Multiple sequence alignment - TraesCS2B01G100100

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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 TraesCS2B01G100100 chr2B 100.000 2670 0 0 1 2670 59228941 59226272 0.000000e+00 4931.0
1 TraesCS2B01G100100 chr2B 83.761 702 105 8 976 1673 59248697 59248001 0.000000e+00 656.0
2 TraesCS2B01G100100 chr2B 79.472 341 37 15 4 334 59250382 59250065 7.490000e-51 211.0
3 TraesCS2B01G100100 chr2B 85.714 133 15 2 2045 2177 720796509 720796381 1.290000e-28 137.0
4 TraesCS2B01G100100 chr2A 91.522 1557 101 20 542 2086 40247451 40248988 0.000000e+00 2115.0
5 TraesCS2B01G100100 chr2A 86.851 1483 122 39 393 1831 40258603 40260056 0.000000e+00 1591.0
6 TraesCS2B01G100100 chr2A 92.337 522 29 5 1 522 40246548 40247058 0.000000e+00 732.0
7 TraesCS2B01G100100 chr2A 84.073 496 63 10 976 1464 40241166 40241652 5.210000e-127 464.0
8 TraesCS2B01G100100 chr2A 89.034 383 24 6 2085 2467 40250240 40250604 2.420000e-125 459.0
9 TraesCS2B01G100100 chr2A 84.225 374 55 4 976 1346 40349441 40349813 7.030000e-96 361.0
10 TraesCS2B01G100100 chr2A 97.619 42 1 0 310 351 40258302 40258343 3.690000e-09 73.1
11 TraesCS2B01G100100 chr2D 86.538 936 95 20 820 1754 36407972 36408877 0.000000e+00 1002.0
12 TraesCS2B01G100100 chr2D 85.538 809 108 8 976 1780 36442152 36442955 0.000000e+00 837.0
13 TraesCS2B01G100100 chr2D 83.700 908 114 12 976 1877 36365888 36366767 0.000000e+00 826.0
14 TraesCS2B01G100100 chr2D 83.983 462 44 17 19 469 36405104 36405546 1.480000e-112 416.0
15 TraesCS2B01G100100 chr2D 88.591 298 28 4 1746 2037 36412888 36413185 9.090000e-95 357.0
16 TraesCS2B01G100100 chr2D 83.196 363 50 7 5 360 36364114 36364472 3.320000e-84 322.0
17 TraesCS2B01G100100 chr2D 85.809 303 37 5 1 301 36440265 36440563 1.540000e-82 316.0
18 TraesCS2B01G100100 chr2D 93.564 202 11 2 2471 2670 80260871 80261072 1.550000e-77 300.0
19 TraesCS2B01G100100 chr2D 84.211 133 17 2 2045 2177 593792538 593792410 2.790000e-25 126.0
20 TraesCS2B01G100100 chr6B 94.554 202 9 2 2471 2670 30096802 30096601 7.180000e-81 311.0
21 TraesCS2B01G100100 chr6B 94.554 202 9 2 2471 2670 30112598 30112397 7.180000e-81 311.0
22 TraesCS2B01G100100 chr6B 81.657 169 14 10 1877 2028 693935171 693935003 1.000000e-24 124.0
23 TraesCS2B01G100100 chr5D 94.030 201 8 4 2471 2670 449256280 449256083 4.320000e-78 302.0
24 TraesCS2B01G100100 chr5D 94.388 196 9 2 2477 2670 488189547 488189742 1.550000e-77 300.0
25 TraesCS2B01G100100 chr5D 93.564 202 11 2 2471 2670 538683532 538683733 1.550000e-77 300.0
26 TraesCS2B01G100100 chr6D 93.564 202 11 2 2471 2670 116858545 116858344 1.550000e-77 300.0
27 TraesCS2B01G100100 chr6D 86.765 68 6 1 1971 2038 472967169 472967233 3.690000e-09 73.1
28 TraesCS2B01G100100 chr4D 93.564 202 11 2 2471 2670 109907628 109907829 1.550000e-77 300.0
29 TraesCS2B01G100100 chr4D 81.622 185 26 7 2043 2224 1396893 1397072 2.140000e-31 147.0
30 TraesCS2B01G100100 chr1D 94.388 196 9 2 2477 2670 43194621 43194426 1.550000e-77 300.0
31 TraesCS2B01G100100 chr1A 79.927 274 31 15 1905 2162 72431588 72431853 2.110000e-41 180.0
32 TraesCS2B01G100100 chr1A 83.448 145 14 8 2043 2177 577640559 577640703 2.790000e-25 126.0
33 TraesCS2B01G100100 chr3B 89.130 138 12 3 2043 2177 29327059 29326922 4.570000e-38 169.0
34 TraesCS2B01G100100 chr3D 88.489 139 12 3 2043 2177 18553945 18553807 5.910000e-37 165.0
35 TraesCS2B01G100100 chr3D 77.108 166 16 16 1895 2041 585000923 585000761 2.850000e-10 76.8
36 TraesCS2B01G100100 chr7A 83.735 166 22 5 1880 2041 523627924 523628088 4.600000e-33 152.0
37 TraesCS2B01G100100 chr1B 88.462 104 11 1 2046 2148 15369130 15369027 1.000000e-24 124.0
38 TraesCS2B01G100100 chr4A 79.878 164 19 7 1876 2026 596086879 596087041 1.010000e-19 108.0
39 TraesCS2B01G100100 chr5B 91.525 59 5 0 1979 2037 6417623 6417565 6.130000e-12 82.4


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 TraesCS2B01G100100 chr2B 59226272 59228941 2669 True 4931.00 4931 100.000000 1 2670 1 chr2B.!!$R1 2669
1 TraesCS2B01G100100 chr2B 59248001 59250382 2381 True 433.50 656 81.616500 4 1673 2 chr2B.!!$R3 1669
2 TraesCS2B01G100100 chr2A 40246548 40250604 4056 False 1102.00 2115 90.964333 1 2467 3 chr2A.!!$F3 2466
3 TraesCS2B01G100100 chr2A 40258302 40260056 1754 False 832.05 1591 92.235000 310 1831 2 chr2A.!!$F4 1521
4 TraesCS2B01G100100 chr2D 36405104 36408877 3773 False 709.00 1002 85.260500 19 1754 2 chr2D.!!$F4 1735
5 TraesCS2B01G100100 chr2D 36440265 36442955 2690 False 576.50 837 85.673500 1 1780 2 chr2D.!!$F5 1779
6 TraesCS2B01G100100 chr2D 36364114 36366767 2653 False 574.00 826 83.448000 5 1877 2 chr2D.!!$F3 1872

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
648 3160 0.250901 GCTGGGTGAAGCTCCAAGAA 60.251 55.0 0.0 0.0 40.2 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2572 8544 0.038166 TCCCCTTGATGAAGGTGTGC 59.962 55.0 10.28 0.0 46.84 4.57 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
70 71 1.005340 CGGAAGCTGCATCTCTTCAC 58.995 55.000 18.83 11.02 40.20 3.18
72 73 2.159184 CGGAAGCTGCATCTCTTCACTA 60.159 50.000 18.83 0.00 40.20 2.74
89 90 1.217183 ACTATCTACGGGCTGGAGGAA 59.783 52.381 5.53 0.00 0.00 3.36
101 102 4.492955 GAGGAACTGCAGCTCGAG 57.507 61.111 15.27 8.45 41.55 4.04
133 134 2.194326 GATCCTGAAGCTGGGCCC 59.806 66.667 17.59 17.59 0.00 5.80
234 235 0.698238 CCCCTCCAACTTCACCATCA 59.302 55.000 0.00 0.00 0.00 3.07
308 318 2.787994 CAGACCAGCTTCAACTTCCAT 58.212 47.619 0.00 0.00 0.00 3.41
377 390 3.393278 TCCCAACAAAGGTGCTAACTACT 59.607 43.478 0.00 0.00 0.00 2.57
378 391 3.502211 CCCAACAAAGGTGCTAACTACTG 59.498 47.826 0.00 0.00 0.00 2.74
391 412 6.531948 GTGCTAACTACTGAACTACTTCCATG 59.468 42.308 0.00 0.00 0.00 3.66
470 2430 4.764823 AGGCTAGCTAGAGCACAAGTATAG 59.235 45.833 25.15 0.00 44.76 1.31
523 2643 1.739667 AAAAACAGCGGCCAAGTCC 59.260 52.632 2.24 0.00 0.00 3.85
648 3160 0.250901 GCTGGGTGAAGCTCCAAGAA 60.251 55.000 0.00 0.00 40.20 2.52
653 3165 2.297315 GGGTGAAGCTCCAAGAAAAAGG 59.703 50.000 0.00 0.00 0.00 3.11
673 3185 0.521291 CGCCGCCAAAGAAAGATTGA 59.479 50.000 0.00 0.00 0.00 2.57
849 5286 7.799447 GCTATAGCTAATAATCGAGATACACCG 59.201 40.741 17.75 0.00 38.21 4.94
852 5289 7.627298 AGCTAATAATCGAGATACACCGTAT 57.373 36.000 0.00 0.00 0.00 3.06
940 5643 5.864628 AGCTTAGATTTTCGACTCCAAAC 57.135 39.130 0.00 0.00 0.00 2.93
958 5662 4.545610 CAAACTGTTGCATCGTGGTTATT 58.454 39.130 0.00 0.00 0.00 1.40
1083 5787 0.909610 TGGAGCTGGATTTCCGGTCT 60.910 55.000 0.00 4.97 44.34 3.85
1085 5789 0.827368 GAGCTGGATTTCCGGTCTCT 59.173 55.000 16.31 4.08 44.34 3.10
1172 5876 3.282021 TCAGCCTAGGCATCAACAAATC 58.718 45.455 34.70 1.27 44.88 2.17
1247 5955 3.261951 CATGGGTTCGTAGGCGCG 61.262 66.667 0.00 0.00 38.14 6.86
1295 6003 8.948631 ATATGTTTCTATGTCGACTTGATTGT 57.051 30.769 17.92 0.00 0.00 2.71
1296 6004 6.466308 TGTTTCTATGTCGACTTGATTGTG 57.534 37.500 17.92 0.00 0.00 3.33
1304 6012 1.531149 CGACTTGATTGTGTGGACCAC 59.469 52.381 18.28 18.28 44.78 4.16
1330 6038 1.220749 CATTCGTCGGTGTGGGGAT 59.779 57.895 0.00 0.00 0.00 3.85
1332 6040 1.550130 ATTCGTCGGTGTGGGGATGT 61.550 55.000 0.00 0.00 0.00 3.06
1484 6192 3.842923 CGGCGCTCCAGAGGATGT 61.843 66.667 7.64 0.00 0.00 3.06
1500 6208 1.000955 GATGTCTGTGGTCGTTGAGGT 59.999 52.381 0.00 0.00 0.00 3.85
1557 6265 0.968405 GAAAGCCCACCATGCAAGAA 59.032 50.000 0.00 0.00 0.00 2.52
1661 6369 1.611977 CAGAGTACGAGTGGACACCAA 59.388 52.381 0.00 0.00 34.18 3.67
1712 6420 7.519002 AGCTAAACATTTTGACATCTTACGAC 58.481 34.615 0.00 0.00 0.00 4.34
1743 6452 6.563422 TCAGTTTTCTTCATTGGAAACTGTG 58.437 36.000 20.84 5.32 35.68 3.66
1744 6453 6.152661 TCAGTTTTCTTCATTGGAAACTGTGT 59.847 34.615 20.84 0.00 35.68 3.72
1786 6495 9.630098 TTGATTCAGAAAAATAAAGAGCATCAC 57.370 29.630 0.00 0.00 37.82 3.06
1797 6509 9.559958 AAATAAAGAGCATCACACGATTTAAAG 57.440 29.630 0.00 0.00 37.82 1.85
1804 6516 6.968904 AGCATCACACGATTTAAAGCATTAAG 59.031 34.615 4.10 0.00 32.80 1.85
1810 6522 7.429340 CACACGATTTAAAGCATTAAGATCCAC 59.571 37.037 4.10 0.00 32.80 4.02
1812 6524 7.967854 CACGATTTAAAGCATTAAGATCCACAA 59.032 33.333 4.10 0.00 32.80 3.33
1893 6611 1.593196 TTGAGACAGGCCTTTCAACG 58.407 50.000 20.86 2.60 0.00 4.10
2009 6728 3.540314 TGCAAAGTTTCAGCCACAAAT 57.460 38.095 0.00 0.00 0.00 2.32
2019 6738 6.869913 AGTTTCAGCCACAAATAACATTCATG 59.130 34.615 0.00 0.00 0.00 3.07
2028 6747 4.803329 AATAACATTCATGGAGCCCTCT 57.197 40.909 0.00 0.00 0.00 3.69
2033 6752 3.245371 ACATTCATGGAGCCCTCTCAAAA 60.245 43.478 0.00 0.00 41.13 2.44
2087 8059 6.128282 CGAGTGTTATTTGTGGCTGAAACTAT 60.128 38.462 0.00 0.00 0.00 2.12
2095 8067 6.554334 TTGTGGCTGAAACTATGTAAGAAC 57.446 37.500 0.00 0.00 0.00 3.01
2103 8075 9.282247 GCTGAAACTATGTAAGAACATCAAATG 57.718 33.333 0.00 0.00 42.92 2.32
2177 8149 2.621070 ACTGTTCATGAGGGTGTAGGT 58.379 47.619 0.00 0.00 0.00 3.08
2179 8151 2.303022 CTGTTCATGAGGGTGTAGGTGT 59.697 50.000 0.00 0.00 0.00 4.16
2180 8152 2.708861 TGTTCATGAGGGTGTAGGTGTT 59.291 45.455 0.00 0.00 0.00 3.32
2181 8153 3.244422 TGTTCATGAGGGTGTAGGTGTTC 60.244 47.826 0.00 0.00 0.00 3.18
2182 8154 2.615391 TCATGAGGGTGTAGGTGTTCA 58.385 47.619 0.00 0.00 0.00 3.18
2184 8156 3.055167 TCATGAGGGTGTAGGTGTTCATG 60.055 47.826 0.00 6.05 41.84 3.07
2185 8157 2.615391 TGAGGGTGTAGGTGTTCATGA 58.385 47.619 0.00 0.00 0.00 3.07
2186 8158 2.567169 TGAGGGTGTAGGTGTTCATGAG 59.433 50.000 0.00 0.00 0.00 2.90
2187 8159 1.909302 AGGGTGTAGGTGTTCATGAGG 59.091 52.381 0.00 0.00 0.00 3.86
2188 8160 1.065418 GGGTGTAGGTGTTCATGAGGG 60.065 57.143 0.00 0.00 0.00 4.30
2189 8161 1.628846 GGTGTAGGTGTTCATGAGGGT 59.371 52.381 0.00 0.00 0.00 4.34
2190 8162 2.615493 GGTGTAGGTGTTCATGAGGGTG 60.615 54.545 0.00 0.00 0.00 4.61
2191 8163 2.038557 GTGTAGGTGTTCATGAGGGTGT 59.961 50.000 0.00 0.00 0.00 4.16
2192 8164 3.259876 GTGTAGGTGTTCATGAGGGTGTA 59.740 47.826 0.00 0.00 0.00 2.90
2193 8165 3.513912 TGTAGGTGTTCATGAGGGTGTAG 59.486 47.826 0.00 0.00 0.00 2.74
2194 8166 1.909302 AGGTGTTCATGAGGGTGTAGG 59.091 52.381 0.00 0.00 0.00 3.18
2195 8167 1.065418 GGTGTTCATGAGGGTGTAGGG 60.065 57.143 0.00 0.00 0.00 3.53
2196 8168 1.065418 GTGTTCATGAGGGTGTAGGGG 60.065 57.143 0.00 0.00 0.00 4.79
2197 8169 0.107165 GTTCATGAGGGTGTAGGGGC 60.107 60.000 0.00 0.00 0.00 5.80
2198 8170 0.548926 TTCATGAGGGTGTAGGGGCA 60.549 55.000 0.00 0.00 0.00 5.36
2199 8171 1.224592 CATGAGGGTGTAGGGGCAC 59.775 63.158 0.00 0.00 38.56 5.01
2200 8172 1.082954 ATGAGGGTGTAGGGGCACT 59.917 57.895 0.00 0.00 39.21 4.40
2201 8173 1.274703 ATGAGGGTGTAGGGGCACTG 61.275 60.000 0.00 0.00 39.21 3.66
2202 8174 2.610859 AGGGTGTAGGGGCACTGG 60.611 66.667 0.00 0.00 39.21 4.00
2254 8226 6.741992 TGTGAGATTTGCTACCTTTACATG 57.258 37.500 0.00 0.00 0.00 3.21
2298 8270 0.966920 AGTACGTGTCCTGACCCAAG 59.033 55.000 0.00 0.00 0.00 3.61
2323 8295 3.557054 GCTTCCCATGTAGTTCACTCACA 60.557 47.826 0.00 0.00 0.00 3.58
2337 8309 7.875971 AGTTCACTCACATGGTAATTTTCTTC 58.124 34.615 0.00 0.00 0.00 2.87
2351 8323 9.713713 GGTAATTTTCTTCTGTAAGTCTTCTCT 57.286 33.333 0.00 0.00 34.13 3.10
2377 8349 8.245491 TCGTAGATGTAGCAAAACACTTATGTA 58.755 33.333 0.00 0.00 38.45 2.29
2395 8367 2.952978 TGTATGTGGGTGTGGTTGTTTC 59.047 45.455 0.00 0.00 0.00 2.78
2396 8368 1.408969 ATGTGGGTGTGGTTGTTTCC 58.591 50.000 0.00 0.00 0.00 3.13
2406 8378 6.183360 GGGTGTGGTTGTTTCCTTTATTACAA 60.183 38.462 0.00 0.00 0.00 2.41
2411 8383 7.749126 GTGGTTGTTTCCTTTATTACAAGATCG 59.251 37.037 0.00 0.00 31.75 3.69
2424 8396 4.456280 ACAAGATCGTCATGTAAGCTCA 57.544 40.909 0.00 0.00 0.00 4.26
2438 8410 6.245115 TGTAAGCTCAAGTCATGAATGTTG 57.755 37.500 0.00 2.07 37.67 3.33
2458 8430 8.627208 ATGTTGGACTGGCATTTATAAGATAG 57.373 34.615 0.00 0.00 0.00 2.08
2467 8439 9.662947 CTGGCATTTATAAGATAGATGACATGA 57.337 33.333 0.00 0.00 35.38 3.07
2474 8446 9.860898 TTATAAGATAGATGACATGAATGACCG 57.139 33.333 0.00 0.00 0.00 4.79
2475 8447 6.410942 AAGATAGATGACATGAATGACCGA 57.589 37.500 0.00 0.00 0.00 4.69
2476 8448 6.602410 AGATAGATGACATGAATGACCGAT 57.398 37.500 0.00 0.00 0.00 4.18
2477 8449 6.396450 AGATAGATGACATGAATGACCGATG 58.604 40.000 0.00 0.00 0.00 3.84
2478 8450 4.412796 AGATGACATGAATGACCGATGT 57.587 40.909 0.00 0.00 32.95 3.06
2479 8451 4.124970 AGATGACATGAATGACCGATGTG 58.875 43.478 0.00 0.00 30.39 3.21
2480 8452 2.631267 TGACATGAATGACCGATGTGG 58.369 47.619 0.00 0.00 46.41 4.17
2481 8453 1.942657 GACATGAATGACCGATGTGGG 59.057 52.381 0.00 0.00 44.64 4.61
2482 8454 1.559219 ACATGAATGACCGATGTGGGA 59.441 47.619 0.00 0.00 44.64 4.37
2483 8455 1.942657 CATGAATGACCGATGTGGGAC 59.057 52.381 0.00 0.00 44.64 4.46
2484 8456 0.251916 TGAATGACCGATGTGGGACC 59.748 55.000 0.00 0.00 44.64 4.46
2485 8457 0.463833 GAATGACCGATGTGGGACCC 60.464 60.000 2.45 2.45 44.64 4.46
2486 8458 1.204786 AATGACCGATGTGGGACCCA 61.205 55.000 9.95 9.95 44.64 4.51
2487 8459 1.204786 ATGACCGATGTGGGACCCAA 61.205 55.000 16.98 6.31 44.64 4.12
2488 8460 1.204786 TGACCGATGTGGGACCCAAT 61.205 55.000 16.98 11.26 44.64 3.16
2489 8461 0.463833 GACCGATGTGGGACCCAATC 60.464 60.000 16.98 18.06 44.64 2.67
2504 8476 1.755179 CAATCCAGGTAGTGGCTTGG 58.245 55.000 0.55 0.00 45.28 3.61
2505 8477 1.281867 CAATCCAGGTAGTGGCTTGGA 59.718 52.381 0.00 0.00 45.28 3.53
2506 8478 1.898863 ATCCAGGTAGTGGCTTGGAT 58.101 50.000 4.23 4.23 46.12 3.41
2507 8479 3.483954 CCAGGTAGTGGCTTGGATG 57.516 57.895 0.00 0.00 40.39 3.51
2508 8480 0.911769 CCAGGTAGTGGCTTGGATGA 59.088 55.000 0.00 0.00 40.39 2.92
2509 8481 1.407437 CCAGGTAGTGGCTTGGATGAC 60.407 57.143 0.00 0.00 40.39 3.06
2510 8482 1.278985 CAGGTAGTGGCTTGGATGACA 59.721 52.381 0.00 0.00 0.00 3.58
2511 8483 1.279271 AGGTAGTGGCTTGGATGACAC 59.721 52.381 0.00 0.00 45.82 3.67
2514 8486 2.257353 GTGGCTTGGATGACACACC 58.743 57.895 0.00 0.00 44.88 4.16
2515 8487 1.074775 TGGCTTGGATGACACACCC 59.925 57.895 0.00 0.00 0.00 4.61
2516 8488 2.040544 GGCTTGGATGACACACCCG 61.041 63.158 0.00 0.00 0.00 5.28
2517 8489 1.003839 GCTTGGATGACACACCCGA 60.004 57.895 0.00 0.00 0.00 5.14
2518 8490 1.298859 GCTTGGATGACACACCCGAC 61.299 60.000 0.00 0.00 0.00 4.79
2519 8491 0.321671 CTTGGATGACACACCCGACT 59.678 55.000 0.00 0.00 0.00 4.18
2520 8492 0.762418 TTGGATGACACACCCGACTT 59.238 50.000 0.00 0.00 0.00 3.01
2521 8493 0.762418 TGGATGACACACCCGACTTT 59.238 50.000 0.00 0.00 0.00 2.66
2522 8494 1.972075 TGGATGACACACCCGACTTTA 59.028 47.619 0.00 0.00 0.00 1.85
2523 8495 2.028476 TGGATGACACACCCGACTTTAG 60.028 50.000 0.00 0.00 0.00 1.85
2524 8496 2.232941 GGATGACACACCCGACTTTAGA 59.767 50.000 0.00 0.00 0.00 2.10
2525 8497 3.118738 GGATGACACACCCGACTTTAGAT 60.119 47.826 0.00 0.00 0.00 1.98
2526 8498 3.313012 TGACACACCCGACTTTAGATG 57.687 47.619 0.00 0.00 0.00 2.90
2527 8499 2.631062 TGACACACCCGACTTTAGATGT 59.369 45.455 0.00 0.00 0.00 3.06
2528 8500 3.070446 TGACACACCCGACTTTAGATGTT 59.930 43.478 0.00 0.00 0.00 2.71
2529 8501 4.281435 TGACACACCCGACTTTAGATGTTA 59.719 41.667 0.00 0.00 0.00 2.41
2530 8502 4.817517 ACACACCCGACTTTAGATGTTAG 58.182 43.478 0.00 0.00 0.00 2.34
2531 8503 4.181578 CACACCCGACTTTAGATGTTAGG 58.818 47.826 0.00 0.00 0.00 2.69
2532 8504 3.195661 CACCCGACTTTAGATGTTAGGC 58.804 50.000 0.00 0.00 0.00 3.93
2533 8505 3.105283 ACCCGACTTTAGATGTTAGGCT 58.895 45.455 0.00 0.00 0.00 4.58
2534 8506 3.518303 ACCCGACTTTAGATGTTAGGCTT 59.482 43.478 0.00 0.00 0.00 4.35
2535 8507 4.019591 ACCCGACTTTAGATGTTAGGCTTT 60.020 41.667 0.00 0.00 0.00 3.51
2536 8508 4.332819 CCCGACTTTAGATGTTAGGCTTTG 59.667 45.833 0.00 0.00 0.00 2.77
2537 8509 4.332819 CCGACTTTAGATGTTAGGCTTTGG 59.667 45.833 0.00 0.00 0.00 3.28
2538 8510 4.935808 CGACTTTAGATGTTAGGCTTTGGT 59.064 41.667 0.00 0.00 0.00 3.67
2539 8511 5.163854 CGACTTTAGATGTTAGGCTTTGGTG 60.164 44.000 0.00 0.00 0.00 4.17
2540 8512 4.459337 ACTTTAGATGTTAGGCTTTGGTGC 59.541 41.667 0.00 0.00 0.00 5.01
2541 8513 1.453155 AGATGTTAGGCTTTGGTGCG 58.547 50.000 0.00 0.00 0.00 5.34
2542 8514 1.003118 AGATGTTAGGCTTTGGTGCGA 59.997 47.619 0.00 0.00 0.00 5.10
2543 8515 2.017049 GATGTTAGGCTTTGGTGCGAT 58.983 47.619 0.00 0.00 0.00 4.58
2544 8516 1.448985 TGTTAGGCTTTGGTGCGATC 58.551 50.000 0.00 0.00 0.00 3.69
2545 8517 1.003118 TGTTAGGCTTTGGTGCGATCT 59.997 47.619 0.00 0.00 0.00 2.75
2546 8518 1.666189 GTTAGGCTTTGGTGCGATCTC 59.334 52.381 0.00 0.00 0.00 2.75
2547 8519 1.195115 TAGGCTTTGGTGCGATCTCT 58.805 50.000 0.00 0.00 0.00 3.10
2548 8520 0.392193 AGGCTTTGGTGCGATCTCTG 60.392 55.000 0.00 0.00 0.00 3.35
2549 8521 0.674895 GGCTTTGGTGCGATCTCTGT 60.675 55.000 0.00 0.00 0.00 3.41
2550 8522 1.160137 GCTTTGGTGCGATCTCTGTT 58.840 50.000 0.00 0.00 0.00 3.16
2551 8523 1.537202 GCTTTGGTGCGATCTCTGTTT 59.463 47.619 0.00 0.00 0.00 2.83
2552 8524 2.666619 GCTTTGGTGCGATCTCTGTTTG 60.667 50.000 0.00 0.00 0.00 2.93
2553 8525 1.522668 TTGGTGCGATCTCTGTTTGG 58.477 50.000 0.00 0.00 0.00 3.28
2554 8526 0.396435 TGGTGCGATCTCTGTTTGGT 59.604 50.000 0.00 0.00 0.00 3.67
2555 8527 1.621317 TGGTGCGATCTCTGTTTGGTA 59.379 47.619 0.00 0.00 0.00 3.25
2556 8528 2.236146 TGGTGCGATCTCTGTTTGGTAT 59.764 45.455 0.00 0.00 0.00 2.73
2557 8529 3.270877 GGTGCGATCTCTGTTTGGTATT 58.729 45.455 0.00 0.00 0.00 1.89
2558 8530 4.081365 TGGTGCGATCTCTGTTTGGTATTA 60.081 41.667 0.00 0.00 0.00 0.98
2559 8531 4.508124 GGTGCGATCTCTGTTTGGTATTAG 59.492 45.833 0.00 0.00 0.00 1.73
2560 8532 4.508124 GTGCGATCTCTGTTTGGTATTAGG 59.492 45.833 0.00 0.00 0.00 2.69
2561 8533 3.495001 GCGATCTCTGTTTGGTATTAGGC 59.505 47.826 0.00 0.00 0.00 3.93
2562 8534 4.058817 CGATCTCTGTTTGGTATTAGGCC 58.941 47.826 0.00 0.00 0.00 5.19
2563 8535 3.536956 TCTCTGTTTGGTATTAGGCCG 57.463 47.619 0.00 0.00 0.00 6.13
2564 8536 2.169769 TCTCTGTTTGGTATTAGGCCGG 59.830 50.000 0.00 0.00 0.00 6.13
2565 8537 2.169769 CTCTGTTTGGTATTAGGCCGGA 59.830 50.000 5.05 0.00 0.00 5.14
2566 8538 2.093341 TCTGTTTGGTATTAGGCCGGAC 60.093 50.000 5.05 0.00 0.00 4.79
2567 8539 1.629353 TGTTTGGTATTAGGCCGGACA 59.371 47.619 11.69 0.00 0.00 4.02
2568 8540 2.240160 TGTTTGGTATTAGGCCGGACAT 59.760 45.455 11.69 0.00 0.00 3.06
2569 8541 3.284617 GTTTGGTATTAGGCCGGACATT 58.715 45.455 11.69 0.00 0.00 2.71
2570 8542 2.922740 TGGTATTAGGCCGGACATTC 57.077 50.000 11.69 0.00 0.00 2.67
2571 8543 1.069513 TGGTATTAGGCCGGACATTCG 59.930 52.381 11.69 0.00 0.00 3.34
2578 8550 3.124921 CCGGACATTCGGCACACC 61.125 66.667 0.00 0.00 43.71 4.16
2579 8551 2.047274 CGGACATTCGGCACACCT 60.047 61.111 0.00 0.00 0.00 4.00
2580 8552 1.671054 CGGACATTCGGCACACCTT 60.671 57.895 0.00 0.00 0.00 3.50
2581 8553 1.635663 CGGACATTCGGCACACCTTC 61.636 60.000 0.00 0.00 0.00 3.46
2582 8554 0.605319 GGACATTCGGCACACCTTCA 60.605 55.000 0.00 0.00 0.00 3.02
2583 8555 1.453155 GACATTCGGCACACCTTCAT 58.547 50.000 0.00 0.00 0.00 2.57
2584 8556 1.398390 GACATTCGGCACACCTTCATC 59.602 52.381 0.00 0.00 0.00 2.92
2585 8557 1.271325 ACATTCGGCACACCTTCATCA 60.271 47.619 0.00 0.00 0.00 3.07
2586 8558 1.811965 CATTCGGCACACCTTCATCAA 59.188 47.619 0.00 0.00 0.00 2.57
2587 8559 1.522668 TTCGGCACACCTTCATCAAG 58.477 50.000 0.00 0.00 0.00 3.02
2598 8570 3.321950 CCTTCATCAAGGGGATAGGAGT 58.678 50.000 0.00 0.00 45.27 3.85
2599 8571 4.493618 CCTTCATCAAGGGGATAGGAGTA 58.506 47.826 0.00 0.00 45.27 2.59
2600 8572 4.530161 CCTTCATCAAGGGGATAGGAGTAG 59.470 50.000 0.00 0.00 45.27 2.57
2601 8573 3.511477 TCATCAAGGGGATAGGAGTAGC 58.489 50.000 0.00 0.00 33.95 3.58
2602 8574 3.116746 TCATCAAGGGGATAGGAGTAGCA 60.117 47.826 0.00 0.00 33.95 3.49
2603 8575 3.414759 TCAAGGGGATAGGAGTAGCAA 57.585 47.619 0.00 0.00 0.00 3.91
2604 8576 3.039011 TCAAGGGGATAGGAGTAGCAAC 58.961 50.000 0.00 0.00 0.00 4.17
2605 8577 1.705873 AGGGGATAGGAGTAGCAACG 58.294 55.000 0.00 0.00 0.00 4.10
2606 8578 0.680061 GGGGATAGGAGTAGCAACGG 59.320 60.000 0.00 0.00 0.00 4.44
2607 8579 1.411041 GGGATAGGAGTAGCAACGGT 58.589 55.000 0.00 0.00 0.00 4.83
2608 8580 1.068741 GGGATAGGAGTAGCAACGGTG 59.931 57.143 0.00 0.00 0.00 4.94
2609 8581 1.755380 GGATAGGAGTAGCAACGGTGT 59.245 52.381 0.66 0.00 0.00 4.16
2610 8582 2.167900 GGATAGGAGTAGCAACGGTGTT 59.832 50.000 0.66 0.00 0.00 3.32
2611 8583 2.736144 TAGGAGTAGCAACGGTGTTG 57.264 50.000 0.66 5.34 0.00 3.33
2612 8584 0.602905 AGGAGTAGCAACGGTGTTGC 60.603 55.000 23.22 23.22 45.22 4.17
2613 8585 1.574702 GGAGTAGCAACGGTGTTGCC 61.575 60.000 25.94 14.70 45.98 4.52
2614 8586 0.882927 GAGTAGCAACGGTGTTGCCA 60.883 55.000 25.94 13.90 45.98 4.92
2615 8587 0.464735 AGTAGCAACGGTGTTGCCAA 60.465 50.000 25.94 14.93 45.98 4.52
2616 8588 0.040425 GTAGCAACGGTGTTGCCAAG 60.040 55.000 25.94 0.00 45.98 3.61
2617 8589 0.179043 TAGCAACGGTGTTGCCAAGA 60.179 50.000 25.94 10.49 45.98 3.02
2618 8590 0.823356 AGCAACGGTGTTGCCAAGAT 60.823 50.000 25.94 8.88 45.98 2.40
2619 8591 0.664166 GCAACGGTGTTGCCAAGATG 60.664 55.000 20.85 0.00 39.38 2.90
2620 8592 0.039256 CAACGGTGTTGCCAAGATGG 60.039 55.000 0.00 0.00 41.55 3.51
2621 8593 0.467290 AACGGTGTTGCCAAGATGGT 60.467 50.000 0.00 0.00 40.46 3.55
2622 8594 1.172180 ACGGTGTTGCCAAGATGGTG 61.172 55.000 0.00 0.00 40.46 4.17
2623 8595 1.865788 CGGTGTTGCCAAGATGGTGG 61.866 60.000 0.00 0.00 40.46 4.61
2629 8601 3.909662 CCAAGATGGTGGCTTCGG 58.090 61.111 0.00 0.00 31.35 4.30
2630 8602 2.409870 CCAAGATGGTGGCTTCGGC 61.410 63.158 0.00 0.00 34.65 5.54
2631 8603 1.377725 CAAGATGGTGGCTTCGGCT 60.378 57.895 0.00 0.00 41.44 5.52
2632 8604 0.962356 CAAGATGGTGGCTTCGGCTT 60.962 55.000 0.00 0.00 41.44 4.35
2633 8605 0.618458 AAGATGGTGGCTTCGGCTTA 59.382 50.000 0.00 0.00 41.44 3.09
2634 8606 0.839946 AGATGGTGGCTTCGGCTTAT 59.160 50.000 0.00 0.00 41.44 1.73
2635 8607 1.212935 AGATGGTGGCTTCGGCTTATT 59.787 47.619 0.00 0.00 41.44 1.40
2636 8608 1.334869 GATGGTGGCTTCGGCTTATTG 59.665 52.381 0.00 0.00 41.44 1.90
2637 8609 0.326595 TGGTGGCTTCGGCTTATTGA 59.673 50.000 0.00 0.00 41.44 2.57
2638 8610 1.064758 TGGTGGCTTCGGCTTATTGAT 60.065 47.619 0.00 0.00 41.44 2.57
2639 8611 1.334869 GGTGGCTTCGGCTTATTGATG 59.665 52.381 0.00 0.00 41.44 3.07
2640 8612 2.017049 GTGGCTTCGGCTTATTGATGT 58.983 47.619 0.00 0.00 41.44 3.06
2641 8613 3.202906 GTGGCTTCGGCTTATTGATGTA 58.797 45.455 0.00 0.00 41.44 2.29
2642 8614 3.815401 GTGGCTTCGGCTTATTGATGTAT 59.185 43.478 0.00 0.00 41.44 2.29
2643 8615 4.065088 TGGCTTCGGCTTATTGATGTATC 58.935 43.478 0.00 0.00 41.44 2.24
2644 8616 4.065088 GGCTTCGGCTTATTGATGTATCA 58.935 43.478 0.00 0.00 41.44 2.15
2645 8617 4.083802 GGCTTCGGCTTATTGATGTATCAC 60.084 45.833 0.00 0.00 41.44 3.06
2646 8618 4.083802 GCTTCGGCTTATTGATGTATCACC 60.084 45.833 0.00 0.00 35.73 4.02
2647 8619 4.955811 TCGGCTTATTGATGTATCACCT 57.044 40.909 0.00 0.00 36.36 4.00
2648 8620 5.290493 TCGGCTTATTGATGTATCACCTT 57.710 39.130 0.00 0.00 36.36 3.50
2649 8621 5.056480 TCGGCTTATTGATGTATCACCTTG 58.944 41.667 0.00 0.00 36.36 3.61
2650 8622 4.319766 CGGCTTATTGATGTATCACCTTGC 60.320 45.833 0.00 0.00 36.36 4.01
2651 8623 4.580167 GGCTTATTGATGTATCACCTTGCA 59.420 41.667 0.00 0.00 36.36 4.08
2652 8624 5.242393 GGCTTATTGATGTATCACCTTGCAT 59.758 40.000 0.00 0.00 36.36 3.96
2653 8625 6.239120 GGCTTATTGATGTATCACCTTGCATT 60.239 38.462 0.00 0.00 36.36 3.56
2654 8626 6.639686 GCTTATTGATGTATCACCTTGCATTG 59.360 38.462 0.00 0.00 36.36 2.82
2655 8627 7.643569 TTATTGATGTATCACCTTGCATTGT 57.356 32.000 0.00 0.00 36.36 2.71
2656 8628 5.565592 TTGATGTATCACCTTGCATTGTC 57.434 39.130 0.00 0.00 36.36 3.18
2657 8629 4.847198 TGATGTATCACCTTGCATTGTCT 58.153 39.130 0.00 0.00 0.00 3.41
2658 8630 5.255687 TGATGTATCACCTTGCATTGTCTT 58.744 37.500 0.00 0.00 0.00 3.01
2659 8631 5.711506 TGATGTATCACCTTGCATTGTCTTT 59.288 36.000 0.00 0.00 0.00 2.52
2660 8632 5.375417 TGTATCACCTTGCATTGTCTTTG 57.625 39.130 0.00 0.00 0.00 2.77
2661 8633 4.826733 TGTATCACCTTGCATTGTCTTTGT 59.173 37.500 0.00 0.00 0.00 2.83
2662 8634 3.713858 TCACCTTGCATTGTCTTTGTG 57.286 42.857 0.00 0.00 0.00 3.33
2663 8635 3.286353 TCACCTTGCATTGTCTTTGTGA 58.714 40.909 0.00 0.00 0.00 3.58
2664 8636 3.698539 TCACCTTGCATTGTCTTTGTGAA 59.301 39.130 0.00 0.00 0.00 3.18
2665 8637 4.341806 TCACCTTGCATTGTCTTTGTGAAT 59.658 37.500 0.00 0.00 0.00 2.57
2666 8638 5.534278 TCACCTTGCATTGTCTTTGTGAATA 59.466 36.000 0.00 0.00 0.00 1.75
2667 8639 6.040278 TCACCTTGCATTGTCTTTGTGAATAA 59.960 34.615 0.00 0.00 0.00 1.40
2668 8640 6.869913 CACCTTGCATTGTCTTTGTGAATAAT 59.130 34.615 0.00 0.00 0.00 1.28
2669 8641 7.385752 CACCTTGCATTGTCTTTGTGAATAATT 59.614 33.333 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 0.962489 CCTCCAGCCCGTAGATAGTG 59.038 60.000 0.00 0.00 0.00 2.74
70 71 1.614413 GTTCCTCCAGCCCGTAGATAG 59.386 57.143 0.00 0.00 0.00 2.08
72 73 0.032017 AGTTCCTCCAGCCCGTAGAT 60.032 55.000 0.00 0.00 0.00 1.98
89 90 4.079850 CTGGCCTCGAGCTGCAGT 62.080 66.667 16.64 1.59 43.05 4.40
215 216 0.698238 TGATGGTGAAGTTGGAGGGG 59.302 55.000 0.00 0.00 0.00 4.79
391 412 6.238211 CGTGAACATAGAAGGATTGATGGAAC 60.238 42.308 0.00 0.00 0.00 3.62
561 3072 4.000325 GCAACCGGGCAAGAAAATAAATT 59.000 39.130 6.32 0.00 0.00 1.82
653 3165 1.072666 CAATCTTTCTTTGGCGGCGC 61.073 55.000 26.17 26.17 0.00 6.53
838 5275 7.242914 TGCACTATATATACGGTGTATCTCG 57.757 40.000 14.45 0.00 32.90 4.04
839 5276 7.133513 GCTGCACTATATATACGGTGTATCTC 58.866 42.308 14.45 3.40 32.90 2.75
840 5277 6.602009 TGCTGCACTATATATACGGTGTATCT 59.398 38.462 0.00 0.00 32.90 1.98
843 5280 5.392703 GCTGCTGCACTATATATACGGTGTA 60.393 44.000 11.11 10.90 39.41 2.90
845 5282 3.859961 GCTGCTGCACTATATATACGGTG 59.140 47.826 11.11 10.73 39.41 4.94
847 5284 4.377839 AGCTGCTGCACTATATATACGG 57.622 45.455 18.42 0.00 42.74 4.02
848 5285 7.515841 GCAAATAGCTGCTGCACTATATATACG 60.516 40.741 18.42 2.45 42.74 3.06
849 5286 7.254590 GGCAAATAGCTGCTGCACTATATATAC 60.255 40.741 18.42 10.62 44.79 1.47
852 5289 4.937620 GGCAAATAGCTGCTGCACTATATA 59.062 41.667 18.42 0.38 44.79 0.86
878 5315 3.668596 AACCAACAATCGTTATAGCGC 57.331 42.857 0.00 0.00 32.75 5.92
879 5316 6.035220 TGACTAAACCAACAATCGTTATAGCG 59.965 38.462 2.12 2.12 32.75 4.26
880 5317 7.298507 TGACTAAACCAACAATCGTTATAGC 57.701 36.000 0.00 0.00 32.75 2.97
930 5633 1.136252 CGATGCAACAGTTTGGAGTCG 60.136 52.381 0.00 0.00 36.37 4.18
940 5643 2.162208 AGCAATAACCACGATGCAACAG 59.838 45.455 0.00 0.00 41.18 3.16
958 5662 6.233905 TGTAGAGGATTTACATTGCTAGCA 57.766 37.500 14.93 14.93 0.00 3.49
1172 5876 7.226720 AGGACAAAAAGTTATATATGCTCACGG 59.773 37.037 0.00 0.00 0.00 4.94
1295 6003 3.482436 GAATGTACTTTGGTGGTCCACA 58.518 45.455 23.48 7.16 44.22 4.17
1296 6004 2.482721 CGAATGTACTTTGGTGGTCCAC 59.517 50.000 14.13 14.13 44.22 4.02
1304 6012 2.156891 CACACCGACGAATGTACTTTGG 59.843 50.000 0.00 0.39 0.00 3.28
1330 6038 0.464193 ATCCGCATATGCAGCACACA 60.464 50.000 26.52 0.05 42.21 3.72
1332 6040 2.323213 CATCCGCATATGCAGCACA 58.677 52.632 26.52 6.05 42.21 4.57
1484 6192 2.492088 CAGATACCTCAACGACCACAGA 59.508 50.000 0.00 0.00 0.00 3.41
1500 6208 5.044846 TCGTCCCATGAGATATCTCCAGATA 60.045 44.000 26.33 10.68 42.20 1.98
1557 6265 4.194640 CACCGATGTCTCCATGATTTCTT 58.805 43.478 0.00 0.00 0.00 2.52
1661 6369 3.788227 TGAAAGTAGTGTTCATGGCCT 57.212 42.857 3.32 0.00 30.08 5.19
1712 6420 9.748708 TTTCCAATGAAGAAAACTGATAACAAG 57.251 29.630 0.00 0.00 30.48 3.16
1743 6452 1.073284 TCAAGGAACACTAAGGCCCAC 59.927 52.381 0.00 0.00 0.00 4.61
1744 6453 1.440618 TCAAGGAACACTAAGGCCCA 58.559 50.000 0.00 0.00 0.00 5.36
1786 6495 7.471721 TGTGGATCTTAATGCTTTAAATCGTG 58.528 34.615 6.29 0.00 0.00 4.35
1797 6509 6.058183 ACACTCCTATTGTGGATCTTAATGC 58.942 40.000 0.00 0.00 39.52 3.56
1804 6516 7.552687 TCAAAACATACACTCCTATTGTGGATC 59.447 37.037 0.00 0.00 36.90 3.36
1810 6522 9.277565 CGAAAATCAAAACATACACTCCTATTG 57.722 33.333 0.00 0.00 0.00 1.90
1812 6524 8.561738 ACGAAAATCAAAACATACACTCCTAT 57.438 30.769 0.00 0.00 0.00 2.57
1884 6602 4.038080 GCACCGGGCGTTGAAAGG 62.038 66.667 6.32 0.00 0.00 3.11
1898 6616 3.447586 TGTTCATAGAGGTGTAGGAGCAC 59.552 47.826 0.00 0.00 38.56 4.40
1899 6617 3.701542 CTGTTCATAGAGGTGTAGGAGCA 59.298 47.826 0.00 0.00 0.00 4.26
1959 6678 5.599732 TCAAATGTTTGATGTCCCAAAGTG 58.400 37.500 4.16 0.00 41.88 3.16
2009 6728 3.114606 TGAGAGGGCTCCATGAATGTTA 58.885 45.455 0.00 0.00 40.55 2.41
2059 6778 2.416547 CAGCCACAAATAACACTCGAGG 59.583 50.000 18.41 8.36 0.00 4.63
2065 6784 6.677913 ACATAGTTTCAGCCACAAATAACAC 58.322 36.000 0.00 0.00 0.00 3.32
2103 8075 5.452078 TTGGGACTCAAACATGATCAAAC 57.548 39.130 0.00 0.00 31.46 2.93
2151 8123 6.659242 CCTACACCCTCATGAACAGTAAATTT 59.341 38.462 0.00 0.00 0.00 1.82
2177 8149 1.285280 CCCCTACACCCTCATGAACA 58.715 55.000 0.00 0.00 0.00 3.18
2179 8151 0.548926 TGCCCCTACACCCTCATGAA 60.549 55.000 0.00 0.00 0.00 2.57
2180 8152 1.082019 TGCCCCTACACCCTCATGA 59.918 57.895 0.00 0.00 0.00 3.07
2181 8153 1.224592 GTGCCCCTACACCCTCATG 59.775 63.158 0.00 0.00 34.35 3.07
2182 8154 1.082954 AGTGCCCCTACACCCTCAT 59.917 57.895 0.00 0.00 41.67 2.90
2184 8156 2.670148 CCAGTGCCCCTACACCCTC 61.670 68.421 0.00 0.00 41.67 4.30
2185 8157 2.610859 CCAGTGCCCCTACACCCT 60.611 66.667 0.00 0.00 41.67 4.34
2186 8158 3.728373 CCCAGTGCCCCTACACCC 61.728 72.222 0.00 0.00 41.67 4.61
2187 8159 3.728373 CCCCAGTGCCCCTACACC 61.728 72.222 0.00 0.00 41.67 4.16
2188 8160 2.609610 TCCCCAGTGCCCCTACAC 60.610 66.667 0.00 0.00 41.02 2.90
2189 8161 2.194951 ATCTCCCCAGTGCCCCTACA 62.195 60.000 0.00 0.00 0.00 2.74
2190 8162 0.105142 TATCTCCCCAGTGCCCCTAC 60.105 60.000 0.00 0.00 0.00 3.18
2191 8163 0.874594 ATATCTCCCCAGTGCCCCTA 59.125 55.000 0.00 0.00 0.00 3.53
2192 8164 0.474660 GATATCTCCCCAGTGCCCCT 60.475 60.000 0.00 0.00 0.00 4.79
2193 8165 0.768221 TGATATCTCCCCAGTGCCCC 60.768 60.000 3.98 0.00 0.00 5.80
2194 8166 0.398318 GTGATATCTCCCCAGTGCCC 59.602 60.000 3.98 0.00 0.00 5.36
2195 8167 1.131638 TGTGATATCTCCCCAGTGCC 58.868 55.000 3.98 0.00 0.00 5.01
2196 8168 1.202698 GGTGTGATATCTCCCCAGTGC 60.203 57.143 3.98 0.00 0.00 4.40
2197 8169 2.402564 AGGTGTGATATCTCCCCAGTG 58.597 52.381 8.69 0.00 0.00 3.66
2198 8170 2.877154 AGGTGTGATATCTCCCCAGT 57.123 50.000 8.69 0.00 0.00 4.00
2199 8171 3.713764 AGAAAGGTGTGATATCTCCCCAG 59.286 47.826 8.69 0.00 0.00 4.45
2200 8172 3.711704 GAGAAAGGTGTGATATCTCCCCA 59.288 47.826 8.69 0.00 32.30 4.96
2201 8173 3.711704 TGAGAAAGGTGTGATATCTCCCC 59.288 47.826 3.98 1.03 36.54 4.81
2202 8174 5.104735 AGTTGAGAAAGGTGTGATATCTCCC 60.105 44.000 3.98 4.53 36.54 4.30
2234 8206 5.880332 TCCACATGTAAAGGTAGCAAATCTC 59.120 40.000 0.00 0.00 0.00 2.75
2248 8220 9.693739 ATCAATAGGTTATTGTTCCACATGTAA 57.306 29.630 0.00 0.00 44.49 2.41
2254 8226 7.823745 ATCCATCAATAGGTTATTGTTCCAC 57.176 36.000 8.26 0.00 44.49 4.02
2298 8270 4.081642 TGAGTGAACTACATGGGAAGCTAC 60.082 45.833 0.00 0.00 0.00 3.58
2337 8309 6.671614 ACATCTACGAGAGAAGACTTACAG 57.328 41.667 0.00 0.00 37.85 2.74
2348 8320 5.403246 AGTGTTTTGCTACATCTACGAGAG 58.597 41.667 0.00 0.00 0.00 3.20
2351 8323 7.094631 ACATAAGTGTTTTGCTACATCTACGA 58.905 34.615 0.00 0.00 34.01 3.43
2377 8349 1.063266 AGGAAACAACCACACCCACAT 60.063 47.619 0.00 0.00 0.00 3.21
2395 8367 8.276325 GCTTACATGACGATCTTGTAATAAAGG 58.724 37.037 17.95 11.77 42.33 3.11
2396 8368 9.035607 AGCTTACATGACGATCTTGTAATAAAG 57.964 33.333 17.95 13.02 42.33 1.85
2406 8378 4.158579 TGACTTGAGCTTACATGACGATCT 59.841 41.667 0.00 0.00 0.00 2.75
2411 8383 6.093219 ACATTCATGACTTGAGCTTACATGAC 59.907 38.462 15.94 3.90 44.08 3.06
2424 8396 2.821969 GCCAGTCCAACATTCATGACTT 59.178 45.455 0.00 0.00 35.97 3.01
2438 8410 8.097038 TGTCATCTATCTTATAAATGCCAGTCC 58.903 37.037 0.00 0.00 0.00 3.85
2458 8430 3.249320 CCACATCGGTCATTCATGTCATC 59.751 47.826 0.00 0.00 0.00 2.92
2467 8439 1.204786 TGGGTCCCACATCGGTCATT 61.205 55.000 6.47 0.00 0.00 2.57
2468 8440 1.204786 TTGGGTCCCACATCGGTCAT 61.205 55.000 11.24 0.00 30.78 3.06
2469 8441 1.204786 ATTGGGTCCCACATCGGTCA 61.205 55.000 11.24 0.00 30.78 4.02
2470 8442 0.463833 GATTGGGTCCCACATCGGTC 60.464 60.000 11.24 0.00 30.78 4.79
2471 8443 1.607612 GATTGGGTCCCACATCGGT 59.392 57.895 11.24 0.00 30.78 4.69
2472 8444 1.152963 GGATTGGGTCCCACATCGG 60.153 63.158 11.24 0.00 41.50 4.18
2473 8445 4.559502 GGATTGGGTCCCACATCG 57.440 61.111 11.24 0.00 41.50 3.84
2480 8452 0.546598 CCACTACCTGGATTGGGTCC 59.453 60.000 0.00 0.00 43.95 4.46
2481 8453 0.107165 GCCACTACCTGGATTGGGTC 60.107 60.000 0.00 0.00 43.95 4.46
2482 8454 0.550147 AGCCACTACCTGGATTGGGT 60.550 55.000 0.00 6.29 43.95 4.51
2483 8455 2.311287 AGCCACTACCTGGATTGGG 58.689 57.895 0.00 0.00 43.95 4.12
2487 8459 1.492176 CATCCAAGCCACTACCTGGAT 59.508 52.381 0.00 0.00 43.95 3.41
2488 8460 0.911769 CATCCAAGCCACTACCTGGA 59.088 55.000 0.00 0.00 43.95 3.86
2489 8461 0.911769 TCATCCAAGCCACTACCTGG 59.088 55.000 0.00 0.00 44.08 4.45
2490 8462 1.278985 TGTCATCCAAGCCACTACCTG 59.721 52.381 0.00 0.00 0.00 4.00
2491 8463 1.279271 GTGTCATCCAAGCCACTACCT 59.721 52.381 0.00 0.00 0.00 3.08
2492 8464 1.003118 TGTGTCATCCAAGCCACTACC 59.997 52.381 0.00 0.00 0.00 3.18
2493 8465 2.076863 GTGTGTCATCCAAGCCACTAC 58.923 52.381 0.00 0.00 0.00 2.73
2494 8466 1.003118 GGTGTGTCATCCAAGCCACTA 59.997 52.381 0.00 0.00 0.00 2.74
2495 8467 0.250901 GGTGTGTCATCCAAGCCACT 60.251 55.000 0.00 0.00 0.00 4.00
2496 8468 1.244019 GGGTGTGTCATCCAAGCCAC 61.244 60.000 0.00 0.00 34.21 5.01
2497 8469 1.074775 GGGTGTGTCATCCAAGCCA 59.925 57.895 0.00 0.00 34.21 4.75
2498 8470 2.040544 CGGGTGTGTCATCCAAGCC 61.041 63.158 0.00 0.00 33.50 4.35
2499 8471 1.003839 TCGGGTGTGTCATCCAAGC 60.004 57.895 0.00 0.00 33.50 4.01
2500 8472 0.321671 AGTCGGGTGTGTCATCCAAG 59.678 55.000 0.00 0.00 33.50 3.61
2501 8473 0.762418 AAGTCGGGTGTGTCATCCAA 59.238 50.000 0.00 0.00 33.50 3.53
2502 8474 0.762418 AAAGTCGGGTGTGTCATCCA 59.238 50.000 0.00 0.00 33.50 3.41
2503 8475 2.232941 TCTAAAGTCGGGTGTGTCATCC 59.767 50.000 0.00 0.00 0.00 3.51
2504 8476 3.587797 TCTAAAGTCGGGTGTGTCATC 57.412 47.619 0.00 0.00 0.00 2.92
2505 8477 3.260884 ACATCTAAAGTCGGGTGTGTCAT 59.739 43.478 0.00 0.00 0.00 3.06
2506 8478 2.631062 ACATCTAAAGTCGGGTGTGTCA 59.369 45.455 0.00 0.00 0.00 3.58
2507 8479 3.314541 ACATCTAAAGTCGGGTGTGTC 57.685 47.619 0.00 0.00 0.00 3.67
2508 8480 3.764237 AACATCTAAAGTCGGGTGTGT 57.236 42.857 0.00 0.00 0.00 3.72
2509 8481 4.181578 CCTAACATCTAAAGTCGGGTGTG 58.818 47.826 0.00 0.00 0.00 3.82
2510 8482 3.369157 GCCTAACATCTAAAGTCGGGTGT 60.369 47.826 0.00 0.00 0.00 4.16
2511 8483 3.118738 AGCCTAACATCTAAAGTCGGGTG 60.119 47.826 0.00 0.00 0.00 4.61
2512 8484 3.105283 AGCCTAACATCTAAAGTCGGGT 58.895 45.455 0.00 0.00 0.00 5.28
2513 8485 3.821421 AGCCTAACATCTAAAGTCGGG 57.179 47.619 0.00 0.00 0.00 5.14
2514 8486 4.332819 CCAAAGCCTAACATCTAAAGTCGG 59.667 45.833 0.00 0.00 0.00 4.79
2515 8487 4.935808 ACCAAAGCCTAACATCTAAAGTCG 59.064 41.667 0.00 0.00 0.00 4.18
2516 8488 5.392057 GCACCAAAGCCTAACATCTAAAGTC 60.392 44.000 0.00 0.00 0.00 3.01
2517 8489 4.459337 GCACCAAAGCCTAACATCTAAAGT 59.541 41.667 0.00 0.00 0.00 2.66
2518 8490 4.437390 CGCACCAAAGCCTAACATCTAAAG 60.437 45.833 0.00 0.00 0.00 1.85
2519 8491 3.438781 CGCACCAAAGCCTAACATCTAAA 59.561 43.478 0.00 0.00 0.00 1.85
2520 8492 3.006940 CGCACCAAAGCCTAACATCTAA 58.993 45.455 0.00 0.00 0.00 2.10
2521 8493 2.235155 TCGCACCAAAGCCTAACATCTA 59.765 45.455 0.00 0.00 0.00 1.98
2522 8494 1.003118 TCGCACCAAAGCCTAACATCT 59.997 47.619 0.00 0.00 0.00 2.90
2523 8495 1.448985 TCGCACCAAAGCCTAACATC 58.551 50.000 0.00 0.00 0.00 3.06
2524 8496 2.017049 GATCGCACCAAAGCCTAACAT 58.983 47.619 0.00 0.00 0.00 2.71
2525 8497 1.003118 AGATCGCACCAAAGCCTAACA 59.997 47.619 0.00 0.00 0.00 2.41
2526 8498 1.666189 GAGATCGCACCAAAGCCTAAC 59.334 52.381 0.00 0.00 0.00 2.34
2527 8499 1.555075 AGAGATCGCACCAAAGCCTAA 59.445 47.619 0.00 0.00 0.00 2.69
2528 8500 1.134699 CAGAGATCGCACCAAAGCCTA 60.135 52.381 0.00 0.00 0.00 3.93
2529 8501 0.392193 CAGAGATCGCACCAAAGCCT 60.392 55.000 0.00 0.00 0.00 4.58
2530 8502 0.674895 ACAGAGATCGCACCAAAGCC 60.675 55.000 0.00 0.00 0.00 4.35
2531 8503 1.160137 AACAGAGATCGCACCAAAGC 58.840 50.000 0.00 0.00 0.00 3.51
2532 8504 2.095567 CCAAACAGAGATCGCACCAAAG 60.096 50.000 0.00 0.00 0.00 2.77
2533 8505 1.879380 CCAAACAGAGATCGCACCAAA 59.121 47.619 0.00 0.00 0.00 3.28
2534 8506 1.202758 ACCAAACAGAGATCGCACCAA 60.203 47.619 0.00 0.00 0.00 3.67
2535 8507 0.396435 ACCAAACAGAGATCGCACCA 59.604 50.000 0.00 0.00 0.00 4.17
2536 8508 2.380084 TACCAAACAGAGATCGCACC 57.620 50.000 0.00 0.00 0.00 5.01
2537 8509 4.508124 CCTAATACCAAACAGAGATCGCAC 59.492 45.833 0.00 0.00 0.00 5.34
2538 8510 4.693283 CCTAATACCAAACAGAGATCGCA 58.307 43.478 0.00 0.00 0.00 5.10
2539 8511 3.495001 GCCTAATACCAAACAGAGATCGC 59.505 47.826 0.00 0.00 0.00 4.58
2540 8512 4.058817 GGCCTAATACCAAACAGAGATCG 58.941 47.826 0.00 0.00 0.00 3.69
2541 8513 4.058817 CGGCCTAATACCAAACAGAGATC 58.941 47.826 0.00 0.00 0.00 2.75
2542 8514 3.181454 CCGGCCTAATACCAAACAGAGAT 60.181 47.826 0.00 0.00 0.00 2.75
2543 8515 2.169769 CCGGCCTAATACCAAACAGAGA 59.830 50.000 0.00 0.00 0.00 3.10
2544 8516 2.169769 TCCGGCCTAATACCAAACAGAG 59.830 50.000 0.00 0.00 0.00 3.35
2545 8517 2.093341 GTCCGGCCTAATACCAAACAGA 60.093 50.000 0.00 0.00 0.00 3.41
2546 8518 2.285977 GTCCGGCCTAATACCAAACAG 58.714 52.381 0.00 0.00 0.00 3.16
2547 8519 1.629353 TGTCCGGCCTAATACCAAACA 59.371 47.619 0.00 0.00 0.00 2.83
2548 8520 2.406596 TGTCCGGCCTAATACCAAAC 57.593 50.000 0.00 0.00 0.00 2.93
2549 8521 3.547746 GAATGTCCGGCCTAATACCAAA 58.452 45.455 0.00 0.00 0.00 3.28
2550 8522 2.484065 CGAATGTCCGGCCTAATACCAA 60.484 50.000 0.00 0.00 0.00 3.67
2551 8523 1.069513 CGAATGTCCGGCCTAATACCA 59.930 52.381 0.00 0.00 0.00 3.25
2552 8524 1.607251 CCGAATGTCCGGCCTAATACC 60.607 57.143 0.00 0.00 43.25 2.73
2553 8525 1.792006 CCGAATGTCCGGCCTAATAC 58.208 55.000 0.00 0.00 43.25 1.89
2562 8534 1.635663 GAAGGTGTGCCGAATGTCCG 61.636 60.000 0.00 0.00 40.50 4.79
2563 8535 0.605319 TGAAGGTGTGCCGAATGTCC 60.605 55.000 0.00 0.00 40.50 4.02
2564 8536 1.398390 GATGAAGGTGTGCCGAATGTC 59.602 52.381 0.00 0.00 40.50 3.06
2565 8537 1.271325 TGATGAAGGTGTGCCGAATGT 60.271 47.619 0.00 0.00 40.50 2.71
2566 8538 1.452110 TGATGAAGGTGTGCCGAATG 58.548 50.000 0.00 0.00 40.50 2.67
2567 8539 2.086869 CTTGATGAAGGTGTGCCGAAT 58.913 47.619 0.00 0.00 40.50 3.34
2568 8540 1.522668 CTTGATGAAGGTGTGCCGAA 58.477 50.000 0.00 0.00 40.50 4.30
2569 8541 0.321564 CCTTGATGAAGGTGTGCCGA 60.322 55.000 2.24 0.00 43.63 5.54
2570 8542 1.308069 CCCTTGATGAAGGTGTGCCG 61.308 60.000 10.28 0.00 46.84 5.69
2571 8543 0.967380 CCCCTTGATGAAGGTGTGCC 60.967 60.000 10.28 0.00 46.84 5.01
2572 8544 0.038166 TCCCCTTGATGAAGGTGTGC 59.962 55.000 10.28 0.00 46.84 4.57
2573 8545 2.814805 ATCCCCTTGATGAAGGTGTG 57.185 50.000 10.28 0.00 46.84 3.82
2574 8546 2.780010 CCTATCCCCTTGATGAAGGTGT 59.220 50.000 10.28 0.00 46.84 4.16
2575 8547 3.048600 TCCTATCCCCTTGATGAAGGTG 58.951 50.000 10.28 0.00 46.84 4.00
2576 8548 3.311702 ACTCCTATCCCCTTGATGAAGGT 60.312 47.826 10.28 0.00 46.84 3.50
2578 8550 4.020662 GCTACTCCTATCCCCTTGATGAAG 60.021 50.000 0.00 0.00 34.76 3.02
2579 8551 3.904339 GCTACTCCTATCCCCTTGATGAA 59.096 47.826 0.00 0.00 34.76 2.57
2580 8552 3.116746 TGCTACTCCTATCCCCTTGATGA 60.117 47.826 0.00 0.00 34.76 2.92
2581 8553 3.242867 TGCTACTCCTATCCCCTTGATG 58.757 50.000 0.00 0.00 34.76 3.07
2582 8554 3.637821 TGCTACTCCTATCCCCTTGAT 57.362 47.619 0.00 0.00 37.49 2.57
2583 8555 3.039011 GTTGCTACTCCTATCCCCTTGA 58.961 50.000 0.00 0.00 0.00 3.02
2584 8556 2.224066 CGTTGCTACTCCTATCCCCTTG 60.224 54.545 0.00 0.00 0.00 3.61
2585 8557 2.040178 CGTTGCTACTCCTATCCCCTT 58.960 52.381 0.00 0.00 0.00 3.95
2586 8558 1.705873 CGTTGCTACTCCTATCCCCT 58.294 55.000 0.00 0.00 0.00 4.79
2587 8559 0.680061 CCGTTGCTACTCCTATCCCC 59.320 60.000 0.00 0.00 0.00 4.81
2588 8560 1.068741 CACCGTTGCTACTCCTATCCC 59.931 57.143 0.00 0.00 0.00 3.85
2589 8561 1.755380 ACACCGTTGCTACTCCTATCC 59.245 52.381 0.00 0.00 0.00 2.59
2590 8562 3.187700 CAACACCGTTGCTACTCCTATC 58.812 50.000 0.00 0.00 0.00 2.08
2591 8563 2.677037 GCAACACCGTTGCTACTCCTAT 60.677 50.000 21.38 0.00 41.87 2.57
2592 8564 1.337447 GCAACACCGTTGCTACTCCTA 60.337 52.381 21.38 0.00 41.87 2.94
2593 8565 0.602905 GCAACACCGTTGCTACTCCT 60.603 55.000 21.38 0.00 41.87 3.69
2594 8566 1.574702 GGCAACACCGTTGCTACTCC 61.575 60.000 25.85 9.76 44.36 3.85
2595 8567 0.882927 TGGCAACACCGTTGCTACTC 60.883 55.000 25.85 13.30 46.17 2.59
2596 8568 1.147376 TGGCAACACCGTTGCTACT 59.853 52.632 25.85 0.00 46.17 2.57
2597 8569 3.739167 TGGCAACACCGTTGCTAC 58.261 55.556 25.85 14.19 46.17 3.58
2612 8584 2.409870 GCCGAAGCCACCATCTTGG 61.410 63.158 0.00 0.00 45.02 3.61
2613 8585 0.962356 AAGCCGAAGCCACCATCTTG 60.962 55.000 0.00 0.00 41.25 3.02
2614 8586 0.618458 TAAGCCGAAGCCACCATCTT 59.382 50.000 0.00 0.00 41.25 2.40
2615 8587 0.839946 ATAAGCCGAAGCCACCATCT 59.160 50.000 0.00 0.00 41.25 2.90
2616 8588 1.334869 CAATAAGCCGAAGCCACCATC 59.665 52.381 0.00 0.00 41.25 3.51
2617 8589 1.064758 TCAATAAGCCGAAGCCACCAT 60.065 47.619 0.00 0.00 41.25 3.55
2618 8590 0.326595 TCAATAAGCCGAAGCCACCA 59.673 50.000 0.00 0.00 41.25 4.17
2619 8591 1.334869 CATCAATAAGCCGAAGCCACC 59.665 52.381 0.00 0.00 41.25 4.61
2620 8592 2.017049 ACATCAATAAGCCGAAGCCAC 58.983 47.619 0.00 0.00 41.25 5.01
2621 8593 2.418368 ACATCAATAAGCCGAAGCCA 57.582 45.000 0.00 0.00 41.25 4.75
2622 8594 4.065088 TGATACATCAATAAGCCGAAGCC 58.935 43.478 0.00 0.00 34.75 4.35
2623 8595 4.083802 GGTGATACATCAATAAGCCGAAGC 60.084 45.833 0.00 0.00 38.75 3.86
2624 8596 5.300752 AGGTGATACATCAATAAGCCGAAG 58.699 41.667 0.00 0.00 38.75 3.79
2625 8597 5.290493 AGGTGATACATCAATAAGCCGAA 57.710 39.130 0.00 0.00 38.75 4.30
2626 8598 4.955811 AGGTGATACATCAATAAGCCGA 57.044 40.909 0.00 0.00 38.75 5.54
2627 8599 4.319766 GCAAGGTGATACATCAATAAGCCG 60.320 45.833 0.00 0.00 38.75 5.52
2628 8600 4.580167 TGCAAGGTGATACATCAATAAGCC 59.420 41.667 0.00 0.00 38.75 4.35
2629 8601 5.756195 TGCAAGGTGATACATCAATAAGC 57.244 39.130 0.00 0.00 38.75 3.09
2630 8602 7.709947 ACAATGCAAGGTGATACATCAATAAG 58.290 34.615 0.00 0.00 38.75 1.73
2631 8603 7.557358 AGACAATGCAAGGTGATACATCAATAA 59.443 33.333 0.00 0.00 38.75 1.40
2632 8604 7.056006 AGACAATGCAAGGTGATACATCAATA 58.944 34.615 0.00 0.00 38.75 1.90
2633 8605 5.889853 AGACAATGCAAGGTGATACATCAAT 59.110 36.000 0.00 0.00 38.75 2.57
2634 8606 5.255687 AGACAATGCAAGGTGATACATCAA 58.744 37.500 0.00 0.00 38.75 2.57
2635 8607 4.847198 AGACAATGCAAGGTGATACATCA 58.153 39.130 0.00 0.00 0.00 3.07
2636 8608 5.824904 AAGACAATGCAAGGTGATACATC 57.175 39.130 0.00 0.00 0.00 3.06
2637 8609 5.477984 ACAAAGACAATGCAAGGTGATACAT 59.522 36.000 0.00 0.00 0.00 2.29
2638 8610 4.826733 ACAAAGACAATGCAAGGTGATACA 59.173 37.500 0.00 0.00 0.00 2.29
2639 8611 5.048782 TCACAAAGACAATGCAAGGTGATAC 60.049 40.000 0.00 0.00 0.00 2.24
2640 8612 5.069318 TCACAAAGACAATGCAAGGTGATA 58.931 37.500 0.00 0.00 0.00 2.15
2641 8613 3.890756 TCACAAAGACAATGCAAGGTGAT 59.109 39.130 0.00 0.00 0.00 3.06
2642 8614 3.286353 TCACAAAGACAATGCAAGGTGA 58.714 40.909 0.00 0.00 0.00 4.02
2643 8615 3.713858 TCACAAAGACAATGCAAGGTG 57.286 42.857 0.00 0.00 0.00 4.00
2644 8616 4.942761 ATTCACAAAGACAATGCAAGGT 57.057 36.364 0.00 0.00 0.00 3.50
2645 8617 7.894376 AATTATTCACAAAGACAATGCAAGG 57.106 32.000 0.00 0.00 0.00 3.61


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

AutoCloner maintained by Alex Coulton.