Multiple sequence alignment - TraesCS2A01G173100

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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 TraesCS2A01G173100 chr2A 100.000 3167 0 0 1 3167 130716365 130719531 0.000000e+00 5849
1 TraesCS2A01G173100 chr2A 81.651 218 35 4 1934 2149 584049846 584050060 3.250000e-40 176
2 TraesCS2A01G173100 chr2B 90.052 1156 86 16 1533 2671 177583996 177585139 0.000000e+00 1471
3 TraesCS2A01G173100 chr2B 87.462 662 33 18 900 1549 177583356 177583979 0.000000e+00 717
4 TraesCS2A01G173100 chr2B 84.601 539 63 11 1 536 177548764 177549285 4.680000e-143 518
5 TraesCS2A01G173100 chr2B 89.806 412 31 6 2753 3164 177585138 177585538 4.680000e-143 518
6 TraesCS2A01G173100 chr2B 86.589 343 34 5 555 890 177582941 177583278 4.990000e-98 368
7 TraesCS2A01G173100 chr2D 91.081 953 64 8 1735 2671 124803416 124804363 0.000000e+00 1269
8 TraesCS2A01G173100 chr2D 84.319 778 81 13 11 773 124800183 124800934 0.000000e+00 723
9 TraesCS2A01G173100 chr2D 91.770 486 21 10 914 1390 124802502 124802977 0.000000e+00 658
10 TraesCS2A01G173100 chr2D 88.136 413 37 7 2753 3164 124804362 124804763 6.140000e-132 481
11 TraesCS2A01G173100 chr2D 84.252 254 22 8 1490 1737 124803028 124803269 6.830000e-57 231
12 TraesCS2A01G173100 chr4A 100.000 87 0 0 2668 2754 590257860 590257774 9.090000e-36 161
13 TraesCS2A01G173100 chr5A 95.833 96 4 0 2670 2765 398722210 398722115 4.230000e-34 156
14 TraesCS2A01G173100 chr7A 97.753 89 2 0 2666 2754 210000871 210000959 1.520000e-33 154
15 TraesCS2A01G173100 chr6D 96.703 91 3 0 2667 2757 99730292 99730202 5.470000e-33 152
16 TraesCS2A01G173100 chr5B 95.745 94 4 0 2670 2763 559465932 559465839 5.470000e-33 152
17 TraesCS2A01G173100 chr3B 95.699 93 4 0 2669 2761 723456088 723455996 1.970000e-32 150
18 TraesCS2A01G173100 chr3B 93.750 96 6 0 2659 2754 569062497 569062592 9.160000e-31 145
19 TraesCS2A01G173100 chr6B 92.157 102 8 0 2667 2768 711374665 711374766 9.160000e-31 145
20 TraesCS2A01G173100 chr3D 94.318 88 5 0 2670 2757 141424359 141424272 5.510000e-28 135


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 TraesCS2A01G173100 chr2A 130716365 130719531 3166 False 5849.0 5849 100.00000 1 3167 1 chr2A.!!$F1 3166
1 TraesCS2A01G173100 chr2B 177582941 177585538 2597 False 768.5 1471 88.47725 555 3164 4 chr2B.!!$F2 2609
2 TraesCS2A01G173100 chr2B 177548764 177549285 521 False 518.0 518 84.60100 1 536 1 chr2B.!!$F1 535
3 TraesCS2A01G173100 chr2D 124800183 124804763 4580 False 672.4 1269 87.91160 11 3164 5 chr2D.!!$F1 3153

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
176 181 0.034670 GCCATCTCATCCCCTATGCC 60.035 60.0 0.0 0.0 35.38 4.40 F
1295 2776 0.035439 CGGCCCCTCTACACACATTT 60.035 55.0 0.0 0.0 0.00 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2025 3708 0.250901 ATGCTTCTTGCCAGAACCGT 60.251 50.0 0.0 0.0 42.00 4.83 R
3107 4798 0.106519 GTGGGCTTGGATGCACCTAT 60.107 55.0 0.0 0.0 39.86 2.57 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
118 120 2.203394 CCCAATGGCCCGGATCTG 60.203 66.667 0.73 0.00 0.00 2.90
142 144 1.258445 CCCACTAGTTCCTGGCTCGT 61.258 60.000 0.00 0.00 0.00 4.18
144 146 0.179161 CACTAGTTCCTGGCTCGTCG 60.179 60.000 0.00 0.00 0.00 5.12
156 161 0.248539 GCTCGTCGGCTTCGTAGATT 60.249 55.000 0.00 0.00 35.04 2.40
176 181 0.034670 GCCATCTCATCCCCTATGCC 60.035 60.000 0.00 0.00 35.38 4.40
208 215 1.613928 TGCCACCTCCATAACCCGA 60.614 57.895 0.00 0.00 0.00 5.14
215 222 1.041437 CTCCATAACCCGACCTCCTC 58.959 60.000 0.00 0.00 0.00 3.71
222 229 2.427245 CCCGACCTCCTCGATGCTT 61.427 63.158 0.00 0.00 46.14 3.91
223 230 1.517832 CCGACCTCCTCGATGCTTT 59.482 57.895 0.00 0.00 46.14 3.51
228 236 0.539051 CCTCCTCGATGCTTTGTCCT 59.461 55.000 0.00 0.00 0.00 3.85
260 268 4.664677 GGCTCGTGTGTCTGGCGT 62.665 66.667 0.00 0.00 0.00 5.68
315 323 2.900546 ACGTCTTGACCTCTGATTCCTT 59.099 45.455 0.00 0.00 0.00 3.36
322 330 5.047566 TGACCTCTGATTCCTTGTTTTCA 57.952 39.130 0.00 0.00 0.00 2.69
357 365 0.755327 AAAACCCCGCTCAACTTGCT 60.755 50.000 0.00 0.00 0.00 3.91
358 366 0.109723 AAACCCCGCTCAACTTGCTA 59.890 50.000 0.00 0.00 0.00 3.49
379 387 4.182433 TTGGCAGCGGTGACACCA 62.182 61.111 25.38 15.62 43.47 4.17
444 452 1.403687 GCCCCCTCTTCGAGCACTAT 61.404 60.000 0.00 0.00 0.00 2.12
475 483 2.656002 AGGTCTGATTCTTCGGATCGA 58.344 47.619 0.00 0.00 42.34 3.59
478 486 3.428999 GGTCTGATTCTTCGGATCGAACA 60.429 47.826 0.00 0.00 41.05 3.18
479 487 3.794028 GTCTGATTCTTCGGATCGAACAG 59.206 47.826 10.22 10.22 41.05 3.16
480 488 2.537625 CTGATTCTTCGGATCGAACAGC 59.462 50.000 0.00 0.00 41.05 4.40
493 501 1.514678 GAACAGCGATGCCACCACAA 61.515 55.000 0.00 0.00 0.00 3.33
536 544 2.029020 TGTGCTCTTGTCTATTCGCAGT 60.029 45.455 0.00 0.00 0.00 4.40
544 552 0.174845 TCTATTCGCAGTGTTCCCGG 59.825 55.000 0.00 0.00 0.00 5.73
549 557 3.357079 GCAGTGTTCCCGGTGCTG 61.357 66.667 0.00 2.19 32.97 4.41
570 584 4.078537 TGGATTTGTCGGATGTCATGTTT 58.921 39.130 0.00 0.00 0.00 2.83
604 622 3.017442 CTCTTAAGCCAAGGGTTTAGCC 58.983 50.000 9.03 0.00 37.08 3.93
626 644 4.142556 CCGTGTTGTTTACTTGTTCAGGTT 60.143 41.667 0.00 0.00 0.00 3.50
646 664 3.953542 TGAGCACCCTATGTCTCTCTA 57.046 47.619 0.00 0.00 34.45 2.43
651 669 4.661240 AGCACCCTATGTCTCTCTACTCTA 59.339 45.833 0.00 0.00 0.00 2.43
665 683 1.267121 ACTCTAGGCACCGTGTTCAT 58.733 50.000 0.00 0.00 0.00 2.57
667 685 0.973632 TCTAGGCACCGTGTTCATGT 59.026 50.000 0.00 0.00 0.00 3.21
671 689 0.447801 GGCACCGTGTTCATGTCATC 59.552 55.000 0.00 0.00 0.00 2.92
679 697 4.457810 CGTGTTCATGTCATCTTGTGTTC 58.542 43.478 0.00 0.00 0.00 3.18
781 799 0.250124 ACCAAGTGATTTGCCGTCGA 60.250 50.000 0.00 0.00 35.37 4.20
790 808 2.981977 TTTGCCGTCGACGAAGCCTT 62.982 55.000 37.65 0.00 43.02 4.35
796 814 1.626747 GTCGACGAAGCCTTTCCTAC 58.373 55.000 0.00 0.00 0.00 3.18
799 817 0.245813 GACGAAGCCTTTCCTACCGT 59.754 55.000 0.00 0.00 0.00 4.83
890 2053 5.964887 TTTTCACCAAAATTTCAAGCGAG 57.035 34.783 0.00 0.00 0.00 5.03
891 2054 3.011949 TCACCAAAATTTCAAGCGAGC 57.988 42.857 0.00 0.00 0.00 5.03
892 2055 2.360483 TCACCAAAATTTCAAGCGAGCA 59.640 40.909 0.00 0.00 0.00 4.26
896 2059 3.671928 CCAAAATTTCAAGCGAGCAAGAG 59.328 43.478 0.00 0.00 0.00 2.85
897 2060 4.539870 CAAAATTTCAAGCGAGCAAGAGA 58.460 39.130 0.00 0.00 0.00 3.10
898 2061 4.836125 AAATTTCAAGCGAGCAAGAGAA 57.164 36.364 0.00 0.00 0.00 2.87
1077 2558 2.289133 GGCGACTAAGATCTCCATTCCC 60.289 54.545 0.00 0.00 0.00 3.97
1134 2615 4.404098 AAGGGGCGGTACAAGGCG 62.404 66.667 7.78 0.00 34.74 5.52
1286 2767 2.517875 GCTCGTACGGCCCCTCTA 60.518 66.667 16.52 0.00 0.00 2.43
1288 2769 1.452651 CTCGTACGGCCCCTCTACA 60.453 63.158 16.52 0.00 0.00 2.74
1295 2776 0.035439 CGGCCCCTCTACACACATTT 60.035 55.000 0.00 0.00 0.00 2.32
1312 2793 3.212685 CATTTCCTCTCAGATCTTGCCC 58.787 50.000 0.00 0.00 0.00 5.36
1314 2795 3.404869 TTCCTCTCAGATCTTGCCCTA 57.595 47.619 0.00 0.00 0.00 3.53
1324 2805 0.698238 TCTTGCCCTACATTGGTGCT 59.302 50.000 0.00 0.00 0.00 4.40
1325 2806 1.075374 TCTTGCCCTACATTGGTGCTT 59.925 47.619 0.00 0.00 0.00 3.91
1326 2807 1.203052 CTTGCCCTACATTGGTGCTTG 59.797 52.381 0.00 0.00 0.00 4.01
1327 2808 0.112218 TGCCCTACATTGGTGCTTGT 59.888 50.000 0.00 0.00 0.00 3.16
1328 2809 1.256812 GCCCTACATTGGTGCTTGTT 58.743 50.000 0.00 0.00 0.00 2.83
1329 2810 1.202348 GCCCTACATTGGTGCTTGTTC 59.798 52.381 0.00 0.00 0.00 3.18
1330 2811 2.513753 CCCTACATTGGTGCTTGTTCA 58.486 47.619 0.00 0.00 0.00 3.18
1331 2812 2.489329 CCCTACATTGGTGCTTGTTCAG 59.511 50.000 0.00 0.00 0.00 3.02
1343 2824 3.755905 TGCTTGTTCAGTTGTTCTGTTCA 59.244 39.130 0.00 0.00 43.97 3.18
1467 2950 7.638444 TCAGAATAAGAATGAAATGGGTGGTA 58.362 34.615 0.00 0.00 0.00 3.25
1468 2951 7.556275 TCAGAATAAGAATGAAATGGGTGGTAC 59.444 37.037 0.00 0.00 0.00 3.34
1469 2952 7.339212 CAGAATAAGAATGAAATGGGTGGTACA 59.661 37.037 0.00 0.00 0.00 2.90
1495 2978 7.881232 ACTTACTTCTTTTTCGATATTGGGTGA 59.119 33.333 0.00 0.00 0.00 4.02
1506 2989 6.978338 TCGATATTGGGTGATACACTTACTC 58.022 40.000 0.00 0.00 34.40 2.59
1537 3055 9.342308 CAACAAACATATGAGTATACCTGGAAT 57.658 33.333 10.38 0.00 0.00 3.01
1578 3096 7.223971 AGCTTTGCACGACGAATTAATTATCTA 59.776 33.333 0.00 0.00 0.00 1.98
1614 3138 6.964807 TTTCAGCCATACATATGCATCTTT 57.035 33.333 0.19 0.00 32.40 2.52
1689 3213 6.744112 TGAAAACCTGAAACCATGATGTTAC 58.256 36.000 0.00 0.00 0.00 2.50
1691 3215 3.343617 ACCTGAAACCATGATGTTACGG 58.656 45.455 0.00 0.00 0.00 4.02
1699 3223 3.709653 ACCATGATGTTACGGTGATACCT 59.290 43.478 0.00 0.00 35.66 3.08
1785 3460 4.262420 CCTTGTTCTTGGTTTGGGTTATGG 60.262 45.833 0.00 0.00 0.00 2.74
1846 3521 4.509970 TCAATCTTGATATTGTTACCGGCG 59.490 41.667 0.00 0.00 37.94 6.46
1851 3526 2.036217 TGATATTGTTACCGGCGGTAGG 59.964 50.000 34.37 9.17 39.52 3.18
1852 3527 0.104671 TATTGTTACCGGCGGTAGGC 59.895 55.000 34.37 29.40 39.52 3.93
1887 3565 8.560374 AGTTCAAGCAAATGAAACTAGAACTAC 58.440 33.333 0.00 0.00 40.71 2.73
1898 3576 8.253867 TGAAACTAGAACTACTTCTGGGTTTA 57.746 34.615 0.00 3.80 43.11 2.01
1905 3588 8.762481 AGAACTACTTCTGGGTTTATGTTTTT 57.238 30.769 0.00 0.00 35.24 1.94
1976 3659 2.979678 AGGAAAGGGAGAAACTAGTGCA 59.020 45.455 0.00 0.00 0.00 4.57
2025 3708 2.509131 TGGTGATCATGTATGGCTTCCA 59.491 45.455 0.00 0.00 38.19 3.53
2082 3765 2.420547 GGAGCTTGCTGGTGATGATACA 60.421 50.000 0.00 0.00 0.00 2.29
2190 3873 7.177878 AGGTATGAGTGAATTGATCCTTTTGT 58.822 34.615 0.00 0.00 0.00 2.83
2209 3892 6.546428 TTTGTTAACTTTGTTTCCCCATGA 57.454 33.333 7.22 0.00 0.00 3.07
2210 3893 6.546428 TTGTTAACTTTGTTTCCCCATGAA 57.454 33.333 7.22 0.00 0.00 2.57
2215 3898 9.719355 GTTAACTTTGTTTCCCCATGAAAATAT 57.281 29.630 0.00 0.00 44.30 1.28
2217 3900 8.620116 AACTTTGTTTCCCCATGAAAATATTG 57.380 30.769 0.00 0.00 44.30 1.90
2234 3917 9.750125 GAAAATATTGTTTCCTCTTGTTTGAGT 57.250 29.630 0.00 0.00 32.36 3.41
2255 3938 5.357257 AGTTAGCCAATCGAATCGTTATGT 58.643 37.500 1.52 0.00 0.00 2.29
2267 3950 6.812656 TCGAATCGTTATGTTTGCTTTACCTA 59.187 34.615 1.52 0.00 0.00 3.08
2269 3952 6.673154 ATCGTTATGTTTGCTTTACCTACC 57.327 37.500 0.00 0.00 0.00 3.18
2311 3994 4.305769 AGTGCGATTATCATCTCTGAAGC 58.694 43.478 0.00 0.00 34.37 3.86
2325 4008 4.522405 TCTCTGAAGCAGCTATCCAGTATC 59.478 45.833 15.13 0.61 0.00 2.24
2326 4009 3.254411 TCTGAAGCAGCTATCCAGTATCG 59.746 47.826 15.13 0.00 0.00 2.92
2334 4017 7.316640 AGCAGCTATCCAGTATCGTTTATTAG 58.683 38.462 0.00 0.00 0.00 1.73
2388 4071 2.642139 AATTGTTGGATTCTGCAGCG 57.358 45.000 9.47 0.00 0.00 5.18
2404 4087 0.036875 AGCGCTGCCTTTACCTTTCT 59.963 50.000 10.39 0.00 0.00 2.52
2424 4107 3.932710 TCTTAAGTTCATTGCTACAGCCG 59.067 43.478 1.63 0.00 41.18 5.52
2441 4124 1.734465 GCCGAGACCAAAACTGAGATG 59.266 52.381 0.00 0.00 0.00 2.90
2442 4125 2.350522 CCGAGACCAAAACTGAGATGG 58.649 52.381 0.00 0.00 40.16 3.51
2455 4138 7.621428 AAACTGAGATGGATTACACAATGAG 57.379 36.000 0.00 0.00 0.00 2.90
2468 4151 1.077212 AATGAGGGCTGCGATTGCT 60.077 52.632 6.47 0.00 43.34 3.91
2470 4153 0.533755 ATGAGGGCTGCGATTGCTAC 60.534 55.000 6.47 0.00 43.34 3.58
2490 4173 3.614092 ACTCCAATTATGTGCTCACTGG 58.386 45.455 1.47 0.87 0.00 4.00
2501 4184 6.932356 ATGTGCTCACTGGTTAGATTATTG 57.068 37.500 1.47 0.00 0.00 1.90
2507 4190 8.264347 TGCTCACTGGTTAGATTATTGATTGTA 58.736 33.333 0.00 0.00 0.00 2.41
2524 4207 5.466728 TGATTGTAGTCTGCAACTTCTCAAC 59.533 40.000 5.43 1.15 39.55 3.18
2530 4213 5.278709 TAGTCTGCAACTTCTCAACTCTGAG 60.279 44.000 2.45 2.45 43.57 3.35
2547 4230 3.698539 TCTGAGAGAGCATTCAGTAGTGG 59.301 47.826 0.00 0.00 41.21 4.00
2566 4249 3.260884 GTGGGTGAAGTGTAGGAAGATCA 59.739 47.826 0.00 0.00 0.00 2.92
2572 4255 7.419057 GGGTGAAGTGTAGGAAGATCATATGAA 60.419 40.741 9.99 0.00 0.00 2.57
2584 4267 8.139350 GGAAGATCATATGAAAAATGATGTGCA 58.861 33.333 9.99 0.00 42.68 4.57
2585 4268 9.524106 GAAGATCATATGAAAAATGATGTGCAA 57.476 29.630 9.99 0.00 42.68 4.08
2619 4309 7.093333 TGCATATATGGGATGTTAGACTAGGTG 60.093 40.741 14.51 0.00 0.00 4.00
2626 4316 3.610040 TGTTAGACTAGGTGCCATGTG 57.390 47.619 0.00 0.00 0.00 3.21
2659 4349 9.033481 CATTAAATAAATCGAAACACCATGCAT 57.967 29.630 0.00 0.00 0.00 3.96
2674 4364 4.573900 CCATGCATGGTATCTTCTACTCC 58.426 47.826 33.68 0.00 43.05 3.85
2675 4365 4.564406 CCATGCATGGTATCTTCTACTCCC 60.564 50.000 33.68 0.00 43.05 4.30
2676 4366 3.928754 TGCATGGTATCTTCTACTCCCT 58.071 45.455 0.00 0.00 0.00 4.20
2677 4367 3.898123 TGCATGGTATCTTCTACTCCCTC 59.102 47.826 0.00 0.00 0.00 4.30
2678 4368 4.156477 GCATGGTATCTTCTACTCCCTCT 58.844 47.826 0.00 0.00 0.00 3.69
2679 4369 4.021544 GCATGGTATCTTCTACTCCCTCTG 60.022 50.000 0.00 0.00 0.00 3.35
2680 4370 4.883021 TGGTATCTTCTACTCCCTCTGT 57.117 45.455 0.00 0.00 0.00 3.41
2681 4371 5.988865 TGGTATCTTCTACTCCCTCTGTA 57.011 43.478 0.00 0.00 0.00 2.74
2682 4372 6.337185 TGGTATCTTCTACTCCCTCTGTAA 57.663 41.667 0.00 0.00 0.00 2.41
2683 4373 6.738635 TGGTATCTTCTACTCCCTCTGTAAA 58.261 40.000 0.00 0.00 0.00 2.01
2684 4374 6.606395 TGGTATCTTCTACTCCCTCTGTAAAC 59.394 42.308 0.00 0.00 0.00 2.01
2685 4375 6.834969 GGTATCTTCTACTCCCTCTGTAAACT 59.165 42.308 0.00 0.00 0.00 2.66
2686 4376 7.997803 GGTATCTTCTACTCCCTCTGTAAACTA 59.002 40.741 0.00 0.00 0.00 2.24
2687 4377 9.406113 GTATCTTCTACTCCCTCTGTAAACTAA 57.594 37.037 0.00 0.00 0.00 2.24
2696 4386 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
2697 4387 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
2698 4388 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
2699 4389 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
2700 4390 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
2715 4405 9.953697 ATAAGAGCGTTTAGATCACTAAAGTAG 57.046 33.333 0.00 0.00 45.42 2.57
2716 4406 7.393841 AGAGCGTTTAGATCACTAAAGTAGT 57.606 36.000 0.00 0.00 45.42 2.73
2750 4440 8.777578 TGCTCTTATATTAGTTTACAGAGGGA 57.222 34.615 0.00 0.00 0.00 4.20
2751 4441 8.861086 TGCTCTTATATTAGTTTACAGAGGGAG 58.139 37.037 0.00 0.00 0.00 4.30
2783 4473 3.181493 GCAGTTCTGGCAGGTGAATATTG 60.181 47.826 15.73 4.18 0.00 1.90
2791 4481 2.677836 GCAGGTGAATATTGTGCTCGAA 59.322 45.455 0.00 0.00 0.00 3.71
2865 4556 7.925993 TGGTTTTCTTGTGTACTCAACATTAG 58.074 34.615 6.27 0.00 41.10 1.73
2870 4561 5.926542 TCTTGTGTACTCAACATTAGAGCAC 59.073 40.000 6.27 0.00 41.10 4.40
2895 4586 2.000048 AGGATTGGGCCCAGTCTTTAA 59.000 47.619 37.59 19.03 33.87 1.52
2927 4618 3.315191 ACAGTTGTTTTTGTCTCCATCCG 59.685 43.478 0.00 0.00 0.00 4.18
2928 4619 3.563808 CAGTTGTTTTTGTCTCCATCCGA 59.436 43.478 0.00 0.00 0.00 4.55
2955 4646 9.588096 AGGACTTTGAAATTGTTAAGGAGTATT 57.412 29.630 0.00 0.00 0.00 1.89
2963 4654 9.651718 GAAATTGTTAAGGAGTATTAGCATTCG 57.348 33.333 0.00 0.00 0.00 3.34
2964 4655 8.732746 AATTGTTAAGGAGTATTAGCATTCGT 57.267 30.769 0.00 0.00 0.00 3.85
2965 4656 7.534085 TTGTTAAGGAGTATTAGCATTCGTG 57.466 36.000 0.00 0.00 0.00 4.35
2971 4662 4.933330 GAGTATTAGCATTCGTGACTCCA 58.067 43.478 0.00 0.00 0.00 3.86
2974 4665 3.678056 TTAGCATTCGTGACTCCAAGT 57.322 42.857 0.00 0.00 0.00 3.16
3016 4707 3.745975 CCAGAAATAAGCACGTCAACTGA 59.254 43.478 0.00 0.00 0.00 3.41
3020 4711 3.944055 ATAAGCACGTCAACTGAGACT 57.056 42.857 0.00 0.00 36.38 3.24
3023 4714 3.728076 AGCACGTCAACTGAGACTAAA 57.272 42.857 0.00 0.00 36.38 1.85
3071 4762 3.508762 CATGAAGATTTGCAGCAGGTTC 58.491 45.455 0.00 0.00 0.00 3.62
3074 4765 2.574006 AGATTTGCAGCAGGTTCTGA 57.426 45.000 0.00 0.00 36.19 3.27
3096 4787 9.383519 TCTGAAATCTTGATTGTATGGTCTAAC 57.616 33.333 0.00 0.00 0.00 2.34
3107 4798 6.275494 TGTATGGTCTAACGAGTCATTTCA 57.725 37.500 0.00 0.00 0.00 2.69
3158 4849 3.910627 ACCTGGTTGTAACTTGAGGAGAT 59.089 43.478 0.00 0.00 0.00 2.75
3164 4855 5.511545 GGTTGTAACTTGAGGAGATGTGTCT 60.512 44.000 0.00 0.00 37.42 3.41
3165 4856 5.808366 TGTAACTTGAGGAGATGTGTCTT 57.192 39.130 0.00 0.00 33.97 3.01
3166 4857 6.174720 TGTAACTTGAGGAGATGTGTCTTT 57.825 37.500 0.00 0.00 33.97 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.939838 GCCGAAAGAGACACCGTCAAT 60.940 52.381 0.00 0.00 34.60 2.57
7 8 2.049433 CGCCGAAAGAGACACCGT 60.049 61.111 0.00 0.00 0.00 4.83
36 37 2.048127 AAACCTCCAGAGCGTCGC 60.048 61.111 9.80 9.80 0.00 5.19
118 120 1.218316 CAGGAACTAGTGGGGACGC 59.782 63.158 0.00 0.00 36.02 5.19
142 144 4.827481 GGCAATCTACGAAGCCGA 57.173 55.556 0.00 0.00 37.41 5.54
144 146 2.139118 GAGATGGCAATCTACGAAGCC 58.861 52.381 2.74 0.00 43.48 4.35
156 161 0.694771 GCATAGGGGATGAGATGGCA 59.305 55.000 0.00 0.00 37.82 4.92
190 196 1.613928 TCGGGTTATGGAGGTGGCA 60.614 57.895 0.00 0.00 0.00 4.92
208 215 0.250513 GGACAAAGCATCGAGGAGGT 59.749 55.000 0.00 0.00 0.00 3.85
215 222 1.079127 ACGGGAGGACAAAGCATCG 60.079 57.895 0.00 0.00 0.00 3.84
222 229 1.052617 TGAACATGACGGGAGGACAA 58.947 50.000 0.00 0.00 0.00 3.18
223 230 1.001974 CTTGAACATGACGGGAGGACA 59.998 52.381 0.00 0.00 0.00 4.02
228 236 0.036388 GAGCCTTGAACATGACGGGA 60.036 55.000 0.00 0.00 0.00 5.14
260 268 0.251297 CACCACAAGAATGGGAGCCA 60.251 55.000 0.00 0.00 44.81 4.75
322 330 1.967343 TTTTCCCCCTGGCCTTGGTT 61.967 55.000 3.32 0.00 0.00 3.67
351 359 1.230635 CGCTGCCAACACTAGCAAGT 61.231 55.000 0.00 0.00 38.82 3.16
357 365 1.301401 GTCACCGCTGCCAACACTA 60.301 57.895 0.00 0.00 0.00 2.74
358 366 2.591715 GTCACCGCTGCCAACACT 60.592 61.111 0.00 0.00 0.00 3.55
379 387 0.898789 ACGAGGGGACGACACTCATT 60.899 55.000 13.02 0.00 37.03 2.57
444 452 4.094476 AGAATCAGACCTAGGGTTTTCGA 58.906 43.478 14.81 4.24 35.25 3.71
475 483 1.106351 TTTGTGGTGGCATCGCTGTT 61.106 50.000 13.17 0.00 0.00 3.16
478 486 0.527565 GATTTTGTGGTGGCATCGCT 59.472 50.000 13.17 0.00 0.00 4.93
479 487 0.243365 TGATTTTGTGGTGGCATCGC 59.757 50.000 3.88 3.88 0.00 4.58
480 488 2.945447 ATGATTTTGTGGTGGCATCG 57.055 45.000 0.00 0.00 0.00 3.84
485 493 7.877097 TCAAAAAGGATAATGATTTTGTGGTGG 59.123 33.333 8.98 0.00 41.30 4.61
487 495 9.492973 CTTCAAAAAGGATAATGATTTTGTGGT 57.507 29.630 8.98 0.00 41.30 4.16
536 544 0.893270 CAAATCCAGCACCGGGAACA 60.893 55.000 6.32 0.00 38.09 3.18
544 552 1.398390 GACATCCGACAAATCCAGCAC 59.602 52.381 0.00 0.00 0.00 4.40
549 557 4.414852 CAAACATGACATCCGACAAATCC 58.585 43.478 0.00 0.00 0.00 3.01
570 584 3.347216 GCTTAAGAGGCAATCTGAACCA 58.653 45.455 6.67 0.00 38.67 3.67
604 622 4.609691 ACCTGAACAAGTAAACAACACG 57.390 40.909 0.00 0.00 0.00 4.49
626 644 2.836636 AGAGAGACATAGGGTGCTCA 57.163 50.000 0.00 0.00 35.07 4.26
635 653 4.503469 CGGTGCCTAGAGTAGAGAGACATA 60.503 50.000 0.00 0.00 0.00 2.29
646 664 1.066858 CATGAACACGGTGCCTAGAGT 60.067 52.381 8.30 0.00 0.00 3.24
651 669 0.036732 ATGACATGAACACGGTGCCT 59.963 50.000 8.30 0.00 0.00 4.75
665 683 1.225855 GGCACGAACACAAGATGACA 58.774 50.000 0.00 0.00 0.00 3.58
667 685 1.805943 CATGGCACGAACACAAGATGA 59.194 47.619 0.00 0.00 0.00 2.92
671 689 1.440850 CGCATGGCACGAACACAAG 60.441 57.895 0.00 0.00 0.00 3.16
679 697 2.478746 GGTACAACGCATGGCACG 59.521 61.111 0.00 0.00 0.00 5.34
727 745 9.450807 GAATACGCAATGCTTATGTATCTTTTT 57.549 29.630 4.98 0.00 0.00 1.94
728 746 7.798516 CGAATACGCAATGCTTATGTATCTTTT 59.201 33.333 4.98 0.00 0.00 2.27
736 754 4.451379 TCACGAATACGCAATGCTTATG 57.549 40.909 4.98 0.00 43.96 1.90
737 755 5.478233 TTTCACGAATACGCAATGCTTAT 57.522 34.783 2.94 0.21 43.96 1.73
738 756 4.930463 TTTCACGAATACGCAATGCTTA 57.070 36.364 2.94 0.00 43.96 3.09
774 792 2.727684 GAAAGGCTTCGTCGACGGC 61.728 63.158 35.05 29.58 40.29 5.68
775 793 2.092882 GGAAAGGCTTCGTCGACGG 61.093 63.158 35.05 22.18 40.29 4.79
776 794 0.169672 TAGGAAAGGCTTCGTCGACG 59.830 55.000 31.30 31.30 41.45 5.12
781 799 0.245813 GACGGTAGGAAAGGCTTCGT 59.754 55.000 8.84 8.84 34.20 3.85
790 808 8.980596 TGTTCCTAAATATAAAGACGGTAGGAA 58.019 33.333 5.38 5.38 41.63 3.36
796 814 6.929606 CCCTCTGTTCCTAAATATAAAGACGG 59.070 42.308 0.00 0.00 0.00 4.79
799 817 8.388656 ACACCCTCTGTTCCTAAATATAAAGA 57.611 34.615 0.00 0.00 0.00 2.52
875 2038 4.539870 TCTCTTGCTCGCTTGAAATTTTG 58.460 39.130 0.00 0.00 0.00 2.44
916 2387 1.876714 GTGTGTGCGTGTCGTCAGT 60.877 57.895 0.00 0.00 0.00 3.41
966 2437 0.601558 CGGTCCTGAACCTCGAAAGA 59.398 55.000 0.00 0.00 46.87 2.52
1015 2496 4.016706 GCCGTGGTACTGGTGGCT 62.017 66.667 10.38 0.00 42.44 4.75
1145 2626 3.586961 CGAGGAGAGCGATGGCGA 61.587 66.667 0.00 0.00 46.35 5.54
1155 2636 3.134792 GACCAGAGCGCGAGGAGA 61.135 66.667 12.10 0.00 0.00 3.71
1226 2707 0.790993 ACTACTCAAGTCCCAGGGGA 59.209 55.000 5.33 2.02 42.90 4.81
1283 2764 5.954752 AGATCTGAGAGGAAATGTGTGTAGA 59.045 40.000 0.00 0.00 0.00 2.59
1286 2767 5.243981 CAAGATCTGAGAGGAAATGTGTGT 58.756 41.667 0.00 0.00 0.00 3.72
1288 2769 4.260170 GCAAGATCTGAGAGGAAATGTGT 58.740 43.478 0.00 0.00 0.00 3.72
1295 2776 2.023984 TGTAGGGCAAGATCTGAGAGGA 60.024 50.000 0.00 0.00 0.00 3.71
1312 2793 4.036734 ACAACTGAACAAGCACCAATGTAG 59.963 41.667 0.00 0.00 0.00 2.74
1314 2795 2.760092 ACAACTGAACAAGCACCAATGT 59.240 40.909 0.00 0.00 0.00 2.71
1330 2811 6.431234 GGTCAGGATTTATGAACAGAACAACT 59.569 38.462 0.00 0.00 34.40 3.16
1331 2812 6.431234 AGGTCAGGATTTATGAACAGAACAAC 59.569 38.462 0.00 0.00 36.82 3.32
1343 2824 8.497745 AGATACATGTTTGAGGTCAGGATTTAT 58.502 33.333 2.30 0.00 0.00 1.40
1405 2888 7.663043 AACCAACTAACCATCACCTTAAAAA 57.337 32.000 0.00 0.00 0.00 1.94
1406 2889 7.231115 GGTAACCAACTAACCATCACCTTAAAA 59.769 37.037 0.00 0.00 33.28 1.52
1408 2891 6.044637 AGGTAACCAACTAACCATCACCTTAA 59.955 38.462 0.00 0.00 35.64 1.85
1414 2897 6.499350 ACTTAGAGGTAACCAACTAACCATCA 59.501 38.462 0.00 0.00 35.64 3.07
1419 2902 8.667076 TGAAAACTTAGAGGTAACCAACTAAC 57.333 34.615 0.00 0.00 37.17 2.34
1420 2903 8.707449 TCTGAAAACTTAGAGGTAACCAACTAA 58.293 33.333 0.00 0.00 37.17 2.24
1421 2904 8.253867 TCTGAAAACTTAGAGGTAACCAACTA 57.746 34.615 0.00 0.00 37.17 2.24
1422 2905 7.133133 TCTGAAAACTTAGAGGTAACCAACT 57.867 36.000 0.00 0.00 37.17 3.16
1423 2906 7.797038 TTCTGAAAACTTAGAGGTAACCAAC 57.203 36.000 0.00 0.00 37.17 3.77
1467 2950 7.664318 ACCCAATATCGAAAAAGAAGTAAGTGT 59.336 33.333 0.00 0.00 0.00 3.55
1468 2951 7.962918 CACCCAATATCGAAAAAGAAGTAAGTG 59.037 37.037 0.00 0.00 0.00 3.16
1469 2952 7.881232 TCACCCAATATCGAAAAAGAAGTAAGT 59.119 33.333 0.00 0.00 0.00 2.24
1470 2953 8.263940 TCACCCAATATCGAAAAAGAAGTAAG 57.736 34.615 0.00 0.00 0.00 2.34
1472 2955 9.321562 GTATCACCCAATATCGAAAAAGAAGTA 57.678 33.333 0.00 0.00 0.00 2.24
1473 2956 7.827236 TGTATCACCCAATATCGAAAAAGAAGT 59.173 33.333 0.00 0.00 0.00 3.01
1474 2957 8.122952 GTGTATCACCCAATATCGAAAAAGAAG 58.877 37.037 0.00 0.00 0.00 2.85
1475 2958 7.827236 AGTGTATCACCCAATATCGAAAAAGAA 59.173 33.333 0.00 0.00 34.49 2.52
1476 2959 7.335627 AGTGTATCACCCAATATCGAAAAAGA 58.664 34.615 0.00 0.00 34.49 2.52
1477 2960 7.553881 AGTGTATCACCCAATATCGAAAAAG 57.446 36.000 0.00 0.00 34.49 2.27
1486 2969 8.544622 TGAAATGAGTAAGTGTATCACCCAATA 58.455 33.333 0.00 0.00 34.49 1.90
1529 3013 6.465035 GCTTGATTACTATCAGGATTCCAGGT 60.465 42.308 5.29 0.00 41.60 4.00
1530 3014 5.936956 GCTTGATTACTATCAGGATTCCAGG 59.063 44.000 5.29 0.00 41.60 4.45
1532 3016 6.753913 AGCTTGATTACTATCAGGATTCCA 57.246 37.500 5.29 0.00 41.60 3.53
1537 3055 5.586243 GTGCAAAGCTTGATTACTATCAGGA 59.414 40.000 0.00 0.00 41.60 3.86
1578 3096 2.785269 TGGCTGAAATCCCCATATGTCT 59.215 45.455 1.24 0.00 0.00 3.41
1586 3104 3.445096 GCATATGTATGGCTGAAATCCCC 59.555 47.826 4.29 0.00 34.32 4.81
1636 3160 2.945008 GCATAGCACTTCCACAGCATAA 59.055 45.455 0.00 0.00 0.00 1.90
1689 3213 7.421530 AAAAATCGATATCAAGGTATCACCG 57.578 36.000 0.00 0.00 44.90 4.94
1731 3257 9.140286 CGGTTCTTCATACATGTAATATACCAG 57.860 37.037 10.14 6.29 0.00 4.00
1761 3436 2.838637 ACCCAAACCAAGAACAAGGA 57.161 45.000 0.00 0.00 0.00 3.36
1785 3460 0.588252 ATCACAAGTCAGCACGTTGC 59.412 50.000 2.28 2.28 45.46 4.17
1846 3521 3.412237 TGAACTTTACACTGGCCTACC 57.588 47.619 3.32 0.00 0.00 3.18
1851 3526 3.708563 TTGCTTGAACTTTACACTGGC 57.291 42.857 0.00 0.00 0.00 4.85
1852 3527 5.830912 TCATTTGCTTGAACTTTACACTGG 58.169 37.500 0.00 0.00 0.00 4.00
1853 3528 7.489113 AGTTTCATTTGCTTGAACTTTACACTG 59.511 33.333 0.00 0.00 35.42 3.66
1854 3529 7.547227 AGTTTCATTTGCTTGAACTTTACACT 58.453 30.769 0.00 0.00 35.42 3.55
1855 3530 7.755582 AGTTTCATTTGCTTGAACTTTACAC 57.244 32.000 0.00 0.00 35.42 2.90
1856 3531 8.898761 TCTAGTTTCATTTGCTTGAACTTTACA 58.101 29.630 0.00 0.00 35.42 2.41
1857 3532 9.730420 TTCTAGTTTCATTTGCTTGAACTTTAC 57.270 29.630 0.00 0.00 35.42 2.01
1905 3588 6.663953 AGGCATACTTCAGTACTCACTAGAAA 59.336 38.462 0.00 0.00 32.21 2.52
1907 3590 5.756918 AGGCATACTTCAGTACTCACTAGA 58.243 41.667 0.00 0.00 32.21 2.43
1908 3591 6.768861 AGTAGGCATACTTCAGTACTCACTAG 59.231 42.308 4.95 0.00 39.27 2.57
1911 3594 5.838531 AGTAGGCATACTTCAGTACTCAC 57.161 43.478 4.95 0.00 39.27 3.51
1976 3659 0.611714 GTACAAGTCCCACATCCGGT 59.388 55.000 0.00 0.00 0.00 5.28
2025 3708 0.250901 ATGCTTCTTGCCAGAACCGT 60.251 50.000 0.00 0.00 42.00 4.83
2194 3877 8.620116 AACAATATTTTCATGGGGAAACAAAG 57.380 30.769 0.00 0.00 44.89 2.77
2215 3898 5.067283 GGCTAACTCAAACAAGAGGAAACAA 59.933 40.000 0.00 0.00 39.97 2.83
2216 3899 4.578928 GGCTAACTCAAACAAGAGGAAACA 59.421 41.667 0.00 0.00 39.97 2.83
2217 3900 4.578928 TGGCTAACTCAAACAAGAGGAAAC 59.421 41.667 0.00 0.00 39.97 2.78
2234 3917 6.482835 CAAACATAACGATTCGATTGGCTAA 58.517 36.000 13.95 0.00 0.00 3.09
2237 3920 3.482110 GCAAACATAACGATTCGATTGGC 59.518 43.478 13.95 4.57 0.00 4.52
2267 3950 0.835941 TGGCCACAAAATTGCTTGGT 59.164 45.000 0.00 0.00 29.66 3.67
2269 3952 1.950828 TGTGGCCACAAAATTGCTTG 58.049 45.000 36.10 0.00 38.56 4.01
2346 4029 9.768662 AATTTGATTTACTTGCTTCATCAACTT 57.231 25.926 0.00 0.00 34.38 2.66
2350 4033 8.980610 CAACAATTTGATTTACTTGCTTCATCA 58.019 29.630 2.79 0.00 34.24 3.07
2351 4034 8.437742 CCAACAATTTGATTTACTTGCTTCATC 58.562 33.333 2.79 0.00 34.24 2.92
2352 4035 8.149647 TCCAACAATTTGATTTACTTGCTTCAT 58.850 29.630 2.79 0.00 34.24 2.57
2388 4071 5.240844 TGAACTTAAGAAAGGTAAAGGCAGC 59.759 40.000 10.09 0.00 37.01 5.25
2404 4087 3.932710 CTCGGCTGTAGCAATGAACTTAA 59.067 43.478 6.18 0.00 44.36 1.85
2424 4107 6.092807 GTGTAATCCATCTCAGTTTTGGTCTC 59.907 42.308 0.00 0.00 0.00 3.36
2441 4124 1.678101 GCAGCCCTCATTGTGTAATCC 59.322 52.381 0.00 0.00 0.00 3.01
2442 4125 1.331756 CGCAGCCCTCATTGTGTAATC 59.668 52.381 0.00 0.00 0.00 1.75
2455 4138 1.889573 GGAGTAGCAATCGCAGCCC 60.890 63.158 0.00 0.00 42.27 5.19
2468 4151 4.225042 ACCAGTGAGCACATAATTGGAGTA 59.775 41.667 11.39 0.00 0.00 2.59
2470 4153 3.614092 ACCAGTGAGCACATAATTGGAG 58.386 45.455 11.39 0.00 0.00 3.86
2490 4173 9.922305 GTTGCAGACTACAATCAATAATCTAAC 57.078 33.333 0.00 0.00 0.00 2.34
2501 4184 5.698545 AGTTGAGAAGTTGCAGACTACAATC 59.301 40.000 2.60 0.00 37.72 2.67
2507 4190 3.386078 TCAGAGTTGAGAAGTTGCAGACT 59.614 43.478 0.00 0.00 41.47 3.24
2524 4207 4.202040 CCACTACTGAATGCTCTCTCAGAG 60.202 50.000 6.10 0.00 45.04 3.35
2530 4213 2.497675 TCACCCACTACTGAATGCTCTC 59.502 50.000 0.00 0.00 0.00 3.20
2533 4216 2.639839 ACTTCACCCACTACTGAATGCT 59.360 45.455 0.00 0.00 0.00 3.79
2539 4222 3.162666 TCCTACACTTCACCCACTACTG 58.837 50.000 0.00 0.00 0.00 2.74
2540 4223 3.537795 TCCTACACTTCACCCACTACT 57.462 47.619 0.00 0.00 0.00 2.57
2547 4230 7.055667 TCATATGATCTTCCTACACTTCACC 57.944 40.000 0.00 0.00 0.00 4.02
2608 4298 5.950544 ATTACACATGGCACCTAGTCTAA 57.049 39.130 0.00 0.00 0.00 2.10
2611 4301 4.941263 TGAAATTACACATGGCACCTAGTC 59.059 41.667 0.00 0.00 0.00 2.59
2612 4302 4.917385 TGAAATTACACATGGCACCTAGT 58.083 39.130 0.00 0.00 0.00 2.57
2659 4349 4.883021 ACAGAGGGAGTAGAAGATACCA 57.117 45.455 0.00 0.00 0.00 3.25
2670 4360 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
2671 4361 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
2672 4362 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
2673 4363 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
2674 4364 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
2689 4379 9.953697 CTACTTTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 40.05 1.73
2690 4380 8.954350 ACTACTTTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 40.05 2.10
2691 4381 7.828712 ACTACTTTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 40.05 2.85
2692 4382 7.393841 ACTACTTTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 40.05 4.09
2724 4414 9.381038 TCCCTCTGTAAACTAATATAAGAGCAT 57.619 33.333 0.00 0.00 0.00 3.79
2725 4415 8.777578 TCCCTCTGTAAACTAATATAAGAGCA 57.222 34.615 0.00 0.00 0.00 4.26
2726 4416 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
2734 4424 9.710818 TGATAACTACTCCCTCTGTAAACTAAT 57.289 33.333 0.00 0.00 0.00 1.73
2735 4425 9.186837 CTGATAACTACTCCCTCTGTAAACTAA 57.813 37.037 0.00 0.00 0.00 2.24
2736 4426 7.284944 GCTGATAACTACTCCCTCTGTAAACTA 59.715 40.741 0.00 0.00 0.00 2.24
2737 4427 6.097129 GCTGATAACTACTCCCTCTGTAAACT 59.903 42.308 0.00 0.00 0.00 2.66
2738 4428 6.127423 TGCTGATAACTACTCCCTCTGTAAAC 60.127 42.308 0.00 0.00 0.00 2.01
2739 4429 5.955959 TGCTGATAACTACTCCCTCTGTAAA 59.044 40.000 0.00 0.00 0.00 2.01
2740 4430 5.516044 TGCTGATAACTACTCCCTCTGTAA 58.484 41.667 0.00 0.00 0.00 2.41
2741 4431 5.125367 TGCTGATAACTACTCCCTCTGTA 57.875 43.478 0.00 0.00 0.00 2.74
2742 4432 3.957497 CTGCTGATAACTACTCCCTCTGT 59.043 47.826 0.00 0.00 0.00 3.41
2743 4433 3.957497 ACTGCTGATAACTACTCCCTCTG 59.043 47.826 0.00 0.00 0.00 3.35
2744 4434 4.258457 ACTGCTGATAACTACTCCCTCT 57.742 45.455 0.00 0.00 0.00 3.69
2745 4435 4.647399 AGAACTGCTGATAACTACTCCCTC 59.353 45.833 0.00 0.00 0.00 4.30
2746 4436 4.615513 AGAACTGCTGATAACTACTCCCT 58.384 43.478 0.00 0.00 0.00 4.20
2759 4449 0.535780 TTCACCTGCCAGAACTGCTG 60.536 55.000 0.00 0.00 44.49 4.41
2783 4473 0.108804 TCGGAATGACCTTCGAGCAC 60.109 55.000 0.00 0.00 34.45 4.40
2819 4510 4.497300 CAACATTCCAAATTGGCAGTAGG 58.503 43.478 7.24 0.00 37.47 3.18
2865 4556 1.598701 GCCCAATCCTTGTGGTGCTC 61.599 60.000 0.00 0.00 34.01 4.26
2870 4561 1.683365 CTGGGCCCAATCCTTGTGG 60.683 63.158 28.29 6.72 35.77 4.17
2895 4586 6.040842 AGACAAAAACAACTGTAATCCAGCAT 59.959 34.615 0.00 0.00 45.68 3.79
2917 4608 2.233922 TCAAAGTCCTTCGGATGGAGAC 59.766 50.000 12.50 3.67 32.73 3.36
2927 4618 7.941919 ACTCCTTAACAATTTCAAAGTCCTTC 58.058 34.615 0.00 0.00 0.00 3.46
2928 4619 7.898014 ACTCCTTAACAATTTCAAAGTCCTT 57.102 32.000 0.00 0.00 0.00 3.36
2949 4640 4.933330 TGGAGTCACGAATGCTAATACTC 58.067 43.478 0.00 0.00 32.92 2.59
2955 4646 2.415491 CGACTTGGAGTCACGAATGCTA 60.415 50.000 8.62 0.00 45.30 3.49
2956 4647 1.670087 CGACTTGGAGTCACGAATGCT 60.670 52.381 8.62 0.00 45.30 3.79
2957 4648 0.716108 CGACTTGGAGTCACGAATGC 59.284 55.000 8.62 0.00 45.30 3.56
2958 4649 2.347697 TCGACTTGGAGTCACGAATG 57.652 50.000 8.62 0.00 45.30 2.67
2959 4650 3.594603 ATTCGACTTGGAGTCACGAAT 57.405 42.857 0.00 0.00 45.30 3.34
2960 4651 3.504906 AGTATTCGACTTGGAGTCACGAA 59.495 43.478 8.62 0.00 45.30 3.85
2961 4652 3.079578 AGTATTCGACTTGGAGTCACGA 58.920 45.455 8.62 0.00 45.30 4.35
2962 4653 3.489180 AGTATTCGACTTGGAGTCACG 57.511 47.619 8.62 0.00 45.30 4.35
2963 4654 7.644551 CAGTATTAGTATTCGACTTGGAGTCAC 59.355 40.741 8.62 0.00 45.30 3.67
2964 4655 7.681304 GCAGTATTAGTATTCGACTTGGAGTCA 60.681 40.741 8.62 0.00 45.30 3.41
2965 4656 6.637658 GCAGTATTAGTATTCGACTTGGAGTC 59.362 42.308 0.00 0.00 41.71 3.36
2971 4662 8.004087 TGGTAAGCAGTATTAGTATTCGACTT 57.996 34.615 0.00 0.00 39.81 3.01
2974 4665 7.812690 TCTGGTAAGCAGTATTAGTATTCGA 57.187 36.000 0.00 0.00 0.00 3.71
3037 4728 8.203485 TGCAAATCTTCATGGAAAGTTAAAACT 58.797 29.630 0.00 0.00 42.04 2.66
3054 4745 2.867624 TCAGAACCTGCTGCAAATCTT 58.132 42.857 3.02 0.00 35.86 2.40
3071 4762 8.331022 CGTTAGACCATACAATCAAGATTTCAG 58.669 37.037 0.00 0.00 0.00 3.02
3074 4765 8.041323 ACTCGTTAGACCATACAATCAAGATTT 58.959 33.333 0.00 0.00 0.00 2.17
3096 4787 3.496130 GGATGCACCTATGAAATGACTCG 59.504 47.826 0.00 0.00 35.41 4.18
3107 4798 0.106519 GTGGGCTTGGATGCACCTAT 60.107 55.000 0.00 0.00 39.86 2.57


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

AutoCloner maintained by Alex Coulton.