Multiple sequence alignment - TraesCS5D01G569300

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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 TraesCS5D01G569300 chr5D 100.000 3386 0 0 1 3386 565787714 565784329 0.000000e+00 6253.0
1 TraesCS5D01G569300 chr5D 84.659 176 22 3 4 179 476790977 476790807 1.620000e-38 171.0
2 TraesCS5D01G569300 chr4A 92.768 1756 99 11 790 2521 607309037 607310788 0.000000e+00 2514.0
3 TraesCS5D01G569300 chr4A 86.445 391 15 16 2744 3130 607314301 607314657 8.810000e-106 394.0
4 TraesCS5D01G569300 chr4A 86.158 354 25 6 390 722 607305739 607306089 8.930000e-96 361.0
5 TraesCS5D01G569300 chr4A 90.110 182 11 4 2567 2743 607311727 607311906 2.630000e-56 230.0
6 TraesCS5D01G569300 chr4A 83.938 193 23 8 3156 3343 72289830 72289641 9.650000e-41 178.0
7 TraesCS5D01G569300 chrUn 92.787 1622 86 16 790 2390 67470806 67469195 0.000000e+00 2318.0
8 TraesCS5D01G569300 chrUn 82.838 437 60 13 161 589 201297658 201297229 8.870000e-101 377.0
9 TraesCS5D01G569300 chrUn 100.000 29 0 0 749 777 67470863 67470835 2.000000e-03 54.7
10 TraesCS5D01G569300 chr2A 88.784 1480 128 15 886 2352 211459905 211461359 0.000000e+00 1779.0
11 TraesCS5D01G569300 chr2A 81.391 1467 200 43 920 2346 210751198 210749765 0.000000e+00 1129.0
12 TraesCS5D01G569300 chr2A 84.507 497 74 3 1396 1891 211695183 211694689 3.930000e-134 488.0
13 TraesCS5D01G569300 chr2A 81.022 137 25 1 946 1081 211695590 211695454 1.280000e-19 108.0
14 TraesCS5D01G569300 chr2D 88.851 1462 130 7 892 2352 195995110 195996539 0.000000e+00 1766.0
15 TraesCS5D01G569300 chr2D 81.105 1466 206 41 920 2346 195423283 195421850 0.000000e+00 1107.0
16 TraesCS5D01G569300 chr2D 85.396 493 66 5 1402 1891 196131013 196130524 1.080000e-139 507.0
17 TraesCS5D01G569300 chr2D 86.510 341 46 0 1993 2333 196002534 196002874 3.190000e-100 375.0
18 TraesCS5D01G569300 chr2D 83.212 137 22 1 946 1081 196131425 196131289 1.280000e-24 124.0
19 TraesCS5D01G569300 chr2B 80.848 1462 200 43 920 2346 251771573 251770157 0.000000e+00 1075.0
20 TraesCS5D01G569300 chr2B 92.000 50 3 1 2543 2591 432911146 432911097 6.060000e-08 69.4
21 TraesCS5D01G569300 chr5B 90.300 701 48 9 1941 2624 707391216 707391913 0.000000e+00 900.0
22 TraesCS5D01G569300 chr5B 87.768 654 42 21 1947 2588 707359649 707359022 0.000000e+00 730.0
23 TraesCS5D01G569300 chr5B 91.129 496 29 6 790 1280 707360154 707359669 0.000000e+00 658.0
24 TraesCS5D01G569300 chr5B 82.178 707 77 17 1 669 707377304 707376609 2.280000e-156 562.0
25 TraesCS5D01G569300 chr5B 87.571 177 16 4 3 175 707375417 707375243 2.060000e-47 200.0
26 TraesCS5D01G569300 chr5B 100.000 29 0 0 749 777 707360211 707360183 2.000000e-03 54.7
27 TraesCS5D01G569300 chr7A 77.654 895 147 32 1005 1880 680629848 680628988 2.350000e-136 496.0
28 TraesCS5D01G569300 chr7A 83.448 435 61 9 161 589 35247613 35247184 8.810000e-106 394.0
29 TraesCS5D01G569300 chr7A 83.218 435 62 9 161 589 35283741 35283312 4.100000e-104 388.0
30 TraesCS5D01G569300 chr7A 81.432 377 64 6 218 589 13786478 13786103 1.530000e-78 303.0
31 TraesCS5D01G569300 chr7A 75.691 181 30 13 2501 2674 550051568 550051741 1.010000e-10 78.7
32 TraesCS5D01G569300 chr3B 85.504 407 46 10 161 560 60406652 60407052 2.430000e-111 412.0
33 TraesCS5D01G569300 chr3D 79.352 586 84 20 25 582 7068212 7067636 8.870000e-101 377.0
34 TraesCS5D01G569300 chr3D 78.695 521 75 17 1 517 519874125 519874613 7.050000e-82 315.0
35 TraesCS5D01G569300 chr3D 85.876 177 18 5 3 179 519874022 519874191 7.460000e-42 182.0
36 TraesCS5D01G569300 chr3D 84.153 183 20 7 1 179 587710417 587710240 5.810000e-38 169.0
37 TraesCS5D01G569300 chr6B 79.599 299 52 6 258 553 277649637 277649345 4.430000e-49 206.0
38 TraesCS5D01G569300 chr3A 78.549 317 54 12 187 500 523593324 523593019 2.670000e-46 196.0
39 TraesCS5D01G569300 chr7D 78.161 348 45 14 10 356 13182223 13181906 3.450000e-45 193.0
40 TraesCS5D01G569300 chr7D 80.162 247 42 5 73 318 461123158 461122918 9.650000e-41 178.0
41 TraesCS5D01G569300 chr1A 83.708 178 22 3 3 179 502526445 502526274 9.720000e-36 161.0


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 TraesCS5D01G569300 chr5D 565784329 565787714 3385 True 6253.00 6253 100.000000 1 3386 1 chr5D.!!$R2 3385
1 TraesCS5D01G569300 chr4A 607305739 607314657 8918 False 874.75 2514 88.870250 390 3130 4 chr4A.!!$F1 2740
2 TraesCS5D01G569300 chrUn 67469195 67470863 1668 True 1186.35 2318 96.393500 749 2390 2 chrUn.!!$R2 1641
3 TraesCS5D01G569300 chr2A 211459905 211461359 1454 False 1779.00 1779 88.784000 886 2352 1 chr2A.!!$F1 1466
4 TraesCS5D01G569300 chr2A 210749765 210751198 1433 True 1129.00 1129 81.391000 920 2346 1 chr2A.!!$R1 1426
5 TraesCS5D01G569300 chr2A 211694689 211695590 901 True 298.00 488 82.764500 946 1891 2 chr2A.!!$R2 945
6 TraesCS5D01G569300 chr2D 195995110 195996539 1429 False 1766.00 1766 88.851000 892 2352 1 chr2D.!!$F1 1460
7 TraesCS5D01G569300 chr2D 195421850 195423283 1433 True 1107.00 1107 81.105000 920 2346 1 chr2D.!!$R1 1426
8 TraesCS5D01G569300 chr2D 196130524 196131425 901 True 315.50 507 84.304000 946 1891 2 chr2D.!!$R2 945
9 TraesCS5D01G569300 chr2B 251770157 251771573 1416 True 1075.00 1075 80.848000 920 2346 1 chr2B.!!$R1 1426
10 TraesCS5D01G569300 chr5B 707391216 707391913 697 False 900.00 900 90.300000 1941 2624 1 chr5B.!!$F1 683
11 TraesCS5D01G569300 chr5B 707359022 707360211 1189 True 480.90 730 92.965667 749 2588 3 chr5B.!!$R1 1839
12 TraesCS5D01G569300 chr5B 707375243 707377304 2061 True 381.00 562 84.874500 1 669 2 chr5B.!!$R2 668
13 TraesCS5D01G569300 chr7A 680628988 680629848 860 True 496.00 496 77.654000 1005 1880 1 chr7A.!!$R4 875
14 TraesCS5D01G569300 chr3D 7067636 7068212 576 True 377.00 377 79.352000 25 582 1 chr3D.!!$R1 557
15 TraesCS5D01G569300 chr3D 519874022 519874613 591 False 248.50 315 82.285500 1 517 2 chr3D.!!$F1 516

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
836 3412 0.042131 ATCAAGGGGGAGGACGTACA 59.958 55.0 0.00 0.0 0.00 2.90 F
916 3493 0.386838 ACTTGCCAAAGACAAGCAGC 59.613 50.0 3.52 0.0 46.81 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1926 4875 0.168348 CCTCGTCTGTGTCGGTGTAG 59.832 60.0 0.0 0.0 0.0 2.74 R
2672 6753 0.179040 GGTTTCGTCCCTCCACACAA 60.179 55.0 0.0 0.0 0.0 3.33 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
179 181 3.909258 TTTCGCGAGAGGCACGGTC 62.909 63.158 9.59 0.00 43.84 4.79
197 244 1.981533 GTCGTACCTTCTCGAAAACGG 59.018 52.381 0.00 0.00 37.81 4.44
203 250 5.333568 CGTACCTTCTCGAAAACGGAAAAAT 60.334 40.000 0.00 0.00 0.00 1.82
204 251 6.128849 CGTACCTTCTCGAAAACGGAAAAATA 60.129 38.462 0.00 0.00 0.00 1.40
205 252 6.622833 ACCTTCTCGAAAACGGAAAAATAA 57.377 33.333 0.00 0.00 0.00 1.40
206 253 7.210718 ACCTTCTCGAAAACGGAAAAATAAT 57.789 32.000 0.00 0.00 0.00 1.28
244 353 2.613026 TTTCTTTCACGAGAGGCACA 57.387 45.000 0.00 0.00 0.00 4.57
250 359 1.581934 TCACGAGAGGCACAGTTTTG 58.418 50.000 0.00 0.00 0.00 2.44
256 365 1.133668 AGAGGCACAGTTTTGCTTCCT 60.134 47.619 3.83 0.00 46.96 3.36
261 370 2.213499 CACAGTTTTGCTTCCTCGAGT 58.787 47.619 12.31 0.00 0.00 4.18
414 1968 9.906660 GTGAGATCTAGTTTTGAAGATATCGAT 57.093 33.333 2.16 2.16 33.29 3.59
425 1979 6.457851 TGAAGATATCGATGCAAGAAATCG 57.542 37.500 8.54 0.20 46.47 3.34
472 2026 4.624024 TGAACGCACGGTTTAAGAGATAAG 59.376 41.667 0.00 0.00 39.50 1.73
606 2177 6.414109 CGATTAGTGATTTCGAGTGACGTTAT 59.586 38.462 0.00 0.00 43.13 1.89
608 2179 5.763444 AGTGATTTCGAGTGACGTTATTG 57.237 39.130 0.00 0.00 43.13 1.90
609 2180 5.227908 AGTGATTTCGAGTGACGTTATTGT 58.772 37.500 0.00 0.00 43.13 2.71
697 2275 2.879813 GAAATCGCCCGGCCCAGTAA 62.880 60.000 3.10 0.00 0.00 2.24
703 2281 1.378119 CCCGGCCCAGTAAAAGTCC 60.378 63.158 0.00 0.00 0.00 3.85
709 2287 1.519408 CCCAGTAAAAGTCCGTGTGG 58.481 55.000 0.00 0.00 0.00 4.17
743 2345 1.064505 CGTAGAGCCGTTTCCGTATCA 59.935 52.381 0.00 0.00 0.00 2.15
745 2347 2.510768 AGAGCCGTTTCCGTATCATC 57.489 50.000 0.00 0.00 0.00 2.92
808 3378 6.876257 AGTTGGTTCTTCTTCTGCAATACTAG 59.124 38.462 0.00 0.00 0.00 2.57
836 3412 0.042131 ATCAAGGGGGAGGACGTACA 59.958 55.000 0.00 0.00 0.00 2.90
849 3425 1.260561 GACGTACACTGGCAACACAAG 59.739 52.381 0.00 0.00 46.17 3.16
883 3459 3.367025 CGATCGAAACAAGTCCTTGGTAC 59.633 47.826 10.26 0.00 40.05 3.34
884 3460 2.746269 TCGAAACAAGTCCTTGGTACG 58.254 47.619 11.45 11.91 40.05 3.67
895 3472 2.225068 CTTGGTACGTAGCCATGGAG 57.775 55.000 18.40 10.12 35.71 3.86
897 3474 2.440517 TGGTACGTAGCCATGGAGTA 57.559 50.000 18.40 10.59 0.00 2.59
915 3492 2.880890 AGTACTTGCCAAAGACAAGCAG 59.119 45.455 3.52 0.00 46.81 4.24
916 3493 0.386838 ACTTGCCAAAGACAAGCAGC 59.613 50.000 3.52 0.00 46.81 5.25
1393 4013 2.668280 GGCAACGACGGCAAGAGTC 61.668 63.158 0.00 0.00 35.41 3.36
1650 4291 1.237285 GCTTCCTCAAGCGCAAGGAA 61.237 55.000 27.02 27.02 45.67 3.36
1944 4911 0.873054 ACTACACCGACACAGACGAG 59.127 55.000 0.00 0.00 0.00 4.18
1949 4922 2.176055 CGACACAGACGAGGACGG 59.824 66.667 0.00 0.00 44.46 4.79
2227 5321 2.740256 GCTCTCTTCCCGGAGATTCAAC 60.740 54.545 0.73 0.00 40.92 3.18
2300 5400 1.796749 GGAGTGAAGACGTCGACGC 60.797 63.158 35.92 27.05 44.43 5.19
2379 5483 2.347292 GCAGAACGACGGCATAATAACG 60.347 50.000 0.00 0.00 39.38 3.18
2380 5484 2.217847 CAGAACGACGGCATAATAACGG 59.782 50.000 0.00 0.00 0.00 4.44
2396 5504 2.490148 CGGGATAGCAGAGTCGCCA 61.490 63.158 3.79 0.00 0.00 5.69
2535 5734 9.052365 AGTCTAGATAGGAAAAGACAAGGAAAT 57.948 33.333 0.00 0.00 40.65 2.17
2545 5883 7.910162 GGAAAAGACAAGGAAATTTTTGCTTTC 59.090 33.333 16.51 14.26 44.83 2.62
2595 6676 5.661503 TTTGGATATGAATAGGGAGGCAA 57.338 39.130 0.00 0.00 0.00 4.52
2761 9239 7.212274 ACGTCTAGTATGTTAAAACACAAGGT 58.788 34.615 0.00 0.00 42.51 3.50
2765 9243 9.616156 TCTAGTATGTTAAAACACAAGGTTGAA 57.384 29.630 0.00 0.00 42.51 2.69
2766 9244 9.878599 CTAGTATGTTAAAACACAAGGTTGAAG 57.121 33.333 0.00 0.00 42.51 3.02
2773 9251 9.069078 GTTAAAACACAAGGTTGAAGAAAGTAC 57.931 33.333 0.00 0.00 40.35 2.73
2774 9252 7.462571 AAAACACAAGGTTGAAGAAAGTACT 57.537 32.000 0.00 0.00 40.35 2.73
2775 9253 6.436843 AACACAAGGTTGAAGAAAGTACTG 57.563 37.500 0.00 0.00 38.60 2.74
2776 9254 4.335594 ACACAAGGTTGAAGAAAGTACTGC 59.664 41.667 0.00 0.00 0.00 4.40
2777 9255 4.335315 CACAAGGTTGAAGAAAGTACTGCA 59.665 41.667 0.00 0.00 0.00 4.41
2778 9256 5.009010 CACAAGGTTGAAGAAAGTACTGCAT 59.991 40.000 0.00 0.00 0.00 3.96
2779 9257 6.204688 CACAAGGTTGAAGAAAGTACTGCATA 59.795 38.462 0.00 0.00 0.00 3.14
2800 9278 2.550830 ATTAGGCATAAGCGAGGTGG 57.449 50.000 0.00 0.00 43.41 4.61
2816 9294 1.679977 TGGCCGCCTTACGTCTAGT 60.680 57.895 11.61 0.00 41.42 2.57
2821 9299 2.793933 GCCGCCTTACGTCTAGTTGTAG 60.794 54.545 0.00 0.00 41.42 2.74
2822 9300 2.421424 CCGCCTTACGTCTAGTTGTAGT 59.579 50.000 0.00 0.00 41.42 2.73
2823 9301 3.623060 CCGCCTTACGTCTAGTTGTAGTA 59.377 47.826 0.00 0.00 41.42 1.82
2824 9302 4.494855 CCGCCTTACGTCTAGTTGTAGTAC 60.495 50.000 0.00 0.00 41.42 2.73
2862 9340 9.823647 CAATGTACCTTAACTAGACATCAGAAT 57.176 33.333 0.00 0.00 30.55 2.40
2866 9344 9.733219 GTACCTTAACTAGACATCAGAATGTAC 57.267 37.037 0.00 0.00 46.20 2.90
2867 9345 7.481642 ACCTTAACTAGACATCAGAATGTACG 58.518 38.462 0.00 0.00 46.20 3.67
2868 9346 7.122353 ACCTTAACTAGACATCAGAATGTACGT 59.878 37.037 0.00 0.00 46.20 3.57
2869 9347 8.618677 CCTTAACTAGACATCAGAATGTACGTA 58.381 37.037 0.00 0.00 46.20 3.57
2870 9348 9.435802 CTTAACTAGACATCAGAATGTACGTAC 57.564 37.037 18.90 18.90 46.20 3.67
2884 9362 9.190858 AGAATGTACGTACGTTAAAACACAATA 57.809 29.630 28.32 3.44 35.69 1.90
2894 9372 6.852345 ACGTTAAAACACAATATTGACGTTCC 59.148 34.615 22.16 11.21 43.66 3.62
2952 9430 2.286184 CGATTAACCGAAAATGGGAGCG 60.286 50.000 0.00 0.00 0.00 5.03
2959 9437 2.418197 CCGAAAATGGGAGCGACTCTAA 60.418 50.000 6.78 0.00 0.00 2.10
2971 9449 3.607209 AGCGACTCTAAATCGAACGTTTC 59.393 43.478 0.46 0.00 42.25 2.78
2973 9451 4.164294 CGACTCTAAATCGAACGTTTCCT 58.836 43.478 0.46 0.00 42.25 3.36
3022 9503 1.257675 CAAAAACGAAAAAGGCCAGCG 59.742 47.619 5.01 3.11 0.00 5.18
3048 9529 4.287585 ACCCAATTACCTACTGTTGCACTA 59.712 41.667 0.00 0.00 0.00 2.74
3049 9530 5.221966 ACCCAATTACCTACTGTTGCACTAA 60.222 40.000 0.00 0.00 0.00 2.24
3051 9532 6.207810 CCCAATTACCTACTGTTGCACTAAAA 59.792 38.462 0.00 0.00 0.00 1.52
3054 9535 8.564574 CAATTACCTACTGTTGCACTAAAAAGA 58.435 33.333 0.00 0.00 0.00 2.52
3055 9536 8.685838 ATTACCTACTGTTGCACTAAAAAGAA 57.314 30.769 0.00 0.00 0.00 2.52
3056 9537 6.619801 ACCTACTGTTGCACTAAAAAGAAG 57.380 37.500 0.00 0.00 0.00 2.85
3057 9538 6.120220 ACCTACTGTTGCACTAAAAAGAAGT 58.880 36.000 0.00 0.00 0.00 3.01
3058 9539 6.260271 ACCTACTGTTGCACTAAAAAGAAGTC 59.740 38.462 0.00 0.00 0.00 3.01
3059 9540 5.500645 ACTGTTGCACTAAAAAGAAGTCC 57.499 39.130 0.00 0.00 0.00 3.85
3124 9605 9.649024 CTTGCAAAACAAAAACGAATGATTTAT 57.351 25.926 0.00 0.00 37.96 1.40
3180 9661 6.747414 ATATAAAGGAATTTTTCAGCCCCC 57.253 37.500 0.00 0.00 0.00 5.40
3181 9662 2.414250 AAGGAATTTTTCAGCCCCCA 57.586 45.000 0.00 0.00 0.00 4.96
3182 9663 1.644509 AGGAATTTTTCAGCCCCCAC 58.355 50.000 0.00 0.00 0.00 4.61
3183 9664 0.613260 GGAATTTTTCAGCCCCCACC 59.387 55.000 0.00 0.00 0.00 4.61
3184 9665 0.613260 GAATTTTTCAGCCCCCACCC 59.387 55.000 0.00 0.00 0.00 4.61
3185 9666 1.191489 AATTTTTCAGCCCCCACCCG 61.191 55.000 0.00 0.00 0.00 5.28
3186 9667 2.087857 ATTTTTCAGCCCCCACCCGA 62.088 55.000 0.00 0.00 0.00 5.14
3187 9668 2.987355 TTTTTCAGCCCCCACCCGAC 62.987 60.000 0.00 0.00 0.00 4.79
3197 9678 4.400251 CACCCGACCTCCCCCTCT 62.400 72.222 0.00 0.00 0.00 3.69
3198 9679 4.400251 ACCCGACCTCCCCCTCTG 62.400 72.222 0.00 0.00 0.00 3.35
3202 9683 3.462678 GACCTCCCCCTCTGCGTC 61.463 72.222 0.00 0.00 0.00 5.19
3205 9686 3.382832 CTCCCCCTCTGCGTCGTT 61.383 66.667 0.00 0.00 0.00 3.85
3206 9687 2.920912 TCCCCCTCTGCGTCGTTT 60.921 61.111 0.00 0.00 0.00 3.60
3207 9688 2.742372 CCCCCTCTGCGTCGTTTG 60.742 66.667 0.00 0.00 0.00 2.93
3208 9689 2.342279 CCCCTCTGCGTCGTTTGA 59.658 61.111 0.00 0.00 0.00 2.69
3209 9690 1.079127 CCCCTCTGCGTCGTTTGAT 60.079 57.895 0.00 0.00 0.00 2.57
3210 9691 1.084370 CCCCTCTGCGTCGTTTGATC 61.084 60.000 0.00 0.00 0.00 2.92
3211 9692 1.084370 CCCTCTGCGTCGTTTGATCC 61.084 60.000 0.00 0.00 0.00 3.36
3212 9693 0.389817 CCTCTGCGTCGTTTGATCCA 60.390 55.000 0.00 0.00 0.00 3.41
3213 9694 0.994995 CTCTGCGTCGTTTGATCCAG 59.005 55.000 0.00 0.00 0.00 3.86
3214 9695 0.389817 TCTGCGTCGTTTGATCCAGG 60.390 55.000 0.00 0.00 0.00 4.45
3215 9696 1.970917 CTGCGTCGTTTGATCCAGGC 61.971 60.000 0.00 0.00 0.00 4.85
3216 9697 2.032634 GCGTCGTTTGATCCAGGCA 61.033 57.895 0.00 0.00 0.00 4.75
3217 9698 1.573829 GCGTCGTTTGATCCAGGCAA 61.574 55.000 0.00 0.00 0.00 4.52
3218 9699 0.871722 CGTCGTTTGATCCAGGCAAA 59.128 50.000 0.00 0.00 33.22 3.68
3226 9707 4.389890 TTGATCCAGGCAAACATATTGC 57.610 40.909 4.64 4.64 44.22 3.56
3227 9708 3.363627 TGATCCAGGCAAACATATTGCA 58.636 40.909 14.34 0.00 46.58 4.08
3228 9709 3.768215 TGATCCAGGCAAACATATTGCAA 59.232 39.130 14.34 0.00 46.58 4.08
3229 9710 4.222366 TGATCCAGGCAAACATATTGCAAA 59.778 37.500 14.34 0.00 46.58 3.68
3230 9711 4.613925 TCCAGGCAAACATATTGCAAAA 57.386 36.364 14.34 0.00 46.58 2.44
3231 9712 4.314121 TCCAGGCAAACATATTGCAAAAC 58.686 39.130 14.34 0.00 46.58 2.43
3232 9713 4.063689 CCAGGCAAACATATTGCAAAACA 58.936 39.130 14.34 0.00 46.58 2.83
3233 9714 4.083908 CCAGGCAAACATATTGCAAAACAC 60.084 41.667 14.34 0.00 46.58 3.32
3234 9715 4.064388 AGGCAAACATATTGCAAAACACC 58.936 39.130 14.34 0.00 46.58 4.16
3235 9716 3.812053 GGCAAACATATTGCAAAACACCA 59.188 39.130 14.34 0.00 46.58 4.17
3236 9717 4.455190 GGCAAACATATTGCAAAACACCAT 59.545 37.500 14.34 0.00 46.58 3.55
3237 9718 5.383958 GCAAACATATTGCAAAACACCATG 58.616 37.500 1.71 3.38 44.34 3.66
3238 9719 5.383958 CAAACATATTGCAAAACACCATGC 58.616 37.500 1.71 0.00 42.86 4.06
3239 9720 3.598299 ACATATTGCAAAACACCATGCC 58.402 40.909 1.71 0.00 41.87 4.40
3240 9721 3.007723 ACATATTGCAAAACACCATGCCA 59.992 39.130 1.71 0.00 41.87 4.92
3241 9722 2.863132 ATTGCAAAACACCATGCCAT 57.137 40.000 1.71 0.00 41.87 4.40
3242 9723 2.634815 TTGCAAAACACCATGCCATT 57.365 40.000 0.00 0.00 41.87 3.16
3243 9724 2.634815 TGCAAAACACCATGCCATTT 57.365 40.000 0.00 0.00 41.87 2.32
3244 9725 2.928334 TGCAAAACACCATGCCATTTT 58.072 38.095 0.00 0.00 41.87 1.82
3245 9726 3.285484 TGCAAAACACCATGCCATTTTT 58.715 36.364 0.00 0.00 41.87 1.94
3246 9727 4.454678 TGCAAAACACCATGCCATTTTTA 58.545 34.783 0.00 0.00 41.87 1.52
3247 9728 4.883585 TGCAAAACACCATGCCATTTTTAA 59.116 33.333 0.00 0.00 41.87 1.52
3248 9729 5.211454 GCAAAACACCATGCCATTTTTAAC 58.789 37.500 0.00 0.00 36.56 2.01
3249 9730 5.008514 GCAAAACACCATGCCATTTTTAACT 59.991 36.000 0.00 0.00 36.56 2.24
3250 9731 6.203723 GCAAAACACCATGCCATTTTTAACTA 59.796 34.615 0.00 0.00 36.56 2.24
3251 9732 7.254932 GCAAAACACCATGCCATTTTTAACTAA 60.255 33.333 0.00 0.00 36.56 2.24
3252 9733 8.616076 CAAAACACCATGCCATTTTTAACTAAA 58.384 29.630 0.00 0.00 0.00 1.85
3253 9734 8.738645 AAACACCATGCCATTTTTAACTAAAA 57.261 26.923 0.00 0.00 39.88 1.52
3254 9735 7.722795 ACACCATGCCATTTTTAACTAAAAC 57.277 32.000 0.00 0.00 38.48 2.43
3255 9736 6.708502 ACACCATGCCATTTTTAACTAAAACC 59.291 34.615 0.00 0.00 38.48 3.27
3256 9737 6.708054 CACCATGCCATTTTTAACTAAAACCA 59.292 34.615 0.00 0.00 38.48 3.67
3257 9738 6.708502 ACCATGCCATTTTTAACTAAAACCAC 59.291 34.615 0.00 0.00 38.48 4.16
3258 9739 6.708054 CCATGCCATTTTTAACTAAAACCACA 59.292 34.615 0.00 0.00 38.48 4.17
3259 9740 7.227512 CCATGCCATTTTTAACTAAAACCACAA 59.772 33.333 0.00 0.00 38.48 3.33
3260 9741 8.616076 CATGCCATTTTTAACTAAAACCACAAA 58.384 29.630 0.00 0.00 38.48 2.83
3261 9742 8.738645 TGCCATTTTTAACTAAAACCACAAAT 57.261 26.923 0.00 0.00 38.48 2.32
3262 9743 8.616076 TGCCATTTTTAACTAAAACCACAAATG 58.384 29.630 0.00 0.00 38.48 2.32
3263 9744 8.616942 GCCATTTTTAACTAAAACCACAAATGT 58.383 29.630 0.00 0.00 38.48 2.71
3266 9747 9.892130 ATTTTTAACTAAAACCACAAATGTCCA 57.108 25.926 0.00 0.00 38.48 4.02
3267 9748 9.892130 TTTTTAACTAAAACCACAAATGTCCAT 57.108 25.926 0.00 0.00 35.14 3.41
3268 9749 8.879342 TTTAACTAAAACCACAAATGTCCATG 57.121 30.769 0.00 0.00 0.00 3.66
3269 9750 5.467035 ACTAAAACCACAAATGTCCATGG 57.533 39.130 4.97 4.97 38.26 3.66
3270 9751 2.837532 AAACCACAAATGTCCATGGC 57.162 45.000 6.96 2.72 35.49 4.40
3271 9752 1.714541 AACCACAAATGTCCATGGCA 58.285 45.000 6.96 9.20 35.49 4.92
3272 9753 1.714541 ACCACAAATGTCCATGGCAA 58.285 45.000 6.96 0.00 35.49 4.52
3273 9754 2.045524 ACCACAAATGTCCATGGCAAA 58.954 42.857 6.96 0.00 35.49 3.68
3274 9755 2.437281 ACCACAAATGTCCATGGCAAAA 59.563 40.909 6.96 0.00 35.49 2.44
3275 9756 3.068560 CCACAAATGTCCATGGCAAAAG 58.931 45.455 6.96 5.42 0.00 2.27
3276 9757 3.068560 CACAAATGTCCATGGCAAAAGG 58.931 45.455 6.96 0.00 0.00 3.11
3277 9758 2.705127 ACAAATGTCCATGGCAAAAGGT 59.295 40.909 6.96 0.00 0.00 3.50
3278 9759 3.900601 ACAAATGTCCATGGCAAAAGGTA 59.099 39.130 6.96 0.00 0.00 3.08
3279 9760 4.531732 ACAAATGTCCATGGCAAAAGGTAT 59.468 37.500 6.96 0.00 0.00 2.73
3280 9761 5.719085 ACAAATGTCCATGGCAAAAGGTATA 59.281 36.000 6.96 0.00 0.00 1.47
3281 9762 6.383726 ACAAATGTCCATGGCAAAAGGTATAT 59.616 34.615 6.96 0.00 0.00 0.86
3282 9763 7.563188 ACAAATGTCCATGGCAAAAGGTATATA 59.437 33.333 6.96 0.00 0.00 0.86
3283 9764 7.765695 AATGTCCATGGCAAAAGGTATATAG 57.234 36.000 6.96 0.00 0.00 1.31
3284 9765 6.260700 TGTCCATGGCAAAAGGTATATAGT 57.739 37.500 6.96 0.00 0.00 2.12
3285 9766 6.668645 TGTCCATGGCAAAAGGTATATAGTT 58.331 36.000 6.96 0.00 0.00 2.24
3286 9767 7.122715 TGTCCATGGCAAAAGGTATATAGTTT 58.877 34.615 6.96 0.00 0.00 2.66
3287 9768 7.617723 TGTCCATGGCAAAAGGTATATAGTTTT 59.382 33.333 6.96 0.00 0.00 2.43
3288 9769 7.920682 GTCCATGGCAAAAGGTATATAGTTTTG 59.079 37.037 6.96 18.15 41.87 2.44
3312 9793 9.837525 TTGCATATGAAACAAATAAAATTTGCC 57.162 25.926 6.97 3.67 32.93 4.52
3313 9794 9.006839 TGCATATGAAACAAATAAAATTTGCCA 57.993 25.926 6.97 8.14 32.93 4.92
3319 9800 8.728833 TGAAACAAATAAAATTTGCCATGATCC 58.271 29.630 11.32 0.00 32.93 3.36
3320 9801 7.628769 AACAAATAAAATTTGCCATGATCCC 57.371 32.000 11.32 0.00 32.93 3.85
3321 9802 6.719301 ACAAATAAAATTTGCCATGATCCCA 58.281 32.000 11.32 0.00 32.93 4.37
3322 9803 7.173722 ACAAATAAAATTTGCCATGATCCCAA 58.826 30.769 11.32 0.00 32.93 4.12
3323 9804 7.835181 ACAAATAAAATTTGCCATGATCCCAAT 59.165 29.630 11.32 0.00 32.93 3.16
3324 9805 9.339850 CAAATAAAATTTGCCATGATCCCAATA 57.660 29.630 0.00 0.00 0.00 1.90
3325 9806 9.917887 AAATAAAATTTGCCATGATCCCAATAA 57.082 25.926 0.00 0.00 0.00 1.40
3328 9809 8.826293 AAAATTTGCCATGATCCCAATAATTT 57.174 26.923 0.00 0.00 0.00 1.82
3329 9810 7.811117 AATTTGCCATGATCCCAATAATTTG 57.189 32.000 0.00 0.00 0.00 2.32
3330 9811 4.339872 TGCCATGATCCCAATAATTTGC 57.660 40.909 0.00 0.00 0.00 3.68
3331 9812 3.071312 TGCCATGATCCCAATAATTTGCC 59.929 43.478 0.00 0.00 0.00 4.52
3332 9813 3.071312 GCCATGATCCCAATAATTTGCCA 59.929 43.478 0.00 0.00 0.00 4.92
3333 9814 4.263156 GCCATGATCCCAATAATTTGCCAT 60.263 41.667 0.00 0.00 0.00 4.40
3334 9815 5.242434 CCATGATCCCAATAATTTGCCATG 58.758 41.667 0.00 0.00 31.83 3.66
3335 9816 4.959560 TGATCCCAATAATTTGCCATGG 57.040 40.909 7.63 7.63 0.00 3.66
3336 9817 3.071312 TGATCCCAATAATTTGCCATGGC 59.929 43.478 30.54 30.54 42.35 4.40
3355 9836 2.001872 GCAACAAACTAATGCCATGGC 58.998 47.619 30.54 30.54 42.35 4.40
3356 9837 2.620242 CAACAAACTAATGCCATGGCC 58.380 47.619 33.44 16.23 41.09 5.36
3357 9838 1.935799 ACAAACTAATGCCATGGCCA 58.064 45.000 33.44 21.36 41.09 5.36
3358 9839 2.255406 ACAAACTAATGCCATGGCCAA 58.745 42.857 33.44 17.20 41.09 4.52
3359 9840 2.028203 ACAAACTAATGCCATGGCCAAC 60.028 45.455 33.44 7.24 41.09 3.77
3360 9841 1.935799 AACTAATGCCATGGCCAACA 58.064 45.000 33.44 15.97 41.09 3.33
3361 9842 1.185315 ACTAATGCCATGGCCAACAC 58.815 50.000 33.44 6.02 41.09 3.32
3362 9843 1.184431 CTAATGCCATGGCCAACACA 58.816 50.000 33.44 14.74 41.09 3.72
3363 9844 0.894141 TAATGCCATGGCCAACACAC 59.106 50.000 33.44 4.41 41.09 3.82
3364 9845 2.157305 AATGCCATGGCCAACACACG 62.157 55.000 33.44 0.00 41.09 4.49
3365 9846 2.983030 GCCATGGCCAACACACGA 60.983 61.111 27.24 0.00 34.56 4.35
3366 9847 2.342650 GCCATGGCCAACACACGAT 61.343 57.895 27.24 0.00 34.56 3.73
3367 9848 1.029408 GCCATGGCCAACACACGATA 61.029 55.000 27.24 0.00 34.56 2.92
3368 9849 0.732571 CCATGGCCAACACACGATAC 59.267 55.000 10.96 0.00 0.00 2.24
3369 9850 1.447945 CATGGCCAACACACGATACA 58.552 50.000 10.96 0.00 0.00 2.29
3370 9851 2.016318 CATGGCCAACACACGATACAT 58.984 47.619 10.96 0.00 0.00 2.29
3371 9852 1.447945 TGGCCAACACACGATACATG 58.552 50.000 0.61 0.00 0.00 3.21
3372 9853 0.098728 GGCCAACACACGATACATGC 59.901 55.000 0.00 0.00 0.00 4.06
3373 9854 0.801872 GCCAACACACGATACATGCA 59.198 50.000 0.00 0.00 0.00 3.96
3374 9855 1.198867 GCCAACACACGATACATGCAA 59.801 47.619 0.00 0.00 0.00 4.08
3375 9856 2.159393 GCCAACACACGATACATGCAAT 60.159 45.455 0.00 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 5.221048 GCCTCTAGCAGAAGAAACAAAACAA 60.221 40.000 0.00 0.00 42.97 2.83
227 336 1.040646 ACTGTGCCTCTCGTGAAAGA 58.959 50.000 0.00 0.00 0.00 2.52
233 342 0.179045 AGCAAAACTGTGCCTCTCGT 60.179 50.000 0.00 0.00 46.14 4.18
241 350 2.032549 CACTCGAGGAAGCAAAACTGTG 60.033 50.000 18.41 0.00 0.00 3.66
244 353 1.884235 CCACTCGAGGAAGCAAAACT 58.116 50.000 18.41 0.00 0.00 2.66
250 359 2.811317 CGTGCCACTCGAGGAAGC 60.811 66.667 18.41 16.13 0.00 3.86
256 365 2.094757 ATCACAACCGTGCCACTCGA 62.095 55.000 0.00 0.00 43.28 4.04
261 370 1.883275 CCTAAAATCACAACCGTGCCA 59.117 47.619 0.00 0.00 43.28 4.92
279 388 3.374402 CACGACCGTGCCTCTCCT 61.374 66.667 9.69 0.00 39.39 3.69
380 489 9.140286 CTTCAAAACTAGATCTCACGTTGATAA 57.860 33.333 0.00 0.00 0.00 1.75
414 1968 1.872388 TCACCGTTCGATTTCTTGCA 58.128 45.000 0.00 0.00 0.00 4.08
425 1979 3.661758 TTCGAACTGTTTTCACCGTTC 57.338 42.857 0.00 0.90 41.41 3.95
472 2026 7.902032 TCGTAGATCCGTTTATTCAAAATGTC 58.098 34.615 0.00 0.00 0.00 3.06
535 2092 2.499756 TATGACAAGTGGCGCGCTCA 62.500 55.000 32.29 24.85 0.00 4.26
536 2093 1.358725 TTATGACAAGTGGCGCGCTC 61.359 55.000 32.29 23.17 0.00 5.03
561 2118 1.073199 AAAGACCGCTCCCACCTTG 59.927 57.895 0.00 0.00 0.00 3.61
673 2251 1.887707 GGCCGGGCGATTTCTACTG 60.888 63.158 14.21 0.00 0.00 2.74
697 2275 2.397413 CTGGCCTCCACACGGACTTT 62.397 60.000 3.32 0.00 35.91 2.66
703 2281 4.742201 CGACCTGGCCTCCACACG 62.742 72.222 3.32 0.00 0.00 4.49
709 2287 3.127352 CTACGAGCGACCTGGCCTC 62.127 68.421 3.32 0.00 0.00 4.70
743 2345 1.749063 TCTACAGATCACAACGCGGAT 59.251 47.619 12.47 2.57 0.00 4.18
745 2347 1.135373 ACTCTACAGATCACAACGCGG 60.135 52.381 12.47 0.00 0.00 6.46
808 3378 6.171213 CGTCCTCCCCCTTGATTATTTATAC 58.829 44.000 0.00 0.00 0.00 1.47
836 3412 2.186826 GTCGCCTTGTGTTGCCAGT 61.187 57.895 0.00 0.00 0.00 4.00
849 3425 3.607987 CGATCGAGTTGCGTCGCC 61.608 66.667 15.88 0.00 39.90 5.54
883 3459 1.571919 GCAAGTACTCCATGGCTACG 58.428 55.000 6.96 0.00 0.00 3.51
884 3460 1.209504 TGGCAAGTACTCCATGGCTAC 59.790 52.381 17.48 8.99 40.04 3.58
895 3472 2.605580 GCTGCTTGTCTTTGGCAAGTAC 60.606 50.000 12.53 3.57 43.65 2.73
897 3474 0.386838 GCTGCTTGTCTTTGGCAAGT 59.613 50.000 12.53 0.00 43.65 3.16
941 3518 4.347453 GTACGCGTCCACCACCGT 62.347 66.667 18.63 0.00 36.35 4.83
1099 3680 2.032681 GGTGTGGCGCTCCTTCTT 59.967 61.111 7.64 0.00 0.00 2.52
1512 4150 5.631512 CGAACTCTCGTTGAGAAAGATCTTT 59.368 40.000 20.60 20.60 45.39 2.52
1650 4291 3.677527 CCGATCCGCCGGTAGTAT 58.322 61.111 1.63 0.00 44.23 2.12
1926 4875 0.168348 CCTCGTCTGTGTCGGTGTAG 59.832 60.000 0.00 0.00 0.00 2.74
1927 4876 0.250424 TCCTCGTCTGTGTCGGTGTA 60.250 55.000 0.00 0.00 0.00 2.90
1949 4922 2.876645 CTCTTGCTCCGACGTCGC 60.877 66.667 31.73 18.89 38.18 5.19
2227 5321 4.688419 CACCGCCGCAAGCAGTTG 62.688 66.667 0.00 0.00 44.04 3.16
2300 5400 2.743752 ATAAGCACACGCAGCGCAG 61.744 57.895 16.61 10.77 42.27 5.18
2379 5483 0.249657 CTTGGCGACTCTGCTATCCC 60.250 60.000 0.00 0.00 34.52 3.85
2380 5484 0.461961 ACTTGGCGACTCTGCTATCC 59.538 55.000 0.00 0.00 34.52 2.59
2535 5734 4.810790 TCAAACCTCAACGAAAGCAAAAA 58.189 34.783 0.00 0.00 0.00 1.94
2545 5883 8.853345 CAAATCAAATCTTATCAAACCTCAACG 58.147 33.333 0.00 0.00 0.00 4.10
2595 6676 8.424133 AGCTCAACAAATAATCAAAACTTTCCT 58.576 29.630 0.00 0.00 0.00 3.36
2672 6753 0.179040 GGTTTCGTCCCTCCACACAA 60.179 55.000 0.00 0.00 0.00 3.33
2675 6756 0.547075 TTTGGTTTCGTCCCTCCACA 59.453 50.000 0.00 0.00 0.00 4.17
2676 6757 0.949397 GTTTGGTTTCGTCCCTCCAC 59.051 55.000 0.00 0.00 0.00 4.02
2737 6821 7.647907 ACCTTGTGTTTTAACATACTAGACG 57.352 36.000 0.00 0.00 41.59 4.18
2761 9239 9.273016 GCCTAATATATGCAGTACTTTCTTCAA 57.727 33.333 0.00 0.00 0.00 2.69
2773 9251 5.464722 CCTCGCTTATGCCTAATATATGCAG 59.535 44.000 0.00 0.00 38.58 4.41
2774 9252 5.104941 ACCTCGCTTATGCCTAATATATGCA 60.105 40.000 0.00 0.00 39.68 3.96
2775 9253 5.235186 CACCTCGCTTATGCCTAATATATGC 59.765 44.000 0.00 0.00 35.36 3.14
2776 9254 5.755375 CCACCTCGCTTATGCCTAATATATG 59.245 44.000 0.00 0.00 35.36 1.78
2777 9255 5.685075 GCCACCTCGCTTATGCCTAATATAT 60.685 44.000 0.00 0.00 35.36 0.86
2778 9256 4.382685 GCCACCTCGCTTATGCCTAATATA 60.383 45.833 0.00 0.00 35.36 0.86
2779 9257 3.619979 GCCACCTCGCTTATGCCTAATAT 60.620 47.826 0.00 0.00 35.36 1.28
2862 9340 8.972349 TCAATATTGTGTTTTAACGTACGTACA 58.028 29.630 23.12 18.87 0.00 2.90
2866 9344 7.003072 ACGTCAATATTGTGTTTTAACGTACG 58.997 34.615 20.84 15.01 38.85 3.67
2867 9345 8.698172 AACGTCAATATTGTGTTTTAACGTAC 57.302 30.769 21.87 7.30 39.61 3.67
2868 9346 8.008844 GGAACGTCAATATTGTGTTTTAACGTA 58.991 33.333 21.87 0.00 39.61 3.57
2869 9347 6.852345 GGAACGTCAATATTGTGTTTTAACGT 59.148 34.615 21.30 19.80 41.98 3.99
2870 9348 6.851837 TGGAACGTCAATATTGTGTTTTAACG 59.148 34.615 21.30 19.32 31.62 3.18
2884 9362 2.420129 GCTACCCAGATGGAACGTCAAT 60.420 50.000 0.00 0.00 37.39 2.57
2930 9408 2.032924 GCTCCCATTTTCGGTTAATCGG 59.967 50.000 8.52 0.00 0.00 4.18
2936 9414 0.036306 AGTCGCTCCCATTTTCGGTT 59.964 50.000 0.00 0.00 0.00 4.44
2952 9430 4.201599 GCAGGAAACGTTCGATTTAGAGTC 60.202 45.833 0.00 0.00 0.00 3.36
2959 9437 1.156736 CCAGCAGGAAACGTTCGATT 58.843 50.000 0.00 0.00 36.89 3.34
2971 9449 2.910737 TTCCAGAAGGGCCAGCAGG 61.911 63.158 6.18 3.25 36.21 4.85
2973 9451 2.416107 CTGTTCCAGAAGGGCCAGCA 62.416 60.000 6.18 0.00 36.21 4.41
3022 9503 4.434713 CAACAGTAGGTAATTGGGTTGC 57.565 45.455 0.00 0.00 0.00 4.17
3154 9635 9.541884 GGGGGCTGAAAAATTCCTTTATATATA 57.458 33.333 0.00 0.00 0.00 0.86
3155 9636 8.016054 TGGGGGCTGAAAAATTCCTTTATATAT 58.984 33.333 0.00 0.00 0.00 0.86
3156 9637 7.289084 GTGGGGGCTGAAAAATTCCTTTATATA 59.711 37.037 0.00 0.00 0.00 0.86
3157 9638 6.099701 GTGGGGGCTGAAAAATTCCTTTATAT 59.900 38.462 0.00 0.00 0.00 0.86
3158 9639 5.423931 GTGGGGGCTGAAAAATTCCTTTATA 59.576 40.000 0.00 0.00 0.00 0.98
3159 9640 4.225042 GTGGGGGCTGAAAAATTCCTTTAT 59.775 41.667 0.00 0.00 0.00 1.40
3160 9641 3.580895 GTGGGGGCTGAAAAATTCCTTTA 59.419 43.478 0.00 0.00 0.00 1.85
3161 9642 2.371841 GTGGGGGCTGAAAAATTCCTTT 59.628 45.455 0.00 0.00 0.00 3.11
3162 9643 1.977854 GTGGGGGCTGAAAAATTCCTT 59.022 47.619 0.00 0.00 0.00 3.36
3163 9644 1.644509 GTGGGGGCTGAAAAATTCCT 58.355 50.000 0.00 0.00 0.00 3.36
3164 9645 0.613260 GGTGGGGGCTGAAAAATTCC 59.387 55.000 0.00 0.00 0.00 3.01
3165 9646 0.613260 GGGTGGGGGCTGAAAAATTC 59.387 55.000 0.00 0.00 0.00 2.17
3166 9647 1.191489 CGGGTGGGGGCTGAAAAATT 61.191 55.000 0.00 0.00 0.00 1.82
3167 9648 1.609210 CGGGTGGGGGCTGAAAAAT 60.609 57.895 0.00 0.00 0.00 1.82
3168 9649 2.203567 CGGGTGGGGGCTGAAAAA 60.204 61.111 0.00 0.00 0.00 1.94
3169 9650 3.179339 TCGGGTGGGGGCTGAAAA 61.179 61.111 0.00 0.00 0.00 2.29
3170 9651 3.961414 GTCGGGTGGGGGCTGAAA 61.961 66.667 0.00 0.00 0.00 2.69
3180 9661 4.400251 AGAGGGGGAGGTCGGGTG 62.400 72.222 0.00 0.00 0.00 4.61
3181 9662 4.400251 CAGAGGGGGAGGTCGGGT 62.400 72.222 0.00 0.00 0.00 5.28
3185 9666 3.462678 GACGCAGAGGGGGAGGTC 61.463 72.222 0.00 0.00 0.00 3.85
3188 9669 2.943978 AAACGACGCAGAGGGGGAG 61.944 63.158 0.00 0.00 0.00 4.30
3189 9670 2.920912 AAACGACGCAGAGGGGGA 60.921 61.111 0.00 0.00 0.00 4.81
3190 9671 2.521958 ATCAAACGACGCAGAGGGGG 62.522 60.000 0.00 0.00 0.00 5.40
3191 9672 1.079127 ATCAAACGACGCAGAGGGG 60.079 57.895 0.00 0.00 0.00 4.79
3192 9673 1.084370 GGATCAAACGACGCAGAGGG 61.084 60.000 0.00 0.00 0.00 4.30
3193 9674 0.389817 TGGATCAAACGACGCAGAGG 60.390 55.000 0.00 0.00 0.00 3.69
3194 9675 0.994995 CTGGATCAAACGACGCAGAG 59.005 55.000 0.00 0.00 0.00 3.35
3195 9676 0.389817 CCTGGATCAAACGACGCAGA 60.390 55.000 0.00 0.00 0.00 4.26
3196 9677 1.970917 GCCTGGATCAAACGACGCAG 61.971 60.000 0.00 0.00 0.00 5.18
3197 9678 2.032634 GCCTGGATCAAACGACGCA 61.033 57.895 0.00 0.00 0.00 5.24
3198 9679 1.573829 TTGCCTGGATCAAACGACGC 61.574 55.000 0.00 0.00 0.00 5.19
3199 9680 0.871722 TTTGCCTGGATCAAACGACG 59.128 50.000 0.00 0.00 0.00 5.12
3200 9681 2.331809 GTTTGCCTGGATCAAACGAC 57.668 50.000 12.19 0.00 42.28 4.34
3204 9685 4.222366 TGCAATATGTTTGCCTGGATCAAA 59.778 37.500 11.34 0.00 44.32 2.69
3205 9686 3.768215 TGCAATATGTTTGCCTGGATCAA 59.232 39.130 11.34 0.00 44.32 2.57
3206 9687 3.363627 TGCAATATGTTTGCCTGGATCA 58.636 40.909 11.34 0.00 44.32 2.92
3207 9688 4.389890 TTGCAATATGTTTGCCTGGATC 57.610 40.909 11.34 0.00 44.32 3.36
3208 9689 4.822685 TTTGCAATATGTTTGCCTGGAT 57.177 36.364 0.00 0.00 44.32 3.41
3209 9690 4.202295 TGTTTTGCAATATGTTTGCCTGGA 60.202 37.500 0.00 0.00 44.32 3.86
3210 9691 4.063689 TGTTTTGCAATATGTTTGCCTGG 58.936 39.130 0.00 0.00 44.32 4.45
3211 9692 4.083908 GGTGTTTTGCAATATGTTTGCCTG 60.084 41.667 0.00 0.00 44.32 4.85
3212 9693 4.064388 GGTGTTTTGCAATATGTTTGCCT 58.936 39.130 0.00 0.00 44.32 4.75
3213 9694 3.812053 TGGTGTTTTGCAATATGTTTGCC 59.188 39.130 0.00 0.00 44.32 4.52
3214 9695 5.383958 CATGGTGTTTTGCAATATGTTTGC 58.616 37.500 0.00 7.94 45.11 3.68
3215 9696 5.383958 GCATGGTGTTTTGCAATATGTTTG 58.616 37.500 0.00 0.00 38.72 2.93
3216 9697 4.455190 GGCATGGTGTTTTGCAATATGTTT 59.545 37.500 0.00 0.00 40.66 2.83
3217 9698 4.002316 GGCATGGTGTTTTGCAATATGTT 58.998 39.130 0.00 0.00 40.66 2.71
3218 9699 3.007723 TGGCATGGTGTTTTGCAATATGT 59.992 39.130 0.00 0.00 40.66 2.29
3219 9700 3.597255 TGGCATGGTGTTTTGCAATATG 58.403 40.909 0.00 0.45 40.66 1.78
3220 9701 3.977134 TGGCATGGTGTTTTGCAATAT 57.023 38.095 0.00 0.00 40.66 1.28
3221 9702 3.977134 ATGGCATGGTGTTTTGCAATA 57.023 38.095 0.00 0.00 40.66 1.90
3222 9703 2.863132 ATGGCATGGTGTTTTGCAAT 57.137 40.000 0.00 0.00 40.66 3.56
3223 9704 2.634815 AATGGCATGGTGTTTTGCAA 57.365 40.000 0.00 0.00 40.66 4.08
3224 9705 2.634815 AAATGGCATGGTGTTTTGCA 57.365 40.000 0.00 0.00 40.66 4.08
3225 9706 3.986442 AAAAATGGCATGGTGTTTTGC 57.014 38.095 0.00 0.00 38.14 3.68
3226 9707 6.616774 AGTTAAAAATGGCATGGTGTTTTG 57.383 33.333 14.71 0.00 0.00 2.44
3227 9708 8.738645 TTTAGTTAAAAATGGCATGGTGTTTT 57.261 26.923 0.00 6.79 0.00 2.43
3228 9709 8.616942 GTTTTAGTTAAAAATGGCATGGTGTTT 58.383 29.630 0.00 2.54 39.22 2.83
3229 9710 7.227711 GGTTTTAGTTAAAAATGGCATGGTGTT 59.772 33.333 0.00 0.00 39.22 3.32
3230 9711 6.708502 GGTTTTAGTTAAAAATGGCATGGTGT 59.291 34.615 0.00 0.00 39.22 4.16
3231 9712 6.708054 TGGTTTTAGTTAAAAATGGCATGGTG 59.292 34.615 0.00 0.00 39.22 4.17
3232 9713 6.708502 GTGGTTTTAGTTAAAAATGGCATGGT 59.291 34.615 0.00 0.00 39.22 3.55
3233 9714 6.708054 TGTGGTTTTAGTTAAAAATGGCATGG 59.292 34.615 0.00 0.00 39.22 3.66
3234 9715 7.721286 TGTGGTTTTAGTTAAAAATGGCATG 57.279 32.000 0.00 0.00 39.22 4.06
3235 9716 8.738645 TTTGTGGTTTTAGTTAAAAATGGCAT 57.261 26.923 0.00 0.00 39.22 4.40
3236 9717 8.616076 CATTTGTGGTTTTAGTTAAAAATGGCA 58.384 29.630 0.00 0.00 39.22 4.92
3237 9718 8.616942 ACATTTGTGGTTTTAGTTAAAAATGGC 58.383 29.630 0.00 0.00 39.22 4.40
3240 9721 9.892130 TGGACATTTGTGGTTTTAGTTAAAAAT 57.108 25.926 0.00 0.00 39.22 1.82
3241 9722 9.892130 ATGGACATTTGTGGTTTTAGTTAAAAA 57.108 25.926 0.00 0.00 36.97 1.94
3242 9723 9.319143 CATGGACATTTGTGGTTTTAGTTAAAA 57.681 29.630 0.00 0.00 33.17 1.52
3243 9724 7.928706 CCATGGACATTTGTGGTTTTAGTTAAA 59.071 33.333 5.56 0.00 0.00 1.52
3244 9725 7.437748 CCATGGACATTTGTGGTTTTAGTTAA 58.562 34.615 5.56 0.00 0.00 2.01
3245 9726 6.517529 GCCATGGACATTTGTGGTTTTAGTTA 60.518 38.462 18.40 0.00 34.23 2.24
3246 9727 5.741673 GCCATGGACATTTGTGGTTTTAGTT 60.742 40.000 18.40 0.00 34.23 2.24
3247 9728 4.262420 GCCATGGACATTTGTGGTTTTAGT 60.262 41.667 18.40 0.00 34.23 2.24
3248 9729 4.244862 GCCATGGACATTTGTGGTTTTAG 58.755 43.478 18.40 0.00 34.23 1.85
3249 9730 3.643320 TGCCATGGACATTTGTGGTTTTA 59.357 39.130 18.40 0.00 34.23 1.52
3250 9731 2.437281 TGCCATGGACATTTGTGGTTTT 59.563 40.909 18.40 0.00 34.23 2.43
3251 9732 2.045524 TGCCATGGACATTTGTGGTTT 58.954 42.857 18.40 0.00 34.23 3.27
3252 9733 1.714541 TGCCATGGACATTTGTGGTT 58.285 45.000 18.40 0.00 34.23 3.67
3253 9734 1.714541 TTGCCATGGACATTTGTGGT 58.285 45.000 18.40 0.00 34.23 4.16
3254 9735 2.835580 TTTGCCATGGACATTTGTGG 57.164 45.000 18.40 0.00 34.84 4.17
3255 9736 3.068560 CCTTTTGCCATGGACATTTGTG 58.931 45.455 18.40 2.83 0.00 3.33
3256 9737 2.705127 ACCTTTTGCCATGGACATTTGT 59.295 40.909 18.40 1.94 0.00 2.83
3257 9738 3.405823 ACCTTTTGCCATGGACATTTG 57.594 42.857 18.40 1.23 0.00 2.32
3258 9739 7.784550 ACTATATACCTTTTGCCATGGACATTT 59.215 33.333 18.40 0.00 0.00 2.32
3259 9740 7.297614 ACTATATACCTTTTGCCATGGACATT 58.702 34.615 18.40 0.00 0.00 2.71
3260 9741 6.852404 ACTATATACCTTTTGCCATGGACAT 58.148 36.000 18.40 0.31 0.00 3.06
3261 9742 6.260700 ACTATATACCTTTTGCCATGGACA 57.739 37.500 18.40 10.56 0.00 4.02
3262 9743 7.582667 AAACTATATACCTTTTGCCATGGAC 57.417 36.000 18.40 7.64 0.00 4.02
3263 9744 8.006298 CAAAACTATATACCTTTTGCCATGGA 57.994 34.615 18.40 0.00 30.41 3.41
3286 9767 9.837525 GGCAAATTTTATTTGTTTCATATGCAA 57.162 25.926 12.26 0.00 0.00 4.08
3287 9768 9.006839 TGGCAAATTTTATTTGTTTCATATGCA 57.993 25.926 12.26 0.00 0.00 3.96
3293 9774 8.728833 GGATCATGGCAAATTTTATTTGTTTCA 58.271 29.630 12.26 9.36 0.00 2.69
3294 9775 8.183536 GGGATCATGGCAAATTTTATTTGTTTC 58.816 33.333 12.26 5.27 0.00 2.78
3295 9776 7.668886 TGGGATCATGGCAAATTTTATTTGTTT 59.331 29.630 12.26 0.00 0.00 2.83
3296 9777 7.173722 TGGGATCATGGCAAATTTTATTTGTT 58.826 30.769 12.26 0.00 0.00 2.83
3297 9778 6.719301 TGGGATCATGGCAAATTTTATTTGT 58.281 32.000 12.26 0.00 0.00 2.83
3298 9779 7.627298 TTGGGATCATGGCAAATTTTATTTG 57.373 32.000 7.58 7.58 0.00 2.32
3299 9780 9.917887 TTATTGGGATCATGGCAAATTTTATTT 57.082 25.926 0.00 0.00 0.00 1.40
3302 9783 9.917887 AAATTATTGGGATCATGGCAAATTTTA 57.082 25.926 0.00 0.00 0.00 1.52
3303 9784 8.688151 CAAATTATTGGGATCATGGCAAATTTT 58.312 29.630 0.00 0.00 32.69 1.82
3304 9785 7.201839 GCAAATTATTGGGATCATGGCAAATTT 60.202 33.333 0.00 0.00 37.02 1.82
3305 9786 6.263617 GCAAATTATTGGGATCATGGCAAATT 59.736 34.615 0.00 0.00 37.02 1.82
3306 9787 5.766174 GCAAATTATTGGGATCATGGCAAAT 59.234 36.000 0.00 0.00 37.02 2.32
3307 9788 5.124645 GCAAATTATTGGGATCATGGCAAA 58.875 37.500 0.00 0.00 37.02 3.68
3308 9789 4.444591 GGCAAATTATTGGGATCATGGCAA 60.445 41.667 0.00 0.00 37.02 4.52
3309 9790 3.071312 GGCAAATTATTGGGATCATGGCA 59.929 43.478 0.00 0.00 37.02 4.92
3310 9791 3.071312 TGGCAAATTATTGGGATCATGGC 59.929 43.478 0.00 0.00 37.02 4.40
3311 9792 4.959560 TGGCAAATTATTGGGATCATGG 57.040 40.909 0.00 0.00 37.02 3.66
3312 9793 5.242434 CCATGGCAAATTATTGGGATCATG 58.758 41.667 0.00 0.00 37.02 3.07
3313 9794 4.263156 GCCATGGCAAATTATTGGGATCAT 60.263 41.667 32.08 0.00 41.49 2.45
3314 9795 3.071312 GCCATGGCAAATTATTGGGATCA 59.929 43.478 32.08 0.00 41.49 2.92
3315 9796 3.667360 GCCATGGCAAATTATTGGGATC 58.333 45.455 32.08 0.00 41.49 3.36
3316 9797 3.775261 GCCATGGCAAATTATTGGGAT 57.225 42.857 32.08 0.00 41.49 3.85
3329 9810 2.001872 GCATTAGTTTGTTGCCATGGC 58.998 47.619 30.54 30.54 42.35 4.40
3335 9816 2.001872 GCCATGGCATTAGTTTGTTGC 58.998 47.619 32.08 0.00 41.49 4.17
3336 9817 2.028294 TGGCCATGGCATTAGTTTGTTG 60.028 45.455 36.56 0.00 44.11 3.33
3337 9818 2.255406 TGGCCATGGCATTAGTTTGTT 58.745 42.857 36.56 0.00 44.11 2.83
3338 9819 1.935799 TGGCCATGGCATTAGTTTGT 58.064 45.000 36.56 0.00 44.11 2.83
3339 9820 2.028294 TGTTGGCCATGGCATTAGTTTG 60.028 45.455 36.56 0.00 44.11 2.93
3340 9821 2.028203 GTGTTGGCCATGGCATTAGTTT 60.028 45.455 36.56 0.00 44.11 2.66
3341 9822 1.550072 GTGTTGGCCATGGCATTAGTT 59.450 47.619 36.56 0.00 44.11 2.24
3342 9823 1.185315 GTGTTGGCCATGGCATTAGT 58.815 50.000 36.56 0.00 44.11 2.24
3343 9824 1.135024 GTGTGTTGGCCATGGCATTAG 60.135 52.381 36.56 0.00 44.11 1.73
3344 9825 0.894141 GTGTGTTGGCCATGGCATTA 59.106 50.000 36.56 20.14 44.11 1.90
3345 9826 1.672898 GTGTGTTGGCCATGGCATT 59.327 52.632 36.56 0.00 44.11 3.56
3346 9827 2.638354 CGTGTGTTGGCCATGGCAT 61.638 57.895 36.56 0.00 44.11 4.40
3347 9828 3.293714 CGTGTGTTGGCCATGGCA 61.294 61.111 36.56 20.63 44.11 4.92
3348 9829 1.029408 TATCGTGTGTTGGCCATGGC 61.029 55.000 29.47 29.47 41.06 4.40
3349 9830 0.732571 GTATCGTGTGTTGGCCATGG 59.267 55.000 6.09 7.63 0.00 3.66
3350 9831 1.447945 TGTATCGTGTGTTGGCCATG 58.552 50.000 6.09 0.00 0.00 3.66
3351 9832 2.016318 CATGTATCGTGTGTTGGCCAT 58.984 47.619 6.09 0.00 0.00 4.40
3352 9833 1.447945 CATGTATCGTGTGTTGGCCA 58.552 50.000 0.00 0.00 0.00 5.36
3353 9834 0.098728 GCATGTATCGTGTGTTGGCC 59.901 55.000 0.00 0.00 0.00 5.36
3354 9835 0.801872 TGCATGTATCGTGTGTTGGC 59.198 50.000 0.00 0.00 0.00 4.52
3355 9836 3.126686 TCATTGCATGTATCGTGTGTTGG 59.873 43.478 0.00 0.00 0.00 3.77
3356 9837 4.339439 TCATTGCATGTATCGTGTGTTG 57.661 40.909 0.00 0.00 0.00 3.33
3357 9838 4.912214 CATCATTGCATGTATCGTGTGTT 58.088 39.130 0.00 0.00 0.00 3.32
3358 9839 4.541085 CATCATTGCATGTATCGTGTGT 57.459 40.909 0.00 0.00 0.00 3.72


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

AutoCloner maintained by Alex Coulton.