Multiple sequence alignment - TraesCS5B01G356800

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 TraesCS5B01G356800 chr5B 100.000 2588 0 0 1 2588 536383315 536385902 0.000000e+00 4780.0
1 TraesCS5B01G356800 chr5B 91.911 1298 75 11 1 1289 536424788 536426064 0.000000e+00 1788.0
2 TraesCS5B01G356800 chr5B 87.668 746 64 19 840 1577 536476156 536476881 0.000000e+00 843.0
3 TraesCS5B01G356800 chr5B 84.843 541 64 10 1000 1534 536505514 536506042 1.760000e-146 529.0
4 TraesCS5B01G356800 chr5B 85.603 514 62 9 984 1495 536508539 536509042 1.760000e-146 529.0
5 TraesCS5B01G356800 chr5B 83.030 495 49 17 1579 2065 536426317 536426784 1.430000e-112 416.0
6 TraesCS5B01G356800 chr5B 92.035 226 13 5 620 841 536475673 536475897 1.930000e-81 313.0
7 TraesCS5B01G356800 chr5B 93.023 215 9 3 1366 1580 536426064 536426272 2.500000e-80 309.0
8 TraesCS5B01G356800 chr5B 76.014 592 51 35 39 595 536463665 536464200 3.350000e-54 222.0
9 TraesCS5B01G356800 chr5B 94.366 142 8 0 2179 2320 613097745 613097886 4.340000e-53 219.0
10 TraesCS5B01G356800 chr5B 90.517 116 11 0 2064 2179 536426831 536426946 1.240000e-33 154.0
11 TraesCS5B01G356800 chr5B 80.319 188 23 8 1975 2151 536477380 536477564 2.090000e-26 130.0
12 TraesCS5B01G356800 chr5D 85.850 2205 171 63 1 2151 440937543 440939660 0.000000e+00 2213.0
13 TraesCS5B01G356800 chr5D 85.396 808 63 30 776 1577 440947696 440948454 0.000000e+00 787.0
14 TraesCS5B01G356800 chr5D 83.949 623 59 17 961 1577 440961573 440962160 2.250000e-155 558.0
15 TraesCS5B01G356800 chr5D 86.145 498 58 9 1000 1495 440965631 440966119 6.340000e-146 527.0
16 TraesCS5B01G356800 chr5A 85.841 1575 117 54 646 2176 557076453 557077965 0.000000e+00 1576.0
17 TraesCS5B01G356800 chr5A 85.909 809 62 26 776 1577 557081588 557082351 0.000000e+00 815.0
18 TraesCS5B01G356800 chr5A 86.003 643 37 25 1 616 557071716 557072332 7.810000e-180 640.0
19 TraesCS5B01G356800 chr5A 83.680 625 68 16 957 1577 557092692 557093286 2.250000e-155 558.0
20 TraesCS5B01G356800 chr5A 84.584 493 65 10 984 1474 557098895 557099378 1.800000e-131 479.0
21 TraesCS5B01G356800 chr5A 78.723 705 70 46 108 772 557080881 557081545 5.190000e-107 398.0
22 TraesCS5B01G356800 chr5A 94.444 126 7 0 2179 2304 602714993 602715118 7.310000e-46 195.0
23 TraesCS5B01G356800 chr5A 88.889 72 8 0 2080 2151 556739618 556739547 3.550000e-14 89.8
24 TraesCS5B01G356800 chr5A 88.889 72 8 0 2080 2151 557088109 557088180 3.550000e-14 89.8
25 TraesCS5B01G356800 chr2B 96.337 273 9 1 2316 2588 617956414 617956143 5.080000e-122 448.0
26 TraesCS5B01G356800 chr2B 92.958 142 10 0 2179 2320 748250901 748250760 9.390000e-50 207.0
27 TraesCS5B01G356800 chr2B 93.269 104 7 0 2322 2425 160758358 160758461 1.240000e-33 154.0
28 TraesCS5B01G356800 chr2B 88.095 126 15 0 2322 2447 10815493 10815368 1.600000e-32 150.0
29 TraesCS5B01G356800 chr3B 94.265 279 9 1 2317 2588 23398429 23398707 1.110000e-113 420.0
30 TraesCS5B01G356800 chr3B 89.231 65 7 0 987 1051 805639887 805639951 5.940000e-12 82.4
31 TraesCS5B01G356800 chr7B 92.857 252 17 1 2337 2588 664395432 664395682 5.260000e-97 364.0
32 TraesCS5B01G356800 chr7B 95.070 142 7 0 2179 2320 641676292 641676151 9.320000e-55 224.0
33 TraesCS5B01G356800 chr7B 93.333 135 9 0 2178 2312 14140559 14140425 1.570000e-47 200.0
34 TraesCS5B01G356800 chr7B 90.625 128 12 0 2179 2306 673551928 673551801 1.230000e-38 171.0
35 TraesCS5B01G356800 chr7B 84.028 144 19 4 2315 2458 158388303 158388164 4.490000e-28 135.0
36 TraesCS5B01G356800 chr3A 80.500 400 62 14 1020 1414 28396344 28395956 2.520000e-75 292.0
37 TraesCS5B01G356800 chr1B 93.662 142 9 0 2179 2320 50341066 50341207 2.020000e-51 213.0
38 TraesCS5B01G356800 chr1B 86.232 138 19 0 2321 2458 534514224 534514087 1.600000e-32 150.0
39 TraesCS5B01G356800 chr6B 90.769 130 11 1 2178 2307 130564912 130564784 3.420000e-39 172.0
40 TraesCS5B01G356800 chr1D 90.625 128 12 0 2179 2306 226941924 226941797 1.230000e-38 171.0
41 TraesCS5B01G356800 chr1A 91.304 115 10 0 2322 2436 94117306 94117192 9.590000e-35 158.0
42 TraesCS5B01G356800 chr4D 87.050 139 17 1 2320 2458 280175850 280175713 3.450000e-34 156.0


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 TraesCS5B01G356800 chr5B 536383315 536385902 2587 False 4780.000000 4780 100.00000 1 2588 1 chr5B.!!$F1 2587
1 TraesCS5B01G356800 chr5B 536424788 536426946 2158 False 666.750000 1788 89.62025 1 2179 4 chr5B.!!$F4 2178
2 TraesCS5B01G356800 chr5B 536505514 536509042 3528 False 529.000000 529 85.22300 984 1534 2 chr5B.!!$F6 550
3 TraesCS5B01G356800 chr5B 536475673 536477564 1891 False 428.666667 843 86.67400 620 2151 3 chr5B.!!$F5 1531
4 TraesCS5B01G356800 chr5B 536463665 536464200 535 False 222.000000 222 76.01400 39 595 1 chr5B.!!$F2 556
5 TraesCS5B01G356800 chr5D 440937543 440939660 2117 False 2213.000000 2213 85.85000 1 2151 1 chr5D.!!$F1 2150
6 TraesCS5B01G356800 chr5D 440947696 440948454 758 False 787.000000 787 85.39600 776 1577 1 chr5D.!!$F2 801
7 TraesCS5B01G356800 chr5D 440961573 440966119 4546 False 542.500000 558 85.04700 961 1577 2 chr5D.!!$F3 616
8 TraesCS5B01G356800 chr5A 557076453 557082351 5898 False 929.666667 1576 83.49100 108 2176 3 chr5A.!!$F6 2068
9 TraesCS5B01G356800 chr5A 557071716 557072332 616 False 640.000000 640 86.00300 1 616 1 chr5A.!!$F1 615
10 TraesCS5B01G356800 chr5A 557092692 557093286 594 False 558.000000 558 83.68000 957 1577 1 chr5A.!!$F3 620

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
979 1347 0.805614 ATCTCGTCCTGTCTCACACG 59.194 55.0 0.0 0.0 0.0 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2049 2646 0.106719 ATATCCACCACCTTTGCCGG 60.107 55.0 0.0 0.0 0.0 6.13 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
34 35 3.146066 CACCGATGAACCCTCAAAGAAA 58.854 45.455 0.00 0.00 34.49 2.52
44 47 2.256174 CCTCAAAGAAACATGCATGCG 58.744 47.619 26.53 4.36 0.00 4.73
79 86 3.193691 AGACGGTTCCTCTATGTGAACAG 59.806 47.826 0.00 0.00 42.04 3.16
81 88 2.353704 CGGTTCCTCTATGTGAACAGCA 60.354 50.000 0.00 0.00 42.04 4.41
85 92 2.840038 TCCTCTATGTGAACAGCATGGT 59.160 45.455 0.00 0.00 42.46 3.55
97 104 1.823470 GCATGGTCTATTGGGCGCA 60.823 57.895 10.83 0.00 0.00 6.09
99 106 0.877071 CATGGTCTATTGGGCGCATC 59.123 55.000 10.83 0.40 0.00 3.91
104 111 2.135933 GTCTATTGGGCGCATCAGTAC 58.864 52.381 10.83 2.44 0.00 2.73
192 219 1.774639 CGTACGGCGCCTATGTTATT 58.225 50.000 26.68 0.40 0.00 1.40
209 236 5.806818 TGTTATTCGGATCCACTTTTGGTA 58.193 37.500 13.41 0.00 44.35 3.25
244 272 4.789075 CGTACCTGACGTGGCGGG 62.789 72.222 0.00 0.00 46.86 6.13
306 351 3.017442 TCTCACCTCACGTTGATCCTAG 58.983 50.000 0.00 0.00 0.00 3.02
318 363 4.477780 GTTGATCCTAGTCTATGCTACGC 58.522 47.826 0.00 0.00 0.00 4.42
491 548 4.272748 CACGTCTGATAGATCGGTTCACTA 59.727 45.833 0.00 0.00 34.76 2.74
492 549 4.512198 ACGTCTGATAGATCGGTTCACTAG 59.488 45.833 0.00 0.00 34.76 2.57
493 550 4.512198 CGTCTGATAGATCGGTTCACTAGT 59.488 45.833 0.00 0.00 34.76 2.57
494 551 5.333492 CGTCTGATAGATCGGTTCACTAGTC 60.333 48.000 0.00 0.00 34.76 2.59
495 552 5.527951 GTCTGATAGATCGGTTCACTAGTCA 59.472 44.000 0.00 0.00 34.76 3.41
496 553 5.527951 TCTGATAGATCGGTTCACTAGTCAC 59.472 44.000 0.00 0.00 34.76 3.67
497 554 4.579340 TGATAGATCGGTTCACTAGTCACC 59.421 45.833 9.90 9.90 0.00 4.02
537 597 3.423848 TCGCATGCACTGTGACTAG 57.576 52.632 19.57 0.00 39.44 2.57
553 617 5.246203 TGTGACTAGTAGGAGCAAAGTGATT 59.754 40.000 0.00 0.00 0.00 2.57
564 628 6.925165 AGGAGCAAAGTGATTGTAAAATTGTG 59.075 34.615 0.00 0.00 41.32 3.33
571 635 9.683069 AAAGTGATTGTAAAATTGTGATGTCTC 57.317 29.630 0.00 0.00 0.00 3.36
965 1324 2.560119 CCTCCCCGCTCTCATCTCG 61.560 68.421 0.00 0.00 0.00 4.04
979 1347 0.805614 ATCTCGTCCTGTCTCACACG 59.194 55.000 0.00 0.00 0.00 4.49
996 1366 0.942252 ACGGAAGAAAACCAACGAGC 59.058 50.000 0.00 0.00 0.00 5.03
1521 1909 2.464459 GGCAGCCAACGAATCTCCG 61.464 63.158 6.55 0.00 0.00 4.63
1616 2069 5.800438 CAGTATGCTCGCAACGTACATATAT 59.200 40.000 0.00 0.00 32.35 0.86
1642 2103 1.205657 CGCACGTAATATGGTCGCTT 58.794 50.000 0.00 0.00 0.00 4.68
1676 2171 8.090250 ACGTATTAGAAAATGCAAACTGTACA 57.910 30.769 0.00 0.00 0.00 2.90
1677 2172 8.227791 ACGTATTAGAAAATGCAAACTGTACAG 58.772 33.333 21.44 21.44 0.00 2.74
1678 2173 7.216317 CGTATTAGAAAATGCAAACTGTACAGC 59.784 37.037 22.90 10.29 0.00 4.40
1679 2174 3.888934 AGAAAATGCAAACTGTACAGCG 58.111 40.909 22.90 12.43 0.00 5.18
1680 2175 3.315191 AGAAAATGCAAACTGTACAGCGT 59.685 39.130 22.90 8.24 0.00 5.07
1747 2249 5.734035 TCGTCGATGTGTAAATACTTGTACG 59.266 40.000 4.21 0.00 0.00 3.67
1756 2258 5.858049 TGTAAATACTTGTACGTCACCTTCG 59.142 40.000 0.00 0.00 0.00 3.79
1765 2270 2.476821 ACGTCACCTTCGGTTAGTTTG 58.523 47.619 0.00 0.00 31.02 2.93
1863 2421 3.950794 ATGTACGGCACCCACGCTG 62.951 63.158 0.00 0.00 44.25 5.18
1878 2448 4.211374 CCCACGCTGTAGCTAAAATATCAC 59.789 45.833 0.00 0.00 39.32 3.06
1916 2503 2.437200 TGCATGCATGTCGATCGATA 57.563 45.000 26.79 19.72 0.00 2.92
1922 2509 3.457234 TGCATGTCGATCGATAGCTTTT 58.543 40.909 27.55 9.29 0.00 2.27
1949 2542 0.613572 CGGGGGTTGGGTAAAGCAAT 60.614 55.000 0.00 0.00 38.05 3.56
1986 2583 4.891727 GGCGTCGATCATGGCGGT 62.892 66.667 0.00 0.00 0.00 5.68
2062 2712 2.676471 GCATCCGGCAAAGGTGGT 60.676 61.111 0.00 0.00 43.97 4.16
2083 2733 1.130561 GGATATTTTAGGCCGCGATGC 59.869 52.381 8.23 2.32 0.00 3.91
2156 2820 2.541547 TACGGACGGAGGACCATCGT 62.542 60.000 11.14 11.14 39.99 3.73
2181 2865 1.433471 TGAGTGCTCTCATACGGCG 59.567 57.895 14.30 4.80 44.58 6.46
2182 2866 1.029947 TGAGTGCTCTCATACGGCGA 61.030 55.000 16.62 0.00 44.58 5.54
2184 2868 0.530744 AGTGCTCTCATACGGCGAAA 59.469 50.000 16.62 0.38 0.00 3.46
2185 2869 1.137086 AGTGCTCTCATACGGCGAAAT 59.863 47.619 16.62 3.38 0.00 2.17
2186 2870 1.933853 GTGCTCTCATACGGCGAAATT 59.066 47.619 16.62 0.00 0.00 1.82
2187 2871 2.351726 GTGCTCTCATACGGCGAAATTT 59.648 45.455 16.62 0.00 0.00 1.82
2202 2886 4.356289 CGAAATTTCGTGTTTTGACCCTT 58.644 39.130 28.21 0.00 45.09 3.95
2203 2887 4.801516 CGAAATTTCGTGTTTTGACCCTTT 59.198 37.500 28.21 0.00 45.09 3.11
2204 2888 5.289917 CGAAATTTCGTGTTTTGACCCTTTT 59.710 36.000 28.21 0.00 45.09 2.27
2205 2889 6.507299 CGAAATTTCGTGTTTTGACCCTTTTC 60.507 38.462 28.21 0.00 45.09 2.29
2208 2892 2.096174 TCGTGTTTTGACCCTTTTCACG 59.904 45.455 8.19 8.19 45.10 4.35
2209 2893 2.159490 CGTGTTTTGACCCTTTTCACGT 60.159 45.455 0.00 0.00 41.01 4.49
2211 2895 3.128068 GTGTTTTGACCCTTTTCACGTCT 59.872 43.478 0.00 0.00 0.00 4.18
2214 2898 5.415077 TGTTTTGACCCTTTTCACGTCTAAA 59.585 36.000 0.00 0.00 31.79 1.85
2220 2904 4.689345 ACCCTTTTCACGTCTAAAATCGAG 59.311 41.667 5.95 0.00 0.00 4.04
2221 2905 4.927425 CCCTTTTCACGTCTAAAATCGAGA 59.073 41.667 5.95 0.00 0.00 4.04
2222 2906 5.581085 CCCTTTTCACGTCTAAAATCGAGAT 59.419 40.000 5.95 0.00 0.00 2.75
2223 2907 6.092259 CCCTTTTCACGTCTAAAATCGAGATT 59.908 38.462 5.95 0.00 0.00 2.40
2224 2908 7.360946 CCCTTTTCACGTCTAAAATCGAGATTT 60.361 37.037 5.32 5.32 42.35 2.17
2225 2909 7.478667 CCTTTTCACGTCTAAAATCGAGATTTG 59.521 37.037 11.31 1.57 40.57 2.32
2226 2910 7.646446 TTTCACGTCTAAAATCGAGATTTGA 57.354 32.000 11.31 3.93 40.57 2.69
2227 2911 6.627690 TCACGTCTAAAATCGAGATTTGAC 57.372 37.500 11.31 13.00 40.57 3.18
2230 2914 4.270325 CGTCTAAAATCGAGATTTGACCCC 59.730 45.833 11.31 0.46 40.57 4.95
2231 2915 4.270325 GTCTAAAATCGAGATTTGACCCCG 59.730 45.833 11.31 0.00 40.57 5.73
2232 2916 2.038387 AAATCGAGATTTGACCCCGG 57.962 50.000 9.96 0.00 39.36 5.73
2233 2917 0.909623 AATCGAGATTTGACCCCGGT 59.090 50.000 0.00 0.00 0.00 5.28
2234 2918 0.909623 ATCGAGATTTGACCCCGGTT 59.090 50.000 0.00 0.00 0.00 4.44
2235 2919 0.688487 TCGAGATTTGACCCCGGTTT 59.312 50.000 0.00 0.00 0.00 3.27
2237 2921 2.302445 TCGAGATTTGACCCCGGTTTAA 59.698 45.455 0.00 0.00 0.00 1.52
2240 2924 4.157105 CGAGATTTGACCCCGGTTTAAAAT 59.843 41.667 0.00 1.22 0.00 1.82
2242 2926 6.127952 CGAGATTTGACCCCGGTTTAAAATTA 60.128 38.462 0.00 0.00 0.00 1.40
2243 2927 7.415877 CGAGATTTGACCCCGGTTTAAAATTAT 60.416 37.037 0.00 0.00 0.00 1.28
2244 2928 8.141298 AGATTTGACCCCGGTTTAAAATTATT 57.859 30.769 0.00 0.00 0.00 1.40
2245 2929 8.598916 AGATTTGACCCCGGTTTAAAATTATTT 58.401 29.630 0.00 0.00 0.00 1.40
2247 2931 5.952033 TGACCCCGGTTTAAAATTATTTCG 58.048 37.500 0.00 0.00 0.00 3.46
2248 2932 5.709164 TGACCCCGGTTTAAAATTATTTCGA 59.291 36.000 0.00 0.00 0.00 3.71
2264 2999 9.793252 AATTATTTCGACATTTGATCCTTTCAG 57.207 29.630 0.00 0.00 35.27 3.02
2265 3000 4.685169 TTCGACATTTGATCCTTTCAGC 57.315 40.909 0.00 0.00 35.27 4.26
2266 3001 3.942829 TCGACATTTGATCCTTTCAGCT 58.057 40.909 0.00 0.00 35.27 4.24
2267 3002 5.084818 TCGACATTTGATCCTTTCAGCTA 57.915 39.130 0.00 0.00 35.27 3.32
2269 3004 4.034510 CGACATTTGATCCTTTCAGCTACC 59.965 45.833 0.00 0.00 35.27 3.18
2270 3005 3.941483 ACATTTGATCCTTTCAGCTACCG 59.059 43.478 0.00 0.00 35.27 4.02
2271 3006 2.024176 TTGATCCTTTCAGCTACCGC 57.976 50.000 0.00 0.00 35.27 5.68
2272 3007 0.178068 TGATCCTTTCAGCTACCGCC 59.822 55.000 0.00 0.00 36.60 6.13
2275 3010 1.375523 CCTTTCAGCTACCGCCGTT 60.376 57.895 0.00 0.00 36.60 4.44
2276 3011 1.359459 CCTTTCAGCTACCGCCGTTC 61.359 60.000 0.00 0.00 36.60 3.95
2277 3012 1.683790 CTTTCAGCTACCGCCGTTCG 61.684 60.000 0.00 0.00 36.60 3.95
2278 3013 4.789075 TCAGCTACCGCCGTTCGC 62.789 66.667 0.00 0.00 36.60 4.70
2295 3030 2.577059 CCGTGGCGGTAGATGTGT 59.423 61.111 0.00 0.00 42.73 3.72
2296 3031 1.811195 CCGTGGCGGTAGATGTGTA 59.189 57.895 0.00 0.00 42.73 2.90
2297 3032 0.526954 CCGTGGCGGTAGATGTGTAC 60.527 60.000 0.00 0.00 42.73 2.90
2298 3033 0.171679 CGTGGCGGTAGATGTGTACA 59.828 55.000 0.00 0.00 0.00 2.90
2299 3034 1.797713 CGTGGCGGTAGATGTGTACAG 60.798 57.143 0.00 0.00 0.00 2.74
2300 3035 0.821517 TGGCGGTAGATGTGTACAGG 59.178 55.000 0.00 0.00 0.00 4.00
2301 3036 0.529992 GGCGGTAGATGTGTACAGGC 60.530 60.000 0.00 0.00 36.72 4.85
2304 3039 2.543238 GCGGTAGATGTGTACAGGCTAC 60.543 54.545 15.96 15.96 37.16 3.58
2305 3040 2.034305 CGGTAGATGTGTACAGGCTACC 59.966 54.545 25.05 25.05 45.06 3.18
2307 3042 3.641906 GGTAGATGTGTACAGGCTACCAT 59.358 47.826 27.57 15.40 46.28 3.55
2308 3043 4.262079 GGTAGATGTGTACAGGCTACCATC 60.262 50.000 27.57 20.76 46.28 3.51
2309 3044 3.374764 AGATGTGTACAGGCTACCATCA 58.625 45.455 18.63 2.87 32.54 3.07
2310 3045 3.969976 AGATGTGTACAGGCTACCATCAT 59.030 43.478 18.63 6.99 32.54 2.45
2311 3046 4.410228 AGATGTGTACAGGCTACCATCATT 59.590 41.667 18.63 2.70 32.54 2.57
2312 3047 4.137116 TGTGTACAGGCTACCATCATTC 57.863 45.455 0.00 0.00 0.00 2.67
2313 3048 3.774766 TGTGTACAGGCTACCATCATTCT 59.225 43.478 0.00 0.00 0.00 2.40
2314 3049 4.959839 TGTGTACAGGCTACCATCATTCTA 59.040 41.667 0.00 0.00 0.00 2.10
2315 3050 5.163447 TGTGTACAGGCTACCATCATTCTAC 60.163 44.000 0.00 0.00 0.00 2.59
2316 3051 3.735237 ACAGGCTACCATCATTCTACG 57.265 47.619 0.00 0.00 0.00 3.51
2317 3052 3.031736 ACAGGCTACCATCATTCTACGT 58.968 45.455 0.00 0.00 0.00 3.57
2318 3053 3.181475 ACAGGCTACCATCATTCTACGTG 60.181 47.826 0.00 0.00 0.00 4.49
2319 3054 2.365617 AGGCTACCATCATTCTACGTGG 59.634 50.000 0.00 0.00 37.74 4.94
2321 3056 3.181469 GGCTACCATCATTCTACGTGGAA 60.181 47.826 17.11 17.11 35.69 3.53
2322 3057 4.439057 GCTACCATCATTCTACGTGGAAA 58.561 43.478 18.67 3.34 35.69 3.13
2324 3059 5.353123 GCTACCATCATTCTACGTGGAAAAA 59.647 40.000 18.67 9.83 35.69 1.94
2347 3082 8.902540 AAAAGTCCAATTTAAACCCTGAATTC 57.097 30.769 0.00 0.00 0.00 2.17
2348 3083 6.267496 AGTCCAATTTAAACCCTGAATTCG 57.733 37.500 0.04 0.00 0.00 3.34
2349 3084 5.773176 AGTCCAATTTAAACCCTGAATTCGT 59.227 36.000 0.04 0.00 0.00 3.85
2351 3086 7.120726 AGTCCAATTTAAACCCTGAATTCGTAG 59.879 37.037 0.04 0.00 0.00 3.51
2352 3087 7.120138 GTCCAATTTAAACCCTGAATTCGTAGA 59.880 37.037 0.04 0.00 0.00 2.59
2353 3088 7.335924 TCCAATTTAAACCCTGAATTCGTAGAG 59.664 37.037 0.04 0.00 38.43 2.43
2355 3090 5.750352 TTAAACCCTGAATTCGTAGAGGT 57.250 39.130 8.35 4.40 38.43 3.85
2357 3092 5.750352 AAACCCTGAATTCGTAGAGGTTA 57.250 39.130 14.12 0.00 38.43 2.85
2358 3093 5.340439 AACCCTGAATTCGTAGAGGTTAG 57.660 43.478 12.83 1.17 38.43 2.34
2359 3094 3.705072 ACCCTGAATTCGTAGAGGTTAGG 59.295 47.826 8.35 3.04 38.43 2.69
2360 3095 3.492829 CCCTGAATTCGTAGAGGTTAGGC 60.493 52.174 8.35 0.00 38.43 3.93
2361 3096 3.372954 CTGAATTCGTAGAGGTTAGGCG 58.627 50.000 0.04 0.00 38.43 5.52
2362 3097 3.018856 TGAATTCGTAGAGGTTAGGCGA 58.981 45.455 0.04 0.00 38.43 5.54
2363 3098 3.444742 TGAATTCGTAGAGGTTAGGCGAA 59.555 43.478 0.04 0.00 43.93 4.70
2364 3099 4.082081 TGAATTCGTAGAGGTTAGGCGAAA 60.082 41.667 0.04 0.00 43.23 3.46
2365 3100 4.667519 ATTCGTAGAGGTTAGGCGAAAT 57.332 40.909 0.00 0.00 43.23 2.17
2366 3101 3.431922 TCGTAGAGGTTAGGCGAAATG 57.568 47.619 0.00 0.00 0.00 2.32
2367 3102 3.018856 TCGTAGAGGTTAGGCGAAATGA 58.981 45.455 0.00 0.00 0.00 2.57
2368 3103 3.444742 TCGTAGAGGTTAGGCGAAATGAA 59.555 43.478 0.00 0.00 0.00 2.57
2369 3104 3.550678 CGTAGAGGTTAGGCGAAATGAAC 59.449 47.826 0.00 0.00 0.00 3.18
2374 3252 2.617021 GGTTAGGCGAAATGAACCCTCA 60.617 50.000 0.00 0.00 36.18 3.86
2380 3258 2.616960 CGAAATGAACCCTCACATCGA 58.383 47.619 0.00 0.00 41.83 3.59
2381 3259 3.000041 CGAAATGAACCCTCACATCGAA 59.000 45.455 0.00 0.00 41.83 3.71
2386 3264 2.289565 GAACCCTCACATCGAAATCCC 58.710 52.381 0.00 0.00 0.00 3.85
2387 3265 1.584724 ACCCTCACATCGAAATCCCT 58.415 50.000 0.00 0.00 0.00 4.20
2393 3271 2.028476 TCACATCGAAATCCCTGTCGTT 60.028 45.455 0.00 0.00 38.41 3.85
2394 3272 2.742053 CACATCGAAATCCCTGTCGTTT 59.258 45.455 0.00 0.00 38.41 3.60
2395 3273 2.742053 ACATCGAAATCCCTGTCGTTTG 59.258 45.455 0.00 0.00 38.41 2.93
2396 3274 1.153353 TCGAAATCCCTGTCGTTTGC 58.847 50.000 0.00 0.00 38.41 3.68
2397 3275 0.871722 CGAAATCCCTGTCGTTTGCA 59.128 50.000 0.00 0.00 32.61 4.08
2398 3276 1.399727 CGAAATCCCTGTCGTTTGCAC 60.400 52.381 0.00 0.00 32.61 4.57
2400 3278 0.893727 AATCCCTGTCGTTTGCACCC 60.894 55.000 0.00 0.00 0.00 4.61
2402 3280 2.260869 CCCTGTCGTTTGCACCCTG 61.261 63.158 0.00 0.00 0.00 4.45
2403 3281 1.227823 CCTGTCGTTTGCACCCTGA 60.228 57.895 0.00 0.00 0.00 3.86
2404 3282 0.817634 CCTGTCGTTTGCACCCTGAA 60.818 55.000 0.00 0.00 0.00 3.02
2405 3283 0.307760 CTGTCGTTTGCACCCTGAAC 59.692 55.000 0.00 0.00 0.00 3.18
2406 3284 0.107410 TGTCGTTTGCACCCTGAACT 60.107 50.000 0.00 0.00 0.00 3.01
2407 3285 1.139256 TGTCGTTTGCACCCTGAACTA 59.861 47.619 0.00 0.00 0.00 2.24
2408 3286 2.224426 TGTCGTTTGCACCCTGAACTAT 60.224 45.455 0.00 0.00 0.00 2.12
2409 3287 3.007074 TGTCGTTTGCACCCTGAACTATA 59.993 43.478 0.00 0.00 0.00 1.31
2411 3289 3.007074 TCGTTTGCACCCTGAACTATACA 59.993 43.478 0.00 0.00 0.00 2.29
2412 3290 3.749088 CGTTTGCACCCTGAACTATACAA 59.251 43.478 0.00 0.00 0.00 2.41
2413 3291 4.394920 CGTTTGCACCCTGAACTATACAAT 59.605 41.667 0.00 0.00 0.00 2.71
2415 3293 4.150897 TGCACCCTGAACTATACAATCC 57.849 45.455 0.00 0.00 0.00 3.01
2417 3295 3.728845 CACCCTGAACTATACAATCCCG 58.271 50.000 0.00 0.00 0.00 5.14
2418 3296 2.704065 ACCCTGAACTATACAATCCCGG 59.296 50.000 0.00 0.00 0.00 5.73
2419 3297 2.704065 CCCTGAACTATACAATCCCGGT 59.296 50.000 0.00 0.00 0.00 5.28
2421 3299 3.641906 CCTGAACTATACAATCCCGGTCT 59.358 47.826 0.00 0.00 0.00 3.85
2422 3300 4.831155 CCTGAACTATACAATCCCGGTCTA 59.169 45.833 0.00 0.00 0.00 2.59
2423 3301 5.303589 CCTGAACTATACAATCCCGGTCTAA 59.696 44.000 0.00 0.00 0.00 2.10
2424 3302 6.183360 CCTGAACTATACAATCCCGGTCTAAA 60.183 42.308 0.00 0.00 0.00 1.85
2425 3303 7.185318 TGAACTATACAATCCCGGTCTAAAA 57.815 36.000 0.00 0.00 0.00 1.52
2426 3304 7.798071 TGAACTATACAATCCCGGTCTAAAAT 58.202 34.615 0.00 0.00 0.00 1.82
2427 3305 7.713507 TGAACTATACAATCCCGGTCTAAAATG 59.286 37.037 0.00 0.00 0.00 2.32
2428 3306 7.369551 ACTATACAATCCCGGTCTAAAATGA 57.630 36.000 0.00 0.00 0.00 2.57
2434 3312 3.452878 TCCCGGTCTAAAATGAACCCTA 58.547 45.455 0.00 0.00 0.00 3.53
2435 3313 3.453353 TCCCGGTCTAAAATGAACCCTAG 59.547 47.826 0.00 0.00 0.00 3.02
2436 3314 3.433173 CCCGGTCTAAAATGAACCCTAGG 60.433 52.174 0.06 0.06 0.00 3.02
2437 3315 3.433173 CCGGTCTAAAATGAACCCTAGGG 60.433 52.174 27.36 27.36 42.03 3.53
2448 3326 3.545724 CCCTAGGGTCGTTTGGAAC 57.454 57.895 20.88 0.00 0.00 3.62
2449 3327 0.688487 CCCTAGGGTCGTTTGGAACA 59.312 55.000 20.88 0.00 32.36 3.18
2451 3329 1.609841 CCTAGGGTCGTTTGGAACACC 60.610 57.143 0.00 0.00 39.29 4.16
2452 3330 0.033781 TAGGGTCGTTTGGAACACCG 59.966 55.000 0.00 0.00 39.29 4.94
2453 3331 2.255881 GGGTCGTTTGGAACACCGG 61.256 63.158 0.00 0.00 39.29 5.28
2455 3333 1.227615 GTCGTTTGGAACACCGGGA 60.228 57.895 6.32 0.00 39.29 5.14
2456 3334 0.604511 GTCGTTTGGAACACCGGGAT 60.605 55.000 6.32 0.00 39.29 3.85
2457 3335 0.108963 TCGTTTGGAACACCGGGATT 59.891 50.000 6.32 0.00 39.29 3.01
2458 3336 1.347050 TCGTTTGGAACACCGGGATTA 59.653 47.619 6.32 0.00 39.29 1.75
2459 3337 1.465777 CGTTTGGAACACCGGGATTAC 59.534 52.381 6.32 0.00 39.29 1.89
2460 3338 2.506444 GTTTGGAACACCGGGATTACA 58.494 47.619 6.32 3.09 39.29 2.41
2461 3339 2.483014 TTGGAACACCGGGATTACAG 57.517 50.000 6.32 0.00 39.29 2.74
2463 3341 1.276989 TGGAACACCGGGATTACAGAC 59.723 52.381 6.32 0.00 0.00 3.51
2465 3343 0.971386 AACACCGGGATTACAGACGT 59.029 50.000 6.32 0.00 0.00 4.34
2466 3344 0.245539 ACACCGGGATTACAGACGTG 59.754 55.000 6.32 0.00 0.00 4.49
2468 3346 1.520787 CCGGGATTACAGACGTGGC 60.521 63.158 0.00 0.00 0.00 5.01
2470 3348 1.905512 GGGATTACAGACGTGGCCT 59.094 57.895 3.32 0.00 0.00 5.19
2471 3349 0.462047 GGGATTACAGACGTGGCCTG 60.462 60.000 3.32 0.00 37.64 4.85
2473 3351 0.535335 GATTACAGACGTGGCCTGGA 59.465 55.000 3.32 0.00 36.03 3.86
2474 3352 1.139058 GATTACAGACGTGGCCTGGAT 59.861 52.381 3.32 0.00 36.03 3.41
2475 3353 0.981183 TTACAGACGTGGCCTGGATT 59.019 50.000 3.32 0.00 36.03 3.01
2476 3354 0.249120 TACAGACGTGGCCTGGATTG 59.751 55.000 3.32 0.00 36.03 2.67
2477 3355 1.746615 CAGACGTGGCCTGGATTGG 60.747 63.158 3.32 0.00 0.00 3.16
2478 3356 2.224159 AGACGTGGCCTGGATTGGT 61.224 57.895 3.32 0.00 0.00 3.67
2479 3357 1.745489 GACGTGGCCTGGATTGGTC 60.745 63.158 3.32 0.00 0.00 4.02
2480 3358 2.819595 CGTGGCCTGGATTGGTCG 60.820 66.667 3.32 0.00 33.69 4.79
2482 3360 4.776322 TGGCCTGGATTGGTCGCG 62.776 66.667 3.32 0.00 33.69 5.87
2513 3391 4.338815 CTGGACGAGCCCAGTCTA 57.661 61.111 12.72 0.00 46.62 2.59
2514 3392 2.111162 CTGGACGAGCCCAGTCTAG 58.889 63.158 12.72 1.44 46.62 2.43
2516 3394 2.787567 GGACGAGCCCAGTCTAGCC 61.788 68.421 0.00 0.00 38.58 3.93
2517 3395 2.760385 ACGAGCCCAGTCTAGCCC 60.760 66.667 0.00 0.00 0.00 5.19
2518 3396 2.759973 CGAGCCCAGTCTAGCCCA 60.760 66.667 0.00 0.00 0.00 5.36
2520 3398 3.086600 AGCCCAGTCTAGCCCAGC 61.087 66.667 0.00 0.00 0.00 4.85
2521 3399 4.537433 GCCCAGTCTAGCCCAGCG 62.537 72.222 0.00 0.00 0.00 5.18
2522 3400 4.537433 CCCAGTCTAGCCCAGCGC 62.537 72.222 0.00 0.00 37.98 5.92
2523 3401 4.880537 CCAGTCTAGCCCAGCGCG 62.881 72.222 0.00 0.00 44.76 6.86
2534 3412 3.782244 CAGCGCGCTGTCCACTTC 61.782 66.667 44.44 8.99 39.10 3.01
2537 3415 3.767230 CGCGCTGTCCACTTCGTG 61.767 66.667 5.56 0.00 0.00 4.35
2538 3416 4.077188 GCGCTGTCCACTTCGTGC 62.077 66.667 0.00 0.00 31.34 5.34
2539 3417 2.661537 CGCTGTCCACTTCGTGCA 60.662 61.111 0.00 0.00 31.34 4.57
2540 3418 2.661566 CGCTGTCCACTTCGTGCAG 61.662 63.158 0.00 0.00 31.34 4.41
2541 3419 1.595382 GCTGTCCACTTCGTGCAGT 60.595 57.895 0.00 0.00 30.28 4.40
2543 3421 0.032678 CTGTCCACTTCGTGCAGTCT 59.967 55.000 0.00 0.00 31.34 3.24
2545 3423 0.249489 GTCCACTTCGTGCAGTCTGT 60.249 55.000 0.93 0.00 31.34 3.41
2548 3426 1.135046 CACTTCGTGCAGTCTGTGAG 58.865 55.000 0.93 0.00 0.00 3.51
2557 3670 3.695606 GTCTGTGAGGCCCAGCGA 61.696 66.667 0.00 0.00 0.00 4.93
2561 3674 1.960040 CTGTGAGGCCCAGCGACATA 61.960 60.000 0.00 0.00 0.00 2.29
2567 3680 2.782222 GCCCAGCGACATACGGAGA 61.782 63.158 0.00 0.00 42.83 3.71
2581 3694 2.748461 CGGAGAACGCACAAGAAAAA 57.252 45.000 0.00 0.00 34.82 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 47 3.773117 CCGTCTTGGTTCAATGCAC 57.227 52.632 0.00 0.00 0.00 4.57
65 68 3.118482 AGACCATGCTGTTCACATAGAGG 60.118 47.826 0.00 0.00 0.00 3.69
79 86 1.174712 ATGCGCCCAATAGACCATGC 61.175 55.000 4.18 0.00 0.00 4.06
81 88 0.473755 TGATGCGCCCAATAGACCAT 59.526 50.000 4.18 0.00 0.00 3.55
85 92 1.269569 CGTACTGATGCGCCCAATAGA 60.270 52.381 4.18 0.00 0.00 1.98
90 97 3.387091 ACCGTACTGATGCGCCCA 61.387 61.111 4.18 1.49 31.78 5.36
93 100 2.165301 GGTCACCGTACTGATGCGC 61.165 63.158 0.00 0.00 31.78 6.09
97 104 1.968493 ACACTTGGTCACCGTACTGAT 59.032 47.619 0.00 0.00 0.00 2.90
99 106 2.669364 GTACACTTGGTCACCGTACTG 58.331 52.381 3.21 0.00 31.78 2.74
104 111 0.856641 CAACGTACACTTGGTCACCG 59.143 55.000 0.00 0.00 0.00 4.94
209 236 0.667993 CGTGTGTCAAGCCAAACCAT 59.332 50.000 0.00 0.00 0.00 3.55
260 288 0.896019 ACCGACCAGAGTCACCAGAG 60.896 60.000 0.00 0.00 43.73 3.35
333 378 8.980481 ACAATTGGAGAGAAGAAAAGTAGAAA 57.020 30.769 10.83 0.00 0.00 2.52
335 380 7.162082 GGACAATTGGAGAGAAGAAAAGTAGA 58.838 38.462 10.83 0.00 0.00 2.59
491 548 3.769739 TGCATCTTAAGTGTGGTGACT 57.230 42.857 1.63 0.00 0.00 3.41
492 549 4.379813 CCAATGCATCTTAAGTGTGGTGAC 60.380 45.833 0.00 0.00 0.00 3.67
493 550 3.758023 CCAATGCATCTTAAGTGTGGTGA 59.242 43.478 0.00 0.00 0.00 4.02
494 551 3.674138 GCCAATGCATCTTAAGTGTGGTG 60.674 47.826 0.00 0.00 37.47 4.17
495 552 2.493278 GCCAATGCATCTTAAGTGTGGT 59.507 45.455 0.00 0.00 37.47 4.16
496 553 2.756760 AGCCAATGCATCTTAAGTGTGG 59.243 45.455 0.00 2.10 41.13 4.17
497 554 3.192001 ACAGCCAATGCATCTTAAGTGTG 59.808 43.478 0.00 4.50 41.13 3.82
537 597 8.082242 ACAATTTTACAATCACTTTGCTCCTAC 58.918 33.333 0.00 0.00 39.03 3.18
571 635 0.449388 GCAACTTCAAGCGGAGATGG 59.551 55.000 0.00 0.00 0.00 3.51
965 1324 0.959553 TCTTCCGTGTGAGACAGGAC 59.040 55.000 0.00 0.00 36.17 3.85
979 1347 3.430333 TTTGCTCGTTGGTTTTCTTCC 57.570 42.857 0.00 0.00 0.00 3.46
996 1366 4.054825 AGGTGGCGCGGCATTTTG 62.055 61.111 38.25 0.00 0.00 2.44
1474 1862 4.286320 GGCCGCGACGATGAGGAT 62.286 66.667 8.23 0.00 0.00 3.24
1511 1899 1.835494 TTGAGGAGTCGGAGATTCGT 58.165 50.000 0.00 0.00 44.64 3.85
1515 1903 1.202582 CACGTTTGAGGAGTCGGAGAT 59.797 52.381 0.00 0.00 40.67 2.75
1521 1909 0.861837 CACAGCACGTTTGAGGAGTC 59.138 55.000 3.96 0.00 0.00 3.36
1616 2069 4.292599 GACCATATTACGTGCGTATGTCA 58.707 43.478 0.19 0.00 0.00 3.58
1656 2151 5.008217 ACGCTGTACAGTTTGCATTTTCTAA 59.992 36.000 23.44 0.00 0.00 2.10
1716 2215 7.672738 AGTATTTACACATCGACGAAAATGTC 58.327 34.615 13.31 7.58 33.92 3.06
1756 2258 5.528690 ACCGTAAAAACTCTCCAAACTAACC 59.471 40.000 0.00 0.00 0.00 2.85
1822 2372 6.852858 TGCGCTTTATACTGTATATGCAAA 57.147 33.333 21.80 11.20 0.00 3.68
1823 2373 6.426633 ACATGCGCTTTATACTGTATATGCAA 59.573 34.615 21.80 14.71 31.84 4.08
1824 2374 5.931724 ACATGCGCTTTATACTGTATATGCA 59.068 36.000 21.80 20.08 0.00 3.96
1825 2375 6.408858 ACATGCGCTTTATACTGTATATGC 57.591 37.500 9.73 13.35 0.00 3.14
1826 2376 7.253651 CCGTACATGCGCTTTATACTGTATATG 60.254 40.741 9.73 1.05 0.00 1.78
1827 2377 6.750501 CCGTACATGCGCTTTATACTGTATAT 59.249 38.462 9.73 0.00 0.00 0.86
1828 2378 6.088173 CCGTACATGCGCTTTATACTGTATA 58.912 40.000 9.73 3.44 0.00 1.47
1863 2421 4.614946 ACGGACGGTGATATTTTAGCTAC 58.385 43.478 0.00 0.00 0.00 3.58
1930 2517 0.613572 ATTGCTTTACCCAACCCCCG 60.614 55.000 0.00 0.00 0.00 5.73
1935 2522 1.668628 CCACGCATTGCTTTACCCAAC 60.669 52.381 7.12 0.00 0.00 3.77
1936 2523 0.600557 CCACGCATTGCTTTACCCAA 59.399 50.000 7.12 0.00 0.00 4.12
1949 2542 2.425592 CCTCCACTTGACCACGCA 59.574 61.111 0.00 0.00 0.00 5.24
2049 2646 0.106719 ATATCCACCACCTTTGCCGG 60.107 55.000 0.00 0.00 0.00 6.13
2059 2709 1.812324 CGCGGCCTAAAATATCCACCA 60.812 52.381 0.00 0.00 0.00 4.17
2061 2711 1.873698 TCGCGGCCTAAAATATCCAC 58.126 50.000 6.13 0.00 0.00 4.02
2062 2712 2.422597 CATCGCGGCCTAAAATATCCA 58.577 47.619 6.13 0.00 0.00 3.41
2088 2738 1.727830 GTACTGTACGCATCGAGTCG 58.272 55.000 6.09 6.09 0.00 4.18
2181 2865 6.311690 TGAAAAGGGTCAAAACACGAAATTTC 59.688 34.615 8.20 8.20 32.44 2.17
2182 2866 6.091577 GTGAAAAGGGTCAAAACACGAAATTT 59.908 34.615 0.00 0.00 32.44 1.82
2184 2868 5.106442 GTGAAAAGGGTCAAAACACGAAAT 58.894 37.500 0.00 0.00 32.44 2.17
2185 2869 4.487019 GTGAAAAGGGTCAAAACACGAAA 58.513 39.130 0.00 0.00 32.44 3.46
2186 2870 4.099380 GTGAAAAGGGTCAAAACACGAA 57.901 40.909 0.00 0.00 32.44 3.85
2187 2871 3.768468 GTGAAAAGGGTCAAAACACGA 57.232 42.857 0.00 0.00 32.44 4.35
2189 2873 3.128068 AGACGTGAAAAGGGTCAAAACAC 59.872 43.478 0.00 0.00 33.18 3.32
2191 2875 5.488645 TTAGACGTGAAAAGGGTCAAAAC 57.511 39.130 0.00 0.00 33.18 2.43
2192 2876 6.512342 TTTTAGACGTGAAAAGGGTCAAAA 57.488 33.333 0.00 0.00 33.18 2.44
2193 2877 6.512091 CGATTTTAGACGTGAAAAGGGTCAAA 60.512 38.462 0.00 0.00 33.18 2.69
2195 2879 4.449743 CGATTTTAGACGTGAAAAGGGTCA 59.550 41.667 0.00 0.00 33.18 4.02
2200 2884 8.221100 TCAAATCTCGATTTTAGACGTGAAAAG 58.779 33.333 0.00 0.00 38.84 2.27
2202 2886 7.359765 GGTCAAATCTCGATTTTAGACGTGAAA 60.360 37.037 0.00 0.00 38.84 2.69
2203 2887 6.090358 GGTCAAATCTCGATTTTAGACGTGAA 59.910 38.462 0.00 0.00 38.84 3.18
2204 2888 5.575606 GGTCAAATCTCGATTTTAGACGTGA 59.424 40.000 0.00 0.00 38.84 4.35
2205 2889 5.220416 GGGTCAAATCTCGATTTTAGACGTG 60.220 44.000 0.00 0.00 38.84 4.49
2208 2892 4.270325 CGGGGTCAAATCTCGATTTTAGAC 59.730 45.833 11.46 11.46 38.84 2.59
2209 2893 4.439057 CGGGGTCAAATCTCGATTTTAGA 58.561 43.478 2.28 0.00 38.84 2.10
2211 2895 3.054948 ACCGGGGTCAAATCTCGATTTTA 60.055 43.478 6.32 0.00 38.84 1.52
2214 2898 0.909623 ACCGGGGTCAAATCTCGATT 59.090 50.000 6.32 0.00 0.00 3.34
2220 2904 8.780846 AAATAATTTTAAACCGGGGTCAAATC 57.219 30.769 6.32 0.00 0.00 2.17
2221 2905 7.546316 CGAAATAATTTTAAACCGGGGTCAAAT 59.454 33.333 6.32 2.10 0.00 2.32
2222 2906 6.867293 CGAAATAATTTTAAACCGGGGTCAAA 59.133 34.615 6.32 0.00 0.00 2.69
2223 2907 6.208204 TCGAAATAATTTTAAACCGGGGTCAA 59.792 34.615 6.32 0.00 0.00 3.18
2224 2908 5.709164 TCGAAATAATTTTAAACCGGGGTCA 59.291 36.000 6.32 0.00 0.00 4.02
2225 2909 6.029607 GTCGAAATAATTTTAAACCGGGGTC 58.970 40.000 6.32 0.00 0.00 4.46
2226 2910 5.476254 TGTCGAAATAATTTTAAACCGGGGT 59.524 36.000 6.32 0.00 0.00 4.95
2227 2911 5.952033 TGTCGAAATAATTTTAAACCGGGG 58.048 37.500 6.32 0.00 0.00 5.73
2240 2924 7.121168 AGCTGAAAGGATCAAATGTCGAAATAA 59.879 33.333 0.00 0.00 37.67 1.40
2242 2926 5.416952 AGCTGAAAGGATCAAATGTCGAAAT 59.583 36.000 0.00 0.00 37.67 2.17
2243 2927 4.761739 AGCTGAAAGGATCAAATGTCGAAA 59.238 37.500 0.00 0.00 37.67 3.46
2244 2928 4.326826 AGCTGAAAGGATCAAATGTCGAA 58.673 39.130 0.00 0.00 37.67 3.71
2245 2929 3.942829 AGCTGAAAGGATCAAATGTCGA 58.057 40.909 0.00 0.00 37.67 4.20
2247 2931 4.034510 CGGTAGCTGAAAGGATCAAATGTC 59.965 45.833 0.00 0.00 37.67 3.06
2248 2932 3.941483 CGGTAGCTGAAAGGATCAAATGT 59.059 43.478 0.00 0.00 37.67 2.71
2279 3014 0.171679 TGTACACATCTACCGCCACG 59.828 55.000 0.00 0.00 0.00 4.94
2280 3015 1.470979 CCTGTACACATCTACCGCCAC 60.471 57.143 0.00 0.00 0.00 5.01
2281 3016 0.821517 CCTGTACACATCTACCGCCA 59.178 55.000 0.00 0.00 0.00 5.69
2284 3019 2.034305 GGTAGCCTGTACACATCTACCG 59.966 54.545 19.44 0.00 39.66 4.02
2286 3021 4.341235 TGATGGTAGCCTGTACACATCTAC 59.659 45.833 17.68 15.07 36.56 2.59
2287 3022 4.542697 TGATGGTAGCCTGTACACATCTA 58.457 43.478 17.68 6.65 36.56 1.98
2288 3023 3.374764 TGATGGTAGCCTGTACACATCT 58.625 45.455 17.68 7.43 36.56 2.90
2290 3025 4.410228 AGAATGATGGTAGCCTGTACACAT 59.590 41.667 0.00 0.00 0.00 3.21
2291 3026 3.774766 AGAATGATGGTAGCCTGTACACA 59.225 43.478 0.00 0.00 0.00 3.72
2292 3027 4.408182 AGAATGATGGTAGCCTGTACAC 57.592 45.455 0.00 0.00 0.00 2.90
2293 3028 4.037565 CGTAGAATGATGGTAGCCTGTACA 59.962 45.833 0.00 0.00 0.00 2.90
2295 3030 4.037565 CACGTAGAATGATGGTAGCCTGTA 59.962 45.833 0.00 0.00 0.00 2.74
2296 3031 3.031736 ACGTAGAATGATGGTAGCCTGT 58.968 45.455 0.00 0.00 0.00 4.00
2297 3032 3.384668 CACGTAGAATGATGGTAGCCTG 58.615 50.000 0.00 0.00 0.00 4.85
2298 3033 2.365617 CCACGTAGAATGATGGTAGCCT 59.634 50.000 0.00 0.00 0.00 4.58
2299 3034 2.364324 TCCACGTAGAATGATGGTAGCC 59.636 50.000 0.00 0.00 33.67 3.93
2300 3035 3.728076 TCCACGTAGAATGATGGTAGC 57.272 47.619 0.00 0.00 33.67 3.58
2301 3036 6.978343 TTTTTCCACGTAGAATGATGGTAG 57.022 37.500 0.00 0.00 33.67 3.18
2321 3056 9.337396 GAATTCAGGGTTTAAATTGGACTTTTT 57.663 29.630 0.00 0.00 0.00 1.94
2322 3057 7.655732 CGAATTCAGGGTTTAAATTGGACTTTT 59.344 33.333 6.22 0.00 0.00 2.27
2324 3059 6.266786 ACGAATTCAGGGTTTAAATTGGACTT 59.733 34.615 6.22 0.00 0.00 3.01
2325 3060 5.773176 ACGAATTCAGGGTTTAAATTGGACT 59.227 36.000 6.22 0.00 0.00 3.85
2326 3061 6.020971 ACGAATTCAGGGTTTAAATTGGAC 57.979 37.500 6.22 0.00 0.00 4.02
2327 3062 7.169591 TCTACGAATTCAGGGTTTAAATTGGA 58.830 34.615 6.22 0.00 0.00 3.53
2329 3064 7.120726 ACCTCTACGAATTCAGGGTTTAAATTG 59.879 37.037 12.75 0.00 0.00 2.32
2332 3067 6.117975 ACCTCTACGAATTCAGGGTTTAAA 57.882 37.500 12.75 0.00 0.00 1.52
2333 3068 5.750352 ACCTCTACGAATTCAGGGTTTAA 57.250 39.130 12.75 0.00 0.00 1.52
2334 3069 5.750352 AACCTCTACGAATTCAGGGTTTA 57.250 39.130 12.75 0.00 32.55 2.01
2335 3070 4.635699 AACCTCTACGAATTCAGGGTTT 57.364 40.909 12.75 0.00 32.55 3.27
2337 3072 3.705072 CCTAACCTCTACGAATTCAGGGT 59.295 47.826 12.75 9.32 0.00 4.34
2338 3073 3.492829 GCCTAACCTCTACGAATTCAGGG 60.493 52.174 12.75 0.80 0.00 4.45
2340 3075 3.066342 TCGCCTAACCTCTACGAATTCAG 59.934 47.826 6.22 1.11 0.00 3.02
2341 3076 3.018856 TCGCCTAACCTCTACGAATTCA 58.981 45.455 6.22 0.00 0.00 2.57
2342 3077 3.705043 TCGCCTAACCTCTACGAATTC 57.295 47.619 0.00 0.00 0.00 2.17
2343 3078 4.460948 TTTCGCCTAACCTCTACGAATT 57.539 40.909 0.00 0.00 41.75 2.17
2344 3079 4.098960 TCATTTCGCCTAACCTCTACGAAT 59.901 41.667 0.00 0.00 41.75 3.34
2345 3080 3.444742 TCATTTCGCCTAACCTCTACGAA 59.555 43.478 0.00 0.00 40.61 3.85
2346 3081 3.018856 TCATTTCGCCTAACCTCTACGA 58.981 45.455 0.00 0.00 0.00 3.43
2347 3082 3.431922 TCATTTCGCCTAACCTCTACG 57.568 47.619 0.00 0.00 0.00 3.51
2348 3083 3.869832 GGTTCATTTCGCCTAACCTCTAC 59.130 47.826 0.00 0.00 38.66 2.59
2349 3084 3.118519 GGGTTCATTTCGCCTAACCTCTA 60.119 47.826 0.00 0.00 40.98 2.43
2351 3086 2.014857 GGGTTCATTTCGCCTAACCTC 58.985 52.381 0.00 0.00 40.98 3.85
2352 3087 1.633945 AGGGTTCATTTCGCCTAACCT 59.366 47.619 0.00 0.00 40.98 3.50
2353 3088 2.014857 GAGGGTTCATTTCGCCTAACC 58.985 52.381 0.00 0.00 40.56 2.85
2355 3090 2.039216 TGTGAGGGTTCATTTCGCCTAA 59.961 45.455 0.00 0.00 35.39 2.69
2357 3092 0.400213 TGTGAGGGTTCATTTCGCCT 59.600 50.000 0.00 0.00 35.39 5.52
2358 3093 1.401905 GATGTGAGGGTTCATTTCGCC 59.598 52.381 0.00 0.00 35.39 5.54
2359 3094 1.062587 CGATGTGAGGGTTCATTTCGC 59.937 52.381 0.00 0.00 35.37 4.70
2360 3095 2.616960 TCGATGTGAGGGTTCATTTCG 58.383 47.619 6.02 6.02 39.71 3.46
2361 3096 5.449177 GGATTTCGATGTGAGGGTTCATTTC 60.449 44.000 0.00 0.00 35.39 2.17
2362 3097 4.399303 GGATTTCGATGTGAGGGTTCATTT 59.601 41.667 0.00 0.00 35.39 2.32
2363 3098 3.947834 GGATTTCGATGTGAGGGTTCATT 59.052 43.478 0.00 0.00 35.39 2.57
2364 3099 3.545703 GGATTTCGATGTGAGGGTTCAT 58.454 45.455 0.00 0.00 35.39 2.57
2365 3100 2.355716 GGGATTTCGATGTGAGGGTTCA 60.356 50.000 0.00 0.00 0.00 3.18
2366 3101 2.092914 AGGGATTTCGATGTGAGGGTTC 60.093 50.000 0.00 0.00 0.00 3.62
2367 3102 1.916181 AGGGATTTCGATGTGAGGGTT 59.084 47.619 0.00 0.00 0.00 4.11
2368 3103 1.210478 CAGGGATTTCGATGTGAGGGT 59.790 52.381 0.00 0.00 0.00 4.34
2369 3104 1.210478 ACAGGGATTTCGATGTGAGGG 59.790 52.381 0.00 0.00 0.00 4.30
2374 3252 2.742053 CAAACGACAGGGATTTCGATGT 59.258 45.455 0.00 0.00 38.63 3.06
2380 3258 0.958822 GGTGCAAACGACAGGGATTT 59.041 50.000 0.00 0.00 0.00 2.17
2381 3259 0.893727 GGGTGCAAACGACAGGGATT 60.894 55.000 0.00 0.00 0.00 3.01
2386 3264 0.307760 GTTCAGGGTGCAAACGACAG 59.692 55.000 0.00 0.00 0.00 3.51
2387 3265 0.107410 AGTTCAGGGTGCAAACGACA 60.107 50.000 0.00 0.00 0.00 4.35
2393 3271 4.523083 GGATTGTATAGTTCAGGGTGCAA 58.477 43.478 0.00 0.00 0.00 4.08
2394 3272 3.118038 GGGATTGTATAGTTCAGGGTGCA 60.118 47.826 0.00 0.00 0.00 4.57
2395 3273 3.477530 GGGATTGTATAGTTCAGGGTGC 58.522 50.000 0.00 0.00 0.00 5.01
2396 3274 3.494398 CCGGGATTGTATAGTTCAGGGTG 60.494 52.174 0.00 0.00 0.00 4.61
2397 3275 2.704065 CCGGGATTGTATAGTTCAGGGT 59.296 50.000 0.00 0.00 0.00 4.34
2398 3276 2.704065 ACCGGGATTGTATAGTTCAGGG 59.296 50.000 6.32 0.00 0.00 4.45
2400 3278 4.939052 AGACCGGGATTGTATAGTTCAG 57.061 45.455 6.32 0.00 0.00 3.02
2402 3280 7.929785 TCATTTTAGACCGGGATTGTATAGTTC 59.070 37.037 6.32 0.00 0.00 3.01
2403 3281 7.798071 TCATTTTAGACCGGGATTGTATAGTT 58.202 34.615 6.32 0.00 0.00 2.24
2404 3282 7.369551 TCATTTTAGACCGGGATTGTATAGT 57.630 36.000 6.32 0.00 0.00 2.12
2405 3283 7.172703 GGTTCATTTTAGACCGGGATTGTATAG 59.827 40.741 6.32 0.00 0.00 1.31
2406 3284 6.993902 GGTTCATTTTAGACCGGGATTGTATA 59.006 38.462 6.32 0.00 0.00 1.47
2407 3285 5.826208 GGTTCATTTTAGACCGGGATTGTAT 59.174 40.000 6.32 0.00 0.00 2.29
2408 3286 5.187687 GGTTCATTTTAGACCGGGATTGTA 58.812 41.667 6.32 0.00 0.00 2.41
2409 3287 4.014406 GGTTCATTTTAGACCGGGATTGT 58.986 43.478 6.32 0.00 0.00 2.71
2411 3289 3.268595 AGGGTTCATTTTAGACCGGGATT 59.731 43.478 6.32 0.00 0.00 3.01
2412 3290 2.850568 AGGGTTCATTTTAGACCGGGAT 59.149 45.455 6.32 0.00 0.00 3.85
2413 3291 2.271777 AGGGTTCATTTTAGACCGGGA 58.728 47.619 6.32 0.00 0.00 5.14
2415 3293 3.433173 CCCTAGGGTTCATTTTAGACCGG 60.433 52.174 20.88 0.00 0.00 5.28
2434 3312 1.227734 CGGTGTTCCAAACGACCCT 60.228 57.895 0.00 0.00 32.46 4.34
2435 3313 2.255881 CCGGTGTTCCAAACGACCC 61.256 63.158 0.00 0.00 32.46 4.46
2436 3314 2.255881 CCCGGTGTTCCAAACGACC 61.256 63.158 0.00 0.00 32.65 4.79
2437 3315 0.604511 ATCCCGGTGTTCCAAACGAC 60.605 55.000 0.00 0.00 0.00 4.34
2438 3316 0.108963 AATCCCGGTGTTCCAAACGA 59.891 50.000 0.00 0.00 0.00 3.85
2441 3319 2.372504 TCTGTAATCCCGGTGTTCCAAA 59.627 45.455 0.00 0.00 0.00 3.28
2442 3320 1.979308 TCTGTAATCCCGGTGTTCCAA 59.021 47.619 0.00 0.00 0.00 3.53
2443 3321 1.276989 GTCTGTAATCCCGGTGTTCCA 59.723 52.381 0.00 0.00 0.00 3.53
2444 3322 1.738030 CGTCTGTAATCCCGGTGTTCC 60.738 57.143 0.00 0.00 0.00 3.62
2446 3324 0.971386 ACGTCTGTAATCCCGGTGTT 59.029 50.000 0.00 0.00 0.00 3.32
2447 3325 0.245539 CACGTCTGTAATCCCGGTGT 59.754 55.000 0.00 0.00 0.00 4.16
2448 3326 0.459585 CCACGTCTGTAATCCCGGTG 60.460 60.000 0.00 0.00 0.00 4.94
2449 3327 1.895238 CCACGTCTGTAATCCCGGT 59.105 57.895 0.00 0.00 0.00 5.28
2451 3329 1.520787 GGCCACGTCTGTAATCCCG 60.521 63.158 0.00 0.00 0.00 5.14
2452 3330 0.462047 CAGGCCACGTCTGTAATCCC 60.462 60.000 5.01 0.00 29.72 3.85
2453 3331 0.462047 CCAGGCCACGTCTGTAATCC 60.462 60.000 5.01 0.00 32.80 3.01
2455 3333 1.204146 ATCCAGGCCACGTCTGTAAT 58.796 50.000 5.01 0.00 32.80 1.89
2456 3334 0.981183 AATCCAGGCCACGTCTGTAA 59.019 50.000 5.01 0.00 32.80 2.41
2457 3335 0.249120 CAATCCAGGCCACGTCTGTA 59.751 55.000 5.01 0.00 32.80 2.74
2458 3336 1.003355 CAATCCAGGCCACGTCTGT 60.003 57.895 5.01 0.00 32.80 3.41
2459 3337 1.746615 CCAATCCAGGCCACGTCTG 60.747 63.158 5.01 0.00 34.71 3.51
2460 3338 2.185310 GACCAATCCAGGCCACGTCT 62.185 60.000 5.01 0.00 0.00 4.18
2461 3339 1.745489 GACCAATCCAGGCCACGTC 60.745 63.158 5.01 0.00 0.00 4.34
2463 3341 2.819595 CGACCAATCCAGGCCACG 60.820 66.667 5.01 0.00 0.00 4.94
2465 3343 4.776322 CGCGACCAATCCAGGCCA 62.776 66.667 5.01 0.00 0.00 5.36
2491 3369 3.021451 CTGGGCTCGTCCAGTTTTT 57.979 52.632 9.38 0.00 46.89 1.94
2492 3370 4.800554 CTGGGCTCGTCCAGTTTT 57.199 55.556 9.38 0.00 46.89 2.43
2497 3375 2.052690 GCTAGACTGGGCTCGTCCA 61.053 63.158 0.00 0.00 36.21 4.02
2499 3377 2.787567 GGGCTAGACTGGGCTCGTC 61.788 68.421 12.19 0.96 0.00 4.20
2500 3378 2.760385 GGGCTAGACTGGGCTCGT 60.760 66.667 12.19 0.00 0.00 4.18
2503 3381 3.086600 GCTGGGCTAGACTGGGCT 61.087 66.667 12.19 0.00 0.00 5.19
2505 3383 4.537433 GCGCTGGGCTAGACTGGG 62.537 72.222 9.69 0.00 39.11 4.45
2506 3384 4.880537 CGCGCTGGGCTAGACTGG 62.881 72.222 14.94 0.00 40.44 4.00
2531 3409 1.287730 GCCTCACAGACTGCACGAAG 61.288 60.000 1.25 0.00 0.00 3.79
2532 3410 1.300931 GCCTCACAGACTGCACGAA 60.301 57.895 1.25 0.00 0.00 3.85
2533 3411 2.340078 GCCTCACAGACTGCACGA 59.660 61.111 1.25 0.00 0.00 4.35
2534 3412 2.740055 GGCCTCACAGACTGCACG 60.740 66.667 1.25 0.00 0.00 5.34
2535 3413 2.359230 GGGCCTCACAGACTGCAC 60.359 66.667 0.84 0.00 0.00 4.57
2537 3415 2.046507 CTGGGCCTCACAGACTGC 60.047 66.667 4.53 0.00 38.20 4.40
2538 3416 2.046507 GCTGGGCCTCACAGACTG 60.047 66.667 11.30 0.00 38.20 3.51
2539 3417 3.699894 CGCTGGGCCTCACAGACT 61.700 66.667 11.30 0.00 38.20 3.24
2540 3418 3.695606 TCGCTGGGCCTCACAGAC 61.696 66.667 11.30 2.63 38.20 3.51
2541 3419 3.695606 GTCGCTGGGCCTCACAGA 61.696 66.667 11.30 1.70 38.20 3.41
2543 3421 1.987306 TATGTCGCTGGGCCTCACA 60.987 57.895 4.53 2.31 0.00 3.58
2545 3423 2.900273 GTATGTCGCTGGGCCTCA 59.100 61.111 4.53 0.00 0.00 3.86
2548 3426 3.792053 CTCCGTATGTCGCTGGGCC 62.792 68.421 0.00 0.00 38.35 5.80
2557 3670 1.271379 TCTTGTGCGTTCTCCGTATGT 59.729 47.619 0.00 0.00 39.32 2.29
2561 3674 1.658994 TTTTCTTGTGCGTTCTCCGT 58.341 45.000 0.00 0.00 39.32 4.69


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

AutoCloner maintained by Alex Coulton.