Multiple sequence alignment - TraesCS3B01G142900

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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 TraesCS3B01G142900 chr3B 100.000 2814 0 0 1 2814 131572648 131575461 0.000000e+00 5197.0
1 TraesCS3B01G142900 chr3B 82.889 713 102 18 1332 2030 578621522 578620816 8.560000e-175 623.0
2 TraesCS3B01G142900 chr3B 74.395 785 123 45 1795 2554 462068193 462067462 5.980000e-67 265.0
3 TraesCS3B01G142900 chr3B 95.902 122 5 0 2647 2768 139036370 139036491 6.150000e-47 198.0
4 TraesCS3B01G142900 chr3B 84.865 185 27 1 490 674 578623713 578623530 4.790000e-43 185.0
5 TraesCS3B01G142900 chr2A 92.173 2517 102 27 1 2467 303743837 303741366 0.000000e+00 3469.0
6 TraesCS3B01G142900 chr2A 96.257 187 6 1 2369 2554 303741365 303741179 3.520000e-79 305.0
7 TraesCS3B01G142900 chr2A 93.182 132 9 0 2638 2769 630094752 630094621 7.950000e-46 195.0
8 TraesCS3B01G142900 chr2A 90.647 139 12 1 2640 2778 413337989 413337852 1.720000e-42 183.0
9 TraesCS3B01G142900 chr7B 91.115 2341 131 29 1 2300 680122854 680125158 0.000000e+00 3099.0
10 TraesCS3B01G142900 chr7B 95.062 243 12 0 2311 2553 680125325 680125567 1.580000e-102 383.0
11 TraesCS3B01G142900 chr7B 84.530 181 21 6 1804 1977 637281262 637281442 3.730000e-39 172.0
12 TraesCS3B01G142900 chr4A 92.342 679 44 8 1 674 136860462 136861137 0.000000e+00 959.0
13 TraesCS3B01G142900 chr4A 87.117 815 69 13 1030 1841 136873636 136874417 0.000000e+00 891.0
14 TraesCS3B01G142900 chr4A 86.558 677 51 11 1888 2553 136874422 136875069 0.000000e+00 710.0
15 TraesCS3B01G142900 chr1A 80.831 1252 168 45 827 2035 29194248 29193026 0.000000e+00 917.0
16 TraesCS3B01G142900 chr5B 82.809 1018 135 31 1030 2032 490356574 490357566 0.000000e+00 874.0
17 TraesCS3B01G142900 chr5B 92.481 133 10 0 2647 2779 640272862 640272730 1.030000e-44 191.0
18 TraesCS3B01G142900 chr6B 82.394 1011 154 16 1035 2032 567601355 567602354 0.000000e+00 859.0
19 TraesCS3B01G142900 chr6B 79.228 337 61 9 338 671 567599388 567599718 2.820000e-55 226.0
20 TraesCS3B01G142900 chr6B 93.750 128 8 0 2647 2774 226196656 226196529 2.860000e-45 193.0
21 TraesCS3B01G142900 chr6B 88.820 161 13 5 727 886 567601043 567601199 2.860000e-45 193.0
22 TraesCS3B01G142900 chr6B 93.182 44 3 0 674 717 567599749 567599792 6.510000e-07 65.8
23 TraesCS3B01G142900 chr4D 85.366 656 88 6 1332 1982 278249994 278249342 0.000000e+00 673.0
24 TraesCS3B01G142900 chr4D 78.755 546 69 22 717 1232 278250638 278250110 3.500000e-84 322.0
25 TraesCS3B01G142900 chr4D 85.890 163 21 2 2607 2769 323575196 323575356 3.730000e-39 172.0
26 TraesCS3B01G142900 chr2D 84.465 663 92 9 1332 1987 500490946 500490288 0.000000e+00 643.0
27 TraesCS3B01G142900 chr2D 78.755 546 70 16 717 1233 500491589 500491061 9.720000e-85 324.0
28 TraesCS3B01G142900 chr5D 78.929 878 107 39 727 1570 559668885 559668052 2.480000e-145 525.0
29 TraesCS3B01G142900 chr6D 80.312 706 80 33 795 1463 129172486 129171803 1.960000e-131 479.0
30 TraesCS3B01G142900 chr6D 80.952 231 41 3 2324 2553 18663817 18664045 2.230000e-41 180.0
31 TraesCS3B01G142900 chr6D 95.918 49 1 1 2598 2646 199704849 199704896 8.360000e-11 78.7
32 TraesCS3B01G142900 chr3D 77.475 808 114 34 717 1476 419870686 419869899 3.350000e-114 422.0
33 TraesCS3B01G142900 chr3D 79.630 324 44 15 2232 2553 419842042 419841739 2.200000e-51 213.0
34 TraesCS3B01G142900 chr3D 91.489 141 12 0 2638 2778 496172752 496172892 7.950000e-46 195.0
35 TraesCS3B01G142900 chr3A 81.317 562 67 23 758 1286 359579888 359580444 3.350000e-114 422.0
36 TraesCS3B01G142900 chr1B 90.076 262 19 4 2553 2814 433633122 433632868 1.620000e-87 333.0
37 TraesCS3B01G142900 chr1B 90.141 142 14 0 2635 2776 585330854 585330995 4.790000e-43 185.0
38 TraesCS3B01G142900 chr5A 85.116 215 31 1 1052 1265 331865212 331865426 4.720000e-53 219.0
39 TraesCS3B01G142900 chr5A 90.511 137 12 1 726 862 331864880 331865015 2.230000e-41 180.0
40 TraesCS3B01G142900 chr4B 84.615 182 27 1 493 674 476947597 476947417 2.230000e-41 180.0
41 TraesCS3B01G142900 chr4B 89.286 56 4 2 2500 2554 14398056 14398002 5.030000e-08 69.4
42 TraesCS3B01G142900 chrUn 93.750 64 4 0 2490 2553 461765020 461764957 2.310000e-16 97.1
43 TraesCS3B01G142900 chr2B 88.679 53 4 2 2500 2551 6723016 6722965 2.340000e-06 63.9


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 TraesCS3B01G142900 chr3B 131572648 131575461 2813 False 5197.00 5197 100.0000 1 2814 1 chr3B.!!$F1 2813
1 TraesCS3B01G142900 chr3B 578620816 578623713 2897 True 404.00 623 83.8770 490 2030 2 chr3B.!!$R2 1540
2 TraesCS3B01G142900 chr3B 462067462 462068193 731 True 265.00 265 74.3950 1795 2554 1 chr3B.!!$R1 759
3 TraesCS3B01G142900 chr2A 303741179 303743837 2658 True 1887.00 3469 94.2150 1 2554 2 chr2A.!!$R3 2553
4 TraesCS3B01G142900 chr7B 680122854 680125567 2713 False 1741.00 3099 93.0885 1 2553 2 chr7B.!!$F2 2552
5 TraesCS3B01G142900 chr4A 136860462 136861137 675 False 959.00 959 92.3420 1 674 1 chr4A.!!$F1 673
6 TraesCS3B01G142900 chr4A 136873636 136875069 1433 False 800.50 891 86.8375 1030 2553 2 chr4A.!!$F2 1523
7 TraesCS3B01G142900 chr1A 29193026 29194248 1222 True 917.00 917 80.8310 827 2035 1 chr1A.!!$R1 1208
8 TraesCS3B01G142900 chr5B 490356574 490357566 992 False 874.00 874 82.8090 1030 2032 1 chr5B.!!$F1 1002
9 TraesCS3B01G142900 chr6B 567599388 567602354 2966 False 335.95 859 85.9060 338 2032 4 chr6B.!!$F1 1694
10 TraesCS3B01G142900 chr4D 278249342 278250638 1296 True 497.50 673 82.0605 717 1982 2 chr4D.!!$R1 1265
11 TraesCS3B01G142900 chr2D 500490288 500491589 1301 True 483.50 643 81.6100 717 1987 2 chr2D.!!$R1 1270
12 TraesCS3B01G142900 chr5D 559668052 559668885 833 True 525.00 525 78.9290 727 1570 1 chr5D.!!$R1 843
13 TraesCS3B01G142900 chr6D 129171803 129172486 683 True 479.00 479 80.3120 795 1463 1 chr6D.!!$R1 668
14 TraesCS3B01G142900 chr3D 419869899 419870686 787 True 422.00 422 77.4750 717 1476 1 chr3D.!!$R2 759
15 TraesCS3B01G142900 chr3A 359579888 359580444 556 False 422.00 422 81.3170 758 1286 1 chr3A.!!$F1 528

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
547 555 0.465278 GAGCCCTTCAAGGATGCCTC 60.465 60.0 4.43 1.45 37.67 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2307 3822 0.241213 TAGCGAGCTCACACTCACAC 59.759 55.0 15.4 0.0 36.42 3.82 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
69 71 6.947733 TCATCCAAACTGAAATTAGTCACCAT 59.052 34.615 0.00 0.00 0.00 3.55
88 91 8.028938 GTCACCATTATGAGTATTGCAAAAACT 58.971 33.333 15.48 15.48 0.00 2.66
157 161 7.758528 GCGGTAGGTACGATCATATTTAGATTT 59.241 37.037 0.00 0.00 0.00 2.17
342 350 7.597369 CGATAATTATGTTCCCACGACTATTCA 59.403 37.037 1.78 0.00 0.00 2.57
424 432 6.611613 TGTATTGGGCATTAAAAACCATCA 57.388 33.333 0.00 0.00 32.18 3.07
441 449 6.515272 ACCATCATCACCACTTAATTTGTC 57.485 37.500 0.00 0.00 0.00 3.18
547 555 0.465278 GAGCCCTTCAAGGATGCCTC 60.465 60.000 4.43 1.45 37.67 4.70
656 664 4.323868 CGAAGAAGGCTACGAGTTTTACAG 59.676 45.833 0.00 0.00 0.00 2.74
885 2249 8.958506 ACTAGTAAGTTCGAATATGTCTCTGTT 58.041 33.333 0.00 0.00 29.00 3.16
972 2344 0.961019 ATGCGGTTGTCATTTGCAGT 59.039 45.000 0.00 0.00 39.17 4.40
1014 2390 0.174845 CCCAAATGAGGTGCATGCAG 59.825 55.000 23.41 6.47 37.28 4.41
1043 2446 2.240493 ATACCAGCGCTGTATGAACC 57.760 50.000 33.75 0.00 0.00 3.62
1123 2527 4.023193 TCAAATTTCAGTCGAGGGAAAAGC 60.023 41.667 13.52 0.00 36.67 3.51
1205 2609 1.221414 GGGACATTCGAGCACTATGC 58.779 55.000 0.00 0.00 45.46 3.14
1448 2880 1.069204 TGCGCTACCAGAAGGATCATC 59.931 52.381 9.73 0.00 38.69 2.92
1544 2977 1.404986 GCAATGTGGAAGCATGTGCAT 60.405 47.619 7.83 0.00 45.16 3.96
1689 3122 1.898574 AGCACTTTGGCCGAACTGG 60.899 57.895 0.00 0.00 42.50 4.00
1699 3132 1.079543 CCGAACTGGGTCTGAGCAG 60.080 63.158 9.30 6.93 0.00 4.24
1720 3153 2.352960 GACCATTTCGCAAGGATCAGAC 59.647 50.000 0.00 0.00 38.47 3.51
1775 3217 2.345991 GTCCCACAACTAGCCGCA 59.654 61.111 0.00 0.00 0.00 5.69
1804 3247 4.513442 CTCCATACGAGGAACCATCAAAA 58.487 43.478 0.00 0.00 37.20 2.44
1805 3248 4.513442 TCCATACGAGGAACCATCAAAAG 58.487 43.478 0.00 0.00 33.93 2.27
1806 3249 4.224147 TCCATACGAGGAACCATCAAAAGA 59.776 41.667 0.00 0.00 33.93 2.52
1807 3250 4.572389 CCATACGAGGAACCATCAAAAGAG 59.428 45.833 0.00 0.00 0.00 2.85
1953 3405 2.985282 CACATGCAGCAACCCGGT 60.985 61.111 0.00 0.00 0.00 5.28
2132 3627 1.333619 GTTGTGCTGAAATGGACACGT 59.666 47.619 0.00 0.00 37.98 4.49
2195 3690 1.529152 GCCGGATTCCCAAAACGGTT 61.529 55.000 5.05 0.00 45.85 4.44
2247 3742 2.107141 CTGGCTACACCGGCTAGC 59.893 66.667 19.28 19.28 43.94 3.42
2248 3743 2.682136 TGGCTACACCGGCTAGCA 60.682 61.111 25.56 13.69 43.94 3.49
2249 3744 2.107141 GGCTACACCGGCTAGCAG 59.893 66.667 25.56 13.09 38.75 4.24
2250 3745 2.586357 GCTACACCGGCTAGCAGC 60.586 66.667 21.54 11.88 41.46 5.25
2293 3808 0.448990 CGTGCCCATGTTCATCAGTG 59.551 55.000 0.00 0.00 0.00 3.66
2294 3809 1.538047 GTGCCCATGTTCATCAGTGT 58.462 50.000 0.00 0.00 0.00 3.55
2295 3810 1.200716 GTGCCCATGTTCATCAGTGTG 59.799 52.381 0.00 0.00 0.00 3.82
2296 3811 1.202915 TGCCCATGTTCATCAGTGTGT 60.203 47.619 0.00 0.00 0.00 3.72
2297 3812 1.200716 GCCCATGTTCATCAGTGTGTG 59.799 52.381 0.00 0.00 0.00 3.82
2298 3813 2.507484 CCCATGTTCATCAGTGTGTGT 58.493 47.619 0.00 0.00 0.00 3.72
2299 3814 2.227149 CCCATGTTCATCAGTGTGTGTG 59.773 50.000 0.00 0.00 0.00 3.82
2300 3815 2.880268 CCATGTTCATCAGTGTGTGTGT 59.120 45.455 0.00 0.00 0.00 3.72
2301 3816 3.304190 CCATGTTCATCAGTGTGTGTGTG 60.304 47.826 0.00 0.00 0.00 3.82
2302 3817 2.984562 TGTTCATCAGTGTGTGTGTGT 58.015 42.857 0.00 0.00 0.00 3.72
2303 3818 2.677337 TGTTCATCAGTGTGTGTGTGTG 59.323 45.455 0.00 0.00 0.00 3.82
2304 3819 2.677836 GTTCATCAGTGTGTGTGTGTGT 59.322 45.455 0.00 0.00 0.00 3.72
2305 3820 2.278854 TCATCAGTGTGTGTGTGTGTG 58.721 47.619 0.00 0.00 0.00 3.82
2306 3821 2.009051 CATCAGTGTGTGTGTGTGTGT 58.991 47.619 0.00 0.00 0.00 3.72
2307 3822 1.437625 TCAGTGTGTGTGTGTGTGTG 58.562 50.000 0.00 0.00 0.00 3.82
2308 3823 1.155889 CAGTGTGTGTGTGTGTGTGT 58.844 50.000 0.00 0.00 0.00 3.72
2309 3824 1.136000 CAGTGTGTGTGTGTGTGTGTG 60.136 52.381 0.00 0.00 0.00 3.82
2310 3825 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2311 3826 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2312 3827 1.152510 GTGTGTGTGTGTGTGTGTGA 58.847 50.000 0.00 0.00 0.00 3.58
2345 4036 3.243670 GCTAGCACTGCAGAGACATGATA 60.244 47.826 23.35 9.87 0.00 2.15
2482 4273 0.887247 ACATTAATGCCACGCTGCAA 59.113 45.000 15.48 0.00 45.84 4.08
2554 4345 2.050691 CCTCCAAACAACATTTTCGCG 58.949 47.619 0.00 0.00 0.00 5.87
2555 4346 2.287308 CCTCCAAACAACATTTTCGCGA 60.287 45.455 3.71 3.71 0.00 5.87
2556 4347 3.564511 CTCCAAACAACATTTTCGCGAT 58.435 40.909 10.88 0.00 0.00 4.58
2557 4348 4.378978 CCTCCAAACAACATTTTCGCGATA 60.379 41.667 10.88 0.90 0.00 2.92
2558 4349 4.717991 TCCAAACAACATTTTCGCGATAG 58.282 39.130 10.88 2.56 0.00 2.08
2559 4350 4.452795 TCCAAACAACATTTTCGCGATAGA 59.547 37.500 10.88 0.00 39.76 1.98
2560 4351 5.049336 TCCAAACAACATTTTCGCGATAGAA 60.049 36.000 10.88 6.06 39.76 2.10
2561 4352 5.283717 CCAAACAACATTTTCGCGATAGAAG 59.716 40.000 10.88 1.75 39.76 2.85
2562 4353 4.003519 ACAACATTTTCGCGATAGAAGC 57.996 40.909 10.88 0.00 39.76 3.86
2563 4354 3.435327 ACAACATTTTCGCGATAGAAGCA 59.565 39.130 10.88 0.00 39.76 3.91
2564 4355 4.094887 ACAACATTTTCGCGATAGAAGCAT 59.905 37.500 10.88 0.00 39.76 3.79
2565 4356 4.458951 ACATTTTCGCGATAGAAGCATC 57.541 40.909 10.88 0.00 39.76 3.91
2579 4370 8.682128 GATAGAAGCATCGATTTACTCCTTAG 57.318 38.462 0.00 0.00 0.00 2.18
2580 4371 6.472686 AGAAGCATCGATTTACTCCTTAGT 57.527 37.500 0.00 0.00 39.91 2.24
2581 4372 7.584122 AGAAGCATCGATTTACTCCTTAGTA 57.416 36.000 0.00 0.00 37.15 1.82
2582 4373 8.184304 AGAAGCATCGATTTACTCCTTAGTAT 57.816 34.615 0.00 0.00 38.02 2.12
2583 4374 8.301002 AGAAGCATCGATTTACTCCTTAGTATC 58.699 37.037 0.00 0.00 38.02 2.24
2584 4375 7.526142 AGCATCGATTTACTCCTTAGTATCA 57.474 36.000 0.00 0.00 38.02 2.15
2585 4376 7.952671 AGCATCGATTTACTCCTTAGTATCAA 58.047 34.615 0.00 0.00 38.02 2.57
2586 4377 8.421784 AGCATCGATTTACTCCTTAGTATCAAA 58.578 33.333 0.00 0.00 38.02 2.69
2587 4378 9.042008 GCATCGATTTACTCCTTAGTATCAAAA 57.958 33.333 0.00 0.00 38.02 2.44
2590 4381 9.079833 TCGATTTACTCCTTAGTATCAAAAACG 57.920 33.333 0.00 0.00 38.02 3.60
2591 4382 7.844653 CGATTTACTCCTTAGTATCAAAAACGC 59.155 37.037 0.00 0.00 38.02 4.84
2592 4383 6.973229 TTACTCCTTAGTATCAAAAACGCC 57.027 37.500 0.00 0.00 38.02 5.68
2593 4384 4.259356 ACTCCTTAGTATCAAAAACGCCC 58.741 43.478 0.00 0.00 32.84 6.13
2594 4385 4.019591 ACTCCTTAGTATCAAAAACGCCCT 60.020 41.667 0.00 0.00 32.84 5.19
2595 4386 4.913784 TCCTTAGTATCAAAAACGCCCTT 58.086 39.130 0.00 0.00 0.00 3.95
2596 4387 6.052405 TCCTTAGTATCAAAAACGCCCTTA 57.948 37.500 0.00 0.00 0.00 2.69
2597 4388 6.655930 TCCTTAGTATCAAAAACGCCCTTAT 58.344 36.000 0.00 0.00 0.00 1.73
2598 4389 7.794041 TCCTTAGTATCAAAAACGCCCTTATA 58.206 34.615 0.00 0.00 0.00 0.98
2599 4390 8.266473 TCCTTAGTATCAAAAACGCCCTTATAA 58.734 33.333 0.00 0.00 0.00 0.98
2600 4391 8.557029 CCTTAGTATCAAAAACGCCCTTATAAG 58.443 37.037 5.43 5.43 0.00 1.73
2601 4392 9.106070 CTTAGTATCAAAAACGCCCTTATAAGT 57.894 33.333 11.50 0.00 0.00 2.24
2602 4393 7.933215 AGTATCAAAAACGCCCTTATAAGTT 57.067 32.000 11.50 0.00 0.00 2.66
2603 4394 8.344446 AGTATCAAAAACGCCCTTATAAGTTT 57.656 30.769 11.50 3.62 38.30 2.66
2604 4395 8.241367 AGTATCAAAAACGCCCTTATAAGTTTG 58.759 33.333 11.50 12.83 36.97 2.93
2605 4396 6.636562 TCAAAAACGCCCTTATAAGTTTGA 57.363 33.333 16.64 16.64 36.97 2.69
2606 4397 6.440436 TCAAAAACGCCCTTATAAGTTTGAC 58.560 36.000 16.64 1.89 36.97 3.18
2607 4398 6.263617 TCAAAAACGCCCTTATAAGTTTGACT 59.736 34.615 16.64 0.00 36.97 3.41
2608 4399 7.444792 TCAAAAACGCCCTTATAAGTTTGACTA 59.555 33.333 16.64 3.02 36.97 2.59
2609 4400 7.748691 AAAACGCCCTTATAAGTTTGACTAA 57.251 32.000 11.50 0.00 36.97 2.24
2610 4401 7.748691 AAACGCCCTTATAAGTTTGACTAAA 57.251 32.000 11.50 0.00 35.74 1.85
2611 4402 7.933215 AACGCCCTTATAAGTTTGACTAAAT 57.067 32.000 11.50 0.00 0.00 1.40
2612 4403 7.316544 ACGCCCTTATAAGTTTGACTAAATG 57.683 36.000 11.50 0.00 0.00 2.32
2613 4404 6.882678 ACGCCCTTATAAGTTTGACTAAATGT 59.117 34.615 11.50 0.00 0.00 2.71
2614 4405 7.065443 ACGCCCTTATAAGTTTGACTAAATGTC 59.935 37.037 11.50 0.00 45.54 3.06
2615 4406 7.280205 CGCCCTTATAAGTTTGACTAAATGTCT 59.720 37.037 11.50 0.00 45.54 3.41
2616 4407 8.613482 GCCCTTATAAGTTTGACTAAATGTCTC 58.387 37.037 11.50 0.00 45.54 3.36
2617 4408 9.892130 CCCTTATAAGTTTGACTAAATGTCTCT 57.108 33.333 11.50 0.00 45.54 3.10
2655 4446 8.437575 TCTATTGTTTACTATTTCCTCCATCCC 58.562 37.037 0.00 0.00 0.00 3.85
2656 4447 6.395780 TTGTTTACTATTTCCTCCATCCCA 57.604 37.500 0.00 0.00 0.00 4.37
2657 4448 6.395780 TGTTTACTATTTCCTCCATCCCAA 57.604 37.500 0.00 0.00 0.00 4.12
2658 4449 6.795590 TGTTTACTATTTCCTCCATCCCAAA 58.204 36.000 0.00 0.00 0.00 3.28
2659 4450 7.242359 TGTTTACTATTTCCTCCATCCCAAAA 58.758 34.615 0.00 0.00 0.00 2.44
2660 4451 7.898636 TGTTTACTATTTCCTCCATCCCAAAAT 59.101 33.333 0.00 0.00 0.00 1.82
2661 4452 8.758829 GTTTACTATTTCCTCCATCCCAAAATT 58.241 33.333 0.00 0.00 0.00 1.82
2662 4453 8.533569 TTACTATTTCCTCCATCCCAAAATTC 57.466 34.615 0.00 0.00 0.00 2.17
2663 4454 6.745857 ACTATTTCCTCCATCCCAAAATTCT 58.254 36.000 0.00 0.00 0.00 2.40
2664 4455 7.191918 ACTATTTCCTCCATCCCAAAATTCTT 58.808 34.615 0.00 0.00 0.00 2.52
2665 4456 5.743636 TTTCCTCCATCCCAAAATTCTTG 57.256 39.130 0.00 0.00 0.00 3.02
2666 4457 4.402616 TCCTCCATCCCAAAATTCTTGT 57.597 40.909 0.00 0.00 0.00 3.16
2667 4458 4.344104 TCCTCCATCCCAAAATTCTTGTC 58.656 43.478 0.00 0.00 0.00 3.18
2668 4459 4.044571 TCCTCCATCCCAAAATTCTTGTCT 59.955 41.667 0.00 0.00 0.00 3.41
2669 4460 4.774200 CCTCCATCCCAAAATTCTTGTCTT 59.226 41.667 0.00 0.00 0.00 3.01
2670 4461 5.951747 CCTCCATCCCAAAATTCTTGTCTTA 59.048 40.000 0.00 0.00 0.00 2.10
2671 4462 6.096001 CCTCCATCCCAAAATTCTTGTCTTAG 59.904 42.308 0.00 0.00 0.00 2.18
2672 4463 6.789268 TCCATCCCAAAATTCTTGTCTTAGA 58.211 36.000 0.00 0.00 0.00 2.10
2673 4464 7.413446 TCCATCCCAAAATTCTTGTCTTAGAT 58.587 34.615 0.00 0.00 0.00 1.98
2674 4465 7.895429 TCCATCCCAAAATTCTTGTCTTAGATT 59.105 33.333 0.00 0.00 0.00 2.40
2675 4466 8.534496 CCATCCCAAAATTCTTGTCTTAGATTT 58.466 33.333 0.00 0.00 0.00 2.17
2676 4467 9.362539 CATCCCAAAATTCTTGTCTTAGATTTG 57.637 33.333 0.00 0.00 29.84 2.32
2677 4468 8.477419 TCCCAAAATTCTTGTCTTAGATTTGT 57.523 30.769 0.00 0.00 28.79 2.83
2678 4469 8.576442 TCCCAAAATTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.00 28.79 3.18
2679 4470 8.579863 CCCAAAATTCTTGTCTTAGATTTGTCT 58.420 33.333 0.00 0.00 28.79 3.41
2684 4475 9.442047 AATTCTTGTCTTAGATTTGTCTAGGTG 57.558 33.333 0.00 0.00 0.00 4.00
2685 4476 6.398918 TCTTGTCTTAGATTTGTCTAGGTGC 58.601 40.000 0.00 0.00 0.00 5.01
2686 4477 4.744570 TGTCTTAGATTTGTCTAGGTGCG 58.255 43.478 0.00 0.00 0.00 5.34
2687 4478 4.113354 GTCTTAGATTTGTCTAGGTGCGG 58.887 47.826 0.00 0.00 0.00 5.69
2688 4479 4.021229 TCTTAGATTTGTCTAGGTGCGGA 58.979 43.478 0.00 0.00 0.00 5.54
2689 4480 4.649674 TCTTAGATTTGTCTAGGTGCGGAT 59.350 41.667 0.00 0.00 0.00 4.18
2690 4481 3.185246 AGATTTGTCTAGGTGCGGATG 57.815 47.619 0.00 0.00 0.00 3.51
2691 4482 2.501723 AGATTTGTCTAGGTGCGGATGT 59.498 45.455 0.00 0.00 0.00 3.06
2692 4483 3.704566 AGATTTGTCTAGGTGCGGATGTA 59.295 43.478 0.00 0.00 0.00 2.29
2693 4484 2.953466 TTGTCTAGGTGCGGATGTAC 57.047 50.000 0.00 0.00 0.00 2.90
2703 4494 5.458041 GGTGCGGATGTACCTAATACTAA 57.542 43.478 0.00 0.00 46.37 2.24
2704 4495 5.846203 GGTGCGGATGTACCTAATACTAAA 58.154 41.667 0.00 0.00 46.37 1.85
2705 4496 5.924825 GGTGCGGATGTACCTAATACTAAAG 59.075 44.000 0.00 0.00 46.37 1.85
2706 4497 5.404667 GTGCGGATGTACCTAATACTAAAGC 59.595 44.000 0.00 0.00 34.56 3.51
2707 4498 4.620184 GCGGATGTACCTAATACTAAAGCG 59.380 45.833 0.00 0.00 34.56 4.68
2708 4499 5.766222 CGGATGTACCTAATACTAAAGCGT 58.234 41.667 0.00 0.00 34.56 5.07
2709 4500 5.628193 CGGATGTACCTAATACTAAAGCGTG 59.372 44.000 0.00 0.00 34.56 5.34
2710 4501 6.513884 CGGATGTACCTAATACTAAAGCGTGA 60.514 42.308 0.00 0.00 34.56 4.35
2711 4502 6.640092 GGATGTACCTAATACTAAAGCGTGAC 59.360 42.308 0.00 0.00 34.56 3.67
2712 4503 6.764308 TGTACCTAATACTAAAGCGTGACT 57.236 37.500 0.00 0.00 34.56 3.41
2713 4504 7.161773 TGTACCTAATACTAAAGCGTGACTT 57.838 36.000 0.00 0.00 35.87 3.01
2714 4505 8.279970 TGTACCTAATACTAAAGCGTGACTTA 57.720 34.615 0.00 0.00 34.29 2.24
2715 4506 8.739039 TGTACCTAATACTAAAGCGTGACTTAA 58.261 33.333 0.00 0.00 34.29 1.85
2716 4507 9.741647 GTACCTAATACTAAAGCGTGACTTAAT 57.258 33.333 0.00 0.00 37.75 1.40
2718 4509 9.741647 ACCTAATACTAAAGCGTGACTTAATAC 57.258 33.333 0.00 0.00 37.75 1.89
2719 4510 9.740239 CCTAATACTAAAGCGTGACTTAATACA 57.260 33.333 0.00 0.00 37.75 2.29
2722 4513 8.813643 ATACTAAAGCGTGACTTAATACATCC 57.186 34.615 0.00 0.00 37.75 3.51
2723 4514 5.747197 ACTAAAGCGTGACTTAATACATCCG 59.253 40.000 0.00 0.00 37.75 4.18
2724 4515 3.795623 AGCGTGACTTAATACATCCGT 57.204 42.857 0.00 0.00 0.00 4.69
2725 4516 4.906065 AGCGTGACTTAATACATCCGTA 57.094 40.909 0.00 0.00 0.00 4.02
2726 4517 5.449107 AGCGTGACTTAATACATCCGTAT 57.551 39.130 0.00 0.00 40.15 3.06
2728 4519 6.278363 AGCGTGACTTAATACATCCGTATTT 58.722 36.000 3.40 0.00 44.27 1.40
2729 4520 7.428020 AGCGTGACTTAATACATCCGTATTTA 58.572 34.615 3.40 0.00 44.27 1.40
2730 4521 7.594015 AGCGTGACTTAATACATCCGTATTTAG 59.406 37.037 3.40 6.51 44.27 1.85
2731 4522 7.592533 GCGTGACTTAATACATCCGTATTTAGA 59.407 37.037 14.76 0.00 44.27 2.10
2732 4523 8.899776 CGTGACTTAATACATCCGTATTTAGAC 58.100 37.037 14.76 10.62 44.27 2.59
2733 4524 8.899776 GTGACTTAATACATCCGTATTTAGACG 58.100 37.037 14.76 0.00 44.27 4.18
2734 4525 8.839343 TGACTTAATACATCCGTATTTAGACGA 58.161 33.333 14.76 2.45 44.27 4.20
2735 4526 9.669353 GACTTAATACATCCGTATTTAGACGAA 57.331 33.333 14.76 0.00 44.27 3.85
2742 4533 8.162878 ACATCCGTATTTAGACGAATCTAAGA 57.837 34.615 0.00 0.00 45.93 2.10
2743 4534 8.074972 ACATCCGTATTTAGACGAATCTAAGAC 58.925 37.037 0.00 0.00 45.93 3.01
2744 4535 7.558161 TCCGTATTTAGACGAATCTAAGACA 57.442 36.000 0.00 0.00 45.93 3.41
2745 4536 7.988737 TCCGTATTTAGACGAATCTAAGACAA 58.011 34.615 0.00 0.00 45.93 3.18
2746 4537 8.127327 TCCGTATTTAGACGAATCTAAGACAAG 58.873 37.037 0.00 0.00 45.93 3.16
2747 4538 8.127327 CCGTATTTAGACGAATCTAAGACAAGA 58.873 37.037 0.00 0.00 45.93 3.02
2748 4539 9.499585 CGTATTTAGACGAATCTAAGACAAGAA 57.500 33.333 0.00 0.00 45.93 2.52
2754 4545 8.833231 AGACGAATCTAAGACAAGAATTTTGA 57.167 30.769 0.00 0.00 31.46 2.69
2755 4546 8.930760 AGACGAATCTAAGACAAGAATTTTGAG 58.069 33.333 0.00 0.00 31.46 3.02
2756 4547 8.833231 ACGAATCTAAGACAAGAATTTTGAGA 57.167 30.769 0.00 1.83 0.00 3.27
2757 4548 8.713271 ACGAATCTAAGACAAGAATTTTGAGAC 58.287 33.333 0.00 0.00 0.00 3.36
2758 4549 7.895259 CGAATCTAAGACAAGAATTTTGAGACG 59.105 37.037 7.18 0.00 0.00 4.18
2759 4550 7.602517 ATCTAAGACAAGAATTTTGAGACGG 57.397 36.000 7.18 0.00 0.00 4.79
2760 4551 6.755206 TCTAAGACAAGAATTTTGAGACGGA 58.245 36.000 7.18 0.00 0.00 4.69
2761 4552 5.931441 AAGACAAGAATTTTGAGACGGAG 57.069 39.130 7.18 0.00 0.00 4.63
2762 4553 4.319177 AGACAAGAATTTTGAGACGGAGG 58.681 43.478 7.18 0.00 0.00 4.30
2763 4554 3.412386 ACAAGAATTTTGAGACGGAGGG 58.588 45.455 7.18 0.00 0.00 4.30
2764 4555 3.072476 ACAAGAATTTTGAGACGGAGGGA 59.928 43.478 7.18 0.00 0.00 4.20
2765 4556 3.618690 AGAATTTTGAGACGGAGGGAG 57.381 47.619 0.00 0.00 0.00 4.30
2766 4557 2.907042 AGAATTTTGAGACGGAGGGAGT 59.093 45.455 0.00 0.00 0.00 3.85
2767 4558 4.094476 AGAATTTTGAGACGGAGGGAGTA 58.906 43.478 0.00 0.00 0.00 2.59
2768 4559 4.717280 AGAATTTTGAGACGGAGGGAGTAT 59.283 41.667 0.00 0.00 0.00 2.12
2769 4560 5.189934 AGAATTTTGAGACGGAGGGAGTATT 59.810 40.000 0.00 0.00 0.00 1.89
2770 4561 4.903045 TTTTGAGACGGAGGGAGTATTT 57.097 40.909 0.00 0.00 0.00 1.40
2771 4562 4.903045 TTTGAGACGGAGGGAGTATTTT 57.097 40.909 0.00 0.00 0.00 1.82
2772 4563 4.903045 TTGAGACGGAGGGAGTATTTTT 57.097 40.909 0.00 0.00 0.00 1.94
2796 4587 9.688091 TTTTTATTGGCATCCATAGTACTTACA 57.312 29.630 0.00 0.00 31.53 2.41
2797 4588 8.902540 TTTATTGGCATCCATAGTACTTACAG 57.097 34.615 0.00 0.00 31.53 2.74
2798 4589 5.950544 TTGGCATCCATAGTACTTACAGT 57.049 39.130 0.00 0.00 31.53 3.55
2799 4590 5.950544 TGGCATCCATAGTACTTACAGTT 57.049 39.130 0.00 0.00 0.00 3.16
2800 4591 5.670485 TGGCATCCATAGTACTTACAGTTG 58.330 41.667 0.00 0.00 0.00 3.16
2801 4592 4.511826 GGCATCCATAGTACTTACAGTTGC 59.488 45.833 0.00 4.39 0.00 4.17
2802 4593 5.116180 GCATCCATAGTACTTACAGTTGCA 58.884 41.667 0.00 0.00 0.00 4.08
2803 4594 5.006746 GCATCCATAGTACTTACAGTTGCAC 59.993 44.000 0.00 0.00 0.00 4.57
2804 4595 5.731957 TCCATAGTACTTACAGTTGCACA 57.268 39.130 0.00 0.00 0.00 4.57
2805 4596 5.475719 TCCATAGTACTTACAGTTGCACAC 58.524 41.667 0.00 0.00 0.00 3.82
2806 4597 5.011227 TCCATAGTACTTACAGTTGCACACA 59.989 40.000 0.00 0.00 0.00 3.72
2807 4598 5.874810 CCATAGTACTTACAGTTGCACACAT 59.125 40.000 0.00 0.00 0.00 3.21
2808 4599 7.039270 CCATAGTACTTACAGTTGCACACATA 58.961 38.462 0.00 0.00 0.00 2.29
2809 4600 7.547722 CCATAGTACTTACAGTTGCACACATAA 59.452 37.037 0.00 0.00 0.00 1.90
2810 4601 9.098355 CATAGTACTTACAGTTGCACACATAAT 57.902 33.333 0.00 0.00 0.00 1.28
2812 4603 8.703604 AGTACTTACAGTTGCACACATAATAG 57.296 34.615 0.00 0.00 0.00 1.73
2813 4604 8.311836 AGTACTTACAGTTGCACACATAATAGT 58.688 33.333 0.00 0.00 0.00 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
162 166 8.517878 GCATTAGCCATGACATAACATCTATTT 58.482 33.333 0.00 0.00 34.31 1.40
318 326 9.793259 AATGAATAGTCGTGGGAACATAATTAT 57.207 29.630 0.00 0.00 46.14 1.28
424 432 5.313712 AGGAACGACAAATTAAGTGGTGAT 58.686 37.500 0.00 0.00 0.00 3.06
547 555 0.674895 CGGACAGAAGCTTCAAGGGG 60.675 60.000 27.57 13.48 0.00 4.79
656 664 1.002087 CGGCCTCCCAGGAATACATAC 59.998 57.143 0.00 0.00 37.67 2.39
885 2249 5.480642 ACAATGCAACATCACCCAAATAA 57.519 34.783 0.00 0.00 0.00 1.40
972 2344 2.151502 TTTTGCTTCAGGACAACCCA 57.848 45.000 0.00 0.00 37.41 4.51
1043 2446 7.285629 TGACTTCTACTAGATCATACAACCCAG 59.714 40.741 0.00 0.00 0.00 4.45
1123 2527 2.290367 TCACAAACTCATTCTTGCACCG 59.710 45.455 0.00 0.00 0.00 4.94
1205 2609 2.462503 GCATGGCTGCAAACCATTG 58.537 52.632 16.43 13.12 45.86 2.82
1351 2779 2.042259 CGCAGGGAGCTCATGCAAA 61.042 57.895 30.80 0.00 42.61 3.68
1544 2977 4.260985 TCTCGCATTTTCTCCATAGCAAA 58.739 39.130 0.00 0.00 0.00 3.68
1669 3102 1.152963 AGTTCGGCCAAAGTGCTGT 60.153 52.632 2.24 0.00 38.77 4.40
1699 3132 2.352960 GTCTGATCCTTGCGAAATGGTC 59.647 50.000 0.00 0.00 0.00 4.02
1720 3153 3.103911 GACGGCGTCAGGAACACG 61.104 66.667 33.07 0.00 40.35 4.49
1728 3161 1.952133 CGTTTCCTTGACGGCGTCA 60.952 57.895 36.29 36.29 41.09 4.35
1775 3217 3.335579 GTTCCTCGTATGGAGCTTTGTT 58.664 45.455 0.00 0.00 41.71 2.83
1804 3247 8.462811 CGCATACATAACATAATCTACTCCTCT 58.537 37.037 0.00 0.00 0.00 3.69
1805 3248 7.702772 CCGCATACATAACATAATCTACTCCTC 59.297 40.741 0.00 0.00 0.00 3.71
1806 3249 7.396339 TCCGCATACATAACATAATCTACTCCT 59.604 37.037 0.00 0.00 0.00 3.69
1807 3250 7.544622 TCCGCATACATAACATAATCTACTCC 58.455 38.462 0.00 0.00 0.00 3.85
2132 3627 1.669115 GCAGAAGAACAGCAGCGGA 60.669 57.895 0.00 0.00 0.00 5.54
2195 3690 2.547299 ACGTTGGGGTTTACGATCAA 57.453 45.000 0.00 0.00 40.03 2.57
2224 3719 2.746277 CGGTGTAGCCAGCCAACC 60.746 66.667 0.00 0.00 35.65 3.77
2243 3738 2.093816 TCATGTTCACAGAGGCTGCTAG 60.094 50.000 0.00 0.00 34.37 3.42
2244 3739 1.901833 TCATGTTCACAGAGGCTGCTA 59.098 47.619 0.00 0.00 34.37 3.49
2245 3740 0.689055 TCATGTTCACAGAGGCTGCT 59.311 50.000 0.00 0.00 34.37 4.24
2246 3741 1.085091 CTCATGTTCACAGAGGCTGC 58.915 55.000 0.00 0.00 34.37 5.25
2247 3742 2.619147 CTCTCATGTTCACAGAGGCTG 58.381 52.381 0.00 0.00 37.52 4.85
2248 3743 1.066286 GCTCTCATGTTCACAGAGGCT 60.066 52.381 9.66 0.00 0.00 4.58
2249 3744 1.367659 GCTCTCATGTTCACAGAGGC 58.632 55.000 9.66 0.72 0.00 4.70
2250 3745 1.406614 GGGCTCTCATGTTCACAGAGG 60.407 57.143 9.66 0.00 0.00 3.69
2251 3746 1.738365 CGGGCTCTCATGTTCACAGAG 60.738 57.143 4.40 4.40 0.00 3.35
2252 3747 0.247460 CGGGCTCTCATGTTCACAGA 59.753 55.000 0.00 0.00 0.00 3.41
2293 3808 1.128507 CTCACACACACACACACACAC 59.871 52.381 0.00 0.00 0.00 3.82
2294 3809 1.270571 ACTCACACACACACACACACA 60.271 47.619 0.00 0.00 0.00 3.72
2295 3810 1.128507 CACTCACACACACACACACAC 59.871 52.381 0.00 0.00 0.00 3.82
2296 3811 1.270571 ACACTCACACACACACACACA 60.271 47.619 0.00 0.00 0.00 3.72
2297 3812 1.128507 CACACTCACACACACACACAC 59.871 52.381 0.00 0.00 0.00 3.82
2298 3813 1.001406 TCACACTCACACACACACACA 59.999 47.619 0.00 0.00 0.00 3.72
2299 3814 1.660607 CTCACACTCACACACACACAC 59.339 52.381 0.00 0.00 0.00 3.82
2300 3815 2.006552 GCTCACACTCACACACACACA 61.007 52.381 0.00 0.00 0.00 3.72
2301 3816 0.652592 GCTCACACTCACACACACAC 59.347 55.000 0.00 0.00 0.00 3.82
2302 3817 0.536724 AGCTCACACTCACACACACA 59.463 50.000 0.00 0.00 0.00 3.72
2303 3818 1.212616 GAGCTCACACTCACACACAC 58.787 55.000 9.40 0.00 36.65 3.82
2304 3819 0.249031 CGAGCTCACACTCACACACA 60.249 55.000 15.40 0.00 36.42 3.72
2305 3820 1.552348 GCGAGCTCACACTCACACAC 61.552 60.000 15.40 0.00 36.42 3.82
2306 3821 1.300156 GCGAGCTCACACTCACACA 60.300 57.895 15.40 0.00 36.42 3.72
2307 3822 0.241213 TAGCGAGCTCACACTCACAC 59.759 55.000 15.40 0.00 36.42 3.82
2308 3823 0.523519 CTAGCGAGCTCACACTCACA 59.476 55.000 15.40 0.00 36.42 3.58
2309 3824 0.800300 GCTAGCGAGCTCACACTCAC 60.800 60.000 15.40 0.29 45.98 3.51
2310 3825 1.508545 GCTAGCGAGCTCACACTCA 59.491 57.895 15.40 0.00 45.98 3.41
2311 3826 4.393308 GCTAGCGAGCTCACACTC 57.607 61.111 15.40 0.00 45.98 3.51
2345 4036 2.093658 AGACGTGCGAATCCATTTACCT 60.094 45.455 0.00 0.00 0.00 3.08
2453 4244 6.058827 CGTGGCATTAATGTCATGTATTCA 57.941 37.500 27.02 1.72 45.07 2.57
2482 4273 4.547859 GGAATCGCATCCTGCTGT 57.452 55.556 0.00 0.00 42.25 4.40
2554 4345 8.301002 ACTAAGGAGTAAATCGATGCTTCTATC 58.699 37.037 0.00 0.00 32.65 2.08
2555 4346 8.184304 ACTAAGGAGTAAATCGATGCTTCTAT 57.816 34.615 0.00 0.00 32.65 1.98
2556 4347 7.584122 ACTAAGGAGTAAATCGATGCTTCTA 57.416 36.000 0.00 0.00 32.65 2.10
2557 4348 6.472686 ACTAAGGAGTAAATCGATGCTTCT 57.527 37.500 0.00 0.00 32.65 2.85
2558 4349 8.082852 TGATACTAAGGAGTAAATCGATGCTTC 58.917 37.037 0.00 0.00 41.53 3.86
2559 4350 7.952671 TGATACTAAGGAGTAAATCGATGCTT 58.047 34.615 0.00 0.00 41.53 3.91
2560 4351 7.526142 TGATACTAAGGAGTAAATCGATGCT 57.474 36.000 0.00 0.00 41.53 3.79
2561 4352 8.589335 TTTGATACTAAGGAGTAAATCGATGC 57.411 34.615 0.00 0.00 41.53 3.91
2564 4355 9.079833 CGTTTTTGATACTAAGGAGTAAATCGA 57.920 33.333 0.00 0.00 41.53 3.59
2565 4356 7.844653 GCGTTTTTGATACTAAGGAGTAAATCG 59.155 37.037 0.00 0.00 41.53 3.34
2566 4357 8.121086 GGCGTTTTTGATACTAAGGAGTAAATC 58.879 37.037 0.00 0.00 41.53 2.17
2567 4358 7.066645 GGGCGTTTTTGATACTAAGGAGTAAAT 59.933 37.037 0.00 0.00 41.53 1.40
2568 4359 6.372381 GGGCGTTTTTGATACTAAGGAGTAAA 59.628 38.462 0.00 0.00 41.53 2.01
2569 4360 5.876460 GGGCGTTTTTGATACTAAGGAGTAA 59.124 40.000 0.00 0.00 41.53 2.24
2570 4361 5.188359 AGGGCGTTTTTGATACTAAGGAGTA 59.812 40.000 0.00 0.00 42.41 2.59
2571 4362 4.019591 AGGGCGTTTTTGATACTAAGGAGT 60.020 41.667 0.00 0.00 39.92 3.85
2572 4363 4.514401 AGGGCGTTTTTGATACTAAGGAG 58.486 43.478 0.00 0.00 0.00 3.69
2573 4364 4.563140 AGGGCGTTTTTGATACTAAGGA 57.437 40.909 0.00 0.00 0.00 3.36
2574 4365 6.937436 ATAAGGGCGTTTTTGATACTAAGG 57.063 37.500 0.00 0.00 0.00 2.69
2575 4366 9.106070 ACTTATAAGGGCGTTTTTGATACTAAG 57.894 33.333 16.73 0.00 0.00 2.18
2576 4367 9.452287 AACTTATAAGGGCGTTTTTGATACTAA 57.548 29.630 16.73 0.00 0.00 2.24
2577 4368 9.452287 AAACTTATAAGGGCGTTTTTGATACTA 57.548 29.630 16.73 0.00 0.00 1.82
2578 4369 7.933215 AACTTATAAGGGCGTTTTTGATACT 57.067 32.000 16.73 0.00 0.00 2.12
2579 4370 8.238631 TCAAACTTATAAGGGCGTTTTTGATAC 58.761 33.333 16.73 0.00 29.17 2.24
2580 4371 8.238631 GTCAAACTTATAAGGGCGTTTTTGATA 58.761 33.333 20.57 5.97 35.01 2.15
2581 4372 7.039993 AGTCAAACTTATAAGGGCGTTTTTGAT 60.040 33.333 20.57 12.19 35.01 2.57
2582 4373 6.263617 AGTCAAACTTATAAGGGCGTTTTTGA 59.736 34.615 16.73 16.67 31.13 2.69
2583 4374 6.443792 AGTCAAACTTATAAGGGCGTTTTTG 58.556 36.000 16.73 14.95 0.00 2.44
2584 4375 6.644248 AGTCAAACTTATAAGGGCGTTTTT 57.356 33.333 16.73 4.36 0.00 1.94
2585 4376 7.748691 TTAGTCAAACTTATAAGGGCGTTTT 57.251 32.000 16.73 5.02 0.00 2.43
2586 4377 7.748691 TTTAGTCAAACTTATAAGGGCGTTT 57.251 32.000 16.73 6.15 0.00 3.60
2587 4378 7.392393 ACATTTAGTCAAACTTATAAGGGCGTT 59.608 33.333 16.73 0.00 0.00 4.84
2588 4379 6.882678 ACATTTAGTCAAACTTATAAGGGCGT 59.117 34.615 16.73 0.00 0.00 5.68
2589 4380 7.316544 ACATTTAGTCAAACTTATAAGGGCG 57.683 36.000 16.73 4.47 0.00 6.13
2629 4420 8.437575 GGGATGGAGGAAATAGTAAACAATAGA 58.562 37.037 0.00 0.00 0.00 1.98
2630 4421 8.217799 TGGGATGGAGGAAATAGTAAACAATAG 58.782 37.037 0.00 0.00 0.00 1.73
2631 4422 8.108378 TGGGATGGAGGAAATAGTAAACAATA 57.892 34.615 0.00 0.00 0.00 1.90
2632 4423 6.980577 TGGGATGGAGGAAATAGTAAACAAT 58.019 36.000 0.00 0.00 0.00 2.71
2633 4424 6.395780 TGGGATGGAGGAAATAGTAAACAA 57.604 37.500 0.00 0.00 0.00 2.83
2634 4425 6.395780 TTGGGATGGAGGAAATAGTAAACA 57.604 37.500 0.00 0.00 0.00 2.83
2635 4426 7.712204 TTTTGGGATGGAGGAAATAGTAAAC 57.288 36.000 0.00 0.00 0.00 2.01
2636 4427 8.909423 AATTTTGGGATGGAGGAAATAGTAAA 57.091 30.769 0.00 0.00 0.00 2.01
2637 4428 8.343787 AGAATTTTGGGATGGAGGAAATAGTAA 58.656 33.333 0.00 0.00 0.00 2.24
2638 4429 7.882755 AGAATTTTGGGATGGAGGAAATAGTA 58.117 34.615 0.00 0.00 0.00 1.82
2639 4430 6.745857 AGAATTTTGGGATGGAGGAAATAGT 58.254 36.000 0.00 0.00 0.00 2.12
2640 4431 7.124750 ACAAGAATTTTGGGATGGAGGAAATAG 59.875 37.037 5.68 0.00 0.00 1.73
2641 4432 6.959366 ACAAGAATTTTGGGATGGAGGAAATA 59.041 34.615 5.68 0.00 0.00 1.40
2642 4433 5.786975 ACAAGAATTTTGGGATGGAGGAAAT 59.213 36.000 5.68 0.00 0.00 2.17
2643 4434 5.154418 ACAAGAATTTTGGGATGGAGGAAA 58.846 37.500 5.68 0.00 0.00 3.13
2644 4435 4.750941 ACAAGAATTTTGGGATGGAGGAA 58.249 39.130 5.68 0.00 0.00 3.36
2645 4436 4.044571 AGACAAGAATTTTGGGATGGAGGA 59.955 41.667 5.68 0.00 0.00 3.71
2646 4437 4.347607 AGACAAGAATTTTGGGATGGAGG 58.652 43.478 5.68 0.00 0.00 4.30
2647 4438 5.990120 AAGACAAGAATTTTGGGATGGAG 57.010 39.130 5.68 0.00 0.00 3.86
2648 4439 6.789268 TCTAAGACAAGAATTTTGGGATGGA 58.211 36.000 5.68 0.00 0.00 3.41
2649 4440 7.651027 ATCTAAGACAAGAATTTTGGGATGG 57.349 36.000 5.68 0.00 0.00 3.51
2650 4441 9.362539 CAAATCTAAGACAAGAATTTTGGGATG 57.637 33.333 5.68 0.00 28.49 3.51
2651 4442 9.093458 ACAAATCTAAGACAAGAATTTTGGGAT 57.907 29.630 0.00 0.00 33.04 3.85
2652 4443 8.477419 ACAAATCTAAGACAAGAATTTTGGGA 57.523 30.769 0.00 0.00 33.04 4.37
2653 4444 8.579863 AGACAAATCTAAGACAAGAATTTTGGG 58.420 33.333 0.00 0.00 33.04 4.12
2658 4449 9.442047 CACCTAGACAAATCTAAGACAAGAATT 57.558 33.333 0.00 0.00 36.98 2.17
2659 4450 7.550906 GCACCTAGACAAATCTAAGACAAGAAT 59.449 37.037 0.00 0.00 36.98 2.40
2660 4451 6.874134 GCACCTAGACAAATCTAAGACAAGAA 59.126 38.462 0.00 0.00 36.98 2.52
2661 4452 6.398918 GCACCTAGACAAATCTAAGACAAGA 58.601 40.000 0.00 0.00 36.98 3.02
2662 4453 5.289675 CGCACCTAGACAAATCTAAGACAAG 59.710 44.000 0.00 0.00 36.98 3.16
2663 4454 5.168569 CGCACCTAGACAAATCTAAGACAA 58.831 41.667 0.00 0.00 36.98 3.18
2664 4455 4.381612 CCGCACCTAGACAAATCTAAGACA 60.382 45.833 0.00 0.00 36.98 3.41
2665 4456 4.113354 CCGCACCTAGACAAATCTAAGAC 58.887 47.826 0.00 0.00 36.98 3.01
2666 4457 4.021229 TCCGCACCTAGACAAATCTAAGA 58.979 43.478 0.00 0.00 36.98 2.10
2667 4458 4.386867 TCCGCACCTAGACAAATCTAAG 57.613 45.455 0.00 0.00 36.98 2.18
2668 4459 4.161565 ACATCCGCACCTAGACAAATCTAA 59.838 41.667 0.00 0.00 36.98 2.10
2669 4460 3.704566 ACATCCGCACCTAGACAAATCTA 59.295 43.478 0.00 0.00 36.29 1.98
2670 4461 2.501723 ACATCCGCACCTAGACAAATCT 59.498 45.455 0.00 0.00 39.15 2.40
2671 4462 2.906354 ACATCCGCACCTAGACAAATC 58.094 47.619 0.00 0.00 0.00 2.17
2672 4463 3.431766 GGTACATCCGCACCTAGACAAAT 60.432 47.826 0.00 0.00 0.00 2.32
2673 4464 2.093869 GGTACATCCGCACCTAGACAAA 60.094 50.000 0.00 0.00 0.00 2.83
2674 4465 1.479323 GGTACATCCGCACCTAGACAA 59.521 52.381 0.00 0.00 0.00 3.18
2675 4466 1.108776 GGTACATCCGCACCTAGACA 58.891 55.000 0.00 0.00 0.00 3.41
2676 4467 1.400737 AGGTACATCCGCACCTAGAC 58.599 55.000 0.00 0.00 43.48 2.59
2677 4468 3.301794 TTAGGTACATCCGCACCTAGA 57.698 47.619 0.00 0.00 45.72 2.43
2678 4469 4.765856 AGTATTAGGTACATCCGCACCTAG 59.234 45.833 0.00 0.00 45.72 3.02
2679 4470 4.733165 AGTATTAGGTACATCCGCACCTA 58.267 43.478 0.00 0.00 43.48 3.08
2680 4471 3.573695 AGTATTAGGTACATCCGCACCT 58.426 45.455 0.00 0.00 46.88 4.00
2681 4472 5.458041 TTAGTATTAGGTACATCCGCACC 57.542 43.478 0.00 0.00 41.99 5.01
2682 4473 5.404667 GCTTTAGTATTAGGTACATCCGCAC 59.595 44.000 0.00 0.00 41.99 5.34
2683 4474 5.535333 GCTTTAGTATTAGGTACATCCGCA 58.465 41.667 0.00 0.00 41.99 5.69
2684 4475 4.620184 CGCTTTAGTATTAGGTACATCCGC 59.380 45.833 0.00 0.00 41.99 5.54
2685 4476 5.628193 CACGCTTTAGTATTAGGTACATCCG 59.372 44.000 0.00 0.00 41.99 4.18
2686 4477 6.640092 GTCACGCTTTAGTATTAGGTACATCC 59.360 42.308 0.00 0.00 35.67 3.51
2687 4478 7.424001 AGTCACGCTTTAGTATTAGGTACATC 58.576 38.462 0.00 0.00 35.67 3.06
2688 4479 7.344095 AGTCACGCTTTAGTATTAGGTACAT 57.656 36.000 0.00 0.00 35.67 2.29
2689 4480 6.764308 AGTCACGCTTTAGTATTAGGTACA 57.236 37.500 0.00 0.00 35.67 2.90
2690 4481 9.741647 ATTAAGTCACGCTTTAGTATTAGGTAC 57.258 33.333 0.00 0.00 38.57 3.34
2692 4483 9.741647 GTATTAAGTCACGCTTTAGTATTAGGT 57.258 33.333 0.00 0.00 38.57 3.08
2693 4484 9.740239 TGTATTAAGTCACGCTTTAGTATTAGG 57.260 33.333 0.00 0.00 38.57 2.69
2696 4487 9.257651 GGATGTATTAAGTCACGCTTTAGTATT 57.742 33.333 0.00 0.00 38.57 1.89
2697 4488 7.594015 CGGATGTATTAAGTCACGCTTTAGTAT 59.406 37.037 0.00 0.00 38.57 2.12
2698 4489 6.914215 CGGATGTATTAAGTCACGCTTTAGTA 59.086 38.462 0.00 0.00 38.57 1.82
2699 4490 5.747197 CGGATGTATTAAGTCACGCTTTAGT 59.253 40.000 0.00 0.00 38.57 2.24
2700 4491 5.747197 ACGGATGTATTAAGTCACGCTTTAG 59.253 40.000 0.00 0.00 38.57 1.85
2701 4492 5.653507 ACGGATGTATTAAGTCACGCTTTA 58.346 37.500 0.00 0.00 38.57 1.85
2702 4493 4.501071 ACGGATGTATTAAGTCACGCTTT 58.499 39.130 0.00 0.00 38.57 3.51
2703 4494 4.119442 ACGGATGTATTAAGTCACGCTT 57.881 40.909 0.00 0.00 41.05 4.68
2704 4495 3.795623 ACGGATGTATTAAGTCACGCT 57.204 42.857 0.00 0.00 0.00 5.07
2716 4507 9.276590 TCTTAGATTCGTCTAAATACGGATGTA 57.723 33.333 0.00 0.00 41.14 2.29
2717 4508 8.074972 GTCTTAGATTCGTCTAAATACGGATGT 58.925 37.037 0.00 0.00 41.14 3.06
2718 4509 8.074370 TGTCTTAGATTCGTCTAAATACGGATG 58.926 37.037 0.00 0.00 41.14 3.51
2719 4510 8.162878 TGTCTTAGATTCGTCTAAATACGGAT 57.837 34.615 0.00 0.00 43.73 4.18
2720 4511 7.558161 TGTCTTAGATTCGTCTAAATACGGA 57.442 36.000 0.00 0.00 43.05 4.69
2721 4512 8.127327 TCTTGTCTTAGATTCGTCTAAATACGG 58.873 37.037 0.00 0.99 43.05 4.02
2722 4513 9.499585 TTCTTGTCTTAGATTCGTCTAAATACG 57.500 33.333 0.26 0.00 44.19 3.06
2728 4519 9.923143 TCAAAATTCTTGTCTTAGATTCGTCTA 57.077 29.630 0.00 0.00 0.00 2.59
2729 4520 8.833231 TCAAAATTCTTGTCTTAGATTCGTCT 57.167 30.769 0.00 0.00 0.00 4.18
2730 4521 8.926710 TCTCAAAATTCTTGTCTTAGATTCGTC 58.073 33.333 0.00 0.00 0.00 4.20
2731 4522 8.713271 GTCTCAAAATTCTTGTCTTAGATTCGT 58.287 33.333 0.00 0.00 0.00 3.85
2732 4523 7.895259 CGTCTCAAAATTCTTGTCTTAGATTCG 59.105 37.037 0.00 0.00 0.00 3.34
2733 4524 8.171840 CCGTCTCAAAATTCTTGTCTTAGATTC 58.828 37.037 0.00 0.00 0.00 2.52
2734 4525 7.878127 TCCGTCTCAAAATTCTTGTCTTAGATT 59.122 33.333 0.00 0.00 0.00 2.40
2735 4526 7.386851 TCCGTCTCAAAATTCTTGTCTTAGAT 58.613 34.615 0.00 0.00 0.00 1.98
2736 4527 6.755206 TCCGTCTCAAAATTCTTGTCTTAGA 58.245 36.000 0.00 0.00 0.00 2.10
2737 4528 6.091441 CCTCCGTCTCAAAATTCTTGTCTTAG 59.909 42.308 0.00 0.00 0.00 2.18
2738 4529 5.932303 CCTCCGTCTCAAAATTCTTGTCTTA 59.068 40.000 0.00 0.00 0.00 2.10
2739 4530 4.757149 CCTCCGTCTCAAAATTCTTGTCTT 59.243 41.667 0.00 0.00 0.00 3.01
2740 4531 4.319177 CCTCCGTCTCAAAATTCTTGTCT 58.681 43.478 0.00 0.00 0.00 3.41
2741 4532 3.437049 CCCTCCGTCTCAAAATTCTTGTC 59.563 47.826 0.00 0.00 0.00 3.18
2742 4533 3.072476 TCCCTCCGTCTCAAAATTCTTGT 59.928 43.478 0.00 0.00 0.00 3.16
2743 4534 3.674997 TCCCTCCGTCTCAAAATTCTTG 58.325 45.455 0.00 0.00 0.00 3.02
2744 4535 3.328050 ACTCCCTCCGTCTCAAAATTCTT 59.672 43.478 0.00 0.00 0.00 2.52
2745 4536 2.907042 ACTCCCTCCGTCTCAAAATTCT 59.093 45.455 0.00 0.00 0.00 2.40
2746 4537 3.336138 ACTCCCTCCGTCTCAAAATTC 57.664 47.619 0.00 0.00 0.00 2.17
2747 4538 5.437191 AATACTCCCTCCGTCTCAAAATT 57.563 39.130 0.00 0.00 0.00 1.82
2748 4539 5.437191 AAATACTCCCTCCGTCTCAAAAT 57.563 39.130 0.00 0.00 0.00 1.82
2749 4540 4.903045 AAATACTCCCTCCGTCTCAAAA 57.097 40.909 0.00 0.00 0.00 2.44
2750 4541 4.903045 AAAATACTCCCTCCGTCTCAAA 57.097 40.909 0.00 0.00 0.00 2.69
2751 4542 4.903045 AAAAATACTCCCTCCGTCTCAA 57.097 40.909 0.00 0.00 0.00 3.02
2770 4561 9.688091 TGTAAGTACTATGGATGCCAATAAAAA 57.312 29.630 0.00 0.00 36.95 1.94
2771 4562 9.337396 CTGTAAGTACTATGGATGCCAATAAAA 57.663 33.333 0.00 0.00 36.95 1.52
2772 4563 8.902540 CTGTAAGTACTATGGATGCCAATAAA 57.097 34.615 0.00 0.00 36.95 1.40


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

AutoCloner maintained by Alex Coulton.