Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004578.1 Hibiscus syriacus cultivar Beakdansim tig00010204_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: 1248949
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:1917 original size:22 final size:22
Alignment explanation
Indices: 1892--1935 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1882 GAAAGATTAA
*
1892 TTTTATTCATGATTGTTGTTTT
1 TTTTATTCATGATTATTGTTTT
1914 TTTTATTCATGATTATTGTTTT
1 TTTTATTCATGATTATTGTTTT
1936 CTCGTTGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (22 bp):
TTTTATTCATGATTATTGTTTT
Found at i:2402 original size:2 final size:2
Alignment explanation
Indices: 2395--2432 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
2385 CTTAGATTAG
2395 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
2433 GATTCTCCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5309 original size:20 final size:16
Alignment explanation
Indices: 5260--5299 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
5250 ATAACGACGA
5260 AACCAGAGAAATCCAC
1 AACCAGAGAAATCCAC
5276 AACCAGAGAAATCCAC
1 AACCAGAGAAATCCAC
5292 AACCAGAG
1 AACCAGAG
5300 TCTAAAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.30, G:0.15, T:0.05
Consensus pattern (16 bp):
AACCAGAGAAATCCAC
Found at i:18248 original size:8 final size:8
Alignment explanation
Indices: 18237--18285 Score: 52
Period size: 7 Copynumber: 6.5 Consensus size: 8
18227 AAAATGAGTG
18237 AAAATGAA
1 AAAATGAA
18245 AAAAT-AA
1 AAAATGAA
18252 AAAA--AA
1 AAAATGAA
*
18258 AAAA-AAA
1 AAAATGAA
18265 AAAATGAA
1 AAAATGAA
18273 AAAATGGAA
1 AAAAT-GAA
18282 AAAA
1 AAAA
18286 GAAGGGTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
6 6 0.16
7 12 0.32
8 12 0.32
9 7 0.19
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (8 bp):
AAAATGAA
Found at i:19258 original size:55 final size:55
Alignment explanation
Indices: 19189--19948 Score: 872
Period size: 55 Copynumber: 13.9 Consensus size: 55
19179 AGGTTTCCCA
*
19189 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
19244 ACGATGGTTGAAGATTGTTCGAGTCTCATACTCTCTTAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
19299 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
19354 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
19409 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
19464 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGCATAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
19519 ACGACTGTTGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
19574 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * *
19629 ACGATTGATGAAGATTCTTCAAGT-TCCATACTCCCT-AGAGAAAGAGGGAGC-GA-
1 ACGATTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGA-AGAAATAGGGAGCAGAC
* * * * *
19682 ACCCA--GTTGAAGA-TGTTCGAGT-TCCATACTC-CTTAAAGAAAGAAGGAGC-GAAC
1 A-CGATTGTTGAAGATTGTTCGAGTCT-TATACTCTC-TGAAGAAATAGGGAGCAG-AC
* * * * *
19735 CCG--T-TTGAAGAGATGTTCGAGT-TCCATACTCCCT-AGAGAAATAGGGAAC-GA-
1 ACGATTGTTGAAGA-TTGTTCGAGTCT-TATACTCTCTGA-AGAAATAGGGAGCAGAC
* *
19786 ACCCATTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 A-CGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
19843 GCGATCGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGAAATAGGGGGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
19898 AAGTTTGTTGAAGA-TGATTCAAGTCTTATACTCTCTGAAGAAATAGGGAGC
1 ACGATTGTTGAAGATTG-TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGC
19949 GAACCCATTT
Statistics
Matches: 618, Mismatches: 65, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
50 1 0.00
51 37 0.06
52 13 0.02
53 31 0.05
54 9 0.01
55 514 0.83
56 13 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:19713 original size:51 final size:51
Alignment explanation
Indices: 19650--19811 Score: 209
Period size: 53 Copynumber: 3.1 Consensus size: 51
19640 AGATTCTTCA
19650 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCAGTTGAAGATGTTCG
1 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCAGTTGAAGATGTTCG
* * *
19701 AGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGAGATGTTCG
1 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCAG-TTG-A-AGATGTTCG
* *
19754 AGTTCCATACTCCCTAGAGAAATAGGGAACGAACCCATTTGTTGAAGATTGTTCG
1 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCA---GTTGAAGA-TGTTCG
19809 AGT
1 AGT
19812 CTTATACTCT
Statistics
Matches: 95, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
50 1 0.01
51 36 0.38
52 1 0.01
53 40 0.42
54 3 0.03
55 10 0.11
56 3 0.03
57 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (51 bp):
AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCAGTTGAAGATGTTCG
Found at i:19992 original size:56 final size:54
Alignment explanation
Indices: 19637--20081 Score: 190
Period size: 55 Copynumber: 8.2 Consensus size: 54
19627 ACACGATTGA
* * *
19637 TGAAGATTCTTC-AAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCA--GT-
1 TGAAGATT-TTCGAA-TTCTATACTCCCTGA-AGAAATAGGGAGCGAACCCATTTTC
* * * * * * * * **
19689 TGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA
1 TGAAGATTTTCGAATTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTTTC
* * * * *
19743 AG-AGATGTTCGAGTTCCATACTCCCT-AGAGAAATAGGGAACGAACCCATTTGT-
1 TGAAGATTTTCGAATTCTATACTCCCTGA-AGAAATAGGGAGCGAACCCATTT-TC
* * * * **
19796 TGAAGATTGTTCG-AGTCTTATACTCTCTGAAGAAATAGGGGGC-AGACGCGATCGT-
1 TGAAGATT-TTCGAATTC-TATACTCCCTGAAGAAATAGGGAGCGA-AC-CCATTTTC
* * * * *
19851 TGAAGATTGTTCGAGTCCTATACTCTCTGAAGAAATAGGGGGC-AGA-CAAGTTTGT-
1 TGAAGATT-TTCGAATTCTATACTCCCTGAAGAAATAGGGAGCGA-ACCCA-TTT-TC
* * *
19906 TGAAGATGATTC-AAGTCTTATACTCTCTGAAGAAATAGGGAGCGAACCCATTTTTC
1 TGAAGAT-TTTCGAATTC-TATACTCCCTGAAGAAATAGGGAGCGAACCCA-TTTTC
* * *
19962 TGAAGATTTATTGAATTCTATACTCCCTGAA-AAGGACTAGAGAGCTG-ACGCGATTTT-
1 TGAAGATTT-TCGAATTCTATACTCCCTGAAGAA--A-TAGGGAGC-GAAC-CCATTTTC
* * * * *
20019 TGAAGATGTTCGAGTTCTATTCT-CCTGGAGAAAGAGGGAGCGAACCCATTTTC
1 TGAAGATTTTCGAATTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTTTC
*
20072 AGAAGATTTT
1 TGAAGATTTT
20082 TTTTTTTTTT
Statistics
Matches: 308, Mismatches: 54, Indels: 61
0.73 0.13 0.14
Matches are distributed among these distances:
51 33 0.11
52 17 0.06
53 61 0.20
54 12 0.04
55 112 0.36
56 44 0.14
57 13 0.04
58 13 0.04
59 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (54 bp):
TGAAGATTTTCGAATTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTTTC
Found at i:21085 original size:20 final size:16
Alignment explanation
Indices: 21036--21075 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
21026 ATAACGACGA
21036 AACCAGAGAAATCCAC
1 AACCAGAGAAATCCAC
21052 AACCAGAGAAATCCAC
1 AACCAGAGAAATCCAC
21068 AACCAGAG
1 AACCAGAG
21076 TCTAAAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.30, G:0.15, T:0.05
Consensus pattern (16 bp):
AACCAGAGAAATCCAC
Found at i:24691 original size:43 final size:41
Alignment explanation
Indices: 24548--24711 Score: 154
Period size: 41 Copynumber: 3.9 Consensus size: 41
24538 TTTCAATTAT
* * * *
24548 ACTTTTTATTTTTATAATTGAGTTCTTTAATTTTTTAATTTT
1 ACTTTTTATCTTTATAATTGAG-TCTCTAATTTTTTAATATC
* * *
24590 AATTTTT-TCTTTATAATTGAAGTCTCTAA-TTTGTAATCTC
1 ACTTTTTATCTTTATAATTG-AGTCTCTAATTTTTTAATATC
* *
24630 ATTTTTTATCTTTATAATTGATGCCTCTAATTTTTTCAATATC
1 ACTTTTTATCTTTATAATTGA-GTCTCTAATTTTTT-AATATC
* *
24673 ACTTTTTACCTTTATAATTGAGGTC-CGTAATTTTATAAT
1 ACTTTTTATCTTTATAATTGA-GTCTC-TAATTTTTTAAT
24712 TTTTCTAAGA
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
40 15 0.15
41 36 0.36
42 16 0.16
43 34 0.34
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (41 bp):
ACTTTTTATCTTTATAATTGAGTCTCTAATTTTTTAATATC
Found at i:31767 original size:91 final size:90
Alignment explanation
Indices: 31603--31932 Score: 473
Period size: 91 Copynumber: 3.6 Consensus size: 90
31593 GAGCCAAAAG
* **
31603 GAACAAGTTCTTCTCATTATGAACTTCTCCTCTTTCA-TGGATGAGTTATTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTATTCTCATTATGAACTC
* ** *
31667 TTCGTTGGAAATACTGAGCTAAGGTT
66 TCCACTGGAAAT-CTGAGCCAAGGTT
*
31693 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTATTCTCATTATGAACTC
*
31758 TCCACTGGAAATGTTGAGCCAAGGTT
66 TCCACTGGAAAT-CTGAGCCAAGGTT
* * *
31784 GAACAAGTTCTTCTCATTATGAACTTCTTCCCCCTCGTTGGATGTGTTATTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTATTCTCATTATGAACTC
* *
31849 TCCACTGGAAATCTTGAACCAAGGGT
66 TCCACTGGAAATC-TGAGCCAAGGTT
* * *
31875 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTA
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTATTCTCATTA
31933 GAAATACTGA
Statistics
Matches: 217, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
90 34 0.16
91 183 0.84
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (90 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTATTCTCATTATGAACTC
TCCACTGGAAATCTGAGCCAAGGTT
Found at i:31909 original size:182 final size:182
Alignment explanation
Indices: 31603--32302 Score: 905
Period size: 182 Copynumber: 3.9 Consensus size: 182
31593 GAGCCAAAAG
** *
31603 GAACAAGTTCTTCTCATTATGAACTTC-TCCTCTTTC-ATGGATGAGTTATTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCC-CCCTCGTTGGATGAGTTATTCTCATTATGAACT
* ** * *
31666 CTTCGTTGGAAATACTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
65 CTCCACTGGAAATACTGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
* * *
31731 TGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGAGCCAAGGTT
130 TGGACGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCTAAGGTT
*
31784 GAACAAGTTCTTCTCATTATGAACTTCTTCCCCCTCGTTGGATGTGTTATTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCCCCCTCGTTGGATGAGTTATTCTCATTATGAACTC
* *
31849 TCCACTGGAAAT-CTTGAACCAAGGGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGT
66 TCCACTGGAAATAC-TGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
31913 TGGACGAGTTCTTCTCATTA-GAA------A-T----A--CTGAGCTAAGGTT
130 TGGACGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCTAAGGTT
* * * * * * *
31952 GATCATGTTCTTCTCATTACGAACTTATTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCCCCCTCGTTGGATGAGTTATTCTCATTATGAACTC
* * * * **
32017 TCAACTGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCTTTCATT
66 TCCACTGGAAATACTGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATT
*
32082 GGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCTAAGGTT
131 GGACGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCTAAGGTT
* * *
32134 GAACAAGTTCTTCTCATTATGAACTTGTCCCCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCCCCCTCGTTGGATGAGTTATTCTCATTATGAACTC
* * * * *
32199 TTCACTAGAAAT-CTTGTACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCGT
66 TCCACTGGAAATAC-TGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
* *
32263 AGGACGAGTTCTTCTCATTATGAACTCTCCACTGGCAATG
130 TGGACGAGTTCTTCTCATTATGAACTCTCCACTGGAAATG
32303 TTGATCGGTT
Statistics
Matches: 452, Mismatches: 48, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
168 142 0.31
169 4 0.01
170 1 0.00
174 1 0.00
175 2 0.00
176 1 0.00
180 1 0.00
181 35 0.08
182 265 0.59
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (182 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCCCCCTCGTTGGATGAGTTATTCTCATTATGAACTC
TCCACTGGAAATACTGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATT
GGACGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCTAAGGTT
Found at i:32015 original size:39 final size:39
Alignment explanation
Indices: 31880--32015 Score: 120
Period size: 39 Copynumber: 3.5 Consensus size: 39
31870 AGGGTGAACA
* * *
31880 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACG
1 AGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATG
* ** * *
31919 AGTTCTTCTCATTA-GAA---ATACTGAGCTAAGGTT-GATC
1 AGTTCTTCTCATTATGAACTTATTCT-CCCTCA--TTGGATG
*
31956 ATGTTCTTCTCATTACGAACTTATTCTCCCTCATTGGATG
1 A-GTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATG
31996 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
32016 CTCAACTGGA
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
35 3 0.04
36 2 0.03
37 3 0.04
38 18 0.24
39 37 0.50
40 4 0.05
41 3 0.04
42 4 0.05
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATG
Found at i:32088 original size:91 final size:91
Alignment explanation
Indices: 31933--32302 Score: 519
Period size: 91 Copynumber: 4.1 Consensus size: 91
31923 CTTCTCATTA
* * * * *
31933 GAAATACTGAGCTAAGGTTGATCATGTTCTTCTCATTACGAACTTATTCTCCCTCATTGGATGAG
1 GAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATGAG
*
31998 TTCTTCTCATTATGAACTCTCAACTG
66 TTCTTCTCATTATGAACTCTCCACTG
**
32024 GAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCTTTCATTGGATGAG
1 GAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATGAG
32089 TTCTTCTCATTATGAACTCTCCACTG
66 TTCTTCTCATTATGAACTCTCCACTG
* * * * *
32115 GAAATGCTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTGTCCCCCCTCGTTGGATGAG
1 GAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATGAG
* *
32180 TTCTTCTCATTATGAACTCTTCACTA
66 TTCTTCTCATTATGAACTCTCCACTG
* * * * *
32206 GAAAT-CTTGTA-CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCGTAGGACG
1 GAAATGC-TG-AGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATG
32269 AGTTCTTCTCATTATGAACTCTCCACTG
64 AGTTCTTCTCATTATGAACTCTCCACTG
*
32297 GCAATG
1 GAAATG
32303 TTGATCGGTT
Statistics
Matches: 249, Mismatches: 27, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
90 1 0.00
91 247 0.99
92 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (91 bp):
GAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATGAG
TTCTTCTCATTATGAACTCTCCACTG
Found at i:32139 original size:259 final size:259
Alignment explanation
Indices: 31674--32302 Score: 846
Period size: 259 Copynumber: 2.4 Consensus size: 259
31664 CTCTTCGTTG
* *
31674 GAAATACTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAG
1 GAAATACTGAGCTAAGGTTGAACAAGTTCTTCTCATTACGAACTTATTCTCCCTCATTGGATGAG
* *
31739 TTCTTCTCATTATGAACTCTCCACTGGAAATGTTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
66 TTCTTCTCATTATGAACTCTCAACTGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
* * *
31804 GAACTTCTTCCCCCTCGTTGGATGTGTTATTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
131 GAACTTATTCCCCCTCATTGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
* *
31869 AAGGGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTA
196 AAGGGTGAACAAGTTCTTCTCATTATGAACTTCTCCCCCCTCGTTGGACGAGTTCTTCTCATTA
* *
31933 GAAATACTGAGCTAAGGTTGATCATGTTCTTCTCATTACGAACTTATTCTCCCTCATTGGATGAG
1 GAAATACTGAGCTAAGGTTGAACAAGTTCTTCTCATTACGAACTTATTCTCCCTCATTGGATGAG
31998 TTCTTCTCATTATGAACTCTCAACTGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
66 TTCTTCTCATTATGAACTCTCAACTGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
* ** * *
32063 GAACTTATTCTCTTTCATTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGC-TGAGC
131 GAACTTATTCCCCCTCATTGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAAT-CTTGAAC
* * * *
32127 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTGTCCCCCCTCGTTGGATGAGTTCTTCTCATTA
195 CAAGGGTGAACAAGTTCTTCTCATTATGAACTTCTCCCCCCTCGTTGGACGAGTTCTTCTCATTA
* * * *
32192 TGAACTCTTCACTAGAAATCTTGTACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
1 -GAA---AT-ACT-G--A----G--CTAAGGTTGAACAAGTTCTTCTCATTACGAACTTATTCTC
* * * * * *
32257 CTTCGTAGGACGAGTTCTTCTCATTATGAACTCTCCACTGGCAATG
52 CCTCATTGGATGAGTTCTTCTCATTATGAACTCTCAACTGGAAATG
32303 TTGATCGGTT
Statistics
Matches: 323, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
259 237 0.73
260 4 0.01
263 1 0.00
264 3 0.01
265 1 0.00
267 1 0.00
271 1 0.00
273 75 0.23
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (259 bp):
GAAATACTGAGCTAAGGTTGAACAAGTTCTTCTCATTACGAACTTATTCTCCCTCATTGGATGAG
TTCTTCTCATTATGAACTCTCAACTGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
GAACTTATTCCCCCTCATTGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
AAGGGTGAACAAGTTCTTCTCATTATGAACTTCTCCCCCCTCGTTGGACGAGTTCTTCTCATTA
Found at i:32281 original size:350 final size:349
Alignment explanation
Indices: 31609--32282 Score: 1098
Period size: 350 Copynumber: 1.9 Consensus size: 349
31599 AAAGGAACAA
* * ** **
31609 GTTCTTCTCATTATGAACTTCTCCTCTTTCATGGATGAGTTATTCTCATTATGAACTCTTCGTTG
1 GTTCTTCTCATTACGAACTTATCCTCCCTCATGGATGAGTTATTCTCATTATGAACTCTTCACTG
* *
31674 GAAATACTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAG
66 GAAATACTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATGAG
*
31739 TTCTTCTCATTATGAACTCTCCACTGGAAATGTTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
131 TTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
* * *
31804 GAACTTCTTCCCCCTCGTTGGATGTGTTATTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
196 GAACTTCTCCCCCCTCGTTGGATGAGTTATTCTCATTATGAACTCTCCACTAGAAATCTTGAACC
*
31869 AAGGGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTAG
261 AAGGGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTAGGACGAGTTCTTCTCATTAG
31934 AAATACTGAGCTAAGGTTGATCAT
326 AAATACTGAGCTAAGGTTGATCAT
* *
31958 GTTCTTCTCATTACGAACTTATTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTC-TCAAC
1 GTTCTTCTCATTACGAACTTATCCTCCCTCA-TGGATGAGTTATTCTCATTATGAACTCTTC-AC
* **
32022 TGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCTTTCATTGGATG
64 TGGAAATACTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATG
*
32087 AGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCTAAGGTTGAACAAGTTCTTCTCATT
129 AGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATT
* * * *
32152 ATGAACTTGTCCCCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTTCACTAGAAATCTTGTA
194 ATGAACTTCTCCCCCCTCGTTGGATGAGTTATTCTCATTATGAACTCTCCACTAGAAATCTTGAA
* *
32217 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCGTAGGACGAGTTCTTCTCATT
259 CCAAGGGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTAGGACGAGTTCTTCTCATT
32282 A
324 A
32283 TGAACTCTCC
Statistics
Matches: 298, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
349 28 0.09
350 270 0.91
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (349 bp):
GTTCTTCTCATTACGAACTTATCCTCCCTCATGGATGAGTTATTCTCATTATGAACTCTTCACTG
GAAATACTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGGATGAG
TTCTTCTCATTATGAACTCTCCACTGGAAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
GAACTTCTCCCCCCTCGTTGGATGAGTTATTCTCATTATGAACTCTCCACTAGAAATCTTGAACC
AAGGGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTAGGACGAGTTCTTCTCATTAG
AAATACTGAGCTAAGGTTGATCAT
Found at i:32862 original size:67 final size:66
Alignment explanation
Indices: 32733--32864 Score: 169
Period size: 66 Copynumber: 2.0 Consensus size: 66
32723 TATTTATAGG
* * * *
32733 GAGACAAAATTCAGTTCAAGGGAAACGATCTCAAAGATCAGTGTTTCAAGGAAAACTGTCTCAAG
1 GAGACAAAAATCAGTTCAAGGGAAACGACCTCAAAGATCACTATTTCAAGGAAAACTGTCTCAAG
32798 A
66 A
**
32799 GAGACAAAAATC-GTTTCAAGGGAAACGACCTCAAAGATTTTCTATTTCAA-GAGAAACTGTCTC
1 GAGACAAAAATCAG-TTCAAGGGAAACGACCTCAAAGA-TCACTATTTCAAGGA-AAACTGTCTC
32862 AAG
63 AAG
32865 GAAGACCCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
65 1 0.02
66 35 0.61
67 21 0.37
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (66 bp):
GAGACAAAAATCAGTTCAAGGGAAACGACCTCAAAGATCACTATTTCAAGGAAAACTGTCTCAAG
A
Found at i:38108 original size:33 final size:33
Alignment explanation
Indices: 38071--38141 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
38061 TATGATGTTT
38071 GTGAGATTCATAGGTTGAAATGGCTAATAAACA
1 GTGAGATTCATAGGTTGAAATGGCTAATAAACA
38104 GTGAGATTCATAGGTTGAAATGGCTAATAAACA
1 GTGAGATTCATAGGTTGAAATGGCTAATAAACA
38137 GTGAG
1 GTGAG
38142 TTTGAGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (33 bp):
GTGAGATTCATAGGTTGAAATGGCTAATAAACA
Found at i:38583 original size:23 final size:23
Alignment explanation
Indices: 38553--38604 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
38543 AAAGGTGTTT
*
38553 GTTGATGCTAGCTGGGTTGGGGA
1 GTTGATGCTAGCTAGGTTGGGGA
38576 GTTGATGCTAGCTAGGTTGGGGA
1 GTTGATGCTAGCTAGGTTGGGGA
38599 GTTGAT
1 GTTGAT
38605 TGTGAGAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.15, C:0.08, G:0.44, T:0.33
Consensus pattern (23 bp):
GTTGATGCTAGCTAGGTTGGGGA
Found at i:41733 original size:131 final size:131
Alignment explanation
Indices: 41544--41911 Score: 477
Period size: 131 Copynumber: 2.8 Consensus size: 131
41534 AATAATTTTA
* * * * *
41544 AGAGAAAGCGATAATATCTAATTATTTCCAATCAAGAATAAATGACCTTTCATGCCTTAAAACAA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
* * ** * * * *
41609 TCATTTATTACCCCAATTGAAATGAAGCTATATCACTATTTCGTCTTAAAATTCAATATTGATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTCAAAAATCAATATTAACTC
41674 G
131 G
* *
41675 A-ATGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
1 AGA-GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * *
41739 GCCATTTATGACTCCAATCGAAATGATGAGATATCACTATTTCGTCTCAAAAATCAATATTAACT
65 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTCAAAAATCAATATTAACT
41804 CG
130 CG
* * * * *
41806 AGAGAAAACGATAATATATGATTATTTCCAATCGAAAATAAATGAACTCTCATGCCTTAAAGTAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
* ** *
41871 TCATTTATTACTCCAACCGAAACAAAGAGATATTACTATTT
66 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTT
41912 TCATTATCGA
Statistics
Matches: 203, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
130 1 0.00
131 201 0.99
132 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (131 bp):
AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTCAAAAATCAATATTAACTC
G
Found at i:44076 original size:3 final size:3
Alignment explanation
Indices: 44068--44103 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
44058 TGACATGTAA
44068 AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA
44104 AGATGGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44606 original size:3 final size:3
Alignment explanation
Indices: 44598--44659 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
44588 ATACATTTTG
44598 TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44645 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
44660 GTTTTACTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:45850 original size:14 final size:14
Alignment explanation
Indices: 45811--45876 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
45801 AAAGTCAACA
* *
45811 GGTTGACTCAGATG
1 GGTTAACTCAGACG
*
45825 AGTTAA-TCCAGACG
1 GGTTAACT-CAGACG
*
45839 GGTTAACTCAGATG
1 GGTTAACTCAGACG
** *
45853 ATTTGACTCAGACG
1 GGTTAACTCAGACG
45867 GGTTAACTCA
1 GGTTAACTCA
45877 TATTGAGTTG
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
13 1 0.03
14 36 0.95
15 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (14 bp):
GGTTAACTCAGACG
Found at i:45851 original size:28 final size:28
Alignment explanation
Indices: 45811--45885 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
45801 AAAGTCAACA
*
45811 GGTTGACTCAGATGAGTTAA-TCCAGACG
1 GGTTAACTCAGATGAGTTAACT-CAGACG
* *
45839 GGTTAACTCAGATGATTTGACTCAGACG
1 GGTTAACTCAGATGAGTTAACTCAGACG
*
45867 GGTTAACTCATATTGAGTT
1 GGTTAACTCAGA-TGAGTT
45886 GGCTCGGTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 34 0.85
29 6 0.15
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (28 bp):
GGTTAACTCAGATGAGTTAACTCAGACG
Found at i:46511 original size:88 final size:85
Alignment explanation
Indices: 46341--46512 Score: 195
Period size: 88 Copynumber: 2.0 Consensus size: 85
46331 ACTTACCAAG
* * *
46341 CCAACCTAAAATGTTATATATATTAGTAACATTTTAGGTTGAAAATGACAACTATCGAACCTCAG
1 CCAACCTAAAATGTTATATATATTAGTAACATTTTAGGTTGAAAACGACAACTACCGAACCTCAA
*
46406 AGAATAAGTTTTGATACTTA
66 AGAATAAGTTTTAATACTTA
* * * *
46426 CCAATCCTAAAATGTTATATATATATTGGTAATATTTTAGGTTGAAAACGATAAGTACCGCAA-C
1 CCAA-CCTAAAATG-T-TATATATATTAGTAACATTTTAGGTTGAAAACGACAACTACCG-AACC
* *
46490 TCAAAGCA-AATTTTTCAATACTT
62 TCAAAGAATAAGTTTT-AATACTT
46513 GTCGTGAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
85 4 0.06
86 9 0.12
87 7 0.10
88 50 0.69
89 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (85 bp):
CCAACCTAAAATGTTATATATATTAGTAACATTTTAGGTTGAAAACGACAACTACCGAACCTCAA
AGAATAAGTTTTAATACTTA
Found at i:46623 original size:39 final size:40
Alignment explanation
Indices: 46528--46625 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 40
46518 GAAATATACT
* *
46528 CAACCTTAAATGTTATATGTTTGATAACATTTTCAGTTTA
1 CAACCTAAAATGTTATATGTTTGATAACATTTTCAGGTTA
* *
46568 TAACCTAAAATGTTATATGTTTTG-TAACA-TTTCCGGTTA
1 CAACCTAAAATGTTATATG-TTTGATAACATTTTCAGGTTA
46607 CAACCTAAAATGTTATATG
1 CAACCTAAAATGTTATATG
46626 GTTAGAAGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 26 0.50
40 22 0.42
41 4 0.08
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (40 bp):
CAACCTAAAATGTTATATGTTTGATAACATTTTCAGGTTA
Found at i:46638 original size:39 final size:38
Alignment explanation
Indices: 46528--46644 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
46518 GAAATATACT
* *
46528 CAACCTTAAATGTTATAT-GTTTGATAACATTTTCAGTTTA
1 CAACCTAAAATGTTATATGGTTTG--AACA-TTTCAGGTTA
* * *
46568 TAACCTAAAATGTTATATGTTTTGTAACATTTCCGGTTA
1 CAACCTAAAATGTTATATGGTTTG-AACATTTCAGGTTA
* *
46607 CAACCTAAAATGTTATATGGTTAGAAGCATTTCTGGTT
1 CAACCTAAAATGTTATATGGTTTGAA-CATTTCAGGTT
46645 GCACCAACTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
38 2 0.03
39 39 0.59
40 21 0.32
41 4 0.06
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (38 bp):
CAACCTAAAATGTTATATGGTTTGAACATTTCAGGTTA
Found at i:50037 original size:22 final size:22
Alignment explanation
Indices: 50010--50051 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50000 CCAAATTTGG
50010 TGCCCCCAATTATGACTTCCAA
1 TGCCCCCAATTATGACTTCCAA
* *
50032 TGCCCCTAATTTTGACTTCC
1 TGCCCCCAATTATGACTTCC
50052 CCAAAGTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.10, T:0.33
Consensus pattern (22 bp):
TGCCCCCAATTATGACTTCCAA
Found at i:50078 original size:23 final size:24
Alignment explanation
Indices: 50028--50098 Score: 99
Period size: 23 Copynumber: 3.0 Consensus size: 24
50018 ATTATGACTT
* *
50028 CCAATGCCCCTAATTTTGACTTCC
1 CCAAAGCCTCTAATTTTGACTTCC
*
50052 CCAAAGTCTCTAATTTTGA-TTCC
1 CCAAAGCCTCTAATTTTGACTTCC
*
50075 CCAAAGCCTCCAATTTTGACTTCC
1 CCAAAGCCTCTAATTTTGACTTCC
50099 AACATTTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
23 21 0.51
24 20 0.49
ACGTcount: A:0.24, C:0.34, G:0.08, T:0.34
Consensus pattern (24 bp):
CCAAAGCCTCTAATTTTGACTTCC
Found at i:50409 original size:33 final size:33
Alignment explanation
Indices: 50366--50476 Score: 114
Period size: 33 Copynumber: 3.4 Consensus size: 33
50356 GCAACATGTA
* * * *
50366 TGTGCATGAATTACTTATAAATTTAGCAAGTTG
1 TGTGCATGAATCACTTAAAAAGTTAGAAAGTTG
* *
50399 TGTGCGTGAATCACTTAAAAAGTTAGAAAGTTT
1 TGTGCATGAATCACTTAAAAAGTTAGAAAGTTG
* * * * *
50432 TGTACATAAATCAGTTAAAAAGTTAGCAAGTTA
1 TGTGCATGAATCACTTAAAAAGTTAGAAAGTTG
*
50465 TGTGTATGAATC
1 TGTGCATGAATC
50477 CATCTCACTA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (33 bp):
TGTGCATGAATCACTTAAAAAGTTAGAAAGTTG
Found at i:57185 original size:2 final size:2
Alignment explanation
Indices: 57180--57206 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
57170 CCCTGTGTGC
57180 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
57207 CAATTGCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60718 original size:33 final size:33
Alignment explanation
Indices: 60633--60739 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 33
60623 GTCGGGTCAG
* *
60633 TTTTTTAAGTGTGATATTCAGGTCGAGTTAGGTCGGCT
1 TTTTTTAAGTGTGATATTCGGGTC--G---GGTCGGGT
60671 TTTTTTAAGTGTGTGATATTCGGGTCGGGTCGGGT
1 TTTTTTAA--GTGTGATATTCGGGTCGGGTCGGGT
*
60706 TTTTTTAAGTGTGATATTTGGGTCGGGTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGT
60739 T
1 T
60740 CGGGTTTAGG
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
33 25 0.39
35 15 0.23
38 9 0.14
40 15 0.23
ACGTcount: A:0.14, C:0.08, G:0.34, T:0.44
Consensus pattern (33 bp):
TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGT
Found at i:61747 original size:30 final size:30
Alignment explanation
Indices: 61711--61775 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
61701 AGACCAGTCT
61711 TAGGCTTATTAAAAAGCCTTATAAGCCTGA
1 TAGGCTTATTAAAAAGCCTTATAAGCCTGA
* *
61741 TAGGCTTATTAAGAAGCCTTATAAGCCTTA
1 TAGGCTTATTAAAAAGCCTTATAAGCCTGA
61771 TAGGC
1 TAGGC
61776 CGACCTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (30 bp):
TAGGCTTATTAAAAAGCCTTATAAGCCTGA
Found at i:68110 original size:13 final size:15
Alignment explanation
Indices: 68077--68115 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
68067 CTAATGGGAA
68077 AAGTTTTGAAAAACT
1 AAGTTTTGAAAAACT
*
68092 ATG-TTTGAAAAAC-
1 AAGTTTTGAAAAACT
68105 AAGTTTTGAAA
1 AAGTTTTGAAA
68116 TTAATATGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (15 bp):
AAGTTTTGAAAAACT
Found at i:68622 original size:24 final size:23
Alignment explanation
Indices: 68595--68657 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
68585 GGGGTATTGA
*
68595 TTCCCCTATGAAGGGGGGAATCGG
1 TTCCCCT-TCAAGGGGGGAATCGG
* *
68619 TTCCCCTTTAAAGGGGGAATCGG
1 TTCCCCTTCAAGGGGGGAATCGG
68642 TTCCCCTTCAAGGGGG
1 TTCCCCTTCAAGGGGG
68658 TATCGATTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 28 0.80
24 7 0.20
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (23 bp):
TTCCCCTTCAAGGGGGGAATCGG
Found at i:68654 original size:22 final size:23
Alignment explanation
Indices: 68608--68668 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 23
68598 CCCTATGAAG
68608 GGGGGAATCGGTTCCCCTTTAAA
1 GGGGGAATCGGTTCCCCTTTAAA
*
68631 GGGGGAATCGGTTCCCC-TTCAA
1 GGGGGAATCGGTTCCCCTTTAAA
* *
68653 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
68669 TTTGCACCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 18 0.51
23 17 0.49
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.25
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTTAAA
Found at i:68670 original size:21 final size:22
Alignment explanation
Indices: 68593--68668 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 22
68583 ACGGGGTATT
*
68593 GATTCCCCTATGAAGGGGGGAATC
1 GATTCCCCT-TCAA-GGGGGAATC
* *
68617 GGTTCCCCTTTAAAGGGGGAATC
1 GATTCCCC-TTCAAGGGGGAATC
* *
68640 GGTTCCCCTTCAAGGGGGTATC
1 GATTCCCCTTCAAGGGGGAATC
68662 GATTCCC
1 GATTCCC
68669 TTTGCACCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 18 0.39
23 17 0.37
24 10 0.22
25 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (22 bp):
GATTCCCCTTCAAGGGGGAATC
Found at i:75082 original size:42 final size:43
Alignment explanation
Indices: 74973--75082 Score: 102
Period size: 43 Copynumber: 2.5 Consensus size: 43
74963 ACCATGCCTT
* * *
74973 CATAATAATTTTCATCCTTAAAAAATATTCAAATCAACATGATTTC
1 CATAATATTTTTCATCCTT---AAACATTCAAAACAACATGATTTC
75019 CATAATATTTTTAGCAT--TTAAACATTCAAAACAACAT-ACTTT-
1 CATAATATTTTT--CATCCTTAAACATTCAAAACAACATGA-TTTC
*
75061 TATAATATTTTTCATCCTTAAA
1 CATAATATTTTTCATCCTTAAA
75083 AAATATTCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
40 3 0.05
42 17 0.31
43 19 0.35
46 13 0.24
48 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (43 bp):
CATAATATTTTTCATCCTTAAACATTCAAAACAACATGATTTC
Found at i:77869 original size:28 final size:28
Alignment explanation
Indices: 77828--77898 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 28
77818 TCCTAGATGC
* * *
77828 AAAATAAAGAAATAAAAATATATGGAAA
1 AAAACAAAGCAATAAAAATACATGGAAA
* * *
77856 ACAACAAAGCAAT-AAATTCCATGGAAA
1 AAAACAAAGCAATAAAAATACATGGAAA
77883 AAAACAAAGCAATAAA
1 AAAACAAAGCAATAAA
77899 GTCTTATGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (28 bp):
AAAACAAAGCAATAAAAATACATGGAAA
Found at i:78118 original size:24 final size:24
Alignment explanation
Indices: 78091--78154 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
78081 AAAAATTCAG
78091 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCGATTGAAGCTCGAGACTC
78115 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCGATTGAAGCTCGAGACTC
*
78139 GAGCTCGATTCAAGCT
1 GAGCTCGATTGAAGCT
78155 TGAACTCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (24 bp):
GAGCTCGATTGAAGCTCGAGACTC
Found at i:84202 original size:20 final size:20
Alignment explanation
Indices: 84177--84253 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
84167 AGTCTTCTTT
84177 TGGGCACAAATAAATTAGAG
1 TGGGCACAAATAAATTAGAG
* *
84197 TGGGCATAAGTGAAAATTA-AGG
1 TGGGCACAAAT--AAATTAGA-G
* * *
84219 TAGGCACAAATGAATTAGTG
1 TGGGCACAAATAAATTAGAG
*
84239 TGGGCACACATAAAT
1 TGGGCACAAATAAAT
84254 ATCTAGGTGG
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
20 27 0.63
21 1 0.02
22 15 0.35
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (20 bp):
TGGGCACAAATAAATTAGAG
Found at i:85114 original size:3 final size:3
Alignment explanation
Indices: 85073--85159 Score: 70
Period size: 3 Copynumber: 29.0 Consensus size: 3
85063 CGTTTTACTT
* * * * *
85073 TTA TTT TTA TAA TTA TCA TAA TTA -TA TTTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
85118 TTA TTA -TA TTA TTA TTT TTA TTA TTAA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
85160 CAAAATAGGC
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
2 4 0.06
3 57 0.88
4 4 0.06
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:85622 original size:21 final size:21
Alignment explanation
Indices: 85582--85622 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
85572 AAAAAAGTGG
* **
85582 ACATCAACCACAAACTGAGAA
1 ACATCAACAACAAAAAGAGAA
85603 ACATCAACAACAAAAAGAGA
1 ACATCAACAACAAAAAGAGA
85623 GAAGAGACGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.24, G:0.10, T:0.07
Consensus pattern (21 bp):
ACATCAACAACAAAAAGAGAA
Found at i:86489 original size:29 final size:30
Alignment explanation
Indices: 86456--86512 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
86446 GGCTGTAAAT
86456 TTTAATATTT-TATATTTTAATC-CTATTAC
1 TTTAAT-TTTATATATTTTAATCACTATTAC
* *
86485 TTTAATTTTATATGTTTTAGTCACTATT
1 TTTAATTTTATATATTTTAATCACTATT
86513 TAATTGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.67
30 5 0.21
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTAATTTTATATATTTTAATCACTATTAC
Found at i:87024 original size:21 final size:19
Alignment explanation
Indices: 86998--87047 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
86988 ATATTCTTAA
86998 ATAAATAAATGTCTTACTTTT
1 ATAAATAAATGTC-TA-TTTT
* *
87019 ATAAAT-TATATCTATTTT
1 ATAAATAAATGTCTATTTT
87037 -TAAATAAATGT
1 ATAAATAAATGT
87048 TTTAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 2 0.08
20 4 0.17
21 6 0.25
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (19 bp):
ATAAATAAATGTCTATTTT
Found at i:87140 original size:127 final size:128
Alignment explanation
Indices: 86791--87148 Score: 546
Period size: 128 Copynumber: 2.8 Consensus size: 128
86781 AATAATCATA
*
86791 TTTTAATATTTATATATTTTTTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAGAAGTCCTTT
1 TTTTAATATTTATATATTTTTTAATATTAAGAAATGAGATGTCTTAAAGCACCTAGAAGTCCTTT
* * *
86856 TTTGATAATAT-TAAATGAATAAATATCTTACTTTTATAAATTATATCTATTTTTAAATAAATG
66 TATGAT-ATTTCTAAATAAATAAATATCTTACTTTTATAAATTATATCTATTTTTAAATAAATG
* * *
86919 TTTTAATAGTTATATATTTTTTAATATTAAGAGATGGGATGTCTTAAAGCACCTAGAAGTCCTTT
1 TTTTAATATTTATATATTTTTTAATATTAAGAAATGAGATGTCTTAAAGCACCTAGAAGTCCTTT
*
86984 TATGATA-TTCTTAAATAAATAAATGTCTTACTTTTATAAATTATATCTATTTTTAAATAAATG
66 TATGATATTTC-TAAATAAATAAATATCTTACTTTTATAAATTATATCTATTTTTAAATAAATG
* *
87047 TTTTAATATTTATTTATTTTTT-ATATTAAGAAAAGAGATGTCTTAAAGCACCTAGAAG-CCATT
1 TTTTAATATTTATATATTTTTTAATATTAAGAAATGAGATGTCTTAAAGCACCTAGAAGTCC-TT
*
87110 TTCTGATATTTCTAAATAAATAAATATCTTA-TTTATATA
65 TTATGATATTTCTAAATAAATAAATATCTTACTTT-TATA
87149 TATAAATTAA
Statistics
Matches: 210, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
126 6 0.03
127 65 0.31
128 139 0.66
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (128 bp):
TTTTAATATTTATATATTTTTTAATATTAAGAAATGAGATGTCTTAAAGCACCTAGAAGTCCTTT
TATGATATTTCTAAATAAATAAATATCTTACTTTTATAAATTATATCTATTTTTAAATAAATG
Found at i:87680 original size:11 final size:11
Alignment explanation
Indices: 87664--87696 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
87654 TTTATATATA
87664 CATATTATTTT
1 CATATTATTTT
87675 CATATTATTTAT
1 CATATTATTT-T
87687 -ATATTATTTT
1 CATATTATTTT
87697 TTATTAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 19 0.90
12 1 0.05
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (11 bp):
CATATTATTTT
Found at i:92074 original size:13 final size:12
Alignment explanation
Indices: 92056--92105 Score: 64
Period size: 12 Copynumber: 3.9 Consensus size: 12
92046 ATACTTGAAG
92056 AAGAAAGAAAAAA
1 AAGAAA-AAAAAA
*
92069 AAGAAAAAGAAA
1 AAGAAAAAAAAA
92081 AAGAAAAAAAGAA
1 AAGAAAAAAA-AA
92094 AAGAGAAAAAAA
1 AAGA-AAAAAAA
92106 TTAAATCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 14 0.42
13 13 0.39
14 6 0.18
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:92079 original size:15 final size:15
Alignment explanation
Indices: 92059--92105 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
92049 CTTGAAGAAG
92059 AAAGAAAAA-AAAGAA
1 AAAGAAAAAGAAA-AA
92074 AAAGAAAAAG-AAAA
1 AAAGAAAAAGAAAAA
92088 AAAGAAAAGAGAAAAA
1 AAAGAAAA-AGAAAAA
92104 AA
1 AA
92106 TTAAATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.34
15 13 0.45
16 6 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAAAA
Found at i:92085 original size:21 final size:20
Alignment explanation
Indices: 92053--92103 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 20
92043 ATTATACTTG
92053 AAGAAGAAAGAAAAAAAAGAAA
1 AAGAA-AAAG-AAAAAAAGAAA
92075 AAGAAAAAGAAAAAAAGAAA
1 AAGAAAAAGAAAAAAAGAAA
92095 AGAGAAAAA
1 A-AGAAAAA
92104 AATTAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.43
21 11 0.39
22 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAAAAAGAAA
Found at i:97280 original size:20 final size:20
Alignment explanation
Indices: 97217--97281 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
97207 TCCAGAAAAA
97217 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * ** ***
97237 ATCTGA-AAAAAGAAGAAGAA
1 GT-TCATAATGAGAAGAACTT
97257 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
97277 GTTCA
1 GTTCA
97282 ACTTTTTACA
Statistics
Matches: 29, Mismatches: 14, Indels: 4
0.62 0.30 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:97358 original size:117 final size:115
Alignment explanation
Indices: 97095--97633 Score: 467
Period size: 122 Copynumber: 4.6 Consensus size: 115
97085 TTTCAATATG
* * * * * **
97095 CCAGAAGAGTTCATAATGAGATGAACTTATCTGAAGAAGGAAGAAGAAATTCATAATGAGGTGAA
1 CCAGAAAAGTTCATAATGAGAAGAACTCATCTGAA-AAAGAAGAAGAAGTTCATAATGAGAAGAA
* * * * * * *
97160 TTTGTCCAAACCTTTTGCTTGAAT-TCATCAC-----TCGATGGATCAACTTTT
65 CTTGTTC-AACATTTTGC-TGACTCT-ATCACAGAAGTAGATAGATCAACATTT
*
97208 CCAGAAAAAGTTCATAATGAGAAGAACTTATCTGAAAAAAGAAGAAGAAGTTCATAATGAGAAGA
1 CCAG-AAAAGTTCATAATGAGAAGAACTCATCTG-AAAAAGAAGAAGAAGTTCATAATGAGAAGA
* * *
97273 ACTTGTTCAACTTTTTACATGACTCTATCACAGAAGGAGATAGATCAACATTT
64 ACTTGTTCAACATTTTGC-TGACTCTATCACAGAAGTAGATAGATCAACATTT
** * *
97326 CCAGAAGTGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA-AAGAA
1 CCAGAAAAGTTCATAATGAGAAGAACTCATCTGAA-AAAGAAGAAGAAGTTCATAATGAGAAGAA
* * * * *
97390 CTTGTTTAACCTTTTGCTCGAAT-TCATTAC-----TCGAT-GCATCAACATTT
65 CTTGTTCAACATTTTGCT-GACTCT-ATCACAGAAGTAGATAG-ATCAACATTT
* * *
97437 CCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAA
1 CCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAAGAA
* *
97502 TTTGTTCAACATTTTGCTTGACGCTATCACAGATGGAGATAGATCATGATCAACATTT
65 CTTGTTCAACATTTTGC-TGACTCTATCACAGA---AG-TAGAT-A-GATCAACATTT
** * * * *
97560 CCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAATAAGTTCATAATGAGAAGAAT
1 CCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAAGAAC
97625 TTGTTCAAC
66 TTGTTCAAC
97634 CTTAATTTAA
Statistics
Matches: 352, Mismatches: 46, Indels: 47
0.79 0.10 0.11
Matches are distributed among these distances:
110 1 0.00
111 40 0.11
112 51 0.14
113 23 0.07
114 58 0.16
115 4 0.01
116 28 0.08
117 47 0.13
118 17 0.05
121 4 0.01
122 63 0.18
123 15 0.04
124 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (115 bp):
CCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACATTTTGCTGACTCTATCACAGAAGTAGATAGATCAACATTT
Found at i:98012 original size:3 final size:3
Alignment explanation
Indices: 97971--98066 Score: 79
Period size: 3 Copynumber: 32.0 Consensus size: 3
97961 CGTTTTACTT
* * * * *
97971 TTA TTT TTA TAA TTA TCA TAA TTA -TA TTTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * *
98016 TTA TTA TTA TTA TTA -TA TTT TTA TTA TTA TTAA TAA TAA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
98061 TTA TTA
1 TTA TTA
98067 CAAAATAGAC
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
2 4 0.05
3 66 0.89
4 4 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:99301 original size:29 final size:30
Alignment explanation
Indices: 99268--99324 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
99258 GGTTGTAAAT
99268 TTTAATATTT-TATATTTTAATC-CTATTAC
1 TTTAAT-TTTATATATTTTAATCACTATTAC
* *
99297 TTTAATTTTATATGTTTTAGTCACTATT
1 TTTAATTTTATATATTTTAATCACTATT
99325 TAATTGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.67
30 5 0.21
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTAATTTTATATATTTTAATCACTATTAC
Found at i:99420 original size:2 final size:2
Alignment explanation
Indices: 99413--99442 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
99403 TATATTAGTC
99413 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
99443 TTTTAACTAA
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:99652 original size:19 final size:19
Alignment explanation
Indices: 99628--99664 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
99618 ATGACTAACA
*
99628 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
99647 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
99665 CATTATCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:99817 original size:20 final size:20
Alignment explanation
Indices: 99792--99914 Score: 144
Period size: 20 Copynumber: 6.1 Consensus size: 20
99782 ATAACACGTG
*
99792 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
99812 ATCGCAACGCGATTC-GAACT
1 ATCGCAACGCGATTCTG-ACT
*
99832 ATCGCAACACGATTC-GAACT
1 ATCGCAACGCGATTCTG-ACT
**
99852 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
99872 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
99893 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
99913 AT
1 AT
99915 AGCGTTGTGA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
19 3 0.03
20 70 0.78
21 15 0.17
22 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:99972 original size:25 final size:25
Alignment explanation
Indices: 99944--99995 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
99934 TCGTATTACG
99944 AATTTCAAAGCGCCATTAGTATCGC
1 AATTTCAAAGCGCCATTAGTATCGC
99969 AATTTCAAAGCGCCATTAGTATCGC
1 AATTTCAAAGCGCCATTAGTATCGC
99994 AA
1 AA
99996 CGCGTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AATTTCAAAGCGCCATTAGTATCGC
Found at i:100153 original size:22 final size:22
Alignment explanation
Indices: 100103--100160 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
100093 TCACTCTCTA
*
100103 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
* * *
100125 CGACGAAATCCGTCCCCATTTT
1 CGGCGAAATCCGTCCCCATCTC
*
100147 CGGCGAAATTCGTC
1 CGGCGAAATCCGTC
100161 TATCTCCATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.40, G:0.19, T:0.22
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCTC
Found at i:100541 original size:33 final size:34
Alignment explanation
Indices: 100496--100578 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 34
100486 AACAACGACA
*
100496 AAATTCGCGTTGCGATTATCTTGTTGCGATAG-C
1 AAATTCGCGTTGCGATTATCTCGTTGCGATAGTC
* *
100529 CATTTCGCGTTGCGATTATCTCGTTGCGATAGTC
1 AAATTCGCGTTGCGATTATCTCGTTGCGATAGTC
100563 AAATTCGCGTTGCGAT
1 AAATTCGCGTTGCGAT
100579 AATCATTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 29 0.66
34 15 0.34
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.36
Consensus pattern (34 bp):
AAATTCGCGTTGCGATTATCTCGTTGCGATAGTC
Found at i:100627 original size:20 final size:20
Alignment explanation
Indices: 100566--100620 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
100556 GATAGTCAAA
* **
100566 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
*
100586 TT-ATGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
100605 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
100621 ATGTTTCAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.51
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:101221 original size:68 final size:68
Alignment explanation
Indices: 101112--101247 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
101102 CTGGTCTACG
101112 CTTTGGACACGATGATGTAGGTCGATACACTAGACATATTACCCGCCCATCATGGTTATCCCGGT
1 CTTTGGACACGATGATGTAGGTCGATACACTAGACATATTACCCGCCCATCATGGTTATCCCGGT
101177 TTT
66 TTT
101180 CTTTGGACACGATGATGTAGGTCGATACACTAGACATATTACCCGCCCATCATGGTTATCCCGGT
1 CTTTGGACACGATGATGTAGGTCGATACACTAGACATATTACCCGCCCATCATGGTTATCCCGGT
101245 TTT
66 TTT
101248 TTTCCTAAGC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (68 bp):
CTTTGGACACGATGATGTAGGTCGATACACTAGACATATTACCCGCCCATCATGGTTATCCCGGT
TTT
Found at i:102648 original size:20 final size:20
Alignment explanation
Indices: 102527--102648 Score: 98
Period size: 20 Copynumber: 6.4 Consensus size: 20
102517 AGAAGAATAG
* * *
102527 TCGCAACACGAAAATGATTA
1 TCGCAACGCGGAAATGACTA
*
102547 TCGCAACGC-GAATTTGACTA
1 TCGCAACGCGGAA-ATGACTA
102567 TCGCAACG-GG--AT-A--A
1 TCGCAACGCGGAAATGACTA
* *
102581 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
102601 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
102621 TCGCAACGC-GAATTTGACTA
1 TCGCAACGCGGAA-ATGACTA
*
102641 TCACAACG
1 TCGCAACG
102649 GGATAATCAC
Statistics
Matches: 82, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
14 8 0.10
15 1 0.01
16 1 0.01
17 3 0.04
18 1 0.01
19 5 0.06
20 63 0.77
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:102648 original size:74 final size:74
Alignment explanation
Indices: 102527--102686 Score: 266
Period size: 74 Copynumber: 2.2 Consensus size: 74
102517 AGAAGAATAG
* * * * *
102527 TCGCAACACGAAAATGATTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATAATCACAATGCAA
102592 AAATGACTA
66 AAATGACTA
*
102601 TCGCAACGCGGAAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATAATCACAATGCAA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATAATCACAATGCAA
102666 AAATGACTA
66 AAATGACTA
102675 TCGCAACGCGAA
1 TCGCAACGCGAA
102687 TTTAGTTTTG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 79 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (74 bp):
TCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATAATCACAATGCAA
AAATGACTA
Found at i:102713 original size:19 final size:19
Alignment explanation
Indices: 102691--102727 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
102681 CGCGAATTTA
*
102691 GTTTTGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
102710 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
102728 CTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.14, G:0.30, T:0.51
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:102797 original size:20 final size:20
Alignment explanation
Indices: 102730--102779 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
102720 GCGATTTTCT
102730 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
102750 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
102770 CGTTGCGATA
1 CGTTGCGATA
102780 ATCATTTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:103339 original size:42 final size:42
Alignment explanation
Indices: 103275--103375 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
103265 CTGTCATCGT
* * *
103275 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* * **
103317 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* *
103359 TGAAGAGGTCCCTCCCA
1 TCAAGAGGCCCCTCCCA
103376 ATATTCTAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.21, C:0.39, G:0.19, T:0.22
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:103359 original size:21 final size:21
Alignment explanation
Indices: 103264--103371 Score: 101
Period size: 21 Copynumber: 5.1 Consensus size: 21
103254 GCCCGACTCA
103264 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
103285 TCT-CCTATCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** *
103306 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
103327 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
103348 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
103369 CCT
1 CCT
103372 CCCAATATTC
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.24
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:104777 original size:30 final size:30
Alignment explanation
Indices: 104743--104808 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
104733 ATAAGAGTTG
*
104743 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
104773 ATTTGTTTAATTGATGTGTAAATAATTATT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
104803 ATTTGT
1 ATTTGT
104809 GCTTTTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:105001 original size:20 final size:20
Alignment explanation
Indices: 104957--105096 Score: 103
Period size: 20 Copynumber: 7.7 Consensus size: 20
104947 GCGATTTTCT
104957 CGTTGCGATAGTCAAATTC-
1 CGTTGCGATAGTCAAATTCG
*
104976 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
104996 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
105015 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
*
105029 CGTTGCGATAGTC-ATTTGCG
1 CGTTGCGATAGTCAAATT-CG
* *
105049 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
*
105063 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
105083 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
105097 TTTTCGCATT
Statistics
Matches: 96, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.21
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 34 0.35
20 37 0.39
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:105089 original size:34 final size:33
Alignment explanation
Indices: 104923--105091 Score: 151
Period size: 34 Copynumber: 4.8 Consensus size: 33
104913 ATCATATTAG
* * *
104923 CGTTGCGATAGTCTAATACACTTTGCGATTTTCT
1 CGTTGCGATAGTC-AATTCACGTTGCGATTATCT
*
104957 CGTTGCGATAGTCAAATTC-CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTC-AATTCACGTTGCGAT--T---A-TCT
* *
104996 CGTTGCGATAGTCATTTCGCGTTGCGATTATCT
1 CGTTGCGATAGTCAATTCACGTTGCGATTATCT
* * * *
105029 CGTTGCGATAGTCATTTGCGCATTGCGATTATCC
1 CGTTGCGATAGTCAATT-CACGTTGCGATTATCT
105063 CGTTGCGATAGTCAAATTCACGTTGCGAT
1 CGTTGCGATAGTC-AATTCACGTTGCGAT
105092 AGTCATTTTC
Statistics
Matches: 114, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
33 27 0.24
34 54 0.47
35 4 0.04
37 1 0.01
38 4 0.04
39 24 0.21
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (33 bp):
CGTTGCGATAGTCAATTCACGTTGCGATTATCT
Found at i:105091 original size:54 final size:52
Alignment explanation
Indices: 104945--105160 Score: 188
Period size: 53 Copynumber: 4.1 Consensus size: 52
104935 CTAATACACT
* * * *
104945 TTGCGATTTTCTCGTTGCGATAGTCAAATTC-CGTTGCGATAATCAAATTCGCG
1 TTGCGATTATC-CGTTGCGATAGTCAAATTCACGTTGCGATAGTC-ATTTCGCA
** * * * *
104998 TTGCGA-TAGTCATTTCGCG-TTG-CGATTATCTCGTTGCGATAGTCATTTGCGCA
1 TTGCGATTA-TCCGTT-GCGATAGTCAAAT-TCACGTTGCGATAGTCATTT-CGCA
105051 TTGCGATTATCCCGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCA
1 TTGCGATTAT-CCGTTGCGATAGTCAAATTCACGTTGCGATAGTCA-TTTCGCA
* * * * *
105105 TTGTGATTATCCGTTGTGATATTCAAATTCACGTTACGATAGCCATATTCGCA
1 TTGCGATTATCCGTTGCGATAGTCAAATTCACGTTGCGATAGTCAT-TTCGCA
105158 TTG
1 TTG
105161 TGATAGTCAA
Statistics
Matches: 132, Mismatches: 20, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
51 3 0.02
52 11 0.08
53 76 0.58
54 36 0.27
55 6 0.05
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (52 bp):
TTGCGATTATCCGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTCGCA
Found at i:105161 original size:53 final size:53
Alignment explanation
Indices: 105029--105164 Score: 193
Period size: 53 Copynumber: 2.5 Consensus size: 53
105019 GCGATTATCT
*
105029 CGTTGCGATAGTCATTTGCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCATTT-CGCATTGTGATTATCCCGTTGCGATAGTCAAATTCA
* *
105083 CGTTGCGATAGTCATTTTCGCATTGTGATTAT-CCGTTGTGATATTCAAATTCA
1 CGTTGCGATAGTCA-TTTCGCATTGTGATTATCCCGTTGCGATAGTCAAATTCA
* *
105136 CGTTACGATAGCCATATTCGCATTGTGAT
1 CGTTGCGATAGTCAT-TTCGCATTGTGAT
105165 AGTCAAATGA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.59
54 27 0.36
55 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (53 bp):
CGTTGCGATAGTCATTTCGCATTGTGATTATCCCGTTGCGATAGTCAAATTCA
Found at i:105370 original size:18 final size:18
Alignment explanation
Indices: 105347--105381 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
105337 AAGCCGTTTA
*
105347 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
105365 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
105382 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:107427 original size:14 final size:14
Alignment explanation
Indices: 107408--107444 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
107398 TCCCGTGGCA
107408 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
107422 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
107436 TTCTTCTTC
1 TT-TTCTTC
107445 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:107668 original size:24 final size:24
Alignment explanation
Indices: 107634--107687 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
107624 CTGAAGCATC
107634 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
107658 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
107682 ATCAAA
1 ATCAAA
107688 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:108527 original size:20 final size:20
Alignment explanation
Indices: 108497--108644 Score: 131
Period size: 20 Copynumber: 7.3 Consensus size: 20
108487 AATTCAGTGA
*
108497 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
* *
108517 TGCGATGGTCAGAATCGTGT
1 TGCGATAGTCAGAATCGCGT
** * *
108537 TGCGATCACGT-ATTATAGCAT
1 TGCGAT-A-GTCAGAATCGCGT
*
108558 TGCGATAGTCAGAATCGCAT
1 TGCGATAGTCAGAATCGCGT
* *
108578 TGTGATCA--CATATTATCGCGT
1 TGCGAT-AGTCAGA--ATCGCGT
*
108599 TGCGGTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
108619 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
108639 TGCGAT
1 TGCGAT
108645 CATGTGTTAT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
19 5 0.05
20 69 0.68
21 22 0.22
22 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:108573 original size:41 final size:41
Alignment explanation
Indices: 108516--108624 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
108506 CAGAATCGCG
* * *
108516 TTGCGATGGTCAGAATCGTGTTGCGATCACGTATTATAGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATCACATATTATAGCA
* * * *
108557 TTGCGATAGTCAGAATCGCATTGTGATCACATATTATCGCG
1 TTGCGATAGTCAGAATCGCGTTGCGATCACATATTATAGCA
*
108598 TTGCGGTAGTCAGAATCGCGTTGCGAT
1 TTGCGATAGTCAGAATCGCGTTGCGAT
108625 AGTCAGAATC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (41 bp):
TTGCGATAGTCAGAATCGCGTTGCGATCACATATTATAGCA
Found at i:108684 original size:20 final size:20
Alignment explanation
Indices: 108659--108706 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
108649 TGTTATCTTG
*
108659 TTGCGATTTATATATTCGCA
1 TTGCGATTTACATATTCGCA
108679 TTGCGATTTACATATTCGCA
1 TTGCGATTTACATATTCGCA
108699 TTGCGATT
1 TTGCGATT
108707 ATCTAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
TTGCGATTTACATATTCGCA
Found at i:108816 original size:19 final size:19
Alignment explanation
Indices: 108792--108828 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
108782 TGCGATAATG
* *
108792 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTACGATTTA
108811 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
108829 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:109086 original size:21 final size:19
Alignment explanation
Indices: 109062--109109 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
109052 ATATTCTTAA
109062 ATAAATAAATATCTTACTTTT
1 ATAAATAAATATC-TA-TTTT
*
109083 ATAAAT-TATATCTATTTT
1 ATAAATAAATATCTATTTT
109101 -TAAATAAAT
1 ATAAATAAAT
109110 GTTTTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 5 0.21
18 6 0.25
19 2 0.08
20 5 0.21
21 6 0.25
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAAATAAATATCTATTTT
Found at i:109164 original size:128 final size:127
Alignment explanation
Indices: 108987--109328 Score: 528
Period size: 128 Copynumber: 2.7 Consensus size: 127
108977 AAAAATAATC
* *
108987 ATATTTATTTATATTTTTTAATATTAAG-AATGAGCTGTCTAAAAGCACCTATAAGTTCTTTTCT
1 ATATTTA--TATATTTTTTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAGAAG-TCTTTTCT
109051 GATATTCTTAAATAAATAAATATCTTACTTTTATAAATTATATCTATTTTTAAATAAATGTTTTA
63 GATATTCTTAAATAAATAAATATCTTACTTTTATAAATTATATCTATTTTTAAATAAATGTTTTA
* *
109116 ATATTTATATATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTCTAA
1 ATATTTATATATTTTTTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAGAAGTC-TTTTCTGA
*
109181 TATTCTTAAATAAATAAATGTCTTACTTTTATAAATTATATCTATTTTTAAATAAATGTTTTA
65 TATTCTTAAATAAATAAATATCTTACTTTTATAAATTATATCTATTTTTAAATAAATGTTTTA
* * * *
109244 ATATTTATTTATTTTTT-ATATTAAGAAAAGAGTTGTCTTAAAGCACCTAGAAGACCTTTTCTGA
1 ATATTTATATATTTTTTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAGAAG-TCTTTTCTGA
109308 TATT-TCTAAATAAATAAATAT
65 TATTCT-TAAATAAATAAATAT
109329 TTTTTATATA
Statistics
Matches: 197, Mismatches: 12, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
126 1 0.01
127 79 0.40
128 110 0.56
129 7 0.04
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.46
Consensus pattern (127 bp):
ATATTTATATATTTTTTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAGAAGTCTTTTCTGAT
ATTCTTAAATAAATAAATATCTTACTTTTATAAATTATATCTATTTTTAAATAAATGTTTTA
Found at i:109216 original size:21 final size:19
Alignment explanation
Indices: 109190--109239 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
109180 ATATTCTTAA
109190 ATAAATAAATGTCTTACTTTT
1 ATAAATAAATGTC-TA-TTTT
* *
109211 ATAAAT-TATATCTATTTT
1 ATAAATAAATGTCTATTTT
109229 -TAAATAAATGT
1 ATAAATAAATGT
109240 TTTAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 2 0.08
20 4 0.17
21 6 0.25
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (19 bp):
ATAAATAAATGTCTATTTT
Found at i:109345 original size:25 final size:25
Alignment explanation
Indices: 109316--109373 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
109306 GATATTTCTA
*
109316 AATAAATAA-ATATTTT-TTATATAT
1 AATAAATAATAGATTTTCTTATAT-T
109340 ATATAAATTAATAGATTTTCTTATATT
1 A-ATAAA-TAATAGATTTTCTTATATT
109367 AATAAAT
1 AATAAAT
109374 TTGAAATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.03
25 6 0.21
26 8 0.28
27 8 0.28
28 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
AATAAATAATAGATTTTCTTATATT
Found at i:110446 original size:18 final size:18
Alignment explanation
Indices: 110423--110459 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
110413 TATTTCCAAG
110423 GAATTGGCAAGTACCAGA
1 GAATTGGCAAGTACCAGA
110441 GAATTGGCAAGTACCAGA
1 GAATTGGCAAGTACCAGA
110459 G
1 G
110460 GTGCTTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.30, T:0.16
Consensus pattern (18 bp):
GAATTGGCAAGTACCAGA
Found at i:115550 original size:64 final size:63
Alignment explanation
Indices: 115502--115708 Score: 258
Period size: 64 Copynumber: 3.2 Consensus size: 63
115492 TGCACTAAGA
*
115502 GTGCATCGATGCATAAAATGCATTCGATGTTTTGA-AAAAGCATGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTT-ATAAAACCATGAGTGCATCGATGCATGGTAT
*
115566 GTGCATCGATGCATCAAATGCATTCGATGATTTTATAAAACCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCAT-AAATGCATTCGATG-TTTTATAAAACCATGAGTGCATCGATGCATGGTA-
115631 T
63 T
** * * *
115632 GTGCATCGATGCATAAATGCATTCGATGTTCAATTAAATCATCG-GTGCATCGATGCAT-GTTT
1 GTGCATCGATGCATAAATGCATTCGATGTTTTATAAAACCAT-GAGTGCATCGATGCATGGTAT
*
115694 GATGCATCGGTGCAT
1 G-TGCATCGATGCAT
115709 GCCTTTGAAT
Statistics
Matches: 128, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
62 2 0.02
63 14 0.11
64 52 0.41
65 45 0.35
66 15 0.12
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAATGCATTCGATGTTTTATAAAACCATGAGTGCATCGATGCATGGTAT
Found at i:115650 original size:65 final size:64
Alignment explanation
Indices: 115502--115661 Score: 252
Period size: 65 Copynumber: 2.5 Consensus size: 64
115492 TGCACTAAGA
*
115502 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCATGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAACCATGAGTGCATCGATGCATGGTAT
* *
115566 GTGCATCGATGCATCAAATGCATTCGATGATTTT-ATAAAACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTTGA-AAAACCATGAGTGCATCGATGCATGGTA
115630 TT
64 -T
115632 GTGCATCGATGCAT-AAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
115662 CAATTAAATC
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
64 31 0.34
65 44 0.49
66 15 0.17
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAACCATGAGTGCATCGATGCATGGTAT
Found at i:118493 original size:113 final size:111
Alignment explanation
Indices: 118253--118475 Score: 421
Period size: 111 Copynumber: 2.0 Consensus size: 111
118243 TTTTTCAACA
118253 ATGGAAAAAGGGATTATGTGCAAGAGATTAAAATTTAGAGGTCCAAAGTGGTCAAAGAATACTCA
1 ATGGAAAAAGGGATTATGTGCAAGAGATTAAAATTTAGAGGTCCAAAGTGGTCAAAGAATACTC-
118318 AAAAGAAAATAAAGACAGTTTGAGAGATGTTTACATGTTAGAGTTAG
65 AAAAGAAAATAAAGACAGTTTGAGAGATGTTTACATGTTAGAGTTAG
118365 ATGGAAAAAGGGATTATGATGCAAGAGATTAAAATTTAGAGGTCCAAAGTGGTCAAAGAATACTC
1 ATGGAAAAAGGGATTATG-TGCAAGAGATTAAAATTTAGAGGTCCAAAGTGGTCAAAGAATACTC
118430 -AAAGAAAATAAAGACAGTTTGAGAGATGTTTACATGTTAGAGTTAG
65 AAAAGAAAATAAAGACAGTTTGAGAGATGTTTACATGTTAGAGTTAG
118476 CTGGTTATGT
Statistics
Matches: 110, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
111 46 0.42
112 18 0.16
113 46 0.42
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.25
Consensus pattern (111 bp):
ATGGAAAAAGGGATTATGTGCAAGAGATTAAAATTTAGAGGTCCAAAGTGGTCAAAGAATACTCA
AAAGAAAATAAAGACAGTTTGAGAGATGTTTACATGTTAGAGTTAG
Found at i:121571 original size:15 final size:16
Alignment explanation
Indices: 121548--121584 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
121538 ATTAAGATAA
121548 AAAATATTATAATACT
1 AAAATATTATAATACT
*
121564 AAAA-ATTATAATATT
1 AAAATATTATAATACT
121579 AAAATA
1 AAAATA
121585 ATAATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATATTATAATACT
Found at i:124853 original size:191 final size:184
Alignment explanation
Indices: 124481--124855 Score: 637
Period size: 191 Copynumber: 2.0 Consensus size: 184
124471 ACGTTTACAA
124481 ACAATTTTCGGTCTCAACATTGTCCACCTCTTCAAGTTTATGAATATTTAATCTTCGGACACATA
1 ACAATTTTCGGTCTCAACATTGTCCACCTCTTCAAGTTTATGAATATTTAATCTTCGGACACATA
124546 GATTATTTCGTGAATCGCTCCTCAAACTCTTGGAGAAACCAAGATTCCGTATTCATTCCCCATAC
66 GATTATTTCGTGAATCGCTCCTCAAACTCTTGGAGAAACCAAGATTCCGTATTCATTCCCCATAC
124611 TCCATACCCGATGCAGCTTGTGTGTGACCATATACAGCCCCATCTGAACTCGCC
131 TCCATACCCGATGCAGCTTGTGTGTGACCATATACAGCCCCATCTGAACTCGCC
*
124665 ACAA-TTTCGGTATTCAACATTGTCCACCTCTACTTCAAGTTTATGAATATTTAATCTTCGGACA
1 ACAATTTTCGGT-CTCAACATTGTCCA-C-CT-CTTCAAGTTTATGAATATTTAATCTTCGGACA
124729 CAATAGATTATTTCGTGAATCGCTCCTCAAACTCTTGGAGAAACCAAAGATTCCGTATTCATTCC
62 C-ATAGATTATTTCGTGAATCGCTCCTCAAACTCTTGGAGAAACC-AAGATTCCGTATTCATTCC
*
124794 CCAATACTCC-TCCTACCGATGCAGCTTGTGTGTGACCATATACAGCCCCATCTGAACTCGCC
125 CC-ATACTCCATAC--CCGATGCAGCTTGTGTGTGACCATATACAGCCCCATCTGAACTCGCC
124856 CTCGTCCACC
Statistics
Matches: 180, Mismatches: 2, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
183 7 0.04
184 17 0.09
185 1 0.01
186 2 0.01
187 33 0.18
188 43 0.24
189 23 0.13
190 7 0.04
191 47 0.26
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (184 bp):
ACAATTTTCGGTCTCAACATTGTCCACCTCTTCAAGTTTATGAATATTTAATCTTCGGACACATA
GATTATTTCGTGAATCGCTCCTCAAACTCTTGGAGAAACCAAGATTCCGTATTCATTCCCCATAC
TCCATACCCGATGCAGCTTGTGTGTGACCATATACAGCCCCATCTGAACTCGCC
Found at i:125867 original size:16 final size:17
Alignment explanation
Indices: 125848--125881 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
125838 TGTTTCACTG
*
125848 AAAATATTTTTCG-AAA
1 AAAAAATTTTTCGTAAA
125864 AAAAAATTTTTCGTAAA
1 AAAAAATTTTTCGTAAA
125881 A
1 A
125882 TGAATTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
AAAAAATTTTTCGTAAA
Found at i:126043 original size:22 final size:21
Alignment explanation
Indices: 126018--126058 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
126008 ATATACTAAA
126018 TAATATTATTATTATAAAAACT
1 TAATATTATTATT-TAAAAACT
126040 TAATATTATTATTTAAAAA
1 TAATATTATTATTTAAAAA
126059 TATTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATATTATTATTTAAAAACT
Found at i:126064 original size:22 final size:21
Alignment explanation
Indices: 126018--126078 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
126008 ATATACTAAA
*
126018 TAATATTATTATTATAAAAACT
1 TAATATTATTATT-TAAAAAAT
126040 TAATATTATTATTTAAAAATAT
1 TAATATTATTATTTAAAAA-AT
* *
126062 TAAAATAATTTATTTAA
1 TAATATTA-TTATTTAA
126079 TATTATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.18
22 20 0.59
23 8 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATTATTATTTAAAAAAT
Found at i:126301 original size:14 final size:14
Alignment explanation
Indices: 126282--126311 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
126272 TATTACTCAC
126282 TATTAATAATTCAA
1 TATTAATAATTCAA
*
126296 TATTAATCATTCAA
1 TATTAATAATTCAA
126310 TA
1 TA
126312 GTATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTAATAATTCAA
Found at i:126469 original size:22 final size:23
Alignment explanation
Indices: 126444--126490 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
126434 TTATATATCA
126444 TTAAAATATTAATAAAT-ATATT
1 TTAAAATATTAATAAATAATATT
* * *
126466 TTAATATGTTAATAATTAATATT
1 TTAAAATATTAATAAATAATATT
126489 TT
1 TT
126491 TTATCAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAAATATTAATAAATAATATT
Found at i:127182 original size:10 final size:10
Alignment explanation
Indices: 127167--127192 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
127157 TAGATTTTTA
127167 ATAAAAAAAT
1 ATAAAAAAAT
127177 ATAAAAAAAT
1 ATAAAAAAAT
127187 ATAAAA
1 ATAAAA
127193 TATTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
ATAAAAAAAT
Found at i:131127 original size:25 final size:26
Alignment explanation
Indices: 131070--131120 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
131060 ATGTTTGAAG
131070 TATAAATTTTCAAAATTTTAGGAAAA
1 TATAAATTTTCAAAATTTTAGGAAAA
131096 TATAAATTTAT-AAAATTTTAGGAAA
1 TATAAATTT-TCAAAATTTTAGGAAA
131121 TGAAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (26 bp):
TATAAATTTTCAAAATTTTAGGAAAA
Found at i:136164 original size:18 final size:18
Alignment explanation
Indices: 136138--136173 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
136128 TCGAAAGGAC
*
136138 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
136156 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
136174 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:137353 original size:23 final size:24
Alignment explanation
Indices: 137306--137396 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
137296 TCAAATTTGA
* * * *
137306 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
137330 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* * *
137353 ATTCTAATCTGATACATGATATGG
1 ATTCTGATCTGATACTTGACATGG
*
137377 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
137397 TTGAATTATG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 20 0.36
24 35 0.64
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:137520 original size:35 final size:35
Alignment explanation
Indices: 137474--137548 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
137464 TGGAGGAAGA
137474 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC
*
137509 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC
137544 TTACT
1 TTACT
137549 GTTCGTGACG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.11, C:0.29, G:0.27, T:0.33
Consensus pattern (35 bp):
TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC
Found at i:141581 original size:18 final size:18
Alignment explanation
Indices: 141555--141590 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
141545 TCGAAAGGAC
*
141555 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
141573 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
141591 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:142771 original size:23 final size:24
Alignment explanation
Indices: 142724--142814 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
142714 TCAAATTTGA
* * * *
142724 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
142748 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* * *
142771 ATTCTAATCTGATACATGATATGG
1 ATTCTGATCTGATACTTGACATGG
*
142795 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
142815 TTGAATTATG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 20 0.36
24 35 0.64
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:142938 original size:35 final size:35
Alignment explanation
Indices: 142892--142966 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
142882 TGGAGGAAGA
142892 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
142927 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
142962 TTACT
1 TTACT
142967 GTTCGTGACG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.09, C:0.31, G:0.27, T:0.33
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
Found at i:143859 original size:2 final size:2
Alignment explanation
Indices: 143770--143839 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
143760 GGGCTATTTA
143770 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
143812 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
143840 GCGTGTACGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:143868 original size:25 final size:25
Alignment explanation
Indices: 143825--143888 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
143815 TATATATATA
*
143825 TATATATATATATATGCGTGTACGTT
1 TATATATAT-TATATGCGTGTACGTC
**
143851 TATATATATTATATGCGTGTGTGTC
1 TATATATATTATATGCGTGTACGTC
*
143876 TATATATAATATA
1 TATATATATTATA
143889 ATATATGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 25 0.74
26 9 0.26
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (25 bp):
TATATATATTATATGCGTGTACGTC
Found at i:145300 original size:20 final size:21
Alignment explanation
Indices: 145267--145321 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
145257 GATTAAAAAA
* * *
145267 ATATTATAAATATTA-ATTAT
1 ATATTATTATTATTATATCAT
145287 ATATTATTATTATTATATCAT
1 ATATTATTATTATTATATCAT
*
145308 -TAATATTATTATTA
1 ATATTATTATTATTA
145322 CATTTTTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTATTATTATTATATCAT
Found at i:145309 original size:17 final size:16
Alignment explanation
Indices: 145275--145319 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
145265 AAATATTATA
145275 AATATTAATTATATATT
1 AATATT-ATTATATATT
*
145292 ATTATTATTATATCATT
1 AATATTATTATAT-ATT
145309 AATATTATTAT
1 AATATTATTAT
145320 TACATTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTATTATATATT
Found at i:145325 original size:17 final size:16
Alignment explanation
Indices: 145275--145325 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
145265 AAATATTATA
*
145275 AATATTAATTATATATT
1 AATATT-ATTATACATT
*
145292 ATTATTATTATATCATT
1 AATATTATTATA-CATT
145309 AATATTATTATTACATT
1 AATATTATTA-TACATT
145326 TTTGTTGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 6 0.21
17 21 0.72
18 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATTATTATACATT
Found at i:147488 original size:17 final size:18
Alignment explanation
Indices: 147456--147490 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
147446 TTAATCAATA
147456 TTTTAATTTGTATAGTTTT
1 TTTTAATTTG-ATAGTTTT
147475 TTTTAATTTG-TAGTTT
1 TTTTAATTTGATAGTTT
147491 GATGTGGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTTAATTTGATAGTTTT
Found at i:151017 original size:15 final size:15
Alignment explanation
Indices: 150999--151036 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
150989 TGAAGAATGA
*
150999 GAAGGAAGTTGTCTT
1 GAAGAAAGTTGTCTT
151014 GAAGAAAGTTGTCTT
1 GAAGAAAGTTGTCTT
151029 GAA-AAAGT
1 GAAGAAAGT
151037 GGGAAGCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (15 bp):
GAAGAAAGTTGTCTT
Found at i:160359 original size:91 final size:91
Alignment explanation
Indices: 160247--160415 Score: 250
Period size: 92 Copynumber: 1.9 Consensus size: 91
160237 GAATCAACAT
160247 TTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCAAAC-GAGAGAGAAGAAGTTCATAATGAGA
1 TTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCAAACAGAGAGAGAAGAAGTTCATAATGAGA
160311 AAAACTTGTTCGATCTCACATCAATG
66 AAAACTTGTTCGATCTCACATCAATG
* * ** * *
160337 TTTCTAGTGGAGAGTTCATAATGAGAAGAACTTATCCGACAGAGGGAGAATAAGTTCATAATGAG
1 TTTC-AGTGAAGAGTTCATAATGAGAAGAACTCATCAAACAGAGAGAGAAGAAGTTCATAATGAG
* *
160402 AAGAGCTTGTTCGA
65 AAAAACTTGTTCGA
160416 CCTATCACTC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
90 4 0.06
91 31 0.45
92 34 0.49
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (91 bp):
TTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCAAACAGAGAGAGAAGAAGTTCATAATGAGA
AAAACTTGTTCGATCTCACATCAATG
Found at i:160516 original size:227 final size:227
Alignment explanation
Indices: 160103--160550 Score: 752
Period size: 227 Copynumber: 2.0 Consensus size: 227
160093 AAGAAGGTGG
160103 ATCAATATTTCCAGTGGAGAGTTCATAATAAGAAAAACTTATCCGACAGAGGGAGAAGAAGTTCA
1 ATCAATATTTCCAGTGGAGAGTTCATAATAAGAAAAACTTATCCGACAGAGGGAGAAGAAGTTCA
* *
160168 TAACGAGAAGAGCTTGTTTGACCTATCACTCGATTCACGGCATTTCAAATCAGTCACGCCTCACT
66 TAACGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAGTCACGCCTCACT
*
160233 TGAGGAATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCAAACGAGAGAGAAGAA
131 TGAGGAATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACCCATCAAACGAGAGAGAAGAA
160298 GTTCATAATGAGAAAAACTTGTTCGATCTCAC
196 GTTCATAATGAGAAAAACTTGTTCGATCTCAC
* * * * *
160330 ATCAATGTTTCTAGTGGAGAGTTCATAATGAGAAGAACTTATCCGACAGAGGGAGAATAAGTTCA
1 ATCAATATTTCCAGTGGAGAGTTCATAATAAGAAAAACTTATCCGACAGAGGGAGAAGAAGTTCA
* * *
160395 TAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTCACGCCTCGCT
66 TAACGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAGTCACGCCTCACT
* * *
160460 TGAGGAATCAATATTTTTAGTGAAGAGTTCATAATGAGAAGAACCCATCCAACGAGAGAGAAGAA
131 TGAGGAATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACCCATCAAACGAGAGAGAAGAA
* *
160525 GTTCATAATGAGAAGAGCTTGTTCGA
196 GTTCATAATGAGAAAAACTTGTTCGA
160551 CCTATCACAC
Statistics
Matches: 205, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
227 205 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (227 bp):
ATCAATATTTCCAGTGGAGAGTTCATAATAAGAAAAACTTATCCGACAGAGGGAGAAGAAGTTCA
TAACGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAGTCACGCCTCACT
TGAGGAATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACCCATCAAACGAGAGAGAAGAA
GTTCATAATGAGAAAAACTTGTTCGATCTCAC
Found at i:160573 original size:135 final size:135
Alignment explanation
Indices: 160330--160682 Score: 503
Period size: 135 Copynumber: 2.6 Consensus size: 135
160320 TCGATCTCAC
* * * * * * *
160330 ATCAATGTTTCTAGTGGAGAGTTCATAATGAGAAGAACTTATCCGACAGAGGGAGAATAAGTTCA
1 ATCAATATTTTTAGTGAAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGAGAGAAGAAGTTCA
*
160395 TAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTCACGCCTCGCT
65 TAATGAGAAGAGCTTGTTCGACCTATCACACGATTCACGACATTTCGAATCAGTCACGCCTCGCT
160460 TGAGGA
130 TGAGGA
*
160466 ATCAATATTTTTAGTGAAGAGTTCATAATGAGAAGAACCCATCCAACGAGAGAGAAGAAGTTCAT
1 ATCAATATTTTTAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAGAAGAAGTTCAT
* * *
160531 AATGAGAAGAGCTTGTTCGACCTATCACACGATTCACGACATTTCGAATCAGTGATGCCTTGCTT
66 AATGAGAAGAGCTTGTTCGACCTATCACACGATTCACGACATTTCGAATCAGTCACGCCTCGCTT
*
160596 GAGGG
131 GAGGA
* * *
160601 ATCAACATTTTTTAGTGAAGAGTTTATAATGAGAAGAACTCGTCCATA--AGAGAGAAGAAGTTC
1 ATCAATA-TTTTTAGTGAAGAGTTCATAATGAGAAGAACTCATCCA-ACGAGAGAGAAGAAGTTC
* *
160664 ATAATGAGAATAACTTGTT
64 ATAATGAGAAGAGCTTGTT
160683 TAATCCAACA
Statistics
Matches: 196, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
135 119 0.61
136 76 0.39
137 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (135 bp):
ATCAATATTTTTAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAGAAGAAGTTCAT
AATGAGAAGAGCTTGTTCGACCTATCACACGATTCACGACATTTCGAATCAGTCACGCCTCGCTT
GAGGA
Found at i:160844 original size:20 final size:21
Alignment explanation
Indices: 160811--160865 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
160801 GATTAAAAAA
* * *
160811 ATATTATAAATATTA-ATTAT
1 ATATTATTATTATTATATCAT
160831 ATATTATTATTATTATATCAT
1 ATATTATTATTATTATATCAT
*
160852 -TAATATTATTATTA
1 ATATTATTATTATTA
160866 CATTTTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTATTATTATTATATCAT
Found at i:160853 original size:17 final size:16
Alignment explanation
Indices: 160819--160863 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
160809 AAATATTATA
160819 AATATTAATTATATATT
1 AATATT-ATTATATATT
*
160836 ATTATTATTATATCATT
1 AATATTATTATAT-ATT
160853 AATATTATTAT
1 AATATTATTAT
160864 TACATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTATTATATATT
Found at i:160869 original size:17 final size:16
Alignment explanation
Indices: 160819--160869 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
160809 AAATATTATA
*
160819 AATATTAATTATATATT
1 AATATT-ATTATACATT
*
160836 ATTATTATTATATCATT
1 AATATTATTATA-CATT
160853 AATATTATTATTACATT
1 AATATTATTA-TACATT
160870 TTTTGTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 6 0.21
17 21 0.72
18 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATTATTATACATT
Found at i:164443 original size:18 final size:19
Alignment explanation
Indices: 164420--164456 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
164410 TTAATATCTA
164420 TTAAAAATAAATT-TTTTT
1 TTAAAAATAAATTGTTTTT
*
164438 TTAAAATTAAATTGTTTTT
1 TTAAAAATAAATTGTTTTT
164457 CTTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTAAAAATAAATTGTTTTT
Found at i:165563 original size:18 final size:18
Alignment explanation
Indices: 165540--165585 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
165530 TATTGTTATA
165540 ATATTA-AAAAATAATATT
1 ATATTATAAAAATAATA-T
*
165558 ATATTATTAAAATAATAT
1 ATATTATAAAAATAATAT
*
165576 ATATTTTAAA
1 ATATTATAAA
165586 TTTTTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTATAAAAATAATAT
Found at i:165586 original size:16 final size:19
Alignment explanation
Indices: 165547--165585 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
165537 ATAATATTAA
165547 AAAATAATATTATATTATT
1 AAAATAATATTATATTATT
165566 AAAATAATA-TATATT-TT
1 AAAATAATATTATATTATT
165583 AAA
1 AAA
165586 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATAATATTATATTATT
Found at i:177231 original size:23 final size:23
Alignment explanation
Indices: 177204--177255 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
177194 AGTTTATTGT
177204 ATATAATAT-CATATATTATTATA
1 ATATAAT-TGCATATATTATTATA
** *
177227 ATATAATTGGGTATATTTTTATA
1 ATATAATTGCATATATTATTATA
177250 ATATAA
1 ATATAA
177256 AAAATAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (23 bp):
ATATAATTGCATATATTATTATA
Found at i:177280 original size:23 final size:25
Alignment explanation
Indices: 177254--177299 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
177244 TTTATAATAT
177254 AAAAAATAATAT-TATAT-TATTAA
1 AAAAAATAATATATATATATATTAA
*
177277 AAAAATTAATATATATATATATT
1 AAAAAATAATATATATATATATT
177300 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 5 0.25
25 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAAAATAATATATATATATATTAA
Done.