Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009421.1 Kokia drynarioides strain JFW-HI SEQ_124128, 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: 199302
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 138 characters in sequence are not A, C, G, or T
Found at i:4737 original size:2 final size:2
Alignment explanation
Indices: 4689--4719 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4679 CCCCCCCTCC
4689 CT CT CT CT CT CT 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 C
4720 ACCATATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9353 original size:10 final size:9
Alignment explanation
Indices: 9320--9354 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
9310 AATCCATGTA
9320 ATTTTATTTT
1 ATTTT-TTTT
9330 ATTTTTTTT
1 ATTTTTTTT
9339 ATTTTTTTT
1 ATTTTTTTT
9348 ACTTTTT
1 A-TTTTT
9355 AAATTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.58
10 10 0.42
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:9360 original size:18 final size:19
Alignment explanation
Indices: 9319--9360 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
9309 TAATCCATGT
* *
9319 AATTTTATTTTATTTTTTT
1 AATTTTATTTTACTTTTTA
*
9338 TATTTT-TTTTACTTTTTA
1 AATTTTATTTTACTTTTTA
9356 AATTT
1 AATTT
9361 CAAAATTTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
AATTTTATTTTACTTTTTA
Found at i:9545 original size:27 final size:26
Alignment explanation
Indices: 9515--9565 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
9505 TTCAATTTTA
9515 AAATTTAAAAAATAAGAAAA-AAAAACT
1 AAATTTAAAAAA-AA-AAAAGAAAAACT
9542 AAATTTAAAAAAAAAAAAGAAAAA
1 AAATTTAAAAAAAAAAAAGAAAAA
9566 TAAGAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.17
26 7 0.30
27 12 0.52
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (26 bp):
AAATTTAAAAAAAAAAAAGAAAAACT
Found at i:9576 original size:31 final size:31
Alignment explanation
Indices: 9521--9582 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
9511 TTTAAAATTT
*
9521 AAAAAATAAGAAAAAAAAACTAAATT-TAAA
1 AAAAAAAAAGAAAAAAAAACTAAATTATAAA
* *
9551 AAAAAAAAAGAAAAATAAGAGTAAATTATAAA
1 AAAAAAAAAGAAAAA-AAAACTAAATTATAAA
9583 TAAATTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 14 0.52
31 9 0.33
32 4 0.15
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (31 bp):
AAAAAAAAAGAAAAAAAAACTAAATTATAAA
Found at i:11017 original size:2 final size:2
Alignment explanation
Indices: 11010--11036 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11000 GGAGAGGTTC
11010 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11037 AACTAAGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16899 original size:40 final size:40
Alignment explanation
Indices: 16864--16994 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
16854 ACAGTGTTAC
* * * *
16864 CAGTGTCACCGCCAGTTCAATTGTATTATCGCAGTGTTTA
1 CAGTGTCACTGCCAGTTCAACTGTAATATCGCAGAGTTTA
*
16904 CAGTGTCACTGCCAGTTC-AGTGATAATATCGCAGAGTTTA
1 CAGTGTCACTGCCAGTTCAACTG-TAATATCGCAGAGTTTA
* *
16944 CAGTGTCACTGTCAGTTCAACAGTAATATCGCAGAGTTTA
1 CAGTGTCACTGCCAGTTCAACTGTAATATCGCAGAGTTTA
16984 CAGTGTCACTG
1 CAGTGTCACTG
16995 TTAGTTCATA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.04
40 77 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (40 bp):
CAGTGTCACTGCCAGTTCAACTGTAATATCGCAGAGTTTA
Found at i:18199 original size:33 final size:33
Alignment explanation
Indices: 18159--18224 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
18149 GAGCAAGGGG
*
18159 TTAAAAGAAAGGAAATTTAGCCTTCTTGTTGTA
1 TTAAAAGAAAGGAAATTTAGCATTCTTGTTGTA
*
18192 TTAAAAGAAAGGAAATTTATCATTCTTGTTGTA
1 TTAAAAGAAAGGAAATTTAGCATTCTTGTTGTA
18225 AGTACTACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (33 bp):
TTAAAAGAAAGGAAATTTAGCATTCTTGTTGTA
Found at i:18719 original size:45 final size:45
Alignment explanation
Indices: 18650--18739 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
18640 CCTTAATAAG
18650 TCTATTTTCAAAAGATAGACGGAAACATCATTTGATCTCTTTACA
1 TCTATTTTCAAAAGATAGACGGAAACATCATTTGATCTCTTTACA
*
18695 TCTATTTTCAAAAGATAGATGGAAACATCATTTGATCTCTTTACA
1 TCTATTTTCAAAAGATAGACGGAAACATCATTTGATCTCTTTACA
18740 AAAAGATAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (45 bp):
TCTATTTTCAAAAGATAGACGGAAACATCATTTGATCTCTTTACA
Found at i:19175 original size:24 final size:26
Alignment explanation
Indices: 19148--19195 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
19138 AGAGAAATGT
19148 AAATG-TGATATATGA-A-ATTATGAG
1 AAATGATGA-ATATGAGAGATTATGAG
19172 AAATGATGAATATGAGAGATTATG
1 AAATGATGAATATGAGAGATTATG
19196 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATGAATATGAGAGATTATGAG
Found at i:19288 original size:22 final size:22
Alignment explanation
Indices: 19256--19401 Score: 220
Period size: 22 Copynumber: 6.5 Consensus size: 22
19246 AAACGCTAGC
* *
19256 GTGCTTTTGTTCAGCATTGTGT
1 GTGCTTCTGTTCAGCACTGTGT
19278 GTGCTTCTGTTCAGCACTGTGT
1 GTGCTTCTGTTCAGCACTGTGT
19300 GTGCTTCTGTTCAGCACTGTGT
1 GTGCTTCTGTTCAGCACTGTGT
*
19322 GTGTTTCTGTTACCCAGCACTGTGT
1 GTGCTTCTGTT---CAGCACTGTGT
19347 GTGCTTCTGTTCAGCACTGTGT
1 GTGCTTCTGTTCAGCACTGTGT
*
19369 GTGCTTCTGTTCAGCATTGTGT
1 GTGCTTCTGTTCAGCACTGTGT
*
19391 GTACTTCTGTT
1 GTGCTTCTGTT
19402 ACCCAGCTTC
Statistics
Matches: 115, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
22 94 0.82
25 21 0.18
ACGTcount: A:0.10, C:0.21, G:0.26, T:0.44
Consensus pattern (22 bp):
GTGCTTCTGTTCAGCACTGTGT
Found at i:19378 original size:69 final size:69
Alignment explanation
Indices: 19267--19487 Score: 284
Period size: 69 Copynumber: 3.3 Consensus size: 69
19257 TGCTTTTGTT
* *
19267 CAGCATTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGTTTCTGT
1 CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGT
19332 TACC
66 TACC
* *
19336 CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTCAGCATTGTGTGTACTTCTGT
1 CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGT
19401 TA-C
66 TACC
*
19404 C--CA--------GCTTCTGTTCAACACTGTGTGTGCTTCTGTTACCCAGCACTGTGTGTGCTTC
1 CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTT---CAGCACTGTGTGTGCTTC
19459 TGTTACC
63 TGTTACC
*
19466 CAGCACTGTGTATGCTTCTGTT
1 CAGCACTGTGTGTGCTTCTGTT
19488 TCCCCAGCAC
Statistics
Matches: 131, Mismatches: 7, Indels: 25
0.80 0.04 0.15
Matches are distributed among these distances:
58 30 0.23
61 21 0.16
62 2 0.02
64 2 0.02
66 2 0.02
68 2 0.02
69 63 0.48
72 9 0.07
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (69 bp):
CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGT
TACC
Found at i:19426 original size:36 final size:36
Alignment explanation
Indices: 19371--19444 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
19361 CACTGTGTGT
* *
19371 GCTTCTGTTCAGCATTGTGTGTACTTCTGTTACCCA
1 GCTTCTGTTCAACACTGTGTGTACTTCTGTTACCCA
*
19407 GCTTCTGTTCAACACTGTGTGTGCTTCTGTTACCCA
1 GCTTCTGTTCAACACTGTGTGTACTTCTGTTACCCA
19443 GC
1 GC
19445 ACTGTGTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (36 bp):
GCTTCTGTTCAACACTGTGTGTACTTCTGTTACCCA
Found at i:19452 original size:25 final size:25
Alignment explanation
Indices: 19419--19498 Score: 133
Period size: 25 Copynumber: 3.2 Consensus size: 25
19409 TTCTGTTCAA
19419 CACTGTGTGTGCTTCTGTTACCCAG
1 CACTGTGTGTGCTTCTGTTACCCAG
19444 CACTGTGTGTGCTTCTGTTACCCAG
1 CACTGTGTGTGCTTCTGTTACCCAG
* *
19469 CACTGTGTATGCTTCTGTTTCCCCAG
1 CACTGTGTGTGCTTCTG-TTACCCAG
19495 CACT
1 CACT
19499 TATGTACCTC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
25 41 0.79
26 11 0.21
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.36
Consensus pattern (25 bp):
CACTGTGTGTGCTTCTGTTACCCAG
Found at i:19511 original size:50 final size:50
Alignment explanation
Indices: 19419--19513 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
19409 TTCTGTTCAA
* * * *
19419 CACTGTGTGTGCTTCTGTTACCCAGCACTGTGTGTGCTTCTGTTACCCAG
1 CACTGTGTATGCTTCTGTTACCCAGCACTGTATGTACCTCTGTTACCCAG
*
19469 CACTGTGTATGCTTCTGTTTCCCCAGCACT-TATGTACCTCTGTTA
1 CACTGTGTATGCTTCTG-TTACCCAGCACTGTATGTACCTCTGTTA
19514 AGTACTTCGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 28 0.72
51 11 0.28
ACGTcount: A:0.14, C:0.28, G:0.20, T:0.38
Consensus pattern (50 bp):
CACTGTGTATGCTTCTGTTACCCAGCACTGTATGTACCTCTGTTACCCAG
Found at i:25209 original size:86 final size:86
Alignment explanation
Indices: 25109--25274 Score: 278
Period size: 86 Copynumber: 1.9 Consensus size: 86
25099 CAACAATTTG
* *
25109 TTTGAATTTATTTATCCTTATTAAAAGTAATTAAAACTGAAAAACTCATGTATTCTTCTGATGAT
1 TTTGAATTTATTTATCCTTATTAAAAGTAATTAAAAATGAAAAACTCATGTATTCTTCTAATGAT
*
25174 CAGAGTGTTTATCATCTCAGA
66 CAGAGTATTTATCATCTCAGA
* * *
25195 TTTGAATTTATTTATCCTTTTTAAAAGTAATTAAAAATGAAGAATTCATGTATTCTTCTAATGAT
1 TTTGAATTTATTTATCCTTATTAAAAGTAATTAAAAATGAAAAACTCATGTATTCTTCTAATGAT
25260 CAGAGTATTTATCAT
66 CAGAGTATTTATCAT
25275 TATAGATGTG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (86 bp):
TTTGAATTTATTTATCCTTATTAAAAGTAATTAAAAATGAAAAACTCATGTATTCTTCTAATGAT
CAGAGTATTTATCATCTCAGA
Found at i:26446 original size:15 final size:15
Alignment explanation
Indices: 26428--26463 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
26418 GTAAATTTGA
26428 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
26443 AAAAATGGATATTGT
1 AAAAATGAATATTGT
26458 AAAAAT
1 AAAAAT
26464 CTTGGTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:26889 original size:14 final size:15
Alignment explanation
Indices: 26857--26910 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 15
26847 AATAATTTAA
26857 AAATATATAAAACTATT
1 AAATAT-TAAAA-TATT
26874 AAATATT-AAATATT
1 AAATATTAAAATATT
26888 AAAT-TTAAAATAATAT
1 AAATATTAAAAT-AT-T
26904 AAATATT
1 AAATATT
26911 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 5 0.15
16 6 0.18
17 8 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATTAAAATATT
Found at i:27152 original size:21 final size:22
Alignment explanation
Indices: 27116--27157 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
27106 TTTTAATTTC
*
27116 ATTTTAAATTATGTCGCATAAG
1 ATTTTAAATAATGTCGCATAAG
27138 ATTTTAAA-AATGTCGCATAA
1 ATTTTAAATAATGTCGCATAA
27158 TATCGATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (22 bp):
ATTTTAAATAATGTCGCATAAG
Found at i:40107 original size:42 final size:42
Alignment explanation
Indices: 40061--40144 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
40051 GGGTTTGGGG
*
40061 GAAGTAAAAAGGTTTGGGAAAAAATAAAATA-AAATAAAAAGT
1 GAAGTAAAAAGGTTTGGGAAAAAATAAAA-AGAAAAAAAAAGT
40103 GAAGTAAAAAGGTTTGGGAAAAAATAAAAAGAAAAAAAAAGT
1 GAAGTAAAAAGGTTTGGGAAAAAATAAAAAGAAAAAAAAAGT
40145 TTTGAGAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (42 bp):
GAAGTAAAAAGGTTTGGGAAAAAATAAAAAGAAAAAAAAAGT
Found at i:43097 original size:44 final size:44
Alignment explanation
Indices: 43034--43123 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
43024 CAAAAGAATA
43034 ATCACACCATATCTTTATACACAAATCAAATAAGGAAAGGATCC
1 ATCACACCATATCTTTATACACAAATCAAATAAGGAAAGGATCC
43078 ATCACACCATATCTTTATACACAAATCAAATAAGGAAAGGATCC
1 ATCACACCATATCTTTATACACAAATCAAATAAGGAAAGGATCC
43122 AT
1 AT
43124 TAAGGATATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (44 bp):
ATCACACCATATCTTTATACACAAATCAAATAAGGAAAGGATCC
Found at i:54099 original size:29 final size:30
Alignment explanation
Indices: 54065--54447 Score: 322
Period size: 29 Copynumber: 12.9 Consensus size: 30
54055 CAAAATGATA
* *
54065 ATTTTTGGAAGTTTCAAGGTTAAAAATGGG
1 ATTTTTGGAAGTTTCGAGGGTAAAAATGGG
* * * * *
54095 ATTTTTTGAAGTTTTGGGGGTGAAAATAGG
1 ATTTTTGGAAGTTTCGAGGGTAAAAATGGG
* *
54125 A-TTTTGGAAG-TTCGGGGGTAAAAATGGA
1 ATTTTTGGAAGTTTCGAGGGTAAAAATGGG
*
54153 ATTTTTGGAAGTTTC-AGGATAAAAAAATGGG
1 ATTTTTGGAAGTTTCGAGGGT--AAAAATGGG
* ****
54184 ATTTTTAGAAG-TTCGAGGGTAAAAACAAA
1 ATTTTTGGAAGTTTCGAGGGTAAAAATGGG
*
54213 ATTTTTGGAAGTTT-TAGGGTTAAAAATGGG
1 ATTTTTGGAAGTTTCGAGGG-TAAAAATGGG
*
54243 ATTTTTGGAAGTTT-G-GGGTTAAAAATGGA
1 ATTTTTGGAAGTTTCGAGGG-TAAAAATGGG
* * **
54272 ATTTTTTGAAGTTTTGAGGCCAAAAATGGG
1 ATTTTTGGAAGTTTCGAGGGTAAAAATGGG
* *
54302 TTTTTTAGAAGTTT-GAGGGTAAAAAT-GG
1 ATTTTTGGAAGTTTCGAGGGTAAAAATGGG
*
54330 ACTTTGTGGAAGTTTCGAGGGTTAAAAATGGG
1 A-TTTTTGGAAGTTTCGAGGG-TAAAAATGGG
* *
54362 ATTTTTAGAAG-TTCGAGGGTAAAAATGGA
1 ATTTTTGGAAGTTTCGAGGGTAAAAATGGG
** * *
54391 ATTTTTTTAAGTTTAG-GGGTTAAAAATGAG
1 ATTTTTGGAAGTTTCGAGGG-TAAAAATGGG
* * *
54421 ATTTTTAGAAG-TTCGGGGGTGAAAATG
1 ATTTTTGGAAGTTTCGAGGGTAAAAATG
54448 TAATTTTGAG
Statistics
Matches: 285, Mismatches: 52, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
28 17 0.06
29 117 0.41
30 109 0.38
31 39 0.14
32 3 0.01
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (30 bp):
ATTTTTGGAAGTTTCGAGGGTAAAAATGGG
Found at i:54130 original size:59 final size:59
Alignment explanation
Indices: 54065--54454 Score: 372
Period size: 59 Copynumber: 6.6 Consensus size: 59
54055 CAAAATGATA
* * * * * * *
54065 ATTTTTGGAAGTTTCAAGGTTAAAAATGGGATTTTTTGAAGTTTTGGGGGTGAAAATAGG
1 ATTTTTGGAAG-TTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGATAAAAATGGG
* **
54125 A-TTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAG-TTTCAGGATAAAAAAATGGG
1 ATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGAT--AAAAATGGG
* *** * *
54184 ATTTTTAGAAGTTCGAGGGTAAAAACAAAATTTTTGGAAGTTTTAGGGTTAAAAATGGG
1 ATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGATAAAAATGGG
* * * **
54243 ATTTTTGGAAGTTTG-GGGTTAAAAATGGAATTTTTTGAAGTTTTGAGGCCAAAAATGGG
1 ATTTTTGGAAGTTCGAGGG-TAAAAATGGAATTTTTGGAAGTTTTGGGGATAAAAATGGG
* * * * * * *
54302 TTTTTTAGAAGTTTGAGGGTAAAAATGGACTTTGTGGAAGTTTCGAGGGTTAAAAATGGG
1 ATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTG-GGGATAAAAATGGG
* ** * * *
54362 ATTTTTAGAAGTTCGAGGGTAAAAATGGAATTTTTTTAAGTTTAGGGGTTAAAAATGAG
1 ATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGATAAAAATGGG
* * * *
54421 ATTTTTAGAAGTTCGGGGGTGAAAATGTAATTTT
1 ATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTT
54455 GAGATAGTTT
Statistics
Matches: 275, Mismatches: 48, Indels: 15
0.81 0.14 0.04
Matches are distributed among these distances:
57 6 0.02
58 27 0.10
59 150 0.55
60 86 0.31
61 6 0.02
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (59 bp):
ATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGATAAAAATGGG
Found at i:54446 original size:119 final size:117
Alignment explanation
Indices: 54117--54453 Score: 399
Period size: 119 Copynumber: 2.8 Consensus size: 117
54107 TTTGGGGGTG
* * *
54117 AAAATAGGA-TTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCA-GGATAAAAAAA
1 AAAATGGGATTTTTGGAAGTTC-GGGGTAAAAATGGAATTTTTTGAAGTTT-AGGGGT-AAAAAA
** * *
54180 TGGGATTTTTAGAAGTTCGAGGGTAAAAACAAAATTTTTGGAAGTTTTAGGGTTA
63 TGGGATTTTTAGAAGTTCGAGGGTAAAAATGAAATTTGTGGAAGTTTGAGGGTTA
* * * **
54235 AAAATGGGATTTTTGGAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTTTTGAGGCCAAAAATG
1 AAAATGGGATTTTTGGAAGTTCGGGG-TAAAAATGGAATTTTTTGAAGTTTAGGGGTAAAAAATG
* * * *
54300 GGTTTTTTAGAAGTTTGAGGGTAAAAATGGACTTTGTGGAAGTTTCGAGGGTTA
65 GGATTTTTAGAAGTTCGAGGGTAAAAATGAAATTTGTGGAAGTTT-GAGGGTTA
* * *
54354 AAAATGGGATTTTTAGAAGTTCGAGGGTAAAAATGGAATTTTTTTAAGTTTAGGGGTTAAAAATG
1 AAAATGGGATTTTTGGAAGTTCG-GGGTAAAAATGGAATTTTTTGAAGTTTAGGGGTAAAAAATG
* * * *
54419 AGATTTTTAGAAGTTCGGGGGTGAAAATGTAATTT
65 GGATTTTTAGAAGTTCGAGGGTAAAAATGAAATTT
54454 TGAGATAGTT
Statistics
Matches: 184, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
118 57 0.31
119 124 0.67
120 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (117 bp):
AAAATGGGATTTTTGGAAGTTCGGGGTAAAAATGGAATTTTTTGAAGTTTAGGGGTAAAAAATGG
GATTTTTAGAAGTTCGAGGGTAAAAATGAAATTTGTGGAAGTTTGAGGGTTA
Found at i:54453 original size:29 final size:29
Alignment explanation
Indices: 53961--54463 Score: 243
Period size: 29 Copynumber: 17.0 Consensus size: 29
53951 TTGGGGAAAA
*
53961 TCGGGGTTAAAAATGGAATTTTTAGACA-T
1 TCGGGGGTAAAAATGGAATTTTTAGA-AGT
* *
53990 TCGGGGGT-AAAAGGGTAATTTTGAG-AGTT
1 TCGGGGGTAAAAATGG-AATTTTTAGAAG-T
* * * * *
54019 TC-GAGGTCGAGAATGGAGTTTTTGGACA-T
1 TCGGGGGT-AAAAATGGAATTTTTAGA-AGT
* * * *
54048 TCGAGGG-CAAAATGATAATTTTTGGAAGTT
1 TCGGGGGTAAAAATG-GAATTTTTAGAAG-T
** * * *
54078 TCAAGGTTAAAAATGGGATTTTTTGAAGTT
1 TCGGGGGTAAAAATGGAATTTTTAGAAG-T
* * *
54108 TTGGGGGTGAAAATAGG-A-TTTTGGAAGT
1 TCGGGGGTAAAAAT-GGAATTTTTAGAAGT
*
54136 TCGGGGGTAAAAATGGAATTTTTGGAAGTT
1 TCGGGGGTAAAAATGGAATTTTTAGAAG-T
* * *
54166 TC-AGGATAAAAAAATGGGATTTTTAGAAGT
1 TCGGGGGT--AAAAATGGAATTTTTAGAAGT
* *** *
54196 TCGAGGGTAAAAACAAAATTTTTGGAAGTT
1 TCGGGGGTAAAAATGGAATTTTTAGAAG-T
** * * *
54226 TTAGGGTTAAAAATGGGATTTTTGGAAGT
1 TCGGGGGTAAAAATGGAATTTTTAGAAGT
* * *
54255 TTGGGGTTAAAAATGGAATTTTTTGAAGTT
1 TCGGGGGTAAAAATGGAATTTTTAGAAG-T
* * ** **
54285 TTGAGGCCAAAAATGGGTTTTTTAGAAGT
1 TCGGGGGTAAAAATGGAATTTTTAGAAGT
* * * * *
54314 TTGAGGGTAAAAATGGACTTTGTGGAAGTT
1 TCGGGGGTAAAAATGGAATTTTTAGAAG-T
* *
54344 TCGAGGGTTAAAAATGGGATTTTTAGAAGT
1 TCG-GGGGTAAAAATGGAATTTTTAGAAGT
* **
54374 TCGAGGGTAAAAATGGAATTTTTTTAAGTT
1 TCGGGGGTAAAAATGGAATTTTTAGAAG-T
* *
54404 TAGGGGTTAAAAAT-GAGATTTTTAGAAGT
1 TCGGGGGTAAAAATGGA-ATTTTTAGAAGT
* * *
54433 TCGGGGGTGAAAATGTAATTTTGAGATAGT
1 TCGGGGGTAAAAATGGAATTTTTAGA-AGT
54463 T
1 T
54464 TAGGGACCTT
Statistics
Matches: 363, Mismatches: 84, Indels: 53
0.73 0.17 0.11
Matches are distributed among these distances:
27 3 0.01
28 30 0.08
29 162 0.45
30 118 0.33
31 50 0.14
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (29 bp):
TCGGGGGTAAAAATGGAATTTTTAGAAGT
Found at i:57490 original size:205 final size:205
Alignment explanation
Indices: 56833--57628 Score: 1078
Period size: 206 Copynumber: 3.9 Consensus size: 205
56823 AGTTGGTATA
* * * * ***
56833 CTTCTCTGTATCTTATCAGGAAGATGATCGCCTTACTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * ** *
56898 CAAGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAAGAAGCTAACCTTTTTATTGCGTCGC
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC-CATTATTGCTTCGC
* * * * * * *
56963 CCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTTCTCGCATTGAGG-GTGGGTT
130 CCTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTCGAGGATTTGCTCACATCG-GGCGTGGGTT
57027 TGATTTGGTCTT
194 TGATTTGGTCTT
* * *
57039 CTTCTCAGTATCTCATCAGGAAGGTGACCGCATTGCTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * * *
57104 CAGGAGGACGGATTTGGTTCACTTCTCAGTATCTCATCAGGAGGCTAA-CCATTTTATTACCTCG
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCCA--TTATTGCTTCG
* * * * * *
57168 ACCTGCTTCTCAATATCTCATTAGGAAACT-GAGGTTCGAAGG-TTTGCTCATATCGAGCATGGG
129 CCCTGCTTCTCAATATCTCATCAGGAAGCTGGA-GTTCG-AGGATTTGCTCACATCGGGCGTGGG
57231 TTTGATTTGGTCTT
192 TTTGATTTGGTCTT
* *
57245 CTTCTCAGTATCTCATCGGGAAGATGACCACATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
57310 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCCATTATTGCTTCGCC
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCCATTATTGCTTCGCC
* *
57375 CTGCTTCTCAATGTCTCATCAGGAAGCTGGAGTTCGAGGATTTGCTCACATCGGGCGTGAGTTTG
131 CTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTCGAGGATTTGCTCACATCGGGCGTGGGTTTG
57440 ATTTGGTCTT
196 ATTTGGTCTT
* * * *
57450 CTTCTCAATATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
* *
57515 CAGAAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAAGCCATTATTGCTTCGCC
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCCATTATTGCTTCGCC
* * *
57580 TTGCTTCTCAATGTCTCATCAGGAAGCTAGAGTTCGAGGATTTGCTCAC
131 CTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTCGAGGATTTGCTCAC
57629 TTTGAGCCTC
Statistics
Matches: 523, Mismatches: 59, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
204 3 0.01
205 243 0.46
206 272 0.52
207 5 0.01
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (205 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCCATTATTGCTTCGCC
CTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTCGAGGATTTGCTCACATCGGGCGTGGGTTTG
ATTTGGTCTT
Found at i:57503 original size:411 final size:411
Alignment explanation
Indices: 56869--57627 Score: 1134
Period size: 411 Copynumber: 1.8 Consensus size: 411
56859 ATCGCCTTAC
56869 TTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAATATCTCA
1 TTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAATATCTCA
** * * *
56934 TCAAGAAGCTAACCTTTTTATTGCGTCGCCCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTC
66 TCAAGAAGCTAACCTCATTATTGCGTCGCCCTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTC
* * * * * *
56999 GAAGATTTTCTCGCATTGAGGGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGGT
131 GAAGATTTGCTCACATCGAGGGTGAGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGAT
* * * * *
57064 GACCGCATTGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAGGACGGATTTGGTTCACTTC
196 GACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGAATTTGGTCCACTTC
* *
57129 TCAGTATCTCATCAGGAGGCTAA-CCATTTTATTACCTCGACC-TGCTTCTCAATATCTCATTAG
261 TCAGTATCTCATCAGGAAGCTAAGCCA--TTATTACCTCG-CCTTGCTTCTCAATATCTCATCAG
57192 GAAACT-GAGGTTCGAAGG-TTTGCTCATATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTA
323 GAAACTAGA-GTTCG-AGGATTTGCTCATATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTA
57255 TCTCATCGGGAAGATGACCACATCGT
386 TCTCATCGGGAAGATGACCACATCGT
* *
57281 TTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCA
1 TTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAATATCTCA
* * *
57346 TCAGGAAGCTAACC-CATTATTGCTTCGCCCTGCTTCTCAATGTCTCATCAGGAAGCTGGAGTTC
66 TCAAGAAGCTAACCTCATTATTGCGTCGCCCTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTC
*
57410 GAGGATTTGCTCACATCG-GGCGTGAGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGA
131 GAAGATTTGCTCACATCGAGG-GTGAGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGA
* * * *
57474 TGACTGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGAAAGACGAATTTGGTCCACTT
195 TGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGAATTTGGTCCACTT
* * *
57539 CTCAGTATCTCATCAGGAAGCTAAGCCATTATTGCTTCGCCTTGCTTCTCAATGTCTCATCAGGA
260 CTCAGTATCTCATCAGGAAGCTAAGCCATTATTACCTCGCCTTGCTTCTCAATATCTCATCAGGA
*
57604 AGCTAGAGTTCGAGGATTTGCTCA
325 AACTAGAGTTCGAGGATTTGCTCA
57628 CTTTGAGCCT
Statistics
Matches: 310, Mismatches: 32, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
409 5 0.02
410 48 0.15
411 178 0.57
412 79 0.25
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (411 bp):
TTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAATATCTCA
TCAAGAAGCTAACCTCATTATTGCGTCGCCCTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTC
GAAGATTTGCTCACATCGAGGGTGAGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGAT
GACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGAATTTGGTCCACTTC
TCAGTATCTCATCAGGAAGCTAAGCCATTATTACCTCGCCTTGCTTCTCAATATCTCATCAGGAA
ACTAGAGTTCGAGGATTTGCTCATATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATCTCA
TCGGGAAGATGACCACATCGT
Found at i:69105 original size:96 final size:96
Alignment explanation
Indices: 68921--69112 Score: 219
Period size: 96 Copynumber: 2.0 Consensus size: 96
68911 TTTTTGCGAA
** *
68921 AAGGATATTCGATTATCTCGATATGAAGAAATGTTGCACCTAGTAAGTTAAGGCGCAATATTTCA
1 AAGGATATTCGATTATCTCGATATGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCA
* * *
68986 AAATCGAAGGTAAGGAAACATTGCCTTGATT
66 AAATCGAAGATAAAGAAACATTGCCTCGATT
* * * * *
69017 AAGGGTATTTGATTATTTCGATGTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAA-ATTTTC
1 AAGGATATTCGATTATCTCGATATGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATA-TTTC
* *
69081 GAAACTCGAA-ATAAA-AGAATATTGCCTCGATT
65 -AAAATCGAAGATAAAGA-AACATTGCCTCGATT
69113 TTAAAGTTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
95 2 0.03
96 70 0.88
97 8 0.10
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATATGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCA
AAATCGAAGATAAAGAAACATTGCCTCGATT
Found at i:69533 original size:58 final size:58
Alignment explanation
Indices: 69419--69543 Score: 139
Period size: 58 Copynumber: 2.2 Consensus size: 58
69409 TAAAAATTAA
* * * *
69419 ATTTTTAGACATTCAAGGGTAAAAGGGTAATTTTGAGAGTTTCAAGGTCGAGAAT-GG
1 ATTTTTGGACATTCAAGGGCAAAAGGGTAATTTTGAGAGTTTCAAGGTCAAAAATGGG
* * *
69476 AGTTTTTGGACATTCGAGGGCAAAATGGTAAATTTTG-GAAGTTTC-GGGTCAAAAATGGG
1 A-TTTTTGGACATTCAAGGGCAAAAGGGT-AATTTTGAG-AGTTTCAAGGTCAAAAATGGG
69535 ATTTTTGGA
1 ATTTTTGGA
69544 TGTTTTGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
57 1 0.02
58 40 0.70
59 16 0.28
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (58 bp):
ATTTTTGGACATTCAAGGGCAAAAGGGTAATTTTGAGAGTTTCAAGGTCAAAAATGGG
Found at i:69561 original size:30 final size:29
Alignment explanation
Indices: 69508--69775 Score: 234
Period size: 29 Copynumber: 9.1 Consensus size: 29
69498 AAATGGTAAA
*
69508 TTTTGGAAGTTT-CGGGTCAAAAATGGGAT
1 TTTTGGAAGTTTGGGGGT-AAAAATGGGAT
* *
69537 TTTTGGATGTTTTGGGGGTGAAAATGGGAT
1 TTTTGGAAG-TTTGGGGGTAAAAATGGGAT
* * * *
69567 TTTAGGAAGTTCGAGGGTAAAAATGGAAT
1 TTTTGGAAGTTTGGGGGTAAAAATGGGAT
* * * *
69596 TTTTGTAAGTTTTAGGGTTAAAAATGAGAT
1 TTTTGGAAG-TTTGGGGGTAAAAATGGGAT
* ** * *
69626 TTTTAGAAGTTCAGAGGTAAAAATTGGAT
1 TTTTGGAAGTTTGGGGGTAAAAATGGGAT
* **
69655 TTTTAGAAGTTTGGGGGT-AAAATGAAAT
1 TTTTGGAAGTTTGGGGGTAAAAATGGGAT
* *
69683 TTTTGGAAGTTTCGAGGTCAAAAATGGGAT
1 TTTTGGAAGTTTGGGGGT-AAAAATGGGAT
* * * *
69713 TTTTAGAAGTTCGGGGGTAAAAATAGAAT
1 TTTTGGAAGTTTGGGGGTAAAAATGGGAT
* *
69742 TTTTGGAAGTTTCGAGGTCAAAAATGGGAT
1 TTTTGGAAGTTTGGGGGT-AAAAATGGGAT
69772 TTTT
1 TTTT
69776 AGAGGTTCGA
Statistics
Matches: 186, Mismatches: 47, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
28 22 0.12
29 84 0.45
30 76 0.41
31 4 0.02
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (29 bp):
TTTTGGAAGTTTGGGGGTAAAAATGGGAT
Found at i:69802 original size:59 final size:59
Alignment explanation
Indices: 69419--69813 Score: 302
Period size: 59 Copynumber: 6.7 Consensus size: 59
69409 TAAAAATTAA
* * * * *
69419 ATTTTTAGACA-TTCAAGGGTAAAAGGGTAA-TTTT-GAGAGTTTCAAGGTCGAGAAT-GG
1 ATTTTTAGA-AGTTCGAGGGTAAAATGGTAATTTTTGGA-AGTTTCGAGGTCAAAAATGGG
* * *
69476 AGTTTTTGGACA-TTCGAGGGCAAAATGGTAAATTTTGGAAGTTTCG-GGTCAAAAATGGG
1 A-TTTTTAGA-AGTTCGAGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGG
* * * * * * *
69535 ATTTTTGGATGTTTTGGGGGTGAAAATGG-GATTTTAGGAAG-TTCGAGGGT-AAAAATGGA
1 ATTTTTAGAAG-TTCGAGGGT-AAAATGGTAATTTTTGGAAGTTTCGA-GGTCAAAAATGGG
** * *
69594 ATTTTT-GTAAGTTTTAGGGTTAAAAAT-G-AGATTTTTAGAAG-TTCAGAGGT-AAAAATTGG
1 ATTTTTAG-AAGTTCGAGGG-T-AAAATGGTA-ATTTTTGGAAGTTTC-GAGGTCAAAAATGGG
* * *
69653 ATTTTTAGAAGTTTGGGGGTAAAAT-GAAATTTTTGGAAGTTTCGAGGTCAAAAATGGG
1 ATTTTTAGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGG
* *
69711 ATTTTTAGAAGTTCGGGGGTAAAAATAG-AATTTTTGGAAGTTTCGAGGTCAAAAATGGG
1 ATTTTTAGAAGTTCGAGGGT-AAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGG
* *
69770 ATTTTTAGAGGTTCGAGGGTGAAAA-GGTAATTTTGGGATAGTTT
1 ATTTTTAGAAGTTCGAGGGT-AAAATGGTAATTTTTGGA-AGTTT
69814 AGGGACCTCT
Statistics
Matches: 283, Mismatches: 34, Indels: 39
0.79 0.10 0.11
Matches are distributed among these distances:
57 22 0.08
58 86 0.30
59 154 0.54
60 21 0.07
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (59 bp):
ATTTTTAGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGG
Found at i:71165 original size:29 final size:30
Alignment explanation
Indices: 71106--71171 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
71096 ACAAATAAAC
71106 TTAAATTTTAAAAATTAAAAAGTAAAGAGA
1 TTAAATTTTAAAAATTAAAAAGTAAAGAGA
* **
71136 TTAAATTATTGAAAA-TAAAAA-TATGGAGA
1 TTAAATT-TTAAAAATTAAAAAGTAAAGAGA
71165 TTAAATT
1 TTAAATT
71172 CCAAATAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.41
30 13 0.41
31 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (30 bp):
TTAAATTTTAAAAATTAAAAAGTAAAGAGA
Found at i:73476 original size:11 final size:12
Alignment explanation
Indices: 73460--73506 Score: 55
Period size: 11 Copynumber: 4.0 Consensus size: 12
73450 GTATTTTGTG
73460 TTTATA-TAAAT
1 TTTATATTAAAT
73471 TTTATATTGAAGA-
1 TTTATATT-AA-AT
73484 TTTATATTAAAT
1 TTTATATTAAAT
73496 TTTAT-TTAAAT
1 TTTATATTAAAT
73507 ATGAATTCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 13 0.41
12 8 0.25
13 10 0.31
14 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (12 bp):
TTTATATTAAAT
Found at i:73930 original size:27 final size:28
Alignment explanation
Indices: 73884--73953 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 28
73874 TATTGGATTG
* *
73884 ATTTTTTAAAATTTAAAATTA-TTA-AT
1 ATTTTTTAAAATTTTAAATAATTTATAT
*
73910 -TTTTTT-ATATTTTAAATAATTTATAT
1 ATTTTTTAAAATTTTAAATAATTTATAT
73936 ATTTTTTAAAATTTTAAA
1 ATTTTTTAAAATTTTAAA
73954 ATTTTAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 10 0.28
25 9 0.25
26 2 0.06
27 6 0.17
28 9 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTTTAAAATTTTAAATAATTTATAT
Found at i:81263 original size:31 final size:30
Alignment explanation
Indices: 81221--81299 Score: 104
Period size: 31 Copynumber: 2.6 Consensus size: 30
81211 GATAGCCACT
* *
81221 ATTAACTTAATTTAATTACAATATATAATA
1 ATTAATTTAATTTAATTACAATAAATAATA
* * *
81251 ATTTAATTTAATTTAATCATATTAAATAATA
1 A-TTAATTTAATTTAATTACAATAAATAATA
81282 ATTAATTTAATTTAATTA
1 ATTAATTTAATTTAATTA
81300 TTATATCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 17 0.40
31 25 0.60
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTAATTTAATTTAATTACAATAAATAATA
Found at i:84520 original size:11 final size:12
Alignment explanation
Indices: 84493--84521 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
84483 AGCTCGAGTT
84493 GCTCAAGCTCGA
1 GCTCAAGCTCGA
84505 GCTCAAGCTC-A
1 GCTCAAGCTCGA
84516 GCTCAA
1 GCTCAA
84522 TAATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (12 bp):
GCTCAAGCTCGA
Found at i:85596 original size:29 final size:29
Alignment explanation
Indices: 85564--85647 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 29
85554 GGACTTGAAT
*
85564 TTTAAAATATGAAAAGTAGAGGGATTAAA
1 TTTAAAATATGAAAAGTATAGGGATTAAA
* *
85593 TTTATAAAAAT-ATAAGTATAGGGATTAAA
1 TTTA-AAATATGAAAAGTATAGGGATTAAA
* *
85622 TTCTTAATTATCGAAAAGTATAGGGA
1 TT-TAAAATAT-GAAAAGTATAGGGA
85648 CTATGGGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 26 0.59
30 6 0.14
31 12 0.27
ACGTcount: A:0.48, C:0.02, G:0.18, T:0.32
Consensus pattern (29 bp):
TTTAAAATATGAAAAGTATAGGGATTAAA
Found at i:90231 original size:14 final size:15
Alignment explanation
Indices: 90212--90241 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
90202 AAATATAAAC
90212 ATACAATT-AAAAAA
1 ATACAATTCAAAAAA
90226 ATACAATTCAAAAAA
1 ATACAATTCAAAAAA
90241 A
1 A
90242 ATAATTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (15 bp):
ATACAATTCAAAAAA
Found at i:93001 original size:5 final size:5
Alignment explanation
Indices: 92991--93015 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
92981 TATTAAATAT
92991 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
93016 AATTTTAAAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:93468 original size:19 final size:20
Alignment explanation
Indices: 93445--93491 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
93435 TTAACAAAAA
93445 ATTTTAATAGTGTATA-CAAT
1 ATTTTAATAGT-TATATCAAT
*
93465 -TTTTAAAAGTTATATCAAT
1 ATTTTAATAGTTATATCAAT
93484 ATTTTAAT
1 ATTTTAAT
93492 TAAATACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.17
19 13 0.57
20 6 0.26
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (20 bp):
ATTTTAATAGTTATATCAAT
Found at i:94377 original size:80 final size:80
Alignment explanation
Indices: 94244--94404 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
94234 CTACATAAAA
94244 AATCCCCATAAAAATGTAGTTCTAGCAATGTACTGACTCCGCATTCACATTGAGCTTGAGCTCAC
1 AATCCCCATAAAAATGTAGTTCTAGCAATGTACTGACTCCGCATTCACATTGAGCTTGAGCTCAC
94309 CCTAGCCTTGGCCGC
66 CCTAGCCTTGGCCGC
94324 AATCCCCATAAAAATGTAGTTCTAGCAATGTACTGACTCCGCA-TCTACATTGAGCTTGAGCTCA
1 AATCCCCATAAAAATGTAGTTCTAGCAATGTACTGACTCCGCATTC-ACATTGAGCTTGAGCTCA
94388 CCCTAGCCTTGGCCGC
65 CCCTAGCCTTGGCCGC
94404 A
1 A
94405 TTTCTTGTTC
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
79 2 0.03
80 78 0.98
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (80 bp):
AATCCCCATAAAAATGTAGTTCTAGCAATGTACTGACTCCGCATTCACATTGAGCTTGAGCTCAC
CCTAGCCTTGGCCGC
Found at i:94651 original size:17 final size:17
Alignment explanation
Indices: 94611--94652 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
94601 AAATCCATTA
94611 TAAAA-ATA-TAAAAAT
1 TAAAATATATTAAAAAT
* *
94626 TATATTATATTAAAAAT
1 TAAAATATATTAAAAAT
94643 TAAAATATAT
1 TAAAATATAT
94653 AGATTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 3 0.14
16 3 0.14
17 15 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATATATTAAAAAT
Found at i:95767 original size:2 final size:2
Alignment explanation
Indices: 95760--95829 Score: 99
Period size: 2 Copynumber: 35.0 Consensus size: 2
95750 AATCACACTA
*
95760 AT AT AT AT AT AT AT AT AT A- AT CAC ACT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT AT
95802 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
95830 GATAAAATTA
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
1 2 0.03
2 58 0.94
3 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:95789 original size:28 final size:28
Alignment explanation
Indices: 95749--95829 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 28
95739 TACTACCATG
95749 TAATCACACTAATATATATATATATATA
1 TAATCACACTAATATATATATATATATA
95777 TAATCACACTAATATATATATATATATA
1 TAATCACACTAATATATATATATATATA
*
95805 T-AT-ATA-T-ATATATATATATATATA
1 TAATCACACTAATATATATATATATATA
95829 T
1 T
95830 GATAAAATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
24 18 0.35
25 1 0.02
26 2 0.04
27 2 0.04
28 29 0.56
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATCACACTAATATATATATATATATA
Found at i:96225 original size:41 final size:41
Alignment explanation
Indices: 96168--96263 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
96158 GAATTTTATT
96168 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
96209 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTTCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
96250 TTGACAAGAATTCT
1 TTAACAAGAATTCT
96264 CTACGAACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.29
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:103283 original size:17 final size:17
Alignment explanation
Indices: 103261--103347 Score: 102
Period size: 17 Copynumber: 5.1 Consensus size: 17
103251 AATATTTTAT
* *
103261 TTTATTTTAAGTTTGAA
1 TTTATTTTAAATTTAAA
103278 TTTATTTTAAATTTAAA
1 TTTATTTTAAATTTAAA
* * * *
103295 CTTACTTTAAGTTTGAA
1 TTTATTTTAAATTTAAA
*
103312 TTTACTTTAAATTTAAA
1 TTTATTTTAAATTTAAA
*
103329 TTTATTTTAAATTAAAA
1 TTTATTTTAAATTTAAA
103346 TT
1 TT
103348 AATTAAGGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 59 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTATTTTAAATTTAAA
Found at i:103304 original size:34 final size:34
Alignment explanation
Indices: 103266--103338 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
103256 TTTATTTTAT
*
103266 TTTAAGTTTGAATTTATTTTAAATTTAAACTTAC
1 TTTAAGTTTGAATTTACTTTAAATTTAAACTTAC
* *
103300 TTTAAGTTTGAATTTACTTTAAATTTAAATTTAT
1 TTTAAGTTTGAATTTACTTTAAATTTAAACTTAC
103334 TTTAA
1 TTTAA
103339 ATTAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (34 bp):
TTTAAGTTTGAATTTACTTTAAATTTAAACTTAC
Found at i:104820 original size:30 final size:29
Alignment explanation
Indices: 104784--105255 Score: 197
Period size: 29 Copynumber: 16.1 Consensus size: 29
104774 GCCAAACGAT
* * *
104784 CCCTGAACTCTCTAAAAATCATATTTTAAC
1 CCCTAAACT-TCTAAAAATTACATTTTAAC
* * *
104814 CCCTGAACTTTCCAAAAATTACATTTTTAC
1 CCCTAAAC-TTCTAAAAATTACATTTTAAC
* *
104844 CCCTAAACTTCCTAAAATTTATATTTTAAC
1 CCCTAAACTT-CTAAAAATTACATTTTAAC
*
104874 CACC-AAACTTTTTAAAAATTACATTTTAAC
1 C-CCTAAAC-TTCTAAAAATTACATTTTAAC
* * *
104904 CCTCT-AACTTTTCAAAAATCACATTTTTA-
1 CC-CTAAACTTCT-AAAAATTACATTTTAAC
* * *
104933 CCTTCAAACTTTCT-AAAATTATATTTT-GC
1 CCCT-AAAC-TTCTAAAAATTACATTTTAAC
* ** *
104962 CCCTAAACTTCAAAAAAACACATTTTTAC
1 CCCTAAACTTCTAAAAATTACATTTTAAC
* *
104991 CCCTAAACTTGTAAAAATTACATTTTGA-
1 CCCTAAACTTCTAAAAATTACATTTTAAC
* * *
105019 CTC-GAACTTTCCAAAAATTACCATTTT-AC
1 CCCTAAAC-TTCTAAAAATTA-CATTTTAAC
* *
105048 CAC-AAACCTCTAAAAATTACCATTTT-A-
1 CCCTAAACTTCTAAAAATTA-CATTTTAAC
* * * * *
105075 CCCTCGAA-TGTCCAAAAATTATATTTTTGAT
1 CCCT-AAACT-TCTAAAAATTACA-TTTTAAC
* *
105106 CCC-AAACTTTCCATAAATTACCATTTT-AC
1 CCCTAAAC-TTCTAAAAATTA-CATTTTAAC
* * * *
105135 CCTTGAACATCCAAAAATTACCATTTT-AC
1 CCCTAAACTTCTAAAAATTA-CATTTTAAC
* **
105164 CCTTGGA-TGTCTAAAAATTACATTTTTAAC
1 CCCTAAACT-TCTAAAAATTACA-TTTTAAC
* *
105194 CCC-AAACCTTC-CAAAATTACCATTTTGAC
1 CCCTAAA-CTTCTAAAAATTA-CATTTTAAC
* * * *
105223 CTCAAAATTTCCAAAAATTACTATTTTAAC
1 CCCTAAACTTCTAAAAATTAC-ATTTTAAC
105253 CCC
1 CCC
105256 CGAACATACA
Statistics
Matches: 343, Mismatches: 64, Indels: 70
0.72 0.13 0.15
Matches are distributed among these distances:
27 8 0.02
28 49 0.14
29 138 0.40
30 134 0.39
31 14 0.04
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTCTAAAAATTACATTTTAAC
Found at i:104891 original size:60 final size:61
Alignment explanation
Indices: 104795--105016 Score: 178
Period size: 60 Copynumber: 3.8 Consensus size: 61
104785 CCTGAACTCT
* *
104795 CTAAAAATCATATTTTAACCCCTGAACTTTCCAAAAATTACATTTTTACCC-CTAAACTTC
1 CTAAAAATCATATTTTAACCCCTAAACTTTCCAAAAATTACATTTTAACCCTCTAAACTTC
* * **
104855 CTAAAATTTATATTTTAACCACC-AAACTTTTTAAAAATTACATTTTAACCCTCT-AACTT-
1 CTAAAAATCATATTTTAACC-CCTAAACTTTCCAAAAATTACATTTTAACCCTCTAAACTTC
* * * * * * *
104914 TTCAAAAATCACATTTTTA-CCTTCAAACTTT-CTAAAATTATATTTT-GCCC-CTAAACTT-
1 CT-AAAAATCATATTTTAACCCCT-AAACTTTCCAAAAATTACATTTTAACCCTCTAAACTTC
* * * *
104972 CAAAAAAACACATTTTTACCCCTAAACTTGT--AAAAATTACATTTT
1 CTAAAAATCATATTTTAACCCCTAAACTT-TCCAAAAATTACATTTT
105017 GACTCGAACT
Statistics
Matches: 132, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
57 35 0.27
58 13 0.10
59 14 0.11
60 66 0.50
61 4 0.03
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (61 bp):
CTAAAAATCATATTTTAACCCCTAAACTTTCCAAAAATTACATTTTAACCCTCTAAACTTC
Found at i:104949 original size:90 final size:89
Alignment explanation
Indices: 104796--104959 Score: 233
Period size: 90 Copynumber: 1.8 Consensus size: 89
104786 CTGAACTCTC
* *
104796 TAAAAATCATATTTTAACCCCTGAACTTTCCAAAAATTACATTTTTACCCCTAAACTTCCTAAAA
1 TAAAAATCACATTTTAACCCCTGAACTTTCCAAAAATCACATTTTTACCCCTAAACTTCCTAAAA
104861 TTTATATTTTAACCACCAAACTTTT
66 -TTATATTTTAACCACCAAACTTTT
* * * *
104886 TAAAAATTACATTTTAACCCTCT-AACTTTTCAAAAATCACATTTTTA-CCTTCAAACTTTCTAA
1 TAAAAATCACATTTTAACCC-CTGAACTTTCCAAAAATCACATTTTTACCCCT-AAACTTCCTAA
104949 AATTATATTTT
64 AATTATATTTT
104960 GCCCCTAAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 12 0.18
90 52 0.79
91 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.40
Consensus pattern (89 bp):
TAAAAATCACATTTTAACCCCTGAACTTTCCAAAAATCACATTTTTACCCCTAAACTTCCTAAAA
TTATATTTTAACCACCAAACTTTT
Found at i:105013 original size:29 final size:28
Alignment explanation
Indices: 104796--105016 Score: 144
Period size: 30 Copynumber: 7.5 Consensus size: 28
104786 CTGAACTCTC
* * * *
104796 TAAAAATCATATTTTAACCCCTGAACTT
1 TAAAAATTACATTTTTACCCCTAAACTT
104824 TCCAAAAATTACATTTTTACCCCTAAACTT
1 T--AAAAATTACATTTTTACCCCTAAACTT
* * *
104854 CCTAAAATTTATATTTTAACCACC-AAACTTTT
1 --TAAAAATTACATTTTTACC-CCTAAAC--TT
*
104886 TAAAAATTACATTTTAACCCTCT-AACTTT
1 TAAAAATTACATTTTTACCC-CTAAAC-TT
* *
104915 TCAAAAATCACATTTTTA-CCTTCAAACTT
1 T-AAAAATTACATTTTTACCCCT-AAACTT
* * *
104944 TCTAAAATTATA-TTTTGCCCCTAAACTT
1 T-AAAAATTACATTTTTACCCCTAAACTT
* **
104972 CAAAAAAACACATTTTTACCCCTAAACTT
1 -TAAAAATTACATTTTTACCCCTAAACTT
105001 GTAAAAATTACATTTT
1 -TAAAAATTACATTTT
105017 GACTCGAACT
Statistics
Matches: 151, Mismatches: 27, Indels: 29
0.73 0.13 0.14
Matches are distributed among these distances:
28 18 0.12
29 48 0.32
30 80 0.53
31 2 0.01
32 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.38
Consensus pattern (28 bp):
TAAAAATTACATTTTTACCCCTAAACTT
Found at i:105035 original size:57 final size:56
Alignment explanation
Indices: 104884--105073 Score: 138
Period size: 57 Copynumber: 3.3 Consensus size: 56
104874 CACCAAACTT
* * * * *
104884 TTTAAAAATTACATTTTAACCCTCTAACTTTTCAAAAATCACATTTTTA-CCTTCAAAC
1 TTTAAAAATTACATTTTGA--CTCAAACTTTCCAAAAAACACATTTTTACCCCT-AAAC
* * * * *
104942 TTTCTAAAATTATATTTTGCCCCTAAAC-TTCAAAAAAACACATTTTTACCCCTAAAC
1 TTT-AAAAATTACATTTTGACTC-AAACTTTCCAAAAAACACATTTTTACCCCTAAAC
* *
104999 TTGTAAAAATTACATTTTGACTCGAACTTTCCAAAAATTAC-CA-TTTTACCAC-AAACC
1 TT-TAAAAATTACATTTTGACTCAAACTTTCCAAAAA--ACACATTTTTACCCCTAAA-C
*
105056 TCTAAAAATTACCATTTT
1 TTTAAAAATTA-CATTTT
105074 ACCCTCGAAT
Statistics
Matches: 105, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
56 15 0.14
57 64 0.61
58 12 0.11
59 14 0.13
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (56 bp):
TTTAAAAATTACATTTTGACTCAAACTTTCCAAAAAACACATTTTTACCCCTAAAC
Found at i:105102 original size:29 final size:29
Alignment explanation
Indices: 105003--105370 Score: 181
Period size: 29 Copynumber: 12.8 Consensus size: 29
104993 CTAAACTTGT
*
105003 AAAAATTA-CATTTTGA--CTCGAACTTTCC
1 AAAAATTACCATTTT-ACCCTCGAA-TGTCC
* * ** *
105031 AAAAATTACCATTTTA-CCACAAACCTCT
1 AAAAATTACCATTTTACCCTCGAATGTCC
105059 AAAAATTACCATTTTACCCTCGAATGTCC
1 AAAAATTACCATTTTACCCTCGAATGTCC
* * * *
105088 AAAAATTA-TATTTTTGATCC-CAAACTTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAA-TGTCC
* * **
105118 ATAAATTACCATTTTACCCTTGAACATCC
1 AAAAATTACCATTTTACCCTCGAATGTCC
* * *
105147 AAAAATTACCATTTTACCCTTGGATGTCT
1 AAAAATTACCATTTTACCCTCGAATGTCC
*
105176 AAAAATTA-CATTTTTAACCC-CAAACCT-TCC
1 AAAAATTACCA-TTTT-ACCCTCGAA--TGTCC
* *
105206 -AAAATTACCATTTTGA-CCTCAAAATTTCC
1 AAAAATTACCATTTT-ACCCTC-GAATGTCC
* * ** *
105235 AAAAATTACTATTTTAACCCCCGAACATAC
1 AAAAATTACCATTTT-ACCCTCGAATGTCC
* * * * **
105265 AAAATTTACCATCTTACTC-CAAACATCC
1 AAAAATTACCATTTTACCCTCGAATGTCC
* *
105293 AAAAATTACCGTTTTACCCTC-AAGTATCC
1 AAAAATTACCATTTTACCCTCGAA-TGTCC
* *
105322 -AAAATTACCATTTTACCCCCGAACGTCC
1 AAAAATTACCATTTTACCCTCGAATGTCC
* *
105350 -AAAATTACCGTTTTGCCCTCG
1 AAAAATTACCATTTTACCCTCG
105371 GCATTCAAAA
Statistics
Matches: 263, Mismatches: 56, Indels: 42
0.73 0.16 0.12
Matches are distributed among these distances:
28 96 0.37
29 101 0.38
30 61 0.23
31 5 0.02
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCGAATGTCC
Found at i:105174 original size:88 final size:86
Alignment explanation
Indices: 104824--105357 Score: 289
Period size: 88 Copynumber: 6.1 Consensus size: 86
104814 CCCTGAACTT
* * *
104824 TCCAAAAATTACATTTTT-ACCCCTAAAC-TTCCTAAAATTTA-TATTTTAACCACCAAACTTTT
1 TCCAAAAATTACATTTTTAACCCC-AAACTTTCC-AAAA-TTACCATTTT-ACCA-CAAAC-ATC
* * *
104886 TAAAAATTA-CATTTTAACCCTCTAACTT
60 CAAAAATTACCATTTT-ACCCTCGAA-TG
* * * * * * * *
104914 TTCAAAAATCACATTTTT-ACCTTCAAACTTTCTAAAATTA-TATTTTGCCCCTAAAC-TTCAAA
1 TCCAAAAATTACATTTTTAACC-CCAAACTTTCCAAAATTACCATTTTACCAC-AAACATCCAAA
* *
104976 AA-AACACATTTTTACCC-CTAAACTTG
64 AATTAC-CA-TTTTACCCTC-GAA--TG
* * * * *
105002 T--AAAAATTACA-TTTTGA-CTCGAACTTTCCAAAAATTACCATTTTACCACAAACCTCTAAAA
1 TCCAAAAATTACATTTTTAACCCCAAACTTTCC-AAAATTACCATTTTACCACAAACATCCAAAA
105063 ATTACCATTTTACCCTCGAATG
65 ATTACCATTTTACCCTCGAATG
* * * *
105085 TCCAAAAATTATATTTTTGATCCCAAACTTTCCATAAATTACCATTTTACC-CTTGAACATCCAA
1 TCCAAAAATTACATTTTTAACCCCAAACTTTCCA-AAATTACCATTTTACCAC--AAACATCCAA
* *
105149 AAATTACCATTTTACCCTTGGATG
63 AAATTACCATTTTACCCTCGAATG
* * *
105173 TCTAAAAATTACATTTTTAACCCCAAACCTTCCAAAATTACCATTTTGACCTCAAA-ATTTCCAA
1 TCCAAAAATTACATTTTTAACCCCAAACTTTCCAAAATTACCATTTT-ACCACAAACA--TCCAA
* * **
105237 AAATTACTATTTTAACCCCCGAACA
63 AAATTACCATTTT-ACCCTCGAATG
* * * * * * * **
105262 TACAAAATTTACCA-TCTT-ACTCCAAAC-ATCCAAAAATTACCGTTTTACCCTCAAGTATCC-A
1 TCCAAAAATTA-CATTTTTAACCCCAAACTTTCC-AAAATTACCATTTTA-CCACAAACATCCAA
* *
105323 AAATTACCATTTTACCCCCGAACG
63 AAATTACCATTTTACCCTCGAATG
105347 TCC-AAAATTAC
1 TCCAAAAATTAC
105358 CGTTTTGCCC
Statistics
Matches: 361, Mismatches: 53, Indels: 67
0.75 0.11 0.14
Matches are distributed among these distances:
83 4 0.01
84 15 0.04
85 48 0.13
86 57 0.16
87 59 0.16
88 117 0.32
89 28 0.08
90 29 0.08
91 4 0.01
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (86 bp):
TCCAAAAATTACATTTTTAACCCCAAACTTTCCAAAATTACCATTTTACCACAAACATCCAAAAA
TTACCATTTTACCCTCGAATG
Found at i:109124 original size:17 final size:17
Alignment explanation
Indices: 109104--109150 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
109094 AGAGAAAAAG
109104 AAAAAAAATCAAATAAA
1 AAAAAAAATCAAATAAA
**
109121 AAAAAAGGTCAAGATAAA
1 AAAAAAAATCAA-ATAAA
109139 AAAAAAAA-CAAA
1 AAAAAAAATCAAA
109151 AAACCTGCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 13 0.52
18 11 0.44
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAAAATCAAATAAA
Found at i:109125 original size:18 final size:19
Alignment explanation
Indices: 109099--109146 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
109089 AAAAGAGAGA
109099 AAAAGAAAAAAAATCAA-AT
1 AAAA-AAAAAAAATCAAGAT
**
109118 -AAAAAAAAAGGTCAAGAT
1 AAAAAAAAAAAATCAAGAT
109136 AAAAAAAAAAA
1 AAAAAAAAAAA
109147 CAAAAAACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 10 0.42
18 5 0.21
19 9 0.38
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.08
Consensus pattern (19 bp):
AAAAAAAAAAAATCAAGAT
Found at i:109911 original size:21 final size:21
Alignment explanation
Indices: 109874--109926 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
109864 CTATGAGATG
*
109874 AAGAAAAATAAATAAAAAAGA
1 AAGAAAAATAAAGAAAAAAGA
*
109895 AAGAAAAGA-AAAGAAAAAGGA
1 AAGAAAA-ATAAAGAAAAAAGA
*
109916 AAAAGAAAATA
1 AAGA-AAAATA
109927 GAAAAAGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (21 bp):
AAGAAAAATAAAGAAAAAAGA
Found at i:109919 original size:7 final size:6
Alignment explanation
Indices: 109874--109933 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
109864 CTATGAGATG
* * *
109874 AAGAAA AATAAA TA-AAA AAGAAA GAAAAGAA AAGAAA AAGGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA -AAGA-AA AAGAAA AA-GAAA AAGAAA
109924 ATAGAAA AAG
1 A-AGAAA AAG
109934 GGGAAAAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
5 4 0.09
6 20 0.45
7 18 0.41
8 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:110977 original size:50 final size:50
Alignment explanation
Indices: 110917--111335 Score: 321
Period size: 50 Copynumber: 8.4 Consensus size: 50
110907 AACGAAAAAA
* * *
110917 TTGAGGCCGCAACGACGAACCCAGTACTTAAGAAGATGTGATGGGAAAGG
1 TTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGG
* * * *
110967 TTGAGACCGCAACGGCGAACCC-GATACC-ATGAAGATATAAAGGGAAAGG
1 TTGAGGCCGCAACGGCGAACCCAG-TACCTAAGAAGATGTGAAGGGAAAGG
* * ** *** * *
111016 TCGAGACCATAACGAAAAACTC-GATACCTAAGGAGATGTGAAGGGAAAGG
1 TTGAGGCCGCAACGGCGAACCCAG-TACCTAAGAAGATGTGAAGGGAAAGG
* * * * * *
111066 TTGAGGCCGCAACGGCAAACCCGGTGCCTAAGAAGATATGATGAGAAAGG
1 TTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGG
* * * *
111116 TTGAGGCCGCAATGGCGAACCTAGTACC-ATGAAGA-GATGACAGGG-GAGG
1 TTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATG-TGA-AGGGAAAGG
* * * * *
111165 ATTGAAGCCGCAACGGCGAATCCAATACCTTAAAAAGATGTAAAGGGAAAGG
1 -TTGAGGCCGCAACGGCGAACCCAGTACC-TAAGAAGATGTGAAGGGAAAGG
** * **
111217 TTGAGGCCGCAACAACAAACCTGGTACCTAAGAAGATGTGAAGGGAAAGG
1 TTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGG
*** * * * * *
111267 TTGAGATAGCAACGGTGAACTCGGTACCTAAGAAGATGAGATGGG-AAGG
1 TTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGG
*
111316 ATTGAGGTCGCAACGGCGAA
1 -TTGAGGCCGCAACGGCGAA
111336 TCCGATACCA
Statistics
Matches: 285, Mismatches: 73, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
49 55 0.19
50 194 0.68
51 25 0.09
52 10 0.04
53 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.31, T:0.15
Consensus pattern (50 bp):
TTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGG
Found at i:111328 original size:151 final size:151
Alignment explanation
Indices: 110861--111344 Score: 396
Period size: 151 Copynumber: 3.2 Consensus size: 151
110851 GGTTTGAAAC
* * * * * * * **
110861 GGAAGGATTGAGGCTGCGACGGCGAATCCGATACCTT-AAAAGAT-TGAACGAAAAAATTGAGGC
1 GGAAGGATTGAAGCCGCAACGGCGAATCCAATACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGC
* * * * * * * *
110924 CGCAACGACGAACCCAGTACTTAAGAAGATGTGATGGGAAAGGTTGAGACCGCAACGGCGAACC-
66 CGCAACAACAAACCCGGTACCTAAGAAGATATGAAGAGAAAGGTTGAGACAGCAACGGCGAACCT
* * *
110988 CGATACCATGAAGATAT-AAAG
131 AG-TACCATGAAGAGATGACAG
* ** ** * * ** *
111009 GGAAAGG-TCG-AGACCATAAC-GAAAAACTCGATACC-TAAGGAGATGTGAAGGGAAAGGTTGA
1 GG-AAGGATTGAAG-CCGCAACGGCGAATC-CAATACCTTAAAAAGATGTAAAGGGAAAGGTTGA
** * * * * *
111070 GGCCGCAACGGCAAACCCGGTGCCTAAGAAGATATGATGAGAAAGGTTGAGGCCGCAATGGCGAA
63 GGCCGCAACAACAAACCCGGTACCTAAGAAGATATGAAGAGAAAGGTTGAGACAGCAACGGCGAA
111135 CCTAGTACCATGAAGAGATGACAG
128 CCTAGTACCATGAAGAGATGACAG
*
111159 GGGAGGATTGAAGCCGCAACGGCGAATCCAATACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGC
1 GGAAGGATTGAAGCCGCAACGGCGAATCCAATACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGC
* * * * *
111224 CGCAACAACAAACCTGGTACCTAAGAAGATGTGAAGGGAAAGGTTGAGATAGCAACGGTGAA-CT
66 CGCAACAACAAACCCGGTACCTAAGAAGATATGAAGAGAAAGGTTGAGACAGCAACGGCGAACCT
* *
111288 CGGTACC-T-AAGAAGATGAGATG
131 -AGTACCATGAAG-AGATGACA-G
* * *
111310 GGAAGGATTGAGGTCGCAACGGCGAATCCGATACC
1 GGAAGGATTGAAGCCGCAACGGCGAATCCAATACC
111345 ATGAAGAGAA
Statistics
Matches: 266, Mismatches: 56, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
147 6 0.02
148 19 0.07
149 93 0.35
150 29 0.11
151 119 0.45
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (151 bp):
GGAAGGATTGAAGCCGCAACGGCGAATCCAATACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGC
CGCAACAACAAACCCGGTACCTAAGAAGATATGAAGAGAAAGGTTGAGACAGCAACGGCGAACCT
AGTACCATGAAGAGATGACAG
Found at i:111711 original size:39 final size:40
Alignment explanation
Indices: 111660--111767 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 40
111650 GAAGATTCCG
* *
111660 ATCTCTTGCCCCGAGCCTAGGGCAGATCACCA-TCAGTCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCAGCCAGTCA
* * *
111699 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATTCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCAGCCAGTCA
* *
111738 ATCTTTTACCCCGA-CCATAGGGCAAATCAC
1 ATCTCTTACCCCGAGCC-TAGGGCAGATCAC
111768 AGTCATCTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
38 4 0.07
39 53 0.93
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (40 bp):
ATCTCTTACCCCGAGCCTAGGGCAGATCACCAGCCAGTCA
Found at i:112262 original size:208 final size:208
Alignment explanation
Indices: 111823--112685 Score: 954
Period size: 208 Copynumber: 4.2 Consensus size: 208
111813 TAAAATGGTC
* * * * * * * * * ***
111823 ACCTTCCTGATAAGATATAGAGAAGTGGACCAAATTCATCTTTCTGATTAGATATAGAGAAACAG
1 ACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGG
** ** * * * * * * *
111888 ATTGAAACAGTGATGCGGTCATCTTTCTGATGAGATACAGAGAAGAAGACCACATCAATGAAGCA
66 ATCAAAACAACGAGGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACA
* * * * * *** * *
111953 AAACTCAGTA-TGAGTGAAA-CTTC-AAACCTATCTTCCAGATGAGATACTGAGAAGTGGGTTGG
131 AAACTCAG-AGTGAG-CAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGA
*
112015 AGTAATAAAGCGGTT
194 AGCAATAAAGCGGTT
* * * * * * *
112030 CATCTTCTTGACGAGATGCAGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAAATAGGTG
1 -ACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTG
* *
112095 GATCAAAATAACGAGGCGATCATCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAC
65 GATCAAAACAACGAGGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAC
* * * *
112160 TAAGCTCAGAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAAAAGCAAGTTGAA
130 AAAACTCAGAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAA
112225 GCAATAAAGCGGTT
195 GCAATAAAGCGGTT
* * * *
112239 ACCTTCCTGATGAGATACAGAGAAGTTAATCAGATCCGTCTTCCTGATGAGATACAGAGAAGTGG
1 ACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGG
* *
112304 ATTAAAACAACGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACA
66 ATCAAAACAACGAGGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACA
* * *
112369 AAATTCA-ATGTGAGCAAAACTTCGAA-CCCAGCTTCCTAATGAGATACTGAGAAG-AAGGTCGA
131 AAACTCAGA-GTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAA-GTCGA
*
112431 AGCAATAATGCGGTT
194 AGCAATAAAGCGGTT
* * *
112446 ACCTTCCTGATGAGATACAAAGAAGTGAACCAGATCCGTCTTCCTAATGAGAT-CAAAGAAGTGG
1 ACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGG
* *
112510 ATCAAAACAACGAGGC-AGTCATCTTCCTGATGAGATACTGAGAAGTGGACCAAATTAATGAAAC
66 ATCAAAACAACGAGGCGA-TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAC
* ** * * *
112574 CAGGCTCAGAGTGAGCAAATCTTTGAACCCTAGCTTCCTGATG-GATACTGAGAAGCAGGTCGAA
130 AAAACTCAGAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAA
*
112638 GCAATAAAGCGGTC
195 GCAATAAAGCGGTT
* *
112652 AGCTTACTGATGAGATACAGAGAAGT-AGACCAAA
1 ACCTTCCTGATGAGATACAGAGAAGTGA-ACCAAA
112686 ATTAAATGCG
Statistics
Matches: 555, Mismatches: 90, Indels: 22
0.83 0.13 0.03
Matches are distributed among these distances:
205 1 0.00
206 148 0.27
207 113 0.20
208 249 0.45
209 44 0.08
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (208 bp):
ACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGG
ATCAAAACAACGAGGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACA
AAACTCAGAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAG
CAATAAAGCGGTT
Found at i:112623 original size:206 final size:207
Alignment explanation
Indices: 111905--112677 Score: 977
Period size: 208 Copynumber: 3.7 Consensus size: 207
111895 CAGTGATGCG
* * * * * * *
111905 GTCATCTTTCTGATGAGATACAGAGAAGAAGACCACATCAATGAAGCAAAACTCAGTA-TGAGTG
1 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAG-AGTGAG-C
* * * ** * * *
111969 AAA-CTTC-AAACCTATCTTCCAGATGAGATACTGAGAAGTGGGTTGGAGTAATAAAGCGGTTCA
64 AAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAGCGGTT-A
* * * * * * * *
112032 TCTTCTTGACGAGATGCAGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAAATAGGTGGA
128 CCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGATACAAAGAAGTGGA
*
112097 TCAAAATAACGAGGC
193 TCAAAACAACGAGGC
* *
112112 GATCATCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACTAAGCTCAGAGTGAGCA
1 G-TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAGAGTGAGCA
* * *
112177 AATCTTCGAACCCCAGCTTCCTGATGAGATACTGAAAAGCAA-GTTGAAGCAATAAAGCGGTTAC
65 AATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAG-AAGGTCGAAGCAATAAAGCGGTTAC
* * *
112241 CTTCCTGATGAGATACAGAGAAGTTAATCAGATCCGTCTTCCTGATGAGATACAGAGAAGTGGAT
129 CTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGATACAAAGAAGTGGAT
*
112306 TAAAACAACGAGGC
194 CAAAACAACGAGGC
**
112320 GGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAATTCA-ATGTGAGC
1 -GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAGA-GTGAGC
* * *
112384 AAAACTTCGAACCC-AGCTTCCTAATGAGATACTGAGAAGAAGGTCGAAGCAATAATGCGGTTAC
64 AAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAGCGGTTAC
* *
112448 CTTCCTGATGAGATACAAAGAAGTGAACCAGATCCGTCTTCCTAATGAGAT-CAAAGAAGTGGAT
129 CTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGATACAAAGAAGTGGAT
112512 CAAAACAACGAGGC
194 CAAAACAACGAGGC
* * * *
112526 AGTCATCTTCCTGATGAGATACTGAGAAGTGGACCAAATTAATGAAACCAGGCTCAGAGTGAGCA
1 -GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAGAGTGAGCA
* * * *
112591 AATCTTTGAACCCTAGCTTCCTGATG-GATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTCAGC
65 AATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAGCGGTTACC
*
112655 TTACTGATGAGATACAGAGAAGT
130 TTCCTGATGAGATACAGAGAAGT
112678 AGACCAAAAT
Statistics
Matches: 494, Mismatches: 62, Indels: 21
0.86 0.11 0.04
Matches are distributed among these distances:
206 149 0.30
207 108 0.22
208 192 0.39
209 45 0.09
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (207 bp):
GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAGAGTGAGCAA
ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAGCGGTTACCT
TCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGATACAAAGAAGTGGATCA
AAACAACGAGGC
Found at i:113225 original size:17 final size:17
Alignment explanation
Indices: 113197--113289 Score: 105
Period size: 17 Copynumber: 5.5 Consensus size: 17
113187 AATTTGAAAT
* *
113197 TTTAATTTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
113214 TTTGAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* * *
113231 TTTAAACTTACTTTAAG
1 TTTAAATTTATTTTAAA
* *
113248 TTTGAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
113265 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
113282 TTAAAATT
1 TTTAAATT
113290 AATTAAGGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 63 1.00
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:113236 original size:6 final size:6
Alignment explanation
Indices: 113186--113289 Score: 54
Period size: 6 Copynumber: 17.8 Consensus size: 6
113176 AATTGAACCC
* * * * * *
113186 AAATTT GAAATTT TAATTT TATTTT AAGTTT GAATTT -ATTTT AAATTT
1 AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * * *
113234 AAACTT -ACTTT AAGTTT GAATTT -ACTTT AAATTT AAATTT -ATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
113279 AAATTA AAATT
1 AAATTT AAATT
113290 AATTAAGGAA
Statistics
Matches: 74, Mismatches: 19, Indels: 9
0.73 0.19 0.09
Matches are distributed among these distances:
5 15 0.20
6 53 0.72
7 6 0.08
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (6 bp):
AAATTT
Found at i:113246 original size:34 final size:34
Alignment explanation
Indices: 113208--113280 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
113198 TTAATTTTAT
*
113208 TTTAAGTTTGAATTTATTTTAAATTTAAACTTAC
1 TTTAAGTTTGAATTTACTTTAAATTTAAACTTAC
* *
113242 TTTAAGTTTGAATTTACTTTAAATTTAAATTTAT
1 TTTAAGTTTGAATTTACTTTAAATTTAAACTTAC
113276 TTTAA
1 TTTAA
113281 ATTAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (34 bp):
TTTAAGTTTGAATTTACTTTAAATTTAAACTTAC
Found at i:113941 original size:72 final size:73
Alignment explanation
Indices: 113858--114012 Score: 258
Period size: 72 Copynumber: 2.1 Consensus size: 73
113848 TTGTTTGATT
* * * *
113858 TTTATTATATATTTAATACATTTATTATTTCCTTTAATATTCGGGACGTTTTGTATGTA-ATATA
1 TTTATTATATATTTAATACATTTATTATTTCCTTTAATATCCAGGACATTTTGTATATAGATATA
113922 TTAATATA
66 TTAATATA
*
113930 TTTATTATATATTTAATACATTTATTATTTCCTTTAATATCCAGGACATTTTGTATATAGATGTA
1 TTTATTATATATTTAATACATTTATTATTTCCTTTAATATCCAGGACATTTTGTATATAGATATA
113995 TTAATATA
66 TTAATATA
114003 TTTATTATAT
1 TTTATTATAT
114013 TATTATTTAT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 55 0.71
73 22 0.29
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (73 bp):
TTTATTATATATTTAATACATTTATTATTTCCTTTAATATCCAGGACATTTTGTATATAGATATA
TTAATATA
Found at i:113947 original size:20 final size:19
Alignment explanation
Indices: 113917--113957 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
113907 TTTGTATGTA
*
113917 ATATATTAATATATTTATT
1 ATATATTAATACATTTATT
113936 ATATATTTAATACATTTATT
1 ATATA-TTAATACATTTATT
113956 AT
1 AT
113958 TTCCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATATTAATACATTTATT
Found at i:115136 original size:29 final size:29
Alignment explanation
Indices: 115103--115508 Score: 243
Period size: 29 Copynumber: 13.9 Consensus size: 29
115093 CCACTAAACT
*
115103 TTCCAAAAATTATATTTTTACCCTCGAAC
1 TTCCAAAAATTACATTTTTACCCTCGAAC
* * *
115132 TTCCAAAATTTACATTTTAACCCT-AAAC
1 TTCCAAAAATTACATTTTTACCCTCGAAC
* * * **
115160 TTTTCAAAAATTACATTTTGAACCTTTAAC
1 -TTCCAAAAATTACATTTTTACCCTCGAAC
* * * *
115190 TTTTCAAAAATCACATTTTTGCCC-CTAAAC
1 -TTCCAAAAATTACATTTTTACCCTC-GAAC
*
115220 TTCTAAAAATTACATTTTTGA--CTCGAAC
1 TTCCAAAAATTACATTTTT-ACCCTCGAAC
* * *
115248 ATCCAAAAATCACCA-TTTTACCCCCGAAC
1 TTCCAAAAATTA-CATTTTTACCCTCGAAC
* * * *
115277 ATCCAAAAAATACCATTTTT-CCCTTGGA-
1 TTCCAAAAATTA-CATTTTTACCCTCGAAC
*
115305 TGTCAAAAAAATTACATTTTTGA-CC-CGAAC
1 T-TC-CAAAAATTACATTTTT-ACCCTCGAAC
*
115335 TTTTCAAAAATTACCA-TTTTACCC-CTGAAC
1 -TTCCAAAAATTA-CATTTTTACCCTC-GAAC
*
115365 ATCCAAAAATTACCA-TTTTACCCTCGAA-
1 TTCCAAAAATTA-CATTTTTACCCTCGAAC
* *
115393 TGTCCAAAAATTACATTTTTAACCCCCAAAC
1 T-TCCAAAAATTACATTTTT-ACCCTCGAAC
*
115424 TTTCC-AAAATTACCATTTTGACCCT-GAAC
1 -TTCCAAAAATTA-CATTTTTACCCTCGAAC
* *
115453 TTTCCAAAAGTTACCA-TTTTACCCCCGAAC
1 -TTCCAAAAATTA-CATTTTTACCCTCGAAC
*
115483 ATCCAAAAATTATCA-TTTTACCCTCG
1 TTCCAAAAATTA-CATTTTTACCCTCG
115509 GGTGTTTGAA
Statistics
Matches: 299, Mismatches: 51, Indels: 54
0.74 0.13 0.13
Matches are distributed among these distances:
27 1 0.00
28 23 0.08
29 186 0.62
30 78 0.26
31 10 0.03
32 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTTACCCTCGAAC
Found at i:115373 original size:59 final size:58
Alignment explanation
Indices: 115099--115505 Score: 230
Period size: 59 Copynumber: 7.0 Consensus size: 58
115089 TTGACCACTA
* * * * * *
115099 AACTTTCCAAAAATTA-TATTTTTACCCTCGAACTTCCAAAATTTA-CATTTTAACCCTA
1 AACTTTCCAAAAATTACCA-TTTTACCCCCGAACATCCAAAAATTACCATTTTGACCC-G
* * *** * * * * *
115157 AACTTTTCAAAAATTA-CATTTTGAACCTTTAACTTTTCAAAAATCA-CATTTTTGCCCCTA
1 AACTTTCCAAAAATTACCATTTT-ACCCCCGAAC-ATCCAAAAATTACCA-TTTTGACCC-G
* *** * *
115217 AAC-TTCTAAAAATTA-CATTTTTGACTCGAACATCCAAAAATCACCATTTT-ACCCCCG
1 AACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTGA--CCCG
* * * ** * ** *
115274 AAC-ATCCAAAAAATACCATTTTTCCCTTGGATGTCAAAAAAATTA-CATTTTTGACCCG
1 AACTTTCCAAAAATTACCATTTTACCCCCGAACATC-CAAAAATTACCA-TTTTGACCCG
* *
115332 AACTTTTCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTACCATTTT-ACCCTCG
1 AACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTGA-CC-CG
* * *
115391 AA-TGTCCAAAAATTA-CATTTTTAACCCCCAAACTTTCC-AAAATTACCATTTTGACCCTG
1 AACTTTCCAAAAATTACCA-TTTT-ACCCCCGAAC-ATCCAAAAATTACCATTTTGACCC-G
* *
115450 AACTTTCCAAAAGTTACCATTTTACCCCCGAACATCCAAAAATTATCATTTT-ACCC
1 AACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTGACCC
115506 TCGGGTGTTT
Statistics
Matches: 276, Mismatches: 51, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
57 33 0.12
58 92 0.33
59 117 0.42
60 32 0.12
61 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.33
Consensus pattern (58 bp):
AACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTGACCCG
Found at i:115379 original size:88 final size:86
Alignment explanation
Indices: 115224--115501 Score: 315
Period size: 88 Copynumber: 3.2 Consensus size: 86
115214 CTAAACTTCT
* * * * * *
115224 AAAAATTACATTTTTGACTCGAACATCCAAAAATCACCATTTTACCCCCGAACATCCAAAAAATA
1 AAAAATTACATTTTTGACCCGAACTTTCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTA
* * *
115289 CCATTTTTCCCTTGGATGTCAA
66 CCATTTTACCCTCGAATGTC-A
115311 AAAAATTACATTTTTGACCCGAACTTTTCAAAAATTACCATTTTACCCCTGAACATCCAAAAATT
1 AAAAATTACATTTTTGACCCGAAC-TTTCAAAAATTACCATTTTACCCCTGAACATCCAAAAATT
*
115376 ACCATTTTACCCTCGAATGTCC
65 ACCATTTTACCCTCGAATGTCA
* * * *
115398 AAAAATTACATTTTTAACCCCCAAACTTTCCAAAATTACCATTTTGA-CCCTGAACTTTCCAAAA
1 AAAAATTACATTTTTGA--CCCGAACTTTCAAAAATTACCATTTT-ACCCCTGAAC-ATCCAAAA
* * ** *
115462 GTTACCATTTTACCCCCGAACATCC
62 ATTACCATTTTACCCTCGAATGTCA
115487 AAAAATTATCATTTT
1 AAAAATTA-CATTTT
115502 ACCCTCGGGT
Statistics
Matches: 167, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
87 39 0.23
88 79 0.47
89 43 0.26
90 6 0.04
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (86 bp):
AAAAATTACATTTTTGACCCGAACTTTCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTA
CCATTTTACCCTCGAATGTCA
Found at i:115502 original size:89 final size:88
Alignment explanation
Indices: 115104--115501 Score: 285
Period size: 88 Copynumber: 4.5 Consensus size: 88
115094 CACTAAACTT
* * * * *
115104 TCCAAAAATTA-TATTTTTACCCTCGAACTTCCAAAATTTACA-TTTTAA-CCCTAAACTTTTCA
1 TCCAAAAATTACCA-TTTTACCCCCGAACATCCAAAAATTACATTTTTAACCCCCAAAC-TTTCA
* * * *
115166 AAAATTA-CATTTTGAACCTTTAACTT
64 AAAATTACCATTTT-ACCCCTGAAC-A
* * * ** * * * * * * *
115192 TTCAAAAATCA-CATTTTTGCCCCTAAACTTCTAAAAATTACATTTTTGA--CTCGAACATCCAA
1 TCCAAAAATTACCA-TTTTACCCCCGAACATCCAAAAATTACATTTTTAACCCCCAAACTTTCAA
* *
115254 AAATCACCATTTTACCCCCGAACA
65 AAATTACCATTTTACCCCTGAACA
* * ** * ** * * *
115278 TCCAAAAAATACCATTTTTCCCTTGGATGTCAAAAAAATTACATTTTTGA--CCCGAACTTTTCA
1 TCCAAAAATTACCATTTTACCCCCGAACATC-CAAAAATTACATTTTTAACCCCCAAAC-TTTCA
115341 AAAATTACCATTTTACCCCTGAACA
64 AAAATTACCATTTTACCCCTGAACA
* ** *
115366 TCCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTAACCCCCAAACTTTCCAA
1 TCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACATTTTTAACCCCCAAACTTTCAAA
*
115431 AATTACCATTTTGA-CCCTGAACTT
66 AATTACCATTTT-ACCCCTGAAC-A
*
115455 TCCAAAAGTTACCATTTTACCCCCGAACATCCAAAAATTATCATTTT
1 TCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTA-CATTTT
115502 ACCCTCGGGT
Statistics
Matches: 251, Mismatches: 49, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
86 19 0.08
87 56 0.22
88 122 0.49
89 48 0.19
90 6 0.02
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.34
Consensus pattern (88 bp):
TCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACATTTTTAACCCCCAAACTTTCAAA
AATTACCATTTTACCCCTGAACA
Found at i:115520 original size:29 final size:29
Alignment explanation
Indices: 115340--115563 Score: 141
Period size: 29 Copynumber: 7.7 Consensus size: 29
115330 CGAACTTTTC
*** *
115340 AAAAATTACCATTTTACCC-CTGAACATCC
1 AAAAATTACCATTTTACCCTC-GAGTGTCT
* *
115369 AAAAATTACCATTTTACCCTCGAATGTCC
1 AAAAATTACCATTTTACCCTCGAGTGTCT
* * * *
115398 AAAAATTA-CATTTTTAACCCCCAAACTTTC-
1 AAAAATTACCA-TTTT-ACCCTC-GAGTGTCT
* * * *
115428 CAAAATTACCATTTTGACCCT-GAACTTTCC
1 AAAAATTACCATTTT-ACCCTCG-AGTGTCT
* * *** *
115458 AAAAGTTACCATTTTACCCCCGAACATCC
1 AAAAATTACCATTTTACCCTCGAGTGTCT
* * *
115487 AAAAATTATCATTTTACCCTCGGGTGTTT
1 AAAAATTACCATTTTACCCTCGAGTGTCT
* *
115516 GAAAATTACCGTTTTACCCTCGAGTGTCT
1 AAAAATTACCATTTTACCCTCGAGTGTCT
115545 AAAAATTACCATTTTACCC
1 AAAAATTACCATTTTACCC
115564 CCCCAAACAT
Statistics
Matches: 155, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
28 2 0.01
29 112 0.72
30 35 0.23
31 6 0.04
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.32
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCGAGTGTCT
Found at i:115524 original size:118 final size:117
Alignment explanation
Indices: 115099--115508 Score: 345
Period size: 117 Copynumber: 3.5 Consensus size: 117
115089 TTGACCACTA
* * * * *
115099 AACTTTCCAAAAATTA-TATTTTTACCCTCGAACTTCCAAAATTTA-CATTTTAACCCT-AAACT
1 AACTTTCCAAAAATTACCA-TTTTACCCCCGAACATCCAAAAATTACCATTTT-ACCCTCGAA-T
* * * *** * * * *
115161 TTTCAAAAATTACATTTTGAA-CCTTTAACTTTTCAAAAATCACATTTTTGCCCCTA
63 GTCCAAAAATTACATTTTTAACCCCCAAAC-TTTCCAAAATTACATTTTTGACCC-G
* *** * * * **
115217 AAC-TTCTAAAAATTA-CATTTTTGACTCGAACATCCAAAAATCACCATTTTACCCCCGAACATC
1 AACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTACCCTCGAATGTC
* **** * *
115280 CAAAAAATACCATTTTT--CCCTTGGA-TGTCAAAAAAATTACATTTTTGACCCG
66 CAAAAATTA-CATTTTTAACCCCCAAACTTTC--CAAAATTACATTTTTGACCCG
* *
115332 AACTTTTCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTACCATTTTACCCTCGAATGTC
1 AACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTACCCTCGAATGTC
115397 CAAAAATTACATTTTTAACCCCCAAACTTTCCAAAATTACCA-TTTTGACCCTG
66 CAAAAATTACATTTTTAACCCCCAAACTTTCCAAAATTA-CATTTTTGACCC-G
* *
115450 AACTTTCCAAAAGTTACCATTTTACCCCCGAACATCCAAAAATTATCATTTTACCCTCG
1 AACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTACCCTCG
115509 GGTGTTTGAA
Statistics
Matches: 236, Mismatches: 43, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
114 3 0.01
115 3 0.01
116 73 0.31
117 89 0.38
118 65 0.28
119 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (117 bp):
AACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTACCCTCGAATGTC
CAAAAATTACATTTTTAACCCCCAAACTTTCCAAAATTACATTTTTGACCCG
Found at i:115531 original size:58 final size:58
Alignment explanation
Indices: 115243--115617 Score: 246
Period size: 59 Copynumber: 6.4 Consensus size: 58
115233 ATTTTTGACT
* * ** * * * *
115243 CGAACATCCAAAAATCACCATTTTACCCCCGAACATCCAAAAAATACCATTTTTCCCT
1 CGAACATCCAAAAATTACCATTTTACCCTCGAATGTTCAAAAATTACCATTTTACCCC
* * ** * *
115301 TGGATGTCAAAAAAATTA-CATTTTTGA-CC-CGAACTTTTCAAAAATTACCATTTTACCCC
1 CGAACATC-CAAAAATTACCA-TTTT-ACCCTCGAA-TGTTCAAAAATTACCATTTTACCCC
* *
115360 TGAACATCCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTA-CATTTTTAACCCC
1 CGAACATCCAAAAATTACCATTTTACCCTCGAATGTTCAAAAATTACCA-TTTT-ACCCC
* * *
115419 CAAACTTTCC-AAAATTACCATTTTGACCCT-GAACT-TTCCAAAAGTTACCATTTTACCCC
1 CGAAC-ATCCAAAAATTACCATTTT-ACCCTCGAA-TGTT-CAAAAATTACCATTTTACCCC
* ** ** * *
115478 CGAACATCCAAAAATTATCATTTTACCCTCGGGTGTTTGAAAATTACCGTTTTACCCT
1 CGAACATCCAAAAATTACCATTTTACCCTCGAATGTTCAAAAATTACCATTTTACCCC
*** * * * *** * * *
115536 CGAGTGTCTAAAAATTACCATTTTACCCCCCCAAACATCCAAAATTACCATTTTGCCCT
1 CGAACATCCAAAAATTACCATTTTA-CCCTCGAATGTTCAAAAATTACCATTTTACCCC
115595 CG-ACATCCAAAAATTA-CATTTTA
1 CGAACATCCAAAAATTACCATTTTA
115618 ACTCCATTTG
Statistics
Matches: 246, Mismatches: 53, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
57 10 0.04
58 94 0.38
59 118 0.48
60 22 0.09
61 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.31
Consensus pattern (58 bp):
CGAACATCCAAAAATTACCATTTTACCCTCGAATGTTCAAAAATTACCATTTTACCCC
Found at i:122390 original size:12 final size:13
Alignment explanation
Indices: 122359--122393 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
122349 TCAGAATCTG
122359 AGAAAAAATACAA
1 AGAAAAAATACAA
122372 AGAAAAAATACAA
1 AGAAAAAATACAA
*
122385 CGAAAAAAT
1 AGAAAAAAT
122394 TTTCAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (13 bp):
AGAAAAAATACAA
Found at i:129117 original size:29 final size:29
Alignment explanation
Indices: 129075--129133 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
129065 TTGATTAAGG
129075 TATAGATCAGGTAAAGGTGCAAAACTGGT
1 TATAGATCAGGTAAAGGTGCAAAACTGGT
129104 TATAGATCAGGTAAAGGTGCAAAACTGGT
1 TATAGATCAGGTAAAGGTGCAAAACTGGT
129133 T
1 T
129134 GATTTGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.25
Consensus pattern (29 bp):
TATAGATCAGGTAAAGGTGCAAAACTGGT
Found at i:129255 original size:36 final size:36
Alignment explanation
Indices: 129215--129323 Score: 191
Period size: 36 Copynumber: 3.0 Consensus size: 36
129205 TTCAAAAACT
* *
129215 ATTAGTGGGTTCAATGAGCCCTCAAAATTTATTGAG
1 ATTAGTGGGTTCAACGAGTCCTCAAAATTTATTGAG
129251 ATTAGTGGGTTCAACGAGTCCTCAAAATTTATTGAG
1 ATTAGTGGGTTCAACGAGTCCTCAAAATTTATTGAG
129287 ATTAGTGGGTTCAACGAGTCCTCAAAATTTTATTGAG
1 ATTAGTGGGTTCAACGAGTCCTCAAAA-TTTATTGAG
129324 GGAAATAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 61 0.87
37 9 0.13
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (36 bp):
ATTAGTGGGTTCAACGAGTCCTCAAAATTTATTGAG
Found at i:131118 original size:19 final size:20
Alignment explanation
Indices: 131083--131123 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
131073 TATTTTTACT
* *
131083 AATTTAAAATTTTTAAA-AA
1 AATTTAAAATATCTAAATAA
131102 AATTTAAAATATCTAAATAA
1 AATTTAAAATATCTAAATAA
131122 AA
1 AA
131124 ATAATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTTAAAATATCTAAATAA
Found at i:132620 original size:56 final size:56
Alignment explanation
Indices: 132534--132656 Score: 219
Period size: 56 Copynumber: 2.2 Consensus size: 56
132524 CAACACTTAG
132534 AATTTTTTTTTCTAATTCATCAAGTCCGCATGTATAATATTTTTGTGAGATTAATA
1 AATTTTTTTTTCTAATTCATCAAGTCCGCATGTATAATATTTTTGTGAGATTAATA
*
132590 AATTTTTTTTTCTAATTCATCAAGTCCGCATGTATAATATTTTTGTGAGATTGATA
1 AATTTTTTTTTCTAATTCATCAAGTCCGCATGTATAATATTTTTGTGAGATTAATA
*
132646 AGAATTTTTTT
1 A-ATTTTTTTT
132657 CTAGTAAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
56 56 0.88
57 8 0.12
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.50
Consensus pattern (56 bp):
AATTTTTTTTTCTAATTCATCAAGTCCGCATGTATAATATTTTTGTGAGATTAATA
Found at i:143552 original size:162 final size:161
Alignment explanation
Indices: 143158--143961 Score: 1140
Period size: 162 Copynumber: 5.0 Consensus size: 161
143148 TATAGGGAAT
* *
143158 CATGGCAGGAGATGATAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATAACAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * *
143223 TACTAAATCATGATGAAAATCCGGGAATATAGGTTTCCGAGGATCACCAATCTCCAATCCAAATC
66 TACTAAATCACGATGAAAATCCGGGAATATTGGTTTCCGAGGATCACCAATCTCCTAT-CAAATC
* *
143288 AATAAGGTTCATTCAAGTT--GAGTAAAAAAC
130 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
143318 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* *
143383 TACTAAATCACGATAAAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCAAAATC
66 TACTAAATCACGATGAAAATCCGGGAATATTGGTTTCCGAGGATCACCAATCTCCTATC-AAATC
*
143448 AATAAGGTTCATTCAAGTTCAGAGTAAACAAC
130 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
* * * *
143480 CATGGTAGGAGATGAAAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGACGATAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * *
143545 TACTAAATCAAGATGAAAATCTGGGAATATTGGTTTCTGAGGATCACCGAA----C---CAAATC
66 TACTAAATCACGATGAAAATCCGGGAATATTGGTTTCCGAGGATCACC-AATCTCCTATCAAATC
143603 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
130 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
* * *
143635 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCTTAGTCCCTAGATGATAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * *
143700 TACTAAATCACGATGAAAATCCAGGAATAATGGTTTCCGAGGAACACCAATCTCCTATTCAAATC
66 TACTAAATCACGATGAAAATCCGGGAATATTGGTTTCCGAGGATCACCAATCTCCTA-TCAAATC
* *
143765 GATAAGTTTCATTCAAGTTCAGAGCAAACAAC
130 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
* * * *
143797 CATGGGAGGAGATGACAGTCAAACAAAAGTGAACTTCCTTAGTCTCGAGATGACAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * * * * * * ** * *
143862 TGCTAAATCACAATGAAAATCTGAGAATTTTGGTTTGCGAGGAACACCGGTCTCCTAACCAAACC
66 TACTAAATCACGATGAAAATCCGGGAATATTGGTTTCCGAGGATCACCAATCTCCT-ATCAAATC
143927 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
130 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
143959 CAT
1 CAT
143962 AGCACAAAAA
Statistics
Matches: 582, Mismatches: 49, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
154 2 0.00
155 138 0.24
156 1 0.00
158 1 0.00
159 2 0.00
160 141 0.24
162 294 0.51
163 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (161 bp):
CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
TACTAAATCACGATGAAAATCCGGGAATATTGGTTTCCGAGGATCACCAATCTCCTATCAAATCG
ATAAGGTTCATTCAAGTTCAGAGTAAACAAC
Found at i:143750 original size:317 final size:316
Alignment explanation
Indices: 143158--143961 Score: 1123
Period size: 317 Copynumber: 2.5 Consensus size: 316
143148 TATAGGGAAT
* *
143158 CATGGCAGGAGATGATAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATAACAAACCAAGCTA
1 CATGGCAGGAGATGAAAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * * *
143223 TACTAAATCATGATGAAAATCCGGGAATATAGGTTTCCGAGGATCACCAATCTCCAATCCAAATC
66 TACTAAATCAAGATGAAAATCTGGGAATATTGGTTT-CGAGGAT---C-A-C-CGAA-CCAAATC
* *
143288 AATAAGGTTCATTCAAGTT--GAGTAAAAAACCATGGCAGGAGATGACAATCAAACAAAAGTGAA
123 GATAAGGTTCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAA
* *
143351 CTTCCCTAGTCTCTAGATGACAAACCAAGCTATACTAAATCACGATAAAAATCCGGGAATATCGG
188 CTTCCCTAGTCCCTAGATGACAAACCAAGCTATACTAAATCACGATAAAAATCCAGGAATATCGG
* *
143416 TTTCCGAGGATCACCAATCTCCTA-TCAAAATCAATAAGGTTCATTCAAGTTCAGAGTAAACAAC
253 TTTCCGAGGAACACCAATCTCCTATTC-AAATCAATAAGGTTCATTCAAGTTCAGAGCAAACAAC
* * *
143480 CATGGTAGGAGATGAAAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGACGATAAACCAAGCTA
1 CATGGCAGGAGATGAAAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
143545 TACTAAATCAAGATGAAAATCTGGGAATATTGGTTTCTGAGGATCACCGAACCAAATCGATAAGG
66 TACTAAATCAAGATGAAAATCTGGGAATATTGGTTTC-GAGGATCACCGAACCAAATCGATAAGG
*
143610 TTCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCTT
130 TTCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCT
* *
143675 AGTCCCTAGATGATAAACCAAGCTATACTAAATCACGATGAAAATCCAGGAATAAT-GGTTTCCG
195 AGTCCCTAGATGACAAACCAAGCTATACTAAATCACGATAAAAATCCAGGAAT-ATCGGTTTCCG
* *
143739 AGGAACACCAATCTCCTATTCAAATCGATAAGTTTCATTCAAGTTCAGAGCAAACAAC
259 AGGAACACCAATCTCCTATTCAAATCAATAAGGTTCATTCAAGTTCAGAGCAAACAAC
* * * * *
143797 CATGGGAGGAGATGACAGTCAAACAAAAGTGAACTTCCTTAGTCTCGAGATGACAAACCAAGCTA
1 CATGGCAGGAGATGAAAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * * * *
143862 TGCTAAATCACA-ATGAAAATCTGAGAATTTTGGTTTGCGAGGAACACCGGTCTCCTAACCAAAC
66 TACTAAATCA-AGATGAAAATCTGGGAATATTGGTTT-CGAGGATCACC-G------AACCAAAT
143926 CGATAAGGTTCATTCAAGTTCAGAGTAAACAACCAT
122 CGATAAGGTTCATTCAAGTTCAGAGTAAACAACCAT
143962 AGCACAAAAA
Statistics
Matches: 436, Mismatches: 32, Indels: 26
0.88 0.06 0.05
Matches are distributed among these distances:
315 25 0.06
316 3 0.01
317 256 0.59
318 8 0.02
319 1 0.00
321 1 0.00
322 99 0.23
324 43 0.10
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (316 bp):
CATGGCAGGAGATGAAAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
TACTAAATCAAGATGAAAATCTGGGAATATTGGTTTCGAGGATCACCGAACCAAATCGATAAGGT
TCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTA
GTCCCTAGATGACAAACCAAGCTATACTAAATCACGATAAAAATCCAGGAATATCGGTTTCCGAG
GAACACCAATCTCCTATTCAAATCAATAAGGTTCATTCAAGTTCAGAGCAAACAAC
Found at i:149363 original size:20 final size:20
Alignment explanation
Indices: 149338--149404 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
149328 CACATATTAT
149338 ATGTTTATATTTTATTTTTA
1 ATGTTTATATTTTATTTTTA
* * **
149358 ATGTTTAGATTTAAGGTTTA
1 ATGTTTATATTTTATTTTTA
*
149378 A-GGTTATA-TTTATATTTTA
1 ATGTTTATATTTTAT-TTTTA
*
149397 ATATTTAT
1 ATGTTTAT
149405 TTGTGTAAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
18 3 0.09
19 10 0.29
20 21 0.62
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (20 bp):
ATGTTTATATTTTATTTTTA
Found at i:152628 original size:29 final size:29
Alignment explanation
Indices: 152596--152658 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
152586 TAATGTCAGT
*
152596 ACAAAATAGCACTAAAGTGC-TTAATCATA
1 ACAAAATAGCACTAAAGTGCATTAA-CAAA
* * *
152625 ACAAAGTGGCATTAAAGTGCATTAACAAA
1 ACAAAATAGCACTAAAGTGCATTAACAAA
152654 ACAAA
1 ACAAA
152659 GAGCACGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.21
Consensus pattern (29 bp):
ACAAAATAGCACTAAAGTGCATTAACAAA
Found at i:156686 original size:22 final size:22
Alignment explanation
Indices: 156658--156700 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
156648 TGCTTTAAGT
156658 TTCCTAAACTATGACCCTGAGA
1 TTCCTAAACTATGACCCTGAGA
*
156680 TTCCTAAACTATGAGCCTGAG
1 TTCCTAAACTATGACCCTGAG
156701 TGCCAAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (22 bp):
TTCCTAAACTATGACCCTGAGA
Found at i:157126 original size:455 final size:452
Alignment explanation
Indices: 156230--157581 Score: 1756
Period size: 455 Copynumber: 3.0 Consensus size: 452
156220 TGCTTAAAGT
* ** * * * *
156230 TTCCTAAAATATGAGCCCAAGTCTCAAACTTCAAAACGTTCCAATCTATAGTATTGTAGCAATTA
1 TTCCTAAACTATGAGCCTGAGTC-CAAACTTCAAAACGTTCTAGTGTACAGTATTGTAGCAATTA
* * * * * *
156295 AGACTGATCTAAAATTGGGGCATTGTTCGGGGACATCTTGTACTATTAATCCAAATTTATATATA
65 AGACCGATCTAGAATCGGGGCATTGTTCAGGGACGTCTTGTACTATTAATCCAAATTCATATATA
** * * * *
156360 TCACACAACAACTAACTGCTAGAATAAGTAATCCCATA-GCAATGATCAATACAAAGCG-T-AAA
130 TCGTACAACAACTAACTGCTAGAATAAGCAATCCCATATAC-ATGATCAACACAAAGCGATCAGA
* * * * * *
156422 TTCAC---AAAAATATTTTCCTTCTTCTGAAAGATAACATTGATTGCAAAAGAAGAAAGAACCTT
194 -TCACAAAAAAAAAATATTCCTCCTCCTGAAAGATAACATTGATTACAAATGAAGAAAGAACCTT
* *
156484 TAAACAATGTAAGGGCATTACAGGCAGCATAGACACAGCATAAAAGTCGATGCTGCAAAGCGGAT
258 TAAACAATGTAAGGGCATTACAGGCAGCATAAACACGGCATAAAAGTCGATGCTGCAAAGCGGAT
*
156549 -ACCAACAATTGATTTCGCACATGAAGATTAAGCCAGCAGACAATTTTTAACTAGTAACCTGAAG
323 CA-CAACAATTGATTTCGCACAT-AAGATTAAGCCAGCAGACAAATTTTAACTAGTAACCTGAAG
* * * *
156613 CCTCAGTAATAGAGCATAGTTTGGATTTAATTTATTGCTTTAAGTTTCCTAAACTATGACCCTGA
386 CCTTAGTACTAGTGCATAGTTTGGATTTAATTTATTGCTTAAAGTTTCCTAAACTATGACCCTGA
156678 GA
451 GA
*
156680 TTCCTAAACTATGAGCCTGAGTGCCAAACTTCAAAACGCTCTAGTGTACCAGTATTGTAGCAATT
1 TTCCTAAACTATGAGCCTGAGT-CCAAACTTCAAAACGTTCTAGTGTA-CAGTATTGTAGCAATT
* * *
156745 AAGACCAATCTAGAATCGGGGCATTGTTCAGAGACGTCTTGTACAATTAATCCAAATTCATATAT
64 AAGACCGATCTAGAATCGGGGCATTGTTCAGGGACGTCTTGTACTATTAATCCAAATTCATATAT
** * * *
156810 ATCGTATGACAACTAACTGCTAGAATAAGCAATCTCATATACATTATCAACACAAAGTGATCAGA
129 ATCGTACAACAACTAACTGCTAGAATAAGCAATCCCATATACATGATCAACACAAAGCGATCAGA
156875 TCACAAAAAAAAACATATT-CTCCTCCTGAAAGATAACATTGATTACAAATGAAGAAAGAACCTT
194 TCACAAAAAAAAA-ATATTCCTCCTCCTGAAAGATAACATTGATTACAAATGAAGAAAGAACCTT
156939 T-AACAATGTAAGGGCATTACAGGCAGCATAAAACACGGCATAAAAGTCGATGCTGCAAAGCGGA
258 TAAACAATGTAAGGGCATTACAGGCAGCAT-AAACACGGCATAAAAGTCGATGCTGCAAAGCGGA
* *
157003 TCACAACAATTGATTTCGCAAACTATGATTAAGCCAGCAGACAAATTTTAACTAGTAACCTGAAG
322 TCACAACAATTGATTTCGCACA-TAAGATTAAGCCAGCAGACAAATTTTAACTAGTAACCTGAAG
*
157068 CCTTAGTACTAGTGCATAGTTTGGATTTAATTTATTGCTTAAAGTTTCCTAAACTATGACCCTTA
386 CCTTAGTACTAGTGCATAGTTTGGATTTAATTTATTGCTTAAAGTTTCCTAAACTATGACCCTGA
157133 GA
451 GA
* *
157135 TTCCTAAACTATGAGCCTGAGTCCCAAATTTCAAAACATTCTAGTGTATCAGTATTGTAGCAATT
1 TTCCTAAACTATGAGCCTGAGT-CCAAACTTCAAAACGTTCTAGTGTA-CAGTATTGTAGCAATT
* * * *
157200 AAGACCGATCTAGAATCAGGGCATTGTTCAGGGGCGTCTTGTACTATTAACCCAAATGCATATAT
64 AAGACCGATCTAGAATCGGGGCATTGTTCAGGGACGTCTTGTACTATTAATCCAAATTCATATAT
* * * * * * * * *
157265 ATTGTACAATAACTAATTTCTAGAATAAACAATCCCATATCCATGATCAAGACAAAGCAATCAGT
129 ATCGTACAACAACTAACTGCTAGAATAAGCAATCCCATATACATGATCAACACAAAGCGATCAGA
* *
157330 TCACAAAAATATATAAATATTTTCCTCCTCCTGAAAGATAACATTGATTACAAATGAACAAAAAA
194 TCACAAAAA-A-A-AAATA--TTCCTCCTCCTGAAAGATAACATTGATTACAAATGAAGAAAGAA
* * * * *
157395 CCTTTAAACAATGTTA-GACATTACAGGCAGCATAAACATGGCATAAAAGTCAATGCTGCAAAGT
254 CCTTTAAACAATGTAAGGGCATTACAGGCAGCATAAACACGGCATAAAAGTCGATGCTGCAAAGC
* * * * * *
157459 GGATCCCACCAATTGATTTTGCACATTAAG-TTAAGCCACCA-AGCAAATTTTAACTAGTGACTT
319 GGATCACAACAATTGATTTCGCACA-TAAGATTAAGCCAGCAGA-CAAATTTTAACTAGTAACCT
* * * * *
157522 GGAGCCTTAGTACTAGTGCATAGTTTCGATTTAACTTATTGCTTAAACTTCCCTAAACTA
382 GAAGCCTTAGTACTAGTGCATAGTTTGGATTTAATTTATTGCTTAAAGTTTCCTAAACTA
157582 CAAGACTTGG
Statistics
Matches: 791, Mismatches: 91, Indels: 32
0.87 0.10 0.04
Matches are distributed among these distances:
450 39 0.05
451 119 0.15
452 6 0.01
453 2 0.00
454 28 0.04
455 377 0.48
456 7 0.01
457 5 0.01
458 85 0.11
459 54 0.07
460 60 0.08
461 9 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (452 bp):
TTCCTAAACTATGAGCCTGAGTCCAAACTTCAAAACGTTCTAGTGTACAGTATTGTAGCAATTAA
GACCGATCTAGAATCGGGGCATTGTTCAGGGACGTCTTGTACTATTAATCCAAATTCATATATAT
CGTACAACAACTAACTGCTAGAATAAGCAATCCCATATACATGATCAACACAAAGCGATCAGATC
ACAAAAAAAAAATATTCCTCCTCCTGAAAGATAACATTGATTACAAATGAAGAAAGAACCTTTAA
ACAATGTAAGGGCATTACAGGCAGCATAAACACGGCATAAAAGTCGATGCTGCAAAGCGGATCAC
AACAATTGATTTCGCACATAAGATTAAGCCAGCAGACAAATTTTAACTAGTAACCTGAAGCCTTA
GTACTAGTGCATAGTTTGGATTTAATTTATTGCTTAAAGTTTCCTAAACTATGACCCTGAGA
Found at i:168555 original size:21 final size:21
Alignment explanation
Indices: 168531--168585 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
168521 AATTTACAAT
168531 ATTTTAATTTAATAAATGAT-A
1 ATTTTAATTTAATAAAT-ATAA
* *
168552 ATTTGACCTTTAA-AAATATAA
1 ATTTTA-ATTTAATAAATATAA
*
168573 ATTTTGATTTAAT
1 ATTTTAATTTAAT
168586 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
22 5 0.19
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTTTAATTTAATAAATATAA
Found at i:174200 original size:29 final size:28
Alignment explanation
Indices: 174160--174214 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
174150 CTTAAAAATT
*
174160 AAAAAAATATATAAAATTTTTAATTATAA
1 AAAAAAAAATATAAAATTTTT-ATTATAA
*
174189 AAAAAAAAATATAATATTTTTATTAT
1 AAAAAAAAATATAAAATTTTTATTAT
174215 TTTAACTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAAAAAAATATAAAATTTTTATTATAA
Found at i:176068 original size:109 final size:109
Alignment explanation
Indices: 175870--176100 Score: 297
Period size: 109 Copynumber: 2.1 Consensus size: 109
175860 TTGACACTTA
* * * * *
175870 GGTTTAGATCATTTCAAAATCGGGTCATCTTAGGTTGTCATTTCAAGTTTGAATCGTTTTGGATT
1 GGTTTAGATCATTTCAAAATCGGGTCATATTAGGTTGTCATTTCAAGTTCGAACCATTTTGGATG
* * *
175935 TGAGTCAGTTTAGGACAGGTTCTTTTCAGGCCTGGGTCGTTTTG
66 TGAGTCAGTTCAGGACAGGATCTTTTCAGGCCTGGGTCATTTTG
** *
175979 GGTTTAGATCATTTCAAGTTCGGGTCATATTAGGTTGTCATTTCAAGTTCGAACCATTATT-TAT
1 GGTTTAGATCATTTCAAAATCGGGTCATATTAGGTTGTCATTTCAAGTTCGAACCATT-TTGGAT
* * *
176043 GTGAGTCTGTTCGGGACTA-GATCTTTTCAGGCTTGGGTCATTTTG
65 GTGAGTCAGTTCAGGAC-AGGATCTTTTCAGGCCTGGGTCATTTTG
176088 GGTTTAGA-CATTT
1 GGTTTAGATCATTT
176101 TTGGTTCTAA
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
108 5 0.05
109 98 0.92
110 3 0.03
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.42
Consensus pattern (109 bp):
GGTTTAGATCATTTCAAAATCGGGTCATATTAGGTTGTCATTTCAAGTTCGAACCATTTTGGATG
TGAGTCAGTTCAGGACAGGATCTTTTCAGGCCTGGGTCATTTTG
Found at i:185508 original size:26 final size:27
Alignment explanation
Indices: 185479--185550 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
185469 TCAATAAATA
* *
185479 AAAAATGTATAAAATTATTAAATA-TT
1 AAAAATATATAAAATTAATAAATATTT
* *
185505 -AAAATAATATAATATTAATATATATTT
1 AAAAAT-ATATAAAATTAATAAATATTT
*
185532 AAAAATTTA-AAAATTAATA
1 AAAAATATATAAAATTAATA
185551 TGGGTGAACC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 5 0.14
26 23 0.62
27 4 0.11
28 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (27 bp):
AAAAATATATAAAATTAATAAATATTT
Found at i:186018 original size:9 final size:9
Alignment explanation
Indices: 185992--186026 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
185982 TTTGAAATTA
185992 ATTTTTTAT
1 ATTTTTTAT
186001 ATTTATTTAT
1 ATTT-TTTAT
*
186011 ATTTTTTAA
1 ATTTTTTAT
186020 ATTTTTT
1 ATTTTTT
186027 GATAACGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:186577 original size:24 final size:24
Alignment explanation
Indices: 186549--186594 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
186539 ATCGTACACC
186549 TGCTGCTGTGAGGATGGTAAATTT
1 TGCTGCTGTGAGGATGGTAAATTT
186573 TGCTGCTGTGAGGATGGTAAAT
1 TGCTGCTGTGAGGATGGTAAAT
186595 CCTCACCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.09, G:0.35, T:0.35
Consensus pattern (24 bp):
TGCTGCTGTGAGGATGGTAAATTT
Found at i:189106 original size:16 final size:17
Alignment explanation
Indices: 189085--189117 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
189075 TCAATAGTAT
189085 TTATCAA-AATAAATTA
1 TTATCAACAATAAATTA
*
189101 TTATCAACATTAAATTA
1 TTATCAACAATAAATTA
189118 AAAATGAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
TTATCAACAATAAATTA
Found at i:195853 original size:16 final size:16
Alignment explanation
Indices: 195803--195858 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
195793 TTGTCCCTAA
195803 TTTTATTTTTAA-ATT
1 TTTTATTTTTAATATT
*
195818 GTTTTAGTTGTT-ATATT
1 -TTTTA-TTTTTAATATT
195835 TTTTATTTTTAATAATT
1 TTTTATTTTTAAT-ATT
195852 TTATTAT
1 TT-TTAT
195859 AGATTCTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 4 0.12
16 13 0.39
17 12 0.36
18 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTTATTTTTAATATT
Done.