Multiple sequence alignment - TraesCS3B01G040400

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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 TraesCS3B01G040400 chr3B 100.000 3671 0 0 1 3671 19875841 19879511 0.000000e+00 6780.0
1 TraesCS3B01G040400 chr3B 81.278 1346 153 49 2143 3428 19933774 19935080 0.000000e+00 998.0
2 TraesCS3B01G040400 chr3B 81.129 1346 155 49 2143 3428 19951616 19952922 0.000000e+00 987.0
3 TraesCS3B01G040400 chr3B 86.463 687 70 11 2156 2828 20022932 20023609 0.000000e+00 732.0
4 TraesCS3B01G040400 chr3B 90.667 525 40 5 2278 2797 19976016 19976536 0.000000e+00 689.0
5 TraesCS3B01G040400 chr3B 85.650 662 61 18 1637 2280 19965681 19966326 0.000000e+00 665.0
6 TraesCS3B01G040400 chr3B 85.366 615 72 15 2291 2897 19981921 19982525 4.030000e-174 621.0
7 TraesCS3B01G040400 chr3B 81.967 488 60 16 1651 2118 19919585 19920064 4.450000e-104 388.0
8 TraesCS3B01G040400 chr3B 82.051 390 36 20 3311 3669 20024088 20024474 5.960000e-78 302.0
9 TraesCS3B01G040400 chr3B 78.197 477 57 34 2849 3309 20023590 20024035 1.010000e-65 261.0
10 TraesCS3B01G040400 chr3B 81.509 265 32 8 1222 1476 20022087 20022344 6.220000e-48 202.0
11 TraesCS3B01G040400 chr3B 79.487 273 42 11 2897 3165 19977027 19977289 8.100000e-42 182.0
12 TraesCS3B01G040400 chr3B 75.604 455 56 31 3173 3592 19983405 19983839 1.360000e-39 174.0
13 TraesCS3B01G040400 chr3B 96.000 50 2 0 3622 3671 19953104 19953153 8.450000e-12 82.4
14 TraesCS3B01G040400 chr3B 77.922 154 19 8 3528 3666 20002748 20002901 8.450000e-12 82.4
15 TraesCS3B01G040400 chr3B 84.524 84 5 3 2829 2904 19976776 19976859 3.930000e-10 76.8
16 TraesCS3B01G040400 chr3B 95.349 43 2 0 1597 1639 19964731 19964773 6.580000e-08 69.4
17 TraesCS3B01G040400 chr3D 88.704 2523 139 58 925 3390 13597578 13600011 0.000000e+00 2946.0
18 TraesCS3B01G040400 chr3D 87.676 852 70 20 2 824 13595716 13596561 0.000000e+00 959.0
19 TraesCS3B01G040400 chr3D 86.491 607 66 8 2229 2828 13630756 13631353 0.000000e+00 652.0
20 TraesCS3B01G040400 chr3D 81.905 420 49 18 1062 1476 13629747 13630144 2.730000e-86 329.0
21 TraesCS3B01G040400 chr3D 81.888 392 37 6 3311 3671 13631839 13632227 2.140000e-77 300.0
22 TraesCS3B01G040400 chr3D 77.483 151 20 10 3529 3666 13604810 13604959 1.090000e-10 78.7
23 TraesCS3B01G040400 chr3D 95.122 41 1 1 3614 3653 13595541 13595581 3.060000e-06 63.9
24 TraesCS3B01G040400 chr3A 88.113 1304 86 31 1887 3166 23377676 23376418 0.000000e+00 1485.0
25 TraesCS3B01G040400 chr3A 83.360 1244 141 42 2087 3309 23309771 23308573 0.000000e+00 1090.0
26 TraesCS3B01G040400 chr3A 87.279 849 75 16 2 824 23380674 23379833 0.000000e+00 939.0
27 TraesCS3B01G040400 chr3A 86.420 648 60 15 1901 2540 23367944 23367317 0.000000e+00 684.0
28 TraesCS3B01G040400 chr3A 85.491 641 35 18 927 1551 23378822 23378224 1.870000e-172 616.0
29 TraesCS3B01G040400 chr3A 93.361 241 10 5 1577 1815 23378232 23377996 5.830000e-93 351.0
30 TraesCS3B01G040400 chr3A 76.541 503 58 28 3212 3671 23376343 23375858 1.720000e-53 220.0
31 TraesCS3B01G040400 chr3A 77.700 287 42 11 3324 3592 23366572 23366290 4.910000e-34 156.0
32 TraesCS3B01G040400 chr3A 95.833 48 2 0 3624 3671 23308056 23308009 1.090000e-10 78.7
33 TraesCS3B01G040400 chr2D 76.442 208 34 13 3350 3547 78695041 78694839 8.390000e-17 99.0
34 TraesCS3B01G040400 chr2D 90.000 60 6 0 3612 3671 78694728 78694669 1.090000e-10 78.7
35 TraesCS3B01G040400 chrUn 96.000 50 2 0 3622 3671 249256308 249256357 8.450000e-12 82.4
36 TraesCS3B01G040400 chr2A 88.333 60 7 0 3612 3671 79165766 79165707 5.090000e-09 73.1


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 TraesCS3B01G040400 chr3B 19875841 19879511 3670 False 6780.000000 6780 100.000000 1 3671 1 chr3B.!!$F1 3670
1 TraesCS3B01G040400 chr3B 19933774 19935080 1306 False 998.000000 998 81.278000 2143 3428 1 chr3B.!!$F3 1285
2 TraesCS3B01G040400 chr3B 19951616 19953153 1537 False 534.700000 987 88.564500 2143 3671 2 chr3B.!!$F5 1528
3 TraesCS3B01G040400 chr3B 19981921 19983839 1918 False 397.500000 621 80.485000 2291 3592 2 chr3B.!!$F8 1301
4 TraesCS3B01G040400 chr3B 20022087 20024474 2387 False 374.250000 732 82.055000 1222 3669 4 chr3B.!!$F9 2447
5 TraesCS3B01G040400 chr3B 19964731 19966326 1595 False 367.200000 665 90.499500 1597 2280 2 chr3B.!!$F6 683
6 TraesCS3B01G040400 chr3B 19976016 19977289 1273 False 315.933333 689 84.892667 2278 3165 3 chr3B.!!$F7 887
7 TraesCS3B01G040400 chr3D 13595541 13600011 4470 False 1322.966667 2946 90.500667 2 3653 3 chr3D.!!$F2 3651
8 TraesCS3B01G040400 chr3D 13629747 13632227 2480 False 427.000000 652 83.428000 1062 3671 3 chr3D.!!$F3 2609
9 TraesCS3B01G040400 chr3A 23375858 23380674 4816 True 722.200000 1485 86.157000 2 3671 5 chr3A.!!$R3 3669
10 TraesCS3B01G040400 chr3A 23308009 23309771 1762 True 584.350000 1090 89.596500 2087 3671 2 chr3A.!!$R1 1584
11 TraesCS3B01G040400 chr3A 23366290 23367944 1654 True 420.000000 684 82.060000 1901 3592 2 chr3A.!!$R2 1691

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
855 1062 0.104934 AGGGGTGCTCATAGGGTAGG 60.105 60.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2852 5693 0.035725 CAGATCACCTGAAGCAGCCA 60.036 55.0 0.0 0.0 45.78 4.75 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
64 240 2.955660 CAAAGTGGGCTTACCTGTTCAA 59.044 45.455 0.00 0.00 41.11 2.69
82 258 3.347216 TCAAGGAGATTAAGGCAGCAAC 58.653 45.455 0.00 0.00 0.00 4.17
122 298 6.223852 AGTGTGTGTTTCGATGATAAAGAGT 58.776 36.000 0.00 0.00 0.00 3.24
124 300 7.870954 AGTGTGTGTTTCGATGATAAAGAGTTA 59.129 33.333 0.00 0.00 0.00 2.24
160 336 5.411831 TTCTCATGAACTAGCTGTGATGT 57.588 39.130 0.00 0.00 0.00 3.06
180 357 7.378728 GTGATGTGATGAACGACTATCGATTTA 59.621 37.037 1.71 0.00 43.74 1.40
198 375 2.787473 TATGGTGTGGAGGCTTCAAG 57.213 50.000 0.00 0.00 0.00 3.02
230 407 5.824904 ATGTATTGAATCTTCTGCACCAC 57.175 39.130 0.00 0.00 0.00 4.16
235 412 2.743664 TGAATCTTCTGCACCACGAATG 59.256 45.455 0.00 0.00 0.00 2.67
250 427 5.130350 CCACGAATGTAATCCCCTATTTGT 58.870 41.667 0.00 0.00 0.00 2.83
266 443 9.574516 CCCCTATTTGTTGTCTAATAAAGCTAT 57.425 33.333 0.00 0.00 31.72 2.97
406 595 0.178068 GACAGCCTAAGATTCCCGCA 59.822 55.000 0.00 0.00 0.00 5.69
410 599 3.070018 CAGCCTAAGATTCCCGCATAAG 58.930 50.000 0.00 0.00 0.00 1.73
446 636 9.646427 TTCCAATAAAAATAAAGGTTCATTCCG 57.354 29.630 0.00 0.00 0.00 4.30
480 671 8.498054 TGAAAAATGCCACTGAATTAACAAAA 57.502 26.923 0.00 0.00 0.00 2.44
481 672 8.950210 TGAAAAATGCCACTGAATTAACAAAAA 58.050 25.926 0.00 0.00 0.00 1.94
482 673 9.949174 GAAAAATGCCACTGAATTAACAAAAAT 57.051 25.926 0.00 0.00 0.00 1.82
539 733 4.471904 TGCGTGTCTCTCATAGGAAAAT 57.528 40.909 0.00 0.00 0.00 1.82
541 735 4.184629 GCGTGTCTCTCATAGGAAAATGT 58.815 43.478 0.00 0.00 0.00 2.71
542 736 4.033358 GCGTGTCTCTCATAGGAAAATGTG 59.967 45.833 0.00 0.00 0.00 3.21
543 737 4.033358 CGTGTCTCTCATAGGAAAATGTGC 59.967 45.833 0.00 0.00 0.00 4.57
544 738 4.333926 GTGTCTCTCATAGGAAAATGTGCC 59.666 45.833 0.00 0.00 0.00 5.01
546 740 3.450817 TCTCTCATAGGAAAATGTGCCGA 59.549 43.478 0.00 0.00 0.00 5.54
547 741 3.797039 TCTCATAGGAAAATGTGCCGAG 58.203 45.455 0.00 0.00 0.00 4.63
548 742 3.197766 TCTCATAGGAAAATGTGCCGAGT 59.802 43.478 0.00 0.00 0.00 4.18
549 743 4.404394 TCTCATAGGAAAATGTGCCGAGTA 59.596 41.667 0.00 0.00 0.00 2.59
558 761 7.033185 GGAAAATGTGCCGAGTACATTAAATT 58.967 34.615 16.29 10.05 45.22 1.82
569 772 6.987992 CGAGTACATTAAATTGGGTAGGCTTA 59.012 38.462 0.00 0.00 0.00 3.09
571 774 7.868974 AGTACATTAAATTGGGTAGGCTTACT 58.131 34.615 5.91 0.00 0.00 2.24
583 786 4.081309 GGTAGGCTTACTGTCCACACATTA 60.081 45.833 5.91 0.00 0.00 1.90
611 815 3.093057 ACTGAGTAAGAGCAATCCGACT 58.907 45.455 0.00 0.00 0.00 4.18
625 829 5.062308 GCAATCCGACTGTTCTACTAGTTTG 59.938 44.000 0.00 0.00 0.00 2.93
649 853 4.753107 CCAATTTGAGCAAATGAGCTTGTT 59.247 37.500 9.02 0.00 46.75 2.83
678 882 7.962964 AACAGAAAAAGACATCGAACATAGA 57.037 32.000 0.00 0.00 0.00 1.98
690 894 5.933187 TCGAACATAGAGTAGCTCAGATC 57.067 43.478 0.00 0.00 32.06 2.75
697 901 9.532494 AACATAGAGTAGCTCAGATCATTAGAT 57.468 33.333 0.00 0.00 32.85 1.98
731 937 1.256812 CCAATCCACCCAGGTTCAAC 58.743 55.000 0.00 0.00 39.02 3.18
732 938 1.203050 CCAATCCACCCAGGTTCAACT 60.203 52.381 0.00 0.00 39.02 3.16
751 958 5.985530 TCAACTTCTAGACTTGACACATGTG 59.014 40.000 24.25 24.25 0.00 3.21
837 1044 2.202676 GCACGGAGCCTCTCGAAG 60.203 66.667 9.14 3.56 37.23 3.79
840 1047 3.532155 CGGAGCCTCTCGAAGGGG 61.532 72.222 13.33 6.19 46.32 4.79
852 1059 1.338136 CGAAGGGGTGCTCATAGGGT 61.338 60.000 0.00 0.00 0.00 4.34
853 1060 1.802553 GAAGGGGTGCTCATAGGGTA 58.197 55.000 0.00 0.00 0.00 3.69
854 1061 1.694696 GAAGGGGTGCTCATAGGGTAG 59.305 57.143 0.00 0.00 0.00 3.18
855 1062 0.104934 AGGGGTGCTCATAGGGTAGG 60.105 60.000 0.00 0.00 0.00 3.18
856 1063 0.105142 GGGGTGCTCATAGGGTAGGA 60.105 60.000 0.00 0.00 0.00 2.94
857 1064 1.049402 GGGTGCTCATAGGGTAGGAC 58.951 60.000 0.00 0.00 33.70 3.85
858 1065 1.413227 GGGTGCTCATAGGGTAGGACT 60.413 57.143 0.00 0.00 34.76 3.85
862 1069 1.762957 GCTCATAGGGTAGGACTTGCA 59.237 52.381 0.00 0.00 0.00 4.08
869 1076 3.844640 AGGGTAGGACTTGCATTTTGTT 58.155 40.909 0.00 0.00 0.00 2.83
895 1632 5.854431 TTTTGCGGAAAAATAGGATTTGC 57.146 34.783 12.75 0.00 32.72 3.68
898 1635 5.843673 TGCGGAAAAATAGGATTTGCATA 57.156 34.783 0.00 0.00 0.00 3.14
900 1637 6.215121 TGCGGAAAAATAGGATTTGCATATG 58.785 36.000 0.00 0.00 0.00 1.78
902 1639 7.013750 TGCGGAAAAATAGGATTTGCATATGTA 59.986 33.333 4.29 0.00 0.00 2.29
903 1640 7.326063 GCGGAAAAATAGGATTTGCATATGTAC 59.674 37.037 4.29 0.00 0.00 2.90
904 1641 7.533900 CGGAAAAATAGGATTTGCATATGTACG 59.466 37.037 4.29 0.00 0.00 3.67
909 1646 8.677148 AATAGGATTTGCATATGTACGTTTCT 57.323 30.769 4.29 0.00 0.00 2.52
910 1647 8.677148 ATAGGATTTGCATATGTACGTTTCTT 57.323 30.769 4.29 0.00 0.00 2.52
911 1648 7.016361 AGGATTTGCATATGTACGTTTCTTC 57.984 36.000 4.29 0.00 0.00 2.87
913 1650 7.283127 AGGATTTGCATATGTACGTTTCTTCAT 59.717 33.333 4.29 0.00 0.00 2.57
915 1652 9.370126 GATTTGCATATGTACGTTTCTTCATAC 57.630 33.333 4.29 0.00 0.00 2.39
916 1653 8.487313 TTTGCATATGTACGTTTCTTCATACT 57.513 30.769 4.29 0.00 0.00 2.12
917 1654 8.487313 TTGCATATGTACGTTTCTTCATACTT 57.513 30.769 4.29 0.00 0.00 2.24
919 1656 9.758651 TGCATATGTACGTTTCTTCATACTTAT 57.241 29.630 4.29 0.00 0.00 1.73
954 2172 2.292016 CCCATAAGACAAACAACGTGCA 59.708 45.455 0.00 0.00 0.00 4.57
955 2173 3.554524 CCATAAGACAAACAACGTGCAG 58.445 45.455 0.00 0.00 0.00 4.41
975 2193 3.591254 GACGTCTGGCCCAGGTGAC 62.591 68.421 11.68 0.77 31.51 3.67
997 2215 0.825840 TGAAAAGCCAGTTTCCCGGG 60.826 55.000 16.85 16.85 36.80 5.73
1031 2249 2.124151 GACCCGCAGATGCCCAAT 60.124 61.111 0.00 0.00 37.91 3.16
1032 2250 1.754234 GACCCGCAGATGCCCAATT 60.754 57.895 0.00 0.00 37.91 2.32
1033 2251 1.728490 GACCCGCAGATGCCCAATTC 61.728 60.000 0.00 0.00 37.91 2.17
1034 2252 2.492773 CCCGCAGATGCCCAATTCC 61.493 63.158 0.00 0.00 37.91 3.01
1035 2253 2.492773 CCGCAGATGCCCAATTCCC 61.493 63.158 0.00 0.00 37.91 3.97
1036 2254 2.837883 CGCAGATGCCCAATTCCCG 61.838 63.158 0.00 0.00 37.91 5.14
1037 2255 2.492773 GCAGATGCCCAATTCCCGG 61.493 63.158 0.00 0.00 34.31 5.73
1038 2256 2.123726 AGATGCCCAATTCCCGGC 60.124 61.111 0.00 1.48 45.92 6.13
1039 2257 3.226537 GATGCCCAATTCCCGGCC 61.227 66.667 0.00 0.00 45.07 6.13
1040 2258 4.858942 ATGCCCAATTCCCGGCCC 62.859 66.667 0.00 0.00 45.07 5.80
1042 2260 4.858942 GCCCAATTCCCGGCCCAT 62.859 66.667 0.00 0.00 39.39 4.00
1043 2261 2.042025 CCCAATTCCCGGCCCATT 60.042 61.111 0.00 0.00 0.00 3.16
1044 2262 2.433994 CCCAATTCCCGGCCCATTG 61.434 63.158 0.00 3.64 0.00 2.82
1045 2263 1.381056 CCAATTCCCGGCCCATTGA 60.381 57.895 16.19 0.00 30.66 2.57
1046 2264 0.975040 CCAATTCCCGGCCCATTGAA 60.975 55.000 16.19 5.71 30.66 2.69
1047 2265 0.901124 CAATTCCCGGCCCATTGAAA 59.099 50.000 11.26 0.00 30.66 2.69
1048 2266 1.277557 CAATTCCCGGCCCATTGAAAA 59.722 47.619 11.26 0.00 30.66 2.29
1049 2267 1.650528 ATTCCCGGCCCATTGAAAAA 58.349 45.000 0.00 0.00 0.00 1.94
1050 2268 0.682292 TTCCCGGCCCATTGAAAAAC 59.318 50.000 0.00 0.00 0.00 2.43
1051 2269 1.188871 TCCCGGCCCATTGAAAAACC 61.189 55.000 0.00 0.00 0.00 3.27
1052 2270 1.476007 CCCGGCCCATTGAAAAACCA 61.476 55.000 0.00 0.00 0.00 3.67
1053 2271 0.037419 CCGGCCCATTGAAAAACCAG 60.037 55.000 0.00 0.00 0.00 4.00
1054 2272 0.965439 CGGCCCATTGAAAAACCAGA 59.035 50.000 0.00 0.00 0.00 3.86
1055 2273 1.550072 CGGCCCATTGAAAAACCAGAT 59.450 47.619 0.00 0.00 0.00 2.90
1056 2274 2.674747 CGGCCCATTGAAAAACCAGATG 60.675 50.000 0.00 0.00 0.00 2.90
1057 2275 2.349590 GCCCATTGAAAAACCAGATGC 58.650 47.619 0.00 0.00 0.00 3.91
1058 2276 2.936553 GCCCATTGAAAAACCAGATGCC 60.937 50.000 0.00 0.00 0.00 4.40
1059 2277 2.355007 CCCATTGAAAAACCAGATGCCC 60.355 50.000 0.00 0.00 0.00 5.36
1060 2278 2.302445 CCATTGAAAAACCAGATGCCCA 59.698 45.455 0.00 0.00 0.00 5.36
1086 2304 3.161450 GCCCTAGCCCATCCGACA 61.161 66.667 0.00 0.00 0.00 4.35
1190 2429 1.944676 CGATCTCGCCGGTTAGCAC 60.945 63.158 1.90 0.00 0.00 4.40
1209 2448 1.707239 CTCTCGCGCGGACTCTTACT 61.707 60.000 31.69 0.00 0.00 2.24
1213 2452 2.416432 GCGCGGACTCTTACTCCCT 61.416 63.158 8.83 0.00 0.00 4.20
1218 2457 1.401199 CGGACTCTTACTCCCTCGTTC 59.599 57.143 0.00 0.00 0.00 3.95
1396 2647 2.171237 TCCCTCATGTTCTTGATGCGAT 59.829 45.455 0.00 0.00 0.00 4.58
1397 2648 2.289820 CCCTCATGTTCTTGATGCGATG 59.710 50.000 0.00 0.00 0.00 3.84
1398 2649 2.286831 CCTCATGTTCTTGATGCGATGC 60.287 50.000 0.00 0.00 0.00 3.91
1399 2650 1.328374 TCATGTTCTTGATGCGATGCG 59.672 47.619 0.00 0.00 0.00 4.73
1400 2651 1.328374 CATGTTCTTGATGCGATGCGA 59.672 47.619 0.00 0.00 0.00 5.10
1419 2670 3.304559 GCGAGTAGTGTTATTCTGCTGTG 59.695 47.826 0.00 0.00 0.00 3.66
1425 2676 7.639945 AGTAGTGTTATTCTGCTGTGTTTTTC 58.360 34.615 0.00 0.00 0.00 2.29
1429 2681 7.172532 AGTGTTATTCTGCTGTGTTTTTCGATA 59.827 33.333 0.00 0.00 0.00 2.92
1517 2773 4.433186 TTTAGGTGACAAATGAATGGCG 57.567 40.909 0.00 0.00 0.00 5.69
1554 2810 0.173481 TCTGCACTATGCCGACTCAC 59.827 55.000 0.00 0.00 44.23 3.51
1585 2841 3.316029 GCAGACATGTTTATATGCTGCCA 59.684 43.478 18.01 0.00 43.86 4.92
1625 2900 4.333926 GCATAAAGAAGCTCATCGAAACCT 59.666 41.667 0.00 0.00 0.00 3.50
1626 2901 5.728898 GCATAAAGAAGCTCATCGAAACCTG 60.729 44.000 0.00 0.00 0.00 4.00
1732 3924 3.234353 TCTTGAGCGATATCACCCAGAT 58.766 45.455 3.12 0.00 40.86 2.90
1847 4274 6.469910 CGATCTTCACGCAATATAGTATCG 57.530 41.667 0.00 0.00 0.00 2.92
1877 4311 6.369059 ACAAGAACTTCTGAAACAGATGTG 57.631 37.500 16.76 9.66 44.37 3.21
1954 4396 8.483758 ACGGTCTATGTTAGGAGTATGAAAAAT 58.516 33.333 0.00 0.00 0.00 1.82
2106 4562 8.887717 CGGAATTTCTAGATTTTCTCATGACTT 58.112 33.333 12.41 0.00 0.00 3.01
2115 4571 8.367660 AGATTTTCTCATGACTTCTGGTAGTA 57.632 34.615 0.00 0.00 0.00 1.82
2118 4574 7.776618 TTTCTCATGACTTCTGGTAGTAGAA 57.223 36.000 0.00 0.00 35.51 2.10
2140 4609 6.967767 AGAATAAGTCACTACATATATCGCGC 59.032 38.462 0.00 0.00 0.00 6.86
2176 4675 8.976471 GGAAATAGTATTAGAAAACGGCTAGAC 58.024 37.037 0.00 0.00 0.00 2.59
2202 4701 7.329717 CGTCTTATTGCTGAGAAGAAAAGTAGT 59.670 37.037 0.42 0.00 37.34 2.73
2644 5244 2.565210 TAAAATGATTGGCTGCAGCG 57.435 45.000 31.19 0.00 43.26 5.18
2763 5376 6.193504 TGTGGTTGAATTATCCCATGATTGA 58.806 36.000 0.00 0.00 32.18 2.57
2787 5400 9.702253 TGAAATTAATAATAGGTTGGTTAGCCA 57.298 29.630 0.00 0.00 44.38 4.75
2832 5673 1.251251 GGCTGATTCCTTGTGTTGCT 58.749 50.000 0.00 0.00 0.00 3.91
2835 5676 0.961019 TGATTCCTTGTGTTGCTGGC 59.039 50.000 0.00 0.00 0.00 4.85
2836 5677 1.251251 GATTCCTTGTGTTGCTGGCT 58.749 50.000 0.00 0.00 0.00 4.75
2837 5678 0.963962 ATTCCTTGTGTTGCTGGCTG 59.036 50.000 0.00 0.00 0.00 4.85
2839 5680 0.111061 TCCTTGTGTTGCTGGCTGAT 59.889 50.000 0.00 0.00 0.00 2.90
2840 5681 0.963962 CCTTGTGTTGCTGGCTGATT 59.036 50.000 0.00 0.00 0.00 2.57
2842 5683 0.961019 TTGTGTTGCTGGCTGATTCC 59.039 50.000 0.00 0.00 0.00 3.01
2844 5685 1.251251 GTGTTGCTGGCTGATTCCTT 58.749 50.000 0.00 0.00 0.00 3.36
2845 5686 1.068055 GTGTTGCTGGCTGATTCCTTG 60.068 52.381 0.00 0.00 0.00 3.61
2846 5687 1.251251 GTTGCTGGCTGATTCCTTGT 58.749 50.000 0.00 0.00 0.00 3.16
2849 5690 1.251251 GCTGGCTGATTCCTTGTGTT 58.749 50.000 0.00 0.00 0.00 3.32
2850 5691 1.068055 GCTGGCTGATTCCTTGTGTTG 60.068 52.381 0.00 0.00 0.00 3.33
2851 5692 0.961019 TGGCTGATTCCTTGTGTTGC 59.039 50.000 0.00 0.00 0.00 4.17
2852 5693 1.251251 GGCTGATTCCTTGTGTTGCT 58.749 50.000 0.00 0.00 0.00 3.91
2853 5694 1.068055 GGCTGATTCCTTGTGTTGCTG 60.068 52.381 0.00 0.00 0.00 4.41
2913 6000 8.822805 ACTATCCAACTTCTGTGGTTCTTAATA 58.177 33.333 0.00 0.00 0.00 0.98
2921 6008 8.986991 ACTTCTGTGGTTCTTAATATCTGATCT 58.013 33.333 0.00 0.00 0.00 2.75
2951 6042 0.756294 TATCGCGGATGGAACCATGT 59.244 50.000 11.27 0.00 36.70 3.21
2952 6043 0.756294 ATCGCGGATGGAACCATGTA 59.244 50.000 11.27 0.00 36.70 2.29
2953 6044 0.537653 TCGCGGATGGAACCATGTAA 59.462 50.000 11.27 0.00 36.70 2.41
2954 6045 1.140052 TCGCGGATGGAACCATGTAAT 59.860 47.619 11.27 0.00 36.70 1.89
2955 6046 1.531149 CGCGGATGGAACCATGTAATC 59.469 52.381 11.27 0.00 36.70 1.75
2959 6050 5.003804 GCGGATGGAACCATGTAATCTATT 58.996 41.667 11.27 0.00 36.70 1.73
2962 6053 7.148407 GCGGATGGAACCATGTAATCTATTTAG 60.148 40.741 11.27 0.00 36.70 1.85
2988 6080 8.946085 GTTTGGAGATGATGCCGATAATAATAA 58.054 33.333 0.00 0.00 0.00 1.40
3025 6117 4.481930 TCGTTGATTTTTGCGTGATCTT 57.518 36.364 0.00 0.00 0.00 2.40
3035 6127 9.162793 GATTTTTGCGTGATCTTGATTATAGTG 57.837 33.333 0.00 0.00 0.00 2.74
3037 6129 8.437360 TTTTGCGTGATCTTGATTATAGTGAT 57.563 30.769 0.00 0.00 0.00 3.06
3116 6215 7.148086 TGTCTGAATGCATGGGAAATTAAGTAC 60.148 37.037 0.00 0.00 0.00 2.73
3117 6216 6.889177 TCTGAATGCATGGGAAATTAAGTACA 59.111 34.615 0.00 0.00 0.00 2.90
3118 6217 7.067372 TCTGAATGCATGGGAAATTAAGTACAG 59.933 37.037 0.00 0.00 0.00 2.74
3119 6218 6.663093 TGAATGCATGGGAAATTAAGTACAGT 59.337 34.615 0.00 0.00 0.00 3.55
3120 6219 7.831690 TGAATGCATGGGAAATTAAGTACAGTA 59.168 33.333 0.00 0.00 0.00 2.74
3147 6246 8.972127 ACTGAATCTTACTATCTATGTGTGTGT 58.028 33.333 0.00 0.00 0.00 3.72
3166 6789 6.017192 TGTGTGTGTGAGAATTAATTCACCTG 60.017 38.462 26.02 0.00 42.30 4.00
3171 6820 4.399303 GTGAGAATTAATTCACCTGTGGGG 59.601 45.833 26.02 0.00 38.16 4.96
3235 6899 3.795623 ATTGGCATGCTTGATTGAGTC 57.204 42.857 18.92 0.00 0.00 3.36
3236 6900 2.203470 TGGCATGCTTGATTGAGTCA 57.797 45.000 18.92 0.00 34.25 3.41
3237 6901 1.814394 TGGCATGCTTGATTGAGTCAC 59.186 47.619 18.92 0.00 36.32 3.67
3253 6918 2.093447 AGTCACCCTTTCGTGATCCATC 60.093 50.000 0.00 0.00 44.27 3.51
3336 7198 8.997323 CATCTGTAATCAACTCCTGGAAATATC 58.003 37.037 0.00 0.00 0.00 1.63
3366 7228 5.391310 GCTGTGATCTGACAACAATGTTAGG 60.391 44.000 0.00 0.00 42.00 2.69
3489 7369 7.607607 TGGTACTATTAAATATGGAGCAGCATG 59.392 37.037 0.00 0.00 40.87 4.06
3504 7384 1.417145 AGCATGCAACACCAACCAATT 59.583 42.857 21.98 0.00 0.00 2.32
3518 7398 8.477256 ACACCAACCAATTATTGAATCCATTAG 58.523 33.333 6.50 0.00 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 240 1.407437 CCGTTGCTGCCTTAATCTCCT 60.407 52.381 0.00 0.00 0.00 3.69
82 258 1.069765 ACTTCCCGCATATGCTCCG 59.930 57.895 24.56 11.88 39.32 4.63
95 271 5.856126 TTATCATCGAAACACACACTTCC 57.144 39.130 0.00 0.00 0.00 3.46
138 314 5.047092 TCACATCACAGCTAGTTCATGAGAA 60.047 40.000 0.00 0.00 0.00 2.87
139 315 4.463891 TCACATCACAGCTAGTTCATGAGA 59.536 41.667 0.00 0.00 0.00 3.27
148 324 3.549471 GTCGTTCATCACATCACAGCTAG 59.451 47.826 0.00 0.00 0.00 3.42
160 336 6.640907 CACCATAAATCGATAGTCGTTCATCA 59.359 38.462 0.00 0.00 41.35 3.07
180 357 0.610232 GCTTGAAGCCTCCACACCAT 60.610 55.000 5.74 0.00 34.48 3.55
198 375 9.229784 CAGAAGATTCAATACATATGTTTGTGC 57.770 33.333 14.77 10.98 0.00 4.57
230 407 6.542370 AGACAACAAATAGGGGATTACATTCG 59.458 38.462 0.00 0.00 0.00 3.34
266 443 5.771165 GGTTGTGTTTTCTGGGGTAAATAGA 59.229 40.000 0.00 0.00 0.00 1.98
273 450 2.543037 AAGGTTGTGTTTTCTGGGGT 57.457 45.000 0.00 0.00 0.00 4.95
318 495 4.654091 ACAGTTGCTAAAGTTTGCACAT 57.346 36.364 10.86 2.80 38.56 3.21
391 580 3.127425 ACTTATGCGGGAATCTTAGGC 57.873 47.619 0.00 0.00 0.00 3.93
397 586 7.224949 GGAAAGCTATATACTTATGCGGGAATC 59.775 40.741 0.00 0.00 0.00 2.52
446 636 5.990996 TCAGTGGCATTTTTCATTTCCTTTC 59.009 36.000 0.00 0.00 0.00 2.62
451 641 8.772705 TGTTAATTCAGTGGCATTTTTCATTTC 58.227 29.630 0.00 0.00 0.00 2.17
480 671 9.638176 TTTACTCCCTCTCGTATCTACTTTATT 57.362 33.333 0.00 0.00 0.00 1.40
481 672 9.638176 TTTTACTCCCTCTCGTATCTACTTTAT 57.362 33.333 0.00 0.00 0.00 1.40
482 673 9.118300 CTTTTACTCCCTCTCGTATCTACTTTA 57.882 37.037 0.00 0.00 0.00 1.85
489 680 8.992835 TTTTTACTTTTACTCCCTCTCGTATC 57.007 34.615 0.00 0.00 0.00 2.24
521 715 4.333926 GGCACATTTTCCTATGAGAGACAC 59.666 45.833 0.00 0.00 0.00 3.67
522 716 4.517285 GGCACATTTTCCTATGAGAGACA 58.483 43.478 0.00 0.00 0.00 3.41
529 723 4.188462 TGTACTCGGCACATTTTCCTATG 58.812 43.478 0.00 0.00 0.00 2.23
530 724 4.481368 TGTACTCGGCACATTTTCCTAT 57.519 40.909 0.00 0.00 0.00 2.57
531 725 3.965379 TGTACTCGGCACATTTTCCTA 57.035 42.857 0.00 0.00 0.00 2.94
539 733 3.692101 CCCAATTTAATGTACTCGGCACA 59.308 43.478 0.00 0.00 0.00 4.57
541 735 3.958018 ACCCAATTTAATGTACTCGGCA 58.042 40.909 0.00 0.00 0.00 5.69
542 736 4.514066 CCTACCCAATTTAATGTACTCGGC 59.486 45.833 0.00 0.00 0.00 5.54
543 737 4.514066 GCCTACCCAATTTAATGTACTCGG 59.486 45.833 0.00 0.00 0.00 4.63
544 738 5.365619 AGCCTACCCAATTTAATGTACTCG 58.634 41.667 0.00 0.00 0.00 4.18
546 740 7.773690 CAGTAAGCCTACCCAATTTAATGTACT 59.226 37.037 0.00 0.00 0.00 2.73
547 741 7.555195 ACAGTAAGCCTACCCAATTTAATGTAC 59.445 37.037 0.00 0.00 32.75 2.90
548 742 7.635648 ACAGTAAGCCTACCCAATTTAATGTA 58.364 34.615 0.00 0.00 32.75 2.29
549 743 6.490492 ACAGTAAGCCTACCCAATTTAATGT 58.510 36.000 0.00 0.00 30.52 2.71
558 761 1.272807 GTGGACAGTAAGCCTACCCA 58.727 55.000 0.00 0.00 0.00 4.51
611 815 6.293955 GCTCAAATTGGCAAACTAGTAGAACA 60.294 38.462 3.01 0.00 0.00 3.18
625 829 2.968675 AGCTCATTTGCTCAAATTGGC 58.031 42.857 15.30 15.30 39.34 4.52
675 879 9.806448 AGAAATCTAATGATCTGAGCTACTCTA 57.194 33.333 0.00 0.00 31.51 2.43
731 937 4.564041 AGCACATGTGTCAAGTCTAGAAG 58.436 43.478 26.01 0.00 0.00 2.85
732 938 4.039124 TGAGCACATGTGTCAAGTCTAGAA 59.961 41.667 26.01 1.91 0.00 2.10
782 989 3.736759 TCGACGAAACGAACATCAATGAA 59.263 39.130 0.00 0.00 39.34 2.57
786 993 3.571571 AGATCGACGAAACGAACATCAA 58.428 40.909 0.00 0.00 45.16 2.57
795 1002 4.318121 GGCACATATTGAGATCGACGAAAC 60.318 45.833 0.00 0.00 0.00 2.78
824 1031 2.364448 ACCCCTTCGAGAGGCTCC 60.364 66.667 11.71 1.69 44.85 4.70
826 1033 3.394836 GCACCCCTTCGAGAGGCT 61.395 66.667 7.82 0.00 44.85 4.58
827 1034 3.378399 GAGCACCCCTTCGAGAGGC 62.378 68.421 7.82 0.00 44.85 4.70
828 1035 1.333636 ATGAGCACCCCTTCGAGAGG 61.334 60.000 6.66 6.66 45.86 3.69
831 1038 0.390860 CCTATGAGCACCCCTTCGAG 59.609 60.000 0.00 0.00 0.00 4.04
832 1039 1.048724 CCCTATGAGCACCCCTTCGA 61.049 60.000 0.00 0.00 0.00 3.71
833 1040 1.338136 ACCCTATGAGCACCCCTTCG 61.338 60.000 0.00 0.00 0.00 3.79
834 1041 1.694696 CTACCCTATGAGCACCCCTTC 59.305 57.143 0.00 0.00 0.00 3.46
835 1042 1.695989 CCTACCCTATGAGCACCCCTT 60.696 57.143 0.00 0.00 0.00 3.95
836 1043 0.104934 CCTACCCTATGAGCACCCCT 60.105 60.000 0.00 0.00 0.00 4.79
837 1044 0.105142 TCCTACCCTATGAGCACCCC 60.105 60.000 0.00 0.00 0.00 4.95
838 1045 1.049402 GTCCTACCCTATGAGCACCC 58.951 60.000 0.00 0.00 0.00 4.61
840 1047 2.483889 GCAAGTCCTACCCTATGAGCAC 60.484 54.545 0.00 0.00 0.00 4.40
873 1080 5.300752 TGCAAATCCTATTTTTCCGCAAAA 58.699 33.333 0.00 0.00 38.76 2.44
876 1083 4.734398 ATGCAAATCCTATTTTTCCGCA 57.266 36.364 0.00 0.00 0.00 5.69
877 1084 6.215845 ACATATGCAAATCCTATTTTTCCGC 58.784 36.000 1.58 0.00 0.00 5.54
878 1085 7.533900 CGTACATATGCAAATCCTATTTTTCCG 59.466 37.037 1.58 0.00 0.00 4.30
879 1086 8.349983 ACGTACATATGCAAATCCTATTTTTCC 58.650 33.333 1.58 0.00 0.00 3.13
880 1087 9.730420 AACGTACATATGCAAATCCTATTTTTC 57.270 29.630 1.58 0.00 0.00 2.29
888 1625 6.781138 TGAAGAAACGTACATATGCAAATCC 58.219 36.000 1.58 0.00 0.00 3.01
890 1627 9.109393 AGTATGAAGAAACGTACATATGCAAAT 57.891 29.630 1.58 0.00 35.47 2.32
898 1635 9.745880 CTGGTATAAGTATGAAGAAACGTACAT 57.254 33.333 0.00 0.00 35.47 2.29
900 1637 8.408601 TCCTGGTATAAGTATGAAGAAACGTAC 58.591 37.037 0.00 0.00 33.86 3.67
902 1639 7.414222 TCCTGGTATAAGTATGAAGAAACGT 57.586 36.000 0.00 0.00 0.00 3.99
903 1640 8.712285 TTTCCTGGTATAAGTATGAAGAAACG 57.288 34.615 0.00 0.00 0.00 3.60
975 2193 2.676076 CGGGAAACTGGCTTTTCAATG 58.324 47.619 12.30 1.08 37.24 2.82
997 2215 1.080995 GTCACGAGCACTCTCATGGC 61.081 60.000 0.00 0.00 39.30 4.40
1031 2249 0.682292 GTTTTTCAATGGGCCGGGAA 59.318 50.000 2.18 0.00 0.00 3.97
1032 2250 1.188871 GGTTTTTCAATGGGCCGGGA 61.189 55.000 2.18 0.00 0.00 5.14
1033 2251 1.295101 GGTTTTTCAATGGGCCGGG 59.705 57.895 2.18 0.00 0.00 5.73
1034 2252 0.037419 CTGGTTTTTCAATGGGCCGG 60.037 55.000 0.00 0.00 0.00 6.13
1035 2253 0.965439 TCTGGTTTTTCAATGGGCCG 59.035 50.000 0.00 0.00 0.00 6.13
1036 2254 2.936553 GCATCTGGTTTTTCAATGGGCC 60.937 50.000 0.00 0.00 0.00 5.80
1037 2255 2.349590 GCATCTGGTTTTTCAATGGGC 58.650 47.619 0.00 0.00 0.00 5.36
1038 2256 2.355007 GGGCATCTGGTTTTTCAATGGG 60.355 50.000 0.00 0.00 0.00 4.00
1039 2257 2.302445 TGGGCATCTGGTTTTTCAATGG 59.698 45.455 0.00 0.00 0.00 3.16
1040 2258 3.681593 TGGGCATCTGGTTTTTCAATG 57.318 42.857 0.00 0.00 0.00 2.82
1041 2259 4.914177 ATTGGGCATCTGGTTTTTCAAT 57.086 36.364 0.00 0.00 0.00 2.57
1042 2260 4.504689 GGAATTGGGCATCTGGTTTTTCAA 60.505 41.667 0.00 0.00 0.00 2.69
1043 2261 3.007831 GGAATTGGGCATCTGGTTTTTCA 59.992 43.478 0.00 0.00 0.00 2.69
1044 2262 3.007831 TGGAATTGGGCATCTGGTTTTTC 59.992 43.478 0.00 0.00 0.00 2.29
1045 2263 2.978278 TGGAATTGGGCATCTGGTTTTT 59.022 40.909 0.00 0.00 0.00 1.94
1046 2264 2.568509 CTGGAATTGGGCATCTGGTTTT 59.431 45.455 0.00 0.00 0.00 2.43
1047 2265 2.181975 CTGGAATTGGGCATCTGGTTT 58.818 47.619 0.00 0.00 0.00 3.27
1048 2266 1.358787 TCTGGAATTGGGCATCTGGTT 59.641 47.619 0.00 0.00 0.00 3.67
1049 2267 1.002069 TCTGGAATTGGGCATCTGGT 58.998 50.000 0.00 0.00 0.00 4.00
1050 2268 1.688772 CTCTGGAATTGGGCATCTGG 58.311 55.000 0.00 0.00 0.00 3.86
1051 2269 1.030457 GCTCTGGAATTGGGCATCTG 58.970 55.000 0.00 0.00 0.00 2.90
1052 2270 0.106318 GGCTCTGGAATTGGGCATCT 60.106 55.000 0.00 0.00 0.00 2.90
1053 2271 1.111715 GGGCTCTGGAATTGGGCATC 61.112 60.000 0.00 0.00 0.00 3.91
1054 2272 1.075748 GGGCTCTGGAATTGGGCAT 60.076 57.895 0.00 0.00 0.00 4.40
1055 2273 0.918799 TAGGGCTCTGGAATTGGGCA 60.919 55.000 0.00 0.00 0.00 5.36
1056 2274 0.179006 CTAGGGCTCTGGAATTGGGC 60.179 60.000 0.00 0.00 0.00 5.36
1057 2275 0.179006 GCTAGGGCTCTGGAATTGGG 60.179 60.000 0.00 0.00 35.22 4.12
1058 2276 0.179006 GGCTAGGGCTCTGGAATTGG 60.179 60.000 0.00 0.00 38.73 3.16
1059 2277 0.179006 GGGCTAGGGCTCTGGAATTG 60.179 60.000 0.00 0.00 35.73 2.32
1060 2278 0.624500 TGGGCTAGGGCTCTGGAATT 60.625 55.000 0.00 0.00 40.19 2.17
1086 2304 1.305213 ATGGGCGAAAATGGTGGCT 60.305 52.632 0.00 0.00 0.00 4.75
1190 2429 1.297745 GTAAGAGTCCGCGCGAGAG 60.298 63.158 34.63 15.65 0.00 3.20
1233 2472 2.887568 CTGTAGGCGCCTGCGAAG 60.888 66.667 38.98 26.31 44.10 3.79
1396 2647 3.056821 ACAGCAGAATAACACTACTCGCA 60.057 43.478 0.00 0.00 0.00 5.10
1397 2648 3.304559 CACAGCAGAATAACACTACTCGC 59.695 47.826 0.00 0.00 0.00 5.03
1398 2649 4.486090 ACACAGCAGAATAACACTACTCG 58.514 43.478 0.00 0.00 0.00 4.18
1399 2650 6.787085 AAACACAGCAGAATAACACTACTC 57.213 37.500 0.00 0.00 0.00 2.59
1400 2651 7.518370 CGAAAAACACAGCAGAATAACACTACT 60.518 37.037 0.00 0.00 0.00 2.57
1419 2670 1.822581 GGCCGCACATATCGAAAAAC 58.177 50.000 0.00 0.00 0.00 2.43
1517 2773 3.539604 CAGATCTCCACCAGAATCAACC 58.460 50.000 0.00 0.00 33.62 3.77
1554 2810 3.957671 AAACATGTCTGCATAGCATCG 57.042 42.857 0.00 0.00 38.13 3.84
1585 2841 5.543507 TTATGCCAAATTAATGCCCGATT 57.456 34.783 0.00 0.00 0.00 3.34
1625 2900 2.441375 TGGGCCTTATGCTAATGCTACA 59.559 45.455 4.53 0.00 40.92 2.74
1626 2901 3.140325 TGGGCCTTATGCTAATGCTAC 57.860 47.619 4.53 0.00 40.92 3.58
1753 3945 4.920640 TTCCAATTCGCAAAACACCTAA 57.079 36.364 0.00 0.00 0.00 2.69
1758 3950 6.925718 TCATACAAATTCCAATTCGCAAAACA 59.074 30.769 0.00 0.00 0.00 2.83
1760 3952 7.816513 TGATCATACAAATTCCAATTCGCAAAA 59.183 29.630 0.00 0.00 0.00 2.44
1833 4038 7.806487 TCTTGTAACTTCCGATACTATATTGCG 59.194 37.037 0.00 0.00 0.00 4.85
2065 4515 7.360575 AGAAATTCCGTACACATACTTCAAC 57.639 36.000 0.00 0.00 0.00 3.18
2115 4571 6.967767 GCGCGATATATGTAGTGACTTATTCT 59.032 38.462 12.10 0.00 30.67 2.40
2118 4574 6.127980 ACAGCGCGATATATGTAGTGACTTAT 60.128 38.462 12.10 0.00 32.33 1.73
2137 4593 3.532542 ACTATTTCCTTTCCTACAGCGC 58.467 45.455 0.00 0.00 0.00 5.92
2168 4667 2.120232 CAGCAATAAGACGTCTAGCCG 58.880 52.381 20.39 9.48 0.00 5.52
2176 4675 6.473397 ACTTTTCTTCTCAGCAATAAGACG 57.527 37.500 0.00 0.00 0.00 4.18
2245 4834 9.121517 CTTGTGAAGCTACAATGATAAACAAAG 57.878 33.333 2.59 0.00 39.60 2.77
2289 4878 6.212791 GCATCCTACTTGGGTATATACCTTCA 59.787 42.308 27.24 16.97 45.72 3.02
2644 5244 0.678048 CTAAGCAGGCCACCACCTTC 60.678 60.000 5.01 0.00 38.26 3.46
2737 5347 7.345132 TCAATCATGGGATAATTCAACCACAAT 59.655 33.333 0.00 0.00 35.52 2.71
2787 5400 7.118680 CAGCAAGCAAAAATCAATTAGTCCATT 59.881 33.333 0.00 0.00 0.00 3.16
2832 5673 0.961019 GCAACACAAGGAATCAGCCA 59.039 50.000 0.00 0.00 0.00 4.75
2835 5676 1.068055 GCCAGCAACACAAGGAATCAG 60.068 52.381 0.00 0.00 0.00 2.90
2836 5677 0.961019 GCCAGCAACACAAGGAATCA 59.039 50.000 0.00 0.00 0.00 2.57
2837 5678 1.068055 CAGCCAGCAACACAAGGAATC 60.068 52.381 0.00 0.00 0.00 2.52
2839 5680 1.737355 GCAGCCAGCAACACAAGGAA 61.737 55.000 0.00 0.00 44.79 3.36
2840 5681 2.195567 GCAGCCAGCAACACAAGGA 61.196 57.895 0.00 0.00 44.79 3.36
2850 5691 1.375098 GATCACCTGAAGCAGCCAGC 61.375 60.000 0.00 0.00 46.19 4.85
2851 5692 0.252479 AGATCACCTGAAGCAGCCAG 59.748 55.000 0.00 0.00 0.00 4.85
2852 5693 0.035725 CAGATCACCTGAAGCAGCCA 60.036 55.000 0.00 0.00 45.78 4.75
2853 5694 2.777969 CAGATCACCTGAAGCAGCC 58.222 57.895 0.00 0.00 45.78 4.85
2913 6000 6.587990 CGCGATAGAAATAACCAAGATCAGAT 59.412 38.462 0.00 0.00 39.76 2.90
2921 6008 4.062293 CCATCCGCGATAGAAATAACCAA 58.938 43.478 8.23 0.00 39.76 3.67
2929 6019 1.116308 TGGTTCCATCCGCGATAGAA 58.884 50.000 8.23 1.76 39.76 2.10
2951 6042 9.507329 GGCATCATCTCCAAACTAAATAGATTA 57.493 33.333 0.00 0.00 0.00 1.75
2952 6043 7.173907 CGGCATCATCTCCAAACTAAATAGATT 59.826 37.037 0.00 0.00 0.00 2.40
2953 6044 6.652481 CGGCATCATCTCCAAACTAAATAGAT 59.348 38.462 0.00 0.00 0.00 1.98
2954 6045 5.991606 CGGCATCATCTCCAAACTAAATAGA 59.008 40.000 0.00 0.00 0.00 1.98
2955 6046 5.991606 TCGGCATCATCTCCAAACTAAATAG 59.008 40.000 0.00 0.00 0.00 1.73
2959 6050 3.904800 TCGGCATCATCTCCAAACTAA 57.095 42.857 0.00 0.00 0.00 2.24
2962 6053 6.801539 TTATTATCGGCATCATCTCCAAAC 57.198 37.500 0.00 0.00 0.00 2.93
2988 6080 4.578871 TCAACGATGTCTTGAATCCACAT 58.421 39.130 0.00 0.00 33.32 3.21
3035 6127 9.685828 GGCAGATTAAGACGATATTAGGATATC 57.314 37.037 0.00 0.00 40.41 1.63
3037 6129 8.824756 AGGCAGATTAAGACGATATTAGGATA 57.175 34.615 0.00 0.00 0.00 2.59
3120 6219 9.809096 CACACACATAGATAGTAAGATTCAGTT 57.191 33.333 0.00 0.00 0.00 3.16
3130 6229 7.696992 TTCTCACACACACACATAGATAGTA 57.303 36.000 0.00 0.00 0.00 1.82
3139 6238 6.238621 GGTGAATTAATTCTCACACACACACA 60.239 38.462 24.77 2.21 43.11 3.72
3147 6246 5.009631 CCCACAGGTGAATTAATTCTCACA 58.990 41.667 24.77 6.49 43.11 3.58
3166 6789 0.180406 ACAGACTGTGTCAACCCCAC 59.820 55.000 7.47 0.00 31.90 4.61
3171 6820 2.817901 ACGGTAACAGACTGTGTCAAC 58.182 47.619 9.33 5.59 46.44 3.18
3203 6867 2.947652 GCATGCCAATACATCACAGAGT 59.052 45.455 6.36 0.00 0.00 3.24
3235 6899 2.093500 TGAGATGGATCACGAAAGGGTG 60.093 50.000 0.00 0.00 39.29 4.61
3236 6900 2.187958 TGAGATGGATCACGAAAGGGT 58.812 47.619 0.00 0.00 34.73 4.34
3237 6901 2.988010 TGAGATGGATCACGAAAGGG 57.012 50.000 0.00 0.00 0.00 3.95
3253 6918 8.483218 CGCTATGAACAAGACTACATAAATGAG 58.517 37.037 0.00 0.00 0.00 2.90
3336 7198 2.103537 TGTCAGATCACAGCACATGG 57.896 50.000 0.00 0.00 0.00 3.66
3347 7209 7.766278 ACATAGACCTAACATTGTTGTCAGATC 59.234 37.037 17.40 4.11 34.06 2.75
3381 7254 4.099419 AGACACGTGCATATATCCAGAACA 59.901 41.667 17.22 0.00 0.00 3.18
3468 7348 6.505044 TGCATGCTGCTCCATATTTAATAG 57.495 37.500 20.33 0.00 45.31 1.73
3469 7349 6.264970 TGTTGCATGCTGCTCCATATTTAATA 59.735 34.615 20.33 0.00 45.31 0.98
3470 7350 5.069383 TGTTGCATGCTGCTCCATATTTAAT 59.931 36.000 20.33 0.00 45.31 1.40
3489 7369 5.351189 GGATTCAATAATTGGTTGGTGTTGC 59.649 40.000 5.81 0.00 0.00 4.17
3493 7373 8.477256 ACTAATGGATTCAATAATTGGTTGGTG 58.523 33.333 5.81 0.00 0.00 4.17
3494 7374 8.608185 ACTAATGGATTCAATAATTGGTTGGT 57.392 30.769 5.81 0.00 0.00 3.67
3609 7538 2.246327 AGGTTCTTGTTTCTTCCCCCAA 59.754 45.455 0.00 0.00 0.00 4.12


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

AutoCloner maintained by Alex Coulton.