Multiple sequence alignment - TraesCS2D01G043100

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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 TraesCS2D01G043100 chr2D 100.000 2590 0 0 1 2590 15516581 15513992 0.000000e+00 4783.0
1 TraesCS2D01G043100 chr2D 75.894 2377 393 103 1 2261 15472426 15470114 0.000000e+00 1050.0
2 TraesCS2D01G043100 chr2D 80.298 1274 155 43 1046 2261 15458327 15457092 0.000000e+00 874.0
3 TraesCS2D01G043100 chr2D 76.003 1471 286 37 1 1439 15506733 15505298 0.000000e+00 699.0
4 TraesCS2D01G043100 chr2D 79.838 739 85 27 1579 2261 15505208 15504478 5.010000e-132 481.0
5 TraesCS2D01G043100 chr2D 97.664 214 5 0 2260 2473 87775218 87775005 4.070000e-98 368.0
6 TraesCS2D01G043100 chr2D 100.000 75 0 0 2497 2571 15468230 15468304 3.480000e-29 139.0
7 TraesCS2D01G043100 chr2A 79.155 2058 309 73 1 2014 17413320 17411339 0.000000e+00 1314.0
8 TraesCS2D01G043100 chr2A 77.546 2347 373 94 1 2262 17541733 17539456 0.000000e+00 1273.0
9 TraesCS2D01G043100 chr2A 77.941 2176 347 65 1 2089 17598887 17596758 0.000000e+00 1236.0
10 TraesCS2D01G043100 chr2A 85.238 1199 115 29 926 2103 17546070 17544913 0.000000e+00 1177.0
11 TraesCS2D01G043100 chr2A 75.430 2324 423 96 1 2262 17549699 17547462 0.000000e+00 992.0
12 TraesCS2D01G043100 chr2A 75.182 2329 446 82 6 2262 17475140 17472872 0.000000e+00 977.0
13 TraesCS2D01G043100 chr2A 76.758 1863 330 64 1 1807 17503302 17501487 0.000000e+00 946.0
14 TraesCS2D01G043100 chr2A 92.736 413 21 3 960 1372 17508392 17507989 2.870000e-164 588.0
15 TraesCS2D01G043100 chr2A 74.950 1010 210 32 15 995 17425474 17424479 8.570000e-115 424.0
16 TraesCS2D01G043100 chr2A 79.388 621 58 23 1511 2103 17507922 17507344 8.750000e-100 374.0
17 TraesCS2D01G043100 chr2A 83.069 189 31 1 2074 2261 17596739 17596551 1.230000e-38 171.0
18 TraesCS2D01G043100 chr2B 76.737 1857 337 58 1 1807 27544986 27543175 0.000000e+00 948.0
19 TraesCS2D01G043100 chr2B 78.766 1102 181 33 351 1439 27617036 27615975 0.000000e+00 689.0
20 TraesCS2D01G043100 chr2B 79.939 658 84 16 1644 2261 27615775 27615126 8.510000e-120 440.0
21 TraesCS2D01G043100 chr2B 85.345 116 15 2 1886 2000 27543128 27543014 4.530000e-23 119.0
22 TraesCS2D01G043100 chr6B 74.072 1643 339 58 1 1607 29858397 29859988 6.170000e-166 593.0
23 TraesCS2D01G043100 chr6B 82.500 120 11 6 2 115 18400313 18400198 2.120000e-16 97.1
24 TraesCS2D01G043100 chr6B 81.356 118 13 5 2 113 18241320 18241434 1.280000e-13 87.9
25 TraesCS2D01G043100 chr6B 79.817 109 19 3 1 107 17727440 17727333 2.760000e-10 76.8
26 TraesCS2D01G043100 chr7D 99.065 214 2 0 2260 2473 495428735 495428522 4.040000e-103 385.0
27 TraesCS2D01G043100 chr7D 98.578 211 3 0 2257 2467 587298178 587298388 8.750000e-100 374.0
28 TraesCS2D01G043100 chr7D 71.937 1208 269 51 6 1175 11255907 11254732 3.260000e-74 289.0
29 TraesCS2D01G043100 chr6D 98.618 217 3 0 2257 2473 434447160 434447376 4.040000e-103 385.0
30 TraesCS2D01G043100 chr6D 97.196 214 6 0 2260 2473 354544012 354543799 1.890000e-96 363.0
31 TraesCS2D01G043100 chr5D 98.157 217 4 0 2257 2473 119267578 119267794 1.880000e-101 379.0
32 TraesCS2D01G043100 chr5A 97.664 214 5 0 2260 2473 463746468 463746681 4.070000e-98 368.0
33 TraesCS2D01G043100 chr7B 96.380 221 8 0 2255 2475 63124573 63124793 5.270000e-97 364.0
34 TraesCS2D01G043100 chr3A 96.804 219 6 1 2257 2475 565780322 565780105 5.270000e-97 364.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G043100 chr2D 15513992 15516581 2589 True 4783.000000 4783 100.000000 1 2590 1 chr2D.!!$R3 2589
1 TraesCS2D01G043100 chr2D 15470114 15472426 2312 True 1050.000000 1050 75.894000 1 2261 1 chr2D.!!$R2 2260
2 TraesCS2D01G043100 chr2D 15457092 15458327 1235 True 874.000000 874 80.298000 1046 2261 1 chr2D.!!$R1 1215
3 TraesCS2D01G043100 chr2D 15504478 15506733 2255 True 590.000000 699 77.920500 1 2261 2 chr2D.!!$R5 2260
4 TraesCS2D01G043100 chr2A 17411339 17413320 1981 True 1314.000000 1314 79.155000 1 2014 1 chr2A.!!$R1 2013
5 TraesCS2D01G043100 chr2A 17539456 17549699 10243 True 1147.333333 1273 79.404667 1 2262 3 chr2A.!!$R6 2261
6 TraesCS2D01G043100 chr2A 17472872 17475140 2268 True 977.000000 977 75.182000 6 2262 1 chr2A.!!$R3 2256
7 TraesCS2D01G043100 chr2A 17501487 17503302 1815 True 946.000000 946 76.758000 1 1807 1 chr2A.!!$R4 1806
8 TraesCS2D01G043100 chr2A 17596551 17598887 2336 True 703.500000 1236 80.505000 1 2261 2 chr2A.!!$R7 2260
9 TraesCS2D01G043100 chr2A 17507344 17508392 1048 True 481.000000 588 86.062000 960 2103 2 chr2A.!!$R5 1143
10 TraesCS2D01G043100 chr2A 17424479 17425474 995 True 424.000000 424 74.950000 15 995 1 chr2A.!!$R2 980
11 TraesCS2D01G043100 chr2B 27615126 27617036 1910 True 564.500000 689 79.352500 351 2261 2 chr2B.!!$R2 1910
12 TraesCS2D01G043100 chr2B 27543014 27544986 1972 True 533.500000 948 81.041000 1 2000 2 chr2B.!!$R1 1999
13 TraesCS2D01G043100 chr6B 29858397 29859988 1591 False 593.000000 593 74.072000 1 1607 1 chr6B.!!$F2 1606
14 TraesCS2D01G043100 chr7D 11254732 11255907 1175 True 289.000000 289 71.937000 6 1175 1 chr7D.!!$R1 1169

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
931 989 0.104409 ACCAAGTGGAGGACCCTTCT 60.104 55.0 3.83 0.0 38.94 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2542 10845 0.166814 CTAGTTGTTTCGCTGCTGGC 59.833 55.0 0.0 0.0 37.64 4.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 0.820871 ACCTCAAGCGTCTCATCCTC 59.179 55.000 0.00 0.00 0.00 3.71
123 124 4.222588 TGGCCACCAGAAAATAAAAGGATG 59.777 41.667 0.00 0.00 0.00 3.51
124 125 4.383010 GGCCACCAGAAAATAAAAGGATGG 60.383 45.833 0.00 0.00 0.00 3.51
127 128 4.777366 CACCAGAAAATAAAAGGATGGGGT 59.223 41.667 0.00 0.00 0.00 4.95
142 143 1.273324 TGGGGTTTTTGGAGGTGTTGT 60.273 47.619 0.00 0.00 0.00 3.32
161 162 4.664150 TGTACATCAACGCCATCAGATA 57.336 40.909 0.00 0.00 0.00 1.98
193 194 6.071896 ACCTAGCCAAGCTAATTCAAAAGAAC 60.072 38.462 0.00 0.00 40.82 3.01
218 219 3.519510 ACCAATGAGGCTAGTTCTGCTAA 59.480 43.478 0.00 0.00 43.14 3.09
267 268 6.806751 TCCTGCTACACAACTAGACATATTC 58.193 40.000 0.00 0.00 0.00 1.75
323 339 2.223852 GGCTCCTTAGGTCTCTTAAGCG 60.224 54.545 0.00 0.00 0.00 4.68
333 349 2.025155 TCTCTTAAGCGCCTCGAAGAT 58.975 47.619 2.29 0.00 33.89 2.40
335 351 2.025155 TCTTAAGCGCCTCGAAGATCT 58.975 47.619 2.29 0.00 33.89 2.75
338 354 2.500509 AAGCGCCTCGAAGATCTTAG 57.499 50.000 8.25 8.74 33.89 2.18
339 355 1.681538 AGCGCCTCGAAGATCTTAGA 58.318 50.000 16.23 16.23 33.89 2.10
341 357 1.600912 GCGCCTCGAAGATCTTAGACC 60.601 57.143 13.59 7.55 33.89 3.85
377 399 4.868172 TGGAAATGGATTCATCTCCTGT 57.132 40.909 7.89 0.00 40.37 4.00
412 434 3.313249 TGTTGATGACAGTGAAGTTGCTG 59.687 43.478 0.00 3.29 38.58 4.41
434 456 2.688477 AGGAATCAGGAGCCTAGGAAG 58.312 52.381 14.75 0.00 0.00 3.46
507 541 2.436417 GCTTGTGCTGGTAATGAAGGA 58.564 47.619 0.00 0.00 36.03 3.36
515 549 4.127171 GCTGGTAATGAAGGAGCGATTAA 58.873 43.478 0.00 0.00 0.00 1.40
516 550 4.757149 GCTGGTAATGAAGGAGCGATTAAT 59.243 41.667 0.00 0.00 0.00 1.40
551 585 1.078143 CAGCCAGGCCTACTCCAAC 60.078 63.158 3.98 0.00 0.00 3.77
552 586 2.272471 GCCAGGCCTACTCCAACC 59.728 66.667 3.98 0.00 0.00 3.77
574 614 2.316792 CTCAAGACTGGTACGTTCACG 58.683 52.381 0.00 0.00 46.33 4.35
655 695 3.094572 GGAACTAGTACCAGTGCTACCA 58.905 50.000 0.00 0.00 0.00 3.25
658 698 5.221204 GGAACTAGTACCAGTGCTACCATAC 60.221 48.000 0.00 0.00 0.00 2.39
682 725 4.389374 CCCCAGAATGTGTAATATCGCTT 58.611 43.478 0.00 0.00 0.00 4.68
820 869 4.783227 TCTTTGCTACTCCCCAACTAAGAT 59.217 41.667 0.00 0.00 0.00 2.40
888 946 4.201951 CCGAAGGCGTGCTACATT 57.798 55.556 0.00 0.00 46.14 2.71
902 960 5.186198 GTGCTACATTTGGAACTGGAGTAT 58.814 41.667 0.00 0.00 0.00 2.12
925 983 2.039084 ACATCTCAACCAAGTGGAGGAC 59.961 50.000 3.83 0.00 34.57 3.85
931 989 0.104409 ACCAAGTGGAGGACCCTTCT 60.104 55.000 3.83 0.00 38.94 2.85
935 993 0.489567 AGTGGAGGACCCTTCTCAGT 59.510 55.000 0.00 0.00 35.38 3.41
936 994 1.717077 AGTGGAGGACCCTTCTCAGTA 59.283 52.381 0.00 0.00 35.38 2.74
940 998 3.335786 TGGAGGACCCTTCTCAGTACTAA 59.664 47.826 0.00 0.00 35.38 2.24
989 1047 4.040829 CAGGCTCATACATGTGATTCCCTA 59.959 45.833 9.11 0.00 0.00 3.53
1124 1185 1.987080 AACTTCCCCAGGCTAAGGAT 58.013 50.000 5.58 0.00 0.00 3.24
1402 9432 0.108329 GCGCTACTACAAGAAGGCCA 60.108 55.000 5.01 0.00 0.00 5.36
1426 9456 2.031516 CCAAGAGGCACAGTGCTCG 61.032 63.158 24.75 8.97 44.28 5.03
1469 9500 9.770503 CTCTTCTGTCATTTCATCAATAACTTG 57.229 33.333 0.00 0.00 0.00 3.16
1480 9511 5.647658 TCATCAATAACTTGCTTAGTGGGTG 59.352 40.000 0.00 0.00 37.12 4.61
1496 9528 3.830178 GTGGGTGGCCAACTTAGTTTTAT 59.170 43.478 22.79 0.00 0.00 1.40
1504 9537 8.182227 GTGGCCAACTTAGTTTTATCATTCTAC 58.818 37.037 7.24 0.00 0.00 2.59
1539 9612 6.260493 AGTCTAGTTCTGATACCGTGTATGTC 59.740 42.308 1.87 0.00 0.00 3.06
1575 9649 7.433708 TCTTGTCATCAACGATTTGTTATGT 57.566 32.000 0.00 0.00 39.29 2.29
1613 9695 1.879575 TTCCTTCCATGGGTCGATCT 58.120 50.000 13.02 0.00 0.00 2.75
1670 9782 4.023365 AGCTTTCTCTGAAGTGCATGTTTC 60.023 41.667 0.00 0.00 0.00 2.78
1684 9810 3.243035 GCATGTTTCTGTGTGTGTTGCTA 60.243 43.478 0.00 0.00 0.00 3.49
1722 9864 3.133141 TGATTGGTCCGTGTGAAATCA 57.867 42.857 0.00 0.00 35.47 2.57
1723 9865 3.073678 TGATTGGTCCGTGTGAAATCAG 58.926 45.455 0.00 0.00 33.50 2.90
1724 9866 2.920724 TTGGTCCGTGTGAAATCAGA 57.079 45.000 0.00 0.00 0.00 3.27
1725 9867 2.920724 TGGTCCGTGTGAAATCAGAA 57.079 45.000 0.00 0.00 0.00 3.02
1726 9868 3.417069 TGGTCCGTGTGAAATCAGAAT 57.583 42.857 0.00 0.00 0.00 2.40
1727 9869 3.334691 TGGTCCGTGTGAAATCAGAATC 58.665 45.455 0.00 0.00 0.00 2.52
1728 9870 3.007940 TGGTCCGTGTGAAATCAGAATCT 59.992 43.478 0.00 0.00 0.00 2.40
1729 9871 4.221924 TGGTCCGTGTGAAATCAGAATCTA 59.778 41.667 0.00 0.00 0.00 1.98
1730 9872 4.567159 GGTCCGTGTGAAATCAGAATCTAC 59.433 45.833 0.00 0.00 0.00 2.59
1731 9873 5.411781 GTCCGTGTGAAATCAGAATCTACT 58.588 41.667 0.00 0.00 0.00 2.57
1732 9874 5.869888 GTCCGTGTGAAATCAGAATCTACTT 59.130 40.000 0.00 0.00 0.00 2.24
1733 9875 6.035112 GTCCGTGTGAAATCAGAATCTACTTC 59.965 42.308 0.00 0.00 0.00 3.01
1734 9876 5.004821 CCGTGTGAAATCAGAATCTACTTCG 59.995 44.000 0.00 0.00 38.98 3.79
1735 9877 5.499334 CGTGTGAAATCAGAATCTACTTCGC 60.499 44.000 5.34 5.34 38.98 4.70
1736 9878 4.870426 TGTGAAATCAGAATCTACTTCGCC 59.130 41.667 8.34 0.00 38.98 5.54
1737 9879 4.870426 GTGAAATCAGAATCTACTTCGCCA 59.130 41.667 0.00 0.00 38.98 5.69
1738 9880 5.525378 GTGAAATCAGAATCTACTTCGCCAT 59.475 40.000 0.00 0.00 38.98 4.40
1739 9881 5.525012 TGAAATCAGAATCTACTTCGCCATG 59.475 40.000 0.00 0.00 38.98 3.66
1790 9960 8.458052 AGTTTGATTTGATTTGGTTTGGTTTTC 58.542 29.630 0.00 0.00 0.00 2.29
1823 10025 0.532640 TTGCTCAGCTTTGCTCGACA 60.533 50.000 0.00 0.00 36.40 4.35
1838 10040 3.304057 GCTCGACAAAAGCCATATAAGCC 60.304 47.826 0.00 0.00 33.53 4.35
1924 10143 0.035056 GGTATTCAGCCTGTGGTGCT 60.035 55.000 0.00 0.00 39.84 4.40
1948 10167 2.516460 CCCTGCCTGCTCATGCTC 60.516 66.667 0.00 0.00 40.48 4.26
1978 10211 3.129462 CCATTTGTGTGTTGTGGTGTGTA 59.871 43.478 0.00 0.00 0.00 2.90
1983 10216 5.392767 TGTGTGTTGTGGTGTGTAATTTT 57.607 34.783 0.00 0.00 0.00 1.82
1988 10221 6.096695 GTGTTGTGGTGTGTAATTTTTCAGT 58.903 36.000 0.00 0.00 0.00 3.41
1989 10222 6.034470 GTGTTGTGGTGTGTAATTTTTCAGTG 59.966 38.462 0.00 0.00 0.00 3.66
2065 10302 7.065683 TGGTGATTTGTGTGTGTCATCATATAC 59.934 37.037 0.00 0.00 27.46 1.47
2089 10330 6.371271 ACAAACTGCAGCTTTATGTTTTGTTT 59.629 30.769 15.27 0.00 0.00 2.83
2103 10380 7.642071 ATGTTTTGTTTTGTGCTGATCATAC 57.358 32.000 0.00 0.00 0.00 2.39
2105 10382 6.475076 TGTTTTGTTTTGTGCTGATCATACAC 59.525 34.615 17.78 17.78 34.86 2.90
2108 10386 4.578105 TGTTTTGTGCTGATCATACACACA 59.422 37.500 23.92 18.79 43.57 3.72
2154 10448 1.405105 GACTGGTTCTTGCTGCAAACA 59.595 47.619 16.74 11.52 0.00 2.83
2158 10452 2.195922 GGTTCTTGCTGCAAACAGTTG 58.804 47.619 16.74 3.67 46.30 3.16
2209 10510 9.249053 TGGATTAGAGTAGATAATAAGCCAGAG 57.751 37.037 0.00 0.00 38.42 3.35
2211 10512 8.602472 ATTAGAGTAGATAATAAGCCAGAGGG 57.398 38.462 0.00 0.00 37.18 4.30
2248 10551 9.931698 TTAATTCTAGGTCCTATTGTCTGTAGA 57.068 33.333 0.00 0.00 0.00 2.59
2262 10565 7.526142 TTGTCTGTAGAAGATGTGACTTACT 57.474 36.000 0.00 0.00 37.23 2.24
2263 10566 7.147143 TGTCTGTAGAAGATGTGACTTACTC 57.853 40.000 0.00 0.00 37.23 2.59
2264 10567 6.151312 TGTCTGTAGAAGATGTGACTTACTCC 59.849 42.308 0.00 0.00 37.23 3.85
2265 10568 5.652891 TCTGTAGAAGATGTGACTTACTCCC 59.347 44.000 0.00 0.00 0.00 4.30
2266 10569 5.580998 TGTAGAAGATGTGACTTACTCCCT 58.419 41.667 0.00 0.00 0.00 4.20
2267 10570 5.652891 TGTAGAAGATGTGACTTACTCCCTC 59.347 44.000 0.00 0.00 0.00 4.30
2268 10571 4.027437 AGAAGATGTGACTTACTCCCTCC 58.973 47.826 0.00 0.00 0.00 4.30
2269 10572 2.379972 AGATGTGACTTACTCCCTCCG 58.620 52.381 0.00 0.00 0.00 4.63
2270 10573 2.100989 GATGTGACTTACTCCCTCCGT 58.899 52.381 0.00 0.00 0.00 4.69
2271 10574 1.542492 TGTGACTTACTCCCTCCGTC 58.458 55.000 0.00 0.00 0.00 4.79
2272 10575 0.816373 GTGACTTACTCCCTCCGTCC 59.184 60.000 0.00 0.00 0.00 4.79
2273 10576 0.679002 TGACTTACTCCCTCCGTCCG 60.679 60.000 0.00 0.00 0.00 4.79
2274 10577 2.002509 GACTTACTCCCTCCGTCCGC 62.003 65.000 0.00 0.00 0.00 5.54
2275 10578 3.122250 CTTACTCCCTCCGTCCGCG 62.122 68.421 0.00 0.00 37.95 6.46
2276 10579 3.626996 TTACTCCCTCCGTCCGCGA 62.627 63.158 8.23 0.00 41.33 5.87
2277 10580 3.626996 TACTCCCTCCGTCCGCGAA 62.627 63.158 8.23 0.00 41.33 4.70
2278 10581 2.898920 TACTCCCTCCGTCCGCGAAT 62.899 60.000 8.23 0.00 41.33 3.34
2279 10582 2.124193 TCCCTCCGTCCGCGAATA 60.124 61.111 8.23 0.00 41.33 1.75
2280 10583 1.731433 CTCCCTCCGTCCGCGAATAA 61.731 60.000 8.23 0.00 41.33 1.40
2281 10584 1.299926 CCCTCCGTCCGCGAATAAG 60.300 63.158 8.23 0.00 41.33 1.73
2282 10585 1.436336 CCTCCGTCCGCGAATAAGT 59.564 57.895 8.23 0.00 41.33 2.24
2283 10586 0.870307 CCTCCGTCCGCGAATAAGTG 60.870 60.000 8.23 0.00 41.33 3.16
2284 10587 0.179145 CTCCGTCCGCGAATAAGTGT 60.179 55.000 8.23 0.00 41.33 3.55
2285 10588 1.064505 CTCCGTCCGCGAATAAGTGTA 59.935 52.381 8.23 0.00 41.33 2.90
2286 10589 1.194495 CCGTCCGCGAATAAGTGTAC 58.806 55.000 8.23 0.00 41.33 2.90
2287 10590 1.202222 CCGTCCGCGAATAAGTGTACT 60.202 52.381 8.23 0.00 41.33 2.73
2288 10591 2.523015 CGTCCGCGAATAAGTGTACTT 58.477 47.619 8.23 2.51 41.33 2.24
2289 10592 2.529090 CGTCCGCGAATAAGTGTACTTC 59.471 50.000 8.23 0.00 41.33 3.01
2290 10593 3.730061 CGTCCGCGAATAAGTGTACTTCT 60.730 47.826 8.23 0.00 41.33 2.85
2291 10594 4.494690 CGTCCGCGAATAAGTGTACTTCTA 60.495 45.833 8.23 0.00 41.33 2.10
2292 10595 4.968788 GTCCGCGAATAAGTGTACTTCTAG 59.031 45.833 8.23 0.00 37.40 2.43
2293 10596 3.729716 CCGCGAATAAGTGTACTTCTAGC 59.270 47.826 8.23 3.15 37.40 3.42
2294 10597 4.497674 CCGCGAATAAGTGTACTTCTAGCT 60.498 45.833 8.23 0.00 37.40 3.32
2295 10598 5.035443 CGCGAATAAGTGTACTTCTAGCTT 58.965 41.667 0.00 0.00 37.40 3.74
2296 10599 5.515626 CGCGAATAAGTGTACTTCTAGCTTT 59.484 40.000 0.00 0.00 37.40 3.51
2297 10600 6.034683 CGCGAATAAGTGTACTTCTAGCTTTT 59.965 38.462 0.00 0.00 37.40 2.27
2298 10601 7.174082 GCGAATAAGTGTACTTCTAGCTTTTG 58.826 38.462 0.00 0.00 37.40 2.44
2299 10602 7.148623 GCGAATAAGTGTACTTCTAGCTTTTGT 60.149 37.037 0.00 0.00 37.40 2.83
2300 10603 8.373992 CGAATAAGTGTACTTCTAGCTTTTGTC 58.626 37.037 0.00 0.00 37.40 3.18
2301 10604 9.425577 GAATAAGTGTACTTCTAGCTTTTGTCT 57.574 33.333 0.00 0.00 37.40 3.41
2302 10605 9.780186 AATAAGTGTACTTCTAGCTTTTGTCTT 57.220 29.630 0.00 0.00 37.40 3.01
2305 10608 8.819643 AGTGTACTTCTAGCTTTTGTCTTAAG 57.180 34.615 0.00 0.00 0.00 1.85
2306 10609 8.422566 AGTGTACTTCTAGCTTTTGTCTTAAGT 58.577 33.333 1.63 0.00 0.00 2.24
2307 10610 8.701540 GTGTACTTCTAGCTTTTGTCTTAAGTC 58.298 37.037 1.63 0.00 0.00 3.01
2308 10611 8.418662 TGTACTTCTAGCTTTTGTCTTAAGTCA 58.581 33.333 1.63 0.00 0.00 3.41
2309 10612 9.257651 GTACTTCTAGCTTTTGTCTTAAGTCAA 57.742 33.333 10.54 10.54 0.00 3.18
2310 10613 8.732746 ACTTCTAGCTTTTGTCTTAAGTCAAA 57.267 30.769 19.60 19.60 32.81 2.69
2311 10614 8.831550 ACTTCTAGCTTTTGTCTTAAGTCAAAG 58.168 33.333 21.47 17.68 35.29 2.77
2312 10615 8.732746 TTCTAGCTTTTGTCTTAAGTCAAAGT 57.267 30.769 21.47 15.13 35.29 2.66
2313 10616 8.732746 TCTAGCTTTTGTCTTAAGTCAAAGTT 57.267 30.769 21.47 17.02 35.29 2.66
2314 10617 9.174166 TCTAGCTTTTGTCTTAAGTCAAAGTTT 57.826 29.630 21.47 15.16 35.29 2.66
2315 10618 9.788960 CTAGCTTTTGTCTTAAGTCAAAGTTTT 57.211 29.630 21.47 13.93 35.29 2.43
2316 10619 8.466086 AGCTTTTGTCTTAAGTCAAAGTTTTG 57.534 30.769 21.47 14.04 35.29 2.44
2317 10620 8.303876 AGCTTTTGTCTTAAGTCAAAGTTTTGA 58.696 29.630 21.47 9.97 44.31 2.69
2331 10634 8.614469 TCAAAGTTTTGAAATTTTGACCAACT 57.386 26.923 17.65 0.00 44.38 3.16
2332 10635 9.712305 TCAAAGTTTTGAAATTTTGACCAACTA 57.288 25.926 17.65 1.48 44.38 2.24
2526 10829 9.574458 GAAAAGGTTTCATAGAAAATTAGAGGC 57.426 33.333 0.00 0.00 0.00 4.70
2527 10830 8.650143 AAAGGTTTCATAGAAAATTAGAGGCA 57.350 30.769 0.00 0.00 0.00 4.75
2528 10831 8.829373 AAGGTTTCATAGAAAATTAGAGGCAT 57.171 30.769 0.00 0.00 0.00 4.40
2529 10832 9.920946 AAGGTTTCATAGAAAATTAGAGGCATA 57.079 29.630 0.00 0.00 0.00 3.14
2530 10833 9.343539 AGGTTTCATAGAAAATTAGAGGCATAC 57.656 33.333 0.00 0.00 0.00 2.39
2531 10834 9.120538 GGTTTCATAGAAAATTAGAGGCATACA 57.879 33.333 0.00 0.00 0.00 2.29
2534 10837 8.908786 TCATAGAAAATTAGAGGCATACAAGG 57.091 34.615 0.00 0.00 0.00 3.61
2535 10838 8.494433 TCATAGAAAATTAGAGGCATACAAGGT 58.506 33.333 0.00 0.00 0.00 3.50
2536 10839 8.562892 CATAGAAAATTAGAGGCATACAAGGTG 58.437 37.037 0.00 0.00 0.00 4.00
2537 10840 5.358160 AGAAAATTAGAGGCATACAAGGTGC 59.642 40.000 0.00 0.00 41.78 5.01
2538 10841 2.309528 TTAGAGGCATACAAGGTGCG 57.690 50.000 0.00 0.00 43.40 5.34
2539 10842 0.464036 TAGAGGCATACAAGGTGCGG 59.536 55.000 0.00 0.00 43.40 5.69
2540 10843 2.438434 AGGCATACAAGGTGCGGC 60.438 61.111 0.00 0.00 43.40 6.53
2541 10844 2.749839 GGCATACAAGGTGCGGCA 60.750 61.111 0.00 0.00 43.40 5.69
2542 10845 2.764314 GGCATACAAGGTGCGGCAG 61.764 63.158 1.18 0.00 43.40 4.85
2543 10846 2.793946 CATACAAGGTGCGGCAGC 59.206 61.111 23.64 23.64 45.41 5.25
2544 10847 2.438434 ATACAAGGTGCGGCAGCC 60.438 61.111 26.79 18.76 44.33 4.85
2545 10848 3.266686 ATACAAGGTGCGGCAGCCA 62.267 57.895 26.79 11.52 44.33 4.75
2546 10849 3.899981 TACAAGGTGCGGCAGCCAG 62.900 63.158 26.79 21.19 44.33 4.85
2559 10862 3.034030 GCCAGCAGCGAAACAACT 58.966 55.556 0.00 0.00 0.00 3.16
2560 10863 2.244000 GCCAGCAGCGAAACAACTA 58.756 52.632 0.00 0.00 0.00 2.24
2561 10864 0.166814 GCCAGCAGCGAAACAACTAG 59.833 55.000 0.00 0.00 0.00 2.57
2562 10865 0.798776 CCAGCAGCGAAACAACTAGG 59.201 55.000 0.00 0.00 0.00 3.02
2563 10866 0.798776 CAGCAGCGAAACAACTAGGG 59.201 55.000 0.00 0.00 0.00 3.53
2564 10867 0.685097 AGCAGCGAAACAACTAGGGA 59.315 50.000 0.00 0.00 0.00 4.20
2565 10868 1.279271 AGCAGCGAAACAACTAGGGAT 59.721 47.619 0.00 0.00 0.00 3.85
2566 10869 1.398390 GCAGCGAAACAACTAGGGATG 59.602 52.381 0.00 0.00 0.00 3.51
2567 10870 2.009774 CAGCGAAACAACTAGGGATGG 58.990 52.381 0.00 0.00 0.00 3.51
2568 10871 0.733150 GCGAAACAACTAGGGATGGC 59.267 55.000 0.00 0.00 0.00 4.40
2569 10872 1.006832 CGAAACAACTAGGGATGGCG 58.993 55.000 0.00 0.00 0.00 5.69
2570 10873 0.733150 GAAACAACTAGGGATGGCGC 59.267 55.000 0.00 0.00 0.00 6.53
2571 10874 0.679960 AAACAACTAGGGATGGCGCC 60.680 55.000 22.73 22.73 0.00 6.53
2572 10875 1.847798 AACAACTAGGGATGGCGCCA 61.848 55.000 34.80 34.80 0.00 5.69
2573 10876 1.524621 CAACTAGGGATGGCGCCAG 60.525 63.158 35.36 21.92 0.00 4.85
2574 10877 1.995626 AACTAGGGATGGCGCCAGT 60.996 57.895 35.36 22.65 0.00 4.00
2575 10878 2.109799 CTAGGGATGGCGCCAGTG 59.890 66.667 35.36 15.89 0.00 3.66
2576 10879 3.466791 CTAGGGATGGCGCCAGTGG 62.467 68.421 35.36 16.69 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 1.070134 CTGAGGTCGAGGGTTTTCACA 59.930 52.381 0.00 0.00 0.00 3.58
69 70 0.689623 AGAGCTTCTCACAACCCAGG 59.310 55.000 0.00 0.00 32.06 4.45
123 124 1.491668 ACAACACCTCCAAAAACCCC 58.508 50.000 0.00 0.00 0.00 4.95
124 125 3.025262 TGTACAACACCTCCAAAAACCC 58.975 45.455 0.00 0.00 0.00 4.11
142 143 3.996363 GCATATCTGATGGCGTTGATGTA 59.004 43.478 0.00 0.00 0.00 2.29
151 152 4.574013 GCTAGGTAATGCATATCTGATGGC 59.426 45.833 0.00 4.90 0.00 4.40
157 158 4.288105 AGCTTGGCTAGGTAATGCATATCT 59.712 41.667 0.00 0.36 36.99 1.98
161 162 4.437682 TTAGCTTGGCTAGGTAATGCAT 57.562 40.909 14.92 0.00 42.34 3.96
193 194 3.529533 CAGAACTAGCCTCATTGGTCTG 58.470 50.000 0.00 0.00 38.35 3.51
238 239 4.022242 GTCTAGTTGTGTAGCAGGAACAGA 60.022 45.833 0.00 0.00 0.00 3.41
244 245 6.810911 AGAATATGTCTAGTTGTGTAGCAGG 58.189 40.000 0.00 0.00 33.56 4.85
267 268 9.307121 CTTACAGTGATGTAGAAATTACAGGAG 57.693 37.037 0.00 0.00 0.00 3.69
278 294 4.030216 TGCATCCCTTACAGTGATGTAGA 58.970 43.478 0.00 0.00 38.47 2.59
279 295 4.406648 TGCATCCCTTACAGTGATGTAG 57.593 45.455 0.00 0.00 38.47 2.74
323 339 1.001158 CGGGTCTAAGATCTTCGAGGC 60.001 57.143 12.24 6.25 0.00 4.70
333 349 9.709387 TCCATATATATGAAATCGGGTCTAAGA 57.291 33.333 21.97 4.77 35.75 2.10
338 354 8.840321 CCATTTCCATATATATGAAATCGGGTC 58.160 37.037 21.97 0.00 35.75 4.46
339 355 8.556589 TCCATTTCCATATATATGAAATCGGGT 58.443 33.333 21.97 5.15 35.75 5.28
377 399 6.096673 TGTCATCAACAGCAACTCTACTTA 57.903 37.500 0.00 0.00 32.81 2.24
412 434 2.683768 TCCTAGGCTCCTGATTCCTTC 58.316 52.381 2.96 0.00 0.00 3.46
434 456 7.924412 CCCTTGCATATAAATAATGATCATGCC 59.076 37.037 9.46 0.00 37.17 4.40
465 496 2.562298 CTGCAGGTGGCCTTGAAAAATA 59.438 45.455 5.57 0.00 43.89 1.40
468 499 1.114722 CCTGCAGGTGGCCTTGAAAA 61.115 55.000 25.53 0.00 43.89 2.29
490 524 1.675714 CGCTCCTTCATTACCAGCACA 60.676 52.381 0.00 0.00 0.00 4.57
507 541 3.009723 CGCCCATATCCAATTAATCGCT 58.990 45.455 0.00 0.00 0.00 4.93
515 549 4.500265 GGCACGCCCATATCCAAT 57.500 55.556 0.00 0.00 0.00 3.16
537 571 2.125106 GCGGTTGGAGTAGGCCTG 60.125 66.667 17.99 0.00 0.00 4.85
551 585 0.038526 AACGTACCAGTCTTGAGCGG 60.039 55.000 0.00 0.00 0.00 5.52
552 586 1.335597 TGAACGTACCAGTCTTGAGCG 60.336 52.381 0.00 0.00 0.00 5.03
574 614 5.163814 GCTTCATCTCATGTTCACCTTGTAC 60.164 44.000 0.00 0.00 0.00 2.90
666 706 4.276678 AGCATGCAAGCGATATTACACATT 59.723 37.500 21.98 0.00 40.15 2.71
678 721 1.410737 GCACATGAAGCATGCAAGCG 61.411 55.000 21.98 6.53 44.80 4.68
731 774 2.066340 CCCCAGTCTGCACCTTGTA 58.934 57.895 0.00 0.00 0.00 2.41
870 928 0.036765 AAATGTAGCACGCCTTCGGA 60.037 50.000 0.00 0.00 40.69 4.55
888 946 6.867519 TGAGATGTTATACTCCAGTTCCAA 57.132 37.500 0.00 0.00 32.84 3.53
902 960 3.907474 TCCTCCACTTGGTTGAGATGTTA 59.093 43.478 0.00 0.00 36.34 2.41
925 983 6.655003 TGCAAGAATTTTAGTACTGAGAAGGG 59.345 38.462 5.39 0.00 0.00 3.95
931 989 5.705441 CCAGGTGCAAGAATTTTAGTACTGA 59.295 40.000 5.39 0.00 0.00 3.41
935 993 5.876357 AGTCCAGGTGCAAGAATTTTAGTA 58.124 37.500 0.00 0.00 0.00 1.82
936 994 4.729868 AGTCCAGGTGCAAGAATTTTAGT 58.270 39.130 0.00 0.00 0.00 2.24
940 998 4.082026 GCAATAGTCCAGGTGCAAGAATTT 60.082 41.667 0.00 0.00 36.97 1.82
989 1047 0.818296 GGTGTCCATACGCTCAGACT 59.182 55.000 0.00 0.00 36.33 3.24
1386 9416 3.600388 CAGGTTGGCCTTCTTGTAGTAG 58.400 50.000 3.32 0.00 44.18 2.57
1426 9456 8.312669 ACAGAAGAGCCATATATATCTTACCC 57.687 38.462 6.89 0.00 32.31 3.69
1469 9500 0.539669 AAGTTGGCCACCCACTAAGC 60.540 55.000 3.88 0.00 41.97 3.09
1480 9511 8.276252 TGTAGAATGATAAAACTAAGTTGGCC 57.724 34.615 0.00 0.00 0.00 5.36
1530 9603 6.090483 AGATTGATTCCCTAGACATACACG 57.910 41.667 0.00 0.00 0.00 4.49
1531 9604 7.275920 ACAAGATTGATTCCCTAGACATACAC 58.724 38.462 0.00 0.00 0.00 2.90
1539 9612 6.018425 CGTTGATGACAAGATTGATTCCCTAG 60.018 42.308 0.00 0.00 36.64 3.02
1575 9649 8.044908 GGAAGGAATTGATTACCTACAGTACAA 58.955 37.037 0.00 0.00 33.34 2.41
1613 9695 3.635373 CCGTAGAACCAATAGCCTGTAGA 59.365 47.826 0.00 0.00 0.00 2.59
1670 9782 3.728845 AGTAAGGTAGCAACACACACAG 58.271 45.455 0.00 0.00 0.00 3.66
1684 9810 3.423539 TCAAGCAGCATCAAGTAAGGT 57.576 42.857 0.00 0.00 0.00 3.50
1722 9864 2.501723 ACACCATGGCGAAGTAGATTCT 59.498 45.455 13.04 0.00 35.61 2.40
1723 9865 2.609459 CACACCATGGCGAAGTAGATTC 59.391 50.000 13.04 0.00 34.31 2.52
1724 9866 2.632377 CACACCATGGCGAAGTAGATT 58.368 47.619 13.04 0.00 0.00 2.40
1725 9867 1.134401 CCACACCATGGCGAAGTAGAT 60.134 52.381 13.04 0.00 43.24 1.98
1726 9868 0.249120 CCACACCATGGCGAAGTAGA 59.751 55.000 13.04 0.00 43.24 2.59
1727 9869 2.767536 CCACACCATGGCGAAGTAG 58.232 57.895 13.04 0.00 43.24 2.57
1736 9878 3.055080 GATGCACCGCCACACCATG 62.055 63.158 0.00 0.00 0.00 3.66
1737 9879 2.751436 GATGCACCGCCACACCAT 60.751 61.111 0.00 0.00 0.00 3.55
1738 9880 3.490031 AAGATGCACCGCCACACCA 62.490 57.895 0.00 0.00 0.00 4.17
1739 9881 2.672996 AAGATGCACCGCCACACC 60.673 61.111 0.00 0.00 0.00 4.16
1790 9960 3.189285 CTGAGCAAACCAAACAACAAGG 58.811 45.455 0.00 0.00 0.00 3.61
1823 10025 7.615757 ACTTACTTTGAGGCTTATATGGCTTTT 59.384 33.333 14.79 0.00 43.09 2.27
1838 10040 6.765036 ACCAGATGATGCATACTTACTTTGAG 59.235 38.462 0.00 0.00 0.00 3.02
1948 10167 1.901591 ACACACAAATGGAGAGCAGG 58.098 50.000 0.00 0.00 0.00 4.85
1988 10221 5.670485 AGCATTACAATAATCAGTCCGTCA 58.330 37.500 0.00 0.00 0.00 4.35
1989 10222 7.569591 GCTTAGCATTACAATAATCAGTCCGTC 60.570 40.741 0.00 0.00 0.00 4.79
2065 10302 5.971895 ACAAAACATAAAGCTGCAGTTTG 57.028 34.783 17.08 16.59 33.19 2.93
2089 10330 3.690628 CCATGTGTGTATGATCAGCACAA 59.309 43.478 26.96 19.93 43.51 3.33
2103 10380 5.902613 AGTTATCCAAATCACCATGTGTG 57.097 39.130 7.72 7.72 46.88 3.82
2158 10452 9.699703 CAGGTCTAAATCTAGGTAATAAAGAGC 57.300 37.037 0.00 0.00 0.00 4.09
2166 10460 9.589461 CTCTAATCCAGGTCTAAATCTAGGTAA 57.411 37.037 0.00 0.00 0.00 2.85
2169 10463 9.238368 CTACTCTAATCCAGGTCTAAATCTAGG 57.762 40.741 0.00 0.00 0.00 3.02
2182 10483 9.249053 TCTGGCTTATTATCTACTCTAATCCAG 57.751 37.037 0.00 0.00 33.52 3.86
2207 10508 7.147355 ACCTAGAATTAATCAGTTAACCCCCTC 60.147 40.741 0.88 0.00 32.91 4.30
2209 10510 6.907961 ACCTAGAATTAATCAGTTAACCCCC 58.092 40.000 0.88 0.00 32.91 5.40
2211 10512 7.803131 AGGACCTAGAATTAATCAGTTAACCC 58.197 38.462 0.88 0.00 32.91 4.11
2241 10544 5.652891 GGGAGTAAGTCACATCTTCTACAGA 59.347 44.000 0.00 0.00 35.33 3.41
2248 10551 2.761208 CGGAGGGAGTAAGTCACATCTT 59.239 50.000 0.00 0.00 0.00 2.40
2262 10565 1.731433 CTTATTCGCGGACGGAGGGA 61.731 60.000 6.13 0.00 40.63 4.20
2263 10566 1.299926 CTTATTCGCGGACGGAGGG 60.300 63.158 6.13 0.00 40.63 4.30
2264 10567 0.870307 CACTTATTCGCGGACGGAGG 60.870 60.000 6.13 0.00 40.63 4.30
2265 10568 0.179145 ACACTTATTCGCGGACGGAG 60.179 55.000 6.13 0.00 40.63 4.63
2266 10569 1.093972 TACACTTATTCGCGGACGGA 58.906 50.000 6.13 0.00 40.63 4.69
2267 10570 1.194495 GTACACTTATTCGCGGACGG 58.806 55.000 6.13 0.00 40.63 4.79
2268 10571 2.184385 AGTACACTTATTCGCGGACG 57.816 50.000 6.13 0.00 42.01 4.79
2269 10572 3.767278 AGAAGTACACTTATTCGCGGAC 58.233 45.455 6.13 0.00 36.11 4.79
2270 10573 4.497006 GCTAGAAGTACACTTATTCGCGGA 60.497 45.833 6.13 0.00 36.11 5.54
2271 10574 3.729716 GCTAGAAGTACACTTATTCGCGG 59.270 47.826 6.13 0.00 36.11 6.46
2272 10575 4.599047 AGCTAGAAGTACACTTATTCGCG 58.401 43.478 0.00 0.00 36.11 5.87
2273 10576 6.889019 AAAGCTAGAAGTACACTTATTCGC 57.111 37.500 0.00 0.00 36.11 4.70
2274 10577 8.240883 ACAAAAGCTAGAAGTACACTTATTCG 57.759 34.615 0.00 0.00 36.11 3.34
2275 10578 9.425577 AGACAAAAGCTAGAAGTACACTTATTC 57.574 33.333 0.00 0.00 36.11 1.75
2276 10579 9.780186 AAGACAAAAGCTAGAAGTACACTTATT 57.220 29.630 0.00 0.00 36.11 1.40
2279 10582 9.262358 CTTAAGACAAAAGCTAGAAGTACACTT 57.738 33.333 0.00 0.00 39.23 3.16
2280 10583 8.422566 ACTTAAGACAAAAGCTAGAAGTACACT 58.577 33.333 10.09 0.00 0.00 3.55
2281 10584 8.590719 ACTTAAGACAAAAGCTAGAAGTACAC 57.409 34.615 10.09 0.00 0.00 2.90
2282 10585 8.418662 TGACTTAAGACAAAAGCTAGAAGTACA 58.581 33.333 10.09 0.00 0.00 2.90
2283 10586 8.813643 TGACTTAAGACAAAAGCTAGAAGTAC 57.186 34.615 10.09 0.00 0.00 2.73
2284 10587 9.826574 TTTGACTTAAGACAAAAGCTAGAAGTA 57.173 29.630 24.34 4.07 36.92 2.24
2285 10588 8.732746 TTTGACTTAAGACAAAAGCTAGAAGT 57.267 30.769 24.34 0.00 36.92 3.01
2286 10589 8.831550 ACTTTGACTTAAGACAAAAGCTAGAAG 58.168 33.333 25.68 17.12 38.68 2.85
2287 10590 8.732746 ACTTTGACTTAAGACAAAAGCTAGAA 57.267 30.769 25.68 8.67 38.68 2.10
2288 10591 8.732746 AACTTTGACTTAAGACAAAAGCTAGA 57.267 30.769 25.68 9.24 38.68 2.43
2289 10592 9.788960 AAAACTTTGACTTAAGACAAAAGCTAG 57.211 29.630 25.68 18.71 38.68 3.42
2290 10593 9.567848 CAAAACTTTGACTTAAGACAAAAGCTA 57.432 29.630 25.68 10.37 40.55 3.32
2291 10594 8.303876 TCAAAACTTTGACTTAAGACAAAAGCT 58.696 29.630 25.68 14.63 41.88 3.74
2292 10595 8.460831 TCAAAACTTTGACTTAAGACAAAAGC 57.539 30.769 25.68 3.21 41.88 3.51
2306 10609 8.614469 AGTTGGTCAAAATTTCAAAACTTTGA 57.386 26.923 7.73 7.73 44.78 2.69
2500 10803 9.574458 GCCTCTAATTTTCTATGAAACCTTTTC 57.426 33.333 0.00 0.00 0.00 2.29
2501 10804 9.088987 TGCCTCTAATTTTCTATGAAACCTTTT 57.911 29.630 0.00 0.00 0.00 2.27
2502 10805 8.650143 TGCCTCTAATTTTCTATGAAACCTTT 57.350 30.769 0.00 0.00 0.00 3.11
2503 10806 8.829373 ATGCCTCTAATTTTCTATGAAACCTT 57.171 30.769 0.00 0.00 0.00 3.50
2504 10807 9.343539 GTATGCCTCTAATTTTCTATGAAACCT 57.656 33.333 0.00 0.00 0.00 3.50
2505 10808 9.120538 TGTATGCCTCTAATTTTCTATGAAACC 57.879 33.333 0.00 0.00 0.00 3.27
2508 10811 9.342308 CCTTGTATGCCTCTAATTTTCTATGAA 57.658 33.333 0.00 0.00 0.00 2.57
2509 10812 8.494433 ACCTTGTATGCCTCTAATTTTCTATGA 58.506 33.333 0.00 0.00 0.00 2.15
2510 10813 8.562892 CACCTTGTATGCCTCTAATTTTCTATG 58.437 37.037 0.00 0.00 0.00 2.23
2511 10814 7.229506 GCACCTTGTATGCCTCTAATTTTCTAT 59.770 37.037 0.00 0.00 37.08 1.98
2512 10815 6.542370 GCACCTTGTATGCCTCTAATTTTCTA 59.458 38.462 0.00 0.00 37.08 2.10
2513 10816 5.358160 GCACCTTGTATGCCTCTAATTTTCT 59.642 40.000 0.00 0.00 37.08 2.52
2514 10817 5.582550 GCACCTTGTATGCCTCTAATTTTC 58.417 41.667 0.00 0.00 37.08 2.29
2515 10818 4.096382 CGCACCTTGTATGCCTCTAATTTT 59.904 41.667 0.00 0.00 40.09 1.82
2516 10819 3.627577 CGCACCTTGTATGCCTCTAATTT 59.372 43.478 0.00 0.00 40.09 1.82
2517 10820 3.206150 CGCACCTTGTATGCCTCTAATT 58.794 45.455 0.00 0.00 40.09 1.40
2518 10821 2.485479 CCGCACCTTGTATGCCTCTAAT 60.485 50.000 0.00 0.00 40.09 1.73
2519 10822 1.134521 CCGCACCTTGTATGCCTCTAA 60.135 52.381 0.00 0.00 40.09 2.10
2520 10823 0.464036 CCGCACCTTGTATGCCTCTA 59.536 55.000 0.00 0.00 40.09 2.43
2521 10824 1.221840 CCGCACCTTGTATGCCTCT 59.778 57.895 0.00 0.00 40.09 3.69
2522 10825 2.472909 GCCGCACCTTGTATGCCTC 61.473 63.158 0.00 0.00 40.09 4.70
2523 10826 2.438434 GCCGCACCTTGTATGCCT 60.438 61.111 0.00 0.00 40.09 4.75
2524 10827 2.749839 TGCCGCACCTTGTATGCC 60.750 61.111 0.00 0.00 40.09 4.40
2525 10828 2.793946 CTGCCGCACCTTGTATGC 59.206 61.111 0.00 0.00 39.81 3.14
2526 10829 2.764314 GGCTGCCGCACCTTGTATG 61.764 63.158 1.35 0.00 38.10 2.39
2527 10830 2.438434 GGCTGCCGCACCTTGTAT 60.438 61.111 1.35 0.00 38.10 2.29
2528 10831 3.899981 CTGGCTGCCGCACCTTGTA 62.900 63.158 14.98 0.00 38.10 2.41
2538 10841 4.410743 GTTTCGCTGCTGGCTGCC 62.411 66.667 12.87 12.87 42.00 4.85
2539 10842 3.198236 TTGTTTCGCTGCTGGCTGC 62.198 57.895 9.67 9.67 43.25 5.25
2540 10843 1.370900 GTTGTTTCGCTGCTGGCTG 60.371 57.895 0.00 0.00 39.13 4.85
2541 10844 0.250295 TAGTTGTTTCGCTGCTGGCT 60.250 50.000 0.00 0.00 39.13 4.75
2542 10845 0.166814 CTAGTTGTTTCGCTGCTGGC 59.833 55.000 0.00 0.00 37.64 4.85
2543 10846 0.798776 CCTAGTTGTTTCGCTGCTGG 59.201 55.000 0.00 0.00 0.00 4.85
2544 10847 0.798776 CCCTAGTTGTTTCGCTGCTG 59.201 55.000 0.00 0.00 0.00 4.41
2545 10848 0.685097 TCCCTAGTTGTTTCGCTGCT 59.315 50.000 0.00 0.00 0.00 4.24
2546 10849 1.398390 CATCCCTAGTTGTTTCGCTGC 59.602 52.381 0.00 0.00 0.00 5.25
2547 10850 2.009774 CCATCCCTAGTTGTTTCGCTG 58.990 52.381 0.00 0.00 0.00 5.18
2548 10851 1.679032 GCCATCCCTAGTTGTTTCGCT 60.679 52.381 0.00 0.00 0.00 4.93
2549 10852 0.733150 GCCATCCCTAGTTGTTTCGC 59.267 55.000 0.00 0.00 0.00 4.70
2550 10853 1.006832 CGCCATCCCTAGTTGTTTCG 58.993 55.000 0.00 0.00 0.00 3.46
2551 10854 0.733150 GCGCCATCCCTAGTTGTTTC 59.267 55.000 0.00 0.00 0.00 2.78
2552 10855 0.679960 GGCGCCATCCCTAGTTGTTT 60.680 55.000 24.80 0.00 0.00 2.83
2553 10856 1.077716 GGCGCCATCCCTAGTTGTT 60.078 57.895 24.80 0.00 0.00 2.83
2554 10857 2.257409 CTGGCGCCATCCCTAGTTGT 62.257 60.000 32.87 0.00 0.00 3.32
2555 10858 1.524621 CTGGCGCCATCCCTAGTTG 60.525 63.158 32.87 11.30 0.00 3.16
2556 10859 1.995626 ACTGGCGCCATCCCTAGTT 60.996 57.895 32.87 5.02 0.00 2.24
2557 10860 2.365635 ACTGGCGCCATCCCTAGT 60.366 61.111 32.87 20.72 0.00 2.57
2558 10861 2.109799 CACTGGCGCCATCCCTAG 59.890 66.667 32.87 19.96 0.00 3.02
2559 10862 3.479203 CCACTGGCGCCATCCCTA 61.479 66.667 32.87 5.45 0.00 3.53


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

AutoCloner maintained by Alex Coulton.