Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008456.1 Hibiscus syriacus cultivar Beakdansim tig00111269_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: 86408
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:28813 original size:4 final size:4
Alignment explanation
Indices: 28804--28834 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
28794 AATGCAATGT
28804 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
28835 CATAGTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:42624 original size:2 final size:2
Alignment explanation
Indices: 42612--42647 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
42602 AAAATAGGAA
42612 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42648 ACACTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:43109 original size:37 final size:36
Alignment explanation
Indices: 43059--43196 Score: 163
Period size: 37 Copynumber: 3.8 Consensus size: 36
43049 GTGCTTGTGG
* * * * *
43059 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA-AAATCT
* *
43096 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAAT-CT
*
43133 ATCCTATTTTTAGGAGTTTGAATCCTA--AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
*
43167 ATCTTATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
43197 GGACGAAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
34 27 0.31
35 4 0.05
36 4 0.05
37 53 0.60
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
Found at i:43175 original size:34 final size:35
Alignment explanation
Indices: 43093--43193 Score: 152
Period size: 34 Copynumber: 2.9 Consensus size: 35
43083 TTAGTAGAAC
43093 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
43131 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
*
43164 TCTATCTTATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
43194 GTAGGACGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
33 1 0.02
34 32 0.52
37 27 0.44
38 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:43958 original size:105 final size:106
Alignment explanation
Indices: 43742--44197 Score: 650
Period size: 105 Copynumber: 4.3 Consensus size: 106
43732 CATTGTTCCA
* * * ** *
43742 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
43807 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * *
43848 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
43912 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* *
43953 AGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
44017 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
*
44057 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 -AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
44122 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* *
44164 AGTGCCACGATATCCTCCGTTGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
44198 CGCGGATGGC
Statistics
Matches: 319, Mismatches: 23, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
104 1 0.00
105 196 0.61
106 94 0.29
107 5 0.02
109 23 0.07
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
Found at i:44094 original size:210 final size:212
Alignment explanation
Indices: 43742--44197 Score: 659
Period size: 211 Copynumber: 2.1 Consensus size: 212
43732 CATTGTTCCA
* *
43742 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATTGTTTGTTGACAAC
* *
43807 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAG
* * *
43872 TTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAGCAG-CGGTCCCTTCGTCGTGAAGT
131 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTC-GTCCCTTCGTCGTGAAGT
*
43935 TGAACTTGCATTGTCTGG
195 TGAACTTGCATTGTCTCG
* * ** * *
43953 AGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATTGTTTGTTGACAAC
* *
44017 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTCGTTGTGAA
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG-AGTCCAATATCCTTCGTCGTGAA
*
44081 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTCGTGAAGT
**
44146 TGAACTTGTGTTGTCTCG
195 TGAACTTGCATTGTCTCG
*
44164 AGTGCCACGATATCCTCCGTTGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTCCGTTGTGAAGTTGAAAT
44198 CGCGGATGGC
Statistics
Matches: 217, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
209 1 0.00
210 93 0.43
211 97 0.45
212 4 0.02
214 22 0.10
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (212 bp):
AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATTGTTTGTTGACAAC
CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTCGTGAAGTT
GAACTTGCATTGTCTCG
Found at i:44945 original size:37 final size:37
Alignment explanation
Indices: 44889--45195 Score: 201
Period size: 37 Copynumber: 8.8 Consensus size: 37
44879 AAGATGATGC
* *
44889 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGT
1 TTCAAG-GGAAACTGTCTCAAGAGAGACAAAATTTTGT
* * **
44927 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-CTCAT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGT
* *
44963 TTCAAGGGAAA-TGTTTTC-A-A-TG------TTTATGT
1 TTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT-TGT
* *
44992 TTCAAGAGAAACTGTCTCAATG-GAGACGAAATTTTGT
1 TTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTTTGT
* * **
45029 TTCAAGGGAAACTATCTCAAGAGAGACAAAA-CTCAT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGT
* * * *
45065 TTCAAGGGAAATTTTTTC-A-A-TG------TTTATGT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT-TGT
* * *
45094 TTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGT
* *
45131 TTAAAGGGAAACTGTCTCAAGAGAGAC-AAAGTTTGT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGT
45167 TTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTCAAGGGAAACTGTCTCAAGAGAGACAA
45196 TGGTGAGCAC
Statistics
Matches: 202, Mismatches: 40, Indels: 55
0.68 0.13 0.19
Matches are distributed among these distances:
28 2 0.01
29 29 0.14
30 4 0.02
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 67 0.33
37 78 0.39
38 12 0.06
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (37 bp):
TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGT
Found at i:45174 original size:36 final size:36
Alignment explanation
Indices: 45091--45195 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
45081 TCAATGTTTA
* * * *
45091 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
*
45128 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
45164 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
45196 TGGTGAGCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 37 0.60
37 25 0.40
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:45177 original size:102 final size:102
Alignment explanation
Indices: 44889--45160 Score: 472
Period size: 102 Copynumber: 2.7 Consensus size: 102
44879 AAGATGATGC
*
44889 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
44954 AAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
65 AAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* * *
44992 TTCAAGAGAAACTGTCTCAATGGAGACGAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACA
1 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
*
45057 AAACTCATTTCAAGGGAAATTTTTTCAATGTTTATGT
66 AAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* *
45094 TTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGTTTAAAGGGAAACTGTCTCAAGAGAGACA
1 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
45159 AA
66 AA
45161 GTTTGTTTCA
Statistics
Matches: 159, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
102 151 0.95
103 8 0.05
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (102 bp):
TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
AAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:46081 original size:22 final size:22
Alignment explanation
Indices: 46056--46106 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
46046 TTGTGTTTGG
46056 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
46078 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
46100 TCAAAGG
1 TCAAAGG
46107 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:46743 original size:13 final size:13
Alignment explanation
Indices: 46720--46755 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
46710 TCCCATTTTT
46720 TTTTATTTTTGTTC
1 TTTT-TTTTTGTTC
46734 TTTTTTTTTGTTC
1 TTTTTTTTTGTTC
46747 TTATTTTTT
1 TT-TTTTTT
46756 CCTTTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTGTTC
Found at i:46754 original size:34 final size:34
Alignment explanation
Indices: 46717--46782 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
46707 TTGTCCCATT
*
46717 TTTTTTTATTTTTG-TTCTTTT-TTTTTGTTCTTA
1 TTTTTTCATTTTTGCTTCTTTTCTTTTT-TTCTTA
*
46750 TTTTTTCCTTTTTGCTTCTTTTCTTTTTTTCTT
1 TTTTTTCATTTTTGCTTCTTTTCTTTTTTTCTT
46783 TTTGCCCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 12 0.41
34 12 0.41
35 5 0.17
ACGTcount: A:0.03, C:0.12, G:0.05, T:0.80
Consensus pattern (34 bp):
TTTTTTCATTTTTGCTTCTTTTCTTTTTTTCTTA
Found at i:46794 original size:23 final size:23
Alignment explanation
Indices: 46750--46793 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46740 TTTGTTCTTA
*
46750 TTTTTTCCTTTTTGCTTCTTTTC
1 TTTTTTCCTTTTTGCCTCTTTTC
*
46773 TTTTTTTCTTTTTGCC-CTTTT
1 TTTTTTCCTTTTTGCCTCTTTT
46794 TGTTCTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTTTTCCTTTTTGCCTCTTTTC
Found at i:50145 original size:2 final size:2
Alignment explanation
Indices: 50132--50166 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
50122 AAAATAGGAA
*
50132 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50167 ATAACACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:50631 original size:37 final size:36
Alignment explanation
Indices: 50581--50718 Score: 172
Period size: 37 Copynumber: 3.8 Consensus size: 36
50571 GTGCTTGTGG
* * * * *
50581 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA-AAATCT
* *
50618 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAAT-CT
*
50655 ATCCTATTTTTAGGAGTTTGAATCCTA--AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
50689 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
50719 GGACGAAAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
34 28 0.31
35 4 0.04
36 4 0.04
37 53 0.60
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
Found at i:50692 original size:34 final size:35
Alignment explanation
Indices: 50615--50715 Score: 161
Period size: 34 Copynumber: 2.9 Consensus size: 35
50605 TTAGTAGAAC
50615 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
50653 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
50686 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
50716 GTAGGACGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 33 0.53
37 27 0.44
38 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:51294 original size:200 final size:199
Alignment explanation
Indices: 50873--51520 Score: 693
Period size: 200 Copynumber: 3.2 Consensus size: 199
50863 GTAAACTGAC
* * * ** * * **
50873 ATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATTATTATCAGTTACGATGTTT-TT
1 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATTTCCG
* * * * * * *
50937 TAGATCGATACAATTT--TAAATGTATCAACACTTTATGCTTGCACCTGGTTGGGCATTCATATT
66 GA-ATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTT-TG--TGC--A-T
* * *
51000 TCATTCTGGAAAAAAGTATCGACACAAAATAACAACGTGTCGATACATTAT-TTAGACCTATTCT
123 TCATTCTGGACAAAAGTATCGACACAAATTAACAA-GTGTCGATACATTATGTT-GACCTATTTT
* *
51064 CTCATAAAATCGGT
186 CTAATAAAACCGGT
* *
51078 ATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATATTTCCG
1 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATTTCCG
* * * *
51143 GAATCGATATTTTTTATAAATGTATCGACACTTTATG-GTTGCACC-C-TTTTTGGTATTCATTC
66 GAATCGATACTTTTAATAAATGTATCGACACTTTATGCG-TGCACCTCGTTTGT-GCATTCATTC
* * * * * *
51205 TGGACCAAAAGTATCGACACAAATTTATCAAGTGTCAATACTTTATGCTGACCTATTTTATTATA
129 TGGA-CAAAAGTATCGACACAAA-TTAACAAGTGTCGATACATTATGTTGACCTATTTTCTAATA
51270 AAACCGGT
192 AAACCGGT
* * * * **
51278 ATATTTATATCGGTTACATTGTAAATTTACCTAATACATTATAATTATTGGTTTCGATGTTTTTG
1 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATTTCCG
* *
51343 GGATTGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCATTCA-TCTT
66 GAATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCATTCATTC-T
*
51407 GGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTGACCTATTTTCTAAT-T
130 GGACAA-AAGTATCGACACAAATTA-ACAAGTGTCGATACATTATGTTGACCTATTTTCTAATAA
51471 AACCGGT
193 AACCGGT
*
51478 ATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATA
1 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATA
51521 TTTTGATTTT
Statistics
Matches: 375, Mismatches: 54, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
199 11 0.03
200 202 0.54
201 65 0.17
202 4 0.01
204 5 0.01
205 61 0.16
206 27 0.07
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (199 bp):
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATTTCCG
GAATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCATTCATTCTG
GACAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATGTTGACCTATTTTCTAATAAAAC
CGGT
Found at i:67580 original size:39 final size:39
Alignment explanation
Indices: 67490--67581 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 39
67480 AAAGGCATGC
* * *
67490 GGTAAGGACTTACCCTGTGCACAAAGCATAGGAACCTGT
1 GGTAAGGACTTACACTGTGCACAAAGCAGAGGAACCTAT
* * * * *
67529 GGTCAGGGCTTACACTGTGCACAAAGCAGATGAGCTTAT
1 GGTAAGGACTTACACTGTGCACAAAGCAGAGGAACCTAT
*
67568 GGTAAGGTCTTACA
1 GGTAAGGACTTACA
67582 ACTCATAGAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (39 bp):
GGTAAGGACTTACACTGTGCACAAAGCAGAGGAACCTAT
Found at i:69145 original size:13 final size:13
Alignment explanation
Indices: 69129--69163 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
69119 CGGCTTGGTA
69129 GCTCGACTCAGTG
1 GCTCGACTCAGTG
*
69142 GCTCGAGTCAGTG
1 GCTCGACTCAGTG
*
69155 GCTCAACTC
1 GCTCGACTC
69164 GACTCAGCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (13 bp):
GCTCGACTCAGTG
Found at i:69656 original size:23 final size:23
Alignment explanation
Indices: 69621--69679 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
69611 ATCAAGCACA
* *
69621 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
69644 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
69667 ATAATAAAATAGG
1 ATAATATAATAGG
69680 CATTTAACCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.32
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:70841 original size:18 final size:18
Alignment explanation
Indices: 70820--70869 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
70810 ACCTTTTCTA
70820 GTTTTGTCATTTTTTCCG
1 GTTTTGTCATTTTTTCCG
*
70838 GTTTTGTCATTTTTTTCG
1 GTTTTGTCATTTTTTCCG
70856 GTTTTGTCATTTTT
1 GTTTTGTCATTTTT
70870 AGACCAGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.06, C:0.12, G:0.16, T:0.66
Consensus pattern (18 bp):
GTTTTGTCATTTTTTCCG
Found at i:73313 original size:23 final size:23
Alignment explanation
Indices: 73287--73334 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
73277 ATAAAGTACA
*
73287 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
73310 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
73333 AT
1 AT
73335 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:73751 original size:23 final size:23
Alignment explanation
Indices: 73714--73784 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 23
73704 ACACTTTACA
*
73714 ATAAACCATTACCTATTACATTAT
1 ATAAACGA-TACCTATTACATTAT
73738 ATAAACGATACCTATTACA-TAT
1 ATAAACGATACCTATTACATTAT
** * *
73760 ATAAGGGCTACCTATTACATCAT
1 ATAAACGATACCTATTACATTAT
73783 AT
1 AT
73785 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.46
23 15 0.37
24 7 0.17
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (23 bp):
ATAAACGATACCTATTACATTAT
Found at i:73762 original size:24 final size:24
Alignment explanation
Indices: 73714--73763 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
73704 ACACTTTACA
73714 ATAAACCATTACCTATTACATTAT
1 ATAAACCATTACCTATTACATTAT
*
73738 ATAAACGA-TACCTATTACA-TAT
1 ATAAACCATTACCTATTACATTAT
73760 ATAA
1 ATAA
73764 GGGCTACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.28
23 11 0.44
24 7 0.28
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (24 bp):
ATAAACCATTACCTATTACATTAT
Found at i:74112 original size:428 final size:426
Alignment explanation
Indices: 73446--74310 Score: 1655
Period size: 428 Copynumber: 2.0 Consensus size: 426
73436 GGATCGATAC
73446 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
73511 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATACCGT
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATACCGT
73576 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
131 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
73641 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
196 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
73706 ACTTTACAATA-AACCATTACCTATTACATTATATAAACGATACCTATTACA-TATATAAGGGCT
261 ACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCT
73769 ACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
326 ACCTATTACATCATATGTTTACCTA-TATATTGAAAGTGTCCATAC-TTTT-TAAAAAGGATCGA
73834 TAC-TTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
388 TACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
73872 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
73937 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATACC
74002 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
129 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
74067 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
194 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
*
74132 ACACTTTACAATATAATCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
259 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
74197 CTACCTATTACATCATATGTTTACCTATATATTGAAAGTGTCCATACTTTTTAAAAAGGATCGAT
324 CTACCTATTACATCATATGTTTACCTATATATTGAAAGTGTCCATACTTTTTAAAAAGGATCGAT
74262 ACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
389 ACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
74300 TTTAACAGTGT
1 TTTAACAGTGT
74311 ACTGCGAATT
Statistics
Matches: 433, Mismatches: 1, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
426 120 0.28
427 17 0.04
428 200 0.46
429 59 0.14
430 37 0.09
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (426 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATACCGT
AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
ACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCT
ACCTATTACATCATATGTTTACCTATATATTGAAAGTGTCCATACTTTTTAAAAAGGATCGATAC
TTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
Found at i:74178 original size:23 final size:23
Alignment explanation
Indices: 74152--74214 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
74142 ATATAATCAT
74152 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
74175 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
74198 TACCTATTACATCATAT
1 TACCTATTACATTATAT
74215 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:77104 original size:183 final size:182
Alignment explanation
Indices: 76760--77427 Score: 1264
Period size: 183 Copynumber: 3.7 Consensus size: 182
76750 TTTTAAATGG
*
76760 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
76825 TAAAACCGGTATATTTATACGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
66 TAAGACCGGTATATTTATACGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
76890 ATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTCTTCCAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTCTTCCAA
76942 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
77007 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATA-CGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
77072 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTCTTCCAA
130 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTCTTCCAA
77125 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
77190 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATA-CGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
77255 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACA-TTTTCTTCCAA
77309 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
77374 TAAGACCGGTATATTTATACGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACGGTTATATTACAAAATTATCTATTACATTATAAT
77428 ATGTTGAAAG
Statistics
Matches: 479, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
182 82 0.17
183 302 0.63
184 95 0.20
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (182 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
ATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTCTTCCAA
Found at i:78803 original size:3 final size:3
Alignment explanation
Indices: 78786--78835 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
78776 ACTTGTTTGG
* * * *
78786 ATC ATC -TC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
78833 ATC
1 ATC
78836 GTCAGCTTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.24, C:0.34, G:0.04, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:78812 original size:12 final size:12
Alignment explanation
Indices: 78786--78847 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
78776 ACTTGTTTGG
78786 ATCATC-TCTTC
1 ATCATCATCTTC
*
78797 ATCATCATCGTC
1 ATCATCATCTTC
*
78809 ATCATCATCATC
1 ATCATCATCTTC
*
78821 ATCGTCATCTTC
1 ATCATCATCTTC
* *
78833 ATCGTCAGCTTC
1 ATCATCATCTTC
78845 ATC
1 ATC
78848 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
11 6 0.13
12 39 0.87
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:78846 original size:18 final size:18
Alignment explanation
Indices: 78792--78850 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
78782 TTGGATCATC
78792 TCTTCATCATCATCGTCA
1 TCTTCATCATCATCGTCA
*
78810 TCATCATCATCATCGTCA
1 TCTTCATCATCATCGTCA
* * *
78828 TCTTCATCGTCAGCTTCA
1 TCTTCATCATCATCGTCA
78846 TCTTC
1 TCTTC
78851 TGCGACCGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (18 bp):
TCTTCATCATCATCGTCA
Found at i:78850 original size:6 final size:6
Alignment explanation
Indices: 78792--78850 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
78782 TTGGATCATC
* * * * * *
78792 TCTTCA TCATCA TCGTCA TCATCA TCATCA TCGTCA TCTTCA TCGTCA
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA
*
78840 GCTTCA TCTTC
1 TCTTCA TCTTC
78851 TGCGACCGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (6 bp):
TCTTCA
Found at i:81134 original size:198 final size:197
Alignment explanation
Indices: 80313--81318 Score: 1714
Period size: 197 Copynumber: 5.1 Consensus size: 197
80303 TTTAAATTAG
* *
80313 TATCGACACAAAATAT-TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
80377 ATTGTA-CGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
80440 CGACAC--TTT-TATATGGATCGACACTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
80502 AA
196 AA
80504 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
80569 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
80634 CGACACTTTTTATATATGGATCGACACTTTATTGATTCACCTCGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
80699 AA
196 AA
80701 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
80766 ATTGTACCGGTTAGATTGAAAAATTACATA-TACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * ***
80829 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACC-TGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT-GGAA
80893 AAAAA
193 AAAAA
80898 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
80963 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * ***
81027 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT-GGAAA
81092 AAAA
194 AAAA
81096 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
81161 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
81226 CGACAC-TTTT-TATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
81289 AA
196 AA
*
81291 -ATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
81319 TGACCCTTAA
Statistics
Matches: 785, Mismatches: 18, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
191 15 0.02
192 53 0.07
193 10 0.01
194 80 0.10
195 39 0.05
196 67 0.09
197 317 0.40
198 175 0.22
199 29 0.04
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
AA
Found at i:81425 original size:37 final size:38
Alignment explanation
Indices: 81384--81463 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
81374 TCTCATTCAT
*
81384 AATTAT-ATTCACATAAAAAAATATAAATCGTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
** * * *
81421 AATTATAAATCGTATACAAAATTATAAATCTTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
81459 AATTA
1 AATTA
81464 ACTCGACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 6 0.17
38 30 0.83
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (38 bp):
AATTATAAATCACATAAAAAAATATAAATCGTATACAA
Found at i:81427 original size:19 final size:19
Alignment explanation
Indices: 81400--81463 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
81390 ATTCACATAA
*
81400 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
81419 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
81438 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
81457 AAAATTA
1 AAAATTA
81464 ACTCGACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:83279 original size:32 final size:32
Alignment explanation
Indices: 83243--83306 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
83233 CATCTTAATA
*
83243 TCACCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCTCAACACCGAAACTTCTTTCACCACT
***
83275 TCACCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCTCAACACCGAAACTTCTTTCACCACT
83307 CCATCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.44, G:0.02, T:0.30
Consensus pattern (32 bp):
TCACCCTCAACACCGAAACTTCTTTCACCACT
Found at i:85627 original size:20 final size:19
Alignment explanation
Indices: 85581--85627 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
85571 TCCGGTATCA
*
85581 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
85600 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
85621 TTTTACC
1 TTTTACC
85628 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:85789 original size:19 final size:20
Alignment explanation
Indices: 85742--85790 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
85732 TCGACACTTT
85742 TAATTTTACCGGTTTTATCA
1 TAATTTTACCGGTTTTATCA
*
85762 T-TTTGTTACC-GTTTTATCA
1 TAATT-TTACCGGTTTTATCA
85781 TAATTTTACC
1 TAATTTTACC
85791 TGGTATATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.53
Consensus pattern (20 bp):
TAATTTTACCGGTTTTATCA
Done.