Multiple sequence alignment - TraesCS7D01G189700

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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 TraesCS7D01G189700 chr7D 100.000 5384 0 0 1 5384 142685724 142691107 0.000000e+00 9943.0
1 TraesCS7D01G189700 chr7D 87.587 572 45 12 4137 4706 143677371 143677918 1.640000e-179 640.0
2 TraesCS7D01G189700 chr7D 86.311 599 49 14 4116 4706 143714182 143714755 5.920000e-174 621.0
3 TraesCS7D01G189700 chr7D 84.776 624 54 20 3885 4493 144334086 144333489 6.010000e-164 588.0
4 TraesCS7D01G189700 chr7D 90.141 284 24 4 4489 4770 144324938 144324657 3.060000e-97 366.0
5 TraesCS7D01G189700 chr7D 88.725 204 21 2 3885 4087 143677083 143677285 1.160000e-61 248.0
6 TraesCS7D01G189700 chr7D 94.595 74 3 1 4700 4772 143688702 143688775 4.410000e-21 113.0
7 TraesCS7D01G189700 chr7D 93.243 74 4 1 4700 4772 143716499 143716572 2.050000e-19 108.0
8 TraesCS7D01G189700 chr7D 96.154 52 1 1 404 455 142686084 142686134 3.460000e-12 84.2
9 TraesCS7D01G189700 chr7D 96.154 52 1 1 361 411 142686127 142686178 3.460000e-12 84.2
10 TraesCS7D01G189700 chr7B 94.955 4440 140 30 571 4950 107097584 107101999 0.000000e+00 6881.0
11 TraesCS7D01G189700 chr7B 93.103 377 22 3 11 386 107097127 107097500 2.830000e-152 549.0
12 TraesCS7D01G189700 chr7B 89.086 394 33 5 4813 5197 3362252 3362644 1.050000e-131 481.0
13 TraesCS7D01G189700 chr7B 96.970 33 1 0 339 371 111309509 111309541 7.530000e-04 56.5
14 TraesCS7D01G189700 chr7B 92.105 38 1 2 345 382 143334883 143334848 1.000000e-02 52.8
15 TraesCS7D01G189700 chr7A 94.291 3626 110 27 1810 5384 144659113 144662692 0.000000e+00 5459.0
16 TraesCS7D01G189700 chr7A 96.902 1033 29 3 775 1807 144657926 144658955 0.000000e+00 1727.0
17 TraesCS7D01G189700 chr7A 85.549 519 48 16 3885 4385 145459547 145460056 7.990000e-143 518.0
18 TraesCS7D01G189700 chr7A 88.832 394 34 5 4813 5197 579565754 579566146 4.880000e-130 475.0
19 TraesCS7D01G189700 chr7A 84.478 393 46 11 2308 2695 116056673 116056291 1.830000e-99 374.0
20 TraesCS7D01G189700 chr7A 86.469 303 33 7 3360 3659 145446060 145446357 5.200000e-85 326.0
21 TraesCS7D01G189700 chr7A 90.244 205 18 2 3156 3358 145397996 145398200 3.200000e-67 267.0
22 TraesCS7D01G189700 chr7A 93.878 98 4 2 11 107 144656972 144657068 4.350000e-31 147.0
23 TraesCS7D01G189700 chr7A 92.188 64 4 1 3051 3113 145397917 145397980 7.430000e-14 89.8
24 TraesCS7D01G189700 chr7A 90.323 62 5 1 3946 4007 160991887 160991827 4.470000e-11 80.5
25 TraesCS7D01G189700 chr7A 88.525 61 6 1 3946 4006 116056130 116056071 7.480000e-09 73.1
26 TraesCS7D01G189700 chr7A 92.105 38 1 2 345 382 180659602 180659567 1.000000e-02 52.8
27 TraesCS7D01G189700 chr1A 90.102 394 30 5 4811 5196 206137271 206136879 2.240000e-138 503.0
28 TraesCS7D01G189700 chr1A 89.286 392 34 4 4813 5196 557960634 557961025 8.110000e-133 484.0
29 TraesCS7D01G189700 chr1A 88.608 395 36 5 4813 5199 581866705 581867098 6.310000e-129 472.0
30 TraesCS7D01G189700 chr1A 85.526 228 17 6 4136 4363 23298786 23298997 1.950000e-54 224.0
31 TraesCS7D01G189700 chr1A 83.186 226 24 6 4142 4367 578918996 578918785 1.530000e-45 195.0
32 TraesCS7D01G189700 chr1A 94.286 70 0 2 506 571 365069535 365069604 2.650000e-18 104.0
33 TraesCS7D01G189700 chr5D 89.848 394 30 6 4813 5197 532340079 532339687 1.040000e-136 497.0
34 TraesCS7D01G189700 chr5D 88.889 45 5 0 328 372 215255147 215255191 7.530000e-04 56.5
35 TraesCS7D01G189700 chr6A 88.471 399 36 5 4811 5201 108945496 108945892 1.750000e-129 473.0
36 TraesCS7D01G189700 chr6A 89.362 235 24 1 2529 2763 552050659 552050426 1.470000e-75 294.0
37 TraesCS7D01G189700 chr6A 83.172 309 39 8 3029 3332 552050427 552050127 2.470000e-68 270.0
38 TraesCS7D01G189700 chr3A 88.636 396 34 5 4809 5196 194702454 194702846 6.310000e-129 472.0
39 TraesCS7D01G189700 chr3A 90.213 235 22 1 2529 2763 38333107 38333340 6.770000e-79 305.0
40 TraesCS7D01G189700 chr3A 84.790 309 34 8 3029 3332 38333339 38333639 1.130000e-76 298.0
41 TraesCS7D01G189700 chr3A 75.917 627 77 37 3776 4366 38333715 38334303 2.490000e-63 254.0
42 TraesCS7D01G189700 chr3A 83.784 222 22 6 4146 4367 462617337 462617130 1.180000e-46 198.0
43 TraesCS7D01G189700 chr5A 84.478 393 46 12 2308 2695 638639376 638639758 1.830000e-99 374.0
44 TraesCS7D01G189700 chr5A 94.030 67 3 1 506 571 562418370 562418304 3.430000e-17 100.0
45 TraesCS7D01G189700 chr5A 91.803 61 4 1 3946 4006 638639919 638639978 3.460000e-12 84.2
46 TraesCS7D01G189700 chr5A 86.667 60 6 2 314 372 362168014 362168072 1.250000e-06 65.8
47 TraesCS7D01G189700 chr5B 84.334 383 48 11 2308 2687 523901071 523900698 1.100000e-96 364.0
48 TraesCS7D01G189700 chr5B 94.203 69 1 2 506 571 163905095 163905027 9.540000e-18 102.0
49 TraesCS7D01G189700 chr1B 84.456 386 43 13 2315 2695 18657174 18656801 1.100000e-96 364.0
50 TraesCS7D01G189700 chr1B 90.000 90 8 1 3881 3969 642535067 642534978 1.230000e-21 115.0
51 TraesCS7D01G189700 chr1B 93.243 74 1 3 499 569 595420419 595420491 7.380000e-19 106.0
52 TraesCS7D01G189700 chr1B 96.774 31 1 0 345 375 359617564 359617534 1.000000e-02 52.8
53 TraesCS7D01G189700 chr2A 83.418 392 46 14 2308 2694 533179969 533179592 3.990000e-91 346.0
54 TraesCS7D01G189700 chr2A 85.965 228 16 6 4136 4363 679008850 679009061 4.190000e-56 230.0
55 TraesCS7D01G189700 chr4A 84.365 307 35 8 3031 3332 53691026 53691324 6.820000e-74 289.0
56 TraesCS7D01G189700 chr2D 82.533 229 36 3 4135 4363 651028352 651028128 1.180000e-46 198.0
57 TraesCS7D01G189700 chr1D 93.421 76 1 3 499 571 114014877 114014951 5.700000e-20 110.0
58 TraesCS7D01G189700 chr1D 88.636 44 5 0 329 372 476559153 476559196 3.000000e-03 54.7
59 TraesCS7D01G189700 chrUn 91.250 80 0 4 513 589 150797854 150797929 9.540000e-18 102.0
60 TraesCS7D01G189700 chr6B 89.610 77 6 1 513 587 712263353 712263429 4.440000e-16 97.1
61 TraesCS7D01G189700 chr3B 88.889 81 4 3 513 590 123027493 123027571 1.600000e-15 95.3
62 TraesCS7D01G189700 chr2B 89.610 77 4 3 513 587 349930647 349930721 1.600000e-15 95.3
63 TraesCS7D01G189700 chr4D 100.000 28 0 0 345 372 34072320 34072293 1.000000e-02 52.8


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 TraesCS7D01G189700 chr7D 142685724 142691107 5383 False 9943.000000 9943 100.000000 1 5384 1 chr7D.!!$F1 5383
1 TraesCS7D01G189700 chr7D 144333489 144334086 597 True 588.000000 588 84.776000 3885 4493 1 chr7D.!!$R2 608
2 TraesCS7D01G189700 chr7D 143677083 143677918 835 False 444.000000 640 88.156000 3885 4706 2 chr7D.!!$F4 821
3 TraesCS7D01G189700 chr7D 143714182 143716572 2390 False 364.500000 621 89.777000 4116 4772 2 chr7D.!!$F5 656
4 TraesCS7D01G189700 chr7B 107097127 107101999 4872 False 3715.000000 6881 94.029000 11 4950 2 chr7B.!!$F3 4939
5 TraesCS7D01G189700 chr7A 144656972 144662692 5720 False 2444.333333 5459 95.023667 11 5384 3 chr7A.!!$F4 5373
6 TraesCS7D01G189700 chr7A 145459547 145460056 509 False 518.000000 518 85.549000 3885 4385 1 chr7A.!!$F2 500
7 TraesCS7D01G189700 chr7A 116056071 116056673 602 True 223.550000 374 86.501500 2308 4006 2 chr7A.!!$R3 1698
8 TraesCS7D01G189700 chr6A 552050127 552050659 532 True 282.000000 294 86.267000 2529 3332 2 chr6A.!!$R1 803
9 TraesCS7D01G189700 chr3A 38333107 38334303 1196 False 285.666667 305 83.640000 2529 4366 3 chr3A.!!$F2 1837
10 TraesCS7D01G189700 chr5A 638639376 638639978 602 False 229.100000 374 88.140500 2308 4006 2 chr5A.!!$F2 1698

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
569 601 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30 F
634 666 1.271379 TCTGTAGCTGTGTTACGTGGG 59.729 52.381 0.00 0.00 0.00 4.61 F
755 860 1.443802 GCCTTAGCAGGACACAGTTC 58.556 55.000 0.00 0.00 44.19 3.01 F
815 1080 1.473434 GCTTTCGTCATACCTCTGGGG 60.473 57.143 0.00 0.00 41.89 4.96 F
1854 2276 2.177734 TGGTATTGGCATTGCATGTGT 58.822 42.857 11.39 0.00 0.00 3.72 F
3458 3927 1.633945 GTACAGTGGAACCCTGGGAAT 59.366 52.381 22.23 7.72 37.80 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1398 1664 3.181503 GCTGTGTGCTACCATTGAATGAG 60.182 47.826 6.76 0.0 38.95 2.90 R
2087 2534 4.974368 ATCGTCCACTGAAAAACAACAA 57.026 36.364 0.00 0.0 0.00 2.83 R
2435 2882 5.862924 ACAATAACTTTCACAGACCATCG 57.137 39.130 0.00 0.0 0.00 3.84 R
3076 3536 3.051327 TGAACGCAAATGCAATCAACAG 58.949 40.909 6.18 0.0 42.21 3.16 R
3990 4541 1.477014 GCACATACCTTTAGCTCCCCC 60.477 57.143 0.00 0.0 0.00 5.40 R
4421 5019 0.324943 ACTTGCCGTTAGATGCCAGT 59.675 50.000 0.00 0.0 0.00 4.00 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
69 71 8.631676 TTTTCGCGTTTTCCTAAATAAAGTTT 57.368 26.923 5.77 0.00 0.00 2.66
84 86 3.884037 AAGTTTGTTGTCTCCCCTGAT 57.116 42.857 0.00 0.00 0.00 2.90
125 127 1.081175 GCAGCCTCGTTTTGAAGCC 60.081 57.895 0.00 0.00 34.38 4.35
143 145 1.370414 CGTTTTCTGCTGCCGGTTG 60.370 57.895 1.90 0.00 0.00 3.77
180 182 5.351189 CCCCCTTTTCAAAGCGAATAATTTG 59.649 40.000 0.00 0.00 37.67 2.32
230 232 7.416154 TTCAGATACGGGCTATTTAAATTCG 57.584 36.000 5.91 8.33 0.00 3.34
246 248 9.916397 ATTTAAATTCGAGTTCGTAATCATGTC 57.084 29.630 0.00 0.00 40.80 3.06
267 269 1.457831 GGCGAGGGGATGTCCTAGT 60.458 63.158 0.00 0.00 37.25 2.57
268 270 1.465200 GGCGAGGGGATGTCCTAGTC 61.465 65.000 0.00 0.00 37.25 2.59
302 304 1.541147 CCGTGACATGAAGGCAAATGT 59.459 47.619 0.00 0.10 36.65 2.71
337 339 9.762933 GCCATTTTAAAATGCTATATTTCCTCA 57.237 29.630 28.17 0.00 43.38 3.86
342 344 6.867662 AAAATGCTATATTTCCTCAGTCCG 57.132 37.500 0.00 0.00 0.00 4.79
353 355 3.170717 TCCTCAGTCCGGAATTAGTTGT 58.829 45.455 5.23 0.00 0.00 3.32
354 356 3.194968 TCCTCAGTCCGGAATTAGTTGTC 59.805 47.826 5.23 0.00 0.00 3.18
372 374 1.859080 GTCGCTCAAACGGATGTATCC 59.141 52.381 0.63 0.63 43.65 2.59
374 376 7.867392 TTGTCGCTCAAACGGATGTATCCAT 62.867 44.000 11.23 0.00 38.78 3.41
386 388 5.132502 GGATGTATCCATGTCATTGTGGAA 58.867 41.667 6.03 0.00 46.78 3.53
387 389 5.240183 GGATGTATCCATGTCATTGTGGAAG 59.760 44.000 6.03 0.00 46.78 3.46
388 390 5.434182 TGTATCCATGTCATTGTGGAAGA 57.566 39.130 0.00 0.00 46.78 2.87
389 391 5.814481 TGTATCCATGTCATTGTGGAAGAA 58.186 37.500 0.00 0.00 46.78 2.52
390 392 5.882000 TGTATCCATGTCATTGTGGAAGAAG 59.118 40.000 0.00 0.00 46.78 2.85
391 393 4.639078 TCCATGTCATTGTGGAAGAAGA 57.361 40.909 0.00 0.00 41.36 2.87
392 394 4.984295 TCCATGTCATTGTGGAAGAAGAA 58.016 39.130 0.00 0.00 41.36 2.52
393 395 5.384336 TCCATGTCATTGTGGAAGAAGAAA 58.616 37.500 0.00 0.00 41.36 2.52
394 396 5.474532 TCCATGTCATTGTGGAAGAAGAAAG 59.525 40.000 0.00 0.00 41.36 2.62
395 397 5.242393 CCATGTCATTGTGGAAGAAGAAAGT 59.758 40.000 0.00 0.00 37.72 2.66
396 398 6.430925 CCATGTCATTGTGGAAGAAGAAAGTA 59.569 38.462 0.00 0.00 37.72 2.24
397 399 7.121759 CCATGTCATTGTGGAAGAAGAAAGTAT 59.878 37.037 0.00 0.00 37.72 2.12
399 401 8.463930 TGTCATTGTGGAAGAAGAAAGTATTT 57.536 30.769 0.00 0.00 43.98 1.40
400 402 8.912988 TGTCATTGTGGAAGAAGAAAGTATTTT 58.087 29.630 0.00 0.00 39.27 1.82
406 408 8.339714 TGTGGAAGAAGAAAGTATTTTACAACG 58.660 33.333 0.00 0.00 39.27 4.10
408 410 7.716123 TGGAAGAAGAAAGTATTTTACAACGGA 59.284 33.333 0.00 0.00 39.27 4.69
409 411 8.727910 GGAAGAAGAAAGTATTTTACAACGGAT 58.272 33.333 0.00 0.00 39.27 4.18
410 412 9.543018 GAAGAAGAAAGTATTTTACAACGGATG 57.457 33.333 0.00 0.00 39.27 3.51
411 413 8.617290 AGAAGAAAGTATTTTACAACGGATGT 57.383 30.769 0.00 0.00 42.04 3.06
412 414 9.715121 AGAAGAAAGTATTTTACAACGGATGTA 57.285 29.630 0.00 0.00 40.34 2.29
415 417 9.106070 AGAAAGTATTTTACAACGGATGTATCC 57.894 33.333 0.00 0.63 43.84 2.59
416 418 8.795842 AAAGTATTTTACAACGGATGTATCCA 57.204 30.769 11.23 0.00 43.84 3.41
417 419 9.403583 AAAGTATTTTACAACGGATGTATCCAT 57.596 29.630 11.23 0.00 43.84 3.41
429 431 5.132502 GGATGTATCCATGTCATTGTGGAA 58.867 41.667 6.03 0.00 46.78 3.53
430 432 5.240183 GGATGTATCCATGTCATTGTGGAAG 59.760 44.000 6.03 0.00 46.78 3.46
431 433 5.434182 TGTATCCATGTCATTGTGGAAGA 57.566 39.130 0.00 0.00 46.78 2.87
432 434 5.814481 TGTATCCATGTCATTGTGGAAGAA 58.186 37.500 0.00 0.00 46.78 2.52
433 435 5.882000 TGTATCCATGTCATTGTGGAAGAAG 59.118 40.000 0.00 0.00 46.78 2.85
434 436 4.639078 TCCATGTCATTGTGGAAGAAGA 57.361 40.909 0.00 0.00 41.36 2.87
435 437 4.984295 TCCATGTCATTGTGGAAGAAGAA 58.016 39.130 0.00 0.00 41.36 2.52
450 452 9.665264 GTGGAAGAAGAAAGTATTTTACAAGTG 57.335 33.333 0.00 0.00 39.27 3.16
466 468 4.655963 ACAAGTGGATGATGCTAGTTTGT 58.344 39.130 0.00 0.00 0.00 2.83
468 470 4.833478 AGTGGATGATGCTAGTTTGTCT 57.167 40.909 0.00 0.00 0.00 3.41
492 494 2.604046 AGATCGATTCTGAAACCCCG 57.396 50.000 0.00 0.00 31.79 5.73
506 508 0.887933 ACCCCGCTTGCAAATACTTG 59.112 50.000 0.00 0.00 35.49 3.16
508 540 2.088423 CCCCGCTTGCAAATACTTGTA 58.912 47.619 0.00 0.00 34.79 2.41
510 542 3.243068 CCCCGCTTGCAAATACTTGTATC 60.243 47.826 0.00 0.00 34.79 2.24
515 547 7.172532 CCCGCTTGCAAATACTTGTATCTAATA 59.827 37.037 0.00 0.00 34.79 0.98
516 548 8.009974 CCGCTTGCAAATACTTGTATCTAATAC 58.990 37.037 0.00 0.00 34.79 1.89
517 549 7.736017 CGCTTGCAAATACTTGTATCTAATACG 59.264 37.037 0.00 0.00 38.59 3.06
518 550 8.548721 GCTTGCAAATACTTGTATCTAATACGT 58.451 33.333 0.00 0.00 38.59 3.57
539 571 7.834881 ACGTCTAGATACATCCTTTTATCCA 57.165 36.000 0.00 0.00 0.00 3.41
540 572 8.423906 ACGTCTAGATACATCCTTTTATCCAT 57.576 34.615 0.00 0.00 0.00 3.41
541 573 8.871125 ACGTCTAGATACATCCTTTTATCCATT 58.129 33.333 0.00 0.00 0.00 3.16
542 574 9.712305 CGTCTAGATACATCCTTTTATCCATTT 57.288 33.333 0.00 0.00 0.00 2.32
550 582 8.365060 ACATCCTTTTATCCATTTTGATGACA 57.635 30.769 0.00 0.00 34.11 3.58
551 583 8.814931 ACATCCTTTTATCCATTTTGATGACAA 58.185 29.630 0.00 0.00 34.11 3.18
552 584 9.309516 CATCCTTTTATCCATTTTGATGACAAG 57.690 33.333 0.00 0.00 37.32 3.16
553 585 8.421249 TCCTTTTATCCATTTTGATGACAAGT 57.579 30.769 0.00 0.00 37.32 3.16
554 586 9.527157 TCCTTTTATCCATTTTGATGACAAGTA 57.473 29.630 0.00 0.00 37.32 2.24
560 592 6.851609 TCCATTTTGATGACAAGTATTTCCG 58.148 36.000 0.00 0.00 37.32 4.30
561 593 6.035843 CCATTTTGATGACAAGTATTTCCGG 58.964 40.000 0.00 0.00 37.32 5.14
562 594 6.127758 CCATTTTGATGACAAGTATTTCCGGA 60.128 38.462 0.00 0.00 37.32 5.14
563 595 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
564 596 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
565 597 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
566 598 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
567 599 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
568 600 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
569 601 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
590 622 4.499696 GGGATGCCATAGTATTTGCAACAC 60.500 45.833 0.00 0.00 37.27 3.32
634 666 1.271379 TCTGTAGCTGTGTTACGTGGG 59.729 52.381 0.00 0.00 0.00 4.61
755 860 1.443802 GCCTTAGCAGGACACAGTTC 58.556 55.000 0.00 0.00 44.19 3.01
801 1066 6.655062 TGATGCGGTTATAATAAAGCTTTCG 58.345 36.000 16.57 11.39 0.00 3.46
815 1080 1.473434 GCTTTCGTCATACCTCTGGGG 60.473 57.143 0.00 0.00 41.89 4.96
829 1094 2.517402 GGGGCGTTTGTGTGACCA 60.517 61.111 0.00 0.00 0.00 4.02
874 1139 2.674380 GGTGGCAGTTCAGCAGGG 60.674 66.667 0.00 0.00 35.45 4.45
988 1254 6.613679 TGACCCTCATACCAACTTGTCATATA 59.386 38.462 0.00 0.00 0.00 0.86
1039 1305 5.163754 GGTGGTTCTGTCATACTATGTTTGC 60.164 44.000 0.00 0.00 0.00 3.68
1054 1320 4.970662 TGTTTGCTCCTAATCTTGATGC 57.029 40.909 0.00 0.00 0.00 3.91
1184 1450 3.434984 GCACTTCAGAATCCACAGAACTC 59.565 47.826 0.00 0.00 0.00 3.01
1194 1460 4.114015 TCCACAGAACTCCTCTCAAGTA 57.886 45.455 0.00 0.00 29.07 2.24
1398 1664 6.259608 CCCTTGAATATGATGACTCAGTTGTC 59.740 42.308 0.00 0.00 34.12 3.18
1792 2058 5.586643 GGTATTCATTCTTTCTCTGGTCCAC 59.413 44.000 0.00 0.00 0.00 4.02
1854 2276 2.177734 TGGTATTGGCATTGCATGTGT 58.822 42.857 11.39 0.00 0.00 3.72
1866 2288 4.782019 TTGCATGTGTGTTATTCCTTCC 57.218 40.909 0.00 0.00 0.00 3.46
2024 2449 7.172342 TGCACACTTCTTATTTGTACCCTTAT 58.828 34.615 0.00 0.00 0.00 1.73
2025 2450 7.668052 TGCACACTTCTTATTTGTACCCTTATT 59.332 33.333 0.00 0.00 0.00 1.40
2087 2534 7.384932 GCAGGCTTGACATATAGTTTTGTTTTT 59.615 33.333 0.00 0.00 0.00 1.94
2435 2882 5.942325 ACAATTTTGTTGTTGCGTCTTAC 57.058 34.783 0.00 0.00 38.47 2.34
2850 3302 9.624373 GGATGAAAGGCACATGATATTATATCT 57.376 33.333 12.72 0.00 0.00 1.98
3076 3536 6.765512 CCACCTTATTGAAGATCTTTCTCCTC 59.234 42.308 9.87 0.00 34.25 3.71
3138 3598 4.324099 CCTCATCCCTCATCACAAGAAACT 60.324 45.833 0.00 0.00 0.00 2.66
3458 3927 1.633945 GTACAGTGGAACCCTGGGAAT 59.366 52.381 22.23 7.72 37.80 3.01
3497 3966 6.039605 TGCATTTTCTGACATCACTTTTCTCA 59.960 34.615 0.00 0.00 0.00 3.27
3511 3980 5.401376 CACTTTTCTCATGCAGACAAATGTG 59.599 40.000 12.94 12.94 35.55 3.21
3547 4016 6.984474 AGTATGTTATGAAAACCGACGATGAT 59.016 34.615 0.00 0.00 0.00 2.45
3769 4248 3.753842 TGCGCGATGGAAATTTAGTTTC 58.246 40.909 12.10 0.00 44.43 2.78
4036 4588 8.862085 CCCTTCTAAAATTTGTAAAAGGGTACA 58.138 33.333 21.65 0.00 44.20 2.90
4134 4727 1.902508 CTCTCCAGCTGTTTGTCCCTA 59.097 52.381 13.81 0.00 0.00 3.53
4191 4784 2.354259 CAGATGTTCAAGCTGGAGGAC 58.646 52.381 0.00 0.00 38.71 3.85
4236 4829 4.213564 TGAGATGAAGAAGGAAGGCTTC 57.786 45.455 18.98 18.98 40.62 3.86
4390 4988 1.798813 GTTGCAACGAGTAAGGGTGAG 59.201 52.381 14.90 0.00 0.00 3.51
4421 5019 4.760530 ATGTTCTGATGGCTACTGCTTA 57.239 40.909 0.00 0.00 39.59 3.09
4544 5145 1.067635 ACATCGGCCATTCTTTTGTGC 60.068 47.619 2.24 0.00 0.00 4.57
4825 7186 3.242867 CTCTAGGGGAAGTGCATGGATA 58.757 50.000 0.00 0.00 0.00 2.59
4844 7205 7.080653 TGGATAAACCCGGATACATATGAAA 57.919 36.000 10.38 0.00 38.00 2.69
4901 7262 1.335496 TCTACAAAAAGTTGCACGGGC 59.665 47.619 0.34 0.34 38.39 6.13
4938 7299 2.993545 TGTGCGTGCATAAAGTTTCAC 58.006 42.857 0.00 0.00 0.00 3.18
4939 7300 2.616376 TGTGCGTGCATAAAGTTTCACT 59.384 40.909 0.00 0.00 0.00 3.41
5018 7380 8.115490 AGCACTATTTAGAAGCACTGAAATTT 57.885 30.769 0.00 0.00 32.97 1.82
5019 7381 8.025445 AGCACTATTTAGAAGCACTGAAATTTG 58.975 33.333 0.00 0.00 32.97 2.32
5054 7417 8.716909 TGGAGACAAAACAAAAAGACATTTTTC 58.283 29.630 0.00 0.00 41.16 2.29
5075 7443 7.347698 TTTTCCATAAAACTTTGTGCCCACAC 61.348 38.462 0.00 0.00 37.20 3.82
5099 7467 8.334263 ACATTTGTGAACATGTATGTGTGATA 57.666 30.769 8.51 0.00 41.61 2.15
5100 7468 8.791675 ACATTTGTGAACATGTATGTGTGATAA 58.208 29.630 8.51 0.00 41.61 1.75
5182 7550 1.812686 GCATATGCCCATGGGTGCAG 61.813 60.000 29.94 19.19 41.46 4.41
5200 7568 4.115199 GGGGTGCCCTCTCGCAAT 62.115 66.667 7.26 0.00 41.30 3.56
5223 7591 1.617322 AGGCGCTATATTCTCGTCCA 58.383 50.000 7.64 0.00 0.00 4.02
5232 7600 5.388890 GCTATATTCTCGTCCAGCAAAATCG 60.389 44.000 0.00 0.00 0.00 3.34
5256 7624 6.714492 GTTTTACGGTTCCTTCTAAAACGAA 58.286 36.000 0.00 0.00 39.11 3.85
5257 7625 5.905480 TTACGGTTCCTTCTAAAACGAAC 57.095 39.130 0.00 0.00 39.11 3.95
5258 7626 3.133691 ACGGTTCCTTCTAAAACGAACC 58.866 45.455 7.59 7.59 42.48 3.62
5259 7627 3.800929 GGTTCCTTCTAAAACGAACCG 57.199 47.619 2.33 0.00 39.30 4.44
5260 7628 3.133691 GGTTCCTTCTAAAACGAACCGT 58.866 45.455 2.33 0.00 39.30 4.83
5261 7629 4.306600 GGTTCCTTCTAAAACGAACCGTA 58.693 43.478 2.33 0.00 39.30 4.02
5262 7630 4.749598 GGTTCCTTCTAAAACGAACCGTAA 59.250 41.667 2.33 0.00 39.30 3.18
5263 7631 5.236263 GGTTCCTTCTAAAACGAACCGTAAA 59.764 40.000 2.33 0.00 39.30 2.01
5264 7632 6.238347 GGTTCCTTCTAAAACGAACCGTAAAA 60.238 38.462 2.33 0.00 39.30 1.52
5265 7633 6.285790 TCCTTCTAAAACGAACCGTAAAAC 57.714 37.500 0.00 0.00 39.99 2.43
5266 7634 5.051106 TCCTTCTAAAACGAACCGTAAAACG 60.051 40.000 0.00 0.00 39.99 3.60
5267 7635 5.051106 CCTTCTAAAACGAACCGTAAAACGA 60.051 40.000 0.15 0.00 46.05 3.85
5287 7655 0.600557 TTTTGCGGGAATTGATGCGT 59.399 45.000 0.00 0.00 0.00 5.24
5292 7660 1.439353 CGGGAATTGATGCGTCCTGG 61.439 60.000 2.83 0.00 34.63 4.45
5331 7699 7.266125 GCTATCGCAAACTGCAAATTTAAAAAC 59.734 33.333 0.00 0.00 45.36 2.43
5380 7748 3.181501 ACAAAGTTCATCACAACACACCG 60.182 43.478 0.00 0.00 0.00 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.253905 AGCTAGTTCCAATTACTGGTTAGAA 57.746 36.000 0.00 0.00 46.51 2.10
1 2 6.869206 AGCTAGTTCCAATTACTGGTTAGA 57.131 37.500 0.00 0.00 46.51 2.10
2 3 7.707035 CACTAGCTAGTTCCAATTACTGGTTAG 59.293 40.741 23.94 10.52 40.88 2.34
3 4 7.179694 ACACTAGCTAGTTCCAATTACTGGTTA 59.820 37.037 23.94 0.00 39.42 2.85
4 5 6.013639 ACACTAGCTAGTTCCAATTACTGGTT 60.014 38.462 23.94 0.00 39.42 3.67
5 6 5.484290 ACACTAGCTAGTTCCAATTACTGGT 59.516 40.000 23.94 10.98 39.42 4.00
6 7 5.978814 ACACTAGCTAGTTCCAATTACTGG 58.021 41.667 23.94 10.35 39.63 4.00
7 8 7.602644 TCAAACACTAGCTAGTTCCAATTACTG 59.397 37.037 23.94 10.90 33.46 2.74
8 9 7.603024 GTCAAACACTAGCTAGTTCCAATTACT 59.397 37.037 23.94 0.00 33.46 2.24
9 10 7.411588 CGTCAAACACTAGCTAGTTCCAATTAC 60.412 40.741 23.94 14.06 33.46 1.89
69 71 2.716424 AGGAAAATCAGGGGAGACAACA 59.284 45.455 0.00 0.00 0.00 3.33
84 86 5.602628 CCAAACCATTTTTACCGAGGAAAA 58.397 37.500 0.00 0.00 0.00 2.29
125 127 1.370414 CAACCGGCAGCAGAAAACG 60.370 57.895 0.00 0.00 0.00 3.60
165 167 7.166473 GCTGATCTAACCAAATTATTCGCTTTG 59.834 37.037 0.00 0.00 33.20 2.77
180 182 3.696306 GCTCCCAGCTGATCTAACC 57.304 57.895 17.39 0.00 38.45 2.85
230 232 3.060272 CGCCATGACATGATTACGAACTC 60.060 47.826 17.24 0.00 0.00 3.01
244 246 1.227674 GACATCCCCTCGCCATGAC 60.228 63.158 0.00 0.00 0.00 3.06
246 248 1.121407 TAGGACATCCCCTCGCCATG 61.121 60.000 0.00 0.00 37.74 3.66
283 285 2.855180 GACATTTGCCTTCATGTCACG 58.145 47.619 7.30 0.00 45.90 4.35
302 304 7.938140 AGCATTTTAAAATGGCTACAGTAGA 57.062 32.000 31.89 0.00 44.54 2.59
337 339 1.549170 AGCGACAACTAATTCCGGACT 59.451 47.619 1.83 0.00 0.00 3.85
342 344 3.424433 CCGTTTGAGCGACAACTAATTCC 60.424 47.826 0.00 0.00 38.29 3.01
353 355 2.218953 GGATACATCCGTTTGAGCGA 57.781 50.000 0.00 0.00 37.19 4.93
372 374 6.323203 ACTTTCTTCTTCCACAATGACATG 57.677 37.500 0.00 0.00 0.00 3.21
374 376 8.463930 AAATACTTTCTTCTTCCACAATGACA 57.536 30.769 0.00 0.00 0.00 3.58
385 387 9.063615 ACATCCGTTGTAAAATACTTTCTTCTT 57.936 29.630 0.00 0.00 36.57 2.52
386 388 8.617290 ACATCCGTTGTAAAATACTTTCTTCT 57.383 30.769 0.00 0.00 36.57 2.85
389 391 9.106070 GGATACATCCGTTGTAAAATACTTTCT 57.894 33.333 0.26 0.00 43.84 2.52
410 412 6.115446 TCTTCTTCCACAATGACATGGATAC 58.885 40.000 0.00 0.00 44.49 2.24
411 413 6.312141 TCTTCTTCCACAATGACATGGATA 57.688 37.500 0.00 0.00 44.49 2.59
412 414 5.183530 TCTTCTTCCACAATGACATGGAT 57.816 39.130 0.00 0.00 44.49 3.41
413 415 4.639078 TCTTCTTCCACAATGACATGGA 57.361 40.909 0.00 0.00 43.42 3.41
414 416 5.242393 ACTTTCTTCTTCCACAATGACATGG 59.758 40.000 0.00 0.00 37.32 3.66
415 417 6.323203 ACTTTCTTCTTCCACAATGACATG 57.677 37.500 0.00 0.00 0.00 3.21
416 418 8.641498 AATACTTTCTTCTTCCACAATGACAT 57.359 30.769 0.00 0.00 0.00 3.06
417 419 8.463930 AAATACTTTCTTCTTCCACAATGACA 57.536 30.769 0.00 0.00 0.00 3.58
423 425 9.403583 ACTTGTAAAATACTTTCTTCTTCCACA 57.596 29.630 0.00 0.00 0.00 4.17
424 426 9.665264 CACTTGTAAAATACTTTCTTCTTCCAC 57.335 33.333 0.00 0.00 0.00 4.02
425 427 8.846211 CCACTTGTAAAATACTTTCTTCTTCCA 58.154 33.333 0.00 0.00 0.00 3.53
426 428 9.063615 TCCACTTGTAAAATACTTTCTTCTTCC 57.936 33.333 0.00 0.00 0.00 3.46
429 431 9.793259 TCATCCACTTGTAAAATACTTTCTTCT 57.207 29.630 0.00 0.00 0.00 2.85
432 434 8.462016 GCATCATCCACTTGTAAAATACTTTCT 58.538 33.333 0.00 0.00 0.00 2.52
433 435 8.462016 AGCATCATCCACTTGTAAAATACTTTC 58.538 33.333 0.00 0.00 0.00 2.62
434 436 8.353423 AGCATCATCCACTTGTAAAATACTTT 57.647 30.769 0.00 0.00 0.00 2.66
435 437 7.944729 AGCATCATCCACTTGTAAAATACTT 57.055 32.000 0.00 0.00 0.00 2.24
450 452 4.937620 TGACAAGACAAACTAGCATCATCC 59.062 41.667 0.00 0.00 0.00 3.51
488 490 0.887933 ACAAGTATTTGCAAGCGGGG 59.112 50.000 0.00 0.00 37.85 5.73
492 494 8.548721 ACGTATTAGATACAAGTATTTGCAAGC 58.451 33.333 0.00 0.00 37.85 4.01
515 547 7.834881 TGGATAAAAGGATGTATCTAGACGT 57.165 36.000 0.00 0.00 0.00 4.34
516 548 9.712305 AAATGGATAAAAGGATGTATCTAGACG 57.288 33.333 0.00 0.00 0.00 4.18
524 556 9.473007 TGTCATCAAAATGGATAAAAGGATGTA 57.527 29.630 0.00 0.00 34.17 2.29
525 557 8.365060 TGTCATCAAAATGGATAAAAGGATGT 57.635 30.769 0.00 0.00 34.17 3.06
526 558 9.309516 CTTGTCATCAAAATGGATAAAAGGATG 57.690 33.333 0.00 0.00 33.42 3.51
527 559 9.039165 ACTTGTCATCAAAATGGATAAAAGGAT 57.961 29.630 0.00 0.00 33.42 3.24
528 560 8.421249 ACTTGTCATCAAAATGGATAAAAGGA 57.579 30.769 0.00 0.00 33.42 3.36
534 566 8.620416 CGGAAATACTTGTCATCAAAATGGATA 58.380 33.333 0.00 0.00 33.42 2.59
535 567 7.416664 CCGGAAATACTTGTCATCAAAATGGAT 60.417 37.037 0.00 0.00 33.42 3.41
536 568 6.127758 CCGGAAATACTTGTCATCAAAATGGA 60.128 38.462 0.00 0.00 33.42 3.41
537 569 6.035843 CCGGAAATACTTGTCATCAAAATGG 58.964 40.000 0.00 0.00 33.42 3.16
538 570 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
539 571 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
540 572 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
541 573 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
542 574 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
543 575 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
544 576 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
545 577 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
546 578 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
547 579 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
548 580 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
549 581 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
550 582 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
551 583 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
552 584 1.046204 ATCCCTCCGTCCGGAAATAC 58.954 55.000 5.23 0.00 44.66 1.89
553 585 1.045407 CATCCCTCCGTCCGGAAATA 58.955 55.000 5.23 0.00 44.66 1.40
554 586 1.830145 CATCCCTCCGTCCGGAAAT 59.170 57.895 5.23 1.49 44.66 2.17
555 587 3.026431 GCATCCCTCCGTCCGGAAA 62.026 63.158 5.23 0.00 44.66 3.13
556 588 3.467226 GCATCCCTCCGTCCGGAA 61.467 66.667 5.23 0.00 44.66 4.30
559 591 2.159819 CTATGGCATCCCTCCGTCCG 62.160 65.000 1.65 0.00 0.00 4.79
560 592 1.122019 ACTATGGCATCCCTCCGTCC 61.122 60.000 1.65 0.00 0.00 4.79
561 593 1.629043 TACTATGGCATCCCTCCGTC 58.371 55.000 1.65 0.00 0.00 4.79
562 594 2.327325 ATACTATGGCATCCCTCCGT 57.673 50.000 1.65 0.00 0.00 4.69
563 595 3.338249 CAAATACTATGGCATCCCTCCG 58.662 50.000 1.65 0.00 0.00 4.63
564 596 3.084786 GCAAATACTATGGCATCCCTCC 58.915 50.000 1.65 0.00 0.00 4.30
565 597 3.754965 TGCAAATACTATGGCATCCCTC 58.245 45.455 1.65 0.00 0.00 4.30
566 598 3.882102 TGCAAATACTATGGCATCCCT 57.118 42.857 1.65 0.00 0.00 4.20
567 599 3.636300 TGTTGCAAATACTATGGCATCCC 59.364 43.478 1.65 0.00 35.98 3.85
568 600 4.610945 GTGTTGCAAATACTATGGCATCC 58.389 43.478 1.65 0.00 34.84 3.51
569 601 4.282068 CGTGTTGCAAATACTATGGCATC 58.718 43.478 1.65 0.00 35.61 3.91
634 666 0.994263 GTGAATTGCATCAAAGGCGC 59.006 50.000 0.00 0.00 0.00 6.53
801 1066 0.252197 AAACGCCCCAGAGGTATGAC 59.748 55.000 0.00 0.00 38.26 3.06
815 1080 1.334960 CCTTGATGGTCACACAAACGC 60.335 52.381 0.00 0.00 0.00 4.84
829 1094 1.089920 GTGCTCATCAACGCCTTGAT 58.910 50.000 5.24 5.24 46.36 2.57
874 1139 3.051081 AGTCAGCCAGTCAAGTCAATC 57.949 47.619 0.00 0.00 0.00 2.67
988 1254 7.653311 GTGCCATTTCTTCATTACTCAAAACTT 59.347 33.333 0.00 0.00 0.00 2.66
1039 1305 9.368674 CACATATCTTAGCATCAAGATTAGGAG 57.631 37.037 11.87 3.79 41.46 3.69
1054 1320 7.869937 CGGGCTATCCAATATCACATATCTTAG 59.130 40.741 0.00 0.00 34.36 2.18
1184 1450 9.388506 ACAATTCAGTTGATATTACTTGAGAGG 57.611 33.333 0.00 0.00 40.37 3.69
1194 1460 8.579850 TGGAAGCTAACAATTCAGTTGATATT 57.420 30.769 0.00 0.00 40.37 1.28
1264 1530 4.276183 CCTCAGATGATTCCAAGAATGCAG 59.724 45.833 0.00 0.00 0.00 4.41
1398 1664 3.181503 GCTGTGTGCTACCATTGAATGAG 60.182 47.826 6.76 0.00 38.95 2.90
1473 1739 9.144298 CTTAAGACAAATCTATCACCTACCCTA 57.856 37.037 0.00 0.00 33.57 3.53
2087 2534 4.974368 ATCGTCCACTGAAAAACAACAA 57.026 36.364 0.00 0.00 0.00 2.83
2226 2673 8.930846 AGATATCCTTGTTTGAAGGGATAATG 57.069 34.615 0.00 0.00 42.01 1.90
2435 2882 5.862924 ACAATAACTTTCACAGACCATCG 57.137 39.130 0.00 0.00 0.00 3.84
3076 3536 3.051327 TGAACGCAAATGCAATCAACAG 58.949 40.909 6.18 0.00 42.21 3.16
3392 3861 9.364989 CGCAAAGAAATTAAATAAATTCTCCCA 57.635 29.630 4.44 0.00 36.76 4.37
3403 3872 9.719355 AAAAATCTACCCGCAAAGAAATTAAAT 57.281 25.926 0.00 0.00 0.00 1.40
3497 3966 3.909430 CTGAAAGCACATTTGTCTGCAT 58.091 40.909 0.00 0.00 0.00 3.96
3547 4016 4.627058 TCTCATCTACACGAACAAAAGCA 58.373 39.130 0.00 0.00 0.00 3.91
3769 4248 5.846203 AGTTTCCATCATTGGTTTGAACAG 58.154 37.500 0.00 0.00 44.06 3.16
3990 4541 1.477014 GCACATACCTTTAGCTCCCCC 60.477 57.143 0.00 0.00 0.00 5.40
4036 4588 6.305272 TCATTATCTCTGCTGGAAAAGAGT 57.695 37.500 0.00 0.00 40.70 3.24
4134 4727 3.275999 GGTTAATATTCCGCACCACAGT 58.724 45.455 0.00 0.00 0.00 3.55
4191 4784 0.034756 TCCATATTCCCATCGCCACG 59.965 55.000 0.00 0.00 0.00 4.94
4236 4829 1.135888 TCGTTCTGGTACGTGACATCG 60.136 52.381 0.00 3.32 42.01 3.84
4390 4988 3.431572 GCCATCAGAACATAGAAGATCGC 59.568 47.826 0.00 0.00 0.00 4.58
4421 5019 0.324943 ACTTGCCGTTAGATGCCAGT 59.675 50.000 0.00 0.00 0.00 4.00
4544 5145 1.067071 GGAAGTACTCCAGAACACGGG 60.067 57.143 0.00 0.00 44.67 5.28
4825 7186 4.885325 GTGGTTTCATATGTATCCGGGTTT 59.115 41.667 0.00 0.00 0.00 3.27
4844 7205 9.665719 ATTTAGAAATGTGTTTTTCAAAGTGGT 57.334 25.926 0.00 0.00 37.93 4.16
4884 7245 1.893786 TGCCCGTGCAACTTTTTGT 59.106 47.368 0.00 0.00 46.66 2.83
4950 7311 3.951775 TTTTGCACAGGTCACAAAAGT 57.048 38.095 0.00 0.00 38.11 2.66
4978 7340 5.789643 ATAGTGCTCCACAACACAATTTT 57.210 34.783 0.00 0.00 39.30 1.82
4992 7354 6.727824 TTTCAGTGCTTCTAAATAGTGCTC 57.272 37.500 8.64 6.19 0.00 4.26
4994 7356 7.809806 ACAAATTTCAGTGCTTCTAAATAGTGC 59.190 33.333 0.00 0.00 0.00 4.40
5054 7417 3.389221 GTGTGGGCACAAAGTTTTATGG 58.611 45.455 0.00 0.00 43.77 2.74
5075 7443 9.791820 ATTATCACACATACATGTTCACAAATG 57.208 29.630 2.30 2.78 39.39 2.32
5151 7519 1.824230 GGCATATGCACCCACTTTTCA 59.176 47.619 28.07 0.00 44.36 2.69
5152 7520 1.136891 GGGCATATGCACCCACTTTTC 59.863 52.381 28.07 7.31 46.22 2.29
5163 7531 1.812686 CTGCACCCATGGGCATATGC 61.813 60.000 31.73 30.01 39.65 3.14
5200 7568 3.439476 GGACGAGAATATAGCGCCTAGAA 59.561 47.826 2.29 0.00 0.00 2.10
5208 7576 5.388890 CGATTTTGCTGGACGAGAATATAGC 60.389 44.000 0.00 0.00 0.00 2.97
5223 7591 3.566742 AGGAACCGTAAAACGATTTTGCT 59.433 39.130 0.15 0.00 46.05 3.91
5232 7600 6.285790 TCGTTTTAGAAGGAACCGTAAAAC 57.714 37.500 18.33 18.33 39.98 2.43
5258 7626 2.598000 TCCCGCAAAATCGTTTTACG 57.402 45.000 8.11 8.11 44.19 3.18
5259 7627 4.918583 TCAATTCCCGCAAAATCGTTTTAC 59.081 37.500 0.00 0.00 0.00 2.01
5260 7628 5.122512 TCAATTCCCGCAAAATCGTTTTA 57.877 34.783 0.00 0.00 0.00 1.52
5261 7629 3.983741 TCAATTCCCGCAAAATCGTTTT 58.016 36.364 0.00 0.00 0.00 2.43
5262 7630 3.651803 TCAATTCCCGCAAAATCGTTT 57.348 38.095 0.00 0.00 0.00 3.60
5263 7631 3.510719 CATCAATTCCCGCAAAATCGTT 58.489 40.909 0.00 0.00 0.00 3.85
5264 7632 2.735126 GCATCAATTCCCGCAAAATCGT 60.735 45.455 0.00 0.00 0.00 3.73
5265 7633 1.854126 GCATCAATTCCCGCAAAATCG 59.146 47.619 0.00 0.00 0.00 3.34
5266 7634 1.854126 CGCATCAATTCCCGCAAAATC 59.146 47.619 0.00 0.00 0.00 2.17
5267 7635 1.204467 ACGCATCAATTCCCGCAAAAT 59.796 42.857 0.00 0.00 0.00 1.82
5274 7642 1.728490 GCCAGGACGCATCAATTCCC 61.728 60.000 0.00 0.00 0.00 3.97
5287 7655 2.121948 AGCAGATCTGTTATGCCAGGA 58.878 47.619 23.38 0.00 40.89 3.86
5331 7699 6.456047 GCGCCATGAACTATGTATGATGTATG 60.456 42.308 0.00 0.00 34.87 2.39
5347 7715 2.499197 TGAACTTTGTAGCGCCATGAA 58.501 42.857 2.29 0.00 0.00 2.57
5350 7718 2.420022 GTGATGAACTTTGTAGCGCCAT 59.580 45.455 2.29 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.