Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011237.1 Corchorus capsularis cultivar CVL-1 contig11258, 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: 78388
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:4023 original size:16 final size:16
Alignment explanation
Indices: 3999--4048 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
3989 TTTTCAAAAG
*
3999 AAAACTTTAATAGAAA
1 AAAATTTTAATAGAAA
* *
4015 AAAATTTTAATACATA
1 AAAATTTTAATAGAAA
4031 AAAATTTTAATAGAAA
1 AAAATTTTAATAGAAA
4047 AA
1 AA
4049 TTATCAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (16 bp):
AAAATTTTAATAGAAA
Found at i:5144 original size:2 final size:2
Alignment explanation
Indices: 5137--5162 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5127 TAGGTTCCAC
5137 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
5163 CTCTTTCACT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6658 original size:15 final size:15
Alignment explanation
Indices: 6638--6667 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6628 TCTCTCTCTC
*
6638 TTCAAATCCTCCAAT
1 TTCAAATCATCCAAT
6653 TTCAAATCATCCAAT
1 TTCAAATCATCCAAT
6668 AAAGTAGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
TTCAAATCATCCAAT
Found at i:8021 original size:141 final size:142
Alignment explanation
Indices: 7835--8089 Score: 356
Period size: 141 Copynumber: 1.8 Consensus size: 142
7825 CATTAACAAA
* * * *
7835 TCACAAAATAATCCCCACAAATTCCTAACTAAGTAGATAGGGCAAGTAGGGATCGGATCCCACAG
1 TCACAAAATAATCCCCACAAATACCTAACTAAGCAGATAGGGCAAGTAGGGATCGAATACCACAG
*
7900 AAAAAGGG-AATAGA-CTTATCCAAAG-ATAAATCTTCACTAAGAATTACTCAAACAGGGTATGA
66 -AAAAGGGTAATA-ATCTTATCCAAAGAATAAATCTTCACTAAAAATTACTCAAACAGGGTATGA
7962 TCGGTCGTCAGCAG
129 TCGGTCGTCAGCAG
* *
7976 TCACAAAAATAATCCCCACAAA-ACCTAACTGAGCAGATAGGGCAAGTAGGGGTCGAATACCACA
1 TCAC-AAAATAATCCCCACAAATACCTAACTAAGCAGATAGGGCAAGTAGGGATCGAATACCACA
** **
8040 GAGCAGGGTAATAATCTTATCCAAAGAATAAATCTTTTCTAAAAATTACT
65 GAAAAGGGTAATAATCTTATCCAAAGAATAAATCTTCACTAAAAATTACT
8090 TTTAAAATAG
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
140 6 0.06
141 56 0.57
142 37 0.37
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (142 bp):
TCACAAAATAATCCCCACAAATACCTAACTAAGCAGATAGGGCAAGTAGGGATCGAATACCACAG
AAAAGGGTAATAATCTTATCCAAAGAATAAATCTTCACTAAAAATTACTCAAACAGGGTATGATC
GGTCGTCAGCAG
Found at i:8165 original size:20 final size:20
Alignment explanation
Indices: 8126--8166 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8116 GAGTATCAAT
* **
8126 TAAAAAGAAAGCAATTAAAA
1 TAAAAACAAAGCAAAGAAAA
8146 TAAAAACAAAGCAAAGAAAA
1 TAAAAACAAAGCAAAGAAAA
8166 T
1 T
8167 TAAATCTAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.10, T:0.12
Consensus pattern (20 bp):
TAAAAACAAAGCAAAGAAAA
Found at i:10556 original size:12 final size:12
Alignment explanation
Indices: 10539--10563 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10529 ACCCTTAGCT
10539 AAAACTAGAAGA
1 AAAACTAGAAGA
10551 AAAACTAGAAGA
1 AAAACTAGAAGA
10563 A
1 A
10564 CGGAAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAACTAGAAGA
Found at i:11331 original size:101 final size:102
Alignment explanation
Indices: 11155--11360 Score: 369
Period size: 101 Copynumber: 2.0 Consensus size: 102
11145 ATTTTCATGA
*
11155 CTTGAAATTATCTTCAATTAATCTTCAATCACAAACCTCGAATCTCTAAATCTTCACTCAAAATT
1 CTTGAAATTATCTTCAATTAATCTTCAATCACAAACCTCGAATCTCCAAATCTTCACTCAAAATT
*
11220 GCTAAGTCCATATTTGTGACAAAAGTCATCAAATTAG
66 ACTAAGTCCATATTTGTGACAAAAGTCATCAAATTAG
* *
11257 CTTGAAATTATCTTCAATTAA-CTTCAATCACGAACTTCGAATCTCCAAATCTTCACTCAAAATT
1 CTTGAAATTATCTTCAATTAATCTTCAATCACAAACCTCGAATCTCCAAATCTTCACTCAAAATT
11321 ACTAAGTCCATATTTGTGACAAAAGTCATCAAATTAG
66 ACTAAGTCCATATTTGTGACAAAAGTCATCAAATTAG
11358 CTT
1 CTT
11361 CAAAAATAGT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 79 0.79
102 21 0.21
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (102 bp):
CTTGAAATTATCTTCAATTAATCTTCAATCACAAACCTCGAATCTCCAAATCTTCACTCAAAATT
ACTAAGTCCATATTTGTGACAAAAGTCATCAAATTAG
Found at i:21370 original size:2 final size:2
Alignment explanation
Indices: 21363--21388 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21353 CTAAAGGTCA
21363 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21389 TGGAAAAAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25366 original size:16 final size:16
Alignment explanation
Indices: 25345--25381 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25335 TTGGATTAAA
25345 ATTAATTCAGAAGCAG
1 ATTAATTCAGAAGCAG
*
25361 ATTAATTTAGAAGCAG
1 ATTAATTCAGAAGCAG
*
25377 TTTAA
1 ATTAA
25382 AGGTGAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (16 bp):
ATTAATTCAGAAGCAG
Found at i:30888 original size:20 final size:21
Alignment explanation
Indices: 30863--30915 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
30853 ACTAGCGCTG
*
30863 GGCG-CCCATGTGGTTTGCTT
1 GGCGACCCATGTGGTTTGCCT
*
30883 GGCGCCCCATGTGGTTTGCCT
1 GGCGACCCATGTGGTTTGCCT
*
30904 CGCGACCCATGT
1 GGCGACCCATGT
30916 ACTCCAGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.08, C:0.32, G:0.32, T:0.28
Consensus pattern (21 bp):
GGCGACCCATGTGGTTTGCCT
Found at i:35575 original size:7 final size:7
Alignment explanation
Indices: 35552--35585 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
35542 CTTTCTATTT
35552 TTTTGTA
1 TTTTGTA
*
35559 CTTTTATA
1 -TTTTGTA
35567 TTTTGTA
1 TTTTGTA
35574 TTTTGTA
1 TTTTGTA
35581 TTTTG
1 TTTTG
35586 GGAAGTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.71
Consensus pattern (7 bp):
TTTTGTA
Found at i:35909 original size:17 final size:18
Alignment explanation
Indices: 35874--35915 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 18
35864 AGTGAACTTA
35874 AAATGACAAAAATGTCCCT
1 AAATG-CAAAAATGTCCCT
35893 AAATGCAAAAATG-CCCT
1 AAATGCAAAAATGTCCCT
35910 AAATGC
1 AAATGC
35916 CCCTGAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 10 0.43
18 8 0.35
19 5 0.22
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (18 bp):
AAATGCAAAAATGTCCCT
Found at i:35947 original size:27 final size:27
Alignment explanation
Indices: 35873--35947 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
35863 AAGTGAACTT
* * *
35873 AAAATGACAAAAATGTCCCTAAATGCA
1 AAAATGACCAAAATGCCCCTGAATGCA
* * *
35900 AAAATGCCCTAAATGCCCCTGAATGTA
1 AAAATGACCAAAATGCCCCTGAATGCA
35927 AAAATGACCAAAATGCCCCTG
1 AAAATGACCAAAATGCCCCTG
35948 GATGACCCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (27 bp):
AAAATGACCAAAATGCCCCTGAATGCA
Found at i:36445 original size:70 final size:70
Alignment explanation
Indices: 36332--36959 Score: 882
Period size: 70 Copynumber: 8.9 Consensus size: 70
36322 AAGACCACCC
* *
36332 TGGATCAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATTGATCATTCTGACAT
1 TGGATAAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACAT
36397 AAACT
66 AAACT
* * * * * *
36402 TGGATCAACTTGGAAGCTACTAAAGAAAGACCGCCCTAGGTCGACTGAATCGATCATTCTAACAT
1 TGGATAAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACAT
*
36467 AAAGT
66 AAACT
* *
36472 TGGAATAAACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCAATCATTCTGACA
1 TGG-ATAAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACA
36537 TAAACT
65 TAAACT
* * * *
36543 TGGATCAACTGGGAAGCTACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACAT
1 TGGATAAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACAT
36608 AAACT
66 AAACT
* * * * * *
36613 TGGATAAA-TGTGGGAACTACTGAAGAAAGACCACCCTGGGTTGACCGAACCGATCATTCTGACA
1 TGGATAAACT-TGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACA
36677 T-AACT
65 TAAACT
* * *
36682 TGGATAAACTTGGAAACAACTAAAGAAAGACCGCCCCTAGGTCGACTGAATCGAACATTCTGACA
1 TGGATAAACTTGGAAACAACTGAAGAAAGACCG-CCCTGGGTCGACTGAATCGATCATTCTGACA
36747 TAAACT
65 TAAACT
* *
36753 TGGGATAAACTTGAAAACAACTGAAGAAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACA
1 T-GGATAAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACA
36818 TAAACT
65 TAAACT
* * * * * * *
36824 TGGATCAACTGGGAAGCTACTAAAGAAAGATCGCCCTGGGTCGACTAAATCGATCATTCTGACAT
1 TGGATAAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACAT
36889 AAACT
66 AAACT
* *
36894 TGGAATAAACTTGAAAACAACTGAAGAAAGACCGCCCTGAGTCGACTGAATCGATCATTCTGACA
1 TGG-ATAAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACA
36959 T
65 T
36960 GAATTGAAGA
Statistics
Matches: 489, Mismatches: 62, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
69 32 0.07
70 273 0.56
71 154 0.31
72 30 0.06
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (70 bp):
TGGATAAACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACAT
AAACT
Found at i:36592 original size:141 final size:141
Alignment explanation
Indices: 36338--37274 Score: 1059
Period size: 141 Copynumber: 6.5 Consensus size: 141
36328 ACCCTGGATC
* *
36338 AACTTGGAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATTGATCATTCTGACATAAACTT
1 AACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTT
* * *
36403 GGATCAACTTGGAAGCTACTAAAGAAAGACCGCCCTAGGTCGACTGAATCGATCATTCTAACATA
66 GGATCAACTGGGAAGCTACTAAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATA
*
36468 AAGTTGGAATA
131 AACTTGGAATA
*
36479 AACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCAATCATTCTGACATAAACTT
1 AACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTT
*
36544 GGATCAACTGGGAAGCTACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATA
66 GGATCAACTGGGAAGCTACTAAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATA
36609 AACTTGG-ATA
131 AACTTGGAATA
** * * * * *
36619 AA-TGTGGGAACTACTGAAGAAAGACCACCCTGGGTTGACCGAACCGATCATTCTGACAT-AACT
1 AACT-TGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACT
* * * * * *
36682 TGGATAAACTTGGAAACAACTAAAGAAAGACCGCCCCTAGGTCGACTGAATCGAACATTCTGACA
65 TGGATCAACTGGGAAGCTACTAAAGAAAGACCG-CCCTGGGTCGACTGAATCGATCATTCTGACA
*
36747 TAAACTTGGGATA
129 TAAACTTGGAATA
*
36760 AACTTGAAAACAACTGAAGAAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTT
1 AACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTT
* *
36825 GGATCAACTGGGAAGCTACTAAAGAAAGATCGCCCTGGGTCGACTAAATCGATCATTCTGACATA
66 GGATCAACTGGGAAGCTACTAAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATA
36890 AACTTGGAATA
131 AACTTGGAATA
* *
36901 AACTTGAAAACAACTGAAGAAAGACCGCCCTGAGTCGACTGAATCGATCATTCTGACATGAA-TT
1 AACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTT
* * * *** *
36965 GAAGA-AAGACCGCCCTGGGTCAACCGAACTAAACTAAAGAAAGATCACCCTCAATC-A-T--TT
66 G--GATCA-A-----CTGGG--AA--G--CT--ACTAAAGAAAGACCGCCCTGGGTCGACTGAAT
* * * *
37025 CGA-CATAAACTGAAGAAAAACCACCCTGGGTCAACTGA
115 CGATCAT--TCTG-A-CATAA--A--CTTGG--AA-T-A
* * *
37063 ATCGATCATTCTGACATA-AACTGAAGGAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGAC
1 A---A-C--T-TGA-AAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGAC
* * *
37127 ATAAACTTGGATCAATTGGGAAGCTACTGAAGAAAGACCGCACTGGGTCGACTGAATCGATCATT
58 ATAAACTTGGATCAACTGGGAAGCTACTAAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATT
37192 CTGACATAAACTTGGAATA
123 CTGACATAAACTTGGAATA
37211 AACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACT
1 AACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACT
37275 GAAGAAAGAC
Statistics
Matches: 672, Mismatches: 75, Indels: 98
0.80 0.09 0.12
Matches are distributed among these distances:
139 33 0.05
140 95 0.14
141 335 0.50
142 37 0.06
144 1 0.00
145 1 0.00
147 5 0.01
148 2 0.00
149 3 0.00
150 5 0.01
151 5 0.01
152 7 0.01
153 4 0.01
154 5 0.01
155 37 0.06
156 5 0.01
157 4 0.01
158 7 0.01
159 5 0.01
160 5 0.01
161 3 0.00
162 2 0.00
163 4 0.01
165 1 0.00
166 1 0.00
168 4 0.01
169 51 0.08
170 5 0.01
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (141 bp):
AACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTT
GGATCAACTGGGAAGCTACTAAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATA
AACTTGGAATA
Found at i:37102 original size:49 final size:49
Alignment explanation
Indices: 37018--37133 Score: 171
Period size: 49 Copynumber: 2.4 Consensus size: 49
37008 ATCACCCTCA
37018 ATCATT-TCGACATAAACTGAAGAAAAACCACCCTGGGTCAACTGAATCG
1 ATCATTCT-GACATAAACTGAAGAAAAACCACCCTGGGTCAACTGAATCG
* * ** *
37067 ATCATTCTGACATAAACTGAAGGAAGACCGTCCTGGGTCGACTGAATCG
1 ATCATTCTGACATAAACTGAAGAAAAACCACCCTGGGTCAACTGAATCG
37116 ATCATTCTGACATAAACT
1 ATCATTCTGACATAAACT
37134 TGGATCAATT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 60 0.98
50 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (49 bp):
ATCATTCTGACATAAACTGAAGAAAAACCACCCTGGGTCAACTGAATCG
Found at i:37164 original size:190 final size:191
Alignment explanation
Indices: 36964--37375 Score: 469
Period size: 190 Copynumber: 2.2 Consensus size: 191
36954 TGACATGAAT
* * * * *
36964 TGAAGAAAGACCGCCCTGGGTCAACCGAA-CTAAAC-TAAAGAAAGATCACCCT-CAAT-CATTT
1 TGAAGAAAGACCGCCCTGGGTCAACCGAATC-AAACATAAAG--ACATAAACCTGCAATAAACTT
*
37025 CGACATA-AACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTGACATAAACTGAAG
63 -GA-AAACAACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTGACATAAACTGAAG
* * * * * * *
37089 GAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGG-ATCAA-TTGGGAAGCT
126 AAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTT-GAAAACA
37152 AC
190 AC
* * * * * *** * *
37154 TGAAGAAAGACCGCACTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTGAA
1 TGAAGAAAGACCGCCCTGGGTCAACCGAATCAAACATAAAGACATAAACCTGCAATAAACTTGAA
* * *
37219 AACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTGAAGAAAGA
66 AACAACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTGACATAAACTGAAGAAAGA
37284 CCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTGAAAACAAC
131 CCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTGAAAACAAC
* *
37345 TGAAGAAAGACCGCCCTGGGTCGACTGAATC
1 TGAAGAAAGACCGCCCTGGGTCAACCGAATC
37376 GATCATTCTG
Statistics
Matches: 188, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
189 8 0.04
190 132 0.70
191 46 0.24
192 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (191 bp):
TGAAGAAAGACCGCCCTGGGTCAACCGAATCAAACATAAAGACATAAACCTGCAATAAACTTGAA
AACAACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTGACATAAACTGAAGAAAGA
CCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTGAAAACAAC
Found at i:37262 original size:71 final size:70
Alignment explanation
Indices: 37081--37274 Score: 300
Period size: 71 Copynumber: 2.8 Consensus size: 70
37071 TTCTGACATA
* * *
37081 AACTGAAGGAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATCAATTGG
1 AACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATAAATTGG
* *
37146 GAAGC
66 AAAAC
* *
37151 TACTGAAGAAAGACCGCACTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGAATAAACTT
1 AACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGG-ATAAA-TT
37216 -GAAAAC
64 GGAAAAC
37222 AACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACT
1 AACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACT
37275 GAAGAAAGAC
Statistics
Matches: 113, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
70 52 0.46
71 59 0.52
72 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (70 bp):
AACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATAAATTGG
AAAAC
Found at i:37294 original size:49 final size:49
Alignment explanation
Indices: 37222--37323 Score: 195
Period size: 49 Copynumber: 2.1 Consensus size: 49
37212 ACTTGAAAAC
*
37222 AACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATA
1 AACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATA
37271 AACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATA
1 AACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATA
37320 AACT
1 AACT
37324 TGGAATAAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (49 bp):
AACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATA
Found at i:37294 original size:120 final size:120
Alignment explanation
Indices: 37152--37485 Score: 598
Period size: 120 Copynumber: 2.8 Consensus size: 120
37142 TTGGGAAGCT
* *
37152 ACTGAAGAAAGACCGCACTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTG
1 ACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTG
37217 AAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAA
66 AAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAA
37272 ACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTG
1 ACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTG
37337 AAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAA
66 AAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAA
* * *
37392 ACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTAACATAAACTTGG-ATAAACTTG
1 ACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTG
* *
37456 AAAACAATTGACGAAAGACCGCCCTGGGTC
66 AAAACAACTGAAGAAAGACCGCCCTGGGTC
37486 AACAAGAGAT
Statistics
Matches: 207, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
119 37 0.18
120 170 0.82
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (120 bp):
ACTGAAGAAAGACCGCCCTGGGTCAACTGAATCGATCATTCTGACATAAACTTGGAATAAACTTG
AAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAA
Found at i:37414 original size:49 final size:49
Alignment explanation
Indices: 37342--37443 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 49
37332 ACTTGAAAAC
* * * *
37342 AACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATA
1 AACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTAACATA
37391 AACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTAACATA
1 AACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTAACATA
37440 AACT
1 AACT
37444 TGGATAAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (49 bp):
AACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTAACATA
Found at i:37474 original size:310 final size:309
Alignment explanation
Indices: 36771--37485 Score: 999
Period size: 310 Copynumber: 2.3 Consensus size: 309
36761 ACTTGAAAAC
*
36771 AACTGAAGAAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATCAACTGG
1 AACTGAAGAAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATCAACTTG
* *
36836 GAAGCTACTAAAGAAAGATCGCCCTGGGTCGACTAAATCGATCATTCTGACATAAACTTGGAATA
66 GAAGCTACTGAAGAAAGACCGCCCTGGGTCGACTAAATCGATCATTCTGACATAAACTTGGAATA
* *
36901 AACTTGAAAACAACTGAAGAAAGACCGCCCTGAGTCGACTGAATCGATCATTCTGACATGAATTG
131 AACTTGAAAACAACTGAAGAAAGACCGCCCTGAGTCGACTGAATCGATCATTCTGACATAAACTG
* * * * * * *
36966 AAGAAAGACCGCCCTGGGTCAACCGAACTAAACTAAAGAAAGATCACCCTCAATCATTTCGACAT
196 AAGAAAGACCGCCCTGGGTCAACCGAACGAAACTAAAG-AACATAAACCTCAATAACTTCGACAA
37031 AAACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTGACATA
260 AAACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTGACATA
*
37081 AACTGAAGGAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATCAA-TTG
1 AACTGAAGAAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATCAACTT-
* *
37145 GGAAGCTACTGAAGAAAGACCGCACTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGAAT
65 GGAAGCTACTGAAGAAAGACCGCCCTGGGTCGACTAAATCGATCATTCTGACATAAACTTGGAAT
*
37210 AAACTTGAAAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATAAACT
130 AAACTTGAAAACAACTGAAGAAAGACCGCCCTGAGTCGACTGAATCGATCATTCTGACATAAACT
* * *** * *
37275 GAAGAAAGACCGCCCTGGGTCAACTGAATCG-ATCATTCTG-ACATAAACTTGGAATAAACTT-G
195 GAAGAAAGACCGCCCTGGGTCAACCGAA-CGAAAC-TAAAGAACATAAACCT-CAAT-AACTTCG
* * *
37337 A-AAACAACTGAAGAAAGACCGCCCTGGGTCGACTGAATCGATCATTCTGACATA
256 ACAAA-AACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTGACATA
* ** * * *
37391 AACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTAACATAAACTTGGATAAACTTG
1 AACTGAAGAAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATCAACTTG
* * * * *
37456 AAAACAATTGACGAAAGACCGCCCTGGGTC
66 GAAGCTACTGAAGAAAGACCGCCCTGGGTC
37486 AACAAGAGAT
Statistics
Matches: 359, Mismatches: 39, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
309 9 0.03
310 342 0.95
311 8 0.02
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (309 bp):
AACTGAAGAAAGACCGTCCTGGGTCGACTGAATCGATCATTCTGACATAAACTTGGATCAACTTG
GAAGCTACTGAAGAAAGACCGCCCTGGGTCGACTAAATCGATCATTCTGACATAAACTTGGAATA
AACTTGAAAACAACTGAAGAAAGACCGCCCTGAGTCGACTGAATCGATCATTCTGACATAAACTG
AAGAAAGACCGCCCTGGGTCAACCGAACGAAACTAAAGAACATAAACCTCAATAACTTCGACAAA
AACTGAAGAAAAACCACCCTGGGTCAACTGAATCGATCATTCTGACATA
Found at i:38628 original size:17 final size:16
Alignment explanation
Indices: 38602--38645 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
38592 TCCTTTTCTT
38602 TTTTTC-TTTTTCCCC
1 TTTTTCTTTTTTCCCC
**
38617 TTTTTCTGTTTTTTTCC
1 TTTTTCT-TTTTTCCCC
38634 TTTTTCTTTTTT
1 TTTTTCTTTTTT
38646 TTTCTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 5 0.20
17 14 0.56
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTCTTTTTTCCCC
Found at i:38645 original size:15 final size:15
Alignment explanation
Indices: 38602--38646 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
38592 TCCTTTTCTT
**
38602 TTTTTCTTTTTCCCC
1 TTTTTCTTTTTTTCC
38617 TTTTTCTGTTTTTTTCC
1 TTTTTC--TTTTTTTCC
38634 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
38647 TTCTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
17 13 0.50
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTCTTTTTTTCC
Found at i:38646 original size:17 final size:17
Alignment explanation
Indices: 38615--38649 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
38605 TTCTTTTTCC
38615 CCTTTTTCTGTTTTTTT
1 CCTTTTTCTGTTTTTTT
*
38632 CCTTTTTCTTTTTTTTT
1 CCTTTTTCTGTTTTTTT
38649 C
1 C
38650 TTTCATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (17 bp):
CCTTTTTCTGTTTTTTT
Found at i:38767 original size:21 final size:21
Alignment explanation
Indices: 38728--38768 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38718 CCTTTTTGAG
*
38728 AAAAACATTTTTTTCTTTTGC
1 AAAAACATTTTTATCTTTTGC
*
38749 AAAAACAATTTTTATTTTTT
1 AAAAAC-ATTTTTATCTTTT
38769 TACAAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (21 bp):
AAAAACATTTTTATCTTTTGC
Found at i:39395 original size:14 final size:15
Alignment explanation
Indices: 39372--39410 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
39362 ACTCAAAACC
39372 TTTA-TGAAAAC-AT
1 TTTATTGAAAACAAT
39385 TTTATTGAAAACAAT
1 TTTATTGAAAACAAT
*
39400 TTTTTTGAAAA
1 TTTATTGAAAA
39411 ATGTATCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 7 0.30
15 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (15 bp):
TTTATTGAAAACAAT
Found at i:39512 original size:27 final size:26
Alignment explanation
Indices: 39476--39532 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
39466 TTGATTTTCC
* * *
39476 TTTTCTTTTTTCTTTTTATTCTTCTTT
1 TTTTCCTTTTT-TTTATATTCCTCTTT
*
39503 TTTTCCTTTTTTTTATCTTCCTCTTT
1 TTTTCCTTTTTTTTATATTCCTCTTT
39529 TTTT
1 TTTT
39533 TAATGGGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTCCTTTTTTTTATATTCCTCTTT
Found at i:45300 original size:28 final size:27
Alignment explanation
Indices: 45265--45340 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
45255 AAAATGGACT
*
45265 AAAAATGACCAAAATGCCCCTTTAATGC
1 AAAAATGACCAAAATGCCCCTGT-ATGC
* *
45293 AAAAATGACCAAAATACCCCTGTATGT
1 AAAAATGACCAAAATGCCCCTGTATGC
45320 AAAAATGACCAAAATGCCCCT
1 AAAAATGACCAAAATGCCCCT
45341 ATGTGACCCT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 23 0.52
28 21 0.48
ACGTcount: A:0.45, C:0.25, G:0.11, T:0.20
Consensus pattern (27 bp):
AAAAATGACCAAAATGCCCCTGTATGC
Found at i:46264 original size:21 final size:20
Alignment explanation
Indices: 46235--46282 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
46225 TAGATTTAGA
* *
46235 TTTAATTTACTTTGCTTTGTT
1 TTTAATTTA-ATTGCTTTCTT
*
46256 TTTAGTTTAATTGCTTTCTT
1 TTTAATTTAATTGCTTTCTT
46276 TTTAATT
1 TTTAATT
46283 AATCTGTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTAATTTAATTGCTTTCTT
Found at i:52759 original size:20 final size:21
Alignment explanation
Indices: 52734--52786 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
52724 ACTAGCGCTG
*
52734 GGCG-CCCATGTGGTTTGCTT
1 GGCGACCCATGTGGTTTGCCT
*
52754 GGCGCCCCATGTGGTTTGCCT
1 GGCGACCCATGTGGTTTGCCT
*
52775 CGCGACCCATGT
1 GGCGACCCATGT
52787 ACTCCAGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.08, C:0.32, G:0.32, T:0.28
Consensus pattern (21 bp):
GGCGACCCATGTGGTTTGCCT
Found at i:57893 original size:21 final size:20
Alignment explanation
Indices: 57861--57904 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
57851 ATTAAAAAGA
*
57861 AAAGCAATTAAACTAAAACT
1 AAAGCAAATAAACTAAAACT
* *
57881 AAAGCAAAATAAATTAAATCT
1 AAAGC-AAATAAACTAAAACT
57902 AAA
1 AAA
57905 CTATGGCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.64, C:0.11, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAGCAAATAAACTAAAACT
Found at i:59250 original size:19 final size:18
Alignment explanation
Indices: 59213--59252 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
59203 TTCTTGAAAG
*
59213 AATTCTTCAATGGTCTTC
1 AATTCTTCAATGATCTTC
*
59231 AATTCTTCAAATTATCTTC
1 AATTCTTC-AATGATCTTC
59250 AAT
1 AAT
59253 AAATCTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (18 bp):
AATTCTTCAATGATCTTC
Found at i:59874 original size:19 final size:19
Alignment explanation
Indices: 59850--59887 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59840 GGCTTGAGGA
59850 GTCTTGAGGTTTCTTATCT
1 GTCTTGAGGTTTCTTATCT
59869 GTCTTGAGGTTTCTTATCT
1 GTCTTGAGGTTTCTTATCT
59888 CCTCCCTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.21, T:0.53
Consensus pattern (19 bp):
GTCTTGAGGTTTCTTATCT
Found at i:61003 original size:26 final size:28
Alignment explanation
Indices: 60959--61020 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 28
60949 CAAGGCGTCA
*
60959 TCCCTCTTGATAAAGGATGG-CAATTT-
1 TCCCTCTTGATAAACGATGGACAATTTC
**
60985 TCCCTCTTGATGGACGATGGACAATTTC
1 TCCCTCTTGATAAACGATGGACAATTTC
*
61013 TCCTTCTT
1 TCCCTCTT
61021 CTTAGCGCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 17 0.57
27 6 0.20
28 7 0.23
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (28 bp):
TCCCTCTTGATAAACGATGGACAATTTC
Found at i:69853 original size:2 final size:2
Alignment explanation
Indices: 69846--69876 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
69836 ACCTGTTAAA
69846 AT 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 A
69877 AGAAAATTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72773 original size:36 final size:36
Alignment explanation
Indices: 72729--72808 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
72719 CCTCCTTGGG
72729 TTTT-CTTTTCCTTTTGGGCCTTAACCTTTTAAATA
1 TTTTGCTTTTCCTTTTGGGCCTTAACCTTTTAAATA
72764 TTTTGCTTTTCCTTTTGGGCCTTAACCTTTTAAATA
1 TTTTGCTTTTCCTTTTGGGCCTTAACCTTTTAAATA
*
72800 TGTTGCTTT
1 TTTTGCTTT
72809 GAGATGTCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 4 0.09
36 39 0.91
ACGTcount: A:0.15, C:0.19, G:0.11, T:0.55
Consensus pattern (36 bp):
TTTTGCTTTTCCTTTTGGGCCTTAACCTTTTAAATA
Found at i:76170 original size:29 final size:28
Alignment explanation
Indices: 76125--76185 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
76115 AAGATAAAAA
**
76125 AAAATCAAAAAAGAAAAATTGAGTCTTTC
1 AAAATCAAAAAAGAAAAAAAGAGT-TTTC
*
76154 AAAATTAAATAAA-AAAAAAAGAGTTTTC
1 AAAATCAAA-AAAGAAAAAAAGAGTTTTC
76182 AAAA
1 AAAA
76186 ATCCAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.29
29 17 0.61
30 3 0.11
ACGTcount: A:0.62, C:0.07, G:0.08, T:0.23
Consensus pattern (28 bp):
AAAATCAAAAAAGAAAAAAAGAGTTTTC
Found at i:76290 original size:52 final size:52
Alignment explanation
Indices: 76233--76355 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 52
76223 ATTTCATTCA
*
76233 AAGTTTTCAAAGCATTCAATTT-AGCCCTTTTCAAAGTGGGAAAGTTCCCATT
1 AAGTTTTCAAAGCATTCAATTTAAG-CCTTTTCAAAGTGGGAAAGTTCCCATC
** *
76285 AAGTTTTCAAAGTGTTCAATTTAAGTCTTTTCAAAGTGGGAAAGTTCCCATC
1 AAGTTTTCAAAGCATTCAATTTAAGCCTTTTCAAAGTGGGAAAGTTCCCATC
*
76337 AAGTTTTCAAAACATTCAA
1 AAGTTTTCAAAGCATTCAA
76356 ATAGCATTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
52 61 0.97
53 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (52 bp):
AAGTTTTCAAAGCATTCAATTTAAGCCTTTTCAAAGTGGGAAAGTTCCCATC
Done.