Multiple sequence alignment - TraesCS2B01G170900

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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 TraesCS2B01G170900 chr2B 100.000 3385 0 0 1 3385 144033321 144036705 0.000000e+00 6252.0
1 TraesCS2B01G170900 chr2B 92.221 977 62 10 1528 2495 143969220 143970191 0.000000e+00 1371.0
2 TraesCS2B01G170900 chr2B 91.842 760 52 5 579 1330 143968465 143969222 0.000000e+00 1051.0
3 TraesCS2B01G170900 chr2B 87.109 799 86 12 1372 2160 144078195 144077404 0.000000e+00 889.0
4 TraesCS2B01G170900 chr2B 83.989 356 48 7 938 1288 144078575 144078224 1.950000e-87 333.0
5 TraesCS2B01G170900 chr2B 88.983 118 11 2 578 693 58690380 58690263 9.790000e-31 145.0
6 TraesCS2B01G170900 chr2D 95.261 1435 50 8 1068 2495 92831856 92833279 0.000000e+00 2257.0
7 TraesCS2B01G170900 chr2D 88.820 644 59 9 1756 2393 92889413 92890049 0.000000e+00 778.0
8 TraesCS2B01G170900 chr2D 91.952 497 36 2 1907 2402 92863337 92863830 0.000000e+00 693.0
9 TraesCS2B01G170900 chr2D 86.634 606 65 11 1380 1975 92891865 92892464 0.000000e+00 656.0
10 TraesCS2B01G170900 chr2D 91.536 319 17 6 702 1010 92831529 92831847 6.710000e-117 431.0
11 TraesCS2B01G170900 chr2D 83.708 356 49 7 938 1288 92891476 92891827 9.060000e-86 327.0
12 TraesCS2B01G170900 chr2D 82.507 343 42 11 960 1288 92882088 92882426 5.530000e-73 285.0
13 TraesCS2B01G170900 chr2D 82.014 278 31 12 1014 1280 92736590 92736859 5.690000e-53 219.0
14 TraesCS2B01G170900 chr2D 77.778 252 44 4 1398 1649 92736939 92737178 9.790000e-31 145.0
15 TraesCS2B01G170900 chr2D 78.392 199 35 7 2593 2787 589521915 589522109 4.590000e-24 122.0
16 TraesCS2B01G170900 chr3D 80.745 1449 186 41 967 2393 23743991 23745368 0.000000e+00 1044.0
17 TraesCS2B01G170900 chr3D 85.623 786 77 25 1404 2159 355795773 355794994 0.000000e+00 793.0
18 TraesCS2B01G170900 chr3D 78.841 794 104 40 955 1728 23746294 23747043 8.500000e-131 477.0
19 TraesCS2B01G170900 chr3D 87.383 214 24 2 2176 2389 355794886 355794676 3.370000e-60 243.0
20 TraesCS2B01G170900 chr3B 80.949 1328 178 37 1077 2393 41857068 41858331 0.000000e+00 981.0
21 TraesCS2B01G170900 chr3B 84.802 783 78 27 1407 2159 456981475 456980704 0.000000e+00 749.0
22 TraesCS2B01G170900 chr4A 96.741 583 16 1 1 580 693894219 693893637 0.000000e+00 968.0
23 TraesCS2B01G170900 chr4A 91.362 602 46 5 2781 3379 14682665 14683263 0.000000e+00 819.0
24 TraesCS2B01G170900 chr4A 93.548 155 10 0 3225 3379 658182843 658182997 7.300000e-57 231.0
25 TraesCS2B01G170900 chr6D 95.690 580 22 2 1 580 294416548 294417124 0.000000e+00 929.0
26 TraesCS2B01G170900 chr6B 95.517 580 26 0 1 580 643246941 643246362 0.000000e+00 928.0
27 TraesCS2B01G170900 chr3A 79.227 1449 207 43 967 2393 32999703 33001079 0.000000e+00 922.0
28 TraesCS2B01G170900 chr3A 84.987 786 84 22 1404 2159 474811711 474810930 0.000000e+00 767.0
29 TraesCS2B01G170900 chr3A 92.706 425 31 0 1 425 217965636 217965212 6.210000e-172 614.0
30 TraesCS2B01G170900 chr5D 91.833 600 47 2 2784 3382 398369843 398370441 0.000000e+00 835.0
31 TraesCS2B01G170900 chr5D 100.000 30 0 0 2731 2760 282172218 282172247 4.720000e-04 56.5
32 TraesCS2B01G170900 chr5B 90.803 598 49 2 2788 3379 430093461 430092864 0.000000e+00 795.0
33 TraesCS2B01G170900 chr5B 91.715 519 42 1 2785 3302 689912414 689911896 0.000000e+00 719.0
34 TraesCS2B01G170900 chr5B 89.720 107 10 1 579 684 635765082 635764976 5.890000e-28 135.0
35 TraesCS2B01G170900 chr5A 90.756 595 54 1 2786 3379 24419841 24420435 0.000000e+00 793.0
36 TraesCS2B01G170900 chrUn 91.207 580 51 0 1 580 18199630 18200209 0.000000e+00 789.0
37 TraesCS2B01G170900 chrUn 89.333 600 58 5 2787 3385 16695165 16694571 0.000000e+00 749.0
38 TraesCS2B01G170900 chrUn 91.392 546 41 2 2788 3327 249626372 249626917 0.000000e+00 743.0
39 TraesCS2B01G170900 chrUn 91.392 546 41 2 2788 3327 405747203 405747748 0.000000e+00 743.0
40 TraesCS2B01G170900 chr4D 93.701 508 31 1 2796 3302 496334369 496333862 0.000000e+00 760.0
41 TraesCS2B01G170900 chr1A 92.471 425 32 0 1 425 363011968 363012392 2.890000e-170 608.0
42 TraesCS2B01G170900 chr4B 94.382 178 10 0 248 425 289065578 289065401 1.200000e-69 274.0
43 TraesCS2B01G170900 chr4B 84.127 63 3 5 2700 2758 611675715 611675774 2.000000e-03 54.7
44 TraesCS2B01G170900 chr6A 89.189 111 9 2 579 686 549624923 549625033 5.890000e-28 135.0
45 TraesCS2B01G170900 chr1B 90.196 102 8 2 3280 3379 525780009 525780110 7.620000e-27 132.0


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 TraesCS2B01G170900 chr2B 144033321 144036705 3384 False 6252.0 6252 100.000000 1 3385 1 chr2B.!!$F1 3384
1 TraesCS2B01G170900 chr2B 143968465 143970191 1726 False 1211.0 1371 92.031500 579 2495 2 chr2B.!!$F2 1916
2 TraesCS2B01G170900 chr2B 144077404 144078575 1171 True 611.0 889 85.549000 938 2160 2 chr2B.!!$R2 1222
3 TraesCS2B01G170900 chr2D 92831529 92833279 1750 False 1344.0 2257 93.398500 702 2495 2 chr2D.!!$F5 1793
4 TraesCS2B01G170900 chr2D 92889413 92892464 3051 False 587.0 778 86.387333 938 2393 3 chr2D.!!$F6 1455
5 TraesCS2B01G170900 chr3D 23743991 23747043 3052 False 760.5 1044 79.793000 955 2393 2 chr3D.!!$F1 1438
6 TraesCS2B01G170900 chr3D 355794676 355795773 1097 True 518.0 793 86.503000 1404 2389 2 chr3D.!!$R1 985
7 TraesCS2B01G170900 chr3B 41857068 41858331 1263 False 981.0 981 80.949000 1077 2393 1 chr3B.!!$F1 1316
8 TraesCS2B01G170900 chr3B 456980704 456981475 771 True 749.0 749 84.802000 1407 2159 1 chr3B.!!$R1 752
9 TraesCS2B01G170900 chr4A 693893637 693894219 582 True 968.0 968 96.741000 1 580 1 chr4A.!!$R1 579
10 TraesCS2B01G170900 chr4A 14682665 14683263 598 False 819.0 819 91.362000 2781 3379 1 chr4A.!!$F1 598
11 TraesCS2B01G170900 chr6D 294416548 294417124 576 False 929.0 929 95.690000 1 580 1 chr6D.!!$F1 579
12 TraesCS2B01G170900 chr6B 643246362 643246941 579 True 928.0 928 95.517000 1 580 1 chr6B.!!$R1 579
13 TraesCS2B01G170900 chr3A 32999703 33001079 1376 False 922.0 922 79.227000 967 2393 1 chr3A.!!$F1 1426
14 TraesCS2B01G170900 chr3A 474810930 474811711 781 True 767.0 767 84.987000 1404 2159 1 chr3A.!!$R2 755
15 TraesCS2B01G170900 chr5D 398369843 398370441 598 False 835.0 835 91.833000 2784 3382 1 chr5D.!!$F2 598
16 TraesCS2B01G170900 chr5B 430092864 430093461 597 True 795.0 795 90.803000 2788 3379 1 chr5B.!!$R1 591
17 TraesCS2B01G170900 chr5B 689911896 689912414 518 True 719.0 719 91.715000 2785 3302 1 chr5B.!!$R3 517
18 TraesCS2B01G170900 chr5A 24419841 24420435 594 False 793.0 793 90.756000 2786 3379 1 chr5A.!!$F1 593
19 TraesCS2B01G170900 chrUn 18199630 18200209 579 False 789.0 789 91.207000 1 580 1 chrUn.!!$F1 579
20 TraesCS2B01G170900 chrUn 16694571 16695165 594 True 749.0 749 89.333000 2787 3385 1 chrUn.!!$R1 598
21 TraesCS2B01G170900 chrUn 249626372 249626917 545 False 743.0 743 91.392000 2788 3327 1 chrUn.!!$F2 539
22 TraesCS2B01G170900 chrUn 405747203 405747748 545 False 743.0 743 91.392000 2788 3327 1 chrUn.!!$F3 539
23 TraesCS2B01G170900 chr4D 496333862 496334369 507 True 760.0 760 93.701000 2796 3302 1 chr4D.!!$R1 506

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
677 684 0.623723 TGCCTACATCCCCTCAAACC 59.376 55.000 0.0 0.0 0.0 3.27 F
1904 3124 1.145945 AGGTCCATCGCTCTCTCCATA 59.854 52.381 0.0 0.0 0.0 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2373 3684 0.31990 ACGCAGGTCTAGCAGTTGTG 60.320 55.0 0.0 0.0 0.0 3.33 R
2760 4081 0.17576 GGCGTGGCTACTCTCATTCA 59.824 55.0 0.0 0.0 0.0 2.57 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
175 179 3.005554 CAAGACCAGAATGATGCGTTCT 58.994 45.455 0.00 0.00 39.93 3.01
342 346 4.156556 GGATGCAGTGTACATTGTGATTGT 59.843 41.667 18.35 0.85 0.00 2.71
595 599 4.020378 CAACCAAACGCCGGGTCG 62.020 66.667 2.18 0.61 36.05 4.79
608 612 2.356135 CCGGGTCGAAAATGATTGTCT 58.644 47.619 0.00 0.00 0.00 3.41
616 620 6.974622 GGTCGAAAATGATTGTCTTATGCAAT 59.025 34.615 0.00 0.00 39.04 3.56
622 626 6.906157 ATGATTGTCTTATGCAATTAGGGG 57.094 37.500 0.00 0.00 36.77 4.79
646 650 4.700268 TGCATGCAACTAAACTATGTGG 57.300 40.909 20.30 0.00 0.00 4.17
652 656 5.804639 TGCAACTAAACTATGTGGATCTGT 58.195 37.500 0.00 0.00 0.00 3.41
653 657 5.874810 TGCAACTAAACTATGTGGATCTGTC 59.125 40.000 0.00 0.00 0.00 3.51
654 658 6.109359 GCAACTAAACTATGTGGATCTGTCT 58.891 40.000 0.00 0.00 0.00 3.41
677 684 0.623723 TGCCTACATCCCCTCAAACC 59.376 55.000 0.00 0.00 0.00 3.27
690 697 3.016736 CCTCAAACCGGCTCAATGTAAT 58.983 45.455 0.00 0.00 0.00 1.89
699 706 3.120338 CGGCTCAATGTAATCAAACACGT 60.120 43.478 0.00 0.00 30.75 4.49
753 760 4.210304 GCGGCAACAGTCGATCGC 62.210 66.667 11.09 5.80 36.51 4.58
764 771 1.751351 AGTCGATCGCTCAATTCCTCA 59.249 47.619 11.09 0.00 0.00 3.86
855 865 5.475564 ACCAGTACCACATTATTGTTGGAAC 59.524 40.000 10.82 2.22 33.98 3.62
931 946 2.047274 TCCAGCTGCAAGTACGGC 60.047 61.111 8.66 5.71 42.55 5.68
1010 2139 2.034066 CACCACAATGGCGGAGGT 59.966 61.111 0.00 0.00 42.67 3.85
1011 2140 1.298340 CACCACAATGGCGGAGGTA 59.702 57.895 0.00 0.00 42.67 3.08
1227 2362 2.697761 CGGCGAGACCTTCTTCGGA 61.698 63.158 0.00 0.00 35.61 4.55
1289 2424 4.349501 GACTTCATCGGTAAGTACTTCCG 58.650 47.826 26.96 26.96 44.76 4.30
1337 2482 5.295787 CGTGCTTAATTACTGCCCATCTTAA 59.704 40.000 7.05 0.00 0.00 1.85
1348 2493 5.069914 ACTGCCCATCTTAATGTACGATACA 59.930 40.000 0.00 0.00 43.80 2.29
1627 2794 2.223572 CGGCTTGTTCAAGAAAGTGCTT 60.224 45.455 15.52 0.00 0.00 3.91
1715 2909 2.965147 GCAAACGCACCGAGCATGA 61.965 57.895 0.00 0.00 46.13 3.07
1904 3124 1.145945 AGGTCCATCGCTCTCTCCATA 59.854 52.381 0.00 0.00 0.00 2.74
2297 3608 1.748122 CCTGCACATGACAGAGGCC 60.748 63.158 18.17 0.00 37.32 5.19
2373 3684 0.244450 CATGTCCACATGCAACCACC 59.756 55.000 6.75 0.00 45.92 4.61
2374 3685 0.178967 ATGTCCACATGCAACCACCA 60.179 50.000 0.00 0.00 34.83 4.17
2375 3686 1.106351 TGTCCACATGCAACCACCAC 61.106 55.000 0.00 0.00 0.00 4.16
2394 3705 1.825474 ACAACTGCTAGACCTGCGTAT 59.175 47.619 0.00 0.00 0.00 3.06
2411 3723 4.213270 TGCGTATAGTACATGTACCGTACC 59.787 45.833 28.29 21.73 40.10 3.34
2415 3727 6.645003 CGTATAGTACATGTACCGTACCTACA 59.355 42.308 28.29 3.79 40.10 2.74
2434 3746 2.354074 AAGTTGCTGCTGCCAAACCG 62.354 55.000 13.47 0.00 38.71 4.44
2460 3781 7.154656 CAGGATCATATCTACATTTGACCGAA 58.845 38.462 0.00 0.00 0.00 4.30
2463 3784 8.499162 GGATCATATCTACATTTGACCGAAAAG 58.501 37.037 0.00 0.00 0.00 2.27
2495 3816 9.275398 TCATCATTTGATATGAATCGACATTCA 57.725 29.630 4.04 4.04 41.64 2.57
2508 3829 9.131416 TGAATCGACATTCATCATTTTTCTTTG 57.869 29.630 0.00 0.00 42.99 2.77
2509 3830 9.345517 GAATCGACATTCATCATTTTTCTTTGA 57.654 29.630 0.00 0.00 38.71 2.69
2510 3831 9.695526 AATCGACATTCATCATTTTTCTTTGAA 57.304 25.926 0.00 0.00 0.00 2.69
2511 3832 9.865321 ATCGACATTCATCATTTTTCTTTGAAT 57.135 25.926 0.00 0.00 37.47 2.57
2512 3833 9.695526 TCGACATTCATCATTTTTCTTTGAATT 57.304 25.926 0.00 0.00 35.44 2.17
2513 3834 9.735646 CGACATTCATCATTTTTCTTTGAATTG 57.264 29.630 0.00 0.00 35.44 2.32
2536 3857 9.823647 ATTGTTTAAATTGTTTACCATGTGTCA 57.176 25.926 0.00 0.00 0.00 3.58
2537 3858 8.635877 TGTTTAAATTGTTTACCATGTGTCAC 57.364 30.769 0.00 0.00 0.00 3.67
2538 3859 7.432545 TGTTTAAATTGTTTACCATGTGTCACG 59.567 33.333 0.00 0.00 0.00 4.35
2539 3860 5.508200 AAATTGTTTACCATGTGTCACGT 57.492 34.783 0.00 0.00 0.00 4.49
2540 3861 3.953874 TTGTTTACCATGTGTCACGTG 57.046 42.857 16.92 16.92 34.96 4.49
2548 3869 3.722555 CATGTGTCACGTGGTACATTC 57.277 47.619 25.60 11.51 44.52 2.67
2549 3870 2.892784 TGTGTCACGTGGTACATTCA 57.107 45.000 17.00 6.18 44.52 2.57
2550 3871 3.394674 TGTGTCACGTGGTACATTCAT 57.605 42.857 17.00 0.00 44.52 2.57
2551 3872 3.322369 TGTGTCACGTGGTACATTCATC 58.678 45.455 17.00 2.16 44.52 2.92
2552 3873 3.243907 TGTGTCACGTGGTACATTCATCA 60.244 43.478 17.00 4.77 44.52 3.07
2553 3874 3.932710 GTGTCACGTGGTACATTCATCAT 59.067 43.478 17.00 0.00 44.52 2.45
2554 3875 4.391830 GTGTCACGTGGTACATTCATCATT 59.608 41.667 17.00 0.00 44.52 2.57
2555 3876 4.391523 TGTCACGTGGTACATTCATCATTG 59.608 41.667 17.00 0.00 44.52 2.82
2556 3877 3.938334 TCACGTGGTACATTCATCATTGG 59.062 43.478 17.00 0.00 44.52 3.16
2557 3878 3.689161 CACGTGGTACATTCATCATTGGT 59.311 43.478 7.95 0.00 44.52 3.67
2558 3879 3.689161 ACGTGGTACATTCATCATTGGTG 59.311 43.478 0.00 0.00 44.52 4.17
2559 3880 3.487376 CGTGGTACATTCATCATTGGTGC 60.487 47.826 0.00 0.00 44.52 5.01
2560 3881 2.682352 TGGTACATTCATCATTGGTGCG 59.318 45.455 0.00 0.00 0.00 5.34
2561 3882 2.682856 GGTACATTCATCATTGGTGCGT 59.317 45.455 0.00 0.00 0.00 5.24
2562 3883 3.242739 GGTACATTCATCATTGGTGCGTC 60.243 47.826 0.00 0.00 0.00 5.19
2563 3884 2.715046 ACATTCATCATTGGTGCGTCT 58.285 42.857 0.00 0.00 0.00 4.18
2564 3885 3.084039 ACATTCATCATTGGTGCGTCTT 58.916 40.909 0.00 0.00 0.00 3.01
2565 3886 3.127548 ACATTCATCATTGGTGCGTCTTC 59.872 43.478 0.00 0.00 0.00 2.87
2566 3887 2.470983 TCATCATTGGTGCGTCTTCA 57.529 45.000 0.00 0.00 0.00 3.02
2567 3888 2.777094 TCATCATTGGTGCGTCTTCAA 58.223 42.857 0.00 0.00 0.00 2.69
2568 3889 3.346315 TCATCATTGGTGCGTCTTCAAT 58.654 40.909 0.00 0.00 0.00 2.57
2569 3890 3.127376 TCATCATTGGTGCGTCTTCAATG 59.873 43.478 8.46 8.46 45.21 2.82
2570 3891 1.199789 TCATTGGTGCGTCTTCAATGC 59.800 47.619 9.57 0.00 44.17 3.56
2571 3892 0.527565 ATTGGTGCGTCTTCAATGCC 59.472 50.000 0.00 0.00 39.30 4.40
2572 3893 0.537143 TTGGTGCGTCTTCAATGCCT 60.537 50.000 0.00 0.00 39.30 4.75
2573 3894 1.236616 TGGTGCGTCTTCAATGCCTG 61.237 55.000 0.00 0.00 39.30 4.85
2574 3895 0.955428 GGTGCGTCTTCAATGCCTGA 60.955 55.000 0.00 0.00 39.30 3.86
2575 3896 0.874390 GTGCGTCTTCAATGCCTGAA 59.126 50.000 0.00 0.00 41.93 3.02
2576 3897 1.266718 GTGCGTCTTCAATGCCTGAAA 59.733 47.619 0.59 0.00 43.54 2.69
2577 3898 2.095059 GTGCGTCTTCAATGCCTGAAAT 60.095 45.455 0.59 0.00 43.54 2.17
2578 3899 3.126858 GTGCGTCTTCAATGCCTGAAATA 59.873 43.478 0.59 0.00 43.54 1.40
2579 3900 3.755905 TGCGTCTTCAATGCCTGAAATAA 59.244 39.130 0.59 0.00 43.54 1.40
2580 3901 4.398988 TGCGTCTTCAATGCCTGAAATAAT 59.601 37.500 0.59 0.00 43.54 1.28
2581 3902 4.736793 GCGTCTTCAATGCCTGAAATAATG 59.263 41.667 0.59 0.00 43.54 1.90
2582 3903 5.677091 GCGTCTTCAATGCCTGAAATAATGT 60.677 40.000 0.59 0.00 43.54 2.71
2583 3904 6.458206 GCGTCTTCAATGCCTGAAATAATGTA 60.458 38.462 0.59 0.00 43.54 2.29
2584 3905 6.907212 CGTCTTCAATGCCTGAAATAATGTAC 59.093 38.462 0.59 0.00 43.54 2.90
2585 3906 7.413988 CGTCTTCAATGCCTGAAATAATGTACA 60.414 37.037 0.00 0.00 43.54 2.90
2586 3907 8.408601 GTCTTCAATGCCTGAAATAATGTACAT 58.591 33.333 1.41 1.41 43.54 2.29
2587 3908 8.623903 TCTTCAATGCCTGAAATAATGTACATC 58.376 33.333 9.23 0.00 43.54 3.06
2588 3909 7.275888 TCAATGCCTGAAATAATGTACATCC 57.724 36.000 9.23 0.00 0.00 3.51
2589 3910 7.062322 TCAATGCCTGAAATAATGTACATCCT 58.938 34.615 9.23 0.00 0.00 3.24
2590 3911 7.560991 TCAATGCCTGAAATAATGTACATCCTT 59.439 33.333 9.23 3.00 0.00 3.36
2591 3912 6.942532 TGCCTGAAATAATGTACATCCTTC 57.057 37.500 9.23 12.09 0.00 3.46
2592 3913 6.662755 TGCCTGAAATAATGTACATCCTTCT 58.337 36.000 9.23 0.00 0.00 2.85
2593 3914 7.118723 TGCCTGAAATAATGTACATCCTTCTT 58.881 34.615 9.23 0.00 0.00 2.52
2594 3915 7.615365 TGCCTGAAATAATGTACATCCTTCTTT 59.385 33.333 9.23 5.03 0.00 2.52
2595 3916 9.120538 GCCTGAAATAATGTACATCCTTCTTTA 57.879 33.333 9.23 0.00 0.00 1.85
2621 3942 3.470645 ACAGTTTTGCTAAGTCTCGGT 57.529 42.857 0.00 0.00 0.00 4.69
2622 3943 3.391049 ACAGTTTTGCTAAGTCTCGGTC 58.609 45.455 0.00 0.00 0.00 4.79
2623 3944 2.737252 CAGTTTTGCTAAGTCTCGGTCC 59.263 50.000 0.00 0.00 0.00 4.46
2624 3945 2.367567 AGTTTTGCTAAGTCTCGGTCCA 59.632 45.455 0.00 0.00 0.00 4.02
2625 3946 2.450609 TTTGCTAAGTCTCGGTCCAC 57.549 50.000 0.00 0.00 0.00 4.02
2626 3947 1.629043 TTGCTAAGTCTCGGTCCACT 58.371 50.000 0.00 0.00 0.00 4.00
2627 3948 1.174783 TGCTAAGTCTCGGTCCACTC 58.825 55.000 0.00 0.00 0.00 3.51
2628 3949 1.174783 GCTAAGTCTCGGTCCACTCA 58.825 55.000 0.00 0.00 0.00 3.41
2629 3950 1.133407 GCTAAGTCTCGGTCCACTCAG 59.867 57.143 0.00 0.00 0.00 3.35
2630 3951 2.712709 CTAAGTCTCGGTCCACTCAGA 58.287 52.381 0.00 0.00 0.00 3.27
2631 3952 1.249407 AAGTCTCGGTCCACTCAGAC 58.751 55.000 0.00 0.00 36.32 3.51
2632 3953 0.402504 AGTCTCGGTCCACTCAGACT 59.597 55.000 4.61 4.61 40.67 3.24
2633 3954 1.202952 AGTCTCGGTCCACTCAGACTT 60.203 52.381 4.61 0.00 42.43 3.01
2634 3955 1.614413 GTCTCGGTCCACTCAGACTTT 59.386 52.381 0.00 0.00 36.95 2.66
2635 3956 1.613925 TCTCGGTCCACTCAGACTTTG 59.386 52.381 0.00 0.00 36.95 2.77
2636 3957 1.341531 CTCGGTCCACTCAGACTTTGT 59.658 52.381 0.00 0.00 36.95 2.83
2637 3958 1.760613 TCGGTCCACTCAGACTTTGTT 59.239 47.619 0.00 0.00 36.95 2.83
2638 3959 2.960384 TCGGTCCACTCAGACTTTGTTA 59.040 45.455 0.00 0.00 36.95 2.41
2639 3960 3.576982 TCGGTCCACTCAGACTTTGTTAT 59.423 43.478 0.00 0.00 36.95 1.89
2640 3961 3.679980 CGGTCCACTCAGACTTTGTTATG 59.320 47.826 0.00 0.00 36.95 1.90
2641 3962 4.642429 GGTCCACTCAGACTTTGTTATGT 58.358 43.478 0.00 0.00 36.95 2.29
2642 3963 4.691216 GGTCCACTCAGACTTTGTTATGTC 59.309 45.833 0.00 0.00 36.95 3.06
2643 3964 5.511545 GGTCCACTCAGACTTTGTTATGTCT 60.512 44.000 0.00 0.00 43.45 3.41
2644 3965 5.635700 GTCCACTCAGACTTTGTTATGTCTC 59.364 44.000 0.00 0.00 41.06 3.36
2645 3966 5.304357 TCCACTCAGACTTTGTTATGTCTCA 59.696 40.000 0.00 0.00 41.06 3.27
2646 3967 5.636965 CCACTCAGACTTTGTTATGTCTCAG 59.363 44.000 0.00 0.00 41.06 3.35
2647 3968 6.219473 CACTCAGACTTTGTTATGTCTCAGT 58.781 40.000 0.00 0.00 43.57 3.41
2648 3969 6.219473 ACTCAGACTTTGTTATGTCTCAGTG 58.781 40.000 0.00 0.00 41.75 3.66
2649 3970 6.040955 ACTCAGACTTTGTTATGTCTCAGTGA 59.959 38.462 0.00 0.00 41.75 3.41
2650 3971 6.816136 TCAGACTTTGTTATGTCTCAGTGAA 58.184 36.000 0.00 0.00 41.06 3.18
2651 3972 7.445121 TCAGACTTTGTTATGTCTCAGTGAAT 58.555 34.615 0.00 0.00 41.06 2.57
2652 3973 7.386025 TCAGACTTTGTTATGTCTCAGTGAATG 59.614 37.037 0.00 0.00 41.06 2.67
2653 3974 7.172190 CAGACTTTGTTATGTCTCAGTGAATGT 59.828 37.037 0.00 0.00 41.06 2.71
2654 3975 7.716998 AGACTTTGTTATGTCTCAGTGAATGTT 59.283 33.333 0.00 0.00 39.04 2.71
2655 3976 8.902540 ACTTTGTTATGTCTCAGTGAATGTTA 57.097 30.769 0.00 0.00 0.00 2.41
2656 3977 9.507329 ACTTTGTTATGTCTCAGTGAATGTTAT 57.493 29.630 0.00 0.00 0.00 1.89
2733 4054 9.998106 TTCTTTTTCTTCTTGTACTATAGCACT 57.002 29.630 4.75 0.00 0.00 4.40
2734 4055 9.998106 TCTTTTTCTTCTTGTACTATAGCACTT 57.002 29.630 4.75 0.00 0.00 3.16
2736 4057 9.772973 TTTTTCTTCTTGTACTATAGCACTTGA 57.227 29.630 4.75 0.70 0.00 3.02
2737 4058 8.758633 TTTCTTCTTGTACTATAGCACTTGAC 57.241 34.615 4.75 0.00 0.00 3.18
2738 4059 7.704578 TCTTCTTGTACTATAGCACTTGACT 57.295 36.000 4.75 0.00 0.00 3.41
2739 4060 7.539436 TCTTCTTGTACTATAGCACTTGACTG 58.461 38.462 4.75 0.58 0.00 3.51
2740 4061 7.393515 TCTTCTTGTACTATAGCACTTGACTGA 59.606 37.037 4.75 2.42 0.00 3.41
2741 4062 7.089770 TCTTGTACTATAGCACTTGACTGAG 57.910 40.000 4.75 0.00 0.00 3.35
2742 4063 6.884836 TCTTGTACTATAGCACTTGACTGAGA 59.115 38.462 4.75 0.00 0.00 3.27
2743 4064 6.438259 TGTACTATAGCACTTGACTGAGAC 57.562 41.667 4.75 0.00 0.00 3.36
2744 4065 5.944007 TGTACTATAGCACTTGACTGAGACA 59.056 40.000 4.75 0.00 0.00 3.41
2745 4066 6.603599 TGTACTATAGCACTTGACTGAGACAT 59.396 38.462 4.75 0.00 0.00 3.06
2746 4067 5.900425 ACTATAGCACTTGACTGAGACATG 58.100 41.667 0.00 0.00 0.00 3.21
2747 4068 2.469274 AGCACTTGACTGAGACATGG 57.531 50.000 0.00 0.00 0.00 3.66
2748 4069 1.696336 AGCACTTGACTGAGACATGGT 59.304 47.619 0.00 0.00 0.00 3.55
2749 4070 2.105477 AGCACTTGACTGAGACATGGTT 59.895 45.455 0.00 0.00 0.00 3.67
2750 4071 3.324846 AGCACTTGACTGAGACATGGTTA 59.675 43.478 0.00 0.00 0.00 2.85
2751 4072 4.065088 GCACTTGACTGAGACATGGTTAA 58.935 43.478 0.00 0.00 0.00 2.01
2752 4073 4.153117 GCACTTGACTGAGACATGGTTAAG 59.847 45.833 0.00 0.00 34.30 1.85
2753 4074 5.300752 CACTTGACTGAGACATGGTTAAGT 58.699 41.667 0.00 0.64 39.29 2.24
2754 4075 5.406780 CACTTGACTGAGACATGGTTAAGTC 59.593 44.000 11.70 11.70 37.58 3.01
2762 4083 5.808366 AGACATGGTTAAGTCTCAGTTGA 57.192 39.130 0.00 0.00 40.96 3.18
2763 4084 6.174720 AGACATGGTTAAGTCTCAGTTGAA 57.825 37.500 0.00 0.00 40.96 2.69
2764 4085 6.773638 AGACATGGTTAAGTCTCAGTTGAAT 58.226 36.000 0.00 0.00 40.96 2.57
2765 4086 6.652481 AGACATGGTTAAGTCTCAGTTGAATG 59.348 38.462 0.00 0.00 40.96 2.67
2766 4087 6.533730 ACATGGTTAAGTCTCAGTTGAATGA 58.466 36.000 0.00 0.00 0.00 2.57
2767 4088 6.652481 ACATGGTTAAGTCTCAGTTGAATGAG 59.348 38.462 0.00 2.22 46.70 2.90
2776 4097 4.193826 TCAGTTGAATGAGAGTAGCCAC 57.806 45.455 0.00 0.00 0.00 5.01
2777 4098 2.926200 CAGTTGAATGAGAGTAGCCACG 59.074 50.000 0.00 0.00 0.00 4.94
2778 4099 1.661112 GTTGAATGAGAGTAGCCACGC 59.339 52.381 0.00 0.00 0.00 5.34
2779 4100 0.175760 TGAATGAGAGTAGCCACGCC 59.824 55.000 0.00 0.00 0.00 5.68
2780 4101 0.530870 GAATGAGAGTAGCCACGCCC 60.531 60.000 0.00 0.00 0.00 6.13
2781 4102 0.978146 AATGAGAGTAGCCACGCCCT 60.978 55.000 0.00 0.00 0.00 5.19
2782 4103 0.978146 ATGAGAGTAGCCACGCCCTT 60.978 55.000 0.00 0.00 0.00 3.95
2783 4104 0.323999 TGAGAGTAGCCACGCCCTTA 60.324 55.000 0.00 0.00 0.00 2.69
2877 4198 2.349297 AGTAAAGAACGCCGAGAGTG 57.651 50.000 0.00 0.00 0.00 3.51
2935 4256 0.175760 ATGCCGACAGTATTGCTCGT 59.824 50.000 8.53 0.00 0.00 4.18
2959 4280 3.819564 ACATGCTATACTCGGCAAAGA 57.180 42.857 0.00 0.00 41.90 2.52
3023 4347 2.024868 CACGTGGAACATTCGGCGA 61.025 57.895 4.99 4.99 44.52 5.54
3108 4432 1.913762 ACCTTGCCTGCCGACTAGT 60.914 57.895 0.00 0.00 0.00 2.57
3119 4448 5.597806 CCTGCCGACTAGTAAAATGACATA 58.402 41.667 0.00 0.00 0.00 2.29
3280 4859 5.071788 TCTCGGTAAAGATAAGGCCATCATT 59.928 40.000 5.01 1.84 0.00 2.57
3363 5234 1.821216 AGATTGTTACAAGCGTGGGG 58.179 50.000 7.71 0.00 0.00 4.96
3382 5253 2.236395 GGGCTTCCTTGCACTCTAGTTA 59.764 50.000 0.00 0.00 32.79 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 4.150897 AGCTAACAACACTGAACAAGGA 57.849 40.909 0.00 0.00 0.00 3.36
175 179 9.261180 GTACATGCACTATTATTCTTGCTCTTA 57.739 33.333 0.00 0.00 35.91 2.10
313 317 5.007039 CACAATGTACACTGCATCCAGATAC 59.993 44.000 3.81 0.00 41.77 2.24
342 346 1.699083 TCATGCTGGAGAACTTGTGGA 59.301 47.619 0.00 0.00 0.00 4.02
595 599 9.252962 CCCTAATTGCATAAGACAATCATTTTC 57.747 33.333 0.00 0.00 36.74 2.29
608 612 2.675583 TGCATGCCCCTAATTGCATAA 58.324 42.857 16.68 0.00 45.98 1.90
646 650 4.336713 GGGATGTAGGCAAAAAGACAGATC 59.663 45.833 0.00 0.00 0.00 2.75
652 656 2.647299 TGAGGGGATGTAGGCAAAAAGA 59.353 45.455 0.00 0.00 0.00 2.52
653 657 3.085952 TGAGGGGATGTAGGCAAAAAG 57.914 47.619 0.00 0.00 0.00 2.27
654 658 3.534357 TTGAGGGGATGTAGGCAAAAA 57.466 42.857 0.00 0.00 0.00 1.94
677 684 3.120338 ACGTGTTTGATTACATTGAGCCG 60.120 43.478 0.00 0.00 0.00 5.52
690 697 3.225104 AGTACACTAGGGACGTGTTTGA 58.775 45.455 0.00 0.00 42.56 2.69
699 706 4.775780 ACAACTTGCATAGTACACTAGGGA 59.224 41.667 0.00 0.00 35.54 4.20
753 760 6.148480 ACGAGATTTGACTTTGAGGAATTGAG 59.852 38.462 0.00 0.00 0.00 3.02
764 771 6.348540 GCAATGGAGTAACGAGATTTGACTTT 60.349 38.462 0.00 0.00 0.00 2.66
931 946 1.547372 CACCCAATTCTGCCCTTCAAG 59.453 52.381 0.00 0.00 0.00 3.02
1289 2424 1.337821 GTCTGTCGTCGTCATGGAAC 58.662 55.000 0.00 0.00 0.00 3.62
1715 2909 8.993424 AGATGGTGTGGTTAGAAGAGTAATATT 58.007 33.333 0.00 0.00 0.00 1.28
1904 3124 1.684386 CCAGCTCGATCAAGGCCTCT 61.684 60.000 5.23 0.00 0.00 3.69
2273 3584 2.358615 GTCATGTGCAGGCCGTCA 60.359 61.111 0.00 0.00 0.00 4.35
2297 3608 1.498865 GGGCCATGATCTTGTACGCG 61.499 60.000 3.53 3.53 0.00 6.01
2373 3684 0.319900 ACGCAGGTCTAGCAGTTGTG 60.320 55.000 0.00 0.00 0.00 3.33
2374 3685 1.254026 TACGCAGGTCTAGCAGTTGT 58.746 50.000 0.00 0.00 0.00 3.32
2375 3686 2.586258 ATACGCAGGTCTAGCAGTTG 57.414 50.000 0.00 0.00 0.00 3.16
2394 3705 6.414732 ACTTGTAGGTACGGTACATGTACTA 58.585 40.000 29.89 16.23 36.36 1.82
2411 3723 0.953727 TTGGCAGCAGCAACTTGTAG 59.046 50.000 2.65 0.00 44.61 2.74
2415 3727 1.442987 GGTTTGGCAGCAGCAACTT 59.557 52.632 2.65 0.00 44.61 2.66
2434 3746 5.349817 CGGTCAAATGTAGATATGATCCTGC 59.650 44.000 0.00 0.00 0.00 4.85
2447 3764 9.405587 GATGAATTTTCTTTTCGGTCAAATGTA 57.594 29.630 0.00 0.00 0.00 2.29
2448 3765 7.925483 TGATGAATTTTCTTTTCGGTCAAATGT 59.075 29.630 0.00 0.00 0.00 2.71
2510 3831 9.823647 TGACACATGGTAAACAATTTAAACAAT 57.176 25.926 0.00 0.00 0.00 2.71
2511 3832 9.088512 GTGACACATGGTAAACAATTTAAACAA 57.911 29.630 0.00 0.00 0.00 2.83
2512 3833 7.432545 CGTGACACATGGTAAACAATTTAAACA 59.567 33.333 6.37 0.00 0.00 2.83
2513 3834 7.432838 ACGTGACACATGGTAAACAATTTAAAC 59.567 33.333 6.37 0.00 0.00 2.01
2514 3835 7.432545 CACGTGACACATGGTAAACAATTTAAA 59.567 33.333 10.90 0.00 0.00 1.52
2515 3836 6.913132 CACGTGACACATGGTAAACAATTTAA 59.087 34.615 10.90 0.00 0.00 1.52
2516 3837 6.431278 CACGTGACACATGGTAAACAATTTA 58.569 36.000 10.90 0.00 0.00 1.40
2517 3838 5.277825 CACGTGACACATGGTAAACAATTT 58.722 37.500 10.90 0.00 0.00 1.82
2518 3839 4.261405 CCACGTGACACATGGTAAACAATT 60.261 41.667 19.30 0.00 0.00 2.32
2519 3840 3.252215 CCACGTGACACATGGTAAACAAT 59.748 43.478 19.30 0.00 0.00 2.71
2520 3841 2.614520 CCACGTGACACATGGTAAACAA 59.385 45.455 19.30 0.00 0.00 2.83
2521 3842 2.214347 CCACGTGACACATGGTAAACA 58.786 47.619 19.30 0.00 0.00 2.83
2522 3843 2.215196 ACCACGTGACACATGGTAAAC 58.785 47.619 24.14 0.00 45.04 2.01
2523 3844 2.623878 ACCACGTGACACATGGTAAA 57.376 45.000 24.14 0.00 45.04 2.01
2525 3846 1.962100 TGTACCACGTGACACATGGTA 59.038 47.619 25.60 25.60 45.04 3.25
2527 3848 2.093306 ATGTACCACGTGACACATGG 57.907 50.000 24.95 18.85 39.57 3.66
2528 3849 3.063485 TGAATGTACCACGTGACACATG 58.937 45.455 25.75 9.95 32.15 3.21
2529 3850 3.394674 TGAATGTACCACGTGACACAT 57.605 42.857 19.30 20.98 33.12 3.21
2530 3851 2.892784 TGAATGTACCACGTGACACA 57.107 45.000 19.30 19.66 0.00 3.72
2531 3852 3.322369 TGATGAATGTACCACGTGACAC 58.678 45.455 19.30 14.44 0.00 3.67
2532 3853 3.669251 TGATGAATGTACCACGTGACA 57.331 42.857 19.30 15.07 0.00 3.58
2533 3854 4.201812 CCAATGATGAATGTACCACGTGAC 60.202 45.833 19.30 8.95 0.00 3.67
2534 3855 3.938334 CCAATGATGAATGTACCACGTGA 59.062 43.478 19.30 0.00 0.00 4.35
2535 3856 3.689161 ACCAATGATGAATGTACCACGTG 59.311 43.478 9.08 9.08 0.00 4.49
2536 3857 3.689161 CACCAATGATGAATGTACCACGT 59.311 43.478 0.00 0.00 0.00 4.49
2537 3858 3.487376 GCACCAATGATGAATGTACCACG 60.487 47.826 0.00 0.00 0.00 4.94
2538 3859 3.487376 CGCACCAATGATGAATGTACCAC 60.487 47.826 0.00 0.00 0.00 4.16
2539 3860 2.682352 CGCACCAATGATGAATGTACCA 59.318 45.455 0.00 0.00 0.00 3.25
2540 3861 2.682856 ACGCACCAATGATGAATGTACC 59.317 45.455 0.00 0.00 0.00 3.34
2541 3862 3.623060 AGACGCACCAATGATGAATGTAC 59.377 43.478 0.00 0.00 0.00 2.90
2542 3863 3.872696 AGACGCACCAATGATGAATGTA 58.127 40.909 0.00 0.00 0.00 2.29
2543 3864 2.715046 AGACGCACCAATGATGAATGT 58.285 42.857 0.00 0.00 0.00 2.71
2544 3865 3.127376 TGAAGACGCACCAATGATGAATG 59.873 43.478 0.00 0.00 0.00 2.67
2545 3866 3.346315 TGAAGACGCACCAATGATGAAT 58.654 40.909 0.00 0.00 0.00 2.57
2546 3867 2.777094 TGAAGACGCACCAATGATGAA 58.223 42.857 0.00 0.00 0.00 2.57
2547 3868 2.470983 TGAAGACGCACCAATGATGA 57.529 45.000 0.00 0.00 0.00 2.92
2548 3869 3.431856 CATTGAAGACGCACCAATGATG 58.568 45.455 12.24 0.00 45.91 3.07
2549 3870 2.159338 GCATTGAAGACGCACCAATGAT 60.159 45.455 18.35 0.00 45.91 2.45
2550 3871 1.199789 GCATTGAAGACGCACCAATGA 59.800 47.619 18.35 0.00 45.91 2.57
2551 3872 1.621107 GCATTGAAGACGCACCAATG 58.379 50.000 0.00 0.00 45.83 2.82
2552 3873 0.527565 GGCATTGAAGACGCACCAAT 59.472 50.000 0.00 0.00 0.00 3.16
2553 3874 0.537143 AGGCATTGAAGACGCACCAA 60.537 50.000 0.00 0.00 0.00 3.67
2554 3875 1.073025 AGGCATTGAAGACGCACCA 59.927 52.632 0.00 0.00 0.00 4.17
2555 3876 0.955428 TCAGGCATTGAAGACGCACC 60.955 55.000 0.00 0.00 31.34 5.01
2556 3877 0.874390 TTCAGGCATTGAAGACGCAC 59.126 50.000 0.00 0.00 40.82 5.34
2557 3878 1.603456 TTTCAGGCATTGAAGACGCA 58.397 45.000 3.54 0.00 46.01 5.24
2558 3879 2.927553 ATTTCAGGCATTGAAGACGC 57.072 45.000 3.54 0.00 46.01 5.19
2559 3880 5.883661 ACATTATTTCAGGCATTGAAGACG 58.116 37.500 3.54 0.00 46.01 4.18
2560 3881 7.761409 TGTACATTATTTCAGGCATTGAAGAC 58.239 34.615 0.00 0.00 46.01 3.01
2561 3882 7.936496 TGTACATTATTTCAGGCATTGAAGA 57.064 32.000 0.00 0.00 46.01 2.87
2562 3883 7.864379 GGATGTACATTATTTCAGGCATTGAAG 59.136 37.037 10.30 0.00 46.01 3.02
2563 3884 7.560991 AGGATGTACATTATTTCAGGCATTGAA 59.439 33.333 10.30 0.00 43.92 2.69
2564 3885 7.062322 AGGATGTACATTATTTCAGGCATTGA 58.938 34.615 10.30 0.00 0.00 2.57
2565 3886 7.281040 AGGATGTACATTATTTCAGGCATTG 57.719 36.000 10.30 0.00 0.00 2.82
2566 3887 7.781693 AGAAGGATGTACATTATTTCAGGCATT 59.218 33.333 10.30 0.00 0.00 3.56
2567 3888 7.293073 AGAAGGATGTACATTATTTCAGGCAT 58.707 34.615 10.30 0.00 0.00 4.40
2568 3889 6.662755 AGAAGGATGTACATTATTTCAGGCA 58.337 36.000 10.30 0.00 0.00 4.75
2569 3890 7.573968 AAGAAGGATGTACATTATTTCAGGC 57.426 36.000 10.30 0.00 0.00 4.85
2595 3916 8.639761 ACCGAGACTTAGCAAAACTGTATATAT 58.360 33.333 0.00 0.00 0.00 0.86
2596 3917 8.004087 ACCGAGACTTAGCAAAACTGTATATA 57.996 34.615 0.00 0.00 0.00 0.86
2597 3918 6.875076 ACCGAGACTTAGCAAAACTGTATAT 58.125 36.000 0.00 0.00 0.00 0.86
2598 3919 6.276832 ACCGAGACTTAGCAAAACTGTATA 57.723 37.500 0.00 0.00 0.00 1.47
2599 3920 5.148651 ACCGAGACTTAGCAAAACTGTAT 57.851 39.130 0.00 0.00 0.00 2.29
2600 3921 4.553323 GACCGAGACTTAGCAAAACTGTA 58.447 43.478 0.00 0.00 0.00 2.74
2601 3922 3.391049 GACCGAGACTTAGCAAAACTGT 58.609 45.455 0.00 0.00 0.00 3.55
2602 3923 2.737252 GGACCGAGACTTAGCAAAACTG 59.263 50.000 0.00 0.00 0.00 3.16
2603 3924 2.367567 TGGACCGAGACTTAGCAAAACT 59.632 45.455 0.00 0.00 0.00 2.66
2604 3925 2.479275 GTGGACCGAGACTTAGCAAAAC 59.521 50.000 0.00 0.00 0.00 2.43
2605 3926 2.367567 AGTGGACCGAGACTTAGCAAAA 59.632 45.455 0.00 0.00 0.00 2.44
2606 3927 1.968493 AGTGGACCGAGACTTAGCAAA 59.032 47.619 0.00 0.00 0.00 3.68
2607 3928 1.544691 GAGTGGACCGAGACTTAGCAA 59.455 52.381 0.00 0.00 0.00 3.91
2608 3929 1.174783 GAGTGGACCGAGACTTAGCA 58.825 55.000 0.00 0.00 0.00 3.49
2609 3930 1.133407 CTGAGTGGACCGAGACTTAGC 59.867 57.143 0.00 0.00 0.00 3.09
2610 3931 2.420722 GTCTGAGTGGACCGAGACTTAG 59.579 54.545 0.00 2.01 33.46 2.18
2611 3932 2.040012 AGTCTGAGTGGACCGAGACTTA 59.960 50.000 8.69 0.00 41.96 2.24
2612 3933 1.202952 AGTCTGAGTGGACCGAGACTT 60.203 52.381 8.69 0.00 41.96 3.01
2613 3934 0.402504 AGTCTGAGTGGACCGAGACT 59.597 55.000 8.69 8.69 40.27 3.24
2614 3935 1.249407 AAGTCTGAGTGGACCGAGAC 58.751 55.000 0.00 0.00 36.95 3.36
2615 3936 1.613925 CAAAGTCTGAGTGGACCGAGA 59.386 52.381 0.00 0.00 36.95 4.04
2616 3937 1.341531 ACAAAGTCTGAGTGGACCGAG 59.658 52.381 0.00 0.00 36.95 4.63
2617 3938 1.410004 ACAAAGTCTGAGTGGACCGA 58.590 50.000 0.00 0.00 36.95 4.69
2618 3939 2.240493 AACAAAGTCTGAGTGGACCG 57.760 50.000 0.00 0.00 36.95 4.79
2619 3940 4.642429 ACATAACAAAGTCTGAGTGGACC 58.358 43.478 0.00 0.00 36.95 4.46
2620 3941 5.542779 AGACATAACAAAGTCTGAGTGGAC 58.457 41.667 0.00 0.00 43.09 4.02
2621 3942 5.304357 TGAGACATAACAAAGTCTGAGTGGA 59.696 40.000 0.00 0.00 44.61 4.02
2622 3943 5.541845 TGAGACATAACAAAGTCTGAGTGG 58.458 41.667 0.00 0.00 44.61 4.00
2623 3944 6.702972 CTGAGACATAACAAAGTCTGAGTG 57.297 41.667 0.00 0.00 44.61 3.51
2625 3946 6.450545 TCACTGAGACATAACAAAGTCTGAG 58.549 40.000 7.36 7.36 46.92 3.35
2626 3947 6.405278 TCACTGAGACATAACAAAGTCTGA 57.595 37.500 0.00 0.00 44.61 3.27
2627 3948 7.172190 ACATTCACTGAGACATAACAAAGTCTG 59.828 37.037 0.00 0.00 44.61 3.51
2629 3950 7.426929 ACATTCACTGAGACATAACAAAGTC 57.573 36.000 0.00 0.00 35.02 3.01
2630 3951 7.807977 AACATTCACTGAGACATAACAAAGT 57.192 32.000 0.00 0.00 0.00 2.66
2707 4028 9.998106 AGTGCTATAGTACAAGAAGAAAAAGAA 57.002 29.630 21.12 0.00 32.87 2.52
2708 4029 9.998106 AAGTGCTATAGTACAAGAAGAAAAAGA 57.002 29.630 21.12 0.00 32.87 2.52
2710 4031 9.772973 TCAAGTGCTATAGTACAAGAAGAAAAA 57.227 29.630 21.12 0.00 32.87 1.94
2711 4032 9.204570 GTCAAGTGCTATAGTACAAGAAGAAAA 57.795 33.333 21.12 0.00 32.87 2.29
2712 4033 8.585881 AGTCAAGTGCTATAGTACAAGAAGAAA 58.414 33.333 21.12 0.00 32.87 2.52
2713 4034 8.029522 CAGTCAAGTGCTATAGTACAAGAAGAA 58.970 37.037 21.12 0.00 32.87 2.52
2714 4035 7.393515 TCAGTCAAGTGCTATAGTACAAGAAGA 59.606 37.037 21.12 15.17 32.87 2.87
2715 4036 7.539436 TCAGTCAAGTGCTATAGTACAAGAAG 58.461 38.462 21.12 13.61 32.87 2.85
2716 4037 7.393515 TCTCAGTCAAGTGCTATAGTACAAGAA 59.606 37.037 21.12 3.14 32.87 2.52
2717 4038 6.884836 TCTCAGTCAAGTGCTATAGTACAAGA 59.115 38.462 21.12 15.14 32.87 3.02
2718 4039 6.970043 GTCTCAGTCAAGTGCTATAGTACAAG 59.030 42.308 21.12 13.32 32.87 3.16
2719 4040 6.433093 TGTCTCAGTCAAGTGCTATAGTACAA 59.567 38.462 21.12 5.40 32.87 2.41
2720 4041 5.944007 TGTCTCAGTCAAGTGCTATAGTACA 59.056 40.000 21.12 0.00 32.87 2.90
2721 4042 6.438259 TGTCTCAGTCAAGTGCTATAGTAC 57.562 41.667 12.62 12.62 0.00 2.73
2722 4043 6.039829 CCATGTCTCAGTCAAGTGCTATAGTA 59.960 42.308 0.84 0.00 0.00 1.82
2723 4044 5.163468 CCATGTCTCAGTCAAGTGCTATAGT 60.163 44.000 0.84 0.00 0.00 2.12
2724 4045 5.163468 ACCATGTCTCAGTCAAGTGCTATAG 60.163 44.000 0.00 0.00 0.00 1.31
2725 4046 4.711846 ACCATGTCTCAGTCAAGTGCTATA 59.288 41.667 0.00 0.00 0.00 1.31
2726 4047 3.517100 ACCATGTCTCAGTCAAGTGCTAT 59.483 43.478 0.00 0.00 0.00 2.97
2727 4048 2.899900 ACCATGTCTCAGTCAAGTGCTA 59.100 45.455 0.00 0.00 0.00 3.49
2728 4049 1.696336 ACCATGTCTCAGTCAAGTGCT 59.304 47.619 0.00 0.00 0.00 4.40
2729 4050 2.175878 ACCATGTCTCAGTCAAGTGC 57.824 50.000 0.00 0.00 0.00 4.40
2730 4051 5.300752 ACTTAACCATGTCTCAGTCAAGTG 58.699 41.667 0.00 0.00 0.00 3.16
2731 4052 5.305644 AGACTTAACCATGTCTCAGTCAAGT 59.694 40.000 12.38 2.33 39.04 3.16
2732 4053 5.788450 AGACTTAACCATGTCTCAGTCAAG 58.212 41.667 12.38 0.00 39.04 3.02
2733 4054 5.808366 AGACTTAACCATGTCTCAGTCAA 57.192 39.130 12.38 0.00 39.04 3.18
2740 4061 5.808366 TCAACTGAGACTTAACCATGTCT 57.192 39.130 0.00 0.00 45.06 3.41
2741 4062 6.650807 TCATTCAACTGAGACTTAACCATGTC 59.349 38.462 0.00 0.00 0.00 3.06
2742 4063 6.533730 TCATTCAACTGAGACTTAACCATGT 58.466 36.000 0.00 0.00 0.00 3.21
2743 4064 6.875726 TCTCATTCAACTGAGACTTAACCATG 59.124 38.462 0.00 0.00 45.13 3.66
2744 4065 7.009179 TCTCATTCAACTGAGACTTAACCAT 57.991 36.000 0.00 0.00 45.13 3.55
2745 4066 6.042093 ACTCTCATTCAACTGAGACTTAACCA 59.958 38.462 0.00 0.00 45.13 3.67
2746 4067 6.459923 ACTCTCATTCAACTGAGACTTAACC 58.540 40.000 0.00 0.00 45.13 2.85
2747 4068 7.274686 GCTACTCTCATTCAACTGAGACTTAAC 59.725 40.741 0.00 0.00 45.13 2.01
2748 4069 7.316640 GCTACTCTCATTCAACTGAGACTTAA 58.683 38.462 0.00 0.00 45.13 1.85
2749 4070 6.127591 GGCTACTCTCATTCAACTGAGACTTA 60.128 42.308 0.00 0.00 45.13 2.24
2750 4071 5.337169 GGCTACTCTCATTCAACTGAGACTT 60.337 44.000 0.00 0.00 45.13 3.01
2751 4072 4.159506 GGCTACTCTCATTCAACTGAGACT 59.840 45.833 0.00 0.00 45.13 3.24
2752 4073 4.081972 TGGCTACTCTCATTCAACTGAGAC 60.082 45.833 0.00 0.00 45.13 3.36
2754 4075 4.180057 GTGGCTACTCTCATTCAACTGAG 58.820 47.826 0.00 0.00 43.33 3.35
2755 4076 3.367395 CGTGGCTACTCTCATTCAACTGA 60.367 47.826 0.00 0.00 0.00 3.41
2756 4077 2.926200 CGTGGCTACTCTCATTCAACTG 59.074 50.000 0.00 0.00 0.00 3.16
2757 4078 2.675317 GCGTGGCTACTCTCATTCAACT 60.675 50.000 0.00 0.00 0.00 3.16
2758 4079 1.661112 GCGTGGCTACTCTCATTCAAC 59.339 52.381 0.00 0.00 0.00 3.18
2759 4080 1.405526 GGCGTGGCTACTCTCATTCAA 60.406 52.381 0.00 0.00 0.00 2.69
2760 4081 0.175760 GGCGTGGCTACTCTCATTCA 59.824 55.000 0.00 0.00 0.00 2.57
2761 4082 0.530870 GGGCGTGGCTACTCTCATTC 60.531 60.000 0.00 0.00 0.00 2.67
2762 4083 0.978146 AGGGCGTGGCTACTCTCATT 60.978 55.000 0.00 0.00 0.00 2.57
2763 4084 0.978146 AAGGGCGTGGCTACTCTCAT 60.978 55.000 0.00 0.00 0.00 2.90
2764 4085 0.323999 TAAGGGCGTGGCTACTCTCA 60.324 55.000 0.00 0.00 0.00 3.27
2765 4086 1.041437 ATAAGGGCGTGGCTACTCTC 58.959 55.000 0.00 0.00 0.00 3.20
2766 4087 2.376695 TATAAGGGCGTGGCTACTCT 57.623 50.000 0.00 0.00 0.00 3.24
2767 4088 2.561419 TGATATAAGGGCGTGGCTACTC 59.439 50.000 0.00 0.00 0.00 2.59
2768 4089 2.299297 GTGATATAAGGGCGTGGCTACT 59.701 50.000 0.00 0.00 0.00 2.57
2769 4090 2.299297 AGTGATATAAGGGCGTGGCTAC 59.701 50.000 0.00 0.00 0.00 3.58
2770 4091 2.605257 AGTGATATAAGGGCGTGGCTA 58.395 47.619 0.00 0.00 0.00 3.93
2771 4092 1.424638 AGTGATATAAGGGCGTGGCT 58.575 50.000 0.00 0.00 0.00 4.75
2772 4093 2.299297 AGTAGTGATATAAGGGCGTGGC 59.701 50.000 0.00 0.00 0.00 5.01
2773 4094 5.008331 TCTAGTAGTGATATAAGGGCGTGG 58.992 45.833 0.00 0.00 0.00 4.94
2774 4095 6.570672 TTCTAGTAGTGATATAAGGGCGTG 57.429 41.667 0.00 0.00 0.00 5.34
2775 4096 7.778185 AATTCTAGTAGTGATATAAGGGCGT 57.222 36.000 0.00 0.00 0.00 5.68
2776 4097 9.141400 GAAAATTCTAGTAGTGATATAAGGGCG 57.859 37.037 0.00 0.00 0.00 6.13
2777 4098 9.141400 CGAAAATTCTAGTAGTGATATAAGGGC 57.859 37.037 0.00 0.00 0.00 5.19
2836 4157 1.890041 CCGAGTGCCCGTGTTTTGA 60.890 57.895 0.00 0.00 0.00 2.69
2877 4198 2.180159 TACTCCCTTTGCCGAGTGCC 62.180 60.000 0.00 0.00 39.64 5.01
2935 4256 3.535280 TGCCGAGTATAGCATGTTTGA 57.465 42.857 0.00 0.00 33.08 2.69
2998 4322 2.606795 CGAATGTTCCACGTGGCAAATT 60.607 45.455 30.25 25.24 34.44 1.82
2999 4323 1.068610 CGAATGTTCCACGTGGCAAAT 60.069 47.619 30.25 17.57 34.44 2.32
3012 4336 1.343506 GTTAGTCGTCGCCGAATGTT 58.656 50.000 0.00 0.00 46.26 2.71
3023 4347 0.527565 ATAACCGTGCCGTTAGTCGT 59.472 50.000 0.00 0.00 37.94 4.34
3062 4386 4.093952 CTTTGCCGAGCGCCACTG 62.094 66.667 2.29 0.00 36.24 3.66
3187 4526 6.552445 ACAGCCACTAGAAGATTCATAGTT 57.448 37.500 0.00 0.00 0.00 2.24
3280 4859 2.027837 GGCGAGGTGGGACTAAACTTTA 60.028 50.000 0.00 0.00 0.00 1.85
3363 5234 4.457834 TCTAACTAGAGTGCAAGGAAGC 57.542 45.455 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.