Multiple sequence alignment - TraesCS7B01G286300

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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 TraesCS7B01G286300 chr7B 100.000 3032 0 0 1 3032 521577094 521580125 0.000000e+00 5600.0
1 TraesCS7B01G286300 chr7B 90.000 60 3 3 1 57 64949813 64949754 1.170000e-09 75.0
2 TraesCS7B01G286300 chr7D 93.724 2374 97 28 36 2377 492147860 492150213 0.000000e+00 3511.0
3 TraesCS7B01G286300 chr7D 90.090 111 10 1 2874 2983 529049351 529049461 3.150000e-30 143.0
4 TraesCS7B01G286300 chr7D 97.561 82 2 0 2951 3032 492150921 492151002 1.130000e-29 141.0
5 TraesCS7B01G286300 chr7D 77.157 197 30 11 1010 1200 63325778 63325965 1.920000e-17 100.0
6 TraesCS7B01G286300 chr7A 92.550 1839 74 27 327 2134 558402096 558403902 0.000000e+00 2579.0
7 TraesCS7B01G286300 chr7A 89.041 146 11 2 174 319 558401751 558401891 3.110000e-40 176.0
8 TraesCS7B01G286300 chr7A 82.990 194 17 13 2191 2377 558403975 558404159 8.700000e-36 161.0
9 TraesCS7B01G286300 chr2D 87.117 163 19 2 998 1159 491429578 491429739 1.860000e-42 183.0
10 TraesCS7B01G286300 chr6B 83.077 195 28 4 1007 1200 514119173 514118983 4.020000e-39 172.0
11 TraesCS7B01G286300 chr6B 92.308 52 2 2 1 50 681553497 681553548 4.190000e-09 73.1
12 TraesCS7B01G286300 chr2A 86.250 160 20 2 998 1156 635723010 635723168 4.020000e-39 172.0
13 TraesCS7B01G286300 chr6D 81.106 217 29 10 995 1200 312763265 312763480 2.420000e-36 163.0
14 TraesCS7B01G286300 chr2B 85.000 160 22 2 998 1156 575903795 575903953 8.700000e-36 161.0
15 TraesCS7B01G286300 chr2B 92.929 99 6 1 2879 2976 787749117 787749019 3.150000e-30 143.0
16 TraesCS7B01G286300 chr2B 89.474 57 5 1 1 57 147357720 147357775 1.510000e-08 71.3
17 TraesCS7B01G286300 chr6A 80.184 217 31 8 995 1200 449584436 449584651 5.240000e-33 152.0
18 TraesCS7B01G286300 chr5D 93.069 101 6 1 2877 2976 6918888 6918988 2.440000e-31 147.0
19 TraesCS7B01G286300 chr5D 93.878 49 2 1 1 49 523308872 523308919 4.190000e-09 73.1
20 TraesCS7B01G286300 chr5D 93.878 49 2 1 1 49 523369771 523369818 4.190000e-09 73.1
21 TraesCS7B01G286300 chr3D 92.157 102 6 2 2877 2976 582933501 582933400 3.150000e-30 143.0
22 TraesCS7B01G286300 chr5B 92.000 100 6 2 2878 2976 645989678 645989776 4.080000e-29 139.0
23 TraesCS7B01G286300 chr5B 86.301 73 10 0 2508 2580 655016070 655016142 2.510000e-11 80.5
24 TraesCS7B01G286300 chr5A 92.000 100 7 1 2880 2978 41162197 41162098 4.080000e-29 139.0
25 TraesCS7B01G286300 chr5A 87.500 80 10 0 2510 2589 510890433 510890354 3.220000e-15 93.5
26 TraesCS7B01G286300 chr5A 89.474 57 5 1 1 56 82336268 82336212 1.510000e-08 71.3
27 TraesCS7B01G286300 chr4D 90.476 105 8 2 2875 2978 31821995 31822098 1.470000e-28 137.0
28 TraesCS7B01G286300 chr3B 90.476 105 9 1 2873 2976 252558422 252558526 1.470000e-28 137.0
29 TraesCS7B01G286300 chr3B 87.931 116 10 2 2879 2992 630871666 630871779 1.900000e-27 134.0
30 TraesCS7B01G286300 chr3B 89.474 57 2 4 1 56 642874578 642874631 5.420000e-08 69.4
31 TraesCS7B01G286300 chrUn 93.878 49 1 2 1 49 353042416 353042462 4.190000e-09 73.1
32 TraesCS7B01G286300 chr4B 93.878 49 1 2 1 49 629222558 629222512 4.190000e-09 73.1


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 TraesCS7B01G286300 chr7B 521577094 521580125 3031 False 5600 5600 100.000000 1 3032 1 chr7B.!!$F1 3031
1 TraesCS7B01G286300 chr7D 492147860 492151002 3142 False 1826 3511 95.642500 36 3032 2 chr7D.!!$F3 2996
2 TraesCS7B01G286300 chr7A 558401751 558404159 2408 False 972 2579 88.193667 174 2377 3 chr7A.!!$F1 2203

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
28 29 0.03467 CTGCTGCTAGGCTTTTCCCT 60.035 55.0 0.0 0.0 39.05 4.20 F
1272 1502 0.03213 TGAGTTGAGCTGACGGTGTC 59.968 55.0 0.0 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1599 1838 0.241481 AGAGGAGTTCGTCGACTTGC 59.759 55.0 14.70 3.06 36.02 4.01 R
2460 2778 0.035056 CAACCGGATGGGCTTCTTCT 60.035 55.0 9.46 0.00 40.62 2.85 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
17 18 4.697756 AAACCCGCGCTGCTGCTA 62.698 61.111 14.03 0.00 36.97 3.49
23 24 3.130160 GCGCTGCTGCTAGGCTTT 61.130 61.111 14.03 0.00 36.97 3.51
24 25 2.694760 GCGCTGCTGCTAGGCTTTT 61.695 57.895 14.03 0.00 36.97 2.27
25 26 1.427020 CGCTGCTGCTAGGCTTTTC 59.573 57.895 14.03 0.00 36.97 2.29
26 27 1.805910 GCTGCTGCTAGGCTTTTCC 59.194 57.895 8.53 0.00 36.03 3.13
27 28 1.661498 GCTGCTGCTAGGCTTTTCCC 61.661 60.000 8.53 0.00 36.03 3.97
28 29 0.034670 CTGCTGCTAGGCTTTTCCCT 60.035 55.000 0.00 0.00 39.05 4.20
29 30 1.210478 CTGCTGCTAGGCTTTTCCCTA 59.790 52.381 0.00 0.00 36.41 3.53
78 79 6.346598 GCCAACATATGACATACACATACGAC 60.347 42.308 10.38 0.00 33.89 4.34
97 98 4.081420 ACGACAAGCCATAGTCTTGAGATT 60.081 41.667 9.40 0.00 42.52 2.40
98 99 4.872691 CGACAAGCCATAGTCTTGAGATTT 59.127 41.667 9.40 0.00 42.52 2.17
99 100 5.352569 CGACAAGCCATAGTCTTGAGATTTT 59.647 40.000 9.40 0.00 42.52 1.82
111 112 7.000472 AGTCTTGAGATTTTGAATCTTGACCA 59.000 34.615 17.95 7.00 30.80 4.02
148 149 2.557924 TGCTTTGATCGCCAATTTGAGT 59.442 40.909 0.00 0.00 34.23 3.41
209 210 5.541953 AGGAAGCAAAGAAGAAGCAAATT 57.458 34.783 0.00 0.00 0.00 1.82
223 224 8.675040 AAGAAGCAAATTAATTAAGCTCGAAC 57.325 30.769 21.43 15.12 32.40 3.95
234 235 7.836479 AATTAAGCTCGAACTAGTATAGGGT 57.164 36.000 0.00 0.00 44.97 4.34
319 320 6.416514 GCTTCTTGCTTGTTGATTTGAAAAG 58.583 36.000 0.00 0.00 38.95 2.27
363 561 4.628963 ACCAAATAACCTAACCGTCACT 57.371 40.909 0.00 0.00 0.00 3.41
480 681 1.956477 CTCACAAAACCACAGGGGAAG 59.044 52.381 0.00 0.00 41.15 3.46
522 723 3.832527 ACCAAGATTTAGTGGCTTGTGT 58.167 40.909 0.00 0.00 38.58 3.72
524 725 5.381757 ACCAAGATTTAGTGGCTTGTGTAA 58.618 37.500 0.00 0.00 38.58 2.41
527 728 9.072981 ACCAAGATTTAGTGGCTTGTGTAACAC 62.073 40.741 0.00 0.00 42.68 3.32
536 737 3.698250 TGTGTAACACCAGGTCTGC 57.302 52.632 0.00 0.00 45.67 4.26
538 739 2.321719 TGTGTAACACCAGGTCTGCTA 58.678 47.619 0.00 0.00 45.67 3.49
542 743 4.213482 GTGTAACACCAGGTCTGCTAAAAG 59.787 45.833 0.00 0.00 36.32 2.27
546 747 4.278310 ACACCAGGTCTGCTAAAAGTTTT 58.722 39.130 6.06 6.06 0.00 2.43
563 764 7.929941 AAAGTTTTGAACCTTATGCCAAAAA 57.070 28.000 0.00 0.00 39.32 1.94
564 765 7.552458 AAGTTTTGAACCTTATGCCAAAAAG 57.448 32.000 0.00 0.00 39.32 2.27
569 770 4.656112 TGAACCTTATGCCAAAAAGGGAAA 59.344 37.500 12.34 0.00 45.50 3.13
600 801 9.151471 GTAGAAGATACATTTTAAGCTGACACA 57.849 33.333 0.00 0.00 0.00 3.72
614 815 2.337879 GACACAGTTGCCCACCTCCA 62.338 60.000 0.00 0.00 0.00 3.86
666 870 0.801251 GACAATGCCAGCACTGACTC 59.199 55.000 8.23 0.00 0.00 3.36
702 906 6.682746 AGTACAGATCACCGCTAGATATTTG 58.317 40.000 0.00 0.00 0.00 2.32
817 1028 1.439679 AAACTCGGCGTGAAAGATCC 58.560 50.000 16.57 0.00 0.00 3.36
913 1128 2.831526 GCTCCTCTGTTCTCTTCTCCTT 59.168 50.000 0.00 0.00 0.00 3.36
916 1131 2.301296 CCTCTGTTCTCTTCTCCTTGCA 59.699 50.000 0.00 0.00 0.00 4.08
917 1132 3.055240 CCTCTGTTCTCTTCTCCTTGCAT 60.055 47.826 0.00 0.00 0.00 3.96
918 1133 4.565236 CCTCTGTTCTCTTCTCCTTGCATT 60.565 45.833 0.00 0.00 0.00 3.56
933 1148 6.623329 TCCTTGCATTATTATTTCCCTCCAT 58.377 36.000 0.00 0.00 0.00 3.41
964 1185 3.036429 ATCCAGCCGCAACTCTCCC 62.036 63.158 0.00 0.00 0.00 4.30
1272 1502 0.032130 TGAGTTGAGCTGACGGTGTC 59.968 55.000 0.00 0.00 0.00 3.67
1413 1643 3.441290 CGCTTCCTCCTCGTCGGT 61.441 66.667 0.00 0.00 0.00 4.69
1598 1837 3.136123 CAACATCTGCCCCGGCTG 61.136 66.667 7.35 6.78 42.51 4.85
1599 1838 4.431131 AACATCTGCCCCGGCTGG 62.431 66.667 3.88 3.88 42.51 4.85
1723 1965 0.929615 CGCCAAAACCTTTGCACTTG 59.070 50.000 0.00 0.00 0.00 3.16
1882 2124 3.637273 AGGAGTTTCCGGCCGCTT 61.637 61.111 22.85 1.64 42.75 4.68
2092 2334 4.261781 CGGGCGAGCTACGTACCC 62.262 72.222 7.92 7.92 44.60 3.69
2149 2429 0.865769 CGTTGTAGCTTGGTGTGACC 59.134 55.000 0.00 0.00 39.22 4.02
2177 2457 1.390565 ACCGAACTCTAGTAGCGCAT 58.609 50.000 11.47 0.00 0.00 4.73
2203 2485 6.764308 ATGGTAGTAGAGTACGCTGTTTTA 57.236 37.500 9.63 0.00 0.00 1.52
2205 2487 6.558009 TGGTAGTAGAGTACGCTGTTTTATG 58.442 40.000 9.63 0.00 0.00 1.90
2206 2488 5.458126 GGTAGTAGAGTACGCTGTTTTATGC 59.542 44.000 9.63 0.00 0.00 3.14
2207 2489 5.068234 AGTAGAGTACGCTGTTTTATGCA 57.932 39.130 9.63 0.00 0.00 3.96
2276 2558 5.413309 AATCGTGATCTCCTTCAACTCTT 57.587 39.130 0.00 0.00 0.00 2.85
2277 2559 4.442375 TCGTGATCTCCTTCAACTCTTC 57.558 45.455 0.00 0.00 0.00 2.87
2278 2560 3.826729 TCGTGATCTCCTTCAACTCTTCA 59.173 43.478 0.00 0.00 0.00 3.02
2279 2561 4.280929 TCGTGATCTCCTTCAACTCTTCAA 59.719 41.667 0.00 0.00 0.00 2.69
2280 2562 4.387256 CGTGATCTCCTTCAACTCTTCAAC 59.613 45.833 0.00 0.00 0.00 3.18
2281 2563 5.546526 GTGATCTCCTTCAACTCTTCAACT 58.453 41.667 0.00 0.00 0.00 3.16
2282 2564 5.637387 GTGATCTCCTTCAACTCTTCAACTC 59.363 44.000 0.00 0.00 0.00 3.01
2283 2565 5.541868 TGATCTCCTTCAACTCTTCAACTCT 59.458 40.000 0.00 0.00 0.00 3.24
2284 2566 6.721668 TGATCTCCTTCAACTCTTCAACTCTA 59.278 38.462 0.00 0.00 0.00 2.43
2285 2567 7.398618 TGATCTCCTTCAACTCTTCAACTCTAT 59.601 37.037 0.00 0.00 0.00 1.98
2286 2568 7.164230 TCTCCTTCAACTCTTCAACTCTATC 57.836 40.000 0.00 0.00 0.00 2.08
2287 2569 6.721668 TCTCCTTCAACTCTTCAACTCTATCA 59.278 38.462 0.00 0.00 0.00 2.15
2288 2570 6.929625 TCCTTCAACTCTTCAACTCTATCAG 58.070 40.000 0.00 0.00 0.00 2.90
2289 2571 6.721668 TCCTTCAACTCTTCAACTCTATCAGA 59.278 38.462 0.00 0.00 0.00 3.27
2290 2572 6.811170 CCTTCAACTCTTCAACTCTATCAGAC 59.189 42.308 0.00 0.00 0.00 3.51
2291 2573 6.901081 TCAACTCTTCAACTCTATCAGACA 57.099 37.500 0.00 0.00 0.00 3.41
2292 2574 7.473735 TCAACTCTTCAACTCTATCAGACAT 57.526 36.000 0.00 0.00 0.00 3.06
2296 2578 7.546358 ACTCTTCAACTCTATCAGACATTCAG 58.454 38.462 0.00 0.00 0.00 3.02
2318 2600 3.638484 ACCTGAAAACTAAATTGCACGC 58.362 40.909 0.00 0.00 0.00 5.34
2342 2639 6.483307 GCATCTCCAAGCAAGTAATGTGTATA 59.517 38.462 0.00 0.00 0.00 1.47
2343 2640 7.307632 GCATCTCCAAGCAAGTAATGTGTATAG 60.308 40.741 0.00 0.00 0.00 1.31
2349 2646 5.360591 AGCAAGTAATGTGTATAGGACTGC 58.639 41.667 0.00 0.00 0.00 4.40
2391 2709 4.737855 TGTATGCTTCTGTTCTACTCCC 57.262 45.455 0.00 0.00 0.00 4.30
2392 2710 4.353777 TGTATGCTTCTGTTCTACTCCCT 58.646 43.478 0.00 0.00 0.00 4.20
2394 2712 2.180276 TGCTTCTGTTCTACTCCCTCC 58.820 52.381 0.00 0.00 0.00 4.30
2395 2713 1.135333 GCTTCTGTTCTACTCCCTCCG 59.865 57.143 0.00 0.00 0.00 4.63
2396 2714 2.448453 CTTCTGTTCTACTCCCTCCGT 58.552 52.381 0.00 0.00 0.00 4.69
2398 2716 3.726557 TCTGTTCTACTCCCTCCGTAA 57.273 47.619 0.00 0.00 0.00 3.18
2399 2717 3.350833 TCTGTTCTACTCCCTCCGTAAC 58.649 50.000 0.00 0.00 0.00 2.50
2401 2719 3.762823 CTGTTCTACTCCCTCCGTAACTT 59.237 47.826 0.00 0.00 0.00 2.66
2402 2720 4.154942 TGTTCTACTCCCTCCGTAACTTT 58.845 43.478 0.00 0.00 0.00 2.66
2403 2721 5.324409 TGTTCTACTCCCTCCGTAACTTTA 58.676 41.667 0.00 0.00 0.00 1.85
2404 2722 5.774690 TGTTCTACTCCCTCCGTAACTTTAA 59.225 40.000 0.00 0.00 0.00 1.52
2405 2723 6.267471 TGTTCTACTCCCTCCGTAACTTTAAA 59.733 38.462 0.00 0.00 0.00 1.52
2406 2724 6.916360 TCTACTCCCTCCGTAACTTTAAAA 57.084 37.500 0.00 0.00 0.00 1.52
2407 2725 7.301868 TCTACTCCCTCCGTAACTTTAAAAA 57.698 36.000 0.00 0.00 0.00 1.94
2408 2726 7.910584 TCTACTCCCTCCGTAACTTTAAAAAT 58.089 34.615 0.00 0.00 0.00 1.82
2409 2727 9.034800 TCTACTCCCTCCGTAACTTTAAAAATA 57.965 33.333 0.00 0.00 0.00 1.40
2410 2728 9.657419 CTACTCCCTCCGTAACTTTAAAAATAA 57.343 33.333 0.00 0.00 0.00 1.40
2438 2756 3.570926 TTGTAAAGAGCTCGTCGATGT 57.429 42.857 8.37 0.00 0.00 3.06
2439 2757 4.690184 TTGTAAAGAGCTCGTCGATGTA 57.310 40.909 8.37 0.00 0.00 2.29
2440 2758 4.274421 TGTAAAGAGCTCGTCGATGTAG 57.726 45.455 8.37 2.41 0.00 2.74
2441 2759 2.196295 AAAGAGCTCGTCGATGTAGC 57.804 50.000 8.37 16.52 36.48 3.58
2442 2760 1.095600 AAGAGCTCGTCGATGTAGCA 58.904 50.000 22.50 0.00 38.75 3.49
2443 2761 1.313772 AGAGCTCGTCGATGTAGCAT 58.686 50.000 22.50 12.87 38.75 3.79
2444 2762 2.495084 AGAGCTCGTCGATGTAGCATA 58.505 47.619 22.50 0.00 38.75 3.14
2445 2763 2.482336 AGAGCTCGTCGATGTAGCATAG 59.518 50.000 22.50 7.77 38.75 2.23
2446 2764 2.222886 AGCTCGTCGATGTAGCATAGT 58.777 47.619 22.50 7.07 38.75 2.12
2447 2765 2.224549 AGCTCGTCGATGTAGCATAGTC 59.775 50.000 22.50 4.43 38.75 2.59
2448 2766 2.828741 CTCGTCGATGTAGCATAGTCG 58.171 52.381 4.21 3.57 32.93 4.18
2449 2767 1.070108 TCGTCGATGTAGCATAGTCGC 60.070 52.381 4.21 0.00 32.06 5.19
2450 2768 1.333791 CGTCGATGTAGCATAGTCGCA 60.334 52.381 0.00 0.00 32.06 5.10
2451 2769 2.044860 GTCGATGTAGCATAGTCGCAC 58.955 52.381 0.00 0.00 32.06 5.34
2452 2770 1.947456 TCGATGTAGCATAGTCGCACT 59.053 47.619 0.00 0.00 32.06 4.40
2453 2771 2.357952 TCGATGTAGCATAGTCGCACTT 59.642 45.455 0.00 0.00 32.06 3.16
2454 2772 3.116300 CGATGTAGCATAGTCGCACTTT 58.884 45.455 0.00 0.00 0.00 2.66
2455 2773 3.551890 CGATGTAGCATAGTCGCACTTTT 59.448 43.478 0.00 0.00 0.00 2.27
2456 2774 4.738252 CGATGTAGCATAGTCGCACTTTTA 59.262 41.667 0.00 0.00 0.00 1.52
2457 2775 5.402568 CGATGTAGCATAGTCGCACTTTTAT 59.597 40.000 0.00 0.00 0.00 1.40
2458 2776 6.581166 CGATGTAGCATAGTCGCACTTTTATA 59.419 38.462 0.00 0.00 0.00 0.98
2459 2777 7.273598 CGATGTAGCATAGTCGCACTTTTATAT 59.726 37.037 0.00 0.00 0.00 0.86
2460 2778 9.569167 GATGTAGCATAGTCGCACTTTTATATA 57.431 33.333 0.00 0.00 0.00 0.86
2461 2779 8.965986 TGTAGCATAGTCGCACTTTTATATAG 57.034 34.615 0.00 0.00 0.00 1.31
2462 2780 8.789762 TGTAGCATAGTCGCACTTTTATATAGA 58.210 33.333 0.00 0.00 0.00 1.98
2463 2781 9.622004 GTAGCATAGTCGCACTTTTATATAGAA 57.378 33.333 0.00 0.00 0.00 2.10
2464 2782 8.749841 AGCATAGTCGCACTTTTATATAGAAG 57.250 34.615 10.66 10.66 0.00 2.85
2465 2783 8.577296 AGCATAGTCGCACTTTTATATAGAAGA 58.423 33.333 17.49 0.00 0.00 2.87
2466 2784 9.193133 GCATAGTCGCACTTTTATATAGAAGAA 57.807 33.333 17.49 0.83 0.00 2.52
2468 2786 7.701809 AGTCGCACTTTTATATAGAAGAAGC 57.298 36.000 17.49 17.32 0.00 3.86
2469 2787 6.702282 AGTCGCACTTTTATATAGAAGAAGCC 59.298 38.462 17.49 9.94 0.00 4.35
2470 2788 5.989777 TCGCACTTTTATATAGAAGAAGCCC 59.010 40.000 17.49 3.03 0.00 5.19
2471 2789 5.758296 CGCACTTTTATATAGAAGAAGCCCA 59.242 40.000 17.49 0.00 0.00 5.36
2472 2790 6.428159 CGCACTTTTATATAGAAGAAGCCCAT 59.572 38.462 17.49 0.00 0.00 4.00
2473 2791 7.360438 CGCACTTTTATATAGAAGAAGCCCATC 60.360 40.741 17.49 0.17 0.00 3.51
2474 2792 7.094592 GCACTTTTATATAGAAGAAGCCCATCC 60.095 40.741 17.49 0.00 0.00 3.51
2475 2793 7.118390 CACTTTTATATAGAAGAAGCCCATCCG 59.882 40.741 17.49 0.00 0.00 4.18
2476 2794 5.677319 TTATATAGAAGAAGCCCATCCGG 57.323 43.478 0.00 0.00 0.00 5.14
2477 2795 1.807814 ATAGAAGAAGCCCATCCGGT 58.192 50.000 0.00 0.00 0.00 5.28
2478 2796 1.580059 TAGAAGAAGCCCATCCGGTT 58.420 50.000 0.00 0.00 0.00 4.44
2479 2797 0.035056 AGAAGAAGCCCATCCGGTTG 60.035 55.000 0.00 2.69 0.00 3.77
2480 2798 0.035439 GAAGAAGCCCATCCGGTTGA 60.035 55.000 14.27 0.00 0.00 3.18
2481 2799 0.625849 AAGAAGCCCATCCGGTTGAT 59.374 50.000 14.27 0.00 0.00 2.57
2482 2800 1.507140 AGAAGCCCATCCGGTTGATA 58.493 50.000 14.27 0.00 30.56 2.15
2483 2801 2.057922 AGAAGCCCATCCGGTTGATAT 58.942 47.619 14.27 0.00 30.56 1.63
2484 2802 2.039084 AGAAGCCCATCCGGTTGATATC 59.961 50.000 14.27 6.74 30.56 1.63
2485 2803 1.734655 AGCCCATCCGGTTGATATCT 58.265 50.000 14.27 2.64 30.56 1.98
2486 2804 1.625818 AGCCCATCCGGTTGATATCTC 59.374 52.381 14.27 0.00 30.56 2.75
2487 2805 1.673033 GCCCATCCGGTTGATATCTCG 60.673 57.143 14.27 5.63 30.56 4.04
2488 2806 1.066858 CCCATCCGGTTGATATCTCGG 60.067 57.143 14.27 19.42 43.42 4.63
2493 2811 4.252971 TCCGGTTGATATCTCGGAAATC 57.747 45.455 23.12 3.74 46.93 2.17
2494 2812 3.006537 TCCGGTTGATATCTCGGAAATCC 59.993 47.826 23.12 4.87 46.93 3.01
2495 2813 3.244078 CCGGTTGATATCTCGGAAATCCA 60.244 47.826 20.27 0.00 44.69 3.41
2496 2814 3.990469 CGGTTGATATCTCGGAAATCCAG 59.010 47.826 3.98 0.00 35.14 3.86
2497 2815 4.501571 CGGTTGATATCTCGGAAATCCAGT 60.502 45.833 3.98 0.00 35.14 4.00
2498 2816 5.368989 GGTTGATATCTCGGAAATCCAGTT 58.631 41.667 3.98 0.00 35.14 3.16
2499 2817 5.237344 GGTTGATATCTCGGAAATCCAGTTG 59.763 44.000 3.98 0.00 35.14 3.16
2500 2818 5.869649 TGATATCTCGGAAATCCAGTTGA 57.130 39.130 3.98 0.00 35.14 3.18
2501 2819 6.425210 TGATATCTCGGAAATCCAGTTGAT 57.575 37.500 3.98 0.64 35.14 2.57
2502 2820 7.539034 TGATATCTCGGAAATCCAGTTGATA 57.461 36.000 3.98 2.64 35.14 2.15
2503 2821 8.138928 TGATATCTCGGAAATCCAGTTGATAT 57.861 34.615 3.98 6.70 35.14 1.63
2504 2822 8.253810 TGATATCTCGGAAATCCAGTTGATATC 58.746 37.037 20.01 20.01 35.14 1.63
2505 2823 5.869649 TCTCGGAAATCCAGTTGATATCA 57.130 39.130 0.00 0.00 35.14 2.15
2506 2824 5.601662 TCTCGGAAATCCAGTTGATATCAC 58.398 41.667 4.48 1.12 35.14 3.06
2507 2825 4.368315 TCGGAAATCCAGTTGATATCACG 58.632 43.478 4.48 1.88 35.14 4.35
2508 2826 3.494626 CGGAAATCCAGTTGATATCACGG 59.505 47.826 4.48 6.78 35.14 4.94
2509 2827 4.703897 GGAAATCCAGTTGATATCACGGA 58.296 43.478 16.30 16.30 35.64 4.69
2510 2828 5.123227 GGAAATCCAGTTGATATCACGGAA 58.877 41.667 17.39 0.00 35.64 4.30
2511 2829 5.588648 GGAAATCCAGTTGATATCACGGAAA 59.411 40.000 17.39 0.00 35.64 3.13
2512 2830 6.263168 GGAAATCCAGTTGATATCACGGAAAT 59.737 38.462 17.39 11.35 35.64 2.17
2513 2831 7.201821 GGAAATCCAGTTGATATCACGGAAATT 60.202 37.037 17.39 15.31 35.64 1.82
2514 2832 6.867662 ATCCAGTTGATATCACGGAAATTC 57.132 37.500 17.39 0.00 0.00 2.17
2515 2833 5.739959 TCCAGTTGATATCACGGAAATTCA 58.260 37.500 4.48 0.00 0.00 2.57
2516 2834 5.584649 TCCAGTTGATATCACGGAAATTCAC 59.415 40.000 4.48 0.00 0.00 3.18
2517 2835 5.586243 CCAGTTGATATCACGGAAATTCACT 59.414 40.000 4.48 0.00 0.00 3.41
2518 2836 6.238211 CCAGTTGATATCACGGAAATTCACTC 60.238 42.308 4.48 0.00 0.00 3.51
2519 2837 6.536582 CAGTTGATATCACGGAAATTCACTCT 59.463 38.462 4.48 0.00 0.00 3.24
2520 2838 7.065085 CAGTTGATATCACGGAAATTCACTCTT 59.935 37.037 4.48 0.00 0.00 2.85
2548 2866 1.067071 GTCGAACCCCAGTCTACAAGG 60.067 57.143 0.00 0.00 0.00 3.61
2553 2871 1.897802 ACCCCAGTCTACAAGGTAACG 59.102 52.381 0.00 0.00 46.39 3.18
2575 3074 1.597854 CTGCGTCCTTGCCACTGAA 60.598 57.895 0.00 0.00 0.00 3.02
2581 3080 2.805295 CGTCCTTGCCACTGAACTACAA 60.805 50.000 0.00 0.00 0.00 2.41
2583 3082 2.438021 TCCTTGCCACTGAACTACAACT 59.562 45.455 0.00 0.00 0.00 3.16
2584 3083 2.808543 CCTTGCCACTGAACTACAACTC 59.191 50.000 0.00 0.00 0.00 3.01
2595 3094 4.278669 TGAACTACAACTCAGTCCTCACTC 59.721 45.833 0.00 0.00 0.00 3.51
2597 3096 2.390225 ACAACTCAGTCCTCACTCCT 57.610 50.000 0.00 0.00 0.00 3.69
2599 3098 2.630580 ACAACTCAGTCCTCACTCCTTC 59.369 50.000 0.00 0.00 0.00 3.46
2600 3099 2.896685 CAACTCAGTCCTCACTCCTTCT 59.103 50.000 0.00 0.00 0.00 2.85
2601 3100 2.524306 ACTCAGTCCTCACTCCTTCTG 58.476 52.381 0.00 0.00 0.00 3.02
2651 3150 5.657302 ACACTATCACCGAGGAAGTTTCTAT 59.343 40.000 0.00 0.00 0.00 1.98
2661 3160 7.029563 CCGAGGAAGTTTCTATCAAAATTTGG 58.970 38.462 5.83 0.00 0.00 3.28
2675 3174 7.189079 TCAAAATTTGGAAACTAACTGGGTT 57.811 32.000 5.83 0.00 0.00 4.11
2684 3183 7.804147 TGGAAACTAACTGGGTTACTTTAGAA 58.196 34.615 0.00 0.00 0.00 2.10
2699 3198 9.899226 GTTACTTTAGAACATTGCTGATTTTCT 57.101 29.630 7.07 7.07 38.16 2.52
2766 3268 2.793933 CATCGTGTACCCTCGTGTTAG 58.206 52.381 0.00 0.00 0.00 2.34
2793 3295 6.128580 GCAGACAACAATTGTTTGTCAAAACT 60.129 34.615 32.04 20.22 45.30 2.66
2805 3307 8.300495 TGTTTGTCAAAACTAAAACTGAAACC 57.700 30.769 0.00 0.00 45.01 3.27
2806 3308 8.145122 TGTTTGTCAAAACTAAAACTGAAACCT 58.855 29.630 0.00 0.00 45.01 3.50
2868 3380 1.795962 GCGCGTGTGTTGTAATGGC 60.796 57.895 8.43 0.00 0.00 4.40
2885 3397 7.948357 TGTAATGGCGTACTATGAAATACTCT 58.052 34.615 0.00 0.00 0.00 3.24
2893 3405 6.347563 CGTACTATGAAATACTCTCTCCGTCC 60.348 46.154 0.00 0.00 0.00 4.79
2910 3423 4.069304 CCGTCCCAAATAAGTGTCTCAAA 58.931 43.478 0.00 0.00 0.00 2.69
2915 3428 7.360101 CGTCCCAAATAAGTGTCTCAAACTTAG 60.360 40.741 2.85 0.00 41.95 2.18
3022 3573 0.988832 AACTTATGGGGGCAAGTCGA 59.011 50.000 0.00 0.00 33.92 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.661498 GGGAAAAGCCTAGCAGCAGC 61.661 60.000 0.00 0.00 37.73 5.25
9 10 0.034670 AGGGAAAAGCCTAGCAGCAG 60.035 55.000 0.00 0.00 36.66 4.24
10 11 1.210478 CTAGGGAAAAGCCTAGCAGCA 59.790 52.381 0.00 0.00 36.66 4.41
11 12 1.210722 ACTAGGGAAAAGCCTAGCAGC 59.789 52.381 0.00 0.00 39.48 5.25
12 13 3.707102 ACTACTAGGGAAAAGCCTAGCAG 59.293 47.826 0.00 0.00 39.48 4.24
13 14 3.451178 CACTACTAGGGAAAAGCCTAGCA 59.549 47.826 0.00 0.00 39.48 3.49
14 15 3.741700 GCACTACTAGGGAAAAGCCTAGC 60.742 52.174 0.00 0.00 39.48 3.42
15 16 3.451178 TGCACTACTAGGGAAAAGCCTAG 59.549 47.826 0.00 0.00 41.06 3.02
16 17 3.197116 GTGCACTACTAGGGAAAAGCCTA 59.803 47.826 10.32 0.00 36.66 3.93
17 18 2.027100 GTGCACTACTAGGGAAAAGCCT 60.027 50.000 10.32 0.00 36.66 4.58
18 19 2.357075 GTGCACTACTAGGGAAAAGCC 58.643 52.381 10.32 0.00 0.00 4.35
19 20 2.357075 GGTGCACTACTAGGGAAAAGC 58.643 52.381 17.98 0.00 0.00 3.51
20 21 2.355818 GGGGTGCACTACTAGGGAAAAG 60.356 54.545 17.98 0.00 0.00 2.27
21 22 1.631898 GGGGTGCACTACTAGGGAAAA 59.368 52.381 17.98 0.00 0.00 2.29
22 23 1.282382 GGGGTGCACTACTAGGGAAA 58.718 55.000 17.98 0.00 0.00 3.13
23 24 0.619543 GGGGGTGCACTACTAGGGAA 60.620 60.000 17.98 0.00 0.00 3.97
24 25 1.002533 GGGGGTGCACTACTAGGGA 59.997 63.158 17.98 0.00 0.00 4.20
25 26 1.003051 AGGGGGTGCACTACTAGGG 59.997 63.158 17.98 0.00 0.00 3.53
26 27 0.325296 TGAGGGGGTGCACTACTAGG 60.325 60.000 17.98 0.00 0.00 3.02
27 28 0.824759 GTGAGGGGGTGCACTACTAG 59.175 60.000 17.98 0.00 32.44 2.57
28 29 0.616679 GGTGAGGGGGTGCACTACTA 60.617 60.000 17.98 0.00 35.43 1.82
29 30 1.918800 GGTGAGGGGGTGCACTACT 60.919 63.158 17.98 12.24 35.43 2.57
30 31 2.669240 GGTGAGGGGGTGCACTAC 59.331 66.667 17.98 10.13 35.43 2.73
31 32 2.609610 GGGTGAGGGGGTGCACTA 60.610 66.667 17.98 0.00 35.43 2.74
50 51 5.096443 TGTGTATGTCATATGTTGGCAGA 57.904 39.130 1.90 0.00 44.71 4.26
52 53 5.465056 CGTATGTGTATGTCATATGTTGGCA 59.535 40.000 1.90 0.00 45.78 4.92
78 79 6.748333 TCAAAATCTCAAGACTATGGCTTG 57.252 37.500 6.81 6.81 43.09 4.01
97 98 8.690203 TGAGACTAAATTGGTCAAGATTCAAA 57.310 30.769 11.93 0.00 36.29 2.69
98 99 8.567948 GTTGAGACTAAATTGGTCAAGATTCAA 58.432 33.333 11.93 9.07 36.29 2.69
99 100 7.939039 AGTTGAGACTAAATTGGTCAAGATTCA 59.061 33.333 11.93 3.66 36.29 2.57
111 112 7.805071 CGATCAAAGCAAAGTTGAGACTAAATT 59.195 33.333 0.00 0.00 38.34 1.82
148 149 2.120312 TGTAATCATGGCGGGAGGTTA 58.880 47.619 0.00 0.00 0.00 2.85
209 210 8.930846 ACCCTATACTAGTTCGAGCTTAATTA 57.069 34.615 7.22 0.00 0.00 1.40
319 320 1.734465 CCGAGTGACAATCAAGAAGCC 59.266 52.381 3.52 0.00 0.00 4.35
363 561 3.120060 GCTACGACTACGAGGTGAGAAAA 60.120 47.826 0.00 0.00 42.66 2.29
439 640 1.404181 GCCACACTATCACGAAGAGCA 60.404 52.381 0.00 0.00 0.00 4.26
480 681 5.239963 TGGTAATTTTTCTCACCCTTTCGAC 59.760 40.000 0.00 0.00 0.00 4.20
522 723 4.699925 ACTTTTAGCAGACCTGGTGTTA 57.300 40.909 2.82 0.00 41.87 2.41
524 725 3.577805 AACTTTTAGCAGACCTGGTGT 57.422 42.857 2.82 0.00 41.87 4.16
527 728 5.281727 GTTCAAAACTTTTAGCAGACCTGG 58.718 41.667 0.00 0.00 0.00 4.45
530 731 5.515797 AGGTTCAAAACTTTTAGCAGACC 57.484 39.130 0.00 0.00 0.00 3.85
536 737 8.655651 TTTGGCATAAGGTTCAAAACTTTTAG 57.344 30.769 0.00 0.00 32.56 1.85
538 739 7.929941 TTTTGGCATAAGGTTCAAAACTTTT 57.070 28.000 0.00 0.00 35.16 2.27
542 743 5.238432 CCCTTTTTGGCATAAGGTTCAAAAC 59.762 40.000 20.85 0.00 39.43 2.43
546 747 3.850752 TCCCTTTTTGGCATAAGGTTCA 58.149 40.909 20.85 7.73 39.43 3.18
575 776 9.371136 CTGTGTCAGCTTAAAATGTATCTTCTA 57.629 33.333 0.00 0.00 0.00 2.10
576 777 7.880195 ACTGTGTCAGCTTAAAATGTATCTTCT 59.120 33.333 0.00 0.00 34.37 2.85
600 801 3.953775 CCGTGGAGGTGGGCAACT 61.954 66.667 0.00 0.00 34.51 3.16
651 855 1.908340 GAGGGAGTCAGTGCTGGCAT 61.908 60.000 6.57 0.00 37.73 4.40
666 870 1.938585 TCTGTACTTCAGGGTGAGGG 58.061 55.000 0.00 0.00 43.76 4.30
702 906 8.364894 ACTCCAAAATATCCTTAACAAAACCAC 58.635 33.333 0.00 0.00 0.00 4.16
766 975 1.526464 CGCATGGGTTTGTTCAAAAGC 59.474 47.619 0.68 0.00 0.00 3.51
817 1028 0.743688 CATGACAGGGAGACGAGAGG 59.256 60.000 0.00 0.00 0.00 3.69
913 1128 6.045931 AGGAGATGGAGGGAAATAATAATGCA 59.954 38.462 0.00 0.00 0.00 3.96
916 1131 7.522529 AGGAAGGAGATGGAGGGAAATAATAAT 59.477 37.037 0.00 0.00 0.00 1.28
917 1132 6.857222 AGGAAGGAGATGGAGGGAAATAATAA 59.143 38.462 0.00 0.00 0.00 1.40
918 1133 6.402442 AGGAAGGAGATGGAGGGAAATAATA 58.598 40.000 0.00 0.00 0.00 0.98
933 1148 1.680522 GCTGGATGCGAGGAAGGAGA 61.681 60.000 0.00 0.00 0.00 3.71
964 1185 1.202927 TGGAAGCAAGTCAAAGGAGGG 60.203 52.381 0.00 0.00 0.00 4.30
1257 1482 0.464036 AACAGACACCGTCAGCTCAA 59.536 50.000 0.00 0.00 34.60 3.02
1272 1502 2.798283 CTGCAAACAATCCAGCAAACAG 59.202 45.455 0.00 0.00 36.44 3.16
1362 1592 4.299547 AGCTCGTTGGCGCTGTGA 62.300 61.111 7.64 0.00 38.14 3.58
1598 1837 0.733223 GAGGAGTTCGTCGACTTGCC 60.733 60.000 14.70 7.73 0.00 4.52
1599 1838 0.241481 AGAGGAGTTCGTCGACTTGC 59.759 55.000 14.70 3.06 36.02 4.01
1600 1839 2.586900 GAAGAGGAGTTCGTCGACTTG 58.413 52.381 14.70 0.00 36.02 3.16
1656 1898 2.353505 GGACAGAACCGGGTAAAGAGAC 60.354 54.545 6.32 0.00 0.00 3.36
1708 1950 0.908198 TGCCCAAGTGCAAAGGTTTT 59.092 45.000 0.00 0.00 38.56 2.43
1723 1965 2.044551 CCCCTTCTGCTTCTGCCC 60.045 66.667 0.00 0.00 38.71 5.36
1864 2106 3.901797 AAGCGGCCGGAAACTCCTG 62.902 63.158 29.38 0.00 33.30 3.86
2092 2334 1.264288 TGATGGATCGATCGAGTCACG 59.736 52.381 23.84 0.00 44.09 4.35
2096 2338 3.500299 CACTAGTGATGGATCGATCGAGT 59.500 47.826 23.84 11.52 0.00 4.18
2149 2429 5.051106 GCTACTAGAGTTCGGTACTACTTCG 60.051 48.000 0.00 0.00 37.17 3.79
2177 2457 5.287674 ACAGCGTACTCTACTACCATAGA 57.712 43.478 0.00 0.00 0.00 1.98
2203 2485 7.447545 ACAGCAACATCTCATTCTTATATGCAT 59.552 33.333 3.79 3.79 32.76 3.96
2205 2487 7.199541 ACAGCAACATCTCATTCTTATATGC 57.800 36.000 0.00 0.00 0.00 3.14
2206 2488 7.170489 ACGACAGCAACATCTCATTCTTATATG 59.830 37.037 0.00 0.00 0.00 1.78
2207 2489 7.212976 ACGACAGCAACATCTCATTCTTATAT 58.787 34.615 0.00 0.00 0.00 0.86
2276 2558 5.954752 AGGTCTGAATGTCTGATAGAGTTGA 59.045 40.000 0.00 0.00 0.00 3.18
2277 2559 6.041511 CAGGTCTGAATGTCTGATAGAGTTG 58.958 44.000 0.00 0.00 0.00 3.16
2278 2560 5.954752 TCAGGTCTGAATGTCTGATAGAGTT 59.045 40.000 0.00 0.00 36.53 3.01
2279 2561 5.514169 TCAGGTCTGAATGTCTGATAGAGT 58.486 41.667 0.00 0.00 36.53 3.24
2280 2562 6.462552 TTCAGGTCTGAATGTCTGATAGAG 57.537 41.667 9.13 0.00 43.90 2.43
2292 2574 6.503524 GTGCAATTTAGTTTTCAGGTCTGAA 58.496 36.000 9.13 9.13 46.72 3.02
2296 2578 3.668656 GCGTGCAATTTAGTTTTCAGGTC 59.331 43.478 0.00 0.00 0.00 3.85
2318 2600 6.932356 ATACACATTACTTGCTTGGAGATG 57.068 37.500 0.00 0.00 0.00 2.90
2342 2639 3.685139 TTCTCTCGAAAATGCAGTCCT 57.315 42.857 0.00 0.00 0.00 3.85
2343 2640 4.749245 TTTTCTCTCGAAAATGCAGTCC 57.251 40.909 0.00 0.00 42.51 3.85
2405 2723 8.398665 CGAGCTCTTTACAAGGCTTTATTATTT 58.601 33.333 12.85 0.00 35.90 1.40
2406 2724 7.553044 ACGAGCTCTTTACAAGGCTTTATTATT 59.447 33.333 12.85 0.00 35.90 1.40
2407 2725 7.048512 ACGAGCTCTTTACAAGGCTTTATTAT 58.951 34.615 12.85 0.00 35.90 1.28
2408 2726 6.403878 ACGAGCTCTTTACAAGGCTTTATTA 58.596 36.000 12.85 0.00 35.90 0.98
2409 2727 5.246307 ACGAGCTCTTTACAAGGCTTTATT 58.754 37.500 12.85 0.00 35.90 1.40
2410 2728 4.833390 ACGAGCTCTTTACAAGGCTTTAT 58.167 39.130 12.85 0.00 35.90 1.40
2411 2729 4.243270 GACGAGCTCTTTACAAGGCTTTA 58.757 43.478 12.85 0.00 35.90 1.85
2412 2730 3.067833 GACGAGCTCTTTACAAGGCTTT 58.932 45.455 12.85 0.00 35.90 3.51
2413 2731 2.689646 GACGAGCTCTTTACAAGGCTT 58.310 47.619 12.85 0.00 35.90 4.35
2414 2732 1.402984 CGACGAGCTCTTTACAAGGCT 60.403 52.381 12.85 0.00 37.61 4.58
2415 2733 0.992802 CGACGAGCTCTTTACAAGGC 59.007 55.000 12.85 0.00 0.00 4.35
2416 2734 2.631418 TCGACGAGCTCTTTACAAGG 57.369 50.000 12.85 0.00 0.00 3.61
2417 2735 3.502920 ACATCGACGAGCTCTTTACAAG 58.497 45.455 12.85 0.00 0.00 3.16
2418 2736 3.570926 ACATCGACGAGCTCTTTACAA 57.429 42.857 12.85 0.00 0.00 2.41
2419 2737 3.487042 GCTACATCGACGAGCTCTTTACA 60.487 47.826 12.85 0.00 33.28 2.41
2420 2738 3.037324 GCTACATCGACGAGCTCTTTAC 58.963 50.000 12.85 0.00 33.28 2.01
2421 2739 2.681344 TGCTACATCGACGAGCTCTTTA 59.319 45.455 12.85 0.00 37.12 1.85
2422 2740 1.472878 TGCTACATCGACGAGCTCTTT 59.527 47.619 12.85 0.00 37.12 2.52
2423 2741 1.095600 TGCTACATCGACGAGCTCTT 58.904 50.000 12.85 1.07 37.12 2.85
2424 2742 1.313772 ATGCTACATCGACGAGCTCT 58.686 50.000 12.85 0.00 37.12 4.09
2425 2743 2.224549 ACTATGCTACATCGACGAGCTC 59.775 50.000 2.73 2.73 37.12 4.09
2426 2744 2.222886 ACTATGCTACATCGACGAGCT 58.777 47.619 14.15 0.00 37.12 4.09
2427 2745 2.576406 GACTATGCTACATCGACGAGC 58.424 52.381 3.01 7.84 36.72 5.03
2428 2746 2.828741 CGACTATGCTACATCGACGAG 58.171 52.381 3.01 0.00 36.70 4.18
2429 2747 1.070108 GCGACTATGCTACATCGACGA 60.070 52.381 0.00 0.00 36.70 4.20
2430 2748 1.319172 GCGACTATGCTACATCGACG 58.681 55.000 0.00 0.00 36.70 5.12
2431 2749 2.044860 GTGCGACTATGCTACATCGAC 58.955 52.381 0.00 0.00 36.70 4.20
2432 2750 1.947456 AGTGCGACTATGCTACATCGA 59.053 47.619 5.41 0.00 36.70 3.59
2433 2751 2.407521 AGTGCGACTATGCTACATCG 57.592 50.000 0.00 0.00 37.63 3.84
2434 2752 6.771188 ATAAAAGTGCGACTATGCTACATC 57.229 37.500 0.00 0.00 35.36 3.06
2435 2753 9.574458 CTATATAAAAGTGCGACTATGCTACAT 57.426 33.333 0.00 0.00 35.36 2.29
2436 2754 8.789762 TCTATATAAAAGTGCGACTATGCTACA 58.210 33.333 0.00 0.00 35.36 2.74
2437 2755 9.622004 TTCTATATAAAAGTGCGACTATGCTAC 57.378 33.333 0.00 0.00 35.36 3.58
2438 2756 9.841880 CTTCTATATAAAAGTGCGACTATGCTA 57.158 33.333 0.00 0.00 35.36 3.49
2439 2757 8.577296 TCTTCTATATAAAAGTGCGACTATGCT 58.423 33.333 0.00 0.00 35.36 3.79
2440 2758 8.744008 TCTTCTATATAAAAGTGCGACTATGC 57.256 34.615 0.00 0.00 0.00 3.14
2442 2760 9.413048 GCTTCTTCTATATAAAAGTGCGACTAT 57.587 33.333 0.00 0.00 0.00 2.12
2443 2761 7.866393 GGCTTCTTCTATATAAAAGTGCGACTA 59.134 37.037 0.00 0.00 0.00 2.59
2444 2762 6.702282 GGCTTCTTCTATATAAAAGTGCGACT 59.298 38.462 0.00 0.00 0.00 4.18
2445 2763 6.073711 GGGCTTCTTCTATATAAAAGTGCGAC 60.074 42.308 0.00 0.00 0.00 5.19
2446 2764 5.989777 GGGCTTCTTCTATATAAAAGTGCGA 59.010 40.000 0.00 0.00 0.00 5.10
2447 2765 5.758296 TGGGCTTCTTCTATATAAAAGTGCG 59.242 40.000 0.00 0.00 0.00 5.34
2448 2766 7.094592 GGATGGGCTTCTTCTATATAAAAGTGC 60.095 40.741 0.00 2.88 0.00 4.40
2449 2767 7.118390 CGGATGGGCTTCTTCTATATAAAAGTG 59.882 40.741 0.00 0.00 0.00 3.16
2450 2768 7.162082 CGGATGGGCTTCTTCTATATAAAAGT 58.838 38.462 0.00 0.00 0.00 2.66
2451 2769 6.595716 CCGGATGGGCTTCTTCTATATAAAAG 59.404 42.308 0.00 0.00 0.00 2.27
2452 2770 6.043938 ACCGGATGGGCTTCTTCTATATAAAA 59.956 38.462 9.46 0.00 40.62 1.52
2453 2771 5.546499 ACCGGATGGGCTTCTTCTATATAAA 59.454 40.000 9.46 0.00 40.62 1.40
2454 2772 5.091552 ACCGGATGGGCTTCTTCTATATAA 58.908 41.667 9.46 0.00 40.62 0.98
2455 2773 4.684724 ACCGGATGGGCTTCTTCTATATA 58.315 43.478 9.46 0.00 40.62 0.86
2456 2774 3.521727 ACCGGATGGGCTTCTTCTATAT 58.478 45.455 9.46 0.00 40.62 0.86
2457 2775 2.972348 ACCGGATGGGCTTCTTCTATA 58.028 47.619 9.46 0.00 40.62 1.31
2458 2776 1.807814 ACCGGATGGGCTTCTTCTAT 58.192 50.000 9.46 0.00 40.62 1.98
2459 2777 1.209504 CAACCGGATGGGCTTCTTCTA 59.790 52.381 9.46 0.00 40.62 2.10
2460 2778 0.035056 CAACCGGATGGGCTTCTTCT 60.035 55.000 9.46 0.00 40.62 2.85
2461 2779 0.035439 TCAACCGGATGGGCTTCTTC 60.035 55.000 9.46 0.00 40.62 2.87
2462 2780 0.625849 ATCAACCGGATGGGCTTCTT 59.374 50.000 9.46 0.00 40.62 2.52
2463 2781 1.507140 TATCAACCGGATGGGCTTCT 58.493 50.000 9.46 0.00 40.62 2.85
2464 2782 2.039084 AGATATCAACCGGATGGGCTTC 59.961 50.000 9.46 2.60 40.62 3.86
2465 2783 2.039084 GAGATATCAACCGGATGGGCTT 59.961 50.000 9.46 0.00 40.62 4.35
2466 2784 1.625818 GAGATATCAACCGGATGGGCT 59.374 52.381 9.46 2.13 40.62 5.19
2467 2785 1.673033 CGAGATATCAACCGGATGGGC 60.673 57.143 9.46 0.00 40.62 5.36
2468 2786 1.066858 CCGAGATATCAACCGGATGGG 60.067 57.143 19.88 0.00 44.29 4.00
2469 2787 1.893137 TCCGAGATATCAACCGGATGG 59.107 52.381 21.92 0.00 45.04 3.51
2473 2791 3.244078 TGGATTTCCGAGATATCAACCGG 60.244 47.826 19.01 19.01 43.02 5.28
2474 2792 3.990092 TGGATTTCCGAGATATCAACCG 58.010 45.455 5.32 5.45 39.43 4.44
2475 2793 4.962155 ACTGGATTTCCGAGATATCAACC 58.038 43.478 5.32 0.00 39.43 3.77
2476 2794 6.049149 TCAACTGGATTTCCGAGATATCAAC 58.951 40.000 5.32 0.00 39.43 3.18
2477 2795 6.233905 TCAACTGGATTTCCGAGATATCAA 57.766 37.500 5.32 0.00 39.43 2.57
2478 2796 5.869649 TCAACTGGATTTCCGAGATATCA 57.130 39.130 5.32 0.00 39.43 2.15
2479 2797 8.253810 TGATATCAACTGGATTTCCGAGATATC 58.746 37.037 19.97 19.97 37.59 1.63
2480 2798 8.037758 GTGATATCAACTGGATTTCCGAGATAT 58.962 37.037 7.07 10.24 39.43 1.63
2481 2799 7.378966 GTGATATCAACTGGATTTCCGAGATA 58.621 38.462 7.07 0.00 39.43 1.98
2482 2800 6.226787 GTGATATCAACTGGATTTCCGAGAT 58.773 40.000 7.07 0.00 39.43 2.75
2483 2801 5.601662 GTGATATCAACTGGATTTCCGAGA 58.398 41.667 7.07 0.00 39.43 4.04
2484 2802 4.445718 CGTGATATCAACTGGATTTCCGAG 59.554 45.833 7.07 0.00 39.43 4.63
2485 2803 4.368315 CGTGATATCAACTGGATTTCCGA 58.632 43.478 7.07 0.00 39.43 4.55
2486 2804 3.494626 CCGTGATATCAACTGGATTTCCG 59.505 47.826 7.07 2.65 39.43 4.30
2487 2805 4.703897 TCCGTGATATCAACTGGATTTCC 58.296 43.478 7.07 0.00 37.44 3.13
2488 2806 6.677781 TTTCCGTGATATCAACTGGATTTC 57.322 37.500 18.30 0.18 37.44 2.17
2489 2807 7.339212 TGAATTTCCGTGATATCAACTGGATTT 59.661 33.333 18.30 15.41 37.44 2.17
2490 2808 6.828273 TGAATTTCCGTGATATCAACTGGATT 59.172 34.615 18.30 12.83 37.44 3.01
2491 2809 6.260936 GTGAATTTCCGTGATATCAACTGGAT 59.739 38.462 18.30 8.18 40.14 3.41
2492 2810 5.584649 GTGAATTTCCGTGATATCAACTGGA 59.415 40.000 7.07 12.18 0.00 3.86
2493 2811 5.586243 AGTGAATTTCCGTGATATCAACTGG 59.414 40.000 7.07 10.00 0.00 4.00
2494 2812 6.536582 AGAGTGAATTTCCGTGATATCAACTG 59.463 38.462 7.07 0.44 0.00 3.16
2495 2813 6.644347 AGAGTGAATTTCCGTGATATCAACT 58.356 36.000 7.07 3.79 0.00 3.16
2496 2814 6.910536 AGAGTGAATTTCCGTGATATCAAC 57.089 37.500 7.07 0.00 0.00 3.18
2497 2815 7.102993 TCAAGAGTGAATTTCCGTGATATCAA 58.897 34.615 7.07 0.00 0.00 2.57
2498 2816 6.639563 TCAAGAGTGAATTTCCGTGATATCA 58.360 36.000 0.00 0.00 0.00 2.15
2499 2817 7.307632 CCATCAAGAGTGAATTTCCGTGATATC 60.308 40.741 0.00 0.00 37.30 1.63
2500 2818 6.484643 CCATCAAGAGTGAATTTCCGTGATAT 59.515 38.462 0.00 0.00 37.30 1.63
2501 2819 5.817296 CCATCAAGAGTGAATTTCCGTGATA 59.183 40.000 0.00 0.00 37.30 2.15
2502 2820 4.637534 CCATCAAGAGTGAATTTCCGTGAT 59.362 41.667 0.00 0.00 37.30 3.06
2503 2821 4.002982 CCATCAAGAGTGAATTTCCGTGA 58.997 43.478 0.00 0.00 37.30 4.35
2504 2822 3.127548 CCCATCAAGAGTGAATTTCCGTG 59.872 47.826 0.00 0.00 37.30 4.94
2505 2823 3.009033 TCCCATCAAGAGTGAATTTCCGT 59.991 43.478 0.00 0.00 37.30 4.69
2506 2824 3.609853 TCCCATCAAGAGTGAATTTCCG 58.390 45.455 0.00 0.00 37.30 4.30
2507 2825 4.593956 ACTCCCATCAAGAGTGAATTTCC 58.406 43.478 0.00 0.00 42.94 3.13
2508 2826 4.331168 CGACTCCCATCAAGAGTGAATTTC 59.669 45.833 0.00 0.00 44.55 2.17
2509 2827 4.020218 TCGACTCCCATCAAGAGTGAATTT 60.020 41.667 0.00 0.00 44.55 1.82
2510 2828 3.515502 TCGACTCCCATCAAGAGTGAATT 59.484 43.478 0.00 0.00 44.55 2.17
2511 2829 3.099905 TCGACTCCCATCAAGAGTGAAT 58.900 45.455 0.00 0.00 44.55 2.57
2512 2830 2.525368 TCGACTCCCATCAAGAGTGAA 58.475 47.619 0.00 0.00 44.55 3.18
2513 2831 2.215942 TCGACTCCCATCAAGAGTGA 57.784 50.000 0.00 0.00 44.55 3.41
2514 2832 2.611518 GTTCGACTCCCATCAAGAGTG 58.388 52.381 0.00 0.00 44.55 3.51
2516 2834 1.134670 GGGTTCGACTCCCATCAAGAG 60.135 57.143 17.12 0.00 44.05 2.85
2517 2835 0.902531 GGGTTCGACTCCCATCAAGA 59.097 55.000 17.12 0.00 44.05 3.02
2518 2836 0.107654 GGGGTTCGACTCCCATCAAG 60.108 60.000 21.69 0.00 46.26 3.02
2519 2837 1.988015 GGGGTTCGACTCCCATCAA 59.012 57.895 21.69 0.00 46.26 2.57
2520 2838 3.721868 GGGGTTCGACTCCCATCA 58.278 61.111 21.69 0.00 46.26 3.07
2538 2856 2.029290 CAGTGGCGTTACCTTGTAGACT 60.029 50.000 0.00 0.00 40.22 3.24
2575 3074 3.158676 GGAGTGAGGACTGAGTTGTAGT 58.841 50.000 0.00 0.00 30.16 2.73
2581 3080 2.158385 ACAGAAGGAGTGAGGACTGAGT 60.158 50.000 0.00 0.00 30.16 3.41
2583 3082 2.685106 ACAGAAGGAGTGAGGACTGA 57.315 50.000 0.00 0.00 30.16 3.41
2584 3083 3.829601 AGTTACAGAAGGAGTGAGGACTG 59.170 47.826 0.00 0.00 30.16 3.51
2625 3124 2.803956 ACTTCCTCGGTGATAGTGTCA 58.196 47.619 0.00 0.00 0.00 3.58
2630 3129 6.392625 TGATAGAAACTTCCTCGGTGATAG 57.607 41.667 0.00 0.00 0.00 2.08
2632 3131 5.677319 TTGATAGAAACTTCCTCGGTGAT 57.323 39.130 0.00 0.00 0.00 3.06
2651 3150 6.800072 ACCCAGTTAGTTTCCAAATTTTGA 57.200 33.333 10.72 0.00 0.00 2.69
2661 3160 8.667076 TGTTCTAAAGTAACCCAGTTAGTTTC 57.333 34.615 18.68 9.17 43.69 2.78
2709 3208 9.028284 AGTCAACCATTCTATCAAATTGATGTT 57.972 29.630 17.93 9.47 37.70 2.71
2718 3217 5.491070 CTCACCAGTCAACCATTCTATCAA 58.509 41.667 0.00 0.00 0.00 2.57
2728 3227 0.819259 TGCAAGCTCACCAGTCAACC 60.819 55.000 0.00 0.00 0.00 3.77
2851 3353 1.508954 CGCCATTACAACACACGCG 60.509 57.895 3.53 3.53 0.00 6.01
2868 3380 6.347563 GGACGGAGAGAGTATTTCATAGTACG 60.348 46.154 0.00 0.00 0.00 3.67
2885 3397 3.170717 AGACACTTATTTGGGACGGAGA 58.829 45.455 0.00 0.00 0.00 3.71
2893 3405 9.268268 TGTACTAAGTTTGAGACACTTATTTGG 57.732 33.333 0.00 0.00 36.39 3.28
2939 3452 9.736023 GTCTCAAAATAAGTGTCTCAATTTTGT 57.264 29.630 15.19 0.00 44.18 2.83
2940 3453 8.895845 CGTCTCAAAATAAGTGTCTCAATTTTG 58.104 33.333 11.32 11.32 44.73 2.44
2942 3455 7.444183 TCCGTCTCAAAATAAGTGTCTCAATTT 59.556 33.333 0.00 0.00 0.00 1.82
2943 3456 6.934645 TCCGTCTCAAAATAAGTGTCTCAATT 59.065 34.615 0.00 0.00 0.00 2.32
2944 3457 6.464222 TCCGTCTCAAAATAAGTGTCTCAAT 58.536 36.000 0.00 0.00 0.00 2.57
2947 3460 4.865365 CCTCCGTCTCAAAATAAGTGTCTC 59.135 45.833 0.00 0.00 0.00 3.36
2948 3461 4.322801 CCCTCCGTCTCAAAATAAGTGTCT 60.323 45.833 0.00 0.00 0.00 3.41
2949 3462 3.933332 CCCTCCGTCTCAAAATAAGTGTC 59.067 47.826 0.00 0.00 0.00 3.67
2962 3513 2.830651 ATCAACTACTCCCTCCGTCT 57.169 50.000 0.00 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.