Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008308.1 Hibiscus syriacus cultivar Beakdansim tig00110998_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: 1044366
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:7962 original size:60 final size:59
Alignment explanation
Indices: 7851--7977 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 59
7841 CAGCATGCTG
* * *
7851 CATATTCGGGAATACACTAAAGAATACCTAGTTTATATGATGGCCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGAATACCTAGTATAGATGATGGACACGACCTTATGTGT
** * * * *
7910 CATATTCGGGAACTGTACTTAAGGATACCTAGTATAGATGGTGGACATGACCTTATGTGT
1 CATATTCGGGAA-TACACTAAAGAATACCTAGTATAGATGATGGACACGACCTTATGTGT
7970 CATATTCG
1 CATATTCG
7978 AGATTGCACT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
59 12 0.21
60 46 0.79
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGAATACCTAGTATAGATGATGGACACGACCTTATGTGT
Found at i:8067 original size:20 final size:20
Alignment explanation
Indices: 8042--8084 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8032 TATATTGGGC
* *
8042 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
8062 TATTGTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
8082 TAT
1 TAT
8085 GGAATAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.56
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:8150 original size:45 final size:45
Alignment explanation
Indices: 8081--8234 Score: 213
Period size: 45 Copynumber: 3.4 Consensus size: 45
8071 TGGTATATGG
* * *
8081 TTATGGAAT-AATGGCAAGTGTATTGGTAAAATAAGTTTACGAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
8125 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
8170 TTAT-GATATTAAATGGTAATTATTTTGGTAAAATAAGCTTACGAGC
1 TTATGGA-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
8216 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
8235 AGATTTTATA
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
44 10 0.10
45 47 0.48
46 39 0.40
47 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:9996 original size:6 final size:6
Alignment explanation
Indices: 9973--10049 Score: 75
Period size: 6 Copynumber: 12.8 Consensus size: 6
9963 TATTGGATAT
* * ** * *
9973 TATTGA TATGGG TATTGA TATTGA TATTGA TACGGG TATTGA TAATGA
1 TATTGA TATTGA TATTGA TATTGA TATTGA TATTGA TATTGA TATTGA
*
10021 TATTGA T-CTGA GTATTGA TATTGA TATTG
1 TATTGA TATTGA -TATTGA TATTGA TATTG
10050 GTACTAGTAT
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
5 3 0.05
6 49 0.89
7 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (6 bp):
TATTGA
Found at i:10003 original size:24 final size:24
Alignment explanation
Indices: 9973--10049 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
9963 TATTGGATAT
9973 TATTGATATGGGTATTGATATTGA
1 TATTGATATGGGTATTGATATTGA
* *
9997 TATTGATACGGGTATTGATAATGA
1 TATTGATATGGGTATTGATATTGA
* *
10021 TATTGATCTGAGTATTGATATTGA
1 TATTGATATGGGTATTGATATTGA
10045 TATTG
1 TATTG
10050 GTACTAGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (24 bp):
TATTGATATGGGTATTGATATTGA
Found at i:10058 original size:24 final size:24
Alignment explanation
Indices: 9984--10083 Score: 112
Period size: 24 Copynumber: 4.2 Consensus size: 24
9974 ATTGATATGG
**
9984 GTATTGATATTGATATTGATACGG
1 GTATTGATATTGATATTGATACTA
*
10008 GTATTGATAATGATATTGAT-CTGA
1 GTATTGATATTGATATTGATACT-A
*
10032 GTATTGATATTGATATTGGTACTA
1 GTATTGATATTGATATTGATACTA
* * * *
10056 GTATTGATACTGGTATTTATACCA
1 GTATTGATATTGATATTGATACTA
10080 GTAT
1 GTAT
10084 CAATACCAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.02
24 61 0.95
25 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (24 bp):
GTATTGATATTGATATTGATACTA
Found at i:10060 original size:12 final size:12
Alignment explanation
Indices: 9984--10083 Score: 55
Period size: 12 Copynumber: 8.3 Consensus size: 12
9974 ATTGATATGG
*
9984 GTATTGATA-TT
1 GTATTGATACTA
**
9995 GATATTGATACGG
1 G-TATTGATACTA
*
10008 GTATTGATAAT-
1 GTATTGATACTA
10019 GATATTGAT-CTGA
1 G-TATTGATACT-A
*
10032 GTATTGATA-TT
1 GTATTGATACTA
*
10043 GATATTGGTACTA
1 G-TATTGATACTA
*
10056 GTATTGATACTG
1 GTATTGATACTA
* *
10068 GTATTTATACCA
1 GTATTGATACTA
10080 GTAT
1 GTAT
10084 CAATACCAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
11 4 0.06
12 60 0.88
13 4 0.06
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (12 bp):
GTATTGATACTA
Found at i:12673 original size:8 final size:8
Alignment explanation
Indices: 12660--12692 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
12650 CTCAAAGCTC
12660 AAAAAATA
1 AAAAAATA
12668 AAAAAA-A
1 AAAAAATA
12675 AAAAAATA
1 AAAAAATA
*
12683 AAAAAGTA
1 AAAAAATA
12691 AA
1 AA
12693 GGTTGGCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (8 bp):
AAAAAATA
Found at i:19346 original size:60 final size:59
Alignment explanation
Indices: 19238--19367 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 59
19228 CAGCATGCTG
** * *
19238 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGATGGGCACGACCTTAT-CTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGATGGACACGACCTTATGC-GT
* * *
19297 CATATTCGGGAACTATACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGCGT
1 CATATTCGGGAA-TACACTAAAGGATACCTAGTACAGATGATGGACACGACCTTATGCGT
19357 CATATTCGGGA
1 CATATTCGGGA
19368 TTGCACTACG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 12 0.19
60 49 0.79
61 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGATGGACACGACCTTATGCGT
Found at i:19454 original size:20 final size:20
Alignment explanation
Indices: 19429--19471 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19419 TATATTGGGC
* *
19429 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
19449 TATTGTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
19469 TAT
1 TAT
19472 GGAATAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.56
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:19540 original size:45 final size:45
Alignment explanation
Indices: 19468--19621 Score: 231
Period size: 45 Copynumber: 3.4 Consensus size: 45
19458 TGGTATATGG
* * *
19468 TTATGGAAT-AAGGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
19512 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
19557 TTAT-GATATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGA-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
19603 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
19622 AGATTTTATA
Statistics
Matches: 100, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
44 10 0.10
45 48 0.48
46 41 0.41
47 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:19929 original size:22 final size:22
Alignment explanation
Indices: 19903--19951 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
19893 GGCATGTAAT
19903 TTGAAAATATTCAATTTATTTG
1 TTGAAAATATTCAATTTATTTG
19925 TTGAAAATATTCAATTTATTTG
1 TTGAAAATATTCAATTTATTTG
19947 TTGAA
1 TTGAA
19952 TAAATTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (22 bp):
TTGAAAATATTCAATTTATTTG
Found at i:20030 original size:12 final size:12
Alignment explanation
Indices: 20013--20038 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20003 ATGTATTTTC
20013 AGAAGTTACTGT
1 AGAAGTTACTGT
20025 AGAAGTTACTGT
1 AGAAGTTACTGT
20037 AG
1 AG
20039 TATGAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
AGAAGTTACTGT
Found at i:21518 original size:16 final size:16
Alignment explanation
Indices: 21497--21528 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21487 ATTGATGAAA
21497 AAGTGAAATCATCAAT
1 AAGTGAAATCATCAAT
*
21513 AAGTGATATCATCAAT
1 AAGTGAAATCATCAAT
21529 GGTTGCGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (16 bp):
AAGTGAAATCATCAAT
Found at i:28394 original size:19 final size:20
Alignment explanation
Indices: 28370--28411 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
28360 TATATTGGGC
*
28370 TATTGTCTATTGT-TATGGT
1 TATTGTCTATGGTATATGGT
28389 TATTGTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
28409 TAT
1 TAT
28412 GGAATAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:28477 original size:45 final size:45
Alignment explanation
Indices: 28408--28561 Score: 211
Period size: 45 Copynumber: 3.4 Consensus size: 45
28398 TGGTATATGG
*
28408 TTATGGAAT-AATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
* * *
28452 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTATGAGC
1 TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
* * **
28497 TTATGGTATTAAATGGTAAGTGTATTGGTAAAATAAGCTTACAATA
1 TTATGG-AATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
*
28543 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
28562 AGATTTTATA
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
44 8 0.08
45 49 0.52
46 38 0.40
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
Found at i:35879 original size:45 final size:45
Alignment explanation
Indices: 35810--35963 Score: 229
Period size: 45 Copynumber: 3.4 Consensus size: 45
35800 GGGTATATGG
* *
35810 TTATGGAAT-AATGGAAAGTGTATTGTTAAAATAAGATTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGTTAAAATAAGCTTACGAGC
* *
35854 TTATGGAACAAATGGTAAGTATATTGTTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGTTAAAATAAGCTTACGAGC
* *
35899 TTATGGTATTAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGG-AATAAATGGTAAGTGTATTGTTAAAATAAGCTTACGAGC
*
35945 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
35964 AGATTTTATA
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
44 8 0.08
45 49 0.50
46 41 0.42
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTGTATTGTTAAAATAAGCTTACGAGC
Found at i:38855 original size:134 final size:132
Alignment explanation
Indices: 38607--39039 Score: 508
Period size: 134 Copynumber: 3.2 Consensus size: 132
38597 ATCTGGAAAG
* * * *
38607 AATTTTGATCCACTTCGCTACTCTTTAGGAAAGATTGAATCGAATTTGATTTGCTTCATTGCTCT
1 AATTTTGATCCACTTCACTACTCTTCAGG-AAGATTGAATCGAACTTGATTTGCTTCACTGCTCT
* * * * * * *
38672 TCAGGAAGATCAAATCTGAAAGAAAAAGAATTTGTTTCGCTACTCTTTAGGGGAGATCGGACTCG
65 TCAAGAAGATCAAATCTGAAAG-AAAAGAATATGCTCCACTACTATTTAGGGGAGATCAGACTCG
38737 AGAA
129 AGAA
** * * * * *
38741 AAAATTGATCCACTTCACTATTCTTCAGAGAAGATTGAATCAAACGTGATTTACTTCGCTGCTCT
1 AATTTTGATCCACTTCACTACTCTTCAG-GAAGATTGAATCGAACTTGATTTGCTTCACTGCTCT
* * * *
38806 TCAAGAAGACCAAATCTGAAAGAAAGAGAATCTCCTCCACTACTATTTAGGGGAGATCAGACTTG
65 TCAAGAAGATCAAATCTGAAAGAAA-AGAATATGCTCCACTACTATTTAGGGGAGATCAGACTCG
38871 AGAA
129 AGAA
** * * * *
38875 AATTTTGATCCACTTCGTTGCTCTTCAGGAAGACTAAATCGAACTTGATTTGCTTCACTACTCTT
1 AATTTTGATCCACTTCACTACTCTTCAGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTT
* * *
38940 C-AGAAGATCAAATTTGAAAGGAAAAAAATATGCTCTACTACTATTTAGGGGAGATCAGACTCGA
66 CAAGAAGATCAAATCTGAAA-GAAAAGAATATGCTCCACTACTATTTAGGGGAGATCAGACTCGA
39004 GAA
130 GAA
* * *
39007 AATTTTGATCCATTTCACTGCTCTTCAAGAAGA
1 AATTTTGATCCACTTCACTACTCTTCAGGAAGA
39040 CCAAATATAA
Statistics
Matches: 251, Mismatches: 45, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
132 83 0.33
133 38 0.15
134 129 0.51
135 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (132 bp):
AATTTTGATCCACTTCACTACTCTTCAGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTT
CAAGAAGATCAAATCTGAAAGAAAAGAATATGCTCCACTACTATTTAGGGGAGATCAGACTCGAG
AA
Found at i:39045 original size:225 final size:227
Alignment explanation
Indices: 38799--39216 Score: 556
Period size: 225 Copynumber: 1.9 Consensus size: 227
38789 ATTTACTTCG
* * * *
38799 CTGCTCTTCAAGAAGACCAAATCTGAAAGAA-AGAGAATCTCCTCCACTACTATTTAGGGGAGAT
1 CTGCTCTTCAAGAAGACCAAATATAAAAGAAGA-AGAATATCCTCCACTACTATTTAGGGGAGAC
* * * **
38863 CAGACTTGAGAAAATTTTGATCCACTTCGTTGCTCTTCAG-GAAGACTAAATCGAACTTGATTTG
65 CAAACTCGAGAAAATTTTGATCAACTTCACTGCTCTTCAGAGAAGACTAAATCGAACTTGATTTG
* * * *
38927 CTTCACTACTCTTCAG-AAGATCAAATTTGAAAGGAAAAA-AATATGCTCTACTACTATTTAGGG
130 CTTCACTACTCTTCAGAAAGACCAAATCTGAAA-GAAAAAGAATATGCCCCACTACTATTTAGGG
38990 GAGATCAGACTCGAGAAAATTTTGATCCATTTCA
194 GAGATCAGACTCGAGAAAATTTTGATCCATTTCA
* * * * *
39024 CTGCTCTTCAAGAAGACCAAATATAAAAGAAGAAGAATATGCTCCACTGCTCTTTAGTGGAGGCC
1 CTGCTCTTCAAGAAGACCAAATATAAAAGAAGAAGAATATCCTCCACTACTATTTAGGGGAGACC
** * *
39089 AAACTCGAGAAAATTTTGATCAACTTCACTGCTCTTTGGAGAAGATTAAATCGAACTTGATTTTC
66 AAACTCGAGAAAATTTTGATCAACTTCACTGCTCTTCAGAGAAGACTAAATCGAACTTGATTTGC
** * *
39154 TTCGTTGCTCTTCAGAAAGACCAAATCTGAAAGAAAAAGAATATGCCCCACTACTCTTTAGGG
131 TTCACTACTCTTCAGAAAGACCAAATCTGAAAGAAAAAGAATATGCCCCACTACTATTTAGGG
39217 AAACCAGATC
Statistics
Matches: 163, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
225 86 0.53
226 42 0.26
227 35 0.21
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (227 bp):
CTGCTCTTCAAGAAGACCAAATATAAAAGAAGAAGAATATCCTCCACTACTATTTAGGGGAGACC
AAACTCGAGAAAATTTTGATCAACTTCACTGCTCTTCAGAGAAGACTAAATCGAACTTGATTTGC
TTCACTACTCTTCAGAAAGACCAAATCTGAAAGAAAAAGAATATGCCCCACTACTATTTAGGGGA
GATCAGACTCGAGAAAATTTTGATCCATTTCA
Found at i:39080 original size:93 final size:92
Alignment explanation
Indices: 38927--39124 Score: 245
Period size: 93 Copynumber: 2.1 Consensus size: 92
38917 ACTTGATTTG
* * * * *
38927 CTTCACTACTCTTCAGAAGATCAAATTTGAAAGGAAAAAAATATGCTCTACTACTATTTAGGGGA
1 CTTCACTGCTCTTCAGAAGACCAAATATGAAAAGAAAAAAATATGCTCCACTACTATTTAGGGGA
* * *
38992 GATCAGACTCGAGAAAATTTTGATCCA
66 GACCAAACTCGAGAAAATTTTGATCAA
* * * * *
39019 TTTCACTGCTCTTCAAGAAGACCAAATAT-AAAAGAAGAAGAATATGCTCCACTGCTCTTTAGTG
1 CTTCACTGCTCTTC-AGAAGACCAAATATGAAAAGAA-AAAAATATGCTCCACTACTATTTAGGG
*
39083 GAGGCCAAACTCGAGAAAATTTTGATCAA
64 GAGACCAAACTCGAGAAAATTTTGATCAA
39112 CTTCACTGCTCTT
1 CTTCACTGCTCTT
39125 TGGAGAAGAT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
92 18 0.20
93 71 0.80
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (92 bp):
CTTCACTGCTCTTCAGAAGACCAAATATGAAAAGAAAAAAATATGCTCCACTACTATTTAGGGGA
GACCAAACTCGAGAAAATTTTGATCAA
Found at i:39886 original size:17 final size:17
Alignment explanation
Indices: 39847--39886 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
39837 AAGGTTTATT
39847 TTTTTATTTATTATTTC
1 TTTTTATTTATTATTTC
39864 TCTTTTA-TTATTATTTC
1 T-TTTTATTTATTATTTC
39881 ATTTTT
1 -TTTTT
39887 TCTTTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATTTATTATTTC
Found at i:39892 original size:22 final size:23
Alignment explanation
Indices: 39850--39901 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
39840 GTTTATTTTT
39850 TTATTTATTATTTCTCTTTTATTA
1 TTATTTATTATTTCTCTTTTA-TA
39874 TTATTTCATT-TTT-TC-TTTATA
1 TTATTT-ATTATTTCTCTTTTATA
39895 TATATTT
1 T-TATTT
39902 TTTTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 3 0.12
22 9 0.35
23 2 0.08
24 9 0.35
25 3 0.12
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (23 bp):
TTATTTATTATTTCTCTTTTATA
Found at i:40036 original size:41 final size:42
Alignment explanation
Indices: 39990--40092 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
39980 AAAGGTCTTA
* * * *
39990 TAGATGGCCCGAAGGACTTATCATCTTTCTTGAAAGACTGAC
1 TAGATGACCCGAAGGACTTATAATCATTCTCGAAAGACTGAC
* * *
40032 -AGATGACCTGAAGGATTTAATAATCATTCTCGAAAGACTTAC
1 TAGATGACCCGAAGGACTT-ATAATCATTCTCGAAAGACTGAC
40074 TA-ATGACCCGAAGGACTTA
1 TAGATGACCCGAAGGACTTA
40093 CCAATTTTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 16 0.32
42 33 0.66
43 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (42 bp):
TAGATGACCCGAAGGACTTATAATCATTCTCGAAAGACTGAC
Found at i:47393 original size:20 final size:20
Alignment explanation
Indices: 47368--47407 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47358 TTCATTTGCA
47368 AAGACAATTGATTAATTGAC
1 AAGACAATTGATTAATTGAC
47388 AAGACAATTGATTAATTGAC
1 AAGACAATTGATTAATTGAC
47408 TATCGGCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (20 bp):
AAGACAATTGATTAATTGAC
Found at i:49706 original size:2 final size:2
Alignment explanation
Indices: 49699--49729 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
49689 TTGTATTTAA
49699 AT AT AT AT -T 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
49730 TGGTGTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:53956 original size:12 final size:12
Alignment explanation
Indices: 53939--53964 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53929 AAAGAACTTA
53939 CAATATTTTATG
1 CAATATTTTATG
53951 CAATATTTTATG
1 CAATATTTTATG
53963 CA
1 CA
53965 CTTCATTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (12 bp):
CAATATTTTATG
Found at i:55469 original size:21 final size:21
Alignment explanation
Indices: 55426--55488 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
55416 ATATGCTCAC
**
55426 TAATTTTTCAAATTGGTCATT
1 TAATTTTTCAAATTGACCATT
* *
55447 TAATATTTCAAATTGACCTTT
1 TAATTTTTCAAATTGACCATT
**
55468 TAATTTTTTGAATTGACCATT
1 TAATTTTTCAAATTGACCATT
55489 CATTATAGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (21 bp):
TAATTTTTCAAATTGACCATT
Found at i:57962 original size:10 final size:10
Alignment explanation
Indices: 57947--57978 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
57937 AAAAAACCGA
57947 TTTCGATTTT
1 TTTCGATTTT
57957 TTTCGATTTT
1 TTTCGATTTT
57967 TTTCGATTTT
1 TTTCGATTTT
57977 TT
1 TT
57979 AACCATTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.72
Consensus pattern (10 bp):
TTTCGATTTT
Found at i:60396 original size:24 final size:24
Alignment explanation
Indices: 60355--60415 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
60345 TGGTTCTTCG
* * *
60355 GGACAAA-TCTATGTGGTCTTTCA
1 GGACAAATTCTACGCGGTCATTCA
*
60378 GGACAAATTCTACGCGGTCATTCG
1 GGACAAATTCTACGCGGTCATTCA
60402 GGACAAATTCTACG
1 GGACAAATTCTACG
60416 TGGCACTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 7 0.21
24 26 0.79
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
GGACAAATTCTACGCGGTCATTCA
Found at i:60425 original size:24 final size:24
Alignment explanation
Indices: 60301--60431 Score: 144
Period size: 23 Copynumber: 5.6 Consensus size: 24
60291 GTTCTACGAT
60301 GTCCTTCGGGACAAA-TCTATGTG
1 GTCCTTCGGGACAAATTCTATGTG
*
60324 GTCCTTTGGGA-AAATTCTATGTG
1 GTCCTTCGGGACAAATTCTATGTG
*
60347 GTTCTTCGGGACAAA-TCTATGTG
1 GTCCTTCGGGACAAATTCTATGTG
* * * *
60370 GTCTTTCAGGACAAATTCTACGCG
1 GTCCTTCGGGACAAATTCTATGTG
* *
60394 GTCATTCGGGACAAATTCTACGTG
1 GTCCTTCGGGACAAATTCTATGTG
*
60418 G-CACTTCGGTACAA
1 GTC-CTTCGGGACAA
60432 TTTATATGAG
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
22 3 0.03
23 48 0.53
24 40 0.44
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (24 bp):
GTCCTTCGGGACAAATTCTATGTG
Found at i:61351 original size:14 final size:15
Alignment explanation
Indices: 61334--61367 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
61324 ATTTATATAG
61334 TTTTAATT-ATAAAA
1 TTTTAATTCATAAAA
*
61348 TTTTAATTCATAGAA
1 TTTTAATTCATAAAA
61363 TTTTA
1 TTTTA
61368 TATTTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTTAATTCATAAAA
Found at i:66321 original size:53 final size:54
Alignment explanation
Indices: 66263--66367 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 54
66253 TTGAGAAATT
* * * * *
66263 AAATAGATTATAGATATCGAATAGA-AAAATTAACATGGATAATTTTCATTTAA
1 AAATAGATAATACAAATCGAATAAATAAAACTAACATGGATAATTTTCATTTAA
* * *
66316 AAATAGATAATACAAATTGTATAAATAAAACTAACGTGGATAATTTTCATTT
1 AAATAGATAATACAAATCGAATAAATAAAACTAACATGGATAATTTTCATTT
66368 GAGTTAGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 19 0.44
54 24 0.56
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (54 bp):
AAATAGATAATACAAATCGAATAAATAAAACTAACATGGATAATTTTCATTTAA
Found at i:66974 original size:15 final size:15
Alignment explanation
Indices: 66956--67031 Score: 77
Period size: 15 Copynumber: 5.3 Consensus size: 15
66946 ATGAAATTCT
66956 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
66971 AATTATTTATATAAA
1 AATTATTTAAATAAA
* **
66986 AATTA-ATCGAT-AA
1 AATTATTTAAATAAA
*
66999 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
*
67013 AATTATTTATATAAA
1 AATTATTTAAATAAA
67028 AATT
1 AATT
67032 CATCGATAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
12 2 0.04
13 6 0.12
14 6 0.12
15 34 0.71
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:66985 original size:19 final size:19
Alignment explanation
Indices: 66958--67027 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
66948 GAAATTCTAA
*
66958 TTATTTAAATAAAAATTAT
1 TTATATAAATAAAAATTAT
*
66977 TTATATAAA-AATTAATCGATAAT
1 TTATATAAATAA--AA---ATTAT
* *
67000 ATATTTAAATAAAAATTAT
1 TTATATAAATAAAAATTAT
67019 TTATATAAA
1 TTATATAAA
67028 AATTCATCGA
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
18 2 0.05
19 19 0.50
20 2 0.05
22 2 0.05
23 11 0.29
24 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (19 bp):
TTATATAAATAAAAATTAT
Found at i:66988 original size:21 final size:21
Alignment explanation
Indices: 66964--67030 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
66954 CTAATTATTT
66964 AAATAAAAATTATTTATATAA
1 AAATAAAAATTATTTATATAA
* * * **
66985 AAAT--TAATCGATAATATATTT
1 AAATAAAAAT-TAT-TTATATAA
67006 AAATAAAAATTATTTATATAA
1 AAATAAAAATTATTTATATAA
67027 AAAT
1 AAAT
67031 TCATCGATAA
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 3 0.09
20 2 0.06
21 22 0.69
22 2 0.06
23 3 0.09
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (21 bp):
AAATAAAAATTATTTATATAA
Found at i:67005 original size:42 final size:42
Alignment explanation
Indices: 66955--67046 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
66945 AATGAAATTC
66955 TAAT-TATTTAAATAAAAATTATTTATATAAAAATTAATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTAATCGA
*
66996 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTAATCGA
67038 TAATATATT
1 TAATATATT
67047 ATTTTATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 4 0.08
42 45 0.92
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAATTAATCGA
Found at i:67355 original size:31 final size:32
Alignment explanation
Indices: 67304--67367 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
67294 ATTCCTCGAA
67304 AGATGATTTCTACCGAGTCGGACACTTGTTAC
1 AGATGATTTCTACCGAGTCGGACACTTGTTAC
*
67336 AGATGATTTCTA-CGAGTCGGACTCTTGTTAC
1 AGATGATTTCTACCGAGTCGGACACTTGTTAC
67367 A
1 A
67368 TACGCTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (32 bp):
AGATGATTTCTACCGAGTCGGACACTTGTTAC
Found at i:73918 original size:21 final size:21
Alignment explanation
Indices: 73893--73940 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
73883 CCATTAAAAT
73893 GGAAAAGAGTTTTCATAACAA
1 GGAAAAGAGTTTTCATAACAA
73914 GGAAAAGAGTTTTCATAACAA
1 GGAAAAGAGTTTTCATAACAA
73935 GGAAAA
1 GGAAAA
73941 ACACAATCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (21 bp):
GGAAAAGAGTTTTCATAACAA
Found at i:78798 original size:134 final size:130
Alignment explanation
Indices: 78460--78791 Score: 362
Period size: 131 Copynumber: 2.5 Consensus size: 130
78450 TGGTTTATCG
* * * **
78460 TCTTCATCACATAGGAACCGTGTCATCCCCCGACCATATCTCCTCATTATATAGGAGCAGTGTCA
1 TCTTCATCACGTAGGAACCGTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAGCA-TGTCA
** * * * *
78525 CCCATAGATAACCAGTCATCCTCATCACGTAGGAACTGTGTTATCATCCCTAAAGATAGCATGTC
65 CCCATAGATAACCAACCTTCCTAATCACGTAGGAACCGTGTTATCATCCCTAAAGATAGCATGAC
78590 A
130 A
* * * * * *
78591 TCCTCATCACGTAGGAACCATGTCATCCCCCAACCAGACCTCCTCATCACGAAGGAGCCATGTTA
1 TCTTCATCACGTAGGAACCGTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAG-CATGTCA
* * *
78656 CCCCTAGATAACCAACCTTCCTAATCGCGTAGGAACCGTGTTATCACACTTCCTAAAGATAGCCA
65 CCCATAGATAACCAACCTTCCTAATCACGTAGGAACCGTGTTAT--CA-TCCCTAAAGATAG-CA
78721 -GA-A
126 TGACA
* * * *
78724 CTCTTCATCACGTATGAGCCGTGTCATCCACCGACTAGATCTCCTCATCACGTAGGAGCTATGTC
1 -TCTTCATCACGTAGGAACCGTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAGC-ATGTC
78789 ACC
64 ACC
78792 TTTAGATGAC
Statistics
Matches: 164, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
131 88 0.54
132 2 0.01
133 4 0.02
134 68 0.41
135 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (130 bp):
TCTTCATCACGTAGGAACCGTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAGCATGTCAC
CCATAGATAACCAACCTTCCTAATCACGTAGGAACCGTGTTATCATCCCTAAAGATAGCATGACA
Found at i:79003 original size:3 final size:3
Alignment explanation
Indices: 78986--79025 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
78976 CTACCAAAAA
78986 TAT TAT T-T TATT TAT TA- TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
79026 ATTTATTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:79003 original size:12 final size:11
Alignment explanation
Indices: 78986--79032 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
78976 CTACCAAAAA
78986 TATTATTTTATT
1 TATTATTTTA-T
*
78998 TATTATATTAT
1 TATTATTTTAT
79009 TATTATTATTAT
1 TATTATT-TTAT
*
79021 TATTAATTTAT
1 TATTATTTTAT
79032 T
1 T
79033 TACATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 12 0.39
12 19 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:81300 original size:302 final size:301
Alignment explanation
Indices: 80742--81358 Score: 1044
Period size: 302 Copynumber: 2.0 Consensus size: 301
80732 TGTTTTAATC
80742 TTATTTTA-TTTACTCTCTTATTTGTTTGGTATATTCAATCTTGGTGGTTGGTTTAGAAAACTTG
1 TTATTTTATTTTACTCTCTTATTTGTTTGGTATATTCAATCTTGGTGGTTGGTTTAGAAAACTTG
*
80806 CATGTTGGTCCTTAATTTATGTGAATATTTGACATTATTTTTATATGAATCACCATTGCTTTCTA
66 CATATTGGTCCTTAATTTATGTGAATATTTGACATTATTTTTATATGAATCACCATTGCTTTCTA
*
80871 ATATATATGTAAATAGGAAATTTTATTGTGAGAGAAATCTACGAAGACATCTCCCGACTACAAGG
131 ATATATATGTAAATAGGAAATTTTATTATGAGAGAAATCTACGAAGACATCTCCCGACTACAAGG
*
80936 GAAGGTGTCTTTTCGAGGATTTTTCGCATAAATGTTTATTTTGTATTCGATAATTTTCTTTGTTC
196 GAAGGTGTCTTTTCAAGGATTTTTCGCATAAATGTTTATTTTGTATTCGATAATTTTCTTTGTT-
81001 CACATTTATTTATTTTGATTATTTTCAACTATTTTCACTTTTATT
260 C-CA--TATTTATTTTGATTATTTTCAACTATTTTCACTTTTATT
* * *
81046 TTATTTTATTTTA-TCTTTTATTTGTTTGGTATTTTCAATCTTGGTGGTTGGTTTAGAAAGCTTG
1 TTATTTTATTTTACTCTCTTATTTGTTTGGTATATTCAATCTTGGTGGTTGGTTTAGAAAACTTG
* *
81110 -ATATTGGTCCTTTATTTATGTGAATATTTGACCTTATTTTTATATGAATCACCATTGCTTTCTA
66 CATATTGGTCCTTAATTTATGTGAATATTTGACATTATTTTTATATGAATCACCATTGCTTTCTA
* *
81174 ATATATATGTAAATATGAAATTTTATTATGAG-GAAATCTACGAAGACATCTCCCGATTACAAGG
131 ATATATATGTAAATAGGAAATTTTATTATGAGAGAAATCTACGAAGACATCTCCCGACTACAAGG
*
81238 GAATGTGTCTTTTCAAGGATTTTTCGCATAAATGTTTATTTTGTATTCGATAATTTTCTTTGTTC
196 GAAGGTGTCTTTTCAAGGATTTTTCGCATAAATGTTTATTTTGTATTCGATAATTTTCTTTGTTC
* *
81303 CATGTTTATTTTGATTATTTTCATCTATTTTCACTTTTATT
261 CATATTTATTTTGATTATTTTCAACTATTTTCACTTTTATT
81344 TTATTTTATCTTTAC
1 TTATTTTAT-TTTAC
81359 GAAAATTGTG
Statistics
Matches: 297, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
298 46 0.15
299 4 0.01
300 2 0.01
301 1 0.00
302 93 0.31
303 91 0.31
304 56 0.19
305 4 0.01
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.49
Consensus pattern (301 bp):
TTATTTTATTTTACTCTCTTATTTGTTTGGTATATTCAATCTTGGTGGTTGGTTTAGAAAACTTG
CATATTGGTCCTTAATTTATGTGAATATTTGACATTATTTTTATATGAATCACCATTGCTTTCTA
ATATATATGTAAATAGGAAATTTTATTATGAGAGAAATCTACGAAGACATCTCCCGACTACAAGG
GAAGGTGTCTTTTCAAGGATTTTTCGCATAAATGTTTATTTTGTATTCGATAATTTTCTTTGTTC
CATATTTATTTTGATTATTTTCAACTATTTTCACTTTTATT
Found at i:84952 original size:106 final size:106
Alignment explanation
Indices: 84764--85045 Score: 438
Period size: 106 Copynumber: 2.7 Consensus size: 106
84754 AGGTGAACCG
* **
84764 CTGGTTGTCAACAAACAACTTCTTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1 CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
84829 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCA
66 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCA
*
84870 CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
1 CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
**
84935 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGG
66 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCA
* * * * *
84976 CTGGTTGTCAACAAACAATTTCCCGATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTAG
1 CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
85041 ACTCG
66 ACTCG
85046 GAACAATGCT
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 161 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (106 bp):
CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCA
Found at i:85886 original size:37 final size:37
Alignment explanation
Indices: 85794--85873 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
85784 CCTTTTCGTC
85794 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
* * * *
85831 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
85868 CTACTA
1 CTACTA
85874 TTATTTAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
Found at i:86732 original size:94 final size:101
Alignment explanation
Indices: 86525--86830 Score: 365
Period size: 106 Copynumber: 3.0 Consensus size: 101
86515 AGCATTGTTC
* * * *
86525 CGAGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTC-T-GT-AAGTTGAAA-T-GCTCTGAAATTGGGAAATTGTTTGTTGACA
** * *
86590 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
61 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
86631 CGAGTCCAATATCCTT-TGT-TG-TG-AA-G-T-TGAAATTGGGAAATTGTTTGATGACAACCAG
1 CGAGTCCAATATCCTTCTGTAAGTTGAAATGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAG
*
86689 TGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCT
66 TGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
86725 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTT--CTGT-AAGTTGAAA-T-GCTCTGAAATTGGGAAATTGTTTGTTGACA
86790 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
61 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
86831 GGACCCCAAA
Statistics
Matches: 173, Mismatches: 15, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
94 75 0.43
95 1 0.01
96 1 0.01
97 3 0.02
99 3 0.02
100 4 0.02
101 3 0.02
103 2 0.01
104 2 0.01
105 1 0.01
106 78 0.45
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (101 bp):
CGAGTCCAATATCCTTCTGTAAGTTGAAATGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAG
TGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:87310 original size:22 final size:22
Alignment explanation
Indices: 87284--87338 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
87274 TTGTGTTTGG
87284 TCAAAGGTTTGGAATTTGATGC
1 TCAAAGGTTTGGAATTTGATGC
*
87306 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGAATTTGATGC
87328 TCAAAGGTTTG
1 TCAAAGGTTTG
87339 TTGGGGTAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGAATTTGATGC
Found at i:87955 original size:22 final size:20
Alignment explanation
Indices: 87929--87975 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
87919 TGCATGTACT
87929 TTTTTGTCCCTTTTTCTTTTTG
1 TTTTTGT-CCTTTTT-TTTTTG
*
87951 ATTTTTGTTCTTTTTTTTTTG
1 -TTTTTGTCCTTTTTTTTTTG
87972 TTTT
1 TTTT
87976 CTTCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 6 0.26
22 6 0.26
23 7 0.30
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.79
Consensus pattern (20 bp):
TTTTTGTCCTTTTTTTTTTG
Found at i:87961 original size:16 final size:14
Alignment explanation
Indices: 87942--88001 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 14
87932 TTGTCCCTTT
87942 TTCTTTTTGATTTTTG
1 TTCTTTTT--TTTTTG
87958 TTCTTTTTTTTTTG
1 TTCTTTTTTTTTTG
87972 TT-TTCTTCTTTTTTG
1 TTCTT-TT-TTTTTTG
87987 CTTCTTTTCTTTTTT
1 -TTCTTTT-TTTTTT
88002 ATTTTTGCCC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.05
14 10 0.25
15 7 0.17
16 19 0.47
17 2 0.05
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.80
Consensus pattern (14 bp):
TTCTTTTTTTTTTG
Found at i:87975 original size:19 final size:20
Alignment explanation
Indices: 87938--87985 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
87928 TTTTTTGTCC
*
87938 CTTTTTCTTTTTGATTTTTGTT
1 CTTTTT-TTTTTGA-TTTTCTT
87960 CTTTTTTTTTTG-TTTTCTT
1 CTTTTTTTTTTGATTTTCTT
87979 CTTTTTT
1 CTTTTTT
87986 GCTTCTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 13 0.52
21 6 0.24
22 6 0.24
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.81
Consensus pattern (20 bp):
CTTTTTTTTTTGATTTTCTT
Found at i:87994 original size:19 final size:19
Alignment explanation
Indices: 87953--88001 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
87943 TCTTTTTGAT
* ** *
87953 TTTTGTTCTTTTTTTTTTG
1 TTTTCTTCTTTTTTGCTTC
87972 TTTTCTTCTTTTTTGCTTC
1 TTTTCTTCTTTTTTGCTTC
87991 TTTTCTT-TTTT
1 TTTTCTTCTTTT
88002 ATTTTTGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (19 bp):
TTTTCTTCTTTTTTGCTTC
Found at i:92403 original size:19 final size:20
Alignment explanation
Indices: 92361--92403 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
92351 AAATAAGATT
*
92361 TTAAAAGAAAATAATAATAA
1 TTAAAAGAAAATAACAATAA
*
92381 -TAAAAGAAAGTAACAA-AA
1 TTAAAAGAAAATAACAATAA
92399 TTAAA
1 TTAAA
92404 GAGTAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (20 bp):
TTAAAAGAAAATAACAATAA
Found at i:92487 original size:20 final size:20
Alignment explanation
Indices: 92437--92491 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
92427 AACCAATAAT
92437 AATAAACATAAAAT--AATTG
1 AATAAA-ATAAAATAAAATTG
*
92456 GATGAAAA-AAAATAAAATTG
1 AAT-AAAATAAAATAAAATTG
92476 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
92492 TGAAGATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 5 0.17
19 7 0.23
20 18 0.60
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (20 bp):
AATAAAATAAAATAAAATTG
Found at i:92612 original size:23 final size:23
Alignment explanation
Indices: 92577--92648 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
92567 CAAAGAAACT
92577 AAAA-ATAT-AATG-AA-AATAA
1 AAAATATATAAATGAAATAATAA
92596 ATAAATAGTATAAATGAAATAATAA
1 A-AAATA-TATAAATGAAATAATAA
* *
92621 AAAATATATATAT-AAAAAATATA
1 AAAATATATAAATGAAATAATA-A
92644 AAAAT
1 AAAAT
92649 GTATGTATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 1 0.02
22 10 0.23
23 16 0.36
24 7 0.16
25 6 0.14
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAATATATAAATGAAATAATAA
Found at i:92657 original size:23 final size:22
Alignment explanation
Indices: 92589--92668 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 22
92579 AAATATAATG
*
92589 AAAATAAATAAATAGTATAAATGAA
1 AAAATAAA-AAATA-TATATAT-AA
*
92614 ATAATAAAAAATATATATATAA
1 AAAATAAAAAATATATATATAA
* *
92636 AAAATATAAAAATGTATGTATAA
1 AAAATA-AAAAATATATATATAA
*
92659 TATAATAAAA
1 -AAAATAAAA
92669 TACTAAATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.15
23 23 0.49
24 10 0.21
25 7 0.15
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAATAAAAAATATATATATAA
Found at i:92807 original size:13 final size:13
Alignment explanation
Indices: 92789--92814 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92779 TAACGTTAGG
92789 AAAATATAGTAAA
1 AAAATATAGTAAA
92802 AAAATATAGTAAA
1 AAAATATAGTAAA
92815 TAAGTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATATAGTAAA
Found at i:92911 original size:4 final size:4
Alignment explanation
Indices: 92902--92957 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
92892 TGAAAAAAAT
* * * *
92902 TAAA TAAA TAAA TAAA TAAA -ATA TAAA TAAA TATA TACA TATA TACATA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA-A-A
92951 TAAA TAA
1 TAAA TAA
92958 TAAGGGTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 2 0.05
4 37 0.86
5 1 0.02
6 3 0.07
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (4 bp):
TAAA
Found at i:97912 original size:30 final size:29
Alignment explanation
Indices: 97874--97935 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
97864 TTCATGACAA
* * *
97874 GTATCTTCTTGAGATGGTC-CATCTTGGAG
1 GTATCTTCTTCAGATAGTCGC-TCTTGAAG
97903 GTATCCTTCTTCAGATAGTCGCTCTTGAAG
1 GTAT-CTTCTTCAGATAGTCGCTCTTGAAG
97933 GTA
1 GTA
97936 GCCATTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 23 0.82
31 1 0.04
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (29 bp):
GTATCTTCTTCAGATAGTCGCTCTTGAAG
Found at i:102673 original size:18 final size:18
Alignment explanation
Indices: 102639--102672 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
102629 TCCCTACATT
*
102639 ATTATATATTATATTTTC
1 ATTATATATTAAATTTTC
102657 ATTAT-TATTAAATTTT
1 ATTATATATTAAATTTT
102673 TTATTCCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATATTAAATTTTC
Found at i:102803 original size:3 final size:3
Alignment explanation
Indices: 102795--102821 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
102785 TATATATATA
102795 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
102822 ATGTATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:113229 original size:7 final size:8
Alignment explanation
Indices: 113218--113259 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
113208 CGAAGAAAGA
113218 AAAAGAA-
1 AAAAGAAC
113225 AAAAGAA-
1 AAAAGAAC
113232 AAAAGAAC
1 AAAAGAAC
113240 AAAAGAAC
1 AAAAGAAC
113248 AAAAGAAC
1 AAAAGAAC
113256 AAAA
1 AAAA
113260 AAGAGAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 14 0.41
8 20 0.59
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAC
Found at i:113251 original size:16 final size:15
Alignment explanation
Indices: 113213--113259 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 15
113203 TAAGTCGAAG
113213 AAAG-AAAAAGAA-A
1 AAAGAAAAAAGAACA
113226 AAAGAAAAAAGAACA
1 AAAGAAAAAAGAACA
113241 AAAGAACAAAAGAACA
1 AAAGAA-AAAAGAACA
113257 AAA
1 AAA
113260 AAGAGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.13
14 8 0.26
15 7 0.23
16 12 0.39
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAACA
Found at i:113330 original size:17 final size:17
Alignment explanation
Indices: 113308--113358 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
113298 GCCCTAAATT
*
113308 AAAAAAAGAAA-AAAGAG
1 AAAAAAA-AAAGAAAAAG
113325 AAAAAAAAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
113342 AAAAAGAAAAAGAAAAA
1 AAAAA-AAAAAGAAAAA
113359 AGGTGGGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 3 0.10
17 17 0.55
18 11 0.35
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:113332 original size:19 final size:18
Alignment explanation
Indices: 113308--113360 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 18
113298 GCCCTAAATT
113308 AAAAAAAGAAAAAAGAGAA
1 AAAAAAAGAAAAAAGA-AA
113327 AAAAAAA-AGAAAAAGAAA
1 AAAAAAAGA-AAAAAGAAA
113345 AAGAAAAAGAAAAAAG
1 AA-AAAAAGAAAAAAG
113361 GTGGGTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.16
19 25 0.81
20 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAGAAA
Found at i:113333 original size:12 final size:12
Alignment explanation
Indices: 113310--113358 Score: 71
Period size: 12 Copynumber: 3.9 Consensus size: 12
113300 CCTAAATTAA
113310 AAAAAGAAAAAAG
1 AAAAAG-AAAAAG
*
113323 AGAAAAAAAAAAG
1 A-AAAAGAAAAAG
113336 AAAAAGAAAAAG
1 AAAAAGAAAAAG
113348 AAAAAGAAAAA
1 AAAAAGAAAAA
113359 AGGTGGGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 21 0.64
13 8 0.24
14 4 0.12
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:114641 original size:110 final size:110
Alignment explanation
Indices: 114441--114808 Score: 415
Period size: 110 Copynumber: 3.4 Consensus size: 110
114431 GCTTCCCAGT
* *
114441 TTCAGATCCCATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAAGCTCAACTTCA
* * * *
114506 CAAAGAAGGGGAGACTGACTATCAACAAATAACTTTTTAGTTTCA
66 CAAAGAAGGGGAGACTGACTATCAACAAACAAATTTTCAGCTTCA
* * * * *
114551 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACATAAGCTTAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAAGCTCAACTTCA
* * *
114616 CAACA-AAGGGGCGACTGATTGTCAACAAACAAATTTTCAGCTTCA
66 CAA-AGAAGGGGAGACTGACTATCAACAAACAAATTTTCAGCTTCA
* *
114661 TTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAAGCTCAACTTCA
** * * * * * *
114726 CAGTGAAGGGGCGGCTGGCTGTCAATAAAC-AATTTCCCAG-TTC-
66 CAAAGAAGGGGAGACTGACTATCAACAAACAAATTT-TCAGCTTCA
* * * * *
114769 --CTGAGCCAATTTCAACTTCACGGTGGAGGATATTGGACTC
1 TTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTC
114809 GGAGCAATAC
Statistics
Matches: 221, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
106 34 0.15
109 8 0.04
110 178 0.81
111 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAAGCTCAACTTCA
CAAAGAAGGGGAGACTGACTATCAACAAACAAATTTTCAGCTTCA
Found at i:116785 original size:18 final size:18
Alignment explanation
Indices: 116751--116784 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
116741 CCCTACTATT
*
116751 ATTATATATTATATTTTC
1 ATTATATATTACATTTTC
116769 ATTAT-TATTACATTTT
1 ATTATATATTACATTTT
116785 TTATTCCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATATTACATTTTC
Found at i:117017 original size:41 final size:41
Alignment explanation
Indices: 116966--117047 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
116956 ATTTACTTTA
* *
116966 TTTATTTATTTTAT-TATG-TTTACTTTTTTTTTCTTTTGTTT
1 TTTATTTATTTGATATATGTTTTA-TTTTTATTTC-TTTGTTT
117007 TTTATTTATTTGATATATGTTTTATTTTTATTTCTTTGTTT
1 TTTATTTATTTGATATATGTTTTATTTTTATTTCTTTGTTT
117048 CTATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 20 0.54
42 13 0.35
43 4 0.11
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.76
Consensus pattern (41 bp):
TTTATTTATTTGATATATGTTTTATTTTTATTTCTTTGTTT
Found at i:117113 original size:2 final size:2
Alignment explanation
Indices: 117106--117132 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
117096 ACTATTCATG
117106 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 T
117133 TTATTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123492 original size:20 final size:20
Alignment explanation
Indices: 123450--123500 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
123440 AATAAGTCAG
* *
123450 TAGTATCGATACCCAAGTGT
1 TAGTATCGATACACAAGTCT
123470 TAGTATCGATACACAGAG-CT
1 TAGTATCGATACACA-AGTCT
*
123490 TAGTAGCGATA
1 TAGTATCGATA
123501 TTGTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (20 bp):
TAGTATCGATACACAAGTCT
Found at i:123664 original size:27 final size:27
Alignment explanation
Indices: 123632--123695 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
123622 ACTACAAGTG
123632 GAAACAATAATAAACTTGTAATAGTTA
1 GAAACAATAATAAACTTGTAATAGTTA
123659 GAAACAATAATAAACTTGTAATAGTTA
1 GAAACAATAATAAACTTGTAATAGTTA
123686 GAAACAATAA
1 GAAACAATAA
123696 CAACTAGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.27
Consensus pattern (27 bp):
GAAACAATAATAAACTTGTAATAGTTA
Found at i:124795 original size:155 final size:156
Alignment explanation
Indices: 124511--124823 Score: 583
Period size: 155 Copynumber: 2.0 Consensus size: 156
124501 TTAGTCTTTC
* *
124511 CTAGGACGCACGGGTTAGATTCAGTTAGCGTCTATACTTGTACATGCCTCTAGAGGGTCAAGAGT
1 CTAGGACGCACAGGTTAGATTCAGTCAGCGTCTATACTTGTACATGCCTCTAGAGGGTCAAGAGT
124576 ATTATAAAGATTGGAATGGCGATAATAGCTTCTATTTCTTTCTAATTTAAGAGAAAACCCATGGA
66 ATTATAAAGATTGGAATGGCGATAATAGCTTCTATTTCTTTCTAATTTAAGAGAAAACCCATGGA
124641 AAATGATCTAA-TTTAGTTAGGATTA
131 AAATGATCTAACTTTAGTTAGGATTA
124666 CTAGGACGCACAGGTTAGATTCAGTCAGCGTCTATACTTGTACATGCCTCTAGAGGGTCAAGAGT
1 CTAGGACGCACAGGTTAGATTCAGTCAGCGTCTATACTTGTACATGCCTCTAGAGGGTCAAGAGT
*
124731 ATTATAAAGATTGGAATGGCGATAATAGCTTCTATTTCTTTCTAATTTAAGAGAAAACCTATGGA
66 ATTATAAAGATTGGAATGGCGATAATAGCTTCTATTTCTTTCTAATTTAAGAGAAAACCCATGGA
124796 AAATGATCTAACGTTTAGTTAGGATTA
131 AAATGATCTAAC-TTTAGTTAGGATTA
124823 C
1 C
124824 AGAGATGTGA
Statistics
Matches: 153, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
155 138 0.90
157 15 0.10
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (156 bp):
CTAGGACGCACAGGTTAGATTCAGTCAGCGTCTATACTTGTACATGCCTCTAGAGGGTCAAGAGT
ATTATAAAGATTGGAATGGCGATAATAGCTTCTATTTCTTTCTAATTTAAGAGAAAACCCATGGA
AAATGATCTAACTTTAGTTAGGATTA
Found at i:125810 original size:15 final size:15
Alignment explanation
Indices: 125790--125820 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
125780 TGAGAGTCTT
125790 CACTCATCCAATCTA
1 CACTCATCCAATCTA
*
125805 CACTCATCCGATCTA
1 CACTCATCCAATCTA
125820 C
1 C
125821 GTTCAGTCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.42, G:0.03, T:0.26
Consensus pattern (15 bp):
CACTCATCCAATCTA
Found at i:133728 original size:21 final size:22
Alignment explanation
Indices: 133701--133748 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
133691 GGAATCAATA
*
133701 CCCCCTTGAAGGAGAACCGATT
1 CCCCTTTGAAGGAGAACCGATT
* *
133723 CCCCTTTGCAGGGGAACCGATT
1 CCCCTTTGAAGGAGAACCGATT
133745 CCCC
1 CCCC
133749 CTGTAGGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.38, G:0.23, T:0.19
Consensus pattern (22 bp):
CCCCTTTGAAGGAGAACCGATT
Found at i:133758 original size:21 final size:22
Alignment explanation
Indices: 133714--133759 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
133704 CCTTGAAGGA
*
133714 GAACCGATTCCCCTTTGCAGGG
1 GAACCGATTCCCCTCTGCAGGG
*
133736 GAACCGATTCCCC-CTGTAGGG
1 GAACCGATTCCCCTCTGCAGGG
133757 GAA
1 GAA
133760 TCAATACCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.22, C:0.30, G:0.28, T:0.20
Consensus pattern (22 bp):
GAACCGATTCCCCTCTGCAGGG
Found at i:133769 original size:21 final size:21
Alignment explanation
Indices: 133684--133772 Score: 61
Period size: 22 Copynumber: 4.1 Consensus size: 21
133674 GCAGTTTTAG
*
133684 TGTAGAGGGAATCAATACCCCC
1 TGTAG-GGGAACCAATACCCCC
* * * * *
133706 TTGAAGGAGAACCGATTCCCCTT
1 -TGTAGGGGAACCAATACCCC-C
* * *
133729 TGCAGGGGAACCGATTCCCCC
1 TGTAGGGGAACCAATACCCCC
*
133750 TGTAGGGGAATCAATACCCCC
1 TGTAGGGGAACCAATACCCCC
133771 TG
1 TG
133773 GGGGTTCTGG
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
21 19 0.37
22 29 0.56
23 4 0.08
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (21 bp):
TGTAGGGGAACCAATACCCCC
Found at i:135331 original size:18 final size:18
Alignment explanation
Indices: 135310--135349 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
135300 CGACGATGAG
135310 CAAGAACAA-CACGAGGAA
1 CAAGAACAACCA-GAGGAA
*
135328 CAAGCACAACCAGAGGAA
1 CAAGAACAACCAGAGGAA
135346 CAAG
1 CAAG
135350 CACGACTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.53, C:0.25, G:0.23, T:0.00
Consensus pattern (18 bp):
CAAGAACAACCAGAGGAA
Found at i:135350 original size:18 final size:18
Alignment explanation
Indices: 135322--135362 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
135312 AGAACAACAC
135322 GAGGAACAAGCACAACCA
1 GAGGAACAAGCACAACCA
* *
135340 GAGGAACAAGCACGACTA
1 GAGGAACAAGCACAACCA
135358 GAGGA
1 GAGGA
135363 TCAAATGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.29, T:0.02
Consensus pattern (18 bp):
GAGGAACAAGCACAACCA
Found at i:136050 original size:11 final size:12
Alignment explanation
Indices: 136034--136066 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
136024 TAAGGGGGAG
136034 TAATTTCAAAC-
1 TAATTTCAAACT
136045 TAATTTCAAACT
1 TAATTTCAAACT
*
136057 TGATTTCAAA
1 TAATTTCAAA
136067 ATCTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (12 bp):
TAATTTCAAACT
Found at i:138454 original size:26 final size:25
Alignment explanation
Indices: 138424--138508 Score: 74
Period size: 26 Copynumber: 3.6 Consensus size: 25
138414 ATGTCTTAAT
*
138424 GCATCATTTCGTGCATTTTATTTATG
1 GCATCATTTCATGCATTTTA-TTATG
* *
138450 GCATCCTTTCATGC--CTTA--AT-
1 GCATCATTTCATGCATTTTATTATG
*
138470 GCATCCTTTCATGCATTTTATTAATG
1 GCATCATTTCATGCATTTTATT-ATG
138496 GCATCATTT-ATGC
1 GCATCATTTCATGC
138509 CAATAATGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
20 14 0.29
21 2 0.04
22 3 0.06
24 3 0.06
25 6 0.12
26 20 0.42
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (25 bp):
GCATCATTTCATGCATTTTATTATG
Found at i:138460 original size:46 final size:46
Alignment explanation
Indices: 138391--138509 Score: 168
Period size: 46 Copynumber: 2.6 Consensus size: 46
138381 CGTTAAATTT
* * * *
138391 CATTTTATTTACGACATCATTTCATGTCTTAATGCATCATTTCGTG
1 CATTTTATTTATGGCATCATTTCATGCCTTAATGCATCATTTCATG
* *
138437 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCATTTCATGCCTTAATGCATCATTTCATG
*
138483 CATTTTATTAATGGCATCATTT-ATGCC
1 CATTTTATTTATGGCATCATTTCATGCC
138510 AATAATGTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 5 0.08
46 60 0.92
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (46 bp):
CATTTTATTTATGGCATCATTTCATGCCTTAATGCATCATTTCATG
Found at i:138661 original size:34 final size:34
Alignment explanation
Indices: 138587--138755 Score: 144
Period size: 34 Copynumber: 4.7 Consensus size: 34
138577 TCCTTTCATA
*
138587 CCAATAATGCA-CCATATGCATTATTCTTTTATG
1 CCAATAATGCACCCACATGCATTATTCTTTTATG
138620 CCAATAATGACACCCACATGCATTATT-TTTTATG
1 CCAATAATG-CACCCACATGCATTATTCTTTTATG
* * *
138654 CCGATAATGCACCCATATACATTTCAGCTATGTCATCCTTTCATG
1 CCAATAATGCACCC----ACA--T--GC-AT-T-ATTCTTTTATG
*
138699 CCAATAATGCACCCATATGCATTATTCTTTTATG
1 CCAATAATGCACCCACATGCATTATTCTTTTATG
* * *
138733 CCGATAATGCATCCATATGCATT
1 CCAATAATGCACCCACATGCATT
138756 TCAGCTATGG
Statistics
Matches: 112, Mismatches: 10, Indels: 27
0.75 0.07 0.18
Matches are distributed among these distances:
33 14 0.12
34 47 0.42
35 14 0.12
36 2 0.02
37 5 0.04
39 2 0.02
41 4 0.04
42 2 0.02
43 1 0.01
44 2 0.02
45 19 0.17
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (34 bp):
CCAATAATGCACCCACATGCATTATTCTTTTATG
Found at i:138683 original size:112 final size:113
Alignment explanation
Indices: 138502--138755 Score: 386
Period size: 112 Copynumber: 2.3 Consensus size: 113
138492 AATGGCATCA
* * *
138502 TTTATGCCAATAATGTACCCATATGCATTACTCTTTTATGTCGATAATGCAACCATATGCATTTA
1 TTTATGCCAATAATGCACCCATATGCATTACTCTTTTATGCCGATAATGCAACCATATACATTTA
138567 AGCTATGACATCCTTTCATACCAATAATGCA-CCATATGCATTATTCT
66 AGCTATGACATCCTTTCATACCAATAATGCACCCATATGCATTATTCT
* * *
138614 TTTATGCCAATAATGACACCCACATGCATTA-TTTTTTATGCCGATAATGCACCCATATACATTT
1 TTTATGCCAATAATG-CACCCATATGCATTACTCTTTTATGCCGATAATGCAACCATATACATTT
* * *
138678 CAGCTATGTCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCT
65 AAGCTATGACATCCTTTCATACCAATAATGCACCCATATGCATTATTCT
* *
138727 TTTATGCCGATAATGCATCCATATGCATT
1 TTTATGCCAATAATGCACCCATATGCATT
138756 TCAGCTATGG
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
112 85 0.66
113 43 0.34
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (113 bp):
TTTATGCCAATAATGCACCCATATGCATTACTCTTTTATGCCGATAATGCAACCATATACATTTA
AGCTATGACATCCTTTCATACCAATAATGCACCCATATGCATTATTCT
Found at i:138749 original size:79 final size:78
Alignment explanation
Indices: 138612--138799 Score: 313
Period size: 79 Copynumber: 2.4 Consensus size: 78
138602 ATGCATTATT
* *
138612 CTTTTATGCCAATAATGACACCCACATGCATTATTTTTTATGCCGATAATGCACCCATATACATT
1 CTTTCATGCCAATAATG-CACCCATATGCATTATTTTTTATGCCGATAATGCACCCATATACATT
*
138677 TCAGCTATGTCATC
65 TCAGCTATGGCATC
* *
138691 CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCATCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATT-TTTTATGCCGATAATGCACCCATATACATT
138756 TCAGCTATGGCATC
65 TCAGCTATGGCATC
138770 CTTTCATGCCAATAATGCACCCATATGCAT
1 CTTTCATGCCAATAATGCACCCATATGCAT
138800 ATGCGATATG
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
78 16 0.16
79 87 0.84
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (78 bp):
CTTTCATGCCAATAATGCACCCATATGCATTATTTTTTATGCCGATAATGCACCCATATACATTT
CAGCTATGGCATC
Found at i:138837 original size:79 final size:77
Alignment explanation
Indices: 138612--138826 Score: 215
Period size: 79 Copynumber: 2.8 Consensus size: 77
138602 ATGCATTATT
* * * ** * * *
138612 CTTTTATGCCAATAATGACACCCACATGCATTAT-TTTTTATGCCGATAATGCACCCATATACAT
1 CTTTCATGCCAATAATG-CACCCATATGCATTATGCTGATATGCCCATAATGCA-TC-TATGCAT
*
138676 TTCAGCTATGTCATC
63 TTCAGCTATGGCATC
* ** *
138691 CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCATCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATGCTGATATGCCCATAATGCAT-C-TATGCATT
138756 TCAGCTATGGCATC
64 TCAGCTATGGCATC
138770 CTTTCATGCCAATAATGCACCCATATGCA-TATGC-GATATGCATCCAT-ATGCAT-TATG
1 CTTTCATGCCAATAATGCACCCATATGCATTATGCTGATATGC--CCATAATGCATCTATG
138827 GCATCCTTTC
Statistics
Matches: 122, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
75 4 0.03
77 5 0.04
78 25 0.20
79 88 0.72
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (77 bp):
CTTTCATGCCAATAATGCACCCATATGCATTATGCTGATATGCCCATAATGCATCTATGCATTTC
AGCTATGGCATC
Found at i:143480 original size:2 final size:2
Alignment explanation
Indices: 143473--143686 Score: 248
Period size: 2 Copynumber: 107.0 Consensus size: 2
143463 ACATTTTATG
* * * * *
143473 TA TA TA TA TA TA CA CA TA CA TA TA TA TA TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
143515 TG TA TG TA TA CA TA TA CA TA TA TA TA TA TA CA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
143557 TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
143599 TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
143641 TA TA TA TA TA TA TG TA TG TG TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
143683 TA TA
1 TA TA
143687 GTATCCTTTC
Statistics
Matches: 178, Mismatches: 34, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 178 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:145042 original size:18 final size:18
Alignment explanation
Indices: 145019--145056 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
145009 GTGATATTCA
*
145019 AATATTTGAATCGAATAT
1 AATATTTAAATCGAATAT
145037 AATATTTAAATCGAATAT
1 AATATTTAAATCGAATAT
145055 AA
1 AA
145057 AATCTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (18 bp):
AATATTTAAATCGAATAT
Found at i:146879 original size:12 final size:13
Alignment explanation
Indices: 146862--146894 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
146852 AATAGGCAAA
*
146862 TTTGAAAACT-AT
1 TTTGAAAACTAAG
146874 TTTGAAAACTAAG
1 TTTGAAAACTAAG
146887 TTTGAAAA
1 TTTGAAAA
146895 ATTATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACTAAG
Found at i:146955 original size:19 final size:19
Alignment explanation
Indices: 146916--146956 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
146906 TATATTTTTC
* **
146916 ATTAAAACAATATAATTAA
1 ATTAAAACAATAAAAACAA
146935 ATTAAAACAATAAAAACAA
1 ATTAAAACAATAAAAACAA
146954 ATT
1 ATT
146957 TTTTAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (19 bp):
ATTAAAACAATAAAAACAA
Found at i:150266 original size:24 final size:24
Alignment explanation
Indices: 150239--150289 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
150229 TGATACATCA
150239 TTAATGGATTTAAAGGATGCTTTC
1 TTAATGGATTTAAAGGATGCTTTC
150263 TTAATGGATTTAAAGGATGCTTTC
1 TTAATGGATTTAAAGGATGCTTTC
150287 TTA
1 TTA
150290 TGTTTTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (24 bp):
TTAATGGATTTAAAGGATGCTTTC
Found at i:153535 original size:18 final size:18
Alignment explanation
Indices: 153512--153549 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
153502 TATGATATCG
*
153512 AATATTTGAATCGAATAT
1 AATATTTAAATCGAATAT
153530 AATATTTAAATCGAATAT
1 AATATTTAAATCGAATAT
153548 AA
1 AA
153550 AATCTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (18 bp):
AATATTTAAATCGAATAT
Found at i:153914 original size:46 final size:46
Alignment explanation
Indices: 153852--153971 Score: 195
Period size: 46 Copynumber: 2.6 Consensus size: 46
153842 CGTTAAATTT
* * * *
153852 CATTTTATTTACGGCATCCTTTCATGCCTTAATGTATTATTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATA
153898 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATA
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATA
*
153944 CGTTTTATTTATGGCATCCTTTCATGCC
1 CATTTTATTTATGGCATCCTTTCATGCC
153972 AATAATACAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.47
Consensus pattern (46 bp):
CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATA
Found at i:153940 original size:20 final size:20
Alignment explanation
Indices: 153865--153942 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 20
153855 TTTATTTACG
*
153865 GCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCCTTAAT
* * *
153885 GTATTATTTCATGCATTTTATTTAT
1 GCATCATTTCATGC--CTTA---AT
*
153910 GGCATCCTTTCATGCCTTAAT
1 -GCATCATTTCATGCCTTAAT
153931 GCATCATTTCAT
1 GCATCATTTCAT
153943 ACGTTTTATT
Statistics
Matches: 43, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
20 22 0.51
21 2 0.05
22 3 0.07
24 3 0.07
25 2 0.05
26 11 0.26
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (20 bp):
GCATCATTTCATGCCTTAAT
Found at i:153967 original size:26 final size:25
Alignment explanation
Indices: 153891--153968 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
153881 TAATGTATTA
*
153891 TTTCATGCATTTTATTTATGGCATCC
1 TTTCAT-CGTTTTATTTATGGCATCC
** *
153917 TTTCAT-GCCTTA---AT-GCATCA
1 TTTCATCGTTTTATTTATGGCATCC
153937 TTTCATACGTTTTATTTATGGCATCC
1 TTTCAT-CGTTTTATTTATGGCATCC
153963 TTTCAT
1 TTTCAT
153969 GCCAATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 11 0.28
21 2 0.05
22 4 0.10
24 3 0.08
25 2 0.05
26 17 0.44
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.49
Consensus pattern (25 bp):
TTTCATCGTTTTATTTATGGCATCC
Found at i:154066 original size:79 final size:79
Alignment explanation
Indices: 153953--154366 Score: 659
Period size: 79 Copynumber: 5.3 Consensus size: 79
153943 ACGTTTTATT
* * *
153953 TATGGCATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGTCGATAATGCATCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
*
154018 ATATGCATTTCAAC
66 ATATGCATTTCAGC
* * *
154032 TATGGCATCCTTTCATGCCAATAATGTACTCATATGCATTATTCTTTTATGCCGATAATACACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
154097 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* * * *
154111 TATGGCATCCTTTTATGCCAATAATGTACCCATATGCATTATTCTTTTATGCCGATAATACCCCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
154176 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* *
154190 TATGGCATCCTTTTATGCCAATAATGCACCCATATGCATTATTTTTTTATG-CGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
154254 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* * * * *
154268 TATGTCATCCTTTAATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGTACCT
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
154333 ATATGCATTTCAGC
66 ATATGCATTTCAGC
154347 TATGGCATCCTTTCATGCCA
1 TATGGCATCCTTTCATGCCA
154367 CTTATTTATG
Statistics
Matches: 313, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 73 0.23
79 240 0.77
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
ATATGCATTTCAGC
Found at i:154090 original size:34 final size:34
Alignment explanation
Indices: 154041--154341 Score: 145
Period size: 34 Copynumber: 7.9 Consensus size: 34
154031 CTATGGCATC
* *
154041 CTTTCATGCCAATAATGTACTCATATGCATTATT
1 CTTTTATGCCAATAATGTACCCATATGCATTATT
* **
154075 CTTTTATGCCGATAATACACCCATATGCATTTCAGCTATGGCAT
1 CTTTTATGCCAATAATGTACCCATATGCA--T----TAT----T
154119 CCTTTTATGCCAATAATGTACCCATATGCATTATT
1 -CTTTTATGCCAATAATGTACCCATATGCATTATT
* ***
154154 CTTTTATGCCGATAATACCCCCATATGCATTTCAGCTATGGCAT
1 CTTTTATGCCAATAATGTACCCATATGCA--T----TAT----T
*
154198 CCTTTTATGCCAATAATGCACCCATATGCATTATT
1 -CTTTTATGCCAATAATGTACCCATATGCATTATT
* * *
154233 TTTTTATG-CGATAATGCACCCATATGCATTTCAGCTATGT
1 CTTTTATGCCAATAATGTACCCATATGCA--T----TAT-T
*
154273 CATCCTTTAATGCCAATAATGCACCCATATGCATTATT
1 C-T--TTT-ATGCCAATAATGTACCCATATGCATTATT
* * *
154311 CTTTTATGTCGATAATGTACCTATATGCATT
1 CTTTTATGCCAATAATGTACCCATATGCATT
154342 TCAGCTATGG
Statistics
Matches: 210, Mismatches: 23, Indels: 68
0.70 0.08 0.23
Matches are distributed among these distances:
33 19 0.09
34 78 0.37
35 6 0.03
36 2 0.01
37 1 0.00
38 2 0.01
39 12 0.06
40 7 0.03
41 1 0.00
43 6 0.03
44 5 0.02
45 71 0.34
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (34 bp):
CTTTTATGCCAATAATGTACCCATATGCATTATT
Found at i:154849 original size:19 final size:19
Alignment explanation
Indices: 154799--154849 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
154789 TTCTATACTA
* *
154799 TGGTACCGATACCCCCTTC
1 TGGTATCGATACTCCCTTC
154818 TGGTATCGATACTCCCTTC
1 TGGTATCGATACTCCCTTC
*
154837 TGGTATCGGTACT
1 TGGTATCGATACT
154850 AATTTTTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (19 bp):
TGGTATCGATACTCCCTTC
Found at i:156640 original size:16 final size:16
Alignment explanation
Indices: 156584--156652 Score: 50
Period size: 16 Copynumber: 4.4 Consensus size: 16
156574 GTTAAATTTG
*
156584 GTTCGAGTT-GTTTCA
1 GTTCGAGTTAATTTCA
* * * **
156599 GTTTGAATTATTTTTG
1 GTTCGAGTTAATTTCA
*
156615 GTTCGAGTTACTTTCA
1 GTTCGAGTTAATTTCA
* *
156631 GTTCGTGTTAATTTTA
1 GTTCGAGTTAATTTCA
156647 GTTCGA
1 GTTCGA
156653 ATTATTTTCG
Statistics
Matches: 39, Mismatches: 14, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
15 7 0.18
16 32 0.82
ACGTcount: A:0.17, C:0.10, G:0.22, T:0.51
Consensus pattern (16 bp):
GTTCGAGTTAATTTCA
Found at i:156651 original size:32 final size:32
Alignment explanation
Indices: 156574--156661 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 32
156564 TTTAGATTGG
* * *
156574 GTTAAATTTGGTTCGAGTT-GTTTCAGTTTGA
1 GTTAATTTTGGTTCGAGTTACTTTCAGTTCGA
* * *
156605 ATTATTTTTGGTTCGAGTTACTTTCAGTTCGT
1 GTTAATTTTGGTTCGAGTTACTTTCAGTTCGA
* * *
156637 GTTAATTTTAGTTCGAATTATTTTC
1 GTTAATTTTGGTTCGAGTTACTTTC
156662 GATTCGAATC
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 16 0.36
32 29 0.64
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.52
Consensus pattern (32 bp):
GTTAATTTTGGTTCGAGTTACTTTCAGTTCGA
Found at i:168007 original size:21 final size:20
Alignment explanation
Indices: 167983--168025 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
167973 AATAACATTC
167983 AACATT-GTCATAAACATATGA
1 AACATTAGTCA-AAACAT-TGA
*
168004 AACATTATTCAAAACATTGA
1 AACATTAGTCAAAACATTGA
168024 AA
1 AA
168026 GTAATGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (20 bp):
AACATTAGTCAAAACATTGA
Found at i:189590 original size:20 final size:20
Alignment explanation
Indices: 189561--189599 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
189551 AAACCTCATA
*
189561 TAGGATCATATAGATGCATT
1 TAGGAACATATAGATGCATT
*
189581 TAGGAACATATAGTTGCAT
1 TAGGAACATATAGATGCAT
189600 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
TAGGAACATATAGATGCATT
Found at i:195679 original size:15 final size:17
Alignment explanation
Indices: 195649--195680 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
195639 ATTCGTTTAT
195649 CTTCTTATCTTCATTTC
1 CTTCTTATCTTCATTTC
195666 CTTCTT-TC-TCATTTC
1 CTTCTTATCTTCATTTC
195681 TCCTCCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.59
Consensus pattern (17 bp):
CTTCTTATCTTCATTTC
Found at i:198002 original size:19 final size:19
Alignment explanation
Indices: 197978--198020 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
197968 TTTAGCAACC
197978 TGTTAAGAATATAACATGA
1 TGTTAAGAATATAACATGA
197997 TGTTAAGAATATAACATGA
1 TGTTAAGAATATAACATGA
198016 TGTTA
1 TGTTA
198021 CATTCAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (19 bp):
TGTTAAGAATATAACATGA
Found at i:207104 original size:25 final size:25
Alignment explanation
Indices: 207058--207118 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
207048 ATTAACGAAG
*
207058 GAGAATAGAAGAACAGAGATAAAGAA
1 GAGAAGAG-AGAACAGAGATAAAGAA
* *
207084 GAGAAGAGAGAACGGATATAAAGAA
1 GAGAAGAGAGAACAGAGATAAAGAA
207109 GAGAAGAGAG
1 GAGAAGAGAG
207119 GTTCAAGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.57, C:0.03, G:0.33, T:0.07
Consensus pattern (25 bp):
GAGAAGAGAGAACAGAGATAAAGAA
Found at i:210326 original size:25 final size:25
Alignment explanation
Indices: 210266--210343 Score: 93
Period size: 25 Copynumber: 3.0 Consensus size: 25
210256 TTTGCTGGAA
* *
210266 AATGGAGATTAACGAAGGAGAATAGAAG
1 AATGGAGA-TAAAGAA-GAGAAGAG-AG
*
210294 AACGGAGATAAAGAAGAGAAGAGAG
1 AATGGAGATAAAGAAGAGAAGAGAG
*
210319 AATGGAGACAAAGAAGAGAAGAGAG
1 AATGGAGATAAAGAAGAGAAGAGAG
210344 GTTCAAGAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 25 0.56
26 7 0.16
27 6 0.13
28 7 0.16
ACGTcount: A:0.54, C:0.04, G:0.35, T:0.08
Consensus pattern (25 bp):
AATGGAGATAAAGAAGAGAAGAGAG
Found at i:218578 original size:22 final size:22
Alignment explanation
Indices: 218553--218595 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
218543 TAGCTAAGTC
218553 AGGA-ATTGGTTAGTGA-CTGTGG
1 AGGATATT-GTTAG-GAGCTGTGG
218575 AGGATATTGTTAGGAGCTGTG
1 AGGATATTGTTAGGAGCTGTG
218596 CTTTTGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.11
22 14 0.74
23 3 0.16
ACGTcount: A:0.23, C:0.05, G:0.40, T:0.33
Consensus pattern (22 bp):
AGGATATTGTTAGGAGCTGTGG
Found at i:221639 original size:13 final size:13
Alignment explanation
Indices: 221614--221660 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
221604 TATGTTTAAT
221614 ATAATAAAA-TAAA
1 ATAA-AAAACTAAA
221627 ATAAAAAACTAAA
1 ATAAAAAACTAAA
*
221640 ACTAAAAATC-AAA
1 A-TAAAAAACTAAA
221653 ATAAAAAA
1 ATAAAAAA
221661 ACTTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 10 0.33
13 13 0.43
14 7 0.23
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (13 bp):
ATAAAAAACTAAA
Found at i:224901 original size:13 final size:14
Alignment explanation
Indices: 224885--224915 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
224875 AATATTTTAC
224885 TTTTATTT-TTTTT
1 TTTTATTTATTTTT
224898 TTTTATTTATTTTT
1 TTTTATTTATTTTT
224912 TTTT
1 TTTT
224916 GGTCAAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTATTTATTTTT
Found at i:225529 original size:15 final size:17
Alignment explanation
Indices: 225509--225549 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
225499 TAATCTTTTG
225509 TATTTATG-GTA-TATT
1 TATTTATGAGTATTATT
225524 TATTTAATGAGTATTTATT
1 TATTT-ATGAGTA-TTATT
225543 TATTTAT
1 TATTTAT
225550 TTTGCAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.23
16 3 0.14
17 3 0.14
18 2 0.09
19 9 0.41
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (17 bp):
TATTTATGAGTATTATT
Found at i:226172 original size:22 final size:21
Alignment explanation
Indices: 226151--226191 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
226141 AATAAATAGT
*
226151 TGTATTGATATTTTCTTTTAG
1 TGTATTCATATTTTCTTTTAG
* *
226172 TGTTTTCATATTTTTTTTTA
1 TGTATTCATATTTTCTTTTA
226192 AAACATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.68
Consensus pattern (21 bp):
TGTATTCATATTTTCTTTTAG
Found at i:228734 original size:21 final size:21
Alignment explanation
Indices: 228710--228749 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
228700 TTTTCAAAGG
228710 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
228731 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
228750 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:228798 original size:19 final size:19
Alignment explanation
Indices: 228774--228812 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
228764 ATCGAATAAT
228774 TTCATGCACCGATGCACTC
1 TTCATGCACCGATGCACTC
*
228793 TTCATGCATCGATGCACTC
1 TTCATGCACCGATGCACTC
228812 T
1 T
228813 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (19 bp):
TTCATGCACCGATGCACTC
Found at i:228808 original size:64 final size:64
Alignment explanation
Indices: 228731--228854 Score: 162
Period size: 64 Copynumber: 1.9 Consensus size: 64
228721 GCATCAATAC
*
228731 CATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAAT-AATTTCATGCACCGATGCACTCT
1 CATGCATCGATGCACTC--TGAATAAATTAAAACATCGAATGAATTTCATGCACCGATGCACTCT
228794 T
64 T
* * * * *
228795 CATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTTGATGCATCGATGCAC
1 CATGCATCGATGCACTCTGAATAAATTAAAACATCGAATGAATTTCATGCACCGATGCAC
228855 CAGGCTATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 19 0.37
64 31 0.60
65 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (64 bp):
CATGCATCGATGCACTCTGAATAAATTAAAACATCGAATGAATTTCATGCACCGATGCACTCTT
Found at i:228850 original size:45 final size:44
Alignment explanation
Indices: 228792--228902 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 44
228782 CCGATGCACT
228792 CTTCATGCATCGATGCACTCTG-ATTTAATTAAAACATCGAATGCA
1 CTTCATGCATCGATGCACTCTGCATTT--TTAAAACATCGAATGCA
* * * *
228837 TTTGATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCA
1 CTTCATGCATCGATGCACTC-TGC-ATTTTTAAAACATCGAATGCA
228882 CTTCATGCATCGATGCACTCT
1 CTTCATGCATCGATGCACTCT
228903 TAGTGCACCG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.02
45 49 0.89
46 1 0.02
47 4 0.07
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
CTTCATGCATCGATGCACTCTGCATTTTTAAAACATCGAATGCA
Found at i:228899 original size:17 final size:19
Alignment explanation
Indices: 228871--228919 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
228861 ATTTTTCAAA
228871 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
228889 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
228908 CACCGATGCACT
1 CATCGATGCACT
228920 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:237352 original size:21 final size:21
Alignment explanation
Indices: 237328--237367 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
237318 TTTTCAAAGA
*
237328 CATGCACCTATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
237349 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
237368 GAATAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:237453 original size:64 final size:64
Alignment explanation
Indices: 237351--237473 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
237341 ATCAATACCA
* *
237351 TGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCATTTCATTCACCGATGCACTCTTCG
1 TGCATCGATGCATC-ATGAATAAATTAAAACATCGAATGCATTTCATGCACCGATGCACTCTTCG
* * * *
237416 TGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATTTGATGCATCGATGCAC
1 TGCATCGATGCA-TCATGAATAAATTAAAACATCGAATGCATTTCATGCACCGATGCAC
237474 CAGGCTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 37 0.73
65 12 0.24
66 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATCATGAATAAATTAAAACATCGAATGCATTTCATGCACCGATGCACTCTTCG
Found at i:239423 original size:21 final size:19
Alignment explanation
Indices: 239381--239423 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
239371 CATAAGAGCT
239381 ATTAAGTGTTTTTTATTTG
1 ATTAAGTGTTTTTTATTTG
239400 ATTAA-TGCTTTTATTATGTTG
1 ATTAAGTG-TTTT-TTAT-TTG
239421 ATT
1 ATT
239424 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.10
19 9 0.43
20 4 0.19
21 6 0.29
ACGTcount: A:0.23, C:0.02, G:0.14, T:0.60
Consensus pattern (19 bp):
ATTAAGTGTTTTTTATTTG
Found at i:240006 original size:37 final size:38
Alignment explanation
Indices: 239909--240003 Score: 129
Period size: 37 Copynumber: 2.5 Consensus size: 38
239899 ATGTCACATG
* **
239909 ACTTAAACCCACGAAGGGAAAGTCATCTGAAGAACCTA
1 ACTTAAACCCACGAAAGGAAAGTCATCCAAAGAACCTA
* * *
239947 ACTTAAACTCGCG-AAGGAAAGTCATCCAAAGAACCTT
1 ACTTAAACCCACGAAAGGAAAGTCATCCAAAGAACCTA
239984 ACTTAAACCCACGAAAGGAA
1 ACTTAAACCCACGAAAGGAA
240004 GTCGCCTGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 31 0.65
38 17 0.35
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (38 bp):
ACTTAAACCCACGAAAGGAAAGTCATCCAAAGAACCTA
Found at i:240016 original size:37 final size:38
Alignment explanation
Indices: 239909--240016 Score: 123
Period size: 37 Copynumber: 2.9 Consensus size: 38
239899 ATGTCACATG
* *
239909 ACTTAAACCCACGAAGGGAAAGTCATCTGAAGAACCTA
1 ACTTAAACCCACGAAAGGAAAGTCACCTGAAGAACCTA
* * * *
239947 ACTTAAACTCGCG-AAGGAAAGTCATCC-AAAGAACCTT
1 ACTTAAACCCACGAAAGGAAAGTCA-CCTGAAGAACCTA
*
239984 ACTTAAACCCACGAAAGG-AAGTCGCCTGAAGAA
1 ACTTAAACCCACGAAAGGAAAGTCACCTGAAGAA
240017 TTATGTTGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
36 2 0.04
37 39 0.68
38 16 0.28
ACGTcount: A:0.42, C:0.24, G:0.19, T:0.16
Consensus pattern (38 bp):
ACTTAAACCCACGAAAGGAAAGTCACCTGAAGAACCTA
Found at i:240160 original size:73 final size:74
Alignment explanation
Indices: 240073--240318 Score: 244
Period size: 74 Copynumber: 3.3 Consensus size: 74
240063 TAAAGCCCGA
* * ***
240073 CTTAAACCACGAAGGGGAGTCATCTCACTTGACTCAGACTTGTAAAGGGGAGTCATCCAAACAAT
1 CTTAAACCACGAAGGGGAGTTATCTCACTTGACTAAGACCCATAAAGGGGAGTCATCCAAACAAT
*
240138 CAAGACT-T
66 CAAGACTAG
* * * * * * * *
240146 CTTGAACCATGAAGGGGAATTATCTCATTTAACCTAAG-CCCACAAAGGGAAGTCATCCAAATAA
1 CTTAAACCACGAAGGGGAGTTATCTCACTTGA-CTAAGACCCATAAAGGGGAGTCATCCAAACAA
* *
240210 TTAAGAATAG
65 TCAAGACTAG
* * * * *
240220 CTTAAACCGCGAAGGAGAGTTGTCTCACTTGACTTAGACCCATGAAGGGGAGTCATCCAAACAAT
1 CTTAAACCACGAAGGGGAGTTATCTCACTTGACTAAGACCCATAAAGGGGAGTCATCCAAACAAT
*
240285 CAAGACTGG
66 CAAGACTAG
***
240294 CTTAAAATGCGAAGGGGAGTTATCT
1 CTTAAACCACGAAGGGGAGTTATCT
240319 TGTTTGGATT
Statistics
Matches: 134, Mismatches: 36, Indels: 5
0.77 0.21 0.03
Matches are distributed among these distances:
73 56 0.42
74 78 0.58
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (74 bp):
CTTAAACCACGAAGGGGAGTTATCTCACTTGACTAAGACCCATAAAGGGGAGTCATCCAAACAAT
CAAGACTAG
Done.