Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024086.1 Corchorus olitorius cultivar O-4 contig24119, 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: 37580
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:1127 original size:51 final size:52
Alignment explanation
Indices: 1072--1178 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 52
1062 AATTCTTCCT
* * *
1072 TTAACAGTTTGCAATAAAACCCAAAAAAGAA-GTCCAGGAAAAAGATCGGGC
1 TTAACAGTTTGCAATAAAACCAAAAAAAAAACGTCCAGAAAAAAGATCGGGC
*
1123 TTAACAGTTTGCGATAAAACCAAAAAAAAAACGTCCAGAAAAAAGATCGGGC
1 TTAACAGTTTGCAATAAAACCAAAAAAAAAACGTCCAGAAAAAAGATCGGGC
1175 TTAA
1 TTAA
1179 AATCGAGAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 28 0.55
52 23 0.45
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.17
Consensus pattern (52 bp):
TTAACAGTTTGCAATAAAACCAAAAAAAAAACGTCCAGAAAAAAGATCGGGC
Found at i:3675 original size:22 final size:22
Alignment explanation
Indices: 3633--3675 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3623 ACTATCGTCT
*
3633 TTCATAAAAAAAATAGTGAAAA
1 TTCATAAAAAAAATAGCGAAAA
*
3655 TTCA-AAAAAAAAGTTGCGAAA
1 TTCATAAAAAAAA-TAGCGAAA
3676 TTGGGGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (22 bp):
TTCATAAAAAAAATAGCGAAAA
Found at i:3880 original size:21 final size:21
Alignment explanation
Indices: 3851--3891 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3841 TCATTTGGAT
*
3851 TTCTAGGGTTTCAGATTAGGG
1 TTCTAGGGTTTCAAATTAGGG
* *
3872 TTCTTGGGTTTGAAATTAGG
1 TTCTAGGGTTTCAAATTAGG
3892 TTTTTCGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.32, T:0.41
Consensus pattern (21 bp):
TTCTAGGGTTTCAAATTAGGG
Found at i:5340 original size:26 final size:26
Alignment explanation
Indices: 5311--5367 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
5301 TATATTAAAA
5311 TAGCATTCGCATTAGTAATTAGGTAC
1 TAGCATTCGCATTAGTAATTAGGTAC
* * *
5337 TAGCATTTGCATTAGTGATTAGGTAT
1 TAGCATTCGCATTAGTAATTAGGTAC
5363 TAGCA
1 TAGCA
5368 GTTTGGCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (26 bp):
TAGCATTCGCATTAGTAATTAGGTAC
Found at i:9641 original size:26 final size:25
Alignment explanation
Indices: 9581--9754 Score: 145
Period size: 26 Copynumber: 6.6 Consensus size: 25
9571 AAAAAGGAAA
*
9581 AATTAAAGAGTAAAAAGAAATTTGAGT
1 AATTAAAGAGTAAAAGGAAA-TTG-GT
9608 AATTAAAGAGTAAAAGGAAATTGGT
1 AATTAAAGAGTAAAAGGAAATTGGT
* *
9633 AATTAAA-AGATAAACAATGAATTTGGT
1 AATTAAAGAG-T-AA-AAGGAAATTGGT
*
9660 AATTAAAAGAGTAAAAGGAAATTAGT
1 AATT-AAAGAGTAAAAGGAAATTGGT
* * *
9686 AATTAAAAAAGTAAAATGG-ATTTGGAC
1 AATT-AAAGAGTAAAA-GGAAATTGG-T
* *
9713 AATTAAAGAGTAAGAGAAAATTTGGT
1 AATTAAAGAGTAAAAGGAAA-TTGGT
* *
9739 GATTAAAGAATAAAAG
1 AATTAAAGAGTAAAAG
9755 AGTAAAAAGA
Statistics
Matches: 120, Mismatches: 18, Indels: 19
0.76 0.11 0.12
Matches are distributed among these distances:
24 2 0.02
25 11 0.09
26 56 0.47
27 45 0.38
28 4 0.03
29 2 0.02
ACGTcount: A:0.54, C:0.01, G:0.20, T:0.25
Consensus pattern (25 bp):
AATTAAAGAGTAAAAGGAAATTGGT
Found at i:9789 original size:36 final size:34
Alignment explanation
Indices: 9717--9789 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 34
9707 TTGGACAATT
* *
9717 AAAGAGTAAGAGAAAATTTGGTGATTAAAGAATA
1 AAAGAGTAAAAGAAAATCTGGTGATTAAAGAATA
* *
9751 AAAGAGTAAAAAGAAAATCTGGTTGTTTAAAGAGTA
1 AAAGAGT-AAAAGAAAATCTGG-TGATTAAAGAATA
9787 AAA
1 AAA
9790 TGAATTTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 7 0.21
35 12 0.36
36 14 0.42
ACGTcount: A:0.53, C:0.01, G:0.22, T:0.23
Consensus pattern (34 bp):
AAAGAGTAAAAGAAAATCTGGTGATTAAAGAATA
Found at i:9805 original size:61 final size:62
Alignment explanation
Indices: 9713--9876 Score: 190
Period size: 62 Copynumber: 2.7 Consensus size: 62
9703 GGATTTGGAC
* * *
9713 AATT-AAAGAGTAAGAGAAAATTTGGTGATTAAAGAATAAAAGAGTAAAAAGAAAATCT-GGT
1 AATTAAAAGAGTAAAAG-GAATTTGGTAATTAAAGAATAAAAGAGTAAAAAGAAAATCTGGGT
** * * * *
9774 TGTTTAAAGAGTAAAATGAATTTGGTAATTAAAGAGTAAAAGAGTAAAAAGAAAATTTGGGT
1 AATTAAAAGAGTAAAAGGAATTTGGTAATTAAAGAATAAAAGAGTAAAAAGAAAATCTGGGT
* *
9836 AATTAAAAGAGTAAAAGGAAATTGATAATTAAA-AAGTAAAA
1 AATTAAAAGAGTAAAAGGAATTTGGTAATTAAAGAA-TAAAA
9877 CGAAATTGGT
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
61 40 0.47
62 45 0.53
ACGTcount: A:0.54, C:0.01, G:0.20, T:0.25
Consensus pattern (62 bp):
AATTAAAAGAGTAAAAGGAATTTGGTAATTAAAGAATAAAAGAGTAAAAAGAAAATCTGGGT
Found at i:9881 original size:25 final size:26
Alignment explanation
Indices: 9810--10124 Score: 120
Period size: 26 Copynumber: 12.0 Consensus size: 26
9800 AATTAAAGAG
* *
9810 TAAAAGAGTAAAAAGAAAATTTGGGTAAT
1 TAAAA-AGTAAAACG-AAA-TTGGATAAT
*
9839 TAAAAGAGTAAAAGGAAATT-GATAAT
1 TAAAA-AGTAAAACGAAATTGGATAAT
*
9865 TAAAAAGTAAAACGAAATTGGTTAAT
1 TAAAAAGTAAAACGAAATTGGATAAT
* * *
9891 TAAAAAGTAAAATGAATTTGGACAAT
1 TAAAAAGTAAAACGAAATTGGATAAT
* *
9917 TAAAGAGTAAGA-GAAAATTTGG-TAAT
1 TAAAAAGTAAAACG-AAA-TTGGATAAT
* * **
9943 TAAAGAA-TAAAAGAGTAAAATAAATAA-
1 TAAA-AAGTAAAA-CG-AAATTGGATAAT
* *
9970 -AAAAAG-AAAA--AAATT--AAAGAG
1 TAAAAAGTAAAACGAAATTGGATA-AT
** * * *
9991 TAAAAAG-AAATTTGGTAATT--AAAGAG
1 TAAAAAGTAAA--ACGAAATTGGATA-AT
* * *
10017 TAAAAGAGTAAAAAGACAATTTGGGTAAT
1 TAAAA-AGTAAAACGAAA--TTGGATAAT
*
10046 TAAAAGAGTAAAAGGAAATT-GATAAT
1 TAAAA-AGTAAAACGAAATTGGATAAT
* *
10072 TAAAAAGTAAAATGAAATTGGGTAAT
1 TAAAAAGTAAAACGAAATTGGATAAT
* *
10098 TAAAAAGTAAAATGAAATTGGGTAAT
1 TAAAAAGTAAAACGAAATTGGATAAT
10124 T
1 T
10125 GGTAAATTTG
Statistics
Matches: 230, Mismatches: 34, Indels: 47
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.01
20 1 0.00
21 4 0.02
22 9 0.04
25 33 0.14
26 122 0.53
27 12 0.05
28 15 0.07
29 31 0.13
30 1 0.00
ACGTcount: A:0.57, C:0.01, G:0.18, T:0.24
Consensus pattern (26 bp):
TAAAAAGTAAAACGAAATTGGATAAT
Found at i:9898 original size:201 final size:204
Alignment explanation
Indices: 9553--10118 Score: 732
Period size: 207 Copynumber: 2.8 Consensus size: 204
9543 AAAGAAAGGC
* *
9553 AAAGAGTAAAATAAATAAAAAAAGGAAAAATTAAAGAGTAAAAAGAAATTTGAGTAATTAAAGAG
1 AAAGAGT-AAATAAAGAAAAAAAGAAAAAATTAAAGAGTAAAAAGAAATTTG-GTAATTAAAGAG
* * *
9618 T-AAA-AG------G-AAA-TT-GGTAATTAAAAGA-TAAACAATGAATTTGGTAATTAAAAGAG
64 TAAAAGAGTAAAAAGAAAATTTGGGTAATTAAAAGAGT-AA-AAGGAAATTGATAATTAAAA-AG
* * *
9671 TAAAAGGAAATTAGTAATTAAAAAAGTAAAATGGATTTGGACAATTAAAGAGTAAGAGAAAATTT
126 TAAAACGAAATTGGTAATT-AAAAAGTAAAATGAATTTGGACAATTAAAGAGTAAGAGAAAATTT
*
9736 GGTGATTAAAGAATA
190 GGTAATTAAAGAATA
*** ***** *
9751 AAAGAGT-AA-AAAGAAAATCTG-GTTGTTTAAAGAGTAAAATG-AATTTGGTAATTAAAGAGTA
1 AAAGAGTAAATAAAGAAAAAAAGAAAAAATTAAAGAGTAAAAAGAAATTTGGTAATTAAAGAGTA
9812 AAAGAGTAAAAAGAAAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGATAATTAAAAAGTAAAA
66 AAAGAGTAAAAAGAAAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGATAATTAAAAAGTAAAA
9877 CGAAATTGGTTAATTAAAAAGTAAAATGAATTTGGACAATTAAAGAGTAAGAGAAAATTTGGTAA
131 CGAAATTGG-TAATTAAAAAGTAAAATGAATTTGGACAATTAAAGAGTAAGAGAAAATTTGGTAA
9942 TTAAAGAATA
195 TTAAAGAATA
*
9952 AAAGAGTAAAATAAATAAAAAAAGAAAAAAATTAAAGAGTAAAAAGAAATTTGGTAATTAAAGAG
1 AAAGAGT-AAATAAAGAAAAAAAG-AAAAAATTAAAGAGTAAAAAGAAATTTGGTAATTAAAGAG
*
10017 TAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGATAATTAAAAAGTAA
64 TAAAAGAGTAAAAAGAAAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGATAATTAAAAAGTAA
* *
10082 AATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGG
129 AACGAAATT-GGTAATTAAAAAGTAAAATGAATTTGG
10119 GTAATTGGTA
Statistics
Matches: 318, Mismatches: 30, Indels: 31
0.84 0.08 0.08
Matches are distributed among these distances:
192 13 0.04
193 9 0.03
194 16 0.05
195 8 0.03
196 2 0.01
198 7 0.02
200 1 0.00
201 82 0.26
202 24 0.08
203 17 0.05
204 9 0.03
206 14 0.04
207 114 0.36
208 2 0.01
ACGTcount: A:0.56, C:0.01, G:0.19, T:0.24
Consensus pattern (204 bp):
AAAGAGTAAATAAAGAAAAAAAGAAAAAATTAAAGAGTAAAAAGAAATTTGGTAATTAAAGAGTA
AAAGAGTAAAAAGAAAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGATAATTAAAAAGTAAAA
CGAAATTGGTAATTAAAAAGTAAAATGAATTTGGACAATTAAAGAGTAAGAGAAAATTTGGTAAT
TAAAGAATA
Found at i:9943 original size:26 final size:26
Alignment explanation
Indices: 9812--9956 Score: 129
Period size: 26 Copynumber: 5.5 Consensus size: 26
9802 TTAAAGAGTA
9812 AAAGAGTAAAAAGAAAATTTGGGTAATT
1 AAAGAGT-AAAAGAAAATTT-GGTAATT
* *
9840 AAAAGAGTAAAAGGAAA-TTGATAATT
1 -AAAGAGTAAAAGAAAATTTGGTAATT
*
9866 AAAAAGTAAAACG-AAA-TTGGTTAATT
1 AAAGAGTAAAA-GAAAATTTGG-TAATT
* *
9892 AAAAAGTAAAATG--AATTTGGACAATT
1 AAAGAGTAAAA-GAAAATTTGG-TAATT
*
9918 AAAGAGTAAGAGAAAATTTGGTAATT
1 AAAGAGTAAAAGAAAATTTGGTAATT
*
9944 AAAGAATAAAAGA
1 AAAGAGTAAAAGA
9957 GTAAAATAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
25 19 0.19
26 56 0.57
27 9 0.09
28 8 0.08
29 7 0.07
ACGTcount: A:0.56, C:0.01, G:0.19, T:0.24
Consensus pattern (26 bp):
AAAGAGTAAAAGAAAATTTGGTAATT
Found at i:9956 original size:34 final size:34
Alignment explanation
Indices: 9918--10059 Score: 108
Period size: 34 Copynumber: 4.1 Consensus size: 34
9908 TTGGACAATT
9918 AAAGAGT-AAGAGAAAATTTGGTAATTAAAGAATA
1 AAAGAGTAAAGAG-AAATTTGGTAATTAAAGAATA
* ***** ** * *
9952 AAAGAGTAAA-ATAAATAAAAAAAGAAAAAAATT
1 AAAGAGTAAAGAGAAATTTGGTAATTAAAGAATA
* *
9985 AAAGAGTAAAAAGAAATTTGGTAATTAAAGAGTA
1 AAAGAGTAAAGAGAAATTTGGTAATTAAAGAATA
* *
10019 AAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTA
1 AAAGAGTAAAGAGA-AATTT-GGTAATT-AAAGAATA
10056 AAAG
1 AAAG
10060 GAAATTGATA
Statistics
Matches: 82, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
33 22 0.27
34 34 0.41
35 7 0.09
36 7 0.09
37 12 0.15
ACGTcount: A:0.61, C:0.01, G:0.18, T:0.20
Consensus pattern (34 bp):
AAAGAGTAAAGAGAAATTTGGTAATTAAAGAATA
Found at i:9966 original size:20 final size:21
Alignment explanation
Indices: 9940--10000 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
9930 AAAATTTGGT
**
9940 AATTAAAGAATAAAAGAGTAA
1 AATTAAAGAATAAAAGAAAAA
* *
9961 AA-TAAATAAAAAAAGAAAAA
1 AATTAAAGAATAAAAGAAAAA
*
9981 AATTAAAGAGTAAAAAGAAA
1 AATTAAAGAAT-AAAAGAAA
10001 TTTGGTAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.52
21 7 0.23
22 8 0.26
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (21 bp):
AATTAAAGAATAAAAGAAAAA
Found at i:9970 original size:17 final size:16
Alignment explanation
Indices: 9948--9996 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
9938 GTAATTAAAG
9948 AATAAAAGAGTAAAATA
1 AATAAAAGAGTAAAA-A
*
9965 AATAAAAAAAG-AAAAA
1 AAT-AAAAGAGTAAAAA
*
9981 AATTAAAGAGTAAAAA
1 AATAAAAGAGTAAAAA
9997 GAAATTTGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 5 0.19
16 9 0.33
17 7 0.26
18 6 0.22
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (16 bp):
AATAAAAGAGTAAAAA
Found at i:10097 original size:26 final size:27
Alignment explanation
Indices: 10017--10124 Score: 150
Period size: 26 Copynumber: 4.0 Consensus size: 27
10007 AATTAAAGAG
*
10017 TAAAAGAGTAAAAAGACAATTTGGGTAAT
1 TAAAAGAGTAAAATGA-AA-TTGGGTAAT
* *
10046 TAAAAGAGTAAAAGGAAATT-GATAAT
1 TAAAAGAGTAAAATGAAATTGGGTAAT
10072 TAAAA-AGTAAAATGAAATTGGGTAAT
1 TAAAAGAGTAAAATGAAATTGGGTAAT
10098 TAAAA-AGTAAAATGAAATTGGGTAAT
1 TAAAAGAGTAAAATGAAATTGGGTAAT
10124 T
1 T
10125 GGTAAATTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
25 13 0.18
26 42 0.57
27 2 0.03
28 2 0.03
29 15 0.20
ACGTcount: A:0.54, C:0.01, G:0.19, T:0.26
Consensus pattern (27 bp):
TAAAAGAGTAAAATGAAATTGGGTAAT
Found at i:10124 original size:52 final size:55
Alignment explanation
Indices: 9581--10117 Score: 253
Period size: 52 Copynumber: 10.0 Consensus size: 55
9571 AAAAAGGAAA
* *
9581 AATT-AAAGAGTAAAAAGA-AATTTGAGTAATT-AAAGAGTAAAAGGAAATTGGT
1 AATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGAT
9633 AATTAAAAGA-TAAACAATG--AATTT-GGTAATTAAAAGAGTAAAAGGAAATT-AGT
1 AATTAAAAGAGTAAA-AA-GACAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGA-T
* * * ** * *
9686 AATTAAAAAAGTAAAATG--GATTTGGACAATT-AAAGAGTAAGAGAAAATTTGGTGATT
1 AATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAA--T--TGA-T
* * * ** * * *
9743 AAAGAATAAAAGAGTAAAAAGAAAATCT-GGTTGTTTAAAGAGTAAAATGAATTTGGTAATT
1 --A-ATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATT-G--A-T
* *
9804 AAAGAGTAAAAGAGTAAAAAGAAAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGAT
1 --A-ATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGAT
* * * * *
9862 AATTAAAA-AGTAAAACGA-AA-TTGGTTAATTAAAA-AGTAAAATGAATTTGGAC
1 AATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATT-GAT
* * * *
9914 AATT-AAAGAGT-AAGAGAAAATTT-GGTAATT-AAAGAATAAAAGAGTAAAAT-A-
1 AATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAG-G-AAATTGAT
* * *** * * * *
9965 AATAAAAAAAG--AAAA-A-AATTAAAG--AGTAAAA-AG-AAATTTGGTAATT-AA
1 AATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAA--AGGAAATTGAT
*
10013 AGAGTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGAT
1 A-ATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGAT
* *
10069 AATTAAAA-AGTAAAATGA-AA-TTGGGTAATTAAAA-AGTAAAATGAAATTG
1 AATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATTG
10118 GGTAATTGGT
Statistics
Matches: 374, Mismatches: 66, Indels: 91
0.70 0.12 0.17
Matches are distributed among these distances:
47 7 0.02
48 5 0.01
49 15 0.04
50 2 0.01
51 46 0.12
52 90 0.24
53 58 0.16
54 27 0.07
55 24 0.06
56 6 0.02
57 5 0.01
58 2 0.01
59 3 0.01
60 15 0.04
61 33 0.09
62 36 0.10
ACGTcount: A:0.55, C:0.01, G:0.19, T:0.25
Consensus pattern (55 bp):
AATTAAAAGAGTAAAAAGACAATTTGGGTAATTAAAAGAGTAAAAGGAAATTGAT
Found at i:10150 original size:21 final size:22
Alignment explanation
Indices: 10126--10175 Score: 57
Period size: 25 Copynumber: 2.2 Consensus size: 22
10116 TGGGTAATTG
*
10126 GTAAAT-TTGGGTAATTAAAGA
1 GTAAATATTGGATAATTAAAGA
10147 GTAAAATGAATTGGATAATTAAAGA
1 GT-AAAT--ATTGGATAATTAAAGA
10172 GTAA
1 GTAA
10176 TTGGTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 2 0.08
22 4 0.17
24 2 0.08
25 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (22 bp):
GTAAATATTGGATAATTAAAGA
Found at i:10182 original size:43 final size:42
Alignment explanation
Indices: 10086--10166 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
10076 AAGTAAAATG
*
10086 AAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGT
1 AAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGT
*
10128 AAATTTGGGTAATTAAAGAGTAAAATG-AATTGGATAATT
1 AAA-TTGGGTAATTAAAAAGTAAAATGAAATTGGATAATT
10167 AAAGAGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 14 0.39
43 22 0.61
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (42 bp):
AAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGT
Found at i:10219 original size:14 final size:14
Alignment explanation
Indices: 10200--10261 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
10190 TAATTAAGAA
10200 GTAAAATGAATTTG
1 GTAAAATGAATTTG
*
10214 GTAAAATGACTTTG
1 GTAAAATGAATTTG
* ***
10228 GTAACTAAAGAATAAA
1 GTAA--AATGAATTTG
10244 GTAAAATGAATTTG
1 GTAAAATGAATTTG
10258 GTAA
1 GTAA
10262 TTAAAGAGTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
14 27 0.75
16 9 0.25
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (14 bp):
GTAAAATGAATTTG
Found at i:10248 original size:30 final size:31
Alignment explanation
Indices: 10214--10308 Score: 102
Period size: 30 Copynumber: 3.0 Consensus size: 31
10204 AATGAATTTG
*
10214 GTAAAATGACTTTGGTAACTAAAGAAT-AAA
1 GTAAAATGAATTTGGTAACTAAAGAATAAAA
* *
10244 GTAAAATGAATTTGGTAATTAAAGAGTAAAA
1 GTAAAATGAATTTGGTAACTAAAGAATAAAA
* * *
10275 GTAAATTGGTTAATTTGGTAATTAAAAAATAAAA
1 GTAAAAT-G--AATTTGGTAACTAAAGAATAAAA
10309 TGAAATTGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 24 0.44
31 9 0.16
32 1 0.02
34 21 0.38
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (31 bp):
GTAAAATGAATTTGGTAACTAAAGAATAAAA
Found at i:10293 original size:34 final size:33
Alignment explanation
Indices: 10224--10323 Score: 109
Period size: 34 Copynumber: 3.1 Consensus size: 33
10214 GTAAAATGAC
* *
10224 TTTGGTAACTAAAGAAT-AAAGTAAAAT-G-AA
1 TTTGGTAATTAAAGAATAAAAGTAAATTGGTAA
*
10254 TTTGGTAATTAAAGAGTAAAAGTAAATTGGTTAA
1 TTTGGTAATTAAAGAATAAAAGTAAATTGG-TAA
*
10288 TTTGGTAATTAAAAAATAAAA-TGAAATTGGGTAA
1 TTTGGTAATTAAAGAATAAAAGT-AAATT-GGTAA
10322 TT
1 TT
10324 AAAGAGTAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
30 15 0.25
31 9 0.15
32 1 0.02
33 1 0.02
34 31 0.53
35 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.18, T:0.33
Consensus pattern (33 bp):
TTTGGTAATTAAAGAATAAAAGTAAATTGGTAA
Found at i:10602 original size:21 final size:21
Alignment explanation
Indices: 10555--10601 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
10545 GGAAATGAGG
*
10555 TAAAAATGAAATCTTGGAAAT
1 TAAAAATGAAATCTCGGAAAT
*
10576 TAAAAATGAAAT-TCGGTAAT
1 TAAAAATGAAATCTCGGAAAT
10596 TAAAAA
1 TAAAAA
10602 AAAAAGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (21 bp):
TAAAAATGAAATCTCGGAAAT
Found at i:13834 original size:19 final size:18
Alignment explanation
Indices: 13801--13836 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13791 TTGATATAAT
13801 TCTTCAATGATCTTCAAA
1 TCTTCAATGATCTTCAAA
*
13819 TCTTCAAATTATCTTCAA
1 TCTTC-AATGATCTTCAA
13837 TAAACTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAA
Found at i:14428 original size:30 final size:29
Alignment explanation
Indices: 14372--14430 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
14362 AAAAAAGCCA
14372 AACGGAAAAATAACAAAACATTTTTTTTT
1 AACGGAAAAATAACAAAACATTTTTTTTT
14401 AACGGAAAAATAACAAAACATTTTTTTTT
1 AACGGAAAAATAACAAAACATTTTTTTTT
14430 A
1 A
14431 TCCCTTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (29 bp):
AACGGAAAAATAACAAAACATTTTTTTTT
Found at i:19498 original size:15 final size:16
Alignment explanation
Indices: 19454--19500 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
19444 GATTGTTATA
19454 CTTTGATGACAAAATC
1 CTTTGATGACAAAATC
* ** *
19470 TTTTG-TGGTAAAAAC
1 CTTTGATGACAAAATC
19485 CTTTGATGACAAAATC
1 CTTTGATGACAAAATC
19501 TAGCCTCCAA
Statistics
Matches: 22, Mismatches: 8, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (16 bp):
CTTTGATGACAAAATC
Found at i:21076 original size:15 final size:16
Alignment explanation
Indices: 21056--21088 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21046 TAAGCTAACA
*
21056 AAACAAA-CTTAACTT
1 AAACAAAGCATAACTT
21071 AAACAAAGCATAACTT
1 AAACAAAGCATAACTT
21087 AA
1 AA
21089 GCTAAGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (16 bp):
AAACAAAGCATAACTT
Found at i:23455 original size:42 final size:40
Alignment explanation
Indices: 23299--23831 Score: 324
Period size: 40 Copynumber: 12.8 Consensus size: 40
23289 GGGCAAAGGC
*
23299 AAGTAAACAACACCTTCCGATGAGGAAGGGCAGAACGGGAA
1 AAGTAAACAACACCTTCCGATGAGGAAGGGCA-AACAGGAA
* * * *
23340 AAGTAAACATCACCTTCCGGTGGGGAAGAGCAAAGCAGGAA
1 AAGTAAACAACACCTTCCGATGAGGAAGGGCAAA-CAGGAA
* * *
23381 AAGTAAACAACACCTTCCGGTGGGGAATGGCAAACTAGGAGA
1 AAGTAAACAACACCTTCCGATGAGGAAGGGCAAAC-AGGA-A
** * *
23423 GCGTAGACAACACCTTCCGACGAGGAAGGGCAAAAACAGG-A
1 AAGTAAACAACACCTTCCGATGAGGAAGGGC--AAACAGGAA
* * * * *
23464 ATGTAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGGTA
1 AAGTAAACAACACCTTCCGATGAGGAAGGGC-AAACAGGAA
** * * *
23505 ATTTAAACAACACCTTCCGGTGGGGAAGGGCAAA-ACGGGA
1 AAGTAAACAACACCTTCCGATGAGGAAGGGCAAACA-GGAA
** * *
23545 ATTTAAACAACACCTTCC-AGTGGGGAAGGGCAAA-ACGGGA
1 AAGTAAACAACACCTTCCGA-TGAGGAAGGGCAAACA-GGAA
** * * * * *
23585 ATTTAAACGACACCTTCCGGTGGGGAAGGGCAAACTGGTA
1 AAGTAAACAACACCTTCCGATGAGGAAGGGCAAACAGGAA
** * *
23625 ATTTAAACAACACCTTCCGGT-AGGGAAGGGCAAAACAAG-A
1 AAGTAAACAACACCTTCCGATGA-GGAAGGGC-AAACAGGAA
** * * *
23665 ATTTAAACAACACCTTCCGGTGGGGAAGGGCAAATC-GGTA
1 AAGTAAACAACACCTTCCGATGAGGAAGGGCAAA-CAGGAA
** * * *
23705 ATTTAAACAACACCTTCCGGTGAGGAAGGGCAGACTGGGAA
1 AAGTAAACAACACCTTCCGATGAGGAAGGGCAAAC-AGGAA
* * *
23746 ATGCAGACTTAAACAACACCTTCCGATGAGGAAGGACAATCTGGGAAAA
1 A---AG---TAAACAACACCTTCCGATGAGGAAGGGCAAAC-AGG--AA
23795 ACAGACTTAAACAACACCTTCCGATGAGGAAGGGCAA
1 A-AG---TAAACAACACCTTCCGATGAGGAAGGGCAA
23832 TCTGGGAAAA
Statistics
Matches: 421, Mismatches: 46, Indels: 44
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.01
40 180 0.43
41 134 0.32
42 25 0.06
43 3 0.01
44 4 0.01
47 67 0.16
49 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (40 bp):
AAGTAAACAACACCTTCCGATGAGGAAGGGCAAACAGGAA
Found at i:23559 original size:40 final size:40
Alignment explanation
Indices: 23302--23736 Score: 514
Period size: 40 Copynumber: 10.7 Consensus size: 40
23292 CAAAGGCAAG
* * * **
23302 TAAACAACACCTTCCGATGAGGAAGGGCAGAACGGGAAAAG
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGG-AATT
* * * * **
23343 TAAACATCACCTTCCGGTGGGGAAGAGCAAAGCAGGAAAAG
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAAC-GGGAATT
* ***
23384 TAAACAACACCTTCCGGTGGGGAATGGC-AAACTAGGAGAGCG
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAAC--GG-GAATT
* ** * * *
23426 TAGACAACACCTTCCGACGAGGAAGGGCAAAAACAGGAATG
1 TAAACAACACCTTCCGGTGGGGAAGGGC-AAAACGGGAATT
23467 TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGGTAATT
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGG-AATT
23508 TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGGAATT
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGGAATT
*
23548 TAAACAACACCTTCCAGTGGGGAAGGGCAAAACGGGAATT
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGGAATT
* *
23588 TAAACGACACCTTCCGGTGGGGAAGGGC-AAACTGGTAATT
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAAC-GGGAATT
* **
23628 TAAACAACACCTTCCGGTAGGGAAGGGCAAAACAAGAATT
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGGAATT
* *
23668 TAAACAACACCTTCCGGTGGGGAAGGGCAAATCGGTAATT
1 TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGGAATT
*
23708 TAAACAACACCTTCCGGTGAGGAAGGGCA
1 TAAACAACACCTTCCGGTGGGGAAGGGCA
23737 GACTGGGAAA
Statistics
Matches: 343, Mismatches: 43, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.01
40 178 0.52
41 129 0.38
42 28 0.08
44 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (40 bp):
TAAACAACACCTTCCGGTGGGGAAGGGCAAAACGGGAATT
Found at i:23776 original size:47 final size:47
Alignment explanation
Indices: 23707--23841 Score: 218
Period size: 47 Copynumber: 2.9 Consensus size: 47
23697 AATCGGTAAT
* **
23707 TTAAACAACACCTTCCGGTGAGGAAGGGCAGA-CTGGGAAATGCAGAC
1 TTAAACAACACCTTCCGATGAGGAAGGGCA-ATCTGGGAAAAACAGAC
*
23754 TTAAACAACACCTTCCGATGAGGAAGGACAATCTGGGAAAAACAGAC
1 TTAAACAACACCTTCCGATGAGGAAGGGCAATCTGGGAAAAACAGAC
23801 TTAAACAACACCTTCCGATGAGGAAGGGCAATCTGGGAAAA
1 TTAAACAACACCTTCCGATGAGGAAGGGCAATCTGGGAAAA
23842 GCGGACAGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.01
47 81 0.99
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.16
Consensus pattern (47 bp):
TTAAACAACACCTTCCGATGAGGAAGGGCAATCTGGGAAAAACAGAC
Found at i:24493 original size:50 final size:49
Alignment explanation
Indices: 24345--24768 Score: 246
Period size: 51 Copynumber: 8.2 Consensus size: 49
24335 CAAATTTTCC
* * * * *
24345 AATTCAATCCCTTTACTT-AAAGATTTCATTTTT-GTTCCAATTTTATCAA
1 AATTCAAT-CTTTTA-TTCAAAGATTTCATTTTTATTTACAAATTAATCAA
* * *
24394 AAGTTCAATCTTTTAATTCAAATCAAAGGTCTCATTTTTTATTCACAAATTAATCAA
1 AA-TTCAATCTTTT-A-T----TCAAAGATTTCA-TTTTTATTTACAAATTAATCAA
*
24451 AATTCAATCTTTTAGTTCAAAGATTTCATTTTTATTTACAAATTGATCAAA
1 AATTCAATCTTTTA-TTCAAAGATTTCATTTTTATTTACAAATTAATC-AA
* * * ** *
24502 AATTTAATCTTTTAGTCCAAAGGTTTCACCTTTATTTACAAATTGATCAA
1 AATTCAATCTTTTA-TTCAAAGATTTCATTTTTATTTACAAATTAATCAA
** * * *
24552 AACGTTCAATCTTTTACTT--AATCTTCTCATTTTCATATACAAATTATTCAA
1 AA--TTCAATCTTTTA-TTCAAAGATT-TCATTTTTATTTACAAATTAATCAA
* * * ** * * *
24603 GAGTTCGATCTTTT-CTCAAAGATAACATTTTTTTTCTACAAATTACTTAA
1 -AATTCAATCTTTTATTCAAAGATTTCATTTTTATT-TACAAATTAATCAA
* * * * *
24653 AAGTTCAATCTTTTACTCAAAGATTACATTTTTTACTTACAAATTACTTAAA
1 AA-TTCAATCTTTTATTCAAAGATTTCA-TTTTTATTTACAAATTA-ATCAA
* * * * *
24705 AGATTCAACCTTTTACTCAAAGATTACATTTTTATTTACAAATTACTTAAA
1 A-ATTCAATCTTTTATTCAAAGATTTCATTTTTATTTACAAATTA-ATCAA
24756 AGATTCAATCTTT
1 A-ATTCAATCTTT
24769 ATTTACAAAT
Statistics
Matches: 301, Mismatches: 52, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
48 1 0.00
49 14 0.05
50 69 0.23
51 129 0.43
52 47 0.16
53 1 0.00
54 1 0.00
55 10 0.03
56 16 0.05
57 13 0.04
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.43
Consensus pattern (49 bp):
AATTCAATCTTTTATTCAAAGATTTCATTTTTATTTACAAATTAATCAA
Found at i:24614 original size:102 final size:100
Alignment explanation
Indices: 24345--24684 Score: 222
Period size: 101 Copynumber: 3.3 Consensus size: 100
24335 CAAATTTTCC
* ** * * * *
24345 AATTCAATCCCTTTACTTAAAGATTTCATTTTTGT-TCCAATTTTATCAAAAGTTCAATCTTTTA
1 AATTCAAT-CTTTTACTTAAAGATTTCATTTTCATATACAAATTGATCAAAAATTCAATCTTTT-
* * **
24409 ATTCAAATCAAAGGTCTCATTTTTTATTCACAAATTAATCAA
64 AGTC----CAAAGGTTTCA-CCTTTATTCACAAATTAATCAA
* * * *
24451 AATTCAATCTTTTAGTTCAAAGATTTCATTTTTATTTACAAATTGATCAAAAATTTAATCTTTTA
1 AATTCAATCTTTTACTT-AAAGATTTCATTTTCATATACAAATTGATCAAAAATTCAATCTTTTA
* *
24516 GTCCAAAGGTTTCACCTTTATTTACAAATTGATCAA
65 GTCCAAAGGTTTCACCTTTATTCACAAATTAATCAA
** * * *
24552 AACGTTCAATCTTTTACTT-AATCTTCTCATTTTCATATACAAATT-ATTCAAGAGTTCGATCTT
1 AA--TTCAATCTTTTACTTAAAGATT-TCATTTTCATATACAAATTGA-TCAAAAATTCAATCTT
* * ** ** * * *
24615 TT-CT-CAAAGATAACATTTTTTTTCTACAAATTACTTAA
62 TTAGTCCAAAGGTTTCACCTTTATTC-ACAAATTAATCAA
* *
24653 AAGTTCAATCTTTTACTCAAAGATTACATTTT
1 AA-TTCAATCTTTTACTTAAAGATTTCATTTT
24685 TTACTTACAA
Statistics
Matches: 188, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
100 34 0.18
101 42 0.22
102 41 0.22
103 14 0.07
105 7 0.04
106 27 0.14
107 23 0.12
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (100 bp):
AATTCAATCTTTTACTTAAAGATTTCATTTTCATATACAAATTGATCAAAAATTCAATCTTTTAG
TCCAAAGGTTTCACCTTTATTCACAAATTAATCAA
Found at i:24719 original size:52 final size:52
Alignment explanation
Indices: 24426--24768 Score: 286
Period size: 51 Copynumber: 6.8 Consensus size: 52
24416 TCAAAGGTCT
* * * * *
24426 CATTTTTTATTCACAAATTA-ATCAAA-ATTCAATCTTTTAGTTCAAAGATTT
1 CATTTTTTATTTACAAATTACTTAAAAGATTCAATCTTTTA-CTCAAAGATTA
* * * * *
24477 CA-TTTTTATTTACAAATTGA-TCAAAA-ATTTAATCTTTTAGTCCAAAGGTTT
1 CATTTTTTATTTACAAATT-ACTTAAAAGATTCAATCTTTTACT-CAAAGATTA
** * * ** *
24528 CA-CCTTTATTTACAAATTGA-TCAAAACG-TTCAATCTTTTACT-TAATCTTCT
1 CATTTTTTATTTACAAATT-ACTTAAAA-GATTCAATCTTTTACTCAAAGATT-A
* * * * *
24579 CA-TTTTCATATACAAATTA-TT-CAAGAGTTCGATCTTTT-CTCAAAGATAA
1 CATTTTTTATTTACAAATTACTTAAAAGA-TTCAATCTTTTACTCAAAGATTA
24628 CATTTTTT-TTCTACAAATTACTTAAAAG-TTCAATCTTTTACTCAAAGATTA
1 CATTTTTTATT-TACAAATTACTTAAAAGATTCAATCTTTTACTCAAAGATTA
* *
24679 CATTTTTTACTTACAAATTACTTAAAAGATTCAACCTTTTACTCAAAGATTA
1 CATTTTTTATTTACAAATTACTTAAAAGATTCAATCTTTTACTCAAAGATTA
24731 CA-TTTTTATTTACAAATTACTTAAAAGATTCAATCTTT
1 CATTTTTTATTTACAAATTACTTAAAAGATTCAATCTTT
24769 ATTTACAAAT
Statistics
Matches: 242, Mismatches: 35, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
48 1 0.00
49 7 0.03
50 58 0.24
51 136 0.56
52 40 0.17
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (52 bp):
CATTTTTTATTTACAAATTACTTAAAAGATTCAATCTTTTACTCAAAGATTA
Found at i:30628 original size:21 final size:21
Alignment explanation
Indices: 30604--30695 Score: 143
Period size: 21 Copynumber: 4.4 Consensus size: 21
30594 CTTAGGCAAT
*
30604 TCCAATGAGCTTGAAACCTT-C
1 TCCAATGAGCTTGGAA-CTTGC
30625 TCCAATGAGCTTGGAACCTT-C
1 TCCAATGAGCTTGGAA-CTTGC
30646 TCCAATGAGCTTGGAACTTGC
1 TCCAATGAGCTTGGAACTTGC
30667 TCCAATGAGCTTGGAACTTGC
1 TCCAATGAGCTTGGAACTTGC
30688 TCCAATGA
1 TCCAATGA
30696 TCTCCTAGCA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
20 3 0.04
21 66 0.96
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (21 bp):
TCCAATGAGCTTGGAACTTGC
Found at i:35460 original size:15 final size:16
Alignment explanation
Indices: 35440--35472 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35430 TAAGCTAACA
*
35440 AAACAAA-CTTAACTT
1 AAACAAAGCATAACTT
35455 AAACAAAGCATAACTT
1 AAACAAAGCATAACTT
35471 AA
1 AA
35473 GCTAAGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (16 bp):
AAACAAAGCATAACTT
Done.