Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2800
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: 275143
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:26110 original size:16 final size:16
Alignment explanation
Indices: 26091--26133 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
26081 ATTACTTCTA
*
26091 AAAAATATTTTTAGAT
1 AAAAATATTTTTAAAT
**
26107 AAAAATATTACTAAAT
1 AAAAATATTTTTAAAT
26123 -AAAATATTTTT
1 AAAAATATTTTT
26134 TTAAAAGAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AAAAATATTTTTAAAT
Found at i:33641 original size:12 final size:12
Alignment explanation
Indices: 33622--33652 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33612 GTAAAGTTAC
33622 CCATTGCTATTG
1 CCATTGCTATTG
*
33634 CTATTGCTATTG
1 CCATTGCTATTG
33646 CCATTGC
1 CCATTGC
33653 CATGACATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (12 bp):
CCATTGCTATTG
Found at i:35183 original size:16 final size:14
Alignment explanation
Indices: 35148--35188 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
35138 ATCATTTGCC
*
35148 AAAATAGTTTTATA
1 AAAATATTTTTATA
35162 AAAATATTTTTAATA
1 AAAATATTTTT-ATA
35177 TAAAATATTTTT
1 -AAAATATTTTT
35189 GTTCACCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AAAATATTTTTATA
Found at i:38639 original size:15 final size:15
Alignment explanation
Indices: 38619--38650 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
38609 CCTACCTGCG
38619 TCCTGTTGTCTGTTA
1 TCCTGTTGTCTGTTA
38634 TCCTGTTGTCTGTTA
1 TCCTGTTGTCTGTTA
38649 TC
1 TC
38651 TTTCACCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.22, G:0.19, T:0.53
Consensus pattern (15 bp):
TCCTGTTGTCTGTTA
Found at i:40319 original size:18 final size:19
Alignment explanation
Indices: 40292--40330 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
40282 TATTATAAAT
40292 AATAAAAATTA-ATAATAA
1 AATAAAAATTATATAATAA
*
40310 AATAAGAATTATATAATAA
1 AATAAAAATTATATAATAA
40329 AA
1 AA
40331 CAACAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAAAAATTATATAATAA
Found at i:55971 original size:34 final size:35
Alignment explanation
Indices: 55927--55993 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
55917 CAGTAAAATA
*
55927 TTTTCCGTAAAATGATTT-CGGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGAAAAATATTTTAC
* *
55961 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGAAAAATATTTT
55994 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGAAAAATATTTTAC
Found at i:57314 original size:4 final size:4
Alignment explanation
Indices: 57305--57361 Score: 105
Period size: 4 Copynumber: 14.2 Consensus size: 4
57295 ATGTTCCTTG
57305 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
57353 ATGT TTGT A
1 ATGT ATGT A
57362 GTCATACATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
ATGT
Found at i:67309 original size:46 final size:46
Alignment explanation
Indices: 67257--67570 Score: 396
Period size: 46 Copynumber: 6.8 Consensus size: 46
67247 AGTGTGCTCT
* *
67257 CTGATATGGAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
67303 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
67349 GTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
67395 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
67441 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ***
67487 ATGACGGGAAAATAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
67534 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
67571 TATGACATCA
Statistics
Matches: 242, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 202 0.83
47 40 0.17
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:68940 original size:33 final size:32
Alignment explanation
Indices: 68900--68963 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
68890 AATCAAAATT
*
68900 AGAGTTTCAAGTATATATTTGAACCACAATTAG
1 AGAGTTTCAAGTATATAATTGAACCA-AATTAG
* * *
68933 AGAGTTTCACGTGTATAATTGCACCAAATTA
1 AGAGTTTCAAGTATATAATTGAACCAAATTA
68964 AAATTTATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (32 bp):
AGAGTTTCAAGTATATAATTGAACCAAATTAG
Found at i:69936 original size:17 final size:17
Alignment explanation
Indices: 69905--69938 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69895 CATGGTAAAT
* *
69905 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
69922 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
69939 CAAGAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:70427 original size:14 final size:14
Alignment explanation
Indices: 70390--70423 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
70380 GCACATATAT
70390 ATATGAATAATAATA
1 ATAT-AATAATAATA
70405 ATATAATAATAATA
1 ATATAATAATAATA
70419 A-ATAA
1 ATATAA
70424 ATAAATGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 11 0.58
15 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
ATATAATAATAATA
Found at i:72252 original size:44 final size:43
Alignment explanation
Indices: 72203--72446 Score: 224
Period size: 44 Copynumber: 5.6 Consensus size: 43
72193 ATCTACTCTG
* * * *
72203 CTGTAACCTC-GGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGG-GAGATAAGAT-CTGTACTTCAATCTGCTCCA
* * * * *
72247 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGAT-CTGTACTTCAATCTGCTCCA
* * * * *
72290 CTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCT-GTACTTCAATCTGCTCCA
* * * * *
72334 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGAT-CTGTACTTCAATCTGCTCCA
* *
72377 CTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTGTA-CTTCAATCTGCTCCA
72421 CTGTAACCTCAGGGAGATAAGATCTG
1 CTGTAACCTCAGGGAGATAAGATCTG
72447 AAATTCTCCG
Statistics
Matches: 155, Mismatches: 39, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
42 3 0.02
43 61 0.39
44 88 0.57
45 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCTGTACTTCAATCTGCTCCA
Found at i:72310 original size:87 final size:86
Alignment explanation
Indices: 72191--72439 Score: 383
Period size: 87 Copynumber: 2.9 Consensus size: 86
72181 AGACTTGATG
* * *
72191 CGATCTACTCTGCTGTAACCTC-GGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTGCTCCGCTGTAATCTCAGG-GAGATAAGAT-CTTTATTTTAATCCGCTCCACTGTAACT
72255 TCAGGGAGATAGGATAGTGTCTT
64 TCAGGGAGATAGGATAGTGTCTT
72278 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-TTATTTTAATCCGCTCCACTGTAACTT
72343 CAGGGAGATAGGATAGTGTCTT
65 CAGGGAGATAGGATAGTGTCTT
* * * * *
72365 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTTTA-TTTTAATCCGCTCCACTGTAACTT
72430 CAGGGAGATA
65 CAGGGAGATA
72440 AGATCTGAAA
Statistics
Matches: 151, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
86 4 0.03
87 145 0.96
88 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (86 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTTTATTTTAATCCGCTCCACTGTAACTTC
AGGGAGATAGGATAGTGTCTT
Found at i:72351 original size:131 final size:130
Alignment explanation
Indices: 72203--72445 Score: 276
Period size: 131 Copynumber: 1.9 Consensus size: 130
72193 ATCTACTCTG
* * * * *
72203 CTGTAACCTCGGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAG
1 CTGTAACCTCGGAGAGATAAGATACTGT-CTTCAATCCGCTCCACTGTAATC-TCAGGGAGATAA
* * * * *
72267 GATAGTGT-CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCT
64 GAT-CTCTACTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTATTTTAATCCGCT
72331 CCA
128 CCA
* * * * * *
72334 CTGTAACTTCAGG-GAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
1 CTGTAACCTC-GGAGAGATAAGATACTGTCTTCAATCCGCTCCACTGTAATCTCAGGGAGATAAG
72398 ATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
65 ATCTCTA-CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
72446 GAAATTCTCC
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
129 2 0.02
130 30 0.33
131 58 0.63
132 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (130 bp):
CTGTAACCTCGGAGAGATAAGATACTGTCTTCAATCCGCTCCACTGTAATCTCAGGGAGATAAGA
TCTCTACTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCA
Found at i:78185 original size:28 final size:29
Alignment explanation
Indices: 78154--78209 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
78144 TATTATTATT
*
78154 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
78182 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
78210 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:79567 original size:18 final size:18
Alignment explanation
Indices: 79544--79586 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
79534 ATGTGAGGTA
79544 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
79562 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
79580 ATTATTA
1 AGTATTA
79587 TGAGTGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:79587 original size:6 final size:6
Alignment explanation
Indices: 79544--79586 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
79534 ATGTGAGGTA
* * *
79544 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
79587 TGAGTGGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:79770 original size:24 final size:26
Alignment explanation
Indices: 79738--79796 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
79728 CGGATTAATT
79738 ATTG-ATTGAAAG-GTG-GAAAAATG
1 ATTGAATTGAAAGTGTGAGAAAAATG
**
79761 ATTGAATTGAAAGTGTGAGAAATGTG
1 ATTGAATTGAAAGTGTGAGAAAAATG
79787 ATTGAATTGA
1 ATTGAATTGA
79797 GATATATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 4 0.13
24 8 0.26
25 3 0.10
26 16 0.52
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.31
Consensus pattern (26 bp):
ATTGAATTGAAAGTGTGAGAAAAATG
Found at i:79998 original size:37 final size:39
Alignment explanation
Indices: 79939--80034 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
79929 CGGATAGATT
* * * *
79939 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
79976 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
80015 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
80035 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:86053 original size:28 final size:29
Alignment explanation
Indices: 86022--86077 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
86012 TATTATTATT
*
86022 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
86050 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
86078 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:87438 original size:18 final size:18
Alignment explanation
Indices: 87415--87457 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
87405 ATGTGAGGTA
87415 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
87433 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
87451 ATTATTA
1 AGTATTA
87458 TGAGTGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:87458 original size:6 final size:6
Alignment explanation
Indices: 87415--87457 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
87405 ATGTGAGGTA
* * *
87415 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
87458 TGAGTGGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:87642 original size:24 final size:27
Alignment explanation
Indices: 87610--87668 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
87600 CGGATTAATT
87610 ATTG-ATTGAAAG-GTG-GAAA-AATG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
**
87633 ATTGAATTGAAAGTGTGAGAAAGTGTG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
87660 ATTGAATTG
1 ATTGAATTG
87669 GGATTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 3 0.10
26 4 0.13
27 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (27 bp):
ATTGAATTGAAAGTGTGAGAAAGAATG
Found at i:87872 original size:37 final size:39
Alignment explanation
Indices: 87813--87908 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
87803 CGGATAGATT
* * * *
87813 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
87850 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
87889 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
87909 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:95477 original size:17 final size:17
Alignment explanation
Indices: 95446--95479 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95436 CATGGTAAAT
* *
95446 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
95463 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
95480 CAAGAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:103648 original size:42 final size:42
Alignment explanation
Indices: 103583--103671 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
103573 TCCTAATTGG
*
103583 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
* *
103625 GAAAATAGTTCCCTTCTTTTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
103667 TAAAA
1 GAAAA
103672 ATATTCCTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:105983 original size:5 final size:5
Alignment explanation
Indices: 105973--105997 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
105963 TTAAAATATA
105973 GAAAG GAAAG GAAAG GAAAG GAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG
105998 AAAATGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:111604 original size:43 final size:43
Alignment explanation
Indices: 111556--111648 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
111546 ATTCTAGAAA
111556 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
111599 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
111642 TATTTTC
1 TATTTTC
111649 CCATTAGGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:124275 original size:52 final size:52
Alignment explanation
Indices: 124197--124300 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
124187 CATCACAAGA
124197 ATATTTGAGACCCTCTGGTCTCTGCTCACAAGTTGACTAGCAAGGATCAATC
1 ATATTTGAGACCCTCTGGTCTCTGCTCACAAGTTGACTAGCAAGGATCAATC
*
124249 ATATTTGAGACCCTCTGGTCTCTGCTCACAAGTTGACTAGTAAGGATCAATC
1 ATATTTGAGACCCTCTGGTCTCTGCTCACAAGTTGACTAGCAAGGATCAATC
124301 TTTCTTTGTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (52 bp):
ATATTTGAGACCCTCTGGTCTCTGCTCACAAGTTGACTAGCAAGGATCAATC
Found at i:129510 original size:26 final size:26
Alignment explanation
Indices: 129441--129522 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
129431 CACAGCTCAC
*
129441 TTCTCGCTAAGCTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGC-TTGCACA
* *
129467 -TCTTGCTAATCTTACAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
* *
129492 TTTTTGCTGAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
129518 TTCTT
1 TTCTT
129523 TTCTTGAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 3 0.07
25 18 0.39
26 25 0.54
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (26 bp):
TTCTTGCTAAGCTTGCAGCTTGCACA
Found at i:138218 original size:3 final size:3
Alignment explanation
Indices: 138210--138250 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
138200 ACTGTCATAT
138210 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
138251 GAAGATCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:148807 original size:84 final size:87
Alignment explanation
Indices: 148689--148862 Score: 221
Period size: 84 Copynumber: 2.0 Consensus size: 87
148679 GTGAACTGTG
** * *
148689 AAGCAATCTATTAACAGTTTAAACCTCAGCTAAACAACTCTTCTACCTATAAAGAACATTT-AC-
1 AAGCAATCTATTAACAGTTTAAACCTCAGCTAAACAACTCTTCTACAGACAAAAAACATTTGACT
*
148752 TATACCATTGCAATTATTACTC
66 TATACCATTGCAATTATTACCC
* * *
148774 AAGCAATTTATTAACA-TTCT-AACCTCAGTTAAACAAGTCTTCTACAGACAAAAAACATTTGAC
1 AAGCAATCTATTAACAGTT-TAAACCTCAGCTAAACAACTCTTCTACAGACAAAAAACATTTGAC
* *
148837 TTTTATCATTGCAATTATTACCC
65 TTATACCATTGCAATTATTACCC
148860 AAG
1 AAG
148863 AACAAGGCCT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
84 36 0.47
85 18 0.24
86 22 0.29
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (87 bp):
AAGCAATCTATTAACAGTTTAAACCTCAGCTAAACAACTCTTCTACAGACAAAAAACATTTGACT
TATACCATTGCAATTATTACCC
Found at i:155037 original size:32 final size:32
Alignment explanation
Indices: 154995--155057 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
154985 ATTTTATTAC
154995 TATTTAACCTACGAATTTAGCCTATAAATAGT
1 TATTTAACCTACGAATTTAGCCTATAAATAGT
* *
155027 TATTTGACCTACGAATTTAGTCTATAAATAG
1 TATTTAACCTACGAATTTAGCCTATAAATAG
155058 GCTTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (32 bp):
TATTTAACCTACGAATTTAGCCTATAAATAGT
Found at i:155122 original size:23 final size:22
Alignment explanation
Indices: 155096--155138 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
155086 ACTTATAACA
*
155096 CTTTTGGAGAATTTTGTGTTTAC
1 CTTTTGAAGAATTTT-TGTTTAC
*
155119 CTTTTGAAGGATTTTTGTTT
1 CTTTTGAAGAATTTTTGTTT
155139 TCGGGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.16, C:0.07, G:0.21, T:0.56
Consensus pattern (22 bp):
CTTTTGAAGAATTTTTGTTTAC
Found at i:157721 original size:21 final size:20
Alignment explanation
Indices: 157692--157757 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 20
157682 ATGATGGTAG
157692 AAAAT-AAAATAAAATAAAA
1 AAAATAAAAATAAAATAAAA
157711 AGAAATAAAAAATAAAGAGTAAAA
1 A-AAAT-AAAAATAAA-A-TAAAA
157735 AATAATAAATAAGT-AAATAAAA
1 AA-AATAAA-AA-TAAAATAAAA
157757 A
1 A
157758 TGAAGTTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
19 1 0.03
20 4 0.10
22 14 0.36
23 6 0.15
24 13 0.33
25 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AAAATAAAAATAAAATAAAA
Found at i:157724 original size:17 final size:18
Alignment explanation
Indices: 157702--157757 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 18
157692 AAAATAAAAT
157702 AAAATAAAAAG-AAATAA
1 AAAATAAAAAGTAAATAA
*
157719 AAAATAAAGAGTAAA-AA
1 AAAATAAAAAGTAAATAA
*
157736 ATAATAAATAAGTAAATAA
1 AAAATAAA-AAGTAAATAA
157755 AAA
1 AAA
157758 TGAAGTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 19 0.59
18 9 0.28
19 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAATAAAAAGTAAATAA
Found at i:157727 original size:15 final size:15
Alignment explanation
Indices: 157698--157739 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
157688 GTAGAAAATA
157698 AAATAAAATAA-AAAG
1 AAATAAAA-AATAAAG
157713 AAATAAAAAATAAAG
1 AAATAAAAAATAAAG
*
157728 -AGTAAAAAATAA
1 AAATAAAAAATAA
157740 TAAATAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (15 bp):
AAATAAAAAATAAAG
Found at i:158286 original size:3 final size:3
Alignment explanation
Indices: 158280--158315 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
158270 ATAATAATAA
158280 TAT TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
158316 AGAAACTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:160376 original size:14 final size:14
Alignment explanation
Indices: 160357--160392 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
160347 TGAATCCTTA
160357 TTAAAATTATGTTT
1 TTAAAATTATGTTT
*
160371 TTAAAATCATGTTT
1 TTAAAATTATGTTT
*
160385 TTGAAATT
1 TTAAAATT
160393 GATTAGGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (14 bp):
TTAAAATTATGTTT
Found at i:162094 original size:13 final size:13
Alignment explanation
Indices: 162072--162122 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
162062 TTTAGTAATG
162072 TTTTTAAAAAGTA
1 TTTTTAAAAAGTA
*
162085 TTTTTGAAAAGTA
1 TTTTTAAAAAGTA
* * * *
162098 CTGTGAAAAAATA
1 TTTTTAAAAAGTA
162111 TTTTTAAAAAGT
1 TTTTTAAAAAGT
162123 TTGGTTTAAA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (13 bp):
TTTTTAAAAAGTA
Found at i:168130 original size:132 final size:132
Alignment explanation
Indices: 167702--168169 Score: 423
Period size: 131 Copynumber: 3.6 Consensus size: 132
167692 TGAAATCCCG
* * * * * * * *
167702 AAGAGATGTTCGATT-ATTTGGGACAAACGAAAAAGCGCAACCCAGCACGATAGGGCTCGATT-C
1 AAGAGATATTCGATTGTTTTGAG-CAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCC
* * * ** ** * *
167765 TCAAATCGCCAAACATTGAAC-ATCGCCTTCGCTTTAAAAGATTTTTAATAA-ACATGAGTGAAA
65 GCGAATTGCCAAACA-CAAACTATTACCTTCGTTTTAAAAGATTTTTAA-AAGACATGAATGAAA
167828 ACCTA
128 ACCTA
* *
167833 AAG-GAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATT-C
1 AAGAG-ATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCC
* ** ** * * * * *
167896 TCGAATTATCAAACACCGAGTATTGCCTTTGTTTTAAAAGGTTTTTAGAAGACATGAATGAAAAC
65 GCGAATTGCCAAACACAAACTATTACCTTCGTTTTAAAAGATTTTTAAAAGACATGAATGAAAAC
167961 CTA
130 CTA
* * *
167964 AAGGGATATTCAATCGTTTTGAGCAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCG
1 AAGAGATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCG
* * *
168029 CGAATTGCCAAATATCAAACT-TTACCTTCGTTTT-AAAGAATTTTTAAAAGGCATGAGTG-AAA
66 CGAATTGCCAAACA-CAAACTATTACCTTCGTTTTAAAAG-ATTTTTAAAAGACATGAATGAAAA
* *
168091 CTTTG
129 C-CTA
* * * ** *
168096 AAGAGATATTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
1 AAGAGATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCG
168161 CGAATTGCC
66 CGAATTGCC
168170 GAGCACCGAA
Statistics
Matches: 278, Mismatches: 50, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
130 4 0.01
131 160 0.58
132 111 0.40
133 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (132 bp):
AAGAGATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCG
CGAATTGCCAAACACAAACTATTACCTTCGTTTTAAAAGATTTTTAAAAGACATGAATGAAAACC
TA
Found at i:169181 original size:32 final size:32
Alignment explanation
Indices: 169136--169207 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
169126 GGATAAAAAA
*
169136 TAAAATAT-TTTAAAGT-AAATA-AATAAAGTT
1 TAAAATATATTTAAAATAAAATATAA-AAAGTT
*
169166 TAAGAATATATTTAAAATAAAATATAAATAGTT
1 TAA-AATATATTTAAAATAAAATATAAAAAGTT
169199 TAAAATATA
1 TAAAATATA
169208 ATTCATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 3 0.08
31 5 0.14
32 13 0.36
33 13 0.36
34 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (32 bp):
TAAAATATATTTAAAATAAAATATAAAAAGTT
Found at i:169272 original size:15 final size:15
Alignment explanation
Indices: 169252--169291 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
169242 TACATAAAAA
169252 GATTTATATATGAAT
1 GATTTATATATGAAT
169267 GATTTATATATGAAT
1 GATTTATATATGAAT
* *
169282 AATATATATA
1 GATTTATATA
169292 AAAACGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
GATTTATATATGAAT
Found at i:169511 original size:19 final size:19
Alignment explanation
Indices: 169476--169518 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
169466 TTAATACAAA
*
169476 GTTTAAAATAACTAAAATG
1 GTTTAAAATAACTAAAAAG
*
169495 GTTTGAAATAAAC-AAAAAG
1 GTTTAAAAT-AACTAAAAAG
169514 GTTTA
1 GTTTA
169519 CATGTACATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (19 bp):
GTTTAAAATAACTAAAAAG
Found at i:171160 original size:44 final size:44
Alignment explanation
Indices: 171000--171481 Score: 527
Period size: 44 Copynumber: 11.0 Consensus size: 44
170990 AAATTCATCG
* * * *
171000 TCTTTGATTTGCTCTTTGTCAATCACAGAGACGCCAAATCTGCTA
1 TCTTAGATCTGCTCTCTGACAAT-ACAGAGACGCCAAATCTGCTA
* * *
171045 TCTTAGATCTGCCCTCTGACAAAATAGAGACGCCAAATCTG-TA
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * * *
171088 ACTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * *
171132 TCTTAGATTTACTCTCTGACAATACAGAGACGTCAAATCTACTA
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * *
171176 TCTTCGATCTACTCTCTGCCAATACAGAGACGTCAAATCTGCTA
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * *
171220 TCTTAGATCTGC-CTTTTAACAATACAGAGATGTCAAATCTGCTA
1 TCTTAGATCTGCTC-TCTGACAATACAGAGACGCCAAATCTGCTA
* * * * * *
171264 TCTTCGATCTGCTTTCCGCCAATACAGAGACGTCAAATCTGTTA
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * *
171308 TCTTAGATCTGCCCTCTGATAATACAAAGACGCCAAATCTGCTA
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * * * *
171352 TCTTTGATTTGTTCTCCGTCAATACAGAGACGTCAAATCTGCTA
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* *
171396 TCTTAGATCTACCCTCTGACAATACAGAGACGCCAAATCTGCTA
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * *
171440 TCTTCGATCTGCTATCCGTCAATACAGAGACGCCAAATCTGC
1 TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGC
171482 GGGATTTGCC
Statistics
Matches: 360, Mismatches: 74, Indels: 7
0.82 0.17 0.02
Matches are distributed among these distances:
43 36 0.10
44 307 0.85
45 17 0.05
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTAGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
Found at i:171225 original size:88 final size:88
Alignment explanation
Indices: 171019--171481 Score: 640
Period size: 88 Copynumber: 5.3 Consensus size: 88
171009 TGCTCTTTGT
* *
171019 CAATCACAGAGACGCCAAATCTGCTATCTTAGATCTGCCCTCTGACAAAATAGAGACGCCAAATC
1 CAAT-ACAGAGACGCCAAATCTGCTATCTTAGATCTGCCCTCTGACAATACAGAGACGCCAAATC
*
171084 TG-TAACTTCGATCTGCTCTCCGC
65 TGCTATCTTCGATCTGCTCTCCGC
* * * * *
171107 CAATACAGAGATGCCAAATCTGCTATCTTAGATTTACTCTCTGACAATACAGAGACGTCAAATCT
1 CAATACAGAGACGCCAAATCTGCTATCTTAGATCTGCCCTCTGACAATACAGAGACGCCAAATCT
* * *
171172 ACTATCTTCGATCTACTCTCTGC
66 GCTATCTTCGATCTGCTCTCCGC
* * * * * *
171195 CAATACAGAGACGTCAAATCTGCTATCTTAGATCTGCCTTTTAACAATACAGAGATGTCAAATCT
1 CAATACAGAGACGCCAAATCTGCTATCTTAGATCTGCCCTCTGACAATACAGAGACGCCAAATCT
*
171260 GCTATCTTCGATCTGCTTTCCGC
66 GCTATCTTCGATCTGCTCTCCGC
* * * *
171283 CAATACAGAGACGTCAAATCTGTTATCTTAGATCTGCCCTCTGATAATACAAAGACGCCAAATCT
1 CAATACAGAGACGCCAAATCTGCTATCTTAGATCTGCCCTCTGACAATACAGAGACGCCAAATCT
* * * *
171348 GCTATCTTTGATTTGTTCTCCGT
66 GCTATCTTCGATCTGCTCTCCGC
* *
171371 CAATACAGAGACGTCAAATCTGCTATCTTAGATCTACCCTCTGACAATACAGAGACGCCAAATCT
1 CAATACAGAGACGCCAAATCTGCTATCTTAGATCTGCCCTCTGACAATACAGAGACGCCAAATCT
* *
171436 GCTATCTTCGATCTGCTATCCGT
66 GCTATCTTCGATCTGCTCTCCGC
171459 CAATACAGAGACGCCAAATCTGC
1 CAATACAGAGACGCCAAATCTGC
171482 GGGATTTGCC
Statistics
Matches: 328, Mismatches: 46, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 54 0.16
88 274 0.84
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (88 bp):
CAATACAGAGACGCCAAATCTGCTATCTTAGATCTGCCCTCTGACAATACAGAGACGCCAAATCT
GCTATCTTCGATCTGCTCTCCGC
Found at i:183228 original size:131 final size:131
Alignment explanation
Indices: 183026--183313 Score: 364
Period size: 131 Copynumber: 2.2 Consensus size: 131
183016 TGAAGAAGCG
* * * *
183026 CAACCCAGCACGATAGGGC-TCGATTCTCAAATCGCCAAACATCGAACATCGTCTTCGCTTTGAA
1 CAACCCAGCACGATAGGGCAT-GATTCTCAAATCACCAAACACCGAACATCGCCTTCGCTTTAAA
* * *
183090 AGATTTTTA-ATAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGAAA
65 AGATTTTTAGA-AAACATGAATGAAAACCTAAAGGAATATTCAATCGTTTTGAGCAAACGAGAAA
183154 TCA
129 TCA
* * * ** * * *
183157 CAACCCAGCACGATAGGGCATGATTCTCGAATTATCAAACACCGAGTATTGCCTTTGTTTTAAAA
1 CAACCCAGCACGATAGGGCATGATTCTCAAATCACCAAACACCGAACATCGCCTTCGCTTTAAAA
* * *
183222 GGTTTTTAGAAGACATGAATGAAAACCTAAAGGGATATTCAATCGTTTTGAGCAAACGAGAAATC
66 GATTTTTAGAAAACATGAATGAAAACCTAAAGGAATATTCAATCGTTTTGAGCAAACGAGAAATC
183287 A
131 A
* *
183288 CAACCCAGCACGTTAGGGCACGATTC
1 CAACCCAGCACGATAGGGCATGATTC
183314 CGCGAATTGC
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
131 133 0.99
132 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (131 bp):
CAACCCAGCACGATAGGGCATGATTCTCAAATCACCAAACACCGAACATCGCCTTCGCTTTAAAA
GATTTTTAGAAAACATGAATGAAAACCTAAAGGAATATTCAATCGTTTTGAGCAAACGAGAAATC
A
Found at i:183417 original size:132 final size:132
Alignment explanation
Indices: 183079--183456 Score: 399
Period size: 132 Copynumber: 2.9 Consensus size: 132
183069 GAACATCGTC
* * *
183079 TTCGCTTTGAAAGATTTTTAATAA-ACATGAGTGAAAACCTAAAG-GAATATTCGATTGTTTTGA
1 TTCGTTTTAAAAGATTTTTAA-AAGACATGAATGAAAACCTAAAGAG-ATATTCGATTGTTTTGA
* * * ** ** *
183142 GCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATT-CTCGAATTATCAAACACCGAGTAT
64 GCAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAACACAAACTAT
* *
183206 TGCC
129 TACA
* * * * * *
183210 TTTGTTTTAAAAGGTTTTTAGAAGACATGAATGAAAACCTAAAGGGATATTCAATCGTTTTGAGC
1 TTCGTTTTAAAAGATTTTTAAAAGACATGAATGAAAACCTAAAGAGATATTCGATTGTTTTGAGC
*
183275 AAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCAAACT-TT
66 AAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAACA-CAAACTATT
183339 ACA
130 ACA
* * * * * *
183342 TTCGTTTT-AAAGAATTTTTAAAAGGCATGAGTG-AAACGTTGAAGAGATATTCGATTATTTTAA
1 TTCGTTTTAAAAG-ATTTTTAAAAGACATGAATGAAAAC-CTAAAGAGATATTCGATTGTTTTGA
* ** *
183405 GCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCC
64 GCAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCC
183457 GAGCATCGAA
Statistics
Matches: 206, Mismatches: 35, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
130 2 0.01
131 96 0.47
132 105 0.51
133 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (132 bp):
TTCGTTTTAAAAGATTTTTAAAAGACATGAATGAAAACCTAAAGAGATATTCGATTGTTTTGAGC
AAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAACACAAACTATTA
CA
Found at i:184467 original size:32 final size:32
Alignment explanation
Indices: 184422--184493 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
184412 GGATAATAAA
*
184422 TAAAATAT-TTTAAAGT-AAATA-AATAAAGTT
1 TAAAATATATTTAAAATAAAATATAA-AAAGTT
*
184452 TAAGAATATATTTAAAATAAAATATAAATAGTT
1 TAA-AATATATTTAAAATAAAATATAAAAAGTT
184485 TAAAATATA
1 TAAAATATA
184494 ATTCATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 3 0.08
31 5 0.14
32 13 0.36
33 13 0.36
34 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (32 bp):
TAAAATATATTTAAAATAAAATATAAAAAGTT
Found at i:184558 original size:15 final size:15
Alignment explanation
Indices: 184538--184577 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
184528 TACATAAAAA
184538 GATTTATATATGAAT
1 GATTTATATATGAAT
184553 GATTTATATATGAAT
1 GATTTATATATGAAT
* *
184568 AATATATATA
1 GATTTATATA
184578 AAAACGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
GATTTATATATGAAT
Found at i:184797 original size:19 final size:19
Alignment explanation
Indices: 184762--184804 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
184752 TTAATACAAA
*
184762 GTTTAAAATAACTAAAATG
1 GTTTAAAATAACTAAAAAG
*
184781 GTTTGAAATAAAC-AAAAAG
1 GTTTAAAAT-AACTAAAAAG
184800 GTTTA
1 GTTTA
184805 CATGTACATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (19 bp):
GTTTAAAATAACTAAAAAG
Found at i:186501 original size:2 final size:2
Alignment explanation
Indices: 186494--186542 Score: 68
Period size: 2 Copynumber: 25.5 Consensus size: 2
186484 ATTGAAAATT
186494 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA T- TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
186535 TA TA -A TA T
1 TA TA TA TA T
186543 TAAAAAACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.07
2 38 0.88
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:197888 original size:20 final size:20
Alignment explanation
Indices: 197850--197889 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
197840 TATTATTTTC
197850 ATTTCATTAGTAATAAAATTA
1 ATTTCATTAG-AATAAAATTA
197871 ATTTCATTA-AAGTAAAATT
1 ATTTCATTAGAA-TAAAATT
197890 GAGAGACTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 7 0.39
21 9 0.50
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
ATTTCATTAGAATAAAATTA
Found at i:200956 original size:19 final size:19
Alignment explanation
Indices: 200932--200968 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
200922 GCATGACCTC
200932 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
200951 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
200969 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:203010 original size:18 final size:17
Alignment explanation
Indices: 202984--203018 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
202974 AATATTAAGA
*
202984 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
203001 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
203019 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:203030 original size:120 final size:120
Alignment explanation
Indices: 202877--203160 Score: 437
Period size: 120 Copynumber: 2.4 Consensus size: 120
202867 TAATTGAAAA
* * *
202877 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* * *
202941 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAAAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
202996 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
203061 TTATGATTTCAGTAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
*
203116 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
203161 ATGATTAAAT
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 14 0.09
120 130 0.87
121 5 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
Found at i:203132 original size:18 final size:17
Alignment explanation
Indices: 203104--203138 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
203094 ATTATTAAGA
*
203104 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
203121 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
203139 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:203138 original size:16 final size:16
Alignment explanation
Indices: 203104--203158 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
203094 ATTATTAAGA
203104 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
203121 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
203137 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
203151 ATGTTTAA
1 AT-TTTAA
203159 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:212039 original size:11 final size:11
Alignment explanation
Indices: 212023--212049 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
212013 TCCATCTAGG
212023 TTTATTATTTA
1 TTTATTATTTA
212034 TTTATTATTTA
1 TTTATTATTTA
212045 TTTAT
1 TTTAT
212050 AATCTATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:212547 original size:18 final size:20
Alignment explanation
Indices: 212510--212554 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
212500 TTTATAATTA
212510 AATTTTAATTAAATAAATAT
1 AATTTTAATTAAATAAATAT
* *
212530 -ATTTTAA-TCAATATATAT
1 AATTTTAATTAAATAAATAT
212548 AATTTTA
1 AATTTTA
212555 TTTTAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTTAATTAAATAAATAT
Found at i:222471 original size:11 final size:11
Alignment explanation
Indices: 222455--222480 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
222445 TAGAAGAGAC
222455 GAAACAGGGGA
1 GAAACAGGGGA
222466 GAAACAGGGGA
1 GAAACAGGGGA
222477 GAAA
1 GAAA
222481 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:223164 original size:18 final size:18
Alignment explanation
Indices: 223141--223183 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
223131 ATGTGAGGTA
223141 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
223159 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
223177 ATTATTA
1 AGTATTA
223184 TTATGAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:223169 original size:3 final size:3
Alignment explanation
Indices: 223143--223187 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
223133 GTGAGGTAAG
* * * *
223143 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
223188 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:223382 original size:24 final size:24
Alignment explanation
Indices: 223328--223399 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
223318 TGTGTGAAGT
*
223328 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
223351 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
223376 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
223400 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:223602 original size:37 final size:39
Alignment explanation
Indices: 223543--223638 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
223533 CGGATAGATT
* * * *
223543 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
223580 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
223619 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
223639 TTCTAGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:227440 original size:21 final size:21
Alignment explanation
Indices: 227416--227501 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
227406 GGCTTTACTG
* *
227416 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
227437 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACCTCATGTGTCGT
*
227458 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
227479 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
227500 AT
1 AT
227502 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:230332 original size:29 final size:27
Alignment explanation
Indices: 230269--230346 Score: 120
Period size: 28 Copynumber: 2.7 Consensus size: 27
230259 AAAACAATCT
230269 AGATTTTTAGGTTTTCACTATTTTTACC
1 AGATTTTTAGG-TTTCACTATTTTTACC
230297 AGATTTTTAGGATTTCACTATTTTTACC
1 AGATTTTTAGG-TTTCACTATTTTTACC
230325 AGACTTTTTAAGGTTTCACTAT
1 AGA-TTTTT-AGGTTTCACTAT
230347 ATATATATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
28 30 0.64
29 14 0.30
30 3 0.06
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (27 bp):
AGATTTTTAGGTTTCACTATTTTTACC
Found at i:230600 original size:26 final size:29
Alignment explanation
Indices: 230571--230624 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 29
230561 TTATTACCAT
*
230571 ATTTAAGGTC-TTGCTA-TCTTA-TGGAA
1 ATTTAAGGGCTTTGCTATTCTTACTGGAA
*
230597 ATTTTAGGGCTTTGCTATTCTTACTGGA
1 ATTTAAGGGCTTTGCTATTCTTACTGGA
230625 TTTTTGAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 8 0.35
27 6 0.26
28 5 0.22
29 4 0.17
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (29 bp):
ATTTAAGGGCTTTGCTATTCTTACTGGAA
Found at i:230711 original size:28 final size:27
Alignment explanation
Indices: 230572--230719 Score: 92
Period size: 28 Copynumber: 5.4 Consensus size: 27
230562 TATTACCATA
* *
230572 TTTAAGGTCTTGCTA-TCTTATGGAAAT
1 TTTAAGGT-TTGCTATTCTTATCGAATT
* *
230599 TTTAGGGCTTTGCTATTCTTA-CTGGATT
1 TTTAAGG-TTTGCTATTCTTATC-GAATT
* * * *
230627 TTTGAGGTTTCACTATTCTTTTC-AGCTT
1 TTTAAGGTTT-GCTATTCTTATCGA-ATT
*
230655 TTT-AGGATTTCGCTATTCTTA-CCATATT
1 TTTAAGG-TTT-GCTATTCTTATCGA-ATT
230683 TTTAAGGCTTTGCTATTCTTATCGAA-T
1 TTTAAGG-TTTGCTATTCTTATCGAATT
230710 TTTAAGGTTT
1 TTTAAGGTTT
230720 TGTTATTATT
Statistics
Matches: 95, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
26 3 0.03
27 27 0.28
28 56 0.59
29 9 0.09
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (27 bp):
TTTAAGGTTTGCTATTCTTATCGAATT
Found at i:230830 original size:26 final size:26
Alignment explanation
Indices: 230764--230832 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
230754 TTTTATTTTT
*
230764 ATTTTTAGGGTTTCATTGTTTTACTAG
1 ATTTTTAGGGTTT-ATTGTTTCACTAG
** **
230791 A-TTTTAGAATTTTATTGTTTCGTTAG
1 ATTTTTAG-GGTTTATTGTTTCACTAG
230817 ATTTTTAGGGTTTATT
1 ATTTTTAGGGTTTATT
230833 ATTTGTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
26 23 0.70
27 10 0.30
ACGTcount: A:0.20, C:0.04, G:0.17, T:0.58
Consensus pattern (26 bp):
ATTTTTAGGGTTTATTGTTTCACTAG
Found at i:231263 original size:3 final size:3
Alignment explanation
Indices: 231255--231290 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
231245 AAAAAGACAA
231255 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
231291 GTCTAATCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:235975 original size:77 final size:78
Alignment explanation
Indices: 235884--236037 Score: 220
Period size: 78 Copynumber: 2.0 Consensus size: 78
235874 CCATCTCATA
** * *
235884 TTCTACCATTAAACCATGA-TTCTTGATCTCACCAACTGGGAGAGTCGGTGATCATGTTGATAAT
1 TTCTACCATTAAACCATGACCCCTTGATCTCACCAACTAGGAGAGTCGGTGATCATGTTGATAAC
*
235948 GATCACTATGGAG
66 GATCACCATGGAG
* * * *
235961 TTCTACCATTAAACCATGACCCCTTGATCTCATCAGCTAGGAGAGTTGGTGATCATGTTGATAGC
1 TTCTACCATTAAACCATGACCCCTTGATCTCACCAACTAGGAGAGTCGGTGATCATGTTGATAAC
236026 GATCACCATGGA
66 GATCACCATGGA
236038 CTTTGTCTAC
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 19 0.28
78 48 0.72
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (78 bp):
TTCTACCATTAAACCATGACCCCTTGATCTCACCAACTAGGAGAGTCGGTGATCATGTTGATAAC
GATCACCATGGAG
Found at i:237689 original size:22 final size:22
Alignment explanation
Indices: 237661--237707 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
237651 ACAGCCGAAT
237661 CAGTCTCATGAGATGCTAAATA
1 CAGTCTCATGAGATGCTAAATA
237683 CAGTCTCATGAGATGCTAAATA
1 CAGTCTCATGAGATGCTAAATA
237705 CAG
1 CAG
237708 CGCAAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (22 bp):
CAGTCTCATGAGATGCTAAATA
Found at i:238079 original size:19 final size:20
Alignment explanation
Indices: 238051--238093 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
238041 TCTTTTGTGC
*
238051 AATT-TGTTATG-GTAATAA
1 AATTGTGTTATGCCTAATAA
238069 AATTGTGTTATGCCTAATAA
1 AATTGTGTTATGCCTAATAA
238089 AATTG
1 AATTG
238094 ATGAATGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 11 0.50
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (20 bp):
AATTGTGTTATGCCTAATAA
Found at i:238311 original size:16 final size:16
Alignment explanation
Indices: 238292--238341 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
238282 AATTTTGACT
238292 TAGGCTCATTTTTCTA
1 TAGGCTCATTTTTCTA
**
238308 TAGGGGCA--TTT-TA
1 TAGGCTCATTTTTCTA
238321 GTAGGCTCATTTTTCTA
1 -TAGGCTCATTTTTCTA
238338 TAGG
1 TAGG
238342 GGCATTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 2 0.08
14 9 0.35
16 13 0.50
17 2 0.08
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (16 bp):
TAGGCTCATTTTTCTA
Found at i:238326 original size:30 final size:30
Alignment explanation
Indices: 238292--238353 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
238282 AATTTTGACT
238292 TAGGCTCATTTTTCTATAGGGGCATTTTAG
1 TAGGCTCATTTTTCTATAGGGGCATTTTAG
238322 TAGGCTCATTTTTCTATAGGGGCATTTTAG
1 TAGGCTCATTTTTCTATAGGGGCATTTTAG
238352 TA
1 TA
238354 CAGTTTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.44
Consensus pattern (30 bp):
TAGGCTCATTTTTCTATAGGGGCATTTTAG
Found at i:238347 original size:16 final size:16
Alignment explanation
Indices: 238298--238349 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
238288 GACTTAGGCT
238298 CATTTTTCTATAGGGG
1 CATTTTTCTATAGGGG
**
238314 CA--TTT-TAGTAGGCT
1 CATTTTTCTA-TAGGGG
238328 CATTTTTCTATAGGGG
1 CATTTTTCTATAGGGG
238344 CATTTT
1 CATTTT
238350 AGTACAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
16 15 0.54
17 2 0.07
ACGTcount: A:0.19, C:0.13, G:0.21, T:0.46
Consensus pattern (16 bp):
CATTTTTCTATAGGGG
Found at i:240056 original size:12 final size:12
Alignment explanation
Indices: 240039--240071 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
240029 CATGGTGATG
240039 ATGGTGATGGCC
1 ATGGTGATGGCC
240051 ATGGTGATGGCC
1 ATGGTGATGGCC
*
240063 ATGATGATG
1 ATGGTGATG
240072 TCGAGAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.39, T:0.27
Consensus pattern (12 bp):
ATGGTGATGGCC
Found at i:240860 original size:21 final size:21
Alignment explanation
Indices: 240834--240876 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
240824 TTGAATCCTC
240834 GGCTAATATCTATAAAGAACT
1 GGCTAATATCTATAAAGAACT
240855 GGCTAATATCTATAAAGAACT
1 GGCTAATATCTATAAAGAACT
240876 G
1 G
240877 AAGGTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (21 bp):
GGCTAATATCTATAAAGAACT
Found at i:243017 original size:131 final size:130
Alignment explanation
Indices: 242686--243021 Score: 390
Period size: 131 Copynumber: 2.6 Consensus size: 130
242676 GAAATTGCAG
* * * * ** * *
242686 CCCAGCACGATAGGGTACTATTCCCCGAATTGCCAAACATCGAATATCGCCTTCGTTTTAAAGGG
1 CCCAACACGATAGAGCACGATT-CCCGAATTATCAAACATCGAGTATTGCCTTCGTTTTAAA-GG
** * *
242751 TTTTTAGA-AAACGTGAGTGAAATTTCAAAGGAATCTTCGATTGTTTTGGAAAAACGAGAAATCA
64 TTTTTA-ATAAACACGAGTGAAACTTCAAAGGAATATTCGATTGTTTTGGAAAAACGAGAAATCA
242815 CAA
128 CAA
* * ** *
242818 CCCAACACGTTAGAGCACGGTTCCCGAATTATCAAACATCGAGTATTGTATTCGTTTTGGAAGGT
1 CCCAACACGATAGAGCACGATTCCCGAATTATCAAACATCGAGTATTGCCTTCGTTTT-AAAGGT
242883 TTTTAATAAACACGAGTGAAAACTT-AAAGGAATATTCGATTGTTTT-GAACAAACGAGAAATCA
65 TTTTAATAAACACGAGTG-AAACTTCAAAGGAATATTCGATTGTTTTGGAA-AAACGAGAAATCA
242946 CAA
128 CAA
* * * * *
242949 CCCAACACGATAGGGCATGATTCTCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAAGAAT
1 CCCAACACGATAGAGCACGATTCCCGAATTATCAAACATCGAGTATTGCCTTCGTTTTAAAG-GT
243014 TTTTAATA
65 TTTTAATA
243022 GTTGTGAAAC
Statistics
Matches: 172, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
130 7 0.04
131 142 0.83
132 23 0.13
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (130 bp):
CCCAACACGATAGAGCACGATTCCCGAATTATCAAACATCGAGTATTGCCTTCGTTTTAAAGGTT
TTTAATAAACACGAGTGAAACTTCAAAGGAATATTCGATTGTTTTGGAAAAACGAGAAATCACAA
Found at i:246004 original size:44 final size:44
Alignment explanation
Indices: 245941--246171 Score: 268
Period size: 44 Copynumber: 5.2 Consensus size: 44
245931 CGGGAACACC
* * *
245941 AATCTGTTATTTTCGATCTGCTCTCTACCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTACCAATACAGAGACGCCA
*
245985 AATCTGCTATCTTCGATCTGCCCTCTGA-CAATTACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCT-ACCAA-TACAGAGACGCCA
** ** *
246030 AATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCTA
1 AATCTGCTATCTTCGATCTGCTCTCTACCAATACAGAGACGCCA
* ** **
246074 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTACCAATACAGAGACGCCA
* *
246118 AATCTGTTATCTTCGATCTGCCCTCTGA-CAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCT-ACCAATACAGAGACGCCA
*
246162 AATCAGCTAT
1 AATCTGCTAT
246172 TGTAATACCC
Statistics
Matches: 164, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
44 126 0.77
45 38 0.23
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCTACCAATACAGAGACGCCA
Found at i:246053 original size:89 final size:88
Alignment explanation
Indices: 245941--246171 Score: 293
Period size: 89 Copynumber: 2.6 Consensus size: 88
245931 CGGGAACACC
* *
245941 AATCTGTTATTTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGC
1 AATCTGTTATCTTCGATCTGCTCTCTACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
* *
246006 CCTCTGACAATTACAGAGACGCCA
66 CCTCCG-CAACTACAGAGACGCCA
* ** ** * *
246030 AATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCTAAATCTGTTATCTTCGATCTGC
1 AATCTGTTATCTTCGATCTGCTCTCTACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
* **
246095 TCTCCGCCGCTACAGAGACGCCA
66 CCTCCGCAACTACAGAGACGCCA
* *
246118 AATCTGTTATCTTCGATCTGCCCTCTGA-CAATACAGAGACGCCAAATCAGCTAT
1 AATCTGTTATCTTCGATCTGCTCTCT-ACCAATACAGAGACGCCAAATCTGCTAT
246172 TGTAATACCC
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
88 58 0.49
89 60 0.51
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (88 bp):
AATCTGTTATCTTCGATCTGCTCTCTACCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
CCTCCGCAACTACAGAGACGCCA
Found at i:246347 original size:22 final size:23
Alignment explanation
Indices: 246321--246366 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
246311 CAACCAAACT
246321 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
246343 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
246366 A
1 A
246367 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:246372 original size:23 final size:23
Alignment explanation
Indices: 246328--246372 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
246318 ACTAATTCAA
*
246328 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
246351 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
246373 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:248990 original size:21 final size:21
Alignment explanation
Indices: 248964--249049 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
248954 GGCTTTATCG
* *
248964 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
248985 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
249006 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
249027 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
249048 AT
1 AT
249050 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:254052 original size:17 final size:19
Alignment explanation
Indices: 254032--254073 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
254022 AATAAAATAT
254032 AAATAT-AAAT-AATAGAG
1 AAATATCAAATAAATAGAG
254049 AAATATCACAAATAAATAGAG
1 AAATAT--CAAATAAATAGAG
254070 AAAT
1 AAAT
254074 TACGCACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 4 0.19
21 11 0.52
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (19 bp):
AAATATCAAATAAATAGAG
Found at i:261076 original size:59 final size:57
Alignment explanation
Indices: 260950--261085 Score: 139
Period size: 59 Copynumber: 2.3 Consensus size: 57
260940 CTACATTTGA
* * *
260950 TAAATTTTA-TTTTAATCATTTAATTATAAAAAATTATAAAATAATTACGCAACTAT
1 TAAATTTCATTTTTAATAATTTAACTATAAAAAATTATAAAATAATTACGCAACTAT
* * ** *
261006 TAATAAATTCATTTTTTATAATTTAACTATAAAAAAATTATAAAATAATTACTTTAACTGT
1 T-A-AATTTCATTTTTAATAATTTAACTAT-AAAAAATTATAAAATAATTAC-GCAACTAT
261067 TAAATTTCATACTTTTAAT
1 TAAATTTCAT--TTTTAAT
261086 CACCAATAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
56 1 0.02
57 1 0.02
58 5 0.08
59 22 0.35
60 22 0.35
61 12 0.19
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.45
Consensus pattern (57 bp):
TAAATTTCATTTTTAATAATTTAACTATAAAAAATTATAAAATAATTACGCAACTAT
Found at i:266389 original size:19 final size:20
Alignment explanation
Indices: 266365--266402 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
266355 TAAAATATCA
*
266365 AAAATTTAAA-TTTAAAATC
1 AAAATTGAAATTTTAAAATC
266384 AAAATTGAAATTTTAAAAT
1 AAAATTGAAATTTTAAAAT
266403 TTTAATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATTGAAATTTTAAAATC
Found at i:269409 original size:52 final size:52
Alignment explanation
Indices: 269326--269427 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
269316 AATTTTGCTT
* * *
269326 CATGCATCTGTAAGTGAAATGTGCTTGTATATATATTCTTTTGATATATTTG
1 CATGCATCCGTAAGTGAAATGTGCATCTATATATATTCTTTTGATATATTTG
*
269378 CATGCATCCGTAAGTGAAATTTGCATCTATATATATTCTTTTGATATATT
1 CATGCATCCGTAAGTGAAATGTGCATCTATATATATTCTTTTGATATATT
269428 CTTTCTATCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (52 bp):
CATGCATCCGTAAGTGAAATGTGCATCTATATATATTCTTTTGATATATTTG
Found at i:269412 original size:116 final size:113
Alignment explanation
Indices: 269198--269418 Score: 352
Period size: 116 Copynumber: 1.9 Consensus size: 113
269188 GCACATTCCA
* * *
269198 TATAAATTTTGCTTCCTGCATCTGTAAGTGAAATGTGTGTTTATATATTCTTTTTATATATTTGC
1 TATAAATTTTGCTTCATGCATCTGTAAGTGAAATGTGTGTATATATATTCTTTTGATATATTTGC
* *
269263 ATTCATCCATAAGTGAAATTTACATGTATATATATTTCTTTCTATCTGT
66 ATGCATCCATAAGTGAAATTTACATCTATATATA-TTCTTTCTATCTGT
269312 TATAAATTTTGCTTCATGCATCTGTAAGTGAAATGTGCTTGTATATATATTCTTTTGATATATTT
1 TATAAATTTTGCTTCATGCATCTGTAAGTGAAATGTG--TGTATATATATTCTTTTGATATATTT
* *
269377 GCATGCATCCGTAAGTGAAATTTGCATCTATATATATTCTTT
64 GCATGCATCCATAAGTGAAATTTACATCTATATATATTCTTT
269419 TGATATATTC
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
114 36 0.37
115 6 0.06
116 56 0.57
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.48
Consensus pattern (113 bp):
TATAAATTTTGCTTCATGCATCTGTAAGTGAAATGTGTGTATATATATTCTTTTGATATATTTGC
ATGCATCCATAAGTGAAATTTACATCTATATATATTCTTTCTATCTGT
Found at i:269457 original size:27 final size:27
Alignment explanation
Indices: 269421--269472 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
269411 TATTCTTTTG
* *
269421 ATATATTCTTTCTATCTGTTTGTGTAT
1 ATATAATCTTTCTATCTGTATGTGTAT
269448 ATATAATCTTTCTATCTGTATGTGT
1 ATATAATCTTTCTATCTGTATGTGT
269473 GTGTGTCACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (27 bp):
ATATAATCTTTCTATCTGTATGTGTAT
Found at i:272848 original size:41 final size:40
Alignment explanation
Indices: 272776--272922 Score: 131
Period size: 41 Copynumber: 3.6 Consensus size: 40
272766 TCTCGTCAAT
* *
272776 AAAAA-AAAAGAAAAAGTACTGGGTTAATGCATTTAAGAA
1 AAAAAGAAAAGAAAAAGTACTGGGTTAATGCATTCAAAAA
*
272815 AAAAAGAAAAGAAAAAGTGACTGGGTTATTGCATTCAAAAA
1 AAAAAGAAAAGAAAAAGT-ACTGGGTTAATGCATTCAAAAA
** * *
272856 AAAAAGGAATAAG--CTAGTACGGGGGCTAATTGCATTTCAAAAA
1 AAAAA-GAA-AAGAAAAAGTAC-TGGGTTAA-TGCA-TTCAAAAA
* *
272899 AAAAAG-TAAGAAAAAGTACAGGGT
1 AAAAAGAAAAGAAAAAGTACTGGGT
272923 AGATTTATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
39 5 0.06
40 17 0.20
41 35 0.41
42 13 0.15
43 16 0.19
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.19
Consensus pattern (40 bp):
AAAAAGAAAAGAAAAAGTACTGGGTTAATGCATTCAAAAA
Done.