Multiple sequence alignment - TraesCS6B01G252400

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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 TraesCS6B01G252400 chr6B 100.000 2307 0 0 1 2307 452593984 452596290 0.000000e+00 4261
1 TraesCS6B01G252400 chr6B 90.462 650 52 6 746 1388 235427547 235426901 0.000000e+00 848
2 TraesCS6B01G252400 chr6B 81.475 556 90 9 17 561 261270353 261269800 5.850000e-121 444
3 TraesCS6B01G252400 chr4A 91.094 640 48 5 746 1378 645865547 645866184 0.000000e+00 857
4 TraesCS6B01G252400 chr4A 91.667 180 12 2 563 739 645863486 645863665 1.770000e-61 246
5 TraesCS6B01G252400 chr5A 90.615 650 51 6 746 1388 12578899 12579545 0.000000e+00 854
6 TraesCS6B01G252400 chr5A 90.323 651 52 7 746 1388 688535907 688536554 0.000000e+00 843
7 TraesCS6B01G252400 chr1D 90.909 638 49 5 748 1378 416350888 416351523 0.000000e+00 848
8 TraesCS6B01G252400 chr1D 86.908 718 84 6 1490 2200 482239954 482240668 0.000000e+00 797
9 TraesCS6B01G252400 chr1D 87.500 256 27 2 1490 1740 4356703 4356958 8.060000e-75 291
10 TraesCS6B01G252400 chr1D 93.333 180 11 1 563 741 416348831 416349010 4.890000e-67 265
11 TraesCS6B01G252400 chr2D 90.796 641 48 5 746 1378 291873627 291872990 0.000000e+00 846
12 TraesCS6B01G252400 chr2D 85.616 730 97 6 1477 2201 447249433 447248707 0.000000e+00 760
13 TraesCS6B01G252400 chr2D 93.333 180 11 1 563 741 291875684 291875505 4.890000e-67 265
14 TraesCS6B01G252400 chr7A 90.154 650 54 5 746 1388 391444088 391443442 0.000000e+00 837
15 TraesCS6B01G252400 chr5B 91.396 616 43 5 563 1169 624957558 624958172 0.000000e+00 835
16 TraesCS6B01G252400 chr5B 91.234 616 43 6 563 1169 628530639 628531252 0.000000e+00 828
17 TraesCS6B01G252400 chr5B 93.514 185 10 2 563 745 531913806 531913622 8.120000e-70 274
18 TraesCS6B01G252400 chr6D 91.754 570 41 4 1 565 219094025 219093457 0.000000e+00 787
19 TraesCS6B01G252400 chr6D 95.000 180 8 1 563 741 407034077 407033898 4.850000e-72 281
20 TraesCS6B01G252400 chr6D 93.714 175 8 2 563 736 184050082 184049910 2.270000e-65 259
21 TraesCS6B01G252400 chr4D 85.535 719 98 4 1490 2203 495821983 495821266 0.000000e+00 747
22 TraesCS6B01G252400 chr6A 90.421 522 47 1 47 565 298560456 298560977 0.000000e+00 684
23 TraesCS6B01G252400 chr2B 84.970 672 86 11 1491 2157 602211256 602210595 0.000000e+00 667
24 TraesCS6B01G252400 chr2B 84.325 689 99 6 1490 2172 526884927 526884242 0.000000e+00 665
25 TraesCS6B01G252400 chr2B 86.207 464 48 9 1041 1490 249668293 249668754 2.660000e-134 488
26 TraesCS6B01G252400 chr3B 83.543 717 107 7 1490 2200 599003213 599003924 0.000000e+00 660
27 TraesCS6B01G252400 chr3B 82.425 569 75 12 1 562 309810064 309810614 7.460000e-130 473
28 TraesCS6B01G252400 chr3B 83.649 422 50 10 1076 1483 687069071 687069487 1.670000e-101 379
29 TraesCS6B01G252400 chr3D 83.172 725 93 11 1490 2207 38914109 38913407 8.990000e-179 636
30 TraesCS6B01G252400 chr3D 77.559 508 100 12 1 499 434969349 434969851 6.230000e-76 294
31 TraesCS6B01G252400 chr7B 81.754 707 115 7 1490 2190 448721181 448721879 1.540000e-161 579
32 TraesCS6B01G252400 chr4B 84.283 579 85 4 1490 2064 73671340 73670764 5.570000e-156 560
33 TraesCS6B01G252400 chr4B 95.055 182 6 2 563 741 505280268 505280449 1.350000e-72 283
34 TraesCS6B01G252400 chr5D 84.875 562 61 10 1 561 116719671 116719133 1.560000e-151 545
35 TraesCS6B01G252400 chr7D 84.091 572 78 12 1 563 412011685 412012252 7.250000e-150 540
36 TraesCS6B01G252400 chrUn 80.565 566 96 8 3 562 85694392 85693835 7.620000e-115 424
37 TraesCS6B01G252400 chrUn 81.893 243 40 2 3 241 235709296 235709538 3.890000e-48 202


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 TraesCS6B01G252400 chr6B 452593984 452596290 2306 False 4261.0 4261 100.0000 1 2307 1 chr6B.!!$F1 2306
1 TraesCS6B01G252400 chr6B 235426901 235427547 646 True 848.0 848 90.4620 746 1388 1 chr6B.!!$R1 642
2 TraesCS6B01G252400 chr6B 261269800 261270353 553 True 444.0 444 81.4750 17 561 1 chr6B.!!$R2 544
3 TraesCS6B01G252400 chr4A 645863486 645866184 2698 False 551.5 857 91.3805 563 1378 2 chr4A.!!$F1 815
4 TraesCS6B01G252400 chr5A 12578899 12579545 646 False 854.0 854 90.6150 746 1388 1 chr5A.!!$F1 642
5 TraesCS6B01G252400 chr5A 688535907 688536554 647 False 843.0 843 90.3230 746 1388 1 chr5A.!!$F2 642
6 TraesCS6B01G252400 chr1D 482239954 482240668 714 False 797.0 797 86.9080 1490 2200 1 chr1D.!!$F2 710
7 TraesCS6B01G252400 chr1D 416348831 416351523 2692 False 556.5 848 92.1210 563 1378 2 chr1D.!!$F3 815
8 TraesCS6B01G252400 chr2D 447248707 447249433 726 True 760.0 760 85.6160 1477 2201 1 chr2D.!!$R1 724
9 TraesCS6B01G252400 chr2D 291872990 291875684 2694 True 555.5 846 92.0645 563 1378 2 chr2D.!!$R2 815
10 TraesCS6B01G252400 chr7A 391443442 391444088 646 True 837.0 837 90.1540 746 1388 1 chr7A.!!$R1 642
11 TraesCS6B01G252400 chr5B 624957558 624958172 614 False 835.0 835 91.3960 563 1169 1 chr5B.!!$F1 606
12 TraesCS6B01G252400 chr5B 628530639 628531252 613 False 828.0 828 91.2340 563 1169 1 chr5B.!!$F2 606
13 TraesCS6B01G252400 chr6D 219093457 219094025 568 True 787.0 787 91.7540 1 565 1 chr6D.!!$R2 564
14 TraesCS6B01G252400 chr4D 495821266 495821983 717 True 747.0 747 85.5350 1490 2203 1 chr4D.!!$R1 713
15 TraesCS6B01G252400 chr6A 298560456 298560977 521 False 684.0 684 90.4210 47 565 1 chr6A.!!$F1 518
16 TraesCS6B01G252400 chr2B 602210595 602211256 661 True 667.0 667 84.9700 1491 2157 1 chr2B.!!$R2 666
17 TraesCS6B01G252400 chr2B 526884242 526884927 685 True 665.0 665 84.3250 1490 2172 1 chr2B.!!$R1 682
18 TraesCS6B01G252400 chr3B 599003213 599003924 711 False 660.0 660 83.5430 1490 2200 1 chr3B.!!$F2 710
19 TraesCS6B01G252400 chr3B 309810064 309810614 550 False 473.0 473 82.4250 1 562 1 chr3B.!!$F1 561
20 TraesCS6B01G252400 chr3D 38913407 38914109 702 True 636.0 636 83.1720 1490 2207 1 chr3D.!!$R1 717
21 TraesCS6B01G252400 chr3D 434969349 434969851 502 False 294.0 294 77.5590 1 499 1 chr3D.!!$F1 498
22 TraesCS6B01G252400 chr7B 448721181 448721879 698 False 579.0 579 81.7540 1490 2190 1 chr7B.!!$F1 700
23 TraesCS6B01G252400 chr4B 73670764 73671340 576 True 560.0 560 84.2830 1490 2064 1 chr4B.!!$R1 574
24 TraesCS6B01G252400 chr5D 116719133 116719671 538 True 545.0 545 84.8750 1 561 1 chr5D.!!$R1 560
25 TraesCS6B01G252400 chr7D 412011685 412012252 567 False 540.0 540 84.0910 1 563 1 chr7D.!!$F1 562
26 TraesCS6B01G252400 chrUn 85693835 85694392 557 True 424.0 424 80.5650 3 562 1 chrUn.!!$R1 559

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
91 92 0.396139 ATTGCGGGATCTGCCAACAT 60.396 50.0 7.8 0.0 38.95 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1669 3626 0.035725 CATCCCTCTCAACAGCAGCA 60.036 55.0 0.0 0.0 0.0 4.41 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
35 36 4.466370 ACGACAGAGTGAATTCCAGGAATA 59.534 41.667 15.55 0.00 31.46 1.75
65 66 5.192176 AGAGAAAATCCTTTCATCTGCCTC 58.808 41.667 0.86 0.00 42.99 4.70
66 67 3.944015 AGAAAATCCTTTCATCTGCCTCG 59.056 43.478 0.86 0.00 42.99 4.63
76 77 3.133691 TCATCTGCCTCGTTATGATTGC 58.866 45.455 0.00 0.00 0.00 3.56
78 79 0.583438 CTGCCTCGTTATGATTGCGG 59.417 55.000 0.00 0.00 0.00 5.69
91 92 0.396139 ATTGCGGGATCTGCCAACAT 60.396 50.000 7.80 0.00 38.95 2.71
149 151 3.519107 TGTGATCTCACCCAAGATTGCTA 59.481 43.478 7.81 0.00 45.88 3.49
253 262 6.507958 TTGCTACGGAAATTTTGATCATGA 57.492 33.333 0.00 0.00 0.00 3.07
260 269 7.881142 ACGGAAATTTTGATCATGAGTTGTTA 58.119 30.769 0.09 0.00 0.00 2.41
302 311 4.708726 ATGGGAAAATCTTCAAAGCTCG 57.291 40.909 0.00 0.00 32.75 5.03
303 312 3.750371 TGGGAAAATCTTCAAAGCTCGA 58.250 40.909 0.00 0.00 32.75 4.04
306 315 4.023193 GGGAAAATCTTCAAAGCTCGAACA 60.023 41.667 0.00 0.00 32.75 3.18
406 415 5.165961 AGCTCTGCTTGTTAATTGGACTA 57.834 39.130 0.00 0.00 33.89 2.59
408 417 5.645497 AGCTCTGCTTGTTAATTGGACTAAG 59.355 40.000 0.00 0.00 33.89 2.18
411 420 5.767665 TCTGCTTGTTAATTGGACTAAGCAA 59.232 36.000 20.28 14.33 46.52 3.91
441 450 7.728847 AAATTAGTTTTCCATGTTGCCTTTC 57.271 32.000 0.00 0.00 0.00 2.62
442 451 5.860941 TTAGTTTTCCATGTTGCCTTTCA 57.139 34.783 0.00 0.00 0.00 2.69
450 459 2.151502 TGTTGCCTTTCAGGTTCCAA 57.848 45.000 0.00 0.00 37.80 3.53
485 495 7.123547 AGTTGGTTGACTCCTTGTAAATTTCAA 59.876 33.333 0.00 0.00 0.00 2.69
545 555 5.468540 TCATAGAACGATTGGTCTATGGG 57.531 43.478 33.57 18.67 41.17 4.00
546 556 4.899457 TCATAGAACGATTGGTCTATGGGT 59.101 41.667 33.57 9.89 41.17 4.51
547 557 5.365605 TCATAGAACGATTGGTCTATGGGTT 59.634 40.000 33.57 9.57 41.17 4.11
548 558 4.138487 AGAACGATTGGTCTATGGGTTC 57.862 45.455 0.00 0.00 34.15 3.62
549 559 2.596904 ACGATTGGTCTATGGGTTCG 57.403 50.000 0.00 0.00 0.00 3.95
550 560 1.138266 ACGATTGGTCTATGGGTTCGG 59.862 52.381 0.00 0.00 0.00 4.30
551 561 1.138266 CGATTGGTCTATGGGTTCGGT 59.862 52.381 0.00 0.00 0.00 4.69
552 562 2.419574 CGATTGGTCTATGGGTTCGGTT 60.420 50.000 0.00 0.00 0.00 4.44
553 563 2.773993 TTGGTCTATGGGTTCGGTTC 57.226 50.000 0.00 0.00 0.00 3.62
554 564 1.646912 TGGTCTATGGGTTCGGTTCA 58.353 50.000 0.00 0.00 0.00 3.18
555 565 1.979308 TGGTCTATGGGTTCGGTTCAA 59.021 47.619 0.00 0.00 0.00 2.69
556 566 2.372504 TGGTCTATGGGTTCGGTTCAAA 59.627 45.455 0.00 0.00 0.00 2.69
557 567 3.181442 TGGTCTATGGGTTCGGTTCAAAA 60.181 43.478 0.00 0.00 0.00 2.44
558 568 3.822167 GGTCTATGGGTTCGGTTCAAAAA 59.178 43.478 0.00 0.00 0.00 1.94
612 622 3.199946 GTCATCCTGGGGAAACATCAGTA 59.800 47.826 0.00 0.00 34.34 2.74
615 625 4.047166 ATCCTGGGGAAACATCAGTATGA 58.953 43.478 0.00 0.00 42.97 2.15
647 657 3.694734 CGCAAGAGAAAAGCACAAGAAA 58.305 40.909 0.00 0.00 43.02 2.52
731 745 5.336150 AGTGTCATCTGGTAATCAGTCTG 57.664 43.478 0.00 0.00 43.76 3.51
776 2668 9.258826 CAGAGGAATCATTTAGAGTCAACTATG 57.741 37.037 0.00 0.00 42.95 2.23
848 2740 6.599244 TGAGCAATATGAAGGTTACCAGAAAG 59.401 38.462 3.51 0.00 0.00 2.62
1014 2914 9.570488 CTTCAAAATTTCATGCCAAAAGAAAAA 57.430 25.926 0.00 0.00 35.20 1.94
1103 3003 6.989169 GCATATAGAGTTCTGTTGACCATTCT 59.011 38.462 0.00 0.00 0.00 2.40
1119 3019 4.826733 ACCATTCTTGTGACAGTTGCATTA 59.173 37.500 0.00 0.00 0.00 1.90
1179 3079 7.204496 AGTCCTATATGCGTACTACTTTGAG 57.796 40.000 0.00 0.00 0.00 3.02
1324 3273 9.717942 TTCAAATAATTAACAAATGGGAGTTGG 57.282 29.630 0.00 0.00 0.00 3.77
1335 3284 5.568620 AATGGGAGTTGGATAGGTATGAC 57.431 43.478 0.00 0.00 0.00 3.06
1419 3370 5.796350 ACACCATAATTGCTCGTTAGTTC 57.204 39.130 0.00 0.00 0.00 3.01
1420 3371 5.242434 ACACCATAATTGCTCGTTAGTTCA 58.758 37.500 0.00 0.00 0.00 3.18
1421 3372 5.880332 ACACCATAATTGCTCGTTAGTTCAT 59.120 36.000 0.00 0.00 0.00 2.57
1422 3373 6.374333 ACACCATAATTGCTCGTTAGTTCATT 59.626 34.615 0.00 0.00 0.00 2.57
1423 3374 7.094377 ACACCATAATTGCTCGTTAGTTCATTT 60.094 33.333 0.00 0.00 0.00 2.32
1424 3375 7.754924 CACCATAATTGCTCGTTAGTTCATTTT 59.245 33.333 0.00 0.00 0.00 1.82
1425 3376 8.303876 ACCATAATTGCTCGTTAGTTCATTTTT 58.696 29.630 0.00 0.00 0.00 1.94
1465 3416 4.600692 AAATTAGTTTCACACAAGGCCC 57.399 40.909 0.00 0.00 0.00 5.80
1466 3417 1.989706 TTAGTTTCACACAAGGCCCC 58.010 50.000 0.00 0.00 0.00 5.80
1467 3418 0.250553 TAGTTTCACACAAGGCCCCG 60.251 55.000 0.00 0.00 0.00 5.73
1468 3419 2.203422 TTTCACACAAGGCCCCGG 60.203 61.111 0.00 0.00 0.00 5.73
1469 3420 2.758207 TTTCACACAAGGCCCCGGA 61.758 57.895 0.73 0.00 0.00 5.14
1470 3421 2.075355 TTTCACACAAGGCCCCGGAT 62.075 55.000 0.73 0.00 0.00 4.18
1471 3422 2.035626 CACACAAGGCCCCGGATT 59.964 61.111 0.73 0.00 0.00 3.01
1472 3423 1.606313 CACACAAGGCCCCGGATTT 60.606 57.895 0.73 0.00 0.00 2.17
1473 3424 1.155155 ACACAAGGCCCCGGATTTT 59.845 52.632 0.73 0.00 0.00 1.82
1474 3425 1.184970 ACACAAGGCCCCGGATTTTG 61.185 55.000 0.73 4.66 0.00 2.44
1475 3426 2.282783 ACAAGGCCCCGGATTTTGC 61.283 57.895 0.73 0.00 0.00 3.68
1476 3427 2.683572 AAGGCCCCGGATTTTGCC 60.684 61.111 0.73 6.93 44.35 4.52
1484 3435 3.822192 GGATTTTGCCGGCCCGAC 61.822 66.667 26.77 11.48 0.00 4.79
1485 3436 3.822192 GATTTTGCCGGCCCGACC 61.822 66.667 26.77 6.74 0.00 4.79
1601 3558 1.764134 GTAGGACGAGAGAGAGGAGGA 59.236 57.143 0.00 0.00 0.00 3.71
1669 3626 3.812167 GCAAGGAGGTCAAGAGGAACAAT 60.812 47.826 0.00 0.00 34.85 2.71
1675 3632 2.157738 GTCAAGAGGAACAATGCTGCT 58.842 47.619 0.00 0.00 0.00 4.24
1678 3635 2.283145 AGAGGAACAATGCTGCTGTT 57.717 45.000 6.94 6.94 39.69 3.16
1761 3720 2.502492 ATGGCGGATCGTGGAGAGG 61.502 63.158 0.00 0.00 0.00 3.69
1762 3721 3.917760 GGCGGATCGTGGAGAGGG 61.918 72.222 0.00 0.00 0.00 4.30
1810 3769 6.393990 ACAGAAAACTTGCAACACAAATGTA 58.606 32.000 0.00 0.00 38.45 2.29
1829 3788 3.258372 TGTAGTGAGGAACTGCGAGATTT 59.742 43.478 0.00 0.00 43.93 2.17
1869 3828 4.955925 ATTTTAAATGGTCGATCGTGCA 57.044 36.364 15.94 0.00 0.00 4.57
1870 3829 4.955925 TTTTAAATGGTCGATCGTGCAT 57.044 36.364 15.94 0.88 0.00 3.96
1873 3832 2.022764 AATGGTCGATCGTGCATGAA 57.977 45.000 13.65 0.00 0.00 2.57
1913 3872 4.331968 TCCAAAATAGCTCCAAACGTGAT 58.668 39.130 0.00 0.00 0.00 3.06
1949 3908 5.571357 GCATTTACGGTTGACAAAACTATGG 59.429 40.000 0.00 0.00 0.00 2.74
1952 3911 3.811083 ACGGTTGACAAAACTATGGACA 58.189 40.909 0.00 0.00 0.00 4.02
2036 3995 6.791887 ATCGAAGCACCATTATGTAGATTG 57.208 37.500 0.00 0.00 0.00 2.67
2064 4027 6.157123 GGGGAGAAGAAAGAAAGGAGATTAGA 59.843 42.308 0.00 0.00 0.00 2.10
2082 4045 2.462723 AGAGAGGAGGTTAGTTGAGGC 58.537 52.381 0.00 0.00 0.00 4.70
2084 4047 1.903183 AGAGGAGGTTAGTTGAGGCAC 59.097 52.381 0.00 0.00 0.00 5.01
2095 4059 1.949525 GTTGAGGCACAAGAGAAGCAA 59.050 47.619 0.00 0.00 39.30 3.91
2103 4067 4.222114 GCACAAGAGAAGCAATTACACAC 58.778 43.478 0.00 0.00 0.00 3.82
2125 4089 2.381941 GCATCCCTCCAGCCTCCTT 61.382 63.158 0.00 0.00 0.00 3.36
2192 4157 2.213499 CCTGAGTCGTTGAAAACTGCT 58.787 47.619 0.00 0.00 46.99 4.24
2203 4168 5.159209 GTTGAAAACTGCTGATCTGAATGG 58.841 41.667 3.42 0.00 45.32 3.16
2205 4170 4.828939 TGAAAACTGCTGATCTGAATGGTT 59.171 37.500 3.42 0.07 0.00 3.67
2206 4171 5.048504 TGAAAACTGCTGATCTGAATGGTTC 60.049 40.000 3.42 2.17 0.00 3.62
2207 4172 3.708403 ACTGCTGATCTGAATGGTTCA 57.292 42.857 3.42 0.00 38.17 3.18
2208 4173 4.232188 ACTGCTGATCTGAATGGTTCAT 57.768 40.909 3.42 0.00 39.30 2.57
2209 4174 3.945921 ACTGCTGATCTGAATGGTTCATG 59.054 43.478 3.42 0.00 39.30 3.07
2210 4175 2.686405 TGCTGATCTGAATGGTTCATGC 59.314 45.455 3.42 0.00 39.30 4.06
2211 4176 2.286831 GCTGATCTGAATGGTTCATGCG 60.287 50.000 3.42 0.00 39.30 4.73
2212 4177 1.672363 TGATCTGAATGGTTCATGCGC 59.328 47.619 0.00 0.00 39.30 6.09
2213 4178 1.002033 GATCTGAATGGTTCATGCGCC 60.002 52.381 4.18 0.00 39.30 6.53
2214 4179 0.322366 TCTGAATGGTTCATGCGCCA 60.322 50.000 4.18 9.88 39.30 5.69
2215 4180 0.099968 CTGAATGGTTCATGCGCCAG 59.900 55.000 4.18 0.00 39.30 4.85
2216 4181 0.322366 TGAATGGTTCATGCGCCAGA 60.322 50.000 4.18 0.00 38.27 3.86
2217 4182 0.379669 GAATGGTTCATGCGCCAGAG 59.620 55.000 4.18 0.00 38.27 3.35
2218 4183 1.033746 AATGGTTCATGCGCCAGAGG 61.034 55.000 4.18 0.00 38.27 3.69
2219 4184 1.913951 ATGGTTCATGCGCCAGAGGA 61.914 55.000 4.18 0.00 38.27 3.71
2220 4185 2.109126 GGTTCATGCGCCAGAGGAC 61.109 63.158 4.18 0.00 0.00 3.85
2221 4186 1.375908 GTTCATGCGCCAGAGGACA 60.376 57.895 4.18 0.00 0.00 4.02
2222 4187 1.078918 TTCATGCGCCAGAGGACAG 60.079 57.895 4.18 0.00 0.00 3.51
2223 4188 1.543944 TTCATGCGCCAGAGGACAGA 61.544 55.000 4.18 0.00 0.00 3.41
2224 4189 1.078918 CATGCGCCAGAGGACAGAA 60.079 57.895 4.18 0.00 0.00 3.02
2225 4190 1.088340 CATGCGCCAGAGGACAGAAG 61.088 60.000 4.18 0.00 0.00 2.85
2226 4191 2.817396 GCGCCAGAGGACAGAAGC 60.817 66.667 0.00 0.00 0.00 3.86
2227 4192 2.125350 CGCCAGAGGACAGAAGCC 60.125 66.667 0.00 0.00 0.00 4.35
2228 4193 2.947532 CGCCAGAGGACAGAAGCCA 61.948 63.158 0.00 0.00 0.00 4.75
2229 4194 1.078567 GCCAGAGGACAGAAGCCAG 60.079 63.158 0.00 0.00 0.00 4.85
2230 4195 1.548357 GCCAGAGGACAGAAGCCAGA 61.548 60.000 0.00 0.00 0.00 3.86
2231 4196 0.979665 CCAGAGGACAGAAGCCAGAA 59.020 55.000 0.00 0.00 0.00 3.02
2232 4197 1.066286 CCAGAGGACAGAAGCCAGAAG 60.066 57.143 0.00 0.00 0.00 2.85
2233 4198 1.622811 CAGAGGACAGAAGCCAGAAGT 59.377 52.381 0.00 0.00 0.00 3.01
2234 4199 1.622811 AGAGGACAGAAGCCAGAAGTG 59.377 52.381 0.00 0.00 0.00 3.16
2235 4200 0.036022 AGGACAGAAGCCAGAAGTGC 59.964 55.000 0.00 0.00 0.00 4.40
2236 4201 0.036022 GGACAGAAGCCAGAAGTGCT 59.964 55.000 0.00 0.00 41.89 4.40
2237 4202 1.437625 GACAGAAGCCAGAAGTGCTC 58.562 55.000 0.00 0.00 38.34 4.26
2238 4203 0.036022 ACAGAAGCCAGAAGTGCTCC 59.964 55.000 0.00 0.00 38.34 4.70
2239 4204 0.676151 CAGAAGCCAGAAGTGCTCCC 60.676 60.000 0.00 0.00 38.34 4.30
2240 4205 1.743252 GAAGCCAGAAGTGCTCCCG 60.743 63.158 0.00 0.00 38.34 5.14
2241 4206 2.456287 GAAGCCAGAAGTGCTCCCGT 62.456 60.000 0.00 0.00 38.34 5.28
2242 4207 2.435059 GCCAGAAGTGCTCCCGTC 60.435 66.667 0.00 0.00 0.00 4.79
2243 4208 3.059982 CCAGAAGTGCTCCCGTCA 58.940 61.111 0.00 0.00 0.00 4.35
2244 4209 1.371183 CCAGAAGTGCTCCCGTCAA 59.629 57.895 0.00 0.00 0.00 3.18
2245 4210 0.671781 CCAGAAGTGCTCCCGTCAAG 60.672 60.000 0.00 0.00 0.00 3.02
2246 4211 0.671781 CAGAAGTGCTCCCGTCAAGG 60.672 60.000 0.00 0.00 40.63 3.61
2247 4212 1.122019 AGAAGTGCTCCCGTCAAGGT 61.122 55.000 0.00 0.00 38.74 3.50
2248 4213 0.670854 GAAGTGCTCCCGTCAAGGTC 60.671 60.000 0.00 0.00 38.74 3.85
2249 4214 1.407656 AAGTGCTCCCGTCAAGGTCA 61.408 55.000 0.00 0.00 38.74 4.02
2250 4215 1.668151 GTGCTCCCGTCAAGGTCAC 60.668 63.158 0.00 0.00 38.74 3.67
2251 4216 2.432628 GCTCCCGTCAAGGTCACG 60.433 66.667 0.00 0.00 38.74 4.35
2252 4217 2.432628 CTCCCGTCAAGGTCACGC 60.433 66.667 0.00 0.00 38.74 5.34
2253 4218 3.934391 CTCCCGTCAAGGTCACGCC 62.934 68.421 0.00 0.00 38.74 5.68
2255 4220 4.308458 CCGTCAAGGTCACGCCCA 62.308 66.667 0.00 0.00 38.26 5.36
2256 4221 3.041940 CGTCAAGGTCACGCCCAC 61.042 66.667 0.00 0.00 38.26 4.61
2257 4222 2.668550 GTCAAGGTCACGCCCACC 60.669 66.667 0.00 0.00 38.26 4.61
2258 4223 3.948719 TCAAGGTCACGCCCACCC 61.949 66.667 0.00 0.00 38.26 4.61
2259 4224 3.953775 CAAGGTCACGCCCACCCT 61.954 66.667 0.00 0.00 38.26 4.34
2260 4225 2.203877 AAGGTCACGCCCACCCTA 60.204 61.111 0.00 0.00 38.26 3.53
2261 4226 2.291043 AAGGTCACGCCCACCCTAG 61.291 63.158 0.00 0.00 38.26 3.02
2262 4227 3.782443 GGTCACGCCCACCCTAGG 61.782 72.222 0.06 0.06 0.00 3.02
2263 4228 2.682494 GTCACGCCCACCCTAGGA 60.682 66.667 11.48 0.00 0.00 2.94
2264 4229 2.064581 GTCACGCCCACCCTAGGAT 61.065 63.158 11.48 0.00 0.00 3.24
2265 4230 2.063979 TCACGCCCACCCTAGGATG 61.064 63.158 11.48 2.02 0.00 3.51
2266 4231 2.040606 ACGCCCACCCTAGGATGT 59.959 61.111 11.48 0.00 0.00 3.06
2267 4232 2.064581 ACGCCCACCCTAGGATGTC 61.065 63.158 11.48 0.00 0.00 3.06
2268 4233 1.762460 CGCCCACCCTAGGATGTCT 60.762 63.158 11.48 0.00 0.00 3.41
2269 4234 1.338136 CGCCCACCCTAGGATGTCTT 61.338 60.000 11.48 0.00 0.00 3.01
2270 4235 0.470341 GCCCACCCTAGGATGTCTTC 59.530 60.000 11.48 0.00 0.00 2.87
2271 4236 0.753262 CCCACCCTAGGATGTCTTCG 59.247 60.000 11.48 0.00 0.00 3.79
2272 4237 0.753262 CCACCCTAGGATGTCTTCGG 59.247 60.000 11.48 0.00 0.00 4.30
2273 4238 0.753262 CACCCTAGGATGTCTTCGGG 59.247 60.000 11.48 0.84 39.50 5.14
2274 4239 0.398664 ACCCTAGGATGTCTTCGGGG 60.399 60.000 11.48 0.00 38.55 5.73
2275 4240 1.122019 CCCTAGGATGTCTTCGGGGG 61.122 65.000 11.48 0.00 33.71 5.40
2276 4241 1.749033 CTAGGATGTCTTCGGGGGC 59.251 63.158 0.00 0.00 0.00 5.80
2277 4242 1.759459 CTAGGATGTCTTCGGGGGCC 61.759 65.000 0.00 0.00 0.00 5.80
2278 4243 4.191015 GGATGTCTTCGGGGGCCC 62.191 72.222 15.76 15.76 0.00 5.80
2292 4257 4.329545 GCCCGTGGTCAGCCTGAA 62.330 66.667 0.00 0.00 35.27 3.02
2293 4258 2.046892 CCCGTGGTCAGCCTGAAG 60.047 66.667 0.00 0.00 35.27 3.02
2294 4259 2.583441 CCCGTGGTCAGCCTGAAGA 61.583 63.158 0.00 0.00 35.27 2.87
2295 4260 1.079543 CCGTGGTCAGCCTGAAGAG 60.080 63.158 0.00 0.00 35.27 2.85
2296 4261 1.079543 CGTGGTCAGCCTGAAGAGG 60.080 63.158 0.00 0.00 43.19 3.69
2297 4262 1.298014 GTGGTCAGCCTGAAGAGGG 59.702 63.158 0.00 0.00 40.19 4.30
2303 4268 4.168291 GCCTGAAGAGGGCCTCGG 62.168 72.222 27.11 22.12 43.49 4.63
2304 4269 4.168291 CCTGAAGAGGGCCTCGGC 62.168 72.222 27.11 22.10 35.40 5.54
2305 4270 3.393970 CTGAAGAGGGCCTCGGCA 61.394 66.667 27.11 25.09 44.11 5.69
2306 4271 2.688666 TGAAGAGGGCCTCGGCAT 60.689 61.111 27.11 15.07 44.11 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 3.319137 TTCCTGGAATTCACTCTGTCG 57.681 47.619 4.68 0.00 0.00 4.35
65 66 1.195448 GCAGATCCCGCAATCATAACG 59.805 52.381 0.00 0.00 0.00 3.18
66 67 1.537202 GGCAGATCCCGCAATCATAAC 59.463 52.381 7.01 0.00 0.00 1.89
76 77 0.179048 TGCTATGTTGGCAGATCCCG 60.179 55.000 0.00 0.00 34.56 5.14
78 79 1.945394 CAGTGCTATGTTGGCAGATCC 59.055 52.381 0.00 0.00 40.54 3.36
91 92 5.526111 GTGTAAGGTTGTTTCTTCAGTGCTA 59.474 40.000 0.00 0.00 0.00 3.49
133 135 4.187694 GAGTTCTAGCAATCTTGGGTGAG 58.812 47.826 0.00 0.00 0.00 3.51
149 151 1.488393 GCTGGCCTAAGATGGAGTTCT 59.512 52.381 3.32 0.00 0.00 3.01
253 262 4.910195 TGCATCCAGATGTTCTAACAACT 58.090 39.130 9.29 0.00 41.91 3.16
260 269 0.251354 ACGCTGCATCCAGATGTTCT 59.749 50.000 9.29 0.00 41.77 3.01
302 311 3.305608 CCAAGCTTGAATGGAAGGTGTTC 60.306 47.826 28.05 0.00 39.12 3.18
303 312 2.629617 CCAAGCTTGAATGGAAGGTGTT 59.370 45.455 28.05 0.00 39.12 3.32
306 315 2.376518 TCTCCAAGCTTGAATGGAAGGT 59.623 45.455 28.05 0.00 44.77 3.50
411 420 9.435688 GGCAACATGGAAAACTAATTTAGAAAT 57.564 29.630 10.39 0.00 0.00 2.17
450 459 4.983671 GAGTCAACCAACTCCAGTTTTT 57.016 40.909 0.00 0.00 39.85 1.94
523 533 4.899457 ACCCATAGACCAATCGTTCTATGA 59.101 41.667 16.66 0.00 42.57 2.15
526 536 4.202080 CGAACCCATAGACCAATCGTTCTA 60.202 45.833 0.00 0.00 0.00 2.10
527 537 3.430374 CGAACCCATAGACCAATCGTTCT 60.430 47.826 0.00 0.00 0.00 3.01
528 538 2.864343 CGAACCCATAGACCAATCGTTC 59.136 50.000 0.00 0.00 0.00 3.95
529 539 2.419574 CCGAACCCATAGACCAATCGTT 60.420 50.000 0.00 0.00 0.00 3.85
530 540 1.138266 CCGAACCCATAGACCAATCGT 59.862 52.381 0.00 0.00 0.00 3.73
531 541 1.138266 ACCGAACCCATAGACCAATCG 59.862 52.381 0.00 0.00 0.00 3.34
532 542 3.203716 GAACCGAACCCATAGACCAATC 58.796 50.000 0.00 0.00 0.00 2.67
533 543 2.574369 TGAACCGAACCCATAGACCAAT 59.426 45.455 0.00 0.00 0.00 3.16
534 544 1.979308 TGAACCGAACCCATAGACCAA 59.021 47.619 0.00 0.00 0.00 3.67
535 545 1.646912 TGAACCGAACCCATAGACCA 58.353 50.000 0.00 0.00 0.00 4.02
536 546 2.773993 TTGAACCGAACCCATAGACC 57.226 50.000 0.00 0.00 0.00 3.85
612 622 3.007290 TCTCTTGCGCTTATAGGCATCAT 59.993 43.478 9.73 0.00 39.21 2.45
615 625 3.475566 TTCTCTTGCGCTTATAGGCAT 57.524 42.857 9.73 0.00 39.21 4.40
705 719 4.256110 CTGATTACCAGATGACACTTGCA 58.744 43.478 0.00 0.00 45.78 4.08
731 745 5.078411 TCTGCAGACTCTAAAGGATCAAC 57.922 43.478 13.74 0.00 0.00 3.18
776 2668 8.915871 ATTGCTTGATCAACAACACATATAAC 57.084 30.769 19.09 0.00 34.56 1.89
1014 2914 8.606040 AATTTGGAATTTCAACATGTTCGATT 57.394 26.923 8.48 8.97 0.00 3.34
1179 3079 5.618640 GCCAAATCATTGAGTCTCTGTTGTC 60.619 44.000 0.65 0.00 38.94 3.18
1293 3242 9.883142 TCCCATTTGTTAATTATTTGAACATCC 57.117 29.630 0.00 0.00 33.33 3.51
1307 3256 6.147437 ACCTATCCAACTCCCATTTGTTAA 57.853 37.500 0.00 0.00 0.00 2.01
1314 3263 4.832492 AGTCATACCTATCCAACTCCCAT 58.168 43.478 0.00 0.00 0.00 4.00
1315 3264 4.280789 AGTCATACCTATCCAACTCCCA 57.719 45.455 0.00 0.00 0.00 4.37
1393 3344 9.204570 GAACTAACGAGCAATTATGGTGTATAT 57.795 33.333 0.00 0.00 37.41 0.86
1394 3345 8.198778 TGAACTAACGAGCAATTATGGTGTATA 58.801 33.333 0.00 0.00 37.41 1.47
1395 3346 7.045416 TGAACTAACGAGCAATTATGGTGTAT 58.955 34.615 0.00 0.00 37.41 2.29
1396 3347 6.399743 TGAACTAACGAGCAATTATGGTGTA 58.600 36.000 0.00 0.00 37.41 2.90
1397 3348 5.242434 TGAACTAACGAGCAATTATGGTGT 58.758 37.500 0.00 0.00 37.41 4.16
1398 3349 5.794687 TGAACTAACGAGCAATTATGGTG 57.205 39.130 0.00 0.00 37.41 4.17
1399 3350 7.391148 AAATGAACTAACGAGCAATTATGGT 57.609 32.000 0.00 0.00 40.72 3.55
1400 3351 8.687824 AAAAATGAACTAACGAGCAATTATGG 57.312 30.769 0.00 0.00 0.00 2.74
1442 3393 5.364778 GGGCCTTGTGTGAAACTAATTTTT 58.635 37.500 0.84 0.00 38.04 1.94
1443 3394 4.202315 GGGGCCTTGTGTGAAACTAATTTT 60.202 41.667 0.84 0.00 38.04 1.82
1444 3395 3.323691 GGGGCCTTGTGTGAAACTAATTT 59.676 43.478 0.84 0.00 38.04 1.82
1445 3396 2.897326 GGGGCCTTGTGTGAAACTAATT 59.103 45.455 0.84 0.00 38.04 1.40
1446 3397 2.525368 GGGGCCTTGTGTGAAACTAAT 58.475 47.619 0.84 0.00 38.04 1.73
1447 3398 1.816183 CGGGGCCTTGTGTGAAACTAA 60.816 52.381 0.84 0.00 38.04 2.24
1448 3399 0.250553 CGGGGCCTTGTGTGAAACTA 60.251 55.000 0.84 0.00 38.04 2.24
1449 3400 1.528309 CGGGGCCTTGTGTGAAACT 60.528 57.895 0.84 0.00 38.04 2.66
1450 3401 2.561037 CCGGGGCCTTGTGTGAAAC 61.561 63.158 0.84 0.00 37.35 2.78
1451 3402 2.075355 ATCCGGGGCCTTGTGTGAAA 62.075 55.000 0.84 0.00 0.00 2.69
1452 3403 2.075355 AATCCGGGGCCTTGTGTGAA 62.075 55.000 0.84 0.00 0.00 3.18
1453 3404 2.075355 AAATCCGGGGCCTTGTGTGA 62.075 55.000 0.84 0.00 0.00 3.58
1454 3405 1.184970 AAAATCCGGGGCCTTGTGTG 61.185 55.000 0.84 0.00 0.00 3.82
1455 3406 1.155155 AAAATCCGGGGCCTTGTGT 59.845 52.632 0.84 0.00 0.00 3.72
1456 3407 1.591183 CAAAATCCGGGGCCTTGTG 59.409 57.895 0.84 0.00 0.00 3.33
1457 3408 2.282783 GCAAAATCCGGGGCCTTGT 61.283 57.895 0.84 0.00 0.00 3.16
1458 3409 2.578664 GCAAAATCCGGGGCCTTG 59.421 61.111 0.84 0.00 0.00 3.61
1459 3410 2.683572 GGCAAAATCCGGGGCCTT 60.684 61.111 0.84 0.00 43.09 4.35
1467 3418 3.822192 GTCGGGCCGGCAAAATCC 61.822 66.667 30.85 18.89 0.00 3.01
1468 3419 3.822192 GGTCGGGCCGGCAAAATC 61.822 66.667 33.45 10.80 30.88 2.17
1478 3429 2.813908 CAACTAGCACGGTCGGGC 60.814 66.667 9.83 9.83 46.56 6.13
1479 3430 2.813908 GCAACTAGCACGGTCGGG 60.814 66.667 0.00 0.00 44.79 5.14
1571 3528 0.881796 CTCGTCCTACTGCACTGACA 59.118 55.000 0.00 0.00 0.00 3.58
1601 3558 0.817654 TCCAGCATCGTTCATCTCGT 59.182 50.000 0.00 0.00 0.00 4.18
1669 3626 0.035725 CATCCCTCTCAACAGCAGCA 60.036 55.000 0.00 0.00 0.00 4.41
1675 3632 3.969976 CCTCCTATTCATCCCTCTCAACA 59.030 47.826 0.00 0.00 0.00 3.33
1678 3635 2.761416 GCCCTCCTATTCATCCCTCTCA 60.761 54.545 0.00 0.00 0.00 3.27
1715 3674 5.444745 GCGCACACTGTATTTCTTCTACTTC 60.445 44.000 0.30 0.00 0.00 3.01
1716 3675 4.389077 GCGCACACTGTATTTCTTCTACTT 59.611 41.667 0.30 0.00 0.00 2.24
1754 3713 3.767268 ATCTCGGCCCCCTCTCCA 61.767 66.667 0.00 0.00 0.00 3.86
1761 3720 0.107214 TGATTGTTCATCTCGGCCCC 60.107 55.000 0.00 0.00 32.34 5.80
1762 3721 1.972872 ATGATTGTTCATCTCGGCCC 58.027 50.000 0.00 0.00 38.18 5.80
1810 3769 2.613977 CCAAATCTCGCAGTTCCTCACT 60.614 50.000 0.00 0.00 35.35 3.41
1829 3788 6.478512 AAAATTTCTTTTGACCAGTAGCCA 57.521 33.333 0.00 0.00 33.33 4.75
1844 3803 6.027749 GCACGATCGACCATTTAAAATTTCT 58.972 36.000 24.34 0.00 0.00 2.52
1913 3872 5.446143 ACCGTAAATGCTCAATTTTGTGA 57.554 34.783 0.00 0.00 39.29 3.58
1949 3908 3.442273 TGGTTCCATTTAGGCGATTTGTC 59.558 43.478 0.00 0.00 37.29 3.18
1952 3911 5.654650 TGTTATGGTTCCATTTAGGCGATTT 59.345 36.000 9.70 0.00 37.29 2.17
2036 3995 2.913617 TCCTTTCTTTCTTCTCCCCTCC 59.086 50.000 0.00 0.00 0.00 4.30
2064 4027 1.903183 GTGCCTCAACTAACCTCCTCT 59.097 52.381 0.00 0.00 0.00 3.69
2082 4045 4.516698 AGGTGTGTAATTGCTTCTCTTGTG 59.483 41.667 0.00 0.00 0.00 3.33
2084 4047 4.143030 CGAGGTGTGTAATTGCTTCTCTTG 60.143 45.833 0.00 0.00 0.00 3.02
2095 4059 1.139058 GAGGGATGCGAGGTGTGTAAT 59.861 52.381 0.00 0.00 0.00 1.89
2103 4067 4.247380 GGCTGGAGGGATGCGAGG 62.247 72.222 0.00 0.00 0.00 4.63
2125 4089 4.932105 GTGGGCCCCTTGCACCAA 62.932 66.667 22.27 0.00 45.47 3.67
2145 4110 2.126734 GCCACAATGAGCGCACAC 60.127 61.111 10.42 0.47 0.00 3.82
2177 4142 3.494626 TCAGATCAGCAGTTTTCAACGAC 59.505 43.478 0.00 0.00 36.23 4.34
2181 4146 4.828939 ACCATTCAGATCAGCAGTTTTCAA 59.171 37.500 0.00 0.00 0.00 2.69
2192 4157 1.672363 GCGCATGAACCATTCAGATCA 59.328 47.619 0.30 0.00 43.98 2.92
2203 4168 1.364626 CTGTCCTCTGGCGCATGAAC 61.365 60.000 10.83 3.33 0.00 3.18
2205 4170 1.543944 TTCTGTCCTCTGGCGCATGA 61.544 55.000 10.83 5.47 0.00 3.07
2206 4171 1.078918 TTCTGTCCTCTGGCGCATG 60.079 57.895 10.83 0.05 0.00 4.06
2207 4172 1.220206 CTTCTGTCCTCTGGCGCAT 59.780 57.895 10.83 0.00 0.00 4.73
2208 4173 2.659016 CTTCTGTCCTCTGGCGCA 59.341 61.111 10.83 0.00 0.00 6.09
2209 4174 2.817396 GCTTCTGTCCTCTGGCGC 60.817 66.667 0.00 0.00 0.00 6.53
2210 4175 2.125350 GGCTTCTGTCCTCTGGCG 60.125 66.667 0.00 0.00 0.00 5.69
2211 4176 1.078567 CTGGCTTCTGTCCTCTGGC 60.079 63.158 0.00 0.00 0.00 4.85
2212 4177 0.979665 TTCTGGCTTCTGTCCTCTGG 59.020 55.000 0.00 0.00 0.00 3.86
2213 4178 1.622811 ACTTCTGGCTTCTGTCCTCTG 59.377 52.381 0.00 0.00 0.00 3.35
2214 4179 1.622811 CACTTCTGGCTTCTGTCCTCT 59.377 52.381 0.00 0.00 0.00 3.69
2215 4180 1.943507 GCACTTCTGGCTTCTGTCCTC 60.944 57.143 0.00 0.00 0.00 3.71
2216 4181 0.036022 GCACTTCTGGCTTCTGTCCT 59.964 55.000 0.00 0.00 0.00 3.85
2217 4182 0.036022 AGCACTTCTGGCTTCTGTCC 59.964 55.000 0.00 0.00 38.81 4.02
2218 4183 1.437625 GAGCACTTCTGGCTTCTGTC 58.562 55.000 0.00 0.00 42.78 3.51
2219 4184 0.036022 GGAGCACTTCTGGCTTCTGT 59.964 55.000 0.00 0.00 42.78 3.41
2220 4185 0.676151 GGGAGCACTTCTGGCTTCTG 60.676 60.000 0.00 0.00 42.78 3.02
2221 4186 1.682257 GGGAGCACTTCTGGCTTCT 59.318 57.895 0.00 0.00 42.78 2.85
2222 4187 1.743252 CGGGAGCACTTCTGGCTTC 60.743 63.158 0.00 0.00 42.78 3.86
2223 4188 2.348998 CGGGAGCACTTCTGGCTT 59.651 61.111 0.00 0.00 42.78 4.35
2224 4189 2.925170 ACGGGAGCACTTCTGGCT 60.925 61.111 0.00 0.00 46.07 4.75
2225 4190 2.435059 GACGGGAGCACTTCTGGC 60.435 66.667 0.00 0.00 0.00 4.85
2226 4191 0.671781 CTTGACGGGAGCACTTCTGG 60.672 60.000 0.00 0.00 0.00 3.86
2227 4192 0.671781 CCTTGACGGGAGCACTTCTG 60.672 60.000 0.00 0.00 0.00 3.02
2228 4193 1.122019 ACCTTGACGGGAGCACTTCT 61.122 55.000 0.00 0.00 36.97 2.85
2229 4194 0.670854 GACCTTGACGGGAGCACTTC 60.671 60.000 0.00 0.00 36.97 3.01
2230 4195 1.371558 GACCTTGACGGGAGCACTT 59.628 57.895 0.00 0.00 36.97 3.16
2231 4196 1.837051 TGACCTTGACGGGAGCACT 60.837 57.895 0.00 0.00 36.97 4.40
2232 4197 1.668151 GTGACCTTGACGGGAGCAC 60.668 63.158 0.00 0.00 36.97 4.40
2233 4198 2.741092 GTGACCTTGACGGGAGCA 59.259 61.111 0.00 0.00 36.97 4.26
2234 4199 2.432628 CGTGACCTTGACGGGAGC 60.433 66.667 0.00 0.00 36.97 4.70
2235 4200 2.432628 GCGTGACCTTGACGGGAG 60.433 66.667 0.00 0.00 37.30 4.30
2236 4201 3.998672 GGCGTGACCTTGACGGGA 61.999 66.667 0.00 0.00 37.30 5.14
2238 4203 4.308458 TGGGCGTGACCTTGACGG 62.308 66.667 0.00 0.00 39.10 4.79
2239 4204 3.041940 GTGGGCGTGACCTTGACG 61.042 66.667 0.00 0.00 39.10 4.35
2240 4205 2.668550 GGTGGGCGTGACCTTGAC 60.669 66.667 0.00 0.00 39.10 3.18
2241 4206 3.948719 GGGTGGGCGTGACCTTGA 61.949 66.667 0.00 0.00 39.10 3.02
2242 4207 2.521958 CTAGGGTGGGCGTGACCTTG 62.522 65.000 0.00 0.00 39.10 3.61
2243 4208 2.203877 TAGGGTGGGCGTGACCTT 60.204 61.111 0.00 0.00 39.10 3.50
2244 4209 2.683933 CTAGGGTGGGCGTGACCT 60.684 66.667 0.00 0.00 39.10 3.85
2245 4210 3.782443 CCTAGGGTGGGCGTGACC 61.782 72.222 0.00 0.00 37.93 4.02
2246 4211 2.064581 ATCCTAGGGTGGGCGTGAC 61.065 63.158 9.46 0.00 0.00 3.67
2247 4212 2.063979 CATCCTAGGGTGGGCGTGA 61.064 63.158 14.89 0.00 0.00 4.35
2248 4213 2.311688 GACATCCTAGGGTGGGCGTG 62.312 65.000 25.94 0.00 0.00 5.34
2249 4214 2.040606 ACATCCTAGGGTGGGCGT 59.959 61.111 25.94 1.63 0.00 5.68
2250 4215 1.338136 AAGACATCCTAGGGTGGGCG 61.338 60.000 25.94 0.83 0.00 6.13
2251 4216 0.470341 GAAGACATCCTAGGGTGGGC 59.530 60.000 25.94 16.78 0.00 5.36
2252 4217 0.753262 CGAAGACATCCTAGGGTGGG 59.247 60.000 25.94 2.04 0.00 4.61
2253 4218 0.753262 CCGAAGACATCCTAGGGTGG 59.247 60.000 25.94 7.58 0.00 4.61
2254 4219 0.753262 CCCGAAGACATCCTAGGGTG 59.247 60.000 21.08 21.08 37.86 4.61
2255 4220 0.398664 CCCCGAAGACATCCTAGGGT 60.399 60.000 9.46 0.00 39.79 4.34
2256 4221 1.122019 CCCCCGAAGACATCCTAGGG 61.122 65.000 9.46 0.00 40.59 3.53
2257 4222 1.759459 GCCCCCGAAGACATCCTAGG 61.759 65.000 0.82 0.82 0.00 3.02
2258 4223 1.749033 GCCCCCGAAGACATCCTAG 59.251 63.158 0.00 0.00 0.00 3.02
2259 4224 1.764854 GGCCCCCGAAGACATCCTA 60.765 63.158 0.00 0.00 0.00 2.94
2260 4225 3.090532 GGCCCCCGAAGACATCCT 61.091 66.667 0.00 0.00 0.00 3.24
2261 4226 4.191015 GGGCCCCCGAAGACATCC 62.191 72.222 12.23 0.00 0.00 3.51
2275 4240 4.329545 TTCAGGCTGACCACGGGC 62.330 66.667 18.55 0.00 46.45 6.13
2276 4241 2.046892 CTTCAGGCTGACCACGGG 60.047 66.667 18.55 0.00 39.06 5.28
2277 4242 1.079543 CTCTTCAGGCTGACCACGG 60.080 63.158 18.55 5.57 39.06 4.94
2278 4243 1.079543 CCTCTTCAGGCTGACCACG 60.080 63.158 18.55 6.33 39.06 4.94
2279 4244 1.298014 CCCTCTTCAGGCTGACCAC 59.702 63.158 18.55 0.00 38.72 4.16
2280 4245 3.811702 CCCTCTTCAGGCTGACCA 58.188 61.111 18.55 5.50 38.72 4.02
2287 4252 4.168291 GCCGAGGCCCTCTTCAGG 62.168 72.222 9.52 3.50 39.98 3.86
2288 4253 2.739996 ATGCCGAGGCCCTCTTCAG 61.740 63.158 9.52 0.00 41.09 3.02
2289 4254 2.688666 ATGCCGAGGCCCTCTTCA 60.689 61.111 9.52 6.72 41.09 3.02


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

AutoCloner maintained by Alex Coulton.