Multiple sequence alignment - TraesCS6D01G114400

Loading Multiple Alignment...

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 TraesCS6D01G114400 chr6D 100.000 5295 0 0 818 6112 81660390 81665684 0.000000e+00 9779.0
1 TraesCS6D01G114400 chr6D 100.000 390 0 0 1 390 81659573 81659962 0.000000e+00 721.0
2 TraesCS6D01G114400 chr6D 99.500 200 1 0 818 1017 81659763 81659962 1.250000e-96 364.0
3 TraesCS6D01G114400 chr6D 99.500 200 1 0 191 390 81660390 81660589 1.250000e-96 364.0
4 TraesCS6D01G114400 chr6B 92.898 4844 189 74 818 5585 156269027 156273791 0.000000e+00 6896.0
5 TraesCS6D01G114400 chr6B 90.722 485 21 7 5638 6112 156274468 156274938 5.200000e-175 625.0
6 TraesCS6D01G114400 chr6B 85.358 321 13 17 37 347 156268883 156269179 9.960000e-78 302.0
7 TraesCS6D01G114400 chr6A 91.796 2389 116 44 818 3177 98041478 98043815 0.000000e+00 3253.0
8 TraesCS6D01G114400 chr6A 91.610 1037 52 7 4555 5585 98044933 98045940 0.000000e+00 1400.0
9 TraesCS6D01G114400 chr6A 94.025 636 34 3 3887 4520 98044301 98044934 0.000000e+00 961.0
10 TraesCS6D01G114400 chr6A 89.178 499 16 13 5638 6112 98046596 98047080 6.820000e-164 588.0
11 TraesCS6D01G114400 chr6A 86.905 336 21 12 3507 3842 98044001 98044313 7.540000e-94 355.0
12 TraesCS6D01G114400 chr6A 83.770 382 10 26 26 390 98041334 98041680 1.280000e-81 315.0
13 TraesCS6D01G114400 chr6A 89.848 197 13 6 3205 3396 98043809 98044003 4.730000e-61 246.0
14 TraesCS6D01G114400 chr7D 77.440 461 80 14 1938 2396 40505914 40506352 2.830000e-63 254.0
15 TraesCS6D01G114400 chr7D 75.847 443 83 14 1941 2381 40542155 40541735 2.890000e-48 204.0
16 TraesCS6D01G114400 chr7D 75.926 432 80 14 1949 2378 40540275 40539866 3.740000e-47 200.0
17 TraesCS6D01G114400 chr7D 75.822 426 78 17 1941 2364 40549700 40549298 6.250000e-45 193.0
18 TraesCS6D01G114400 chr4D 91.803 61 4 1 3588 3647 7830225 7830285 3.930000e-12 84.2
19 TraesCS6D01G114400 chr1B 96.154 52 1 1 3603 3654 606388178 606388228 3.930000e-12 84.2
20 TraesCS6D01G114400 chr1B 96.154 52 1 1 3603 3654 606392970 606393020 3.930000e-12 84.2
21 TraesCS6D01G114400 chr1B 96.154 52 1 1 3603 3654 606397770 606397820 3.930000e-12 84.2
22 TraesCS6D01G114400 chr1B 94.340 53 2 1 3595 3646 683390472 683390420 5.080000e-11 80.5
23 TraesCS6D01G114400 chr3B 91.803 61 2 3 3596 3656 824389020 824388963 1.410000e-11 82.4
24 TraesCS6D01G114400 chr4A 94.340 53 2 1 3595 3646 631898843 631898895 5.080000e-11 80.5
25 TraesCS6D01G114400 chr1D 97.674 43 1 0 3602 3644 329311599 329311557 2.360000e-09 75.0


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 TraesCS6D01G114400 chr6D 81659573 81665684 6111 False 3621.333333 9779 99.833333 1 6112 3 chr6D.!!$F2 6111
1 TraesCS6D01G114400 chr6B 156268883 156274938 6055 False 2607.666667 6896 89.659333 37 6112 3 chr6B.!!$F1 6075
2 TraesCS6D01G114400 chr6A 98041334 98047080 5746 False 1016.857143 3253 89.590286 26 6112 7 chr6A.!!$F1 6086
3 TraesCS6D01G114400 chr7D 40539866 40542155 2289 True 202.000000 204 75.886500 1941 2381 2 chr7D.!!$R2 440

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
60 61 0.037232 ACCTTTCAGCCGTAGCACTC 60.037 55.0 0.00 0.00 43.56 3.51 F
62 63 0.037326 CTTTCAGCCGTAGCACTCCA 60.037 55.0 0.00 0.00 43.56 3.86 F
1796 1901 0.036765 TGTTATGTCGGTGCCTGGAC 60.037 55.0 0.00 0.00 0.00 4.02 F
2525 4504 0.178975 TGTTGGAAAAGCACCGGGAT 60.179 50.0 6.32 0.00 0.00 3.85 F
3137 5116 0.038251 GCAACCTTGGCCAAAGCTAC 60.038 55.0 20.91 5.67 39.73 3.58 F
3140 5122 0.251341 ACCTTGGCCAAAGCTACCAG 60.251 55.0 20.91 4.58 39.73 4.00 F
3143 5125 0.771127 TTGGCCAAAGCTACCAGTCT 59.229 50.0 17.98 0.00 39.73 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1470 1555 0.398098 AATCGGTAGTGGGGACGGAT 60.398 55.000 0.00 0.0 38.19 4.18 R
1826 1931 1.166531 AGTTTCTTGACCTGCACGGC 61.167 55.000 2.50 0.0 35.61 5.68 R
2993 4972 0.978907 TCTACGGGTTCCCTTTCCAC 59.021 55.000 6.31 0.0 0.00 4.02 R
4457 6448 4.252971 TGTACTTACAGCTGGTGAAGAC 57.747 45.455 23.99 18.4 0.00 3.01 R
4576 6567 1.282875 GGCGTGTGAGCAAGGTTTC 59.717 57.895 0.00 0.0 39.27 2.78 R
4775 6774 1.771073 CGTTCCTGACGTTTGCTGCA 61.771 55.000 0.00 0.0 46.49 4.41 R
5209 7208 4.690748 TCTGAGCTTTGCTGTGTTGTATAC 59.309 41.667 0.00 0.0 39.88 1.47 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
21 22 4.019919 CCATGATGGTCAAAATCGTCAC 57.980 45.455 2.54 0.00 32.55 3.67
22 23 3.439825 CCATGATGGTCAAAATCGTCACA 59.560 43.478 2.54 0.00 32.55 3.58
23 24 4.406069 CATGATGGTCAAAATCGTCACAC 58.594 43.478 0.00 0.00 32.55 3.82
24 25 2.811431 TGATGGTCAAAATCGTCACACC 59.189 45.455 0.00 0.00 0.00 4.16
25 26 2.333688 TGGTCAAAATCGTCACACCA 57.666 45.000 0.00 0.00 0.00 4.17
26 27 2.857483 TGGTCAAAATCGTCACACCAT 58.143 42.857 0.00 0.00 0.00 3.55
27 28 2.811431 TGGTCAAAATCGTCACACCATC 59.189 45.455 0.00 0.00 0.00 3.51
28 29 2.159707 GGTCAAAATCGTCACACCATCG 60.160 50.000 0.00 0.00 0.00 3.84
29 30 1.463056 TCAAAATCGTCACACCATCGC 59.537 47.619 0.00 0.00 0.00 4.58
30 31 0.802494 AAAATCGTCACACCATCGCC 59.198 50.000 0.00 0.00 0.00 5.54
52 53 2.372690 CGTCGTCACCTTTCAGCCG 61.373 63.158 0.00 0.00 0.00 5.52
53 54 1.300697 GTCGTCACCTTTCAGCCGT 60.301 57.895 0.00 0.00 0.00 5.68
54 55 0.038892 GTCGTCACCTTTCAGCCGTA 60.039 55.000 0.00 0.00 0.00 4.02
55 56 0.242825 TCGTCACCTTTCAGCCGTAG 59.757 55.000 0.00 0.00 0.00 3.51
56 57 1.352156 CGTCACCTTTCAGCCGTAGC 61.352 60.000 0.00 0.00 40.32 3.58
57 58 0.320421 GTCACCTTTCAGCCGTAGCA 60.320 55.000 0.00 0.00 43.56 3.49
58 59 0.320421 TCACCTTTCAGCCGTAGCAC 60.320 55.000 0.00 0.00 43.56 4.40
59 60 0.320771 CACCTTTCAGCCGTAGCACT 60.321 55.000 0.00 0.00 43.56 4.40
60 61 0.037232 ACCTTTCAGCCGTAGCACTC 60.037 55.000 0.00 0.00 43.56 3.51
62 63 0.037326 CTTTCAGCCGTAGCACTCCA 60.037 55.000 0.00 0.00 43.56 3.86
63 64 0.320421 TTTCAGCCGTAGCACTCCAC 60.320 55.000 0.00 0.00 43.56 4.02
64 65 1.185618 TTCAGCCGTAGCACTCCACT 61.186 55.000 0.00 0.00 43.56 4.00
66 67 2.202623 GCCGTAGCACTCCACTCG 60.203 66.667 0.00 0.00 39.53 4.18
67 68 2.991076 GCCGTAGCACTCCACTCGT 61.991 63.158 0.00 0.00 39.53 4.18
68 69 1.651240 GCCGTAGCACTCCACTCGTA 61.651 60.000 0.00 0.00 39.53 3.43
69 70 0.098376 CCGTAGCACTCCACTCGTAC 59.902 60.000 0.00 0.00 0.00 3.67
128 138 2.824388 CTTTCCCTCCCTCCCTCGGT 62.824 65.000 0.00 0.00 0.00 4.69
205 215 3.887868 CCGCCCGCCATAAAGCAC 61.888 66.667 0.00 0.00 0.00 4.40
206 216 3.130819 CGCCCGCCATAAAGCACA 61.131 61.111 0.00 0.00 0.00 4.57
211 226 1.376609 CCGCCATAAAGCACACCTCC 61.377 60.000 0.00 0.00 0.00 4.30
276 291 3.799755 GACGCAATGCACCCCGTC 61.800 66.667 15.83 15.83 42.39 4.79
279 294 3.499737 GCAATGCACCCCGTCGAG 61.500 66.667 0.00 0.00 0.00 4.04
280 295 2.819595 CAATGCACCCCGTCGAGG 60.820 66.667 0.00 0.00 40.63 4.63
281 296 3.000819 AATGCACCCCGTCGAGGA 61.001 61.111 6.70 0.00 45.00 3.71
282 297 3.019003 AATGCACCCCGTCGAGGAG 62.019 63.158 6.70 0.00 45.00 3.69
326 341 4.430765 CGTTGCCGCGTAGGGTCT 62.431 66.667 4.92 0.00 41.48 3.85
327 342 2.813908 GTTGCCGCGTAGGGTCTG 60.814 66.667 4.92 0.00 41.48 3.51
328 343 4.077184 TTGCCGCGTAGGGTCTGG 62.077 66.667 4.92 0.00 41.48 3.86
330 345 3.142838 GCCGCGTAGGGTCTGGTA 61.143 66.667 4.92 0.00 41.48 3.25
331 346 2.803479 CCGCGTAGGGTCTGGTAC 59.197 66.667 4.92 0.00 39.56 3.34
332 347 1.751927 CCGCGTAGGGTCTGGTACT 60.752 63.158 4.92 0.00 39.56 2.73
333 348 1.722636 CCGCGTAGGGTCTGGTACTC 61.723 65.000 4.92 0.00 39.56 2.59
334 349 1.028330 CGCGTAGGGTCTGGTACTCA 61.028 60.000 0.00 0.00 34.98 3.41
335 350 0.739561 GCGTAGGGTCTGGTACTCAG 59.260 60.000 5.31 5.31 44.68 3.35
336 351 1.390565 CGTAGGGTCTGGTACTCAGG 58.609 60.000 10.33 0.00 43.53 3.86
337 352 1.340795 CGTAGGGTCTGGTACTCAGGT 60.341 57.143 10.33 0.00 43.53 4.00
338 353 2.100989 GTAGGGTCTGGTACTCAGGTG 58.899 57.143 10.33 0.00 43.53 4.00
339 354 0.252284 AGGGTCTGGTACTCAGGTGG 60.252 60.000 10.33 0.00 43.53 4.61
340 355 1.597461 GGTCTGGTACTCAGGTGGC 59.403 63.158 10.33 0.00 43.53 5.01
341 356 1.215647 GTCTGGTACTCAGGTGGCG 59.784 63.158 10.33 0.00 43.53 5.69
342 357 1.982395 TCTGGTACTCAGGTGGCGG 60.982 63.158 10.33 0.00 43.53 6.13
343 358 3.665675 CTGGTACTCAGGTGGCGGC 62.666 68.421 0.00 0.00 39.76 6.53
344 359 3.702048 GGTACTCAGGTGGCGGCA 61.702 66.667 7.97 7.97 0.00 5.69
345 360 2.125512 GTACTCAGGTGGCGGCAG 60.126 66.667 13.91 2.02 0.00 4.85
346 361 3.390521 TACTCAGGTGGCGGCAGG 61.391 66.667 13.91 5.27 0.00 4.85
347 362 3.897681 TACTCAGGTGGCGGCAGGA 62.898 63.158 13.91 9.90 0.00 3.86
348 363 4.767255 CTCAGGTGGCGGCAGGAC 62.767 72.222 13.91 5.96 0.00 3.85
957 984 3.142838 GCCGCGTAGGGTCTGGTA 61.143 66.667 4.92 0.00 41.48 3.25
958 985 2.803479 CCGCGTAGGGTCTGGTAC 59.197 66.667 4.92 0.00 39.56 3.34
959 986 1.751927 CCGCGTAGGGTCTGGTACT 60.752 63.158 4.92 0.00 39.56 2.73
1217 1274 3.520402 GGTGAGCCCTCTCTCTCG 58.480 66.667 0.00 0.00 40.03 4.04
1218 1275 2.781158 GGTGAGCCCTCTCTCTCGC 61.781 68.421 0.00 0.00 40.03 5.03
1220 1277 3.223589 GAGCCCTCTCTCTCGCCC 61.224 72.222 0.00 0.00 36.42 6.13
1221 1278 4.851214 AGCCCTCTCTCTCGCCCC 62.851 72.222 0.00 0.00 0.00 5.80
1241 1298 3.998672 GCCGTCCACCGTCTCCAA 61.999 66.667 0.00 0.00 33.66 3.53
1242 1299 2.978824 CCGTCCACCGTCTCCAAT 59.021 61.111 0.00 0.00 33.66 3.16
1243 1300 1.153628 CCGTCCACCGTCTCCAATC 60.154 63.158 0.00 0.00 33.66 2.67
1244 1301 1.589630 CGTCCACCGTCTCCAATCA 59.410 57.895 0.00 0.00 0.00 2.57
1245 1302 0.458543 CGTCCACCGTCTCCAATCAG 60.459 60.000 0.00 0.00 0.00 2.90
1252 1309 1.519455 GTCTCCAATCAGCGACCCG 60.519 63.158 0.00 0.00 0.00 5.28
1263 1320 4.308458 CGACCCGCAGAACCCACA 62.308 66.667 0.00 0.00 0.00 4.17
1264 1321 2.351276 GACCCGCAGAACCCACAT 59.649 61.111 0.00 0.00 0.00 3.21
1267 1324 0.623723 ACCCGCAGAACCCACATTAT 59.376 50.000 0.00 0.00 0.00 1.28
1269 1326 2.099405 CCCGCAGAACCCACATTATTT 58.901 47.619 0.00 0.00 0.00 1.40
1271 1328 3.428862 CCCGCAGAACCCACATTATTTTC 60.429 47.826 0.00 0.00 0.00 2.29
1272 1329 3.428862 CCGCAGAACCCACATTATTTTCC 60.429 47.826 0.00 0.00 0.00 3.13
1285 1369 7.173562 CCACATTATTTTCCGTCCGGATTATTA 59.826 37.037 7.81 1.17 44.74 0.98
1286 1370 8.227791 CACATTATTTTCCGTCCGGATTATTAG 58.772 37.037 7.81 0.81 44.74 1.73
1287 1371 6.790285 TTATTTTCCGTCCGGATTATTAGC 57.210 37.500 7.81 0.00 44.74 3.09
1289 1373 1.707106 TCCGTCCGGATTATTAGCCA 58.293 50.000 7.81 0.00 39.76 4.75
1290 1374 2.253610 TCCGTCCGGATTATTAGCCAT 58.746 47.619 7.81 0.00 39.76 4.40
1291 1375 3.433343 TCCGTCCGGATTATTAGCCATA 58.567 45.455 7.81 0.00 39.76 2.74
1292 1376 3.446161 TCCGTCCGGATTATTAGCCATAG 59.554 47.826 7.81 0.00 39.76 2.23
1304 1388 2.125310 CCATAGGCGTGGTTGCGA 60.125 61.111 4.08 0.00 34.46 5.10
1379 1463 1.134280 CCCAGATCAAATCGCTGTCCT 60.134 52.381 0.00 0.00 0.00 3.85
1470 1555 2.203640 ACACTGTCCCTCGCCTCA 60.204 61.111 0.00 0.00 0.00 3.86
1483 1569 1.760875 GCCTCATCCGTCCCCACTA 60.761 63.158 0.00 0.00 0.00 2.74
1677 1779 3.223589 GGAGAGAGGAGAGCCGCC 61.224 72.222 0.00 0.00 39.96 6.13
1771 1873 1.559336 TCGTTTTTCGACGGTTCGC 59.441 52.632 0.00 0.00 45.46 4.70
1796 1901 0.036765 TGTTATGTCGGTGCCTGGAC 60.037 55.000 0.00 0.00 0.00 4.02
1804 1909 2.048127 GTGCCTGGACTCGGTGTC 60.048 66.667 0.00 1.67 44.63 3.67
1823 1928 5.702209 GGTGTCTGTTCTTATCCGGTAAAAA 59.298 40.000 0.00 0.00 0.00 1.94
1824 1929 6.347969 GGTGTCTGTTCTTATCCGGTAAAAAC 60.348 42.308 0.00 3.87 0.00 2.43
2016 2121 5.824904 AGTCAATGTGCATTCACTAATCC 57.175 39.130 0.00 0.00 43.49 3.01
2059 3104 4.095185 GTGTAGACACAGGAGCTACTAGTG 59.905 50.000 20.48 20.48 45.75 2.74
2137 3182 6.108687 TCTGTATTACCAGCTTTGTCATGAG 58.891 40.000 0.00 0.00 32.32 2.90
2246 3291 7.360361 GTGTACATGGGAAGAAGTAAGTTTTG 58.640 38.462 0.00 0.00 0.00 2.44
2252 4231 6.419791 TGGGAAGAAGTAAGTTTTGTCTGAA 58.580 36.000 0.00 0.00 0.00 3.02
2306 4285 4.684484 ATAGGGGAGTTATTGACGGTTC 57.316 45.455 0.00 0.00 0.00 3.62
2339 4318 6.723131 ATTTCTCATCAGCACATATCATCG 57.277 37.500 0.00 0.00 0.00 3.84
2474 4453 3.011257 TGGTTTCCCTAAATAGGCTGCTT 59.989 43.478 0.00 0.00 42.26 3.91
2525 4504 0.178975 TGTTGGAAAAGCACCGGGAT 60.179 50.000 6.32 0.00 0.00 3.85
2574 4553 4.616181 AACAGCCTATTCGTGTATTTGC 57.384 40.909 0.00 0.00 0.00 3.68
2664 4643 6.098017 GGAAAATCAAGGCAAAGAAGATGAG 58.902 40.000 0.00 0.00 0.00 2.90
2893 4872 3.378512 ACACTGGCATCCTTCTCAGATA 58.621 45.455 0.00 0.00 0.00 1.98
2902 4881 6.296087 GGCATCCTTCTCAGATACATCCATAA 60.296 42.308 0.00 0.00 0.00 1.90
2910 4889 6.603599 TCTCAGATACATCCATAATACCCTCG 59.396 42.308 0.00 0.00 0.00 4.63
3137 5116 0.038251 GCAACCTTGGCCAAAGCTAC 60.038 55.000 20.91 5.67 39.73 3.58
3140 5122 0.251341 ACCTTGGCCAAAGCTACCAG 60.251 55.000 20.91 4.58 39.73 4.00
3143 5125 0.771127 TTGGCCAAAGCTACCAGTCT 59.229 50.000 17.98 0.00 39.73 3.24
3148 5130 3.003480 GCCAAAGCTACCAGTCTTACTG 58.997 50.000 0.00 0.00 40.00 2.74
3156 5138 7.753309 AGCTACCAGTCTTACTGTAGATATG 57.247 40.000 15.01 0.69 44.50 1.78
3157 5139 6.207810 AGCTACCAGTCTTACTGTAGATATGC 59.792 42.308 15.01 7.21 44.50 3.14
3262 5244 7.625828 ACATTTCTAATTGTAGTGCCCTAAC 57.374 36.000 0.00 0.00 0.00 2.34
3409 5399 6.931281 CCATAAGGTATCCTTGTCAGTATGTG 59.069 42.308 10.82 0.00 44.44 3.21
3412 5402 6.814954 AGGTATCCTTGTCAGTATGTGATT 57.185 37.500 0.00 0.00 37.56 2.57
3839 5829 5.292589 GCAGGCATGGATTGTATTTCAAAAG 59.707 40.000 0.00 0.00 39.62 2.27
3917 5907 9.620259 AATAGGAAAATAAGATCACTCAGTTCC 57.380 33.333 0.00 0.94 0.00 3.62
3918 5908 7.020827 AGGAAAATAAGATCACTCAGTTCCA 57.979 36.000 13.33 0.00 0.00 3.53
3921 5911 8.743714 GGAAAATAAGATCACTCAGTTCCATTT 58.256 33.333 0.00 0.00 0.00 2.32
4457 6448 3.213506 TGGTCTCAGTTGTGGAATGTTG 58.786 45.455 0.00 0.00 0.00 3.33
4576 6567 6.455913 GCCTGTTATGCAATGCTTGTTTATTG 60.456 38.462 6.82 0.00 37.35 1.90
4637 6628 5.356751 GGATATTTGAACATGTACACTGCCA 59.643 40.000 0.00 0.00 0.00 4.92
4638 6629 6.039717 GGATATTTGAACATGTACACTGCCAT 59.960 38.462 0.00 0.00 0.00 4.40
4639 6630 7.228507 GGATATTTGAACATGTACACTGCCATA 59.771 37.037 0.00 0.00 0.00 2.74
4640 6631 6.832520 ATTTGAACATGTACACTGCCATAA 57.167 33.333 0.00 0.00 0.00 1.90
4641 6632 5.621197 TTGAACATGTACACTGCCATAAC 57.379 39.130 0.00 0.00 0.00 1.89
4642 6633 4.006989 TGAACATGTACACTGCCATAACC 58.993 43.478 0.00 0.00 0.00 2.85
4643 6634 3.712016 ACATGTACACTGCCATAACCA 57.288 42.857 0.00 0.00 0.00 3.67
4644 6635 4.027674 ACATGTACACTGCCATAACCAA 57.972 40.909 0.00 0.00 0.00 3.67
4645 6636 4.599041 ACATGTACACTGCCATAACCAAT 58.401 39.130 0.00 0.00 0.00 3.16
4646 6637 5.016173 ACATGTACACTGCCATAACCAATT 58.984 37.500 0.00 0.00 0.00 2.32
4647 6638 6.184068 ACATGTACACTGCCATAACCAATTA 58.816 36.000 0.00 0.00 0.00 1.40
4648 6639 6.833416 ACATGTACACTGCCATAACCAATTAT 59.167 34.615 0.00 0.00 0.00 1.28
4649 6640 7.996066 ACATGTACACTGCCATAACCAATTATA 59.004 33.333 0.00 0.00 29.44 0.98
4650 6641 8.845227 CATGTACACTGCCATAACCAATTATAA 58.155 33.333 0.00 0.00 29.44 0.98
4651 6642 8.445275 TGTACACTGCCATAACCAATTATAAG 57.555 34.615 0.00 0.00 29.44 1.73
4652 6643 8.268605 TGTACACTGCCATAACCAATTATAAGA 58.731 33.333 0.00 0.00 29.44 2.10
4653 6644 9.116067 GTACACTGCCATAACCAATTATAAGAA 57.884 33.333 0.00 0.00 29.44 2.52
4654 6645 8.766994 ACACTGCCATAACCAATTATAAGAAT 57.233 30.769 0.00 0.00 29.44 2.40
4655 6646 8.850156 ACACTGCCATAACCAATTATAAGAATC 58.150 33.333 0.00 0.00 29.44 2.52
4656 6647 8.849168 CACTGCCATAACCAATTATAAGAATCA 58.151 33.333 0.00 0.00 29.44 2.57
4657 6648 9.592196 ACTGCCATAACCAATTATAAGAATCAT 57.408 29.630 0.00 0.00 29.44 2.45
4775 6774 7.482169 TGTCATACAGGTAAGAATCTTCACT 57.518 36.000 0.00 0.00 0.00 3.41
5224 7223 5.001232 GGAGGAAAGTATACAACACAGCAA 58.999 41.667 5.50 0.00 0.00 3.91
5242 7241 1.603802 CAAAGCTCAGAAACCGCTTCA 59.396 47.619 0.00 0.00 42.65 3.02
5259 7258 4.509891 GCTTCAGCGAAGATATTTCGTTC 58.490 43.478 18.36 6.05 41.71 3.95
5292 7291 1.693627 ATCTCTACCAAGATCGCGGT 58.306 50.000 6.13 12.91 39.41 5.68
5304 7303 2.693591 AGATCGCGGTGAAAGGAAGATA 59.306 45.455 6.13 0.00 0.00 1.98
5328 7327 1.075212 TGGATCTCATGGTGTTTGGCA 59.925 47.619 0.00 0.00 0.00 4.92
5329 7328 1.474077 GGATCTCATGGTGTTTGGCAC 59.526 52.381 0.00 0.00 46.97 5.01
5344 7343 1.156736 GGCACACTGCGTTTCATACT 58.843 50.000 0.00 0.00 46.21 2.12
5377 7376 8.667076 CCATTTTGGTCTTTCTTTTCTCAAAT 57.333 30.769 0.00 0.00 31.35 2.32
5509 7508 6.542574 TTTTTGCACTGAAATTTAGCCATG 57.457 33.333 0.00 0.00 0.00 3.66
5524 7525 1.000938 GCCATGGCTCGGATGAAATTC 60.001 52.381 29.98 0.00 38.26 2.17
5591 7592 9.740239 CAACATTAAATAAATCATGTGAGAGGG 57.260 33.333 0.00 0.00 30.15 4.30
5595 7596 9.927081 ATTAAATAAATCATGTGAGAGGGTTCT 57.073 29.630 0.00 0.00 36.01 3.01
5632 7972 7.397892 TTTGAGAGTAAGATCGATCTGACTT 57.602 36.000 35.67 26.90 46.35 3.01
5633 7973 6.612247 TGAGAGTAAGATCGATCTGACTTC 57.388 41.667 35.67 30.96 46.35 3.01
5634 7974 5.235401 TGAGAGTAAGATCGATCTGACTTCG 59.765 44.000 35.67 0.00 46.35 3.79
5635 7975 4.513692 AGAGTAAGATCGATCTGACTTCGG 59.486 45.833 35.67 0.00 46.35 4.30
5636 7976 4.200874 AGTAAGATCGATCTGACTTCGGT 58.799 43.478 31.94 15.63 44.49 4.69
5677 8326 2.483013 GCCACAGTTATCATACGGCAGA 60.483 50.000 0.00 0.00 37.98 4.26
5678 8327 3.803715 GCCACAGTTATCATACGGCAGAT 60.804 47.826 0.00 0.00 37.98 2.90
5679 8328 3.990469 CCACAGTTATCATACGGCAGATC 59.010 47.826 0.00 0.00 0.00 2.75
5680 8329 4.501400 CCACAGTTATCATACGGCAGATCA 60.501 45.833 0.00 0.00 0.00 2.92
5681 8330 4.445718 CACAGTTATCATACGGCAGATCAC 59.554 45.833 0.00 0.00 0.00 3.06
5704 8353 4.871933 TCACAGAAGTTGTCAGCATAGA 57.128 40.909 0.00 0.00 38.16 1.98
5705 8354 5.411831 TCACAGAAGTTGTCAGCATAGAT 57.588 39.130 0.00 0.00 38.16 1.98
5873 8522 4.063998 TGCATTGCAGTATAGACCAGAG 57.936 45.455 7.38 0.00 33.32 3.35
5909 8558 2.757868 TGTAACAGCTTGGTTTGCACTT 59.242 40.909 0.00 0.00 32.29 3.16
5910 8559 3.194542 TGTAACAGCTTGGTTTGCACTTT 59.805 39.130 0.00 0.00 32.29 2.66
5911 8560 2.298411 ACAGCTTGGTTTGCACTTTG 57.702 45.000 0.00 0.00 0.00 2.77
5912 8561 0.932399 CAGCTTGGTTTGCACTTTGC 59.068 50.000 0.00 0.00 45.29 3.68
5938 8587 8.561212 CACTGTACTGTAGACTGTCTTATATCC 58.439 40.741 16.53 1.91 0.00 2.59
5940 8589 7.503549 TGTACTGTAGACTGTCTTATATCCGA 58.496 38.462 16.53 0.00 0.00 4.55
5956 8605 6.872628 ATATCCGAGTGAACGTATCAGTTA 57.127 37.500 8.73 0.90 41.89 2.24
5998 8647 9.974980 GAAACACCAAATTCCAGTCTTAAATTA 57.025 29.630 0.00 0.00 0.00 1.40
6014 8663 8.949177 GTCTTAAATTACCCGACAATTTCCTTA 58.051 33.333 5.28 0.00 36.99 2.69
6018 8667 6.769134 ATTACCCGACAATTTCCTTAAAGG 57.231 37.500 0.00 0.00 36.46 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.439825 TGTGACGATTTTGACCATCATGG 59.560 43.478 0.54 0.54 45.02 3.66
1 2 4.406069 GTGTGACGATTTTGACCATCATG 58.594 43.478 0.00 0.00 0.00 3.07
2 3 3.440173 GGTGTGACGATTTTGACCATCAT 59.560 43.478 0.00 0.00 0.00 2.45
3 4 2.811431 GGTGTGACGATTTTGACCATCA 59.189 45.455 0.00 0.00 0.00 3.07
4 5 2.811431 TGGTGTGACGATTTTGACCATC 59.189 45.455 0.00 0.00 0.00 3.51
5 6 2.857483 TGGTGTGACGATTTTGACCAT 58.143 42.857 0.00 0.00 0.00 3.55
6 7 2.333688 TGGTGTGACGATTTTGACCA 57.666 45.000 0.00 0.00 0.00 4.02
7 8 2.159707 CGATGGTGTGACGATTTTGACC 60.160 50.000 0.00 0.00 0.00 4.02
8 9 2.724839 GCGATGGTGTGACGATTTTGAC 60.725 50.000 0.00 0.00 0.00 3.18
9 10 1.463056 GCGATGGTGTGACGATTTTGA 59.537 47.619 0.00 0.00 0.00 2.69
10 11 1.465689 GGCGATGGTGTGACGATTTTG 60.466 52.381 0.00 0.00 0.00 2.44
11 12 0.802494 GGCGATGGTGTGACGATTTT 59.198 50.000 0.00 0.00 0.00 1.82
12 13 1.024579 GGGCGATGGTGTGACGATTT 61.025 55.000 0.00 0.00 0.00 2.17
13 14 1.449601 GGGCGATGGTGTGACGATT 60.450 57.895 0.00 0.00 0.00 3.34
14 15 2.186903 GGGCGATGGTGTGACGAT 59.813 61.111 0.00 0.00 0.00 3.73
15 16 3.307108 TGGGCGATGGTGTGACGA 61.307 61.111 0.00 0.00 0.00 4.20
16 17 3.118454 GTGGGCGATGGTGTGACG 61.118 66.667 0.00 0.00 0.00 4.35
17 18 2.746277 GGTGGGCGATGGTGTGAC 60.746 66.667 0.00 0.00 0.00 3.67
18 19 4.386951 CGGTGGGCGATGGTGTGA 62.387 66.667 0.00 0.00 0.00 3.58
19 20 4.697756 ACGGTGGGCGATGGTGTG 62.698 66.667 0.00 0.00 0.00 3.82
20 21 4.388499 GACGGTGGGCGATGGTGT 62.388 66.667 0.00 0.00 0.00 4.16
24 25 4.429212 TGACGACGGTGGGCGATG 62.429 66.667 0.00 0.00 0.00 3.84
25 26 4.430765 GTGACGACGGTGGGCGAT 62.431 66.667 0.00 0.00 0.00 4.58
28 29 3.819877 AAAGGTGACGACGGTGGGC 62.820 63.158 0.00 0.00 0.00 5.36
29 30 1.666872 GAAAGGTGACGACGGTGGG 60.667 63.158 0.00 0.00 0.00 4.61
30 31 0.944311 CTGAAAGGTGACGACGGTGG 60.944 60.000 0.00 0.00 0.00 4.61
52 53 1.467713 GCAGTACGAGTGGAGTGCTAC 60.468 57.143 0.05 0.00 33.36 3.58
53 54 0.809385 GCAGTACGAGTGGAGTGCTA 59.191 55.000 0.05 0.00 33.36 3.49
54 55 1.587054 GCAGTACGAGTGGAGTGCT 59.413 57.895 0.05 0.00 34.95 4.40
55 56 1.446272 GGCAGTACGAGTGGAGTGC 60.446 63.158 0.00 0.00 0.00 4.40
56 57 1.215647 GGGCAGTACGAGTGGAGTG 59.784 63.158 0.00 0.00 0.00 3.51
57 58 0.966370 GAGGGCAGTACGAGTGGAGT 60.966 60.000 0.00 0.00 0.00 3.85
58 59 1.668101 GGAGGGCAGTACGAGTGGAG 61.668 65.000 0.00 0.00 0.00 3.86
59 60 1.681327 GGAGGGCAGTACGAGTGGA 60.681 63.158 0.00 0.00 0.00 4.02
60 61 2.722201 GGGAGGGCAGTACGAGTGG 61.722 68.421 0.00 0.00 0.00 4.00
62 63 1.982938 GTGGGAGGGCAGTACGAGT 60.983 63.158 0.00 0.00 0.00 4.18
63 64 1.668101 GAGTGGGAGGGCAGTACGAG 61.668 65.000 0.00 0.00 0.00 4.18
64 65 1.681327 GAGTGGGAGGGCAGTACGA 60.681 63.158 0.00 0.00 0.00 3.43
66 67 2.893398 CGAGTGGGAGGGCAGTAC 59.107 66.667 0.00 0.00 0.00 2.73
67 68 3.075005 GCGAGTGGGAGGGCAGTA 61.075 66.667 0.00 0.00 0.00 2.74
259 274 3.799755 GACGGGGTGCATTGCGTC 61.800 66.667 3.84 1.16 0.00 5.19
262 277 3.499737 CTCGACGGGGTGCATTGC 61.500 66.667 0.46 0.46 0.00 3.56
263 278 2.819595 CCTCGACGGGGTGCATTG 60.820 66.667 5.30 0.00 0.00 2.82
264 279 3.000819 TCCTCGACGGGGTGCATT 61.001 61.111 14.78 0.00 0.00 3.56
265 280 3.461773 CTCCTCGACGGGGTGCAT 61.462 66.667 14.78 0.00 0.00 3.96
310 325 2.813908 CAGACCCTACGCGGCAAC 60.814 66.667 12.47 0.00 0.00 4.17
311 326 4.077184 CCAGACCCTACGCGGCAA 62.077 66.667 12.47 0.00 0.00 4.52
312 327 3.942377 TACCAGACCCTACGCGGCA 62.942 63.158 12.47 0.00 0.00 5.69
313 328 3.142838 TACCAGACCCTACGCGGC 61.143 66.667 12.47 0.00 0.00 6.53
314 329 1.722636 GAGTACCAGACCCTACGCGG 61.723 65.000 12.47 0.00 0.00 6.46
315 330 1.028330 TGAGTACCAGACCCTACGCG 61.028 60.000 3.53 3.53 0.00 6.01
316 331 0.739561 CTGAGTACCAGACCCTACGC 59.260 60.000 5.67 0.00 45.78 4.42
317 332 1.340795 ACCTGAGTACCAGACCCTACG 60.341 57.143 11.58 0.00 45.78 3.51
318 333 2.100989 CACCTGAGTACCAGACCCTAC 58.899 57.143 11.58 0.00 45.78 3.18
319 334 1.006758 CCACCTGAGTACCAGACCCTA 59.993 57.143 11.58 0.00 45.78 3.53
320 335 0.252284 CCACCTGAGTACCAGACCCT 60.252 60.000 11.58 0.00 45.78 4.34
321 336 1.900545 GCCACCTGAGTACCAGACCC 61.901 65.000 11.58 0.00 45.78 4.46
322 337 1.597461 GCCACCTGAGTACCAGACC 59.403 63.158 11.58 0.00 45.78 3.85
323 338 1.215647 CGCCACCTGAGTACCAGAC 59.784 63.158 11.58 0.68 45.78 3.51
324 339 1.982395 CCGCCACCTGAGTACCAGA 60.982 63.158 11.58 0.00 45.78 3.86
325 340 2.579201 CCGCCACCTGAGTACCAG 59.421 66.667 4.81 4.81 42.55 4.00
326 341 3.702048 GCCGCCACCTGAGTACCA 61.702 66.667 0.00 0.00 0.00 3.25
327 342 3.665675 CTGCCGCCACCTGAGTACC 62.666 68.421 0.00 0.00 0.00 3.34
328 343 2.125512 CTGCCGCCACCTGAGTAC 60.126 66.667 0.00 0.00 0.00 2.73
329 344 3.390521 CCTGCCGCCACCTGAGTA 61.391 66.667 0.00 0.00 0.00 2.59
331 346 4.767255 GTCCTGCCGCCACCTGAG 62.767 72.222 0.00 0.00 0.00 3.35
817 832 2.489751 GTGTGCTTTATGGCGGGC 59.510 61.111 0.00 0.00 34.52 6.13
818 833 1.376609 GAGGTGTGCTTTATGGCGGG 61.377 60.000 0.00 0.00 34.52 6.13
819 834 1.376609 GGAGGTGTGCTTTATGGCGG 61.377 60.000 0.00 0.00 34.52 6.13
958 985 4.767255 GTCCTGCCGCCACCTGAG 62.767 72.222 0.00 0.00 0.00 3.35
1227 1284 0.741221 GCTGATTGGAGACGGTGGAC 60.741 60.000 0.00 0.00 0.00 4.02
1228 1285 1.596934 GCTGATTGGAGACGGTGGA 59.403 57.895 0.00 0.00 0.00 4.02
1229 1286 1.811266 CGCTGATTGGAGACGGTGG 60.811 63.158 0.00 0.00 0.00 4.61
1230 1287 1.078759 GTCGCTGATTGGAGACGGTG 61.079 60.000 0.00 0.00 0.00 4.94
1231 1288 1.215647 GTCGCTGATTGGAGACGGT 59.784 57.895 0.00 0.00 0.00 4.83
1232 1289 1.519455 GGTCGCTGATTGGAGACGG 60.519 63.158 0.00 0.00 37.00 4.79
1233 1290 1.519455 GGGTCGCTGATTGGAGACG 60.519 63.158 0.00 0.00 37.00 4.18
1234 1291 1.519455 CGGGTCGCTGATTGGAGAC 60.519 63.158 0.00 0.00 35.75 3.36
1235 1292 2.892640 CGGGTCGCTGATTGGAGA 59.107 61.111 0.00 0.00 0.00 3.71
1252 1309 3.192633 ACGGAAAATAATGTGGGTTCTGC 59.807 43.478 0.00 0.00 0.00 4.26
1258 1315 1.673920 CCGGACGGAAAATAATGTGGG 59.326 52.381 4.40 0.00 37.50 4.61
1259 1316 2.634600 TCCGGACGGAAAATAATGTGG 58.365 47.619 11.57 0.00 42.05 4.17
1271 1328 2.762535 ATGGCTAATAATCCGGACGG 57.237 50.000 6.12 3.96 0.00 4.79
1272 1329 3.782046 CCTATGGCTAATAATCCGGACG 58.218 50.000 6.12 0.00 0.00 4.79
1286 1370 3.876198 CGCAACCACGCCTATGGC 61.876 66.667 0.00 0.00 44.33 4.40
1287 1371 1.302383 TTTCGCAACCACGCCTATGG 61.302 55.000 0.00 0.00 46.10 2.74
1289 1373 1.199097 CTTTTTCGCAACCACGCCTAT 59.801 47.619 0.00 0.00 0.00 2.57
1290 1374 0.589223 CTTTTTCGCAACCACGCCTA 59.411 50.000 0.00 0.00 0.00 3.93
1291 1375 1.358759 CTTTTTCGCAACCACGCCT 59.641 52.632 0.00 0.00 0.00 5.52
1292 1376 2.300066 GCTTTTTCGCAACCACGCC 61.300 57.895 0.00 0.00 0.00 5.68
1304 1388 4.998051 TCCACCAAGAATCTAGGCTTTTT 58.002 39.130 0.00 0.00 0.00 1.94
1442 1526 1.148273 GACAGTGTGGGGCAGTTCA 59.852 57.895 0.00 0.00 0.00 3.18
1470 1555 0.398098 AATCGGTAGTGGGGACGGAT 60.398 55.000 0.00 0.00 38.19 4.18
1483 1569 3.343617 CTGTGGTGGTGATTTAATCGGT 58.656 45.455 0.23 0.00 0.00 4.69
1580 1666 9.679661 TTCAGTCAAGATAATGCTATTAAACCA 57.320 29.630 0.00 0.00 0.00 3.67
1689 1791 2.439701 CTCCGACCGGTAGCTCCA 60.440 66.667 7.34 0.00 36.47 3.86
1771 1873 3.309682 CAGGCACCGACATAACATTACAG 59.690 47.826 0.00 0.00 0.00 2.74
1796 1901 2.479730 CCGGATAAGAACAGACACCGAG 60.480 54.545 0.00 0.00 41.09 4.63
1823 1928 4.988598 CTTGACCTGCACGGCGGT 62.989 66.667 13.24 0.00 37.92 5.68
1824 1929 4.680237 TCTTGACCTGCACGGCGG 62.680 66.667 13.24 0.66 35.61 6.13
1826 1931 1.166531 AGTTTCTTGACCTGCACGGC 61.167 55.000 2.50 0.00 35.61 5.68
2016 2121 6.331369 ACACATGATGGAAGGTTAAAACAG 57.669 37.500 0.00 0.00 0.00 3.16
2059 3104 3.181526 CTCCAGGGAGGCAATGTTC 57.818 57.895 7.48 0.00 38.51 3.18
2137 3182 1.666189 GCAAGTAGCCGTTCATTCCTC 59.334 52.381 0.00 0.00 37.23 3.71
2252 4231 2.158475 TGCACCCTGAGGAGATGTTTTT 60.158 45.455 0.00 0.00 36.73 1.94
2257 4236 3.784511 ATAATGCACCCTGAGGAGATG 57.215 47.619 0.00 0.00 36.73 2.90
2286 4265 2.767960 GGAACCGTCAATAACTCCCCTA 59.232 50.000 0.00 0.00 0.00 3.53
2290 4269 3.934068 TCAAGGAACCGTCAATAACTCC 58.066 45.455 0.00 0.00 0.00 3.85
2306 4285 8.387190 TGTGCTGATGAGAAATATAATCAAGG 57.613 34.615 0.00 0.00 0.00 3.61
2339 4318 4.021981 CCTCCAAACTTCAAATCCCTCAAC 60.022 45.833 0.00 0.00 0.00 3.18
2525 4504 3.795688 AGCATGAAAAGGACCTCTTCA 57.204 42.857 12.67 12.67 33.94 3.02
2893 4872 3.840666 AGCATCGAGGGTATTATGGATGT 59.159 43.478 0.00 0.00 35.06 3.06
2902 4881 1.202903 ACTCCGTAGCATCGAGGGTAT 60.203 52.381 12.50 0.00 0.00 2.73
2910 4889 1.134560 ACCGAAGAACTCCGTAGCATC 59.865 52.381 0.00 0.00 0.00 3.91
2922 4901 3.830178 TGTGATAGGAGTCAACCGAAGAA 59.170 43.478 0.00 0.00 34.73 2.52
2993 4972 0.978907 TCTACGGGTTCCCTTTCCAC 59.021 55.000 6.31 0.00 0.00 4.02
3140 5122 7.932335 AGTACACAGCATATCTACAGTAAGAC 58.068 38.462 0.00 0.00 0.00 3.01
3143 5125 9.181061 TGTAAGTACACAGCATATCTACAGTAA 57.819 33.333 0.00 0.00 0.00 2.24
3156 5138 8.928270 AGTAGTGATATTTGTAAGTACACAGC 57.072 34.615 0.00 0.00 35.64 4.40
3262 5244 8.877779 CCTCAGTTCAGTTATTTGTAGATTCAG 58.122 37.037 0.00 0.00 0.00 3.02
3354 5342 5.762825 TGATGATAAGCAGCCTGATTTTC 57.237 39.130 0.00 3.14 29.98 2.29
3361 5349 4.518211 GTGCTAAATGATGATAAGCAGCCT 59.482 41.667 2.92 0.00 43.35 4.58
3409 5399 8.749499 GCAAACACATTCAGATATAAGCAAATC 58.251 33.333 0.00 0.00 0.00 2.17
3412 5402 7.395190 AGCAAACACATTCAGATATAAGCAA 57.605 32.000 0.00 0.00 0.00 3.91
3647 5637 8.491152 CCAATGAGAATGATACACGAATTACTC 58.509 37.037 0.00 0.00 0.00 2.59
3894 5884 7.020827 TGGAACTGAGTGATCTTATTTTCCT 57.979 36.000 11.38 0.00 0.00 3.36
3970 5960 4.573607 GCTCAACATGCATGTGATAGAGAA 59.426 41.667 33.16 16.83 41.61 2.87
4457 6448 4.252971 TGTACTTACAGCTGGTGAAGAC 57.747 45.455 23.99 18.40 0.00 3.01
4542 6533 5.723295 CATTGCATAACAGGCTAGGTTTTT 58.277 37.500 0.00 0.00 0.00 1.94
4576 6567 1.282875 GGCGTGTGAGCAAGGTTTC 59.717 57.895 0.00 0.00 39.27 2.78
4775 6774 1.771073 CGTTCCTGACGTTTGCTGCA 61.771 55.000 0.00 0.00 46.49 4.41
5209 7208 4.690748 TCTGAGCTTTGCTGTGTTGTATAC 59.309 41.667 0.00 0.00 39.88 1.47
5256 7255 5.659048 AGAGATAATCCAATTTCGCGAAC 57.341 39.130 23.33 5.82 0.00 3.95
5259 7258 4.988540 TGGTAGAGATAATCCAATTTCGCG 59.011 41.667 0.00 0.00 0.00 5.87
5265 7264 6.402222 GCGATCTTGGTAGAGATAATCCAAT 58.598 40.000 0.00 0.00 38.90 3.16
5292 7291 9.128404 CATGAGATCCAAAATATCTTCCTTTCA 57.872 33.333 0.00 0.00 33.82 2.69
5304 7303 4.322953 GCCAAACACCATGAGATCCAAAAT 60.323 41.667 0.00 0.00 0.00 1.82
5328 7327 1.610624 CCCCAGTATGAAACGCAGTGT 60.611 52.381 0.00 0.00 38.39 3.55
5329 7328 1.086696 CCCCAGTATGAAACGCAGTG 58.913 55.000 0.00 0.00 38.39 3.66
5330 7329 0.981183 TCCCCAGTATGAAACGCAGT 59.019 50.000 0.00 0.00 42.04 4.40
5407 7406 7.392953 ACAAACCAATCAACCAAAGACAAAAAT 59.607 29.630 0.00 0.00 0.00 1.82
5417 7416 6.102663 CACAACTTACAAACCAATCAACCAA 58.897 36.000 0.00 0.00 0.00 3.67
5418 7417 5.655488 CACAACTTACAAACCAATCAACCA 58.345 37.500 0.00 0.00 0.00 3.67
5509 7508 1.268234 CGCAAGAATTTCATCCGAGCC 60.268 52.381 0.00 0.00 43.02 4.70
5513 7514 2.855953 GCATCCGCAAGAATTTCATCCG 60.856 50.000 0.00 0.00 43.02 4.18
5515 7516 2.378806 CGCATCCGCAAGAATTTCATC 58.621 47.619 0.00 0.00 43.02 2.92
5606 7946 7.831753 AGTCAGATCGATCTTACTCTCAAAAA 58.168 34.615 28.55 3.00 36.87 1.94
5608 7948 7.397892 AAGTCAGATCGATCTTACTCTCAAA 57.602 36.000 32.06 7.96 39.68 2.69
5609 7949 6.238239 CGAAGTCAGATCGATCTTACTCTCAA 60.238 42.308 32.06 8.82 39.68 3.02
5617 7957 3.283751 AGACCGAAGTCAGATCGATCTT 58.716 45.455 25.25 11.18 40.19 2.40
5618 7958 2.925724 AGACCGAAGTCAGATCGATCT 58.074 47.619 22.32 22.32 46.15 2.75
5619 7959 3.065510 TGAAGACCGAAGTCAGATCGATC 59.934 47.826 17.91 17.91 46.15 3.69
5621 7961 2.420372 CTGAAGACCGAAGTCAGATCGA 59.580 50.000 0.00 0.00 46.15 3.59
5622 7962 2.162608 ACTGAAGACCGAAGTCAGATCG 59.837 50.000 6.89 0.00 46.15 3.69
5623 7963 3.191581 TCACTGAAGACCGAAGTCAGATC 59.808 47.826 6.89 0.00 46.15 2.75
5624 7964 3.157881 TCACTGAAGACCGAAGTCAGAT 58.842 45.455 6.89 0.00 46.15 2.90
5625 7965 2.554462 CTCACTGAAGACCGAAGTCAGA 59.446 50.000 6.89 0.00 46.15 3.27
5628 7968 2.554893 ACTCTCACTGAAGACCGAAGTC 59.445 50.000 0.00 0.00 43.89 3.01
5629 7969 2.588620 ACTCTCACTGAAGACCGAAGT 58.411 47.619 0.00 0.00 0.00 3.01
5630 7970 3.004839 TCAACTCTCACTGAAGACCGAAG 59.995 47.826 0.00 0.00 0.00 3.79
5632 7972 2.554462 CTCAACTCTCACTGAAGACCGA 59.446 50.000 0.00 0.00 0.00 4.69
5633 7973 2.554462 TCTCAACTCTCACTGAAGACCG 59.446 50.000 0.00 0.00 0.00 4.79
5634 7974 3.056891 CCTCTCAACTCTCACTGAAGACC 60.057 52.174 0.00 0.00 0.00 3.85
5635 7975 3.613910 GCCTCTCAACTCTCACTGAAGAC 60.614 52.174 0.00 0.00 0.00 3.01
5636 7976 2.560542 GCCTCTCAACTCTCACTGAAGA 59.439 50.000 0.00 0.00 0.00 2.87
5677 8326 3.750130 GCTGACAACTTCTGTGATGTGAT 59.250 43.478 0.00 0.00 38.84 3.06
5678 8327 3.133691 GCTGACAACTTCTGTGATGTGA 58.866 45.455 0.00 0.00 38.84 3.58
5679 8328 2.874086 TGCTGACAACTTCTGTGATGTG 59.126 45.455 0.00 0.00 38.84 3.21
5680 8329 3.198409 TGCTGACAACTTCTGTGATGT 57.802 42.857 0.00 0.00 38.84 3.06
5681 8330 5.173664 TCTATGCTGACAACTTCTGTGATG 58.826 41.667 0.00 0.00 38.84 3.07
5704 8353 0.905357 GGACGGGCTCTGGCATATAT 59.095 55.000 0.00 0.00 40.87 0.86
5705 8354 1.532604 CGGACGGGCTCTGGCATATA 61.533 60.000 0.00 0.00 40.87 0.86
5873 8522 5.409826 AGCTGTTACAGTTGCAGAATTAGTC 59.590 40.000 14.23 0.00 33.43 2.59
5909 8558 3.889538 AGACAGTCTACAGTACAGTGCAA 59.110 43.478 0.00 0.00 0.00 4.08
5910 8559 3.487372 AGACAGTCTACAGTACAGTGCA 58.513 45.455 0.00 0.00 0.00 4.57
5911 8560 4.506886 AAGACAGTCTACAGTACAGTGC 57.493 45.455 2.64 0.00 0.00 4.40
5912 8561 8.561212 GGATATAAGACAGTCTACAGTACAGTG 58.439 40.741 2.64 0.00 0.00 3.66
5913 8562 7.441760 CGGATATAAGACAGTCTACAGTACAGT 59.558 40.741 2.64 0.00 0.00 3.55
5914 8563 7.656542 TCGGATATAAGACAGTCTACAGTACAG 59.343 40.741 2.64 0.00 0.00 2.74
5915 8564 7.503549 TCGGATATAAGACAGTCTACAGTACA 58.496 38.462 2.64 0.00 0.00 2.90
5916 8565 7.656948 ACTCGGATATAAGACAGTCTACAGTAC 59.343 40.741 2.64 0.00 0.00 2.73
5938 8587 5.952064 GCAAAATAACTGATACGTTCACTCG 59.048 40.000 0.00 0.00 0.00 4.18
5940 8589 6.795098 TGCAAAATAACTGATACGTTCACT 57.205 33.333 0.00 0.00 0.00 3.41
5998 8647 4.376225 TCCTTTAAGGAAATTGTCGGGT 57.624 40.909 11.81 0.00 42.51 5.28
6014 8663 7.556733 TTGTAACGTATTTGTCTTGTCCTTT 57.443 32.000 0.00 0.00 0.00 3.11
6018 8667 8.898792 GGAAAATTGTAACGTATTTGTCTTGTC 58.101 33.333 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.