Multiple sequence alignment - TraesCS3D01G448200

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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 TraesCS3D01G448200 chr3D 100.000 3662 0 0 1 3662 556845448 556849109 0.000000e+00 6763.0
1 TraesCS3D01G448200 chr3D 87.138 552 60 9 915 1456 556610744 556611294 1.870000e-172 616.0
2 TraesCS3D01G448200 chr3D 83.120 468 35 18 193 617 578409844 578410310 1.590000e-103 387.0
3 TraesCS3D01G448200 chr3D 83.333 420 63 2 1636 2048 556611553 556611972 7.420000e-102 381.0
4 TraesCS3D01G448200 chr3D 78.119 489 73 21 976 1444 556043663 556044137 2.780000e-71 279.0
5 TraesCS3D01G448200 chr3D 75.510 490 84 23 346 799 67539475 67539964 1.330000e-49 207.0
6 TraesCS3D01G448200 chr3D 84.286 210 23 6 982 1183 557640987 557641194 2.880000e-46 196.0
7 TraesCS3D01G448200 chr3D 79.775 267 51 3 1642 1907 557247325 557247589 1.340000e-44 191.0
8 TraesCS3D01G448200 chr3D 70.865 1040 244 37 1645 2657 556568979 556569986 1.740000e-43 187.0
9 TraesCS3D01G448200 chr3D 80.402 199 35 4 2473 2669 557646177 557646373 8.190000e-32 148.0
10 TraesCS3D01G448200 chr3D 77.228 202 43 3 2463 2663 557267961 557267762 8.310000e-22 115.0
11 TraesCS3D01G448200 chr3B 91.930 1933 99 17 806 2710 739223342 739225245 0.000000e+00 2652.0
12 TraesCS3D01G448200 chr3B 88.874 728 64 11 2948 3662 739228779 739229502 0.000000e+00 880.0
13 TraesCS3D01G448200 chr3B 72.404 1040 227 40 1645 2657 739214372 739215378 3.600000e-70 276.0
14 TraesCS3D01G448200 chr3B 76.824 466 70 26 355 790 72158754 72158297 1.020000e-55 228.0
15 TraesCS3D01G448200 chr3B 90.361 166 13 2 2793 2955 739225281 739225446 7.960000e-52 215.0
16 TraesCS3D01G448200 chr3B 76.471 425 75 17 1037 1444 739546457 739546873 1.330000e-49 207.0
17 TraesCS3D01G448200 chr3B 90.541 148 14 0 1036 1183 739213643 739213790 2.880000e-46 196.0
18 TraesCS3D01G448200 chr4B 82.360 839 67 23 10 790 134967585 134968400 0.000000e+00 654.0
19 TraesCS3D01G448200 chr4B 86.179 123 17 0 2506 2628 172537568 172537446 2.290000e-27 134.0
20 TraesCS3D01G448200 chr7A 91.406 384 24 5 10 392 139196917 139196542 5.420000e-143 518.0
21 TraesCS3D01G448200 chr7A 90.104 384 29 3 10 392 607579537 607579912 1.180000e-134 490.0
22 TraesCS3D01G448200 chr7A 82.543 464 40 15 232 654 608417875 608417412 1.610000e-98 370.0
23 TraesCS3D01G448200 chr7A 94.253 174 10 0 617 790 607579919 607580092 2.170000e-67 267.0
24 TraesCS3D01G448200 chr7A 92.529 174 13 0 617 790 139196535 139196362 2.180000e-62 250.0
25 TraesCS3D01G448200 chr3A 75.540 973 188 29 1651 2607 692986766 692987704 2.020000e-117 433.0
26 TraesCS3D01G448200 chr3A 78.230 418 79 6 1036 1444 692986106 692986520 1.300000e-64 257.0
27 TraesCS3D01G448200 chr2B 81.754 570 57 17 137 659 359281076 359281645 2.020000e-117 433.0
28 TraesCS3D01G448200 chr7D 82.042 568 45 15 193 705 635810772 635811337 7.260000e-117 431.0
29 TraesCS3D01G448200 chr7D 88.571 70 7 1 134 203 635810744 635810812 2.340000e-12 84.2
30 TraesCS3D01G448200 chr4A 81.404 570 58 20 137 659 675004701 675005269 4.370000e-114 422.0
31 TraesCS3D01G448200 chr5A 82.759 464 36 16 232 654 143010963 143011423 1.240000e-99 374.0
32 TraesCS3D01G448200 chr2A 82.553 470 37 17 232 659 31118088 31117622 4.470000e-99 372.0
33 TraesCS3D01G448200 chr6A 81.529 471 41 20 232 659 20740289 20739822 2.710000e-91 346.0
34 TraesCS3D01G448200 chr1D 78.803 401 50 20 3277 3662 423759887 423760267 1.700000e-58 237.0
35 TraesCS3D01G448200 chr1D 85.366 205 22 2 413 609 402743490 402743694 4.790000e-49 206.0
36 TraesCS3D01G448200 chr2D 75.918 490 82 20 346 799 312052739 312053228 6.160000e-53 219.0
37 TraesCS3D01G448200 chr2D 82.514 183 26 6 189 369 73283198 73283020 4.900000e-34 156.0
38 TraesCS3D01G448200 chr2D 85.915 142 12 4 657 790 224362364 224362505 1.060000e-30 145.0
39 TraesCS3D01G448200 chr2D 85.211 142 13 5 657 790 73282445 73282304 4.930000e-29 139.0
40 TraesCS3D01G448200 chr2D 83.621 116 17 2 224 338 224361654 224361768 1.390000e-19 108.0
41 TraesCS3D01G448200 chr6D 75.714 490 82 21 346 799 454297698 454297210 1.030000e-50 211.0
42 TraesCS3D01G448200 chr4D 84.483 116 16 2 689 802 436911619 436911504 2.990000e-21 113.0
43 TraesCS3D01G448200 chr5D 85.484 62 3 4 2998 3057 138485440 138485383 3.950000e-05 60.2


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 TraesCS3D01G448200 chr3D 556845448 556849109 3661 False 6763.0 6763 100.000000 1 3662 1 chr3D.!!$F4 3661
1 TraesCS3D01G448200 chr3D 556610744 556611972 1228 False 498.5 616 85.235500 915 2048 2 chr3D.!!$F9 1133
2 TraesCS3D01G448200 chr3B 739223342 739229502 6160 False 1249.0 2652 90.388333 806 3662 3 chr3B.!!$F3 2856
3 TraesCS3D01G448200 chr3B 739213643 739215378 1735 False 236.0 276 81.472500 1036 2657 2 chr3B.!!$F2 1621
4 TraesCS3D01G448200 chr4B 134967585 134968400 815 False 654.0 654 82.360000 10 790 1 chr4B.!!$F1 780
5 TraesCS3D01G448200 chr7A 139196362 139196917 555 True 384.0 518 91.967500 10 790 2 chr7A.!!$R2 780
6 TraesCS3D01G448200 chr7A 607579537 607580092 555 False 378.5 490 92.178500 10 790 2 chr7A.!!$F1 780
7 TraesCS3D01G448200 chr3A 692986106 692987704 1598 False 345.0 433 76.885000 1036 2607 2 chr3A.!!$F1 1571
8 TraesCS3D01G448200 chr2B 359281076 359281645 569 False 433.0 433 81.754000 137 659 1 chr2B.!!$F1 522
9 TraesCS3D01G448200 chr7D 635810744 635811337 593 False 257.6 431 85.306500 134 705 2 chr7D.!!$F1 571
10 TraesCS3D01G448200 chr4A 675004701 675005269 568 False 422.0 422 81.404000 137 659 1 chr4A.!!$F1 522

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
371 398 0.780637 TGGAGTGAGGAGAGGAGTGT 59.219 55.0 0.00 0.00 0.00 3.55 F
790 852 1.215655 CGCACGGGCATTCTACTAGC 61.216 60.0 11.77 0.00 41.24 3.42 F
2208 2587 0.246635 AGCTCAATGGACGCGTACTT 59.753 50.0 24.23 14.34 0.00 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1199 1285 0.248539 GTACGTGAGATCGGTGAGGC 60.249 60.0 0.00 0.0 34.94 4.70 R
2418 2806 0.179189 GCGTGTTAACCATCAGCAGC 60.179 55.0 2.48 0.0 0.00 5.25 R
3257 6998 0.039911 ACTCTAGCTGGTCCCGAAGT 59.960 55.0 0.00 0.0 0.00 3.01 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
200 201 1.306568 GGCTGAGAGAGAAGGGGGT 60.307 63.158 0.00 0.00 0.00 4.95
205 206 1.916206 GAGAGAGAAGGGGGTTGGCC 61.916 65.000 0.00 0.00 0.00 5.36
280 281 1.991230 CGTGGAGGGGAGGTTGATT 59.009 57.895 0.00 0.00 0.00 2.57
352 353 1.000896 GGTGGTTGGCTGGCTATGT 60.001 57.895 2.00 0.00 0.00 2.29
371 398 0.780637 TGGAGTGAGGAGAGGAGTGT 59.219 55.000 0.00 0.00 0.00 3.55
420 458 3.920231 AAGGAGCAGCTGACATCAATA 57.080 42.857 20.43 0.00 0.00 1.90
758 820 3.367630 GCAACCGGCAAAAATACATTCAG 59.632 43.478 0.00 0.00 43.97 3.02
790 852 1.215655 CGCACGGGCATTCTACTAGC 61.216 60.000 11.77 0.00 41.24 3.42
822 884 5.661056 ATTTCAGTCCGACTTCTACATGA 57.339 39.130 0.00 0.00 0.00 3.07
823 885 4.436242 TTCAGTCCGACTTCTACATGAC 57.564 45.455 0.00 0.00 0.00 3.06
824 886 3.418047 TCAGTCCGACTTCTACATGACA 58.582 45.455 0.00 0.00 0.00 3.58
839 901 7.216494 TCTACATGACACATTGAGTTTCAGAA 58.784 34.615 0.00 0.00 40.04 3.02
891 953 5.308825 TCAGAGATTGACCTGGAAAAGAAC 58.691 41.667 0.00 0.00 0.00 3.01
894 956 6.264067 CAGAGATTGACCTGGAAAAGAACTTT 59.736 38.462 0.00 0.00 0.00 2.66
931 1010 5.684550 AAAGATACGTGTTTGGAAAGACC 57.315 39.130 0.00 0.00 39.54 3.85
952 1031 4.248058 CCACGTCGGTTATTATATTCCCC 58.752 47.826 0.00 0.00 0.00 4.81
1492 1605 4.759205 GGCCTGCCGTTTCCCCAT 62.759 66.667 0.00 0.00 0.00 4.00
1496 1609 0.884704 CCTGCCGTTTCCCCATATCG 60.885 60.000 0.00 0.00 0.00 2.92
1500 1613 1.589803 CCGTTTCCCCATATCGGAAC 58.410 55.000 0.98 0.00 43.22 3.62
1501 1614 1.589803 CGTTTCCCCATATCGGAACC 58.410 55.000 0.98 0.00 39.13 3.62
1503 1616 2.294979 GTTTCCCCATATCGGAACCAC 58.705 52.381 0.98 0.00 39.13 4.16
1575 1878 0.806102 CGGACGCCAACGATGAAGAT 60.806 55.000 0.00 0.00 43.93 2.40
1583 1886 1.935873 CAACGATGAAGATGATGCCGT 59.064 47.619 0.00 0.00 0.00 5.68
1764 2122 2.493030 CTTACCCACGTCCGCGAT 59.507 61.111 8.23 0.00 42.00 4.58
1794 2152 1.588403 CGTGCAGAGGCTCATCTCG 60.588 63.158 18.26 15.14 41.91 4.04
1988 2346 0.594284 GATAACTCGTTCCTCGCCGG 60.594 60.000 0.00 0.00 39.67 6.13
2023 2387 1.361668 CTTTCCAGCCATCACGTCGG 61.362 60.000 0.00 0.00 0.00 4.79
2058 2422 1.667830 CGCTGCCTTTCCTGACGAA 60.668 57.895 0.00 0.00 0.00 3.85
2059 2423 1.869690 GCTGCCTTTCCTGACGAAC 59.130 57.895 0.00 0.00 0.00 3.95
2085 2461 0.318762 ACCTCGTCAAGCTCAGTTCC 59.681 55.000 0.00 0.00 0.00 3.62
2103 2479 1.134220 TCCTTCCTGCAGTTGTTCGTT 60.134 47.619 13.81 0.00 0.00 3.85
2163 2542 0.396811 CCTGTTTCGTGAACCTCCCT 59.603 55.000 2.83 0.00 37.45 4.20
2180 2559 1.216710 CTGAGTTCCCGAGCCTCAC 59.783 63.158 0.00 0.00 32.16 3.51
2193 2572 2.716017 CCTCACCCACCTCGAGCTC 61.716 68.421 6.99 2.73 0.00 4.09
2208 2587 0.246635 AGCTCAATGGACGCGTACTT 59.753 50.000 24.23 14.34 0.00 2.24
2212 2591 2.930040 CTCAATGGACGCGTACTTCAAT 59.070 45.455 24.23 4.36 0.00 2.57
2214 2593 2.380084 ATGGACGCGTACTTCAATGT 57.620 45.000 24.23 0.00 0.00 2.71
2229 2608 0.744414 AATGTGACGATCCCGCCTTG 60.744 55.000 0.00 0.00 39.95 3.61
2258 2640 0.792640 GTGACGTGCACAATCCTCAG 59.207 55.000 18.64 0.00 46.91 3.35
2329 2714 0.894141 AGATCAAGAGTCGCAGCAGT 59.106 50.000 0.00 0.00 0.00 4.40
2418 2806 1.640428 ACGACACCATTGACTATGCG 58.360 50.000 0.00 0.00 32.60 4.73
2419 2807 0.301687 CGACACCATTGACTATGCGC 59.698 55.000 0.00 0.00 32.60 6.09
2420 2808 1.656652 GACACCATTGACTATGCGCT 58.343 50.000 9.73 0.00 32.60 5.92
2580 2968 1.322538 ATTGTGGATTTGCGGAGGGC 61.323 55.000 0.00 0.00 43.96 5.19
2710 3102 6.005583 ACTGCAACACAAATTCTAGTGATG 57.994 37.500 11.24 10.50 40.27 3.07
2711 3103 5.764686 ACTGCAACACAAATTCTAGTGATGA 59.235 36.000 15.31 5.01 39.87 2.92
2713 3105 7.040201 ACTGCAACACAAATTCTAGTGATGATT 60.040 33.333 15.31 0.00 39.87 2.57
2714 3106 8.334263 TGCAACACAAATTCTAGTGATGATTA 57.666 30.769 15.31 3.69 39.87 1.75
2725 3117 7.704578 TCTAGTGATGATTATAGGTGTAGCC 57.295 40.000 0.00 0.00 37.58 3.93
2726 3118 7.238710 TCTAGTGATGATTATAGGTGTAGCCA 58.761 38.462 0.00 0.00 40.61 4.75
2727 3119 6.352016 AGTGATGATTATAGGTGTAGCCAG 57.648 41.667 0.00 0.00 40.61 4.85
2728 3120 6.077993 AGTGATGATTATAGGTGTAGCCAGA 58.922 40.000 0.00 0.00 40.61 3.86
2729 3121 6.210385 AGTGATGATTATAGGTGTAGCCAGAG 59.790 42.308 0.00 0.00 40.61 3.35
2730 3122 6.015010 GTGATGATTATAGGTGTAGCCAGAGT 60.015 42.308 0.00 0.00 40.61 3.24
2731 3123 7.176865 GTGATGATTATAGGTGTAGCCAGAGTA 59.823 40.741 0.00 0.00 40.61 2.59
2732 3124 7.728532 TGATGATTATAGGTGTAGCCAGAGTAA 59.271 37.037 0.00 0.00 40.61 2.24
2733 3125 8.671987 ATGATTATAGGTGTAGCCAGAGTAAT 57.328 34.615 0.00 0.00 40.61 1.89
2734 3126 8.492415 TGATTATAGGTGTAGCCAGAGTAATT 57.508 34.615 0.00 0.00 40.61 1.40
2735 3127 8.934697 TGATTATAGGTGTAGCCAGAGTAATTT 58.065 33.333 0.00 0.00 40.61 1.82
2736 3128 9.425577 GATTATAGGTGTAGCCAGAGTAATTTC 57.574 37.037 0.00 0.00 40.61 2.17
2737 3129 6.808321 ATAGGTGTAGCCAGAGTAATTTCA 57.192 37.500 0.00 0.00 40.61 2.69
2738 3130 5.700402 AGGTGTAGCCAGAGTAATTTCAT 57.300 39.130 0.00 0.00 40.61 2.57
2739 3131 6.067217 AGGTGTAGCCAGAGTAATTTCATT 57.933 37.500 0.00 0.00 40.61 2.57
2740 3132 6.485171 AGGTGTAGCCAGAGTAATTTCATTT 58.515 36.000 0.00 0.00 40.61 2.32
2741 3133 6.375455 AGGTGTAGCCAGAGTAATTTCATTTG 59.625 38.462 0.00 0.00 40.61 2.32
2742 3134 6.404734 GGTGTAGCCAGAGTAATTTCATTTGG 60.405 42.308 0.00 0.00 37.17 3.28
2764 3156 5.526846 TGGAAAACATTGCATTCTTGTTTCC 59.473 36.000 14.17 14.64 41.39 3.13
2765 3157 5.049474 GGAAAACATTGCATTCTTGTTTCCC 60.049 40.000 14.17 9.84 41.39 3.97
2766 3158 4.961438 AACATTGCATTCTTGTTTCCCT 57.039 36.364 0.00 0.00 29.60 4.20
2767 3159 6.418057 AAACATTGCATTCTTGTTTCCCTA 57.582 33.333 10.15 0.00 38.79 3.53
2768 3160 5.391312 ACATTGCATTCTTGTTTCCCTAC 57.609 39.130 0.00 0.00 0.00 3.18
2769 3161 4.832266 ACATTGCATTCTTGTTTCCCTACA 59.168 37.500 0.00 0.00 0.00 2.74
2770 3162 5.304101 ACATTGCATTCTTGTTTCCCTACAA 59.696 36.000 0.00 0.00 36.63 2.41
2780 3172 4.501071 TGTTTCCCTACAAGATTCTACGC 58.499 43.478 0.00 0.00 0.00 4.42
2781 3173 4.020928 TGTTTCCCTACAAGATTCTACGCA 60.021 41.667 0.00 0.00 0.00 5.24
2782 3174 5.116882 GTTTCCCTACAAGATTCTACGCAT 58.883 41.667 0.00 0.00 0.00 4.73
2783 3175 4.322080 TCCCTACAAGATTCTACGCATG 57.678 45.455 0.00 0.00 0.00 4.06
2784 3176 2.802816 CCCTACAAGATTCTACGCATGC 59.197 50.000 7.91 7.91 0.00 4.06
2785 3177 3.457234 CCTACAAGATTCTACGCATGCA 58.543 45.455 19.57 0.00 0.00 3.96
2786 3178 3.871006 CCTACAAGATTCTACGCATGCAA 59.129 43.478 19.57 4.38 0.00 4.08
2787 3179 4.332543 CCTACAAGATTCTACGCATGCAAA 59.667 41.667 19.57 6.39 0.00 3.68
2788 3180 4.764679 ACAAGATTCTACGCATGCAAAA 57.235 36.364 19.57 6.01 0.00 2.44
2789 3181 4.726416 ACAAGATTCTACGCATGCAAAAG 58.274 39.130 19.57 11.32 0.00 2.27
2790 3182 4.455533 ACAAGATTCTACGCATGCAAAAGA 59.544 37.500 19.57 13.53 0.00 2.52
2791 3183 5.124457 ACAAGATTCTACGCATGCAAAAGAT 59.876 36.000 19.57 5.53 0.00 2.40
2818 3210 4.457834 AACTGTACAGAGTATCAGTGCC 57.542 45.455 29.30 0.00 36.45 5.01
2822 3214 4.566004 TGTACAGAGTATCAGTGCCAAAC 58.434 43.478 0.00 0.00 36.45 2.93
2832 3224 2.846206 TCAGTGCCAAACCTCCTCATAT 59.154 45.455 0.00 0.00 0.00 1.78
2836 3228 5.471456 CAGTGCCAAACCTCCTCATATAATC 59.529 44.000 0.00 0.00 0.00 1.75
2878 3270 9.722184 TTGATTTCTTGCATCCATATTTCAAAA 57.278 25.926 0.00 0.00 0.00 2.44
2933 3325 8.956533 ATTTGTGCAAACATAAGTTAAAGGTT 57.043 26.923 0.00 0.00 36.84 3.50
2943 3338 8.756486 ACATAAGTTAAAGGTTGTGGTAAAGT 57.244 30.769 0.00 0.00 0.00 2.66
2949 3344 7.283807 AGTTAAAGGTTGTGGTAAAGTGGTAAG 59.716 37.037 0.00 0.00 0.00 2.34
2958 6693 9.629878 TTGTGGTAAAGTGGTAAGAAAAATAGA 57.370 29.630 0.00 0.00 0.00 1.98
2983 6718 2.230508 TGTAGTTCCAGTACTTCCTGCG 59.769 50.000 0.00 0.00 0.00 5.18
2992 6727 3.372206 CAGTACTTCCTGCGATTCCAAAG 59.628 47.826 0.00 0.00 0.00 2.77
2995 6730 3.335579 ACTTCCTGCGATTCCAAAGTAC 58.664 45.455 0.00 0.00 0.00 2.73
2996 6731 3.244422 ACTTCCTGCGATTCCAAAGTACA 60.244 43.478 0.00 0.00 0.00 2.90
2997 6732 3.410631 TCCTGCGATTCCAAAGTACAA 57.589 42.857 0.00 0.00 0.00 2.41
2998 6733 3.745799 TCCTGCGATTCCAAAGTACAAA 58.254 40.909 0.00 0.00 0.00 2.83
2999 6734 3.500680 TCCTGCGATTCCAAAGTACAAAC 59.499 43.478 0.00 0.00 0.00 2.93
3000 6735 3.502211 CCTGCGATTCCAAAGTACAAACT 59.498 43.478 0.00 0.00 37.65 2.66
3001 6736 4.378459 CCTGCGATTCCAAAGTACAAACTC 60.378 45.833 0.00 0.00 33.75 3.01
3002 6737 4.385825 TGCGATTCCAAAGTACAAACTCT 58.614 39.130 0.00 0.00 33.75 3.24
3003 6738 4.213270 TGCGATTCCAAAGTACAAACTCTG 59.787 41.667 0.00 0.00 33.75 3.35
3004 6739 4.213482 GCGATTCCAAAGTACAAACTCTGT 59.787 41.667 0.00 0.00 42.47 3.41
3005 6740 5.407387 GCGATTCCAAAGTACAAACTCTGTA 59.593 40.000 0.00 0.00 39.64 2.74
3043 6784 7.755582 AAAGCTACGCCAATTAATTTTGATC 57.244 32.000 0.00 0.00 0.00 2.92
3064 6805 3.508793 TCGGAGGGAGTACTACAAGTTTG 59.491 47.826 7.57 0.00 0.00 2.93
3174 6915 8.745464 TTTGTTACTTGTGAAGTTTTTGGTAC 57.255 30.769 0.00 0.00 42.81 3.34
3177 6918 5.576447 ACTTGTGAAGTTTTTGGTACTGG 57.424 39.130 0.00 0.00 39.04 4.00
3200 6941 5.107182 GGCATGACAGACGATGAATAGATTG 60.107 44.000 0.00 0.00 0.00 2.67
3204 6945 8.771766 CATGACAGACGATGAATAGATTGAAAT 58.228 33.333 0.00 0.00 0.00 2.17
3205 6946 9.987272 ATGACAGACGATGAATAGATTGAAATA 57.013 29.630 0.00 0.00 0.00 1.40
3206 6947 9.816354 TGACAGACGATGAATAGATTGAAATAA 57.184 29.630 0.00 0.00 0.00 1.40
3245 6986 8.877864 AGTCCAATTAAATTATGAACCTGTGA 57.122 30.769 0.00 0.00 0.00 3.58
3257 6998 5.434182 TGAACCTGTGATGATGGTTATGA 57.566 39.130 0.00 0.00 43.28 2.15
3270 7011 1.653151 GTTATGACTTCGGGACCAGC 58.347 55.000 0.00 0.00 0.00 4.85
3277 7018 1.187087 CTTCGGGACCAGCTAGAGTT 58.813 55.000 0.00 0.00 0.00 3.01
3287 7028 2.600731 CAGCTAGAGTTCAGTTGACCG 58.399 52.381 0.00 0.00 0.00 4.79
3297 7038 5.961272 AGTTCAGTTGACCGAAAACAAAAT 58.039 33.333 0.00 0.00 0.00 1.82
3344 7085 3.667497 TGTTTCAGTCGATCTGCTTCT 57.333 42.857 9.34 0.00 43.32 2.85
3349 7090 1.925847 CAGTCGATCTGCTTCTTGCTC 59.074 52.381 0.00 0.00 43.37 4.26
3375 7116 1.404391 GCCGTGCTAGTACTTAGAGCA 59.596 52.381 13.61 13.61 43.74 4.26
3420 7162 2.700897 GAGCTTGGCCCATCTAACTAGA 59.299 50.000 0.00 0.00 36.65 2.43
3421 7163 2.436173 AGCTTGGCCCATCTAACTAGAC 59.564 50.000 0.00 0.00 34.72 2.59
3423 7165 3.742640 GCTTGGCCCATCTAACTAGACTG 60.743 52.174 0.00 0.00 34.72 3.51
3430 7172 3.119101 CCATCTAACTAGACTGTTGGCGT 60.119 47.826 0.00 0.00 34.72 5.68
3472 7214 7.715657 TCATCCAAATATCCATTTTGTACTGC 58.284 34.615 0.00 0.00 31.82 4.40
3478 7220 8.649841 CAAATATCCATTTTGTACTGCAACAAG 58.350 33.333 4.28 0.00 40.29 3.16
3492 7234 4.210832 GCAACAAGCGAAAAACTACTCT 57.789 40.909 0.00 0.00 0.00 3.24
3494 7236 4.527564 CAACAAGCGAAAAACTACTCTGG 58.472 43.478 0.00 0.00 0.00 3.86
3495 7237 2.548480 ACAAGCGAAAAACTACTCTGGC 59.452 45.455 0.00 0.00 0.00 4.85
3519 7261 7.148086 GGCTCACATAAAACTCATATTCCACAA 60.148 37.037 0.00 0.00 0.00 3.33
3561 7303 4.078639 AGACTGTAGCTTGCTGAAAAGT 57.921 40.909 5.26 3.64 0.00 2.66
3564 7306 6.234177 AGACTGTAGCTTGCTGAAAAGTTAT 58.766 36.000 5.26 0.00 0.00 1.89
3638 7384 7.163682 GGATAAAGAAAACTATAAGCGCAAACG 59.836 37.037 11.47 0.00 44.07 3.60
3641 7387 5.992729 AGAAAACTATAAGCGCAAACGAAA 58.007 33.333 11.47 0.00 43.93 3.46
3646 7392 8.730970 AAACTATAAGCGCAAACGAAAAATAA 57.269 26.923 11.47 0.00 43.93 1.40
3649 7395 9.991388 ACTATAAGCGCAAACGAAAAATAATAA 57.009 25.926 11.47 0.00 43.93 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.596749 ACATGTCGAAGTCCTTTAGTAAATG 57.403 36.000 0.00 0.00 0.00 2.32
1 2 7.360946 GCAACATGTCGAAGTCCTTTAGTAAAT 60.361 37.037 0.00 0.00 0.00 1.40
2 3 6.073440 GCAACATGTCGAAGTCCTTTAGTAAA 60.073 38.462 0.00 0.00 0.00 2.01
3 4 5.407387 GCAACATGTCGAAGTCCTTTAGTAA 59.593 40.000 0.00 0.00 0.00 2.24
4 5 4.927425 GCAACATGTCGAAGTCCTTTAGTA 59.073 41.667 0.00 0.00 0.00 1.82
5 6 3.746492 GCAACATGTCGAAGTCCTTTAGT 59.254 43.478 0.00 0.00 0.00 2.24
6 7 3.997021 AGCAACATGTCGAAGTCCTTTAG 59.003 43.478 0.00 0.00 0.00 1.85
7 8 4.002906 AGCAACATGTCGAAGTCCTTTA 57.997 40.909 0.00 0.00 0.00 1.85
8 9 2.851195 AGCAACATGTCGAAGTCCTTT 58.149 42.857 0.00 0.00 0.00 3.11
113 114 6.678245 CGCTGTGTTCAAAACTTCAAAATTTC 59.322 34.615 0.00 0.00 0.00 2.17
114 115 6.367422 TCGCTGTGTTCAAAACTTCAAAATTT 59.633 30.769 0.00 0.00 0.00 1.82
115 116 5.866633 TCGCTGTGTTCAAAACTTCAAAATT 59.133 32.000 0.00 0.00 0.00 1.82
116 117 5.288472 GTCGCTGTGTTCAAAACTTCAAAAT 59.712 36.000 0.00 0.00 0.00 1.82
117 118 4.619336 GTCGCTGTGTTCAAAACTTCAAAA 59.381 37.500 0.00 0.00 0.00 2.44
118 119 4.162812 GTCGCTGTGTTCAAAACTTCAAA 58.837 39.130 0.00 0.00 0.00 2.69
119 120 3.726486 CGTCGCTGTGTTCAAAACTTCAA 60.726 43.478 0.00 0.00 0.00 2.69
120 121 2.222931 CGTCGCTGTGTTCAAAACTTCA 60.223 45.455 0.00 0.00 0.00 3.02
124 125 1.253044 CGCGTCGCTGTGTTCAAAAC 61.253 55.000 16.36 0.00 0.00 2.43
205 206 0.251209 CCCCTCTCATCCATGGCATG 60.251 60.000 20.56 20.56 0.00 4.06
280 281 2.761195 CGTCGACGCCATCTCTCCA 61.761 63.158 26.59 0.00 0.00 3.86
352 353 0.780637 ACACTCCTCTCCTCACTCCA 59.219 55.000 0.00 0.00 0.00 3.86
371 398 6.487331 TCTTTTATTGACGGGTAAAAAGCAGA 59.513 34.615 0.00 0.00 37.17 4.26
420 458 8.798859 AAAAATGACTTGCTAGACTATGTGAT 57.201 30.769 1.04 0.00 0.00 3.06
613 662 5.342525 CGATGTGTACACAAAGAGTAGTGAC 59.657 44.000 31.01 10.34 45.41 3.67
684 746 5.903810 TGCATGCATAAAAATGATAGCACA 58.096 33.333 18.46 0.00 34.54 4.57
790 852 8.082242 AGAAGTCGGACTGAAATTTTATTTTGG 58.918 33.333 12.12 0.00 0.00 3.28
793 855 9.280174 TGTAGAAGTCGGACTGAAATTTTATTT 57.720 29.630 12.12 0.00 0.00 1.40
794 856 8.842358 TGTAGAAGTCGGACTGAAATTTTATT 57.158 30.769 12.12 0.00 0.00 1.40
795 857 8.883731 CATGTAGAAGTCGGACTGAAATTTTAT 58.116 33.333 12.12 0.00 0.00 1.40
796 858 8.092068 TCATGTAGAAGTCGGACTGAAATTTTA 58.908 33.333 12.12 0.00 0.00 1.52
797 859 6.934645 TCATGTAGAAGTCGGACTGAAATTTT 59.065 34.615 12.12 0.00 0.00 1.82
798 860 6.369065 GTCATGTAGAAGTCGGACTGAAATTT 59.631 38.462 12.12 0.00 0.00 1.82
799 861 5.869888 GTCATGTAGAAGTCGGACTGAAATT 59.130 40.000 12.12 0.00 0.00 1.82
800 862 5.047306 TGTCATGTAGAAGTCGGACTGAAAT 60.047 40.000 12.12 0.00 0.00 2.17
801 863 4.279922 TGTCATGTAGAAGTCGGACTGAAA 59.720 41.667 12.12 0.00 0.00 2.69
802 864 3.824443 TGTCATGTAGAAGTCGGACTGAA 59.176 43.478 12.12 0.00 0.00 3.02
803 865 3.190744 GTGTCATGTAGAAGTCGGACTGA 59.809 47.826 12.12 0.52 0.00 3.41
804 866 3.057526 TGTGTCATGTAGAAGTCGGACTG 60.058 47.826 12.12 0.00 0.00 3.51
808 870 4.494484 TCAATGTGTCATGTAGAAGTCGG 58.506 43.478 0.00 0.00 0.00 4.79
822 884 4.083643 CGCATCTTCTGAAACTCAATGTGT 60.084 41.667 0.00 0.00 0.00 3.72
823 885 4.083643 ACGCATCTTCTGAAACTCAATGTG 60.084 41.667 0.00 0.00 31.38 3.21
824 886 4.067896 ACGCATCTTCTGAAACTCAATGT 58.932 39.130 0.00 0.00 0.00 2.71
839 901 1.680735 TGTTTTTGCAGGAACGCATCT 59.319 42.857 8.98 0.00 42.62 2.90
931 1010 3.922240 CGGGGAATATAATAACCGACGTG 59.078 47.826 0.00 0.00 43.69 4.49
1063 1143 0.033228 GAGAGGATGTGGCCGATCAG 59.967 60.000 14.76 0.00 0.00 2.90
1199 1285 0.248539 GTACGTGAGATCGGTGAGGC 60.249 60.000 0.00 0.00 34.94 4.70
1476 1580 1.152756 ATATGGGGAAACGGCAGGC 60.153 57.895 0.00 0.00 0.00 4.85
1487 1600 1.597027 GCGTGGTTCCGATATGGGG 60.597 63.158 3.67 0.00 38.76 4.96
1513 1626 0.611714 TCCAAGTTAAGAGGCGTCCC 59.388 55.000 2.06 0.00 0.00 4.46
1514 1627 1.675116 GGTCCAAGTTAAGAGGCGTCC 60.675 57.143 2.06 0.00 0.00 4.79
1517 1630 0.392595 GGGGTCCAAGTTAAGAGGCG 60.393 60.000 0.00 0.00 0.00 5.52
1523 1636 1.205417 GATCGACGGGGTCCAAGTTAA 59.795 52.381 0.00 0.00 0.00 2.01
1560 1673 1.333524 GCATCATCTTCATCGTTGGCG 60.334 52.381 0.00 0.00 39.92 5.69
1575 1878 0.312102 CATCGCTAGAGACGGCATCA 59.688 55.000 0.00 0.00 0.00 3.07
1583 1886 1.533299 GCATCTCGTCATCGCTAGAGA 59.467 52.381 0.00 0.00 42.93 3.10
1764 2122 2.917227 TGCACGTGCTCCTCCTCA 60.917 61.111 37.59 15.28 42.66 3.86
1890 2248 1.594293 CAGGTTGTCGCAGAACCGT 60.594 57.895 8.74 0.00 46.49 4.83
1925 2283 0.948141 GGATAGGAGCTGTGATGCGC 60.948 60.000 0.00 0.00 38.13 6.09
2023 2387 1.146358 GCGTAGGTGTCGATCTTGCC 61.146 60.000 0.00 0.00 0.00 4.52
2058 2422 1.977544 CTTGACGAGGTCCTCCGGT 60.978 63.158 13.54 6.22 39.05 5.28
2059 2423 2.885861 CTTGACGAGGTCCTCCGG 59.114 66.667 13.54 0.00 39.05 5.14
2085 2461 1.597937 GCAACGAACAACTGCAGGAAG 60.598 52.381 19.93 9.68 36.09 3.46
2103 2479 2.361757 CAAGTGGAGATGTTTTGTGGCA 59.638 45.455 0.00 0.00 0.00 4.92
2163 2542 2.283529 GGTGAGGCTCGGGAACTCA 61.284 63.158 10.42 6.08 38.80 3.41
2180 2559 1.153289 CCATTGAGCTCGAGGTGGG 60.153 63.158 23.97 13.68 0.00 4.61
2193 2572 2.415168 ACATTGAAGTACGCGTCCATTG 59.585 45.455 18.63 17.21 0.00 2.82
2208 2587 1.153449 GGCGGGATCGTCACATTGA 60.153 57.895 0.00 0.00 41.24 2.57
2212 2591 2.264480 CAAGGCGGGATCGTCACA 59.736 61.111 0.00 0.00 44.51 3.58
2214 2593 4.467084 GCCAAGGCGGGATCGTCA 62.467 66.667 0.00 0.00 44.51 4.35
2245 2627 0.321919 GCCTGACTGAGGATTGTGCA 60.322 55.000 0.00 0.00 46.33 4.57
2375 2763 0.601558 GTCGTAGTGGAGAAGGTGCA 59.398 55.000 0.00 0.00 0.00 4.57
2418 2806 0.179189 GCGTGTTAACCATCAGCAGC 60.179 55.000 2.48 0.00 0.00 5.25
2419 2807 0.447801 GGCGTGTTAACCATCAGCAG 59.552 55.000 2.48 0.00 0.00 4.24
2420 2808 1.295357 CGGCGTGTTAACCATCAGCA 61.295 55.000 2.48 0.00 0.00 4.41
2580 2968 0.533755 GCATCTGAATCCACTCCGGG 60.534 60.000 0.00 0.00 34.36 5.73
2617 3005 2.022195 CTCATTGATCACCCAGCCTTG 58.978 52.381 0.00 0.00 0.00 3.61
2703 3095 7.238710 TCTGGCTACACCTATAATCATCACTA 58.761 38.462 0.00 0.00 40.22 2.74
2710 3102 9.425577 GAAATTACTCTGGCTACACCTATAATC 57.574 37.037 0.00 0.00 40.22 1.75
2711 3103 8.934697 TGAAATTACTCTGGCTACACCTATAAT 58.065 33.333 0.00 0.00 40.22 1.28
2713 3105 7.907841 TGAAATTACTCTGGCTACACCTATA 57.092 36.000 0.00 0.00 40.22 1.31
2714 3106 6.808321 TGAAATTACTCTGGCTACACCTAT 57.192 37.500 0.00 0.00 40.22 2.57
2717 3109 6.404734 CCAAATGAAATTACTCTGGCTACACC 60.405 42.308 0.00 0.00 33.67 4.16
2718 3110 6.374333 TCCAAATGAAATTACTCTGGCTACAC 59.626 38.462 0.00 0.00 33.67 2.90
2719 3111 6.480763 TCCAAATGAAATTACTCTGGCTACA 58.519 36.000 0.00 0.00 33.67 2.74
2720 3112 7.391148 TTCCAAATGAAATTACTCTGGCTAC 57.609 36.000 0.00 0.00 33.67 3.58
2721 3113 8.303876 GTTTTCCAAATGAAATTACTCTGGCTA 58.696 33.333 0.00 0.00 42.38 3.93
2722 3114 6.916360 TTTCCAAATGAAATTACTCTGGCT 57.084 33.333 0.00 0.00 38.04 4.75
2723 3115 6.928492 TGTTTTCCAAATGAAATTACTCTGGC 59.072 34.615 0.00 0.00 42.38 4.85
2724 3116 9.492973 AATGTTTTCCAAATGAAATTACTCTGG 57.507 29.630 0.00 0.00 42.38 3.86
2726 3118 8.992073 GCAATGTTTTCCAAATGAAATTACTCT 58.008 29.630 0.00 0.00 42.38 3.24
2727 3119 8.772705 TGCAATGTTTTCCAAATGAAATTACTC 58.227 29.630 0.00 0.00 42.38 2.59
2728 3120 8.674263 TGCAATGTTTTCCAAATGAAATTACT 57.326 26.923 0.00 0.00 42.38 2.24
2729 3121 9.896263 AATGCAATGTTTTCCAAATGAAATTAC 57.104 25.926 0.00 0.00 42.38 1.89
2731 3123 8.852135 AGAATGCAATGTTTTCCAAATGAAATT 58.148 25.926 0.00 0.00 42.38 1.82
2732 3124 8.398878 AGAATGCAATGTTTTCCAAATGAAAT 57.601 26.923 0.00 0.00 42.38 2.17
2733 3125 7.804843 AGAATGCAATGTTTTCCAAATGAAA 57.195 28.000 0.00 0.00 41.18 2.69
2734 3126 7.282675 ACAAGAATGCAATGTTTTCCAAATGAA 59.717 29.630 0.00 0.00 0.00 2.57
2735 3127 6.766944 ACAAGAATGCAATGTTTTCCAAATGA 59.233 30.769 0.00 0.00 0.00 2.57
2736 3128 6.961576 ACAAGAATGCAATGTTTTCCAAATG 58.038 32.000 0.00 0.00 0.00 2.32
2737 3129 7.571080 AACAAGAATGCAATGTTTTCCAAAT 57.429 28.000 0.00 0.00 33.73 2.32
2738 3130 6.998968 AACAAGAATGCAATGTTTTCCAAA 57.001 29.167 0.00 0.00 33.73 3.28
2739 3131 6.038050 GGAAACAAGAATGCAATGTTTTCCAA 59.962 34.615 18.23 0.00 44.72 3.53
2740 3132 5.526846 GGAAACAAGAATGCAATGTTTTCCA 59.473 36.000 18.23 0.00 44.72 3.53
2741 3133 5.989249 GGAAACAAGAATGCAATGTTTTCC 58.011 37.500 18.23 14.42 44.72 3.13
2742 3134 5.759763 AGGGAAACAAGAATGCAATGTTTTC 59.240 36.000 18.23 16.78 44.72 2.29
2764 3156 3.457234 TGCATGCGTAGAATCTTGTAGG 58.543 45.455 14.09 0.00 0.00 3.18
2765 3157 5.469373 TTTGCATGCGTAGAATCTTGTAG 57.531 39.130 14.09 0.00 0.00 2.74
2766 3158 5.641636 TCTTTTGCATGCGTAGAATCTTGTA 59.358 36.000 14.09 0.00 0.00 2.41
2767 3159 4.455533 TCTTTTGCATGCGTAGAATCTTGT 59.544 37.500 14.09 0.00 0.00 3.16
2768 3160 4.973396 TCTTTTGCATGCGTAGAATCTTG 58.027 39.130 14.09 0.00 0.00 3.02
2769 3161 5.824904 ATCTTTTGCATGCGTAGAATCTT 57.175 34.783 14.09 0.00 0.00 2.40
2770 3162 5.824904 AATCTTTTGCATGCGTAGAATCT 57.175 34.783 14.09 2.52 0.00 2.40
2771 3163 7.969387 TTAAATCTTTTGCATGCGTAGAATC 57.031 32.000 14.09 0.00 0.00 2.52
2773 3165 9.284594 GTTATTAAATCTTTTGCATGCGTAGAA 57.715 29.630 14.09 0.00 0.00 2.10
2774 3166 8.673711 AGTTATTAAATCTTTTGCATGCGTAGA 58.326 29.630 14.09 15.03 0.00 2.59
2775 3167 8.736742 CAGTTATTAAATCTTTTGCATGCGTAG 58.263 33.333 14.09 10.01 0.00 3.51
2776 3168 8.240682 ACAGTTATTAAATCTTTTGCATGCGTA 58.759 29.630 14.09 0.00 0.00 4.42
2777 3169 7.090173 ACAGTTATTAAATCTTTTGCATGCGT 58.910 30.769 14.09 0.00 0.00 5.24
2778 3170 7.510428 ACAGTTATTAAATCTTTTGCATGCG 57.490 32.000 14.09 0.00 0.00 4.73
2779 3171 9.352784 TGTACAGTTATTAAATCTTTTGCATGC 57.647 29.630 11.82 11.82 0.00 4.06
2791 3183 9.582431 GCACTGATACTCTGTACAGTTATTAAA 57.418 33.333 21.99 0.38 40.84 1.52
2818 3210 7.275183 TGTCACAGATTATATGAGGAGGTTTG 58.725 38.462 0.00 0.00 0.00 2.93
2822 3214 6.907853 TCTGTCACAGATTATATGAGGAGG 57.092 41.667 2.36 0.00 35.39 4.30
2836 3228 9.770503 CAAGAAATCAAAGATTATCTGTCACAG 57.229 33.333 0.00 0.00 0.00 3.66
2856 3248 7.879160 AGCTTTTTGAAATATGGATGCAAGAAA 59.121 29.630 0.00 0.00 0.00 2.52
2878 3270 5.716703 ACCAAAGTAAATAATCCTGCAGCTT 59.283 36.000 8.66 6.60 0.00 3.74
2880 3272 5.582689 ACCAAAGTAAATAATCCTGCAGC 57.417 39.130 8.66 0.00 0.00 5.25
2895 3287 6.836953 GTTTGCACAAATTACAAACCAAAGT 58.163 32.000 6.58 0.00 44.60 2.66
2926 3318 6.897986 TCTTACCACTTTACCACAACCTTTA 58.102 36.000 0.00 0.00 0.00 1.85
2933 3325 9.280174 CTCTATTTTTCTTACCACTTTACCACA 57.720 33.333 0.00 0.00 0.00 4.17
2958 6693 5.337652 GCAGGAAGTACTGGAACTACAATCT 60.338 44.000 0.00 0.00 38.90 2.40
2966 6701 2.674796 ATCGCAGGAAGTACTGGAAC 57.325 50.000 0.00 0.00 38.90 3.62
2970 6705 2.672961 TGGAATCGCAGGAAGTACTG 57.327 50.000 0.00 0.00 41.41 2.74
2976 6711 3.410631 TGTACTTTGGAATCGCAGGAA 57.589 42.857 0.00 0.00 0.00 3.36
2997 6732 9.473640 GCTTTACTACAACTTTAGTACAGAGTT 57.526 33.333 7.39 0.00 35.60 3.01
2998 6733 8.858094 AGCTTTACTACAACTTTAGTACAGAGT 58.142 33.333 7.39 0.00 35.60 3.24
3028 6769 5.594317 ACTCCCTCCGATCAAAATTAATTGG 59.406 40.000 0.39 0.00 0.00 3.16
3039 6780 3.053842 ACTTGTAGTACTCCCTCCGATCA 60.054 47.826 0.00 0.00 0.00 2.92
3043 6784 3.368116 CCAAACTTGTAGTACTCCCTCCG 60.368 52.174 0.00 0.00 0.00 4.63
3074 6815 8.199449 CCTTTCTTTGCAATAATATGGATGTGT 58.801 33.333 0.00 0.00 0.00 3.72
3087 6828 4.516323 ACACTTTTGCCTTTCTTTGCAAT 58.484 34.783 0.00 0.00 45.96 3.56
3090 6831 4.932146 TCTACACTTTTGCCTTTCTTTGC 58.068 39.130 0.00 0.00 0.00 3.68
3093 6834 6.775594 ACTTTCTACACTTTTGCCTTTCTT 57.224 33.333 0.00 0.00 0.00 2.52
3103 6844 7.573968 ATTGAGCAGAAACTTTCTACACTTT 57.426 32.000 3.64 0.00 38.11 2.66
3174 6915 2.014335 TTCATCGTCTGTCATGCCAG 57.986 50.000 0.00 0.00 0.00 4.85
3177 6918 5.693555 TCAATCTATTCATCGTCTGTCATGC 59.306 40.000 0.00 0.00 0.00 4.06
3232 6973 7.498900 GTCATAACCATCATCACAGGTTCATAA 59.501 37.037 0.00 0.00 44.09 1.90
3245 6986 3.181454 GGTCCCGAAGTCATAACCATCAT 60.181 47.826 0.00 0.00 0.00 2.45
3257 6998 0.039911 ACTCTAGCTGGTCCCGAAGT 59.960 55.000 0.00 0.00 0.00 3.01
3270 7011 5.047847 TGTTTTCGGTCAACTGAACTCTAG 58.952 41.667 3.91 0.00 40.64 2.43
3277 7018 6.975772 CCTAAATTTTGTTTTCGGTCAACTGA 59.024 34.615 0.00 0.00 0.00 3.41
3287 7028 7.376072 CAGTCGACTGACCTAAATTTTGTTTTC 59.624 37.037 36.73 0.00 46.74 2.29
3304 7045 6.727824 AACAAATTTAGGATCAGTCGACTG 57.272 37.500 34.76 34.76 45.08 3.51
3344 7085 2.212652 CTAGCACGGCATTATGAGCAA 58.787 47.619 0.00 0.00 0.00 3.91
3349 7090 5.769367 TCTAAGTACTAGCACGGCATTATG 58.231 41.667 0.00 0.00 0.00 1.90
3375 7116 1.546476 TGTTGGTTGTTTTCACGGCTT 59.454 42.857 0.00 0.00 0.00 4.35
3376 7117 1.178276 TGTTGGTTGTTTTCACGGCT 58.822 45.000 0.00 0.00 0.00 5.52
3436 7178 5.942826 GGATATTTGGATGAGAGATGGGTTC 59.057 44.000 0.00 0.00 0.00 3.62
3437 7179 5.373555 TGGATATTTGGATGAGAGATGGGTT 59.626 40.000 0.00 0.00 0.00 4.11
3472 7214 4.527564 CCAGAGTAGTTTTTCGCTTGTTG 58.472 43.478 0.00 0.00 0.00 3.33
3478 7220 2.157863 GTGAGCCAGAGTAGTTTTTCGC 59.842 50.000 0.00 0.00 0.00 4.70
3492 7234 6.318648 GTGGAATATGAGTTTTATGTGAGCCA 59.681 38.462 0.00 0.00 0.00 4.75
3494 7236 7.320443 TGTGGAATATGAGTTTTATGTGAGC 57.680 36.000 0.00 0.00 0.00 4.26
3495 7237 8.729756 TGTTGTGGAATATGAGTTTTATGTGAG 58.270 33.333 0.00 0.00 0.00 3.51
3561 7303 6.093495 CCCTTTTCAGAAGCGTACATTCATAA 59.907 38.462 9.72 2.24 0.00 1.90
3564 7306 3.751175 CCCTTTTCAGAAGCGTACATTCA 59.249 43.478 9.72 0.00 0.00 2.57
3598 7340 9.922305 GTTTTCTTTATCCTCTACATTCATTCG 57.078 33.333 0.00 0.00 0.00 3.34
3606 7348 9.745880 CGCTTATAGTTTTCTTTATCCTCTACA 57.254 33.333 0.00 0.00 0.00 2.74
3608 7350 8.418662 TGCGCTTATAGTTTTCTTTATCCTCTA 58.581 33.333 9.73 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.