAAAAGAATAATGTGTATGGGTGCATTATTGGCATGAAAGGATGCTATCGCT
66 TACATAGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
*
65983 AAAATGCATATGGGTGCATT
131 AAAATGCATATGGGTACATT
66003 ATTAGCATAA
Statistics
Matches: 140, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 140 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (157 bp):
AAAAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCATAGCTAAAATGTATATGGG
TACATAGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
AAAATGCATATGGGTACATTGTCAGCT
Found at i:71463 original size:2 final size:2
Alignment explanation
Indices: 71456--71490 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
71446 AACTAAACTA
*
71456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71491 AGCAGGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:73460 original size:116 final size:115
Alignment explanation
Indices: 73080--73460 Score: 559
Period size: 116 Copynumber: 3.3 Consensus size: 115
73070 GATGGAAATG
* * * *
73080 TTGAAAACATTCTGCCCAG-AGGTCTTAT-GAATGTCCCTGAGGTCTTATCATCTTGCACTGTAG
1 TTGAAAACATCCTGCACTGTAGGTCTTATAG-ATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
* * * * *
73143 GTCTTATAGATGACCTGGGAGTTTTAAATATCAAAAAGCTCCCGAAGTCATT
65 GTCTTACAGATGACCCGAG-GTTTTAAATATCAAAAAGCTCCCGAAGGCTTT
* * * *
73195 TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGAATTGTAGG
1 TTGAAAACATCCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
*
73260 TCTTACAGATGACCCGAAGGTTTTAAATATCAAAATGCTCCCGAAGGCTTT
66 TCTTACAGATGACCCG-AGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTT
* *
73311 TTGAAAACATCCTTCACTGTAGGTCTTATAGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGG
1 TTGAAAACATCCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
73376 TCTTACAGATGACCCAGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTT
66 TCTTACAGATGACCC-GAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTT
*
73427 TTGAAAACATCCTGCACTGTAGGTCTTACAGATG
1 TTGAAAACATCCTGCACTGTAGGTCTTATAGATG
73461 ACCTGGAGGC
Statistics
Matches: 242, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
115 17 0.07
116 222 0.92
117 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (115 bp):
TTGAAAACATCCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
TCTTACAGATGACCCGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTT
Found at i:73484 original size:190 final size:190
Alignment explanation
Indices: 73254--73644 Score: 665
Period size: 190 Copynumber: 2.1 Consensus size: 190
73244 CATCTTGAAT
* *
73254 TGTAGGTCTTACAGATGACCCGAAGGTTTTAAATATCAAAATGCTCCCGAAGGCTTTTTGAAAAC
1 TGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
* *
73319 ATCCTTCACTGTAGGTCTTATAGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAG
66 ATCCTACACTGTAGGTCTTATAGATGGCCCTAACGTCTTATCATCTTGCACTGTAGGTCTTACAG
* *
73384 ATGACCCAGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCAC
131 ATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATCCTGCAC
* *
73444 TGTAGGTCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
1 TGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
* *
73509 ATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTATTATCTTGCACTGTAGGTCTTACAG
66 ATCCTACACTGTAGGTCTTATAGATGGCCCTAACGTCTTATCATCTTGCACTGTAGGTCTTACAG
* * *
73574 ATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATCTTGCAT
131 ATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATCCTGCAC
73634 TGTAGGTCTTA
1 TGTAGGTCTTA
73645 TGGATGGCCC
Statistics
Matches: 188, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
190 188 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (190 bp):
TGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
ATCCTACACTGTAGGTCTTATAGATGGCCCTAACGTCTTATCATCTTGCACTGTAGGTCTTACAG
ATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATCCTGCAC
Found at i:73486 original size:74 final size:74
Alignment explanation
Indices: 73360--73528 Score: 293
Period size: 74 Copynumber: 2.3 Consensus size: 74
73350 AAGGTCTTAT
* *
73360 CATCTTGCACTGTAGGTCTTACAGATGACCCAGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCCTGCACTGTAGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
73425 TTTTGAAAA
66 TTTTGAAAA
**
73434 CATCCTGCACTGTAGGTCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCCTGCACTGTAGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
73499 TTTTGAAAA
66 TTTTGAAAA
*
73508 CATCCTACACTGTAGGTCTTA
1 CATCCTGCACTGTAGGTCTTA
73529 TGGATGGCCC
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 90 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (74 bp):
CATCCTGCACTGTAGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
TTTTGAAAA
Found at i:73643 original size:116 final size:116
Alignment explanation
Indices: 73434--73998 Score: 932
Period size: 116 Copynumber: 4.9 Consensus size: 116
73424 TTTTTGAAAA
* *
73434 CATCCTGCACTGTAGGTCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
* * * *
73499 TTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTAT
66 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* *
73550 TATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
* * *
73615 TTTTGAAAACATCTTGCATTGTAGGTCTTATGGATGGCCCTGTGGTCTTAT
66 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* * *
73666 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAACTCCCAAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
* *
73731 TTTTGAAAACATCATGCACTGTAGGTCCTATGGATGGCTCTGAGGTCTTAT
66 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* *
73782 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCCTTAAATATCAAAAAGCTCCCGATGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
*
73847 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
66 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* * *
73898 CATCTTGCACTGTAGGTCTTACAGATGACCCAGAGGTTTTAAATATCAAAAAACTCCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
73963 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATG
66 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATG
73999 TGGGAAATAG
Statistics
Matches: 417, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 417 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (116 bp):
CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
Found at i:73686 original size:306 final size:306
Alignment explanation
Indices: 73128--73757 Score: 994
Period size: 306 Copynumber: 2.1 Consensus size: 306
73118 GAGGTCTTAT
* * * *
73128 CATCTTGCACTGTAGGTCTTATAGATGACCTGGGAGTTTTAAATATCAAAAAGCTCCCGAAGTCA
1 CATCATGCACTGTAGGTCTTACAGATGACCTGGGAGCTTTAAATATCAAAAAGCTCCCGAAGGCA
* * * * *
73193 TTTTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGAATTGTA
66 TTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTATCATCTTGAACTGTA
* * *
73258 GGTCTTACAGATGACCCGAAGGTTTTAAATATCAAAATGCTCCCGAAGGCTTTTTGAAAACATCC
131 GGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATCC
73323 TTCACTGTAGGTCTTATAGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGA
196 TTCACTGTAGGTCTTATAGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGA
* * * *
73388 CCCAGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
261 CCCAGAGGCTTTAAATATAAAAAAACTCCCAAAGGCTTTTTGAAAA
*
73434 CATCCTGCACTGTAGGTCTTACAGATGACCT-GGAGGCTTTAAATATCAAAAAGCTCCCGAAGGC
1 CATCATGCACTGTAGGTCTTACAGATGACCTGGGA-GCTTTAAATATCAAAAAGCTCCCGAAGGC
* * *
73498 TTTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTATTATCTTGCACTGT
65 ATTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTATCATCTTGAACTGT
*
73563 AGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACAT-
130 AGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATC
* * **
73627 CTTGCATTGTAGGTCTTATGGATGGCCCTGTGGTCTTATCATCTTGCACTGTAGGTCTTACAGAT
195 CTT-CACTGTAGGTCTTATAGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGAT
*
73692 GACCCGGAGGCTTTAAATATAAAAAAACTCCCAAAGGCTTTTTGAAAA
259 GACCCAGAGGCTTTAAATATAAAAAAACTCCCAAAGGCTTTTTGAAAA
73740 CATCATGCACTGTAGGTC
1 CATCATGCACTGTAGGTC
73758 CTATGGATGG
Statistics
Matches: 296, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
305 6 0.02
306 290 0.98
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (306 bp):
CATCATGCACTGTAGGTCTTACAGATGACCTGGGAGCTTTAAATATCAAAAAGCTCCCGAAGGCA
TTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTATCATCTTGAACTGTA
GGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATCC
TTCACTGTAGGTCTTATAGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGA
CCCAGAGGCTTTAAATATAAAAAAACTCCCAAAGGCTTTTTGAAAA
Found at i:73917 original size:22 final size:23
Alignment explanation
Indices: 73856--73918 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
73846 TTTTTGAAAA
*
73856 CATCCTGCACTGTAGGTCTTATG
1 CATCTTGCACTGTAGGTCTTATG
* * *
73879 GA--TGGCCCTG-AGGTCTTAT-
1 CATCTTGCACTGTAGGTCTTATG
73898 CATCTTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
73919 CAGATGACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 11 0.37
22 8 0.27
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
CATCTTGCACTGTAGGTCTTATG
Found at i:74682 original size:22 final size:22
Alignment explanation
Indices: 74657--74711 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
74647 AATAAAGCTC
* *
74657 TCATGTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAACAGAATCTA
*
74679 TCATCTTTGAAAACAGAATTTA
1 TCATCTTTGAAAACAGAATCTA
74701 TCATCTTTGAA
1 TCATCTTTGAA
74712 TAATGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAACAGAATCTA
Found at i:74994 original size:26 final size:27
Alignment explanation
Indices: 74951--75004 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
74941 CAGCTTCTCT
* *
74951 TCTTGGGGTTGAAGAATTGAAATATCA
1 TCTTGGGGTTAAAAAATTGAAATATCA
74978 TCTT-GGGTTAAAAAATTGAAATATCA
1 TCTTGGGGTTAAAAAATTGAAATATCA
75004 T
1 T
75005 GATCGTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.35
Consensus pattern (27 bp):
TCTTGGGGTTAAAAAATTGAAATATCA
Found at i:75189 original size:54 final size:53
Alignment explanation
Indices: 75038--75191 Score: 218
Period size: 54 Copynumber: 2.8 Consensus size: 53
75028 AGAATAACTA
* * *
75038 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTCCTGCACAGAT
1 GTTCGT-AAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAAAT
* *
75092 GTTCGTAATACATTTGACAACACATTCATCCTTTCCCGTGGCTTCTGCCCAAAT
1 GTTCGTAA-ACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAAAT
* *
75146 GTTCGCAAAGCATTTGACAACACATTCATACTTTCCTGTGGCTTCT
1 GTTCGTAAA-CATTTGACAACACATTCATCCTTTCCTGTGGCTTCT
75192 ACTCAGATTT
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 3 0.03
54 87 0.97
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (53 bp):
GTTCGTAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAAAT
Found at i:78086 original size:5 final size:5
Alignment explanation
Indices: 78070--78130 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
78060 GATTCAATAT
*
78070 TTTTC -TTT- TTTTC TTTTC TTTTC ATTTTTT TTTTC TTTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC --TTTTC TTTTC -TTTTC TTTTC
* *
78116 TCTTC TTTTA TTTTC
1 TTTTC TTTTC TTTTC
78131 CTCTTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
4 6 0.13
5 30 0.67
6 5 0.11
7 4 0.09
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:78108 original size:28 final size:27
Alignment explanation
Indices: 78069--78145 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 27
78059 CGATTCAATA
*
78069 TTTTTCTT-TTTTTCTTTTCTTTTCATT
1 TTTTTTTTCTTTTTCTTTTCTTTTC-TT
*
78096 TTTTTTTTCTTTTTCTTTTCTCTTCTT
1 TTTTTTTTCTTTTTCTTTTCTTTTCTT
*
78123 TTATTTTCCTCTTTTT-TTTTCTT
1 TT-TTTT-TTCTTTTTCTTTTCTT
78146 ATGATGAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 11 0.26
28 25 0.58
29 7 0.16
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTTTTCTTTTTCTTTTCTTTTCTT
Found at i:78124 original size:23 final size:22
Alignment explanation
Indices: 78071--78124 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
78061 ATTCAATATT
78071 TTTCTTTTTTTCTTTTCTTTTCA
1 TTTC-TTTTTTCTTTTCTTTTCA
*
78094 TTTTTTTTTTCTTTTTCTTTTC-
1 TTTCTTTTTTC-TTTTCTTTTCA
78116 TCTTCTTTT
1 T-TTCTTTT
78125 ATTTTCCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTCTTTTTTCTTTTCTTTTCA
Found at i:78140 original size:16 final size:15
Alignment explanation
Indices: 78067--78140 Score: 50
Period size: 15 Copynumber: 5.1 Consensus size: 15
78057 CTCGATTCAA
78067 TATTTT-TCTTTTTT
1 TATTTTCTCTTTTTT
*
78081 TCTTTTCT-TTTCATTT
1 TATTTTCTCTTT--TTT
*
78097 T-TTTT-T-TCTTTT
1 TATTTTCTCTTTTTT
* *
78109 TCTTTTCTCTTCTTT
1 TATTTTCTCTTTTTT
78124 TATTTTCCTCTTTTTT
1 TATTTT-CTCTTTTTT
78140 T
1 T
78141 TTCTTATGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
12 4 0.09
13 4 0.09
14 12 0.26
15 14 0.30
16 13 0.28
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTCTCTTTTTT
Found at i:78637 original size:14 final size:17
Alignment explanation
Indices: 78615--78651 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
78605 TCTAAATCAA
78615 TCTTTTTTTCTT-TT-T
1 TCTTTTTTTCTTCTTCT
78630 TCTTTTTTTCTTCTTCT
1 TCTTTTTTTCTTCTTCT
78647 TCTTT
1 TCTTT
78652 GAGTATGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TCTTTTTTTCTTCTTCT
Found at i:83558 original size:22 final size:23
Alignment explanation
Indices: 83511--83559 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
83501 AAAAAGATAT
83511 TAAAATATTTTTTATAAATTATAAA
1 TAAAATATTTTTTAT--ATTATAAA
83536 TAAAATATTTATTTAT-TTA-AAA
1 TAAAATATTT-TTTATATTATAAA
83558 TA
1 TA
83560 TCAGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.22
23 3 0.13
25 10 0.43
26 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAATATTTTTTATATTATAAA
Found at i:86637 original size:2 final size:2
Alignment explanation
Indices: 86630--86657 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
86620 TTTGTGAACA
86630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86658 TATGCTATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96586 original size:14 final size:14
Alignment explanation
Indices: 96567--96615 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
96557 TTTAGATTTT
96567 TTAAAATTACATTA
1 TTAAAATTACATTA
*
96581 TTAAAA--ATA-TA
1 TTAAAATTACATTA
*
96592 TTAAAAATACATTA
1 TTAAAATTACATTA
96606 TTGAAAATTA
1 TT-AAAATTA
96616 TAAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
13 2 0.07
14 10 0.36
15 6 0.21
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (14 bp):
TTAAAATTACATTA
Found at i:96595 original size:11 final size:11
Alignment explanation
Indices: 96579--96641 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
96569 AAAATTACAT
96579 TATTAAAAATA
1 TATTAAAAATA
96590 TATTAAAAATACA
1 TATTAAAAAT--A
*
96603 TTATTGAAAAT-
1 -TATTAAAAATA
96614 TA-T-AAAAT-
1 TATTAAAAATA
96622 T-TTAAAAATA
1 TATTAAAAATA
96632 TATTAAAAAT
1 TATTAAAAAT
96642 TCTATAATAC
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
8 7 0.16
9 6 0.14
10 3 0.07
11 18 0.41
13 1 0.02
14 9 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:96602 original size:25 final size:24
Alignment explanation
Indices: 96567--96620 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
96557 TTTAGATTTT
*
96567 TTAAAATTACATTATTAAAAATATA
1 TTAAAAATACATTATTAAAAAT-TA
*
96592 TTAAAAATACATTATTGAAAATTA
1 TTAAAAATACATTATTAAAAATTA
96616 -TAAAA
1 TTAAAA
96621 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 5 0.19
24 2 0.07
25 20 0.74
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
TTAAAAATACATTATTAAAAATTA
Found at i:98343 original size:27 final size:27
Alignment explanation
Indices: 98310--98362 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
98300 AAATAAGAAA
*
98310 TAAATCAGTGACCTAATTATAAAATAC
1 TAAATCAGTGACCTAAATATAAAATAC
98337 TAAATCAGTGACCTAAATATAAAATA
1 TAAATCAGTGACCTAAATATAAAATA
98363 TGCATAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (27 bp):
TAAATCAGTGACCTAAATATAAAATAC
Found at i:99797 original size:55 final size:55
Alignment explanation
Indices: 99735--100173 Score: 428
Period size: 55 Copynumber: 8.0 Consensus size: 55
99725 ATAAGTTTGT
* *
99735 TCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTAAATAAACGAGTTTGC
1 TCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGAGTCTGC
* * *
99790 TCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGC
1 TCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAAT-AAACGAGTCTGC
* * * *
99846 TCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAAAATCTTCAATAAACGGGTCTGC
1 TCCCTATTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAATAAACGAGTCTGC
* * *
99901 TCCCTATTCGTTCAGGGAGTATAAGACTCGAATAACCTTCAATAAAAC-AGGTCCT-C
1 TCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAAT-AAACGA-GT-CTGC
* * * * *
99957 TCTCTATTCCTTCAGAGAGTAT-AGAACTCAAAAAATCTTCAATAAACGGGTCTGC
1 TCCCTATTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAATAAACGAGTCTGC
* * * *
100012 TCCCTATTCATTCAGGGAGTAT-AGAACTCGAACAATCTTCAACAAATGTGTCTGC
1 TCCCTATTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAATAAACGAGTCTGC
* * * * * ** *** *
100067 TCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCGACGAACTTTTCCGC
1 TCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGAGTCTGC
* * * *
100122 TCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACGAGTTTGC
1 TCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGAGTCTGC
100173 T
1 T
100174 TCACTACTCT
Statistics
Matches: 324, Mismatches: 50, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
51 17 0.05
54 2 0.01
55 214 0.66
56 89 0.27
57 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (55 bp):
TCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGAGTCTGC
Found at i:99932 original size:111 final size:111
Alignment explanation
Indices: 99738--100106 Score: 519
Period size: 111 Copynumber: 3.3 Consensus size: 111
99728 AGTTTGTTCC
* * * * *
99738 CTATTCCTTCAGGGAGTATA-AGACTCGAACAATCTTAAATAAACGAGTTTGCTCCCTATTCGTT
1 CTATTCCTTCAGAGAGTATAGA-ACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTT
99802 CAGGGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
65 CAGGGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
99849 CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTC
* * * *
99914 AGGGAGTATAAGACTCGAATAACCTTCAATAAAACAGGTCCTCTCT
66 AGGGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
* *
99960 CTATTCCTTCAGAGAGTATAGAACTCAAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCATTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTC
* * * * *
100025 AGGGAGTAT-AGAACTCGAACAATCTTCAA-CAAATGTGTCTGCTCC
66 AGGGAGTATAAG-ACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
* * * *
100070 CTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTC
100107 GACGAACTTT
Statistics
Matches: 231, Mismatches: 25, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
110 43 0.19
111 187 0.81
112 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (111 bp):
CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTC
AGGGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
Found at i:100006 original size:166 final size:164
Alignment explanation
Indices: 99735--100152 Score: 491
Period size: 166 Copynumber: 2.5 Consensus size: 164
99725 ATAAGTTTGT
* *
99735 TCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTAAATAAACGAGT-TTGCTCCCTATTC
1 TCCCTATT-CTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACG-GTCCT-CTCCCTATTC
* * * * * *
99799 GTTCAGGGAGTATA-AGACTCGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGAG
63 CTTCAGAGAGTATAGA-ACTCAAAAAATCTTCAATAAAACGGGTCCGCTCCCTATTCATTCAGAG
*
99863 AGTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGC
127 AGTATAGAACTCGAAAAATCTTCAACAAACGGGTCTGC
* * *
99901 TCCCTATTCGTTCAGGGAGTATAAGACTCGAATAACCTTCAATAAAACAGGTCCTCTCTCTATTC
1 TCCCTATTC-TTCAGGGAGTATAAGACTCGAACAATCTTCAAT-AAAC-GGTCCTCTCCCTATTC
* *
99966 CTTCAGAGAGTATAGAACTCAAAAAATCTTCAAT-AAACGGGTCTGCTCCCTATTCATTCAGGGA
63 CTTCAGAGAGTATAGAACTCAAAAAATCTTCAATAAAACGGGTCCGCTCCCTATTCATTCAGAGA
* * *
100030 GTATAGAACTCGAACAATCTTCAACAAATGTGTCTGC
128 GTATAGAACTCGAAAAATCTTCAACAAACGGGTCTGC
* * * * ** ** *
100067 TCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCGACGAACTTTTCCGCTCCCTATTCC
1 TCCCTA-TTCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAAC-GGTCCTCTCCCTATTCC
*
100132 TTCAGAGAGTATAGGACTCAA
64 TTCAGAGAGTATAGAACTCAA
100153 TCTTCAACAA
Statistics
Matches: 215, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
165 37 0.17
166 129 0.60
167 46 0.21
168 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (164 bp):
TCCCTATTCTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGTCCTCTCCCTATTCCTT
CAGAGAGTATAGAACTCAAAAAATCTTCAATAAAACGGGTCCGCTCCCTATTCATTCAGAGAGTA
TAGAACTCGAAAAATCTTCAACAAACGGGTCTGC
Found at i:101583 original size:6 final size:7
Alignment explanation
Indices: 101533--101663 Score: 62
Period size: 7 Copynumber: 18.7 Consensus size: 7
101523 TTTTTTCTAT
101533 TTTTTCA
1 TTTTTCA
101540 TTTTTC-
1 TTTTTCA
**
101546 TCTTTTTG
1 T-TTTTCA
101554 TTTTTCA
1 TTTTTCA
101561 TTTTT--
1 TTTTTCA
* *
101566 TCTTCCA
1 TTTTTCA
101573 TTTTTTC-
1 -TTTTTCA
101580 TTTTTCTA
1 TTTTTC-A
101588 TTTTTCA
1 TTTTTCA
101595 -TTTTCA
1 TTTTTCA
101601 TTTTT--
1 TTTTTCA
**
101606 TTCATCA
1 TTTTTCA
101613 TTTTTCA
1 TTTTTCA
101620 TTTTTTCTCA
1 --TTTT-TCA
*
101630 TTTTTCT
1 TTTTTCA
101637 TTTCTTC-
1 TTT-TTCA
*
101644 TTTTTCT
1 TTTTTCA
101651 TCTTTTCA
1 T-TTTTCA
101659 TTTTT
1 TTTTT
101664 TATTATTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
5 6 0.06
6 16 0.17
7 42 0.44
8 24 0.25
9 4 0.04
10 3 0.03
ACGTcount: A:0.08, C:0.17, G:0.01, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:101606 original size:41 final size:41
Alignment explanation
Indices: 101515--101684 Score: 161
Period size: 41 Copynumber: 4.4 Consensus size: 41
101505 TCTTGAACCC
*
101515 CATTTT-ATTTTTTTC-T-ATTTTTTCATTTTTCTCTTTTT
1 CATTTTCATTTTTTTCTTCATTTTTTCATTTTTCTATTTTT
**
101553 GTTTTTCA-TTTTTTCTTCCATTTTTTC-TTTTTCTATTTTT
1 CATTTTCATTTTTTTCTT-CATTTTTTCATTTTTCTATTTTT
*
101593 CATTTTCATTTTTTTCATCA-TTTTTCATTTTTTCTCATTTTT
1 CATTTTCATTTTTTTCTTCATTTTTTCA-TTTTTCT-ATTTTT
*
101635 C-TTTTC-TTCTTTTTCTTC---TTTTCATTTTT-TATTATT
1 CATTTTCATT-TTTTTCTTCATTTTTTCATTTTTCTATTTTT
101671 --TTTTCATTTTTTTC
1 CATTTTCATTTTTTTC
101685 CTTTTCTCTT
Statistics
Matches: 114, Mismatches: 8, Indels: 23
0.79 0.06 0.16
Matches are distributed among these distances:
35 11 0.10
36 7 0.06
37 1 0.01
38 16 0.14
39 14 0.12
40 22 0.19
41 36 0.32
42 7 0.06
ACGTcount: A:0.10, C:0.15, G:0.01, T:0.74
Consensus pattern (41 bp):
CATTTTCATTTTTTTCTTCATTTTTTCATTTTTCTATTTTT
Found at i:101683 original size:9 final size:9
Alignment explanation
Indices: 101595--101689 Score: 70
Period size: 9 Copynumber: 10.1 Consensus size: 9
101585 CTATTTTTCA
101595 TTTTCATTT
1 TTTTCATTT
*
101604 TTTTCATCAT
1 TTTTCAT-TT
101614 TTTTCATTT
1 TTTTCATTT
101623 TTTCTCATTTTT
1 TTT-TCA--TTT
101635 CTTTTC-TTCT
1 -TTTTCATT-T
*
101645 TTTTC-TTC
1 TTTTCATTT
101653 TTTTCATTT
1 TTTTCATTT
*
101662 TTTATTA-TT
1 TTT-TCATTT
101671 TTTTCATTT
1 TTTTCATTT
*
101680 TTTTCCTTT
1 TTTTCATTT
101689 T
1 T
101690 CTCTTTTATT
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.10
9 41 0.59
10 14 0.20
12 5 0.07
13 3 0.04
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTCATTT
Found at i:101689 original size:17 final size:17
Alignment explanation
Indices: 101595--101689 Score: 55
Period size: 19 Copynumber: 5.1 Consensus size: 17
101585 CTATTTTTCA
*
101595 TTTTCATTTTTTTCATCAT
1 TTTTCATTTTTTTC--CTT
*
101614 TTTTCATTTTTTCTCATT
1 TTTTCATTTTTT-TCCTT
** *
101632 TTTCTTTTCTTCTTTTTCTT
1 TTT-TCAT-TT-TTTTCCTT
**
101652 CTTTTCATTTTTTATTATT
1 -TTTTCATTTTTT-TCCTT
101671 TTTTCATTTTTTTCCTT
1 TTTTCATTTTTTTCCTT
101688 TT
1 TT
101690 CTCTTTTATT
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
17 5 0.08
18 19 0.32
19 20 0.34
20 9 0.15
21 6 0.10
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCATTTTTTTCCTT
Found at i:101690 original size:64 final size:60
Alignment explanation
Indices: 101573--101696 Score: 137
Period size: 64 Copynumber: 2.0 Consensus size: 60
101563 TTTTCTTCCA
101573 TTTTTTCTTTTTCTATTTTTCATTTTCATTTTTTTCATCATTTTTCATTTTTTCTCATTTTTC
1 TTTTTTCTTTTTCTATTTTTCATTTTCATTTTTTT-ATCATTTTT-ATTTTTTCTC-TTTTTC
*
101636 TTTTCTTCTTTTTCT-TCTTTTCATTTTTTATTATTTTT-TCATTTTT-TTCCTTTTCTCTTTT
1 TTTT-TTCTTTTTCTAT-TTTTCA-TTTTCATT-TTTTTATCATTTTTATT--TTTTCTCTTTT
101697 ATTTCTTCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
62 2 0.04
63 9 0.17
64 31 0.57
65 7 0.13
66 5 0.09
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (60 bp):
TTTTTTCTTTTTCTATTTTTCATTTTCATTTTTTTATCATTTTTATTTTTTCTCTTTTTC
Found at i:113075 original size:10 final size:10
Alignment explanation
Indices: 113060--113095 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
113050 TATGTGGTCT
113060 AAATATAAAA
1 AAATATAAAA
113070 AAATAT--AA
1 AAATATAAAA
113078 AAATATAAAA
1 AAATATAAAA
113088 AAATATAA
1 AAATATAA
113096 CATGCTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAATATAAAA
Found at i:113104 original size:18 final size:18
Alignment explanation
Indices: 113060--113095 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
113050 TATGTGGTCT
113060 AAATATAAAAAAATATAA
1 AAATATAAAAAAATATAA
113078 AAATATAAAAAAATATAA
1 AAATATAAAAAAATATAA
113096 CATGCTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
AAATATAAAAAAATATAA
Found at i:113222 original size:27 final size:26
Alignment explanation
Indices: 113191--113243 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
113181 AAATCAGAAA
113191 TAAATCAGTGACCTAATCATAAAATAC
1 TAAATCAGTGACCTAAT-ATAAAATAC
113218 TAAATCAGTGACCTAATATAAAATAC
1 TAAATCAGTGACCTAATATAAAATAC
113244 GCATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26
Consensus pattern (26 bp):
TAAATCAGTGACCTAATATAAAATAC
Found at i:113502 original size:20 final size:18
Alignment explanation
Indices: 113460--113502 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
113450 ATTTGGAGGA
*
113460 CTAAAAACCTAAATTATC
1 CTAAAAACCTAAATTAAC
113478 CTAAAAACCTAATATATAAC
1 CTAAAAACCTAA-AT-TAAC
113498 CTAAA
1 CTAAA
113503 TAGAACACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 8 0.36
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (18 bp):
CTAAAAACCTAAATTAAC
Done.