Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022949.1 Corchorus olitorius cultivar O-4 contig22982, 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: 63264
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3880 original size:9 final size:8
Alignment explanation
Indices: 3852--3877 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
3842 TTCGATACTT
3852 AATTAAAA
1 AATTAAAA
3860 AATTAAAA
1 AATTAAAA
3868 AATTAAAA
1 AATTAAAA
3876 AA
1 AA
3878 ATTTAGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATTAAAA
Found at i:7179 original size:21 final size:21
Alignment explanation
Indices: 7153--7307 Score: 249
Period size: 21 Copynumber: 7.4 Consensus size: 21
7143 TGCTAGGAGA
7153 TCATTGGAGCAA-GTTCCAAGC
1 TCATTGGAG-AAGGTTCCAAGC
*
7174 TCATTGGAGAAGATTCCAAGC
1 TCATTGGAGAAGGTTCCAAGC
*
7195 TCATTGGAGAAGATTCCAAGC
1 TCATTGGAGAAGGTTCCAAGC
7216 TCATTGGAGAAGGTTCCAAGC
1 TCATTGGAGAAGGTTCCAAGC
*
7237 TCATTGGAGAAGGTTTCAAGC
1 TCATTGGAGAAGGTTCCAAGC
7258 TCATTGGAGAAGGTTCCAAGC
1 TCATTGGAGAAGGTTCCAAGC
**
7279 TCATTGGAGAAGGTTTGAAGC
1 TCATTGGAGAAGGTTCCAAGC
7300 TCATTGGA
1 TCATTGGA
7308 ATTGCCTAAG
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
20 2 0.02
21 125 0.98
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (21 bp):
TCATTGGAGAAGGTTCCAAGC
Found at i:8187 original size:25 final size:24
Alignment explanation
Indices: 8151--8197 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
8141 TCCTTCTATT
8151 CATCTATCATC-AAGTTTTTCATC
1 CATCTATCATCAAAGTTTTTCATC
8174 CATCTCATCCATCAAAGTTTTTCA
1 CATCT-AT-CATCAAAGTTTTTCA
8198 AATTTTCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 2 0.10
25 4 0.19
26 10 0.48
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (24 bp):
CATCTATCATCAAAGTTTTTCATC
Found at i:9796 original size:33 final size:33
Alignment explanation
Indices: 9743--9823 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 33
9733 GTGTTTTAGA
** * *
9743 TGTTGTTTGCAATGATACTAAACCTAATTTGA-T
1 TGTTGTTTGTGATGACACTAAACCT-ATTTGAGG
* * *
9776 TGTTGTTTGTGATGACACTAAATCTGTTTTAGG
1 TGTTGTTTGTGATGACACTAAACCTATTTGAGG
9809 TGTTGTTTGTGATGA
1 TGTTGTTTGTGATGA
9824 AACAAGTTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 4 0.10
33 36 0.90
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (33 bp):
TGTTGTTTGTGATGACACTAAACCTATTTGAGG
Found at i:9835 original size:33 final size:32
Alignment explanation
Indices: 9776--9872 Score: 115
Period size: 33 Copynumber: 3.0 Consensus size: 32
9766 CTAATTTGAT
*
9776 TGTTGTTTGTGATGACACTAAATCTGTTTTAGG-
1 TGTTGTTTGTGATGAAAC-AAATCTGTTTT-GGA
*
9809 TGTTGTTTGTGATGAAACAAGTTCTGTTTTGGA
1 TGTTGTTTGTGATGAAACAA-ATCTGTTTTGGA
* **
9842 TGCTAATTGTGATGAAACAAATCTGTTTTGG
1 TGTTGTTTGTGATGAAACAAATCTGTTTTGG
9873 TTGATCATAG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
32 14 0.25
33 42 0.75
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (32 bp):
TGTTGTTTGTGATGAAACAAATCTGTTTTGGA
Found at i:11641 original size:21 final size:20
Alignment explanation
Indices: 11615--11727 Score: 163
Period size: 21 Copynumber: 5.4 Consensus size: 20
11605 TGCTAGGAGA
11615 TCATTGGAGCAAGTTCCAAGC
1 TCATTGGAG-AAGTTCCAAGC
11636 TCATTGGAGAAGATTCCAAGC
1 TCATTGGAGAAG-TTCCAAGC
*
11657 TCATTGGAGAAGATTGCAAGC
1 TCATTGGAGAAG-TTCCAAGC
11678 TCATTGGAGAAGGTTCCAAGC
1 TCATTGGAGAA-GTTCCAAGC
*
11699 TCATTGGAGAAGGTTTCAAGC
1 TCATTGGAGAA-GTTCCAAGC
11720 TCATTGGA
1 TCATTGGA
11728 ATTGCCTAAG
Statistics
Matches: 87, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
20 3 0.03
21 83 0.95
22 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (20 bp):
TCATTGGAGAAGTTCCAAGC
Found at i:15338 original size:76 final size:76
Alignment explanation
Indices: 15202--15345 Score: 173
Period size: 76 Copynumber: 1.9 Consensus size: 76
15192 GGCTATCCCT
* ** * *
15202 GACTCTACCTGGGCGCCCACATGGTTGTTCTGAACACCCATGTGGTTTGCTTGAGGACCCAGGAG
1 GACTCTACATGGGCGCCCACATGGTTGTTCCAAACACCCATGTGGTTTGCCTGAGCACCCAGGAG
15267 GGCATTGTCAC
66 GGCATTGTCAC
* * * * * *
15278 GACTCTATATGGGTGCCCACATGGTT-TGTCCAAAGACCCATGTGGTTTTCCTGATCACCCAGGT
1 GACTCTACATGGGCGCCCACATGGTTGT-TCCAAACACCCATGTGGTTTGCCTGAGCACCCAGGA
15342 GGGC
65 GGGC
15346 TGTGTCCTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
75 1 0.02
76 55 0.98
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (76 bp):
GACTCTACATGGGCGCCCACATGGTTGTTCCAAACACCCATGTGGTTTGCCTGAGCACCCAGGAG
GGCATTGTCAC
Found at i:17173 original size:17 final size:17
Alignment explanation
Indices: 17153--17186 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17143 AATAAGATCC
*
17153 AACAAAACATAAAAACA
1 AACAAAACACAAAAACA
17170 AACAAAACACAAAAACA
1 AACAAAACACAAAAACA
17187 GAATAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.21, G:0.00, T:0.03
Consensus pattern (17 bp):
AACAAAACACAAAAACA
Found at i:21457 original size:42 final size:42
Alignment explanation
Indices: 21402--21489 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
21392 TGAAACTTGT
*
21402 AAATAAACATTGGATTTTTAATTAAAAGGTTGAA-CTTTTAAG
1 AAATAAACATTGGATTTTTAATTAAAAGATT-AAGCTTTTAAG
*
21444 AAATAAAGATTGGATTTTTAATTAAAAGATTAAGCTTTTAAG
1 AAATAAACATTGGATTTTTAATTAAAAGATTAAGCTTTTAAG
21486 AAAT
1 AAAT
21490 TTGTAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 2 0.05
42 41 0.95
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (42 bp):
AAATAAACATTGGATTTTTAATTAAAAGATTAAGCTTTTAAG
Found at i:21462 original size:22 final size:21
Alignment explanation
Indices: 21402--21464 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
21392 TGAAACTTGT
*
21402 AAATAAACATTGGATTTTTAA
1 AAATAAAGATTGGATTTTTAA
** * * *
21423 TTA-AAAGGTTGAACTTTTAA
1 AAATAAAGATTGGATTTTTAA
21443 GAAATAAAGATTGGATTTTTAA
1 -AAATAAAGATTGGATTTTTAA
21465 TTAAAAGATT
Statistics
Matches: 29, Mismatches: 11, Indels: 3
0.67 0.26 0.07
Matches are distributed among these distances:
20 13 0.45
21 2 0.07
22 14 0.48
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.38
Consensus pattern (21 bp):
AAATAAAGATTGGATTTTTAA
Found at i:21473 original size:20 final size:20
Alignment explanation
Indices: 21410--21474 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
21400 GTAAATAAAC
21410 ATTGGATTTTTAATTAAAAG
1 ATTGGATTTTTAATTAAAAG
* * * **
21430 GTTGAACTTTTAAGAAATAAAG
1 ATTGGATTTTTAA-TTA-AAAG
21452 ATTGGATTTTTAATTAAAAG
1 ATTGGATTTTTAATTAAAAG
21472 ATT
1 ATT
21475 AAGCTTTTAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 14 0.42
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTGGATTTTTAATTAAAAG
Found at i:21508 original size:50 final size:50
Alignment explanation
Indices: 21444--21613 Score: 193
Period size: 50 Copynumber: 3.4 Consensus size: 50
21434 AACTTTTAAG
*
21444 AAATAAAGATTGGATTTTTAATTAAAAGATTAAGCTTTTAAGAAATTTGT
1 AAATAAAGATTGAATTTTTAATTAAAAGATTAAGCTTTTAAGAAATTTGT
* * * * *
21494 AAATAAAGAATGGATTTTTAATTAAAAG-TTCAAACTTTTAAGTAATTT-A
1 AAATAAAGATTGAATTTTTAATTAAAAGATT-AAGCTTTTAAGAAATTTGT
* * * *
21543 AGAATAAAGATTGAATTTTTAAGTGAAAA-ACTGAAGCTTTTAAGCAACTTGT
1 A-AATAAAGATTGAATTTTTAA-TTAAAAGA-TTAAGCTTTTAAGAAATTTGT
21595 AAATAAAGATTGAATTTTT
1 AAATAAAGATTGAATTTTT
21614 TTTTTAGTTT
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
49 3 0.03
50 60 0.59
51 37 0.36
52 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.38
Consensus pattern (50 bp):
AAATAAAGATTGAATTTTTAATTAAAAGATTAAGCTTTTAAGAAATTTGT
Found at i:22558 original size:48 final size:48
Alignment explanation
Indices: 22404--22551 Score: 237
Period size: 48 Copynumber: 3.1 Consensus size: 48
22394 TTTTCTTCAA
22404 TATTCCCGTTTTGCCCTT-CCGGTCGGAAGGTGTTGTTTTCAATATTT
1 TATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
* * *
22451 CATTCCCGTTTTGCCCTTCCCGATCGGAAGGTGTTGTTTTCAATGTTT
1 TATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
*
22499 TATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTG-TTCCAAATATTT
1 TATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTC-AATATTT
22547 TATTC
1 TATTC
22552 TTGTTTTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
47 20 0.22
48 72 0.78
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (48 bp):
TATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
Found at i:22648 original size:69 final size:68
Alignment explanation
Indices: 22482--22666 Score: 273
Period size: 69 Copynumber: 2.7 Consensus size: 68
22472 GATCGGAAGG
* *
22482 TGTTGTTTTCAATGTTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTCCAAATATTT
1 TGTTGTTTTCAATCTTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTCGTTCCAAATATTT
22547 TAT
66 TAT
*
22550 TCTTGTTTTCAATCTTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTTGTCGTTCTC-AATAT
1 TGTTGTTTTCAATCTTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGG-TGTCGTTC-CAAATAT
22614 TTTAT
64 TTTAT
* ** **
22619 TGTTGTTTTCAACCTTTTATTCCTATTTTGCCCTTCCCCATCGGAAGG
1 TGTTGTTTTCAATCTTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGG
22667 AGTTGCTCCT
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
68 46 0.43
69 59 0.56
70 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (68 bp):
TGTTGTTTTCAATCTTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTCGTTCCAAATATTT
TAT
Found at i:24246 original size:20 final size:20
Alignment explanation
Indices: 24221--24261 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24211 ATGAAAGTCT
24221 AAGGCCCAAGGATGCAAATA
1 AAGGCCCAAGGATGCAAATA
24241 AAGGCCCAAGGATGCAAATA
1 AAGGCCCAAGGATGCAAATA
24261 A
1 A
24262 TTAAACAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (20 bp):
AAGGCCCAAGGATGCAAATA
Found at i:24678 original size:27 final size:28
Alignment explanation
Indices: 24647--24720 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
24637 AAGTGAACCT
*
24647 AAAATGACCAAAATGCCCTTAGAT-GTG
1 AAAATGACCAAAATGCCCCTAGATCGTG
* * * *
24674 CAAATGACTAAAATGCCCCTGGATCTTG
1 AAAATGACCAAAATGCCCCTAGATCGTG
24702 AAAATGACCAAAATGCCCC
1 AAAATGACCAAAATGCCCC
24721 CTAGTTGATC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.20
Consensus pattern (28 bp):
AAAATGACCAAAATGCCCCTAGATCGTG
Found at i:24990 original size:27 final size:27
Alignment explanation
Indices: 24960--25044 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
24950 CATCTCCCGA
24960 TCAATCTTCTTTGAATTGTCTTCCAAT
1 TCAATCTTCTTTGAATTGTCTTCCAAT
*** * *
24987 TCAATCTTCGAGGAATCGTTTTCCGAA-
1 TCAATCTTCTTTGAATTGTCTTCC-AAT
*
25014 TCAA-CTTATTTGAATTGTCTTCCAAT
1 TCAATCTTCTTTGAATTGTCTTCCAAT
*
25040 CCAAT
1 TCAAT
25045 ATTAAAAGGA
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
25 2 0.05
26 16 0.37
27 23 0.53
28 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (27 bp):
TCAATCTTCTTTGAATTGTCTTCCAAT
Found at i:25064 original size:53 final size:52
Alignment explanation
Indices: 24956--25159 Score: 193
Period size: 50 Copynumber: 4.0 Consensus size: 52
24946 GGATCATCTC
** * *
24956 CCGATCAATCTTCTTTGAATTGTCTTCCAATTCAATCTT-CGAGGAATCGTTTT
1 CCGATCAA-CTTCTTTGAATTGTCTTCCAATTCAATCTTAAAAGG-ACCGTCTT
* * *
25009 CCGAATCAACTTATTTGAATTGTCTTCCAATCCAATATTAAAAGGACCGTCTT
1 CCG-ATCAACTTCTTTGAATTGTCTTCCAATTCAATCTTAAAAGGACCGTCTT
** * * *
25062 CCG-TTTA-TCCTTTGAACTGTCTTCCAATTCAATCTTAGAAGGACCGTCTT
1 CCGATCAACTTCTTTGAATTGTCTTCCAATTCAATCTTAAAAGGACCGTCTT
* * * * *
25112 CCGCT-TA-TCCTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTC
1 CCGATCAACTTCTTTGAATTGTCTTCCAATTCAATCTTAAAAGGACCGTC
25160 ATTACTAAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
50 81 0.62
51 3 0.02
53 39 0.30
54 8 0.06
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (52 bp):
CCGATCAACTTCTTTGAATTGTCTTCCAATTCAATCTTAAAAGGACCGTCTT
Found at i:25104 original size:50 final size:50
Alignment explanation
Indices: 25022--25159 Score: 222
Period size: 50 Copynumber: 2.8 Consensus size: 50
25012 AATCAACTTA
* * * *
25022 TTTGAATTGTCTTCCAATCCAATATTAAAAGGACCGTCTTCCGTTTATCC
1 TTTGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATCC
*
25072 TTTGAACTGTCTTCCAATTCAATCTTAGAAGGACCGTCTTCCGCTTATCC
1 TTTGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATCC
*
25122 TTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTC
1 TTTGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTC
25160 ATTACTAAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (50 bp):
TTTGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATCC
Found at i:25208 original size:11 final size:11
Alignment explanation
Indices: 25192--25228 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25182 GTGACAGCCA
25192 AAAACCGTCAC
1 AAAACCGTCAC
25203 AAAACCCGT-A-
1 AAAA-CCGTCAC
25213 AAAACCGTCAC
1 AAAACCGTCAC
25224 AAAAC
1 AAAAC
25229 AGTGTTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 4 0.17
10 5 0.22
11 10 0.43
12 4 0.17
ACGTcount: A:0.51, C:0.32, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAACCGTCAC
Found at i:28172 original size:13 final size:13
Alignment explanation
Indices: 28154--28179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28144 AACAGGAATA
28154 CTATATCTAGAAG
1 CTATATCTAGAAG
28167 CTATATCTAGAAG
1 CTATATCTAGAAG
28180 ACTAGAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CTATATCTAGAAG
Found at i:30823 original size:50 final size:50
Alignment explanation
Indices: 30764--30952 Score: 285
Period size: 50 Copynumber: 3.8 Consensus size: 50
30754 TCTAGTAGTG
30764 CGTCTTCCGCTTATCCTTCGAACTGTCTTCCAATTCAATCTTAAAAGGAC
1 CGTCTTCCGCTTATCCTTCGAACTGTCTTCCAATTCAATCTTAAAAGGAC
30814 CGTCTTCCGCTTATCCTTCGAACTGTCTTCCAATTCAATCTTAAAAGGAC
1 CGTCTTCCGCTTATCCTTCGAACTGTCTTCCAATTCAATCTTAAAAGGAC
* * *
30864 CGTCTTCCGCTTATCCTTTGAATTGTCTTCCAATTCAATCTTAAAAGGAT
1 CGTCTTCCGCTTATCCTTCGAACTGTCTTCCAATTCAATCTTAAAAGGAC
** * * *
30914 TATCTT-C-C-AATCGTTTGAACTGTCTTCCAATTCAATCTT
1 CGTCTTCCGCTTATCCTTCGAACTGTCTTCCAATTCAATCTT
30953 CAGAAAATCA
Statistics
Matches: 131, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
47 28 0.21
48 1 0.01
49 1 0.01
50 101 0.77
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.38
Consensus pattern (50 bp):
CGTCTTCCGCTTATCCTTCGAACTGTCTTCCAATTCAATCTTAAAAGGAC
Found at i:31352 original size:65 final size:62
Alignment explanation
Indices: 31181--31370 Score: 209
Period size: 65 Copynumber: 3.0 Consensus size: 62
31171 CCGGTGCATC
* * * * *
31181 TCTTAACAAGATCGTCTTCCGATCAACTTCTGCAACTTTTGAGAAACTATCTTCTGGTGTACT
1 TCTTGACAAGATCGTCTTCCGATC-ACTTCTGAAAATTTTGAGAAACCATCTTCTAGTGTACT
* * * * * * *
31244 TCCTGACAAAATCGTCTTCCAATTCACTCCTAAAAACTCTTGAGAAACCAATTTTCTAGTGTACT
1 TCTTGACAAGATCGTCTTCCGA-TCACTTCTGAAAA-TTTTGAGAAACC-ATCTTCTAGTGTACT
*
31309 TCTTGACAAGATCGTCTTCCGCTCATCTTCTGAAAATTGTTGAGAAACCATCTTCTAGTGTA
1 TCTTGACAAGATCGTCTTCCGATCA-CTTCTGAAAATT-TTGAGAAACCATCTTCTAGTGTA
31371 TTCCTTAATG
Statistics
Matches: 102, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
63 25 0.25
64 28 0.27
65 49 0.48
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (62 bp):
TCTTGACAAGATCGTCTTCCGATCACTTCTGAAAATTTTGAGAAACCATCTTCTAGTGTACT
Found at i:31456 original size:68 final size:67
Alignment explanation
Indices: 31374--31529 Score: 213
Period size: 68 Copynumber: 2.3 Consensus size: 67
31364 TAGTGTATTC
* * **
31374 CTTAATGAGATTGTCTTCCAATCAACATTTGAAAATTCTTTTTAGCAAACCGCCTTCCGATGTTG
1 CTTAATGAGATTGTCTTCCAATCAACATTTGAAAATTCTTTCTAACAAACCGCCTTCCGATG-CA
*
31439 TTT
65 CTT
* * * **
31442 CTTAATGAGATTGTCTTCCAATCAGCATTTGAAAATTCTTTCTAACCAACCGTCTTTTGATGCAC
1 CTTAATGAGATTGTCTTCCAATCAACATTTGAAAATTCTTTCTAACAAACCGCCTTCCGATGCAC
31507 TT
66 TT
31509 CTTAATGAGATTGTCTTCCAA
1 CTTAATGAGATTGTCTTCCAA
31530 CCGTCTCCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
67 23 0.29
68 55 0.71
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (67 bp):
CTTAATGAGATTGTCTTCCAATCAACATTTGAAAATTCTTTCTAACAAACCGCCTTCCGATGCAC
TT
Found at i:33214 original size:20 final size:20
Alignment explanation
Indices: 33177--33214 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33167 CCTTTTTGGG
* *
33177 AAAAACAATTTTTCTTTTGC
1 AAAAACAATTTCTATTTTGC
33197 AAAAACAATTTCTATTTT
1 AAAAACAATTTCTATTTT
33215 ATCAACAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAAACAATTTCTATTTTGC
Found at i:37152 original size:28 final size:27
Alignment explanation
Indices: 37112--37210 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 27
37102 CTTTGCTTCT
37112 CATTTTGGTCATTTTACATGTCCAGGGG
1 CATTTTGGTCATTTT-CATGTCCAGGGG
* * *
37140 CATTTTGGTCATTTTGTCAGGACCAGGGT
1 CATTTTGGTCA-TTT-TCATGTCCAGGGG
* *
37169 CATTTTGGTCATTTTTATGTTCAGGGGG
1 CATTTTGGTCATTTTCATGTCCA-GGGG
37197 CATTTTGGTCATTT
1 CATTTTGGTCATTT
37211 CAAGTGTACT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 5 0.08
28 31 0.52
29 23 0.38
30 1 0.02
ACGTcount: A:0.16, C:0.15, G:0.25, T:0.43
Consensus pattern (27 bp):
CATTTTGGTCATTTTCATGTCCAGGGG
Found at i:37175 original size:29 final size:28
Alignment explanation
Indices: 37111--37183 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 28
37101 ACTTTGCTTC
* *
37111 TCATTTTGGTCATTTTACATGTCCAGGG
1 TCATTTTGGTCATTTTACAGGACCAGGG
* *
37139 GCATTTTGGTCATTTTGTCAGGACCAGGG
1 TCATTTTGGTCATTTT-ACAGGACCAGGG
37168 TCATTTTGGTCATTTT
1 TCATTTTGGTCATTTT
37184 TATGTTCAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (28 bp):
TCATTTTGGTCATTTTACAGGACCAGGG
Found at i:45895 original size:27 final size:28
Alignment explanation
Indices: 45864--45937 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
45854 AAGTGAACCT
*
45864 AAAATGACCAAAATGCCCTTAGAT-GTG
1 AAAATGACCAAAATGCCCCTAGATCGTG
* * * *
45891 CAAATGACTAAAATGCCCCTGGATCTTG
1 AAAATGACCAAAATGCCCCTAGATCGTG
45919 AAAATGACCAAAATGCCCC
1 AAAATGACCAAAATGCCCC
45938 CTAGTTGATC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.20
Consensus pattern (28 bp):
AAAATGACCAAAATGCCCCTAGATCGTG
Found at i:50439 original size:6 final size:6
Alignment explanation
Indices: 50428--50479 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
50418 GAGGCGACCC
*
50428 AATTTT AATTTT AATTTT AATTTT CAAACTTT AATTTT AATTTT -ATTTT
1 AATTTT AATTTT AATTTT AATTTT --AATTTT AATTTT AATTTT AATTTT
50477 AAT
1 AAT
50480 ATCTAAGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 5 0.12
6 31 0.76
8 5 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:50736 original size:31 final size:31
Alignment explanation
Indices: 50698--50761 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
50688 CTATAGCGGA
*
50698 GTCTGACATACAT-ACGCCGCCATTTAGTGGC
1 GTCTGACATA-ATGACGCCACCATTTAGTGGC
*
50729 GTCTGACATAGTGACGCCACCATTTAGTGGC
1 GTCTGACATAATGACGCCACCATTTAGTGGC
50760 GT
1 GT
50762 TTCGAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (31 bp):
GTCTGACATAATGACGCCACCATTTAGTGGC
Found at i:51047 original size:161 final size:162
Alignment explanation
Indices: 50771--51087 Score: 489
Period size: 161 Copynumber: 2.0 Consensus size: 162
50761 TTTCGAAAGA
* * *
50771 AAGACGCCGCCATATTAATATTTGGAGGGAGAGATTTTTTTTCTCTTTTTTTGGAGGGAAAAATT
1 AAGACGCCGCCATATTAATATATGGAGGGAGAGATTTTTTTCCTCTTTTTTTAGAGGGAAAAATT
50836 CCCTCCCCCCTAAAACAAAGAAAGTTTCCAACTCTACGCCTATAATATATAACGGCG-TTTA-AA
66 CCCTCCCCCCTAAAACAAAGAAAGTTTCCAACTCTACGCCTATAATATATAACGGCGTTTTATAA
50899 CATCAGACGCCGCTAAGTAGCGGCGTTTAAACAT
131 C--CAGACGCCGCTAAGTAGCGGCGTTTAAACAT
* * *
50933 AAGACGCCGCTATTTTAATATATGTAGGGAGAGATTTTTTTCC-CTTTTTTTTAGAGGGAAAAAT
1 AAGACGCCGCCATATTAATATATGGAGGGAGAGATTTTTTTCCTC-TTTTTTTAGAGGGAAAAAT
* *
50997 TCCCT-CCCCCTAAAACAAAGAAATTTTCCAACTCTACGCCTATAATATATAGCGGCGTTTTATA
65 TCCCTCCCCCCTAAAACAAAGAAAGTTTCCAACTCTACGCCTATAATATATAACGGCGTTTTATA
* *
51061 ACCAGACGCCGCTAATTAGTGGCGTTT
130 ACCAGACGCCGCTAAGTAGCGGCGTTT
51088 GAGAAGGAAA
Statistics
Matches: 142, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
161 74 0.52
162 65 0.46
163 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (162 bp):
AAGACGCCGCCATATTAATATATGGAGGGAGAGATTTTTTTCCTCTTTTTTTAGAGGGAAAAATT
CCCTCCCCCCTAAAACAAAGAAAGTTTCCAACTCTACGCCTATAATATATAACGGCGTTTTATAA
CCAGACGCCGCTAAGTAGCGGCGTTTAAACAT
Found at i:51104 original size:162 final size:161
Alignment explanation
Indices: 50752--51121 Score: 516
Period size: 162 Copynumber: 2.3 Consensus size: 161
50742 ACGCCACCAT
* * * *
50752 TTAGTGGCGTTTCGAAAGAAAGACGCCGCCATATTAATATTTGGAGGGAGAGATTTTTTTTCTCT
1 TTAGTGGCGTTT-GAAAGAAAGACGCCGCAATTTTAATATATGGAGGGAGAGATTTTTTTCCTCT
*
50817 TTTTTTGGAGGGAAAAATTCCCTCCCCCCTAAAACAAAGAAAGTTTCCAACTCTACGCCTATAAT
65 TTTTTTAGAGGGAAAAATTCCCTCCCCCCTAAAACAAAGAAAGTTTCCAACTCTACGCCTATAAT
50882 ATATAACGGCGTTTAAACATCAGACGCCGCTAA
130 ATATAACGGCGTTTAAACA-CAGACGCCGCTAA
* * * * *
50915 GTAGCGGCGTTT-AAACATAAGACGCCGCTATTTTAATATATGTAGGGAGAGATTTTTTTCC-CT
1 TTAGTGGCGTTTGAAAGA-AAGACGCCGCAATTTTAATATATGGAGGGAGAGATTTTTTTCCTC-
*
50978 TTTTTTTAGAGGGAAAAATTCCCT-CCCCCTAAAACAAAGAAATTTTCCAACTCTACGCCTATAA
64 TTTTTTTAGAGGGAAAAATTCCCTCCCCCCTAAAACAAAGAAAGTTTCCAACTCTACGCCTATAA
*
51042 TATATAGCGGCGTTTTATAAC-CAGACGCCGCTAA
129 TATATAACGGCG-TTTA-AACACAGACGCCGCTAA
*
51076 TTAGTGGCGTTTGAGAAGGAAA-ACGCCGCAATTGTAATATATGGAG
1 TTAGTGGCGTTTGA-AA-GAAAGACGCCGCAATTTTAATATATGGAG
51122 TTAGATAATT
Statistics
Matches: 183, Mismatches: 17, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
161 78 0.43
162 87 0.48
163 17 0.09
164 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (161 bp):
TTAGTGGCGTTTGAAAGAAAGACGCCGCAATTTTAATATATGGAGGGAGAGATTTTTTTCCTCTT
TTTTTAGAGGGAAAAATTCCCTCCCCCCTAAAACAAAGAAAGTTTCCAACTCTACGCCTATAATA
TATAACGGCGTTTAAACACAGACGCCGCTAA
Found at i:55301 original size:32 final size:32
Alignment explanation
Indices: 55230--55390 Score: 151
Period size: 32 Copynumber: 5.0 Consensus size: 32
55220 TAAAAGGCCA
* * **
55230 AAATAGCGGCGTTTAAAGATAGAAACGCCGTT
1 AAATAGCGGCGTTTAAATATCGAAACGCCACT
*** * * *
55262 TTTTAGCGGCGTTTAAATTTCAAAACCCCACT
1 AAATAGCGGCGTTTAAATATCGAAACGCCACT
* * * * *
55294 AAATAGCGGCATTAAAATTTCCAAACGCCGCT
1 AAATAGCGGCGTTTAAATATCGAAACGCCACT
* * *
55326 AAATAGCGGCGTCTAAATATCGAGACGCCGCT
1 AAATAGCGGCGTTTAAATATCGAAACGCCACT
*
55358 AAATAGCGGTGTTTAAATATCGAAACGCCACT
1 AAATAGCGGCGTTTAAATATCGAAACGCCACT
55390 A
1 A
55391 TTCCTAAATC
Statistics
Matches: 101, Mismatches: 28, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 101 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (32 bp):
AAATAGCGGCGTTTAAATATCGAAACGCCACT
Found at i:60692 original size:944 final size:924
Alignment explanation
Indices: 59168--61033 Score: 2931
Period size: 944 Copynumber: 2.0 Consensus size: 924
59158 CTATCAACCA
* * **
59168 ATTGATACGAATCTAGTTGTTTTAGATTCAAATCTATCCTTGTGACCCACCAAGAATCAACTTGA
1 ATTGATACGAATCTAGTTGTATTAGATTCAAATCTAGCCTTGAAACCCACCAAGAATCAACTTGA
* * * *
59233 ACAACTTTAACTTCTAGATGTGTATGTCGATGATCTTCACCTAAGCAATCTTCTTCGTTCGTCGG
66 ACAACTTCAACTTCTAGATGGGTATGTCGATGACCTTCACCTAAGCAATCCTCTTCGTTCGTCGG
* * *
59298 CCTTAGACCTTCAATTTGACCTACAATTGAACACCTAAGATCACAAGATTCACAAACAATCAAGC
131 CCTTAGACCTTCAATTAGACCTACAATTGAACAACTAAGAACACAAGATTCACAAACAATCAAGC
* * * *
59363 AATCACAACTTAATTGTTTGCTAGGACTCTTCATGATTGAAGAACCCTAAGCTTGCTCAAACTAG
196 AATCACAACTTAATTGTTTGATAGGACTCTACAAGATTGAAGAACCCAAAGCTTGCTCAAACTAG
* **
59428 AGCAAAGAAGATAAATTTTCAAAAGAATCTCTCTTTAATTAATAAACTTAACTTGATTACAAAAG
261 AACAAAGAAGATAAATAATCAAAAGAATCTCTCTTTAATTAATAAACTTAACTTGATTACAAAAG
*
59493 AGGGGTTGATGCCTTTATATAGGCAAAGGGGTTTGACCAATATCCAGAAATAAAACCTAATTTTC
326 AGGGGTTGATGCCTTTATATAGGCAAAGGGGTTTGACCAATATCCAAAAATAAAACCTAATTTTC
59558 GTCCAAATATATGGCCTAGGGTAAAACTAGTCCAAACCCAACTAGGAAAAGGAAACAAAGACATA
391 GTCCAAATATATGGCCTAGGGTAAAACTAGTCCAAACCCAACTAGGAAAAGGAAACAAAGACATA
59623 ATTAAACAAGGATTGGACTTAGTCAAACAAGGCCCAACCCAAATAATATCCAAACTTAAAAATAA
456 ATTAAACAAGGATTGGACTTAGTCAAACAAGGCCCAACCCAAATAATATCCAAACTTAAAAATAA
59688 GCTAATCTAAGATAAAATAAAGCCCACAATGGCCTAAATAACACATTCAAGCTCATTCATCCATC
521 GCTAATCTAAGATAAAATAAAGCCCACAATGGCCTAAATAACACATTCAAGCTCATTCATCCATC
*
59753 AATTGCAAGCAAAGTGATGAACTTGGAATCGATGAGAATATATTATTGCCCAAATCATCTTCAAA
586 AATTGCAAGCAAAGTGATGAACTTGGAATCGATGAGAATATATTATTACCCAAATCATC-TCAAA
59818 GCTCTTCAAATGAACTCCGATGGCCTTCAAGTCCTCAAGATGAGTTCTAACAAGGCCCAATAATG
650 GCTCTTCAAATGAACTCCGATGGCCTTCAAGTCCTCAAGATGAGTTCTAACAAGGCCCAATAATG
*
59883 CATCGTTGAATCTTTTGGCTTTTGCTCTTGTCATTGGACCTAATGGCATCTTCAATGGATCAAAT
715 CATCCTTGAATCTTTTGGCTTTTGCTCTTGTCATTGGACCTAATGGCATCTTCAATGGATCAAAT
59948 GGCATCTTTGGCATCTCCTTGGTGCTAGAAACATGTTGTGTGATATCTCCTTGACCTTCATGCTT
780 GGCATCTTTGGCATCTCCTT-G-G-T-G---CATGTTGTGTGATATCTCCTTGACCTTCATGCTT
*
60013 CTCCATGCTTCCTTGCAACCCATGCACATCCTTTCCTTGCTCTCCATTGTCATCTTCAAGTCCAT
838 CTCCATGCTTCCATGCAACCCATGCACATCCTTTCCTTGCTCTCCATTGTCATCTTCAAGTCCAT
60078 GATAAGTCCTTGGCGCATCATT
903 GATAAGTCCTTGGCGCATCATT
* * * * *
60100 ATTGATACGAATCTAGTTGTATTAGATTCAAATCTAGCCTTGAAAATCTATCAA-ACTCGACTTG
1 ATTGATACGAATCTAGTTGTATTAGATTCAAATCTAGCCTTG-AAACCCACCAAGAATCAACTTG
** * * *
60164 AACTTCTTCAACTTCTAGATGGGTA-GATCGATGACCTTCA-C-AAGGTGATTCCTCTTCTTTCG
65 AACAACTTCAACTTCTAGATGGGTATG-TCGATGACCTTCACCTAA-G-CAATCCTCTTCGTTCG
* * *
60226 TCGGCCTTA-AGTCTTCAATTAGACCTGCAATTG-TCAACTCAAGAACACAAGATTCACAAACAA
127 TCGGCCTTAGA-CCTTCAATTAGACCTACAATTGAACAACT-AAGAACACAAGATTCACAAACAA
* *
60289 TCAAGCAA-CACAACTTAATTGTTTGATATGACTCTACAAGATTGAAGAACCCAAAGTTTTGCTC
190 TCAAGCAATCACAACTTAATTGTTTGATAGGACTCTACAAGATTGAAGAACCCAAAG-CTTGCTC
* * * *
60353 AAACTAGAACAATGAAGCTAAGATAATCAAATTGGGTGAATAATCTCAAATTCTTT-ATTGA-AA
254 AAACTAGAACAAAGAAGATAA-ATAATC-AA-------AAGAATCTC----TCTTTAATTAATAA
60416 ACTTAACTTGATTACAAAAGAGGGGGTTGATGCCTTTATATAGGCAAAGGGGTTTGACCAATATC
306 ACTTAACTTGATTACAAAAGA-GGGGTTGATGCCTTTATATAGGCAAAGGGGTTTGACCAATATC
*
60481 CAAAAATAAAACCTAATTTTCGTCCAAATATATGGCCTAGGGTAAAACTAGTCCAGACCCAACTA
370 CAAAAATAAAACCTAATTTTCGTCCAAATATATGGCCTAGGGTAAAACTAGTCCAAACCCAACTA
* * *
60546 GGAAAAGGAAATAAAGACATAATTAAACAAGGATTGGATTTAGTCAAACATGGCCCAACCCAAAT
435 GGAAAAGGAAACAAAGACATAATTAAACAAGGATTGGACTTAGTCAAACAAGGCCCAACCCAAAT
*
60611 AATATCCAAACTTAAAAATAAGCTAATCTAAGATAAAATAAATCCCACAATGGCCTAAATAACAC
500 AATATCCAAACTTAAAAATAAGCTAATCTAAGATAAAATAAAGCCCACAATGGCCTAAATAACAC
*
60676 ATTCAAGCTCATTCATCCATCGATTGCAAGCAAAGTGATGAACTTGGAATCGATGAGAATATATT
565 ATTCAAGCTCATTCATCCATCAATTGCAAGCAAAGTGATGAACTTGGAATCGATGAGAATATATT
* * * *
60741 CTTACCCAAATCATCTCAAAGCTCTTCAAATGAACTCTGATGGCCTTCATGTCTTCAAGATGAGT
630 ATTACCCAAATCATCTCAAAGCTCTTCAAATGAACTCCGATGGCCTTCAAGTCCTCAAGATGAGT
60806 TCTAACAAGGCCCAATAATGCATCCTTGAATCTTTTGGCTTTTGCTCTTGTCATTGGACCTAATG
695 TCTAACAAGGCCCAATAATGCATCCTTGAATCTTTTGGCTTTTGCTCTTGTCATTGGACCTAATG
60871 GCATCTTCAATGGATCAAATGGCATCTTTGGCATCTCCTTGGTGCATGTTGTGTGATATCTCCTT
760 GCATCTTCAATGGATCAAATGGCATCTTTGGCATCTCCTTGGTGCATGTTGTGTGATATCTCCTT
* *
60936 GATCTTCATGCTTCTCCATTCTTCCATGCAACCCATGCACATCCTTTCCTTGCTCTCCATTGTCA
825 GACCTTCATGCTTCTCCATGCTTCCATGCAACCCATGCACATCCTTTCCTTGCTCTCCATTGTCA
61001 TCTTCAAGTCCATGATAAGTCCTTGGCGCATCA
890 TCTTCAAGTCCATGATAAGTCCTTGGCGCATCA
61034 CCGCACCACC
Statistics
Matches: 860, Mismatches: 53, Indels: 38
0.90 0.06 0.04
Matches are distributed among these distances:
930 2 0.00
931 51 0.06
932 175 0.20
933 10 0.01
934 2 0.00
936 116 0.13
939 1 0.00
940 1 0.00
941 9 0.01
942 1 0.00
943 174 0.20
944 313 0.36
945 5 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (924 bp):
ATTGATACGAATCTAGTTGTATTAGATTCAAATCTAGCCTTGAAACCCACCAAGAATCAACTTGA
ACAACTTCAACTTCTAGATGGGTATGTCGATGACCTTCACCTAAGCAATCCTCTTCGTTCGTCGG
CCTTAGACCTTCAATTAGACCTACAATTGAACAACTAAGAACACAAGATTCACAAACAATCAAGC
AATCACAACTTAATTGTTTGATAGGACTCTACAAGATTGAAGAACCCAAAGCTTGCTCAAACTAG
AACAAAGAAGATAAATAATCAAAAGAATCTCTCTTTAATTAATAAACTTAACTTGATTACAAAAG
AGGGGTTGATGCCTTTATATAGGCAAAGGGGTTTGACCAATATCCAAAAATAAAACCTAATTTTC
GTCCAAATATATGGCCTAGGGTAAAACTAGTCCAAACCCAACTAGGAAAAGGAAACAAAGACATA
ATTAAACAAGGATTGGACTTAGTCAAACAAGGCCCAACCCAAATAATATCCAAACTTAAAAATAA
GCTAATCTAAGATAAAATAAAGCCCACAATGGCCTAAATAACACATTCAAGCTCATTCATCCATC
AATTGCAAGCAAAGTGATGAACTTGGAATCGATGAGAATATATTATTACCCAAATCATCTCAAAG
CTCTTCAAATGAACTCCGATGGCCTTCAAGTCCTCAAGATGAGTTCTAACAAGGCCCAATAATGC
ATCCTTGAATCTTTTGGCTTTTGCTCTTGTCATTGGACCTAATGGCATCTTCAATGGATCAAATG
GCATCTTTGGCATCTCCTTGGTGCATGTTGTGTGATATCTCCTTGACCTTCATGCTTCTCCATGC
TTCCATGCAACCCATGCACATCCTTTCCTTGCTCTCCATTGTCATCTTCAAGTCCATGATAAGTC
CTTGGCGCATCATT
Found at i:63177 original size:76 final size:76
Alignment explanation
Indices: 63049--63202 Score: 211
Period size: 76 Copynumber: 2.0 Consensus size: 76
63039 GAACAAGGAC
* *
63049 CACGACTCCATCTGGGCGCCCACATGGTTGCCTTGAACACCCATGTGGTTTGCTTGATAACCCAG
1 CACGACTCCAGCTGGGCGCCCACATGGTTGCCTTGAACACCCATGTGGTTTGCCTGATAACCCAG
*
63114 GTGGGCAGTGT
66 ATGGGCAGTGT
** * * *
63125 CACGACTCCAGCTGGGCGCCCACATGGTT-TTTCTGAAGACCCATGTGTTTTGCCTGATCACCCA
1 CACGACTCCAGCTGGGCGCCCACATGGTTGCCT-TGAACACCCATGTGGTTTGCCTGATAACCCA
*
63189 GATGGGCTGTGT
65 GATGGGCAGTGT
63201 CA
1 CA
63203 TAGCTCATCA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 1 0.01
76 67 0.99
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26
Consensus pattern (76 bp):
CACGACTCCAGCTGGGCGCCCACATGGTTGCCTTGAACACCCATGTGGTTTGCCTGATAACCCAG
ATGGGCAGTGT
Done.