Multiple sequence alignment - TraesCS3A01G455800

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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 TraesCS3A01G455800 chr3A 100.000 3626 0 0 1 3626 693208699 693205074 0.000000e+00 6697.0
1 TraesCS3A01G455800 chr3A 88.814 1788 162 16 1817 3594 693336907 693335148 0.000000e+00 2159.0
2 TraesCS3A01G455800 chr3A 94.815 540 25 1 1 537 695801126 695801665 0.000000e+00 839.0
3 TraesCS3A01G455800 chr3A 87.561 611 59 7 835 1434 693338160 693337556 0.000000e+00 691.0
4 TraesCS3A01G455800 chr3D 93.179 1862 106 18 1781 3626 557499047 557497191 0.000000e+00 2715.0
5 TraesCS3A01G455800 chr3D 88.754 1316 113 14 1817 3123 557523964 557522675 0.000000e+00 1578.0
6 TraesCS3A01G455800 chr3D 88.450 1316 117 14 1817 3123 557559449 557558160 0.000000e+00 1555.0
7 TraesCS3A01G455800 chr3D 92.462 1048 65 6 704 1738 557501247 557500201 0.000000e+00 1485.0
8 TraesCS3A01G455800 chr3D 88.595 605 54 5 842 1436 557525100 557524501 0.000000e+00 721.0
9 TraesCS3A01G455800 chr3D 87.074 557 51 9 2567 3123 557589505 557588970 8.610000e-171 610.0
10 TraesCS3A01G455800 chr3D 87.500 496 59 2 3093 3587 557521837 557521344 1.460000e-158 569.0
11 TraesCS3A01G455800 chr3D 85.289 537 61 9 888 1413 554836737 554837266 4.120000e-149 538.0
12 TraesCS3A01G455800 chr3D 82.051 390 50 7 1422 1796 557559921 557559537 7.560000e-82 315.0
13 TraesCS3A01G455800 chr3D 81.795 390 51 12 1422 1796 557524436 557524052 3.520000e-80 309.0
14 TraesCS3A01G455800 chr3B 84.771 2121 231 47 1578 3626 739655560 739653460 0.000000e+00 2043.0
15 TraesCS3A01G455800 chr3B 85.278 1474 169 19 2187 3625 739600205 739598745 0.000000e+00 1476.0
16 TraesCS3A01G455800 chr3B 89.110 1157 106 16 1903 3043 739661433 739660281 0.000000e+00 1421.0
17 TraesCS3A01G455800 chr3B 90.670 761 62 6 711 1470 739662492 739661740 0.000000e+00 1003.0
18 TraesCS3A01G455800 chr3B 88.322 745 64 9 702 1435 739656643 739655911 0.000000e+00 872.0
19 TraesCS3A01G455800 chr3B 87.685 609 60 9 841 1436 739601904 739601298 0.000000e+00 695.0
20 TraesCS3A01G455800 chr3B 89.366 536 43 10 1668 2198 739600765 739600239 0.000000e+00 662.0
21 TraesCS3A01G455800 chr3B 85.047 535 72 6 888 1416 737922339 737921807 4.120000e-149 538.0
22 TraesCS3A01G455800 chr3B 86.331 139 11 3 1422 1554 739655871 739655735 1.050000e-30 145.0
23 TraesCS3A01G455800 chrUn 88.525 1281 112 14 1817 3088 395274026 395272772 0.000000e+00 1519.0
24 TraesCS3A01G455800 chrUn 90.180 947 74 9 1817 2754 252806441 252805505 0.000000e+00 1216.0
25 TraesCS3A01G455800 chrUn 88.065 553 51 5 842 1384 45144596 45144049 3.050000e-180 641.0
26 TraesCS3A01G455800 chrUn 86.715 557 53 9 2567 3123 463386773 463386238 1.860000e-167 599.0
27 TraesCS3A01G455800 chrUn 82.051 390 50 7 1422 1796 252806913 252806529 7.560000e-82 315.0
28 TraesCS3A01G455800 chrUn 81.912 387 50 12 1422 1793 431272588 431272969 3.520000e-80 309.0
29 TraesCS3A01G455800 chrUn 93.382 136 7 1 569 704 13788624 13788757 2.210000e-47 200.0
30 TraesCS3A01G455800 chrUn 93.284 134 7 1 571 704 347152545 347152414 2.860000e-46 196.0
31 TraesCS3A01G455800 chrUn 84.906 106 15 1 1614 1719 38108093 38108197 4.950000e-19 106.0
32 TraesCS3A01G455800 chrUn 100.000 29 0 0 539 567 13788564 13788592 2.000000e-03 54.7
33 TraesCS3A01G455800 chr7A 95.185 540 23 1 1 537 53168491 53169030 0.000000e+00 850.0
34 TraesCS3A01G455800 chr7A 94.526 548 24 4 3 546 472900430 472899885 0.000000e+00 841.0
35 TraesCS3A01G455800 chr7A 93.967 547 29 2 1 543 539924760 539925306 0.000000e+00 824.0
36 TraesCS3A01G455800 chr7A 100.000 29 0 0 539 567 336749867 336749839 2.000000e-03 54.7
37 TraesCS3A01G455800 chr5A 95.185 540 23 1 1 537 430887781 430888320 0.000000e+00 850.0
38 TraesCS3A01G455800 chr5A 94.485 544 27 1 1 541 73262533 73261990 0.000000e+00 835.0
39 TraesCS3A01G455800 chr2A 94.718 549 24 3 1 545 95208207 95208754 0.000000e+00 848.0
40 TraesCS3A01G455800 chr2A 92.647 136 8 1 569 704 177984802 177984935 1.030000e-45 195.0
41 TraesCS3A01G455800 chr2A 92.647 136 8 1 569 704 409171893 409172026 1.030000e-45 195.0
42 TraesCS3A01G455800 chr2A 100.000 29 0 0 539 567 177873558 177873586 2.000000e-03 54.7
43 TraesCS3A01G455800 chr2A 100.000 29 0 0 539 567 177984742 177984770 2.000000e-03 54.7
44 TraesCS3A01G455800 chr6A 94.815 540 25 1 1 537 52731611 52732150 0.000000e+00 839.0
45 TraesCS3A01G455800 chr6A 94.815 540 21 3 1 537 65358100 65358635 0.000000e+00 835.0
46 TraesCS3A01G455800 chr6A 77.863 131 21 5 1771 1893 345507248 345507378 1.400000e-09 75.0
47 TraesCS3A01G455800 chr6D 80.729 384 54 13 3224 3596 8841401 8841027 7.670000e-72 281.0
48 TraesCS3A01G455800 chr4B 93.382 136 8 1 569 704 653973948 653974082 2.210000e-47 200.0
49 TraesCS3A01G455800 chr4B 92.647 136 8 1 569 704 517364263 517364396 1.030000e-45 195.0
50 TraesCS3A01G455800 chr4B 88.235 68 6 2 1603 1670 514506389 514506324 3.000000e-11 80.5
51 TraesCS3A01G455800 chr1B 92.308 143 7 1 564 706 389089280 389089418 2.210000e-47 200.0
52 TraesCS3A01G455800 chr1B 100.000 29 0 0 539 567 389089225 389089253 2.000000e-03 54.7
53 TraesCS3A01G455800 chr2D 93.182 132 9 0 571 702 648655471 648655602 1.030000e-45 195.0
54 TraesCS3A01G455800 chr2D 91.912 136 10 1 569 704 648658541 648658675 4.780000e-44 189.0
55 TraesCS3A01G455800 chr2D 79.503 161 21 9 3205 3360 584899450 584899603 1.780000e-18 104.0
56 TraesCS3A01G455800 chr2D 90.244 41 4 0 1685 1725 14770736 14770696 2.000000e-03 54.7
57 TraesCS3A01G455800 chr2D 100.000 29 0 0 539 567 648655409 648655437 2.000000e-03 54.7
58 TraesCS3A01G455800 chr4A 91.463 82 6 1 615 696 542534661 542534581 1.060000e-20 111.0
59 TraesCS3A01G455800 chr1D 90.141 71 3 4 1601 1670 180852845 180852778 4.990000e-14 89.8
60 TraesCS3A01G455800 chr1D 90.000 70 5 2 1609 1677 474284367 474284299 4.990000e-14 89.8
61 TraesCS3A01G455800 chr6B 80.556 108 11 8 1793 1893 594975219 594975115 1.400000e-09 75.0
62 TraesCS3A01G455800 chr6B 86.207 58 8 0 1667 1724 364849410 364849353 3.020000e-06 63.9
63 TraesCS3A01G455800 chr4D 100.000 29 0 0 539 567 363592028 363592056 2.000000e-03 54.7
64 TraesCS3A01G455800 chr1A 100.000 29 0 0 539 567 125113130 125113102 2.000000e-03 54.7


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 TraesCS3A01G455800 chr3A 693205074 693208699 3625 True 6697.000000 6697 100.0000 1 3626 1 chr3A.!!$R1 3625
1 TraesCS3A01G455800 chr3A 693335148 693338160 3012 True 1425.000000 2159 88.1875 835 3594 2 chr3A.!!$R2 2759
2 TraesCS3A01G455800 chr3A 695801126 695801665 539 False 839.000000 839 94.8150 1 537 1 chr3A.!!$F1 536
3 TraesCS3A01G455800 chr3D 557497191 557501247 4056 True 2100.000000 2715 92.8205 704 3626 2 chr3D.!!$R2 2922
4 TraesCS3A01G455800 chr3D 557558160 557559921 1761 True 935.000000 1555 85.2505 1422 3123 2 chr3D.!!$R4 1701
5 TraesCS3A01G455800 chr3D 557521344 557525100 3756 True 794.250000 1578 86.6610 842 3587 4 chr3D.!!$R3 2745
6 TraesCS3A01G455800 chr3D 557588970 557589505 535 True 610.000000 610 87.0740 2567 3123 1 chr3D.!!$R1 556
7 TraesCS3A01G455800 chr3D 554836737 554837266 529 False 538.000000 538 85.2890 888 1413 1 chr3D.!!$F1 525
8 TraesCS3A01G455800 chr3B 739653460 739662492 9032 True 1096.800000 2043 87.8408 702 3626 5 chr3B.!!$R3 2924
9 TraesCS3A01G455800 chr3B 739598745 739601904 3159 True 944.333333 1476 87.4430 841 3625 3 chr3B.!!$R2 2784
10 TraesCS3A01G455800 chr3B 737921807 737922339 532 True 538.000000 538 85.0470 888 1416 1 chr3B.!!$R1 528
11 TraesCS3A01G455800 chrUn 395272772 395274026 1254 True 1519.000000 1519 88.5250 1817 3088 1 chrUn.!!$R3 1271
12 TraesCS3A01G455800 chrUn 252805505 252806913 1408 True 765.500000 1216 86.1155 1422 2754 2 chrUn.!!$R5 1332
13 TraesCS3A01G455800 chrUn 45144049 45144596 547 True 641.000000 641 88.0650 842 1384 1 chrUn.!!$R1 542
14 TraesCS3A01G455800 chrUn 463386238 463386773 535 True 599.000000 599 86.7150 2567 3123 1 chrUn.!!$R4 556
15 TraesCS3A01G455800 chr7A 53168491 53169030 539 False 850.000000 850 95.1850 1 537 1 chr7A.!!$F1 536
16 TraesCS3A01G455800 chr7A 472899885 472900430 545 True 841.000000 841 94.5260 3 546 1 chr7A.!!$R2 543
17 TraesCS3A01G455800 chr7A 539924760 539925306 546 False 824.000000 824 93.9670 1 543 1 chr7A.!!$F2 542
18 TraesCS3A01G455800 chr5A 430887781 430888320 539 False 850.000000 850 95.1850 1 537 1 chr5A.!!$F1 536
19 TraesCS3A01G455800 chr5A 73261990 73262533 543 True 835.000000 835 94.4850 1 541 1 chr5A.!!$R1 540
20 TraesCS3A01G455800 chr2A 95208207 95208754 547 False 848.000000 848 94.7180 1 545 1 chr2A.!!$F1 544
21 TraesCS3A01G455800 chr6A 52731611 52732150 539 False 839.000000 839 94.8150 1 537 1 chr6A.!!$F1 536
22 TraesCS3A01G455800 chr6A 65358100 65358635 535 False 835.000000 835 94.8150 1 537 1 chr6A.!!$F2 536

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
695 702 0.313672 ATTGCAACGCACGGACATTT 59.686 45.0 0.0 0.0 38.71 2.32 F
2343 9972 0.041535 TGATGCAGGATTTGGCCCTT 59.958 50.0 0.0 0.0 0.00 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2449 10078 0.184451 CCATCAGCCTTGGCTACCAT 59.816 55.0 14.35 4.19 31.53 3.55 R
3297 11804 1.422531 TGGGCCATTGCAAAAGAACT 58.577 45.0 0.00 0.00 40.13 3.01 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
64 65 6.160483 TCCTCCCAAATTACTAAAACCCAT 57.840 37.500 0.00 0.00 0.00 4.00
68 69 9.649316 CCTCCCAAATTACTAAAACCCATAATA 57.351 33.333 0.00 0.00 0.00 0.98
183 184 5.237048 GGCCTGCAAATCTTGACAAATTTA 58.763 37.500 0.00 0.00 0.00 1.40
234 235 5.221742 GGAAGAAGGAAAGAACAGAGGAGAA 60.222 44.000 0.00 0.00 0.00 2.87
248 249 1.725182 AGGAGAAGGAGAGGGGAAAGA 59.275 52.381 0.00 0.00 0.00 2.52
308 309 3.257624 AGGACGACCTTTAGTACCAGTTG 59.742 47.826 0.00 0.00 45.36 3.16
411 412 3.204505 CACGAACCGGTGCTAAAGA 57.795 52.632 8.52 0.00 0.00 2.52
542 549 8.843885 ATTTGACCCTTTTTCTACTACTGTAC 57.156 34.615 0.00 0.00 0.00 2.90
544 551 5.840149 TGACCCTTTTTCTACTACTGTACCA 59.160 40.000 0.00 0.00 0.00 3.25
546 553 7.016858 TGACCCTTTTTCTACTACTGTACCAAT 59.983 37.037 0.00 0.00 0.00 3.16
547 554 8.439964 ACCCTTTTTCTACTACTGTACCAATA 57.560 34.615 0.00 0.00 0.00 1.90
548 555 8.537858 ACCCTTTTTCTACTACTGTACCAATAG 58.462 37.037 0.00 0.00 0.00 1.73
549 556 8.537858 CCCTTTTTCTACTACTGTACCAATAGT 58.462 37.037 6.18 6.18 33.73 2.12
550 557 9.583765 CCTTTTTCTACTACTGTACCAATAGTC 57.416 37.037 4.55 0.00 31.65 2.59
554 561 9.696572 TTTCTACTACTGTACCAATAGTCATCT 57.303 33.333 4.55 0.00 31.65 2.90
559 566 9.696572 ACTACTGTACCAATAGTCATCTAAAGA 57.303 33.333 0.00 0.00 0.00 2.52
562 569 9.823647 ACTGTACCAATAGTCATCTAAAGAATG 57.176 33.333 0.00 0.00 0.00 2.67
578 585 9.973661 TCTAAAGAATGAATTCATTTACTGGGA 57.026 29.630 29.44 20.43 45.72 4.37
582 589 8.827832 AGAATGAATTCATTTACTGGGAATCA 57.172 30.769 29.44 0.00 45.72 2.57
583 590 9.430399 AGAATGAATTCATTTACTGGGAATCAT 57.570 29.630 29.44 7.10 45.72 2.45
586 593 9.645128 ATGAATTCATTTACTGGGAATCATACA 57.355 29.630 15.36 0.00 31.37 2.29
587 594 8.902806 TGAATTCATTTACTGGGAATCATACAC 58.097 33.333 3.38 0.00 31.26 2.90
588 595 8.821686 AATTCATTTACTGGGAATCATACACA 57.178 30.769 0.00 0.00 31.26 3.72
589 596 9.425248 AATTCATTTACTGGGAATCATACACAT 57.575 29.630 0.00 0.00 31.26 3.21
590 597 7.806409 TCATTTACTGGGAATCATACACATG 57.194 36.000 0.00 0.00 0.00 3.21
591 598 6.262944 TCATTTACTGGGAATCATACACATGC 59.737 38.462 0.00 0.00 31.73 4.06
592 599 3.650281 ACTGGGAATCATACACATGCA 57.350 42.857 0.00 0.00 31.73 3.96
593 600 4.174704 ACTGGGAATCATACACATGCAT 57.825 40.909 0.00 0.00 31.73 3.96
594 601 3.887110 ACTGGGAATCATACACATGCATG 59.113 43.478 25.09 25.09 31.73 4.06
595 602 3.887110 CTGGGAATCATACACATGCATGT 59.113 43.478 26.61 26.61 42.84 3.21
596 603 3.884693 TGGGAATCATACACATGCATGTC 59.115 43.478 29.23 14.99 39.39 3.06
597 604 3.254166 GGGAATCATACACATGCATGTCC 59.746 47.826 29.23 22.38 39.39 4.02
598 605 4.139786 GGAATCATACACATGCATGTCCT 58.860 43.478 29.23 18.81 39.39 3.85
599 606 5.308014 GGAATCATACACATGCATGTCCTA 58.692 41.667 29.23 20.27 39.39 2.94
600 607 5.764686 GGAATCATACACATGCATGTCCTAA 59.235 40.000 29.23 14.77 39.39 2.69
601 608 6.432162 GGAATCATACACATGCATGTCCTAAT 59.568 38.462 29.23 16.27 39.39 1.73
602 609 7.361542 GGAATCATACACATGCATGTCCTAATC 60.362 40.741 29.23 19.04 39.39 1.75
603 610 5.927819 TCATACACATGCATGTCCTAATCA 58.072 37.500 29.23 9.68 39.39 2.57
604 611 6.355747 TCATACACATGCATGTCCTAATCAA 58.644 36.000 29.23 9.00 39.39 2.57
605 612 4.970662 ACACATGCATGTCCTAATCAAC 57.029 40.909 29.23 0.00 39.39 3.18
606 613 3.374988 ACACATGCATGTCCTAATCAACG 59.625 43.478 29.23 15.89 39.39 4.10
607 614 3.622612 CACATGCATGTCCTAATCAACGA 59.377 43.478 29.23 0.00 39.39 3.85
608 615 4.274214 CACATGCATGTCCTAATCAACGAT 59.726 41.667 29.23 0.00 39.39 3.73
609 616 4.512944 ACATGCATGTCCTAATCAACGATC 59.487 41.667 26.61 0.00 35.87 3.69
610 617 3.466836 TGCATGTCCTAATCAACGATCC 58.533 45.455 0.00 0.00 0.00 3.36
611 618 3.118445 TGCATGTCCTAATCAACGATCCA 60.118 43.478 0.00 0.00 0.00 3.41
612 619 4.067896 GCATGTCCTAATCAACGATCCAT 58.932 43.478 0.00 0.00 0.00 3.41
613 620 4.153117 GCATGTCCTAATCAACGATCCATC 59.847 45.833 0.00 0.00 0.00 3.51
614 621 4.336889 TGTCCTAATCAACGATCCATCC 57.663 45.455 0.00 0.00 0.00 3.51
615 622 3.709141 TGTCCTAATCAACGATCCATCCA 59.291 43.478 0.00 0.00 0.00 3.41
616 623 4.347876 TGTCCTAATCAACGATCCATCCAT 59.652 41.667 0.00 0.00 0.00 3.41
617 624 5.163205 TGTCCTAATCAACGATCCATCCATT 60.163 40.000 0.00 0.00 0.00 3.16
618 625 5.180117 GTCCTAATCAACGATCCATCCATTG 59.820 44.000 0.00 0.00 0.00 2.82
619 626 5.065914 CCTAATCAACGATCCATCCATTGT 58.934 41.667 0.00 0.00 0.00 2.71
620 627 5.180117 CCTAATCAACGATCCATCCATTGTC 59.820 44.000 0.00 0.00 0.00 3.18
621 628 3.912496 TCAACGATCCATCCATTGTCT 57.088 42.857 0.00 0.00 0.00 3.41
622 629 4.220693 TCAACGATCCATCCATTGTCTT 57.779 40.909 0.00 0.00 0.00 3.01
623 630 5.351948 TCAACGATCCATCCATTGTCTTA 57.648 39.130 0.00 0.00 0.00 2.10
624 631 5.928976 TCAACGATCCATCCATTGTCTTAT 58.071 37.500 0.00 0.00 0.00 1.73
625 632 5.759763 TCAACGATCCATCCATTGTCTTATG 59.240 40.000 0.00 0.00 0.00 1.90
626 633 4.645535 ACGATCCATCCATTGTCTTATGG 58.354 43.478 0.00 0.00 45.34 2.74
627 634 3.438087 CGATCCATCCATTGTCTTATGGC 59.562 47.826 0.00 0.00 43.94 4.40
628 635 3.949586 TCCATCCATTGTCTTATGGCA 57.050 42.857 0.00 0.00 43.94 4.92
629 636 4.458256 TCCATCCATTGTCTTATGGCAT 57.542 40.909 4.88 4.88 43.94 4.40
630 637 5.581350 TCCATCCATTGTCTTATGGCATA 57.419 39.130 2.32 2.32 43.94 3.14
631 638 5.563592 TCCATCCATTGTCTTATGGCATAG 58.436 41.667 7.35 2.83 43.94 2.23
632 639 5.073554 TCCATCCATTGTCTTATGGCATAGT 59.926 40.000 7.35 0.00 43.94 2.12
633 640 5.771666 CCATCCATTGTCTTATGGCATAGTT 59.228 40.000 7.35 0.00 43.94 2.24
634 641 6.294342 CCATCCATTGTCTTATGGCATAGTTG 60.294 42.308 7.35 3.03 43.94 3.16
644 651 2.682893 GCATAGTTGCTCGACCTGG 58.317 57.895 0.00 0.00 45.77 4.45
645 652 1.432270 GCATAGTTGCTCGACCTGGC 61.432 60.000 0.00 0.00 45.77 4.85
646 653 0.811616 CATAGTTGCTCGACCTGGCC 60.812 60.000 0.00 0.00 0.00 5.36
647 654 1.972660 ATAGTTGCTCGACCTGGCCC 61.973 60.000 0.00 0.00 0.00 5.80
648 655 4.329545 GTTGCTCGACCTGGCCCA 62.330 66.667 0.00 0.00 0.00 5.36
649 656 3.329889 TTGCTCGACCTGGCCCAT 61.330 61.111 0.00 0.00 0.00 4.00
650 657 2.905996 TTGCTCGACCTGGCCCATT 61.906 57.895 0.00 0.00 0.00 3.16
651 658 2.514824 GCTCGACCTGGCCCATTC 60.515 66.667 0.00 0.00 0.00 2.67
652 659 2.989639 CTCGACCTGGCCCATTCA 59.010 61.111 0.00 0.00 0.00 2.57
653 660 1.528824 CTCGACCTGGCCCATTCAT 59.471 57.895 0.00 0.00 0.00 2.57
654 661 0.758734 CTCGACCTGGCCCATTCATA 59.241 55.000 0.00 0.00 0.00 2.15
655 662 0.758734 TCGACCTGGCCCATTCATAG 59.241 55.000 0.00 0.00 0.00 2.23
656 663 0.758734 CGACCTGGCCCATTCATAGA 59.241 55.000 0.00 0.00 0.00 1.98
657 664 1.140852 CGACCTGGCCCATTCATAGAA 59.859 52.381 0.00 0.00 0.00 2.10
658 665 2.421388 CGACCTGGCCCATTCATAGAAA 60.421 50.000 0.00 0.00 0.00 2.52
659 666 2.952310 GACCTGGCCCATTCATAGAAAC 59.048 50.000 0.00 0.00 0.00 2.78
660 667 2.310538 CCTGGCCCATTCATAGAAACC 58.689 52.381 0.00 0.00 0.00 3.27
661 668 1.949525 CTGGCCCATTCATAGAAACCG 59.050 52.381 0.00 0.00 0.00 4.44
662 669 1.283613 TGGCCCATTCATAGAAACCGT 59.716 47.619 0.00 0.00 0.00 4.83
663 670 2.291282 TGGCCCATTCATAGAAACCGTT 60.291 45.455 0.00 0.00 0.00 4.44
664 671 2.099098 GGCCCATTCATAGAAACCGTTG 59.901 50.000 0.00 0.00 0.00 4.10
665 672 2.752903 GCCCATTCATAGAAACCGTTGT 59.247 45.455 0.00 0.00 0.00 3.32
666 673 3.192633 GCCCATTCATAGAAACCGTTGTT 59.807 43.478 0.00 0.00 35.82 2.83
668 675 5.778862 CCCATTCATAGAAACCGTTGTTTT 58.221 37.500 0.00 0.00 44.57 2.43
669 676 6.220201 CCCATTCATAGAAACCGTTGTTTTT 58.780 36.000 0.00 0.00 44.57 1.94
689 696 1.203928 TTTTTCATTGCAACGCACGG 58.796 45.000 0.00 0.00 38.71 4.94
690 697 0.382158 TTTTCATTGCAACGCACGGA 59.618 45.000 0.00 0.00 38.71 4.69
691 698 0.317436 TTTCATTGCAACGCACGGAC 60.317 50.000 0.00 0.00 38.71 4.79
692 699 1.440145 TTCATTGCAACGCACGGACA 61.440 50.000 0.00 0.00 38.71 4.02
693 700 1.209898 CATTGCAACGCACGGACAT 59.790 52.632 0.00 0.00 38.71 3.06
694 701 0.387112 CATTGCAACGCACGGACATT 60.387 50.000 0.00 0.00 38.71 2.71
695 702 0.313672 ATTGCAACGCACGGACATTT 59.686 45.000 0.00 0.00 38.71 2.32
696 703 0.593518 TTGCAACGCACGGACATTTG 60.594 50.000 0.00 0.00 38.71 2.32
697 704 1.008995 GCAACGCACGGACATTTGT 60.009 52.632 0.00 0.00 0.00 2.83
698 705 1.268113 GCAACGCACGGACATTTGTG 61.268 55.000 0.00 0.00 39.10 3.33
705 712 3.896648 CACGGACATTTGTGCTAGTTT 57.103 42.857 0.73 0.00 33.97 2.66
706 713 4.223320 CACGGACATTTGTGCTAGTTTT 57.777 40.909 0.73 0.00 33.97 2.43
707 714 3.974401 CACGGACATTTGTGCTAGTTTTG 59.026 43.478 0.73 0.00 33.97 2.44
708 715 3.880490 ACGGACATTTGTGCTAGTTTTGA 59.120 39.130 0.73 0.00 33.97 2.69
709 716 4.024048 ACGGACATTTGTGCTAGTTTTGAG 60.024 41.667 0.73 0.00 33.97 3.02
730 737 4.655963 AGTAATGTTCACATCTGCCTTGT 58.344 39.130 0.00 0.00 35.10 3.16
858 867 1.281656 GGGCACGAACGTCCAAAAG 59.718 57.895 14.01 0.00 0.00 2.27
939 954 5.572896 GCCCAATTTGCACTATAAATATCGC 59.427 40.000 0.00 0.00 0.00 4.58
1023 1039 1.072159 GAGCACCCAGAGCAACAGT 59.928 57.895 0.00 0.00 0.00 3.55
1031 1056 1.607509 CCAGAGCAACAGTGTGAGGAG 60.608 57.143 0.00 0.00 0.00 3.69
1083 1108 0.825840 GGGCTTGGTGCTGGTACAAA 60.826 55.000 0.00 0.00 38.70 2.83
1143 1168 4.554363 ATCGACCTCGCCGCTTCG 62.554 66.667 0.00 0.00 39.60 3.79
1315 1340 2.203938 AGAGGTTCCCCGGCAAGA 60.204 61.111 0.00 0.00 35.12 3.02
1401 7288 3.198068 CGAGGAGGTATGTCAATTGTGG 58.802 50.000 5.13 0.00 0.00 4.17
1449 7533 2.955660 TGAGTGTTGACCAAAACATCCC 59.044 45.455 5.92 0.00 41.81 3.85
1568 7660 6.321717 ACAAGTTTCTGTTGTAACATGTGTG 58.678 36.000 0.00 0.00 35.31 3.82
1569 7661 4.920376 AGTTTCTGTTGTAACATGTGTGC 58.080 39.130 0.00 0.00 38.41 4.57
1620 7938 6.335777 ACACTACAAACATATTACCTCCGTC 58.664 40.000 0.00 0.00 0.00 4.79
1779 8134 8.216423 TCAAGTATCTAATAGTACCTCCGTCTT 58.784 37.037 0.00 0.00 0.00 3.01
1890 9416 8.425577 AATTCAGAACGGAATGAGTACTAATG 57.574 34.615 0.00 0.00 37.55 1.90
1899 9450 9.314321 ACGGAATGAGTACTAATGAAAGTTATG 57.686 33.333 0.00 0.00 0.00 1.90
2095 9652 3.214697 TGCTGCCAATCAATAACAACG 57.785 42.857 0.00 0.00 0.00 4.10
2106 9663 0.981183 ATAACAACGAGGGTGCAGGA 59.019 50.000 0.00 0.00 0.00 3.86
2236 9861 9.545105 GAACTAATCTCATCAACATGATTCTCT 57.455 33.333 0.00 0.00 38.42 3.10
2237 9862 8.890124 ACTAATCTCATCAACATGATTCTCTG 57.110 34.615 0.00 0.00 38.42 3.35
2290 9915 3.478857 TGAACTCTTCGCCTTACCAAA 57.521 42.857 0.00 0.00 0.00 3.28
2343 9972 0.041535 TGATGCAGGATTTGGCCCTT 59.958 50.000 0.00 0.00 0.00 3.95
2401 10030 5.218959 TGAAGGATCCAGTGATGAAGGATA 58.781 41.667 15.82 0.00 42.03 2.59
2443 10072 1.171308 CTACGGGTCGGTGAAGAAGA 58.829 55.000 0.00 0.00 0.00 2.87
2449 10078 3.317149 CGGGTCGGTGAAGAAGATATACA 59.683 47.826 0.00 0.00 0.00 2.29
2661 10290 8.757982 ATATATCCCTGGAAATCAATGTATGC 57.242 34.615 0.00 0.00 0.00 3.14
2846 10476 9.066892 TCTAGACAAATGCAAGACAAGTAATTT 57.933 29.630 0.00 0.00 0.00 1.82
2853 10483 5.053811 TGCAAGACAAGTAATTTGAGACGA 58.946 37.500 0.00 0.00 39.21 4.20
2923 10553 7.501225 TGTCAAATATGCTTCTGATCATGATGT 59.499 33.333 14.30 0.00 0.00 3.06
2946 10576 7.458397 TGTGATTACTTACTGGAAACCATTCT 58.542 34.615 0.00 0.00 35.79 2.40
2994 10624 5.693104 CAGGTGTTGATGTTCCAAAAAGATG 59.307 40.000 0.00 0.00 0.00 2.90
3016 10646 4.018870 TGGGACACTGATATTGGCTAAACA 60.019 41.667 0.00 0.00 0.00 2.83
3049 10679 0.322546 GGGGCCAGACAGAACGAAAT 60.323 55.000 4.39 0.00 0.00 2.17
3059 10689 5.007234 CAGACAGAACGAAATGTTTGGTACA 59.993 40.000 0.00 0.00 42.09 2.90
3080 10710 9.391006 GGTACAATCATTACTCCTTGACAATTA 57.609 33.333 0.00 0.00 0.00 1.40
3097 10727 6.259167 TGACAATTAATTTCGTTCGATAGGGG 59.741 38.462 0.00 0.00 0.00 4.79
3191 11695 5.524971 AAGGCCCAGTAGTTAAACAAAAC 57.475 39.130 0.00 0.00 0.00 2.43
3290 11797 6.371595 AATAAACCAGAAAATTGCCATGGA 57.628 33.333 18.40 0.00 34.99 3.41
3329 11837 4.039004 GCAATGGCCCAAAAGGAAAAATTT 59.961 37.500 0.00 0.00 38.24 1.82
3485 11998 9.309796 GCGTACAAAAATGTTGTTAAGTAGTAG 57.690 33.333 0.00 0.00 34.11 2.57
3504 12041 3.282831 AGTTGCCGTGTTTTGATAAGC 57.717 42.857 0.00 0.00 0.00 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 6.382925 TGGGTTTTAGTAATTTGGGAGGAAA 58.617 36.000 0.00 0.00 0.00 3.13
183 184 4.984161 CGAGTTCATCACAAAATTTGCCTT 59.016 37.500 5.52 0.00 0.00 4.35
234 235 0.800239 TTCCCTCTTTCCCCTCTCCT 59.200 55.000 0.00 0.00 0.00 3.69
248 249 0.689623 CCAGCACTCTGTTCTTCCCT 59.310 55.000 0.00 0.00 38.66 4.20
308 309 0.035176 TAGTACCGGTTTGTGCCACC 59.965 55.000 15.04 0.00 0.00 4.61
316 317 2.551504 CCAGCACCTTTAGTACCGGTTT 60.552 50.000 15.04 4.12 0.00 3.27
411 412 0.971386 AGTACCGGTTCGTGGTGAAT 59.029 50.000 15.04 0.00 40.73 2.57
516 523 9.933723 GTACAGTAGTAGAAAAAGGGTCAAATA 57.066 33.333 0.00 0.00 0.00 1.40
552 559 9.973661 TCCCAGTAAATGAATTCATTCTTTAGA 57.026 29.630 29.08 19.46 45.06 2.10
556 563 9.258629 TGATTCCCAGTAAATGAATTCATTCTT 57.741 29.630 29.08 19.08 45.06 2.52
557 564 8.827832 TGATTCCCAGTAAATGAATTCATTCT 57.172 30.769 29.08 21.02 45.06 2.40
560 567 9.645128 TGTATGATTCCCAGTAAATGAATTCAT 57.355 29.630 15.36 15.36 38.41 2.57
561 568 8.902806 GTGTATGATTCCCAGTAAATGAATTCA 58.097 33.333 11.26 11.26 0.00 2.57
562 569 8.902806 TGTGTATGATTCCCAGTAAATGAATTC 58.097 33.333 0.00 0.00 0.00 2.17
563 570 8.821686 TGTGTATGATTCCCAGTAAATGAATT 57.178 30.769 0.00 0.00 0.00 2.17
564 571 8.853126 CATGTGTATGATTCCCAGTAAATGAAT 58.147 33.333 0.00 0.00 36.36 2.57
565 572 7.201812 GCATGTGTATGATTCCCAGTAAATGAA 60.202 37.037 0.00 0.00 36.36 2.57
566 573 6.262944 GCATGTGTATGATTCCCAGTAAATGA 59.737 38.462 0.00 0.00 36.36 2.57
567 574 6.039605 TGCATGTGTATGATTCCCAGTAAATG 59.960 38.462 0.00 0.00 36.36 2.32
568 575 6.128486 TGCATGTGTATGATTCCCAGTAAAT 58.872 36.000 0.00 0.00 36.36 1.40
569 576 5.504853 TGCATGTGTATGATTCCCAGTAAA 58.495 37.500 0.00 0.00 36.36 2.01
570 577 5.109500 TGCATGTGTATGATTCCCAGTAA 57.891 39.130 0.00 0.00 36.36 2.24
571 578 4.769345 TGCATGTGTATGATTCCCAGTA 57.231 40.909 0.00 0.00 36.36 2.74
572 579 3.650281 TGCATGTGTATGATTCCCAGT 57.350 42.857 0.00 0.00 36.36 4.00
573 580 3.887110 ACATGCATGTGTATGATTCCCAG 59.113 43.478 30.92 0.00 39.98 4.45
574 581 3.884693 GACATGCATGTGTATGATTCCCA 59.115 43.478 35.92 0.00 41.95 4.37
575 582 3.254166 GGACATGCATGTGTATGATTCCC 59.746 47.826 35.92 22.30 41.95 3.97
576 583 4.139786 AGGACATGCATGTGTATGATTCC 58.860 43.478 35.92 25.59 41.95 3.01
577 584 6.866010 TTAGGACATGCATGTGTATGATTC 57.134 37.500 35.92 18.31 41.95 2.52
578 585 6.999871 TGATTAGGACATGCATGTGTATGATT 59.000 34.615 35.92 14.40 41.95 2.57
579 586 6.536447 TGATTAGGACATGCATGTGTATGAT 58.464 36.000 35.92 21.22 41.95 2.45
580 587 5.927819 TGATTAGGACATGCATGTGTATGA 58.072 37.500 35.92 17.75 41.95 2.15
581 588 6.432936 GTTGATTAGGACATGCATGTGTATG 58.567 40.000 35.92 9.33 41.95 2.39
582 589 5.237127 CGTTGATTAGGACATGCATGTGTAT 59.763 40.000 35.92 22.07 41.95 2.29
583 590 4.570369 CGTTGATTAGGACATGCATGTGTA 59.430 41.667 35.92 22.80 41.95 2.90
584 591 3.374988 CGTTGATTAGGACATGCATGTGT 59.625 43.478 35.92 23.82 41.95 3.72
585 592 3.622612 TCGTTGATTAGGACATGCATGTG 59.377 43.478 35.92 17.27 41.95 3.21
586 593 3.872696 TCGTTGATTAGGACATGCATGT 58.127 40.909 31.82 31.82 45.16 3.21
587 594 4.083643 GGATCGTTGATTAGGACATGCATG 60.084 45.833 25.09 25.09 0.00 4.06
588 595 4.067896 GGATCGTTGATTAGGACATGCAT 58.932 43.478 0.00 0.00 0.00 3.96
589 596 3.118445 TGGATCGTTGATTAGGACATGCA 60.118 43.478 0.00 0.00 0.00 3.96
590 597 3.466836 TGGATCGTTGATTAGGACATGC 58.533 45.455 0.00 0.00 0.00 4.06
591 598 4.692625 GGATGGATCGTTGATTAGGACATG 59.307 45.833 0.00 0.00 0.00 3.21
592 599 4.347876 TGGATGGATCGTTGATTAGGACAT 59.652 41.667 0.00 0.00 0.00 3.06
593 600 3.709141 TGGATGGATCGTTGATTAGGACA 59.291 43.478 0.00 0.00 0.00 4.02
594 601 4.336889 TGGATGGATCGTTGATTAGGAC 57.663 45.455 0.00 0.00 0.00 3.85
595 602 5.163205 ACAATGGATGGATCGTTGATTAGGA 60.163 40.000 9.21 0.00 31.63 2.94
596 603 5.065914 ACAATGGATGGATCGTTGATTAGG 58.934 41.667 9.21 0.00 31.63 2.69
597 604 5.994054 AGACAATGGATGGATCGTTGATTAG 59.006 40.000 9.21 0.00 31.63 1.73
598 605 5.928976 AGACAATGGATGGATCGTTGATTA 58.071 37.500 9.21 0.00 31.63 1.75
599 606 4.785301 AGACAATGGATGGATCGTTGATT 58.215 39.130 9.21 0.00 31.63 2.57
600 607 4.428294 AGACAATGGATGGATCGTTGAT 57.572 40.909 9.21 0.00 31.63 2.57
601 608 3.912496 AGACAATGGATGGATCGTTGA 57.088 42.857 9.21 0.00 31.63 3.18
602 609 5.993891 CATAAGACAATGGATGGATCGTTG 58.006 41.667 0.00 0.00 32.68 4.10
627 634 0.811616 GGCCAGGTCGAGCAACTATG 60.812 60.000 18.15 5.60 0.00 2.23
628 635 1.522569 GGCCAGGTCGAGCAACTAT 59.477 57.895 18.15 0.00 0.00 2.12
629 636 2.656069 GGGCCAGGTCGAGCAACTA 61.656 63.158 18.15 0.00 0.00 2.24
630 637 4.021925 GGGCCAGGTCGAGCAACT 62.022 66.667 18.15 0.00 0.00 3.16
631 638 3.628646 ATGGGCCAGGTCGAGCAAC 62.629 63.158 18.15 5.20 0.00 4.17
632 639 2.819984 GAATGGGCCAGGTCGAGCAA 62.820 60.000 18.15 0.00 0.00 3.91
633 640 3.329542 GAATGGGCCAGGTCGAGCA 62.330 63.158 18.15 0.00 0.00 4.26
634 641 2.514824 GAATGGGCCAGGTCGAGC 60.515 66.667 13.78 6.48 0.00 5.03
635 642 0.758734 TATGAATGGGCCAGGTCGAG 59.241 55.000 13.78 0.00 0.00 4.04
636 643 0.758734 CTATGAATGGGCCAGGTCGA 59.241 55.000 13.78 3.53 0.00 4.20
637 644 0.758734 TCTATGAATGGGCCAGGTCG 59.241 55.000 13.78 0.00 0.00 4.79
638 645 2.952310 GTTTCTATGAATGGGCCAGGTC 59.048 50.000 13.78 12.75 0.00 3.85
639 646 2.358195 GGTTTCTATGAATGGGCCAGGT 60.358 50.000 13.78 1.32 0.00 4.00
640 647 2.310538 GGTTTCTATGAATGGGCCAGG 58.689 52.381 13.78 0.00 0.00 4.45
641 648 1.949525 CGGTTTCTATGAATGGGCCAG 59.050 52.381 13.78 0.00 0.00 4.85
642 649 1.283613 ACGGTTTCTATGAATGGGCCA 59.716 47.619 9.61 9.61 0.00 5.36
643 650 2.052782 ACGGTTTCTATGAATGGGCC 57.947 50.000 0.00 0.00 0.00 5.80
644 651 2.752903 ACAACGGTTTCTATGAATGGGC 59.247 45.455 0.00 0.00 0.00 5.36
645 652 5.385509 AAACAACGGTTTCTATGAATGGG 57.614 39.130 0.00 0.00 43.60 4.00
670 677 1.202302 TCCGTGCGTTGCAATGAAAAA 60.202 42.857 22.81 1.46 41.47 1.94
671 678 0.382158 TCCGTGCGTTGCAATGAAAA 59.618 45.000 22.81 4.01 41.47 2.29
672 679 0.317436 GTCCGTGCGTTGCAATGAAA 60.317 50.000 22.81 6.61 41.47 2.69
673 680 1.281353 GTCCGTGCGTTGCAATGAA 59.719 52.632 22.81 9.39 41.47 2.57
674 681 1.233950 ATGTCCGTGCGTTGCAATGA 61.234 50.000 22.81 4.86 41.47 2.57
675 682 0.387112 AATGTCCGTGCGTTGCAATG 60.387 50.000 14.54 14.54 41.47 2.82
676 683 0.313672 AAATGTCCGTGCGTTGCAAT 59.686 45.000 0.59 0.00 41.47 3.56
677 684 0.593518 CAAATGTCCGTGCGTTGCAA 60.594 50.000 0.00 0.00 41.47 4.08
678 685 1.009108 CAAATGTCCGTGCGTTGCA 60.009 52.632 0.00 0.00 35.60 4.08
679 686 1.008995 ACAAATGTCCGTGCGTTGC 60.009 52.632 0.00 0.00 0.00 4.17
680 687 2.782171 CACAAATGTCCGTGCGTTG 58.218 52.632 0.00 0.00 0.00 4.10
685 692 3.896648 AAACTAGCACAAATGTCCGTG 57.103 42.857 0.00 0.00 36.18 4.94
686 693 3.880490 TCAAAACTAGCACAAATGTCCGT 59.120 39.130 0.00 0.00 0.00 4.69
687 694 4.024048 ACTCAAAACTAGCACAAATGTCCG 60.024 41.667 0.00 0.00 0.00 4.79
688 695 5.438761 ACTCAAAACTAGCACAAATGTCC 57.561 39.130 0.00 0.00 0.00 4.02
689 696 8.076178 ACATTACTCAAAACTAGCACAAATGTC 58.924 33.333 0.00 0.00 30.30 3.06
690 697 7.940850 ACATTACTCAAAACTAGCACAAATGT 58.059 30.769 0.00 0.00 0.00 2.71
691 698 8.801715 AACATTACTCAAAACTAGCACAAATG 57.198 30.769 0.00 0.00 0.00 2.32
692 699 8.629158 TGAACATTACTCAAAACTAGCACAAAT 58.371 29.630 0.00 0.00 0.00 2.32
693 700 7.913297 GTGAACATTACTCAAAACTAGCACAAA 59.087 33.333 0.00 0.00 0.00 2.83
694 701 7.066404 TGTGAACATTACTCAAAACTAGCACAA 59.934 33.333 0.00 0.00 0.00 3.33
695 702 6.540551 TGTGAACATTACTCAAAACTAGCACA 59.459 34.615 0.00 0.00 0.00 4.57
696 703 6.954944 TGTGAACATTACTCAAAACTAGCAC 58.045 36.000 0.00 0.00 0.00 4.40
697 704 7.661437 AGATGTGAACATTACTCAAAACTAGCA 59.339 33.333 0.00 0.00 36.57 3.49
698 705 7.959651 CAGATGTGAACATTACTCAAAACTAGC 59.040 37.037 0.00 0.00 36.57 3.42
699 706 7.959651 GCAGATGTGAACATTACTCAAAACTAG 59.040 37.037 0.00 0.00 36.57 2.57
700 707 7.094805 GGCAGATGTGAACATTACTCAAAACTA 60.095 37.037 0.00 0.00 36.57 2.24
701 708 6.294176 GGCAGATGTGAACATTACTCAAAACT 60.294 38.462 0.00 0.00 36.57 2.66
702 709 5.858581 GGCAGATGTGAACATTACTCAAAAC 59.141 40.000 0.00 0.00 36.57 2.43
703 710 5.769662 AGGCAGATGTGAACATTACTCAAAA 59.230 36.000 0.00 0.00 36.57 2.44
704 711 5.316167 AGGCAGATGTGAACATTACTCAAA 58.684 37.500 0.00 0.00 36.57 2.69
705 712 4.910195 AGGCAGATGTGAACATTACTCAA 58.090 39.130 0.00 0.00 36.57 3.02
706 713 4.558226 AGGCAGATGTGAACATTACTCA 57.442 40.909 0.00 0.00 36.57 3.41
707 714 4.697352 ACAAGGCAGATGTGAACATTACTC 59.303 41.667 0.00 0.00 36.57 2.59
708 715 4.655963 ACAAGGCAGATGTGAACATTACT 58.344 39.130 0.00 0.00 36.57 2.24
730 737 1.412710 GAGACTTGACTGGTGGTGACA 59.587 52.381 0.00 0.00 38.70 3.58
787 795 4.452455 GGGATCGAGTACTAAATTGCATGG 59.548 45.833 0.00 0.00 0.00 3.66
788 796 4.150627 CGGGATCGAGTACTAAATTGCATG 59.849 45.833 0.00 0.00 39.00 4.06
858 867 3.180387 GCAAGAAAAATGTGACGACTTGC 59.820 43.478 0.00 0.00 46.74 4.01
1023 1039 1.918262 AGGATGAAATGGCTCCTCACA 59.082 47.619 0.00 0.00 34.20 3.58
1031 1056 0.174162 GTGCACCAGGATGAAATGGC 59.826 55.000 5.22 0.00 40.45 4.40
1068 1093 1.064314 ACCACTTTGTACCAGCACCAA 60.064 47.619 0.00 0.00 0.00 3.67
1126 1151 4.554363 CGAAGCGGCGAGGTCGAT 62.554 66.667 12.98 0.00 43.02 3.59
1359 1384 2.690778 GGTGACGCCCATGTGCTTC 61.691 63.158 0.00 0.00 0.00 3.86
1401 7288 9.750125 ACAGAGAATAACAAAAAGAAAACCATC 57.250 29.630 0.00 0.00 0.00 3.51
1449 7533 7.093552 CCAACATAGGGAACTGATATAGAGAGG 60.094 44.444 0.00 0.00 43.88 3.69
1944 9498 6.318900 GGAGACCAACCTTTATATTCCAACAG 59.681 42.308 0.00 0.00 0.00 3.16
2106 9663 2.041701 GGGCCCATTATGATTGCAACT 58.958 47.619 19.95 0.00 0.00 3.16
2290 9915 4.922206 TGAATCACTGGGTCTGCTAAAAT 58.078 39.130 0.00 0.00 0.00 1.82
2343 9972 1.202627 GGCCTCACCAACATTTTTGCA 60.203 47.619 0.00 0.00 38.86 4.08
2401 10030 1.376424 CATCGGTGAGCAGGCTTGT 60.376 57.895 0.00 0.00 0.00 3.16
2443 10072 3.909995 TCAGCCTTGGCTACCATGTATAT 59.090 43.478 14.35 0.00 31.53 0.86
2449 10078 0.184451 CCATCAGCCTTGGCTACCAT 59.816 55.000 14.35 4.19 31.53 3.55
2661 10290 8.964420 ATTTTTAGATGAAAATGGTGTACACG 57.036 30.769 19.41 0.00 37.71 4.49
2946 10576 7.001674 TGGCTTCCACAGAGTTTTTCTTATTA 58.998 34.615 0.00 0.00 32.41 0.98
2952 10582 2.294512 CCTGGCTTCCACAGAGTTTTTC 59.705 50.000 0.00 0.00 38.20 2.29
2954 10584 1.215423 ACCTGGCTTCCACAGAGTTTT 59.785 47.619 0.00 0.00 38.20 2.43
2960 10590 0.179020 TCAACACCTGGCTTCCACAG 60.179 55.000 0.00 0.00 35.74 3.66
2994 10624 4.523083 TGTTTAGCCAATATCAGTGTCCC 58.477 43.478 0.00 0.00 0.00 4.46
3016 10646 2.366972 CCCCTCCCCAGACCGAAT 60.367 66.667 0.00 0.00 0.00 3.34
3040 10670 6.627395 TGATTGTACCAAACATTTCGTTCT 57.373 33.333 0.00 0.00 38.10 3.01
3049 10679 7.174253 GTCAAGGAGTAATGATTGTACCAAACA 59.826 37.037 0.00 0.00 35.88 2.83
3080 10710 3.538591 GGTTCCCCTATCGAACGAAATT 58.461 45.455 0.12 0.00 40.46 1.82
3097 10727 0.951040 CGTTCAGGCTGTGAGGGTTC 60.951 60.000 15.27 0.00 36.21 3.62
3171 11674 3.565063 TCGTTTTGTTTAACTACTGGGCC 59.435 43.478 0.00 0.00 0.00 5.80
3222 11727 4.110036 AGCACAACAAAAACTGGACTTC 57.890 40.909 0.00 0.00 0.00 3.01
3297 11804 1.422531 TGGGCCATTGCAAAAGAACT 58.577 45.000 0.00 0.00 40.13 3.01
3298 11805 2.252976 TTGGGCCATTGCAAAAGAAC 57.747 45.000 7.26 0.00 40.13 3.01
3301 11809 1.881324 CCTTTTGGGCCATTGCAAAAG 59.119 47.619 25.96 25.96 38.89 2.27
3312 11820 3.243367 GCCACAAATTTTTCCTTTTGGGC 60.243 43.478 10.13 10.13 39.58 5.36
3329 11837 3.760738 TGTACAGATGGAAATTGCCACA 58.239 40.909 7.53 0.00 41.56 4.17
3458 11968 7.922837 ACTACTTAACAACATTTTTGTACGCT 58.077 30.769 0.00 0.00 31.50 5.07
3485 11998 3.006659 TGCTTATCAAAACACGGCAAC 57.993 42.857 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.