Multiple sequence alignment - TraesCS4B01G314300

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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 TraesCS4B01G314300 chr4B 100.000 3461 0 0 1 3461 604138307 604141767 0.000000e+00 6392.0
1 TraesCS4B01G314300 chr4B 92.697 1698 98 15 1131 2813 604130914 604132600 0.000000e+00 2425.0
2 TraesCS4B01G314300 chr4B 96.348 356 10 1 784 1136 604128890 604129245 1.790000e-162 582.0
3 TraesCS4B01G314300 chr4B 89.766 342 21 11 253 592 604073464 604073793 3.190000e-115 425.0
4 TraesCS4B01G314300 chr4B 88.047 343 31 10 3059 3397 579103356 579103692 6.960000e-107 398.0
5 TraesCS4B01G314300 chr4B 90.411 292 25 3 3065 3355 579390544 579390833 7.010000e-102 381.0
6 TraesCS4B01G314300 chr4B 98.305 59 1 0 713 771 604116469 604116527 1.700000e-18 104.0
7 TraesCS4B01G314300 chr4D 92.070 1778 86 26 713 2446 477911620 477913386 0.000000e+00 2451.0
8 TraesCS4B01G314300 chr4D 91.137 598 27 9 89 670 477911031 477911618 0.000000e+00 787.0
9 TraesCS4B01G314300 chr4D 89.605 481 37 10 2986 3461 477914110 477914582 1.780000e-167 599.0
10 TraesCS4B01G314300 chr4D 91.096 292 23 3 3065 3355 463402292 463402581 3.240000e-105 392.0
11 TraesCS4B01G314300 chr4D 91.003 289 22 4 3064 3351 456124201 456124486 1.510000e-103 387.0
12 TraesCS4B01G314300 chr4D 91.429 105 9 0 1 105 477907317 477907421 1.000000e-30 145.0
13 TraesCS4B01G314300 chr6A 87.898 1446 151 10 997 2433 8792734 8791304 0.000000e+00 1679.0
14 TraesCS4B01G314300 chr6A 87.404 1429 153 10 1020 2433 8869049 8867633 0.000000e+00 1616.0
15 TraesCS4B01G314300 chr6A 84.767 1418 185 19 1030 2433 8755021 8753621 0.000000e+00 1393.0
16 TraesCS4B01G314300 chr6A 87.221 493 48 9 1023 1502 563484783 563485273 6.530000e-152 547.0
17 TraesCS4B01G314300 chr6D 87.754 1429 148 9 1020 2433 8348918 8347502 0.000000e+00 1644.0
18 TraesCS4B01G314300 chr6D 87.275 1446 160 11 997 2433 8386592 8385162 0.000000e+00 1629.0
19 TraesCS4B01G314300 chr6D 87.195 492 48 11 1024 1502 420559282 420559771 2.350000e-151 545.0
20 TraesCS4B01G314300 chr6B 83.969 1441 183 19 997 2433 16240898 16242294 0.000000e+00 1338.0
21 TraesCS4B01G314300 chr6B 86.465 495 54 6 1024 1506 612745129 612744636 6.580000e-147 531.0
22 TraesCS4B01G314300 chr4A 94.778 766 40 0 1308 2073 684610552 684611317 0.000000e+00 1194.0
23 TraesCS4B01G314300 chr4A 87.356 522 54 9 6 523 684608940 684609453 3.850000e-164 588.0
24 TraesCS4B01G314300 chr4A 88.385 353 35 4 3015 3363 684615168 684615518 1.490000e-113 420.0
25 TraesCS4B01G314300 chr4A 89.103 312 30 4 3044 3353 21844247 21844556 5.420000e-103 385.0
26 TraesCS4B01G314300 chr4A 85.139 397 33 14 3071 3453 6033665 6033281 1.950000e-102 383.0
27 TraesCS4B01G314300 chr4A 87.838 296 34 2 3056 3351 11623004 11622711 2.560000e-91 346.0
28 TraesCS4B01G314300 chr4A 87.097 124 4 5 523 645 684609757 684609869 2.800000e-26 130.0
29 TraesCS4B01G314300 chr5A 85.117 813 104 7 1622 2433 680709640 680710436 0.000000e+00 815.0
30 TraesCS4B01G314300 chr3B 82.651 928 134 16 1521 2427 85093257 85092336 0.000000e+00 797.0
31 TraesCS4B01G314300 chr3D 82.623 915 132 16 1520 2413 54830805 54829897 0.000000e+00 784.0
32 TraesCS4B01G314300 chrUn 97.297 37 1 0 679 715 268329974 268330010 2.880000e-06 63.9
33 TraesCS4B01G314300 chr2B 94.444 36 1 1 682 717 750332456 750332422 2.000000e-03 54.7


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 TraesCS4B01G314300 chr4B 604138307 604141767 3460 False 6392.0 6392 100.00000 1 3461 1 chr4B.!!$F5 3460
1 TraesCS4B01G314300 chr4B 604128890 604132600 3710 False 1503.5 2425 94.52250 784 2813 2 chr4B.!!$F6 2029
2 TraesCS4B01G314300 chr4D 477907317 477914582 7265 False 995.5 2451 91.06025 1 3461 4 chr4D.!!$F3 3460
3 TraesCS4B01G314300 chr6A 8791304 8792734 1430 True 1679.0 1679 87.89800 997 2433 1 chr6A.!!$R2 1436
4 TraesCS4B01G314300 chr6A 8867633 8869049 1416 True 1616.0 1616 87.40400 1020 2433 1 chr6A.!!$R3 1413
5 TraesCS4B01G314300 chr6A 8753621 8755021 1400 True 1393.0 1393 84.76700 1030 2433 1 chr6A.!!$R1 1403
6 TraesCS4B01G314300 chr6D 8347502 8348918 1416 True 1644.0 1644 87.75400 1020 2433 1 chr6D.!!$R1 1413
7 TraesCS4B01G314300 chr6D 8385162 8386592 1430 True 1629.0 1629 87.27500 997 2433 1 chr6D.!!$R2 1436
8 TraesCS4B01G314300 chr6B 16240898 16242294 1396 False 1338.0 1338 83.96900 997 2433 1 chr6B.!!$F1 1436
9 TraesCS4B01G314300 chr4A 684608940 684615518 6578 False 583.0 1194 89.40400 6 3363 4 chr4A.!!$F2 3357
10 TraesCS4B01G314300 chr5A 680709640 680710436 796 False 815.0 815 85.11700 1622 2433 1 chr5A.!!$F1 811
11 TraesCS4B01G314300 chr3B 85092336 85093257 921 True 797.0 797 82.65100 1521 2427 1 chr3B.!!$R1 906
12 TraesCS4B01G314300 chr3D 54829897 54830805 908 True 784.0 784 82.62300 1520 2413 1 chr3D.!!$R1 893

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
961 5179 0.383949 TCCTCGGCAGCAACAAAAAC 59.616 50.0 0.0 0.0 0.0 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2943 12280 0.037734 TACTGTCCTCGCACTCTCCA 59.962 55.0 0.0 0.0 0.0 3.86 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
23 24 1.206325 CGCACATGCACTAAACGCA 59.794 52.632 4.49 0.00 44.94 5.24
46 47 2.793946 GCGCACCTTGCCACTATG 59.206 61.111 0.30 0.00 41.12 2.23
55 56 1.209019 CTTGCCACTATGAGCACCTCT 59.791 52.381 0.00 0.00 39.10 3.69
62 63 4.022416 CCACTATGAGCACCTCTGAGATAC 60.022 50.000 6.17 0.00 0.00 2.24
193 3820 6.649973 TGCATTTGTTTTCAATCGGATTTCAT 59.350 30.769 0.00 0.00 39.70 2.57
239 3866 9.739276 AGAATCCATTGACAATAGTTTGTTCTA 57.261 29.630 0.00 0.00 46.01 2.10
277 3904 5.208121 ACTTTTGATTTGGTTCTCCCTCAA 58.792 37.500 0.00 0.00 0.00 3.02
282 3909 4.588528 TGATTTGGTTCTCCCTCAAAAAGG 59.411 41.667 0.00 0.00 45.77 3.11
298 3925 6.345298 TCAAAAAGGACCTTTGGATTTGTTC 58.655 36.000 20.25 0.00 33.64 3.18
320 3947 6.762702 TCCGTTTATATTTTTCAAGGGACC 57.237 37.500 0.00 0.00 30.14 4.46
339 3966 5.230182 GGACCCAAATTTGTTTGAGTCATC 58.770 41.667 16.73 1.62 40.17 2.92
378 4005 4.224433 GTTTTTCTACTGCGCTAAAACCC 58.776 43.478 9.73 0.00 34.35 4.11
380 4007 3.412237 TTCTACTGCGCTAAAACCCTT 57.588 42.857 9.73 0.00 0.00 3.95
447 4080 7.542477 ACGTTCATCTTCAAGTATGTAGAGTTG 59.458 37.037 0.00 0.00 36.56 3.16
660 4605 5.047847 GTCAGTTAGTACTTGTGTTGCTCA 58.952 41.667 0.00 0.00 30.26 4.26
670 4615 8.557029 AGTACTTGTGTTGCTCAAATTTACTAC 58.443 33.333 0.00 0.00 0.00 2.73
671 4616 7.568199 ACTTGTGTTGCTCAAATTTACTACT 57.432 32.000 0.00 0.00 0.00 2.57
672 4617 7.639945 ACTTGTGTTGCTCAAATTTACTACTC 58.360 34.615 0.00 0.00 0.00 2.59
676 4621 7.385205 TGTGTTGCTCAAATTTACTACTCTCTC 59.615 37.037 0.00 0.00 0.00 3.20
678 4623 5.978814 TGCTCAAATTTACTACTCTCTCCC 58.021 41.667 0.00 0.00 0.00 4.30
679 4624 5.721960 TGCTCAAATTTACTACTCTCTCCCT 59.278 40.000 0.00 0.00 0.00 4.20
680 4625 6.895756 TGCTCAAATTTACTACTCTCTCCCTA 59.104 38.462 0.00 0.00 0.00 3.53
681 4626 7.399191 TGCTCAAATTTACTACTCTCTCCCTAA 59.601 37.037 0.00 0.00 0.00 2.69
686 4631 8.999220 AATTTACTACTCTCTCCCTAAAAACG 57.001 34.615 0.00 0.00 0.00 3.60
689 4634 3.596310 ACTCTCTCCCTAAAAACGCTC 57.404 47.619 0.00 0.00 0.00 5.03
690 4635 3.166679 ACTCTCTCCCTAAAAACGCTCT 58.833 45.455 0.00 0.00 0.00 4.09
691 4636 3.579151 ACTCTCTCCCTAAAAACGCTCTT 59.421 43.478 0.00 0.00 0.00 2.85
693 4638 5.422650 ACTCTCTCCCTAAAAACGCTCTTAT 59.577 40.000 0.00 0.00 0.00 1.73
694 4639 6.606395 ACTCTCTCCCTAAAAACGCTCTTATA 59.394 38.462 0.00 0.00 0.00 0.98
695 4640 7.288158 ACTCTCTCCCTAAAAACGCTCTTATAT 59.712 37.037 0.00 0.00 0.00 0.86
697 4642 9.139734 TCTCTCCCTAAAAACGCTCTTATATTA 57.860 33.333 0.00 0.00 0.00 0.98
699 4644 8.921205 TCTCCCTAAAAACGCTCTTATATTACT 58.079 33.333 0.00 0.00 0.00 2.24
700 4645 9.543783 CTCCCTAAAAACGCTCTTATATTACTT 57.456 33.333 0.00 0.00 0.00 2.24
701 4646 9.895138 TCCCTAAAAACGCTCTTATATTACTTT 57.105 29.630 0.00 0.00 0.00 2.66
708 4653 9.968870 AAACGCTCTTATATTACTTTAGAGAGG 57.031 33.333 0.00 0.00 37.17 3.69
710 4655 7.943447 ACGCTCTTATATTACTTTAGAGAGGGA 59.057 37.037 17.60 0.00 42.07 4.20
711 4656 8.455682 CGCTCTTATATTACTTTAGAGAGGGAG 58.544 40.741 8.32 0.00 42.07 4.30
848 5060 1.338674 TGCGTTTCCACTCCTACATGG 60.339 52.381 0.00 0.00 37.32 3.66
887 5102 3.954904 AGACGTGACTGTTGCTATCCTAT 59.045 43.478 0.00 0.00 0.00 2.57
929 5144 2.158842 ACAATGCTGAGATAGAGCCACC 60.159 50.000 0.00 0.00 35.43 4.61
961 5179 0.383949 TCCTCGGCAGCAACAAAAAC 59.616 50.000 0.00 0.00 0.00 2.43
1527 7463 2.218953 TCAAAGACGTCGAACAGCTT 57.781 45.000 10.46 0.00 0.00 3.74
1620 7556 4.089239 TTCATACGCAGCCCGGCA 62.089 61.111 13.15 0.00 42.52 5.69
1651 7587 3.117175 ATGCTGCATTTCGCGCTCC 62.117 57.895 9.81 0.00 46.97 4.70
1902 7865 0.943673 TCGTGTACGTCAACTTCGGA 59.056 50.000 4.20 0.00 40.80 4.55
2361 8374 1.613630 GGAGTGGAGGGAGAAGGCA 60.614 63.158 0.00 0.00 0.00 4.75
2362 8375 1.599576 GAGTGGAGGGAGAAGGCAC 59.400 63.158 0.00 0.00 0.00 5.01
2505 8543 7.174772 TCCATCCATGATGTATTTTATTCACCG 59.825 37.037 0.00 0.00 38.28 4.94
2627 8998 5.204833 CACAACCAAAATCGACTTACACAG 58.795 41.667 0.00 0.00 0.00 3.66
2631 9002 4.885325 ACCAAAATCGACTTACACAGGTTT 59.115 37.500 0.00 0.00 0.00 3.27
2648 9019 9.097257 ACACAGGTTTTGTTTTCAATAGATTTG 57.903 29.630 0.00 0.00 38.16 2.32
2649 9020 9.311916 CACAGGTTTTGTTTTCAATAGATTTGA 57.688 29.630 0.00 0.00 38.16 2.69
2681 9054 4.799564 TCAATCAAAACATAGTTGGGCC 57.200 40.909 0.00 0.00 0.00 5.80
2689 9062 0.811616 CATAGTTGGGCCGTGAGAGC 60.812 60.000 0.00 0.00 0.00 4.09
2817 12154 5.287170 TCTTCAAAATGAGCTTGATGTCG 57.713 39.130 0.00 0.00 32.98 4.35
2822 12159 0.251354 ATGAGCTTGATGTCGGTGCT 59.749 50.000 0.00 0.00 36.63 4.40
2825 12162 0.952497 AGCTTGATGTCGGTGCTGTG 60.952 55.000 0.00 0.00 32.32 3.66
2830 12167 3.474486 ATGTCGGTGCTGTGTGGCA 62.474 57.895 0.00 0.00 40.15 4.92
2832 12169 2.358615 TCGGTGCTGTGTGGCATC 60.359 61.111 0.00 0.00 44.34 3.91
2833 12170 3.434319 CGGTGCTGTGTGGCATCC 61.434 66.667 0.00 0.00 44.34 3.51
2834 12171 3.064324 GGTGCTGTGTGGCATCCC 61.064 66.667 0.00 0.00 44.34 3.85
2835 12172 2.034687 GTGCTGTGTGGCATCCCT 59.965 61.111 0.00 0.00 44.34 4.20
2836 12173 2.034532 TGCTGTGTGGCATCCCTG 59.965 61.111 0.00 0.00 37.29 4.45
2837 12174 2.352422 GCTGTGTGGCATCCCTGA 59.648 61.111 0.00 0.00 0.00 3.86
2838 12175 1.077212 GCTGTGTGGCATCCCTGAT 60.077 57.895 0.00 0.00 0.00 2.90
2839 12176 1.381928 GCTGTGTGGCATCCCTGATG 61.382 60.000 0.00 0.00 42.37 3.07
2846 12183 4.593033 CATCCCTGATGCCAAGGG 57.407 61.111 8.80 8.80 44.06 3.95
2857 12194 3.222855 CCAAGGGCACGCCAAACA 61.223 61.111 10.83 0.00 37.98 2.83
2858 12195 2.790791 CCAAGGGCACGCCAAACAA 61.791 57.895 10.83 0.00 37.98 2.83
2859 12196 1.591327 CAAGGGCACGCCAAACAAC 60.591 57.895 10.83 0.00 37.98 3.32
2860 12197 1.756561 AAGGGCACGCCAAACAACT 60.757 52.632 10.83 0.00 37.98 3.16
2861 12198 1.326951 AAGGGCACGCCAAACAACTT 61.327 50.000 10.83 0.00 37.98 2.66
2862 12199 1.299850 GGGCACGCCAAACAACTTC 60.300 57.895 10.83 0.00 37.98 3.01
2863 12200 1.657181 GGCACGCCAAACAACTTCG 60.657 57.895 2.36 0.00 35.81 3.79
2864 12201 1.657181 GCACGCCAAACAACTTCGG 60.657 57.895 0.00 0.00 0.00 4.30
2865 12202 1.657181 CACGCCAAACAACTTCGGC 60.657 57.895 0.00 0.00 41.30 5.54
2866 12203 1.822186 ACGCCAAACAACTTCGGCT 60.822 52.632 0.00 0.00 42.59 5.52
2867 12204 1.358759 CGCCAAACAACTTCGGCTT 59.641 52.632 0.00 0.00 42.59 4.35
2868 12205 0.248866 CGCCAAACAACTTCGGCTTT 60.249 50.000 0.00 0.00 42.59 3.51
2869 12206 1.208259 GCCAAACAACTTCGGCTTTG 58.792 50.000 0.00 0.00 41.50 2.77
2870 12207 1.851658 CCAAACAACTTCGGCTTTGG 58.148 50.000 0.00 0.00 37.41 3.28
2871 12208 1.537990 CCAAACAACTTCGGCTTTGGG 60.538 52.381 4.68 0.00 39.26 4.12
2872 12209 0.750249 AAACAACTTCGGCTTTGGGG 59.250 50.000 0.00 0.00 0.00 4.96
2873 12210 1.744320 AACAACTTCGGCTTTGGGGC 61.744 55.000 0.00 0.00 37.12 5.80
2874 12211 2.197324 AACTTCGGCTTTGGGGCA 59.803 55.556 0.00 0.00 40.90 5.36
2875 12212 1.903404 AACTTCGGCTTTGGGGCAG 60.903 57.895 0.00 0.00 40.90 4.85
2876 12213 2.034066 CTTCGGCTTTGGGGCAGA 59.966 61.111 0.00 0.00 40.90 4.26
2890 12227 0.463474 GGCAGAGGAGGAACAGATGC 60.463 60.000 0.00 0.00 0.00 3.91
2891 12228 0.251354 GCAGAGGAGGAACAGATGCA 59.749 55.000 0.00 0.00 32.58 3.96
2892 12229 1.339438 GCAGAGGAGGAACAGATGCAA 60.339 52.381 0.00 0.00 32.58 4.08
2893 12230 2.354259 CAGAGGAGGAACAGATGCAAC 58.646 52.381 0.00 0.00 0.00 4.17
2894 12231 1.980765 AGAGGAGGAACAGATGCAACA 59.019 47.619 0.00 0.00 0.00 3.33
2895 12232 2.027377 AGAGGAGGAACAGATGCAACAG 60.027 50.000 0.00 0.00 0.00 3.16
2896 12233 0.807496 GGAGGAACAGATGCAACAGC 59.193 55.000 0.00 0.00 0.00 4.40
2897 12234 0.807496 GAGGAACAGATGCAACAGCC 59.193 55.000 0.00 0.00 0.00 4.85
2898 12235 0.111061 AGGAACAGATGCAACAGCCA 59.889 50.000 0.00 0.00 0.00 4.75
2899 12236 0.242017 GGAACAGATGCAACAGCCAC 59.758 55.000 0.00 0.00 0.00 5.01
2901 12238 1.181098 AACAGATGCAACAGCCACCC 61.181 55.000 0.00 0.00 0.00 4.61
2902 12239 1.604308 CAGATGCAACAGCCACCCA 60.604 57.895 0.00 0.00 0.00 4.51
2903 12240 1.153524 AGATGCAACAGCCACCCAA 59.846 52.632 0.00 0.00 0.00 4.12
2904 12241 0.469705 AGATGCAACAGCCACCCAAA 60.470 50.000 0.00 0.00 0.00 3.28
2905 12242 0.392336 GATGCAACAGCCACCCAAAA 59.608 50.000 0.00 0.00 0.00 2.44
2907 12244 0.107945 TGCAACAGCCACCCAAAAAC 60.108 50.000 0.00 0.00 0.00 2.43
2910 12247 1.756538 CAACAGCCACCCAAAAACTCT 59.243 47.619 0.00 0.00 0.00 3.24
2911 12248 1.402787 ACAGCCACCCAAAAACTCTG 58.597 50.000 0.00 0.00 0.00 3.35
2912 12249 1.064017 ACAGCCACCCAAAAACTCTGA 60.064 47.619 0.00 0.00 0.00 3.27
2913 12250 2.242043 CAGCCACCCAAAAACTCTGAT 58.758 47.619 0.00 0.00 0.00 2.90
2914 12251 2.629617 CAGCCACCCAAAAACTCTGATT 59.370 45.455 0.00 0.00 0.00 2.57
2915 12252 3.070015 CAGCCACCCAAAAACTCTGATTT 59.930 43.478 0.00 0.00 0.00 2.17
2916 12253 3.711190 AGCCACCCAAAAACTCTGATTTT 59.289 39.130 0.00 0.00 33.13 1.82
2917 12254 3.809279 GCCACCCAAAAACTCTGATTTTG 59.191 43.478 8.73 8.73 43.85 2.44
2919 12256 5.427378 CCACCCAAAAACTCTGATTTTGTT 58.573 37.500 12.80 0.00 43.11 2.83
2920 12257 5.879777 CCACCCAAAAACTCTGATTTTGTTT 59.120 36.000 12.80 2.45 43.11 2.83
2922 12259 5.879777 ACCCAAAAACTCTGATTTTGTTTGG 59.120 36.000 13.11 13.11 43.11 3.28
2923 12260 6.112058 CCCAAAAACTCTGATTTTGTTTGGA 58.888 36.000 18.24 0.00 43.11 3.53
2926 12263 7.413988 CCAAAAACTCTGATTTTGTTTGGAACC 60.414 37.037 14.18 0.00 43.11 3.62
2927 12264 4.937201 ACTCTGATTTTGTTTGGAACCC 57.063 40.909 0.00 0.00 0.00 4.11
2929 12266 2.969262 TCTGATTTTGTTTGGAACCCCC 59.031 45.455 0.00 0.00 0.00 5.40
2930 12267 1.689273 TGATTTTGTTTGGAACCCCCG 59.311 47.619 0.00 0.00 37.93 5.73
2931 12268 1.964933 GATTTTGTTTGGAACCCCCGA 59.035 47.619 0.00 0.00 37.93 5.14
2932 12269 2.089600 TTTTGTTTGGAACCCCCGAT 57.910 45.000 0.00 0.00 37.93 4.18
2933 12270 1.333177 TTTGTTTGGAACCCCCGATG 58.667 50.000 0.00 0.00 37.93 3.84
2935 12272 0.250989 TGTTTGGAACCCCCGATGAC 60.251 55.000 0.00 0.00 37.93 3.06
2937 12274 1.427895 TTTGGAACCCCCGATGACCA 61.428 55.000 0.00 0.00 37.93 4.02
2940 12277 1.749258 GAACCCCCGATGACCAAGC 60.749 63.158 0.00 0.00 0.00 4.01
2941 12278 3.282374 AACCCCCGATGACCAAGCC 62.282 63.158 0.00 0.00 0.00 4.35
2942 12279 3.727258 CCCCCGATGACCAAGCCA 61.727 66.667 0.00 0.00 0.00 4.75
2943 12280 2.597340 CCCCGATGACCAAGCCAT 59.403 61.111 0.00 0.00 0.00 4.40
2953 12290 3.494378 CAAGCCATGGAGAGTGCG 58.506 61.111 18.40 0.00 0.00 5.34
2955 12292 1.088340 CAAGCCATGGAGAGTGCGAG 61.088 60.000 18.40 0.00 0.00 5.03
2956 12293 2.202987 GCCATGGAGAGTGCGAGG 60.203 66.667 18.40 0.00 0.00 4.63
2957 12294 2.725312 GCCATGGAGAGTGCGAGGA 61.725 63.158 18.40 0.00 0.00 3.71
2958 12295 1.142748 CCATGGAGAGTGCGAGGAC 59.857 63.158 5.56 0.00 0.00 3.85
2959 12296 1.607801 CCATGGAGAGTGCGAGGACA 61.608 60.000 5.56 0.00 0.00 4.02
2960 12297 0.179116 CATGGAGAGTGCGAGGACAG 60.179 60.000 0.00 0.00 0.00 3.51
2961 12298 0.613292 ATGGAGAGTGCGAGGACAGT 60.613 55.000 0.00 0.00 0.00 3.55
2962 12299 0.037734 TGGAGAGTGCGAGGACAGTA 59.962 55.000 0.00 0.00 0.00 2.74
2963 12300 0.736053 GGAGAGTGCGAGGACAGTAG 59.264 60.000 0.00 0.00 0.00 2.57
2964 12301 1.455248 GAGAGTGCGAGGACAGTAGT 58.545 55.000 0.00 0.00 0.00 2.73
2965 12302 2.630158 GAGAGTGCGAGGACAGTAGTA 58.370 52.381 0.00 0.00 0.00 1.82
2966 12303 3.207778 GAGAGTGCGAGGACAGTAGTAT 58.792 50.000 0.00 0.00 0.00 2.12
2978 12315 4.695455 GGACAGTAGTATTTTCTTGCAGCA 59.305 41.667 0.00 0.00 0.00 4.41
2979 12316 5.181245 GGACAGTAGTATTTTCTTGCAGCAA 59.819 40.000 7.81 7.81 0.00 3.91
2981 12318 6.846350 ACAGTAGTATTTTCTTGCAGCAATC 58.154 36.000 8.67 0.00 0.00 2.67
2982 12319 6.127897 ACAGTAGTATTTTCTTGCAGCAATCC 60.128 38.462 8.67 0.00 0.00 3.01
2983 12320 4.361451 AGTATTTTCTTGCAGCAATCCG 57.639 40.909 8.67 0.00 0.00 4.18
2984 12321 2.000429 ATTTTCTTGCAGCAATCCGC 58.000 45.000 8.67 0.00 42.91 5.54
2993 12330 3.794270 GCAATCCGCGCAACTAGA 58.206 55.556 8.75 0.00 0.00 2.43
2994 12331 2.311294 GCAATCCGCGCAACTAGAT 58.689 52.632 8.75 0.00 0.00 1.98
2996 12333 1.333258 GCAATCCGCGCAACTAGATTC 60.333 52.381 8.75 0.00 0.00 2.52
3009 12441 6.175712 CAACTAGATTCAGAGTTGGCTTTC 57.824 41.667 17.47 0.00 45.76 2.62
3013 12445 3.999663 AGATTCAGAGTTGGCTTTCGAAG 59.000 43.478 0.00 0.00 0.00 3.79
3024 12456 1.788344 GCTTTCGAAGCGAACATCAGC 60.788 52.381 1.30 5.16 45.64 4.26
3026 12458 1.350193 TTCGAAGCGAACATCAGCTC 58.650 50.000 0.00 0.00 43.78 4.09
3027 12459 0.243636 TCGAAGCGAACATCAGCTCA 59.756 50.000 0.00 0.00 43.78 4.26
3028 12460 1.134995 TCGAAGCGAACATCAGCTCAT 60.135 47.619 0.00 0.00 43.78 2.90
3029 12461 1.662629 CGAAGCGAACATCAGCTCATT 59.337 47.619 0.00 0.00 43.78 2.57
3055 12487 5.380043 TCTGAAGAAGGCAAGAGAAACAAT 58.620 37.500 0.00 0.00 0.00 2.71
3085 12519 3.987954 ATTTGGTAGGGGTGCGCCG 62.988 63.158 10.86 0.00 34.97 6.46
3110 12544 1.305219 GGCAGTAATGCAACGCCTGA 61.305 55.000 17.97 0.00 36.65 3.86
3273 12707 2.116238 AGGCCGAGAAAGGTATGCTTA 58.884 47.619 0.00 0.00 0.00 3.09
3275 12709 3.901844 AGGCCGAGAAAGGTATGCTTATA 59.098 43.478 0.00 0.00 0.00 0.98
3286 12720 3.346606 GCTTATACCGGCTGCCGC 61.347 66.667 34.33 15.84 46.86 6.53
3324 12758 2.283676 TCTTCGCCTCCCTTCCGT 60.284 61.111 0.00 0.00 0.00 4.69
3325 12759 2.184579 CTTCGCCTCCCTTCCGTC 59.815 66.667 0.00 0.00 0.00 4.79
3333 12767 4.760047 CCCTTCCGTCGTGGCTGG 62.760 72.222 0.00 0.00 37.80 4.85
3365 12799 4.499758 GGACTAAACGAAACGATAGCTCTG 59.500 45.833 0.00 0.00 42.67 3.35
3366 12800 3.858238 ACTAAACGAAACGATAGCTCTGC 59.142 43.478 0.00 0.00 42.67 4.26
3367 12801 2.656560 AACGAAACGATAGCTCTGCT 57.343 45.000 0.00 0.00 43.41 4.24
3368 12802 1.914634 ACGAAACGATAGCTCTGCTG 58.085 50.000 1.96 0.00 40.10 4.41
3414 12850 1.471829 TTCGTTGCTCTGAGAGGCCA 61.472 55.000 12.01 0.00 0.00 5.36
3430 12866 1.219646 GCCACGTTTCGGTCTGTTTA 58.780 50.000 0.00 0.00 0.00 2.01
3440 12876 0.672711 GGTCTGTTTAGGCCGTGGTC 60.673 60.000 0.00 0.00 39.27 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 1.065926 CAGAGGTGCTCATAGTGGCAA 60.066 52.381 0.00 0.00 40.26 4.52
41 42 4.148838 GGTATCTCAGAGGTGCTCATAGT 58.851 47.826 0.00 0.00 32.06 2.12
46 47 1.606668 CTCGGTATCTCAGAGGTGCTC 59.393 57.143 0.00 0.00 35.32 4.26
55 56 5.598416 AATGATGTCAACTCGGTATCTCA 57.402 39.130 0.00 0.00 0.00 3.27
62 63 6.668323 ACAAGTTAAAATGATGTCAACTCGG 58.332 36.000 0.00 0.00 0.00 4.63
101 102 2.584492 AGTTTGTCAGCCTTGCAAAC 57.416 45.000 0.00 11.00 43.59 2.93
185 3812 8.837788 AAATCTGTTTGAAGGAAATGAAATCC 57.162 30.769 0.00 0.00 37.22 3.01
193 3820 8.143835 GGATTCTCAAAATCTGTTTGAAGGAAA 58.856 33.333 3.37 0.00 37.89 3.13
266 3893 3.510531 AGGTCCTTTTTGAGGGAGAAC 57.489 47.619 0.00 0.00 46.31 3.01
298 3925 5.419471 TGGGTCCCTTGAAAAATATAAACGG 59.581 40.000 10.00 0.00 0.00 4.44
312 3939 4.379652 CTCAAACAAATTTGGGTCCCTTG 58.620 43.478 21.74 7.76 44.61 3.61
320 3947 7.377398 TGTATGGATGACTCAAACAAATTTGG 58.623 34.615 21.74 6.49 44.61 3.28
447 4080 6.272318 TGAAATCAAATGGGTCGCATTAATC 58.728 36.000 14.85 9.66 0.00 1.75
542 4484 5.223655 TGGGATCCTCCAATTAGTGTATCA 58.776 41.667 12.58 0.00 38.64 2.15
589 4531 9.740239 TTTGATTGCTGATGCTTTCTATAATTC 57.260 29.630 0.00 0.00 40.48 2.17
591 4533 8.358148 CCTTTGATTGCTGATGCTTTCTATAAT 58.642 33.333 0.00 0.00 40.48 1.28
592 4534 7.682741 GCCTTTGATTGCTGATGCTTTCTATAA 60.683 37.037 0.00 0.00 40.48 0.98
593 4535 6.238842 GCCTTTGATTGCTGATGCTTTCTATA 60.239 38.462 0.00 0.00 40.48 1.31
594 4536 5.451520 GCCTTTGATTGCTGATGCTTTCTAT 60.452 40.000 0.00 0.00 40.48 1.98
595 4537 4.142315 GCCTTTGATTGCTGATGCTTTCTA 60.142 41.667 0.00 0.00 40.48 2.10
596 4538 3.368116 GCCTTTGATTGCTGATGCTTTCT 60.368 43.478 0.00 0.00 40.48 2.52
597 4539 2.928116 GCCTTTGATTGCTGATGCTTTC 59.072 45.455 0.00 0.00 40.48 2.62
598 4540 2.354403 GGCCTTTGATTGCTGATGCTTT 60.354 45.455 0.00 0.00 40.48 3.51
660 4605 9.433153 CGTTTTTAGGGAGAGAGTAGTAAATTT 57.567 33.333 0.00 0.00 0.00 1.82
670 4615 3.878160 AGAGCGTTTTTAGGGAGAGAG 57.122 47.619 0.00 0.00 0.00 3.20
671 4616 5.934402 ATAAGAGCGTTTTTAGGGAGAGA 57.066 39.130 0.00 0.00 0.00 3.10
672 4617 9.194271 GTAATATAAGAGCGTTTTTAGGGAGAG 57.806 37.037 0.00 0.00 0.00 3.20
684 4629 7.943447 TCCCTCTCTAAAGTAATATAAGAGCGT 59.057 37.037 0.00 0.00 34.89 5.07
685 4630 8.338072 TCCCTCTCTAAAGTAATATAAGAGCG 57.662 38.462 0.00 0.00 34.89 5.03
686 4631 9.304335 ACTCCCTCTCTAAAGTAATATAAGAGC 57.696 37.037 0.00 0.00 34.89 4.09
693 4638 6.776603 GCAGGTACTCCCTCTCTAAAGTAATA 59.223 42.308 0.00 0.00 43.86 0.98
694 4639 5.599242 GCAGGTACTCCCTCTCTAAAGTAAT 59.401 44.000 0.00 0.00 43.86 1.89
695 4640 4.954826 GCAGGTACTCCCTCTCTAAAGTAA 59.045 45.833 0.00 0.00 43.86 2.24
697 4642 3.367321 GCAGGTACTCCCTCTCTAAAGT 58.633 50.000 0.00 0.00 43.86 2.66
699 4644 2.043939 TGGCAGGTACTCCCTCTCTAAA 59.956 50.000 0.00 0.00 43.86 1.85
700 4645 1.644337 TGGCAGGTACTCCCTCTCTAA 59.356 52.381 0.00 0.00 43.86 2.10
701 4646 1.305886 TGGCAGGTACTCCCTCTCTA 58.694 55.000 0.00 0.00 43.86 2.43
702 4647 0.639392 ATGGCAGGTACTCCCTCTCT 59.361 55.000 0.00 0.00 43.86 3.10
704 4649 1.972588 AAATGGCAGGTACTCCCTCT 58.027 50.000 0.00 0.00 43.86 3.69
705 4650 2.808906 AAAATGGCAGGTACTCCCTC 57.191 50.000 0.00 0.00 43.86 4.30
707 4652 3.200165 AGTCTAAAATGGCAGGTACTCCC 59.800 47.826 0.00 0.00 34.60 4.30
708 4653 4.489306 AGTCTAAAATGGCAGGTACTCC 57.511 45.455 0.00 0.00 34.60 3.85
710 4655 5.476945 CCAAAAGTCTAAAATGGCAGGTACT 59.523 40.000 0.00 0.00 43.88 2.73
711 4656 5.709966 CCAAAAGTCTAAAATGGCAGGTAC 58.290 41.667 0.00 0.00 0.00 3.34
773 4946 9.636879 CTCCATATATTGCTTATCATATCTCCG 57.363 37.037 0.00 0.00 0.00 4.63
848 5060 3.689649 ACGTCTTTGAATTGGTATCCTGC 59.310 43.478 0.00 0.00 0.00 4.85
887 5102 9.729023 CATTGTGTTCGATTTATTTATAGGCAA 57.271 29.630 0.00 0.00 0.00 4.52
961 5179 1.338200 CCGAGACCAAGACAGAAAGGG 60.338 57.143 0.00 0.00 0.00 3.95
1527 7463 1.806542 GTGTCAAGGTACTCGTCCGTA 59.193 52.381 0.00 0.00 38.49 4.02
1620 7556 1.511305 CAGCATGTAGTCGTCCGGT 59.489 57.895 0.00 0.00 0.00 5.28
1651 7587 3.739056 CGCGCGCTCCGTTATACG 61.739 66.667 30.48 5.07 42.11 3.06
1803 7754 2.719739 CTCATGCTGATGGTGGAACTT 58.280 47.619 0.00 0.00 36.74 2.66
1902 7865 0.324614 TGGTCATGACGGTGATGCTT 59.675 50.000 19.33 0.00 0.00 3.91
2361 8374 4.070552 GGCTCGGTCGCCTTGAGT 62.071 66.667 4.39 0.00 46.63 3.41
2505 8543 4.024048 TGGTTTTCGAATTTCTCAGCTGAC 60.024 41.667 13.74 0.39 0.00 3.51
2542 8580 2.138596 ACAAAAATCGGCTTGCACAG 57.861 45.000 0.00 0.00 0.00 3.66
2654 9025 7.116805 GCCCAACTATGTTTTGATTGAAAGAAG 59.883 37.037 0.00 0.00 0.00 2.85
2689 9062 0.955428 TTAGCAGGAACAAGCGCCAG 60.955 55.000 2.29 0.00 36.75 4.85
2693 9066 0.166814 GCAGTTAGCAGGAACAAGCG 59.833 55.000 0.00 0.00 44.79 4.68
2840 12177 2.790791 TTGTTTGGCGTGCCCTTGG 61.791 57.895 8.69 0.00 34.56 3.61
2841 12178 1.591327 GTTGTTTGGCGTGCCCTTG 60.591 57.895 8.69 0.00 34.56 3.61
2843 12180 1.734388 GAAGTTGTTTGGCGTGCCCT 61.734 55.000 8.69 0.00 34.56 5.19
2844 12181 1.299850 GAAGTTGTTTGGCGTGCCC 60.300 57.895 8.69 0.00 34.56 5.36
2845 12182 1.657181 CGAAGTTGTTTGGCGTGCC 60.657 57.895 3.30 3.30 0.00 5.01
2846 12183 1.657181 CCGAAGTTGTTTGGCGTGC 60.657 57.895 0.00 0.00 29.89 5.34
2847 12184 4.607024 CCGAAGTTGTTTGGCGTG 57.393 55.556 0.00 0.00 29.89 5.34
2851 12188 1.537990 CCCAAAGCCGAAGTTGTTTGG 60.538 52.381 5.83 5.83 45.76 3.28
2852 12189 1.537990 CCCCAAAGCCGAAGTTGTTTG 60.538 52.381 0.00 0.00 0.00 2.93
2853 12190 0.750249 CCCCAAAGCCGAAGTTGTTT 59.250 50.000 0.00 0.00 0.00 2.83
2854 12191 1.744320 GCCCCAAAGCCGAAGTTGTT 61.744 55.000 0.00 0.00 0.00 2.83
2855 12192 2.200337 GCCCCAAAGCCGAAGTTGT 61.200 57.895 0.00 0.00 0.00 3.32
2856 12193 2.146073 CTGCCCCAAAGCCGAAGTTG 62.146 60.000 0.00 0.00 0.00 3.16
2857 12194 1.903404 CTGCCCCAAAGCCGAAGTT 60.903 57.895 0.00 0.00 0.00 2.66
2858 12195 2.282462 CTGCCCCAAAGCCGAAGT 60.282 61.111 0.00 0.00 0.00 3.01
2859 12196 2.034066 TCTGCCCCAAAGCCGAAG 59.966 61.111 0.00 0.00 0.00 3.79
2860 12197 2.034066 CTCTGCCCCAAAGCCGAA 59.966 61.111 0.00 0.00 0.00 4.30
2861 12198 4.033776 CCTCTGCCCCAAAGCCGA 62.034 66.667 0.00 0.00 0.00 5.54
2862 12199 3.984193 CTCCTCTGCCCCAAAGCCG 62.984 68.421 0.00 0.00 0.00 5.52
2863 12200 2.044551 CTCCTCTGCCCCAAAGCC 60.045 66.667 0.00 0.00 0.00 4.35
2864 12201 2.044551 CCTCCTCTGCCCCAAAGC 60.045 66.667 0.00 0.00 0.00 3.51
2865 12202 0.322906 GTTCCTCCTCTGCCCCAAAG 60.323 60.000 0.00 0.00 0.00 2.77
2866 12203 1.065410 TGTTCCTCCTCTGCCCCAAA 61.065 55.000 0.00 0.00 0.00 3.28
2867 12204 1.463214 TGTTCCTCCTCTGCCCCAA 60.463 57.895 0.00 0.00 0.00 4.12
2868 12205 1.920325 CTGTTCCTCCTCTGCCCCA 60.920 63.158 0.00 0.00 0.00 4.96
2869 12206 0.985490 ATCTGTTCCTCCTCTGCCCC 60.985 60.000 0.00 0.00 0.00 5.80
2870 12207 0.179936 CATCTGTTCCTCCTCTGCCC 59.820 60.000 0.00 0.00 0.00 5.36
2871 12208 0.463474 GCATCTGTTCCTCCTCTGCC 60.463 60.000 0.00 0.00 0.00 4.85
2872 12209 0.251354 TGCATCTGTTCCTCCTCTGC 59.749 55.000 0.00 0.00 0.00 4.26
2873 12210 2.289882 TGTTGCATCTGTTCCTCCTCTG 60.290 50.000 0.00 0.00 0.00 3.35
2874 12211 1.980765 TGTTGCATCTGTTCCTCCTCT 59.019 47.619 0.00 0.00 0.00 3.69
2875 12212 2.354259 CTGTTGCATCTGTTCCTCCTC 58.646 52.381 0.00 0.00 0.00 3.71
2876 12213 1.612726 GCTGTTGCATCTGTTCCTCCT 60.613 52.381 0.00 0.00 39.41 3.69
2890 12227 1.756538 AGAGTTTTTGGGTGGCTGTTG 59.243 47.619 0.00 0.00 0.00 3.33
2891 12228 1.756538 CAGAGTTTTTGGGTGGCTGTT 59.243 47.619 0.00 0.00 0.00 3.16
2892 12229 1.064017 TCAGAGTTTTTGGGTGGCTGT 60.064 47.619 0.00 0.00 0.00 4.40
2893 12230 1.691196 TCAGAGTTTTTGGGTGGCTG 58.309 50.000 0.00 0.00 0.00 4.85
2894 12231 2.683211 ATCAGAGTTTTTGGGTGGCT 57.317 45.000 0.00 0.00 0.00 4.75
2895 12232 3.751479 AAATCAGAGTTTTTGGGTGGC 57.249 42.857 0.00 0.00 0.00 5.01
2896 12233 5.022282 ACAAAATCAGAGTTTTTGGGTGG 57.978 39.130 12.03 0.00 44.51 4.61
2897 12234 6.183360 CCAAACAAAATCAGAGTTTTTGGGTG 60.183 38.462 14.97 10.75 44.51 4.61
2898 12235 5.879777 CCAAACAAAATCAGAGTTTTTGGGT 59.120 36.000 14.97 0.13 44.51 4.51
2899 12236 6.112058 TCCAAACAAAATCAGAGTTTTTGGG 58.888 36.000 19.63 12.70 44.51 4.12
2901 12238 7.413988 GGGTTCCAAACAAAATCAGAGTTTTTG 60.414 37.037 7.43 7.43 45.29 2.44
2902 12239 6.597672 GGGTTCCAAACAAAATCAGAGTTTTT 59.402 34.615 0.00 0.00 33.54 1.94
2903 12240 6.112734 GGGTTCCAAACAAAATCAGAGTTTT 58.887 36.000 0.00 0.00 33.54 2.43
2904 12241 5.396324 GGGGTTCCAAACAAAATCAGAGTTT 60.396 40.000 0.00 0.00 36.00 2.66
2905 12242 4.100963 GGGGTTCCAAACAAAATCAGAGTT 59.899 41.667 0.00 0.00 0.00 3.01
2907 12244 3.006859 GGGGGTTCCAAACAAAATCAGAG 59.993 47.826 0.00 0.00 35.00 3.35
2910 12247 1.689273 CGGGGGTTCCAAACAAAATCA 59.311 47.619 0.00 0.00 34.36 2.57
2911 12248 1.964933 TCGGGGGTTCCAAACAAAATC 59.035 47.619 0.00 0.00 34.36 2.17
2912 12249 2.089600 TCGGGGGTTCCAAACAAAAT 57.910 45.000 0.00 0.00 34.36 1.82
2913 12250 1.689273 CATCGGGGGTTCCAAACAAAA 59.311 47.619 0.00 0.00 34.36 2.44
2914 12251 1.133450 TCATCGGGGGTTCCAAACAAA 60.133 47.619 0.00 0.00 34.36 2.83
2915 12252 0.478942 TCATCGGGGGTTCCAAACAA 59.521 50.000 0.00 0.00 34.36 2.83
2916 12253 0.250989 GTCATCGGGGGTTCCAAACA 60.251 55.000 0.00 0.00 34.36 2.83
2917 12254 0.963856 GGTCATCGGGGGTTCCAAAC 60.964 60.000 0.00 0.00 34.36 2.93
2919 12256 1.427895 TTGGTCATCGGGGGTTCCAA 61.428 55.000 0.00 0.00 34.36 3.53
2920 12257 1.847798 CTTGGTCATCGGGGGTTCCA 61.848 60.000 0.00 0.00 34.36 3.53
2922 12259 1.749258 GCTTGGTCATCGGGGGTTC 60.749 63.158 0.00 0.00 0.00 3.62
2923 12260 2.355115 GCTTGGTCATCGGGGGTT 59.645 61.111 0.00 0.00 0.00 4.11
2926 12263 1.825191 CATGGCTTGGTCATCGGGG 60.825 63.158 0.00 0.00 0.00 5.73
2927 12264 1.825191 CCATGGCTTGGTCATCGGG 60.825 63.158 11.13 0.00 40.99 5.14
2929 12266 0.178767 TCTCCATGGCTTGGTCATCG 59.821 55.000 17.94 4.72 46.52 3.84
2930 12267 1.211457 ACTCTCCATGGCTTGGTCATC 59.789 52.381 17.94 0.00 46.52 2.92
2931 12268 1.064906 CACTCTCCATGGCTTGGTCAT 60.065 52.381 17.94 1.67 46.52 3.06
2932 12269 0.325933 CACTCTCCATGGCTTGGTCA 59.674 55.000 17.94 6.18 46.52 4.02
2933 12270 1.028868 GCACTCTCCATGGCTTGGTC 61.029 60.000 17.94 0.00 46.52 4.02
2937 12274 1.220206 CTCGCACTCTCCATGGCTT 59.780 57.895 6.96 0.00 0.00 4.35
2940 12277 1.142748 GTCCTCGCACTCTCCATGG 59.857 63.158 4.97 4.97 0.00 3.66
2941 12278 0.179116 CTGTCCTCGCACTCTCCATG 60.179 60.000 0.00 0.00 0.00 3.66
2942 12279 0.613292 ACTGTCCTCGCACTCTCCAT 60.613 55.000 0.00 0.00 0.00 3.41
2943 12280 0.037734 TACTGTCCTCGCACTCTCCA 59.962 55.000 0.00 0.00 0.00 3.86
2945 12282 1.455248 ACTACTGTCCTCGCACTCTC 58.545 55.000 0.00 0.00 0.00 3.20
2946 12283 2.783609 TACTACTGTCCTCGCACTCT 57.216 50.000 0.00 0.00 0.00 3.24
2947 12284 4.373348 AAATACTACTGTCCTCGCACTC 57.627 45.455 0.00 0.00 0.00 3.51
2948 12285 4.463186 AGAAAATACTACTGTCCTCGCACT 59.537 41.667 0.00 0.00 0.00 4.40
2949 12286 4.745649 AGAAAATACTACTGTCCTCGCAC 58.254 43.478 0.00 0.00 0.00 5.34
2950 12287 5.168569 CAAGAAAATACTACTGTCCTCGCA 58.831 41.667 0.00 0.00 0.00 5.10
2951 12288 4.033014 GCAAGAAAATACTACTGTCCTCGC 59.967 45.833 0.00 0.00 0.00 5.03
2952 12289 5.168569 TGCAAGAAAATACTACTGTCCTCG 58.831 41.667 0.00 0.00 0.00 4.63
2953 12290 5.064071 GCTGCAAGAAAATACTACTGTCCTC 59.936 44.000 0.00 0.00 34.07 3.71
2955 12292 4.695455 TGCTGCAAGAAAATACTACTGTCC 59.305 41.667 0.00 0.00 34.07 4.02
2956 12293 5.862924 TGCTGCAAGAAAATACTACTGTC 57.137 39.130 0.00 0.00 34.07 3.51
2957 12294 6.127897 GGATTGCTGCAAGAAAATACTACTGT 60.128 38.462 20.72 0.00 33.13 3.55
2958 12295 6.261118 GGATTGCTGCAAGAAAATACTACTG 58.739 40.000 20.72 0.00 33.13 2.74
2959 12296 5.065218 CGGATTGCTGCAAGAAAATACTACT 59.935 40.000 20.72 0.00 33.13 2.57
2960 12297 5.266242 CGGATTGCTGCAAGAAAATACTAC 58.734 41.667 20.72 0.92 33.13 2.73
2961 12298 4.201910 GCGGATTGCTGCAAGAAAATACTA 60.202 41.667 20.72 0.00 45.91 1.82
2962 12299 3.428045 GCGGATTGCTGCAAGAAAATACT 60.428 43.478 20.72 0.60 45.91 2.12
2963 12300 2.854185 GCGGATTGCTGCAAGAAAATAC 59.146 45.455 20.72 3.16 45.91 1.89
2964 12301 3.149436 GCGGATTGCTGCAAGAAAATA 57.851 42.857 20.72 0.00 45.91 1.40
2965 12302 2.000429 GCGGATTGCTGCAAGAAAAT 58.000 45.000 20.72 2.97 45.91 1.82
2966 12303 3.495124 GCGGATTGCTGCAAGAAAA 57.505 47.368 20.72 0.00 45.91 2.29
2978 12315 2.159099 TCTGAATCTAGTTGCGCGGATT 60.159 45.455 8.83 7.01 0.00 3.01
2979 12316 1.409064 TCTGAATCTAGTTGCGCGGAT 59.591 47.619 8.83 0.00 0.00 4.18
2981 12318 1.203928 CTCTGAATCTAGTTGCGCGG 58.796 55.000 8.83 0.00 0.00 6.46
2982 12319 1.914634 ACTCTGAATCTAGTTGCGCG 58.085 50.000 0.00 0.00 0.00 6.86
2983 12320 3.648179 CAACTCTGAATCTAGTTGCGC 57.352 47.619 0.00 0.00 44.23 6.09
2987 12324 4.932200 CGAAAGCCAACTCTGAATCTAGTT 59.068 41.667 0.00 0.00 36.38 2.24
2988 12325 4.220821 TCGAAAGCCAACTCTGAATCTAGT 59.779 41.667 0.00 0.00 0.00 2.57
2989 12326 4.748892 TCGAAAGCCAACTCTGAATCTAG 58.251 43.478 0.00 0.00 0.00 2.43
2990 12327 4.801330 TCGAAAGCCAACTCTGAATCTA 57.199 40.909 0.00 0.00 0.00 1.98
2991 12328 3.685139 TCGAAAGCCAACTCTGAATCT 57.315 42.857 0.00 0.00 0.00 2.40
2992 12329 4.333633 CTTCGAAAGCCAACTCTGAATC 57.666 45.455 0.00 0.00 0.00 2.52
3008 12440 0.243636 TGAGCTGATGTTCGCTTCGA 59.756 50.000 0.00 0.00 36.45 3.71
3009 12441 1.284657 ATGAGCTGATGTTCGCTTCG 58.715 50.000 0.00 0.00 36.45 3.79
3013 12445 2.778659 GAACAATGAGCTGATGTTCGC 58.221 47.619 15.86 1.41 42.24 4.70
3024 12456 4.758674 TCTTGCCTTCTTCAGAACAATGAG 59.241 41.667 0.00 0.00 0.00 2.90
3026 12458 4.758674 TCTCTTGCCTTCTTCAGAACAATG 59.241 41.667 0.00 0.00 0.00 2.82
3027 12459 4.978099 TCTCTTGCCTTCTTCAGAACAAT 58.022 39.130 0.00 0.00 0.00 2.71
3028 12460 4.422073 TCTCTTGCCTTCTTCAGAACAA 57.578 40.909 0.00 0.00 0.00 2.83
3029 12461 4.422073 TTCTCTTGCCTTCTTCAGAACA 57.578 40.909 0.00 0.00 0.00 3.18
3060 12492 3.697045 CGCACCCCTACCAAATCAAATTA 59.303 43.478 0.00 0.00 0.00 1.40
3064 12496 0.963355 GCGCACCCCTACCAAATCAA 60.963 55.000 0.30 0.00 0.00 2.57
3181 12615 1.464273 TGGGCCATGTGTCCACAAT 59.536 52.632 0.00 0.00 45.41 2.71
3188 12622 1.845791 TCTGATATGTGGGCCATGTGT 59.154 47.619 10.70 0.00 34.86 3.72
3280 12714 1.461091 TATAAGGAGACCCGCGGCAG 61.461 60.000 22.85 10.24 37.58 4.85
3285 12719 1.817447 ACGCTATATAAGGAGACCCGC 59.183 52.381 0.00 0.00 37.58 6.13
3286 12720 2.818432 ACACGCTATATAAGGAGACCCG 59.182 50.000 0.00 0.00 37.58 5.28
3333 12767 1.447314 CGTTTAGTCCCACCTCGCC 60.447 63.158 0.00 0.00 0.00 5.54
3414 12850 1.505425 GCCTAAACAGACCGAAACGT 58.495 50.000 0.00 0.00 0.00 3.99
3430 12866 1.734163 CTTTTATTCGACCACGGCCT 58.266 50.000 0.00 0.00 40.21 5.19
3437 12873 4.879545 TCTATGTTGGGCTTTTATTCGACC 59.120 41.667 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.