Multiple sequence alignment - TraesCS1D01G344200

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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 TraesCS1D01G344200 chr1D 100.000 3577 0 0 1 3577 432810273 432806697 0.000000e+00 6606.0
1 TraesCS1D01G344200 chr1B 90.282 1101 45 31 1501 2591 584325639 584324591 0.000000e+00 1384.0
2 TraesCS1D01G344200 chr1B 90.939 607 36 13 901 1503 584326276 584325685 0.000000e+00 798.0
3 TraesCS1D01G344200 chr1B 83.065 620 34 30 1 572 584327203 584326607 6.900000e-137 497.0
4 TraesCS1D01G344200 chr1B 87.850 214 19 5 3154 3362 584321304 584321093 9.920000e-61 244.0
5 TraesCS1D01G344200 chr1B 87.310 197 12 4 3387 3571 584320585 584320390 2.800000e-51 213.0
6 TraesCS1D01G344200 chr1B 82.969 229 16 11 2918 3135 584323861 584323645 6.100000e-43 185.0
7 TraesCS1D01G344200 chr1B 86.111 180 14 8 2724 2896 584324385 584324210 2.190000e-42 183.0
8 TraesCS1D01G344200 chr1B 83.824 68 7 4 637 702 584326532 584326467 1.070000e-05 62.1
9 TraesCS1D01G344200 chr1A 90.319 971 29 20 1672 2591 531282270 531281314 0.000000e+00 1212.0
10 TraesCS1D01G344200 chr1A 84.456 1113 84 48 444 1503 531283600 531282524 0.000000e+00 1014.0
11 TraesCS1D01G344200 chr1A 82.063 630 50 32 2986 3571 531280910 531280300 2.500000e-131 479.0
12 TraesCS1D01G344200 chr1A 91.477 176 11 3 1501 1672 531282474 531282299 4.620000e-59 239.0
13 TraesCS1D01G344200 chr1A 88.333 180 11 3 1 170 531284040 531283861 1.300000e-49 207.0
14 TraesCS1D01G344200 chr1A 92.157 51 0 1 252 302 531283796 531283750 6.410000e-08 69.4
15 TraesCS1D01G344200 chr3B 82.967 182 27 3 1711 1890 498326275 498326096 1.030000e-35 161.0
16 TraesCS1D01G344200 chr3B 86.364 132 16 2 1710 1840 104971043 104971173 3.720000e-30 143.0
17 TraesCS1D01G344200 chr3D 86.822 129 17 0 1711 1839 382630515 382630387 1.040000e-30 145.0
18 TraesCS1D01G344200 chr2B 81.868 182 24 4 1124 1302 433989201 433989026 1.040000e-30 145.0
19 TraesCS1D01G344200 chr3A 86.364 132 16 2 1710 1840 73513082 73513212 3.720000e-30 143.0
20 TraesCS1D01G344200 chr4B 81.215 181 25 4 1125 1302 305402000 305402174 1.730000e-28 137.0
21 TraesCS1D01G344200 chr7B 80.874 183 26 4 1123 1302 311363632 311363808 6.230000e-28 135.0


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 TraesCS1D01G344200 chr1D 432806697 432810273 3576 True 6606.000000 6606 100.000000 1 3577 1 chr1D.!!$R1 3576
1 TraesCS1D01G344200 chr1B 584320390 584327203 6813 True 445.762500 1384 86.543750 1 3571 8 chr1B.!!$R1 3570
2 TraesCS1D01G344200 chr1A 531280300 531284040 3740 True 536.733333 1212 88.134167 1 3571 6 chr1A.!!$R1 3570

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
373 438 0.111061 TTCACATCCCTGTTGCTGCT 59.889 50.0 0.00 0.0 31.62 4.24 F
376 441 0.178981 ACATCCCTGTTGCTGCTTGT 60.179 50.0 0.00 0.0 28.70 3.16 F
377 442 0.242825 CATCCCTGTTGCTGCTTGTG 59.757 55.0 0.00 0.0 0.00 3.33 F
981 1166 0.389426 TTCTTCGCGCAGGTAGGAAC 60.389 55.0 8.75 0.0 0.00 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1897 2184 0.108138 ACGGCGAGAAGGAATTCTGG 60.108 55.000 16.62 0.0 0.0 3.86 R
1973 2283 0.234884 GCTCCTACGCAACAACACAC 59.765 55.000 0.00 0.0 0.0 3.82 R
1975 2285 1.491563 CGCTCCTACGCAACAACAC 59.508 57.895 0.00 0.0 0.0 3.32 R
2694 3061 0.108377 TACAACGGCAGCACATCGAT 60.108 50.000 0.00 0.0 0.0 3.59 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 0.396695 ATCTCGTCCCGTGTACCCAT 60.397 55.000 0.00 0.00 0.00 4.00
27 28 2.012902 CTCGTCCCGTGTACCCATCC 62.013 65.000 0.00 0.00 0.00 3.51
28 29 2.905681 GTCCCGTGTACCCATCCC 59.094 66.667 0.00 0.00 0.00 3.85
29 30 1.991167 GTCCCGTGTACCCATCCCA 60.991 63.158 0.00 0.00 0.00 4.37
30 31 1.003704 TCCCGTGTACCCATCCCAT 59.996 57.895 0.00 0.00 0.00 4.00
31 32 1.052124 TCCCGTGTACCCATCCCATC 61.052 60.000 0.00 0.00 0.00 3.51
32 33 1.450211 CCGTGTACCCATCCCATCC 59.550 63.158 0.00 0.00 0.00 3.51
33 34 1.450211 CGTGTACCCATCCCATCCC 59.550 63.158 0.00 0.00 0.00 3.85
34 35 1.341913 CGTGTACCCATCCCATCCCA 61.342 60.000 0.00 0.00 0.00 4.37
35 36 1.149101 GTGTACCCATCCCATCCCAT 58.851 55.000 0.00 0.00 0.00 4.00
210 260 1.202428 GGGCGAGGTGAGATACAAGTC 60.202 57.143 0.00 0.00 0.00 3.01
219 269 4.025396 GGTGAGATACAAGTCATGATTGCG 60.025 45.833 0.00 0.00 0.00 4.85
224 274 1.608109 ACAAGTCATGATTGCGTTGCA 59.392 42.857 0.00 0.00 36.47 4.08
232 282 2.203337 TTGCGTTGCAAGCTCCCT 60.203 55.556 17.72 0.00 43.99 4.20
233 283 2.260869 TTGCGTTGCAAGCTCCCTC 61.261 57.895 17.72 0.00 43.99 4.30
234 284 3.435186 GCGTTGCAAGCTCCCTCC 61.435 66.667 0.00 0.00 0.00 4.30
235 285 2.348998 CGTTGCAAGCTCCCTCCT 59.651 61.111 0.00 0.00 0.00 3.69
236 286 2.037136 CGTTGCAAGCTCCCTCCTG 61.037 63.158 0.00 0.00 0.00 3.86
237 287 1.676967 GTTGCAAGCTCCCTCCTGG 60.677 63.158 0.00 0.00 0.00 4.45
238 288 2.156098 TTGCAAGCTCCCTCCTGGT 61.156 57.895 0.00 0.00 34.77 4.00
239 289 1.719063 TTGCAAGCTCCCTCCTGGTT 61.719 55.000 0.00 0.00 34.77 3.67
240 290 1.075659 GCAAGCTCCCTCCTGGTTT 59.924 57.895 0.00 0.00 34.77 3.27
241 291 0.540597 GCAAGCTCCCTCCTGGTTTT 60.541 55.000 0.00 0.00 34.77 2.43
242 292 2.001076 CAAGCTCCCTCCTGGTTTTT 57.999 50.000 0.00 0.00 34.77 1.94
243 293 1.889170 CAAGCTCCCTCCTGGTTTTTC 59.111 52.381 0.00 0.00 34.77 2.29
272 322 2.593436 CCACCGCCGTTGGTTTCT 60.593 61.111 0.00 0.00 41.38 2.52
273 323 2.190841 CCACCGCCGTTGGTTTCTT 61.191 57.895 0.00 0.00 41.38 2.52
274 324 1.281656 CACCGCCGTTGGTTTCTTC 59.718 57.895 0.00 0.00 41.38 2.87
275 325 1.147600 ACCGCCGTTGGTTTCTTCT 59.852 52.632 0.00 0.00 39.99 2.85
359 424 1.917872 CCGGGGGAATCTTTTTCACA 58.082 50.000 0.00 0.00 0.00 3.58
373 438 0.111061 TTCACATCCCTGTTGCTGCT 59.889 50.000 0.00 0.00 31.62 4.24
376 441 0.178981 ACATCCCTGTTGCTGCTTGT 60.179 50.000 0.00 0.00 28.70 3.16
377 442 0.242825 CATCCCTGTTGCTGCTTGTG 59.757 55.000 0.00 0.00 0.00 3.33
379 444 2.050714 CCTGTTGCTGCTTGTGCG 60.051 61.111 0.00 0.00 43.34 5.34
380 445 2.717485 CTGTTGCTGCTTGTGCGT 59.283 55.556 0.00 0.00 43.34 5.24
384 451 2.833533 TTGCTGCTTGTGCGTGGTC 61.834 57.895 0.00 0.00 43.34 4.02
390 457 1.523711 CTTGTGCGTGGTCACAGGT 60.524 57.895 1.90 0.00 46.28 4.00
422 489 3.764049 GTGAGAACACGCGTCCGC 61.764 66.667 9.86 4.03 37.28 5.54
473 560 2.511145 CTCCTTCTCTGCCGCTGC 60.511 66.667 0.00 0.00 38.26 5.25
493 587 3.181512 TGCTTTTTACGGTTCGTTCGTTT 60.182 39.130 0.00 0.00 41.54 3.60
563 667 1.838073 TTCCTCTTCCGGGCTTCACC 61.838 60.000 0.00 0.00 37.93 4.02
569 673 1.262640 TTCCGGGCTTCACCTAGGTC 61.263 60.000 12.84 0.00 39.10 3.85
574 704 0.460459 GGCTTCACCTAGGTCGCTTC 60.460 60.000 12.84 0.19 34.51 3.86
594 724 1.386533 CACTGATCCAACTGCCATCC 58.613 55.000 0.00 0.00 0.00 3.51
600 730 2.751436 CAACTGCCATCCCCCACG 60.751 66.667 0.00 0.00 0.00 4.94
601 731 3.256960 AACTGCCATCCCCCACGT 61.257 61.111 0.00 0.00 0.00 4.49
620 750 3.953775 CCACCCACCAACTCCGCT 61.954 66.667 0.00 0.00 0.00 5.52
624 754 2.662596 CCACCAACTCCGCTGCTA 59.337 61.111 0.00 0.00 0.00 3.49
625 755 1.448540 CCACCAACTCCGCTGCTAG 60.449 63.158 0.00 0.00 0.00 3.42
627 757 2.512515 CCAACTCCGCTGCTAGCC 60.513 66.667 13.29 0.00 38.18 3.93
629 759 4.148825 AACTCCGCTGCTAGCCCG 62.149 66.667 13.29 14.63 38.18 6.13
685 815 1.374758 CTCTTTTCTGCTCGGCCGT 60.375 57.895 27.15 0.00 0.00 5.68
686 816 1.630244 CTCTTTTCTGCTCGGCCGTG 61.630 60.000 27.15 24.66 0.00 4.94
690 820 4.717629 TCTGCTCGGCCGTGTTCG 62.718 66.667 27.15 14.64 0.00 3.95
700 830 4.675404 CGTGTTCGGCTTCCTCTT 57.325 55.556 0.00 0.00 0.00 2.85
749 916 2.087009 CCCGACGAGAAAGCGACAC 61.087 63.158 0.00 0.00 34.83 3.67
767 934 4.277423 CGACACAAACTTATCTTTTGGGGT 59.723 41.667 2.40 0.00 40.98 4.95
823 993 2.567985 TCTCCCGTTTCAGTTTCAACC 58.432 47.619 0.00 0.00 0.00 3.77
843 1013 4.222847 CTCCCGTAGCTTCCGGCC 62.223 72.222 16.70 0.00 44.13 6.13
863 1033 1.260561 CTCTTGTTTACGCACGCTGTT 59.739 47.619 0.00 0.00 0.00 3.16
868 1038 2.034076 GTTTACGCACGCTGTTTCAAG 58.966 47.619 0.00 0.00 0.00 3.02
869 1039 1.292061 TTACGCACGCTGTTTCAAGT 58.708 45.000 0.00 0.00 0.00 3.16
870 1040 1.292061 TACGCACGCTGTTTCAAGTT 58.708 45.000 0.00 0.00 0.00 2.66
871 1041 0.450184 ACGCACGCTGTTTCAAGTTT 59.550 45.000 0.00 0.00 0.00 2.66
872 1042 1.112459 CGCACGCTGTTTCAAGTTTC 58.888 50.000 0.00 0.00 0.00 2.78
873 1043 1.112459 GCACGCTGTTTCAAGTTTCG 58.888 50.000 0.00 0.00 0.00 3.46
874 1044 1.267832 GCACGCTGTTTCAAGTTTCGA 60.268 47.619 0.00 0.00 0.00 3.71
912 1091 1.649664 CCATCTCCTCTGTTCTTGCG 58.350 55.000 0.00 0.00 0.00 4.85
916 1095 1.151668 CTCCTCTGTTCTTGCGGTTG 58.848 55.000 0.00 0.00 0.00 3.77
961 1146 2.799540 GCCGAATCTTGACGCGTCC 61.800 63.158 34.34 17.72 0.00 4.79
981 1166 0.389426 TTCTTCGCGCAGGTAGGAAC 60.389 55.000 8.75 0.00 0.00 3.62
1071 1256 1.000771 GAAGGAAGGGGCCAAGGAC 60.001 63.158 4.39 0.00 0.00 3.85
1254 1445 2.892425 GAGGCCGCCGTCTTGATG 60.892 66.667 3.05 0.00 0.00 3.07
1272 1463 1.743252 GCAGAAGGCGTTCAGAGGG 60.743 63.158 20.38 6.25 34.82 4.30
1306 1499 1.144565 CTGTCCATGCTTCTCTCGCG 61.145 60.000 0.00 0.00 0.00 5.87
1311 1504 0.459237 CATGCTTCTCTCGCGGTTCT 60.459 55.000 6.13 0.00 0.00 3.01
1322 1515 3.006110 TCTCGCGGTTCTTCTTTTCCTTA 59.994 43.478 6.13 0.00 0.00 2.69
1323 1516 3.323243 TCGCGGTTCTTCTTTTCCTTAG 58.677 45.455 6.13 0.00 0.00 2.18
1342 1537 5.636965 CCTTAGTCTCTCACACAAACATCAG 59.363 44.000 0.00 0.00 0.00 2.90
1354 1549 5.750067 ACACAAACATCAGACTGAATTTTGC 59.250 36.000 26.82 0.00 36.46 3.68
1364 1559 4.275689 AGACTGAATTTTGCGATGAACACA 59.724 37.500 0.00 0.00 0.00 3.72
1365 1560 4.290155 ACTGAATTTTGCGATGAACACAC 58.710 39.130 0.00 0.00 0.00 3.82
1391 1586 3.443681 CGTTTGAAGATTTACCAGGCCAT 59.556 43.478 5.01 0.00 0.00 4.40
1440 1635 8.867935 CATCTCTTGACAGATTAACAGTTGTAG 58.132 37.037 0.00 0.00 30.07 2.74
1445 1640 4.817517 ACAGATTAACAGTTGTAGACCGG 58.182 43.478 0.00 0.00 0.00 5.28
1446 1641 3.617263 CAGATTAACAGTTGTAGACCGGC 59.383 47.826 0.00 0.00 0.00 6.13
1456 1651 0.535102 GTAGACCGGCATGGAATGGG 60.535 60.000 0.00 0.00 46.86 4.00
1476 1671 4.141482 TGGGTAGATGAATAGGTGAAAGGC 60.141 45.833 0.00 0.00 0.00 4.35
1586 1836 7.616103 TTGTTTATGTTTATTCGCACAGTTG 57.384 32.000 0.00 0.00 0.00 3.16
1630 1880 0.458370 CGGTGCAGTCGTCATCATCA 60.458 55.000 0.00 0.00 0.00 3.07
1665 1915 9.515226 AAACCTATCAAGCACTAAAGAAATGTA 57.485 29.630 0.00 0.00 0.00 2.29
1891 2178 2.300967 GGTCCATCCAGCAGGTCCA 61.301 63.158 0.00 0.00 35.89 4.02
1892 2179 1.222936 GTCCATCCAGCAGGTCCAG 59.777 63.158 0.00 0.00 35.89 3.86
1893 2180 1.229625 TCCATCCAGCAGGTCCAGT 60.230 57.895 0.00 0.00 35.89 4.00
1894 2181 1.222936 CCATCCAGCAGGTCCAGTC 59.777 63.158 0.00 0.00 35.89 3.51
1895 2182 1.222936 CATCCAGCAGGTCCAGTCC 59.777 63.158 0.00 0.00 35.89 3.85
1896 2183 2.362369 ATCCAGCAGGTCCAGTCCG 61.362 63.158 0.00 0.00 35.89 4.79
1897 2184 4.767255 CCAGCAGGTCCAGTCCGC 62.767 72.222 0.00 0.00 0.00 5.54
1970 2280 3.017265 AGCTGAAAATTTGACGCTTGG 57.983 42.857 0.00 0.00 0.00 3.61
1972 2282 3.123050 GCTGAAAATTTGACGCTTGGTT 58.877 40.909 0.00 0.00 0.00 3.67
1973 2283 3.060339 GCTGAAAATTTGACGCTTGGTTG 60.060 43.478 0.00 0.00 0.00 3.77
1975 2285 3.862267 TGAAAATTTGACGCTTGGTTGTG 59.138 39.130 0.00 0.00 0.00 3.33
2480 2820 3.559024 CAGTCGCAGGACAGCTTG 58.441 61.111 0.00 0.00 45.92 4.01
2591 2931 4.585526 TGATGATCGTCCGGCGCC 62.586 66.667 19.07 19.07 41.07 6.53
2592 2932 4.585526 GATGATCGTCCGGCGCCA 62.586 66.667 28.98 6.55 41.07 5.69
2594 2934 3.460672 ATGATCGTCCGGCGCCATT 62.461 57.895 28.98 3.07 41.07 3.16
2595 2935 3.640000 GATCGTCCGGCGCCATTG 61.640 66.667 28.98 14.52 41.07 2.82
2598 2938 2.971428 ATCGTCCGGCGCCATTGTAG 62.971 60.000 28.98 12.17 41.07 2.74
2601 2941 3.261951 CCGGCGCCATTGTAGTCG 61.262 66.667 28.98 8.70 0.00 4.18
2626 2993 7.434897 CGCTCGGTATATAGTTAGTAGGAGTAG 59.565 44.444 0.00 0.00 0.00 2.57
2627 2994 8.257306 GCTCGGTATATAGTTAGTAGGAGTAGT 58.743 40.741 0.00 0.00 0.00 2.73
2680 3047 6.888088 TAGTAGTAGTTCTAGTTCATGGCACA 59.112 38.462 0.00 0.00 36.78 4.57
2694 3061 3.929955 TGGCACAAGATATCATCACCA 57.070 42.857 5.32 3.16 31.92 4.17
2697 3064 3.434641 GGCACAAGATATCATCACCATCG 59.565 47.826 5.32 0.00 0.00 3.84
2698 3065 4.309933 GCACAAGATATCATCACCATCGA 58.690 43.478 5.32 0.00 0.00 3.59
2699 3066 4.934001 GCACAAGATATCATCACCATCGAT 59.066 41.667 5.32 0.00 0.00 3.59
2702 3069 5.930569 ACAAGATATCATCACCATCGATGTG 59.069 40.000 23.27 19.61 42.82 3.21
2703 3070 4.502016 AGATATCATCACCATCGATGTGC 58.498 43.478 23.27 7.68 42.82 4.57
2708 3108 2.512286 ACCATCGATGTGCTGCCG 60.512 61.111 23.27 9.09 0.00 5.69
2716 3116 0.721718 GATGTGCTGCCGTTGTAGTC 59.278 55.000 0.00 0.00 0.00 2.59
2732 3151 3.531207 TCGCTCGGATGCCAGAGG 61.531 66.667 0.00 0.00 35.19 3.69
2736 3155 1.144936 CTCGGATGCCAGAGGGAAC 59.855 63.158 0.00 0.00 35.59 3.62
2804 3225 2.724273 GCCGCCAAAGCCCATGAAT 61.724 57.895 0.00 0.00 34.57 2.57
2810 3231 0.457035 CAAAGCCCATGAATCCCACG 59.543 55.000 0.00 0.00 0.00 4.94
2812 3233 3.585990 GCCCATGAATCCCACGCG 61.586 66.667 3.53 3.53 0.00 6.01
2824 3251 4.127040 CACGCGCCTCTGCTCTCT 62.127 66.667 5.73 0.00 34.43 3.10
2833 3260 1.750778 CCTCTGCTCTCTTCTGTCCTC 59.249 57.143 0.00 0.00 0.00 3.71
2835 3262 1.357420 TCTGCTCTCTTCTGTCCTCCT 59.643 52.381 0.00 0.00 0.00 3.69
2838 3265 0.823460 CTCTCTTCTGTCCTCCTGCC 59.177 60.000 0.00 0.00 0.00 4.85
2841 3268 0.906756 TCTTCTGTCCTCCTGCCAGG 60.907 60.000 3.69 3.69 36.46 4.45
2843 3270 0.252881 TTCTGTCCTCCTGCCAGGAT 60.253 55.000 15.20 0.00 44.81 3.24
2850 3277 1.688772 CTCCTGCCAGGATTCAATGG 58.311 55.000 15.20 0.00 44.81 3.16
2936 3690 1.817099 GCATGGAAGCTGGGACGAG 60.817 63.158 0.00 0.00 0.00 4.18
2939 3693 2.683933 GGAAGCTGGGACGAGGGA 60.684 66.667 0.00 0.00 0.00 4.20
2946 3700 1.002773 GCTGGGACGAGGGAAGTTAAA 59.997 52.381 0.00 0.00 0.00 1.52
2948 3702 2.565834 CTGGGACGAGGGAAGTTAAAGA 59.434 50.000 0.00 0.00 0.00 2.52
2955 3709 5.731591 ACGAGGGAAGTTAAAGAATACTGG 58.268 41.667 0.00 0.00 0.00 4.00
2957 3711 6.043411 CGAGGGAAGTTAAAGAATACTGGAG 58.957 44.000 0.00 0.00 0.00 3.86
2958 3712 6.351117 CGAGGGAAGTTAAAGAATACTGGAGT 60.351 42.308 0.00 0.00 0.00 3.85
2959 3713 7.147949 CGAGGGAAGTTAAAGAATACTGGAGTA 60.148 40.741 0.00 0.00 34.67 2.59
2960 3714 7.849160 AGGGAAGTTAAAGAATACTGGAGTAC 58.151 38.462 0.00 0.00 32.72 2.73
2961 3715 6.755607 GGGAAGTTAAAGAATACTGGAGTACG 59.244 42.308 0.00 0.00 32.72 3.67
2962 3716 7.318893 GGAAGTTAAAGAATACTGGAGTACGT 58.681 38.462 0.00 0.00 32.72 3.57
2963 3717 8.462016 GGAAGTTAAAGAATACTGGAGTACGTA 58.538 37.037 0.00 0.00 32.72 3.57
2964 3718 9.283420 GAAGTTAAAGAATACTGGAGTACGTAC 57.717 37.037 18.10 18.10 32.72 3.67
2965 3719 8.572855 AGTTAAAGAATACTGGAGTACGTACT 57.427 34.615 27.71 27.71 39.71 2.73
2966 3720 9.672673 AGTTAAAGAATACTGGAGTACGTACTA 57.327 33.333 27.44 12.67 36.50 1.82
2967 3721 9.928236 GTTAAAGAATACTGGAGTACGTACTAG 57.072 37.037 27.44 22.91 36.50 2.57
2968 3722 7.565323 AAAGAATACTGGAGTACGTACTAGG 57.435 40.000 27.44 20.48 36.50 3.02
2969 3723 5.619220 AGAATACTGGAGTACGTACTAGGG 58.381 45.833 27.44 20.17 36.50 3.53
2970 3724 5.367937 AGAATACTGGAGTACGTACTAGGGA 59.632 44.000 27.44 16.82 36.50 4.20
3037 3797 3.387397 GTTGTTTGGAGTACGCACTACT 58.613 45.455 0.00 0.00 36.47 2.57
3049 3809 1.071605 GCACTACTGCACTGCACTAC 58.928 55.000 0.00 0.00 43.62 2.73
3092 3852 1.349234 CACCGCTTTGGCTTAAATGC 58.651 50.000 0.00 0.00 43.94 3.56
3224 6317 2.920869 CGCAATTCCGGACGATCG 59.079 61.111 14.88 14.88 0.00 3.69
3228 6321 0.527600 CAATTCCGGACGATCGAGCA 60.528 55.000 24.34 0.00 0.00 4.26
3295 6397 0.179059 CATACATACGGTGCAGGGCA 60.179 55.000 0.00 0.00 35.60 5.36
3296 6398 0.106708 ATACATACGGTGCAGGGCAG 59.893 55.000 0.00 0.00 40.08 4.85
3347 6449 1.283736 GGGGAATACGTGCGTACAAG 58.716 55.000 6.59 0.00 33.01 3.16
3352 6454 2.579207 ATACGTGCGTACAAGAGCAT 57.421 45.000 6.59 0.00 45.69 3.79
3362 6465 3.003275 CGTACAAGAGCATTGTTTGGTGT 59.997 43.478 11.92 0.00 35.82 4.16
3363 6466 3.441496 ACAAGAGCATTGTTTGGTGTG 57.559 42.857 1.76 0.00 35.82 3.82
3364 6467 2.101249 ACAAGAGCATTGTTTGGTGTGG 59.899 45.455 1.76 0.00 35.82 4.17
3369 6472 2.037511 AGCATTGTTTGGTGTGGATTGG 59.962 45.455 0.00 0.00 33.95 3.16
3376 6479 1.380302 GGTGTGGATTGGAGGCAGT 59.620 57.895 0.00 0.00 0.00 4.40
3379 6482 2.357154 GGTGTGGATTGGAGGCAGTAAT 60.357 50.000 0.00 0.00 0.00 1.89
3381 6484 4.446311 GGTGTGGATTGGAGGCAGTAATAT 60.446 45.833 0.00 0.00 0.00 1.28
3382 6485 5.221843 GGTGTGGATTGGAGGCAGTAATATA 60.222 44.000 0.00 0.00 0.00 0.86
3385 6971 5.882557 GTGGATTGGAGGCAGTAATATATGG 59.117 44.000 0.00 0.00 0.00 2.74
3418 7004 0.949105 GATCTGTTGGTCCGTTGCGT 60.949 55.000 0.00 0.00 0.00 5.24
3425 7011 3.632107 GTCCGTTGCGTTGCGTGA 61.632 61.111 0.00 0.00 0.00 4.35
3427 7013 2.425124 CCGTTGCGTTGCGTGAAG 60.425 61.111 0.00 0.00 0.00 3.02
3428 7014 2.623718 CGTTGCGTTGCGTGAAGA 59.376 55.556 0.00 0.00 0.00 2.87
3429 7015 1.437089 CGTTGCGTTGCGTGAAGAG 60.437 57.895 0.00 0.00 0.00 2.85
3448 7043 6.316640 TGAAGAGTCTAGAGGTTCAGATTACG 59.683 42.308 0.00 0.00 0.00 3.18
3475 7070 1.141591 ATTACGCGCGAGGTAAACCG 61.142 55.000 39.36 11.20 42.08 4.44
3508 7103 2.361104 GAACCCGCATTCCCAGCA 60.361 61.111 0.00 0.00 0.00 4.41
3542 7147 4.217550 AGCTTTACCTGCTGCGAAATTTTA 59.782 37.500 0.00 0.00 39.56 1.52
3543 7148 4.323602 GCTTTACCTGCTGCGAAATTTTAC 59.676 41.667 0.00 0.00 0.00 2.01
3544 7149 4.428615 TTACCTGCTGCGAAATTTTACC 57.571 40.909 0.00 0.00 0.00 2.85
3545 7150 2.514803 ACCTGCTGCGAAATTTTACCT 58.485 42.857 0.00 0.00 0.00 3.08
3546 7151 2.228822 ACCTGCTGCGAAATTTTACCTG 59.771 45.455 0.00 0.00 0.00 4.00
3547 7152 2.228822 CCTGCTGCGAAATTTTACCTGT 59.771 45.455 0.00 0.00 0.00 4.00
3549 7154 2.095969 TGCTGCGAAATTTTACCTGTCG 60.096 45.455 0.00 0.00 34.89 4.35
3561 7172 1.446099 CCTGTCGTGTCACCGGATG 60.446 63.158 9.46 2.48 0.00 3.51
3571 7182 2.123251 ACCGGATGCGGATCTCCT 60.123 61.111 33.63 5.35 0.00 3.69
3572 7183 2.341543 CCGGATGCGGATCTCCTG 59.658 66.667 22.73 4.69 0.00 3.86
3573 7184 2.356793 CGGATGCGGATCTCCTGC 60.357 66.667 16.91 0.00 36.54 4.85
3574 7185 2.031768 GGATGCGGATCTCCTGCC 59.968 66.667 16.91 0.00 35.64 4.85
3575 7186 2.515071 GGATGCGGATCTCCTGCCT 61.515 63.158 16.91 2.05 35.64 4.75
3576 7187 1.005156 GATGCGGATCTCCTGCCTC 60.005 63.158 9.99 6.60 35.64 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 2.391745 AGATGGGATAGATGGGATGGGA 59.608 50.000 0.00 0.00 0.00 4.37
27 28 4.365368 TGTAGATGGGATAGATGGGATGG 58.635 47.826 0.00 0.00 0.00 3.51
28 29 5.628666 GCTTGTAGATGGGATAGATGGGATG 60.629 48.000 0.00 0.00 0.00 3.51
29 30 4.472833 GCTTGTAGATGGGATAGATGGGAT 59.527 45.833 0.00 0.00 0.00 3.85
30 31 3.840666 GCTTGTAGATGGGATAGATGGGA 59.159 47.826 0.00 0.00 0.00 4.37
31 32 3.054802 GGCTTGTAGATGGGATAGATGGG 60.055 52.174 0.00 0.00 0.00 4.00
32 33 3.054802 GGGCTTGTAGATGGGATAGATGG 60.055 52.174 0.00 0.00 0.00 3.51
33 34 3.054802 GGGGCTTGTAGATGGGATAGATG 60.055 52.174 0.00 0.00 0.00 2.90
34 35 3.185455 GGGGCTTGTAGATGGGATAGAT 58.815 50.000 0.00 0.00 0.00 1.98
35 36 2.621070 GGGGCTTGTAGATGGGATAGA 58.379 52.381 0.00 0.00 0.00 1.98
219 269 1.676967 CCAGGAGGGAGCTTGCAAC 60.677 63.158 0.00 0.00 40.01 4.17
224 274 1.783365 AGAAAAACCAGGAGGGAGCTT 59.217 47.619 0.00 0.00 41.15 3.74
230 280 5.010112 GGAAGAAGAAAGAAAAACCAGGAGG 59.990 44.000 0.00 0.00 42.21 4.30
231 281 5.010112 GGGAAGAAGAAAGAAAAACCAGGAG 59.990 44.000 0.00 0.00 0.00 3.69
232 282 4.893524 GGGAAGAAGAAAGAAAAACCAGGA 59.106 41.667 0.00 0.00 0.00 3.86
233 283 4.039245 GGGGAAGAAGAAAGAAAAACCAGG 59.961 45.833 0.00 0.00 0.00 4.45
234 284 4.649218 TGGGGAAGAAGAAAGAAAAACCAG 59.351 41.667 0.00 0.00 0.00 4.00
235 285 4.404394 GTGGGGAAGAAGAAAGAAAAACCA 59.596 41.667 0.00 0.00 0.00 3.67
236 286 4.202223 GGTGGGGAAGAAGAAAGAAAAACC 60.202 45.833 0.00 0.00 0.00 3.27
237 287 4.499188 CGGTGGGGAAGAAGAAAGAAAAAC 60.499 45.833 0.00 0.00 0.00 2.43
238 288 3.634910 CGGTGGGGAAGAAGAAAGAAAAA 59.365 43.478 0.00 0.00 0.00 1.94
239 289 3.219281 CGGTGGGGAAGAAGAAAGAAAA 58.781 45.455 0.00 0.00 0.00 2.29
240 290 2.858745 CGGTGGGGAAGAAGAAAGAAA 58.141 47.619 0.00 0.00 0.00 2.52
241 291 1.544759 GCGGTGGGGAAGAAGAAAGAA 60.545 52.381 0.00 0.00 0.00 2.52
242 292 0.036306 GCGGTGGGGAAGAAGAAAGA 59.964 55.000 0.00 0.00 0.00 2.52
243 293 0.960861 GGCGGTGGGGAAGAAGAAAG 60.961 60.000 0.00 0.00 0.00 2.62
272 322 2.129823 AAACGAGACGCGAGAAAGAA 57.870 45.000 15.93 0.00 44.57 2.52
273 323 1.784856 CAAAACGAGACGCGAGAAAGA 59.215 47.619 15.93 0.00 44.57 2.52
274 324 1.718672 GCAAAACGAGACGCGAGAAAG 60.719 52.381 15.93 2.08 44.57 2.62
275 325 0.231279 GCAAAACGAGACGCGAGAAA 59.769 50.000 15.93 0.00 44.57 2.52
359 424 1.530013 GCACAAGCAGCAACAGGGAT 61.530 55.000 0.00 0.00 41.58 3.85
376 441 2.108157 GTGACCTGTGACCACGCA 59.892 61.111 0.00 0.00 35.17 5.24
377 442 1.956170 CTGTGACCTGTGACCACGC 60.956 63.158 0.00 0.00 33.78 5.34
379 444 1.598130 GCCTGTGACCTGTGACCAC 60.598 63.158 0.00 0.00 0.00 4.16
380 445 2.828868 GCCTGTGACCTGTGACCA 59.171 61.111 0.00 0.00 0.00 4.02
384 451 2.047844 CCTCGCCTGTGACCTGTG 60.048 66.667 0.00 0.00 0.00 3.66
390 457 4.056125 CACTCGCCTCGCCTGTGA 62.056 66.667 0.00 0.00 0.00 3.58
422 489 1.348775 GGGAAGGTGGGAGATGGGAG 61.349 65.000 0.00 0.00 0.00 4.30
427 494 0.624795 GAAGGGGGAAGGTGGGAGAT 60.625 60.000 0.00 0.00 0.00 2.75
473 560 3.720328 CCAAACGAACGAACCGTAAAAAG 59.280 43.478 0.14 0.00 39.99 2.27
563 667 1.067821 GGATCAGTGGAAGCGACCTAG 59.932 57.143 0.00 0.00 0.00 3.02
569 673 1.081892 CAGTTGGATCAGTGGAAGCG 58.918 55.000 0.00 0.00 0.00 4.68
574 704 1.386533 GATGGCAGTTGGATCAGTGG 58.613 55.000 0.00 0.00 0.00 4.00
600 730 2.434774 GGAGTTGGTGGGTGGGAC 59.565 66.667 0.00 0.00 0.00 4.46
601 731 3.246112 CGGAGTTGGTGGGTGGGA 61.246 66.667 0.00 0.00 0.00 4.37
611 741 2.512515 GGGCTAGCAGCGGAGTTG 60.513 66.667 18.24 0.00 43.62 3.16
685 815 0.608640 GAGGAAGAGGAAGCCGAACA 59.391 55.000 0.00 0.00 0.00 3.18
686 816 0.899019 AGAGGAAGAGGAAGCCGAAC 59.101 55.000 0.00 0.00 0.00 3.95
690 820 4.383661 CCTTTTAGAGAGGAAGAGGAAGCC 60.384 50.000 0.00 0.00 36.33 4.35
692 822 6.367374 AACCTTTTAGAGAGGAAGAGGAAG 57.633 41.667 0.00 0.00 37.72 3.46
693 823 6.559157 AGAAACCTTTTAGAGAGGAAGAGGAA 59.441 38.462 0.00 0.00 37.72 3.36
694 824 6.085416 AGAAACCTTTTAGAGAGGAAGAGGA 58.915 40.000 0.00 0.00 37.72 3.71
695 825 6.367374 AGAAACCTTTTAGAGAGGAAGAGG 57.633 41.667 0.00 0.00 37.72 3.69
697 827 6.361768 GGAGAAACCTTTTAGAGAGGAAGA 57.638 41.667 0.00 0.00 37.72 2.87
723 890 2.877335 CTTTCTCGTCGGGAGGTAAAG 58.123 52.381 0.00 0.00 43.34 1.85
749 916 5.069781 TGAACCACCCCAAAAGATAAGTTTG 59.930 40.000 0.00 0.00 36.03 2.93
767 934 2.694628 AGCAAAAGCATTGACTGAACCA 59.305 40.909 6.45 0.00 0.00 3.67
843 1013 0.859232 ACAGCGTGCGTAAACAAGAG 59.141 50.000 0.00 0.00 0.00 2.85
863 1033 0.034337 CGGGGGAGTCGAAACTTGAA 59.966 55.000 0.00 0.00 35.28 2.69
868 1038 2.434359 CTGCGGGGGAGTCGAAAC 60.434 66.667 0.00 0.00 0.00 2.78
869 1039 3.702048 CCTGCGGGGGAGTCGAAA 61.702 66.667 2.57 0.00 0.00 3.46
912 1091 2.684374 ACACAAAAAGGTACGACCAACC 59.316 45.455 6.78 0.80 41.95 3.77
916 1095 3.624410 AGAACACACAAAAAGGTACGACC 59.376 43.478 0.00 0.00 38.99 4.79
961 1146 0.108804 TTCCTACCTGCGCGAAGAAG 60.109 55.000 18.02 12.53 0.00 2.85
1093 1278 1.604604 CTCCATCTCCTCCTCTCGAC 58.395 60.000 0.00 0.00 0.00 4.20
1191 1376 3.071206 GGCCTCGCCTGAGACTGA 61.071 66.667 0.00 0.00 46.69 3.41
1254 1445 1.743252 CCCTCTGAACGCCTTCTGC 60.743 63.158 0.00 0.00 0.00 4.26
1263 1454 1.475682 CGTACCAGGTACCCTCTGAAC 59.524 57.143 22.14 0.00 35.81 3.18
1269 1460 1.000866 GGGTCGTACCAGGTACCCT 59.999 63.158 22.14 0.00 46.80 4.34
1272 1463 0.813821 GACAGGGTCGTACCAGGTAC 59.186 60.000 18.85 18.85 41.02 3.34
1306 1499 6.647481 GTGAGAGACTAAGGAAAAGAAGAACC 59.353 42.308 0.00 0.00 0.00 3.62
1311 1504 6.479972 TGTGTGAGAGACTAAGGAAAAGAA 57.520 37.500 0.00 0.00 0.00 2.52
1322 1515 4.343526 AGTCTGATGTTTGTGTGAGAGACT 59.656 41.667 0.00 0.00 35.27 3.24
1323 1516 4.447054 CAGTCTGATGTTTGTGTGAGAGAC 59.553 45.833 0.00 0.00 0.00 3.36
1342 1537 4.379793 GTGTGTTCATCGCAAAATTCAGTC 59.620 41.667 0.00 0.00 38.33 3.51
1354 1549 2.468409 TCAAACGTACGTGTGTTCATCG 59.532 45.455 31.87 10.47 35.03 3.84
1364 1559 4.687483 CCTGGTAAATCTTCAAACGTACGT 59.313 41.667 16.72 16.72 0.00 3.57
1365 1560 4.435121 GCCTGGTAAATCTTCAAACGTACG 60.435 45.833 15.01 15.01 0.00 3.67
1399 1594 8.680001 TGTCAAGAGATGATACAAATGAAATGG 58.320 33.333 0.00 0.00 40.97 3.16
1440 1635 0.535102 CTACCCATTCCATGCCGGTC 60.535 60.000 1.90 0.00 35.57 4.79
1445 1640 4.946157 CCTATTCATCTACCCATTCCATGC 59.054 45.833 0.00 0.00 0.00 4.06
1446 1641 5.942236 CACCTATTCATCTACCCATTCCATG 59.058 44.000 0.00 0.00 0.00 3.66
1456 1651 8.725148 CAATATGCCTTTCACCTATTCATCTAC 58.275 37.037 0.00 0.00 0.00 2.59
1476 1671 6.594547 CAGATGCAGAGGAATCTACCAATATG 59.405 42.308 0.00 0.00 37.30 1.78
1529 1776 2.355132 CAGCAGGAGCAGCAGATTAAAG 59.645 50.000 0.00 0.00 45.49 1.85
1586 1836 3.506312 CTTGTGTCACGGCGTGCAC 62.506 63.158 37.04 37.04 39.28 4.57
1593 1843 0.732880 CGACTAGGCTTGTGTCACGG 60.733 60.000 6.27 0.00 0.00 4.94
1630 1880 9.953565 TTAGTGCTTGATAGGTTTAATAACTGT 57.046 29.630 0.00 0.00 34.59 3.55
1677 1927 7.380065 GCGGTACAAATTTCAAATCTTTACACA 59.620 33.333 0.00 0.00 0.00 3.72
1881 2168 4.767255 GGCGGACTGGACCTGCTG 62.767 72.222 0.00 0.00 32.95 4.41
1891 2178 1.208293 GAGAAGGAATTCTGGCGGACT 59.792 52.381 5.23 0.00 0.00 3.85
1892 2179 1.657822 GAGAAGGAATTCTGGCGGAC 58.342 55.000 5.23 0.00 0.00 4.79
1893 2180 0.175760 CGAGAAGGAATTCTGGCGGA 59.824 55.000 5.23 0.00 0.00 5.54
1894 2181 1.432270 GCGAGAAGGAATTCTGGCGG 61.432 60.000 5.23 0.00 41.56 6.13
1895 2182 2.009888 GCGAGAAGGAATTCTGGCG 58.990 57.895 5.23 4.23 41.56 5.69
1897 2184 0.108138 ACGGCGAGAAGGAATTCTGG 60.108 55.000 16.62 0.00 0.00 3.86
1970 2280 1.666700 TCCTACGCAACAACACACAAC 59.333 47.619 0.00 0.00 0.00 3.32
1972 2282 1.577468 CTCCTACGCAACAACACACA 58.423 50.000 0.00 0.00 0.00 3.72
1973 2283 0.234884 GCTCCTACGCAACAACACAC 59.765 55.000 0.00 0.00 0.00 3.82
1975 2285 1.491563 CGCTCCTACGCAACAACAC 59.508 57.895 0.00 0.00 0.00 3.32
2410 2732 3.989787 CCAAGGCGGGGTTGTTGC 61.990 66.667 0.00 0.00 0.00 4.17
2465 2805 2.386660 GCTCAAGCTGTCCTGCGAC 61.387 63.158 0.00 0.00 39.66 5.19
2466 2806 2.047844 GCTCAAGCTGTCCTGCGA 60.048 61.111 0.00 0.00 38.21 5.10
2591 2931 6.179504 ACTATATACCGAGCGACTACAATG 57.820 41.667 0.00 0.00 0.00 2.82
2592 2932 6.814506 AACTATATACCGAGCGACTACAAT 57.185 37.500 0.00 0.00 0.00 2.71
2594 2934 6.459066 ACTAACTATATACCGAGCGACTACA 58.541 40.000 0.00 0.00 0.00 2.74
2595 2935 6.959671 ACTAACTATATACCGAGCGACTAC 57.040 41.667 0.00 0.00 0.00 2.73
2598 2938 6.102663 TCCTACTAACTATATACCGAGCGAC 58.897 44.000 0.00 0.00 0.00 5.19
2601 2941 8.257306 ACTACTCCTACTAACTATATACCGAGC 58.743 40.741 0.00 0.00 0.00 5.03
2654 3021 7.067129 TGTGCCATGAACTAGAACTACTACTAG 59.933 40.741 0.00 0.00 41.01 2.57
2672 3039 4.139038 TGGTGATGATATCTTGTGCCATG 58.861 43.478 3.98 0.00 0.00 3.66
2680 3047 4.934001 GCACATCGATGGTGATGATATCTT 59.066 41.667 28.09 0.37 46.98 2.40
2682 3049 4.502016 AGCACATCGATGGTGATGATATC 58.498 43.478 28.09 9.81 46.98 1.63
2692 3059 2.108514 AACGGCAGCACATCGATGG 61.109 57.895 28.09 17.84 0.00 3.51
2694 3061 0.108377 TACAACGGCAGCACATCGAT 60.108 50.000 0.00 0.00 0.00 3.59
2697 3064 0.721718 GACTACAACGGCAGCACATC 59.278 55.000 0.00 0.00 0.00 3.06
2698 3065 1.014044 CGACTACAACGGCAGCACAT 61.014 55.000 0.00 0.00 0.00 3.21
2699 3066 1.663388 CGACTACAACGGCAGCACA 60.663 57.895 0.00 0.00 0.00 4.57
2702 3069 2.432628 AGCGACTACAACGGCAGC 60.433 61.111 0.00 0.00 0.00 5.25
2703 3070 2.152699 CGAGCGACTACAACGGCAG 61.153 63.158 0.00 0.00 0.00 4.85
2708 3108 1.146358 GGCATCCGAGCGACTACAAC 61.146 60.000 0.00 0.00 34.64 3.32
2716 3116 4.598894 CCCTCTGGCATCCGAGCG 62.599 72.222 0.00 0.00 34.64 5.03
2753 3172 0.966179 AAATGGTTTCCCGGAAGCAC 59.034 50.000 15.17 5.05 39.53 4.40
2797 3218 3.585990 GGCGCGTGGGATTCATGG 61.586 66.667 8.43 0.00 33.10 3.66
2812 3233 0.175531 GGACAGAAGAGAGCAGAGGC 59.824 60.000 0.00 0.00 41.61 4.70
2833 3260 1.108776 CACCATTGAATCCTGGCAGG 58.891 55.000 28.01 28.01 35.88 4.85
2835 3262 2.832643 ATCACCATTGAATCCTGGCA 57.167 45.000 0.00 0.00 35.88 4.92
2838 3265 7.253422 GTTTCAGTAATCACCATTGAATCCTG 58.747 38.462 0.00 0.00 34.61 3.86
2841 3268 7.156876 TGGTTTCAGTAATCACCATTGAATC 57.843 36.000 0.00 0.00 34.23 2.52
2850 3277 5.975693 TCCCAAATGGTTTCAGTAATCAC 57.024 39.130 0.00 0.00 34.77 3.06
2914 3645 1.000521 TCCCAGCTTCCATGCCTTG 60.001 57.895 0.00 0.00 0.00 3.61
2936 3690 6.755607 CGTACTCCAGTATTCTTTAACTTCCC 59.244 42.308 0.00 0.00 32.54 3.97
2939 3693 9.018582 AGTACGTACTCCAGTATTCTTTAACTT 57.981 33.333 22.45 0.00 32.54 2.66
2946 3700 5.367937 TCCCTAGTACGTACTCCAGTATTCT 59.632 44.000 30.53 6.75 37.73 2.40
2948 3702 5.131809 ACTCCCTAGTACGTACTCCAGTATT 59.868 44.000 30.53 8.23 37.73 1.89
2962 3716 2.357881 CCACTGCCAGTACTCCCTAGTA 60.358 54.545 0.00 0.00 37.15 1.82
2963 3717 1.619977 CCACTGCCAGTACTCCCTAGT 60.620 57.143 0.00 0.00 39.91 2.57
2964 3718 1.115467 CCACTGCCAGTACTCCCTAG 58.885 60.000 0.00 0.00 0.00 3.02
2965 3719 0.976073 GCCACTGCCAGTACTCCCTA 60.976 60.000 0.00 0.00 0.00 3.53
2966 3720 2.294078 GCCACTGCCAGTACTCCCT 61.294 63.158 0.00 0.00 0.00 4.20
2967 3721 2.269241 GCCACTGCCAGTACTCCC 59.731 66.667 0.00 0.00 0.00 4.30
2968 3722 2.125512 CGCCACTGCCAGTACTCC 60.126 66.667 0.00 0.00 0.00 3.85
2969 3723 1.961180 ATCCGCCACTGCCAGTACTC 61.961 60.000 0.00 0.00 0.00 2.59
2970 3724 1.961180 GATCCGCCACTGCCAGTACT 61.961 60.000 0.00 0.00 0.00 2.73
3037 3797 1.869774 CAGTTCTGTAGTGCAGTGCA 58.130 50.000 15.37 15.37 45.23 4.57
3049 3809 2.667536 AGTGGCGCTGCAGTTCTG 60.668 61.111 16.64 4.34 0.00 3.02
3053 3813 2.667536 CTTCAGTGGCGCTGCAGT 60.668 61.111 22.87 0.00 44.66 4.40
3054 3814 4.099170 GCTTCAGTGGCGCTGCAG 62.099 66.667 22.87 21.89 44.66 4.41
3224 6317 2.151295 GGACGAAAAGGACGTGCTC 58.849 57.895 10.99 0.00 45.56 4.26
3228 6321 1.325355 TCTGAGGACGAAAAGGACGT 58.675 50.000 0.00 0.00 46.58 4.34
3304 6406 1.450312 GGGCAAGCTACGATGCTGT 60.450 57.895 7.97 0.00 43.24 4.40
3333 6435 2.579207 ATGCTCTTGTACGCACGTAT 57.421 45.000 6.15 0.00 39.21 3.06
3347 6449 3.319755 CAATCCACACCAAACAATGCTC 58.680 45.455 0.00 0.00 0.00 4.26
3352 6454 2.315176 CCTCCAATCCACACCAAACAA 58.685 47.619 0.00 0.00 0.00 2.83
3362 6465 5.551583 ACCATATATTACTGCCTCCAATCCA 59.448 40.000 0.00 0.00 0.00 3.41
3363 6466 6.067217 ACCATATATTACTGCCTCCAATCC 57.933 41.667 0.00 0.00 0.00 3.01
3364 6467 6.595716 GTGACCATATATTACTGCCTCCAATC 59.404 42.308 0.00 0.00 0.00 2.67
3369 6472 5.135508 ACGTGACCATATATTACTGCCTC 57.864 43.478 0.00 0.00 0.00 4.70
3376 6479 3.004944 TGCAGCGACGTGACCATATATTA 59.995 43.478 0.00 0.00 0.00 0.98
3379 6482 0.741915 TGCAGCGACGTGACCATATA 59.258 50.000 0.00 0.00 0.00 0.86
3381 6484 1.153842 CTGCAGCGACGTGACCATA 60.154 57.895 0.00 0.00 0.00 2.74
3382 6485 2.230994 ATCTGCAGCGACGTGACCAT 62.231 55.000 9.47 0.00 0.00 3.55
3385 6971 1.153939 AGATCTGCAGCGACGTGAC 60.154 57.895 9.47 0.00 0.00 3.67
3418 7004 2.515854 ACCTCTAGACTCTTCACGCAA 58.484 47.619 0.00 0.00 0.00 4.85
3425 7011 5.591067 CCGTAATCTGAACCTCTAGACTCTT 59.409 44.000 0.00 0.00 0.00 2.85
3427 7013 4.261280 GCCGTAATCTGAACCTCTAGACTC 60.261 50.000 0.00 0.00 0.00 3.36
3428 7014 3.633065 GCCGTAATCTGAACCTCTAGACT 59.367 47.826 0.00 0.00 0.00 3.24
3429 7015 3.548415 CGCCGTAATCTGAACCTCTAGAC 60.548 52.174 0.00 0.00 0.00 2.59
3508 7103 2.668212 TAAAGCTGGCGCGCAAGT 60.668 55.556 34.36 19.04 42.32 3.16
3542 7147 1.906824 ATCCGGTGACACGACAGGT 60.907 57.895 0.00 0.00 33.31 4.00
3543 7148 1.446099 CATCCGGTGACACGACAGG 60.446 63.158 0.00 0.91 35.47 4.00
3544 7149 2.094659 GCATCCGGTGACACGACAG 61.095 63.158 0.00 0.00 35.47 3.51
3545 7150 2.048597 GCATCCGGTGACACGACA 60.049 61.111 0.00 0.00 35.47 4.35
3546 7151 3.179265 CGCATCCGGTGACACGAC 61.179 66.667 0.00 0.00 35.47 4.34


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

AutoCloner maintained by Alex Coulton.