Multiple sequence alignment - TraesCS1B01G025100

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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 TraesCS1B01G025100 chr1B 100.000 6133 0 0 1 6133 12345353 12351485 0.000000e+00 11326.0
1 TraesCS1B01G025100 chr1B 95.756 2215 74 9 3932 6133 13025469 13023262 0.000000e+00 3552.0
2 TraesCS1B01G025100 chr1B 89.895 2563 170 35 3190 5713 13667694 13665182 0.000000e+00 3216.0
3 TraesCS1B01G025100 chr1B 93.068 1183 73 6 18 1193 13669580 13668400 0.000000e+00 1722.0
4 TraesCS1B01G025100 chr1B 87.627 687 47 13 1197 1865 13668356 13667690 0.000000e+00 763.0
5 TraesCS1B01G025100 chr1B 91.935 434 15 2 3297 3730 13025907 13025494 1.900000e-164 590.0
6 TraesCS1B01G025100 chr1B 80.000 645 105 16 3977 4604 13245950 13245313 7.250000e-124 455.0
7 TraesCS1B01G025100 chr1B 87.931 290 30 5 3979 4267 12944588 12944873 2.740000e-88 337.0
8 TraesCS1B01G025100 chr1B 87.329 292 28 7 3979 4267 13435558 13435843 5.930000e-85 326.0
9 TraesCS1B01G025100 chr1B 94.054 185 11 0 2461 2645 13027099 13026915 1.300000e-71 281.0
10 TraesCS1B01G025100 chr1B 96.639 119 4 0 2306 2424 13027214 13027096 1.350000e-46 198.0
11 TraesCS1B01G025100 chr1B 80.000 165 30 3 3026 3188 338017592 338017755 1.080000e-22 119.0
12 TraesCS1B01G025100 chr1B 89.888 89 8 1 15 102 13634128 13634040 5.020000e-21 113.0
13 TraesCS1B01G025100 chr1B 91.667 72 5 1 2632 2702 550012571 550012500 1.410000e-16 99.0
14 TraesCS1B01G025100 chr1B 84.524 84 13 0 1426 1509 508694777 508694694 3.940000e-12 84.2
15 TraesCS1B01G025100 chr1D 90.616 2174 127 38 3265 5390 9483750 9481606 0.000000e+00 2813.0
16 TraesCS1B01G025100 chr1D 87.244 1662 136 35 248 1865 9485470 9483841 0.000000e+00 1825.0
17 TraesCS1B01G025100 chr1D 83.429 1044 96 28 1866 2902 391162285 391163258 0.000000e+00 898.0
18 TraesCS1B01G025100 chr1D 88.356 292 29 5 3977 4267 9057284 9057571 4.550000e-91 346.0
19 TraesCS1B01G025100 chr1D 78.947 418 55 18 1872 2285 309851665 309851277 2.840000e-63 254.0
20 TraesCS1B01G025100 chr1D 100.000 30 0 0 3562 3591 9483375 9483346 8.590000e-04 56.5
21 TraesCS1B01G025100 chr6D 92.744 1075 56 8 1861 2928 25610128 25611187 0.000000e+00 1533.0
22 TraesCS1B01G025100 chr6D 91.322 242 20 1 2944 3185 25611272 25611512 4.580000e-86 329.0
23 TraesCS1B01G025100 chr6D 87.069 116 15 0 3073 3188 431133325 431133440 1.390000e-26 132.0
24 TraesCS1B01G025100 chrUn 84.394 1320 130 44 3305 4580 96661548 96662835 0.000000e+00 1227.0
25 TraesCS1B01G025100 chrUn 86.239 109 11 4 1869 1975 277495934 277495828 1.400000e-21 115.0
26 TraesCS1B01G025100 chrUn 90.698 86 7 1 15 99 2459306 2459391 5.020000e-21 113.0
27 TraesCS1B01G025100 chr3A 83.714 350 51 2 1872 2221 46031628 46031971 5.930000e-85 326.0
28 TraesCS1B01G025100 chr3A 86.813 91 11 1 1421 1510 20712676 20712766 3.910000e-17 100.0
29 TraesCS1B01G025100 chr1A 87.900 281 29 5 3979 4258 10497266 10497542 5.930000e-85 326.0
30 TraesCS1B01G025100 chr1A 83.465 254 35 6 3305 3551 449662059 449661806 4.780000e-56 230.0
31 TraesCS1B01G025100 chr1A 79.042 167 33 2 3024 3188 535391764 535391930 5.020000e-21 113.0
32 TraesCS1B01G025100 chr3B 80.303 396 61 13 1862 2246 796838336 796837947 3.620000e-72 283.0
33 TraesCS1B01G025100 chr3B 76.364 165 33 5 3027 3188 666610693 666610854 3.940000e-12 84.2
34 TraesCS1B01G025100 chr2B 83.594 256 31 5 3305 3551 629486759 629487012 4.780000e-56 230.0
35 TraesCS1B01G025100 chr2A 83.465 254 35 7 3305 3551 13833287 13833540 4.780000e-56 230.0
36 TraesCS1B01G025100 chr2A 79.762 168 30 4 3024 3188 709839603 709839769 1.080000e-22 119.0
37 TraesCS1B01G025100 chr4D 82.593 270 36 7 3293 3551 146390091 146390360 1.720000e-55 228.0
38 TraesCS1B01G025100 chr7A 82.156 269 41 6 3305 3566 675874556 675874824 2.220000e-54 224.0
39 TraesCS1B01G025100 chr7A 82.156 269 41 6 3305 3566 675912431 675912699 2.220000e-54 224.0
40 TraesCS1B01G025100 chr7A 78.824 170 31 5 1861 2028 105358501 105358667 6.500000e-20 110.0
41 TraesCS1B01G025100 chr7A 79.130 115 24 0 3074 3188 729317541 729317427 5.100000e-11 80.5
42 TraesCS1B01G025100 chr5A 83.133 166 27 1 3024 3188 466577574 466577739 3.830000e-32 150.0
43 TraesCS1B01G025100 chr5A 86.239 109 11 4 1869 1975 695392904 695393010 1.400000e-21 115.0
44 TraesCS1B01G025100 chr5A 86.239 109 11 4 1869 1975 695418273 695418379 1.400000e-21 115.0
45 TraesCS1B01G025100 chr7B 85.714 112 12 4 1866 1975 742084537 742084646 1.400000e-21 115.0
46 TraesCS1B01G025100 chr6A 76.963 191 41 3 1869 2057 581031062 581030873 8.410000e-19 106.0
47 TraesCS1B01G025100 chr4B 81.513 119 17 3 3074 3188 630582331 630582448 6.550000e-15 93.5


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 TraesCS1B01G025100 chr1B 12345353 12351485 6132 False 11326.000000 11326 100.000000 1 6133 1 chr1B.!!$F1 6132
1 TraesCS1B01G025100 chr1B 13665182 13669580 4398 True 1900.333333 3216 90.196667 18 5713 3 chr1B.!!$R6 5695
2 TraesCS1B01G025100 chr1B 13023262 13027214 3952 True 1155.250000 3552 94.596000 2306 6133 4 chr1B.!!$R5 3827
3 TraesCS1B01G025100 chr1B 13245313 13245950 637 True 455.000000 455 80.000000 3977 4604 1 chr1B.!!$R1 627
4 TraesCS1B01G025100 chr1D 9481606 9485470 3864 True 1564.833333 2813 92.620000 248 5390 3 chr1D.!!$R2 5142
5 TraesCS1B01G025100 chr1D 391162285 391163258 973 False 898.000000 898 83.429000 1866 2902 1 chr1D.!!$F2 1036
6 TraesCS1B01G025100 chr6D 25610128 25611512 1384 False 931.000000 1533 92.033000 1861 3185 2 chr6D.!!$F2 1324
7 TraesCS1B01G025100 chrUn 96661548 96662835 1287 False 1227.000000 1227 84.394000 3305 4580 1 chrUn.!!$F2 1275

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
720 727 0.250467 CCGGCCGATCAAATCCATCT 60.250 55.0 30.73 0.0 0.00 2.90 F
1444 1527 0.975040 AGGTTGGTTTGGCACTGCAA 60.975 50.0 2.82 0.0 0.00 4.08 F
2332 2437 0.106868 CAATGGAGCAGGATGGCAGA 60.107 55.0 0.00 0.0 35.86 4.26 F
2962 3737 0.250727 AACGCCAGCTTGCTCCTTAA 60.251 50.0 8.31 0.0 0.00 1.85 F
3045 3852 0.752376 GGTCAAAACCGGGGTCAACA 60.752 55.0 6.32 0.0 35.36 3.33 F
3100 3907 1.923356 AACATGCCCGGTTTGAAGAT 58.077 45.0 0.00 0.0 0.00 2.40 F
3104 3911 1.988293 TGCCCGGTTTGAAGATTTGA 58.012 45.0 0.00 0.0 0.00 2.69 F
4592 5493 0.793861 TGCTTGCGATGTTAACCGAC 59.206 50.0 2.48 0.0 0.00 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1611 1694 0.179089 CTCCGGCACATCTTCTGGAG 60.179 60.000 0.00 3.06 46.05 3.86 R
3036 3843 0.104120 GTTTTGGTGCTGTTGACCCC 59.896 55.000 0.00 0.00 31.84 4.95 R
3742 4582 0.183971 TGGGTGTTAAGTGGTGGGTG 59.816 55.000 0.00 0.00 0.00 4.61 R
4046 4932 0.324368 AGTCGCAGGGATGTCAGGTA 60.324 55.000 0.00 0.00 0.00 3.08 R
4342 5242 2.618709 GGTGAGTATGCCTGCAAATACC 59.381 50.000 0.00 0.00 30.91 2.73 R
4406 5307 2.751166 AGGTGATGACAGGTTCTTCG 57.249 50.000 0.00 0.00 32.14 3.79 R
4618 5519 6.391649 TGTCCTCATTTAAGTATGGGGGTATT 59.608 38.462 6.26 0.00 44.82 1.89 R
5832 6747 0.037303 ACAAGCATGACACCCAGGAG 59.963 55.000 0.00 0.00 0.00 3.69 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
31 32 1.607612 CCCTGCCAATAACTCCGGT 59.392 57.895 0.00 0.00 0.00 5.28
37 38 1.408266 GCCAATAACTCCGGTCATGGT 60.408 52.381 0.00 0.00 0.00 3.55
46 47 1.954382 TCCGGTCATGGTATCTTCTCG 59.046 52.381 0.00 0.00 0.00 4.04
130 131 4.256110 CAAGTCTAAGTGGATGCACATGA 58.744 43.478 20.21 10.94 0.00 3.07
148 149 6.349280 GCACATGACATAAGCCTCAAAAACTA 60.349 38.462 0.00 0.00 0.00 2.24
150 151 8.246180 CACATGACATAAGCCTCAAAAACTAAT 58.754 33.333 0.00 0.00 0.00 1.73
221 222 7.040271 TGCCGCTAATGTTATACTAGTGATGTA 60.040 37.037 5.39 0.00 0.00 2.29
273 274 4.513198 GTCCATTCAAATTTTCGGGACA 57.487 40.909 17.05 0.00 42.17 4.02
359 360 3.701532 TTGTTGCCTAAGTTCAAACCG 57.298 42.857 0.00 0.00 0.00 4.44
366 367 6.827586 TGCCTAAGTTCAAACCGAAAATAT 57.172 33.333 0.00 0.00 34.69 1.28
368 369 8.514330 TGCCTAAGTTCAAACCGAAAATATAT 57.486 30.769 0.00 0.00 34.69 0.86
415 416 2.546789 AGCAACCTAAACCGAGAAAACG 59.453 45.455 0.00 0.00 0.00 3.60
416 417 2.288729 GCAACCTAAACCGAGAAAACGT 59.711 45.455 0.00 0.00 0.00 3.99
435 436 1.070105 GGTTGTGGGTGCGTAGTGA 59.930 57.895 0.00 0.00 0.00 3.41
454 455 3.306166 GTGAATACACGTCAGCCATGTAC 59.694 47.826 0.00 0.00 37.28 2.90
570 571 7.967854 CGAATAACAAAAATATTGCCTCAGTGA 59.032 33.333 0.00 0.00 0.00 3.41
597 598 3.517100 ACCAATGCTAAGCTCTCAAGAGA 59.483 43.478 11.21 3.05 44.74 3.10
614 615 4.213564 AGAGAGCCATGAAACAAGTAGG 57.786 45.455 0.00 0.00 0.00 3.18
618 619 3.019564 AGCCATGAAACAAGTAGGCATC 58.980 45.455 0.00 0.00 44.34 3.91
720 727 0.250467 CCGGCCGATCAAATCCATCT 60.250 55.000 30.73 0.00 0.00 2.90
723 730 2.029020 CGGCCGATCAAATCCATCTAGA 60.029 50.000 24.07 0.00 0.00 2.43
728 735 4.281941 CCGATCAAATCCATCTAGAGGACA 59.718 45.833 5.84 0.00 38.13 4.02
779 787 6.101332 GTGCCACGGGATAATTTATCGTATA 58.899 40.000 9.70 0.00 36.03 1.47
786 794 8.131100 ACGGGATAATTTATCGTATATGTACCG 58.869 37.037 16.51 16.51 36.03 4.02
867 875 9.171877 AGATTTTCTCTTGGATTAGCTTTGTAG 57.828 33.333 0.00 0.00 0.00 2.74
883 891 3.837213 TGTAGAAGTGTACCGTGCTAC 57.163 47.619 3.63 3.63 0.00 3.58
943 951 1.132453 CTCCAATCTCGTGTCGTGCTA 59.868 52.381 0.00 0.00 0.00 3.49
945 953 1.135373 CCAATCTCGTGTCGTGCTACT 60.135 52.381 0.00 0.00 0.00 2.57
1109 1117 2.098233 CCGTTTACGCTGCCGTCAT 61.098 57.895 0.00 0.00 46.39 3.06
1117 1125 2.434884 CTGCCGTCATGGTTCGCT 60.435 61.111 0.00 0.00 41.21 4.93
1119 1127 3.554692 GCCGTCATGGTTCGCTCG 61.555 66.667 0.00 0.00 41.21 5.03
1124 1132 2.436646 CATGGTTCGCTCGGCCTT 60.437 61.111 0.00 0.00 0.00 4.35
1151 1159 8.296713 GTGTGATTTGGTTTCTTCAGCTAATTA 58.703 33.333 0.00 0.00 0.00 1.40
1181 1189 6.370166 CCTTTGTCTAATCTCAGTTTCTCACC 59.630 42.308 0.00 0.00 0.00 4.02
1194 1219 5.696724 CAGTTTCTCACCTTTGTCTAATCGT 59.303 40.000 0.00 0.00 0.00 3.73
1289 1354 1.607251 CGCAACGAAAAGGAGGTAGGT 60.607 52.381 0.00 0.00 0.00 3.08
1292 1357 3.735591 CAACGAAAAGGAGGTAGGTGAA 58.264 45.455 0.00 0.00 0.00 3.18
1299 1364 6.598064 CGAAAAGGAGGTAGGTGAACATTTAT 59.402 38.462 0.00 0.00 0.00 1.40
1301 1366 8.721133 AAAAGGAGGTAGGTGAACATTTATTT 57.279 30.769 0.00 0.00 0.00 1.40
1318 1383 8.802267 ACATTTATTTCTTTTTCGATGAAGGGA 58.198 29.630 8.03 0.10 0.00 4.20
1319 1384 9.076596 CATTTATTTCTTTTTCGATGAAGGGAC 57.923 33.333 8.03 0.00 0.00 4.46
1339 1404 8.382030 AGGGACTTTTTCAATAAAAATGCTTG 57.618 30.769 0.00 0.00 42.22 4.01
1444 1527 0.975040 AGGTTGGTTTGGCACTGCAA 60.975 50.000 2.82 0.00 0.00 4.08
1471 1554 1.124780 TCGAAGAGGGTGTGGTGAAA 58.875 50.000 0.00 0.00 0.00 2.69
1549 1632 3.489355 TCTGTTCAATTCACCTGCATGT 58.511 40.909 0.00 0.00 0.00 3.21
1557 1640 5.945191 TCAATTCACCTGCATGTATTTCTCA 59.055 36.000 0.00 0.00 0.00 3.27
1583 1666 6.599437 CAGTTTAAGTTCACCGAGTATTTGG 58.401 40.000 0.00 0.00 0.00 3.28
1594 1677 4.939509 CGAGTATTTGGTCGGTGATTTT 57.060 40.909 0.00 0.00 32.40 1.82
1596 1679 6.032722 CGAGTATTTGGTCGGTGATTTTAG 57.967 41.667 0.00 0.00 32.40 1.85
1597 1680 5.006358 CGAGTATTTGGTCGGTGATTTTAGG 59.994 44.000 0.00 0.00 32.40 2.69
1598 1681 4.638865 AGTATTTGGTCGGTGATTTTAGGC 59.361 41.667 0.00 0.00 0.00 3.93
1599 1682 2.570415 TTGGTCGGTGATTTTAGGCA 57.430 45.000 0.00 0.00 0.00 4.75
1600 1683 2.799126 TGGTCGGTGATTTTAGGCAT 57.201 45.000 0.00 0.00 0.00 4.40
1601 1684 2.364632 TGGTCGGTGATTTTAGGCATG 58.635 47.619 0.00 0.00 0.00 4.06
1602 1685 2.026729 TGGTCGGTGATTTTAGGCATGA 60.027 45.455 0.00 0.00 0.00 3.07
1603 1686 3.214328 GGTCGGTGATTTTAGGCATGAT 58.786 45.455 0.00 0.00 0.00 2.45
1604 1687 3.251004 GGTCGGTGATTTTAGGCATGATC 59.749 47.826 0.00 0.00 0.00 2.92
1605 1688 3.876914 GTCGGTGATTTTAGGCATGATCA 59.123 43.478 0.00 0.00 0.00 2.92
1606 1689 4.516698 GTCGGTGATTTTAGGCATGATCAT 59.483 41.667 1.18 1.18 31.85 2.45
1607 1690 4.756642 TCGGTGATTTTAGGCATGATCATC 59.243 41.667 4.86 0.97 31.85 2.92
1608 1691 4.516321 CGGTGATTTTAGGCATGATCATCA 59.484 41.667 4.86 0.00 30.82 3.07
1609 1692 5.182570 CGGTGATTTTAGGCATGATCATCAT 59.817 40.000 4.86 0.00 37.65 2.45
1697 1800 6.823689 GGATCTTTACCTTGTAAGCATCTTCA 59.176 38.462 0.00 0.00 0.00 3.02
1702 1805 9.696917 CTTTACCTTGTAAGCATCTTCAATTTT 57.303 29.630 0.00 0.00 0.00 1.82
1806 1909 6.828502 TTCTACTATACTTTTGCATGCTCG 57.171 37.500 20.33 6.88 0.00 5.03
1810 1913 5.869350 ACTATACTTTTGCATGCTCGTTTC 58.131 37.500 20.33 0.00 0.00 2.78
1859 1963 3.873361 TCATTTCGAATAAGGCAGCTCAG 59.127 43.478 0.00 0.00 0.00 3.35
1860 1964 3.610040 TTTCGAATAAGGCAGCTCAGA 57.390 42.857 0.00 0.00 0.00 3.27
1861 1965 3.610040 TTCGAATAAGGCAGCTCAGAA 57.390 42.857 0.00 0.00 0.00 3.02
1862 1966 3.610040 TCGAATAAGGCAGCTCAGAAA 57.390 42.857 0.00 0.00 0.00 2.52
1863 1967 3.937814 TCGAATAAGGCAGCTCAGAAAA 58.062 40.909 0.00 0.00 0.00 2.29
1864 1968 3.684788 TCGAATAAGGCAGCTCAGAAAAC 59.315 43.478 0.00 0.00 0.00 2.43
1867 1971 5.392380 CGAATAAGGCAGCTCAGAAAACAAT 60.392 40.000 0.00 0.00 0.00 2.71
1876 1980 5.401674 CAGCTCAGAAAACAATGAGAAAAGC 59.598 40.000 6.39 0.00 44.68 3.51
1900 2004 6.183360 GCATACTTTTCATCCCTCAACTCTTC 60.183 42.308 0.00 0.00 0.00 2.87
1903 2007 1.266178 TCATCCCTCAACTCTTCGCA 58.734 50.000 0.00 0.00 0.00 5.10
1934 2038 9.372369 CTAGATTTAGTCCCTCAACTACAAAAG 57.628 37.037 0.00 0.00 31.57 2.27
2015 2119 1.495878 GCAGTATCCATGCTGACTCG 58.504 55.000 8.68 0.00 42.19 4.18
2029 2133 2.489329 CTGACTCGGCATGGTTTTGAAT 59.511 45.455 0.00 0.00 0.00 2.57
2050 2154 3.038280 GCATGTCCACGTGGCAAA 58.962 55.556 30.25 17.22 33.60 3.68
2103 2207 0.925466 ACGTTTCGTCGAACAGTTGG 59.075 50.000 7.29 0.00 33.69 3.77
2128 2233 2.682256 AATGCCGCACTGCACAACAC 62.682 55.000 0.00 0.00 45.48 3.32
2297 2402 3.072476 CTGGCTGGCACACCTAGT 58.928 61.111 0.00 0.00 36.63 2.57
2298 2403 1.376466 CTGGCTGGCACACCTAGTT 59.624 57.895 0.00 0.00 36.63 2.24
2332 2437 0.106868 CAATGGAGCAGGATGGCAGA 60.107 55.000 0.00 0.00 35.86 4.26
2423 2528 4.347453 GCCGGCTTTGTGTGGCTG 62.347 66.667 22.15 0.00 44.16 4.85
2424 2529 2.594303 CCGGCTTTGTGTGGCTGA 60.594 61.111 0.00 0.00 37.02 4.26
2447 2552 0.516877 GCATGTGCAAGTACTCGCAA 59.483 50.000 10.72 1.64 40.44 4.85
2514 2619 4.704833 GGGAGCCTGAGCACGCAA 62.705 66.667 0.00 0.00 43.56 4.85
2591 2696 2.997897 GGGTCCCAGTCGCTGAGT 60.998 66.667 1.78 0.00 32.44 3.41
2621 2726 1.008424 CGATGGGATGGACGAGTCG 60.008 63.158 11.85 11.85 0.00 4.18
2649 2758 2.954868 CGACGGCGAGGTACATGC 60.955 66.667 16.62 0.00 40.82 4.06
2671 2849 3.414700 CGTGAGCTTGTGGCCGAC 61.415 66.667 0.00 0.00 43.05 4.79
2707 2907 2.273912 GGAGACGAACTCGGTGGGT 61.274 63.158 3.88 0.00 45.76 4.51
2817 3368 2.437180 CGCTGCTGGATCCAAGCA 60.437 61.111 29.31 28.01 37.04 3.91
2913 3648 1.837051 TGACGTTCTCCAGCCCAGT 60.837 57.895 0.00 0.00 0.00 4.00
2917 3652 2.121963 TTCTCCAGCCCAGTGGGT 60.122 61.111 29.23 13.46 46.51 4.51
2921 3656 2.610859 CCAGCCCAGTGGGTAGGT 60.611 66.667 29.23 9.27 46.51 3.08
2922 3657 2.231380 CCAGCCCAGTGGGTAGGTT 61.231 63.158 29.23 7.69 46.51 3.50
2924 3659 1.151899 AGCCCAGTGGGTAGGTTGA 60.152 57.895 29.23 0.00 46.51 3.18
2931 3706 1.534476 TGGGTAGGTTGAGCCGTCA 60.534 57.895 0.00 0.00 43.70 4.35
2950 3725 0.606401 AAGACCACCATGAACGCCAG 60.606 55.000 0.00 0.00 0.00 4.85
2951 3726 2.672996 ACCACCATGAACGCCAGC 60.673 61.111 0.00 0.00 0.00 4.85
2960 3735 1.968540 GAACGCCAGCTTGCTCCTT 60.969 57.895 8.31 0.00 0.00 3.36
2962 3737 0.250727 AACGCCAGCTTGCTCCTTAA 60.251 50.000 8.31 0.00 0.00 1.85
3019 3826 1.130561 GTCTTATTTGCCACGTCAGCC 59.869 52.381 4.72 0.00 0.00 4.85
3021 3828 2.235155 TCTTATTTGCCACGTCAGCCTA 59.765 45.455 4.72 0.00 0.00 3.93
3045 3852 0.752376 GGTCAAAACCGGGGTCAACA 60.752 55.000 6.32 0.00 35.36 3.33
3087 3894 2.100605 AGAGAAGGGACGAAACATGC 57.899 50.000 0.00 0.00 0.00 4.06
3100 3907 1.923356 AACATGCCCGGTTTGAAGAT 58.077 45.000 0.00 0.00 0.00 2.40
3104 3911 1.988293 TGCCCGGTTTGAAGATTTGA 58.012 45.000 0.00 0.00 0.00 2.69
3113 3920 4.442753 GGTTTGAAGATTTGAGGGTGCAAA 60.443 41.667 0.00 0.00 41.49 3.68
3119 3926 4.154942 AGATTTGAGGGTGCAAATTGTCT 58.845 39.130 0.00 0.00 45.63 3.41
3124 3931 2.365293 GAGGGTGCAAATTGTCTGGTTT 59.635 45.455 0.00 0.00 0.00 3.27
3129 3936 4.498345 GGTGCAAATTGTCTGGTTTCGTAA 60.498 41.667 0.00 0.00 0.00 3.18
3132 3939 6.858993 GTGCAAATTGTCTGGTTTCGTAATTA 59.141 34.615 0.00 0.00 0.00 1.40
3200 4007 8.021396 AGTATACTTTTCTCGAAAACAATTGGC 58.979 33.333 10.83 0.00 35.57 4.52
3220 4027 2.939103 GCATTGTGATCTGGACTACACC 59.061 50.000 0.00 0.00 33.08 4.16
3236 4043 6.073003 GGACTACACCAAACTCAAGATTTCTG 60.073 42.308 0.00 0.00 0.00 3.02
3246 4053 5.665459 ACTCAAGATTTCTGGAGGTTATCG 58.335 41.667 14.92 0.00 46.12 2.92
3332 4159 5.105310 GGGAGTATCATAAGCGGTATCATGT 60.105 44.000 0.00 0.00 36.25 3.21
3591 4431 4.571176 GCCAGTCCACTACTTAGTAATTGC 59.429 45.833 0.00 0.00 35.76 3.56
3592 4432 5.116882 CCAGTCCACTACTTAGTAATTGCC 58.883 45.833 0.00 0.00 35.76 4.52
3594 4434 6.097839 CCAGTCCACTACTTAGTAATTGCCTA 59.902 42.308 0.00 0.00 35.76 3.93
3599 4439 8.910944 TCCACTACTTAGTAATTGCCTACTTAG 58.089 37.037 0.00 0.47 35.58 2.18
3600 4440 8.693625 CCACTACTTAGTAATTGCCTACTTAGT 58.306 37.037 11.64 11.64 41.91 2.24
3736 4576 9.874205 ACAAATCCACATCCAACTAAAATAATG 57.126 29.630 0.00 0.00 0.00 1.90
3742 4582 7.489113 CCACATCCAACTAAAATAATGTCAAGC 59.511 37.037 0.00 0.00 0.00 4.01
3771 4616 4.487948 CACTTAACACCCATGCATTTCTG 58.512 43.478 0.00 0.00 0.00 3.02
4046 4932 4.278310 AGCAACCCTGAAAACTTTGTACT 58.722 39.130 0.00 0.00 0.00 2.73
4406 5307 4.878397 CCTTGGATGAACAGTAATGTCCTC 59.122 45.833 0.00 0.00 0.00 3.71
4415 5316 3.833070 ACAGTAATGTCCTCGAAGAACCT 59.167 43.478 0.00 0.00 34.09 3.50
4592 5493 0.793861 TGCTTGCGATGTTAACCGAC 59.206 50.000 2.48 0.00 0.00 4.79
4809 5717 5.289917 TGTTGCTGTATCGTAATTTGGTG 57.710 39.130 0.00 0.00 0.00 4.17
5192 6101 6.500589 ACCTTGCACTTCACATATACCTAT 57.499 37.500 0.00 0.00 0.00 2.57
5246 6155 5.432680 AGTTCTGGATCAAGATCATGTGT 57.567 39.130 11.78 0.00 39.54 3.72
5379 6291 2.480419 CTCCACCAAGTGTTGAACGATC 59.520 50.000 0.00 0.00 0.00 3.69
5552 6464 3.244770 ACCTATTGAACATTCACCGTGGT 60.245 43.478 0.00 0.00 36.83 4.16
5605 6520 2.297698 TCTCGTTGACCCTTGACCTA 57.702 50.000 0.00 0.00 0.00 3.08
5671 6586 9.383519 GTTATTTCATACATCAAGAGACCTTCA 57.616 33.333 0.00 0.00 0.00 3.02
5674 6589 4.162320 TCATACATCAAGAGACCTTCACCC 59.838 45.833 0.00 0.00 0.00 4.61
5691 6606 4.575885 TCACCCTGTGTTTATGCTTCTAC 58.424 43.478 0.00 0.00 34.79 2.59
5752 6667 7.540745 GCATAGGTAGCTTTCGAAAATGAAAAA 59.459 33.333 12.41 0.00 37.40 1.94
5832 6747 6.780706 TGTTAAAGCTTTGTCTACACTAGC 57.219 37.500 22.02 1.03 35.31 3.42
5835 6750 3.878160 AGCTTTGTCTACACTAGCTCC 57.122 47.619 11.28 0.00 38.81 4.70
5861 6776 5.457140 GGTGTCATGCTTGTTTTAATTCGA 58.543 37.500 0.00 0.00 0.00 3.71
5927 6842 4.404185 AGCCTTTCACCCCTAGAAAAAT 57.596 40.909 0.00 0.00 34.84 1.82
6046 6961 5.931294 TGTGAACATCTTGTAGGGTAAACA 58.069 37.500 0.00 0.00 0.00 2.83
6048 6963 6.429692 TGTGAACATCTTGTAGGGTAAACATG 59.570 38.462 0.00 0.00 0.00 3.21
6085 7000 3.042682 TGTTCACCACTACCCAAGAAGA 58.957 45.455 0.00 0.00 0.00 2.87
6088 7003 4.993705 TCACCACTACCCAAGAAGAAAT 57.006 40.909 0.00 0.00 0.00 2.17
6089 7004 5.319043 TCACCACTACCCAAGAAGAAATT 57.681 39.130 0.00 0.00 0.00 1.82
6090 7005 5.070001 TCACCACTACCCAAGAAGAAATTG 58.930 41.667 0.00 0.00 0.00 2.32
6091 7006 4.218417 CACCACTACCCAAGAAGAAATTGG 59.782 45.833 0.00 0.00 45.68 3.16
6110 7029 2.224621 TGGAGAGTCAAGGCAGAAAAGG 60.225 50.000 0.00 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 1.823899 CCGGAGTTATTGGCAGGGC 60.824 63.158 0.00 0.00 0.00 5.19
13 14 0.463833 GACCGGAGTTATTGGCAGGG 60.464 60.000 9.46 0.00 0.00 4.45
14 15 0.251916 TGACCGGAGTTATTGGCAGG 59.748 55.000 9.46 0.00 0.00 4.85
15 16 1.942657 CATGACCGGAGTTATTGGCAG 59.057 52.381 9.46 0.00 0.00 4.85
16 17 1.408127 CCATGACCGGAGTTATTGGCA 60.408 52.381 9.46 0.00 0.00 4.92
17 18 1.308998 CCATGACCGGAGTTATTGGC 58.691 55.000 9.46 0.00 0.00 4.52
18 19 2.710096 ACCATGACCGGAGTTATTGG 57.290 50.000 9.46 8.72 0.00 3.16
19 20 5.215252 AGATACCATGACCGGAGTTATTG 57.785 43.478 9.46 0.00 0.00 1.90
20 21 5.602978 AGAAGATACCATGACCGGAGTTATT 59.397 40.000 9.46 0.00 0.00 1.40
31 32 2.317040 GGGTCCGAGAAGATACCATGA 58.683 52.381 0.00 0.00 33.46 3.07
37 38 3.901844 CCTTAATGGGGTCCGAGAAGATA 59.098 47.826 0.00 0.00 0.00 1.98
46 47 0.261696 ACATGGCCTTAATGGGGTCC 59.738 55.000 3.32 0.00 36.00 4.46
148 149 8.647796 TGGTTGATCTTCCTACGAACATATATT 58.352 33.333 0.00 0.00 0.00 1.28
150 151 7.591421 TGGTTGATCTTCCTACGAACATATA 57.409 36.000 0.00 0.00 0.00 0.86
155 156 7.494625 TGATTTATGGTTGATCTTCCTACGAAC 59.505 37.037 0.00 0.00 0.00 3.95
159 160 8.997323 CAGATGATTTATGGTTGATCTTCCTAC 58.003 37.037 0.00 0.00 0.00 3.18
169 170 2.951642 ACGGCCAGATGATTTATGGTTG 59.048 45.455 2.24 0.00 36.43 3.77
221 222 3.138283 TGAACAGACCAAAAGGAGTCCAT 59.862 43.478 12.86 0.00 33.29 3.41
273 274 1.271926 GGAAGTGTTAGGTGCATGGGT 60.272 52.381 0.00 0.00 0.00 4.51
315 316 5.407407 TGGAGGCTGTTTTTGTACAAAAA 57.593 34.783 32.54 32.54 44.98 1.94
366 367 7.012894 CCATTTCGGACATAGCAAAACCTTATA 59.987 37.037 0.00 0.00 36.56 0.98
368 369 5.124776 CCATTTCGGACATAGCAAAACCTTA 59.875 40.000 0.00 0.00 36.56 2.69
381 382 0.608035 GGTTGCTCCCATTTCGGACA 60.608 55.000 0.00 0.00 36.56 4.02
415 416 1.227734 ACTACGCACCCACAACCAC 60.228 57.895 0.00 0.00 0.00 4.16
416 417 1.227704 CACTACGCACCCACAACCA 60.228 57.895 0.00 0.00 0.00 3.67
454 455 2.098871 CGCGACCACATGTGCATG 59.901 61.111 20.81 12.06 44.15 4.06
570 571 3.008375 TGAGAGCTTAGCATTGGTCTTGT 59.992 43.478 7.07 0.00 40.53 3.16
597 598 2.584835 TGCCTACTTGTTTCATGGCT 57.415 45.000 0.00 0.00 40.82 4.75
634 635 4.384056 TGTCATAGCGTACCTAGTCCTAC 58.616 47.826 0.00 0.00 0.00 3.18
720 727 1.672854 CGCCGGGTCATTGTCCTCTA 61.673 60.000 2.18 0.00 0.00 2.43
723 730 4.096003 CCGCCGGGTCATTGTCCT 62.096 66.667 2.18 0.00 0.00 3.85
728 735 1.910580 AATCTGTCCGCCGGGTCATT 61.911 55.000 1.90 0.00 30.86 2.57
779 787 2.434185 CACGGCAGCACGGTACAT 60.434 61.111 7.98 0.00 38.39 2.29
807 815 7.809546 AGAATAAAGCTAATCTAAACCTGGC 57.190 36.000 0.00 0.00 0.00 4.85
867 875 3.119388 TGGTATGTAGCACGGTACACTTC 60.119 47.826 11.01 5.35 35.74 3.01
883 891 1.234821 AGCGTGTGGTTGTTGGTATG 58.765 50.000 0.00 0.00 0.00 2.39
943 951 3.760035 CTGGTCCGCGGCACTAGT 61.760 66.667 23.51 0.00 0.00 2.57
968 976 2.306341 ACGAGCTGACAGATTGATGG 57.694 50.000 14.91 0.00 0.00 3.51
1109 1117 3.936203 ACAAGGCCGAGCGAACCA 61.936 61.111 0.00 0.00 0.00 3.67
1117 1125 0.179004 ACCAAATCACACAAGGCCGA 60.179 50.000 0.00 0.00 0.00 5.54
1119 1127 2.365293 AGAAACCAAATCACACAAGGCC 59.635 45.455 0.00 0.00 0.00 5.19
1124 1132 3.953612 AGCTGAAGAAACCAAATCACACA 59.046 39.130 0.00 0.00 0.00 3.72
1151 1159 8.214364 AGAAACTGAGATTAGACAAAGGAAAGT 58.786 33.333 0.00 0.00 0.00 2.66
1171 1179 5.696724 CACGATTAGACAAAGGTGAGAAACT 59.303 40.000 0.00 0.00 30.73 2.66
1181 1189 8.689251 TCTATGTTTCTCACGATTAGACAAAG 57.311 34.615 0.00 0.00 0.00 2.77
1208 1273 7.279313 GCCTGCATAATTCAAAAACAATCTCAT 59.721 33.333 0.00 0.00 0.00 2.90
1221 1286 3.754965 GATACCCTGCCTGCATAATTCA 58.245 45.455 0.00 0.00 0.00 2.57
1227 1292 1.337384 TGTCGATACCCTGCCTGCAT 61.337 55.000 0.00 0.00 0.00 3.96
1292 1357 8.802267 TCCCTTCATCGAAAAAGAAATAAATGT 58.198 29.630 10.75 0.00 0.00 2.71
1299 1364 6.709018 AAAGTCCCTTCATCGAAAAAGAAA 57.291 33.333 10.75 0.00 0.00 2.52
1301 1366 6.320164 TGAAAAAGTCCCTTCATCGAAAAAGA 59.680 34.615 10.75 0.00 0.00 2.52
1318 1383 9.667989 GAATGCAAGCATTTTTATTGAAAAAGT 57.332 25.926 20.02 0.00 45.33 2.66
1319 1384 9.887406 AGAATGCAAGCATTTTTATTGAAAAAG 57.113 25.926 20.02 0.00 45.33 2.27
1334 1399 0.751452 TGCCAACAAGAATGCAAGCA 59.249 45.000 0.00 0.00 0.00 3.91
1339 1404 5.413499 AGACAATATTGCCAACAAGAATGC 58.587 37.500 15.48 0.00 39.69 3.56
1444 1527 3.600388 CACACCCTCTTCGAATAGCTTT 58.400 45.455 0.00 0.00 0.00 3.51
1471 1554 4.918588 AGGTGATAAACAAATCTTCCCGT 58.081 39.130 0.00 0.00 0.00 5.28
1549 1632 6.147164 CGGTGAACTTAAACTGCTGAGAAATA 59.853 38.462 0.00 0.00 0.00 1.40
1557 1640 3.470645 ACTCGGTGAACTTAAACTGCT 57.529 42.857 0.00 0.00 0.00 4.24
1583 1666 3.876914 TGATCATGCCTAAAATCACCGAC 59.123 43.478 0.00 0.00 0.00 4.79
1599 1682 4.976540 TCTTCTGGAGCATGATGATCAT 57.023 40.909 13.11 8.25 37.65 2.45
1600 1683 4.102681 ACATCTTCTGGAGCATGATGATCA 59.897 41.667 13.11 0.00 33.81 2.92
1601 1684 4.452795 CACATCTTCTGGAGCATGATGATC 59.547 45.833 1.33 1.33 38.21 2.92
1602 1685 4.390264 CACATCTTCTGGAGCATGATGAT 58.610 43.478 0.00 0.00 38.21 2.45
1603 1686 3.805207 CACATCTTCTGGAGCATGATGA 58.195 45.455 0.00 0.00 38.21 2.92
1604 1687 2.290916 GCACATCTTCTGGAGCATGATG 59.709 50.000 0.00 0.00 39.99 3.07
1605 1688 2.573369 GCACATCTTCTGGAGCATGAT 58.427 47.619 0.00 0.00 32.25 2.45
1606 1689 1.407851 GGCACATCTTCTGGAGCATGA 60.408 52.381 0.00 0.00 33.23 3.07
1607 1690 1.022735 GGCACATCTTCTGGAGCATG 58.977 55.000 0.00 0.00 33.23 4.06
1608 1691 0.463295 CGGCACATCTTCTGGAGCAT 60.463 55.000 0.00 0.00 33.23 3.79
1609 1692 1.078918 CGGCACATCTTCTGGAGCA 60.079 57.895 0.00 0.00 33.23 4.26
1610 1693 1.817099 CCGGCACATCTTCTGGAGC 60.817 63.158 0.00 0.00 0.00 4.70
1611 1694 0.179089 CTCCGGCACATCTTCTGGAG 60.179 60.000 0.00 3.06 46.05 3.86
1649 1752 3.332919 AGTACTCAAGCTGCAAGTCATG 58.667 45.455 1.02 0.00 35.30 3.07
1702 1805 7.223971 GCAACTGGATAGTGAAACGTGATTATA 59.776 37.037 0.00 0.00 45.86 0.98
1710 1813 2.673368 GGAGCAACTGGATAGTGAAACG 59.327 50.000 0.00 0.00 45.86 3.60
1832 1936 6.963796 AGCTGCCTTATTCGAAATGATAAAG 58.036 36.000 0.00 0.00 0.00 1.85
1843 1947 3.436704 TGTTTTCTGAGCTGCCTTATTCG 59.563 43.478 0.00 0.00 0.00 3.34
1851 1955 4.494350 TTCTCATTGTTTTCTGAGCTGC 57.506 40.909 0.00 0.00 38.99 5.25
1854 1958 5.284079 TGCTTTTCTCATTGTTTTCTGAGC 58.716 37.500 0.00 0.00 38.99 4.26
1876 1980 6.036517 CGAAGAGTTGAGGGATGAAAAGTATG 59.963 42.308 0.00 0.00 0.00 2.39
1885 1989 1.205655 TCTGCGAAGAGTTGAGGGATG 59.794 52.381 0.00 0.00 0.00 3.51
1886 1990 1.480137 CTCTGCGAAGAGTTGAGGGAT 59.520 52.381 12.76 0.00 0.00 3.85
1900 2004 3.886505 AGGGACTAAATCTAGACTCTGCG 59.113 47.826 0.00 0.00 36.02 5.18
1903 2007 6.737608 AGTTGAGGGACTAAATCTAGACTCT 58.262 40.000 0.00 0.00 41.55 3.24
1934 2038 0.961019 TGGAGGTGCAAATTGTCTGC 59.039 50.000 0.00 0.00 40.35 4.26
2015 2119 0.392863 GCCCCATTCAAAACCATGCC 60.393 55.000 0.00 0.00 0.00 4.40
2029 2133 4.343323 CCACGTGGACATGCCCCA 62.343 66.667 31.31 0.00 37.39 4.96
2447 2552 2.360852 GCAGCTCTGGTGGCATGT 60.361 61.111 0.00 0.00 0.00 3.21
2504 2609 2.202946 TTCGTGGTTGCGTGCTCA 60.203 55.556 0.00 0.00 0.00 4.26
2514 2619 1.603455 CCCCAACATGCTTCGTGGT 60.603 57.895 0.00 0.00 0.00 4.16
2591 2696 4.099727 TCCATCCCATCGTATTTCGTGTTA 59.900 41.667 0.00 0.00 40.80 2.41
2685 2885 4.831307 CCGAGTTCGTCTCCGCCG 62.831 72.222 0.48 0.00 39.84 6.46
2707 2907 1.764134 CGGCCAACACCCCTACTATAA 59.236 52.381 2.24 0.00 0.00 0.98
2913 3648 1.122632 TTGACGGCTCAACCTACCCA 61.123 55.000 0.00 0.00 35.61 4.51
2916 3651 1.672145 GGTCTTGACGGCTCAACCTAC 60.672 57.143 0.00 0.00 35.61 3.18
2917 3652 0.606604 GGTCTTGACGGCTCAACCTA 59.393 55.000 0.00 0.00 35.61 3.08
2921 3656 1.070786 GGTGGTCTTGACGGCTCAA 59.929 57.895 0.00 0.00 35.04 3.02
2922 3657 1.480212 ATGGTGGTCTTGACGGCTCA 61.480 55.000 0.00 0.00 0.00 4.26
2924 3659 1.003355 CATGGTGGTCTTGACGGCT 60.003 57.895 0.00 0.00 0.00 5.52
2931 3706 0.606401 CTGGCGTTCATGGTGGTCTT 60.606 55.000 0.00 0.00 0.00 3.01
2960 3735 4.499188 CCATTTCCTCTCGCTCGTACATTA 60.499 45.833 0.00 0.00 0.00 1.90
2962 3737 2.223829 CCATTTCCTCTCGCTCGTACAT 60.224 50.000 0.00 0.00 0.00 2.29
3004 3811 0.613260 TCTAGGCTGACGTGGCAAAT 59.387 50.000 11.40 1.22 34.73 2.32
3005 3812 0.320421 GTCTAGGCTGACGTGGCAAA 60.320 55.000 11.40 0.00 34.73 3.68
3036 3843 0.104120 GTTTTGGTGCTGTTGACCCC 59.896 55.000 0.00 0.00 31.84 4.95
3045 3852 1.187087 TTTTGACCGGTTTTGGTGCT 58.813 45.000 9.42 0.00 44.01 4.40
3087 3894 1.818674 CCCTCAAATCTTCAAACCGGG 59.181 52.381 6.32 0.00 0.00 5.73
3100 3907 2.364970 CCAGACAATTTGCACCCTCAAA 59.635 45.455 0.00 0.00 39.87 2.69
3104 3911 2.086610 AACCAGACAATTTGCACCCT 57.913 45.000 0.00 0.00 0.00 4.34
3113 3920 6.478129 TCCCTTAATTACGAAACCAGACAAT 58.522 36.000 0.00 0.00 0.00 2.71
3119 3926 7.832187 AGATTTGATCCCTTAATTACGAAACCA 59.168 33.333 0.00 0.00 0.00 3.67
3151 3958 4.855715 TTCGTCTCTCAACTCTTGACAT 57.144 40.909 0.00 0.00 35.46 3.06
3194 4001 3.705051 AGTCCAGATCACAATGCCAATT 58.295 40.909 0.00 0.00 0.00 2.32
3196 4003 2.885135 AGTCCAGATCACAATGCCAA 57.115 45.000 0.00 0.00 0.00 4.52
3200 4007 4.206477 TGGTGTAGTCCAGATCACAATG 57.794 45.455 0.00 0.00 33.19 2.82
3220 4027 7.413438 CGATAACCTCCAGAAATCTTGAGTTTG 60.413 40.741 9.80 0.00 34.85 2.93
3236 4043 6.839820 ATTTATTTGTCGACGATAACCTCC 57.160 37.500 18.31 0.00 0.00 4.30
3284 4111 7.147811 CCCATTATAGGCAGTCTAATAGAGGAC 60.148 44.444 0.00 0.00 0.00 3.85
3357 4185 4.337145 ACCTTATTTAATTGTCCGCCACA 58.663 39.130 0.00 0.00 0.00 4.17
3736 4576 1.607148 GTTAAGTGGTGGGTGCTTGAC 59.393 52.381 0.00 0.00 0.00 3.18
3742 4582 0.183971 TGGGTGTTAAGTGGTGGGTG 59.816 55.000 0.00 0.00 0.00 4.61
4046 4932 0.324368 AGTCGCAGGGATGTCAGGTA 60.324 55.000 0.00 0.00 0.00 3.08
4342 5242 2.618709 GGTGAGTATGCCTGCAAATACC 59.381 50.000 0.00 0.00 30.91 2.73
4382 5283 4.289672 AGGACATTACTGTTCATCCAAGGT 59.710 41.667 0.00 0.00 35.14 3.50
4406 5307 2.751166 AGGTGATGACAGGTTCTTCG 57.249 50.000 0.00 0.00 32.14 3.79
4415 5316 7.985184 AGTTTATTCGCTATTAAGGTGATGACA 59.015 33.333 0.00 0.00 0.00 3.58
4618 5519 6.391649 TGTCCTCATTTAAGTATGGGGGTATT 59.608 38.462 6.26 0.00 44.82 1.89
4798 5706 7.596749 AGAGACTTGATTACACCAAATTACG 57.403 36.000 0.00 0.00 0.00 3.18
4809 5717 8.834749 AAAGACCTTTGTAGAGACTTGATTAC 57.165 34.615 0.00 0.00 0.00 1.89
5192 6101 7.633193 AACCAACATCTAAAGTAACACACAA 57.367 32.000 0.00 0.00 0.00 3.33
5206 6115 7.996644 TCCAGAACTAAAAGTTAACCAACATCT 59.003 33.333 0.88 0.00 38.80 2.90
5246 6155 2.665649 AATCGTCCACGTATCAGCAA 57.334 45.000 0.00 0.00 40.80 3.91
5552 6464 1.214325 CACATAGGTGGACGCACGA 59.786 57.895 0.00 0.00 41.45 4.35
5605 6520 3.828451 ACACATGAATAGCAGCAAGGTTT 59.172 39.130 0.00 0.00 0.00 3.27
5671 6586 3.308188 GGGTAGAAGCATAAACACAGGGT 60.308 47.826 0.00 0.00 0.00 4.34
5674 6589 5.106157 CCAAAGGGTAGAAGCATAAACACAG 60.106 44.000 0.00 0.00 0.00 3.66
5691 6606 2.762327 CCACATTCAATCTCCCAAAGGG 59.238 50.000 0.00 0.00 46.11 3.95
5832 6747 0.037303 ACAAGCATGACACCCAGGAG 59.963 55.000 0.00 0.00 0.00 3.69
5835 6750 4.582701 TTAAAACAAGCATGACACCCAG 57.417 40.909 0.00 0.00 0.00 4.45
5861 6776 7.470192 ACAGGGATTCAAATAATATCCGGAAT 58.530 34.615 9.01 0.00 38.97 3.01
5927 6842 1.203001 GGATGTGGAACCCAAGTTGGA 60.203 52.381 24.06 1.15 37.58 3.53
5970 6885 0.169009 GGAAAGTCATGCAAGCCGAC 59.831 55.000 0.00 0.00 0.00 4.79
6046 6961 2.522185 ACAAGGCTGCTTGAACATCAT 58.478 42.857 15.41 0.00 37.72 2.45
6048 6963 2.294233 TGAACAAGGCTGCTTGAACATC 59.706 45.455 15.41 9.74 37.72 3.06
6085 7000 3.795688 TCTGCCTTGACTCTCCAATTT 57.204 42.857 0.00 0.00 0.00 1.82
6088 7003 3.480470 CTTTTCTGCCTTGACTCTCCAA 58.520 45.455 0.00 0.00 0.00 3.53
6089 7004 2.224621 CCTTTTCTGCCTTGACTCTCCA 60.225 50.000 0.00 0.00 0.00 3.86
6090 7005 2.431454 CCTTTTCTGCCTTGACTCTCC 58.569 52.381 0.00 0.00 0.00 3.71
6091 7006 1.809547 GCCTTTTCTGCCTTGACTCTC 59.190 52.381 0.00 0.00 0.00 3.20
6092 7007 1.143684 TGCCTTTTCTGCCTTGACTCT 59.856 47.619 0.00 0.00 0.00 3.24
6093 7008 1.609208 TGCCTTTTCTGCCTTGACTC 58.391 50.000 0.00 0.00 0.00 3.36
6094 7009 1.959282 CTTGCCTTTTCTGCCTTGACT 59.041 47.619 0.00 0.00 0.00 3.41
6098 7017 1.345063 ATGCTTGCCTTTTCTGCCTT 58.655 45.000 0.00 0.00 0.00 4.35
6110 7029 3.190874 GTCACTAGACCACTATGCTTGC 58.809 50.000 0.00 0.00 38.89 4.01


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

AutoCloner maintained by Alex Coulton.