Multiple sequence alignment - TraesCS1D01G357400

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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 TraesCS1D01G357400 chr1D 100.000 3911 0 0 1 3911 441305992 441302082 0.000000e+00 7223.0
1 TraesCS1D01G357400 chr1D 86.833 281 32 3 515 792 287170560 287170838 3.800000e-80 309.0
2 TraesCS1D01G357400 chr1D 96.104 77 3 0 433 509 441305203 441305127 4.100000e-25 126.0
3 TraesCS1D01G357400 chr1D 96.104 77 3 0 790 866 441305560 441305484 4.100000e-25 126.0
4 TraesCS1D01G357400 chr1A 92.892 3461 170 29 517 3911 536658199 536661649 0.000000e+00 4959.0
5 TraesCS1D01G357400 chr1A 89.789 284 27 1 1 282 536657821 536658104 2.870000e-96 363.0
6 TraesCS1D01G357400 chr1A 86.121 281 34 4 515 792 584688654 584688932 8.220000e-77 298.0
7 TraesCS1D01G357400 chr1A 100.000 69 0 0 382 450 536658117 536658185 1.140000e-25 128.0
8 TraesCS1D01G357400 chr1A 94.937 79 2 1 433 509 536658483 536658561 5.310000e-24 122.0
9 TraesCS1D01G357400 chr1A 100.000 42 0 0 1 42 536657777 536657818 1.170000e-10 78.7
10 TraesCS1D01G357400 chr1B 93.838 2353 114 8 841 3169 599342454 599340109 0.000000e+00 3513.0
11 TraesCS1D01G357400 chr1B 92.973 740 48 2 3172 3911 599340076 599339341 0.000000e+00 1075.0
12 TraesCS1D01G357400 chr1B 89.610 308 29 2 1 306 599463477 599463171 4.740000e-104 388.0
13 TraesCS1D01G357400 chr1B 97.778 45 1 0 399 443 599342965 599342921 1.170000e-10 78.7
14 TraesCS1D01G357400 chr5A 95.041 242 12 0 1535 1776 592634407 592634166 7.930000e-102 381.0
15 TraesCS1D01G357400 chr7D 89.130 276 29 1 518 792 75347064 75346789 3.740000e-90 342.0
16 TraesCS1D01G357400 chr7D 85.816 282 37 3 517 795 581452032 581451751 2.950000e-76 296.0
17 TraesCS1D01G357400 chr3D 88.530 279 31 1 515 792 21810662 21810940 1.740000e-88 337.0
18 TraesCS1D01G357400 chr5B 87.097 279 32 2 515 792 531293160 531293435 2.930000e-81 313.0
19 TraesCS1D01G357400 chr5B 86.525 282 33 5 515 792 702481639 702481919 4.910000e-79 305.0
20 TraesCS1D01G357400 chr6D 87.547 265 31 2 530 792 7038225 7037961 4.910000e-79 305.0
21 TraesCS1D01G357400 chr2A 96.429 56 2 0 1676 1731 35422849 35422794 4.160000e-15 93.5


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 TraesCS1D01G357400 chr1D 441302082 441305992 3910 True 2491.666667 7223 97.402667 1 3911 3 chr1D.!!$R1 3910
1 TraesCS1D01G357400 chr1A 536657777 536661649 3872 False 1130.140000 4959 95.523600 1 3911 5 chr1A.!!$F2 3910
2 TraesCS1D01G357400 chr1B 599339341 599342965 3624 True 1555.566667 3513 94.863000 399 3911 3 chr1B.!!$R2 3512

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
375 422 0.036388 ATGTTGTGACCACCCTAGCG 60.036 55.0 0.00 0.0 0.00 4.26 F
2244 2466 0.029035 GCGTCGACGATGGTATCAGT 59.971 55.0 39.74 0.0 43.02 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2310 2532 0.109723 AGCTTAAACCGACCAAGCCA 59.890 50.0 2.13 0.0 44.57 4.75 R
3170 3437 0.401356 TCATCTTGCAGTTCCAGCCA 59.599 50.0 0.00 0.0 0.00 4.75 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
46 91 2.029728 CGGCGATCAAAGTTGCTAGAAG 59.970 50.000 0.00 0.00 0.00 2.85
70 115 0.887387 AACCACGGTTGTTGGGATCG 60.887 55.000 0.00 0.00 36.91 3.69
79 124 1.144057 GTTGGGATCGGCGACATCT 59.856 57.895 13.76 0.00 0.00 2.90
102 149 3.510719 CGCCCCAAGTTGATTAAATGTG 58.489 45.455 3.87 0.00 0.00 3.21
108 155 5.390613 CCAAGTTGATTAAATGTGACGACC 58.609 41.667 3.87 0.00 0.00 4.79
134 181 0.244721 GGCATTTGCTGGAACTGTCC 59.755 55.000 2.12 0.48 40.23 4.02
155 202 1.373497 CTCGCCTCAACGACTGCTT 60.373 57.895 0.00 0.00 37.09 3.91
159 206 1.569479 GCCTCAACGACTGCTTGGAC 61.569 60.000 0.00 0.00 0.00 4.02
164 211 4.379243 CGACTGCTTGGACGGGCT 62.379 66.667 0.00 0.00 0.00 5.19
185 232 3.369546 AGCACAATTGTTGTAACTGGC 57.630 42.857 8.77 6.76 43.23 4.85
196 243 0.393267 GTAACTGGCGGCCATGGTTA 60.393 55.000 24.10 23.24 30.82 2.85
197 244 0.548989 TAACTGGCGGCCATGGTTAT 59.451 50.000 24.10 6.50 30.82 1.89
224 271 1.066605 GATGACATGATGCAGCAACCC 59.933 52.381 9.54 0.94 0.00 4.11
229 276 0.604578 ATGATGCAGCAACCCACAAC 59.395 50.000 9.54 0.00 0.00 3.32
231 278 2.476534 GATGCAGCAACCCACAACGG 62.477 60.000 0.00 0.00 0.00 4.44
244 291 1.805945 CAACGGCGACTGCTAGGAC 60.806 63.158 16.62 0.00 42.25 3.85
245 292 3.003113 AACGGCGACTGCTAGGACC 62.003 63.158 16.62 0.00 42.25 4.46
251 298 1.025113 CGACTGCTAGGACCGACTGA 61.025 60.000 0.00 0.00 0.00 3.41
269 316 0.240945 GACACAATTGCTGGAACCGG 59.759 55.000 5.05 0.00 0.00 5.28
284 331 4.705519 CGGCGGCCAAAGTTGCTG 62.706 66.667 20.71 0.00 38.16 4.41
285 332 4.362476 GGCGGCCAAAGTTGCTGG 62.362 66.667 15.62 0.00 35.60 4.85
286 333 4.362476 GCGGCCAAAGTTGCTGGG 62.362 66.667 2.24 0.00 35.60 4.45
287 334 2.597217 CGGCCAAAGTTGCTGGGA 60.597 61.111 2.24 0.00 34.25 4.37
288 335 2.919494 CGGCCAAAGTTGCTGGGAC 61.919 63.158 2.24 0.00 34.25 4.46
289 336 2.644992 GCCAAAGTTGCTGGGACG 59.355 61.111 0.00 0.00 34.25 4.79
291 338 2.644992 CAAAGTTGCTGGGACGCC 59.355 61.111 0.00 0.00 0.00 5.68
293 340 3.767630 AAAGTTGCTGGGACGCCGT 62.768 57.895 0.00 0.00 0.00 5.68
294 341 3.767630 AAGTTGCTGGGACGCCGTT 62.768 57.895 0.00 0.00 0.00 4.44
295 342 4.025401 GTTGCTGGGACGCCGTTG 62.025 66.667 0.00 0.00 0.00 4.10
299 346 4.096003 CTGGGACGCCGTTGGGAT 62.096 66.667 0.00 0.00 34.06 3.85
300 347 2.684294 TGGGACGCCGTTGGGATA 60.684 61.111 0.00 0.00 34.06 2.59
301 348 2.202974 GGGACGCCGTTGGGATAC 60.203 66.667 0.00 0.00 34.06 2.24
302 349 2.728435 GGGACGCCGTTGGGATACT 61.728 63.158 0.00 0.00 34.06 2.12
303 350 1.394266 GGGACGCCGTTGGGATACTA 61.394 60.000 0.00 0.00 34.06 1.82
304 351 0.249197 GGACGCCGTTGGGATACTAC 60.249 60.000 0.00 0.00 34.06 2.73
305 352 0.457035 GACGCCGTTGGGATACTACA 59.543 55.000 0.00 0.00 34.06 2.74
306 353 0.174162 ACGCCGTTGGGATACTACAC 59.826 55.000 0.00 0.00 34.06 2.90
307 354 0.529119 CGCCGTTGGGATACTACACC 60.529 60.000 0.00 0.00 34.06 4.16
308 355 0.828677 GCCGTTGGGATACTACACCT 59.171 55.000 0.00 0.00 34.06 4.00
309 356 1.472728 GCCGTTGGGATACTACACCTG 60.473 57.143 0.00 0.00 34.06 4.00
310 357 1.138266 CCGTTGGGATACTACACCTGG 59.862 57.143 0.00 0.00 34.06 4.45
311 358 1.472728 CGTTGGGATACTACACCTGGC 60.473 57.143 0.00 0.00 0.00 4.85
312 359 1.134189 GTTGGGATACTACACCTGGCC 60.134 57.143 0.00 0.00 0.00 5.36
313 360 1.046472 TGGGATACTACACCTGGCCG 61.046 60.000 0.00 0.00 0.00 6.13
314 361 1.069258 GGATACTACACCTGGCCGC 59.931 63.158 0.00 0.00 0.00 6.53
315 362 1.299926 GATACTACACCTGGCCGCG 60.300 63.158 0.00 0.00 0.00 6.46
316 363 1.731433 GATACTACACCTGGCCGCGA 61.731 60.000 8.23 0.00 0.00 5.87
317 364 2.012902 ATACTACACCTGGCCGCGAC 62.013 60.000 8.23 0.00 0.00 5.19
318 365 4.063967 CTACACCTGGCCGCGACA 62.064 66.667 8.23 5.32 0.00 4.35
319 366 3.583276 CTACACCTGGCCGCGACAA 62.583 63.158 8.23 0.00 0.00 3.18
320 367 3.869473 TACACCTGGCCGCGACAAC 62.869 63.158 8.23 0.00 0.00 3.32
322 369 4.988598 ACCTGGCCGCGACAACAG 62.989 66.667 8.23 9.97 0.00 3.16
323 370 4.680237 CCTGGCCGCGACAACAGA 62.680 66.667 8.23 0.00 32.86 3.41
324 371 2.664851 CTGGCCGCGACAACAGAA 60.665 61.111 8.23 0.00 32.86 3.02
325 372 2.954753 CTGGCCGCGACAACAGAAC 61.955 63.158 8.23 0.00 32.86 3.01
326 373 3.723348 GGCCGCGACAACAGAACC 61.723 66.667 8.23 0.00 0.00 3.62
327 374 4.072088 GCCGCGACAACAGAACCG 62.072 66.667 8.23 0.00 0.00 4.44
328 375 2.355363 CCGCGACAACAGAACCGA 60.355 61.111 8.23 0.00 0.00 4.69
329 376 2.654912 CCGCGACAACAGAACCGAC 61.655 63.158 8.23 0.00 0.00 4.79
330 377 2.844146 GCGACAACAGAACCGACG 59.156 61.111 0.00 0.00 0.00 5.12
331 378 1.659335 GCGACAACAGAACCGACGA 60.659 57.895 0.00 0.00 0.00 4.20
332 379 1.873355 GCGACAACAGAACCGACGAC 61.873 60.000 0.00 0.00 0.00 4.34
333 380 1.273455 CGACAACAGAACCGACGACC 61.273 60.000 0.00 0.00 0.00 4.79
334 381 0.249155 GACAACAGAACCGACGACCA 60.249 55.000 0.00 0.00 0.00 4.02
335 382 0.529119 ACAACAGAACCGACGACCAC 60.529 55.000 0.00 0.00 0.00 4.16
336 383 1.299620 AACAGAACCGACGACCACG 60.300 57.895 0.00 0.00 45.75 4.94
346 393 2.943653 CGACCACGTTTTCTGGGC 59.056 61.111 0.00 0.00 32.74 5.36
347 394 1.890041 CGACCACGTTTTCTGGGCA 60.890 57.895 0.00 0.00 36.46 5.36
348 395 1.234615 CGACCACGTTTTCTGGGCAT 61.235 55.000 0.00 0.00 36.46 4.40
349 396 0.521735 GACCACGTTTTCTGGGCATC 59.478 55.000 0.00 0.00 36.71 3.91
350 397 0.110486 ACCACGTTTTCTGGGCATCT 59.890 50.000 0.00 0.00 32.45 2.90
351 398 1.349688 ACCACGTTTTCTGGGCATCTA 59.650 47.619 0.00 0.00 32.45 1.98
352 399 2.026262 ACCACGTTTTCTGGGCATCTAT 60.026 45.455 0.00 0.00 32.45 1.98
353 400 3.199071 ACCACGTTTTCTGGGCATCTATA 59.801 43.478 0.00 0.00 32.45 1.31
354 401 3.809832 CCACGTTTTCTGGGCATCTATAG 59.190 47.826 0.00 0.00 0.00 1.31
355 402 3.809832 CACGTTTTCTGGGCATCTATAGG 59.190 47.826 0.00 0.00 0.00 2.57
356 403 3.709653 ACGTTTTCTGGGCATCTATAGGA 59.290 43.478 0.00 0.00 0.00 2.94
357 404 4.348168 ACGTTTTCTGGGCATCTATAGGAT 59.652 41.667 0.00 0.00 34.51 3.24
369 416 5.300752 CATCTATAGGATGTTGTGACCACC 58.699 45.833 0.00 0.00 44.88 4.61
370 417 3.709653 TCTATAGGATGTTGTGACCACCC 59.290 47.826 0.00 0.00 0.00 4.61
371 418 2.038863 TAGGATGTTGTGACCACCCT 57.961 50.000 0.00 0.00 0.00 4.34
372 419 2.038863 AGGATGTTGTGACCACCCTA 57.961 50.000 0.00 0.00 0.00 3.53
373 420 1.909302 AGGATGTTGTGACCACCCTAG 59.091 52.381 0.00 0.00 0.00 3.02
374 421 1.679032 GGATGTTGTGACCACCCTAGC 60.679 57.143 0.00 0.00 0.00 3.42
375 422 0.036388 ATGTTGTGACCACCCTAGCG 60.036 55.000 0.00 0.00 0.00 4.26
376 423 1.116536 TGTTGTGACCACCCTAGCGA 61.117 55.000 0.00 0.00 0.00 4.93
377 424 0.669625 GTTGTGACCACCCTAGCGAC 60.670 60.000 0.00 0.00 0.00 5.19
378 425 0.830444 TTGTGACCACCCTAGCGACT 60.830 55.000 0.00 0.00 0.00 4.18
379 426 1.215647 GTGACCACCCTAGCGACTG 59.784 63.158 0.00 0.00 0.00 3.51
380 427 2.184579 GACCACCCTAGCGACTGC 59.815 66.667 0.00 0.00 43.24 4.40
450 497 9.218359 GTTCGATTAAATAGGTTTTCCGATTTC 57.782 33.333 8.20 0.00 46.97 2.17
452 499 9.820725 TCGATTAAATAGGTTTTCCGATTTCTA 57.179 29.630 8.20 1.36 46.97 2.10
455 502 6.673154 AAATAGGTTTTCCGATTTCTACGG 57.327 37.500 0.00 0.00 46.97 4.02
456 503 6.175471 AAATAGGTTTTCCGATTTCTACGGT 58.825 36.000 0.00 0.00 46.97 4.83
457 504 7.330262 AAATAGGTTTTCCGATTTCTACGGTA 58.670 34.615 0.00 0.00 46.97 4.02
458 505 7.989170 AAATAGGTTTTCCGATTTCTACGGTAT 59.011 33.333 0.00 0.00 46.97 2.73
469 516 8.589629 CCGATTTCTACGGTATTAATATTTCGG 58.410 37.037 15.26 0.00 44.57 4.30
470 517 9.132521 CGATTTCTACGGTATTAATATTTCGGT 57.867 33.333 15.26 9.08 0.00 4.69
492 539 9.884636 TCGGTTATTAGAATGGTTATATCATGG 57.115 33.333 0.00 0.00 0.00 3.66
493 540 9.884636 CGGTTATTAGAATGGTTATATCATGGA 57.115 33.333 0.00 0.00 0.00 3.41
498 545 9.745018 ATTAGAATGGTTATATCATGGACCAAG 57.255 33.333 0.00 0.00 44.60 3.61
499 546 7.154191 AGAATGGTTATATCATGGACCAAGT 57.846 36.000 0.00 0.00 44.60 3.16
500 547 8.275187 AGAATGGTTATATCATGGACCAAGTA 57.725 34.615 0.00 0.00 44.60 2.24
501 548 8.157476 AGAATGGTTATATCATGGACCAAGTAC 58.843 37.037 0.00 0.00 44.60 2.73
502 549 6.816616 TGGTTATATCATGGACCAAGTACA 57.183 37.500 0.00 0.00 39.11 2.90
503 550 6.826668 TGGTTATATCATGGACCAAGTACAG 58.173 40.000 0.00 0.00 39.11 2.74
504 551 6.385759 TGGTTATATCATGGACCAAGTACAGT 59.614 38.462 0.00 0.00 39.11 3.55
505 552 7.565768 TGGTTATATCATGGACCAAGTACAGTA 59.434 37.037 0.00 0.00 39.11 2.74
506 553 8.426489 GGTTATATCATGGACCAAGTACAGTAA 58.574 37.037 0.00 0.00 26.04 2.24
507 554 9.477484 GTTATATCATGGACCAAGTACAGTAAG 57.523 37.037 0.00 0.00 26.04 2.34
508 555 7.676683 ATATCATGGACCAAGTACAGTAAGT 57.323 36.000 0.00 0.00 26.04 2.24
509 556 5.147330 TCATGGACCAAGTACAGTAAGTG 57.853 43.478 0.00 0.00 26.04 3.16
510 557 4.020573 TCATGGACCAAGTACAGTAAGTGG 60.021 45.833 0.00 8.65 35.39 4.00
511 558 3.311091 TGGACCAAGTACAGTAAGTGGT 58.689 45.455 13.95 13.95 45.23 4.16
512 559 4.482030 TGGACCAAGTACAGTAAGTGGTA 58.518 43.478 14.01 0.98 42.63 3.25
513 560 5.088730 TGGACCAAGTACAGTAAGTGGTAT 58.911 41.667 14.01 0.00 42.63 2.73
583 631 1.078848 AAGTCCTGGTGCTCGCATC 60.079 57.895 0.00 0.00 0.00 3.91
589 637 1.089112 CTGGTGCTCGCATCATTTCA 58.911 50.000 5.18 0.00 36.37 2.69
620 681 1.590238 CGATGCGCTTTCAGTAAGAGG 59.410 52.381 9.73 0.00 35.80 3.69
659 720 2.508663 GGCGCCTACGGTGACTTC 60.509 66.667 22.15 0.00 38.38 3.01
680 741 9.469807 GACTTCGTAAATCTCAAGATGATATGT 57.530 33.333 0.00 0.00 34.49 2.29
682 743 9.468532 CTTCGTAAATCTCAAGATGATATGTCA 57.531 33.333 0.00 0.00 39.04 3.58
683 744 9.816354 TTCGTAAATCTCAAGATGATATGTCAA 57.184 29.630 0.00 0.00 38.01 3.18
689 750 6.279123 TCTCAAGATGATATGTCAACTCAGC 58.721 40.000 2.73 0.00 36.58 4.26
715 776 3.075582 TCGGAGGTGCTTATAGGGATAGT 59.924 47.826 0.00 0.00 0.00 2.12
716 777 4.290459 TCGGAGGTGCTTATAGGGATAGTA 59.710 45.833 0.00 0.00 0.00 1.82
722 783 5.103000 GTGCTTATAGGGATAGTATGTGCG 58.897 45.833 0.00 0.00 0.00 5.34
730 791 2.267426 GATAGTATGTGCGTGTGTGCA 58.733 47.619 0.00 0.00 43.95 4.57
753 814 1.134699 CATAGGGATGAGTGTGTGCGT 60.135 52.381 0.00 0.00 34.73 5.24
780 841 0.734942 TAAGCGCTTGCGTCTGTACC 60.735 55.000 32.23 0.00 45.69 3.34
978 1153 3.839432 CCCTCGTCTCCTTCCGCC 61.839 72.222 0.00 0.00 0.00 6.13
1803 2025 0.327867 TGGAGGAGAAGGCCATGGAT 60.328 55.000 18.40 0.00 0.00 3.41
1911 2133 3.074538 ACCAAAGGTTAGAGGATGCACTT 59.925 43.478 0.00 0.00 27.29 3.16
1915 2137 5.763876 AAGGTTAGAGGATGCACTTAACT 57.236 39.130 0.00 0.00 0.00 2.24
2082 2304 2.125178 GGTACCGGATGTAGCAGCT 58.875 57.895 9.46 0.00 45.31 4.24
2119 2341 0.249911 GCATCTCGGGCTTAATCGGT 60.250 55.000 0.00 0.00 0.00 4.69
2140 2362 0.895530 GGTCGATGAACCAGAGGTGA 59.104 55.000 0.00 0.00 39.27 4.02
2164 2386 0.394192 CAAGGAGATGGGCGAGCATA 59.606 55.000 0.00 0.00 0.00 3.14
2171 2393 0.533755 ATGGGCGAGCATAGTCTTGC 60.534 55.000 0.00 0.00 43.09 4.01
2208 2430 2.827642 GTGCTGCTCATGGAGGCC 60.828 66.667 0.00 0.00 31.89 5.19
2216 2438 1.964552 CTCATGGAGGCCTGCTTTAG 58.035 55.000 25.93 15.69 0.00 1.85
2227 2449 1.493950 CTGCTTTAGGGCTGATCGCG 61.494 60.000 0.00 0.00 40.44 5.87
2244 2466 0.029035 GCGTCGACGATGGTATCAGT 59.971 55.000 39.74 0.00 43.02 3.41
2310 2532 6.336566 GTCTGCATATCATAGGATTGTCGAT 58.663 40.000 0.00 0.00 34.89 3.59
2319 2541 1.017387 GGATTGTCGATGGCTTGGTC 58.983 55.000 0.00 0.00 0.00 4.02
2334 2556 1.975660 TGGTCGGTTTAAGCTTGCTT 58.024 45.000 9.86 12.65 0.00 3.91
2355 2577 2.972713 TGACAAGGCTCAGGAGTACTTT 59.027 45.455 0.00 0.00 0.00 2.66
2473 2695 1.267806 CAGCCAAGGTAGCAAAGTGTG 59.732 52.381 0.00 0.00 0.00 3.82
2507 2729 5.132502 TGAGAATGTGGTTTTCAGTGATGT 58.867 37.500 0.00 0.00 0.00 3.06
2562 2784 0.549950 AGGGCAGGGAAGATGACATG 59.450 55.000 0.00 0.00 0.00 3.21
2629 2851 1.890894 CGGGCGGAAGAAGAGAAGA 59.109 57.895 0.00 0.00 0.00 2.87
2658 2880 4.500265 GCACTTGCCAGGGAAGAA 57.500 55.556 26.63 0.00 34.31 2.52
2703 2925 2.583593 GCTAAGGACGAGGCTGCG 60.584 66.667 0.00 0.00 37.29 5.18
2842 3064 1.003233 GGCCTCAGTTCACCTGGAC 60.003 63.158 0.00 0.00 41.83 4.02
2940 3162 1.738030 GCCATCTTGTCCTGCATTTGC 60.738 52.381 0.00 0.00 42.50 3.68
2964 3199 5.005740 TCTGAGCACTAGTCATGCATTTTT 58.994 37.500 0.00 0.00 45.92 1.94
2996 3231 7.550597 TTCTAGGAGCATCAATCTGTATGAT 57.449 36.000 0.00 0.00 38.02 2.45
3026 3262 7.338196 TGATGGCTATAAAGGTTTCGAATTTCA 59.662 33.333 0.00 0.00 0.00 2.69
3030 3266 7.309920 GCTATAAAGGTTTCGAATTTCAACCA 58.690 34.615 16.26 0.00 42.25 3.67
3090 3327 4.092091 GCATAGCAATAGAGCGATAACCAC 59.908 45.833 0.00 0.00 40.15 4.16
3195 3462 5.481200 CTGGAACTGCAAGATGAACTATG 57.519 43.478 0.00 0.00 37.43 2.23
3207 3474 6.497624 AGATGAACTATGGAAAGAGAGCAT 57.502 37.500 0.00 0.00 0.00 3.79
3212 3479 6.484643 TGAACTATGGAAAGAGAGCATAATGC 59.515 38.462 0.00 0.00 45.46 3.56
3222 3492 3.833706 GCATAATGCAAGAGTCGGC 57.166 52.632 0.00 3.22 44.26 5.54
3223 3493 0.308993 GCATAATGCAAGAGTCGGCC 59.691 55.000 0.00 0.00 44.26 6.13
3224 3494 1.667236 CATAATGCAAGAGTCGGCCA 58.333 50.000 2.24 0.00 0.00 5.36
3235 3505 4.040936 AGAGTCGGCCATACTATCTGAT 57.959 45.455 2.24 0.00 0.00 2.90
3240 3510 4.575236 GTCGGCCATACTATCTGATATCGA 59.425 45.833 2.24 0.00 0.00 3.59
3321 3591 7.640240 GCGTATATTGAGGAGAAACAATCAAAC 59.360 37.037 0.00 0.00 37.75 2.93
3332 3602 9.274065 GGAGAAACAATCAAACGTATGATAAAC 57.726 33.333 0.00 0.00 39.08 2.01
3336 3606 6.848451 ACAATCAAACGTATGATAAACCCAC 58.152 36.000 0.00 0.00 39.08 4.61
3369 3639 2.041620 TGAAAAGGCTACCAGAAGGCAT 59.958 45.455 0.00 0.00 44.19 4.40
3531 3801 5.853282 GGATTCTTCATCAACAAGAACAACG 59.147 40.000 0.00 0.00 41.55 4.10
3686 3956 5.271598 TCTGTCAAAATGCCCTCCATTATT 58.728 37.500 0.00 0.00 43.22 1.40
3704 3974 0.752009 TTGATCGTAGGCCTCTCGCT 60.752 55.000 9.68 7.52 37.74 4.93
3707 3977 3.955101 CGTAGGCCTCTCGCTCCG 61.955 72.222 9.68 0.00 37.74 4.63
3778 4048 9.853555 TTCAGTAATATGCAATTTTACCTTGTG 57.146 29.630 11.14 5.76 40.27 3.33
3867 4140 0.781787 TCTGACGCGAACAAATCACG 59.218 50.000 15.93 0.00 39.45 4.35
3893 4166 8.680903 GGACTAACATCATTCATCTTGAACAAT 58.319 33.333 0.00 0.00 39.45 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 124 1.621992 TTTAATCAACTTGGGGCGCA 58.378 45.000 10.83 0.00 0.00 6.09
84 129 5.390613 GTCGTCACATTTAATCAACTTGGG 58.609 41.667 0.00 0.00 0.00 4.12
116 163 0.109597 CGGACAGTTCCAGCAAATGC 60.110 55.000 0.00 0.00 43.00 3.56
117 164 0.523072 CCGGACAGTTCCAGCAAATG 59.477 55.000 0.00 0.00 43.00 2.32
118 165 1.244019 GCCGGACAGTTCCAGCAAAT 61.244 55.000 5.05 0.00 43.99 2.32
130 177 4.373116 GTTGAGGCGAGCCGGACA 62.373 66.667 5.05 7.88 41.95 4.02
134 181 4.421479 AGTCGTTGAGGCGAGCCG 62.421 66.667 8.63 0.00 41.85 5.52
155 202 0.676466 CAATTGTGCTAGCCCGTCCA 60.676 55.000 13.29 0.00 0.00 4.02
159 206 0.881118 ACAACAATTGTGCTAGCCCG 59.119 50.000 12.82 0.00 43.48 6.13
164 211 3.058570 CGCCAGTTACAACAATTGTGCTA 60.059 43.478 12.82 1.57 45.03 3.49
185 232 1.597027 GTCCCGATAACCATGGCCG 60.597 63.158 13.04 10.40 0.00 6.13
197 244 0.249447 GCATCATGTCATCGTCCCGA 60.249 55.000 0.00 0.00 41.13 5.14
210 257 0.604578 GTTGTGGGTTGCTGCATCAT 59.395 50.000 1.84 0.00 0.00 2.45
211 258 1.794151 CGTTGTGGGTTGCTGCATCA 61.794 55.000 1.84 0.00 0.00 3.07
224 271 2.094659 CCTAGCAGTCGCCGTTGTG 61.095 63.158 0.00 0.00 39.83 3.33
229 276 4.554363 CGGTCCTAGCAGTCGCCG 62.554 72.222 0.00 0.00 39.83 6.46
231 278 2.102553 GTCGGTCCTAGCAGTCGC 59.897 66.667 0.00 0.00 38.99 5.19
244 291 0.518636 CCAGCAATTGTGTCAGTCGG 59.481 55.000 7.40 0.00 0.00 4.79
245 292 1.511850 TCCAGCAATTGTGTCAGTCG 58.488 50.000 7.40 0.00 0.00 4.18
251 298 1.805428 GCCGGTTCCAGCAATTGTGT 61.805 55.000 7.40 0.00 0.00 3.72
269 316 4.362476 CCCAGCAACTTTGGCCGC 62.362 66.667 0.00 0.00 34.26 6.53
282 329 2.727392 TATCCCAACGGCGTCCCAG 61.727 63.158 15.17 3.72 0.00 4.45
283 330 2.684294 TATCCCAACGGCGTCCCA 60.684 61.111 15.17 0.00 0.00 4.37
284 331 1.394266 TAGTATCCCAACGGCGTCCC 61.394 60.000 15.17 0.00 0.00 4.46
285 332 0.249197 GTAGTATCCCAACGGCGTCC 60.249 60.000 15.17 0.00 0.00 4.79
286 333 0.457035 TGTAGTATCCCAACGGCGTC 59.543 55.000 15.17 0.00 0.00 5.19
287 334 0.174162 GTGTAGTATCCCAACGGCGT 59.826 55.000 6.77 6.77 0.00 5.68
288 335 0.529119 GGTGTAGTATCCCAACGGCG 60.529 60.000 4.80 4.80 0.00 6.46
289 336 0.828677 AGGTGTAGTATCCCAACGGC 59.171 55.000 0.00 0.00 0.00 5.68
291 338 1.472728 GCCAGGTGTAGTATCCCAACG 60.473 57.143 0.00 0.00 0.00 4.10
293 340 1.209621 GGCCAGGTGTAGTATCCCAA 58.790 55.000 0.00 0.00 0.00 4.12
294 341 1.046472 CGGCCAGGTGTAGTATCCCA 61.046 60.000 2.24 0.00 0.00 4.37
295 342 1.746517 CGGCCAGGTGTAGTATCCC 59.253 63.158 2.24 0.00 0.00 3.85
296 343 1.069258 GCGGCCAGGTGTAGTATCC 59.931 63.158 2.24 0.00 0.00 2.59
297 344 1.299926 CGCGGCCAGGTGTAGTATC 60.300 63.158 2.24 0.00 0.00 2.24
298 345 1.755395 TCGCGGCCAGGTGTAGTAT 60.755 57.895 6.13 0.00 0.00 2.12
299 346 2.361483 TCGCGGCCAGGTGTAGTA 60.361 61.111 6.13 0.00 0.00 1.82
300 347 4.065281 GTCGCGGCCAGGTGTAGT 62.065 66.667 6.13 0.00 0.00 2.73
301 348 3.583276 TTGTCGCGGCCAGGTGTAG 62.583 63.158 8.89 0.00 0.00 2.74
302 349 3.617735 TTGTCGCGGCCAGGTGTA 61.618 61.111 8.89 0.00 0.00 2.90
305 352 4.988598 CTGTTGTCGCGGCCAGGT 62.989 66.667 8.89 0.00 0.00 4.00
306 353 4.680237 TCTGTTGTCGCGGCCAGG 62.680 66.667 8.89 0.00 0.00 4.45
307 354 2.664851 TTCTGTTGTCGCGGCCAG 60.665 61.111 8.89 9.72 0.00 4.85
308 355 2.970324 GTTCTGTTGTCGCGGCCA 60.970 61.111 8.89 0.86 0.00 5.36
309 356 3.723348 GGTTCTGTTGTCGCGGCC 61.723 66.667 8.89 0.00 0.00 6.13
310 357 4.072088 CGGTTCTGTTGTCGCGGC 62.072 66.667 2.29 2.29 0.00 6.53
311 358 2.355363 TCGGTTCTGTTGTCGCGG 60.355 61.111 6.13 0.00 0.00 6.46
312 359 2.844146 GTCGGTTCTGTTGTCGCG 59.156 61.111 0.00 0.00 0.00 5.87
313 360 1.659335 TCGTCGGTTCTGTTGTCGC 60.659 57.895 0.00 0.00 0.00 5.19
314 361 1.273455 GGTCGTCGGTTCTGTTGTCG 61.273 60.000 0.00 0.00 0.00 4.35
315 362 0.249155 TGGTCGTCGGTTCTGTTGTC 60.249 55.000 0.00 0.00 0.00 3.18
316 363 0.529119 GTGGTCGTCGGTTCTGTTGT 60.529 55.000 0.00 0.00 0.00 3.32
317 364 1.545614 CGTGGTCGTCGGTTCTGTTG 61.546 60.000 0.00 0.00 0.00 3.33
318 365 1.299620 CGTGGTCGTCGGTTCTGTT 60.300 57.895 0.00 0.00 0.00 3.16
319 366 2.333938 CGTGGTCGTCGGTTCTGT 59.666 61.111 0.00 0.00 0.00 3.41
329 376 1.234615 ATGCCCAGAAAACGTGGTCG 61.235 55.000 0.00 0.00 43.34 4.79
330 377 0.521735 GATGCCCAGAAAACGTGGTC 59.478 55.000 0.00 0.00 32.62 4.02
331 378 0.110486 AGATGCCCAGAAAACGTGGT 59.890 50.000 0.00 0.00 32.62 4.16
332 379 2.107950 TAGATGCCCAGAAAACGTGG 57.892 50.000 0.00 0.00 34.52 4.94
333 380 3.809832 CCTATAGATGCCCAGAAAACGTG 59.190 47.826 0.00 0.00 0.00 4.49
334 381 3.709653 TCCTATAGATGCCCAGAAAACGT 59.290 43.478 0.00 0.00 0.00 3.99
335 382 4.336889 TCCTATAGATGCCCAGAAAACG 57.663 45.455 0.00 0.00 0.00 3.60
347 394 4.348168 GGGTGGTCACAACATCCTATAGAT 59.652 45.833 0.00 0.00 36.18 1.98
348 395 3.709653 GGGTGGTCACAACATCCTATAGA 59.290 47.826 0.00 0.00 36.18 1.98
349 396 4.073293 GGGTGGTCACAACATCCTATAG 57.927 50.000 3.40 0.00 36.18 1.31
353 400 2.868504 AGGGTGGTCACAACATCCT 58.131 52.632 3.40 0.00 44.50 3.24
354 401 1.679032 GCTAGGGTGGTCACAACATCC 60.679 57.143 3.40 0.00 39.47 3.51
355 402 1.739067 GCTAGGGTGGTCACAACATC 58.261 55.000 3.40 0.00 35.45 3.06
356 403 0.036388 CGCTAGGGTGGTCACAACAT 60.036 55.000 3.40 0.00 35.45 2.71
357 404 1.116536 TCGCTAGGGTGGTCACAACA 61.117 55.000 6.70 0.00 35.45 3.33
358 405 0.669625 GTCGCTAGGGTGGTCACAAC 60.670 60.000 6.70 0.00 0.00 3.32
359 406 0.830444 AGTCGCTAGGGTGGTCACAA 60.830 55.000 6.70 0.00 0.00 3.33
360 407 1.228769 AGTCGCTAGGGTGGTCACA 60.229 57.895 6.70 0.00 0.00 3.58
361 408 1.215647 CAGTCGCTAGGGTGGTCAC 59.784 63.158 6.70 0.00 0.00 3.67
362 409 2.646175 GCAGTCGCTAGGGTGGTCA 61.646 63.158 6.70 0.00 34.30 4.02
363 410 2.184579 GCAGTCGCTAGGGTGGTC 59.815 66.667 6.70 0.00 34.30 4.02
373 420 1.812922 CACTCATCCCAGCAGTCGC 60.813 63.158 0.00 0.00 38.99 5.19
374 421 0.817654 TACACTCATCCCAGCAGTCG 59.182 55.000 0.00 0.00 0.00 4.18
375 422 2.234908 AGTTACACTCATCCCAGCAGTC 59.765 50.000 0.00 0.00 0.00 3.51
376 423 2.234908 GAGTTACACTCATCCCAGCAGT 59.765 50.000 0.00 0.00 44.45 4.40
377 424 2.898705 GAGTTACACTCATCCCAGCAG 58.101 52.381 0.00 0.00 44.45 4.24
466 513 9.884636 CCATGATATAACCATTCTAATAACCGA 57.115 33.333 0.00 0.00 0.00 4.69
467 514 9.884636 TCCATGATATAACCATTCTAATAACCG 57.115 33.333 0.00 0.00 0.00 4.44
472 519 9.745018 CTTGGTCCATGATATAACCATTCTAAT 57.255 33.333 0.00 0.00 41.23 1.73
473 520 8.723365 ACTTGGTCCATGATATAACCATTCTAA 58.277 33.333 11.60 0.00 41.23 2.10
474 521 8.275187 ACTTGGTCCATGATATAACCATTCTA 57.725 34.615 11.60 0.00 41.23 2.10
475 522 7.154191 ACTTGGTCCATGATATAACCATTCT 57.846 36.000 11.60 0.00 41.23 2.40
476 523 7.936847 TGTACTTGGTCCATGATATAACCATTC 59.063 37.037 11.60 0.00 41.23 2.67
477 524 7.811282 TGTACTTGGTCCATGATATAACCATT 58.189 34.615 11.60 0.00 41.23 3.16
478 525 7.072454 ACTGTACTTGGTCCATGATATAACCAT 59.928 37.037 11.60 0.00 41.23 3.55
479 526 6.385759 ACTGTACTTGGTCCATGATATAACCA 59.614 38.462 11.60 0.00 39.96 3.67
480 527 6.827727 ACTGTACTTGGTCCATGATATAACC 58.172 40.000 11.60 0.00 0.00 2.85
481 528 9.477484 CTTACTGTACTTGGTCCATGATATAAC 57.523 37.037 11.60 2.98 0.00 1.89
482 529 9.209048 ACTTACTGTACTTGGTCCATGATATAA 57.791 33.333 11.60 2.93 0.00 0.98
483 530 8.638873 CACTTACTGTACTTGGTCCATGATATA 58.361 37.037 11.60 0.00 0.00 0.86
484 531 7.419057 CCACTTACTGTACTTGGTCCATGATAT 60.419 40.741 11.60 0.00 0.00 1.63
485 532 6.127168 CCACTTACTGTACTTGGTCCATGATA 60.127 42.308 11.60 0.00 0.00 2.15
486 533 5.338381 CCACTTACTGTACTTGGTCCATGAT 60.338 44.000 11.60 0.00 0.00 2.45
487 534 4.020573 CCACTTACTGTACTTGGTCCATGA 60.021 45.833 11.60 0.00 0.00 3.07
488 535 4.253685 CCACTTACTGTACTTGGTCCATG 58.746 47.826 3.21 3.21 0.00 3.66
489 536 3.908103 ACCACTTACTGTACTTGGTCCAT 59.092 43.478 11.92 0.00 35.60 3.41
490 537 3.311091 ACCACTTACTGTACTTGGTCCA 58.689 45.455 11.92 0.00 35.60 4.02
491 538 5.394993 GGATACCACTTACTGTACTTGGTCC 60.395 48.000 18.34 12.85 41.00 4.46
492 539 5.421374 AGGATACCACTTACTGTACTTGGTC 59.579 44.000 18.34 8.94 41.00 4.02
493 540 5.187186 CAGGATACCACTTACTGTACTTGGT 59.813 44.000 18.66 18.66 43.17 3.67
494 541 5.187186 ACAGGATACCACTTACTGTACTTGG 59.813 44.000 10.87 10.87 40.31 3.61
495 542 6.100004 CACAGGATACCACTTACTGTACTTG 58.900 44.000 0.00 0.00 40.14 3.16
496 543 5.187186 CCACAGGATACCACTTACTGTACTT 59.813 44.000 0.00 0.00 40.14 2.24
497 544 4.710375 CCACAGGATACCACTTACTGTACT 59.290 45.833 0.00 0.00 40.14 2.73
498 545 4.465305 ACCACAGGATACCACTTACTGTAC 59.535 45.833 0.00 0.00 40.14 2.90
499 546 4.680407 ACCACAGGATACCACTTACTGTA 58.320 43.478 0.00 0.00 40.14 2.74
500 547 3.517612 ACCACAGGATACCACTTACTGT 58.482 45.455 0.00 0.00 42.62 3.55
501 548 4.253685 CAACCACAGGATACCACTTACTG 58.746 47.826 0.00 0.00 35.40 2.74
502 549 3.263425 CCAACCACAGGATACCACTTACT 59.737 47.826 0.00 0.00 37.17 2.24
503 550 3.262405 TCCAACCACAGGATACCACTTAC 59.738 47.826 0.00 0.00 37.17 2.34
504 551 3.522759 TCCAACCACAGGATACCACTTA 58.477 45.455 0.00 0.00 37.17 2.24
505 552 2.344592 TCCAACCACAGGATACCACTT 58.655 47.619 0.00 0.00 37.17 3.16
506 553 2.038863 TCCAACCACAGGATACCACT 57.961 50.000 0.00 0.00 37.17 4.00
507 554 2.643551 CATCCAACCACAGGATACCAC 58.356 52.381 0.00 0.00 43.90 4.16
508 555 1.563879 CCATCCAACCACAGGATACCA 59.436 52.381 0.00 0.00 43.90 3.25
509 556 1.564348 ACCATCCAACCACAGGATACC 59.436 52.381 0.00 0.00 43.90 2.73
510 557 3.709653 TCTACCATCCAACCACAGGATAC 59.290 47.826 0.00 0.00 43.90 2.24
511 558 4.002256 TCTACCATCCAACCACAGGATA 57.998 45.455 0.00 0.00 43.90 2.59
512 559 2.845659 TCTACCATCCAACCACAGGAT 58.154 47.619 0.00 0.00 46.61 3.24
513 560 2.335681 TCTACCATCCAACCACAGGA 57.664 50.000 0.00 0.00 39.97 3.86
583 631 1.378531 TCGCCGGAAATCCTGAAATG 58.621 50.000 5.05 0.00 0.00 2.32
589 637 2.588877 CGCATCGCCGGAAATCCT 60.589 61.111 5.05 0.00 0.00 3.24
659 720 9.254133 AGTTGACATATCATCTTGAGATTTACG 57.746 33.333 0.00 0.00 31.96 3.18
704 765 5.048294 CACACACGCACATACTATCCCTATA 60.048 44.000 0.00 0.00 0.00 1.31
715 776 1.517242 TGAATGCACACACGCACATA 58.483 45.000 0.00 0.00 46.56 2.29
716 777 0.883153 ATGAATGCACACACGCACAT 59.117 45.000 0.00 0.00 46.56 3.21
722 783 3.544684 TCATCCCTATGAATGCACACAC 58.455 45.455 0.00 0.00 39.20 3.82
730 791 3.742327 CGCACACACTCATCCCTATGAAT 60.742 47.826 0.00 0.00 41.57 2.57
753 814 2.792674 GACGCAAGCGCTTATACATACA 59.207 45.455 24.55 0.00 44.19 2.29
832 895 7.154191 ACTTGGTCCATGATATAACCATTCT 57.846 36.000 11.60 0.00 41.23 2.40
898 1072 4.927782 TTGGCACTTCGCAGCGGT 62.928 61.111 16.42 2.36 45.17 5.68
906 1080 2.262423 AGGAACAGAGTTGGCACTTC 57.738 50.000 0.00 0.00 31.22 3.01
1529 1750 4.778415 CGAGGCACCTGACGACGG 62.778 72.222 0.00 0.00 0.00 4.79
1803 2025 2.037251 AGCGAAGACCTCTTTGTAGCAA 59.963 45.455 4.54 0.00 39.12 3.91
1911 2133 4.213270 CCAAGCATTCTGTCGAACAAGTTA 59.787 41.667 0.00 0.00 30.67 2.24
1915 2137 1.879380 CCCAAGCATTCTGTCGAACAA 59.121 47.619 0.00 0.00 30.67 2.83
2082 2304 5.185454 AGATGCCGAATCAGATTGTTGTAA 58.815 37.500 0.00 0.00 37.81 2.41
2130 2352 0.987294 CCTTGTGGATCACCTCTGGT 59.013 55.000 0.00 0.00 37.04 4.00
2131 2353 1.209019 CTCCTTGTGGATCACCTCTGG 59.791 57.143 0.00 0.00 42.29 3.86
2140 2362 0.982852 TCGCCCATCTCCTTGTGGAT 60.983 55.000 0.00 0.00 42.29 3.41
2164 2386 1.207570 CTCCTCATCAGCAGCAAGACT 59.792 52.381 0.00 0.00 0.00 3.24
2171 2393 2.093606 ACACATGTCTCCTCATCAGCAG 60.094 50.000 0.00 0.00 0.00 4.24
2175 2397 1.904537 AGCACACATGTCTCCTCATCA 59.095 47.619 0.00 0.00 0.00 3.07
2208 2430 1.493950 CGCGATCAGCCCTAAAGCAG 61.494 60.000 0.00 0.00 44.76 4.24
2227 2449 4.548991 AGTAACTGATACCATCGTCGAC 57.451 45.455 5.18 5.18 34.89 4.20
2244 2466 3.849911 CTCAGCCATTCTGTCGAAGTAA 58.150 45.455 0.00 0.00 43.32 2.24
2286 2508 5.714047 TCGACAATCCTATGATATGCAGAC 58.286 41.667 0.00 0.00 0.00 3.51
2289 2511 5.422145 CCATCGACAATCCTATGATATGCA 58.578 41.667 0.00 0.00 0.00 3.96
2290 2512 4.272018 GCCATCGACAATCCTATGATATGC 59.728 45.833 0.00 0.00 0.00 3.14
2291 2513 5.668471 AGCCATCGACAATCCTATGATATG 58.332 41.667 0.00 0.00 0.00 1.78
2292 2514 5.946942 AGCCATCGACAATCCTATGATAT 57.053 39.130 0.00 0.00 0.00 1.63
2304 2526 2.107041 AACCGACCAAGCCATCGACA 62.107 55.000 0.00 0.00 40.86 4.35
2310 2532 0.109723 AGCTTAAACCGACCAAGCCA 59.890 50.000 2.13 0.00 44.57 4.75
2319 2541 3.300009 CTTGTCAAGCAAGCTTAAACCG 58.700 45.455 7.03 0.00 46.68 4.44
2334 2556 2.310779 AGTACTCCTGAGCCTTGTCA 57.689 50.000 0.00 0.00 0.00 3.58
2355 2577 3.695357 TCCTTCTCCCTCATCTGATCA 57.305 47.619 0.00 0.00 0.00 2.92
2473 2695 4.082125 ACCACATTCTCATCCAAAAGGAC 58.918 43.478 0.00 0.00 0.00 3.85
2507 2729 1.836166 CTTCCAGAAGCTCCCTCATCA 59.164 52.381 0.00 0.00 0.00 3.07
2562 2784 2.076863 ACGTCTTCATACAGCTTTGCC 58.923 47.619 0.00 0.00 0.00 4.52
2629 2851 2.925170 AAGTGCCTCTGCCCTCGT 60.925 61.111 0.00 0.00 36.33 4.18
2688 2910 4.143333 GCCGCAGCCTCGTCCTTA 62.143 66.667 0.00 0.00 0.00 2.69
2940 3162 2.955477 TGCATGACTAGTGCTCAGAG 57.045 50.000 0.00 0.00 42.92 3.35
2952 3174 7.800380 CCTAGAATCGATACAAAAATGCATGAC 59.200 37.037 0.00 0.00 0.00 3.06
2955 3177 7.308229 GCTCCTAGAATCGATACAAAAATGCAT 60.308 37.037 0.00 0.00 0.00 3.96
2964 3199 6.435591 AGATTGATGCTCCTAGAATCGATACA 59.564 38.462 0.00 0.00 35.02 2.29
2996 3231 5.362717 TCGAAACCTTTATAGCCATCAGAGA 59.637 40.000 0.00 0.00 0.00 3.10
3042 3278 5.297547 TCAATCACAGTTACACAAGGTCTC 58.702 41.667 0.00 0.00 0.00 3.36
3090 3327 5.756833 TCCATGACAATTCATCAAGATCTCG 59.243 40.000 0.00 0.00 40.79 4.04
3161 3398 3.019564 GCAGTTCCAGCCAGAAATACAT 58.980 45.455 0.00 0.00 0.00 2.29
3170 3437 0.401356 TCATCTTGCAGTTCCAGCCA 59.599 50.000 0.00 0.00 0.00 4.75
3185 3452 8.719648 CATTATGCTCTCTTTCCATAGTTCATC 58.280 37.037 0.00 0.00 0.00 2.92
3187 3454 6.484643 GCATTATGCTCTCTTTCCATAGTTCA 59.515 38.462 10.27 0.00 40.96 3.18
3194 3461 4.847198 TCTTGCATTATGCTCTCTTTCCA 58.153 39.130 18.44 0.00 45.31 3.53
3195 3462 4.880696 ACTCTTGCATTATGCTCTCTTTCC 59.119 41.667 18.44 0.00 45.31 3.13
3207 3474 2.434336 AGTATGGCCGACTCTTGCATTA 59.566 45.455 4.29 0.00 0.00 1.90
3212 3479 3.570125 TCAGATAGTATGGCCGACTCTTG 59.430 47.826 13.14 10.32 0.00 3.02
3213 3480 3.833732 TCAGATAGTATGGCCGACTCTT 58.166 45.455 13.14 3.45 0.00 2.85
3217 3484 4.575236 TCGATATCAGATAGTATGGCCGAC 59.425 45.833 3.12 0.00 0.00 4.79
3220 3487 6.127591 ACAGTTCGATATCAGATAGTATGGCC 60.128 42.308 3.12 0.00 0.00 5.36
3222 3492 9.168451 AGTACAGTTCGATATCAGATAGTATGG 57.832 37.037 3.12 0.00 0.00 2.74
3235 3505 7.153217 TCACAGAATGAAGTACAGTTCGATA 57.847 36.000 0.00 0.00 39.69 2.92
3321 3591 4.211374 GCTAAGCTGTGGGTTTATCATACG 59.789 45.833 0.00 0.00 34.76 3.06
3369 3639 1.134250 TGCAGTATCATTTGCCGGCTA 60.134 47.619 29.70 19.10 39.54 3.93
3531 3801 5.843969 AGGAGAGGGGAAAGAGAAGATAATC 59.156 44.000 0.00 0.00 0.00 1.75
3686 3956 1.152943 AGCGAGAGGCCTACGATCA 60.153 57.895 28.21 0.00 45.17 2.92
3778 4048 7.495606 AGAAATGTGTTTGTTCATTTTTCCTCC 59.504 33.333 0.00 0.00 42.05 4.30
3834 4107 6.586868 TCGCGTCAGAAGTTTTAACTAAAA 57.413 33.333 5.77 0.00 38.57 1.52
3842 4115 3.750639 TTTGTTCGCGTCAGAAGTTTT 57.249 38.095 5.77 0.00 0.00 2.43
3854 4127 2.477375 TGTTAGTCCGTGATTTGTTCGC 59.523 45.455 0.00 0.00 0.00 4.70
3867 4140 7.615582 TGTTCAAGATGAATGATGTTAGTCC 57.384 36.000 0.00 0.00 38.79 3.85


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

AutoCloner maintained by Alex Coulton.