Multiple sequence alignment - TraesCS2D01G431900

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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 TraesCS2D01G431900 chr2D 100.000 2846 0 0 1 2846 544465956 544463111 0.000000e+00 5256.0
1 TraesCS2D01G431900 chr2D 88.805 1322 120 19 421 1740 544327657 544326362 0.000000e+00 1596.0
2 TraesCS2D01G431900 chr2D 89.567 1016 71 15 724 1719 544566816 544565816 0.000000e+00 1256.0
3 TraesCS2D01G431900 chr2D 97.278 551 14 1 674 1223 544496819 544496269 0.000000e+00 933.0
4 TraesCS2D01G431900 chr2D 90.667 525 33 4 1217 1740 544478013 544477504 0.000000e+00 684.0
5 TraesCS2D01G431900 chr2D 87.110 481 57 4 2320 2797 544501517 544501039 8.970000e-150 540.0
6 TraesCS2D01G431900 chr2D 82.046 479 56 16 1817 2268 544501991 544501516 5.750000e-102 381.0
7 TraesCS2D01G431900 chr2D 80.090 442 76 7 2323 2754 568947180 568946741 4.580000e-83 318.0
8 TraesCS2D01G431900 chr2D 92.935 184 12 1 1541 1723 544502372 544502189 1.680000e-67 267.0
9 TraesCS2D01G431900 chr2D 89.583 192 15 5 437 628 544497021 544496835 3.660000e-59 239.0
10 TraesCS2D01G431900 chr2D 92.929 99 7 0 1734 1832 544502134 544502036 8.220000e-31 145.0
11 TraesCS2D01G431900 chr2B 92.559 1559 74 20 187 1719 649751138 649749596 0.000000e+00 2198.0
12 TraesCS2D01G431900 chr2B 92.046 1559 83 17 187 1719 649714979 649713436 0.000000e+00 2154.0
13 TraesCS2D01G431900 chr2B 91.186 1577 93 23 187 1740 649709140 649707587 0.000000e+00 2100.0
14 TraesCS2D01G431900 chr2B 91.566 1411 77 19 336 1719 649756880 649755485 0.000000e+00 1908.0
15 TraesCS2D01G431900 chr2B 79.592 441 79 9 2320 2754 746372643 746373078 3.560000e-79 305.0
16 TraesCS2D01G431900 chr2B 90.860 186 16 1 1 186 649715126 649714942 6.090000e-62 248.0
17 TraesCS2D01G431900 chr2B 89.674 184 18 1 3 186 649762232 649762050 1.700000e-57 233.0
18 TraesCS2D01G431900 chr2B 89.617 183 17 2 4 186 649709284 649709104 6.130000e-57 231.0
19 TraesCS2D01G431900 chr2B 91.391 151 13 0 187 337 649762087 649761937 1.030000e-49 207.0
20 TraesCS2D01G431900 chr2A 91.903 988 59 7 751 1720 686802258 686801274 0.000000e+00 1362.0
21 TraesCS2D01G431900 chr2A 91.179 1009 63 11 724 1719 686812757 686811762 0.000000e+00 1347.0
22 TraesCS2D01G431900 chr2A 93.791 757 36 6 963 1719 686807760 686807015 0.000000e+00 1127.0
23 TraesCS2D01G431900 chr2A 94.583 683 35 1 1051 1733 686805672 686804992 0.000000e+00 1055.0
24 TraesCS2D01G431900 chr2A 90.598 585 45 3 190 771 686802849 686802272 0.000000e+00 767.0
25 TraesCS2D01G431900 chr2A 80.658 760 133 12 967 1717 771339861 771340615 6.840000e-161 577.0
26 TraesCS2D01G431900 chr2A 83.817 241 38 1 2028 2268 754433833 754433594 7.930000e-56 228.0
27 TraesCS2D01G431900 chr2A 88.770 187 18 3 1 186 686802998 686802814 2.850000e-55 226.0
28 TraesCS2D01G431900 chr4A 82.116 397 64 6 2352 2743 2949411 2949017 1.630000e-87 333.0
29 TraesCS2D01G431900 chr4A 80.579 242 43 4 2027 2268 139241449 139241686 1.740000e-42 183.0
30 TraesCS2D01G431900 chr4A 98.148 54 1 0 2265 2318 48702010 48702063 8.390000e-16 95.3
31 TraesCS2D01G431900 chr4A 91.304 46 4 0 384 429 609086899 609086944 2.370000e-06 63.9
32 TraesCS2D01G431900 chr3B 80.455 440 77 7 2320 2754 741417227 741416792 7.600000e-86 327.0
33 TraesCS2D01G431900 chr3B 80.313 447 75 12 2320 2755 746797131 746797575 2.730000e-85 326.0
34 TraesCS2D01G431900 chr3B 78.752 513 77 29 2327 2830 307319360 307318871 5.920000e-82 315.0
35 TraesCS2D01G431900 chr6D 80.000 435 75 10 2327 2754 455633721 455633292 7.660000e-81 311.0
36 TraesCS2D01G431900 chr6D 100.000 51 0 0 2268 2318 102375846 102375796 8.390000e-16 95.3
37 TraesCS2D01G431900 chr5B 78.367 490 84 17 2338 2818 532775713 532775237 5.960000e-77 298.0
38 TraesCS2D01G431900 chr5B 81.481 243 40 4 2028 2268 613129384 613129145 8.050000e-46 195.0
39 TraesCS2D01G431900 chr5B 82.065 184 29 4 1 182 506972071 506972252 1.370000e-33 154.0
40 TraesCS2D01G431900 chr5B 91.304 46 4 0 384 429 705615770 705615725 2.370000e-06 63.9
41 TraesCS2D01G431900 chr7A 89.444 180 17 2 7 186 575953555 575953378 2.850000e-55 226.0
42 TraesCS2D01G431900 chr7A 87.634 186 21 2 1 186 575732709 575732892 6.180000e-52 215.0
43 TraesCS2D01G431900 chr5A 82.427 239 39 2 2030 2268 462898562 462898797 3.720000e-49 206.0
44 TraesCS2D01G431900 chr3D 78.550 331 47 15 1941 2268 126941189 126940880 2.240000e-46 196.0
45 TraesCS2D01G431900 chr3D 98.148 54 1 0 2265 2318 209844232 209844285 8.390000e-16 95.3
46 TraesCS2D01G431900 chr3D 98.148 54 1 0 2265 2318 213385936 213385989 8.390000e-16 95.3
47 TraesCS2D01G431900 chr3D 91.111 45 4 0 384 428 608295341 608295297 8.510000e-06 62.1
48 TraesCS2D01G431900 chr4D 80.992 242 42 2 2030 2268 487231221 487230981 3.740000e-44 189.0
49 TraesCS2D01G431900 chr1D 81.498 227 41 1 2042 2268 77370936 77370711 4.840000e-43 185.0
50 TraesCS2D01G431900 chr1D 80.417 240 45 2 2029 2268 407782704 407782941 6.260000e-42 182.0
51 TraesCS2D01G431900 chr6B 98.148 54 1 0 2265 2318 696405650 696405703 8.390000e-16 95.3
52 TraesCS2D01G431900 chr6A 98.148 54 1 0 2265 2318 64684949 64685002 8.390000e-16 95.3
53 TraesCS2D01G431900 chr6A 89.362 47 4 1 386 431 569999037 569999083 1.100000e-04 58.4
54 TraesCS2D01G431900 chr4B 98.148 54 1 0 2265 2318 209061593 209061646 8.390000e-16 95.3
55 TraesCS2D01G431900 chr4B 100.000 51 0 0 2268 2318 209135723 209135673 8.390000e-16 95.3
56 TraesCS2D01G431900 chr4B 100.000 51 0 0 2268 2318 209284810 209284760 8.390000e-16 95.3
57 TraesCS2D01G431900 chr3A 91.111 45 4 0 384 428 741118610 741118654 8.510000e-06 62.1


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 TraesCS2D01G431900 chr2D 544463111 544465956 2845 True 5256.00 5256 100.0000 1 2846 1 chr2D.!!$R2 2845
1 TraesCS2D01G431900 chr2D 544326362 544327657 1295 True 1596.00 1596 88.8050 421 1740 1 chr2D.!!$R1 1319
2 TraesCS2D01G431900 chr2D 544565816 544566816 1000 True 1256.00 1256 89.5670 724 1719 1 chr2D.!!$R4 995
3 TraesCS2D01G431900 chr2D 544477504 544478013 509 True 684.00 684 90.6670 1217 1740 1 chr2D.!!$R3 523
4 TraesCS2D01G431900 chr2D 544496269 544497021 752 True 586.00 933 93.4305 437 1223 2 chr2D.!!$R6 786
5 TraesCS2D01G431900 chr2D 544501039 544502372 1333 True 333.25 540 88.7550 1541 2797 4 chr2D.!!$R7 1256
6 TraesCS2D01G431900 chr2B 649749596 649751138 1542 True 2198.00 2198 92.5590 187 1719 1 chr2B.!!$R1 1532
7 TraesCS2D01G431900 chr2B 649755485 649756880 1395 True 1908.00 1908 91.5660 336 1719 1 chr2B.!!$R2 1383
8 TraesCS2D01G431900 chr2B 649713436 649715126 1690 True 1201.00 2154 91.4530 1 1719 2 chr2B.!!$R4 1718
9 TraesCS2D01G431900 chr2B 649707587 649709284 1697 True 1165.50 2100 90.4015 4 1740 2 chr2B.!!$R3 1736
10 TraesCS2D01G431900 chr2A 686811762 686812757 995 True 1347.00 1347 91.1790 724 1719 1 chr2A.!!$R1 995
11 TraesCS2D01G431900 chr2A 686801274 686807760 6486 True 907.40 1362 91.9290 1 1733 5 chr2A.!!$R3 1732
12 TraesCS2D01G431900 chr2A 771339861 771340615 754 False 577.00 577 80.6580 967 1717 1 chr2A.!!$F1 750

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
183 4946 0.386838 AAACAAGCTGCCAGTGCTTC 59.613 50.000 0.0 0.0 46.39 3.86 F
251 5014 1.204467 CAAAATATTGGCTGGGCGTGT 59.796 47.619 0.0 0.0 32.69 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1723 6628 0.321671 TTCCGAGAAGGCCTTGTCAG 59.678 55.0 34.41 26.66 40.77 3.51 R
2221 7259 0.033796 CATGTGGGGGTGCAAGATCT 60.034 55.0 0.00 0.00 0.00 2.75 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 4785 2.229792 CTTAGTTGTTGCCCAAGAGCA 58.770 47.619 0.00 0.00 42.17 4.26
26 4789 0.469705 TTGTTGCCCAAGAGCACCAT 60.470 50.000 0.00 0.00 43.97 3.55
111 4874 2.945278 GTCAATGAATTGGCGCAGAAA 58.055 42.857 10.83 0.00 38.30 2.52
124 4887 4.277174 TGGCGCAGAAATACAGAAGAAAAA 59.723 37.500 10.83 0.00 0.00 1.94
168 4931 6.991938 CAAAACTTTGGATCCCATCTAAACA 58.008 36.000 9.90 0.00 35.25 2.83
169 4932 7.441017 CAAAACTTTGGATCCCATCTAAACAA 58.559 34.615 9.90 0.00 35.25 2.83
170 4933 6.840780 AACTTTGGATCCCATCTAAACAAG 57.159 37.500 9.90 0.52 35.25 3.16
171 4934 4.706962 ACTTTGGATCCCATCTAAACAAGC 59.293 41.667 9.90 0.00 35.25 4.01
172 4935 4.591321 TTGGATCCCATCTAAACAAGCT 57.409 40.909 9.90 0.00 31.53 3.74
173 4936 3.889815 TGGATCCCATCTAAACAAGCTG 58.110 45.455 9.90 0.00 0.00 4.24
174 4937 2.620585 GGATCCCATCTAAACAAGCTGC 59.379 50.000 0.00 0.00 0.00 5.25
175 4938 2.128771 TCCCATCTAAACAAGCTGCC 57.871 50.000 0.00 0.00 0.00 4.85
176 4939 1.354031 TCCCATCTAAACAAGCTGCCA 59.646 47.619 0.00 0.00 0.00 4.92
177 4940 1.747355 CCCATCTAAACAAGCTGCCAG 59.253 52.381 0.00 0.00 0.00 4.85
178 4941 2.440409 CCATCTAAACAAGCTGCCAGT 58.560 47.619 0.00 0.00 0.00 4.00
179 4942 2.163010 CCATCTAAACAAGCTGCCAGTG 59.837 50.000 0.00 0.00 0.00 3.66
180 4943 1.238439 TCTAAACAAGCTGCCAGTGC 58.762 50.000 0.00 0.00 38.26 4.40
181 4944 1.202806 TCTAAACAAGCTGCCAGTGCT 60.203 47.619 0.00 0.00 43.32 4.40
183 4946 0.386838 AAACAAGCTGCCAGTGCTTC 59.613 50.000 0.00 0.00 46.39 3.86
184 4947 1.789078 AACAAGCTGCCAGTGCTTCG 61.789 55.000 0.00 0.00 46.39 3.79
185 4948 2.670934 AAGCTGCCAGTGCTTCGG 60.671 61.111 0.00 0.00 46.39 4.30
202 4965 4.443598 GCTTCGGAACTTTAGATCCCATCT 60.444 45.833 1.00 0.00 43.33 2.90
251 5014 1.204467 CAAAATATTGGCTGGGCGTGT 59.796 47.619 0.00 0.00 32.69 4.49
260 5023 3.151710 TGGGCGTGTAGGGGATCG 61.152 66.667 0.00 0.00 0.00 3.69
382 5145 9.897744 TGCATCTGAAAAGTAAATACTTCTTTG 57.102 29.630 6.31 1.93 45.17 2.77
401 5164 3.207265 TGACCTTAGTTCAAAGCTGCA 57.793 42.857 1.02 0.00 0.00 4.41
413 5176 7.488322 AGTTCAAAGCTGCAACACTTATTTTA 58.512 30.769 1.02 0.00 0.00 1.52
477 5242 4.870426 TCCAATCTGAGCGTTAAGATTCAC 59.130 41.667 8.81 0.00 40.36 3.18
564 5329 5.642063 GCAATTGTGGTAGTACTACACACAT 59.358 40.000 33.71 25.41 39.34 3.21
1440 6333 1.654954 GCGACGAGGAGAAGGCACTA 61.655 60.000 0.00 0.00 38.49 2.74
1720 6625 2.659897 CCAGCGGCGTATGAGAGC 60.660 66.667 9.37 0.00 0.00 4.09
1722 6627 2.415010 AGCGGCGTATGAGAGCTG 59.585 61.111 9.37 0.00 42.31 4.24
1756 6708 5.276868 CCTTCTCGGAATAAAATACACTGCG 60.277 44.000 0.00 0.00 33.16 5.18
1757 6709 5.001237 TCTCGGAATAAAATACACTGCGA 57.999 39.130 0.00 0.00 0.00 5.10
1762 6714 4.805192 GGAATAAAATACACTGCGACCGTA 59.195 41.667 0.00 0.00 0.00 4.02
1792 6744 5.013183 ACCTACAGCTCACTTATTTTGACCT 59.987 40.000 0.00 0.00 0.00 3.85
1805 6757 2.820059 TTGACCTCTGCAGTGTACTG 57.180 50.000 14.67 7.64 46.40 2.74
1810 6762 3.697045 GACCTCTGCAGTGTACTGTATCT 59.303 47.826 14.67 0.00 45.45 1.98
1812 6764 4.641094 ACCTCTGCAGTGTACTGTATCTAC 59.359 45.833 14.67 0.00 45.45 2.59
1863 6875 3.135895 AGAGTTTCTTCGGGGTTTTCTCA 59.864 43.478 0.00 0.00 0.00 3.27
1864 6876 3.211865 AGTTTCTTCGGGGTTTTCTCAC 58.788 45.455 0.00 0.00 0.00 3.51
1873 6885 2.931969 GGGGTTTTCTCACGGTAATACG 59.068 50.000 0.00 0.00 40.31 3.06
1874 6886 2.349580 GGGTTTTCTCACGGTAATACGC 59.650 50.000 0.00 0.00 37.37 4.42
1875 6887 2.028404 GGTTTTCTCACGGTAATACGCG 59.972 50.000 3.53 3.53 37.37 6.01
1876 6888 2.634982 TTTCTCACGGTAATACGCGT 57.365 45.000 19.17 19.17 37.37 6.01
1877 6889 2.178474 TTCTCACGGTAATACGCGTC 57.822 50.000 18.63 0.00 37.37 5.19
1878 6890 0.378257 TCTCACGGTAATACGCGTCC 59.622 55.000 18.63 10.34 37.37 4.79
1879 6891 0.379669 CTCACGGTAATACGCGTCCT 59.620 55.000 18.63 6.63 37.37 3.85
1880 6892 1.599071 CTCACGGTAATACGCGTCCTA 59.401 52.381 18.63 5.41 37.37 2.94
1882 6894 2.618241 TCACGGTAATACGCGTCCTATT 59.382 45.455 18.63 13.43 37.37 1.73
1921 6958 7.368059 TGATTCAGTATAAGCGATCGTACAAT 58.632 34.615 17.81 7.71 0.00 2.71
1923 6960 8.670804 ATTCAGTATAAGCGATCGTACAATAC 57.329 34.615 17.81 17.27 0.00 1.89
1932 6969 4.434989 GCGATCGTACAATACAGCAAAACA 60.435 41.667 17.81 0.00 0.00 2.83
1934 6971 5.503376 CGATCGTACAATACAGCAAAACAAC 59.497 40.000 7.03 0.00 0.00 3.32
1936 6973 5.743467 TCGTACAATACAGCAAAACAACAG 58.257 37.500 0.00 0.00 0.00 3.16
1939 6976 7.011202 TCGTACAATACAGCAAAACAACAGTTA 59.989 33.333 0.00 0.00 0.00 2.24
1945 6982 4.566360 ACAGCAAAACAACAGTTATTGCAC 59.434 37.500 22.65 5.09 39.24 4.57
1953 6990 4.024048 ACAACAGTTATTGCACGAAGGAAG 60.024 41.667 0.00 0.00 32.47 3.46
1955 6992 3.074412 CAGTTATTGCACGAAGGAAGGT 58.926 45.455 0.00 0.00 0.00 3.50
1956 6993 3.125316 CAGTTATTGCACGAAGGAAGGTC 59.875 47.826 0.00 0.00 0.00 3.85
1968 7005 4.024809 CGAAGGAAGGTCAGTCAAAAACTC 60.025 45.833 0.00 0.00 35.45 3.01
1978 7015 8.190784 AGGTCAGTCAAAAACTCAAATTACAAG 58.809 33.333 0.00 0.00 35.45 3.16
1986 7023 6.463995 AAACTCAAATTACAAGCAAGACCA 57.536 33.333 0.00 0.00 0.00 4.02
1993 7030 8.203485 TCAAATTACAAGCAAGACCAAAGAAAT 58.797 29.630 0.00 0.00 0.00 2.17
2011 7049 9.918630 CAAAGAAATCTCTAATTTGACACCAAT 57.081 29.630 0.00 0.00 31.46 3.16
2019 7057 1.511318 TTTGACACCAATGCCCGTCG 61.511 55.000 0.00 0.00 31.46 5.12
2035 7073 3.114616 CGCCTGCTTCGTCACCTG 61.115 66.667 0.00 0.00 0.00 4.00
2039 7077 0.886490 CCTGCTTCGTCACCTGCTTT 60.886 55.000 0.00 0.00 0.00 3.51
2061 7099 1.325355 GCATCACCATAGCAGCCAAT 58.675 50.000 0.00 0.00 0.00 3.16
2065 7103 4.202141 GCATCACCATAGCAGCCAATAAAA 60.202 41.667 0.00 0.00 0.00 1.52
2094 7132 4.033776 CGCATCACCCCCACACCT 62.034 66.667 0.00 0.00 0.00 4.00
2098 7136 2.606587 ATCACCCCCACACCTGAGC 61.607 63.158 0.00 0.00 0.00 4.26
2105 7143 2.645567 CACACCTGAGCTCGACGT 59.354 61.111 9.64 1.54 0.00 4.34
2107 7145 2.126307 CACCTGAGCTCGACGTGG 60.126 66.667 9.64 8.41 0.00 4.94
2144 7182 0.035458 AGCTTTGTGGACCTCGAAGG 59.965 55.000 20.34 6.99 42.49 3.46
2145 7183 0.034896 GCTTTGTGGACCTCGAAGGA 59.965 55.000 20.34 0.00 37.67 3.36
2154 7192 3.452786 CTCGAAGGAGGCTCGCCA 61.453 66.667 11.02 0.00 38.92 5.69
2178 7216 3.576550 AGGCAAAACCATTACCGTTGAAT 59.423 39.130 0.00 0.00 43.14 2.57
2187 7225 4.498009 CCATTACCGTTGAATGAATCAGCC 60.498 45.833 3.48 0.00 39.77 4.85
2203 7241 2.584608 CCTAGGGCGACACCTTGG 59.415 66.667 0.00 7.17 44.90 3.61
2220 7258 1.215647 GGACACGCCATCGAACTCT 59.784 57.895 0.00 0.00 39.41 3.24
2221 7259 0.454600 GGACACGCCATCGAACTCTA 59.545 55.000 0.00 0.00 39.41 2.43
2225 7263 2.033550 ACACGCCATCGAACTCTAGATC 59.966 50.000 0.00 0.00 39.41 2.75
2227 7265 2.952978 ACGCCATCGAACTCTAGATCTT 59.047 45.455 0.00 0.00 39.41 2.40
2246 7284 0.774276 TGCACCCCCACATGACTAAA 59.226 50.000 0.00 0.00 0.00 1.85
2255 7293 3.061322 CCACATGACTAAAACGTCGGAA 58.939 45.455 0.00 0.00 36.71 4.30
2256 7294 3.495377 CCACATGACTAAAACGTCGGAAA 59.505 43.478 0.00 0.00 36.71 3.13
2264 7302 3.425577 AAAACGTCGGAAAAGGAAACC 57.574 42.857 0.00 0.00 0.00 3.27
2266 7304 2.265589 ACGTCGGAAAAGGAAACCAT 57.734 45.000 0.00 0.00 0.00 3.55
2267 7305 3.405823 ACGTCGGAAAAGGAAACCATA 57.594 42.857 0.00 0.00 0.00 2.74
2268 7306 3.742385 ACGTCGGAAAAGGAAACCATAA 58.258 40.909 0.00 0.00 0.00 1.90
2269 7307 3.749609 ACGTCGGAAAAGGAAACCATAAG 59.250 43.478 0.00 0.00 0.00 1.73
2270 7308 3.425758 CGTCGGAAAAGGAAACCATAAGC 60.426 47.826 0.00 0.00 0.00 3.09
2271 7309 2.745281 TCGGAAAAGGAAACCATAAGCG 59.255 45.455 0.00 0.00 0.00 4.68
2272 7310 2.731027 CGGAAAAGGAAACCATAAGCGC 60.731 50.000 0.00 0.00 0.00 5.92
2273 7311 2.230266 GGAAAAGGAAACCATAAGCGCA 59.770 45.455 11.47 0.00 0.00 6.09
2274 7312 3.242518 GAAAAGGAAACCATAAGCGCAC 58.757 45.455 11.47 0.00 0.00 5.34
2275 7313 1.904287 AAGGAAACCATAAGCGCACA 58.096 45.000 11.47 0.00 0.00 4.57
2276 7314 1.165270 AGGAAACCATAAGCGCACAC 58.835 50.000 11.47 0.00 0.00 3.82
2277 7315 0.179200 GGAAACCATAAGCGCACACG 60.179 55.000 11.47 0.00 44.07 4.49
2288 7326 2.736890 CGCACACGCAGTAATCTGA 58.263 52.632 0.00 0.00 41.61 3.27
2289 7327 1.280982 CGCACACGCAGTAATCTGAT 58.719 50.000 0.00 0.00 41.61 2.90
2290 7328 1.660607 CGCACACGCAGTAATCTGATT 59.339 47.619 8.14 8.14 41.61 2.57
2291 7329 2.535534 CGCACACGCAGTAATCTGATTG 60.536 50.000 13.01 0.00 41.61 2.67
2292 7330 2.672874 GCACACGCAGTAATCTGATTGA 59.327 45.455 13.01 0.00 41.61 2.57
2293 7331 3.242220 GCACACGCAGTAATCTGATTGAG 60.242 47.826 13.01 1.93 41.61 3.02
2294 7332 4.176271 CACACGCAGTAATCTGATTGAGA 58.824 43.478 13.01 0.00 41.61 3.27
2295 7333 4.627035 CACACGCAGTAATCTGATTGAGAA 59.373 41.667 13.01 0.00 41.61 2.87
2296 7334 5.120674 CACACGCAGTAATCTGATTGAGAAA 59.879 40.000 13.01 0.00 41.61 2.52
2297 7335 5.700832 ACACGCAGTAATCTGATTGAGAAAA 59.299 36.000 13.01 0.00 41.61 2.29
2298 7336 6.372659 ACACGCAGTAATCTGATTGAGAAAAT 59.627 34.615 13.01 0.00 41.61 1.82
2299 7337 6.685828 CACGCAGTAATCTGATTGAGAAAATG 59.314 38.462 13.01 3.54 41.61 2.32
2300 7338 6.183360 ACGCAGTAATCTGATTGAGAAAATGG 60.183 38.462 13.01 0.50 41.94 3.16
2301 7339 6.037500 CGCAGTAATCTGATTGAGAAAATGGA 59.962 38.462 13.01 0.00 43.76 3.41
2302 7340 7.255035 CGCAGTAATCTGATTGAGAAAATGGAT 60.255 37.037 13.01 0.00 43.76 3.41
2303 7341 9.060347 GCAGTAATCTGATTGAGAAAATGGATA 57.940 33.333 13.01 0.00 43.76 2.59
2308 7346 7.325660 TCTGATTGAGAAAATGGATAGTTGC 57.674 36.000 0.00 0.00 0.00 4.17
2309 7347 7.114754 TCTGATTGAGAAAATGGATAGTTGCT 58.885 34.615 0.00 0.00 0.00 3.91
2310 7348 7.066645 TCTGATTGAGAAAATGGATAGTTGCTG 59.933 37.037 0.00 0.00 0.00 4.41
2311 7349 4.970662 TGAGAAAATGGATAGTTGCTGC 57.029 40.909 0.00 0.00 0.00 5.25
2312 7350 3.696051 TGAGAAAATGGATAGTTGCTGCC 59.304 43.478 0.00 0.00 0.00 4.85
2313 7351 3.696051 GAGAAAATGGATAGTTGCTGCCA 59.304 43.478 0.00 0.00 34.45 4.92
2314 7352 4.284178 AGAAAATGGATAGTTGCTGCCAT 58.716 39.130 0.00 0.00 42.66 4.40
2315 7353 4.340381 AGAAAATGGATAGTTGCTGCCATC 59.660 41.667 0.00 0.00 40.09 3.51
2316 7354 1.888215 ATGGATAGTTGCTGCCATCG 58.112 50.000 0.00 0.00 36.43 3.84
2317 7355 0.829990 TGGATAGTTGCTGCCATCGA 59.170 50.000 0.00 0.00 0.00 3.59
2318 7356 1.221414 GGATAGTTGCTGCCATCGAC 58.779 55.000 0.00 0.00 0.00 4.20
2322 7360 0.608130 AGTTGCTGCCATCGACTACA 59.392 50.000 0.00 0.00 0.00 2.74
2325 7363 0.823460 TGCTGCCATCGACTACATGA 59.177 50.000 0.00 0.00 0.00 3.07
2329 7367 3.055591 CTGCCATCGACTACATGACATC 58.944 50.000 0.00 0.00 0.00 3.06
2343 7381 1.336148 TGACATCCACGTACCACGAAC 60.336 52.381 5.61 0.00 46.05 3.95
2347 7385 1.069427 CCACGTACCACGAACCCAA 59.931 57.895 5.61 0.00 46.05 4.12
2352 7390 0.886043 GTACCACGAACCCAACCCAC 60.886 60.000 0.00 0.00 0.00 4.61
2366 7404 0.991920 ACCCACGATCCACCATCTTT 59.008 50.000 0.00 0.00 0.00 2.52
2391 7429 1.742880 CCACCGATGCAGACCACAG 60.743 63.158 0.00 0.00 0.00 3.66
2393 7431 1.016130 CACCGATGCAGACCACAGTC 61.016 60.000 0.00 0.00 43.89 3.51
2405 7443 1.204941 ACCACAGTCTGTATCCGCTTC 59.795 52.381 4.85 0.00 0.00 3.86
2414 7452 2.952978 CTGTATCCGCTTCTGGACTACT 59.047 50.000 0.00 0.00 41.85 2.57
2451 7489 2.908073 CGCTGGAGCAAACGCCTTT 61.908 57.895 0.00 0.00 42.21 3.11
2461 7499 1.135972 CAAACGCCTTTGAGATGACGG 60.136 52.381 2.36 0.00 39.43 4.79
2492 7530 1.219124 CAGGTCCACCACGAGGATG 59.781 63.158 5.68 0.11 37.52 3.51
2503 7541 4.971125 GAGGATGCTACCGCCGCC 62.971 72.222 0.00 0.00 34.43 6.13
2556 7594 5.656416 TCCAAATCCATTCCAACAATAGGAC 59.344 40.000 0.00 0.00 34.19 3.85
2557 7595 5.421693 CCAAATCCATTCCAACAATAGGACA 59.578 40.000 0.00 0.00 34.19 4.02
2563 7601 5.653769 CCATTCCAACAATAGGACAGATTGT 59.346 40.000 0.00 0.00 46.89 2.71
2570 7608 4.462834 ACAATAGGACAGATTGTCTCGTCA 59.537 41.667 8.89 0.00 46.19 4.35
2571 7609 5.047306 ACAATAGGACAGATTGTCTCGTCAA 60.047 40.000 8.89 0.00 46.19 3.18
2577 7615 4.810790 ACAGATTGTCTCGTCAAAGTAGG 58.189 43.478 0.00 0.00 0.00 3.18
2580 7618 6.102663 CAGATTGTCTCGTCAAAGTAGGATT 58.897 40.000 0.00 0.00 0.00 3.01
2599 7638 5.829924 AGGATTTGAAGAGACTTTTTCAGCA 59.170 36.000 4.26 0.00 35.01 4.41
2608 7647 2.548057 GACTTTTTCAGCACCGTCATCA 59.452 45.455 0.00 0.00 0.00 3.07
2610 7649 1.234821 TTTTCAGCACCGTCATCACC 58.765 50.000 0.00 0.00 0.00 4.02
2615 7654 4.429212 CACCGTCATCACCGCCGA 62.429 66.667 0.00 0.00 0.00 5.54
2616 7655 4.430765 ACCGTCATCACCGCCGAC 62.431 66.667 0.00 0.00 0.00 4.79
2637 7678 4.421365 GCCAAGGCTGAACATCCA 57.579 55.556 3.29 0.00 38.26 3.41
2693 7734 1.436336 CGTGGATCTGACGTACCCC 59.564 63.158 8.98 0.00 32.06 4.95
2711 7752 0.397254 CCCCTCACTACCGATGACCT 60.397 60.000 0.00 0.00 0.00 3.85
2797 7838 3.118000 ACGAGGACACCCTTTCTTTCTTT 60.118 43.478 0.00 0.00 44.53 2.52
2798 7839 3.498777 CGAGGACACCCTTTCTTTCTTTC 59.501 47.826 0.00 0.00 44.53 2.62
2799 7840 4.720046 GAGGACACCCTTTCTTTCTTTCT 58.280 43.478 0.00 0.00 44.53 2.52
2800 7841 5.130705 AGGACACCCTTTCTTTCTTTCTT 57.869 39.130 0.00 0.00 40.78 2.52
2801 7842 5.133941 AGGACACCCTTTCTTTCTTTCTTC 58.866 41.667 0.00 0.00 40.78 2.87
2802 7843 4.023963 GGACACCCTTTCTTTCTTTCTTCG 60.024 45.833 0.00 0.00 0.00 3.79
2803 7844 3.315470 ACACCCTTTCTTTCTTTCTTCGC 59.685 43.478 0.00 0.00 0.00 4.70
2804 7845 2.548480 ACCCTTTCTTTCTTTCTTCGCG 59.452 45.455 0.00 0.00 0.00 5.87
2805 7846 2.806244 CCCTTTCTTTCTTTCTTCGCGA 59.194 45.455 3.71 3.71 0.00 5.87
2806 7847 3.120511 CCCTTTCTTTCTTTCTTCGCGAG 60.121 47.826 9.59 3.89 0.00 5.03
2807 7848 3.120511 CCTTTCTTTCTTTCTTCGCGAGG 60.121 47.826 12.67 12.67 0.00 4.63
2808 7849 3.380479 TTCTTTCTTTCTTCGCGAGGA 57.620 42.857 17.79 17.79 0.00 3.71
2809 7850 3.380479 TCTTTCTTTCTTCGCGAGGAA 57.620 42.857 27.33 27.33 0.00 3.36
2820 7861 1.798813 TCGCGAGGAAGAAAGAAAAGC 59.201 47.619 3.71 0.00 0.00 3.51
2821 7862 1.801178 CGCGAGGAAGAAAGAAAAGCT 59.199 47.619 0.00 0.00 0.00 3.74
2822 7863 2.159774 CGCGAGGAAGAAAGAAAAGCTC 60.160 50.000 0.00 0.00 0.00 4.09
2823 7864 3.070748 GCGAGGAAGAAAGAAAAGCTCT 58.929 45.455 0.00 0.00 35.13 4.09
2824 7865 3.500299 GCGAGGAAGAAAGAAAAGCTCTT 59.500 43.478 0.00 0.00 46.92 2.85
2825 7866 4.377943 GCGAGGAAGAAAGAAAAGCTCTTC 60.378 45.833 0.00 0.00 44.00 2.87
2826 7867 4.143221 CGAGGAAGAAAGAAAAGCTCTTCG 60.143 45.833 0.00 0.00 44.00 3.79
2827 7868 4.709250 AGGAAGAAAGAAAAGCTCTTCGT 58.291 39.130 0.00 0.00 44.00 3.85
2828 7869 4.752604 AGGAAGAAAGAAAAGCTCTTCGTC 59.247 41.667 0.00 0.00 44.00 4.20
2829 7870 4.083749 GGAAGAAAGAAAAGCTCTTCGTCC 60.084 45.833 0.00 3.57 44.00 4.79
2830 7871 3.060602 AGAAAGAAAAGCTCTTCGTCCG 58.939 45.455 0.00 0.00 44.00 4.79
2831 7872 2.528041 AAGAAAAGCTCTTCGTCCGT 57.472 45.000 0.00 0.00 40.61 4.69
2832 7873 2.067414 AGAAAAGCTCTTCGTCCGTC 57.933 50.000 0.00 0.00 0.00 4.79
2833 7874 1.340248 AGAAAAGCTCTTCGTCCGTCA 59.660 47.619 0.00 0.00 0.00 4.35
2834 7875 2.028930 AGAAAAGCTCTTCGTCCGTCAT 60.029 45.455 0.00 0.00 0.00 3.06
2835 7876 1.997669 AAAGCTCTTCGTCCGTCATC 58.002 50.000 0.00 0.00 0.00 2.92
2836 7877 0.888619 AAGCTCTTCGTCCGTCATCA 59.111 50.000 0.00 0.00 0.00 3.07
2837 7878 0.888619 AGCTCTTCGTCCGTCATCAA 59.111 50.000 0.00 0.00 0.00 2.57
2838 7879 1.272490 AGCTCTTCGTCCGTCATCAAA 59.728 47.619 0.00 0.00 0.00 2.69
2839 7880 2.066262 GCTCTTCGTCCGTCATCAAAA 58.934 47.619 0.00 0.00 0.00 2.44
2840 7881 2.673368 GCTCTTCGTCCGTCATCAAAAT 59.327 45.455 0.00 0.00 0.00 1.82
2841 7882 3.125316 GCTCTTCGTCCGTCATCAAAATT 59.875 43.478 0.00 0.00 0.00 1.82
2842 7883 4.641954 CTCTTCGTCCGTCATCAAAATTG 58.358 43.478 0.00 0.00 0.00 2.32
2843 7884 2.892373 TCGTCCGTCATCAAAATTGC 57.108 45.000 0.00 0.00 0.00 3.56
2844 7885 2.422597 TCGTCCGTCATCAAAATTGCT 58.577 42.857 0.00 0.00 0.00 3.91
2845 7886 2.415168 TCGTCCGTCATCAAAATTGCTC 59.585 45.455 0.00 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 4785 4.016838 CCCACGATTTGGCATGGT 57.983 55.556 3.57 0.00 45.37 3.55
79 4842 0.768622 TCATTGACGAAACTGGGGGT 59.231 50.000 0.00 0.00 0.00 4.95
111 4874 7.317722 AGTCACCCTACTTTTTCTTCTGTAT 57.682 36.000 0.00 0.00 0.00 2.29
124 4887 1.889530 GCTCGCCAAGTCACCCTACT 61.890 60.000 0.00 0.00 0.00 2.57
153 4916 2.620585 GCAGCTTGTTTAGATGGGATCC 59.379 50.000 1.92 1.92 40.65 3.36
154 4917 2.620585 GGCAGCTTGTTTAGATGGGATC 59.379 50.000 0.00 0.00 40.65 3.36
155 4918 2.025037 TGGCAGCTTGTTTAGATGGGAT 60.025 45.455 0.00 0.00 40.65 3.85
156 4919 1.354031 TGGCAGCTTGTTTAGATGGGA 59.646 47.619 0.00 0.00 40.65 4.37
157 4920 1.747355 CTGGCAGCTTGTTTAGATGGG 59.253 52.381 0.00 0.00 40.65 4.00
158 4921 2.163010 CACTGGCAGCTTGTTTAGATGG 59.837 50.000 15.89 0.00 40.65 3.51
159 4922 2.415090 GCACTGGCAGCTTGTTTAGATG 60.415 50.000 15.89 2.05 43.20 2.90
160 4923 1.815003 GCACTGGCAGCTTGTTTAGAT 59.185 47.619 15.89 0.00 40.72 1.98
161 4924 1.202806 AGCACTGGCAGCTTGTTTAGA 60.203 47.619 15.89 0.00 44.61 2.10
162 4925 1.242076 AGCACTGGCAGCTTGTTTAG 58.758 50.000 15.89 0.00 44.61 1.85
163 4926 3.419793 AGCACTGGCAGCTTGTTTA 57.580 47.368 15.89 0.00 44.61 2.01
164 4927 4.265206 AGCACTGGCAGCTTGTTT 57.735 50.000 15.89 0.00 44.61 2.83
169 4932 3.182590 TTCCGAAGCACTGGCAGCT 62.183 57.895 15.89 4.64 45.97 4.24
170 4933 2.669569 TTCCGAAGCACTGGCAGC 60.670 61.111 15.89 1.73 44.61 5.25
171 4934 0.886490 AAGTTCCGAAGCACTGGCAG 60.886 55.000 14.16 14.16 44.61 4.85
172 4935 0.465460 AAAGTTCCGAAGCACTGGCA 60.465 50.000 0.00 0.00 44.61 4.92
173 4936 1.464997 CTAAAGTTCCGAAGCACTGGC 59.535 52.381 0.00 0.00 41.61 4.85
174 4937 3.040147 TCTAAAGTTCCGAAGCACTGG 57.960 47.619 0.00 0.00 0.00 4.00
175 4938 3.619038 GGATCTAAAGTTCCGAAGCACTG 59.381 47.826 0.00 0.00 0.00 3.66
176 4939 3.369576 GGGATCTAAAGTTCCGAAGCACT 60.370 47.826 0.00 0.00 35.30 4.40
177 4940 2.937149 GGGATCTAAAGTTCCGAAGCAC 59.063 50.000 0.00 0.00 35.30 4.40
178 4941 2.569853 TGGGATCTAAAGTTCCGAAGCA 59.430 45.455 0.00 0.00 35.30 3.91
179 4942 3.261981 TGGGATCTAAAGTTCCGAAGC 57.738 47.619 0.00 0.00 35.30 3.86
180 4943 5.283457 AGATGGGATCTAAAGTTCCGAAG 57.717 43.478 0.00 0.00 38.00 3.79
181 4944 6.801718 TTAGATGGGATCTAAAGTTCCGAA 57.198 37.500 3.97 0.00 45.95 4.30
202 4965 1.238439 GAAGCACTGCAGCCTGTTTA 58.762 50.000 15.27 0.00 34.23 2.01
208 4971 1.234615 TTAACCGAAGCACTGCAGCC 61.235 55.000 15.27 5.10 34.23 4.85
251 5014 1.557832 CTGTTTGGGTTCGATCCCCTA 59.442 52.381 25.58 13.71 46.48 3.53
260 5023 1.045911 TGTTGGGGCTGTTTGGGTTC 61.046 55.000 0.00 0.00 0.00 3.62
381 5144 3.207265 TGCAGCTTTGAACTAAGGTCA 57.793 42.857 0.00 0.00 33.84 4.02
382 5145 3.315191 TGTTGCAGCTTTGAACTAAGGTC 59.685 43.478 1.17 0.00 33.84 3.85
396 5159 7.201350 CCTTCGATTTAAAATAAGTGTTGCAGC 60.201 37.037 0.00 0.00 0.00 5.25
401 5164 8.631480 ACTCCCTTCGATTTAAAATAAGTGTT 57.369 30.769 0.00 0.00 0.00 3.32
413 5176 8.024145 ACTCAAGAATATACTCCCTTCGATTT 57.976 34.615 0.00 0.00 0.00 2.17
432 5195 4.252971 TGGTTCTTAGAACGGACTCAAG 57.747 45.455 17.50 0.00 0.00 3.02
477 5242 9.128107 ACATTAGTTCATTCAATTAAACTTGCG 57.872 29.630 1.21 0.00 34.09 4.85
533 5298 6.648879 AGTACTACCACAATTGCACAAATT 57.351 33.333 5.05 0.00 39.13 1.82
538 5303 4.992319 TGTGTAGTACTACCACAATTGCAC 59.008 41.667 26.41 16.13 35.26 4.57
539 5304 4.992319 GTGTGTAGTACTACCACAATTGCA 59.008 41.667 29.97 16.29 37.28 4.08
698 5474 6.252995 TGCTCCTACATGAAAAGGGTTTTAT 58.747 36.000 0.00 0.00 33.40 1.40
706 5482 4.730657 CTTGCTTGCTCCTACATGAAAAG 58.269 43.478 0.00 0.00 0.00 2.27
711 5487 0.376152 CGCTTGCTTGCTCCTACATG 59.624 55.000 0.00 0.00 0.00 3.21
1720 6625 1.018226 CGAGAAGGCCTTGTCAGCAG 61.018 60.000 34.41 19.04 33.01 4.24
1722 6627 1.743252 CCGAGAAGGCCTTGTCAGC 60.743 63.158 34.41 16.80 33.01 4.26
1723 6628 0.321671 TTCCGAGAAGGCCTTGTCAG 59.678 55.000 34.41 26.66 40.77 3.51
1756 6708 2.751806 AGCTGTAGGTACAAGTACGGTC 59.248 50.000 4.45 0.00 36.94 4.79
1757 6709 2.751806 GAGCTGTAGGTACAAGTACGGT 59.248 50.000 0.00 0.00 36.94 4.83
1762 6714 6.607004 AATAAGTGAGCTGTAGGTACAAGT 57.393 37.500 0.00 0.00 35.50 3.16
1863 6875 3.715628 AAATAGGACGCGTATTACCGT 57.284 42.857 13.97 3.14 40.85 4.83
1864 6876 7.975866 ATAATAAATAGGACGCGTATTACCG 57.024 36.000 13.97 3.99 0.00 4.02
1891 6907 8.399768 ACGATCGCTTATACTGAATCATTATG 57.600 34.615 16.60 0.00 0.00 1.90
1896 6912 6.308371 TGTACGATCGCTTATACTGAATCA 57.692 37.500 16.60 0.00 0.00 2.57
1901 6917 6.032565 GCTGTATTGTACGATCGCTTATACTG 59.967 42.308 16.60 19.12 0.00 2.74
1903 6919 5.854866 TGCTGTATTGTACGATCGCTTATAC 59.145 40.000 16.60 16.69 0.00 1.47
1921 6958 5.746245 GTGCAATAACTGTTGTTTTGCTGTA 59.254 36.000 24.57 11.99 42.91 2.74
1923 6960 4.317278 CGTGCAATAACTGTTGTTTTGCTG 60.317 41.667 24.57 17.97 42.91 4.41
1932 6969 3.502211 CCTTCCTTCGTGCAATAACTGTT 59.498 43.478 0.00 0.00 0.00 3.16
1934 6971 3.074412 ACCTTCCTTCGTGCAATAACTG 58.926 45.455 0.00 0.00 0.00 3.16
1936 6973 3.071479 TGACCTTCCTTCGTGCAATAAC 58.929 45.455 0.00 0.00 0.00 1.89
1939 6976 1.072331 ACTGACCTTCCTTCGTGCAAT 59.928 47.619 0.00 0.00 0.00 3.56
1945 6982 3.877508 AGTTTTTGACTGACCTTCCTTCG 59.122 43.478 0.00 0.00 37.17 3.79
1953 6990 7.043391 GCTTGTAATTTGAGTTTTTGACTGACC 60.043 37.037 0.00 0.00 39.19 4.02
1955 6992 7.542890 TGCTTGTAATTTGAGTTTTTGACTGA 58.457 30.769 0.00 0.00 39.19 3.41
1956 6993 7.754069 TGCTTGTAATTTGAGTTTTTGACTG 57.246 32.000 0.00 0.00 39.19 3.51
1968 7005 7.769272 TTTCTTTGGTCTTGCTTGTAATTTG 57.231 32.000 0.00 0.00 0.00 2.32
1978 7015 8.299570 TCAAATTAGAGATTTCTTTGGTCTTGC 58.700 33.333 0.00 0.00 34.79 4.01
1986 7023 9.918630 CATTGGTGTCAAATTAGAGATTTCTTT 57.081 29.630 0.00 0.00 36.36 2.52
1993 7030 4.016444 GGGCATTGGTGTCAAATTAGAGA 58.984 43.478 0.00 0.00 36.36 3.10
2019 7057 3.426568 GCAGGTGACGAAGCAGGC 61.427 66.667 0.00 0.00 0.00 4.85
2045 7083 4.854173 TCTTTTATTGGCTGCTATGGTGA 58.146 39.130 0.00 0.00 0.00 4.02
2075 7113 2.746277 GTGTGGGGGTGATGCGTC 60.746 66.667 0.00 0.00 0.00 5.19
2079 7117 1.300963 CTCAGGTGTGGGGGTGATG 59.699 63.158 0.00 0.00 0.00 3.07
2086 7124 2.262915 GTCGAGCTCAGGTGTGGG 59.737 66.667 15.40 0.00 0.00 4.61
2098 7136 1.517257 GTGATGGAGCCACGTCGAG 60.517 63.158 0.00 0.00 0.00 4.04
2105 7143 1.770061 TGCATATCAGTGATGGAGCCA 59.230 47.619 16.15 3.24 0.00 4.75
2154 7192 3.385111 TCAACGGTAATGGTTTTGCCTTT 59.615 39.130 0.00 0.00 38.12 3.11
2187 7225 1.218316 GTCCAAGGTGTCGCCCTAG 59.782 63.158 0.00 0.00 38.26 3.02
2203 7241 1.400846 TCTAGAGTTCGATGGCGTGTC 59.599 52.381 0.00 0.00 38.98 3.67
2211 7249 3.068873 GGGTGCAAGATCTAGAGTTCGAT 59.931 47.826 0.00 0.00 0.00 3.59
2217 7255 1.139853 GTGGGGGTGCAAGATCTAGAG 59.860 57.143 0.00 0.00 0.00 2.43
2220 7258 1.212688 CATGTGGGGGTGCAAGATCTA 59.787 52.381 0.00 0.00 0.00 1.98
2221 7259 0.033796 CATGTGGGGGTGCAAGATCT 60.034 55.000 0.00 0.00 0.00 2.75
2225 7263 0.327924 TAGTCATGTGGGGGTGCAAG 59.672 55.000 0.00 0.00 0.00 4.01
2227 7265 0.774276 TTTAGTCATGTGGGGGTGCA 59.226 50.000 0.00 0.00 0.00 4.57
2246 7284 2.041251 TGGTTTCCTTTTCCGACGTT 57.959 45.000 0.00 0.00 0.00 3.99
2255 7293 2.030274 GTGTGCGCTTATGGTTTCCTTT 60.030 45.455 9.73 0.00 0.00 3.11
2256 7294 1.539827 GTGTGCGCTTATGGTTTCCTT 59.460 47.619 9.73 0.00 0.00 3.36
2271 7309 2.672874 TCAATCAGATTACTGCGTGTGC 59.327 45.455 0.00 0.00 43.17 4.57
2272 7310 4.176271 TCTCAATCAGATTACTGCGTGTG 58.824 43.478 0.00 0.00 43.17 3.82
2273 7311 4.456280 TCTCAATCAGATTACTGCGTGT 57.544 40.909 0.00 0.00 43.17 4.49
2274 7312 5.784750 TTTCTCAATCAGATTACTGCGTG 57.215 39.130 0.00 0.00 43.17 5.34
2275 7313 6.183360 CCATTTTCTCAATCAGATTACTGCGT 60.183 38.462 0.00 0.00 43.17 5.24
2276 7314 6.037500 TCCATTTTCTCAATCAGATTACTGCG 59.962 38.462 0.00 0.00 43.17 5.18
2277 7315 7.325660 TCCATTTTCTCAATCAGATTACTGC 57.674 36.000 0.00 0.00 43.17 4.40
2282 7320 8.411683 GCAACTATCCATTTTCTCAATCAGATT 58.588 33.333 0.00 0.00 0.00 2.40
2283 7321 7.778853 AGCAACTATCCATTTTCTCAATCAGAT 59.221 33.333 0.00 0.00 0.00 2.90
2284 7322 7.066645 CAGCAACTATCCATTTTCTCAATCAGA 59.933 37.037 0.00 0.00 0.00 3.27
2285 7323 7.194278 CAGCAACTATCCATTTTCTCAATCAG 58.806 38.462 0.00 0.00 0.00 2.90
2286 7324 6.405065 GCAGCAACTATCCATTTTCTCAATCA 60.405 38.462 0.00 0.00 0.00 2.57
2287 7325 5.975939 GCAGCAACTATCCATTTTCTCAATC 59.024 40.000 0.00 0.00 0.00 2.67
2288 7326 5.163478 GGCAGCAACTATCCATTTTCTCAAT 60.163 40.000 0.00 0.00 0.00 2.57
2289 7327 4.158394 GGCAGCAACTATCCATTTTCTCAA 59.842 41.667 0.00 0.00 0.00 3.02
2290 7328 3.696051 GGCAGCAACTATCCATTTTCTCA 59.304 43.478 0.00 0.00 0.00 3.27
2291 7329 3.696051 TGGCAGCAACTATCCATTTTCTC 59.304 43.478 0.00 0.00 0.00 2.87
2292 7330 3.700538 TGGCAGCAACTATCCATTTTCT 58.299 40.909 0.00 0.00 0.00 2.52
2293 7331 4.614946 GATGGCAGCAACTATCCATTTTC 58.385 43.478 0.00 0.00 39.25 2.29
2294 7332 3.067180 CGATGGCAGCAACTATCCATTTT 59.933 43.478 2.73 0.00 39.25 1.82
2295 7333 2.620115 CGATGGCAGCAACTATCCATTT 59.380 45.455 2.73 0.00 39.25 2.32
2296 7334 2.158769 TCGATGGCAGCAACTATCCATT 60.159 45.455 2.73 0.00 39.25 3.16
2297 7335 1.417517 TCGATGGCAGCAACTATCCAT 59.582 47.619 2.73 0.00 41.63 3.41
2298 7336 0.829990 TCGATGGCAGCAACTATCCA 59.170 50.000 2.73 0.00 0.00 3.41
2299 7337 1.202580 AGTCGATGGCAGCAACTATCC 60.203 52.381 2.73 0.00 0.00 2.59
2300 7338 2.231215 AGTCGATGGCAGCAACTATC 57.769 50.000 2.73 0.00 0.00 2.08
2301 7339 2.430694 TGTAGTCGATGGCAGCAACTAT 59.569 45.455 6.85 0.00 0.00 2.12
2302 7340 1.822371 TGTAGTCGATGGCAGCAACTA 59.178 47.619 0.00 0.00 0.00 2.24
2303 7341 0.608130 TGTAGTCGATGGCAGCAACT 59.392 50.000 0.61 0.61 0.00 3.16
2304 7342 1.328680 CATGTAGTCGATGGCAGCAAC 59.671 52.381 2.73 0.00 0.00 4.17
2305 7343 1.206849 TCATGTAGTCGATGGCAGCAA 59.793 47.619 2.73 0.00 0.00 3.91
2306 7344 0.823460 TCATGTAGTCGATGGCAGCA 59.177 50.000 2.73 0.00 0.00 4.41
2307 7345 1.212616 GTCATGTAGTCGATGGCAGC 58.787 55.000 0.00 0.00 0.00 5.25
2308 7346 2.584492 TGTCATGTAGTCGATGGCAG 57.416 50.000 0.00 0.00 30.48 4.85
2309 7347 2.224042 GGATGTCATGTAGTCGATGGCA 60.224 50.000 0.00 0.00 39.65 4.92
2310 7348 2.224042 TGGATGTCATGTAGTCGATGGC 60.224 50.000 0.00 0.00 0.00 4.40
2311 7349 3.384668 GTGGATGTCATGTAGTCGATGG 58.615 50.000 0.00 0.00 0.00 3.51
2312 7350 3.045688 CGTGGATGTCATGTAGTCGATG 58.954 50.000 0.00 0.00 0.00 3.84
2313 7351 2.688446 ACGTGGATGTCATGTAGTCGAT 59.312 45.455 0.00 0.00 43.29 3.59
2314 7352 2.089201 ACGTGGATGTCATGTAGTCGA 58.911 47.619 0.00 0.00 43.29 4.20
2315 7353 2.561733 ACGTGGATGTCATGTAGTCG 57.438 50.000 0.00 0.00 43.29 4.18
2316 7354 3.129813 TGGTACGTGGATGTCATGTAGTC 59.870 47.826 0.00 0.00 45.43 2.59
2317 7355 3.093814 TGGTACGTGGATGTCATGTAGT 58.906 45.455 0.00 0.00 45.43 2.73
2318 7356 3.444916 GTGGTACGTGGATGTCATGTAG 58.555 50.000 0.00 0.00 45.43 2.74
2322 7360 1.179152 TCGTGGTACGTGGATGTCAT 58.821 50.000 0.00 0.00 43.14 3.06
2325 7363 0.037975 GGTTCGTGGTACGTGGATGT 60.038 55.000 0.00 0.00 43.14 3.06
2329 7367 1.069427 TTGGGTTCGTGGTACGTGG 59.931 57.895 0.00 0.00 43.14 4.94
2343 7381 2.045340 GGTGGATCGTGGGTTGGG 60.045 66.667 0.00 0.00 0.00 4.12
2347 7385 0.991920 AAAGATGGTGGATCGTGGGT 59.008 50.000 0.00 0.00 36.04 4.51
2366 7404 1.153309 CTGCATCGGTGGCATCTGA 60.153 57.895 0.00 0.00 41.06 3.27
2375 7413 1.293498 GACTGTGGTCTGCATCGGT 59.707 57.895 0.00 0.00 39.24 4.69
2391 7429 1.751924 AGTCCAGAAGCGGATACAGAC 59.248 52.381 0.00 0.00 37.41 3.51
2393 7431 2.952978 AGTAGTCCAGAAGCGGATACAG 59.047 50.000 0.00 0.00 37.41 2.74
2430 7468 4.430423 GCGTTTGCTCCAGCGTCG 62.430 66.667 0.00 0.44 45.83 5.12
2451 7489 3.147595 CCGGGCTCCGTCATCTCA 61.148 66.667 11.85 0.00 46.80 3.27
2477 7515 0.179108 GTAGCATCCTCGTGGTGGAC 60.179 60.000 2.99 0.00 36.30 4.02
2482 7520 2.279517 GCGGTAGCATCCTCGTGG 60.280 66.667 0.00 0.00 44.35 4.94
2503 7541 0.109597 GTTCAAGCAAGGATGGTGCG 60.110 55.000 0.00 0.00 46.86 5.34
2509 7547 2.373169 TCCACTCTGTTCAAGCAAGGAT 59.627 45.455 0.00 0.00 0.00 3.24
2556 7594 5.060662 TCCTACTTTGACGAGACAATCTG 57.939 43.478 0.00 0.00 0.00 2.90
2557 7595 5.923733 ATCCTACTTTGACGAGACAATCT 57.076 39.130 0.00 0.00 0.00 2.40
2563 7601 6.340962 TCTTCAAATCCTACTTTGACGAGA 57.659 37.500 0.00 0.00 43.03 4.04
2570 7608 9.408648 TGAAAAAGTCTCTTCAAATCCTACTTT 57.591 29.630 0.00 0.00 37.30 2.66
2571 7609 8.980481 TGAAAAAGTCTCTTCAAATCCTACTT 57.020 30.769 0.00 0.00 0.00 2.24
2577 7615 5.917447 GGTGCTGAAAAAGTCTCTTCAAATC 59.083 40.000 0.00 0.00 31.41 2.17
2580 7618 3.312421 CGGTGCTGAAAAAGTCTCTTCAA 59.688 43.478 0.00 0.00 31.41 2.69
2592 7631 0.948623 CGGTGATGACGGTGCTGAAA 60.949 55.000 0.00 0.00 0.00 2.69
2599 7638 4.430765 GTCGGCGGTGATGACGGT 62.431 66.667 7.21 0.00 41.88 4.83
2615 7654 0.250901 ATGTTCAGCCTTGGCTTCGT 60.251 50.000 11.99 4.56 0.00 3.85
2616 7655 0.449388 GATGTTCAGCCTTGGCTTCG 59.551 55.000 11.99 1.94 0.00 3.79
2691 7732 1.400530 GGTCATCGGTAGTGAGGGGG 61.401 65.000 0.00 0.00 0.00 5.40
2692 7733 0.397254 AGGTCATCGGTAGTGAGGGG 60.397 60.000 0.00 0.00 0.00 4.79
2693 7734 2.231529 CTAGGTCATCGGTAGTGAGGG 58.768 57.143 0.00 0.00 0.00 4.30
2711 7752 2.070039 CCCCTCCGCCAATGACCTA 61.070 63.158 0.00 0.00 0.00 3.08
2738 7779 1.165270 CTTTTTCCATCGCCGTCCTT 58.835 50.000 0.00 0.00 0.00 3.36
2748 7789 1.826385 CCCAGAGCGTCTTTTTCCAT 58.174 50.000 0.00 0.00 0.00 3.41
2749 7790 0.889186 GCCCAGAGCGTCTTTTTCCA 60.889 55.000 0.00 0.00 0.00 3.53
2775 7816 2.047830 AGAAAGAAAGGGTGTCCTCGT 58.952 47.619 0.00 0.00 44.07 4.18
2799 7840 2.223377 GCTTTTCTTTCTTCCTCGCGAA 59.777 45.455 11.33 0.00 0.00 4.70
2800 7841 1.798813 GCTTTTCTTTCTTCCTCGCGA 59.201 47.619 9.26 9.26 0.00 5.87
2801 7842 1.801178 AGCTTTTCTTTCTTCCTCGCG 59.199 47.619 0.00 0.00 0.00 5.87
2802 7843 3.070748 AGAGCTTTTCTTTCTTCCTCGC 58.929 45.455 0.00 0.00 29.61 5.03
2803 7844 4.143221 CGAAGAGCTTTTCTTTCTTCCTCG 60.143 45.833 14.44 0.00 46.12 4.63
2804 7845 4.752604 ACGAAGAGCTTTTCTTTCTTCCTC 59.247 41.667 14.44 0.00 46.12 3.71
2805 7846 4.709250 ACGAAGAGCTTTTCTTTCTTCCT 58.291 39.130 14.44 0.00 46.12 3.36
2806 7847 4.083749 GGACGAAGAGCTTTTCTTTCTTCC 60.084 45.833 14.44 9.49 46.12 3.46
2807 7848 4.376514 CGGACGAAGAGCTTTTCTTTCTTC 60.377 45.833 14.44 7.36 46.12 2.87
2808 7849 3.495001 CGGACGAAGAGCTTTTCTTTCTT 59.505 43.478 14.44 0.00 46.12 2.52
2809 7850 3.060602 CGGACGAAGAGCTTTTCTTTCT 58.939 45.455 14.44 0.00 46.12 2.52
2810 7851 2.801111 ACGGACGAAGAGCTTTTCTTTC 59.199 45.455 14.44 10.24 46.12 2.62
2811 7852 2.801111 GACGGACGAAGAGCTTTTCTTT 59.199 45.455 14.44 1.98 46.12 2.52
2813 7854 1.340248 TGACGGACGAAGAGCTTTTCT 59.660 47.619 14.44 2.59 37.93 2.52
2814 7855 1.779569 TGACGGACGAAGAGCTTTTC 58.220 50.000 6.92 6.92 0.00 2.29
2815 7856 2.288825 TGATGACGGACGAAGAGCTTTT 60.289 45.455 0.00 0.00 0.00 2.27
2816 7857 1.272490 TGATGACGGACGAAGAGCTTT 59.728 47.619 0.00 0.00 0.00 3.51
2817 7858 0.888619 TGATGACGGACGAAGAGCTT 59.111 50.000 0.00 0.00 0.00 3.74
2818 7859 0.888619 TTGATGACGGACGAAGAGCT 59.111 50.000 0.00 0.00 0.00 4.09
2819 7860 1.710013 TTTGATGACGGACGAAGAGC 58.290 50.000 0.00 0.00 0.00 4.09
2820 7861 4.641954 CAATTTTGATGACGGACGAAGAG 58.358 43.478 0.00 0.00 0.00 2.85
2821 7862 3.120338 GCAATTTTGATGACGGACGAAGA 60.120 43.478 0.00 0.00 0.00 2.87
2822 7863 3.120199 AGCAATTTTGATGACGGACGAAG 60.120 43.478 0.00 0.00 0.00 3.79
2823 7864 2.811431 AGCAATTTTGATGACGGACGAA 59.189 40.909 0.00 0.00 0.00 3.85
2824 7865 2.415168 GAGCAATTTTGATGACGGACGA 59.585 45.455 0.00 0.00 0.00 4.20
2825 7866 2.774007 GAGCAATTTTGATGACGGACG 58.226 47.619 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.