Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015562.1 Corchorus olitorius cultivar O-4 contig15595, 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: 24115
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Found at i:2541 original size:22 final size:22
Alignment explanation
Indices: 2490--2545 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
2480 AAGCTTACAC
*
2490 AAGATTACT-AAAATTTTAATA
1 AAGATTACTAAAAATTGTAATA
*
2511 AAGACTACTAAAAATTGTAATA
1 AAGATTACTAAAAATTGTAATA
* *
2533 AGGGTTACTAAAA
1 AAGATTACTAAAA
2546 CGTTTAGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (22 bp):
AAGATTACTAAAAATTGTAATA
Found at i:2851 original size:21 final size:20
Alignment explanation
Indices: 2820--2906 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
2810 TATTAGATTT
* *
2820 CTAAAACACTCACAAGGTTA
1 CTAAAAAACTCACAAGGTCA
*
2840 CTAAAAAAACTCCATAAGGTCA
1 CT-AAAAAACT-CACAAGGTCA
* * * *
2862 CTATAAAACTCATAAGTTAA
1 CTAAAAAACTCACAAGGTCA
* * * *
2882 ATATAAATCTTACAAGGTCA
1 CTAAAAAACTCACAAGGTCA
2902 CTAAA
1 CTAAA
2907 TAAAAACTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
20 27 0.53
21 14 0.27
22 10 0.20
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (20 bp):
CTAAAAAACTCACAAGGTCA
Found at i:2858 original size:22 final size:20
Alignment explanation
Indices: 2820--2877 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
2810 TATTAGATTT
* * *
2820 CTAAAACACTCACAAGGTTA
1 CTAAAAAACTCATAAGGTCA
2840 CTAAAAAAACTCCATAAGGTCA
1 CT-AAAAAACT-CATAAGGTCA
*
2862 CTATAAAACTCATAAG
1 CTAAAAAACTCATAAG
2878 TTAAATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.25
21 14 0.44
22 10 0.31
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.21
Consensus pattern (20 bp):
CTAAAAAACTCATAAGGTCA
Found at i:2962 original size:22 final size:22
Alignment explanation
Indices: 2907--2962 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
2897 GGTCACTAAA
* * *
2907 TAAAAA-CTTAAGTAAGGTCTC
1 TAAAAATCTTAAATAAGATCAC
*
2928 TAAAACAT-GTAAATAAGATCAC
1 TAAAA-ATCTTAAATAAGATCAC
2950 TAAAAATCTTAAA
1 TAAAAATCTTAAA
2963 CGAGGTGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (22 bp):
TAAAAATCTTAAATAAGATCAC
Found at i:3048 original size:86 final size:86
Alignment explanation
Indices: 2951--3129 Score: 304
Period size: 86 Copynumber: 2.1 Consensus size: 86
2941 TAAGATCACT
* *
2951 AAAAATCTTAAACGAGGTGATTGAATAAATTCAAGAAAACTATTTAAAAACCTTTTAAGTTTAAT
1 AAAAATCTTAAACGAGGTGATTAAATAAATTCAAGAAAACTATTTAAAAAACTTTTAAGTTTAAT
3016 GAAAAATTCATAAGCTTACCA
66 GAAAAATTCATAAGCTTACCA
*
3037 AAAAATCTTAAACGAGGTGATTAAATAAATTTAAGAAAACTATTTAAAAAACTTTTAAGTTTAAT
1 AAAAATCTTAAACGAGGTGATTAAATAAATTCAAGAAAACTATTTAAAAAACTTTTAAGTTTAAT
* *
3102 GAAAACTTTATAAGCTTACCA
66 GAAAAATTCATAAGCTTACCA
3123 AGAAAAT
1 A-AAAAT
3130 TTACAAGATT
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 82 0.94
87 5 0.06
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (86 bp):
AAAAATCTTAAACGAGGTGATTAAATAAATTCAAGAAAACTATTTAAAAAACTTTTAAGTTTAAT
GAAAAATTCATAAGCTTACCA
Found at i:3570 original size:25 final size:26
Alignment explanation
Indices: 3542--3591 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
3532 TAAGGCGACT
3542 AAAATACTTTAA-AAGG-CCAAAAAAG
1 AAAA-ACTTTAATAAGGTCCAAAAAAG
*
3567 AAAAAGTTTAATAAGGTCCAAAAAA
1 AAAAACTTTAATAAGGTCCAAAAAA
3592 AGCTCAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.18
Consensus pattern (26 bp):
AAAAACTTTAATAAGGTCCAAAAAAG
Found at i:5396 original size:21 final size:21
Alignment explanation
Indices: 5349--5453 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 21
5339 GCTGCTCCTC
* * *
5349 GAATCATCCGAACAGGAAGAA
1 GAATCATCCGAAGAAGAGGAA
**
5370 TCATCATCCGAAGAAGAGGAA
1 GAATCATCCGAAGAAGAGGAA
5391 GAATCATCCGAATCCTCCGAAGAGGAAGAA
1 GAATCATCCGAA------GAAGA-G--GAA
5421 GAATCATCCGAAGAAGAGGAA
1 GAATCATCCGAAGAAGAGGAA
5442 GAATCATCCGAA
1 GAATCATCCGAA
5454 TCCTCCGAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
21 41 0.60
23 1 0.01
24 5 0.07
27 5 0.07
28 1 0.01
30 15 0.22
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (21 bp):
GAATCATCCGAAGAAGAGGAA
Found at i:5410 original size:30 final size:30
Alignment explanation
Indices: 5376--5476 Score: 112
Period size: 30 Copynumber: 3.7 Consensus size: 30
5366 AGAATCATCA
5376 TCCGAAGAAGAGGAAGAATCATCCGAATCC
1 TCCGAAGAAGAGGAAGAATCATCCGAATCC
*
5406 TCC---GAAGAGGAAG-A--A---GAATCA
1 TCCGAAGAAGAGGAAGAATCATCCGAATCC
5427 TCCGAAGAAGAGGAAGAATCATCCGAATCC
1 TCCGAAGAAGAGGAAGAATCATCCGAATCC
* *
5457 TCCGAAGAGGAAGAAGAATC
1 TCCGAAGAAGAGGAAGAATC
5477 TTCTTCGGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
21 8 0.14
24 11 0.19
25 1 0.02
26 1 0.02
27 11 0.19
30 26 0.45
ACGTcount: A:0.43, C:0.20, G:0.26, T:0.12
Consensus pattern (30 bp):
TCCGAAGAAGAGGAAGAATCATCCGAATCC
Found at i:5427 original size:51 final size:51
Alignment explanation
Indices: 5348--5476 Score: 222
Period size: 51 Copynumber: 2.5 Consensus size: 51
5338 TGCTGCTCCT
* * **
5348 CGAATCATCCGAACAGGAAGAATCATCATCCGAAGAAGAGGAAGAATCATC
1 CGAATCCTCCGAAGAGGAAGAAGAATCATCCGAAGAAGAGGAAGAATCATC
5399 CGAATCCTCCGAAGAGGAAGAAGAATCATCCGAAGAAGAGGAAGAATCATC
1 CGAATCCTCCGAAGAGGAAGAAGAATCATCCGAAGAAGAGGAAGAATCATC
5450 CGAATCCTCCGAAGAGGAAGAAGAATC
1 CGAATCCTCCGAAGAGGAAGAAGAATC
5477 TTCTTCGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (51 bp):
CGAATCCTCCGAAGAGGAAGAAGAATCATCCGAAGAAGAGGAAGAATCATC
Found at i:5551 original size:18 final size:18
Alignment explanation
Indices: 5528--5567 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
5518 TAGAGGGAGG
*
5528 AGAAGAATCATCCGATGA
1 AGAAGAATCATCCGAAGA
*
5546 AGAAGAGTCATCCGAAGA
1 AGAAGAATCATCCGAAGA
5564 AGAA
1 AGAA
5568 TCTTTTTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.15, G:0.25, T:0.12
Consensus pattern (18 bp):
AGAAGAATCATCCGAAGA
Found at i:5629 original size:18 final size:18
Alignment explanation
Indices: 5606--5653 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
5596 TCTTAAGATT
**
5606 CGAAGAAGAAGAATCCTC
1 CGAAGAAGAAGAATCCGA
5624 CGAAGAAGAAGAATCCGA
1 CGAAGAAGAAGAATCCGA
*
5642 CGAAGAGGAAGA
1 CGAAGAAGAAGA
5654 TTCTTTCCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.48, C:0.17, G:0.29, T:0.06
Consensus pattern (18 bp):
CGAAGAAGAAGAATCCGA
Found at i:11748 original size:11 final size:11
Alignment explanation
Indices: 11734--11771 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11724 ATTCATAACA
11734 AATTTATAATT
1 AATTTATAATT
11745 AATTTATAATT
1 AATTTATAATT
11756 -ATTTGATAATT
1 AATTT-ATAATT
*
11767 TATTT
1 AATTT
11772 TATATAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
AATTTATAATT
Found at i:22844 original size:330 final size:329
Alignment explanation
Indices: 20638--24099 Score: 3099
Period size: 329 Copynumber: 10.6 Consensus size: 329
20628 TATAACGAAC
* * * * * *
20638 CATCACGGTTTTTGAC-AAAAATGCGTTCCGGGGAGCC-GACTCAGTTTTGAATAATTTTTGGCT
1 CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGG-CCCTGGCTCAGTTTTGCATGATTTTTGGC-
* * * *
20701 CCGAGATTACTTGAAATATCTATATTCATCTAATTAAATCTCAG-CAGCATTGGATTTAAGGATT
64 CCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCA-CATTGGATTTAAGGATT
* * * * * *
20765 TGTTTTTATGTGTATCTGAATCTTGTTTCGGTTTATTTAGAAATTAATTCGGAAAAAATATGATA
128 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAATATGA-A
* * * * * * * *
20830 AAA--ATATTAGAAGCGTCAAAAGCCCTTCAATTTTTTTGGCATTGAATTATATA-ATTTTTATG
191 AAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATATATA-TTTTATG
* *
20892 AGTATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAAT
255 AGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAG-CGAAAT
* *
20957 CGTGTAATAAC
319 CGTGTACTAAA
* * * **
20968 CGTCACAG-TTTTGGCTAAAAAAGCGTTCC-GGG-CCTCGGCTCAGTTTTGCATGATTTTTTCCG
1 CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCT-GGCTCAGTTTTGCATGATTTTTGGC-
* * * * * * * *
21030 CCAAGACTCCTTGAGATATCCATATTCATTTAATCAAAACACAACCATATTGGATTTAAGAATTT
64 CCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTT
* * * *
21095 ATTTTTACAAGCATCTAAATCTTGTTTCGATTTAATTAGAAAGTAATTCAGAAAAAATATGAAAA
129 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAATATGAAAA
* * ** ** *
21160 ACAATATTAAAAGCATGAAAAGTTTTCCAATCTTTTTGGGGTTAAATTATATGGAT-TTTTATGG
193 ACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATAT--ATATTTTATGA
* * *
21224 GTATATTTTATCCAAAAATTGAGGAAAATAT-TTTCGGGTCATTTTTTTGCAAAATTTTAGCCAA
256 G--TATTTTAGCCAAAAATTGAGGAAAA-ATCTTTCGGGTCA-ATTTTTGCAAAATTTTAG-CGA
*
21288 AATCGTGTACTCTAAC
316 AATCGTGTA--CTAAA
* * * * * *
21304 CATCACAGTTTCTGGCTAAAAACGCGTTTCGGAG-CTTCGGCTTAGTTTTGCATGATTTTTGGCT
1 CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCT-GGCTCAGTTTTGCATGATTTTTGGC-
* * * * *
21368 CCGAGACTACTTGAGATATCTACATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTT
64 CCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTT
* * * *
21433 GTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTCA--GAAAAAAATATG-AAAA
129 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAA
* * *
21495 CGATATTAAAAGCGTGAAAAGTCCGT-CAATCTTTTTGATGTTGAATTATATATTTTTTATGAGT
194 CGATATTAAAAGCGTGAAAAGTCC-TCCAATCTTTTTGACGTTAAATTATATATATTTTATGAGT
* * * * * * *
21559 ATTATGGCTAAAAATTGA-GAAAATATCTTTCGGGTTAACTTTTGCAAAAATTTAGCCAAAATCG
258 ATTTTAGCCAAAAATTGAGGAAAA-ATCTTTCGGGTCAATTTTTGCAAAATTTTAG-CGAAATCG
* *
21623 TGTAATAAT
321 TGTACTAAA
* * * * *
21632 CATCACGGTTTTTGGCTAAAAACGCATTACGAGGCCC-GGTTCAGTTTTGCATTA-TTTTGGCGC
1 CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCTGGCTCAGTTTTGCATGATTTTTGGC-C
* * * * *
21695 CGAGACTCCTTGAAATACCTATATTCATCTAACCAAACCCCAG-C-C-----A-TT---G----G
65 CAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTG
* * * * *
21745 -TTTTACAAACATCTGAATCATCTTTCGATTTAATTAGAAATTAATTCGGAAAACATATGAAAAA
130 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAA-ATATGAAAAA
* * * ** * *
21809 CGATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTA
194 CGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATATATATTTTATGAGTA
* * * *
21874 TTAT-GACTAAAAATTAAGGAAACAA-CATTTCGGG-CAATTTTTTGCAAAATATTA-CTGAAAT
259 TTTTAG-CCAAAAATTGAGGAAA-AATC-TTTCGGGTCAA-TTTTTGCAAAATTTTAGC-GAAAT
21935 CGTGTA-T---
319 CGTGTACTAAA
* ** * * *
21942 CATCACGGTTTTTTTTTTTGGCTAAAAACGTGTTCCGGAACCCCGTG-TCAG-TTTACATAATTT
1 CATCACGG------TTTTTGGCTAAAAACGCGTTCCGGGGCCCTG-GCTCAGTTTTGCATGATTT
*
22005 TTGGCGCCAAGACTCCTTGAAGTATCTATATTCATCTAATCAAATCTCAG---C------TTT--
59 TTGGC-CCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAA
* * * *
22059 --A----TTTTTACGAGCATCTAAATATTGTTTCGATTTAATTAGAAATCAATTC-GAAAAAAGC
123 GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAA-T
* * * * * * * *
22117 AGGAAAAACGATTTTAGAAGCATAAAAAATCCTTCAATATTTTTGACGTTAAATTAT-T-T-TTT
186 ATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATATATATTT
*
22179 TATGAGTA-TTTAGCCAAAAATTGA-GAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCTG
251 TATGAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGC-G
* * *
22242 AAATCGTCTAATAAT
315 AAATCGTGTACTAAA
* ** * *
22257 CATCACGGGTTTTGGCTAAAAACGCGTTTCAAGGTCCC-GGATCAGTTTTGCATGATTTTTGGCA
1 CATCACGGTTTTTGGCTAAAAACGCG-TTCCGGGGCCCTGGCTCAGTTTTGCATGATTTTTGGC-
* * * * *
22321 CCAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTAAGCCTCATTGCATTTAAGGATTT
64 CCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTT
* * * *
22386 TTTTTTACAAACATCTGAATCTTGTTTCGAGTTTAATTATAAATTAATTCAGAAAAAATATGAAA
129 GTTTTTACGAGCATCTGAATCTTGTTTCGA-TTTAATTAGAAATTAATTCAG-AAAAATATGAAA
* * * *
22451 AATGATATGAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCGTTAAATTATATATATTTCATGAG
192 AACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATATATATTTTATGAG
* * * * *
22516 TATTTTATCCAAAAATTGAGGAAAAATTTTTTGGGTCATTTTTTTGCAAAAGTTTAGTCGAAATC
257 TATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCA-ATTTTTGCAAAATTTTAG-CGAAATC
*
22581 GTATACTAAA
320 GTGTACTAAA
* * * * * *
22591 C-TCACTGTTTTTAGCTAAAAACGCATTCCGGGGCCCTGGCTAAGTTTAGCATGTTTTTTGGCAC
1 CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCTGGCTCAGTTTTGCATGATTTTTGGC-C
* * * * * * *
22655 CAAGACTCTTTGAGATATCCATATTAATCTAATCTAATCTCAGCTACATTGGA-TTAAGAATTTG
65 CAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTG
* * *
22719 TTCTGACGAGCAT-TCGAATCTTGTTTCGATTTAATAAGAAATTAATTCAGAAAAATATGAAAAA
130 TTTTTACGAGCATCT-GAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAA
* * * * *
22783 CAATATTAAAAGCATGAAAAGTCCTCCAATCATTTTGACATTAAATTATATATATTTCATGAGTA
194 CGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATATATATTTTATGAGTA
* * *
22848 TTTTAACCAAAAATTGAGGAAAAA-CTTTTCGGGTCATTTTTTGCAAAATTTTCGCTGAAATCGT
259 TTTTAGCCAAAAATTGAGGAAAAATC-TTTCGGGTCAATTTTTGCAAAATTTTAGC-GAAATCGT
**
22912 GTACTAGC
322 GTACTAAA
* * * * * *
22920 CATCACGGTTTTT-GCTAAAAACGCGTTTCGGGGCCCCGACTTAGTTTTGCATGATTATTGGCGC
1 CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCTGGCTCAGTTTTGCATGATTTTTGGCCC
* * * *
22984 ATAAAATCCTTGAAATATCTATATTCATGTAATCAAATCTCAGCCACATTGAATTTAAGGATTTG
66 A-AGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTG
* * ** *
23049 TTTTTACGAGTATTTGGCTCTTGCTTT-GATTTAATTAGAAATTAATTCAGAAAACTATGAAAAA
130 TTTTTACGAGCATCTGAATCTTG-TTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAA
* * * * * *
23113 TGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCTTTGAATTATATAAATTTAATGAGTA
194 CGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATATATATTTTATGAGTA
* * * ** * * *
23178 TTGTGGCTAAAAATTG-GGGGAAATATTTCGGGTCAATTCTTGCAAAATTTTAGCCGAAATCATG
259 TTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAG-CGAAATCGTG
23242 TAC----
323 TACTAAA
* * * * * *
23245 CATCACAGTTTTTTTGCTAAAAACGCGTTCGGGGGCCCTGGGTCAATTTTGCATGATTTTTGGTG
1 CATCAC-GGTTTTTGGCTAAAAACGCGTTCCGGGGCCCTGGCTCAGTTTTGCATGATTTTTGG-C
* * * * * * *
23310 GCAAAACTCCTTAAAATATCTATATTTATTTAACCAAATCTTAGCCACATTGGATTTAAGGATTT
64 CCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTT
* * * * * * *
23375 -TTTTTACGAGCGTTTGAATCATGTTTCAATTAAATTAGAAATTAATT-TGAAAAAATAGGAAAA
129 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAATATGAAAA
* * * * * * * *
23438 ACGATATTGAAAGCGTGAAAAAGGCTTTCAATTTTTTTTTGACGTTGAGTTATAT-TTTTTTATG
193 ACGATATTAAAAGCGTG-AAAAGTCCTCCAA--TCTTTTTGACGTTAAATTATATATATTTTATG
* * * * *
23502 AGTATTTTCGCTAGAAATTAAGGAAAAATCTTTCAGGTCAATTTTTGCAAAATTTTAGTCGAAAT
255 AGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAG-CGAAAT
*
23567 CGTGTACTATA
319 CGTGTACTAAA
* * * * * *
23578 CATCACGATTTTCGGCTAAAAATGTGTTTCGGGTCCCT-GCTCAGTTTTGCATGATTTTTTGTG-
1 CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCTGGCTCAGTTTTGCATGA-TTTTTG-GC
* *
23641 CCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGGCACATTGGATTTAAGGATTT
64 CCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTT
* ** * *
23706 GTTTTTACGAGCATCTGAATATTGTTT-GCATTTAATTAGAAATTAATTTGGAAAAAAAGGAAAA
129 GTTTTTACGAGCATCTGAATCTTGTTTCG-ATTTAATTAGAAATTAATTCAGAAAAATATGAAAA
* * * * ** * ** *
23770 ACAATATTAGAAGCGTTAAAAGCCCTTTAATCTTTTTGAAGTCGAATTATATATTTTTTATGAGT
193 ACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATATATATTTTATGAGT
* * * *
23835 ATATTAGCCAAAAATTGA-GAAATATCTTTCGGATCAATTTTTGCAAAATTTTAGCCAAAATCGT
258 ATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAG-CGAAATCGT
*
23899 GTACTAAC
322 GTACTAAA
* * *
23907 CATCACGGTTTTTGGCTAAAAACGCG-TCTCGGTGCCAC-GGCTCTGTTTTGCATGATTTTTGAC
1 CATCACGGTTTTTGGCTAAAAACGCGTTC-CGGGGCC-CTGGCTCAGTTTTGCATGATTTTTGGC
* * * *
23970 GCCGAGACTCCTTGAAATATCTTTATTCATCTGATCAAATCTCAGCCACATTGGATTTAATGATT
64 -CCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATT
* * * ** *
24035 T-CTTTTACGTGCATCTAAATCTTGTTTTAATTTAATTAAAAATTAATTCAGAAAAATATGAAAA
128 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAA
24099 A
193 A
24100 TTGAGAAAAA
Statistics
Matches: 2591, Mismatches: 422, Indels: 239
0.80 0.13 0.07
Matches are distributed among these distances:
308 1 0.00
309 21 0.01
310 131 0.05
311 21 0.01
312 16 0.01
313 22 0.01
314 92 0.04
315 37 0.01
316 125 0.05
317 51 0.02
318 3 0.00
319 4 0.00
323 1 0.00
324 1 0.00
325 11 0.00
326 112 0.04
327 146 0.06
328 127 0.05
329 506 0.20
330 439 0.17
331 148 0.06
332 153 0.06
333 153 0.06
334 106 0.04
335 11 0.00
336 12 0.00
337 18 0.01
338 123 0.05
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (329 bp):
CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCTGGCTCAGTTTTGCATGATTTTTGGCCC
AAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGT
TTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACG
ATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTAAATTATATATATTTTATGAGTATT
TTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCGAAATCGTGTAC
TAAA
Done.