Multiple sequence alignment - TraesCS7A01G477600

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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 TraesCS7A01G477600 chr7A 100.000 2311 0 0 1 2311 671137600 671135290 0.000000e+00 4268.0
1 TraesCS7A01G477600 chr7A 95.244 799 36 2 1513 2311 688246384 688245588 0.000000e+00 1264.0
2 TraesCS7A01G477600 chr7A 94.869 799 40 1 1513 2311 710355923 710355126 0.000000e+00 1247.0
3 TraesCS7A01G477600 chr7A 87.374 697 74 9 822 1512 391444005 391443317 0.000000e+00 787.0
4 TraesCS7A01G477600 chr7A 92.381 105 8 0 289 393 7302133 7302029 1.430000e-32 150.0
5 TraesCS7A01G477600 chr7A 85.135 148 20 2 484 629 83221590 83221737 1.430000e-32 150.0
6 TraesCS7A01G477600 chr7A 96.610 59 2 0 230 288 7302742 7302684 5.250000e-17 99.0
7 TraesCS7A01G477600 chr7A 86.517 89 11 1 337 425 311846303 311846390 1.890000e-16 97.1
8 TraesCS7A01G477600 chr6B 93.352 1098 52 10 429 1512 48651181 48650091 0.000000e+00 1604.0
9 TraesCS7A01G477600 chr6B 92.208 231 14 3 1 229 48651401 48651173 7.960000e-85 324.0
10 TraesCS7A01G477600 chr1A 92.688 1053 52 9 460 1512 100266021 100267048 0.000000e+00 1495.0
11 TraesCS7A01G477600 chr1A 95.987 299 12 0 429 727 541388455 541388753 9.600000e-134 486.0
12 TraesCS7A01G477600 chr1A 93.304 224 9 3 12 229 100265729 100265952 2.210000e-85 326.0
13 TraesCS7A01G477600 chr1A 92.763 152 7 3 1 148 541388118 541388269 1.390000e-52 217.0
14 TraesCS7A01G477600 chr1A 84.615 169 20 5 466 629 562888574 562888741 1.840000e-36 163.0
15 TraesCS7A01G477600 chr1A 96.491 57 2 0 429 485 100265944 100266000 6.800000e-16 95.3
16 TraesCS7A01G477600 chr2A 92.688 1053 50 6 465 1512 28469402 28468372 0.000000e+00 1493.0
17 TraesCS7A01G477600 chr2A 93.617 141 9 0 289 429 710343796 710343936 6.470000e-51 211.0
18 TraesCS7A01G477600 chr2A 90.909 143 13 0 288 430 595224840 595224698 2.340000e-45 193.0
19 TraesCS7A01G477600 chr2A 96.330 109 3 1 29 136 28469624 28469516 6.560000e-41 178.0
20 TraesCS7A01G477600 chr2A 98.305 59 1 0 230 288 710343187 710343245 1.130000e-18 104.0
21 TraesCS7A01G477600 chr2A 96.552 58 1 1 429 486 28469460 28469404 6.800000e-16 95.3
22 TraesCS7A01G477600 chr3A 95.244 799 37 1 1513 2311 631104411 631105208 0.000000e+00 1264.0
23 TraesCS7A01G477600 chr3A 94.389 802 43 2 1511 2311 330553514 330554314 0.000000e+00 1230.0
24 TraesCS7A01G477600 chr6A 94.875 800 39 2 1513 2311 544036938 544037736 0.000000e+00 1249.0
25 TraesCS7A01G477600 chr6A 94.500 800 43 1 1513 2311 36613235 36614034 0.000000e+00 1232.0
26 TraesCS7A01G477600 chr6A 95.000 40 2 0 227 266 149963198 149963237 1.920000e-06 63.9
27 TraesCS7A01G477600 chr5A 94.618 799 43 0 1513 2311 134332549 134333347 0.000000e+00 1238.0
28 TraesCS7A01G477600 chr5A 94.493 799 44 0 1513 2311 550522295 550523093 0.000000e+00 1232.0
29 TraesCS7A01G477600 chr5A 94.493 799 43 1 1513 2311 148302788 148303585 0.000000e+00 1230.0
30 TraesCS7A01G477600 chr5A 94.347 743 41 1 460 1202 25906780 25907521 0.000000e+00 1138.0
31 TraesCS7A01G477600 chr5A 88.682 698 65 10 822 1514 39310993 39311681 0.000000e+00 839.0
32 TraesCS7A01G477600 chr5A 88.698 699 60 15 822 1512 12578982 12579669 0.000000e+00 835.0
33 TraesCS7A01G477600 chr5A 95.541 157 3 3 1362 1516 25918140 25918294 4.930000e-62 248.0
34 TraesCS7A01G477600 chr5A 93.617 141 9 0 289 429 579312017 579311877 6.470000e-51 211.0
35 TraesCS7A01G477600 chr5A 93.525 139 8 1 13 150 25906409 25906547 3.010000e-49 206.0
36 TraesCS7A01G477600 chr5A 92.708 96 7 0 134 229 25906639 25906734 3.100000e-29 139.0
37 TraesCS7A01G477600 chr5A 98.305 59 1 0 230 288 579312623 579312565 1.130000e-18 104.0
38 TraesCS7A01G477600 chr1D 92.006 688 37 5 836 1512 476375681 476375001 0.000000e+00 950.0
39 TraesCS7A01G477600 chr1D 88.075 696 69 10 822 1512 416350969 416351655 0.000000e+00 813.0
40 TraesCS7A01G477600 chr4A 88.235 697 66 11 822 1512 645865630 645866316 0.000000e+00 819.0
41 TraesCS7A01G477600 chr4A 93.617 141 9 0 289 429 18023943 18023803 6.470000e-51 211.0
42 TraesCS7A01G477600 chr4A 95.652 92 4 0 334 425 602103641 602103732 5.140000e-32 148.0
43 TraesCS7A01G477600 chr4A 98.305 59 1 0 230 288 602102931 602102989 1.130000e-18 104.0
44 TraesCS7A01G477600 chr4A 96.610 59 1 1 230 288 18024550 18024493 1.890000e-16 97.1
45 TraesCS7A01G477600 chr4B 82.071 396 46 19 448 829 272035440 272035056 4.790000e-82 315.0
46 TraesCS7A01G477600 chr4B 80.815 417 52 17 429 829 505279765 505280169 3.730000e-78 302.0
47 TraesCS7A01G477600 chr4B 96.386 83 3 0 48 130 272035626 272035544 1.110000e-28 137.0
48 TraesCS7A01G477600 chr4B 89.796 98 6 3 13 108 505279572 505279667 3.120000e-24 122.0
49 TraesCS7A01G477600 chr2D 80.729 384 46 12 473 829 291876165 291875783 8.130000e-70 274.0
50 TraesCS7A01G477600 chr2D 78.860 421 65 20 429 831 299074972 299075386 1.760000e-66 263.0
51 TraesCS7A01G477600 chr1B 81.928 332 48 11 505 829 533210685 533211011 1.050000e-68 270.0
52 TraesCS7A01G477600 chr1B 100.000 29 0 0 112 140 533210508 533210536 1.000000e-03 54.7
53 TraesCS7A01G477600 chr1B 96.875 32 1 0 109 140 669020546 669020577 1.000000e-03 54.7
54 TraesCS7A01G477600 chr1B 96.875 32 1 0 109 140 679742712 679742743 1.000000e-03 54.7
55 TraesCS7A01G477600 chr5B 84.674 261 37 3 572 829 624957199 624957459 8.190000e-65 257.0
56 TraesCS7A01G477600 chr5B 80.357 336 51 12 504 829 628530210 628530540 8.250000e-60 241.0
57 TraesCS7A01G477600 chrUn 80.381 367 45 16 473 823 272516325 272516680 1.060000e-63 254.0
58 TraesCS7A01G477600 chr3D 91.549 71 6 0 351 421 327565218 327565288 5.250000e-17 99.0
59 TraesCS7A01G477600 chr3D 94.915 59 3 0 230 288 460214678 460214620 2.440000e-15 93.5
60 TraesCS7A01G477600 chr3D 97.297 37 1 0 230 266 181451317 181451281 1.920000e-06 63.9
61 TraesCS7A01G477600 chr4D 89.706 68 7 0 363 430 460485731 460485664 1.140000e-13 87.9
62 TraesCS7A01G477600 chr6D 97.297 37 1 0 230 266 128251045 128251009 1.920000e-06 63.9


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 TraesCS7A01G477600 chr7A 671135290 671137600 2310 True 4268.000000 4268 100.000000 1 2311 1 chr7A.!!$R2 2310
1 TraesCS7A01G477600 chr7A 688245588 688246384 796 True 1264.000000 1264 95.244000 1513 2311 1 chr7A.!!$R3 798
2 TraesCS7A01G477600 chr7A 710355126 710355923 797 True 1247.000000 1247 94.869000 1513 2311 1 chr7A.!!$R4 798
3 TraesCS7A01G477600 chr7A 391443317 391444005 688 True 787.000000 787 87.374000 822 1512 1 chr7A.!!$R1 690
4 TraesCS7A01G477600 chr6B 48650091 48651401 1310 True 964.000000 1604 92.780000 1 1512 2 chr6B.!!$R1 1511
5 TraesCS7A01G477600 chr1A 100265729 100267048 1319 False 638.766667 1495 94.161000 12 1512 3 chr1A.!!$F2 1500
6 TraesCS7A01G477600 chr1A 541388118 541388753 635 False 351.500000 486 94.375000 1 727 2 chr1A.!!$F3 726
7 TraesCS7A01G477600 chr2A 28468372 28469624 1252 True 588.766667 1493 95.190000 29 1512 3 chr2A.!!$R2 1483
8 TraesCS7A01G477600 chr3A 631104411 631105208 797 False 1264.000000 1264 95.244000 1513 2311 1 chr3A.!!$F2 798
9 TraesCS7A01G477600 chr3A 330553514 330554314 800 False 1230.000000 1230 94.389000 1511 2311 1 chr3A.!!$F1 800
10 TraesCS7A01G477600 chr6A 544036938 544037736 798 False 1249.000000 1249 94.875000 1513 2311 1 chr6A.!!$F3 798
11 TraesCS7A01G477600 chr6A 36613235 36614034 799 False 1232.000000 1232 94.500000 1513 2311 1 chr6A.!!$F1 798
12 TraesCS7A01G477600 chr5A 134332549 134333347 798 False 1238.000000 1238 94.618000 1513 2311 1 chr5A.!!$F4 798
13 TraesCS7A01G477600 chr5A 550522295 550523093 798 False 1232.000000 1232 94.493000 1513 2311 1 chr5A.!!$F6 798
14 TraesCS7A01G477600 chr5A 148302788 148303585 797 False 1230.000000 1230 94.493000 1513 2311 1 chr5A.!!$F5 798
15 TraesCS7A01G477600 chr5A 39310993 39311681 688 False 839.000000 839 88.682000 822 1514 1 chr5A.!!$F3 692
16 TraesCS7A01G477600 chr5A 12578982 12579669 687 False 835.000000 835 88.698000 822 1512 1 chr5A.!!$F1 690
17 TraesCS7A01G477600 chr5A 25906409 25907521 1112 False 494.333333 1138 93.526667 13 1202 3 chr5A.!!$F7 1189
18 TraesCS7A01G477600 chr1D 476375001 476375681 680 True 950.000000 950 92.006000 836 1512 1 chr1D.!!$R1 676
19 TraesCS7A01G477600 chr1D 416350969 416351655 686 False 813.000000 813 88.075000 822 1512 1 chr1D.!!$F1 690
20 TraesCS7A01G477600 chr4A 645865630 645866316 686 False 819.000000 819 88.235000 822 1512 1 chr4A.!!$F1 690
21 TraesCS7A01G477600 chr4B 272035056 272035626 570 True 226.000000 315 89.228500 48 829 2 chr4B.!!$R1 781
22 TraesCS7A01G477600 chr4B 505279572 505280169 597 False 212.000000 302 85.305500 13 829 2 chr4B.!!$F1 816

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
263 512 0.034756 AAAGAAAATGTTGGGCCGGC 59.965 50.0 21.18 21.18 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2118 2485 1.265905 GTTTGTGCCAAGTAGAACCGG 59.734 52.381 0.0 0.0 0.0 5.28 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
62 63 1.449601 CGTTACTGGGCCGAGCATT 60.450 57.895 15.66 0.00 0.00 3.56
220 469 0.469331 TACAGCCTACAGGGATCGGG 60.469 60.000 0.00 0.00 37.23 5.14
221 470 1.457643 CAGCCTACAGGGATCGGGA 60.458 63.158 0.00 0.00 37.23 5.14
222 471 0.833834 CAGCCTACAGGGATCGGGAT 60.834 60.000 0.00 0.00 37.23 3.85
223 472 0.543174 AGCCTACAGGGATCGGGATC 60.543 60.000 0.00 0.00 37.23 3.36
224 473 0.832135 GCCTACAGGGATCGGGATCA 60.832 60.000 10.57 0.00 39.54 2.92
225 474 1.944177 CCTACAGGGATCGGGATCAT 58.056 55.000 10.57 0.00 39.54 2.45
226 475 1.552337 CCTACAGGGATCGGGATCATG 59.448 57.143 10.57 10.27 39.54 3.07
227 476 1.552337 CTACAGGGATCGGGATCATGG 59.448 57.143 10.57 2.03 39.54 3.66
228 477 1.002868 CAGGGATCGGGATCATGGC 60.003 63.158 10.57 0.00 39.54 4.40
229 478 2.227036 AGGGATCGGGATCATGGCC 61.227 63.158 10.57 0.00 39.54 5.36
230 479 2.528818 GGGATCGGGATCATGGCCA 61.529 63.158 8.56 8.56 39.54 5.36
231 480 1.002868 GGATCGGGATCATGGCCAG 60.003 63.158 13.05 3.43 39.54 4.85
232 481 1.757306 GATCGGGATCATGGCCAGT 59.243 57.895 13.05 0.00 37.74 4.00
233 482 0.604780 GATCGGGATCATGGCCAGTG 60.605 60.000 13.05 10.20 37.74 3.66
234 483 2.060567 ATCGGGATCATGGCCAGTGG 62.061 60.000 13.05 4.20 0.00 4.00
257 506 3.983344 CGGAGCTTCAAAGAAAATGTTGG 59.017 43.478 0.00 0.00 0.00 3.77
258 507 4.309933 GGAGCTTCAAAGAAAATGTTGGG 58.690 43.478 0.00 0.00 0.00 4.12
259 508 3.732212 AGCTTCAAAGAAAATGTTGGGC 58.268 40.909 0.00 0.00 0.00 5.36
260 509 2.807967 GCTTCAAAGAAAATGTTGGGCC 59.192 45.455 0.00 0.00 0.00 5.80
261 510 2.810439 TCAAAGAAAATGTTGGGCCG 57.190 45.000 0.00 0.00 0.00 6.13
262 511 1.342819 TCAAAGAAAATGTTGGGCCGG 59.657 47.619 0.00 0.00 0.00 6.13
263 512 0.034756 AAAGAAAATGTTGGGCCGGC 59.965 50.000 21.18 21.18 0.00 6.13
264 513 1.826340 AAGAAAATGTTGGGCCGGCC 61.826 55.000 38.57 38.57 0.00 6.13
265 514 2.525381 AAAATGTTGGGCCGGCCA 60.525 55.556 44.46 28.54 37.98 5.36
266 515 2.505635 GAAAATGTTGGGCCGGCCAG 62.506 60.000 44.46 0.00 37.98 4.85
267 516 3.521765 AAATGTTGGGCCGGCCAGA 62.522 57.895 44.46 30.05 37.98 3.86
268 517 4.740822 ATGTTGGGCCGGCCAGAC 62.741 66.667 44.46 37.53 37.98 3.51
270 519 4.966787 GTTGGGCCGGCCAGACAA 62.967 66.667 44.46 34.53 37.98 3.18
271 520 4.211330 TTGGGCCGGCCAGACAAA 62.211 61.111 44.46 26.56 37.98 2.83
272 521 4.659172 TGGGCCGGCCAGACAAAG 62.659 66.667 44.46 0.00 37.98 2.77
275 524 4.344865 GCCGGCCAGACAAAGGGA 62.345 66.667 18.11 0.00 0.00 4.20
276 525 2.045926 CCGGCCAGACAAAGGGAG 60.046 66.667 2.24 0.00 0.00 4.30
277 526 2.592993 CCGGCCAGACAAAGGGAGA 61.593 63.158 2.24 0.00 0.00 3.71
278 527 1.078848 CGGCCAGACAAAGGGAGAG 60.079 63.158 2.24 0.00 0.00 3.20
279 528 1.377856 GGCCAGACAAAGGGAGAGC 60.378 63.158 0.00 0.00 0.00 4.09
280 529 1.376466 GCCAGACAAAGGGAGAGCA 59.624 57.895 0.00 0.00 0.00 4.26
281 530 0.957888 GCCAGACAAAGGGAGAGCAC 60.958 60.000 0.00 0.00 0.00 4.40
282 531 0.322008 CCAGACAAAGGGAGAGCACC 60.322 60.000 0.00 0.00 0.00 5.01
283 532 0.671781 CAGACAAAGGGAGAGCACCG 60.672 60.000 0.00 0.00 0.00 4.94
284 533 0.832135 AGACAAAGGGAGAGCACCGA 60.832 55.000 0.00 0.00 0.00 4.69
285 534 0.250513 GACAAAGGGAGAGCACCGAT 59.749 55.000 0.00 0.00 0.00 4.18
286 535 0.693049 ACAAAGGGAGAGCACCGATT 59.307 50.000 0.00 0.00 0.00 3.34
287 536 1.073923 ACAAAGGGAGAGCACCGATTT 59.926 47.619 0.00 0.00 0.00 2.17
288 537 1.470098 CAAAGGGAGAGCACCGATTTG 59.530 52.381 0.00 0.00 33.97 2.32
289 538 0.984230 AAGGGAGAGCACCGATTTGA 59.016 50.000 0.00 0.00 0.00 2.69
290 539 0.539051 AGGGAGAGCACCGATTTGAG 59.461 55.000 0.00 0.00 0.00 3.02
291 540 0.537188 GGGAGAGCACCGATTTGAGA 59.463 55.000 0.00 0.00 0.00 3.27
292 541 1.472376 GGGAGAGCACCGATTTGAGAG 60.472 57.143 0.00 0.00 0.00 3.20
293 542 1.478510 GGAGAGCACCGATTTGAGAGA 59.521 52.381 0.00 0.00 0.00 3.10
294 543 2.535331 GAGAGCACCGATTTGAGAGAC 58.465 52.381 0.00 0.00 0.00 3.36
295 544 1.205893 AGAGCACCGATTTGAGAGACC 59.794 52.381 0.00 0.00 0.00 3.85
296 545 1.205893 GAGCACCGATTTGAGAGACCT 59.794 52.381 0.00 0.00 0.00 3.85
297 546 1.205893 AGCACCGATTTGAGAGACCTC 59.794 52.381 0.00 0.00 39.86 3.85
298 547 1.914634 CACCGATTTGAGAGACCTCG 58.085 55.000 0.00 0.00 42.33 4.63
299 548 1.472878 CACCGATTTGAGAGACCTCGA 59.527 52.381 0.00 0.00 42.33 4.04
300 549 1.746220 ACCGATTTGAGAGACCTCGAG 59.254 52.381 5.13 5.13 42.33 4.04
301 550 2.017782 CCGATTTGAGAGACCTCGAGA 58.982 52.381 15.71 0.00 42.33 4.04
302 551 2.032799 CCGATTTGAGAGACCTCGAGAG 59.967 54.545 15.71 6.69 42.33 3.20
303 552 2.540769 CGATTTGAGAGACCTCGAGAGC 60.541 54.545 15.71 5.11 42.33 4.09
304 553 2.208132 TTTGAGAGACCTCGAGAGCT 57.792 50.000 15.71 10.48 42.33 4.09
305 554 2.208132 TTGAGAGACCTCGAGAGCTT 57.792 50.000 15.71 0.00 42.33 3.74
306 555 2.208132 TGAGAGACCTCGAGAGCTTT 57.792 50.000 15.71 5.62 42.33 3.51
307 556 1.815613 TGAGAGACCTCGAGAGCTTTG 59.184 52.381 15.71 0.00 42.33 2.77
308 557 1.134175 GAGAGACCTCGAGAGCTTTGG 59.866 57.143 15.71 0.00 34.09 3.28
309 558 1.178276 GAGACCTCGAGAGCTTTGGA 58.822 55.000 15.71 0.00 0.00 3.53
310 559 1.754226 GAGACCTCGAGAGCTTTGGAT 59.246 52.381 15.71 0.00 0.00 3.41
311 560 1.754226 AGACCTCGAGAGCTTTGGATC 59.246 52.381 15.71 0.00 0.00 3.36
312 561 1.754226 GACCTCGAGAGCTTTGGATCT 59.246 52.381 15.71 0.00 41.28 2.75
313 562 2.952978 GACCTCGAGAGCTTTGGATCTA 59.047 50.000 15.71 0.00 38.42 1.98
314 563 3.571590 ACCTCGAGAGCTTTGGATCTAT 58.428 45.455 15.71 0.00 38.42 1.98
315 564 3.572255 ACCTCGAGAGCTTTGGATCTATC 59.428 47.826 15.71 0.00 38.42 2.08
316 565 3.365868 CCTCGAGAGCTTTGGATCTATCG 60.366 52.174 15.71 0.52 43.09 2.92
317 566 3.215151 TCGAGAGCTTTGGATCTATCGT 58.785 45.455 6.24 0.00 42.54 3.73
318 567 4.386711 TCGAGAGCTTTGGATCTATCGTA 58.613 43.478 6.24 0.00 42.54 3.43
319 568 5.004448 TCGAGAGCTTTGGATCTATCGTAT 58.996 41.667 6.24 0.00 42.54 3.06
320 569 5.092105 CGAGAGCTTTGGATCTATCGTATG 58.908 45.833 0.00 0.00 38.42 2.39
321 570 4.815269 AGAGCTTTGGATCTATCGTATGC 58.185 43.478 0.00 0.00 36.34 3.14
322 571 4.526262 AGAGCTTTGGATCTATCGTATGCT 59.474 41.667 0.00 0.00 36.34 3.79
323 572 5.011533 AGAGCTTTGGATCTATCGTATGCTT 59.988 40.000 0.00 0.00 36.34 3.91
324 573 6.209589 AGAGCTTTGGATCTATCGTATGCTTA 59.790 38.462 0.00 0.00 36.34 3.09
325 574 6.159988 AGCTTTGGATCTATCGTATGCTTAC 58.840 40.000 0.00 0.00 0.00 2.34
326 575 6.015010 AGCTTTGGATCTATCGTATGCTTACT 60.015 38.462 8.02 0.00 0.00 2.24
327 576 6.090088 GCTTTGGATCTATCGTATGCTTACTG 59.910 42.308 8.02 2.64 0.00 2.74
328 577 5.644977 TGGATCTATCGTATGCTTACTGG 57.355 43.478 8.02 0.00 0.00 4.00
329 578 4.462834 TGGATCTATCGTATGCTTACTGGG 59.537 45.833 8.02 0.00 0.00 4.45
330 579 3.936372 TCTATCGTATGCTTACTGGGC 57.064 47.619 8.02 0.00 0.00 5.36
331 580 3.497332 TCTATCGTATGCTTACTGGGCT 58.503 45.455 8.02 0.00 0.00 5.19
332 581 2.533266 ATCGTATGCTTACTGGGCTG 57.467 50.000 8.02 0.00 0.00 4.85
333 582 0.179084 TCGTATGCTTACTGGGCTGC 60.179 55.000 8.02 0.00 0.00 5.25
334 583 0.461870 CGTATGCTTACTGGGCTGCA 60.462 55.000 0.50 0.00 39.83 4.41
335 584 1.303309 GTATGCTTACTGGGCTGCAG 58.697 55.000 10.11 10.11 38.87 4.41
336 585 0.181114 TATGCTTACTGGGCTGCAGG 59.819 55.000 17.12 0.31 38.87 4.85
337 586 1.856539 ATGCTTACTGGGCTGCAGGT 61.857 55.000 17.12 7.23 38.87 4.00
338 587 2.042831 GCTTACTGGGCTGCAGGTG 61.043 63.158 17.12 0.00 0.00 4.00
339 588 1.377725 CTTACTGGGCTGCAGGTGG 60.378 63.158 17.12 0.00 0.00 4.61
340 589 2.826777 CTTACTGGGCTGCAGGTGGG 62.827 65.000 17.12 0.00 0.00 4.61
345 594 3.376918 GGCTGCAGGTGGGCTTTC 61.377 66.667 17.12 0.00 34.04 2.62
346 595 3.376918 GCTGCAGGTGGGCTTTCC 61.377 66.667 17.12 0.00 34.04 3.13
347 596 2.437897 CTGCAGGTGGGCTTTCCT 59.562 61.111 5.57 0.00 36.20 3.36
348 597 1.228675 CTGCAGGTGGGCTTTCCTT 60.229 57.895 5.57 0.00 36.20 3.36
349 598 0.038166 CTGCAGGTGGGCTTTCCTTA 59.962 55.000 5.57 0.00 36.20 2.69
350 599 0.038166 TGCAGGTGGGCTTTCCTTAG 59.962 55.000 0.00 0.00 36.20 2.18
351 600 0.328258 GCAGGTGGGCTTTCCTTAGA 59.672 55.000 0.00 0.00 36.20 2.10
352 601 1.064389 GCAGGTGGGCTTTCCTTAGAT 60.064 52.381 0.00 0.00 36.20 1.98
353 602 2.648059 CAGGTGGGCTTTCCTTAGATG 58.352 52.381 0.00 0.00 36.20 2.90
354 603 1.064389 AGGTGGGCTTTCCTTAGATGC 60.064 52.381 0.00 0.00 36.20 3.91
355 604 1.340991 GGTGGGCTTTCCTTAGATGCA 60.341 52.381 0.00 0.00 36.20 3.96
356 605 1.745653 GTGGGCTTTCCTTAGATGCAC 59.254 52.381 0.00 0.00 36.20 4.57
357 606 1.354031 TGGGCTTTCCTTAGATGCACA 59.646 47.619 0.00 0.00 34.29 4.57
358 607 2.025037 TGGGCTTTCCTTAGATGCACAT 60.025 45.455 0.00 0.00 32.54 3.21
359 608 2.360165 GGGCTTTCCTTAGATGCACATG 59.640 50.000 0.00 0.00 0.00 3.21
360 609 3.019564 GGCTTTCCTTAGATGCACATGT 58.980 45.455 0.00 0.00 0.00 3.21
361 610 4.199310 GGCTTTCCTTAGATGCACATGTA 58.801 43.478 0.00 0.00 0.00 2.29
362 611 4.640201 GGCTTTCCTTAGATGCACATGTAA 59.360 41.667 0.00 0.93 0.00 2.41
363 612 5.125417 GGCTTTCCTTAGATGCACATGTAAA 59.875 40.000 0.00 0.00 0.00 2.01
364 613 6.350110 GGCTTTCCTTAGATGCACATGTAAAA 60.350 38.462 0.00 0.00 0.00 1.52
365 614 7.260603 GCTTTCCTTAGATGCACATGTAAAAT 58.739 34.615 0.00 0.00 0.00 1.82
366 615 7.433425 GCTTTCCTTAGATGCACATGTAAAATC 59.567 37.037 0.00 2.23 0.00 2.17
367 616 7.936496 TTCCTTAGATGCACATGTAAAATCA 57.064 32.000 0.00 0.00 0.00 2.57
368 617 7.936496 TCCTTAGATGCACATGTAAAATCAA 57.064 32.000 0.00 0.14 0.00 2.57
369 618 8.347004 TCCTTAGATGCACATGTAAAATCAAA 57.653 30.769 0.00 0.00 0.00 2.69
370 619 8.801299 TCCTTAGATGCACATGTAAAATCAAAA 58.199 29.630 0.00 1.20 0.00 2.44
371 620 9.079833 CCTTAGATGCACATGTAAAATCAAAAG 57.920 33.333 0.00 9.47 0.00 2.27
372 621 9.630098 CTTAGATGCACATGTAAAATCAAAAGT 57.370 29.630 0.00 0.00 0.00 2.66
373 622 7.878477 AGATGCACATGTAAAATCAAAAGTG 57.122 32.000 0.00 0.00 0.00 3.16
374 623 7.436118 AGATGCACATGTAAAATCAAAAGTGT 58.564 30.769 0.00 0.00 0.00 3.55
375 624 8.575589 AGATGCACATGTAAAATCAAAAGTGTA 58.424 29.630 0.00 0.00 0.00 2.90
376 625 9.190858 GATGCACATGTAAAATCAAAAGTGTAA 57.809 29.630 0.00 0.00 0.00 2.41
377 626 8.932945 TGCACATGTAAAATCAAAAGTGTAAA 57.067 26.923 0.00 0.00 0.00 2.01
378 627 9.371136 TGCACATGTAAAATCAAAAGTGTAAAA 57.629 25.926 0.00 0.00 0.00 1.52
393 642 4.548513 AAAAACCTGGGCGGGCCA 62.549 61.111 22.99 22.99 37.98 5.36
394 643 3.844562 AAAAACCTGGGCGGGCCAT 62.845 57.895 24.64 7.38 37.98 4.40
413 662 3.625897 GCCCAGTTTGGCCCCAAC 61.626 66.667 0.00 3.10 46.11 3.77
414 663 2.123077 CCCAGTTTGGCCCCAACA 60.123 61.111 15.46 0.00 35.79 3.33
415 664 1.764054 CCCAGTTTGGCCCCAACAA 60.764 57.895 15.46 0.00 35.79 2.83
416 665 1.341156 CCCAGTTTGGCCCCAACAAA 61.341 55.000 15.46 0.00 35.79 2.83
417 666 0.106521 CCAGTTTGGCCCCAACAAAG 59.893 55.000 15.46 6.43 38.38 2.77
418 667 0.532640 CAGTTTGGCCCCAACAAAGC 60.533 55.000 15.46 0.00 38.38 3.51
419 668 0.690744 AGTTTGGCCCCAACAAAGCT 60.691 50.000 15.46 0.28 38.38 3.74
420 669 0.249868 GTTTGGCCCCAACAAAGCTC 60.250 55.000 0.00 0.00 38.38 4.09
421 670 0.398381 TTTGGCCCCAACAAAGCTCT 60.398 50.000 0.00 0.00 35.46 4.09
422 671 1.114722 TTGGCCCCAACAAAGCTCTG 61.115 55.000 0.00 0.00 0.00 3.35
423 672 2.653115 GCCCCAACAAAGCTCTGC 59.347 61.111 0.00 0.00 0.00 4.26
424 673 2.935740 GCCCCAACAAAGCTCTGCC 61.936 63.158 0.00 0.00 0.00 4.85
425 674 1.228675 CCCCAACAAAGCTCTGCCT 60.229 57.895 0.00 0.00 0.00 4.75
426 675 1.246737 CCCCAACAAAGCTCTGCCTC 61.247 60.000 0.00 0.00 0.00 4.70
427 676 0.251077 CCCAACAAAGCTCTGCCTCT 60.251 55.000 0.00 0.00 0.00 3.69
530 837 4.463879 CCTCGGTGGCTCTGGCTG 62.464 72.222 0.00 0.00 38.73 4.85
584 891 2.961526 ATTCGGACTAAGCGACATGT 57.038 45.000 0.00 0.00 0.00 3.21
829 1155 6.978674 AAGATCACAGGACCGAATATTAGA 57.021 37.500 0.00 0.00 0.00 2.10
839 1165 8.774586 CAGGACCGAATATTAGATTACCAAAAG 58.225 37.037 0.00 0.00 0.00 2.27
905 1231 8.980481 TGGATAAGGATAGTTTGAAATCTTCC 57.020 34.615 0.00 0.00 0.00 3.46
980 1306 7.230849 TGCCAATGATCTATTTGTTGAGTTT 57.769 32.000 0.00 0.00 0.00 2.66
1307 1638 8.873215 ATACTACAATAACGAGGATGTTCAAG 57.127 34.615 0.00 0.00 33.32 3.02
1321 1652 9.162764 GAGGATGTTCAAGTAATTAGCAAACTA 57.837 33.333 0.00 0.00 0.00 2.24
1661 2024 5.684704 CTCTTGCCACTCCTTATTCCATAA 58.315 41.667 0.00 0.00 0.00 1.90
1712 2075 8.973378 TGAAAACTTCACAACACAAAACTTAAG 58.027 29.630 0.00 0.00 34.08 1.85
1721 2084 9.191995 CACAACACAAAACTTAAGAGAAAACTT 57.808 29.630 10.09 0.00 0.00 2.66
1842 2205 3.918566 TCTATGGTTCATACCCTCCGAA 58.081 45.455 0.00 0.00 44.35 4.30
1982 2345 9.496873 TTCTCAAATAAATTTCTGGACGTAAGA 57.503 29.630 0.00 0.00 43.62 2.10
2077 2442 3.427528 CGTGAGCGCTAAAGTTTCTGTTA 59.572 43.478 11.50 0.00 0.00 2.41
2118 2485 1.145119 ACTTTCCCCAAGTCTTCCCAC 59.855 52.381 0.00 0.00 42.62 4.61
2239 2606 7.740805 AGGAACTAAAATAAAATTGGGTTGCA 58.259 30.769 0.00 0.00 36.02 4.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 4.901250 AGACCTGCATAAAAATTATGGGGG 59.099 41.667 11.02 0.00 0.00 5.40
42 43 1.324740 ATGCTCGGCCCAGTAACGTA 61.325 55.000 0.00 0.00 0.00 3.57
62 63 1.558167 TAATTGGGCCTGGTCGCTCA 61.558 55.000 4.53 0.00 37.50 4.26
198 429 1.414158 GATCCCTGTAGGCTGTAGCA 58.586 55.000 6.18 0.00 44.36 3.49
227 476 4.704833 TGAAGCTCCGCCACTGGC 62.705 66.667 10.35 10.35 46.75 4.85
228 477 1.580845 CTTTGAAGCTCCGCCACTGG 61.581 60.000 0.00 0.00 0.00 4.00
229 478 0.603707 TCTTTGAAGCTCCGCCACTG 60.604 55.000 0.00 0.00 0.00 3.66
230 479 0.108585 TTCTTTGAAGCTCCGCCACT 59.891 50.000 0.00 0.00 0.00 4.00
231 480 0.951558 TTTCTTTGAAGCTCCGCCAC 59.048 50.000 0.00 0.00 0.00 5.01
232 481 1.686355 TTTTCTTTGAAGCTCCGCCA 58.314 45.000 0.00 0.00 0.00 5.69
233 482 2.029918 ACATTTTCTTTGAAGCTCCGCC 60.030 45.455 0.00 0.00 0.00 6.13
234 483 3.288809 ACATTTTCTTTGAAGCTCCGC 57.711 42.857 0.00 0.00 0.00 5.54
235 484 3.983344 CCAACATTTTCTTTGAAGCTCCG 59.017 43.478 0.00 0.00 0.00 4.63
236 485 4.309933 CCCAACATTTTCTTTGAAGCTCC 58.690 43.478 0.00 0.00 0.00 4.70
237 486 3.742882 GCCCAACATTTTCTTTGAAGCTC 59.257 43.478 0.00 0.00 0.00 4.09
238 487 3.494924 GGCCCAACATTTTCTTTGAAGCT 60.495 43.478 0.00 0.00 0.00 3.74
239 488 2.807967 GGCCCAACATTTTCTTTGAAGC 59.192 45.455 0.00 0.00 0.00 3.86
240 489 3.059166 CGGCCCAACATTTTCTTTGAAG 58.941 45.455 0.00 0.00 0.00 3.02
241 490 2.224161 CCGGCCCAACATTTTCTTTGAA 60.224 45.455 0.00 0.00 0.00 2.69
242 491 1.342819 CCGGCCCAACATTTTCTTTGA 59.657 47.619 0.00 0.00 0.00 2.69
243 492 1.794512 CCGGCCCAACATTTTCTTTG 58.205 50.000 0.00 0.00 0.00 2.77
244 493 0.034756 GCCGGCCCAACATTTTCTTT 59.965 50.000 18.11 0.00 0.00 2.52
245 494 1.671166 GCCGGCCCAACATTTTCTT 59.329 52.632 18.11 0.00 0.00 2.52
246 495 2.282783 GGCCGGCCCAACATTTTCT 61.283 57.895 36.64 0.00 0.00 2.52
247 496 2.264480 GGCCGGCCCAACATTTTC 59.736 61.111 36.64 5.01 0.00 2.29
248 497 2.525381 TGGCCGGCCCAACATTTT 60.525 55.556 41.75 0.00 41.82 1.82
249 498 2.996734 CTGGCCGGCCCAACATTT 60.997 61.111 41.75 0.00 44.81 2.32
250 499 3.978193 TCTGGCCGGCCCAACATT 61.978 61.111 41.75 0.00 44.81 2.71
251 500 4.740822 GTCTGGCCGGCCCAACAT 62.741 66.667 41.75 0.00 44.81 2.71
253 502 4.966787 TTGTCTGGCCGGCCCAAC 62.967 66.667 41.75 35.42 44.81 3.77
254 503 4.211330 TTTGTCTGGCCGGCCCAA 62.211 61.111 41.75 33.10 44.81 4.12
255 504 4.659172 CTTTGTCTGGCCGGCCCA 62.659 66.667 41.75 29.51 42.79 5.36
258 507 4.344865 TCCCTTTGTCTGGCCGGC 62.345 66.667 21.18 21.18 0.00 6.13
259 508 2.045926 CTCCCTTTGTCTGGCCGG 60.046 66.667 4.71 4.71 0.00 6.13
260 509 1.078848 CTCTCCCTTTGTCTGGCCG 60.079 63.158 0.00 0.00 0.00 6.13
261 510 1.377856 GCTCTCCCTTTGTCTGGCC 60.378 63.158 0.00 0.00 0.00 5.36
262 511 0.957888 GTGCTCTCCCTTTGTCTGGC 60.958 60.000 0.00 0.00 0.00 4.85
263 512 0.322008 GGTGCTCTCCCTTTGTCTGG 60.322 60.000 0.00 0.00 0.00 3.86
264 513 0.671781 CGGTGCTCTCCCTTTGTCTG 60.672 60.000 0.00 0.00 0.00 3.51
265 514 0.832135 TCGGTGCTCTCCCTTTGTCT 60.832 55.000 0.00 0.00 0.00 3.41
266 515 0.250513 ATCGGTGCTCTCCCTTTGTC 59.749 55.000 0.00 0.00 0.00 3.18
267 516 0.693049 AATCGGTGCTCTCCCTTTGT 59.307 50.000 0.00 0.00 0.00 2.83
268 517 1.470098 CAAATCGGTGCTCTCCCTTTG 59.530 52.381 0.00 0.00 0.00 2.77
269 518 1.351017 TCAAATCGGTGCTCTCCCTTT 59.649 47.619 0.00 0.00 0.00 3.11
270 519 0.984230 TCAAATCGGTGCTCTCCCTT 59.016 50.000 0.00 0.00 0.00 3.95
271 520 0.539051 CTCAAATCGGTGCTCTCCCT 59.461 55.000 0.00 0.00 0.00 4.20
272 521 0.537188 TCTCAAATCGGTGCTCTCCC 59.463 55.000 0.00 0.00 0.00 4.30
273 522 1.478510 TCTCTCAAATCGGTGCTCTCC 59.521 52.381 0.00 0.00 0.00 3.71
274 523 2.535331 GTCTCTCAAATCGGTGCTCTC 58.465 52.381 0.00 0.00 0.00 3.20
275 524 1.205893 GGTCTCTCAAATCGGTGCTCT 59.794 52.381 0.00 0.00 0.00 4.09
276 525 1.205893 AGGTCTCTCAAATCGGTGCTC 59.794 52.381 0.00 0.00 0.00 4.26
277 526 1.205893 GAGGTCTCTCAAATCGGTGCT 59.794 52.381 0.00 0.00 39.74 4.40
278 527 1.646189 GAGGTCTCTCAAATCGGTGC 58.354 55.000 0.00 0.00 39.74 5.01
279 528 1.472878 TCGAGGTCTCTCAAATCGGTG 59.527 52.381 0.00 0.00 39.95 4.94
280 529 1.746220 CTCGAGGTCTCTCAAATCGGT 59.254 52.381 3.91 0.00 39.95 4.69
281 530 2.017782 TCTCGAGGTCTCTCAAATCGG 58.982 52.381 13.56 0.00 39.95 4.18
282 531 2.540769 GCTCTCGAGGTCTCTCAAATCG 60.541 54.545 13.56 0.00 39.95 3.34
283 532 2.687935 AGCTCTCGAGGTCTCTCAAATC 59.312 50.000 13.56 0.00 39.95 2.17
284 533 2.733956 AGCTCTCGAGGTCTCTCAAAT 58.266 47.619 13.56 0.00 39.95 2.32
285 534 2.208132 AGCTCTCGAGGTCTCTCAAA 57.792 50.000 13.56 0.00 39.95 2.69
286 535 2.208132 AAGCTCTCGAGGTCTCTCAA 57.792 50.000 13.56 0.00 39.95 3.02
287 536 1.815613 CAAAGCTCTCGAGGTCTCTCA 59.184 52.381 13.56 0.00 39.95 3.27
288 537 1.134175 CCAAAGCTCTCGAGGTCTCTC 59.866 57.143 13.56 0.00 38.35 3.20
289 538 1.181786 CCAAAGCTCTCGAGGTCTCT 58.818 55.000 13.56 1.83 38.35 3.10
290 539 1.178276 TCCAAAGCTCTCGAGGTCTC 58.822 55.000 13.56 0.00 38.35 3.36
291 540 1.754226 GATCCAAAGCTCTCGAGGTCT 59.246 52.381 13.56 7.06 38.35 3.85
292 541 1.754226 AGATCCAAAGCTCTCGAGGTC 59.246 52.381 13.56 4.63 38.35 3.85
293 542 1.859302 AGATCCAAAGCTCTCGAGGT 58.141 50.000 13.56 0.00 41.53 3.85
294 543 3.365868 CGATAGATCCAAAGCTCTCGAGG 60.366 52.174 13.56 4.50 39.15 4.63
295 544 3.252215 ACGATAGATCCAAAGCTCTCGAG 59.748 47.826 5.93 5.93 39.15 4.04
296 545 3.215151 ACGATAGATCCAAAGCTCTCGA 58.785 45.455 5.65 0.00 39.15 4.04
297 546 3.634568 ACGATAGATCCAAAGCTCTCG 57.365 47.619 0.00 0.00 41.58 4.04
298 547 4.862018 GCATACGATAGATCCAAAGCTCTC 59.138 45.833 0.00 0.00 41.38 3.20
299 548 4.526262 AGCATACGATAGATCCAAAGCTCT 59.474 41.667 0.00 0.00 41.38 4.09
300 549 4.815269 AGCATACGATAGATCCAAAGCTC 58.185 43.478 0.00 0.00 41.38 4.09
301 550 4.881019 AGCATACGATAGATCCAAAGCT 57.119 40.909 0.00 0.00 41.38 3.74
302 551 6.090088 CAGTAAGCATACGATAGATCCAAAGC 59.910 42.308 0.00 0.00 37.11 3.51
303 552 6.587990 CCAGTAAGCATACGATAGATCCAAAG 59.412 42.308 0.00 0.00 37.11 2.77
304 553 6.455647 CCAGTAAGCATACGATAGATCCAAA 58.544 40.000 0.00 0.00 37.11 3.28
305 554 5.047306 CCCAGTAAGCATACGATAGATCCAA 60.047 44.000 0.00 0.00 37.11 3.53
306 555 4.462834 CCCAGTAAGCATACGATAGATCCA 59.537 45.833 0.00 0.00 37.11 3.41
307 556 4.678309 GCCCAGTAAGCATACGATAGATCC 60.678 50.000 0.00 0.00 37.11 3.36
308 557 4.158764 AGCCCAGTAAGCATACGATAGATC 59.841 45.833 0.00 0.00 37.11 2.75
309 558 4.081972 CAGCCCAGTAAGCATACGATAGAT 60.082 45.833 0.00 0.00 37.11 1.98
310 559 3.255888 CAGCCCAGTAAGCATACGATAGA 59.744 47.826 0.00 0.00 37.11 1.98
311 560 3.579709 CAGCCCAGTAAGCATACGATAG 58.420 50.000 0.00 0.00 37.11 2.08
312 561 2.288825 GCAGCCCAGTAAGCATACGATA 60.289 50.000 0.00 0.00 37.11 2.92
313 562 1.541233 GCAGCCCAGTAAGCATACGAT 60.541 52.381 0.00 0.00 37.11 3.73
314 563 0.179084 GCAGCCCAGTAAGCATACGA 60.179 55.000 0.00 0.00 37.11 3.43
315 564 0.461870 TGCAGCCCAGTAAGCATACG 60.462 55.000 0.00 0.00 37.11 3.06
316 565 1.303309 CTGCAGCCCAGTAAGCATAC 58.697 55.000 0.00 0.00 36.79 2.39
317 566 0.181114 CCTGCAGCCCAGTAAGCATA 59.819 55.000 8.66 0.00 40.06 3.14
318 567 1.077212 CCTGCAGCCCAGTAAGCAT 60.077 57.895 8.66 0.00 40.06 3.79
319 568 2.352422 CCTGCAGCCCAGTAAGCA 59.648 61.111 8.66 0.00 40.06 3.91
320 569 2.042831 CACCTGCAGCCCAGTAAGC 61.043 63.158 8.66 0.00 40.06 3.09
321 570 1.377725 CCACCTGCAGCCCAGTAAG 60.378 63.158 8.66 0.00 40.06 2.34
322 571 2.756400 CCACCTGCAGCCCAGTAA 59.244 61.111 8.66 0.00 40.06 2.24
323 572 3.329889 CCCACCTGCAGCCCAGTA 61.330 66.667 8.66 0.00 40.06 2.74
328 577 3.376918 GAAAGCCCACCTGCAGCC 61.377 66.667 8.66 0.00 0.00 4.85
329 578 3.376918 GGAAAGCCCACCTGCAGC 61.377 66.667 8.66 0.00 34.14 5.25
330 579 0.038166 TAAGGAAAGCCCACCTGCAG 59.962 55.000 6.78 6.78 36.56 4.41
331 580 0.038166 CTAAGGAAAGCCCACCTGCA 59.962 55.000 0.00 0.00 36.56 4.41
332 581 0.328258 TCTAAGGAAAGCCCACCTGC 59.672 55.000 0.00 0.00 36.56 4.85
333 582 2.648059 CATCTAAGGAAAGCCCACCTG 58.352 52.381 0.00 0.00 36.56 4.00
334 583 1.064389 GCATCTAAGGAAAGCCCACCT 60.064 52.381 0.00 0.00 38.23 4.00
335 584 1.340991 TGCATCTAAGGAAAGCCCACC 60.341 52.381 0.00 0.00 37.41 4.61
336 585 1.745653 GTGCATCTAAGGAAAGCCCAC 59.254 52.381 0.00 0.00 37.41 4.61
337 586 1.354031 TGTGCATCTAAGGAAAGCCCA 59.646 47.619 0.00 0.00 37.41 5.36
338 587 2.128771 TGTGCATCTAAGGAAAGCCC 57.871 50.000 0.00 0.00 33.31 5.19
339 588 3.019564 ACATGTGCATCTAAGGAAAGCC 58.980 45.455 0.00 0.00 0.00 4.35
340 589 5.818136 TTACATGTGCATCTAAGGAAAGC 57.182 39.130 9.11 0.00 0.00 3.51
341 590 8.461222 TGATTTTACATGTGCATCTAAGGAAAG 58.539 33.333 9.11 0.00 0.00 2.62
342 591 8.347004 TGATTTTACATGTGCATCTAAGGAAA 57.653 30.769 9.11 0.00 0.00 3.13
343 592 7.936496 TGATTTTACATGTGCATCTAAGGAA 57.064 32.000 9.11 0.00 0.00 3.36
344 593 7.936496 TTGATTTTACATGTGCATCTAAGGA 57.064 32.000 9.11 0.00 0.00 3.36
345 594 8.984891 TTTTGATTTTACATGTGCATCTAAGG 57.015 30.769 9.11 0.00 0.00 2.69
346 595 9.630098 ACTTTTGATTTTACATGTGCATCTAAG 57.370 29.630 9.11 14.55 0.00 2.18
347 596 9.409312 CACTTTTGATTTTACATGTGCATCTAA 57.591 29.630 9.11 7.42 0.00 2.10
348 597 8.575589 ACACTTTTGATTTTACATGTGCATCTA 58.424 29.630 9.11 1.57 0.00 1.98
349 598 7.436118 ACACTTTTGATTTTACATGTGCATCT 58.564 30.769 9.11 0.00 0.00 2.90
350 599 7.642071 ACACTTTTGATTTTACATGTGCATC 57.358 32.000 9.11 7.61 0.00 3.91
351 600 9.539825 TTTACACTTTTGATTTTACATGTGCAT 57.460 25.926 9.11 0.00 0.00 3.96
352 601 8.932945 TTTACACTTTTGATTTTACATGTGCA 57.067 26.923 9.11 0.00 0.00 4.57
376 625 4.548513 TGGCCCGCCCAGGTTTTT 62.549 61.111 0.00 0.00 39.18 1.94
397 646 1.341156 TTTGTTGGGGCCAAACTGGG 61.341 55.000 23.90 0.00 38.19 4.45
398 647 0.106521 CTTTGTTGGGGCCAAACTGG 59.893 55.000 23.90 10.42 41.55 4.00
399 648 0.532640 GCTTTGTTGGGGCCAAACTG 60.533 55.000 23.90 14.69 37.70 3.16
400 649 0.690744 AGCTTTGTTGGGGCCAAACT 60.691 50.000 23.90 0.72 37.70 2.66
401 650 0.249868 GAGCTTTGTTGGGGCCAAAC 60.250 55.000 17.30 17.30 37.70 2.93
402 651 0.398381 AGAGCTTTGTTGGGGCCAAA 60.398 50.000 4.39 0.00 37.70 3.28
403 652 1.114722 CAGAGCTTTGTTGGGGCCAA 61.115 55.000 4.39 0.00 0.00 4.52
404 653 1.531365 CAGAGCTTTGTTGGGGCCA 60.531 57.895 4.39 0.00 0.00 5.36
405 654 2.935740 GCAGAGCTTTGTTGGGGCC 61.936 63.158 6.08 0.00 0.00 5.80
406 655 2.653115 GCAGAGCTTTGTTGGGGC 59.347 61.111 6.08 0.00 0.00 5.80
407 656 1.228675 AGGCAGAGCTTTGTTGGGG 60.229 57.895 6.08 0.00 0.00 4.96
408 657 0.251077 AGAGGCAGAGCTTTGTTGGG 60.251 55.000 6.08 0.00 0.00 4.12
409 658 0.879765 CAGAGGCAGAGCTTTGTTGG 59.120 55.000 6.08 0.00 0.00 3.77
410 659 1.888215 TCAGAGGCAGAGCTTTGTTG 58.112 50.000 6.08 0.81 0.00 3.33
411 660 2.709213 GATCAGAGGCAGAGCTTTGTT 58.291 47.619 6.08 0.00 0.00 2.83
412 661 1.405256 CGATCAGAGGCAGAGCTTTGT 60.405 52.381 6.08 0.00 0.00 2.83
413 662 1.288350 CGATCAGAGGCAGAGCTTTG 58.712 55.000 0.00 0.00 0.00 2.77
414 663 0.901124 ACGATCAGAGGCAGAGCTTT 59.099 50.000 0.00 0.00 0.00 3.51
415 664 0.175302 CACGATCAGAGGCAGAGCTT 59.825 55.000 0.00 0.00 0.00 3.74
416 665 1.674764 CCACGATCAGAGGCAGAGCT 61.675 60.000 0.00 0.00 0.00 4.09
417 666 1.227205 CCACGATCAGAGGCAGAGC 60.227 63.158 0.00 0.00 0.00 4.09
423 672 1.626686 AGGATAGCCACGATCAGAGG 58.373 55.000 0.00 0.00 36.29 3.69
424 673 3.057876 GTGTAGGATAGCCACGATCAGAG 60.058 52.174 0.00 0.00 36.29 3.35
425 674 2.885266 GTGTAGGATAGCCACGATCAGA 59.115 50.000 0.00 0.00 36.29 3.27
426 675 2.623416 TGTGTAGGATAGCCACGATCAG 59.377 50.000 0.00 0.00 36.29 2.90
427 676 2.623416 CTGTGTAGGATAGCCACGATCA 59.377 50.000 0.00 0.00 36.29 2.92
761 1087 7.227512 CCAATATCTAATGAAATAGCGATCCCC 59.772 40.741 0.00 0.00 0.00 4.81
905 1231 3.686726 GGGCTGTCTCAAGATTAACACAG 59.313 47.826 0.00 0.00 35.39 3.66
980 1306 8.954950 TGGCATGAAATTTTTGAAGAAACTTA 57.045 26.923 0.00 0.00 0.00 2.24
1078 1404 7.126421 AGGAATGGTCAACAGAACTCTATATGT 59.874 37.037 0.00 0.00 0.00 2.29
1152 1478 4.939052 AGTAGTGCGCATATAGGACTTT 57.061 40.909 15.91 0.00 40.68 2.66
1291 1622 7.324935 TGCTAATTACTTGAACATCCTCGTTA 58.675 34.615 0.00 0.00 0.00 3.18
1294 1625 6.662414 TTGCTAATTACTTGAACATCCTCG 57.338 37.500 0.00 0.00 0.00 4.63
1307 1638 9.262358 CCTATCCAACTCTAGTTTGCTAATTAC 57.738 37.037 0.00 0.00 35.83 1.89
1348 1679 9.061610 GTAATGTCTTACATAACAATTGCACAC 57.938 33.333 5.05 0.00 37.97 3.82
1661 2024 7.703058 AGTTTTGGGTAAAGATTCGATGAAT 57.297 32.000 0.00 0.00 34.71 2.57
1712 2075 5.987953 ACTAACGGAGGTTACAAGTTTTCTC 59.012 40.000 0.00 0.00 37.58 2.87
2077 2442 7.516198 AAGTCTTGTTGATCTTGCTGTAAAT 57.484 32.000 0.00 0.00 0.00 1.40
2118 2485 1.265905 GTTTGTGCCAAGTAGAACCGG 59.734 52.381 0.00 0.00 0.00 5.28
2212 2579 9.062524 GCAACCCAATTTTATTTTAGTTCCTTT 57.937 29.630 0.00 0.00 0.00 3.11
2239 2606 1.448540 CGAGAGCGCTTGTTGGGAT 60.449 57.895 13.26 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.