Multiple sequence alignment - TraesCS7A01G537600

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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 TraesCS7A01G537600 chr7A 100.000 3586 0 0 1 3586 714824431 714820846 0.000000e+00 6623.0
1 TraesCS7A01G537600 chr7A 97.857 560 9 3 1 559 79353368 79353925 0.000000e+00 965.0
2 TraesCS7A01G537600 chr7A 81.575 1232 169 36 1270 2474 714759665 714758465 0.000000e+00 965.0
3 TraesCS7A01G537600 chr7A 87.302 567 53 15 2640 3202 714989265 714988714 6.530000e-177 630.0
4 TraesCS7A01G537600 chr7A 86.404 559 69 6 1 556 567934107 567934661 3.960000e-169 604.0
5 TraesCS7A01G537600 chr7A 85.714 560 70 9 1 556 566149282 566148729 1.860000e-162 582.0
6 TraesCS7A01G537600 chr7A 95.833 240 10 0 559 798 727054882 727054643 4.340000e-104 388.0
7 TraesCS7A01G537600 chr7A 84.557 395 54 5 40 428 164822576 164822183 5.620000e-103 385.0
8 TraesCS7A01G537600 chr7A 91.093 247 21 1 557 803 384409932 384410177 2.060000e-87 333.0
9 TraesCS7A01G537600 chr7A 84.573 363 19 13 3233 3586 714988651 714988317 3.450000e-85 326.0
10 TraesCS7A01G537600 chr7D 92.940 1558 88 5 1063 2601 620116077 620117631 0.000000e+00 2248.0
11 TraesCS7A01G537600 chr7D 87.097 1116 111 19 925 2023 620142711 620143810 0.000000e+00 1232.0
12 TraesCS7A01G537600 chr7D 82.750 829 97 24 1228 2025 620197569 620198382 0.000000e+00 697.0
13 TraesCS7A01G537600 chr7D 87.059 595 57 8 2069 2648 620143904 620144493 0.000000e+00 654.0
14 TraesCS7A01G537600 chr7D 91.193 352 28 2 3235 3586 620146349 620146697 3.240000e-130 475.0
15 TraesCS7A01G537600 chr7D 86.738 279 16 8 804 1073 620115401 620115667 1.260000e-74 291.0
16 TraesCS7A01G537600 chr7D 87.081 209 22 3 2644 2848 620144544 620144751 7.740000e-57 231.0
17 TraesCS7A01G537600 chr7D 89.157 83 9 0 3302 3384 620087714 620087796 1.760000e-18 104.0
18 TraesCS7A01G537600 chr7B 86.838 1246 122 20 794 2023 716999064 717000283 0.000000e+00 1354.0
19 TraesCS7A01G537600 chr7B 92.714 851 56 3 1163 2011 716467049 716466203 0.000000e+00 1223.0
20 TraesCS7A01G537600 chr7B 88.592 824 83 5 899 1718 716316363 716315547 0.000000e+00 990.0
21 TraesCS7A01G537600 chr7B 82.590 919 100 28 1771 2648 716315412 716314513 0.000000e+00 756.0
22 TraesCS7A01G537600 chr7B 87.367 657 47 10 2002 2648 716465966 716465336 0.000000e+00 721.0
23 TraesCS7A01G537600 chr7B 87.248 596 60 7 2065 2648 717000369 717000960 0.000000e+00 665.0
24 TraesCS7A01G537600 chr7B 87.257 565 58 9 1 557 413247205 413246647 1.820000e-177 632.0
25 TraesCS7A01G537600 chr7B 81.723 766 113 14 972 1719 716370481 716369725 6.580000e-172 614.0
26 TraesCS7A01G537600 chr7B 81.818 770 73 32 2644 3389 717001010 717001736 5.160000e-163 584.0
27 TraesCS7A01G537600 chr7B 86.417 508 61 6 1228 1733 716308233 716307732 1.880000e-152 549.0
28 TraesCS7A01G537600 chr7B 78.346 919 130 36 1767 2633 716307675 716306774 6.820000e-147 531.0
29 TraesCS7A01G537600 chr7B 92.394 355 21 4 3233 3586 716313018 716312669 5.340000e-138 501.0
30 TraesCS7A01G537600 chr7B 80.709 705 64 35 2644 3322 716465291 716464633 1.940000e-132 483.0
31 TraesCS7A01G537600 chr7B 95.455 242 9 2 558 798 727116352 727116592 5.620000e-103 385.0
32 TraesCS7A01G537600 chr7B 92.157 204 13 2 3384 3586 716442361 716442160 5.860000e-73 285.0
33 TraesCS7A01G537600 chr7B 87.137 241 23 2 1785 2025 716369509 716369277 2.120000e-67 267.0
34 TraesCS7A01G537600 chr7B 85.845 219 15 11 800 1005 716479689 716479474 6.030000e-53 219.0
35 TraesCS7A01G537600 chr7B 93.617 94 4 2 1012 1105 716475442 716475351 4.830000e-29 139.0
36 TraesCS7A01G537600 chr7B 94.118 51 3 0 843 893 628357293 628357343 1.070000e-10 78.7
37 TraesCS7A01G537600 chrUn 88.839 672 56 8 1045 1716 466806588 466807240 0.000000e+00 808.0
38 TraesCS7A01G537600 chr1A 92.679 560 35 5 1 556 59920766 59921323 0.000000e+00 802.0
39 TraesCS7A01G537600 chr3D 88.693 566 41 17 1 560 391572861 391573409 0.000000e+00 669.0
40 TraesCS7A01G537600 chr3D 86.151 556 68 8 6 556 315305270 315305821 3.080000e-165 592.0
41 TraesCS7A01G537600 chr3D 86.364 66 7 2 828 892 463198447 463198383 1.790000e-08 71.3
42 TraesCS7A01G537600 chr5D 86.786 560 66 8 1 556 152912671 152913226 5.090000e-173 617.0
43 TraesCS7A01G537600 chr5D 93.061 245 16 1 556 800 509374564 509374807 1.220000e-94 357.0
44 TraesCS7A01G537600 chr5D 91.903 247 19 1 556 802 535499743 535499988 9.530000e-91 344.0
45 TraesCS7A01G537600 chr4A 87.978 366 26 7 196 556 647638822 647639174 1.990000e-112 416.0
46 TraesCS7A01G537600 chr4A 79.365 126 14 9 800 913 584717435 584717310 1.070000e-10 78.7
47 TraesCS7A01G537600 chr3A 94.332 247 13 1 556 802 458689073 458689318 9.400000e-101 377.0
48 TraesCS7A01G537600 chr3A 80.851 94 10 6 800 885 661928993 661928900 2.310000e-07 67.6
49 TraesCS7A01G537600 chr3B 92.308 247 19 0 556 802 749645080 749645326 5.700000e-93 351.0
50 TraesCS7A01G537600 chr2D 92.245 245 18 1 558 802 352627314 352627071 2.650000e-91 346.0
51 TraesCS7A01G537600 chr2D 87.719 57 4 3 828 883 600408933 600408879 2.990000e-06 63.9
52 TraesCS7A01G537600 chr6A 91.770 243 19 1 556 798 65550412 65550171 1.600000e-88 337.0
53 TraesCS7A01G537600 chr6D 85.238 210 25 3 2644 2848 107535215 107535423 1.010000e-50 211.0
54 TraesCS7A01G537600 chr5A 82.258 124 10 7 802 917 687153808 687153689 2.950000e-16 97.1
55 TraesCS7A01G537600 chr5A 88.732 71 6 2 829 899 19273430 19273498 6.380000e-13 86.1
56 TraesCS7A01G537600 chr4D 81.053 95 14 3 801 893 15908487 15908395 4.970000e-09 73.1
57 TraesCS7A01G537600 chr2A 85.507 69 2 5 856 916 682633585 682633517 8.310000e-07 65.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G537600 chr7A 714820846 714824431 3585 True 6623.000000 6623 100.000000 1 3586 1 chr7A.!!$R4 3585
1 TraesCS7A01G537600 chr7A 79353368 79353925 557 False 965.000000 965 97.857000 1 559 1 chr7A.!!$F1 558
2 TraesCS7A01G537600 chr7A 714758465 714759665 1200 True 965.000000 965 81.575000 1270 2474 1 chr7A.!!$R3 1204
3 TraesCS7A01G537600 chr7A 567934107 567934661 554 False 604.000000 604 86.404000 1 556 1 chr7A.!!$F3 555
4 TraesCS7A01G537600 chr7A 566148729 566149282 553 True 582.000000 582 85.714000 1 556 1 chr7A.!!$R2 555
5 TraesCS7A01G537600 chr7A 714988317 714989265 948 True 478.000000 630 85.937500 2640 3586 2 chr7A.!!$R6 946
6 TraesCS7A01G537600 chr7D 620115401 620117631 2230 False 1269.500000 2248 89.839000 804 2601 2 chr7D.!!$F3 1797
7 TraesCS7A01G537600 chr7D 620197569 620198382 813 False 697.000000 697 82.750000 1228 2025 1 chr7D.!!$F2 797
8 TraesCS7A01G537600 chr7D 620142711 620146697 3986 False 648.000000 1232 88.107500 925 3586 4 chr7D.!!$F4 2661
9 TraesCS7A01G537600 chr7B 716999064 717001736 2672 False 867.666667 1354 85.301333 794 3389 3 chr7B.!!$F3 2595
10 TraesCS7A01G537600 chr7B 716464633 716467049 2416 True 809.000000 1223 86.930000 1163 3322 3 chr7B.!!$R8 2159
11 TraesCS7A01G537600 chr7B 716312669 716316363 3694 True 749.000000 990 87.858667 899 3586 3 chr7B.!!$R6 2687
12 TraesCS7A01G537600 chr7B 413246647 413247205 558 True 632.000000 632 87.257000 1 557 1 chr7B.!!$R1 556
13 TraesCS7A01G537600 chr7B 716306774 716308233 1459 True 540.000000 549 82.381500 1228 2633 2 chr7B.!!$R5 1405
14 TraesCS7A01G537600 chr7B 716369277 716370481 1204 True 440.500000 614 84.430000 972 2025 2 chr7B.!!$R7 1053
15 TraesCS7A01G537600 chrUn 466806588 466807240 652 False 808.000000 808 88.839000 1045 1716 1 chrUn.!!$F1 671
16 TraesCS7A01G537600 chr1A 59920766 59921323 557 False 802.000000 802 92.679000 1 556 1 chr1A.!!$F1 555
17 TraesCS7A01G537600 chr3D 391572861 391573409 548 False 669.000000 669 88.693000 1 560 1 chr3D.!!$F2 559
18 TraesCS7A01G537600 chr3D 315305270 315305821 551 False 592.000000 592 86.151000 6 556 1 chr3D.!!$F1 550
19 TraesCS7A01G537600 chr5D 152912671 152913226 555 False 617.000000 617 86.786000 1 556 1 chr5D.!!$F1 555

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
731 755 0.478507 AGTCCCAGGAACCAAACAGG 59.521 55.0 0.0 0.0 45.67 4.00 F
1643 2157 0.250858 CCACATGGTTCACCTCAGCA 60.251 55.0 0.0 0.0 36.82 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2311 3293 0.227234 CAGCAGCGTAATAGCGTTCG 59.773 55.0 0.0 0.0 43.0 3.95 R
3165 6003 0.249784 CTCCTGCATCCCATCTCGTG 60.250 60.0 0.0 0.0 0.0 4.35 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
219 220 2.148768 CCGGACAAGACCCAAAACTAC 58.851 52.381 0.00 0.00 0.00 2.73
224 225 3.872771 GACAAGACCCAAAACTACGTGAA 59.127 43.478 0.00 0.00 0.00 3.18
390 408 7.672660 TCAGTCTGGTTCCTATAAGTACAAAGA 59.327 37.037 0.00 0.00 0.00 2.52
481 504 8.723942 ACAAAAACACCATAATTGCTTGTTAA 57.276 26.923 0.00 0.00 31.13 2.01
561 585 4.815108 GGCCCGGCCCTGTTTAGG 62.815 72.222 18.83 0.00 44.06 2.69
596 620 9.682465 AAAGTTCTTATAAGTCCCATCTAAACC 57.318 33.333 12.19 0.00 0.00 3.27
597 621 8.388656 AGTTCTTATAAGTCCCATCTAAACCA 57.611 34.615 12.19 0.00 0.00 3.67
598 622 8.832735 AGTTCTTATAAGTCCCATCTAAACCAA 58.167 33.333 12.19 0.00 0.00 3.67
599 623 9.457436 GTTCTTATAAGTCCCATCTAAACCAAA 57.543 33.333 12.19 0.00 0.00 3.28
600 624 9.457436 TTCTTATAAGTCCCATCTAAACCAAAC 57.543 33.333 12.19 0.00 0.00 2.93
601 625 8.607713 TCTTATAAGTCCCATCTAAACCAAACA 58.392 33.333 12.19 0.00 0.00 2.83
602 626 8.801882 TTATAAGTCCCATCTAAACCAAACAG 57.198 34.615 0.00 0.00 0.00 3.16
603 627 4.034285 AGTCCCATCTAAACCAAACAGG 57.966 45.455 0.00 0.00 45.67 4.00
604 628 3.655777 AGTCCCATCTAAACCAAACAGGA 59.344 43.478 0.00 0.00 41.22 3.86
605 629 4.010349 GTCCCATCTAAACCAAACAGGAG 58.990 47.826 0.00 0.00 41.22 3.69
606 630 3.010138 TCCCATCTAAACCAAACAGGAGG 59.990 47.826 0.00 0.00 41.22 4.30
607 631 3.245264 CCCATCTAAACCAAACAGGAGGT 60.245 47.826 0.00 0.00 41.22 3.85
608 632 4.018779 CCCATCTAAACCAAACAGGAGGTA 60.019 45.833 0.00 0.00 41.22 3.08
609 633 4.941873 CCATCTAAACCAAACAGGAGGTAC 59.058 45.833 0.00 0.00 41.22 3.34
611 635 5.899631 TCTAAACCAAACAGGAGGTACTT 57.100 39.130 0.00 0.00 41.55 2.24
612 636 6.999705 TCTAAACCAAACAGGAGGTACTTA 57.000 37.500 0.00 0.00 41.55 2.24
613 637 7.563724 TCTAAACCAAACAGGAGGTACTTAT 57.436 36.000 0.00 0.00 41.55 1.73
614 638 8.669055 TCTAAACCAAACAGGAGGTACTTATA 57.331 34.615 0.00 0.00 41.55 0.98
615 639 8.755977 TCTAAACCAAACAGGAGGTACTTATAG 58.244 37.037 0.00 0.00 41.55 1.31
616 640 5.952347 ACCAAACAGGAGGTACTTATAGG 57.048 43.478 0.00 0.00 41.55 2.57
617 641 4.720273 ACCAAACAGGAGGTACTTATAGGG 59.280 45.833 0.00 0.00 41.55 3.53
618 642 4.966805 CCAAACAGGAGGTACTTATAGGGA 59.033 45.833 0.00 0.00 41.55 4.20
619 643 5.163332 CCAAACAGGAGGTACTTATAGGGAC 60.163 48.000 0.00 0.00 41.55 4.46
620 644 5.484734 AACAGGAGGTACTTATAGGGACT 57.515 43.478 0.00 0.00 41.55 3.85
621 645 5.484734 ACAGGAGGTACTTATAGGGACTT 57.515 43.478 0.00 0.00 41.55 3.01
622 646 6.603110 ACAGGAGGTACTTATAGGGACTTA 57.397 41.667 0.00 0.00 41.55 2.24
623 647 6.989894 ACAGGAGGTACTTATAGGGACTTAA 58.010 40.000 0.00 0.00 41.55 1.85
624 648 7.425003 ACAGGAGGTACTTATAGGGACTTAAA 58.575 38.462 0.00 0.00 41.55 1.52
625 649 7.564292 ACAGGAGGTACTTATAGGGACTTAAAG 59.436 40.741 0.00 0.00 41.55 1.85
626 650 7.564292 CAGGAGGTACTTATAGGGACTTAAAGT 59.436 40.741 0.00 0.00 41.55 2.66
627 651 7.564292 AGGAGGTACTTATAGGGACTTAAAGTG 59.436 40.741 0.00 0.00 41.55 3.16
628 652 7.201983 GGAGGTACTTATAGGGACTTAAAGTGG 60.202 44.444 0.00 0.00 41.55 4.00
629 653 6.614496 AGGTACTTATAGGGACTTAAAGTGGG 59.386 42.308 0.00 0.00 40.66 4.61
630 654 5.369409 ACTTATAGGGACTTAAAGTGGGC 57.631 43.478 0.00 0.00 39.58 5.36
631 655 4.786454 ACTTATAGGGACTTAAAGTGGGCA 59.214 41.667 0.00 0.00 39.58 5.36
632 656 5.432060 ACTTATAGGGACTTAAAGTGGGCAT 59.568 40.000 0.00 0.00 39.58 4.40
633 657 4.881157 ATAGGGACTTAAAGTGGGCATT 57.119 40.909 0.00 0.00 41.75 3.56
634 658 3.542969 AGGGACTTAAAGTGGGCATTT 57.457 42.857 0.00 0.00 27.25 2.32
635 659 3.165071 AGGGACTTAAAGTGGGCATTTG 58.835 45.455 0.00 0.00 27.25 2.32
636 660 2.233676 GGGACTTAAAGTGGGCATTTGG 59.766 50.000 0.00 0.00 0.00 3.28
637 661 2.233676 GGACTTAAAGTGGGCATTTGGG 59.766 50.000 0.00 0.00 0.00 4.12
638 662 3.161866 GACTTAAAGTGGGCATTTGGGA 58.838 45.455 0.00 0.00 0.00 4.37
639 663 2.897326 ACTTAAAGTGGGCATTTGGGAC 59.103 45.455 0.00 0.00 0.00 4.46
640 664 2.990740 TAAAGTGGGCATTTGGGACT 57.009 45.000 0.00 0.00 0.00 3.85
641 665 2.101640 AAAGTGGGCATTTGGGACTT 57.898 45.000 0.00 0.00 0.00 3.01
642 666 2.990740 AAGTGGGCATTTGGGACTTA 57.009 45.000 0.00 0.00 0.00 2.24
643 667 3.473113 AAGTGGGCATTTGGGACTTAT 57.527 42.857 0.00 0.00 0.00 1.73
644 668 2.738743 AGTGGGCATTTGGGACTTATG 58.261 47.619 0.00 0.00 0.00 1.90
645 669 2.311542 AGTGGGCATTTGGGACTTATGA 59.688 45.455 0.00 0.00 0.00 2.15
646 670 3.096092 GTGGGCATTTGGGACTTATGAA 58.904 45.455 0.00 0.00 0.00 2.57
647 671 3.513515 GTGGGCATTTGGGACTTATGAAA 59.486 43.478 0.00 0.00 0.00 2.69
648 672 4.162131 GTGGGCATTTGGGACTTATGAAAT 59.838 41.667 0.00 0.00 0.00 2.17
649 673 5.362430 GTGGGCATTTGGGACTTATGAAATA 59.638 40.000 0.00 0.00 0.00 1.40
650 674 5.960811 TGGGCATTTGGGACTTATGAAATAA 59.039 36.000 0.00 0.00 36.20 1.40
665 689 5.683876 TGAAATAAGACTCTCAAGGAGGG 57.316 43.478 0.00 0.00 45.83 4.30
666 690 5.342017 TGAAATAAGACTCTCAAGGAGGGA 58.658 41.667 0.00 0.00 45.83 4.20
667 691 5.187967 TGAAATAAGACTCTCAAGGAGGGAC 59.812 44.000 0.00 0.00 45.83 4.46
668 692 4.618378 ATAAGACTCTCAAGGAGGGACT 57.382 45.455 0.00 0.00 45.83 3.85
669 693 3.268034 AAGACTCTCAAGGAGGGACTT 57.732 47.619 5.25 5.25 45.83 3.01
670 694 4.405756 AAGACTCTCAAGGAGGGACTTA 57.594 45.455 8.68 0.00 41.64 2.24
671 695 4.618378 AGACTCTCAAGGAGGGACTTAT 57.382 45.455 0.00 0.00 45.83 1.73
672 696 5.735733 AGACTCTCAAGGAGGGACTTATA 57.264 43.478 0.00 0.00 45.83 0.98
673 697 5.701224 AGACTCTCAAGGAGGGACTTATAG 58.299 45.833 0.00 0.00 45.83 1.31
674 698 4.810345 ACTCTCAAGGAGGGACTTATAGG 58.190 47.826 0.00 0.00 45.83 2.57
675 699 4.156477 CTCTCAAGGAGGGACTTATAGGG 58.844 52.174 0.00 0.00 41.55 3.53
676 700 3.797845 TCTCAAGGAGGGACTTATAGGGA 59.202 47.826 0.00 0.00 41.55 4.20
677 701 3.898741 CTCAAGGAGGGACTTATAGGGAC 59.101 52.174 0.00 0.00 41.55 4.46
678 702 3.536434 TCAAGGAGGGACTTATAGGGACT 59.464 47.826 0.00 0.00 41.55 3.85
679 703 4.015541 TCAAGGAGGGACTTATAGGGACTT 60.016 45.833 0.00 0.00 41.55 3.01
680 704 5.197189 TCAAGGAGGGACTTATAGGGACTTA 59.803 44.000 0.00 0.00 41.55 2.24
681 705 5.970692 AGGAGGGACTTATAGGGACTTAT 57.029 43.478 0.00 0.00 41.55 1.73
682 706 7.075915 TCAAGGAGGGACTTATAGGGACTTATA 59.924 40.741 0.00 0.00 41.55 0.98
683 707 7.431936 AGGAGGGACTTATAGGGACTTATAA 57.568 40.000 0.00 0.00 41.55 0.98
684 708 8.025299 AGGAGGGACTTATAGGGACTTATAAT 57.975 38.462 0.00 0.00 41.55 1.28
685 709 8.474268 AGGAGGGACTTATAGGGACTTATAATT 58.526 37.037 0.00 0.00 41.55 1.40
686 710 8.541234 GGAGGGACTTATAGGGACTTATAATTG 58.459 40.741 0.00 0.00 41.55 2.32
687 711 9.102453 GAGGGACTTATAGGGACTTATAATTGT 57.898 37.037 0.00 0.00 41.55 2.71
698 722 9.448587 AGGGACTTATAATTGTAGTATGGTCTT 57.551 33.333 0.00 0.00 27.25 3.01
727 751 5.853572 ACTTATAAGTCCCAGGAACCAAA 57.146 39.130 12.50 0.00 32.86 3.28
728 752 5.567430 ACTTATAAGTCCCAGGAACCAAAC 58.433 41.667 12.50 0.00 32.86 2.93
729 753 5.073965 ACTTATAAGTCCCAGGAACCAAACA 59.926 40.000 12.50 0.00 32.86 2.83
730 754 2.364972 AAGTCCCAGGAACCAAACAG 57.635 50.000 0.00 0.00 0.00 3.16
731 755 0.478507 AGTCCCAGGAACCAAACAGG 59.521 55.000 0.00 0.00 45.67 4.00
742 766 2.200373 CCAAACAGGTAGGGACTTGG 57.800 55.000 0.00 0.00 41.75 3.61
743 767 1.271926 CCAAACAGGTAGGGACTTGGG 60.272 57.143 0.00 0.00 41.75 4.12
744 768 1.702957 CAAACAGGTAGGGACTTGGGA 59.297 52.381 0.00 0.00 41.75 4.37
745 769 1.359168 AACAGGTAGGGACTTGGGAC 58.641 55.000 0.00 0.00 41.75 4.46
746 770 0.492276 ACAGGTAGGGACTTGGGACT 59.508 55.000 0.00 0.00 41.75 3.85
747 771 1.132495 ACAGGTAGGGACTTGGGACTT 60.132 52.381 0.00 0.00 41.75 3.01
748 772 2.113052 ACAGGTAGGGACTTGGGACTTA 59.887 50.000 0.00 0.00 41.75 2.24
749 773 3.246387 ACAGGTAGGGACTTGGGACTTAT 60.246 47.826 0.00 0.00 41.75 1.73
750 774 4.015918 ACAGGTAGGGACTTGGGACTTATA 60.016 45.833 0.00 0.00 41.75 0.98
751 775 4.966805 CAGGTAGGGACTTGGGACTTATAA 59.033 45.833 0.00 0.00 41.75 0.98
752 776 5.070580 CAGGTAGGGACTTGGGACTTATAAG 59.929 48.000 11.05 11.05 41.75 1.73
753 777 4.967442 GGTAGGGACTTGGGACTTATAAGT 59.033 45.833 18.05 18.05 40.66 2.24
754 778 5.427806 GGTAGGGACTTGGGACTTATAAGTT 59.572 44.000 18.96 2.29 38.78 2.66
755 779 5.437191 AGGGACTTGGGACTTATAAGTTG 57.563 43.478 18.96 9.81 34.84 3.16
756 780 4.227527 AGGGACTTGGGACTTATAAGTTGG 59.772 45.833 18.96 10.07 34.84 3.77
757 781 4.524053 GGACTTGGGACTTATAAGTTGGG 58.476 47.826 18.96 10.37 39.88 4.12
758 782 4.226620 GGACTTGGGACTTATAAGTTGGGA 59.773 45.833 18.96 6.15 39.88 4.37
759 783 5.175388 ACTTGGGACTTATAAGTTGGGAC 57.825 43.478 18.96 6.19 39.88 4.46
760 784 4.850386 ACTTGGGACTTATAAGTTGGGACT 59.150 41.667 18.96 0.00 39.88 3.85
761 785 6.027482 ACTTGGGACTTATAAGTTGGGACTA 58.973 40.000 18.96 3.96 39.88 2.59
762 786 6.502863 ACTTGGGACTTATAAGTTGGGACTAA 59.497 38.462 18.96 10.32 39.88 2.24
763 787 6.956102 TGGGACTTATAAGTTGGGACTAAA 57.044 37.500 18.96 0.00 39.88 1.85
764 788 7.332433 TGGGACTTATAAGTTGGGACTAAAA 57.668 36.000 18.96 0.00 39.88 1.52
765 789 7.757611 TGGGACTTATAAGTTGGGACTAAAAA 58.242 34.615 18.96 0.00 39.88 1.94
791 815 5.801380 GTCCTAGGACTTATGAACCAAACA 58.199 41.667 31.12 0.00 41.57 2.83
792 816 5.875359 GTCCTAGGACTTATGAACCAAACAG 59.125 44.000 31.12 0.00 41.57 3.16
793 817 5.045869 TCCTAGGACTTATGAACCAAACAGG 60.046 44.000 7.62 0.00 45.67 4.00
794 818 4.034285 AGGACTTATGAACCAAACAGGG 57.966 45.455 0.00 0.00 43.89 4.45
795 819 2.492088 GGACTTATGAACCAAACAGGGC 59.508 50.000 0.00 0.00 43.89 5.19
798 822 2.214376 TATGAACCAAACAGGGCCTG 57.786 50.000 31.62 31.62 43.89 4.85
826 850 6.642131 TCAAATGACATAACTTGCAAGAAAGC 59.358 34.615 32.50 15.61 0.00 3.51
863 889 4.523173 TCCACGTATCTCCATGTAAGATCC 59.477 45.833 10.27 0.82 35.20 3.36
916 950 3.797039 TCCACTGAGATTTAGCAATCCG 58.203 45.455 0.00 0.00 39.95 4.18
918 952 2.289002 CACTGAGATTTAGCAATCCGGC 59.711 50.000 0.00 0.00 39.95 6.13
951 985 1.159285 CATGTGAGAAAAGCCGAGCA 58.841 50.000 0.00 0.00 0.00 4.26
1018 1063 5.471556 TTGTGTATATATGTACCCCACCG 57.528 43.478 7.12 0.00 0.00 4.94
1166 1637 4.148825 CTCAGCCTTCGTCCCGGG 62.149 72.222 16.85 16.85 0.00 5.73
1197 1678 0.465460 AGCAAGAAACCGGTGAGCAA 60.465 50.000 8.52 0.00 0.00 3.91
1560 2074 0.955919 GGCACTGCTTACCACCTCAC 60.956 60.000 0.00 0.00 0.00 3.51
1601 2115 1.675714 CCAGCGAGCACCATCTAAACA 60.676 52.381 0.00 0.00 0.00 2.83
1605 2119 1.675714 CGAGCACCATCTAAACAGCCA 60.676 52.381 0.00 0.00 0.00 4.75
1643 2157 0.250858 CCACATGGTTCACCTCAGCA 60.251 55.000 0.00 0.00 36.82 4.41
1724 2239 4.472286 CCTGCACAAGGTACGTAATTTTG 58.528 43.478 0.00 5.20 41.74 2.44
1899 2583 2.094675 TGAAGCCTACTACCGGTACAC 58.905 52.381 11.16 0.00 0.00 2.90
1909 2593 2.440796 CGGTACACGGGCTCCCTA 60.441 66.667 3.11 0.00 39.42 3.53
2049 3013 3.697747 CGGTCACTAACGCCCCCA 61.698 66.667 0.00 0.00 0.00 4.96
2141 3117 1.211969 GCTTCTCACGGACGCTGTA 59.788 57.895 0.00 0.00 36.45 2.74
2297 3279 3.493877 CAGAGATATCAGCCTTTTCTGCG 59.506 47.826 5.32 0.00 34.19 5.18
2311 3293 0.460811 TCTGCGCTCATGATGACCAC 60.461 55.000 9.73 0.00 0.00 4.16
2336 3318 1.869767 GCTATTACGCTGCTGCTGATT 59.130 47.619 14.03 0.00 36.97 2.57
2458 3444 5.459110 TGTCGGCGAATAATTGTTTCTAC 57.541 39.130 12.92 0.00 0.00 2.59
2563 3578 2.524306 CAGGGATGTTTGTTGGCCTTA 58.476 47.619 3.32 0.00 0.00 2.69
2567 3582 2.497273 GGATGTTTGTTGGCCTTAGCAT 59.503 45.455 3.32 0.84 42.56 3.79
2578 3593 4.973168 TGGCCTTAGCATGGTTCTTATAG 58.027 43.478 3.32 0.00 42.56 1.31
2583 3598 5.998363 CCTTAGCATGGTTCTTATAGTTCCC 59.002 44.000 1.12 0.00 0.00 3.97
2607 3622 7.980099 CCCTAATAAAGTCAAAGTCATAGACGT 59.020 37.037 0.00 0.00 37.67 4.34
2608 3623 8.808529 CCTAATAAAGTCAAAGTCATAGACGTG 58.191 37.037 0.00 0.00 37.67 4.49
2609 3624 9.355215 CTAATAAAGTCAAAGTCATAGACGTGT 57.645 33.333 0.00 0.00 37.67 4.49
2657 3728 6.653320 ACTTGGATAATTAAGAAAGCACGTCA 59.347 34.615 0.00 0.00 0.00 4.35
2658 3729 6.417191 TGGATAATTAAGAAAGCACGTCAC 57.583 37.500 0.00 0.00 0.00 3.67
2696 3767 5.673337 TTTCTTGACAACATGTGCTAGAC 57.327 39.130 0.00 0.00 0.00 2.59
2706 3783 5.683876 ACATGTGCTAGACCATAGTTTCT 57.316 39.130 0.00 0.00 0.00 2.52
2709 3786 4.832248 TGTGCTAGACCATAGTTTCTTGG 58.168 43.478 0.00 0.00 39.02 3.61
2722 3799 8.415553 CCATAGTTTCTTGGAATCATTGCATAA 58.584 33.333 0.00 0.00 34.81 1.90
2725 3802 7.844009 AGTTTCTTGGAATCATTGCATAACAT 58.156 30.769 11.79 0.00 0.00 2.71
2731 3808 7.457024 TGGAATCATTGCATAACATATCCAG 57.543 36.000 0.00 0.00 0.00 3.86
2864 5164 7.600752 GTGCTACAGATCTCTATATTTGTTCCC 59.399 40.741 0.00 0.00 0.00 3.97
2893 5193 7.230108 TCCTTCTTTACCACACTATATAGACGG 59.770 40.741 16.79 14.15 0.00 4.79
2897 5197 3.573695 ACCACACTATATAGACGGGCTT 58.426 45.455 16.79 0.00 0.00 4.35
2923 5223 0.883833 CCAGTTGGGTGAGATTGTGC 59.116 55.000 0.00 0.00 0.00 4.57
2925 5225 2.290260 CCAGTTGGGTGAGATTGTGCTA 60.290 50.000 0.00 0.00 0.00 3.49
3027 5858 0.818938 TGAATGTGGACCATGCATGC 59.181 50.000 21.69 11.82 33.90 4.06
3127 5965 3.753774 CACCTGTGTGTCGCAATTC 57.246 52.632 0.00 0.00 37.72 2.17
3128 5966 0.943673 CACCTGTGTGTCGCAATTCA 59.056 50.000 0.00 0.00 37.72 2.57
3165 6003 0.105778 GAGCATCTCCCACAGGCTAC 59.894 60.000 0.00 0.00 34.44 3.58
3276 6158 4.040461 CCCGGAGATTCACATGGTTATACT 59.960 45.833 0.73 0.00 0.00 2.12
3279 6161 6.239204 CCGGAGATTCACATGGTTATACTACA 60.239 42.308 0.00 0.00 0.00 2.74
3296 6178 1.211449 CAAGACAGAGAGAGCGCGT 59.789 57.895 8.43 0.00 0.00 6.01
3297 6179 0.387878 CAAGACAGAGAGAGCGCGTT 60.388 55.000 8.43 0.00 0.00 4.84
3312 6194 5.178809 AGAGCGCGTTAACAAAACTAGATTT 59.821 36.000 8.43 0.00 0.00 2.17
3432 6321 1.666189 GAGTTGGTAAGAGAATGCGGC 59.334 52.381 0.00 0.00 0.00 6.53
3501 6390 2.032681 AGGGTCTGCGGCTGTTTC 59.967 61.111 0.00 0.00 0.00 2.78
3552 6441 6.316140 TGAGAATAAGGACACCGAAATTCATG 59.684 38.462 0.00 0.00 0.00 3.07
3553 6442 4.900635 ATAAGGACACCGAAATTCATGC 57.099 40.909 0.00 0.00 0.00 4.06
3563 6452 3.236816 CGAAATTCATGCGCCATATTCC 58.763 45.455 4.18 0.00 0.00 3.01
3576 6465 4.681781 CGCCATATTCCACTTCTTCTGTCT 60.682 45.833 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
219 220 5.499268 TTAAACGAACCGTCTAATTCACG 57.501 39.130 0.00 3.41 39.99 4.35
224 225 5.866335 TGCAATTAAACGAACCGTCTAAT 57.134 34.783 0.00 0.00 39.99 1.73
481 504 9.035890 GGGCCCTATCTTGCTATAAAAATAAAT 57.964 33.333 17.04 0.00 0.00 1.40
570 594 9.682465 GGTTTAGATGGGACTTATAAGAACTTT 57.318 33.333 19.38 0.00 0.00 2.66
571 595 8.832735 TGGTTTAGATGGGACTTATAAGAACTT 58.167 33.333 19.38 6.69 0.00 2.66
572 596 8.388656 TGGTTTAGATGGGACTTATAAGAACT 57.611 34.615 19.38 10.09 0.00 3.01
573 597 9.457436 TTTGGTTTAGATGGGACTTATAAGAAC 57.543 33.333 19.38 11.65 0.00 3.01
574 598 9.457436 GTTTGGTTTAGATGGGACTTATAAGAA 57.543 33.333 19.38 2.41 0.00 2.52
575 599 8.607713 TGTTTGGTTTAGATGGGACTTATAAGA 58.392 33.333 19.38 0.00 0.00 2.10
576 600 8.801882 TGTTTGGTTTAGATGGGACTTATAAG 57.198 34.615 11.05 11.05 0.00 1.73
577 601 7.832187 CCTGTTTGGTTTAGATGGGACTTATAA 59.168 37.037 0.00 0.00 0.00 0.98
578 602 7.183112 TCCTGTTTGGTTTAGATGGGACTTATA 59.817 37.037 0.00 0.00 37.07 0.98
579 603 6.011981 TCCTGTTTGGTTTAGATGGGACTTAT 60.012 38.462 0.00 0.00 37.07 1.73
580 604 5.311121 TCCTGTTTGGTTTAGATGGGACTTA 59.689 40.000 0.00 0.00 37.07 2.24
581 605 4.105697 TCCTGTTTGGTTTAGATGGGACTT 59.894 41.667 0.00 0.00 37.07 3.01
582 606 3.655777 TCCTGTTTGGTTTAGATGGGACT 59.344 43.478 0.00 0.00 37.07 3.85
583 607 4.010349 CTCCTGTTTGGTTTAGATGGGAC 58.990 47.826 0.00 0.00 37.07 4.46
584 608 3.010138 CCTCCTGTTTGGTTTAGATGGGA 59.990 47.826 0.00 0.00 37.07 4.37
585 609 3.245264 ACCTCCTGTTTGGTTTAGATGGG 60.245 47.826 0.00 0.00 37.07 4.00
586 610 4.034285 ACCTCCTGTTTGGTTTAGATGG 57.966 45.455 0.00 0.00 37.07 3.51
587 611 5.805728 AGTACCTCCTGTTTGGTTTAGATG 58.194 41.667 0.00 0.00 37.74 2.90
588 612 6.449830 AAGTACCTCCTGTTTGGTTTAGAT 57.550 37.500 0.00 0.00 37.74 1.98
589 613 5.899631 AAGTACCTCCTGTTTGGTTTAGA 57.100 39.130 0.00 0.00 37.74 2.10
590 614 7.985752 CCTATAAGTACCTCCTGTTTGGTTTAG 59.014 40.741 0.00 0.00 37.74 1.85
591 615 7.092757 CCCTATAAGTACCTCCTGTTTGGTTTA 60.093 40.741 0.00 0.00 37.74 2.01
592 616 6.296836 CCCTATAAGTACCTCCTGTTTGGTTT 60.297 42.308 0.00 0.00 37.74 3.27
593 617 5.191124 CCCTATAAGTACCTCCTGTTTGGTT 59.809 44.000 0.00 0.00 37.74 3.67
594 618 4.720273 CCCTATAAGTACCTCCTGTTTGGT 59.280 45.833 0.00 0.00 40.12 3.67
595 619 4.966805 TCCCTATAAGTACCTCCTGTTTGG 59.033 45.833 0.00 0.00 37.10 3.28
596 620 5.661759 AGTCCCTATAAGTACCTCCTGTTTG 59.338 44.000 0.00 0.00 0.00 2.93
597 621 5.851418 AGTCCCTATAAGTACCTCCTGTTT 58.149 41.667 0.00 0.00 0.00 2.83
598 622 5.484734 AGTCCCTATAAGTACCTCCTGTT 57.515 43.478 0.00 0.00 0.00 3.16
599 623 5.484734 AAGTCCCTATAAGTACCTCCTGT 57.515 43.478 0.00 0.00 0.00 4.00
600 624 7.564292 ACTTTAAGTCCCTATAAGTACCTCCTG 59.436 40.741 0.00 0.00 0.00 3.86
601 625 7.564292 CACTTTAAGTCCCTATAAGTACCTCCT 59.436 40.741 0.00 0.00 0.00 3.69
602 626 7.201983 CCACTTTAAGTCCCTATAAGTACCTCC 60.202 44.444 0.00 0.00 0.00 4.30
603 627 7.201983 CCCACTTTAAGTCCCTATAAGTACCTC 60.202 44.444 0.00 0.00 0.00 3.85
604 628 6.614496 CCCACTTTAAGTCCCTATAAGTACCT 59.386 42.308 0.00 0.00 0.00 3.08
605 629 6.687393 GCCCACTTTAAGTCCCTATAAGTACC 60.687 46.154 0.00 0.00 0.00 3.34
606 630 6.126968 TGCCCACTTTAAGTCCCTATAAGTAC 60.127 42.308 0.00 0.00 0.00 2.73
607 631 5.965705 TGCCCACTTTAAGTCCCTATAAGTA 59.034 40.000 0.00 0.00 0.00 2.24
608 632 4.786454 TGCCCACTTTAAGTCCCTATAAGT 59.214 41.667 0.00 0.00 0.00 2.24
609 633 5.367945 TGCCCACTTTAAGTCCCTATAAG 57.632 43.478 0.00 0.00 0.00 1.73
610 634 5.987019 ATGCCCACTTTAAGTCCCTATAA 57.013 39.130 0.00 0.00 0.00 0.98
611 635 5.987019 AATGCCCACTTTAAGTCCCTATA 57.013 39.130 0.00 0.00 0.00 1.31
612 636 4.881157 AATGCCCACTTTAAGTCCCTAT 57.119 40.909 0.00 0.00 0.00 2.57
613 637 4.340617 CAAATGCCCACTTTAAGTCCCTA 58.659 43.478 0.00 0.00 0.00 3.53
614 638 3.165071 CAAATGCCCACTTTAAGTCCCT 58.835 45.455 0.00 0.00 0.00 4.20
615 639 2.233676 CCAAATGCCCACTTTAAGTCCC 59.766 50.000 0.00 0.00 0.00 4.46
616 640 2.233676 CCCAAATGCCCACTTTAAGTCC 59.766 50.000 0.00 0.00 0.00 3.85
617 641 3.056821 GTCCCAAATGCCCACTTTAAGTC 60.057 47.826 0.00 0.00 0.00 3.01
618 642 2.897326 GTCCCAAATGCCCACTTTAAGT 59.103 45.455 0.00 0.00 0.00 2.24
619 643 3.165071 AGTCCCAAATGCCCACTTTAAG 58.835 45.455 0.00 0.00 0.00 1.85
620 644 3.252554 AGTCCCAAATGCCCACTTTAA 57.747 42.857 0.00 0.00 0.00 1.52
621 645 2.990740 AGTCCCAAATGCCCACTTTA 57.009 45.000 0.00 0.00 0.00 1.85
622 646 2.101640 AAGTCCCAAATGCCCACTTT 57.898 45.000 0.00 0.00 0.00 2.66
623 647 2.990740 TAAGTCCCAAATGCCCACTT 57.009 45.000 0.00 0.00 0.00 3.16
624 648 2.311542 TCATAAGTCCCAAATGCCCACT 59.688 45.455 0.00 0.00 0.00 4.00
625 649 2.733956 TCATAAGTCCCAAATGCCCAC 58.266 47.619 0.00 0.00 0.00 4.61
626 650 3.464720 TTCATAAGTCCCAAATGCCCA 57.535 42.857 0.00 0.00 0.00 5.36
627 651 6.323739 TCTTATTTCATAAGTCCCAAATGCCC 59.676 38.462 3.93 0.00 42.21 5.36
628 652 7.068716 AGTCTTATTTCATAAGTCCCAAATGCC 59.931 37.037 3.93 0.00 42.21 4.40
629 653 8.000780 AGTCTTATTTCATAAGTCCCAAATGC 57.999 34.615 3.93 0.00 42.21 3.56
630 654 9.401058 AGAGTCTTATTTCATAAGTCCCAAATG 57.599 33.333 3.93 0.00 42.21 2.32
631 655 9.620259 GAGAGTCTTATTTCATAAGTCCCAAAT 57.380 33.333 0.00 0.00 42.21 2.32
632 656 8.602424 TGAGAGTCTTATTTCATAAGTCCCAAA 58.398 33.333 0.00 0.00 42.21 3.28
633 657 8.146053 TGAGAGTCTTATTTCATAAGTCCCAA 57.854 34.615 0.00 0.00 42.21 4.12
634 658 7.733773 TGAGAGTCTTATTTCATAAGTCCCA 57.266 36.000 0.00 0.00 42.21 4.37
635 659 7.713073 CCTTGAGAGTCTTATTTCATAAGTCCC 59.287 40.741 0.00 0.00 42.21 4.46
636 660 8.478877 TCCTTGAGAGTCTTATTTCATAAGTCC 58.521 37.037 0.00 0.00 42.21 3.85
637 661 9.528018 CTCCTTGAGAGTCTTATTTCATAAGTC 57.472 37.037 0.00 0.00 37.60 3.01
638 662 8.482128 CCTCCTTGAGAGTCTTATTTCATAAGT 58.518 37.037 0.00 0.00 41.47 2.24
639 663 7.930865 CCCTCCTTGAGAGTCTTATTTCATAAG 59.069 40.741 0.00 0.00 41.47 1.73
640 664 7.623677 TCCCTCCTTGAGAGTCTTATTTCATAA 59.376 37.037 0.00 0.00 41.47 1.90
641 665 7.070074 GTCCCTCCTTGAGAGTCTTATTTCATA 59.930 40.741 0.00 0.00 41.47 2.15
642 666 5.966935 TCCCTCCTTGAGAGTCTTATTTCAT 59.033 40.000 0.00 0.00 41.47 2.57
643 667 5.187967 GTCCCTCCTTGAGAGTCTTATTTCA 59.812 44.000 0.00 0.00 41.47 2.69
644 668 5.423931 AGTCCCTCCTTGAGAGTCTTATTTC 59.576 44.000 0.00 0.00 41.47 2.17
645 669 5.346270 AGTCCCTCCTTGAGAGTCTTATTT 58.654 41.667 0.00 0.00 41.47 1.40
646 670 4.954089 AGTCCCTCCTTGAGAGTCTTATT 58.046 43.478 0.00 0.00 41.47 1.40
647 671 4.618378 AGTCCCTCCTTGAGAGTCTTAT 57.382 45.455 0.00 0.00 41.47 1.73
648 672 4.405756 AAGTCCCTCCTTGAGAGTCTTA 57.594 45.455 0.00 0.00 41.47 2.10
649 673 3.268034 AAGTCCCTCCTTGAGAGTCTT 57.732 47.619 0.00 0.00 41.47 3.01
650 674 4.618378 ATAAGTCCCTCCTTGAGAGTCT 57.382 45.455 0.00 0.00 41.47 3.24
651 675 4.830600 CCTATAAGTCCCTCCTTGAGAGTC 59.169 50.000 0.00 0.00 41.47 3.36
652 676 4.388118 CCCTATAAGTCCCTCCTTGAGAGT 60.388 50.000 0.00 0.00 41.47 3.24
653 677 4.140900 TCCCTATAAGTCCCTCCTTGAGAG 60.141 50.000 0.00 0.00 42.83 3.20
654 678 3.797845 TCCCTATAAGTCCCTCCTTGAGA 59.202 47.826 0.00 0.00 0.00 3.27
655 679 3.898741 GTCCCTATAAGTCCCTCCTTGAG 59.101 52.174 0.00 0.00 0.00 3.02
656 680 3.536434 AGTCCCTATAAGTCCCTCCTTGA 59.464 47.826 0.00 0.00 0.00 3.02
657 681 3.930035 AGTCCCTATAAGTCCCTCCTTG 58.070 50.000 0.00 0.00 0.00 3.61
658 682 4.645968 AAGTCCCTATAAGTCCCTCCTT 57.354 45.455 0.00 0.00 0.00 3.36
659 683 5.970692 ATAAGTCCCTATAAGTCCCTCCT 57.029 43.478 0.00 0.00 0.00 3.69
660 684 8.541234 CAATTATAAGTCCCTATAAGTCCCTCC 58.459 40.741 0.00 0.00 29.49 4.30
661 685 9.102453 ACAATTATAAGTCCCTATAAGTCCCTC 57.898 37.037 0.00 0.00 29.49 4.30
672 696 9.448587 AAGACCATACTACAATTATAAGTCCCT 57.551 33.333 0.00 0.00 0.00 4.20
705 729 5.073965 TGTTTGGTTCCTGGGACTTATAAGT 59.926 40.000 18.05 18.05 43.16 2.24
706 730 5.566469 TGTTTGGTTCCTGGGACTTATAAG 58.434 41.667 11.05 11.05 0.00 1.73
707 731 5.515886 CCTGTTTGGTTCCTGGGACTTATAA 60.516 44.000 4.84 0.00 0.00 0.98
708 732 4.018779 CCTGTTTGGTTCCTGGGACTTATA 60.019 45.833 4.84 0.00 0.00 0.98
709 733 3.245264 CCTGTTTGGTTCCTGGGACTTAT 60.245 47.826 4.84 0.00 0.00 1.73
710 734 2.107552 CCTGTTTGGTTCCTGGGACTTA 59.892 50.000 4.84 0.00 0.00 2.24
711 735 1.133482 CCTGTTTGGTTCCTGGGACTT 60.133 52.381 4.84 0.00 0.00 3.01
712 736 0.478507 CCTGTTTGGTTCCTGGGACT 59.521 55.000 4.84 0.00 0.00 3.85
713 737 3.036431 CCTGTTTGGTTCCTGGGAC 57.964 57.895 0.00 0.00 0.00 4.46
723 747 1.271926 CCCAAGTCCCTACCTGTTTGG 60.272 57.143 0.00 0.00 42.93 3.28
724 748 1.702957 TCCCAAGTCCCTACCTGTTTG 59.297 52.381 0.00 0.00 0.00 2.93
725 749 1.703513 GTCCCAAGTCCCTACCTGTTT 59.296 52.381 0.00 0.00 0.00 2.83
726 750 1.132495 AGTCCCAAGTCCCTACCTGTT 60.132 52.381 0.00 0.00 0.00 3.16
727 751 0.492276 AGTCCCAAGTCCCTACCTGT 59.508 55.000 0.00 0.00 0.00 4.00
728 752 1.657804 AAGTCCCAAGTCCCTACCTG 58.342 55.000 0.00 0.00 0.00 4.00
729 753 3.797671 ATAAGTCCCAAGTCCCTACCT 57.202 47.619 0.00 0.00 0.00 3.08
730 754 4.967442 ACTTATAAGTCCCAAGTCCCTACC 59.033 45.833 12.50 0.00 32.86 3.18
731 755 6.346896 CAACTTATAAGTCCCAAGTCCCTAC 58.653 44.000 18.28 0.00 38.57 3.18
732 756 5.427481 CCAACTTATAAGTCCCAAGTCCCTA 59.573 44.000 18.28 0.00 38.57 3.53
733 757 4.227527 CCAACTTATAAGTCCCAAGTCCCT 59.772 45.833 18.28 0.00 38.57 4.20
734 758 4.524053 CCAACTTATAAGTCCCAAGTCCC 58.476 47.826 18.28 0.00 38.57 4.46
735 759 4.226620 TCCCAACTTATAAGTCCCAAGTCC 59.773 45.833 18.28 0.00 38.57 3.85
736 760 5.045797 AGTCCCAACTTATAAGTCCCAAGTC 60.046 44.000 18.28 6.78 38.57 3.01
737 761 4.850386 AGTCCCAACTTATAAGTCCCAAGT 59.150 41.667 18.28 5.74 38.57 3.16
738 762 5.437191 AGTCCCAACTTATAAGTCCCAAG 57.563 43.478 18.28 6.66 38.57 3.61
739 763 6.956102 TTAGTCCCAACTTATAAGTCCCAA 57.044 37.500 18.28 3.05 38.57 4.12
740 764 6.956102 TTTAGTCCCAACTTATAAGTCCCA 57.044 37.500 18.28 1.06 38.57 4.37
768 792 5.801380 TGTTTGGTTCATAAGTCCTAGGAC 58.199 41.667 31.29 31.29 44.86 3.85
769 793 5.045869 CCTGTTTGGTTCATAAGTCCTAGGA 60.046 44.000 7.62 7.62 0.00 2.94
770 794 5.186198 CCTGTTTGGTTCATAAGTCCTAGG 58.814 45.833 0.82 0.82 0.00 3.02
771 795 5.186198 CCCTGTTTGGTTCATAAGTCCTAG 58.814 45.833 0.00 0.00 0.00 3.02
772 796 4.566907 GCCCTGTTTGGTTCATAAGTCCTA 60.567 45.833 0.00 0.00 0.00 2.94
773 797 3.814316 GCCCTGTTTGGTTCATAAGTCCT 60.814 47.826 0.00 0.00 0.00 3.85
774 798 2.492088 GCCCTGTTTGGTTCATAAGTCC 59.508 50.000 0.00 0.00 0.00 3.85
775 799 2.492088 GGCCCTGTTTGGTTCATAAGTC 59.508 50.000 0.00 0.00 0.00 3.01
776 800 2.110011 AGGCCCTGTTTGGTTCATAAGT 59.890 45.455 0.00 0.00 0.00 2.24
777 801 2.493278 CAGGCCCTGTTTGGTTCATAAG 59.507 50.000 1.39 0.00 0.00 1.73
778 802 2.109128 TCAGGCCCTGTTTGGTTCATAA 59.891 45.455 11.27 0.00 32.61 1.90
779 803 1.707989 TCAGGCCCTGTTTGGTTCATA 59.292 47.619 11.27 0.00 32.61 2.15
780 804 0.482446 TCAGGCCCTGTTTGGTTCAT 59.518 50.000 11.27 0.00 32.61 2.57
781 805 0.178992 CTCAGGCCCTGTTTGGTTCA 60.179 55.000 11.27 0.00 32.61 3.18
782 806 0.178990 ACTCAGGCCCTGTTTGGTTC 60.179 55.000 11.27 0.00 32.61 3.62
783 807 0.178990 GACTCAGGCCCTGTTTGGTT 60.179 55.000 11.27 0.00 32.61 3.67
784 808 1.352622 TGACTCAGGCCCTGTTTGGT 61.353 55.000 11.27 5.93 32.61 3.67
785 809 0.178992 TTGACTCAGGCCCTGTTTGG 60.179 55.000 11.27 2.72 32.61 3.28
786 810 1.691196 TTTGACTCAGGCCCTGTTTG 58.309 50.000 11.27 5.20 32.61 2.93
787 811 2.158475 TCATTTGACTCAGGCCCTGTTT 60.158 45.455 11.27 0.00 32.61 2.83
788 812 1.425066 TCATTTGACTCAGGCCCTGTT 59.575 47.619 11.27 0.00 32.61 3.16
789 813 1.067295 TCATTTGACTCAGGCCCTGT 58.933 50.000 11.27 0.00 32.61 4.00
790 814 1.271543 TGTCATTTGACTCAGGCCCTG 60.272 52.381 3.69 3.69 44.99 4.45
791 815 1.067295 TGTCATTTGACTCAGGCCCT 58.933 50.000 11.67 0.00 44.99 5.19
792 816 2.134789 ATGTCATTTGACTCAGGCCC 57.865 50.000 11.67 0.00 44.99 5.80
793 817 4.265073 AGTTATGTCATTTGACTCAGGCC 58.735 43.478 11.67 0.00 44.99 5.19
794 818 5.634896 CAAGTTATGTCATTTGACTCAGGC 58.365 41.667 11.67 0.12 44.99 4.85
795 819 5.181811 TGCAAGTTATGTCATTTGACTCAGG 59.818 40.000 11.67 0.00 44.99 3.86
798 822 6.902341 TCTTGCAAGTTATGTCATTTGACTC 58.098 36.000 25.19 1.36 44.99 3.36
836 860 9.121658 GATCTTACATGGAGATACGTGGATATA 57.878 37.037 12.24 0.00 34.13 0.86
838 862 6.377429 GGATCTTACATGGAGATACGTGGATA 59.623 42.308 12.24 0.00 34.13 2.59
840 864 4.523173 GGATCTTACATGGAGATACGTGGA 59.477 45.833 12.24 0.00 34.13 4.02
841 865 4.322049 GGGATCTTACATGGAGATACGTGG 60.322 50.000 14.09 0.00 35.66 4.94
846 872 4.736473 TCGTGGGATCTTACATGGAGATA 58.264 43.478 12.24 0.00 34.13 1.98
856 882 5.650703 TCGATGCTATATTCGTGGGATCTTA 59.349 40.000 0.00 0.00 36.74 2.10
863 889 4.083271 TCTCAGTCGATGCTATATTCGTGG 60.083 45.833 0.00 0.00 36.74 4.94
916 950 2.871633 CACATGTGGGTTTCAAAAAGCC 59.128 45.455 18.51 12.53 38.25 4.35
918 952 5.261209 TCTCACATGTGGGTTTCAAAAAG 57.739 39.130 24.76 11.02 31.64 2.27
1018 1063 1.134068 GTTATCCAAGAGGGGCAGGTC 60.134 57.143 0.00 0.00 37.22 3.85
1048 1096 1.079543 CGAGGTGCTACTGCTGCTT 60.080 57.895 0.00 0.00 40.48 3.91
1166 1637 0.322975 TTCTTGCTGTCCTCTGGCTC 59.677 55.000 0.00 0.00 0.00 4.70
1175 1646 0.868406 CTCACCGGTTTCTTGCTGTC 59.132 55.000 2.97 0.00 0.00 3.51
1214 1695 8.880750 GCGGAATAGTTAATTAAGACAAGAGTT 58.119 33.333 0.00 0.00 0.00 3.01
1234 1736 6.293955 CGTTAGGAATTAATCAATGGCGGAAT 60.294 38.462 0.00 0.00 0.00 3.01
1560 2074 1.738099 GAGTGCCAGTGTACCTGCG 60.738 63.158 5.98 2.31 40.06 5.18
1567 2081 3.252284 CTGGGGGAGTGCCAGTGT 61.252 66.667 1.97 0.00 35.15 3.55
1601 2115 3.072476 CAGGCTGTACTGGTGGCT 58.928 61.111 6.28 1.11 34.84 4.75
1643 2157 2.032681 GGCAGCCTTGTTCTCGGT 59.967 61.111 3.29 0.00 0.00 4.69
1719 2234 6.544928 AAAAGAACTGGAGTTGGACAAAAT 57.455 33.333 0.00 0.00 38.56 1.82
1899 2583 4.832608 GCGTGGTTAGGGAGCCCG 62.833 72.222 0.00 0.00 41.95 6.13
1926 2610 2.764128 TCCAGATGACCCCCTCGC 60.764 66.667 0.00 0.00 0.00 5.03
1965 2649 4.663636 AGTCATTAACAACGTAGCAAGC 57.336 40.909 0.00 0.00 0.00 4.01
2074 3050 4.766404 ACCTGCAAAAGCACATACTTAC 57.234 40.909 0.00 0.00 0.00 2.34
2237 3219 1.272781 GGTCTCGCGTTCATCTCAAG 58.727 55.000 5.77 0.00 0.00 3.02
2288 3270 2.223203 GGTCATCATGAGCGCAGAAAAG 60.223 50.000 11.47 0.00 35.04 2.27
2297 3279 0.647410 CGTTCGTGGTCATCATGAGC 59.353 55.000 10.07 10.07 44.54 4.26
2311 3293 0.227234 CAGCAGCGTAATAGCGTTCG 59.773 55.000 0.00 0.00 43.00 3.95
2413 3399 8.621532 ACAATTGTAAGCTAGTCAAATGAAGA 57.378 30.769 9.97 0.00 0.00 2.87
2458 3444 8.345565 GCCAACACCTGAATATATAGTTTTCAG 58.654 37.037 14.01 14.01 43.75 3.02
2563 3578 6.824958 TTAGGGAACTATAAGAACCATGCT 57.175 37.500 0.00 0.00 43.94 3.79
2578 3593 9.886132 TCTATGACTTTGACTTTATTAGGGAAC 57.114 33.333 0.00 0.00 0.00 3.62
2583 3598 9.355215 ACACGTCTATGACTTTGACTTTATTAG 57.645 33.333 0.00 0.00 0.00 1.73
2601 3616 6.535865 AGATAACAACAACAACAACACGTCTA 59.464 34.615 0.00 0.00 0.00 2.59
2607 3622 9.509855 GTATTGAAGATAACAACAACAACAACA 57.490 29.630 0.00 0.00 0.00 3.33
2608 3623 9.730420 AGTATTGAAGATAACAACAACAACAAC 57.270 29.630 0.00 0.00 0.00 3.32
2643 3661 2.390938 CGTGAGTGACGTGCTTTCTTA 58.609 47.619 0.00 0.00 43.50 2.10
2696 3767 6.211587 TGCAATGATTCCAAGAAACTATGG 57.788 37.500 0.00 0.00 38.09 2.74
2706 3783 7.506599 ACTGGATATGTTATGCAATGATTCCAA 59.493 33.333 0.00 0.00 0.00 3.53
2709 3786 8.332996 AGACTGGATATGTTATGCAATGATTC 57.667 34.615 0.00 0.00 0.00 2.52
2761 3843 9.398170 CGAAACATTGAACTTAAAGATGACAAT 57.602 29.630 0.00 0.00 0.00 2.71
2777 3859 8.527567 AAAAACTGAAAAGAACGAAACATTGA 57.472 26.923 0.00 0.00 0.00 2.57
2821 3903 5.932303 TGTAGCACACTTTCTTGAAGGATAC 59.068 40.000 0.00 0.00 39.79 2.24
2864 5164 9.144298 TCTATATAGTGTGGTAAAGAAGGAAGG 57.856 37.037 9.58 0.00 0.00 3.46
2919 5219 6.091577 CCAACAACAACGAATATAGTAGCACA 59.908 38.462 0.00 0.00 0.00 4.57
2923 5223 6.903883 AGCCAACAACAACGAATATAGTAG 57.096 37.500 0.00 0.00 0.00 2.57
2925 5225 5.106317 CCAAGCCAACAACAACGAATATAGT 60.106 40.000 0.00 0.00 0.00 2.12
2995 5826 6.183361 TGGTCCACATTCATGATAAGATCCAT 60.183 38.462 0.00 0.00 0.00 3.41
2998 5829 6.349115 GCATGGTCCACATTCATGATAAGATC 60.349 42.308 0.00 0.00 40.28 2.75
2999 5830 5.475909 GCATGGTCCACATTCATGATAAGAT 59.524 40.000 0.00 0.00 40.28 2.40
3027 5858 1.389555 AGTCCATCACATGCATGCAG 58.610 50.000 26.69 18.75 0.00 4.41
3042 5873 0.875059 GTGTGCAAACTGCCTAGTCC 59.125 55.000 0.00 0.00 44.23 3.85
3059 5890 1.000521 ATGCACATCCCCTGGTGTG 60.001 57.895 10.63 10.63 46.42 3.82
3060 5891 1.000521 CATGCACATCCCCTGGTGT 60.001 57.895 0.00 0.00 37.35 4.16
3118 5956 2.661594 GGTCCTTTTGTGAATTGCGAC 58.338 47.619 0.00 0.00 0.00 5.19
3122 5960 2.621055 TGGACGGTCCTTTTGTGAATTG 59.379 45.455 26.41 0.00 37.46 2.32
3123 5961 2.938838 TGGACGGTCCTTTTGTGAATT 58.061 42.857 26.41 0.00 37.46 2.17
3124 5962 2.649531 TGGACGGTCCTTTTGTGAAT 57.350 45.000 26.41 0.00 37.46 2.57
3125 5963 2.649531 ATGGACGGTCCTTTTGTGAA 57.350 45.000 26.41 5.41 37.46 3.18
3126 5964 2.901192 TCTATGGACGGTCCTTTTGTGA 59.099 45.455 26.41 13.32 37.46 3.58
3127 5965 3.262420 CTCTATGGACGGTCCTTTTGTG 58.738 50.000 26.41 13.49 37.46 3.33
3128 5966 2.354805 GCTCTATGGACGGTCCTTTTGT 60.355 50.000 26.41 10.77 37.46 2.83
3158 5996 1.043816 ATCCCATCTCGTGTAGCCTG 58.956 55.000 0.00 0.00 0.00 4.85
3165 6003 0.249784 CTCCTGCATCCCATCTCGTG 60.250 60.000 0.00 0.00 0.00 4.35
3276 6158 0.448197 CGCGCTCTCTCTGTCTTGTA 59.552 55.000 5.56 0.00 0.00 2.41
3279 6161 1.166129 TAACGCGCTCTCTCTGTCTT 58.834 50.000 5.73 0.00 0.00 3.01
3312 6194 7.327518 CGAAGGTATGCACAAATATATCACGTA 59.672 37.037 0.00 0.00 0.00 3.57
3432 6321 5.601662 TCTACCTGGATTTTTCTATCTGCG 58.398 41.667 0.00 0.00 0.00 5.18
3501 6390 1.618487 GGACATCGGAGTAGGTAGGG 58.382 60.000 0.00 0.00 0.00 3.53
3552 6441 2.289002 CAGAAGAAGTGGAATATGGCGC 59.711 50.000 0.00 0.00 0.00 6.53
3553 6442 3.535561 ACAGAAGAAGTGGAATATGGCG 58.464 45.455 0.00 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.