Multiple sequence alignment - TraesCS2B01G100600

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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 TraesCS2B01G100600 chr2B 100.000 3044 0 0 1 3044 61271845 61268802 0.000000e+00 5622.0
1 TraesCS2B01G100600 chr2B 92.519 655 44 3 1 655 61334122 61333473 0.000000e+00 933.0
2 TraesCS2B01G100600 chr2B 83.542 638 46 14 1664 2278 61116521 61117122 2.670000e-150 542.0
3 TraesCS2B01G100600 chr2B 87.169 491 38 9 2436 2901 564432437 564432927 4.470000e-148 534.0
4 TraesCS2B01G100600 chr2B 87.069 116 12 1 1443 1558 61116260 61116372 8.860000e-26 128.0
5 TraesCS2B01G100600 chr2D 88.064 1307 79 46 984 2280 36201716 36202955 0.000000e+00 1478.0
6 TraesCS2B01G100600 chr3D 95.109 920 26 3 651 1558 380528072 380527160 0.000000e+00 1432.0
7 TraesCS2B01G100600 chr3D 95.267 655 26 3 1 655 380528757 380528108 0.000000e+00 1033.0
8 TraesCS2B01G100600 chr3D 91.165 498 27 5 1799 2279 380518202 380517705 0.000000e+00 660.0
9 TraesCS2B01G100600 chr2A 89.507 1115 78 18 943 2042 39476139 39477229 0.000000e+00 1375.0
10 TraesCS2B01G100600 chr2A 86.139 202 12 6 2094 2279 39477219 39477420 1.430000e-48 204.0
11 TraesCS2B01G100600 chr2A 95.238 105 5 0 790 894 39474516 39474620 1.880000e-37 167.0
12 TraesCS2B01G100600 chr2A 100.000 34 0 0 889 922 39476105 39476138 2.530000e-06 63.9
13 TraesCS2B01G100600 chr2A 89.130 46 5 0 2320 2365 385273823 385273868 1.180000e-04 58.4
14 TraesCS2B01G100600 chr1B 91.122 597 37 6 2436 3017 32778409 32779004 0.000000e+00 795.0
15 TraesCS2B01G100600 chr6B 90.756 595 41 5 2436 3017 627470025 627469432 0.000000e+00 782.0
16 TraesCS2B01G100600 chr6B 90.604 596 41 5 2436 3017 627543772 627543178 0.000000e+00 776.0
17 TraesCS2B01G100600 chr6B 90.420 595 43 5 2436 3017 627511444 627510851 0.000000e+00 771.0
18 TraesCS2B01G100600 chr6B 92.825 223 13 3 2796 3017 150481082 150481302 1.360000e-83 320.0
19 TraesCS2B01G100600 chr4D 90.271 442 26 8 2436 2866 365183461 365183026 2.050000e-156 562.0
20 TraesCS2B01G100600 chr4D 93.855 179 11 0 2866 3044 365178563 365178385 1.390000e-68 270.0
21 TraesCS2B01G100600 chr4D 84.739 249 32 6 2760 3006 3795085 3794841 8.430000e-61 244.0
22 TraesCS2B01G100600 chrUn 87.169 491 38 10 2436 2901 331259565 331259075 4.470000e-148 534.0
23 TraesCS2B01G100600 chrUn 87.169 491 38 10 2436 2901 331262414 331261924 4.470000e-148 534.0
24 TraesCS2B01G100600 chrUn 87.169 491 38 10 2436 2901 388809255 388808765 4.470000e-148 534.0
25 TraesCS2B01G100600 chrUn 87.169 491 38 10 2436 2901 469662364 469662854 4.470000e-148 534.0
26 TraesCS2B01G100600 chrUn 89.441 161 16 1 2278 2437 348895080 348894920 5.150000e-48 202.0
27 TraesCS2B01G100600 chr3B 89.151 212 19 4 2789 2998 304315653 304315862 8.370000e-66 261.0
28 TraesCS2B01G100600 chr4B 85.648 216 20 9 2820 3033 150733479 150733685 1.840000e-52 217.0
29 TraesCS2B01G100600 chr6D 89.474 95 9 1 2276 2369 212798324 212798230 5.330000e-23 119.0


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 TraesCS2B01G100600 chr2B 61268802 61271845 3043 True 5622.000 5622 100.0000 1 3044 1 chr2B.!!$R1 3043
1 TraesCS2B01G100600 chr2B 61333473 61334122 649 True 933.000 933 92.5190 1 655 1 chr2B.!!$R2 654
2 TraesCS2B01G100600 chr2B 61116260 61117122 862 False 335.000 542 85.3055 1443 2278 2 chr2B.!!$F2 835
3 TraesCS2B01G100600 chr2D 36201716 36202955 1239 False 1478.000 1478 88.0640 984 2280 1 chr2D.!!$F1 1296
4 TraesCS2B01G100600 chr3D 380527160 380528757 1597 True 1232.500 1432 95.1880 1 1558 2 chr3D.!!$R2 1557
5 TraesCS2B01G100600 chr2A 39474516 39477420 2904 False 452.475 1375 92.7210 790 2279 4 chr2A.!!$F2 1489
6 TraesCS2B01G100600 chr1B 32778409 32779004 595 False 795.000 795 91.1220 2436 3017 1 chr1B.!!$F1 581
7 TraesCS2B01G100600 chr6B 627469432 627470025 593 True 782.000 782 90.7560 2436 3017 1 chr6B.!!$R1 581
8 TraesCS2B01G100600 chr6B 627543178 627543772 594 True 776.000 776 90.6040 2436 3017 1 chr6B.!!$R3 581
9 TraesCS2B01G100600 chr6B 627510851 627511444 593 True 771.000 771 90.4200 2436 3017 1 chr6B.!!$R2 581
10 TraesCS2B01G100600 chrUn 331259075 331262414 3339 True 534.000 534 87.1690 2436 2901 2 chrUn.!!$R3 465

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
203 204 1.026182 TGTGCATGGATGACGCTTCC 61.026 55.0 0.0 5.27 0.00 3.46 F
1236 2780 1.244019 AAACCATCGACAGCAAGGGC 61.244 55.0 0.0 0.00 41.61 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1586 3139 0.100682 CGAAATCCGCTCCTCGAGAA 59.899 55.0 15.71 0.0 41.67 2.87 R
2382 4069 0.031585 TATCCGCCGTAGCACATGTC 59.968 55.0 0.00 0.0 39.83 3.06 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
139 140 3.445096 CACCCAATCCAAAGGATCAAGAC 59.555 47.826 0.00 0.00 42.27 3.01
162 163 3.394674 TCATGTAGAGCAACCACGAAA 57.605 42.857 0.00 0.00 0.00 3.46
203 204 1.026182 TGTGCATGGATGACGCTTCC 61.026 55.000 0.00 5.27 0.00 3.46
281 282 2.543848 GACACTGATCGTCAAGCAACAA 59.456 45.455 0.00 0.00 33.43 2.83
295 296 1.377202 AACAATCACGATGCCGCCT 60.377 52.632 0.00 0.00 39.95 5.52
362 363 4.988598 AGCACCACGGCTTCCACG 62.989 66.667 0.00 0.00 42.71 4.94
497 498 2.091775 GCTTGGTCTAGGACTAGGAGGA 60.092 54.545 6.52 0.00 34.06 3.71
534 535 2.787994 AGTGAAATTGCAGGACCAGAG 58.212 47.619 0.00 0.00 0.00 3.35
542 543 1.593787 CAGGACCAGAGCACATCGT 59.406 57.895 0.00 0.00 0.00 3.73
548 549 1.474478 ACCAGAGCACATCGTAGACTG 59.526 52.381 0.00 0.00 42.51 3.51
580 581 4.108299 TGGCTATGGGTGGCACGG 62.108 66.667 12.17 0.52 35.04 4.94
605 606 2.828549 GGCGCCACCCCTGTAATG 60.829 66.667 24.80 0.00 0.00 1.90
621 622 2.228841 AATGCCCCACCATGTCTCCC 62.229 60.000 0.00 0.00 0.00 4.30
622 623 3.017581 GCCCCACCATGTCTCCCT 61.018 66.667 0.00 0.00 0.00 4.20
623 624 3.001514 CCCCACCATGTCTCCCTG 58.998 66.667 0.00 0.00 0.00 4.45
636 637 2.439701 CCCTGCTGCCCATCACTG 60.440 66.667 0.00 0.00 0.00 3.66
637 638 3.138798 CCTGCTGCCCATCACTGC 61.139 66.667 0.00 0.00 0.00 4.40
696 737 1.508088 GAAGCATCAACAAGGGCCG 59.492 57.895 0.00 0.00 0.00 6.13
703 744 1.600023 TCAACAAGGGCCGTTTAGTG 58.400 50.000 8.25 7.03 0.00 2.74
863 904 2.758327 TATCTGCTCACCGGCCGT 60.758 61.111 26.12 9.63 0.00 5.68
884 925 5.357257 CGTCCGGGGATAATAAATATCAGG 58.643 45.833 0.00 0.00 41.95 3.86
999 2543 2.759973 TAGCTAGCCAGGCACGCT 60.760 61.111 25.34 25.34 39.07 5.07
1077 2621 1.362717 CGACGAGGCGGTGGAATAT 59.637 57.895 0.00 0.00 0.00 1.28
1236 2780 1.244019 AAACCATCGACAGCAAGGGC 61.244 55.000 0.00 0.00 41.61 5.19
1291 2835 2.203549 CTGGGAAGGGCAGAAGGTCC 62.204 65.000 0.00 0.00 43.70 4.46
1525 3069 2.279918 ATGATTACGGCCGCGACC 60.280 61.111 28.58 13.27 0.00 4.79
1565 3109 2.675242 CCACCCGGCAACCCATAGA 61.675 63.158 0.00 0.00 0.00 1.98
1566 3110 1.451387 CACCCGGCAACCCATAGAC 60.451 63.158 0.00 0.00 0.00 2.59
1583 3136 2.701073 GACGAAGAGTCCGAACTTCA 57.299 50.000 13.46 0.00 43.95 3.02
1584 3137 3.219052 GACGAAGAGTCCGAACTTCAT 57.781 47.619 13.46 2.58 43.95 2.57
1585 3138 3.172824 GACGAAGAGTCCGAACTTCATC 58.827 50.000 13.46 6.98 43.95 2.92
1586 3139 2.820787 ACGAAGAGTCCGAACTTCATCT 59.179 45.455 13.46 0.00 41.47 2.90
1587 3140 3.256136 ACGAAGAGTCCGAACTTCATCTT 59.744 43.478 13.46 0.00 41.47 2.40
1588 3141 3.854809 CGAAGAGTCCGAACTTCATCTTC 59.145 47.826 13.46 0.00 41.47 2.87
1589 3142 4.380023 CGAAGAGTCCGAACTTCATCTTCT 60.380 45.833 10.11 1.74 41.47 2.85
1590 3143 4.712122 AGAGTCCGAACTTCATCTTCTC 57.288 45.455 0.00 0.00 35.28 2.87
1591 3144 3.127895 AGAGTCCGAACTTCATCTTCTCG 59.872 47.826 0.00 0.00 35.28 4.04
1592 3145 3.082548 AGTCCGAACTTCATCTTCTCGA 58.917 45.455 0.00 0.00 28.74 4.04
1593 3146 3.127895 AGTCCGAACTTCATCTTCTCGAG 59.872 47.826 5.93 5.93 28.74 4.04
1594 3147 2.423892 TCCGAACTTCATCTTCTCGAGG 59.576 50.000 13.56 0.00 0.00 4.63
1595 3148 2.423892 CCGAACTTCATCTTCTCGAGGA 59.576 50.000 13.56 1.83 0.00 3.71
1598 3151 1.403679 ACTTCATCTTCTCGAGGAGCG 59.596 52.381 16.52 9.59 42.69 5.03
1615 3168 3.564027 GGATTTCGGCGTCGGCAG 61.564 66.667 19.59 11.47 42.47 4.85
1616 3169 2.508439 GATTTCGGCGTCGGCAGA 60.508 61.111 19.59 13.58 41.71 4.26
1618 3171 1.429148 GATTTCGGCGTCGGCAGATT 61.429 55.000 19.59 7.70 42.91 2.40
1619 3172 1.024579 ATTTCGGCGTCGGCAGATTT 61.025 50.000 19.59 5.15 42.91 2.17
1621 3174 3.913573 CGGCGTCGGCAGATTTCG 61.914 66.667 19.59 0.00 42.47 3.46
1622 3175 3.564027 GGCGTCGGCAGATTTCGG 61.564 66.667 14.73 0.00 42.47 4.30
1623 3176 4.223964 GCGTCGGCAGATTTCGGC 62.224 66.667 0.00 0.00 39.62 5.54
1624 3177 2.813474 CGTCGGCAGATTTCGGCA 60.813 61.111 5.11 0.00 38.83 5.69
1625 3178 2.802667 CGTCGGCAGATTTCGGCAG 61.803 63.158 5.11 1.08 38.83 4.85
1626 3179 1.447838 GTCGGCAGATTTCGGCAGA 60.448 57.895 5.11 3.48 38.61 4.26
1627 3180 0.811616 GTCGGCAGATTTCGGCAGAT 60.812 55.000 8.47 0.00 41.90 2.90
1628 3181 0.530650 TCGGCAGATTTCGGCAGATC 60.531 55.000 5.11 0.00 36.55 2.75
1632 3185 2.283298 GCAGATTTCGGCAGATCTTCA 58.717 47.619 0.00 0.00 37.03 3.02
1633 3186 2.287373 GCAGATTTCGGCAGATCTTCAG 59.713 50.000 0.00 0.00 37.03 3.02
1656 3212 2.628657 AGATCAGGATGGCTACGGTAAC 59.371 50.000 0.00 0.00 36.16 2.50
1728 3384 2.664851 CGCTCGTGGTTCTTGCCA 60.665 61.111 0.00 0.00 35.93 4.92
1739 3395 4.020617 CTTGCCAGGCGGAGACCA 62.021 66.667 7.03 0.00 31.70 4.02
1740 3396 3.329889 TTGCCAGGCGGAGACCAT 61.330 61.111 7.03 0.00 31.70 3.55
1779 3435 2.755929 GACATCAGGTCAAGACGCC 58.244 57.895 0.00 0.00 46.19 5.68
1781 3437 1.450312 CATCAGGTCAAGACGCCCC 60.450 63.158 0.00 0.00 0.00 5.80
1820 3482 2.434185 GTTCGCCGGTGCAGATGA 60.434 61.111 11.05 0.00 37.32 2.92
1831 3498 0.321475 TGCAGATGATGGTGTTGCGA 60.321 50.000 0.00 0.00 37.58 5.10
1838 3505 3.171828 ATGGTGTTGCGACGGTGGA 62.172 57.895 0.00 0.00 0.00 4.02
1953 3623 2.112297 GTGTGCGGTTTGGAGGGA 59.888 61.111 0.00 0.00 0.00 4.20
2076 3746 0.568888 GCATGAATGCGCAATTGTCG 59.431 50.000 17.11 15.07 44.67 4.35
2197 3871 1.489649 AGAAGGCCTGATCTGATGTGG 59.510 52.381 5.69 0.00 0.00 4.17
2201 3875 0.107312 GCCTGATCTGATGTGGCAGT 60.107 55.000 19.43 0.00 42.79 4.40
2210 3887 6.316140 TGATCTGATGTGGCAGTTTGTAATAC 59.684 38.462 0.00 0.00 37.20 1.89
2291 3978 9.468532 GTTGAAATTAATCTTGGAAGATATGCC 57.531 33.333 2.30 0.00 44.67 4.40
2292 3979 8.765488 TGAAATTAATCTTGGAAGATATGCCA 57.235 30.769 2.30 0.00 44.67 4.92
2293 3980 9.199645 TGAAATTAATCTTGGAAGATATGCCAA 57.800 29.630 0.00 0.00 44.67 4.52
2299 3986 2.923121 TGGAAGATATGCCAAGTCAGC 58.077 47.619 0.00 0.00 0.00 4.26
2300 3987 2.239402 TGGAAGATATGCCAAGTCAGCA 59.761 45.455 0.00 0.00 45.94 4.41
2305 3992 3.740397 TGCCAAGTCAGCATGCGC 61.740 61.111 13.01 8.32 34.69 6.09
2306 3993 4.487412 GCCAAGTCAGCATGCGCC 62.487 66.667 13.01 4.03 39.83 6.53
2307 3994 3.057548 CCAAGTCAGCATGCGCCA 61.058 61.111 13.01 0.00 39.83 5.69
2308 3995 2.483745 CAAGTCAGCATGCGCCAG 59.516 61.111 13.01 4.07 39.83 4.85
2309 3996 3.437795 AAGTCAGCATGCGCCAGC 61.438 61.111 13.01 12.65 45.41 4.85
2316 4003 2.827190 CATGCGCCAGCCAGTCAT 60.827 61.111 4.18 0.00 44.33 3.06
2317 4004 2.827190 ATGCGCCAGCCAGTCATG 60.827 61.111 4.18 0.00 44.33 3.07
2320 4007 3.200593 CGCCAGCCAGTCATGCTC 61.201 66.667 0.00 0.00 36.81 4.26
2321 4008 2.045634 GCCAGCCAGTCATGCTCA 60.046 61.111 0.00 0.00 36.81 4.26
2322 4009 1.453379 GCCAGCCAGTCATGCTCAT 60.453 57.895 0.00 0.00 36.81 2.90
2323 4010 1.725557 GCCAGCCAGTCATGCTCATG 61.726 60.000 3.55 3.55 36.81 3.07
2324 4011 0.393944 CCAGCCAGTCATGCTCATGT 60.394 55.000 9.41 0.00 39.72 3.21
2325 4012 0.733150 CAGCCAGTCATGCTCATGTG 59.267 55.000 9.41 2.40 39.72 3.21
2326 4013 0.393944 AGCCAGTCATGCTCATGTGG 60.394 55.000 12.55 12.55 39.72 4.17
2327 4014 1.381928 GCCAGTCATGCTCATGTGGG 61.382 60.000 16.43 13.41 39.72 4.61
2328 4015 0.253894 CCAGTCATGCTCATGTGGGA 59.746 55.000 9.41 0.00 39.72 4.37
2329 4016 1.664873 CAGTCATGCTCATGTGGGAG 58.335 55.000 9.41 0.00 39.72 4.30
2338 4025 3.123157 CTCATGTGGGAGCTATGGAAG 57.877 52.381 0.00 0.00 0.00 3.46
2352 4039 5.998454 CTATGGAAGCATCGAAACTCAAT 57.002 39.130 0.00 0.00 0.00 2.57
2353 4040 6.369059 CTATGGAAGCATCGAAACTCAATT 57.631 37.500 0.00 0.00 0.00 2.32
2354 4041 4.424061 TGGAAGCATCGAAACTCAATTG 57.576 40.909 0.00 0.00 0.00 2.32
2355 4042 3.820467 TGGAAGCATCGAAACTCAATTGT 59.180 39.130 5.13 0.00 0.00 2.71
2356 4043 4.161333 GGAAGCATCGAAACTCAATTGTG 58.839 43.478 5.13 5.59 0.00 3.33
2357 4044 4.320494 GGAAGCATCGAAACTCAATTGTGT 60.320 41.667 7.33 7.33 0.00 3.72
2358 4045 4.836125 AGCATCGAAACTCAATTGTGTT 57.164 36.364 17.83 17.83 33.72 3.32
2359 4046 5.186996 AGCATCGAAACTCAATTGTGTTT 57.813 34.783 29.15 29.15 42.29 2.83
2360 4047 4.977963 AGCATCGAAACTCAATTGTGTTTG 59.022 37.500 32.17 24.66 40.48 2.93
2361 4048 4.975502 GCATCGAAACTCAATTGTGTTTGA 59.024 37.500 32.17 27.47 40.48 2.69
2362 4049 5.630680 GCATCGAAACTCAATTGTGTTTGAT 59.369 36.000 32.17 28.08 40.48 2.57
2363 4050 6.399249 GCATCGAAACTCAATTGTGTTTGATG 60.399 38.462 34.21 34.21 41.65 3.07
2364 4051 5.518812 TCGAAACTCAATTGTGTTTGATGG 58.481 37.500 32.17 21.14 40.48 3.51
2365 4052 5.298026 TCGAAACTCAATTGTGTTTGATGGA 59.702 36.000 32.17 22.46 40.48 3.41
2366 4053 5.976534 CGAAACTCAATTGTGTTTGATGGAA 59.023 36.000 32.17 0.00 40.48 3.53
2367 4054 6.475076 CGAAACTCAATTGTGTTTGATGGAAA 59.525 34.615 32.17 0.00 40.48 3.13
2368 4055 7.306167 CGAAACTCAATTGTGTTTGATGGAAAG 60.306 37.037 32.17 10.83 40.48 2.62
2369 4056 6.713762 ACTCAATTGTGTTTGATGGAAAGA 57.286 33.333 7.33 0.00 35.20 2.52
2370 4057 6.742109 ACTCAATTGTGTTTGATGGAAAGAG 58.258 36.000 7.33 0.00 35.20 2.85
2371 4058 6.322201 ACTCAATTGTGTTTGATGGAAAGAGT 59.678 34.615 7.33 0.00 35.20 3.24
2372 4059 6.738114 TCAATTGTGTTTGATGGAAAGAGTC 58.262 36.000 5.13 0.00 30.82 3.36
2373 4060 6.239008 TCAATTGTGTTTGATGGAAAGAGTCC 60.239 38.462 5.13 0.00 37.53 3.85
2374 4061 9.328605 TCAATTGTGTTTGATGGAAAGAGTCCG 62.329 40.741 5.13 0.00 38.76 4.79
2380 4067 4.573162 GGAAAGAGTCCGGACGTG 57.427 61.111 28.26 0.00 36.40 4.49
2381 4068 1.737008 GGAAAGAGTCCGGACGTGC 60.737 63.158 28.26 20.73 36.40 5.34
2382 4069 2.049433 AAAGAGTCCGGACGTGCG 60.049 61.111 28.26 23.45 36.20 5.34
2383 4070 2.467946 GAAAGAGTCCGGACGTGCGA 62.468 60.000 31.64 14.06 36.20 5.10
2384 4071 2.744307 AAAGAGTCCGGACGTGCGAC 62.744 60.000 31.64 24.04 36.20 5.19
2385 4072 4.034258 GAGTCCGGACGTGCGACA 62.034 66.667 31.64 14.07 36.20 4.35
2386 4073 3.338126 GAGTCCGGACGTGCGACAT 62.338 63.158 31.64 15.25 36.20 3.06
2387 4074 3.179265 GTCCGGACGTGCGACATG 61.179 66.667 31.64 14.08 0.00 3.21
2388 4075 3.676605 TCCGGACGTGCGACATGT 61.677 61.111 31.64 0.00 36.19 3.21
2389 4076 3.478394 CCGGACGTGCGACATGTG 61.478 66.667 31.64 9.00 33.38 3.21
2390 4077 4.134187 CGGACGTGCGACATGTGC 62.134 66.667 26.18 8.25 38.14 4.57
2391 4078 2.738521 GGACGTGCGACATGTGCT 60.739 61.111 1.15 0.00 38.40 4.40
2392 4079 1.445410 GGACGTGCGACATGTGCTA 60.445 57.895 1.15 0.00 38.40 3.49
2393 4080 1.683790 GGACGTGCGACATGTGCTAC 61.684 60.000 1.15 7.70 38.40 3.58
2394 4081 1.998550 GACGTGCGACATGTGCTACG 61.999 60.000 24.59 24.59 40.29 3.51
2395 4082 2.788176 CGTGCGACATGTGCTACGG 61.788 63.158 21.88 12.66 35.08 4.02
2396 4083 2.813474 TGCGACATGTGCTACGGC 60.813 61.111 1.15 0.00 39.26 5.68
2397 4084 3.913573 GCGACATGTGCTACGGCG 61.914 66.667 1.15 4.80 42.25 6.46
2398 4085 3.254654 CGACATGTGCTACGGCGG 61.255 66.667 13.24 0.00 42.25 6.13
2399 4086 2.183300 GACATGTGCTACGGCGGA 59.817 61.111 13.24 0.00 42.25 5.54
2400 4087 1.227263 GACATGTGCTACGGCGGAT 60.227 57.895 13.24 0.00 42.25 4.18
2401 4088 0.031585 GACATGTGCTACGGCGGATA 59.968 55.000 13.24 0.00 42.25 2.59
2402 4089 0.032130 ACATGTGCTACGGCGGATAG 59.968 55.000 13.24 5.97 42.25 2.08
2403 4090 1.006102 ATGTGCTACGGCGGATAGC 60.006 57.895 19.13 19.13 44.48 2.97
2414 4101 2.819667 CGGATAGCATCTGAAGGCG 58.180 57.895 0.00 0.00 37.25 5.52
2415 4102 1.287730 CGGATAGCATCTGAAGGCGC 61.288 60.000 0.00 0.00 37.25 6.53
2416 4103 1.287730 GGATAGCATCTGAAGGCGCG 61.288 60.000 0.00 0.00 37.25 6.86
2417 4104 1.287730 GATAGCATCTGAAGGCGCGG 61.288 60.000 8.83 0.00 37.25 6.46
2418 4105 2.032860 ATAGCATCTGAAGGCGCGGT 62.033 55.000 8.83 0.00 37.25 5.68
2419 4106 2.629050 TAGCATCTGAAGGCGCGGTC 62.629 60.000 8.83 0.88 37.25 4.79
2420 4107 2.185350 CATCTGAAGGCGCGGTCT 59.815 61.111 8.83 0.00 0.00 3.85
2421 4108 2.169789 CATCTGAAGGCGCGGTCTG 61.170 63.158 8.83 5.39 0.00 3.51
2422 4109 3.376935 ATCTGAAGGCGCGGTCTGG 62.377 63.158 8.83 0.00 0.00 3.86
2423 4110 4.069232 CTGAAGGCGCGGTCTGGA 62.069 66.667 8.83 0.00 0.00 3.86
2424 4111 3.589654 CTGAAGGCGCGGTCTGGAA 62.590 63.158 8.83 0.00 0.00 3.53
2425 4112 2.358247 GAAGGCGCGGTCTGGAAA 60.358 61.111 8.83 0.00 0.00 3.13
2426 4113 2.668550 AAGGCGCGGTCTGGAAAC 60.669 61.111 8.83 0.00 0.00 2.78
2427 4114 3.469863 AAGGCGCGGTCTGGAAACA 62.470 57.895 8.83 0.00 39.59 2.83
2449 4136 3.194116 AGGCAGGCATACAACTGATTTTG 59.806 43.478 0.00 0.00 36.86 2.44
2461 4148 6.105657 CAACTGATTTTGGTTGTTTCAACC 57.894 37.500 20.55 20.55 38.27 3.77
2614 4320 8.804743 TGATTTACTCGTTTCGAATAACTCATC 58.195 33.333 0.00 4.17 34.36 2.92
2616 4322 7.736031 TTACTCGTTTCGAATAACTCATCTG 57.264 36.000 0.00 0.00 34.74 2.90
2633 4340 8.697507 ACTCATCTGAAGTATTTCAAAAACCT 57.302 30.769 2.06 0.00 42.48 3.50
2671 4378 1.873270 AAACAAATCCGCCCGCTTCC 61.873 55.000 0.00 0.00 0.00 3.46
2679 4386 1.238625 CCGCCCGCTTCCTAAAACAA 61.239 55.000 0.00 0.00 0.00 2.83
2702 4409 8.878769 ACAACTTTTGCTCGTTTCAAAAATTAT 58.121 25.926 11.16 0.00 41.23 1.28
2711 4418 8.539674 GCTCGTTTCAAAAATTATGTTTCACTT 58.460 29.630 0.00 0.00 0.00 3.16
2786 4493 7.812309 TCAGAAAACATATTACACTCACTCG 57.188 36.000 0.00 0.00 0.00 4.18
2795 4502 9.214957 ACATATTACACTCACTCGAATGAAAAA 57.785 29.630 0.00 0.00 0.00 1.94
2806 4529 7.552687 TCACTCGAATGAAAAAGCTGGTATATT 59.447 33.333 0.00 0.00 0.00 1.28
2879 4602 8.739039 TGGAATACCATATTTCACTTGTTTCAG 58.261 33.333 0.00 0.00 41.77 3.02
2885 4608 7.653311 ACCATATTTCACTTGTTTCAGAAAAGC 59.347 33.333 0.00 0.00 34.13 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 3.008375 AGGCATGCTACTTTGTCTCTTCA 59.992 43.478 18.92 0.00 0.00 3.02
139 140 3.325870 TCGTGGTTGCTCTACATGAAAG 58.674 45.455 0.00 0.00 0.00 2.62
162 163 1.002087 CGCCACCTTCTTGAAGTACCT 59.998 52.381 9.21 0.00 0.00 3.08
180 181 1.277739 CGTCATCCATGCACATCGC 59.722 57.895 0.00 0.00 42.89 4.58
281 282 2.737180 CCTAGGCGGCATCGTGAT 59.263 61.111 13.08 0.00 38.89 3.06
295 296 1.139455 GTTAGTTACCATGCCCGCCTA 59.861 52.381 0.00 0.00 0.00 3.93
431 432 4.932105 TTGGTGGTTGGGCCCTGC 62.932 66.667 25.70 15.55 36.04 4.85
497 498 6.758806 TTTCACTTCTTCCCTAACCTAGTT 57.241 37.500 0.00 0.00 0.00 2.24
534 535 1.084370 GGTGGCAGTCTACGATGTGC 61.084 60.000 0.00 0.00 35.07 4.57
542 543 0.602638 CACAAAGCGGTGGCAGTCTA 60.603 55.000 0.00 0.00 43.41 2.59
605 606 3.017581 AGGGAGACATGGTGGGGC 61.018 66.667 0.00 0.00 0.00 5.80
621 622 3.506096 CGCAGTGATGGGCAGCAG 61.506 66.667 0.00 0.00 0.00 4.24
674 715 0.523072 CCCTTGTTGATGCTTCCACG 59.477 55.000 0.00 0.00 0.00 4.94
696 737 3.060070 ACGCTTTAACGCTGTCACTAAAC 60.060 43.478 2.20 0.00 36.19 2.01
703 744 2.096614 TGCTAAACGCTTTAACGCTGTC 60.097 45.455 2.20 0.00 40.11 3.51
863 904 4.141801 CGCCTGATATTTATTATCCCCGGA 60.142 45.833 0.73 0.00 36.61 5.14
999 2543 1.144496 GTCGGCCGGCTTTACCATA 59.856 57.895 28.56 0.00 39.03 2.74
1077 2621 1.310933 GGAGTCGACGGAGCAGGTAA 61.311 60.000 10.46 0.00 0.00 2.85
1236 2780 2.027625 GGTCCGCTTGTTCCGACTG 61.028 63.158 0.00 0.00 0.00 3.51
1291 2835 0.534412 AGCTCCTTGTCATCCACGAG 59.466 55.000 0.00 0.00 36.34 4.18
1558 3102 1.676746 TCGGACTCTTCGTCTATGGG 58.323 55.000 0.00 0.00 42.44 4.00
1565 3109 2.820787 AGATGAAGTTCGGACTCTTCGT 59.179 45.455 0.00 13.23 41.77 3.85
1566 3110 3.495670 AGATGAAGTTCGGACTCTTCG 57.504 47.619 0.00 0.00 41.77 3.79
1578 3131 1.403679 CGCTCCTCGAGAAGATGAAGT 59.596 52.381 15.71 0.00 41.67 3.01
1579 3132 1.268999 CCGCTCCTCGAGAAGATGAAG 60.269 57.143 15.71 0.00 41.67 3.02
1580 3133 0.741326 CCGCTCCTCGAGAAGATGAA 59.259 55.000 15.71 0.00 41.67 2.57
1581 3134 0.107165 TCCGCTCCTCGAGAAGATGA 60.107 55.000 15.71 0.00 41.67 2.92
1582 3135 0.958091 ATCCGCTCCTCGAGAAGATG 59.042 55.000 15.71 0.00 41.67 2.90
1583 3136 1.698506 AATCCGCTCCTCGAGAAGAT 58.301 50.000 15.71 5.47 41.67 2.40
1584 3137 1.405821 GAAATCCGCTCCTCGAGAAGA 59.594 52.381 15.71 2.20 41.67 2.87
1585 3138 1.846541 GAAATCCGCTCCTCGAGAAG 58.153 55.000 15.71 3.34 41.67 2.85
1586 3139 0.100682 CGAAATCCGCTCCTCGAGAA 59.899 55.000 15.71 0.00 41.67 2.87
1587 3140 1.725557 CCGAAATCCGCTCCTCGAGA 61.726 60.000 15.71 0.00 41.67 4.04
1588 3141 1.299468 CCGAAATCCGCTCCTCGAG 60.299 63.158 5.13 5.13 41.67 4.04
1589 3142 2.805546 CCGAAATCCGCTCCTCGA 59.194 61.111 0.00 0.00 41.67 4.04
1590 3143 2.962253 GCCGAAATCCGCTCCTCG 60.962 66.667 0.00 0.00 36.84 4.63
1591 3144 2.962253 CGCCGAAATCCGCTCCTC 60.962 66.667 0.00 0.00 36.84 3.71
1592 3145 3.718210 GACGCCGAAATCCGCTCCT 62.718 63.158 0.00 0.00 36.84 3.69
1593 3146 3.262686 GACGCCGAAATCCGCTCC 61.263 66.667 0.00 0.00 36.84 4.70
1594 3147 3.617538 CGACGCCGAAATCCGCTC 61.618 66.667 0.00 0.00 38.22 5.03
1598 3151 3.564027 CTGCCGACGCCGAAATCC 61.564 66.667 0.00 0.00 38.22 3.01
1612 3165 2.283298 TGAAGATCTGCCGAAATCTGC 58.717 47.619 0.00 0.00 32.62 4.26
1613 3166 3.790091 TCTGAAGATCTGCCGAAATCTG 58.210 45.455 0.00 0.00 32.62 2.90
1614 3167 4.161189 TCTTCTGAAGATCTGCCGAAATCT 59.839 41.667 15.82 0.00 33.67 2.40
1615 3168 4.437239 TCTTCTGAAGATCTGCCGAAATC 58.563 43.478 15.82 0.00 31.20 2.17
1616 3169 4.478206 TCTTCTGAAGATCTGCCGAAAT 57.522 40.909 15.82 0.00 31.20 2.17
1627 3180 3.382278 AGCCATCCTGATCTTCTGAAGA 58.618 45.455 21.32 21.32 42.69 2.87
1628 3181 3.842007 AGCCATCCTGATCTTCTGAAG 57.158 47.619 11.18 11.18 0.00 3.02
1632 3185 1.967066 CCGTAGCCATCCTGATCTTCT 59.033 52.381 0.00 0.00 0.00 2.85
1633 3186 1.689273 ACCGTAGCCATCCTGATCTTC 59.311 52.381 0.00 0.00 0.00 2.87
1661 3217 1.855360 GATGATCCTCTGTCGCGTTTC 59.145 52.381 5.77 0.00 0.00 2.78
1662 3218 1.204704 TGATGATCCTCTGTCGCGTTT 59.795 47.619 5.77 0.00 0.00 3.60
1701 3357 4.680237 CACGAGCGGCCCAAGTCA 62.680 66.667 0.00 0.00 0.00 3.41
1707 3363 4.699522 AAGAACCACGAGCGGCCC 62.700 66.667 0.00 0.00 0.00 5.80
1728 3384 0.757188 CTACTCCATGGTCTCCGCCT 60.757 60.000 12.58 0.00 0.00 5.52
1769 3425 2.743928 CTGCTGGGGCGTCTTGAC 60.744 66.667 0.00 0.00 42.25 3.18
1781 3437 0.812811 ATGTATCACGCCAGCTGCTG 60.813 55.000 22.44 22.44 38.05 4.41
1797 3459 2.742372 GCACCGGCGAACTCATGT 60.742 61.111 9.30 0.00 0.00 3.21
1820 3482 2.668185 TTCCACCGTCGCAACACCAT 62.668 55.000 0.00 0.00 0.00 3.55
1831 3498 1.291272 GTAGCGTTCCTTCCACCGT 59.709 57.895 0.00 0.00 0.00 4.83
1838 3505 1.602327 GGAGGACGGTAGCGTTCCTT 61.602 60.000 27.33 13.28 0.00 3.36
1953 3623 3.222354 GAACTGGCCGTCGAGGTGT 62.222 63.158 0.00 0.00 43.70 4.16
1965 3635 2.046892 CTGGTGCCGGAGAACTGG 60.047 66.667 5.05 0.00 44.87 4.00
2076 3746 2.506438 GCTACCGCGTGTGTCCTC 60.506 66.667 4.92 0.00 0.00 3.71
2197 3871 9.624697 TCAAATTCATCAAGTATTACAAACTGC 57.375 29.630 0.00 0.00 0.00 4.40
2280 3967 2.923121 TGCTGACTTGGCATATCTTCC 58.077 47.619 0.00 0.00 34.56 3.46
2281 3968 3.304525 GCATGCTGACTTGGCATATCTTC 60.305 47.826 11.37 0.00 46.94 2.87
2282 3969 2.621998 GCATGCTGACTTGGCATATCTT 59.378 45.455 11.37 0.00 46.94 2.40
2283 3970 2.228059 GCATGCTGACTTGGCATATCT 58.772 47.619 11.37 0.00 46.94 1.98
2284 3971 1.069432 CGCATGCTGACTTGGCATATC 60.069 52.381 17.13 0.00 46.94 1.63
2285 3972 0.949397 CGCATGCTGACTTGGCATAT 59.051 50.000 17.13 0.00 46.94 1.78
2286 3973 1.717791 GCGCATGCTGACTTGGCATA 61.718 55.000 17.13 0.00 46.94 3.14
2288 3975 3.740397 GCGCATGCTGACTTGGCA 61.740 61.111 17.13 0.00 44.05 4.92
2289 3976 4.487412 GGCGCATGCTGACTTGGC 62.487 66.667 17.13 9.54 42.25 4.52
2290 3977 3.047718 CTGGCGCATGCTGACTTGG 62.048 63.158 17.13 0.00 42.25 3.61
2291 3978 2.483745 CTGGCGCATGCTGACTTG 59.516 61.111 17.13 0.00 42.25 3.16
2292 3979 3.437795 GCTGGCGCATGCTGACTT 61.438 61.111 17.13 0.00 42.25 3.01
2299 3986 2.827190 ATGACTGGCTGGCGCATG 60.827 61.111 10.83 1.32 38.10 4.06
2300 3987 2.827190 CATGACTGGCTGGCGCAT 60.827 61.111 10.83 0.00 38.10 4.73
2303 3990 3.200593 GAGCATGACTGGCTGGCG 61.201 66.667 0.00 0.00 42.78 5.69
2304 3991 1.453379 ATGAGCATGACTGGCTGGC 60.453 57.895 0.00 0.00 42.78 4.85
2305 3992 0.393944 ACATGAGCATGACTGGCTGG 60.394 55.000 16.70 0.00 42.78 4.85
2306 3993 0.733150 CACATGAGCATGACTGGCTG 59.267 55.000 16.70 0.45 42.78 4.85
2307 3994 0.393944 CCACATGAGCATGACTGGCT 60.394 55.000 16.70 0.00 46.07 4.75
2308 3995 1.381928 CCCACATGAGCATGACTGGC 61.382 60.000 16.70 0.00 41.20 4.85
2309 3996 0.253894 TCCCACATGAGCATGACTGG 59.746 55.000 16.70 13.62 41.20 4.00
2310 3997 1.664873 CTCCCACATGAGCATGACTG 58.335 55.000 16.70 5.89 41.20 3.51
2318 4005 2.809665 GCTTCCATAGCTCCCACATGAG 60.810 54.545 0.00 0.00 46.77 2.90
2319 4006 1.141657 GCTTCCATAGCTCCCACATGA 59.858 52.381 0.00 0.00 46.77 3.07
2320 4007 1.602311 GCTTCCATAGCTCCCACATG 58.398 55.000 0.00 0.00 46.77 3.21
2330 4017 5.998454 ATTGAGTTTCGATGCTTCCATAG 57.002 39.130 0.00 0.00 0.00 2.23
2331 4018 5.647658 ACAATTGAGTTTCGATGCTTCCATA 59.352 36.000 13.59 0.00 0.00 2.74
2332 4019 4.460382 ACAATTGAGTTTCGATGCTTCCAT 59.540 37.500 13.59 0.00 0.00 3.41
2333 4020 3.820467 ACAATTGAGTTTCGATGCTTCCA 59.180 39.130 13.59 0.00 0.00 3.53
2334 4021 4.161333 CACAATTGAGTTTCGATGCTTCC 58.839 43.478 13.59 0.00 0.00 3.46
2335 4022 4.787598 ACACAATTGAGTTTCGATGCTTC 58.212 39.130 13.59 0.00 0.00 3.86
2336 4023 4.836125 ACACAATTGAGTTTCGATGCTT 57.164 36.364 13.59 0.00 0.00 3.91
2337 4024 4.836125 AACACAATTGAGTTTCGATGCT 57.164 36.364 13.59 0.00 0.00 3.79
2338 4025 4.975502 TCAAACACAATTGAGTTTCGATGC 59.024 37.500 25.13 0.00 36.86 3.91
2339 4026 6.088483 CCATCAAACACAATTGAGTTTCGATG 59.912 38.462 32.28 32.28 42.21 3.84
2340 4027 6.016360 TCCATCAAACACAATTGAGTTTCGAT 60.016 34.615 25.13 24.28 42.21 3.59
2341 4028 5.298026 TCCATCAAACACAATTGAGTTTCGA 59.702 36.000 25.13 23.50 42.21 3.71
2342 4029 5.518812 TCCATCAAACACAATTGAGTTTCG 58.481 37.500 25.13 20.36 42.21 3.46
2343 4030 7.706179 TCTTTCCATCAAACACAATTGAGTTTC 59.294 33.333 25.13 0.00 42.21 2.78
2344 4031 7.555087 TCTTTCCATCAAACACAATTGAGTTT 58.445 30.769 23.11 23.11 42.21 2.66
2345 4032 7.111247 TCTTTCCATCAAACACAATTGAGTT 57.889 32.000 13.59 14.13 42.21 3.01
2346 4033 6.322201 ACTCTTTCCATCAAACACAATTGAGT 59.678 34.615 13.59 7.71 42.21 3.41
2347 4034 6.742109 ACTCTTTCCATCAAACACAATTGAG 58.258 36.000 13.59 6.93 42.21 3.02
2348 4035 6.239008 GGACTCTTTCCATCAAACACAATTGA 60.239 38.462 13.59 0.00 45.10 2.57
2349 4036 5.922544 GGACTCTTTCCATCAAACACAATTG 59.077 40.000 3.24 3.24 45.10 2.32
2350 4037 5.278463 CGGACTCTTTCCATCAAACACAATT 60.278 40.000 0.00 0.00 46.29 2.32
2351 4038 4.216257 CGGACTCTTTCCATCAAACACAAT 59.784 41.667 0.00 0.00 46.29 2.71
2352 4039 3.563808 CGGACTCTTTCCATCAAACACAA 59.436 43.478 0.00 0.00 46.29 3.33
2353 4040 3.138304 CGGACTCTTTCCATCAAACACA 58.862 45.455 0.00 0.00 46.29 3.72
2354 4041 2.484264 CCGGACTCTTTCCATCAAACAC 59.516 50.000 0.00 0.00 46.29 3.32
2355 4042 2.370519 TCCGGACTCTTTCCATCAAACA 59.629 45.455 0.00 0.00 46.29 2.83
2356 4043 2.742589 GTCCGGACTCTTTCCATCAAAC 59.257 50.000 27.64 0.00 46.29 2.93
2357 4044 2.611971 CGTCCGGACTCTTTCCATCAAA 60.612 50.000 30.92 0.00 46.29 2.69
2358 4045 1.067142 CGTCCGGACTCTTTCCATCAA 60.067 52.381 30.92 0.00 46.29 2.57
2359 4046 0.530744 CGTCCGGACTCTTTCCATCA 59.469 55.000 30.92 0.00 46.29 3.07
2360 4047 0.531200 ACGTCCGGACTCTTTCCATC 59.469 55.000 30.92 1.97 46.29 3.51
2361 4048 0.246635 CACGTCCGGACTCTTTCCAT 59.753 55.000 30.92 4.55 46.29 3.41
2362 4049 1.663739 CACGTCCGGACTCTTTCCA 59.336 57.895 30.92 0.00 46.29 3.53
2363 4050 1.737008 GCACGTCCGGACTCTTTCC 60.737 63.158 30.92 10.37 41.75 3.13
2364 4051 2.087009 CGCACGTCCGGACTCTTTC 61.087 63.158 30.92 14.49 0.00 2.62
2365 4052 2.049433 CGCACGTCCGGACTCTTT 60.049 61.111 30.92 10.77 0.00 2.52
2366 4053 2.981909 TCGCACGTCCGGACTCTT 60.982 61.111 30.92 13.34 0.00 2.85
2367 4054 3.735029 GTCGCACGTCCGGACTCT 61.735 66.667 30.92 14.12 0.00 3.24
2368 4055 3.338126 ATGTCGCACGTCCGGACTC 62.338 63.158 30.92 18.46 0.00 3.36
2369 4056 3.371063 ATGTCGCACGTCCGGACT 61.371 61.111 30.92 16.03 0.00 3.85
2370 4057 3.179265 CATGTCGCACGTCCGGAC 61.179 66.667 25.28 25.28 0.00 4.79
2371 4058 3.676605 ACATGTCGCACGTCCGGA 61.677 61.111 0.00 0.00 0.00 5.14
2372 4059 3.478394 CACATGTCGCACGTCCGG 61.478 66.667 0.00 0.00 0.00 5.14
2373 4060 4.134187 GCACATGTCGCACGTCCG 62.134 66.667 13.27 0.00 0.00 4.79
2374 4061 1.445410 TAGCACATGTCGCACGTCC 60.445 57.895 18.31 0.00 0.00 4.79
2375 4062 1.702299 GTAGCACATGTCGCACGTC 59.298 57.895 18.31 5.97 0.00 4.34
2376 4063 2.086426 CGTAGCACATGTCGCACGT 61.086 57.895 21.63 9.48 32.80 4.49
2377 4064 2.689183 CGTAGCACATGTCGCACG 59.311 61.111 18.31 18.85 0.00 5.34
2378 4065 3.081133 CCGTAGCACATGTCGCAC 58.919 61.111 18.31 13.70 0.00 5.34
2379 4066 2.813474 GCCGTAGCACATGTCGCA 60.813 61.111 18.31 5.95 39.53 5.10
2380 4067 3.913573 CGCCGTAGCACATGTCGC 61.914 66.667 11.00 11.00 39.83 5.19
2381 4068 2.954020 ATCCGCCGTAGCACATGTCG 62.954 60.000 0.00 0.00 39.83 4.35
2382 4069 0.031585 TATCCGCCGTAGCACATGTC 59.968 55.000 0.00 0.00 39.83 3.06
2383 4070 0.032130 CTATCCGCCGTAGCACATGT 59.968 55.000 0.00 0.00 39.83 3.21
2384 4071 1.284982 GCTATCCGCCGTAGCACATG 61.285 60.000 2.25 0.00 43.12 3.21
2385 4072 1.006102 GCTATCCGCCGTAGCACAT 60.006 57.895 2.25 0.00 43.12 3.21
2386 4073 2.415843 GCTATCCGCCGTAGCACA 59.584 61.111 2.25 0.00 43.12 4.57
2387 4074 2.415843 TGCTATCCGCCGTAGCAC 59.584 61.111 5.43 0.00 46.92 4.40
2389 4076 0.734253 CAGATGCTATCCGCCGTAGC 60.734 60.000 0.21 0.21 43.73 3.58
2390 4077 0.881796 TCAGATGCTATCCGCCGTAG 59.118 55.000 0.00 0.00 38.05 3.51
2391 4078 1.269723 CTTCAGATGCTATCCGCCGTA 59.730 52.381 0.00 0.00 38.05 4.02
2392 4079 0.032678 CTTCAGATGCTATCCGCCGT 59.967 55.000 0.00 0.00 38.05 5.68
2393 4080 0.668706 CCTTCAGATGCTATCCGCCG 60.669 60.000 0.00 0.00 38.05 6.46
2394 4081 0.952984 GCCTTCAGATGCTATCCGCC 60.953 60.000 0.00 0.00 38.05 6.13
2395 4082 1.287730 CGCCTTCAGATGCTATCCGC 61.288 60.000 0.00 0.00 39.77 5.54
2396 4083 1.287730 GCGCCTTCAGATGCTATCCG 61.288 60.000 0.00 0.00 0.00 4.18
2397 4084 1.287730 CGCGCCTTCAGATGCTATCC 61.288 60.000 0.00 0.00 0.00 2.59
2398 4085 1.287730 CCGCGCCTTCAGATGCTATC 61.288 60.000 0.00 0.00 0.00 2.08
2399 4086 1.301244 CCGCGCCTTCAGATGCTAT 60.301 57.895 0.00 0.00 0.00 2.97
2400 4087 2.106938 CCGCGCCTTCAGATGCTA 59.893 61.111 0.00 0.00 0.00 3.49
2401 4088 4.087892 ACCGCGCCTTCAGATGCT 62.088 61.111 0.00 0.00 0.00 3.79
2402 4089 3.567797 GACCGCGCCTTCAGATGC 61.568 66.667 0.00 0.00 0.00 3.91
2403 4090 2.169789 CAGACCGCGCCTTCAGATG 61.170 63.158 0.00 0.00 0.00 2.90
2404 4091 2.185350 CAGACCGCGCCTTCAGAT 59.815 61.111 0.00 0.00 0.00 2.90
2405 4092 4.069232 CCAGACCGCGCCTTCAGA 62.069 66.667 0.00 0.00 0.00 3.27
2406 4093 3.589654 TTCCAGACCGCGCCTTCAG 62.590 63.158 0.00 0.00 0.00 3.02
2407 4094 3.171828 TTTCCAGACCGCGCCTTCA 62.172 57.895 0.00 0.00 0.00 3.02
2408 4095 2.358247 TTTCCAGACCGCGCCTTC 60.358 61.111 0.00 0.00 0.00 3.46
2409 4096 2.668550 GTTTCCAGACCGCGCCTT 60.669 61.111 0.00 0.00 0.00 4.35
2410 4097 3.883744 CTGTTTCCAGACCGCGCCT 62.884 63.158 0.00 0.00 41.50 5.52
2411 4098 3.423154 CTGTTTCCAGACCGCGCC 61.423 66.667 0.00 0.00 41.50 6.53
2412 4099 3.423154 CCTGTTTCCAGACCGCGC 61.423 66.667 0.00 0.00 41.50 6.86
2413 4100 3.423154 GCCTGTTTCCAGACCGCG 61.423 66.667 0.00 0.00 41.50 6.46
2414 4101 2.281484 TGCCTGTTTCCAGACCGC 60.281 61.111 0.00 0.00 41.50 5.68
2415 4102 1.672356 CCTGCCTGTTTCCAGACCG 60.672 63.158 0.00 0.00 41.50 4.79
2416 4103 1.973812 GCCTGCCTGTTTCCAGACC 60.974 63.158 0.00 0.00 41.50 3.85
2417 4104 0.610232 ATGCCTGCCTGTTTCCAGAC 60.610 55.000 0.00 0.00 41.50 3.51
2418 4105 0.991146 TATGCCTGCCTGTTTCCAGA 59.009 50.000 0.00 0.00 41.50 3.86
2419 4106 1.098050 GTATGCCTGCCTGTTTCCAG 58.902 55.000 0.00 0.00 38.50 3.86
2420 4107 0.403655 TGTATGCCTGCCTGTTTCCA 59.596 50.000 0.00 0.00 0.00 3.53
2421 4108 1.202348 GTTGTATGCCTGCCTGTTTCC 59.798 52.381 0.00 0.00 0.00 3.13
2422 4109 2.095059 CAGTTGTATGCCTGCCTGTTTC 60.095 50.000 0.00 0.00 0.00 2.78
2423 4110 1.888512 CAGTTGTATGCCTGCCTGTTT 59.111 47.619 0.00 0.00 0.00 2.83
2424 4111 1.073763 TCAGTTGTATGCCTGCCTGTT 59.926 47.619 0.00 0.00 0.00 3.16
2425 4112 0.692476 TCAGTTGTATGCCTGCCTGT 59.308 50.000 0.00 0.00 0.00 4.00
2426 4113 2.048444 ATCAGTTGTATGCCTGCCTG 57.952 50.000 0.00 0.00 0.00 4.85
2427 4114 2.814805 AATCAGTTGTATGCCTGCCT 57.185 45.000 0.00 0.00 0.00 4.75
2428 4115 3.514645 CAAAATCAGTTGTATGCCTGCC 58.485 45.455 0.00 0.00 0.00 4.85
2429 4116 3.056607 ACCAAAATCAGTTGTATGCCTGC 60.057 43.478 0.00 0.00 0.00 4.85
2430 4117 4.789012 ACCAAAATCAGTTGTATGCCTG 57.211 40.909 0.00 0.00 0.00 4.85
2431 4118 5.138125 CAACCAAAATCAGTTGTATGCCT 57.862 39.130 0.00 0.00 38.81 4.75
2449 4136 5.405873 TGTTTTTCTTTCGGTTGAAACAACC 59.594 36.000 19.74 19.74 39.13 3.77
2458 4145 9.804758 TTATTGTAACATGTTTTTCTTTCGGTT 57.195 25.926 17.78 0.00 0.00 4.44
2589 4284 9.021863 AGATGAGTTATTCGAAACGAGTAAATC 57.978 33.333 20.62 20.62 45.73 2.17
2593 4299 7.080353 TCAGATGAGTTATTCGAAACGAGTA 57.920 36.000 0.00 0.00 37.14 2.59
2614 4320 9.708222 CGATATCAGGTTTTTGAAATACTTCAG 57.292 33.333 3.12 0.00 42.48 3.02
2616 4322 8.398665 AGCGATATCAGGTTTTTGAAATACTTC 58.601 33.333 3.12 0.00 0.00 3.01
2661 4368 0.109919 GTTGTTTTAGGAAGCGGGCG 60.110 55.000 0.00 0.00 0.00 6.13
2664 4371 3.489416 GCAAAAGTTGTTTTAGGAAGCGG 59.511 43.478 0.00 0.00 33.93 5.52
2671 4378 6.862944 TGAAACGAGCAAAAGTTGTTTTAG 57.137 33.333 0.00 0.00 33.93 1.85
2679 4386 8.419076 ACATAATTTTTGAAACGAGCAAAAGT 57.581 26.923 12.01 8.60 43.57 2.66
2824 4547 9.554395 TGAGTGAGTGTAATATGTTTTCTGAAA 57.446 29.630 0.00 0.00 0.00 2.69
2840 4563 5.241403 TGGTATTCCATTTGAGTGAGTGT 57.759 39.130 0.00 0.00 39.03 3.55
2955 7342 9.431887 GTGAAACTCCTTATTTCAGTGTGTATA 57.568 33.333 0.56 0.00 44.55 1.47


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

AutoCloner maintained by Alex Coulton.