Multiple sequence alignment - TraesCS3A01G254500

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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 TraesCS3A01G254500 chr3A 100.000 3369 0 0 1 3369 476384091 476387459 0.000000e+00 6222.0
1 TraesCS3A01G254500 chr3A 77.551 147 28 5 1385 1529 60297622 60297765 2.150000e-12 84.2
2 TraesCS3A01G254500 chr3D 92.261 1809 73 28 1350 3137 357141463 357143225 0.000000e+00 2503.0
3 TraesCS3A01G254500 chr3D 89.942 865 34 20 460 1296 357140546 357141385 0.000000e+00 1066.0
4 TraesCS3A01G254500 chr3D 88.912 487 27 6 1 460 357140022 357140508 2.920000e-160 575.0
5 TraesCS3A01G254500 chr3D 93.421 76 3 2 3162 3237 357143345 357143418 9.880000e-21 111.0
6 TraesCS3A01G254500 chr3B 95.013 1163 33 13 1350 2509 458343103 458344243 0.000000e+00 1803.0
7 TraesCS3A01G254500 chr3B 91.541 863 25 21 460 1296 458342179 458343019 0.000000e+00 1146.0
8 TraesCS3A01G254500 chr3B 90.588 595 24 16 2547 3137 458344254 458344820 0.000000e+00 760.0
9 TraesCS3A01G254500 chr3B 86.420 486 35 11 1 460 458341661 458342141 1.400000e-138 503.0
10 TraesCS3A01G254500 chr5A 96.032 126 3 1 3244 3369 467047284 467047161 1.580000e-48 204.0
11 TraesCS3A01G254500 chr1A 76.765 340 63 13 1397 1727 545025101 545024769 3.450000e-40 176.0
12 TraesCS3A01G254500 chr1A 89.062 128 14 0 1601 1728 545009109 545008982 3.480000e-35 159.0
13 TraesCS3A01G254500 chr1A 89.431 123 13 0 1165 1287 544748316 544748438 4.500000e-34 156.0
14 TraesCS3A01G254500 chr1A 88.889 126 14 0 1603 1728 545000601 545000726 4.500000e-34 156.0
15 TraesCS3A01G254500 chr1A 87.402 127 14 2 1927 2052 545008729 545008604 9.740000e-31 145.0
16 TraesCS3A01G254500 chr1A 85.714 126 16 2 1927 2051 545000970 545001094 7.580000e-27 132.0
17 TraesCS3A01G254500 chr1A 96.000 75 3 0 1928 2002 544928567 544928641 4.560000e-24 122.0
18 TraesCS3A01G254500 chr1A 84.252 127 18 2 1928 2053 545298885 545298760 4.560000e-24 122.0
19 TraesCS3A01G254500 chr4A 91.803 122 8 1 3244 3365 467236625 467236744 5.780000e-38 169.0
20 TraesCS3A01G254500 chr2D 94.495 109 6 0 3261 3369 379691932 379691824 5.780000e-38 169.0
21 TraesCS3A01G254500 chr1D 88.489 139 13 2 1601 1736 449923210 449923072 7.480000e-37 165.0
22 TraesCS3A01G254500 chr1D 89.062 128 14 0 1601 1728 449660776 449660903 3.480000e-35 159.0
23 TraesCS3A01G254500 chr1D 87.302 126 13 3 1162 1287 449752656 449752778 1.260000e-29 141.0
24 TraesCS3A01G254500 chr1D 86.992 123 16 0 1165 1287 449846865 449846987 4.530000e-29 139.0
25 TraesCS3A01G254500 chr1D 86.614 127 15 2 1928 2053 449922838 449922713 4.530000e-29 139.0
26 TraesCS3A01G254500 chr1D 86.992 123 16 0 1165 1287 449983416 449983294 4.530000e-29 139.0
27 TraesCS3A01G254500 chr1B 89.683 126 13 0 1601 1726 615626010 615626135 9.670000e-36 161.0
28 TraesCS3A01G254500 chr1B 87.857 140 12 4 1601 1736 615744800 615744662 3.480000e-35 159.0
29 TraesCS3A01G254500 chr1B 88.618 123 14 0 1165 1287 615732181 615732303 2.090000e-32 150.0
30 TraesCS3A01G254500 chr1B 90.909 110 10 0 1178 1287 615581769 615581878 7.530000e-32 148.0
31 TraesCS3A01G254500 chr1B 86.992 123 16 0 1165 1287 615625643 615625765 4.530000e-29 139.0
32 TraesCS3A01G254500 chr1B 85.714 126 16 2 1927 2051 615744429 615744305 7.580000e-27 132.0
33 TraesCS3A01G254500 chr1B 83.465 127 19 2 1928 2053 616565335 616565210 2.120000e-22 117.0
34 TraesCS3A01G254500 chr4D 79.710 138 22 6 1383 1517 483369422 483369556 9.950000e-16 95.3
35 TraesCS3A01G254500 chr6B 84.946 93 11 3 1397 1489 526101147 526101058 1.290000e-14 91.6
36 TraesCS3A01G254500 chr7B 81.034 116 17 5 1380 1492 77432155 77432268 1.670000e-13 87.9
37 TraesCS3A01G254500 chr7A 81.034 116 17 5 1380 1492 121398161 121398274 1.670000e-13 87.9
38 TraesCS3A01G254500 chr7A 81.308 107 18 2 1389 1494 428810087 428810192 5.990000e-13 86.1
39 TraesCS3A01G254500 chr4B 81.579 114 14 7 1383 1492 613754454 613754344 1.670000e-13 87.9


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 TraesCS3A01G254500 chr3A 476384091 476387459 3368 False 6222.00 6222 100.0000 1 3369 1 chr3A.!!$F2 3368
1 TraesCS3A01G254500 chr3D 357140022 357143418 3396 False 1063.75 2503 91.1340 1 3237 4 chr3D.!!$F1 3236
2 TraesCS3A01G254500 chr3B 458341661 458344820 3159 False 1053.00 1803 90.8905 1 3137 4 chr3B.!!$F1 3136

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
25 26 0.178873 TCCACCAGCCCTACCTCTTT 60.179 55.0 0.0 0.0 0.0 2.52 F
1090 1199 0.111398 GCTCGGTCGTTTGTTCGTTC 60.111 55.0 0.0 0.0 0.0 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1313 1428 0.544697 ACGGGCGGAGTTGGAATTAT 59.455 50.0 0.0 0.0 0.00 1.28 R
2674 2842 0.732880 ATCACTGAAACCGACTCGCG 60.733 55.0 0.0 0.0 40.47 5.87 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
25 26 0.178873 TCCACCAGCCCTACCTCTTT 60.179 55.000 0.00 0.00 0.00 2.52
109 110 2.203280 CAAGCCACGTTGTCCCCA 60.203 61.111 0.00 0.00 0.00 4.96
142 167 4.555709 TCGTTGGTGCCGGCTTGT 62.556 61.111 29.70 0.00 0.00 3.16
213 239 6.971527 TGTTTTCCAATTGCATGATGAATC 57.028 33.333 0.00 0.00 0.00 2.52
228 254 1.066787 TGAATCACACGGGCGAATACA 60.067 47.619 0.00 0.00 0.00 2.29
239 265 2.419574 GGGCGAATACAACCTCTGCTAA 60.420 50.000 0.00 0.00 0.00 3.09
286 313 0.739813 CGCCACCTTTTCGACCCTAG 60.740 60.000 0.00 0.00 0.00 3.02
303 330 3.570559 CCTAGCTAAGCTTATCGTCAGC 58.429 50.000 6.64 7.60 40.44 4.26
315 342 1.570813 TCGTCAGCTTGTCACAGTTG 58.429 50.000 0.00 0.00 0.00 3.16
316 343 0.583438 CGTCAGCTTGTCACAGTTGG 59.417 55.000 0.00 0.00 0.00 3.77
390 418 2.108344 GAACGCGGAAGTCGGCAAAA 62.108 55.000 12.47 0.00 41.54 2.44
393 421 2.561373 CGGAAGTCGGCAAAAGGC 59.439 61.111 0.00 0.00 43.74 4.35
398 426 1.098712 AAGTCGGCAAAAGGCGTTGA 61.099 50.000 11.11 0.00 46.16 3.18
412 440 1.526986 GCGTTGATGTATGTCACGCAC 60.527 52.381 9.93 0.00 42.53 5.34
428 458 3.131326 CACGGTTGGTGCGATTAGA 57.869 52.632 0.00 0.00 40.33 2.10
433 463 2.285220 CGGTTGGTGCGATTAGAGAATG 59.715 50.000 0.00 0.00 0.00 2.67
460 490 7.386851 TCTAAGCACAATTATACATCTAGCCC 58.613 38.462 0.00 0.00 0.00 5.19
461 491 4.911390 AGCACAATTATACATCTAGCCCC 58.089 43.478 0.00 0.00 0.00 5.80
465 533 5.707298 CACAATTATACATCTAGCCCCCTTG 59.293 44.000 0.00 0.00 0.00 3.61
504 572 3.359654 CACAGGTGTTGCGTTTTTCTAC 58.640 45.455 0.00 0.00 0.00 2.59
531 599 0.606401 CATTGTCGCAACAGTCCCCT 60.606 55.000 0.00 0.00 36.57 4.79
532 600 0.981183 ATTGTCGCAACAGTCCCCTA 59.019 50.000 0.00 0.00 36.57 3.53
533 601 0.320374 TTGTCGCAACAGTCCCCTAG 59.680 55.000 0.00 0.00 36.57 3.02
546 614 4.039366 CAGTCCCCTAGCTAGGTGATTAAC 59.961 50.000 33.00 18.50 42.03 2.01
565 641 2.536365 ACACTGTACCATAATCGTGCG 58.464 47.619 0.00 0.00 0.00 5.34
567 647 0.859232 CTGTACCATAATCGTGCGCC 59.141 55.000 4.18 0.00 0.00 6.53
583 663 3.084039 TGCGCCAATGAGAAAAATCTCT 58.916 40.909 4.18 0.00 37.62 3.10
584 664 3.127548 TGCGCCAATGAGAAAAATCTCTC 59.872 43.478 4.18 0.00 41.98 3.20
608 693 3.775316 AGTCATACCTCCAACTAACCCAG 59.225 47.826 0.00 0.00 0.00 4.45
635 720 0.740737 CCCGTCATTTTCCATCCTGC 59.259 55.000 0.00 0.00 0.00 4.85
689 785 4.081642 TGCCTCCTTTGCTGTTACTAGTAG 60.082 45.833 2.23 0.00 0.00 2.57
748 845 3.622455 GCACCCAACTATAGGAGCACTTT 60.622 47.826 4.43 0.00 0.00 2.66
755 852 7.201821 CCCAACTATAGGAGCACTTTATTTTGG 60.202 40.741 4.43 4.13 31.96 3.28
761 861 4.457949 AGGAGCACTTTATTTTGGTTACGG 59.542 41.667 0.00 0.00 0.00 4.02
804 905 4.390909 CACAAGTAAACGGGGTGTATCTTC 59.609 45.833 0.00 0.00 0.00 2.87
822 923 1.758936 TCAGCTCCAATCCATTGCAG 58.241 50.000 0.00 0.00 36.48 4.41
827 928 2.278336 CAATCCATTGCAGGCGCG 60.278 61.111 0.00 0.00 42.97 6.86
871 975 4.081972 CACTTACACACATACTCCTCAGCT 60.082 45.833 0.00 0.00 0.00 4.24
872 976 4.081972 ACTTACACACATACTCCTCAGCTG 60.082 45.833 7.63 7.63 0.00 4.24
873 977 1.552337 ACACACATACTCCTCAGCTGG 59.448 52.381 15.13 4.45 0.00 4.85
874 978 1.827344 CACACATACTCCTCAGCTGGA 59.173 52.381 15.13 2.80 34.52 3.86
1023 1127 9.996554 CCGAGATAGATAGATAGAGATACACAT 57.003 37.037 0.00 0.00 0.00 3.21
1090 1199 0.111398 GCTCGGTCGTTTGTTCGTTC 60.111 55.000 0.00 0.00 0.00 3.95
1091 1200 0.158096 CTCGGTCGTTTGTTCGTTCG 59.842 55.000 0.00 0.00 0.00 3.95
1092 1201 1.435966 CGGTCGTTTGTTCGTTCGC 60.436 57.895 0.00 0.00 0.00 4.70
1093 1202 1.814211 CGGTCGTTTGTTCGTTCGCT 61.814 55.000 0.00 0.00 0.00 4.93
1308 1423 3.721706 CTCCCTCCCCGCAAAGCT 61.722 66.667 0.00 0.00 0.00 3.74
1311 1426 2.670148 CCCTCCCCGCAAAGCTACT 61.670 63.158 0.00 0.00 0.00 2.57
1312 1427 1.299976 CCTCCCCGCAAAGCTACTT 59.700 57.895 0.00 0.00 0.00 2.24
1313 1428 0.539986 CCTCCCCGCAAAGCTACTTA 59.460 55.000 0.00 0.00 0.00 2.24
1315 1430 2.367567 CCTCCCCGCAAAGCTACTTATA 59.632 50.000 0.00 0.00 0.00 0.98
1316 1431 3.181458 CCTCCCCGCAAAGCTACTTATAA 60.181 47.826 0.00 0.00 0.00 0.98
1317 1432 4.505039 CCTCCCCGCAAAGCTACTTATAAT 60.505 45.833 0.00 0.00 0.00 1.28
1318 1433 5.043737 TCCCCGCAAAGCTACTTATAATT 57.956 39.130 0.00 0.00 0.00 1.40
1319 1434 5.061179 TCCCCGCAAAGCTACTTATAATTC 58.939 41.667 0.00 0.00 0.00 2.17
1320 1435 4.215613 CCCCGCAAAGCTACTTATAATTCC 59.784 45.833 0.00 0.00 0.00 3.01
1321 1436 4.819630 CCCGCAAAGCTACTTATAATTCCA 59.180 41.667 0.00 0.00 0.00 3.53
1322 1437 5.298276 CCCGCAAAGCTACTTATAATTCCAA 59.702 40.000 0.00 0.00 0.00 3.53
1327 1442 7.630924 CAAAGCTACTTATAATTCCAACTCCG 58.369 38.462 0.00 0.00 0.00 4.63
1329 1444 4.451435 GCTACTTATAATTCCAACTCCGCC 59.549 45.833 0.00 0.00 0.00 6.13
1331 1446 2.536761 TATAATTCCAACTCCGCCCG 57.463 50.000 0.00 0.00 0.00 6.13
1339 1454 1.147600 AACTCCGCCCGTCTGTTTT 59.852 52.632 0.00 0.00 0.00 2.43
1341 1456 1.004918 CTCCGCCCGTCTGTTTTCT 60.005 57.895 0.00 0.00 0.00 2.52
1363 1508 1.135431 GCATGTGTTGGCGCTTAATGA 60.135 47.619 7.64 0.00 0.00 2.57
1364 1509 2.789208 CATGTGTTGGCGCTTAATGAG 58.211 47.619 7.64 0.00 0.00 2.90
1365 1510 1.164411 TGTGTTGGCGCTTAATGAGG 58.836 50.000 7.64 0.00 0.00 3.86
1366 1511 1.271108 TGTGTTGGCGCTTAATGAGGA 60.271 47.619 7.64 0.00 0.00 3.71
1374 1519 1.929836 CGCTTAATGAGGAGTGTGCTC 59.070 52.381 0.00 0.00 40.93 4.26
1539 1685 5.751243 ACATACATTACGCCTTCCATTTC 57.249 39.130 0.00 0.00 0.00 2.17
1574 1723 0.097674 GCAGCGTGAAATCTTGCGAT 59.902 50.000 0.00 0.00 0.00 4.58
2183 2338 0.378962 CTCGAGTACTTCTGAGGCCG 59.621 60.000 3.62 0.00 0.00 6.13
2215 2371 7.470079 TCTAGCCATCGTCGTATATATTGTTC 58.530 38.462 0.00 0.00 0.00 3.18
2216 2372 6.268825 AGCCATCGTCGTATATATTGTTCT 57.731 37.500 0.00 0.00 0.00 3.01
2217 2373 6.688578 AGCCATCGTCGTATATATTGTTCTT 58.311 36.000 0.00 0.00 0.00 2.52
2218 2374 7.823665 AGCCATCGTCGTATATATTGTTCTTA 58.176 34.615 0.00 0.00 0.00 2.10
2251 2407 1.528309 CGGGCAAGACCAACCAACT 60.528 57.895 0.00 0.00 42.05 3.16
2256 2412 2.026905 GCAAGACCAACCAACTGGGAA 61.027 52.381 0.00 0.00 41.16 3.97
2263 2419 3.655777 ACCAACCAACTGGGAAGATTAGA 59.344 43.478 0.00 0.00 41.16 2.10
2347 2504 4.312443 TCACCGTCTGTTTATGGTTCTTC 58.688 43.478 0.00 0.00 36.59 2.87
2354 2511 9.408069 CCGTCTGTTTATGGTTCTTCTATATAC 57.592 37.037 0.00 0.00 0.00 1.47
2360 2517 8.947115 GTTTATGGTTCTTCTATATACATGGCC 58.053 37.037 0.00 0.00 0.00 5.36
2405 2562 6.429692 TGTGAACACTCTGTAATTTACCATGG 59.570 38.462 11.19 11.19 0.00 3.66
2509 2672 6.653320 GGAAGATTGTGTGTTGTGTATTCCTA 59.347 38.462 0.00 0.00 31.81 2.94
2510 2673 7.148407 GGAAGATTGTGTGTTGTGTATTCCTAG 60.148 40.741 0.00 0.00 31.81 3.02
2513 2676 6.413783 TTGTGTGTTGTGTATTCCTAGAGA 57.586 37.500 0.00 0.00 0.00 3.10
2519 2684 6.809196 GTGTTGTGTATTCCTAGAGAAGACTG 59.191 42.308 15.24 0.00 45.20 3.51
2529 2694 2.818921 AGAGAAGACTGTCATGGCTCT 58.181 47.619 10.88 12.01 0.00 4.09
2532 2697 2.027377 AGAAGACTGTCATGGCTCTTGG 60.027 50.000 10.88 0.00 0.00 3.61
2533 2698 1.356124 AGACTGTCATGGCTCTTGGT 58.644 50.000 10.88 0.00 0.00 3.67
2534 2699 2.540383 AGACTGTCATGGCTCTTGGTA 58.460 47.619 10.88 0.00 0.00 3.25
2535 2700 2.234908 AGACTGTCATGGCTCTTGGTAC 59.765 50.000 10.88 0.00 0.00 3.34
2536 2701 1.977854 ACTGTCATGGCTCTTGGTACA 59.022 47.619 0.00 0.00 0.00 2.90
2544 2709 5.880332 TCATGGCTCTTGGTACACTAATTTC 59.120 40.000 0.00 0.00 39.29 2.17
2548 2713 6.439375 TGGCTCTTGGTACACTAATTTCTCTA 59.561 38.462 0.00 0.00 39.29 2.43
2578 2743 3.665190 CCGTCCTGTCTTAGCTTCTTTT 58.335 45.455 0.00 0.00 0.00 2.27
2643 2808 3.999663 AGAAAGATGCTGCTGTTACAGTC 59.000 43.478 14.23 7.00 39.96 3.51
2645 2810 1.625315 AGATGCTGCTGTTACAGTCCA 59.375 47.619 14.23 8.85 39.96 4.02
2649 2814 1.801178 GCTGCTGTTACAGTCCAACTC 59.199 52.381 14.23 0.00 39.96 3.01
2884 3052 5.931724 GGTGGAGAAAAGAAAAGAGAGAGAG 59.068 44.000 0.00 0.00 0.00 3.20
2885 3053 6.239458 GGTGGAGAAAAGAAAAGAGAGAGAGA 60.239 42.308 0.00 0.00 0.00 3.10
2886 3054 6.868339 GTGGAGAAAAGAAAAGAGAGAGAGAG 59.132 42.308 0.00 0.00 0.00 3.20
2887 3055 6.780031 TGGAGAAAAGAAAAGAGAGAGAGAGA 59.220 38.462 0.00 0.00 0.00 3.10
2890 3058 8.115490 AGAAAAGAAAAGAGAGAGAGAGAGAG 57.885 38.462 0.00 0.00 0.00 3.20
2891 3059 7.944554 AGAAAAGAAAAGAGAGAGAGAGAGAGA 59.055 37.037 0.00 0.00 0.00 3.10
3028 3196 5.344884 CGGGCCGTGATTTATTTTGTTTAT 58.655 37.500 19.97 0.00 0.00 1.40
3029 3197 5.808030 CGGGCCGTGATTTATTTTGTTTATT 59.192 36.000 19.97 0.00 0.00 1.40
3030 3198 6.237701 CGGGCCGTGATTTATTTTGTTTATTG 60.238 38.462 19.97 0.00 0.00 1.90
3031 3199 6.456315 GGGCCGTGATTTATTTTGTTTATTGC 60.456 38.462 0.00 0.00 0.00 3.56
3043 3211 3.987547 TGTTTATTGCAATGTGGTGTGG 58.012 40.909 22.27 0.00 0.00 4.17
3086 3254 1.421485 GATGTCTTGCTTGACGCCG 59.579 57.895 5.48 0.00 39.64 6.46
3137 3305 0.611062 AGCACTGCACATGATGGCTT 60.611 50.000 0.00 0.00 0.00 4.35
3138 3306 0.179145 GCACTGCACATGATGGCTTC 60.179 55.000 0.00 0.00 0.00 3.86
3139 3307 1.460504 CACTGCACATGATGGCTTCT 58.539 50.000 0.00 0.00 0.00 2.85
3142 3310 3.441222 CACTGCACATGATGGCTTCTAAA 59.559 43.478 0.00 0.00 0.00 1.85
3143 3311 3.693085 ACTGCACATGATGGCTTCTAAAG 59.307 43.478 0.00 0.00 0.00 1.85
3144 3312 3.943381 CTGCACATGATGGCTTCTAAAGA 59.057 43.478 0.00 0.00 0.00 2.52
3146 3314 3.242543 GCACATGATGGCTTCTAAAGACG 60.243 47.826 0.00 0.00 40.34 4.18
3147 3315 3.310774 CACATGATGGCTTCTAAAGACGG 59.689 47.826 0.00 0.00 40.34 4.79
3148 3316 2.024176 TGATGGCTTCTAAAGACGGC 57.976 50.000 3.42 3.42 40.34 5.68
3150 3318 0.462047 ATGGCTTCTAAAGACGGCCG 60.462 55.000 26.86 26.86 42.40 6.13
3151 3319 1.079336 GGCTTCTAAAGACGGCCGT 60.079 57.895 34.89 34.89 34.91 5.68
3152 3320 1.359459 GGCTTCTAAAGACGGCCGTG 61.359 60.000 39.65 21.67 34.91 4.94
3153 3321 0.669625 GCTTCTAAAGACGGCCGTGT 60.670 55.000 39.65 31.82 0.00 4.49
3154 3322 1.068474 CTTCTAAAGACGGCCGTGTG 58.932 55.000 39.65 20.60 0.00 3.82
3155 3323 0.947180 TTCTAAAGACGGCCGTGTGC 60.947 55.000 39.65 22.38 40.16 4.57
3156 3324 1.666553 CTAAAGACGGCCGTGTGCA 60.667 57.895 39.65 21.72 43.89 4.57
3158 3326 4.988598 AAGACGGCCGTGTGCAGG 62.989 66.667 39.65 0.80 43.89 4.85
3165 3333 3.941188 CCGTGTGCAGGGAGGTGT 61.941 66.667 5.06 0.00 38.58 4.16
3167 3335 1.369692 CGTGTGCAGGGAGGTGTAA 59.630 57.895 0.00 0.00 0.00 2.41
3168 3336 0.670546 CGTGTGCAGGGAGGTGTAAG 60.671 60.000 0.00 0.00 0.00 2.34
3177 3438 4.141711 GCAGGGAGGTGTAAGTGAATCATA 60.142 45.833 0.00 0.00 0.00 2.15
3237 3498 1.155889 GATCGAACACCACACATGCA 58.844 50.000 0.00 0.00 0.00 3.96
3238 3499 1.739466 GATCGAACACCACACATGCAT 59.261 47.619 0.00 0.00 0.00 3.96
3239 3500 0.873721 TCGAACACCACACATGCATG 59.126 50.000 25.09 25.09 0.00 4.06
3240 3501 0.730155 CGAACACCACACATGCATGC 60.730 55.000 26.53 11.82 0.00 4.06
3241 3502 0.730155 GAACACCACACATGCATGCG 60.730 55.000 26.53 19.79 0.00 4.73
3242 3503 1.454572 AACACCACACATGCATGCGT 61.455 50.000 26.53 20.53 0.00 5.24
3243 3504 1.443025 CACCACACATGCATGCGTG 60.443 57.895 31.71 31.71 39.77 5.34
3244 3505 1.600356 ACCACACATGCATGCGTGA 60.600 52.632 37.23 12.97 41.92 4.35
3245 3506 1.154169 CCACACATGCATGCGTGAC 60.154 57.895 37.23 3.46 41.92 3.67
3246 3507 1.510414 CACACATGCATGCGTGACG 60.510 57.895 39.42 30.56 41.92 4.35
3247 3508 2.098871 CACATGCATGCGTGACGG 59.901 61.111 39.42 25.43 36.80 4.79
3248 3509 2.047370 ACATGCATGCGTGACGGA 60.047 55.556 39.42 10.58 36.80 4.69
3249 3510 2.102438 ACATGCATGCGTGACGGAG 61.102 57.895 39.42 17.55 36.80 4.63
3275 3536 2.903357 GCGATCTTGCCTCCTCCA 59.097 61.111 0.00 0.00 0.00 3.86
3276 3537 1.522580 GCGATCTTGCCTCCTCCAC 60.523 63.158 0.00 0.00 0.00 4.02
3277 3538 1.144936 CGATCTTGCCTCCTCCACC 59.855 63.158 0.00 0.00 0.00 4.61
3278 3539 1.144936 GATCTTGCCTCCTCCACCG 59.855 63.158 0.00 0.00 0.00 4.94
3279 3540 2.317149 GATCTTGCCTCCTCCACCGG 62.317 65.000 0.00 0.00 0.00 5.28
3280 3541 2.822643 ATCTTGCCTCCTCCACCGGA 62.823 60.000 9.46 0.00 0.00 5.14
3304 3565 3.670377 GCCCTTGACGGTGCCAAC 61.670 66.667 0.00 0.00 0.00 3.77
3305 3566 3.353836 CCCTTGACGGTGCCAACG 61.354 66.667 0.00 0.00 37.36 4.10
3306 3567 3.353836 CCTTGACGGTGCCAACGG 61.354 66.667 7.23 0.00 35.23 4.44
3332 3593 4.451150 GTGGATCAGGCGCCGTCA 62.451 66.667 23.20 13.14 0.00 4.35
3333 3594 4.451150 TGGATCAGGCGCCGTCAC 62.451 66.667 23.20 14.16 0.00 3.67
3335 3596 4.148825 GATCAGGCGCCGTCACCT 62.149 66.667 23.20 0.00 36.45 4.00
3336 3597 4.148825 ATCAGGCGCCGTCACCTC 62.149 66.667 23.20 0.00 32.56 3.85
3342 3603 2.660552 CGCCGTCACCTCGTGTTT 60.661 61.111 0.00 0.00 34.79 2.83
3343 3604 2.654912 CGCCGTCACCTCGTGTTTC 61.655 63.158 0.00 0.00 34.79 2.78
3344 3605 1.300697 GCCGTCACCTCGTGTTTCT 60.301 57.895 0.00 0.00 34.79 2.52
3345 3606 1.282930 GCCGTCACCTCGTGTTTCTC 61.283 60.000 0.00 0.00 34.79 2.87
3346 3607 1.002250 CCGTCACCTCGTGTTTCTCG 61.002 60.000 0.00 0.00 34.79 4.04
3347 3608 1.606350 CGTCACCTCGTGTTTCTCGC 61.606 60.000 0.00 0.00 34.79 5.03
3353 3614 4.478195 CGTGTTTCTCGCGGATCT 57.522 55.556 6.13 0.00 44.94 2.75
3354 3615 1.991430 CGTGTTTCTCGCGGATCTG 59.009 57.895 6.13 0.00 44.94 2.90
3355 3616 0.456142 CGTGTTTCTCGCGGATCTGA 60.456 55.000 6.13 0.00 44.94 3.27
3356 3617 1.799181 CGTGTTTCTCGCGGATCTGAT 60.799 52.381 6.13 0.00 44.94 2.90
3357 3618 2.271800 GTGTTTCTCGCGGATCTGATT 58.728 47.619 6.13 0.00 0.00 2.57
3358 3619 2.282820 GTGTTTCTCGCGGATCTGATTC 59.717 50.000 6.13 0.00 0.00 2.52
3359 3620 1.861575 GTTTCTCGCGGATCTGATTCC 59.138 52.381 6.13 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 4.561734 CGAAGAGGAGGAACAAGCTTTACT 60.562 45.833 0.00 0.00 0.00 2.24
109 110 3.023735 GAGGGCCTCATTGGGGGT 61.024 66.667 28.55 0.00 36.00 4.95
115 116 1.002134 CACCAACGAGGGCCTCATT 60.002 57.895 31.69 22.02 43.89 2.57
142 167 0.941542 GAGTAGCGCAACCACAAACA 59.058 50.000 11.47 0.00 0.00 2.83
213 239 0.672401 AGGTTGTATTCGCCCGTGTG 60.672 55.000 0.00 0.00 0.00 3.82
239 265 3.316868 TCGTCGCAGGGATTTTTCTTTTT 59.683 39.130 0.00 0.00 0.00 1.94
244 270 1.737793 ACATCGTCGCAGGGATTTTTC 59.262 47.619 0.00 0.00 0.00 2.29
249 276 2.202932 GCACATCGTCGCAGGGAT 60.203 61.111 0.00 0.00 0.00 3.85
315 342 4.509737 GTGCCTCCCTACGTCGCC 62.510 72.222 0.00 0.00 0.00 5.54
316 343 4.849329 CGTGCCTCCCTACGTCGC 62.849 72.222 0.00 0.00 35.70 5.19
390 418 1.640428 CGTGACATACATCAACGCCT 58.360 50.000 0.00 0.00 0.00 5.52
393 421 1.266356 CGTGCGTGACATACATCAACG 60.266 52.381 0.00 0.00 0.00 4.10
398 426 1.075542 CAACCGTGCGTGACATACAT 58.924 50.000 0.00 0.00 0.00 2.29
412 440 2.004583 TTCTCTAATCGCACCAACCG 57.995 50.000 0.00 0.00 0.00 4.44
433 463 9.092876 GGCTAGATGTATAATTGTGCTTAGATC 57.907 37.037 0.00 0.00 0.00 2.75
460 490 4.378774 CTCTCTGCTATTCATGACAAGGG 58.621 47.826 0.00 0.00 0.00 3.95
461 491 3.808726 GCTCTCTGCTATTCATGACAAGG 59.191 47.826 0.00 0.00 38.95 3.61
465 533 3.790091 TGTGCTCTCTGCTATTCATGAC 58.210 45.455 0.00 0.00 43.37 3.06
488 556 4.727235 AGCTAGTAGAAAAACGCAACAC 57.273 40.909 0.00 0.00 0.00 3.32
561 637 3.119708 AGAGATTTTTCTCATTGGCGCAC 60.120 43.478 10.83 0.00 39.12 5.34
583 663 4.224370 GGGTTAGTTGGAGGTATGACTTGA 59.776 45.833 0.00 0.00 0.00 3.02
584 664 4.019681 TGGGTTAGTTGGAGGTATGACTTG 60.020 45.833 0.00 0.00 0.00 3.16
608 693 1.428448 GAAAATGACGGGCCAAAAGC 58.572 50.000 4.39 0.00 42.60 3.51
635 720 1.066587 GGGAGAGGAATCGACGCTG 59.933 63.158 0.00 0.00 0.00 5.18
689 785 2.495669 AGAGGAGCAGCTTCTACTGTTC 59.504 50.000 1.56 0.35 44.49 3.18
748 845 6.319405 GGCTTAGGATTTCCGTAACCAAAATA 59.681 38.462 0.00 0.00 42.08 1.40
755 852 2.862536 GTCGGCTTAGGATTTCCGTAAC 59.137 50.000 0.00 0.00 42.28 2.50
761 861 1.854227 CTCCGTCGGCTTAGGATTTC 58.146 55.000 6.34 0.00 33.04 2.17
774 874 0.788391 CCGTTTACTTGTGCTCCGTC 59.212 55.000 0.00 0.00 0.00 4.79
822 923 3.793144 CTTTGAGGTGCTCGCGCC 61.793 66.667 13.39 13.39 46.30 6.53
827 928 2.253758 TGTGCGCTTTGAGGTGCTC 61.254 57.895 9.73 0.00 42.46 4.26
871 975 1.623811 GGTCTCAAGCAACCTACTCCA 59.376 52.381 0.00 0.00 32.54 3.86
872 976 1.903183 AGGTCTCAAGCAACCTACTCC 59.097 52.381 0.00 0.00 44.12 3.85
896 1000 1.225854 GACGACGCAGCAATCAAGC 60.226 57.895 0.00 0.00 0.00 4.01
937 1041 3.838795 CAAGAGCCGCGCACGTAC 61.839 66.667 8.75 0.00 37.70 3.67
1023 1127 1.435515 GTTGGTTCGTTGCCTTGCA 59.564 52.632 0.00 0.00 36.47 4.08
1092 1201 4.821589 GCCGGCTCAAGGGACGAG 62.822 72.222 22.15 0.00 40.66 4.18
1296 1411 4.699925 ATTATAAGTAGCTTTGCGGGGA 57.300 40.909 0.00 0.00 0.00 4.81
1297 1412 4.215613 GGAATTATAAGTAGCTTTGCGGGG 59.784 45.833 0.00 0.00 0.00 5.73
1299 1414 6.038271 AGTTGGAATTATAAGTAGCTTTGCGG 59.962 38.462 0.00 0.00 0.00 5.69
1304 1419 5.758784 GCGGAGTTGGAATTATAAGTAGCTT 59.241 40.000 0.00 0.00 0.00 3.74
1306 1421 4.451435 GGCGGAGTTGGAATTATAAGTAGC 59.549 45.833 0.00 0.00 0.00 3.58
1307 1422 4.995487 GGGCGGAGTTGGAATTATAAGTAG 59.005 45.833 0.00 0.00 0.00 2.57
1308 1423 4.501915 CGGGCGGAGTTGGAATTATAAGTA 60.502 45.833 0.00 0.00 0.00 2.24
1311 1426 2.171027 ACGGGCGGAGTTGGAATTATAA 59.829 45.455 0.00 0.00 0.00 0.98
1312 1427 1.764134 ACGGGCGGAGTTGGAATTATA 59.236 47.619 0.00 0.00 0.00 0.98
1313 1428 0.544697 ACGGGCGGAGTTGGAATTAT 59.455 50.000 0.00 0.00 0.00 1.28
1315 1430 1.376812 GACGGGCGGAGTTGGAATT 60.377 57.895 0.00 0.00 0.00 2.17
1316 1431 2.267961 GACGGGCGGAGTTGGAAT 59.732 61.111 0.00 0.00 0.00 3.01
1317 1432 2.920912 AGACGGGCGGAGTTGGAA 60.921 61.111 0.00 0.00 0.00 3.53
1318 1433 3.691342 CAGACGGGCGGAGTTGGA 61.691 66.667 0.00 0.00 0.00 3.53
1319 1434 3.530910 AACAGACGGGCGGAGTTGG 62.531 63.158 0.00 0.00 0.00 3.77
1320 1435 1.164041 AAAACAGACGGGCGGAGTTG 61.164 55.000 0.00 0.00 0.00 3.16
1321 1436 0.883370 GAAAACAGACGGGCGGAGTT 60.883 55.000 0.00 0.00 0.00 3.01
1322 1437 1.301479 GAAAACAGACGGGCGGAGT 60.301 57.895 0.00 0.00 0.00 3.85
1327 1442 0.598065 ATGCAAGAAAACAGACGGGC 59.402 50.000 0.00 0.00 0.00 6.13
1329 1444 2.033299 ACACATGCAAGAAAACAGACGG 59.967 45.455 0.00 0.00 0.00 4.79
1331 1446 3.798337 CCAACACATGCAAGAAAACAGAC 59.202 43.478 0.00 0.00 0.00 3.51
1339 1454 1.454572 AAGCGCCAACACATGCAAGA 61.455 50.000 2.29 0.00 0.00 3.02
1341 1456 0.670706 TTAAGCGCCAACACATGCAA 59.329 45.000 2.29 0.00 0.00 4.08
1363 1508 1.911357 TGGATCATTGAGCACACTCCT 59.089 47.619 4.07 0.00 42.74 3.69
1364 1509 2.286872 CTGGATCATTGAGCACACTCC 58.713 52.381 4.07 0.00 42.74 3.85
1365 1510 2.286872 CCTGGATCATTGAGCACACTC 58.713 52.381 4.07 0.00 43.76 3.51
1366 1511 1.632409 ACCTGGATCATTGAGCACACT 59.368 47.619 0.00 0.00 0.00 3.55
1374 1519 2.562635 CTCTGCAGACCTGGATCATTG 58.437 52.381 13.74 0.00 0.00 2.82
1574 1723 1.298157 CCGCTCCGTTCATCAGCAAA 61.298 55.000 0.00 0.00 32.27 3.68
1784 1933 1.902432 AGGGCTATACCGTCGGCTC 60.902 63.158 12.28 0.00 40.62 4.70
1785 1934 2.197875 AGGGCTATACCGTCGGCT 59.802 61.111 12.28 1.12 40.62 5.52
1795 1944 1.153005 GCTGCTGCTTCAGGGCTAT 60.153 57.895 8.53 0.00 34.74 2.97
2055 2210 2.125350 GGCTCCACCTTGCTCTCG 60.125 66.667 0.00 0.00 34.51 4.04
2183 2338 2.033550 ACGACGATGGCTAGATCAGAAC 59.966 50.000 0.00 0.00 0.00 3.01
2215 2371 2.669434 CCCGTGTCCGTGTGTAAATAAG 59.331 50.000 0.00 0.00 0.00 1.73
2216 2372 2.686235 CCCGTGTCCGTGTGTAAATAA 58.314 47.619 0.00 0.00 0.00 1.40
2217 2373 1.672441 GCCCGTGTCCGTGTGTAAATA 60.672 52.381 0.00 0.00 0.00 1.40
2218 2374 0.952010 GCCCGTGTCCGTGTGTAAAT 60.952 55.000 0.00 0.00 0.00 1.40
2230 2386 2.203294 GGTTGGTCTTGCCCGTGT 60.203 61.111 0.00 0.00 36.04 4.49
2251 2407 6.497259 ACAAAGTACAGTCTCTAATCTTCCCA 59.503 38.462 0.00 0.00 0.00 4.37
2263 2419 9.482627 CTAGAGAAAATTGACAAAGTACAGTCT 57.517 33.333 12.37 0.00 35.81 3.24
2295 2451 9.499585 GAAAAGAAACAGTGTTAAAGGAGTAAC 57.500 33.333 9.37 0.00 35.02 2.50
2347 2504 7.556844 ACCTCTTATTTCGGCCATGTATATAG 58.443 38.462 2.24 0.00 0.00 1.31
2354 2511 6.037786 TCTATACCTCTTATTTCGGCCATG 57.962 41.667 2.24 0.00 0.00 3.66
2462 2621 5.419788 TCCAAGTAATAGCAACTTACCGAGA 59.580 40.000 0.00 0.00 35.44 4.04
2509 2672 2.818921 AGAGCCATGACAGTCTTCTCT 58.181 47.619 1.31 5.56 0.00 3.10
2510 2673 3.260740 CAAGAGCCATGACAGTCTTCTC 58.739 50.000 1.31 3.47 0.00 2.87
2513 2676 1.701847 ACCAAGAGCCATGACAGTCTT 59.298 47.619 1.31 0.00 0.00 3.01
2519 2684 2.770164 AGTGTACCAAGAGCCATGAC 57.230 50.000 0.00 0.00 0.00 3.06
2529 2694 6.212791 ACCTGCTAGAGAAATTAGTGTACCAA 59.787 38.462 0.00 0.00 0.00 3.67
2532 2697 5.972382 CGACCTGCTAGAGAAATTAGTGTAC 59.028 44.000 0.00 0.00 0.00 2.90
2533 2698 5.450137 GCGACCTGCTAGAGAAATTAGTGTA 60.450 44.000 0.00 0.00 41.73 2.90
2534 2699 4.678309 GCGACCTGCTAGAGAAATTAGTGT 60.678 45.833 0.00 0.00 41.73 3.55
2535 2700 3.799420 GCGACCTGCTAGAGAAATTAGTG 59.201 47.826 0.00 0.00 41.73 2.74
2536 2701 3.181474 GGCGACCTGCTAGAGAAATTAGT 60.181 47.826 0.00 0.00 45.43 2.24
2544 2709 2.409651 GACGGCGACCTGCTAGAG 59.590 66.667 16.62 0.00 45.43 2.43
2643 2808 1.667724 CTGCTGCTAATTCCGAGTTGG 59.332 52.381 0.00 0.00 40.09 3.77
2645 2810 1.373570 GCTGCTGCTAATTCCGAGTT 58.626 50.000 8.53 0.00 36.03 3.01
2674 2842 0.732880 ATCACTGAAACCGACTCGCG 60.733 55.000 0.00 0.00 40.47 5.87
2682 2850 4.082733 GCTCCCAAACTAATCACTGAAACC 60.083 45.833 0.00 0.00 0.00 3.27
2683 2851 4.518970 TGCTCCCAAACTAATCACTGAAAC 59.481 41.667 0.00 0.00 0.00 2.78
2809 2977 3.061322 TCACGGGAGTAATTCAAACACG 58.939 45.455 0.00 0.00 44.67 4.49
2884 3052 4.696402 TCTTTAGTTCCACTCGTCTCTCTC 59.304 45.833 0.00 0.00 0.00 3.20
2885 3053 4.653868 TCTTTAGTTCCACTCGTCTCTCT 58.346 43.478 0.00 0.00 0.00 3.10
2886 3054 5.373981 TTCTTTAGTTCCACTCGTCTCTC 57.626 43.478 0.00 0.00 0.00 3.20
2887 3055 5.535406 TCTTTCTTTAGTTCCACTCGTCTCT 59.465 40.000 0.00 0.00 0.00 3.10
2890 3058 4.382160 CGTCTTTCTTTAGTTCCACTCGTC 59.618 45.833 0.00 0.00 0.00 4.20
2891 3059 4.296690 CGTCTTTCTTTAGTTCCACTCGT 58.703 43.478 0.00 0.00 0.00 4.18
2933 3101 2.029623 TCCGTAGAAAGGAATCCCGAG 58.970 52.381 0.00 0.00 37.58 4.63
3002 3170 0.738389 AAATAAATCACGGCCCGCAG 59.262 50.000 1.23 0.00 0.00 5.18
3028 3196 2.025767 GCCACCACACCACATTGCAA 62.026 55.000 0.00 0.00 0.00 4.08
3029 3197 2.497173 GCCACCACACCACATTGCA 61.497 57.895 0.00 0.00 0.00 4.08
3030 3198 2.339712 GCCACCACACCACATTGC 59.660 61.111 0.00 0.00 0.00 3.56
3031 3199 2.644418 CGCCACCACACCACATTG 59.356 61.111 0.00 0.00 0.00 2.82
3058 3226 4.805719 TCAAGCAAGACATCGTATCATCAC 59.194 41.667 0.00 0.00 0.00 3.06
3059 3227 4.805719 GTCAAGCAAGACATCGTATCATCA 59.194 41.667 3.94 0.00 38.40 3.07
3060 3228 4.085363 CGTCAAGCAAGACATCGTATCATC 60.085 45.833 8.91 0.00 38.43 2.92
3086 3254 3.444805 AGCCGCGGTCAGAGTCTC 61.445 66.667 28.70 6.22 0.00 3.36
3137 3305 1.373748 GCACACGGCCGTCTTTAGA 60.374 57.895 31.80 0.00 36.11 2.10
3138 3306 1.626654 CTGCACACGGCCGTCTTTAG 61.627 60.000 31.80 19.99 43.89 1.85
3139 3307 1.666553 CTGCACACGGCCGTCTTTA 60.667 57.895 31.80 14.65 43.89 1.85
3148 3316 2.107041 TTACACCTCCCTGCACACGG 62.107 60.000 0.00 0.00 0.00 4.94
3150 3318 0.396811 ACTTACACCTCCCTGCACAC 59.603 55.000 0.00 0.00 0.00 3.82
3151 3319 0.396435 CACTTACACCTCCCTGCACA 59.604 55.000 0.00 0.00 0.00 4.57
3152 3320 0.685097 TCACTTACACCTCCCTGCAC 59.315 55.000 0.00 0.00 0.00 4.57
3153 3321 1.429930 TTCACTTACACCTCCCTGCA 58.570 50.000 0.00 0.00 0.00 4.41
3154 3322 2.027192 TGATTCACTTACACCTCCCTGC 60.027 50.000 0.00 0.00 0.00 4.85
3155 3323 3.981071 TGATTCACTTACACCTCCCTG 57.019 47.619 0.00 0.00 0.00 4.45
3156 3324 4.101741 GCTATGATTCACTTACACCTCCCT 59.898 45.833 0.00 0.00 0.00 4.20
3158 3326 4.381411 GGCTATGATTCACTTACACCTCC 58.619 47.826 0.00 0.00 0.00 4.30
3159 3327 4.381411 GGGCTATGATTCACTTACACCTC 58.619 47.826 0.00 0.00 0.00 3.85
3160 3328 3.136626 GGGGCTATGATTCACTTACACCT 59.863 47.826 0.00 0.00 0.00 4.00
3161 3329 3.118038 TGGGGCTATGATTCACTTACACC 60.118 47.826 0.00 0.00 0.00 4.16
3162 3330 4.150897 TGGGGCTATGATTCACTTACAC 57.849 45.455 0.00 0.00 0.00 2.90
3163 3331 5.104151 TCAATGGGGCTATGATTCACTTACA 60.104 40.000 0.00 0.00 0.00 2.41
3164 3332 5.376625 TCAATGGGGCTATGATTCACTTAC 58.623 41.667 0.00 0.00 0.00 2.34
3165 3333 5.456619 CCTCAATGGGGCTATGATTCACTTA 60.457 44.000 0.00 0.00 0.00 2.24
3167 3335 3.181436 CCTCAATGGGGCTATGATTCACT 60.181 47.826 0.00 0.00 0.00 3.41
3168 3336 3.152341 CCTCAATGGGGCTATGATTCAC 58.848 50.000 0.00 0.00 0.00 3.18
3224 3485 2.956194 CGCATGCATGTGTGGTGT 59.044 55.556 28.23 0.00 33.79 4.16
3230 3491 2.098871 CCGTCACGCATGCATGTG 59.901 61.111 33.09 33.09 43.60 3.21
3237 3498 4.082523 CCCCACTCCGTCACGCAT 62.083 66.667 0.00 0.00 0.00 4.73
3258 3519 1.522580 GTGGAGGAGGCAAGATCGC 60.523 63.158 0.00 0.00 0.00 4.58
3259 3520 1.144936 GGTGGAGGAGGCAAGATCG 59.855 63.158 0.00 0.00 0.00 3.69
3260 3521 1.144936 CGGTGGAGGAGGCAAGATC 59.855 63.158 0.00 0.00 0.00 2.75
3261 3522 2.370445 CCGGTGGAGGAGGCAAGAT 61.370 63.158 0.00 0.00 0.00 2.40
3262 3523 3.003173 CCGGTGGAGGAGGCAAGA 61.003 66.667 0.00 0.00 0.00 3.02
3263 3524 3.003173 TCCGGTGGAGGAGGCAAG 61.003 66.667 0.00 0.00 34.92 4.01
3287 3548 3.670377 GTTGGCACCGTCAAGGGC 61.670 66.667 0.00 0.00 46.96 5.19
3288 3549 3.353836 CGTTGGCACCGTCAAGGG 61.354 66.667 0.00 0.00 46.96 3.95
3315 3576 4.451150 TGACGGCGCCTGATCCAC 62.451 66.667 26.68 8.01 0.00 4.02
3316 3577 4.451150 GTGACGGCGCCTGATCCA 62.451 66.667 26.68 11.69 0.00 3.41
3325 3586 2.654912 GAAACACGAGGTGACGGCG 61.655 63.158 4.80 4.80 36.96 6.46
3326 3587 1.282930 GAGAAACACGAGGTGACGGC 61.283 60.000 2.29 0.00 36.96 5.68
3327 3588 1.002250 CGAGAAACACGAGGTGACGG 61.002 60.000 2.29 0.00 36.96 4.79
3328 3589 1.606350 GCGAGAAACACGAGGTGACG 61.606 60.000 2.29 0.00 36.96 4.35
3329 3590 1.606350 CGCGAGAAACACGAGGTGAC 61.606 60.000 0.00 0.00 36.96 3.67
3330 3591 1.371267 CGCGAGAAACACGAGGTGA 60.371 57.895 0.00 0.00 36.96 4.02
3331 3592 2.372690 CCGCGAGAAACACGAGGTG 61.373 63.158 8.23 0.00 43.47 4.00
3332 3593 2.049433 CCGCGAGAAACACGAGGT 60.049 61.111 8.23 0.00 43.47 3.85
3334 3595 0.179161 AGATCCGCGAGAAACACGAG 60.179 55.000 8.23 0.00 0.00 4.18
3335 3596 0.456142 CAGATCCGCGAGAAACACGA 60.456 55.000 8.23 0.00 0.00 4.35
3336 3597 0.456142 TCAGATCCGCGAGAAACACG 60.456 55.000 8.23 0.00 0.00 4.49
3337 3598 1.927895 ATCAGATCCGCGAGAAACAC 58.072 50.000 8.23 0.00 0.00 3.32
3338 3599 2.540515 GAATCAGATCCGCGAGAAACA 58.459 47.619 8.23 0.00 0.00 2.83
3339 3600 1.861575 GGAATCAGATCCGCGAGAAAC 59.138 52.381 8.23 2.56 0.00 2.78
3340 3601 2.225068 GGAATCAGATCCGCGAGAAA 57.775 50.000 8.23 0.00 0.00 2.52
3341 3602 3.967886 GGAATCAGATCCGCGAGAA 57.032 52.632 8.23 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.