Multiple sequence alignment - TraesCS3A01G159700

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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 TraesCS3A01G159700 chr3A 100.000 3417 0 0 1 3417 159430235 159433651 0.000000e+00 6311.0
1 TraesCS3A01G159700 chr3A 93.419 699 20 8 1506 2188 159832499 159833187 0.000000e+00 1013.0
2 TraesCS3A01G159700 chr3A 93.435 655 36 7 2188 2837 688338292 688338944 0.000000e+00 965.0
3 TraesCS3A01G159700 chr3A 94.456 487 10 3 1037 1506 159831942 159832428 0.000000e+00 734.0
4 TraesCS3A01G159700 chr3A 89.684 475 44 2 1037 1506 181104834 181105308 4.880000e-168 601.0
5 TraesCS3A01G159700 chr3A 93.357 286 16 3 3135 3417 159833187 159833472 1.470000e-113 420.0
6 TraesCS3A01G159700 chr3A 91.667 300 19 2 2840 3135 21334351 21334648 8.830000e-111 411.0
7 TraesCS3A01G159700 chr3A 91.694 301 16 3 2841 3137 83218863 83218568 3.170000e-110 409.0
8 TraesCS3A01G159700 chr3A 91.304 299 21 2 2843 3137 656742519 656742222 1.480000e-108 403.0
9 TraesCS3A01G159700 chr3A 91.829 257 19 2 3135 3390 159834115 159834370 1.170000e-94 357.0
10 TraesCS3A01G159700 chr3A 91.440 257 20 2 3135 3390 159441029 159441284 5.430000e-93 351.0
11 TraesCS3A01G159700 chr3A 92.432 185 13 1 2658 2841 552891179 552890995 2.620000e-66 263.0
12 TraesCS3A01G159700 chr3A 97.917 48 1 0 968 1015 166923328 166923375 2.190000e-12 84.2
13 TraesCS3A01G159700 chr6A 95.021 723 34 1 1 723 146443099 146442379 0.000000e+00 1134.0
14 TraesCS3A01G159700 chr6A 95.751 706 17 5 807 1506 146441883 146441185 0.000000e+00 1125.0
15 TraesCS3A01G159700 chr6A 92.593 702 26 9 1506 2191 146441114 146440423 0.000000e+00 985.0
16 TraesCS3A01G159700 chr6A 94.154 650 31 6 2188 2832 554107802 554107155 0.000000e+00 983.0
17 TraesCS3A01G159700 chr6A 92.632 190 11 2 3230 3417 146439015 146438827 1.560000e-68 270.0
18 TraesCS3A01G159700 chr6A 92.381 105 7 1 3135 3238 146440426 146440322 7.640000e-32 148.0
19 TraesCS3A01G159700 chr6A 98.551 69 1 0 716 784 146441999 146441931 4.630000e-24 122.0
20 TraesCS3A01G159700 chr5A 96.662 659 18 4 2187 2841 265546501 265545843 0.000000e+00 1092.0
21 TraesCS3A01G159700 chr5A 94.118 663 32 5 2183 2844 675628308 675628964 0.000000e+00 1002.0
22 TraesCS3A01G159700 chr5A 90.732 669 33 9 2189 2832 706068457 706067793 0.000000e+00 865.0
23 TraesCS3A01G159700 chr5A 88.567 656 61 11 2189 2833 698352869 698353521 0.000000e+00 784.0
24 TraesCS3A01G159700 chr5A 92.079 303 18 3 2841 3138 53149059 53148758 4.080000e-114 422.0
25 TraesCS3A01G159700 chr5A 85.577 312 19 15 2541 2842 37625302 37625007 1.540000e-78 303.0
26 TraesCS3A01G159700 chr5A 84.142 309 22 14 2541 2836 616922362 616922656 1.210000e-69 274.0
27 TraesCS3A01G159700 chr5A 84.437 302 20 18 2541 2833 590383910 590384193 4.350000e-69 272.0
28 TraesCS3A01G159700 chr3B 92.807 709 25 6 1506 2188 203346237 203346945 0.000000e+00 1003.0
29 TraesCS3A01G159700 chr3B 95.941 542 22 0 1506 2047 203549649 203550190 0.000000e+00 880.0
30 TraesCS3A01G159700 chr3B 92.516 481 24 7 1034 1506 203549102 203549578 0.000000e+00 678.0
31 TraesCS3A01G159700 chr3B 91.786 487 23 5 1037 1506 203345680 203346166 0.000000e+00 662.0
32 TraesCS3A01G159700 chr3B 89.452 493 34 6 1506 1992 221912970 221913450 1.050000e-169 606.0
33 TraesCS3A01G159700 chr3B 89.322 487 36 6 1506 1992 221980450 221980920 6.310000e-167 597.0
34 TraesCS3A01G159700 chr3B 92.476 412 26 2 1100 1506 221912488 221912899 4.910000e-163 584.0
35 TraesCS3A01G159700 chr3B 92.476 412 26 2 1100 1506 221979968 221980379 4.910000e-163 584.0
36 TraesCS3A01G159700 chr3B 87.830 493 42 8 1506 1992 215385688 215386168 2.300000e-156 562.0
37 TraesCS3A01G159700 chr3B 81.422 689 112 13 1 686 203546111 203546786 1.790000e-152 549.0
38 TraesCS3A01G159700 chr3B 87.991 458 37 5 1506 1957 221458333 221458778 3.020000e-145 525.0
39 TraesCS3A01G159700 chr3B 94.035 285 15 2 3135 3417 203554069 203554353 6.770000e-117 431.0
40 TraesCS3A01G159700 chr3B 93.220 236 14 2 3135 3368 203346945 203347180 2.520000e-91 346.0
41 TraesCS3A01G159700 chr3B 90.000 250 23 2 3140 3388 203348393 203348641 4.250000e-84 322.0
42 TraesCS3A01G159700 chr3B 91.096 146 1 2 2055 2188 203553924 203554069 1.620000e-43 187.0
43 TraesCS3A01G159700 chr3B 94.828 58 3 0 3360 3417 203347708 203347765 1.310000e-14 91.6
44 TraesCS3A01G159700 chr3B 95.918 49 2 0 967 1015 215385071 215385119 2.830000e-11 80.5
45 TraesCS3A01G159700 chr3B 95.556 45 2 0 3335 3379 221981680 221981724 4.730000e-09 73.1
46 TraesCS3A01G159700 chr4A 94.436 647 31 5 2189 2832 64139326 64139970 0.000000e+00 990.0
47 TraesCS3A01G159700 chr4A 92.130 648 43 7 2189 2832 65024850 65025493 0.000000e+00 907.0
48 TraesCS3A01G159700 chr4A 89.937 318 21 9 2823 3135 16197589 16197900 1.910000e-107 399.0
49 TraesCS3A01G159700 chr2A 94.163 651 26 9 2189 2835 312639208 312638566 0.000000e+00 981.0
50 TraesCS3A01G159700 chr2A 93.405 652 34 7 2189 2835 757559482 757560129 0.000000e+00 957.0
51 TraesCS3A01G159700 chr2A 92.675 314 16 4 2836 3143 70660230 70660542 2.420000e-121 446.0
52 TraesCS3A01G159700 chr2A 92.977 299 14 5 2843 3135 728243575 728243278 2.440000e-116 429.0
53 TraesCS3A01G159700 chr2A 91.089 303 21 3 2836 3134 514438508 514438208 4.110000e-109 405.0
54 TraesCS3A01G159700 chr3D 94.374 551 21 6 1643 2188 141411308 141411853 0.000000e+00 837.0
55 TraesCS3A01G159700 chr3D 94.251 487 11 6 1037 1506 141410543 141411029 0.000000e+00 728.0
56 TraesCS3A01G159700 chr3D 90.870 471 26 5 1053 1506 149205033 149205503 1.740000e-172 616.0
57 TraesCS3A01G159700 chr3D 90.658 471 27 5 1053 1506 149544194 149544664 8.110000e-171 610.0
58 TraesCS3A01G159700 chr3D 90.446 471 28 6 1053 1506 147336069 147335599 3.770000e-169 604.0
59 TraesCS3A01G159700 chr3D 98.276 232 4 0 3186 3417 141411890 141412121 1.140000e-109 407.0
60 TraesCS3A01G159700 chr3D 78.405 514 102 7 8 517 140775687 140776195 3.290000e-85 326.0
61 TraesCS3A01G159700 chr1A 91.246 297 22 2 2843 3135 82151602 82151306 5.310000e-108 401.0
62 TraesCS3A01G159700 chr6D 75.073 686 125 31 32 686 262512102 262511432 9.340000e-71 278.0
63 TraesCS3A01G159700 chr5B 76.209 517 103 16 7 517 286862315 286861813 4.380000e-64 255.0
64 TraesCS3A01G159700 chr5D 78.187 353 68 7 169 517 255472477 255472824 2.060000e-52 217.0
65 TraesCS3A01G159700 chr7D 82.828 99 16 1 425 522 628127362 628127264 1.690000e-13 87.9
66 TraesCS3A01G159700 chr7B 83.871 93 14 1 431 522 729431832 729431740 1.690000e-13 87.9
67 TraesCS3A01G159700 chr7B 80.769 104 19 1 420 522 729639413 729639310 2.830000e-11 80.5
68 TraesCS3A01G159700 chr7B 78.899 109 22 1 420 527 729595874 729595766 4.730000e-09 73.1
69 TraesCS3A01G159700 chr1B 84.444 90 10 4 404 491 593564918 593564831 6.080000e-13 86.1


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 TraesCS3A01G159700 chr3A 159430235 159433651 3416 False 6311.000000 6311 100.000000 1 3417 1 chr3A.!!$F2 3416
1 TraesCS3A01G159700 chr3A 688338292 688338944 652 False 965.000000 965 93.435000 2188 2837 1 chr3A.!!$F6 649
2 TraesCS3A01G159700 chr3A 159831942 159834370 2428 False 631.000000 1013 93.265250 1037 3417 4 chr3A.!!$F7 2380
3 TraesCS3A01G159700 chr6A 554107155 554107802 647 True 983.000000 983 94.154000 2188 2832 1 chr6A.!!$R1 644
4 TraesCS3A01G159700 chr6A 146438827 146443099 4272 True 630.666667 1134 94.488167 1 3417 6 chr6A.!!$R2 3416
5 TraesCS3A01G159700 chr5A 265545843 265546501 658 True 1092.000000 1092 96.662000 2187 2841 1 chr5A.!!$R3 654
6 TraesCS3A01G159700 chr5A 675628308 675628964 656 False 1002.000000 1002 94.118000 2183 2844 1 chr5A.!!$F3 661
7 TraesCS3A01G159700 chr5A 706067793 706068457 664 True 865.000000 865 90.732000 2189 2832 1 chr5A.!!$R4 643
8 TraesCS3A01G159700 chr5A 698352869 698353521 652 False 784.000000 784 88.567000 2189 2833 1 chr5A.!!$F4 644
9 TraesCS3A01G159700 chr3B 221912488 221913450 962 False 595.000000 606 90.964000 1100 1992 2 chr3B.!!$F5 892
10 TraesCS3A01G159700 chr3B 203546111 203554353 8242 False 545.000000 880 91.002000 1 3417 5 chr3B.!!$F3 3416
11 TraesCS3A01G159700 chr3B 203345680 203348641 2961 False 484.920000 1003 92.528200 1037 3417 5 chr3B.!!$F2 2380
12 TraesCS3A01G159700 chr3B 221979968 221981724 1756 False 418.033333 597 92.451333 1100 3379 3 chr3B.!!$F6 2279
13 TraesCS3A01G159700 chr3B 215385071 215386168 1097 False 321.250000 562 91.874000 967 1992 2 chr3B.!!$F4 1025
14 TraesCS3A01G159700 chr4A 64139326 64139970 644 False 990.000000 990 94.436000 2189 2832 1 chr4A.!!$F2 643
15 TraesCS3A01G159700 chr4A 65024850 65025493 643 False 907.000000 907 92.130000 2189 2832 1 chr4A.!!$F3 643
16 TraesCS3A01G159700 chr2A 312638566 312639208 642 True 981.000000 981 94.163000 2189 2835 1 chr2A.!!$R1 646
17 TraesCS3A01G159700 chr2A 757559482 757560129 647 False 957.000000 957 93.405000 2189 2835 1 chr2A.!!$F2 646
18 TraesCS3A01G159700 chr3D 141410543 141412121 1578 False 657.333333 837 95.633667 1037 3417 3 chr3D.!!$F4 2380
19 TraesCS3A01G159700 chr3D 140775687 140776195 508 False 326.000000 326 78.405000 8 517 1 chr3D.!!$F1 509
20 TraesCS3A01G159700 chr6D 262511432 262512102 670 True 278.000000 278 75.073000 32 686 1 chr6D.!!$R1 654
21 TraesCS3A01G159700 chr5B 286861813 286862315 502 True 255.000000 255 76.209000 7 517 1 chr5B.!!$R1 510

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
363 384 0.753262 GGATCTAGTGGTCGCCATGT 59.247 55.0 1.90 0.0 35.28 3.21 F
567 602 0.759346 GAATATGGGGAGTGTCGGCT 59.241 55.0 0.00 0.0 0.00 5.52 F
1973 4709 0.034477 CGGCCATGGGACCTTACTTT 60.034 55.0 15.13 0.0 0.00 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1973 4709 0.836606 TGGTTCAGTTGCTCCACAGA 59.163 50.000 0.00 0.00 0.0 3.41 R
2030 4766 1.001293 TCTGTCAACACTAGCAGCTGG 59.999 52.381 17.12 4.22 0.0 4.85 R
2897 9673 0.107312 GAGATGCATGCCACCTCACT 60.107 55.000 16.68 3.79 0.0 3.41 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
363 384 0.753262 GGATCTAGTGGTCGCCATGT 59.247 55.000 1.90 0.00 35.28 3.21
567 602 0.759346 GAATATGGGGAGTGTCGGCT 59.241 55.000 0.00 0.00 0.00 5.52
572 607 2.772691 GGGGAGTGTCGGCTAGTCG 61.773 68.421 11.33 11.33 0.00 4.18
788 1267 5.452776 CCCCCTCCAAAAAGAAACTAAACAC 60.453 44.000 0.00 0.00 0.00 3.32
791 1270 5.741982 CCTCCAAAAAGAAACTAAACACGTG 59.258 40.000 15.48 15.48 0.00 4.49
811 1315 5.465724 ACGTGAAGGTGTAGAAGAATGAAAC 59.534 40.000 0.00 0.00 0.00 2.78
1024 3488 3.742369 CCCTAGTTTTCGAGTACGCAAAA 59.258 43.478 0.00 0.87 36.58 2.44
1025 3489 4.211794 CCCTAGTTTTCGAGTACGCAAAAA 59.788 41.667 0.00 0.00 36.58 1.94
1499 4003 1.154093 CGAGTTCGAGTGCCGCTTA 60.154 57.895 0.00 0.00 43.02 3.09
1501 4005 0.992802 GAGTTCGAGTGCCGCTTAAG 59.007 55.000 0.00 0.00 38.37 1.85
1825 4552 2.479820 ATCCAGCAGAAGCAGCAGCA 62.480 55.000 3.17 0.00 45.49 4.41
1826 4553 2.691771 CCAGCAGAAGCAGCAGCAG 61.692 63.158 3.17 0.00 45.49 4.24
1827 4554 3.056938 AGCAGAAGCAGCAGCAGC 61.057 61.111 3.17 0.46 45.49 5.25
1973 4709 0.034477 CGGCCATGGGACCTTACTTT 60.034 55.000 15.13 0.00 0.00 2.66
1997 4733 0.586802 GGAGCAACTGAACCAACGAC 59.413 55.000 0.00 0.00 0.00 4.34
2007 4743 0.762418 AACCAACGACCCATGAGACA 59.238 50.000 0.00 0.00 0.00 3.41
2009 4745 0.608130 CCAACGACCCATGAGACAGA 59.392 55.000 0.00 0.00 0.00 3.41
2030 4766 1.936547 GATTCAGAATCCAGTGTCGCC 59.063 52.381 11.69 0.00 31.60 5.54
2047 4783 1.301677 GCCCAGCTGCTAGTGTTGAC 61.302 60.000 8.66 0.00 0.00 3.18
2048 4784 0.035317 CCCAGCTGCTAGTGTTGACA 59.965 55.000 8.66 0.00 0.00 3.58
2050 4786 1.001293 CCAGCTGCTAGTGTTGACAGA 59.999 52.381 8.66 0.00 31.67 3.41
2051 4787 2.335752 CAGCTGCTAGTGTTGACAGAG 58.664 52.381 0.00 0.00 31.67 3.35
2052 4788 2.029560 CAGCTGCTAGTGTTGACAGAGA 60.030 50.000 0.00 0.00 31.67 3.10
2228 8946 3.243724 ACTCTGAACTCTTGCCCTAGTT 58.756 45.455 0.00 0.00 38.62 2.24
2236 8954 9.178758 CTGAACTCTTGCCCTAGTTTATTTTAT 57.821 33.333 0.00 0.00 36.10 1.40
2280 8999 9.379791 CCGTCTAAATTACAATCCTTAAGTCTT 57.620 33.333 0.97 0.00 0.00 3.01
2312 9031 1.622752 ATTCAACCCTCCCCTCCCC 60.623 63.158 0.00 0.00 0.00 4.81
2837 9613 9.713740 GTTGAAATATGCACTTCTCTCATTTAG 57.286 33.333 0.00 0.00 0.00 1.85
2844 9620 7.672983 TGCACTTCTCTCATTTAGTTTTAGG 57.327 36.000 0.00 0.00 0.00 2.69
2845 9621 6.149474 TGCACTTCTCTCATTTAGTTTTAGGC 59.851 38.462 0.00 0.00 0.00 3.93
2846 9622 6.403746 GCACTTCTCTCATTTAGTTTTAGGCC 60.404 42.308 0.00 0.00 0.00 5.19
2847 9623 6.881602 CACTTCTCTCATTTAGTTTTAGGCCT 59.118 38.462 11.78 11.78 0.00 5.19
2848 9624 7.065204 CACTTCTCTCATTTAGTTTTAGGCCTC 59.935 40.741 9.68 0.00 0.00 4.70
2849 9625 6.875972 TCTCTCATTTAGTTTTAGGCCTCT 57.124 37.500 9.68 1.75 0.00 3.69
2850 9626 7.259088 TCTCTCATTTAGTTTTAGGCCTCTT 57.741 36.000 9.68 0.00 0.00 2.85
2851 9627 7.690256 TCTCTCATTTAGTTTTAGGCCTCTTT 58.310 34.615 9.68 0.00 0.00 2.52
2852 9628 8.164070 TCTCTCATTTAGTTTTAGGCCTCTTTT 58.836 33.333 9.68 0.00 0.00 2.27
2853 9629 8.110860 TCTCATTTAGTTTTAGGCCTCTTTTG 57.889 34.615 9.68 0.00 0.00 2.44
2854 9630 7.176690 TCTCATTTAGTTTTAGGCCTCTTTTGG 59.823 37.037 9.68 0.00 0.00 3.28
2855 9631 6.780522 TCATTTAGTTTTAGGCCTCTTTTGGT 59.219 34.615 9.68 0.00 0.00 3.67
2856 9632 7.289084 TCATTTAGTTTTAGGCCTCTTTTGGTT 59.711 33.333 9.68 0.00 0.00 3.67
2857 9633 6.644248 TTAGTTTTAGGCCTCTTTTGGTTC 57.356 37.500 9.68 0.00 0.00 3.62
2858 9634 4.542697 AGTTTTAGGCCTCTTTTGGTTCA 58.457 39.130 9.68 0.00 0.00 3.18
2859 9635 5.147767 AGTTTTAGGCCTCTTTTGGTTCAT 58.852 37.500 9.68 0.00 0.00 2.57
2860 9636 6.311735 AGTTTTAGGCCTCTTTTGGTTCATA 58.688 36.000 9.68 0.00 0.00 2.15
2861 9637 6.434340 AGTTTTAGGCCTCTTTTGGTTCATAG 59.566 38.462 9.68 0.00 0.00 2.23
2862 9638 3.372440 AGGCCTCTTTTGGTTCATAGG 57.628 47.619 0.00 0.00 0.00 2.57
2863 9639 2.024941 AGGCCTCTTTTGGTTCATAGGG 60.025 50.000 0.00 0.00 0.00 3.53
2864 9640 2.291605 GGCCTCTTTTGGTTCATAGGGT 60.292 50.000 0.00 0.00 0.00 4.34
2865 9641 3.053917 GGCCTCTTTTGGTTCATAGGGTA 60.054 47.826 0.00 0.00 0.00 3.69
2866 9642 4.200092 GCCTCTTTTGGTTCATAGGGTAG 58.800 47.826 0.00 0.00 0.00 3.18
2867 9643 4.781934 CCTCTTTTGGTTCATAGGGTAGG 58.218 47.826 0.00 0.00 0.00 3.18
2868 9644 4.473559 CCTCTTTTGGTTCATAGGGTAGGA 59.526 45.833 0.00 0.00 0.00 2.94
2869 9645 5.045140 CCTCTTTTGGTTCATAGGGTAGGAA 60.045 44.000 0.00 0.00 0.00 3.36
2870 9646 6.353951 CCTCTTTTGGTTCATAGGGTAGGAAT 60.354 42.308 0.00 0.00 30.67 3.01
2871 9647 7.147373 CCTCTTTTGGTTCATAGGGTAGGAATA 60.147 40.741 0.00 0.00 30.67 1.75
2872 9648 8.344939 TCTTTTGGTTCATAGGGTAGGAATAT 57.655 34.615 0.00 0.00 30.67 1.28
2873 9649 8.437575 TCTTTTGGTTCATAGGGTAGGAATATC 58.562 37.037 0.00 0.00 30.67 1.63
2874 9650 7.699709 TTTGGTTCATAGGGTAGGAATATCA 57.300 36.000 0.00 0.00 30.67 2.15
2875 9651 7.888514 TTGGTTCATAGGGTAGGAATATCAT 57.111 36.000 0.00 0.00 30.67 2.45
2876 9652 8.982471 TTGGTTCATAGGGTAGGAATATCATA 57.018 34.615 0.00 0.00 30.67 2.15
2877 9653 8.609617 TGGTTCATAGGGTAGGAATATCATAG 57.390 38.462 0.00 0.00 30.67 2.23
2878 9654 7.623677 TGGTTCATAGGGTAGGAATATCATAGG 59.376 40.741 0.00 0.00 30.67 2.57
2879 9655 7.844779 GGTTCATAGGGTAGGAATATCATAGGA 59.155 40.741 0.00 0.00 30.67 2.94
2880 9656 9.268282 GTTCATAGGGTAGGAATATCATAGGAA 57.732 37.037 0.00 0.00 30.67 3.36
2885 9661 8.200914 AGGGTAGGAATATCATAGGAATAGGA 57.799 38.462 0.00 0.00 0.00 2.94
2886 9662 8.642869 AGGGTAGGAATATCATAGGAATAGGAA 58.357 37.037 0.00 0.00 0.00 3.36
2887 9663 9.280456 GGGTAGGAATATCATAGGAATAGGAAA 57.720 37.037 0.00 0.00 0.00 3.13
2898 9674 9.730705 TCATAGGAATAGGAAAATCATAGCAAG 57.269 33.333 0.00 0.00 0.00 4.01
2899 9675 9.512588 CATAGGAATAGGAAAATCATAGCAAGT 57.487 33.333 0.00 0.00 0.00 3.16
2900 9676 7.814264 AGGAATAGGAAAATCATAGCAAGTG 57.186 36.000 0.00 0.00 0.00 3.16
2901 9677 7.577303 AGGAATAGGAAAATCATAGCAAGTGA 58.423 34.615 0.00 0.00 0.00 3.41
2902 9678 7.718753 AGGAATAGGAAAATCATAGCAAGTGAG 59.281 37.037 0.00 0.00 0.00 3.51
2903 9679 7.040823 GGAATAGGAAAATCATAGCAAGTGAGG 60.041 40.741 0.00 0.00 0.00 3.86
2904 9680 5.184892 AGGAAAATCATAGCAAGTGAGGT 57.815 39.130 0.00 0.00 0.00 3.85
2905 9681 4.946157 AGGAAAATCATAGCAAGTGAGGTG 59.054 41.667 0.00 0.00 0.00 4.00
2906 9682 4.096984 GGAAAATCATAGCAAGTGAGGTGG 59.903 45.833 0.00 0.00 0.00 4.61
2907 9683 2.338577 ATCATAGCAAGTGAGGTGGC 57.661 50.000 0.00 0.00 0.00 5.01
2908 9684 0.983467 TCATAGCAAGTGAGGTGGCA 59.017 50.000 0.00 0.00 0.00 4.92
2909 9685 1.561076 TCATAGCAAGTGAGGTGGCAT 59.439 47.619 0.00 0.00 0.00 4.40
2910 9686 1.674441 CATAGCAAGTGAGGTGGCATG 59.326 52.381 0.00 0.00 0.00 4.06
2911 9687 0.677731 TAGCAAGTGAGGTGGCATGC 60.678 55.000 9.90 9.90 0.00 4.06
2912 9688 2.270257 GCAAGTGAGGTGGCATGCA 61.270 57.895 21.36 2.54 34.10 3.96
2913 9689 1.601419 GCAAGTGAGGTGGCATGCAT 61.601 55.000 21.36 1.34 34.10 3.96
2914 9690 0.454600 CAAGTGAGGTGGCATGCATC 59.545 55.000 21.36 11.31 0.00 3.91
2915 9691 0.330604 AAGTGAGGTGGCATGCATCT 59.669 50.000 21.36 13.00 0.00 2.90
2916 9692 0.107312 AGTGAGGTGGCATGCATCTC 60.107 55.000 21.36 20.67 0.00 2.75
2917 9693 0.393402 GTGAGGTGGCATGCATCTCA 60.393 55.000 23.67 23.67 32.79 3.27
2918 9694 0.393402 TGAGGTGGCATGCATCTCAC 60.393 55.000 23.67 19.45 30.58 3.51
2919 9695 0.107312 GAGGTGGCATGCATCTCACT 60.107 55.000 21.36 8.10 0.00 3.41
2920 9696 0.330604 AGGTGGCATGCATCTCACTT 59.669 50.000 21.36 11.62 0.00 3.16
2921 9697 0.737219 GGTGGCATGCATCTCACTTC 59.263 55.000 21.36 2.96 0.00 3.01
2922 9698 0.737219 GTGGCATGCATCTCACTTCC 59.263 55.000 21.36 0.00 0.00 3.46
2923 9699 0.622136 TGGCATGCATCTCACTTCCT 59.378 50.000 21.36 0.00 0.00 3.36
2924 9700 1.839354 TGGCATGCATCTCACTTCCTA 59.161 47.619 21.36 0.00 0.00 2.94
2925 9701 2.440627 TGGCATGCATCTCACTTCCTAT 59.559 45.455 21.36 0.00 0.00 2.57
2926 9702 3.647590 TGGCATGCATCTCACTTCCTATA 59.352 43.478 21.36 0.00 0.00 1.31
2927 9703 4.252073 GGCATGCATCTCACTTCCTATAG 58.748 47.826 21.36 0.00 0.00 1.31
2928 9704 4.252073 GCATGCATCTCACTTCCTATAGG 58.748 47.826 14.21 13.07 0.00 2.57
2929 9705 4.262808 GCATGCATCTCACTTCCTATAGGT 60.263 45.833 18.51 0.00 36.34 3.08
2930 9706 5.744300 GCATGCATCTCACTTCCTATAGGTT 60.744 44.000 18.51 1.77 36.34 3.50
2931 9707 5.282055 TGCATCTCACTTCCTATAGGTTG 57.718 43.478 18.51 13.99 36.34 3.77
2932 9708 4.962362 TGCATCTCACTTCCTATAGGTTGA 59.038 41.667 18.51 16.59 36.34 3.18
2933 9709 5.604231 TGCATCTCACTTCCTATAGGTTGAT 59.396 40.000 18.51 10.62 36.34 2.57
2934 9710 5.931146 GCATCTCACTTCCTATAGGTTGATG 59.069 44.000 18.51 19.75 36.34 3.07
2935 9711 6.463614 GCATCTCACTTCCTATAGGTTGATGT 60.464 42.308 18.51 5.32 36.34 3.06
2936 9712 6.716934 TCTCACTTCCTATAGGTTGATGTC 57.283 41.667 18.51 0.00 36.34 3.06
2937 9713 6.194967 TCTCACTTCCTATAGGTTGATGTCA 58.805 40.000 18.51 0.00 36.34 3.58
2938 9714 6.096987 TCTCACTTCCTATAGGTTGATGTCAC 59.903 42.308 18.51 0.00 36.34 3.67
2939 9715 5.958380 TCACTTCCTATAGGTTGATGTCACT 59.042 40.000 18.51 0.00 36.34 3.41
2940 9716 6.440647 TCACTTCCTATAGGTTGATGTCACTT 59.559 38.462 18.51 0.00 36.34 3.16
2941 9717 6.536582 CACTTCCTATAGGTTGATGTCACTTG 59.463 42.308 18.51 1.74 36.34 3.16
2942 9718 6.440647 ACTTCCTATAGGTTGATGTCACTTGA 59.559 38.462 18.51 0.00 36.34 3.02
2943 9719 7.126421 ACTTCCTATAGGTTGATGTCACTTGAT 59.874 37.037 18.51 0.00 36.34 2.57
2944 9720 7.437713 TCCTATAGGTTGATGTCACTTGATT 57.562 36.000 18.51 0.00 36.34 2.57
2945 9721 7.500992 TCCTATAGGTTGATGTCACTTGATTC 58.499 38.462 18.51 0.00 36.34 2.52
2946 9722 7.125659 TCCTATAGGTTGATGTCACTTGATTCA 59.874 37.037 18.51 0.00 36.34 2.57
2947 9723 7.935755 CCTATAGGTTGATGTCACTTGATTCAT 59.064 37.037 10.96 0.00 0.00 2.57
2948 9724 9.987272 CTATAGGTTGATGTCACTTGATTCATA 57.013 33.333 0.00 0.00 0.00 2.15
2949 9725 8.899427 ATAGGTTGATGTCACTTGATTCATAG 57.101 34.615 0.00 0.00 0.00 2.23
2950 9726 6.118170 AGGTTGATGTCACTTGATTCATAGG 58.882 40.000 0.00 0.00 0.00 2.57
2951 9727 6.070021 AGGTTGATGTCACTTGATTCATAGGA 60.070 38.462 0.00 0.00 0.00 2.94
2952 9728 6.769822 GGTTGATGTCACTTGATTCATAGGAT 59.230 38.462 0.00 0.00 0.00 3.24
2953 9729 7.933577 GGTTGATGTCACTTGATTCATAGGATA 59.066 37.037 0.00 0.00 0.00 2.59
2954 9730 8.986847 GTTGATGTCACTTGATTCATAGGATAG 58.013 37.037 0.00 0.00 0.00 2.08
2955 9731 7.674120 TGATGTCACTTGATTCATAGGATAGG 58.326 38.462 0.00 0.00 0.00 2.57
2956 9732 7.510343 TGATGTCACTTGATTCATAGGATAGGA 59.490 37.037 0.00 0.00 0.00 2.94
2957 9733 7.862274 TGTCACTTGATTCATAGGATAGGAT 57.138 36.000 0.00 0.00 28.27 3.24
2958 9734 8.267620 TGTCACTTGATTCATAGGATAGGATT 57.732 34.615 0.00 0.00 28.27 3.01
2959 9735 8.717717 TGTCACTTGATTCATAGGATAGGATTT 58.282 33.333 0.00 0.00 28.27 2.17
2960 9736 9.566432 GTCACTTGATTCATAGGATAGGATTTT 57.434 33.333 0.00 0.00 28.27 1.82
2983 9759 7.630242 TTTTTCCATTGAGTCTAGGCTAATG 57.370 36.000 0.00 8.01 0.00 1.90
2984 9760 5.957771 TTCCATTGAGTCTAGGCTAATGT 57.042 39.130 17.62 0.00 0.00 2.71
2985 9761 5.957771 TCCATTGAGTCTAGGCTAATGTT 57.042 39.130 17.62 0.00 0.00 2.71
2986 9762 6.313519 TCCATTGAGTCTAGGCTAATGTTT 57.686 37.500 17.62 0.00 0.00 2.83
2987 9763 6.721318 TCCATTGAGTCTAGGCTAATGTTTT 58.279 36.000 17.62 0.00 0.00 2.43
2988 9764 7.175104 TCCATTGAGTCTAGGCTAATGTTTTT 58.825 34.615 17.62 0.00 0.00 1.94
3016 9792 8.917088 TCCTTTGAAATATGAAGGATTGATTCC 58.083 33.333 0.15 0.00 42.90 3.01
3059 9835 6.358974 AATCCATTCCTACAAACCAAAAGG 57.641 37.500 0.00 0.00 0.00 3.11
3060 9836 3.576550 TCCATTCCTACAAACCAAAAGGC 59.423 43.478 0.00 0.00 0.00 4.35
3061 9837 3.578282 CCATTCCTACAAACCAAAAGGCT 59.422 43.478 0.00 0.00 0.00 4.58
3062 9838 4.321974 CCATTCCTACAAACCAAAAGGCTC 60.322 45.833 0.00 0.00 0.00 4.70
3063 9839 2.871453 TCCTACAAACCAAAAGGCTCC 58.129 47.619 0.00 0.00 0.00 4.70
3064 9840 2.175931 TCCTACAAACCAAAAGGCTCCA 59.824 45.455 0.00 0.00 0.00 3.86
3065 9841 3.165071 CCTACAAACCAAAAGGCTCCAT 58.835 45.455 0.00 0.00 0.00 3.41
3066 9842 4.043561 TCCTACAAACCAAAAGGCTCCATA 59.956 41.667 0.00 0.00 0.00 2.74
3067 9843 4.399303 CCTACAAACCAAAAGGCTCCATAG 59.601 45.833 0.00 0.00 0.00 2.23
3068 9844 3.165071 ACAAACCAAAAGGCTCCATAGG 58.835 45.455 0.00 0.00 0.00 2.57
3069 9845 3.181423 ACAAACCAAAAGGCTCCATAGGA 60.181 43.478 0.00 0.00 0.00 2.94
3070 9846 3.825908 AACCAAAAGGCTCCATAGGAA 57.174 42.857 0.00 0.00 0.00 3.36
3071 9847 4.337264 AACCAAAAGGCTCCATAGGAAT 57.663 40.909 0.00 0.00 0.00 3.01
3072 9848 4.337264 ACCAAAAGGCTCCATAGGAATT 57.663 40.909 0.00 0.00 0.00 2.17
3073 9849 4.687976 ACCAAAAGGCTCCATAGGAATTT 58.312 39.130 0.00 0.00 0.00 1.82
3074 9850 5.093677 ACCAAAAGGCTCCATAGGAATTTT 58.906 37.500 0.00 0.00 0.00 1.82
3075 9851 5.547666 ACCAAAAGGCTCCATAGGAATTTTT 59.452 36.000 0.00 0.00 0.00 1.94
3076 9852 6.108687 CCAAAAGGCTCCATAGGAATTTTTC 58.891 40.000 0.00 0.00 0.00 2.29
3093 9869 9.817809 GGAATTTTTCCTACAAAAATCCTATCC 57.182 33.333 5.70 5.72 46.57 2.59
3096 9872 9.997172 ATTTTTCCTACAAAAATCCTATCCTCT 57.003 29.630 0.20 0.00 35.59 3.69
3099 9875 9.502035 TTTCCTACAAAAATCCTATCCTCTAGA 57.498 33.333 0.00 0.00 0.00 2.43
3100 9876 9.502035 TTCCTACAAAAATCCTATCCTCTAGAA 57.498 33.333 0.00 0.00 0.00 2.10
3101 9877 9.502035 TCCTACAAAAATCCTATCCTCTAGAAA 57.498 33.333 0.00 0.00 0.00 2.52
3126 9902 7.889873 TCTTACAAGATTCCTTCAAACCAAA 57.110 32.000 0.00 0.00 0.00 3.28
3127 9903 7.940850 TCTTACAAGATTCCTTCAAACCAAAG 58.059 34.615 0.00 0.00 0.00 2.77
3128 9904 5.535753 ACAAGATTCCTTCAAACCAAAGG 57.464 39.130 0.00 0.00 43.94 3.11
3132 9908 1.995376 TCCTTCAAACCAAAGGAGGC 58.005 50.000 0.51 0.00 45.74 4.70
3133 9909 0.969149 CCTTCAAACCAAAGGAGGCC 59.031 55.000 0.00 0.00 45.15 5.19
3363 12132 1.205655 TCTCTCTCCAAGGCACATTCG 59.794 52.381 0.00 0.00 0.00 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
236 256 4.767255 CAAGAGGAGCGCGCCCTT 62.767 66.667 32.34 24.12 33.36 3.95
317 338 5.409712 TCCAATATGTCCAGATCTGAGGAT 58.590 41.667 24.62 13.60 36.11 3.24
363 384 4.332543 ACCTCCGGCCTTCTCCCA 62.333 66.667 0.00 0.00 0.00 4.37
384 405 0.173708 CCACGGTACCAAGCTCTCTC 59.826 60.000 13.54 0.00 0.00 3.20
476 501 2.153898 CTCTTGCCCACCCAATCCCA 62.154 60.000 0.00 0.00 0.00 4.37
519 544 2.443390 CGGGTGGATACGGGGACT 60.443 66.667 0.00 0.00 42.51 3.85
567 602 1.588082 GACCCAAACGCCTCGACTA 59.412 57.895 0.00 0.00 0.00 2.59
671 706 4.497291 AATAAACCATCTACAGCCGGAA 57.503 40.909 5.05 0.00 0.00 4.30
707 763 1.953642 TGCACGGTCACACACATCG 60.954 57.895 0.00 0.00 0.00 3.84
731 1210 6.009589 TCATCCACCAAATTACATCTTGTGT 58.990 36.000 0.00 0.00 44.95 3.72
788 1267 5.388475 CGTTTCATTCTTCTACACCTTCACG 60.388 44.000 0.00 0.00 0.00 4.35
791 1270 5.927115 ACTCGTTTCATTCTTCTACACCTTC 59.073 40.000 0.00 0.00 0.00 3.46
805 1309 5.105752 GCTGTGATAGAAGACTCGTTTCAT 58.894 41.667 0.00 0.00 0.00 2.57
811 1315 3.724508 ATGGCTGTGATAGAAGACTCG 57.275 47.619 0.00 0.00 0.00 4.18
1035 3499 5.932883 GGAAAGTTCAGATCGAAAACTAGGT 59.067 40.000 9.77 0.00 34.69 3.08
1827 4554 4.529219 TATGTGAGGCTGCGGCGG 62.529 66.667 12.29 3.95 39.81 6.13
1872 4605 4.554163 GCAGTACGAGAAGCACGT 57.446 55.556 0.00 0.00 45.75 4.49
1973 4709 0.836606 TGGTTCAGTTGCTCCACAGA 59.163 50.000 0.00 0.00 0.00 3.41
1997 4733 4.750021 TTCTGAATCTCTGTCTCATGGG 57.250 45.455 0.00 0.00 0.00 4.00
2007 4743 3.430098 GCGACACTGGATTCTGAATCTCT 60.430 47.826 24.96 9.04 38.01 3.10
2009 4745 2.419297 GGCGACACTGGATTCTGAATCT 60.419 50.000 24.96 9.12 38.01 2.40
2030 4766 1.001293 TCTGTCAACACTAGCAGCTGG 59.999 52.381 17.12 4.22 0.00 4.85
2047 4783 5.978919 GCTACACTCTGATTCTGAATCTCTG 59.021 44.000 25.83 18.23 38.72 3.35
2048 4784 5.893255 AGCTACACTCTGATTCTGAATCTCT 59.107 40.000 25.83 7.60 38.72 3.10
2050 4786 5.655974 TGAGCTACACTCTGATTCTGAATCT 59.344 40.000 25.83 11.14 46.41 2.40
2051 4787 5.900425 TGAGCTACACTCTGATTCTGAATC 58.100 41.667 20.74 20.74 46.41 2.52
2052 4788 5.681954 GCTGAGCTACACTCTGATTCTGAAT 60.682 44.000 1.81 1.81 46.41 2.57
2236 8954 9.995003 TTTAGACGGTATTAAAGTTCAAGGTTA 57.005 29.630 0.00 0.00 0.00 2.85
2272 8991 5.549742 TCCTGACCGGTTTTAAGACTTAA 57.450 39.130 9.42 3.44 0.00 1.85
2273 8992 5.750352 ATCCTGACCGGTTTTAAGACTTA 57.250 39.130 9.42 0.00 0.00 2.24
2280 8999 3.414269 GGTTGAATCCTGACCGGTTTTA 58.586 45.455 9.42 0.00 0.00 1.52
2837 9613 4.929819 TGAACCAAAAGAGGCCTAAAAC 57.070 40.909 4.42 0.00 0.00 2.43
2842 9618 2.024941 CCCTATGAACCAAAAGAGGCCT 60.025 50.000 3.86 3.86 0.00 5.19
2843 9619 2.291605 ACCCTATGAACCAAAAGAGGCC 60.292 50.000 0.00 0.00 0.00 5.19
2844 9620 3.087370 ACCCTATGAACCAAAAGAGGC 57.913 47.619 0.00 0.00 0.00 4.70
2845 9621 4.473559 TCCTACCCTATGAACCAAAAGAGG 59.526 45.833 0.00 0.00 0.00 3.69
2846 9622 5.693769 TCCTACCCTATGAACCAAAAGAG 57.306 43.478 0.00 0.00 0.00 2.85
2847 9623 6.652205 ATTCCTACCCTATGAACCAAAAGA 57.348 37.500 0.00 0.00 0.00 2.52
2848 9624 8.217799 TGATATTCCTACCCTATGAACCAAAAG 58.782 37.037 0.00 0.00 0.00 2.27
2849 9625 8.108378 TGATATTCCTACCCTATGAACCAAAA 57.892 34.615 0.00 0.00 0.00 2.44
2850 9626 7.699709 TGATATTCCTACCCTATGAACCAAA 57.300 36.000 0.00 0.00 0.00 3.28
2851 9627 7.888514 ATGATATTCCTACCCTATGAACCAA 57.111 36.000 0.00 0.00 0.00 3.67
2852 9628 7.623677 CCTATGATATTCCTACCCTATGAACCA 59.376 40.741 0.00 0.00 0.00 3.67
2853 9629 7.844779 TCCTATGATATTCCTACCCTATGAACC 59.155 40.741 0.00 0.00 0.00 3.62
2854 9630 8.840200 TCCTATGATATTCCTACCCTATGAAC 57.160 38.462 0.00 0.00 0.00 3.18
2859 9635 9.317713 TCCTATTCCTATGATATTCCTACCCTA 57.682 37.037 0.00 0.00 0.00 3.53
2860 9636 8.200914 TCCTATTCCTATGATATTCCTACCCT 57.799 38.462 0.00 0.00 0.00 4.34
2861 9637 8.855804 TTCCTATTCCTATGATATTCCTACCC 57.144 38.462 0.00 0.00 0.00 3.69
2872 9648 9.730705 CTTGCTATGATTTTCCTATTCCTATGA 57.269 33.333 0.00 0.00 0.00 2.15
2873 9649 9.512588 ACTTGCTATGATTTTCCTATTCCTATG 57.487 33.333 0.00 0.00 0.00 2.23
2874 9650 9.512588 CACTTGCTATGATTTTCCTATTCCTAT 57.487 33.333 0.00 0.00 0.00 2.57
2875 9651 8.713971 TCACTTGCTATGATTTTCCTATTCCTA 58.286 33.333 0.00 0.00 0.00 2.94
2876 9652 7.577303 TCACTTGCTATGATTTTCCTATTCCT 58.423 34.615 0.00 0.00 0.00 3.36
2877 9653 7.040823 CCTCACTTGCTATGATTTTCCTATTCC 60.041 40.741 0.00 0.00 0.00 3.01
2878 9654 7.500559 ACCTCACTTGCTATGATTTTCCTATTC 59.499 37.037 0.00 0.00 0.00 1.75
2879 9655 7.284034 CACCTCACTTGCTATGATTTTCCTATT 59.716 37.037 0.00 0.00 0.00 1.73
2880 9656 6.769822 CACCTCACTTGCTATGATTTTCCTAT 59.230 38.462 0.00 0.00 0.00 2.57
2881 9657 6.115446 CACCTCACTTGCTATGATTTTCCTA 58.885 40.000 0.00 0.00 0.00 2.94
2882 9658 4.946157 CACCTCACTTGCTATGATTTTCCT 59.054 41.667 0.00 0.00 0.00 3.36
2883 9659 4.096984 CCACCTCACTTGCTATGATTTTCC 59.903 45.833 0.00 0.00 0.00 3.13
2884 9660 4.439289 GCCACCTCACTTGCTATGATTTTC 60.439 45.833 0.00 0.00 0.00 2.29
2885 9661 3.445096 GCCACCTCACTTGCTATGATTTT 59.555 43.478 0.00 0.00 0.00 1.82
2886 9662 3.019564 GCCACCTCACTTGCTATGATTT 58.980 45.455 0.00 0.00 0.00 2.17
2887 9663 2.025981 TGCCACCTCACTTGCTATGATT 60.026 45.455 0.00 0.00 0.00 2.57
2888 9664 1.561076 TGCCACCTCACTTGCTATGAT 59.439 47.619 0.00 0.00 0.00 2.45
2889 9665 0.983467 TGCCACCTCACTTGCTATGA 59.017 50.000 0.00 0.00 0.00 2.15
2890 9666 1.674441 CATGCCACCTCACTTGCTATG 59.326 52.381 0.00 0.00 0.00 2.23
2891 9667 2.020694 GCATGCCACCTCACTTGCTAT 61.021 52.381 6.36 0.00 34.94 2.97
2892 9668 0.677731 GCATGCCACCTCACTTGCTA 60.678 55.000 6.36 0.00 34.94 3.49
2893 9669 1.975407 GCATGCCACCTCACTTGCT 60.975 57.895 6.36 0.00 34.94 3.91
2894 9670 1.601419 ATGCATGCCACCTCACTTGC 61.601 55.000 16.68 0.00 37.44 4.01
2895 9671 0.454600 GATGCATGCCACCTCACTTG 59.545 55.000 16.68 0.00 0.00 3.16
2896 9672 0.330604 AGATGCATGCCACCTCACTT 59.669 50.000 16.68 0.00 0.00 3.16
2897 9673 0.107312 GAGATGCATGCCACCTCACT 60.107 55.000 16.68 3.79 0.00 3.41
2898 9674 0.393402 TGAGATGCATGCCACCTCAC 60.393 55.000 21.97 11.34 0.00 3.51
2899 9675 0.393402 GTGAGATGCATGCCACCTCA 60.393 55.000 21.97 21.97 0.00 3.86
2900 9676 0.107312 AGTGAGATGCATGCCACCTC 60.107 55.000 16.68 17.80 0.00 3.85
2901 9677 0.330604 AAGTGAGATGCATGCCACCT 59.669 50.000 16.68 9.29 0.00 4.00
2902 9678 0.737219 GAAGTGAGATGCATGCCACC 59.263 55.000 16.68 4.00 0.00 4.61
2903 9679 0.737219 GGAAGTGAGATGCATGCCAC 59.263 55.000 16.68 15.50 0.00 5.01
2904 9680 0.622136 AGGAAGTGAGATGCATGCCA 59.378 50.000 16.68 2.24 0.00 4.92
2905 9681 2.627515 TAGGAAGTGAGATGCATGCC 57.372 50.000 16.68 0.00 0.00 4.40
2906 9682 4.252073 CCTATAGGAAGTGAGATGCATGC 58.748 47.826 14.11 11.82 37.39 4.06
2907 9683 5.480642 ACCTATAGGAAGTGAGATGCATG 57.519 43.478 26.01 0.00 38.94 4.06
2908 9684 5.604231 TCAACCTATAGGAAGTGAGATGCAT 59.396 40.000 26.01 0.00 38.94 3.96
2909 9685 4.962362 TCAACCTATAGGAAGTGAGATGCA 59.038 41.667 26.01 0.00 38.94 3.96
2910 9686 5.537300 TCAACCTATAGGAAGTGAGATGC 57.463 43.478 26.01 0.00 38.94 3.91
2911 9687 7.060383 ACATCAACCTATAGGAAGTGAGATG 57.940 40.000 26.01 23.77 38.94 2.90
2912 9688 6.841229 TGACATCAACCTATAGGAAGTGAGAT 59.159 38.462 26.01 15.17 38.94 2.75
2913 9689 6.096987 GTGACATCAACCTATAGGAAGTGAGA 59.903 42.308 26.01 12.57 38.94 3.27
2914 9690 6.097554 AGTGACATCAACCTATAGGAAGTGAG 59.902 42.308 26.01 17.48 38.94 3.51
2915 9691 5.958380 AGTGACATCAACCTATAGGAAGTGA 59.042 40.000 26.01 22.17 38.94 3.41
2916 9692 6.227298 AGTGACATCAACCTATAGGAAGTG 57.773 41.667 26.01 18.14 38.94 3.16
2917 9693 6.440647 TCAAGTGACATCAACCTATAGGAAGT 59.559 38.462 26.01 14.41 38.94 3.01
2918 9694 6.878317 TCAAGTGACATCAACCTATAGGAAG 58.122 40.000 26.01 16.03 38.94 3.46
2919 9695 6.867519 TCAAGTGACATCAACCTATAGGAA 57.132 37.500 26.01 10.43 38.94 3.36
2920 9696 7.125659 TGAATCAAGTGACATCAACCTATAGGA 59.874 37.037 26.01 3.17 38.94 2.94
2921 9697 7.275183 TGAATCAAGTGACATCAACCTATAGG 58.725 38.462 17.73 17.73 42.17 2.57
2922 9698 8.899427 ATGAATCAAGTGACATCAACCTATAG 57.101 34.615 0.00 0.00 30.36 1.31
2923 9699 9.987272 CTATGAATCAAGTGACATCAACCTATA 57.013 33.333 0.00 0.00 30.36 1.31
2924 9700 7.935755 CCTATGAATCAAGTGACATCAACCTAT 59.064 37.037 0.00 0.00 30.36 2.57
2925 9701 7.125659 TCCTATGAATCAAGTGACATCAACCTA 59.874 37.037 0.00 0.00 30.36 3.08
2926 9702 6.070021 TCCTATGAATCAAGTGACATCAACCT 60.070 38.462 0.00 0.00 30.36 3.50
2927 9703 6.115446 TCCTATGAATCAAGTGACATCAACC 58.885 40.000 0.00 0.00 30.36 3.77
2928 9704 7.798596 ATCCTATGAATCAAGTGACATCAAC 57.201 36.000 0.00 0.00 30.36 3.18
2929 9705 8.152898 CCTATCCTATGAATCAAGTGACATCAA 58.847 37.037 0.00 0.00 30.36 2.57
2930 9706 7.510343 TCCTATCCTATGAATCAAGTGACATCA 59.490 37.037 0.00 2.21 0.00 3.07
2931 9707 7.901029 TCCTATCCTATGAATCAAGTGACATC 58.099 38.462 0.00 0.00 0.00 3.06
2932 9708 7.862274 TCCTATCCTATGAATCAAGTGACAT 57.138 36.000 0.00 0.00 0.00 3.06
2933 9709 7.862274 ATCCTATCCTATGAATCAAGTGACA 57.138 36.000 0.00 0.00 0.00 3.58
2934 9710 9.566432 AAAATCCTATCCTATGAATCAAGTGAC 57.434 33.333 0.00 0.00 0.00 3.67
2959 9735 7.175104 ACATTAGCCTAGACTCAATGGAAAAA 58.825 34.615 0.00 0.00 32.20 1.94
2960 9736 6.721318 ACATTAGCCTAGACTCAATGGAAAA 58.279 36.000 0.00 0.00 32.20 2.29
2961 9737 6.313519 ACATTAGCCTAGACTCAATGGAAA 57.686 37.500 0.00 0.00 32.20 3.13
2962 9738 5.957771 ACATTAGCCTAGACTCAATGGAA 57.042 39.130 0.00 0.00 32.20 3.53
2963 9739 5.957771 AACATTAGCCTAGACTCAATGGA 57.042 39.130 0.00 0.00 32.20 3.41
2964 9740 7.396540 AAAAACATTAGCCTAGACTCAATGG 57.603 36.000 0.00 0.00 32.20 3.16
3034 9810 6.574269 CCTTTTGGTTTGTAGGAATGGATTCC 60.574 42.308 10.03 10.03 44.60 3.01
3035 9811 6.398095 CCTTTTGGTTTGTAGGAATGGATTC 58.602 40.000 0.00 0.00 33.78 2.52
3036 9812 5.279960 GCCTTTTGGTTTGTAGGAATGGATT 60.280 40.000 0.00 0.00 42.99 3.01
3037 9813 4.222810 GCCTTTTGGTTTGTAGGAATGGAT 59.777 41.667 0.00 0.00 42.99 3.41
3038 9814 3.576550 GCCTTTTGGTTTGTAGGAATGGA 59.423 43.478 0.00 0.00 42.99 3.41
3039 9815 3.578282 AGCCTTTTGGTTTGTAGGAATGG 59.422 43.478 0.00 0.00 42.99 3.16
3040 9816 4.321974 GGAGCCTTTTGGTTTGTAGGAATG 60.322 45.833 0.00 0.00 42.99 2.67
3041 9817 3.832490 GGAGCCTTTTGGTTTGTAGGAAT 59.168 43.478 0.00 0.00 42.99 3.01
3042 9818 3.227614 GGAGCCTTTTGGTTTGTAGGAA 58.772 45.455 0.00 0.00 42.99 3.36
3043 9819 2.175931 TGGAGCCTTTTGGTTTGTAGGA 59.824 45.455 0.00 0.00 42.99 2.94
3044 9820 2.593026 TGGAGCCTTTTGGTTTGTAGG 58.407 47.619 0.00 0.00 42.99 3.18
3045 9821 4.399303 CCTATGGAGCCTTTTGGTTTGTAG 59.601 45.833 0.00 0.00 42.99 2.74
3046 9822 4.043561 TCCTATGGAGCCTTTTGGTTTGTA 59.956 41.667 0.00 0.00 42.99 2.41
3047 9823 3.165071 CCTATGGAGCCTTTTGGTTTGT 58.835 45.455 0.00 0.00 42.99 2.83
3048 9824 3.430453 TCCTATGGAGCCTTTTGGTTTG 58.570 45.455 0.00 0.00 42.99 2.93
3049 9825 3.825908 TCCTATGGAGCCTTTTGGTTT 57.174 42.857 0.00 0.00 42.99 3.27
3050 9826 3.825908 TTCCTATGGAGCCTTTTGGTT 57.174 42.857 0.00 0.00 42.99 3.67
3051 9827 4.337264 AATTCCTATGGAGCCTTTTGGT 57.663 40.909 0.00 0.00 42.99 3.67
3052 9828 5.682234 AAAATTCCTATGGAGCCTTTTGG 57.318 39.130 0.00 0.00 44.18 3.28
3053 9829 6.108687 GGAAAAATTCCTATGGAGCCTTTTG 58.891 40.000 1.86 0.00 46.57 2.44
3054 9830 6.299805 GGAAAAATTCCTATGGAGCCTTTT 57.700 37.500 1.86 0.00 46.57 2.27
3055 9831 5.939764 GGAAAAATTCCTATGGAGCCTTT 57.060 39.130 1.86 0.00 46.57 3.11
3070 9846 9.997172 AGAGGATAGGATTTTTGTAGGAAAAAT 57.003 29.630 5.09 5.09 41.11 1.82
3073 9849 9.502035 TCTAGAGGATAGGATTTTTGTAGGAAA 57.498 33.333 0.00 0.00 0.00 3.13
3074 9850 9.502035 TTCTAGAGGATAGGATTTTTGTAGGAA 57.498 33.333 0.00 0.00 0.00 3.36
3075 9851 9.502035 TTTCTAGAGGATAGGATTTTTGTAGGA 57.498 33.333 0.00 0.00 0.00 2.94
3102 9878 7.014230 CCTTTGGTTTGAAGGAATCTTGTAAGA 59.986 37.037 0.00 0.00 45.25 2.10
3103 9879 7.147976 CCTTTGGTTTGAAGGAATCTTGTAAG 58.852 38.462 0.00 0.00 45.25 2.34
3104 9880 7.049799 CCTTTGGTTTGAAGGAATCTTGTAA 57.950 36.000 0.00 0.00 45.25 2.41
3105 9881 6.648879 CCTTTGGTTTGAAGGAATCTTGTA 57.351 37.500 0.00 0.00 45.25 2.41
3106 9882 5.535753 CCTTTGGTTTGAAGGAATCTTGT 57.464 39.130 0.00 0.00 45.25 3.16
3114 9890 0.969149 GGCCTCCTTTGGTTTGAAGG 59.031 55.000 0.00 0.00 44.06 3.46
3115 9891 2.001076 AGGCCTCCTTTGGTTTGAAG 57.999 50.000 0.00 0.00 0.00 3.02
3116 9892 2.470057 AAGGCCTCCTTTGGTTTGAA 57.530 45.000 5.23 0.00 41.69 2.69
3117 9893 2.445525 ACTAAGGCCTCCTTTGGTTTGA 59.554 45.455 5.23 0.00 41.69 2.69
3118 9894 2.876581 ACTAAGGCCTCCTTTGGTTTG 58.123 47.619 5.23 0.00 41.69 2.93
3119 9895 3.612795 AACTAAGGCCTCCTTTGGTTT 57.387 42.857 5.23 0.00 41.69 3.27
3120 9896 4.948062 ATAACTAAGGCCTCCTTTGGTT 57.052 40.909 5.23 7.50 41.69 3.67
3121 9897 4.948062 AATAACTAAGGCCTCCTTTGGT 57.052 40.909 5.23 0.00 41.69 3.67
3122 9898 6.002653 AGTAATAACTAAGGCCTCCTTTGG 57.997 41.667 5.23 0.00 41.69 3.28
3123 9899 7.711339 CAGTAGTAATAACTAAGGCCTCCTTTG 59.289 40.741 5.23 4.60 44.25 2.77
3124 9900 7.402361 ACAGTAGTAATAACTAAGGCCTCCTTT 59.598 37.037 5.23 1.26 44.25 3.11
3125 9901 6.901857 ACAGTAGTAATAACTAAGGCCTCCTT 59.098 38.462 5.23 0.00 46.63 3.36
3126 9902 6.442091 ACAGTAGTAATAACTAAGGCCTCCT 58.558 40.000 5.23 0.00 39.90 3.69
3127 9903 6.728089 ACAGTAGTAATAACTAAGGCCTCC 57.272 41.667 5.23 0.00 39.90 4.30
3363 12132 1.421485 CGCCTTGTTCGATGCTGAC 59.579 57.895 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.