Multiple sequence alignment - TraesCS3D01G539800

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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 TraesCS3D01G539800 chr3D 100.000 2336 0 0 1 2336 611526740 611529075 0.000000e+00 4314.0
1 TraesCS3D01G539800 chr3D 87.071 379 35 11 971 1336 611693958 611693581 1.290000e-112 416.0
2 TraesCS3D01G539800 chr3A 86.812 781 58 28 90 863 746296748 746297490 0.000000e+00 830.0
3 TraesCS3D01G539800 chr3A 83.768 690 62 19 994 1665 746297590 746298247 1.980000e-170 608.0
4 TraesCS3D01G539800 chr3A 89.163 203 19 1 1979 2181 746298990 746299189 1.390000e-62 250.0
5 TraesCS3D01G539800 chr3A 87.234 141 9 3 1659 1799 746298274 746298405 4.020000e-33 152.0
6 TraesCS3D01G539800 chr3A 83.178 107 11 4 1803 1909 746298826 746298925 8.890000e-15 91.6
7 TraesCS3D01G539800 chr3B 85.806 782 48 19 918 1665 829246543 829247295 0.000000e+00 771.0
8 TraesCS3D01G539800 chr3B 90.054 553 32 8 1659 2209 829247322 829247853 0.000000e+00 695.0
9 TraesCS3D01G539800 chr3B 89.106 358 28 9 390 737 829246042 829246398 3.560000e-118 435.0
10 TraesCS3D01G539800 chr3B 88.608 316 23 7 1 315 829245742 829246045 2.830000e-99 372.0
11 TraesCS3D01G539800 chr4A 86.022 93 13 0 2208 2300 575713597 575713505 1.480000e-17 100.0
12 TraesCS3D01G539800 chr1A 86.022 93 13 0 2208 2300 139903901 139903809 1.480000e-17 100.0
13 TraesCS3D01G539800 chr6D 85.556 90 13 0 2208 2297 292712275 292712364 6.870000e-16 95.3
14 TraesCS3D01G539800 chr5B 81.373 102 15 4 2208 2307 282621217 282621118 1.920000e-11 80.5


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 TraesCS3D01G539800 chr3D 611526740 611529075 2335 False 4314.00 4314 100.0000 1 2336 1 chr3D.!!$F1 2335
1 TraesCS3D01G539800 chr3A 746296748 746299189 2441 False 386.32 830 86.0310 90 2181 5 chr3A.!!$F1 2091
2 TraesCS3D01G539800 chr3B 829245742 829247853 2111 False 568.25 771 88.3935 1 2209 4 chr3B.!!$F1 2208

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
883 897 0.029035 ACACGTAGCGAGCGGAATAG 59.971 55.0 0.0 0.0 0.0 1.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2307 2852 0.036577 CAGGACTGTGAAGGAGGCTG 60.037 60.0 0.0 0.0 0.0 4.85 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
51 52 2.032178 GGCGCTCAATGAATAGGAACAC 59.968 50.000 7.64 0.00 0.00 3.32
52 53 2.677836 GCGCTCAATGAATAGGAACACA 59.322 45.455 0.00 0.00 0.00 3.72
61 62 3.684305 TGAATAGGAACACATTGCGTCTG 59.316 43.478 0.00 0.00 0.00 3.51
62 63 1.438651 TAGGAACACATTGCGTCTGC 58.561 50.000 0.00 0.00 43.20 4.26
81 82 0.985549 CAAGTAGTTGACGCTCGAGC 59.014 55.000 27.64 27.64 35.46 5.03
84 85 1.202582 AGTAGTTGACGCTCGAGCAAT 59.797 47.619 34.69 23.30 42.21 3.56
85 86 2.422479 AGTAGTTGACGCTCGAGCAATA 59.578 45.455 34.69 17.23 42.21 1.90
107 108 1.195448 GATCACATTTCGGCCATAGCG 59.805 52.381 2.24 0.00 41.24 4.26
167 168 2.098831 GTCGTGAGTTTAGGCCGGC 61.099 63.158 21.18 21.18 0.00 6.13
375 379 2.057316 TGTTCGCGCATTTGGAAAATG 58.943 42.857 8.75 8.09 0.00 2.32
377 381 1.975837 TCGCGCATTTGGAAAATGTC 58.024 45.000 8.75 6.04 0.00 3.06
390 394 6.477053 TGGAAAATGTCTGTGATTCCAAAA 57.523 33.333 3.21 0.00 44.75 2.44
620 630 6.680810 TGTAAGAAATGTTCCTGATTGCAAG 58.319 36.000 4.94 0.00 0.00 4.01
863 877 2.124487 CTATTGGGCCGGCCGAAA 60.124 61.111 41.13 34.48 37.36 3.46
866 880 2.766306 TATTGGGCCGGCCGAAAACA 62.766 55.000 41.13 29.18 37.36 2.83
870 884 3.043121 GCCGGCCGAAAACACGTA 61.043 61.111 30.73 0.00 0.00 3.57
872 886 2.472934 CGGCCGAAAACACGTAGC 59.527 61.111 24.07 0.00 0.00 3.58
873 887 2.472934 GGCCGAAAACACGTAGCG 59.527 61.111 0.00 0.00 0.00 4.26
874 888 2.023223 GGCCGAAAACACGTAGCGA 61.023 57.895 0.00 0.00 0.00 4.93
875 889 1.414897 GCCGAAAACACGTAGCGAG 59.585 57.895 0.00 0.00 0.00 5.03
876 890 1.414897 CCGAAAACACGTAGCGAGC 59.585 57.895 0.00 0.00 0.00 5.03
877 891 1.055235 CGAAAACACGTAGCGAGCG 59.945 57.895 0.00 0.00 0.00 5.03
880 894 0.598158 AAAACACGTAGCGAGCGGAA 60.598 50.000 0.00 0.00 0.00 4.30
881 895 0.389426 AAACACGTAGCGAGCGGAAT 60.389 50.000 0.00 0.00 0.00 3.01
882 896 0.452987 AACACGTAGCGAGCGGAATA 59.547 50.000 0.00 0.00 0.00 1.75
883 897 0.029035 ACACGTAGCGAGCGGAATAG 59.971 55.000 0.00 0.00 0.00 1.73
887 901 1.663445 CGTAGCGAGCGGAATAGAAGG 60.663 57.143 0.00 0.00 0.00 3.46
889 903 0.103208 AGCGAGCGGAATAGAAGGTG 59.897 55.000 0.00 0.00 0.00 4.00
890 904 0.876342 GCGAGCGGAATAGAAGGTGG 60.876 60.000 0.00 0.00 0.00 4.61
891 905 0.249489 CGAGCGGAATAGAAGGTGGG 60.249 60.000 0.00 0.00 0.00 4.61
892 906 0.831307 GAGCGGAATAGAAGGTGGGT 59.169 55.000 0.00 0.00 0.00 4.51
893 907 1.209747 GAGCGGAATAGAAGGTGGGTT 59.790 52.381 0.00 0.00 0.00 4.11
896 910 2.742204 GCGGAATAGAAGGTGGGTTCTC 60.742 54.545 0.00 0.00 37.89 2.87
899 913 4.034410 GGAATAGAAGGTGGGTTCTCTCT 58.966 47.826 0.00 0.00 37.89 3.10
900 914 5.209659 GGAATAGAAGGTGGGTTCTCTCTA 58.790 45.833 0.00 0.00 37.89 2.43
903 917 2.384029 AGAAGGTGGGTTCTCTCTACCT 59.616 50.000 0.00 0.00 43.27 3.08
965 991 4.779733 GAGGTGGGAGGCCGGAGA 62.780 72.222 5.05 0.00 0.00 3.71
981 1007 1.107945 GAGACGGAGAGGGGAAAGAG 58.892 60.000 0.00 0.00 0.00 2.85
984 1010 0.973496 ACGGAGAGGGGAAAGAGAGC 60.973 60.000 0.00 0.00 0.00 4.09
1137 1176 1.134159 CCCCTCTGCTCCAGAAATCAG 60.134 57.143 0.00 0.00 40.18 2.90
1157 1196 3.612860 CAGTCAAGACGGGATCTTTAACG 59.387 47.826 0.00 0.00 46.05 3.18
1233 1272 0.035458 AGGACGCCTTCAAGGACAAG 59.965 55.000 7.98 0.00 37.67 3.16
1266 1311 1.943730 AAGCCCCCAACAAGGTCACA 61.944 55.000 0.00 0.00 34.66 3.58
1273 1318 1.233019 CAACAAGGTCACAGAGCAGG 58.767 55.000 0.00 0.00 31.89 4.85
1274 1319 0.109342 AACAAGGTCACAGAGCAGGG 59.891 55.000 0.00 0.00 31.89 4.45
1339 1395 3.011119 GACGCCGAGATCAGATAGGTAT 58.989 50.000 0.00 0.00 0.00 2.73
1359 1424 5.654650 GGTATCTGGGTAGATGGATGAGTAG 59.345 48.000 0.00 0.00 43.41 2.57
1384 1449 5.593786 AGATCCCTCTTTTATTTTGCCCTT 58.406 37.500 0.00 0.00 0.00 3.95
1392 1457 7.936847 CCTCTTTTATTTTGCCCTTTTTACCTT 59.063 33.333 0.00 0.00 0.00 3.50
1399 1464 1.820483 GCCCTTTTTACCTTGACCGGT 60.820 52.381 6.92 6.92 41.10 5.28
1400 1465 2.156917 CCCTTTTTACCTTGACCGGTC 58.843 52.381 28.17 28.17 38.49 4.79
1414 1479 4.530857 GGTCGATCACCAGGGGCG 62.531 72.222 8.84 0.00 45.98 6.13
1523 1589 4.873259 GTCTCTCTGAAGGTAGGAAATTGC 59.127 45.833 0.00 0.00 0.00 3.56
1524 1590 4.780021 TCTCTCTGAAGGTAGGAAATTGCT 59.220 41.667 0.00 0.00 0.00 3.91
1525 1591 4.836825 TCTCTGAAGGTAGGAAATTGCTG 58.163 43.478 0.00 0.00 0.00 4.41
1608 1683 1.989620 AGCTGCTCTGCTTTAGCCT 59.010 52.632 0.00 0.00 40.93 4.58
1621 1696 3.243334 GCTTTAGCCTCCTCATTGAATGC 60.243 47.826 0.00 0.00 34.31 3.56
1625 1701 1.409241 GCCTCCTCATTGAATGCTGGA 60.409 52.381 15.25 15.25 33.73 3.86
1657 1733 4.640201 TCTGTTTGGTTTTCCTGTCTGAAG 59.360 41.667 0.00 0.00 41.38 3.02
1687 1796 7.506328 AATCTGGGAGTGTTTGTTTTACTAC 57.494 36.000 0.00 0.00 0.00 2.73
1688 1797 6.243216 TCTGGGAGTGTTTGTTTTACTACT 57.757 37.500 0.00 0.00 0.00 2.57
1689 1798 6.285990 TCTGGGAGTGTTTGTTTTACTACTC 58.714 40.000 0.00 0.00 35.13 2.59
1690 1799 5.051816 TGGGAGTGTTTGTTTTACTACTCG 58.948 41.667 0.00 0.00 36.35 4.18
1691 1800 5.052481 GGGAGTGTTTGTTTTACTACTCGT 58.948 41.667 0.00 0.00 36.35 4.18
1692 1801 6.183360 TGGGAGTGTTTGTTTTACTACTCGTA 60.183 38.462 0.00 0.00 36.35 3.43
1693 1802 6.701400 GGGAGTGTTTGTTTTACTACTCGTAA 59.299 38.462 0.00 0.00 36.35 3.18
1733 1842 4.157840 GTGACCAGATTAACCATCCCAAAC 59.842 45.833 0.00 0.00 31.20 2.93
1734 1843 3.699538 GACCAGATTAACCATCCCAAACC 59.300 47.826 0.00 0.00 31.20 3.27
1735 1844 3.031013 CCAGATTAACCATCCCAAACCC 58.969 50.000 0.00 0.00 31.20 4.11
1741 1850 0.471022 ACCATCCCAAACCCGCTTTT 60.471 50.000 0.00 0.00 0.00 2.27
1751 1860 2.049435 CCCGCTTTTCTTGGGCTTT 58.951 52.632 0.00 0.00 35.82 3.51
1757 1866 3.305608 CGCTTTTCTTGGGCTTTCTTCAT 60.306 43.478 0.00 0.00 0.00 2.57
1801 1910 0.530288 GCCTCACTCACTCACTCTCC 59.470 60.000 0.00 0.00 0.00 3.71
1808 2334 0.676184 TCACTCACTCTCCACTGCAC 59.324 55.000 0.00 0.00 0.00 4.57
1816 2342 2.636893 ACTCTCCACTGCACTTTCTGAT 59.363 45.455 0.00 0.00 0.00 2.90
1983 2526 1.696832 GCGTAAGTAGCACTGCCAGC 61.697 60.000 0.00 0.00 41.68 4.85
2037 2580 0.320421 TGTTAGACTGCGGCTGTTCC 60.320 55.000 13.85 2.52 0.00 3.62
2058 2601 3.132289 CCTCACGACTAATTAGGGCTTCA 59.868 47.826 16.73 0.00 0.00 3.02
2066 2609 4.597940 ACTAATTAGGGCTTCACCTATCCC 59.402 45.833 16.73 0.00 42.45 3.85
2095 2638 9.252962 GAACATTGAATTATCATCATCCCAAAC 57.747 33.333 0.00 0.00 34.96 2.93
2103 2646 1.135024 CATCATCCCAAACCCGCTTTG 60.135 52.381 0.00 0.00 39.31 2.77
2167 2712 2.237143 TGTCCCACTCACTGAATGGATC 59.763 50.000 8.15 1.77 35.33 3.36
2169 2714 1.208052 CCCACTCACTGAATGGATCGT 59.792 52.381 8.15 0.00 35.33 3.73
2173 2718 4.747108 CCACTCACTGAATGGATCGTAATC 59.253 45.833 0.00 0.00 35.33 1.75
2181 2726 7.706607 CACTGAATGGATCGTAATCTCTGTTTA 59.293 37.037 0.00 0.00 32.12 2.01
2200 2745 9.151471 TCTGTTTAGTTTCCTTATCTGAATTCG 57.849 33.333 0.04 0.00 0.00 3.34
2204 2749 5.675538 AGTTTCCTTATCTGAATTCGGAGG 58.324 41.667 21.13 16.63 34.27 4.30
2209 2754 4.384056 CTTATCTGAATTCGGAGGTGCAT 58.616 43.478 21.13 7.03 34.27 3.96
2210 2755 2.787473 TCTGAATTCGGAGGTGCATT 57.213 45.000 13.13 0.00 0.00 3.56
2211 2756 2.358957 TCTGAATTCGGAGGTGCATTG 58.641 47.619 13.13 0.00 0.00 2.82
2212 2757 2.086869 CTGAATTCGGAGGTGCATTGT 58.913 47.619 8.73 0.00 0.00 2.71
2213 2758 2.083774 TGAATTCGGAGGTGCATTGTC 58.916 47.619 0.04 0.00 0.00 3.18
2214 2759 2.290260 TGAATTCGGAGGTGCATTGTCT 60.290 45.455 0.04 0.00 0.00 3.41
2215 2760 1.742761 ATTCGGAGGTGCATTGTCTG 58.257 50.000 0.00 0.00 0.00 3.51
2228 2773 3.999769 CATTGTCTGCTCACGATTTCAG 58.000 45.455 0.00 0.00 0.00 3.02
2229 2774 3.385193 TTGTCTGCTCACGATTTCAGA 57.615 42.857 0.00 0.00 33.64 3.27
2230 2775 3.385193 TGTCTGCTCACGATTTCAGAA 57.615 42.857 0.00 0.00 37.33 3.02
2231 2776 3.320626 TGTCTGCTCACGATTTCAGAAG 58.679 45.455 0.00 0.00 37.33 2.85
2232 2777 3.005791 TGTCTGCTCACGATTTCAGAAGA 59.994 43.478 0.00 0.00 37.33 2.87
2233 2778 3.611986 GTCTGCTCACGATTTCAGAAGAG 59.388 47.826 0.00 0.00 37.33 2.85
2234 2779 3.507622 TCTGCTCACGATTTCAGAAGAGA 59.492 43.478 0.00 0.00 33.17 3.10
2235 2780 4.021981 TCTGCTCACGATTTCAGAAGAGAA 60.022 41.667 0.00 0.00 33.17 2.87
2236 2781 4.825422 TGCTCACGATTTCAGAAGAGAAT 58.175 39.130 0.00 0.00 0.00 2.40
2237 2782 4.867047 TGCTCACGATTTCAGAAGAGAATC 59.133 41.667 0.00 0.00 0.00 2.52
2238 2783 4.269844 GCTCACGATTTCAGAAGAGAATCC 59.730 45.833 0.00 0.00 33.66 3.01
2239 2784 4.424626 TCACGATTTCAGAAGAGAATCCG 58.575 43.478 0.00 0.00 33.66 4.18
2240 2785 3.553511 CACGATTTCAGAAGAGAATCCGG 59.446 47.826 0.00 0.00 33.66 5.14
2241 2786 3.126831 CGATTTCAGAAGAGAATCCGGG 58.873 50.000 0.00 0.00 33.66 5.73
2242 2787 3.471680 GATTTCAGAAGAGAATCCGGGG 58.528 50.000 0.00 0.00 33.66 5.73
2243 2788 2.247699 TTCAGAAGAGAATCCGGGGA 57.752 50.000 0.00 0.00 33.66 4.81
2244 2789 1.781786 TCAGAAGAGAATCCGGGGAG 58.218 55.000 0.00 0.00 33.66 4.30
2245 2790 1.007238 TCAGAAGAGAATCCGGGGAGT 59.993 52.381 0.00 0.00 33.66 3.85
2246 2791 1.137872 CAGAAGAGAATCCGGGGAGTG 59.862 57.143 0.00 0.00 33.66 3.51
2247 2792 1.007238 AGAAGAGAATCCGGGGAGTGA 59.993 52.381 0.00 0.00 33.66 3.41
2248 2793 1.831736 GAAGAGAATCCGGGGAGTGAA 59.168 52.381 0.00 0.00 33.66 3.18
2249 2794 2.182516 AGAGAATCCGGGGAGTGAAT 57.817 50.000 0.00 0.00 33.66 2.57
2250 2795 2.482494 AGAGAATCCGGGGAGTGAATT 58.518 47.619 0.00 0.00 33.66 2.17
2251 2796 2.436173 AGAGAATCCGGGGAGTGAATTC 59.564 50.000 0.00 1.17 33.66 2.17
2252 2797 2.436173 GAGAATCCGGGGAGTGAATTCT 59.564 50.000 11.02 11.02 0.00 2.40
2253 2798 2.846827 AGAATCCGGGGAGTGAATTCTT 59.153 45.455 0.00 0.00 0.00 2.52
2254 2799 2.717639 ATCCGGGGAGTGAATTCTTG 57.282 50.000 0.00 0.00 0.00 3.02
2255 2800 1.358152 TCCGGGGAGTGAATTCTTGT 58.642 50.000 0.00 0.00 0.00 3.16
2256 2801 1.003118 TCCGGGGAGTGAATTCTTGTG 59.997 52.381 0.00 0.00 0.00 3.33
2257 2802 1.003118 CCGGGGAGTGAATTCTTGTGA 59.997 52.381 7.05 0.00 0.00 3.58
2258 2803 2.076863 CGGGGAGTGAATTCTTGTGAC 58.923 52.381 7.05 0.00 0.00 3.67
2259 2804 2.437413 GGGGAGTGAATTCTTGTGACC 58.563 52.381 7.05 1.96 0.00 4.02
2260 2805 2.040412 GGGGAGTGAATTCTTGTGACCT 59.960 50.000 7.05 0.00 0.00 3.85
2261 2806 3.077359 GGGAGTGAATTCTTGTGACCTG 58.923 50.000 7.05 0.00 0.00 4.00
2262 2807 3.496870 GGGAGTGAATTCTTGTGACCTGT 60.497 47.826 7.05 0.00 0.00 4.00
2263 2808 4.262894 GGGAGTGAATTCTTGTGACCTGTA 60.263 45.833 7.05 0.00 0.00 2.74
2264 2809 5.305585 GGAGTGAATTCTTGTGACCTGTAA 58.694 41.667 7.05 0.00 0.00 2.41
2265 2810 5.763204 GGAGTGAATTCTTGTGACCTGTAAA 59.237 40.000 7.05 0.00 0.00 2.01
2266 2811 6.262273 GGAGTGAATTCTTGTGACCTGTAAAA 59.738 38.462 7.05 0.00 0.00 1.52
2267 2812 7.201785 GGAGTGAATTCTTGTGACCTGTAAAAA 60.202 37.037 7.05 0.00 0.00 1.94
2268 2813 7.480810 AGTGAATTCTTGTGACCTGTAAAAAC 58.519 34.615 7.05 0.00 0.00 2.43
2269 2814 7.122055 AGTGAATTCTTGTGACCTGTAAAAACA 59.878 33.333 7.05 0.00 0.00 2.83
2270 2815 7.432252 GTGAATTCTTGTGACCTGTAAAAACAG 59.568 37.037 7.05 0.00 37.48 3.16
2271 2816 7.338196 TGAATTCTTGTGACCTGTAAAAACAGA 59.662 33.333 7.05 0.00 39.99 3.41
2272 2817 7.639113 ATTCTTGTGACCTGTAAAAACAGAA 57.361 32.000 7.09 0.00 39.99 3.02
2273 2818 7.455641 TTCTTGTGACCTGTAAAAACAGAAA 57.544 32.000 7.09 0.00 39.99 2.52
2274 2819 6.848451 TCTTGTGACCTGTAAAAACAGAAAC 58.152 36.000 7.09 3.46 39.99 2.78
2275 2820 6.657541 TCTTGTGACCTGTAAAAACAGAAACT 59.342 34.615 7.09 0.00 39.99 2.66
2276 2821 6.827586 TGTGACCTGTAAAAACAGAAACTT 57.172 33.333 7.09 0.00 39.99 2.66
2277 2822 6.848451 TGTGACCTGTAAAAACAGAAACTTC 58.152 36.000 7.09 0.00 39.99 3.01
2278 2823 6.657541 TGTGACCTGTAAAAACAGAAACTTCT 59.342 34.615 7.09 0.00 39.99 2.85
2290 2835 4.487714 AGAAACTTCTGTGGTTCTGTCA 57.512 40.909 0.00 0.00 35.89 3.58
2291 2836 4.192317 AGAAACTTCTGTGGTTCTGTCAC 58.808 43.478 0.00 0.00 35.89 3.67
2292 2837 2.622064 ACTTCTGTGGTTCTGTCACC 57.378 50.000 0.00 0.00 37.34 4.02
2293 2838 1.202533 ACTTCTGTGGTTCTGTCACCG 60.203 52.381 0.00 0.00 40.09 4.94
2294 2839 0.105964 TTCTGTGGTTCTGTCACCGG 59.894 55.000 0.00 0.00 40.09 5.28
2295 2840 0.757561 TCTGTGGTTCTGTCACCGGA 60.758 55.000 9.46 0.00 40.09 5.14
2296 2841 0.321671 CTGTGGTTCTGTCACCGGAT 59.678 55.000 9.46 0.00 40.09 4.18
2297 2842 1.548719 CTGTGGTTCTGTCACCGGATA 59.451 52.381 9.46 0.00 40.09 2.59
2298 2843 1.972075 TGTGGTTCTGTCACCGGATAA 59.028 47.619 9.46 0.00 40.09 1.75
2299 2844 2.369203 TGTGGTTCTGTCACCGGATAAA 59.631 45.455 9.46 0.00 40.09 1.40
2300 2845 3.008594 TGTGGTTCTGTCACCGGATAAAT 59.991 43.478 9.46 0.00 40.09 1.40
2301 2846 3.621715 GTGGTTCTGTCACCGGATAAATC 59.378 47.826 9.46 0.00 40.09 2.17
2302 2847 3.262151 TGGTTCTGTCACCGGATAAATCA 59.738 43.478 9.46 0.00 40.09 2.57
2303 2848 4.080582 TGGTTCTGTCACCGGATAAATCAT 60.081 41.667 9.46 0.00 40.09 2.45
2304 2849 4.881850 GGTTCTGTCACCGGATAAATCATT 59.118 41.667 9.46 0.00 0.00 2.57
2305 2850 6.053005 GGTTCTGTCACCGGATAAATCATTA 58.947 40.000 9.46 0.00 0.00 1.90
2306 2851 6.202954 GGTTCTGTCACCGGATAAATCATTAG 59.797 42.308 9.46 0.00 0.00 1.73
2307 2852 5.297547 TCTGTCACCGGATAAATCATTAGC 58.702 41.667 9.46 0.00 0.00 3.09
2308 2853 5.029807 TGTCACCGGATAAATCATTAGCA 57.970 39.130 9.46 0.00 0.00 3.49
2309 2854 5.056480 TGTCACCGGATAAATCATTAGCAG 58.944 41.667 9.46 0.00 0.00 4.24
2310 2855 4.065088 TCACCGGATAAATCATTAGCAGC 58.935 43.478 9.46 0.00 0.00 5.25
2311 2856 3.189287 CACCGGATAAATCATTAGCAGCC 59.811 47.826 9.46 0.00 0.00 4.85
2312 2857 3.073062 ACCGGATAAATCATTAGCAGCCT 59.927 43.478 9.46 0.00 0.00 4.58
2313 2858 3.686726 CCGGATAAATCATTAGCAGCCTC 59.313 47.826 0.00 0.00 0.00 4.70
2314 2859 3.686726 CGGATAAATCATTAGCAGCCTCC 59.313 47.826 0.00 0.00 0.00 4.30
2315 2860 4.564406 CGGATAAATCATTAGCAGCCTCCT 60.564 45.833 0.00 0.00 0.00 3.69
2316 2861 5.320277 GGATAAATCATTAGCAGCCTCCTT 58.680 41.667 0.00 0.00 0.00 3.36
2317 2862 5.414144 GGATAAATCATTAGCAGCCTCCTTC 59.586 44.000 0.00 0.00 0.00 3.46
2318 2863 3.939740 AATCATTAGCAGCCTCCTTCA 57.060 42.857 0.00 0.00 0.00 3.02
2319 2864 2.698855 TCATTAGCAGCCTCCTTCAC 57.301 50.000 0.00 0.00 0.00 3.18
2320 2865 1.908619 TCATTAGCAGCCTCCTTCACA 59.091 47.619 0.00 0.00 0.00 3.58
2321 2866 2.093288 TCATTAGCAGCCTCCTTCACAG 60.093 50.000 0.00 0.00 0.00 3.66
2322 2867 1.352083 TTAGCAGCCTCCTTCACAGT 58.648 50.000 0.00 0.00 0.00 3.55
2323 2868 0.898320 TAGCAGCCTCCTTCACAGTC 59.102 55.000 0.00 0.00 0.00 3.51
2324 2869 1.376553 GCAGCCTCCTTCACAGTCC 60.377 63.158 0.00 0.00 0.00 3.85
2325 2870 1.835927 GCAGCCTCCTTCACAGTCCT 61.836 60.000 0.00 0.00 0.00 3.85
2326 2871 0.036577 CAGCCTCCTTCACAGTCCTG 60.037 60.000 0.00 0.00 0.00 3.86
2327 2872 1.376553 GCCTCCTTCACAGTCCTGC 60.377 63.158 0.00 0.00 0.00 4.85
2328 2873 1.298014 CCTCCTTCACAGTCCTGCC 59.702 63.158 0.00 0.00 0.00 4.85
2329 2874 1.197430 CCTCCTTCACAGTCCTGCCT 61.197 60.000 0.00 0.00 0.00 4.75
2330 2875 1.561643 CTCCTTCACAGTCCTGCCTA 58.438 55.000 0.00 0.00 0.00 3.93
2331 2876 1.205893 CTCCTTCACAGTCCTGCCTAC 59.794 57.143 0.00 0.00 0.00 3.18
2332 2877 0.250513 CCTTCACAGTCCTGCCTACC 59.749 60.000 0.00 0.00 0.00 3.18
2333 2878 1.270907 CTTCACAGTCCTGCCTACCT 58.729 55.000 0.00 0.00 0.00 3.08
2334 2879 1.205893 CTTCACAGTCCTGCCTACCTC 59.794 57.143 0.00 0.00 0.00 3.85
2335 2880 0.114364 TCACAGTCCTGCCTACCTCA 59.886 55.000 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 5.163723 ACGCAATGTGTTCCTATTCATTGAG 60.164 40.000 17.13 15.98 45.40 3.02
61 62 0.985549 CTCGAGCGTCAACTACTTGC 59.014 55.000 0.00 0.00 0.00 4.01
62 63 0.985549 GCTCGAGCGTCAACTACTTG 59.014 55.000 23.61 0.00 0.00 3.16
66 67 2.223502 CCTATTGCTCGAGCGTCAACTA 60.224 50.000 30.75 10.15 45.83 2.24
73 74 1.269257 TGTGATCCTATTGCTCGAGCG 60.269 52.381 30.75 17.07 45.83 5.03
81 82 3.213506 TGGCCGAAATGTGATCCTATTG 58.786 45.455 0.00 0.00 0.00 1.90
84 85 3.557054 GCTATGGCCGAAATGTGATCCTA 60.557 47.826 0.00 0.00 0.00 2.94
85 86 2.811873 GCTATGGCCGAAATGTGATCCT 60.812 50.000 0.00 0.00 0.00 3.24
156 157 0.394625 TTACATGGGCCGGCCTAAAC 60.395 55.000 42.70 27.49 36.10 2.01
160 161 2.195683 CATTACATGGGCCGGCCT 59.804 61.111 42.70 27.02 36.10 5.19
319 322 9.068008 TCACGAACAACTTTCAAATTTAAGAAC 57.932 29.630 7.54 0.00 0.00 3.01
359 363 1.650153 CAGACATTTTCCAAATGCGCG 59.350 47.619 0.00 0.00 0.00 6.86
361 365 3.899734 TCACAGACATTTTCCAAATGCG 58.100 40.909 8.77 1.99 0.00 4.73
421 427 9.212641 TGAATTCACAAACATTTCTTTGAAACA 57.787 25.926 3.38 0.00 35.46 2.83
559 569 8.749499 CACTTTTTGAAGTCATGAACATTTCTC 58.251 33.333 0.00 0.00 0.00 2.87
620 630 8.973378 TCGTAAATTGTTCATCCAATTCAAAAC 58.027 29.630 0.00 0.00 42.63 2.43
803 816 5.617252 TCGGCCTTTTTCTTTCTTCTCTTA 58.383 37.500 0.00 0.00 0.00 2.10
805 818 4.086706 TCGGCCTTTTTCTTTCTTCTCT 57.913 40.909 0.00 0.00 0.00 3.10
808 821 4.049186 GGTTTCGGCCTTTTTCTTTCTTC 58.951 43.478 0.00 0.00 0.00 2.87
811 824 2.390938 CGGTTTCGGCCTTTTTCTTTC 58.609 47.619 0.00 0.00 0.00 2.62
863 877 0.452987 TATTCCGCTCGCTACGTGTT 59.547 50.000 0.00 0.00 0.00 3.32
866 880 1.002684 CTTCTATTCCGCTCGCTACGT 60.003 52.381 0.00 0.00 0.00 3.57
867 881 1.663445 CCTTCTATTCCGCTCGCTACG 60.663 57.143 0.00 0.00 0.00 3.51
868 882 1.337387 ACCTTCTATTCCGCTCGCTAC 59.663 52.381 0.00 0.00 0.00 3.58
870 884 0.103208 CACCTTCTATTCCGCTCGCT 59.897 55.000 0.00 0.00 0.00 4.93
872 886 0.249489 CCCACCTTCTATTCCGCTCG 60.249 60.000 0.00 0.00 0.00 5.03
873 887 0.831307 ACCCACCTTCTATTCCGCTC 59.169 55.000 0.00 0.00 0.00 5.03
874 888 1.209747 GAACCCACCTTCTATTCCGCT 59.790 52.381 0.00 0.00 0.00 5.52
875 889 1.209747 AGAACCCACCTTCTATTCCGC 59.790 52.381 0.00 0.00 0.00 5.54
876 890 2.766828 AGAGAACCCACCTTCTATTCCG 59.233 50.000 0.00 0.00 30.21 4.30
877 891 4.034410 AGAGAGAACCCACCTTCTATTCC 58.966 47.826 0.00 0.00 30.21 3.01
880 894 4.233287 AGGTAGAGAGAACCCACCTTCTAT 59.767 45.833 0.00 0.00 36.16 1.98
881 895 3.596956 AGGTAGAGAGAACCCACCTTCTA 59.403 47.826 0.00 0.00 36.16 2.10
882 896 2.384029 AGGTAGAGAGAACCCACCTTCT 59.616 50.000 0.00 0.00 36.16 2.85
883 897 2.822697 AGGTAGAGAGAACCCACCTTC 58.177 52.381 0.00 0.00 36.16 3.46
887 901 4.618920 TTTGAAGGTAGAGAGAACCCAC 57.381 45.455 0.00 0.00 37.77 4.61
948 974 4.779733 TCTCCGGCCTCCCACCTC 62.780 72.222 0.00 0.00 0.00 3.85
965 991 0.973496 GCTCTCTTTCCCCTCTCCGT 60.973 60.000 0.00 0.00 0.00 4.69
966 992 1.819905 GCTCTCTTTCCCCTCTCCG 59.180 63.158 0.00 0.00 0.00 4.63
967 993 0.684805 TCGCTCTCTTTCCCCTCTCC 60.685 60.000 0.00 0.00 0.00 3.71
968 994 0.458260 GTCGCTCTCTTTCCCCTCTC 59.542 60.000 0.00 0.00 0.00 3.20
969 995 0.251832 TGTCGCTCTCTTTCCCCTCT 60.252 55.000 0.00 0.00 0.00 3.69
970 996 0.174617 CTGTCGCTCTCTTTCCCCTC 59.825 60.000 0.00 0.00 0.00 4.30
971 997 0.251832 TCTGTCGCTCTCTTTCCCCT 60.252 55.000 0.00 0.00 0.00 4.79
972 998 0.608640 TTCTGTCGCTCTCTTTCCCC 59.391 55.000 0.00 0.00 0.00 4.81
981 1007 2.507324 GTCGCCCTTCTGTCGCTC 60.507 66.667 0.00 0.00 0.00 5.03
984 1010 1.811266 CATGGTCGCCCTTCTGTCG 60.811 63.158 0.00 0.00 0.00 4.35
1077 1113 3.869272 GATGGAACCTGCAGCGCG 61.869 66.667 8.66 0.00 0.00 6.86
1083 1119 1.767681 AGGAGATGAGATGGAACCTGC 59.232 52.381 0.00 0.00 0.00 4.85
1093 1132 2.114616 GGAGCAAGGAAGGAGATGAGA 58.885 52.381 0.00 0.00 0.00 3.27
1137 1176 2.928116 CCGTTAAAGATCCCGTCTTGAC 59.072 50.000 0.00 0.00 46.39 3.18
1339 1395 3.727391 TCCTACTCATCCATCTACCCAGA 59.273 47.826 0.00 0.00 34.56 3.86
1359 1424 4.342378 GGGCAAAATAAAAGAGGGATCTCC 59.658 45.833 0.00 0.00 40.83 3.71
1384 1449 2.299582 TGATCGACCGGTCAAGGTAAAA 59.700 45.455 32.80 7.94 46.09 1.52
1409 1474 2.336809 CAGAGATAGACGCGCCCC 59.663 66.667 5.73 0.00 0.00 5.80
1412 1477 2.470196 TTACACAGAGATAGACGCGC 57.530 50.000 5.73 0.00 0.00 6.86
1413 1478 5.749620 ACTAATTACACAGAGATAGACGCG 58.250 41.667 3.53 3.53 0.00 6.01
1414 1479 7.863666 AGTACTAATTACACAGAGATAGACGC 58.136 38.462 0.00 0.00 32.41 5.19
1523 1589 1.725641 TTAGCCGTGATGAACAGCAG 58.274 50.000 0.00 0.00 0.00 4.24
1524 1590 2.401583 ATTAGCCGTGATGAACAGCA 57.598 45.000 0.00 0.00 0.00 4.41
1525 1591 4.119862 TCTAATTAGCCGTGATGAACAGC 58.880 43.478 7.67 0.00 0.00 4.40
1547 1613 7.108194 TGATGTTCACAAGATTAAGAGATGCT 58.892 34.615 0.00 0.00 0.00 3.79
1608 1683 2.691526 GCAATCCAGCATTCAATGAGGA 59.308 45.455 12.78 12.78 39.31 3.71
1625 1701 4.875536 GGAAAACCAAACAGAAACTGCAAT 59.124 37.500 0.00 0.00 34.37 3.56
1657 1733 4.062991 ACAAACACTCCCAGATTTCGTAC 58.937 43.478 0.00 0.00 0.00 3.67
1687 1796 7.488150 TCACAGATTGCTACTTGTAATTACGAG 59.512 37.037 25.32 25.32 42.25 4.18
1688 1797 7.274904 GTCACAGATTGCTACTTGTAATTACGA 59.725 37.037 10.92 8.18 31.17 3.43
1689 1798 7.391786 GTCACAGATTGCTACTTGTAATTACG 58.608 38.462 10.92 0.41 31.17 3.18
1690 1799 7.333423 TGGTCACAGATTGCTACTTGTAATTAC 59.667 37.037 8.75 8.75 31.17 1.89
1691 1800 7.390823 TGGTCACAGATTGCTACTTGTAATTA 58.609 34.615 0.00 0.00 31.17 1.40
1692 1801 6.237901 TGGTCACAGATTGCTACTTGTAATT 58.762 36.000 0.00 0.00 31.17 1.40
1693 1802 5.804639 TGGTCACAGATTGCTACTTGTAAT 58.195 37.500 0.00 0.00 33.69 1.89
1733 1842 0.038251 GAAAGCCCAAGAAAAGCGGG 60.038 55.000 0.00 0.00 43.42 6.13
1734 1843 0.961753 AGAAAGCCCAAGAAAAGCGG 59.038 50.000 0.00 0.00 0.00 5.52
1735 1844 2.034558 TGAAGAAAGCCCAAGAAAAGCG 59.965 45.455 0.00 0.00 0.00 4.68
1741 1850 4.265073 GCTAAGATGAAGAAAGCCCAAGA 58.735 43.478 0.00 0.00 0.00 3.02
1751 1860 2.322355 GCTGCTGGCTAAGATGAAGA 57.678 50.000 0.00 0.00 38.06 2.87
1801 1910 1.884579 AGCCAATCAGAAAGTGCAGTG 59.115 47.619 0.00 0.00 0.00 3.66
1808 2334 8.048534 TGAGATAAGAAAAGCCAATCAGAAAG 57.951 34.615 0.00 0.00 0.00 2.62
1816 2342 5.044919 TGGGATCTGAGATAAGAAAAGCCAA 60.045 40.000 0.00 0.00 0.00 4.52
1959 2502 1.305887 AGTGCTACTTACGCCCCCT 60.306 57.895 0.00 0.00 0.00 4.79
2037 2580 4.113354 GTGAAGCCCTAATTAGTCGTGAG 58.887 47.826 11.50 0.00 0.00 3.51
2058 2601 3.992943 TTCAATGTTCACGGGATAGGT 57.007 42.857 0.00 0.00 0.00 3.08
2066 2609 7.080099 GGGATGATGATAATTCAATGTTCACG 58.920 38.462 0.00 0.00 34.96 4.35
2095 2638 1.937546 CTAAGCCCAAGCAAAGCGGG 61.938 60.000 0.00 0.00 43.56 6.13
2103 2646 3.118592 AGTGAGATGTACTAAGCCCAAGC 60.119 47.826 0.00 0.00 40.32 4.01
2167 2712 9.804758 AGATAAGGAAACTAAACAGAGATTACG 57.195 33.333 0.00 0.00 42.68 3.18
2209 2754 3.385193 TCTGAAATCGTGAGCAGACAA 57.615 42.857 0.00 0.00 32.85 3.18
2210 2755 3.005791 TCTTCTGAAATCGTGAGCAGACA 59.994 43.478 0.00 0.00 37.14 3.41
2211 2756 3.579709 TCTTCTGAAATCGTGAGCAGAC 58.420 45.455 0.00 0.00 37.14 3.51
2212 2757 3.507622 TCTCTTCTGAAATCGTGAGCAGA 59.492 43.478 0.00 0.00 35.74 4.26
2213 2758 3.842820 TCTCTTCTGAAATCGTGAGCAG 58.157 45.455 0.00 0.00 0.00 4.24
2214 2759 3.942130 TCTCTTCTGAAATCGTGAGCA 57.058 42.857 0.00 0.00 0.00 4.26
2215 2760 4.269844 GGATTCTCTTCTGAAATCGTGAGC 59.730 45.833 0.00 0.00 0.00 4.26
2216 2761 4.502282 CGGATTCTCTTCTGAAATCGTGAG 59.498 45.833 0.00 0.00 0.00 3.51
2217 2762 4.424626 CGGATTCTCTTCTGAAATCGTGA 58.575 43.478 0.00 0.00 0.00 4.35
2218 2763 3.553511 CCGGATTCTCTTCTGAAATCGTG 59.446 47.826 0.00 0.00 0.00 4.35
2219 2764 3.430929 CCCGGATTCTCTTCTGAAATCGT 60.431 47.826 0.73 0.00 0.00 3.73
2220 2765 3.126831 CCCGGATTCTCTTCTGAAATCG 58.873 50.000 0.73 0.00 0.00 3.34
2221 2766 3.134804 TCCCCGGATTCTCTTCTGAAATC 59.865 47.826 0.73 0.00 0.00 2.17
2222 2767 3.115390 TCCCCGGATTCTCTTCTGAAAT 58.885 45.455 0.73 0.00 0.00 2.17
2223 2768 2.501723 CTCCCCGGATTCTCTTCTGAAA 59.498 50.000 0.73 0.00 0.00 2.69
2224 2769 2.111384 CTCCCCGGATTCTCTTCTGAA 58.889 52.381 0.73 0.00 0.00 3.02
2225 2770 1.007238 ACTCCCCGGATTCTCTTCTGA 59.993 52.381 0.73 0.00 0.00 3.27
2226 2771 1.137872 CACTCCCCGGATTCTCTTCTG 59.862 57.143 0.73 0.00 0.00 3.02
2227 2772 1.007238 TCACTCCCCGGATTCTCTTCT 59.993 52.381 0.73 0.00 0.00 2.85
2228 2773 1.486211 TCACTCCCCGGATTCTCTTC 58.514 55.000 0.73 0.00 0.00 2.87
2229 2774 1.952621 TTCACTCCCCGGATTCTCTT 58.047 50.000 0.73 0.00 0.00 2.85
2230 2775 2.182516 ATTCACTCCCCGGATTCTCT 57.817 50.000 0.73 0.00 0.00 3.10
2231 2776 2.436173 AGAATTCACTCCCCGGATTCTC 59.564 50.000 0.73 0.00 0.00 2.87
2232 2777 2.482494 AGAATTCACTCCCCGGATTCT 58.518 47.619 0.73 4.57 0.00 2.40
2233 2778 2.945668 CAAGAATTCACTCCCCGGATTC 59.054 50.000 0.73 1.82 0.00 2.52
2234 2779 2.308866 ACAAGAATTCACTCCCCGGATT 59.691 45.455 0.73 0.00 0.00 3.01
2235 2780 1.916181 ACAAGAATTCACTCCCCGGAT 59.084 47.619 0.73 0.00 0.00 4.18
2236 2781 1.003118 CACAAGAATTCACTCCCCGGA 59.997 52.381 0.73 0.00 0.00 5.14
2237 2782 1.003118 TCACAAGAATTCACTCCCCGG 59.997 52.381 8.44 0.00 0.00 5.73
2238 2783 2.076863 GTCACAAGAATTCACTCCCCG 58.923 52.381 8.44 0.00 0.00 5.73
2239 2784 2.040412 AGGTCACAAGAATTCACTCCCC 59.960 50.000 8.44 0.40 0.00 4.81
2240 2785 3.077359 CAGGTCACAAGAATTCACTCCC 58.923 50.000 8.44 0.00 0.00 4.30
2241 2786 3.744660 ACAGGTCACAAGAATTCACTCC 58.255 45.455 8.44 1.67 0.00 3.85
2242 2787 6.861065 TTTACAGGTCACAAGAATTCACTC 57.139 37.500 8.44 0.00 0.00 3.51
2243 2788 7.122055 TGTTTTTACAGGTCACAAGAATTCACT 59.878 33.333 8.44 0.00 0.00 3.41
2244 2789 7.254852 TGTTTTTACAGGTCACAAGAATTCAC 58.745 34.615 8.44 0.00 0.00 3.18
2245 2790 7.338196 TCTGTTTTTACAGGTCACAAGAATTCA 59.662 33.333 8.44 0.00 38.23 2.57
2246 2791 7.703328 TCTGTTTTTACAGGTCACAAGAATTC 58.297 34.615 0.00 0.00 38.23 2.17
2247 2792 7.639113 TCTGTTTTTACAGGTCACAAGAATT 57.361 32.000 5.55 0.00 38.23 2.17
2248 2793 7.639113 TTCTGTTTTTACAGGTCACAAGAAT 57.361 32.000 5.55 0.00 38.23 2.40
2249 2794 7.175990 AGTTTCTGTTTTTACAGGTCACAAGAA 59.824 33.333 5.55 0.00 38.23 2.52
2250 2795 6.657541 AGTTTCTGTTTTTACAGGTCACAAGA 59.342 34.615 5.55 0.00 38.23 3.02
2251 2796 6.852664 AGTTTCTGTTTTTACAGGTCACAAG 58.147 36.000 5.55 0.00 38.23 3.16
2252 2797 6.827586 AGTTTCTGTTTTTACAGGTCACAA 57.172 33.333 5.55 0.00 38.23 3.33
2253 2798 6.657541 AGAAGTTTCTGTTTTTACAGGTCACA 59.342 34.615 5.55 0.00 38.23 3.58
2254 2799 7.085052 AGAAGTTTCTGTTTTTACAGGTCAC 57.915 36.000 5.55 1.30 38.23 3.67
2269 2814 4.192317 GTGACAGAACCACAGAAGTTTCT 58.808 43.478 0.00 0.00 38.25 2.52
2270 2815 3.312697 GGTGACAGAACCACAGAAGTTTC 59.687 47.826 0.00 0.00 40.22 2.78
2271 2816 3.279434 GGTGACAGAACCACAGAAGTTT 58.721 45.455 0.00 0.00 40.22 2.66
2272 2817 2.741878 CGGTGACAGAACCACAGAAGTT 60.742 50.000 0.00 0.00 40.53 2.66
2273 2818 1.202533 CGGTGACAGAACCACAGAAGT 60.203 52.381 0.00 0.00 40.53 3.01
2274 2819 1.502231 CGGTGACAGAACCACAGAAG 58.498 55.000 0.00 0.00 40.53 2.85
2275 2820 0.105964 CCGGTGACAGAACCACAGAA 59.894 55.000 0.00 0.00 40.53 3.02
2276 2821 0.757561 TCCGGTGACAGAACCACAGA 60.758 55.000 0.00 0.00 40.53 3.41
2277 2822 0.321671 ATCCGGTGACAGAACCACAG 59.678 55.000 0.00 0.00 40.53 3.66
2278 2823 1.634960 TATCCGGTGACAGAACCACA 58.365 50.000 0.00 0.00 40.53 4.17
2279 2824 2.754946 TTATCCGGTGACAGAACCAC 57.245 50.000 0.00 0.00 40.53 4.16
2280 2825 3.262151 TGATTTATCCGGTGACAGAACCA 59.738 43.478 0.00 0.00 40.53 3.67
2281 2826 3.869065 TGATTTATCCGGTGACAGAACC 58.131 45.455 0.00 0.00 36.82 3.62
2282 2827 6.292919 GCTAATGATTTATCCGGTGACAGAAC 60.293 42.308 0.00 0.00 0.00 3.01
2283 2828 5.758296 GCTAATGATTTATCCGGTGACAGAA 59.242 40.000 0.00 0.00 0.00 3.02
2284 2829 5.163353 TGCTAATGATTTATCCGGTGACAGA 60.163 40.000 0.00 0.00 0.00 3.41
2285 2830 5.056480 TGCTAATGATTTATCCGGTGACAG 58.944 41.667 0.00 0.00 0.00 3.51
2286 2831 5.029807 TGCTAATGATTTATCCGGTGACA 57.970 39.130 0.00 0.00 0.00 3.58
2287 2832 4.083802 GCTGCTAATGATTTATCCGGTGAC 60.084 45.833 0.00 0.00 0.00 3.67
2288 2833 4.065088 GCTGCTAATGATTTATCCGGTGA 58.935 43.478 0.00 0.00 0.00 4.02
2289 2834 3.189287 GGCTGCTAATGATTTATCCGGTG 59.811 47.826 0.00 0.00 0.00 4.94
2290 2835 3.073062 AGGCTGCTAATGATTTATCCGGT 59.927 43.478 0.00 0.00 0.00 5.28
2291 2836 3.679389 AGGCTGCTAATGATTTATCCGG 58.321 45.455 0.00 0.00 0.00 5.14
2292 2837 3.686726 GGAGGCTGCTAATGATTTATCCG 59.313 47.826 0.00 0.00 0.00 4.18
2293 2838 4.916183 AGGAGGCTGCTAATGATTTATCC 58.084 43.478 6.79 0.00 0.00 2.59
2294 2839 6.000219 TGAAGGAGGCTGCTAATGATTTATC 59.000 40.000 9.60 0.00 0.00 1.75
2295 2840 5.767168 GTGAAGGAGGCTGCTAATGATTTAT 59.233 40.000 9.60 0.00 0.00 1.40
2296 2841 5.126067 GTGAAGGAGGCTGCTAATGATTTA 58.874 41.667 9.60 0.00 0.00 1.40
2297 2842 3.950395 GTGAAGGAGGCTGCTAATGATTT 59.050 43.478 9.60 0.00 0.00 2.17
2298 2843 3.054139 TGTGAAGGAGGCTGCTAATGATT 60.054 43.478 9.60 0.00 0.00 2.57
2299 2844 2.507058 TGTGAAGGAGGCTGCTAATGAT 59.493 45.455 9.60 0.00 0.00 2.45
2300 2845 1.908619 TGTGAAGGAGGCTGCTAATGA 59.091 47.619 9.60 0.00 0.00 2.57
2301 2846 2.286872 CTGTGAAGGAGGCTGCTAATG 58.713 52.381 9.60 0.00 0.00 1.90
2302 2847 1.912043 ACTGTGAAGGAGGCTGCTAAT 59.088 47.619 9.60 0.00 0.00 1.73
2303 2848 1.276421 GACTGTGAAGGAGGCTGCTAA 59.724 52.381 9.60 0.00 0.00 3.09
2304 2849 0.898320 GACTGTGAAGGAGGCTGCTA 59.102 55.000 9.60 0.00 0.00 3.49
2305 2850 1.676384 GACTGTGAAGGAGGCTGCT 59.324 57.895 1.28 1.28 0.00 4.24
2306 2851 1.376553 GGACTGTGAAGGAGGCTGC 60.377 63.158 0.00 0.00 0.00 5.25
2307 2852 0.036577 CAGGACTGTGAAGGAGGCTG 60.037 60.000 0.00 0.00 0.00 4.85
2308 2853 1.835927 GCAGGACTGTGAAGGAGGCT 61.836 60.000 0.82 0.00 0.00 4.58
2309 2854 1.376553 GCAGGACTGTGAAGGAGGC 60.377 63.158 0.82 0.00 0.00 4.70
2310 2855 1.197430 AGGCAGGACTGTGAAGGAGG 61.197 60.000 0.82 0.00 0.00 4.30
2311 2856 1.205893 GTAGGCAGGACTGTGAAGGAG 59.794 57.143 0.82 0.00 0.00 3.69
2312 2857 1.267121 GTAGGCAGGACTGTGAAGGA 58.733 55.000 0.82 0.00 0.00 3.36
2313 2858 0.250513 GGTAGGCAGGACTGTGAAGG 59.749 60.000 0.82 0.00 0.00 3.46
2314 2859 1.205893 GAGGTAGGCAGGACTGTGAAG 59.794 57.143 0.82 0.00 0.00 3.02
2315 2860 1.267121 GAGGTAGGCAGGACTGTGAA 58.733 55.000 0.82 0.00 0.00 3.18
2316 2861 0.114364 TGAGGTAGGCAGGACTGTGA 59.886 55.000 0.82 0.00 0.00 3.58
2317 2862 2.671145 TGAGGTAGGCAGGACTGTG 58.329 57.895 0.82 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.