Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001152.1 Hibiscus syriacus cultivar Beakdansim tig00002296_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: 127240
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:6261 original size:16 final size:16
Alignment explanation
Indices: 6240--6272 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6230 TACTATTCAT
*
6240 GTGAATAGTGAATTTC
1 GTGAATAGTGAAATTC
6256 GTGAATAGTGAAATTC
1 GTGAATAGTGAAATTC
6272 G
1 G
6273 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (16 bp):
GTGAATAGTGAAATTC
Found at i:10311 original size:16 final size:16
Alignment explanation
Indices: 10279--10309 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10269 TGGCAACCAA
10279 CTTTGGAAAAATGTTT
1 CTTTGGAAAAATGTTT
10295 CTTT-GAAAAATGTTT
1 CTTTGGAAAAATGTTT
10310 TCAAAGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (16 bp):
CTTTGGAAAAATGTTT
Found at i:15152 original size:17 final size:17
Alignment explanation
Indices: 15130--15162 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15120 AGCCTGAAGA
15130 AGACAAGCAAAA-AAGTT
1 AGACAA-CAAAACAAGTT
15147 AGACAACAAAACAAGT
1 AGACAACAAAACAAGT
15163 GATGGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.61, C:0.15, G:0.15, T:0.09
Consensus pattern (17 bp):
AGACAACAAAACAAGTT
Found at i:20177 original size:24 final size:24
Alignment explanation
Indices: 20150--20237 Score: 140
Period size: 24 Copynumber: 3.7 Consensus size: 24
20140 TTCTATTATA
*
20150 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
*
20174 ATACTTGACCTGGATTCTGATCGA
1 ATACTTGACCTGGATTCTGATCGG
* *
20198 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
20222 ATACTTGACCTGGATT
1 ATACTTGACCTGGATT
20238 ATGTTTTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:33170 original size:21 final size:21
Alignment explanation
Indices: 33144--33185 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
33134 ACTGAAAAAA
33144 AAATATTTTGTGGGCTATTGG
1 AAATATTTTGTGGGCTATTGG
33165 AAATATTTTGTGGGCTATTGG
1 AAATATTTTGTGGGCTATTGG
33186 GGGTGCCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.43
Consensus pattern (21 bp):
AAATATTTTGTGGGCTATTGG
Found at i:33739 original size:2 final size:2
Alignment explanation
Indices: 33732--33757 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33722 CATGATAATA
33732 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
33758 ACACACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:36620 original size:11 final size:11
Alignment explanation
Indices: 36604--36635 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
36594 CCACGGTTGG
36604 AGAAGAAGAAA
1 AGAAGAAGAAA
36615 AGAAGAAGAAA
1 AGAAGAAGAAA
*
36626 GGAAGAAGAA
1 AGAAGAAGAA
36636 TATGATGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (11 bp):
AGAAGAAGAAA
Found at i:41780 original size:46 final size:46
Alignment explanation
Indices: 41713--41804 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
41703 GGTGCACGGG
41713 TATTCGATTTTAAATTCTGAGAGGGTGGATCAAATATGCTCCAATT
1 TATTCGATTTTAAATTCTGAGAGGGTGGATCAAATATGCTCCAATT
41759 TATTCGATTTTAAATTCTGAGAGGGTGGATCAAATATGCTCCAATT
1 TATTCGATTTTAAATTCTGAGAGGGTGGATCAAATATGCTCCAATT
41805 CTTCTAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (46 bp):
TATTCGATTTTAAATTCTGAGAGGGTGGATCAAATATGCTCCAATT
Found at i:52597 original size:13 final size:13
Alignment explanation
Indices: 52579--52617 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
52569 GAATATTTCA
52579 GTTCAGAGGAAAC
1 GTTCAGAGGAAAC
*
52592 GTTCAGAGGAAGC
1 GTTCAGAGGAAAC
52605 GTTCAGAGGAAAC
1 GTTCAGAGGAAAC
52618 ATTATGAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.33, T:0.15
Consensus pattern (13 bp):
GTTCAGAGGAAAC
Found at i:62325 original size:32 final size:32
Alignment explanation
Indices: 62255--62325 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
62245 ACAGATTAAG
*
62255 AAATGATTACTTGAATTACATATACATGGACA
1 AAATGATTACTTGAATTACATACACATGGACA
** * *
62287 TGATGATTACTTGAATTACATGCACATGGATA
1 AAATGATTACTTGAATTACATACACATGGACA
62319 AAATGAT
1 AAATGAT
62326 AAATGAGTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (32 bp):
AAATGATTACTTGAATTACATACACATGGACA
Found at i:62809 original size:11 final size:12
Alignment explanation
Indices: 62793--62834 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
62783 TTTCCCCTTT
62793 TTTTATTATA-A
1 TTTTATTATACA
62804 TTTTA-TATACA
1 TTTTATTATACA
*
62815 TTTTATAATACA
1 TTTTATTATACA
62827 TTATTATT
1 TT-TTATT
62835 TTTCAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 4 0.15
11 11 0.42
12 7 0.27
13 4 0.15
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTATTATACA
Found at i:72368 original size:15 final size:15
Alignment explanation
Indices: 72348--72376 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
72338 AACTAACATA
72348 AAAGTTGTTTTGCAC
1 AAAGTTGTTTTGCAC
72363 AAAGTTGTTTTGCA
1 AAAGTTGTTTTGCA
72377 TTTTCTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (15 bp):
AAAGTTGTTTTGCAC
Found at i:75106 original size:60 final size:60
Alignment explanation
Indices: 74973--75088 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
74963 ATCAGGTGAC
* * * *
74973 CATTTTATAACTTTTAATAGTCGAAAGACTCAACAAAGCAGCATCCTATAGTTTGAGAAA
1 CATTTTGTAACTTTTAATAGTCGAAAGACTCAACAAAACAGCAACCTATAGTTCGAGAAA
** *
75033 CATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAAC-GTAACCTTATAG-TCGAG
1 CATTTTGTAACTTTTAATAGTCGAAAGACTCAACAAAACAGCAACC-TATAGTTCGAG
75089 GGACTATTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 8 0.17
60 40 0.83
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAGTCGAAAGACTCAACAAAACAGCAACCTATAGTTCGAGAAA
Found at i:77187 original size:60 final size:60
Alignment explanation
Indices: 77077--77194 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 60
77067 ATAGTCAAGT
* * ** * * *
77077 GATTATTTTGTAACTTTTAATTGTCGGGAGACTCAGCAAAACAACGCCCTATAGTCGGAG
1 GATTATGTTGTAACTTATAATAATCGGGAGACTCAACAAAACAACACCCTATAATCGGAG
* * * *
77137 GATTATGTTGTAACTTATAATAATCGGGGGACTCAATAAAACTATACCCTATAATCGG
1 GATTATGTTGTAACTTATAATAATCGGGAGACTCAACAAAACAACACCCTATAATCGG
77195 GGACCATATG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (60 bp):
GATTATGTTGTAACTTATAATAATCGGGAGACTCAACAAAACAACACCCTATAATCGGAG
Found at i:78846 original size:18 final size:17
Alignment explanation
Indices: 78806--78848 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
78796 AATTTTAAAT
78806 TTAAATAATTATATTTA
1 TTAAATAATTATATTTA
*
78823 TAAAATATATGTATA-TTA
1 TTAAATA-AT-TATATTTA
78841 TTAAATAA
1 TTAAATAA
78849 ATACTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TTAAATAATTATATTTA
Found at i:80507 original size:17 final size:18
Alignment explanation
Indices: 80469--80507 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
80459 TTCATAGATA
80469 ATATTTATTTTAAAATTT
1 ATATTTATTTTAAAATTT
*
80487 -TATTTGTTTT-AAATTT
1 ATATTTATTTTAAAATTT
80503 ATATT
1 ATATT
80508 ATTAATAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
ATATTTATTTTAAAATTT
Found at i:83075 original size:11 final size:11
Alignment explanation
Indices: 83056--83085 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
83046 TTAAATTATT
*
83056 ATATATTTTAG
1 ATATTTTTTAG
83067 ATATTTTTTAG
1 ATATTTTTTAG
83078 ATATTTTT
1 ATATTTTT
83086 ATTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
ATATTTTTTAG
Found at i:89502 original size:52 final size:52
Alignment explanation
Indices: 89421--89523 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
89411 TTTTTTAAAT
* * * * *
89421 TGGTCTTTAAACTTTTTAATATTTCAATTTCATTCCAAAACTATAACCCTCA
1 TGGTCCTTAAACTTTTGAACATTTCAATTTAATCCCAAAACTATAACCCTCA
* *
89473 TGGTCCTTAAACTTTTGAACA-TTCTAATTTAATCCCTAAACTATGACCCTC
1 TGGTCCTTAAACTTTTGAACATTTC-AATTTAATCCCAAAACTATAACCCTC
89524 TTTCTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 3 0.07
52 40 0.93
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (52 bp):
TGGTCCTTAAACTTTTGAACATTTCAATTTAATCCCAAAACTATAACCCTCA
Found at i:89805 original size:60 final size:60
Alignment explanation
Indices: 89741--89886 Score: 154
Period size: 60 Copynumber: 2.4 Consensus size: 60
89731 TTTGGGGGCC
** * *
89741 AATTTAGAATGAAGGTCATAATTTGGGGATGAAATTGAAATGTATAAAAG-TTAGAGGACT
1 AATTTAGAATGAAGGTCATAATTTAAGGATGAAATTAAAATATATAAAAGTTTA-AGGACT
* * *
89801 AATTTAGAATGGTAA--TCATAGTTTAAGGATGAAATTAAAATATTTAAAAGTTTAAGGATT
1 AATTTAGAAT-G-AAGGTCATAATTTAAGGATGAAATTAAAATATATAAAAGTTTAAGGACT
* * *
89861 AATTTAAAATGAGGGTCATACTTTAA
1 AATTTAGAATGAAGGTCATAATTTAA
89887 AGACATGAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
58 1 0.01
59 1 0.01
60 63 0.89
61 4 0.06
62 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (60 bp):
AATTTAGAATGAAGGTCATAATTTAAGGATGAAATTAAAATATATAAAAGTTTAAGGACT
Found at i:90976 original size:32 final size:33
Alignment explanation
Indices: 90935--91012 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
90925 TTTAAATAGT
* *
90935 TATTATTTTTTA-TATTAAT-ATATTTATGTAAA
1 TATTATTTTTTATTA-AAATAATATTTATATAAA
*
90967 TATTATTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATTAAAATAATATTTATATAAA
91000 TATTATTTATTTA
1 TATTATTT-TTTA
91013 GAATTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.38
33 21 0.52
34 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
TATTATTTTTTATTAAAATAATATTTATATAAA
Found at i:92750 original size:21 final size:21
Alignment explanation
Indices: 92720--92767 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
92710 GCAGGGGTAC
* *
92720 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
92741 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
92762 ATGCCA
1 ATGCCA
92768 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:92797 original size:21 final size:21
Alignment explanation
Indices: 92771--92864 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
92761 TATGCCATCT
* *
92771 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
92792 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
92813 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
92834 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
92855 CCGCAGGGTT
1 CCGCAGGGTT
92865 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:93437 original size:33 final size:35
Alignment explanation
Indices: 93378--93474 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 35
93368 AAATGTTTTT
*
93378 AAAATACAAATTATATTATTCGAAATTTAAAAT-A
1 AAAATAAAAATTATATTATTCGAAATTTAAAATGA
* *
93412 AAAATAAAAATAATATTATTC-AAATTT-AAATGT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATGA
* *
93445 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
93475 CATTAAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
32 4 0.07
33 24 0.44
34 25 0.46
35 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (35 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATGA
Found at i:94216 original size:126 final size:126
Alignment explanation
Indices: 93797--94525 Score: 1408
Period size: 126 Copynumber: 5.8 Consensus size: 126
93787 TTTAAGTTAT
*
93797 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
93862 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
93923 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
93988 GCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
94048 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
94113 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
94174 TCCCCGAGGGACATAAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
94239 GCGCCACCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
94300 T-CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
94364 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
94425 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
94490 GCGCCCCAGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
94526 CCGATTATAG
Statistics
Matches: 595, Mismatches: 6, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
125 248 0.42
126 347 0.58
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (126 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:94240 original size:251 final size:251
Alignment explanation
Indices: 93797--94525 Score: 1415
Period size: 251 Copynumber: 2.9 Consensus size: 251
93787 TTTAAGTTAT
*
93797 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
93862 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
93927 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
93992 CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
196 CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
94048 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
94113 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
*
94178 CGAGGGACATAAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
94243 CACCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
196 C-CCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
94300 T-CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
94364 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
94429 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
94494 CCCAGGGAACGCGCCTTCATGTGAATAGTGAA
196 CCC-GGGAACGCGCCTTCATGTGAATAGTGAA
94526 CCGATTATAG
Statistics
Matches: 473, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
250 2 0.00
251 415 0.88
252 56 0.12
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (251 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:94491 original size:377 final size:377
Alignment explanation
Indices: 93797--94525 Score: 1406
Period size: 377 Copynumber: 1.9 Consensus size: 377
93787 TTTAAGTTAT
* *
93797 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATAAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
93862 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCACCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
93927 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
93992 CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGG
196 CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGG
*
94057 GACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCG
261 GACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCAG
94122 GGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
326 GGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
94174 TCCCCGAGGGACATAAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATAAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
94239 GCGCCACCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGT-CC
66 GCGCCACCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
94303 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCG-
94368 CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAG
195 CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAG
94433 GGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCA
260 GGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCA
94498 GGGAACGCGCCTTCATGTGAATAGTGAA
325 GGGAACGCGCCTTCATGTGAATAGTGAA
94526 CCGATTATAG
Statistics
Matches: 347, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
376 66 0.19
377 281 0.81
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (377 bp):
TCCCCGAGGGACATAAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCACCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGG
GACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCAG
GGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:94606 original size:8 final size:8
Alignment explanation
Indices: 94593--94633 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
94583 TCACAATCTT
94593 TCAAATTC
1 TCAAATTC
94601 TCAAATTC
1 TCAAATTC
* *
94609 CCAAACTC
1 TCAAATTC
94617 T-AAATTC
1 TCAAATTC
94624 TCAAATTC
1 TCAAATTC
94632 TC
1 TC
94634 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:100344 original size:3 final size:3
Alignment explanation
Indices: 100336--100404 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
100326 AGATAAGGTA
100336 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
100384 AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG
100405 GGAGTGGAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:100683 original size:27 final size:27
Alignment explanation
Indices: 100652--100712 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
100642 ATGCATAATT
**
100652 ATATTTTTCATTTATGATAAAATTTTA
1 ATATTTTTCATTTATGATAAAATTAAA
* *
100679 ATA-TTTTCATTTATTATGAAATTAAA
1 ATATTTTTCATTTATGATAAAATTAAA
100705 ATATTTTT
1 ATATTTTT
100713 ATTGATTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (27 bp):
ATATTTTTCATTTATGATAAAATTAAA
Found at i:109723 original size:29 final size:29
Alignment explanation
Indices: 109673--109853 Score: 265
Period size: 29 Copynumber: 6.3 Consensus size: 29
109663 CACATTCAAA
*
109673 AATTACAAAAATATCACT-TTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* * *
109701 AATTACCAAAATATCATTATTTTTAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* *
109730 AATTACCAGAATATCACCGTTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
109759 AATTACCAAAATATCACTGTTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* *
109788 AGTTACCAAAATATCACCGTTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
* *
109817 AGTTACCAAAATATCACTATTTTAAAAAT
1 AATTACCAAAATATCACTGTTTTAAAAAT
109846 AATTACCA
1 AATTACCA
109854 TATAAAAATA
Statistics
Matches: 137, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
28 16 0.12
29 121 0.88
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (29 bp):
AATTACCAAAATATCACTGTTTTAAAAAT
Found at i:109762 original size:58 final size:58
Alignment explanation
Indices: 109673--109937 Score: 349
Period size: 58 Copynumber: 4.8 Consensus size: 58
109663 CACATTCAAA
* * * *
109673 AATTACAAAAATATCA-CTTTTTAAAAATAATTACCAAAATATCATTATTTTTAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTATTTTAAAAAT
* *
109730 AATTACCAGAATATCACCGTTTTAAAAATAATTACCAAAATATCACTGTTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTATTTTAAAAAT
* *
109788 AGTTACCAAAATATCACCGTTTTAAAAATAGTTACCAAAATATCACTATTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTATTTTAAAAAT
*
109846 AATTACC-----AT-A------TAAAAATAATTACCAAAATATCACTGTTTTAAAAAT
1 AATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTATTTTAAAAAT
*
109892 AATTACCAAAATATCACCGTTTTAAAAATAATTCCCAAAATATCAC
1 AATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCAC
109938 AGGGCCGGGT
Statistics
Matches: 181, Mismatches: 14, Indels: 25
0.82 0.06 0.11
Matches are distributed among these distances:
46 41 0.23
51 2 0.01
52 2 0.01
53 2 0.01
57 14 0.08
58 120 0.66
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (58 bp):
AATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACTATTTTAAAAAT
Found at i:109860 original size:46 final size:46
Alignment explanation
Indices: 109810--109899 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
109800 ATCACCGTTT
*
109810 TAAAAATAGTTACCAAAATATCACTATTTTAAAAATAATTACCATA
1 TAAAAATAATTACCAAAATATCACTATTTTAAAAATAATTACCATA
*
109856 TAAAAATAATTACCAAAATATCACTGTTTTAAAAATAATTACCA
1 TAAAAATAATTACCAAAATATCACTATTTTAAAAATAATTACCA
109900 AAATATCACC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.32
Consensus pattern (46 bp):
TAAAAATAATTACCAAAATATCACTATTTTAAAAATAATTACCATA
Found at i:109860 original size:75 final size:75
Alignment explanation
Indices: 109781--109924 Score: 243
Period size: 75 Copynumber: 1.9 Consensus size: 75
109771 ATCACTGTTT
* * *
109781 TAAAAATAGTTACCAAAATATCACCGTTTTAAAAATAGTTACCAAAATATCACTATTTTAAAAAT
1 TAAAAATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACCATTTTAAAAAT
109846 AATTACCATA
66 AATTACCATA
* *
109856 TAAAAATAATTACCAAAATATCACTGTTTTAAAAATAATTACCAAAATATCACCGTTTTAAAAAT
1 TAAAAATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACCATTTTAAAAAT
109921 AATT
66 AATT
109925 CCCAAAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (75 bp):
TAAAAATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACCATTTTAAAAAT
AATTACCATA
Found at i:109873 original size:29 final size:28
Alignment explanation
Indices: 109856--109937 Score: 128
Period size: 29 Copynumber: 2.9 Consensus size: 28
109846 AATTACCATA
*
109856 TAAAAATAATTACCAAAATATCACTGTTT
1 TAAAAATAATTACCAAAATATCAC-CTTT
109885 TAAAAATAATTACCAAAATATCACCGTTT
1 TAAAAATAATTACCAAAATATCACC-TTT
*
109914 TAAAAATAATTCCCAAAATATCAC
1 TAAAAATAATTACCAAAATATCAC
109938 AGGGCCGGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.30
Consensus pattern (28 bp):
TAAAAATAATTACCAAAATATCACCTTT
Found at i:117689 original size:57 final size:57
Alignment explanation
Indices: 117620--117738 Score: 238
Period size: 57 Copynumber: 2.1 Consensus size: 57
117610 GCCGCACAAA
117620 ATATGACAGATTTTCCTTTAAGTAGCATTTAAGCTCAAGTATGTACATCCTAAACAG
1 ATATGACAGATTTTCCTTTAAGTAGCATTTAAGCTCAAGTATGTACATCCTAAACAG
117677 ATATGACAGATTTTCCTTTAAGTAGCATTTAAGCTCAAGTATGTACATCCTAAACAG
1 ATATGACAGATTTTCCTTTAAGTAGCATTTAAGCTCAAGTATGTACATCCTAAACAG
117734 ATATG
1 ATATG
117739 GATTGCTTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (57 bp):
ATATGACAGATTTTCCTTTAAGTAGCATTTAAGCTCAAGTATGTACATCCTAAACAG
Found at i:118978 original size:2 final size:2
Alignment explanation
Indices: 118971--119010 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
118961 AAATGAGTGT
*
118971 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
119011 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:121532 original size:20 final size:20
Alignment explanation
Indices: 121504--121553 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
121494 TTTAAATTTG
121504 ATAAAATTA-AACTACATACA
1 ATAAAATTATAACTA-ATACA
*
121524 ATAACATTATAACTAATACA
1 ATAAAATTATAACTAATACA
* *
121544 TTTAAATTAT
1 ATAAAATTAT
121554 GAACAAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAAAATTATAACTAATACA
Found at i:122325 original size:305 final size:309
Alignment explanation
Indices: 121727--122651 Score: 1414
Period size: 305 Copynumber: 3.0 Consensus size: 309
121717 GGTGATAGGA
*
121727 GTGAGCAACTCGACTCGAAAAATAAATCTTTCAGGTTCAAATTGACTCAACTCGACTTAAAAAAG
1 GTGAGCAACTCGACTCGAAAAATCAATCTTTCAGGTTCAAATTGACTCAACTCGACTTAAAAAAG
* *
121792 TTTTCAAGTTCGAGCCGAGTTAGAAAAATAGAACTCGAATAACTCAAATTTTCTAAATATTAATG
66 TTTTCAAGTTCGAGCCGAGTTA-AAAAATAGAACTCGAATAACTCAAAATTT-TAATTATTAATG
*
121857 GATTGATTTTCATGTTTAAGTCGAGTCTCTCAATCATGTATAATATATGTATATCACATATGAAA
129 GATTGATTTTCATGTTTAAATCGAGTCTCTCAATCATGTATAATATATGTATATCACATATGAAA
* *
121922 AAATATATATGCATCGTATATGATTAT-AAAAGTTGTTTAAATTAAAATCAAATAGTACCATCAT
194 AAATACATATGCATCGTATATGATTATAAAAAGTTGTTTAAATTAAAATCAAATAGTACCATAAT
*
121986 ATTATAAATATCCAAAATTAAATTTTGAATCGAAACTCAAATAATTTGAGG
259 ATTATAAATATTCAAAATTAAATTTTGAATCGAAACTCAAATAATTTGAGG
* * * * *
122037 GTGAGCTACTCGAATCGAAAAATCAATCTTTCAGGTTC-AACTAACTCAACTTGACTTAAAAAAG
1 GTGAGCAACTCGACTCGAAAAATCAATCTTTCAGGTTCAAATTGACTCAACTCGACTTAAAAAAG
* *
122101 TTTTCAAGTTCGAGCC-ACGTTAAAAAGTAGAACTAGAATAACTCAAAATTTTAATTATTAATGG
66 TTTTCAAGTTCGAGCCGA-GTTAAAAAATAGAACTCGAATAACTCAAAATTTTAATTATTAATGG
* * *
122165 ATTGATTTTCATGTTTAATTCGAGTATCTCAATCATGTATGATATATGTATATCACATATG-AAA
130 ATTGATTTTCATGTTTAAATCGAGTCTCTCAATCATGTATAATATATGTATATCACATATGAAAA
* * *
122229 AA-A-ATATGCATCGTATATGATTATAAAAATTTATTTAAATTAAAATCGAATAGTACCATAATA
195 AATACATATGCATCGTATATGATTATAAAAAGTTGTTTAAATTAAAATCAAATAGTACCATAATA
*
122292 TTATAAATATTCAAAATTAAATTTGGAATCGAAACTCAAATAATTTGAGG
260 TTATAAATATTCAAAATTAAATTTTGAATCGAAACTCAAATAATTTGAGG
* * * * *
122342 GTGAGCAAATCGACTCGAAAAATCAATCTTTCATGTTCAAATTGACTTAGCTCGACTTAAAAAGG
1 GTGAGCAACTCGACTCGAAAAATCAATCTTTCAGGTTCAAATTGACTCAACTCGACTTAAAAAAG
*
122407 TTTTCAAGTTCGGGCCGAGTTAAAAAAAATAGAACTCGAATAACTCAAAATTTTTAATTATTAAT
66 TTTTCAAGTTCGAGCCGAGTT--AAAAAATAGAACTCGAATAACTCAAAA-TTTTAATTATTAAT
* * *
122472 AGATTGATTTTCATGTTTAAATCGAGTCTCTCAATCATGTATAATATAAGTATATCACAAATGAA
128 GGATTGATTTTCATGTTTAAATCGAGTCTCTCAATCATGTATAATATATGTATATCACATATGAA
* * * * *
122537 AAAATACATATGCATCATATATAATTATAAAAAGATGTTTAAATTAAAAT-AAATTAATAACATA
193 AAAATACATATGCATCGTATATGATTATAAAAAGTTGTTTAAATTAAAATCAAA-TAGTACCATA
*
122601 ATATTATAAATATTCAAAATTTAATTTTGAATCGAAACTCAAATAATTTGA
257 ATATTATAAATATTCAAAATTAAATTTTGAATCGAAACTCAAATAATTTGA
122652 TTCAATTTAA
Statistics
Matches: 556, Mismatches: 48, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
304 21 0.04
305 117 0.21
306 43 0.08
307 71 0.13
308 52 0.09
309 114 0.21
310 40 0.07
311 3 0.01
312 95 0.17
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (309 bp):
GTGAGCAACTCGACTCGAAAAATCAATCTTTCAGGTTCAAATTGACTCAACTCGACTTAAAAAAG
TTTTCAAGTTCGAGCCGAGTTAAAAAATAGAACTCGAATAACTCAAAATTTTAATTATTAATGGA
TTGATTTTCATGTTTAAATCGAGTCTCTCAATCATGTATAATATATGTATATCACATATGAAAAA
ATACATATGCATCGTATATGATTATAAAAAGTTGTTTAAATTAAAATCAAATAGTACCATAATAT
TATAAATATTCAAAATTAAATTTTGAATCGAAACTCAAATAATTTGAGG
Found at i:126260 original size:83 final size:83
Alignment explanation
Indices: 126117--126277 Score: 225
Period size: 83 Copynumber: 1.9 Consensus size: 83
126107 AGGGATAAAC
* *
126117 TAACGCAAAAATAAGAATGAGTAGAATGCGTAGAGTTATTATCGTGATACTCTCATTAATGTAAA
1 TAACGCAAAAATAAGAATGAGTAGAATGCGCAGAGTTATTATCGTGATACTCTCAATAATGTAAA
*
126182 TAAGATACTGTGCCAATT
66 TAAGATACCGTGCCAATT
* * * * *
126200 TAACGCAAAAATTAGAATGAGTAGAATGTGCAGAGTTATTCTTGTTATACT-TCCAATAATGTAA
1 TAACGCAAAAATAAGAATGAGTAGAATGCGCAGAGTTATTATCGTGATACTCT-CAATAATGTAA
*
126264 ATAAGCTACCGTGC
65 ATAAGATACCGTGC
126278 TAAGTTGCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 1 0.01
83 67 0.99
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (83 bp):
TAACGCAAAAATAAGAATGAGTAGAATGCGCAGAGTTATTATCGTGATACTCTCAATAATGTAAA
TAAGATACCGTGCCAATT
Done.