Multiple sequence alignment - TraesCS5B01G347000

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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 TraesCS5B01G347000 chr5B 100.000 2336 0 0 1 2336 528576681 528574346 0.000000e+00 4314.0
1 TraesCS5B01G347000 chr5B 88.437 787 83 7 2 784 528583424 528582642 0.000000e+00 942.0
2 TraesCS5B01G347000 chr5B 92.070 227 17 1 2074 2300 291840780 291840555 3.750000e-83 318.0
3 TraesCS5B01G347000 chr5B 91.304 230 19 1 2100 2328 591647020 591646791 1.740000e-81 313.0
4 TraesCS5B01G347000 chr5B 77.113 568 107 16 976 1525 528539687 528539125 8.110000e-80 307.0
5 TraesCS5B01G347000 chr5D 90.219 2096 151 25 1 2056 435265222 435263141 0.000000e+00 2686.0
6 TraesCS5B01G347000 chr5D 89.936 626 56 6 37 660 435271261 435270641 0.000000e+00 800.0
7 TraesCS5B01G347000 chr5D 100.000 32 0 0 2000 2031 435263134 435263103 2.510000e-05 60.2
8 TraesCS5B01G347000 chr5A 90.302 1392 98 13 587 1952 9384678 9386058 0.000000e+00 1788.0
9 TraesCS5B01G347000 chr5A 88.408 1294 117 18 1 1273 549202483 549201202 0.000000e+00 1528.0
10 TraesCS5B01G347000 chr5A 92.453 795 35 7 1259 2052 549201185 549200415 0.000000e+00 1112.0
11 TraesCS5B01G347000 chr5A 90.429 606 50 8 1 602 9382805 9383406 0.000000e+00 791.0
12 TraesCS5B01G347000 chr5A 89.297 626 60 6 37 660 549212259 549211639 0.000000e+00 778.0
13 TraesCS5B01G347000 chr5A 84.165 461 43 12 576 1018 549209028 549208580 9.980000e-114 420.0
14 TraesCS5B01G347000 chr5A 76.391 593 117 16 982 1558 549155816 549155231 4.880000e-77 298.0
15 TraesCS5B01G347000 chr5A 97.980 99 2 0 1953 2051 9386359 9386457 3.090000e-39 172.0
16 TraesCS5B01G347000 chr2B 91.892 259 19 2 2079 2336 181755723 181755980 6.140000e-96 361.0
17 TraesCS5B01G347000 chr2B 91.045 67 3 3 2272 2336 767769041 767768976 1.150000e-13 87.9
18 TraesCS5B01G347000 chr2A 91.892 259 19 2 2078 2335 729289097 729288840 6.140000e-96 361.0
19 TraesCS5B01G347000 chr2A 89.714 175 14 3 2100 2273 444623739 444623568 1.090000e-53 220.0
20 TraesCS5B01G347000 chr1B 90.943 265 19 4 2075 2336 658360817 658361079 3.690000e-93 351.0
21 TraesCS5B01G347000 chr3B 90.588 255 20 4 2075 2327 117922375 117922627 3.720000e-88 335.0
22 TraesCS5B01G347000 chr3B 91.411 163 13 1 2100 2262 783212713 783212874 3.020000e-54 222.0
23 TraesCS5B01G347000 chr4D 92.857 224 16 0 2077 2300 238640349 238640126 2.240000e-85 326.0
24 TraesCS5B01G347000 chr6B 90.123 243 17 6 2096 2336 228695698 228695461 2.250000e-80 309.0
25 TraesCS5B01G347000 chr1A 88.933 253 25 3 2078 2328 77276861 77277112 2.250000e-80 309.0


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 TraesCS5B01G347000 chr5B 528574346 528576681 2335 True 4314.0 4314 100.000000 1 2336 1 chr5B.!!$R3 2335
1 TraesCS5B01G347000 chr5B 528582642 528583424 782 True 942.0 942 88.437000 2 784 1 chr5B.!!$R4 782
2 TraesCS5B01G347000 chr5B 528539125 528539687 562 True 307.0 307 77.113000 976 1525 1 chr5B.!!$R2 549
3 TraesCS5B01G347000 chr5D 435263103 435265222 2119 True 1373.1 2686 95.109500 1 2056 2 chr5D.!!$R2 2055
4 TraesCS5B01G347000 chr5D 435270641 435271261 620 True 800.0 800 89.936000 37 660 1 chr5D.!!$R1 623
5 TraesCS5B01G347000 chr5A 549200415 549202483 2068 True 1320.0 1528 90.430500 1 2052 2 chr5A.!!$R2 2051
6 TraesCS5B01G347000 chr5A 9382805 9386457 3652 False 917.0 1788 92.903667 1 2051 3 chr5A.!!$F1 2050
7 TraesCS5B01G347000 chr5A 549208580 549212259 3679 True 599.0 778 86.731000 37 1018 2 chr5A.!!$R3 981
8 TraesCS5B01G347000 chr5A 549155231 549155816 585 True 298.0 298 76.391000 982 1558 1 chr5A.!!$R1 576

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
371 376 0.392193 ATGAACTTGGCAGCTCTCCG 60.392 55.0 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1883 5953 0.251297 CATGACACTGGCCCTCCAAA 60.251 55.0 0.0 0.0 42.91 3.28 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
27 28 2.095768 GCATCTTTTGCGTTGCTACTCA 60.096 45.455 0.00 0.00 42.54 3.41
61 62 5.475273 TGATAAGATTCAGCAAGCTTTCG 57.525 39.130 0.00 0.00 39.08 3.46
92 93 2.516227 AGTCAGCCTGCTAGTCAGTA 57.484 50.000 11.57 0.00 41.25 2.74
96 97 4.956700 AGTCAGCCTGCTAGTCAGTAAATA 59.043 41.667 11.57 0.00 41.25 1.40
97 98 5.600484 AGTCAGCCTGCTAGTCAGTAAATAT 59.400 40.000 11.57 0.00 41.25 1.28
103 104 6.538742 GCCTGCTAGTCAGTAAATATGTTTCA 59.461 38.462 11.57 0.00 41.25 2.69
140 141 5.220209 GGAAGACGTTTGCAAAACTTGAAAG 60.220 40.000 22.84 4.82 27.89 2.62
166 168 4.589908 AGTCAACGGGAATTTGAAGCTAT 58.410 39.130 0.00 0.00 34.78 2.97
196 198 2.309613 TGCCAAATTCTCAAGCACTGT 58.690 42.857 0.00 0.00 0.00 3.55
233 237 1.954927 GAGGGCTTAAACCTCGATGG 58.045 55.000 9.42 0.00 44.50 3.51
237 241 1.334869 GGCTTAAACCTCGATGGCATG 59.665 52.381 3.81 0.00 40.22 4.06
238 242 1.334869 GCTTAAACCTCGATGGCATGG 59.665 52.381 3.81 3.19 40.22 3.66
245 249 1.686587 CCTCGATGGCATGGTAGTGTA 59.313 52.381 3.81 0.00 0.00 2.90
336 341 6.420903 TGTCTTTCGTCTGATCTTGTTGTAAG 59.579 38.462 0.00 0.00 0.00 2.34
371 376 0.392193 ATGAACTTGGCAGCTCTCCG 60.392 55.000 0.00 0.00 0.00 4.63
377 382 2.030262 GGCAGCTCTCCGGCTATG 59.970 66.667 0.00 0.00 41.00 2.23
378 383 2.664518 GCAGCTCTCCGGCTATGC 60.665 66.667 0.00 0.00 41.00 3.14
390 395 3.904136 CGGCTATGCTGGAAAATTAGG 57.096 47.619 0.00 0.00 0.00 2.69
396 401 5.050295 GCTATGCTGGAAAATTAGGTACGAC 60.050 44.000 0.00 0.00 0.00 4.34
397 402 3.255725 TGCTGGAAAATTAGGTACGACG 58.744 45.455 0.00 0.00 0.00 5.12
402 407 2.591571 AAATTAGGTACGACGGCCTC 57.408 50.000 15.03 0.00 36.38 4.70
481 487 3.218470 AGCGCTTTGGTTGCTGCA 61.218 55.556 2.64 0.00 37.62 4.41
573 580 6.705863 AGGATCCTAATGAAAAGCACAATC 57.294 37.500 14.27 0.00 0.00 2.67
586 593 4.558226 AGCACAATCTTGTACTGGATCA 57.442 40.909 0.00 0.00 39.91 2.92
638 1934 6.561294 ACGGATTTATCAAATTGGGGGATAT 58.439 36.000 0.00 0.00 0.00 1.63
683 4676 4.389992 GCTCATTCGTGAACATTTCTCTGA 59.610 41.667 0.00 0.00 0.00 3.27
720 4713 6.877611 TCTTTGTAAATTTCTGGGTCTGAC 57.122 37.500 0.00 0.00 0.00 3.51
751 4744 6.492007 AACTGTGCAGAAGAATATGTTGAG 57.508 37.500 6.17 0.00 0.00 3.02
755 4748 5.091431 GTGCAGAAGAATATGTTGAGTTGC 58.909 41.667 0.00 0.00 0.00 4.17
820 4813 2.589798 TATAAACGCTGGAGGAACGG 57.410 50.000 0.00 0.00 0.00 4.44
840 4846 4.013582 GGTGTTTGTAACCGTTTTTCGA 57.986 40.909 0.00 0.00 42.86 3.71
842 4848 4.671964 GGTGTTTGTAACCGTTTTTCGATC 59.328 41.667 0.00 0.00 42.86 3.69
883 4889 3.563390 GCATAGAACATCCTCTTTCCTGC 59.437 47.826 0.00 0.00 0.00 4.85
897 4903 4.162320 TCTTTCCTGCTTCCTACATCGAAT 59.838 41.667 0.00 0.00 0.00 3.34
964 4973 5.124457 CAGACAATAACATGCTGGCTAACTT 59.876 40.000 0.00 0.00 0.00 2.66
1052 5061 1.907936 AGAGGCACTTCTTCTGAGCAT 59.092 47.619 0.00 0.00 41.55 3.79
1235 5247 1.892819 ATGACACAGTGGCCCTCTCG 61.893 60.000 3.17 0.00 0.00 4.04
1286 5329 2.292016 CTGTTGTTGCCGTCATGGTAAA 59.708 45.455 0.00 0.00 44.51 2.01
1287 5330 2.292016 TGTTGTTGCCGTCATGGTAAAG 59.708 45.455 0.00 0.00 44.51 1.85
1395 5440 0.905357 TGGGAGTTGGAAGCTCTAGC 59.095 55.000 0.00 0.00 42.49 3.42
1564 5632 3.317149 TGCAAGCAGATCAAGGATTATGC 59.683 43.478 0.00 8.47 36.19 3.14
1613 5682 1.072331 GATGGGTACTGCCATAGTGGG 59.928 57.143 3.86 0.00 40.65 4.61
1723 5793 0.394899 CATCTTGGGTCCAGCCTTCC 60.395 60.000 0.00 0.00 37.43 3.46
1763 5833 9.740239 CATCTTATTTGGAATCTTGTGTTATGG 57.260 33.333 0.00 0.00 0.00 2.74
1783 5853 1.673033 GGAGTGACACCGTCAAGGATG 60.673 57.143 0.84 0.00 44.49 3.51
1800 5870 5.146010 AGGATGAGCTACTTATGCTTAGC 57.854 43.478 0.00 0.00 41.30 3.09
1869 5939 2.813172 TCTGCAATTCATCAACGCTGAA 59.187 40.909 0.00 0.00 37.06 3.02
2053 6432 1.471119 TGGCCTACCTGACTTCTACG 58.529 55.000 3.32 0.00 36.63 3.51
2056 6435 1.376543 CCTACCTGACTTCTACGCGA 58.623 55.000 15.93 0.00 0.00 5.87
2057 6436 1.948145 CCTACCTGACTTCTACGCGAT 59.052 52.381 15.93 0.00 0.00 4.58
2058 6437 2.287069 CCTACCTGACTTCTACGCGATG 60.287 54.545 15.93 4.70 0.00 3.84
2059 6438 1.460504 ACCTGACTTCTACGCGATGA 58.539 50.000 15.93 7.51 0.00 2.92
2060 6439 1.402259 ACCTGACTTCTACGCGATGAG 59.598 52.381 15.93 7.15 0.00 2.90
2061 6440 1.402259 CCTGACTTCTACGCGATGAGT 59.598 52.381 15.93 11.08 0.00 3.41
2062 6441 2.159366 CCTGACTTCTACGCGATGAGTT 60.159 50.000 15.93 0.67 0.00 3.01
2063 6442 3.064958 CCTGACTTCTACGCGATGAGTTA 59.935 47.826 15.93 7.02 0.00 2.24
2064 6443 4.261238 CCTGACTTCTACGCGATGAGTTAT 60.261 45.833 15.93 0.00 0.00 1.89
2065 6444 5.244785 TGACTTCTACGCGATGAGTTATT 57.755 39.130 15.93 0.00 0.00 1.40
2066 6445 6.367686 TGACTTCTACGCGATGAGTTATTA 57.632 37.500 15.93 0.00 0.00 0.98
2068 6447 6.856426 TGACTTCTACGCGATGAGTTATTATG 59.144 38.462 15.93 0.00 0.00 1.90
2069 6448 6.736123 ACTTCTACGCGATGAGTTATTATGT 58.264 36.000 15.93 0.00 0.00 2.29
2070 6449 7.201145 ACTTCTACGCGATGAGTTATTATGTT 58.799 34.615 15.93 0.00 0.00 2.71
2071 6450 8.347771 ACTTCTACGCGATGAGTTATTATGTTA 58.652 33.333 15.93 0.00 0.00 2.41
2072 6451 9.343103 CTTCTACGCGATGAGTTATTATGTTAT 57.657 33.333 15.93 0.00 0.00 1.89
2073 6452 9.687210 TTCTACGCGATGAGTTATTATGTTATT 57.313 29.630 15.93 0.00 0.00 1.40
2091 6470 7.472334 TGTTATTATATACTCCCTCCGTTCC 57.528 40.000 0.00 0.00 0.00 3.62
2092 6471 7.243824 TGTTATTATATACTCCCTCCGTTCCT 58.756 38.462 0.00 0.00 0.00 3.36
2093 6472 8.393259 TGTTATTATATACTCCCTCCGTTCCTA 58.607 37.037 0.00 0.00 0.00 2.94
2094 6473 9.247861 GTTATTATATACTCCCTCCGTTCCTAA 57.752 37.037 0.00 0.00 0.00 2.69
2095 6474 9.827198 TTATTATATACTCCCTCCGTTCCTAAA 57.173 33.333 0.00 0.00 0.00 1.85
2096 6475 8.912614 ATTATATACTCCCTCCGTTCCTAAAT 57.087 34.615 0.00 0.00 0.00 1.40
2098 6477 7.957992 ATATACTCCCTCCGTTCCTAAATAG 57.042 40.000 0.00 0.00 0.00 1.73
2099 6478 3.991683 ACTCCCTCCGTTCCTAAATAGT 58.008 45.455 0.00 0.00 0.00 2.12
2100 6479 3.959449 ACTCCCTCCGTTCCTAAATAGTC 59.041 47.826 0.00 0.00 0.00 2.59
2101 6480 3.303049 TCCCTCCGTTCCTAAATAGTCC 58.697 50.000 0.00 0.00 0.00 3.85
2102 6481 2.367894 CCCTCCGTTCCTAAATAGTCCC 59.632 54.545 0.00 0.00 0.00 4.46
2103 6482 3.306613 CCTCCGTTCCTAAATAGTCCCT 58.693 50.000 0.00 0.00 0.00 4.20
2104 6483 3.321396 CCTCCGTTCCTAAATAGTCCCTC 59.679 52.174 0.00 0.00 0.00 4.30
2105 6484 3.303049 TCCGTTCCTAAATAGTCCCTCC 58.697 50.000 0.00 0.00 0.00 4.30
2106 6485 2.035576 CCGTTCCTAAATAGTCCCTCCG 59.964 54.545 0.00 0.00 0.00 4.63
2107 6486 2.692041 CGTTCCTAAATAGTCCCTCCGT 59.308 50.000 0.00 0.00 0.00 4.69
2108 6487 3.131755 CGTTCCTAAATAGTCCCTCCGTT 59.868 47.826 0.00 0.00 0.00 4.44
2109 6488 4.691175 GTTCCTAAATAGTCCCTCCGTTC 58.309 47.826 0.00 0.00 0.00 3.95
2110 6489 3.303049 TCCTAAATAGTCCCTCCGTTCC 58.697 50.000 0.00 0.00 0.00 3.62
2111 6490 3.052338 TCCTAAATAGTCCCTCCGTTCCT 60.052 47.826 0.00 0.00 0.00 3.36
2112 6491 4.168675 TCCTAAATAGTCCCTCCGTTCCTA 59.831 45.833 0.00 0.00 0.00 2.94
2113 6492 4.897670 CCTAAATAGTCCCTCCGTTCCTAA 59.102 45.833 0.00 0.00 0.00 2.69
2114 6493 5.364735 CCTAAATAGTCCCTCCGTTCCTAAA 59.635 44.000 0.00 0.00 0.00 1.85
2115 6494 5.970501 AAATAGTCCCTCCGTTCCTAAAT 57.029 39.130 0.00 0.00 0.00 1.40
2116 6495 7.234166 CCTAAATAGTCCCTCCGTTCCTAAATA 59.766 40.741 0.00 0.00 0.00 1.40
2117 6496 6.416631 AATAGTCCCTCCGTTCCTAAATAC 57.583 41.667 0.00 0.00 0.00 1.89
2118 6497 3.991683 AGTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
2119 6498 4.359996 AGTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
2120 6499 4.161754 AGTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
2121 6500 4.081254 GTCCCTCCGTTCCTAAATACTTGT 60.081 45.833 0.00 0.00 0.00 3.16
2122 6501 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
2123 6502 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
2124 6503 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
2125 6504 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
2126 6505 6.313164 CCTCCGTTCCTAAATACTTGTCTTTC 59.687 42.308 0.00 0.00 0.00 2.62
2127 6506 7.001099 TCCGTTCCTAAATACTTGTCTTTCT 57.999 36.000 0.00 0.00 0.00 2.52
2128 6507 8.125978 TCCGTTCCTAAATACTTGTCTTTCTA 57.874 34.615 0.00 0.00 0.00 2.10
2129 6508 8.248945 TCCGTTCCTAAATACTTGTCTTTCTAG 58.751 37.037 0.00 0.00 0.00 2.43
2130 6509 8.248945 CCGTTCCTAAATACTTGTCTTTCTAGA 58.751 37.037 0.00 0.00 0.00 2.43
2131 6510 9.291664 CGTTCCTAAATACTTGTCTTTCTAGAG 57.708 37.037 0.00 0.00 0.00 2.43
2145 6524 9.613428 TGTCTTTCTAGAGATTTCAAAAAGTGA 57.387 29.630 0.00 0.00 0.00 3.41
2146 6525 9.871299 GTCTTTCTAGAGATTTCAAAAAGTGAC 57.129 33.333 0.00 0.00 35.39 3.67
2147 6526 9.838339 TCTTTCTAGAGATTTCAAAAAGTGACT 57.162 29.630 0.00 0.00 35.39 3.41
2155 6534 9.994432 GAGATTTCAAAAAGTGACTACATATGG 57.006 33.333 7.80 0.00 35.39 2.74
2156 6535 9.739276 AGATTTCAAAAAGTGACTACATATGGA 57.261 29.630 7.80 0.00 35.39 3.41
2157 6536 9.994432 GATTTCAAAAAGTGACTACATATGGAG 57.006 33.333 13.77 13.77 35.39 3.86
2158 6537 6.985188 TCAAAAAGTGACTACATATGGAGC 57.015 37.500 15.30 8.47 0.00 4.70
2159 6538 6.472016 TCAAAAAGTGACTACATATGGAGCA 58.528 36.000 15.30 10.95 0.00 4.26
2160 6539 6.939730 TCAAAAAGTGACTACATATGGAGCAA 59.060 34.615 15.30 0.16 0.00 3.91
2161 6540 7.446931 TCAAAAAGTGACTACATATGGAGCAAA 59.553 33.333 15.30 0.00 0.00 3.68
2162 6541 7.759489 AAAAGTGACTACATATGGAGCAAAA 57.241 32.000 15.30 0.00 0.00 2.44
2163 6542 7.944729 AAAGTGACTACATATGGAGCAAAAT 57.055 32.000 15.30 0.00 0.00 1.82
2164 6543 6.932356 AGTGACTACATATGGAGCAAAATG 57.068 37.500 15.30 0.00 0.00 2.32
2165 6544 6.653020 AGTGACTACATATGGAGCAAAATGA 58.347 36.000 15.30 0.00 0.00 2.57
2166 6545 6.765036 AGTGACTACATATGGAGCAAAATGAG 59.235 38.462 15.30 0.00 0.00 2.90
2167 6546 6.540189 GTGACTACATATGGAGCAAAATGAGT 59.460 38.462 15.30 0.00 0.00 3.41
2168 6547 6.539826 TGACTACATATGGAGCAAAATGAGTG 59.460 38.462 15.30 0.00 0.00 3.51
2169 6548 6.653020 ACTACATATGGAGCAAAATGAGTGA 58.347 36.000 15.30 0.00 0.00 3.41
2170 6549 7.112122 ACTACATATGGAGCAAAATGAGTGAA 58.888 34.615 15.30 0.00 0.00 3.18
2171 6550 7.776969 ACTACATATGGAGCAAAATGAGTGAAT 59.223 33.333 15.30 0.00 0.00 2.57
2172 6551 7.035840 ACATATGGAGCAAAATGAGTGAATC 57.964 36.000 7.80 0.00 0.00 2.52
2173 6552 6.832384 ACATATGGAGCAAAATGAGTGAATCT 59.168 34.615 7.80 0.00 0.00 2.40
2174 6553 7.994911 ACATATGGAGCAAAATGAGTGAATCTA 59.005 33.333 7.80 0.00 0.00 1.98
2175 6554 6.690194 ATGGAGCAAAATGAGTGAATCTAC 57.310 37.500 0.00 0.00 0.00 2.59
2176 6555 5.559770 TGGAGCAAAATGAGTGAATCTACA 58.440 37.500 0.00 0.00 0.00 2.74
2177 6556 5.412594 TGGAGCAAAATGAGTGAATCTACAC 59.587 40.000 0.00 0.00 40.60 2.90
2208 6587 9.639601 AAATATGTCTATGTACATCCGTATGTG 57.360 33.333 12.68 0.00 45.99 3.21
2209 6588 5.447624 TGTCTATGTACATCCGTATGTGG 57.552 43.478 12.68 0.00 45.99 4.17
2210 6589 4.891168 TGTCTATGTACATCCGTATGTGGT 59.109 41.667 12.68 0.00 45.99 4.16
2211 6590 6.063404 TGTCTATGTACATCCGTATGTGGTA 58.937 40.000 12.68 0.00 45.99 3.25
2212 6591 6.206048 TGTCTATGTACATCCGTATGTGGTAG 59.794 42.308 12.68 0.00 45.99 3.18
2213 6592 6.206243 GTCTATGTACATCCGTATGTGGTAGT 59.794 42.308 12.68 0.00 45.99 2.73
2214 6593 4.906065 TGTACATCCGTATGTGGTAGTC 57.094 45.455 3.56 0.00 45.99 2.59
2215 6594 4.529897 TGTACATCCGTATGTGGTAGTCT 58.470 43.478 3.56 0.00 45.99 3.24
2216 6595 5.683681 TGTACATCCGTATGTGGTAGTCTA 58.316 41.667 3.56 0.00 45.99 2.59
2217 6596 6.301486 TGTACATCCGTATGTGGTAGTCTAT 58.699 40.000 3.56 0.00 45.99 1.98
2218 6597 6.774170 TGTACATCCGTATGTGGTAGTCTATT 59.226 38.462 3.56 0.00 45.99 1.73
2219 6598 6.726490 ACATCCGTATGTGGTAGTCTATTT 57.274 37.500 0.00 0.00 44.79 1.40
2220 6599 6.513180 ACATCCGTATGTGGTAGTCTATTTG 58.487 40.000 0.00 0.00 44.79 2.32
2221 6600 6.322969 ACATCCGTATGTGGTAGTCTATTTGA 59.677 38.462 0.00 0.00 44.79 2.69
2222 6601 6.778834 TCCGTATGTGGTAGTCTATTTGAA 57.221 37.500 0.00 0.00 0.00 2.69
2223 6602 7.172868 TCCGTATGTGGTAGTCTATTTGAAA 57.827 36.000 0.00 0.00 0.00 2.69
2224 6603 7.788026 TCCGTATGTGGTAGTCTATTTGAAAT 58.212 34.615 0.00 0.00 0.00 2.17
2225 6604 7.924412 TCCGTATGTGGTAGTCTATTTGAAATC 59.076 37.037 0.00 0.00 0.00 2.17
2226 6605 7.926555 CCGTATGTGGTAGTCTATTTGAAATCT 59.073 37.037 0.00 0.00 0.00 2.40
2227 6606 8.969267 CGTATGTGGTAGTCTATTTGAAATCTC 58.031 37.037 0.00 0.00 0.00 2.75
2231 6610 9.475620 TGTGGTAGTCTATTTGAAATCTCTAGA 57.524 33.333 0.00 0.00 0.00 2.43
2255 6634 8.049721 AGAAAGACAACTATTTAGGAATGGAGG 58.950 37.037 0.00 0.00 0.00 4.30
2256 6635 6.253946 AGACAACTATTTAGGAATGGAGGG 57.746 41.667 0.00 0.00 0.00 4.30
2257 6636 5.970640 AGACAACTATTTAGGAATGGAGGGA 59.029 40.000 0.00 0.00 0.00 4.20
2258 6637 6.100424 AGACAACTATTTAGGAATGGAGGGAG 59.900 42.308 0.00 0.00 0.00 4.30
2259 6638 5.731678 ACAACTATTTAGGAATGGAGGGAGT 59.268 40.000 0.00 0.00 0.00 3.85
2260 6639 6.906901 ACAACTATTTAGGAATGGAGGGAGTA 59.093 38.462 0.00 0.00 0.00 2.59
2261 6640 7.572861 ACAACTATTTAGGAATGGAGGGAGTAT 59.427 37.037 0.00 0.00 0.00 2.12
2262 6641 9.101325 CAACTATTTAGGAATGGAGGGAGTATA 57.899 37.037 0.00 0.00 0.00 1.47
2263 6642 9.684702 AACTATTTAGGAATGGAGGGAGTATAA 57.315 33.333 0.00 0.00 0.00 0.98
2264 6643 9.327731 ACTATTTAGGAATGGAGGGAGTATAAG 57.672 37.037 0.00 0.00 0.00 1.73
2265 6644 9.327731 CTATTTAGGAATGGAGGGAGTATAAGT 57.672 37.037 0.00 0.00 0.00 2.24
2266 6645 7.613551 TTTAGGAATGGAGGGAGTATAAGTC 57.386 40.000 0.00 0.00 0.00 3.01
2267 6646 5.426325 AGGAATGGAGGGAGTATAAGTCT 57.574 43.478 0.00 0.00 0.00 3.24
2268 6647 5.793967 AGGAATGGAGGGAGTATAAGTCTT 58.206 41.667 0.00 0.00 0.00 3.01
2269 6648 6.213525 AGGAATGGAGGGAGTATAAGTCTTT 58.786 40.000 0.00 0.00 0.00 2.52
2270 6649 6.100424 AGGAATGGAGGGAGTATAAGTCTTTG 59.900 42.308 0.00 0.00 0.00 2.77
2271 6650 6.126739 GGAATGGAGGGAGTATAAGTCTTTGT 60.127 42.308 0.00 0.00 0.00 2.83
2272 6651 7.070821 GGAATGGAGGGAGTATAAGTCTTTGTA 59.929 40.741 0.00 0.00 0.00 2.41
2273 6652 7.604657 ATGGAGGGAGTATAAGTCTTTGTAG 57.395 40.000 0.00 0.00 0.00 2.74
2274 6653 6.738635 TGGAGGGAGTATAAGTCTTTGTAGA 58.261 40.000 0.00 0.00 0.00 2.59
2275 6654 6.834451 TGGAGGGAGTATAAGTCTTTGTAGAG 59.166 42.308 0.00 0.00 0.00 2.43
2276 6655 7.061688 GGAGGGAGTATAAGTCTTTGTAGAGA 58.938 42.308 0.00 0.00 0.00 3.10
2277 6656 7.726738 GGAGGGAGTATAAGTCTTTGTAGAGAT 59.273 40.741 0.00 0.00 0.00 2.75
2278 6657 9.138596 GAGGGAGTATAAGTCTTTGTAGAGATT 57.861 37.037 0.00 0.00 0.00 2.40
2279 6658 9.495382 AGGGAGTATAAGTCTTTGTAGAGATTT 57.505 33.333 0.00 0.00 31.59 2.17
2280 6659 9.752961 GGGAGTATAAGTCTTTGTAGAGATTTC 57.247 37.037 0.00 0.00 29.76 2.17
2287 6666 8.503458 AAGTCTTTGTAGAGATTTCATCATGG 57.497 34.615 0.00 0.00 0.00 3.66
2288 6667 7.855375 AGTCTTTGTAGAGATTTCATCATGGA 58.145 34.615 0.00 0.00 0.00 3.41
2289 6668 7.768120 AGTCTTTGTAGAGATTTCATCATGGAC 59.232 37.037 0.00 0.00 0.00 4.02
2290 6669 7.768120 GTCTTTGTAGAGATTTCATCATGGACT 59.232 37.037 0.00 0.00 0.00 3.85
2291 6670 8.981659 TCTTTGTAGAGATTTCATCATGGACTA 58.018 33.333 0.00 0.00 0.00 2.59
2292 6671 8.948631 TTTGTAGAGATTTCATCATGGACTAC 57.051 34.615 0.00 0.00 0.00 2.73
2293 6672 7.660030 TGTAGAGATTTCATCATGGACTACA 57.340 36.000 0.00 0.00 36.46 2.74
2294 6673 8.255111 TGTAGAGATTTCATCATGGACTACAT 57.745 34.615 0.00 0.00 41.57 2.29
2295 6674 9.367160 TGTAGAGATTTCATCATGGACTACATA 57.633 33.333 0.00 0.00 37.84 2.29
2296 6675 9.632807 GTAGAGATTTCATCATGGACTACATAC 57.367 37.037 0.00 0.00 37.84 2.39
2297 6676 7.374272 AGAGATTTCATCATGGACTACATACG 58.626 38.462 0.00 0.00 37.84 3.06
2298 6677 6.459066 AGATTTCATCATGGACTACATACGG 58.541 40.000 0.00 0.00 37.84 4.02
2299 6678 5.862678 TTTCATCATGGACTACATACGGA 57.137 39.130 0.00 0.00 37.84 4.69
2300 6679 5.453567 TTCATCATGGACTACATACGGAG 57.546 43.478 0.00 0.00 37.84 4.63
2301 6680 3.255888 TCATCATGGACTACATACGGAGC 59.744 47.826 0.00 0.00 37.84 4.70
2302 6681 2.661718 TCATGGACTACATACGGAGCA 58.338 47.619 0.00 0.00 37.84 4.26
2303 6682 3.028130 TCATGGACTACATACGGAGCAA 58.972 45.455 0.00 0.00 37.84 3.91
2304 6683 3.449377 TCATGGACTACATACGGAGCAAA 59.551 43.478 0.00 0.00 37.84 3.68
2305 6684 3.965379 TGGACTACATACGGAGCAAAA 57.035 42.857 0.00 0.00 0.00 2.44
2306 6685 4.481368 TGGACTACATACGGAGCAAAAT 57.519 40.909 0.00 0.00 0.00 1.82
2307 6686 4.188462 TGGACTACATACGGAGCAAAATG 58.812 43.478 0.00 0.00 0.00 2.32
2308 6687 4.081365 TGGACTACATACGGAGCAAAATGA 60.081 41.667 0.00 0.00 0.00 2.57
2309 6688 4.508124 GGACTACATACGGAGCAAAATGAG 59.492 45.833 0.00 0.00 0.00 2.90
2310 6689 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
2311 6690 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
2312 6691 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
2313 6692 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
2314 6693 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
2315 6694 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
2316 6695 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
2317 6696 3.686726 ACGGAGCAAAATGAGTGAATCTC 59.313 43.478 0.00 0.00 43.03 2.75
2333 6712 7.551035 GTGAATCTCACTCTAAAATGCATCT 57.449 36.000 0.00 0.00 43.73 2.90
2334 6713 8.654230 GTGAATCTCACTCTAAAATGCATCTA 57.346 34.615 0.00 0.00 43.73 1.98
2335 6714 9.270640 GTGAATCTCACTCTAAAATGCATCTAT 57.729 33.333 0.00 0.00 43.73 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 9.453572 TGCTGAATCTTATCAAGAACATTTAGT 57.546 29.630 0.00 0.00 41.63 2.24
96 97 7.869429 GTCTTCCAAAACTCATCAATGAAACAT 59.131 33.333 0.00 0.00 36.18 2.71
97 98 7.202526 GTCTTCCAAAACTCATCAATGAAACA 58.797 34.615 0.00 0.00 36.18 2.83
103 104 6.208644 CAAACGTCTTCCAAAACTCATCAAT 58.791 36.000 0.00 0.00 0.00 2.57
111 112 4.634000 GTTTTGCAAACGTCTTCCAAAAC 58.366 39.130 12.39 20.54 44.13 2.43
140 141 5.123979 AGCTTCAAATTCCCGTTGACTATTC 59.876 40.000 0.00 0.00 34.78 1.75
166 168 6.350110 GCTTGAGAATTTGGCAAACATAGGTA 60.350 38.462 16.00 0.00 0.00 3.08
252 256 4.051237 GTTGGTTCCAATTCAAGTTCTGC 58.949 43.478 7.56 0.00 0.00 4.26
253 257 4.099266 TGGTTGGTTCCAATTCAAGTTCTG 59.901 41.667 7.56 0.00 34.24 3.02
254 258 4.099419 GTGGTTGGTTCCAATTCAAGTTCT 59.901 41.667 7.56 0.00 39.34 3.01
264 269 3.704800 TCATATCGTGGTTGGTTCCAA 57.295 42.857 0.00 0.00 39.34 3.53
336 341 4.826556 AGTTCATTACTCAGAGCAGGAAC 58.173 43.478 15.43 15.43 35.00 3.62
371 376 4.213482 CGTACCTAATTTTCCAGCATAGCC 59.787 45.833 0.00 0.00 0.00 3.93
377 382 2.606272 CCGTCGTACCTAATTTTCCAGC 59.394 50.000 0.00 0.00 0.00 4.85
378 383 2.606272 GCCGTCGTACCTAATTTTCCAG 59.394 50.000 0.00 0.00 0.00 3.86
386 391 3.501396 CGAGGCCGTCGTACCTAA 58.499 61.111 14.22 0.00 44.20 2.69
396 401 1.153939 CAGTTGAGACTCGAGGCCG 60.154 63.158 16.58 0.00 32.54 6.13
397 402 0.172352 CTCAGTTGAGACTCGAGGCC 59.828 60.000 16.58 7.28 44.74 5.19
477 483 1.731160 GCAAGTTGCTAGACTCTGCAG 59.269 52.381 20.71 7.63 40.96 4.41
573 580 3.287867 AATGCCCTGATCCAGTACAAG 57.712 47.619 0.00 0.00 0.00 3.16
611 1907 4.215109 CCCCAATTTGATAAATCCGTCCT 58.785 43.478 0.00 0.00 0.00 3.85
668 4660 3.499918 CAGGTGGTCAGAGAAATGTTCAC 59.500 47.826 0.00 0.00 0.00 3.18
683 4676 2.718563 ACAAAGAAACGTTCAGGTGGT 58.281 42.857 0.00 0.00 0.00 4.16
720 4713 1.218875 TTCTGCACAGTTACGTGGCG 61.219 55.000 0.00 0.00 37.37 5.69
751 4744 5.751243 TTTTAGGACTTGAACAGAGCAAC 57.249 39.130 0.00 0.00 0.00 4.17
755 4748 4.150804 GTCGCTTTTAGGACTTGAACAGAG 59.849 45.833 0.00 0.00 0.00 3.35
805 4798 2.030562 CACCGTTCCTCCAGCGTT 59.969 61.111 0.00 0.00 0.00 4.84
820 4813 4.373672 CGATCGAAAAACGGTTACAAACAC 59.626 41.667 10.26 0.00 42.82 3.32
1052 5061 2.602890 ATGGAGTACGCCATGTCCA 58.397 52.632 27.89 15.20 46.62 4.02
1235 5247 2.641559 GCTCAACAGCAGTGGCAC 59.358 61.111 10.29 10.29 46.06 5.01
1286 5329 3.144193 CTCTCGGGAGGAAGCGCT 61.144 66.667 2.64 2.64 36.03 5.92
1287 5330 4.882396 GCTCTCGGGAGGAAGCGC 62.882 72.222 15.59 0.00 39.80 5.92
1388 5433 4.177190 GCATTCGCAACTCAGCTAGAGC 62.177 54.545 11.60 0.00 42.60 4.09
1395 5440 2.693797 ACAAAGCATTCGCAACTCAG 57.306 45.000 0.00 0.00 42.27 3.35
1404 5449 4.151157 GCTTCATCCACAAACAAAGCATTC 59.849 41.667 0.00 0.00 39.07 2.67
1613 5682 2.939103 GTCACTTATCCACCAGACATGC 59.061 50.000 0.00 0.00 0.00 4.06
1616 5685 2.029380 CGTGTCACTTATCCACCAGACA 60.029 50.000 0.65 0.00 34.02 3.41
1763 5833 0.608640 ATCCTTGACGGTGTCACTCC 59.391 55.000 2.35 0.00 42.60 3.85
1800 5870 7.532571 TCATTGTGAAATCATTACTCTTGCAG 58.467 34.615 0.00 0.00 0.00 4.41
1869 5939 3.370103 CCCTCCAAATGATTGCTGCAATT 60.370 43.478 26.87 11.23 33.90 2.32
1883 5953 0.251297 CATGACACTGGCCCTCCAAA 60.251 55.000 0.00 0.00 42.91 3.28
2065 6444 9.193806 GGAACGGAGGGAGTATATAATAACATA 57.806 37.037 0.00 0.00 0.00 2.29
2066 6445 7.899709 AGGAACGGAGGGAGTATATAATAACAT 59.100 37.037 0.00 0.00 0.00 2.71
2068 6447 7.715266 AGGAACGGAGGGAGTATATAATAAC 57.285 40.000 0.00 0.00 0.00 1.89
2069 6448 9.827198 TTTAGGAACGGAGGGAGTATATAATAA 57.173 33.333 0.00 0.00 0.00 1.40
2071 6450 8.912614 ATTTAGGAACGGAGGGAGTATATAAT 57.087 34.615 0.00 0.00 0.00 1.28
2072 6451 9.471702 CTATTTAGGAACGGAGGGAGTATATAA 57.528 37.037 0.00 0.00 0.00 0.98
2073 6452 8.618385 ACTATTTAGGAACGGAGGGAGTATATA 58.382 37.037 0.00 0.00 0.00 0.86
2075 6454 6.856757 ACTATTTAGGAACGGAGGGAGTATA 58.143 40.000 0.00 0.00 0.00 1.47
2077 6456 5.134725 ACTATTTAGGAACGGAGGGAGTA 57.865 43.478 0.00 0.00 0.00 2.59
2078 6457 3.959449 GACTATTTAGGAACGGAGGGAGT 59.041 47.826 0.00 0.00 0.00 3.85
2079 6458 3.321396 GGACTATTTAGGAACGGAGGGAG 59.679 52.174 0.00 0.00 0.00 4.30
2082 6461 3.306613 AGGGACTATTTAGGAACGGAGG 58.693 50.000 0.00 0.00 36.02 4.30
2083 6462 3.321396 GGAGGGACTATTTAGGAACGGAG 59.679 52.174 0.00 0.00 41.55 4.63
2084 6463 3.303049 GGAGGGACTATTTAGGAACGGA 58.697 50.000 0.00 0.00 41.55 4.69
2085 6464 2.035576 CGGAGGGACTATTTAGGAACGG 59.964 54.545 0.00 0.00 41.55 4.44
2087 6466 4.442612 GGAACGGAGGGACTATTTAGGAAC 60.443 50.000 0.00 0.00 41.55 3.62
2088 6467 3.708121 GGAACGGAGGGACTATTTAGGAA 59.292 47.826 0.00 0.00 41.55 3.36
2089 6468 3.052338 AGGAACGGAGGGACTATTTAGGA 60.052 47.826 0.00 0.00 41.55 2.94
2090 6469 3.306613 AGGAACGGAGGGACTATTTAGG 58.693 50.000 0.00 0.00 41.55 2.69
2091 6470 6.475596 TTTAGGAACGGAGGGACTATTTAG 57.524 41.667 0.00 0.00 41.55 1.85
2092 6471 7.786464 AGTATTTAGGAACGGAGGGACTATTTA 59.214 37.037 0.00 0.00 41.55 1.40
2093 6472 5.970501 ATTTAGGAACGGAGGGACTATTT 57.029 39.130 0.00 0.00 41.55 1.40
2094 6473 6.141790 AGTATTTAGGAACGGAGGGACTATT 58.858 40.000 0.00 0.00 41.55 1.73
2095 6474 5.713807 AGTATTTAGGAACGGAGGGACTAT 58.286 41.667 0.00 0.00 41.55 2.12
2096 6475 5.134725 AGTATTTAGGAACGGAGGGACTA 57.865 43.478 0.00 0.00 41.55 2.59
2098 6477 4.081254 ACAAGTATTTAGGAACGGAGGGAC 60.081 45.833 0.00 0.00 0.00 4.46
2099 6478 4.098894 ACAAGTATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
2100 6479 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
2101 6480 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
2102 6481 7.097834 AGAAAGACAAGTATTTAGGAACGGAG 58.902 38.462 0.00 0.00 0.00 4.63
2103 6482 7.001099 AGAAAGACAAGTATTTAGGAACGGA 57.999 36.000 0.00 0.00 0.00 4.69
2104 6483 8.248945 TCTAGAAAGACAAGTATTTAGGAACGG 58.751 37.037 0.00 0.00 0.00 4.44
2105 6484 9.291664 CTCTAGAAAGACAAGTATTTAGGAACG 57.708 37.037 0.00 0.00 0.00 3.95
2119 6498 9.613428 TCACTTTTTGAAATCTCTAGAAAGACA 57.387 29.630 0.00 0.00 0.00 3.41
2120 6499 9.871299 GTCACTTTTTGAAATCTCTAGAAAGAC 57.129 33.333 0.00 0.00 35.39 3.01
2121 6500 9.838339 AGTCACTTTTTGAAATCTCTAGAAAGA 57.162 29.630 0.00 0.00 35.39 2.52
2129 6508 9.994432 CCATATGTAGTCACTTTTTGAAATCTC 57.006 33.333 1.24 0.00 35.39 2.75
2130 6509 9.739276 TCCATATGTAGTCACTTTTTGAAATCT 57.261 29.630 1.24 0.00 35.39 2.40
2131 6510 9.994432 CTCCATATGTAGTCACTTTTTGAAATC 57.006 33.333 1.24 0.00 35.39 2.17
2132 6511 8.462016 GCTCCATATGTAGTCACTTTTTGAAAT 58.538 33.333 1.24 0.00 35.39 2.17
2133 6512 7.446931 TGCTCCATATGTAGTCACTTTTTGAAA 59.553 33.333 1.24 0.00 35.39 2.69
2134 6513 6.939730 TGCTCCATATGTAGTCACTTTTTGAA 59.060 34.615 1.24 0.00 35.39 2.69
2135 6514 6.472016 TGCTCCATATGTAGTCACTTTTTGA 58.528 36.000 1.24 0.00 0.00 2.69
2136 6515 6.741992 TGCTCCATATGTAGTCACTTTTTG 57.258 37.500 1.24 0.00 0.00 2.44
2137 6516 7.759489 TTTGCTCCATATGTAGTCACTTTTT 57.241 32.000 1.24 0.00 0.00 1.94
2138 6517 7.759489 TTTTGCTCCATATGTAGTCACTTTT 57.241 32.000 1.24 0.00 0.00 2.27
2139 6518 7.611467 TCATTTTGCTCCATATGTAGTCACTTT 59.389 33.333 1.24 0.00 0.00 2.66
2140 6519 7.112122 TCATTTTGCTCCATATGTAGTCACTT 58.888 34.615 1.24 0.00 0.00 3.16
2141 6520 6.653020 TCATTTTGCTCCATATGTAGTCACT 58.347 36.000 1.24 0.00 0.00 3.41
2142 6521 6.540189 ACTCATTTTGCTCCATATGTAGTCAC 59.460 38.462 1.24 0.00 0.00 3.67
2143 6522 6.539826 CACTCATTTTGCTCCATATGTAGTCA 59.460 38.462 1.24 0.00 0.00 3.41
2144 6523 6.763135 TCACTCATTTTGCTCCATATGTAGTC 59.237 38.462 1.24 0.00 0.00 2.59
2145 6524 6.653020 TCACTCATTTTGCTCCATATGTAGT 58.347 36.000 1.24 0.00 0.00 2.73
2146 6525 7.558161 TTCACTCATTTTGCTCCATATGTAG 57.442 36.000 1.24 0.00 0.00 2.74
2147 6526 7.994911 AGATTCACTCATTTTGCTCCATATGTA 59.005 33.333 1.24 0.00 0.00 2.29
2148 6527 6.832384 AGATTCACTCATTTTGCTCCATATGT 59.168 34.615 1.24 0.00 0.00 2.29
2149 6528 7.273320 AGATTCACTCATTTTGCTCCATATG 57.727 36.000 0.00 0.00 0.00 1.78
2150 6529 7.994911 TGTAGATTCACTCATTTTGCTCCATAT 59.005 33.333 0.00 0.00 0.00 1.78
2151 6530 7.280876 GTGTAGATTCACTCATTTTGCTCCATA 59.719 37.037 0.00 0.00 35.68 2.74
2152 6531 6.094603 GTGTAGATTCACTCATTTTGCTCCAT 59.905 38.462 0.00 0.00 35.68 3.41
2153 6532 5.412594 GTGTAGATTCACTCATTTTGCTCCA 59.587 40.000 0.00 0.00 35.68 3.86
2154 6533 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
2155 6534 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
2182 6561 9.639601 CACATACGGATGTACATAGACATATTT 57.360 33.333 14.23 0.00 44.82 1.40
2183 6562 8.251026 CCACATACGGATGTACATAGACATATT 58.749 37.037 14.23 0.00 44.82 1.28
2184 6563 7.396339 ACCACATACGGATGTACATAGACATAT 59.604 37.037 14.23 0.00 44.82 1.78
2185 6564 6.717997 ACCACATACGGATGTACATAGACATA 59.282 38.462 14.23 0.00 44.82 2.29
2186 6565 5.538813 ACCACATACGGATGTACATAGACAT 59.461 40.000 14.23 3.26 44.82 3.06
2187 6566 4.891168 ACCACATACGGATGTACATAGACA 59.109 41.667 14.23 1.12 44.82 3.41
2188 6567 5.449107 ACCACATACGGATGTACATAGAC 57.551 43.478 14.23 1.53 44.82 2.59
2189 6568 6.301486 ACTACCACATACGGATGTACATAGA 58.699 40.000 22.62 5.04 44.82 1.98
2190 6569 6.430308 AGACTACCACATACGGATGTACATAG 59.570 42.308 14.23 16.35 44.82 2.23
2191 6570 6.301486 AGACTACCACATACGGATGTACATA 58.699 40.000 14.23 5.36 44.82 2.29
2192 6571 5.138276 AGACTACCACATACGGATGTACAT 58.862 41.667 14.23 8.43 44.82 2.29
2193 6572 4.529897 AGACTACCACATACGGATGTACA 58.470 43.478 14.23 0.00 44.82 2.90
2194 6573 6.814506 ATAGACTACCACATACGGATGTAC 57.185 41.667 14.23 1.48 44.82 2.90
2195 6574 7.503230 TCAAATAGACTACCACATACGGATGTA 59.497 37.037 14.23 0.00 44.82 2.29
2197 6576 6.745116 TCAAATAGACTACCACATACGGATG 58.255 40.000 5.94 5.94 39.16 3.51
2198 6577 6.971726 TCAAATAGACTACCACATACGGAT 57.028 37.500 0.00 0.00 0.00 4.18
2199 6578 6.778834 TTCAAATAGACTACCACATACGGA 57.221 37.500 0.00 0.00 0.00 4.69
2200 6579 7.926555 AGATTTCAAATAGACTACCACATACGG 59.073 37.037 0.00 0.00 0.00 4.02
2201 6580 8.873215 AGATTTCAAATAGACTACCACATACG 57.127 34.615 0.00 0.00 0.00 3.06
2205 6584 9.475620 TCTAGAGATTTCAAATAGACTACCACA 57.524 33.333 0.00 0.00 0.00 4.17
2229 6608 8.049721 CCTCCATTCCTAAATAGTTGTCTTTCT 58.950 37.037 0.00 0.00 0.00 2.52
2230 6609 7.283354 CCCTCCATTCCTAAATAGTTGTCTTTC 59.717 40.741 0.00 0.00 0.00 2.62
2231 6610 7.036863 TCCCTCCATTCCTAAATAGTTGTCTTT 60.037 37.037 0.00 0.00 0.00 2.52
2232 6611 6.447084 TCCCTCCATTCCTAAATAGTTGTCTT 59.553 38.462 0.00 0.00 0.00 3.01
2233 6612 5.970640 TCCCTCCATTCCTAAATAGTTGTCT 59.029 40.000 0.00 0.00 0.00 3.41
2234 6613 6.126739 ACTCCCTCCATTCCTAAATAGTTGTC 60.127 42.308 0.00 0.00 0.00 3.18
2235 6614 5.731678 ACTCCCTCCATTCCTAAATAGTTGT 59.268 40.000 0.00 0.00 0.00 3.32
2236 6615 6.253946 ACTCCCTCCATTCCTAAATAGTTG 57.746 41.667 0.00 0.00 0.00 3.16
2237 6616 9.684702 TTATACTCCCTCCATTCCTAAATAGTT 57.315 33.333 0.00 0.00 0.00 2.24
2238 6617 9.327731 CTTATACTCCCTCCATTCCTAAATAGT 57.672 37.037 0.00 0.00 0.00 2.12
2239 6618 9.327731 ACTTATACTCCCTCCATTCCTAAATAG 57.672 37.037 0.00 0.00 0.00 1.73
2240 6619 9.322769 GACTTATACTCCCTCCATTCCTAAATA 57.677 37.037 0.00 0.00 0.00 1.40
2241 6620 8.019652 AGACTTATACTCCCTCCATTCCTAAAT 58.980 37.037 0.00 0.00 0.00 1.40
2242 6621 7.371043 AGACTTATACTCCCTCCATTCCTAAA 58.629 38.462 0.00 0.00 0.00 1.85
2243 6622 6.935036 AGACTTATACTCCCTCCATTCCTAA 58.065 40.000 0.00 0.00 0.00 2.69
2244 6623 6.547396 AGACTTATACTCCCTCCATTCCTA 57.453 41.667 0.00 0.00 0.00 2.94
2245 6624 5.426325 AGACTTATACTCCCTCCATTCCT 57.574 43.478 0.00 0.00 0.00 3.36
2246 6625 6.126739 ACAAAGACTTATACTCCCTCCATTCC 60.127 42.308 0.00 0.00 0.00 3.01
2247 6626 6.890293 ACAAAGACTTATACTCCCTCCATTC 58.110 40.000 0.00 0.00 0.00 2.67
2248 6627 6.893020 ACAAAGACTTATACTCCCTCCATT 57.107 37.500 0.00 0.00 0.00 3.16
2249 6628 7.363031 TCTACAAAGACTTATACTCCCTCCAT 58.637 38.462 0.00 0.00 0.00 3.41
2250 6629 6.738635 TCTACAAAGACTTATACTCCCTCCA 58.261 40.000 0.00 0.00 0.00 3.86
2251 6630 7.061688 TCTCTACAAAGACTTATACTCCCTCC 58.938 42.308 0.00 0.00 0.00 4.30
2252 6631 8.700439 ATCTCTACAAAGACTTATACTCCCTC 57.300 38.462 0.00 0.00 0.00 4.30
2253 6632 9.495382 AAATCTCTACAAAGACTTATACTCCCT 57.505 33.333 0.00 0.00 0.00 4.20
2254 6633 9.752961 GAAATCTCTACAAAGACTTATACTCCC 57.247 37.037 0.00 0.00 0.00 4.30
2261 6640 9.605275 CCATGATGAAATCTCTACAAAGACTTA 57.395 33.333 0.00 0.00 45.81 2.24
2262 6641 8.324306 TCCATGATGAAATCTCTACAAAGACTT 58.676 33.333 0.00 0.00 45.81 3.01
2263 6642 7.768120 GTCCATGATGAAATCTCTACAAAGACT 59.232 37.037 0.00 0.00 45.81 3.24
2264 6643 7.768120 AGTCCATGATGAAATCTCTACAAAGAC 59.232 37.037 0.00 0.00 45.81 3.01
2265 6644 7.855375 AGTCCATGATGAAATCTCTACAAAGA 58.145 34.615 0.00 0.00 45.81 2.52
2266 6645 9.039870 GTAGTCCATGATGAAATCTCTACAAAG 57.960 37.037 0.00 0.00 45.81 2.77
2267 6646 8.539544 TGTAGTCCATGATGAAATCTCTACAAA 58.460 33.333 0.00 0.00 45.81 2.83
2268 6647 8.078060 TGTAGTCCATGATGAAATCTCTACAA 57.922 34.615 0.00 0.00 45.81 2.41
2269 6648 7.660030 TGTAGTCCATGATGAAATCTCTACA 57.340 36.000 0.00 0.00 45.81 2.74
2270 6649 9.632807 GTATGTAGTCCATGATGAAATCTCTAC 57.367 37.037 0.00 0.00 45.81 2.59
2271 6650 8.515414 CGTATGTAGTCCATGATGAAATCTCTA 58.485 37.037 0.00 0.00 45.81 2.43
2272 6651 7.374272 CGTATGTAGTCCATGATGAAATCTCT 58.626 38.462 0.00 0.00 45.81 3.10
2273 6652 6.587990 CCGTATGTAGTCCATGATGAAATCTC 59.412 42.308 0.00 0.00 45.81 2.75
2274 6653 6.267699 TCCGTATGTAGTCCATGATGAAATCT 59.732 38.462 0.00 0.00 45.81 2.40
2275 6654 6.455647 TCCGTATGTAGTCCATGATGAAATC 58.544 40.000 0.00 0.00 45.83 2.17
2276 6655 6.419484 TCCGTATGTAGTCCATGATGAAAT 57.581 37.500 0.00 0.00 34.86 2.17
2277 6656 5.739070 GCTCCGTATGTAGTCCATGATGAAA 60.739 44.000 0.00 0.00 34.86 2.69
2278 6657 4.262036 GCTCCGTATGTAGTCCATGATGAA 60.262 45.833 0.00 0.00 34.86 2.57
2279 6658 3.255888 GCTCCGTATGTAGTCCATGATGA 59.744 47.826 0.00 0.00 34.86 2.92
2280 6659 3.005791 TGCTCCGTATGTAGTCCATGATG 59.994 47.826 0.00 0.00 34.86 3.07
2281 6660 3.230976 TGCTCCGTATGTAGTCCATGAT 58.769 45.455 0.00 0.00 34.86 2.45
2282 6661 2.661718 TGCTCCGTATGTAGTCCATGA 58.338 47.619 0.00 0.00 34.86 3.07
2283 6662 3.452755 TTGCTCCGTATGTAGTCCATG 57.547 47.619 0.00 0.00 34.86 3.66
2284 6663 4.481368 TTTTGCTCCGTATGTAGTCCAT 57.519 40.909 0.00 0.00 37.58 3.41
2285 6664 3.965379 TTTTGCTCCGTATGTAGTCCA 57.035 42.857 0.00 0.00 0.00 4.02
2286 6665 4.439057 TCATTTTGCTCCGTATGTAGTCC 58.561 43.478 0.00 0.00 0.00 3.85
2287 6666 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
2288 6667 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
2289 6668 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
2290 6669 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
2291 6670 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
2292 6671 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
2293 6672 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
2294 6673 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
2295 6674 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
2296 6675 4.270178 GAGATTCACTCATTTTGCTCCG 57.730 45.455 0.00 0.00 44.36 4.63


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

AutoCloner maintained by Alex Coulton.