Multiple sequence alignment - TraesCS6B01G078700

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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 TraesCS6B01G078700 chr6B 100.000 3354 0 0 1 3354 55204244 55207597 0.000000e+00 6194.0
1 TraesCS6B01G078700 chr6B 85.855 304 32 7 2772 3065 472715273 472714971 2.510000e-81 313.0
2 TraesCS6B01G078700 chr6B 95.337 193 7 2 3162 3354 187012998 187013188 4.200000e-79 305.0
3 TraesCS6B01G078700 chr6B 84.586 266 32 5 2509 2770 472715789 472715529 4.290000e-64 255.0
4 TraesCS6B01G078700 chr6B 85.833 120 14 1 3056 3172 472714587 472714468 1.260000e-24 124.0
5 TraesCS6B01G078700 chr6B 89.655 87 8 1 3089 3175 131607517 131607432 3.540000e-20 110.0
6 TraesCS6B01G078700 chr6B 86.813 91 10 2 3089 3178 79428761 79428672 2.130000e-17 100.0
7 TraesCS6B01G078700 chr6B 83.562 73 10 2 1071 1143 44499208 44499138 2.160000e-07 67.6
8 TraesCS6B01G078700 chr6B 93.023 43 2 1 1169 1210 101217364 101217406 1.000000e-05 62.1
9 TraesCS6B01G078700 chr6D 93.569 3172 158 16 1 3151 436493908 436497054 0.000000e+00 4686.0
10 TraesCS6B01G078700 chr6D 80.472 466 71 13 2724 3172 454824944 454825406 4.150000e-89 339.0
11 TraesCS6B01G078700 chr2D 93.346 3171 171 14 1 3151 616929802 616926652 0.000000e+00 4650.0
12 TraesCS6B01G078700 chr2D 92.588 3211 152 22 1 3178 316146217 316143060 0.000000e+00 4532.0
13 TraesCS6B01G078700 chr2D 89.986 1388 111 16 1707 3082 59648730 59650101 0.000000e+00 1768.0
14 TraesCS6B01G078700 chr2D 90.293 886 71 6 698 1571 59647848 59648730 0.000000e+00 1146.0
15 TraesCS6B01G078700 chr2D 91.643 347 28 1 309 654 59647503 59647849 2.340000e-131 479.0
16 TraesCS6B01G078700 chr3B 93.642 2485 132 15 1 2471 674481668 674479196 0.000000e+00 3690.0
17 TraesCS6B01G078700 chr3B 92.676 710 41 7 2469 3172 674478216 674477512 0.000000e+00 1013.0
18 TraesCS6B01G078700 chr3B 85.000 420 39 13 2768 3172 534251102 534251512 4.030000e-109 405.0
19 TraesCS6B01G078700 chr3B 94.819 193 8 2 3162 3354 227562425 227562615 1.960000e-77 300.0
20 TraesCS6B01G078700 chr3B 86.873 259 26 3 2509 2764 534250686 534250939 1.970000e-72 283.0
21 TraesCS6B01G078700 chr5D 89.057 1389 123 17 1707 3082 376572735 376574107 0.000000e+00 1696.0
22 TraesCS6B01G078700 chr5D 89.955 886 74 6 698 1571 376571853 376572735 0.000000e+00 1129.0
23 TraesCS6B01G078700 chr5D 92.507 347 25 1 309 654 376571508 376571854 2.320000e-136 496.0
24 TraesCS6B01G078700 chr5D 95.337 193 7 2 3162 3354 390860372 390860562 4.200000e-79 305.0
25 TraesCS6B01G078700 chr1D 84.961 1157 141 15 1366 2512 189816643 189815510 0.000000e+00 1142.0
26 TraesCS6B01G078700 chr1D 95.628 183 8 0 3172 3354 193308757 193308575 9.100000e-76 294.0
27 TraesCS6B01G078700 chr1D 95.628 183 8 0 3172 3354 357147394 357147212 9.100000e-76 294.0
28 TraesCS6B01G078700 chr1D 95.628 183 6 2 3172 3354 234854474 234854294 3.270000e-75 292.0
29 TraesCS6B01G078700 chr2B 87.061 456 53 4 1366 1816 727661442 727660988 8.300000e-141 510.0
30 TraesCS6B01G078700 chr3A 85.965 456 58 4 1366 1816 108901501 108901955 1.810000e-132 483.0
31 TraesCS6B01G078700 chr5A 85.746 456 59 4 1366 1816 412521403 412521857 8.420000e-131 477.0
32 TraesCS6B01G078700 chrUn 75.598 1045 202 40 1259 2283 259380225 259381236 5.070000e-128 468.0
33 TraesCS6B01G078700 chrUn 85.124 242 34 2 2044 2283 82939170 82938929 2.580000e-61 246.0
34 TraesCS6B01G078700 chr7D 83.709 399 53 9 849 1236 402554974 402554577 1.900000e-97 366.0
35 TraesCS6B01G078700 chr7D 96.175 183 6 1 3172 3354 315914070 315913889 7.040000e-77 298.0
36 TraesCS6B01G078700 chr4B 95.628 183 8 0 3172 3354 548181514 548181332 9.100000e-76 294.0
37 TraesCS6B01G078700 chr4B 74.074 216 52 4 926 1138 14908573 14908359 5.960000e-13 86.1
38 TraesCS6B01G078700 chr4B 84.524 84 12 1 1151 1234 497107023 497106941 7.710000e-12 82.4
39 TraesCS6B01G078700 chr7B 93.846 195 10 2 3160 3354 243643007 243643199 3.270000e-75 292.0
40 TraesCS6B01G078700 chr4D 89.286 84 7 2 3089 3172 364586070 364586151 1.650000e-18 104.0
41 TraesCS6B01G078700 chr6A 85.556 90 7 6 1144 1232 286424740 286424824 4.610000e-14 89.8


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 TraesCS6B01G078700 chr6B 55204244 55207597 3353 False 6194.000000 6194 100.000000 1 3354 1 chr6B.!!$F1 3353
1 TraesCS6B01G078700 chr6B 472714468 472715789 1321 True 230.666667 313 85.424667 2509 3172 3 chr6B.!!$R4 663
2 TraesCS6B01G078700 chr6D 436493908 436497054 3146 False 4686.000000 4686 93.569000 1 3151 1 chr6D.!!$F1 3150
3 TraesCS6B01G078700 chr2D 616926652 616929802 3150 True 4650.000000 4650 93.346000 1 3151 1 chr2D.!!$R2 3150
4 TraesCS6B01G078700 chr2D 316143060 316146217 3157 True 4532.000000 4532 92.588000 1 3178 1 chr2D.!!$R1 3177
5 TraesCS6B01G078700 chr2D 59647503 59650101 2598 False 1131.000000 1768 90.640667 309 3082 3 chr2D.!!$F1 2773
6 TraesCS6B01G078700 chr3B 674477512 674481668 4156 True 2351.500000 3690 93.159000 1 3172 2 chr3B.!!$R1 3171
7 TraesCS6B01G078700 chr3B 534250686 534251512 826 False 344.000000 405 85.936500 2509 3172 2 chr3B.!!$F2 663
8 TraesCS6B01G078700 chr5D 376571508 376574107 2599 False 1107.000000 1696 90.506333 309 3082 3 chr5D.!!$F2 2773
9 TraesCS6B01G078700 chr1D 189815510 189816643 1133 True 1142.000000 1142 84.961000 1366 2512 1 chr1D.!!$R1 1146
10 TraesCS6B01G078700 chrUn 259380225 259381236 1011 False 468.000000 468 75.598000 1259 2283 1 chrUn.!!$F1 1024

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
454 456 0.466555 TAACCACCCGCTTTTGTGCT 60.467 50.0 0.0 0.0 0.0 4.40 F
1491 1505 0.320374 GTGATCTCCGTTCCACACCA 59.680 55.0 0.0 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2178 2203 0.179084 GATAGCAGTAGCCGCCACAA 60.179 55.0 0.00 0.0 43.56 3.33 R
3261 4979 0.032403 GCAAGCAAGTTGGATGCACA 59.968 50.0 4.75 0.0 46.22 4.57 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
116 117 5.609423 TGCCTTTGTACTTCAAAATGCATT 58.391 33.333 5.99 5.99 42.93 3.56
224 225 5.772672 AGAATAACAAACACTATGCACCCAA 59.227 36.000 0.00 0.00 0.00 4.12
287 289 1.544724 ACAACCTGCATTGGCGTAAT 58.455 45.000 5.11 0.00 45.35 1.89
350 352 8.281893 CCACCACATGTTTGAATTATTTGTTTC 58.718 33.333 0.00 0.00 0.00 2.78
426 428 6.092092 GCATGTATCAACAATTGCAGTGTTA 58.908 36.000 15.19 7.06 40.05 2.41
454 456 0.466555 TAACCACCCGCTTTTGTGCT 60.467 50.000 0.00 0.00 0.00 4.40
520 522 6.132791 TGTGCTAAAAACAACGATTTGGTA 57.867 33.333 0.00 0.00 37.00 3.25
549 551 8.080083 ACTAAGTACAAAGTACCAAATTGACG 57.920 34.615 3.85 0.00 0.00 4.35
554 556 8.245491 AGTACAAAGTACCAAATTGACGTTTTT 58.755 29.630 3.85 0.00 0.00 1.94
618 621 2.442236 AGGTGAATTGTATGCTGGGG 57.558 50.000 0.00 0.00 0.00 4.96
660 663 5.877012 AGTAAGACCACATGAACTGCTAATG 59.123 40.000 0.00 0.00 0.00 1.90
669 672 7.660617 CCACATGAACTGCTAATGAGATTATCT 59.339 37.037 0.00 0.00 0.00 1.98
670 673 9.702494 CACATGAACTGCTAATGAGATTATCTA 57.298 33.333 0.00 0.00 0.00 1.98
755 758 5.883180 TGTTGGCTACACTAAAAATAGGGT 58.117 37.500 0.00 0.00 37.49 4.34
843 846 5.526115 CATGAATATTTGCCTTGCCAGTAG 58.474 41.667 0.00 0.00 0.00 2.57
849 852 2.603075 TGCCTTGCCAGTAGGATTTT 57.397 45.000 0.00 0.00 36.89 1.82
895 899 7.781056 TGTCTTTTATTCTGCTTGTTTTTCCT 58.219 30.769 0.00 0.00 0.00 3.36
1009 1013 0.540923 GGCTTCTGAGATGGCTGAGT 59.459 55.000 13.55 0.00 31.42 3.41
1011 1015 2.617532 GGCTTCTGAGATGGCTGAGTTT 60.618 50.000 13.55 0.00 31.42 2.66
1027 1031 4.051922 TGAGTTTGTTCTTCGCTTCTCTC 58.948 43.478 0.00 0.00 0.00 3.20
1039 1043 3.119316 TCGCTTCTCTCATTGTCTTCTCC 60.119 47.826 0.00 0.00 0.00 3.71
1078 1082 3.119352 GCTCATCCAGGGATTTGTTGTTC 60.119 47.826 0.00 0.00 31.62 3.18
1139 1150 2.121992 CTGGGGTCTGCTTGTGCTCT 62.122 60.000 0.00 0.00 40.48 4.09
1310 1321 2.751806 GGTGAGATCCTTGCTCCTTTTG 59.248 50.000 0.00 0.00 0.00 2.44
1350 1362 2.488153 AGCTTCCGCAAATTTAGTCCAC 59.512 45.455 0.00 0.00 39.10 4.02
1411 1425 1.413812 CAGGCACCCAAGCTTTTCTTT 59.586 47.619 0.00 0.00 31.27 2.52
1491 1505 0.320374 GTGATCTCCGTTCCACACCA 59.680 55.000 0.00 0.00 0.00 4.17
1573 1591 6.507958 TTGTTCGAGATTTATGCAATTGGA 57.492 33.333 7.72 4.46 0.00 3.53
1589 1607 3.868757 TTGGACCTGTCGTTGATCTAG 57.131 47.619 0.00 0.00 0.00 2.43
1646 1666 6.720288 TGTAGTAGAATGGTCCTATTAGCTCC 59.280 42.308 0.00 0.00 0.00 4.70
1647 1667 5.716979 AGTAGAATGGTCCTATTAGCTCCA 58.283 41.667 0.00 7.28 0.00 3.86
1670 1690 0.824595 ATGCTTGCTGTGCAGTCCAA 60.825 50.000 0.00 0.00 44.04 3.53
1737 1758 3.011818 TGTTCATGCTTGCTCTATGGTG 58.988 45.455 0.00 0.00 0.00 4.17
1739 1760 4.191544 GTTCATGCTTGCTCTATGGTGTA 58.808 43.478 0.00 0.00 0.00 2.90
1781 1805 4.065789 GCTTCTGTAGTTTACCTGCTTGT 58.934 43.478 0.00 0.00 0.00 3.16
2028 2052 1.404449 CCGCGTATTCCTGTTGTGGTA 60.404 52.381 4.92 0.00 0.00 3.25
2038 2062 5.018539 TCCTGTTGTGGTATGTACTATGC 57.981 43.478 0.00 0.00 0.00 3.14
2133 2158 3.059884 GTGTCGTTCTTGCTGAAGATGA 58.940 45.455 0.00 0.00 38.05 2.92
2158 2183 1.616865 CCCGAGGTGAAGTACAAGACA 59.383 52.381 0.00 0.00 0.00 3.41
2178 2203 2.186903 CGCATCTTACCGTGGCCT 59.813 61.111 3.32 0.00 0.00 5.19
2214 2239 3.683847 GCTATCTTCTGGCCATCACAGTT 60.684 47.826 5.51 0.00 37.25 3.16
2224 2249 0.163788 CATCACAGTTGCGTTCGTCC 59.836 55.000 0.00 0.00 0.00 4.79
2344 2385 5.739935 GCCACCATGGATATTGAATTTGACC 60.740 44.000 21.47 0.00 40.96 4.02
2351 2392 2.514458 ATTGAATTTGACCGCCCTCT 57.486 45.000 0.00 0.00 0.00 3.69
2364 2405 2.291741 CCGCCCTCTAATGCAGAAAATC 59.708 50.000 0.00 0.00 31.12 2.17
2471 3495 2.967946 GCGGGTCAAGGGGCTTACT 61.968 63.158 0.00 0.00 0.00 2.24
2532 3558 4.037684 GCATATGATCAAGCTTTGCTTCCT 59.962 41.667 6.97 0.00 46.77 3.36
2582 3614 5.092554 TCATTGCTGAAAATGCATTCCAT 57.907 34.783 13.38 2.01 40.34 3.41
2589 3621 5.734220 GCTGAAAATGCATTCCATCGTGTAT 60.734 40.000 13.38 0.00 31.43 2.29
2590 3622 5.580661 TGAAAATGCATTCCATCGTGTATG 58.419 37.500 13.38 0.00 31.43 2.39
2591 3623 3.631145 AATGCATTCCATCGTGTATGC 57.369 42.857 5.99 0.00 42.75 3.14
2592 3624 2.330440 TGCATTCCATCGTGTATGCT 57.670 45.000 0.00 0.00 42.85 3.79
2626 3658 5.053145 CCTATGATGCTTTCTACGCTCTTT 58.947 41.667 0.00 0.00 0.00 2.52
2826 4117 7.614124 TTCGTACTTTGTTTGGTTTAGAACT 57.386 32.000 0.00 0.00 0.00 3.01
2997 4319 5.519722 CATTTTGTCGGCCATCTATTTACC 58.480 41.667 2.24 0.00 0.00 2.85
3093 4811 1.227674 CGGAATAGCAGCCTGGGTC 60.228 63.158 0.00 0.00 0.00 4.46
3131 4849 1.200484 ACACGCTTGACCAAAACGTTT 59.800 42.857 7.96 7.96 32.94 3.60
3174 4892 1.402968 GTGCGTACCCGATCTAGTTGA 59.597 52.381 0.00 0.00 35.63 3.18
3175 4893 2.034305 GTGCGTACCCGATCTAGTTGAT 59.966 50.000 0.00 0.00 38.27 2.57
3176 4894 3.251729 GTGCGTACCCGATCTAGTTGATA 59.748 47.826 0.00 0.00 35.14 2.15
3177 4895 4.077108 TGCGTACCCGATCTAGTTGATAT 58.923 43.478 0.00 0.00 35.14 1.63
3178 4896 4.155462 TGCGTACCCGATCTAGTTGATATC 59.845 45.833 0.00 0.00 35.14 1.63
3179 4897 4.155462 GCGTACCCGATCTAGTTGATATCA 59.845 45.833 0.00 0.00 35.14 2.15
3180 4898 5.335426 GCGTACCCGATCTAGTTGATATCAA 60.335 44.000 14.23 14.23 35.14 2.57
3181 4899 6.625300 GCGTACCCGATCTAGTTGATATCAAT 60.625 42.308 20.65 12.17 35.57 2.57
3182 4900 6.747739 CGTACCCGATCTAGTTGATATCAATG 59.252 42.308 20.65 13.71 35.57 2.82
3183 4901 5.482908 ACCCGATCTAGTTGATATCAATGC 58.517 41.667 20.65 9.41 38.24 3.56
3184 4902 4.564372 CCCGATCTAGTTGATATCAATGCG 59.436 45.833 20.65 15.90 38.24 4.73
3185 4903 5.402398 CCGATCTAGTTGATATCAATGCGA 58.598 41.667 20.65 15.97 38.24 5.10
3186 4904 5.514559 CCGATCTAGTTGATATCAATGCGAG 59.485 44.000 20.65 13.82 38.24 5.03
3187 4905 5.514559 CGATCTAGTTGATATCAATGCGAGG 59.485 44.000 20.65 8.81 38.24 4.63
3188 4906 6.596309 ATCTAGTTGATATCAATGCGAGGA 57.404 37.500 20.65 12.99 38.24 3.71
3189 4907 6.018589 TCTAGTTGATATCAATGCGAGGAG 57.981 41.667 20.65 10.37 38.24 3.69
3190 4908 4.679373 AGTTGATATCAATGCGAGGAGT 57.321 40.909 20.65 0.00 38.24 3.85
3191 4909 5.791336 AGTTGATATCAATGCGAGGAGTA 57.209 39.130 20.65 0.00 38.24 2.59
3192 4910 5.777802 AGTTGATATCAATGCGAGGAGTAG 58.222 41.667 20.65 0.00 38.24 2.57
3193 4911 4.790765 TGATATCAATGCGAGGAGTAGG 57.209 45.455 1.98 0.00 0.00 3.18
3194 4912 3.511540 TGATATCAATGCGAGGAGTAGGG 59.488 47.826 1.98 0.00 0.00 3.53
3195 4913 2.088104 ATCAATGCGAGGAGTAGGGA 57.912 50.000 0.00 0.00 0.00 4.20
3196 4914 2.088104 TCAATGCGAGGAGTAGGGAT 57.912 50.000 0.00 0.00 0.00 3.85
3197 4915 2.398588 TCAATGCGAGGAGTAGGGATT 58.601 47.619 0.00 0.00 0.00 3.01
3198 4916 2.103094 TCAATGCGAGGAGTAGGGATTG 59.897 50.000 0.00 0.00 39.80 2.67
3199 4917 0.394565 ATGCGAGGAGTAGGGATTGC 59.605 55.000 0.00 0.00 0.00 3.56
3200 4918 1.069935 GCGAGGAGTAGGGATTGCC 59.930 63.158 0.00 0.00 0.00 4.52
3201 4919 1.686325 GCGAGGAGTAGGGATTGCCA 61.686 60.000 0.00 0.00 35.15 4.92
3202 4920 1.051812 CGAGGAGTAGGGATTGCCAT 58.948 55.000 0.00 0.00 35.15 4.40
3203 4921 1.270518 CGAGGAGTAGGGATTGCCATG 60.271 57.143 0.00 0.00 35.15 3.66
3204 4922 0.475906 AGGAGTAGGGATTGCCATGC 59.524 55.000 0.00 0.00 35.15 4.06
3205 4923 0.183492 GGAGTAGGGATTGCCATGCA 59.817 55.000 0.00 0.00 32.65 3.96
3228 4946 7.405469 CAACAGATGCACTAAGAGCTATAAG 57.595 40.000 0.00 0.00 0.00 1.73
3229 4947 6.723298 ACAGATGCACTAAGAGCTATAAGT 57.277 37.500 0.00 0.00 0.00 2.24
3230 4948 6.511416 ACAGATGCACTAAGAGCTATAAGTG 58.489 40.000 14.45 14.45 41.78 3.16
3231 4949 6.097554 ACAGATGCACTAAGAGCTATAAGTGT 59.902 38.462 18.04 4.82 41.11 3.55
3232 4950 7.285629 ACAGATGCACTAAGAGCTATAAGTGTA 59.714 37.037 18.04 15.45 41.11 2.90
3233 4951 8.303156 CAGATGCACTAAGAGCTATAAGTGTAT 58.697 37.037 18.77 18.77 44.52 2.29
3234 4952 8.303156 AGATGCACTAAGAGCTATAAGTGTATG 58.697 37.037 21.77 2.84 42.75 2.39
3235 4953 7.582667 TGCACTAAGAGCTATAAGTGTATGA 57.417 36.000 18.04 3.72 41.11 2.15
3236 4954 7.652727 TGCACTAAGAGCTATAAGTGTATGAG 58.347 38.462 18.04 0.00 41.11 2.90
3237 4955 7.502561 TGCACTAAGAGCTATAAGTGTATGAGA 59.497 37.037 18.04 0.71 41.11 3.27
3238 4956 8.020819 GCACTAAGAGCTATAAGTGTATGAGAG 58.979 40.741 18.04 0.00 41.11 3.20
3239 4957 8.020819 CACTAAGAGCTATAAGTGTATGAGAGC 58.979 40.741 11.73 0.00 35.66 4.09
3240 4958 7.942341 ACTAAGAGCTATAAGTGTATGAGAGCT 59.058 37.037 0.00 0.00 41.33 4.09
3243 4961 6.968263 AGCTATAAGTGTATGAGAGCTCAA 57.032 37.500 17.77 3.74 43.58 3.02
3244 4962 7.537596 AGCTATAAGTGTATGAGAGCTCAAT 57.462 36.000 17.77 11.63 43.58 2.57
3245 4963 8.642935 AGCTATAAGTGTATGAGAGCTCAATA 57.357 34.615 17.77 10.58 43.58 1.90
3246 4964 9.253832 AGCTATAAGTGTATGAGAGCTCAATAT 57.746 33.333 17.77 9.36 43.58 1.28
3247 4965 9.299963 GCTATAAGTGTATGAGAGCTCAATATG 57.700 37.037 17.77 0.00 43.58 1.78
3252 4970 8.430801 AGTGTATGAGAGCTCAATATGAAAAC 57.569 34.615 17.77 3.99 43.58 2.43
3253 4971 8.263640 AGTGTATGAGAGCTCAATATGAAAACT 58.736 33.333 17.77 5.39 43.58 2.66
3254 4972 9.534565 GTGTATGAGAGCTCAATATGAAAACTA 57.465 33.333 17.77 0.00 43.58 2.24
3258 4976 8.484641 TGAGAGCTCAATATGAAAACTAAGTG 57.515 34.615 17.77 0.00 36.53 3.16
3259 4977 7.550551 TGAGAGCTCAATATGAAAACTAAGTGG 59.449 37.037 17.77 0.00 36.53 4.00
3260 4978 7.624549 AGAGCTCAATATGAAAACTAAGTGGA 58.375 34.615 17.77 0.00 0.00 4.02
3261 4979 8.270744 AGAGCTCAATATGAAAACTAAGTGGAT 58.729 33.333 17.77 0.00 0.00 3.41
3262 4980 8.218338 AGCTCAATATGAAAACTAAGTGGATG 57.782 34.615 0.00 0.00 0.00 3.51
3263 4981 7.831193 AGCTCAATATGAAAACTAAGTGGATGT 59.169 33.333 0.00 0.00 0.00 3.06
3264 4982 7.912250 GCTCAATATGAAAACTAAGTGGATGTG 59.088 37.037 0.00 0.00 0.00 3.21
3265 4983 7.761409 TCAATATGAAAACTAAGTGGATGTGC 58.239 34.615 0.00 0.00 0.00 4.57
3266 4984 7.392953 TCAATATGAAAACTAAGTGGATGTGCA 59.607 33.333 0.00 0.00 0.00 4.57
3267 4985 7.886629 ATATGAAAACTAAGTGGATGTGCAT 57.113 32.000 0.00 0.00 0.00 3.96
3268 4986 5.627499 TGAAAACTAAGTGGATGTGCATC 57.373 39.130 3.71 3.71 37.11 3.91
3279 4997 2.602878 GATGTGCATCCAACTTGCTTG 58.397 47.619 0.00 0.00 40.77 4.01
3280 4998 0.032403 TGTGCATCCAACTTGCTTGC 59.968 50.000 0.00 7.05 40.77 4.01
3281 4999 0.316204 GTGCATCCAACTTGCTTGCT 59.684 50.000 12.63 0.00 40.77 3.91
3282 5000 0.599558 TGCATCCAACTTGCTTGCTC 59.400 50.000 12.63 0.00 40.77 4.26
3283 5001 0.599558 GCATCCAACTTGCTTGCTCA 59.400 50.000 6.83 0.00 37.14 4.26
3284 5002 1.203994 GCATCCAACTTGCTTGCTCAT 59.796 47.619 6.83 0.00 37.14 2.90
3285 5003 2.876091 CATCCAACTTGCTTGCTCATG 58.124 47.619 0.00 0.00 0.00 3.07
3286 5004 2.275134 TCCAACTTGCTTGCTCATGA 57.725 45.000 0.00 0.00 0.00 3.07
3287 5005 2.585330 TCCAACTTGCTTGCTCATGAA 58.415 42.857 0.00 0.00 0.00 2.57
3288 5006 2.555325 TCCAACTTGCTTGCTCATGAAG 59.445 45.455 0.00 0.00 0.00 3.02
3289 5007 2.555325 CCAACTTGCTTGCTCATGAAGA 59.445 45.455 0.00 0.00 0.00 2.87
3290 5008 3.562505 CAACTTGCTTGCTCATGAAGAC 58.437 45.455 0.00 0.00 0.00 3.01
3291 5009 2.157738 ACTTGCTTGCTCATGAAGACC 58.842 47.619 0.00 0.00 0.00 3.85
3292 5010 2.224719 ACTTGCTTGCTCATGAAGACCT 60.225 45.455 0.00 0.00 0.00 3.85
3293 5011 2.105006 TGCTTGCTCATGAAGACCTC 57.895 50.000 0.00 0.00 0.00 3.85
3294 5012 1.005340 GCTTGCTCATGAAGACCTCG 58.995 55.000 0.00 0.00 0.00 4.63
3295 5013 1.649664 CTTGCTCATGAAGACCTCGG 58.350 55.000 0.00 0.00 0.00 4.63
3296 5014 0.250234 TTGCTCATGAAGACCTCGGG 59.750 55.000 0.00 0.00 0.00 5.14
3297 5015 1.522580 GCTCATGAAGACCTCGGGC 60.523 63.158 0.00 0.00 0.00 6.13
3298 5016 1.900351 CTCATGAAGACCTCGGGCA 59.100 57.895 0.00 0.00 0.00 5.36
3299 5017 0.467384 CTCATGAAGACCTCGGGCAT 59.533 55.000 0.00 0.00 0.00 4.40
3300 5018 0.911769 TCATGAAGACCTCGGGCATT 59.088 50.000 0.00 0.00 0.00 3.56
3301 5019 1.281867 TCATGAAGACCTCGGGCATTT 59.718 47.619 0.00 0.00 0.00 2.32
3302 5020 1.402968 CATGAAGACCTCGGGCATTTG 59.597 52.381 0.00 0.00 0.00 2.32
3303 5021 0.690192 TGAAGACCTCGGGCATTTGA 59.310 50.000 0.00 0.00 0.00 2.69
3304 5022 1.339055 TGAAGACCTCGGGCATTTGAG 60.339 52.381 0.00 0.00 0.00 3.02
3309 5027 2.101700 CTCGGGCATTTGAGGAAGC 58.898 57.895 0.00 0.00 0.00 3.86
3310 5028 1.378514 TCGGGCATTTGAGGAAGCC 60.379 57.895 0.00 0.00 46.28 4.35
3312 5030 4.440145 GGCATTTGAGGAAGCCCA 57.560 55.556 0.00 0.00 41.25 5.36
3313 5031 1.893062 GGCATTTGAGGAAGCCCAC 59.107 57.895 0.00 0.00 41.25 4.61
3314 5032 1.607801 GGCATTTGAGGAAGCCCACC 61.608 60.000 0.00 0.00 41.25 4.61
3315 5033 0.899717 GCATTTGAGGAAGCCCACCA 60.900 55.000 0.00 0.00 33.88 4.17
3316 5034 1.856629 CATTTGAGGAAGCCCACCAT 58.143 50.000 0.00 0.00 33.88 3.55
3317 5035 1.753073 CATTTGAGGAAGCCCACCATC 59.247 52.381 0.00 0.00 33.88 3.51
3318 5036 0.322456 TTTGAGGAAGCCCACCATCG 60.322 55.000 0.00 0.00 33.88 3.84
3319 5037 1.198094 TTGAGGAAGCCCACCATCGA 61.198 55.000 0.00 0.00 33.88 3.59
3320 5038 1.198094 TGAGGAAGCCCACCATCGAA 61.198 55.000 0.00 0.00 33.88 3.71
3321 5039 0.035439 GAGGAAGCCCACCATCGAAA 60.035 55.000 0.00 0.00 33.88 3.46
3322 5040 0.625849 AGGAAGCCCACCATCGAAAT 59.374 50.000 0.00 0.00 33.88 2.17
3323 5041 1.843851 AGGAAGCCCACCATCGAAATA 59.156 47.619 0.00 0.00 33.88 1.40
3324 5042 2.443255 AGGAAGCCCACCATCGAAATAT 59.557 45.455 0.00 0.00 33.88 1.28
3325 5043 3.650942 AGGAAGCCCACCATCGAAATATA 59.349 43.478 0.00 0.00 33.88 0.86
3326 5044 3.751698 GGAAGCCCACCATCGAAATATAC 59.248 47.826 0.00 0.00 0.00 1.47
3327 5045 4.385825 GAAGCCCACCATCGAAATATACA 58.614 43.478 0.00 0.00 0.00 2.29
3328 5046 4.431416 AGCCCACCATCGAAATATACAA 57.569 40.909 0.00 0.00 0.00 2.41
3329 5047 4.389374 AGCCCACCATCGAAATATACAAG 58.611 43.478 0.00 0.00 0.00 3.16
3330 5048 3.058224 GCCCACCATCGAAATATACAAGC 60.058 47.826 0.00 0.00 0.00 4.01
3331 5049 3.502211 CCCACCATCGAAATATACAAGCC 59.498 47.826 0.00 0.00 0.00 4.35
3332 5050 4.133820 CCACCATCGAAATATACAAGCCA 58.866 43.478 0.00 0.00 0.00 4.75
3333 5051 4.578516 CCACCATCGAAATATACAAGCCAA 59.421 41.667 0.00 0.00 0.00 4.52
3334 5052 5.277974 CCACCATCGAAATATACAAGCCAAG 60.278 44.000 0.00 0.00 0.00 3.61
3335 5053 5.296780 CACCATCGAAATATACAAGCCAAGT 59.703 40.000 0.00 0.00 0.00 3.16
3336 5054 5.885912 ACCATCGAAATATACAAGCCAAGTT 59.114 36.000 0.00 0.00 0.00 2.66
3337 5055 6.038271 ACCATCGAAATATACAAGCCAAGTTC 59.962 38.462 0.00 0.00 0.00 3.01
3338 5056 6.260936 CCATCGAAATATACAAGCCAAGTTCT 59.739 38.462 0.00 0.00 0.00 3.01
3339 5057 7.441157 CCATCGAAATATACAAGCCAAGTTCTA 59.559 37.037 0.00 0.00 0.00 2.10
3340 5058 8.993121 CATCGAAATATACAAGCCAAGTTCTAT 58.007 33.333 0.00 0.00 0.00 1.98
3349 5067 9.905713 ATACAAGCCAAGTTCTATAATGAAGAA 57.094 29.630 0.00 0.00 0.00 2.52
3350 5068 8.814038 ACAAGCCAAGTTCTATAATGAAGAAT 57.186 30.769 0.00 0.00 35.53 2.40
3351 5069 9.247861 ACAAGCCAAGTTCTATAATGAAGAATT 57.752 29.630 0.00 0.00 35.53 2.17
3353 5071 8.457238 AGCCAAGTTCTATAATGAAGAATTCC 57.543 34.615 0.65 0.00 46.93 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
224 225 1.771255 AGTGGCCACAAAAGAGAGAGT 59.229 47.619 36.39 9.43 0.00 3.24
405 407 7.138081 CACTTAACACTGCAATTGTTGATACA 58.862 34.615 19.12 1.23 37.73 2.29
454 456 9.376075 TCTTTGCAGTATTTTTGAAAAATGTGA 57.624 25.926 22.30 3.59 0.00 3.58
520 522 9.010029 CAATTTGGTACTTTGTACTTAGTCCAT 57.990 33.333 7.64 4.78 0.00 3.41
549 551 9.687210 CAGTAAGTAAATAACCAAGGGAAAAAC 57.313 33.333 0.00 0.00 0.00 2.43
554 556 8.316214 CAGTACAGTAAGTAAATAACCAAGGGA 58.684 37.037 0.00 0.00 33.72 4.20
618 621 8.228464 GGTCTTACTTAGAAGTACAATTTGCAC 58.772 37.037 1.55 0.00 40.95 4.57
740 743 6.067217 AGAGCATGACCCTATTTTTAGTGT 57.933 37.500 0.00 0.00 0.00 3.55
755 758 4.607293 AAGTGTCACTGTTAGAGCATGA 57.393 40.909 6.18 0.00 0.00 3.07
843 846 3.250040 CCATCCACGTCCGAATAAAATCC 59.750 47.826 0.00 0.00 0.00 3.01
849 852 0.748450 GACCCATCCACGTCCGAATA 59.252 55.000 0.00 0.00 0.00 1.75
895 899 4.042062 ACATCCAGAAAGATGAGGAACACA 59.958 41.667 8.44 0.00 45.43 3.72
1009 1013 4.816385 ACAATGAGAGAAGCGAAGAACAAA 59.184 37.500 0.00 0.00 0.00 2.83
1011 1015 3.990469 GACAATGAGAGAAGCGAAGAACA 59.010 43.478 0.00 0.00 0.00 3.18
1027 1031 3.567164 ACAGCACAAAGGAGAAGACAATG 59.433 43.478 0.00 0.00 0.00 2.82
1039 1043 2.549329 TGAGCACATGTACAGCACAAAG 59.451 45.455 9.10 0.00 41.55 2.77
1078 1082 5.675538 CAAACCCTAGACAGATCCCTAAAG 58.324 45.833 0.00 0.00 0.00 1.85
1139 1150 3.474486 TTCGAGCAGCACAGCCCAA 62.474 57.895 0.00 0.00 34.23 4.12
1252 1263 0.734253 GGAGAGCGCTGCCGTATATG 60.734 60.000 18.48 0.00 36.67 1.78
1291 1302 3.795688 ACAAAAGGAGCAAGGATCTCA 57.204 42.857 0.00 0.00 32.38 3.27
1310 1321 6.295067 GGAAGCTAGGGATTCAGAGAGATAAC 60.295 46.154 0.00 0.00 39.36 1.89
1350 1362 7.095481 CGATCCTGTAAGAATATCACCACATTG 60.095 40.741 0.00 0.00 34.07 2.82
1358 1370 8.084684 CAGATCAACGATCCTGTAAGAATATCA 58.915 37.037 0.00 0.00 39.66 2.15
1362 1374 6.045318 CACAGATCAACGATCCTGTAAGAAT 58.955 40.000 0.00 0.00 39.66 2.40
1491 1505 2.432510 GTCTACCTTGCTAGCTGGTGAT 59.567 50.000 30.01 14.85 35.48 3.06
1573 1591 2.492484 GTGTCCTAGATCAACGACAGGT 59.508 50.000 8.51 0.00 35.99 4.00
1589 1607 5.627499 TCAAAAATATGCTCTGTGTGTCC 57.373 39.130 0.00 0.00 0.00 4.02
1646 1666 0.248094 CTGCACAGCAAGCATCGATG 60.248 55.000 21.27 21.27 41.82 3.84
1647 1667 0.675837 ACTGCACAGCAAGCATCGAT 60.676 50.000 0.00 0.00 41.82 3.59
1670 1690 7.015682 ACGGGATCTAAAGAATCTGATACACAT 59.984 37.037 0.00 0.00 0.00 3.21
1737 1758 3.063452 CCAAACGGCATGATACACAGTAC 59.937 47.826 0.00 0.00 0.00 2.73
1739 1760 2.083774 CCAAACGGCATGATACACAGT 58.916 47.619 0.00 0.00 0.00 3.55
2028 2052 5.236478 GGCAAGTCATTTACGCATAGTACAT 59.764 40.000 0.00 0.00 34.56 2.29
2038 2062 4.242475 TGTAGAGTGGCAAGTCATTTACG 58.758 43.478 0.00 0.00 0.00 3.18
2133 2158 4.529377 TCTTGTACTTCACCTCGGGTAAAT 59.471 41.667 0.00 0.00 32.11 1.40
2158 2183 2.180204 GCCACGGTAAGATGCGCAT 61.180 57.895 25.66 25.66 0.00 4.73
2178 2203 0.179084 GATAGCAGTAGCCGCCACAA 60.179 55.000 0.00 0.00 43.56 3.33
2224 2249 2.664185 ATATGCTCTGCCGCTGCG 60.664 61.111 16.34 16.34 41.78 5.18
2344 2385 3.209410 AGATTTTCTGCATTAGAGGGCG 58.791 45.455 0.00 0.00 36.61 6.13
2351 2392 6.465439 TCTCGGTCTAGATTTTCTGCATTA 57.535 37.500 0.00 0.00 0.00 1.90
2364 2405 4.200874 ACAGGTACTTCATCTCGGTCTAG 58.799 47.826 0.00 0.00 34.60 2.43
2471 3495 1.923395 CCAGTGACCCCAGCCCTTA 60.923 63.158 0.00 0.00 0.00 2.69
2532 3558 5.733620 AATGAACTACCGAAGAACCAGTA 57.266 39.130 0.00 0.00 0.00 2.74
2564 3596 9.948176 CATACACGATGGAATGCATTTTCAGCA 62.948 40.741 22.52 10.41 37.92 4.41
2582 3614 3.428999 GGAGAGTAAGCAAGCATACACGA 60.429 47.826 9.70 0.00 0.00 4.35
2589 3621 4.741837 GCATCATAGGAGAGTAAGCAAGCA 60.742 45.833 0.00 0.00 0.00 3.91
2590 3622 3.745458 GCATCATAGGAGAGTAAGCAAGC 59.255 47.826 0.00 0.00 0.00 4.01
2591 3623 5.212532 AGCATCATAGGAGAGTAAGCAAG 57.787 43.478 0.00 0.00 0.00 4.01
2592 3624 5.620738 AAGCATCATAGGAGAGTAAGCAA 57.379 39.130 0.00 0.00 0.00 3.91
2626 3658 6.212791 AGCAAGTACTGTCCCTTATCTAACAA 59.787 38.462 0.00 0.00 0.00 2.83
2697 3729 8.159447 AGTTAAATGGAGATGCAGATATAGCAA 58.841 33.333 6.43 0.00 46.27 3.91
2793 4084 6.539464 ACCAAACAAAGTACGAAATAGTGACA 59.461 34.615 0.00 0.00 0.00 3.58
2826 4117 4.076394 GGTAAAAGGGTGCATGTCAAGTA 58.924 43.478 0.00 0.00 0.00 2.24
2883 4176 6.262273 CACCCATCCATAAACCTGTTGTATAC 59.738 42.308 0.00 0.00 0.00 1.47
2894 4191 3.447229 CCTCCAAACACCCATCCATAAAC 59.553 47.826 0.00 0.00 0.00 2.01
2997 4319 4.449068 ACAACATCTGAAGTAACTGAAGCG 59.551 41.667 0.00 0.00 0.00 4.68
3093 4811 7.807687 AGCGTGTAATGTTAAGTTAGTAGTG 57.192 36.000 0.00 0.00 0.00 2.74
3147 4865 4.690719 CGGGTACGCACCTTGGCA 62.691 66.667 10.84 0.00 45.04 4.92
3174 4892 3.779444 TCCCTACTCCTCGCATTGATAT 58.221 45.455 0.00 0.00 0.00 1.63
3175 4893 3.238788 TCCCTACTCCTCGCATTGATA 57.761 47.619 0.00 0.00 0.00 2.15
3176 4894 2.088104 TCCCTACTCCTCGCATTGAT 57.912 50.000 0.00 0.00 0.00 2.57
3177 4895 2.088104 ATCCCTACTCCTCGCATTGA 57.912 50.000 0.00 0.00 0.00 2.57
3178 4896 2.487934 CAATCCCTACTCCTCGCATTG 58.512 52.381 0.00 0.00 0.00 2.82
3179 4897 1.202698 GCAATCCCTACTCCTCGCATT 60.203 52.381 0.00 0.00 0.00 3.56
3180 4898 0.394565 GCAATCCCTACTCCTCGCAT 59.605 55.000 0.00 0.00 0.00 4.73
3181 4899 1.686325 GGCAATCCCTACTCCTCGCA 61.686 60.000 0.00 0.00 0.00 5.10
3182 4900 1.069935 GGCAATCCCTACTCCTCGC 59.930 63.158 0.00 0.00 0.00 5.03
3183 4901 1.051812 ATGGCAATCCCTACTCCTCG 58.948 55.000 0.00 0.00 0.00 4.63
3184 4902 1.544314 GCATGGCAATCCCTACTCCTC 60.544 57.143 0.00 0.00 0.00 3.71
3185 4903 0.475906 GCATGGCAATCCCTACTCCT 59.524 55.000 0.00 0.00 0.00 3.69
3186 4904 0.183492 TGCATGGCAATCCCTACTCC 59.817 55.000 0.00 0.00 34.76 3.85
3187 4905 2.057137 TTGCATGGCAATCCCTACTC 57.943 50.000 0.00 0.00 43.99 2.59
3204 4922 6.983307 ACTTATAGCTCTTAGTGCATCTGTTG 59.017 38.462 8.99 0.00 0.00 3.33
3205 4923 6.983307 CACTTATAGCTCTTAGTGCATCTGTT 59.017 38.462 8.99 0.00 32.53 3.16
3206 4924 6.097554 ACACTTATAGCTCTTAGTGCATCTGT 59.902 38.462 15.69 0.00 41.22 3.41
3207 4925 6.511416 ACACTTATAGCTCTTAGTGCATCTG 58.489 40.000 15.69 0.00 41.22 2.90
3208 4926 6.723298 ACACTTATAGCTCTTAGTGCATCT 57.277 37.500 15.69 0.00 41.22 2.90
3209 4927 8.300286 TCATACACTTATAGCTCTTAGTGCATC 58.700 37.037 15.69 0.00 41.22 3.91
3210 4928 8.183104 TCATACACTTATAGCTCTTAGTGCAT 57.817 34.615 15.69 7.85 41.22 3.96
3211 4929 7.502561 TCTCATACACTTATAGCTCTTAGTGCA 59.497 37.037 15.69 6.01 41.22 4.57
3212 4930 7.877003 TCTCATACACTTATAGCTCTTAGTGC 58.123 38.462 15.69 0.00 41.22 4.40
3213 4931 8.020819 GCTCTCATACACTTATAGCTCTTAGTG 58.979 40.741 14.55 14.55 42.75 2.74
3214 4932 7.942341 AGCTCTCATACACTTATAGCTCTTAGT 59.058 37.037 0.00 0.00 33.78 2.24
3215 4933 8.335532 AGCTCTCATACACTTATAGCTCTTAG 57.664 38.462 0.00 0.00 33.78 2.18
3216 4934 8.330466 GAGCTCTCATACACTTATAGCTCTTA 57.670 38.462 6.43 0.00 46.85 2.10
3217 4935 7.214467 GAGCTCTCATACACTTATAGCTCTT 57.786 40.000 6.43 0.00 46.85 2.85
3218 4936 6.817765 GAGCTCTCATACACTTATAGCTCT 57.182 41.667 6.43 0.00 46.85 4.09
3220 4938 6.968263 TTGAGCTCTCATACACTTATAGCT 57.032 37.500 16.19 0.00 41.29 3.32
3221 4939 9.299963 CATATTGAGCTCTCATACACTTATAGC 57.700 37.037 16.19 0.00 39.64 2.97
3226 4944 8.887717 GTTTTCATATTGAGCTCTCATACACTT 58.112 33.333 16.19 0.00 39.64 3.16
3227 4945 8.263640 AGTTTTCATATTGAGCTCTCATACACT 58.736 33.333 16.19 3.54 39.64 3.55
3228 4946 8.430801 AGTTTTCATATTGAGCTCTCATACAC 57.569 34.615 16.19 1.28 39.64 2.90
3232 4950 9.107177 CACTTAGTTTTCATATTGAGCTCTCAT 57.893 33.333 16.19 9.58 39.64 2.90
3233 4951 7.550551 CCACTTAGTTTTCATATTGAGCTCTCA 59.449 37.037 16.19 1.52 37.91 3.27
3234 4952 7.766278 TCCACTTAGTTTTCATATTGAGCTCTC 59.234 37.037 16.19 0.00 0.00 3.20
3235 4953 7.624549 TCCACTTAGTTTTCATATTGAGCTCT 58.375 34.615 16.19 0.00 0.00 4.09
3236 4954 7.849804 TCCACTTAGTTTTCATATTGAGCTC 57.150 36.000 6.82 6.82 0.00 4.09
3237 4955 7.831193 ACATCCACTTAGTTTTCATATTGAGCT 59.169 33.333 0.00 0.00 0.00 4.09
3238 4956 7.912250 CACATCCACTTAGTTTTCATATTGAGC 59.088 37.037 0.00 0.00 0.00 4.26
3239 4957 7.912250 GCACATCCACTTAGTTTTCATATTGAG 59.088 37.037 0.00 0.00 0.00 3.02
3240 4958 7.392953 TGCACATCCACTTAGTTTTCATATTGA 59.607 33.333 0.00 0.00 0.00 2.57
3241 4959 7.537715 TGCACATCCACTTAGTTTTCATATTG 58.462 34.615 0.00 0.00 0.00 1.90
3242 4960 7.701539 TGCACATCCACTTAGTTTTCATATT 57.298 32.000 0.00 0.00 0.00 1.28
3243 4961 7.886629 ATGCACATCCACTTAGTTTTCATAT 57.113 32.000 0.00 0.00 0.00 1.78
3244 4962 7.320443 GATGCACATCCACTTAGTTTTCATA 57.680 36.000 0.00 0.00 31.76 2.15
3245 4963 6.199937 GATGCACATCCACTTAGTTTTCAT 57.800 37.500 0.00 0.00 31.76 2.57
3246 4964 5.627499 GATGCACATCCACTTAGTTTTCA 57.373 39.130 0.00 0.00 31.76 2.69
3259 4977 2.602878 CAAGCAAGTTGGATGCACATC 58.397 47.619 4.75 1.86 46.22 3.06
3260 4978 1.337447 GCAAGCAAGTTGGATGCACAT 60.337 47.619 4.75 0.00 46.22 3.21
3261 4979 0.032403 GCAAGCAAGTTGGATGCACA 59.968 50.000 4.75 0.00 46.22 4.57
3262 4980 0.316204 AGCAAGCAAGTTGGATGCAC 59.684 50.000 4.75 0.00 46.22 4.57
3263 4981 0.599558 GAGCAAGCAAGTTGGATGCA 59.400 50.000 4.75 0.00 46.22 3.96
3264 4982 0.599558 TGAGCAAGCAAGTTGGATGC 59.400 50.000 4.75 0.00 44.15 3.91
3265 4983 2.490509 TCATGAGCAAGCAAGTTGGATG 59.509 45.455 4.75 0.00 36.56 3.51
3266 4984 2.799017 TCATGAGCAAGCAAGTTGGAT 58.201 42.857 4.75 0.00 36.56 3.41
3267 4985 2.275134 TCATGAGCAAGCAAGTTGGA 57.725 45.000 4.75 0.00 36.56 3.53
3268 4986 2.555325 TCTTCATGAGCAAGCAAGTTGG 59.445 45.455 4.75 0.00 36.56 3.77
3269 4987 3.562505 GTCTTCATGAGCAAGCAAGTTG 58.437 45.455 0.00 0.00 39.41 3.16
3270 4988 2.555757 GGTCTTCATGAGCAAGCAAGTT 59.444 45.455 0.00 0.00 42.34 2.66
3271 4989 2.157738 GGTCTTCATGAGCAAGCAAGT 58.842 47.619 0.00 0.00 42.34 3.16
3272 4990 2.419324 GAGGTCTTCATGAGCAAGCAAG 59.581 50.000 0.00 0.00 44.98 4.01
3273 4991 2.430465 GAGGTCTTCATGAGCAAGCAA 58.570 47.619 0.00 0.00 44.98 3.91
3274 4992 1.673923 CGAGGTCTTCATGAGCAAGCA 60.674 52.381 0.00 0.00 44.98 3.91
3275 4993 1.005340 CGAGGTCTTCATGAGCAAGC 58.995 55.000 0.00 0.00 44.98 4.01
3276 4994 1.649664 CCGAGGTCTTCATGAGCAAG 58.350 55.000 0.00 0.00 44.98 4.01
3277 4995 0.250234 CCCGAGGTCTTCATGAGCAA 59.750 55.000 0.00 0.00 44.98 3.91
3278 4996 1.900351 CCCGAGGTCTTCATGAGCA 59.100 57.895 0.00 0.00 44.98 4.26
3279 4997 1.522580 GCCCGAGGTCTTCATGAGC 60.523 63.158 0.00 0.00 43.05 4.26
3280 4998 0.467384 ATGCCCGAGGTCTTCATGAG 59.533 55.000 0.00 0.00 0.00 2.90
3281 4999 0.911769 AATGCCCGAGGTCTTCATGA 59.088 50.000 0.00 0.00 0.00 3.07
3282 5000 1.402968 CAAATGCCCGAGGTCTTCATG 59.597 52.381 0.00 0.00 0.00 3.07
3283 5001 1.281867 TCAAATGCCCGAGGTCTTCAT 59.718 47.619 0.00 0.00 0.00 2.57
3284 5002 0.690192 TCAAATGCCCGAGGTCTTCA 59.310 50.000 0.00 0.00 0.00 3.02
3285 5003 1.373570 CTCAAATGCCCGAGGTCTTC 58.626 55.000 0.00 0.00 0.00 2.87
3286 5004 0.035056 CCTCAAATGCCCGAGGTCTT 60.035 55.000 0.00 0.00 43.32 3.01
3287 5005 1.604378 CCTCAAATGCCCGAGGTCT 59.396 57.895 0.00 0.00 43.32 3.85
3288 5006 4.225497 CCTCAAATGCCCGAGGTC 57.775 61.111 0.00 0.00 43.32 3.85
3291 5009 1.379642 GGCTTCCTCAAATGCCCGAG 61.380 60.000 0.00 0.00 39.49 4.63
3292 5010 1.378514 GGCTTCCTCAAATGCCCGA 60.379 57.895 0.00 0.00 39.49 5.14
3293 5011 3.200522 GGCTTCCTCAAATGCCCG 58.799 61.111 0.00 0.00 39.49 6.13
3295 5013 1.607801 GGTGGGCTTCCTCAAATGCC 61.608 60.000 0.00 0.00 44.22 4.40
3296 5014 0.899717 TGGTGGGCTTCCTCAAATGC 60.900 55.000 0.00 0.00 0.00 3.56
3297 5015 1.753073 GATGGTGGGCTTCCTCAAATG 59.247 52.381 0.00 0.00 0.00 2.32
3298 5016 1.683011 CGATGGTGGGCTTCCTCAAAT 60.683 52.381 0.00 0.00 0.00 2.32
3299 5017 0.322456 CGATGGTGGGCTTCCTCAAA 60.322 55.000 0.00 0.00 0.00 2.69
3300 5018 1.198094 TCGATGGTGGGCTTCCTCAA 61.198 55.000 0.00 0.00 0.00 3.02
3301 5019 1.198094 TTCGATGGTGGGCTTCCTCA 61.198 55.000 0.00 0.00 0.00 3.86
3302 5020 0.035439 TTTCGATGGTGGGCTTCCTC 60.035 55.000 0.00 0.00 0.00 3.71
3303 5021 0.625849 ATTTCGATGGTGGGCTTCCT 59.374 50.000 0.00 0.00 0.00 3.36
3304 5022 2.341846 TATTTCGATGGTGGGCTTCC 57.658 50.000 0.00 0.00 0.00 3.46
3305 5023 4.385825 TGTATATTTCGATGGTGGGCTTC 58.614 43.478 0.00 0.00 0.00 3.86
3306 5024 4.431416 TGTATATTTCGATGGTGGGCTT 57.569 40.909 0.00 0.00 0.00 4.35
3307 5025 4.389374 CTTGTATATTTCGATGGTGGGCT 58.611 43.478 0.00 0.00 0.00 5.19
3308 5026 3.058224 GCTTGTATATTTCGATGGTGGGC 60.058 47.826 0.00 0.00 0.00 5.36
3309 5027 3.502211 GGCTTGTATATTTCGATGGTGGG 59.498 47.826 0.00 0.00 0.00 4.61
3310 5028 4.133820 TGGCTTGTATATTTCGATGGTGG 58.866 43.478 0.00 0.00 0.00 4.61
3311 5029 5.296780 ACTTGGCTTGTATATTTCGATGGTG 59.703 40.000 0.00 0.00 0.00 4.17
3312 5030 5.437060 ACTTGGCTTGTATATTTCGATGGT 58.563 37.500 0.00 0.00 0.00 3.55
3313 5031 6.260936 AGAACTTGGCTTGTATATTTCGATGG 59.739 38.462 0.00 0.00 0.00 3.51
3314 5032 7.251704 AGAACTTGGCTTGTATATTTCGATG 57.748 36.000 0.00 0.00 0.00 3.84
3323 5041 9.905713 TTCTTCATTATAGAACTTGGCTTGTAT 57.094 29.630 0.00 0.00 0.00 2.29
3324 5042 9.905713 ATTCTTCATTATAGAACTTGGCTTGTA 57.094 29.630 0.00 0.00 34.68 2.41
3325 5043 8.814038 ATTCTTCATTATAGAACTTGGCTTGT 57.186 30.769 0.00 0.00 34.68 3.16
3326 5044 9.727627 GAATTCTTCATTATAGAACTTGGCTTG 57.272 33.333 0.00 0.00 34.68 4.01
3327 5045 8.907885 GGAATTCTTCATTATAGAACTTGGCTT 58.092 33.333 5.23 0.00 34.68 4.35
3328 5046 8.457238 GGAATTCTTCATTATAGAACTTGGCT 57.543 34.615 5.23 0.00 34.68 4.75


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

AutoCloner maintained by Alex Coulton.