Multiple sequence alignment - TraesCS1A01G007200

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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 TraesCS1A01G007200 chr1A 100.000 2621 0 0 1 2621 3775618 3778238 0.000000e+00 4841
1 TraesCS1A01G007200 chr1A 83.698 1325 168 29 473 1778 3794808 3796103 0.000000e+00 1206
2 TraesCS1A01G007200 chr1D 87.028 1218 109 11 890 2069 340595 339389 0.000000e+00 1328
3 TraesCS1A01G007200 chr1D 92.172 907 65 5 3 907 341528 340626 0.000000e+00 1277
4 TraesCS1A01G007200 chr1D 88.406 414 41 6 473 883 328297 327888 2.340000e-135 492
5 TraesCS1A01G007200 chr1D 86.374 433 51 4 953 1377 327550 327118 1.420000e-127 466
6 TraesCS1A01G007200 chr1B 88.400 1069 83 9 887 1940 5004604 5003562 0.000000e+00 1249
7 TraesCS1A01G007200 chr1B 88.534 907 78 11 3 907 5005514 5004632 0.000000e+00 1075
8 TraesCS1A01G007200 chr1B 77.230 426 26 25 2196 2589 5003151 5002765 1.600000e-42 183


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 TraesCS1A01G007200 chr1A 3775618 3778238 2620 False 4841.000000 4841 100.000000 1 2621 1 chr1A.!!$F1 2620
1 TraesCS1A01G007200 chr1A 3794808 3796103 1295 False 1206.000000 1206 83.698000 473 1778 1 chr1A.!!$F2 1305
2 TraesCS1A01G007200 chr1D 339389 341528 2139 True 1302.500000 1328 89.600000 3 2069 2 chr1D.!!$R2 2066
3 TraesCS1A01G007200 chr1D 327118 328297 1179 True 479.000000 492 87.390000 473 1377 2 chr1D.!!$R1 904
4 TraesCS1A01G007200 chr1B 5002765 5005514 2749 True 835.666667 1249 84.721333 3 2589 3 chr1B.!!$R1 2586

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
855 858 0.184933 AGCAGCAACCACTTACCCAA 59.815 50.0 0.0 0.0 0.0 4.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1856 2231 0.040157 TTTCACATTGCACGCTGAGC 60.04 50.0 0.0 0.0 0.0 4.26 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
84 87 1.074775 ATGTGCATGGTGTTCCCGT 59.925 52.632 0.00 0.00 35.15 5.28
92 95 0.538516 TGGTGTTCCCGTGGAAATGG 60.539 55.000 6.91 0.00 43.86 3.16
233 236 8.518151 ACTACGAAGTTAGTTTAGAAAGAAGC 57.482 34.615 0.00 0.00 37.78 3.86
269 272 9.827411 CAATCTTCACATTAATAGCATGATCTG 57.173 33.333 0.00 0.00 0.00 2.90
355 358 7.663905 TGTGCCTAACAACTTGTAGAACATTAT 59.336 33.333 0.00 0.00 35.24 1.28
356 359 7.962918 GTGCCTAACAACTTGTAGAACATTATG 59.037 37.037 0.00 0.00 0.00 1.90
398 401 9.004231 AGGGGATGTAATCTAGATAAGTGTTTT 57.996 33.333 5.46 0.00 44.71 2.43
469 472 1.210478 ACTCCATGGATGTGTGCTACC 59.790 52.381 16.63 0.00 0.00 3.18
541 544 4.036971 CCACCGAACAAAACATACCAAAGA 59.963 41.667 0.00 0.00 0.00 2.52
595 598 5.100751 AGAAAGCAAATGTGAAGACGAAG 57.899 39.130 0.00 0.00 0.00 3.79
613 616 4.096984 ACGAAGAGAAATCATTTCATGGCC 59.903 41.667 12.74 0.00 42.10 5.36
647 650 1.580059 TACACCATGAAGACCCCCTC 58.420 55.000 0.00 0.00 0.00 4.30
653 656 0.699231 ATGAAGACCCCCTCCCATCC 60.699 60.000 0.00 0.00 0.00 3.51
711 714 7.771361 TCACACTAAACAATCAAGAGTAACCAA 59.229 33.333 0.00 0.00 0.00 3.67
807 810 2.239400 CTCGACCCTAGCATCCATGTA 58.761 52.381 0.00 0.00 0.00 2.29
855 858 0.184933 AGCAGCAACCACTTACCCAA 59.815 50.000 0.00 0.00 0.00 4.12
925 976 2.875933 CAACAACCGTATCCACAACAGT 59.124 45.455 0.00 0.00 0.00 3.55
932 983 2.661675 CGTATCCACAACAGTCACTTCG 59.338 50.000 0.00 0.00 0.00 3.79
996 1315 2.923020 GCCGCAACAACAATTTCCATAG 59.077 45.455 0.00 0.00 0.00 2.23
997 1316 3.613910 GCCGCAACAACAATTTCCATAGT 60.614 43.478 0.00 0.00 0.00 2.12
1025 1344 3.552684 CCACTTCCGCATCAACAACAAAT 60.553 43.478 0.00 0.00 0.00 2.32
1046 1365 0.173708 TTCCCGCAACAACAACAACC 59.826 50.000 0.00 0.00 0.00 3.77
1050 1402 1.901085 GCAACAACAACAACCCCCA 59.099 52.632 0.00 0.00 0.00 4.96
1102 1454 6.096987 ACAACCATTAACACAACAACCATACA 59.903 34.615 0.00 0.00 0.00 2.29
1106 1458 0.584396 ACACAACAACCATACACGCG 59.416 50.000 3.53 3.53 0.00 6.01
1149 1501 3.288092 ACAACCTTCTGTGGAGGAAAAC 58.712 45.455 0.00 0.00 0.00 2.43
1218 1570 4.177026 CGGAGGAGAAAGTGTCATTACTG 58.823 47.826 0.00 0.00 0.00 2.74
1265 1617 2.325583 AAGACCTCGCAACAGAACAA 57.674 45.000 0.00 0.00 0.00 2.83
1281 1633 3.749981 AACTGCCAGTTGAAGCGG 58.250 55.556 9.77 0.00 37.00 5.52
1314 1666 2.672874 TCGACAACTTGCACATATCAGC 59.327 45.455 0.00 0.00 0.00 4.26
1377 1747 4.308265 CCATCATCATGCAACAACAACAA 58.692 39.130 0.00 0.00 0.00 2.83
1378 1748 4.150980 CCATCATCATGCAACAACAACAAC 59.849 41.667 0.00 0.00 0.00 3.32
1379 1749 4.382345 TCATCATGCAACAACAACAACA 57.618 36.364 0.00 0.00 0.00 3.33
1380 1750 4.752146 TCATCATGCAACAACAACAACAA 58.248 34.783 0.00 0.00 0.00 2.83
1381 1751 4.565962 TCATCATGCAACAACAACAACAAC 59.434 37.500 0.00 0.00 0.00 3.32
1382 1752 3.917988 TCATGCAACAACAACAACAACA 58.082 36.364 0.00 0.00 0.00 3.33
1400 1770 4.253685 CAACATGTGGATAGAGGTTTCGT 58.746 43.478 0.00 0.00 0.00 3.85
1470 1841 0.636101 ATCAATTGGGCCAGGGCTTA 59.364 50.000 13.81 1.22 41.60 3.09
1472 1843 0.826062 CAATTGGGCCAGGGCTTAAG 59.174 55.000 13.81 0.00 41.60 1.85
1528 1899 6.465084 GTTAGGTTACTTGTGATTCAGACCT 58.535 40.000 0.00 0.00 0.00 3.85
1545 1916 4.581824 CAGACCTTGCCTATGTTATGCAAT 59.418 41.667 0.00 0.00 43.38 3.56
1693 2064 2.061773 GGACGATCGATGTAGCAATGG 58.938 52.381 24.34 0.00 0.00 3.16
1730 2104 1.262417 GCACCATCATATGCGTGACTG 59.738 52.381 16.80 9.65 35.09 3.51
1731 2105 2.825205 CACCATCATATGCGTGACTGA 58.175 47.619 10.28 0.00 35.09 3.41
1732 2106 2.541346 CACCATCATATGCGTGACTGAC 59.459 50.000 10.28 0.00 35.09 3.51
1750 2124 6.545666 TGACTGACACCAATACAAGTTCAAAT 59.454 34.615 0.00 0.00 0.00 2.32
1799 2173 3.205338 CACGTCATGCCCATCTAATTCA 58.795 45.455 0.00 0.00 0.00 2.57
1819 2193 5.114764 TCAATAGGAACTGCAATCCATCA 57.885 39.130 17.87 5.60 41.52 3.07
1824 2198 3.703052 AGGAACTGCAATCCATCAATTCC 59.297 43.478 17.87 6.61 39.55 3.01
1833 2207 8.653036 TGCAATCCATCAATTCCATATCAATA 57.347 30.769 0.00 0.00 0.00 1.90
1858 2233 5.939764 TCACAAGTATATCAACTCAGGCT 57.060 39.130 0.00 0.00 0.00 4.58
1861 2236 5.752472 CACAAGTATATCAACTCAGGCTCAG 59.248 44.000 0.00 0.00 0.00 3.35
1863 2238 2.522836 ATATCAACTCAGGCTCAGCG 57.477 50.000 0.00 0.00 0.00 5.18
1918 2293 5.220873 GGAAAATTTAGTTCAGGGATCTCGC 60.221 44.000 0.00 0.00 0.00 5.03
1929 2304 1.666011 GATCTCGCGCCCCTAATCA 59.334 57.895 0.00 0.00 0.00 2.57
1943 2318 1.143329 TAATCACCCCCAGCCACCAA 61.143 55.000 0.00 0.00 0.00 3.67
1949 2324 2.520458 CCCAGCCACCAAAGTCCA 59.480 61.111 0.00 0.00 0.00 4.02
1951 2326 0.967380 CCCAGCCACCAAAGTCCATC 60.967 60.000 0.00 0.00 0.00 3.51
1956 2331 1.019278 CCACCAAAGTCCATCGACGG 61.019 60.000 0.00 0.00 44.28 4.79
1958 2333 1.079127 CCAAAGTCCATCGACGGCT 60.079 57.895 0.00 0.00 44.28 5.52
1961 2336 3.665675 AAGTCCATCGACGGCTGCC 62.666 63.158 9.11 9.11 44.28 4.85
1962 2337 4.451150 GTCCATCGACGGCTGCCA 62.451 66.667 20.29 0.00 0.00 4.92
1970 2345 2.365635 ACGGCTGCCAGGAGGTAT 60.366 61.111 20.29 0.00 37.19 2.73
1978 2353 2.299582 CTGCCAGGAGGTATGATCTCAG 59.700 54.545 0.00 0.00 37.19 3.35
1979 2354 1.622811 GCCAGGAGGTATGATCTCAGG 59.377 57.143 0.00 0.00 37.19 3.86
1989 2364 2.557555 TGATCTCAGGGTCATGTCCT 57.442 50.000 8.93 6.73 34.39 3.85
1995 2370 1.990060 AGGGTCATGTCCTGGGTCG 60.990 63.158 8.93 0.00 32.53 4.79
2000 2375 1.114627 TCATGTCCTGGGTCGATGAG 58.885 55.000 0.00 0.00 0.00 2.90
2019 2394 0.165944 GTTGTACCAGCATGTGTCGC 59.834 55.000 0.00 0.00 0.00 5.19
2020 2395 0.953471 TTGTACCAGCATGTGTCGCC 60.953 55.000 0.00 0.00 0.00 5.54
2021 2396 2.125713 TACCAGCATGTGTCGCCG 60.126 61.111 0.00 0.00 0.00 6.46
2033 2408 1.155424 TGTCGCCGTGTGACCTTTTC 61.155 55.000 12.89 0.00 41.72 2.29
2034 2409 1.595929 TCGCCGTGTGACCTTTTCC 60.596 57.895 0.00 0.00 0.00 3.13
2056 2433 1.028905 AAAATGTGTCCGTGTGTGGG 58.971 50.000 0.00 0.00 0.00 4.61
2061 2438 0.534203 GTGTCCGTGTGTGGGTTCAT 60.534 55.000 0.00 0.00 0.00 2.57
2076 2453 4.480537 TGGGTTCATTGTATAGGAATGGGT 59.519 41.667 0.00 0.00 32.57 4.51
2087 2464 3.406595 GAATGGGTCCCAGAGGGCG 62.407 68.421 17.70 0.00 43.94 6.13
2095 2472 3.941188 CCAGAGGGCGGTGTGTGT 61.941 66.667 0.00 0.00 0.00 3.72
2101 2478 3.353836 GGCGGTGTGTGTGCGAAT 61.354 61.111 0.00 0.00 0.00 3.34
2112 2489 2.030363 TGTGTGCGAATGGCTTTAAAGG 60.030 45.455 16.78 0.30 44.05 3.11
2123 2500 1.751351 GCTTTAAAGGCCAGGACCATC 59.249 52.381 16.78 0.00 0.00 3.51
2130 2507 1.817099 GCCAGGACCATCTGCTTCG 60.817 63.158 0.00 0.00 33.64 3.79
2131 2508 1.900351 CCAGGACCATCTGCTTCGA 59.100 57.895 0.00 0.00 33.64 3.71
2132 2509 0.179089 CCAGGACCATCTGCTTCGAG 60.179 60.000 0.00 0.00 33.64 4.04
2135 2512 0.103937 GGACCATCTGCTTCGAGAGG 59.896 60.000 0.00 0.00 0.00 3.69
2136 2513 0.529555 GACCATCTGCTTCGAGAGGC 60.530 60.000 0.00 0.00 0.00 4.70
2137 2514 1.260538 ACCATCTGCTTCGAGAGGCA 61.261 55.000 9.49 9.49 41.28 4.75
2138 2515 0.106335 CCATCTGCTTCGAGAGGCAT 59.894 55.000 10.26 0.00 42.60 4.40
2139 2516 1.218763 CATCTGCTTCGAGAGGCATG 58.781 55.000 10.26 3.70 42.60 4.06
2140 2517 0.829333 ATCTGCTTCGAGAGGCATGT 59.171 50.000 10.26 0.25 42.60 3.21
2141 2518 0.174389 TCTGCTTCGAGAGGCATGTC 59.826 55.000 10.26 0.00 42.60 3.06
2142 2519 0.108472 CTGCTTCGAGAGGCATGTCA 60.108 55.000 10.26 0.00 42.60 3.58
2143 2520 0.321346 TGCTTCGAGAGGCATGTCAA 59.679 50.000 5.77 0.00 38.55 3.18
2144 2521 1.065926 TGCTTCGAGAGGCATGTCAAT 60.066 47.619 5.77 0.00 38.55 2.57
2145 2522 1.329906 GCTTCGAGAGGCATGTCAATG 59.670 52.381 0.00 0.00 36.82 2.82
2146 2523 2.897436 CTTCGAGAGGCATGTCAATGA 58.103 47.619 0.00 0.00 35.67 2.57
2147 2524 3.264947 CTTCGAGAGGCATGTCAATGAA 58.735 45.455 0.00 0.00 35.67 2.57
2148 2525 3.548745 TCGAGAGGCATGTCAATGAAT 57.451 42.857 0.00 0.00 35.67 2.57
2149 2526 3.200483 TCGAGAGGCATGTCAATGAATG 58.800 45.455 0.00 0.00 35.67 2.67
2150 2527 3.118665 TCGAGAGGCATGTCAATGAATGA 60.119 43.478 0.00 0.00 35.67 2.57
2151 2528 3.624410 CGAGAGGCATGTCAATGAATGAA 59.376 43.478 0.00 0.00 40.50 2.57
2152 2529 4.275196 CGAGAGGCATGTCAATGAATGAAT 59.725 41.667 0.00 0.00 40.50 2.57
2153 2530 5.515797 AGAGGCATGTCAATGAATGAATG 57.484 39.130 0.00 2.29 40.50 2.67
2156 2533 5.657474 AGGCATGTCAATGAATGAATGTTC 58.343 37.500 0.00 0.00 40.50 3.18
2167 2544 6.704289 TGAATGAATGTTCTGAATCCCATC 57.296 37.500 0.00 0.00 0.00 3.51
2169 2546 6.320418 TGAATGAATGTTCTGAATCCCATCTG 59.680 38.462 0.00 0.00 0.00 2.90
2170 2547 5.183530 TGAATGTTCTGAATCCCATCTGT 57.816 39.130 0.00 0.00 0.00 3.41
2171 2548 4.945543 TGAATGTTCTGAATCCCATCTGTG 59.054 41.667 0.00 0.00 0.00 3.66
2172 2549 4.581309 ATGTTCTGAATCCCATCTGTGT 57.419 40.909 0.00 0.00 0.00 3.72
2174 2551 4.326826 TGTTCTGAATCCCATCTGTGTTC 58.673 43.478 0.00 0.00 0.00 3.18
2175 2552 4.042062 TGTTCTGAATCCCATCTGTGTTCT 59.958 41.667 0.00 0.00 0.00 3.01
2178 2555 5.634118 TCTGAATCCCATCTGTGTTCTTTT 58.366 37.500 0.00 0.00 0.00 2.27
2179 2556 5.474532 TCTGAATCCCATCTGTGTTCTTTTG 59.525 40.000 0.00 0.00 0.00 2.44
2181 2558 3.593442 TCCCATCTGTGTTCTTTTGGT 57.407 42.857 0.00 0.00 0.00 3.67
2182 2559 3.486383 TCCCATCTGTGTTCTTTTGGTC 58.514 45.455 0.00 0.00 0.00 4.02
2183 2560 2.558359 CCCATCTGTGTTCTTTTGGTCC 59.442 50.000 0.00 0.00 0.00 4.46
2184 2561 3.490348 CCATCTGTGTTCTTTTGGTCCT 58.510 45.455 0.00 0.00 0.00 3.85
2185 2562 3.503748 CCATCTGTGTTCTTTTGGTCCTC 59.496 47.826 0.00 0.00 0.00 3.71
2186 2563 3.924114 TCTGTGTTCTTTTGGTCCTCA 57.076 42.857 0.00 0.00 0.00 3.86
2187 2564 3.541632 TCTGTGTTCTTTTGGTCCTCAC 58.458 45.455 0.00 0.00 0.00 3.51
2188 2565 2.618709 CTGTGTTCTTTTGGTCCTCACC 59.381 50.000 0.00 0.00 44.10 4.02
2189 2566 2.241176 TGTGTTCTTTTGGTCCTCACCT 59.759 45.455 0.00 0.00 44.17 4.00
2190 2567 2.879026 GTGTTCTTTTGGTCCTCACCTC 59.121 50.000 0.00 0.00 44.17 3.85
2191 2568 2.158667 TGTTCTTTTGGTCCTCACCTCC 60.159 50.000 0.00 0.00 44.17 4.30
2192 2569 2.106684 GTTCTTTTGGTCCTCACCTCCT 59.893 50.000 0.00 0.00 44.17 3.69
2193 2570 2.418669 TCTTTTGGTCCTCACCTCCTT 58.581 47.619 0.00 0.00 44.17 3.36
2194 2571 2.783510 TCTTTTGGTCCTCACCTCCTTT 59.216 45.455 0.00 0.00 44.17 3.11
2209 2851 3.774216 CCTCCTTTCTCTGATTCCTCACT 59.226 47.826 0.00 0.00 0.00 3.41
2214 2856 5.339035 CCTTTCTCTGATTCCTCACTCCAAT 60.339 44.000 0.00 0.00 0.00 3.16
2216 2858 5.350504 TCTCTGATTCCTCACTCCAATTC 57.649 43.478 0.00 0.00 0.00 2.17
2219 2861 5.028802 TCTGATTCCTCACTCCAATTCTCT 58.971 41.667 0.00 0.00 0.00 3.10
2241 2883 8.948362 TCTCTCAAAATATCCCAAATCTATCCA 58.052 33.333 0.00 0.00 0.00 3.41
2264 2906 0.391661 ACCGAGCTCATTTGTGCGAT 60.392 50.000 15.40 0.00 39.31 4.58
2272 2914 3.118542 CTCATTTGTGCGATCTCGATCA 58.881 45.455 3.33 0.00 43.02 2.92
2274 2916 3.306973 TCATTTGTGCGATCTCGATCAAC 59.693 43.478 3.33 5.53 43.02 3.18
2275 2917 1.268265 TTGTGCGATCTCGATCAACG 58.732 50.000 3.33 0.00 43.02 4.10
2277 2919 0.840729 GTGCGATCTCGATCAACGAC 59.159 55.000 3.33 0.00 46.45 4.34
2278 2920 0.248498 TGCGATCTCGATCAACGACC 60.248 55.000 3.33 0.00 46.45 4.79
2279 2921 1.262824 GCGATCTCGATCAACGACCG 61.263 60.000 3.33 0.00 46.45 4.79
2280 2922 0.657659 CGATCTCGATCAACGACCGG 60.658 60.000 0.00 0.00 46.45 5.28
2281 2923 0.317938 GATCTCGATCAACGACCGGG 60.318 60.000 6.32 0.00 46.45 5.73
2311 2962 4.593864 GCGATGGAGCGGAGGGAC 62.594 72.222 0.00 0.00 0.00 4.46
2325 2976 3.450115 GGACACGTCCGAGGGAGG 61.450 72.222 0.00 2.99 42.55 4.30
2326 2977 2.360852 GACACGTCCGAGGGAGGA 60.361 66.667 11.00 0.00 39.66 3.71
2327 2978 2.361357 ACACGTCCGAGGGAGGAG 60.361 66.667 11.00 5.89 41.68 3.69
2332 2983 4.377760 TCCGAGGGAGGAGGCGTT 62.378 66.667 0.00 0.00 34.92 4.84
2333 2984 4.148825 CCGAGGGAGGAGGCGTTG 62.149 72.222 0.00 0.00 0.00 4.10
2334 2985 4.821589 CGAGGGAGGAGGCGTTGC 62.822 72.222 0.00 0.00 0.00 4.17
2335 2986 3.394836 GAGGGAGGAGGCGTTGCT 61.395 66.667 0.00 0.00 0.00 3.91
2336 2987 3.378399 GAGGGAGGAGGCGTTGCTC 62.378 68.421 2.75 2.75 43.05 4.26
2337 2988 3.706373 GGGAGGAGGCGTTGCTCA 61.706 66.667 11.37 0.00 45.37 4.26
2338 2989 2.586792 GGAGGAGGCGTTGCTCAT 59.413 61.111 11.37 0.00 45.37 2.90
2339 2990 1.686325 GGGAGGAGGCGTTGCTCATA 61.686 60.000 11.37 0.00 45.37 2.15
2340 2991 0.249657 GGAGGAGGCGTTGCTCATAG 60.250 60.000 11.37 0.00 45.37 2.23
2341 2992 0.249657 GAGGAGGCGTTGCTCATAGG 60.250 60.000 5.88 0.00 43.25 2.57
2342 2993 1.227674 GGAGGCGTTGCTCATAGGG 60.228 63.158 0.00 0.00 0.00 3.53
2343 2994 1.522569 GAGGCGTTGCTCATAGGGT 59.477 57.895 0.00 0.00 0.00 4.34
2344 2995 0.811616 GAGGCGTTGCTCATAGGGTG 60.812 60.000 0.00 0.00 0.00 4.61
2345 2996 1.819632 GGCGTTGCTCATAGGGTGG 60.820 63.158 0.00 0.00 0.00 4.61
2346 2997 2.472909 GCGTTGCTCATAGGGTGGC 61.473 63.158 0.00 0.00 0.00 5.01
2347 2998 1.078497 CGTTGCTCATAGGGTGGCA 60.078 57.895 0.00 0.00 33.89 4.92
2348 2999 0.464373 CGTTGCTCATAGGGTGGCAT 60.464 55.000 0.00 0.00 35.11 4.40
2349 3000 1.027357 GTTGCTCATAGGGTGGCATG 58.973 55.000 0.00 0.00 35.11 4.06
2350 3001 0.918258 TTGCTCATAGGGTGGCATGA 59.082 50.000 0.00 0.00 35.11 3.07
2359 3010 2.042831 GGTGGCATGAGGCTCACAC 61.043 63.158 21.37 21.73 42.15 3.82
2366 3017 2.125753 GAGGCTCACACTGGCTCG 60.126 66.667 10.25 0.00 44.84 5.03
2387 3038 2.398554 CGCGGATTTGTGGTGGAGG 61.399 63.158 0.00 0.00 0.00 4.30
2413 3064 4.094646 ATGGCCACGGCGTCATCA 62.095 61.111 8.16 8.97 43.06 3.07
2425 3076 0.302589 CGTCATCATGTGCGTCCATG 59.697 55.000 9.37 9.37 42.89 3.66
2426 3077 1.372582 GTCATCATGTGCGTCCATGT 58.627 50.000 13.66 2.62 42.29 3.21
2427 3078 2.549926 GTCATCATGTGCGTCCATGTA 58.450 47.619 13.66 4.57 42.29 2.29
2428 3079 3.133691 GTCATCATGTGCGTCCATGTAT 58.866 45.455 13.66 6.17 42.29 2.29
2429 3080 3.059393 GTCATCATGTGCGTCCATGTATG 60.059 47.826 13.66 14.32 42.29 2.39
2467 3141 0.409876 TCCTCCTCAGTACTGGCTGT 59.590 55.000 22.48 1.74 37.70 4.40
2469 3143 1.066573 CCTCCTCAGTACTGGCTGTTG 60.067 57.143 22.48 8.41 37.70 3.33
2522 3196 1.826921 CCTCACCCATGCAGCCATC 60.827 63.158 0.00 0.00 0.00 3.51
2544 3218 4.724501 TGGCCGCCCGTAATTGCA 62.725 61.111 7.03 0.00 0.00 4.08
2548 3222 2.760159 CCGCCCGTAATTGCAGTGG 61.760 63.158 0.00 0.00 0.00 4.00
2549 3223 2.038269 CGCCCGTAATTGCAGTGGT 61.038 57.895 0.00 0.00 0.00 4.16
2550 3224 1.506262 GCCCGTAATTGCAGTGGTG 59.494 57.895 0.00 0.00 0.00 4.17
2551 3225 0.958382 GCCCGTAATTGCAGTGGTGA 60.958 55.000 0.00 0.00 0.00 4.02
2552 3226 1.086696 CCCGTAATTGCAGTGGTGAG 58.913 55.000 0.00 0.00 0.00 3.51
2553 3227 0.447801 CCGTAATTGCAGTGGTGAGC 59.552 55.000 0.00 0.00 0.00 4.26
2554 3228 0.095245 CGTAATTGCAGTGGTGAGCG 59.905 55.000 0.00 0.00 0.00 5.03
2555 3229 0.447801 GTAATTGCAGTGGTGAGCGG 59.552 55.000 0.00 0.00 0.00 5.52
2556 3230 1.305219 TAATTGCAGTGGTGAGCGGC 61.305 55.000 0.00 0.00 0.00 6.53
2589 3263 0.172803 GTCATGTCGTAGGGCGTCTT 59.827 55.000 0.00 0.00 42.13 3.01
2590 3264 0.172578 TCATGTCGTAGGGCGTCTTG 59.827 55.000 0.00 0.00 42.13 3.02
2591 3265 0.108804 CATGTCGTAGGGCGTCTTGT 60.109 55.000 0.00 0.00 42.13 3.16
2592 3266 0.606604 ATGTCGTAGGGCGTCTTGTT 59.393 50.000 0.00 0.00 42.13 2.83
2593 3267 0.319211 TGTCGTAGGGCGTCTTGTTG 60.319 55.000 0.00 0.00 42.13 3.33
2594 3268 1.012486 GTCGTAGGGCGTCTTGTTGG 61.012 60.000 0.00 0.00 42.13 3.77
2595 3269 1.740296 CGTAGGGCGTCTTGTTGGG 60.740 63.158 0.00 0.00 35.54 4.12
2596 3270 1.675219 GTAGGGCGTCTTGTTGGGA 59.325 57.895 0.00 0.00 0.00 4.37
2597 3271 0.672711 GTAGGGCGTCTTGTTGGGAC 60.673 60.000 0.00 0.00 0.00 4.46
2598 3272 1.833787 TAGGGCGTCTTGTTGGGACC 61.834 60.000 0.00 0.00 0.00 4.46
2599 3273 2.430367 GGCGTCTTGTTGGGACCT 59.570 61.111 0.00 0.00 0.00 3.85
2600 3274 1.675219 GGCGTCTTGTTGGGACCTA 59.325 57.895 0.00 0.00 0.00 3.08
2601 3275 0.672711 GGCGTCTTGTTGGGACCTAC 60.673 60.000 0.00 0.00 0.00 3.18
2602 3276 0.672711 GCGTCTTGTTGGGACCTACC 60.673 60.000 0.64 0.00 38.08 3.18
2611 3285 2.888111 GGACCTACCCGGACGAAC 59.112 66.667 0.73 0.00 36.31 3.95
2612 3286 2.714991 GGACCTACCCGGACGAACC 61.715 68.421 0.73 0.00 36.31 3.62
2613 3287 1.680314 GACCTACCCGGACGAACCT 60.680 63.158 0.73 0.00 36.31 3.50
2614 3288 1.661498 GACCTACCCGGACGAACCTC 61.661 65.000 0.73 0.00 36.31 3.85
2615 3289 1.379576 CCTACCCGGACGAACCTCT 60.380 63.158 0.73 0.00 36.31 3.69
2616 3290 1.382692 CCTACCCGGACGAACCTCTC 61.383 65.000 0.73 0.00 36.31 3.20
2617 3291 0.394080 CTACCCGGACGAACCTCTCT 60.394 60.000 0.73 0.00 36.31 3.10
2618 3292 0.393537 TACCCGGACGAACCTCTCTC 60.394 60.000 0.73 0.00 36.31 3.20
2619 3293 1.378778 CCCGGACGAACCTCTCTCT 60.379 63.158 0.73 0.00 36.31 3.10
2620 3294 0.966370 CCCGGACGAACCTCTCTCTT 60.966 60.000 0.73 0.00 36.31 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 7.652909 TGCACATGATTAAACCTTTTGAAGAAG 59.347 33.333 0.00 0.00 0.00 2.85
56 57 4.088634 ACACCATGCACATGATTAAACCT 58.911 39.130 12.18 0.00 41.20 3.50
156 159 8.565416 ACAAGCATACATGACTCATCAATTATG 58.435 33.333 0.00 0.00 38.69 1.90
158 161 8.510243 AACAAGCATACATGACTCATCAATTA 57.490 30.769 0.00 0.00 38.69 1.40
261 264 3.684305 TGGCGTTGTTAAGACAGATCATG 59.316 43.478 0.00 0.00 37.04 3.07
269 272 2.289547 TCTTGCTTGGCGTTGTTAAGAC 59.710 45.455 0.00 0.00 0.00 3.01
355 358 7.523415 ACATCCCCTTTCTAAAACTAAGTTCA 58.477 34.615 0.00 0.00 0.00 3.18
356 359 7.997773 ACATCCCCTTTCTAAAACTAAGTTC 57.002 36.000 0.00 0.00 0.00 3.01
398 401 9.122779 TGACTCATCATATTCATTTTACATGCA 57.877 29.630 0.00 0.00 0.00 3.96
427 430 4.943705 GTGTCAGGAAAGCTTGATAATCCA 59.056 41.667 14.96 0.00 32.39 3.41
428 431 5.189180 AGTGTCAGGAAAGCTTGATAATCC 58.811 41.667 0.00 2.32 32.39 3.01
469 472 2.030893 TGATCGCCAAAGTTGCTTTCTG 60.031 45.455 0.00 0.00 30.60 3.02
541 544 7.122948 AGTTCCTCTACTCGTATCAAACTGATT 59.877 37.037 0.00 0.00 38.26 2.57
554 557 6.089685 GCTTTCTTGTAAAGTTCCTCTACTCG 59.910 42.308 0.00 0.00 46.34 4.18
647 650 1.133976 GTGTGAAGGATGGAGGATGGG 60.134 57.143 0.00 0.00 0.00 4.00
653 656 3.689347 TCCAAATGTGTGAAGGATGGAG 58.311 45.455 0.00 0.00 32.10 3.86
688 691 9.796120 TTTTTGGTTACTCTTGATTGTTTAGTG 57.204 29.630 0.00 0.00 0.00 2.74
711 714 7.166691 CAAGAAGATCTTCATGGTGGATTTT 57.833 36.000 31.79 14.03 41.84 1.82
807 810 2.034558 CGATTGTTGTGGCCTTTCTTGT 59.965 45.455 3.32 0.00 0.00 3.16
855 858 1.805428 GCAGCGGGAATGGTTGTTGT 61.805 55.000 0.00 0.00 0.00 3.32
925 976 1.745232 AGTTGTTGTTGGCGAAGTGA 58.255 45.000 0.00 0.00 0.00 3.41
932 983 0.389025 CTGGGGAAGTTGTTGTTGGC 59.611 55.000 0.00 0.00 0.00 4.52
978 1279 6.473455 GCATCTACTATGGAAATTGTTGTTGC 59.527 38.462 0.00 0.00 0.00 4.17
996 1315 4.932789 TGCGGAAGTGGCATCTAC 57.067 55.556 0.00 0.00 35.04 2.59
1025 1344 2.034812 GGTTGTTGTTGTTGCGGGAATA 59.965 45.455 0.00 0.00 0.00 1.75
1046 1365 2.998316 AAATGGTTGTTGTTGTGGGG 57.002 45.000 0.00 0.00 0.00 4.96
1050 1402 8.424918 TGATATTGGTAAAATGGTTGTTGTTGT 58.575 29.630 0.00 0.00 0.00 3.32
1102 1454 3.566261 CAATGGTTGCTCTCGCGT 58.434 55.556 5.77 0.00 39.65 6.01
1149 1501 3.556775 CCTTGCACAAGTTCAATTGTTGG 59.443 43.478 5.13 0.00 41.41 3.77
1218 1570 1.017387 GGAACGGGATCATTGACTGC 58.983 55.000 0.00 0.00 0.00 4.40
1329 1681 0.964860 CAATGTTGTGGATGGCCGGA 60.965 55.000 5.05 0.00 36.79 5.14
1353 1705 1.135344 TGTTGTTGCATGATGATGGCG 60.135 47.619 0.00 0.00 0.00 5.69
1377 1747 4.253685 CGAAACCTCTATCCACATGTTGT 58.746 43.478 0.00 0.00 0.00 3.32
1378 1748 4.253685 ACGAAACCTCTATCCACATGTTG 58.746 43.478 0.00 0.00 0.00 3.33
1379 1749 4.504858 GACGAAACCTCTATCCACATGTT 58.495 43.478 0.00 0.00 0.00 2.71
1380 1750 3.118738 GGACGAAACCTCTATCCACATGT 60.119 47.826 0.00 0.00 0.00 3.21
1381 1751 3.118775 TGGACGAAACCTCTATCCACATG 60.119 47.826 0.00 0.00 32.35 3.21
1382 1752 3.104512 TGGACGAAACCTCTATCCACAT 58.895 45.455 0.00 0.00 32.35 3.21
1400 1770 0.179020 CTGTTGTGGTTGAGGCTGGA 60.179 55.000 0.00 0.00 0.00 3.86
1470 1841 2.027100 GGCTAGTTGTTGAGGTAGGCTT 60.027 50.000 0.00 0.00 35.68 4.35
1472 1843 1.407025 GGGCTAGTTGTTGAGGTAGGC 60.407 57.143 0.00 0.00 37.34 3.93
1596 1967 0.949105 GTCCACCGTTGTAGGCAGTG 60.949 60.000 0.00 0.00 33.69 3.66
1643 2014 9.529325 CGAGTAAACAATGAAGTTCCATCTATA 57.471 33.333 0.00 0.00 0.00 1.31
1653 2024 5.120208 CGTCCAATCGAGTAAACAATGAAGT 59.880 40.000 0.00 0.00 0.00 3.01
1693 2064 8.254178 TGATGGTGCATGACATTTTATTTTTC 57.746 30.769 0.00 0.00 0.00 2.29
1730 2104 6.423604 CCCAAATTTGAACTTGTATTGGTGTC 59.576 38.462 19.86 0.00 35.25 3.67
1731 2105 6.098982 TCCCAAATTTGAACTTGTATTGGTGT 59.901 34.615 19.86 0.00 35.25 4.16
1732 2106 6.520272 TCCCAAATTTGAACTTGTATTGGTG 58.480 36.000 19.86 0.00 35.25 4.17
1750 2124 9.579932 AATATTTTGTTTGCCTTTATTCCCAAA 57.420 25.926 0.00 0.00 0.00 3.28
1799 2173 6.041296 GGAATTGATGGATTGCAGTTCCTATT 59.959 38.462 16.22 11.08 43.51 1.73
1833 2207 7.341805 AGCCTGAGTTGATATACTTGTGAAAT 58.658 34.615 0.00 0.00 0.00 2.17
1852 2227 2.036571 CATTGCACGCTGAGCCTGA 61.037 57.895 7.62 0.00 0.00 3.86
1856 2231 0.040157 TTTCACATTGCACGCTGAGC 60.040 50.000 0.00 0.00 0.00 4.26
1858 2233 2.859526 TTTTTCACATTGCACGCTGA 57.140 40.000 0.00 0.00 0.00 4.26
1882 2257 4.640647 ACTAAATTTTCCGGATCAAGAGGC 59.359 41.667 4.15 0.00 0.00 4.70
1887 2262 5.417580 CCCTGAACTAAATTTTCCGGATCAA 59.582 40.000 4.15 1.17 30.87 2.57
1889 2264 5.190677 TCCCTGAACTAAATTTTCCGGATC 58.809 41.667 4.15 0.00 30.87 3.36
1918 2293 3.093835 TGGGGGTGATTAGGGGCG 61.094 66.667 0.00 0.00 0.00 6.13
1929 2304 3.110031 ACTTTGGTGGCTGGGGGT 61.110 61.111 0.00 0.00 0.00 4.95
1943 2318 2.125512 GCAGCCGTCGATGGACTT 60.126 61.111 28.06 8.83 41.16 3.01
1949 2324 3.842923 CTCCTGGCAGCCGTCGAT 61.843 66.667 9.56 0.00 0.00 3.59
1956 2331 1.001860 GAGATCATACCTCCTGGCAGC 59.998 57.143 9.56 0.00 36.63 5.25
1958 2333 2.323599 CTGAGATCATACCTCCTGGCA 58.676 52.381 0.00 0.00 36.63 4.92
1961 2336 2.896685 GACCCTGAGATCATACCTCCTG 59.103 54.545 0.00 0.00 0.00 3.86
1962 2337 2.520120 TGACCCTGAGATCATACCTCCT 59.480 50.000 0.00 0.00 0.00 3.69
1970 2345 2.557555 AGGACATGACCCTGAGATCA 57.442 50.000 10.77 0.00 31.66 2.92
1978 2353 1.338136 ATCGACCCAGGACATGACCC 61.338 60.000 10.77 5.73 0.00 4.46
1979 2354 0.179073 CATCGACCCAGGACATGACC 60.179 60.000 6.05 6.05 0.00 4.02
1989 2364 1.548719 CTGGTACAACTCATCGACCCA 59.451 52.381 0.00 0.00 38.70 4.51
1990 2365 1.739371 GCTGGTACAACTCATCGACCC 60.739 57.143 0.00 0.00 38.70 4.46
1995 2370 3.338249 ACACATGCTGGTACAACTCATC 58.662 45.455 0.00 0.00 38.70 2.92
2000 2375 0.165944 GCGACACATGCTGGTACAAC 59.834 55.000 0.00 0.00 38.70 3.32
2019 2394 3.512033 TTTTTGGAAAAGGTCACACGG 57.488 42.857 0.00 0.00 0.00 4.94
2056 2433 5.070685 GGGACCCATTCCTATACAATGAAC 58.929 45.833 5.33 0.00 45.09 3.18
2061 2438 3.973973 CTCTGGGACCCATTCCTATACAA 59.026 47.826 15.39 0.00 45.09 2.41
2087 2464 1.795170 AAGCCATTCGCACACACACC 61.795 55.000 0.00 0.00 41.38 4.16
2091 2468 2.030363 CCTTTAAAGCCATTCGCACACA 60.030 45.455 9.86 0.00 41.38 3.72
2112 2489 1.817099 CGAAGCAGATGGTCCTGGC 60.817 63.158 0.00 0.00 34.82 4.85
2123 2500 0.108472 TGACATGCCTCTCGAAGCAG 60.108 55.000 9.87 5.53 43.38 4.24
2130 2507 5.067413 ACATTCATTCATTGACATGCCTCTC 59.933 40.000 0.00 0.00 32.84 3.20
2131 2508 4.954202 ACATTCATTCATTGACATGCCTCT 59.046 37.500 0.00 0.00 32.84 3.69
2132 2509 5.258456 ACATTCATTCATTGACATGCCTC 57.742 39.130 0.00 0.00 32.84 4.70
2135 2512 6.327154 TCAGAACATTCATTCATTGACATGC 58.673 36.000 0.00 0.00 32.84 4.06
2136 2513 8.926715 ATTCAGAACATTCATTCATTGACATG 57.073 30.769 0.00 0.00 32.84 3.21
2137 2514 8.195436 GGATTCAGAACATTCATTCATTGACAT 58.805 33.333 0.00 0.00 32.84 3.06
2138 2515 7.363181 GGGATTCAGAACATTCATTCATTGACA 60.363 37.037 0.00 0.00 32.84 3.58
2139 2516 6.976925 GGGATTCAGAACATTCATTCATTGAC 59.023 38.462 0.00 0.00 32.84 3.18
2140 2517 6.664384 TGGGATTCAGAACATTCATTCATTGA 59.336 34.615 0.00 0.00 0.00 2.57
2141 2518 6.869695 TGGGATTCAGAACATTCATTCATTG 58.130 36.000 0.00 0.00 0.00 2.82
2142 2519 7.563924 AGATGGGATTCAGAACATTCATTCATT 59.436 33.333 0.00 0.00 0.00 2.57
2143 2520 7.014326 CAGATGGGATTCAGAACATTCATTCAT 59.986 37.037 0.00 0.00 0.00 2.57
2144 2521 6.320418 CAGATGGGATTCAGAACATTCATTCA 59.680 38.462 0.00 0.00 0.00 2.57
2145 2522 6.320672 ACAGATGGGATTCAGAACATTCATTC 59.679 38.462 0.00 0.00 0.00 2.67
2146 2523 6.096423 CACAGATGGGATTCAGAACATTCATT 59.904 38.462 0.00 0.00 0.00 2.57
2147 2524 5.593095 CACAGATGGGATTCAGAACATTCAT 59.407 40.000 0.00 0.00 0.00 2.57
2148 2525 4.945543 CACAGATGGGATTCAGAACATTCA 59.054 41.667 0.00 0.00 0.00 2.57
2149 2526 4.946157 ACACAGATGGGATTCAGAACATTC 59.054 41.667 0.00 0.00 0.00 2.67
2150 2527 4.927049 ACACAGATGGGATTCAGAACATT 58.073 39.130 0.00 0.00 0.00 2.71
2151 2528 4.581309 ACACAGATGGGATTCAGAACAT 57.419 40.909 0.00 0.00 0.00 2.71
2152 2529 4.042062 AGAACACAGATGGGATTCAGAACA 59.958 41.667 0.00 0.00 0.00 3.18
2153 2530 4.583871 AGAACACAGATGGGATTCAGAAC 58.416 43.478 0.00 0.00 0.00 3.01
2156 2533 5.336213 CCAAAAGAACACAGATGGGATTCAG 60.336 44.000 0.00 0.00 0.00 3.02
2167 2544 2.618709 GGTGAGGACCAAAAGAACACAG 59.381 50.000 0.00 0.00 42.59 3.66
2169 2546 2.879026 GAGGTGAGGACCAAAAGAACAC 59.121 50.000 0.00 0.00 45.98 3.32
2170 2547 2.158667 GGAGGTGAGGACCAAAAGAACA 60.159 50.000 0.00 0.00 45.98 3.18
2171 2548 2.106684 AGGAGGTGAGGACCAAAAGAAC 59.893 50.000 0.00 0.00 45.98 3.01
2172 2549 2.418669 AGGAGGTGAGGACCAAAAGAA 58.581 47.619 0.00 0.00 45.98 2.52
2174 2551 2.959465 AAGGAGGTGAGGACCAAAAG 57.041 50.000 0.00 0.00 45.98 2.27
2175 2552 2.783510 AGAAAGGAGGTGAGGACCAAAA 59.216 45.455 0.00 0.00 45.98 2.44
2178 2555 1.150135 AGAGAAAGGAGGTGAGGACCA 59.850 52.381 0.00 0.00 45.98 4.02
2179 2556 1.552792 CAGAGAAAGGAGGTGAGGACC 59.447 57.143 0.00 0.00 43.52 4.46
2181 2558 3.481559 ATCAGAGAAAGGAGGTGAGGA 57.518 47.619 0.00 0.00 0.00 3.71
2182 2559 3.118445 GGAATCAGAGAAAGGAGGTGAGG 60.118 52.174 0.00 0.00 0.00 3.86
2183 2560 3.774216 AGGAATCAGAGAAAGGAGGTGAG 59.226 47.826 0.00 0.00 0.00 3.51
2184 2561 3.772025 GAGGAATCAGAGAAAGGAGGTGA 59.228 47.826 0.00 0.00 0.00 4.02
2185 2562 3.517100 TGAGGAATCAGAGAAAGGAGGTG 59.483 47.826 0.00 0.00 0.00 4.00
2186 2563 3.517500 GTGAGGAATCAGAGAAAGGAGGT 59.482 47.826 0.00 0.00 0.00 3.85
2187 2564 3.774216 AGTGAGGAATCAGAGAAAGGAGG 59.226 47.826 0.00 0.00 0.00 4.30
2188 2565 4.141959 GGAGTGAGGAATCAGAGAAAGGAG 60.142 50.000 0.00 0.00 0.00 3.69
2189 2566 3.772025 GGAGTGAGGAATCAGAGAAAGGA 59.228 47.826 0.00 0.00 0.00 3.36
2190 2567 3.517100 TGGAGTGAGGAATCAGAGAAAGG 59.483 47.826 0.00 0.00 0.00 3.11
2191 2568 4.815533 TGGAGTGAGGAATCAGAGAAAG 57.184 45.455 0.00 0.00 0.00 2.62
2192 2569 5.768980 ATTGGAGTGAGGAATCAGAGAAA 57.231 39.130 0.00 0.00 0.00 2.52
2193 2570 5.486775 AGAATTGGAGTGAGGAATCAGAGAA 59.513 40.000 0.00 0.00 0.00 2.87
2194 2571 5.028802 AGAATTGGAGTGAGGAATCAGAGA 58.971 41.667 0.00 0.00 0.00 3.10
2209 2851 8.843308 ATTTGGGATATTTTGAGAGAATTGGA 57.157 30.769 0.00 0.00 0.00 3.53
2214 2856 9.799106 GGATAGATTTGGGATATTTTGAGAGAA 57.201 33.333 0.00 0.00 0.00 2.87
2216 2858 9.578576 TTGGATAGATTTGGGATATTTTGAGAG 57.421 33.333 0.00 0.00 0.00 3.20
2241 2883 2.095853 CGCACAAATGAGCTCGGTATTT 59.904 45.455 9.64 6.95 0.00 1.40
2247 2889 1.257415 GAGATCGCACAAATGAGCTCG 59.743 52.381 9.64 0.00 37.82 5.03
2275 2917 2.257676 GAGTGTCACGACCCGGTC 59.742 66.667 7.59 7.59 0.00 4.79
2276 2918 2.520020 TGAGTGTCACGACCCGGT 60.520 61.111 0.00 0.00 0.00 5.28
2277 2919 2.258591 CTGAGTGTCACGACCCGG 59.741 66.667 0.00 0.00 0.00 5.73
2278 2920 2.430921 GCTGAGTGTCACGACCCG 60.431 66.667 0.00 0.00 0.00 5.28
2279 2921 2.214181 ATCGCTGAGTGTCACGACCC 62.214 60.000 0.00 0.00 34.60 4.46
2280 2922 1.073216 CATCGCTGAGTGTCACGACC 61.073 60.000 0.00 0.00 34.60 4.79
2281 2923 1.073216 CCATCGCTGAGTGTCACGAC 61.073 60.000 0.00 0.00 34.60 4.34
2311 2962 3.141488 CCTCCTCCCTCGGACGTG 61.141 72.222 0.00 0.00 0.00 4.49
2317 2968 4.821589 GCAACGCCTCCTCCCTCG 62.822 72.222 0.00 0.00 0.00 4.63
2318 2969 3.378399 GAGCAACGCCTCCTCCCTC 62.378 68.421 0.00 0.00 0.00 4.30
2319 2970 3.394836 GAGCAACGCCTCCTCCCT 61.395 66.667 0.00 0.00 0.00 4.20
2321 2972 0.249657 CTATGAGCAACGCCTCCTCC 60.250 60.000 0.00 0.00 0.00 4.30
2322 2973 0.249657 CCTATGAGCAACGCCTCCTC 60.250 60.000 0.00 0.00 0.00 3.71
2323 2974 1.690219 CCCTATGAGCAACGCCTCCT 61.690 60.000 0.00 0.00 0.00 3.69
2324 2975 1.227674 CCCTATGAGCAACGCCTCC 60.228 63.158 0.00 0.00 0.00 4.30
2325 2976 0.811616 CACCCTATGAGCAACGCCTC 60.812 60.000 0.00 0.00 0.00 4.70
2326 2977 1.221840 CACCCTATGAGCAACGCCT 59.778 57.895 0.00 0.00 0.00 5.52
2327 2978 1.819632 CCACCCTATGAGCAACGCC 60.820 63.158 0.00 0.00 0.00 5.68
2328 2979 2.472909 GCCACCCTATGAGCAACGC 61.473 63.158 0.00 0.00 0.00 4.84
2329 2980 0.464373 ATGCCACCCTATGAGCAACG 60.464 55.000 0.00 0.00 37.81 4.10
2330 2981 1.027357 CATGCCACCCTATGAGCAAC 58.973 55.000 0.00 0.00 37.81 4.17
2331 2982 0.918258 TCATGCCACCCTATGAGCAA 59.082 50.000 0.00 0.00 37.81 3.91
2332 2983 0.471191 CTCATGCCACCCTATGAGCA 59.529 55.000 0.00 0.00 42.48 4.26
2333 2984 0.250640 CCTCATGCCACCCTATGAGC 60.251 60.000 8.35 0.00 45.60 4.26
2334 2985 0.250640 GCCTCATGCCACCCTATGAG 60.251 60.000 0.00 0.00 46.19 2.90
2335 2986 0.695462 AGCCTCATGCCACCCTATGA 60.695 55.000 0.00 0.00 42.71 2.15
2336 2987 0.250640 GAGCCTCATGCCACCCTATG 60.251 60.000 0.00 0.00 42.71 2.23
2337 2988 0.695462 TGAGCCTCATGCCACCCTAT 60.695 55.000 0.00 0.00 42.71 2.57
2338 2989 1.306911 TGAGCCTCATGCCACCCTA 60.307 57.895 0.00 0.00 42.71 3.53
2339 2990 2.611800 TGAGCCTCATGCCACCCT 60.612 61.111 0.00 0.00 42.71 4.34
2340 2991 2.439156 GTGAGCCTCATGCCACCC 60.439 66.667 0.00 0.00 42.71 4.61
2341 2992 2.042831 GTGTGAGCCTCATGCCACC 61.043 63.158 0.00 0.00 42.71 4.61
2342 2993 1.002868 AGTGTGAGCCTCATGCCAC 60.003 57.895 0.00 1.48 42.71 5.01
2343 2994 1.002990 CAGTGTGAGCCTCATGCCA 60.003 57.895 0.00 0.00 42.71 4.92
2344 2995 1.748122 CCAGTGTGAGCCTCATGCC 60.748 63.158 0.00 0.00 42.71 4.40
2345 2996 2.404995 GCCAGTGTGAGCCTCATGC 61.405 63.158 0.00 0.00 41.71 4.06
2346 2997 0.743701 GAGCCAGTGTGAGCCTCATG 60.744 60.000 0.00 0.00 0.00 3.07
2347 2998 1.601171 GAGCCAGTGTGAGCCTCAT 59.399 57.895 0.00 0.00 0.00 2.90
2348 2999 2.935740 CGAGCCAGTGTGAGCCTCA 61.936 63.158 0.00 0.00 0.00 3.86
2349 3000 1.954362 ATCGAGCCAGTGTGAGCCTC 61.954 60.000 0.00 0.00 0.00 4.70
2350 3001 1.954362 GATCGAGCCAGTGTGAGCCT 61.954 60.000 0.00 0.00 0.00 4.58
2359 3010 1.592669 AAATCCGCGATCGAGCCAG 60.593 57.895 21.57 3.01 38.10 4.85
2366 3017 0.742990 TCCACCACAAATCCGCGATC 60.743 55.000 8.23 0.00 0.00 3.69
2401 3052 2.400798 GCACATGATGACGCCGTG 59.599 61.111 0.00 0.00 0.00 4.94
2425 3076 1.227380 CTCAGCCTCGTGCCCATAC 60.227 63.158 0.00 0.00 42.71 2.39
2426 3077 3.094062 GCTCAGCCTCGTGCCCATA 62.094 63.158 0.00 0.00 42.71 2.74
2427 3078 4.479993 GCTCAGCCTCGTGCCCAT 62.480 66.667 0.00 0.00 42.71 4.00
2437 3088 3.378399 GAGGAGGAACGGCTCAGCC 62.378 68.421 5.22 5.22 46.75 4.85
2448 3122 0.409876 ACAGCCAGTACTGAGGAGGA 59.590 55.000 24.68 0.00 40.25 3.71
2453 3127 1.630244 GCGCAACAGCCAGTACTGAG 61.630 60.000 24.68 14.75 40.25 3.35
2491 3165 0.323451 GGTGAGGATGGGTTGGGAAC 60.323 60.000 0.00 0.00 0.00 3.62
2493 3167 1.928567 GGGTGAGGATGGGTTGGGA 60.929 63.158 0.00 0.00 0.00 4.37
2566 3240 2.064581 GCCCTACGACATGACCCCT 61.065 63.158 0.00 0.00 0.00 4.79
2594 3268 2.714991 GGTTCGTCCGGGTAGGTCC 61.715 68.421 0.00 0.00 41.99 4.46
2595 3269 1.661498 GAGGTTCGTCCGGGTAGGTC 61.661 65.000 0.00 0.00 41.99 3.85
2596 3270 1.680314 GAGGTTCGTCCGGGTAGGT 60.680 63.158 0.00 0.00 41.99 3.08
2597 3271 1.379576 AGAGGTTCGTCCGGGTAGG 60.380 63.158 0.00 0.00 41.99 3.18
2598 3272 0.394080 AGAGAGGTTCGTCCGGGTAG 60.394 60.000 0.00 0.00 41.99 3.18
2599 3273 0.393537 GAGAGAGGTTCGTCCGGGTA 60.394 60.000 0.00 0.00 41.99 3.69
2600 3274 1.678300 GAGAGAGGTTCGTCCGGGT 60.678 63.158 0.00 0.00 41.99 5.28
2601 3275 0.966370 AAGAGAGAGGTTCGTCCGGG 60.966 60.000 0.00 0.00 41.99 5.73
2602 3276 2.569183 AAGAGAGAGGTTCGTCCGG 58.431 57.895 0.00 0.00 41.99 5.14


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

AutoCloner maintained by Alex Coulton.