Multiple sequence alignment - TraesCS6A01G268200

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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 TraesCS6A01G268200 chr6A 100.000 5319 0 0 220 5538 494470216 494475534 0.000000e+00 9823.0
1 TraesCS6A01G268200 chr6A 84.712 399 55 2 3164 3559 494473061 494473456 1.450000e-105 394.0
2 TraesCS6A01G268200 chr6A 84.712 399 55 2 3065 3460 494473160 494473555 1.450000e-105 394.0
3 TraesCS6A01G268200 chr6A 100.000 48 0 0 1 48 494469997 494470044 7.640000e-14 89.8
4 TraesCS6A01G268200 chr6A 88.571 70 6 2 3644 3712 494473580 494473648 3.560000e-12 84.2
5 TraesCS6A01G268200 chr6A 88.571 70 6 2 3584 3652 494473640 494473708 3.560000e-12 84.2
6 TraesCS6A01G268200 chr6D 94.208 4886 181 50 326 5149 349922540 349917695 0.000000e+00 7361.0
7 TraesCS6A01G268200 chr6D 89.951 408 18 8 5149 5535 349917529 349917124 6.400000e-139 505.0
8 TraesCS6A01G268200 chr6D 86.364 396 48 2 3167 3559 349919794 349919402 1.430000e-115 427.0
9 TraesCS6A01G268200 chr6D 84.848 396 54 3 3068 3460 349919695 349919303 1.450000e-105 394.0
10 TraesCS6A01G268200 chr6D 85.542 83 8 4 3584 3664 349919236 349919156 3.560000e-12 84.2
11 TraesCS6A01G268200 chr6D 95.833 48 2 0 1 48 335600721 335600768 1.650000e-10 78.7
12 TraesCS6A01G268200 chr6D 95.833 48 2 0 1 48 357605113 357605160 1.650000e-10 78.7
13 TraesCS6A01G268200 chr6B 91.126 4767 231 83 397 5075 530565601 530570263 0.000000e+00 6283.0
14 TraesCS6A01G268200 chr6B 85.122 531 66 5 2569 3094 279013194 279012672 1.060000e-146 531.0
15 TraesCS6A01G268200 chr6B 85.464 399 52 2 3164 3559 530568254 530568649 1.440000e-110 411.0
16 TraesCS6A01G268200 chr6B 88.426 216 24 1 2039 2254 279013604 279013390 5.500000e-65 259.0
17 TraesCS6A01G268200 chr6B 88.571 70 6 2 3584 3652 530568815 530568883 3.560000e-12 84.2
18 TraesCS6A01G268200 chr5B 83.175 630 78 13 2471 3094 532359919 532359312 8.110000e-153 551.0
19 TraesCS6A01G268200 chr5B 88.426 216 24 1 2039 2254 532360246 532360032 5.500000e-65 259.0
20 TraesCS6A01G268200 chr5B 97.917 48 1 0 1 48 581218873 581218920 3.560000e-12 84.2
21 TraesCS6A01G268200 chr3B 86.514 393 29 12 987 1365 47190494 47190112 1.440000e-110 411.0
22 TraesCS6A01G268200 chr3B 92.017 238 19 0 1585 1822 47190093 47189856 8.890000e-88 335.0
23 TraesCS6A01G268200 chr3B 92.017 238 19 0 1585 1822 47190548 47190785 8.890000e-88 335.0
24 TraesCS6A01G268200 chr7B 83.810 315 39 5 2544 2854 612845881 612846187 7.020000e-74 289.0
25 TraesCS6A01G268200 chr7B 87.295 244 30 1 2848 3091 612846806 612847048 1.520000e-70 278.0
26 TraesCS6A01G268200 chr7B 97.826 46 1 0 1 46 581351084 581351129 4.600000e-11 80.5
27 TraesCS6A01G268200 chrUn 97.917 48 1 0 1 48 101054134 101054087 3.560000e-12 84.2
28 TraesCS6A01G268200 chrUn 95.833 48 2 0 1 48 32167301 32167254 1.650000e-10 78.7
29 TraesCS6A01G268200 chr4B 97.917 48 1 0 1 48 13122534 13122581 3.560000e-12 84.2
30 TraesCS6A01G268200 chr2A 97.917 48 1 0 1 48 755252899 755252946 3.560000e-12 84.2
31 TraesCS6A01G268200 chr1D 95.833 48 2 0 1 48 21450433 21450480 1.650000e-10 78.7


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 TraesCS6A01G268200 chr6A 494469997 494475534 5537 False 1811.533333 9823 91.094333 1 5538 6 chr6A.!!$F1 5537
1 TraesCS6A01G268200 chr6D 349917124 349922540 5416 True 1754.240000 7361 88.182600 326 5535 5 chr6D.!!$R1 5209
2 TraesCS6A01G268200 chr6B 530565601 530570263 4662 False 2259.400000 6283 88.387000 397 5075 3 chr6B.!!$F1 4678
3 TraesCS6A01G268200 chr6B 279012672 279013604 932 True 395.000000 531 86.774000 2039 3094 2 chr6B.!!$R1 1055
4 TraesCS6A01G268200 chr5B 532359312 532360246 934 True 405.000000 551 85.800500 2039 3094 2 chr5B.!!$R1 1055
5 TraesCS6A01G268200 chr3B 47189856 47190494 638 True 373.000000 411 89.265500 987 1822 2 chr3B.!!$R1 835
6 TraesCS6A01G268200 chr7B 612845881 612847048 1167 False 283.500000 289 85.552500 2544 3091 2 chr7B.!!$F2 547

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
510 511 0.105778 GGAAGCCTCGAAGGATCCAG 59.894 60.000 15.82 4.98 40.57 3.86 F
1412 1459 0.031716 AGGACCAGCAGCATCTAGGA 60.032 55.000 0.00 0.00 0.00 2.94 F
1524 1571 0.452184 TCTCGTCAAGGAGATCGTGC 59.548 55.000 0.00 0.00 38.12 5.34 F
1634 1681 1.045911 GGAGGAGCCAGAGGTCGATT 61.046 60.000 0.00 0.00 41.62 3.34 F
2233 2293 1.271054 TGCTTCAGAGTCCTTTCAGCC 60.271 52.381 0.00 0.00 0.00 4.85 F
3678 4384 0.179150 GTGAGTACAGCAGCGAGGAG 60.179 60.000 0.00 0.00 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2078 2138 0.524862 CCACTGCACAATCAGGAAGC 59.475 55.000 0.0 0.00 38.36 3.86 R
3124 3818 0.972134 TCCTTCTCTGTCACAGCAGG 59.028 55.000 0.0 5.58 37.12 4.85 R
3486 4180 1.338484 GGAGCATCAGCAGTCTCAACA 60.338 52.381 0.0 0.00 45.49 3.33 R
3598 4304 0.842030 TCCTCACTGCCCACTCCATT 60.842 55.000 0.0 0.00 0.00 3.16 R
3689 4395 0.179150 CTCCTCGCTGCTGTACTCAC 60.179 60.000 0.0 0.00 0.00 3.51 R
5450 6438 0.185901 AAGCTGAAACTCCTTGGCCA 59.814 50.000 0.0 0.00 0.00 5.36 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
265 266 8.687824 ACAATTATTTTTGAGCAAATACGAGG 57.312 30.769 0.00 0.00 29.97 4.63
266 267 7.759433 ACAATTATTTTTGAGCAAATACGAGGG 59.241 33.333 0.00 0.00 29.97 4.30
267 268 7.639113 ATTATTTTTGAGCAAATACGAGGGA 57.361 32.000 0.00 0.00 29.97 4.20
268 269 5.567138 ATTTTTGAGCAAATACGAGGGAG 57.433 39.130 0.00 0.00 0.00 4.30
269 270 3.973206 TTTGAGCAAATACGAGGGAGA 57.027 42.857 0.00 0.00 0.00 3.71
270 271 3.973206 TTGAGCAAATACGAGGGAGAA 57.027 42.857 0.00 0.00 0.00 2.87
271 272 3.973206 TGAGCAAATACGAGGGAGAAA 57.027 42.857 0.00 0.00 0.00 2.52
272 273 4.280436 TGAGCAAATACGAGGGAGAAAA 57.720 40.909 0.00 0.00 0.00 2.29
273 274 4.000988 TGAGCAAATACGAGGGAGAAAAC 58.999 43.478 0.00 0.00 0.00 2.43
274 275 4.254492 GAGCAAATACGAGGGAGAAAACT 58.746 43.478 0.00 0.00 0.00 2.66
275 276 5.046878 TGAGCAAATACGAGGGAGAAAACTA 60.047 40.000 0.00 0.00 0.00 2.24
276 277 5.420409 AGCAAATACGAGGGAGAAAACTAG 58.580 41.667 0.00 0.00 0.00 2.57
277 278 5.187186 AGCAAATACGAGGGAGAAAACTAGA 59.813 40.000 0.00 0.00 0.00 2.43
278 279 5.873164 GCAAATACGAGGGAGAAAACTAGAA 59.127 40.000 0.00 0.00 0.00 2.10
279 280 6.539103 GCAAATACGAGGGAGAAAACTAGAAT 59.461 38.462 0.00 0.00 0.00 2.40
280 281 7.466050 GCAAATACGAGGGAGAAAACTAGAATG 60.466 40.741 0.00 0.00 0.00 2.67
281 282 6.793505 ATACGAGGGAGAAAACTAGAATGT 57.206 37.500 0.00 0.00 0.00 2.71
282 283 5.485209 ACGAGGGAGAAAACTAGAATGTT 57.515 39.130 0.00 0.00 0.00 2.71
283 284 5.480205 ACGAGGGAGAAAACTAGAATGTTC 58.520 41.667 0.00 0.00 0.00 3.18
284 285 5.011738 ACGAGGGAGAAAACTAGAATGTTCA 59.988 40.000 0.00 0.00 0.00 3.18
285 286 5.932303 CGAGGGAGAAAACTAGAATGTTCAA 59.068 40.000 0.00 0.00 0.00 2.69
286 287 6.426937 CGAGGGAGAAAACTAGAATGTTCAAA 59.573 38.462 0.00 0.00 0.00 2.69
287 288 7.041372 CGAGGGAGAAAACTAGAATGTTCAAAA 60.041 37.037 0.00 0.00 0.00 2.44
288 289 8.712228 AGGGAGAAAACTAGAATGTTCAAAAT 57.288 30.769 0.00 0.00 0.00 1.82
289 290 9.807921 AGGGAGAAAACTAGAATGTTCAAAATA 57.192 29.630 0.00 0.00 0.00 1.40
297 298 8.918961 ACTAGAATGTTCAAAATAGAGACTCG 57.081 34.615 0.00 0.00 0.00 4.18
298 299 8.524487 ACTAGAATGTTCAAAATAGAGACTCGT 58.476 33.333 0.00 0.00 0.00 4.18
299 300 9.360093 CTAGAATGTTCAAAATAGAGACTCGTT 57.640 33.333 0.00 0.00 0.00 3.85
300 301 8.023050 AGAATGTTCAAAATAGAGACTCGTTG 57.977 34.615 0.00 1.48 0.00 4.10
301 302 7.872993 AGAATGTTCAAAATAGAGACTCGTTGA 59.127 33.333 0.00 3.74 0.00 3.18
302 303 8.553459 AATGTTCAAAATAGAGACTCGTTGAT 57.447 30.769 11.93 0.00 0.00 2.57
303 304 7.962964 TGTTCAAAATAGAGACTCGTTGATT 57.037 32.000 11.93 3.27 0.00 2.57
304 305 8.378172 TGTTCAAAATAGAGACTCGTTGATTT 57.622 30.769 11.93 7.75 0.00 2.17
305 306 8.836413 TGTTCAAAATAGAGACTCGTTGATTTT 58.164 29.630 11.93 11.68 0.00 1.82
306 307 9.665264 GTTCAAAATAGAGACTCGTTGATTTTT 57.335 29.630 13.27 6.20 0.00 1.94
312 313 9.930693 AATAGAGACTCGTTGATTTTTAACTCT 57.069 29.630 0.00 0.00 35.62 3.24
313 314 9.930693 ATAGAGACTCGTTGATTTTTAACTCTT 57.069 29.630 0.00 0.00 33.89 2.85
314 315 8.664211 AGAGACTCGTTGATTTTTAACTCTTT 57.336 30.769 0.00 0.00 0.00 2.52
315 316 9.110502 AGAGACTCGTTGATTTTTAACTCTTTT 57.889 29.630 0.00 0.00 0.00 2.27
316 317 9.717892 GAGACTCGTTGATTTTTAACTCTTTTT 57.282 29.630 0.00 0.00 0.00 1.94
351 352 1.340211 ACCCGTTCCTTTTCACACACA 60.340 47.619 0.00 0.00 0.00 3.72
352 353 1.064952 CCCGTTCCTTTTCACACACAC 59.935 52.381 0.00 0.00 0.00 3.82
406 407 0.966920 GAAACTCTCACCCGGTCTCA 59.033 55.000 0.00 0.00 0.00 3.27
450 451 1.948834 TGGCTCGGCAATAATGTGATG 59.051 47.619 0.00 0.00 0.00 3.07
456 457 3.376859 TCGGCAATAATGTGATGACCAAC 59.623 43.478 0.00 0.00 0.00 3.77
510 511 0.105778 GGAAGCCTCGAAGGATCCAG 59.894 60.000 15.82 4.98 40.57 3.86
578 579 4.459973 CGTCTACACCTCACGCTG 57.540 61.111 0.00 0.00 0.00 5.18
786 798 4.273235 GCCCCTGTTCAAACATTCAAAAAG 59.727 41.667 0.00 0.00 38.41 2.27
788 800 5.396213 CCCCTGTTCAAACATTCAAAAAGGA 60.396 40.000 0.00 0.00 38.41 3.36
1191 1219 2.461110 CCCCTTCCGATTCGCGTTG 61.461 63.158 5.77 0.00 38.67 4.10
1206 1234 2.097925 CGCGTTGTTGTTTTTGAGATGC 60.098 45.455 0.00 0.00 0.00 3.91
1212 1241 3.244976 GTTGTTTTTGAGATGCGGATGG 58.755 45.455 0.00 0.00 0.00 3.51
1288 1329 2.028925 GCGGGTTTTTGCTGTGGG 59.971 61.111 0.00 0.00 0.00 4.61
1406 1453 3.415087 GGGGAGGACCAGCAGCAT 61.415 66.667 0.00 0.00 42.91 3.79
1412 1459 0.031716 AGGACCAGCAGCATCTAGGA 60.032 55.000 0.00 0.00 0.00 2.94
1494 1541 4.824515 AGGAGGGCGAGGACGAGG 62.825 72.222 0.00 0.00 42.66 4.63
1509 1556 0.867753 CGAGGTGAAGCGGAATCTCG 60.868 60.000 4.29 4.29 38.17 4.04
1524 1571 0.452184 TCTCGTCAAGGAGATCGTGC 59.548 55.000 0.00 0.00 38.12 5.34
1526 1573 2.508891 CGTCAAGGAGATCGTGCGC 61.509 63.158 0.00 0.00 0.00 6.09
1532 1579 4.148825 GAGATCGTGCGCACCCCT 62.149 66.667 33.23 25.63 0.00 4.79
1634 1681 1.045911 GGAGGAGCCAGAGGTCGATT 61.046 60.000 0.00 0.00 41.62 3.34
1636 1683 2.032620 GAGGAGCCAGAGGTCGATTAA 58.967 52.381 0.00 0.00 41.62 1.40
1697 1744 4.095185 ACAAAGAGATCGACTAGGAAGACG 59.905 45.833 0.00 0.00 41.36 4.18
1736 1783 4.541705 TGTTTGATTTGGACCAGGAAGAA 58.458 39.130 0.00 0.00 0.00 2.52
1772 1819 1.558756 CTCAAGGAGGAGAAGGTGCAT 59.441 52.381 0.00 0.00 37.05 3.96
1805 1852 3.519510 CCAAGGGTGAGAGTGATTTCCTA 59.480 47.826 0.00 0.00 0.00 2.94
1806 1853 4.019321 CCAAGGGTGAGAGTGATTTCCTAA 60.019 45.833 0.00 0.00 0.00 2.69
1809 1856 3.519913 GGGTGAGAGTGATTTCCTAACCT 59.480 47.826 0.00 0.00 0.00 3.50
2078 2138 7.827819 TGTTTGAGAATAGTTACTGATTCGG 57.172 36.000 0.00 0.00 37.19 4.30
2233 2293 1.271054 TGCTTCAGAGTCCTTTCAGCC 60.271 52.381 0.00 0.00 0.00 4.85
2251 2313 5.431765 TCAGCCAATCCTTGATTAAGACTC 58.568 41.667 0.00 0.00 35.92 3.36
2252 2314 5.190528 TCAGCCAATCCTTGATTAAGACTCT 59.809 40.000 0.00 0.00 35.92 3.24
2254 2316 6.705381 CAGCCAATCCTTGATTAAGACTCTAG 59.295 42.308 0.00 0.00 35.92 2.43
2455 2519 7.663081 TGTCTTATCAAGAGCTTTCTGAAATGT 59.337 33.333 2.88 0.00 38.41 2.71
2456 2520 9.155975 GTCTTATCAAGAGCTTTCTGAAATGTA 57.844 33.333 2.88 0.00 38.41 2.29
2457 2521 9.155975 TCTTATCAAGAGCTTTCTGAAATGTAC 57.844 33.333 2.88 0.00 32.71 2.90
2543 2607 9.793252 TGTTATTTGTACTCGGTCTAGATTTAC 57.207 33.333 0.00 0.00 0.00 2.01
2606 2670 5.428253 TCATTAGTACTCTGGATTGTTGCC 58.572 41.667 0.00 0.00 0.00 4.52
2654 2720 7.222805 TCAAACTTCATGTTCATCTATAGCGAC 59.777 37.037 0.00 0.00 38.03 5.19
2868 3560 2.368875 TGAGAAGTCTGTTCCCTTGTCC 59.631 50.000 0.00 0.00 31.80 4.02
2931 3623 4.832248 CCACACCTGAACTAGCTATCAAA 58.168 43.478 0.00 0.00 0.00 2.69
3072 3766 2.100605 AGGAAGCCATCAACGAAGAC 57.899 50.000 0.00 0.00 0.00 3.01
3105 3799 1.953138 CGCCGAGGCATCTGATGTC 60.953 63.158 14.21 14.21 42.06 3.06
3124 3818 3.199946 TGTCCCTAACAAGATGATCCCAC 59.800 47.826 0.00 0.00 34.03 4.61
3288 3982 4.461781 CAGGAAGATGCTTTCAATTCCACT 59.538 41.667 5.18 0.00 41.20 4.00
3391 4085 3.718434 AGATGCTCTCCATTCCACCATTA 59.282 43.478 0.00 0.00 33.29 1.90
3397 4091 5.359194 TCTCCATTCCACCATTAAGACTC 57.641 43.478 0.00 0.00 0.00 3.36
3486 4180 4.218312 AGGAAAATGCTTTCAGTTCCACT 58.782 39.130 13.72 0.00 42.44 4.00
3565 4259 1.884464 GCTGCTGATGATTCGCCGA 60.884 57.895 0.00 0.00 0.00 5.54
3672 4378 0.605589 ACCTCAGTGAGTACAGCAGC 59.394 55.000 18.74 0.00 0.00 5.25
3673 4379 0.457509 CCTCAGTGAGTACAGCAGCG 60.458 60.000 18.74 0.00 0.00 5.18
3674 4380 0.523519 CTCAGTGAGTACAGCAGCGA 59.476 55.000 12.28 0.00 0.00 4.93
3675 4381 0.523519 TCAGTGAGTACAGCAGCGAG 59.476 55.000 0.00 0.00 0.00 5.03
3676 4382 0.457509 CAGTGAGTACAGCAGCGAGG 60.458 60.000 0.00 0.00 0.00 4.63
3677 4383 0.609406 AGTGAGTACAGCAGCGAGGA 60.609 55.000 0.00 0.00 0.00 3.71
3678 4384 0.179150 GTGAGTACAGCAGCGAGGAG 60.179 60.000 0.00 0.00 0.00 3.69
3679 4385 1.315981 TGAGTACAGCAGCGAGGAGG 61.316 60.000 0.00 0.00 0.00 4.30
3680 4386 1.000771 AGTACAGCAGCGAGGAGGA 60.001 57.895 0.00 0.00 0.00 3.71
3681 4387 0.396417 AGTACAGCAGCGAGGAGGAT 60.396 55.000 0.00 0.00 0.00 3.24
3682 4388 0.249238 GTACAGCAGCGAGGAGGATG 60.249 60.000 0.00 0.00 0.00 3.51
3683 4389 0.395724 TACAGCAGCGAGGAGGATGA 60.396 55.000 0.00 0.00 0.00 2.92
3684 4390 1.227205 CAGCAGCGAGGAGGATGAC 60.227 63.158 0.00 0.00 0.00 3.06
3685 4391 2.107953 GCAGCGAGGAGGATGACC 59.892 66.667 0.00 0.00 0.00 4.02
3697 4403 3.458044 AGGATGACCTCAGTGAGTACA 57.542 47.619 18.74 16.85 44.13 2.90
3698 4404 3.360867 AGGATGACCTCAGTGAGTACAG 58.639 50.000 18.74 6.02 44.13 2.74
3699 4405 2.159170 GGATGACCTCAGTGAGTACAGC 60.159 54.545 18.74 18.14 0.00 4.40
3700 4406 1.995376 TGACCTCAGTGAGTACAGCA 58.005 50.000 18.74 6.49 0.00 4.41
3701 4407 1.889170 TGACCTCAGTGAGTACAGCAG 59.111 52.381 18.74 4.25 0.00 4.24
3750 4456 1.181741 TGCAGAAGGTGAGCGACTCT 61.182 55.000 8.07 0.00 0.00 3.24
3872 4578 2.328319 AGAGGAGGATCTCAAGATGCC 58.672 52.381 7.78 4.64 42.90 4.40
3921 4627 2.291282 TGAGGAGAGTGGAGAGGAAGAC 60.291 54.545 0.00 0.00 0.00 3.01
4111 4820 2.278332 AAGTGCTTTGAAGGAGGGTC 57.722 50.000 0.00 0.00 0.00 4.46
4151 4860 5.236282 CAAGACTGTTGACTCTGTCATCAT 58.764 41.667 10.60 3.90 42.40 2.45
4222 4931 1.071605 GACCATCGTCAAGACACTGC 58.928 55.000 0.72 0.00 38.99 4.40
4228 4937 1.134818 TCGTCAAGACACTGCACAAGT 60.135 47.619 0.72 0.00 40.93 3.16
4480 5190 0.329596 GGAAGAACCTGGCCATCACT 59.670 55.000 5.51 0.40 35.41 3.41
4528 5238 2.049063 GAGCTGGACGACAACGCT 60.049 61.111 0.00 0.00 43.96 5.07
4533 5243 1.278172 CTGGACGACAACGCTGAGTG 61.278 60.000 0.00 0.00 43.96 3.51
4610 5320 3.750828 GAGAGGGCTCTAGTTGTGC 57.249 57.895 0.00 0.00 40.61 4.57
4665 5376 0.254178 ATGCTGCCGAGGAGTGAAAT 59.746 50.000 0.00 0.00 0.00 2.17
4759 5496 0.462789 AGTTCGTGTCGGTTCTGGTT 59.537 50.000 0.00 0.00 0.00 3.67
4762 5499 0.249155 TCGTGTCGGTTCTGGTTGTC 60.249 55.000 0.00 0.00 0.00 3.18
4787 5524 5.407084 CGTGTTTGTTCTGTGGTATATGTCA 59.593 40.000 0.00 0.00 0.00 3.58
4898 5640 3.848726 ACTGCTTGTTTGTTTCAACTGG 58.151 40.909 0.00 0.00 0.00 4.00
4923 5669 5.593909 TCAGGAATGAATTTGCCGTGATATT 59.406 36.000 0.00 0.00 0.00 1.28
5011 5809 3.921021 GTGTCTTCACATCTGGTTCGTAG 59.079 47.826 0.00 0.00 43.37 3.51
5016 5814 2.094700 TCACATCTGGTTCGTAGACTGC 60.095 50.000 0.00 0.00 34.32 4.40
5046 5844 1.601903 CAAGTCGCTGTTAGTTTGGCA 59.398 47.619 0.00 0.00 0.00 4.92
5047 5845 2.185004 AGTCGCTGTTAGTTTGGCAT 57.815 45.000 0.00 0.00 0.00 4.40
5049 5847 3.670625 AGTCGCTGTTAGTTTGGCATTA 58.329 40.909 0.00 0.00 0.00 1.90
5050 5848 3.684788 AGTCGCTGTTAGTTTGGCATTAG 59.315 43.478 0.00 0.00 0.00 1.73
5051 5849 3.682858 GTCGCTGTTAGTTTGGCATTAGA 59.317 43.478 0.00 0.00 0.00 2.10
5052 5850 4.332819 GTCGCTGTTAGTTTGGCATTAGAT 59.667 41.667 0.00 0.00 0.00 1.98
5053 5851 4.332543 TCGCTGTTAGTTTGGCATTAGATG 59.667 41.667 0.00 0.00 0.00 2.90
5055 5853 4.399303 GCTGTTAGTTTGGCATTAGATGGT 59.601 41.667 0.00 0.00 0.00 3.55
5056 5854 5.588648 GCTGTTAGTTTGGCATTAGATGGTA 59.411 40.000 0.00 0.00 0.00 3.25
5076 5874 2.901292 GCTGCAGTGCTCTTGCGTT 61.901 57.895 17.60 0.00 43.34 4.84
5129 5928 4.162131 ACAGATTGTTGCTCTTGGGTTTTT 59.838 37.500 0.00 0.00 0.00 1.94
5134 5933 1.028905 TGCTCTTGGGTTTTTGTCCG 58.971 50.000 0.00 0.00 0.00 4.79
5141 5940 1.396607 GGGTTTTTGTCCGGCAGGTT 61.397 55.000 1.81 0.00 39.05 3.50
5143 5942 0.874175 GTTTTTGTCCGGCAGGTTGC 60.874 55.000 1.81 0.00 44.08 4.17
5152 5951 4.643387 GCAGGTTGCCCGGACTGT 62.643 66.667 0.73 0.00 37.42 3.55
5153 5952 2.113139 CAGGTTGCCCGGACTGTT 59.887 61.111 0.73 0.00 35.12 3.16
5237 6204 1.075970 TGGACGGGAGATCCTCTGG 60.076 63.158 0.00 0.00 37.13 3.86
5238 6205 1.075896 GGACGGGAGATCCTCTGGT 60.076 63.158 0.00 0.00 35.95 4.00
5243 6210 1.555075 CGGGAGATCCTCTGGTTTTCA 59.445 52.381 0.00 0.00 35.95 2.69
5254 6232 4.315803 CTCTGGTTTTCATTAGTGGACGT 58.684 43.478 0.00 0.00 0.00 4.34
5268 6246 5.204409 AGTGGACGTTGTAACTATGTTCA 57.796 39.130 0.00 0.00 0.00 3.18
5325 6313 3.490060 ATGGAAAATGGGGTTTAGCCT 57.510 42.857 0.00 0.00 37.43 4.58
5413 6401 9.803507 TCCTAAGATTTGATCTGCAATATTCAT 57.196 29.630 0.00 0.00 40.13 2.57
5429 6417 9.251792 GCAATATTCATGTGAATGCTTCATTTA 57.748 29.630 16.40 0.00 43.90 1.40
5484 6472 6.772716 AGTTTCAGCTTGAAGTATCCTCAAAA 59.227 34.615 0.00 0.00 37.70 2.44
5518 6506 3.421826 CGTCAACGATCTCTGGTTTTTCG 60.422 47.826 0.00 0.00 43.02 3.46
5524 6512 6.607735 ACGATCTCTGGTTTTTCGTTTTAA 57.392 33.333 0.00 0.00 39.80 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
239 240 9.781834 CCTCGTATTTGCTCAAAAATAATTGTA 57.218 29.630 0.00 0.00 34.61 2.41
240 241 7.759433 CCCTCGTATTTGCTCAAAAATAATTGT 59.241 33.333 0.00 0.00 34.61 2.71
241 242 7.973388 TCCCTCGTATTTGCTCAAAAATAATTG 59.027 33.333 0.00 0.00 34.61 2.32
242 243 8.062065 TCCCTCGTATTTGCTCAAAAATAATT 57.938 30.769 0.00 0.00 34.61 1.40
243 244 7.556275 TCTCCCTCGTATTTGCTCAAAAATAAT 59.444 33.333 0.00 0.00 34.61 1.28
244 245 6.882140 TCTCCCTCGTATTTGCTCAAAAATAA 59.118 34.615 0.00 0.00 34.61 1.40
245 246 6.411376 TCTCCCTCGTATTTGCTCAAAAATA 58.589 36.000 0.00 0.00 33.56 1.40
246 247 5.253330 TCTCCCTCGTATTTGCTCAAAAAT 58.747 37.500 0.00 0.00 33.56 1.82
247 248 4.647611 TCTCCCTCGTATTTGCTCAAAAA 58.352 39.130 0.00 0.00 33.56 1.94
248 249 4.280436 TCTCCCTCGTATTTGCTCAAAA 57.720 40.909 0.00 0.00 33.56 2.44
249 250 3.973206 TCTCCCTCGTATTTGCTCAAA 57.027 42.857 0.00 0.00 34.46 2.69
250 251 3.973206 TTCTCCCTCGTATTTGCTCAA 57.027 42.857 0.00 0.00 0.00 3.02
251 252 3.973206 TTTCTCCCTCGTATTTGCTCA 57.027 42.857 0.00 0.00 0.00 4.26
252 253 4.254492 AGTTTTCTCCCTCGTATTTGCTC 58.746 43.478 0.00 0.00 0.00 4.26
253 254 4.287766 AGTTTTCTCCCTCGTATTTGCT 57.712 40.909 0.00 0.00 0.00 3.91
254 255 5.416947 TCTAGTTTTCTCCCTCGTATTTGC 58.583 41.667 0.00 0.00 0.00 3.68
255 256 7.549488 ACATTCTAGTTTTCTCCCTCGTATTTG 59.451 37.037 0.00 0.00 0.00 2.32
256 257 7.621796 ACATTCTAGTTTTCTCCCTCGTATTT 58.378 34.615 0.00 0.00 0.00 1.40
257 258 7.184067 ACATTCTAGTTTTCTCCCTCGTATT 57.816 36.000 0.00 0.00 0.00 1.89
258 259 6.793505 ACATTCTAGTTTTCTCCCTCGTAT 57.206 37.500 0.00 0.00 0.00 3.06
259 260 6.209986 TGAACATTCTAGTTTTCTCCCTCGTA 59.790 38.462 0.00 0.00 0.00 3.43
260 261 5.011738 TGAACATTCTAGTTTTCTCCCTCGT 59.988 40.000 0.00 0.00 0.00 4.18
261 262 5.479306 TGAACATTCTAGTTTTCTCCCTCG 58.521 41.667 0.00 0.00 0.00 4.63
262 263 7.745620 TTTGAACATTCTAGTTTTCTCCCTC 57.254 36.000 0.00 0.00 0.00 4.30
263 264 8.712228 ATTTTGAACATTCTAGTTTTCTCCCT 57.288 30.769 0.00 0.00 0.00 4.20
271 272 9.360093 CGAGTCTCTATTTTGAACATTCTAGTT 57.640 33.333 0.00 0.00 0.00 2.24
272 273 8.524487 ACGAGTCTCTATTTTGAACATTCTAGT 58.476 33.333 0.00 0.00 0.00 2.57
273 274 8.918961 ACGAGTCTCTATTTTGAACATTCTAG 57.081 34.615 0.00 0.00 0.00 2.43
274 275 9.140286 CAACGAGTCTCTATTTTGAACATTCTA 57.860 33.333 0.00 0.00 0.00 2.10
275 276 7.872993 TCAACGAGTCTCTATTTTGAACATTCT 59.127 33.333 0.00 0.00 0.00 2.40
276 277 8.018677 TCAACGAGTCTCTATTTTGAACATTC 57.981 34.615 0.00 0.00 0.00 2.67
277 278 7.962964 TCAACGAGTCTCTATTTTGAACATT 57.037 32.000 0.00 0.00 0.00 2.71
278 279 8.553459 AATCAACGAGTCTCTATTTTGAACAT 57.447 30.769 0.00 0.00 0.00 2.71
279 280 7.962964 AATCAACGAGTCTCTATTTTGAACA 57.037 32.000 0.00 0.00 0.00 3.18
280 281 9.665264 AAAAATCAACGAGTCTCTATTTTGAAC 57.335 29.630 0.00 0.00 29.60 3.18
286 287 9.930693 AGAGTTAAAAATCAACGAGTCTCTATT 57.069 29.630 0.00 0.00 0.00 1.73
287 288 9.930693 AAGAGTTAAAAATCAACGAGTCTCTAT 57.069 29.630 0.00 0.00 0.00 1.98
288 289 9.760077 AAAGAGTTAAAAATCAACGAGTCTCTA 57.240 29.630 0.00 0.00 0.00 2.43
289 290 8.664211 AAAGAGTTAAAAATCAACGAGTCTCT 57.336 30.769 0.00 0.00 0.00 3.10
290 291 9.717892 AAAAAGAGTTAAAAATCAACGAGTCTC 57.282 29.630 0.00 0.00 0.00 3.36
320 321 4.279043 AACGGGTTTGCTTGCGGC 62.279 61.111 0.00 0.00 42.22 6.53
321 322 2.050442 GAACGGGTTTGCTTGCGG 60.050 61.111 0.00 0.00 0.00 5.69
322 323 2.050442 GGAACGGGTTTGCTTGCG 60.050 61.111 0.00 0.00 0.00 4.85
323 324 0.104120 AAAGGAACGGGTTTGCTTGC 59.896 50.000 0.00 0.00 44.59 4.01
324 325 2.159170 TGAAAAGGAACGGGTTTGCTTG 60.159 45.455 0.00 0.00 44.59 4.01
351 352 0.759060 GTTTCCCTTGTTGCTGGGGT 60.759 55.000 0.00 0.00 43.51 4.95
352 353 0.758685 TGTTTCCCTTGTTGCTGGGG 60.759 55.000 0.00 0.00 43.51 4.96
390 391 0.896019 CACTGAGACCGGGTGAGAGT 60.896 60.000 3.30 0.00 33.32 3.24
391 392 0.609406 TCACTGAGACCGGGTGAGAG 60.609 60.000 3.30 0.00 35.44 3.20
392 393 0.178973 TTCACTGAGACCGGGTGAGA 60.179 55.000 3.30 0.00 40.38 3.27
393 394 0.679505 TTTCACTGAGACCGGGTGAG 59.320 55.000 3.30 0.00 40.38 3.51
394 395 1.124780 TTTTCACTGAGACCGGGTGA 58.875 50.000 3.30 6.37 38.07 4.02
395 396 2.076863 GATTTTCACTGAGACCGGGTG 58.923 52.381 3.30 3.56 0.00 4.61
406 407 7.066284 CCAATAGAAACCTCATCGATTTTCACT 59.934 37.037 17.96 5.59 31.57 3.41
450 451 2.461897 TCGTTTTTGCTTCGTTGGTC 57.538 45.000 0.00 0.00 0.00 4.02
456 457 3.747099 ATGGAGATCGTTTTTGCTTCG 57.253 42.857 0.00 0.00 0.00 3.79
609 613 3.758554 AGATCTGATTGTTCCCGGTTTTG 59.241 43.478 0.00 0.00 0.00 2.44
713 725 2.518825 CCGCGTACCCTCTAGGCT 60.519 66.667 4.92 0.00 40.58 4.58
714 726 2.517875 TCCGCGTACCCTCTAGGC 60.518 66.667 4.92 0.00 40.58 3.93
715 727 2.553727 GCTCCGCGTACCCTCTAGG 61.554 68.421 4.92 0.00 43.78 3.02
716 728 2.553727 GGCTCCGCGTACCCTCTAG 61.554 68.421 4.92 0.00 0.00 2.43
717 729 2.517875 GGCTCCGCGTACCCTCTA 60.518 66.667 4.92 0.00 0.00 2.43
786 798 1.979155 GTTTGCCCTCTGCCCTTCC 60.979 63.158 0.00 0.00 40.16 3.46
788 800 2.118294 GGTTTGCCCTCTGCCCTT 59.882 61.111 0.00 0.00 40.16 3.95
956 973 0.625683 TACCTACCTCCTCCTCCCGT 60.626 60.000 0.00 0.00 0.00 5.28
963 988 2.778850 TCTCTCACCTACCTACCTCCTC 59.221 54.545 0.00 0.00 0.00 3.71
970 995 3.200385 GTCTCCTGTCTCTCACCTACCTA 59.800 52.174 0.00 0.00 0.00 3.08
1169 1197 1.523938 GCGAATCGGAAGGGGGAAG 60.524 63.158 4.35 0.00 0.00 3.46
1191 1219 3.244976 CCATCCGCATCTCAAAAACAAC 58.755 45.455 0.00 0.00 0.00 3.32
1206 1234 3.496131 CCCGCAACGAACCATCCG 61.496 66.667 0.00 0.00 0.00 4.18
1212 1241 0.664166 TAACGAGTCCCGCAACGAAC 60.664 55.000 0.00 0.00 43.32 3.95
1263 1302 0.506506 GCAAAAACCCGCATCAAACG 59.493 50.000 0.00 0.00 0.00 3.60
1288 1329 4.562963 GGTCGATCCCATCCACCTAATAAC 60.563 50.000 0.00 0.00 37.54 1.89
1343 1387 2.435938 TTCATCGCCGACTTGCCC 60.436 61.111 0.00 0.00 0.00 5.36
1390 1434 1.050988 TAGATGCTGCTGGTCCTCCC 61.051 60.000 0.00 0.00 0.00 4.30
1406 1453 2.444140 GGGAGCGGGCTTCCTAGA 60.444 66.667 10.88 0.00 38.69 2.43
1472 1519 3.729489 TCCTCGCCCTCCTCGACT 61.729 66.667 0.00 0.00 32.08 4.18
1494 1541 1.656095 CTTGACGAGATTCCGCTTCAC 59.344 52.381 0.00 0.00 0.00 3.18
1509 1556 1.446099 TGCGCACGATCTCCTTGAC 60.446 57.895 5.66 0.00 0.00 3.18
1634 1681 1.933021 TGGCCTTCTCGGTCTTCTTA 58.067 50.000 3.32 0.00 38.58 2.10
1636 1683 0.539051 CATGGCCTTCTCGGTCTTCT 59.461 55.000 3.32 0.00 38.58 2.85
1772 1819 2.156098 ACCCTTGGGCTCTGCTTCA 61.156 57.895 5.46 0.00 0.00 3.02
1806 1853 8.450964 CGAACAATCAAACATAGTGATTAAGGT 58.549 33.333 0.00 0.00 42.47 3.50
1826 1873 1.603236 GCCCCCATGCAATCGAACAA 61.603 55.000 0.00 0.00 0.00 2.83
1854 1901 3.626670 TGCATGATCACAATGTTCGCATA 59.373 39.130 0.00 0.00 36.70 3.14
1861 1908 0.736636 CGCCTGCATGATCACAATGT 59.263 50.000 0.00 0.00 0.00 2.71
2078 2138 0.524862 CCACTGCACAATCAGGAAGC 59.475 55.000 0.00 0.00 38.36 3.86
2251 2313 9.859427 TTGATGAATTTTAAAATGCCAGTCTAG 57.141 29.630 14.04 0.00 0.00 2.43
2287 2349 3.802685 GCCTAAACAGTACAGATAAGCCG 59.197 47.826 0.00 0.00 0.00 5.52
2457 2521 9.788960 GCCTAGAGTTTAAAAACAAATGGATAG 57.211 33.333 8.21 0.74 41.30 2.08
2868 3560 2.620251 TAGGTGAATCCTCCATTGCG 57.380 50.000 0.00 0.00 44.42 4.85
2921 3613 5.334569 GCACCTTCAACGTTTTTGATAGCTA 60.335 40.000 0.00 0.00 0.00 3.32
2931 3623 1.404035 GTTGAGGCACCTTCAACGTTT 59.596 47.619 0.00 0.00 35.17 3.60
3105 3799 2.780010 AGGTGGGATCATCTTGTTAGGG 59.220 50.000 0.00 0.00 27.91 3.53
3124 3818 0.972134 TCCTTCTCTGTCACAGCAGG 59.028 55.000 0.00 5.58 37.12 4.85
3288 3982 3.261643 TGAGAGCATCAGAAGCCTTAACA 59.738 43.478 0.00 0.00 37.82 2.41
3391 4085 3.445008 TGTTAGGAGCATCAGGAGTCTT 58.555 45.455 0.00 0.00 36.25 3.01
3397 4091 4.125703 GTCATCTTGTTAGGAGCATCAGG 58.874 47.826 0.00 0.00 36.25 3.86
3486 4180 1.338484 GGAGCATCAGCAGTCTCAACA 60.338 52.381 0.00 0.00 45.49 3.33
3565 4259 4.671831 TCCTCTTCTGTCAGATCACTCTT 58.328 43.478 2.68 0.00 0.00 2.85
3598 4304 0.842030 TCCTCACTGCCCACTCCATT 60.842 55.000 0.00 0.00 0.00 3.16
3678 4384 2.159170 GCTGTACTCACTGAGGTCATCC 60.159 54.545 10.86 1.16 33.35 3.51
3679 4385 2.493675 TGCTGTACTCACTGAGGTCATC 59.506 50.000 10.86 5.59 33.35 2.92
3680 4386 2.495270 CTGCTGTACTCACTGAGGTCAT 59.505 50.000 10.86 0.00 33.35 3.06
3681 4387 1.889170 CTGCTGTACTCACTGAGGTCA 59.111 52.381 10.86 7.85 33.35 4.02
3682 4388 1.403514 GCTGCTGTACTCACTGAGGTC 60.404 57.143 10.86 3.84 33.35 3.85
3683 4389 0.605589 GCTGCTGTACTCACTGAGGT 59.394 55.000 10.86 0.00 33.35 3.85
3684 4390 0.457509 CGCTGCTGTACTCACTGAGG 60.458 60.000 10.86 0.00 33.35 3.86
3685 4391 0.523519 TCGCTGCTGTACTCACTGAG 59.476 55.000 4.36 4.36 35.52 3.35
3686 4392 0.523519 CTCGCTGCTGTACTCACTGA 59.476 55.000 0.00 0.00 0.00 3.41
3687 4393 0.457509 CCTCGCTGCTGTACTCACTG 60.458 60.000 0.00 0.00 0.00 3.66
3688 4394 0.609406 TCCTCGCTGCTGTACTCACT 60.609 55.000 0.00 0.00 0.00 3.41
3689 4395 0.179150 CTCCTCGCTGCTGTACTCAC 60.179 60.000 0.00 0.00 0.00 3.51
3690 4396 1.315981 CCTCCTCGCTGCTGTACTCA 61.316 60.000 0.00 0.00 0.00 3.41
3691 4397 1.032657 TCCTCCTCGCTGCTGTACTC 61.033 60.000 0.00 0.00 0.00 2.59
3692 4398 0.396417 ATCCTCCTCGCTGCTGTACT 60.396 55.000 0.00 0.00 0.00 2.73
3693 4399 0.461961 AATCCTCCTCGCTGCTGTAC 59.538 55.000 0.00 0.00 0.00 2.90
3694 4400 0.747255 GAATCCTCCTCGCTGCTGTA 59.253 55.000 0.00 0.00 0.00 2.74
3695 4401 1.519719 GAATCCTCCTCGCTGCTGT 59.480 57.895 0.00 0.00 0.00 4.40
3696 4402 1.227497 GGAATCCTCCTCGCTGCTG 60.227 63.158 0.00 0.00 38.88 4.41
3697 4403 2.439104 GGGAATCCTCCTCGCTGCT 61.439 63.158 0.00 0.00 42.05 4.24
3698 4404 2.110006 GGGAATCCTCCTCGCTGC 59.890 66.667 0.00 0.00 42.05 5.25
3699 4405 3.962557 AGGGAATCCTCCTCGCTG 58.037 61.111 0.00 0.00 39.80 5.18
3750 4456 6.691754 TCAGAATAAAAGTTCACAACAGCA 57.308 33.333 0.00 0.00 0.00 4.41
3756 4462 8.156820 TCCTCTTCATCAGAATAAAAGTTCACA 58.843 33.333 0.00 0.00 32.31 3.58
3795 4501 3.243873 CGTTAGCCTTCTGCATATCCTCA 60.244 47.826 0.00 0.00 44.83 3.86
3872 4578 0.605589 AGGCTCTTCAACTGTCTCCG 59.394 55.000 0.00 0.00 0.00 4.63
3921 4627 1.257415 GACAGATCAGCGCTGAAATCG 59.743 52.381 40.83 29.43 43.58 3.34
4052 4761 1.344438 TGTTAGTGGTGGCAGAGTCAG 59.656 52.381 0.00 0.00 0.00 3.51
4111 4820 4.578105 AGTCTTGGCTTCAAGTTCTTCAAG 59.422 41.667 6.10 0.00 45.92 3.02
4151 4860 3.997021 GCTGGATTCTTCAAGTTCTTCGA 59.003 43.478 0.00 0.00 0.00 3.71
4213 4922 2.017049 GGTGAACTTGTGCAGTGTCTT 58.983 47.619 0.00 0.00 35.12 3.01
4222 4931 2.810274 CCTCAGTGATGGTGAACTTGTG 59.190 50.000 0.00 0.00 0.00 3.33
4228 4937 3.510459 TCTTCTCCTCAGTGATGGTGAA 58.490 45.455 17.54 17.54 35.43 3.18
4528 5238 3.995219 CTGCGCCGATCAGCACTCA 62.995 63.158 4.18 0.00 38.59 3.41
4533 5243 4.521062 ACTCCTGCGCCGATCAGC 62.521 66.667 4.18 0.00 0.00 4.26
4610 5320 2.906354 AGCAAAGCCTAGTTATCACGG 58.094 47.619 0.00 0.00 0.00 4.94
4611 5321 4.946784 AAAGCAAAGCCTAGTTATCACG 57.053 40.909 0.00 0.00 0.00 4.35
4636 5347 1.473677 CTCGGCAGCATTTGGAAATGA 59.526 47.619 14.89 0.00 46.72 2.57
4759 5496 1.339247 ACCACAGAACAAACACGGACA 60.339 47.619 0.00 0.00 0.00 4.02
4762 5499 4.693566 ACATATACCACAGAACAAACACGG 59.306 41.667 0.00 0.00 0.00 4.94
4836 5575 2.284754 TGATTAACAGGGCACAGCAA 57.715 45.000 0.00 0.00 0.00 3.91
4898 5640 2.487762 TCACGGCAAATTCATTCCTGAC 59.512 45.455 0.00 0.00 0.00 3.51
4942 5696 9.807649 ATGTAGCAAATCAATCCATAAGTTTTC 57.192 29.630 0.00 0.00 0.00 2.29
5016 5814 5.807520 ACTAACAGCGACTTGACTGATATTG 59.192 40.000 0.00 0.00 37.35 1.90
5046 5844 3.118112 AGCACTGCAGCTTACCATCTAAT 60.118 43.478 15.27 0.00 43.70 1.73
5047 5845 2.237143 AGCACTGCAGCTTACCATCTAA 59.763 45.455 15.27 0.00 43.70 2.10
5049 5847 0.617413 AGCACTGCAGCTTACCATCT 59.383 50.000 15.27 0.00 43.70 2.90
5050 5848 1.012841 GAGCACTGCAGCTTACCATC 58.987 55.000 15.27 0.00 46.75 3.51
5051 5849 0.617413 AGAGCACTGCAGCTTACCAT 59.383 50.000 15.27 0.00 46.75 3.55
5052 5850 0.397941 AAGAGCACTGCAGCTTACCA 59.602 50.000 15.27 0.00 46.75 3.25
5053 5851 0.801251 CAAGAGCACTGCAGCTTACC 59.199 55.000 15.27 0.00 46.75 2.85
5055 5853 1.293963 CGCAAGAGCACTGCAGCTTA 61.294 55.000 15.27 0.00 46.75 3.09
5056 5854 2.614446 CGCAAGAGCACTGCAGCTT 61.614 57.895 15.27 6.03 46.75 3.74
5141 5940 2.429930 CCTCAAACAGTCCGGGCA 59.570 61.111 9.71 0.00 0.00 5.36
5143 5942 1.139058 CTATCCCTCAAACAGTCCGGG 59.861 57.143 0.00 0.00 36.21 5.73
5144 5943 1.139058 CCTATCCCTCAAACAGTCCGG 59.861 57.143 0.00 0.00 0.00 5.14
5146 5945 4.779993 ATTCCTATCCCTCAAACAGTCC 57.220 45.455 0.00 0.00 0.00 3.85
5147 5946 7.283329 ACAATATTCCTATCCCTCAAACAGTC 58.717 38.462 0.00 0.00 0.00 3.51
5149 5948 7.389053 GCTACAATATTCCTATCCCTCAAACAG 59.611 40.741 0.00 0.00 0.00 3.16
5150 5949 7.072454 AGCTACAATATTCCTATCCCTCAAACA 59.928 37.037 0.00 0.00 0.00 2.83
5151 5950 7.454225 AGCTACAATATTCCTATCCCTCAAAC 58.546 38.462 0.00 0.00 0.00 2.93
5152 5951 7.292356 TGAGCTACAATATTCCTATCCCTCAAA 59.708 37.037 0.00 0.00 0.00 2.69
5153 5952 6.787458 TGAGCTACAATATTCCTATCCCTCAA 59.213 38.462 0.00 0.00 0.00 3.02
5207 6174 2.233922 CTCCCGTCCAGACACAAGTATT 59.766 50.000 0.00 0.00 0.00 1.89
5237 6204 6.951643 AGTTACAACGTCCACTAATGAAAAC 58.048 36.000 0.00 0.00 0.00 2.43
5238 6205 8.714179 CATAGTTACAACGTCCACTAATGAAAA 58.286 33.333 0.00 0.00 0.00 2.29
5243 6210 7.380536 TGAACATAGTTACAACGTCCACTAAT 58.619 34.615 0.00 0.00 0.00 1.73
5362 6350 4.721132 ACAAACTTTCGAACCCATTAGGA 58.279 39.130 0.00 0.00 39.89 2.94
5364 6352 6.128363 GGACTACAAACTTTCGAACCCATTAG 60.128 42.308 0.00 0.00 0.00 1.73
5429 6417 6.820152 GGCCAGCAATCTCTTTTTGATTATTT 59.180 34.615 0.00 0.00 33.38 1.40
5438 6426 1.897802 CCTTGGCCAGCAATCTCTTTT 59.102 47.619 5.11 0.00 0.00 2.27
5450 6438 0.185901 AAGCTGAAACTCCTTGGCCA 59.814 50.000 0.00 0.00 0.00 5.36
5484 6472 4.870426 AGATCGTTGACGCACTTGATTTAT 59.130 37.500 0.00 0.00 39.60 1.40


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

AutoCloner maintained by Alex Coulton.