Multiple sequence alignment - TraesCS5B01G300300

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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 TraesCS5B01G300300 chr5B 100.000 2978 0 0 1 2978 485153212 485156189 0.000000e+00 5500.0
1 TraesCS5B01G300300 chr5B 88.757 169 19 0 2787 2955 308536994 308536826 1.080000e-49 207.0
2 TraesCS5B01G300300 chr5D 92.463 2481 93 34 218 2651 403416250 403413817 0.000000e+00 3459.0
3 TraesCS5B01G300300 chr5D 87.692 195 18 3 2787 2978 469088088 469087897 3.860000e-54 222.0
4 TraesCS5B01G300300 chr5D 84.722 144 13 3 2651 2786 125486176 125486034 5.180000e-28 135.0
5 TraesCS5B01G300300 chr5D 83.333 144 15 3 2651 2786 299956520 299956378 1.120000e-24 124.0
6 TraesCS5B01G300300 chr5A 93.630 1664 67 20 762 2402 510078941 510077294 0.000000e+00 2449.0
7 TraesCS5B01G300300 chr5A 87.067 433 36 9 3 417 510081245 510080815 3.470000e-129 472.0
8 TraesCS5B01G300300 chr5A 89.552 268 11 5 470 737 510079397 510079147 1.030000e-84 324.0
9 TraesCS5B01G300300 chr5A 92.442 172 12 1 2430 2601 510077292 510077122 8.250000e-61 244.0
10 TraesCS5B01G300300 chr5A 100.000 31 0 0 431 461 510079421 510079391 1.150000e-04 58.4
11 TraesCS5B01G300300 chr7A 91.146 192 17 0 2787 2978 734546254 734546063 8.190000e-66 261.0
12 TraesCS5B01G300300 chr7A 79.870 154 19 6 2647 2790 20846802 20846651 5.250000e-18 102.0
13 TraesCS5B01G300300 chr2D 91.146 192 17 0 2787 2978 605406760 605406569 8.190000e-66 261.0
14 TraesCS5B01G300300 chr2D 88.083 193 19 2 2787 2978 134489490 134489301 2.990000e-55 226.0
15 TraesCS5B01G300300 chr2D 75.482 363 44 24 2655 2978 378089513 378089157 5.180000e-28 135.0
16 TraesCS5B01G300300 chr4D 91.099 191 17 0 2788 2978 329296994 329296804 2.940000e-65 259.0
17 TraesCS5B01G300300 chr4D 83.784 148 14 4 2647 2786 34458055 34457910 6.700000e-27 132.0
18 TraesCS5B01G300300 chr3D 87.374 198 19 3 2787 2978 453219504 453219307 3.860000e-54 222.0
19 TraesCS5B01G300300 chr7D 88.953 172 17 1 2787 2956 116432029 116431858 8.360000e-51 211.0
20 TraesCS5B01G300300 chr7D 91.525 59 4 1 2728 2786 604337546 604337489 2.460000e-11 80.5
21 TraesCS5B01G300300 chr1D 84.456 193 19 7 2789 2975 408968045 408968232 2.360000e-41 180.0
22 TraesCS5B01G300300 chr1D 84.247 146 14 4 2649 2786 351522892 351522748 1.860000e-27 134.0
23 TraesCS5B01G300300 chr6D 81.944 144 15 6 2651 2786 302632395 302632535 8.730000e-21 111.0
24 TraesCS5B01G300300 chr4B 85.938 64 7 2 2728 2790 179871663 179871601 1.920000e-07 67.6


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 TraesCS5B01G300300 chr5B 485153212 485156189 2977 False 5500.00 5500 100.0000 1 2978 1 chr5B.!!$F1 2977
1 TraesCS5B01G300300 chr5D 403413817 403416250 2433 True 3459.00 3459 92.4630 218 2651 1 chr5D.!!$R3 2433
2 TraesCS5B01G300300 chr5A 510077122 510081245 4123 True 709.48 2449 92.5382 3 2601 5 chr5A.!!$R1 2598

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
325 341 0.185175 AAAAACTCTCCCAAGGCGGT 59.815 50.0 0.00 0.0 0.0 5.68 F
987 2594 0.450983 GGTCTCGAATTCGTCCGTCT 59.549 55.0 25.93 0.0 40.8 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1224 2841 0.531311 TCTGCGTGCAGATGCCTATG 60.531 55.0 19.99 0.0 46.80 2.23 R
2752 4393 0.106149 AACACCTTGAGGACGACACC 59.894 55.0 3.59 0.0 38.94 4.16 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
55 56 5.923204 AGGCTAAATCATGACTCTAGGTTG 58.077 41.667 0.00 0.00 0.00 3.77
59 60 6.238320 GCTAAATCATGACTCTAGGTTGCTTG 60.238 42.308 0.00 0.00 0.00 4.01
81 82 0.405973 AACCAAAGGCCTTCCTCCTC 59.594 55.000 20.79 0.00 43.40 3.71
83 84 0.322906 CCAAAGGCCTTCCTCCTCAC 60.323 60.000 20.79 0.00 43.40 3.51
118 119 2.069273 CCTTGTTAGAAGCACTGGACG 58.931 52.381 0.00 0.00 0.00 4.79
124 125 2.086054 AGAAGCACTGGACGATGAAC 57.914 50.000 0.00 0.00 0.00 3.18
140 141 4.201980 CGATGAACGGATACTCCTACACAA 60.202 45.833 0.00 0.00 38.46 3.33
157 158 4.521146 ACACAACCATGATCTTGATCTCC 58.479 43.478 10.07 0.00 0.00 3.71
162 163 5.447778 ACCATGATCTTGATCTCCTTTGT 57.552 39.130 10.07 0.00 0.00 2.83
165 166 4.808414 TGATCTTGATCTCCTTTGTCGT 57.192 40.909 11.31 0.00 0.00 4.34
209 210 2.268076 GCAATGAAGCCCCACACGT 61.268 57.895 0.00 0.00 0.00 4.49
325 341 0.185175 AAAAACTCTCCCAAGGCGGT 59.815 50.000 0.00 0.00 0.00 5.68
341 360 0.518355 CGGTGCGTATTTTGACAGCG 60.518 55.000 0.00 0.00 45.76 5.18
346 365 2.096466 TGCGTATTTTGACAGCGAACAG 60.096 45.455 0.00 0.00 0.00 3.16
417 436 0.750850 TCCGATTCTTTCGCCCTAGG 59.249 55.000 0.06 0.06 46.71 3.02
418 437 0.880718 CCGATTCTTTCGCCCTAGGC 60.881 60.000 2.05 0.00 46.71 3.93
427 446 4.966123 GCCCTAGGCTGACTTTCC 57.034 61.111 2.05 0.00 46.69 3.13
428 447 1.224870 GCCCTAGGCTGACTTTCCC 59.775 63.158 2.05 0.00 46.69 3.97
429 448 1.915983 CCCTAGGCTGACTTTCCCC 59.084 63.158 2.05 0.00 0.00 4.81
686 2105 1.456705 CCTCCTCCTTCCTCCCTCG 60.457 68.421 0.00 0.00 0.00 4.63
687 2106 1.456705 CTCCTCCTTCCTCCCTCGG 60.457 68.421 0.00 0.00 0.00 4.63
688 2107 2.231540 CTCCTCCTTCCTCCCTCGGT 62.232 65.000 0.00 0.00 0.00 4.69
689 2108 1.758906 CCTCCTTCCTCCCTCGGTC 60.759 68.421 0.00 0.00 0.00 4.79
690 2109 1.758906 CTCCTTCCTCCCTCGGTCC 60.759 68.421 0.00 0.00 0.00 4.46
691 2110 2.038975 CCTTCCTCCCTCGGTCCA 59.961 66.667 0.00 0.00 0.00 4.02
792 2394 0.532640 ACGAGCAGCACATGTCACAA 60.533 50.000 0.00 0.00 0.00 3.33
987 2594 0.450983 GGTCTCGAATTCGTCCGTCT 59.549 55.000 25.93 0.00 40.80 4.18
1107 2724 4.463879 CAGCTGCAGGGGGAGTCG 62.464 72.222 17.12 0.00 34.49 4.18
1353 2970 3.119101 GGCTCTACGACATCCTCAAGAAA 60.119 47.826 0.00 0.00 0.00 2.52
1767 3384 2.027897 CCCGTCGACGTGGTCAAA 59.972 61.111 33.49 0.00 37.74 2.69
1797 3414 3.039202 GAACATGAAGGTGGCGCCG 62.039 63.158 23.90 7.09 43.70 6.46
1938 3555 1.444553 CGTGCTCTTCGTCACCCTC 60.445 63.158 0.00 0.00 0.00 4.30
2041 3658 1.001293 TGATGACGACAAGAAGCTGCT 59.999 47.619 0.00 0.00 0.00 4.24
2079 3698 8.749026 TGCTGCTAAGAATAACTAGTAGTACT 57.251 34.615 8.14 8.14 0.00 2.73
2119 3738 3.011708 AGTTCCTGCCTCCCATTGTATTT 59.988 43.478 0.00 0.00 0.00 1.40
2131 3750 6.347696 TCCCATTGTATTTGGATGAATTTGC 58.652 36.000 0.00 0.00 36.26 3.68
2145 3764 6.019318 GGATGAATTTGCTCGATTTTGAATGG 60.019 38.462 0.00 0.00 0.00 3.16
2196 3815 8.632906 ATGAATGTCAACTTTGAGAATCTTCT 57.367 30.769 5.94 0.00 37.98 2.85
2266 3885 8.190784 ACTATTACTGGCATGCTTTCAATTAAC 58.809 33.333 18.92 0.00 0.00 2.01
2271 3894 5.953183 TGGCATGCTTTCAATTAACTACTG 58.047 37.500 18.92 0.00 0.00 2.74
2348 3980 2.716217 AGCTGGAGGATTGTTTAGCAC 58.284 47.619 0.00 0.00 33.81 4.40
2403 4044 7.336931 ACTTATTACAAAATACTCCACTGCTGG 59.663 37.037 0.00 0.00 39.23 4.85
2410 4051 2.970639 TCCACTGCTGGAGTACGC 59.029 61.111 0.18 0.00 42.15 4.42
2415 4056 0.321671 ACTGCTGGAGTACGCACAAT 59.678 50.000 0.00 0.00 30.86 2.71
2418 4059 0.391130 GCTGGAGTACGCACAATGGA 60.391 55.000 0.00 0.00 0.00 3.41
2425 4066 3.525537 AGTACGCACAATGGAAGATCTG 58.474 45.455 0.00 0.00 0.00 2.90
2428 4069 3.149196 ACGCACAATGGAAGATCTGTTT 58.851 40.909 0.00 0.00 0.00 2.83
2450 4091 5.242069 TCTCTCTCGATCAGCTTTAACAG 57.758 43.478 0.00 0.00 0.00 3.16
2467 4108 8.778358 GCTTTAACAGGGATATTCTTGATAGTG 58.222 37.037 0.00 0.00 0.00 2.74
2509 4150 0.765510 AAAAGAAGTCCTCCACGGCT 59.234 50.000 0.00 0.00 0.00 5.52
2591 4232 3.610040 ATTCATGCCAAGTAGACACGA 57.390 42.857 0.00 0.00 0.00 4.35
2595 4236 0.317160 TGCCAAGTAGACACGACAGG 59.683 55.000 0.00 0.00 0.00 4.00
2607 4248 2.049063 GACAGGCACGAGAACGCT 60.049 61.111 0.00 0.00 43.96 5.07
2615 4256 3.005897 AGGCACGAGAACGCTATTATCAT 59.994 43.478 0.00 0.00 43.96 2.45
2616 4257 3.365220 GGCACGAGAACGCTATTATCATC 59.635 47.826 0.00 0.00 43.96 2.92
2617 4258 3.365220 GCACGAGAACGCTATTATCATCC 59.635 47.826 0.00 0.00 43.96 3.51
2618 4259 3.604198 CACGAGAACGCTATTATCATCCG 59.396 47.826 0.00 0.00 43.96 4.18
2656 4297 3.965888 GGTTCCAACCTCAGAGCAT 57.034 52.632 0.83 0.00 45.75 3.79
2657 4298 1.743996 GGTTCCAACCTCAGAGCATC 58.256 55.000 0.83 0.00 45.75 3.91
2659 4300 2.679349 GGTTCCAACCTCAGAGCATCTC 60.679 54.545 0.83 0.00 45.28 2.75
2660 4301 5.807605 GGTTCCAACCTCAGAGCATCTCC 62.808 56.522 0.83 0.00 45.28 3.71
2669 4310 2.950877 GAGCATCTCCACTCGTTCG 58.049 57.895 0.00 0.00 0.00 3.95
2670 4311 0.526524 GAGCATCTCCACTCGTTCGG 60.527 60.000 0.00 0.00 0.00 4.30
2671 4312 1.215647 GCATCTCCACTCGTTCGGT 59.784 57.895 0.00 0.00 0.00 4.69
2672 4313 0.389948 GCATCTCCACTCGTTCGGTT 60.390 55.000 0.00 0.00 0.00 4.44
2673 4314 1.630148 CATCTCCACTCGTTCGGTTC 58.370 55.000 0.00 0.00 0.00 3.62
2674 4315 0.531200 ATCTCCACTCGTTCGGTTCC 59.469 55.000 0.00 0.00 0.00 3.62
2675 4316 0.538977 TCTCCACTCGTTCGGTTCCT 60.539 55.000 0.00 0.00 0.00 3.36
2676 4317 0.109226 CTCCACTCGTTCGGTTCCTC 60.109 60.000 0.00 0.00 0.00 3.71
2677 4318 0.824595 TCCACTCGTTCGGTTCCTCA 60.825 55.000 0.00 0.00 0.00 3.86
2678 4319 0.388649 CCACTCGTTCGGTTCCTCAG 60.389 60.000 0.00 0.00 0.00 3.35
2679 4320 1.009389 CACTCGTTCGGTTCCTCAGC 61.009 60.000 0.00 0.00 0.00 4.26
2681 4322 3.479269 CGTTCGGTTCCTCAGCGC 61.479 66.667 0.00 0.00 46.41 5.92
2682 4323 2.357034 GTTCGGTTCCTCAGCGCA 60.357 61.111 11.47 0.00 46.41 6.09
2683 4324 1.741770 GTTCGGTTCCTCAGCGCAT 60.742 57.895 11.47 0.00 46.41 4.73
2684 4325 0.459585 GTTCGGTTCCTCAGCGCATA 60.460 55.000 11.47 0.00 46.41 3.14
2685 4326 0.179111 TTCGGTTCCTCAGCGCATAG 60.179 55.000 11.47 6.04 46.41 2.23
2686 4327 1.592669 CGGTTCCTCAGCGCATAGG 60.593 63.158 19.14 19.14 40.06 2.57
2687 4328 1.889573 GGTTCCTCAGCGCATAGGC 60.890 63.158 20.10 9.42 32.55 3.93
2688 4329 1.889573 GTTCCTCAGCGCATAGGCC 60.890 63.158 20.10 11.09 36.38 5.19
2689 4330 3.445518 TTCCTCAGCGCATAGGCCG 62.446 63.158 20.10 1.24 36.38 6.13
2690 4331 4.976925 CCTCAGCGCATAGGCCGG 62.977 72.222 11.47 0.00 36.38 6.13
2697 4338 4.918201 GCATAGGCCGGCGCTCTT 62.918 66.667 22.54 7.35 34.44 2.85
2698 4339 2.203070 CATAGGCCGGCGCTCTTT 60.203 61.111 22.54 4.18 34.44 2.52
2699 4340 2.109181 ATAGGCCGGCGCTCTTTC 59.891 61.111 22.54 4.09 34.44 2.62
2700 4341 3.792053 ATAGGCCGGCGCTCTTTCG 62.792 63.158 22.54 0.73 34.44 3.46
2708 4349 4.183526 CGCTCTTTCGCACGCTCG 62.184 66.667 0.00 0.00 0.00 5.03
2709 4350 4.491328 GCTCTTTCGCACGCTCGC 62.491 66.667 0.00 0.00 0.00 5.03
2710 4351 3.843240 CTCTTTCGCACGCTCGCC 61.843 66.667 0.00 0.00 0.00 5.54
2725 4366 4.968032 GCCCGACGATTTTTAGCG 57.032 55.556 0.00 0.00 0.00 4.26
2726 4367 2.084013 GCCCGACGATTTTTAGCGT 58.916 52.632 0.00 0.00 44.33 5.07
2727 4368 0.247537 GCCCGACGATTTTTAGCGTG 60.248 55.000 0.00 0.00 41.34 5.34
2728 4369 1.352114 CCCGACGATTTTTAGCGTGA 58.648 50.000 0.00 0.00 41.34 4.35
2729 4370 1.931172 CCCGACGATTTTTAGCGTGAT 59.069 47.619 0.00 0.00 41.34 3.06
2730 4371 2.034001 CCCGACGATTTTTAGCGTGATC 60.034 50.000 0.00 0.00 41.34 2.92
2731 4372 2.858344 CCGACGATTTTTAGCGTGATCT 59.142 45.455 0.00 0.00 41.34 2.75
2732 4373 4.039703 CCGACGATTTTTAGCGTGATCTA 58.960 43.478 0.00 0.00 41.34 1.98
2733 4374 4.146616 CCGACGATTTTTAGCGTGATCTAG 59.853 45.833 0.00 0.00 41.34 2.43
2734 4375 4.146616 CGACGATTTTTAGCGTGATCTAGG 59.853 45.833 0.00 0.00 41.34 3.02
2735 4376 5.007385 ACGATTTTTAGCGTGATCTAGGT 57.993 39.130 0.00 0.00 39.56 3.08
2736 4377 5.041940 ACGATTTTTAGCGTGATCTAGGTC 58.958 41.667 0.00 0.00 39.56 3.85
2737 4378 4.444720 CGATTTTTAGCGTGATCTAGGTCC 59.555 45.833 0.00 0.00 0.00 4.46
2738 4379 3.814005 TTTTAGCGTGATCTAGGTCCC 57.186 47.619 0.00 0.00 0.00 4.46
2739 4380 2.447408 TTAGCGTGATCTAGGTCCCA 57.553 50.000 0.00 0.00 0.00 4.37
2740 4381 1.982660 TAGCGTGATCTAGGTCCCAG 58.017 55.000 0.00 0.00 0.00 4.45
2741 4382 1.068250 GCGTGATCTAGGTCCCAGC 59.932 63.158 0.00 0.00 0.00 4.85
2742 4383 1.742768 CGTGATCTAGGTCCCAGCC 59.257 63.158 0.00 0.00 0.00 4.85
2743 4384 1.043116 CGTGATCTAGGTCCCAGCCA 61.043 60.000 0.00 0.00 0.00 4.75
2744 4385 0.466124 GTGATCTAGGTCCCAGCCAC 59.534 60.000 0.00 0.00 0.00 5.01
2745 4386 1.043116 TGATCTAGGTCCCAGCCACG 61.043 60.000 0.00 0.00 0.00 4.94
2746 4387 2.370647 GATCTAGGTCCCAGCCACGC 62.371 65.000 0.00 0.00 0.00 5.34
2747 4388 4.162690 CTAGGTCCCAGCCACGCC 62.163 72.222 0.00 0.00 0.00 5.68
2763 4404 3.391382 CCCCCAGGTGTCGTCCTC 61.391 72.222 0.00 0.00 35.37 3.71
2764 4405 2.603473 CCCCAGGTGTCGTCCTCA 60.603 66.667 0.00 0.00 35.37 3.86
2765 4406 2.214216 CCCCAGGTGTCGTCCTCAA 61.214 63.158 0.00 0.00 35.37 3.02
2766 4407 1.293498 CCCAGGTGTCGTCCTCAAG 59.707 63.158 0.00 0.00 35.37 3.02
2767 4408 1.293498 CCAGGTGTCGTCCTCAAGG 59.707 63.158 0.00 0.00 35.37 3.61
2768 4409 1.472662 CCAGGTGTCGTCCTCAAGGT 61.473 60.000 0.00 0.00 35.37 3.50
2769 4410 0.319900 CAGGTGTCGTCCTCAAGGTG 60.320 60.000 0.00 0.00 35.37 4.00
2770 4411 0.759436 AGGTGTCGTCCTCAAGGTGT 60.759 55.000 0.00 0.00 36.34 4.16
2771 4412 0.106149 GGTGTCGTCCTCAAGGTGTT 59.894 55.000 0.00 0.00 36.34 3.32
2772 4413 1.499049 GTGTCGTCCTCAAGGTGTTC 58.501 55.000 0.00 0.00 36.34 3.18
2773 4414 1.116308 TGTCGTCCTCAAGGTGTTCA 58.884 50.000 0.00 0.00 36.34 3.18
2774 4415 1.202486 TGTCGTCCTCAAGGTGTTCAC 60.202 52.381 0.00 0.00 36.34 3.18
2775 4416 1.116308 TCGTCCTCAAGGTGTTCACA 58.884 50.000 5.32 0.00 36.34 3.58
2776 4417 1.483004 TCGTCCTCAAGGTGTTCACAA 59.517 47.619 5.32 0.00 36.34 3.33
2777 4418 2.093394 TCGTCCTCAAGGTGTTCACAAA 60.093 45.455 5.32 0.00 36.34 2.83
2778 4419 2.878406 CGTCCTCAAGGTGTTCACAAAT 59.122 45.455 5.32 0.00 36.34 2.32
2779 4420 3.315191 CGTCCTCAAGGTGTTCACAAATT 59.685 43.478 5.32 0.00 36.34 1.82
2780 4421 4.554723 CGTCCTCAAGGTGTTCACAAATTC 60.555 45.833 5.32 0.00 36.34 2.17
2781 4422 4.338118 GTCCTCAAGGTGTTCACAAATTCA 59.662 41.667 5.32 0.00 36.34 2.57
2782 4423 4.952957 TCCTCAAGGTGTTCACAAATTCAA 59.047 37.500 5.32 0.00 36.34 2.69
2783 4424 5.420421 TCCTCAAGGTGTTCACAAATTCAAA 59.580 36.000 5.32 0.00 36.34 2.69
2784 4425 5.519927 CCTCAAGGTGTTCACAAATTCAAAC 59.480 40.000 5.32 0.00 0.00 2.93
2785 4426 6.279513 TCAAGGTGTTCACAAATTCAAACT 57.720 33.333 5.32 0.00 0.00 2.66
2786 4427 6.098679 TCAAGGTGTTCACAAATTCAAACTG 58.901 36.000 5.32 0.00 0.00 3.16
2787 4428 5.659440 AGGTGTTCACAAATTCAAACTGT 57.341 34.783 5.32 0.00 0.00 3.55
2788 4429 6.036577 AGGTGTTCACAAATTCAAACTGTT 57.963 33.333 5.32 0.00 0.00 3.16
2789 4430 6.099341 AGGTGTTCACAAATTCAAACTGTTC 58.901 36.000 5.32 0.00 0.00 3.18
2790 4431 5.004345 GGTGTTCACAAATTCAAACTGTTCG 59.996 40.000 5.32 0.00 0.00 3.95
2791 4432 5.004345 GTGTTCACAAATTCAAACTGTTCGG 59.996 40.000 0.00 0.00 0.00 4.30
2792 4433 3.701241 TCACAAATTCAAACTGTTCGGC 58.299 40.909 0.00 0.00 0.00 5.54
2793 4434 2.467305 CACAAATTCAAACTGTTCGGCG 59.533 45.455 0.00 0.00 0.00 6.46
2794 4435 2.356382 ACAAATTCAAACTGTTCGGCGA 59.644 40.909 4.99 4.99 0.00 5.54
2795 4436 3.004315 ACAAATTCAAACTGTTCGGCGAT 59.996 39.130 11.76 0.00 0.00 4.58
2796 4437 3.471495 AATTCAAACTGTTCGGCGATC 57.529 42.857 11.76 11.26 0.00 3.69
2797 4438 1.872388 TTCAAACTGTTCGGCGATCA 58.128 45.000 18.55 18.55 0.00 2.92
2798 4439 2.093306 TCAAACTGTTCGGCGATCAT 57.907 45.000 19.74 4.80 0.00 2.45
2799 4440 1.999735 TCAAACTGTTCGGCGATCATC 59.000 47.619 19.74 7.83 0.00 2.92
2800 4441 2.002586 CAAACTGTTCGGCGATCATCT 58.997 47.619 19.74 8.32 0.00 2.90
2801 4442 2.386661 AACTGTTCGGCGATCATCTT 57.613 45.000 19.74 11.83 0.00 2.40
2802 4443 1.645034 ACTGTTCGGCGATCATCTTG 58.355 50.000 19.74 11.32 0.00 3.02
2803 4444 0.302890 CTGTTCGGCGATCATCTTGC 59.697 55.000 19.74 0.74 0.00 4.01
2809 4450 2.772739 GCGATCATCTTGCCACAGT 58.227 52.632 0.00 0.00 0.00 3.55
2810 4451 1.089920 GCGATCATCTTGCCACAGTT 58.910 50.000 0.00 0.00 0.00 3.16
2811 4452 1.063174 GCGATCATCTTGCCACAGTTC 59.937 52.381 0.00 0.00 0.00 3.01
2812 4453 1.325640 CGATCATCTTGCCACAGTTCG 59.674 52.381 0.00 0.00 0.00 3.95
2813 4454 1.667724 GATCATCTTGCCACAGTTCGG 59.332 52.381 0.00 0.00 0.00 4.30
2819 4460 4.980805 GCCACAGTTCGGCGGTCA 62.981 66.667 7.21 0.00 40.35 4.02
2820 4461 2.280524 CCACAGTTCGGCGGTCAA 60.281 61.111 7.21 0.00 0.00 3.18
2821 4462 1.890041 CCACAGTTCGGCGGTCAAA 60.890 57.895 7.21 0.00 0.00 2.69
2822 4463 1.234615 CCACAGTTCGGCGGTCAAAT 61.235 55.000 7.21 0.00 0.00 2.32
2823 4464 0.110238 CACAGTTCGGCGGTCAAATG 60.110 55.000 7.21 6.37 0.00 2.32
2824 4465 0.250124 ACAGTTCGGCGGTCAAATGA 60.250 50.000 13.01 0.00 0.00 2.57
2825 4466 0.871722 CAGTTCGGCGGTCAAATGAA 59.128 50.000 7.21 0.00 0.00 2.57
2826 4467 1.265635 CAGTTCGGCGGTCAAATGAAA 59.734 47.619 7.21 0.00 0.00 2.69
2827 4468 1.950909 AGTTCGGCGGTCAAATGAAAA 59.049 42.857 7.21 0.00 0.00 2.29
2828 4469 2.031157 AGTTCGGCGGTCAAATGAAAAG 60.031 45.455 7.21 0.00 0.00 2.27
2829 4470 1.600023 TCGGCGGTCAAATGAAAAGT 58.400 45.000 7.21 0.00 0.00 2.66
2830 4471 1.950909 TCGGCGGTCAAATGAAAAGTT 59.049 42.857 7.21 0.00 0.00 2.66
2831 4472 2.031508 TCGGCGGTCAAATGAAAAGTTC 60.032 45.455 7.21 0.00 0.00 3.01
2832 4473 2.315901 GGCGGTCAAATGAAAAGTTCG 58.684 47.619 0.00 0.00 0.00 3.95
2833 4474 2.315901 GCGGTCAAATGAAAAGTTCGG 58.684 47.619 0.00 0.00 0.00 4.30
2834 4475 2.315901 CGGTCAAATGAAAAGTTCGGC 58.684 47.619 0.00 0.00 0.00 5.54
2835 4476 2.315901 GGTCAAATGAAAAGTTCGGCG 58.684 47.619 0.00 0.00 0.00 6.46
2836 4477 2.287368 GGTCAAATGAAAAGTTCGGCGT 60.287 45.455 6.85 0.00 0.00 5.68
2837 4478 3.058777 GGTCAAATGAAAAGTTCGGCGTA 60.059 43.478 6.85 0.00 0.00 4.42
2838 4479 4.529446 GTCAAATGAAAAGTTCGGCGTAA 58.471 39.130 6.85 0.00 0.00 3.18
2839 4480 4.971220 GTCAAATGAAAAGTTCGGCGTAAA 59.029 37.500 6.85 0.00 0.00 2.01
2840 4481 5.456173 GTCAAATGAAAAGTTCGGCGTAAAA 59.544 36.000 6.85 0.00 0.00 1.52
2841 4482 6.020520 GTCAAATGAAAAGTTCGGCGTAAAAA 60.021 34.615 6.85 0.00 0.00 1.94
2859 4500 3.850122 AAAAAGAAAGGACGCATAGGC 57.150 42.857 0.00 0.00 0.00 3.93
2860 4501 2.489938 AAAGAAAGGACGCATAGGCA 57.510 45.000 0.00 0.00 41.24 4.75
2861 4502 2.489938 AAGAAAGGACGCATAGGCAA 57.510 45.000 0.00 0.00 41.24 4.52
2862 4503 2.717639 AGAAAGGACGCATAGGCAAT 57.282 45.000 0.00 0.00 41.24 3.56
2863 4504 2.292267 AGAAAGGACGCATAGGCAATG 58.708 47.619 0.00 0.00 41.24 2.82
2873 4514 2.734670 CATAGGCAATGCATCAAACGG 58.265 47.619 7.79 0.00 0.00 4.44
2874 4515 0.455410 TAGGCAATGCATCAAACGGC 59.545 50.000 7.79 0.00 0.00 5.68
2875 4516 2.160221 GGCAATGCATCAAACGGCG 61.160 57.895 7.79 4.80 0.00 6.46
2876 4517 2.160221 GCAATGCATCAAACGGCGG 61.160 57.895 13.24 0.00 0.00 6.13
2877 4518 1.212490 CAATGCATCAAACGGCGGT 59.788 52.632 13.24 0.00 0.00 5.68
2878 4519 1.072116 CAATGCATCAAACGGCGGTG 61.072 55.000 13.24 9.36 0.00 4.94
2879 4520 1.523154 AATGCATCAAACGGCGGTGT 61.523 50.000 13.24 0.00 0.00 4.16
2880 4521 1.922135 ATGCATCAAACGGCGGTGTC 61.922 55.000 13.24 4.09 0.00 3.67
2881 4522 2.474266 CATCAAACGGCGGTGTCG 59.526 61.111 13.24 0.00 36.42 4.35
2882 4523 2.740826 ATCAAACGGCGGTGTCGG 60.741 61.111 13.24 0.00 33.75 4.79
2902 4543 2.124403 TCCGGCGTAGGAGGAGAC 60.124 66.667 6.01 0.00 34.92 3.36
2903 4544 3.584052 CCGGCGTAGGAGGAGACG 61.584 72.222 6.01 0.00 41.97 4.18
2904 4545 3.584052 CGGCGTAGGAGGAGACGG 61.584 72.222 0.00 0.00 39.46 4.79
2906 4547 3.138798 GCGTAGGAGGAGACGGCA 61.139 66.667 0.00 0.00 39.46 5.69
2907 4548 2.491022 GCGTAGGAGGAGACGGCAT 61.491 63.158 0.00 0.00 39.46 4.40
2908 4549 1.360551 CGTAGGAGGAGACGGCATG 59.639 63.158 0.00 0.00 35.43 4.06
2909 4550 1.068250 GTAGGAGGAGACGGCATGC 59.932 63.158 9.90 9.90 0.00 4.06
2910 4551 2.490148 TAGGAGGAGACGGCATGCG 61.490 63.158 12.44 9.76 0.00 4.73
2948 4589 2.049802 CGGCTTTTGTGCTGCTGG 60.050 61.111 0.00 0.00 32.21 4.85
2949 4590 2.341176 GGCTTTTGTGCTGCTGGG 59.659 61.111 0.00 0.00 0.00 4.45
2950 4591 2.356673 GCTTTTGTGCTGCTGGGC 60.357 61.111 0.00 0.00 0.00 5.36
2951 4592 2.049802 CTTTTGTGCTGCTGGGCG 60.050 61.111 0.00 0.00 34.52 6.13
2952 4593 2.832661 TTTTGTGCTGCTGGGCGT 60.833 55.556 0.00 0.00 34.52 5.68
2953 4594 2.737932 CTTTTGTGCTGCTGGGCGTC 62.738 60.000 0.00 0.00 34.52 5.19
2965 4606 4.451150 GGCGTCGTGGAGGCATCA 62.451 66.667 11.74 0.00 44.00 3.07
2966 4607 2.202932 GCGTCGTGGAGGCATCAT 60.203 61.111 0.00 0.00 42.14 2.45
2967 4608 2.240500 GCGTCGTGGAGGCATCATC 61.241 63.158 0.00 0.00 42.14 2.92
2968 4609 1.141665 CGTCGTGGAGGCATCATCA 59.858 57.895 0.00 0.00 0.00 3.07
2969 4610 1.148157 CGTCGTGGAGGCATCATCAC 61.148 60.000 0.00 0.00 0.00 3.06
2970 4611 0.176680 GTCGTGGAGGCATCATCACT 59.823 55.000 0.00 0.00 0.00 3.41
2971 4612 0.461548 TCGTGGAGGCATCATCACTC 59.538 55.000 0.00 0.00 0.00 3.51
2972 4613 0.873312 CGTGGAGGCATCATCACTCG 60.873 60.000 0.00 0.00 32.11 4.18
2973 4614 0.531532 GTGGAGGCATCATCACTCGG 60.532 60.000 0.00 0.00 32.11 4.63
2974 4615 1.070445 GGAGGCATCATCACTCGGG 59.930 63.158 0.00 0.00 32.11 5.14
2975 4616 1.690219 GGAGGCATCATCACTCGGGT 61.690 60.000 0.00 0.00 32.11 5.28
2976 4617 0.179000 GAGGCATCATCACTCGGGTT 59.821 55.000 0.00 0.00 0.00 4.11
2977 4618 0.620556 AGGCATCATCACTCGGGTTT 59.379 50.000 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.378445 TCGCCACTCGAATCAATCAA 57.622 45.000 0.00 0.00 45.36 2.57
11 12 0.739561 AAGACGGTCTATCGCCACTC 59.260 55.000 11.71 0.00 0.00 3.51
29 30 7.676683 ACCTAGAGTCATGATTTAGCCTTAA 57.323 36.000 0.00 0.00 0.00 1.85
30 31 7.500992 CAACCTAGAGTCATGATTTAGCCTTA 58.499 38.462 0.00 0.00 0.00 2.69
32 33 5.686124 GCAACCTAGAGTCATGATTTAGCCT 60.686 44.000 0.00 0.00 0.00 4.58
55 56 0.752658 AAGGCCTTTGGTTGTCAAGC 59.247 50.000 13.78 7.84 36.62 4.01
59 60 3.439440 AGGAAGGCCTTTGGTTGTC 57.561 52.632 21.54 4.38 43.90 3.18
81 82 4.451900 ACAAGGTGGTTGAGTAAAGAGTG 58.548 43.478 0.00 0.00 38.60 3.51
83 84 6.522054 TCTAACAAGGTGGTTGAGTAAAGAG 58.478 40.000 0.00 0.00 38.60 2.85
126 127 6.412362 AGATCATGGTTGTGTAGGAGTATC 57.588 41.667 0.00 0.00 0.00 2.24
128 129 5.719563 TCAAGATCATGGTTGTGTAGGAGTA 59.280 40.000 0.00 0.00 0.00 2.59
129 130 4.532126 TCAAGATCATGGTTGTGTAGGAGT 59.468 41.667 0.00 0.00 0.00 3.85
140 141 5.435291 GACAAAGGAGATCAAGATCATGGT 58.565 41.667 12.21 0.00 40.22 3.55
165 166 0.537143 GTGCATTGTGTGGAGTCCCA 60.537 55.000 6.74 1.09 40.95 4.37
193 194 1.603455 CCACGTGTGGGGCTTCATT 60.603 57.895 15.65 0.00 46.81 2.57
268 283 2.245287 TGTTGGGGTGTCTAGGGTTTTT 59.755 45.455 0.00 0.00 0.00 1.94
323 339 0.793861 TCGCTGTCAAAATACGCACC 59.206 50.000 0.00 0.00 0.00 5.01
325 341 1.867865 TGTTCGCTGTCAAAATACGCA 59.132 42.857 0.00 0.00 0.00 5.24
417 436 0.405973 AGGAAAGGGGGAAAGTCAGC 59.594 55.000 0.00 0.00 0.00 4.26
418 437 2.555448 GGAAGGAAAGGGGGAAAGTCAG 60.555 54.545 0.00 0.00 0.00 3.51
419 438 1.427753 GGAAGGAAAGGGGGAAAGTCA 59.572 52.381 0.00 0.00 0.00 3.41
422 441 1.006043 GGAGGAAGGAAAGGGGGAAAG 59.994 57.143 0.00 0.00 0.00 2.62
423 442 1.081481 GGAGGAAGGAAAGGGGGAAA 58.919 55.000 0.00 0.00 0.00 3.13
424 443 0.103608 TGGAGGAAGGAAAGGGGGAA 60.104 55.000 0.00 0.00 0.00 3.97
425 444 0.845102 GTGGAGGAAGGAAAGGGGGA 60.845 60.000 0.00 0.00 0.00 4.81
427 446 1.140134 TGGTGGAGGAAGGAAAGGGG 61.140 60.000 0.00 0.00 0.00 4.79
428 447 0.038310 GTGGTGGAGGAAGGAAAGGG 59.962 60.000 0.00 0.00 0.00 3.95
429 448 0.321653 CGTGGTGGAGGAAGGAAAGG 60.322 60.000 0.00 0.00 0.00 3.11
657 2076 3.787001 GAGGAGGGGTGGCTTCGG 61.787 72.222 0.00 0.00 0.00 4.30
658 2077 3.787001 GGAGGAGGGGTGGCTTCG 61.787 72.222 0.00 0.00 0.00 3.79
659 2078 1.916206 GAAGGAGGAGGGGTGGCTTC 61.916 65.000 0.00 0.00 0.00 3.86
687 2106 3.846430 GACGGACGGGGGATGGAC 61.846 72.222 0.00 0.00 0.00 4.02
690 2109 4.157120 GTGGACGGACGGGGGATG 62.157 72.222 0.00 0.00 0.00 3.51
742 2161 4.358841 TCAATGGTGGGTGCGGGG 62.359 66.667 0.00 0.00 0.00 5.73
919 2525 9.855021 CTAAAGAAGAGAGGAAACAAAAACAAA 57.145 29.630 0.00 0.00 0.00 2.83
920 2526 9.238368 TCTAAAGAAGAGAGGAAACAAAAACAA 57.762 29.630 0.00 0.00 0.00 2.83
921 2527 8.801882 TCTAAAGAAGAGAGGAAACAAAAACA 57.198 30.769 0.00 0.00 0.00 2.83
987 2594 3.089874 CCCATCTTCCCCCTCGCA 61.090 66.667 0.00 0.00 0.00 5.10
1212 2829 4.271016 CCTATGGGGCCGGGCTTC 62.271 72.222 28.80 20.01 0.00 3.86
1224 2841 0.531311 TCTGCGTGCAGATGCCTATG 60.531 55.000 19.99 0.00 46.80 2.23
1269 2886 2.336341 CGAGATCCCGGAGAAGAGG 58.664 63.158 0.73 0.00 0.00 3.69
1353 2970 2.203788 TTCTCCTGGGTCCAGCGT 60.204 61.111 11.36 0.00 42.35 5.07
1632 3249 1.218316 CTTGGCCTGGTCGTAGGTC 59.782 63.158 3.32 0.00 42.88 3.85
1767 3384 4.202503 ACCTTCATGTTCATCACTCTGGTT 60.203 41.667 0.00 0.00 0.00 3.67
1773 3390 2.440409 GCCACCTTCATGTTCATCACT 58.560 47.619 0.00 0.00 0.00 3.41
2041 3658 2.767445 GCAGCAGCGGCATCAATGA 61.767 57.895 13.20 0.00 44.61 2.57
2119 3738 5.641783 TCAAAATCGAGCAAATTCATCCA 57.358 34.783 0.00 0.00 0.00 3.41
2131 3750 8.922058 AAATGAGAATTCCATTCAAAATCGAG 57.078 30.769 17.22 0.00 41.71 4.04
2266 3885 8.936864 ACCGTTTCAGAATTCTTAAATCAGTAG 58.063 33.333 15.87 6.38 0.00 2.57
2348 3980 4.337985 CAAAGTCTGCAGCACATCTTAG 57.662 45.455 9.47 0.00 0.00 2.18
2362 3998 1.640917 TAAGTCGAGGGGCAAAGTCT 58.359 50.000 0.00 0.00 0.00 3.24
2403 4044 3.553511 CAGATCTTCCATTGTGCGTACTC 59.446 47.826 4.97 0.00 0.00 2.59
2405 4046 3.262420 ACAGATCTTCCATTGTGCGTAC 58.738 45.455 0.00 0.00 0.00 3.67
2410 4051 6.171921 AGAGAGAAACAGATCTTCCATTGTG 58.828 40.000 0.00 0.00 0.00 3.33
2415 4056 4.336280 TCGAGAGAGAAACAGATCTTCCA 58.664 43.478 0.00 0.00 34.84 3.53
2450 4091 4.287067 TGGAGGCACTATCAAGAATATCCC 59.713 45.833 0.00 0.00 41.55 3.85
2494 4135 1.216710 CTGAGCCGTGGAGGACTTC 59.783 63.158 0.00 0.00 45.00 3.01
2591 4232 0.246635 AATAGCGTTCTCGTGCCTGT 59.753 50.000 0.00 0.00 39.49 4.00
2595 4236 3.365220 GGATGATAATAGCGTTCTCGTGC 59.635 47.826 0.00 0.00 39.49 5.34
2607 4248 3.260475 CCATTCGGGCGGATGATAATA 57.740 47.619 0.00 0.00 0.00 0.98
2651 4292 0.526524 CCGAACGAGTGGAGATGCTC 60.527 60.000 0.00 0.00 0.00 4.26
2652 4293 1.251527 ACCGAACGAGTGGAGATGCT 61.252 55.000 0.00 0.00 0.00 3.79
2653 4294 0.389948 AACCGAACGAGTGGAGATGC 60.390 55.000 0.00 0.00 0.00 3.91
2654 4295 1.630148 GAACCGAACGAGTGGAGATG 58.370 55.000 0.00 0.00 0.00 2.90
2655 4296 0.531200 GGAACCGAACGAGTGGAGAT 59.469 55.000 0.00 0.00 0.00 2.75
2656 4297 0.538977 AGGAACCGAACGAGTGGAGA 60.539 55.000 0.00 0.00 0.00 3.71
2657 4298 0.109226 GAGGAACCGAACGAGTGGAG 60.109 60.000 0.00 0.00 0.00 3.86
2658 4299 0.824595 TGAGGAACCGAACGAGTGGA 60.825 55.000 0.00 0.00 0.00 4.02
2659 4300 0.388649 CTGAGGAACCGAACGAGTGG 60.389 60.000 0.00 0.00 0.00 4.00
2660 4301 1.009389 GCTGAGGAACCGAACGAGTG 61.009 60.000 0.00 0.00 0.00 3.51
2661 4302 1.289380 GCTGAGGAACCGAACGAGT 59.711 57.895 0.00 0.00 0.00 4.18
2662 4303 1.801913 CGCTGAGGAACCGAACGAG 60.802 63.158 0.00 0.00 0.00 4.18
2663 4304 2.257371 CGCTGAGGAACCGAACGA 59.743 61.111 0.00 0.00 0.00 3.85
2664 4305 3.479269 GCGCTGAGGAACCGAACG 61.479 66.667 0.00 0.00 0.00 3.95
2665 4306 0.459585 TATGCGCTGAGGAACCGAAC 60.460 55.000 9.73 0.00 0.00 3.95
2666 4307 0.179111 CTATGCGCTGAGGAACCGAA 60.179 55.000 9.73 0.00 0.00 4.30
2667 4308 1.437573 CTATGCGCTGAGGAACCGA 59.562 57.895 9.73 0.00 0.00 4.69
2668 4309 1.592669 CCTATGCGCTGAGGAACCG 60.593 63.158 19.86 0.00 34.46 4.44
2669 4310 1.889573 GCCTATGCGCTGAGGAACC 60.890 63.158 26.34 9.61 34.46 3.62
2670 4311 1.889573 GGCCTATGCGCTGAGGAAC 60.890 63.158 26.34 16.31 38.85 3.62
2671 4312 2.505982 GGCCTATGCGCTGAGGAA 59.494 61.111 26.34 0.00 38.85 3.36
2672 4313 3.916544 CGGCCTATGCGCTGAGGA 61.917 66.667 26.34 0.00 37.30 3.71
2673 4314 4.976925 CCGGCCTATGCGCTGAGG 62.977 72.222 20.13 20.13 37.30 3.86
2680 4321 4.918201 AAGAGCGCCGGCCTATGC 62.918 66.667 23.46 18.90 41.24 3.14
2681 4322 2.203070 AAAGAGCGCCGGCCTATG 60.203 61.111 23.46 7.95 41.24 2.23
2682 4323 2.109181 GAAAGAGCGCCGGCCTAT 59.891 61.111 23.46 13.71 41.24 2.57
2683 4324 4.508128 CGAAAGAGCGCCGGCCTA 62.508 66.667 23.46 0.00 41.24 3.93
2691 4332 4.183526 CGAGCGTGCGAAAGAGCG 62.184 66.667 0.00 0.00 40.67 5.03
2692 4333 4.491328 GCGAGCGTGCGAAAGAGC 62.491 66.667 3.30 0.00 37.71 4.09
2693 4334 3.843240 GGCGAGCGTGCGAAAGAG 61.843 66.667 3.30 0.00 35.06 2.85
2707 4348 1.012671 CGCTAAAAATCGTCGGGCG 60.013 57.895 0.00 0.00 43.01 6.13
2708 4349 0.247537 CACGCTAAAAATCGTCGGGC 60.248 55.000 0.00 0.00 36.73 6.13
2709 4350 1.352114 TCACGCTAAAAATCGTCGGG 58.648 50.000 0.00 0.00 36.73 5.14
2710 4351 2.858344 AGATCACGCTAAAAATCGTCGG 59.142 45.455 0.00 0.00 36.73 4.79
2711 4352 4.146616 CCTAGATCACGCTAAAAATCGTCG 59.853 45.833 0.00 0.00 36.73 5.12
2712 4353 5.041940 ACCTAGATCACGCTAAAAATCGTC 58.958 41.667 0.00 0.00 36.73 4.20
2713 4354 5.007385 ACCTAGATCACGCTAAAAATCGT 57.993 39.130 0.00 0.00 39.79 3.73
2714 4355 4.444720 GGACCTAGATCACGCTAAAAATCG 59.555 45.833 0.00 0.00 0.00 3.34
2715 4356 4.750598 GGGACCTAGATCACGCTAAAAATC 59.249 45.833 0.00 0.00 0.00 2.17
2716 4357 4.163458 TGGGACCTAGATCACGCTAAAAAT 59.837 41.667 0.00 0.00 0.00 1.82
2717 4358 3.516300 TGGGACCTAGATCACGCTAAAAA 59.484 43.478 0.00 0.00 0.00 1.94
2718 4359 3.101437 TGGGACCTAGATCACGCTAAAA 58.899 45.455 0.00 0.00 0.00 1.52
2719 4360 2.693591 CTGGGACCTAGATCACGCTAAA 59.306 50.000 0.00 0.00 0.00 1.85
2720 4361 2.307768 CTGGGACCTAGATCACGCTAA 58.692 52.381 0.00 0.00 0.00 3.09
2721 4362 1.982660 CTGGGACCTAGATCACGCTA 58.017 55.000 0.00 0.00 0.00 4.26
2722 4363 1.395826 GCTGGGACCTAGATCACGCT 61.396 60.000 9.44 0.00 0.00 5.07
2723 4364 1.068250 GCTGGGACCTAGATCACGC 59.932 63.158 9.44 0.00 0.00 5.34
2724 4365 1.043116 TGGCTGGGACCTAGATCACG 61.043 60.000 9.44 0.00 0.00 4.35
2725 4366 0.466124 GTGGCTGGGACCTAGATCAC 59.534 60.000 9.44 11.78 0.00 3.06
2726 4367 1.043116 CGTGGCTGGGACCTAGATCA 61.043 60.000 9.44 3.21 0.00 2.92
2727 4368 1.742768 CGTGGCTGGGACCTAGATC 59.257 63.158 9.44 0.42 0.00 2.75
2728 4369 2.435693 GCGTGGCTGGGACCTAGAT 61.436 63.158 9.44 0.00 0.00 1.98
2729 4370 3.075005 GCGTGGCTGGGACCTAGA 61.075 66.667 9.44 0.00 0.00 2.43
2730 4371 4.162690 GGCGTGGCTGGGACCTAG 62.163 72.222 0.00 0.00 0.00 3.02
2746 4387 3.391382 GAGGACGACACCTGGGGG 61.391 72.222 0.00 0.00 40.73 5.40
2747 4388 2.172483 CTTGAGGACGACACCTGGGG 62.172 65.000 0.00 0.00 40.73 4.96
2748 4389 1.293498 CTTGAGGACGACACCTGGG 59.707 63.158 0.00 0.00 40.73 4.45
2749 4390 1.293498 CCTTGAGGACGACACCTGG 59.707 63.158 5.46 0.00 40.73 4.45
2750 4391 0.319900 CACCTTGAGGACGACACCTG 60.320 60.000 3.59 0.00 40.73 4.00
2751 4392 0.759436 ACACCTTGAGGACGACACCT 60.759 55.000 3.59 0.00 43.64 4.00
2752 4393 0.106149 AACACCTTGAGGACGACACC 59.894 55.000 3.59 0.00 38.94 4.16
2753 4394 1.202486 TGAACACCTTGAGGACGACAC 60.202 52.381 3.59 0.00 38.94 3.67
2754 4395 1.116308 TGAACACCTTGAGGACGACA 58.884 50.000 3.59 0.00 38.94 4.35
2755 4396 1.202486 TGTGAACACCTTGAGGACGAC 60.202 52.381 3.59 0.00 38.94 4.34
2756 4397 1.116308 TGTGAACACCTTGAGGACGA 58.884 50.000 3.59 0.00 38.94 4.20
2757 4398 1.948104 TTGTGAACACCTTGAGGACG 58.052 50.000 3.59 0.00 38.94 4.79
2758 4399 4.338118 TGAATTTGTGAACACCTTGAGGAC 59.662 41.667 3.59 0.00 38.94 3.85
2759 4400 4.531854 TGAATTTGTGAACACCTTGAGGA 58.468 39.130 3.59 0.00 38.94 3.71
2760 4401 4.916983 TGAATTTGTGAACACCTTGAGG 57.083 40.909 2.46 0.00 42.17 3.86
2761 4402 6.254157 CAGTTTGAATTTGTGAACACCTTGAG 59.746 38.462 2.46 0.00 0.00 3.02
2762 4403 6.098679 CAGTTTGAATTTGTGAACACCTTGA 58.901 36.000 2.46 0.00 0.00 3.02
2763 4404 5.868801 ACAGTTTGAATTTGTGAACACCTTG 59.131 36.000 2.46 0.00 0.00 3.61
2764 4405 6.036577 ACAGTTTGAATTTGTGAACACCTT 57.963 33.333 2.46 0.00 0.00 3.50
2765 4406 5.659440 ACAGTTTGAATTTGTGAACACCT 57.341 34.783 2.46 0.00 0.00 4.00
2766 4407 5.004345 CGAACAGTTTGAATTTGTGAACACC 59.996 40.000 0.00 0.00 0.00 4.16
2767 4408 5.004345 CCGAACAGTTTGAATTTGTGAACAC 59.996 40.000 1.57 0.00 0.00 3.32
2768 4409 5.098893 CCGAACAGTTTGAATTTGTGAACA 58.901 37.500 1.57 0.00 0.00 3.18
2769 4410 4.026886 GCCGAACAGTTTGAATTTGTGAAC 60.027 41.667 1.57 0.00 0.00 3.18
2770 4411 4.109050 GCCGAACAGTTTGAATTTGTGAA 58.891 39.130 1.57 0.00 0.00 3.18
2771 4412 3.701241 GCCGAACAGTTTGAATTTGTGA 58.299 40.909 1.57 0.00 0.00 3.58
2772 4413 2.467305 CGCCGAACAGTTTGAATTTGTG 59.533 45.455 1.57 0.00 0.00 3.33
2773 4414 2.356382 TCGCCGAACAGTTTGAATTTGT 59.644 40.909 1.57 0.00 0.00 2.83
2774 4415 2.993545 TCGCCGAACAGTTTGAATTTG 58.006 42.857 1.57 0.00 0.00 2.32
2775 4416 3.252215 TGATCGCCGAACAGTTTGAATTT 59.748 39.130 1.57 0.00 0.00 1.82
2776 4417 2.811431 TGATCGCCGAACAGTTTGAATT 59.189 40.909 1.57 0.00 0.00 2.17
2777 4418 2.422597 TGATCGCCGAACAGTTTGAAT 58.577 42.857 1.57 0.00 0.00 2.57
2778 4419 1.872388 TGATCGCCGAACAGTTTGAA 58.128 45.000 1.57 0.00 0.00 2.69
2779 4420 1.999735 GATGATCGCCGAACAGTTTGA 59.000 47.619 2.93 0.00 0.00 2.69
2780 4421 2.002586 AGATGATCGCCGAACAGTTTG 58.997 47.619 2.93 0.00 0.00 2.93
2781 4422 2.386661 AGATGATCGCCGAACAGTTT 57.613 45.000 2.93 0.00 0.00 2.66
2782 4423 2.002586 CAAGATGATCGCCGAACAGTT 58.997 47.619 2.93 0.00 0.00 3.16
2783 4424 1.645034 CAAGATGATCGCCGAACAGT 58.355 50.000 2.93 0.00 0.00 3.55
2784 4425 0.302890 GCAAGATGATCGCCGAACAG 59.697 55.000 2.93 0.00 0.00 3.16
2785 4426 1.089481 GGCAAGATGATCGCCGAACA 61.089 55.000 0.00 0.00 35.79 3.18
2786 4427 1.643832 GGCAAGATGATCGCCGAAC 59.356 57.895 0.00 0.00 35.79 3.95
2787 4428 4.124910 GGCAAGATGATCGCCGAA 57.875 55.556 0.00 0.00 35.79 4.30
2790 4431 0.745845 ACTGTGGCAAGATGATCGCC 60.746 55.000 4.62 4.62 46.43 5.54
2791 4432 1.063174 GAACTGTGGCAAGATGATCGC 59.937 52.381 0.00 0.00 0.00 4.58
2792 4433 1.325640 CGAACTGTGGCAAGATGATCG 59.674 52.381 0.00 0.00 0.00 3.69
2793 4434 1.667724 CCGAACTGTGGCAAGATGATC 59.332 52.381 0.00 0.00 0.00 2.92
2794 4435 1.742761 CCGAACTGTGGCAAGATGAT 58.257 50.000 0.00 0.00 0.00 2.45
2795 4436 3.231734 CCGAACTGTGGCAAGATGA 57.768 52.632 0.00 0.00 0.00 2.92
2803 4444 1.234615 ATTTGACCGCCGAACTGTGG 61.235 55.000 0.00 0.00 41.79 4.17
2804 4445 0.110238 CATTTGACCGCCGAACTGTG 60.110 55.000 0.00 0.00 0.00 3.66
2805 4446 0.250124 TCATTTGACCGCCGAACTGT 60.250 50.000 0.00 0.00 0.00 3.55
2806 4447 0.871722 TTCATTTGACCGCCGAACTG 59.128 50.000 0.00 0.00 0.00 3.16
2807 4448 1.600023 TTTCATTTGACCGCCGAACT 58.400 45.000 0.00 0.00 0.00 3.01
2808 4449 2.287368 ACTTTTCATTTGACCGCCGAAC 60.287 45.455 0.00 0.00 0.00 3.95
2809 4450 1.950909 ACTTTTCATTTGACCGCCGAA 59.049 42.857 0.00 0.00 0.00 4.30
2810 4451 1.600023 ACTTTTCATTTGACCGCCGA 58.400 45.000 0.00 0.00 0.00 5.54
2811 4452 2.315901 GAACTTTTCATTTGACCGCCG 58.684 47.619 0.00 0.00 0.00 6.46
2812 4453 2.315901 CGAACTTTTCATTTGACCGCC 58.684 47.619 0.00 0.00 0.00 6.13
2813 4454 2.315901 CCGAACTTTTCATTTGACCGC 58.684 47.619 0.00 0.00 0.00 5.68
2814 4455 2.315901 GCCGAACTTTTCATTTGACCG 58.684 47.619 0.00 0.00 0.00 4.79
2815 4456 2.287368 ACGCCGAACTTTTCATTTGACC 60.287 45.455 0.00 0.00 0.00 4.02
2816 4457 2.994849 ACGCCGAACTTTTCATTTGAC 58.005 42.857 0.00 0.00 0.00 3.18
2817 4458 4.815040 TTACGCCGAACTTTTCATTTGA 57.185 36.364 0.00 0.00 0.00 2.69
2818 4459 5.874892 TTTTACGCCGAACTTTTCATTTG 57.125 34.783 0.00 0.00 0.00 2.32
2839 4480 3.153919 TGCCTATGCGTCCTTTCTTTTT 58.846 40.909 0.00 0.00 41.78 1.94
2840 4481 2.790433 TGCCTATGCGTCCTTTCTTTT 58.210 42.857 0.00 0.00 41.78 2.27
2841 4482 2.489938 TGCCTATGCGTCCTTTCTTT 57.510 45.000 0.00 0.00 41.78 2.52
2842 4483 2.489938 TTGCCTATGCGTCCTTTCTT 57.510 45.000 0.00 0.00 41.78 2.52
2843 4484 2.292267 CATTGCCTATGCGTCCTTTCT 58.708 47.619 0.00 0.00 41.78 2.52
2844 4485 2.763249 CATTGCCTATGCGTCCTTTC 57.237 50.000 0.00 0.00 41.78 2.62
2853 4494 2.734670 CCGTTTGATGCATTGCCTATG 58.265 47.619 6.12 0.00 37.31 2.23
2854 4495 1.067516 GCCGTTTGATGCATTGCCTAT 59.932 47.619 6.12 0.00 0.00 2.57
2855 4496 0.455410 GCCGTTTGATGCATTGCCTA 59.545 50.000 6.12 0.00 0.00 3.93
2856 4497 1.216178 GCCGTTTGATGCATTGCCT 59.784 52.632 6.12 0.00 0.00 4.75
2857 4498 2.160221 CGCCGTTTGATGCATTGCC 61.160 57.895 6.12 0.00 0.00 4.52
2858 4499 2.160221 CCGCCGTTTGATGCATTGC 61.160 57.895 0.00 0.46 0.00 3.56
2859 4500 1.072116 CACCGCCGTTTGATGCATTG 61.072 55.000 0.00 0.00 0.00 2.82
2860 4501 1.212490 CACCGCCGTTTGATGCATT 59.788 52.632 0.00 0.00 0.00 3.56
2861 4502 1.922135 GACACCGCCGTTTGATGCAT 61.922 55.000 0.00 0.00 0.00 3.96
2862 4503 2.593148 ACACCGCCGTTTGATGCA 60.593 55.556 0.00 0.00 0.00 3.96
2863 4504 2.175811 GACACCGCCGTTTGATGC 59.824 61.111 0.00 0.00 0.00 3.91
2864 4505 2.474266 CGACACCGCCGTTTGATG 59.526 61.111 0.00 0.00 0.00 3.07
2865 4506 2.740826 CCGACACCGCCGTTTGAT 60.741 61.111 0.00 0.00 0.00 2.57
2885 4526 2.124403 GTCTCCTCCTACGCCGGA 60.124 66.667 5.05 0.00 0.00 5.14
2886 4527 3.584052 CGTCTCCTCCTACGCCGG 61.584 72.222 0.00 0.00 31.66 6.13
2887 4528 3.584052 CCGTCTCCTCCTACGCCG 61.584 72.222 0.00 0.00 37.78 6.46
2888 4529 3.902086 GCCGTCTCCTCCTACGCC 61.902 72.222 0.00 0.00 37.78 5.68
2889 4530 2.491022 ATGCCGTCTCCTCCTACGC 61.491 63.158 0.00 0.00 37.78 4.42
2890 4531 1.360551 CATGCCGTCTCCTCCTACG 59.639 63.158 0.00 0.00 38.80 3.51
2891 4532 1.068250 GCATGCCGTCTCCTCCTAC 59.932 63.158 6.36 0.00 0.00 3.18
2892 4533 2.490148 CGCATGCCGTCTCCTCCTA 61.490 63.158 13.15 0.00 0.00 2.94
2893 4534 3.842923 CGCATGCCGTCTCCTCCT 61.843 66.667 13.15 0.00 0.00 3.69
2929 4570 4.332637 AGCAGCACAAAAGCCGCG 62.333 61.111 0.00 0.00 42.57 6.46
2930 4571 2.732094 CAGCAGCACAAAAGCCGC 60.732 61.111 0.00 0.00 38.18 6.53
2931 4572 2.049802 CCAGCAGCACAAAAGCCG 60.050 61.111 0.00 0.00 34.23 5.52
2932 4573 2.341176 CCCAGCAGCACAAAAGCC 59.659 61.111 0.00 0.00 34.23 4.35
2933 4574 2.356673 GCCCAGCAGCACAAAAGC 60.357 61.111 0.00 0.00 0.00 3.51
2934 4575 2.049802 CGCCCAGCAGCACAAAAG 60.050 61.111 0.00 0.00 0.00 2.27
2935 4576 2.832661 ACGCCCAGCAGCACAAAA 60.833 55.556 0.00 0.00 0.00 2.44
2936 4577 3.286751 GACGCCCAGCAGCACAAA 61.287 61.111 0.00 0.00 0.00 2.83
2948 4589 3.740128 ATGATGCCTCCACGACGCC 62.740 63.158 0.00 0.00 0.00 5.68
2949 4590 2.202932 ATGATGCCTCCACGACGC 60.203 61.111 0.00 0.00 0.00 5.19
2950 4591 1.141665 TGATGATGCCTCCACGACG 59.858 57.895 0.00 0.00 0.00 5.12
2951 4592 0.176680 AGTGATGATGCCTCCACGAC 59.823 55.000 0.00 0.00 34.93 4.34
2952 4593 0.461548 GAGTGATGATGCCTCCACGA 59.538 55.000 0.00 0.00 34.93 4.35
2953 4594 0.873312 CGAGTGATGATGCCTCCACG 60.873 60.000 0.00 0.00 34.93 4.94
2954 4595 0.531532 CCGAGTGATGATGCCTCCAC 60.532 60.000 0.00 0.00 0.00 4.02
2955 4596 1.689243 CCCGAGTGATGATGCCTCCA 61.689 60.000 0.00 0.00 0.00 3.86
2956 4597 1.070445 CCCGAGTGATGATGCCTCC 59.930 63.158 0.00 0.00 0.00 4.30
2957 4598 0.179000 AACCCGAGTGATGATGCCTC 59.821 55.000 0.00 0.00 0.00 4.70
2958 4599 0.620556 AAACCCGAGTGATGATGCCT 59.379 50.000 0.00 0.00 0.00 4.75
2959 4600 3.175133 AAACCCGAGTGATGATGCC 57.825 52.632 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.