Multiple sequence alignment - TraesCS3D01G491200

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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 TraesCS3D01G491200 chr3D 100.000 3149 0 0 1 3149 584930790 584933938 0.000000e+00 5816.0
1 TraesCS3D01G491200 chr3D 95.918 98 3 1 3042 3138 85450181 85450278 1.170000e-34 158.0
2 TraesCS3D01G491200 chr7A 91.693 2504 133 26 562 3006 14821920 14819433 0.000000e+00 3402.0
3 TraesCS3D01G491200 chr7A 87.305 961 116 4 1315 2272 14773843 14772886 0.000000e+00 1094.0
4 TraesCS3D01G491200 chr7A 86.667 840 87 15 788 1610 5150878 5151709 0.000000e+00 907.0
5 TraesCS3D01G491200 chr7A 87.275 668 78 5 1608 2272 5153002 5153665 0.000000e+00 756.0
6 TraesCS3D01G491200 chr7A 79.731 967 175 16 1243 2203 91294516 91295467 0.000000e+00 680.0
7 TraesCS3D01G491200 chr7A 85.942 626 83 3 1649 2272 14745624 14746246 0.000000e+00 664.0
8 TraesCS3D01G491200 chr7A 80.421 618 76 27 721 1316 14774677 14774083 2.240000e-116 429.0
9 TraesCS3D01G491200 chr7A 80.916 524 71 18 721 1222 5171184 5171700 1.370000e-103 387.0
10 TraesCS3D01G491200 chr7A 95.789 95 4 0 3044 3138 80577370 80577276 1.510000e-33 154.0
11 TraesCS3D01G491200 chr7A 91.818 110 5 2 3044 3149 139106750 139106641 1.960000e-32 150.0
12 TraesCS3D01G491200 chr7A 83.041 171 13 5 562 719 14825848 14825681 1.180000e-29 141.0
13 TraesCS3D01G491200 chr7A 85.124 121 13 3 116 236 14827283 14827168 5.520000e-23 119.0
14 TraesCS3D01G491200 chr7D 93.390 2224 108 21 747 2965 15913518 15911329 0.000000e+00 3256.0
15 TraesCS3D01G491200 chr7D 87.043 1150 125 18 753 1886 15853469 15852328 0.000000e+00 1277.0
16 TraesCS3D01G491200 chr7D 87.606 589 27 16 1 553 15914692 15914114 2.650000e-180 641.0
17 TraesCS3D01G491200 chr7D 86.802 394 47 3 1881 2272 15840990 15840600 4.820000e-118 435.0
18 TraesCS3D01G491200 chr4A 93.282 2188 121 10 795 2971 719052329 719054501 0.000000e+00 3203.0
19 TraesCS3D01G491200 chr4A 88.363 1014 115 2 997 2009 719140751 719141762 0.000000e+00 1216.0
20 TraesCS3D01G491200 chr7B 88.162 1284 89 30 620 1864 711385645 711384386 0.000000e+00 1471.0
21 TraesCS3D01G491200 chr7B 94.406 572 31 1 1856 2426 711364133 711363562 0.000000e+00 878.0
22 TraesCS3D01G491200 chr7B 79.037 706 137 11 1345 2045 711433455 711432756 1.020000e-129 473.0
23 TraesCS3D01G491200 chr7B 87.967 241 18 6 2594 2833 711363234 711363004 1.110000e-69 274.0
24 TraesCS3D01G491200 chr7B 92.265 181 13 1 2428 2607 711363456 711363276 4.030000e-64 255.0
25 TraesCS3D01G491200 chr7B 96.774 93 2 1 2880 2971 711362989 711362897 1.510000e-33 154.0
26 TraesCS3D01G491200 chr7B 88.000 125 7 5 3033 3149 339217324 339217448 1.180000e-29 141.0
27 TraesCS3D01G491200 chr7B 82.178 101 14 4 253 352 144814188 144814091 2.010000e-12 84.2
28 TraesCS3D01G491200 chr6A 80.567 247 39 4 1977 2222 571025831 571025593 6.940000e-42 182.0
29 TraesCS3D01G491200 chr6A 90.909 44 1 1 309 352 178878916 178878876 4.390000e-04 56.5
30 TraesCS3D01G491200 chr2A 92.793 111 5 1 3040 3147 725100195 725100085 1.170000e-34 158.0
31 TraesCS3D01G491200 chr1A 92.727 110 4 2 3044 3149 239894841 239894950 4.210000e-34 156.0
32 TraesCS3D01G491200 chr5D 92.593 108 4 1 3046 3149 77030280 77030387 5.440000e-33 152.0
33 TraesCS3D01G491200 chr5D 93.478 46 1 2 254 298 298134533 298134577 2.030000e-07 67.6
34 TraesCS3D01G491200 chr5A 91.304 115 5 3 3040 3149 661208280 661208166 5.440000e-33 152.0
35 TraesCS3D01G491200 chr5A 95.918 49 1 1 254 301 388167969 388167921 9.360000e-11 78.7
36 TraesCS3D01G491200 chr3A 91.743 109 5 2 3045 3149 683525793 683525685 7.040000e-32 148.0
37 TraesCS3D01G491200 chr3A 85.075 67 3 4 308 373 369461613 369461673 9.430000e-06 62.1
38 TraesCS3D01G491200 chr3B 88.119 101 8 4 254 353 414024448 414024545 1.980000e-22 117.0
39 TraesCS3D01G491200 chr3B 84.158 101 10 4 254 352 116685430 116685334 3.340000e-15 93.5
40 TraesCS3D01G491200 chr3B 94.286 35 2 0 325 359 644679762 644679728 2.000000e-03 54.7
41 TraesCS3D01G491200 chr4B 84.685 111 9 7 254 360 623322717 623322611 1.540000e-18 104.0
42 TraesCS3D01G491200 chr5B 82.022 89 12 3 269 357 589823577 589823493 4.360000e-09 73.1
43 TraesCS3D01G491200 chr2B 100.000 28 0 0 253 280 411524530 411524503 6.000000e-03 52.8


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 TraesCS3D01G491200 chr3D 584930790 584933938 3148 False 5816.000000 5816 100.000000 1 3149 1 chr3D.!!$F2 3148
1 TraesCS3D01G491200 chr7A 14819433 14827283 7850 True 1220.666667 3402 86.619333 116 3006 3 chr7A.!!$R4 2890
2 TraesCS3D01G491200 chr7A 5150878 5153665 2787 False 831.500000 907 86.971000 788 2272 2 chr7A.!!$F4 1484
3 TraesCS3D01G491200 chr7A 14772886 14774677 1791 True 761.500000 1094 83.863000 721 2272 2 chr7A.!!$R3 1551
4 TraesCS3D01G491200 chr7A 91294516 91295467 951 False 680.000000 680 79.731000 1243 2203 1 chr7A.!!$F3 960
5 TraesCS3D01G491200 chr7A 14745624 14746246 622 False 664.000000 664 85.942000 1649 2272 1 chr7A.!!$F2 623
6 TraesCS3D01G491200 chr7A 5171184 5171700 516 False 387.000000 387 80.916000 721 1222 1 chr7A.!!$F1 501
7 TraesCS3D01G491200 chr7D 15911329 15914692 3363 True 1948.500000 3256 90.498000 1 2965 2 chr7D.!!$R3 2964
8 TraesCS3D01G491200 chr7D 15852328 15853469 1141 True 1277.000000 1277 87.043000 753 1886 1 chr7D.!!$R2 1133
9 TraesCS3D01G491200 chr4A 719052329 719054501 2172 False 3203.000000 3203 93.282000 795 2971 1 chr4A.!!$F1 2176
10 TraesCS3D01G491200 chr4A 719140751 719141762 1011 False 1216.000000 1216 88.363000 997 2009 1 chr4A.!!$F2 1012
11 TraesCS3D01G491200 chr7B 711384386 711385645 1259 True 1471.000000 1471 88.162000 620 1864 1 chr7B.!!$R2 1244
12 TraesCS3D01G491200 chr7B 711432756 711433455 699 True 473.000000 473 79.037000 1345 2045 1 chr7B.!!$R3 700
13 TraesCS3D01G491200 chr7B 711362897 711364133 1236 True 390.250000 878 92.853000 1856 2971 4 chr7B.!!$R4 1115

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
995 6460 0.107643 TGCTCCATTTGTGTCACCGA 59.892 50.0 0.00 0.0 0.00 4.69 F
1550 7262 0.634731 CGGATCGCGCAATTTGTTTG 59.365 50.0 8.75 0.0 38.43 2.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1907 8915 2.545952 GCTTGACTTCTCTTGTCGGTGA 60.546 50.0 0.0 0.0 37.26 4.02 R
3123 10309 0.106669 GCCCCCACTGTAATTCCCTC 60.107 60.0 0.0 0.0 0.00 4.30 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
25 26 2.761195 CGTCGTCGCCATCTCCTCA 61.761 63.158 0.00 0.00 0.00 3.86
63 68 5.474532 GTCCGTCAGGTATACATATACACCA 59.525 44.000 5.01 0.00 40.16 4.17
64 69 5.474532 TCCGTCAGGTATACATATACACCAC 59.525 44.000 5.01 3.57 40.16 4.16
81 86 1.622725 CCACCCCTAGCTAGGTCAACT 60.623 57.143 33.00 11.56 42.03 3.16
83 88 1.078989 ACCCCTAGCTAGGTCAACTGT 59.921 52.381 33.00 18.65 42.03 3.55
87 92 4.475345 CCCTAGCTAGGTCAACTGTATCT 58.525 47.826 33.00 0.00 42.03 1.98
98 103 5.106515 GGTCAACTGTATCTTGCCTTTTCTC 60.107 44.000 0.00 0.00 0.00 2.87
111 116 1.557371 CTTTTCTCCCCTGTCCCTCTC 59.443 57.143 0.00 0.00 0.00 3.20
128 133 3.431486 CCTCTCTGTACTTCCATGGCTTC 60.431 52.174 6.96 0.00 0.00 3.86
197 212 1.202336 GGTGCATGCAAGAACCATAGC 60.202 52.381 24.58 5.44 32.69 2.97
201 216 2.372264 CATGCAAGAACCATAGCAGGT 58.628 47.619 0.00 0.00 45.91 4.00
227 248 6.853490 AGGAGGATTAGGAAAAAGAAACACT 58.147 36.000 0.00 0.00 0.00 3.55
296 317 2.143925 GTCGCAGCTTTGAACTAAGGT 58.856 47.619 0.00 0.00 36.35 3.50
297 318 2.548480 GTCGCAGCTTTGAACTAAGGTT 59.452 45.455 0.00 0.00 38.52 3.50
298 319 3.003378 GTCGCAGCTTTGAACTAAGGTTT 59.997 43.478 0.00 0.00 35.58 3.27
299 320 3.003275 TCGCAGCTTTGAACTAAGGTTTG 59.997 43.478 0.00 0.00 35.58 2.93
300 321 3.243068 CGCAGCTTTGAACTAAGGTTTGT 60.243 43.478 0.00 0.00 35.58 2.83
322 343 6.572519 TGTTCAAATTTAGTTCAAAGCTGCT 58.427 32.000 0.00 0.00 0.00 4.24
323 344 6.476380 TGTTCAAATTTAGTTCAAAGCTGCTG 59.524 34.615 1.35 0.00 0.00 4.41
324 345 4.984161 TCAAATTTAGTTCAAAGCTGCTGC 59.016 37.500 1.35 7.62 40.05 5.25
341 362 5.070770 TGCTGCGACATTTATTTTGGATT 57.929 34.783 0.00 0.00 0.00 3.01
369 390 5.396884 GGGAGTATCATATTATCCAGGGTGC 60.397 48.000 0.00 0.00 36.25 5.01
411 1481 5.434408 CAAAGAGATCAGATCACCAATGGA 58.566 41.667 6.16 0.00 0.00 3.41
414 1484 4.344679 AGAGATCAGATCACCAATGGAGAC 59.655 45.833 6.16 0.00 0.00 3.36
462 1534 4.118410 GAGATGCAACGATTCAGAGACAT 58.882 43.478 0.00 0.00 0.00 3.06
463 1535 4.118410 AGATGCAACGATTCAGAGACATC 58.882 43.478 0.00 0.00 34.32 3.06
464 1536 3.317603 TGCAACGATTCAGAGACATCA 57.682 42.857 0.00 0.00 0.00 3.07
466 1538 2.995939 GCAACGATTCAGAGACATCACA 59.004 45.455 0.00 0.00 0.00 3.58
467 1539 3.181526 GCAACGATTCAGAGACATCACAC 60.182 47.826 0.00 0.00 0.00 3.82
468 1540 3.942130 ACGATTCAGAGACATCACACA 57.058 42.857 0.00 0.00 0.00 3.72
480 1574 2.294979 CATCACACATGCTGGCTACAT 58.705 47.619 0.00 0.00 0.00 2.29
483 1577 1.669265 CACACATGCTGGCTACATCAG 59.331 52.381 0.00 0.00 35.49 2.90
548 1642 3.383761 CTTGGTGCATTGTTTCCTGAAC 58.616 45.455 0.00 0.00 38.78 3.18
564 1686 7.407393 TTCCTGAACAATTTGATCATATGCA 57.593 32.000 9.46 0.00 28.76 3.96
570 1692 9.471084 TGAACAATTTGATCATATGCATTCATC 57.529 29.630 3.54 4.92 34.22 2.92
578 1700 5.678132 TCATATGCATTCATCTTGTTCCG 57.322 39.130 3.54 0.00 34.22 4.30
615 1738 0.743345 GTACTAAAGTGCAGCCCCCG 60.743 60.000 0.00 0.00 0.00 5.73
616 1739 0.905809 TACTAAAGTGCAGCCCCCGA 60.906 55.000 0.00 0.00 0.00 5.14
618 1741 0.394352 CTAAAGTGCAGCCCCCGAAT 60.394 55.000 0.00 0.00 0.00 3.34
634 2092 1.879380 CGAATGCCTTGTTTCACCAGA 59.121 47.619 0.00 0.00 0.00 3.86
639 2097 1.807142 GCCTTGTTTCACCAGAGCTAC 59.193 52.381 0.00 0.00 0.00 3.58
642 2100 4.624125 GCCTTGTTTCACCAGAGCTACTAT 60.624 45.833 0.00 0.00 0.00 2.12
643 2101 4.872691 CCTTGTTTCACCAGAGCTACTATG 59.127 45.833 0.00 0.00 0.00 2.23
644 2102 5.482908 CTTGTTTCACCAGAGCTACTATGT 58.517 41.667 0.00 0.00 0.00 2.29
676 2134 2.744202 GGCAATTCGTCTGAGTTCATGT 59.256 45.455 0.00 0.00 0.00 3.21
677 2135 3.425359 GGCAATTCGTCTGAGTTCATGTG 60.425 47.826 0.00 0.00 0.00 3.21
715 2173 4.421554 CAGGGGAGGCTGGAGGGA 62.422 72.222 0.00 0.00 0.00 4.20
718 2176 4.423209 GGGAGGCTGGAGGGAGGT 62.423 72.222 0.00 0.00 0.00 3.85
719 2177 2.766229 GGAGGCTGGAGGGAGGTC 60.766 72.222 0.00 0.00 0.00 3.85
731 2218 4.200092 GGAGGGAGGTCATTGTTGTTATC 58.800 47.826 0.00 0.00 0.00 1.75
732 2219 3.871594 GAGGGAGGTCATTGTTGTTATCG 59.128 47.826 0.00 0.00 0.00 2.92
758 2258 9.778741 GTCCAGGACACATTAATTATTAGATGA 57.221 33.333 15.43 0.00 32.09 2.92
779 6207 6.099159 TGAAAATCCAATGTTGCTGAATCA 57.901 33.333 0.00 0.00 0.00 2.57
809 6237 0.250124 TCGCGTCACTGGGATTTTGT 60.250 50.000 5.77 0.00 0.00 2.83
810 6238 1.001068 TCGCGTCACTGGGATTTTGTA 59.999 47.619 5.77 0.00 0.00 2.41
811 6239 1.801771 CGCGTCACTGGGATTTTGTAA 59.198 47.619 0.00 0.00 0.00 2.41
860 6293 8.156820 TGTGCCTATTACAACTAGCATATCAAT 58.843 33.333 0.00 0.00 0.00 2.57
861 6294 8.660373 GTGCCTATTACAACTAGCATATCAATC 58.340 37.037 0.00 0.00 0.00 2.67
892 6336 6.153067 ACTGATCACTCTCTGTTACTTTTCG 58.847 40.000 0.00 0.00 0.00 3.46
919 6371 6.920569 ATTCGGTCCATTGTTCTAATACAC 57.079 37.500 0.00 0.00 0.00 2.90
995 6460 0.107643 TGCTCCATTTGTGTCACCGA 59.892 50.000 0.00 0.00 0.00 4.69
1015 6485 2.346803 ACACCATGTACAGATTGCGAC 58.653 47.619 0.33 0.00 0.00 5.19
1199 6670 0.739462 CCTATGTGCTTTCCGCGTCA 60.739 55.000 4.92 0.00 43.27 4.35
1218 6689 3.881688 GTCATCCTCCCATGATCAACAAG 59.118 47.826 0.00 0.00 35.23 3.16
1226 6697 3.614092 CCATGATCAACAAGCTGGTACT 58.386 45.455 0.00 0.00 0.00 2.73
1293 6764 2.553904 CCAGTGCTGTCAGATTCCCTTT 60.554 50.000 3.32 0.00 0.00 3.11
1299 6770 3.563390 GCTGTCAGATTCCCTTTCATAGC 59.437 47.826 3.32 0.00 0.00 2.97
1301 6772 5.374921 CTGTCAGATTCCCTTTCATAGCAT 58.625 41.667 0.00 0.00 0.00 3.79
1364 7076 2.328099 CGCTTCAGTGGTGCTTCCC 61.328 63.158 6.68 0.00 34.77 3.97
1402 7114 8.585471 TTTTCTCAAGAGATAAATCATGCCTT 57.415 30.769 0.00 0.00 37.29 4.35
1488 7200 1.679944 GCCCTTCTATGCTGCACTCAA 60.680 52.381 3.57 0.00 0.00 3.02
1550 7262 0.634731 CGGATCGCGCAATTTGTTTG 59.365 50.000 8.75 0.00 38.43 2.93
1551 7263 1.696988 GGATCGCGCAATTTGTTTGT 58.303 45.000 8.75 0.00 37.65 2.83
1680 8688 2.418368 TCAAAGTGCAGTTGACACCT 57.582 45.000 7.73 0.00 38.87 4.00
1709 8717 9.516314 GATTTGCATAAAGGAAATACCAGTTAC 57.484 33.333 0.00 0.00 46.59 2.50
1907 8915 5.813383 AGAGAATTGGGCGATATTCATCAT 58.187 37.500 0.00 0.00 34.06 2.45
2055 9064 2.626467 GGGAAATGGGCCCACCTCT 61.626 63.158 31.51 8.67 45.31 3.69
2479 9605 5.338708 GGATAGGAGGGATGATGTACATTGG 60.339 48.000 10.30 0.00 39.56 3.16
2493 9619 5.655488 TGTACATTGGAACCTTTTGTGTTG 58.345 37.500 0.00 0.00 0.00 3.33
2693 9878 7.487484 TCTCTTAACAATTGCATTTCACACAA 58.513 30.769 5.05 0.00 0.00 3.33
2696 9881 9.755804 TCTTAACAATTGCATTTCACACAATAA 57.244 25.926 5.05 0.00 33.01 1.40
2719 9904 2.637382 TGCATGTGGTAGTCTCCTGAAA 59.363 45.455 0.00 0.00 0.00 2.69
2739 9924 7.040409 CCTGAAAACTAGTGGCTTACAAATCTT 60.040 37.037 0.00 0.00 0.00 2.40
2769 9954 1.586154 GGTCTCACAATGGCCGGTTG 61.586 60.000 16.62 16.62 0.00 3.77
2992 10178 1.630148 GCATCGTCGTGCTTAAGAGT 58.370 50.000 6.67 0.00 41.82 3.24
2993 10179 1.584308 GCATCGTCGTGCTTAAGAGTC 59.416 52.381 6.67 0.00 41.82 3.36
2994 10180 1.840741 CATCGTCGTGCTTAAGAGTCG 59.159 52.381 6.67 7.29 0.00 4.18
2995 10181 1.150827 TCGTCGTGCTTAAGAGTCGA 58.849 50.000 6.67 9.51 32.43 4.20
2996 10182 1.736126 TCGTCGTGCTTAAGAGTCGAT 59.264 47.619 6.67 0.00 35.35 3.59
2997 10183 2.931969 TCGTCGTGCTTAAGAGTCGATA 59.068 45.455 6.67 3.24 35.35 2.92
2998 10184 3.558829 TCGTCGTGCTTAAGAGTCGATAT 59.441 43.478 6.67 0.00 35.35 1.63
2999 10185 3.901290 CGTCGTGCTTAAGAGTCGATATC 59.099 47.826 6.67 0.00 35.35 1.63
3000 10186 4.552184 CGTCGTGCTTAAGAGTCGATATCA 60.552 45.833 6.67 0.00 35.35 2.15
3001 10187 4.907010 GTCGTGCTTAAGAGTCGATATCAG 59.093 45.833 6.67 0.00 35.35 2.90
3002 10188 3.666334 CGTGCTTAAGAGTCGATATCAGC 59.334 47.826 6.67 2.20 0.00 4.26
3003 10189 4.611943 GTGCTTAAGAGTCGATATCAGCA 58.388 43.478 6.67 4.87 33.69 4.41
3004 10190 4.442733 GTGCTTAAGAGTCGATATCAGCAC 59.557 45.833 18.85 18.85 46.45 4.40
3005 10191 4.097892 TGCTTAAGAGTCGATATCAGCACA 59.902 41.667 6.67 0.00 31.17 4.57
3006 10192 4.679197 GCTTAAGAGTCGATATCAGCACAG 59.321 45.833 6.67 0.00 0.00 3.66
3007 10193 5.734786 GCTTAAGAGTCGATATCAGCACAGT 60.735 44.000 6.67 0.00 0.00 3.55
3008 10194 3.706802 AGAGTCGATATCAGCACAGTG 57.293 47.619 3.12 0.00 0.00 3.66
3009 10195 3.282885 AGAGTCGATATCAGCACAGTGA 58.717 45.455 4.15 0.00 0.00 3.41
3010 10196 3.696548 AGAGTCGATATCAGCACAGTGAA 59.303 43.478 4.15 0.00 0.00 3.18
3011 10197 4.158579 AGAGTCGATATCAGCACAGTGAAA 59.841 41.667 4.15 0.00 0.00 2.69
3012 10198 4.820897 AGTCGATATCAGCACAGTGAAAA 58.179 39.130 4.15 0.00 0.00 2.29
3013 10199 5.237815 AGTCGATATCAGCACAGTGAAAAA 58.762 37.500 4.15 0.00 0.00 1.94
3014 10200 5.877012 AGTCGATATCAGCACAGTGAAAAAT 59.123 36.000 4.15 0.00 0.00 1.82
3015 10201 7.041721 AGTCGATATCAGCACAGTGAAAAATA 58.958 34.615 4.15 0.00 0.00 1.40
3016 10202 7.010552 AGTCGATATCAGCACAGTGAAAAATAC 59.989 37.037 4.15 0.00 0.00 1.89
3017 10203 7.010552 GTCGATATCAGCACAGTGAAAAATACT 59.989 37.037 4.15 0.00 0.00 2.12
3018 10204 7.222805 TCGATATCAGCACAGTGAAAAATACTC 59.777 37.037 4.15 0.00 0.00 2.59
3019 10205 7.223582 CGATATCAGCACAGTGAAAAATACTCT 59.776 37.037 4.15 0.00 0.00 3.24
3020 10206 5.929697 TCAGCACAGTGAAAAATACTCTG 57.070 39.130 4.15 0.00 35.75 3.35
3023 10209 4.072131 GCACAGTGAAAAATACTCTGGGA 58.928 43.478 4.15 0.00 35.24 4.37
3038 10224 1.741706 CTGGGATCAACATCAGCACAC 59.258 52.381 0.00 0.00 0.00 3.82
3039 10225 1.073603 TGGGATCAACATCAGCACACA 59.926 47.619 0.00 0.00 0.00 3.72
3040 10226 2.161855 GGGATCAACATCAGCACACAA 58.838 47.619 0.00 0.00 0.00 3.33
3041 10227 2.756760 GGGATCAACATCAGCACACAAT 59.243 45.455 0.00 0.00 0.00 2.71
3042 10228 3.194116 GGGATCAACATCAGCACACAATT 59.806 43.478 0.00 0.00 0.00 2.32
3043 10229 4.322198 GGGATCAACATCAGCACACAATTT 60.322 41.667 0.00 0.00 0.00 1.82
3044 10230 5.232463 GGATCAACATCAGCACACAATTTT 58.768 37.500 0.00 0.00 0.00 1.82
3045 10231 5.697633 GGATCAACATCAGCACACAATTTTT 59.302 36.000 0.00 0.00 0.00 1.94
3066 10252 3.505464 TTTTTCGGGAAAACGCAAGAA 57.495 38.095 6.11 0.00 39.70 2.52
3067 10253 2.766970 TTTCGGGAAAACGCAAGAAG 57.233 45.000 0.00 0.00 43.62 2.85
3068 10254 1.956297 TTCGGGAAAACGCAAGAAGA 58.044 45.000 0.00 0.00 43.62 2.87
3069 10255 1.508632 TCGGGAAAACGCAAGAAGAG 58.491 50.000 0.00 0.00 43.62 2.85
3070 10256 0.110192 CGGGAAAACGCAAGAAGAGC 60.110 55.000 0.00 0.00 43.62 4.09
3071 10257 1.239347 GGGAAAACGCAAGAAGAGCT 58.761 50.000 0.00 0.00 43.62 4.09
3072 10258 1.609072 GGGAAAACGCAAGAAGAGCTT 59.391 47.619 0.00 0.00 43.62 3.74
3084 10270 6.866179 CAAGAAGAGCTTGCATTTCATTAC 57.134 37.500 0.00 0.00 46.67 1.89
3085 10271 6.618811 CAAGAAGAGCTTGCATTTCATTACT 58.381 36.000 0.00 0.00 46.67 2.24
3086 10272 6.830873 AGAAGAGCTTGCATTTCATTACTT 57.169 33.333 0.00 0.00 0.00 2.24
3087 10273 7.224522 AGAAGAGCTTGCATTTCATTACTTT 57.775 32.000 0.00 0.00 0.00 2.66
3088 10274 7.088905 AGAAGAGCTTGCATTTCATTACTTTG 58.911 34.615 0.00 0.00 0.00 2.77
3089 10275 5.717119 AGAGCTTGCATTTCATTACTTTGG 58.283 37.500 0.00 0.00 0.00 3.28
3090 10276 5.477984 AGAGCTTGCATTTCATTACTTTGGA 59.522 36.000 0.00 0.00 0.00 3.53
3091 10277 6.015180 AGAGCTTGCATTTCATTACTTTGGAA 60.015 34.615 0.00 0.00 0.00 3.53
3092 10278 6.523840 AGCTTGCATTTCATTACTTTGGAAA 58.476 32.000 0.00 0.00 35.27 3.13
3093 10279 6.647895 AGCTTGCATTTCATTACTTTGGAAAG 59.352 34.615 0.00 0.00 41.73 2.62
3094 10280 6.128472 GCTTGCATTTCATTACTTTGGAAAGG 60.128 38.462 4.23 0.00 40.31 3.11
3095 10281 6.662865 TGCATTTCATTACTTTGGAAAGGA 57.337 33.333 4.23 0.00 40.31 3.36
3096 10282 7.060383 TGCATTTCATTACTTTGGAAAGGAA 57.940 32.000 0.00 0.00 42.66 3.36
3097 10283 7.153985 TGCATTTCATTACTTTGGAAAGGAAG 58.846 34.615 3.28 0.00 41.83 3.46
3098 10284 6.591448 GCATTTCATTACTTTGGAAAGGAAGG 59.409 38.462 2.88 2.88 41.83 3.46
3099 10285 7.525360 GCATTTCATTACTTTGGAAAGGAAGGA 60.525 37.037 7.24 7.24 45.01 3.36
3102 10288 6.610830 TCATTACTTTGGAAAGGAAGGAAGT 58.389 36.000 8.61 0.00 44.09 3.01
3103 10289 7.066781 TCATTACTTTGGAAAGGAAGGAAGTT 58.933 34.615 8.61 0.00 44.09 2.66
3104 10290 7.563556 TCATTACTTTGGAAAGGAAGGAAGTTT 59.436 33.333 8.61 0.00 44.09 2.66
3105 10291 5.854010 ACTTTGGAAAGGAAGGAAGTTTC 57.146 39.130 4.23 0.00 40.31 2.78
3106 10292 4.338400 ACTTTGGAAAGGAAGGAAGTTTCG 59.662 41.667 4.23 0.00 40.31 3.46
3107 10293 2.858745 TGGAAAGGAAGGAAGTTTCGG 58.141 47.619 0.00 0.00 32.03 4.30
3108 10294 2.173996 TGGAAAGGAAGGAAGTTTCGGT 59.826 45.455 0.00 0.00 32.03 4.69
3109 10295 3.220110 GGAAAGGAAGGAAGTTTCGGTT 58.780 45.455 0.00 0.00 32.03 4.44
3110 10296 4.141436 TGGAAAGGAAGGAAGTTTCGGTTA 60.141 41.667 0.00 0.00 32.03 2.85
3111 10297 4.214971 GGAAAGGAAGGAAGTTTCGGTTAC 59.785 45.833 0.00 0.00 32.03 2.50
3112 10298 4.426736 AAGGAAGGAAGTTTCGGTTACA 57.573 40.909 0.00 0.00 0.00 2.41
3113 10299 4.426736 AGGAAGGAAGTTTCGGTTACAA 57.573 40.909 0.00 0.00 0.00 2.41
3114 10300 4.981812 AGGAAGGAAGTTTCGGTTACAAT 58.018 39.130 0.00 0.00 0.00 2.71
3115 10301 5.001874 AGGAAGGAAGTTTCGGTTACAATC 58.998 41.667 0.00 0.00 0.00 2.67
3116 10302 4.155462 GGAAGGAAGTTTCGGTTACAATCC 59.845 45.833 0.00 0.00 0.00 3.01
3117 10303 4.635699 AGGAAGTTTCGGTTACAATCCT 57.364 40.909 0.00 0.00 32.51 3.24
3118 10304 4.576879 AGGAAGTTTCGGTTACAATCCTC 58.423 43.478 0.00 0.00 32.10 3.71
3119 10305 3.688185 GGAAGTTTCGGTTACAATCCTCC 59.312 47.826 0.00 0.00 0.00 4.30
3120 10306 4.565028 GGAAGTTTCGGTTACAATCCTCCT 60.565 45.833 0.00 0.00 0.00 3.69
3121 10307 5.337813 GGAAGTTTCGGTTACAATCCTCCTA 60.338 44.000 0.00 0.00 0.00 2.94
3122 10308 5.340439 AGTTTCGGTTACAATCCTCCTAG 57.660 43.478 0.00 0.00 0.00 3.02
3123 10309 4.161754 AGTTTCGGTTACAATCCTCCTAGG 59.838 45.833 0.82 0.82 36.46 3.02
3137 10323 4.946478 CTCCTAGGAGGGAATTACAGTG 57.054 50.000 28.68 1.14 38.51 3.66
3138 10324 3.643792 CTCCTAGGAGGGAATTACAGTGG 59.356 52.174 28.68 0.69 38.51 4.00
3139 10325 2.706190 CCTAGGAGGGAATTACAGTGGG 59.294 54.545 1.05 0.00 0.00 4.61
3140 10326 1.596496 AGGAGGGAATTACAGTGGGG 58.404 55.000 0.00 0.00 0.00 4.96
3141 10327 0.551396 GGAGGGAATTACAGTGGGGG 59.449 60.000 0.00 0.00 0.00 5.40
3142 10328 0.106669 GAGGGAATTACAGTGGGGGC 60.107 60.000 0.00 0.00 0.00 5.80
3143 10329 0.849094 AGGGAATTACAGTGGGGGCA 60.849 55.000 0.00 0.00 0.00 5.36
3144 10330 0.261696 GGGAATTACAGTGGGGGCAT 59.738 55.000 0.00 0.00 0.00 4.40
3145 10331 1.497286 GGGAATTACAGTGGGGGCATA 59.503 52.381 0.00 0.00 0.00 3.14
3146 10332 2.110011 GGGAATTACAGTGGGGGCATAT 59.890 50.000 0.00 0.00 0.00 1.78
3147 10333 3.421844 GGAATTACAGTGGGGGCATATC 58.578 50.000 0.00 0.00 0.00 1.63
3148 10334 3.181434 GGAATTACAGTGGGGGCATATCA 60.181 47.826 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 0.965866 AACTGAGGAGATGGCGACGA 60.966 55.000 0.00 0.00 0.00 4.20
25 26 1.538950 GACGGACGACCAGTAGAAACT 59.461 52.381 4.48 0.00 35.91 2.66
35 36 1.382522 TGTATACCTGACGGACGACC 58.617 55.000 0.00 0.00 0.00 4.79
37 38 5.409520 GTGTATATGTATACCTGACGGACGA 59.590 44.000 0.00 0.00 38.17 4.20
81 86 2.919602 AGGGGAGAAAAGGCAAGATACA 59.080 45.455 0.00 0.00 0.00 2.29
83 88 2.919602 ACAGGGGAGAAAAGGCAAGATA 59.080 45.455 0.00 0.00 0.00 1.98
87 92 0.112412 GGACAGGGGAGAAAAGGCAA 59.888 55.000 0.00 0.00 0.00 4.52
98 103 0.336737 AGTACAGAGAGGGACAGGGG 59.663 60.000 0.00 0.00 0.00 4.79
111 116 3.196469 TGAGAGAAGCCATGGAAGTACAG 59.804 47.826 18.40 0.00 0.00 2.74
128 133 2.552031 CACACAGATGAGCCATGAGAG 58.448 52.381 0.00 0.00 0.00 3.20
136 141 0.035317 TCCACACCACACAGATGAGC 59.965 55.000 0.00 0.00 0.00 4.26
197 212 6.958767 TCTTTTTCCTAATCCTCCTAACCTG 58.041 40.000 0.00 0.00 0.00 4.00
201 216 8.445588 AGTGTTTCTTTTTCCTAATCCTCCTAA 58.554 33.333 0.00 0.00 0.00 2.69
277 298 2.543777 ACCTTAGTTCAAAGCTGCGA 57.456 45.000 0.00 0.00 0.00 5.10
296 317 7.548780 AGCAGCTTTGAACTAAATTTGAACAAA 59.451 29.630 0.00 2.48 34.46 2.83
297 318 7.010367 CAGCAGCTTTGAACTAAATTTGAACAA 59.990 33.333 0.00 0.05 0.00 2.83
298 319 6.476380 CAGCAGCTTTGAACTAAATTTGAACA 59.524 34.615 0.00 0.00 0.00 3.18
299 320 6.562825 GCAGCAGCTTTGAACTAAATTTGAAC 60.563 38.462 0.00 0.00 37.91 3.18
300 321 5.463061 GCAGCAGCTTTGAACTAAATTTGAA 59.537 36.000 0.00 0.00 37.91 2.69
322 343 5.394005 CCTCCAATCCAAAATAAATGTCGCA 60.394 40.000 0.00 0.00 0.00 5.10
323 344 5.043248 CCTCCAATCCAAAATAAATGTCGC 58.957 41.667 0.00 0.00 0.00 5.19
324 345 5.359576 TCCCTCCAATCCAAAATAAATGTCG 59.640 40.000 0.00 0.00 0.00 4.35
341 362 6.205298 CCTGGATAATATGATACTCCCTCCA 58.795 44.000 0.00 0.00 0.00 3.86
369 390 1.501741 CCAATCGGCAAGGACAACG 59.498 57.895 0.00 0.00 0.00 4.10
391 1461 4.344679 GTCTCCATTGGTGATCTGATCTCT 59.655 45.833 17.82 0.00 0.00 3.10
462 1534 1.278699 TGATGTAGCCAGCATGTGTGA 59.721 47.619 0.00 0.00 30.62 3.58
463 1535 1.669265 CTGATGTAGCCAGCATGTGTG 59.331 52.381 0.00 0.00 36.20 3.82
464 1536 2.034104 CTGATGTAGCCAGCATGTGT 57.966 50.000 0.00 0.00 36.20 3.72
480 1574 2.429971 CAGATGGCTTAGTCTCTGCTGA 59.570 50.000 1.68 0.00 0.00 4.26
548 1642 9.476202 ACAAGATGAATGCATATGATCAAATTG 57.524 29.630 6.97 16.97 34.11 2.32
558 1680 5.589855 TGAACGGAACAAGATGAATGCATAT 59.410 36.000 0.00 0.00 34.11 1.78
560 1682 3.758023 TGAACGGAACAAGATGAATGCAT 59.242 39.130 0.00 0.00 37.47 3.96
564 1686 3.129287 GGCATGAACGGAACAAGATGAAT 59.871 43.478 0.00 0.00 0.00 2.57
570 1692 0.240945 GGTGGCATGAACGGAACAAG 59.759 55.000 0.00 0.00 0.00 3.16
578 1700 2.964978 GGCTGTGGTGGCATGAAC 59.035 61.111 0.00 0.00 0.00 3.18
615 1738 2.352127 GCTCTGGTGAAACAAGGCATTC 60.352 50.000 0.00 0.00 38.85 2.67
616 1739 1.615392 GCTCTGGTGAAACAAGGCATT 59.385 47.619 0.00 0.00 38.85 3.56
618 1741 0.183492 AGCTCTGGTGAAACAAGGCA 59.817 50.000 0.00 0.00 38.85 4.75
634 2092 5.833667 TGCCTACTGATGTTACATAGTAGCT 59.166 40.000 22.19 0.00 40.63 3.32
639 2097 6.701841 ACGAATTGCCTACTGATGTTACATAG 59.298 38.462 0.00 0.00 0.00 2.23
642 2100 4.827692 ACGAATTGCCTACTGATGTTACA 58.172 39.130 0.00 0.00 0.00 2.41
643 2101 5.005779 CAGACGAATTGCCTACTGATGTTAC 59.994 44.000 0.00 0.00 0.00 2.50
644 2102 5.105513 TCAGACGAATTGCCTACTGATGTTA 60.106 40.000 0.00 0.00 31.02 2.41
676 2134 3.319689 GCAGCCTAAACCTTTAAACACCA 59.680 43.478 0.00 0.00 0.00 4.17
677 2135 3.319689 TGCAGCCTAAACCTTTAAACACC 59.680 43.478 0.00 0.00 0.00 4.16
714 2172 4.250464 TGGACGATAACAACAATGACCTC 58.750 43.478 0.00 0.00 0.00 3.85
715 2173 4.253685 CTGGACGATAACAACAATGACCT 58.746 43.478 0.00 0.00 0.00 3.85
717 2175 4.092968 GTCCTGGACGATAACAACAATGAC 59.907 45.833 11.71 0.00 0.00 3.06
718 2176 4.250464 GTCCTGGACGATAACAACAATGA 58.750 43.478 11.71 0.00 0.00 2.57
719 2177 4.000325 TGTCCTGGACGATAACAACAATG 59.000 43.478 21.15 0.00 34.95 2.82
731 2218 8.712363 CATCTAATAATTAATGTGTCCTGGACG 58.288 37.037 21.15 2.67 34.95 4.79
732 2219 9.778741 TCATCTAATAATTAATGTGTCCTGGAC 57.221 33.333 19.96 19.96 0.00 4.02
758 2258 5.353123 GCATGATTCAGCAACATTGGATTTT 59.647 36.000 0.00 0.00 0.00 1.82
772 2272 3.605461 CGCGATAAACTGGCATGATTCAG 60.605 47.826 0.00 3.17 37.07 3.02
773 2273 2.287644 CGCGATAAACTGGCATGATTCA 59.712 45.455 0.00 0.00 0.00 2.57
779 6207 1.006832 GTGACGCGATAAACTGGCAT 58.993 50.000 15.93 0.00 0.00 4.40
860 6293 5.565509 ACAGAGAGTGATCAGTACAAGAGA 58.434 41.667 2.17 0.00 0.00 3.10
861 6294 5.895636 ACAGAGAGTGATCAGTACAAGAG 57.104 43.478 2.17 0.00 0.00 2.85
892 6336 6.937436 ATTAGAACAATGGACCGAATAACC 57.063 37.500 0.00 0.00 0.00 2.85
919 6371 1.608590 ACAGATCACCAAACAAAGGCG 59.391 47.619 0.00 0.00 0.00 5.52
955 6418 2.087646 GGCCTTCTCCTTGCAAGTAAG 58.912 52.381 24.35 21.26 0.00 2.34
995 6460 2.346803 GTCGCAATCTGTACATGGTGT 58.653 47.619 0.00 0.00 0.00 4.16
1123 6594 1.073199 CCAAGGTGGAGAAAGCGGT 59.927 57.895 0.00 0.00 40.96 5.68
1199 6670 2.512896 AGCTTGTTGATCATGGGAGGAT 59.487 45.455 0.00 0.00 0.00 3.24
1218 6689 0.107848 ATGGCCGTGTTAGTACCAGC 60.108 55.000 0.00 0.00 33.03 4.85
1343 7055 0.514691 GAAGCACCACTGAAGCGAAG 59.485 55.000 0.00 0.00 0.00 3.79
1364 7076 6.822170 TCTCTTGAGAAAATGAGATGACCATG 59.178 38.462 0.00 0.00 31.53 3.66
1402 7114 3.128415 CACCTGTGAACACATCAACAACA 59.872 43.478 8.09 0.00 40.50 3.33
1550 7262 4.331717 CCCAATATTGACTACCAACACGAC 59.668 45.833 17.23 0.00 37.63 4.34
1551 7263 4.020039 ACCCAATATTGACTACCAACACGA 60.020 41.667 17.23 0.00 37.63 4.35
1680 8688 7.615365 ACTGGTATTTCCTTTATGCAAATCTGA 59.385 33.333 0.00 0.00 37.07 3.27
1709 8717 3.459232 TCCTAATCATGCTTGACTCCG 57.541 47.619 4.14 0.00 33.85 4.63
1907 8915 2.545952 GCTTGACTTCTCTTGTCGGTGA 60.546 50.000 0.00 0.00 37.26 4.02
2435 9561 6.610075 ATCCAACTTCCAAATGTTGCTAAT 57.390 33.333 0.00 0.00 41.34 1.73
2479 9605 7.455447 CATTGAGAAAACAACACAAAAGGTTC 58.545 34.615 0.00 0.00 32.50 3.62
2493 9619 6.096001 ACATTGGGATCTAGCATTGAGAAAAC 59.904 38.462 0.00 0.00 0.00 2.43
2693 9878 5.130975 TCAGGAGACTACCACATGCAATTAT 59.869 40.000 0.00 0.00 40.21 1.28
2696 9881 2.840038 TCAGGAGACTACCACATGCAAT 59.160 45.455 0.00 0.00 40.21 3.56
2699 9884 3.334583 TTTCAGGAGACTACCACATGC 57.665 47.619 0.00 0.00 40.21 4.06
2719 9904 7.280205 CCGATAAAGATTTGTAAGCCACTAGTT 59.720 37.037 0.00 0.00 0.00 2.24
2739 9924 5.741964 GCCATTGTGAGACCTTATCCGATAA 60.742 44.000 0.92 0.92 0.00 1.75
2769 9954 5.063180 TGTGTGAAATGCAATCTGGATTC 57.937 39.130 0.00 0.00 37.43 2.52
2989 10175 3.699779 TCACTGTGCTGATATCGACTC 57.300 47.619 2.12 0.00 0.00 3.36
2990 10176 4.456280 TTTCACTGTGCTGATATCGACT 57.544 40.909 2.12 0.00 0.00 4.18
2991 10177 5.530519 TTTTTCACTGTGCTGATATCGAC 57.469 39.130 2.12 0.00 0.00 4.20
2992 10178 7.041721 AGTATTTTTCACTGTGCTGATATCGA 58.958 34.615 2.12 0.00 0.00 3.59
2993 10179 7.223582 AGAGTATTTTTCACTGTGCTGATATCG 59.776 37.037 2.12 0.00 0.00 2.92
2994 10180 8.333908 CAGAGTATTTTTCACTGTGCTGATATC 58.666 37.037 2.12 0.00 31.51 1.63
2995 10181 7.281774 CCAGAGTATTTTTCACTGTGCTGATAT 59.718 37.037 2.12 0.00 36.30 1.63
2996 10182 6.595326 CCAGAGTATTTTTCACTGTGCTGATA 59.405 38.462 2.12 0.00 36.30 2.15
2997 10183 5.413833 CCAGAGTATTTTTCACTGTGCTGAT 59.586 40.000 2.12 0.00 36.30 2.90
2998 10184 4.756642 CCAGAGTATTTTTCACTGTGCTGA 59.243 41.667 2.12 0.00 36.30 4.26
2999 10185 4.083110 CCCAGAGTATTTTTCACTGTGCTG 60.083 45.833 2.12 1.46 36.30 4.41
3000 10186 4.074970 CCCAGAGTATTTTTCACTGTGCT 58.925 43.478 2.12 0.00 36.30 4.40
3001 10187 4.072131 TCCCAGAGTATTTTTCACTGTGC 58.928 43.478 2.12 0.00 36.30 4.57
3002 10188 5.939883 TGATCCCAGAGTATTTTTCACTGTG 59.060 40.000 0.17 0.17 37.12 3.66
3003 10189 6.126863 TGATCCCAGAGTATTTTTCACTGT 57.873 37.500 0.00 0.00 0.00 3.55
3004 10190 6.430925 TGTTGATCCCAGAGTATTTTTCACTG 59.569 38.462 0.00 0.00 0.00 3.66
3005 10191 6.542821 TGTTGATCCCAGAGTATTTTTCACT 58.457 36.000 0.00 0.00 0.00 3.41
3006 10192 6.817765 TGTTGATCCCAGAGTATTTTTCAC 57.182 37.500 0.00 0.00 0.00 3.18
3007 10193 7.174413 TGATGTTGATCCCAGAGTATTTTTCA 58.826 34.615 0.00 0.00 0.00 2.69
3008 10194 7.630242 TGATGTTGATCCCAGAGTATTTTTC 57.370 36.000 0.00 0.00 0.00 2.29
3009 10195 6.096001 GCTGATGTTGATCCCAGAGTATTTTT 59.904 38.462 0.00 0.00 0.00 1.94
3010 10196 5.591877 GCTGATGTTGATCCCAGAGTATTTT 59.408 40.000 0.00 0.00 0.00 1.82
3011 10197 5.128919 GCTGATGTTGATCCCAGAGTATTT 58.871 41.667 0.00 0.00 0.00 1.40
3012 10198 4.164796 TGCTGATGTTGATCCCAGAGTATT 59.835 41.667 0.00 0.00 0.00 1.89
3013 10199 3.713248 TGCTGATGTTGATCCCAGAGTAT 59.287 43.478 0.00 0.00 0.00 2.12
3014 10200 3.106827 TGCTGATGTTGATCCCAGAGTA 58.893 45.455 0.00 0.00 0.00 2.59
3015 10201 1.911357 TGCTGATGTTGATCCCAGAGT 59.089 47.619 0.00 0.00 0.00 3.24
3016 10202 2.286872 GTGCTGATGTTGATCCCAGAG 58.713 52.381 0.00 0.00 0.00 3.35
3017 10203 1.629861 TGTGCTGATGTTGATCCCAGA 59.370 47.619 0.00 0.00 0.00 3.86
3018 10204 1.741706 GTGTGCTGATGTTGATCCCAG 59.258 52.381 0.00 0.00 0.00 4.45
3019 10205 1.073603 TGTGTGCTGATGTTGATCCCA 59.926 47.619 0.00 0.00 0.00 4.37
3020 10206 1.825090 TGTGTGCTGATGTTGATCCC 58.175 50.000 0.00 0.00 0.00 3.85
3046 10232 3.128938 TCTTCTTGCGTTTTCCCGAAAAA 59.871 39.130 4.25 0.00 41.37 1.94
3047 10233 2.683867 TCTTCTTGCGTTTTCCCGAAAA 59.316 40.909 0.00 0.00 37.90 2.29
3048 10234 2.289547 CTCTTCTTGCGTTTTCCCGAAA 59.710 45.455 0.00 0.00 0.00 3.46
3049 10235 1.871039 CTCTTCTTGCGTTTTCCCGAA 59.129 47.619 0.00 0.00 0.00 4.30
3050 10236 1.508632 CTCTTCTTGCGTTTTCCCGA 58.491 50.000 0.00 0.00 0.00 5.14
3051 10237 0.110192 GCTCTTCTTGCGTTTTCCCG 60.110 55.000 0.00 0.00 0.00 5.14
3052 10238 1.239347 AGCTCTTCTTGCGTTTTCCC 58.761 50.000 0.00 0.00 35.28 3.97
3053 10239 2.654987 CAAGCTCTTCTTGCGTTTTCC 58.345 47.619 0.00 0.00 44.85 3.13
3062 10248 6.830873 AGTAATGAAATGCAAGCTCTTCTT 57.169 33.333 0.00 0.00 34.78 2.52
3063 10249 6.830873 AAGTAATGAAATGCAAGCTCTTCT 57.169 33.333 0.00 0.00 0.00 2.85
3064 10250 6.309737 CCAAAGTAATGAAATGCAAGCTCTTC 59.690 38.462 0.00 0.00 0.00 2.87
3065 10251 6.015180 TCCAAAGTAATGAAATGCAAGCTCTT 60.015 34.615 0.00 0.00 0.00 2.85
3066 10252 5.477984 TCCAAAGTAATGAAATGCAAGCTCT 59.522 36.000 0.00 0.00 0.00 4.09
3067 10253 5.713025 TCCAAAGTAATGAAATGCAAGCTC 58.287 37.500 0.00 0.00 0.00 4.09
3068 10254 5.726980 TCCAAAGTAATGAAATGCAAGCT 57.273 34.783 0.00 0.00 0.00 3.74
3069 10255 6.128472 CCTTTCCAAAGTAATGAAATGCAAGC 60.128 38.462 0.00 0.00 34.20 4.01
3070 10256 7.153985 TCCTTTCCAAAGTAATGAAATGCAAG 58.846 34.615 0.00 0.00 34.20 4.01
3071 10257 7.060383 TCCTTTCCAAAGTAATGAAATGCAA 57.940 32.000 0.00 0.00 34.20 4.08
3072 10258 6.662865 TCCTTTCCAAAGTAATGAAATGCA 57.337 33.333 0.00 0.00 34.20 3.96
3073 10259 6.591448 CCTTCCTTTCCAAAGTAATGAAATGC 59.409 38.462 0.00 0.00 34.20 3.56
3074 10260 7.895759 TCCTTCCTTTCCAAAGTAATGAAATG 58.104 34.615 0.00 0.00 34.20 2.32
3075 10261 8.491045 TTCCTTCCTTTCCAAAGTAATGAAAT 57.509 30.769 0.00 0.00 34.20 2.17
3076 10262 7.563556 ACTTCCTTCCTTTCCAAAGTAATGAAA 59.436 33.333 0.00 0.00 34.20 2.69
3077 10263 7.066781 ACTTCCTTCCTTTCCAAAGTAATGAA 58.933 34.615 0.00 0.00 34.20 2.57
3078 10264 6.610830 ACTTCCTTCCTTTCCAAAGTAATGA 58.389 36.000 0.00 0.00 34.20 2.57
3079 10265 6.901081 ACTTCCTTCCTTTCCAAAGTAATG 57.099 37.500 0.00 0.00 34.20 1.90
3080 10266 7.255486 CGAAACTTCCTTCCTTTCCAAAGTAAT 60.255 37.037 0.00 0.00 34.20 1.89
3081 10267 6.038936 CGAAACTTCCTTCCTTTCCAAAGTAA 59.961 38.462 0.00 0.00 34.20 2.24
3082 10268 5.529800 CGAAACTTCCTTCCTTTCCAAAGTA 59.470 40.000 0.00 0.00 34.20 2.24
3083 10269 4.338400 CGAAACTTCCTTCCTTTCCAAAGT 59.662 41.667 0.00 0.00 34.20 2.66
3084 10270 4.261614 CCGAAACTTCCTTCCTTTCCAAAG 60.262 45.833 0.00 0.00 35.79 2.77
3085 10271 3.634910 CCGAAACTTCCTTCCTTTCCAAA 59.365 43.478 0.00 0.00 0.00 3.28
3086 10272 3.219281 CCGAAACTTCCTTCCTTTCCAA 58.781 45.455 0.00 0.00 0.00 3.53
3087 10273 2.173996 ACCGAAACTTCCTTCCTTTCCA 59.826 45.455 0.00 0.00 0.00 3.53
3088 10274 2.860009 ACCGAAACTTCCTTCCTTTCC 58.140 47.619 0.00 0.00 0.00 3.13
3089 10275 4.818005 TGTAACCGAAACTTCCTTCCTTTC 59.182 41.667 0.00 0.00 0.00 2.62
3090 10276 4.784177 TGTAACCGAAACTTCCTTCCTTT 58.216 39.130 0.00 0.00 0.00 3.11
3091 10277 4.426736 TGTAACCGAAACTTCCTTCCTT 57.573 40.909 0.00 0.00 0.00 3.36
3092 10278 4.426736 TTGTAACCGAAACTTCCTTCCT 57.573 40.909 0.00 0.00 0.00 3.36
3093 10279 4.155462 GGATTGTAACCGAAACTTCCTTCC 59.845 45.833 0.00 0.00 0.00 3.46
3094 10280 5.001874 AGGATTGTAACCGAAACTTCCTTC 58.998 41.667 0.00 0.00 30.71 3.46
3095 10281 4.981812 AGGATTGTAACCGAAACTTCCTT 58.018 39.130 0.00 0.00 30.71 3.36
3096 10282 4.565028 GGAGGATTGTAACCGAAACTTCCT 60.565 45.833 0.00 0.00 34.76 3.36
3097 10283 3.688185 GGAGGATTGTAACCGAAACTTCC 59.312 47.826 0.00 0.00 0.00 3.46
3098 10284 4.576879 AGGAGGATTGTAACCGAAACTTC 58.423 43.478 0.00 0.00 0.00 3.01
3099 10285 4.635699 AGGAGGATTGTAACCGAAACTT 57.364 40.909 0.00 0.00 0.00 2.66
3100 10286 4.161754 CCTAGGAGGATTGTAACCGAAACT 59.838 45.833 1.05 0.00 37.67 2.66
3101 10287 4.161001 TCCTAGGAGGATTGTAACCGAAAC 59.839 45.833 7.62 0.00 40.06 2.78
3102 10288 4.355549 TCCTAGGAGGATTGTAACCGAAA 58.644 43.478 7.62 0.00 40.06 3.46
3103 10289 3.958798 CTCCTAGGAGGATTGTAACCGAA 59.041 47.826 28.68 0.00 44.81 4.30
3104 10290 3.563223 CTCCTAGGAGGATTGTAACCGA 58.437 50.000 28.68 0.00 44.81 4.69
3116 10302 3.643792 CCACTGTAATTCCCTCCTAGGAG 59.356 52.174 29.27 29.27 37.67 3.69
3117 10303 3.632645 CCCACTGTAATTCCCTCCTAGGA 60.633 52.174 11.98 11.98 37.67 2.94
3118 10304 2.706190 CCCACTGTAATTCCCTCCTAGG 59.294 54.545 0.82 0.82 34.30 3.02
3119 10305 2.706190 CCCCACTGTAATTCCCTCCTAG 59.294 54.545 0.00 0.00 0.00 3.02
3120 10306 2.631268 CCCCCACTGTAATTCCCTCCTA 60.631 54.545 0.00 0.00 0.00 2.94
3121 10307 1.596496 CCCCACTGTAATTCCCTCCT 58.404 55.000 0.00 0.00 0.00 3.69
3122 10308 0.551396 CCCCCACTGTAATTCCCTCC 59.449 60.000 0.00 0.00 0.00 4.30
3123 10309 0.106669 GCCCCCACTGTAATTCCCTC 60.107 60.000 0.00 0.00 0.00 4.30
3124 10310 0.849094 TGCCCCCACTGTAATTCCCT 60.849 55.000 0.00 0.00 0.00 4.20
3125 10311 0.261696 ATGCCCCCACTGTAATTCCC 59.738 55.000 0.00 0.00 0.00 3.97
3126 10312 3.181434 TGATATGCCCCCACTGTAATTCC 60.181 47.826 0.00 0.00 0.00 3.01
3127 10313 4.098914 TGATATGCCCCCACTGTAATTC 57.901 45.455 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.