Multiple sequence alignment - TraesCS5D01G016900

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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 TraesCS5D01G016900 chr5D 100.000 2882 0 0 1 2882 9547029 9549910 0.000000e+00 5323.0
1 TraesCS5D01G016900 chr5D 85.745 463 53 11 328 787 386645005 386645457 7.220000e-131 477.0
2 TraesCS5D01G016900 chr5D 95.872 218 8 1 1 217 450405403 450405620 4.570000e-93 351.0
3 TraesCS5D01G016900 chr5D 94.907 216 9 2 1 215 526509460 526509674 1.280000e-88 337.0
4 TraesCS5D01G016900 chr5B 91.814 1698 100 10 216 1892 9538304 9539983 0.000000e+00 2329.0
5 TraesCS5D01G016900 chr5B 91.016 256 23 0 1646 1901 10338699 10338444 2.130000e-91 346.0
6 TraesCS5D01G016900 chr5A 91.399 1651 80 24 822 2432 7679612 7681240 0.000000e+00 2206.0
7 TraesCS5D01G016900 chr5A 94.192 396 19 2 2487 2882 7681244 7681635 4.110000e-168 601.0
8 TraesCS5D01G016900 chr5A 83.962 530 75 9 2351 2879 536612904 536612384 1.540000e-137 499.0
9 TraesCS5D01G016900 chr4D 83.447 876 97 29 2030 2875 127152361 127151504 0.000000e+00 771.0
10 TraesCS5D01G016900 chr4D 83.646 587 93 3 219 803 18398721 18398136 1.510000e-152 549.0
11 TraesCS5D01G016900 chr4D 88.525 61 2 5 1470 1529 453516726 453516670 5.150000e-08 69.4
12 TraesCS5D01G016900 chr2D 81.718 908 130 28 1995 2879 525518663 525519557 0.000000e+00 725.0
13 TraesCS5D01G016900 chr2D 82.632 570 85 6 232 789 569133748 569133181 2.580000e-135 492.0
14 TraesCS5D01G016900 chr2D 86.184 456 60 2 2427 2882 516866800 516866348 9.280000e-135 490.0
15 TraesCS5D01G016900 chr2D 79.636 604 101 13 216 802 147460796 147461394 5.750000e-112 414.0
16 TraesCS5D01G016900 chr2D 94.954 218 10 1 1 217 40760302 40760519 9.890000e-90 340.0
17 TraesCS5D01G016900 chr7A 81.191 957 90 46 1956 2879 83299963 83300862 0.000000e+00 688.0
18 TraesCS5D01G016900 chr7A 75.529 425 68 26 393 802 193462702 193463105 2.950000e-40 176.0
19 TraesCS5D01G016900 chr1B 85.009 567 80 5 216 779 678205026 678205590 3.220000e-159 571.0
20 TraesCS5D01G016900 chr1B 76.589 598 114 21 219 802 488475665 488476250 3.610000e-79 305.0
21 TraesCS5D01G016900 chr3A 81.946 709 93 20 2178 2857 720411912 720412614 4.170000e-158 568.0
22 TraesCS5D01G016900 chr3A 78.403 551 68 31 1970 2488 696706150 696706681 7.750000e-81 311.0
23 TraesCS5D01G016900 chr3A 79.725 291 33 21 2193 2465 468731044 468730762 1.360000e-43 187.0
24 TraesCS5D01G016900 chr3B 78.556 928 148 37 1986 2879 745551709 745552619 5.390000e-157 564.0
25 TraesCS5D01G016900 chr3B 81.371 569 101 5 216 780 112390964 112391531 2.620000e-125 459.0
26 TraesCS5D01G016900 chr3B 82.927 123 18 3 2541 2662 449443018 449442898 1.090000e-19 108.0
27 TraesCS5D01G016900 chr1D 81.616 718 84 29 2187 2878 6413080 6412385 4.200000e-153 551.0
28 TraesCS5D01G016900 chr1D 82.872 578 94 5 232 806 106292536 106293111 5.510000e-142 514.0
29 TraesCS5D01G016900 chr1D 84.133 542 52 21 2192 2705 486254717 486255252 7.170000e-136 494.0
30 TraesCS5D01G016900 chr1D 95.370 216 9 1 1 215 461335294 461335509 2.750000e-90 342.0
31 TraesCS5D01G016900 chr1D 76.166 193 28 7 1908 2089 467407818 467408003 5.120000e-13 86.1
32 TraesCS5D01G016900 chr2A 83.944 573 82 8 232 802 699839200 699838636 9.090000e-150 540.0
33 TraesCS5D01G016900 chr2A 87.193 367 42 4 2427 2791 661085033 661084670 2.070000e-111 412.0
34 TraesCS5D01G016900 chr2A 78.352 522 107 4 219 736 617430017 617429498 1.650000e-87 333.0
35 TraesCS5D01G016900 chr2A 85.106 141 21 0 2100 2240 3506725 3506585 8.320000e-31 145.0
36 TraesCS5D01G016900 chr1A 79.623 795 124 25 2113 2880 548451451 548450668 1.180000e-148 536.0
37 TraesCS5D01G016900 chr2B 86.402 353 37 7 2427 2779 608543139 608542798 2.710000e-100 375.0
38 TraesCS5D01G016900 chr3D 95.872 218 8 1 1 217 48776615 48776832 4.570000e-93 351.0
39 TraesCS5D01G016900 chr6B 81.723 476 35 27 2092 2543 684145235 684145682 1.640000e-92 350.0
40 TraesCS5D01G016900 chr6B 86.081 273 36 2 2607 2879 684145679 684145949 2.810000e-75 292.0
41 TraesCS5D01G016900 chr6D 93.913 230 13 1 1 229 6307680 6307909 2.130000e-91 346.0
42 TraesCS5D01G016900 chr6D 95.370 216 9 1 1 215 82009659 82009874 2.750000e-90 342.0
43 TraesCS5D01G016900 chr6D 95.370 216 9 1 1 215 462923056 462922841 2.750000e-90 342.0
44 TraesCS5D01G016900 chrUn 94.170 223 11 2 1 222 137637903 137638124 3.560000e-89 339.0
45 TraesCS5D01G016900 chrUn 95.122 41 2 0 2724 2764 50998566 50998526 6.670000e-07 65.8
46 TraesCS5D01G016900 chrUn 95.122 41 2 0 2724 2764 265635198 265635158 6.670000e-07 65.8
47 TraesCS5D01G016900 chrUn 97.368 38 1 0 2724 2761 289992137 289992174 6.670000e-07 65.8
48 TraesCS5D01G016900 chrUn 97.368 38 1 0 2724 2761 289997948 289997985 6.670000e-07 65.8
49 TraesCS5D01G016900 chrUn 97.368 38 1 0 2724 2761 307231779 307231816 6.670000e-07 65.8
50 TraesCS5D01G016900 chr6A 80.994 342 43 15 2542 2880 220690420 220690742 4.770000e-63 252.0
51 TraesCS5D01G016900 chr6A 95.745 47 1 1 2678 2724 115632975 115633020 1.110000e-09 75.0


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 TraesCS5D01G016900 chr5D 9547029 9549910 2881 False 5323.0 5323 100.0000 1 2882 1 chr5D.!!$F1 2881
1 TraesCS5D01G016900 chr5B 9538304 9539983 1679 False 2329.0 2329 91.8140 216 1892 1 chr5B.!!$F1 1676
2 TraesCS5D01G016900 chr5A 7679612 7681635 2023 False 1403.5 2206 92.7955 822 2882 2 chr5A.!!$F1 2060
3 TraesCS5D01G016900 chr5A 536612384 536612904 520 True 499.0 499 83.9620 2351 2879 1 chr5A.!!$R1 528
4 TraesCS5D01G016900 chr4D 127151504 127152361 857 True 771.0 771 83.4470 2030 2875 1 chr4D.!!$R2 845
5 TraesCS5D01G016900 chr4D 18398136 18398721 585 True 549.0 549 83.6460 219 803 1 chr4D.!!$R1 584
6 TraesCS5D01G016900 chr2D 525518663 525519557 894 False 725.0 725 81.7180 1995 2879 1 chr2D.!!$F3 884
7 TraesCS5D01G016900 chr2D 569133181 569133748 567 True 492.0 492 82.6320 232 789 1 chr2D.!!$R2 557
8 TraesCS5D01G016900 chr2D 147460796 147461394 598 False 414.0 414 79.6360 216 802 1 chr2D.!!$F2 586
9 TraesCS5D01G016900 chr7A 83299963 83300862 899 False 688.0 688 81.1910 1956 2879 1 chr7A.!!$F1 923
10 TraesCS5D01G016900 chr1B 678205026 678205590 564 False 571.0 571 85.0090 216 779 1 chr1B.!!$F2 563
11 TraesCS5D01G016900 chr1B 488475665 488476250 585 False 305.0 305 76.5890 219 802 1 chr1B.!!$F1 583
12 TraesCS5D01G016900 chr3A 720411912 720412614 702 False 568.0 568 81.9460 2178 2857 1 chr3A.!!$F2 679
13 TraesCS5D01G016900 chr3A 696706150 696706681 531 False 311.0 311 78.4030 1970 2488 1 chr3A.!!$F1 518
14 TraesCS5D01G016900 chr3B 745551709 745552619 910 False 564.0 564 78.5560 1986 2879 1 chr3B.!!$F2 893
15 TraesCS5D01G016900 chr3B 112390964 112391531 567 False 459.0 459 81.3710 216 780 1 chr3B.!!$F1 564
16 TraesCS5D01G016900 chr1D 6412385 6413080 695 True 551.0 551 81.6160 2187 2878 1 chr1D.!!$R1 691
17 TraesCS5D01G016900 chr1D 106292536 106293111 575 False 514.0 514 82.8720 232 806 1 chr1D.!!$F1 574
18 TraesCS5D01G016900 chr1D 486254717 486255252 535 False 494.0 494 84.1330 2192 2705 1 chr1D.!!$F4 513
19 TraesCS5D01G016900 chr2A 699838636 699839200 564 True 540.0 540 83.9440 232 802 1 chr2A.!!$R4 570
20 TraesCS5D01G016900 chr2A 617429498 617430017 519 True 333.0 333 78.3520 219 736 1 chr2A.!!$R2 517
21 TraesCS5D01G016900 chr1A 548450668 548451451 783 True 536.0 536 79.6230 2113 2880 1 chr1A.!!$R1 767
22 TraesCS5D01G016900 chr6B 684145235 684145949 714 False 321.0 350 83.9020 2092 2879 2 chr6B.!!$F1 787

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
175 176 0.105964 TGCGGAATCGGGACTAATGG 59.894 55.0 0.0 0.0 36.79 3.16 F
206 207 0.237498 CCGAACGAAGCCCTGTTTTC 59.763 55.0 0.0 0.0 0.00 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1068 1114 0.750546 AGTACTCGTAGCCGATGCCA 60.751 55.000 0.0 0.0 43.27 4.92 R
2075 2146 1.145738 ACTCTTGTGGGCTGGTTCAAT 59.854 47.619 0.0 0.0 0.00 2.57 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
19 20 0.837272 ACCGGGACTAATGGTCATGG 59.163 55.000 6.32 2.24 46.16 3.66
20 21 0.108585 CCGGGACTAATGGTCATGGG 59.891 60.000 0.00 0.00 46.16 4.00
21 22 0.535102 CGGGACTAATGGTCATGGGC 60.535 60.000 0.00 0.00 46.16 5.36
22 23 0.178990 GGGACTAATGGTCATGGGCC 60.179 60.000 0.00 0.00 46.16 5.80
23 24 0.550914 GGACTAATGGTCATGGGCCA 59.449 55.000 9.61 9.61 46.16 5.36
24 25 1.477558 GGACTAATGGTCATGGGCCAG 60.478 57.143 13.78 4.37 46.16 4.85
25 26 0.552848 ACTAATGGTCATGGGCCAGG 59.447 55.000 12.97 12.97 39.65 4.45
26 27 0.178981 CTAATGGTCATGGGCCAGGG 60.179 60.000 19.39 10.12 39.65 4.45
27 28 1.654137 TAATGGTCATGGGCCAGGGG 61.654 60.000 19.39 7.34 39.65 4.79
45 46 2.885644 CGAGACGCATTGGTCCCG 60.886 66.667 0.00 0.06 37.66 5.14
46 47 2.511600 GAGACGCATTGGTCCCGG 60.512 66.667 0.00 0.00 37.66 5.73
47 48 3.310860 GAGACGCATTGGTCCCGGT 62.311 63.158 0.00 0.00 37.66 5.28
48 49 2.359478 GACGCATTGGTCCCGGTT 60.359 61.111 0.00 0.00 0.00 4.44
49 50 2.359478 ACGCATTGGTCCCGGTTC 60.359 61.111 0.00 0.00 0.00 3.62
50 51 3.496131 CGCATTGGTCCCGGTTCG 61.496 66.667 0.00 0.00 0.00 3.95
51 52 2.359478 GCATTGGTCCCGGTTCGT 60.359 61.111 0.00 0.00 0.00 3.85
52 53 2.686816 GCATTGGTCCCGGTTCGTG 61.687 63.158 0.00 0.00 0.00 4.35
53 54 2.359478 ATTGGTCCCGGTTCGTGC 60.359 61.111 0.00 0.00 0.00 5.34
54 55 4.973055 TTGGTCCCGGTTCGTGCG 62.973 66.667 0.00 0.00 0.00 5.34
56 57 4.974989 GGTCCCGGTTCGTGCGTT 62.975 66.667 0.00 0.00 0.00 4.84
57 58 3.708734 GTCCCGGTTCGTGCGTTG 61.709 66.667 0.00 0.00 0.00 4.10
58 59 3.914117 TCCCGGTTCGTGCGTTGA 61.914 61.111 0.00 0.00 0.00 3.18
59 60 2.968156 CCCGGTTCGTGCGTTGAA 60.968 61.111 0.00 0.00 0.00 2.69
60 61 2.247267 CCGGTTCGTGCGTTGAAC 59.753 61.111 0.00 6.91 43.87 3.18
63 64 2.247267 GTTCGTGCGTTGAACCGG 59.753 61.111 0.00 0.00 39.80 5.28
64 65 2.968156 TTCGTGCGTTGAACCGGG 60.968 61.111 6.32 0.00 0.00 5.73
65 66 3.442512 TTCGTGCGTTGAACCGGGA 62.443 57.895 6.32 0.00 0.00 5.14
66 67 3.708734 CGTGCGTTGAACCGGGAC 61.709 66.667 6.32 0.00 0.00 4.46
67 68 3.351416 GTGCGTTGAACCGGGACC 61.351 66.667 6.32 0.00 0.00 4.46
68 69 3.862991 TGCGTTGAACCGGGACCA 61.863 61.111 6.32 0.00 0.00 4.02
69 70 2.592287 GCGTTGAACCGGGACCAA 60.592 61.111 6.32 3.64 0.00 3.67
70 71 2.188161 GCGTTGAACCGGGACCAAA 61.188 57.895 6.32 0.00 0.00 3.28
71 72 1.726533 GCGTTGAACCGGGACCAAAA 61.727 55.000 6.32 0.00 0.00 2.44
72 73 0.309612 CGTTGAACCGGGACCAAAAG 59.690 55.000 6.32 1.22 0.00 2.27
73 74 0.671796 GTTGAACCGGGACCAAAAGG 59.328 55.000 6.32 0.00 0.00 3.11
74 75 0.259356 TTGAACCGGGACCAAAAGGT 59.741 50.000 6.32 0.00 38.88 3.50
75 76 0.179012 TGAACCGGGACCAAAAGGTC 60.179 55.000 6.32 6.11 35.68 3.85
85 86 2.820197 GACCAAAAGGTCCAGATGAACC 59.180 50.000 3.27 0.00 33.21 3.62
86 87 1.812571 CCAAAAGGTCCAGATGAACCG 59.187 52.381 0.00 0.00 0.00 4.44
87 88 1.812571 CAAAAGGTCCAGATGAACCGG 59.187 52.381 0.00 0.00 0.00 5.28
88 89 0.328258 AAAGGTCCAGATGAACCGGG 59.672 55.000 6.32 0.00 0.00 5.73
89 90 0.546747 AAGGTCCAGATGAACCGGGA 60.547 55.000 6.32 0.00 0.00 5.14
90 91 0.326618 AGGTCCAGATGAACCGGGAT 60.327 55.000 6.32 0.00 0.00 3.85
91 92 0.106894 GGTCCAGATGAACCGGGATC 59.893 60.000 6.32 4.19 0.00 3.36
92 93 0.830648 GTCCAGATGAACCGGGATCA 59.169 55.000 9.58 9.58 0.00 2.92
93 94 1.123077 TCCAGATGAACCGGGATCAG 58.877 55.000 12.73 6.98 0.00 2.90
94 95 0.833287 CCAGATGAACCGGGATCAGT 59.167 55.000 12.73 0.05 0.00 3.41
95 96 1.473965 CCAGATGAACCGGGATCAGTG 60.474 57.143 12.73 11.58 0.00 3.66
96 97 0.833287 AGATGAACCGGGATCAGTGG 59.167 55.000 12.73 0.00 0.00 4.00
97 98 0.815615 GATGAACCGGGATCAGTGGC 60.816 60.000 12.73 0.00 0.00 5.01
98 99 2.124695 GAACCGGGATCAGTGGCC 60.125 66.667 6.32 0.00 0.00 5.36
99 100 3.699134 GAACCGGGATCAGTGGCCC 62.699 68.421 6.32 10.89 41.11 5.80
123 124 4.410400 CCCCCTGGGCTCACGAAC 62.410 72.222 7.39 0.00 35.35 3.95
124 125 4.410400 CCCCTGGGCTCACGAACC 62.410 72.222 7.39 0.00 0.00 3.62
125 126 4.760047 CCCTGGGCTCACGAACCG 62.760 72.222 0.00 0.00 0.00 4.44
126 127 4.760047 CCTGGGCTCACGAACCGG 62.760 72.222 0.00 0.00 0.00 5.28
127 128 4.760047 CTGGGCTCACGAACCGGG 62.760 72.222 6.32 0.00 0.00 5.73
129 130 4.754667 GGGCTCACGAACCGGGAC 62.755 72.222 6.32 0.00 32.99 4.46
130 131 3.692406 GGCTCACGAACCGGGACT 61.692 66.667 6.32 0.00 32.99 3.85
131 132 2.345760 GGCTCACGAACCGGGACTA 61.346 63.158 6.32 0.00 32.99 2.59
132 133 1.588082 GCTCACGAACCGGGACTAA 59.412 57.895 6.32 0.00 32.99 2.24
133 134 0.175073 GCTCACGAACCGGGACTAAT 59.825 55.000 6.32 0.00 32.99 1.73
134 135 1.922570 CTCACGAACCGGGACTAATG 58.077 55.000 6.32 0.00 32.99 1.90
135 136 0.108520 TCACGAACCGGGACTAATGC 60.109 55.000 6.32 0.00 32.99 3.56
136 137 0.390603 CACGAACCGGGACTAATGCA 60.391 55.000 6.32 0.00 28.17 3.96
137 138 0.390735 ACGAACCGGGACTAATGCAC 60.391 55.000 6.32 0.00 0.00 4.57
138 139 1.087771 CGAACCGGGACTAATGCACC 61.088 60.000 6.32 0.00 0.00 5.01
139 140 0.746923 GAACCGGGACTAATGCACCC 60.747 60.000 6.32 0.00 40.17 4.61
140 141 2.192175 CCGGGACTAATGCACCCC 59.808 66.667 3.84 2.39 40.43 4.95
141 142 2.675242 CCGGGACTAATGCACCCCA 61.675 63.158 3.84 0.00 40.43 4.96
142 143 1.531748 CGGGACTAATGCACCCCAT 59.468 57.895 3.84 0.00 40.43 4.00
143 144 0.106719 CGGGACTAATGCACCCCATT 60.107 55.000 3.84 0.00 45.75 3.16
144 145 1.402787 GGGACTAATGCACCCCATTG 58.597 55.000 0.00 0.00 43.77 2.82
145 146 1.402787 GGACTAATGCACCCCATTGG 58.597 55.000 0.00 0.00 43.77 3.16
154 155 2.044352 CCCCATTGGTCCCGGTTC 60.044 66.667 0.00 0.00 0.00 3.62
155 156 2.437716 CCCATTGGTCCCGGTTCG 60.438 66.667 0.00 0.00 0.00 3.95
156 157 2.349755 CCATTGGTCCCGGTTCGT 59.650 61.111 0.00 0.00 0.00 3.85
157 158 2.038269 CCATTGGTCCCGGTTCGTG 61.038 63.158 0.00 0.00 0.00 4.35
158 159 2.359478 ATTGGTCCCGGTTCGTGC 60.359 61.111 0.00 0.00 0.00 5.34
159 160 4.973055 TTGGTCCCGGTTCGTGCG 62.973 66.667 0.00 0.00 0.00 5.34
162 163 4.668118 GTCCCGGTTCGTGCGGAA 62.668 66.667 0.00 0.00 0.00 4.30
163 164 3.697747 TCCCGGTTCGTGCGGAAT 61.698 61.111 0.00 0.00 36.92 3.01
164 165 3.192922 CCCGGTTCGTGCGGAATC 61.193 66.667 0.00 0.00 36.92 2.52
167 168 3.192922 GGTTCGTGCGGAATCGGG 61.193 66.667 0.00 0.00 36.92 5.14
168 169 2.125832 GTTCGTGCGGAATCGGGA 60.126 61.111 0.00 0.00 36.92 5.14
169 170 2.125832 TTCGTGCGGAATCGGGAC 60.126 61.111 2.51 2.51 36.79 4.46
170 171 2.642254 TTCGTGCGGAATCGGGACT 61.642 57.895 10.31 0.00 36.79 3.85
171 172 1.314534 TTCGTGCGGAATCGGGACTA 61.315 55.000 10.31 0.00 36.79 2.59
172 173 1.140161 CGTGCGGAATCGGGACTAA 59.860 57.895 10.31 0.00 36.79 2.24
173 174 0.249322 CGTGCGGAATCGGGACTAAT 60.249 55.000 10.31 0.00 36.79 1.73
174 175 1.217882 GTGCGGAATCGGGACTAATG 58.782 55.000 5.28 0.00 36.79 1.90
175 176 0.105964 TGCGGAATCGGGACTAATGG 59.894 55.000 0.00 0.00 36.79 3.16
176 177 0.602905 GCGGAATCGGGACTAATGGG 60.603 60.000 0.00 0.00 36.79 4.00
177 178 0.602905 CGGAATCGGGACTAATGGGC 60.603 60.000 0.00 0.00 0.00 5.36
178 179 0.765510 GGAATCGGGACTAATGGGCT 59.234 55.000 0.00 0.00 0.00 5.19
179 180 1.543429 GGAATCGGGACTAATGGGCTG 60.543 57.143 0.00 0.00 0.00 4.85
180 181 0.474184 AATCGGGACTAATGGGCTGG 59.526 55.000 0.00 0.00 0.00 4.85
181 182 2.056906 ATCGGGACTAATGGGCTGGC 62.057 60.000 0.00 0.00 0.00 4.85
182 183 2.195956 GGGACTAATGGGCTGGCC 59.804 66.667 14.23 14.23 0.00 5.36
183 184 2.689691 GGGACTAATGGGCTGGCCA 61.690 63.158 26.08 26.08 37.98 5.36
184 185 1.152881 GGACTAATGGGCTGGCCAG 60.153 63.158 29.34 29.34 37.98 4.85
185 186 1.152881 GACTAATGGGCTGGCCAGG 60.153 63.158 33.46 20.55 37.98 4.45
202 203 4.699522 GCCCGAACGAAGCCCTGT 62.700 66.667 0.00 0.00 0.00 4.00
203 204 2.032071 CCCGAACGAAGCCCTGTT 59.968 61.111 0.00 0.00 0.00 3.16
204 205 1.599797 CCCGAACGAAGCCCTGTTT 60.600 57.895 0.00 0.00 0.00 2.83
205 206 1.170290 CCCGAACGAAGCCCTGTTTT 61.170 55.000 0.00 0.00 0.00 2.43
206 207 0.237498 CCGAACGAAGCCCTGTTTTC 59.763 55.000 0.00 0.00 0.00 2.29
207 208 1.226746 CGAACGAAGCCCTGTTTTCT 58.773 50.000 0.00 0.00 0.00 2.52
208 209 2.409975 CGAACGAAGCCCTGTTTTCTA 58.590 47.619 0.00 0.00 0.00 2.10
209 210 2.157085 CGAACGAAGCCCTGTTTTCTAC 59.843 50.000 0.00 0.00 0.00 2.59
210 211 3.400255 GAACGAAGCCCTGTTTTCTACT 58.600 45.455 0.00 0.00 0.00 2.57
211 212 4.563061 GAACGAAGCCCTGTTTTCTACTA 58.437 43.478 0.00 0.00 0.00 1.82
212 213 4.189639 ACGAAGCCCTGTTTTCTACTAG 57.810 45.455 0.00 0.00 0.00 2.57
213 214 3.577415 ACGAAGCCCTGTTTTCTACTAGT 59.423 43.478 0.00 0.00 0.00 2.57
214 215 3.927142 CGAAGCCCTGTTTTCTACTAGTG 59.073 47.826 5.39 0.00 0.00 2.74
271 272 1.201429 AATCCTGGACCTTGGCGACT 61.201 55.000 0.00 0.00 0.00 4.18
439 445 1.146041 GTGTGCAGGTGTGTCTCCA 59.854 57.895 0.00 0.00 0.00 3.86
457 463 2.034685 TCCAGCGGATCTTACGAGATTG 59.965 50.000 0.00 0.00 42.66 2.67
488 494 1.699083 TGTCTTTGGTGGATCTGCTCA 59.301 47.619 0.00 0.00 0.00 4.26
612 639 1.154263 CACGACGACTTCCCGACTC 60.154 63.158 0.00 0.00 0.00 3.36
876 908 1.875009 ACAGCAGTCGCATATCCATG 58.125 50.000 0.00 0.00 42.27 3.66
915 947 2.682856 GACGGACATACCAAACATGCAT 59.317 45.455 0.00 0.00 38.90 3.96
916 948 2.423185 ACGGACATACCAAACATGCATG 59.577 45.455 25.09 25.09 38.90 4.06
917 949 2.795681 CGGACATACCAAACATGCATGC 60.796 50.000 26.53 11.82 38.90 4.06
954 986 3.186409 TGTTTGCTTCATCTTGTACGAGC 59.814 43.478 5.12 0.00 0.00 5.03
955 987 3.319137 TTGCTTCATCTTGTACGAGCT 57.681 42.857 5.12 0.00 0.00 4.09
1098 1144 3.491581 CGAGTACTGTCGTGCCTTT 57.508 52.632 0.00 0.00 35.14 3.11
1146 1192 2.509336 GACATCCCTGACCGCGTG 60.509 66.667 4.92 0.00 0.00 5.34
1170 1216 4.637489 CTCGCCGGCCTCGATGAG 62.637 72.222 23.46 16.59 39.00 2.90
1208 1254 4.351938 CCCGCTCGACGTCACCAA 62.352 66.667 17.16 0.00 41.42 3.67
1657 1712 1.332144 GCAGTGGGGGATGTACCGTA 61.332 60.000 0.00 0.00 40.11 4.02
1788 1843 2.025727 CGGGAGATCGTGTACGGC 59.974 66.667 4.44 0.00 40.29 5.68
1925 1980 3.318875 CACGTCATGTGTGCACGT 58.681 55.556 13.13 3.90 43.88 4.49
1929 1984 1.067693 CGTCATGTGTGCACGTACAT 58.932 50.000 15.14 15.14 37.99 2.29
1964 2030 7.152645 ACGTATTCTGTATGGATTATGTGACC 58.847 38.462 0.00 0.00 0.00 4.02
2051 2120 4.648651 AGTGACTGGTGGGTATGTTTTAC 58.351 43.478 0.00 0.00 0.00 2.01
2127 2201 2.053627 CATCCACGCTTTTCAGTTTGC 58.946 47.619 0.00 0.00 0.00 3.68
2393 2508 6.914757 CGGATTTCATTTCTATTTTGGAGCTC 59.085 38.462 4.71 4.71 0.00 4.09
2564 2683 8.486383 TCTTTGCATGTTTTCATTATTGTTTCG 58.514 29.630 0.00 0.00 38.64 3.46
2567 2686 8.136057 TGCATGTTTTCATTATTGTTTCGTTT 57.864 26.923 0.00 0.00 38.64 3.60
2639 2759 9.289782 AGGGTTTATTATGCTATCTTTGTCATC 57.710 33.333 0.00 0.00 0.00 2.92
2640 2760 9.289782 GGGTTTATTATGCTATCTTTGTCATCT 57.710 33.333 0.00 0.00 0.00 2.90
2676 2796 2.128035 CACTCCAGTTTCACTGTCGTC 58.872 52.381 3.30 0.00 44.50 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 0.550914 TGGCCCATGACCATTAGTCC 59.449 55.000 0.00 0.00 45.68 3.85
5 6 1.477558 CCTGGCCCATGACCATTAGTC 60.478 57.143 0.00 0.00 46.51 2.59
7 8 0.178981 CCCTGGCCCATGACCATTAG 60.179 60.000 0.00 1.62 36.36 1.73
8 9 1.654137 CCCCTGGCCCATGACCATTA 61.654 60.000 0.00 0.00 36.36 1.90
9 10 2.691732 CCCTGGCCCATGACCATT 59.308 61.111 0.00 0.00 36.36 3.16
10 11 3.432335 CCCCTGGCCCATGACCAT 61.432 66.667 0.00 0.00 36.36 3.55
29 30 2.511600 CCGGGACCAATGCGTCTC 60.512 66.667 0.00 0.00 33.07 3.36
30 31 2.798148 GAACCGGGACCAATGCGTCT 62.798 60.000 6.32 0.00 33.07 4.18
31 32 2.359478 AACCGGGACCAATGCGTC 60.359 61.111 6.32 0.00 0.00 5.19
32 33 2.359478 GAACCGGGACCAATGCGT 60.359 61.111 6.32 0.00 0.00 5.24
33 34 3.496131 CGAACCGGGACCAATGCG 61.496 66.667 6.32 0.00 0.00 4.73
34 35 2.359478 ACGAACCGGGACCAATGC 60.359 61.111 6.32 0.00 0.00 3.56
35 36 2.686816 GCACGAACCGGGACCAATG 61.687 63.158 6.32 0.00 28.17 2.82
36 37 2.359478 GCACGAACCGGGACCAAT 60.359 61.111 6.32 0.00 28.17 3.16
37 38 4.973055 CGCACGAACCGGGACCAA 62.973 66.667 6.32 0.00 28.17 3.67
39 40 4.974989 AACGCACGAACCGGGACC 62.975 66.667 6.32 0.00 28.17 4.46
40 41 3.708734 CAACGCACGAACCGGGAC 61.709 66.667 6.32 0.00 28.17 4.46
41 42 3.442512 TTCAACGCACGAACCGGGA 62.443 57.895 6.32 0.00 28.17 5.14
42 43 2.968156 TTCAACGCACGAACCGGG 60.968 61.111 6.32 0.00 0.00 5.73
43 44 2.247267 GTTCAACGCACGAACCGG 59.753 61.111 0.00 0.00 37.40 5.28
46 47 2.247267 CCGGTTCAACGCACGAAC 59.753 61.111 0.00 4.15 41.66 3.95
47 48 2.968156 CCCGGTTCAACGCACGAA 60.968 61.111 0.00 0.00 0.00 3.85
48 49 3.914117 TCCCGGTTCAACGCACGA 61.914 61.111 0.00 0.00 0.00 4.35
49 50 3.708734 GTCCCGGTTCAACGCACG 61.709 66.667 0.00 0.00 0.00 5.34
50 51 3.351416 GGTCCCGGTTCAACGCAC 61.351 66.667 0.00 0.00 0.00 5.34
51 52 2.888464 TTTGGTCCCGGTTCAACGCA 62.888 55.000 0.00 0.00 0.00 5.24
52 53 1.726533 TTTTGGTCCCGGTTCAACGC 61.727 55.000 0.00 0.00 0.00 4.84
53 54 0.309612 CTTTTGGTCCCGGTTCAACG 59.690 55.000 0.00 0.00 0.00 4.10
54 55 0.671796 CCTTTTGGTCCCGGTTCAAC 59.328 55.000 0.00 0.00 34.07 3.18
55 56 3.119225 CCTTTTGGTCCCGGTTCAA 57.881 52.632 0.00 0.00 34.07 2.69
56 57 4.911901 CCTTTTGGTCCCGGTTCA 57.088 55.556 0.00 0.00 34.07 3.18
66 67 3.458287 CCGGTTCATCTGGACCTTTTGG 61.458 54.545 6.11 0.00 45.09 3.28
67 68 1.812571 CCGGTTCATCTGGACCTTTTG 59.187 52.381 6.11 0.00 45.09 2.44
68 69 1.271926 CCCGGTTCATCTGGACCTTTT 60.272 52.381 0.00 0.00 45.09 2.27
69 70 0.328258 CCCGGTTCATCTGGACCTTT 59.672 55.000 0.00 0.00 45.09 3.11
70 71 0.546747 TCCCGGTTCATCTGGACCTT 60.547 55.000 0.00 0.00 45.09 3.50
71 72 0.326618 ATCCCGGTTCATCTGGACCT 60.327 55.000 0.00 0.00 45.09 3.85
72 73 0.106894 GATCCCGGTTCATCTGGACC 59.893 60.000 0.00 0.00 45.09 4.46
73 74 0.830648 TGATCCCGGTTCATCTGGAC 59.169 55.000 0.00 0.00 45.09 4.02
74 75 1.123077 CTGATCCCGGTTCATCTGGA 58.877 55.000 0.00 0.00 45.09 3.86
75 76 0.833287 ACTGATCCCGGTTCATCTGG 59.167 55.000 0.00 0.00 42.06 3.86
76 77 1.473965 CCACTGATCCCGGTTCATCTG 60.474 57.143 0.00 5.73 0.00 2.90
77 78 0.833287 CCACTGATCCCGGTTCATCT 59.167 55.000 0.00 0.00 0.00 2.90
78 79 0.815615 GCCACTGATCCCGGTTCATC 60.816 60.000 0.00 0.00 0.00 2.92
79 80 1.224592 GCCACTGATCCCGGTTCAT 59.775 57.895 0.00 0.00 0.00 2.57
80 81 2.668632 GCCACTGATCCCGGTTCA 59.331 61.111 0.00 2.03 0.00 3.18
81 82 2.124695 GGCCACTGATCCCGGTTC 60.125 66.667 0.00 0.00 0.00 3.62
82 83 3.728373 GGGCCACTGATCCCGGTT 61.728 66.667 4.39 0.00 32.00 4.44
107 108 4.410400 GGTTCGTGAGCCCAGGGG 62.410 72.222 7.91 3.48 38.57 4.79
108 109 4.760047 CGGTTCGTGAGCCCAGGG 62.760 72.222 0.00 0.00 0.00 4.45
109 110 4.760047 CCGGTTCGTGAGCCCAGG 62.760 72.222 0.00 0.00 0.00 4.45
110 111 4.760047 CCCGGTTCGTGAGCCCAG 62.760 72.222 0.00 0.00 0.00 4.45
112 113 4.754667 GTCCCGGTTCGTGAGCCC 62.755 72.222 0.00 0.00 0.00 5.19
113 114 1.880819 TTAGTCCCGGTTCGTGAGCC 61.881 60.000 0.00 0.00 0.00 4.70
114 115 0.175073 ATTAGTCCCGGTTCGTGAGC 59.825 55.000 0.00 0.00 0.00 4.26
115 116 1.922570 CATTAGTCCCGGTTCGTGAG 58.077 55.000 0.00 0.00 0.00 3.51
116 117 0.108520 GCATTAGTCCCGGTTCGTGA 60.109 55.000 0.00 0.00 0.00 4.35
117 118 0.390603 TGCATTAGTCCCGGTTCGTG 60.391 55.000 0.00 0.00 0.00 4.35
118 119 0.390735 GTGCATTAGTCCCGGTTCGT 60.391 55.000 0.00 0.00 0.00 3.85
119 120 1.087771 GGTGCATTAGTCCCGGTTCG 61.088 60.000 0.00 0.00 0.00 3.95
120 121 0.746923 GGGTGCATTAGTCCCGGTTC 60.747 60.000 0.00 0.00 0.00 3.62
121 122 1.301954 GGGTGCATTAGTCCCGGTT 59.698 57.895 0.00 0.00 0.00 4.44
122 123 2.676265 GGGGTGCATTAGTCCCGGT 61.676 63.158 0.00 0.00 41.92 5.28
123 124 1.994885 ATGGGGTGCATTAGTCCCGG 61.995 60.000 0.00 0.00 42.20 5.73
124 125 0.106719 AATGGGGTGCATTAGTCCCG 60.107 55.000 3.40 0.00 42.20 5.14
125 126 1.402787 CAATGGGGTGCATTAGTCCC 58.597 55.000 0.54 0.54 40.41 4.46
126 127 1.402787 CCAATGGGGTGCATTAGTCC 58.597 55.000 0.00 0.00 0.00 3.85
137 138 2.044352 GAACCGGGACCAATGGGG 60.044 66.667 6.32 0.00 44.81 4.96
138 139 2.437716 CGAACCGGGACCAATGGG 60.438 66.667 6.32 0.00 41.29 4.00
139 140 2.038269 CACGAACCGGGACCAATGG 61.038 63.158 6.32 0.00 28.17 3.16
140 141 2.686816 GCACGAACCGGGACCAATG 61.687 63.158 6.32 0.00 28.17 2.82
141 142 2.359478 GCACGAACCGGGACCAAT 60.359 61.111 6.32 0.00 28.17 3.16
142 143 4.973055 CGCACGAACCGGGACCAA 62.973 66.667 6.32 0.00 28.17 3.67
145 146 3.945304 ATTCCGCACGAACCGGGAC 62.945 63.158 6.32 0.00 45.60 4.46
146 147 3.652539 GATTCCGCACGAACCGGGA 62.653 63.158 6.32 5.22 45.60 5.14
147 148 3.192922 GATTCCGCACGAACCGGG 61.193 66.667 6.32 0.00 45.60 5.73
148 149 3.550992 CGATTCCGCACGAACCGG 61.551 66.667 0.00 0.00 46.88 5.28
149 150 3.550992 CCGATTCCGCACGAACCG 61.551 66.667 0.00 0.00 37.23 4.44
150 151 3.192922 CCCGATTCCGCACGAACC 61.193 66.667 0.00 0.00 31.79 3.62
151 152 2.125832 TCCCGATTCCGCACGAAC 60.126 61.111 0.00 0.00 31.79 3.95
152 153 1.314534 TAGTCCCGATTCCGCACGAA 61.315 55.000 0.00 0.00 34.14 3.85
153 154 1.314534 TTAGTCCCGATTCCGCACGA 61.315 55.000 0.00 0.00 0.00 4.35
154 155 0.249322 ATTAGTCCCGATTCCGCACG 60.249 55.000 0.00 0.00 0.00 5.34
155 156 1.217882 CATTAGTCCCGATTCCGCAC 58.782 55.000 0.00 0.00 0.00 5.34
156 157 0.105964 CCATTAGTCCCGATTCCGCA 59.894 55.000 0.00 0.00 0.00 5.69
157 158 0.602905 CCCATTAGTCCCGATTCCGC 60.603 60.000 0.00 0.00 0.00 5.54
158 159 0.602905 GCCCATTAGTCCCGATTCCG 60.603 60.000 0.00 0.00 0.00 4.30
159 160 0.765510 AGCCCATTAGTCCCGATTCC 59.234 55.000 0.00 0.00 0.00 3.01
160 161 1.543429 CCAGCCCATTAGTCCCGATTC 60.543 57.143 0.00 0.00 0.00 2.52
161 162 0.474184 CCAGCCCATTAGTCCCGATT 59.526 55.000 0.00 0.00 0.00 3.34
162 163 2.056906 GCCAGCCCATTAGTCCCGAT 62.057 60.000 0.00 0.00 0.00 4.18
163 164 2.742116 GCCAGCCCATTAGTCCCGA 61.742 63.158 0.00 0.00 0.00 5.14
164 165 2.203209 GCCAGCCCATTAGTCCCG 60.203 66.667 0.00 0.00 0.00 5.14
165 166 2.195956 GGCCAGCCCATTAGTCCC 59.804 66.667 0.00 0.00 0.00 4.46
166 167 1.152881 CTGGCCAGCCCATTAGTCC 60.153 63.158 22.33 0.00 44.33 3.85
167 168 1.152881 CCTGGCCAGCCCATTAGTC 60.153 63.158 28.39 0.00 44.33 2.59
168 169 3.010144 CCTGGCCAGCCCATTAGT 58.990 61.111 28.39 0.00 44.33 2.24
169 170 2.520260 GCCTGGCCAGCCCATTAG 60.520 66.667 28.39 12.86 44.33 1.73
185 186 4.699522 ACAGGGCTTCGTTCGGGC 62.700 66.667 0.00 0.00 0.00 6.13
186 187 1.170290 AAAACAGGGCTTCGTTCGGG 61.170 55.000 0.00 0.00 0.00 5.14
187 188 0.237498 GAAAACAGGGCTTCGTTCGG 59.763 55.000 0.00 0.00 0.00 4.30
188 189 1.226746 AGAAAACAGGGCTTCGTTCG 58.773 50.000 0.00 0.00 0.00 3.95
189 190 3.400255 AGTAGAAAACAGGGCTTCGTTC 58.600 45.455 0.00 0.00 0.00 3.95
190 191 3.487120 AGTAGAAAACAGGGCTTCGTT 57.513 42.857 0.00 0.00 0.00 3.85
191 192 3.577415 ACTAGTAGAAAACAGGGCTTCGT 59.423 43.478 3.59 0.00 0.00 3.85
192 193 3.927142 CACTAGTAGAAAACAGGGCTTCG 59.073 47.826 3.59 0.00 0.00 3.79
193 194 3.685272 GCACTAGTAGAAAACAGGGCTTC 59.315 47.826 3.59 0.00 34.64 3.86
194 195 3.072476 TGCACTAGTAGAAAACAGGGCTT 59.928 43.478 3.59 0.00 36.89 4.35
195 196 2.637872 TGCACTAGTAGAAAACAGGGCT 59.362 45.455 3.59 0.00 36.89 5.19
196 197 2.742589 GTGCACTAGTAGAAAACAGGGC 59.257 50.000 10.32 0.00 36.65 5.19
197 198 4.021016 AGAGTGCACTAGTAGAAAACAGGG 60.021 45.833 21.73 0.00 0.00 4.45
198 199 5.140747 AGAGTGCACTAGTAGAAAACAGG 57.859 43.478 21.73 0.00 0.00 4.00
199 200 6.451393 AGAAGAGTGCACTAGTAGAAAACAG 58.549 40.000 21.73 0.00 0.00 3.16
200 201 6.406692 AGAAGAGTGCACTAGTAGAAAACA 57.593 37.500 21.73 0.00 0.00 2.83
201 202 7.489757 CCATAGAAGAGTGCACTAGTAGAAAAC 59.510 40.741 21.73 3.59 0.00 2.43
202 203 7.178628 ACCATAGAAGAGTGCACTAGTAGAAAA 59.821 37.037 21.73 1.13 0.00 2.29
203 204 6.663953 ACCATAGAAGAGTGCACTAGTAGAAA 59.336 38.462 21.73 2.73 0.00 2.52
204 205 6.188407 ACCATAGAAGAGTGCACTAGTAGAA 58.812 40.000 21.73 4.49 0.00 2.10
205 206 5.756918 ACCATAGAAGAGTGCACTAGTAGA 58.243 41.667 21.73 6.00 0.00 2.59
206 207 5.277586 CGACCATAGAAGAGTGCACTAGTAG 60.278 48.000 21.73 6.25 0.00 2.57
207 208 4.575236 CGACCATAGAAGAGTGCACTAGTA 59.425 45.833 21.73 9.25 0.00 1.82
208 209 3.378742 CGACCATAGAAGAGTGCACTAGT 59.621 47.826 21.73 10.74 0.00 2.57
209 210 3.378742 ACGACCATAGAAGAGTGCACTAG 59.621 47.826 21.73 3.90 0.00 2.57
210 211 3.353557 ACGACCATAGAAGAGTGCACTA 58.646 45.455 21.73 3.56 0.00 2.74
211 212 2.171840 ACGACCATAGAAGAGTGCACT 58.828 47.619 21.88 21.88 0.00 4.40
212 213 2.656560 ACGACCATAGAAGAGTGCAC 57.343 50.000 9.40 9.40 0.00 4.57
213 214 2.688446 CCTACGACCATAGAAGAGTGCA 59.312 50.000 0.00 0.00 0.00 4.57
214 215 2.034812 CCCTACGACCATAGAAGAGTGC 59.965 54.545 0.00 0.00 0.00 4.40
257 258 2.525629 TCCAGTCGCCAAGGTCCA 60.526 61.111 0.00 0.00 0.00 4.02
349 355 7.228308 GGGAGAACATTATTCCATCTTCAAGAG 59.772 40.741 0.00 0.00 32.50 2.85
412 418 4.742201 CCTGCACACGTCCTCCGG 62.742 72.222 0.00 0.00 42.24 5.14
419 425 1.227263 GAGACACACCTGCACACGT 60.227 57.895 0.00 0.00 0.00 4.49
426 432 1.892819 ATCCGCTGGAGACACACCTG 61.893 60.000 3.76 0.00 34.05 4.00
457 463 1.170290 CCAAAGACAACCACCGACCC 61.170 60.000 0.00 0.00 0.00 4.46
488 494 1.343465 ACACGAACAAAGACCGGATCT 59.657 47.619 9.46 4.30 40.46 2.75
529 555 5.007136 CGCCAATGAAGAGAAGTTTAGATCC 59.993 44.000 0.00 0.00 0.00 3.36
612 639 3.746492 GGGCACAAGTTGTTGTAGTAGAG 59.254 47.826 5.57 0.00 45.57 2.43
802 834 4.378459 CCGGCATTTGTCTGAACTCTTTAC 60.378 45.833 0.00 0.00 0.00 2.01
803 835 3.751175 CCGGCATTTGTCTGAACTCTTTA 59.249 43.478 0.00 0.00 0.00 1.85
876 908 0.032130 TCGAGGACGGAATATGCAGC 59.968 55.000 0.00 0.00 40.21 5.25
915 947 4.873810 ACCACTGCTGTTGGCGCA 62.874 61.111 10.83 0.00 45.43 6.09
916 948 4.332637 CACCACTGCTGTTGGCGC 62.333 66.667 0.00 0.00 45.43 6.53
917 949 2.003658 AAACACCACTGCTGTTGGCG 62.004 55.000 10.60 5.74 45.43 5.69
928 960 3.715628 ACAAGATGAAGCAAACACCAC 57.284 42.857 0.00 0.00 0.00 4.16
1068 1114 0.750546 AGTACTCGTAGCCGATGCCA 60.751 55.000 0.00 0.00 43.27 4.92
1170 1216 2.494591 GCGATCAACGACGACGGTC 61.495 63.158 12.58 0.00 45.77 4.79
1207 1253 4.681978 GGTCACGCTGGCCTCGTT 62.682 66.667 18.51 4.57 39.55 3.85
1467 1513 4.849329 GACGCGCAGTAGACCCCG 62.849 72.222 5.73 0.00 0.00 5.73
1624 1679 2.746671 CTGCTGCTGCTGTCCCTG 60.747 66.667 17.00 0.00 40.48 4.45
1625 1680 3.247648 ACTGCTGCTGCTGTCCCT 61.248 61.111 19.90 0.49 46.06 4.20
1632 1687 4.437587 ATCCCCCACTGCTGCTGC 62.438 66.667 8.89 8.89 40.20 5.25
1633 1688 1.913951 TACATCCCCCACTGCTGCTG 61.914 60.000 4.89 4.89 0.00 4.41
1634 1689 1.616327 TACATCCCCCACTGCTGCT 60.616 57.895 0.00 0.00 0.00 4.24
1635 1690 1.452108 GTACATCCCCCACTGCTGC 60.452 63.158 0.00 0.00 0.00 5.25
1657 1712 2.813908 GATCGCCGCCGTGAACTT 60.814 61.111 0.00 0.00 35.54 2.66
1925 1980 7.770366 ACAGAATACGTATCCCATACATGTA 57.230 36.000 8.86 8.27 35.48 2.29
1929 1984 6.949463 TCCATACAGAATACGTATCCCATACA 59.051 38.462 8.86 0.00 35.48 2.29
1946 2001 5.624159 ACATGGGTCACATAATCCATACAG 58.376 41.667 0.00 0.00 37.84 2.74
2075 2146 1.145738 ACTCTTGTGGGCTGGTTCAAT 59.854 47.619 0.00 0.00 0.00 2.57
2084 2155 5.221722 TGGATGAGATATAACTCTTGTGGGC 60.222 44.000 10.93 0.00 37.73 5.36
2676 2796 6.738832 AACTCATGTGAAATGTGAGATGAG 57.261 37.500 7.79 7.79 41.38 2.90


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

AutoCloner maintained by Alex Coulton.