Multiple sequence alignment - TraesCS6D01G256300

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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 TraesCS6D01G256300 chr6D 100.000 2674 0 0 1 2674 362633399 362636072 0.000000e+00 4939.0
1 TraesCS6D01G256300 chr6D 93.590 1482 73 7 409 1873 362858922 362860398 0.000000e+00 2191.0
2 TraesCS6D01G256300 chr6D 88.066 905 67 14 974 1873 362887992 362888860 0.000000e+00 1035.0
3 TraesCS6D01G256300 chr6D 86.667 945 77 28 953 1873 362953814 362954733 0.000000e+00 1002.0
4 TraesCS6D01G256300 chr6D 90.113 708 47 6 1976 2674 362860395 362861088 0.000000e+00 898.0
5 TraesCS6D01G256300 chr6D 95.528 246 6 3 2434 2674 362236599 362236844 3.740000e-104 388.0
6 TraesCS6D01G256300 chr6D 98.122 213 4 0 2226 2438 362232349 362232561 3.760000e-99 372.0
7 TraesCS6D01G256300 chr6D 100.000 186 0 0 2904 3089 362636302 362636487 8.200000e-91 344.0
8 TraesCS6D01G256300 chr6D 97.849 186 4 0 2904 3089 362236895 362237080 3.840000e-84 322.0
9 TraesCS6D01G256300 chr6D 83.708 356 36 14 2304 2655 362901709 362902046 1.790000e-82 316.0
10 TraesCS6D01G256300 chr6D 93.596 203 5 1 1974 2176 362888855 362889049 2.330000e-76 296.0
11 TraesCS6D01G256300 chr6D 88.936 235 21 4 1974 2204 362954728 362954961 5.040000e-73 285.0
12 TraesCS6D01G256300 chr6D 91.979 187 14 1 2904 3089 362902307 362902493 8.500000e-66 261.0
13 TraesCS6D01G256300 chr6D 87.958 191 14 6 2904 3089 362861130 362861316 1.870000e-52 217.0
14 TraesCS6D01G256300 chr6D 94.624 93 5 0 328 420 362858772 362858864 8.930000e-31 145.0
15 TraesCS6D01G256300 chr6D 91.111 90 8 0 433 522 362953351 362953440 4.180000e-24 122.0
16 TraesCS6D01G256300 chr6D 95.122 41 1 1 2277 2317 362954972 362955011 2.570000e-06 63.9
17 TraesCS6D01G256300 chr6B 91.079 1816 92 39 87 1873 543824668 543826442 0.000000e+00 2392.0
18 TraesCS6D01G256300 chr6B 92.351 706 41 7 1974 2674 543826437 543827134 0.000000e+00 992.0
19 TraesCS6D01G256300 chr6B 83.731 922 78 33 967 1873 544092082 544092946 0.000000e+00 806.0
20 TraesCS6D01G256300 chr6B 86.731 520 46 10 1338 1841 543940450 543940962 9.680000e-155 556.0
21 TraesCS6D01G256300 chr6B 83.532 504 65 11 2180 2674 543960615 543961109 3.630000e-124 455.0
22 TraesCS6D01G256300 chr6B 86.512 430 29 12 423 825 543909627 543910054 2.190000e-121 446.0
23 TraesCS6D01G256300 chr6B 76.824 699 84 42 206 863 544091352 544092013 3.840000e-84 322.0
24 TraesCS6D01G256300 chr6B 84.694 294 40 2 970 1258 543940117 543940410 3.900000e-74 289.0
25 TraesCS6D01G256300 chr6B 88.511 235 22 5 1974 2204 544092941 544093174 2.350000e-71 279.0
26 TraesCS6D01G256300 chr6B 89.202 213 15 3 1974 2186 543959920 543960124 3.060000e-65 259.0
27 TraesCS6D01G256300 chr6B 88.083 193 11 8 2904 3089 543827176 543827363 5.190000e-53 219.0
28 TraesCS6D01G256300 chr6A 93.515 1357 57 5 533 1873 502928586 502929927 0.000000e+00 1989.0
29 TraesCS6D01G256300 chr6A 87.121 924 68 16 970 1873 503229977 503230869 0.000000e+00 1000.0
30 TraesCS6D01G256300 chr6A 86.927 895 62 29 986 1873 503248753 503249599 0.000000e+00 953.0
31 TraesCS6D01G256300 chr6A 84.593 701 61 13 1974 2669 502929922 502930580 0.000000e+00 652.0
32 TraesCS6D01G256300 chr6A 88.146 329 33 4 2178 2504 503231635 503231959 1.340000e-103 387.0
33 TraesCS6D01G256300 chr6A 84.887 311 27 14 87 392 502927551 502927846 2.330000e-76 296.0
34 TraesCS6D01G256300 chr6A 78.261 483 48 28 416 863 503229448 503229908 1.100000e-64 257.0
35 TraesCS6D01G256300 chr6A 95.890 146 5 1 391 536 502928170 502928314 5.150000e-58 235.0
36 TraesCS6D01G256300 chr6A 89.247 186 16 2 2904 3089 502931003 502931184 2.400000e-56 230.0
37 TraesCS6D01G256300 chr6A 95.833 120 4 1 1974 2093 503230864 503230982 3.140000e-45 193.0
38 TraesCS6D01G256300 chr6A 93.277 119 8 0 1974 2092 503249594 503249712 3.170000e-40 176.0
39 TraesCS6D01G256300 chr6A 91.089 101 7 2 2089 2187 503231006 503231106 5.370000e-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 TraesCS6D01G256300 chr6D 362633399 362636487 3088 False 2641.500 4939 100.000000 1 3089 2 chr6D.!!$F3 3088
1 TraesCS6D01G256300 chr6D 362858772 362861316 2544 False 862.750 2191 91.571250 328 3089 4 chr6D.!!$F4 2761
2 TraesCS6D01G256300 chr6D 362887992 362889049 1057 False 665.500 1035 90.831000 974 2176 2 chr6D.!!$F5 1202
3 TraesCS6D01G256300 chr6D 362953351 362955011 1660 False 368.225 1002 90.459000 433 2317 4 chr6D.!!$F7 1884
4 TraesCS6D01G256300 chr6D 362901709 362902493 784 False 288.500 316 87.843500 2304 3089 2 chr6D.!!$F6 785
5 TraesCS6D01G256300 chr6B 543824668 543827363 2695 False 1201.000 2392 90.504333 87 3089 3 chr6B.!!$F2 3002
6 TraesCS6D01G256300 chr6B 544091352 544093174 1822 False 469.000 806 83.022000 206 2204 3 chr6B.!!$F5 1998
7 TraesCS6D01G256300 chr6B 543940117 543940962 845 False 422.500 556 85.712500 970 1841 2 chr6B.!!$F3 871
8 TraesCS6D01G256300 chr6B 543959920 543961109 1189 False 357.000 455 86.367000 1974 2674 2 chr6B.!!$F4 700
9 TraesCS6D01G256300 chr6A 502927551 502931184 3633 False 680.400 1989 89.626400 87 3089 5 chr6A.!!$F1 3002
10 TraesCS6D01G256300 chr6A 503248753 503249712 959 False 564.500 953 90.102000 986 2092 2 chr6A.!!$F3 1106
11 TraesCS6D01G256300 chr6A 503229448 503231959 2511 False 394.400 1000 88.090000 416 2504 5 chr6A.!!$F2 2088

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
612 1293 0.751277 CCACTGAGTGTGCAAACCCA 60.751 55.0 12.15 0.0 44.92 4.51 F
1878 2705 0.100503 GCAAGTCAAGGTGCGTGTTT 59.899 50.0 0.00 0.0 0.00 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1948 2775 0.107643 TCACCGGCAATGTTGTCAGA 59.892 50.000 0.0 0.0 31.86 3.27 R
2930 5052 3.181439 GCCCTTATCTTACCTCATGGCTT 60.181 47.826 0.0 0.0 36.63 4.35 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
22 23 3.806949 ATGCAGAGTAAAAAGGACCCA 57.193 42.857 0.00 0.00 0.00 4.51
23 24 3.586470 TGCAGAGTAAAAAGGACCCAA 57.414 42.857 0.00 0.00 0.00 4.12
24 25 3.486383 TGCAGAGTAAAAAGGACCCAAG 58.514 45.455 0.00 0.00 0.00 3.61
25 26 2.820197 GCAGAGTAAAAAGGACCCAAGG 59.180 50.000 0.00 0.00 0.00 3.61
26 27 3.421844 CAGAGTAAAAAGGACCCAAGGG 58.578 50.000 2.91 2.91 42.03 3.95
27 28 3.073946 CAGAGTAAAAAGGACCCAAGGGA 59.926 47.826 13.15 0.00 38.96 4.20
28 29 3.330998 AGAGTAAAAAGGACCCAAGGGAG 59.669 47.826 13.15 0.00 38.96 4.30
29 30 3.061369 AGTAAAAAGGACCCAAGGGAGT 58.939 45.455 13.15 0.00 38.96 3.85
30 31 4.245308 AGTAAAAAGGACCCAAGGGAGTA 58.755 43.478 13.15 0.00 38.96 2.59
31 32 4.666431 AGTAAAAAGGACCCAAGGGAGTAA 59.334 41.667 13.15 0.00 38.96 2.24
32 33 3.808834 AAAAGGACCCAAGGGAGTAAG 57.191 47.619 13.15 0.00 38.96 2.34
33 34 2.435203 AAGGACCCAAGGGAGTAAGT 57.565 50.000 13.15 0.00 38.96 2.24
34 35 2.435203 AGGACCCAAGGGAGTAAGTT 57.565 50.000 13.15 0.00 38.96 2.66
35 36 3.572661 AGGACCCAAGGGAGTAAGTTA 57.427 47.619 13.15 0.00 38.96 2.24
36 37 3.451890 AGGACCCAAGGGAGTAAGTTAG 58.548 50.000 13.15 0.00 38.96 2.34
37 38 3.179685 GGACCCAAGGGAGTAAGTTAGT 58.820 50.000 13.15 0.00 38.96 2.24
38 39 3.586174 GGACCCAAGGGAGTAAGTTAGTT 59.414 47.826 13.15 0.00 38.96 2.24
39 40 4.565028 GGACCCAAGGGAGTAAGTTAGTTG 60.565 50.000 13.15 0.00 38.96 3.16
40 41 3.978672 ACCCAAGGGAGTAAGTTAGTTGT 59.021 43.478 13.15 0.00 38.96 3.32
41 42 5.157395 ACCCAAGGGAGTAAGTTAGTTGTA 58.843 41.667 13.15 0.00 38.96 2.41
42 43 5.789054 ACCCAAGGGAGTAAGTTAGTTGTAT 59.211 40.000 13.15 0.00 38.96 2.29
43 44 6.961721 ACCCAAGGGAGTAAGTTAGTTGTATA 59.038 38.462 13.15 0.00 38.96 1.47
44 45 7.093156 ACCCAAGGGAGTAAGTTAGTTGTATAC 60.093 40.741 13.15 0.00 38.96 1.47
45 46 7.093201 CCCAAGGGAGTAAGTTAGTTGTATACA 60.093 40.741 0.08 0.08 37.50 2.29
46 47 8.483758 CCAAGGGAGTAAGTTAGTTGTATACAT 58.516 37.037 6.36 0.00 0.00 2.29
47 48 9.886132 CAAGGGAGTAAGTTAGTTGTATACATT 57.114 33.333 6.36 0.00 0.00 2.71
83 84 2.722094 GGTGAGCACCCATTTATGACA 58.278 47.619 8.48 0.00 45.68 3.58
84 85 3.088532 GGTGAGCACCCATTTATGACAA 58.911 45.455 8.48 0.00 45.68 3.18
85 86 3.129287 GGTGAGCACCCATTTATGACAAG 59.871 47.826 8.48 0.00 45.68 3.16
86 87 3.758554 GTGAGCACCCATTTATGACAAGT 59.241 43.478 0.00 0.00 0.00 3.16
87 88 4.218417 GTGAGCACCCATTTATGACAAGTT 59.782 41.667 0.00 0.00 0.00 2.66
88 89 4.832266 TGAGCACCCATTTATGACAAGTTT 59.168 37.500 0.00 0.00 0.00 2.66
89 90 5.304101 TGAGCACCCATTTATGACAAGTTTT 59.696 36.000 0.00 0.00 0.00 2.43
90 91 6.173427 AGCACCCATTTATGACAAGTTTTT 57.827 33.333 0.00 0.00 0.00 1.94
126 128 7.159372 AGTTAATAACTTCTTGACACCGATGT 58.841 34.615 0.00 0.00 39.52 3.06
132 134 1.893137 TCTTGACACCGATGTACTGCT 59.107 47.619 0.00 0.00 39.95 4.24
144 146 5.861251 CCGATGTACTGCTTCTTGATATCTC 59.139 44.000 3.98 0.00 0.00 2.75
198 203 1.133945 TGCACTGCTTCTACCACCAAA 60.134 47.619 1.98 0.00 0.00 3.28
301 313 8.936864 GGATATCAAGGCATTAGTACATTGTAC 58.063 37.037 17.43 17.43 0.00 2.90
302 314 9.712305 GATATCAAGGCATTAGTACATTGTACT 57.288 33.333 27.56 27.56 0.00 2.73
303 315 7.792374 ATCAAGGCATTAGTACATTGTACTG 57.208 36.000 30.76 19.92 0.00 2.74
305 317 7.041721 TCAAGGCATTAGTACATTGTACTGAG 58.958 38.462 30.76 22.25 0.00 3.35
306 318 5.360591 AGGCATTAGTACATTGTACTGAGC 58.639 41.667 30.76 27.82 0.00 4.26
307 319 5.104941 AGGCATTAGTACATTGTACTGAGCA 60.105 40.000 30.76 14.38 0.00 4.26
308 320 5.760253 GGCATTAGTACATTGTACTGAGCAT 59.240 40.000 30.76 17.91 0.00 3.79
309 321 6.260936 GGCATTAGTACATTGTACTGAGCATT 59.739 38.462 30.76 11.74 0.00 3.56
310 322 7.441157 GGCATTAGTACATTGTACTGAGCATTA 59.559 37.037 30.76 12.83 0.00 1.90
311 323 8.491152 GCATTAGTACATTGTACTGAGCATTAG 58.509 37.037 30.76 16.37 0.00 1.73
312 324 9.534565 CATTAGTACATTGTACTGAGCATTAGT 57.465 33.333 30.76 10.25 0.00 2.24
325 337 7.717568 ACTGAGCATTAGTACATTGTACTAGG 58.282 38.462 27.10 24.05 32.35 3.02
346 358 9.174166 ACTAGGAAATACGTAAATCTTTGCATT 57.826 29.630 11.74 0.00 0.00 3.56
397 416 1.018226 GCATATGCGGCCTAGCTGAG 61.018 60.000 12.82 0.00 37.02 3.35
429 835 2.401766 GCATGGCCACGTGAGAAGG 61.402 63.158 19.30 0.00 35.58 3.46
579 1260 0.905357 ACAATCCCTCCTTCAGTCCG 59.095 55.000 0.00 0.00 0.00 4.79
612 1293 0.751277 CCACTGAGTGTGCAAACCCA 60.751 55.000 12.15 0.00 44.92 4.51
615 1296 2.884012 CACTGAGTGTGCAAACCCAATA 59.116 45.455 2.53 0.00 40.06 1.90
906 1679 2.320587 CGAGGTGCAACACTCTGCC 61.321 63.158 3.64 0.00 41.90 4.85
917 1690 3.170791 ACACTCTGCCAGATTACATCG 57.829 47.619 0.00 0.00 0.00 3.84
1041 1828 2.488355 CTGATGTACGACGGCGGT 59.512 61.111 18.49 2.70 43.17 5.68
1146 1936 4.587189 GGCTACGCCTACGCCCAG 62.587 72.222 0.00 0.00 46.69 4.45
1188 1978 4.065281 GCCTACGTGCGGGACAGT 62.065 66.667 0.00 1.71 0.00 3.55
1228 2018 1.016653 GCCTTCAGTGCTCTCGTTCC 61.017 60.000 0.00 0.00 0.00 3.62
1553 2349 2.664851 CACCAAGAAGCCGTGCGA 60.665 61.111 0.00 0.00 0.00 5.10
1682 2501 8.417106 TCTTTCTACTGCTCGAATTCATTATCT 58.583 33.333 6.22 0.00 0.00 1.98
1873 2700 2.253452 GCTGCAAGTCAAGGTGCG 59.747 61.111 0.00 0.00 43.93 5.34
1874 2701 2.546494 GCTGCAAGTCAAGGTGCGT 61.546 57.895 0.00 0.00 43.93 5.24
1875 2702 1.280746 CTGCAAGTCAAGGTGCGTG 59.719 57.895 0.00 0.00 43.93 5.34
1876 2703 1.439353 CTGCAAGTCAAGGTGCGTGT 61.439 55.000 0.00 0.00 43.93 4.49
1877 2704 1.029408 TGCAAGTCAAGGTGCGTGTT 61.029 50.000 0.00 0.00 43.93 3.32
1878 2705 0.100503 GCAAGTCAAGGTGCGTGTTT 59.899 50.000 0.00 0.00 0.00 2.83
1879 2706 1.826327 CAAGTCAAGGTGCGTGTTTG 58.174 50.000 0.00 0.00 0.00 2.93
1880 2707 1.132262 CAAGTCAAGGTGCGTGTTTGT 59.868 47.619 0.00 0.00 0.00 2.83
1881 2708 1.014352 AGTCAAGGTGCGTGTTTGTC 58.986 50.000 0.00 0.00 0.00 3.18
1882 2709 1.014352 GTCAAGGTGCGTGTTTGTCT 58.986 50.000 0.00 0.00 0.00 3.41
1883 2710 1.013596 TCAAGGTGCGTGTTTGTCTG 58.986 50.000 0.00 0.00 0.00 3.51
1884 2711 1.013596 CAAGGTGCGTGTTTGTCTGA 58.986 50.000 0.00 0.00 0.00 3.27
1885 2712 1.400142 CAAGGTGCGTGTTTGTCTGAA 59.600 47.619 0.00 0.00 0.00 3.02
1886 2713 1.014352 AGGTGCGTGTTTGTCTGAAC 58.986 50.000 0.00 0.00 0.00 3.18
1887 2714 0.315869 GGTGCGTGTTTGTCTGAACG 60.316 55.000 0.00 0.00 39.00 3.95
1888 2715 0.372334 GTGCGTGTTTGTCTGAACGT 59.628 50.000 1.46 0.00 38.28 3.99
1889 2716 1.589320 GTGCGTGTTTGTCTGAACGTA 59.411 47.619 0.00 0.00 38.28 3.57
1890 2717 1.589320 TGCGTGTTTGTCTGAACGTAC 59.411 47.619 0.00 0.00 38.28 3.67
1891 2718 1.589320 GCGTGTTTGTCTGAACGTACA 59.411 47.619 0.00 0.00 38.28 2.90
1892 2719 2.220133 GCGTGTTTGTCTGAACGTACAT 59.780 45.455 0.00 0.00 38.28 2.29
1893 2720 3.783377 CGTGTTTGTCTGAACGTACATG 58.217 45.455 0.00 0.00 32.18 3.21
1894 2721 3.362596 CGTGTTTGTCTGAACGTACATGG 60.363 47.826 0.00 0.00 32.18 3.66
1895 2722 2.546368 TGTTTGTCTGAACGTACATGGC 59.454 45.455 0.00 0.00 32.18 4.40
1896 2723 2.535012 TTGTCTGAACGTACATGGCA 57.465 45.000 0.00 0.00 0.00 4.92
1897 2724 2.760634 TGTCTGAACGTACATGGCAT 57.239 45.000 0.00 0.00 0.00 4.40
1898 2725 2.616960 TGTCTGAACGTACATGGCATC 58.383 47.619 0.00 0.00 0.00 3.91
1899 2726 2.028567 TGTCTGAACGTACATGGCATCA 60.029 45.455 0.00 0.00 0.00 3.07
1900 2727 2.604914 GTCTGAACGTACATGGCATCAG 59.395 50.000 0.00 0.80 36.50 2.90
1901 2728 1.328680 CTGAACGTACATGGCATCAGC 59.671 52.381 0.00 0.00 41.10 4.26
1902 2729 1.066215 TGAACGTACATGGCATCAGCT 60.066 47.619 0.00 0.00 41.70 4.24
1903 2730 2.167487 TGAACGTACATGGCATCAGCTA 59.833 45.455 0.00 0.00 41.70 3.32
1904 2731 3.181466 TGAACGTACATGGCATCAGCTAT 60.181 43.478 0.00 0.00 43.37 2.97
1905 2732 4.038642 TGAACGTACATGGCATCAGCTATA 59.961 41.667 0.00 0.00 40.28 1.31
1906 2733 4.179926 ACGTACATGGCATCAGCTATAG 57.820 45.455 0.00 0.00 40.28 1.31
1907 2734 2.926200 CGTACATGGCATCAGCTATAGC 59.074 50.000 17.33 17.33 40.28 2.97
1919 2746 2.039327 GCTATAGCGACTGAACTCCG 57.961 55.000 9.40 0.00 0.00 4.63
1920 2747 1.334243 GCTATAGCGACTGAACTCCGT 59.666 52.381 9.40 0.00 0.00 4.69
1921 2748 2.223525 GCTATAGCGACTGAACTCCGTT 60.224 50.000 9.40 0.00 0.00 4.44
1922 2749 2.279582 ATAGCGACTGAACTCCGTTG 57.720 50.000 0.00 0.00 0.00 4.10
1923 2750 0.388134 TAGCGACTGAACTCCGTTGC 60.388 55.000 5.59 5.59 40.13 4.17
1924 2751 1.664965 GCGACTGAACTCCGTTGCT 60.665 57.895 6.32 0.00 37.52 3.91
1925 2752 0.388134 GCGACTGAACTCCGTTGCTA 60.388 55.000 6.32 0.00 37.52 3.49
1926 2753 1.736032 GCGACTGAACTCCGTTGCTAT 60.736 52.381 6.32 0.00 37.52 2.97
1927 2754 2.186076 CGACTGAACTCCGTTGCTATC 58.814 52.381 0.00 0.00 0.00 2.08
1928 2755 2.541556 GACTGAACTCCGTTGCTATCC 58.458 52.381 0.00 0.00 0.00 2.59
1929 2756 1.899814 ACTGAACTCCGTTGCTATCCA 59.100 47.619 0.00 0.00 0.00 3.41
1930 2757 2.501723 ACTGAACTCCGTTGCTATCCAT 59.498 45.455 0.00 0.00 0.00 3.41
1931 2758 3.126831 CTGAACTCCGTTGCTATCCATC 58.873 50.000 0.00 0.00 0.00 3.51
1932 2759 2.128035 GAACTCCGTTGCTATCCATCG 58.872 52.381 0.00 0.00 36.62 3.84
1933 2760 1.399714 ACTCCGTTGCTATCCATCGA 58.600 50.000 0.00 0.00 38.58 3.59
1934 2761 1.964223 ACTCCGTTGCTATCCATCGAT 59.036 47.619 0.00 0.00 38.58 3.59
1935 2762 2.029828 ACTCCGTTGCTATCCATCGATC 60.030 50.000 0.00 0.00 38.58 3.69
1936 2763 1.068541 TCCGTTGCTATCCATCGATCG 60.069 52.381 9.36 9.36 38.58 3.69
1937 2764 1.340658 CGTTGCTATCCATCGATCGG 58.659 55.000 16.41 0.85 38.58 4.18
1938 2765 1.071605 GTTGCTATCCATCGATCGGC 58.928 55.000 16.41 9.27 0.00 5.54
1939 2766 0.678950 TTGCTATCCATCGATCGGCA 59.321 50.000 16.41 11.96 36.33 5.69
1940 2767 0.897621 TGCTATCCATCGATCGGCAT 59.102 50.000 16.41 0.00 34.52 4.40
1941 2768 1.284657 GCTATCCATCGATCGGCATG 58.715 55.000 16.41 12.29 31.56 4.06
1942 2769 1.404717 GCTATCCATCGATCGGCATGT 60.405 52.381 16.41 1.97 31.56 3.21
1943 2770 2.159240 GCTATCCATCGATCGGCATGTA 60.159 50.000 16.41 0.00 31.56 2.29
1944 2771 2.370281 ATCCATCGATCGGCATGTAC 57.630 50.000 16.41 0.00 0.00 2.90
1945 2772 1.036707 TCCATCGATCGGCATGTACA 58.963 50.000 16.41 0.00 0.00 2.90
1946 2773 1.410882 TCCATCGATCGGCATGTACAA 59.589 47.619 16.41 0.00 0.00 2.41
1947 2774 2.037121 TCCATCGATCGGCATGTACAAT 59.963 45.455 16.41 0.00 0.00 2.71
1948 2775 2.807967 CCATCGATCGGCATGTACAATT 59.192 45.455 16.41 0.00 0.00 2.32
1949 2776 3.120546 CCATCGATCGGCATGTACAATTC 60.121 47.826 16.41 0.00 0.00 2.17
1950 2777 3.452755 TCGATCGGCATGTACAATTCT 57.547 42.857 16.41 0.00 0.00 2.40
1951 2778 3.123050 TCGATCGGCATGTACAATTCTG 58.877 45.455 16.41 0.00 0.00 3.02
1952 2779 3.123050 CGATCGGCATGTACAATTCTGA 58.877 45.455 7.38 3.04 0.00 3.27
1953 2780 3.060272 CGATCGGCATGTACAATTCTGAC 60.060 47.826 7.38 0.00 0.00 3.51
1954 2781 3.326836 TCGGCATGTACAATTCTGACA 57.673 42.857 0.00 0.00 0.00 3.58
1955 2782 3.669536 TCGGCATGTACAATTCTGACAA 58.330 40.909 0.00 0.00 0.00 3.18
1956 2783 3.435327 TCGGCATGTACAATTCTGACAAC 59.565 43.478 0.00 0.00 0.00 3.32
1957 2784 3.188254 CGGCATGTACAATTCTGACAACA 59.812 43.478 0.00 0.00 0.00 3.33
1958 2785 4.142622 CGGCATGTACAATTCTGACAACAT 60.143 41.667 0.00 0.00 0.00 2.71
1959 2786 5.619757 CGGCATGTACAATTCTGACAACATT 60.620 40.000 0.00 0.00 0.00 2.71
1960 2787 5.574055 GGCATGTACAATTCTGACAACATTG 59.426 40.000 0.00 5.17 0.00 2.82
1961 2788 5.061311 GCATGTACAATTCTGACAACATTGC 59.939 40.000 0.00 0.00 0.00 3.56
1962 2789 5.119931 TGTACAATTCTGACAACATTGCC 57.880 39.130 0.00 0.47 0.00 4.52
1963 2790 3.287312 ACAATTCTGACAACATTGCCG 57.713 42.857 6.28 0.00 0.00 5.69
1964 2791 2.030007 ACAATTCTGACAACATTGCCGG 60.030 45.455 0.00 0.00 0.00 6.13
1965 2792 1.909700 ATTCTGACAACATTGCCGGT 58.090 45.000 1.90 0.00 0.00 5.28
1966 2793 0.950836 TTCTGACAACATTGCCGGTG 59.049 50.000 1.90 0.00 0.00 4.94
1967 2794 0.107643 TCTGACAACATTGCCGGTGA 59.892 50.000 1.90 0.00 0.00 4.02
1968 2795 0.950836 CTGACAACATTGCCGGTGAA 59.049 50.000 1.90 0.00 0.00 3.18
1969 2796 1.541147 CTGACAACATTGCCGGTGAAT 59.459 47.619 1.90 0.00 0.00 2.57
1970 2797 1.539388 TGACAACATTGCCGGTGAATC 59.461 47.619 1.90 0.00 0.00 2.52
1971 2798 0.521291 ACAACATTGCCGGTGAATCG 59.479 50.000 1.90 0.55 0.00 3.34
1972 2799 0.798009 CAACATTGCCGGTGAATCGC 60.798 55.000 1.90 0.00 0.00 4.58
2189 4091 8.710749 AGATAAATAAGGAGGCATATGCAAAA 57.289 30.769 28.07 8.24 44.36 2.44
2224 4126 4.703575 TGTTTACTCTCGCCACTATGTACT 59.296 41.667 0.00 0.00 0.00 2.73
2275 4184 3.691498 TGTACGTACTTGATCTGATGCG 58.309 45.455 25.12 0.00 0.00 4.73
2418 4331 4.455906 GGGGCTTGGCAATTGCGG 62.456 66.667 23.48 16.38 43.26 5.69
2472 4386 0.388520 GCAATTCAAGCCCAACGTCC 60.389 55.000 0.00 0.00 0.00 4.79
2541 4456 6.863126 CCAAACTACCAATGTGATGAACTTTC 59.137 38.462 0.00 0.00 0.00 2.62
2545 4460 8.918202 ACTACCAATGTGATGAACTTTCTTTA 57.082 30.769 0.00 0.00 0.00 1.85
2596 4517 5.318630 TGTTTTCAGTTAGGGAATACCACC 58.681 41.667 0.00 0.00 43.89 4.61
2612 4533 7.937394 GGAATACCACCAGTATGCTAATTACTT 59.063 37.037 0.00 0.00 40.98 2.24
2618 4539 5.354234 ACCAGTATGCTAATTACTTGTGCAC 59.646 40.000 10.75 10.75 36.44 4.57
2624 4545 6.285790 TGCTAATTACTTGTGCACGATATG 57.714 37.500 13.13 0.99 0.00 1.78
2625 4546 6.045955 TGCTAATTACTTGTGCACGATATGA 58.954 36.000 13.13 0.00 0.00 2.15
2626 4547 6.019075 TGCTAATTACTTGTGCACGATATGAC 60.019 38.462 13.13 0.00 0.00 3.06
2641 4569 6.472486 CACGATATGACGACTACACAGAAAAT 59.528 38.462 0.00 0.00 37.03 1.82
2644 4572 2.729360 TGACGACTACACAGAAAATGCG 59.271 45.455 0.00 0.00 0.00 4.73
2970 5092 2.355818 GGGCAACTCTAACCGAATCCTT 60.356 50.000 0.00 0.00 0.00 3.36
2981 5103 9.130312 CTCTAACCGAATCCTTAAAAGATATCG 57.870 37.037 0.00 0.00 0.00 2.92
3014 5136 4.742659 GCTCGTCAAATCTTATCTCCTCAC 59.257 45.833 0.00 0.00 0.00 3.51
3070 5193 6.017357 ACCGAACACTCAAATTTAACTTCTCC 60.017 38.462 0.00 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.806949 TGGGTCCTTTTTACTCTGCAT 57.193 42.857 0.00 0.00 0.00 3.96
4 5 2.820197 CCTTGGGTCCTTTTTACTCTGC 59.180 50.000 0.00 0.00 0.00 4.26
5 6 3.073946 TCCCTTGGGTCCTTTTTACTCTG 59.926 47.826 5.51 0.00 0.00 3.35
7 8 3.074094 ACTCCCTTGGGTCCTTTTTACTC 59.926 47.826 5.51 0.00 0.00 2.59
9 10 3.520691 ACTCCCTTGGGTCCTTTTTAC 57.479 47.619 5.51 0.00 0.00 2.01
11 12 3.465966 ACTTACTCCCTTGGGTCCTTTTT 59.534 43.478 5.51 0.00 0.00 1.94
12 13 3.061369 ACTTACTCCCTTGGGTCCTTTT 58.939 45.455 5.51 0.00 0.00 2.27
13 14 2.714808 ACTTACTCCCTTGGGTCCTTT 58.285 47.619 5.51 0.00 0.00 3.11
14 15 2.435203 ACTTACTCCCTTGGGTCCTT 57.565 50.000 5.51 0.00 0.00 3.36
15 16 2.435203 AACTTACTCCCTTGGGTCCT 57.565 50.000 5.51 0.00 0.00 3.85
16 17 3.179685 ACTAACTTACTCCCTTGGGTCC 58.820 50.000 5.51 0.00 0.00 4.46
17 18 4.041321 ACAACTAACTTACTCCCTTGGGTC 59.959 45.833 5.51 0.00 0.00 4.46
18 19 3.978672 ACAACTAACTTACTCCCTTGGGT 59.021 43.478 5.51 0.00 0.00 4.51
19 20 4.635699 ACAACTAACTTACTCCCTTGGG 57.364 45.455 0.00 0.00 0.00 4.12
20 21 7.844009 TGTATACAACTAACTTACTCCCTTGG 58.156 38.462 2.20 0.00 0.00 3.61
21 22 9.886132 AATGTATACAACTAACTTACTCCCTTG 57.114 33.333 10.14 0.00 0.00 3.61
43 44 8.043710 GCTCACCTAGCCTATCATATAAAATGT 58.956 37.037 0.00 0.00 46.25 2.71
44 45 8.430801 GCTCACCTAGCCTATCATATAAAATG 57.569 38.462 0.00 0.00 46.25 2.32
64 65 3.758554 ACTTGTCATAAATGGGTGCTCAC 59.241 43.478 0.00 0.00 0.00 3.51
65 66 4.032960 ACTTGTCATAAATGGGTGCTCA 57.967 40.909 0.00 0.00 0.00 4.26
66 67 5.391312 AAACTTGTCATAAATGGGTGCTC 57.609 39.130 0.00 0.00 0.00 4.26
67 68 5.806654 AAAACTTGTCATAAATGGGTGCT 57.193 34.783 0.00 0.00 0.00 4.40
101 102 7.159372 ACATCGGTGTCAAGAAGTTATTAACT 58.841 34.615 0.00 3.16 37.38 2.24
109 110 3.861131 GCAGTACATCGGTGTCAAGAAGT 60.861 47.826 3.56 0.00 39.77 3.01
168 173 1.938577 GAAGCAGTGCATCGATGTCAT 59.061 47.619 25.47 9.59 0.00 3.06
198 203 5.701290 CCTTAAAGTGAGAAACGAGACCAAT 59.299 40.000 0.00 0.00 0.00 3.16
204 209 4.980434 TCGTTCCTTAAAGTGAGAAACGAG 59.020 41.667 3.60 0.00 0.00 4.18
244 253 9.304731 TCATTCATTGTTTTCTTTCAAGAACAG 57.695 29.630 1.28 0.00 44.18 3.16
301 313 7.941919 TCCTAGTACAATGTACTAATGCTCAG 58.058 38.462 27.11 18.06 30.55 3.35
302 314 7.891498 TCCTAGTACAATGTACTAATGCTCA 57.109 36.000 27.11 11.05 30.55 4.26
303 315 9.765795 ATTTCCTAGTACAATGTACTAATGCTC 57.234 33.333 27.11 0.75 30.55 4.26
317 329 9.090692 GCAAAGATTTACGTATTTCCTAGTACA 57.909 33.333 0.00 0.00 0.00 2.90
318 330 9.090692 TGCAAAGATTTACGTATTTCCTAGTAC 57.909 33.333 0.00 0.00 0.00 2.73
319 331 9.826574 ATGCAAAGATTTACGTATTTCCTAGTA 57.173 29.630 0.00 0.00 0.00 1.82
320 332 8.732746 ATGCAAAGATTTACGTATTTCCTAGT 57.267 30.769 0.00 0.00 0.00 2.57
321 333 9.438291 CAATGCAAAGATTTACGTATTTCCTAG 57.562 33.333 0.00 0.00 0.00 3.02
325 337 6.291060 CGGCAATGCAAAGATTTACGTATTTC 60.291 38.462 7.79 0.00 0.00 2.17
330 342 2.862512 CGGCAATGCAAAGATTTACGT 58.137 42.857 7.79 0.00 0.00 3.57
332 344 2.605030 TGCGGCAATGCAAAGATTTAC 58.395 42.857 7.79 0.00 43.02 2.01
334 346 3.910817 TGCGGCAATGCAAAGATTT 57.089 42.105 7.79 0.00 43.02 2.17
346 358 1.472480 GCCTTCTCTTTATTTGCGGCA 59.528 47.619 0.00 0.00 36.37 5.69
429 835 3.108288 GCAGATTCCCGACCCCTCC 62.108 68.421 0.00 0.00 0.00 4.30
516 922 0.321671 CTGAAGGAAGAGGAACGGCA 59.678 55.000 0.00 0.00 0.00 5.69
579 1260 0.460987 CAGTGGAGCTCCGGAATGAC 60.461 60.000 27.43 18.25 39.43 3.06
612 1293 3.912907 CGCGGGTCTCGGGCTATT 61.913 66.667 0.00 0.00 44.45 1.73
906 1679 6.128715 CCAAGCTAGTTATGCGATGTAATCTG 60.129 42.308 0.00 0.00 42.58 2.90
1024 1811 0.734942 AAACCGCCGTCGTACATCAG 60.735 55.000 0.00 0.00 0.00 2.90
1041 1828 2.508439 GATGCCTCGGCGTCGAAA 60.508 61.111 15.23 2.04 45.47 3.46
1553 2349 1.140589 CTCGTCTTCCTGCTCGCAT 59.859 57.895 0.00 0.00 0.00 4.73
1873 2700 3.606153 GCCATGTACGTTCAGACAAACAC 60.606 47.826 0.00 0.00 0.00 3.32
1874 2701 2.546368 GCCATGTACGTTCAGACAAACA 59.454 45.455 0.00 0.00 0.00 2.83
1875 2702 2.546368 TGCCATGTACGTTCAGACAAAC 59.454 45.455 0.00 0.00 0.00 2.93
1876 2703 2.839975 TGCCATGTACGTTCAGACAAA 58.160 42.857 0.00 0.00 0.00 2.83
1877 2704 2.535012 TGCCATGTACGTTCAGACAA 57.465 45.000 0.00 0.00 0.00 3.18
1878 2705 2.028567 TGATGCCATGTACGTTCAGACA 60.029 45.455 0.00 0.00 0.00 3.41
1879 2706 2.604914 CTGATGCCATGTACGTTCAGAC 59.395 50.000 8.28 0.00 0.00 3.51
1880 2707 2.892374 CTGATGCCATGTACGTTCAGA 58.108 47.619 8.28 0.00 0.00 3.27
1881 2708 1.328680 GCTGATGCCATGTACGTTCAG 59.671 52.381 9.30 9.30 0.00 3.02
1882 2709 1.066215 AGCTGATGCCATGTACGTTCA 60.066 47.619 0.00 0.00 40.80 3.18
1883 2710 1.656652 AGCTGATGCCATGTACGTTC 58.343 50.000 0.00 0.00 40.80 3.95
1884 2711 2.979814 TAGCTGATGCCATGTACGTT 57.020 45.000 0.00 0.00 40.80 3.99
1885 2712 3.615110 GCTATAGCTGATGCCATGTACGT 60.615 47.826 17.75 0.00 40.80 3.57
1886 2713 2.926200 GCTATAGCTGATGCCATGTACG 59.074 50.000 17.75 0.00 40.80 3.67
1887 2714 2.926200 CGCTATAGCTGATGCCATGTAC 59.074 50.000 21.98 0.00 40.80 2.90
1888 2715 2.825532 TCGCTATAGCTGATGCCATGTA 59.174 45.455 21.98 0.00 40.80 2.29
1889 2716 1.620323 TCGCTATAGCTGATGCCATGT 59.380 47.619 21.98 0.00 40.80 3.21
1890 2717 1.998315 GTCGCTATAGCTGATGCCATG 59.002 52.381 21.98 3.84 40.80 3.66
1891 2718 1.898472 AGTCGCTATAGCTGATGCCAT 59.102 47.619 21.98 4.87 40.80 4.40
1892 2719 1.000171 CAGTCGCTATAGCTGATGCCA 60.000 52.381 21.98 0.00 40.80 4.92
1893 2720 1.270826 TCAGTCGCTATAGCTGATGCC 59.729 52.381 21.98 9.52 40.80 4.40
1894 2721 2.713895 TCAGTCGCTATAGCTGATGC 57.286 50.000 21.98 10.11 39.32 3.91
1895 2722 4.225984 GAGTTCAGTCGCTATAGCTGATG 58.774 47.826 21.98 16.09 38.79 3.07
1896 2723 3.254657 GGAGTTCAGTCGCTATAGCTGAT 59.745 47.826 21.98 5.83 38.79 2.90
1897 2724 2.619177 GGAGTTCAGTCGCTATAGCTGA 59.381 50.000 21.98 15.78 39.32 4.26
1898 2725 2.603412 CGGAGTTCAGTCGCTATAGCTG 60.603 54.545 21.98 13.76 39.32 4.24
1899 2726 1.604755 CGGAGTTCAGTCGCTATAGCT 59.395 52.381 21.98 0.86 39.32 3.32
1900 2727 1.334243 ACGGAGTTCAGTCGCTATAGC 59.666 52.381 15.09 15.09 37.78 2.97
1911 2738 7.730358 GATCGATGGATAGCAACGGAGTTCA 62.730 48.000 0.54 0.00 40.61 3.18
1912 2739 5.375514 GATCGATGGATAGCAACGGAGTTC 61.376 50.000 0.54 0.00 40.61 3.01
1913 2740 3.553096 GATCGATGGATAGCAACGGAGTT 60.553 47.826 0.54 0.00 42.57 3.01
1914 2741 2.029828 GATCGATGGATAGCAACGGAGT 60.030 50.000 0.54 0.00 35.52 3.85
1915 2742 2.600731 GATCGATGGATAGCAACGGAG 58.399 52.381 0.54 0.00 31.51 4.63
1916 2743 1.068541 CGATCGATGGATAGCAACGGA 60.069 52.381 10.26 0.00 31.51 4.69
1917 2744 1.340658 CGATCGATGGATAGCAACGG 58.659 55.000 10.26 0.00 31.51 4.44
1918 2745 1.340658 CCGATCGATGGATAGCAACG 58.659 55.000 18.66 0.00 31.51 4.10
1919 2746 1.071605 GCCGATCGATGGATAGCAAC 58.928 55.000 18.66 0.00 34.02 4.17
1920 2747 0.678950 TGCCGATCGATGGATAGCAA 59.321 50.000 18.66 0.00 38.42 3.91
1921 2748 0.897621 ATGCCGATCGATGGATAGCA 59.102 50.000 18.66 15.79 42.71 3.49
1922 2749 1.284657 CATGCCGATCGATGGATAGC 58.715 55.000 18.66 10.05 34.29 2.97
1923 2750 2.662006 ACATGCCGATCGATGGATAG 57.338 50.000 18.66 0.00 31.51 2.08
1924 2751 2.823154 TGTACATGCCGATCGATGGATA 59.177 45.455 18.66 5.49 31.51 2.59
1925 2752 1.618343 TGTACATGCCGATCGATGGAT 59.382 47.619 18.66 4.45 34.96 3.41
1926 2753 1.036707 TGTACATGCCGATCGATGGA 58.963 50.000 18.66 7.19 0.00 3.41
1927 2754 1.864565 TTGTACATGCCGATCGATGG 58.135 50.000 18.66 0.00 0.00 3.51
1928 2755 3.742882 AGAATTGTACATGCCGATCGATG 59.257 43.478 18.66 15.60 0.00 3.84
1929 2756 3.742882 CAGAATTGTACATGCCGATCGAT 59.257 43.478 18.66 0.00 0.00 3.59
1930 2757 3.123050 CAGAATTGTACATGCCGATCGA 58.877 45.455 18.66 0.00 0.00 3.59
1931 2758 3.060272 GTCAGAATTGTACATGCCGATCG 60.060 47.826 8.51 8.51 0.00 3.69
1932 2759 3.871006 TGTCAGAATTGTACATGCCGATC 59.129 43.478 0.00 0.00 0.00 3.69
1933 2760 3.872696 TGTCAGAATTGTACATGCCGAT 58.127 40.909 0.00 0.00 0.00 4.18
1934 2761 3.326836 TGTCAGAATTGTACATGCCGA 57.673 42.857 0.00 0.00 0.00 5.54
1935 2762 3.188254 TGTTGTCAGAATTGTACATGCCG 59.812 43.478 0.00 0.00 0.00 5.69
1936 2763 4.764679 TGTTGTCAGAATTGTACATGCC 57.235 40.909 0.00 0.00 0.00 4.40
1937 2764 5.061311 GCAATGTTGTCAGAATTGTACATGC 59.939 40.000 0.00 0.00 34.48 4.06
1938 2765 5.574055 GGCAATGTTGTCAGAATTGTACATG 59.426 40.000 0.00 0.00 34.48 3.21
1939 2766 5.619757 CGGCAATGTTGTCAGAATTGTACAT 60.620 40.000 0.00 0.00 34.48 2.29
1940 2767 4.320129 CGGCAATGTTGTCAGAATTGTACA 60.320 41.667 0.00 0.00 34.48 2.90
1941 2768 4.158384 CGGCAATGTTGTCAGAATTGTAC 58.842 43.478 9.87 0.00 34.48 2.90
1942 2769 3.190327 CCGGCAATGTTGTCAGAATTGTA 59.810 43.478 0.00 0.00 34.48 2.41
1943 2770 2.030007 CCGGCAATGTTGTCAGAATTGT 60.030 45.455 0.00 0.00 34.48 2.71
1944 2771 2.030007 ACCGGCAATGTTGTCAGAATTG 60.030 45.455 0.00 5.57 34.98 2.32
1945 2772 2.030007 CACCGGCAATGTTGTCAGAATT 60.030 45.455 0.00 0.00 31.86 2.17
1946 2773 1.541147 CACCGGCAATGTTGTCAGAAT 59.459 47.619 0.00 0.00 31.86 2.40
1947 2774 0.950836 CACCGGCAATGTTGTCAGAA 59.049 50.000 0.00 0.00 31.86 3.02
1948 2775 0.107643 TCACCGGCAATGTTGTCAGA 59.892 50.000 0.00 0.00 31.86 3.27
1949 2776 0.950836 TTCACCGGCAATGTTGTCAG 59.049 50.000 0.00 0.00 31.86 3.51
1950 2777 1.539388 GATTCACCGGCAATGTTGTCA 59.461 47.619 0.00 0.00 31.86 3.58
1951 2778 1.465689 CGATTCACCGGCAATGTTGTC 60.466 52.381 0.00 0.00 0.00 3.18
1952 2779 0.521291 CGATTCACCGGCAATGTTGT 59.479 50.000 0.00 0.00 0.00 3.32
1953 2780 0.798009 GCGATTCACCGGCAATGTTG 60.798 55.000 0.00 0.00 0.00 3.33
1954 2781 1.240641 TGCGATTCACCGGCAATGTT 61.241 50.000 0.00 0.00 33.01 2.71
1955 2782 1.647545 CTGCGATTCACCGGCAATGT 61.648 55.000 0.00 0.00 36.06 2.71
1956 2783 1.063006 CTGCGATTCACCGGCAATG 59.937 57.895 0.00 0.00 36.06 2.82
1957 2784 2.114670 CCTGCGATTCACCGGCAAT 61.115 57.895 0.00 0.00 36.06 3.56
1958 2785 2.745884 CCTGCGATTCACCGGCAA 60.746 61.111 0.00 0.00 36.06 4.52
1959 2786 4.015406 ACCTGCGATTCACCGGCA 62.015 61.111 0.00 0.00 35.07 5.69
1960 2787 3.499737 CACCTGCGATTCACCGGC 61.500 66.667 0.00 0.00 0.00 6.13
1961 2788 3.499737 GCACCTGCGATTCACCGG 61.500 66.667 0.00 0.00 0.00 5.28
1967 2794 3.687321 ATCGCCAGCACCTGCGATT 62.687 57.895 13.01 0.00 42.79 3.34
1971 2798 4.783621 TCCATCGCCAGCACCTGC 62.784 66.667 0.00 0.00 42.49 4.85
1972 2799 2.821366 GTCCATCGCCAGCACCTG 60.821 66.667 0.00 0.00 0.00 4.00
1985 2812 3.691342 CCGGCCAGAACTCGTCCA 61.691 66.667 2.24 0.00 0.00 4.02
2067 2894 0.768221 AGTTCAGTTGCCCCCTCTGA 60.768 55.000 0.00 0.00 36.59 3.27
2126 2993 7.434602 GGTTCGTTAGTGATTAATCTCTACCAC 59.565 40.741 21.28 17.36 33.94 4.16
2189 4091 4.153835 CGAGAGTAAACAAGAGGACGTACT 59.846 45.833 0.00 0.00 0.00 2.73
2224 4126 4.553678 CAACCTAGGTCCCCTGTAATAGA 58.446 47.826 16.64 0.00 34.61 1.98
2275 4184 3.648739 ACCTCTCTCCCTCTAAATCACC 58.351 50.000 0.00 0.00 0.00 4.02
2374 4287 2.418368 ATGTTTGCTCGCTATTGGGA 57.582 45.000 0.00 0.00 0.00 4.37
2418 4331 5.508224 CGAAGAATTTGCCATAGAAAACGTC 59.492 40.000 0.00 0.00 0.00 4.34
2545 4460 9.671279 CCTTTTATAAAGGCATGGATTTTTCTT 57.329 29.630 5.34 0.00 0.00 2.52
2554 4469 8.040132 TGAAAACATCCTTTTATAAAGGCATGG 58.960 33.333 13.90 6.58 37.34 3.66
2596 4517 5.290885 TCGTGCACAAGTAATTAGCATACTG 59.709 40.000 18.64 0.00 37.56 2.74
2612 4533 2.420722 TGTAGTCGTCATATCGTGCACA 59.579 45.455 18.64 4.45 0.00 4.57
2618 4539 6.560433 GCATTTTCTGTGTAGTCGTCATATCG 60.560 42.308 0.00 0.00 0.00 2.92
2624 4545 2.729882 ACGCATTTTCTGTGTAGTCGTC 59.270 45.455 0.00 0.00 46.61 4.20
2625 4546 2.750948 ACGCATTTTCTGTGTAGTCGT 58.249 42.857 0.00 0.00 46.61 4.34
2641 4569 7.843490 AAGAGAAATAGTATTTGCTTACGCA 57.157 32.000 12.86 0.00 46.24 5.24
2914 5030 6.513180 TCATGGCTTATACAAGTAGTAGCAC 58.487 40.000 14.36 7.64 35.85 4.40
2930 5052 3.181439 GCCCTTATCTTACCTCATGGCTT 60.181 47.826 0.00 0.00 36.63 4.35
2970 5092 7.125755 CGAGCAATTTGAAGCGATATCTTTTA 58.874 34.615 0.00 0.00 35.48 1.52
2981 5103 4.479619 AGATTTGACGAGCAATTTGAAGC 58.520 39.130 0.00 0.00 36.15 3.86


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

AutoCloner maintained by Alex Coulton.