Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001454.1 Hibiscus syriacus cultivar Beakdansim tig00002807_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: 120243
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:13351 original size:18 final size:19
Alignment explanation
Indices: 13315--13351 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13305 TGCTCGTCCC
13315 ATCCCCGAACCCGAAATGA
1 ATCCCCGAACCCGAAATGA
*
13334 ATCCCCGATCCC-AAATGA
1 ATCCCCGAACCCGAAATGA
13352 GTTTTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.38, G:0.14, T:0.14
Consensus pattern (19 bp):
ATCCCCGAACCCGAAATGA
Found at i:26382 original size:51 final size:51
Alignment explanation
Indices: 26155--26631 Score: 494
Period size: 51 Copynumber: 9.0 Consensus size: 51
26145 CTTCAAATGG
* * * * *
26155 CGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAATAAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAA
* * * * * *
26210 CGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATTTTCATA-GAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCA-ACAAA
* ** * *
26265 CGAGTTTGCTCCCTA-TCCGTTCAGGGAGTATA-GATTTCGAACAATCTTCATA-AAA
1 CGTGTCCGCTCCCTATTCC-TTCAGAGAGTATAGGA---C--TCAATCTTCA-ACAAA
* * * *
26320 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAA
*
26371 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACGAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAA
* *
26426 CTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAA
* *
26477 CTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAA
* *
26528 CTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAA
*
26579 CTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAA
26630 CG
1 CG
26632 AGTTTGCTTC
Statistics
Matches: 380, Mismatches: 28, Indels: 32
0.86 0.06 0.07
Matches are distributed among these distances:
50 1 0.00
51 213 0.56
53 1 0.00
54 3 0.01
55 155 0.41
56 6 0.02
57 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (51 bp):
CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAA
Found at i:26434 original size:106 final size:106
Alignment explanation
Indices: 26155--26618 Score: 514
Period size: 106 Copynumber: 4.4 Consensus size: 106
26145 CTTCAAATGG
* * * * * *
26155 CGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGGTCCGCT
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGGGTCCGCT
* * * *
26220 CCCTATTCATTCAGGGAGTAT-AGAACTCGAACAATTTTCATA-GAA
66 CCCTATTCCTTCAGAGAGTATAAG-ACT----CAATCTTCA-ACAAA
* ** * * *
26265 CGAGTTTGCTCCCTA-TCCGTTCAGGGAGTATA-GATTTCGAACAATCTTCATA-AAACGGGTCC
1 CGTGTCCGCTCCCTATTCC-TTCAGAGAGTATAGGA-CTCAAACAATCTTCA-ACAAACGGGTCC
* *
26327 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAA
63 GCTCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAA
* **
26371 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACGAACTTGTCCGCT
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGGGTCCGCT
* *
26436 CCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAA
66 CCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAA
* * **
26477 CTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCCGCT
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGGGTCCGCT
* *
26538 CCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAA
66 CCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAA
*
26579 CTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAA
1 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAA
26619 TCTTCAACAA
Statistics
Matches: 320, Mismatches: 23, Indels: 27
0.86 0.06 0.07
Matches are distributed among these distances:
102 102 0.32
105 2 0.01
106 129 0.40
107 5 0.02
109 4 0.01
110 75 0.23
111 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (106 bp):
CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGGGTCCGCT
CCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAA
Found at i:34994 original size:17 final size:17
Alignment explanation
Indices: 34972--35012 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
34962 TTTTCTTTCT
34972 TGGTCTGGGAAGGGGGA
1 TGGTCTGGGAAGGGGGA
*
34989 TGGTCTAGGAAGGGGGA
1 TGGTCTGGGAAGGGGGA
35006 TGGTCTG
1 TGGTCTG
35013 TTCTCGGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.07, G:0.54, T:0.22
Consensus pattern (17 bp):
TGGTCTGGGAAGGGGGA
Found at i:46984 original size:40 final size:40
Alignment explanation
Indices: 46940--47059 Score: 170
Period size: 40 Copynumber: 3.0 Consensus size: 40
46930 AACAAAAAAA
* * * *
46940 AGAGATATGAGTTGTAGAATATTTAAACTATTTAGTTATT
1 AGAGATAAGAGTTATAGAATATCTAAACTACTTAGTTATT
* *
46980 AGAGATAAGAGTTCTAGGATATCTAAACTACTTAGTTATT
1 AGAGATAAGAGTTATAGAATATCTAAACTACTTAGTTATT
47020 AGAGATAAGAGTTATAGGAA-ATCTAAACTACTTAGTTATT
1 AGAGATAAGAGTTATA-GAATATCTAAACTACTTAGTTATT
47060 TACAGTAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 70 0.97
41 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (40 bp):
AGAGATAAGAGTTATAGAATATCTAAACTACTTAGTTATT
Found at i:51045 original size:30 final size:30
Alignment explanation
Indices: 50988--51045 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
50978 AAACCATTAG
* *
50988 ACATCAATATTAAAAATAATTCGAATATAA
1 ACATCAATATTAAAAAGAATTCAAATATAA
*
51018 ACATCAATATTAAAAAGAATTTAAATAT
1 ACATCAATATTAAAAAGAATTCAAATAT
51046 TAATAGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (30 bp):
ACATCAATATTAAAAAGAATTCAAATATAA
Found at i:56737 original size:75 final size:75
Alignment explanation
Indices: 56614--56796 Score: 287
Period size: 75 Copynumber: 2.4 Consensus size: 75
56604 CTTAACCGGT
** * *
56614 TAAAATAAAATAGGCGCTATTTATTATGTTAAAATACATACCGATTTGTTTGAAGGTTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAAATACATACCGATTTGTTTAAAGGTTACTAATA
56679 ATGTAAACAG
66 ATGTAAACAG
*
56689 TAAAATAAAATAGGCGCTACCTATTACGTTAAAATATC-TACCGGTTTGTTTAAAGGTTACTAAT
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAAATA-CATACCGATTTGTTTAAAGGTTACTAAT
*
56753 AATTTAAACAG
65 AATGTAAACAG
*
56764 TAAAATAAAATAGACGCTACCTATTACGTTAAA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAA
56797 TAATCGCTAC
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
75 99 0.99
76 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (75 bp):
TAAAATAAAATAGGCGCTACCTATTACGTTAAAATACATACCGATTTGTTTAAAGGTTACTAATA
ATGTAAACAG
Found at i:56812 original size:98 final size:98
Alignment explanation
Indices: 56703--56894 Score: 264
Period size: 98 Copynumber: 2.0 Consensus size: 98
56693 ATAAAATAGG
* * *
56703 CGCTACCTATTACGTTAAAATA-TCTACCGGTTTGTTTAAAGGTTACTAATAATTTAAACAG-TA
1 CGCTACATATTACGTTAAAATACT-TACCAGTTTGTTTAAAGGTTACTAATAATGTAAA-AGATA
*
56766 AAATAAAAT-AGACGCTACCTATTACGTTAAATAAT
64 AAATAAAATAAG-CGCTACCTATTACATTAAATAAT
* * * *
56801 CGCTACATATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAATGATAAA
1 CGCTACATATTACGTTAAAATACTTACCAGTTTGTTTAAAGGTTACTAATAATGTAAAAGATAAA
56866 ATAAAATAAGCGCTACCTATTACATTAAA
66 ATAAAATAAGCGCTACCTATTACATTAAA
56895 ATGTTTATCG
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
97 1 0.01
98 79 0.95
99 3 0.04
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (98 bp):
CGCTACATATTACGTTAAAATACTTACCAGTTTGTTTAAAGGTTACTAATAATGTAAAAGATAAA
ATAAAATAAGCGCTACCTATTACATTAAATAAT
Found at i:56880 original size:75 final size:75
Alignment explanation
Indices: 56794--56969 Score: 226
Period size: 75 Copynumber: 2.3 Consensus size: 75
56784 CTATTACGTT
* * * *
56794 AAATAATCGCTACATATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAA
1 AAATAAGCGCTACCTATTACGTTAAAATACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAA
*
56859 TGATAAAATA
66 GGATAAAATA
* ** * *
56869 AAATAAGCGCTACCTATTACATTAAAATGTTTATCGGTTTGTTTAAAGGTTATTAATAATGTAAA
1 AAATAAGCGCTACCTATTACGTTAAAATACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAA
*
56934 GGGTAAAATA
66 GGATAAAATA
* * *
56944 GAATATGTGCTACCTATTACGTTAAA
1 AAATAAGCGCTACCTATTACGTTAAA
56970 TAAACGCTAC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 86 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (75 bp):
AAATAAGCGCTACCTATTACGTTAAAATACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAA
GGATAAAATA
Found at i:56928 original size:173 final size:173
Alignment explanation
Indices: 56635--57008 Score: 520
Period size: 173 Copynumber: 2.2 Consensus size: 173
56625 AGGCGCTATT
* * * *
56635 TATTATGTTAAAATACATA-CCGATTTGTTTGAAGGTTACTAATAATGTAAACAGTAAAATAAAA
1 TATTATGTTAAACTACTTATCAG-TTTGTTTAAAGGTTACTAATAATGTAAACAGTAAAATAAAA
* * *
56699 TAGGCGCTACCTATTACGTTAAAATATCTACCGGTTTGTTTAAAGGTTACTAATAATTTAAACAG
65 TAAGCGCTACCTATTACATTAAAATATCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAACAG
*
56764 TAAAATAAAATA-GACGCTACCTATTACGTTAAATAATCGCTACA
130 TAAAATAAAATATG-CGCTACCTATTACGTTAAATAAACGCTACA
*
56808 TATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAA-TGATAAAATAAAA
1 TATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAACAG-TAAAATAAAA
* * * * **
56872 TAAGCGCTACCTATTACATTAAAATGTTTATCGGTTTGTTTAAAGGTTATTAATAATGTAAAGGG
65 TAAGCGCTACCTATTACATTAAAATATCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAACAG
* * *
56937 TAAAATAGAATATGTGCTACCTATTACGTTAAATAAACGCTACT
130 TAAAATAAAATATGCGCTACCTATTACGTTAAATAAACGCTACA
* *
56981 TATTATGTTAAACTATTTATCGGTTTGT
1 TATTATGTTAAACTACTTATCAGTTTGT
57009 GTAGACACTA
Statistics
Matches: 178, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
172 1 0.01
173 174 0.98
174 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (173 bp):
TATTATGTTAAACTACTTATCAGTTTGTTTAAAGGTTACTAATAATGTAAACAGTAAAATAAAAT
AAGCGCTACCTATTACATTAAAATATCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAACAGT
AAAATAAAATATGCGCTACCTATTACGTTAAATAAACGCTACA
Found at i:58058 original size:25 final size:25
Alignment explanation
Indices: 58017--58083 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
58007 CATTTAGATC
* *
58017 TTTTTTA-TTATTCTTTTAATTTTA
1 TTTTTTACTGATTATTTTAATTTTA
*
58041 TTTTTTACTGATTATTTTTATTTTTA
1 TTTTTTACTGATTA-TTTTAATTTTA
* *
58067 TTATTT-CTGTTTATTTT
1 TTTTTTACTGATTATTTT
58084 TTTATTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 11 0.31
25 10 0.28
26 15 0.42
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTTACTGATTATTTTAATTTTA
Found at i:58084 original size:25 final size:26
Alignment explanation
Indices: 58030--58084 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
58020 TTTATTATTC
*
58030 TTTTAATTTTATTTTTTACTGATTAT
1 TTTTAATTTTATTATTTACTGATTAT
* *
58056 TTTTATTTTTATTATTT-CTGTTTAT
1 TTTTAATTTTATTATTTACTGATTAT
58081 TTTT
1 TTTT
58085 TTATTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTTAATTTTATTATTTACTGATTAT
Found at i:62150 original size:106 final size:106
Alignment explanation
Indices: 61965--63348 Score: 2121
Period size: 106 Copynumber: 13.2 Consensus size: 106
61955 AACCATGAGC
* * * *
61965 ACGAAGAAAATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCACTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
62030 ACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
*
62071 ACGAAGGACATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
62136 ATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
*
62177 ACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
62242 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTTACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
*
62283 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
62348 AC-AACAACTT-TCCAATTTCAGAGCCAATTTCAACTTCAGA
66 ACAAACAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACA
* * *
62388 GCAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
62453 AC-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
** *
62493 ACGAAGGATATTGGACTCTTGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
62558 ACAAACAACCTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
*
62599 ACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
62664 ATAAACAA-TTTTCCAA-TTCTAGAGTCAATTTCAACTTCACA
66 ACAAACAACTTCT-CAATTTC-AGAGCCAATTTCAACTTCACA
* * * * *
62705 GCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGATCACTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
62770 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
62811 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
62876 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
* * * *
62917 TCGAAGGATATTGGACTCCAAACAACGTATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
** *
62982 AC-AA-ATTTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
* *
63021 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
63086 AC-AACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
*
63126 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
**
63191 AC-AA-AA-TT-TC-A-TTCAGAATCAATTTCAACTTCACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
* * * * *
63226 ACGAAGGATGTTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * * ** * *
63291 ACAACCAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACG
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
*
63332 ACGGAGGATATTGGACT
1 ACGAAGGATATTGGACT
63349 TGGAACAATG
Statistics
Matches: 1177, Mismatches: 87, Indels: 28
0.91 0.07 0.02
Matches are distributed among these distances:
100 82 0.07
101 2 0.00
102 3 0.00
103 4 0.00
104 101 0.09
105 302 0.26
106 677 0.58
107 6 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (106 bp):
ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
Found at i:62995 original size:528 final size:526
Alignment explanation
Indices: 61965--63348 Score: 2201
Period size: 528 Copynumber: 2.6 Consensus size: 526
61955 AACCATGAGC
* * *
61965 ACGAAGAAAATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCACTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
62030 ACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
* *
62095 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATT-TCAGA
131 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CAATTCT-AGA
* * **
62159 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGA
194 GTCAATTTCAACTTCACAACGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGA
* *
62224 AGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTTACAGCGAAG
259 AGGGA-CGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
*
62289 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACA
323 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACA
* * *
62354 ACTTTCCAATTTCAGAGCCAATTTCAACTTCAGAGCAAAGGATATTGGACTCCAGACAACGCAAG
388 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCCAAACAACGCAAG
*
62419 TTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTC
453 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTC
62484 AACTTCACA
518 AACTTCACA
**
62493 ACGAAGGATATTGGACTCTTGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
62558 ACAAACAACCTCTCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCCAGACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
62623 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAATTCTAGAG
131 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCCAATTCTAGAG
*
62688 TCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAA
195 TCAATTTCAACTTCACAACGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAA
*
62753 GGGATCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
260 GGGA-CGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
62818 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
324 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACA
* * * *
62883 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAAACAACGTATG
388 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCCAAACAACGCAAG
**
62948 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-ATTTTCCCAATTTCAGAGCCAATTTC
453 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTC
63012 AACTTCACA
518 AACTTCACA
* * *
63021 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
63086 AC-AACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
66 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
* * *
63150 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAA-AATTT-C-ATTC-AGAAT
131 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCAATTCTAGAGT
* *
63210 CAATTTCAACTTCACAACGAAGGAT-GTTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
196 CAATTTCAACTTCACAACGAAGGATAG-TGGACTCCAGACAACACAAGTTCAACTTCACGACGAA
* * * ** * * *
63274 GGGACGGCTGGTTGTCAACAACCAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGG
260 GGGAC-GCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63339 ATATTGGACT
324 ATATTGGACT
63349 TGGAACAATG
Statistics
Matches: 796, Mismatches: 55, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
520 2 0.00
521 127 0.16
522 4 0.01
523 1 0.00
524 3 0.00
525 2 0.00
526 2 0.00
527 99 0.12
528 453 0.57
529 103 0.13
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (526 bp):
ACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCAATTCTAGAGT
CAATTTCAACTTCACAACGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAG
GGACGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAACT
TCCCAATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCCAAACAACGCAAGTTC
AACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAAC
TTCACA
Found at i:65191 original size:27 final size:25
Alignment explanation
Indices: 65040--65189 Score: 71
Period size: 25 Copynumber: 5.9 Consensus size: 25
65030 TTCTTATTTA
*
65040 ATATTATTTA-ATTTATTTTTTTATT
1 ATATTATTTATGTTTA-TTTTTTATT
* * *
65065 AATATTATTTTTGTGTTATATTTCATTT
1 -ATATTATTTATGT-TTATTTTTTA-TT
* *
65093 AGATCT-TTT-T-ATTATTCTTTTAATT
1 ATAT-TATTTATGTTTATT-TTTT-ATT
* *
65118 -TATTTTTTACTGATTA-TTTTTATT
1 ATATTATTTA-TGTTTATTTTTTATT
* *
65142 TTATTATTTCTGTTTATTTTTTATT
1 ATATTATTTATGTTTATTTTTTATT
65167 ATATATATATTATG-TTATTTTTT
1 ATAT-TAT-TTATGTTTATTTTTT
65190 TAATTCTTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
23 1 0.01
24 17 0.18
25 27 0.28
26 25 0.26
27 20 0.21
28 6 0.06
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (25 bp):
ATATTATTTATGTTTATTTTTTATT
Found at i:66064 original size:153 final size:153
Alignment explanation
Indices: 65900--66183 Score: 453
Period size: 153 Copynumber: 1.9 Consensus size: 153
65890 ATGTAAACAG
*
65900 TAAAATATATACAACTTAACCGTCTGAAATATTTTTTAAAAATTCGAAAGTATGGATACTTACTC
1 TAAAATATATACAACTTAACCATCTGAAATATTTTTTAAAAATTCGAAAGTATGGATACTTACTC
* * * *
65965 TAAAAGTAT-AGATACTCTAAAGGTTAATAATAATGTATTCATATTTACTCTAAAAGTATAGATA
66 TAAAAATATGAAAT-CTCTAAAGGTTAATAATAATGTATACATACTTACTCTAAAAGTATAGATA
66029 TTGTTTCGACATTAATGTAAATGA
130 TTGTTTCGACATTAATGTAAATGA
* * * *
66053 TAAAATATATACAACTTAACCATTTGAAATATTTTTTTAAAATTTGAAAGTATGTATACTTACTC
1 TAAAATATATACAACTTAACCATCTGAAATATTTTTTAAAAATTCGAAAGTATGGATACTTACTC
* *
66118 TAAAAATATGAAATCTCTAAAGTTTAATAATAATGTATACATACTTACTCTAAAAGTATTGATAT
66 TAAAAATATGAAATCTCTAAAGGTTAATAATAATGTATACATACTTACTCTAAAAGTATAGATAT
66183 T
131 T
66184 TGATAAAGTA
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
153 116 0.97
154 3 0.03
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (153 bp):
TAAAATATATACAACTTAACCATCTGAAATATTTTTTAAAAATTCGAAAGTATGGATACTTACTC
TAAAAATATGAAATCTCTAAAGGTTAATAATAATGTATACATACTTACTCTAAAAGTATAGATAT
TGTTTCGACATTAATGTAAATGA
Found at i:66543 original size:108 final size:107
Alignment explanation
Indices: 66350--66645 Score: 337
Period size: 108 Copynumber: 2.7 Consensus size: 107
66340 ATTGGGTGCA
* * * * *
66350 ACCTAATATGTTAATATTTATTTATAACAAAATAA-CAAATTAACATATTTTGTTGTCGTGGGAT
1 ACCTAATATGTTAATA-ATATTAATAACAAAAAAATC-AATTAACATATTTTGTTATCGTCGGAT
* * * * *
66414 TTCGAATGCACCATCAGCTTAAATTTTGGTAACATTTTAGGCGCT
64 TTCTAAGGC-CCATCAGCTTAAACTTTGATAACATTTTAGACGCT
* *
66459 ACCTAATATGTTGATAATATTAATAACAAAAAAATCATTTAATC-TATTTTGTTATCGTCGGATT
1 ACCTAATATGTTAATAATATTAATAACAAAAAAATCAATTAA-CATATTTTGTTATCGTCGGATT
* *
66523 TCTAAGGCCTCATCATCTTAAACTTTGATAATATTTTAGACGCT
65 TCTAAGGCC-CATCAGCTTAAACTTTGATAACATTTTAGACGCT
* * * * *
66567 ACATAATATGTTTATAATATTGATAACAAATTAAGT-AATTAACATATTTTGTTATCGTCGGATT
1 ACCTAATATGTTAATAATATTAATAACAAA-AAAATCAATTAACATATTTTGTTATCGTCGGATT
66631 TCTAAGGCCCTATCA
65 TCTAAGGCCC-ATCA
66646 ACTTTAAAAA
Statistics
Matches: 161, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
107 3 0.02
108 138 0.86
109 20 0.12
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (107 bp):
ACCTAATATGTTAATAATATTAATAACAAAAAAATCAATTAACATATTTTGTTATCGTCGGATTT
CTAAGGCCCATCAGCTTAAACTTTGATAACATTTTAGACGCT
Found at i:66949 original size:225 final size:226
Alignment explanation
Indices: 66497--66951 Score: 655
Period size: 226 Copynumber: 2.0 Consensus size: 226
66487 AAAAAATCAT
* * * * *
66497 TTAATCTATTTTGTTATCGTCGGATTTCTAAGGCCTCATCATCTTAAACTTTGATAATATTTTAG
1 TTAATCTATTTTGTTATAGTCAGATTTCTAAGACCTCATCAGCTTAAACTTTGATAACATTTTAG
* *
66562 ACGCTACATAATATGTTTATAATATTGATAACAAATTAAGTAATTAACATATTTTGTTATCGTCG
66 ACGCTACATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCG
* * * *
66627 GATTTCTAAGGCCCTATCAACTTTAAAAAGATGTTACCTATTACATTAAATAAGCGCTATTTGTT
131 GATTTCTAAGGCCCCATCAACTTTAAAAAGACGCTACCTATTACATTAAATAAGCGCTATCTGTT
*
66692 ATATTATTATGGTTAATAATGTTTCTAGTAA
196 ATATTATTATGGTTAATAATGTTTCCAGTAA
*
66723 TTAATCTATTTTGTTATAGTCAGATTTCTAAGA-CTCTATCAGCTTAAACTTTGGTAACATTTTA
1 TTAATCTATTTTGTTATAGTCAGATTTCTAAGACCTC-ATCAGCTTAAACTTTGATAACATTTTA
* * *
66787 -AGCGCTACATAATATGTTGATATTATTGATAACAAATCAAGTGATTAACCTATTTT-TTATCGT
65 GA-CGCTACATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGT
* * * * * *
66850 CGGATTTCTAAGGCCCCATCAGCTTTAAAAATACGCTACCTATTACGTTATATAAGTGTTATCTG
129 CGGATTTCTAAGGCCCCATCAACTTTAAAAAGACGCTACCTATTACATTAAATAAGCGCTATCTG
* *
66915 TTATGTTATTATGGTTGATAATGTTTCCAGTAA
194 TTATATTATTATGGTTAATAATGTTTCCAGTAA
66948 TTAA
1 TTAA
66952 CTGGTTATGT
Statistics
Matches: 203, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
225 100 0.49
226 103 0.51
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.42
Consensus pattern (226 bp):
TTAATCTATTTTGTTATAGTCAGATTTCTAAGACCTCATCAGCTTAAACTTTGATAACATTTTAG
ACGCTACATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCG
GATTTCTAAGGCCCCATCAACTTTAAAAAGACGCTACCTATTACATTAAATAAGCGCTATCTGTT
ATATTATTATGGTTAATAATGTTTCCAGTAA
Found at i:68726 original size:65 final size:63
Alignment explanation
Indices: 68607--68816 Score: 212
Period size: 65 Copynumber: 3.3 Consensus size: 63
68597 TTTTTCAGAG
* * * *
68607 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGT
1 TGATGCATCGATGCA-CAA-CAATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
68669 ATT
61 ATT
* *
68672 TCATGCATCGATGCACATACAATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACAATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
68736 T
63 T
* * * * *
68737 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACAATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
68801 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
68817 TCTTAGTGCA
Statistics
Matches: 124, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 47 0.38
65 68 0.55
66 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACAATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:68816 original size:17 final size:19
Alignment explanation
Indices: 68788--68836 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
68778 TATTTTGAAA
68788 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
68806 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
68825 CACCGATGCACT
1 CATCGATGCACT
68837 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:74276 original size:21 final size:21
Alignment explanation
Indices: 74234--74277 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
74224 ACCCCGGGAG
*
74234 CTAGCTCTTCACTAGCTGCTC
1 CTAGCTCTTCACTAGCTCCTC
*
74255 CTAGCTCTTCTCGT-GCTCCTC
1 CTAGCTCTTCAC-TAGCTCCTC
74276 CT
1 CT
74278 CCTCCTCCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.09, C:0.41, G:0.14, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACTAGCTCCTC
Found at i:74871 original size:2 final size:2
Alignment explanation
Indices: 74864--74893 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
74854 TAGCTTAAGC
74864 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74894 ATCAATTGGC
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):
TA
Found at i:75468 original size:17 final size:19
Alignment explanation
Indices: 75440--75488 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
75430 TATTTTGAAA
75440 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
75458 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
75477 CAGCGATGCACT
1 CATCGATGCACT
75489 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:88540 original size:34 final size:33
Alignment explanation
Indices: 88498--88596 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 33
88488 TTTATTAATT
*
88498 AACCTGAATTACATAAGATACAAAATGCACTCA
1 AACCTGAATTACATAAGATACAAAATACACTCA
* * *
88531 AACCTTGAATTAAATAAGATACACATTACACTCTA
1 AACC-TGAATTACATAAGATACAAAATACACTC-A
* * * * *
88566 ACCCTAAAATACATAAGATACACATTACACT
1 AACCTGAATTACATAAGATACAAAATACACT
88597 ATAACCCTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
33 4 0.07
34 48 0.86
35 4 0.07
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.24
Consensus pattern (33 bp):
AACCTGAATTACATAAGATACAAAATACACTCA
Found at i:94317 original size:24 final size:24
Alignment explanation
Indices: 94282--94338 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
94272 ATAAAACCAA
*
94282 TAAAATATTTTAAAATTAA-GAAAT
1 TAAAAT-TTTTAAAAATAATGAAAT
*
94306 TAATAATTTTTAAAAATAATTAAAT
1 TAA-AATTTTTAAAAATAATGAAAT
94331 TAAAATTT
1 TAAAATTT
94339 GTCTAATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAAATTTTTAAAAATAATGAAAT
Found at i:101388 original size:27 final size:27
Alignment explanation
Indices: 101350--101408 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
101340 CAACTGATCT
101350 AGTAATATGAGATACTAAATTTTTTTA
1 AGTAATATGAGATACTAAATTTTTTTA
101377 AGTAATATGAGATACTAAATTTTTTTA
1 AGTAATATGAGATACTAAATTTTTTTA
101404 AGTAA
1 AGTAA
101409 AAAAAAACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (27 bp):
AGTAATATGAGATACTAAATTTTTTTA
Found at i:109851 original size:7 final size:7
Alignment explanation
Indices: 109839--109881 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
109829 AAGGAAGACG
109839 AAGGGAA
1 AAGGGAA
109846 AAGGGAA
1 AAGGGAA
109853 AAGGGAA
1 AAGGGAA
109860 AAGGGAA
1 AAGGGAA
109867 AAGGGAA
1 AAGGGAA
109874 AAGGGAA
1 AAGGGAA
109881 A
1 A
109882 GAACTTTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AAGGGAA
Found at i:113066 original size:70 final size:70
Alignment explanation
Indices: 112951--113090 Score: 246
Period size: 70 Copynumber: 2.0 Consensus size: 70
112941 GTCTCTTGTA
* *
112951 GGTGTGTGAGAGCAATGGTGATAAAGATGATGATATTCATGATGCTCTAGCCACACATAAAAAGG
1 GGTGTATGAGAGCAATGGTGATAAAGATGATGATATTCATGATGCTCTAACCACACATAAAAAGG
113016 GAATG
66 GAATG
113021 GGTGTATGAGAGCAATGGTGATAAAGATGATGATATTCAAT-ATGCTCTAACCACACATAAAAAG
1 GGTGTATGAGAGCAATGGTGATAAAGATGATGATATTC-ATGATGCTCTAACCACACATAAAAAG
113085 GGAATG
65 GGAATG
113091 AGTAACCTCT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 65 0.97
71 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.24
Consensus pattern (70 bp):
GGTGTATGAGAGCAATGGTGATAAAGATGATGATATTCATGATGCTCTAACCACACATAAAAAGG
GAATG
Found at i:116694 original size:23 final size:22
Alignment explanation
Indices: 116630--116704 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
116620 CATTTGGCAG
* *
116630 AGGGAATCGATACCC-CCAT-A
1 AGGGAATCGATTCCCTCCTTGA
*
116650 AGGGAACCGATT-CCTCCTTTGA
1 AGGGAATCGATTCCCTCC-TTGA
116672 ATGGGAATCGATTCCCTCCTTG-
1 A-GGGAATCGATTCCCTCCTTGA
116694 AGGGAATCGAT
1 AGGGAATCGAT
116705 ACCCCCCACG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
19 2 0.04
20 12 0.26
21 11 0.24
22 3 0.07
23 13 0.28
24 5 0.11
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (22 bp):
AGGGAATCGATTCCCTCCTTGA
Done.