Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_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: 2412736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:234 original size:54 final size:53
Alignment explanation
Indices: 176--551 Score: 245
Period size: 51 Copynumber: 7.4 Consensus size: 53
166 ATGACGAGCA
*
176 TGCTCCCTATTCCTTCAG-GAAGTATAGACTCGAACAATCTTCATAAAATGTGTC
1 TGCTCCCTATTCCTTCAGAG-AGTATAGACTCGAACAATCTTCA-AAAACGTGTC
* * * * *
230 TGCTCTCTA-TCATTCATAGAGTATAAGACTTGAACAATCTTCAATAAAACGGGTC
1 TGCTCCCTATTCCTTCAGAGAGTAT-AGACTCGAACAATCTTC-A-AAAACGTGTC
* *
285 -GCTCTCTATTCCTTCAGGGAGTATAGACTCG---AATCTTC-AAAACG-GT-
1 TGCTCCCTATTCCTTCAGAGAGTATAGACTCGAACAATCTTCAAAAACGTGTC
* *
331 TCGCTCCCTATTCTTTCAGAGAGTATAGACT----CAATCTTTAAACAAACGTGT-
1 T-GCTCCCTATTCCTTCAGAGAGTATAGACTCGAACAATC-TTCAA-AAACGTGTC
*
382 TCGCTCCCTA-TCCGTTC----AGTATAGACTCGAACAATCTTCAACAAACGGGTC
1 T-GCTCCCTATTCC-TTCAGAGAGTATAGACTCGAACAATCTTCAA-AAACGTGTC
* * * *
433 CGCTCTCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATA-GACTCGAACAATCTTCAA-AAACGTGTC
* *
484 CGCTCCCTATTCCTTC--AGAGTATAGGACT----CAATCTTCAACAAACTTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATA-GACTCGAACAATCTTCAA-AAACGTGTC
*
533 CGCT-CCTATTCCTTCAGAG
1 TGCTCCCTATTCCTTCAGAG
552 TATAGGACTC
Statistics
Matches: 273, Mismatches: 24, Indels: 54
0.78 0.07 0.15
Matches are distributed among these distances:
47 16 0.06
48 45 0.16
49 37 0.14
50 31 0.11
51 62 0.23
53 11 0.04
54 45 0.16
55 26 0.10
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (53 bp):
TGCTCCCTATTCCTTCAGAGAGTATAGACTCGAACAATCTTCAAAAACGTGTC
Found at i:400 original size:51 final size:51
Alignment explanation
Indices: 177--622 Score: 364
Period size: 48 Copynumber: 8.9 Consensus size: 51
167 TGACGAGCAT
* *
177 GCTCCCTATTCCTTCAG-GAAGTATA-GACTCGAACAATCTTCATA-AAATGTGTCT
1 GCTCCCTATTCCTTCAGAG-AGTATAGGACT----CAATCTTCA-ACAAACGTGTCC
* * * * * *
231 GCTCTCTA-TCATTCATAGAGTATAAGACTTGAACAATCTTCAATAAAACGGGT-C
1 GCTCCCTATTCCTTCAGAGAGTATAGGAC-T---CAATCTTCAA-CAAACGTGTCC
* * *
285 GCTCTCTATTCCTTCAGGGAGTATA-GACTCGAATCTTC-A-AAACG-GTTC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTC-AATCTTCAACAAACGTGTCC
* * *
333 GCTCCCTATTCTTTCAGAGAGTATA-GACTCAATCTTTAAACAAACGTGTTC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATC-TTCAACAAACGTGTCC
* * * *
384 GCTCCCTA-TCCGTTCAGTATAG-ACT-CGA-ACAATCTTCAACAAACGGGTCC
1 GCTCCCTATTCC-TTCAG-AGAGTA-TAGGACTCAATCTTCAACAAACGTGTCC
* * *
434 GCTCTCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
*
485 GCTCCCTATTCCTTC--AGAGTATAGGACTCAATCTTCAACAAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
**
534 GCT-CCTATTCCTTC--AGAGTATAGGACTCAATCTTC-AC---TTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
578 GCTCCCTATT-CTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
623 AATTTGCTTC
Statistics
Matches: 334, Mismatches: 31, Indels: 58
0.79 0.07 0.14
Matches are distributed among these distances:
44 13 0.04
45 6 0.02
46 21 0.06
47 10 0.03
48 67 0.20
49 41 0.12
50 37 0.11
51 65 0.19
52 6 0.02
53 14 0.04
54 34 0.10
55 20 0.06
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
Found at i:541 original size:149 final size:149
Alignment explanation
Indices: 249--619 Score: 414
Period size: 149 Copynumber: 2.5 Consensus size: 149
239 TCATTCATAG
* *
249 AGTATAAGACTTGAACAATCTTCAATAAAACGGGT-CGCTCTCTATTCCTTCAGGGAGTATA-GA
1 AGTAT-AGAC-TGAACAATCTTCAA-CAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGA
* *
312 CTCGAATCTTCAA-AACGGTTCGCTCCCTATTCTTTCAGAGAGTATAGACTCAATCTTTAAACAA
63 CTC-AATCTTCAACAACGGTCCGCTCCCTATTCCTTCA-AGAGTATAGACTCAATCTTTAAACAA
*
376 ACGTGTTCGCTCCCTA-TCCGTTC-
126 ACGTGTCCGCTCCCTATTCC-TTCA
399 AGTATAGACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGACT
1 AGTATAGACT-GAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGACT
* *
464 CAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTC-AGAGTATAGGACTCAATC-TTCAACAAA
65 CAATCTTCAAC-AAC-GGTCCGCTCCCTATTCCTTCAAGAGTATA-GACTCAATCTTTAAACAAA
*
527 CTTGTCCGCT-CCTATTCCTTCA
127 CGTGTCCGCTCCCTATTCCTTCA
*** *
549 GAGTATAGGACT---CAATCTTC-AC---TTTGTCCGCTCCCTATT-CTTCAGAGAGTATAGGAC
1 -AGTATA-GACTGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGAC
606 TCAATCTTCAACAA
64 TCAATCTTCAACAA
620 ACGAATTTGC
Statistics
Matches: 198, Mismatches: 12, Indels: 30
0.82 0.05 0.12
Matches are distributed among these distances:
142 2 0.01
143 30 0.15
144 13 0.07
147 2 0.01
148 17 0.09
149 58 0.29
150 37 0.19
151 18 0.09
152 21 0.11
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (149 bp):
AGTATAGACTGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTC
AATCTTCAACAACGGTCCGCTCCCTATTCCTTCAAGAGTATAGACTCAATCTTTAAACAAACGTG
TCCGCTCCCTATTCCTTCA
Found at i:1879 original size:1 final size:1
Alignment explanation
Indices: 1873--2017 Score: 83
Period size: 1 Copynumber: 145.0 Consensus size: 1
1863 TTTTATTCTC
** * * * * * * * *
1873 TTTTTTTTTTTTTTTTTTCATTTTTCTCTTTTTATTTTTCTTTCTTTTTTTATTTTTATTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * * ** * * * **
1938 CATTTTTTTCTTTTTTTTTTCTTTTTTCTTTTTTCATTTTTATTATTTTTTTTTTCTTTTTCGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
2003 TTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTT
2018 CTTCTTCAAG
Statistics
Matches: 102, Mismatches: 42, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 102 1.00
ACGTcount: A:0.06, C:0.10, G:0.01, T:0.84
Consensus pattern (1 bp):
T
Found at i:1963 original size:52 final size:49
Alignment explanation
Indices: 1873--2017 Score: 147
Period size: 49 Copynumber: 2.9 Consensus size: 49
1863 TTTTATTCTC
* *
1873 TTTTT-TTTTTTTTTTTTTCATTTTTCTCTTTTTATTTTTCTTTCTTTTTTTA
1 TTTTTATTATTTTTTTTTTC--TTTT-TCTTTTT-TTTTTCTTTCTTTTTTCA
* *
1925 TTTTTATTTTTCTCATTTTTTTC-TTTT-TTTTTTCTTT-TTTCTTTTTTCA
1 TTTTTATTATT-T--TTTTTTTCTTTTTCTTTTTTTTTTCTTTCTTTTTTCA
*
1974 TTTTTATTATTTTTTTTTTCTTTTTCGTTTTTTTTTCTTT-TTTT
1 TTTTTATTATTTTTTTTTTCTTTTTCTTTTTTTTTTCTTTCTTTT
2018 CTTCTTCAAG
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
46 8 0.10
47 4 0.05
48 13 0.16
49 24 0.30
50 4 0.05
51 5 0.06
52 6 0.07
53 8 0.10
54 1 0.01
56 8 0.10
ACGTcount: A:0.06, C:0.10, G:0.01, T:0.84
Consensus pattern (49 bp):
TTTTTATTATTTTTTTTTTCTTTTTCTTTTTTTTTTCTTTCTTTTTTCA
Found at i:2006 original size:35 final size:36
Alignment explanation
Indices: 1875--2005 Score: 144
Period size: 35 Copynumber: 3.6 Consensus size: 36
1865 TTATTCTCTT
* *
1875 TTTTTTTTTTTTTTTTCATTTTTCTC-TTTTTATTT
1 TTTTTTTTTTCTTTTTCATTTTTCTCATTTTTATTA
* * *
1910 TTCTTTCTTTTTTTATTTTTATTTTTCTCATTTTT-TTC
1 TT-TTT-TTTTTCT-TTTTCATTTTTCTCATTTTTATTA
1948 TTTTTTTTTTCTTTTTTC-TTTTT-TCATTTTTATTA
1 TTTTTTTTTTC-TTTTTCATTTTTCTCATTTTTATTA
*
1983 TTTTTTTTTTCTTTTTCGTTTTT
1 TTTTTTTTTTCTTTTTCATTTTT
2006 TTTTCTTTTT
Statistics
Matches: 84, Mismatches: 5, Indels: 14
0.82 0.05 0.14
Matches are distributed among these distances:
34 14 0.17
35 25 0.30
36 12 0.14
37 11 0.13
38 17 0.20
39 5 0.06
ACGTcount: A:0.06, C:0.10, G:0.01, T:0.83
Consensus pattern (36 bp):
TTTTTTTTTTCTTTTTCATTTTTCTCATTTTTATTA
Found at i:13711 original size:130 final size:130
Alignment explanation
Indices: 13440--13702 Score: 526
Period size: 130 Copynumber: 2.0 Consensus size: 130
13430 CTAAATTGTC
13440 AAACAACCAAAATTACAAATTACATTTCATAAATACAACATAAAAACATTTCAGGACTAAAATGA
1 AAACAACCAAAATTACAAATTACATTTCATAAATACAACATAAAAACATTTCAGGACTAAAATGA
13505 AAAGTGCTCATAAATATGAAGACCAAATTAAGAAAACGCAAAAGATTCGTTCAAGGACCAAAATG
66 AAAGTGCTCATAAATATGAAGACCAAATTAAGAAAACGCAAAAGATTCGTTCAAGGACCAAAATG
13570 AAACAACCAAAATTACAAATTACATTTCATAAATACAACATAAAAACATTTCAGGACTAAAATGA
1 AAACAACCAAAATTACAAATTACATTTCATAAATACAACATAAAAACATTTCAGGACTAAAATGA
13635 AAAGTGCTCATAAATATGAAGACCAAATTAAGAAAACGCAAAAGATTCGTTCAAGGACCAAAATG
66 AAAGTGCTCATAAATATGAAGACCAAATTAAGAAAACGCAAAAGATTCGTTCAAGGACCAAAATG
13700 AAA
1 AAA
13703 GTTCCAAAAA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 133 1.00
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (130 bp):
AAACAACCAAAATTACAAATTACATTTCATAAATACAACATAAAAACATTTCAGGACTAAAATGA
AAAGTGCTCATAAATATGAAGACCAAATTAAGAAAACGCAAAAGATTCGTTCAAGGACCAAAATG
Found at i:16522 original size:20 final size:21
Alignment explanation
Indices: 16483--16529 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
16473 TTGCTTTAGG
*
16483 GGTATTGATACCCCTGCTACA
1 GGTACTGATACCCCTGCTACA
*
16504 GGTACTGATA-CCTTGCTACA
1 GGTACTGATACCCCTGCTACA
16524 -GTACTG
1 GGTACTG
16530 TTATAGTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (21 bp):
GGTACTGATACCCCTGCTACA
Found at i:17255 original size:18 final size:18
Alignment explanation
Indices: 17228--17262 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17218 CCGCGTGGAA
*
17228 ATGTCTCGAAGGACCACT
1 ATGTCCCGAAGGACCACT
17246 ATGTCCCGAAGGACCAC
1 ATGTCCCGAAGGACCAC
17263 ATATCACATA
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:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:30252 original size:3 final size:3
Alignment explanation
Indices: 30169--30239 Score: 106
Period size: 3 Copynumber: 23.7 Consensus size: 3
30159 CTTACTTTCT
* * *
30169 TCA TCA TCG CCA TCA TCA TCA TCA TCA TCA CCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
*
30217 TCA TCA CCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TC
30240 GTTGTCATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.31, C:0.38, G:0.01, T:0.30
Consensus pattern (3 bp):
TCA
Found at i:32907 original size:4 final size:4
Alignment explanation
Indices: 32898--32973 Score: 116
Period size: 4 Copynumber: 19.0 Consensus size: 4
32888 AAGGTTAATT
* * *
32898 TACA TACA TACA TACA TACA TACA TACG TACA TACG TACA TACG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
32946 TACG TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA
32974 AGGGTTTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 64 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:40649 original size:2 final size:2
Alignment explanation
Indices: 40642--40674 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
40632 TGTTATGCAT
40642 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
40675 TGTAGAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41846 original size:7 final size:6
Alignment explanation
Indices: 41818--41854 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
41808 ATGGAAACAC
41818 AAATAA AAAT-A AAAT-A AAATAA GAAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA -AAATAA AAATAA AA
41855 CAACAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.34
6 13 0.45
7 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:41854 original size:28 final size:28
Alignment explanation
Indices: 41796--41876 Score: 67
Period size: 29 Copynumber: 2.9 Consensus size: 28
41786 AAAATAAAAC
* * *
41796 AAATTAAATAAAAT-GGAAACACAAATAA
1 AAATAAAATAAAATAAGAAA-AAAAATAA
41824 AAATAAAATAAAATAAGAAATAAAAATAA
1 AAATAAAATAAAATAAGAAA-AAAAATAA
* * *
41853 AACA-ACAGTAAAAAAAGAAAAAAA
1 AA-ATAAAATAAAATAAGAAAAAAA
41877 TGGAATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 17 0.39
29 26 0.59
30 1 0.02
ACGTcount: A:0.75, C:0.05, G:0.06, T:0.14
Consensus pattern (28 bp):
AAATAAAATAAAATAAGAAAAAAAATAA
Found at i:41990 original size:20 final size:20
Alignment explanation
Indices: 41965--42006 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
41955 ATTTAATGGT
41965 TAATAAAACAAGTAA-AAATA
1 TAATAAAACAA-TAATAAATA
*
41985 TAATAAAAGAATAATAAATA
1 TAATAAAACAATAATAAATA
42005 TA
1 TA
42007 TATTAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (20 bp):
TAATAAAACAATAATAAATA
Found at i:42084 original size:21 final size:21
Alignment explanation
Indices: 42060--42099 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
42050 TTAAATAGGA
42060 ATAA-AATAAACAATAAAAAAT
1 ATAATAAT-AACAATAAAAAAT
*
42081 ATAATAATAATAATAAAAA
1 ATAATAATAACAATAAAAA
42100 TAATCGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAATAATAACAATAAAAAAT
Found at i:44161 original size:65 final size:63
Alignment explanation
Indices: 44024--44196 Score: 219
Period size: 65 Copynumber: 2.8 Consensus size: 63
44014 AAGTTGAGCC
* * *
44024 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATT--GT--TTCACCAATTTGGCT
1 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAA-TCTTGAGTAATTCACCAAATTGGCT
* * *
44084 TTTATTTGGATATACTTCGTTGTGAAGTTGAAATCCAATCTTGAGTAAGTCTCACCAAATTGGCT
1 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAGTAA-T-TCACCAAATTGGCT
* *
44149 TTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGAGTAA
1 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAGTAA
44197 ATGGTGTTGC
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
59 3 0.03
60 34 0.35
61 2 0.02
64 1 0.01
65 57 0.59
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (63 bp):
TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAGTAATTCACCAAATTGGCT
Found at i:44985 original size:21 final size:20
Alignment explanation
Indices: 44948--44990 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44938 CCCACCTCAT
44948 TTTTCTTT-TTCTTTT-CTC
1 TTTTCTTTGTTCTTTTCCTC
*
44966 TTTTCTTTTGTTCTTTTTCTC
1 TTTTC-TTTGTTCTTTTCCTC
44987 TTTT
1 TTTT
44991 TTCAATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
19 3 0.14
20 7 0.32
21 7 0.32
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTCTTTGTTCTTTTCCTC
Found at i:55562 original size:10 final size:11
Alignment explanation
Indices: 55542--55583 Score: 59
Period size: 10 Copynumber: 3.7 Consensus size: 11
55532 ATGGGAACAC
55542 AAATAAAAAAA
1 AAATAAAAAAA
55553 AAAT-AAAAAA
1 AAATAAAAAAA
55563 AAATAAGAAATAA
1 AAATAA-AAA-AA
55576 AAATAAAA
1 AAATAAAA
55584 CAACAGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.36
11 5 0.18
12 5 0.18
13 8 0.29
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (11 bp):
AAATAAAAAAA
Found at i:55662 original size:26 final size:26
Alignment explanation
Indices: 55612--55669 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
55602 AAATGGAATT
*
55612 AAATAAAACAAATAAAACAACAACAA
1 AAATAAAACAAATAAAACAAAAACAA
* **
55638 AAATAAGACAAATAAGGCAAAAACAA
1 AAATAAAACAAATAAAACAAAAACAA
55664 ATAATA
1 A-AATA
55670 TATATATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.72, C:0.12, G:0.05, T:0.10
Consensus pattern (26 bp):
AAATAAAACAAATAAAACAAAAACAA
Found at i:55768 original size:5 final size:5
Alignment explanation
Indices: 55758--55790 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
55748 AAATACTTGG
55758 TAAAA TAAAA TAAAA -AAAA TAAAA TAAAA -AAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
55791 GGATATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
TAAAA
Found at i:55778 original size:14 final size:14
Alignment explanation
Indices: 55759--55790 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
55749 AATACTTGGT
55759 AAAATAAAATAAAA
1 AAAATAAAATAAAA
55773 AAAATAAAATAAAA
1 AAAATAAAATAAAA
55787 AAAA
1 AAAA
55791 GGATATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAATAAAATAAAA
Found at i:55895 original size:15 final size:14
Alignment explanation
Indices: 55866--55901 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
55856 AAATAGGAAT
55866 AAAATAAACAATAA
1 AAAATAAACAATAA
*
55880 AAAATATAATAATAA
1 AAAATA-AACAATAA
55895 AAAATAA
1 AAAATAA
55902 TCGTAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAACAATAA
Found at i:56630 original size:14 final size:16
Alignment explanation
Indices: 56602--56633 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
56592 CGTAACCCCT
56602 TGTGTAATATGCGTAG
1 TGTGTAATATGCGTAG
56618 TGTGTAA-AT-CGTAG
1 TGTGTAATATGCGTAG
56632 TG
1 TG
56634 ATATTACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
TGTGTAATATGCGTAG
Found at i:57054 original size:21 final size:21
Alignment explanation
Indices: 57028--57097 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
57018 CATATTCTCA
57028 TTGCGATAGCCGAAGTTTGCG
1 TTGCGATAGCCGAAGTTTGCG
*
57049 TTGCGATTTATTCC-AAG-TT-CG
1 TTGCGA--TA-GCCGAAGTTTGCG
* *
57070 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGCCGAAGTTTGCG
57091 TTGCGAT
1 TTGCGAT
57098 TTATTCCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 1 0.03
21 23 0.59
22 2 0.05
23 5 0.13
24 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.34
Consensus pattern (21 bp):
TTGCGATAGCCGAAGTTTGCG
Found at i:57084 original size:42 final size:42
Alignment explanation
Indices: 57028--57238 Score: 309
Period size: 42 Copynumber: 5.1 Consensus size: 42
57018 CATATTCTCA
* * *
57028 TTGCGATAGCCGAAGTTTGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
57070 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * * *
57112 TTGCGATATTCCAAGTTCGCGTTGCGATTTATTCTAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
**
57154 TTGCGATAGTCGAAGTTCATGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
57196 TTGCGATAGGCCAAGTT--CGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
57236 TTG
1 TTG
57239 TATTTGTTTC
Statistics
Matches: 153, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 25 0.16
42 128 0.84
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:57113 original size:21 final size:21
Alignment explanation
Indices: 57047--57238 Score: 184
Period size: 21 Copynumber: 9.2 Consensus size: 21
57037 CCGAAGTTTG
57047 CGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
* *
57068 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
57087 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAGTT
57110 CGTTGCGA--TATTCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
57129 CGCGTTGCGATTTATTCTAAGTT
1 --CGTTGCGATTTATTCCAAGTT
* *
57152 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
57171 CATGTTGCGATTTATTCCAAATT
1 C--GTTGCGATTTATTCCAAGTT
**
57194 CGTTGCGA--TAGGCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
57213 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAGTT
57234 CGTTG
1 CGTTG
57239 TATTTGTTTC
Statistics
Matches: 139, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
19 45 0.32
21 67 0.48
23 27 0.19
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAGTT
Found at i:57994 original size:21 final size:21
Alignment explanation
Indices: 57942--57999 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
57932 CGTTGCGATT
*
57942 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAATGCGAAC
*
57961 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAATGCGAAC
57984 TTGGACTATCGCAATG
1 TTGGACTATCGCAATG
58000 TGAATATGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 6 0.19
21 16 0.50
23 10 0.31
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:58086 original size:21 final size:21
Alignment explanation
Indices: 58062--58136 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
58052 TTTGGAATAA
58062 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* *
58083 ATCGCAATGCAAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
58104 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
58125 ATCGCATTGCGA
1 ATCGCAATGCGA
58137 TTTACATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:59646 original size:25 final size:25
Alignment explanation
Indices: 59589--59637 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
59579 ATGAATATCC
*
59589 AAATAAATTTTTATAGTTTTTTAAA
1 AAATAAATTTTTATAGATTTTTAAA
59614 AAATAAATATTTTATA-ATTTTTAA
1 AAATAAAT-TTTTATAGATTTTTAA
59638 TAATCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
AAATAAATTTTTATAGATTTTTAAA
Found at i:68556 original size:2 final size:2
Alignment explanation
Indices: 68551--68575 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68541 TTTTAATAAA
68551 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 A
68576 AGAATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69177 original size:31 final size:32
Alignment explanation
Indices: 69142--69227 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 32
69132 GACCATTATT
*
69142 TTTTAGATAAAATATTAATATAACACC-TAAA
1 TTTTAGATAAAATATTAATTTAACACCTTAAA
* *
69173 TTTTATATAAAATATCAATTTAA-ACCTTAAA
1 TTTTAGATAAAATATTAATTTAACACCTTAAA
* * *
69204 ATGTAGATAAAATGTTAATTTAAC
1 TTTTAGATAAAATATTAATTTAAC
69228 TCATGAACCC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
30 3 0.07
31 42 0.93
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (32 bp):
TTTTAGATAAAATATTAATTTAACACCTTAAA
Found at i:70150 original size:29 final size:30
Alignment explanation
Indices: 70098--70172 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
70088 TGTCTCATTT
* * *
70098 TGACTAAAATGTTATAAATTGATAATGCAAG
1 TGAC-AAAATGTTACAAATGGATAATACAAG
*
70129 TGACAAAAT-TTACAAATGGATAATATAAG
1 TGACAAAATGTTACAAATGGATAATACAAG
70158 TGATCAAAATGTTAC
1 TGA-CAAAATGTTAC
70173 TTCTTTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 19 0.50
30 11 0.29
31 8 0.21
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.31
Consensus pattern (30 bp):
TGACAAAATGTTACAAATGGATAATACAAG
Found at i:78363 original size:17 final size:17
Alignment explanation
Indices: 78341--78388 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
78331 CGGATTGAAT
78341 GAACTCGACTCGAGCTC
1 GAACTCGACTCGAGCTC
78358 GAACTCGACTCGAGCTC
1 GAACTCGACTCGAGCTC
78375 GAACTCGACTCGAG
1 GAACTCGACTCGAG
78389 TTCTTAACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (17 bp):
GAACTCGACTCGAGCTC
Found at i:78364 original size:6 final size:6
Alignment explanation
Indices: 78341--78387 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
78331 CGGATTGAAT
* *
78341 GAACTC G-ACTC GAGCTC GAACTC G-ACTC GAGCTC GAACTC G-ACTC
1 GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC
78386 GA
1 GA
78388 GTTCTTAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (6 bp):
GAACTC
Found at i:78369 original size:11 final size:11
Alignment explanation
Indices: 78341--78387 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
78331 CGGATTGAAT
78341 GAACTCGACTC
1 GAACTCGACTC
*
78352 GAGCTCGAACTC
1 GAACTCG-ACTC
78364 G-ACTCGAGCTC
1 GAACTCGA-CTC
78375 GAACTCGACTC
1 GAACTCGACTC
78386 GA
1 GA
78388 GTTCTTAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 1 0.03
11 19 0.61
12 11 0.35
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (11 bp):
GAACTCGACTC
Found at i:79587 original size:7 final size:7
Alignment explanation
Indices: 79575--79608 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
79565 TTTTCATTAA
79575 ACCCTAC
1 ACCCTAC
79582 ACCCTAC
1 ACCCTAC
79589 ACCCTAC
1 ACCCTAC
79596 ACCCTAC
1 ACCCTAC
79603 ACCCTA
1 ACCCTA
79609 AATCATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCCTAC
Found at i:79733 original size:7 final size:7
Alignment explanation
Indices: 79721--79767 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
79711 ACTTAAAATA
79721 CTAAACC
1 CTAAACC
79728 CTAAACC
1 CTAAACC
*
79735 CTAAACT
1 CTAAACC
*
79742 CTAAACT
1 CTAAACC
79749 CTAAACC
1 CTAAACC
79756 CTAAACC
1 CTAAACC
79763 CTAAA
1 CTAAA
79768 TACAAACTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:79752 original size:28 final size:27
Alignment explanation
Indices: 79721--79809 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
79711 ACTTAAAATA
79721 CTAAACCCTAAACCCTAAACTCTAAACT
1 CTAAACCCTAAACCCTAAA-TCTAAACT
79749 CTAAACCCTAAACCCTAAATAC-AAACT
1 CTAAACCCTAAACCCTAAAT-CTAAACT
* *
79776 TTAAATCCTAAAACCCTAAATCTAAACT
1 CTAAACCCT-AAACCCTAAATCTAAACT
*
79804 ATAAAC
1 CTAAAC
79810 TACAAATACT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
27 14 0.26
28 40 0.74
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.22
Consensus pattern (27 bp):
CTAAACCCTAAACCCTAAATCTAAACT
Found at i:80572 original size:3 final size:3
Alignment explanation
Indices: 80564--80608 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
80554 TGTATTTTCC
80564 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
80609 CAAAATGTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:88031 original size:59 final size:59
Alignment explanation
Indices: 87906--88034 Score: 190
Period size: 59 Copynumber: 2.2 Consensus size: 59
87896 CACAATAGTC
* *
87906 CCTCGACTATAGGGTGATTCTTTGTTGAGTCCCTCGACTATTGAAAGTTACAAAATGTT
1 CCTCGACTATAGGGTGATTCTTTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATGGT
*
87965 CCTTCGACTATAGGGTG-TTGCTTTGTTGAGTTCC-CGACTATTAAAAGTTACAAAATGGT
1 CC-TCGACTATAGGGTGATT-CTTTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATGGT
88024 CACTCGACTAT
1 C-CTCGACTAT
88035 TCTTTTCCTT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
59 36 0.56
60 28 0.44
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (59 bp):
CCTCGACTATAGGGTGATTCTTTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATGGT
Found at i:88388 original size:18 final size:19
Alignment explanation
Indices: 88367--88402 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88357 CAAAAATATA
88367 ATAAAACTATAA-AATCTT
1 ATAAAACTATAATAATCTT
*
88385 ATAAAATTATAATAATCT
1 ATAAAACTATAATAATCT
88403 GATACCCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAACTATAATAATCTT
Found at i:93360 original size:20 final size:21
Alignment explanation
Indices: 93316--93361 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
93306 ATTTTTGCAG
*
93316 AGAAAACATCCCCAAACATCT
1 AGAAAACATCCCCAAACAGCT
* *
93337 AGAAATCATCCCC-AACGGCT
1 AGAAAACATCCCCAAACAGCT
93357 AGAAA
1 AGAAA
93362 CAACCATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.46, C:0.30, G:0.11, T:0.13
Consensus pattern (21 bp):
AGAAAACATCCCCAAACAGCT
Found at i:95201 original size:11 final size:11
Alignment explanation
Indices: 95182--95211 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
95172 AATTAAATTT
*
95182 TAATCTTAAAA
1 TAATTTTAAAA
95193 TAATTTTAAAA
1 TAATTTTAAAA
95204 TAATTTTA
1 TAATTTTA
95212 CAAAGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:97851 original size:20 final size:20
Alignment explanation
Indices: 97808--97854 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
97798 ATTTTTGCAG
*
97808 AGAAAACATCCCCAAACGGCT
1 AGAAATCATCCCCAAAC-GCT
97829 AGAAATCATCCCCAATA-GCT
1 AGAAATCATCCCCAA-ACGCT
97849 AGAAAT
1 AGAAAT
97855 GATCATAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 14 0.58
22 1 0.04
ACGTcount: A:0.45, C:0.28, G:0.13, T:0.15
Consensus pattern (20 bp):
AGAAATCATCCCCAAACGCT
Found at i:106435 original size:60 final size:60
Alignment explanation
Indices: 106341--106467 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 60
106331 AAGATCTCTT
* *
106341 ACACCCTCCAGGGTTCAGTCCAGAGCTATCTCATCCACCAAGGTTCACGCCAAACCCTCA
1 ACACCCTCCAGGGTTCAGTCCAGAGCCATCTCATCCACCAAGATTCACGCCAAACCCTCA
* * * * * *
106401 GCACCCTCCAGGGTTCAGTCTAGAGCCATCTCATCCACCATGATTCATGCCAGACCCTTA
1 ACACCCTCCAGGGTTCAGTCCAGAGCCATCTCATCCACCAAGATTCACGCCAAACCCTCA
106461 ACACCCT
1 ACACCCT
106468 TTAGGCTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.25, C:0.39, G:0.15, T:0.20
Consensus pattern (60 bp):
ACACCCTCCAGGGTTCAGTCCAGAGCCATCTCATCCACCAAGATTCACGCCAAACCCTCA
Found at i:114469 original size:31 final size:32
Alignment explanation
Indices: 114422--114485 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
114412 GAGATGGACA
*
114422 AATGAAGAGTTCATAATGAGAATAACTCATCC
1 AATGAAGAGGTCATAATGAGAATAACTCATCC
114454 AATGAAG-GGTCATAATGAGAATAACTCATCC
1 AATGAAGAGGTCATAATGAGAATAACTCATCC
114485 A
1 A
114486 GCAAGAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (32 bp):
AATGAAGAGGTCATAATGAGAATAACTCATCC
Found at i:121385 original size:20 final size:20
Alignment explanation
Indices: 121360--121397 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
121350 TTTTGGTGCA
*
121360 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
121380 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
121398 TTTGAAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:123420 original size:16 final size:15
Alignment explanation
Indices: 123395--123441 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
123385 CATTTTGAAA
123395 ATTTTGGATTGTTTG
1 ATTTTGGATTGTTTG
*
123410 ATTTGTGGATTGTTAG
1 ATTT-TGGATTGTTTG
*
123426 ACTTTGGATTTGTTTG
1 ATTTTGGA-TTGTTTG
123442 GATGTTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.15, C:0.02, G:0.28, T:0.55
Consensus pattern (15 bp):
ATTTTGGATTGTTTG
Found at i:129823 original size:13 final size:13
Alignment explanation
Indices: 129805--129833 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
129795 CAACCGGTGC
129805 TGCTTACTTGTTA
1 TGCTTACTTGTTA
129818 TGCTTACTTGTTA
1 TGCTTACTTGTTA
129831 TGC
1 TGC
129834 AATGCTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.52
Consensus pattern (13 bp):
TGCTTACTTGTTA
Found at i:134649 original size:13 final size:13
Alignment explanation
Indices: 134631--134671 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
134621 TAAATCTATA
134631 ACACGCATTTATG
1 ACACGCATTTATG
134644 ACACGCATTTATG
1 ACACGCATTTATG
* *
134657 ACGCTCATTTATG
1 ACACGCATTTATG
134670 AC
1 AC
134672 GCATCATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (13 bp):
ACACGCATTTATG
Found at i:134680 original size:14 final size:13
Alignment explanation
Indices: 134636--134684 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
134626 CTATAACACG
* *
134636 CATTTATGACACG
1 CATTTATGACGCT
134649 CATTTATGACGCT
1 CATTTATGACGCT
134662 CATTTATGACGCAT
1 CATTTATGACGC-T
134676 CATTTATGA
1 CATTTATGA
134685 TGCACATTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
13 23 0.70
14 10 0.30
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (13 bp):
CATTTATGACGCT
Found at i:134692 original size:13 final size:13
Alignment explanation
Indices: 134636--134692 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 13
134626 CTATAACACG
* *
134636 CATTTATGACACG
1 CATTTATGACGCA
*
134649 CATTTATGACGCT
1 CATTTATGACGCA
134662 CATTTATGACGCA
1 CATTTATGACGCA
*
134675 TCATTTATGATGCA
1 -CATTTATGACGCA
134689 CATT
1 CATT
134693 GCGCGTCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
13 27 0.69
14 12 0.31
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (13 bp):
CATTTATGACGCA
Found at i:134692 original size:27 final size:26
Alignment explanation
Indices: 134636--134692 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
134626 CTATAACACG
*
134636 CATTTATGACACGCATTTATGACGCT
1 CATTTATGACACGCATTTATGACGCA
* * *
134662 CATTTATGACGCATCATTTATGATGCA
1 CATTTATGACAC-GCATTTATGACGCA
134689 CATT
1 CATT
134693 GCGCGTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (26 bp):
CATTTATGACACGCATTTATGACGCA
Found at i:138397 original size:18 final size:18
Alignment explanation
Indices: 138374--138410 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
138364 TATTGCTTTA
138374 TGTTATTTTAGTTTGACT
1 TGTTATTTTAGTTTGACT
138392 TGTTATTTTAGTTTGACT
1 TGTTATTTTAGTTTGACT
138410 T
1 T
138411 TATGTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.05, G:0.16, T:0.62
Consensus pattern (18 bp):
TGTTATTTTAGTTTGACT
Found at i:139051 original size:29 final size:31
Alignment explanation
Indices: 138995--139062 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 31
138985 TAAATATTTA
* * *
138995 ATTTTTTTTTTAGTTTTAAGTTGCTGGAAGT
1 ATTTTTTTTTTAGTTTTAAGCTGATGGAAAT
* *
139026 CTTTTTTTTTT-G-TTTATGCTGATGGAAAT
1 ATTTTTTTTTTAGTTTTAAGCTGATGGAAAT
139055 ATTTTTTT
1 ATTTTTTT
139063 ATGTAGGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 20 0.65
30 1 0.03
31 10 0.32
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.62
Consensus pattern (31 bp):
ATTTTTTTTTTAGTTTTAAGCTGATGGAAAT
Found at i:140644 original size:2 final size:2
Alignment explanation
Indices: 140637--140684 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
140627 TTGCTGGAAA
140637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
140679 AT AT AT
1 AT AT AT
140685 GCATAATGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:148079 original size:21 final size:21
Alignment explanation
Indices: 148003--148080 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
147993 CTTTCGAGAT
*
148003 ATATATGTAATCCTTTGGAAC
1 ATATATGTGATCCTTTGGAAC
* * * * *
148024 ATATATGCGGTTCTTCGGGAC
1 ATATATGTGATCCTTTGGAAC
* * * *
148045 ACATATTTGGTCCTTTGGAAT
1 ATATATGTGATCCTTTGGAAC
148066 ATATATGTGATCCTT
1 ATATATGTGATCCTT
148081 AAGGAGTGGT
Statistics
Matches: 41, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (21 bp):
ATATATGTGATCCTTTGGAAC
Found at i:148141 original size:23 final size:21
Alignment explanation
Indices: 148090--148145 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
148080 TAAGGAGTGG
* * *
148090 TCCTTCGGGACATATATGTGG
1 TCCTTCGGGACATATACGCGA
148111 TCCTTCGGGACATTACTACGCGA
1 TCCTTCGGGACA-TA-TACGCGA
148134 TCCTTCGGGACA
1 TCCTTCGGGACA
148146 ATTTTATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 2 0.07
23 16 0.53
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.29
Consensus pattern (21 bp):
TCCTTCGGGACATATACGCGA
Found at i:151485 original size:22 final size:20
Alignment explanation
Indices: 151458--151511 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
151448 GTACCTAGGG
151458 GAGTATCGATACCATAAG-AGA
1 GAGTATCGATACCAT-AGTA-A
* *
151479 GTAGTATCGGTACTATAGTAA
1 G-AGTATCGATACCATAGTAA
151500 GAGTATCGATAC
1 GAGTATCGATAC
151512 TTGTTAGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 10 0.36
21 5 0.18
22 13 0.46
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (20 bp):
GAGTATCGATACCATAGTAA
Found at i:151797 original size:26 final size:26
Alignment explanation
Indices: 151761--151813 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
151751 GCGACAAGTC
151761 TGTTTCCTACATTTTGAAATATATGA
1 TGTTTCCTACATTTTGAAATATATGA
151787 TGTTTCCTACATTTTGAAATATATGA
1 TGTTTCCTACATTTTGAAATATATGA
151813 T
1 T
151814 TGCATGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (26 bp):
TGTTTCCTACATTTTGAAATATATGA
Found at i:152217 original size:21 final size:21
Alignment explanation
Indices: 152186--152281 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
152176 TCGAGGGTTC
* *
152186 TATGTGGTCCTTCGGGATATA
1 TATGTGATCCTTCGGAATATA
* * *
152207 TATGTAATCCTTTGGAACATA
1 TATGTGATCCTTCGGAATATA
* * * * *
152228 TATGCGGTTCTTCGGGATACA
1 TATGTGATCCTTCGGAATATA
* * *
152249 TATTTGGTCCTTTGGAATATA
1 TATGTGATCCTTCGGAATATA
152270 TATGTGATCCTT
1 TATGTGATCCTT
152282 AAGGAGTGGT
Statistics
Matches: 54, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.41
Consensus pattern (21 bp):
TATGTGATCCTTCGGAATATA
Found at i:152260 original size:42 final size:42
Alignment explanation
Indices: 152186--152273 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
152176 TCGAGGGTTC
* *
152186 TATGTGGTCCTTCGGGATATATATGTAATCCTTTGGAACATA
1 TATGCGGTCCTTCGGGATACATATGTAATCCTTTGGAACATA
* * ** *
152228 TATGCGGTTCTTCGGGATACATATTTGGTCCTTTGGAATATA
1 TATGCGGTCCTTCGGGATACATATGTAATCCTTTGGAACATA
152270 TATG
1 TATG
152274 TGATCCTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.40
Consensus pattern (42 bp):
TATGCGGTCCTTCGGGATACATATGTAATCCTTTGGAACATA
Found at i:157437 original size:3 final size:3
Alignment explanation
Indices: 157429--157472 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
157419 CGAGACCATC
* * * *
157429 TTA TTA TTA TTA TTG TTG TTG TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
157473 TACAGGCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:160110 original size:28 final size:28
Alignment explanation
Indices: 160067--160128 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
160057 ACGAGAGAAA
160067 AAGAAATGTTCATCTATTTAAATTCTTC
1 AAGAAATGTTCATCTATTTAAATTCTTC
*
160095 AAGAAATGTTCGTCTATTTAAATTCTTC
1 AAGAAATGTTCATCTATTTAAATTCTTC
*
160123 GAGAAA
1 AAGAAA
160129 AGATTGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (28 bp):
AAGAAATGTTCATCTATTTAAATTCTTC
Found at i:163138 original size:14 final size:14
Alignment explanation
Indices: 163119--163146 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
163109 AATAAAAGGA
163119 ATGATTGAAATGAT
1 ATGATTGAAATGAT
163133 ATGATTGAAATGAT
1 ATGATTGAAATGAT
163147 TCTATCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
ATGATTGAAATGAT
Found at i:163697 original size:12 final size:12
Alignment explanation
Indices: 163680--163735 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
163670 AAGATAGATA
163680 AAGAAAAAAAAT
1 AAGAAAAAAAAT
*
163692 AAG-AAAAAGAT
1 AAGAAAAAAAAT
163703 AAGAAAAAATAGAAT
1 AAG-AAAAA-A-AAT
* *
163718 AAGAATAAGAAT
1 AAGAAAAAAAAT
163730 AAGAAA
1 AAGAAA
163736 GAACAGATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
11 10 0.29
12 11 0.31
13 4 0.11
14 5 0.14
15 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (12 bp):
AAGAAAAAAAAT
Found at i:163711 original size:21 final size:21
Alignment explanation
Indices: 163685--163728 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
163675 AGATAAAGAA
163685 AAAAAATAAGAAAAAG-ATAAG
1 AAAAAAT-AGAAAAAGAATAAG
*
163706 AAAAAATAGAATAAGAATAAG
1 AAAAAATAGAAAAAGAATAAG
163727 AA
1 AA
163729 TAAGAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (21 bp):
AAAAAATAGAAAAAGAATAAG
Found at i:163724 original size:6 final size:6
Alignment explanation
Indices: 163689--163734 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
163679 AAAGAAAAAA
*
163689 AATAAG AAAAAG -ATAAG AA-AA- AAT-AG AATAAG AATAAG AATAAG
1 AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG
163733 AA
1 AA
163735 AGAACAGATC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
4 3 0.09
5 9 0.26
6 22 0.65
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (6 bp):
AATAAG
Found at i:165303 original size:45 final size:45
Alignment explanation
Indices: 165252--165988 Score: 656
Period size: 45 Copynumber: 16.3 Consensus size: 45
165242 TGAAAATAAA
* * * * * *
165252 TCAATCTTTTAGTGTTTTTATTCTTTACTTTCTCATGAAGATGAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * *
165297 TCAATC-TTTAGTGTTGTCATTCTTGACTTTATCATGAAGAGGAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * *** *
165341 TCAATCTTTCAGTGTTGTCATTCTTGACTTTCACACAAAGATGAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * **
165386 TCAATCTTTTAGTGTTATCCTTCTTGAAGTTCTCGTGAAGAGGAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * * * *
165431 TTAATCTTTTAATGTTGTCCTTATTGACTTTCTCGTGAAGATGAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * *
165476 TCAGCCTTTTAGTGTTGTCCTTCTTGACTTTCTTGTGAAGAGGAT
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * * *
165521 TCAATCTTTTAATAG-TGTCCTTCTTGATTTTC-CTGTGAAGAGGAT
1 TCAACCTTTTAGT-GTTGTCATTCTTGACTTTCTC-GTGAAGAGGAG
* * * * ** *
165566 TCAACCATTTAGTGATGTTATTCTTAACTTTCTCGCAAAGAGGAT
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * * ***
165611 TCAATCTTTTAATGTTGTCCTTCTTGACCTTCTCACAAAGAGGAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * *
165656 TCAATCTTTTAATGTTGTTC-TTCTTAACTTTCTCGTGAAGATGAG
1 TCAACCTTTTAGTGTTG-TCATTCTTGACTTTCTCGTGAAGAGGAG
* * *
165701 TCAACCCTTTTAGTGATGTCATTATTGACTTTCTCGTGAAAAGGAG
1 TCAA-CCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * * *
165747 TTAACCATTTAATGATGTCATTCTTGACTTTCTCGCGAAGAGGAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * *
165792 TCAACCTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAAAGG-G
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * * *
165836 TCAACCTTTTAGTGATGTGATTCTTGACTTTGTCATGAAGAGAAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * * *
165881 TCAACCTTTTAATGATGTCATTCTTGACTTTCTCGGGAAGAAGAG
1 TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
* * *
165926 TCAACCTTTTAGTGATGTTATTCTCAACTTGACTTTCTCATGAAGAGGAG
1 TCAACCTTTTAGTGTTGTCA-T-T---CTTGACTTTCTCGTGAAGAGGAG
*
165976 TCAACTTTTTAGT
1 TCAACCTTTTAGT
165989 AGTATCCTTC
Statistics
Matches: 576, Mismatches: 102, Indels: 23
0.82 0.15 0.03
Matches are distributed among these distances:
44 78 0.14
45 426 0.74
46 39 0.07
47 1 0.00
50 32 0.06
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (45 bp):
TCAACCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGGAG
Found at i:165634 original size:225 final size:224
Alignment explanation
Indices: 165311--165943 Score: 754
Period size: 225 Copynumber: 2.8 Consensus size: 224
165301 TCTTTAGTGT
* * * * * *
165311 TGTCATTCTTGACTTTATCATGAAGAGGAGTCAATCTTTCAGTGTTGTCATTCTTGACTTTCACA
1 TGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAACCTTT-AGTGATGTCATTCTTGACTTTCTCG
* * ** * *
165376 CAAAGATGAGTCAATCTTTTAGTGTTATCCTTCTTGAAGTTCTCGTGAAGAGGAGTTAATCTTTT
65 CAAAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACCTTCTCATGAAGAGGAGTCAATCTTTT
* * * * *
165441 AATGTTGTCCTTATTGACTTTCTCGTGAAGATGAGTCAGCCTTTTAGTGTTGTCCTTCTTGACTT
130 AATGTTGTCCTTCTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATTATTGACTT
* * * *
165506 TCTTGTGAAGAGGA-TTCAATCTTTTAAT-A
195 TCTCGTGAAAAGGAGTT-AACCATTTAATGA
* * * * *
165535 GTGTCCTTCTTGATTTTC-CTGTGAAGAGGATTCAACCATTTAGTGATGTTATTCTTAACTTTCT
1 -TGTCATTCTTGACTTTCTC-GTGAAGAGGAGTCAACC-TTTAGTGATGTCATTCTTGACTTTCT
* * **
165599 CGCAAAGAGGATTCAATCTTTTAATGTTGTCCTTCTTGACCTTCTCACAAAGAGGAGTCAATCTT
63 CGCAAAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACCTTCTCATGAAGAGGAGTCAATCTT
* *
165664 TTAATGTTGTTCTTCTTAACTTTCTCGTGAAGATGAGTCAACCCTTTTAGTGATGTCATTATTGA
128 TTAATGTTGTCCTTCTTGACTTTCTCGTGAAGATGAGTCAA-CCTTTTAGTGATGTCATTATTGA
165729 CTTTCTCGTGAAAAGGAGTTAACCATTTAATGA
192 CTTTCTCGTGAAAAGGAGTTAACCATTTAATGA
*
165762 TGTCATTCTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCG
1 TGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAACC-TTTAGTGATGTCATTCTTGACTTTCTCG
* * ** * * * *
165827 CGAAA-AGG-GTCAACCTTTTAGTGATGTGATTCTTGACTTTGTCATGAAGAGAAGTCAACCTTT
65 C-AAAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACCTTCTCATGAAGAGGAGTCAATCTTT
* * * *
165890 TAATGATGTCATTCTTGACTTTCTCGGGAAGAAGAGTCAACCTTTTAGTGATGT
129 TAATGTTGTCCTTCTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGT
165944 TATTCTCAAC
Statistics
Matches: 344, Mismatches: 57, Indels: 15
0.83 0.14 0.04
Matches are distributed among these distances:
224 15 0.04
225 215 0.62
226 107 0.31
227 7 0.02
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (224 bp):
TGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAACCTTTAGTGATGTCATTCTTGACTTTCTCGC
AAAGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACCTTCTCATGAAGAGGAGTCAATCTTTTA
ATGTTGTCCTTCTTGACTTTCTCGTGAAGATGAGTCAACCTTTTAGTGATGTCATTATTGACTTT
CTCGTGAAAAGGAGTTAACCATTTAATGA
Found at i:167264 original size:131 final size:129
Alignment explanation
Indices: 166924--167278 Score: 394
Period size: 131 Copynumber: 2.7 Consensus size: 129
166914 TACAGATTTG
* * * *
166924 ATCTTCCCTGAAGAGCAGTGAAGTGAATCAAACTTTCCAGATCTGATCTACCATAGAACGTAGCA
1 ATCTTCCCTAAAGAGCAGTGAAGTGAATCAAATTTTCCAGAT-TGATCTACCATA-AAAGTAGCG
* *
166989 GAGCATATCCTTTTTTTCATATTTGATCTTCTCTGAAGAGAAATGAAGCAAATCAACATCGATTC
64 GAGAATATCCTTTTTTTCATATTTGATCTTCTCTAAAGAGAAATGAAGCAAATCAACATCGATTC
167054 A
129 A
** * * * * * *
167055 ATCTTCTGTAAAGAGAAGTGAAGTGAATC-AATGTTTCTAGATTTGATATACCTTGAAGAGTAAC
1 ATCTTCCCTAAAGAGCAGTGAAGTGAATCAAAT-TTTCCAGA-TTGATCTACCAT-AAAAGTAGC
* * * * *
167119 GGAGAAGATCCTTTTTTTCATATTTGATCTTCTCTAAAGAGTAGTGAAGCAAATCTACCTCGATT
63 GGAGAATATCCTTTTTTTCATATTTGATCTTCTCTAAAGAGAAATGAAGCAAATCAACATCGATT
167184 CA
128 CA
* * *
167186 ATCTTCCCTTAAGAGCAGTGAAGTGAATCAAATTTTCCATATTGATCTACTC-TAAAATGTAGTG
1 ATCTTCCCTAAAGAGCAGTGAAGTGAATCAAATTTTCCAGATTGATCTAC-CATAAAA-GTAGCG
* * *
167250 GAGTATAT-C-TCTTTTCAGATTTGATCTTC
64 GAGAATATCCTTTTTTTCATATTTGATCTTC
167279 AAAAATCTCT
Statistics
Matches: 185, Mismatches: 33, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
128 18 0.10
129 4 0.02
130 21 0.11
131 137 0.74
132 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (129 bp):
ATCTTCCCTAAAGAGCAGTGAAGTGAATCAAATTTTCCAGATTGATCTACCATAAAAGTAGCGGA
GAATATCCTTTTTTTCATATTTGATCTTCTCTAAAGAGAAATGAAGCAAATCAACATCGATTCA
Found at i:167466 original size:3 final size:3
Alignment explanation
Indices: 167458--167503 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
167448 GGTCGAAACC
*
167458 TTA TTA TTA TTA TTA TTA TT- TAA TTA TTA TT- TTA TT- TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
167502 TT
1 TT
167504 TACAGGCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 7 0.19
3 30 0.81
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:167485 original size:17 final size:16
Alignment explanation
Indices: 167463--167504 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
167453 AAACCTTATT
167463 ATTATTATTATTATTTA
1 ATTATTATT-TTATTTA
*
167480 ATTATTATTTTATTTT
1 ATTATTATTTTATTTA
167496 ATT-TTATTT
1 ATTATTATTT
167505 ACAGGCTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 6 0.25
16 9 0.38
17 9 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTATTATTTTATTTA
Found at i:167494 original size:5 final size:5
Alignment explanation
Indices: 167461--167504 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
167451 CGAAACCTTA
*
167461 TTATT ATTATT ATTATT TAATT ATTATT TTATT TTATT TTATT T
1 TTATT -TTATT -TTATT TTATT -TTATT TTATT TTATT TTATT T
167505 ACAGGCTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
5 20 0.57
6 15 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:171418 original size:44 final size:44
Alignment explanation
Indices: 171258--171754 Score: 789
Period size: 44 Copynumber: 11.2 Consensus size: 44
171248 ATTAATAAAT
* * *
171258 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATAC
1 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
* * *
171303 TTACAATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
** *
171348 TTACCATTTATTTGATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
* * *
171393 TTACCATTATTCCTTAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
* *
171437 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
* *
171482 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
171526 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
171571 TTACCATTATTCCATAAGCTCATAAGCTTATTTTACCAATATAC
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
171615 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
171659 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
171703 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
171747 TT-CCATTA
1 TTACCATTA
171755 ACCTCATTTA
Statistics
Matches: 433, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
43 6 0.01
44 254 0.59
45 173 0.40
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (44 bp):
TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
Found at i:171441 original size:89 final size:89
Alignment explanation
Indices: 171258--171754 Score: 829
Period size: 89 Copynumber: 5.6 Consensus size: 89
171248 ATTAATAAAT
* * * *
171258 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATACTTACAATTTATTCCATAAGC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TTATTCCATAAGC
171323 TCGTAAGCCTATTTTACCAACATAC
65 TCGTAAGCCTATTTTACCAACATAC
** * *
171348 TTACCATTTATTTGATAAGCTCGTAAGCCTATTTTACCAATATACTTACCATTATTCCTTAAGCT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
171413 CGTAAGCCTATTTTACCAACATAC
66 CGTAAGCCTATTTTACCAACATAC
* *
171437 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTATTCCATAAGCT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
171502 CGTAAGCCTATTTTACCAACATAC
66 CGTAAGCCTATTTTACCAACATAC
171526 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
* * *
171591 CATAAGCTTATTTTACCAATATAC
66 CGTAAGCCTATTTTACCAACATAC
171615 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
* *
171679 CGTAAGCTTATTTTACCAATATAC
66 CGTAAGCCTATTTTACCAACATAC
171703 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT-CCATTA
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTA
171755 ACCTCATTTA
Statistics
Matches: 389, Mismatches: 18, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
87 6 0.02
88 127 0.33
89 212 0.54
90 44 0.11
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (89 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
CGTAAGCCTATTTTACCAACATAC
Found at i:171950 original size:59 final size:59
Alignment explanation
Indices: 171887--171998 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 59
171877 CTTCCCCTTT
* * * *
171887 CATTTTGGCACACGAAGTGCCCTAT-TCAAAAATTCATACCATTAGTATAATTTTGTTAC
1 CATTTTAGCACACGAAATGACCTATGT-AAAAATCCATACCATTAGTATAATTTTGTTAC
* * * *
171946 CATTTTAGCACATGAAATGACCTATGTGAAAATCCATATCATTAGTATGATTT
1 CATTTTAGCACACGAAATGACCTATGTAAAAATCCATACCATTAGTATAATTT
171999 CCTTATCTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
59 43 0.98
60 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (59 bp):
CATTTTAGCACACGAAATGACCTATGTAAAAATCCATACCATTAGTATAATTTTGTTAC
Found at i:172014 original size:59 final size:57
Alignment explanation
Indices: 171915--172646 Score: 253
Period size: 59 Copynumber: 12.7 Consensus size: 57
171905 GCCCTATTCA
* * * ** *
171915 AAAATTCATACCATTAGTATAATTTTGTTACCATTTTAGCACATGAAATGACCTATGTG
1 AAAATCCATATCATTAGTATGATTTCCTTACCATTTTAGCACAT-AAATG-CCTATCTG
* * *
171974 AAAATCCATATCATTAGTATGATTTCCTTATC-TTTGTAGCACCCAT-AGTGCTTTATCTG
1 AAAATCCATATCATTAGTATGATTTCCTTACCATTT-TAGCA--CATAAATGC-CTATCTG
* * *
172033 GAAATCCATA-CACTCAGTATGATTCCCTTACCATTTTAGCACATAAAATGCCCTATCTG
1 AAAATCCATATCA-TTAGTATGATTTCCTTACCATTTTAGCACAT-AAATG-CCTATCTG
* * * * * * * * *
172092 GAAATCCATAT-TTTCAATATGATTTCCTTATCA-TTTAGCATACTCAGTGCTCCATATG
1 AAAATCCATATCATT-AGTATGATTTCCTTACCATTTTAGCACA-TAAATGC-CTATCTG
* * * *
172150 AAAATCTATA-CACTCAGTATGATTTCCTTACCA-TTT------T---TCCCTATATG
1 AAAATCCATATCA-TTAGTATGATTTCCTTACCATTTTAGCACATAAATGCCTATCTG
* * ** * * * * *
172197 GAAATCCATAT-GTTCAACATGATTTCCTTATCA-TTTAGCACACTCAGTGCTCCATATG
1 AAAATCCATATCATT-AGTATGATTTCCTTACCATTTTAGCACA-TAAATGC-CTATCTG
* * * * *
172255 GAAATCTATA-CACTCAGTATGATTTACTTACCATTTTAGCACATAAAATGCCCTATTTG
1 AAAATCCATATCA-TTAGTATGATTTCCTTACCATTTTAGCACAT-AAATG-CCTATCTG
* * * * * * * *
172314 GAAATCCATAT--TTCCAATATGATTTCTTTATCA-TTTAGCACACTCAGTGCTCCATATG
1 AAAATCCATATCATT--AGTATGATTTCCTTACCATTTTAGCACA-TAAATGC-CTATCTG
* * * * *
172372 AAAATCTATA-CACTCATTCTGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATG
1 AAAATCCATATCA-TTAGTATGATTTCCTTACCATTTTAGCACAT-AAATG-CCTATCTG
* * * ** * * * *
172431 GAAATCCATAT-TTTCAATATGATTTCCTTGTCA-TTTAGCACACTTAGTGCTCCATATG
1 AAAATCCATATCATT-AGTATGATTTCCTTACCATTTTAGCACA-TAAATGC-CTATCTG
* * *
172489 GAAATCTATA-CACTTAGTATGATTTCCTTACCATTTTAGAACATAAAATGCCCTATCTG
1 AAAATCCATATCA-TTAGTATGATTTCCTTACCATTTTAGCACAT-AAATG-CCTATCTG
* * * * * * * *
172548 GAAATCCATAT-TTTCAATATGATTTCCTTATCA-TTTAGCACACTCAGTGCTCCATATG
1 AAAATCCATATCATT-AGTATGATTTCCTTACCATTTTAGCACA-TAAATGC-CTATCTG
* * * *
172606 GAAATCTATA-CACTCAGTATGATTTCCTTATCATTTTAGCA
1 AAAATCCATATCA-TTAGTATGATTTCCTTACCATTTTAGCA
172647 AACAAAGTGT
Statistics
Matches: 506, Mismatches: 107, Indels: 120
0.69 0.15 0.16
Matches are distributed among these distances:
46 1 0.00
47 32 0.06
48 2 0.00
51 1 0.00
54 1 0.00
57 10 0.02
58 208 0.41
59 240 0.47
60 8 0.02
61 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (57 bp):
AAAATCCATATCATTAGTATGATTTCCTTACCATTTTAGCACATAAATGCCTATCTG
Found at i:172024 original size:118 final size:117
Alignment explanation
Indices: 171902--172646 Score: 514
Period size: 117 Copynumber: 6.5 Consensus size: 117
171892 TGGCACACGA
* * *** *
171902 AGTGCCCTAT-TCAAAAATTCATAC-CATTAGTATAATTTTGTTACCATTTTAGCACATGAAATG
1 AGTGCCCTATCT-AAAAATCCATACAC-TCAGTATAATTCCCTTACCATTTTAGCACATAAAATG
* * *
171965 ACCTATGTGAAAATCCATATCATT-AGTATGATTTCCTTATCTTTGTAGCACCCAT
64 ACCTATCTGAAAATCCATAT-ATTCAATATGATTTCCTTATCATT-TAGCACCCAT
** ** * *
172020 AGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACATAAAATGCC
1 AGTGCCCTATCTAAAAATCCATACACTCAGTATAATTCCCTTACCATTTTAGCACATAAAATGAC
* * **
172085 CTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCATAC-T
66 CTATCTGAAAATCCATATATTCAATATGATTTCCTTATCATTTAGCACCCAT
* * * * *
172136 CAGTGCTCC-ATATGAAAATCTATACACTCAGTATGATTTCCTTACCA-TTT------T----T-
1 -AGTGC-CCTATCTAAAAATCCATACACTCAGTATAATTCCCTTACCATTTTAGCACATAAAATG
* * * * * *
172188 CCCTATATGGAAATCCATATGTTCAACATGATTTCCTTATCATTTAGCACAC-T
64 ACCTATCTGAAAATCCATATATTCAATATGATTTCCTTATCATTTAGCACCCAT
* ** * * **
172241 CAGTGCTCC-ATATGGAAATCTATACACTCAGTATGATTTACTTACCATTTTAGCACATAAAATG
1 -AGTGC-CCTATCTAAAAATCCATACACTCAGTATAATTCCCTTACCATTTTAGCACATAAAATG
* * * * *
172305 CCCTATTTGGAAATCCATAT-TTCCAATATGATTTCTTTATCATTTAGCACAC-T
64 ACCTATCTGAAAATCCATATATT-CAATATGATTTCCTTATCATTTAGCACCCAT
* * * * * * *
172358 CAGTGCTCC-ATATGAAAATCTATACACTCATTCTGATTTCCTTACCATTTTAGCACATAAAATG
1 -AGTGC-CCTATCTAAAAATCCATACACTCAGTATAATTCCCTTACCATTTTAGCACATAAAATG
* * * * * * *
172422 CCCTATATGGAAATCCATATTTTCAATATGATTTCCTTGTCATTTAGCACACTT
64 ACCTATCTGAAAATCCATATATTCAATATGATTTCCTTATCATTTAGCACCCAT
* ** * * * * * *
172476 AGTGCTCC-ATATGGAAATCTATACACTTAGTATGATTTCCTTACCATTTTAGAACATAAAATGC
1 AGTGC-CCTATCTAAAAATCCATACACTCAGTATAATTCCCTTACCATTTTAGCACATAAAATGA
* * *
172540 CCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACAC-T
65 CCTATCTGAAAATCCATATATTCAATATGATTTCCTTATCATTTAGCACCCAT
* ** * * * *
172592 CAGTGCTCC-ATATGGAAATCTATACACTCAGTATGATTTCCTTATCATTTTAGCA
1 -AGTGC-CCTATCTAAAAATCCATACACTCAGTATAATTCCCTTACCATTTTAGCA
172647 AACAAAGTGT
Statistics
Matches: 555, Mismatches: 51, Indels: 43
0.86 0.08 0.07
Matches are distributed among these distances:
105 94 0.17
106 4 0.01
110 1 0.00
112 1 0.00
116 8 0.01
117 359 0.65
118 86 0.15
119 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (117 bp):
AGTGCCCTATCTAAAAATCCATACACTCAGTATAATTCCCTTACCATTTTAGCACATAAAATGAC
CTATCTGAAAATCCATATATTCAATATGATTTCCTTATCATTTAGCACCCAT
Found at i:172171 original size:58 final size:58
Alignment explanation
Indices: 171991--172646 Score: 474
Period size: 58 Copynumber: 11.4 Consensus size: 58
171981 ATATCATTAG
* * ** * * *
171991 TATGATTTCCTTATCTTTGTAGCACCCAT-AGTGCTTTATCTGGAAATCCATACACTCAG
1 TATGATTTCCTTATCATT-TAGCACAC-TCAGTGCTCCATATGGAAATCTATACACTCAA
* * * * * * ***
172050 TATGATTCCCTTACCATTTTAGCACA-TAAAATGC-CCTATCTGGAAATCCATATTTTCAA
1 TATGATTTCCTTATCA-TTTAGCACACT-CAGTGCTCC-ATATGGAAATCTATACACTCAA
* * *
172109 TATGATTTCCTTATCATTTAGCATACTCAGTGCTCCATATGAAAATCTATACACTCAG
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAA
* * ***
172167 TATGATTTCCTTACCATTT-------T---T-C-CCTATATGGAAATCCATATGTTCAA
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCC-ATATGGAAATCTATACACTCAA
* *
172214 CATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAG
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAA
* * * * * * **
172272 TATGATTTACTTACCATTTTAGCACA-TAAAATGC-CCTATTTGGAAATCCATA-TTTCCAA
1 TATGATTTCCTTATCA-TTTAGCACACT-CAGTGCTCC-ATATGGAAATCTATACACT-CAA
* * *
172331 TATGATTTCTTTATCATTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAT
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAA
* * * * * ***
172389 TCTGATTTCCTTACCATTTTAGCACA-TAAAATGC-CCTATATGGAAATCCATATTTTCAA
1 TATGATTTCCTTATCA-TTTAGCACACT-CAGTGCTCC-ATATGGAAATCTATACACTCAA
* * * *
172448 TATGATTTCCTTGTCATTTAGCACACTTAGTGCTCCATATGGAAATCTATACACTTAG
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAA
* * * * * * ***
172506 TATGATTTCCTTACCATTTTAGAACA-TAAAATGC-CCTATCTGGAAATCCATATTTTCAA
1 TATGATTTCCTTATCA-TTTAGCACACT-CAGTGCTCC-ATATGGAAATCTATACACTCAA
*
172565 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAG
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAA
172623 TATGATTTCCTTATCATTTTAGCA
1 TATGATTTCCTTATCA-TTTAGCA
172647 AACAAAGTGT
Statistics
Matches: 458, Mismatches: 102, Indels: 74
0.72 0.16 0.12
Matches are distributed among these distances:
46 2 0.00
47 34 0.07
48 1 0.00
51 1 0.00
54 1 0.00
57 2 0.00
58 213 0.47
59 202 0.44
60 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (58 bp):
TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAA
Found at i:172362 original size:222 final size:223
Alignment explanation
Indices: 171992--172643 Score: 975
Period size: 234 Copynumber: 2.9 Consensus size: 223
171982 TATCATTAGT
* * ** * *
171992 ATGATTTCCTTATCTTTGTAGCACCCATAGTGCTTTATCTGGAAATCCATACACTCAGTATGATT
1 ATGATTTCCTTATCATT-TAGCACAC-TAGTGCTCCATATGGAAATCTATACACTCAGTATGATT
*
172057 CCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTA
64 TCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTA
*
172122 TCATTTAGCATACTCAGTGCTCCATATGAAAATCTATACACTCAGTATGATTTCCTTACCATTTT
129 TCATTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAGTATGATTTCCTTACCATTTT
172187 -T-CCCTATATGGAAATCCATATGTTCAAC
194 ATGCCCTATATGGAAATCCATATGTTCAAC
172215 ATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTT
1 ATGATTTCCTTATCATTTAGCACACT-AGTGCTCCATATGGAAATCTATACACTCAGTATGATTT
* * * *
172280 ACTTACCATTTTAGCACATAAAATGCCCTATTTGGAAATCCATATTTCCAATATGATTTCTTTAT
65 CCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTAT
* *
172345 CATTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCATTCTGATTTCCTTACCATTTTA
130 CATTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAGTATGATTTCCTTACCA-TTT-
* *
172410 GCACATAAAATGCCCTATATGGAAATCCATATTTTCAAT
193 -----T---ATGCCCTATATGGAAATCCATATGTTCAAC
* *
172449 ATGATTTCCTTGTCATTTAGCACACTTAGTGCTCCATATGGAAATCTATACACTTAGTATGATTT
1 ATGATTTCCTTATCATTTAGCACAC-TAGTGCTCCATATGGAAATCTATACACTCAGTATGATTT
*
172514 CCTTACCATTTTAGAACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTAT
65 CCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTAT
* *
172579 CATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTTCCTTATCATTTTA
130 CATTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAGTATGATTTCCTTACCATTTTA
172644 GCAAACAAAG
Statistics
Matches: 388, Mismatches: 27, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
221 1 0.00
222 158 0.41
223 19 0.05
224 1 0.00
227 1 0.00
229 1 0.00
233 4 0.01
234 202 0.52
235 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (223 bp):
ATGATTTCCTTATCATTTAGCACACTAGTGCTCCATATGGAAATCTATACACTCAGTATGATTTC
CTTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATC
ATTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAGTATGATTTCCTTACCATTTTAT
GCCCTATATGGAAATCCATATGTTCAAC
Found at i:172395 original size:117 final size:117
Alignment explanation
Indices: 172188--172646 Score: 783
Period size: 117 Copynumber: 3.9 Consensus size: 117
172178 TACCATTTTT
* *
172188 CCCTATATGGAAATCCATATGTTCAACATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
1 CCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
*
172253 TGGAAATCTATACACTCAGTATGATTTACTTACCATTTTAGCACATAAAATG
66 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATG
* * *
172305 CCCTATTTGGAAATCCATATTTCCAATATGATTTCTTTATCATTTAGCACACTCAGTGCTCCATA
1 CCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
* * *
172370 TGAAAATCTATACACTCATTCTGATTTCCTTACCATTTTAGCACATAAAATG
66 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATG
* *
172422 CCCTATATGGAAATCCATATTTTCAATATGATTTCCTTGTCATTTAGCACACTTAGTGCTCCATA
1 CCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
* *
172487 TGGAAATCTATACACTTAGTATGATTTCCTTACCATTTTAGAACATAAAATG
66 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATG
*
172539 CCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
1 CCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
*
172604 TGGAAATCTATACACTCAGTATGATTTCCTTATCATTTTAGCA
66 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCA
172647 AACAAAGTGT
Statistics
Matches: 317, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 317 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (117 bp):
CCCTATATGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATG
Found at i:173256 original size:29 final size:30
Alignment explanation
Indices: 173222--173287 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
173212 ACAATCCATC
* * *
173222 AATTTTCCAGAATTTACGAATTGATCC-CA
1 AATTTTCCAAAAATTACGAAATGATCCTCA
* *
173251 AATTTTCCAAAAATTATGAAATGGTCCTCA
1 AATTTTCCAAAAATTACGAAATGATCCTCA
173281 AATTTTC
1 AATTTTC
173288 TAAGGCTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (30 bp):
AATTTTCCAAAAATTACGAAATGATCCTCA
Found at i:187005 original size:43 final size:42
Alignment explanation
Indices: 186958--187041 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 42
186948 ATTATTTTAT
*
186958 TTTTACAT-AAAAATAAAATATATATATATGAAAATATTTAAAC
1 TTTTACATGAAAAATAAAA-AAATATATAT-AAAATATTTAAAC
* * * *
187001 TTTTATATGAAAATTAAAAAAATATATCTAAATTATTTAAA
1 TTTTACATGAAAAATAAAAAAATATATATAAAATATTTAAA
187042 AATTATAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 11 0.31
43 15 0.43
44 9 0.26
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (42 bp):
TTTTACATGAAAAATAAAAAAATATATATAAAATATTTAAAC
Found at i:187076 original size:17 final size:16
Alignment explanation
Indices: 187035--187076 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
187025 TATCTAAATT
187035 ATTT-AAAAATTATAA
1 ATTTAAAAAATTATAA
*
187050 ATGTATAAAAATTATAAA
1 ATTTA-AAAAATTAT-AA
187068 ATTTAAAAA
1 ATTTAAAAA
187077 TAATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.14
17 13 0.59
18 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
ATTTAAAAAATTATAA
Found at i:194505 original size:14 final size:15
Alignment explanation
Indices: 194470--194498 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
194460 TTAAAATGTT
194470 TAAA-AATTTTAAAA
1 TAAATAATTTTAAAA
194484 TAAATAATTTTAAAA
1 TAAATAATTTTAAAA
194499 ATATAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATAATTTTAAAA
Found at i:196804 original size:162 final size:162
Alignment explanation
Indices: 196620--197062 Score: 595
Period size: 162 Copynumber: 2.7 Consensus size: 162
196610 TTCTATGTGA
*
196620 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATAGGATGAATTATGTGGGTTGCACACTTAG
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACTTAG
* * * * * * *
196685 TGCCTATACGGTTGTTCATCAACATATGATGAATTCCATAGGTTGCACACT-TAGCGCCTATACG
66 TGCCAAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGTTGCACA-TATAGCGCCAAAACG
* * * *
196749 ATTTTTCATTAACATATGATGAATTCCGTGGGT
130 ATTGTTCATCAACATATGATGAATTACATGGGT
* * *
196782 TGCACACTTGGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACATAG
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACTTAG
* *
196847 TGCCAAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAACGG
66 TGCCAAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGTTGCACATATAGCGCCAAAACGA
* *
196912 TTGTTCATCAACTTATGATGAATTATATGGGT
131 TTGTTCATCAACATATGATGAATTACATGGGT
* * * *
196944 TGCACA-TATAATGCCAAAACGGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCACA-TAT
1 TGCACACT-TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACT-T
*** *
197007 AGTGCCAAAATAATTGTTCATCAACTTATGATGAATTTCGTGGGTTGCACATATAG
64 AGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGTTGCACATATAG
197063 TTCCAAAAGT
Statistics
Matches: 248, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
161 2 0.01
162 246 0.99
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (162 bp):
TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACTTAG
TGCCAAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGTTGCACATATAGCGCCAAAACGA
TTGTTCATCAACATATGATGAATTACATGGGT
Found at i:197050 original size:54 final size:54
Alignment explanation
Indices: 196620--197070 Score: 504
Period size: 54 Copynumber: 8.4 Consensus size: 54
196610 TTCTATGTGA
* * *
196620 TGCACACT-TAGTGCCTATACGGTTGTTCATCAACATAGGATGAATTAT-GTGGGT
1 TGCACA-TATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATT-TCGTGGGT
* * * * *
196674 TGCACACT-TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCATAGGT
1 TGCACA-TATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTTCGTGGGT
* * * * * * *
196728 TGCACACT-TAGCGCCTATACGATTTTTCATTAACATATGATGAATTCCGTGGGT
1 TGCACA-TATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTTCGTGGGT
* * *
196782 TGCACACT-TGGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCTGTGGGT
1 TGCACA-TATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTTC-GTGGGT
* * *
196836 TGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
1 TGCACATATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTTCGTGGGT
* *
196890 TGCACATATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTAT-ATGGGT
1 TGCACATATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATT-TCGTGGGT
* *
196944 TGCACATATAATGCCAAAACGGTTGTTCATCAACTTATGATGAATTAT-GTGGGT
1 TGCACATATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATT-TCGTGGGT
*** *
196998 TGCACATATAGTGCCAAAATAATTGTTCATCAACTTATGATGAATTTCGTGGGT
1 TGCACATATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTTCGTGGGT
*
197052 TGCACATATAGTTCCAAAA
1 TGCACATATAGTGCCAAAA
197071 GTACACATAG
Statistics
Matches: 359, Mismatches: 32, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
53 3 0.01
54 354 0.99
55 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
TGCACATATAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTTCGTGGGT
Found at i:198772 original size:18 final size:18
Alignment explanation
Indices: 198746--198792 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
198736 CACCCAAATC
* *
198746 GCAATACTTTCTTCCAAG
1 GCAACACTTTCTTACAAG
198764 GCAACACTTTCTTACAAG
1 GCAACACTTTCTTACAAG
198782 GCAACACTTTC
1 GCAACACTTTC
198793 ATAAACACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (18 bp):
GCAACACTTTCTTACAAG
Found at i:202399 original size:54 final size:54
Alignment explanation
Indices: 202331--202830 Score: 569
Period size: 54 Copynumber: 9.3 Consensus size: 54
202321 ACATTATAAG
* * * * * * *
202331 TTCTCTGGGGTGCACACGTAGTGCCAATACGGTCGTTCATAAACACATTATGAA
1 TTCTGTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
* * *
202385 TTTTGTGGGTTGCACACTTAGTGCCTATACTGTTGTTCATCAACATATGATGAA
1 TTCTGTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
* *
202439 TT-TCGTGGGTTGCACACTTAGTGCCCATATGGTTGTTCATCAACATATGATGAA
1 TTCT-GTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
* * * *
202493 TT-TCGTGGGTTGCACACTTAGTTCCTATACGTTTTTTCATCAACATATGATGAA
1 TTCT-GTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
* * *
202547 TTCTGTAGGTTGCACACTTAGTGTCTATACGGTTGTT-ATCAACATATGATGAA
1 TTCTGTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
* *** * * *
202600 TTTTGTATATTGCACACTTAGTGCCTATA-AGTTGTTCATTAACATATGATGAA
1 TTCTGTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
** * * * *
202653 TTCCATGGGTTGCACACATAGTGCCAAAACAGTTGTTCATCAACTTATGATGAA
1 TTCTGTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
* * * * *
202707 TTCCGTGGGTTGCACACATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAA
1 TTCTGTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
* * *
202761 TTGTGTGGGTTGCACA-TATAGTGCCAAAATGGTTGTTCATCAACATATGATGAA
1 TTCTGTGGGTTGCACACT-TAGTGCCAATACGGTTGTTCATCAACATATGATGAA
*
202815 TTCTGTAGGTTGCACA
1 TTCTGTGGGTTGCACA
202831 TATAGTGTCA
Statistics
Matches: 392, Mismatches: 49, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
52 6 0.02
53 77 0.20
54 308 0.79
55 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
TTCTGTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAA
Found at i:203293 original size:20 final size:20
Alignment explanation
Indices: 203268--203335 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
203258 TCCATGGTAT
203268 CGATACTTTTCTCCTAGTAC
1 CGATACTTTTCTCCTAGTAC
203288 CGATACTTTTCTCCTAGTAC
1 CGATACTTTTCTCCTAGTAC
203308 CGATACTTTTCTCCTAGTAC
1 CGATACTTTTCTCCTAGTAC
203328 CGATACTT
1 CGATACTT
203336 CTATACTATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (20 bp):
CGATACTTTTCTCCTAGTAC
Found at i:209596 original size:21 final size:21
Alignment explanation
Indices: 209571--209624 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
209561 TACACTTAGG
209571 GAACCGATTCCCTATGAGAG-
1 GAACCGATTCCCTATGAGAGT
209591 GAAACCGATTCCCTATGAGAGT
1 G-AACCGATTCCCTATGAGAGT
*
209613 GTACCGATTCCC
1 GAACCGATTCCC
209625 CCACGCTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (21 bp):
GAACCGATTCCCTATGAGAGT
Found at i:209841 original size:13 final size:13
Alignment explanation
Indices: 209820--209874 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
209810 AAGTTCGATA
*
209820 AATTCAAATACTT
1 AATTGAAATACTT
209833 AATTGAAATACTT
1 AATTGAAATACTT
* *
209846 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
209860 AATTGAAATACTT
1 AATTGAAATACTT
209873 AA
1 AA
209875 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:209905 original size:33 final size:33
Alignment explanation
Indices: 209860--209955 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
209850 AACTCAACAT
* * *
209860 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
209893 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
209926 AATTCAAATACTTAAAAACTT-CAAGTTCGA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGA
209956 CAATTGAAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 9 0.15
33 51 0.85
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:212389 original size:13 final size:13
Alignment explanation
Indices: 212371--212395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
212361 TTTTTCTCCA
212371 AACCGGTTTAAAT
1 AACCGGTTTAAAT
212384 AACCGGTTTAAA
1 AACCGGTTTAAA
212396 AAAAATCCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
AACCGGTTTAAAT
Found at i:212726 original size:17 final size:17
Alignment explanation
Indices: 212704--212738 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
212694 AACCCTGTAT
212704 CTATCCTCAAACATGGG
1 CTATCCTCAAACATGGG
212721 CTATCCTCAAACATGGG
1 CTATCCTCAAACATGGG
212738 C
1 C
212739 AATATCCAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (17 bp):
CTATCCTCAAACATGGG
Found at i:221883 original size:42 final size:43
Alignment explanation
Indices: 221823--221907 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 43
221813 AGTCTAAACT
* *
221823 CCAAAGTAACAATCCACAAATATATCAAATTAACATATTAAAA
1 CCAAAGTAACAATCCACAAATAAATCAAACTAACATATTAAAA
221866 CCAAA-TAACAATCCACAAATAAATCAAACTAACATATTAAAA
1 CCAAAGTAACAATCCACAAATAAATCAAACTAACATATTAAAA
221908 ACATTCTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 35 0.88
43 5 0.12
ACGTcount: A:0.58, C:0.20, G:0.01, T:0.21
Consensus pattern (43 bp):
CCAAAGTAACAATCCACAAATAAATCAAACTAACATATTAAAA
Found at i:224874 original size:30 final size:30
Alignment explanation
Indices: 224838--224903 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
224828 TTTAAAATAG
224838 ACATATACTGATTTTGAGTTGTACACAAAA
1 ACATATACTGATTTTGAGTTGTACACAAAA
224868 ACATATACTGATTTTGAGTTGTACACAAAA
1 ACATATACTGATTTTGAGTTGTACACAAAA
*
224898 ATATAT
1 ACATAT
224904 GAATTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (30 bp):
ACATATACTGATTTTGAGTTGTACACAAAA
Found at i:230807 original size:21 final size:21
Alignment explanation
Indices: 230767--230807 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
230757 ATGACAATAC
230767 ATATGTTTGGAATTTAAAAAA
1 ATATGTTTGGAATTTAAAAAA
230788 ATAT-TTTGAGAAGTTTAAAA
1 ATATGTTTG-GAA-TTTAAAA
230808 TTTTGATGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (21 bp):
ATATGTTTGGAATTTAAAAAA
Found at i:231987 original size:18 final size:18
Alignment explanation
Indices: 231922--231988 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
231912 AATTCTAAAT
*
231922 TTTTACAGTTATAAGATG
1 TTTTACAGTTATCAGATG
* *
231940 ATTTT-CAATTATCATAT-
1 -TTTTACAGTTATCAGATG
* * *
231957 ATTTATAGATATCAGATG
1 TTTTACAGTTATCAGATG
231975 TTTTACAGTTATCA
1 TTTTACAGTTATCA
231989 ACCATATATT
Statistics
Matches: 35, Mismatches: 11, Indels: 5
0.69 0.22 0.10
Matches are distributed among these distances:
16 3 0.09
17 8 0.23
18 20 0.57
19 4 0.11
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTTACAGTTATCAGATG
Found at i:234707 original size:19 final size:19
Alignment explanation
Indices: 234673--234709 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
234663 ATGACCAACA
*
234673 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
234692 AAATCGCAACGTGATCTC
1 AAATCGCAACGCGATCTC
234710 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:234820 original size:20 final size:20
Alignment explanation
Indices: 234795--234847 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
234785 GATTTTAGAT
234795 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
234815 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
234835 AATCGCAACGCGA
1 AATCGCAATGCGA
234848 TAACACGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:234862 original size:21 final size:21
Alignment explanation
Indices: 234836--234911 Score: 152
Period size: 21 Copynumber: 3.6 Consensus size: 21
234826 GAATATGTAA
234836 ATCGCAACGCGATAACACGTG
1 ATCGCAACGCGATAACACGTG
234857 ATCGCAACGCGATAACACGTG
1 ATCGCAACGCGATAACACGTG
234878 ATCGCAACGCGATAACACGTG
1 ATCGCAACGCGATAACACGTG
234899 ATCGCAACGCGAT
1 ATCGCAACGCGAT
234912 TCTGACTATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.33, C:0.29, G:0.24, T:0.14
Consensus pattern (21 bp):
ATCGCAACGCGATAACACGTG
Found at i:234924 original size:20 final size:20
Alignment explanation
Indices: 234899--234963 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
234889 ATAACACGTG
234899 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
234919 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * *
234939 ATCGTAACGAGATTTTGACT
1 ATCGCAACGCGATTCTGACT
234959 ATCGC
1 ATCGC
234964 GTTGCGATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:235158 original size:22 final size:22
Alignment explanation
Indices: 235133--235205 Score: 128
Period size: 22 Copynumber: 3.3 Consensus size: 22
235123 CTACGGCGAC
235133 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
**
235155 ATCCGTCCCCATCTCCGGTGAA
1 ATCCGTCCCCATCTCCGACGAA
235177 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
235199 ATCCGTC
1 ATCCGTC
235206 TATCTCCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.21, C:0.44, G:0.15, T:0.21
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:235591 original size:20 final size:20
Alignment explanation
Indices: 235544--235618 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
235534 CGCAACGACA
*
235544 AAATTCGCGTTGCGGTAG-C
1 AAATTCGCGTTGCGATAGTC
* *
235563 CATTTCGCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
*
235583 AAATTCGCGTTGCGATAATC
1 AAATTCGCGTTGCGATAGTC
** *
235603 ATTTTCGTGTTGCGAT
1 AAATTCGCGTTGCGAT
235619 TTTCATTTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 15 0.33
20 31 0.67
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
AAATTCGCGTTGCGATAGTC
Found at i:235624 original size:20 final size:20
Alignment explanation
Indices: 235586--235641 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
235576 GATAGTCAAA
* **
235586 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
235606 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
235626 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
235642 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:235648 original size:20 final size:20
Alignment explanation
Indices: 235605--235648 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
235595 CGATAATCAT
* *
235605 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
235625 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
235645 TTTC
1 TTTC
235649 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:243835 original size:301 final size:301
Alignment explanation
Indices: 243278--244188 Score: 1795
Period size: 301 Copynumber: 3.0 Consensus size: 301
243268 GATGGTAGCT
243278 AATACCTTCCTGTTTTGTTTGAGCATATCAAGCATATTTGTTTGAAAAACATGATCCACAGCTTC
1 AATACCTTCCTG-TTTGTTTGAGCATATCAAGCATATTTGTTTGAAAAACATGATCCACAGCTTC
243343 AACACTGACACCGGTACCACTCTGTGGCATTGCAAAGACATCCACCACACGCACCGTGTACTCGT
65 AACACTGACACCGGTACCACTC--TGGCATTGCAAAGACATCCACCACACGCACCGTGTACTCGT
243408 CAACAAATTCTCCCAACATCAAACCCATAACTTCCATGGGAACTCCAGCTCTTCCTATAAAGTGT
128 CAACAAATTCTCCCAACATCAAACCCATAACTTCCATGGGAACTCCAGCTCTTCCTATAAAGTGT
243473 TCACGTAAACCAAGCACAGAAACAGAATTACAAGTTTACAACTACTACCAAGAATAGGTTAAATT
193 TCACGTAAACCAAGCACAGAAACAGAATTACAAGTTTACAACTACTACCAAGAATAGGTTAAATT
243538 AAACCAAAAATTGAAATCGGAACAGCTGACATTTGTCATAGGCA
258 AAACCAAAAATTGAAATCGGAACAGCTGACATTTGTCATAGGCA
243582 AATACCTTCCTGTTTGTTTGAGCATATCAAGCATATTTGTTTGAAAAACATGATCCACAGCTTCA
1 AATACCTTCCTGTTTGTTTGAGCATATCAAGCATATTTGTTTGAAAAACATGATCCACAGCTTCA
243647 ACACTGACACCGGTACCACTCTGGCATTGCAAAGACATCCACCACACGCACCGTGTACTCGTCAA
66 ACACTGACACCGGTACCACTCTGGCATTGCAAAGACATCCACCACACGCACCGTGTACTCGTCAA
243712 CAAATTCTCCCAACATCAAACCCATAACTTCCATGGGAACTCCAGCTCTTCCTATAAAGTGTTCA
131 CAAATTCTCCCAACATCAAACCCATAACTTCCATGGGAACTCCAGCTCTTCCTATAAAGTGTTCA
243777 CGTAAACCAAGCACAGAAACAGAATTACAAGTTTACAACTACTACCAAGAATAGGTTAAATTAAA
196 CGTAAACCAAGCACAGAAACAGAATTACAAGTTTACAACTACTACCAAGAATAGGTTAAATTAAA
243842 CCAAAAATTGAAATCGGAACAGCTGACATTTGTCATAGGCA
261 CCAAAAATTGAAATCGGAACAGCTGACATTTGTCATAGGCA
243883 AATACCTTCCTGTTTGTTTGAGCATATCAAGCATATTTGTTTGAAAAACATGATCCACAGCTTCA
1 AATACCTTCCTGTTTGTTTGAGCATATCAAGCATATTTGTTTGAAAAACATGATCCACAGCTTCA
243948 ACACTGACACCGGTACCACTCTGGCATTGCAAAGACATCCACCACACGCACCGTGTACTCGTCAA
66 ACACTGACACCGGTACCACTCTGGCATTGCAAAGACATCCACCACACGCACCGTGTACTCGTCAA
244013 CAAATTCTCCCAACATCAAACCCATAACTTCCATGGGAACTCCAGCTCTTCCTATAAAGTGTTCA
131 CAAATTCTCCCAACATCAAACCCATAACTTCCATGGGAACTCCAGCTCTTCCTATAAAGTGTTCA
244078 CGTAAACCAAGCACAGAAACAGAATTACAAGTTTACAACTACTACCAAGAATAGGTTAAATTAAA
196 CGTAAACCAAGCACAGAAACAGAATTACAAGTTTACAACTACTACCAAGAATAGGTTAAATTAAA
244143 CCAAAAATTGAAATCGGAACAGCTGACATTTGTCATAGGCA
261 CCAAAAATTGAAATCGGAACAGCTGACATTTGTCATAGGCA
244184 AATAC
1 AATAC
244189 ATGGAAGGCA
Statistics
Matches: 607, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
301 521 0.86
303 74 0.12
304 12 0.02
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (301 bp):
AATACCTTCCTGTTTGTTTGAGCATATCAAGCATATTTGTTTGAAAAACATGATCCACAGCTTCA
ACACTGACACCGGTACCACTCTGGCATTGCAAAGACATCCACCACACGCACCGTGTACTCGTCAA
CAAATTCTCCCAACATCAAACCCATAACTTCCATGGGAACTCCAGCTCTTCCTATAAAGTGTTCA
CGTAAACCAAGCACAGAAACAGAATTACAAGTTTACAACTACTACCAAGAATAGGTTAAATTAAA
CCAAAAATTGAAATCGGAACAGCTGACATTTGTCATAGGCA
Found at i:244248 original size:69 final size:69
Alignment explanation
Indices: 244165--244299 Score: 270
Period size: 69 Copynumber: 2.0 Consensus size: 69
244155 ATCGGAACAG
244165 CTGACATTTGTCATAGGCAAATACATGGAAGGCAGATCAGCAAATTAAAAATTTAATTCAATAAA
1 CTGACATTTGTCATAGGCAAATACATGGAAGGCAGATCAGCAAATTAAAAATTTAATTCAATAAA
244230 AACT
66 AACT
244234 CTGACATTTGTCATAGGCAAATACATGGAAGGCAGATCAGCAAATTAAAAATTTAATTCAATAAA
1 CTGACATTTGTCATAGGCAAATACATGGAAGGCAGATCAGCAAATTAAAAATTTAATTCAATAAA
244299 A
66 A
244300 GCTAAACTGC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (69 bp):
CTGACATTTGTCATAGGCAAATACATGGAAGGCAGATCAGCAAATTAAAAATTTAATTCAATAAA
AACT
Found at i:244997 original size:66 final size:66
Alignment explanation
Indices: 244887--245052 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 66
244877 ACACAATATC
* * * * * ** *
244887 ATTGAATTTTAGGCATTATATTATGTCACTAAACTTTTAATTTTATCAATTATAGTAATAATGAT
1 ATTGAACTTTAAGCATTGTATTATGTCACTGAACCTTTAATTTTATCAATTATAACAATAATGAA
244952 T
66 T
* * *
244953 ATTGAACTTTATA-CGTTGTATTATGTCACTGAACCTTTATTTTTATTAATTATAACAATAATGA
1 ATTGAACTTTA-AGCATTGTATTATGTCACTGAACCTTTAATTTTATCAATTATAACAATAATGA
245017 AT
65 AT
* *
245019 ATTGAACTTTAAGCATTGTATTATATTACTGAAC
1 ATTGAACTTTAAGCATTGTATTATGTCACTGAAC
245053 TTTTTATTAA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.99
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (66 bp):
ATTGAACTTTAAGCATTGTATTATGTCACTGAACCTTTAATTTTATCAATTATAACAATAATGAA
T
Found at i:259410 original size:182 final size:182
Alignment explanation
Indices: 259025--259498 Score: 700
Period size: 182 Copynumber: 2.6 Consensus size: 182
259015 GATCCAAATT
* * * * * **
259025 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAA-TCAGTATTGAAATGAT
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACT-GGTATCAAAATGAT
* * * * *
259089 AAAACCGGTAAAGCGGTACCGAATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGGCACTT
65 AAAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
259154 CGTTAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
130 CGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* *
259207 AAAAATATATCGATTAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATG
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
* * * *
259272 AAACCGGTAAAACGCTACCGAATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
259336 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
*
259388 AAAAATATATCGATCAAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATATATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT
* *
259453 AAAACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTT
259499 CGTAAGTACG
Statistics
Matches: 263, Mismatches: 27, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
181 80 0.30
182 182 0.69
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
AAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:259442 original size:20 final size:19
Alignment explanation
Indices: 259419--259465 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
259409 CGATATAACA
259419 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
259439 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
259459 GGTAAAA
1 GGTAAAA
259466 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:259467 original size:17 final size:19
Alignment explanation
Indices: 259428--259470 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
259418 AGGTAAAAAT
259428 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
259448 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
259465 ATGATA
1 ATGATA
259471 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:261621 original size:15 final size:15
Alignment explanation
Indices: 261601--261633 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
261591 TGGTTGTATT
*
261601 GGGGGATGACGGTGA
1 GGGGGACGACGGTGA
261616 GGGGGACGACGGTGA
1 GGGGGACGACGGTGA
261631 GGG
1 GGG
261634 AAAACAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.64, T:0.09
Consensus pattern (15 bp):
GGGGGACGACGGTGA
Found at i:261741 original size:21 final size:21
Alignment explanation
Indices: 261715--261755 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
261705 AAGACAATCA
261715 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
* *
261736 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
261756 GAGGCATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:261834 original size:33 final size:33
Alignment explanation
Indices: 261792--261857 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
261782 AAATAGATGG
*
261792 AGTGGTGAAAGAA-TTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTT-GAGGTGTTAAGGGGTGA
261825 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
261858 TCTTAAGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
Found at i:262082 original size:33 final size:33
Alignment explanation
Indices: 262044--262131 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
262034 AAAATATGAA
*
262044 GAAGAAAAGAGGGAGGAGGAAGAAGAAGATATG
1 GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
262077 GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
1 GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
*
262110 GAAGAAATGA-GGAGGAAGGAAG
1 GAAGAAAAGAGGGAGG-AGGAAG
262132 TCGATGTCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
32 5 0.10
33 47 0.90
ACGTcount: A:0.51, C:0.00, G:0.44, T:0.05
Consensus pattern (33 bp):
GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
Found at i:264608 original size:200 final size:200
Alignment explanation
Indices: 263944--265529 Score: 2890
Period size: 200 Copynumber: 7.9 Consensus size: 200
263934 AATTTACAAT
*
263944 ATGGCAAACAGGGTGAAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* *
264009 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATATAACCGGTATAAGTATACCTGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
* *
264074 ATGAGAGAATATGTGTAATATATGTATCGACACTTTTTAATTTTGTGTTGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
264139 AATGA
196 AATGA
*
264144 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAATGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
264209 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAAT-TAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
264273 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
264338 AATGA
196 AATGA
264343 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
264408 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
*
264473 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGATCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
264538 AATGA
196 AATGA
*
264543 ATGGCAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTAGATCCCA-AAACA
1 ATGGC-AAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACA
* *
264607 TCGAAACCCATAAGTATAATGTAATAGATAATTTTTCAATCTAACCGGTATAAGTATACCAGATT
65 TCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATT
*
264672 TATGAGAGAATAGGTGTAATATATGTATCAACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
130 TATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
264737 GAATGA
195 GAATGA
* *
264743 ATGGCAAACAGGGTGCAACTATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* * *
264808 TGAAACCCATAAGTATAATGTAATAGATAATTTTTCAATCTAACCGGTATAAGTATACCAGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
264873 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
264938 AATGA
196 AATGA
* *
264943 ATTGCAAACAGGGTGCAACCATAAAATGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* * *
265008 TGAAACCCATAAATATAATGTAATAGGTAATTTTTTAATCTAACCGGTATAAGTATACC-GATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
265072 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
265137 AATGA
196 AATGA
* *
265142 ATGGAAAACAGGATGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* * *
265207 TGAAACTCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACTGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
265272 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
265337 AATGA
196 AATGA
265342 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
265407 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACAGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
*
265472 ATGAGAGAATAGATGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATT
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATT
265530 TTTAAATATC
Statistics
Matches: 1344, Mismatches: 38, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
199 437 0.33
200 855 0.64
201 52 0.04
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
AATGA
Done.