Multiple sequence alignment - TraesCS5B01G154600

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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 TraesCS5B01G154600 chr5B 100.000 7657 0 0 1 7657 285035953 285043609 0.000000e+00 14140.0
1 TraesCS5B01G154600 chr5A 94.775 4593 136 46 100 4633 335289632 335294179 0.000000e+00 7057.0
2 TraesCS5B01G154600 chr5A 93.772 2264 79 31 4690 6905 335294159 335296408 0.000000e+00 3343.0
3 TraesCS5B01G154600 chr5A 95.778 758 19 6 6908 7657 335296472 335297224 0.000000e+00 1210.0
4 TraesCS5B01G154600 chr5A 90.132 152 14 1 1876 2026 303399810 303399961 6.060000e-46 196.0
5 TraesCS5B01G154600 chr5D 95.833 2736 77 13 1918 4639 252615802 252618514 0.000000e+00 4386.0
6 TraesCS5B01G154600 chr5D 93.965 2237 69 24 4690 6877 252618488 252620707 0.000000e+00 3323.0
7 TraesCS5B01G154600 chr5D 90.783 1953 81 41 1 1899 252613792 252615699 0.000000e+00 2518.0
8 TraesCS5B01G154600 chr5D 90.458 765 44 14 6912 7657 252620792 252621546 0.000000e+00 981.0
9 TraesCS5B01G154600 chr5D 88.889 162 16 2 1878 2038 256749952 256749792 1.690000e-46 198.0
10 TraesCS5B01G154600 chr1A 89.791 382 28 6 3088 3469 7517886 7517516 5.370000e-131 479.0
11 TraesCS5B01G154600 chr7D 81.875 320 29 13 3284 3576 563292011 563291694 7.680000e-60 243.0
12 TraesCS5B01G154600 chr7A 81.667 300 37 10 3632 3929 38080942 38080659 4.620000e-57 233.0
13 TraesCS5B01G154600 chr7A 86.310 168 19 4 1866 2031 701301523 701301358 6.100000e-41 180.0
14 TraesCS5B01G154600 chr3B 82.890 263 26 5 3672 3929 397324900 397324652 1.290000e-52 219.0
15 TraesCS5B01G154600 chr6A 89.697 165 13 3 1879 2042 110335227 110335388 2.800000e-49 207.0
16 TraesCS5B01G154600 chr6A 92.000 75 5 1 4617 4691 63168481 63168408 3.780000e-18 104.0
17 TraesCS5B01G154600 chr6D 90.196 153 13 1 1879 2031 91560114 91560264 1.690000e-46 198.0
18 TraesCS5B01G154600 chr2D 89.308 159 16 1 1873 2030 512769186 512769344 1.690000e-46 198.0
19 TraesCS5B01G154600 chr6B 89.032 155 13 2 1879 2031 175712609 175712761 1.010000e-43 189.0
20 TraesCS5B01G154600 chr6B 94.030 67 2 2 4625 4691 115143756 115143692 4.890000e-17 100.0
21 TraesCS5B01G154600 chr7B 86.310 168 19 4 1866 2031 700413942 700413777 6.100000e-41 180.0
22 TraesCS5B01G154600 chr7B 98.361 61 0 1 4632 4692 714454672 714454731 1.050000e-18 106.0
23 TraesCS5B01G154600 chr7B 96.667 60 2 0 4632 4691 706775651 706775592 4.890000e-17 100.0
24 TraesCS5B01G154600 chr7B 92.647 68 4 1 4625 4691 567597128 567597195 6.320000e-16 97.1
25 TraesCS5B01G154600 chr2A 98.361 61 1 0 4631 4691 516705246 516705306 2.920000e-19 108.0
26 TraesCS5B01G154600 chr3D 98.305 59 0 1 4633 4691 18585457 18585514 1.360000e-17 102.0
27 TraesCS5B01G154600 chr4B 94.030 67 1 3 4625 4691 473621130 473621067 1.760000e-16 99.0
28 TraesCS5B01G154600 chr4A 96.667 60 1 1 4632 4691 497859169 497859111 1.760000e-16 99.0


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 TraesCS5B01G154600 chr5B 285035953 285043609 7656 False 14140 14140 100.00000 1 7657 1 chr5B.!!$F1 7656
1 TraesCS5B01G154600 chr5A 335289632 335297224 7592 False 3870 7057 94.77500 100 7657 3 chr5A.!!$F2 7557
2 TraesCS5B01G154600 chr5D 252613792 252621546 7754 False 2802 4386 92.75975 1 7657 4 chr5D.!!$F1 7656

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
585 602 0.827507 AACAATCAAAGCGCCCCACT 60.828 50.000 2.29 0.00 0.00 4.00 F
897 921 0.900421 TCGAGTCGAGAGGGTGTCTA 59.100 55.000 12.09 0.00 34.71 2.59 F
1111 1136 0.926846 CTTCTCGCGAGATTCTTGGC 59.073 55.000 37.00 2.33 40.84 4.52 F
1360 1427 1.380380 CTTGGATTGTGGGGGAGCC 60.380 63.158 0.00 0.00 0.00 4.70 F
2154 2314 1.001746 AGAGTGTCTGACTGTGCCATG 59.998 52.381 9.51 0.00 33.83 3.66 F
3316 3483 1.661341 AATGCAGAAGACTCGATGGC 58.339 50.000 0.00 0.00 0.00 4.40 F
3653 3822 1.211703 TCCTGGTGTTCTGTGCTCAAA 59.788 47.619 0.00 0.00 0.00 2.69 F
4657 4834 0.037046 TTCGAAAAGGAGGCGTACCC 60.037 55.000 0.00 0.00 36.11 3.69 F
4678 4855 0.106335 CGGCCTCTGCATCTCTTGAT 59.894 55.000 0.00 0.00 40.13 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1678 1745 0.590195 GAGCGGCAGCCAAGATAATG 59.410 55.000 13.3 0.0 46.67 1.90 R
2014 2165 1.003580 TCACGTACTACCTCCGTTCCT 59.996 52.381 0.0 0.0 31.46 3.36 R
2154 2314 2.473816 GGAAGAACTTTTTGTGGCAGC 58.526 47.619 0.0 0.0 0.00 5.25 R
3212 3375 1.068474 CTTACAACTCGACCAAGGCG 58.932 55.000 0.0 0.0 0.00 5.52 R
3493 3660 0.622665 CTCCCAAAGAGGATGGCAGT 59.377 55.000 0.0 0.0 41.22 4.40 R
4638 4815 0.037046 GGGTACGCCTCCTTTTCGAA 60.037 55.000 0.0 0.0 34.45 3.71 R
4659 4836 0.106335 ATCAAGAGATGCAGAGGCCG 59.894 55.000 0.0 0.0 40.13 6.13 R
6255 6480 2.350772 CCAAACGCAGAAAGCTAACAGG 60.351 50.000 0.0 0.0 42.61 4.00 R
6678 6903 3.139077 CCTCCTTGCTTACACGAAAAGT 58.861 45.455 0.0 0.0 0.00 2.66 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
42 43 3.292492 TCGTCCAGTATGCCTCTAGAA 57.708 47.619 0.00 0.00 31.97 2.10
44 45 4.215908 TCGTCCAGTATGCCTCTAGAAAT 58.784 43.478 0.00 0.00 31.97 2.17
51 52 6.222389 CAGTATGCCTCTAGAAATGAGAAGG 58.778 44.000 0.00 0.00 33.68 3.46
54 55 7.732593 AGTATGCCTCTAGAAATGAGAAGGTAT 59.267 37.037 0.00 0.00 33.68 2.73
55 56 6.814954 TGCCTCTAGAAATGAGAAGGTATT 57.185 37.500 0.00 0.00 33.68 1.89
59 60 9.047371 GCCTCTAGAAATGAGAAGGTATTTTAC 57.953 37.037 0.00 0.00 33.68 2.01
89 90 4.713321 AGGACAGTAAAACCGAGCCTAATA 59.287 41.667 0.00 0.00 0.00 0.98
90 91 5.365895 AGGACAGTAAAACCGAGCCTAATAT 59.634 40.000 0.00 0.00 0.00 1.28
403 420 1.620739 TTTGCTTTGGGTTGCCAGCA 61.621 50.000 0.00 0.00 0.00 4.41
585 602 0.827507 AACAATCAAAGCGCCCCACT 60.828 50.000 2.29 0.00 0.00 4.00
586 603 1.244019 ACAATCAAAGCGCCCCACTC 61.244 55.000 2.29 0.00 0.00 3.51
587 604 0.962356 CAATCAAAGCGCCCCACTCT 60.962 55.000 2.29 0.00 0.00 3.24
588 605 0.962356 AATCAAAGCGCCCCACTCTG 60.962 55.000 2.29 0.00 0.00 3.35
589 606 3.741476 CAAAGCGCCCCACTCTGC 61.741 66.667 2.29 0.00 0.00 4.26
590 607 3.958860 AAAGCGCCCCACTCTGCT 61.959 61.111 2.29 0.00 39.89 4.24
705 727 3.122727 TTCCCACACCCGGAACCAC 62.123 63.158 0.73 0.00 34.40 4.16
721 743 4.704103 ACAGGAGGAGGAGCCGCA 62.704 66.667 0.00 0.00 43.43 5.69
749 771 4.082523 CCTTTCCCCGCTCGCAGA 62.083 66.667 0.00 0.00 0.00 4.26
791 813 2.887151 ACAATGGAGTGAAGGAAGGG 57.113 50.000 0.00 0.00 0.00 3.95
824 846 1.536073 CGTTGTGCTCCTCCTCCTCA 61.536 60.000 0.00 0.00 0.00 3.86
827 849 1.610673 GTGCTCCTCCTCCTCACCA 60.611 63.158 0.00 0.00 0.00 4.17
897 921 0.900421 TCGAGTCGAGAGGGTGTCTA 59.100 55.000 12.09 0.00 34.71 2.59
961 985 2.709213 CCTAGCTGCTTCTCTGCTTTT 58.291 47.619 7.79 0.00 46.06 2.27
972 996 1.211190 CTGCTTTTCTTGCCTCCGC 59.789 57.895 0.00 0.00 0.00 5.54
1079 1103 1.374190 CTGCTCAGCCTGGTGAGTT 59.626 57.895 22.95 0.00 45.07 3.01
1084 1109 3.971702 AGCCTGGTGAGTTGCCCC 61.972 66.667 0.00 0.00 0.00 5.80
1089 1114 2.190488 CTGGTGAGTTGCCCCTCCTC 62.190 65.000 0.00 0.00 0.00 3.71
1105 1130 1.028905 CCTCCTCTTCTCGCGAGATT 58.971 55.000 37.00 0.00 40.84 2.40
1106 1131 1.001815 CCTCCTCTTCTCGCGAGATTC 60.002 57.143 37.00 0.00 40.84 2.52
1107 1132 1.946768 CTCCTCTTCTCGCGAGATTCT 59.053 52.381 37.00 0.00 40.84 2.40
1108 1133 2.357637 CTCCTCTTCTCGCGAGATTCTT 59.642 50.000 37.00 0.00 40.84 2.52
1109 1134 2.098280 TCCTCTTCTCGCGAGATTCTTG 59.902 50.000 37.00 23.64 40.84 3.02
1110 1135 2.458951 CTCTTCTCGCGAGATTCTTGG 58.541 52.381 37.00 21.60 40.84 3.61
1111 1136 0.926846 CTTCTCGCGAGATTCTTGGC 59.073 55.000 37.00 2.33 40.84 4.52
1179 1204 2.237392 AGCCTTAGATGCCGAAAGAGTT 59.763 45.455 0.00 0.00 0.00 3.01
1234 1262 7.056006 TGCATGTTCATACAGTTGATAATCCT 58.944 34.615 0.00 0.00 37.77 3.24
1246 1274 8.734386 ACAGTTGATAATCCTTTCAGATTTCAC 58.266 33.333 0.00 0.00 37.62 3.18
1264 1292 9.023962 AGATTTCACCTTCTTATTATGCAACAA 57.976 29.630 0.00 0.00 0.00 2.83
1296 1327 5.873146 ATACTAGCTAAGTTTCAGGGACC 57.127 43.478 0.00 0.00 39.80 4.46
1298 1329 3.515901 ACTAGCTAAGTTTCAGGGACCAG 59.484 47.826 0.00 0.00 33.35 4.00
1360 1427 1.380380 CTTGGATTGTGGGGGAGCC 60.380 63.158 0.00 0.00 0.00 4.70
1568 1635 3.283751 GTCAGAGCTAGCTTCCTCTACA 58.716 50.000 20.42 0.00 36.33 2.74
1678 1745 2.901042 CCGGTTGTAGAGGAGGCC 59.099 66.667 0.00 0.00 0.00 5.19
1747 1814 1.553248 AGCACAGGACAGCCGTTTATA 59.447 47.619 0.00 0.00 39.96 0.98
1941 2092 7.687941 TCTGAATCAGATGTATATAGACGCA 57.312 36.000 9.18 0.00 35.39 5.24
2031 2182 4.907879 AATTAGGAACGGAGGTAGTACG 57.092 45.455 0.00 0.00 0.00 3.67
2032 2183 3.350219 TTAGGAACGGAGGTAGTACGT 57.650 47.619 0.00 0.00 43.43 3.57
2062 2213 8.735692 TGAACATTGTCAATAGCTTCATATGA 57.264 30.769 0.00 0.00 0.00 2.15
2063 2214 9.176460 TGAACATTGTCAATAGCTTCATATGAA 57.824 29.630 17.07 17.07 0.00 2.57
2064 2215 9.443283 GAACATTGTCAATAGCTTCATATGAAC 57.557 33.333 14.23 11.09 0.00 3.18
2065 2216 8.510243 ACATTGTCAATAGCTTCATATGAACA 57.490 30.769 14.23 6.30 0.00 3.18
2066 2217 9.128404 ACATTGTCAATAGCTTCATATGAACAT 57.872 29.630 14.23 8.24 0.00 2.71
2067 2218 9.961265 CATTGTCAATAGCTTCATATGAACATT 57.039 29.630 14.23 10.69 0.00 2.71
2068 2219 9.961265 ATTGTCAATAGCTTCATATGAACATTG 57.039 29.630 22.49 22.49 0.00 2.82
2069 2220 8.735692 TGTCAATAGCTTCATATGAACATTGA 57.264 30.769 24.72 24.72 0.00 2.57
2070 2221 9.176460 TGTCAATAGCTTCATATGAACATTGAA 57.824 29.630 27.28 20.33 34.12 2.69
2148 2308 3.231207 ACCACTAGAGTGTCTGACTGT 57.769 47.619 9.51 0.00 44.21 3.55
2154 2314 1.001746 AGAGTGTCTGACTGTGCCATG 59.998 52.381 9.51 0.00 33.83 3.66
2365 2526 5.596845 GACTCTTTGAGGAGAGCGAATTAT 58.403 41.667 2.00 0.00 45.64 1.28
2413 2574 6.936279 TGAAAGAATAACAACCACAAAACCA 58.064 32.000 0.00 0.00 0.00 3.67
2464 2625 4.394965 CTGAAAAGGTCATGCAAACAGCG 61.395 47.826 0.00 0.00 37.93 5.18
2841 3002 6.583427 CACTTGTCCACATTGTTGTTATCATG 59.417 38.462 0.00 0.00 32.34 3.07
2879 3040 5.183228 AGCTAACTGTGTAGTCTCTCTCTC 58.817 45.833 0.00 0.00 35.69 3.20
3212 3375 4.938226 CCTGAGGAGTTGACAAAGTTATCC 59.062 45.833 0.00 0.00 0.00 2.59
3215 3378 2.418976 GGAGTTGACAAAGTTATCCGCC 59.581 50.000 0.00 0.00 0.00 6.13
3316 3483 1.661341 AATGCAGAAGACTCGATGGC 58.339 50.000 0.00 0.00 0.00 4.40
3387 3554 5.473162 TGCAGTATATGTGAGTTTGCAGTTT 59.527 36.000 0.00 0.00 35.41 2.66
3450 3617 5.427036 TTGAACTAATCCAACGTGGTTTC 57.573 39.130 0.00 0.00 39.03 2.78
3469 3636 7.118390 GTGGTTTCATATATATGCAGTCACCTC 59.882 40.741 16.59 13.13 33.76 3.85
3487 3654 7.228706 AGTCACCTCGAAAACAATCAGTTAAAT 59.771 33.333 0.00 0.00 40.26 1.40
3493 3660 5.689514 CGAAAACAATCAGTTAAATGGTGCA 59.310 36.000 2.65 0.00 40.26 4.57
3494 3661 6.345723 CGAAAACAATCAGTTAAATGGTGCAC 60.346 38.462 8.80 8.80 40.26 4.57
3533 3700 5.481122 GGAGAACTACCTAACCTCAAAGAGT 59.519 44.000 0.00 0.00 0.00 3.24
3600 3767 7.659390 CCTTACTATGGAGAATGGAAGTTGATC 59.341 40.741 0.00 0.00 0.00 2.92
3638 3805 3.073062 TCCTTCCTCTCTTTGTTTCCTGG 59.927 47.826 0.00 0.00 0.00 4.45
3653 3822 1.211703 TCCTGGTGTTCTGTGCTCAAA 59.788 47.619 0.00 0.00 0.00 2.69
3717 3886 7.509141 TGCATTTGATCAAGAGTCTTTACAA 57.491 32.000 8.41 7.26 0.00 2.41
3740 3909 8.560374 ACAAAAATAGAACTTCTGCACTTACTC 58.440 33.333 1.17 0.00 0.00 2.59
3938 4114 5.424121 ACAAGCTTCACTTTGTGACATAC 57.576 39.130 0.00 0.00 42.60 2.39
3978 4155 1.425066 AGCAACAATGGTCCTTCAGGA 59.575 47.619 0.00 0.00 43.08 3.86
3986 4163 1.376466 GTCCTTCAGGAGCCAAGCA 59.624 57.895 0.00 0.00 46.49 3.91
4099 4276 3.326747 GGCCAAGTGATAGTATTAGCCG 58.673 50.000 0.00 0.00 0.00 5.52
4127 4304 4.627035 ACCATCATAATCATCGTATGTGCG 59.373 41.667 0.00 0.00 31.96 5.34
4155 4332 1.448985 GGCCATCTTGTTACTTGCGA 58.551 50.000 0.00 0.00 0.00 5.10
4223 4400 4.992319 CCTTCACGTGGTATGTGTTCTTTA 59.008 41.667 17.00 0.00 36.53 1.85
4247 4424 4.081642 GCTCAGTGGATGTTTCTGGTACTA 60.082 45.833 0.00 0.00 0.00 1.82
4548 4725 1.813178 GGTCTGCTTCTGTTTTAGCCC 59.187 52.381 0.00 0.00 36.56 5.19
4584 4761 1.762957 TCCAAGTGTAGCTCTATGGCC 59.237 52.381 0.00 0.00 0.00 5.36
4625 4802 5.319139 CGTTGAAGAGATAAACACAGCATG 58.681 41.667 0.00 0.00 46.00 4.06
4652 4829 3.619233 TTTTTCTTCGAAAAGGAGGCG 57.381 42.857 0.00 0.00 33.03 5.52
4653 4830 2.249844 TTTCTTCGAAAAGGAGGCGT 57.750 45.000 0.00 0.00 33.03 5.68
4654 4831 3.389925 TTTCTTCGAAAAGGAGGCGTA 57.610 42.857 0.00 0.00 33.03 4.42
4655 4832 2.358939 TCTTCGAAAAGGAGGCGTAC 57.641 50.000 0.00 0.00 33.03 3.67
4656 4833 1.067354 TCTTCGAAAAGGAGGCGTACC 60.067 52.381 0.00 0.00 33.03 3.34
4657 4834 0.037046 TTCGAAAAGGAGGCGTACCC 60.037 55.000 0.00 0.00 36.11 3.69
4658 4835 1.449070 CGAAAAGGAGGCGTACCCC 60.449 63.158 0.00 0.00 36.11 4.95
4659 4836 1.077930 GAAAAGGAGGCGTACCCCC 60.078 63.158 0.00 0.00 36.11 5.40
4660 4837 2.864378 GAAAAGGAGGCGTACCCCCG 62.864 65.000 0.00 0.00 36.11 5.73
4670 4847 4.815973 TACCCCCGGCCTCTGCAT 62.816 66.667 0.00 0.00 40.13 3.96
4673 4850 4.247380 CCCCGGCCTCTGCATCTC 62.247 72.222 0.00 0.00 40.13 2.75
4674 4851 3.160047 CCCGGCCTCTGCATCTCT 61.160 66.667 0.00 0.00 40.13 3.10
4675 4852 2.739996 CCCGGCCTCTGCATCTCTT 61.740 63.158 0.00 0.00 40.13 2.85
4676 4853 1.523258 CCGGCCTCTGCATCTCTTG 60.523 63.158 0.00 0.00 40.13 3.02
4677 4854 1.519246 CGGCCTCTGCATCTCTTGA 59.481 57.895 0.00 0.00 40.13 3.02
4678 4855 0.106335 CGGCCTCTGCATCTCTTGAT 59.894 55.000 0.00 0.00 40.13 2.57
4687 4864 2.826979 CATCTCTTGATGCACACAGC 57.173 50.000 0.00 0.00 42.83 4.40
4688 4865 1.400846 CATCTCTTGATGCACACAGCC 59.599 52.381 0.00 0.00 42.83 4.85
4689 4866 0.397564 TCTCTTGATGCACACAGCCA 59.602 50.000 0.00 0.00 44.83 4.75
4690 4867 1.003928 TCTCTTGATGCACACAGCCAT 59.996 47.619 0.00 0.00 44.83 4.40
4691 4868 2.236893 TCTCTTGATGCACACAGCCATA 59.763 45.455 0.00 0.00 44.83 2.74
4692 4869 3.011818 CTCTTGATGCACACAGCCATAA 58.988 45.455 0.00 0.00 44.83 1.90
4693 4870 3.419943 TCTTGATGCACACAGCCATAAA 58.580 40.909 0.00 0.00 44.83 1.40
4694 4871 3.191162 TCTTGATGCACACAGCCATAAAC 59.809 43.478 0.00 0.00 44.83 2.01
4695 4872 2.512705 TGATGCACACAGCCATAAACA 58.487 42.857 0.00 0.00 44.83 2.83
4696 4873 2.228582 TGATGCACACAGCCATAAACAC 59.771 45.455 0.00 0.00 44.83 3.32
4697 4874 1.685148 TGCACACAGCCATAAACACA 58.315 45.000 0.00 0.00 44.83 3.72
4698 4875 1.608109 TGCACACAGCCATAAACACAG 59.392 47.619 0.00 0.00 44.83 3.66
4699 4876 1.666888 GCACACAGCCATAAACACAGC 60.667 52.381 0.00 0.00 37.23 4.40
4700 4877 1.608109 CACACAGCCATAAACACAGCA 59.392 47.619 0.00 0.00 0.00 4.41
4701 4878 2.229543 CACACAGCCATAAACACAGCAT 59.770 45.455 0.00 0.00 0.00 3.79
4732 4909 6.648879 TGTTTCTGCTTTTAGTATGGCTTT 57.351 33.333 0.00 0.00 0.00 3.51
4770 4947 5.129634 TGTTGTGAAGCAAGAACCTGATAA 58.870 37.500 0.00 0.00 37.83 1.75
4819 4996 9.448438 AATCTAATGACTTGTTAATGTGCTGTA 57.552 29.630 0.00 0.00 0.00 2.74
4852 5029 9.638239 TGACAATTTTTGCCTCAATTATACTTC 57.362 29.630 0.00 0.00 0.00 3.01
4853 5030 9.860898 GACAATTTTTGCCTCAATTATACTTCT 57.139 29.630 0.00 0.00 0.00 2.85
4854 5031 9.860898 ACAATTTTTGCCTCAATTATACTTCTC 57.139 29.630 0.00 0.00 0.00 2.87
4858 5035 8.498054 TTTTGCCTCAATTATACTTCTCTCTG 57.502 34.615 0.00 0.00 0.00 3.35
4860 5037 7.898014 TGCCTCAATTATACTTCTCTCTGTA 57.102 36.000 0.00 0.00 0.00 2.74
4861 5038 8.484214 TGCCTCAATTATACTTCTCTCTGTAT 57.516 34.615 0.00 0.00 34.29 2.29
4863 5040 8.364142 GCCTCAATTATACTTCTCTCTGTATGT 58.636 37.037 0.00 0.00 32.42 2.29
4864 5041 9.906660 CCTCAATTATACTTCTCTCTGTATGTC 57.093 37.037 0.00 0.00 32.42 3.06
4867 5044 9.469807 CAATTATACTTCTCTCTGTATGTCACC 57.530 37.037 0.00 0.00 32.42 4.02
4871 5067 4.219507 ACTTCTCTCTGTATGTCACCACTG 59.780 45.833 0.00 0.00 0.00 3.66
4987 5184 6.202379 GTCTACTGAACATCCATGTCATGATG 59.798 42.308 14.67 16.12 40.80 3.07
5042 5240 5.055642 TGCTCATGCATTTCTTTCTTCTG 57.944 39.130 0.00 0.00 45.31 3.02
5060 5258 2.093288 TCTGGATGTTGTCCTGATGAGC 60.093 50.000 0.23 0.00 46.45 4.26
5182 5380 3.398406 TGTGTACGAGTTCATGCACAAT 58.602 40.909 0.00 0.00 34.49 2.71
5274 5477 2.287788 GCATACTGTTGGCATATGCACC 60.288 50.000 28.07 15.31 46.82 5.01
5332 5535 7.011482 GGCAACTGTATTTAGGATCTTGTACAG 59.989 40.741 17.47 17.47 42.72 2.74
5486 5710 9.841295 TTCCAGTAGTACACAGAAAATTTAGTT 57.159 29.630 2.52 0.00 0.00 2.24
5571 5796 7.048512 ACTGTTAGATTAATGTGCTCCTTACC 58.951 38.462 0.00 0.00 0.00 2.85
5623 5848 8.964476 ATTAAACCTCTGAATTATGACGATGT 57.036 30.769 0.00 0.00 0.00 3.06
5716 5941 3.243907 CGAAAGGTCTGTCTCAGTTTCCT 60.244 47.826 0.00 0.00 33.16 3.36
6011 6236 4.569943 TCCTGAGCTCATAGTGTTTGTTC 58.430 43.478 18.63 0.00 0.00 3.18
6076 6301 8.034313 TGGTAGCATCTGAGGTATAATTTTCT 57.966 34.615 0.00 0.00 0.00 2.52
6128 6353 1.279496 ACATCTCCCAGCAGCTAACA 58.721 50.000 0.00 0.00 0.00 2.41
6255 6480 2.544267 GCATGGGTAAGTATCTTGCGAC 59.456 50.000 0.00 0.00 0.00 5.19
6440 6665 1.304282 GGAGGTGGGCATCATGTGT 59.696 57.895 0.00 0.00 0.00 3.72
6739 6964 6.206048 TGTTAGTTAGGCTTTACTTTTCCTGC 59.794 38.462 7.20 0.00 0.00 4.85
6815 7040 4.872124 GGAATTTGATGGTGAAAGATTGGC 59.128 41.667 0.00 0.00 0.00 4.52
6830 7055 3.197766 AGATTGGCGATCTGGAACTGTTA 59.802 43.478 16.53 0.00 43.52 2.41
6839 7067 6.546395 CGATCTGGAACTGTTATTTTCCTTG 58.454 40.000 0.00 0.00 41.76 3.61
6844 7072 7.123547 TCTGGAACTGTTATTTTCCTTGTTGTT 59.876 33.333 0.00 0.00 41.76 2.83
6849 7077 7.193595 ACTGTTATTTTCCTTGTTGTTCTTCG 58.806 34.615 0.00 0.00 0.00 3.79
6888 7116 2.938956 GGATGTCATCCTTGGTAGGG 57.061 55.000 22.64 0.00 46.19 3.53
6929 7219 4.219288 AGGAACTGCTGGATTCAATTTCAC 59.781 41.667 0.00 0.00 37.18 3.18
7014 7315 4.734398 TCCAAAAAGCTTGCTTGAGAAA 57.266 36.364 18.60 3.71 0.00 2.52
7252 7561 6.438763 GCAAGAAAACATTTACACAGCTACT 58.561 36.000 0.00 0.00 0.00 2.57
7272 7581 6.033619 GCTACTATGGCGAAATAGAACATACG 59.966 42.308 10.70 0.00 34.73 3.06
7348 7658 7.684317 TGTATCCATATACTTCAAGGACCAA 57.316 36.000 0.00 0.00 39.05 3.67
7408 7719 2.151502 TGACCAAGCAAGGGAACAAA 57.848 45.000 0.00 0.00 0.00 2.83
7409 7720 2.461695 TGACCAAGCAAGGGAACAAAA 58.538 42.857 0.00 0.00 0.00 2.44
7463 7774 2.293677 ACGTTCACAACACCACACAAAA 59.706 40.909 0.00 0.00 0.00 2.44
7470 7781 6.455647 TCACAACACCACACAAAACAAAATA 58.544 32.000 0.00 0.00 0.00 1.40
7536 7847 7.959689 TCAAATTGGTGGATAAAATGTTGTG 57.040 32.000 0.00 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 8.609176 GCATACTGGACGATTTTTAAGAATACA 58.391 33.333 0.00 0.00 0.00 2.29
9 10 8.068380 GGCATACTGGACGATTTTTAAGAATAC 58.932 37.037 0.00 0.00 0.00 1.89
27 28 6.183360 ACCTTCTCATTTCTAGAGGCATACTG 60.183 42.308 0.00 0.00 33.92 2.74
28 29 5.902431 ACCTTCTCATTTCTAGAGGCATACT 59.098 40.000 0.00 0.00 33.92 2.12
55 56 9.995003 TCGGTTTTACTGTCCTAATTTAGTAAA 57.005 29.630 0.00 0.00 41.33 2.01
59 60 6.036844 GGCTCGGTTTTACTGTCCTAATTTAG 59.963 42.308 0.00 0.00 0.00 1.85
60 61 5.876460 GGCTCGGTTTTACTGTCCTAATTTA 59.124 40.000 0.00 0.00 0.00 1.40
61 62 4.698780 GGCTCGGTTTTACTGTCCTAATTT 59.301 41.667 0.00 0.00 0.00 1.82
62 63 4.019591 AGGCTCGGTTTTACTGTCCTAATT 60.020 41.667 0.00 0.00 30.87 1.40
63 64 3.518303 AGGCTCGGTTTTACTGTCCTAAT 59.482 43.478 0.00 0.00 30.87 1.73
64 65 2.901839 AGGCTCGGTTTTACTGTCCTAA 59.098 45.455 0.00 0.00 30.87 2.69
65 66 2.532843 AGGCTCGGTTTTACTGTCCTA 58.467 47.619 0.00 0.00 30.87 2.94
66 67 1.349067 AGGCTCGGTTTTACTGTCCT 58.651 50.000 0.00 0.00 0.00 3.85
67 68 3.323751 TTAGGCTCGGTTTTACTGTCC 57.676 47.619 0.00 0.00 0.00 4.02
68 69 6.278363 TGATATTAGGCTCGGTTTTACTGTC 58.722 40.000 0.00 0.00 0.00 3.51
69 70 6.229936 TGATATTAGGCTCGGTTTTACTGT 57.770 37.500 0.00 0.00 0.00 3.55
70 71 6.018180 GGTTGATATTAGGCTCGGTTTTACTG 60.018 42.308 0.00 0.00 0.00 2.74
71 72 6.053650 GGTTGATATTAGGCTCGGTTTTACT 58.946 40.000 0.00 0.00 0.00 2.24
72 73 5.237996 GGGTTGATATTAGGCTCGGTTTTAC 59.762 44.000 0.00 0.00 0.00 2.01
89 90 4.392940 GCATAGTGCATAAGAGGGTTGAT 58.607 43.478 0.00 0.00 44.26 2.57
90 91 3.808728 GCATAGTGCATAAGAGGGTTGA 58.191 45.455 0.00 0.00 44.26 3.18
141 146 2.586425 CCTCAAAAGCAACCTTCCTCA 58.414 47.619 0.00 0.00 0.00 3.86
278 292 3.512724 TGTGGTAGTAGCTAGGGTGTTTC 59.487 47.826 0.00 0.00 0.00 2.78
350 367 4.757149 ACACTAATTCTCTTGGAACTGTGC 59.243 41.667 0.00 0.00 36.33 4.57
506 523 0.878416 GAGAGAGTGCGTCTGTCTGT 59.122 55.000 11.84 0.00 45.07 3.41
585 602 4.074970 GGGAGAAAGAAATCAACAGCAGA 58.925 43.478 0.00 0.00 0.00 4.26
586 603 3.192212 GGGGAGAAAGAAATCAACAGCAG 59.808 47.826 0.00 0.00 0.00 4.24
587 604 3.157087 GGGGAGAAAGAAATCAACAGCA 58.843 45.455 0.00 0.00 0.00 4.41
588 605 3.157087 TGGGGAGAAAGAAATCAACAGC 58.843 45.455 0.00 0.00 0.00 4.40
589 606 3.192212 GCTGGGGAGAAAGAAATCAACAG 59.808 47.826 0.00 0.00 0.00 3.16
590 607 3.157087 GCTGGGGAGAAAGAAATCAACA 58.843 45.455 0.00 0.00 0.00 3.33
705 727 3.847602 CTGCGGCTCCTCCTCCTG 61.848 72.222 0.00 0.00 0.00 3.86
721 743 1.303970 GGGAAAGGCTCTGCTTGCT 60.304 57.895 0.00 0.00 0.00 3.91
760 782 4.128388 CATTGTTTCCGCCGGGGC 62.128 66.667 14.15 0.00 34.94 5.80
763 785 1.674322 ACTCCATTGTTTCCGCCGG 60.674 57.895 0.00 0.00 0.00 6.13
812 834 0.975040 CAGGTGGTGAGGAGGAGGAG 60.975 65.000 0.00 0.00 0.00 3.69
813 835 1.079256 CAGGTGGTGAGGAGGAGGA 59.921 63.158 0.00 0.00 0.00 3.71
814 836 2.664081 GCAGGTGGTGAGGAGGAGG 61.664 68.421 0.00 0.00 0.00 4.30
844 866 0.909623 AAACCGACCGGATCCTCATT 59.090 50.000 16.07 0.00 38.96 2.57
897 921 2.850439 TCGTCCGTCGATCTTGAGT 58.150 52.632 0.00 0.00 44.01 3.41
935 959 0.036010 GAGAAGCAGCTAGGCAACCA 60.036 55.000 0.00 0.00 35.83 3.67
972 996 1.078356 TCTCGAGACCTCACTCCCG 60.078 63.158 12.08 0.00 33.83 5.14
1017 1041 0.975040 GCTGGAGCTGGAGGAGAAGA 60.975 60.000 0.00 0.00 38.21 2.87
1079 1103 1.002274 GAGAAGAGGAGGAGGGGCA 59.998 63.158 0.00 0.00 0.00 5.36
1084 1109 0.462937 TCTCGCGAGAAGAGGAGGAG 60.463 60.000 35.16 6.81 41.32 3.69
1089 1114 2.458951 CAAGAATCTCGCGAGAAGAGG 58.541 52.381 39.43 24.05 41.36 3.69
1110 1135 2.004408 ATCCTCCATGGCCCAAGAGC 62.004 60.000 6.96 0.00 35.26 4.09
1111 1136 0.554792 AATCCTCCATGGCCCAAGAG 59.445 55.000 6.96 7.08 35.26 2.85
1220 1245 8.734386 GTGAAATCTGAAAGGATTATCAACTGT 58.266 33.333 0.00 0.00 35.19 3.55
1221 1246 8.186821 GGTGAAATCTGAAAGGATTATCAACTG 58.813 37.037 0.00 0.00 35.19 3.16
1234 1262 9.241919 TGCATAATAAGAAGGTGAAATCTGAAA 57.758 29.630 0.00 0.00 0.00 2.69
1246 1274 8.971321 GCATACATTTGTTGCATAATAAGAAGG 58.029 33.333 10.77 0.00 34.53 3.46
1288 1319 5.127031 GCTATTTTTATTTGCTGGTCCCTGA 59.873 40.000 0.00 0.00 0.00 3.86
1289 1320 5.105392 TGCTATTTTTATTTGCTGGTCCCTG 60.105 40.000 0.00 0.00 0.00 4.45
1290 1321 5.022787 TGCTATTTTTATTTGCTGGTCCCT 58.977 37.500 0.00 0.00 0.00 4.20
1291 1322 5.337578 TGCTATTTTTATTTGCTGGTCCC 57.662 39.130 0.00 0.00 0.00 4.46
1292 1323 7.848223 ATTTGCTATTTTTATTTGCTGGTCC 57.152 32.000 0.00 0.00 0.00 4.46
1293 1324 8.177013 CCAATTTGCTATTTTTATTTGCTGGTC 58.823 33.333 0.00 0.00 0.00 4.02
1294 1325 7.121020 CCCAATTTGCTATTTTTATTTGCTGGT 59.879 33.333 0.00 0.00 0.00 4.00
1296 1327 6.968335 GCCCAATTTGCTATTTTTATTTGCTG 59.032 34.615 0.00 0.00 0.00 4.41
1298 1329 7.087409 AGCCCAATTTGCTATTTTTATTTGC 57.913 32.000 0.00 0.00 37.28 3.68
1360 1427 4.319984 CCAATGCCATCTGTGTAATCATCG 60.320 45.833 0.00 0.00 0.00 3.84
1465 1532 7.201652 GCTGGAAAATACCTCAGAGTTGAATAC 60.202 40.741 0.00 0.00 31.69 1.89
1568 1635 2.030457 CGTTGCTGTTGTCGAAGTTTCT 59.970 45.455 0.00 0.00 0.00 2.52
1678 1745 0.590195 GAGCGGCAGCCAAGATAATG 59.410 55.000 13.30 0.00 46.67 1.90
1828 1895 5.594926 CCATCAGCACCAAAATTTATCCTC 58.405 41.667 0.00 0.00 0.00 3.71
1941 2092 9.260002 GAAATGAGTGACCAAACACATTAAAAT 57.740 29.630 0.00 0.00 39.46 1.82
1947 2098 4.889409 ACTGAAATGAGTGACCAAACACAT 59.111 37.500 0.00 0.00 42.45 3.21
2014 2165 1.003580 TCACGTACTACCTCCGTTCCT 59.996 52.381 0.00 0.00 31.46 3.36
2031 2182 8.615211 TGAAGCTATTGACAATGTTCATATCAC 58.385 33.333 11.05 0.00 0.00 3.06
2032 2183 8.735692 TGAAGCTATTGACAATGTTCATATCA 57.264 30.769 11.05 3.94 0.00 2.15
2062 2213 7.903995 AGAACAAACACATGTTTTCAATGTT 57.096 28.000 11.27 11.27 45.07 2.71
2063 2214 7.623925 GCAAGAACAAACACATGTTTTCAATGT 60.624 33.333 7.26 0.69 45.07 2.71
2064 2215 6.683708 GCAAGAACAAACACATGTTTTCAATG 59.316 34.615 7.26 8.29 45.07 2.82
2065 2216 6.370994 TGCAAGAACAAACACATGTTTTCAAT 59.629 30.769 7.26 0.00 45.07 2.57
2066 2217 5.698089 TGCAAGAACAAACACATGTTTTCAA 59.302 32.000 7.26 0.00 45.07 2.69
2067 2218 5.233225 TGCAAGAACAAACACATGTTTTCA 58.767 33.333 7.26 0.00 45.07 2.69
2068 2219 5.776519 TGCAAGAACAAACACATGTTTTC 57.223 34.783 7.26 4.47 45.07 2.29
2069 2220 6.594937 AGATTGCAAGAACAAACACATGTTTT 59.405 30.769 4.94 0.00 45.07 2.43
2154 2314 2.473816 GGAAGAACTTTTTGTGGCAGC 58.526 47.619 0.00 0.00 0.00 5.25
2365 2526 2.507484 CCTGGAGCAACATCAACAAGA 58.493 47.619 0.00 0.00 0.00 3.02
2413 2574 6.932356 TCTAATTCAGTACCGACGAATACT 57.068 37.500 0.00 0.88 32.33 2.12
2850 3011 4.987832 AGACTACACAGTTAGCTTGATCG 58.012 43.478 0.00 0.00 34.21 3.69
2892 3053 8.926715 AACCACTCAATTAGTCAAAAAGTTTC 57.073 30.769 0.00 0.00 35.76 2.78
2910 3073 5.822519 TGCTGTCAATATTATGGAACCACTC 59.177 40.000 0.00 0.00 0.00 3.51
3212 3375 1.068474 CTTACAACTCGACCAAGGCG 58.932 55.000 0.00 0.00 0.00 5.52
3215 3378 2.989840 CTGAGCTTACAACTCGACCAAG 59.010 50.000 0.00 0.00 36.94 3.61
3316 3483 4.082026 GGGATTCCACCAGAAAATGAGTTG 60.082 45.833 4.80 0.00 38.21 3.16
3421 3588 9.233649 ACCACGTTGGATTAGTTCAATATAAAA 57.766 29.630 10.46 0.00 40.96 1.52
3422 3589 8.795842 ACCACGTTGGATTAGTTCAATATAAA 57.204 30.769 10.46 0.00 40.96 1.40
3423 3590 8.795842 AACCACGTTGGATTAGTTCAATATAA 57.204 30.769 10.46 0.00 40.96 0.98
3424 3591 8.795842 AAACCACGTTGGATTAGTTCAATATA 57.204 30.769 10.46 0.00 40.96 0.86
3425 3592 7.392113 TGAAACCACGTTGGATTAGTTCAATAT 59.608 33.333 10.46 0.00 40.96 1.28
3426 3593 6.711194 TGAAACCACGTTGGATTAGTTCAATA 59.289 34.615 10.46 0.00 40.96 1.90
3427 3594 5.533154 TGAAACCACGTTGGATTAGTTCAAT 59.467 36.000 10.46 0.00 40.96 2.57
3450 3617 7.384932 TGTTTTCGAGGTGACTGCATATATATG 59.615 37.037 17.01 17.01 44.43 1.78
3469 3636 5.689514 TGCACCATTTAACTGATTGTTTTCG 59.310 36.000 0.00 0.00 39.89 3.46
3487 3654 1.782201 AAGAGGATGGCAGTGCACCA 61.782 55.000 18.61 4.86 42.61 4.17
3493 3660 0.622665 CTCCCAAAGAGGATGGCAGT 59.377 55.000 0.00 0.00 41.22 4.40
3494 3661 0.914644 TCTCCCAAAGAGGATGGCAG 59.085 55.000 0.00 0.00 43.44 4.85
3533 3700 9.243637 GTGCACAAAATTATGAAGAACTTACAA 57.756 29.630 13.17 0.00 0.00 2.41
3562 3729 5.544682 TCCATAGTAAGGGGTGGATAAACT 58.455 41.667 0.00 0.00 35.91 2.66
3569 3736 3.073062 CCATTCTCCATAGTAAGGGGTGG 59.927 52.174 0.00 0.00 0.00 4.61
3600 3767 0.833834 AGGACAGTCTGGACCACTGG 60.834 60.000 14.75 0.00 44.86 4.00
3638 3805 5.275881 CGACAAAAATTTGAGCACAGAACAC 60.276 40.000 12.54 0.00 40.55 3.32
3717 3886 8.854614 ATGAGTAAGTGCAGAAGTTCTATTTT 57.145 30.769 4.74 1.29 0.00 1.82
3740 3909 1.269012 ACCTGCAATGGTTGGGAATG 58.731 50.000 0.00 0.00 36.89 2.67
3883 4053 8.094548 ACAGTAGTGTTCTCAAGCACAATATTA 58.905 33.333 0.00 0.00 38.02 0.98
3929 4099 5.047872 ACGTATGTTACCACTGTATGTCACA 60.048 40.000 0.00 0.00 35.30 3.58
3938 4114 4.095932 TGCTCTCTACGTATGTTACCACTG 59.904 45.833 0.00 0.00 0.00 3.66
3978 4155 4.137543 GTGGCTAATACTATTGCTTGGCT 58.862 43.478 0.00 0.00 0.00 4.75
4099 4276 1.129251 CGATGATTATGATGGTGCCGC 59.871 52.381 0.00 0.00 0.00 6.53
4127 4304 1.984026 CAAGATGGCCCCAACCACC 60.984 63.158 0.00 0.00 44.17 4.61
4155 4332 4.221262 ACACAAACAGCATCCAATAGCAAT 59.779 37.500 0.00 0.00 0.00 3.56
4223 4400 1.701847 ACCAGAAACATCCACTGAGCT 59.298 47.619 0.00 0.00 34.07 4.09
4317 4494 4.689612 TCACTGAAATATGACCCTAGCC 57.310 45.455 0.00 0.00 0.00 3.93
4548 4725 7.730364 ACACTTGGAGTAGAAACATAAACAG 57.270 36.000 0.00 0.00 0.00 3.16
4584 4761 4.448395 TCAACGGTGAAAAAGGTATGTACG 59.552 41.667 0.00 0.00 0.00 3.67
4632 4809 2.946990 ACGCCTCCTTTTCGAAGAAAAA 59.053 40.909 8.92 0.00 45.90 1.94
4633 4810 2.567985 ACGCCTCCTTTTCGAAGAAAA 58.432 42.857 0.00 7.58 45.90 2.29
4634 4811 2.249844 ACGCCTCCTTTTCGAAGAAA 57.750 45.000 0.00 0.00 45.90 2.52
4635 4812 2.611224 GGTACGCCTCCTTTTCGAAGAA 60.611 50.000 0.00 0.00 45.90 2.52
4636 4813 1.067354 GGTACGCCTCCTTTTCGAAGA 60.067 52.381 0.00 0.00 0.00 2.87
4637 4814 1.356938 GGTACGCCTCCTTTTCGAAG 58.643 55.000 0.00 0.00 0.00 3.79
4638 4815 0.037046 GGGTACGCCTCCTTTTCGAA 60.037 55.000 0.00 0.00 34.45 3.71
4639 4816 1.593265 GGGTACGCCTCCTTTTCGA 59.407 57.895 0.00 0.00 34.45 3.71
4640 4817 1.449070 GGGGTACGCCTCCTTTTCG 60.449 63.158 21.18 0.00 34.11 3.46
4641 4818 4.631773 GGGGTACGCCTCCTTTTC 57.368 61.111 21.18 0.00 34.11 2.29
4653 4830 4.815973 ATGCAGAGGCCGGGGGTA 62.816 66.667 2.18 0.00 40.13 3.69
4656 4833 4.247380 GAGATGCAGAGGCCGGGG 62.247 72.222 2.18 0.00 40.13 5.73
4657 4834 2.739996 AAGAGATGCAGAGGCCGGG 61.740 63.158 2.18 0.00 40.13 5.73
4658 4835 1.523258 CAAGAGATGCAGAGGCCGG 60.523 63.158 0.00 0.00 40.13 6.13
4659 4836 0.106335 ATCAAGAGATGCAGAGGCCG 59.894 55.000 0.00 0.00 40.13 6.13
4660 4837 1.595466 CATCAAGAGATGCAGAGGCC 58.405 55.000 0.00 0.00 44.61 5.19
4669 4846 1.003928 TGGCTGTGTGCATCAAGAGAT 59.996 47.619 0.00 0.00 45.15 2.75
4670 4847 0.397564 TGGCTGTGTGCATCAAGAGA 59.602 50.000 0.00 0.00 45.15 3.10
4671 4848 1.460504 ATGGCTGTGTGCATCAAGAG 58.539 50.000 0.00 0.00 45.15 2.85
4672 4849 2.785540 TATGGCTGTGTGCATCAAGA 57.214 45.000 0.00 0.00 45.15 3.02
4673 4850 3.057386 TGTTTATGGCTGTGTGCATCAAG 60.057 43.478 0.00 0.00 45.15 3.02
4674 4851 2.889678 TGTTTATGGCTGTGTGCATCAA 59.110 40.909 0.00 0.00 45.15 2.57
4675 4852 2.228582 GTGTTTATGGCTGTGTGCATCA 59.771 45.455 0.00 0.00 45.15 3.07
4676 4853 2.228582 TGTGTTTATGGCTGTGTGCATC 59.771 45.455 0.00 0.00 45.15 3.91
4677 4854 2.229543 CTGTGTTTATGGCTGTGTGCAT 59.770 45.455 0.00 0.00 45.15 3.96
4678 4855 1.608109 CTGTGTTTATGGCTGTGTGCA 59.392 47.619 0.00 0.00 45.15 4.57
4679 4856 1.666888 GCTGTGTTTATGGCTGTGTGC 60.667 52.381 0.00 0.00 41.94 4.57
4680 4857 1.608109 TGCTGTGTTTATGGCTGTGTG 59.392 47.619 0.00 0.00 0.00 3.82
4681 4858 1.979855 TGCTGTGTTTATGGCTGTGT 58.020 45.000 0.00 0.00 0.00 3.72
4682 4859 2.229543 ACATGCTGTGTTTATGGCTGTG 59.770 45.455 0.00 0.00 38.01 3.66
4683 4860 2.517959 ACATGCTGTGTTTATGGCTGT 58.482 42.857 0.00 0.00 38.01 4.40
4693 4870 5.581605 CAGAAACAAGTAAACATGCTGTGT 58.418 37.500 0.00 0.00 44.84 3.72
4694 4871 4.442073 GCAGAAACAAGTAAACATGCTGTG 59.558 41.667 0.00 0.00 0.00 3.66
4695 4872 4.339247 AGCAGAAACAAGTAAACATGCTGT 59.661 37.500 0.00 0.00 40.97 4.40
4696 4873 4.863491 AGCAGAAACAAGTAAACATGCTG 58.137 39.130 0.00 0.00 40.97 4.41
4697 4874 5.520376 AAGCAGAAACAAGTAAACATGCT 57.480 34.783 0.00 0.00 44.15 3.79
4698 4875 6.588348 AAAAGCAGAAACAAGTAAACATGC 57.412 33.333 0.00 0.00 0.00 4.06
4699 4876 8.856490 ACTAAAAGCAGAAACAAGTAAACATG 57.144 30.769 0.00 0.00 0.00 3.21
4701 4878 9.944663 CATACTAAAAGCAGAAACAAGTAAACA 57.055 29.630 0.00 0.00 0.00 2.83
4732 4909 0.172578 CAACAGGGCGTCGATCTACA 59.827 55.000 0.00 0.00 0.00 2.74
4770 4947 4.273148 AGAAAAAGTAGCATGGTCGACT 57.727 40.909 16.46 0.00 0.00 4.18
4819 4996 4.060205 GAGGCAAAAATTGTCACATGCTT 58.940 39.130 0.54 0.00 37.85 3.91
4852 5029 5.126222 ACATACAGTGGTGACATACAGAGAG 59.874 44.000 4.97 0.00 46.14 3.20
4853 5030 5.016831 ACATACAGTGGTGACATACAGAGA 58.983 41.667 4.97 0.00 46.14 3.10
4854 5031 5.330455 ACATACAGTGGTGACATACAGAG 57.670 43.478 4.97 0.00 46.14 3.35
4855 5032 5.738619 AACATACAGTGGTGACATACAGA 57.261 39.130 4.97 0.00 46.14 3.41
4856 5033 6.091305 CAGAAACATACAGTGGTGACATACAG 59.909 42.308 4.97 0.00 46.14 2.74
4858 5035 5.163854 GCAGAAACATACAGTGGTGACATAC 60.164 44.000 4.97 0.00 46.14 2.39
4860 5037 3.753272 GCAGAAACATACAGTGGTGACAT 59.247 43.478 4.97 0.00 46.14 3.06
4861 5038 3.138304 GCAGAAACATACAGTGGTGACA 58.862 45.455 4.97 0.00 38.70 3.58
4863 5040 3.483808 TGCAGAAACATACAGTGGTGA 57.516 42.857 4.97 0.00 0.00 4.02
4864 5041 4.771590 ATTGCAGAAACATACAGTGGTG 57.228 40.909 0.00 0.00 0.00 4.17
4865 5042 5.562696 CGAAATTGCAGAAACATACAGTGGT 60.563 40.000 0.00 0.00 0.00 4.16
4866 5043 4.853196 CGAAATTGCAGAAACATACAGTGG 59.147 41.667 0.00 0.00 0.00 4.00
4867 5044 4.853196 CCGAAATTGCAGAAACATACAGTG 59.147 41.667 0.00 0.00 0.00 3.66
4871 5067 3.608073 GCACCGAAATTGCAGAAACATAC 59.392 43.478 0.00 0.00 39.93 2.39
4946 5143 6.188407 TCAGTAGACCTTTACAGCAGACTAT 58.812 40.000 0.00 0.00 0.00 2.12
5060 5258 4.095483 CACCTGAAACAATAAGCCAGCTAG 59.905 45.833 0.00 0.00 0.00 3.42
5182 5380 2.054799 AGGTGCTCCTTTAGTGTTCCA 58.945 47.619 0.18 0.00 42.12 3.53
5274 5477 6.149633 AGTTTTGCCGCTAAAGAAACATTAG 58.850 36.000 0.00 0.00 33.77 1.73
5332 5535 6.039382 AGTTTGAGGTCAACCAACTAAACATC 59.961 38.462 15.99 0.00 38.89 3.06
5500 5724 8.697507 AGTGTGAAGAATAGACCTCAAAATTT 57.302 30.769 0.00 0.00 0.00 1.82
5623 5848 4.536090 ACATCATTAGGTCCTCCTGTGAAA 59.464 41.667 0.00 0.00 44.81 2.69
5716 5941 5.201243 TGCATGCTAGTAGAAGAGTAGGAA 58.799 41.667 20.33 0.00 35.28 3.36
6011 6236 5.649782 AATCACTAAACCATGGCAAAGAG 57.350 39.130 13.04 5.33 0.00 2.85
6076 6301 4.035792 TCGTCGCCATCAAAAGAAGAAAAA 59.964 37.500 0.00 0.00 0.00 1.94
6128 6353 8.037758 CCAAAACTGTATATGTCACTCTTCTCT 58.962 37.037 0.00 0.00 0.00 3.10
6255 6480 2.350772 CCAAACGCAGAAAGCTAACAGG 60.351 50.000 0.00 0.00 42.61 4.00
6678 6903 3.139077 CCTCCTTGCTTACACGAAAAGT 58.861 45.455 0.00 0.00 0.00 2.66
6739 6964 6.971184 GTCATCCACAGCTTTCAAATCATTAG 59.029 38.462 0.00 0.00 0.00 1.73
6815 7040 6.149474 ACAAGGAAAATAACAGTTCCAGATCG 59.851 38.462 5.31 0.00 44.94 3.69
6830 7055 7.145323 CCAATACGAAGAACAACAAGGAAAAT 58.855 34.615 0.00 0.00 0.00 1.82
6839 7067 6.970613 AGTTTGAAACCAATACGAAGAACAAC 59.029 34.615 4.14 0.00 0.00 3.32
6844 7072 6.687081 AACAGTTTGAAACCAATACGAAGA 57.313 33.333 4.14 0.00 0.00 2.87
6849 7077 7.882179 ACATCCTAACAGTTTGAAACCAATAC 58.118 34.615 4.14 0.00 0.00 1.89
6901 7129 2.289882 TGAATCCAGCAGTTCCTGTCTG 60.290 50.000 8.00 8.00 36.31 3.51
6902 7130 1.980765 TGAATCCAGCAGTTCCTGTCT 59.019 47.619 0.00 0.00 33.43 3.41
6903 7131 2.479566 TGAATCCAGCAGTTCCTGTC 57.520 50.000 0.00 0.00 33.43 3.51
6904 7132 2.957402 TTGAATCCAGCAGTTCCTGT 57.043 45.000 0.00 0.00 33.43 4.00
6905 7133 4.219070 TGAAATTGAATCCAGCAGTTCCTG 59.781 41.667 0.00 0.00 34.12 3.86
6906 7134 4.219288 GTGAAATTGAATCCAGCAGTTCCT 59.781 41.667 0.00 0.00 0.00 3.36
6929 7219 0.389817 TGAACATTCCTCTGCCGTCG 60.390 55.000 0.00 0.00 0.00 5.12
7014 7315 8.215926 TGTTTGTTACTAGCTGTAATGTGTTT 57.784 30.769 0.00 0.00 42.36 2.83
7252 7561 3.671459 CGCGTATGTTCTATTTCGCCATA 59.329 43.478 0.00 0.00 40.43 2.74
7272 7581 0.109226 AGAGAGACACCGTTTAGCGC 60.109 55.000 0.00 0.00 39.71 5.92
7348 7658 3.055819 AGGCGAAGTCATACATGAACAGT 60.056 43.478 0.00 0.00 38.75 3.55
7382 7693 2.041485 TCCCTTGCTTGGTCATCAATCA 59.959 45.455 0.00 0.00 34.45 2.57
7383 7694 2.726821 TCCCTTGCTTGGTCATCAATC 58.273 47.619 0.00 0.00 34.45 2.67
7384 7695 2.827921 GTTCCCTTGCTTGGTCATCAAT 59.172 45.455 0.00 0.00 34.45 2.57
7385 7696 2.238521 GTTCCCTTGCTTGGTCATCAA 58.761 47.619 0.00 0.00 0.00 2.57
7408 7719 2.032054 CGGCACATTAATGATCGCTGTT 59.968 45.455 22.16 0.00 0.00 3.16
7409 7720 1.599071 CGGCACATTAATGATCGCTGT 59.401 47.619 22.16 0.00 0.00 4.40
7499 7810 6.035843 CCACCAATTTGATATACTTGTGTGC 58.964 40.000 0.00 0.00 0.00 4.57


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

AutoCloner maintained by Alex Coulton.