Multiple sequence alignment - TraesCS5A01G044200

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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 TraesCS5A01G044200 chr5A 100.000 3678 0 0 1 3678 40683722 40687399 0.000000e+00 6793.0
1 TraesCS5A01G044200 chr5A 87.532 778 67 17 555 1329 40934388 40935138 0.000000e+00 872.0
2 TraesCS5A01G044200 chr5A 87.532 778 67 17 555 1329 40968271 40969021 0.000000e+00 872.0
3 TraesCS5A01G044200 chr5A 87.532 778 67 17 555 1329 41005153 41005903 0.000000e+00 872.0
4 TraesCS5A01G044200 chr5A 87.162 740 61 20 613 1336 40628623 40629344 0.000000e+00 809.0
5 TraesCS5A01G044200 chr5A 84.986 726 61 31 593 1312 40812925 40813608 0.000000e+00 693.0
6 TraesCS5A01G044200 chr5A 88.580 324 21 9 614 929 40925041 40925356 2.680000e-101 379.0
7 TraesCS5A01G044200 chr3A 97.599 1583 33 3 1442 3021 32637760 32639340 0.000000e+00 2708.0
8 TraesCS5A01G044200 chr3A 97.090 1581 41 4 1442 3020 32701355 32702932 0.000000e+00 2660.0
9 TraesCS5A01G044200 chr3A 83.784 148 21 2 3371 3516 50817909 50818055 1.780000e-28 137.0
10 TraesCS5A01G044200 chr1A 96.587 1582 43 4 1442 3021 521851366 521849794 0.000000e+00 2612.0
11 TraesCS5A01G044200 chr1A 95.449 1582 64 7 1442 3021 501971239 501972814 0.000000e+00 2516.0
12 TraesCS5A01G044200 chr1A 95.208 1586 66 9 1442 3021 148613831 148615412 0.000000e+00 2499.0
13 TraesCS5A01G044200 chr4A 95.644 1584 59 7 1442 3021 609552376 609550799 0.000000e+00 2534.0
14 TraesCS5A01G044200 chr4A 84.106 302 44 4 3225 3525 723800279 723799981 4.650000e-74 289.0
15 TraesCS5A01G044200 chr4A 84.000 300 44 4 3225 3523 723746603 723746307 6.010000e-73 285.0
16 TraesCS5A01G044200 chr5B 95.457 1585 64 7 1442 3021 368804005 368805586 0.000000e+00 2521.0
17 TraesCS5A01G044200 chr5B 95.205 1585 67 8 1442 3021 271149668 271151248 0.000000e+00 2497.0
18 TraesCS5A01G044200 chr5B 95.142 1585 69 7 1442 3021 479813396 479814977 0.000000e+00 2494.0
19 TraesCS5A01G044200 chr5B 93.042 891 49 7 440 1329 54548954 54549832 0.000000e+00 1290.0
20 TraesCS5A01G044200 chr5B 87.291 779 66 22 555 1329 54859853 54860602 0.000000e+00 859.0
21 TraesCS5A01G044200 chr5B 86.980 745 54 26 620 1336 54508308 54509037 0.000000e+00 798.0
22 TraesCS5A01G044200 chr5B 85.302 762 67 31 572 1329 54709901 54710621 0.000000e+00 745.0
23 TraesCS5A01G044200 chr5B 87.069 116 6 4 3034 3142 54549873 54549986 4.990000e-24 122.0
24 TraesCS5A01G044200 chr5B 91.045 67 6 0 1363 1429 54710595 54710661 1.410000e-14 91.6
25 TraesCS5A01G044200 chr5B 85.714 84 3 1 3129 3203 54710741 54710824 3.040000e-11 80.5
26 TraesCS5A01G044200 chr5B 95.833 48 2 0 1363 1410 54860576 54860623 1.100000e-10 78.7
27 TraesCS5A01G044200 chr5D 93.154 891 46 9 443 1329 51674751 51675630 0.000000e+00 1293.0
28 TraesCS5A01G044200 chr5D 92.129 775 48 6 546 1313 51851859 51852627 0.000000e+00 1081.0
29 TraesCS5A01G044200 chr5D 88.123 783 53 22 555 1329 51860595 51861345 0.000000e+00 894.0
30 TraesCS5A01G044200 chr5D 91.194 670 35 8 3030 3677 51675667 51676334 0.000000e+00 889.0
31 TraesCS5A01G044200 chr5D 85.995 764 65 21 572 1329 51697938 51698665 0.000000e+00 780.0
32 TraesCS5A01G044200 chr5D 85.695 734 57 32 613 1336 51637161 51637856 0.000000e+00 730.0
33 TraesCS5A01G044200 chr5D 87.080 387 26 13 31 400 51671478 51671857 2.040000e-112 416.0
34 TraesCS5A01G044200 chr5D 77.778 297 60 6 3242 3534 42085934 42085640 1.050000e-40 178.0
35 TraesCS5A01G044200 chr5D 100.000 67 0 0 1363 1429 51675604 51675670 1.390000e-24 124.0
36 TraesCS5A01G044200 chr1B 81.347 386 57 7 3236 3609 512979596 512979978 2.150000e-77 300.0
37 TraesCS5A01G044200 chr3B 79.365 378 56 12 3211 3568 62414280 62414655 2.840000e-61 246.0
38 TraesCS5A01G044200 chr6D 78.412 403 65 14 3209 3594 114229252 114229649 3.670000e-60 243.0
39 TraesCS5A01G044200 chr4D 76.238 303 58 12 3242 3535 87540014 87539717 8.230000e-32 148.0


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 TraesCS5A01G044200 chr5A 40683722 40687399 3677 False 6793.00 6793 100.000000 1 3678 1 chr5A.!!$F2 3677
1 TraesCS5A01G044200 chr5A 40934388 40935138 750 False 872.00 872 87.532000 555 1329 1 chr5A.!!$F5 774
2 TraesCS5A01G044200 chr5A 40968271 40969021 750 False 872.00 872 87.532000 555 1329 1 chr5A.!!$F6 774
3 TraesCS5A01G044200 chr5A 41005153 41005903 750 False 872.00 872 87.532000 555 1329 1 chr5A.!!$F7 774
4 TraesCS5A01G044200 chr5A 40628623 40629344 721 False 809.00 809 87.162000 613 1336 1 chr5A.!!$F1 723
5 TraesCS5A01G044200 chr5A 40812925 40813608 683 False 693.00 693 84.986000 593 1312 1 chr5A.!!$F3 719
6 TraesCS5A01G044200 chr3A 32637760 32639340 1580 False 2708.00 2708 97.599000 1442 3021 1 chr3A.!!$F1 1579
7 TraesCS5A01G044200 chr3A 32701355 32702932 1577 False 2660.00 2660 97.090000 1442 3020 1 chr3A.!!$F2 1578
8 TraesCS5A01G044200 chr1A 521849794 521851366 1572 True 2612.00 2612 96.587000 1442 3021 1 chr1A.!!$R1 1579
9 TraesCS5A01G044200 chr1A 501971239 501972814 1575 False 2516.00 2516 95.449000 1442 3021 1 chr1A.!!$F2 1579
10 TraesCS5A01G044200 chr1A 148613831 148615412 1581 False 2499.00 2499 95.208000 1442 3021 1 chr1A.!!$F1 1579
11 TraesCS5A01G044200 chr4A 609550799 609552376 1577 True 2534.00 2534 95.644000 1442 3021 1 chr4A.!!$R1 1579
12 TraesCS5A01G044200 chr5B 368804005 368805586 1581 False 2521.00 2521 95.457000 1442 3021 1 chr5B.!!$F3 1579
13 TraesCS5A01G044200 chr5B 271149668 271151248 1580 False 2497.00 2497 95.205000 1442 3021 1 chr5B.!!$F2 1579
14 TraesCS5A01G044200 chr5B 479813396 479814977 1581 False 2494.00 2494 95.142000 1442 3021 1 chr5B.!!$F4 1579
15 TraesCS5A01G044200 chr5B 54508308 54509037 729 False 798.00 798 86.980000 620 1336 1 chr5B.!!$F1 716
16 TraesCS5A01G044200 chr5B 54548954 54549986 1032 False 706.00 1290 90.055500 440 3142 2 chr5B.!!$F5 2702
17 TraesCS5A01G044200 chr5B 54859853 54860623 770 False 468.85 859 91.562000 555 1410 2 chr5B.!!$F7 855
18 TraesCS5A01G044200 chr5B 54709901 54710824 923 False 305.70 745 87.353667 572 3203 3 chr5B.!!$F6 2631
19 TraesCS5A01G044200 chr5D 51851859 51852627 768 False 1081.00 1081 92.129000 546 1313 1 chr5D.!!$F3 767
20 TraesCS5A01G044200 chr5D 51860595 51861345 750 False 894.00 894 88.123000 555 1329 1 chr5D.!!$F4 774
21 TraesCS5A01G044200 chr5D 51697938 51698665 727 False 780.00 780 85.995000 572 1329 1 chr5D.!!$F2 757
22 TraesCS5A01G044200 chr5D 51637161 51637856 695 False 730.00 730 85.695000 613 1336 1 chr5D.!!$F1 723
23 TraesCS5A01G044200 chr5D 51671478 51676334 4856 False 680.50 1293 92.857000 31 3677 4 chr5D.!!$F5 3646

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
501 3367 1.004610 CGCGTGCTTTCATATGAGTGG 60.005 52.381 5.39 1.9 0.00 4.00 F
1361 4280 0.179073 GCGTATGCAGTGGAGATGGT 60.179 55.000 0.89 0.0 42.15 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1372 4291 0.039035 TACAAACCCCTCCCATGCAC 59.961 55.0 0.00 0.0 0.0 4.57 R
3349 6295 0.109086 CACGAGCTCCACGAATGTCT 60.109 55.0 8.47 0.0 34.7 3.41 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
34 35 7.418597 CCACTAGGGCATACTTCTAACATAACA 60.419 40.741 0.00 0.00 0.00 2.41
69 73 3.253921 TGTGTGCACCATCAAAATCTCTG 59.746 43.478 15.69 0.00 0.00 3.35
75 79 2.744202 ACCATCAAAATCTCTGACGCAC 59.256 45.455 0.00 0.00 0.00 5.34
76 80 2.743664 CCATCAAAATCTCTGACGCACA 59.256 45.455 0.00 0.00 0.00 4.57
94 98 1.043816 CACGATACCCTCAGATGGCT 58.956 55.000 0.00 0.00 0.00 4.75
95 99 2.239400 CACGATACCCTCAGATGGCTA 58.761 52.381 0.00 0.00 0.00 3.93
96 100 2.828520 CACGATACCCTCAGATGGCTAT 59.171 50.000 0.00 0.00 0.00 2.97
97 101 3.259374 CACGATACCCTCAGATGGCTATT 59.741 47.826 0.00 0.00 0.00 1.73
98 102 3.259374 ACGATACCCTCAGATGGCTATTG 59.741 47.826 0.00 0.00 0.00 1.90
99 103 3.259374 CGATACCCTCAGATGGCTATTGT 59.741 47.826 0.00 0.00 0.00 2.71
100 104 4.619394 CGATACCCTCAGATGGCTATTGTC 60.619 50.000 0.00 0.00 0.00 3.18
116 125 2.891191 TGTCAGGAAAATACCACCCC 57.109 50.000 0.00 0.00 0.00 4.95
139 148 9.747898 CCCCAGGTGTAGCATAAATATATAAAA 57.252 33.333 0.00 0.00 0.00 1.52
240 249 6.408858 TCGTTGAGCTGTAAATTTGAGATC 57.591 37.500 0.00 5.73 0.00 2.75
246 255 5.730550 AGCTGTAAATTTGAGATCACGGTA 58.269 37.500 0.00 0.00 0.00 4.02
303 315 8.943594 TTTGTTAATAAACACCCTAAGGACAT 57.056 30.769 0.00 0.00 45.18 3.06
311 323 5.313280 ACACCCTAAGGACATTTTGTACA 57.687 39.130 0.00 0.00 32.29 2.90
313 325 5.163131 ACACCCTAAGGACATTTTGTACACT 60.163 40.000 0.00 0.00 32.29 3.55
315 327 4.700213 CCCTAAGGACATTTTGTACACTGG 59.300 45.833 0.00 0.00 32.29 4.00
326 338 2.722094 TGTACACTGGAAATGGATGGC 58.278 47.619 0.00 0.00 0.00 4.40
364 377 3.921119 TTAGCCACATCTTTTGCACTG 57.079 42.857 0.00 0.00 0.00 3.66
384 397 7.170828 TGCACTGTAGACTGTTACAAGTATTTG 59.829 37.037 0.00 0.00 40.24 2.32
386 399 9.042008 CACTGTAGACTGTTACAAGTATTTGTT 57.958 33.333 9.05 0.00 45.01 2.83
389 403 7.658575 TGTAGACTGTTACAAGTATTTGTTCCC 59.341 37.037 9.05 0.00 45.01 3.97
400 414 9.760077 ACAAGTATTTGTTCCCGTCTTATATAG 57.240 33.333 0.00 0.00 45.01 1.31
469 3335 2.045131 GTCCTCGTGCTCGTAGGGT 61.045 63.158 19.42 0.00 36.12 4.34
478 3344 3.012518 GTGCTCGTAGGGTTAGAGTGTA 58.987 50.000 0.00 0.00 34.69 2.90
495 3361 2.032894 GTGTATGCGCGTGCTTTCATAT 60.033 45.455 23.16 8.47 43.34 1.78
501 3367 1.004610 CGCGTGCTTTCATATGAGTGG 60.005 52.381 5.39 1.90 0.00 4.00
508 3374 6.868339 CGTGCTTTCATATGAGTGGATGTATA 59.132 38.462 5.39 0.00 0.00 1.47
529 3395 8.951243 TGTATATGAGCATCTACATCTGTACTC 58.049 37.037 5.04 0.00 34.92 2.59
538 3404 7.497249 GCATCTACATCTGTACTCTTTTTGGAT 59.503 37.037 0.00 0.00 0.00 3.41
662 3528 3.581101 AGTCAGAGCTCCATGCCTTATA 58.419 45.455 10.93 0.00 44.23 0.98
764 3653 1.745087 CCACACTGAACCCATACATGC 59.255 52.381 0.00 0.00 0.00 4.06
765 3654 2.435422 CACACTGAACCCATACATGCA 58.565 47.619 0.00 0.00 0.00 3.96
766 3655 3.018856 CACACTGAACCCATACATGCAT 58.981 45.455 0.00 0.00 0.00 3.96
767 3656 3.018856 ACACTGAACCCATACATGCATG 58.981 45.455 25.09 25.09 0.00 4.06
892 3788 2.555199 GCTATATATGCAAGGCTCCCG 58.445 52.381 0.00 0.00 0.00 5.14
974 3877 6.428799 AGAAGCGATCGTACTACTAATTGAC 58.571 40.000 17.81 0.00 0.00 3.18
975 3878 5.746307 AGCGATCGTACTACTAATTGACA 57.254 39.130 17.81 0.00 0.00 3.58
985 3894 7.913821 CGTACTACTAATTGACATCACTAGCAA 59.086 37.037 0.00 0.00 0.00 3.91
1170 4089 1.522580 GATGGAGAAGGCGCTGGTC 60.523 63.158 7.64 2.00 0.00 4.02
1215 4134 4.752879 CCGGCGGTGTTCATCGGT 62.753 66.667 19.97 0.00 36.38 4.69
1286 4205 4.742201 GCTCGTCCCGCTGCTTCA 62.742 66.667 0.00 0.00 0.00 3.02
1290 4209 0.459585 TCGTCCCGCTGCTTCATAAC 60.460 55.000 0.00 0.00 0.00 1.89
1308 4227 2.359230 GCAGGTGCTGTCTGGGTC 60.359 66.667 0.00 0.00 38.21 4.46
1322 4241 0.406750 TGGGTCTAGTTCACGGGAGA 59.593 55.000 0.00 0.00 0.00 3.71
1323 4242 1.104630 GGGTCTAGTTCACGGGAGAG 58.895 60.000 0.00 0.00 0.00 3.20
1324 4243 1.104630 GGTCTAGTTCACGGGAGAGG 58.895 60.000 0.00 0.00 0.00 3.69
1325 4244 1.104630 GTCTAGTTCACGGGAGAGGG 58.895 60.000 0.00 0.00 0.00 4.30
1326 4245 0.702902 TCTAGTTCACGGGAGAGGGT 59.297 55.000 0.00 0.00 0.00 4.34
1327 4246 1.076677 TCTAGTTCACGGGAGAGGGTT 59.923 52.381 0.00 0.00 0.00 4.11
1328 4247 1.900486 CTAGTTCACGGGAGAGGGTTT 59.100 52.381 0.00 0.00 0.00 3.27
1329 4248 1.137697 AGTTCACGGGAGAGGGTTTT 58.862 50.000 0.00 0.00 0.00 2.43
1330 4249 1.202770 AGTTCACGGGAGAGGGTTTTG 60.203 52.381 0.00 0.00 0.00 2.44
1331 4250 0.841289 TTCACGGGAGAGGGTTTTGT 59.159 50.000 0.00 0.00 0.00 2.83
1332 4251 0.841289 TCACGGGAGAGGGTTTTGTT 59.159 50.000 0.00 0.00 0.00 2.83
1333 4252 0.951558 CACGGGAGAGGGTTTTGTTG 59.048 55.000 0.00 0.00 0.00 3.33
1334 4253 0.549469 ACGGGAGAGGGTTTTGTTGT 59.451 50.000 0.00 0.00 0.00 3.32
1335 4254 1.770061 ACGGGAGAGGGTTTTGTTGTA 59.230 47.619 0.00 0.00 0.00 2.41
1336 4255 2.224450 ACGGGAGAGGGTTTTGTTGTAG 60.224 50.000 0.00 0.00 0.00 2.74
1337 4256 2.224450 CGGGAGAGGGTTTTGTTGTAGT 60.224 50.000 0.00 0.00 0.00 2.73
1338 4257 3.007182 CGGGAGAGGGTTTTGTTGTAGTA 59.993 47.826 0.00 0.00 0.00 1.82
1339 4258 4.576879 GGGAGAGGGTTTTGTTGTAGTAG 58.423 47.826 0.00 0.00 0.00 2.57
1340 4259 4.285260 GGGAGAGGGTTTTGTTGTAGTAGA 59.715 45.833 0.00 0.00 0.00 2.59
1341 4260 5.045797 GGGAGAGGGTTTTGTTGTAGTAGAT 60.046 44.000 0.00 0.00 0.00 1.98
1342 4261 5.875359 GGAGAGGGTTTTGTTGTAGTAGATG 59.125 44.000 0.00 0.00 0.00 2.90
1343 4262 5.246307 AGAGGGTTTTGTTGTAGTAGATGC 58.754 41.667 0.00 0.00 0.00 3.91
1344 4263 4.000988 AGGGTTTTGTTGTAGTAGATGCG 58.999 43.478 0.00 0.00 0.00 4.73
1345 4264 3.749609 GGGTTTTGTTGTAGTAGATGCGT 59.250 43.478 0.00 0.00 0.00 5.24
1346 4265 4.931002 GGGTTTTGTTGTAGTAGATGCGTA 59.069 41.667 0.00 0.00 0.00 4.42
1347 4266 5.583457 GGGTTTTGTTGTAGTAGATGCGTAT 59.417 40.000 0.00 0.00 0.00 3.06
1348 4267 6.456449 GGGTTTTGTTGTAGTAGATGCGTATG 60.456 42.308 0.00 0.00 0.00 2.39
1349 4268 5.712217 TTTGTTGTAGTAGATGCGTATGC 57.288 39.130 0.00 0.00 43.20 3.14
1360 4279 2.609825 GCGTATGCAGTGGAGATGG 58.390 57.895 0.89 0.00 42.15 3.51
1361 4280 0.179073 GCGTATGCAGTGGAGATGGT 60.179 55.000 0.89 0.00 42.15 3.55
1362 4281 1.743772 GCGTATGCAGTGGAGATGGTT 60.744 52.381 0.89 0.00 42.15 3.67
1363 4282 2.205074 CGTATGCAGTGGAGATGGTTC 58.795 52.381 0.00 0.00 0.00 3.62
1364 4283 2.159043 CGTATGCAGTGGAGATGGTTCT 60.159 50.000 0.00 0.00 33.88 3.01
1365 4284 2.414994 ATGCAGTGGAGATGGTTCTG 57.585 50.000 0.00 0.00 30.30 3.02
1366 4285 0.325933 TGCAGTGGAGATGGTTCTGG 59.674 55.000 0.00 0.00 30.30 3.86
1367 4286 0.393537 GCAGTGGAGATGGTTCTGGG 60.394 60.000 0.00 0.00 30.30 4.45
1368 4287 0.987294 CAGTGGAGATGGTTCTGGGT 59.013 55.000 0.00 0.00 30.30 4.51
1369 4288 0.987294 AGTGGAGATGGTTCTGGGTG 59.013 55.000 0.00 0.00 30.30 4.61
1370 4289 0.693049 GTGGAGATGGTTCTGGGTGT 59.307 55.000 0.00 0.00 30.30 4.16
1371 4290 1.906574 GTGGAGATGGTTCTGGGTGTA 59.093 52.381 0.00 0.00 30.30 2.90
1372 4291 2.093447 GTGGAGATGGTTCTGGGTGTAG 60.093 54.545 0.00 0.00 30.30 2.74
1373 4292 2.188817 GGAGATGGTTCTGGGTGTAGT 58.811 52.381 0.00 0.00 30.30 2.73
1374 4293 2.093447 GGAGATGGTTCTGGGTGTAGTG 60.093 54.545 0.00 0.00 30.30 2.74
1375 4294 1.279271 AGATGGTTCTGGGTGTAGTGC 59.721 52.381 0.00 0.00 0.00 4.40
1376 4295 1.003118 GATGGTTCTGGGTGTAGTGCA 59.997 52.381 0.00 0.00 0.00 4.57
1377 4296 1.064003 TGGTTCTGGGTGTAGTGCAT 58.936 50.000 0.00 0.00 0.00 3.96
1378 4297 1.271325 TGGTTCTGGGTGTAGTGCATG 60.271 52.381 0.00 0.00 0.00 4.06
1379 4298 1.453155 GTTCTGGGTGTAGTGCATGG 58.547 55.000 0.00 0.00 0.00 3.66
1380 4299 0.327924 TTCTGGGTGTAGTGCATGGG 59.672 55.000 0.00 0.00 0.00 4.00
1381 4300 0.546507 TCTGGGTGTAGTGCATGGGA 60.547 55.000 0.00 0.00 0.00 4.37
1382 4301 0.107508 CTGGGTGTAGTGCATGGGAG 60.108 60.000 0.00 0.00 0.00 4.30
1429 4348 2.609459 CAGCTGACACGGGACAATAATC 59.391 50.000 8.42 0.00 0.00 1.75
1430 4349 2.501723 AGCTGACACGGGACAATAATCT 59.498 45.455 0.00 0.00 0.00 2.40
1431 4350 2.866762 GCTGACACGGGACAATAATCTC 59.133 50.000 0.00 0.00 0.00 2.75
1432 4351 3.458189 CTGACACGGGACAATAATCTCC 58.542 50.000 0.00 0.00 0.00 3.71
1433 4352 2.835156 TGACACGGGACAATAATCTCCA 59.165 45.455 0.00 0.00 0.00 3.86
1434 4353 3.454447 TGACACGGGACAATAATCTCCAT 59.546 43.478 0.00 0.00 0.00 3.41
1435 4354 4.058817 GACACGGGACAATAATCTCCATC 58.941 47.826 0.00 0.00 0.00 3.51
1436 4355 3.711704 ACACGGGACAATAATCTCCATCT 59.288 43.478 0.00 0.00 0.00 2.90
1438 4357 4.039730 CACGGGACAATAATCTCCATCTCT 59.960 45.833 0.00 0.00 0.00 3.10
1439 4358 4.039730 ACGGGACAATAATCTCCATCTCTG 59.960 45.833 0.00 0.00 0.00 3.35
1440 4359 4.039730 CGGGACAATAATCTCCATCTCTGT 59.960 45.833 0.00 0.00 0.00 3.41
1503 4423 4.221738 CGTAAAACGTACACGGATTCAG 57.778 45.455 6.72 0.00 44.95 3.02
1537 4457 7.013274 GCATGATTAAGCCCAGTAAACTCAATA 59.987 37.037 0.00 0.00 0.00 1.90
1548 4468 7.208080 CCAGTAAACTCAATATAACGGCTAGT 58.792 38.462 0.00 0.00 0.00 2.57
1597 4517 7.114811 GTGCACTTAACAATTTACATTGACTGG 59.885 37.037 10.32 0.00 42.35 4.00
1610 4530 4.988598 ACTGGCCGTGCTTCACCG 62.989 66.667 0.00 0.00 0.00 4.94
1668 4588 9.208022 CTATAATCATGATGGCGTTTTCTTAGA 57.792 33.333 9.46 0.00 0.00 2.10
1779 4699 7.477144 ACTGATCACGATCGCATTTTATTAA 57.523 32.000 16.60 0.00 40.63 1.40
2560 5493 2.546795 GGTGCTTCTCCATATGTCTCCG 60.547 54.545 1.24 0.00 0.00 4.63
2629 5562 5.825679 ACCCTTGTATTTATTCAGCGCATTA 59.174 36.000 11.47 0.00 0.00 1.90
2755 5688 8.487970 GTTTAGCTTTGGATTTTTAGTGCTTTC 58.512 33.333 0.00 0.00 0.00 2.62
2887 5820 8.862325 TCTCCAGTTTTATGTATGTTTGTGAT 57.138 30.769 0.00 0.00 0.00 3.06
2937 5870 3.435105 TTCATGCGTTGTCAAGCTTTT 57.565 38.095 0.00 0.00 0.00 2.27
3018 5951 9.800433 TTGAAATGCAATCAATAATTATCACGT 57.200 25.926 12.72 0.00 32.10 4.49
3019 5952 9.235537 TGAAATGCAATCAATAATTATCACGTG 57.764 29.630 9.94 9.94 0.00 4.49
3020 5953 7.627585 AATGCAATCAATAATTATCACGTGC 57.372 32.000 11.67 13.29 0.00 5.34
3021 5954 6.129053 TGCAATCAATAATTATCACGTGCA 57.871 33.333 11.67 16.64 0.00 4.57
3022 5955 5.970612 TGCAATCAATAATTATCACGTGCAC 59.029 36.000 11.67 6.82 0.00 4.57
3023 5956 5.970612 GCAATCAATAATTATCACGTGCACA 59.029 36.000 18.64 0.00 0.00 4.57
3024 5957 6.638063 GCAATCAATAATTATCACGTGCACAT 59.362 34.615 18.64 0.00 0.00 3.21
3025 5958 7.167968 GCAATCAATAATTATCACGTGCACATT 59.832 33.333 18.64 10.15 0.00 2.71
3026 5959 9.022915 CAATCAATAATTATCACGTGCACATTT 57.977 29.630 18.64 3.43 0.00 2.32
3028 5961 9.663904 ATCAATAATTATCACGTGCACATTTAC 57.336 29.630 18.64 0.00 0.00 2.01
3029 5962 8.888716 TCAATAATTATCACGTGCACATTTACT 58.111 29.630 18.64 0.00 0.00 2.24
3032 5965 7.843490 AATTATCACGTGCACATTTACTAGT 57.157 32.000 18.64 0.00 0.00 2.57
3033 5966 8.936070 AATTATCACGTGCACATTTACTAGTA 57.064 30.769 18.64 0.00 0.00 1.82
3034 5967 8.936070 ATTATCACGTGCACATTTACTAGTAA 57.064 30.769 18.64 11.38 0.00 2.24
3035 5968 8.936070 TTATCACGTGCACATTTACTAGTAAT 57.064 30.769 18.64 4.29 0.00 1.89
3207 6149 8.810652 ACACGTAAAATATCATGCAAAGTTTT 57.189 26.923 0.00 0.00 0.00 2.43
3227 6169 4.591321 TTGATAATTCAACCCAGAGGCT 57.409 40.909 0.00 0.00 36.94 4.58
3229 6171 3.523157 TGATAATTCAACCCAGAGGCTGA 59.477 43.478 0.00 0.00 36.44 4.26
3252 6198 1.262417 TGAGCCCGATGAACAGTACA 58.738 50.000 0.00 0.00 0.00 2.90
3254 6200 2.000447 GAGCCCGATGAACAGTACAAC 59.000 52.381 0.00 0.00 0.00 3.32
3264 6210 7.267600 CCGATGAACAGTACAACGATTTAAAAC 59.732 37.037 0.00 0.00 36.04 2.43
3267 6213 6.257411 TGAACAGTACAACGATTTAAAACGGA 59.743 34.615 20.03 2.24 0.00 4.69
3407 6353 4.275689 TCAGACATGAACAGTGCGATTTTT 59.724 37.500 0.00 0.00 30.61 1.94
3486 6432 8.939929 TGTTCAAACTTCACAAAATTTTGCATA 58.060 25.926 26.94 12.39 41.79 3.14
3494 6440 9.199982 CTTCACAAAATTTTGCATAGAGTTCAT 57.800 29.630 26.94 3.96 41.79 2.57
3495 6441 8.746922 TCACAAAATTTTGCATAGAGTTCATC 57.253 30.769 26.94 0.00 41.79 2.92
3496 6442 8.579006 TCACAAAATTTTGCATAGAGTTCATCT 58.421 29.630 26.94 3.36 41.79 2.90
3498 6444 9.846248 ACAAAATTTTGCATAGAGTTCATCTAC 57.154 29.630 26.94 0.00 41.25 2.59
3506 6452 7.559486 TGCATAGAGTTCATCTACAGAAACAT 58.441 34.615 0.00 0.00 43.35 2.71
3508 6454 7.925483 GCATAGAGTTCATCTACAGAAACATCT 59.075 37.037 0.00 0.00 43.35 2.90
3554 6509 8.749354 ACTTTTTCCCCATTCAAATCATAGTAC 58.251 33.333 0.00 0.00 0.00 2.73
3640 6597 4.942761 AGCAAGGGCACAATAATAATGG 57.057 40.909 0.00 0.00 44.61 3.16
3659 6616 3.210857 AACATGAGGTTCCGTCGTG 57.789 52.632 0.00 4.98 39.98 4.35
3677 6634 1.537202 GTGCCTTCTCGTCAGCATTTT 59.463 47.619 0.00 0.00 37.60 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.552870 ATGTTAGAAGTATGCCCTAGTGG 57.447 43.478 0.00 0.00 37.09 4.00
9 10 7.497595 TGTTATGTTAGAAGTATGCCCTAGTG 58.502 38.462 0.00 0.00 0.00 2.74
10 11 7.670605 TGTTATGTTAGAAGTATGCCCTAGT 57.329 36.000 0.00 0.00 0.00 2.57
11 12 7.604164 CCATGTTATGTTAGAAGTATGCCCTAG 59.396 40.741 0.00 0.00 0.00 3.02
12 13 7.450074 CCATGTTATGTTAGAAGTATGCCCTA 58.550 38.462 0.00 0.00 0.00 3.53
13 14 6.299141 CCATGTTATGTTAGAAGTATGCCCT 58.701 40.000 0.00 0.00 0.00 5.19
14 15 5.473504 CCCATGTTATGTTAGAAGTATGCCC 59.526 44.000 0.00 0.00 0.00 5.36
15 16 6.062095 ACCCATGTTATGTTAGAAGTATGCC 58.938 40.000 0.00 0.00 0.00 4.40
16 17 8.671384 TTACCCATGTTATGTTAGAAGTATGC 57.329 34.615 0.00 0.00 0.00 3.14
20 21 9.975218 AGATTTTACCCATGTTATGTTAGAAGT 57.025 29.630 0.00 0.00 0.00 3.01
23 24 9.747898 ACAAGATTTTACCCATGTTATGTTAGA 57.252 29.630 0.00 0.00 0.00 2.10
24 25 9.787532 CACAAGATTTTACCCATGTTATGTTAG 57.212 33.333 0.00 0.00 0.00 2.34
25 26 9.303116 ACACAAGATTTTACCCATGTTATGTTA 57.697 29.630 0.00 0.00 0.00 2.41
26 27 8.087750 CACACAAGATTTTACCCATGTTATGTT 58.912 33.333 0.00 0.00 0.00 2.71
27 28 7.601856 CACACAAGATTTTACCCATGTTATGT 58.398 34.615 0.00 0.00 0.00 2.29
28 29 6.531240 GCACACAAGATTTTACCCATGTTATG 59.469 38.462 0.00 0.00 0.00 1.90
29 30 6.210385 TGCACACAAGATTTTACCCATGTTAT 59.790 34.615 0.00 0.00 0.00 1.89
34 35 3.258123 GGTGCACACAAGATTTTACCCAT 59.742 43.478 20.43 0.00 0.00 4.00
48 49 3.503363 TCAGAGATTTTGATGGTGCACAC 59.497 43.478 20.43 8.79 0.00 3.82
69 73 0.525668 CTGAGGGTATCGTGTGCGTC 60.526 60.000 0.00 0.00 39.49 5.19
75 79 1.043816 AGCCATCTGAGGGTATCGTG 58.956 55.000 10.38 0.00 37.68 4.35
76 80 2.677542 TAGCCATCTGAGGGTATCGT 57.322 50.000 10.38 0.00 40.47 3.73
94 98 4.292571 TGGGGTGGTATTTTCCTGACAATA 59.707 41.667 0.00 0.00 0.00 1.90
95 99 3.076785 TGGGGTGGTATTTTCCTGACAAT 59.923 43.478 0.00 0.00 0.00 2.71
96 100 2.447429 TGGGGTGGTATTTTCCTGACAA 59.553 45.455 0.00 0.00 0.00 3.18
97 101 2.041081 CTGGGGTGGTATTTTCCTGACA 59.959 50.000 0.00 0.00 0.00 3.58
98 102 2.620627 CCTGGGGTGGTATTTTCCTGAC 60.621 54.545 0.00 0.00 0.00 3.51
99 103 1.638589 CCTGGGGTGGTATTTTCCTGA 59.361 52.381 0.00 0.00 0.00 3.86
100 104 1.357761 ACCTGGGGTGGTATTTTCCTG 59.642 52.381 0.00 0.00 38.79 3.86
218 227 6.017933 GTGATCTCAAATTTACAGCTCAACG 58.982 40.000 5.03 0.00 0.00 4.10
224 233 4.946784 ACCGTGATCTCAAATTTACAGC 57.053 40.909 0.00 0.00 0.00 4.40
251 260 9.546428 AAAATCCTTCGTTTCATTTTTCTCAAT 57.454 25.926 0.00 0.00 0.00 2.57
287 299 6.040054 GTGTACAAAATGTCCTTAGGGTGTTT 59.960 38.462 0.00 0.00 0.00 2.83
300 312 6.295236 CCATCCATTTCCAGTGTACAAAATGT 60.295 38.462 21.02 8.21 37.39 2.71
303 315 4.021544 GCCATCCATTTCCAGTGTACAAAA 60.022 41.667 0.00 0.00 0.00 2.44
311 323 0.038166 ACACGCCATCCATTTCCAGT 59.962 50.000 0.00 0.00 0.00 4.00
313 325 2.364632 CTAACACGCCATCCATTTCCA 58.635 47.619 0.00 0.00 0.00 3.53
315 327 1.676006 CCCTAACACGCCATCCATTTC 59.324 52.381 0.00 0.00 0.00 2.17
326 338 1.314730 AAACCAAGTGCCCTAACACG 58.685 50.000 0.00 0.00 45.45 4.49
359 372 7.170998 ACAAATACTTGTAACAGTCTACAGTGC 59.829 37.037 0.00 0.00 44.14 4.40
364 377 7.148689 CGGGAACAAATACTTGTAACAGTCTAC 60.149 40.741 0.00 0.00 45.25 2.59
421 3192 2.334838 CACCGCCTTGTGTAGTCTTAC 58.665 52.381 0.00 0.00 0.00 2.34
437 3208 4.452733 GGACTTCGCCTCCCACCG 62.453 72.222 0.00 0.00 0.00 4.94
453 3319 0.381089 CTAACCCTACGAGCACGAGG 59.619 60.000 11.40 12.16 42.66 4.63
463 3329 2.740452 GCGCATACACTCTAACCCTAC 58.260 52.381 0.30 0.00 0.00 3.18
469 3335 0.172578 AGCACGCGCATACACTCTAA 59.827 50.000 5.73 0.00 42.27 2.10
478 3344 1.262417 CTCATATGAAAGCACGCGCAT 59.738 47.619 5.73 2.48 42.27 4.73
495 3361 6.721208 TGTAGATGCTCATATACATCCACTCA 59.279 38.462 11.88 4.23 43.01 3.41
508 3374 6.975196 AAGAGTACAGATGTAGATGCTCAT 57.025 37.500 0.00 0.00 0.00 2.90
581 3447 4.099727 CAGATGAGAGAGACATGGACACAT 59.900 45.833 0.00 0.00 37.99 3.21
583 3449 3.698539 TCAGATGAGAGAGACATGGACAC 59.301 47.826 0.00 0.00 0.00 3.67
662 3528 9.487442 AAAGGGGTACAATGAATTATATTGTGT 57.513 29.630 21.76 7.40 45.49 3.72
764 3653 3.919804 CCTTTAATTTGTGCGACACCATG 59.080 43.478 7.38 0.00 32.73 3.66
765 3654 3.823873 TCCTTTAATTTGTGCGACACCAT 59.176 39.130 7.38 0.00 32.73 3.55
766 3655 3.215151 TCCTTTAATTTGTGCGACACCA 58.785 40.909 7.38 0.00 32.73 4.17
767 3656 3.821841 CTCCTTTAATTTGTGCGACACC 58.178 45.455 7.38 0.00 32.73 4.16
892 3788 1.474077 CTTGCTTTGAGGTGGGCATAC 59.526 52.381 0.00 0.00 34.59 2.39
901 3797 1.288127 GTGCTGGCTTGCTTTGAGG 59.712 57.895 4.89 0.00 0.00 3.86
974 3877 5.588568 GCTTAGTGCTATTGCTAGTGATG 57.411 43.478 0.00 0.00 40.48 3.07
1215 4134 4.147449 CATCCGACGAGCCTGCCA 62.147 66.667 0.00 0.00 0.00 4.92
1308 4227 1.558233 AACCCTCTCCCGTGAACTAG 58.442 55.000 0.00 0.00 0.00 2.57
1322 4241 4.000988 CGCATCTACTACAACAAAACCCT 58.999 43.478 0.00 0.00 0.00 4.34
1323 4242 3.749609 ACGCATCTACTACAACAAAACCC 59.250 43.478 0.00 0.00 0.00 4.11
1324 4243 6.475207 CATACGCATCTACTACAACAAAACC 58.525 40.000 0.00 0.00 0.00 3.27
1325 4244 5.957796 GCATACGCATCTACTACAACAAAAC 59.042 40.000 0.00 0.00 38.36 2.43
1326 4245 5.639931 TGCATACGCATCTACTACAACAAAA 59.360 36.000 0.00 0.00 45.36 2.44
1327 4246 5.172205 TGCATACGCATCTACTACAACAAA 58.828 37.500 0.00 0.00 45.36 2.83
1328 4247 4.749976 TGCATACGCATCTACTACAACAA 58.250 39.130 0.00 0.00 45.36 2.83
1329 4248 4.379339 TGCATACGCATCTACTACAACA 57.621 40.909 0.00 0.00 45.36 3.33
1342 4261 0.179073 ACCATCTCCACTGCATACGC 60.179 55.000 0.00 0.00 39.24 4.42
1343 4262 2.159043 AGAACCATCTCCACTGCATACG 60.159 50.000 0.00 0.00 0.00 3.06
1344 4263 3.201290 CAGAACCATCTCCACTGCATAC 58.799 50.000 0.00 0.00 32.03 2.39
1345 4264 2.171237 CCAGAACCATCTCCACTGCATA 59.829 50.000 0.00 0.00 32.03 3.14
1346 4265 1.064906 CCAGAACCATCTCCACTGCAT 60.065 52.381 0.00 0.00 32.03 3.96
1347 4266 0.325933 CCAGAACCATCTCCACTGCA 59.674 55.000 0.00 0.00 32.03 4.41
1348 4267 0.393537 CCCAGAACCATCTCCACTGC 60.394 60.000 0.00 0.00 32.03 4.40
1349 4268 0.987294 ACCCAGAACCATCTCCACTG 59.013 55.000 0.00 0.00 32.03 3.66
1350 4269 0.987294 CACCCAGAACCATCTCCACT 59.013 55.000 0.00 0.00 32.03 4.00
1351 4270 0.693049 ACACCCAGAACCATCTCCAC 59.307 55.000 0.00 0.00 32.03 4.02
1352 4271 2.187958 CTACACCCAGAACCATCTCCA 58.812 52.381 0.00 0.00 32.03 3.86
1353 4272 2.093447 CACTACACCCAGAACCATCTCC 60.093 54.545 0.00 0.00 32.03 3.71
1354 4273 2.678190 GCACTACACCCAGAACCATCTC 60.678 54.545 0.00 0.00 32.03 2.75
1355 4274 1.279271 GCACTACACCCAGAACCATCT 59.721 52.381 0.00 0.00 35.88 2.90
1356 4275 1.003118 TGCACTACACCCAGAACCATC 59.997 52.381 0.00 0.00 0.00 3.51
1357 4276 1.064003 TGCACTACACCCAGAACCAT 58.936 50.000 0.00 0.00 0.00 3.55
1358 4277 1.064003 ATGCACTACACCCAGAACCA 58.936 50.000 0.00 0.00 0.00 3.67
1359 4278 1.453155 CATGCACTACACCCAGAACC 58.547 55.000 0.00 0.00 0.00 3.62
1360 4279 1.453155 CCATGCACTACACCCAGAAC 58.547 55.000 0.00 0.00 0.00 3.01
1361 4280 0.327924 CCCATGCACTACACCCAGAA 59.672 55.000 0.00 0.00 0.00 3.02
1362 4281 0.546507 TCCCATGCACTACACCCAGA 60.547 55.000 0.00 0.00 0.00 3.86
1363 4282 0.107508 CTCCCATGCACTACACCCAG 60.108 60.000 0.00 0.00 0.00 4.45
1364 4283 1.561769 CCTCCCATGCACTACACCCA 61.562 60.000 0.00 0.00 0.00 4.51
1365 4284 1.224592 CCTCCCATGCACTACACCC 59.775 63.158 0.00 0.00 0.00 4.61
1366 4285 1.224592 CCCTCCCATGCACTACACC 59.775 63.158 0.00 0.00 0.00 4.16
1367 4286 1.224592 CCCCTCCCATGCACTACAC 59.775 63.158 0.00 0.00 0.00 2.90
1368 4287 0.844661 AACCCCTCCCATGCACTACA 60.845 55.000 0.00 0.00 0.00 2.74
1369 4288 0.331616 AAACCCCTCCCATGCACTAC 59.668 55.000 0.00 0.00 0.00 2.73
1370 4289 0.331278 CAAACCCCTCCCATGCACTA 59.669 55.000 0.00 0.00 0.00 2.74
1371 4290 1.077265 CAAACCCCTCCCATGCACT 59.923 57.895 0.00 0.00 0.00 4.40
1372 4291 0.039035 TACAAACCCCTCCCATGCAC 59.961 55.000 0.00 0.00 0.00 4.57
1373 4292 0.331278 CTACAAACCCCTCCCATGCA 59.669 55.000 0.00 0.00 0.00 3.96
1374 4293 0.623723 TCTACAAACCCCTCCCATGC 59.376 55.000 0.00 0.00 0.00 4.06
1375 4294 5.316987 GAATATCTACAAACCCCTCCCATG 58.683 45.833 0.00 0.00 0.00 3.66
1376 4295 4.041691 CGAATATCTACAAACCCCTCCCAT 59.958 45.833 0.00 0.00 0.00 4.00
1377 4296 3.389983 CGAATATCTACAAACCCCTCCCA 59.610 47.826 0.00 0.00 0.00 4.37
1378 4297 3.244457 CCGAATATCTACAAACCCCTCCC 60.244 52.174 0.00 0.00 0.00 4.30
1379 4298 3.806157 GCCGAATATCTACAAACCCCTCC 60.806 52.174 0.00 0.00 0.00 4.30
1380 4299 3.400255 GCCGAATATCTACAAACCCCTC 58.600 50.000 0.00 0.00 0.00 4.30
1381 4300 2.105993 GGCCGAATATCTACAAACCCCT 59.894 50.000 0.00 0.00 0.00 4.79
1382 4301 2.501261 GGCCGAATATCTACAAACCCC 58.499 52.381 0.00 0.00 0.00 4.95
1462 4381 1.951602 GGGGTGCACGTAAGAAAGTTT 59.048 47.619 11.45 0.00 43.62 2.66
1503 4423 2.484264 GGGCTTAATCATGCGGTCATAC 59.516 50.000 0.00 0.00 0.00 2.39
1537 4457 6.552350 TGGATTAGGTTAAGACTAGCCGTTAT 59.448 38.462 0.00 0.00 33.72 1.89
1548 4468 7.331026 CACACAGAGAATGGATTAGGTTAAGA 58.669 38.462 0.00 0.00 0.00 2.10
1597 4517 1.017177 TTCATACGGTGAAGCACGGC 61.017 55.000 5.23 0.00 41.79 5.68
1610 4530 2.642139 TCGGACGTGGAGTTTCATAC 57.358 50.000 0.00 0.00 0.00 2.39
1655 4575 6.518736 CGTGATTAGTTTTCTAAGAAAACGCC 59.481 38.462 5.34 0.00 44.27 5.68
1668 4588 8.553459 AAGAAGATGTGATCGTGATTAGTTTT 57.447 30.769 0.00 0.00 0.00 2.43
1740 4660 8.301730 TCGTGATCAGTTTTCTAATAAAACGT 57.698 30.769 0.00 0.00 43.01 3.99
1752 4672 4.685169 AAATGCGATCGTGATCAGTTTT 57.315 36.364 17.81 2.07 37.69 2.43
1779 4699 7.438459 GTGTGCGAATATACCTGATTAGTTTCT 59.562 37.037 0.00 0.00 0.00 2.52
1790 4710 4.570772 GTGTCAATGTGTGCGAATATACCT 59.429 41.667 0.00 0.00 0.00 3.08
2537 5470 3.118261 GGAGACATATGGAGAAGCACCAA 60.118 47.826 7.80 0.00 40.93 3.67
2560 5493 4.776795 AAATAACATCCCGGAACACAAC 57.223 40.909 0.73 0.00 0.00 3.32
2629 5562 4.567971 TCATGCCAAAATGCGAAAAGAAT 58.432 34.783 0.00 0.00 0.00 2.40
2887 5820 4.143986 TGTTCATGTCTGGTACACACAA 57.856 40.909 0.00 0.00 41.25 3.33
2937 5870 1.314730 TGCGTCTCGTGGCATATAGA 58.685 50.000 0.00 0.00 33.52 1.98
3051 5984 5.859114 CCTGATACAAGATGACGTAGCATAC 59.141 44.000 0.00 0.00 33.88 2.39
3052 5985 5.535030 ACCTGATACAAGATGACGTAGCATA 59.465 40.000 0.00 0.00 33.88 3.14
3053 5986 4.342378 ACCTGATACAAGATGACGTAGCAT 59.658 41.667 0.00 0.00 33.88 3.79
3054 5987 3.699538 ACCTGATACAAGATGACGTAGCA 59.300 43.478 0.00 0.00 33.34 3.49
3055 5988 4.045104 CACCTGATACAAGATGACGTAGC 58.955 47.826 0.00 0.00 0.00 3.58
3056 5989 5.500645 TCACCTGATACAAGATGACGTAG 57.499 43.478 0.00 0.00 0.00 3.51
3057 5990 5.592688 TCATCACCTGATACAAGATGACGTA 59.407 40.000 0.00 0.00 39.89 3.57
3058 5991 4.402474 TCATCACCTGATACAAGATGACGT 59.598 41.667 0.00 0.00 39.89 4.34
3059 5992 4.936891 TCATCACCTGATACAAGATGACG 58.063 43.478 0.00 0.00 39.89 4.35
3119 6052 3.041940 GGACACGTCCCTTGTGCG 61.042 66.667 4.78 0.00 43.94 5.34
3207 6149 3.889815 CAGCCTCTGGGTTGAATTATCA 58.110 45.455 0.00 0.00 45.06 2.15
3227 6169 0.462581 GTTCATCGGGCTCATGCTCA 60.463 55.000 0.00 0.00 40.38 4.26
3229 6171 0.463295 CTGTTCATCGGGCTCATGCT 60.463 55.000 0.00 0.00 39.59 3.79
3252 6198 7.969508 TGAACTTCTTTTCCGTTTTAAATCGTT 59.030 29.630 15.45 2.60 0.00 3.85
3254 6200 7.901874 TGAACTTCTTTTCCGTTTTAAATCG 57.098 32.000 10.96 10.96 0.00 3.34
3349 6295 0.109086 CACGAGCTCCACGAATGTCT 60.109 55.000 8.47 0.00 34.70 3.41
3407 6353 6.522054 ACTTCGGATGTCTGAGAAACTTTAA 58.478 36.000 0.00 0.00 32.05 1.52
3408 6354 6.097915 ACTTCGGATGTCTGAGAAACTTTA 57.902 37.500 0.00 0.00 32.05 1.85
3443 6389 1.813513 ACATTCGAGAAGCTTGTGGG 58.186 50.000 2.10 0.00 0.00 4.61
3448 6394 5.296780 TGAAGTTTGAACATTCGAGAAGCTT 59.703 36.000 0.00 0.00 0.00 3.74
3456 6402 8.987729 CAAAATTTTGTGAAGTTTGAACATTCG 58.012 29.630 20.57 0.00 33.59 3.34
3486 6432 6.593382 GCAAGATGTTTCTGTAGATGAACTCT 59.407 38.462 0.00 0.00 33.22 3.24
3494 6440 4.065088 GTGGTGCAAGATGTTTCTGTAGA 58.935 43.478 0.00 0.00 30.72 2.59
3495 6441 3.814842 TGTGGTGCAAGATGTTTCTGTAG 59.185 43.478 0.00 0.00 30.72 2.74
3496 6442 3.814625 TGTGGTGCAAGATGTTTCTGTA 58.185 40.909 0.00 0.00 30.72 2.74
3498 6444 3.713858 TTGTGGTGCAAGATGTTTCTG 57.286 42.857 0.00 0.00 32.52 3.02
3526 6472 8.314021 ACTATGATTTGAATGGGGAAAAAGTTC 58.686 33.333 0.00 0.00 0.00 3.01
3529 6475 8.971073 AGTACTATGATTTGAATGGGGAAAAAG 58.029 33.333 0.00 0.00 0.00 2.27
3539 6494 7.013655 GGGCATGAACAGTACTATGATTTGAAT 59.986 37.037 7.42 0.00 0.00 2.57
3554 6509 0.107508 ATGAGTCCGGGCATGAACAG 60.108 55.000 9.71 0.00 0.00 3.16
3594 6551 3.123804 TCAGAAACTTTGCGAGAGTGTC 58.876 45.455 0.00 0.00 32.58 3.67
3597 6554 5.106908 GCTATTTCAGAAACTTTGCGAGAGT 60.107 40.000 0.00 0.00 0.00 3.24
3653 6610 1.797933 CTGACGAGAAGGCACGACG 60.798 63.158 0.00 0.00 32.00 5.12


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

AutoCloner maintained by Alex Coulton.