Multiple sequence alignment - TraesCS2B01G162900

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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 TraesCS2B01G162900 chr2B 100.000 3303 0 0 1 3303 135462720 135466022 0.000000e+00 6100
1 TraesCS2B01G162900 chr2B 92.454 2306 96 38 648 2943 135126430 135128667 0.000000e+00 3223
2 TraesCS2B01G162900 chr2B 92.184 2239 84 49 700 2894 135197814 135200005 0.000000e+00 3081
3 TraesCS2B01G162900 chr2B 89.856 2287 125 57 708 2945 182153543 182151315 0.000000e+00 2839
4 TraesCS2B01G162900 chr2B 89.335 2166 134 56 779 2894 135357798 135359916 0.000000e+00 2630
5 TraesCS2B01G162900 chr2B 89.297 1822 133 34 953 2754 137349334 137347555 0.000000e+00 2228
6 TraesCS2B01G162900 chr2B 95.317 1324 45 10 1986 3303 182132936 182131624 0.000000e+00 2085
7 TraesCS2B01G162900 chr2B 90.742 1469 47 30 1775 3213 135513414 135514823 0.000000e+00 1877
8 TraesCS2B01G162900 chr2B 92.276 971 53 11 1987 2948 136813863 136812906 0.000000e+00 1358
9 TraesCS2B01G162900 chr2B 84.930 929 92 13 953 1874 137622518 137621631 0.000000e+00 896
10 TraesCS2B01G162900 chr2B 90.935 353 23 4 2945 3290 135128429 135128779 1.790000e-127 466
11 TraesCS2B01G162900 chr2B 91.732 254 11 3 3047 3290 135516444 135516697 8.780000e-91 344
12 TraesCS2B01G162900 chr2B 82.848 309 38 12 3 299 135125535 135125840 2.530000e-66 263
13 TraesCS2B01G162900 chr2B 82.805 221 25 6 1746 1960 136635761 136635548 5.630000e-43 185
14 TraesCS2B01G162900 chr2B 83.333 150 16 4 708 856 135238829 135238970 2.670000e-26 130
15 TraesCS2B01G162900 chr2B 87.629 97 10 1 3196 3290 135128328 135128424 9.690000e-21 111
16 TraesCS2B01G162900 chr2B 87.629 97 10 1 3196 3290 182132326 182132230 9.690000e-21 111
17 TraesCS2B01G162900 chr2D 94.019 2274 80 33 650 2894 83188097 83190343 0.000000e+00 3395
18 TraesCS2B01G162900 chr2D 93.780 2283 76 34 645 2894 83224910 83227159 0.000000e+00 3369
19 TraesCS2B01G162900 chr2D 89.245 1153 85 26 1775 2910 127820586 127819456 0.000000e+00 1406
20 TraesCS2B01G162900 chr2D 89.838 1112 77 16 648 1751 127821663 127820580 0.000000e+00 1395
21 TraesCS2B01G162900 chr2D 93.177 469 30 2 2 469 83223378 83223845 0.000000e+00 688
22 TraesCS2B01G162900 chr2D 92.094 468 25 6 3 469 83187222 83187678 0.000000e+00 649
23 TraesCS2B01G162900 chr2D 84.783 230 27 7 2925 3150 127819681 127819456 1.190000e-54 224
24 TraesCS2B01G162900 chr2D 93.182 132 8 1 468 599 83223881 83224011 3.360000e-45 193
25 TraesCS2B01G162900 chr2D 85.635 181 24 2 3021 3200 85249235 85249056 4.350000e-44 189
26 TraesCS2B01G162900 chr2A 89.964 2521 132 43 798 3290 84143495 84145922 0.000000e+00 3142
27 TraesCS2B01G162900 chr2A 90.709 2314 130 41 645 2945 83984715 83986956 0.000000e+00 3003
28 TraesCS2B01G162900 chr2A 88.159 2238 159 46 723 2943 83989925 83992073 0.000000e+00 2567
29 TraesCS2B01G162900 chr2A 86.535 2020 156 45 926 2934 86062003 86060089 0.000000e+00 2117
30 TraesCS2B01G162900 chr2A 90.253 1108 80 17 653 1751 134867772 134866684 0.000000e+00 1423
31 TraesCS2B01G162900 chr2A 92.672 464 29 4 7 469 83958592 83959051 0.000000e+00 664
32 TraesCS2B01G162900 chr2A 92.162 370 21 6 2926 3290 83991817 83992183 1.760000e-142 516
33 TraesCS2B01G162900 chr2A 85.106 235 29 5 2925 3156 134865783 134865552 5.510000e-58 235
34 TraesCS2B01G162900 chr2A 83.333 156 16 5 708 860 84012618 84012766 5.750000e-28 135
35 TraesCS2B01G162900 chr5D 90.481 1103 85 15 649 1751 230368775 230369857 0.000000e+00 1437
36 TraesCS2B01G162900 chr5D 87.129 101 10 2 3196 3294 283108760 283108661 9.690000e-21 111
37 TraesCS2B01G162900 chr5A 90.390 1051 63 20 701 1751 326438158 326437146 0.000000e+00 1347
38 TraesCS2B01G162900 chrUn 93.603 469 28 2 2 469 333570514 333570981 0.000000e+00 699
39 TraesCS2B01G162900 chrUn 94.118 170 10 0 300 469 362504891 362505060 3.270000e-65 259
40 TraesCS2B01G162900 chrUn 93.182 132 8 1 468 599 333571017 333571147 3.360000e-45 193
41 TraesCS2B01G162900 chrUn 93.182 132 8 1 468 599 362505096 362505226 3.360000e-45 193
42 TraesCS2B01G162900 chr5B 86.139 101 11 3 3196 3294 321476677 321476578 4.510000e-19 106


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 TraesCS2B01G162900 chr2B 135462720 135466022 3302 False 6100.000000 6100 100.000000 1 3303 1 chr2B.!!$F4 3302
1 TraesCS2B01G162900 chr2B 135197814 135200005 2191 False 3081.000000 3081 92.184000 700 2894 1 chr2B.!!$F1 2194
2 TraesCS2B01G162900 chr2B 182151315 182153543 2228 True 2839.000000 2839 89.856000 708 2945 1 chr2B.!!$R5 2237
3 TraesCS2B01G162900 chr2B 135357798 135359916 2118 False 2630.000000 2630 89.335000 779 2894 1 chr2B.!!$F3 2115
4 TraesCS2B01G162900 chr2B 137347555 137349334 1779 True 2228.000000 2228 89.297000 953 2754 1 chr2B.!!$R3 1801
5 TraesCS2B01G162900 chr2B 136812906 136813863 957 True 1358.000000 1358 92.276000 1987 2948 1 chr2B.!!$R2 961
6 TraesCS2B01G162900 chr2B 135513414 135516697 3283 False 1110.500000 1877 91.237000 1775 3290 2 chr2B.!!$F6 1515
7 TraesCS2B01G162900 chr2B 182131624 182132936 1312 True 1098.000000 2085 91.473000 1986 3303 2 chr2B.!!$R6 1317
8 TraesCS2B01G162900 chr2B 135125535 135128779 3244 False 1015.750000 3223 88.466500 3 3290 4 chr2B.!!$F5 3287
9 TraesCS2B01G162900 chr2B 137621631 137622518 887 True 896.000000 896 84.930000 953 1874 1 chr2B.!!$R4 921
10 TraesCS2B01G162900 chr2D 83187222 83190343 3121 False 2022.000000 3395 93.056500 3 2894 2 chr2D.!!$F1 2891
11 TraesCS2B01G162900 chr2D 83223378 83227159 3781 False 1416.666667 3369 93.379667 2 2894 3 chr2D.!!$F2 2892
12 TraesCS2B01G162900 chr2D 127819456 127821663 2207 True 1008.333333 1406 87.955333 648 3150 3 chr2D.!!$R2 2502
13 TraesCS2B01G162900 chr2A 84143495 84145922 2427 False 3142.000000 3142 89.964000 798 3290 1 chr2A.!!$F3 2492
14 TraesCS2B01G162900 chr2A 86060089 86062003 1914 True 2117.000000 2117 86.535000 926 2934 1 chr2A.!!$R1 2008
15 TraesCS2B01G162900 chr2A 83984715 83992183 7468 False 2028.666667 3003 90.343333 645 3290 3 chr2A.!!$F4 2645
16 TraesCS2B01G162900 chr2A 134865552 134867772 2220 True 829.000000 1423 87.679500 653 3156 2 chr2A.!!$R2 2503
17 TraesCS2B01G162900 chr5D 230368775 230369857 1082 False 1437.000000 1437 90.481000 649 1751 1 chr5D.!!$F1 1102
18 TraesCS2B01G162900 chr5A 326437146 326438158 1012 True 1347.000000 1347 90.390000 701 1751 1 chr5A.!!$R1 1050
19 TraesCS2B01G162900 chrUn 333570514 333571147 633 False 446.000000 699 93.392500 2 599 2 chrUn.!!$F1 597

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
634 1562 0.251073 CCCCATAAAACTCCGGACGT 59.749 55.0 0.00 0.0 0.0 4.34 F
645 1573 0.524862 TCCGGACGTCTAGCAAAGTC 59.475 55.0 16.46 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1943 3050 2.403259 GATTGGTTTTGCTTGGGAACG 58.597 47.619 0.0 0.0 0.0 3.95 R
2678 8970 8.800972 CCAACAATTTTTCGTTCATATCTGATG 58.199 33.333 0.0 0.0 0.0 3.07 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
103 106 1.081376 CTTGCTCTTCGTCGGTCGT 60.081 57.895 0.00 0.00 40.80 4.34
210 222 2.832129 TCCTATCAAACGGAGAGCACTT 59.168 45.455 0.00 0.00 33.40 3.16
308 320 3.952508 ACCCCATGCGCACAGTCA 61.953 61.111 14.90 0.00 0.00 3.41
347 359 1.303948 CCCCTGTCATGATGTGGCA 59.696 57.895 0.00 0.00 40.91 4.92
507 562 2.654877 CTACAACCGGCGACCAGT 59.345 61.111 9.30 3.82 0.00 4.00
565 621 2.607668 TAGACGAAGATGCGCCCGTG 62.608 60.000 4.18 0.00 35.22 4.94
593 651 3.712907 GCTACAACCGCCCAGGGA 61.713 66.667 10.89 0.00 46.96 4.20
596 654 3.549433 TACAACCGCCCAGGGAGGA 62.549 63.158 34.10 9.44 45.77 3.71
601 1529 2.435693 CCGCCCAGGGAGGAGTAAG 61.436 68.421 24.23 0.00 45.77 2.34
606 1534 0.253327 CCAGGGAGGAGTAAGCAACC 59.747 60.000 0.00 0.00 41.22 3.77
608 1536 1.065854 CAGGGAGGAGTAAGCAACCTG 60.066 57.143 0.00 0.00 38.17 4.00
610 1538 2.185387 GGGAGGAGTAAGCAACCTGTA 58.815 52.381 0.00 0.00 33.89 2.74
611 1539 2.570302 GGGAGGAGTAAGCAACCTGTAA 59.430 50.000 0.00 0.00 33.89 2.41
612 1540 3.008704 GGGAGGAGTAAGCAACCTGTAAA 59.991 47.826 0.00 0.00 33.89 2.01
613 1541 4.324331 GGGAGGAGTAAGCAACCTGTAAAT 60.324 45.833 0.00 0.00 33.89 1.40
615 1543 4.844884 AGGAGTAAGCAACCTGTAAATCC 58.155 43.478 0.00 0.00 32.39 3.01
616 1544 3.945921 GGAGTAAGCAACCTGTAAATCCC 59.054 47.826 0.00 0.00 0.00 3.85
618 1546 2.231716 AAGCAACCTGTAAATCCCCC 57.768 50.000 0.00 0.00 0.00 5.40
625 1553 5.625886 GCAACCTGTAAATCCCCCATAAAAC 60.626 44.000 0.00 0.00 0.00 2.43
627 1555 5.516044 ACCTGTAAATCCCCCATAAAACTC 58.484 41.667 0.00 0.00 0.00 3.01
631 1559 1.901648 ATCCCCCATAAAACTCCGGA 58.098 50.000 2.93 2.93 0.00 5.14
632 1560 0.913924 TCCCCCATAAAACTCCGGAC 59.086 55.000 0.00 0.00 0.00 4.79
633 1561 0.463116 CCCCCATAAAACTCCGGACG 60.463 60.000 0.00 0.00 0.00 4.79
634 1562 0.251073 CCCCATAAAACTCCGGACGT 59.749 55.000 0.00 0.00 0.00 4.34
637 1565 2.428171 CCCATAAAACTCCGGACGTCTA 59.572 50.000 16.46 0.49 0.00 2.59
638 1566 3.490419 CCCATAAAACTCCGGACGTCTAG 60.490 52.174 16.46 12.77 0.00 2.43
639 1567 2.927553 TAAAACTCCGGACGTCTAGC 57.072 50.000 16.46 0.00 0.00 3.42
640 1568 0.963962 AAAACTCCGGACGTCTAGCA 59.036 50.000 16.46 0.00 0.00 3.49
641 1569 0.963962 AAACTCCGGACGTCTAGCAA 59.036 50.000 16.46 0.92 0.00 3.91
642 1570 0.963962 AACTCCGGACGTCTAGCAAA 59.036 50.000 16.46 0.00 0.00 3.68
645 1573 0.524862 TCCGGACGTCTAGCAAAGTC 59.475 55.000 16.46 0.00 0.00 3.01
683 1639 4.601019 CGATTGATACACCTCATTTTGGC 58.399 43.478 0.00 0.00 0.00 4.52
736 1692 9.657419 GATTGATTTTTGTACCATCCAATTTCT 57.343 29.630 0.00 0.00 0.00 2.52
901 1869 7.361894 ACGTTCTACTACTTCTTTCTTCAGTC 58.638 38.462 0.00 0.00 0.00 3.51
2260 3368 1.583556 ACCACTGCATCCATACCTGA 58.416 50.000 0.00 0.00 0.00 3.86
2773 9312 9.045223 GTTTGTTGTATGCATCTATGACTATGA 57.955 33.333 0.19 0.00 0.00 2.15
2777 9316 9.914131 GTTGTATGCATCTATGACTATGACTTA 57.086 33.333 0.19 0.00 0.00 2.24
2809 9348 1.066858 TGCTGCTCTAGTCGGAAAAGG 60.067 52.381 0.00 0.00 0.00 3.11
2814 9353 2.931320 GCTCTAGTCGGAAAAGGGTGTG 60.931 54.545 0.00 0.00 0.00 3.82
2817 9356 2.538512 AGTCGGAAAAGGGTGTGTAC 57.461 50.000 0.00 0.00 0.00 2.90
2818 9357 2.044758 AGTCGGAAAAGGGTGTGTACT 58.955 47.619 0.00 0.00 0.00 2.73
2819 9358 2.140717 GTCGGAAAAGGGTGTGTACTG 58.859 52.381 0.00 0.00 0.00 2.74
2820 9359 2.040939 TCGGAAAAGGGTGTGTACTGA 58.959 47.619 0.00 0.00 0.00 3.41
2821 9360 2.036733 TCGGAAAAGGGTGTGTACTGAG 59.963 50.000 0.00 0.00 0.00 3.35
2822 9361 2.779506 GGAAAAGGGTGTGTACTGAGG 58.220 52.381 0.00 0.00 0.00 3.86
2823 9362 2.152016 GAAAAGGGTGTGTACTGAGGC 58.848 52.381 0.00 0.00 0.00 4.70
2824 9363 1.136828 AAAGGGTGTGTACTGAGGCA 58.863 50.000 0.00 0.00 0.00 4.75
2825 9364 0.396811 AAGGGTGTGTACTGAGGCAC 59.603 55.000 0.00 3.10 36.26 5.01
2826 9365 4.695560 GGTGTGTACTGAGGCACC 57.304 61.111 6.90 0.00 43.52 5.01
2827 9366 1.374252 GGTGTGTACTGAGGCACCG 60.374 63.158 6.90 0.00 41.37 4.94
2828 9367 1.663739 GTGTGTACTGAGGCACCGA 59.336 57.895 6.90 0.00 34.94 4.69
2829 9368 0.246635 GTGTGTACTGAGGCACCGAT 59.753 55.000 6.90 0.00 34.94 4.18
2830 9369 0.530744 TGTGTACTGAGGCACCGATC 59.469 55.000 6.90 0.00 34.94 3.69
2831 9370 0.179108 GTGTACTGAGGCACCGATCC 60.179 60.000 0.00 0.00 0.00 3.36
2832 9371 0.613572 TGTACTGAGGCACCGATCCA 60.614 55.000 0.00 0.00 0.00 3.41
2833 9372 0.535335 GTACTGAGGCACCGATCCAA 59.465 55.000 0.00 0.00 0.00 3.53
2834 9373 1.139058 GTACTGAGGCACCGATCCAAT 59.861 52.381 0.00 0.00 0.00 3.16
2835 9374 1.496060 ACTGAGGCACCGATCCAATA 58.504 50.000 0.00 0.00 0.00 1.90
2836 9375 1.414181 ACTGAGGCACCGATCCAATAG 59.586 52.381 0.00 0.00 0.00 1.73
2837 9376 1.688735 CTGAGGCACCGATCCAATAGA 59.311 52.381 0.00 0.00 0.00 1.98
2838 9377 2.103094 CTGAGGCACCGATCCAATAGAA 59.897 50.000 0.00 0.00 0.00 2.10
2839 9378 2.158957 TGAGGCACCGATCCAATAGAAC 60.159 50.000 0.00 0.00 0.00 3.01
2840 9379 2.103263 GAGGCACCGATCCAATAGAACT 59.897 50.000 0.00 0.00 0.00 3.01
2841 9380 2.103263 AGGCACCGATCCAATAGAACTC 59.897 50.000 0.00 0.00 0.00 3.01
2842 9381 2.158957 GGCACCGATCCAATAGAACTCA 60.159 50.000 0.00 0.00 0.00 3.41
2843 9382 3.126831 GCACCGATCCAATAGAACTCAG 58.873 50.000 0.00 0.00 0.00 3.35
2844 9383 3.126831 CACCGATCCAATAGAACTCAGC 58.873 50.000 0.00 0.00 0.00 4.26
2845 9384 3.034635 ACCGATCCAATAGAACTCAGCT 58.965 45.455 0.00 0.00 0.00 4.24
2846 9385 3.068873 ACCGATCCAATAGAACTCAGCTC 59.931 47.826 0.00 0.00 0.00 4.09
2847 9386 3.320541 CCGATCCAATAGAACTCAGCTCT 59.679 47.826 0.00 0.00 0.00 4.09
2848 9387 4.297510 CGATCCAATAGAACTCAGCTCTG 58.702 47.826 0.00 0.00 0.00 3.35
2849 9388 4.037327 CGATCCAATAGAACTCAGCTCTGA 59.963 45.833 0.00 0.00 38.06 3.27
2850 9389 5.278907 CGATCCAATAGAACTCAGCTCTGAT 60.279 44.000 0.00 0.00 39.13 2.90
2851 9390 5.946942 TCCAATAGAACTCAGCTCTGATT 57.053 39.130 0.00 0.00 39.13 2.57
2852 9391 6.305272 TCCAATAGAACTCAGCTCTGATTT 57.695 37.500 0.00 1.22 39.13 2.17
2853 9392 6.344500 TCCAATAGAACTCAGCTCTGATTTC 58.656 40.000 17.15 17.15 44.56 2.17
2854 9393 5.526846 CCAATAGAACTCAGCTCTGATTTCC 59.473 44.000 19.68 8.06 45.01 3.13
2855 9394 3.625649 AGAACTCAGCTCTGATTTCCC 57.374 47.619 19.68 4.35 45.01 3.97
2856 9395 2.909006 AGAACTCAGCTCTGATTTCCCA 59.091 45.455 19.68 0.00 45.01 4.37
2857 9396 3.328931 AGAACTCAGCTCTGATTTCCCAA 59.671 43.478 19.68 0.00 45.01 4.12
2858 9397 4.018597 AGAACTCAGCTCTGATTTCCCAAT 60.019 41.667 19.68 5.48 45.01 3.16
2859 9398 5.190528 AGAACTCAGCTCTGATTTCCCAATA 59.809 40.000 19.68 0.00 45.01 1.90
2860 9399 4.775236 ACTCAGCTCTGATTTCCCAATAC 58.225 43.478 0.00 0.00 39.13 1.89
2861 9400 4.472833 ACTCAGCTCTGATTTCCCAATACT 59.527 41.667 0.00 0.00 39.13 2.12
2862 9401 5.045286 ACTCAGCTCTGATTTCCCAATACTT 60.045 40.000 0.00 0.00 39.13 2.24
2863 9402 5.431765 TCAGCTCTGATTTCCCAATACTTC 58.568 41.667 0.00 0.00 34.14 3.01
2864 9403 4.272018 CAGCTCTGATTTCCCAATACTTCG 59.728 45.833 0.00 0.00 0.00 3.79
2865 9404 4.080863 AGCTCTGATTTCCCAATACTTCGT 60.081 41.667 0.00 0.00 0.00 3.85
2866 9405 4.636206 GCTCTGATTTCCCAATACTTCGTT 59.364 41.667 0.00 0.00 0.00 3.85
2867 9406 5.123979 GCTCTGATTTCCCAATACTTCGTTT 59.876 40.000 0.00 0.00 0.00 3.60
2868 9407 6.494893 TCTGATTTCCCAATACTTCGTTTG 57.505 37.500 0.00 0.00 0.00 2.93
2869 9408 6.234920 TCTGATTTCCCAATACTTCGTTTGA 58.765 36.000 0.00 0.00 0.00 2.69
2870 9409 6.371548 TCTGATTTCCCAATACTTCGTTTGAG 59.628 38.462 0.00 0.00 0.00 3.02
2871 9410 6.001460 TGATTTCCCAATACTTCGTTTGAGT 58.999 36.000 0.00 0.00 0.00 3.41
2872 9411 5.682943 TTTCCCAATACTTCGTTTGAGTG 57.317 39.130 0.00 0.00 0.00 3.51
2873 9412 3.670625 TCCCAATACTTCGTTTGAGTGG 58.329 45.455 0.00 0.00 0.00 4.00
2883 9422 1.003545 CGTTTGAGTGGTGAAGCACAG 60.004 52.381 14.49 0.00 35.86 3.66
2884 9423 2.288666 GTTTGAGTGGTGAAGCACAGA 58.711 47.619 14.49 0.00 35.86 3.41
2885 9424 2.682856 GTTTGAGTGGTGAAGCACAGAA 59.317 45.455 14.49 4.26 35.86 3.02
2886 9425 1.953559 TGAGTGGTGAAGCACAGAAC 58.046 50.000 14.49 4.41 35.86 3.01
2887 9426 1.230324 GAGTGGTGAAGCACAGAACC 58.770 55.000 14.49 0.00 35.86 3.62
2888 9427 0.546122 AGTGGTGAAGCACAGAACCA 59.454 50.000 14.49 0.00 40.36 3.67
2889 9428 1.143684 AGTGGTGAAGCACAGAACCAT 59.856 47.619 14.49 0.00 44.18 3.55
2890 9429 1.267806 GTGGTGAAGCACAGAACCATG 59.732 52.381 7.73 0.00 44.18 3.66
2891 9430 1.133823 TGGTGAAGCACAGAACCATGT 60.134 47.619 0.00 0.00 37.77 3.21
2892 9431 1.956477 GGTGAAGCACAGAACCATGTT 59.044 47.619 0.00 0.00 35.86 2.71
2893 9432 2.362077 GGTGAAGCACAGAACCATGTTT 59.638 45.455 0.00 0.00 35.86 2.83
2894 9433 3.181476 GGTGAAGCACAGAACCATGTTTT 60.181 43.478 0.00 0.00 35.86 2.43
2895 9434 4.432712 GTGAAGCACAGAACCATGTTTTT 58.567 39.130 0.00 0.00 34.08 1.94
2896 9435 4.268405 GTGAAGCACAGAACCATGTTTTTG 59.732 41.667 0.00 0.00 34.08 2.44
2897 9436 4.159321 TGAAGCACAGAACCATGTTTTTGA 59.841 37.500 0.31 0.00 0.00 2.69
2898 9437 4.045636 AGCACAGAACCATGTTTTTGAC 57.954 40.909 0.31 0.00 0.00 3.18
2899 9438 3.446873 AGCACAGAACCATGTTTTTGACA 59.553 39.130 0.31 0.00 43.71 3.58
2900 9439 3.798337 GCACAGAACCATGTTTTTGACAG 59.202 43.478 0.31 0.00 42.62 3.51
2901 9440 4.677779 GCACAGAACCATGTTTTTGACAGT 60.678 41.667 0.31 0.00 42.62 3.55
2902 9441 5.410067 CACAGAACCATGTTTTTGACAGTT 58.590 37.500 0.31 0.00 42.62 3.16
2903 9442 6.559810 CACAGAACCATGTTTTTGACAGTTA 58.440 36.000 0.31 0.00 42.62 2.24
2904 9443 7.032580 CACAGAACCATGTTTTTGACAGTTAA 58.967 34.615 0.31 0.00 42.62 2.01
2905 9444 7.706179 CACAGAACCATGTTTTTGACAGTTAAT 59.294 33.333 0.31 0.00 42.62 1.40
2906 9445 7.706179 ACAGAACCATGTTTTTGACAGTTAATG 59.294 33.333 0.31 0.00 42.62 1.90
2907 9446 7.169645 CAGAACCATGTTTTTGACAGTTAATGG 59.830 37.037 0.00 0.00 42.62 3.16
2908 9447 6.478512 ACCATGTTTTTGACAGTTAATGGT 57.521 33.333 0.00 0.00 42.62 3.55
2909 9448 6.883744 ACCATGTTTTTGACAGTTAATGGTT 58.116 32.000 0.00 0.00 41.56 3.67
2910 9449 8.012957 ACCATGTTTTTGACAGTTAATGGTTA 57.987 30.769 0.00 0.00 41.56 2.85
2911 9450 8.141268 ACCATGTTTTTGACAGTTAATGGTTAG 58.859 33.333 0.00 0.00 41.56 2.34
2912 9451 8.356657 CCATGTTTTTGACAGTTAATGGTTAGA 58.643 33.333 0.00 0.00 42.62 2.10
2913 9452 9.743057 CATGTTTTTGACAGTTAATGGTTAGAA 57.257 29.630 0.00 0.00 42.62 2.10
2914 9453 9.965824 ATGTTTTTGACAGTTAATGGTTAGAAG 57.034 29.630 0.00 0.00 42.62 2.85
2915 9454 9.179909 TGTTTTTGACAGTTAATGGTTAGAAGA 57.820 29.630 0.00 0.00 33.40 2.87
2944 9483 9.567776 TTTTTGGTTTGAGATACTGTAATCTGA 57.432 29.630 0.00 0.00 36.33 3.27
2945 9484 9.567776 TTTTGGTTTGAGATACTGTAATCTGAA 57.432 29.630 0.00 0.00 36.33 3.02
2946 9485 9.739276 TTTGGTTTGAGATACTGTAATCTGAAT 57.261 29.630 0.00 0.00 36.33 2.57
2947 9486 9.739276 TTGGTTTGAGATACTGTAATCTGAATT 57.261 29.630 0.00 0.00 36.33 2.17
2948 9487 9.739276 TGGTTTGAGATACTGTAATCTGAATTT 57.261 29.630 0.00 0.00 36.33 1.82
2949 9488 9.994432 GGTTTGAGATACTGTAATCTGAATTTG 57.006 33.333 0.00 0.00 36.33 2.32
2953 9492 9.166173 TGAGATACTGTAATCTGAATTTGTTGG 57.834 33.333 0.00 0.00 36.33 3.77
2954 9493 7.989826 AGATACTGTAATCTGAATTTGTTGGC 58.010 34.615 0.00 0.00 34.87 4.52
2955 9494 5.391312 ACTGTAATCTGAATTTGTTGGCC 57.609 39.130 0.00 0.00 0.00 5.36
2956 9495 5.079643 ACTGTAATCTGAATTTGTTGGCCT 58.920 37.500 3.32 0.00 0.00 5.19
2957 9496 5.047802 ACTGTAATCTGAATTTGTTGGCCTG 60.048 40.000 3.32 0.00 0.00 4.85
2958 9497 5.076182 TGTAATCTGAATTTGTTGGCCTGA 58.924 37.500 3.32 0.00 0.00 3.86
2959 9498 5.538053 TGTAATCTGAATTTGTTGGCCTGAA 59.462 36.000 3.32 0.00 0.00 3.02
2960 9499 5.750352 AATCTGAATTTGTTGGCCTGAAT 57.250 34.783 3.32 0.00 0.00 2.57
2961 9500 4.789012 TCTGAATTTGTTGGCCTGAATC 57.211 40.909 3.32 0.00 0.00 2.52
2962 9501 4.410099 TCTGAATTTGTTGGCCTGAATCT 58.590 39.130 3.32 0.00 0.00 2.40
2963 9502 4.219070 TCTGAATTTGTTGGCCTGAATCTG 59.781 41.667 3.32 0.00 0.00 2.90
2964 9503 3.896888 TGAATTTGTTGGCCTGAATCTGT 59.103 39.130 3.32 0.00 0.00 3.41
2965 9504 3.947910 ATTTGTTGGCCTGAATCTGTG 57.052 42.857 3.32 0.00 0.00 3.66
2966 9505 0.961019 TTGTTGGCCTGAATCTGTGC 59.039 50.000 3.32 0.00 0.00 4.57
2967 9506 0.178995 TGTTGGCCTGAATCTGTGCA 60.179 50.000 3.32 0.00 0.00 4.57
2968 9507 0.524862 GTTGGCCTGAATCTGTGCAG 59.475 55.000 3.32 0.00 0.00 4.41
2969 9508 0.401356 TTGGCCTGAATCTGTGCAGA 59.599 50.000 3.32 4.23 42.37 4.26
2970 9509 0.035725 TGGCCTGAATCTGTGCAGAG 60.036 55.000 4.05 4.05 41.33 3.35
2971 9510 1.375098 GGCCTGAATCTGTGCAGAGC 61.375 60.000 5.87 5.18 41.33 4.09
2972 9511 0.675837 GCCTGAATCTGTGCAGAGCA 60.676 55.000 5.87 7.49 41.33 4.26
2973 9512 2.017623 GCCTGAATCTGTGCAGAGCAT 61.018 52.381 5.87 0.00 41.91 3.79
2974 9513 1.671328 CCTGAATCTGTGCAGAGCATG 59.329 52.381 5.87 0.00 41.91 4.06
2975 9514 2.629051 CTGAATCTGTGCAGAGCATGA 58.371 47.619 5.87 0.00 41.91 3.07
2976 9515 2.609916 CTGAATCTGTGCAGAGCATGAG 59.390 50.000 5.87 0.00 41.91 2.90
2977 9516 2.027469 TGAATCTGTGCAGAGCATGAGT 60.027 45.455 5.87 0.00 41.91 3.41
2978 9517 3.196254 TGAATCTGTGCAGAGCATGAGTA 59.804 43.478 5.87 0.00 41.91 2.59
2979 9518 3.900966 ATCTGTGCAGAGCATGAGTAA 57.099 42.857 5.87 0.00 41.91 2.24
2980 9519 3.900966 TCTGTGCAGAGCATGAGTAAT 57.099 42.857 5.87 0.00 41.91 1.89
2981 9520 3.790091 TCTGTGCAGAGCATGAGTAATC 58.210 45.455 5.87 0.00 41.91 1.75
2982 9521 3.450096 TCTGTGCAGAGCATGAGTAATCT 59.550 43.478 5.87 0.00 41.91 2.40
2983 9522 4.081254 TCTGTGCAGAGCATGAGTAATCTT 60.081 41.667 5.87 0.00 41.91 2.40
2984 9523 4.582869 TGTGCAGAGCATGAGTAATCTTT 58.417 39.130 0.00 0.00 41.91 2.52
2985 9524 5.005740 TGTGCAGAGCATGAGTAATCTTTT 58.994 37.500 0.00 0.00 41.91 2.27
2986 9525 5.474532 TGTGCAGAGCATGAGTAATCTTTTT 59.525 36.000 0.00 0.00 41.91 1.94
2987 9526 5.798934 GTGCAGAGCATGAGTAATCTTTTTG 59.201 40.000 0.00 0.00 41.91 2.44
2988 9527 5.474532 TGCAGAGCATGAGTAATCTTTTTGT 59.525 36.000 0.00 0.00 31.71 2.83
2989 9528 6.654582 TGCAGAGCATGAGTAATCTTTTTGTA 59.345 34.615 0.00 0.00 31.71 2.41
2990 9529 7.337689 TGCAGAGCATGAGTAATCTTTTTGTAT 59.662 33.333 0.00 0.00 31.71 2.29
2991 9530 7.854916 GCAGAGCATGAGTAATCTTTTTGTATC 59.145 37.037 0.00 0.00 0.00 2.24
2992 9531 8.060679 CAGAGCATGAGTAATCTTTTTGTATCG 58.939 37.037 0.00 0.00 0.00 2.92
2993 9532 7.981789 AGAGCATGAGTAATCTTTTTGTATCGA 59.018 33.333 0.00 0.00 0.00 3.59
2994 9533 8.668510 AGCATGAGTAATCTTTTTGTATCGAT 57.331 30.769 2.16 2.16 0.00 3.59
2995 9534 9.113838 AGCATGAGTAATCTTTTTGTATCGATT 57.886 29.630 1.71 0.00 0.00 3.34
2996 9535 9.722056 GCATGAGTAATCTTTTTGTATCGATTT 57.278 29.630 1.71 0.00 0.00 2.17
3032 9571 8.056407 ACTTCTATGGCTTCTTAAAACATTCC 57.944 34.615 0.00 0.00 0.00 3.01
3033 9572 6.677781 TCTATGGCTTCTTAAAACATTCCG 57.322 37.500 0.00 0.00 0.00 4.30
3034 9573 6.177610 TCTATGGCTTCTTAAAACATTCCGT 58.822 36.000 0.00 0.00 0.00 4.69
3035 9574 5.722021 ATGGCTTCTTAAAACATTCCGTT 57.278 34.783 0.00 0.00 40.50 4.44
3036 9575 4.865776 TGGCTTCTTAAAACATTCCGTTG 58.134 39.130 0.00 0.00 38.07 4.10
3037 9576 4.339814 TGGCTTCTTAAAACATTCCGTTGT 59.660 37.500 0.00 0.00 38.07 3.32
3038 9577 5.163499 TGGCTTCTTAAAACATTCCGTTGTT 60.163 36.000 0.00 0.00 41.49 2.83
3039 9578 5.401376 GGCTTCTTAAAACATTCCGTTGTTC 59.599 40.000 0.00 0.00 38.85 3.18
3040 9579 6.206498 GCTTCTTAAAACATTCCGTTGTTCT 58.794 36.000 0.00 0.00 38.85 3.01
3041 9580 6.142320 GCTTCTTAAAACATTCCGTTGTTCTG 59.858 38.462 0.00 0.00 38.85 3.02
3042 9581 6.067263 TCTTAAAACATTCCGTTGTTCTGG 57.933 37.500 0.00 0.00 38.85 3.86
3043 9582 5.591067 TCTTAAAACATTCCGTTGTTCTGGT 59.409 36.000 0.00 0.00 38.85 4.00
3044 9583 4.729227 AAAACATTCCGTTGTTCTGGTT 57.271 36.364 0.00 0.00 38.85 3.67
3045 9584 3.708563 AACATTCCGTTGTTCTGGTTG 57.291 42.857 0.00 0.00 34.83 3.77
3046 9585 1.953686 ACATTCCGTTGTTCTGGTTGG 59.046 47.619 0.00 0.00 0.00 3.77
3047 9586 2.226330 CATTCCGTTGTTCTGGTTGGA 58.774 47.619 0.00 0.00 0.00 3.53
3048 9587 1.961793 TTCCGTTGTTCTGGTTGGAG 58.038 50.000 0.00 0.00 0.00 3.86
3049 9588 1.124780 TCCGTTGTTCTGGTTGGAGA 58.875 50.000 0.00 0.00 0.00 3.71
3050 9589 1.487142 TCCGTTGTTCTGGTTGGAGAA 59.513 47.619 0.00 0.00 0.00 2.87
3051 9590 1.873591 CCGTTGTTCTGGTTGGAGAAG 59.126 52.381 0.00 0.00 32.53 2.85
3052 9591 2.561569 CGTTGTTCTGGTTGGAGAAGT 58.438 47.619 0.00 0.00 32.53 3.01
3053 9592 2.287915 CGTTGTTCTGGTTGGAGAAGTG 59.712 50.000 0.00 0.00 32.53 3.16
3065 11390 1.542492 GAGAAGTGTGTACCCGAGGA 58.458 55.000 0.00 0.00 0.00 3.71
3086 11411 3.652057 ACGATCCAATGGATTGACCTT 57.348 42.857 30.77 10.05 44.29 3.50
3208 11538 4.035558 TGTCAAGAATGTGAACTCTTGTGC 59.964 41.667 10.64 6.85 45.75 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
83 86 2.048127 ACCGACGAAGAGCAAGGC 60.048 61.111 0.00 0.00 0.00 4.35
89 92 2.484203 GGGACGACCGACGAAGAG 59.516 66.667 0.00 0.00 45.77 2.85
103 106 1.547372 ACTAAAAGCGAGTAAGCGGGA 59.453 47.619 0.00 0.00 43.00 5.14
111 114 2.458620 AGGAGCCTACTAAAAGCGAGT 58.541 47.619 0.00 0.00 0.00 4.18
210 222 1.070758 GCGGGAGAAGATGAATGGCTA 59.929 52.381 0.00 0.00 0.00 3.93
347 359 1.105167 CCATGCCGATGACCTTGCAT 61.105 55.000 0.00 0.00 44.79 3.96
588 646 1.065854 CAGGTTGCTTACTCCTCCCTG 60.066 57.143 0.00 0.00 32.80 4.45
589 647 1.280457 CAGGTTGCTTACTCCTCCCT 58.720 55.000 0.00 0.00 0.00 4.20
593 651 4.324331 GGGATTTACAGGTTGCTTACTCCT 60.324 45.833 0.00 0.00 0.00 3.69
595 653 3.945921 GGGGATTTACAGGTTGCTTACTC 59.054 47.826 0.00 0.00 0.00 2.59
596 654 3.308904 GGGGGATTTACAGGTTGCTTACT 60.309 47.826 0.00 0.00 0.00 2.24
601 1529 2.159179 ATGGGGGATTTACAGGTTGC 57.841 50.000 0.00 0.00 0.00 4.17
606 1534 4.578928 CGGAGTTTTATGGGGGATTTACAG 59.421 45.833 0.00 0.00 0.00 2.74
608 1536 3.887110 CCGGAGTTTTATGGGGGATTTAC 59.113 47.826 0.00 0.00 0.00 2.01
610 1538 2.583566 TCCGGAGTTTTATGGGGGATTT 59.416 45.455 0.00 0.00 0.00 2.17
611 1539 2.092049 GTCCGGAGTTTTATGGGGGATT 60.092 50.000 3.06 0.00 0.00 3.01
612 1540 1.493446 GTCCGGAGTTTTATGGGGGAT 59.507 52.381 3.06 0.00 0.00 3.85
613 1541 0.913924 GTCCGGAGTTTTATGGGGGA 59.086 55.000 3.06 0.00 0.00 4.81
615 1543 0.251073 ACGTCCGGAGTTTTATGGGG 59.749 55.000 3.06 0.00 0.00 4.96
616 1544 1.206371 AGACGTCCGGAGTTTTATGGG 59.794 52.381 13.01 0.00 0.00 4.00
618 1546 3.114065 GCTAGACGTCCGGAGTTTTATG 58.886 50.000 13.01 0.00 0.00 1.90
625 1553 0.526662 ACTTTGCTAGACGTCCGGAG 59.473 55.000 13.01 8.62 0.00 4.63
627 1555 0.458025 GGACTTTGCTAGACGTCCGG 60.458 60.000 13.01 6.47 36.88 5.14
683 1639 6.913170 AGTTTGTATTGGTCTTAAGCACATG 58.087 36.000 0.00 0.00 31.28 3.21
727 1683 7.178274 TGCTAATTTGGCTTTAGAGAAATTGGA 59.822 33.333 6.30 0.00 31.48 3.53
729 1685 8.761575 TTGCTAATTTGGCTTTAGAGAAATTG 57.238 30.769 6.30 0.00 31.94 2.32
736 1692 9.723601 AAAATTCATTGCTAATTTGGCTTTAGA 57.276 25.926 6.30 0.00 36.81 2.10
1943 3050 2.403259 GATTGGTTTTGCTTGGGAACG 58.597 47.619 0.00 0.00 0.00 3.95
2678 8970 8.800972 CCAACAATTTTTCGTTCATATCTGATG 58.199 33.333 0.00 0.00 0.00 3.07
2691 8983 5.007528 ACAAATTCAGGCCAACAATTTTTCG 59.992 36.000 5.01 3.73 29.17 3.46
2773 9312 7.693969 AGAGCAGCAGAATGTTTTAATAAGT 57.306 32.000 0.00 0.00 39.31 2.24
2777 9316 6.036517 CGACTAGAGCAGCAGAATGTTTTAAT 59.963 38.462 0.00 0.00 39.31 1.40
2809 9348 4.695560 GGTGCCTCAGTACACACC 57.304 61.111 0.00 1.05 45.22 4.16
2814 9353 0.535335 TTGGATCGGTGCCTCAGTAC 59.465 55.000 0.00 0.00 0.00 2.73
2817 9356 1.688735 TCTATTGGATCGGTGCCTCAG 59.311 52.381 0.00 0.00 0.00 3.35
2818 9357 1.788229 TCTATTGGATCGGTGCCTCA 58.212 50.000 0.00 0.00 0.00 3.86
2819 9358 2.103263 AGTTCTATTGGATCGGTGCCTC 59.897 50.000 0.00 0.00 0.00 4.70
2820 9359 2.103263 GAGTTCTATTGGATCGGTGCCT 59.897 50.000 0.00 0.00 0.00 4.75
2821 9360 2.158957 TGAGTTCTATTGGATCGGTGCC 60.159 50.000 0.00 0.00 0.00 5.01
2822 9361 3.126831 CTGAGTTCTATTGGATCGGTGC 58.873 50.000 0.00 0.00 0.00 5.01
2823 9362 3.126831 GCTGAGTTCTATTGGATCGGTG 58.873 50.000 0.00 0.00 0.00 4.94
2824 9363 3.034635 AGCTGAGTTCTATTGGATCGGT 58.965 45.455 0.00 0.00 0.00 4.69
2825 9364 3.320541 AGAGCTGAGTTCTATTGGATCGG 59.679 47.826 0.00 0.00 0.00 4.18
2826 9365 4.037327 TCAGAGCTGAGTTCTATTGGATCG 59.963 45.833 0.00 0.00 34.14 3.69
2827 9366 5.528043 TCAGAGCTGAGTTCTATTGGATC 57.472 43.478 0.00 0.00 34.14 3.36
2828 9367 6.497624 AATCAGAGCTGAGTTCTATTGGAT 57.502 37.500 0.00 0.00 43.61 3.41
2829 9368 5.946942 AATCAGAGCTGAGTTCTATTGGA 57.053 39.130 0.00 0.00 43.61 3.53
2838 9377 4.472833 AGTATTGGGAAATCAGAGCTGAGT 59.527 41.667 6.34 0.16 43.61 3.41
2839 9378 5.033589 AGTATTGGGAAATCAGAGCTGAG 57.966 43.478 6.34 0.00 43.61 3.35
2840 9379 5.431765 GAAGTATTGGGAAATCAGAGCTGA 58.568 41.667 2.23 2.23 44.59 4.26
2841 9380 4.272018 CGAAGTATTGGGAAATCAGAGCTG 59.728 45.833 0.00 0.00 0.00 4.24
2842 9381 4.080863 ACGAAGTATTGGGAAATCAGAGCT 60.081 41.667 0.00 0.00 41.94 4.09
2843 9382 4.192317 ACGAAGTATTGGGAAATCAGAGC 58.808 43.478 0.00 0.00 41.94 4.09
2844 9383 6.371548 TCAAACGAAGTATTGGGAAATCAGAG 59.628 38.462 0.00 0.00 45.00 3.35
2845 9384 6.234920 TCAAACGAAGTATTGGGAAATCAGA 58.765 36.000 0.00 0.00 45.00 3.27
2846 9385 6.149474 ACTCAAACGAAGTATTGGGAAATCAG 59.851 38.462 0.00 0.00 45.00 2.90
2847 9386 6.001460 ACTCAAACGAAGTATTGGGAAATCA 58.999 36.000 0.00 0.00 45.00 2.57
2848 9387 6.314784 CACTCAAACGAAGTATTGGGAAATC 58.685 40.000 0.00 0.00 45.00 2.17
2849 9388 5.183140 CCACTCAAACGAAGTATTGGGAAAT 59.817 40.000 0.00 0.00 45.00 2.17
2850 9389 4.517453 CCACTCAAACGAAGTATTGGGAAA 59.483 41.667 0.00 0.00 45.00 3.13
2851 9390 4.069304 CCACTCAAACGAAGTATTGGGAA 58.931 43.478 0.00 0.00 45.00 3.97
2852 9391 3.071892 ACCACTCAAACGAAGTATTGGGA 59.928 43.478 0.00 0.00 45.00 4.37
2853 9392 3.188460 CACCACTCAAACGAAGTATTGGG 59.812 47.826 0.00 0.00 45.00 4.12
2854 9393 4.062293 TCACCACTCAAACGAAGTATTGG 58.938 43.478 0.00 0.00 45.00 3.16
2855 9394 5.666969 TTCACCACTCAAACGAAGTATTG 57.333 39.130 0.00 0.00 45.00 1.90
2856 9395 4.213482 GCTTCACCACTCAAACGAAGTATT 59.787 41.667 0.00 0.00 45.00 1.89
2857 9396 3.746492 GCTTCACCACTCAAACGAAGTAT 59.254 43.478 0.00 0.00 45.00 2.12
2858 9397 3.128349 GCTTCACCACTCAAACGAAGTA 58.872 45.455 0.00 0.00 45.00 2.24
2859 9398 4.779920 GTGCTTCACCACTCAAACGAAGT 61.780 47.826 0.00 0.00 36.34 3.01
2860 9399 1.939934 TGCTTCACCACTCAAACGAAG 59.060 47.619 0.00 0.00 36.89 3.79
2861 9400 1.668751 GTGCTTCACCACTCAAACGAA 59.331 47.619 0.00 0.00 33.02 3.85
2862 9401 1.295792 GTGCTTCACCACTCAAACGA 58.704 50.000 0.00 0.00 33.02 3.85
2863 9402 1.003545 CTGTGCTTCACCACTCAAACG 60.004 52.381 0.00 0.00 36.68 3.60
2864 9403 2.288666 TCTGTGCTTCACCACTCAAAC 58.711 47.619 0.00 0.00 36.68 2.93
2865 9404 2.682856 GTTCTGTGCTTCACCACTCAAA 59.317 45.455 0.00 0.00 36.68 2.69
2866 9405 2.288666 GTTCTGTGCTTCACCACTCAA 58.711 47.619 0.00 0.00 36.68 3.02
2867 9406 1.475034 GGTTCTGTGCTTCACCACTCA 60.475 52.381 0.00 0.00 36.68 3.41
2868 9407 1.230324 GGTTCTGTGCTTCACCACTC 58.770 55.000 0.00 0.00 36.68 3.51
2869 9408 0.546122 TGGTTCTGTGCTTCACCACT 59.454 50.000 0.00 0.00 36.68 4.00
2870 9409 1.267806 CATGGTTCTGTGCTTCACCAC 59.732 52.381 0.00 0.00 32.73 4.16
2871 9410 1.133823 ACATGGTTCTGTGCTTCACCA 60.134 47.619 0.00 0.00 32.73 4.17
2872 9411 1.609208 ACATGGTTCTGTGCTTCACC 58.391 50.000 0.00 0.00 32.73 4.02
2873 9412 3.715628 AAACATGGTTCTGTGCTTCAC 57.284 42.857 0.00 0.00 34.56 3.18
2883 9422 6.983890 ACCATTAACTGTCAAAAACATGGTTC 59.016 34.615 0.00 0.00 41.39 3.62
2884 9423 6.883744 ACCATTAACTGTCAAAAACATGGTT 58.116 32.000 0.00 0.00 41.39 3.67
2885 9424 6.478512 ACCATTAACTGTCAAAAACATGGT 57.521 33.333 0.00 0.00 40.05 3.55
2886 9425 8.356657 TCTAACCATTAACTGTCAAAAACATGG 58.643 33.333 0.00 0.00 38.47 3.66
2887 9426 9.743057 TTCTAACCATTAACTGTCAAAAACATG 57.257 29.630 0.00 0.00 37.23 3.21
2888 9427 9.965824 CTTCTAACCATTAACTGTCAAAAACAT 57.034 29.630 0.00 0.00 37.23 2.71
2889 9428 9.179909 TCTTCTAACCATTAACTGTCAAAAACA 57.820 29.630 0.00 0.00 36.18 2.83
2918 9457 9.567776 TCAGATTACAGTATCTCAAACCAAAAA 57.432 29.630 0.00 0.00 32.60 1.94
2919 9458 9.567776 TTCAGATTACAGTATCTCAAACCAAAA 57.432 29.630 0.00 0.00 32.60 2.44
2920 9459 9.739276 ATTCAGATTACAGTATCTCAAACCAAA 57.261 29.630 0.00 0.00 32.60 3.28
2921 9460 9.739276 AATTCAGATTACAGTATCTCAAACCAA 57.261 29.630 0.00 0.00 32.60 3.67
2922 9461 9.739276 AAATTCAGATTACAGTATCTCAAACCA 57.261 29.630 0.00 0.00 32.60 3.67
2923 9462 9.994432 CAAATTCAGATTACAGTATCTCAAACC 57.006 33.333 0.00 0.00 32.60 3.27
2927 9466 9.166173 CCAACAAATTCAGATTACAGTATCTCA 57.834 33.333 0.00 0.00 32.60 3.27
2928 9467 8.125448 GCCAACAAATTCAGATTACAGTATCTC 58.875 37.037 0.00 0.00 32.60 2.75
2929 9468 7.067494 GGCCAACAAATTCAGATTACAGTATCT 59.933 37.037 0.00 0.00 35.26 1.98
2930 9469 7.067494 AGGCCAACAAATTCAGATTACAGTATC 59.933 37.037 5.01 0.00 0.00 2.24
2931 9470 6.891908 AGGCCAACAAATTCAGATTACAGTAT 59.108 34.615 5.01 0.00 0.00 2.12
2932 9471 6.150976 CAGGCCAACAAATTCAGATTACAGTA 59.849 38.462 5.01 0.00 0.00 2.74
2933 9472 5.047802 CAGGCCAACAAATTCAGATTACAGT 60.048 40.000 5.01 0.00 0.00 3.55
2934 9473 5.183713 TCAGGCCAACAAATTCAGATTACAG 59.816 40.000 5.01 0.00 0.00 2.74
2935 9474 5.076182 TCAGGCCAACAAATTCAGATTACA 58.924 37.500 5.01 0.00 0.00 2.41
2936 9475 5.643379 TCAGGCCAACAAATTCAGATTAC 57.357 39.130 5.01 0.00 0.00 1.89
2937 9476 6.664816 AGATTCAGGCCAACAAATTCAGATTA 59.335 34.615 5.01 0.00 0.00 1.75
2938 9477 5.482878 AGATTCAGGCCAACAAATTCAGATT 59.517 36.000 5.01 0.00 0.00 2.40
2939 9478 5.021458 AGATTCAGGCCAACAAATTCAGAT 58.979 37.500 5.01 0.00 0.00 2.90
2940 9479 4.219070 CAGATTCAGGCCAACAAATTCAGA 59.781 41.667 5.01 0.00 0.00 3.27
2941 9480 4.021719 ACAGATTCAGGCCAACAAATTCAG 60.022 41.667 5.01 0.00 0.00 3.02
2942 9481 3.896888 ACAGATTCAGGCCAACAAATTCA 59.103 39.130 5.01 0.00 0.00 2.57
2943 9482 4.240096 CACAGATTCAGGCCAACAAATTC 58.760 43.478 5.01 0.00 0.00 2.17
2944 9483 3.555586 GCACAGATTCAGGCCAACAAATT 60.556 43.478 5.01 0.00 0.00 1.82
2945 9484 2.028748 GCACAGATTCAGGCCAACAAAT 60.029 45.455 5.01 0.00 0.00 2.32
2946 9485 1.340889 GCACAGATTCAGGCCAACAAA 59.659 47.619 5.01 0.00 0.00 2.83
2947 9486 0.961019 GCACAGATTCAGGCCAACAA 59.039 50.000 5.01 0.00 0.00 2.83
2948 9487 0.178995 TGCACAGATTCAGGCCAACA 60.179 50.000 5.01 0.00 0.00 3.33
2949 9488 0.524862 CTGCACAGATTCAGGCCAAC 59.475 55.000 5.01 0.00 0.00 3.77
2950 9489 0.401356 TCTGCACAGATTCAGGCCAA 59.599 50.000 5.01 0.00 31.41 4.52
2951 9490 0.035725 CTCTGCACAGATTCAGGCCA 60.036 55.000 5.01 0.00 36.76 5.36
2952 9491 1.375098 GCTCTGCACAGATTCAGGCC 61.375 60.000 0.00 0.00 36.76 5.19
2953 9492 0.675837 TGCTCTGCACAGATTCAGGC 60.676 55.000 0.00 1.57 36.76 4.85
2954 9493 1.671328 CATGCTCTGCACAGATTCAGG 59.329 52.381 0.00 1.20 43.04 3.86
2955 9494 2.609916 CTCATGCTCTGCACAGATTCAG 59.390 50.000 0.00 0.00 43.04 3.02
2956 9495 2.027469 ACTCATGCTCTGCACAGATTCA 60.027 45.455 0.00 3.33 43.04 2.57
2957 9496 2.630158 ACTCATGCTCTGCACAGATTC 58.370 47.619 0.00 0.00 43.04 2.52
2958 9497 2.783609 ACTCATGCTCTGCACAGATT 57.216 45.000 0.00 0.00 43.04 2.40
2959 9498 3.900966 TTACTCATGCTCTGCACAGAT 57.099 42.857 0.00 0.00 43.04 2.90
2960 9499 3.450096 AGATTACTCATGCTCTGCACAGA 59.550 43.478 0.00 0.00 43.04 3.41
2961 9500 3.794717 AGATTACTCATGCTCTGCACAG 58.205 45.455 0.00 0.00 43.04 3.66
2962 9501 3.900966 AGATTACTCATGCTCTGCACA 57.099 42.857 0.00 0.00 43.04 4.57
2963 9502 5.557891 AAAAGATTACTCATGCTCTGCAC 57.442 39.130 0.00 0.00 43.04 4.57
2964 9503 5.474532 ACAAAAAGATTACTCATGCTCTGCA 59.525 36.000 0.00 0.00 44.86 4.41
2965 9504 5.947443 ACAAAAAGATTACTCATGCTCTGC 58.053 37.500 0.00 0.00 0.00 4.26
2966 9505 8.060679 CGATACAAAAAGATTACTCATGCTCTG 58.939 37.037 0.00 0.00 0.00 3.35
2967 9506 7.981789 TCGATACAAAAAGATTACTCATGCTCT 59.018 33.333 0.00 0.00 0.00 4.09
2968 9507 8.131455 TCGATACAAAAAGATTACTCATGCTC 57.869 34.615 0.00 0.00 0.00 4.26
2969 9508 8.668510 ATCGATACAAAAAGATTACTCATGCT 57.331 30.769 0.00 0.00 0.00 3.79
2970 9509 9.722056 AAATCGATACAAAAAGATTACTCATGC 57.278 29.630 0.00 0.00 33.50 4.06
3006 9545 9.174166 GGAATGTTTTAAGAAGCCATAGAAGTA 57.826 33.333 0.00 0.00 0.00 2.24
3007 9546 7.148239 CGGAATGTTTTAAGAAGCCATAGAAGT 60.148 37.037 0.00 0.00 0.00 3.01
3008 9547 7.148239 ACGGAATGTTTTAAGAAGCCATAGAAG 60.148 37.037 0.00 0.00 0.00 2.85
3009 9548 6.657541 ACGGAATGTTTTAAGAAGCCATAGAA 59.342 34.615 0.00 0.00 0.00 2.10
3010 9549 6.177610 ACGGAATGTTTTAAGAAGCCATAGA 58.822 36.000 0.00 0.00 0.00 1.98
3011 9550 6.436843 ACGGAATGTTTTAAGAAGCCATAG 57.563 37.500 0.00 0.00 0.00 2.23
3012 9551 6.207810 ACAACGGAATGTTTTAAGAAGCCATA 59.792 34.615 0.00 0.00 39.29 2.74
3013 9552 5.010617 ACAACGGAATGTTTTAAGAAGCCAT 59.989 36.000 0.00 0.00 39.29 4.40
3014 9553 4.339814 ACAACGGAATGTTTTAAGAAGCCA 59.660 37.500 0.00 0.00 39.29 4.75
3015 9554 4.866921 ACAACGGAATGTTTTAAGAAGCC 58.133 39.130 0.00 0.00 39.29 4.35
3016 9555 6.142320 CAGAACAACGGAATGTTTTAAGAAGC 59.858 38.462 5.22 0.00 43.31 3.86
3017 9556 6.636850 CCAGAACAACGGAATGTTTTAAGAAG 59.363 38.462 5.22 0.00 43.31 2.85
3018 9557 6.095720 ACCAGAACAACGGAATGTTTTAAGAA 59.904 34.615 5.22 0.00 43.31 2.52
3019 9558 5.591067 ACCAGAACAACGGAATGTTTTAAGA 59.409 36.000 5.22 0.00 43.31 2.10
3020 9559 5.827666 ACCAGAACAACGGAATGTTTTAAG 58.172 37.500 5.22 0.00 43.31 1.85
3021 9560 5.838531 ACCAGAACAACGGAATGTTTTAA 57.161 34.783 5.22 0.00 43.31 1.52
3022 9561 5.450688 CCAACCAGAACAACGGAATGTTTTA 60.451 40.000 5.22 0.00 43.31 1.52
3023 9562 4.429108 CAACCAGAACAACGGAATGTTTT 58.571 39.130 5.22 0.00 43.31 2.43
3024 9563 3.181480 CCAACCAGAACAACGGAATGTTT 60.181 43.478 5.22 0.00 43.31 2.83
3025 9564 2.360801 CCAACCAGAACAACGGAATGTT 59.639 45.455 3.58 3.58 45.82 2.71
3026 9565 1.953686 CCAACCAGAACAACGGAATGT 59.046 47.619 0.00 0.00 34.24 2.71
3027 9566 2.226330 TCCAACCAGAACAACGGAATG 58.774 47.619 0.00 0.00 0.00 2.67
3028 9567 2.105821 TCTCCAACCAGAACAACGGAAT 59.894 45.455 0.00 0.00 0.00 3.01
3029 9568 1.487142 TCTCCAACCAGAACAACGGAA 59.513 47.619 0.00 0.00 0.00 4.30
3030 9569 1.124780 TCTCCAACCAGAACAACGGA 58.875 50.000 0.00 0.00 0.00 4.69
3031 9570 1.873591 CTTCTCCAACCAGAACAACGG 59.126 52.381 0.00 0.00 0.00 4.44
3032 9571 2.287915 CACTTCTCCAACCAGAACAACG 59.712 50.000 0.00 0.00 0.00 4.10
3033 9572 3.065371 CACACTTCTCCAACCAGAACAAC 59.935 47.826 0.00 0.00 0.00 3.32
3034 9573 3.278574 CACACTTCTCCAACCAGAACAA 58.721 45.455 0.00 0.00 0.00 2.83
3035 9574 2.238646 ACACACTTCTCCAACCAGAACA 59.761 45.455 0.00 0.00 0.00 3.18
3036 9575 2.919228 ACACACTTCTCCAACCAGAAC 58.081 47.619 0.00 0.00 0.00 3.01
3037 9576 3.181458 GGTACACACTTCTCCAACCAGAA 60.181 47.826 0.00 0.00 0.00 3.02
3038 9577 2.367567 GGTACACACTTCTCCAACCAGA 59.632 50.000 0.00 0.00 0.00 3.86
3039 9578 2.550208 GGGTACACACTTCTCCAACCAG 60.550 54.545 0.00 0.00 0.00 4.00
3040 9579 1.418637 GGGTACACACTTCTCCAACCA 59.581 52.381 0.00 0.00 0.00 3.67
3041 9580 1.607251 CGGGTACACACTTCTCCAACC 60.607 57.143 0.00 0.00 0.00 3.77
3042 9581 1.342174 TCGGGTACACACTTCTCCAAC 59.658 52.381 0.00 0.00 0.00 3.77
3043 9582 1.616865 CTCGGGTACACACTTCTCCAA 59.383 52.381 0.00 0.00 0.00 3.53
3044 9583 1.254026 CTCGGGTACACACTTCTCCA 58.746 55.000 0.00 0.00 0.00 3.86
3045 9584 0.531200 CCTCGGGTACACACTTCTCC 59.469 60.000 0.00 0.00 0.00 3.71
3046 9585 1.542492 TCCTCGGGTACACACTTCTC 58.458 55.000 0.00 0.00 0.00 2.87
3047 9586 1.617357 GTTCCTCGGGTACACACTTCT 59.383 52.381 0.00 0.00 0.00 2.85
3048 9587 1.668047 CGTTCCTCGGGTACACACTTC 60.668 57.143 0.00 0.00 35.71 3.01
3049 9588 0.316204 CGTTCCTCGGGTACACACTT 59.684 55.000 0.00 0.00 35.71 3.16
3050 9589 0.538057 TCGTTCCTCGGGTACACACT 60.538 55.000 0.00 0.00 40.32 3.55
3051 9590 0.529378 ATCGTTCCTCGGGTACACAC 59.471 55.000 0.00 0.00 40.32 3.82
3052 9591 0.813184 GATCGTTCCTCGGGTACACA 59.187 55.000 0.00 0.00 40.32 3.72
3053 9592 0.101939 GGATCGTTCCTCGGGTACAC 59.898 60.000 5.21 0.00 39.14 2.90
3065 11390 3.652057 AGGTCAATCCATTGGATCGTT 57.348 42.857 18.45 1.33 42.27 3.85
3086 11411 5.441500 TCAAAGGAAGTATTGTGACACCAA 58.558 37.500 2.45 0.00 0.00 3.67
3208 11538 1.400142 TCAAAGCTTCACCAACACACG 59.600 47.619 0.00 0.00 0.00 4.49


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

AutoCloner maintained by Alex Coulton.