Multiple sequence alignment - TraesCS4A01G360100

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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 TraesCS4A01G360100 chr4A 100.000 6027 0 0 1 6027 633065696 633071722 0.000000e+00 11130.0
1 TraesCS4A01G360100 chr4A 93.460 474 28 3 468 940 551785841 551786312 0.000000e+00 701.0
2 TraesCS4A01G360100 chr4A 93.311 299 18 2 3 300 551785222 551785519 1.990000e-119 440.0
3 TraesCS4A01G360100 chr4A 97.917 96 2 0 282 377 551785530 551785625 3.740000e-37 167.0
4 TraesCS4A01G360100 chr4A 86.486 74 8 2 1271 1344 120378882 120378811 5.010000e-11 80.5
5 TraesCS4A01G360100 chr5D 93.992 4594 212 19 1472 6026 536882253 536877685 0.000000e+00 6896.0
6 TraesCS4A01G360100 chr5D 93.750 272 15 1 941 1210 536882706 536882435 2.020000e-109 407.0
7 TraesCS4A01G360100 chr5D 90.541 296 23 4 9 300 418463731 418463437 2.630000e-103 387.0
8 TraesCS4A01G360100 chr5D 84.755 387 33 17 9 370 44184627 44185012 1.230000e-96 364.0
9 TraesCS4A01G360100 chr5D 93.684 95 4 1 285 377 418463423 418463329 2.260000e-29 141.0
10 TraesCS4A01G360100 chr5B 91.673 3723 207 35 1348 5016 677638591 677642264 0.000000e+00 5062.0
11 TraesCS4A01G360100 chr5B 83.893 447 55 14 501 936 35512874 35512434 1.560000e-110 411.0
12 TraesCS4A01G360100 chr5B 90.939 309 16 6 5045 5342 677642264 677642571 7.270000e-109 405.0
13 TraesCS4A01G360100 chr5B 86.179 246 25 3 11 247 480399193 480398948 2.160000e-64 257.0
14 TraesCS4A01G360100 chr5B 81.311 305 35 9 5723 6010 677644679 677644978 1.690000e-55 228.0
15 TraesCS4A01G360100 chr5B 97.143 35 1 0 5343 5377 677642585 677642619 6.520000e-05 60.2
16 TraesCS4A01G360100 chr3D 93.162 585 35 5 359 941 554715195 554714614 0.000000e+00 854.0
17 TraesCS4A01G360100 chr3D 94.865 370 17 2 9 377 554715917 554715549 1.460000e-160 577.0
18 TraesCS4A01G360100 chr3D 74.941 423 99 5 2451 2867 601223505 601223084 2.870000e-43 187.0
19 TraesCS4A01G360100 chr3D 80.930 215 37 4 1967 2179 601223963 601223751 3.740000e-37 167.0
20 TraesCS4A01G360100 chr3D 94.915 59 3 0 319 377 554715409 554715351 6.430000e-15 93.5
21 TraesCS4A01G360100 chr3D 85.185 81 11 1 1261 1341 602747377 602747298 1.390000e-11 82.4
22 TraesCS4A01G360100 chr7B 92.020 589 38 6 359 941 748028139 748028724 0.000000e+00 819.0
23 TraesCS4A01G360100 chr7B 90.630 587 36 5 359 940 180050237 180049665 0.000000e+00 761.0
24 TraesCS4A01G360100 chr7B 87.500 640 49 10 303 940 62817344 62816734 0.000000e+00 710.0
25 TraesCS4A01G360100 chr7B 90.365 301 19 5 9 300 748027512 748027811 2.630000e-103 387.0
26 TraesCS4A01G360100 chr7B 89.298 299 24 6 9 300 62817867 62817570 9.540000e-98 368.0
27 TraesCS4A01G360100 chr7B 86.923 260 29 3 682 940 3185210 3185465 2.750000e-73 287.0
28 TraesCS4A01G360100 chr7D 88.000 300 26 6 9 300 5794000 5793703 4.470000e-91 346.0
29 TraesCS4A01G360100 chr7D 88.506 87 8 2 1264 1349 586795048 586794963 2.970000e-18 104.0
30 TraesCS4A01G360100 chr3B 88.077 260 27 2 681 940 812716677 812716422 7.590000e-79 305.0
31 TraesCS4A01G360100 chr3B 85.522 297 27 15 9 300 755659229 755658944 4.570000e-76 296.0
32 TraesCS4A01G360100 chr3B 86.380 279 27 7 9 278 812717476 812717200 1.640000e-75 294.0
33 TraesCS4A01G360100 chr5A 85.921 277 34 3 681 956 316128865 316128593 2.130000e-74 291.0
34 TraesCS4A01G360100 chr5A 83.750 80 10 3 1263 1341 680598125 680598202 8.380000e-09 73.1
35 TraesCS4A01G360100 chr7A 85.932 263 32 4 681 940 12115308 12115568 5.950000e-70 276.0
36 TraesCS4A01G360100 chr7A 91.304 69 6 0 1264 1332 4803575 4803643 1.790000e-15 95.3
37 TraesCS4A01G360100 chr7A 96.970 33 1 0 283 315 12114810 12114842 8.440000e-04 56.5
38 TraesCS4A01G360100 chr1D 73.720 742 164 16 2447 3162 433954656 433955392 1.670000e-65 261.0
39 TraesCS4A01G360100 chr1D 82.927 82 10 4 1264 1344 460919837 460919759 3.010000e-08 71.3
40 TraesCS4A01G360100 chr1B 73.871 731 140 33 3342 4058 587524510 587525203 1.680000e-60 244.0
41 TraesCS4A01G360100 chr2A 89.744 78 7 1 1264 1341 59693764 59693840 1.380000e-16 99.0
42 TraesCS4A01G360100 chr2A 96.970 33 1 0 283 315 704703580 704703612 8.440000e-04 56.5
43 TraesCS4A01G360100 chr2B 85.057 87 9 4 1260 1345 2347065 2346982 1.080000e-12 86.1
44 TraesCS4A01G360100 chr2B 84.615 78 11 1 1264 1341 797236554 797236478 6.480000e-10 76.8
45 TraesCS4A01G360100 chrUn 77.869 122 23 4 2732 2851 2239334 2239215 8.380000e-09 73.1
46 TraesCS4A01G360100 chrUn 77.869 122 23 4 2732 2851 317660162 317660281 8.380000e-09 73.1
47 TraesCS4A01G360100 chrUn 77.869 122 23 4 2732 2851 318824144 318824025 8.380000e-09 73.1
48 TraesCS4A01G360100 chr2D 90.698 43 3 1 283 324 76864729 76864687 8.440000e-04 56.5


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 TraesCS4A01G360100 chr4A 633065696 633071722 6026 False 11130.000000 11130 100.0000 1 6027 1 chr4A.!!$F1 6026
1 TraesCS4A01G360100 chr4A 551785222 551786312 1090 False 436.000000 701 94.8960 3 940 3 chr4A.!!$F2 937
2 TraesCS4A01G360100 chr5D 536877685 536882706 5021 True 3651.500000 6896 93.8710 941 6026 2 chr5D.!!$R2 5085
3 TraesCS4A01G360100 chr5B 677638591 677644978 6387 False 1438.800000 5062 90.2665 1348 6010 4 chr5B.!!$F1 4662
4 TraesCS4A01G360100 chr3D 554714614 554715917 1303 True 508.166667 854 94.3140 9 941 3 chr3D.!!$R2 932
5 TraesCS4A01G360100 chr7B 180049665 180050237 572 True 761.000000 761 90.6300 359 940 1 chr7B.!!$R1 581
6 TraesCS4A01G360100 chr7B 748027512 748028724 1212 False 603.000000 819 91.1925 9 941 2 chr7B.!!$F2 932
7 TraesCS4A01G360100 chr7B 62816734 62817867 1133 True 539.000000 710 88.3990 9 940 2 chr7B.!!$R2 931
8 TraesCS4A01G360100 chr3B 812716422 812717476 1054 True 299.500000 305 87.2285 9 940 2 chr3B.!!$R2 931
9 TraesCS4A01G360100 chr1D 433954656 433955392 736 False 261.000000 261 73.7200 2447 3162 1 chr1D.!!$F1 715
10 TraesCS4A01G360100 chr1B 587524510 587525203 693 False 244.000000 244 73.8710 3342 4058 1 chr1B.!!$F1 716

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
957 1639 0.035725 TCGTCGACAGGGAGAAGCTA 60.036 55.000 17.16 0.0 0.00 3.32 F
1233 1958 0.599060 TGCAGTGATCCGTCGTTGTA 59.401 50.000 0.00 0.0 0.00 2.41 F
1991 2750 1.116308 TGTTGAGGACAGTCGTTGGA 58.884 50.000 0.00 0.0 33.40 3.53 F
3278 4087 0.597377 GTTGGCCTTGCGAAAACCTG 60.597 55.000 3.32 0.0 0.00 4.00 F
4581 5414 1.134175 CCAGGCAAACAACAACTCGTT 59.866 47.619 0.00 0.0 38.83 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2144 2903 0.455410 TGCGCAAGGGTAATGAATGC 59.545 50.000 8.16 0.0 38.28 3.56 R
3156 3965 0.615850 GCCAGTCTCCCCTATATGGC 59.384 60.000 0.00 0.0 45.61 4.40 R
3327 4136 0.881796 GCTCCACCAGCCTTTTGTAC 59.118 55.000 0.00 0.0 43.17 2.90 R
4588 5421 1.003355 GCTGTACCCTTGCTGCTGA 60.003 57.895 0.00 0.0 30.92 4.26 R
5647 8281 0.469494 ACACACACATGCTCCTGTCA 59.531 50.000 0.00 0.0 0.00 3.58 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
142 143 6.197364 ACAATCCGTTTGTTGACTGTTTTA 57.803 33.333 0.00 0.00 46.51 1.52
159 160 9.373750 GACTGTTTTATTTGACCGTTAACTTAC 57.626 33.333 3.71 0.00 0.00 2.34
167 168 3.579586 TGACCGTTAACTTACTGTGGGAT 59.420 43.478 3.71 0.00 0.00 3.85
214 226 4.392940 CTCCATTCTCTCCTCTCTCTCTC 58.607 52.174 0.00 0.00 0.00 3.20
574 1181 4.368543 GCGTCGTTTCCTCCGGGT 62.369 66.667 0.00 0.00 0.00 5.28
579 1186 2.112297 GTTTCCTCCGGGTGCACA 59.888 61.111 20.43 0.00 0.00 4.57
584 1191 2.260869 CCTCCGGGTGCACAAGTTG 61.261 63.158 20.43 0.00 0.00 3.16
617 1291 6.418141 CCGATTGCTTTTTCGAAAAACATTT 58.582 32.000 27.64 19.47 37.55 2.32
619 1293 7.525854 CCGATTGCTTTTTCGAAAAACATTTAC 59.474 33.333 27.64 17.02 37.55 2.01
669 1343 3.081804 ACAGGGGTTTTCTCTAAATGCG 58.918 45.455 0.00 0.00 0.00 4.73
750 1424 4.753107 CACATGTAAGGTAACGGTCAAACT 59.247 41.667 0.00 0.00 46.39 2.66
957 1639 0.035725 TCGTCGACAGGGAGAAGCTA 60.036 55.000 17.16 0.00 0.00 3.32
968 1650 2.017138 GAGAAGCTACTCCTGGCAAC 57.983 55.000 0.00 0.00 0.00 4.17
1018 1700 4.988716 TGGCCTCGTCCAGTCGGT 62.989 66.667 3.32 0.00 0.00 4.69
1060 1744 3.539604 GATGAAACTAGTCCATGCTGCT 58.460 45.455 13.47 0.00 0.00 4.24
1169 1853 2.800541 CCTCTATCGCTGGGCTGCA 61.801 63.158 0.50 0.00 0.00 4.41
1202 1886 3.950794 TAAGCTGCCTCCGTTGCCG 62.951 63.158 0.00 0.00 0.00 5.69
1233 1958 0.599060 TGCAGTGATCCGTCGTTGTA 59.401 50.000 0.00 0.00 0.00 2.41
1237 1962 2.161808 CAGTGATCCGTCGTTGTAGAGT 59.838 50.000 0.00 0.00 0.00 3.24
1244 1969 4.726416 TCCGTCGTTGTAGAGTACATTTC 58.274 43.478 0.00 0.00 38.68 2.17
1250 1975 7.096353 CGTCGTTGTAGAGTACATTTCTTTTCA 60.096 37.037 0.00 0.00 38.68 2.69
1251 1976 8.002665 GTCGTTGTAGAGTACATTTCTTTTCAC 58.997 37.037 0.00 0.00 38.68 3.18
1252 1977 7.170320 TCGTTGTAGAGTACATTTCTTTTCACC 59.830 37.037 0.00 0.00 38.68 4.02
1264 1989 8.584157 ACATTTCTTTTCACCAATTAGCACATA 58.416 29.630 0.00 0.00 0.00 2.29
1266 1991 7.759489 TTCTTTTCACCAATTAGCACATACT 57.241 32.000 0.00 0.00 0.00 2.12
1267 1992 7.377766 TCTTTTCACCAATTAGCACATACTC 57.622 36.000 0.00 0.00 0.00 2.59
1268 1993 6.374333 TCTTTTCACCAATTAGCACATACTCC 59.626 38.462 0.00 0.00 0.00 3.85
1269 1994 4.150897 TCACCAATTAGCACATACTCCC 57.849 45.455 0.00 0.00 0.00 4.30
1270 1995 3.780294 TCACCAATTAGCACATACTCCCT 59.220 43.478 0.00 0.00 0.00 4.20
1271 1996 4.130118 CACCAATTAGCACATACTCCCTC 58.870 47.826 0.00 0.00 0.00 4.30
1272 1997 3.136626 ACCAATTAGCACATACTCCCTCC 59.863 47.826 0.00 0.00 0.00 4.30
1273 1998 3.136443 CCAATTAGCACATACTCCCTCCA 59.864 47.826 0.00 0.00 0.00 3.86
1274 1999 4.202503 CCAATTAGCACATACTCCCTCCAT 60.203 45.833 0.00 0.00 0.00 3.41
1275 2000 5.013079 CCAATTAGCACATACTCCCTCCATA 59.987 44.000 0.00 0.00 0.00 2.74
1276 2001 6.465751 CCAATTAGCACATACTCCCTCCATAA 60.466 42.308 0.00 0.00 0.00 1.90
1277 2002 6.763715 ATTAGCACATACTCCCTCCATAAA 57.236 37.500 0.00 0.00 0.00 1.40
1278 2003 4.696479 AGCACATACTCCCTCCATAAAG 57.304 45.455 0.00 0.00 0.00 1.85
1279 2004 4.298626 AGCACATACTCCCTCCATAAAGA 58.701 43.478 0.00 0.00 0.00 2.52
1280 2005 4.721776 AGCACATACTCCCTCCATAAAGAA 59.278 41.667 0.00 0.00 0.00 2.52
1281 2006 5.191722 AGCACATACTCCCTCCATAAAGAAA 59.808 40.000 0.00 0.00 0.00 2.52
1282 2007 6.064717 GCACATACTCCCTCCATAAAGAAAT 58.935 40.000 0.00 0.00 0.00 2.17
1283 2008 7.072454 AGCACATACTCCCTCCATAAAGAAATA 59.928 37.037 0.00 0.00 0.00 1.40
1284 2009 7.885399 GCACATACTCCCTCCATAAAGAAATAT 59.115 37.037 0.00 0.00 0.00 1.28
1290 2015 9.355916 ACTCCCTCCATAAAGAAATATAAAAGC 57.644 33.333 0.00 0.00 0.00 3.51
1291 2016 8.391075 TCCCTCCATAAAGAAATATAAAAGCG 57.609 34.615 0.00 0.00 0.00 4.68
1292 2017 7.996644 TCCCTCCATAAAGAAATATAAAAGCGT 59.003 33.333 0.00 0.00 0.00 5.07
1293 2018 8.630037 CCCTCCATAAAGAAATATAAAAGCGTT 58.370 33.333 0.00 0.00 0.00 4.84
1311 2036 9.620660 AAAAGCGTTTAGACCATTACTTTAATG 57.379 29.630 0.00 0.00 43.94 1.90
1312 2037 8.556213 AAGCGTTTAGACCATTACTTTAATGA 57.444 30.769 7.38 0.00 46.52 2.57
1313 2038 8.732746 AGCGTTTAGACCATTACTTTAATGAT 57.267 30.769 7.38 0.00 46.52 2.45
1314 2039 8.827677 AGCGTTTAGACCATTACTTTAATGATC 58.172 33.333 7.38 0.45 46.52 2.92
1454 2180 5.565695 GTCGAAAACTTTGCTTTACTGTCA 58.434 37.500 0.00 0.00 0.00 3.58
1455 2181 5.677178 GTCGAAAACTTTGCTTTACTGTCAG 59.323 40.000 0.00 0.00 0.00 3.51
1456 2182 4.970003 CGAAAACTTTGCTTTACTGTCAGG 59.030 41.667 4.53 0.00 0.00 3.86
1457 2183 5.448632 CGAAAACTTTGCTTTACTGTCAGGT 60.449 40.000 4.53 0.00 0.00 4.00
1458 2184 4.900635 AACTTTGCTTTACTGTCAGGTG 57.099 40.909 4.53 0.00 0.00 4.00
1459 2185 3.886123 ACTTTGCTTTACTGTCAGGTGT 58.114 40.909 4.53 0.00 0.00 4.16
1460 2186 3.877508 ACTTTGCTTTACTGTCAGGTGTC 59.122 43.478 4.53 0.00 0.00 3.67
1461 2187 3.552132 TTGCTTTACTGTCAGGTGTCA 57.448 42.857 4.53 0.00 0.00 3.58
1462 2188 3.552132 TGCTTTACTGTCAGGTGTCAA 57.448 42.857 4.53 0.00 0.00 3.18
1463 2189 3.879998 TGCTTTACTGTCAGGTGTCAAA 58.120 40.909 4.53 0.00 0.00 2.69
1464 2190 4.265893 TGCTTTACTGTCAGGTGTCAAAA 58.734 39.130 4.53 0.00 0.00 2.44
1465 2191 4.702612 TGCTTTACTGTCAGGTGTCAAAAA 59.297 37.500 4.53 0.00 0.00 1.94
1506 2248 4.023980 TGTTGGTCCAGATCTAATCTCGT 58.976 43.478 0.00 0.00 37.58 4.18
1581 2323 8.458573 TTTGTTAGTTGAAATCAAAGGAGCTA 57.541 30.769 0.00 0.00 37.63 3.32
1634 2376 3.194062 GACCTCTTCAGCTTGCTGATAC 58.806 50.000 23.50 9.68 32.91 2.24
1685 2430 3.070018 TGCAGCTGCTCTTTAGTTCTTC 58.930 45.455 36.61 5.77 42.66 2.87
1718 2463 3.766591 CCTCTCCTTGCAGAAGTCTAAGA 59.233 47.826 0.00 0.00 0.00 2.10
1724 2469 4.262635 CCTTGCAGAAGTCTAAGAGGAACA 60.263 45.833 0.00 0.00 0.00 3.18
1775 2522 2.771089 TCATTGAGTTCACAGGAGCAC 58.229 47.619 0.00 0.00 0.00 4.40
1797 2544 7.816031 AGCACACTATTTTCATTCCATTTTCAG 59.184 33.333 0.00 0.00 0.00 3.02
1819 2566 5.882557 CAGTTTACCTTTCTGCATGGATAGT 59.117 40.000 0.00 0.00 0.00 2.12
1820 2567 6.037610 CAGTTTACCTTTCTGCATGGATAGTC 59.962 42.308 0.00 0.00 0.00 2.59
1832 2579 1.548719 TGGATAGTCTGTGGAACGGTG 59.451 52.381 0.00 0.00 45.64 4.94
1948 2695 4.202050 GCCATGTCATGTTGGGATAAGTTC 60.202 45.833 11.84 0.00 33.40 3.01
1949 2696 4.035558 CCATGTCATGTTGGGATAAGTTCG 59.964 45.833 11.84 0.00 0.00 3.95
1953 2712 2.483014 TGTTGGGATAAGTTCGGTGG 57.517 50.000 0.00 0.00 0.00 4.61
1956 2715 1.200519 TGGGATAAGTTCGGTGGAGG 58.799 55.000 0.00 0.00 0.00 4.30
1964 2723 1.228521 TTCGGTGGAGGGTCACGTA 60.229 57.895 0.00 0.00 38.46 3.57
1991 2750 1.116308 TGTTGAGGACAGTCGTTGGA 58.884 50.000 0.00 0.00 33.40 3.53
2002 2761 3.004524 ACAGTCGTTGGACAGAAGTAGAC 59.995 47.826 0.00 0.00 45.92 2.59
2005 2764 5.008331 AGTCGTTGGACAGAAGTAGACATA 58.992 41.667 0.00 0.00 45.92 2.29
2017 2776 6.531948 CAGAAGTAGACATAGCCAACAGTTAC 59.468 42.308 0.00 0.00 0.00 2.50
2112 2871 1.885887 TCTTCTTGGCGGTTTCATTGG 59.114 47.619 0.00 0.00 0.00 3.16
2160 2919 3.193267 TGTCTTGCATTCATTACCCTTGC 59.807 43.478 0.00 0.00 0.00 4.01
2201 2963 3.674997 CCTGCTTGTTACTTCTGCCTAA 58.325 45.455 0.00 0.00 0.00 2.69
2295 3068 7.857734 TGTCTTGTCAAAACTTATCTTGTCA 57.142 32.000 0.00 0.00 0.00 3.58
2380 3153 6.072064 GCTGAGCTATATTGGAGATGCATTTT 60.072 38.462 0.00 0.00 0.00 1.82
2411 3184 2.248280 TATGTTGCATACGCCGGAAT 57.752 45.000 5.05 0.00 37.32 3.01
2416 3189 1.881252 GCATACGCCGGAATGTCGT 60.881 57.895 5.05 7.60 39.88 4.34
2440 3225 4.142622 ACAACATATGGCGAACTGTTCATG 60.143 41.667 19.56 16.01 29.74 3.07
2529 3314 2.251642 GCTTTCGGTGTGGCGTCTT 61.252 57.895 0.00 0.00 0.00 3.01
2676 3467 5.070580 GGGGTCTATAGTGAATGCAGTAGTT 59.929 44.000 0.00 0.00 33.64 2.24
2903 3694 2.065799 AGTGAAAGAGGTCAATGGGGT 58.934 47.619 0.00 0.00 0.00 4.95
2907 3698 3.263425 TGAAAGAGGTCAATGGGGTAGAC 59.737 47.826 0.00 0.00 0.00 2.59
2973 3782 2.254152 TAATGTCTGCACCCTCTCCT 57.746 50.000 0.00 0.00 0.00 3.69
2991 3800 6.455690 TCTCCTGATATAGTCCAGAAGCTA 57.544 41.667 0.00 0.00 32.37 3.32
3008 3817 2.449031 CTACTGCAGACGTTGGGCCA 62.449 60.000 23.35 0.00 0.00 5.36
3149 3958 7.220300 CCTTGACACATACGAAGAATACAGTAC 59.780 40.741 0.00 0.00 0.00 2.73
3156 3965 5.821516 ACGAAGAATACAGTACTCTCCAG 57.178 43.478 0.00 0.00 0.00 3.86
3265 4074 0.846693 AGGGGACTATGATGTTGGCC 59.153 55.000 0.00 0.00 40.61 5.36
3278 4087 0.597377 GTTGGCCTTGCGAAAACCTG 60.597 55.000 3.32 0.00 0.00 4.00
3319 4128 3.007290 TGAGAGAAGTGACCATGACCTTG 59.993 47.826 0.00 0.00 0.00 3.61
3406 4215 4.198530 TGACAACTGCAGAGTCATTTTCA 58.801 39.130 29.48 16.67 37.36 2.69
3611 4420 5.048921 GTGATGAAATCTCATGCAGTATGGG 60.049 44.000 0.00 0.00 45.81 4.00
3632 4441 3.498121 GGATTGATCACAGCCATGAGGAT 60.498 47.826 0.00 0.00 36.89 3.24
3697 4506 2.285834 GCTATTTGGATTCTCACGCACG 60.286 50.000 0.00 0.00 0.00 5.34
3849 4658 2.103263 GGCTCTATCATCCGAAACCAGT 59.897 50.000 0.00 0.00 0.00 4.00
3958 4776 3.518590 GCAGCTGAAATCCTGGAAAATG 58.481 45.455 20.43 0.00 0.00 2.32
4022 4840 1.339291 GAAGGAAGCTATGCCCATTGC 59.661 52.381 6.59 6.59 39.31 3.56
4059 4879 9.908152 GTAACTTACTGCCATTTGTTTTATTCT 57.092 29.630 0.00 0.00 0.00 2.40
4082 4904 8.642908 TCTTGTATTAACTATCGACCACAATG 57.357 34.615 0.00 0.00 0.00 2.82
4122 4944 8.826710 TGTATTCTAGAAAATACTGAATTGCCG 58.173 33.333 9.71 0.00 40.96 5.69
4250 5079 8.924303 ACAAGTATTCTAGGATTGCATAGTGTA 58.076 33.333 0.00 0.00 30.71 2.90
4273 5102 8.380099 TGTAGGTAAATATGTTCCTTTCAGTGT 58.620 33.333 0.00 0.00 0.00 3.55
4435 5264 6.995091 CCTGAAACCCAAAAATATTGTTTCCA 59.005 34.615 18.39 10.37 42.42 3.53
4462 5291 5.344396 GCAGCTGCTTGAAGAAATACTTTTC 59.656 40.000 31.33 0.00 38.77 2.29
4488 5321 6.070251 TGGCCAACAGAAGAAAGACATATAGA 60.070 38.462 0.61 0.00 0.00 1.98
4581 5414 1.134175 CCAGGCAAACAACAACTCGTT 59.866 47.619 0.00 0.00 38.83 3.85
4630 5463 3.091417 GTTTCGCATGTTATCTCGTTGC 58.909 45.455 0.00 0.00 0.00 4.17
4631 5464 2.003196 TCGCATGTTATCTCGTTGCA 57.997 45.000 0.00 0.00 0.00 4.08
4689 5522 5.892119 AGGACTTGACAGATCTATTTACGGA 59.108 40.000 0.00 0.00 0.00 4.69
4723 5556 0.373716 GCGGTGGAATTAGCTTCGTG 59.626 55.000 0.00 0.00 34.45 4.35
4896 5729 2.676839 CCAGTGCTTCAGATGACATGTC 59.323 50.000 19.27 19.27 0.00 3.06
4921 5754 6.610075 ATTCTTGATGGCTACATGGTTTTT 57.390 33.333 0.00 0.00 37.47 1.94
5123 5959 0.784495 ACTAGTGGAGAGGGTGGTGA 59.216 55.000 0.00 0.00 0.00 4.02
5124 5960 1.362932 ACTAGTGGAGAGGGTGGTGAT 59.637 52.381 0.00 0.00 0.00 3.06
5162 5998 4.024556 CGATCTTTTGTTCAGTTGCTCTGT 60.025 41.667 8.75 0.00 43.97 3.41
5192 6029 3.946201 CGGCTAGGGATGGCCTGG 61.946 72.222 3.32 0.00 45.57 4.45
5206 6043 1.950216 GGCCTGGCTCTTTACTTATGC 59.050 52.381 19.68 0.00 0.00 3.14
5311 6156 4.911514 TTTCTGGGTTGTGTAAAAGAGC 57.088 40.909 0.00 0.00 0.00 4.09
5389 6247 2.943653 GGGAACCGTGCTTGAACG 59.056 61.111 0.00 0.00 40.86 3.95
5491 8115 1.665916 CCAGCTCCGCCATGTATCG 60.666 63.158 0.00 0.00 0.00 2.92
5512 8136 1.355718 ATGATGGACGCTTCCCCCAT 61.356 55.000 6.80 7.15 42.01 4.00
5514 8138 0.035458 GATGGACGCTTCCCCCATAG 59.965 60.000 6.80 0.00 42.01 2.23
5614 8248 7.916077 TTATTTTCAGTTTTCCCTGGGTTTA 57.084 32.000 13.56 0.00 33.14 2.01
5617 8251 6.816616 TTTCAGTTTTCCCTGGGTTTATTT 57.183 33.333 13.56 0.00 33.14 1.40
5619 8253 6.168270 TCAGTTTTCCCTGGGTTTATTTTG 57.832 37.500 13.56 4.59 33.14 2.44
5627 8261 6.140377 TCCCTGGGTTTATTTTGTTTCTCTT 58.860 36.000 13.56 0.00 0.00 2.85
5704 8338 0.763035 ACAGGTTAGTGTTTCCGCCT 59.237 50.000 0.00 0.00 0.00 5.52
5705 8339 1.156736 CAGGTTAGTGTTTCCGCCTG 58.843 55.000 0.00 0.00 37.71 4.85
5823 8461 2.872028 GCACAGTTTTGCTTCACCG 58.128 52.632 0.00 0.00 39.59 4.94
5843 8481 2.223971 CGGACGGGAGCACAATTAGTAT 60.224 50.000 0.00 0.00 0.00 2.12
5954 8603 1.272037 TGGGAGCACAGATTTGCATGA 60.272 47.619 0.00 0.00 45.62 3.07
5955 8604 2.029623 GGGAGCACAGATTTGCATGAT 58.970 47.619 0.00 0.00 45.62 2.45
5956 8605 2.429610 GGGAGCACAGATTTGCATGATT 59.570 45.455 0.00 0.00 45.62 2.57
5957 8606 3.490419 GGGAGCACAGATTTGCATGATTC 60.490 47.826 0.00 0.00 45.62 2.52
5958 8607 3.380637 GGAGCACAGATTTGCATGATTCT 59.619 43.478 0.00 0.00 45.62 2.40
5959 8608 4.142227 GGAGCACAGATTTGCATGATTCTT 60.142 41.667 0.00 0.00 45.62 2.52
5960 8609 5.401531 AGCACAGATTTGCATGATTCTTT 57.598 34.783 0.00 0.00 45.62 2.52
5961 8610 5.790593 AGCACAGATTTGCATGATTCTTTT 58.209 33.333 0.00 0.00 45.62 2.27
5962 8611 6.228258 AGCACAGATTTGCATGATTCTTTTT 58.772 32.000 0.00 0.00 45.62 1.94
6023 8672 2.351455 TCTCGGCATATGAAACGCAAA 58.649 42.857 6.97 0.00 0.00 3.68
6026 8675 1.559831 GGCATATGAAACGCAAAGGC 58.440 50.000 6.97 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 1.299648 CAGCCGACCCCTGAATTGA 59.700 57.895 0.00 0.00 32.03 2.57
68 69 5.213675 CCGGTTTAAAATGTTAGCAACGAA 58.786 37.500 0.00 0.00 0.00 3.85
136 137 8.891720 ACAGTAAGTTAACGGTCAAATAAAACA 58.108 29.630 0.00 0.00 0.00 2.83
142 143 4.758165 CCCACAGTAAGTTAACGGTCAAAT 59.242 41.667 0.00 0.00 0.00 2.32
167 168 6.655003 GGAAGAAGAAACATCTTACATGTGGA 59.345 38.462 9.11 7.21 37.63 4.02
214 226 0.829990 GGGCAAGGAGGAGAGAAGAG 59.170 60.000 0.00 0.00 0.00 2.85
505 1111 4.083862 GAAAGGAGGCGGCCGACT 62.084 66.667 39.07 39.07 35.26 4.18
617 1291 2.188062 AAAAAGCAATCGGGTCCGTA 57.812 45.000 9.36 0.00 40.74 4.02
750 1424 0.391395 AACCGTTTGTGTGACCGTCA 60.391 50.000 0.00 0.00 0.00 4.35
929 1611 2.947652 TCCCTGTCGACGAGTAAATAGG 59.052 50.000 11.62 9.08 0.00 2.57
957 1639 2.203788 TCCGGAGTTGCCAGGAGT 60.204 61.111 0.00 0.00 35.40 3.85
961 1643 1.903877 ATGTCCTCCGGAGTTGCCAG 61.904 60.000 29.25 13.41 35.94 4.85
968 1650 3.976339 GACATGATGTCCTCCGGAG 57.024 57.895 25.36 25.36 41.37 4.63
1018 1700 2.186160 CAGCGTGCCACCAAGACAA 61.186 57.895 0.00 0.00 0.00 3.18
1060 1744 4.020617 CAGGAGCCAGTGCCCGAA 62.021 66.667 0.00 0.00 38.69 4.30
1154 1838 1.593750 GTCTGCAGCCCAGCGATAG 60.594 63.158 9.47 0.00 41.50 2.08
1156 1840 4.479993 GGTCTGCAGCCCAGCGAT 62.480 66.667 9.40 0.00 41.50 4.58
1210 1894 1.141665 CGACGGATCACTGCATCCA 59.858 57.895 4.99 0.00 42.50 3.41
1233 1958 8.515414 GCTAATTGGTGAAAAGAAATGTACTCT 58.485 33.333 0.00 0.00 0.00 3.24
1237 1962 7.946207 TGTGCTAATTGGTGAAAAGAAATGTA 58.054 30.769 0.00 0.00 0.00 2.29
1244 1969 6.404734 GGGAGTATGTGCTAATTGGTGAAAAG 60.405 42.308 0.00 0.00 0.00 2.27
1250 1975 3.136626 GGAGGGAGTATGTGCTAATTGGT 59.863 47.826 0.00 0.00 0.00 3.67
1251 1976 3.136443 TGGAGGGAGTATGTGCTAATTGG 59.864 47.826 0.00 0.00 0.00 3.16
1252 1977 4.422073 TGGAGGGAGTATGTGCTAATTG 57.578 45.455 0.00 0.00 0.00 2.32
1264 1989 9.355916 GCTTTTATATTTCTTTATGGAGGGAGT 57.644 33.333 0.00 0.00 0.00 3.85
1266 1991 7.996644 ACGCTTTTATATTTCTTTATGGAGGGA 59.003 33.333 0.00 0.00 0.00 4.20
1267 1992 8.166422 ACGCTTTTATATTTCTTTATGGAGGG 57.834 34.615 0.00 0.00 0.00 4.30
1285 2010 9.620660 CATTAAAGTAATGGTCTAAACGCTTTT 57.379 29.630 0.00 0.00 41.36 2.27
1286 2011 9.005777 TCATTAAAGTAATGGTCTAAACGCTTT 57.994 29.630 7.87 0.00 44.33 3.51
1287 2012 8.556213 TCATTAAAGTAATGGTCTAAACGCTT 57.444 30.769 7.87 0.00 44.33 4.68
1288 2013 8.732746 ATCATTAAAGTAATGGTCTAAACGCT 57.267 30.769 7.87 0.00 44.33 5.07
1337 2062 9.227777 GGTAAAGTCATTAATTGTTACTCCTGT 57.772 33.333 0.00 0.00 0.00 4.00
1338 2063 8.674607 GGGTAAAGTCATTAATTGTTACTCCTG 58.325 37.037 0.00 0.00 0.00 3.86
1339 2064 8.387813 TGGGTAAAGTCATTAATTGTTACTCCT 58.612 33.333 0.00 0.00 0.00 3.69
1340 2065 8.570068 TGGGTAAAGTCATTAATTGTTACTCC 57.430 34.615 0.00 0.00 0.00 3.85
1345 2070 9.758651 GAGTTTTGGGTAAAGTCATTAATTGTT 57.241 29.630 0.00 0.00 43.01 2.83
1346 2071 8.919145 TGAGTTTTGGGTAAAGTCATTAATTGT 58.081 29.630 4.19 0.00 46.32 2.71
1362 2087 9.434420 TGAATAAATTAGCAAATGAGTTTTGGG 57.566 29.630 0.79 0.00 44.10 4.12
1468 2194 5.872617 GGACCAACAGTAAAGCAAAGTTTTT 59.127 36.000 0.00 0.00 0.00 1.94
1469 2195 5.046950 TGGACCAACAGTAAAGCAAAGTTTT 60.047 36.000 0.00 0.00 0.00 2.43
1470 2196 4.464597 TGGACCAACAGTAAAGCAAAGTTT 59.535 37.500 0.00 0.00 0.00 2.66
1471 2197 4.020543 TGGACCAACAGTAAAGCAAAGTT 58.979 39.130 0.00 0.00 0.00 2.66
1472 2198 3.626930 TGGACCAACAGTAAAGCAAAGT 58.373 40.909 0.00 0.00 0.00 2.66
1473 2199 3.882888 TCTGGACCAACAGTAAAGCAAAG 59.117 43.478 0.00 0.00 39.48 2.77
1474 2200 3.892284 TCTGGACCAACAGTAAAGCAAA 58.108 40.909 0.00 0.00 39.48 3.68
1475 2201 3.569194 TCTGGACCAACAGTAAAGCAA 57.431 42.857 0.00 0.00 39.48 3.91
1476 2202 3.327757 AGATCTGGACCAACAGTAAAGCA 59.672 43.478 0.00 0.00 39.48 3.91
1477 2203 3.944087 AGATCTGGACCAACAGTAAAGC 58.056 45.455 0.00 0.00 39.48 3.51
1478 2204 7.560368 AGATTAGATCTGGACCAACAGTAAAG 58.440 38.462 5.18 0.00 38.44 1.85
1479 2205 7.496346 AGATTAGATCTGGACCAACAGTAAA 57.504 36.000 5.18 0.00 38.44 2.01
1480 2206 6.183360 CGAGATTAGATCTGGACCAACAGTAA 60.183 42.308 5.18 0.00 40.38 2.24
1481 2207 5.299531 CGAGATTAGATCTGGACCAACAGTA 59.700 44.000 5.18 0.00 40.38 2.74
1482 2208 4.098654 CGAGATTAGATCTGGACCAACAGT 59.901 45.833 5.18 0.00 40.38 3.55
1483 2209 4.098654 ACGAGATTAGATCTGGACCAACAG 59.901 45.833 5.18 0.00 40.38 3.16
1484 2210 4.023980 ACGAGATTAGATCTGGACCAACA 58.976 43.478 5.18 0.00 40.38 3.33
1485 2211 4.657436 ACGAGATTAGATCTGGACCAAC 57.343 45.455 5.18 0.00 40.38 3.77
1486 2212 4.956700 AGAACGAGATTAGATCTGGACCAA 59.043 41.667 5.18 0.00 40.38 3.67
1487 2213 4.537751 AGAACGAGATTAGATCTGGACCA 58.462 43.478 5.18 0.00 40.38 4.02
1556 2298 7.346751 AGCTCCTTTGATTTCAACTAACAAA 57.653 32.000 0.00 0.00 35.28 2.83
1581 2323 6.425210 AAGGAAAAGAAAAGCAGGCTAAAT 57.575 33.333 0.00 0.00 0.00 1.40
1634 2376 9.314321 CAATACTACTTAACTTGGGAGTATGTG 57.686 37.037 0.00 0.00 34.21 3.21
1685 2430 0.755686 AAGGAGAGGAATAGCGCAGG 59.244 55.000 11.47 0.00 0.00 4.85
1718 2463 5.590818 TCTTACCCTGAAGTAGATGTTCCT 58.409 41.667 0.00 0.00 0.00 3.36
1724 2469 4.805744 ACCGATCTTACCCTGAAGTAGAT 58.194 43.478 0.00 0.00 0.00 1.98
1757 2504 2.105477 AGTGTGCTCCTGTGAACTCAAT 59.895 45.455 0.00 0.00 0.00 2.57
1797 2544 6.037610 CAGACTATCCATGCAGAAAGGTAAAC 59.962 42.308 0.00 0.00 0.00 2.01
1819 2566 1.468506 TAGCTGCACCGTTCCACAGA 61.469 55.000 1.02 0.00 31.67 3.41
1820 2567 1.005037 TAGCTGCACCGTTCCACAG 60.005 57.895 1.02 0.00 0.00 3.66
1832 2579 5.708230 AGATGATACTGTACTACCTAGCTGC 59.292 44.000 0.00 0.00 0.00 5.25
1880 2627 1.202359 GGAAGACGATCAGCTCTCCAC 60.202 57.143 0.00 0.00 0.00 4.02
1948 2695 1.214589 CTTACGTGACCCTCCACCG 59.785 63.158 0.00 0.00 33.67 4.94
1949 2696 0.971386 TTCTTACGTGACCCTCCACC 59.029 55.000 0.00 0.00 33.67 4.61
1953 2712 2.288886 ACAAGCTTCTTACGTGACCCTC 60.289 50.000 0.00 0.00 0.00 4.30
1956 2715 3.128349 TCAACAAGCTTCTTACGTGACC 58.872 45.455 0.00 0.00 0.00 4.02
1964 2723 3.471680 GACTGTCCTCAACAAGCTTCTT 58.528 45.455 0.00 0.00 37.45 2.52
1991 2750 4.528596 ACTGTTGGCTATGTCTACTTCTGT 59.471 41.667 0.00 0.00 0.00 3.41
2002 2761 1.014352 GGGCGTAACTGTTGGCTATG 58.986 55.000 14.97 0.00 0.00 2.23
2005 2764 1.302511 CAGGGCGTAACTGTTGGCT 60.303 57.895 14.97 0.00 0.00 4.75
2112 2871 0.523072 ATCATTGTTGTGCAGGTCGC 59.477 50.000 0.00 0.00 42.89 5.19
2144 2903 0.455410 TGCGCAAGGGTAATGAATGC 59.545 50.000 8.16 0.00 38.28 3.56
2305 3078 7.684317 TCCTGTTGTTCATATATACCTCCAA 57.316 36.000 0.00 0.00 0.00 3.53
2380 3153 0.946528 GCAACATATGCGATGCCAGA 59.053 50.000 14.55 0.00 46.87 3.86
2399 3172 1.126079 GTACGACATTCCGGCGTATG 58.874 55.000 13.20 15.04 41.71 2.39
2411 3184 2.924926 GTTCGCCATATGTTGTACGACA 59.075 45.455 18.23 18.23 33.37 4.35
2416 3189 4.570930 TGAACAGTTCGCCATATGTTGTA 58.429 39.130 8.80 0.00 36.08 2.41
2440 3225 4.574599 ACAAAATGACAAAGACCAGAGC 57.425 40.909 0.00 0.00 0.00 4.09
2529 3314 6.478673 CGTCAGCATGGTAATCTTGTTGTATA 59.521 38.462 0.00 0.00 34.77 1.47
2676 3467 4.042809 TCCTTATCAAAGCCTCTTTGGTCA 59.957 41.667 16.41 3.57 38.35 4.02
2879 3670 3.152341 CCATTGACCTCTTTCACTGCTT 58.848 45.455 0.00 0.00 0.00 3.91
2903 3694 2.231964 GTGTATTGGTGTGGGTCGTCTA 59.768 50.000 0.00 0.00 0.00 2.59
2907 3698 1.438651 CTGTGTATTGGTGTGGGTCG 58.561 55.000 0.00 0.00 0.00 4.79
2911 3702 0.695924 TCCCCTGTGTATTGGTGTGG 59.304 55.000 0.00 0.00 0.00 4.17
2912 3703 1.628340 TCTCCCCTGTGTATTGGTGTG 59.372 52.381 0.00 0.00 0.00 3.82
2913 3704 2.038863 TCTCCCCTGTGTATTGGTGT 57.961 50.000 0.00 0.00 0.00 4.16
2973 3782 5.140454 TGCAGTAGCTTCTGGACTATATCA 58.860 41.667 20.39 5.84 42.74 2.15
2991 3800 3.872603 TGGCCCAACGTCTGCAGT 61.873 61.111 14.67 0.00 0.00 4.40
3008 3817 7.391833 TCGTCTCTCTGTCATATATGCTTATGT 59.608 37.037 7.92 0.00 32.49 2.29
3071 3880 5.335191 GGATATTTCTCCAAATGGATGTCGC 60.335 44.000 1.93 0.00 44.46 5.19
3149 3958 2.043664 TCTCCCCTATATGGCTGGAGAG 59.956 54.545 16.65 6.38 43.70 3.20
3156 3965 0.615850 GCCAGTCTCCCCTATATGGC 59.384 60.000 0.00 0.00 45.61 4.40
3278 4087 0.892814 AACCTCCAGCAGCTTCTTGC 60.893 55.000 0.00 0.00 44.41 4.01
3319 4128 1.081442 GCCTTTTGTACGCCTGCAC 60.081 57.895 0.00 0.00 0.00 4.57
3327 4136 0.881796 GCTCCACCAGCCTTTTGTAC 59.118 55.000 0.00 0.00 43.17 2.90
3402 4211 0.895100 GCAGACATGGGGTGCTGAAA 60.895 55.000 8.49 0.00 35.39 2.69
3611 4420 3.204306 TCCTCATGGCTGTGATCAATC 57.796 47.619 0.00 0.00 0.00 2.67
3632 4441 5.478407 TGCATTCTTTACACTCGAGAATCA 58.522 37.500 21.68 4.76 37.88 2.57
3697 4506 5.010282 ACTGGAATTTTCATCCTGGTGTAC 58.990 41.667 0.00 0.00 39.47 2.90
3849 4658 7.373617 TGACTTAATGATAATCCTGGCACTA 57.626 36.000 0.00 0.00 0.00 2.74
4022 4840 3.187842 GCAGTAAGTTACCTTTGGAACCG 59.812 47.826 9.46 0.00 31.89 4.44
4059 4879 7.045416 AGCATTGTGGTCGATAGTTAATACAA 58.955 34.615 0.00 0.00 37.40 2.41
4066 4886 7.012044 GGTAATTAAGCATTGTGGTCGATAGTT 59.988 37.037 0.00 0.00 37.40 2.24
4119 4941 4.722361 TTCCATATTTTTGGTAACCGGC 57.278 40.909 0.00 0.00 38.01 6.13
4122 4944 7.432148 AGGGAATTCCATATTTTTGGTAACC 57.568 36.000 25.67 2.69 38.01 2.85
4250 5079 7.458397 TGACACTGAAAGGAACATATTTACCT 58.542 34.615 0.00 0.00 39.30 3.08
4362 5191 6.761242 CACACCATCTATGATAGTTTTCCGAA 59.239 38.462 0.00 0.00 0.00 4.30
4435 5264 3.955650 ATTTCTTCAAGCAGCTGCAAT 57.044 38.095 38.24 24.71 45.16 3.56
4462 5291 2.575532 TGTCTTTCTTCTGTTGGCCAG 58.424 47.619 5.11 0.00 42.97 4.85
4488 5321 4.003648 CAGCCGATTAACTTCTGTTCCTT 58.996 43.478 0.00 0.00 37.59 3.36
4588 5421 1.003355 GCTGTACCCTTGCTGCTGA 60.003 57.895 0.00 0.00 30.92 4.26
4630 5463 1.679139 ACGCACCCCATATTGTGATG 58.321 50.000 0.00 0.00 34.37 3.07
4631 5464 2.023673 CAACGCACCCCATATTGTGAT 58.976 47.619 0.00 0.00 34.37 3.06
4723 5556 4.867047 TCAACGATCTCTTTGAGCTTCATC 59.133 41.667 0.00 0.00 31.68 2.92
4896 5729 6.949352 AAACCATGTAGCCATCAAGAATAG 57.051 37.500 0.00 0.00 0.00 1.73
4921 5754 2.445525 ACTTCTAAAAGGCCTTGGTCCA 59.554 45.455 21.33 2.59 36.78 4.02
5102 5935 2.100989 CACCACCCTCTCCACTAGTAC 58.899 57.143 0.00 0.00 0.00 2.73
5123 5959 3.434319 CGCTGGCAACCTTCGCAT 61.434 61.111 0.00 0.00 0.00 4.73
5124 5960 3.899981 ATCGCTGGCAACCTTCGCA 62.900 57.895 0.00 0.00 0.00 5.10
5192 6029 5.883115 AGAAAGGGAAGCATAAGTAAAGAGC 59.117 40.000 0.00 0.00 0.00 4.09
5206 6043 5.045578 TCCTTTAGGATGACAGAAAGGGAAG 60.046 44.000 15.55 1.27 45.35 3.46
5287 6132 6.280643 GCTCTTTTACACAACCCAGAAAAAT 58.719 36.000 0.00 0.00 0.00 1.82
5294 6139 2.623878 TCGCTCTTTTACACAACCCA 57.376 45.000 0.00 0.00 0.00 4.51
5385 6243 3.014623 CCCCAATTAGTTTCTCCCGTTC 58.985 50.000 0.00 0.00 0.00 3.95
5387 6245 1.283905 CCCCCAATTAGTTTCTCCCGT 59.716 52.381 0.00 0.00 0.00 5.28
5512 8136 7.388500 CCAAAGTAACGAAAAATACTGTCCCTA 59.612 37.037 0.00 0.00 32.84 3.53
5514 8138 6.376177 CCAAAGTAACGAAAAATACTGTCCC 58.624 40.000 0.00 0.00 32.84 4.46
5517 8141 6.947644 ACCCAAAGTAACGAAAAATACTGT 57.052 33.333 0.00 0.00 32.84 3.55
5605 8239 6.816136 ACAAGAGAAACAAAATAAACCCAGG 58.184 36.000 0.00 0.00 0.00 4.45
5614 8248 9.710900 AACTGAAGAAAACAAGAGAAACAAAAT 57.289 25.926 0.00 0.00 0.00 1.82
5617 8251 9.541143 AAAAACTGAAGAAAACAAGAGAAACAA 57.459 25.926 0.00 0.00 0.00 2.83
5627 8261 8.405531 CCTGTCAGATAAAAACTGAAGAAAACA 58.594 33.333 0.00 0.00 44.29 2.83
5644 8278 1.627329 ACACACATGCTCCTGTCAGAT 59.373 47.619 0.00 0.00 0.00 2.90
5647 8281 0.469494 ACACACACATGCTCCTGTCA 59.531 50.000 0.00 0.00 0.00 3.58
5704 8338 2.346365 CAGCTGTGCTCTCTGCCA 59.654 61.111 5.25 0.00 42.00 4.92
5705 8339 2.033755 CACAGCTGTGCTCTCTGCC 61.034 63.158 32.39 0.00 42.00 4.85
5823 8461 2.973694 TACTAATTGTGCTCCCGTCC 57.026 50.000 0.00 0.00 0.00 4.79
5866 8511 3.499157 ACTAGCGCTAAATCGTAGAGGAG 59.501 47.826 19.37 6.00 43.63 3.69
5867 8512 3.474600 ACTAGCGCTAAATCGTAGAGGA 58.525 45.455 19.37 0.00 43.63 3.71
5868 8513 3.900388 ACTAGCGCTAAATCGTAGAGG 57.100 47.619 19.37 5.04 43.63 3.69
5981 8630 8.864069 GAGATCTTCGAAACTAGATTTCATGA 57.136 34.615 9.39 0.00 46.18 3.07


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

AutoCloner maintained by Alex Coulton.