Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 65
Found at i:5775088 original size:24 final size:23
Alignment explanation
Indices: 5775053--5775120 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
5775043 CAAAAAGGGC
* *
5775053 AAAAACAAAAAAGAAAAGAAACA
1 AAAAAAAAAAAAAAAAAGAAACA
*
5775076 AAAAAAAAGAAAAAAAAAGAAAGA
1 AAAAAAAA-AAAAAAAAAGAAACA
*
5775100 ACAAAAATCAAAAAGAAAAAG
1 A-AAAAA--AAAAAAAAAAAG
5775121 GGTCAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 7 0.19
24 14 0.38
25 5 0.14
26 9 0.24
27 2 0.05
ACGTcount: A:0.82, C:0.06, G:0.10, T:0.01
Consensus pattern (23 bp):
AAAAAAAAAAAAAAAAAGAAACA
Found at i:5775119 original size:14 final size:13
Alignment explanation
Indices: 5775059--5775119 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 13
5775049 GGGCAAAAAC
*
5775059 AAAAAAGAAAAGA
1 AAAAAAAAAAAGA
5775072 AACAAAAAAAAAGA
1 AA-AAAAAAAAAGA
5775086 AAAAAAAAGAAAGA
1 AAAAAAAA-AAAGA
5775100 ACAAAAATCAAAAAGA
1 A-AAAAA--AAAAAGA
5775116 AAAA
1 AAAA
5775120 GGGTCAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
13 8 0.19
14 18 0.43
15 8 0.19
16 6 0.14
17 2 0.05
ACGTcount: A:0.84, C:0.05, G:0.10, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:5775750 original size:22 final size:22
Alignment explanation
Indices: 5775722--5775775 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
5775712 GCTACCCCAT
5775722 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
5775744 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
5775766 CAAACCTTTG
1 CAAACCTTTG
5775776 CCCAAACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:5776811 original size:106 final size:106
Alignment explanation
Indices: 5776603--5777485 Score: 1417
Period size: 106 Copynumber: 8.3 Consensus size: 106
5776593 ATATCGTGTC
* * * ** * * * *
5776603 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGGCAAC-AATAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5776667 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
5776708 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5776773 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5776814 ACTCCAGATAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5776879 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
5776920 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5776985 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
5777026 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5777091 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5777132 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
5777197 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5777238 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACTGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
5777303 AATTTCACAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5777344 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5777409 AATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
5777450 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
5777486 ATATTGGACT
Statistics
Matches: 726, Mismatches: 51, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
105 46 0.06
106 680 0.94
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:5777485 original size:43 final size:43
Alignment explanation
Indices: 5777424--5777528 Score: 185
Period size: 43 Copynumber: 2.4 Consensus size: 43
5777414 CAGAGTCAAT
5777424 TTCAACTTCAC-AGCGAAGGATATTGGACTCAAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCAAGACAACGCAAG
*
5777467 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCAAGACAACGCAAG
5777510 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
5777529 GACCGCTGGT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
43 59 0.98
44 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCAAGACAACGCAAG
Found at i:5777515 original size:149 final size:149
Alignment explanation
Indices: 5777318--5777634 Score: 544
Period size: 149 Copynumber: 2.1 Consensus size: 149
5777308 CACAGCCAAT
*
5777318 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * * * *
5777383 CACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATT
66 CACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATATT
5777448 GGACTCAAGACAACGCAAG
131 GGACTCAAGACAACGCAAG
5777467 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
5777532 CGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACCAAGGATATT
66 CACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATATT
*
5777597 GGACTCCAGACAACGCAAG
131 GGACTCAAGACAACGCAAG
5777616 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
5777635 GACCGATGGT
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 158 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (149 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATATT
GGACTCAAGACAACGCAAG
Found at i:5777560 original size:255 final size:255
Alignment explanation
Indices: 5777212--5777740 Score: 916
Period size: 255 Copynumber: 2.1 Consensus size: 255
5777202 CAGAGCCAAT
*
5777212 TTCAACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGAC
* * *
5777277 TGCTGGTTGTCAACAAATAACTTCTCAATTTCACAGCCAATTTCAACTTCACAACGAAGGATATT
66 CGCTGGTTGTCAACAAACAACTTCTCAATTTCACAGCCAATTTCAACTTCACAACCAAGGATATT
*
5777342 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC-ACTGGTTGTCAACAAATAATTT
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGA-TGGTTGTCAACAAACAATTT
* *
5777406 CCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
195 CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAG
* *
5777467 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGAC
* *
5777532 CGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACCAAGGATATT
66 CGCTGGTTGTCAACAAACAACTTCTCAATTTCACAGCCAATTTCAACTTCACAACCAAGGATATT
* *
5777597 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTTAATAAACAATTTC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAACAAACAATTTC
*
5777662 CCAATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACACAAG
196 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAG
5777722 TTCAACTTCACAACGAAGG
1 TTCAACTTCACAACGAAGG
5777741 GACCGCTGGT
Statistics
Matches: 258, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
255 257 1.00
256 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (255 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGAC
CGCTGGTTGTCAACAAACAACTTCTCAATTTCACAGCCAATTTCAACTTCACAACCAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAACAAACAATTTC
CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAG
Found at i:5777570 original size:361 final size:360
Alignment explanation
Indices: 5777109--5777843 Score: 1193
Period size: 361 Copynumber: 2.0 Consensus size: 360
5777099 AGCCAATTTT
5777109 AACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCG
1 AACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCG
5777173 CTAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
65 CTAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
* * * *
5777238 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACTGCTGGTTGTCAACAAATAACTTCTC
130 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGATGGTTGTCAACAAACAACTTCCC
* *
5777303 AATTTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
195 AATTTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
* * * *
5777368 TCACGACGAAGGGACCACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGTCAATTTCAACTTC
260 TCACAACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* * *
5777433 ACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTC
325 ACAGCGAAGGA-ATTGGACCCAAGACAACACAAGCTC
*
5777470 AACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
1 AACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGC
* * *
5777535 TGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACCAAGGATATTGGA
66 TAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGGA
* * * *
5777600 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTTAATAAACAATTTCCCA
131 CTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGATGGTTGTCAACAAACAACTTCCCA
* * *
5777665 ATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACACAAGTTCAACTT
196 ATTTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTT
* * *
5777730 CACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCT
261 CACAACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
*
5777795 CAGCGAAGGACTTGGACCCAAGACAACACAAGCTC
326 CAGCGAAGGAATTGGACCCAAGACAACACAAGCTC
5777830 AACTTCACGACGAA
1 AACTTCACGACGAA
5777844 AGGGTGGCTG
Statistics
Matches: 345, Mismatches: 28, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
360 35 0.10
361 309 0.90
362 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (360 bp):
AACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGC
TAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGGA
CTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGATGGTTGTCAACAAACAACTTCCCA
ATTTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTT
CACAACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
CAGCGAAGGAATTGGACCCAAGACAACACAAGCTC
Found at i:5777578 original size:106 final size:106
Alignment explanation
Indices: 5777467--5778019 Score: 696
Period size: 106 Copynumber: 5.3 Consensus size: 106
5777457 ACAACGCAAG
*
5777467 TTCAACTTCAC-GACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTCAACTTCACAG-CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGA
* *
5777531 CCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAAT
65 CCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * *
5777573 TTCAACTTCACAACCAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGAC
* * * *
5777638 CGATGGTTGTTAATAAACAATTTCCCAATTTCAGAGCCAAT
66 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * *
5777679 TTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGAC
*
5777744 CGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
66 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * *
5777785 TTCAACTTCTCAGCGAAGGA-CTTGGAC-CCAAGACAACACAAGCTCAACTTCACGACGAAAGGG
1 TTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACACAAGTTCAACTTCACGACG-AAGGG
** * * *
5777848 -TGGCTGGTTGTCAA-TAA-AA-TT-TC-A-TTCAGAGTCAAT
64 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * * *
5777884 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAAAACAAGTTCAACTTCACAATGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGAC
* * ** *
5777949 GGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAAT
66 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
5777990 TTCAACTTCAC-GACGGAGGATATTAGACTC
1 TTCAACTTCACAG-CGAAGGATATTGGACTC
5778020 GGAACAATGC
Statistics
Matches: 391, Mismatches: 43, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
99 35 0.09
100 43 0.11
101 4 0.01
102 4 0.01
103 4 0.01
104 4 0.01
105 44 0.11
106 253 0.65
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (106 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGAC
CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
Found at i:5777775 original size:573 final size:566
Alignment explanation
Indices: 5776894--5778019 Score: 1792
Period size: 573 Copynumber: 2.0 Consensus size: 566
5776884 CAGAGCCAAT
5776894 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
5776959 CGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
66 CGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATATT
*
5777024 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAACTTC
* * *
5777089 CCAATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
196 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAA
*
5777154 CTTCACAACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACT
261 CTTCACAACGAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACT
* *
5777219 TCACAACAAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAAGGACT-GCTG
326 TCACAACAAAGGA-ATTGGAC-CCAAGACAACACAAGCTCAACTTCACGACGAAAGG-CTGGCTG
5777282 GTTGTCAACAAATAACTTCTCAATTTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
388 GTTGTCAA-AAA-AA-TT-TC-A-TTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
* ** * *
5777347 CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAATAATTTCCCAAT
447 CAAGACAAAACAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAACAATTTCCCAAT
* * *
5777412 TTCAGAGTCAATTTCAACTTCAC-AGCGAAGGATATTGGACTCAAGACAACGCAAG
512 TCCAGAGCCAATTTCAACTTCACGA-CGAAGGATATTAGACTCAAGACAACGCAAG
5777467 TTCAACTTCAC-GACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTCAACTTCACAG-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
*
5777531 CCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACCAAGGATAT
65 CCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATAT
* *
5777596 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTTAATAAACAATTT
130 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAACTT
*
5777661 CCCAATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACACAAGTTCA
195 CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCA
* *
5777726 ACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
260 ACTTCACAACGAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
* * * * *
5777791 TTCTCAGCGAAGGACTTGGACCCAAGACAACACAAGCTCAACTTCACGACGAAAGGGTGGCTGGT
325 TTCACAACAAAGGAATTGGACCCAAGACAACACAAGCTCAACTTCACGACGAAAGGCTGGCTGGT
* * * *
5777856 TGTCAATAAAATTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAA
390 TGTCAAAAAAATTTCATTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAA
* ** **
5777921 AACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGC
455 AACAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAACAATTTCCCAATTCCAGAGC
*
5777986 CAATTTCAACTTCACGACGGAGGATATTAGACTC
520 CAATTTCAACTTCACGACGAAGGATATTAGACTC
5778020 GGAACAATGC
Statistics
Matches: 512, Mismatches: 37, Indels: 15
0.91 0.07 0.03
Matches are distributed among these distances:
566 129 0.25
567 2 0.00
568 2 0.00
569 2 0.00
570 2 0.00
571 5 0.01
572 49 0.10
573 321 0.63
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (566 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAACTTC
CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAA
CTTCACAACGAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACT
TCACAACAAAGGAATTGGACCCAAGACAACACAAGCTCAACTTCACGACGAAAGGCTGGCTGGTT
GTCAAAAAAATTTCATTCACAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAAA
ACAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAACAATTTCCCAATTCCAGAGCC
AATTTCAACTTCACGACGAAGGATATTAGACTCAAGACAACGCAAG
Found at i:5777947 original size:205 final size:211
Alignment explanation
Indices: 5777467--5778019 Score: 746
Period size: 205 Copynumber: 2.6 Consensus size: 211
5777457 ACAACGCAAG
* * *
5777467 TTCAACTTCAC-GACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTCAACTTCACAG-CGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGA
* *
5777531 CCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACCAAGGATAT
65 CCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATAT
* * *
5777596 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTTAATAAACAATTT
130 TGGACTCCAGACAACACAAGCTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAATTT
5777661 CCCAATTTCAGAGCCAAT
195 -CCAATTTCAGAGCCAAT
*
5777679 TTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGAC
* * * * *
5777744 CGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGA-CTT
66 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATATT
** *
5777808 GGAC-CCAAGACAACACAAGCTCAACTTCACGACGAAAGGG-TGGCTGGTTGTCAAT-AA-AATT
131 GGACTCC-AGACAACACAAGCTCAACTTCACGACG-AAGGGACCGATGGTTGTCAATAAACAATT
*
5777869 T-C-A-TTCAGAGTCAAT
194 TCCAATTTCAGAGCCAAT
* *
5777884 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAAAACAAGTTCAACTTCACAATGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGAC
* * ** * * **
5777949 GGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATT
66 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATATT
*
5778014 AGACTC
131 GGACTC
5778020 GGAACAATGC
Statistics
Matches: 303, Mismatches: 33, Indels: 15
0.86 0.09 0.04
Matches are distributed among these distances:
205 124 0.41
206 6 0.02
207 2 0.01
209 5 0.02
210 4 0.01
211 42 0.14
212 119 0.39
213 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (211 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGAC
CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACCAAGGATATT
GGACTCCAGACAACACAAGCTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAATTTC
CAATTTCAGAGCCAAT
Found at i:5778840 original size:37 final size:37
Alignment explanation
Indices: 5778754--5778854 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 37
5778744 TTCGTCCTAC
* * * **
5778754 TAGGATTCAAACTCATAAAAATATGATAGAATTTTGC
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAA
*
5778791 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTAA
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAA
* * *
5778828 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
5778855 CCACAAACAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAA
Found at i:5779600 original size:2 final size:2
Alignment explanation
Indices: 5779593--5779623 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5779583 TTTATTTTGT
5779593 TA TA TA 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 T
5779624 GCGTATGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5779790 original size:2 final size:2
Alignment explanation
Indices: 5779785--5779813 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5779775 TTTTATTTAT
5779785 TA TA 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 T
5779814 TATTCGTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5779924 original size:18 final size:21
Alignment explanation
Indices: 5779901--5779948 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 21
5779891 TATTTGTTTT
5779901 TTTACTTAC-T-ATTTTATC-
1 TTTACTTACTTCATTTTATCA
*
5779919 TTTACTTTCTTCATTTTATCA
1 TTTACTTACTTCATTTTATCA
5779940 TTTTACTTA
1 -TTTACTTA
5779949 ATTTGTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 8 0.33
19 1 0.04
20 8 0.33
22 7 0.29
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTACTTACTTCATTTTATCA
Found at i:5785644 original size:14 final size:14
Alignment explanation
Indices: 5785625--5785668 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
5785615 TAACAGACTT
5785625 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
5785639 GTCTGTTTTCTACACA
1 GTCTGTTTTCT--ACA
*
5785655 GTCTATTTTCTACA
1 GTCTGTTTTCTACA
5785669 TGGTATCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 14 0.52
16 13 0.48
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:5785657 original size:16 final size:16
Alignment explanation
Indices: 5785625--5785668 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
5785615 TAACAGACTT
5785625 GTCTGTTTTCT--ACA
1 GTCTGTTTTCTACACA
5785639 GTCTGTTTTCTACACA
1 GTCTGTTTTCTACACA
*
5785655 GTCTATTTTCTACA
1 GTCTGTTTTCTACA
5785669 TGGTATCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 11 0.41
16 16 0.59
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (16 bp):
GTCTGTTTTCTACACA
Found at i:5789511 original size:23 final size:23
Alignment explanation
Indices: 5789481--5789527 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5789471 CCAAAGCCCT
5789481 TCCACGAGTGACTTTTGATGAGA
1 TCCACGAGTGACTTTTGATGAGA
5789504 TCCACGAGTGACTTTTGATGAGA
1 TCCACGAGTGACTTTTGATGAGA
5789527 T
1 T
5789528 GTCATTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (23 bp):
TCCACGAGTGACTTTTGATGAGA
Found at i:5789801 original size:14 final size:14
Alignment explanation
Indices: 5789782--5789825 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
5789772 TAACAGACTT
5789782 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
*
5789796 GTCTGTGTTCTACACA
1 GTCTGTTTTCT--ACA
5789812 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
5789826 TCTAGGAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 13 0.50
16 13 0.50
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:5789812 original size:16 final size:16
Alignment explanation
Indices: 5789793--5789825 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5789783 TCTGTTTTCT
5789793 ACAGTCTGTGTTCTAC
1 ACAGTCTGTGTTCTAC
*
5789809 ACAGTCTGTTTTCTAC
1 ACAGTCTGTGTTCTAC
5789825 A
1 A
5789826 TCTAGGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (16 bp):
ACAGTCTGTGTTCTAC
Found at i:5796640 original size:39 final size:40
Alignment explanation
Indices: 5796586--5796665 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
5796576 GCCTCCGTCA
*
5796586 ACCCCTTGATCCATCCTTGGATACGAATATAT-TATATAT
1 ACCCCTTGATCCATCCTTAGATACGAATATATATATATAT
5796625 ACCCCTTGATCCATCCTTAGATACGAATATATATATATAT
1 ACCCCTTGATCCATCCTTAGATACGAATATATATATATAT
5796665 A
1 A
5796666 TATATGCCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.35
Consensus pattern (40 bp):
ACCCCTTGATCCATCCTTAGATACGAATATATATATATAT
Found at i:5802080 original size:18 final size:18
Alignment explanation
Indices: 5802044--5802082 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5802034 CTGAGTCAAC
* *
5802044 AGCTGTTAGGAGTTTGTT
1 AGCTGTTAGGAGGTCGTT
*
5802062 AGCTGTTAGTAGGTCGTT
1 AGCTGTTAGGAGGTCGTT
5802080 AGC
1 AGC
5802083 AGTAACTGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.33, T:0.38
Consensus pattern (18 bp):
AGCTGTTAGGAGGTCGTT
Found at i:5805448 original size:8 final size:7
Alignment explanation
Indices: 5805435--5805474 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 7
5805425 ATCAATTTAA
5805435 AAAATAAT
1 AAAAT-AT
5805443 AAAATAT
1 AAAATAT
5805450 AAATATAT
1 AAA-ATAT
5805458 AAATATAT
1 AAA-ATAT
5805466 AAAATAT
1 AAAATAT
5805473 AA
1 AA
5805475 TTATAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 11 0.35
8 20 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATAT
Found at i:5805467 original size:23 final size:23
Alignment explanation
Indices: 5805436--5805484 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
5805426 TCAATTTAAA
5805436 AAATAATAAAATATAAATAT-AT
1 AAATAATAAAATATAAATATAAT
*
5805458 AAATATATAAAATATAATTATAAT
1 AAATA-ATAAAATATAAATATAAT
5805482 AAA
1 AAA
5805485 AATTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATAATAAAATATAAATATAAT
Found at i:5805472 original size:15 final size:15
Alignment explanation
Indices: 5805412--5805485 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
5805402 AACTATTATT
*
5805412 ATATATGAAATATATCA
1 ATATAT-AAA-ATATAA
* *
5805429 ATTTAAAAAATAATAA
1 ATATATAAAAT-ATAA
5805445 A-ATATAAATATATAA
1 ATATATAAA-ATATAA
5805460 ATATATAAAATATAA
1 ATATATAAAATATAA
*
5805475 TTATAATAAAA
1 ATAT-ATAAAA
5805486 ATTATTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 21 0.45
16 22 0.47
17 4 0.09
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (15 bp):
ATATATAAAATATAA
Found at i:5815414 original size:66 final size:63
Alignment explanation
Indices: 5815287--5815414 Score: 148
Period size: 66 Copynumber: 2.0 Consensus size: 63
5815277 AAGGGGAAGT
* * *
5815287 GGGTGGAAAAATAGGAGTGGTGAAAGAATTTGAGGAGTTGAGGGGTGAACTTAAGATGGTGAC
1 GGGTGGAAAAATAGGAGTGGTGAAAGAAGTTGAGGAATTGAGGGGTGAACTTAAGAGGGTGAC
* * * * * *
5815350 GGGTGGAAAAATTGATGGAGTGGTGAAGGGAGTTGTGGAATTGAGGTGTGAACTTACGGGGGTGA
1 GGGTGGAAAAA-T-A-GGAGTGGTGAAAGAAGTTGAGGAATTGAGGGGTGAACTTAAGAGGGTGA
5815415 AGGGGTGGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
63 11 0.21
64 1 0.02
65 1 0.02
66 40 0.75
ACGTcount: A:0.30, C:0.03, G:0.44, T:0.23
Consensus pattern (63 bp):
GGGTGGAAAAATAGGAGTGGTGAAAGAAGTTGAGGAATTGAGGGGTGAACTTAAGAGGGTGAC
Found at i:5820427 original size:199 final size:200
Alignment explanation
Indices: 5819985--5821191 Score: 1687
Period size: 199 Copynumber: 6.0 Consensus size: 200
5819975 TTTTAAAATT
* *
5819985 GTATCGATCTCAAAAACATCGAAACGGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * * *
5820050 GTAAGAATATATCAGTTTTATGACAGAATAGGTCAACATAATATATCGATACCTTTTACATTTGT
66 GTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTACATTTGT
** * * *
5820115 GTCGATACTTTTGGT---TTA-GAATGCCCAACAAGGTGCACACATAAAGTGTCGATACACTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAT
5820176 TGTAA
196 TGTAA
* ** *
5820181 GTATCAATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTTTAATGTAATCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * * * * *
5820246 GTAAAAATATATCAGTTTTATGACAGAGTAGGT-AAAATTAATGTATCAATACTTTTTAAATTAG
66 GTAAAAATATACCAGTTTTATGACAGAATAGGTCAACA-TAATGTATCGATACTTTTTACATTTG
*
5820310 TGTCGATAATTTTGGTCCAGAATGAATGCCCAACGA-GTGCACGCATAAAGTGTCGATACATTTA
130 TGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA
5820374 TTGTAA
195 TTGTAA
* *
5820380 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTAAAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * * * * * *
5820445 GTAAGAATATAACGGTTTTATGACAAAATATGTCAACACAATGTATCGATACGTTTTACATTTGT
66 GTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTACATTTGT
*
5820510 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTTGATACATTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAT
5820575 TGTAA
196 TGTAA
* * *
5820580 GTATCGATCCCAAAAACATCGAAGCCGATAATTATAAAATAATAGGTAAATTTACAATGTAATCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* *
5820645 GTAAGGGTAAGGATATACCAGTTTTATGAAAGAATAGGTCAACATAATGTATCCATACTTTTTAC
66 GTAA----AA--ATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTAC
* *
5820710 ATTTGTGTCGATACTTTTGGTCCAAAATGAATGCCCAACGA-GTGCACGCATAAAGTGTCGAAAC
125 ATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATAC
5820774 ATTTATTGTAA
190 ATTTATTGTAA
* * * * *
5820785 GAATCGATTCCAAAAACATCGAAACCGATAATTATAAAGTAACAAGTAAATTTACAATGTAACAG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * * *
5820850 ATAAGAATATACC-GATTTTATGACATAATAGGTCAACATAATGTATCGATACGTTTTACATTTG
66 GTAAAAATATACCAG-TTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTACATTTG
** * *
5820914 TGTCGATACTTTTTTTTCCAGAATGAATGCCCAACGAGGTACACACATAAAGTGTCGATACATTT
130 TGTCGATAC-TTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTT
*
5820979 ATTATAA
194 ATTGTAA
** *
5820986 GTATCGATCCCAAAAACATCGAAATTGATAATTATAAAGTAAATAGGTATATTTACAATGTAACC
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGT-AATAGGTAAATTTACAATGTAACC
* * * *
5821051 AGTAAAAA-ATACCAGTTTTATGACAGAATAGGACAATATAATGTATTGATACTTTTTA-ATTTG
65 GGTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTACATTTG
* * *
5821114 TGTCGATACTTTTGGTCCAGAATGAATGCCTAAAGAGGTGCACGCATAAAGTTTCGATACATTTA
130 TGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA
5821179 TTGTAA
195 TTGTAA
5821185 GTATCGA
1 GTATCGA
5821192 CACATAATGA
Statistics
Matches: 892, Mismatches: 101, Indels: 33
0.87 0.10 0.03
Matches are distributed among these distances:
195 3 0.00
196 126 0.14
198 1 0.00
199 298 0.33
200 150 0.17
201 110 0.12
202 26 0.03
204 1 0.00
205 92 0.10
206 85 0.10
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (200 bp):
GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
GTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTACATTTGT
GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAT
TGTAA
Found at i:5820800 original size:405 final size:398
Alignment explanation
Indices: 5819985--5821191 Score: 1753
Period size: 405 Copynumber: 3.0 Consensus size: 398
5819975 TTTTAAAATT
*
5819985 GTATCGA-TCTCAAAAACATCGAAACGGATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
1 GTATCGATTC-CAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
* * * * *
5820049 GGTAAGAATATATCAGTTTTATGACAGAATAGGTCAACATAATATATCGATACCTTTTACATTTG
65 GGTAAGAATATAACGGTTTTATGACAAAATAGGTCAACATAATGTATCGATACGTTTTACATTTG
** * *
5820114 TGTCGATACTTTTGGT---TTA-GAATGCCCAACAAGGTGCACACATAAAGTGTCGATACACTTA
130 TGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA
* **
5820175 TTGTAAGTATCAATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTTTAATG
195 TTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATG
* *
5820240 TAATCGGTAAAAATATATCAGTTTTATGACAGAGTAGGT-AAAATTAATGTATCAATACTTTTTA
260 TAATCGGTAAAAATATACCAGTTTTATGACAGAATAGGTCAAAA-TAATGTATCAATACTTTTT-
* *
5820304 AATTAGTGTCGATAATTTTGGTCCAGAATGAATGCCCAACGAGTGCACGCATAAAGTGTCGATAC
323 AATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGTGCACGCATAAAGTGTCGATAC
5820369 ATTTATTGTAA
388 ATTTATTGTAA
* * *
5820380 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTAAAATGTAACCG
1 GTATCGATTCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* *
5820445 GTAAGAATATAACGGTTTTATGACAAAATATGTCAACACAATGTATCGATACGTTTTACATTTGT
66 GTAAGAATATAACGGTTTTATGACAAAATAGGTCAACATAATGTATCGATACGTTTTACATTTGT
* *
5820510 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTTGATACATTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAT
* *
5820575 TGTAAGTATCGATCCCAAAAACATCGAAGCCGATAATTATAAAATAATAGGTAAATTTACAATGT
196 TGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGT
* * *
5820640 AATCGGTAAGGGTAAGGATATACCAGTTTTATGAAAGAATAGGTCAACATAATGTATCCATACTT
261 AATCGGTAA----AA--ATATACCAGTTTTATGACAGAATAGGTCAAAATAATGTATCAATACTT
*
5820705 TTTACATTTGTGTCGATACTTTTGGTCCAAAATGAATGCCCAACGAGTGCACGCATAAAGTGTCG
320 TTTA-ATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGTGCACGCATAAAGTGTCG
*
5820770 AAACATTTATTGTAA
384 ATACATTTATTGTAA
* * * *
5820785 GAATCGATTCCAAAAACATCGAAACCGATAATTATAAAGTAACAAGTAAATTTACAATGTAACAG
1 GTATCGATTCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * * *
5820850 ATAAGAATATACCGATTTTATGACATAATAGGTCAACATAATGTATCGATACGTTTTACATTTGT
66 GTAAGAATATAACGGTTTTATGACAAAATAGGTCAACATAATGTATCGATACGTTTTACATTTGT
** *
5820915 GTCGATACTTTTTTTTCCAGAATGAATGCCCAACGAGGTACACACATAAAGTGTCGATACATTTA
131 GTCGATAC-TTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA
* ** *
5820980 TTATAAGTATCGATCCCAAAAACATCGAAATTGATAATTATAAAGTAAATAGGTATATTTACAAT
195 TTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGT-AATAGGTAAATTTACAAT
* * * * **
5821045 GTAACCAGTAAAAA-ATACCAGTTTTATGACAGAATAGGACAATATAATGTATTGATACTTTTTA
259 GTAATCGGTAAAAATATACCAGTTTTATGACAGAATAGGTCAAAATAATGTATCAATACTTTTTA
* * *
5821109 ATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCTAAAGAGGTGCACGCATAAAGTTTCGATAC
324 ATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGA-GTGCACGCATAAAGTGTCGATAC
5821174 ATTTATTGTAA
388 ATTTATTGTAA
5821185 GTATCGA
1 GTATCGA
5821192 CACATAATGA
Statistics
Matches: 728, Mismatches: 68, Indels: 27
0.88 0.08 0.03
Matches are distributed among these distances:
395 132 0.18
396 1 0.00
398 1 0.00
399 146 0.20
400 83 0.11
401 1 0.00
403 4 0.01
404 1 0.00
405 238 0.33
406 95 0.13
407 26 0.04
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (398 bp):
GTATCGATTCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
GTAAGAATATAACGGTTTTATGACAAAATAGGTCAACATAATGTATCGATACGTTTTACATTTGT
GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAT
TGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGT
AATCGGTAAAAATATACCAGTTTTATGACAGAATAGGTCAAAATAATGTATCAATACTTTTTAAT
TTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGTGCACGCATAAAGTGTCGATACATT
TATTGTAA
Found at i:5823949 original size:29 final size:30
Alignment explanation
Indices: 5823891--5823954 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
5823881 CAACAAATTG
* *
5823891 AAAA-AAGAAATAAAAAACAGTAATTAAAT
1 AAAATAAGAAACAAAAAACAGTAATGAAAT
5823920 AAAATAAGAAACAAAAAA-A-TAATGATAAT
1 AAAATAAGAAACAAAAAACAGTAATGA-AAT
5823949 AAAATA
1 AAAATA
5823955 TAAGTACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.16
29 14 0.45
30 12 0.39
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.17
Consensus pattern (30 bp):
AAAATAAGAAACAAAAAACAGTAATGAAAT
Found at i:5826009 original size:84 final size:84
Alignment explanation
Indices: 5825912--5826090 Score: 349
Period size: 84 Copynumber: 2.1 Consensus size: 84
5825902 TGAGTGCAAT
5825912 CGAAGGTCTTTGGTTGGCAGATAGCCTTTCTCGAATTAAGTTATGCTGCAAATGATGTGCCTTTG
1 CGAAGGTCTTTGGTTGGCAGATAGCCTTTCTCGAATTAAGTTATGCTGCAAATGATGTGCCTTTG
5825977 AGCTGAGCGTAGTCGATCC
66 AGCTGAGCGTAGTCGATCC
5825996 CGAAGGTCTTTGGTTGGCAGATAGCCTTTCTCGAATTAAGTTATGCTGCAAATGATGTGCCTTTG
1 CGAAGGTCTTTGGTTGGCAGATAGCCTTTCTCGAATTAAGTTATGCTGCAAATGATGTGCCTTTG
5826061 AGCTGAGCGTAGTCGATCC
66 AGCTGAGCGTAGTCGATCC
*
5826080 TGAAGGTCTTT
1 CGAAGGTCTTT
5826091 TGTGTTTCAA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 94 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (84 bp):
CGAAGGTCTTTGGTTGGCAGATAGCCTTTCTCGAATTAAGTTATGCTGCAAATGATGTGCCTTTG
AGCTGAGCGTAGTCGATCC
Found at i:5826177 original size:36 final size:36
Alignment explanation
Indices: 5826123--5826476 Score: 210
Period size: 36 Copynumber: 10.1 Consensus size: 36
5826113 CAAAGGTTGG
* *
5826123 TGTTTCAA-GAGAATCTGTCTCAAGAGAGACAAAAAT
1 TGTTTCAAGGA-AAACTGTCTCAAGAGAGACAAAATT
*
5826159 TGTTTCAAGGAAAACTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * *
5826196 AGTTCTAAAAG-AAATTGTCTCGAGAGAGACGAAATT
1 TGTT-TCAAGGAAAACTGTCTCAAGAGAGACAAAATT
* * * * *
5826232 TGATTAAAGGAAAA-TATATTC-A-A-AG----ATTT
1 TGTTTCAAGGAAAACTGT-CTCAAGAGAGACAAAATT
* * * *
5826261 TATTTCAAGGTAAAACTGCCTCAAGGGAGACGAAATT
1 TGTTTCAAGG-AAAACTGTCTCAAGAGAGACAAAATT
* **
5826298 TGTTTCAAGGAAAACAGAT-TC-A-A-AG----TTTT
1 TGTTTCAAGGAAAACTG-TCTCAAGAGAGACAAAATT
*
5826327 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATT
* *
5826363 TGTTTTAAGAGAAAA-TGTCTCAAGAGAGATAAAATT
1 TGTTTCAAG-GAAAACTGTCTCAAGAGAGACAAAATT
* *
5826399 TGTTT-TACGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGA-AAACTGTCTCAAGAGAGACAAAATT
* * *
5826435 TGTTTTAA-GAGAATCTATCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGA-AAACTGTCTCAAGAGAGACAAAA-TT
5826472 TGTTT
1 TGTTT
5826477 TGAGTAAATT
Statistics
Matches: 247, Mismatches: 43, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
28 1 0.00
29 29 0.12
30 7 0.03
31 3 0.01
32 2 0.01
33 6 0.02
34 3 0.01
35 13 0.05
36 130 0.53
37 49 0.20
38 4 0.02
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATT
Found at i:5826365 original size:65 final size:66
Alignment explanation
Indices: 5826206--5826377 Score: 211
Period size: 66 Copynumber: 2.6 Consensus size: 66
5826196 AGTTCTAAAA
* * * * *
5826206 GAAATTGTCTCGAGAGAGACGAAATTTGATTAAAGGAAAATATATTCAAAGATTTTATTTCAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACAGATTCAAAGATTTTATTTCAAGG
5826271 T
66 T
* * * * * *
5826272 AAAACTGCCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACAGATTCAAAGTTTTTGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACAGATTCAAAGATTTTATTTCAAGG
5826337 -
66 T
* *
5826337 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAA
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTAAAG-GAAAA
5826378 TGTCTCAAGA
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
65 30 0.34
66 59 0.66
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.28
Consensus pattern (66 bp):
GAAACTGTCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACAGATTCAAAGATTTTATTTCAAGG
T
Found at i:5826442 original size:72 final size:73
Alignment explanation
Indices: 5826337--5826477 Score: 239
Period size: 72 Copynumber: 1.9 Consensus size: 73
5826327 TGTTTCAAGG
* *
5826337 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAGATAAAA-TTTG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATCTCAAGAGAGACAAAACTTTG
5826401 TTTTACGA
66 TTTTACGA
**
5826409 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAATCTATCTCAAGAGAGACAAAACTTTG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATCTCAAGAGAGACAAAACTTTG
5826474 TTTT
66 TTTT
5826478 GAGTAAATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 56 0.88
73 8 0.12
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.30
Consensus pattern (73 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATCTCAAGAGAGACAAAACTTTG
TTTTACGA
Found at i:5828005 original size:95 final size:95
Alignment explanation
Indices: 5827868--5828067 Score: 247
Period size: 95 Copynumber: 2.1 Consensus size: 95
5827858 ATTGTATATT
* * * * *
5827868 TATTATAATCGCCTTTATCAGGCTAGCTAAATTTTATTCATAAAGCCATGGCGTTTAACCAATTG
1 TATTATAATCACCATTATCAGGCTAGCTAAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTG
* *
5827933 CTCTATAGAGACAAATCAAGCTTTATTGTA
66 CTCTAGAGAGACAAATCAAGATTTATTGTA
* * * **
5827963 TATTATAATCACCATTATCAGGTTAGTTGAATCTTATCCATAAAGCTGGGGCGTTTAACCAATTG
1 TATTATAATCACCATTATCAGGCTAGCTAAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTG
* * * *
5828028 CTTTAGAGGGGCAACTCAAGATTTATTGTA
66 CTCTAGAGAGACAAATCAAGATTTATTGTA
5828058 TATATATAAT
1 TAT-TATAAT
5828068 ATTATAATGT
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 82 0.93
96 6 0.07
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (95 bp):
TATTATAATCACCATTATCAGGCTAGCTAAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTG
CTCTAGAGAGACAAATCAAGATTTATTGTA
Found at i:5834310 original size:21 final size:23
Alignment explanation
Indices: 5834283--5834355 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
5834273 ACCTATTTTA
*
5834283 TTATATAAGCGCTACCTATTACG
1 TTATATAAACGCTACCTATTACG
5834306 TTATATAAACGCTACCTATTACG
1 TTATATAAACGCTACCTATTACG
* *
5834329 TTATATAAACGCTACCTAATATG
1 TTATATAAACGCTACCTATTACG
5834352 TTAT
1 TTAT
5834356 TGTGCTCGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (23 bp):
TTATATAAACGCTACCTATTACG
Found at i:5834442 original size:181 final size:181
Alignment explanation
Indices: 5834138--5834513 Score: 608
Period size: 181 Copynumber: 2.1 Consensus size: 181
5834128 ATAATGTGCA
* * * * *
5834138 ACCTATTACGTTACATAAGCGCTACCTAATAGGTTATTATGCTTGATAATGTTTCCAGTAGTTAA
1 ACCTATTACGTTATATAAACGCTACCTAATAGGTTATTATGCTCGATAATGTTTACAGTAATTAA
* **
5834203 CCGGTTATGTTATCCTTGGTAACATTTTAGGTGTTTACCTAATATGTTGTAATAACAAATTAAAT
66 CCGGTTATGTTATCCTTAGTAACATTTTAGGCATTTACCTAATATGTTGTAATAACAAATTAAAT
* *
5834268 AATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAACGCT
131 AATTAACCTATTTTATTATATAAACGCTACCTATTACATTATATAAACGCT
* *
5834319 ACCTATTACGTTATATAAACGCTACCTAATATGTTATTGTGCTCGATAATGTTTACAGTAATTAA
1 ACCTATTACGTTATATAAACGCTACCTAATAGGTTATTATGCTCGATAATGTTTACAGTAATTAA
* *
5834384 CTGGTTATGTTATCCTTAGTAACATTTTAGGCATTTACCTAATATGTTGTAATAACAAATTAAGT
66 CCGGTTATGTTATCCTTAGTAACATTTTAGGCATTTACCTAATATGTTGTAATAACAAATTAAAT
5834449 AATTAACCTATTTTATTATATAAACGCTACCTATTACATTATATAAACGCT
131 AATTAACCTATTTTATTATATAAACGCTACCTATTACATTATATAAACGCT
* *
5834500 ACCTAATATGTTAT
1 ACCTATTACGTTAT
5834514 TGTACGTGAT
Statistics
Matches: 179, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
181 179 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (181 bp):
ACCTATTACGTTATATAAACGCTACCTAATAGGTTATTATGCTCGATAATGTTTACAGTAATTAA
CCGGTTATGTTATCCTTAGTAACATTTTAGGCATTTACCTAATATGTTGTAATAACAAATTAAAT
AATTAACCTATTTTATTATATAAACGCTACCTATTACATTATATAAACGCT
Found at i:5834480 original size:23 final size:23
Alignment explanation
Indices: 5834454--5834504 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
5834444 TAAGTAATTA
**
5834454 ACCTATTTTATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
5834477 ACCTATTACATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
5834500 ACCTA
1 ACCTA
5834505 ATATGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGCT
Found at i:5838091 original size:2 final size:2
Alignment explanation
Indices: 5838084--5838146 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
5838074 ATAATGTGAA
5838084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5838126 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
5838147 GTTTCCTATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5838918 original size:20 final size:20
Alignment explanation
Indices: 5838881--5838918 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5838871 AAAATCAAAC
*
5838881 AAAATATTAGATGGTAAAAT
1 AAAATATTAGATGCTAAAAT
5838901 AAAATATT-GAATGCTAAA
1 AAAATATTAG-ATGCTAAA
5838919 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAATATTAGATGCTAAAAT
Found at i:5838957 original size:17 final size:17
Alignment explanation
Indices: 5838926--5838963 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
5838916 AAACAAAAAG
5838926 AAAAAATTTAGAAGATTAA
1 AAAAAATTTA-AAGA-TAA
5838945 AAAAAATTT-AAGATAA
1 AAAAAATTTAAAGATAA
5838961 AAA
1 AAA
5838964 TAATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
19 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (17 bp):
AAAAAATTTAAAGATAA
Found at i:5838968 original size:3 final size:3
Alignment explanation
Indices: 5838957--5838994 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
5838947 AAAATTTAAG
*
5838957 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
5838995 GTCACAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5839050 original size:17 final size:18
Alignment explanation
Indices: 5839005--5839051 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
5838995 GTCACAAGAT
*
5839005 AAATAAATAAAAATGGAAA
1 AAAT-AATAAAAATGAAAA
**
5839024 AAATGTTAAAAAT-AAAA
1 AAATAATAAAAATGAAAA
5839041 AAATAATAAAA
1 AAATAATAAAA
5839052 TGTTAATTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 12 0.52
18 7 0.30
19 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (18 bp):
AAATAATAAAAATGAAAA
Found at i:5839114 original size:3 final size:3
Alignment explanation
Indices: 5839106--5839138 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
5839096 AAAATTAGGA
5839106 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5839139 TTTTATTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5840558 original size:44 final size:44
Alignment explanation
Indices: 5840432--5840560 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 44
5840422 ATCCACCTCG
* * * *
5840432 AGATGTCGATGTTGATCTACCTCCTTCTGTGATAGATTTGAGCA
1 AGATGTCGATGTTGATCTACCTCTTTCTGTGATAGAATCGAACA
* *** * * *
5840476 AAATGAAAATGTTGATC--CCTCTCCTTATGTGGTGGAATCGAACA
1 AGATGTCGATGTTGATCTACCTCT--TTCTGTGATAGAATCGAACA
5840520 AGATGTCGATGTTGATCTACCTCTTTCTGTGATAGAATCGA
1 AGATGTCGATGTTGATCTACCTCTTTCTGTGATAGAATCGA
5840561 GCAAAAAGTT
Statistics
Matches: 63, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
42 4 0.06
44 54 0.86
46 5 0.08
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (44 bp):
AGATGTCGATGTTGATCTACCTCTTTCTGTGATAGAATCGAACA
Found at i:5840681 original size:133 final size:132
Alignment explanation
Indices: 5840452--5840736 Score: 367
Period size: 133 Copynumber: 2.2 Consensus size: 132
5840442 GTTGATCTAC
* * ** * *
5840452 CTCCTTCTGTGATAGATTTGAGCAAAATGAAAATGTTGATCCCTCTCCTTATGTGGTGGAATCGA
1 CTCCTTCTGTGATGGATTTGAGCAAAATAAAAATGTCAATCCCTCTCATTATGTGATGGAATCGA
* *
5840517 ACAAGATGTCGATGTTGATCTACCTCTTTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCC
66 ACAAGATGTCGATGCTGATCTACCTCATTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCC
5840582 AA
131 AA
* * * * *
5840584 TTTCTTCTATGATGGATTTGAGCGAAAATAAAAATGTCAATCCAC-CTCATTCTGTGATGTAATC
1 CTCCTTCTGTGATGGATTTGAGC-AAAATAAAAATGTCAATCC-CTCTCATTATGTGATGGAATC
* * * *
5840648 GAACGAGATGTC-AGTGCTGATCTATCTCATTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGA
64 GAACAAGATGTCGA-TGCTGATCTACCTCATTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGA
5840712 TCCAA
128 TCCAA
*
5840717 CTCCTTCTGTAATGGATTTG
1 CTCCTTCTGTGATGGATTTG
5840737 CCAAGTTCCA
Statistics
Matches: 129, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
132 20 0.16
133 108 0.84
134 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (132 bp):
CTCCTTCTGTGATGGATTTGAGCAAAATAAAAATGTCAATCCCTCTCATTATGTGATGGAATCGA
ACAAGATGTCGATGCTGATCTACCTCATTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCC
AA
Found at i:5841081 original size:83 final size:83
Alignment explanation
Indices: 5840979--5841573 Score: 461
Period size: 83 Copynumber: 7.4 Consensus size: 83
5840969 AAATTCTTGT
* * *
5840979 TGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATATCCATGAGCCGAATGTAA
1 TGACAGATAGCCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGTCCATGAGCTGAATGTAA
5841044 TCAAACTCGAAGGTTTGC
66 TCAAACTCGAAGGTTTGC
* *
5841062 TGACATATAGCTCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGTCCATGAGCTGAATGTAA
1 TGACAGATAGCCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGTCCATGAGCTGAATGTAA
**
5841127 TCAAACTTAAAGGTTTGC
66 TCAAACTCGAAGGTTTGC
* *
5841145 TGACAGATAGCTCTTCTCGCCTTAAGCTATGCTTTAAATTTGATATGTCCATGAGCTGAATGTAA
1 TGACAGATAGCCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGTCCATGAGCTGAATGTAA
*
5841210 TCGAACTCGAAGGTTTGC
66 TCAAACTCGAAGGTTTGC
* * * **
5841228 TGACAGATAGCCCTTATCGCCTTGAGCTATGATGTACCTTTG--A-G--C-TGA---G--TGTAA
1 TGACAGATAGCCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGTCCATGAGCTGAATGTAA
*
5841282 TCGAAA-TTGAAGGTCTT--
66 TC-AAACTCGAAGGT-TTGC
* * * * * *
5841299 TGGCAGATAGCCCTTCTCGCCTTGAGTTATGTTGTAAA--TG--ATGTACCATTGAGCTGAGTAT
1 TGACAGATAGCCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGT-CCA-TGAGCTGAATGT
5841360 AATCAAACTCGAAGGTCTT--
64 AATCAAACTCGAAGGT-TTGC
** ** ** * * * ** * * * *
5841379 TGGTAGATAGCTATTCTTTCTTTGAGTTATGCTACAAA--TGATGTG-CCTTTAGCTGAGTGTAA
1 TGACAGATAGCCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGTCCATGAGCTGAATGTAA
* *
5841441 TCGAACTCGAAGGTTT-T
66 TCAAACTCGAAGGTTTGC
** * * * * *
5841458 TGGTAGATAGCCATTCTTGCCTTGAGCTATGCTGTAAA--TGATATG-CCTTAGAGCTGAGTGTA
1 TGACAGATAGCCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGTCCAT-GAGCTGAATGTA
** *
5841520 ATTGAACTCGAAGGTCTTTGA
65 ATCAAACTCGAAGG--TTTGC
* * *
5841541 TGACAGATAGCCTTTCTTGCCTTGAGCTATGCT
1 TGACAGATAGCCCTTCTCGCCTTAAGCTATGCT
5841574 ATACTTGGCT
Statistics
Matches: 435, Mismatches: 56, Indels: 42
0.82 0.11 0.08
Matches are distributed among these distances:
69 3 0.01
70 1 0.00
71 32 0.07
72 14 0.03
73 5 0.01
74 1 0.00
75 3 0.01
77 3 0.01
78 4 0.01
79 70 0.16
80 74 0.17
81 1 0.00
82 5 0.01
83 219 0.50
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (83 bp):
TGACAGATAGCCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATATGTCCATGAGCTGAATGTAA
TCAAACTCGAAGGTTTGC
Found at i:5841461 original size:79 final size:79
Alignment explanation
Indices: 5841256--5841573 Score: 375
Period size: 80 Copynumber: 3.9 Consensus size: 79
5841246 GCCTTGAGCT
* * * * *
5841256 ATGATGTACCTTTGAGCTGAGTGTAATCGAAATTGAAGGTCTTTGGCAGATAGCCCTTCTCGCCT
1 ATGATGTACC-TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCATTCTTGCCT
*
5841321 TGAGTTATGTTGTAA
65 TGAGTTATGCTGTAA
* * * * *
5841336 ATGATGTACCATTGAGCTGAGTATAATCAAACTCGAAGGTCTTTGGTAGATAGCTATTCTTTCTT
1 ATGATGTACC-TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCATTCTTGCCT
**
5841401 TGAGTTATGCTACAA
65 TGAGTTATGCTGTAA
* * *
5841416 ATGATGTGCCTTTAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGTAGATAGCCATTCTTGCCTT
1 ATGATGTACCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCATTCTTGCCTT
*
5841481 GAGCTATGCTGTAA
66 GAGTTATGCTGTAA
* * * * *
5841495 ATGATATGCCTTAGAGCTGAGTGTAATTGAACTCGAAGGTCTTTGATGACAGATAGCCTTTCTTG
1 ATGATGTACCTT-GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-TAGATAGCCATTCTTG
*
5841560 CCTTGAGCTATGCT
62 CCTTGAGTTATGCT
5841574 ATACTTGGCT
Statistics
Matches: 203, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
79 70 0.34
80 104 0.51
82 1 0.00
83 28 0.14
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (79 bp):
ATGATGTACCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCATTCTTGCCTT
GAGTTATGCTGTAA
Found at i:5842066 original size:124 final size:125
Alignment explanation
Indices: 5841643--5842360 Score: 825
Period size: 124 Copynumber: 5.8 Consensus size: 125
5841633 GTCGATCCAT
* * * *
5841643 TGGGCATGATATCTTTCGTCGTGAAGTTGAACTCGTGGATGG-CTCTTTCGTTGTGAAGTTGAGC
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTT-GTTGTGAAGTTGAGC
* * ** * ** * * *
5841707 TTTGAATTAGATATCCTTCGTCGCGAAGTTGAAATCC-----AAGGGTTGCATTGATGCTTG
65 CTTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATATAAAGAATG-AATGTTGCTGG
* * ** * *
5841764 TGGGCACAATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTCTTCTTTGTTGTTAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTTGTTGTGAAGTTGAGCC
* ** ** * * * *
5841829 TTGAATTAGATATCCTTCGTCATGAAGTTGAAATCC---A-AGGGTTTTATTGCTGCTTG
66 TTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATATAAAGAATGAATGTTGCTGG
** * * * * * *
5841885 TGGGCACGATATCCTTCGTTATAAAGTTGAAATCATGGATGGCTCATTCGCTGTGAAGTTGAGCC
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTTGTTGTGAAGTTGAGCC
*
5841950 TTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATATAAAG-ATGAAAGTTGCTGG
66 TTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATATAAAGAATGAATGTTGCTGG
* *
5842009 TGGGCACGATATCCTTCGTCGGGAAGTTGAAATCGTGGATGGCCCCTTTTTTGTGAAGTTGAGCC
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTTGTTGTGAAGTTGAGCC
* *
5842074 TTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATCT-AAGAATAAATGTTGCTGG
66 TTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATATAAAGAATGAATGTTGCTGG
* *
5842133 TGGACACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCCCTTAT-TTGTGAAGTTGAGC
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTT-TGTTGTGAAGTTGAGC
* * * *
5842197 ATTGAATTGGATATCCTTCGTCGTGACGTTGAAATCCAATCT-AAGAATGAATGTTGCTGG
65 CTTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATATAAAGAATGAATGTTGCTGG
* * *
5842257 TGGACACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCC
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTTGTTGTGAAGTTGAGCC
* * *
5842322 TCGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAAT
66 TTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAAT
5842361 GAATTTAAAA
Statistics
Matches: 527, Mismatches: 61, Indels: 15
0.87 0.10 0.02
Matches are distributed among these distances:
121 184 0.35
122 10 0.02
123 3 0.01
124 327 0.62
125 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (125 bp):
TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTTGTTGTGAAGTTGAGCC
TTGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATATAAAGAATGAATGTTGCTGG
Found at i:5842390 original size:82 final size:82
Alignment explanation
Indices: 5842278--5842441 Score: 283
Period size: 82 Copynumber: 2.0 Consensus size: 82
5842268 TCCTTCGTCG
*
5842278 TGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTCGAATTGGATATCATTCGTC
1 TGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTCGAATTGGATATCATTCATC
5842343 GTGAAGTTGAAATCCAA
66 GTGAAGTTGAAATCCAA
* * * *
5842360 TGAATTTAAAATCGTGGATGTCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCATC
1 TGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTCGAATTGGATATCATTCATC
5842425 GTGAAGTTGAAATCCAA
66 GTGAAGTTGAAATCCAA
5842442 GGGTTGTTTC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (82 bp):
TGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTCGAATTGGATATCATTCATC
GTGAAGTTGAAATCCAA
Found at i:5842610 original size:64 final size:67
Alignment explanation
Indices: 5842510--5842640 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 67
5842500 AATCTTGAGT
* *
5842510 AAGTTGTGTTGCTTCGAGTCCAATATATTTCACTGTGAAGTTGAAATTGACTTTGAATGAAATTG
1 AAGTTGTGTTGCTTCGAGTCCAATATATTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTG
5842575 GA
66 GA
* * *
5842577 AAGTTGT-TTG-TT-GAGTCCAATATCCTTT-GCTGTGAAGTTGAAATTGACTCTGACTGAAACT
1 AAGTTGTGTTGCTTCGAGTCCAATAT-ATTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACT
5842638 GGA
65 GGA
5842641 GATTAACCAC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
64 43 0.74
65 5 0.09
66 3 0.05
67 7 0.12
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (67 bp):
AAGTTGTGTTGCTTCGAGTCCAATATATTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTG
GA
Found at i:5847103 original size:21 final size:22
Alignment explanation
Indices: 5847079--5847128 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
5847069 TCATTGTTCT
5847079 TTCGGGACA-ACTCATAGGTCC
1 TTCGGGACATACTCATAGGTCC
*
5847100 TTCGGGACATATTCATAGGTCC
1 TTCGGGACATACTCATAGGTCC
5847122 TTCGGGA
1 TTCGGGA
5847129 TAAATCTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (22 bp):
TTCGGGACATACTCATAGGTCC
Found at i:5848036 original size:30 final size:30
Alignment explanation
Indices: 5847972--5848028 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
5847962 AGAACCAGAA
* *
5847972 GAACCGGCTGAAAACCGATAAAATCGGGGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
5848002 GAACCGGCTGAAAACCGACAAAACCGG
1 GAACCGGCTGAAAACCGACAAAACCGG
5848029 TTTGAACCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.28, T:0.09
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGGGGT
Found at i:5854888 original size:21 final size:21
Alignment explanation
Indices: 5854862--5854922 Score: 86
Period size: 22 Copynumber: 2.9 Consensus size: 21
5854852 TGAGGGTTTT
*
5854862 ATAGGTCCTTCGGGACAACTC
1 ATAGGTCTTTCGGGACAACTC
*
5854883 ATAGGTCTTTCGGGACATATTC
1 ATAGGTCTTTCGGGACA-ACTC
*
5854905 ACAGGTCTTTCGGGACAA
1 ATAGGTCTTTCGGGACAA
5854923 ATCTCATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (21 bp):
ATAGGTCTTTCGGGACAACTC
Found at i:5855990 original size:19 final size:20
Alignment explanation
Indices: 5855953--5855989 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
5855943 GCAAATGATA
5855953 AAAATAAAATGAAAGAAAAC
1 AAAATAAAATGAAAGAAAAC
5855973 AAAA-AAAATG-AAGAAAA
1 AAAATAAAATGAAAGAAAA
5855990 AAAGTTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 6 0.35
20 4 0.24
ACGTcount: A:0.78, C:0.03, G:0.11, T:0.08
Consensus pattern (20 bp):
AAAATAAAATGAAAGAAAAC
Found at i:5857160 original size:20 final size:20
Alignment explanation
Indices: 5857123--5857160 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5857113 AAAATCTAAC
*
5857123 AAAATATTAGATGGTAAAAT
1 AAAATATTAGATGCTAAAAT
5857143 AAAATATT-GAATGCTAAA
1 AAAATATTAG-ATGCTAAA
5857161 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAATATTAGATGCTAAAAT
Found at i:5859590 original size:17 final size:18
Alignment explanation
Indices: 5859558--5859594 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
5859548 ATTTGCAAAC
5859558 AATTGTAGTCAAAATATCA
1 AATTGTAGTCAAAATA-CA
5859577 AATTG-AGT-AAAATACA
1 AATTGTAGTCAAAATACA
5859593 AA
1 AA
5859595 GTTAAGGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 6 0.33
18 3 0.17
19 5 0.28
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTGTAGTCAAAATACA
Found at i:5859756 original size:27 final size:28
Alignment explanation
Indices: 5859726--5859814 Score: 121
Period size: 27 Copynumber: 3.2 Consensus size: 28
5859716 AATAAACCAC
5859726 AAATTGAAGGAATAAAG-AAATTATAAA
1 AAATTGAAGGAATAAAGAAAATTATAAA
5859753 AAATTGAAGGAAT-AAGAAAATTATAAA
1 AAATTGAAGGAATAAAGAAAATTATAAA
* *
5859780 AAATTGAAGGACTAAATTGAAAAATA-AAA
1 AAATTGAAGGAATAAA--GAAAATTATAAA
5859809 AAATTG
1 AAATTG
5859815 TTATCAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
26 3 0.05
27 35 0.62
28 2 0.04
29 9 0.16
30 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.15, T:0.22
Consensus pattern (28 bp):
AAATTGAAGGAATAAAGAAAATTATAAA
Found at i:5860197 original size:13 final size:13
Alignment explanation
Indices: 5860179--5860209 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5860169 AGAAAATATG
*
5860179 AATTGAAGGAATA
1 AATTGAAGAAATA
5860192 AATTGAAGAAATA
1 AATTGAAGAAATA
5860205 AATTG
1 AATTG
5860210 GATCTACTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (13 bp):
AATTGAAGAAATA
Found at i:5866391 original size:2 final size:2
Alignment explanation
Indices: 5866384--5866420 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5866374 TCAATGTTAA
5866384 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5866421 ATGAGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5866809 original size:20 final size:20
Alignment explanation
Indices: 5866772--5866810 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5866762 TCCGAGGTGT
*
5866772 CTATCAAAAAGTGAACAACC
1 CTATCAAAAAGTAAACAACC
5866792 CTATCAAAAA-TAACACAAC
1 CTATCAAAAAGTAA-ACAAC
5866811 ATGAATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.54, C:0.26, G:0.05, T:0.15
Consensus pattern (20 bp):
CTATCAAAAAGTAAACAACC
Found at i:5867963 original size:19 final size:19
Alignment explanation
Indices: 5867939--5867978 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5867929 ATGATATGTA
*
5867939 TTTTTCCACTTAAATTGTT
1 TTTTTCCACTTAAATTATT
*
5867958 TTTTTCTACTTAAATTATT
1 TTTTTCCACTTAAATTATT
5867977 TT
1 TT
5867979 GTTTGACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTCCACTTAAATTATT
Found at i:5868211 original size:31 final size:31
Alignment explanation
Indices: 5868170--5868236 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
5868160 TTGTAATACA
*
5868170 GTCCCTCAACATTTAGTCCGTTTGCAATATG
1 GTCCCCCAACATTTAGTCCGTTTGCAATATG
5868201 GTCCCCCAACATTTAGTCCGTTTGCAATATG
1 GTCCCCCAACATTTAGTCCGTTTGCAATATG
*
5868232 ATCCC
1 GTCCC
5868237 TGATGACTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCCGTTTGCAATATG
Found at i:5869432 original size:234 final size:234
Alignment explanation
Indices: 5869023--5869487 Score: 727
Period size: 234 Copynumber: 2.0 Consensus size: 234
5869013 TAGTGGAGAG
* * *
5869023 GGGCTCAAAATATCAATAACTTCATGCTTTGAAACAATCGAACCGGTTTCCCGACATAAGATCGC
1 GGGCTCAAAAGATCAATAACTTCATGCTTTGAAACAATCGAACCAGTTTCCCAACATAAGATCGC
*
5869088 AGCTATGGAATCAGCATTGCCTTCTGAATCCAAAATAACAGGGAGGTCTCGGTTTATGAAATTAA
66 AGCTATGGAATCAGAATTGCCTTCTGAATCCAAAATAACAGGGAGGTCTCGGTTTATGAAATTAA
* * *
5869153 TATCAGATCCTTTGGTCACTTTGTCAGATATTATTTCTCTTGAAGCCATGGGACTGGATTTGTTC
131 TATCAGATCCTGTGGTCACTTTGTCAGATATAATTTCTCTTGAAGCCATGGGACTGGATTTGCTC
5869218 CCCAACTCAATGTCAAGCAACAGATCTTGGAGTTTCCCA
196 CCCAACTCAATGTCAAGCAACAGATCTTGGAGTTTCCCA
* * * *
5869257 GGGCTCAACAGATCAATAACTTCATGCTTTGGAACAGTCGCACCAGTTTCCCAACATAAGATCGC
1 GGGCTCAAAAGATCAATAACTTCATGCTTTGAAACAATCGAACCAGTTTCCCAACATAAGATCGC
* * **
5869322 AGCTCTGGAATCAGAATTGCCTTTTGAATCTGAAATAACAGGG-GGATCTCGGTTTATGAAATTA
66 AGCTATGGAATCAGAATTGCCTTCTGAATCCAAAATAACAGGGAGG-TCTCGGTTTATGAAATTA
* * *
5869386 ATCTCAG-TCGCTGTGGTCATTTTGTCTGATATAATTTCTCTTGAAGCCATGGGACTGGATTTGC
130 ATATCAGATC-CTGTGGTCACTTTGTCAGATATAATTTCTCTTGAAGCCATGGGACTGGATTTGC
*
5869450 TCCCTAACTCAATGTCAAGCAACAGATCTTGGAGTTTC
194 TCCCCAACTCAATGTCAAGCAACAGATCTTGGAGTTTC
5869488 AGGTCTATTT
Statistics
Matches: 210, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
233 4 0.02
234 206 0.98
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (234 bp):
GGGCTCAAAAGATCAATAACTTCATGCTTTGAAACAATCGAACCAGTTTCCCAACATAAGATCGC
AGCTATGGAATCAGAATTGCCTTCTGAATCCAAAATAACAGGGAGGTCTCGGTTTATGAAATTAA
TATCAGATCCTGTGGTCACTTTGTCAGATATAATTTCTCTTGAAGCCATGGGACTGGATTTGCTC
CCCAACTCAATGTCAAGCAACAGATCTTGGAGTTTCCCA
Found at i:5870859 original size:5 final size:5
Alignment explanation
Indices: 5870849--5870887 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
5870839 TGTAGGTAAA
* * *
5870849 AAAAG AAAAG AAAAA AAAAG AAAAA AAAAG GAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
5870888 AGTTAAACTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:5870866 original size:15 final size:14
Alignment explanation
Indices: 5870846--5870888 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
5870836 CTTTGTAGGT
5870846 AAAAAAAGAAAAGAA
1 AAAAAAAGAAAA-AA
5870861 AAAAAAAGAAAAAA
1 AAAAAAAGAAAAAA
*
5870875 AAAGGAAAGAAAAA
1 AAA-AAAAGAAAAA
5870889 GTTAAACTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAA
Found at i:5870867 original size:10 final size:10
Alignment explanation
Indices: 5870848--5870889 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
5870838 TTGTAGGTAA
5870848 AAAAAGAAAAG
1 AAAAA-AAAAG
5870859 AAAAAAAAAG
1 AAAAAAAAAG
5870869 AAAAAAAAAGG
1 AAAAAAAAA-G
*
5870880 AAAGAAAAAG
1 AAAAAAAAAG
5870890 TTAAACTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 15 0.52
11 14 0.48
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:5874704 original size:19 final size:17
Alignment explanation
Indices: 5874680--5874714 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
5874670 AAAAAATCAA
5874680 ATTAAATAATTGAAAAAAT
1 ATTAAA-AATT-AAAAAAT
5874699 ATTAAAAATTAAAAAA
1 ATTAAAAATTAAAAAA
5874715 GTTAGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
ATTAAAAATTAAAAAAT
Found at i:5875729 original size:3 final size:3
Alignment explanation
Indices: 5875712--5875759 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
5875702 TCTACAAAAA
*
5875712 TAT TAT TAG TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5875759 T
1 T
5875760 TTAACAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5882737 original size:21 final size:22
Alignment explanation
Indices: 5882713--5882767 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
5882703 TCCCTTGCTT
5882713 TGTATCGATACA-CCTTGAATG
1 TGTATCGATACATCCTTGAATG
*
5882734 TGTA-CAGATACATTCCTTGTATG
1 TGTATC-GATACA-TCCTTGAATG
5882757 TGTATCGATAC
1 TGTATCGATAC
5882768 CCCTCACGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 10 0.34
23 17 0.59
24 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATCCTTGAATG
Found at i:5882766 original size:23 final size:22
Alignment explanation
Indices: 5882693--5882767 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 22
5882683 CGATACCCAG
5882693 GTATCGATAC-TCCCTTGCT-T-T
1 GTATCGATACAT-CCTTG-TATGT
*
5882714 GTATCGATACA-CCTTGAATGT
1 GTATCGATACATCCTTGTATGT
5882735 GTA-CAGATACATTCCTTGTATGT
1 GTATC-GATACA-TCCTTGTATGT
5882758 GTATCGATAC
1 GTATCGATAC
5882768 CCCTCACGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
20 7 0.16
21 20 0.44
23 17 0.38
24 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (22 bp):
GTATCGATACATCCTTGTATGT
Found at i:5886783 original size:31 final size:30
Alignment explanation
Indices: 5886740--5886804 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 30
5886730 GAGTCGAGGG
*
5886740 TTACCTATGTTCTACGGAACATATGGACAAT
1 TTACCTAAGTTCTACGGAACATATGGAC-AT
*
5886771 TTACCTAAGTTCTTCGGAACATATGGACAT
1 TTACCTAAGTTCTACGGAACATATGGACAT
5886801 TTAC
1 TTAC
5886805 GTAGGTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (30 bp):
TTACCTAAGTTCTACGGAACATATGGACAT
Found at i:5886817 original size:30 final size:31
Alignment explanation
Indices: 5886740--5886817 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
5886730 GAGTCGAGGG
* * *
5886740 TTACCTATGTTCTACGGAACATATGGACAAT
1 TTACCTAAGGTCTTCGGAACATATGGACAAT
*
5886771 TTACCTAAGTTCTTCGGAACATATGGAC-AT
1 TTACCTAAGGTCTTCGGAACATATGGACAAT
*
5886801 TTACGT-AGGTCATTCGG
1 TTACCTAAGGTC-TTCGG
5886818 GACAAATTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 4 0.10
30 12 0.29
31 26 0.62
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (31 bp):
TTACCTAAGGTCTTCGGAACATATGGACAAT
Found at i:5887854 original size:30 final size:30
Alignment explanation
Indices: 5887782--5887915 Score: 155
Period size: 30 Copynumber: 4.5 Consensus size: 30
5887772 GGGTGTTACA
* *
5887782 ATTTTAGTCCTTTAAATTT-TAGTTTTTTCT
1 ATTTTAGTCCTTTAAGTTTCT-GTTTTTGCT
* *
5887812 A-TTTAATCCTTTAAGTTTATGTTTTTGCT
1 ATTTTAGTCCTTTAAGTTTCTGTTTTTGCT
* * * *
5887841 ATTTTAGTCCTTTAACTTTCTATTTATGTT
1 ATTTTAGTCCTTTAAGTTTCTGTTTTTGCT
*
5887871 ATTTTAGTCCTTTAAGTTTCTGCTTTTGCT
1 ATTTTAGTCCTTTAAGTTTCTGTTTTTGCT
*
5887901 ATTTTGGTCCTTTAA
1 ATTTTAGTCCTTTAA
5887916 ATTGAATATG
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
29 24 0.28
30 63 0.72
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.59
Consensus pattern (30 bp):
ATTTTAGTCCTTTAAGTTTCTGTTTTTGCT
Found at i:5887901 original size:60 final size:59
Alignment explanation
Indices: 5887782--5887918 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 59
5887772 GGGTGTTACA
* *
5887782 ATTTTAGTCCTTTAAATTTTAGTTTTTTCTATTTAATCCTTTAAGTTTATGTTTTTGCT
1 ATTTTAGTCCTTTAAATTTTAGTTTTTTATATTTAATCCTTTAAGTTTATGCTTTTGCT
* * *
5887841 ATTTTAGTCCTTTAACTTTCTA-TTTATGTTAT-TTTAGTCCTTTAAGTTTCTGCTTTTGCT
1 ATTTTAGTCCTTTAAATTT-TAGTTT-T-TTATATTTAATCCTTTAAGTTTATGCTTTTGCT
*
5887901 ATTTTGGTCCTTTAAATT
1 ATTTTAGTCCTTTAAATT
5887919 GAATATGATT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
59 21 0.31
60 44 0.65
61 3 0.04
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.59
Consensus pattern (59 bp):
ATTTTAGTCCTTTAAATTTTAGTTTTTTATATTTAATCCTTTAAGTTTATGCTTTTGCT
Found at i:5889527 original size:52 final size:52
Alignment explanation
Indices: 5889471--5889578 Score: 123
Period size: 52 Copynumber: 2.1 Consensus size: 52
5889461 AATATCTTTC
* *
5889471 ATAAATAATTATAAATTAGAAG-TTTATA-TTCAATTTT-AATAATTAAATAAAT
1 ATAAAT-ATTATAAATT-G-AGTTTTAAATTTAAATTTTAAATAATTAAATAAAT
* * *
5889523 ATAAATATTTTAAATTGTGTTTTAAATTTAAATTTTAAATAATTAAATACAT
1 ATAAATATTATAAATTGAGTTTTAAATTTAAATTTTAAATAATTAAATAAAT
5889575 ATAA
1 ATAA
5889579 TTTGAAACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
49 1 0.02
50 6 0.12
51 17 0.35
52 24 0.50
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (52 bp):
ATAAATATTATAAATTGAGTTTTAAATTTAAATTTTAAATAATTAAATAAAT
Found at i:5894474 original size:15 final size:15
Alignment explanation
Indices: 5894454--5894483 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5894444 GCTTCTAATA
*
5894454 AATATAAATATTATT
1 AATATAAATAGTATT
5894469 AATATAAATAGTATT
1 AATATAAATAGTATT
5894484 TTTTTTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
AATATAAATAGTATT
Found at i:5905852 original size:27 final size:26
Alignment explanation
Indices: 5905782--5905838 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
5905772 TGCTAAACTT
5905782 TTTGCCATAACTAATATGTTAAAAAA
1 TTTGCCATAACTAATATGTTAAAAAA
5905808 TTTGCCATAACTAATATGTTAAAAAA
1 TTTGCCATAACTAATATGTTAAAAAA
5905834 TTTGC
1 TTTGC
5905839 AGTGTCCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (26 bp):
TTTGCCATAACTAATATGTTAAAAAA
Found at i:5919552 original size:19 final size:19
Alignment explanation
Indices: 5919528--5919572 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
5919518 CGTTTCCTTG
*
5919528 TTTTCTTTTCTTCAGCCTA
1 TTTTCTTTTCTTCAACCTA
*
5919547 TTTTCTTTTCTTCAACCTG
1 TTTTCTTTTCTTCAACCTA
5919566 TTTTCTT
1 TTTTCTT
5919573 CATTCTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTCTTTTCTTCAACCTA
Found at i:5927842 original size:10 final size:10
Alignment explanation
Indices: 5927827--5927927 Score: 58
Period size: 10 Copynumber: 9.1 Consensus size: 10
5927817 CATTTAAATG
5927827 ATAAACGAAC
1 ATAAACGAAC
*
5927837 ATAAACTAAC
1 ATAAACGAAC
*
5927847 GTAAACGAACAC
1 ATAAACG-A-AC
*
5927859 AAACGAACGAAC
1 ATA--AACGAAC
5927871 ATAAACGAAC
1 ATAAACGAAC
*
5927881 ATAATAAATGAAC
1 ---ATAAACGAAC
5927894 ATAAACGAACAC
1 ATAAACG-A-AC
* *
5927906 AACAAACAAAC
1 -ATAAACGAAC
5927917 ATAAACGAAC
1 ATAAACGAAC
5927927 A
1 A
5927928 ACACAAACAC
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
10 36 0.52
11 4 0.06
12 10 0.14
13 15 0.22
14 4 0.06
ACGTcount: A:0.60, C:0.21, G:0.09, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:5927869 original size:14 final size:14
Alignment explanation
Indices: 5927850--5927880 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5927840 AACTAACGTA
5927850 AACGAACACAAACG
1 AACGAACACAAACG
*
5927864 AACGAACATAAACG
1 AACGAACACAAACG
5927878 AAC
1 AAC
5927881 ATAATAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.26, G:0.13, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:5927897 original size:23 final size:23
Alignment explanation
Indices: 5927839--5927935 Score: 106
Period size: 23 Copynumber: 4.2 Consensus size: 23
5927829 AAACGAACAT
* *
5927839 AAACTAACGTAAACGAACACAAAC
1 AAACGAACATAAACGAACAC-AAC
* * *
5927863 GAACGAACATAAACGAACATAAT
1 AAACGAACATAAACGAACACAAC
*
5927886 AAATGAACATAAACGAACACAAC
1 AAACGAACATAAACGAACACAAC
*
5927909 AAACAAACATAAACGAACA-ACAC
1 AAACGAACATAAACGAACACA-AC
5927932 AAAC
1 AAAC
5927936 ACAAAAAACA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
22 1 0.02
23 44 0.72
24 16 0.26
ACGTcount: A:0.61, C:0.23, G:0.08, T:0.08
Consensus pattern (23 bp):
AAACGAACATAAACGAACACAAC
Found at i:5927945 original size:18 final size:18
Alignment explanation
Indices: 5927901--5927948 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
5927891 AACATAAACG
*
5927901 AACACAACAAACAAACATA
1 AACA-AACAAACAAACACA
*
5927920 AACGAACAACACAAACACA
1 AACAAACAA-ACAAACACA
5927939 AA-AAACAAAC
1 AACAAACAAAC
5927949 TTATTCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 10 0.40
19 13 0.52
ACGTcount: A:0.69, C:0.27, G:0.02, T:0.02
Consensus pattern (18 bp):
AACAAACAAACAAACACA
Found at i:5928877 original size:3 final size:3
Alignment explanation
Indices: 5928871--5928911 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
5928861 AGACGATGAT
* * *
5928871 GAC GAC GAC GAG GAC GAC GAC GAC AAC GAC GAG GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
5928912 TAATAGCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.37, C:0.27, G:0.37, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:5928886 original size:12 final size:12
Alignment explanation
Indices: 5928857--5928911 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
5928847 GTAACTGCTC
* *
5928857 AGGAAGACGATG
1 AGGACGACGACG
*
5928869 ATGACGACGACG
1 AGGACGACGACG
5928881 AGGACGACGAC-
1 AGGACGACGACG
*
5928892 --GACAACGACG
1 AGGACGACGACG
5928902 AGGACGACGA
1 AGGACGACGA
5928912 TAATAGCGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 8 0.24
12 26 0.76
ACGTcount: A:0.38, C:0.22, G:0.36, T:0.04
Consensus pattern (12 bp):
AGGACGACGACG
Found at i:5929073 original size:26 final size:27
Alignment explanation
Indices: 5929030--5929095 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
5929020 ATAGATTTTG
* * *
5929030 TTTTTTTATTATATTTGTATT-TAGTAC
1 TTTTTTTATTGTAGTTGT-TTATAGGAC
*
5929057 -TTTTTTATTGTAGTTGTTTATTGGAC
1 TTTTTTTATTGTAGTTGTTTATAGGAC
5929083 TTTTTTTATTGTA
1 TTTTTTTATTGTA
5929096 ATTTTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.58
27 12 0.36
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.67
Consensus pattern (27 bp):
TTTTTTTATTGTAGTTGTTTATAGGAC
Found at i:5929092 original size:14 final size:14
Alignment explanation
Indices: 5929073--5929106 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5929063 ATTGTAGTTG
*
5929073 TTTATTGGACTTTT
1 TTTATTGGAATTTT
*
5929087 TTTATTGTAATTTT
1 TTTATTGGAATTTT
5929101 TTTATT
1 TTTATT
5929107 ATTTATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (14 bp):
TTTATTGGAATTTT
Found at i:5944863 original size:25 final size:25
Alignment explanation
Indices: 5944829--5944883 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
5944819 ATTTTGTTCA
5944829 TGTTCGTTCATTAAGGAATATAGCT
1 TGTTCGTTCATTAAGGAATATAGCT
5944854 TGTTCGTTCATTAAGGAATATAGCT
1 TGTTCGTTCATTAAGGAATATAGCT
5944879 TGTTC
1 TGTTC
5944884 ATATCCGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (25 bp):
TGTTCGTTCATTAAGGAATATAGCT
Found at i:5944894 original size:31 final size:29
Alignment explanation
Indices: 5944822--5944896 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 29
5944812 AAAAAAAATT
5944822 TTGTTCATGTTCGTTCATTAAGGAATATAGC
1 TTGTTCA--TTCGTTCATTAAGGAATATAGC
5944853 TTG----TTCGTTCATTAAGGAATATAGC
1 TTGTTCATTCGTTCATTAAGGAATATAGC
5944878 TTGTTCATATCCGTTCATT
1 TTGTTCAT-T-CGTTCATT
5944897 TAAATGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
25 25 0.66
29 1 0.03
30 1 0.03
31 11 0.29
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (29 bp):
TTGTTCATTCGTTCATTAAGGAATATAGC
Found at i:5944918 original size:10 final size:10
Alignment explanation
Indices: 5944903--5945017 Score: 50
Period size: 10 Copynumber: 10.1 Consensus size: 10
5944893 CATTTAAATG
5944903 ATAAACGAAC
1 ATAAACGAAC
5944913 ATAAACGAACGAAC
1 AT-AA--A-CGAAC
5944927 ATAAACGAAC
1 ATAAACGAAC
* *
5944937 GTAATCGAACAC
1 ATAAACG-A-AC
*
5944949 AAACGAACGAAC
1 ATA--AACGAAC
5944961 ATAAACGAAC
1 ATAAACGAAC
*
5944971 TTAATAAATGAAC
1 ---ATAAACGAAC
5944984 ATAAACGAACAC
1 ATAAACG-A-AC
* *
5944996 AATAAATGAAT
1 -ATAAACGAAC
5945007 ATAAACGAAC
1 ATAAACGAAC
5945017 A
1 A
5945018 ACACAAACAC
Statistics
Matches: 79, Mismatches: 12, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
10 34 0.43
11 6 0.08
12 10 0.13
13 19 0.24
14 10 0.13
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.13
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:5944925 original size:14 final size:14
Alignment explanation
Indices: 5944906--5944970 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 14
5944896 TTAAATGATA
5944906 AACGAACATAAACG
1 AACGAACATAAACG
5944920 AACGAACATAAACGAACG
1 AACGAACAT--A--AACG
*
5944938 TAATCGAACACAAACG
1 -AA-CGAACATAAACG
5944954 AACGAACATAAACG
1 AACGAACATAAACG
5944968 AAC
1 AAC
5944971 TTAATAAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
14 23 0.53
15 2 0.05
16 5 0.12
18 5 0.12
19 2 0.05
20 6 0.14
ACGTcount: A:0.55, C:0.23, G:0.14, T:0.08
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:5944953 original size:34 final size:34
Alignment explanation
Indices: 5944908--5944975 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
5944898 AAATGATAAA
*
5944908 CGAACATAAACGAACGAACATAAACGAACGTAAT
1 CGAACACAAACGAACGAACATAAACGAACGTAAT
*
5944942 CGAACACAAACGAACGAACATAAACGAACTTAAT
1 CGAACACAAACGAACGAACATAAACGAACGTAAT
5944976 AAATGAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.53, C:0.22, G:0.13, T:0.12
Consensus pattern (34 bp):
CGAACACAAACGAACGAACATAAACGAACGTAAT
Found at i:5944984 original size:23 final size:23
Alignment explanation
Indices: 5944903--5945017 Score: 108
Period size: 23 Copynumber: 4.9 Consensus size: 23
5944893 CATTTAAATG
*
5944903 ATAAACGAACATAAACGAACGA-A
1 ATAAATGAACATAAACGAAC-ACA
* * *
5944926 CATAAACGAACGTAATCGAACACA
1 -ATAAATGAACATAAACGAACACA
* **
5944950 A-ACGAACGAACATAAACGAACTTA
1 ATA--AATGAACATAAACGAACACA
5944974 ATAAATGAACATAAACGAACACA
1 ATAAATGAACATAAACGAACACA
*
5944997 ATAAATGAATATAAACGAACA
1 ATAAATGAACATAAACGAACA
5945018 ACACAAACAC
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
22 1 0.01
23 39 0.51
24 36 0.47
25 1 0.01
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.13
Consensus pattern (23 bp):
ATAAATGAACATAAACGAACACA
Found at i:5947026 original size:20 final size:20
Alignment explanation
Indices: 5947001--5947067 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
5946991 TTTTCCCAAT
5947001 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
5947021 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
5947041 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
5947062 TCGCAA
1 TCGCAA
5947068 CGTGAATTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:5947043 original size:41 final size:41
Alignment explanation
Indices: 5946998--5947088 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
5946988 CGATTTTCCC
5946998 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
5947039 AATTCGCAATGCGAATAAGTAAATCGCAACGTGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
5947080 AAATCGCAA
1 AATTCGCAA
5947089 CGAGATACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:5947047 original size:21 final size:20
Alignment explanation
Indices: 5947001--5947090 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
5946991 TTTTCCCAAT
* *
5947001 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGGAAA
**
5947021 TCGCAACGCGAATTGGGAAA
1 TCGCAACGCGAATAAGGAAA
* *
5947041 TTCGCAATGCGAATAAGTAAA
1 -TCGCAACGCGAATAAGGAAA
* **
5947062 TCGCAACGTGAATTGGGAAAA
1 TCGCAACGCGAATAAGG-AAA
5947083 TCGCAACG
1 TCGCAACG
5947091 AGATACTTAC
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
20 28 0.51
21 27 0.49
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAAGGAAA
Found at i:5948502 original size:18 final size:18
Alignment explanation
Indices: 5948481--5948525 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
5948471 TCCACTTCGG
*
5948481 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
5948499 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
5948517 GAGCCATCA
1 GAGCCATCA
5948526 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:5949023 original size:20 final size:20
Alignment explanation
Indices: 5948998--5949043 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
5948988 TAGTTTACTT
5948998 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * * *
5949018 TCGCAACGCGGAATTGGCTA
1 TCGCAACACGAAAATGACTA
5949038 TCGCAA
1 TCGCAA
5949044 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:5949075 original size:14 final size:14
Alignment explanation
Indices: 5949053--5949142 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 14
5949043 ATGCGAAATG
5949053 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
5949067 AAAAGCGCAACGCGAA
1 AAAATCGCAA--CGAC
5949083 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
5949099 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
5949115 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
5949131 AAAATCGCAACG
1 AAAATCGCAACG
5949143 CGAAACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
14 29 0.47
16 16 0.26
18 17 0.27
ACGTcount: A:0.48, C:0.26, G:0.19, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:5949095 original size:32 final size:32
Alignment explanation
Indices: 5949037--5949147 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
5949027 GGAATTGGCT
*
5949037 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
*
5949070 AGCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
5949102 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
5949134 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
5949148 CACAAATCGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 61 0.81
33 14 0.19
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:5949176 original size:19 final size:19
Alignment explanation
Indices: 5949154--5949293 Score: 130
Period size: 19 Copynumber: 7.6 Consensus size: 19
5949144 GAAACACAAA
*
5949154 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5949173 TCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
5949191 TCGCGTTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
5949207 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ***
5949224 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
**
5949243 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
5949263 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
5949283 TCGTGTTGCGA
1 TCGCGTTGCGA
5949294 AAGTAAACTA
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.08
15 3 0.03
16 2 0.02
17 2 0.02
18 21 0.21
19 36 0.36
20 29 0.29
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5949254 original size:20 final size:19
Alignment explanation
Indices: 5949220--5949274 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
5949210 TTGCGATTTT
*
5949220 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
5949239 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
5949259 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
5949275 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:5949291 original size:39 final size:37
Alignment explanation
Indices: 5949154--5949293 Score: 128
Period size: 39 Copynumber: 3.8 Consensus size: 37
5949144 GAAACACAAA
5949154 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTCATT
* *
5949191 TCGCGTTGCGA-TTT--TGT--CGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGA-TTTCATT
*** *
5949224 TCGCATTGCGATAGCCATTTCCGCGTTGCGATAGTCATT
1 TCGCATTGCGATTTTCATTT-CGCGTTGCGAT-TTCATT
* * *
5949263 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCATTGCGATTTTCA-TTTCGCGTTGCGA
5949294 AAGTAAACTA
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
32 8 0.10
33 17 0.21
34 2 0.03
36 5 0.06
37 10 0.12
38 1 0.01
39 34 0.43
40 3 0.04
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.42
Consensus pattern (37 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATTTCATT
Found at i:5951163 original size:14 final size:14
Alignment explanation
Indices: 5951144--5951179 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5951134 ATTGTTTAAT
5951144 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
5951158 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
5951172 TGATTTGT
1 TGATTTGT
5951180 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:5951305 original size:14 final size:15
Alignment explanation
Indices: 5951286--5951362 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
5951276 CGAAATGGCT
5951286 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
5951300 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
5951318 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
5951337 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
5951351 ATCGCAATGCGA
1 ATCGCAA-GCGA
5951363 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:5951318 original size:19 final size:19
Alignment explanation
Indices: 5951296--5951362 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
5951286 ATCGCAACGA
5951296 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
5951315 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
5951333 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
5951347 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
5951363 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:5951797 original size:14 final size:14
Alignment explanation
Indices: 5951778--5951813 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5951768 ATTGTTTAAT
5951778 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
5951792 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
5951806 TGATTTGT
1 TGATTTGT
5951814 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:5951955 original size:18 final size:18
Alignment explanation
Indices: 5951932--5951970 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
5951922 CGCAACGAGA
5951932 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
5951950 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
5951968 AAA
1 AAA
5951971 ATCAACTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:5953147 original size:24 final size:24
Alignment explanation
Indices: 5953091--5953149 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
5953081 AGTCAGTATT
* *
5953091 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
5953115 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
5953139 CGAATTTTGAT
1 CGAAATTTGAT
5953150 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:5953341 original size:12 final size:12
Alignment explanation
Indices: 5953324--5953360 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
5953314 ATATAATCCT
*
5953324 GAAGAAGATAAA
1 GAAGAAGAAAAA
5953336 GAAGAAGAAAAA
1 GAAGAAGAAAAA
5953348 GAAGAAGAAAAA
1 GAAGAAGAAAAA
5953360 G
1 G
5953361 TCCCCGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:5955675 original size:19 final size:19
Alignment explanation
Indices: 5955653--5955750 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
5955643 GGAAATTACT
5955653 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
5955672 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
5955686 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
5955705 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
5955719 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
5955738 ATCGCAACGCGAA
1 ATCGCAATGCGAA
5955751 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:5955695 original size:33 final size:33
Alignment explanation
Indices: 5955653--5955746 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
5955643 GGAAATTACT
5955653 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
5955686 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
5955719 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
5955747 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:5955768 original size:19 final size:20
Alignment explanation
Indices: 5955746--5955788 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
5955736 AAATCGCAAC
5955746 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
5955765 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
5955785 GCGA
1 GCGA
5955789 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:5955773 original size:14 final size:14
Alignment explanation
Indices: 5955774--5955807 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5955764 TGCGATTTTC
5955774 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
5955788 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
5955802 ATTTTC
1 ATTTTC
5955808 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:5955947 original size:14 final size:14
Alignment explanation
Indices: 5955928--5955964 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5955918 CATCAATTAA
5955928 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5955942 ACAAATCACCTTTT
1 ACAAATCAACTTTT
5955956 ACAAATCAA
1 ACAAATCAA
5955965 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5957195 original size:22 final size:22
Alignment explanation
Indices: 5957154--5957221 Score: 118
Period size: 22 Copynumber: 3.0 Consensus size: 22
5957144 CTCGTATAAA
5957154 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
*
5957177 TGCACTGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
5957199 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
5957221 T
1 T
5957222 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 32 0.74
23 11 0.26
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:5957557 original size:29 final size:29
Alignment explanation
Indices: 5957515--5957586 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
5957505 TTTTCTGCAT
**
5957515 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
5957544 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
5957573 ATTCATGTCATGTA
1 ATTCATGTCATGTA
5957587 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:5957925 original size:19 final size:20
Alignment explanation
Indices: 5957888--5957925 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5957878 CTTTTTCTCA
*
5957888 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
5957908 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
5957926 TCAAGCAATC
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:5958025 original size:67 final size:67
Alignment explanation
Indices: 5957889--5958061 Score: 206
Period size: 67 Copynumber: 2.6 Consensus size: 67
5957879 TTTTTCTCAT
* * * *
5957889 GGGGGAATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGAT
1 GGGGGTATCGGTCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
5957954 GA
66 GA
* * * *
5957956 GGGGGTATCGGTCCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGT
1 GGGGGTATCGGT-CCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
5958020 TGA
65 TGA
* * *
5958023 GGGGGTATCGGT-TCCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTCCCCCCCTG--GGGGTACCGATTCCCCT
5958062 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
65 6 0.07
67 45 0.49
68 41 0.45
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (67 bp):
GGGGGTATCGGTCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:5964143 original size:22 final size:22
Alignment explanation
Indices: 5964098--5964165 Score: 109
Period size: 22 Copynumber: 3.0 Consensus size: 22
5964088 CTCGTATAAA
5964098 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
* *
5964121 TGCACTGAAGTGCCCATAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
5964143 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
5964165 T
1 T
5964166 ATGTCCATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 30 0.73
23 11 0.27
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:5964501 original size:29 final size:29
Alignment explanation
Indices: 5964459--5964530 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
5964449 TTTTTTGCAT
**
5964459 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
5964488 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
5964517 ATTCATGTCATGTA
1 ATTCATGTCATGTA
5964531 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Done.