Multiple sequence alignment - TraesCS7B01G007700

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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 TraesCS7B01G007700 chr7B 100.000 2204 0 0 1 2204 4203321 4201118 0.000000e+00 4071
1 TraesCS7B01G007700 chr7B 91.456 515 33 3 803 1316 4138010 4137506 0.000000e+00 697
2 TraesCS7B01G007700 chr7B 93.353 331 19 3 381 710 553088775 553088447 9.150000e-134 486
3 TraesCS7B01G007700 chr7B 89.595 173 18 0 801 973 4140555 4140383 1.020000e-53 220
4 TraesCS7B01G007700 chr7B 82.394 142 20 3 2051 2191 438884776 438884639 3.840000e-23 119
5 TraesCS7B01G007700 chr7A 86.851 1521 119 43 708 2204 66615300 66613837 0.000000e+00 1626
6 TraesCS7B01G007700 chr7A 92.664 518 31 5 803 1317 66447076 66446563 0.000000e+00 739
7 TraesCS7B01G007700 chr7A 85.960 349 26 10 40 367 66615644 66615298 3.480000e-93 351
8 TraesCS7B01G007700 chr7A 88.722 133 13 2 1 132 398922417 398922286 6.300000e-36 161
9 TraesCS7B01G007700 chr7D 93.750 960 46 8 700 1646 63648554 63647596 0.000000e+00 1428
10 TraesCS7B01G007700 chr7D 92.650 517 33 2 802 1317 63611810 63611298 0.000000e+00 739
11 TraesCS7B01G007700 chr3B 96.066 305 12 0 392 696 766049705 766049401 4.230000e-137 497
12 TraesCS7B01G007700 chr3B 94.062 320 16 3 378 696 47745126 47745443 1.180000e-132 483
13 TraesCS7B01G007700 chr3B 87.179 117 15 0 2085 2201 373130458 373130342 1.370000e-27 134
14 TraesCS7B01G007700 chr5B 94.410 322 16 1 379 700 270632219 270632538 5.470000e-136 494
15 TraesCS7B01G007700 chr6A 95.161 310 15 0 391 700 181910153 181909844 7.070000e-135 490
16 TraesCS7B01G007700 chr6A 89.423 104 9 2 1216 1317 74421034 74420931 1.780000e-26 130
17 TraesCS7B01G007700 chr2D 95.440 307 14 0 391 697 646607502 646607808 7.070000e-135 490
18 TraesCS7B01G007700 chr2D 86.842 114 14 1 2076 2189 572365877 572365989 2.300000e-25 126
19 TraesCS7B01G007700 chr4B 95.425 306 14 0 392 697 40215532 40215227 2.540000e-134 488
20 TraesCS7B01G007700 chr2B 94.872 312 15 1 385 696 531144951 531145261 9.150000e-134 486
21 TraesCS7B01G007700 chr2B 86.555 119 14 2 2085 2202 411878341 411878224 1.780000e-26 130
22 TraesCS7B01G007700 chr1B 94.322 317 17 1 392 708 589545393 589545708 3.290000e-133 484
23 TraesCS7B01G007700 chr1B 90.722 194 18 0 1012 1205 15530913 15530720 2.170000e-65 259
24 TraesCS7B01G007700 chr1D 89.655 203 21 0 1009 1211 10390614 10390816 2.170000e-65 259
25 TraesCS7B01G007700 chr1D 90.000 100 9 1 6 105 394843981 394843883 6.390000e-26 128
26 TraesCS7B01G007700 chr1A 90.306 196 19 0 1009 1204 12129624 12129819 7.810000e-65 257
27 TraesCS7B01G007700 chr1A 86.700 203 27 0 1009 1211 12109360 12109562 2.200000e-55 226
28 TraesCS7B01G007700 chr3D 88.034 117 14 0 2085 2201 277139920 277140036 2.950000e-29 139
29 TraesCS7B01G007700 chr3D 79.793 193 35 4 2011 2202 305878622 305878811 1.060000e-28 137
30 TraesCS7B01G007700 chr6D 79.787 188 36 2 2014 2201 27224853 27224668 3.820000e-28 135
31 TraesCS7B01G007700 chr6B 83.221 149 24 1 2053 2201 49894259 49894112 3.820000e-28 135
32 TraesCS7B01G007700 chr4D 87.156 109 14 0 2078 2186 483861644 483861536 8.260000e-25 124


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 TraesCS7B01G007700 chr7B 4201118 4203321 2203 True 4071.0 4071 100.0000 1 2204 1 chr7B.!!$R1 2203
1 TraesCS7B01G007700 chr7B 4137506 4140555 3049 True 458.5 697 90.5255 801 1316 2 chr7B.!!$R4 515
2 TraesCS7B01G007700 chr7A 66613837 66615644 1807 True 988.5 1626 86.4055 40 2204 2 chr7A.!!$R3 2164
3 TraesCS7B01G007700 chr7A 66446563 66447076 513 True 739.0 739 92.6640 803 1317 1 chr7A.!!$R1 514
4 TraesCS7B01G007700 chr7D 63647596 63648554 958 True 1428.0 1428 93.7500 700 1646 1 chr7D.!!$R2 946
5 TraesCS7B01G007700 chr7D 63611298 63611810 512 True 739.0 739 92.6500 802 1317 1 chr7D.!!$R1 515

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
470 492 0.035152 TCAAATCCTGGTGCTCGCAT 60.035 50.0 0.0 0.0 0.0 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1735 3524 0.175989 GTCGGGGAAGCTAGGTCTTG 59.824 60.0 0.0 0.0 0.0 3.02 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
28 29 7.940178 GTTCAAAGAAAATGAACCCGTTTAT 57.060 32.000 7.92 0.00 46.94 1.40
30 31 7.278461 TCAAAGAAAATGAACCCGTTTATGA 57.722 32.000 0.00 0.00 31.66 2.15
31 32 7.367285 TCAAAGAAAATGAACCCGTTTATGAG 58.633 34.615 0.00 0.00 31.66 2.90
87 88 1.366679 GAAGACCGGATCGAAAACCC 58.633 55.000 9.46 0.00 0.00 4.11
110 111 6.039829 CCCTTGATCCAGTTTATAAGAAAGCC 59.960 42.308 0.00 0.00 0.00 4.35
129 130 3.393278 AGCCGTACCCAAATACCATACAT 59.607 43.478 0.00 0.00 0.00 2.29
132 133 4.041198 CCGTACCCAAATACCATACATCCT 59.959 45.833 0.00 0.00 0.00 3.24
152 153 3.004106 CCTGACAGGCAAAGAACAGAAAG 59.996 47.826 8.99 0.00 0.00 2.62
155 156 3.620488 ACAGGCAAAGAACAGAAAGACA 58.380 40.909 0.00 0.00 0.00 3.41
156 157 4.210331 ACAGGCAAAGAACAGAAAGACAT 58.790 39.130 0.00 0.00 0.00 3.06
217 238 0.329596 AGGTTTGGAGGAGCATCACC 59.670 55.000 0.00 0.00 36.25 4.02
218 239 1.026718 GGTTTGGAGGAGCATCACCG 61.027 60.000 0.00 0.00 36.21 4.94
226 247 3.987404 AGCATCACCGGTTGCTTC 58.013 55.556 24.88 5.35 45.42 3.86
254 275 2.476199 AGAAGGCAGGACTAGCAAGAT 58.524 47.619 0.00 0.00 0.00 2.40
262 283 5.178797 GCAGGACTAGCAAGATAACAAAGA 58.821 41.667 0.00 0.00 0.00 2.52
283 304 9.495754 CAAAGAGACAAAATAGATTCCGAATTC 57.504 33.333 0.00 0.00 0.00 2.17
303 325 9.157259 CGAATTCAAAAATTGTTGATTGGTTTC 57.843 29.630 11.86 9.17 37.36 2.78
367 389 5.620654 CGCTACATTATTTAGCCGCTAGGTA 60.621 44.000 4.98 0.00 39.08 3.08
368 390 6.338937 GCTACATTATTTAGCCGCTAGGTAT 58.661 40.000 0.00 0.00 40.50 2.73
369 391 6.255887 GCTACATTATTTAGCCGCTAGGTATG 59.744 42.308 0.00 6.34 40.50 2.39
370 392 6.110411 ACATTATTTAGCCGCTAGGTATGT 57.890 37.500 0.00 6.88 40.50 2.29
371 393 6.531021 ACATTATTTAGCCGCTAGGTATGTT 58.469 36.000 0.00 0.00 40.50 2.71
372 394 7.673180 ACATTATTTAGCCGCTAGGTATGTTA 58.327 34.615 0.00 0.00 40.50 2.41
373 395 7.601508 ACATTATTTAGCCGCTAGGTATGTTAC 59.398 37.037 0.00 0.00 40.50 2.50
374 396 5.803237 ATTTAGCCGCTAGGTATGTTACT 57.197 39.130 0.00 0.00 40.50 2.24
375 397 4.843220 TTAGCCGCTAGGTATGTTACTC 57.157 45.455 0.00 0.00 40.50 2.59
376 398 2.946785 AGCCGCTAGGTATGTTACTCT 58.053 47.619 0.00 0.00 40.50 3.24
377 399 4.096190 AGCCGCTAGGTATGTTACTCTA 57.904 45.455 0.00 0.00 40.50 2.43
378 400 4.467769 AGCCGCTAGGTATGTTACTCTAA 58.532 43.478 0.00 0.00 40.50 2.10
379 401 5.078256 AGCCGCTAGGTATGTTACTCTAAT 58.922 41.667 0.00 0.00 40.50 1.73
380 402 5.047943 AGCCGCTAGGTATGTTACTCTAATG 60.048 44.000 0.00 0.00 40.50 1.90
381 403 5.710984 CCGCTAGGTATGTTACTCTAATGG 58.289 45.833 0.00 0.00 0.00 3.16
382 404 5.336531 CCGCTAGGTATGTTACTCTAATGGG 60.337 48.000 0.00 0.00 0.00 4.00
383 405 5.480205 GCTAGGTATGTTACTCTAATGGGC 58.520 45.833 0.00 0.00 0.00 5.36
384 406 4.976540 AGGTATGTTACTCTAATGGGCC 57.023 45.455 0.00 0.00 0.00 5.80
385 407 3.323979 AGGTATGTTACTCTAATGGGCCG 59.676 47.826 0.00 0.00 0.00 6.13
387 409 0.179468 TGTTACTCTAATGGGCCGGC 59.821 55.000 21.18 21.18 0.00 6.13
389 411 2.035237 TTACTCTAATGGGCCGGCGG 62.035 60.000 24.35 24.35 0.00 6.13
390 412 3.861797 CTCTAATGGGCCGGCGGT 61.862 66.667 28.82 9.79 0.00 5.68
391 413 4.169696 TCTAATGGGCCGGCGGTG 62.170 66.667 28.82 7.25 0.00 4.94
400 422 4.160635 CCGGCGGTGCGAATCAAC 62.161 66.667 19.97 0.00 0.00 3.18
401 423 4.160635 CGGCGGTGCGAATCAACC 62.161 66.667 0.00 0.00 0.00 3.77
402 424 2.746277 GGCGGTGCGAATCAACCT 60.746 61.111 0.00 0.00 0.00 3.50
403 425 2.480555 GCGGTGCGAATCAACCTG 59.519 61.111 0.00 0.00 0.00 4.00
405 427 1.497278 CGGTGCGAATCAACCTGTG 59.503 57.895 0.00 0.00 0.00 3.66
407 429 0.889186 GGTGCGAATCAACCTGTGGT 60.889 55.000 0.00 0.00 37.65 4.16
417 439 2.525105 AACCTGTGGTTGAGTTGGTT 57.475 45.000 0.71 0.00 45.07 3.67
418 440 3.655615 AACCTGTGGTTGAGTTGGTTA 57.344 42.857 0.71 0.00 45.07 2.85
419 441 3.208747 ACCTGTGGTTGAGTTGGTTAG 57.791 47.619 0.00 0.00 27.29 2.34
420 442 2.158667 ACCTGTGGTTGAGTTGGTTAGG 60.159 50.000 0.00 0.00 27.29 2.69
421 443 2.158667 CCTGTGGTTGAGTTGGTTAGGT 60.159 50.000 0.00 0.00 0.00 3.08
422 444 2.878406 CTGTGGTTGAGTTGGTTAGGTG 59.122 50.000 0.00 0.00 0.00 4.00
425 447 2.714250 TGGTTGAGTTGGTTAGGTGGAT 59.286 45.455 0.00 0.00 0.00 3.41
426 448 3.911260 TGGTTGAGTTGGTTAGGTGGATA 59.089 43.478 0.00 0.00 0.00 2.59
427 449 4.019681 TGGTTGAGTTGGTTAGGTGGATAG 60.020 45.833 0.00 0.00 0.00 2.08
428 450 4.019591 GGTTGAGTTGGTTAGGTGGATAGT 60.020 45.833 0.00 0.00 0.00 2.12
431 453 3.518303 GAGTTGGTTAGGTGGATAGTGGT 59.482 47.826 0.00 0.00 0.00 4.16
432 454 4.691238 AGTTGGTTAGGTGGATAGTGGTA 58.309 43.478 0.00 0.00 0.00 3.25
433 455 5.286221 AGTTGGTTAGGTGGATAGTGGTAT 58.714 41.667 0.00 0.00 0.00 2.73
434 456 5.365895 AGTTGGTTAGGTGGATAGTGGTATC 59.634 44.000 0.00 0.00 35.19 2.24
444 466 4.338379 GATAGTGGTATCCTCAACCCAC 57.662 50.000 0.00 0.00 46.17 4.61
445 467 1.286248 AGTGGTATCCTCAACCCACC 58.714 55.000 4.15 0.00 46.84 4.61
447 469 1.065418 GTGGTATCCTCAACCCACCAG 60.065 57.143 0.00 0.00 41.20 4.00
464 486 3.363787 AGGGTTCAAATCCTGGTGC 57.636 52.632 0.00 0.00 38.36 5.01
465 487 0.779997 AGGGTTCAAATCCTGGTGCT 59.220 50.000 0.00 0.00 38.36 4.40
469 491 0.250684 TTCAAATCCTGGTGCTCGCA 60.251 50.000 0.00 0.00 0.00 5.10
470 492 0.035152 TCAAATCCTGGTGCTCGCAT 60.035 50.000 0.00 0.00 0.00 4.73
473 495 2.620115 CAAATCCTGGTGCTCGCATTAT 59.380 45.455 0.00 0.00 0.00 1.28
474 496 2.645838 ATCCTGGTGCTCGCATTATT 57.354 45.000 0.00 0.00 0.00 1.40
475 497 2.418368 TCCTGGTGCTCGCATTATTT 57.582 45.000 0.00 0.00 0.00 1.40
476 498 2.722094 TCCTGGTGCTCGCATTATTTT 58.278 42.857 0.00 0.00 0.00 1.82
477 499 3.088532 TCCTGGTGCTCGCATTATTTTT 58.911 40.909 0.00 0.00 0.00 1.94
478 500 3.119531 TCCTGGTGCTCGCATTATTTTTG 60.120 43.478 0.00 0.00 0.00 2.44
479 501 3.119531 CCTGGTGCTCGCATTATTTTTGA 60.120 43.478 0.00 0.00 0.00 2.69
480 502 4.484236 CTGGTGCTCGCATTATTTTTGAA 58.516 39.130 0.00 0.00 0.00 2.69
481 503 5.070770 TGGTGCTCGCATTATTTTTGAAT 57.929 34.783 0.00 0.00 0.00 2.57
482 504 5.477510 TGGTGCTCGCATTATTTTTGAATT 58.522 33.333 0.00 0.00 0.00 2.17
484 506 7.093354 TGGTGCTCGCATTATTTTTGAATTTA 58.907 30.769 0.00 0.00 0.00 1.40
485 507 7.763528 TGGTGCTCGCATTATTTTTGAATTTAT 59.236 29.630 0.00 0.00 0.00 1.40
486 508 8.603181 GGTGCTCGCATTATTTTTGAATTTATT 58.397 29.630 0.00 0.00 0.00 1.40
487 509 9.971744 GTGCTCGCATTATTTTTGAATTTATTT 57.028 25.926 0.00 0.00 0.00 1.40
502 524 2.992124 TATTTCAGGATTTCCGGCGA 57.008 45.000 9.30 0.00 42.08 5.54
505 527 1.095228 TTCAGGATTTCCGGCGATGC 61.095 55.000 9.30 0.00 42.08 3.91
517 539 2.787249 CGATGCGCTTTCAGTGGG 59.213 61.111 9.73 0.00 0.00 4.61
518 540 1.741401 CGATGCGCTTTCAGTGGGA 60.741 57.895 9.73 0.00 0.00 4.37
520 542 1.372087 GATGCGCTTTCAGTGGGAGG 61.372 60.000 9.73 0.00 0.00 4.30
521 543 1.841302 ATGCGCTTTCAGTGGGAGGA 61.841 55.000 9.73 0.00 0.00 3.71
522 544 1.743252 GCGCTTTCAGTGGGAGGAG 60.743 63.158 0.00 0.00 0.00 3.69
523 545 1.975327 CGCTTTCAGTGGGAGGAGA 59.025 57.895 0.00 0.00 0.00 3.71
524 546 0.390472 CGCTTTCAGTGGGAGGAGAC 60.390 60.000 0.00 0.00 0.00 3.36
525 547 0.390472 GCTTTCAGTGGGAGGAGACG 60.390 60.000 0.00 0.00 0.00 4.18
526 548 0.969894 CTTTCAGTGGGAGGAGACGT 59.030 55.000 0.00 0.00 0.00 4.34
527 549 1.344763 CTTTCAGTGGGAGGAGACGTT 59.655 52.381 0.00 0.00 0.00 3.99
536 558 4.808649 GGAGACGTTCCCATCGAC 57.191 61.111 0.00 0.00 40.37 4.20
537 559 1.226603 GGAGACGTTCCCATCGACG 60.227 63.158 0.00 0.00 44.34 5.12
538 560 1.651240 GGAGACGTTCCCATCGACGA 61.651 60.000 0.00 0.00 41.53 4.20
540 562 1.866496 GACGTTCCCATCGACGACG 60.866 63.158 0.00 0.00 41.53 5.12
551 573 2.353607 GACGACGAGGCGCCTATG 60.354 66.667 32.97 27.02 33.86 2.23
552 574 3.825833 GACGACGAGGCGCCTATGG 62.826 68.421 32.97 23.64 33.86 2.74
553 575 3.900892 CGACGAGGCGCCTATGGT 61.901 66.667 32.97 26.91 0.00 3.55
554 576 2.279517 GACGAGGCGCCTATGGTG 60.280 66.667 32.97 18.94 36.10 4.17
555 577 2.758327 ACGAGGCGCCTATGGTGA 60.758 61.111 32.97 0.00 34.74 4.02
556 578 2.279517 CGAGGCGCCTATGGTGAC 60.280 66.667 32.97 14.51 42.50 3.67
559 581 4.126524 GGCGCCTATGGTGACTTC 57.873 61.111 22.15 0.00 38.38 3.01
560 582 1.883084 GGCGCCTATGGTGACTTCG 60.883 63.158 22.15 0.00 38.38 3.79
561 583 1.153628 GCGCCTATGGTGACTTCGT 60.154 57.895 0.00 0.00 34.74 3.85
564 586 2.883574 CGCCTATGGTGACTTCGTAAA 58.116 47.619 0.00 0.00 34.74 2.01
565 587 3.454375 CGCCTATGGTGACTTCGTAAAT 58.546 45.455 0.00 0.00 34.74 1.40
566 588 3.489785 CGCCTATGGTGACTTCGTAAATC 59.510 47.826 0.00 0.00 34.74 2.17
567 589 4.694339 GCCTATGGTGACTTCGTAAATCT 58.306 43.478 0.00 0.00 0.00 2.40
568 590 4.745620 GCCTATGGTGACTTCGTAAATCTC 59.254 45.833 0.00 0.00 0.00 2.75
569 591 5.681437 GCCTATGGTGACTTCGTAAATCTCA 60.681 44.000 0.00 0.00 0.00 3.27
571 593 6.477033 CCTATGGTGACTTCGTAAATCTCAAG 59.523 42.308 0.00 0.00 0.00 3.02
573 595 6.037786 TGGTGACTTCGTAAATCTCAAGAT 57.962 37.500 0.00 0.00 36.07 2.40
575 597 7.608153 TGGTGACTTCGTAAATCTCAAGATAA 58.392 34.615 0.00 0.00 33.73 1.75
576 598 8.258007 TGGTGACTTCGTAAATCTCAAGATAAT 58.742 33.333 0.00 0.00 33.73 1.28
585 607 9.416794 CGTAAATCTCAAGATAATATGACAGCT 57.583 33.333 0.00 0.00 33.73 4.24
588 610 9.491675 AAATCTCAAGATAATATGACAGCTCAG 57.508 33.333 0.00 0.00 33.73 3.35
590 612 7.656412 TCTCAAGATAATATGACAGCTCAGTC 58.344 38.462 0.00 0.00 38.99 3.51
591 613 7.505248 TCTCAAGATAATATGACAGCTCAGTCT 59.495 37.037 5.85 0.00 39.27 3.24
592 614 7.656412 TCAAGATAATATGACAGCTCAGTCTC 58.344 38.462 5.85 0.00 39.27 3.36
594 616 7.452880 AGATAATATGACAGCTCAGTCTCTC 57.547 40.000 5.85 0.00 39.27 3.20
595 617 4.566545 AATATGACAGCTCAGTCTCTCG 57.433 45.455 5.85 0.00 39.27 4.04
596 618 1.102154 ATGACAGCTCAGTCTCTCGG 58.898 55.000 5.85 0.00 39.27 4.63
598 620 0.732571 GACAGCTCAGTCTCTCGGAG 59.267 60.000 0.00 0.00 40.44 4.63
599 621 0.679640 ACAGCTCAGTCTCTCGGAGG 60.680 60.000 4.96 0.00 38.48 4.30
600 622 0.679640 CAGCTCAGTCTCTCGGAGGT 60.680 60.000 4.96 0.00 46.44 3.85
601 623 0.679640 AGCTCAGTCTCTCGGAGGTG 60.680 60.000 4.96 0.00 44.55 4.00
602 624 1.806568 CTCAGTCTCTCGGAGGTGC 59.193 63.158 4.96 0.00 35.32 5.01
604 626 0.678366 TCAGTCTCTCGGAGGTGCTC 60.678 60.000 4.96 0.00 0.00 4.26
605 627 0.962855 CAGTCTCTCGGAGGTGCTCA 60.963 60.000 4.96 0.00 31.08 4.26
608 630 1.606668 GTCTCTCGGAGGTGCTCATAG 59.393 57.143 4.96 0.00 31.08 2.23
609 631 0.958091 CTCTCGGAGGTGCTCATAGG 59.042 60.000 4.96 0.00 31.08 2.57
611 633 1.457643 TCGGAGGTGCTCATAGGGG 60.458 63.158 0.00 0.00 31.08 4.79
613 635 0.469331 CGGAGGTGCTCATAGGGGTA 60.469 60.000 0.00 0.00 31.08 3.69
614 636 1.343069 GGAGGTGCTCATAGGGGTAG 58.657 60.000 0.00 0.00 31.08 3.18
615 637 1.343069 GAGGTGCTCATAGGGGTAGG 58.657 60.000 0.00 0.00 0.00 3.18
616 638 0.104934 AGGTGCTCATAGGGGTAGGG 60.105 60.000 0.00 0.00 0.00 3.53
617 639 0.400093 GGTGCTCATAGGGGTAGGGT 60.400 60.000 0.00 0.00 0.00 4.34
618 640 0.759346 GTGCTCATAGGGGTAGGGTG 59.241 60.000 0.00 0.00 0.00 4.61
620 642 0.759346 GCTCATAGGGGTAGGGTGTG 59.241 60.000 0.00 0.00 0.00 3.82
621 643 0.759346 CTCATAGGGGTAGGGTGTGC 59.241 60.000 0.00 0.00 0.00 4.57
622 644 1.046472 TCATAGGGGTAGGGTGTGCG 61.046 60.000 0.00 0.00 0.00 5.34
624 646 1.335132 ATAGGGGTAGGGTGTGCGTG 61.335 60.000 0.00 0.00 0.00 5.34
625 647 2.735151 TAGGGGTAGGGTGTGCGTGT 62.735 60.000 0.00 0.00 0.00 4.49
626 648 2.358247 GGGTAGGGTGTGCGTGTG 60.358 66.667 0.00 0.00 0.00 3.82
629 651 2.280524 TAGGGTGTGCGTGTGTGC 60.281 61.111 0.00 0.00 0.00 4.57
638 660 1.085893 TGCGTGTGTGCATTCATAGG 58.914 50.000 0.00 0.00 40.62 2.57
639 661 0.378257 GCGTGTGTGCATTCATAGGG 59.622 55.000 0.00 0.00 34.15 3.53
640 662 2.011548 GCGTGTGTGCATTCATAGGGA 61.012 52.381 0.00 0.00 34.15 4.20
653 675 3.599343 TCATAGGGATGAATGTATGCGC 58.401 45.455 0.00 0.00 39.20 6.09
654 676 2.078849 TAGGGATGAATGTATGCGCG 57.921 50.000 0.00 0.00 0.00 6.86
655 677 0.106708 AGGGATGAATGTATGCGCGT 59.893 50.000 8.43 7.55 0.00 6.01
656 678 0.235665 GGGATGAATGTATGCGCGTG 59.764 55.000 13.61 0.00 0.00 5.34
657 679 0.937304 GGATGAATGTATGCGCGTGT 59.063 50.000 13.61 0.00 0.00 4.49
659 681 2.736721 GGATGAATGTATGCGCGTGTAT 59.263 45.455 13.61 4.63 0.00 2.29
660 682 3.924073 GGATGAATGTATGCGCGTGTATA 59.076 43.478 13.61 2.40 0.00 1.47
661 683 4.566759 GGATGAATGTATGCGCGTGTATAT 59.433 41.667 13.61 2.11 0.00 0.86
662 684 4.901866 TGAATGTATGCGCGTGTATATG 57.098 40.909 13.61 0.00 0.00 1.78
663 685 4.551388 TGAATGTATGCGCGTGTATATGA 58.449 39.130 13.61 1.21 0.00 2.15
664 686 4.621034 TGAATGTATGCGCGTGTATATGAG 59.379 41.667 13.61 0.00 0.00 2.90
670 692 0.159554 CGCGTGTATATGAGCGCTTG 59.840 55.000 13.26 0.00 46.56 4.01
671 693 1.209128 GCGTGTATATGAGCGCTTGT 58.791 50.000 13.26 5.98 45.48 3.16
672 694 1.071239 GCGTGTATATGAGCGCTTGTG 60.071 52.381 13.26 0.00 45.48 3.33
673 695 2.193447 CGTGTATATGAGCGCTTGTGT 58.807 47.619 13.26 4.27 0.00 3.72
674 696 2.603110 CGTGTATATGAGCGCTTGTGTT 59.397 45.455 13.26 0.00 0.00 3.32
675 697 3.062099 CGTGTATATGAGCGCTTGTGTTT 59.938 43.478 13.26 0.00 0.00 2.83
676 698 4.334443 GTGTATATGAGCGCTTGTGTTTG 58.666 43.478 13.26 0.00 0.00 2.93
677 699 4.000325 TGTATATGAGCGCTTGTGTTTGT 59.000 39.130 13.26 0.00 0.00 2.83
678 700 5.062934 GTGTATATGAGCGCTTGTGTTTGTA 59.937 40.000 13.26 0.00 0.00 2.41
679 701 2.969443 ATGAGCGCTTGTGTTTGTAC 57.031 45.000 13.26 0.00 0.00 2.90
680 702 1.948104 TGAGCGCTTGTGTTTGTACT 58.052 45.000 13.26 0.00 0.00 2.73
682 704 1.864711 GAGCGCTTGTGTTTGTACTGA 59.135 47.619 13.26 0.00 0.00 3.41
683 705 2.480419 GAGCGCTTGTGTTTGTACTGAT 59.520 45.455 13.26 0.00 0.00 2.90
684 706 2.224079 AGCGCTTGTGTTTGTACTGATG 59.776 45.455 2.64 0.00 0.00 3.07
685 707 2.574322 CGCTTGTGTTTGTACTGATGC 58.426 47.619 0.00 0.00 0.00 3.91
686 708 2.224079 CGCTTGTGTTTGTACTGATGCT 59.776 45.455 0.00 0.00 0.00 3.79
687 709 3.665323 CGCTTGTGTTTGTACTGATGCTC 60.665 47.826 0.00 0.00 0.00 4.26
688 710 3.250762 GCTTGTGTTTGTACTGATGCTCA 59.749 43.478 0.00 0.00 0.00 4.26
689 711 4.261155 GCTTGTGTTTGTACTGATGCTCAA 60.261 41.667 0.00 0.00 0.00 3.02
690 712 5.733091 GCTTGTGTTTGTACTGATGCTCAAA 60.733 40.000 0.00 0.00 0.00 2.69
691 713 5.826601 TGTGTTTGTACTGATGCTCAAAA 57.173 34.783 0.00 0.00 32.81 2.44
692 714 6.201226 TGTGTTTGTACTGATGCTCAAAAA 57.799 33.333 0.00 0.00 32.81 1.94
874 2618 2.809601 CGACGGCTTTCCTCACGG 60.810 66.667 0.00 0.00 0.00 4.94
959 2705 3.068307 ACTCCGCTAACTATTACCTGCAG 59.932 47.826 6.78 6.78 0.00 4.41
1261 3011 3.617538 GCATGTACGCTCGACCGC 61.618 66.667 0.00 0.00 0.00 5.68
1389 3171 8.220755 TCATTTGGCAACCTTATGTTATACTC 57.779 34.615 0.00 0.00 34.69 2.59
1405 3187 8.514330 TGTTATACTCCCACCATAAACATTTC 57.486 34.615 0.00 0.00 0.00 2.17
1528 3310 5.869579 TGGACAAACTCTCAATCTAAAGCT 58.130 37.500 0.00 0.00 0.00 3.74
1623 3412 0.610687 CGTTCTTCTTCCTCCTGCCT 59.389 55.000 0.00 0.00 0.00 4.75
1635 3424 4.031129 CTGCCTCCTGCTGCCACT 62.031 66.667 0.00 0.00 42.00 4.00
1695 3484 1.815421 CGGCCGACCTCCAATTCTG 60.815 63.158 24.07 0.00 0.00 3.02
1701 3490 3.204827 CCTCCAATTCTGGCGCCG 61.205 66.667 23.90 16.91 43.17 6.46
1732 3521 2.901042 CCCCCGCACTCCTTAGAC 59.099 66.667 0.00 0.00 0.00 2.59
1734 3523 1.218316 CCCCGCACTCCTTAGACAC 59.782 63.158 0.00 0.00 0.00 3.67
1735 3524 1.218316 CCCGCACTCCTTAGACACC 59.782 63.158 0.00 0.00 0.00 4.16
1736 3525 1.541310 CCCGCACTCCTTAGACACCA 61.541 60.000 0.00 0.00 0.00 4.17
1738 3527 1.673033 CCGCACTCCTTAGACACCAAG 60.673 57.143 0.00 0.00 0.00 3.61
1751 3544 0.253327 CACCAAGACCTAGCTTCCCC 59.747 60.000 0.00 0.00 0.00 4.81
1754 3547 0.175989 CAAGACCTAGCTTCCCCGAC 59.824 60.000 0.00 0.00 0.00 4.79
1770 3563 1.374758 GACGAACCTGCACCCTCTG 60.375 63.158 0.00 0.00 0.00 3.35
1805 3598 0.247736 ACACCGAGGCTTAGCTTCTG 59.752 55.000 14.19 10.20 32.35 3.02
1834 3627 4.641645 CGGCCTTGGTGCTCCACA 62.642 66.667 7.09 0.00 44.22 4.17
1856 3649 3.253921 ACCAGGGTTTTTATTTCCGAACG 59.746 43.478 0.00 0.00 0.00 3.95
1873 3666 5.178996 TCCGAACGAAATATTTGAAAACCGA 59.821 36.000 5.17 0.00 0.00 4.69
1875 3668 6.075280 CGAACGAAATATTTGAAAACCGACT 58.925 36.000 5.17 0.00 0.00 4.18
1895 3689 5.347635 CGACTGGTTTTCGAATATCTGTTGA 59.652 40.000 16.16 0.00 38.85 3.18
1916 3710 4.141892 TGAACTCCGAGAAAAGTTGGTACA 60.142 41.667 1.33 0.00 35.90 2.90
1917 3711 3.725490 ACTCCGAGAAAAGTTGGTACAC 58.275 45.455 1.33 0.00 39.29 2.90
1919 3713 2.435069 TCCGAGAAAAGTTGGTACACCA 59.565 45.455 0.00 0.00 45.94 4.17
1996 3791 3.380320 AGGTGTCCTTGTTAAAGCACAAC 59.620 43.478 0.00 0.00 41.42 3.32
2007 3802 2.496899 AAGCACAACCCATAGTCTGG 57.503 50.000 0.00 0.00 45.51 3.86
2017 3812 0.596083 CATAGTCTGGCGGAAGAGCG 60.596 60.000 0.00 0.00 38.18 5.03
2018 3813 1.038130 ATAGTCTGGCGGAAGAGCGT 61.038 55.000 0.00 0.00 38.18 5.07
2019 3814 1.248785 TAGTCTGGCGGAAGAGCGTT 61.249 55.000 0.00 0.00 38.18 4.84
2020 3815 1.214589 GTCTGGCGGAAGAGCGTTA 59.785 57.895 0.00 0.00 38.18 3.18
2021 3816 0.802607 GTCTGGCGGAAGAGCGTTAG 60.803 60.000 0.00 0.00 38.18 2.34
2022 3817 0.963856 TCTGGCGGAAGAGCGTTAGA 60.964 55.000 0.00 0.00 38.18 2.10
2023 3818 0.526524 CTGGCGGAAGAGCGTTAGAG 60.527 60.000 0.00 0.00 38.18 2.43
2049 3844 5.208890 TCTATGACTACCAGTGCCTAACAT 58.791 41.667 0.00 0.00 0.00 2.71
2062 3857 2.976882 GCCTAACATGGGTCCCTATACA 59.023 50.000 10.00 0.00 0.00 2.29
2065 3860 5.094387 CCTAACATGGGTCCCTATACATCT 58.906 45.833 10.00 0.00 0.00 2.90
2066 3861 4.982241 AACATGGGTCCCTATACATCTG 57.018 45.455 10.00 0.00 0.00 2.90
2075 3870 2.545952 CCCTATACATCTGTGGACGTGC 60.546 54.545 0.00 0.00 0.00 5.34
2079 3874 1.742880 CATCTGTGGACGTGCCCAG 60.743 63.158 13.19 13.19 36.78 4.45
2080 3875 1.913262 ATCTGTGGACGTGCCCAGA 60.913 57.895 22.90 22.90 43.50 3.86
2081 3876 1.267574 ATCTGTGGACGTGCCCAGAT 61.268 55.000 25.07 25.07 43.43 2.90
2082 3877 1.742880 CTGTGGACGTGCCCAGATG 60.743 63.158 14.12 0.00 37.21 2.90
2083 3878 2.436646 GTGGACGTGCCCAGATGG 60.437 66.667 4.04 0.00 36.78 3.51
2120 3915 1.632589 GGAAGGGCCTCAAATGTTGT 58.367 50.000 6.46 0.00 0.00 3.32
2146 3941 4.695217 TGCAATCACGAACCCTATTTTC 57.305 40.909 0.00 0.00 0.00 2.29
2154 3949 6.674066 TCACGAACCCTATTTTCAAAACATC 58.326 36.000 0.00 0.00 0.00 3.06
2183 3978 1.869503 CAAACACATGCACGTCGATC 58.130 50.000 0.00 0.00 0.00 3.69
2190 3985 2.159531 ACATGCACGTCGATCATTTTGG 60.160 45.455 0.00 0.00 0.00 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 7.717568 TCATAAACGGGTTCATTTTCTTTGAA 58.282 30.769 0.00 0.00 0.00 2.69
11 12 4.703093 TCCCTCATAAACGGGTTCATTTTC 59.297 41.667 0.00 0.00 41.40 2.29
12 13 4.668636 TCCCTCATAAACGGGTTCATTTT 58.331 39.130 0.00 0.00 41.40 1.82
13 14 4.310022 TCCCTCATAAACGGGTTCATTT 57.690 40.909 0.00 0.00 41.40 2.32
14 15 4.310022 TTCCCTCATAAACGGGTTCATT 57.690 40.909 0.00 0.00 41.40 2.57
16 17 3.414269 GTTTCCCTCATAAACGGGTTCA 58.586 45.455 0.00 0.00 41.40 3.18
17 18 2.751259 GGTTTCCCTCATAAACGGGTTC 59.249 50.000 0.00 0.00 41.40 3.62
18 19 2.108601 TGGTTTCCCTCATAAACGGGTT 59.891 45.455 0.00 0.00 41.40 4.11
19 20 1.706305 TGGTTTCCCTCATAAACGGGT 59.294 47.619 0.00 0.00 41.40 5.28
20 21 2.026636 TCTGGTTTCCCTCATAAACGGG 60.027 50.000 0.00 0.00 42.05 5.28
21 22 3.343941 TCTGGTTTCCCTCATAAACGG 57.656 47.619 0.00 0.00 37.64 4.44
23 24 6.834168 TTTGATCTGGTTTCCCTCATAAAC 57.166 37.500 0.00 0.00 36.34 2.01
24 25 7.847711 TTTTTGATCTGGTTTCCCTCATAAA 57.152 32.000 0.00 0.00 0.00 1.40
25 26 8.313292 CAATTTTTGATCTGGTTTCCCTCATAA 58.687 33.333 0.00 0.00 0.00 1.90
26 27 7.454380 ACAATTTTTGATCTGGTTTCCCTCATA 59.546 33.333 0.00 0.00 0.00 2.15
28 29 5.602145 ACAATTTTTGATCTGGTTTCCCTCA 59.398 36.000 0.00 0.00 0.00 3.86
30 31 5.602145 TCACAATTTTTGATCTGGTTTCCCT 59.398 36.000 0.00 0.00 0.00 4.20
31 32 5.852827 TCACAATTTTTGATCTGGTTTCCC 58.147 37.500 0.00 0.00 0.00 3.97
33 34 7.148755 CCGAATCACAATTTTTGATCTGGTTTC 60.149 37.037 0.00 0.00 32.29 2.78
39 40 9.357652 CATAAACCGAATCACAATTTTTGATCT 57.642 29.630 0.00 0.00 32.29 2.75
41 42 9.357652 CTCATAAACCGAATCACAATTTTTGAT 57.642 29.630 0.00 0.00 35.09 2.57
42 43 7.812191 CCTCATAAACCGAATCACAATTTTTGA 59.188 33.333 0.00 0.00 0.00 2.69
45 46 7.461182 TCCTCATAAACCGAATCACAATTTT 57.539 32.000 0.00 0.00 0.00 1.82
47 48 6.884295 TCTTCCTCATAAACCGAATCACAATT 59.116 34.615 0.00 0.00 0.00 2.32
49 50 5.642063 GTCTTCCTCATAAACCGAATCACAA 59.358 40.000 0.00 0.00 0.00 3.33
87 88 6.316390 ACGGCTTTCTTATAAACTGGATCAAG 59.684 38.462 0.00 0.00 0.00 3.02
110 111 4.994852 CAGGATGTATGGTATTTGGGTACG 59.005 45.833 0.00 0.00 0.00 3.67
129 130 1.768275 TCTGTTCTTTGCCTGTCAGGA 59.232 47.619 23.77 5.01 37.67 3.86
132 133 3.627577 GTCTTTCTGTTCTTTGCCTGTCA 59.372 43.478 0.00 0.00 0.00 3.58
152 153 3.357166 TGCGTTGGGTTGTTTTATGTC 57.643 42.857 0.00 0.00 0.00 3.06
155 156 3.723260 CCTTTGCGTTGGGTTGTTTTAT 58.277 40.909 0.00 0.00 0.00 1.40
156 157 2.738964 GCCTTTGCGTTGGGTTGTTTTA 60.739 45.455 0.00 0.00 0.00 1.52
226 247 1.761784 AGTCCTGCCTTCTAGATGCTG 59.238 52.381 13.92 12.98 0.00 4.41
235 256 2.998316 ATCTTGCTAGTCCTGCCTTC 57.002 50.000 0.00 0.00 0.00 3.46
254 275 9.496873 TTCGGAATCTATTTTGTCTCTTTGTTA 57.503 29.630 0.00 0.00 0.00 2.41
274 295 7.497249 ACCAATCAACAATTTTTGAATTCGGAA 59.503 29.630 10.87 0.00 38.95 4.30
340 362 3.057734 GCGGCTAAATAATGTAGCGAGT 58.942 45.455 0.00 0.00 44.11 4.18
367 389 1.202770 GCCGGCCCATTAGAGTAACAT 60.203 52.381 18.11 0.00 0.00 2.71
368 390 0.179468 GCCGGCCCATTAGAGTAACA 59.821 55.000 18.11 0.00 0.00 2.41
369 391 0.878961 CGCCGGCCCATTAGAGTAAC 60.879 60.000 23.46 0.00 0.00 2.50
370 392 1.444250 CGCCGGCCCATTAGAGTAA 59.556 57.895 23.46 0.00 0.00 2.24
371 393 2.504274 CCGCCGGCCCATTAGAGTA 61.504 63.158 23.46 0.00 0.00 2.59
372 394 3.861797 CCGCCGGCCCATTAGAGT 61.862 66.667 23.46 0.00 0.00 3.24
373 395 3.861797 ACCGCCGGCCCATTAGAG 61.862 66.667 23.46 3.38 0.00 2.43
374 396 4.169696 CACCGCCGGCCCATTAGA 62.170 66.667 23.46 0.00 0.00 2.10
383 405 4.160635 GTTGATTCGCACCGCCGG 62.161 66.667 0.00 0.00 0.00 6.13
384 406 4.160635 GGTTGATTCGCACCGCCG 62.161 66.667 0.00 0.00 0.00 6.46
385 407 2.746277 AGGTTGATTCGCACCGCC 60.746 61.111 0.41 0.00 0.00 6.13
387 409 1.497278 CACAGGTTGATTCGCACCG 59.503 57.895 0.41 0.00 0.00 4.94
389 411 0.951558 AACCACAGGTTGATTCGCAC 59.048 50.000 0.00 0.00 45.07 5.34
390 412 3.412722 AACCACAGGTTGATTCGCA 57.587 47.368 0.00 0.00 45.07 5.10
400 422 2.158667 ACCTAACCAACTCAACCACAGG 60.159 50.000 0.00 0.00 0.00 4.00
401 423 2.878406 CACCTAACCAACTCAACCACAG 59.122 50.000 0.00 0.00 0.00 3.66
402 424 2.422235 CCACCTAACCAACTCAACCACA 60.422 50.000 0.00 0.00 0.00 4.17
403 425 2.158726 TCCACCTAACCAACTCAACCAC 60.159 50.000 0.00 0.00 0.00 4.16
405 427 2.943036 TCCACCTAACCAACTCAACC 57.057 50.000 0.00 0.00 0.00 3.77
407 429 4.019681 CCACTATCCACCTAACCAACTCAA 60.020 45.833 0.00 0.00 0.00 3.02
408 430 3.517901 CCACTATCCACCTAACCAACTCA 59.482 47.826 0.00 0.00 0.00 3.41
409 431 3.518303 ACCACTATCCACCTAACCAACTC 59.482 47.826 0.00 0.00 0.00 3.01
410 432 3.527937 ACCACTATCCACCTAACCAACT 58.472 45.455 0.00 0.00 0.00 3.16
412 434 4.657039 GGATACCACTATCCACCTAACCAA 59.343 45.833 2.40 0.00 45.82 3.67
413 435 4.228824 GGATACCACTATCCACCTAACCA 58.771 47.826 2.40 0.00 45.82 3.67
422 444 3.314693 TGGGTTGAGGATACCACTATCC 58.685 50.000 0.00 0.00 46.62 2.59
428 450 1.285280 CTGGTGGGTTGAGGATACCA 58.715 55.000 0.00 0.00 38.98 3.25
441 463 1.549203 CAGGATTTGAACCCTGGTGG 58.451 55.000 0.00 0.00 44.68 4.61
447 469 1.177401 GAGCACCAGGATTTGAACCC 58.823 55.000 0.00 0.00 0.00 4.11
450 472 0.250684 TGCGAGCACCAGGATTTGAA 60.251 50.000 0.00 0.00 0.00 2.69
451 473 0.035152 ATGCGAGCACCAGGATTTGA 60.035 50.000 0.00 0.00 0.00 2.69
452 474 0.813184 AATGCGAGCACCAGGATTTG 59.187 50.000 0.00 0.00 0.00 2.32
453 475 2.418368 TAATGCGAGCACCAGGATTT 57.582 45.000 0.00 0.00 31.11 2.17
454 476 2.645838 ATAATGCGAGCACCAGGATT 57.354 45.000 0.00 0.00 33.17 3.01
455 477 2.645838 AATAATGCGAGCACCAGGAT 57.354 45.000 0.00 0.00 0.00 3.24
456 478 2.418368 AAATAATGCGAGCACCAGGA 57.582 45.000 0.00 0.00 0.00 3.86
458 480 4.095410 TCAAAAATAATGCGAGCACCAG 57.905 40.909 0.00 0.00 0.00 4.00
459 481 4.511617 TTCAAAAATAATGCGAGCACCA 57.488 36.364 0.00 0.00 0.00 4.17
460 482 6.407475 AAATTCAAAAATAATGCGAGCACC 57.593 33.333 0.00 0.00 0.00 5.01
461 483 9.971744 AAATAAATTCAAAAATAATGCGAGCAC 57.028 25.926 0.00 0.00 0.00 4.40
477 499 5.449862 CGCCGGAAATCCTGAAATAAATTCA 60.450 40.000 5.05 0.00 45.71 2.57
478 500 4.976116 CGCCGGAAATCCTGAAATAAATTC 59.024 41.667 5.05 0.00 38.60 2.17
479 501 4.642885 TCGCCGGAAATCCTGAAATAAATT 59.357 37.500 5.05 0.00 0.00 1.82
480 502 4.204012 TCGCCGGAAATCCTGAAATAAAT 58.796 39.130 5.05 0.00 0.00 1.40
481 503 3.611970 TCGCCGGAAATCCTGAAATAAA 58.388 40.909 5.05 0.00 0.00 1.40
482 504 3.269538 TCGCCGGAAATCCTGAAATAA 57.730 42.857 5.05 0.00 0.00 1.40
484 506 1.949525 CATCGCCGGAAATCCTGAAAT 59.050 47.619 5.05 0.00 0.00 2.17
485 507 1.378531 CATCGCCGGAAATCCTGAAA 58.621 50.000 5.05 0.00 0.00 2.69
486 508 1.095228 GCATCGCCGGAAATCCTGAA 61.095 55.000 5.05 0.00 0.00 3.02
487 509 1.523711 GCATCGCCGGAAATCCTGA 60.524 57.895 5.05 0.00 0.00 3.86
489 511 2.588877 CGCATCGCCGGAAATCCT 60.589 61.111 5.05 0.00 0.00 3.24
502 524 1.377725 CCTCCCACTGAAAGCGCAT 60.378 57.895 11.47 0.00 37.60 4.73
505 527 0.390472 GTCTCCTCCCACTGAAAGCG 60.390 60.000 0.00 0.00 37.60 4.68
507 529 0.969894 ACGTCTCCTCCCACTGAAAG 59.030 55.000 0.00 0.00 42.29 2.62
508 530 1.343465 GAACGTCTCCTCCCACTGAAA 59.657 52.381 0.00 0.00 0.00 2.69
509 531 0.966920 GAACGTCTCCTCCCACTGAA 59.033 55.000 0.00 0.00 0.00 3.02
510 532 0.898789 GGAACGTCTCCTCCCACTGA 60.899 60.000 8.87 0.00 41.61 3.41
511 533 1.592223 GGAACGTCTCCTCCCACTG 59.408 63.158 8.87 0.00 41.61 3.66
512 534 4.115270 GGAACGTCTCCTCCCACT 57.885 61.111 8.87 0.00 41.61 4.00
516 538 1.035932 TCGATGGGAACGTCTCCTCC 61.036 60.000 13.94 6.16 44.68 4.30
517 539 0.100861 GTCGATGGGAACGTCTCCTC 59.899 60.000 13.94 6.42 44.68 3.71
518 540 1.654954 CGTCGATGGGAACGTCTCCT 61.655 60.000 13.94 0.00 44.68 3.69
520 542 0.522915 GTCGTCGATGGGAACGTCTC 60.523 60.000 4.48 0.00 44.51 3.36
521 543 1.505353 GTCGTCGATGGGAACGTCT 59.495 57.895 4.48 0.00 44.51 4.18
522 544 1.866496 CGTCGTCGATGGGAACGTC 60.866 63.158 6.56 0.00 43.20 4.34
523 545 2.177531 CGTCGTCGATGGGAACGT 59.822 61.111 6.56 0.00 39.71 3.99
524 546 1.582937 CTCGTCGTCGATGGGAACG 60.583 63.158 8.75 10.22 45.21 3.95
525 547 1.226603 CCTCGTCGTCGATGGGAAC 60.227 63.158 16.08 0.00 45.21 3.62
526 548 3.060020 GCCTCGTCGTCGATGGGAA 62.060 63.158 16.08 0.00 45.21 3.97
527 549 3.515286 GCCTCGTCGTCGATGGGA 61.515 66.667 16.08 4.83 45.21 4.37
533 555 3.950254 ATAGGCGCCTCGTCGTCG 61.950 66.667 36.73 0.00 39.34 5.12
534 556 2.353607 CATAGGCGCCTCGTCGTC 60.354 66.667 36.73 0.00 36.23 4.20
535 557 3.900892 CCATAGGCGCCTCGTCGT 61.901 66.667 36.73 11.27 36.23 4.34
536 558 3.900892 ACCATAGGCGCCTCGTCG 61.901 66.667 36.73 21.01 36.23 5.12
537 559 2.279517 CACCATAGGCGCCTCGTC 60.280 66.667 36.73 1.08 0.00 4.20
538 560 2.758327 TCACCATAGGCGCCTCGT 60.758 61.111 36.73 24.45 0.00 4.18
540 562 0.530870 GAAGTCACCATAGGCGCCTC 60.531 60.000 36.73 17.40 0.00 4.70
542 564 1.883084 CGAAGTCACCATAGGCGCC 60.883 63.158 21.89 21.89 0.00 6.53
543 565 0.101759 TACGAAGTCACCATAGGCGC 59.898 55.000 0.00 0.00 43.93 6.53
545 567 4.694339 AGATTTACGAAGTCACCATAGGC 58.306 43.478 0.00 0.00 43.93 3.93
546 568 5.902681 TGAGATTTACGAAGTCACCATAGG 58.097 41.667 0.00 0.00 43.93 2.57
547 569 7.258441 TCTTGAGATTTACGAAGTCACCATAG 58.742 38.462 0.00 0.00 43.93 2.23
548 570 7.165460 TCTTGAGATTTACGAAGTCACCATA 57.835 36.000 0.00 0.00 43.93 2.74
551 573 8.649973 ATTATCTTGAGATTTACGAAGTCACC 57.350 34.615 0.00 0.00 37.74 4.02
558 580 9.411801 GCTGTCATATTATCTTGAGATTTACGA 57.588 33.333 0.00 0.00 36.05 3.43
559 581 9.416794 AGCTGTCATATTATCTTGAGATTTACG 57.583 33.333 0.00 0.00 36.05 3.18
564 586 8.192743 ACTGAGCTGTCATATTATCTTGAGAT 57.807 34.615 0.00 0.00 33.64 2.75
565 587 7.505248 AGACTGAGCTGTCATATTATCTTGAGA 59.495 37.037 6.93 0.00 39.27 3.27
566 588 7.660112 AGACTGAGCTGTCATATTATCTTGAG 58.340 38.462 6.93 0.00 39.27 3.02
567 589 7.505248 AGAGACTGAGCTGTCATATTATCTTGA 59.495 37.037 6.93 0.00 39.27 3.02
568 590 7.660112 AGAGACTGAGCTGTCATATTATCTTG 58.340 38.462 6.93 0.00 39.27 3.02
569 591 7.308529 CGAGAGACTGAGCTGTCATATTATCTT 60.309 40.741 6.93 0.00 39.27 2.40
571 593 6.314018 CGAGAGACTGAGCTGTCATATTATC 58.686 44.000 6.93 0.00 39.27 1.75
573 595 4.517075 CCGAGAGACTGAGCTGTCATATTA 59.483 45.833 6.93 0.00 39.27 0.98
575 597 2.884012 CCGAGAGACTGAGCTGTCATAT 59.116 50.000 6.93 0.00 39.27 1.78
576 598 2.092914 TCCGAGAGACTGAGCTGTCATA 60.093 50.000 6.93 0.00 39.27 2.15
578 600 0.036875 TCCGAGAGACTGAGCTGTCA 59.963 55.000 6.93 0.00 39.27 3.58
579 601 0.732571 CTCCGAGAGACTGAGCTGTC 59.267 60.000 0.00 0.00 37.23 3.51
581 603 0.679640 ACCTCCGAGAGACTGAGCTG 60.680 60.000 0.00 0.00 0.00 4.24
582 604 0.679640 CACCTCCGAGAGACTGAGCT 60.680 60.000 0.00 0.00 0.00 4.09
583 605 1.806568 CACCTCCGAGAGACTGAGC 59.193 63.158 0.00 0.00 0.00 4.26
585 607 0.678366 GAGCACCTCCGAGAGACTGA 60.678 60.000 0.00 0.00 0.00 3.41
586 608 0.962855 TGAGCACCTCCGAGAGACTG 60.963 60.000 0.00 0.22 0.00 3.51
587 609 0.033601 ATGAGCACCTCCGAGAGACT 60.034 55.000 0.00 0.00 0.00 3.24
588 610 1.606668 CTATGAGCACCTCCGAGAGAC 59.393 57.143 0.00 0.00 0.00 3.36
590 612 0.958091 CCTATGAGCACCTCCGAGAG 59.042 60.000 0.00 0.00 0.00 3.20
591 613 0.468214 CCCTATGAGCACCTCCGAGA 60.468 60.000 0.00 0.00 0.00 4.04
592 614 1.467678 CCCCTATGAGCACCTCCGAG 61.468 65.000 0.00 0.00 0.00 4.63
594 616 0.469331 TACCCCTATGAGCACCTCCG 60.469 60.000 0.00 0.00 0.00 4.63
595 617 1.343069 CTACCCCTATGAGCACCTCC 58.657 60.000 0.00 0.00 0.00 4.30
596 618 1.343069 CCTACCCCTATGAGCACCTC 58.657 60.000 0.00 0.00 0.00 3.85
598 620 0.400093 ACCCTACCCCTATGAGCACC 60.400 60.000 0.00 0.00 0.00 5.01
599 621 0.759346 CACCCTACCCCTATGAGCAC 59.241 60.000 0.00 0.00 0.00 4.40
600 622 0.341961 ACACCCTACCCCTATGAGCA 59.658 55.000 0.00 0.00 0.00 4.26
601 623 0.759346 CACACCCTACCCCTATGAGC 59.241 60.000 0.00 0.00 0.00 4.26
602 624 0.759346 GCACACCCTACCCCTATGAG 59.241 60.000 0.00 0.00 0.00 2.90
604 626 1.335132 ACGCACACCCTACCCCTATG 61.335 60.000 0.00 0.00 0.00 2.23
605 627 1.002533 ACGCACACCCTACCCCTAT 59.997 57.895 0.00 0.00 0.00 2.57
608 630 3.633116 ACACGCACACCCTACCCC 61.633 66.667 0.00 0.00 0.00 4.95
609 631 2.358247 CACACGCACACCCTACCC 60.358 66.667 0.00 0.00 0.00 3.69
611 633 2.604174 GCACACACGCACACCCTAC 61.604 63.158 0.00 0.00 0.00 3.18
613 635 3.772853 ATGCACACACGCACACCCT 62.773 57.895 0.00 0.00 46.56 4.34
614 636 2.731587 GAATGCACACACGCACACCC 62.732 60.000 0.00 0.00 46.56 4.61
615 637 1.370414 GAATGCACACACGCACACC 60.370 57.895 0.00 0.00 46.56 4.16
616 638 0.040157 ATGAATGCACACACGCACAC 60.040 50.000 0.00 0.00 46.56 3.82
617 639 1.464219 CTATGAATGCACACACGCACA 59.536 47.619 0.00 0.00 46.56 4.57
618 640 1.202065 CCTATGAATGCACACACGCAC 60.202 52.381 0.00 0.00 46.56 5.34
620 642 0.378257 CCCTATGAATGCACACACGC 59.622 55.000 0.00 0.00 0.00 5.34
621 643 2.022764 TCCCTATGAATGCACACACG 57.977 50.000 0.00 0.00 0.00 4.49
622 644 3.544684 TCATCCCTATGAATGCACACAC 58.455 45.455 0.00 0.00 39.20 3.82
635 657 1.343142 ACGCGCATACATTCATCCCTA 59.657 47.619 5.73 0.00 0.00 3.53
637 659 0.235665 CACGCGCATACATTCATCCC 59.764 55.000 5.73 0.00 0.00 3.85
638 660 0.937304 ACACGCGCATACATTCATCC 59.063 50.000 5.73 0.00 0.00 3.51
639 661 5.288472 TCATATACACGCGCATACATTCATC 59.712 40.000 5.73 0.00 0.00 2.92
640 662 5.167845 TCATATACACGCGCATACATTCAT 58.832 37.500 5.73 0.00 0.00 2.57
644 666 2.923655 GCTCATATACACGCGCATACAT 59.076 45.455 5.73 0.00 0.00 2.29
645 667 2.324860 GCTCATATACACGCGCATACA 58.675 47.619 5.73 0.00 0.00 2.29
646 668 1.317611 CGCTCATATACACGCGCATAC 59.682 52.381 5.73 0.00 39.11 2.39
647 669 1.613270 CGCTCATATACACGCGCATA 58.387 50.000 5.73 1.53 39.11 3.14
648 670 2.434688 CGCTCATATACACGCGCAT 58.565 52.632 5.73 0.00 39.11 4.73
653 675 2.193447 ACACAAGCGCTCATATACACG 58.807 47.619 12.06 0.00 0.00 4.49
654 676 4.142902 ACAAACACAAGCGCTCATATACAC 60.143 41.667 12.06 0.00 0.00 2.90
655 677 4.000325 ACAAACACAAGCGCTCATATACA 59.000 39.130 12.06 0.00 0.00 2.29
656 678 4.600012 ACAAACACAAGCGCTCATATAC 57.400 40.909 12.06 0.00 0.00 1.47
657 679 5.290885 CAGTACAAACACAAGCGCTCATATA 59.709 40.000 12.06 0.00 0.00 0.86
659 681 3.431912 CAGTACAAACACAAGCGCTCATA 59.568 43.478 12.06 0.00 0.00 2.15
660 682 2.224079 CAGTACAAACACAAGCGCTCAT 59.776 45.455 12.06 0.00 0.00 2.90
661 683 1.597195 CAGTACAAACACAAGCGCTCA 59.403 47.619 12.06 0.00 0.00 4.26
662 684 1.864711 TCAGTACAAACACAAGCGCTC 59.135 47.619 12.06 0.00 0.00 5.03
663 685 1.948104 TCAGTACAAACACAAGCGCT 58.052 45.000 2.64 2.64 0.00 5.92
664 686 2.574322 CATCAGTACAAACACAAGCGC 58.426 47.619 0.00 0.00 0.00 5.92
666 688 3.250762 TGAGCATCAGTACAAACACAAGC 59.749 43.478 0.00 0.00 42.56 4.01
874 2618 2.095252 GGAAGAAGAGTGCGACGGC 61.095 63.158 0.00 0.00 40.52 5.68
959 2705 0.033504 ATCACCGGTGGATATGCGTC 59.966 55.000 33.40 0.00 0.00 5.19
970 2716 0.824759 GGAAGCTACTGATCACCGGT 59.175 55.000 0.00 0.00 38.16 5.28
1215 2965 1.947642 CGTACGCTCCATAACGGCC 60.948 63.158 0.52 0.00 33.14 6.13
1217 2967 1.585214 GTTTCGTACGCTCCATAACGG 59.415 52.381 11.24 0.00 36.08 4.44
1218 2968 1.585214 GGTTTCGTACGCTCCATAACG 59.415 52.381 11.24 0.00 36.71 3.18
1219 2969 2.601763 CTGGTTTCGTACGCTCCATAAC 59.398 50.000 19.90 12.48 0.00 1.89
1220 2970 2.883574 CTGGTTTCGTACGCTCCATAA 58.116 47.619 19.90 4.02 0.00 1.90
1221 2971 1.470285 GCTGGTTTCGTACGCTCCATA 60.470 52.381 19.90 0.00 0.00 2.74
1317 3067 8.292444 TGGATAACAAGCTTGCTATGTTTATT 57.708 30.769 26.27 11.79 38.22 1.40
1319 3069 7.681782 GCATGGATAACAAGCTTGCTATGTTTA 60.682 37.037 26.27 15.58 40.49 2.01
1321 3071 5.450965 GCATGGATAACAAGCTTGCTATGTT 60.451 40.000 26.27 15.50 40.49 2.71
1324 3074 3.571401 GGCATGGATAACAAGCTTGCTAT 59.429 43.478 26.27 22.75 43.08 2.97
1325 3075 2.951642 GGCATGGATAACAAGCTTGCTA 59.048 45.455 26.27 18.87 43.08 3.49
1326 3076 1.753073 GGCATGGATAACAAGCTTGCT 59.247 47.619 26.27 17.12 43.08 3.91
1327 3077 1.477700 TGGCATGGATAACAAGCTTGC 59.522 47.619 26.27 9.56 43.08 4.01
1329 3079 3.091633 AGTGGCATGGATAACAAGCTT 57.908 42.857 0.00 0.00 43.08 3.74
1389 3171 7.436118 CAATATCAGGAAATGTTTATGGTGGG 58.564 38.462 0.00 0.00 0.00 4.61
1405 3187 6.974622 CCGTGAAAATTTCTTCCAATATCAGG 59.025 38.462 7.29 0.00 0.00 3.86
1528 3310 5.891551 GGCCCCTATTCAGTTTTGATCTAAA 59.108 40.000 0.00 0.00 32.27 1.85
1635 3424 4.697756 GCAGTGGTAGCACGGCCA 62.698 66.667 31.54 0.94 39.70 5.36
1641 3430 2.529136 AGGGTGGCAGTGGTAGCA 60.529 61.111 0.00 0.00 0.00 3.49
1653 3442 2.946988 TAGAGGGATGGCCGAGGGTG 62.947 65.000 0.00 0.00 33.83 4.61
1701 3490 4.442454 GGGGGTGTAAGGGCTGCC 62.442 72.222 11.05 11.05 0.00 4.85
1720 3509 2.613223 GGTCTTGGTGTCTAAGGAGTGC 60.613 54.545 0.00 0.00 0.00 4.40
1725 3514 3.100671 AGCTAGGTCTTGGTGTCTAAGG 58.899 50.000 0.00 0.00 0.00 2.69
1728 3517 3.097614 GGAAGCTAGGTCTTGGTGTCTA 58.902 50.000 0.00 0.00 0.00 2.59
1732 3521 0.253327 GGGGAAGCTAGGTCTTGGTG 59.747 60.000 0.00 0.00 0.00 4.17
1734 3523 0.976073 TCGGGGAAGCTAGGTCTTGG 60.976 60.000 0.00 0.00 0.00 3.61
1735 3524 0.175989 GTCGGGGAAGCTAGGTCTTG 59.824 60.000 0.00 0.00 0.00 3.02
1736 3525 1.321074 CGTCGGGGAAGCTAGGTCTT 61.321 60.000 0.00 0.00 0.00 3.01
1738 3527 1.318158 TTCGTCGGGGAAGCTAGGTC 61.318 60.000 0.00 0.00 0.00 3.85
1751 3544 2.432628 GAGGGTGCAGGTTCGTCG 60.433 66.667 0.00 0.00 0.00 5.12
1770 3563 2.651455 GGTGTCTATTTTAGGGGGTGC 58.349 52.381 0.00 0.00 0.00 5.01
1833 3626 4.552355 GTTCGGAAATAAAAACCCTGGTG 58.448 43.478 0.00 0.00 0.00 4.17
1834 3627 3.253921 CGTTCGGAAATAAAAACCCTGGT 59.746 43.478 0.00 0.00 0.00 4.00
1873 3666 6.710744 AGTTCAACAGATATTCGAAAACCAGT 59.289 34.615 0.00 0.00 0.00 4.00
1875 3668 6.148811 GGAGTTCAACAGATATTCGAAAACCA 59.851 38.462 0.00 0.00 0.00 3.67
1882 3675 4.921547 TCTCGGAGTTCAACAGATATTCG 58.078 43.478 4.69 0.00 0.00 3.34
1890 3684 3.625764 CCAACTTTTCTCGGAGTTCAACA 59.374 43.478 4.69 0.00 34.04 3.33
1895 3689 4.124970 GTGTACCAACTTTTCTCGGAGTT 58.875 43.478 4.69 0.00 36.58 3.01
1966 3760 7.940137 TGCTTTAACAAGGACACCTATTTCTAA 59.060 33.333 0.00 0.00 31.13 2.10
1967 3761 7.455058 TGCTTTAACAAGGACACCTATTTCTA 58.545 34.615 0.00 0.00 31.13 2.10
1968 3762 6.303839 TGCTTTAACAAGGACACCTATTTCT 58.696 36.000 0.00 0.00 31.13 2.52
1969 3763 6.569179 TGCTTTAACAAGGACACCTATTTC 57.431 37.500 0.00 0.00 31.13 2.17
2007 3802 0.528684 ATGCTCTAACGCTCTTCCGC 60.529 55.000 0.00 0.00 0.00 5.54
2017 3812 6.442952 CACTGGTAGTCATAGATGCTCTAAC 58.557 44.000 0.00 4.02 31.96 2.34
2018 3813 5.010112 GCACTGGTAGTCATAGATGCTCTAA 59.990 44.000 0.00 0.00 31.96 2.10
2019 3814 4.520874 GCACTGGTAGTCATAGATGCTCTA 59.479 45.833 0.00 0.00 32.87 2.43
2020 3815 3.320541 GCACTGGTAGTCATAGATGCTCT 59.679 47.826 0.00 0.00 0.00 4.09
2021 3816 3.553922 GGCACTGGTAGTCATAGATGCTC 60.554 52.174 0.00 0.00 32.44 4.26
2022 3817 2.366916 GGCACTGGTAGTCATAGATGCT 59.633 50.000 0.00 0.00 32.44 3.79
2023 3818 2.366916 AGGCACTGGTAGTCATAGATGC 59.633 50.000 0.00 0.00 37.18 3.91
2030 3825 2.236146 CCATGTTAGGCACTGGTAGTCA 59.764 50.000 0.00 0.00 41.52 3.41
2036 3831 0.394352 GGACCCATGTTAGGCACTGG 60.394 60.000 0.00 0.00 41.52 4.00
2037 3832 0.394352 GGGACCCATGTTAGGCACTG 60.394 60.000 5.33 0.00 41.52 3.66
2039 3834 1.209621 TAGGGACCCATGTTAGGCAC 58.790 55.000 14.60 0.00 0.00 5.01
2049 3844 2.248950 TCCACAGATGTATAGGGACCCA 59.751 50.000 14.60 0.00 0.00 4.51
2062 3857 1.267574 ATCTGGGCACGTCCACAGAT 61.268 55.000 18.71 18.71 42.72 2.90
2065 3860 2.347114 CATCTGGGCACGTCCACA 59.653 61.111 6.41 0.00 36.21 4.17
2066 3861 2.436646 CCATCTGGGCACGTCCAC 60.437 66.667 6.41 0.00 36.21 4.02
2087 3882 4.351938 TTCCGGTCACTGTCCGCG 62.352 66.667 9.00 0.00 45.71 6.46
2088 3883 2.432628 CTTCCGGTCACTGTCCGC 60.433 66.667 9.00 0.00 45.71 5.54
2089 3884 2.261671 CCTTCCGGTCACTGTCCG 59.738 66.667 0.00 7.65 46.49 4.79
2090 3885 2.663196 CCCTTCCGGTCACTGTCC 59.337 66.667 0.00 0.00 0.00 4.02
2091 3886 2.047179 GCCCTTCCGGTCACTGTC 60.047 66.667 0.00 0.00 0.00 3.51
2092 3887 3.637273 GGCCCTTCCGGTCACTGT 61.637 66.667 0.00 0.00 35.67 3.55
2093 3888 3.316573 GAGGCCCTTCCGGTCACTG 62.317 68.421 0.00 0.00 39.53 3.66
2094 3889 3.003763 GAGGCCCTTCCGGTCACT 61.004 66.667 0.00 0.00 39.53 3.41
2095 3890 2.406002 TTTGAGGCCCTTCCGGTCAC 62.406 60.000 0.00 0.00 39.53 3.67
2096 3891 1.497309 ATTTGAGGCCCTTCCGGTCA 61.497 55.000 0.00 0.00 39.53 4.02
2097 3892 1.032114 CATTTGAGGCCCTTCCGGTC 61.032 60.000 0.00 0.00 40.77 4.79
2098 3893 1.000896 CATTTGAGGCCCTTCCGGT 60.001 57.895 0.00 0.00 40.77 5.28
2099 3894 0.611896 AACATTTGAGGCCCTTCCGG 60.612 55.000 0.00 0.00 40.77 5.14
2100 3895 0.527565 CAACATTTGAGGCCCTTCCG 59.472 55.000 0.00 0.00 40.77 4.30
2101 3896 1.546029 GACAACATTTGAGGCCCTTCC 59.454 52.381 0.00 0.00 0.00 3.46
2102 3897 2.238521 TGACAACATTTGAGGCCCTTC 58.761 47.619 0.00 0.00 0.00 3.46
2103 3898 2.380064 TGACAACATTTGAGGCCCTT 57.620 45.000 0.00 0.00 0.00 3.95
2104 3899 2.610438 ATGACAACATTTGAGGCCCT 57.390 45.000 0.00 0.00 32.21 5.19
2120 3915 2.513753 AGGGTTCGTGATTGCAAATGA 58.486 42.857 1.71 0.00 0.00 2.57
2146 3941 7.628235 TGTGTTTGCATGTATTTGATGTTTTG 58.372 30.769 0.00 0.00 0.00 2.44
2176 3971 4.140518 TGTTTGACCAAAATGATCGACG 57.859 40.909 0.00 0.00 31.33 5.12


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

AutoCloner maintained by Alex Coulton.