Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007727.1 Hibiscus syriacus cultivar Beakdansim tig00109978_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: 640948
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:177356 original size:16 final size:18
Alignment explanation
Indices: 177337--177374 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
177327 GGAAATGGGT
177337 TATAA-ACTAAATATA-A
1 TATAAGACTAAATATATA
*
177353 TATAAGATTAAATATATA
1 TATAAGACTAAATATATA
177371 TATA
1 TATA
177375 TATATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 9 0.47
18 5 0.26
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
TATAAGACTAAATATATA
Found at i:178596 original size:21 final size:20
Alignment explanation
Indices: 178569--178667 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
178559 AATCAGTTTC
178569 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
178590 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
178611 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
178631 ACAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
178652 GACAATCGCAACGCGA
1 CAAAATCGCAACGCGA
178668 ACACATAAAT
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 15 0.25
21 45 0.75
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:178678 original size:20 final size:20
Alignment explanation
Indices: 178634--178862 Score: 125
Period size: 20 Copynumber: 11.6 Consensus size: 20
178624 CGATTTTACA
*
178634 AAATCGCAACGCG-AA-TAT
1 AAATCGCAACGCGTAACCAT
178652 GACAATCGCAACGCG-AACACAT
1 -A-AATCGCAACGCGTAAC-CAT
* *
178674 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
178694 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
178714 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
178734 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
178754 --ATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
178772 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* *
178792 AAATCGCAACGAG-AATCCGT
1 AAATCGCAACGCGTAA-CCAT
* *
178812 AAATCGCAACGAG-AATCCGT
1 AAATCGCAACGCGTAA-CCAT
* *
178832 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
178852 AAATCGCAACG
1 AAATCGCAACG
178863 AGAATCTGTA
Statistics
Matches: 186, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
18 17 0.09
19 3 0.02
20 161 0.87
21 3 0.02
22 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:178699 original size:40 final size:39
Alignment explanation
Indices: 178655--178876 Score: 234
Period size: 40 Copynumber: 5.6 Consensus size: 39
178645 CGAATATGAC
* *
178655 AATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGAGAAC-CGTAAATCGCAACGCGTATCCGTA
* * **
178695 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTA
1 AATCGCAACGAG-AACCGTAAATCGCAACGCGTATCCGTA
* * *
178735 AATCGCAATGCGTATCCGT--ATCGCAACGCGTATCCGTA
1 AATCGCAACGAG-AACCGTAAATCGCAACGCGTATCCGTA
* * *
178773 AATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTA
1 AATCGCAACGAGAA-CCGTAAATCGCAACGCGTATCCGTA
*
178813 AATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGTA
1 AATCGCAACGAGAA-CCGTAAATCGCAACGCGT-ATCCGTA
*
178853 AATCGCAACGAGAATCTGTAAATC
1 AATCGCAACGAGAA-CCGTAAATC
178877 CGGTAGGGCA
Statistics
Matches: 158, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 30 0.19
40 125 0.79
41 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
AATCGCAACGAGAACCGTAAATCGCAACGCGTATCCGTA
Found at i:178775 original size:98 final size:98
Alignment explanation
Indices: 178656--178840 Score: 257
Period size: 98 Copynumber: 1.9 Consensus size: 98
178646 GAATATGACA
* * *
178656 ATCGCAACGCGAACACATAAATCGCAACGCGT-ATCCGTAAATCGCAACGTGTATCCGTAAATCG
1 ATCGCAACGCGAACACATAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCCGTAAATCG
* * **
178720 CAACGCGTATGGGTAAATCGCAATGCGTATCCGT
65 CAACGAGAATCCGTAAATCGCAATGCGTATCCGT
* *
178754 ATCGCAACGCGTATC-CGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAATCG
1 ATCGCAACGCG-AACACATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAATCG
178818 CAACGAGAATCCGTAAATCGCAA
65 CAACGAGAATCCGTAAATCGCAA
178841 CGATAATCCG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
97 1 0.01
98 73 0.96
99 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (98 bp):
ATCGCAACGCGAACACATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAATCGC
AACGAGAATCCGTAAATCGCAATGCGTATCCGT
Found at i:178843 original size:60 final size:60
Alignment explanation
Indices: 178673--178876 Score: 270
Period size: 60 Copynumber: 3.4 Consensus size: 60
178663 CGCGAACACA
* * * * **
178673 TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGCGT-ATGGG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACG-ATAATCCG
* * * *
178733 TAAATCGCAATGCGTATCCGT--ATCGCAACGCGTATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACGATAATCCG
*
178791 TAAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACGATAATCCG
*
178851 TAAATCGCAACGAGAATCTGTAAATC
1 TAAATCGCAACGAGAATCCGTAAATC
178877 CGGTAGGGCA
Statistics
Matches: 130, Mismatches: 11, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
57 1 0.01
58 49 0.38
60 80 0.62
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (60 bp):
TAAATCGCAACGAGAATCCGTAAATCGCAACGAGTATCCGTAAATCGCAACGATAATCCG
Found at i:178863 original size:20 final size:20
Alignment explanation
Indices: 178673--178876 Score: 208
Period size: 20 Copynumber: 10.3 Consensus size: 20
178663 CGCGAACACA
*
178673 TAAATCGCAACGCGT-ATCCG
1 TAAATCGCAACG-ATAATCCG
*
178693 TAAATCGCAACG-TGTATCCG
1 TAAATCGCAACGAT-AATCCG
* **
178713 TAAATCGCAACGCGT-ATGGG
1 TAAATCGCAACG-ATAATCCG
178733 TAAATCGCAATGCG-T-ATCCG
1 TAAATCGCAA--CGATAATCCG
*
178753 T--ATCGCAACGCGT-ATCCG
1 TAAATCGCAACG-ATAATCCG
178771 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGATAATCCG
*
178791 TAAATCGCAACGAGAATCCG
1 TAAATCGCAACGATAATCCG
*
178811 TAAATCGCAACGAGAATCCG
1 TAAATCGCAACGATAATCCG
178831 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGATAATCCG
* *
178851 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGATAATCCG
178871 TAAATC
1 TAAATC
178877 CGGTAGGGCA
Statistics
Matches: 164, Mismatches: 9, Indels: 22
0.84 0.05 0.11
Matches are distributed among these distances:
16 2 0.01
18 15 0.09
19 1 0.01
20 143 0.87
22 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGATAATCCG
Found at i:179627 original size:24 final size:24
Alignment explanation
Indices: 179588--179634 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
179578 AAATTTGGTC
179588 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
179612 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
179635 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:179826 original size:12 final size:12
Alignment explanation
Indices: 179809--179833 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
179799 ATATAATCCT
179809 GAAGAAGAAAAA
1 GAAGAAGAAAAA
179821 GAAGAAGAAAAA
1 GAAGAAGAAAAA
179833 G
1 G
179834 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:182190 original size:33 final size:33
Alignment explanation
Indices: 182153--182346 Score: 137
Period size: 33 Copynumber: 5.7 Consensus size: 33
182143 GCAACGAGAG
182153 AATCGCAATGCGAAATGAAAATCCCAACATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACATGAA
* *
182186 AATCGCAATGCGGAAATAAAAATCGCAACGA-GAA
1 AATCGCAATGC-GAAATGAAAATCCCAAC-ATGAA
*
182220 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
* * * * *
182258 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACATGAA
* * * * *
182291 AATCGCAACGAGATAATCG-CAATGCGAA-ATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACATGAA
182324 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
182347 GCATTGCGAT
Statistics
Matches: 136, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
31 1 0.01
32 6 0.04
33 74 0.54
34 29 0.21
35 2 0.01
37 1 0.01
38 14 0.10
39 8 0.06
40 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAA
Found at i:182208 original size:34 final size:33
Alignment explanation
Indices: 182139--182242 Score: 147
Period size: 33 Copynumber: 3.1 Consensus size: 33
182129 CGGAAATTAC
* *
182139 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCCCAACGAGAAAATCGCAATGCGAAATGAA
*
182172 AATCCCAAC-ATGAAAATCGCAATGCGGAAATAAA
1 AATCCCAACGA-GAAAATCGCAATGC-GAAATGAA
*
182206 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
1 AATCCCAACGAGAAAATCGCAATGCGAAATGAA
182239 AATC
1 AATC
182243 GCAATGCGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
32 1 0.02
33 32 0.51
34 29 0.46
35 1 0.02
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (33 bp):
AATCCCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:182267 original size:52 final size:52
Alignment explanation
Indices: 182181--182355 Score: 225
Period size: 52 Copynumber: 3.3 Consensus size: 52
182171 AAATCCCAAC
*
182181 ATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAAAATCGCAATGCGAA
*
182234 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAA
*
182286 ATGAAAATCGCAA--CG--A-GATAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAA
*
182338 ATGAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
182356 TTCTCTCGTT
Statistics
Matches: 109, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
47 10 0.09
48 1 0.01
49 2 0.02
50 2 0.02
51 1 0.01
52 75 0.69
53 16 0.15
54 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAA
Found at i:182354 original size:19 final size:19
Alignment explanation
Indices: 182153--182355 Score: 212
Period size: 19 Copynumber: 11.7 Consensus size: 19
182143 GCAACGAGAG
182153 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
182172 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
182186 AATCGCAATGCGGAAATAAA
1 AATCGCAATGC-GAAATGAA
182206 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
182220 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
182239 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
182258 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
182272 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
182291 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
182305 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
182324 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
182343 AATCGCATTGCGA
1 AATCGCAATGCGA
182356 TTCTCTCGTT
Statistics
Matches: 154, Mismatches: 9, Indels: 42
0.75 0.04 0.20
Matches are distributed among these distances:
14 42 0.27
15 3 0.02
16 7 0.05
17 6 0.04
18 4 0.03
19 80 0.52
20 12 0.08
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:182369 original size:85 final size:85
Alignment explanation
Indices: 182153--182349 Score: 333
Period size: 85 Copynumber: 2.3 Consensus size: 85
182143 GCAACGAGAG
* *
182153 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATAAAAATCGCAACGA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATAAAAATCGCAACGA
182217 GAAAATCGCAATGCGAAATGAA
64 GAAAATCGCAATGCGAAATGAA
*
182239 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGAGA
*
182304 TAATCGCAATGCGAAATGAA
66 AAATCGCAATGCGAAATGAA
182324 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
182350 TTGCGATTCT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
85 65 0.61
86 40 0.38
87 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (85 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGAGA
AAATCGCAATGCGAAATGAA
Found at i:182458 original size:52 final size:53
Alignment explanation
Indices: 182345--182461 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
182335 GAAATGAAAA
182345 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
182398 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
182450 TCGCATTGCGAT
1 TCGCATTGCGAT
182462 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:182469 original size:19 final size:19
Alignment explanation
Indices: 182364--182461 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
182354 GATTCTCTCG
182364 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
182384 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
182403 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
182417 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
182436 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
182455 TTGCGAT
1 TTGCGAT
182462 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:182583 original size:14 final size:14
Alignment explanation
Indices: 182564--182600 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
182554 CATCAATTAC
182564 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
182578 ACAAATCATCTTTT
1 ACAAATCAACTTTT
182592 ACAAATCAA
1 ACAAATCAA
182601 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:184564 original size:19 final size:19
Alignment explanation
Indices: 184524--184658 Score: 83
Period size: 19 Copynumber: 7.6 Consensus size: 19
184514 TAGTTTACTT
* *
184524 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
*
184544 TCGCAATGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
184563 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
184582 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
**
184596 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
184615 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
**
184629 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
184648 TCGCAATGCGA
1 TCGCAACGCGA
184659 TTTTGGTTTC
Statistics
Matches: 92, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
14 18 0.20
15 1 0.01
16 6 0.07
17 6 0.07
18 1 0.01
19 48 0.52
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:184599 original size:14 final size:14
Alignment explanation
Indices: 184580--184636 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
184570 GCGAAATGAA
*
184580 AATCGCAACGACAG
1 AATCGCAACGAAAG
184594 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
184611 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
184627 AATCGCAACG
1 AATCGCAACG
184637 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:184603 original size:33 final size:33
Alignment explanation
Indices: 184561--184653 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
184551 GCGAAACCAA
*
184561 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
184594 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
184627 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
184654 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:184696 original size:33 final size:32
Alignment explanation
Indices: 184654--184779 Score: 157
Period size: 33 Copynumber: 3.8 Consensus size: 32
184644 AAAATCGCAA
184654 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGAT-TTGTCGT
184687 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TGTCGT
**
184720 TGCGATTTTTATTTCGCGTTGCGATTTTGTCGCGT
1 TGCGATTTTGGTTTCGCGTTGCGA-TTTGT--CGT
**
184755 TGCGATTTTAATTT--CGTTGCGATTT
1 TGCGATTTTGGTTTCGCGTTGCGATTT
184780 TTGCAAATTG
Statistics
Matches: 86, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.05
33 64 0.74
34 2 0.02
35 16 0.19
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.48
Consensus pattern (32 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTGTCGT
Found at i:184774 original size:17 final size:16
Alignment explanation
Indices: 184716--184780 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 16
184706 TGCGATTCTG
184716 TCGTTGCGATTTTTATT
1 TCGTTGCGA-TTTTATT
* *
184733 TCGCGTTGCGATTTTGTC
1 T--CGTTGCGATTTTATT
*
184751 GCGTTGCGATTTTAATT
1 TCGTTGCGATTTT-ATT
184768 TCGTTGCGATTTT
1 TCGTTGCGATTTT
184781 TGCAAATTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 12 0.31
17 14 0.36
18 5 0.13
19 8 0.21
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (16 bp):
TCGTTGCGATTTTATT
Found at i:184964 original size:93 final size:93
Alignment explanation
Indices: 184803--185176 Score: 691
Period size: 93 Copynumber: 4.1 Consensus size: 93
184793 CGAAATTGCA
184803 TTAC-TTCAACC-AAAGACAAAACAAAGACAAATACTATTT-ACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
184865 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
184893 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
184958 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
184986 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
185051 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
* *
185079 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAATGAATACACAATT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
* *
185144 TAGCATAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
185172 TTACT
1 TTACT
185177 AAGCAATCTA
Statistics
Matches: 277, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
90 4 0.01
91 7 0.03
92 28 0.10
93 238 0.86
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:186899 original size:14 final size:14
Alignment explanation
Indices: 186880--186969 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
186870 TTGAAATGAA
186880 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
186894 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
186913 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
186927 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
186946 AATCGCAACGAGAG
1 AATCGCAACGAGAG
186960 AATCGCAACG
1 AATCGCAACG
186970 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:186917 original size:33 final size:33
Alignment explanation
Indices: 186872--186986 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
186862 TCTTTGGGTT
186872 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
186905 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
186938 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
186971 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
186987 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:186918 original size:19 final size:19
Alignment explanation
Indices: 186894--186991 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
186884 GCAACGAGAG
*
186894 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
186913 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
186927 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
186946 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
186960 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
186979 AATCGCAATGCGA
1 AATCGCAACGCGA
186992 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:187041 original size:19 final size:19
Alignment explanation
Indices: 187017--187053 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
187007 GCGATTCTCT
187017 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
187036 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
187054 TCTCGTTGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.49
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:187076 original size:20 final size:20
Alignment explanation
Indices: 187010--187086 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
187000 TCGCGTTGCG
*
187010 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACTTTC
* *
187030 ATT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACTTTC
**
187049 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGACTTTC
187070 ATTCTCTCGTTGCGACT
1 ATTCTCTCGTTGCGACT
187087 CTTCTGCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.33
20 20 0.41
21 13 0.27
ACGTcount: A:0.12, C:0.26, G:0.18, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACTTTC
Found at i:187437 original size:22 final size:22
Alignment explanation
Indices: 187383--187437 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
187373 TGGTTGTGAG
**
187383 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
** *
187405 GGAAATATTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
187427 GGATTTCTTCG
1 GGATTTCTTCG
187438 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:187612 original size:20 final size:20
Alignment explanation
Indices: 187585--187777 Score: 228
Period size: 20 Copynumber: 9.7 Consensus size: 20
187575 CTTTAAATAT
*
187585 CGCGTTGCGATTTACGGATT
1 CGCGTTGCGATTTACGGATA
*
187605 CTCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
*
187626 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
187645 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
187665 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
187685 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
187705 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
187725 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
187745 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
187765 CGCGTTGCGATTT
1 CGCGTTGCGATTT
187778 TGGAAAATCG
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
19 2 0.01
20 146 0.97
21 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:187794 original size:21 final size:21
Alignment explanation
Indices: 187764--187846 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
187754 ATTTTCATAT
*
187764 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
187785 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
187806 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
187827 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
187847 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:187837 original size:42 final size:43
Alignment explanation
Indices: 187744--187842 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
187734 ATTTATGTGT
* *
187744 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
187785 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
187827 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
187843 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:188537 original size:17 final size:17
Alignment explanation
Indices: 188515--188552 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
188505 TATAAACTTG
*
188515 TGATAATTAAATTATTA
1 TGATAATTAAATTAATA
188532 TGATAATTAAATTAATA
1 TGATAATTAAATTAATA
188549 TGAT
1 TGAT
188553 TACTCTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (17 bp):
TGATAATTAAATTAATA
Found at i:188580 original size:51 final size:52
Alignment explanation
Indices: 188522--188619 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 52
188512 TTGTGATAAT
* *
188522 TAAATTATTATGATAATTAAATTAATATGATTAC-TCTTTGAAATTTTATCA
1 TAAATTATTATGATAATCAAATTAATATAATTACTTCTTTGAAATTTTATCA
*
188573 TAAATTATTATGATAATCAAATTAATATAATTACTTTTTTGAAATTT
1 TAAATTATTATGATAATCAAATTAATATAATTACTTCTTTGAAATTT
188620 AATTTTATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 32 0.74
52 11 0.26
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (52 bp):
TAAATTATTATGATAATCAAATTAATATAATTACTTCTTTGAAATTTTATCA
Found at i:188648 original size:18 final size:16
Alignment explanation
Indices: 188615--188649 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
188605 ACTTTTTTGA
188615 AATTTAATTTTATATT
1 AATTTAATTTTATATT
188631 AATTATAATTTGTATATT
1 AATT-TAATTT-TATATT
188649 A
1 A
188650 TAAATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
AATTTAATTTTATATT
Found at i:189460 original size:20 final size:20
Alignment explanation
Indices: 189435--189495 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
189425 AACATGTACA
*
189435 AATATCAAATAGAAGCAAAC
1 AATATCAAACAGAAGCAAAC
*
189455 AATATCAAACAGAAGTAAAC
1 AATATCAAACAGAAGCAAAC
*
189475 AATATAAAACAGAAGCAAAC
1 AATATCAAACAGAAGCAAAC
189495 A
1 A
189496 GAATCAAGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.62, C:0.15, G:0.10, T:0.13
Consensus pattern (20 bp):
AATATCAAACAGAAGCAAAC
Found at i:190296 original size:21 final size:21
Alignment explanation
Indices: 190267--190306 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
190257 TTCTGTGTTG
*
190267 ACATCACCTAAAACAGCAATC
1 ACATAACCTAAAACAGCAATC
*
190288 ACATAACCTAACACAGCAA
1 ACATAACCTAAAACAGCAA
190307 GATAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.33, G:0.05, T:0.12
Consensus pattern (21 bp):
ACATAACCTAAAACAGCAATC
Found at i:191769 original size:28 final size:31
Alignment explanation
Indices: 191729--191804 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 31
191719 ATATTAATAA
191729 ATTATTTATAATTAATATTAA-AATAA-TTAT
1 ATTA-TTATAATTAATATTAATAATAACTTAT
*
191759 A-TATTATAATTAATATTAATATTAACTTAT
1 ATTATTATAATTAATATTAATAATAACTTAT
*
191789 ATTAATATAATATAAT
1 ATTATTATAAT-TAAT
191805 TTGTAATTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 16 0.40
29 6 0.15
30 6 0.15
31 8 0.20
32 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTATTATAATTAATATTAATAATAACTTAT
Found at i:191792 original size:16 final size:16
Alignment explanation
Indices: 191734--191796 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
191724 AATAAATTAT
191734 TTATAATTAATATTAAA
1 TTAT-ATTAATATTAAA
*
191751 ATA-ATTATATATTATAA
1 TTATATTA-ATATTA-AA
*
191768 TTAATATTAATATTAAC
1 TT-ATATTAATATTAAA
191785 TTATATTAATAT
1 TTATATTAATAT
191797 AATATAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.10
16 16 0.41
17 8 0.21
18 7 0.18
19 4 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATATTAATATTAAA
Found at i:191908 original size:18 final size:17
Alignment explanation
Indices: 191895--192100 Score: 124
Period size: 18 Copynumber: 11.9 Consensus size: 17
191885 AGTATAGTTA
191895 ATATAGTTTATATATACC
1 ATATAGTTTATATATA-C
191913 ATATAGTTTATATATACC
1 ATATAGTTTATATATA-C
191931 ATATAGTTTATATATAC
1 ATATAGTTTATATATAC
*
191948 TATATAGGTTATATATA-
1 -ATATAGTTTATATATAC
* ** *
191965 GTA-A-TGAACTATATAAT
1 ATATAGTTTA-TATAT-AC
*
191982 ATATAGTTTACATATAC
1 ATATAGTTTATATATAC
191999 TATATAGTTTATATATAC
1 -ATATAGTTTATATATAC
** *
192017 -TA-A-TGAACTATATAAT
1 ATATAGTTTA-TATAT-AC
192033 ATATAGTTTATATATAC
1 ATATAGTTTATATATAC
**
192050 -TA-ATGAAATATATATA-
1 ATATA-G-TTTATATATAC
192066 ATGTATAGTTTATATATAC
1 A--TATAGTTTATATATAC
*
192085 TATATAGGTTATATAT
1 -ATATAGTTTATATAT
192101 TGTTTGTATA
Statistics
Matches: 146, Mismatches: 22, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
14 3 0.02
15 13 0.09
16 9 0.06
17 15 0.10
18 97 0.66
19 7 0.05
20 2 0.01
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (17 bp):
ATATAGTTTATATATAC
Found at i:191990 original size:51 final size:51
Alignment explanation
Indices: 191931--192051 Score: 215
Period size: 51 Copynumber: 2.4 Consensus size: 51
191921 TATATATACC
*
191931 ATATAGTTTATATATACTATATAGGTTATATATAGTAATGAACTATATAAT
1 ATATAGTTTATATATACTATATAGGTTATATATACTAATGAACTATATAAT
* *
191982 ATATAGTTTACATATACTATATAGTTTATATATACTAATGAACTATATAAT
1 ATATAGTTTATATATACTATATAGGTTATATATACTAATGAACTATATAAT
192033 ATATAGTTTATATATACTA
1 ATATAGTTTATATATACTA
192052 ATGAAATATA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (51 bp):
ATATAGTTTATATATACTATATAGGTTATATATACTAATGAACTATATAAT
Found at i:192030 original size:17 final size:17
Alignment explanation
Indices: 192008--192065 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
191998 CTATATAGTT
*
192008 TATATATACTAATGAAC
1 TATATATACTAATGAAA
**
192025 TATATA-A-TATAT-AGT
1 TATATATACTA-ATGAAA
192040 TTATATATACTAATGAAA
1 T-ATATATACTAATGAAA
192058 TATATATA
1 TATATATA
192066 ATGTATAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 4 0.12
16 8 0.25
17 16 0.50
18 4 0.12
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.41
Consensus pattern (17 bp):
TATATATACTAATGAAA
Found at i:192036 original size:33 final size:35
Alignment explanation
Indices: 191993--192086 Score: 147
Period size: 33 Copynumber: 2.7 Consensus size: 35
191983 TATAGTTTAC
* *
191993 ATATACTATATAGTTTATATATACTAATG-AA-CT
1 ATATAATATATAGTTTATATATACTAATGAAATAT
192026 ATATAATATATAGTTTATATATACTAATGAAATAT
1 ATATAATATATAGTTTATATATACTAATGAAATAT
*
192061 ATATAATGTATAGTTTATATATACTA
1 ATATAATATATAGTTTATATATACTA
192087 TATAGGTTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 28 0.50
34 2 0.04
35 26 0.46
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATAATATATAGTTTATATATACTAATGAAATAT
Found at i:192080 original size:51 final size:52
Alignment explanation
Indices: 191921--192100 Score: 194
Period size: 51 Copynumber: 3.5 Consensus size: 52
191911 CCATATAGTT
* *
191921 TATATATACCATATAGTTTATATATACTATATAGGTTATATATAGTAATGAAC
1 TATATATACTATATAGTTTATATATACTATATA-GTTATATATACTAATGAAC
*
191974 TATATA-A-TATATAGTTTACATATACTATATAGTTTATATATACTAATGAAC
1 TATATATACTATATAGTTTATATATACTATATAG-TTATATATACTAATGAAC
** *
192025 TATATA-A-TATATAGTTTATATATACTA-AT-GAAATATATA-TAATGTATAGTT
1 TATATATACTATATAGTTTATATATACTATATAGTTATATATACTAATG-A-A--C
*
192076 TATATATACTATATAGGTTATATAT
1 TATATATACTATATAGTTTATATAT
192101 TGTTTGTATA
Statistics
Matches: 112, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
47 5 0.04
48 8 0.07
49 2 0.02
50 3 0.03
51 71 0.63
52 2 0.02
53 21 0.19
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.44
Consensus pattern (52 bp):
TATATATACTATATAGTTTATATATACTATATAGTTATATATACTAATGAAC
Found at i:192135 original size:2 final size:2
Alignment explanation
Indices: 192130--192501 Score: 71
Period size: 2 Copynumber: 181.0 Consensus size: 2
192120 TTATATAGGT
* *
192130 TA TA TA TA CTA TA TA -A TA TA TA GTT TA TA TA TA CTA -A TGA AA
1 TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA T-A TA
* * * **
192172 TA TA TA TA TA TA TA -A TG TA TA GTT TA TA TA TA CCA TA TA GC T-
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
**
192214 TA TA TA TA TA T- TA TA TA GG T- TA TA TA TA GTA -A TGA -A CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T-A TA -TA
** * *
192253 TA TA TA TA TA GG T- TG TA TA TA T- TA TA TA GTT TA TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * *
192295 TA GTA TA AA T- TA T- TT TA TA TA GTA TA TA AA TA TCA -A CTA TA
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA
* ** * * * *
192336 GTA TA TA GTT TA TA CGG TT TT TA TA TA TA GT- TCA TA TG TA AA T-
1 -TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA
* * *
192379 TA TA CTA TA TA GTA TA TA T- TG TT TA TA TA -A TA TA TA TA TA AA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* ** *
192421 TA TA AA CTA TA GTA TA TA TA TA TA GG TCA TA TA TA AA CTA TA TA
1 TA TA TA -TA TA -TA TA TA TA TA TA TA T-A TA TA TA TA -TA TA TA
*
192465 GTA TA TA AA TA TCA -A CTA TA -A TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA TA TA TA
192502 GGTCATATGT
Statistics
Matches: 270, Mismatches: 52, Indels: 96
0.65 0.12 0.23
Matches are distributed among these distances:
1 19 0.07
2 212 0.79
3 39 0.14
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (2 bp):
TA
Found at i:192201 original size:18 final size:18
Alignment explanation
Indices: 192139--192296 Score: 85
Period size: 18 Copynumber: 8.6 Consensus size: 18
192129 TTATATATAC
192139 TATATAATATATAGTTTATA
1 TATATAATATATAG-TT-TA
*
192159 TATACTAATGAAATATA-TATA
1 TATA-TAAT---ATATAGTTTA
*
192180 TATATAATGTATAGTTTA
1 TATATAATATATAGTTTA
**
192198 TATATACCATATAGCTTATA
1 TATATAATATATAG-TT-TA
* *
192218 TATATATTATATAGGTTA
1 TATATAATATATAGTTTA
* *
192236 TATATAGTA-AT-G--AA
1 TATATAATATATAGTTTA
* *
192250 CTATAT-ATATATAGGTTG
1 -TATATAATATATAGTTTA
*
192268 TATATATTATATAGTTTA
1 TATATAATATATAGTTTA
*
192286 TATATACTATA
1 TATATAATATA
192297 GTATAAATTA
Statistics
Matches: 107, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
14 3 0.03
15 7 0.07
16 2 0.02
17 11 0.10
18 43 0.40
19 3 0.03
20 22 0.21
21 10 0.09
22 1 0.01
24 5 0.05
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (18 bp):
TATATAATATATAGTTTA
Found at i:192289 original size:79 final size:80
Alignment explanation
Indices: 192134--192280 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 80
192124 ATAGGTTATA
* *
192134 TATACTATATAATATATAGTTTATATATACTAATGAAATATATATATATATAATGTATAGTTTAT
1 TATACTATATAATATATAGGTTATATATACTAATGAAATATATATATATAGAATGTATAGTTTAT
192199 ATATACCATATAGCT
66 ATATACCATATAGCT
* * * **
192214 TATA-TATATATTATATAGGTTATATATAGTAATGAACTATATATATATAGGTTGTATA-TATTA
1 TATACTATATAATATATAGGTTATATATACTAATGAAATATATATATATAGAATGTATAGT-TTA
192277 TATA
65 TATA
192281 GTTTATATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.02
79 54 0.92
80 4 0.07
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (80 bp):
TATACTATATAATATATAGGTTATATATACTAATGAAATATATATATATAGAATGTATAGTTTAT
ATATACCATATAGCT
Found at i:192462 original size:20 final size:19
Alignment explanation
Indices: 192439--192532 Score: 63
Period size: 20 Copynumber: 4.8 Consensus size: 19
192429 ATAGTATATA
192439 TATATAGGTCATATATAAAC
1 TATATAGGT-ATATATAAAC
192459 TATATA-GTATATAAATATCAAC
1 TATATAGGTATAT--ATA--AAC
*
192481 TATA-A--TATATATATA-
1 TATATAGGTATATATAAAC
*
192496 TATATAGGTCATATGTAAAC
1 TATATAGGT-ATATATAAAC
*
192516 TATATAGTTTATATATA
1 TATATAG-GTATATATA
192533 TAGTTCATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
15 4 0.07
16 2 0.03
18 8 0.14
19 9 0.15
20 27 0.46
21 2 0.03
22 7 0.12
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (19 bp):
TATATAGGTATATATAAAC
Found at i:192463 original size:57 final size:54
Alignment explanation
Indices: 192402--192532 Score: 163
Period size: 57 Copynumber: 2.3 Consensus size: 54
192392 ATATATTGTT
192402 TATATAATATATATATAAATATAAACTATAGTATATATATATAGGTCATATATAAAC
1 TATATAATATATATATAAATAT-AA-TATA-TATATATATATAGGTCATATATAAAC
* * *
192459 TATATAGTATATAAATATCAACTATAATATATATATATATATAGGTCATATGTAAAC
1 TATATA--ATATATATAT-AAATATAATATATATATATATATAGGTCATATATAAAC
* *
192516 TATATAGTTTATATATA
1 TATATAATATATATATA
192533 TAGTTCATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 7 0.11
57 37 0.57
58 4 0.06
59 11 0.17
60 5 0.08
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.40
Consensus pattern (54 bp):
TATATAATATATATATAAATATAATATATATATATATATAGGTCATATATAAAC
Found at i:192465 original size:33 final size:33
Alignment explanation
Indices: 192420--192552 Score: 137
Period size: 33 Copynumber: 4.4 Consensus size: 33
192410 ATATATATAA
192420 ATATAAAC--TATAGTATATATATATAGGTCAT
1 ATATAAACTATATAGTATATATATATAGGTCAT
192451 ATATAAACTATATAGTATATA-A-ATA--TCA-
1 ATATAAACTATATAGTATATATATATAGGTCAT
192479 ACTAT--A--ATATA-TATATATATATAGGTCAT
1 A-TATAAACTATATAGTATATATATATAGGTCAT
* * *
192508 ATGTAAACTATATAGTTTATATATATAGTTCAT
1 ATATAAACTATATAGTATATATATATAGGTCAT
*
192541 ATGTAAACTATA
1 ATATAAACTATA
192553 ATTCATATGT
Statistics
Matches: 86, Mismatches: 3, Indels: 24
0.76 0.03 0.21
Matches are distributed among these distances:
24 6 0.07
25 6 0.07
26 3 0.03
27 1 0.01
28 6 0.07
29 7 0.08
30 1 0.01
31 11 0.13
32 6 0.07
33 39 0.45
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.40
Consensus pattern (33 bp):
ATATAAACTATATAGTATATATATATAGGTCAT
Found at i:192552 original size:24 final size:24
Alignment explanation
Indices: 192525--192594 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 24
192515 CTATATAGTT
192525 TATATATATAGTTCATATGTAAAC
1 TATATATATAGTTCATATGTAAAC
192549 ----TATA-A-TTCATATGTAAA-
1 TATATATATAGTTCATATGTAAAC
*
192566 TATCA-ACTATAGTTTATATGTAAAC
1 TAT-ATA-TATAGTTCATATGTAAAC
192591 TATA
1 TATA
192595 GTTCATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 18
0.65 0.02 0.33
Matches are distributed among these distances:
18 12 0.33
19 1 0.03
20 4 0.11
21 1 0.03
22 2 0.06
23 1 0.03
24 12 0.33
25 3 0.08
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (24 bp):
TATATATATAGTTCATATGTAAAC
Found at i:192557 original size:18 final size:18
Alignment explanation
Indices: 192531--192565 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
192521 AGTTTATATA
*
192531 TATAGTTCATATGTAAAC
1 TATAATTCATATGTAAAC
192549 TATAATTCATATGTAAA
1 TATAATTCATATGTAAA
192566 TATCAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
TATAATTCATATGTAAAC
Found at i:192578 original size:42 final size:42
Alignment explanation
Indices: 192531--192614 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
192521 AGTTTATATA
*
192531 TATAGTTCATATGTAAACTATAATTCATATGTAAATATCAAC
1 TATAGTTCATATGTAAACTATAATTCATATATAAATATCAAC
* *
192573 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
1 TATAGTTCATATGTAAACTATAATTCATATATAAATATCAAC
192615 CTTAGTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (42 bp):
TATAGTTCATATGTAAACTATAATTCATATATAAATATCAAC
Found at i:192593 original size:18 final size:18
Alignment explanation
Indices: 192565--192703 Score: 70
Period size: 18 Copynumber: 8.3 Consensus size: 18
192555 TCATATGTAA
* *
192565 ATATCAACTATAGTTTAT
1 ATATAAACTATAGTTCAT
*
192583 ATGTAAACTATAGTTCAT
1 ATATAAACTATAGTTCAT
** *
192601 ATATAAA-TATCA-ACCTT
1 ATATAAACTAT-AGTTCAT
*
192618 AGTATATA-TATA-TT--T
1 A-TATAAACTATAGTTCAT
192633 ATAT--A-TATAGTTCAT
1 ATATAAACTATAGTTCAT
*
192648 ATGTAAACTATAGTTCAT
1 ATATAAACTATAGTTCAT
*
192666 ATATATAA-TATA--T-AA
1 ATATA-AACTATAGTTCAT
*
192681 ATATAAACTATAGTTTAT
1 ATATAAACTATAGTTCAT
192699 ATATA
1 ATATA
192704 TAGTATAAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 26
0.70 0.10 0.19
Matches are distributed among these distances:
12 5 0.05
13 2 0.02
14 5 0.05
15 16 0.17
16 1 0.01
17 9 0.10
18 54 0.57
19 2 0.02
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (18 bp):
ATATAAACTATAGTTCAT
Found at i:192626 original size:42 final size:42
Alignment explanation
Indices: 192531--192626 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
192521 AGTTTATATA
*
192531 TATAGT-TCATATGTAAACTATAATTCATATGTAAATATCAAC
1 TATAGTAT-ATATGTAAACTATAATTCATATATAAATATCAAC
* *
192573 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACC
1 TATAGTATATATGTAAACTATAATTCATATATAAATATCAA-C
192616 T-TAGTATATAT
1 TATAGTATATAT
192627 ATATTTATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 46 0.94
43 3 0.06
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (42 bp):
TATAGTATATATGTAAACTATAATTCATATATAAATATCAAC
Found at i:192688 original size:33 final size:32
Alignment explanation
Indices: 192651--192717 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
192641 AGTTCATATG
192651 TAAACTATAGTTCATATATATAATATATAAATA
1 TAAACTATAGTTCATATATATAATATA-AAATA
* *
192684 TAAACTATAGTTTATATATATAGTATAAAATA
1 TAAACTATAGTTCATATATATAATATAAAATA
192716 TA
1 TA
192718 GTATATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (32 bp):
TAAACTATAGTTCATATATATAATATAAAATA
Found at i:192717 original size:25 final size:25
Alignment explanation
Indices: 192664--192731 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
192654 ACTATAGTTC
192664 ATATA-TATA-ATATATAAATATAAA
1 ATATAGTATATATATAT-AATATAAA
* * *
192688 CTATAGTTTATATATATAGTATAAA
1 ATATAGTATATATATATAATATAAA
*
192713 ATATAGTATATAAATATAA
1 ATATAGTATATATATATAA
192732 ATTATAGTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 4 0.11
25 25 0.71
26 6 0.17
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (25 bp):
ATATAGTATATATATATAATATAAA
Found at i:192738 original size:20 final size:20
Alignment explanation
Indices: 192668--192741 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
192658 TAGTTCATAT
*
192668 ATATAATATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
192688 CTATAGTTTATATATATAGTATAAA
1 ATATAG--TATATA-A-A-TATAAA
192713 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
192733 TTATAGTAT
1 ATATAGTAT
192742 GTAGTTTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 18 0.40
21 1 0.02
22 7 0.16
23 7 0.16
24 1 0.02
25 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:192817 original size:18 final size:18
Alignment explanation
Indices: 192805--192858 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
192795 ATATATAAAC
192805 TATATAATTTATACAATA
1 TATATAATTTATACAATA
* *
192823 TATATTATTTATA-ATTA
1 TATATAATTTATACAATA
* *
192840 TACATAATATATA-AATA
1 TATATAATTTATACAATA
192857 TA
1 TA
192859 AATTGGTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TATATAATTTATACAATA
Found at i:192979 original size:27 final size:28
Alignment explanation
Indices: 192933--192993 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
192923 ATATATAAAC
* **
192933 TATATAGTATTATAGTTTATACATGGTA
1 TATATAGTATTATACTTTATACATAATA
192961 TATATAGT-TTATACTTTATACATAATA
1 TATATAGTATTATACTTTATACATAATA
192988 TATATA
1 TATATA
192994 TATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (28 bp):
TATATAGTATTATACTTTATACATAATA
Found at i:192992 original size:2 final size:2
Alignment explanation
Indices: 192985--193095 Score: 120
Period size: 2 Copynumber: 55.0 Consensus size: 2
192975 TTTATACATA
* * *
192985 AT AT AT AT AT AT AT AA ACT AT AT AGT TT AT AT AT AT A- AT AC AT
1 AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT
* *
193028 AT ACT CT AT AT AT AA ACT AT AT AT -T AT AT AT AT AT AT -T AT AT
1 AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
193070 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
193096 TAGTTGTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
1 3 0.03
2 85 0.92
3 4 0.04
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:193038 original size:42 final size:40
Alignment explanation
Indices: 192961--193090 Score: 156
Period size: 42 Copynumber: 3.1 Consensus size: 40
192951 ATACATGGTA
*
192961 TATATAGTTTATACTTTATACATAATATATATATATATAAAC
1 TATATAGTTTATA-TATATA-ATAATATATATATATATAAAC
*
193003 TATATAGTTTATATATATAATACATATACTCTATATATAAAC
1 TATATAGTTTATATATATAATA-ATATA-TATATATATAAAC
* *
193045 TATATA-TTATATATATATATTATATATATATATATATATA-
1 TATATAGTT-TATATATATAATA-ATATATATATATATAAAC
193085 TATATA
1 TATATA
193091 TATATTAGTT
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
40 9 0.11
41 22 0.28
42 48 0.61
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (40 bp):
TATATAGTTTATATATATAATAATATATATATATATAAAC
Found at i:193482 original size:210 final size:211
Alignment explanation
Indices: 193120--193936 Score: 1225
Period size: 210 Copynumber: 3.8 Consensus size: 211
193110 TTTTTTCTCA
* *
193120 ACTTATTACTTATTTCTATTTATT-AATTGGCTCATAACTTTTTAAATGAGTATAATTTAGTACA
1 ACTTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTAC-
*
193184 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCT-T-T-TGTGTTGT
64 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATGTGTGTTGT
*
193246 TCAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTCATTT
129 TTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT-ATTT
*
193311 GCACCTGAAATTGACCCAT
193 GCATCTGAAATTGACCCAT
193330 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
*
193395 GTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCAATTTGATCCCT-T-T-TGTGTTGTT
66 -TTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATGTGTGTTGTT
193457 TAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAAATTTATTTG
130 TAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCC-AAATTTATTTG
193522 CATCTGAAATTGACCCAT
194 CATCTGAAATTGACCCAT
193540 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTTAAATGGGTATAATTTAGTACT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAAC-TTTTTAAATGGGTATAATTTAGTACT
* *
193605 TTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTT
65 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT-AT--ATGTGTGTT
* * * *
193670 GTTTAATTTATTAAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAATTTTAT
127 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA-TTTAT
* *
193735 TTGCATATGAAATTGATCCAT
191 TTGCATCTGAAATTGACCCAT
* * * * * *
193756 AATTATTACTTAATTATATTTTTTTAATTGGCTCATAACTTTTTAAATTGGTATAATTTAGTACT
1 ACTTATTACTTATTTCTA-TTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTAC-
* *
193821 TTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGACCCCTCATCAATGTGTGT
64 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT-AT--ATGTGTGT
* *
193886 TGCTTAATTTATTTAAATTTTTTATTTGTAATTTCATATTTGTTCAATTTA
126 TGTTTAATATATTTAAA-TTTTTATTTGTAATTTCATATTTGTTCAATTTA
193937 ATTCTTAAAT
Statistics
Matches: 567, Mismatches: 26, Indels: 20
0.92 0.04 0.03
Matches are distributed among these distances:
209 4 0.01
210 276 0.49
211 33 0.06
212 1 0.00
215 4 0.01
216 121 0.21
217 96 0.17
218 32 0.06
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (211 bp):
ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
TTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATGTGTGTTGTTT
AATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTATTTGCA
TCTGAAATTGACCCAT
Found at i:194523 original size:17 final size:17
Alignment explanation
Indices: 194489--194532 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
194479 CAATCTTCCC
194489 TTATA-ATTTCTAAATTT
1 TTATATATTT-TAAATTT
*
194506 TTATATATTTTAATTTT
1 TTATATATTTTAAATTT
194523 TTA-ATATTTT
1 TTATATATTTT
194533 CTATTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATATATTTTAAATTT
Found at i:195213 original size:15 final size:15
Alignment explanation
Indices: 195193--195229 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
195183 ACGTGAGTAA
*
195193 ATAAAAATATTTAAT
1 ATAAAAATATATAAT
195208 ATAAAAATATATAAT
1 ATAAAAATATATAAT
*
195223 TTAAAAA
1 ATAAAAA
195230 AATTAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAAAATATATAAT
Found at i:196271 original size:20 final size:20
Alignment explanation
Indices: 196246--196296 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
196236 CACTTAGGGA
196246 ACCGATTCCCCATAGGGGGT
1 ACCGATTCCCCATAGGGGGT
196266 ACCGATTCCCCATAGGGGGT
1 ACCGATTCCCCATAGGGGGT
196286 ACCGATTCCCC
1 ACCGATTCCCC
196297 CCACGCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
ACCGATTCCCCATAGGGGGT
Found at i:201649 original size:23 final size:21
Alignment explanation
Indices: 201599--201656 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
201589 GGTGCAGAGA
201599 GAATCGA-TCCCCCCTTGAGG
1 GAATCGATTCCCCCCTTGAGG
* *
201619 GAACCGATTCCCCCTTTGAAGGG
1 GAATCGATTCCCCCCTTG-A-GG
201642 GAATCGATTCCCCCC
1 GAATCGATTCCCCCC
201657 CCCCACAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 6 0.19
21 9 0.29
22 1 0.03
23 15 0.48
ACGTcount: A:0.21, C:0.36, G:0.22, T:0.21
Consensus pattern (21 bp):
GAATCGATTCCCCCCTTGAGG
Found at i:205375 original size:22 final size:24
Alignment explanation
Indices: 205319--205377 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 24
205309 TTTATAGTAG
205319 GAAAATAATATTTATTATAATGAA
1 GAAAATAATATTTATTATAATGAA
*
205343 GAAAATTAATATTTATTATAATGAC
1 GAAAA-TAATATTTATTATAATGAA
205368 GAAAAATAAT
1 G-AAAATAAT
205378 GGCACCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 5 0.16
25 23 0.72
26 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (24 bp):
GAAAATAATATTTATTATAATGAA
Found at i:205670 original size:13 final size:13
Alignment explanation
Indices: 205652--205677 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
205642 TATTGTTGTA
205652 GAAAAATAATAAT
1 GAAAAATAATAAT
205665 GAAAAATAATAAT
1 GAAAAATAATAAT
205678 ATTTATAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
GAAAAATAATAAT
Found at i:205932 original size:325 final size:325
Alignment explanation
Indices: 205335--205953 Score: 935
Period size: 325 Copynumber: 1.9 Consensus size: 325
205325 AATATTTATT
* *
205335 ATAATGAAGAAAATTAATATTTATTATAATGACGAAAAATAATGGCACCATTAATTATCCATTTA
1 ATAATGAAGAAAAATAATATTTATTATAATGACGAAAAATAATGACACCATTAATTATCCATTTA
* * * *
205400 TAATCAGGGTAGGTGGGTGGTTGGTGGTTGAACGGGAAAGTATAATGAATACCCCGGGATGTTAT
66 TAACCAGGGTAGGTGGGTGGTTGGTGGTTGAACGAGAAAGTATAATGAATACCCCGAGAGGTTAT
* * *
205465 AAAATGTGGTGTTTTAGTTGAGAATTAGGGAGTAATAAATTCGAAGTAATAATAATTATTTATAA
131 AAAATGTGGTGTTTTAGTTGAGAACTAAGGAGTAATAAATTCGAAGTAATAATAATTAATTATAA
*
205530 AAATCTGAAGTAATAAATTTAATCATTATTATAATGTAATCATAGTATTTAATCATAATTTTAAT
196 AAATCTGAAGTAATAAATTTAATCATTATTATAATGTAATCATAATATTTAATCATAATTTTAAT
205595 AAAAAAAATATTGTTAATATATTTACAATTTTTGCAAGGTTAAATACTATTGTTGTAGAAAAATA
261 AAAAAAAATATTGTTAATATATTTACAATTTTTGCAAGGTTAAATACTATTGTTGTAGAAAAATA
*** *
205660 ATAATGAA-AAATAATAATATTTA-TAGTAATGACGAAAAATAATGACATTGTTAATTAT-CTTT
1 ATAATGAAGAAA-AATAATATTTATTA-TAATGACGAAAAATAATGACACCATTAATTATCCATT
* * *
205722 TAATAACCCGGGTAGGTTGGTGGTTTGTGGTTGAACGAGAAAGTATAATGAATACCCCGAGAGGT
64 T-ATAACCAGGGTAGGTGGGTGGTTGGTGGTTGAACGAGAAAGTATAATGAATACCCCGAGAGGT
* * *
205787 TATAAAATAG-GGTGTTTT-GATTGAGAACTAATGAGTAATAAATTTGAATTAATAATAATTAAT
128 TATAAAAT-GTGGTGTTTTAG-TTGAGAACTAAGGAGTAATAAATTCGAAGTAATAATAATTAAT
205850 TATAAAAAATCTGAAGTAATAAATTTAATCATTATTATAATGTAATCATAATATTTAATCATAAT
191 TAT-AAAAATCTGAAGTAATAAATTTAATCATTATTATAATGTAATCATAATATTTAATCATAAT
* * *
205915 TTTTAT-AAAATAATATTGTTAATATATTTACAGTTTTTG
255 TTTAATAAAAAAAATATTGTTAATATATTTACAATTTTTG
205954 TAATGCTAAA
Statistics
Matches: 265, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
324 10 0.04
325 189 0.71
326 66 0.25
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.37
Consensus pattern (325 bp):
ATAATGAAGAAAAATAATATTTATTATAATGACGAAAAATAATGACACCATTAATTATCCATTTA
TAACCAGGGTAGGTGGGTGGTTGGTGGTTGAACGAGAAAGTATAATGAATACCCCGAGAGGTTAT
AAAATGTGGTGTTTTAGTTGAGAACTAAGGAGTAATAAATTCGAAGTAATAATAATTAATTATAA
AAATCTGAAGTAATAAATTTAATCATTATTATAATGTAATCATAATATTTAATCATAATTTTAAT
AAAAAAAATATTGTTAATATATTTACAATTTTTGCAAGGTTAAATACTATTGTTGTAGAAAAATA
Found at i:207392 original size:25 final size:27
Alignment explanation
Indices: 207364--207431 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 27
207354 TTTAATTAAT
*
207364 TAAATAATTATAA-ATTT-CAACTAAA
1 TAAATAATTATAATATTTGAAACTAAA
*
207389 TAAATAA--ACAATATTTGAAACTAAA
1 TAAATAATTATAATATTTGAAACTAAA
207414 TAAATTAATTATATATAT
1 TAAA-TAATTATA-ATAT
207432 ACCTCAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 3 0.09
24 4 0.12
25 18 0.53
26 3 0.09
28 2 0.06
29 4 0.12
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (27 bp):
TAAATAATTATAATATTTGAAACTAAA
Found at i:208743 original size:91 final size:94
Alignment explanation
Indices: 208554--208815 Score: 295
Period size: 91 Copynumber: 2.8 Consensus size: 94
208544 TTAAACAAAA
*
208554 AATATGTTAAATCAAAATAAATAGTCTAATTAATTTATATTTACAATAAAAACAAAAAAATTAAA
1 AATATGTAAAATCAAAATAAATAGTCTAA-TAATTTATATTTAC-ATAAAAACAAAAAAATTAAA
* * *
208619 CTAAACTTACAAAACCACTTAAATACGATTT
64 CTAAACTTACAAAACCACTCAAATACAACTT
* * * * *
208650 AATTTGTAAAATCAAAATAATTAGTAC-AATAATTTATA-TTAC-TCAATA-AAAAAAATTAAAT
1 AATATGTAAAATCAAAATAAATAGT-CTAATAATTTATATTTACATAAAAACAAAAAAATTAAAC
*
208711 TAAACTTAGC-AAACTACTCAAATACAACTT
65 TAAACTTA-CAAAACCACTCAAATACAACTT
* * *
208741 AATATGTAAAATCAAAATAAATAGTCTAATAATTCTA-ATTTAAATTAAAAA-ACAAAAATTATA
1 AATATGTAAAATCAAAATAAATAGTCTAATAATT-TATATTTACA-TAAAAACAAAAAAATTAAA
208804 CTAAAACTTACA
64 CT-AAACTTACA
208816 CGAAAATTTA
Statistics
Matches: 139, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
90 1 0.01
91 67 0.48
92 10 0.07
94 20 0.14
95 16 0.12
96 24 0.17
97 1 0.01
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (94 bp):
AATATGTAAAATCAAAATAAATAGTCTAATAATTTATATTTACATAAAAACAAAAAAATTAAACT
AAACTTACAAAACCACTCAAATACAACTT
Found at i:209183 original size:316 final size:310
Alignment explanation
Indices: 208614--209226 Score: 762
Period size: 316 Copynumber: 1.9 Consensus size: 310
208604 AACAAAAAAA
* * *
208614 TTAAACTAAACTTACAAAACCACTTAAATACGATTTAATTTGTAAAATCAAAATAATTAGTACAA
1 TTAAACTAAACTTACAAAACCACTCAAATACGATTTAATCTGTAAAATAAAAATAATTAGTACAA
*
208679 TAATTTATATTACTCAATAAAAAAAATTAAATTAAACTTAGCAAACTACTCAAATACAACTTAAT
66 TAATTTATATTACTCAATAAAAAAAATTAAATTAAACTTACCAAACTACTCAAATACAACTTAAT
*
208744 ATGTAAAATCAAAATAAATAGTCTAATAATTCTAATTTAAATTAAAAAACAAAAATTATACTAAA
131 ATGTAAAATCAAAATAAATAGTCTAATAATTATAATTTAAATTAAAAAACAAAAATTATAC---A
* * * *
208809 ACTTACACGAAAATTTAAATTTAACTTACCACATCACTCAAATACAGTTTACTCTATAAAA-AAA
193 ACTT--A--AAAATTTAAATTAAACTTACCACACCACTCAAATACAATTTAATCTATAAAACAAA
* *
208873 ATAAATAGTCTAATTAATTTAT-TTTTACAATAAAAACACAAAATAAAACAGTAAATT
254 ATAAATAATCTAATTAATTTATATTTCA-AATAAAAACACAAAATAAAACAGTAAATT
* *
208930 TTAAACTAAACTTACCAAGA-TACTCAAATACGATTTAATCTGTAAAATAAAAATAATTAGT-CT
1 TTAAACTAAACTTA-CAAAACCACTCAAATACGATTTAATCTGTAAAATAAAAATAATTAGTAC-
**
208993 AATAATTTATATTACTCAATAAAAAAATAATGTAATAATTTAAACTACACTTACCAAGTTTTACT
64 AATAATTTATATTACTCAAT-AAAAAA-AAT-T-A-AA-TT--A--A-ACTTACCAA--ACTACT
* *
209058 CAAATACAACTTAGTATGTAAAATTAAAATAAATAGTCTAATAATTATAATTTAAATT-AAAAAC
116 CAAATACAACTTAATATGTAAAATCAAAATAAATAGTCTAATAATTATAATTTAAATTAAAAAAC
*
209122 AAAAA-T-TAC-AC-T-AAAATTTAAATTAAACTTACCA-AGCCACTCTAATACAATTTAATCTA
181 AAAAATTATACAACTTAAAAATTTAAATTAAACTTACCACA-CCACTCAAATACAATTTAATCTA
209181 TAAAATCAAAATAAATAATCTAATTAATTTATATTTCAAATAAAAA
245 TAAAA-CAAAATAAATAATCTAATTAATTTATATTTCAAATAAAAA
209227 TTAAAAATGA
Statistics
Matches: 260, Mismatches: 18, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
315 2 0.01
316 116 0.45
317 10 0.04
318 35 0.13
319 5 0.02
320 1 0.00
321 3 0.01
322 4 0.02
324 1 0.00
326 4 0.02
327 9 0.03
328 11 0.04
329 59 0.23
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (310 bp):
TTAAACTAAACTTACAAAACCACTCAAATACGATTTAATCTGTAAAATAAAAATAATTAGTACAA
TAATTTATATTACTCAATAAAAAAAATTAAATTAAACTTACCAAACTACTCAAATACAACTTAAT
ATGTAAAATCAAAATAAATAGTCTAATAATTATAATTTAAATTAAAAAACAAAAATTATACAACT
TAAAAATTTAAATTAAACTTACCACACCACTCAAATACAATTTAATCTATAAAACAAAATAAATA
ATCTAATTAATTTATATTTCAAATAAAAACACAAAATAAAACAGTAAATT
Found at i:209233 original size:107 final size:107
Alignment explanation
Indices: 208812--209249 Score: 384
Period size: 107 Copynumber: 4.1 Consensus size: 107
208802 TACTAAAACT
* * * * * *
208812 TACACGAAAATTTAAATTTAACTTACCACATC-ACTCAAATACAGTTTACTCTATAAAA--AAAA
1 TACACTAAAATTTAAATTAAACTTACCA-AGCTACTCAAATACAATTTAATCTGTAAAATCAAAA
*
208874 TAAATAGTCTAATTAATTTAT-TTTTACAATAAAAACACAAAATAA
65 TAAATAGTCTAATTAATTTATATTTCA-AATAAAAACA-AAAAT-A
* * * * * * *
208919 AACAGTAAATTTTAAACTAAACTTACCAAGATACTCAAATACGATTTAATCTGTAAAATAAAAAT
1 TACACTAAAATTTAAATTAAACTTACCAAGCTACTCAAATACAATTTAATCTGTAAAATCAAAAT
* * *
208984 AATTAGTCTAA-TAATTTATATTACTC-AATAAAAA-AATAATG
66 AAATAGTCTAATTAATTTATATT--TCAAATAAAAACAAAAATA
* * * * * * *
209025 TA-A-T--AATTTAAACTACACTTACCAAGTTTTACTCAAATACAACTTAGTATGTAAAATTAAA
1 TACACTAAAATTTAAATTAAACTTACCAAG--CTACTCAAATACAATTTAATCTGTAAAATCAAA
209086 ATAAATAGTCTAA-TAA-TTATAATTT-AAATTAAAAACAAAAAT-
64 ATAAATAGTCTAATTAATTTAT-ATTTCAAA-TAAAAACAAAAATA
* * *
209128 TACACTAAAATTTAAATTAAACTTACCAAGCCACTCTAATACAATTTAATCTATAAAATCAAAAT
1 TACACTAAAATTTAAATTAAACTTACCAAGCTACTCAAATACAATTTAATCTGTAAAATCAAAAT
* *
209193 AAATAATCTAATTAATTTATATTTCAAATAAAAATTAAAAATGA
66 AAATAGTCTAATTAATTTATATTTCAAATAAAAA-CAAAAAT-A
* *
209237 AACAATAAAATTT
1 TACACTAAAATTT
209250 GCACTAAATT
Statistics
Matches: 268, Mismatches: 41, Indels: 42
0.76 0.12 0.12
Matches are distributed among these distances:
102 23 0.09
103 12 0.04
104 52 0.19
105 39 0.15
106 15 0.06
107 81 0.30
108 9 0.03
109 36 0.13
111 1 0.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (107 bp):
TACACTAAAATTTAAATTAAACTTACCAAGCTACTCAAATACAATTTAATCTGTAAAATCAAAAT
AAATAGTCTAATTAATTTATATTTCAAATAAAAACAAAAATA
Found at i:209659 original size:38 final size:38
Alignment explanation
Indices: 209605--209679 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
209595 ATTCCTGAAG
* *
209605 TCTTCATTTTTGCCTGAAGATACCAAGTAATCTTGGAA
1 TCTTCATTTTTACCTGAAGACACCAAGTAATCTTGGAA
* * *
209643 TCTTCGTTTTTACCTGAAGACGCCGAGTAATCTTGGA
1 TCTTCATTTTTACCTGAAGACACCAAGTAATCTTGGA
209680 GACTTTGTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (38 bp):
TCTTCATTTTTACCTGAAGACACCAAGTAATCTTGGAA
Found at i:210130 original size:39 final size:39
Alignment explanation
Indices: 210026--210132 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 39
210016 GTACCGAGAT
* * * * *
210026 AAAGACTCCAAGATTATCTGGTGTCTTCAGGCCAACCAG
1 AAAGACTCCAAGATTACCTGGAGTCTTCAGACAAAACAG
* * *
210065 AAAGACTCCAAGAGTGCAC-GGAGTCTTCAGACAAAATAG
1 AAAGACTCCAAGATTAC-CTGGAGTCTTCAGACAAAACAG
* *
210104 AAAGACTCCAAGCTTACCTGGGGTCTTCA
1 AAAGACTCCAAGATTACCTGGAGTCTTCA
210133 TTTTTTAGCC
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
38 1 0.02
39 52 0.96
40 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (39 bp):
AAAGACTCCAAGATTACCTGGAGTCTTCAGACAAAACAG
Found at i:213706 original size:22 final size:23
Alignment explanation
Indices: 213680--213737 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
213670 AAATGATCGA
* * *
213680 AAAATATGTCA-AAATGTAGAAG
1 AAAATGTGTCATAAAGGCAGAAG
*
213702 AAAATGTGTCATAAAGGCAGATG
1 AAAATGTGTCATAAAGGCAGAAG
213725 AAAATGTGTCATA
1 AAAATGTGTCATA
213738 CAAGTAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (23 bp):
AAAATGTGTCATAAAGGCAGAAG
Found at i:213796 original size:21 final size:21
Alignment explanation
Indices: 213764--213814 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
213754 AAATAAAAAA
213764 AATA-AAAGAAAATAAATATG-T
1 AATATAAA-AAAATAAA-ATGAT
213785 AATATAAAAAAATAAAATGAT
1 AATATAAAAAAATAAAATGAT
213806 AATATAAAA
1 AATATAAAA
213815 TACTGACGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (21 bp):
AATATAAAAAAATAAAATGAT
Found at i:214341 original size:33 final size:33
Alignment explanation
Indices: 214299--214364 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
214289 AATAATGGAA
214299 CACCATGGGTTGAGTTTATGGAATTCGTTGTTT
1 CACCATGGGTTGAGTTTATGGAATTCGTTGTTT
214332 CACCATGGGTTGAGTTTATGGAATTCGTTGTTT
1 CACCATGGGTTGAGTTTATGGAATTCGTTGTTT
214365 TGAAATTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.12, G:0.27, T:0.42
Consensus pattern (33 bp):
CACCATGGGTTGAGTTTATGGAATTCGTTGTTT
Found at i:222447 original size:2 final size:2
Alignment explanation
Indices: 222440--222476 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
222430 TAGTCAAGGA
222440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
222477 GGTTAGGATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:223012 original size:21 final size:20
Alignment explanation
Indices: 222985--223081 Score: 77
Period size: 21 Copynumber: 4.7 Consensus size: 20
222975 AATCAGTTTC
222985 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
223006 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
223027 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
223047 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
223068 GAAAATCGCAACGC
1 CAAAATCGCAACGC
223082 AAACACATAA
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 14 0.24
21 45 0.76
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:223112 original size:20 final size:20
Alignment explanation
Indices: 223089--223243 Score: 213
Period size: 20 Copynumber: 7.7 Consensus size: 20
223079 CGCAAACACA
223089 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
223109 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
**
223129 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACGCGTATCCG
*
223149 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
223169 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
223189 TAAATCGCAACG-ATAATACA
1 TAAATCGCAACGCGT-ATCCG
223209 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
223230 TAAATCGCAACGCG
1 TAAATCGCAACGCG
223244 ATATTTAAAG
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 99 0.85
21 15 0.13
22 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:223134 original size:60 final size:60
Alignment explanation
Indices: 223050--223243 Score: 246
Period size: 60 Copynumber: 3.2 Consensus size: 60
223040 CGATTTTCCA
* ** * *
223050 AAATCGCAACGCGAATATGAAAATCGCAACGCAAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCAAATACATAAATCGCAACGCGTATCCGT
* ** *** *
223110 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCAAATACATAAATCGCAACGCGTATCCGT
*
223170 ATATCGCAACGCGTATCCGTAAATCGCAACG-ATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCA-AATACAT-AAATCGCAACGCGTATCCGT
223231 AAATCGCAACGCG
1 AAATCGCAACGCG
223244 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCAAATACATAAATCGCAACGCGTATCCGT
Found at i:223664 original size:33 final size:33
Alignment explanation
Indices: 223625--223695 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
223615 TTCACTTAGA
* *
223625 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
223658 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
223691 TTTCA
1 TTTCA
223696 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:223832 original size:41 final size:41
Alignment explanation
Indices: 223774--223851 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
223764 TTGCAGAAGA
*
223774 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
*
223815 GTCGCAACGAGAGAAATGACAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
223852 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:223848 original size:21 final size:21
Alignment explanation
Indices: 223775--223850 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
223765 TGCAGAAGAG
* *
223775 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGACAA
**
223796 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGACAA
223816 TCGCAACGAGAGAAATGACAA
1 TCGCAACGAGAGAAATGACAA
223837 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
223851 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGACAA
Found at i:223854 original size:14 final size:14
Alignment explanation
Indices: 223835--223891 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
223825 GAGAAATGAC
223835 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
223849 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
223868 AATCGTAACGAGAG
1 AATCGCAACGAGAG
223882 AATCGCAACG
1 AATCGCAACG
223892 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:223872 original size:33 final size:33
Alignment explanation
Indices: 223827--223907 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
223817 CGCAACGAGA
*
223827 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
223860 GAAATGAAAATCGTAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
223893 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
223908 TTGCGATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:223925 original size:19 final size:19
Alignment explanation
Indices: 223903--224000 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
223893 GAAACCAAAA
*
223903 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
223922 TCGCGTTGCGA--TT-A--
1 TCGCGTTGCGATTTTCATT
*
223936 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
223955 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
223969 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
223988 TCGCGTTGCGATT
1 TCGCGTTGCGATT
224001 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:223944 original size:14 final size:14
Alignment explanation
Indices: 223925--224014 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
223915 TTTCATTTCG
223925 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
223939 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
223958 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
223972 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-T-ATCT
*
223989 CGCGTTGCGATTCTCT
1 --CGTTGCGATTATCT
224005 CGTTGCGATT
1 CGTTGCGATT
224015 TTCATTTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 28 0.46
15 1 0.02
16 6 0.10
17 7 0.11
18 1 0.02
19 18 0.30
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:223950 original size:33 final size:33
Alignment explanation
Indices: 223908--224022 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
223898 CAAAATCGCA
*
223908 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
223941 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
223974 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
224007 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
224023 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:225879 original size:93 final size:93
Alignment explanation
Indices: 225720--226099 Score: 735
Period size: 93 Copynumber: 4.1 Consensus size: 93
225710 TAGATTGCTT
*
225720 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
225785 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
225813 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
225878 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
225905 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
225970 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
225998 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
226063 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
226091 AGTAAATTT
1 AGTAAATTT
226100 ATCCATTCAA
Statistics
Matches: 283, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 91 0.32
93 192 0.68
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:225950 original size:185 final size:186
Alignment explanation
Indices: 225720--226101 Score: 739
Period size: 185 Copynumber: 2.1 Consensus size: 186
225710 TAGATTGCTT
*
225720 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
225785 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
225850 GTGTATTCTTTAACACTGTGAAATAGTA-TTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
225905 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
225970 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
226035 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
226091 AGTAAATTTAT
1 AGTAAATTTAT
226102 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
185 156 0.81
186 37 0.19
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:226183 original size:19 final size:19
Alignment explanation
Indices: 226143--226271 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
226133 TAGTTTACTT
* *
226143 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
226163 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
226182 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
226201 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
226215 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
226234 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
226248 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
226267 TCGCA
1 TCGCA
226272 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:226222 original size:33 final size:32
Alignment explanation
Indices: 226179--226271 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
226169 CGCGAAACCA
**
226179 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
226211 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
226244 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
226272 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:226269 original size:52 final size:52
Alignment explanation
Indices: 226143--226271 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
226133 TAGTTTACTT
**
226143 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
226195 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
226248 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
226272 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:226289 original size:19 final size:19
Alignment explanation
Indices: 226267--226401 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
226257 GAAACCAAAA
*
226267 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
226286 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
226302 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
226319 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
226335 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
226352 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
226371 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
226391 TCGTGTTGCGA
1 TCGCGTTGCGA
226402 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:226308 original size:14 final size:14
Alignment explanation
Indices: 226289--226345 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
226279 TTTCATTTCG
226289 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
226303 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
226320 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
226336 CGTTGCGATT
1 CGTTGCGATT
226346 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:226314 original size:33 final size:33
Alignment explanation
Indices: 226272--226364 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
226262 CAAAATCGCA
*
226272 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
226305 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
226338 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
226365 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:228346 original size:14 final size:14
Alignment explanation
Indices: 228327--228362 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
228317 ATTGTTTAAT
228327 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
228341 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
228355 TGATTTGT
1 TGATTTGT
228363 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:228492 original size:19 final size:19
Alignment explanation
Indices: 228468--228567 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
228458 AAAATTGACT
*
228468 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
228487 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
228506 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
228520 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
228539 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
228559 ATCGCAATG
1 ATCGCAATG
228568 GGAGAATCGC
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.53
20 18 0.25
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:228597 original size:53 final size:53
Alignment explanation
Indices: 228468--228584 Score: 200
Period size: 53 Copynumber: 2.2 Consensus size: 53
228458 AAAATTGACT
*
228468 ATCGCAATGCGAAATAAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
228520 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
228573 ATCGCAATGCGA
1 ATCGCAATGCGA
228585 TTTTAATTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
52 28 0.46
53 33 0.54
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:228602 original size:19 final size:19
Alignment explanation
Indices: 228574--228741 Score: 177
Period size: 19 Copynumber: 9.6 Consensus size: 19
228564 AATGGGAGAA
* *
228574 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
228593 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
228609 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
228626 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
228645 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
228661 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
228678 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
228697 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
228713 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
228730 TCCGCATTGCGA
1 T-CGCATTGCGA
228742 AATGTAATGG
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 18 0.14
16 21 0.17
17 18 0.14
18 2 0.02
19 60 0.48
20 6 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:228617 original size:33 final size:33
Alignment explanation
Indices: 228580--228741 Score: 159
Period size: 33 Copynumber: 4.7 Consensus size: 33
228570 AGAATCGCAA
*
228580 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
228613 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
228651 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
228684 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
228717 TGCGATTTTCATTTCCGCATTGCGA
1 TGCGATTTTCATTT-CGCATTGCGA
228742 AATGTAATGG
Statistics
Matches: 104, Mismatches: 13, Indels: 23
0.74 0.09 0.16
Matches are distributed among these distances:
31 9 0.09
32 5 0.05
33 49 0.47
34 10 0.10
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:228637 original size:52 final size:52
Alignment explanation
Indices: 228574--228741 Score: 309
Period size: 52 Copynumber: 3.2 Consensus size: 52
228564 AATGGGAGAA
* *
228574 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
228626 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
228678 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
228730 TCCGCATTGCGA
1 T-CGCATTGCGA
228742 AATGTAATGG
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 103 0.91
53 10 0.09
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:228824 original size:19 final size:19
Alignment explanation
Indices: 228800--228916 Score: 146
Period size: 19 Copynumber: 6.6 Consensus size: 19
228790 AAAATTGACT
228800 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
228819 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
228838 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
228852 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
228871 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
228891 ATCGCAA--CGAAA-G--A
1 ATCGCAATGCGAAATGAAA
228905 ATCGCAATGCGA
1 ATCGCAATGCGA
228917 TTTTCATTTC
Statistics
Matches: 88, Mismatches: 2, Indels: 19
0.81 0.02 0.17
Matches are distributed among these distances:
14 18 0.20
15 1 0.01
16 6 0.07
17 6 0.07
18 2 0.02
19 39 0.44
20 16 0.18
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:228929 original size:53 final size:53
Alignment explanation
Indices: 228800--228916 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
228790 AAAATTGACT
*
228800 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGA
228852 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGA
228905 ATCGCAATGCGA
1 ATCGCAATGCGA
228917 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGA
Found at i:231248 original size:12 final size:12
Alignment explanation
Indices: 231231--231255 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
231221 TCTTCGGGGA
231231 CTTTTTCTTCTT
1 CTTTTTCTTCTT
231243 CTTTTTCTTCTT
1 CTTTTTCTTCTT
231255 C
1 C
231256 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:231464 original size:24 final size:24
Alignment explanation
Indices: 231430--231476 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
231420 CTGAAACATC
231430 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
231454 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
231477 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:232187 original size:20 final size:20
Alignment explanation
Indices: 232159--232408 Score: 259
Period size: 20 Copynumber: 12.5 Consensus size: 20
232149 AAATTTCAGT
* * *
232159 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
232179 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
232199 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
232219 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
232239 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
232259 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
232279 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
232299 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
232319 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
232339 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
232359 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
232379 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
232399 GTTGCGATTT
1 GTTGCGATTT
232409 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:232425 original size:21 final size:21
Alignment explanation
Indices: 232395--232477 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
232385 ATTTTCATAT
*
232395 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
232416 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
232437 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
232458 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
232478 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:232468 original size:42 final size:43
Alignment explanation
Indices: 232375--232473 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
232365 ATTTATGTGT
* *
232375 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
232416 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
232458 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
232474 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:234118 original size:60 final size:60
Alignment explanation
Indices: 234040--234163 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 60
234030 AAGTCCATGC
* ** * * * *
234040 AAATTATAACCCTCATTTTAAATTGGTCCTTAAA-TTTTTAAATATTTTAATTTCATCTCT
1 AAATTATAACCCTAATTTTAAATTAATCCTTAAACTTTTGAAA-ATTCTAATTGCATCCCT
**
234100 AAATTATAACTTTAATTTTAAATTAATCCTTAAACTTTTGAAAATTCTAATTGCATCCCT
1 AAATTATAACCCTAATTTTAAATTAATCCTTAAACTTTTGAAAATTCTAATTGCATCCCT
234160 AAAT
1 AAAT
234164 CATGACCTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 47 0.87
61 7 0.13
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (60 bp):
AAATTATAACCCTAATTTTAAATTAATCCTTAAACTTTTGAAAATTCTAATTGCATCCCT
Found at i:234936 original size:15 final size:16
Alignment explanation
Indices: 234898--234938 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
234888 ACAGAGTCTC
*
234898 TGAATTATTCAGCATT
1 TGAATCATTCAGCATT
*
234914 TGAATCATTCAGCGTT
1 TGAATCATTCAGCATT
234930 T-AATCATTC
1 TGAATCATTC
234939 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (16 bp):
TGAATCATTCAGCATT
Found at i:239966 original size:30 final size:28
Alignment explanation
Indices: 239922--239979 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
239912 AATAATTTTT
239922 TTTTAAAAAAAAAGAT-AAATTTATAAAA
1 TTTTAAAAAAAAAGATAAAATTT-TAAAA
239950 TTTTAATAATAAAAAGATAAAATTTTAAAA
1 TTTTAA-AA-AAAAAGATAAAATTTTAAAA
239980 CCCCCACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 6 0.22
29 2 0.07
30 13 0.48
31 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (28 bp):
TTTTAAAAAAAAAGATAAAATTTTAAAA
Found at i:240762 original size:34 final size:35
Alignment explanation
Indices: 240705--240771 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
240695 AACCATATAT
*
240705 AAAAATATTTTTAAAATTATATATTATACGGTTTC
1 AAAAATATTGTTAAAATTATATATTATACGGTTTC
*
240740 AAAAATA-TGTTAAAA-TACTATATTATATGGTT
1 AAAAATATTGTTAAAATTA-TATATTATACGGTT
240772 ATATATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 2 0.07
34 20 0.69
35 7 0.24
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (35 bp):
AAAAATATTGTTAAAATTATATATTATACGGTTTC
Found at i:247540 original size:65 final size:65
Alignment explanation
Indices: 247441--247616 Score: 336
Period size: 65 Copynumber: 2.7 Consensus size: 65
247431 TTTTTTCGTA
247441 TCGGGTGAAATCTTGTTTTGGTCGGGTTGGGTTGGATATCGGGTGGAGGATTCCTTGTTCTCGGG
1 TCGGGTGAAATCTTGTTTTGGTCGGGTTGGGTTGGATATCGGGTGGAGGATTCCTTGTTCTCGGG
247506 TCGGGTGAAATCTTGTTTTGGTCGGGTTGGGTTGGATATCGGGTGGAGGATTCCTTGTTCTCGGG
1 TCGGGTGAAATCTTGTTTTGGTCGGGTTGGGTTGGATATCGGGTGGAGGATTCCTTGTTCTCGGG
*
247571 TCGGGTGAAATCTTGTTTTGGTCGGGTT-GGTTGGATCTCGGGTGGA
1 TCGGGTGAAATCTTGTTTTGGTCGGGTTGGGTTGGATATCGGGTGGA
247617 CCAAAAATCC
Statistics
Matches: 110, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
64 17 0.15
65 93 0.85
ACGTcount: A:0.11, C:0.12, G:0.40, T:0.37
Consensus pattern (65 bp):
TCGGGTGAAATCTTGTTTTGGTCGGGTTGGGTTGGATATCGGGTGGAGGATTCCTTGTTCTCGGG
Found at i:250092 original size:3 final size:3
Alignment explanation
Indices: 250084--250111 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
250074 GTTCAACTCC
250084 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
250112 TAGATGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:253486 original size:45 final size:45
Alignment explanation
Indices: 253435--253682 Score: 417
Period size: 45 Copynumber: 5.5 Consensus size: 45
253425 TCATATCATA
*
253435 TCCATAAGCTCGTAAGCTAATTTTACCAATATACTTACCATTTAT
1 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAT
*
253480 TCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAT
1 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAT
253525 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAT
1 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAT
* * *
253570 TCCATAAGCTCGTAAGCTTATTTTACTAAAATAATTACCATTTAT
1 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAT
* *
253615 TCCATAAGCTCATAAGCTTATTTTACCAATATACTTGCCA-TTAT
1 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAT
*
253659 TCCATAAGCTCATAAGCTTATTTT
1 TCCATAAGCTCGTAAGCTTATTTT
253683 CATTGTTACC
Statistics
Matches: 192, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
44 28 0.15
45 164 0.85
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (45 bp):
TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAT
Found at i:253841 original size:40 final size:40
Alignment explanation
Indices: 253786--253907 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
253776 ACCATAGTGC
*
253786 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACTAAAGTGTAT
* *
253826 TACACATAAGGTCGTGCCCACCATAAACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACTAAAGTGTAT
253866 TACACATAAGGTCGTGCCCACCATATACACTAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACTAAAGTGTAT
253906 TA
1 TA
253908 TAAACCTCCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACTAAAGTGTAT
Done.