Multiple sequence alignment - TraesCS2B01G089500

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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 TraesCS2B01G089500 chr2B 100.000 3596 0 0 1 3596 50481765 50485360 0.000000e+00 6641.0
1 TraesCS2B01G089500 chr2B 92.546 872 48 11 2698 3559 43804999 43804135 0.000000e+00 1234.0
2 TraesCS2B01G089500 chr2B 84.424 443 35 13 3174 3596 50630445 50630017 4.320000e-109 405.0
3 TraesCS2B01G089500 chr2B 80.118 508 84 9 118 611 50634678 50634174 2.640000e-96 363.0
4 TraesCS2B01G089500 chr2B 91.257 183 14 2 4 185 50634858 50634677 7.710000e-62 248.0
5 TraesCS2B01G089500 chr2B 87.500 56 2 1 702 752 50482387 50482442 3.880000e-05 60.2
6 TraesCS2B01G089500 chr2B 87.500 56 2 1 623 678 50482466 50482516 3.880000e-05 60.2
7 TraesCS2B01G089500 chr2D 92.327 2020 98 21 1590 3596 30661711 30659736 0.000000e+00 2819.0
8 TraesCS2B01G089500 chr2D 86.430 619 47 13 986 1571 30662312 30661698 0.000000e+00 643.0
9 TraesCS2B01G089500 chr2D 76.437 887 131 43 1865 2697 630090802 630089940 3.340000e-110 409.0
10 TraesCS2B01G089500 chr2D 88.529 340 30 4 4 336 30663275 30662938 1.550000e-108 403.0
11 TraesCS2B01G089500 chr2D 80.583 206 36 4 419 623 407984063 407983861 4.810000e-34 156.0
12 TraesCS2B01G089500 chr2D 78.744 207 18 12 675 859 30662818 30662616 8.160000e-22 115.0
13 TraesCS2B01G089500 chr2D 92.453 53 4 0 622 674 30662792 30662740 3.850000e-10 76.8
14 TraesCS2B01G089500 chr2A 84.113 1133 127 39 1595 2696 33003274 33004384 0.000000e+00 1046.0
15 TraesCS2B01G089500 chr2A 90.392 791 53 16 2003 2787 32921708 32920935 0.000000e+00 1018.0
16 TraesCS2B01G089500 chr2A 86.134 714 42 19 910 1571 32922764 32922056 0.000000e+00 717.0
17 TraesCS2B01G089500 chr2A 83.636 825 65 30 2788 3596 32920899 32920129 0.000000e+00 712.0
18 TraesCS2B01G089500 chr2A 88.798 366 23 5 1588 1949 32922071 32921720 1.980000e-117 433.0
19 TraesCS2B01G089500 chr2A 82.998 447 39 10 3174 3596 33021575 33022008 1.580000e-98 370.0
20 TraesCS2B01G089500 chr2A 83.280 311 30 4 3307 3596 33004964 33005273 2.130000e-67 267.0
21 TraesCS2B01G089500 chr2A 83.246 191 17 6 676 859 32923398 32923216 1.030000e-35 161.0
22 TraesCS2B01G089500 chr2A 76.316 228 49 4 400 623 565080664 565080438 2.270000e-22 117.0
23 TraesCS2B01G089500 chr2A 86.792 106 10 4 3174 3279 33004870 33004971 8.160000e-22 115.0
24 TraesCS2B01G089500 chr2A 95.745 47 2 0 628 674 32923367 32923321 3.850000e-10 76.8
25 TraesCS2B01G089500 chr7D 80.822 219 39 3 400 616 133328894 133329111 6.170000e-38 169.0
26 TraesCS2B01G089500 chr3B 79.452 219 41 4 400 616 148067698 148067914 6.220000e-33 152.0
27 TraesCS2B01G089500 chr1A 79.186 221 39 7 400 616 119735164 119735381 2.890000e-31 147.0
28 TraesCS2B01G089500 chr3A 77.974 227 45 4 400 623 159350919 159351143 1.740000e-28 137.0
29 TraesCS2B01G089500 chr1D 77.778 216 42 5 404 616 112625721 112625933 1.050000e-25 128.0
30 TraesCS2B01G089500 chr5D 76.613 248 47 8 370 614 135705925 135706164 3.770000e-25 126.0
31 TraesCS2B01G089500 chr5D 78.571 196 36 6 417 609 366763474 366763282 1.360000e-24 124.0
32 TraesCS2B01G089500 chr5A 92.683 41 2 1 355 395 685547855 685547816 1.390000e-04 58.4
33 TraesCS2B01G089500 chr6B 92.308 39 3 0 357 395 137435318 137435280 5.020000e-04 56.5


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 TraesCS2B01G089500 chr2B 50481765 50485360 3595 False 2253.800000 6641 91.666667 1 3596 3 chr2B.!!$F1 3595
1 TraesCS2B01G089500 chr2B 43804135 43804999 864 True 1234.000000 1234 92.546000 2698 3559 1 chr2B.!!$R1 861
2 TraesCS2B01G089500 chr2B 50630017 50634858 4841 True 338.666667 405 85.266333 4 3596 3 chr2B.!!$R2 3592
3 TraesCS2B01G089500 chr2D 30659736 30663275 3539 True 811.360000 2819 87.696600 4 3596 5 chr2D.!!$R3 3592
4 TraesCS2B01G089500 chr2D 630089940 630090802 862 True 409.000000 409 76.437000 1865 2697 1 chr2D.!!$R2 832
5 TraesCS2B01G089500 chr2A 32920129 32923398 3269 True 519.633333 1018 87.991833 628 3596 6 chr2A.!!$R2 2968
6 TraesCS2B01G089500 chr2A 33003274 33005273 1999 False 476.000000 1046 84.728333 1595 3596 3 chr2A.!!$F2 2001

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
908 4523 0.108567 GTCTCTTGGAAGGAGGTCGC 60.109 60.0 0.0 0.0 0.0 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2714 6590 0.258774 AGCCACACTTTCCAACACCT 59.741 50.0 0.0 0.0 0.0 4.0 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
105 106 4.085357 TGTGTGACCACTTTGAAGCTAT 57.915 40.909 1.62 0.00 42.34 2.97
128 129 3.931468 CGTAATGATTTGCATTTTGGGCA 59.069 39.130 0.00 0.00 44.68 5.36
129 130 4.033129 CGTAATGATTTGCATTTTGGGCAG 59.967 41.667 0.00 0.00 44.68 4.85
140 141 4.244862 CATTTTGGGCAGTGTTATTGGTC 58.755 43.478 0.00 0.00 0.00 4.02
160 227 2.026915 TCTGCATTACATGTGGTCTGCT 60.027 45.455 9.11 0.00 38.46 4.24
163 230 3.689161 TGCATTACATGTGGTCTGCTAAC 59.311 43.478 9.11 0.00 38.46 2.34
164 231 3.242413 GCATTACATGTGGTCTGCTAACG 60.242 47.826 9.11 0.00 36.11 3.18
167 234 0.723414 CATGTGGTCTGCTAACGCTG 59.277 55.000 0.00 0.00 36.97 5.18
223 296 2.121538 CCGACTCCTCGATGCCAGA 61.122 63.158 0.00 0.00 43.06 3.86
230 303 1.142748 CTCGATGCCAGACCCTGAC 59.857 63.158 0.00 0.00 32.44 3.51
235 308 0.478072 ATGCCAGACCCTGACAAACA 59.522 50.000 0.00 0.00 32.44 2.83
292 365 7.798052 TCGAATGATGTATGCAATATTGTTTCG 59.202 33.333 16.61 14.68 32.50 3.46
315 388 5.999361 CGTCTATGTTTTGTCGTAGTTTTCG 59.001 40.000 0.00 0.00 0.00 3.46
336 409 3.810941 CGTGTAGGTTTACTTTTCCTGCA 59.189 43.478 0.00 0.00 40.51 4.41
337 410 4.454504 CGTGTAGGTTTACTTTTCCTGCAT 59.545 41.667 4.76 0.00 43.41 3.96
338 411 5.616866 CGTGTAGGTTTACTTTTCCTGCATG 60.617 44.000 4.76 5.63 43.41 4.06
341 414 5.712152 AGGTTTACTTTTCCTGCATGAAG 57.288 39.130 4.57 0.00 0.00 3.02
344 417 2.683211 ACTTTTCCTGCATGAAGGGT 57.317 45.000 20.43 6.72 37.96 4.34
348 421 5.826643 ACTTTTCCTGCATGAAGGGTTATA 58.173 37.500 20.43 0.00 37.96 0.98
349 422 5.652452 ACTTTTCCTGCATGAAGGGTTATAC 59.348 40.000 20.43 0.00 37.96 1.47
351 424 6.569127 TTTCCTGCATGAAGGGTTATACTA 57.431 37.500 20.43 0.00 37.96 1.82
352 425 6.763715 TTCCTGCATGAAGGGTTATACTAT 57.236 37.500 20.43 0.00 37.96 2.12
353 426 6.763715 TCCTGCATGAAGGGTTATACTATT 57.236 37.500 20.43 0.00 37.96 1.73
354 427 7.149202 TCCTGCATGAAGGGTTATACTATTT 57.851 36.000 20.43 0.00 37.96 1.40
383 459 7.056002 TCTTAACACAATACATACACAAGCG 57.944 36.000 0.00 0.00 0.00 4.68
389 465 4.271049 ACAATACATACACAAGCGCTCATC 59.729 41.667 12.06 0.00 0.00 2.92
390 466 2.680312 ACATACACAAGCGCTCATCT 57.320 45.000 12.06 0.00 0.00 2.90
391 467 2.544685 ACATACACAAGCGCTCATCTC 58.455 47.619 12.06 0.00 0.00 2.75
392 468 2.167281 ACATACACAAGCGCTCATCTCT 59.833 45.455 12.06 0.00 0.00 3.10
393 469 3.381590 ACATACACAAGCGCTCATCTCTA 59.618 43.478 12.06 0.00 0.00 2.43
394 470 4.038522 ACATACACAAGCGCTCATCTCTAT 59.961 41.667 12.06 0.00 0.00 1.98
395 471 2.819115 ACACAAGCGCTCATCTCTATG 58.181 47.619 12.06 4.91 0.00 2.23
396 472 2.428530 ACACAAGCGCTCATCTCTATGA 59.571 45.455 12.06 0.00 39.87 2.15
397 473 3.118992 ACACAAGCGCTCATCTCTATGAA 60.119 43.478 12.06 0.00 41.57 2.57
398 474 3.490155 CACAAGCGCTCATCTCTATGAAG 59.510 47.826 12.06 0.00 41.57 3.02
406 483 6.442112 CGCTCATCTCTATGAAGTATGAACA 58.558 40.000 0.00 0.00 41.57 3.18
414 491 6.405538 TCTATGAAGTATGAACACATGCACA 58.594 36.000 0.00 0.00 0.00 4.57
415 492 7.049754 TCTATGAAGTATGAACACATGCACAT 58.950 34.615 0.00 0.00 34.21 3.21
417 494 6.421377 TGAAGTATGAACACATGCACATAC 57.579 37.500 12.59 12.59 42.73 2.39
424 501 3.931907 ACACATGCACATACACCCTAT 57.068 42.857 0.00 0.00 0.00 2.57
425 502 4.235079 ACACATGCACATACACCCTATT 57.765 40.909 0.00 0.00 0.00 1.73
436 513 7.164122 CACATACACCCTATTTCTATGAGCAT 58.836 38.462 0.00 0.00 0.00 3.79
439 516 6.506538 ACACCCTATTTCTATGAGCATCTT 57.493 37.500 0.00 0.00 34.92 2.40
443 520 8.997323 CACCCTATTTCTATGAGCATCTTTTAG 58.003 37.037 0.00 0.00 34.92 1.85
453 530 6.537453 TGAGCATCTTTTAGAGACTAAGCT 57.463 37.500 0.00 0.00 37.17 3.74
461 538 7.316640 TCTTTTAGAGACTAAGCTGACACATC 58.683 38.462 0.00 0.00 0.00 3.06
466 543 6.125719 AGAGACTAAGCTGACACATCATCTA 58.874 40.000 0.00 0.00 29.87 1.98
469 546 6.777091 AGACTAAGCTGACACATCATCTAGAT 59.223 38.462 0.00 0.00 37.48 1.98
476 553 6.307558 GCTGACACATCATCTAGATATTGACG 59.692 42.308 16.87 4.22 34.43 4.35
478 555 8.115490 TGACACATCATCTAGATATTGACGAT 57.885 34.615 16.87 7.78 34.43 3.73
487 565 2.061773 GATATTGACGATGTCGCCCAG 58.938 52.381 1.77 0.00 44.43 4.45
496 574 2.579738 GTCGCCCAGACTTCCTCC 59.420 66.667 0.00 0.00 46.13 4.30
502 580 1.394618 CCCAGACTTCCTCCTAGTCG 58.605 60.000 0.00 0.00 45.22 4.18
504 582 2.018515 CCAGACTTCCTCCTAGTCGAC 58.981 57.143 7.70 7.70 45.22 4.20
506 584 1.015868 GACTTCCTCCTAGTCGACGG 58.984 60.000 10.46 6.53 33.39 4.79
507 585 0.394080 ACTTCCTCCTAGTCGACGGG 60.394 60.000 19.77 19.77 0.00 5.28
509 587 0.329261 TTCCTCCTAGTCGACGGGAA 59.671 55.000 25.32 21.72 0.00 3.97
523 601 4.115270 GGAACGTCTCCTCCCACT 57.885 61.111 8.87 0.00 41.61 4.00
524 602 3.277962 GGAACGTCTCCTCCCACTA 57.722 57.895 8.87 0.00 41.61 2.74
535 613 0.999406 CTCCCACTAAACGCACATCG 59.001 55.000 0.00 0.00 45.38 3.84
555 633 5.371115 TCGTCAAAAGGGCTGAAATAAAG 57.629 39.130 0.00 0.00 0.00 1.85
556 634 3.920412 CGTCAAAAGGGCTGAAATAAAGC 59.080 43.478 0.00 0.00 40.06 3.51
566 644 7.550712 AGGGCTGAAATAAAGCTAGAAAAATG 58.449 34.615 0.00 0.00 40.64 2.32
568 646 6.813152 GGCTGAAATAAAGCTAGAAAAATGCA 59.187 34.615 0.00 0.00 40.64 3.96
583 661 4.916983 AAATGCAAGCACTAGTGTCAAA 57.083 36.364 23.44 7.22 0.00 2.69
588 666 6.384258 TGCAAGCACTAGTGTCAAATTTAA 57.616 33.333 23.44 0.00 0.00 1.52
589 667 6.980593 TGCAAGCACTAGTGTCAAATTTAAT 58.019 32.000 23.44 0.00 0.00 1.40
595 673 9.502091 AGCACTAGTGTCAAATTTAATACTTGA 57.498 29.630 23.44 0.00 0.00 3.02
602 680 7.812669 GTGTCAAATTTAATACTTGAACCCTGG 59.187 37.037 0.00 0.00 31.21 4.45
616 694 1.775877 CCTGGTGGGCTGGGGATAT 60.776 63.158 0.00 0.00 0.00 1.63
619 697 1.061905 TGGTGGGCTGGGGATATCAG 61.062 60.000 4.83 0.00 35.49 2.90
624 702 2.054799 GGGCTGGGGATATCAGTGTAA 58.945 52.381 4.83 0.00 34.89 2.41
626 704 3.117663 GGGCTGGGGATATCAGTGTAAAA 60.118 47.826 4.83 0.00 34.89 1.52
627 705 4.447762 GGGCTGGGGATATCAGTGTAAAAT 60.448 45.833 4.83 0.00 34.89 1.82
629 707 5.010012 GGCTGGGGATATCAGTGTAAAATTG 59.990 44.000 4.83 0.00 34.89 2.32
635 713 8.429641 GGGGATATCAGTGTAAAATTGTCTAGA 58.570 37.037 4.83 0.00 0.00 2.43
636 714 9.482627 GGGATATCAGTGTAAAATTGTCTAGAG 57.517 37.037 4.83 0.00 0.00 2.43
642 720 7.547019 TCAGTGTAAAATTGTCTAGAGATGCTG 59.453 37.037 0.00 0.00 0.00 4.41
644 722 6.818644 GTGTAAAATTGTCTAGAGATGCTGGA 59.181 38.462 0.00 0.00 0.00 3.86
651 729 2.092375 TCTAGAGATGCTGGACGGAGAA 60.092 50.000 0.00 0.00 0.00 2.87
652 730 1.561643 AGAGATGCTGGACGGAGAAA 58.438 50.000 0.00 0.00 0.00 2.52
654 732 1.478510 GAGATGCTGGACGGAGAAAGA 59.521 52.381 0.00 0.00 0.00 2.52
657 735 2.859165 TGCTGGACGGAGAAAGAATT 57.141 45.000 0.00 0.00 0.00 2.17
658 736 2.426522 TGCTGGACGGAGAAAGAATTG 58.573 47.619 0.00 0.00 0.00 2.32
661 739 2.744202 CTGGACGGAGAAAGAATTGTGG 59.256 50.000 0.00 0.00 0.00 4.17
663 741 2.742589 GGACGGAGAAAGAATTGTGGTC 59.257 50.000 0.00 0.00 0.00 4.02
664 742 2.412089 GACGGAGAAAGAATTGTGGTCG 59.588 50.000 0.00 0.00 0.00 4.79
666 744 2.668457 CGGAGAAAGAATTGTGGTCGAG 59.332 50.000 0.00 0.00 0.00 4.04
667 745 3.614150 CGGAGAAAGAATTGTGGTCGAGA 60.614 47.826 0.00 0.00 0.00 4.04
670 748 4.815269 AGAAAGAATTGTGGTCGAGAGAG 58.185 43.478 0.00 0.00 43.49 3.20
671 749 4.524714 AGAAAGAATTGTGGTCGAGAGAGA 59.475 41.667 0.00 0.00 43.49 3.10
672 750 4.448537 AAGAATTGTGGTCGAGAGAGAG 57.551 45.455 0.00 0.00 43.49 3.20
673 751 3.691575 AGAATTGTGGTCGAGAGAGAGA 58.308 45.455 0.00 0.00 43.49 3.10
748 1256 4.082845 AGAATTGTGGTCGAGAGAGAGAA 58.917 43.478 0.00 0.00 43.49 2.87
750 1258 5.186797 AGAATTGTGGTCGAGAGAGAGAAAT 59.813 40.000 0.00 0.00 43.49 2.17
751 1259 3.857549 TGTGGTCGAGAGAGAGAAATG 57.142 47.619 0.00 0.00 43.49 2.32
755 1263 2.535331 GTCGAGAGAGAGAAATGTGGC 58.465 52.381 0.00 0.00 43.49 5.01
758 1266 3.006859 TCGAGAGAGAGAAATGTGGCAAA 59.993 43.478 0.00 0.00 34.84 3.68
761 1269 5.638783 GAGAGAGAGAAATGTGGCAAAATG 58.361 41.667 0.00 0.00 0.00 2.32
783 1308 4.100035 TGGAACAATGCAACCACATTTACA 59.900 37.500 0.00 0.00 38.19 2.41
797 4016 5.410132 CCACATTTACAAATGACGTGGAGTA 59.590 40.000 18.95 0.00 46.72 2.59
803 4023 4.843728 ACAAATGACGTGGAGTAATGGAT 58.156 39.130 0.00 0.00 0.00 3.41
809 4029 2.838202 ACGTGGAGTAATGGATCACCTT 59.162 45.455 0.00 0.00 37.04 3.50
810 4030 3.263425 ACGTGGAGTAATGGATCACCTTT 59.737 43.478 0.00 0.00 37.34 3.11
811 4031 4.468510 ACGTGGAGTAATGGATCACCTTTA 59.531 41.667 0.00 0.00 35.58 1.85
812 4032 5.046159 ACGTGGAGTAATGGATCACCTTTAA 60.046 40.000 0.00 0.00 37.48 1.52
830 4050 5.355350 CCTTTAATTCCTTACAGCCAGAGTG 59.645 44.000 0.00 0.00 0.00 3.51
848 4068 1.667724 GTGGAACATGCTCGATCTTGG 59.332 52.381 7.03 0.00 44.52 3.61
854 4074 1.667724 CATGCTCGATCTTGGGAACAC 59.332 52.381 0.00 0.00 42.67 3.32
879 4494 0.663153 GCACACAAAGACCAGACACC 59.337 55.000 0.00 0.00 0.00 4.16
881 4496 2.643551 CACACAAAGACCAGACACCTT 58.356 47.619 0.00 0.00 0.00 3.50
882 4497 2.355756 CACACAAAGACCAGACACCTTG 59.644 50.000 0.00 0.00 0.00 3.61
883 4498 1.334869 CACAAAGACCAGACACCTTGC 59.665 52.381 0.00 0.00 0.00 4.01
884 4499 1.064758 ACAAAGACCAGACACCTTGCA 60.065 47.619 0.00 0.00 0.00 4.08
888 4503 0.108585 GACCAGACACCTTGCAGGAA 59.891 55.000 8.91 0.00 37.67 3.36
904 4519 2.235898 CAGGAAGTCTCTTGGAAGGAGG 59.764 54.545 0.00 0.00 0.00 4.30
906 4521 2.235155 GGAAGTCTCTTGGAAGGAGGTC 59.765 54.545 0.00 0.00 0.00 3.85
907 4522 1.551452 AGTCTCTTGGAAGGAGGTCG 58.449 55.000 0.00 0.00 0.00 4.79
908 4523 0.108567 GTCTCTTGGAAGGAGGTCGC 60.109 60.000 0.00 0.00 0.00 5.19
969 4670 4.739587 ACTAGCTTAGCTACCACCTTTC 57.260 45.455 10.21 0.00 40.44 2.62
1155 4895 0.250467 CGCCTGGGGTCATTATGAGG 60.250 60.000 1.98 0.00 0.00 3.86
1159 4899 2.509548 CCTGGGGTCATTATGAGGAACA 59.490 50.000 0.00 0.00 0.00 3.18
1286 5026 1.076923 GGTGCGTCCTCTCCTCCTA 60.077 63.158 0.00 0.00 0.00 2.94
1300 5040 2.512056 TCCTCCTACTCTCTCCCTTCTG 59.488 54.545 0.00 0.00 0.00 3.02
1328 5068 1.593469 GCTCCGCGATTTTCTTCCTAC 59.407 52.381 8.23 0.00 0.00 3.18
1329 5069 1.852895 CTCCGCGATTTTCTTCCTACG 59.147 52.381 8.23 0.00 0.00 3.51
1332 5072 1.587034 CGCGATTTTCTTCCTACGGTC 59.413 52.381 0.00 0.00 0.00 4.79
1336 5076 4.106197 CGATTTTCTTCCTACGGTCTCAG 58.894 47.826 0.00 0.00 0.00 3.35
1341 5081 6.409524 TTTCTTCCTACGGTCTCAGTTTTA 57.590 37.500 0.00 0.00 0.00 1.52
1349 5089 6.872020 CCTACGGTCTCAGTTTTATTTCAGAA 59.128 38.462 0.00 0.00 0.00 3.02
1367 5107 5.312895 TCAGAACCAATTTGCAGTAGCTAA 58.687 37.500 0.00 0.00 42.74 3.09
1380 5120 4.793353 GCAGTAGCTAAATCGTCTACCTGG 60.793 50.000 0.00 0.00 37.91 4.45
1382 5122 2.108168 AGCTAAATCGTCTACCTGGCA 58.892 47.619 0.00 0.00 0.00 4.92
1384 5124 2.159085 GCTAAATCGTCTACCTGGCAGT 60.159 50.000 14.43 4.32 0.00 4.40
1385 5125 2.674796 AAATCGTCTACCTGGCAGTC 57.325 50.000 14.43 0.00 0.00 3.51
1386 5126 0.456221 AATCGTCTACCTGGCAGTCG 59.544 55.000 14.43 7.17 0.00 4.18
1387 5127 1.384989 ATCGTCTACCTGGCAGTCGG 61.385 60.000 14.43 1.12 0.00 4.79
1389 5129 2.037367 TCTACCTGGCAGTCGGCT 59.963 61.111 14.43 0.00 44.01 5.52
1390 5130 1.609501 TCTACCTGGCAGTCGGCTT 60.610 57.895 14.43 0.00 44.01 4.35
1391 5131 1.192146 TCTACCTGGCAGTCGGCTTT 61.192 55.000 14.43 0.00 44.01 3.51
1392 5132 0.741221 CTACCTGGCAGTCGGCTTTC 60.741 60.000 14.43 0.00 44.01 2.62
1393 5133 1.476845 TACCTGGCAGTCGGCTTTCA 61.477 55.000 14.43 0.00 44.01 2.69
1394 5134 2.037136 CCTGGCAGTCGGCTTTCAG 61.037 63.158 14.43 8.86 44.01 3.02
1395 5135 1.302033 CTGGCAGTCGGCTTTCAGT 60.302 57.895 6.28 0.00 44.01 3.41
1396 5136 0.886490 CTGGCAGTCGGCTTTCAGTT 60.886 55.000 6.28 0.00 44.01 3.16
1425 5165 5.512942 TCAGGGGTTATTCTTCATTGTGA 57.487 39.130 0.00 0.00 0.00 3.58
1440 5192 7.552687 TCTTCATTGTGAGGGTTATGTATGAAC 59.447 37.037 0.00 0.00 30.30 3.18
1457 5209 2.881513 TGAACGACTGCATTAGCCAAAA 59.118 40.909 0.00 0.00 41.13 2.44
1483 5242 2.426738 CAGCGTCTCTCCTCTTTCAGAT 59.573 50.000 0.00 0.00 0.00 2.90
1495 5254 5.470098 TCCTCTTTCAGATACAAGTTTGCAC 59.530 40.000 0.00 0.00 0.00 4.57
1541 5308 5.275326 CGAGAAATGTTCGTATCTGTTCGTC 60.275 44.000 0.00 0.00 33.57 4.20
1544 5311 3.646611 TGTTCGTATCTGTTCGTCCAA 57.353 42.857 0.00 0.00 0.00 3.53
1545 5312 3.979948 TGTTCGTATCTGTTCGTCCAAA 58.020 40.909 0.00 0.00 0.00 3.28
1556 5323 8.970691 ATCTGTTCGTCCAAATTTTCAATTAG 57.029 30.769 0.00 0.00 0.00 1.73
1557 5324 6.861055 TCTGTTCGTCCAAATTTTCAATTAGC 59.139 34.615 0.00 0.00 0.00 3.09
1558 5325 6.744112 TGTTCGTCCAAATTTTCAATTAGCT 58.256 32.000 0.00 0.00 0.00 3.32
1559 5326 7.206687 TGTTCGTCCAAATTTTCAATTAGCTT 58.793 30.769 0.00 0.00 0.00 3.74
1560 5327 7.168972 TGTTCGTCCAAATTTTCAATTAGCTTG 59.831 33.333 0.00 0.00 36.09 4.01
1561 5328 6.155827 TCGTCCAAATTTTCAATTAGCTTGG 58.844 36.000 0.00 0.00 35.43 3.61
1562 5329 5.163963 CGTCCAAATTTTCAATTAGCTTGGC 60.164 40.000 0.00 0.00 35.43 4.52
1563 5330 5.700373 GTCCAAATTTTCAATTAGCTTGGCA 59.300 36.000 0.00 0.00 35.43 4.92
1564 5331 5.933463 TCCAAATTTTCAATTAGCTTGGCAG 59.067 36.000 0.00 0.00 35.43 4.85
1573 5340 2.282745 GCTTGGCAGCCTGAACCT 60.283 61.111 14.15 0.00 40.61 3.50
1574 5341 2.338785 GCTTGGCAGCCTGAACCTC 61.339 63.158 14.15 0.00 40.61 3.85
1575 5342 2.032528 TTGGCAGCCTGAACCTCG 59.967 61.111 14.15 0.00 0.00 4.63
1576 5343 4.704833 TGGCAGCCTGAACCTCGC 62.705 66.667 14.15 0.00 0.00 5.03
1577 5344 4.704833 GGCAGCCTGAACCTCGCA 62.705 66.667 3.29 0.00 0.00 5.10
1578 5345 2.669569 GCAGCCTGAACCTCGCAA 60.670 61.111 0.00 0.00 0.00 4.85
1579 5346 2.260869 GCAGCCTGAACCTCGCAAA 61.261 57.895 0.00 0.00 0.00 3.68
1580 5347 1.795170 GCAGCCTGAACCTCGCAAAA 61.795 55.000 0.00 0.00 0.00 2.44
1581 5348 0.667993 CAGCCTGAACCTCGCAAAAA 59.332 50.000 0.00 0.00 0.00 1.94
1628 5395 1.335182 CAGTACGATCAGATGGTCGCT 59.665 52.381 15.06 2.88 41.31 4.93
1793 5573 7.465353 TGTTTGGACAATTCACATGACATAT 57.535 32.000 0.00 0.00 31.49 1.78
1810 5590 7.912056 TGACATATTTATCTAGGCATTCAGC 57.088 36.000 0.00 0.00 44.65 4.26
1835 5619 3.813529 AGCATTTTGTTGAGTACGCTC 57.186 42.857 0.00 0.00 41.97 5.03
1867 5652 7.835634 TTTTTCACATTTTGGTTACCAGAAC 57.164 32.000 9.59 0.00 33.81 3.01
1984 5785 8.798748 AGTATATATCAGCACGAAACAAGTAC 57.201 34.615 0.00 0.00 0.00 2.73
1985 5786 8.630917 AGTATATATCAGCACGAAACAAGTACT 58.369 33.333 0.00 0.00 0.00 2.73
1986 5787 9.888878 GTATATATCAGCACGAAACAAGTACTA 57.111 33.333 0.00 0.00 0.00 1.82
2060 5863 1.929836 GGATGCTGCTGTTAGAACTCG 59.070 52.381 0.00 0.00 0.00 4.18
2065 5868 3.679980 TGCTGCTGTTAGAACTCGAAATC 59.320 43.478 0.00 0.00 0.00 2.17
2231 6049 1.381928 ATGCCCGAGCTTTCAGCATG 61.382 55.000 12.03 0.00 45.56 4.06
2289 6116 1.555477 CACCTCAAACAAACAACCGC 58.445 50.000 0.00 0.00 0.00 5.68
2298 6125 2.577700 ACAAACAACCGCCTGTCATTA 58.422 42.857 0.00 0.00 0.00 1.90
2299 6126 2.292292 ACAAACAACCGCCTGTCATTAC 59.708 45.455 0.00 0.00 0.00 1.89
2349 6176 9.813826 TCATCTATAGGTCATGTCTATCTTTCA 57.186 33.333 12.27 0.00 0.00 2.69
2357 6199 9.082313 AGGTCATGTCTATCTTTCAAAAACAAT 57.918 29.630 0.00 0.00 0.00 2.71
2442 6285 0.107312 GTGGATCAGCAGGCATCACT 60.107 55.000 0.00 0.00 0.00 3.41
2474 6317 4.163649 TGACAATGATCTCAGATCTTGCCT 59.836 41.667 15.89 3.67 0.00 4.75
2541 6384 2.025589 TGTGCTGGTTTGTTCGTGTA 57.974 45.000 0.00 0.00 0.00 2.90
2654 6499 1.039856 CCTTTGTGACCAAACTGGGG 58.960 55.000 0.00 0.00 43.37 4.96
2700 6576 3.074412 ACTACGTCCAGGAAGCAAATTG 58.926 45.455 1.64 0.00 0.00 2.32
2714 6590 3.523564 AGCAAATTGGAAGGGAGTAGCTA 59.476 43.478 0.00 0.00 0.00 3.32
2935 6862 1.075601 TGTTTCAGGAGGCCCTTGAT 58.924 50.000 0.00 0.00 42.02 2.57
3033 6982 7.648142 TGCATTGCTTTTACTATAGTAATGGC 58.352 34.615 26.41 26.41 41.69 4.40
3120 7070 5.010282 GCCTAAACTGAGAAGAAATTGGGA 58.990 41.667 0.00 0.00 0.00 4.37
3131 7081 8.522830 TGAGAAGAAATTGGGATATCAACAAAC 58.477 33.333 13.80 9.65 0.00 2.93
3243 7222 1.882623 CCTGGAGAAGTGCAAGTTTCC 59.117 52.381 0.00 0.00 31.38 3.13
3249 7228 5.183713 TGGAGAAGTGCAAGTTTCCATATTG 59.816 40.000 6.15 0.00 34.08 1.90
3584 7591 9.745018 ACAGTATCCCAATAATTCTTCATATGG 57.255 33.333 2.13 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.389329 CCACATGTTCATAGCTACTCCCT 59.611 47.826 0.00 0.00 0.00 4.20
3 4 3.134458 GCCACATGTTCATAGCTACTCC 58.866 50.000 0.00 0.00 0.00 3.85
5 6 3.912496 TGCCACATGTTCATAGCTACT 57.088 42.857 0.00 0.00 0.00 2.57
6 7 3.941483 ACTTGCCACATGTTCATAGCTAC 59.059 43.478 0.00 0.00 0.00 3.58
7 8 4.080919 AGACTTGCCACATGTTCATAGCTA 60.081 41.667 0.00 0.00 0.00 3.32
72 73 1.401931 GGTCACACATCATTGCACTGC 60.402 52.381 0.00 0.00 0.00 4.40
105 106 4.180057 GCCCAAAATGCAAATCATTACGA 58.820 39.130 0.00 0.00 44.23 3.43
128 129 6.441093 CATGTAATGCAGACCAATAACACT 57.559 37.500 0.00 0.00 37.62 3.55
199 272 2.483441 ATCGAGGAGTCGGTGTCAG 58.517 57.895 0.00 0.00 46.80 3.51
223 296 2.159382 CGGCTAATTGTTTGTCAGGGT 58.841 47.619 0.00 0.00 0.00 4.34
230 303 5.588568 TGCAAAAATCGGCTAATTGTTTG 57.411 34.783 0.00 0.00 0.00 2.93
235 308 5.105392 TCCATCTTGCAAAAATCGGCTAATT 60.105 36.000 0.00 0.00 0.00 1.40
292 365 6.784227 CACGAAAACTACGACAAAACATAGAC 59.216 38.462 0.00 0.00 34.70 2.59
315 388 5.472137 TCATGCAGGAAAAGTAAACCTACAC 59.528 40.000 0.00 0.00 31.14 2.90
367 443 4.509230 AGATGAGCGCTTGTGTATGTATTG 59.491 41.667 13.26 0.00 0.00 1.90
369 445 4.038522 AGAGATGAGCGCTTGTGTATGTAT 59.961 41.667 13.26 0.00 0.00 2.29
374 450 3.632145 TCATAGAGATGAGCGCTTGTGTA 59.368 43.478 13.26 0.00 37.15 2.90
377 453 3.131933 ACTTCATAGAGATGAGCGCTTGT 59.868 43.478 13.26 2.52 43.03 3.16
381 457 5.053140 TCATACTTCATAGAGATGAGCGC 57.947 43.478 0.00 0.00 43.03 5.92
383 459 7.205992 TGTGTTCATACTTCATAGAGATGAGC 58.794 38.462 0.00 0.00 43.03 4.26
389 465 6.536224 TGTGCATGTGTTCATACTTCATAGAG 59.464 38.462 0.00 0.00 32.47 2.43
390 466 6.405538 TGTGCATGTGTTCATACTTCATAGA 58.594 36.000 0.00 0.00 32.47 1.98
391 467 6.667007 TGTGCATGTGTTCATACTTCATAG 57.333 37.500 0.00 0.00 32.47 2.23
392 468 7.768120 TGTATGTGCATGTGTTCATACTTCATA 59.232 33.333 18.29 3.13 41.47 2.15
393 469 6.598850 TGTATGTGCATGTGTTCATACTTCAT 59.401 34.615 18.29 3.94 41.47 2.57
394 470 5.936956 TGTATGTGCATGTGTTCATACTTCA 59.063 36.000 18.29 2.54 41.47 3.02
395 471 6.250819 GTGTATGTGCATGTGTTCATACTTC 58.749 40.000 18.29 10.98 41.47 3.01
396 472 5.123820 GGTGTATGTGCATGTGTTCATACTT 59.876 40.000 18.29 0.00 41.47 2.24
397 473 4.635765 GGTGTATGTGCATGTGTTCATACT 59.364 41.667 18.29 0.00 41.47 2.12
398 474 4.201910 GGGTGTATGTGCATGTGTTCATAC 60.202 45.833 13.28 13.28 41.36 2.39
406 483 5.116084 AGAAATAGGGTGTATGTGCATGT 57.884 39.130 0.00 0.00 0.00 3.21
414 491 7.805083 AGATGCTCATAGAAATAGGGTGTAT 57.195 36.000 0.00 0.00 0.00 2.29
415 492 7.618019 AAGATGCTCATAGAAATAGGGTGTA 57.382 36.000 0.00 0.00 0.00 2.90
417 494 7.814264 AAAAGATGCTCATAGAAATAGGGTG 57.186 36.000 0.00 0.00 0.00 4.61
436 513 6.650427 TGTGTCAGCTTAGTCTCTAAAAGA 57.350 37.500 0.00 0.00 0.00 2.52
439 516 6.590234 TGATGTGTCAGCTTAGTCTCTAAA 57.410 37.500 0.00 0.00 0.00 1.85
453 530 7.510549 TCGTCAATATCTAGATGATGTGTCA 57.489 36.000 15.79 0.00 39.04 3.58
461 538 4.795795 GGCGACATCGTCAATATCTAGATG 59.204 45.833 15.79 0.10 44.43 2.90
476 553 0.179097 GAGGAAGTCTGGGCGACATC 60.179 60.000 0.00 0.00 45.32 3.06
478 555 2.283529 GGAGGAAGTCTGGGCGACA 61.284 63.158 0.00 0.00 45.32 4.35
487 565 1.015868 CCGTCGACTAGGAGGAAGTC 58.984 60.000 14.70 0.00 40.01 3.01
490 568 0.329261 TTCCCGTCGACTAGGAGGAA 59.671 55.000 19.70 16.42 0.00 3.36
493 571 1.023513 ACGTTCCCGTCGACTAGGAG 61.024 60.000 19.70 13.81 46.28 3.69
507 585 2.670509 CGTTTAGTGGGAGGAGACGTTC 60.671 54.545 0.00 0.00 0.00 3.95
509 587 0.886563 CGTTTAGTGGGAGGAGACGT 59.113 55.000 0.00 0.00 0.00 4.34
511 589 0.606604 TGCGTTTAGTGGGAGGAGAC 59.393 55.000 0.00 0.00 0.00 3.36
515 593 1.369625 GATGTGCGTTTAGTGGGAGG 58.630 55.000 0.00 0.00 0.00 4.30
535 613 5.139435 AGCTTTATTTCAGCCCTTTTGAC 57.861 39.130 0.00 0.00 38.09 3.18
539 617 7.539034 TTTTCTAGCTTTATTTCAGCCCTTT 57.461 32.000 0.00 0.00 38.09 3.11
555 633 5.091431 CACTAGTGCTTGCATTTTTCTAGC 58.909 41.667 10.54 5.63 33.89 3.42
556 634 6.073058 TGACACTAGTGCTTGCATTTTTCTAG 60.073 38.462 22.90 12.57 0.00 2.43
566 644 8.237267 AGTATTAAATTTGACACTAGTGCTTGC 58.763 33.333 22.90 10.27 0.00 4.01
598 676 1.775877 ATATCCCCAGCCCACCAGG 60.776 63.158 0.00 0.00 39.47 4.45
602 680 0.109342 CACTGATATCCCCAGCCCAC 59.891 60.000 0.00 0.00 35.14 4.61
616 694 7.547019 CAGCATCTCTAGACAATTTTACACTGA 59.453 37.037 0.00 0.00 0.00 3.41
619 697 6.818644 TCCAGCATCTCTAGACAATTTTACAC 59.181 38.462 0.00 0.00 0.00 2.90
624 702 4.437239 CGTCCAGCATCTCTAGACAATTT 58.563 43.478 0.00 0.00 33.77 1.82
626 704 2.363680 CCGTCCAGCATCTCTAGACAAT 59.636 50.000 0.00 0.00 33.77 2.71
627 705 1.751351 CCGTCCAGCATCTCTAGACAA 59.249 52.381 0.00 0.00 33.77 3.18
629 707 1.606668 CTCCGTCCAGCATCTCTAGAC 59.393 57.143 0.00 0.00 31.31 2.59
635 713 1.561643 TCTTTCTCCGTCCAGCATCT 58.438 50.000 0.00 0.00 0.00 2.90
636 714 2.386661 TTCTTTCTCCGTCCAGCATC 57.613 50.000 0.00 0.00 0.00 3.91
638 716 2.224523 ACAATTCTTTCTCCGTCCAGCA 60.225 45.455 0.00 0.00 0.00 4.41
642 720 2.742589 GACCACAATTCTTTCTCCGTCC 59.257 50.000 0.00 0.00 0.00 4.79
644 722 2.036733 TCGACCACAATTCTTTCTCCGT 59.963 45.455 0.00 0.00 0.00 4.69
645 723 2.668457 CTCGACCACAATTCTTTCTCCG 59.332 50.000 0.00 0.00 0.00 4.63
646 724 3.926616 TCTCGACCACAATTCTTTCTCC 58.073 45.455 0.00 0.00 0.00 3.71
651 729 4.082845 TCTCTCTCTCGACCACAATTCTT 58.917 43.478 0.00 0.00 0.00 2.52
652 730 3.691575 TCTCTCTCTCGACCACAATTCT 58.308 45.455 0.00 0.00 0.00 2.40
654 732 4.873746 TTTCTCTCTCTCGACCACAATT 57.126 40.909 0.00 0.00 0.00 2.32
657 735 3.421844 TCATTTCTCTCTCTCGACCACA 58.578 45.455 0.00 0.00 0.00 4.17
658 736 4.442375 TTCATTTCTCTCTCTCGACCAC 57.558 45.455 0.00 0.00 0.00 4.16
661 739 6.771188 TTTGTTTCATTTCTCTCTCTCGAC 57.229 37.500 0.00 0.00 0.00 4.20
663 741 8.712363 TGTATTTTGTTTCATTTCTCTCTCTCG 58.288 33.333 0.00 0.00 0.00 4.04
666 744 9.070149 GCATGTATTTTGTTTCATTTCTCTCTC 57.930 33.333 0.00 0.00 0.00 3.20
667 745 7.752239 CGCATGTATTTTGTTTCATTTCTCTCT 59.248 33.333 0.00 0.00 0.00 3.10
670 748 7.566858 ACGCATGTATTTTGTTTCATTTCTC 57.433 32.000 0.00 0.00 0.00 2.87
671 749 7.569226 GCAACGCATGTATTTTGTTTCATTTCT 60.569 33.333 0.00 0.00 0.00 2.52
672 750 6.516017 GCAACGCATGTATTTTGTTTCATTTC 59.484 34.615 0.00 0.00 0.00 2.17
673 751 6.018425 TGCAACGCATGTATTTTGTTTCATTT 60.018 30.769 0.00 0.00 31.71 2.32
748 1256 3.502979 GCATTGTTCCATTTTGCCACATT 59.497 39.130 0.00 0.00 0.00 2.71
750 1258 2.158856 TGCATTGTTCCATTTTGCCACA 60.159 40.909 0.00 0.00 32.39 4.17
751 1259 2.492012 TGCATTGTTCCATTTTGCCAC 58.508 42.857 0.00 0.00 32.39 5.01
755 1263 3.875727 TGTGGTTGCATTGTTCCATTTTG 59.124 39.130 0.00 0.00 32.45 2.44
758 1266 4.354893 AATGTGGTTGCATTGTTCCATT 57.645 36.364 0.00 0.00 37.65 3.16
761 1269 4.626042 TGTAAATGTGGTTGCATTGTTCC 58.374 39.130 0.00 0.00 38.87 3.62
783 1308 4.876107 GTGATCCATTACTCCACGTCATTT 59.124 41.667 0.00 0.00 0.00 2.32
797 4016 7.068716 GCTGTAAGGAATTAAAGGTGATCCATT 59.931 37.037 0.00 0.00 35.89 3.16
803 4023 5.013704 TCTGGCTGTAAGGAATTAAAGGTGA 59.986 40.000 0.00 0.00 0.00 4.02
809 4029 4.534500 TCCACTCTGGCTGTAAGGAATTAA 59.466 41.667 0.00 0.00 37.47 1.40
810 4030 4.101114 TCCACTCTGGCTGTAAGGAATTA 58.899 43.478 0.00 0.00 37.47 1.40
811 4031 2.912956 TCCACTCTGGCTGTAAGGAATT 59.087 45.455 0.00 0.00 37.47 2.17
812 4032 2.551270 TCCACTCTGGCTGTAAGGAAT 58.449 47.619 0.00 0.00 37.47 3.01
830 4050 1.134401 TCCCAAGATCGAGCATGTTCC 60.134 52.381 2.38 0.00 0.00 3.62
848 4068 2.553079 TTGTGTGCTTTTCGTGTTCC 57.447 45.000 0.00 0.00 0.00 3.62
854 4074 2.354510 TCTGGTCTTTGTGTGCTTTTCG 59.645 45.455 0.00 0.00 0.00 3.46
879 4494 2.847327 TCCAAGAGACTTCCTGCAAG 57.153 50.000 0.00 0.00 38.21 4.01
881 4496 1.349026 CCTTCCAAGAGACTTCCTGCA 59.651 52.381 0.00 0.00 0.00 4.41
882 4497 1.625818 TCCTTCCAAGAGACTTCCTGC 59.374 52.381 0.00 0.00 0.00 4.85
883 4498 2.235898 CCTCCTTCCAAGAGACTTCCTG 59.764 54.545 0.00 0.00 32.86 3.86
884 4499 2.158081 ACCTCCTTCCAAGAGACTTCCT 60.158 50.000 0.00 0.00 32.86 3.36
888 4503 1.551452 CGACCTCCTTCCAAGAGACT 58.449 55.000 0.00 0.00 32.86 3.24
904 4519 0.793250 GCTGGTTTCTCTTCTGCGAC 59.207 55.000 0.00 0.00 0.00 5.19
906 4521 0.795085 CTGCTGGTTTCTCTTCTGCG 59.205 55.000 0.00 0.00 0.00 5.18
907 4522 1.803555 GTCTGCTGGTTTCTCTTCTGC 59.196 52.381 0.00 0.00 0.00 4.26
908 4523 2.064762 CGTCTGCTGGTTTCTCTTCTG 58.935 52.381 0.00 0.00 0.00 3.02
1146 4886 3.825328 CTTCCCCCTGTTCCTCATAATG 58.175 50.000 0.00 0.00 0.00 1.90
1155 4895 2.359975 CACCGCTTCCCCCTGTTC 60.360 66.667 0.00 0.00 0.00 3.18
1286 5026 1.341976 GGAGAGCAGAAGGGAGAGAGT 60.342 57.143 0.00 0.00 0.00 3.24
1328 5068 5.468746 TGGTTCTGAAATAAAACTGAGACCG 59.531 40.000 0.00 0.00 0.00 4.79
1329 5069 6.877611 TGGTTCTGAAATAAAACTGAGACC 57.122 37.500 0.00 0.00 0.00 3.85
1332 5072 8.490355 GCAAATTGGTTCTGAAATAAAACTGAG 58.510 33.333 0.00 0.00 0.00 3.35
1336 5076 8.141835 ACTGCAAATTGGTTCTGAAATAAAAC 57.858 30.769 0.00 0.00 0.00 2.43
1341 5081 5.244626 AGCTACTGCAAATTGGTTCTGAAAT 59.755 36.000 0.00 0.00 42.74 2.17
1349 5089 4.700213 ACGATTTAGCTACTGCAAATTGGT 59.300 37.500 9.80 2.56 42.74 3.67
1367 5107 0.456221 CGACTGCCAGGTAGACGATT 59.544 55.000 21.51 0.00 35.95 3.34
1380 5120 3.831715 AATTAACTGAAAGCCGACTGC 57.168 42.857 0.00 0.00 37.60 4.40
1382 5122 6.385649 TGAAAAATTAACTGAAAGCCGACT 57.614 33.333 0.00 0.00 37.60 4.18
1384 5124 5.278758 CCCTGAAAAATTAACTGAAAGCCGA 60.279 40.000 0.00 0.00 37.60 5.54
1385 5125 4.923281 CCCTGAAAAATTAACTGAAAGCCG 59.077 41.667 0.00 0.00 37.60 5.52
1386 5126 5.221641 ACCCCTGAAAAATTAACTGAAAGCC 60.222 40.000 0.00 0.00 37.60 4.35
1387 5127 5.853936 ACCCCTGAAAAATTAACTGAAAGC 58.146 37.500 0.00 0.00 37.60 3.51
1389 5129 9.990360 GAATAACCCCTGAAAAATTAACTGAAA 57.010 29.630 0.00 0.00 0.00 2.69
1390 5130 9.374711 AGAATAACCCCTGAAAAATTAACTGAA 57.625 29.630 0.00 0.00 0.00 3.02
1391 5131 8.950007 AGAATAACCCCTGAAAAATTAACTGA 57.050 30.769 0.00 0.00 0.00 3.41
1392 5132 9.639601 GAAGAATAACCCCTGAAAAATTAACTG 57.360 33.333 0.00 0.00 0.00 3.16
1393 5133 9.374711 TGAAGAATAACCCCTGAAAAATTAACT 57.625 29.630 0.00 0.00 0.00 2.24
1421 5161 4.464951 AGTCGTTCATACATAACCCTCACA 59.535 41.667 0.00 0.00 0.00 3.58
1425 5165 3.196901 TGCAGTCGTTCATACATAACCCT 59.803 43.478 0.00 0.00 0.00 4.34
1440 5192 3.859386 GGAAATTTTGGCTAATGCAGTCG 59.141 43.478 0.00 0.00 41.91 4.18
1457 5209 1.859302 AGAGGAGAGACGCTGGAAAT 58.141 50.000 0.00 0.00 0.00 2.17
1483 5242 7.517614 TCATAATTTCCAGTGCAAACTTGTA 57.482 32.000 0.00 0.00 0.00 2.41
1495 5254 5.817296 TCGAGGACACAATCATAATTTCCAG 59.183 40.000 0.00 0.00 0.00 3.86
1541 5308 5.391203 GCTGCCAAGCTAATTGAAAATTTGG 60.391 40.000 0.00 0.00 46.60 3.28
1557 5324 2.037136 CGAGGTTCAGGCTGCCAAG 61.037 63.158 22.65 13.13 0.00 3.61
1558 5325 2.032528 CGAGGTTCAGGCTGCCAA 59.967 61.111 22.65 4.14 0.00 4.52
1559 5326 4.704833 GCGAGGTTCAGGCTGCCA 62.705 66.667 22.65 0.00 0.00 4.92
1560 5327 4.704833 TGCGAGGTTCAGGCTGCC 62.705 66.667 11.65 11.65 0.00 4.85
1561 5328 1.795170 TTTTGCGAGGTTCAGGCTGC 61.795 55.000 10.34 0.00 0.00 5.25
1562 5329 0.667993 TTTTTGCGAGGTTCAGGCTG 59.332 50.000 8.58 8.58 0.00 4.85
1563 5330 3.109847 TTTTTGCGAGGTTCAGGCT 57.890 47.368 0.00 0.00 0.00 4.58
1584 5351 2.765699 TCTTTCAGGCTGCCAAGTTTTT 59.234 40.909 22.65 0.00 0.00 1.94
1585 5352 2.363359 CTCTTTCAGGCTGCCAAGTTTT 59.637 45.455 22.65 0.00 0.00 2.43
1586 5353 1.959282 CTCTTTCAGGCTGCCAAGTTT 59.041 47.619 22.65 0.00 0.00 2.66
1587 5354 1.613836 CTCTTTCAGGCTGCCAAGTT 58.386 50.000 22.65 0.00 0.00 2.66
1628 5395 4.305539 ACATCACAGGGAACATGATCAA 57.694 40.909 0.00 0.00 36.58 2.57
1793 5573 6.071447 TGCTTTTTGCTGAATGCCTAGATAAA 60.071 34.615 0.00 0.00 43.37 1.40
1810 5590 6.560251 GAGCGTACTCAACAAAATGCTTTTTG 60.560 38.462 27.22 27.22 46.84 2.44
1845 5629 6.378564 TGAGTTCTGGTAACCAAAATGTGAAA 59.621 34.615 0.00 0.00 30.80 2.69
1891 5676 6.100404 AGGAAATGTATGCACACAATTGTT 57.900 33.333 8.77 0.00 37.54 2.83
1966 5759 3.927142 GCTAGTACTTGTTTCGTGCTGAT 59.073 43.478 0.00 0.00 0.00 2.90
1967 5760 3.005472 AGCTAGTACTTGTTTCGTGCTGA 59.995 43.478 0.00 0.00 0.00 4.26
2023 5824 3.490078 GCATCCAAAGTGAAAAACCGTCA 60.490 43.478 0.00 0.00 0.00 4.35
2231 6049 2.677875 CAGTCCCCAAGGGCAAGC 60.678 66.667 0.00 0.00 43.94 4.01
2289 6116 8.023128 CCTATTCAAAACACAAGTAATGACAGG 58.977 37.037 0.00 0.00 0.00 4.00
2298 6125 6.463995 TCTTTGCCTATTCAAAACACAAGT 57.536 33.333 0.00 0.00 35.75 3.16
2299 6126 7.652909 TGATTCTTTGCCTATTCAAAACACAAG 59.347 33.333 0.00 0.00 35.75 3.16
2331 6158 8.463930 TTGTTTTTGAAAGATAGACATGACCT 57.536 30.769 0.00 0.00 0.00 3.85
2384 6226 4.885907 TCATTACTCCTGTAACCTACGGAG 59.114 45.833 16.36 16.36 45.90 4.63
2394 6237 4.499865 GCGCTGAAGATCATTACTCCTGTA 60.500 45.833 0.00 0.00 0.00 2.74
2402 6245 1.211743 CGCTGCGCTGAAGATCATTA 58.788 50.000 19.32 0.00 0.00 1.90
2442 6285 5.246883 TCTGAGATCATTGTCAAGGAGAACA 59.753 40.000 6.07 4.89 0.00 3.18
2474 6317 1.425066 AGCTTGGACAGTGATTTCCCA 59.575 47.619 0.00 0.00 0.00 4.37
2654 6499 2.140065 TAGCTGCGCTATGATGTGTC 57.860 50.000 9.73 0.00 40.44 3.67
2700 6576 2.162264 ACACCTAGCTACTCCCTTCC 57.838 55.000 0.00 0.00 0.00 3.46
2714 6590 0.258774 AGCCACACTTTCCAACACCT 59.741 50.000 0.00 0.00 0.00 4.00
2752 6635 3.135530 ACCATCAGGACTATCCTCAAAGC 59.864 47.826 0.00 0.00 45.66 3.51
2856 6780 9.830186 ACTATGTGAGTAATATCAGGACCTATT 57.170 33.333 0.00 0.00 36.27 1.73
2887 6811 2.093306 TTGGCAATCGTAGGTCACAG 57.907 50.000 0.00 0.00 0.00 3.66
2963 6911 5.296780 TCAATCAAAACCGAAGCCATCTATC 59.703 40.000 0.00 0.00 0.00 2.08
3033 6982 2.296471 ACACTACTCTCGGTTGTTCAGG 59.704 50.000 0.00 0.00 32.00 3.86
3120 7070 8.079203 TGTTAATTGCTTCACGTTTGTTGATAT 58.921 29.630 0.00 0.00 0.00 1.63
3131 7081 7.750458 ACTTACATCATTGTTAATTGCTTCACG 59.250 33.333 0.00 0.00 37.28 4.35
3243 7222 6.461509 GCCAATCCCAGTTACTTTCCAATATG 60.462 42.308 0.00 0.00 0.00 1.78
3249 7228 2.492088 GTGCCAATCCCAGTTACTTTCC 59.508 50.000 0.00 0.00 0.00 3.13


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

AutoCloner maintained by Alex Coulton.