Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008137.1 Hibiscus syriacus cultivar Beakdansim tig00110692_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: 382795
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2804 original size:19 final size:19
Alignment explanation
Indices: 2782--2864 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
2772 CTAGGCGGCT
*
2782 CGGCTTGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
2801 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
2820 CGGCTCGGCT--G---AAA
1 CGGCTCGGCTCAGCTCAAA
*
2834 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
2853 CGGCTCGGCTCA
1 CGGCTCGGCTCA
2865 AACGGCTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
14 13 0.23
16 1 0.02
17 1 0.02
19 42 0.74
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.17
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:2811 original size:14 final size:14
Alignment explanation
Indices: 2806--2872 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 14
2796 TCAAACGGCT
*
2806 CGGCTCAGCTCAAA
1 CGGCTCGGCTCAAA
*
2820 CGGCTCGGCTGAAA
1 CGGCTCGGCTCAAA
2834 CGGCTCGGCTCAGCTCAA
1 CGGCTCGGCTCA----AA
2852 GCGGCTCGGCTCAAA
1 -CGGCTCGGCTCAAA
2867 CGGCTC
1 CGGCTC
2873 CTCAGGCTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 29 0.64
15 2 0.04
18 2 0.04
19 12 0.27
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.15
Consensus pattern (14 bp):
CGGCTCGGCTCAAA
Found at i:2835 original size:33 final size:33
Alignment explanation
Indices: 2788--2872 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
2778 GGCTCGGCTT
*
2788 GGCTCAGCTCAAACGGCTCGGCTCAGCTCAAAC
1 GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
* *
2821 GGCTCGGCTGAAACGGCTCGGCTCAGCTCAAGC
1 GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
2854 GGCTCGGCTCAAACGGCTC
1 GGCTCGGCTCAAACGGCTC
2873 CTCAGGCTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
Found at i:4952 original size:32 final size:31
Alignment explanation
Indices: 4916--4991 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
4906 CGGGGCCGTG
*
4916 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
4948 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
4979 GAGCCTACCTAAG
1 GGGCCTACCTAAG
4992 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:4975 original size:63 final size:63
Alignment explanation
Indices: 4869--4991 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
4859 ACCTAAGGGA
* * ** *
4869 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
4932 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
4992 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:7876 original size:19 final size:19
Alignment explanation
Indices: 7854--7936 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
7844 CTAGGCGGCT
*
7854 CGGCTTGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
7873 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
7892 CGGCTCGGCT--G---AAA
1 CGGCTCGGCTCAGCTCAAA
*
7906 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
7925 CGGCTCGGCTCA
1 CGGCTCGGCTCA
7937 AACGGCTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
14 13 0.23
16 1 0.02
17 1 0.02
19 42 0.74
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.17
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:7883 original size:14 final size:14
Alignment explanation
Indices: 7878--7944 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 14
7868 TCAAACGGCT
*
7878 CGGCTCAGCTCAAA
1 CGGCTCGGCTCAAA
*
7892 CGGCTCGGCTGAAA
1 CGGCTCGGCTCAAA
7906 CGGCTCGGCTCAGCTCAA
1 CGGCTCGGCTCA----AA
7924 GCGGCTCGGCTCAAA
1 -CGGCTCGGCTCAAA
7939 CGGCTC
1 CGGCTC
7945 CTCAGGCTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 29 0.64
15 2 0.04
18 2 0.04
19 12 0.27
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.15
Consensus pattern (14 bp):
CGGCTCGGCTCAAA
Found at i:7907 original size:33 final size:33
Alignment explanation
Indices: 7860--7944 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
7850 GGCTCGGCTT
*
7860 GGCTCAGCTCAAACGGCTCGGCTCAGCTCAAAC
1 GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
* *
7893 GGCTCGGCTGAAACGGCTCGGCTCAGCTCAAGC
1 GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
7926 GGCTCGGCTCAAACGGCTC
1 GGCTCGGCTCAAACGGCTC
7945 CTCAGGCTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
Found at i:16986 original size:15 final size:15
Alignment explanation
Indices: 16966--16995 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16956 ATCTTGCAAC
16966 AAGTAAGAGAATTAA
1 AAGTAAGAGAATTAA
16981 AAGTAAGAGAATTAA
1 AAGTAAGAGAATTAA
16996 TCGTTTATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
AAGTAAGAGAATTAA
Found at i:38206 original size:2 final size:2
Alignment explanation
Indices: 38199--38240 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
38189 TAATTGAATC
38199 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
38241 CAACACCTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39194 original size:60 final size:60
Alignment explanation
Indices: 39116--39292 Score: 232
Period size: 59 Copynumber: 3.0 Consensus size: 60
39106 TAGTCGCCTC
** *
39116 CAACAAAGCAACGCCCTATAGTCGGAGGATAATTTTGTAACTTTTAATATTCGAGGGACT
1 CAACAAAGCAATACCCTATAGTCGGAGGATAATTTTGTAACTTTTAATAGTCGAGGGACT
* * *
39176 TAACAAAGCAATATCCTATGGTCGGAGGACT-ATTTTGTAACTTTTAATAGTC-AGGGACT
1 CAACAAAGCAATACCCTATAGTCGGAGGA-TAATTTTGTAACTTTTAATAGTCGAGGGACT
* * * * *
39235 CAACAAAGCAATACCCTATTGTCAGAGGACAACTTTGTAACTTTTAATAGTAGAGGGA
1 CAACAAAGCAATACCCTATAGTCGGAGGATAATTTTGTAACTTTTAATAGTCGAGGGA
39293 TCTTTGTAGA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
59 51 0.50
60 49 0.49
61 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (60 bp):
CAACAAAGCAATACCCTATAGTCGGAGGATAATTTTGTAACTTTTAATAGTCGAGGGACT
Found at i:39263 original size:59 final size:59
Alignment explanation
Indices: 39092--39285 Score: 225
Period size: 59 Copynumber: 3.3 Consensus size: 59
39082 CAAGTGACCA
* * **
39092 TTTGTAACTTCTAATAGTC---GCCTCCAACAAAGCAACGCCCTATAGTCGGAGGA-TAAT
1 TTTGTAACTTTTAATAGTCAGGGACT-CAACAAAGCAATACCCTATAGTCGGAGGACT-AT
* * * *
39149 TTTGTAACTTTTAATATTCGAGGGACTTAACAAAGCAATATCCTATGGTCGGAGGACTAT
1 TTTGTAACTTTTAATAGTC-AGGGACTCAACAAAGCAATACCCTATAGTCGGAGGACTAT
* * * *
39209 TTTGTAACTTTTAATAGTCAGGGACTCAACAAAGCAATACCCTATTGTCAGAGGACAAC
1 TTTGTAACTTTTAATAGTCAGGGACTCAACAAAGCAATACCCTATAGTCGGAGGACTAT
39268 TTTGTAACTTTTAATAGT
1 TTTGTAACTTTTAATAGT
39286 AGAGGGATCT
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
57 17 0.15
59 52 0.44
60 44 0.38
61 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (59 bp):
TTTGTAACTTTTAATAGTCAGGGACTCAACAAAGCAATACCCTATAGTCGGAGGACTAT
Found at i:40534 original size:20 final size:19
Alignment explanation
Indices: 40492--40539 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
40482 ATTCAATCAA
40492 TATCGATATCGACAAGGGAG
1 TATCGATATCGA-AAGGGAG
40512 TATCGATATCG-AAGGGAAGG
1 TATCGATATCGAAAGGG-A-G
40532 TATCGATA
1 TATCGATA
40540 CCATTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 20 0.77
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.23
Consensus pattern (19 bp):
TATCGATATCGAAAGGGAG
Found at i:41112 original size:45 final size:44
Alignment explanation
Indices: 41048--41268 Score: 230
Period size: 45 Copynumber: 5.4 Consensus size: 44
41038 ATAAAAGAAT
41048 AATGCATATGGGTGCATTATTGGCATGAAAGGATGTCAAAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CAAAGCTGA
* *
41093 AATGCATATGGGTGTATTATCGGCAT-AAA--A-G--AA--T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCAAAGCTGA
*
41127 AATGCATATGGGTGCATTATTGGTATGAAAGGATGTCAAAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CAAAGCTGA
*
41172 AATGCATATGGGTGCATTATCGGCAT-AAA--A-G--AA--T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCAAAGCTGA
41206 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CAAAGCTGA
*
41251 AATACATATGGGTGCATT
1 AATGCATATGGGTGCATT
41269 GTCGGCATAA
Statistics
Matches: 145, Mismatches: 9, Indels: 44
0.73 0.05 0.22
Matches are distributed among these distances:
34 48 0.33
35 6 0.04
36 2 0.01
37 2 0.01
38 6 0.04
41 6 0.04
42 2 0.01
43 2 0.01
44 6 0.04
45 65 0.45
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.28
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCAAAGCTGA
Found at i:41131 original size:34 final size:34
Alignment explanation
Indices: 41093--41236 Score: 144
Period size: 34 Copynumber: 3.9 Consensus size: 34
41083 TCAAAGCTGA
*
41093 AATGCATATGGGTGTATTATCGGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
* *
41127 AATGCATATGGGTGCATTATTGGTATGAAAGGATGTCAAAGCT
1 AATGCATATGGGTGCATTATCGGCAT-AAA--A-G---AA--T
41170 GAAATGCATATGGGTGCATTATCGGCATAAAAGAAT
1 --AATGCATATGGGTGCATTATCGGCATAAAAGAAT
* *
41206 AATGCATATGGGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAG
41237 GATGCCAAAG
Statistics
Matches: 92, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
34 52 0.57
35 3 0.03
36 1 0.01
37 1 0.01
38 3 0.03
41 3 0.03
42 1 0.01
43 1 0.01
44 3 0.03
45 24 0.26
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.28
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAAGAAT
Found at i:41360 original size:79 final size:79
Alignment explanation
Indices: 41038--41359 Score: 511
Period size: 79 Copynumber: 4.1 Consensus size: 79
41028 TAACGAATAA
*
41038 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCAAAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGCTGAAATGCATATG
*
41103 GGTGTATTATCGGC
66 GGTGCATTATCGGC
* *
41117 ATAAAAGAATAATGCATATGGGTGCATTATTGGTATGAAAGGATGTCAAAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGCTGAAATGCATATG
41182 GGTGCATTATCGGC
66 GGTGCATTATCGGC
*
41196 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGCTGAAATACATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGCTGAAATGCATATG
*
41261 GGTGCATTGTCGGC
66 GGTGCATTATCGGC
* * * *
41275 ATAAAA-AAGTAATGCATATGAGTACATTATTGGCATGAAAGGATGCCAAAGTTAAAATGCATAT
1 ATAAAAGAA-TAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGCTGAAATGCATAT
* **
41339 GGATGCATTATCAAC
65 GGGTGCATTATCGGC
41354 ATAAAA
1 ATAAAA
41360 ATATGCTATA
Statistics
Matches: 227, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 2 0.01
79 225 0.99
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGCTGAAATGCATATG
GGTGCATTATCGGC
Found at i:46260 original size:21 final size:21
Alignment explanation
Indices: 46230--46306 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 21
46220 GATAGATACT
*
46230 TTACAATATAAGCATTACCTA
1 TTACATTATAAGCATTACCTA
*
46251 TTACATTATATA-AATGCTACCTA
1 TTACATTATA-AGCAT--TACCTA
46274 TTACATTATATAAGCGA-TACCTA
1 TTACA-T-TATAAGC-ATTACCTA
46297 TTACATTATA
1 TTACATTATA
46307 TTTTTACCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 22 0.48
24 2 0.04
25 4 0.09
26 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (21 bp):
TTACATTATAAGCATTACCTA
Found at i:46271 original size:23 final size:23
Alignment explanation
Indices: 46245--46307 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
46235 ATATAAGCAT
* *
46245 TACCTATTACATTATATAAATGC
1 TACCTATTACATTATATAAACGA
*
46268 TACCTATTACATTATATAAGCGA
1 TACCTATTACATTATATAAACGA
46291 TACCTATTACATTATAT
1 TACCTATTACATTATAT
46308 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:46759 original size:23 final size:23
Alignment explanation
Indices: 46724--46796 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
46714 ATACTTTACA
46724 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
* *
46747 ATATAAACGCTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
*
46770 ATATAAGCACTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
46793 ATAT
1 ATAT
46797 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:46917 original size:489 final size:489
Alignment explanation
Indices: 45836--49131 Score: 5447
Period size: 489 Copynumber: 6.8 Consensus size: 489
45826 TTATAATATG
* * * *
45836 TTGAAAGTGTTCATACTTTTTTATAAAAAAGATCGATATTTTTTTTAAAGTTATATAATTTATGT
1 TTGAAAGTGTCCATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
* *
45901 TTCAATTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
45966 CAAAAAATTATTTGATTGTTTTGATATTTTAT--AA-A--ATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
*
46026 TAACCAAAGATAATAATAAATATGTAATATATATGTTTTTTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* * *
46091 ATCGTAACGTAAAAAATAAATCATTAGACGCCAATAATTACTAAATTAATATATTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * *
46156 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGTACACTTTTATAAAAAAAG
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAAGG
* *
46221 ATAGATACTTTACAATATAAGCATTACCTATTACATTATATAAATGCTACCTATTACATTATATA
389 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
*
46286 AGCGA-TACCTATTACATTATATTTTTACCTATTATA
454 AGC-ACTACCTATTACATCATATTTTTACCTATTATA
*
46322 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
46387 TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
46452 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTGTTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
46517 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
**
46582 CCGTAATATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
46647 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
46712 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
46777 CACTACCTATTACATCATATTTTTACCTATTATA
456 CACTACCTATTACATCATATTTTTACCTATTATA
46811 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
46876 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
46941 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAAATTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
* *
47006 AACCAAATATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
* **
47071 CCGCAACGTAAAAAATAAATCATTAGACGTATATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
47136 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGGA
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAAGGA
47201 TAGATACTTTACAATATAAGCACTACCTATTACATTATAT-AA-G----------C---------
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
47245 G-A-TACCTATTACATCATATTTTTACCTATTATA
455 GCACTACCTATTACATCATATTTTTACCTATTATA
* *
47278 TTGAAAGTGCCCATACTTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
47343 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
47408 CAAAAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGAATTTAAAATTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
*
47473 TAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
** *
47538 ACCGTAATATAAAAAATAAACCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * *
47603 CAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACGCTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
47668 TATATACTTTACAATATAAGTACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
*
47733 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCACTACCTATTACATCATATTTTTACCTATTATA
*
47768 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATATAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
47833 TCAATTTTTTTAATAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
47898 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
* * *
47963 AACAAAAAATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATTTA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
* *
48028 CCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATTTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
** * *
48093 AAAAGATAATTTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGAAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
48158 AGATACTTTACAATATAAACACTACCTATTACA-T-TAT--A---TA---A--AC---------G
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
48202 --CTACCTATTACATCATATTTTTACCTATTATA
456 CACTACCTATTACATCATATTTTTACCTATTATA
* *
48234 TTGAAAGTGTCCATACTTTTTATAAAAATGATCAATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
48299 TCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
48363 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
* *
48428 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAATGATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
* ** * *
48493 CCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* *
48558 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTTATAAAAATGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
48623 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
* *
48688 CGCTACCTATTACATCATATTTTTACCCATTATA
456 CACTACCTATTACATCATATTTTTACCTATTATA
*
48722 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTT-AAAGTTATGTAATTTATGT
*
48787 TTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
48852 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
*
48917 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTGTTTTTAATTTAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* *
48982 TACTGTAACGTAAAAAATAAATCATTAGACGCTTATAATTACTAAATTAATATCTTAAAACTCAC
259 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * *
49047 ACAAAAGATAACCTTAAATTAATATTTCCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
49112 ATAGATACTTTACAATATAA
389 ATAGATACTTTACAATATAA
49132 CATGTAAAAA
Statistics
Matches: 2632, Mismatches: 121, Indels: 109
0.92 0.04 0.04
Matches are distributed among these distances:
465 330 0.13
466 99 0.04
467 95 0.04
468 357 0.14
469 3 0.00
472 2 0.00
475 1 0.00
477 4 0.00
478 1 0.00
479 2 0.00
482 2 0.00
485 140 0.05
486 16 0.01
487 5 0.00
488 78 0.03
489 882 0.34
490 296 0.11
491 319 0.12
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CACTACCTATTACATCATATTTTTACCTATTATA
Found at i:47244 original size:23 final size:23
Alignment explanation
Indices: 47214--47263 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
47204 ATACTTTACA
*
47214 ATATAAGC-ACTACCTATTACATT
1 ATATAAGCGA-TACCTATTACATC
47237 ATATAAGCGATACCTATTACATC
1 ATATAAGCGATACCTATTACATC
47260 ATAT
1 ATAT
47264 TTTTACCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCGATACCTATTACATC
Found at i:47706 original size:21 final size:21
Alignment explanation
Indices: 47676--47748 Score: 58
Period size: 23 Copynumber: 3.3 Consensus size: 21
47666 GATATATACT
* *
47676 TTACAATATAAGTACTACCTA
1 TTACATTATAAGAACTACCTA
47697 TTACATTATATA-AACGCTACCTA
1 TTACATTATA-AGAA--CTACCTA
**
47720 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAAGAACTACCTA
47743 TTACAT
1 TTACAT
47749 CATATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
21 10 0.24
22 2 0.05
23 24 0.57
24 2 0.05
25 4 0.10
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (21 bp):
TTACATTATAAGAACTACCTA
Found at i:47716 original size:23 final size:23
Alignment explanation
Indices: 47690--47753 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
47680 AATATAAGTA
47690 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
*
47713 CTACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
47736 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
47754 TTTTACCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:48200 original size:23 final size:23
Alignment explanation
Indices: 48170--48219 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
48160 ATACTTTACA
*
48170 ATATAAACACTACCTATTACATT
1 ATATAAACACTACCTATTACATC
*
48193 ATATAAACGCTACCTATTACATC
1 ATATAAACACTACCTATTACATC
48216 ATAT
1 ATAT
48220 TTTTACCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (23 bp):
ATATAAACACTACCTATTACATC
Found at i:48670 original size:23 final size:23
Alignment explanation
Indices: 48635--48707 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
48625 ATACTTTACA
*
48635 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
48658 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
48681 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
48704 ATAT
1 ATAT
48708 TTTTACCCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:49102 original size:956 final size:955
Alignment explanation
Indices: 45836--49131 Score: 5641
Period size: 957 Copynumber: 3.4 Consensus size: 955
45826 TTATAATATG
* * *
45836 TTGAAAGTGTTCATACTTTTTTATAAAAAAGATCGATATTTTTTTTAAAGTTATATAATTTATGT
1 TTGAAAGTGTCCATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATATAATTTATGT
* *
45901 TTCAATTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
45966 CAAAAAATTATTTGATTGTTTTGATATTTTAT--AA-A--ATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
*
46026 TAACCAAAGATAATAATAAATATGTAATATATATGTTTTTTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* * * *
46091 ATCGTAACGTAAAAAATAAATCATTAGACGCCAATAATTACTAAATTAATATATTAAAACTCACT
260 ACCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
46156 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGTACACTTTTATAAAAAAAG
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGA-
46221 ATAGATACTTTACAATATAAGCATTACCTATTACATTATATAAATGCTACCTATTACATTATATA
389 ATAGATACTTTAC-A-AT----A-TA---A--AC---------A--CTACCTATTACATTATATA
*
46286 AGCGATACCTATTACATTATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAT
431 AGCGATACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAT
*
46351 GATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTT
496 GATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTT
46416 CCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTT
561 CCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTT
*
46481 ATAAAATATTGTTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATAT
626 ATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATAT
46546 ATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAATATAAAAAATAAATCATTAGACG
691 ATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAATATAAAAAATAAATCATTAGACG
46611 CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCA
756 CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCA
46676 CAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTAT
821 CAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTAT
*
46741 TACATTATATAAACGCTACCTATTACATTATATAAGCACTACCTATTACATCATATTTTTACCTA
886 TACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
46806 TTATA
951 TTATA
*
46811 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATATAATTTATGTT
46876 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
46941 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAAATTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
* *
47006 AACCAAATATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
**
47071 CCGCAACGTAAAAAATAAATCATTAGACGTATATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* *
47136 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGGA
326 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTAT-AAAAAGAA
*
47201 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAGCGATACCTATTACATCATATTT
390 TAGATACTTTACAATATAAACACTACCTATTACATTATATAAGCGATACCTATTACATCATATTT
* *
47266 TTACCTATTATATTGAAAGTGCCCATACTTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTA
455 TTACCTATTATATTGAAAGTGTCCATAC-TTTTTATAAAAATGATCGATACTTTTTTTAAAGTTA
47331 TGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATA
519 TGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATA
*
47396 ATTTCATTTACACAAAAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGAATTTAA
584 ATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAA
* *
47461 AATTAACAATATTAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTA
649 ATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTA
*
47526 ATAATAATATATACCGTAATATAAAAAATAAACCATTAGACGCCTATAATTACTAAATTAATATC
714 ATAATAATATATACCGTAATATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
47591 TTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACGCTT
779 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTT
* *
47656 TTATAAAAAGGATATATACTTTACAATATAAGTACTACCTATTACATTATATAAACGCTACCTAT
844 TTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTAT
47721 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
909 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
47768 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATATAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATATAATTTATGTT
*
47833 TCAATTTTTTTAATAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
47898 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
* * *
47963 AACAAAAAATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATTTA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
48028 CCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATTTTAAAACTCACTC
261 CCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
**
48093 AAAAGATAATTTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGAAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGAAT
* *
48158 AGATACTTTACAATATAAACACTACCTATTACATTATATAAACGCTACCTATTACATCATATTTT
391 AGATACTTTACAATATAAACACTACCTATTACATTATATAAGCGATACCTATTACATCATATTTT
*
48223 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCAATACTTTTTTTAAAGTTATG
456 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATG
48288 TAATTTATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
521 TAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
* * *
48352 TTAATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAAT
586 TTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAAT
*
48417 TTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAAT
651 TTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAAT
* * ** * *
48482 GATAATATATACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTT
716 AATAATATATACCGTAATATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
* *
48547 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTT
781 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
*
48612 ATAAAAATGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTA
846 ATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTA
*
48677 CATTATATAAGCGCTACCTATTACATCATATTTTTACCCATTATA
911 CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* *
48722 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTT-AAAGTTATATAATTTATGT
*
48787 TTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
48852 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
*
48917 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTGTTTTTAATTTAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* * *
48982 TACTGTAACGTAAAAAATAAATCATTAGACGCTTATAATTACTAAATTAATATCTTAAAACTCAC
259 TACCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * * * *
49047 ACAAAAGATAACCTTAAATTAATATTTCCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGA
49112 ATAGATACTTTACAATATAA
389 ATAGATACTTTACAATATAA
49132 CATGTAAAAA
Statistics
Matches: 2215, Mismatches: 97, Indels: 37
0.94 0.04 0.02
Matches are distributed among these distances:
954 441 0.20
955 74 0.03
956 486 0.22
957 829 0.37
958 1 0.00
967 1 0.00
969 1 0.00
972 2 0.00
973 1 0.00
974 140 0.06
975 15 0.01
976 2 0.00
977 3 0.00
978 1 0.00
979 213 0.10
980 5 0.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (955 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATATAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGAAT
AGATACTTTACAATATAAACACTACCTATTACATTATATAAGCGATACCTATTACATCATATTTT
TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATG
TAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
TTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAAT
TTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAAT
AATAATATATACCGTAATATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
ATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTA
CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:52009 original size:44 final size:44
Alignment explanation
Indices: 51946--52032 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
51936 ACTCGCATAA
*
51946 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCATATAGG
1 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGG
* *
51990 TTTGCACCGAAGTTCCACATAATTGTCCCGAAGGACCACATAG
1 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAG
52033 AACCCTCGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGG
Found at i:52022 original size:21 final size:21
Alignment explanation
Indices: 51952--52031 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 21
51942 ATAATTTGCA
51952 CCGAAGTG-CCACATAATTGTC
1 CCGAAG-GACCACATAATTGTC
* * *
51973 CCAAAGGACCATATAGGTT-TGC
1 CCGAAGGACCACATA-ATTGT-C
**
51995 ACCGAAGTTCCACATAATTGTC
1 -CCGAAGGACCACATAATTGTC
52017 CCGAAGGACCACATA
1 CCGAAGGACCACATA
52032 GAACCCTCGA
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
20 1 0.02
21 25 0.57
22 6 0.14
23 12 0.27
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (21 bp):
CCGAAGGACCACATAATTGTC
Found at i:56926 original size:24 final size:24
Alignment explanation
Indices: 56894--56946 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
56884 TTATACACTC
56894 GAGCGGTGTAGCGCACTTCAGGTT
1 GAGCGGTGTAGCGCACTTCAGGTT
56918 GAGCGGTGTAGCGCACTTCAGGTT
1 GAGCGGTGTAGCGCACTTCAGGTT
56942 GAGCG
1 GAGCG
56947 ATCGACTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.40, T:0.23
Consensus pattern (24 bp):
GAGCGGTGTAGCGCACTTCAGGTT
Found at i:58834 original size:23 final size:23
Alignment explanation
Indices: 58772--58859 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 23
58762 GCTCACATAA
58772 TTTGCACCGAAGTGCCACATA--
1 TTTGCACCGAAGTGCCACATAGG
* *
58793 ATTGTC-CTGAAG-GACCACATAGG
1 TTTG-CACCGAAGTG-CCACATAGG
* *
58816 TTTGCACCGAAGTGTCACAAAGG
1 TTTGCACCGAAGTGCCACATAGG
*
58839 TTTGCATCGAAGTGCCACATA
1 TTTGCACCGAAGTGCCACATA
58860 ATTGTCCTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
20 1 0.02
21 15 0.29
22 2 0.04
23 33 0.63
24 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGG
Found at i:61631 original size:24 final size:24
Alignment explanation
Indices: 61604--61683 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
61594 TCCATGATGA
*
61604 AAAAAAAGGAATAAAAAGAATAAG
1 AAAAAAAGGAAAAAAAAGAATAAG
* *
61628 AAAAAAAGAAAGAAAAAAGAGT--G
1 AAAAAAAGGAA-AAAAAAGAATAAG
61651 AAAAAAA-GAAAAGAAAAGAA-AAG
1 AAAAAAAGGAAAA-AAAAGAATAAG
61674 AAACAAAAGG
1 AAA-AAAAGG
61684 TGAGTTTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
21 2 0.04
22 8 0.18
23 12 0.27
24 14 0.31
25 9 0.20
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (24 bp):
AAAAAAAGGAAAAAAAAGAATAAG
Found at i:64671 original size:14 final size:14
Alignment explanation
Indices: 64652--64693 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
64642 ACCTTATTCT
64652 TTTTCTTGTTCTTC
1 TTTTCTTGTTCTTC
**
64666 TTTTCTTCATCTTC
1 TTTTCTTGTTCTTC
64680 TTTTCTTTGTTCTT
1 TTTTC-TTGTTCTT
64694 TATCTTTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.71
Consensus pattern (14 bp):
TTTTCTTGTTCTTC
Found at i:68044 original size:3 final size:3
Alignment explanation
Indices: 68036--68071 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
68026 ATATATAAAT
*
68036 TAA TAA TAA TAA TAA TAA TAAA TAC TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA
68072 TAGACTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:68088 original size:16 final size:16
Alignment explanation
Indices: 68045--68091 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
68035 TTAATAATAA
* *
68045 TAATAATAATAAATAC
1 TAATAATAATATAGAC
68061 TAATAATAATATAGAC
1 TAATAATAATATAGAC
68077 TATATAATATATATA
1 TA-ATAATA-ATATA
68092 TTTCAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 16 0.59
17 6 0.22
18 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (16 bp):
TAATAATAATATAGAC
Found at i:68277 original size:73 final size:71
Alignment explanation
Indices: 68112--68437 Score: 277
Period size: 71 Copynumber: 4.5 Consensus size: 71
68102 AATATTTTTT
** *
68112 AAACTATATATTATA-TTTT--AAA-AGGTTTTCAAAACTATATATTATATAGTTTTCAAAAATG
1 AAACTATATATTATAGTTTTCAAAATATTTTTTCAAAACTATATATTATATATTTTTC-AAAATG
*
68173 ATTTTAA
65 TTTTTAA
*
68180 AAA-TAT-TA-TATAAGTTTTCAAAAATATTTTTTTAAAACTATATATTATATAATTTTTCTAAA
1 AAACTATATATTAT-AGTTTTC-AAAATATTTTTTCAAAACTATATATTATAT-ATTTTTC-AAA
68242 ATGCTTTTTAA
62 ATG-TTTTTAA
*
68253 AAACTATATATTATA-TTTTCAAAATGA---TTTCAAAACTATATATTATATAATTTTCAAAATG
1 AAACTATATATTATAGTTTTCAAAAT-ATTTTTTCAAAACTATATATTATATATTTTTCAAAATG
68314 -TTTTAA
65 TTTTTAA
* * * *
68320 AACCTATATATTATATATAAGTTTTCAAAA-ACATTTTTAAAAACTATATAATATATATATTTTC
1 AAAC--TATA-TAT-TAT-AGTTTTCAAAATA-TTTTTTCAAAACTATATATTATATAT-TTTTC
68384 GGAAACCAT-TTTTTAA
59 --AAA--ATGTTTTTAA
*
68400 AAACTATATATTATATTTTTCAAAA-ATATTTTTCAAAA
1 AAACTATATATTATAGTTTTCAAAATAT-TTTTTCAAAA
68438 ATTATACTCT
Statistics
Matches: 213, Mismatches: 16, Indels: 51
0.76 0.06 0.18
Matches are distributed among these distances:
65 3 0.01
66 3 0.01
67 16 0.08
68 3 0.01
69 10 0.05
70 12 0.06
71 46 0.22
72 13 0.06
73 23 0.11
74 9 0.04
75 43 0.20
76 11 0.05
77 3 0.01
78 7 0.03
80 11 0.05
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.45
Consensus pattern (71 bp):
AAACTATATATTATAGTTTTCAAAATATTTTTTCAAAACTATATATTATATATTTTTCAAAATGT
TTTTAA
Found at i:68358 original size:40 final size:40
Alignment explanation
Indices: 68182--68443 Score: 176
Period size: 40 Copynumber: 7.0 Consensus size: 40
68172 GATTTTAAAA
* *
68182 ATATTATATA-AGTTTTC-AAAAATATTTTTTTAAAACTAT
1 ATATTATATATA-TTTTCGAAAAACATTTTTTAAAAACTAT
* *
68221 ATATTATATA-ATTTTTCTAAAATGC--TTTTTAAAAAC--T
1 ATATTATATATA-TTTTCGAAAA-ACATTTTTTAAAAACTAT
** *
68258 ATA-TAT-TATATTTTC---AAA-ATGATTTCAAAACTAT
1 ATATTATATATATTTTCGAAAAACATTTTTTAAAAACTAT
* *
68292 ATATTATATA-ATTTTC---AAA-ATGTTTTAAAACCTAT
1 ATATTATATATATTTTCGAAAAACATTTTTTAAAAACTAT
68327 ATATTATATATAAGTTTTC-AAAAACA-TTTTTAAAAACTAT
1 ATATTATATAT-A-TTTTCGAAAAACATTTTTTAAAAACTAT
* * *
68367 ATAATATATATATTTTCGGAAACCATTTTTTAAAAACTAT
1 ATATTATATATATTTTCGAAAAACATTTTTTAAAAACTAT
* * *
68407 ATA-T-TATAT-TTTTC-AAAAATATTTTTCAAAAATTAT
1 ATATTATATATATTTTCGAAAAACATTTTTTAAAAACTAT
68443 A
1 A
68444 CTCTATTATT
Statistics
Matches: 185, Mismatches: 21, Indels: 37
0.76 0.09 0.15
Matches are distributed among these distances:
32 10 0.05
34 4 0.02
35 42 0.23
36 24 0.13
37 10 0.05
38 15 0.08
39 33 0.18
40 46 0.25
41 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (40 bp):
ATATTATATATATTTTCGAAAAACATTTTTTAAAAACTAT
Found at i:68430 original size:13 final size:13
Alignment explanation
Indices: 68412--68439 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
68402 ACTATATATT
68412 ATATTTTTCAAAA
1 ATATTTTTCAAAA
68425 ATATTTTTCAAAA
1 ATATTTTTCAAAA
68438 AT
1 AT
68440 TATACTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTTTTCAAAA
Found at i:69656 original size:41 final size:41
Alignment explanation
Indices: 69611--69717 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
69601 AGGCTATAAG
* * *
69611 TAAGTATTTTGAGCATGATGTTAAGACCTTCAAACCATCAA
1 TAAGTCTTTCGAGCATGATGTTAAGACATTCAAACCATCAA
* * * * * *
69652 TAAGTCTATCGAACATGATGTTAAGACATTCGAGCCATTAT
1 TAAGTCTTTCGAGCATGATGTTAAGACATTCAAACCATCAA
*
69693 TAAGTCTTTCAAGCATGATGTTAAG
1 TAAGTCTTTCGAGCATGATGTTAAG
69718 TCGTTCGGGC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (41 bp):
TAAGTCTTTCGAGCATGATGTTAAGACATTCAAACCATCAA
Found at i:78729 original size:25 final size:26
Alignment explanation
Indices: 78682--78731 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
78672 ATAACCTATA
*
78682 AAATTAATTTATTTTTATAATTTTTG
1 AAATTAATTTATTATTATAATTTTTG
78708 AAATT-ATTTATGTATTAT-ATTTTT
1 AAATTAATTTAT-TATTATAATTTTT
78732 ATTGTATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
AAATTAATTTATTATTATAATTTTTG
Found at i:81170 original size:31 final size:31
Alignment explanation
Indices: 81132--81215 Score: 150
Period size: 31 Copynumber: 2.7 Consensus size: 31
81122 ACTATGCATT
81132 TAGTACCTAAACTATCAATTTTAGTCTGTTA
1 TAGTACCTAAACTATCAATTTTAGTCTGTTA
81163 TAGTACCTAAACTATCAATTTTAGTCTGTTA
1 TAGTACCTAAACTATCAATTTTAGTCTGTTA
* *
81194 TAGTACCTAAACTTTCATTTTT
1 TAGTACCTAAACTATCAATTTT
81216 TTCAAAATCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (31 bp):
TAGTACCTAAACTATCAATTTTAGTCTGTTA
Found at i:83101 original size:60 final size:60
Alignment explanation
Indices: 83018--83136 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
83008 CATGGTTTAG
* * *
83018 GGATGGAATTAGAATGTTCAAAAGTTCAAGGA-CTAATTTAGAATGAGAGTCATAGTTTGA
1 GGATGAAATTAGAATATTCAAAAGTTCAAGGATCT-ATTTAAAATGAGAGTCATAGTTTGA
* * * * *
83078 GGATGAAATTGGAATATTTAAAAGTTTAAGGATCTATTTAAAATGAGGGTTATAGTTTG
1 GGATGAAATTAGAATATTCAAAAGTTCAAGGATCTATTTAAAATGAGAGTCATAGTTTG
83137 GGGACATATG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 48 0.96
61 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (60 bp):
GGATGAAATTAGAATATTCAAAAGTTCAAGGATCTATTTAAAATGAGAGTCATAGTTTGA
Found at i:86348 original size:27 final size:27
Alignment explanation
Indices: 86317--86370 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
86307 AGTTAGGAAG
86317 CTGTTAGAAATGGTTGTTAGTTGTTAA
1 CTGTTAGAAATGGTTGTTAGTTGTTAA
*
86344 CTGTTCGAAATGGTTGTTAGTTGTTAA
1 CTGTTAGAAATGGTTGTTAGTTGTTAA
86371 GCAGTTATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.06, G:0.26, T:0.44
Consensus pattern (27 bp):
CTGTTAGAAATGGTTGTTAGTTGTTAA
Found at i:93327 original size:26 final size:27
Alignment explanation
Indices: 93298--93371 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
93288 ATGGTTGTTA
*
93298 GTTGTTAGCTGTTAACTGTTAG-AATG
1 GTTGTTAGTTGTTAACTGTTAGAAATG
*
93324 GTTGTTAGTTTTTAACTGTTAGAAATG
1 GTTGTTAGTTGTTAACTGTTAGAAATG
*
93351 GTTGTTAGTTGTTAGCTGTTA
1 GTTGTTAGTTGTTAACTGTTA
93372 AGCAGTTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.22, C:0.05, G:0.26, T:0.47
Consensus pattern (27 bp):
GTTGTTAGTTGTTAACTGTTAGAAATG
Found at i:93541 original size:10 final size:10
Alignment explanation
Indices: 93526--93558 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
93516 GGATGTTAAA
93526 TTTCAGAAAC
1 TTTCAGAAAC
93536 TTTCAGAAAC
1 TTTCAGAAAC
*
93546 TTTCATAAAC
1 TTTCAGAAAC
93556 TTT
1 TTT
93559 ATAAACCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (10 bp):
TTTCAGAAAC
Found at i:93564 original size:9 final size:10
Alignment explanation
Indices: 93522--93564 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
93512 TAGAGGATGT
93522 TAAA-TTTCA
1 TAAACTTTCA
*
93531 GAAACTTTCA
1 TAAACTTTCA
*
93541 GAAACTTTCA
1 TAAACTTTCA
93551 TAAACTTT-A
1 TAAACTTTCA
93560 TAAAC
1 TAAAC
93565 CTATCATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (10 bp):
TAAACTTTCA
Found at i:95086 original size:3 final size:3
Alignment explanation
Indices: 95078--95103 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
95068 CATTTTCAAA
95078 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
95104 CAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:98602 original size:35 final size:35
Alignment explanation
Indices: 98555--98629 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
98545 TTTATGTCCG
* *
98555 TAATTAGCATTCAATATTATTTGAGA-TCTTTGAAT
1 TAATTAGAATTCAATATTATTTGA-ATTCTCTGAAT
* *
98590 TAATTAGAATTCATTATTCTTTGAATTCTCTGAAT
1 TAATTAGAATTCAATATTATTTGAATTCTCTGAAT
98625 TAATT
1 TAATT
98630 TAACTATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (35 bp):
TAATTAGAATTCAATATTATTTGAATTCTCTGAAT
Found at i:103800 original size:46 final size:46
Alignment explanation
Indices: 103747--103842 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
103737 AATGCCTTTG
* * *
103747 ACTACGCTGTAGAGGTTGCCCGTAGATAACTCACATATGAGATCTT
1 ACTACGCTATAGAGATTGCCCGTAGATAACTCACATATGAAATCTT
*
103793 ACTACGCTATAGAGATTGCCCGTAGATAACTCATATATGAAATCTT
1 ACTACGCTATAGAGATTGCCCGTAGATAACTCACATATGAAATCTT
103839 ACTA
1 ACTA
103843 AAATGATAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (46 bp):
ACTACGCTATAGAGATTGCCCGTAGATAACTCACATATGAAATCTT
Found at i:104688 original size:24 final size:24
Alignment explanation
Indices: 104661--104710 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
104651 TGGTGGTTGA
104661 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTCTTGAACTTTATT
* *
104685 TTTAATGGTGTCTTTAAGTTTATT
1 TTTAATGGTGTCTTGAACTTTATT
104709 TT
1 TT
104711 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTCTTGAACTTTATT
Found at i:111246 original size:13 final size:13
Alignment explanation
Indices: 111228--111253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111218 TAAGTTTTTC
111228 TTTATTTTTATTT
1 TTTATTTTTATTT
111241 TTTATTTTTATTT
1 TTTATTTTTATTT
111254 CATTTTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:111597 original size:20 final size:20
Alignment explanation
Indices: 111557--111597 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
111547 TAACTTTTTC
*
111557 TTCTCTTTCTTTATTAATTT
1 TTCTCTTTCATTATTAATTT
*
111577 TTCTCTTTCATT-TTAACTT
1 TTCTCTTTCATTATTAATTT
111596 TT
1 TT
111598 ACTTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTCTTTCATTATTAATTT
Found at i:114918 original size:24 final size:24
Alignment explanation
Indices: 114891--114940 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
114881 TGGTGGTTGA
114891 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
114915 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
114939 TT
1 TT
114941 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:116867 original size:14 final size:14
Alignment explanation
Indices: 116823--116867 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
116813 TCTTTGCATT
* *
116823 TTTGCACCTTGTTC
1 TTTGCACCATATTC
**
116837 TTTGCACCATAGCC
1 TTTGCACCATATTC
116851 TTTGCACCATATTC
1 TTTGCACCATATTC
116865 TTT
1 TTT
116868 ATTCTTTACA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.16, C:0.29, G:0.11, T:0.44
Consensus pattern (14 bp):
TTTGCACCATATTC
Found at i:119809 original size:19 final size:19
Alignment explanation
Indices: 119787--119833 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
119777 TGCTTAGTAT
119787 AAAATGAAAGAAAAAAAAG
1 AAAATGAAAGAAAAAAAAG
**
119806 AAAAAAAAAGAAAAAAAAG
1 AAAATGAAAGAAAAAAAAG
119825 AAAATGAAA
1 AAAATGAAA
119834 ATGAGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (19 bp):
AAAATGAAAGAAAAAAAAG
Found at i:119810 original size:10 final size:9
Alignment explanation
Indices: 119793--119828 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
119783 GTATAAAATG
119793 AAAGAAAAA
1 AAAGAAAAA
119802 AAAGAAAAAA
1 AAAG-AAAAA
119812 AAAGAAAAA
1 AAAGAAAAA
119821 AAAGAAAA
1 AAAGAAAA
119829 TGAAAATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:121729 original size:37 final size:37
Alignment explanation
Indices: 121653--121729 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
121643 TTTTTATATT
*
121653 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
121690 TTTAATTTT-TTAAAGAAATTATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
121727 TTT
1 TTT
121730 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 21 0.60
37 14 0.40
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:121911 original size:20 final size:20
Alignment explanation
Indices: 121875--121912 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
121865 ATCCTATTAT
**
121875 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
121895 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
121913 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:123021 original size:35 final size:32
Alignment explanation
Indices: 122943--123016 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
122933 ACAACCGTGA
*
122943 ACGGTGGTCGGGAAAGAGGACCATCACGATGT
1 ACGGTGGTCGGGAAAGAAGACCATCACGATGT
*
122975 ACGGTGGTCGGGAAAGAAGAGCATCACGATGT
1 ACGGTGGTCGGGAAAGAAGACCATCACGATGT
123007 ACGGTGGTCG
1 ACGGTGGTCG
123017 TCGGGTTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.27, C:0.18, G:0.39, T:0.16
Consensus pattern (32 bp):
ACGGTGGTCGGGAAAGAAGACCATCACGATGT
Found at i:124863 original size:57 final size:57
Alignment explanation
Indices: 124739--125080 Score: 503
Period size: 57 Copynumber: 6.0 Consensus size: 57
124729 ACATATAGTT
* *
124739 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAA--TTTTGCACACATAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
* *
124794 CCCATACGAAAATTCATACACTTGGTATGAACTTCTTAACTTTTTGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
*
124851 CCCATACGAAAATTCATAAACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
* * * *
124908 TCCATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACACCCAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
* *
124965 CCCATAC-AGAAATTCATACACTTAGTATGAATTTCTTAACTTTTCGTA-AGCAAAGTG
1 CCCATACGA-AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACA-CAAAGTG
* * * *
125022 TCCATACGGAAATTCATACACTTAGTATCAACTTCTTAACTTTTTGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
125079 CC
1 CC
125081 ATTTGGTAAT
Statistics
Matches: 256, Mismatches: 25, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
55 36 0.14
57 219 0.86
58 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (57 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
Found at i:131028 original size:31 final size:31
Alignment explanation
Indices: 130990--131051 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
130980 TATTATGAAT
*
130990 TTCTTAACTTTTTGCACACAAAGTGCACATA
1 TTCTTAACTTTTTGAACACAAAGTGCACATA
*
131021 TTCTTAACTTTTTGAACACAAAGTGCCCATA
1 TTCTTAACTTTTTGAACACAAAGTGCACATA
131052 CGGAAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (31 bp):
TTCTTAACTTTTTGAACACAAAGTGCACATA
Found at i:131109 original size:57 final size:57
Alignment explanation
Indices: 131021--131158 Score: 222
Period size: 57 Copynumber: 2.4 Consensus size: 57
131011 AGTGCACATA
* * * *
131021 TTCTTAACTTTTTGAACACAAAGTGCCCATACGGAAATTCATACACTTAGTATGAAT
1 TTCTTAACTTTTTGCACACAAAGTGCACATACGAAAATTCATACACTTAGTATGAAC
* *
131078 TTCTTAACTTTTTTCCCACAAAGTGCACATACGAAAATTCATACACTTAGTATGAAC
1 TTCTTAACTTTTTGCACACAAAGTGCACATACGAAAATTCATACACTTAGTATGAAC
131135 TTCTTAACTTTTTGCACACAAAGT
1 TTCTTAACTTTTTGCACACAAAGT
131159 TCCATTTGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 73 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (57 bp):
TTCTTAACTTTTTGCACACAAAGTGCACATACGAAAATTCATACACTTAGTATGAAC
Found at i:134086 original size:31 final size:31
Alignment explanation
Indices: 134051--134127 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
134041 TGAGCCATGA
134051 TTGACATGATGAATACATGTACGTATAAAAC
1 TTGACATGATGAATACATGTACGTATAAAAC
134082 TTGACATGATGAATACATGTACGTATAAAAC
1 TTGACATGATGAATACATGTACGTATAAAAC
134113 TTGACATGATGAATA
1 TTGACATGATGAATA
134128 TCAGTGATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.30
Consensus pattern (31 bp):
TTGACATGATGAATACATGTACGTATAAAAC
Found at i:135308 original size:12 final size:12
Alignment explanation
Indices: 135291--135315 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
135281 TATAAAATAC
135291 TATACTCTTAAT
1 TATACTCTTAAT
135303 TATACTCTTAAT
1 TATACTCTTAAT
135315 T
1 T
135316 TAAAAGTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TATACTCTTAAT
Found at i:136527 original size:13 final size:12
Alignment explanation
Indices: 136508--136537 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
136498 ATTCCCTATA
136508 AAGAAGAAAAAG
1 AAGAAGAAAAAG
136520 AGAGAAGAAAAAG
1 A-AGAAGAAAAAG
136533 AAGAA
1 AAGAA
136538 AATTTTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAG
Found at i:138825 original size:31 final size:31
Alignment explanation
Indices: 138749--138812 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
138739 TTGGTCAAAA
* * *
138749 TCGGATCGGGTTAATATCGAATCTGTTGGCT
1 TCGGGTCGGGTCAATATCAAATCTGTTGGCT
138780 TCGGGTCGGGTCAATATCAAAT-TGGTTGGCT
1 TCGGGTCGGGTCAATATCAAATCT-GTTGGCT
138811 TC
1 TC
138813 TGTTTGGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (31 bp):
TCGGGTCGGGTCAATATCAAATCTGTTGGCT
Found at i:140718 original size:24 final size:24
Alignment explanation
Indices: 140691--140739 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
140681 AAGCCCATCT
140691 GACGATGGGCCATGGAGATCAGAG
1 GACGATGGGCCATGGAGATCAGAG
140715 GACGATGGGCCATGGAGATCAGAG
1 GACGATGGGCCATGGAGATCAGAG
140739 G
1 G
140740 GCGAAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.43, T:0.12
Consensus pattern (24 bp):
GACGATGGGCCATGGAGATCAGAG
Found at i:143092 original size:18 final size:18
Alignment explanation
Indices: 143069--143108 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
143059 TGAACCTTTA
143069 GTTAATGGAAAATTTTTG
1 GTTAATGGAAAATTTTTG
143087 GTTAATGGAAAATTTTTG
1 GTTAATGGAAAATTTTTG
143105 GTTA
1 GTTA
143109 CTACTCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (18 bp):
GTTAATGGAAAATTTTTG
Found at i:147275 original size:24 final size:23
Alignment explanation
Indices: 147248--147335 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 23
147238 ATTTCCGACT
*
147248 TGAATTCTGTTATGATACATTACC
1 TGAATTCTGTTATGATAC-TTATC
* * *
147272 TGAATTCTGTTCTGATTTCTAATC
1 TGAATTCTGTTATGA-TACTTATC
* *
147296 TGGATTCTGTTATGATATCTTATA
1 TGAATTCTGTTATGATA-CTTATC
*
147320 TGAATTCTGTTTTGAT
1 TGAATTCTGTTATGAT
147336 TTCTGATATC
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 1 0.02
24 48 0.94
25 2 0.04
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.49
Consensus pattern (23 bp):
TGAATTCTGTTATGATACTTATC
Found at i:147290 original size:48 final size:49
Alignment explanation
Indices: 147234--147338 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 49
147224 AAATATTTTA
* *
147234 TCTGATTTCCGACT-TGAATTCTGTTATGATA-CATTACCTGAATTCTGT
1 TCTGATTTCCGAATCTGAATTCTGTTATGATATC-TTACATGAATTCTGT
* * *
147282 TCTGATTT-CTAATCTGGATTCTGTTATGATATCTTATATGAATTCTGT
1 TCTGATTTCCGAATCTGAATTCTGTTATGATATCTTACATGAATTCTGT
*
147330 TTTGATTTC
1 TCTGATTTC
147339 TGATATCTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
47 3 0.06
48 44 0.92
49 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.49
Consensus pattern (49 bp):
TCTGATTTCCGAATCTGAATTCTGTTATGATATCTTACATGAATTCTGT
Found at i:147344 original size:24 final size:24
Alignment explanation
Indices: 147272--147344 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
147262 ATACATTACC
* *
147272 TGAATTCTGTTCTGATTTCTAATC
1 TGAATTCTGTTATGATTTCTAATA
* * *
147296 TGGATTCTGTTATGATATCTTATA
1 TGAATTCTGTTATGATTTCTAATA
* *
147320 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTATGATTTCTAATA
147344 T
1 T
147345 CTCCGTTTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTAATA
Found at i:147956 original size:26 final size:27
Alignment explanation
Indices: 147910--147962 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
147900 AATTATATTT
*
147910 TGTTTTAATATTTGATTCTGA-AAATC
1 TGTTTTAATATTTGATACTGATAAATC
*
147936 TGTTTT-ATTTTTGTATACTGATAAATC
1 TGTTTTAATATTTG-ATACTGATAAATC
147963 ATTTTATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 6 0.26
26 12 0.52
27 5 0.22
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (27 bp):
TGTTTTAATATTTGATACTGATAAATC
Found at i:151993 original size:24 final size:24
Alignment explanation
Indices: 151963--152035 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
151953 ATACATTACT
* *
151963 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTATGATTTCTGATA
* *
151987 TGGATTCTGTTATGATATCTGATA
1 TGAATTCTGTTATGATTTCTGATA
* *
152011 TGAATTATGTTTTGATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
152035 T
1 T
152036 CTCCGTTTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATA
Found at i:152015 original size:48 final size:49
Alignment explanation
Indices: 151925--152033 Score: 127
Period size: 48 Copynumber: 2.3 Consensus size: 49
151915 AAATATTTTA
* * *
151925 TCTGATTTCCGA-CTTGAATTCTGTTATGATACATTACTTGAATTCTGT
1 TCTGATTTCTGATCTTGAATTCTGTTATGATACATGACTTGAATTATGT
*
151973 TCTGATTTCTGATC-TGGATTCTGTTATGATATC-TGA-TATGAATTATGT
1 TCTGATTTCTGATCTTGAATTCTGTTATGATA-CATGACT-TGAATTATGT
*
152021 TTTGATTTCTGAT
1 TCTGATTTCTGAT
152034 ATCTCCGTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
47 1 0.02
48 50 0.94
49 2 0.04
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.49
Consensus pattern (49 bp):
TCTGATTTCTGATCTTGAATTCTGTTATGATACATGACTTGAATTATGT
Found at i:152198 original size:2 final size:2
Alignment explanation
Indices: 152191--152247 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
152181 AACGGATGGG
152191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
152233 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
152248 GTTTTAAAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:159343 original size:3 final size:3
Alignment explanation
Indices: 159337--159393 Score: 89
Period size: 3 Copynumber: 18.7 Consensus size: 3
159327 TAACAACATA
159337 AAT AAT AAT AGCA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
159383 AAT AAT AAT AA
1 AAT AAT AAT AA
159394 CCCGAACAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.02
3 48 0.94
4 1 0.02
5 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:159353 original size:25 final size:25
Alignment explanation
Indices: 159324--159393 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
159314 AAATTAATAT
159324 AAATAACAAC-ATAAATAATAATAGC
1 AAATAACAACAAT-AATAATAATAGC
* *
159349 AAATAATAATAATAATAATAATA--
1 AAATAACAACAATAATAATAATAGC
* *
159372 ATAATAATAATAATAATAATAA
1 A-AATAACAACAATAATAATAA
159394 CCCGAACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
23 1 0.02
24 20 0.49
25 18 0.44
26 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (25 bp):
AAATAACAACAATAATAATAATAGC
Found at i:161660 original size:2 final size:2
Alignment explanation
Indices: 161649--161703 Score: 94
Period size: 2 Copynumber: 27.5 Consensus size: 2
161639 ATCTATTTTT
161649 TA TA TCA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
161691 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
161704 TACATTTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 48 0.94
3 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:161838 original size:19 final size:19
Alignment explanation
Indices: 161814--161853 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
161804 TGAGAAATGT
161814 TTCTCTATT-TTTCTATTTA
1 TTCTCT-TTGTTTCTATTTA
*
161833 TTCTCTTTGTTTTTATTTA
1 TTCTCTTTGTTTCTATTTA
161852 TT
1 TT
161854 TGACGCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.72
Consensus pattern (19 bp):
TTCTCTTTGTTTCTATTTA
Found at i:162499 original size:14 final size:14
Alignment explanation
Indices: 162480--162506 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
162470 CTAAAGTTCA
162480 ATGTCCATTATAAG
1 ATGTCCATTATAAG
162494 ATGTCCATTATAA
1 ATGTCCATTATAA
162507 AAGGTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
ATGTCCATTATAAG
Found at i:164033 original size:38 final size:39
Alignment explanation
Indices: 163982--164063 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 39
163972 CTATCTTGCC
*
163982 TGTTTTTTAAAGTTAT-ATATT-TACAAAA-ATTGATGTCA
1 TGTTTTTTAAAGTTATGAAATTCT-CAAAATA-TGATGTCA
*
164020 TGTTTTTTAAAGTTGTGAAATTCTCAAAATATGATGTCA
1 TGTTTTTTAAAGTTATGAAATTCTCAAAATATGATGTCA
164059 TGTTT
1 TGTTT
164064 ATTTTGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
38 15 0.38
39 22 0.56
40 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (39 bp):
TGTTTTTTAAAGTTATGAAATTCTCAAAATATGATGTCA
Found at i:169477 original size:23 final size:22
Alignment explanation
Indices: 169431--169504 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
169421 TTTTCGGGAA
* *
169431 AAATCTATGTGGTCATTTAGGAC
1 AAATCTATGTGGTCCTTGA-GAC
169454 AAATCTATGTGGTCCTTCGAGAC
1 AAATCTATGTGGTCCTT-GAGAC
**
169477 AAATTCTATGCAGTCCTTTGAGAC
1 AAA-TCTATGTGGTCC-TTGAGAC
169501 AAAT
1 AAAT
169505 TCTACATGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
23 23 0.52
24 19 0.43
25 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (22 bp):
AAATCTATGTGGTCCTTGAGAC
Found at i:169492 original size:24 final size:24
Alignment explanation
Indices: 169451--169508 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
169441 GGTCATTTAG
**
169451 GACAAA-TCTATGTGGTCCTTCGA
1 GACAAATTCTATGCAGTCCTTCGA
*
169474 GACAAATTCTATGCAGTCCTTTGA
1 GACAAATTCTATGCAGTCCTTCGA
169498 GACAAATTCTA
1 GACAAATTCTA
169509 CATGGCCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (24 bp):
GACAAATTCTATGCAGTCCTTCGA
Found at i:173366 original size:40 final size:40
Alignment explanation
Indices: 173311--173430 Score: 222
Period size: 40 Copynumber: 3.0 Consensus size: 40
173301 AGGTTTATAG
*
173311 TACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
173351 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
*
173391 TACACTTCGGTGTATATGGTGGGCACAACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
173431 CATTATGGTG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
Found at i:173625 original size:46 final size:46
Alignment explanation
Indices: 173533--173673 Score: 180
Period size: 45 Copynumber: 3.1 Consensus size: 46
173523 GTAACCATGC
* * * *
173533 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGCATAGTGGTAA
1 AAATAAGCTTACGAGGTTATGGAATAAATGGTAAGTATATTGGTAA
*
173578 AAATAAGCTTATGAGGTTATGGAATAAATGGTAAGTATATTGGT-A
1 AAATAAGCTTACGAGGTTATGGAATAAATGGTAAGTATATTGGTAA
* *
173623 AAATAAGCTTACGAGCG-TATGGGATAAATGGTAAATATATTGGTAA
1 AAATAAGCTTACGAG-GTTATGGAATAAATGGTAAGTATATTGGTAA
173669 GAAAT
1 -AAAT
173674 TTTATATTCA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
45 63 0.75
46 17 0.20
47 4 0.05
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.28
Consensus pattern (46 bp):
AAATAAGCTTACGAGGTTATGGAATAAATGGTAAGTATATTGGTAA
Found at i:176441 original size:23 final size:23
Alignment explanation
Indices: 176415--176497 Score: 107
Period size: 22 Copynumber: 3.6 Consensus size: 23
176405 AAAAAAAAAC
176415 AAAAAAAAAAAAAAGATAGAAGA
1 AAAAAAAAAAAAAAGATAGAAGA
*
176438 AAAAGAAAAAAAAAGATAG-AGA
1 AAAAAAAAAAAAAAGATAGAAGA
* *
176460 AAAAGAAAAAAAAAGA-AAAAGA
1 AAAAAAAAAAAAAAGATAGAAGA
176482 AAAGAATAAAAAAAAA
1 AAA-AA-AAAAAAAAA
176498 AAAATGAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
21 1 0.02
22 25 0.46
23 19 0.35
24 9 0.17
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAAAAAAGATAGAAGA
Found at i:176446 original size:22 final size:22
Alignment explanation
Indices: 176410--176540 Score: 101
Period size: 22 Copynumber: 5.9 Consensus size: 22
176400 AATATAAAAA
* *
176410 AAAACAAAAAAAAAAAAAAGAT
1 AAAAGAAAAAGAAAAAAAAGAT
*
176432 AGAAGAAAAAGAAAAAAAAAGAT
1 AAAAGAAAAAG-AAAAAAAAGAT
*
176455 -AGAGAAAAAGAAAAAAAAAGA-
1 AAAAGAAAAAG-AAAAAAAAGAT
* *
176476 AAAAG-AAAAGAATAAAAAAAAA
1 AAAAGAAAAAGAA-AAAAAAGAT
*
176498 AAAATGAAAAAGAAATAAAATTGA-
1 AAAA-GAAAAAGAAA-AAAA-AGAT
176522 AAAAG-AAAAGAAAAGAAAA
1 AAAAGAAAAAGAAAA-AAAA
176541 AGAGAAAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.02
21 13 0.14
22 45 0.50
23 14 0.16
24 15 0.17
25 1 0.01
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.05
Consensus pattern (22 bp):
AAAAGAAAAAGAAAAAAAAGAT
Found at i:176463 original size:51 final size:48
Alignment explanation
Indices: 176408--176565 Score: 145
Period size: 51 Copynumber: 3.1 Consensus size: 48
176398 ATAATATAAA
176408 AAAAAACAAAAAAAAAAAAAAGATAGAAGAAAAAGAAAAAAAAAGATAGAG
1 AAAAAA-AAAAAAAAAAAAAAGA-A-AAGAAAAAGAAAAAAAAAGATAGAG
* * * *
176459 AAAAAGAAAAAAAAAGAAAAAGAAAAGAATAAAAAAAAAAAAATGAAAAAG
1 AAAAA-AAAAAAAAAAAAAAAGAAAAGAA-AAAGAAAAAAAAA-GATAGAG
*** * * *
176510 AAATAAAATTGAAAAAGAAAAGAAAAGAAAAAGAGAAAAAAATGAGAGATG
1 AAA-AAAAAAAAAAAAAAAAAGAAAAGAAAAAGA-AAAAAAAAGATAGA-G
176561 AAAAA
1 AAAAA
176566 TATTTCACTT
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
49 5 0.06
50 23 0.26
51 57 0.65
52 3 0.03
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.06
Consensus pattern (48 bp):
AAAAAAAAAAAAAAAAAAAAGAAAAGAAAAAGAAAAAAAAAGATAGAG
Found at i:176501 original size:23 final size:22
Alignment explanation
Indices: 176415--176551 Score: 105
Period size: 24 Copynumber: 5.6 Consensus size: 22
176405 AAAAAAAAAC
176415 AAAAAAAAAAAAAAGATAGAAGAA
1 AAAAAAAAAAAAAAGA-A-AAGAA
176439 AAAGAAAAAAAAAGATAGAGAAA-AA
1 AAA-AAAAAAAAA-A-AGA-AAAGAA
176464 GAAAAAAAAAGAAAAAGAAAAGAA
1 -AAAAAAAAA-AAAAAGAAAAGAA
*
176488 TAAAAAAAAAAAAATGAAAAAGAA
1 -AAAAAAAAAAAAAAG-AAAAGAA
176512 ATAAAATTGAAAAAGAAAAGAAAAGAA
1 A-AAAA---AAAAA-AAAAGAAAAGAA
* *
176539 AAAGAGAAAAAAA
1 AAAAAAAAAAAAA
176552 TGAGAGATGA
Statistics
Matches: 95, Mismatches: 6, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
22 3 0.03
23 13 0.14
24 28 0.29
25 18 0.19
26 12 0.13
27 17 0.18
28 4 0.04
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (22 bp):
AAAAAAAAAAAAAAGAAAAGAA
Found at i:176507 original size:7 final size:6
Alignment explanation
Indices: 176415--176548 Score: 94
Period size: 5 Copynumber: 23.7 Consensus size: 6
176405 AAAAAAAAAC
* * *
176415 AAAA-A AAAA-A AAAAGA TAGAAGA AAAAG- AAAA-A AAAAGA TAGAGA
1 AAAAGA AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
176460 AAAAG- AAAA-A AAAAGA AAAAG- AAAAGA ATAAA-A AAAA-A AAAATGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AAAA-GA
* **
176505 AAAAGA AATA-A AATTGA AAAAG- AAAAG- AAAAGA AAAAGA GAAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA -AAAA
176549 AAATGAGAGA
Statistics
Matches: 106, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
5 52 0.49
6 37 0.35
7 17 0.16
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:176508 original size:1 final size:1
Alignment explanation
Indices: 176405--176501 Score: 59
Period size: 1 Copynumber: 97.0 Consensus size: 1
176395 AATATAATAT
* * * * * * * * * * *
176405 AAAAAAAAACAAAAAAAAAAAAAAGATAGAAGAAAAAGAAAAAAAAAGATAGAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
176470 AAAAGAAAAAGAAAAGAATAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
176502 TGAAAAAGAA
Statistics
Matches: 66, Mismatches: 30, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.03
Consensus pattern (1 bp):
A
Found at i:176508 original size:16 final size:16
Alignment explanation
Indices: 176438--176554 Score: 71
Period size: 16 Copynumber: 7.1 Consensus size: 16
176428 AGATAGAAGA
176438 AAAAGAAAAAAAAAGATAG
1 AAAA-AAAAAAAAA-AT-G
*
176457 AGAAAAAGAAAAAAAAAG
1 A-AAAAA-AAAAAAAATG
* *
176475 -AAAAAGAAAAGAAT-
1 AAAAAAAAAAAAAATG
176489 -AAAAAAAAAAAAATG
1 AAAAAAAAAAAAAATG
* *
176504 AAAAAGAAATAAAATTG
1 AAAAA-AAAAAAAAATG
*
176521 AAAAAGAAAAGAAAA-G
1 AAAAA-AAAAAAAAATG
*
176537 AAAAAGAGAAAAAAATG
1 AAAAA-AAAAAAAAATG
176554 A
1 A
176555 GAGATGAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
14 12 0.15
15 6 0.08
16 23 0.29
17 23 0.29
18 1 0.01
19 4 0.05
20 10 0.13
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAAAAAATG
Found at i:180427 original size:40 final size:40
Alignment explanation
Indices: 180372--180475 Score: 190
Period size: 40 Copynumber: 2.6 Consensus size: 40
180362 AGGTTTATAG
180372 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
*
180412 TACACTTCGGTGTATATAGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
*
180452 TACACTTCGGTGTATATGCTGGGC
1 TACACTTCGGTGTATATGGTGGGC
180476 TATTGTCTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (40 bp):
TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
Found at i:180613 original size:46 final size:46
Alignment explanation
Indices: 180522--180662 Score: 187
Period size: 45 Copynumber: 3.1 Consensus size: 46
180512 ATAACCATGC
* * *
180522 AAATAAGCTTACAAGCTTATGGAA-AAATGGCAAGCATATTGGTAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAA
* * *
180567 AAATAAGCTTATGGGGTTATGGAATAAATGGTAAGTATATTGGT-A
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAA
* *
180612 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAATATATTGGTAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAA
180658 TAAAT
1 -AAAT
180663 TTTATATTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 60 0.73
46 18 0.22
47 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAA
Found at i:186724 original size:26 final size:26
Alignment explanation
Indices: 186688--186751 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
186678 GCTCAGGTGG
*
186688 CGGTGGCTGAGAGGAACATCCTGTGA
1 CGGTGGCTGAGAGGAACATCCTGCGA
* *
186714 CGGTGGCTGAGAGGAATATCTTGCGA
1 CGGTGGCTGAGAGGAACATCCTGCGA
186740 CGGTGGCTGAGA
1 CGGTGGCTGAGA
186752 TAACACTAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (26 bp):
CGGTGGCTGAGAGGAACATCCTGCGA
Found at i:186935 original size:18 final size:18
Alignment explanation
Indices: 186912--186954 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
186902 CGGTTAGAAA
186912 TCTGGGCATGGATCAGGT
1 TCTGGGCATGGATCAGGT
*
186930 TCTGGGCATGGATCGGGT
1 TCTGGGCATGGATCAGGT
186948 TCTGGGC
1 TCTGGGC
186955 CTATTGTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.12, C:0.19, G:0.42, T:0.28
Consensus pattern (18 bp):
TCTGGGCATGGATCAGGT
Found at i:187021 original size:24 final size:24
Alignment explanation
Indices: 186967--187045 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
186957 ATTGTAACCA
* * *
186967 GGCTCCAGATTTTCTTTGTAACTGG
1 GGCTCCAGATTGT-TTTATAAATGG
*
186992 GCCTCCAGATTGTTTTATAAATGG
1 GGCTCCAGATTGTTTTATAAATGG
*
187016 GGCTCCAGTTTGTTTTATAAATGG
1 GGCTCCAGATTGTTTTATAAATGG
187040 GGCTCC
1 GGCTCC
187046 GAGTTTTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 37 0.77
25 11 0.23
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (24 bp):
GGCTCCAGATTGTTTTATAAATGG
Found at i:187065 original size:25 final size:24
Alignment explanation
Indices: 186989--187065 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
186979 TCTTTGTAAC
* * *
186989 TGGGCCTCCAGATTGTTTTATAAA
1 TGGGGCTCCAGTTTGTTGTATAAA
*
187013 TGGGGCTCCAGTTTGTTTTATAAA
1 TGGGGCTCCAGTTTGTTGTATAAA
*
187037 TGGGGCTCCGAGTTTTGTTGT-TAAT
1 TGGGGCTCC-AG-TTTGTTGTATAAA
187062 TGGG
1 TGGG
187066 TTGGGTTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
24 31 0.66
25 9 0.19
26 7 0.15
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (24 bp):
TGGGGCTCCAGTTTGTTGTATAAA
Found at i:187554 original size:42 final size:42
Alignment explanation
Indices: 187508--187646 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 42
187498 ATATGCTCAT
187508 CTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCA
1 CTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCA
* * * * * *
187550 CTACTCTTTCC-GGAAGACCA-AATCTGAAAAAAGA-AGATTATGCTCCT
1 CTACTC-TTCCGGGGAGATCAGACTC-G-----AGATTGATT-TGCTTCA
* *
187597 CTACTCTTTCGGGGAGATCAGACTCGAGGTTGATTTGCTTCA
1 CTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCA
187639 CTACTCTT
1 CTACTCTT
187647 TCGTGAAGGC
Statistics
Matches: 72, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
41 3 0.04
42 29 0.40
43 8 0.11
46 7 0.10
47 22 0.31
48 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (42 bp):
CTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCA
Found at i:187600 original size:89 final size:89
Alignment explanation
Indices: 187480--190184 Score: 2324
Period size: 89 Copynumber: 30.6 Consensus size: 89
187470 TATGAATATT
* * * * *
187480 AAATCAGAAATAAAAAGAATATGCTCATCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* *
187545 CTTCACTACTCTTTCCGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
* * * * * *
187569 AAATCTGAAAAAAGAAGATTATGCTCCTCTACTCTTTCGGGGAGATCAGACTCGAGGTTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* *
187634 CTTCACTACTCTTTC-GTGAAGGCC
66 CTTCGCTACTCTTTCAG-GAAGACC
* * * * * * *
187658 AAATCTGAAATAAGAAAAAGT-TGCTCCACTACACTTCTGGGGAGATAATACTCGAGATTGATTT
1 AAATCTGAAATAAGAAGAA-TCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTT
* * * * *
187722 GATTCG-TCGCTTTTTCAAGAATACC
65 GCTTCGCT-ACTCTTTCAGGAAGACC
* * * * *
187747 AAATCTGACATAAGAAGAATCTGCT-CTACTACTCTTCCGGGGAGACCAGACTCGATATTTATTT
1 AAATCTGAAATAAGAAGAATCTGCTCCT-CTACTCTTCCGGGGAGATCAGACTCAAGATTGATTT
* * ** *
187811 GATTCGTTGTTCTCTCAGGAAGACC
65 GCTTCGCTACTCTTTCAGGAAGACC
* * * *
187836 AAATCTGACATAAGAAGAATCTGCTCCACTACTCTTTCAGGGAGATCAGACTCAAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
187901 CTTCGCTACTCTTTCAGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
* ** * * * * * * *
187925 AAATTTGGGATAAGAAGAATCTACTCCACTACTCTTCTGTGGAGATCAAACTCAAGTTTGATTTA
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
*
187990 CTTCGCTACTCTTTCGGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
** *** * * * *
188014 AAAAATGGGCTAAGAAGAATTTACTCCTCTACTCTTCCGGGGAGATCAAACTCAAGATTGATATG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * *
188079 CTTCACTACTCTTTCGGGAAGACT
66 CTTCGCTACTCTTTCAGGAAGACC
* * * *
188103 AAATCTAAAATAAGAAGAATATGCTCCTCTACCCTTCTGGGGAGATCAGACT-AGAGATTGATTT
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCA-AGATTGATTT
* * ** * *
188167 GCTTCTCTAATCTTTTGGGAAAATC
65 GCTTCGCTACTCTTTCAGGAAGACC
* * * * * *
188192 AAATCTGAAATAATAAAAATCTGCTCCTCTACTCTTCCGGGGAGATCATAATCAATATTGATTTT
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * * *
188257 CTTCACCACTCTTT-TGTGAAGGCC
66 CTTCGCTACTCTTTCAG-GAAGACC
* * * * * * *
188281 AAATTTGAAATAAGAAGAACCTGCTCCACTACTCTTCCGGAGAGCTGAGACTCGAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * * *
188346 ATTCACCACTTTTTCAGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
* * * * * * * *
188370 AAATCTGACATAAAAATAATTTGCTCCACTACTCTTCCAGGGAGATCATACTCGAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * * * * *
188435 ATCCACT-GTTTGTTCAGGAAGACT
66 CTTCGCTACTCT-TTCAGGAAGACC
* * * *
188459 AAATCTGACATAAGAAGAATCTGCTCCTCTACGCTTCCGGGGAGATCAGACTCAATATTGATTTA
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
**
188524 CTTCGCTACTCTTTTGGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
* ** * *
188548 AAATATGGGAT---AAG-A-------CACTACTCTTTCGGGGAGATCAGACTCAAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
188602 CTTCGCTACTCTTTCAGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
* ** * * * *
188626 AAATTTGGGATAAGAAGAATCTACTCCACTACTCTTTCGGGGAGATCAGACTCAAGTTTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * *
188691 CTTCGCTACTCTATCGGGAAGGCC
66 CTTCGCTACTCTTTCAGGAAGACC
** ** * * *
188715 AAAAATGGGATAAGAAGAATTTACTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATATG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * * *
188780 TTTCACTACACTTTCTGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
* * * * *
188804 AAATCTAAAATAAGAAGAATATGCTCCTCTAGC-CTTCTGGGGAGATCAGACTCGAGATGGATTT
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTA-CTCTTCCGGGGAGATCAGACTCAAGATTGATTT
* * * ** * *
188868 TCTTCTCTAATCTTTTGGGAAAATC
65 GCTTCGCTACTCTTTCAGGAAGACC
* * * * * * * *
188893 AAATCTGAAATAATAAAAATCTACTCCTCTACTCTTCTGGGGAGATCATAATCGAGATTGATTTT
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * *
188958 CTTCACTACTCTTT-TGTGAAAACC
66 CTTCGCTACTCTTTCAG-GAAGACC
* * * * * *
188982 AAATTTGAAATAAGAAGAA-CATGCTCCACTACTCTTCCGGAGAGCTGAGACTCGAGATTGATTT
1 AAATCTGAAATAAGAAGAATC-TGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTT
* * *
189046 GATTCGCCACTTTTTCAGGAAGACC
65 GCTTCGCTACTCTTTCAGGAAGACC
* * * * * * *
189071 AAATCTGACATAAAAATAATCTGCTCCACTACTCTTCCAGGGAGATCATACTTGAA-ATTGATTT
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGAC-TCAAGATTGATTT
* * * * *
189135 GATTCACTA-TTTTTCAGGAATACT
65 GCTTCGCTACTCTTTCAGGAAGACC
* * *
189159 AAATCT-AACATAAGAATAATC-ACATCCTCTACGCTT-CGGGGAGATCAGACTCAAGATTGATT
1 AAATCTGAA-ATAAGAAGAATCTGC-TCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATT
**
189221 TGCTTCGCTACTCTTTTGGGAAGACC
64 TGCTTCGCTACTCTTTCAGGAAGACC
** * * * * *
189247 AAATCTGGGATAAGAAGAATCTGCTCCACTACTATTTCGGGGAGCTCAAACTCAAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
*
189312 CTTTGCTACTCTTTCAGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
* ** * * * * *
189336 AAATTTGGTATAAGATGAATCTACTCCACTACTCATCCGGGGAGATCAGACTCAAGTTTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
*
189401 CTTTGCTACTCTTTC-GGAAGGACC
66 CTTCGCTACTCTTTCAGGAA-GACC
** ** * * *
189425 AAAAATGGGATAAGAAGAATCTGCTCCTCTACTCTTCCGAGGAGATCAGACTCGAGATTGATATG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* *
189490 CTTCGCTACTCTTTCGGGAAAACC
66 CTTCGCTACTCTTTCAGGAAGACC
* * * * * *
189514 AAATCTAAAATAAGAAGAATATGTTCCTATACTCTT-CTGGGAGATCA-ACTCGAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * * ** * *
189577 TTTCTCTAATCTTTTGGGAAAATC
66 CTTCGCTACTCTTTCAGGAAGACC
* * * *
189601 AAATTTGAAATAATAAAAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
** * ** * *
189666 CTTATCTAATCTTTTGGGAAAATC
66 CTTCGCTACTCTTTCAGGAAGACC
* * * * * *
189690 AAATCTGAAATAATAAAAATCTGCTCCTCTACTCTTTCGGGGAGATAAGGAAT-GAGATTGATTT
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCA-GACTCAAGATTGATTT
* * *
189754 GCTTCACTACTCTTTTATGAATG-CC
65 GCTTCGCTACTCTTTCAGGAA-GACC
* * * * * * *
189779 AAATTTGAAATAAGAATAATATGCTCCACTACTCTTCCGGAGATATGAGACTCAAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * * *
189844 ATTCACCACTTTTTCAGGAAGACC
66 CTTCGCTACTCTTTCAGGAAGACC
* * * * * ** * *
189868 AAATTTGACATAAAAATAATCTGCTCCACTACTCTTCTAGGGTGATCATACTCAAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* ** * * * *
189933 ATTCG-TTGTTTTTTAGGAAAACT
66 CTTCGCTACTCTTTCAGGAAGACC
* * * * * * *
189956 AAATTTGACAGAAGAAAAATCTGCTCCTCTACGCTTCCGGGGAAATCAGACTTAAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
* * *
190021 CTTCGTTACTCTTTCGGGAAGAAC
66 CTTCGCTACTCTTTCAGGAAGACC
* ** ** * * *
190045 AAATATGGGATAAGAAGAATCTATTCCACTACTCTTTCAGGGAGATCAGACTCAAGATTGATTTG
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
** *
190110 CTTCGCTACTCTTTTGGGAAGGCC
66 CTTCGCTACTCTTTCAGGAAGACC
* ** * *
190134 AAATTTGGGATAAGAAGAATCTACTCCACTACTCTTCCGGGGAGATCAGAC
1 AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGAC
190185 CAAAAATGGG
Statistics
Matches: 2153, Mismatches: 415, Indels: 96
0.81 0.16 0.04
Matches are distributed among these distances:
78 66 0.03
81 3 0.00
82 1 0.00
85 1 0.00
86 6 0.00
87 92 0.04
88 185 0.09
89 1780 0.83
90 19 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (89 bp):
AAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCAAGATTGATTTG
CTTCGCTACTCTTTCAGGAAGACC
Found at i:190294 original size:89 final size:89
Alignment explanation
Indices: 190195--192194 Score: 1817
Period size: 89 Copynumber: 22.5 Consensus size: 89
190185 CAAAAATGGG
* * * * *
190195 ATAAGAAGAATCTACTCCTCTACTCTTCCGAGGAGATCAGACTCAAGATTG-TTATGCTTCACCA
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATT-TGCTTCGCTA
*
190259 CTCTTTCGGGAAGACCAAATCTAAA
65 CTCTTTCGGGAAGACCAAATCTGAA
* * * *
190284 ATAAAAAGAATATGCTCCTCTAGC-CTTCTGGGGAGATCAGACTCGAGATTGATTTGCTTCTCTA
1 ATAAGAAGAATCTGCTCCTCTA-CTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTA
* * * *
190348 ATCTTTTGGGAAAATCAAATCTGAA
65 CTCTTTCGGGAAGACCAAATCTGAA
* * * * * * * *
190373 ATAATAAAAATTTGCTCCTCTACTCCTCCGGGGATATC-GTAATCGAGATTGATTTTCTTCACTA
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAG-ACTCGAGATTGATTTGCTTCGCTA
**** * *
190437 CTCTTTTATAAAGGCCAAATTTGAA
65 CTCTTTCGGGAAGACCAAATCTGAA
* * * * * * *
190462 ATAAGAGGAATCTGCTCCACTACTCTTCCGGAGAGCTGAGACTCGAGATTGATTTGATTCGCCAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * *
190527 TTTTTCAGGAAGACCAAATCTGAC
66 TCTTTCGGGAAGACCAAATCTGAA
* * * * * * ** * *
190551 ATAAAAATAATCTGCTCCACTACTCTTCCAGGGAGATCATACTTGAGATTGATTTAATTCACTAT
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * * * *
190616 TTTTTCAGGAATACTAAATCTGAC
66 TCTTTCGGGAAGACCAAATCTGAA
* * * *
190640 ATAAGAAGAATCTCCTCCTCTACGCTTCTGGGGAGATCAGACTCAAGATTGATTTGCTTCGCTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* **
190705 TCTTTTGGGAAGACCAAATCTGGG
66 TCTTTCGGGAAGACCAAATCTGAA
* * * * * *
190729 ATAAGGAGAATCTGCTTCACTACTCTTTCGGGGAGATCATACT-GAAGATTGATTTGCTTCACTA
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCG-AGATTGATTTGCTTCGCTA
* * **
190793 CTCTTTCAGGAAGACCAAATTTGGG
65 CTCTTTCGGGAAGACCAAATCTGAA
* * * * * * * *
190818 ATAAGAAGAATATACTCCACTACTCATCTGGGGAGATCAGACTCAAGTTTGATTTGCTTTGCTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
** **
190883 TCTTTC-GGAATGACCAAAAATGGG
66 TCTTTCGGGAA-GACCAAATCTGAA
* * *
190907 ATAAGAAGAATCTGCTCCTCTACTCTTCCGAGGAGATCAGACTCGAGATTGATATGCTTTGCTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * * *
190972 TCTTTTGAGAAAACCAAATCTAAA
66 TCTTTCGGGAAGACCAAATCTGAA
* * * * * *
190996 ATAAGAAGAATATACTCCTCTACTCTTCTGGGGAGATCAGACTCGAGATTGATTTGTTTCTCTAA
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * * *
191061 TCTTTTGGGAAAATCAAATTTGAA
66 TCTTTCGGGAAGACCAAATCTGAA
* * * * * * *** *
191085 ATAATAAAAATATGCTCATCTACTCTTCCAGGGAGATCACACTCGAGATTGATTTGCTTATATAA
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * *
191150 TCTTTTGGGAAAATCAAATCTGAA
66 TCTTTCGGGAAGACCAAATCTGAA
* * *
191174 ATAATAAAAATCTGCTCCTCTACTCTTCCGGGGAGATCAGAC-CTGAGATTGATTTGCTTCACTA
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTC-GAGATTGATTTGCTTCGCTA
*** * *
191238 CTCTTTTATGAAGGCCAAATTTGAA
65 CTCTTTCGGGAAGACCAAATCTGAA
* * * * * * * *
191263 ATAAGAATAATATGCTCCACTACTCTTCCGGAGAGATGAGACTCAAGATTGATTTGATTCACTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * * *
191328 TTTTTCAGGAAGACCAAATTTGAC
66 TCTTTCGGGAAGACCAAATCTGAA
* * * ** * * * * **
191352 ATAAAAATAATCTGCTCCACTACTCTTCTAGGGTGATCATACTCGAGATTGATTTGATTAG-TTG
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * * *
191416 T-TTTCTTAGGAAAACTAAATCTGAC
66 TCTTTC--GGGAAGACCAAATCTGAA
* * * * ** *
191441 ATAAAAAAAATCTGGTCCTCTA-TGCTT-CGGGGAAATCAGACTTAAGATTGATTTACTTCGCTA
1 ATAAGAAGAATCTGCTCCTCTACT-CTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTA
** * **
191504 CTCTTTCATGAAGACCAAATATGGG
65 CTCTTTCGGGAAGACCAAATCTGAA
* * * * *
191529 ATAAGAAGAATCTGCTCCACTACTCTTTCAGGTAGATCAGACTCAAGATTGATTTGCTTCGCTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * **
191594 TCTTTTGGGAAGACCAAATTTGGG
66 TCTTTCGGGAAGACCAAATCTGAA
* * * * * *
191618 ATAAGAAGAATCTACTCCACTACTCTTCCGGGGAGATCAGACTCAAGTTTGATTTGCTTTGCTAT
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* **
191683 TCTTTCGGGAAGACCAAATATGGG
66 TCTTTCGGGAAGACCAAATCTGAA
* * * * * * * *
191707 ATAACAAGAATTTACTCCTCTACTCTTCCGGGGAGATGAGTCTCGAGATTGATATGCTTCACTCC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
*
191772 TCTTTCGGGAAGACCAAATCTAAA
66 TCTTTCGGGAAGACCAAATCTGAA
* * * ** * * * *
191796 ATAAGAAGAATATGTTCCTCTACTTTTCTAGGGAGATTAGACTTGAGACTGATTTGTTTCGCTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* *
191861 TCTTTCAGGAAGACCAAATCTGAG
66 TCTTTCGGGAAGACCAAATCTGAA
* * ** *
191885 ATAAGAAGAATCTACTCCACTACTCTTATGGGGAGATCAGACTCGAGATTGATTTGCTTCTCTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* **
191950 TCTTTCGTGAAGACCAAATCTGGG
66 TCTTTCGGGAAGACCAAATCTGAA
* * * * *
191974 ATAAAAAGAATATGCTCCTCTACTATTCCGAGGAGATCAGACTCGAGATTGATTTTCTTCGCTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
*
192039 TCTTTCGGGAAGACCAAGTCTGAA
66 TCTTTCGGGAAGACCAAATCTGAA
* * * * * * *
192063 ATAA-AAGAGTATGATCCTCTACTTTTTCGGGGATATCAGACTTGAGATTGATTTGCTTCGCTAC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
* * * *
192127 TCTTTCGTGAAGGCCAAATGTTAA
66 TCTTTCGGGAAGACCAAATCTGAA
* * *
192151 ATAAGAAGAATATGTTCCTCTACTCTTTCGGGGAGATCAGACTC
1 ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTC
192195 AAGAAAAATT
Statistics
Matches: 1569, Mismatches: 323, Indels: 38
0.81 0.17 0.02
Matches are distributed among these distances:
87 4 0.00
88 141 0.09
89 1412 0.90
90 12 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (89 bp):
ATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTAC
TCTTTCGGGAAGACCAAATCTGAA
Found at i:190317 original size:141 final size:141
Alignment explanation
Indices: 190044--190325 Score: 363
Period size: 141 Copynumber: 2.0 Consensus size: 141
190034 TCGGGAAGAA
* * *
190044 CAAATATGGGATAAGAAGAATCTATTCCACTACTCTTTCAGGGAGATCAGACTCAAGATTGATTT
1 CAAAAATGGGATAAGAAGAATCTACTCCACTACTCTTCCAGGGAGATCAGACTCAAGATTGATTT
* * * * * *** * *
190109 GCTTCGCTACTCTTTTGGGAAGGCCAAATTTGGGATAAGAAGAATCTACTCCACTACTCTTCCGG
66 GCTTCACCACTCTTTCGGGAAGACCAAATCTAAAATAAAAAGAATATACTCCACTACTCTTCCGG
190174 GGAGATCAGAC
131 GGAGATCAGAC
*
190185 CAAAAATGGGATAAGAAGAATCTACTCCTCTACTCTTCC-GAGGAGATCAGACTCAAGATTG-TT
1 CAAAAATGGGATAAGAAGAATCTACTCCACTACTCTTCCAG-GGAGATCAGACTCAAGATTGATT
* *
190248 ATGCTTCACCACTCTTTCGGGAAGACCAAATCTAAAATAAAAAGAATATGCTCCTCTAGC-CTTC
65 -TGCTTCACCACTCTTTCGGGAAGACCAAATCTAAAATAAAAAGAATATACTCCACTA-CTCTTC
*
190312 TGGGGAGATCAGAC
128 CGGGGAGATCAGAC
190326 TCGAGATTGA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
140 3 0.02
141 117 0.97
142 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (141 bp):
CAAAAATGGGATAAGAAGAATCTACTCCACTACTCTTCCAGGGAGATCAGACTCAAGATTGATTT
GCTTCACCACTCTTTCGGGAAGACCAAATCTAAAATAAAAAGAATATACTCCACTACTCTTCCGG
GGAGATCAGAC
Found at i:190405 original size:230 final size:230
Alignment explanation
Indices: 189967--190406 Score: 517
Period size: 230 Copynumber: 1.9 Consensus size: 230
189957 AATTTGACAG
* * * ***
189967 AAGAAAAATCTGCTCCTCTACGCTTCCGGGGAAATCAGACTTAAGATTGATTTGCTTCGTTACTC
1 AAGAAAAATCTACTCCTCTACGCTTCCGAGGAAATCAGACTCAAGATTGATTTGCTTCACCACTC
*** * * *
190032 TTTCGGGAAGAACAAATATGGGATAAGAAGAATCTATTCCACTACTCTTTCAGGGAGATCAGACT
66 TTTCGGGAAGAACAAATATAAAATAAAAAGAATATACTCCACTACTCTTTCAGGGAGATCAGACT
* ** * ** *
190097 CAAGATTGATTTGCTTCGCTACTCTTTTGGGAAGGCCAAATTTGGGATAAGAAGAATCTACTCCA
131 CAAGATTGATTTGCTTCGCTAATCTTTTGGGAAAACCAAATCTGAAATAAGAAAAATCTACTCCA
*
190162 CTACTCTTCCGGGGAGATCAGACCAAAAATGGGAT
196 CTACTCCTCCGGGGAGATCAGACCAAAAATGGGAT
* * *
190197 AAGAAGAATCTACTCCTCTACTCTTCCGAGGAGATCAGACTCAAGATTG-TTATGCTTCACCACT
1 AAGAAAAATCTACTCCTCTACGCTTCCGAGGAAATCAGACTCAAGATTGATT-TGCTTCACCACT
* * * * *
190261 CTTTCGGGAAGACCAAATCTAAAATAAAAAGAATATGCTCCTCTAGC-C-TTCTGGGGAGATCAG
65 CTTTCGGGAAGAACAAATATAAAATAAAAAGAATATACTCCACTA-CTCTTTC-AGGGAGATCAG
* * * * * *
190324 ACTCGAGATTGATTTGCTTCTCTAATCTTTTGGGAAAATCAAATCTGAAATAATAAAAATTTGCT
128 ACTCAAGATTGATTTGCTTCGCTAATCTTTTGGGAAAACCAAATCTGAAATAAGAAAAATCTACT
*
190389 CCTCTACTCCTCCGGGGA
193 CCACTACTCCTCCGGGGA
190407 TATCGTAATC
Statistics
Matches: 172, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
229 5 0.03
230 166 0.97
231 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (230 bp):
AAGAAAAATCTACTCCTCTACGCTTCCGAGGAAATCAGACTCAAGATTGATTTGCTTCACCACTC
TTTCGGGAAGAACAAATATAAAATAAAAAGAATATACTCCACTACTCTTTCAGGGAGATCAGACT
CAAGATTGATTTGCTTCGCTAATCTTTTGGGAAAACCAAATCTGAAATAAGAAAAATCTACTCCA
CTACTCCTCCGGGGAGATCAGACCAAAAATGGGAT
Found at i:202260 original size:2 final size:2
Alignment explanation
Indices: 202253--202282 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
202243 CTCCCCATAA
202253 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
202283 TGCAATTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:204072 original size:24 final size:24
Alignment explanation
Indices: 204037--204098 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
204027 TCCAACTTGC
*
204037 TTTGTAACTGGGCCTAC-AGTTTGT
1 TTTGTAAATGGGCCT-CTAGTTTGT
*
204061 TTTGTAAATGGGACTCTAGTTTGT
1 TTTGTAAATGGGCCTCTAGTTTGT
*
204085 TTTCTAAATTGGGC
1 TTTGTAAA-TGGGC
204099 TTCAGGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.84
25 4 0.12
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.44
Consensus pattern (24 bp):
TTTGTAAATGGGCCTCTAGTTTGT
Found at i:209376 original size:21 final size:21
Alignment explanation
Indices: 209352--209395 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
209342 AGGTCTCGTG
209352 CTAT-TCGTGATCATCTGAATC
1 CTATATCG-GATCATCTGAATC
* *
209373 CTATATTGGATGATCTGAATC
1 CTATATCGGATCATCTGAATC
209394 CT
1 CT
209396 GGAATTATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (21 bp):
CTATATCGGATCATCTGAATC
Found at i:221669 original size:24 final size:23
Alignment explanation
Indices: 221628--221681 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
221618 ACTTTTAGGG
* *
221628 ATTTTTTTTAATTTTTTATATTT
1 ATTTTTTTGAATTATTTATATTT
221651 ATTTTTTTGAATATATTTATATTT
1 ATTTTTTTGAAT-TATTTATATTT
*
221675 ATATTTT
1 ATTTTTT
221682 ATATTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTTTTTTGAATTATTTATATTT
Found at i:221911 original size:29 final size:29
Alignment explanation
Indices: 221877--221961 Score: 71
Period size: 31 Copynumber: 2.9 Consensus size: 29
221867 TGAGACCTCA
221877 GACTATTGAAAGTTACAAAATGGTCCATC
1 GACTATTGAAAGTTACAAAATGGTCCATC
* * * **** *
221906 GACTATAGAGAGTTGCTTTGTTGAGTCCCTC
1 GACTATTGAAAGTTAC-AAAATG-GTCCATC
*
221937 GACTATTTAAAGTTACAAAATGGTC
1 GACTATTGAAAGTTACAAAATGGTC
221962 ACCTGACTAT
Statistics
Matches: 38, Mismatches: 16, Indels: 4
0.66 0.28 0.07
Matches are distributed among these distances:
29 16 0.42
30 4 0.11
31 18 0.47
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (29 bp):
GACTATTGAAAGTTACAAAATGGTCCATC
Found at i:226772 original size:17 final size:18
Alignment explanation
Indices: 226750--226791 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
226740 CCCCAAAAGG
*
226750 AGGATAA-TTAGATTTTA
1 AGGATAATTTAGATTCTA
226767 AGGATAATTTAGATTCTA
1 AGGATAATTTAGATTCTA
*
226785 ACGATAA
1 AGGATAA
226792 GAGATAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (18 bp):
AGGATAATTTAGATTCTA
Found at i:233349 original size:16 final size:16
Alignment explanation
Indices: 233306--233349 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
233296 GCTTGACTTA
*
233306 TTGCTCGTTAAATTCG
1 TTGCTCGTTAAGTTCG
* *
233322 TTGCTTGTTAAGTTTG
1 TTGCTCGTTAAGTTCG
*
233338 TTGCTCATTAAG
1 TTGCTCGTTAAG
233350 CGCATTGCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.48
Consensus pattern (16 bp):
TTGCTCGTTAAGTTCG
Found at i:242394 original size:15 final size:15
Alignment explanation
Indices: 242374--242408 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
242364 TTAGTAGGAG
242374 CTCCACCAATCTGTC
1 CTCCACCAATCTGTC
242389 CTCCACCAATCTGTC
1 CTCCACCAATCTGTC
*
242404 ATCCA
1 CTCCA
242409 AAAATTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.46, G:0.06, T:0.26
Consensus pattern (15 bp):
CTCCACCAATCTGTC
Found at i:244518 original size:129 final size:129
Alignment explanation
Indices: 244274--244532 Score: 326
Period size: 128 Copynumber: 2.0 Consensus size: 129
244264 ATGCATGTTT
* * ** * *
244274 GGGTTTGACTGATAATTTGGAGGCTTTCGAGTTTGAATTTGGAAAAACATACTTCGGAATCAGAT
1 GGGTTTGACTGACAATTTCGAGGCTTTCGAGTTCAAATTTGGAAAAACAGACTTCGGAATCAGAC
*
244339 TCAGAACATCGAAAAACATAAAATATGACTTTTCGAAAAAAGTGACTTTTTTGTCAAAGTCAAC
66 TCAGAACATCGAAAAACATAAAATATGACTTTTCGAAAAAAGTGACTTTTTTGTCAAACTCAAC
* *
244403 GGGTTTGACTGACAATTTCGAGGCTTTCGGGTTCAAATTTGG-AAAACGGACTTCGGAATC-GAA
1 GGGTTTGACTGACAATTTCGAGGCTTTCGAGTTCAAATTTGGAAAAACAGACTTCGGAATCAG-A
* * * * * ***
244466 CTCAGGACGTC-AAACAATATAAAATATGATTTTTTGAAAATTTTGACTTTTTTGTCAAACTCAA
65 CTCAGAACATCGAAA-AACATAAAATATGACTTTTCGAAAAAAGTGACTTTTTTGTCAAACTCAA
244530 C
129 C
244531 GG
1 GG
244533 TCAAAGTCAA
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
127 4 0.04
128 70 0.63
129 37 0.33
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (129 bp):
GGGTTTGACTGACAATTTCGAGGCTTTCGAGTTCAAATTTGGAAAAACAGACTTCGGAATCAGAC
TCAGAACATCGAAAAACATAAAATATGACTTTTCGAAAAAAGTGACTTTTTTGTCAAACTCAAC
Found at i:244575 original size:13 final size:13
Alignment explanation
Indices: 244557--244617 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
244547 AAACGGTCAA
*
244557 CGGGTCAGGCGGT
1 CGGGTCAGGCAGT
* *
244570 CGGGTCGGGTAGT
1 CGGGTCAGGCAGT
*
244583 CGGGTCAGGCAAT
1 CGGGTCAGGCAGT
244596 CGGGTC-GGACAGT
1 CGGGTCAGG-CAGT
244609 CGGGTCAGG
1 CGGGTCAGG
244618 TCGGATCGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
12 2 0.05
13 35 0.90
14 2 0.05
ACGTcount: A:0.13, C:0.21, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCAGGCAGT
Found at i:244587 original size:26 final size:26
Alignment explanation
Indices: 244557--244626 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
244547 AAACGGTCAA
**
244557 CGGGTCAGGCGGTCGGGTCGGGTAGT
1 CGGGTCAGGCGGTCGGGTCGGACAGT
**
244583 CGGGTCAGGCAATCGGGTCGGACAGT
1 CGGGTCAGGCGGTCGGGTCGGACAGT
244609 CGGGTCAGGTCGGATCGG
1 CGGGTCAGG-CGG-TCGG
244627 TCAAACCGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
26 31 0.86
27 1 0.03
28 4 0.11
ACGTcount: A:0.13, C:0.21, G:0.49, T:0.17
Consensus pattern (26 bp):
CGGGTCAGGCGGTCGGGTCGGACAGT
Found at i:245872 original size:60 final size:60
Alignment explanation
Indices: 245795--245920 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
245785 ATAGTACATC
* * * **
245795 GACTATAGAGTGATGCTTTGTTGAGTCC-CTTGACTATTAAAAGTTACAAAATTGTTTCTT
1 GACTATAGAGTGATGCTTCGTTGAGTCCAC-CGACTATTAAAAGTTACAAAATGGTCACTT
* *
245855 GACTATAG-GATGTTGCTTCGTTGAGTCCACCGACTATTAAAATTTACAAAATGGTCACTT
1 GACTATAGAG-TGATGCTTCGTTGAGTCCACCGACTATTAAAAGTTACAAAATGGTCACTT
245915 GACTAT
1 GACTAT
245921 TTAGTATGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 1 0.02
60 55 0.96
61 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (60 bp):
GACTATAGAGTGATGCTTCGTTGAGTCCACCGACTATTAAAAGTTACAAAATGGTCACTT
Found at i:246208 original size:60 final size:60
Alignment explanation
Indices: 246125--246261 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
246115 ATAGTTAGTT
* * * *
246125 GACCATTTCGTAACTGTTAATAGTCTG-GGGACTCAACAAAGCAA-CACCCTATAGTTGGAG
1 GACCATTTTGTAACTTTTAATAGTC-GAGGGACTCAACAAAG-AATCACCCTATAATCGGAG
* *
246185 GATCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGAATCATCCTATAATCGGAG
1 GACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGAATCACCCTATAATCGGAG
246245 GACCATTTGTGT-ACTTT
1 GACCATTT-TGTAACTTT
246262 ACCCTAAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
59 3 0.04
60 61 0.91
61 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGAATCACCCTATAATCGGAG
Found at i:246453 original size:21 final size:21
Alignment explanation
Indices: 246429--246475 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
246419 TTAAAATTTT
246429 TAAAA-ATATATTTATCATTAA
1 TAAAATATATATTTAT-ATTAA
*
246450 TAAAATATATTTTTATATTAA
1 TAAAATATATATTTATATTAA
246471 -AAAAT
1 TAAAAT
246476 GATTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
21 10 0.42
22 9 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAATATATATTTATATTAA
Found at i:246483 original size:21 final size:20
Alignment explanation
Indices: 246430--246496 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
246420 TAAAATTTTT
246430 AAAAATATA--TTTATCATTA
1 AAAAATATATTTTTAT-ATTA
246449 ATAAAATATATTTTTATATTA
1 A-AAAATATATTTTTATATTA
*
246470 AAAAATGAT-TTTTTAATATAA
1 AAAAAT-ATATTTTT-ATATTA
246491 AAAAAT
1 AAAAAT
246497 TAGTACTCGT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 1 0.02
20 18 0.43
21 18 0.43
22 5 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
AAAAATATATTTTTATATTA
Found at i:246492 original size:18 final size:20
Alignment explanation
Indices: 246429--246492 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 20
246419 TTAAAATTTT
*
246429 TAAAA-ATATATTTATCATTAA
1 TAAAATATATTTTTAT-ATT-A
246450 TAAAATATATTTTTATATTA
1 TAAAATATATTTTTATATTA
*
246470 -AAAA-ATGATTTTT-TAATA
1 TAAAATAT-ATTTTTATATTA
246488 TAAAA
1 TAAAA
246493 AAATTAGTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 6 0.16
19 14 0.37
20 1 0.03
21 8 0.21
22 9 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAATATATTTTTATATTA
Found at i:248876 original size:6 final size:6
Alignment explanation
Indices: 248865--248892 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
248855 AGCAACATGC
248865 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
248893 GTAAGACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:250520 original size:3 final size:3
Alignment explanation
Indices: 250512--250563 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
250502 CACAAATAGA
* *
250512 AAT AAT AAT AAT AA- AAA AAT -AT AAT AA- AA- AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
250556 AAT AAT AA
1 AAT AAT AA
250564 AAAAACTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
2 8 0.19
3 35 0.81
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Done.