Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004272.1 Hibiscus syriacus cultivar Beakdansim tig00009366_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: 168402
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:12351 original size:18 final size:19
Alignment explanation
Indices: 12311--12354 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
12301 TTTCGCAATT
*
12311 TTTATTAATTAATATAAAA
1 TTTATTAATAAATATAAAA
*
12330 -TTATTTATAAAT-TAAAA
1 TTTATTAATAAATATAAAA
12347 TTTATTAA
1 TTTATTAA
12355 GTTAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTATTAATAAATATAAAA
Found at i:19068 original size:67 final size:64
Alignment explanation
Indices: 18975--19104 Score: 224
Period size: 67 Copynumber: 2.0 Consensus size: 64
18965 TAAGATTATC
*
18975 GGGGGGGGGGGGTTTTTTTTTCTATAATGTGATACCTATGTTTGGATTGCAAAGATTCTCAATT
1 GGGGGGGGGGGGTTTTTTTTTCTATAATGTGATACCCATGTTTGGATTGCAAAGATTCTCAATT
19039 GGGGGGGGGGTGAAGTTTTTTTTTCTATAATGTGATACCCATGTTTGGATTGCAAAGATTCTCAA
1 GGGGGGGGGG-G--GTTTTTTTTTCTATAATGTGATACCCATGTTTGGATTGCAAAGATTCTCAA
19104 T
63 T
19105 AAGGGGTAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
64 10 0.16
65 1 0.02
67 51 0.82
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (64 bp):
GGGGGGGGGGGGTTTTTTTTTCTATAATGTGATACCCATGTTTGGATTGCAAAGATTCTCAATT
Found at i:20189 original size:6 final size:6
Alignment explanation
Indices: 20178--20205 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
20168 ATCATATTTA
20178 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
20206 GGATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:20391 original size:22 final size:21
Alignment explanation
Indices: 20336--20391 Score: 51
Period size: 22 Copynumber: 2.5 Consensus size: 21
20326 AAAATTTCAC
20336 ATAATTTTATCTCTTCTTATTA
1 ATAATTTTAT-TCTTCTTATTA
* *
20358 ATAACTTGTATTTTATCTT-TTAA
1 ATAA-TTTTATTCT-TCTTATT-A
20381 ATAATTTTATT
1 ATAATTTTATT
20392 GAAACTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (21 bp):
ATAATTTTATTCTTCTTATTA
Found at i:20508 original size:16 final size:17
Alignment explanation
Indices: 20484--20518 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20474 ATTAGTGATG
*
20484 ATTTTATAA-AAAAATA
1 ATTTGATAATAAAAATA
20500 ATTTGATAATAAAAATA
1 ATTTGATAATAAAAATA
20517 AT
1 AT
20519 AATAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTTGATAATAAAAATA
Found at i:22011 original size:18 final size:20
Alignment explanation
Indices: 21965--22011 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
21955 TTATTAAAAA
21965 TTAAATAACGAAATTAATATT
1 TTAAATAAC-AAATTAATATT
**
21986 TTCGATAA-AAA-TAATATT
1 TTAAATAACAAATTAATATT
22004 TTAAATAA
1 TTAAATAA
22012 TATTTTACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 13 0.59
19 3 0.14
21 6 0.27
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
TTAAATAACAAATTAATATT
Found at i:22027 original size:14 final size:12
Alignment explanation
Indices: 21993--22040 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
21983 ATTTTCGATA
21993 AAAATAATATTTT
1 AAAA-AATATTTT
*
22006 AAATAATATTTT
1 AAAAAATATTTT
22018 ACTAAAAATA-TTT
1 A--AAAAATATTTT
22031 AAAAAATATT
1 AAAAAATATT
22041 AATATTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 7 0.23
12 10 0.33
13 7 0.23
14 6 0.20
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
AAAAAATATTTT
Found at i:22127 original size:48 final size:47
Alignment explanation
Indices: 22023--22128 Score: 131
Period size: 47 Copynumber: 2.2 Consensus size: 47
22013 ATTTTACTAA
* * *
22023 AAATATTTAAAAAATATTAATATTTATGATTAAACATTTTTTTAATC
1 AAATATTAAAAAAATATTAATATTTATGATTAAACATTCTTTTAACC
* * *
22070 AAATGTTAAAAAAATATTAATATTTTTGATTAAATATCTCTTTTAACC
1 AAATATTAAAAAAATATTAATATTTATGATTAAACAT-TCTTTTAACC
**
22118 GTATATTAAAA
1 AAATATTAAAA
22129 CCGTATCATA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 33 0.67
48 16 0.33
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (47 bp):
AAATATTAAAAAAATATTAATATTTATGATTAAACATTCTTTTAACC
Found at i:25851 original size:22 final size:22
Alignment explanation
Indices: 25825--25873 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
25815 ATCATAGTAC
25825 GTAATAATATTTGATTTGAGAG
1 GTAATAATATTTGATTTGAGAG
25847 GTAATAATATTTGATTTGAGAG
1 GTAATAATATTTGATTTGAGAG
25869 GTAAT
1 GTAAT
25874 GACTATAGAT
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:0.00, G:0.22, T:0.41
Consensus pattern (22 bp):
GTAATAATATTTGATTTGAGAG
Found at i:26961 original size:22 final size:21
Alignment explanation
Indices: 26931--26976 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
26921 TTGGACGTCA
*
26931 TTTTTAATGGAATGTTTCATT
1 TTTTTAATGGAATATTTCATT
*
26952 TTTTTCAATGGAATATTTCGTT
1 TTTTT-AATGGAATATTTCATT
26974 TTT
1 TTT
26977 GTTTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.59
Consensus pattern (21 bp):
TTTTTAATGGAATATTTCATT
Found at i:28367 original size:12 final size:12
Alignment explanation
Indices: 28350--28394 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
28340 TAAAGTTGAT
28350 AAATTAAATTAA
1 AAATTAAATTAA
*
28362 AAATT-AATTGAT
1 AAATTAAATT-AA
28374 AAATTAAATTAA
1 AAATTAAATTAA
28386 AAATTAAAT
1 AAATTAAAT
28395 ATTTTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 4 0.14
12 21 0.72
13 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
AAATTAAATTAA
Found at i:28377 original size:24 final size:24
Alignment explanation
Indices: 28345--28392 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
28335 TTATCTAAAG
28345 TTGATAAATTAAATTAAAAATTAA
1 TTGATAAATTAAATTAAAAATTAA
28369 TTGATAAATTAAATTAAAAATTAA
1 TTGATAAATTAAATTAAAAATTAA
28393 ATATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
TTGATAAATTAAATTAAAAATTAA
Found at i:34126 original size:2 final size:2
Alignment explanation
Indices: 34119--34148 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34109 TATTTGTATC
34119 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
34149 GACAAAGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:35646 original size:209 final size:206
Alignment explanation
Indices: 35254--35668 Score: 787
Period size: 209 Copynumber: 2.0 Consensus size: 206
35244 CAGAGAGAAG
35254 AAACATTTTCTATTTTCTACCAAAGAAGAACCTAAATAGCATGAAGACAATACAACTAGCTGGAA
1 AAACATTTTCTATTTTCTACCAAAGAAGAACCTAAATAGCATGAAGACAATACAACTAGCTGGAA
35319 GCGCAATGGAAGCCAATGAGCATGGTAAATCAAAAGGTAAGATAAGATTTGAATGCATTACACAT
66 GCGCAATGGAAGCCAATGAGCATGGTAAATCAAAAGGTAAGATAAGATTTGAATGCATTACACAT
35384 CATGAACAGTCAATTGTATCCAGCTTTGAGTAAATTATCTGCCATTCTGGATCCCATATTTCCCA
131 CATGAACAGTCAATTGTATCCAGCTTTGAGTAAATTATCTGCCATTCTGGATCCCATATTTCCCA
35449 GCCCAATGAAT
196 GCCCAATGAAT
35460 AAACATTTTCTATTTTCTACACAAAGAAGAACCTAAATAGCATGAAGAACAATACAACTAGCTGG
1 AAACATTTTCTATTTTCTAC-CAAAGAAGAACCTAAATAGCATGAAG-ACAATACAACTAGCTGG
35525 AAGCGCAATGGAAGCCAAATGAGCATGGTAAATCAAAAGGTAAGATAAGATTTGAATGCATTACA
64 AAGCGCAATGGAAGCC-AATGAGCATGGTAAATCAAAAGGTAAGATAAGATTTGAATGCATTACA
35590 CATCATGAACAGTCAATTTGTATCCAGCTTTGAGTAAATTATCTGCCATT-TGGATCCCATATTT
128 CATCATGAACAGTCAA-TTGTATCCAGCTTTGAGTAAATTATCTGCCATTCTGGATCCCATATTT
35654 CCCAGCCCAATGAAT
192 CCCAGCCCAATGAAT
35669 CCAACATTCT
Statistics
Matches: 205, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
206 20 0.10
207 26 0.13
208 33 0.16
209 93 0.45
210 33 0.16
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (206 bp):
AAACATTTTCTATTTTCTACCAAAGAAGAACCTAAATAGCATGAAGACAATACAACTAGCTGGAA
GCGCAATGGAAGCCAATGAGCATGGTAAATCAAAAGGTAAGATAAGATTTGAATGCATTACACAT
CATGAACAGTCAATTGTATCCAGCTTTGAGTAAATTATCTGCCATTCTGGATCCCATATTTCCCA
GCCCAATGAAT
Found at i:36617 original size:57 final size:57
Alignment explanation
Indices: 36529--36642 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
36519 AAATAAGTTT
36529 AATTAAAATATTTATGGATATATCAGGTAATGTATCTAGAATTTGATTTCATTTAAA
1 AATTAAAATATTTATGGATATATCAGGTAATGTATCTAGAATTTGATTTCATTTAAA
*
36586 AATTAAAATATTTATGGATATA-CAAGGTAATGTATCTAGACTTTGATTTCATTTAAA
1 AATTAAAATATTTATGGATATATC-AGGTAATGTATCTAGAATTTGATTTCATTTAAA
36643 TATTTATGGA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 1 0.02
57 54 0.98
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (57 bp):
AATTAAAATATTTATGGATATATCAGGTAATGTATCTAGAATTTGATTTCATTTAAA
Found at i:39337 original size:24 final size:24
Alignment explanation
Indices: 39289--39343 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
39279 TAATTAAACT
*
39289 TAATTTTAAAATTATATTCATTAA
1 TAATTTTAAAATTATAATCATTAA
39313 TAATTTTAATAA-TATAAT-ATGTAA
1 TAATTTTAA-AATTATAATCAT-TAA
39337 T-ATTTTA
1 TAATTTTA
39344 TTACATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.29
24 18 0.64
25 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATTTTAAAATTATAATCATTAA
Found at i:39478 original size:2 final size:2
Alignment explanation
Indices: 39471--39502 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
39461 TATAATGCAC
39471 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39503 CAAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39600 original size:14 final size:14
Alignment explanation
Indices: 39581--39619 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
39571 AAAACAATAT
39581 AATTTATTTTATAA
1 AATTTATTTTATAA
*
39595 AATTTATTTTCTAA
1 AATTTATTTTATAA
*
39609 GATTTATTTTA
1 AATTTATTTTA
39620 GTGCATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (14 bp):
AATTTATTTTATAA
Found at i:45537 original size:24 final size:24
Alignment explanation
Indices: 45510--45555 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
45500 GTTAATTTGG
*
45510 TTAATTAATACCTGACCAAAATCT
1 TTAACTAATACCTGACCAAAATCT
45534 TTAACTAATACCTGACCAAAAT
1 TTAACTAATACCTGACCAAAAT
45556 TATTTTGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (24 bp):
TTAACTAATACCTGACCAAAATCT
Found at i:51790 original size:46 final size:46
Alignment explanation
Indices: 51737--51841 Score: 174
Period size: 46 Copynumber: 2.3 Consensus size: 46
51727 GCGTAGAATT
* *
51737 TGTCCCGAAGGACCACATATAACACATATGTTCTAAAGGACCACTA
1 TGTCCCGAAGGACCACATATAACACATATGTCCCAAAGGACCACTA
* *
51783 TGTCCCGAAGGACCACATATAGCACATATGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACATATAACACATATGTCCCAAAGGACCACTA
51829 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
51842 AACGTAGACC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (46 bp):
TGTCCCGAAGGACCACATATAACACATATGTCCCAAAGGACCACTA
Found at i:52668 original size:24 final size:20
Alignment explanation
Indices: 52611--52648 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52601 TTCCCATTGA
52611 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
52631 AGTGCATCCATGCATTCT
1 AGTGCATCGATGCATTCT
52649 TTAATAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:54375 original size:4 final size:4
Alignment explanation
Indices: 54366--54392 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
54356 TTCAACTATG
54366 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
54393 ACATGTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:55314 original size:30 final size:30
Alignment explanation
Indices: 55278--55484 Score: 405
Period size: 30 Copynumber: 6.9 Consensus size: 30
55268 GAAGAACCTA
55278 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
55308 TCCAGAGGTCATAAAGATCCTCGATAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
55338 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
55368 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
55398 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
55428 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
55458 TCCAGAGGTCATAAAGATCCTCGGTAA
1 TCCAGAGGTCATAAAGATCCTCGGTAA
55485 ACTATCCATA
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 175 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:59859 original size:30 final size:30
Alignment explanation
Indices: 59823--60029 Score: 414
Period size: 30 Copynumber: 6.9 Consensus size: 30
59813 GAAGAACCTA
59823 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
59853 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
59883 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
59913 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
59943 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
59973 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
60003 TCCAGAGGTCATAAAGATCCTCGGTAA
1 TCCAGAGGTCATAAAGATCCTCGGTAA
60030 ACTATCCATA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 177 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:62854 original size:18 final size:19
Alignment explanation
Indices: 62831--62880 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
62821 TTACTTCTTT
62831 ATTATTATATTTATT-TA-C
1 ATTATTATATTT-TTCTATC
*
62849 ATTATTAT-TTTTTCTATT
1 ATTATTATATTTTTCTATC
62867 ATTATTATATTTTT
1 ATTATTATATTTTT
62881 TCCTCCCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.07
17 5 0.18
18 16 0.57
19 5 0.18
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTATTATATTTTTCTATC
Found at i:63039 original size:141 final size:137
Alignment explanation
Indices: 62863--63127 Score: 440
Period size: 141 Copynumber: 1.9 Consensus size: 137
62853 TTATTTTTTC
* * *
62863 TATTATTATTATATTTTTTCCTCCCTCTTATATTTAGCTATTATATATATATGGTATTAATATTA
1 TATTATTATTATATATTTTCCTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATATTA
* *
62928 TTATATGTTTTTATTAACTTTATTTGTTTTACTTTATACGCTATTATTTTACAATTTTTTTTTAG
66 TTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTA-TTTAC-ATTTTTTTTTAG
62993 TTTTTCTAT
129 TTTTTCTAT
*
63002 TATTATATATATATATATTTTCCTCCCTCTCATATTTAGCTATCATATATATATGGTATTGATAT
1 TATTAT-TAT-TATATATTTTCCTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATAT
63067 TATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTACATTTTTTT
64 TATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTACATTTTTTT
63128 ATATATACAT
Statistics
Matches: 118, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
139 14 0.12
140 8 0.07
141 96 0.81
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (137 bp):
TATTATTATTATATATTTTCCTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATATTA
TTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTACATTTTTTTTTAGTT
TTTCTAT
Found at i:74791 original size:105 final size:105
Alignment explanation
Indices: 74609--75584 Score: 1700
Period size: 105 Copynumber: 9.3 Consensus size: 105
74599 TTTTACCCAA
74609 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
74674 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAGTTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
74714 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
74779 AAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
**
74819 AGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
74884 AAGGGACCGCTGGTTGTCAACAAACTTTTCTCAATTTCAA
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
74924 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
74989 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
75029 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
75094 AAGGGACCGCTGGTTGTCAACGAACATTTTTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
** *
75134 AGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
75199 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
75239 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
75304 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
* ** * *
75344 AACCAATTTCTGCTTCACAACAAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
75409 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTTAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
* *
75449 AGCCAATTTTAACTTCACAACGAAGGATGTTGGACTCCAGACAACGCAAGTTCAAACTTCACGAC
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC-AACTTCACGAC
* *
75514 GAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAG
65 GAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAG
** * *
75556 AGCTCGTTTTCAACTTCACGACGAGGGAT
1 AGC-CAATTTCAACTTCACAACGAAGGAT
75585 TTCGTGCTCG
Statistics
Matches: 828, Mismatches: 40, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
105 754 0.91
106 37 0.04
107 17 0.02
108 20 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (105 bp):
AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
Found at i:77391 original size:142 final size:141
Alignment explanation
Indices: 77123--77391 Score: 477
Period size: 142 Copynumber: 1.9 Consensus size: 141
77113 TTATTTTTTC
* *
77123 TATTATTATTATATATTTTTTCCTCCCTCTTATATTTAGCTATTATATATATATGGTATTAATAT
1 TATTATTATTATATATTTTTTCCTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATAT
* *
77188 TATTATATGTTTTTATTAACTTTATTTGTTTTACTTTATACGCTATTATTTTACAATTTTTTTTT
66 TATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTTACAATTTTTTTTT
77253 AGTTTTTCTAT
131 AGTTTTTCTAT
*
77264 TATTATTATATATATATTTTTTCCTCCCTCTCATATTTAGCTATCATATATATATGGTATTGATA
1 TATTATTAT-TATATATTTTTTCCTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATA
77329 TTATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTTAC-ATTTTTTT
65 TTATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTTACAATTTTTTT
77392 ATATATACAT
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
141 17 0.14
142 105 0.86
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (141 bp):
TATTATTATTATATATTTTTTCCTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATAT
TATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTTACAATTTTTTTTT
AGTTTTTCTAT
Found at i:84590 original size:60 final size:60
Alignment explanation
Indices: 84526--84659 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 60
84516 GTCAGGTGAT
* * * * * * *
84526 CATTTTGTAACTTTTAATAGTAGAGGGACTCAACAAAGTAACT-TCCTATAGTCAGTTAAC
1 CATTTTGTAACTTTTAATAGTAAAAGAACTCAAAAAAATAA-TATCCTATAATCAGATAAC
*
84586 CATTTTGTAACTTTTAATAGTAAAAGAACTCAAAAAAATAATATCCTATAATCAGATGAC
1 CATTTTGTAACTTTTAATAGTAAAAGAACTCAAAAAAATAATATCCTATAATCAGATAAC
84646 CATTTGTGT-ACTTT
1 CATTT-TGTAACTTT
84660 ACCCTAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.02
60 60 0.94
61 3 0.05
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAGTAAAAGAACTCAAAAAAATAATATCCTATAATCAGATAAC
Found at i:84824 original size:141 final size:141
Alignment explanation
Indices: 84570--84852 Score: 521
Period size: 141 Copynumber: 2.0 Consensus size: 141
84560 AAAGTAACTT
* *
84570 CCTATAGTCAGTTAACCATTTTGTAACTTTTAATAGTAAAAGAACTCAAAAAAATAATATCCTAT
1 CCTATAGTCAGTTAACCATTTTATAACTTTTAATAGTAAAAAAACTCAAAAAAATAATATCCTAT
*
84635 AATCAGATGACCATTTGTGTACTTTACCCTAAATATAAATATGTATGATGGGTATACAAAAATAA
66 AATCAGAGGACCATTTGTGTACTTTACCCTAAATATAAATATGTATGATGGGTATACAAAAATAA
84700 ATGATTAATTA
131 ATGATTAATTA
* *
84711 CCTATAGTCAGTTGACCATTTTATAACTTTTAATAGTAAAAAAATTCAAAAAAATAATATCCTAT
1 CCTATAGTCAGTTAACCATTTTATAACTTTTAATAGTAAAAAAACTCAAAAAAATAATATCCTAT
84776 AATCAGAGGACCATTTGTGTACTTTACCCTAAATATAAATATGTATGATGGGTATACAAAAATAA
66 AATCAGAGGACCATTTGTGTACTTTACCCTAAATATAAATATGTATGATGGGTATACAAAAATAA
84841 ATGATTAATTA
131 ATGATTAATTA
84852 C
1 C
84853 AGATAATAGC
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 137 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (141 bp):
CCTATAGTCAGTTAACCATTTTATAACTTTTAATAGTAAAAAAACTCAAAAAAATAATATCCTAT
AATCAGAGGACCATTTGTGTACTTTACCCTAAATATAAATATGTATGATGGGTATACAAAAATAA
ATGATTAATTA
Found at i:85668 original size:24 final size:24
Alignment explanation
Indices: 85641--85703 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
85631 CAGAAGGGCG
*
85641 TTGAATGTTG-AAGCCCCGAGAA-TT
1 TTGAATGTTGCAAGCCCC-A-AAGCT
85665 TTGAATGTTGCAAGCCCCAAAGCT
1 TTGAATGTTGCAAGCCCCAAAGCT
*
85689 TTGAATGTTGTAAGC
1 TTGAATGTTGCAAGC
85704 ACTAAACCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 26 0.74
25 7 0.20
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (24 bp):
TTGAATGTTGCAAGCCCCAAAGCT
Found at i:85714 original size:24 final size:24
Alignment explanation
Indices: 85664--85715 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
85654 CCCCGAGAAT
* *
85664 TTTGAATGTTGCAAGCCCCAAAGC
1 TTTGAATGTTGCAAGCACCAAACC
* *
85688 TTTGAATGTTGTAAGCACTAAACC
1 TTTGAATGTTGCAAGCACCAAACC
85712 TTTG
1 TTTG
85716 TGTTTCACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (24 bp):
TTTGAATGTTGCAAGCACCAAACC
Found at i:96592 original size:15 final size:15
Alignment explanation
Indices: 96574--96655 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
96564 TTCCGGAAAA
96574 TGAATTACTGGAATT
1 TGAATTACTGGAATT
96589 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
96604 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
96619 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
96634 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
96648 TGAATTAC
1 TGAATTAC
96656 ATTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:96608 original size:30 final size:30
Alignment explanation
Indices: 96574--96655 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
96564 TTCCGGAAAA
**
96574 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
96604 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
96634 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
96656 ATTTCTGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:96617 original size:45 final size:44
Alignment explanation
Indices: 96568--96655 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 44
96558 TTGGTTTTCC
**
96568 GGAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACT
96613 GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
96656 ATTTCTGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.34
45 27 0.66
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACT
Found at i:96661 original size:20 final size:20
Alignment explanation
Indices: 96638--96687 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
96628 GGAATTTGAA
96638 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
96658 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
96678 TTCTGGAAAA
1 TTCTGGAAAA
96688 CATCTGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:96894 original size:28 final size:29
Alignment explanation
Indices: 96856--96954 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 29
96846 TACTAAAAAT
96856 ATTATTGAAATATATAAATAATATTATT-C
1 ATTATT-AAATATATAAATAATATTATTAC
* *
96885 ATTATTAAATATATAAA-AAAATTATTAT
1 ATTATTAAATATATAAATAATATTATTAC
* * *
96913 ATTATTAAA-ATAAAATATAATA-TCTTAT
1 ATTATTAAATATATAA-ATAATATTATTAC
96941 ATTATTATAATATA
1 ATTATTA-AATATA
96955 ATTGATTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 13 0.22
28 33 0.55
29 11 0.18
30 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
ATTATTAAATATATAAATAATATTATTAC
Found at i:96993 original size:22 final size:23
Alignment explanation
Indices: 96968--97011 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
96958 GATTATTTTA
96968 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
96990 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
97012 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:97016 original size:22 final size:22
Alignment explanation
Indices: 96972--97028 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
96962 ATTTTATATA
* *
96972 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
96993 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
97015 ATATTTTAAATATT
1 ATATTATAAATATT
97029 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:97326 original size:43 final size:42
Alignment explanation
Indices: 97217--97337 Score: 197
Period size: 42 Copynumber: 2.9 Consensus size: 42
97207 ATGAATTACA
*
97217 TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAACATT
* *
97259 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAACATT
*
97301 TTCCGGAAAAACAAATTACGTGAAACAAACACAGGAA
1 TTCCGG-AAAACGAATTACGTGAAACAAACACAGGAA
97338 TTCGGGGAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
42 45 0.62
43 28 0.38
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAACATT
Found at i:98968 original size:31 final size:31
Alignment explanation
Indices: 98894--98971 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
98884 TCAAACGGTT
*
98894 GGGGACCATTTTGCAAACAGACAAAATGTTG
1 GGGGACCATATTGCAAACAGACAAAATGTTG
* * *
98925 GTGGACCATATTGCAAACGGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACAAAATGTTG
**
98956 GGGGACTGTATTGCAA
1 GGGGACCATATTGCAA
98972 GTTTTAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACAAAATGTTG
Found at i:99346 original size:19 final size:19
Alignment explanation
Indices: 99301--99348 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
99291 GAATTTTTTA
*
99301 ATATTTTTAATTAAATCTT
1 ATATTTTTAATTAAACCTT
99320 ATAATTTTTAATTAAACCTT
1 AT-ATTTTTAATTAAACCTT
99340 CAT-TTTTTA
1 -ATATTTTTA
99349 TTATTCTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTTTTAATTAAACCTT
Found at i:105966 original size:30 final size:31
Alignment explanation
Indices: 105907--105976 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
105897 ATCCATTCAT
105907 GGTGACAATATCGATCGACACCCTAACTTCC
1 GGTGACAATATCGATCGACACCCTAACTTCC
*
105938 GGTGACAATATCGATCGACA-CGTAACTTCC
1 GGTGACAATATCGATCGACACCCTAACTTCC
**
105968 CATGACAAT
1 GGTGACAAT
105977 TTGAAGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 16 0.44
31 20 0.56
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (31 bp):
GGTGACAATATCGATCGACACCCTAACTTCC
Found at i:108003 original size:41 final size:41
Alignment explanation
Indices: 107958--108079 Score: 120
Period size: 41 Copynumber: 3.2 Consensus size: 41
107948 TATTTCGAGT
107958 TCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAG
1 TCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAG
* * * * *
107999 TCGAGTTG----TGCTTACTTTTA------AAGTTTTCGAG
1 TCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAG
108030 TTCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAG
1 -TCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAG
108072 TCGAGTTG
1 TCGAGTTG
108080 TGCTTACTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 22
0.65 0.11 0.24
Matches are distributed among these distances:
31 9 0.15
32 8 0.13
36 9 0.15
37 9 0.15
41 16 0.27
42 9 0.15
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.44
Consensus pattern (41 bp):
TCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAG
Found at i:108027 original size:73 final size:73
Alignment explanation
Indices: 107950--108109 Score: 320
Period size: 73 Copynumber: 2.2 Consensus size: 73
107940 TAATATTATA
107950 TTTCGAGTTCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGTGCTTACT
1 TTTCGAGTTCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGTGCTTACT
108015 TTTAAAGT
66 TTTAAAGT
108023 TTTCGAGTTCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGTGCTTACT
1 TTTCGAGTTCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGTGCTTACT
108088 TTTAAAGT
66 TTTAAAGT
108096 TTTCGAGTTCGAGT
1 TTTCGAGTTCGAGT
108110 CGAGCTCAGC
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 87 1.00
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.45
Consensus pattern (73 bp):
TTTCGAGTTCGAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGTGCTTACT
TTTAAAGT
Found at i:109325 original size:12 final size:13
Alignment explanation
Indices: 109303--109327 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109293 ATTGCCCTTC
109303 TTGCTTTTTTTTT
1 TTGCTTTTTTTTT
109316 TTGCTTTTTTTT
1 TTGCTTTTTTTT
109328 AGTTTGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (13 bp):
TTGCTTTTTTTTT
Found at i:109763 original size:30 final size:31
Alignment explanation
Indices: 109705--109763 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
109695 ACCCCAAAAA
*
109705 TTAAAAAAAAAAATCTGACTCGATCCCGAAT
1 TTAAAAAAAAAAATCTGACTCGACCCCGAAT
*
109736 TTAAAAAAAAAACTC-GAC-CGGACCCCGA
1 TTAAAAAAAAAAATCTGACTC-GACCCCGA
109764 CCCGAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.04
30 10 0.40
31 14 0.56
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.17
Consensus pattern (31 bp):
TTAAAAAAAAAAATCTGACTCGACCCCGAAT
Found at i:111793 original size:2 final size:2
Alignment explanation
Indices: 111786--111820 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
111776 TCCCTCCCAA
*
111786 CT CT CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
111821 CCCCACCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:116853 original size:44 final size:44
Alignment explanation
Indices: 116790--116881 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
116780 GTATTGAATC
*
116790 AGAGGAAATATGCTTTGGAGTTAGCTGACGATACACGGATAAGG
1 AGAGGAAATATGCTTTGGAGTTAGCTGACGATACACGGACAAGG
* *
116834 AGAGGAAATATGCTTTGGAGTTAGTTGACGATACATGGACAAGG
1 AGAGGAAATATGCTTTGGAGTTAGCTGACGATACACGGACAAGG
116878 AGAG
1 AGAG
116882 CCAAAACTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.23
Consensus pattern (44 bp):
AGAGGAAATATGCTTTGGAGTTAGCTGACGATACACGGACAAGG
Found at i:118638 original size:2 final size:2
Alignment explanation
Indices: 118631--118656 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
118621 TCAATTTATC
118631 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
118657 TATTTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120426 original size:60 final size:62
Alignment explanation
Indices: 120285--120432 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 62
120275 ATTGGTTCTT
* * * *
120285 AAACTTTTGAGTATTCCAATTTCAT-CCTCAAACTATGACTCTCATTCTAAATTAATCTTCA
1 AAACTTTTGAATATTCAAATTTCATCCCTCAAACTATGACCCTCATTCTAAATTAATCTCCA
* * * * *
120346 AAA-TTTTGAACAGTCTAATTTCATCCCT-AAATTATGACCCTCTTTCTAAATTAATC-CCA
1 AAACTTTTGAATATTCAAATTTCATCCCTCAAACTATGACCCTCATTCTAAATTAATCTCCA
*
120405 AAACTTTTAAATATTCAAATTTCATCCC
1 AAACTTTTGAATATTCAAATTTCATCCC
120433 CAAGTTCATC
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
59 5 0.07
60 62 0.85
61 6 0.08
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (62 bp):
AAACTTTTGAATATTCAAATTTCATCCCTCAAACTATGACCCTCATTCTAAATTAATCTCCA
Found at i:130806 original size:32 final size:34
Alignment explanation
Indices: 130766--130843 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 34
130756 TTAATTATTT
*
130766 AAATTTATTTTTTAATATAATTA-TTTAACTTTC
1 AAATTTATTTTTTAATATAATCATTTTAACTTTC
** *
130799 AAA-TTA-TTCCTAATTTAATCATTTTAACTTTC
1 AAATTTATTTTTTAATATAATCATTTTAACTTTC
130831 AAATTTATTTTTT
1 AAATTTATTTTTT
130844 TATTTTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
31 11 0.31
32 16 0.44
33 6 0.17
34 3 0.08
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (34 bp):
AAATTTATTTTTTAATATAATCATTTTAACTTTC
Found at i:132217 original size:23 final size:23
Alignment explanation
Indices: 132191--132327 Score: 193
Period size: 23 Copynumber: 6.0 Consensus size: 23
132181 CACCACAACT
*
132191 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
132214 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCG
*
132237 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
132260 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCG
* *
132283 CGTAGAATTGCACCGAAGTGTCG
1 CGTAGAAATGCACCGAAGTGCCG
*
132306 CGTAGAAATGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
132328 ATATAATGTC
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:132266 original size:46 final size:46
Alignment explanation
Indices: 132199--132328 Score: 251
Period size: 46 Copynumber: 2.8 Consensus size: 46
132189 CTCGTATAAA
132199 TGCACCGAAGTGCCGCGTAGAAATGCACCGTAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAATGCACCGTAGTGCCACGTAGAAT
132245 TGCACCGAAGTGCCGCGTAGAAATGCACCGTAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAATGCACCGTAGTGCCACGTAGAAT
*
132291 TGCACCGAAGTGTCGCGTAGAAATGCACCGTAGTGCCA
1 TGCACCGAAGTGCCGCGTAGAAATGCACCGTAGTGCCA
132329 TATAATGTCC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (46 bp):
TGCACCGAAGTGCCGCGTAGAAATGCACCGTAGTGCCACGTAGAAT
Found at i:133283 original size:23 final size:23
Alignment explanation
Indices: 133257--133301 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
133247 CACCACAGCT
*
133257 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
133280 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
133302 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:134212 original size:2 final size:2
Alignment explanation
Indices: 134205--134246 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
134195 ATTGCATTTC
*
134205 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134247 CCTCAAGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:140128 original size:25 final size:24
Alignment explanation
Indices: 140100--140176 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
140090 GGAGAAAACG
140100 ACAAAT-TTCATATATTTTGAACTGA
1 ACAAATCTT-ATA-ATTTTGAACTGA
140125 AC-AATGCTTATAATTTTGAACTGA
1 ACAAAT-CTTATAATTTTGAACTGA
* *
140149 AC-AATGCTTGTAATTTTGAACTAA
1 ACAAAT-CTTATAATTTTGAACTGA
140173 ACAA
1 ACAA
140177 TGCATATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
24 39 0.83
25 6 0.13
26 2 0.04
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (24 bp):
ACAAATCTTATAATTTTGAACTGA
Found at i:140140 original size:24 final size:24
Alignment explanation
Indices: 140113--140184 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
140103 AATTTCATAT
140113 ATTTTGAACTGAACAATGCTTATA
1 ATTTTGAACTGAACAATGCTTATA
*
140137 ATTTTGAACTGAACAATGCTTGTA
1 ATTTTGAACTGAACAATGCTTATA
* *
140161 ATTTTGAACTAAACAATGCATATA
1 ATTTTGAACTGAACAATGCTTATA
140185 TTATACCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (24 bp):
ATTTTGAACTGAACAATGCTTATA
Found at i:140318 original size:20 final size:20
Alignment explanation
Indices: 140293--140333 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
140283 ATAATGATTT
140293 ATATAAGTTATAATAT-TTAA
1 ATATAA-TTATAATATATTAA
*
140313 ATATAATTGTAATATATTAA
1 ATATAATTATAATATATTAA
140333 A
1 A
140334 GTAAACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATAATTATAATATATTAA
Found at i:140832 original size:2 final size:2
Alignment explanation
Indices: 140825--140867 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
140815 TATTTAGATC
140825 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
140867 T
1 T
140868 TAAAGTGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:144574 original size:27 final size:27
Alignment explanation
Indices: 144536--144590 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
144526 AGATTACGAT
144536 TGGTTTATTAGTGCATACCAAAACAAA
1 TGGTTTATTAGTGCATACCAAAACAAA
*
144563 TGGTTTATTAGTGCATACCACAACAAA
1 TGGTTTATTAGTGCATACCAAAACAAA
144590 T
1 T
144591 ACTCATAGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
TGGTTTATTAGTGCATACCAAAACAAA
Found at i:146722 original size:31 final size:32
Alignment explanation
Indices: 146687--146769 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 32
146677 ATGACGGTAG
* * **
146687 AGTGACCATTTTGTTTA-AAATCGATAATGTT
1 AGTGACCAATTTGTTTACAAATAGATAACATT
*
146718 AGTGACTAATTTG-TTACAAATAGATAACATT
1 AGTGACCAATTTGTTTACAAATAGATAACATT
146749 AGTGACCAATTTG-TTACAAAT
1 AGTGACCAATTTGTTTACAAAT
146770 CAATAAAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 3 0.07
31 42 0.93
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (32 bp):
AGTGACCAATTTGTTTACAAATAGATAACATT
Found at i:146790 original size:31 final size:31
Alignment explanation
Indices: 146720--146791 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
146710 ATAATGTTAG
* * * *
146720 TGACTAATTTGTTACAAATAGATAACATTAG
1 TGACCAATTTGTTACAAATAGATAAAACTAA
146751 TGACCAATTTGTTACAAATCA-ATAAAACTAA
1 TGACCAATTTGTTACAAAT-AGATAAAACTAA
*
146782 TGATCAATTT
1 TGACCAATTT
146792 ATTATTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (31 bp):
TGACCAATTTGTTACAAATAGATAAAACTAA
Found at i:149664 original size:110 final size:104
Alignment explanation
Indices: 149428--149891 Score: 564
Period size: 110 Copynumber: 4.4 Consensus size: 104
149418 TGTTTCAATT
* * * * *
149428 GATCATA-TCAGTCTTGTTTCTGGATTTACTATTTGTTGCAAAATTATTAGTTGGTTGTTCTTTT
1 GATCATATTCAGTCTTGCTTCTGGTTTTACTGTTTGTTGC-AAA--ATTA-TTGGTTG---GTTA
* *
149492 TTCTTTTCTTTTCTTTTTAAATTTAGTTTATTTGATTGTCTGTTTCTCTA
59 TT-TTTT-TTTTC--TTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTC
* *
149542 GATCATATTCAGTCTTGCTTCTGGTTTTAATGTTTGTTGCAAAATTATTGGTTCGTTATTCTTTT
1 GATCATATTCAGTCTTGCTTCTGGTTTTACTGTTTGTTGCAAAATTATTGGTTGGTTA----TTT
*
149607 TTTCTTCTTCTTTAAATTTAGTTTATTTGATTATCTGCTTCTCTC
62 TTT-TT-TTCTTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTC
149652 GATCATATTCAGTCTTGCTTCTGGTTTTACTGTTTGTTGCAAAATTATTGGTTGGTTA--TTTTT
1 GATCATATTCAGTCTTGCTTCTGGTTTTACTGTTTGTTGCAAAATTATTGGTTGGTTATTTTTTT
*
149715 TTTATTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTC
66 TTTCTTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTC
* *
149754 GATCATATTCAGTTTTGCTTCTGGTTTTACTGTTTTTTGCAAAATTATTGGTT-G--ATTTTTTT
1 GATCATATTCAGTCTTGCTTCTGGTTTTACTGTTTGTTGCAAAATTATTGGTTGGTTATTTTTTT
* * *
149816 TTGCTTTAAATCTAGTTTATTTGATTGTTTGCTTCTCTC
66 TTTCTTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTC
*
149855 GATCATATTCGGTCTTGCTTCTGGTTTTA-TGGTTTGT
1 GATCATATTCAGTCTTGCTTCTGGTTTTACT-GTTTGT
149892 CGAAAATGAA
Statistics
Matches: 318, Mismatches: 23, Indels: 31
0.85 0.06 0.08
Matches are distributed among these distances:
99 1 0.00
100 1 0.00
101 73 0.23
102 87 0.27
103 2 0.01
104 4 0.01
108 2 0.01
110 88 0.28
111 13 0.04
112 9 0.03
114 10 0.03
115 28 0.09
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.56
Consensus pattern (104 bp):
GATCATATTCAGTCTTGCTTCTGGTTTTACTGTTTGTTGCAAAATTATTGGTTGGTTATTTTTTT
TTTCTTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTC
Found at i:149794 original size:102 final size:102
Alignment explanation
Indices: 149507--149891 Score: 558
Period size: 102 Copynumber: 3.7 Consensus size: 102
149497 TTCTTTTCTT
* * *
149507 TTTAAATTTAGTTTATTTGATTGTCTGTTTCTCTAGATCATATTCAGTCTTGCTTCTGGTTTTAA
1 TTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTCGATCATATTCAGTCTTGCTTCTGGTTTTAC
*
149572 TGTTTGTTGCAAAATTATTGGTTCGTTATTCTTTTTTTCTTCTTC
66 TGTTTGTTGCAAAATTATTGGTTGGTTA------TTTT-TT-TTC
*
149617 TTTAAATTTAGTTTATTTGATTATCTGCTTCTCTCGATCATATTCAGTCTTGCTTCTGGTTTTAC
1 TTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTCGATCATATTCAGTCTTGCTTCTGGTTTTAC
*
149682 TGTTTGTTGCAAAATTATTGGTTGGTTATTTTTTTTA
66 TGTTTGTTGCAAAATTATTGGTTGGTTATTTTTTTTC
*
149719 TTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTCGATCATATTCAGTTTTGCTTCTGGTTTTAC
1 TTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTCGATCATATTCAGTCTTGCTTCTGGTTTTAC
* * *
149784 TGTTTTTTGCAAAATTATTGGTTGATT-TTTTTTTGC
66 TGTTTGTTGCAAAATTATTGGTTGGTTATTTTTTTTC
* * *
149820 TTTAAATCTAGTTTATTTGATTGTTTGCTTCTCTCGATCATATTCGGTCTTGCTTCTGGTTTTA-
1 TTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTCGATCATATTCAGTCTTGCTTCTGGTTTTAC
149884 TGGTTTGT
66 T-GTTTGT
149892 CGAAAATGAA
Statistics
Matches: 257, Mismatches: 17, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
100 1 0.00
101 72 0.28
102 90 0.35
103 2 0.01
104 4 0.02
110 88 0.34
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.56
Consensus pattern (102 bp):
TTTAAATTTAGTTTATTTGATTGTCTGCTTCTCTCGATCATATTCAGTCTTGCTTCTGGTTTTAC
TGTTTGTTGCAAAATTATTGGTTGGTTATTTTTTTTC
Found at i:159032 original size:20 final size:20
Alignment explanation
Indices: 159007--159046 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
158997 AGCAACAGAA
*
159007 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
159027 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
159047 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:159088 original size:20 final size:20
Alignment explanation
Indices: 159060--159098 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
159050 TAATAGAATA
* *
159060 AAAATTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
159080 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
159099 ATTTAATTTA
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:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:161333 original size:20 final size:20
Alignment explanation
Indices: 161308--161347 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
161298 AGCAACAGAA
161308 TAAAAATGATTCTATCTAAT
1 TAAAAATGATTCTATCTAAT
161328 TAAAAATGATTCTATCTAAT
1 TAAAAATGATTCTATCTAAT
161348 AACTAATAGA
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:0.05, T:0.40
Consensus pattern (20 bp):
TAAAAATGATTCTATCTAAT
Found at i:161389 original size:20 final size:20
Alignment explanation
Indices: 161361--161399 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
161351 TAATAGAATA
* *
161361 AAAATTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
161381 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
161400 ATTTAATTTA
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:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:167469 original size:27 final size:27
Alignment explanation
Indices: 167435--167488 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
167425 TATAAATTCT
167435 TTTTTACTTATTTCGTTATTATTTTAA
1 TTTTTACTTATTTCGTTATTATTTTAA
*
167462 TTTTTACTTATTTTGTTATTATTTTAA
1 TTTTTACTTATTTCGTTATTATTTTAA
167489 GGTTGAACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (27 bp):
TTTTTACTTATTTCGTTATTATTTTAA
Done.