Multiple sequence alignment - TraesCS6A01G176100

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6A01G176100 chr6A 100.000 2111 0 0 1 2111 192822331 192824441 0.000000e+00 3899
1 TraesCS6A01G176100 chr6A 96.279 215 8 0 378 592 119074399 119074185 9.270000e-94 353
2 TraesCS6A01G176100 chr1D 96.496 1056 32 5 475 1528 244396327 244397379 0.000000e+00 1740
3 TraesCS6A01G176100 chr1D 96.493 1055 32 5 475 1528 244402767 244403817 0.000000e+00 1738
4 TraesCS6A01G176100 chr1D 98.710 853 9 2 677 1528 254483753 254484604 0.000000e+00 1513
5 TraesCS6A01G176100 chr1D 95.349 215 10 0 266 480 244394768 244394982 2.010000e-90 342
6 TraesCS6A01G176100 chr6D 98.476 853 11 2 677 1528 431397122 431396271 0.000000e+00 1502
7 TraesCS6A01G176100 chr6D 84.991 573 78 6 1540 2111 261907846 261908411 1.820000e-160 575
8 TraesCS6A01G176100 chr6D 84.247 584 89 2 1530 2111 184542774 184543356 1.090000e-157 566
9 TraesCS6A01G176100 chr6D 83.420 579 95 1 1533 2110 153478969 153478391 8.570000e-149 536
10 TraesCS6A01G176100 chr6D 99.621 264 1 0 1 264 389254826 389255089 1.130000e-132 483
11 TraesCS6A01G176100 chr6D 99.242 264 2 0 1 264 389250031 389250294 5.270000e-131 477
12 TraesCS6A01G176100 chr5D 98.478 854 10 3 677 1528 6217417 6216565 0.000000e+00 1502
13 TraesCS6A01G176100 chr5D 85.172 580 85 1 1533 2111 160905836 160905257 5.010000e-166 593
14 TraesCS6A01G176100 chr2D 98.476 853 11 2 677 1528 643860127 643860978 0.000000e+00 1502
15 TraesCS6A01G176100 chr2D 96.585 205 7 0 273 477 406835356 406835152 7.210000e-90 340
16 TraesCS6A01G176100 chr3A 97.628 801 19 0 266 1066 393236964 393236164 0.000000e+00 1375
17 TraesCS6A01G176100 chr1A 98.825 681 7 1 849 1528 554470848 554470168 0.000000e+00 1212
18 TraesCS6A01G176100 chr3B 98.824 680 7 1 850 1528 201500761 201501440 0.000000e+00 1210
19 TraesCS6A01G176100 chr3B 94.231 312 17 1 362 673 386604765 386604455 1.900000e-130 475
20 TraesCS6A01G176100 chrUn 98.368 674 10 1 856 1528 444441717 444442390 0.000000e+00 1182
21 TraesCS6A01G176100 chrUn 84.468 573 87 2 1539 2110 216105840 216106411 3.930000e-157 564
22 TraesCS6A01G176100 chrUn 84.321 574 86 3 1539 2110 230068639 230069210 1.830000e-155 558
23 TraesCS6A01G176100 chrUn 99.242 264 2 0 1 264 444108769 444109032 5.270000e-131 477
24 TraesCS6A01G176100 chr3D 97.624 505 10 1 266 770 213385125 213385627 0.000000e+00 865
25 TraesCS6A01G176100 chr3D 84.870 575 82 5 1533 2105 264864146 264863575 1.820000e-160 575
26 TraesCS6A01G176100 chr3D 99.621 264 1 0 1 264 427289799 427289536 1.130000e-132 483
27 TraesCS6A01G176100 chr3D 99.242 264 2 0 1 264 589265866 589265603 5.270000e-131 477
28 TraesCS6A01G176100 chr2A 98.681 379 4 1 586 963 588082488 588082866 0.000000e+00 671
29 TraesCS6A01G176100 chr2A 99.621 264 1 0 1 264 726897287 726897550 1.130000e-132 483
30 TraesCS6A01G176100 chr2A 89.640 222 10 6 736 957 207577133 207576925 9.600000e-69 270
31 TraesCS6A01G176100 chr7D 98.802 334 3 1 508 841 566026523 566026191 5.010000e-166 593
32 TraesCS6A01G176100 chr7D 83.419 585 94 2 1529 2111 396721083 396720500 6.630000e-150 540
33 TraesCS6A01G176100 chr7D 99.621 264 1 0 1 264 231557080 231556817 1.130000e-132 483
34 TraesCS6A01G176100 chr7D 97.810 137 3 0 266 402 509197304 509197440 9.740000e-59 237
35 TraesCS6A01G176100 chr7D 93.069 101 7 0 553 653 425734143 425734043 4.690000e-32 148
36 TraesCS6A01G176100 chr2B 83.882 577 86 5 1539 2111 264498575 264498002 5.120000e-151 544
37 TraesCS6A01G176100 chr2B 86.590 261 31 4 291 551 11548186 11547930 3.430000e-73 285
38 TraesCS6A01G176100 chr2B 86.364 264 33 3 288 551 12933086 12933346 3.430000e-73 285
39 TraesCS6A01G176100 chr7B 99.242 264 2 0 1 264 662724061 662724324 5.270000e-131 477
40 TraesCS6A01G176100 chr5B 99.242 264 2 0 1 264 487447224 487447487 5.270000e-131 477
41 TraesCS6A01G176100 chr4B 94.783 230 7 3 343 571 71701973 71701748 9.270000e-94 353
42 TraesCS6A01G176100 chr4B 93.913 230 9 3 343 571 117070223 117070448 2.010000e-90 342
43 TraesCS6A01G176100 chr4B 93.478 230 10 3 343 571 117091315 117091540 9.330000e-89 337
44 TraesCS6A01G176100 chr5A 94.444 144 7 1 267 409 696746641 696746498 9.810000e-54 220


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G176100 chr6A 192822331 192824441 2110 False 3899 3899 100.0000 1 2111 1 chr6A.!!$F1 2110
1 TraesCS6A01G176100 chr1D 244402767 244403817 1050 False 1738 1738 96.4930 475 1528 1 chr1D.!!$F1 1053
2 TraesCS6A01G176100 chr1D 254483753 254484604 851 False 1513 1513 98.7100 677 1528 1 chr1D.!!$F2 851
3 TraesCS6A01G176100 chr1D 244394768 244397379 2611 False 1041 1740 95.9225 266 1528 2 chr1D.!!$F3 1262
4 TraesCS6A01G176100 chr6D 431396271 431397122 851 True 1502 1502 98.4760 677 1528 1 chr6D.!!$R2 851
5 TraesCS6A01G176100 chr6D 261907846 261908411 565 False 575 575 84.9910 1540 2111 1 chr6D.!!$F2 571
6 TraesCS6A01G176100 chr6D 184542774 184543356 582 False 566 566 84.2470 1530 2111 1 chr6D.!!$F1 581
7 TraesCS6A01G176100 chr6D 153478391 153478969 578 True 536 536 83.4200 1533 2110 1 chr6D.!!$R1 577
8 TraesCS6A01G176100 chr5D 6216565 6217417 852 True 1502 1502 98.4780 677 1528 1 chr5D.!!$R1 851
9 TraesCS6A01G176100 chr5D 160905257 160905836 579 True 593 593 85.1720 1533 2111 1 chr5D.!!$R2 578
10 TraesCS6A01G176100 chr2D 643860127 643860978 851 False 1502 1502 98.4760 677 1528 1 chr2D.!!$F1 851
11 TraesCS6A01G176100 chr3A 393236164 393236964 800 True 1375 1375 97.6280 266 1066 1 chr3A.!!$R1 800
12 TraesCS6A01G176100 chr1A 554470168 554470848 680 True 1212 1212 98.8250 849 1528 1 chr1A.!!$R1 679
13 TraesCS6A01G176100 chr3B 201500761 201501440 679 False 1210 1210 98.8240 850 1528 1 chr3B.!!$F1 678
14 TraesCS6A01G176100 chrUn 444441717 444442390 673 False 1182 1182 98.3680 856 1528 1 chrUn.!!$F4 672
15 TraesCS6A01G176100 chrUn 216105840 216106411 571 False 564 564 84.4680 1539 2110 1 chrUn.!!$F1 571
16 TraesCS6A01G176100 chrUn 230068639 230069210 571 False 558 558 84.3210 1539 2110 1 chrUn.!!$F2 571
17 TraesCS6A01G176100 chr3D 213385125 213385627 502 False 865 865 97.6240 266 770 1 chr3D.!!$F1 504
18 TraesCS6A01G176100 chr3D 264863575 264864146 571 True 575 575 84.8700 1533 2105 1 chr3D.!!$R1 572
19 TraesCS6A01G176100 chr7D 396720500 396721083 583 True 540 540 83.4190 1529 2111 1 chr7D.!!$R2 582
20 TraesCS6A01G176100 chr2B 264498002 264498575 573 True 544 544 83.8820 1539 2111 1 chr2B.!!$R2 572

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
251 252 0.034059 CCACACTGGGACTGAGACAC 59.966 60.0 0.0 0.0 32.67 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1531 2888 0.107165 GAGGAGCCGGCCTTAATGTT 60.107 55.0 26.15 0.0 38.73 2.71 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 0.586319 AACACATGCAAGTCGAACGG 59.414 50.000 0.00 0.00 0.00 4.44
21 22 1.227999 ACACATGCAAGTCGAACGGG 61.228 55.000 0.00 0.00 0.00 5.28
22 23 0.948623 CACATGCAAGTCGAACGGGA 60.949 55.000 0.00 0.00 0.00 5.14
23 24 0.250124 ACATGCAAGTCGAACGGGAA 60.250 50.000 0.00 0.00 0.00 3.97
24 25 0.443869 CATGCAAGTCGAACGGGAAG 59.556 55.000 0.00 0.00 0.00 3.46
25 26 0.034896 ATGCAAGTCGAACGGGAAGT 59.965 50.000 0.00 0.00 0.00 3.01
26 27 0.878523 TGCAAGTCGAACGGGAAGTG 60.879 55.000 0.00 0.00 0.00 3.16
27 28 1.566018 GCAAGTCGAACGGGAAGTGG 61.566 60.000 0.00 0.00 0.00 4.00
28 29 0.249741 CAAGTCGAACGGGAAGTGGT 60.250 55.000 0.00 0.00 0.00 4.16
29 30 0.249741 AAGTCGAACGGGAAGTGGTG 60.250 55.000 0.00 0.00 0.00 4.17
30 31 1.068585 GTCGAACGGGAAGTGGTGT 59.931 57.895 0.00 0.00 0.00 4.16
31 32 0.531311 GTCGAACGGGAAGTGGTGTT 60.531 55.000 0.00 0.00 0.00 3.32
32 33 0.178533 TCGAACGGGAAGTGGTGTTT 59.821 50.000 0.00 0.00 0.00 2.83
33 34 1.018910 CGAACGGGAAGTGGTGTTTT 58.981 50.000 0.00 0.00 0.00 2.43
34 35 1.003223 CGAACGGGAAGTGGTGTTTTC 60.003 52.381 0.00 0.00 0.00 2.29
35 36 2.018515 GAACGGGAAGTGGTGTTTTCA 58.981 47.619 0.00 0.00 0.00 2.69
36 37 1.675552 ACGGGAAGTGGTGTTTTCAG 58.324 50.000 0.00 0.00 0.00 3.02
37 38 1.064979 ACGGGAAGTGGTGTTTTCAGT 60.065 47.619 0.00 0.00 0.00 3.41
38 39 1.333619 CGGGAAGTGGTGTTTTCAGTG 59.666 52.381 0.00 0.00 0.00 3.66
39 40 1.681264 GGGAAGTGGTGTTTTCAGTGG 59.319 52.381 0.00 0.00 0.00 4.00
40 41 1.067060 GGAAGTGGTGTTTTCAGTGGC 59.933 52.381 0.00 0.00 0.00 5.01
41 42 0.738389 AAGTGGTGTTTTCAGTGGCG 59.262 50.000 0.00 0.00 0.00 5.69
42 43 0.107410 AGTGGTGTTTTCAGTGGCGA 60.107 50.000 0.00 0.00 0.00 5.54
43 44 0.736053 GTGGTGTTTTCAGTGGCGAA 59.264 50.000 0.00 0.00 0.00 4.70
44 45 0.736053 TGGTGTTTTCAGTGGCGAAC 59.264 50.000 0.00 0.00 0.00 3.95
45 46 0.316689 GGTGTTTTCAGTGGCGAACG 60.317 55.000 0.00 0.00 0.00 3.95
46 47 0.316689 GTGTTTTCAGTGGCGAACGG 60.317 55.000 0.00 0.00 0.00 4.44
47 48 1.281656 GTTTTCAGTGGCGAACGGG 59.718 57.895 0.00 0.00 0.00 5.28
48 49 1.153127 TTTTCAGTGGCGAACGGGT 60.153 52.632 0.00 0.00 0.00 5.28
49 50 1.440938 TTTTCAGTGGCGAACGGGTG 61.441 55.000 0.00 0.00 0.00 4.61
50 51 2.313051 TTTCAGTGGCGAACGGGTGA 62.313 55.000 0.00 0.00 0.00 4.02
51 52 2.709125 TTCAGTGGCGAACGGGTGAG 62.709 60.000 0.00 0.00 0.00 3.51
52 53 3.231736 AGTGGCGAACGGGTGAGT 61.232 61.111 0.00 0.00 0.00 3.41
53 54 1.904865 AGTGGCGAACGGGTGAGTA 60.905 57.895 0.00 0.00 0.00 2.59
54 55 1.005867 GTGGCGAACGGGTGAGTAA 60.006 57.895 0.00 0.00 0.00 2.24
55 56 1.005867 TGGCGAACGGGTGAGTAAC 60.006 57.895 0.00 0.00 0.00 2.50
56 57 2.090524 GGCGAACGGGTGAGTAACG 61.091 63.158 0.00 0.00 0.00 3.18
57 58 2.723719 GCGAACGGGTGAGTAACGC 61.724 63.158 0.00 0.00 40.42 4.84
64 65 2.352503 GGGTGAGTAACGCGTAAGAA 57.647 50.000 14.46 0.00 43.02 2.52
65 66 1.988467 GGGTGAGTAACGCGTAAGAAC 59.012 52.381 14.46 9.07 43.02 3.01
66 67 1.988467 GGTGAGTAACGCGTAAGAACC 59.012 52.381 14.46 13.58 43.02 3.62
67 68 2.352127 GGTGAGTAACGCGTAAGAACCT 60.352 50.000 14.46 1.70 43.02 3.50
68 69 2.660236 GTGAGTAACGCGTAAGAACCTG 59.340 50.000 14.46 0.00 43.02 4.00
69 70 1.652619 GAGTAACGCGTAAGAACCTGC 59.347 52.381 14.46 0.00 43.02 4.85
70 71 0.717784 GTAACGCGTAAGAACCTGCC 59.282 55.000 14.46 0.00 43.02 4.85
71 72 0.390209 TAACGCGTAAGAACCTGCCC 60.390 55.000 14.46 0.00 43.02 5.36
72 73 2.108278 AACGCGTAAGAACCTGCCCT 62.108 55.000 14.46 0.00 43.02 5.19
73 74 1.375523 CGCGTAAGAACCTGCCCTT 60.376 57.895 0.00 0.00 43.02 3.95
74 75 1.635663 CGCGTAAGAACCTGCCCTTG 61.636 60.000 0.00 0.00 43.02 3.61
75 76 1.305930 GCGTAAGAACCTGCCCTTGG 61.306 60.000 0.00 0.00 43.02 3.61
76 77 0.676782 CGTAAGAACCTGCCCTTGGG 60.677 60.000 0.32 0.32 43.02 4.12
77 78 0.696501 GTAAGAACCTGCCCTTGGGA 59.303 55.000 10.36 0.00 0.00 4.37
78 79 0.991920 TAAGAACCTGCCCTTGGGAG 59.008 55.000 10.36 0.39 40.98 4.30
87 88 4.843624 CCTTGGGAGGGGAACAAC 57.156 61.111 0.00 0.00 39.55 3.32
88 89 1.850549 CCTTGGGAGGGGAACAACA 59.149 57.895 0.00 0.00 39.55 3.33
89 90 0.187361 CCTTGGGAGGGGAACAACAA 59.813 55.000 0.00 0.00 39.55 2.83
90 91 1.328279 CTTGGGAGGGGAACAACAAC 58.672 55.000 0.00 0.00 0.00 3.32
91 92 0.930726 TTGGGAGGGGAACAACAACT 59.069 50.000 0.00 0.00 0.00 3.16
92 93 0.184933 TGGGAGGGGAACAACAACTG 59.815 55.000 0.00 0.00 0.00 3.16
93 94 0.539669 GGGAGGGGAACAACAACTGG 60.540 60.000 0.00 0.00 0.00 4.00
94 95 0.476771 GGAGGGGAACAACAACTGGA 59.523 55.000 0.00 0.00 0.00 3.86
95 96 1.133606 GGAGGGGAACAACAACTGGAA 60.134 52.381 0.00 0.00 0.00 3.53
96 97 2.661718 GAGGGGAACAACAACTGGAAA 58.338 47.619 0.00 0.00 0.00 3.13
97 98 2.361119 GAGGGGAACAACAACTGGAAAC 59.639 50.000 0.00 0.00 0.00 2.78
98 99 1.066454 GGGGAACAACAACTGGAAACG 59.934 52.381 0.00 0.00 0.00 3.60
99 100 1.066454 GGGAACAACAACTGGAAACGG 59.934 52.381 0.00 0.00 44.60 4.44
111 112 2.681344 CTGGAAACGGTTGCTAATACCC 59.319 50.000 6.19 0.00 31.75 3.69
112 113 2.019249 GGAAACGGTTGCTAATACCCC 58.981 52.381 0.00 0.00 31.75 4.95
113 114 1.667212 GAAACGGTTGCTAATACCCCG 59.333 52.381 0.00 0.00 44.06 5.73
114 115 2.289840 ACGGTTGCTAATACCCCGT 58.710 52.632 0.00 0.00 46.31 5.28
116 117 2.144482 CGGTTGCTAATACCCCGTAG 57.856 55.000 0.00 0.00 34.10 3.51
135 136 3.944476 GCTGAGGAGCAAAAGGAGA 57.056 52.632 0.00 0.00 45.46 3.71
136 137 2.191128 GCTGAGGAGCAAAAGGAGAA 57.809 50.000 0.00 0.00 45.46 2.87
137 138 2.508526 GCTGAGGAGCAAAAGGAGAAA 58.491 47.619 0.00 0.00 45.46 2.52
138 139 3.087781 GCTGAGGAGCAAAAGGAGAAAT 58.912 45.455 0.00 0.00 45.46 2.17
139 140 3.128415 GCTGAGGAGCAAAAGGAGAAATC 59.872 47.826 0.00 0.00 45.46 2.17
140 141 3.690460 TGAGGAGCAAAAGGAGAAATCC 58.310 45.455 0.00 0.00 0.00 3.01
141 142 2.680339 GAGGAGCAAAAGGAGAAATCCG 59.320 50.000 0.00 0.00 34.28 4.18
142 143 1.133216 GGAGCAAAAGGAGAAATCCGC 59.867 52.381 0.00 0.00 34.28 5.54
143 144 1.133216 GAGCAAAAGGAGAAATCCGCC 59.867 52.381 0.00 0.00 34.63 6.13
144 145 0.173481 GCAAAAGGAGAAATCCGCCC 59.827 55.000 0.00 0.00 35.03 6.13
145 146 1.544724 CAAAAGGAGAAATCCGCCCA 58.455 50.000 0.00 0.00 35.03 5.36
146 147 1.892474 CAAAAGGAGAAATCCGCCCAA 59.108 47.619 0.00 0.00 35.03 4.12
147 148 1.839424 AAAGGAGAAATCCGCCCAAG 58.161 50.000 0.00 0.00 35.03 3.61
148 149 0.034089 AAGGAGAAATCCGCCCAAGG 60.034 55.000 0.00 0.00 35.03 3.61
149 150 0.914417 AGGAGAAATCCGCCCAAGGA 60.914 55.000 0.00 0.00 45.54 3.36
150 151 0.464554 GGAGAAATCCGCCCAAGGAG 60.465 60.000 0.00 0.00 44.55 3.69
151 152 0.464554 GAGAAATCCGCCCAAGGAGG 60.465 60.000 0.00 0.00 44.55 4.30
161 162 4.821589 CAAGGAGGGGCTCGCGTC 62.822 72.222 5.77 0.00 0.00 5.19
165 166 3.532155 GAGGGGCTCGCGTCTGAT 61.532 66.667 5.77 0.00 0.00 2.90
166 167 3.077556 AGGGGCTCGCGTCTGATT 61.078 61.111 5.77 0.00 0.00 2.57
167 168 1.735376 GAGGGGCTCGCGTCTGATTA 61.735 60.000 5.77 0.00 0.00 1.75
168 169 1.300233 GGGGCTCGCGTCTGATTAG 60.300 63.158 5.77 0.00 0.00 1.73
169 170 1.951631 GGGCTCGCGTCTGATTAGC 60.952 63.158 5.77 5.45 0.00 3.09
170 171 1.066587 GGCTCGCGTCTGATTAGCT 59.933 57.895 5.77 0.00 33.67 3.32
171 172 0.311165 GGCTCGCGTCTGATTAGCTA 59.689 55.000 5.77 0.00 33.67 3.32
172 173 1.664588 GGCTCGCGTCTGATTAGCTAG 60.665 57.143 5.77 0.00 33.67 3.42
173 174 1.002251 GCTCGCGTCTGATTAGCTAGT 60.002 52.381 5.77 0.00 0.00 2.57
174 175 2.541999 GCTCGCGTCTGATTAGCTAGTT 60.542 50.000 5.77 0.00 0.00 2.24
175 176 3.039405 CTCGCGTCTGATTAGCTAGTTG 58.961 50.000 5.77 0.00 0.00 3.16
176 177 2.120232 CGCGTCTGATTAGCTAGTTGG 58.880 52.381 0.00 0.00 0.00 3.77
177 178 2.479730 CGCGTCTGATTAGCTAGTTGGT 60.480 50.000 0.00 0.00 0.00 3.67
178 179 2.860735 GCGTCTGATTAGCTAGTTGGTG 59.139 50.000 0.00 0.00 0.00 4.17
179 180 3.428999 GCGTCTGATTAGCTAGTTGGTGA 60.429 47.826 0.00 0.00 0.00 4.02
180 181 4.355437 CGTCTGATTAGCTAGTTGGTGAG 58.645 47.826 0.00 0.00 0.00 3.51
181 182 4.688021 GTCTGATTAGCTAGTTGGTGAGG 58.312 47.826 0.00 0.00 0.00 3.86
182 183 4.160626 GTCTGATTAGCTAGTTGGTGAGGT 59.839 45.833 0.00 0.00 0.00 3.85
183 184 5.360144 GTCTGATTAGCTAGTTGGTGAGGTA 59.640 44.000 0.00 0.00 0.00 3.08
184 185 5.955959 TCTGATTAGCTAGTTGGTGAGGTAA 59.044 40.000 0.00 0.00 39.30 2.85
185 186 6.611642 TCTGATTAGCTAGTTGGTGAGGTAAT 59.388 38.462 6.15 6.15 44.79 1.89
186 187 7.783119 TCTGATTAGCTAGTTGGTGAGGTAATA 59.217 37.037 6.38 0.00 43.13 0.98
187 188 7.952671 TGATTAGCTAGTTGGTGAGGTAATAG 58.047 38.462 6.38 0.00 43.13 1.73
188 189 4.674281 AGCTAGTTGGTGAGGTAATAGC 57.326 45.455 0.00 0.00 35.52 2.97
189 190 4.290942 AGCTAGTTGGTGAGGTAATAGCT 58.709 43.478 0.00 0.00 39.60 3.32
190 191 4.717280 AGCTAGTTGGTGAGGTAATAGCTT 59.283 41.667 0.00 0.00 41.11 3.74
191 192 5.897824 AGCTAGTTGGTGAGGTAATAGCTTA 59.102 40.000 0.00 0.00 41.11 3.09
192 193 5.984323 GCTAGTTGGTGAGGTAATAGCTTAC 59.016 44.000 5.92 5.92 37.16 2.34
202 203 4.992381 GTAATAGCTTACCAAGGCGATG 57.008 45.455 0.00 0.00 32.63 3.84
203 204 3.838244 AATAGCTTACCAAGGCGATGA 57.162 42.857 0.00 0.00 0.00 2.92
204 205 4.357918 AATAGCTTACCAAGGCGATGAT 57.642 40.909 0.00 0.00 0.00 2.45
205 206 2.246719 AGCTTACCAAGGCGATGATC 57.753 50.000 0.00 0.00 0.00 2.92
206 207 1.486310 AGCTTACCAAGGCGATGATCA 59.514 47.619 0.00 0.00 0.00 2.92
207 208 1.869767 GCTTACCAAGGCGATGATCAG 59.130 52.381 0.09 0.00 0.00 2.90
208 209 2.743183 GCTTACCAAGGCGATGATCAGT 60.743 50.000 0.09 0.00 0.00 3.41
209 210 3.492656 GCTTACCAAGGCGATGATCAGTA 60.493 47.826 0.09 0.00 0.00 2.74
210 211 2.898729 ACCAAGGCGATGATCAGTAG 57.101 50.000 0.09 0.00 0.00 2.57
211 212 1.202580 ACCAAGGCGATGATCAGTAGC 60.203 52.381 0.09 6.43 0.00 3.58
212 213 1.069823 CCAAGGCGATGATCAGTAGCT 59.930 52.381 16.06 0.00 0.00 3.32
213 214 2.133553 CAAGGCGATGATCAGTAGCTG 58.866 52.381 16.06 7.06 0.00 4.24
214 215 0.678395 AGGCGATGATCAGTAGCTGG 59.322 55.000 16.06 0.00 31.51 4.85
215 216 0.390860 GGCGATGATCAGTAGCTGGT 59.609 55.000 16.06 0.00 31.51 4.00
216 217 1.604185 GGCGATGATCAGTAGCTGGTC 60.604 57.143 16.06 2.68 41.56 4.02
217 218 1.604185 GCGATGATCAGTAGCTGGTCC 60.604 57.143 0.09 0.00 40.58 4.46
218 219 1.335415 CGATGATCAGTAGCTGGTCCG 60.335 57.143 0.09 1.31 40.58 4.79
219 220 1.957177 GATGATCAGTAGCTGGTCCGA 59.043 52.381 0.09 0.00 40.58 4.55
220 221 1.393603 TGATCAGTAGCTGGTCCGAG 58.606 55.000 6.91 0.00 40.58 4.63
221 222 1.064685 TGATCAGTAGCTGGTCCGAGA 60.065 52.381 6.91 0.00 40.58 4.04
222 223 1.606668 GATCAGTAGCTGGTCCGAGAG 59.393 57.143 0.00 0.00 35.74 3.20
223 224 0.394488 TCAGTAGCTGGTCCGAGAGG 60.394 60.000 0.00 0.00 41.90 3.69
235 236 3.584586 CGAGAGGATGATCAGCCAC 57.415 57.895 30.59 24.56 39.89 5.01
236 237 0.749049 CGAGAGGATGATCAGCCACA 59.251 55.000 30.59 0.00 39.89 4.17
237 238 1.537776 CGAGAGGATGATCAGCCACAC 60.538 57.143 30.59 21.50 39.89 3.82
238 239 1.761784 GAGAGGATGATCAGCCACACT 59.238 52.381 30.59 24.08 39.89 3.55
246 247 3.150949 CAGCCACACTGGGACTGA 58.849 61.111 0.00 0.00 43.19 3.41
247 248 1.004080 CAGCCACACTGGGACTGAG 60.004 63.158 0.00 0.00 43.19 3.35
248 249 1.152247 AGCCACACTGGGACTGAGA 60.152 57.895 0.00 0.00 38.19 3.27
249 250 1.004440 GCCACACTGGGACTGAGAC 60.004 63.158 0.00 0.00 38.19 3.36
250 251 1.758440 GCCACACTGGGACTGAGACA 61.758 60.000 0.00 0.00 38.19 3.41
251 252 0.034059 CCACACTGGGACTGAGACAC 59.966 60.000 0.00 0.00 32.67 3.67
252 253 0.319040 CACACTGGGACTGAGACACG 60.319 60.000 0.00 0.00 0.00 4.49
253 254 1.290324 CACTGGGACTGAGACACGG 59.710 63.158 0.00 0.00 0.00 4.94
254 255 2.262915 CTGGGACTGAGACACGGC 59.737 66.667 0.00 0.00 0.00 5.68
255 256 3.302347 CTGGGACTGAGACACGGCC 62.302 68.421 0.00 0.00 0.00 6.13
256 257 4.083862 GGGACTGAGACACGGCCC 62.084 72.222 0.00 0.00 35.35 5.80
257 258 3.311110 GGACTGAGACACGGCCCA 61.311 66.667 0.00 0.00 0.00 5.36
258 259 2.262915 GACTGAGACACGGCCCAG 59.737 66.667 0.00 0.00 0.00 4.45
259 260 2.203640 ACTGAGACACGGCCCAGA 60.204 61.111 10.93 0.00 0.00 3.86
260 261 2.262915 CTGAGACACGGCCCAGAC 59.737 66.667 0.00 0.00 0.00 3.51
261 262 2.203640 TGAGACACGGCCCAGACT 60.204 61.111 0.00 0.00 0.00 3.24
262 263 2.219325 CTGAGACACGGCCCAGACTC 62.219 65.000 12.49 12.49 0.00 3.36
263 264 2.997897 AGACACGGCCCAGACTCC 60.998 66.667 0.00 0.00 0.00 3.85
264 265 4.083862 GACACGGCCCAGACTCCC 62.084 72.222 0.00 0.00 0.00 4.30
358 359 3.691342 CTCCGCTCCGACCCAACA 61.691 66.667 0.00 0.00 0.00 3.33
1531 2888 6.575244 TCTGGGCCTATATTCTTTTTGAGA 57.425 37.500 4.53 0.00 0.00 3.27
1537 2894 9.131791 GGGCCTATATTCTTTTTGAGAACATTA 57.868 33.333 0.84 0.00 46.66 1.90
1613 2970 3.393106 TGCAGAGCATCGGGAGCA 61.393 61.111 0.00 0.00 42.67 4.26
1614 2971 2.110627 GCAGAGCATCGGGAGCAT 59.889 61.111 0.00 0.00 42.67 3.79
1709 3066 1.166531 AGGAGTTCCTTGTTGCACGC 61.167 55.000 0.00 0.00 46.09 5.34
1783 3141 0.396695 CCTACAACCCGGCTAGGAGA 60.397 60.000 0.00 0.00 45.00 3.71
1794 3152 2.326222 CTAGGAGAGCTGCGACGAT 58.674 57.895 0.00 0.00 0.00 3.73
1805 3163 4.386951 CGACGATGTGGGGTGCCA 62.387 66.667 0.00 0.00 0.00 4.92
1808 3166 4.720902 CGATGTGGGGTGCCAGCA 62.721 66.667 0.00 0.00 0.00 4.41
1837 3195 2.819595 GCGATGAAGAGGCCGCAA 60.820 61.111 9.88 0.00 46.04 4.85
1882 3241 1.605738 CCTGGCAAGCCAAGAAGCT 60.606 57.895 15.55 0.00 46.63 3.74
1925 3284 0.674895 GCCATGAGAAGCCAGTTCGT 60.675 55.000 0.00 0.00 40.49 3.85
2046 3405 0.116940 ACCTGAATTTGGGTGGCCAT 59.883 50.000 9.72 0.00 34.16 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.795872 CCGTTCGACTTGCATGTGTTA 59.204 47.619 10.37 0.00 0.00 2.41
1 2 0.586319 CCGTTCGACTTGCATGTGTT 59.414 50.000 10.37 0.00 0.00 3.32
2 3 1.227999 CCCGTTCGACTTGCATGTGT 61.228 55.000 10.37 0.00 0.00 3.72
3 4 0.948623 TCCCGTTCGACTTGCATGTG 60.949 55.000 10.37 3.24 0.00 3.21
4 5 0.250124 TTCCCGTTCGACTTGCATGT 60.250 50.000 4.68 4.68 0.00 3.21
5 6 0.443869 CTTCCCGTTCGACTTGCATG 59.556 55.000 0.00 0.00 0.00 4.06
6 7 0.034896 ACTTCCCGTTCGACTTGCAT 59.965 50.000 0.00 0.00 0.00 3.96
7 8 0.878523 CACTTCCCGTTCGACTTGCA 60.879 55.000 0.00 0.00 0.00 4.08
8 9 1.566018 CCACTTCCCGTTCGACTTGC 61.566 60.000 0.00 0.00 0.00 4.01
9 10 0.249741 ACCACTTCCCGTTCGACTTG 60.250 55.000 0.00 0.00 0.00 3.16
10 11 0.249741 CACCACTTCCCGTTCGACTT 60.250 55.000 0.00 0.00 0.00 3.01
11 12 1.366366 CACCACTTCCCGTTCGACT 59.634 57.895 0.00 0.00 0.00 4.18
12 13 0.531311 AACACCACTTCCCGTTCGAC 60.531 55.000 0.00 0.00 0.00 4.20
13 14 0.178533 AAACACCACTTCCCGTTCGA 59.821 50.000 0.00 0.00 0.00 3.71
14 15 1.003223 GAAAACACCACTTCCCGTTCG 60.003 52.381 0.00 0.00 0.00 3.95
15 16 2.018515 TGAAAACACCACTTCCCGTTC 58.981 47.619 0.00 0.00 0.00 3.95
16 17 2.021457 CTGAAAACACCACTTCCCGTT 58.979 47.619 0.00 0.00 0.00 4.44
17 18 1.064979 ACTGAAAACACCACTTCCCGT 60.065 47.619 0.00 0.00 0.00 5.28
18 19 1.333619 CACTGAAAACACCACTTCCCG 59.666 52.381 0.00 0.00 0.00 5.14
19 20 1.681264 CCACTGAAAACACCACTTCCC 59.319 52.381 0.00 0.00 0.00 3.97
20 21 1.067060 GCCACTGAAAACACCACTTCC 59.933 52.381 0.00 0.00 0.00 3.46
21 22 1.268539 CGCCACTGAAAACACCACTTC 60.269 52.381 0.00 0.00 0.00 3.01
22 23 0.738389 CGCCACTGAAAACACCACTT 59.262 50.000 0.00 0.00 0.00 3.16
23 24 0.107410 TCGCCACTGAAAACACCACT 60.107 50.000 0.00 0.00 0.00 4.00
24 25 0.736053 TTCGCCACTGAAAACACCAC 59.264 50.000 0.00 0.00 0.00 4.16
25 26 0.736053 GTTCGCCACTGAAAACACCA 59.264 50.000 0.00 0.00 0.00 4.17
26 27 0.316689 CGTTCGCCACTGAAAACACC 60.317 55.000 0.00 0.00 0.00 4.16
27 28 0.316689 CCGTTCGCCACTGAAAACAC 60.317 55.000 0.00 0.00 0.00 3.32
28 29 1.440938 CCCGTTCGCCACTGAAAACA 61.441 55.000 0.00 0.00 0.00 2.83
29 30 1.281656 CCCGTTCGCCACTGAAAAC 59.718 57.895 0.00 0.00 0.00 2.43
30 31 1.153127 ACCCGTTCGCCACTGAAAA 60.153 52.632 0.00 0.00 0.00 2.29
31 32 1.890041 CACCCGTTCGCCACTGAAA 60.890 57.895 0.00 0.00 0.00 2.69
32 33 2.280524 CACCCGTTCGCCACTGAA 60.281 61.111 0.00 0.00 0.00 3.02
33 34 3.220999 CTCACCCGTTCGCCACTGA 62.221 63.158 0.00 0.00 0.00 3.41
34 35 2.149803 TACTCACCCGTTCGCCACTG 62.150 60.000 0.00 0.00 0.00 3.66
35 36 1.466025 TTACTCACCCGTTCGCCACT 61.466 55.000 0.00 0.00 0.00 4.00
36 37 1.005867 TTACTCACCCGTTCGCCAC 60.006 57.895 0.00 0.00 0.00 5.01
37 38 1.005867 GTTACTCACCCGTTCGCCA 60.006 57.895 0.00 0.00 0.00 5.69
38 39 2.090524 CGTTACTCACCCGTTCGCC 61.091 63.158 0.00 0.00 0.00 5.54
39 40 2.723719 GCGTTACTCACCCGTTCGC 61.724 63.158 0.00 0.00 34.24 4.70
40 41 2.430942 CGCGTTACTCACCCGTTCG 61.431 63.158 0.00 0.00 0.00 3.95
41 42 0.109781 TACGCGTTACTCACCCGTTC 60.110 55.000 20.78 0.00 33.79 3.95
42 43 0.313672 TTACGCGTTACTCACCCGTT 59.686 50.000 20.78 0.00 33.79 4.44
43 44 0.109597 CTTACGCGTTACTCACCCGT 60.110 55.000 20.78 0.00 36.07 5.28
44 45 0.168788 TCTTACGCGTTACTCACCCG 59.831 55.000 20.78 0.00 0.00 5.28
45 46 1.988467 GTTCTTACGCGTTACTCACCC 59.012 52.381 20.78 0.00 0.00 4.61
46 47 1.988467 GGTTCTTACGCGTTACTCACC 59.012 52.381 20.78 14.10 0.00 4.02
47 48 2.660236 CAGGTTCTTACGCGTTACTCAC 59.340 50.000 20.78 8.42 0.00 3.51
48 49 2.923605 GCAGGTTCTTACGCGTTACTCA 60.924 50.000 20.78 0.00 0.00 3.41
49 50 1.652619 GCAGGTTCTTACGCGTTACTC 59.347 52.381 20.78 4.78 0.00 2.59
50 51 1.670967 GGCAGGTTCTTACGCGTTACT 60.671 52.381 20.78 4.04 0.00 2.24
51 52 0.717784 GGCAGGTTCTTACGCGTTAC 59.282 55.000 20.78 10.94 0.00 2.50
52 53 0.390209 GGGCAGGTTCTTACGCGTTA 60.390 55.000 20.78 7.67 0.00 3.18
53 54 1.670083 GGGCAGGTTCTTACGCGTT 60.670 57.895 20.78 0.80 0.00 4.84
54 55 2.047560 GGGCAGGTTCTTACGCGT 60.048 61.111 19.17 19.17 0.00 6.01
55 56 1.375523 AAGGGCAGGTTCTTACGCG 60.376 57.895 3.53 3.53 0.00 6.01
56 57 1.305930 CCAAGGGCAGGTTCTTACGC 61.306 60.000 0.00 0.00 0.00 4.42
57 58 0.676782 CCCAAGGGCAGGTTCTTACG 60.677 60.000 0.00 0.00 0.00 3.18
58 59 0.696501 TCCCAAGGGCAGGTTCTTAC 59.303 55.000 0.00 0.00 34.68 2.34
59 60 0.991920 CTCCCAAGGGCAGGTTCTTA 59.008 55.000 0.00 0.00 34.68 2.10
60 61 1.770324 CTCCCAAGGGCAGGTTCTT 59.230 57.895 0.00 0.00 34.68 2.52
61 62 2.234296 CCTCCCAAGGGCAGGTTCT 61.234 63.158 12.76 0.00 39.21 3.01
62 63 2.356667 CCTCCCAAGGGCAGGTTC 59.643 66.667 12.76 0.00 39.21 3.62
70 71 0.187361 TTGTTGTTCCCCTCCCAAGG 59.813 55.000 0.00 0.00 42.95 3.61
71 72 1.133482 AGTTGTTGTTCCCCTCCCAAG 60.133 52.381 0.00 0.00 0.00 3.61
72 73 0.930726 AGTTGTTGTTCCCCTCCCAA 59.069 50.000 0.00 0.00 0.00 4.12
73 74 0.184933 CAGTTGTTGTTCCCCTCCCA 59.815 55.000 0.00 0.00 0.00 4.37
74 75 0.539669 CCAGTTGTTGTTCCCCTCCC 60.540 60.000 0.00 0.00 0.00 4.30
75 76 0.476771 TCCAGTTGTTGTTCCCCTCC 59.523 55.000 0.00 0.00 0.00 4.30
76 77 2.358322 TTCCAGTTGTTGTTCCCCTC 57.642 50.000 0.00 0.00 0.00 4.30
77 78 2.384828 GTTTCCAGTTGTTGTTCCCCT 58.615 47.619 0.00 0.00 0.00 4.79
78 79 1.066454 CGTTTCCAGTTGTTGTTCCCC 59.934 52.381 0.00 0.00 0.00 4.81
79 80 1.066454 CCGTTTCCAGTTGTTGTTCCC 59.934 52.381 0.00 0.00 0.00 3.97
80 81 1.746787 ACCGTTTCCAGTTGTTGTTCC 59.253 47.619 0.00 0.00 0.00 3.62
81 82 3.175929 CAACCGTTTCCAGTTGTTGTTC 58.824 45.455 0.00 0.00 38.81 3.18
82 83 2.672760 GCAACCGTTTCCAGTTGTTGTT 60.673 45.455 4.95 0.00 44.17 2.83
83 84 1.135228 GCAACCGTTTCCAGTTGTTGT 60.135 47.619 4.95 0.00 44.17 3.32
84 85 1.134175 AGCAACCGTTTCCAGTTGTTG 59.866 47.619 4.95 0.00 44.17 3.33
85 86 1.470051 AGCAACCGTTTCCAGTTGTT 58.530 45.000 4.95 0.00 44.17 2.83
86 87 2.335316 TAGCAACCGTTTCCAGTTGT 57.665 45.000 4.95 0.00 44.17 3.32
87 88 3.915437 ATTAGCAACCGTTTCCAGTTG 57.085 42.857 0.00 0.00 44.93 3.16
88 89 3.754850 GGTATTAGCAACCGTTTCCAGTT 59.245 43.478 0.00 0.00 0.00 3.16
89 90 3.340928 GGTATTAGCAACCGTTTCCAGT 58.659 45.455 0.00 0.00 0.00 4.00
90 91 2.681344 GGGTATTAGCAACCGTTTCCAG 59.319 50.000 0.00 0.00 37.93 3.86
91 92 2.618559 GGGGTATTAGCAACCGTTTCCA 60.619 50.000 0.00 0.00 37.93 3.53
92 93 2.019249 GGGGTATTAGCAACCGTTTCC 58.981 52.381 0.00 0.00 37.93 3.13
93 94 1.667212 CGGGGTATTAGCAACCGTTTC 59.333 52.381 0.00 0.00 39.70 2.78
94 95 1.741528 CGGGGTATTAGCAACCGTTT 58.258 50.000 0.00 0.00 39.70 3.60
95 96 3.464207 CGGGGTATTAGCAACCGTT 57.536 52.632 0.00 0.00 39.70 4.44
98 99 1.541889 GCCTACGGGGTATTAGCAACC 60.542 57.143 0.00 0.00 37.43 3.77
99 100 1.415289 AGCCTACGGGGTATTAGCAAC 59.585 52.381 0.00 0.00 42.14 4.17
100 101 1.414919 CAGCCTACGGGGTATTAGCAA 59.585 52.381 0.00 0.00 42.03 3.91
101 102 1.045407 CAGCCTACGGGGTATTAGCA 58.955 55.000 0.00 0.00 42.03 3.49
102 103 1.272769 CTCAGCCTACGGGGTATTAGC 59.727 57.143 0.00 0.00 42.03 3.09
103 104 1.893801 CCTCAGCCTACGGGGTATTAG 59.106 57.143 0.00 0.00 42.03 1.73
104 105 1.500303 TCCTCAGCCTACGGGGTATTA 59.500 52.381 0.00 0.00 42.03 0.98
105 106 0.263765 TCCTCAGCCTACGGGGTATT 59.736 55.000 0.00 0.00 42.03 1.89
106 107 0.178958 CTCCTCAGCCTACGGGGTAT 60.179 60.000 0.00 0.00 42.03 2.73
107 108 1.229359 CTCCTCAGCCTACGGGGTA 59.771 63.158 0.00 0.00 42.03 3.69
108 109 2.042843 CTCCTCAGCCTACGGGGT 60.043 66.667 0.00 0.00 45.23 4.95
109 110 3.541713 GCTCCTCAGCCTACGGGG 61.542 72.222 0.00 0.00 40.14 5.73
110 111 1.899437 TTTGCTCCTCAGCCTACGGG 61.899 60.000 0.00 0.00 46.26 5.28
111 112 0.036388 TTTTGCTCCTCAGCCTACGG 60.036 55.000 0.00 0.00 46.26 4.02
112 113 1.363744 CTTTTGCTCCTCAGCCTACG 58.636 55.000 0.00 0.00 46.26 3.51
113 114 1.279271 TCCTTTTGCTCCTCAGCCTAC 59.721 52.381 0.00 0.00 46.26 3.18
114 115 1.556911 CTCCTTTTGCTCCTCAGCCTA 59.443 52.381 0.00 0.00 46.26 3.93
115 116 0.327591 CTCCTTTTGCTCCTCAGCCT 59.672 55.000 0.00 0.00 46.26 4.58
116 117 0.326264 TCTCCTTTTGCTCCTCAGCC 59.674 55.000 0.00 0.00 46.26 4.85
117 118 5.933291 GGATTTCTCCTTTTGCTCCTCAGC 61.933 50.000 0.00 0.00 41.36 4.26
118 119 3.693578 GGATTTCTCCTTTTGCTCCTCAG 59.306 47.826 0.00 0.00 38.65 3.35
119 120 3.690460 GGATTTCTCCTTTTGCTCCTCA 58.310 45.455 0.00 0.00 38.65 3.86
120 121 2.680339 CGGATTTCTCCTTTTGCTCCTC 59.320 50.000 0.00 0.00 39.65 3.71
121 122 2.716217 CGGATTTCTCCTTTTGCTCCT 58.284 47.619 0.00 0.00 39.65 3.69
122 123 1.133216 GCGGATTTCTCCTTTTGCTCC 59.867 52.381 0.00 0.00 39.65 4.70
123 124 1.133216 GGCGGATTTCTCCTTTTGCTC 59.867 52.381 0.00 0.00 39.65 4.26
124 125 1.177401 GGCGGATTTCTCCTTTTGCT 58.823 50.000 0.00 0.00 39.65 3.91
125 126 0.173481 GGGCGGATTTCTCCTTTTGC 59.827 55.000 0.00 0.00 39.65 3.68
126 127 1.544724 TGGGCGGATTTCTCCTTTTG 58.455 50.000 0.00 0.00 39.65 2.44
127 128 2.171003 CTTGGGCGGATTTCTCCTTTT 58.829 47.619 0.00 0.00 39.65 2.27
128 129 1.616994 CCTTGGGCGGATTTCTCCTTT 60.617 52.381 0.00 0.00 39.65 3.11
129 130 0.034089 CCTTGGGCGGATTTCTCCTT 60.034 55.000 0.00 0.00 39.65 3.36
130 131 0.914417 TCCTTGGGCGGATTTCTCCT 60.914 55.000 0.00 0.00 39.65 3.69
131 132 0.464554 CTCCTTGGGCGGATTTCTCC 60.465 60.000 0.00 0.00 38.29 3.71
132 133 0.464554 CCTCCTTGGGCGGATTTCTC 60.465 60.000 0.00 0.00 31.43 2.87
133 134 1.609783 CCTCCTTGGGCGGATTTCT 59.390 57.895 0.00 0.00 31.43 2.52
134 135 4.242602 CCTCCTTGGGCGGATTTC 57.757 61.111 0.00 0.00 31.43 2.17
144 145 4.821589 GACGCGAGCCCCTCCTTG 62.822 72.222 15.93 0.00 0.00 3.61
148 149 1.735376 TAATCAGACGCGAGCCCCTC 61.735 60.000 15.93 0.00 0.00 4.30
149 150 1.739338 CTAATCAGACGCGAGCCCCT 61.739 60.000 15.93 0.00 0.00 4.79
150 151 1.300233 CTAATCAGACGCGAGCCCC 60.300 63.158 15.93 0.00 0.00 5.80
151 152 1.951631 GCTAATCAGACGCGAGCCC 60.952 63.158 15.93 0.00 0.00 5.19
152 153 0.311165 TAGCTAATCAGACGCGAGCC 59.689 55.000 15.93 0.66 33.50 4.70
153 154 1.002251 ACTAGCTAATCAGACGCGAGC 60.002 52.381 15.93 9.76 30.88 5.03
154 155 3.039405 CAACTAGCTAATCAGACGCGAG 58.961 50.000 15.93 1.66 33.46 5.03
155 156 2.223502 CCAACTAGCTAATCAGACGCGA 60.224 50.000 15.93 0.00 0.00 5.87
156 157 2.120232 CCAACTAGCTAATCAGACGCG 58.880 52.381 3.53 3.53 0.00 6.01
157 158 2.860735 CACCAACTAGCTAATCAGACGC 59.139 50.000 0.00 0.00 0.00 5.19
158 159 4.355437 CTCACCAACTAGCTAATCAGACG 58.645 47.826 0.00 0.00 0.00 4.18
159 160 4.160626 ACCTCACCAACTAGCTAATCAGAC 59.839 45.833 0.00 0.00 0.00 3.51
160 161 4.353777 ACCTCACCAACTAGCTAATCAGA 58.646 43.478 0.00 0.00 0.00 3.27
161 162 4.744795 ACCTCACCAACTAGCTAATCAG 57.255 45.455 0.00 0.00 0.00 2.90
162 163 6.808321 ATTACCTCACCAACTAGCTAATCA 57.192 37.500 0.00 0.00 0.00 2.57
163 164 6.869388 GCTATTACCTCACCAACTAGCTAATC 59.131 42.308 0.00 0.00 0.00 1.75
164 165 6.555360 AGCTATTACCTCACCAACTAGCTAAT 59.445 38.462 0.00 0.00 38.82 1.73
165 166 5.897824 AGCTATTACCTCACCAACTAGCTAA 59.102 40.000 0.00 0.00 38.82 3.09
166 167 5.455872 AGCTATTACCTCACCAACTAGCTA 58.544 41.667 0.00 0.00 38.82 3.32
167 168 4.290942 AGCTATTACCTCACCAACTAGCT 58.709 43.478 0.00 0.00 36.52 3.32
168 169 4.674281 AGCTATTACCTCACCAACTAGC 57.326 45.455 0.00 0.00 0.00 3.42
181 182 4.628074 TCATCGCCTTGGTAAGCTATTAC 58.372 43.478 0.00 0.00 40.56 1.89
182 183 4.948341 TCATCGCCTTGGTAAGCTATTA 57.052 40.909 0.00 0.00 0.00 0.98
183 184 3.838244 TCATCGCCTTGGTAAGCTATT 57.162 42.857 0.00 0.00 0.00 1.73
184 185 3.324846 TGATCATCGCCTTGGTAAGCTAT 59.675 43.478 0.00 0.00 0.00 2.97
185 186 2.698274 TGATCATCGCCTTGGTAAGCTA 59.302 45.455 0.00 0.00 0.00 3.32
186 187 1.486310 TGATCATCGCCTTGGTAAGCT 59.514 47.619 0.00 0.00 0.00 3.74
187 188 1.869767 CTGATCATCGCCTTGGTAAGC 59.130 52.381 0.00 0.00 0.00 3.09
188 189 3.185246 ACTGATCATCGCCTTGGTAAG 57.815 47.619 0.00 0.00 0.00 2.34
189 190 3.492656 GCTACTGATCATCGCCTTGGTAA 60.493 47.826 0.00 0.00 0.00 2.85
190 191 2.035961 GCTACTGATCATCGCCTTGGTA 59.964 50.000 0.00 0.00 0.00 3.25
191 192 1.202580 GCTACTGATCATCGCCTTGGT 60.203 52.381 0.00 0.00 0.00 3.67
192 193 1.069823 AGCTACTGATCATCGCCTTGG 59.930 52.381 0.00 0.00 0.00 3.61
193 194 2.133553 CAGCTACTGATCATCGCCTTG 58.866 52.381 0.00 0.00 32.44 3.61
194 195 1.069823 CCAGCTACTGATCATCGCCTT 59.930 52.381 0.00 0.00 32.44 4.35
195 196 0.678395 CCAGCTACTGATCATCGCCT 59.322 55.000 0.00 0.00 32.44 5.52
196 197 0.390860 ACCAGCTACTGATCATCGCC 59.609 55.000 0.00 0.00 32.44 5.54
197 198 1.604185 GGACCAGCTACTGATCATCGC 60.604 57.143 0.00 0.00 32.44 4.58
198 199 1.335415 CGGACCAGCTACTGATCATCG 60.335 57.143 0.00 0.00 32.44 3.84
199 200 1.957177 TCGGACCAGCTACTGATCATC 59.043 52.381 0.00 0.00 32.44 2.92
200 201 1.959985 CTCGGACCAGCTACTGATCAT 59.040 52.381 0.00 0.00 32.44 2.45
201 202 1.064685 TCTCGGACCAGCTACTGATCA 60.065 52.381 0.00 0.00 32.44 2.92
202 203 1.606668 CTCTCGGACCAGCTACTGATC 59.393 57.143 0.00 0.00 32.44 2.92
203 204 1.686355 CTCTCGGACCAGCTACTGAT 58.314 55.000 0.00 0.00 32.44 2.90
204 205 0.394488 CCTCTCGGACCAGCTACTGA 60.394 60.000 0.00 0.00 32.44 3.41
205 206 0.394488 TCCTCTCGGACCAGCTACTG 60.394 60.000 0.00 0.00 33.30 2.74
206 207 0.553819 ATCCTCTCGGACCAGCTACT 59.446 55.000 0.00 0.00 43.51 2.57
207 208 0.671251 CATCCTCTCGGACCAGCTAC 59.329 60.000 0.00 0.00 43.51 3.58
208 209 0.551396 TCATCCTCTCGGACCAGCTA 59.449 55.000 0.00 0.00 43.51 3.32
209 210 0.105760 ATCATCCTCTCGGACCAGCT 60.106 55.000 0.00 0.00 43.51 4.24
210 211 0.316841 GATCATCCTCTCGGACCAGC 59.683 60.000 0.00 0.00 43.51 4.85
211 212 1.612950 CTGATCATCCTCTCGGACCAG 59.387 57.143 0.00 0.00 43.51 4.00
212 213 1.697284 CTGATCATCCTCTCGGACCA 58.303 55.000 0.00 0.00 43.51 4.02
213 214 0.316841 GCTGATCATCCTCTCGGACC 59.683 60.000 0.00 0.00 43.51 4.46
214 215 0.316841 GGCTGATCATCCTCTCGGAC 59.683 60.000 8.39 0.00 43.51 4.79
215 216 0.106015 TGGCTGATCATCCTCTCGGA 60.106 55.000 16.28 0.00 45.16 4.55
216 217 0.033228 GTGGCTGATCATCCTCTCGG 59.967 60.000 16.28 0.00 0.00 4.63
217 218 0.749049 TGTGGCTGATCATCCTCTCG 59.251 55.000 16.28 0.00 0.00 4.04
218 219 1.761784 AGTGTGGCTGATCATCCTCTC 59.238 52.381 16.28 12.98 0.00 3.20
219 220 1.876849 AGTGTGGCTGATCATCCTCT 58.123 50.000 16.28 9.26 0.00 3.69
229 230 1.004080 CTCAGTCCCAGTGTGGCTG 60.004 63.158 0.12 0.12 44.63 4.85
230 231 1.152247 TCTCAGTCCCAGTGTGGCT 60.152 57.895 0.00 0.00 35.79 4.75
231 232 1.004440 GTCTCAGTCCCAGTGTGGC 60.004 63.158 0.00 0.00 35.79 5.01
232 233 0.034059 GTGTCTCAGTCCCAGTGTGG 59.966 60.000 0.00 0.00 37.25 4.17
233 234 0.319040 CGTGTCTCAGTCCCAGTGTG 60.319 60.000 0.00 0.00 0.00 3.82
234 235 1.464376 CCGTGTCTCAGTCCCAGTGT 61.464 60.000 0.00 0.00 0.00 3.55
235 236 1.290324 CCGTGTCTCAGTCCCAGTG 59.710 63.158 0.00 0.00 0.00 3.66
236 237 2.574955 GCCGTGTCTCAGTCCCAGT 61.575 63.158 0.00 0.00 0.00 4.00
237 238 2.262915 GCCGTGTCTCAGTCCCAG 59.737 66.667 0.00 0.00 0.00 4.45
238 239 3.311110 GGCCGTGTCTCAGTCCCA 61.311 66.667 0.00 0.00 0.00 4.37
239 240 4.083862 GGGCCGTGTCTCAGTCCC 62.084 72.222 0.00 0.00 0.00 4.46
240 241 3.302347 CTGGGCCGTGTCTCAGTCC 62.302 68.421 0.00 0.00 0.00 3.85
241 242 2.262915 CTGGGCCGTGTCTCAGTC 59.737 66.667 0.00 0.00 0.00 3.51
242 243 2.203640 TCTGGGCCGTGTCTCAGT 60.204 61.111 0.00 0.00 0.00 3.41
243 244 2.219325 GAGTCTGGGCCGTGTCTCAG 62.219 65.000 14.83 6.96 0.00 3.35
244 245 2.203640 AGTCTGGGCCGTGTCTCA 60.204 61.111 0.00 0.00 0.00 3.27
245 246 2.574399 GAGTCTGGGCCGTGTCTC 59.426 66.667 0.00 3.49 0.00 3.36
246 247 2.997897 GGAGTCTGGGCCGTGTCT 60.998 66.667 0.00 0.00 0.00 3.41
247 248 4.083862 GGGAGTCTGGGCCGTGTC 62.084 72.222 0.00 0.00 0.00 3.67
250 251 4.658786 AAGGGGAGTCTGGGCCGT 62.659 66.667 0.00 0.00 0.00 5.68
251 252 3.330720 AAAGGGGAGTCTGGGCCG 61.331 66.667 0.00 0.00 0.00 6.13
252 253 2.677848 GAAAGGGGAGTCTGGGCC 59.322 66.667 0.00 0.00 0.00 5.80
253 254 2.269241 CGAAAGGGGAGTCTGGGC 59.731 66.667 0.00 0.00 0.00 5.36
254 255 1.296715 CACGAAAGGGGAGTCTGGG 59.703 63.158 0.00 0.00 0.00 4.45
263 264 1.396996 CGCTGTATTTCCACGAAAGGG 59.603 52.381 0.00 0.00 34.92 3.95
264 265 1.202031 GCGCTGTATTTCCACGAAAGG 60.202 52.381 0.00 0.00 34.92 3.11
708 2061 7.981102 AAGAAAGCGGTTAGAATTTACTTCT 57.019 32.000 0.00 0.00 46.16 2.85
1517 2874 8.190784 CGGCCTTAATGTTCTCAAAAAGAATAT 58.809 33.333 0.00 0.00 44.90 1.28
1531 2888 0.107165 GAGGAGCCGGCCTTAATGTT 60.107 55.000 26.15 0.00 38.73 2.71
1695 3052 1.522806 ACTCGCGTGCAACAAGGAA 60.523 52.632 5.77 0.00 35.74 3.36
1783 3141 4.457496 CCCCACATCGTCGCAGCT 62.457 66.667 0.00 0.00 0.00 4.24
1912 3271 3.963428 AGTTATGACGAACTGGCTTCT 57.037 42.857 0.00 0.00 38.25 2.85
2034 3393 2.515071 GGTGCAATGGCCACCCAAA 61.515 57.895 8.16 0.00 46.14 3.28
2062 3421 3.702048 CCGAGCTTTCACCCCCGA 61.702 66.667 0.00 0.00 0.00 5.14
2089 3448 2.943978 CGGGTGCTTTCGAGGGAGT 61.944 63.158 0.00 0.00 0.00 3.85


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.