Multiple sequence alignment - TraesCS6B01G246700

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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 TraesCS6B01G246700 chr6B 100.000 4172 0 0 1 4172 439071718 439067547 0.000000e+00 7705.0
1 TraesCS6B01G246700 chr6B 91.463 82 7 0 2449 2530 439069132 439069051 3.410000e-21 113.0
2 TraesCS6B01G246700 chr6B 91.463 82 7 0 2587 2668 439069270 439069189 3.410000e-21 113.0
3 TraesCS6B01G246700 chr6A 94.000 1650 65 21 2352 3980 398177593 398179229 0.000000e+00 2468.0
4 TraesCS6B01G246700 chr6A 95.695 1324 51 3 926 2247 398176275 398177594 0.000000e+00 2124.0
5 TraesCS6B01G246700 chr6A 91.538 910 38 13 1 882 398175377 398176275 0.000000e+00 1218.0
6 TraesCS6B01G246700 chr6A 90.345 145 10 1 4026 4170 398179339 398179479 1.980000e-43 187.0
7 TraesCS6B01G246700 chr6A 91.463 82 7 0 2587 2668 398177691 398177772 3.410000e-21 113.0
8 TraesCS6B01G246700 chr6A 90.244 82 8 0 2449 2530 398177829 398177910 1.590000e-19 108.0
9 TraesCS6B01G246700 chr6D 93.123 1614 63 24 2352 3935 277144392 277142797 0.000000e+00 2322.0
10 TraesCS6B01G246700 chr6D 93.789 1449 53 16 1 1420 277146586 277145146 0.000000e+00 2143.0
11 TraesCS6B01G246700 chr6D 96.138 751 29 0 1497 2247 277145141 277144391 0.000000e+00 1227.0
12 TraesCS6B01G246700 chr6D 97.241 145 4 0 4024 4168 277141006 277140862 3.220000e-61 246.0
13 TraesCS6B01G246700 chr6D 87.805 82 10 0 2449 2530 277144156 277144075 3.430000e-16 97.1
14 TraesCS6B01G246700 chr6D 90.000 60 6 0 3924 3983 277141155 277141096 1.240000e-10 78.7
15 TraesCS6B01G246700 chr2B 97.345 113 2 1 2243 2355 131311832 131311721 1.530000e-44 191.0
16 TraesCS6B01G246700 chrUn 94.309 123 6 1 2245 2367 51053148 51053027 1.980000e-43 187.0
17 TraesCS6B01G246700 chrUn 94.309 123 6 1 2245 2367 342353519 342353398 1.980000e-43 187.0
18 TraesCS6B01G246700 chr7B 95.726 117 3 2 2245 2361 730205113 730205227 1.980000e-43 187.0
19 TraesCS6B01G246700 chr4A 93.651 126 7 1 2242 2367 720526577 720526701 1.980000e-43 187.0
20 TraesCS6B01G246700 chr1B 95.000 120 4 2 2243 2362 91532997 91533114 1.980000e-43 187.0
21 TraesCS6B01G246700 chr1B 95.726 117 3 2 2245 2361 113565123 113565237 1.980000e-43 187.0
22 TraesCS6B01G246700 chr1B 93.077 130 4 4 2243 2370 324790082 324789956 7.120000e-43 185.0
23 TraesCS6B01G246700 chr3B 97.222 108 2 1 2246 2353 425384148 425384042 9.210000e-42 182.0


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 TraesCS6B01G246700 chr6B 439067547 439071718 4171 True 2643.666667 7705 94.308667 1 4172 3 chr6B.!!$R1 4171
1 TraesCS6B01G246700 chr6A 398175377 398179479 4102 False 1036.333333 2468 92.214167 1 4170 6 chr6A.!!$F1 4169
2 TraesCS6B01G246700 chr6D 277140862 277146586 5724 True 1018.966667 2322 93.016000 1 4168 6 chr6D.!!$R1 4167

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
994 1069 0.521291 TCGGCGATTCAAGCAAAAGG 59.479 50.0 4.99 0.00 36.08 3.11 F
1776 1853 0.390472 GTGTAGCAGGACAGTCAGCC 60.390 60.0 12.26 1.44 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1883 1960 0.520847 GCTTGTTCTCTCAGCTTGGC 59.479 55.000 0.0 0.0 0.0 4.52 R
3773 3880 1.404748 TCGACGACACCAACACACTTA 59.595 47.619 0.0 0.0 0.0 2.24 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
223 224 7.672983 TCTTGGTCTTGTTTCATTCTGTATC 57.327 36.000 0.00 0.00 0.00 2.24
254 255 6.099413 TCTCTCTTTCATAGGCACTGATGAAT 59.901 38.462 0.00 0.00 41.52 2.57
284 285 3.208747 TCCTTCTTGGGTCTGTTTCAC 57.791 47.619 0.00 0.00 36.20 3.18
285 286 2.507886 TCCTTCTTGGGTCTGTTTCACA 59.492 45.455 0.00 0.00 36.20 3.58
305 306 4.020543 ACACTGTATTGGGTCTCTCTCTC 58.979 47.826 0.00 0.00 0.00 3.20
307 308 4.709397 CACTGTATTGGGTCTCTCTCTCTT 59.291 45.833 0.00 0.00 0.00 2.85
312 313 9.308000 CTGTATTGGGTCTCTCTCTCTTTATAT 57.692 37.037 0.00 0.00 0.00 0.86
319 320 8.953313 GGGTCTCTCTCTCTTTATATACTAAGC 58.047 40.741 0.00 0.00 0.00 3.09
320 321 9.509956 GGTCTCTCTCTCTTTATATACTAAGCA 57.490 37.037 0.00 0.00 0.00 3.91
322 323 9.210329 TCTCTCTCTCTTTATATACTAAGCACG 57.790 37.037 0.00 0.00 0.00 5.34
323 324 8.905660 TCTCTCTCTTTATATACTAAGCACGT 57.094 34.615 0.00 0.00 0.00 4.49
324 325 8.775527 TCTCTCTCTTTATATACTAAGCACGTG 58.224 37.037 12.28 12.28 0.00 4.49
325 326 8.447924 TCTCTCTTTATATACTAAGCACGTGT 57.552 34.615 18.38 0.00 0.00 4.49
340 341 3.421888 GCACGTGTTGTTTCATCATTGAC 59.578 43.478 18.38 0.00 0.00 3.18
392 393 4.461431 CACCCGGCTAAGTTAAATTCCTTT 59.539 41.667 0.00 0.00 0.00 3.11
402 403 5.711698 AGTTAAATTCCTTTGTTCCCCAGA 58.288 37.500 0.00 0.00 0.00 3.86
407 408 1.758592 CTTTGTTCCCCAGACCGGA 59.241 57.895 9.46 0.00 36.56 5.14
408 409 0.605589 CTTTGTTCCCCAGACCGGAC 60.606 60.000 9.46 0.10 36.56 4.79
409 410 1.057851 TTTGTTCCCCAGACCGGACT 61.058 55.000 9.46 3.68 36.56 3.85
505 509 1.519408 TTTGTGTAAGGAAGCGAGGC 58.481 50.000 0.00 0.00 0.00 4.70
513 517 2.104530 GAAGCGAGGCGGGACTAC 59.895 66.667 0.00 0.00 0.00 2.73
529 533 6.256321 GCGGGACTACTAATTATCAAACGAAA 59.744 38.462 0.00 0.00 0.00 3.46
550 554 2.061773 CAGTCTGTTAGAGCACAACCG 58.938 52.381 0.00 0.00 0.00 4.44
633 639 3.244422 TGGCTCGAAACACCTTTGTATCT 60.244 43.478 0.00 0.00 33.55 1.98
747 753 9.249053 GTTGATTCTCATATAGATCAGGGACTA 57.751 37.037 0.00 0.00 31.65 2.59
782 788 1.328680 GCGTGACAGACCAAGCATATG 59.671 52.381 0.00 0.00 40.43 1.78
864 895 4.532834 TGGATTGGTTTATTGCTCCTACC 58.467 43.478 0.00 0.00 0.00 3.18
881 912 6.684613 GCTCCTACCTCATTTATTGTTCCGTA 60.685 42.308 0.00 0.00 0.00 4.02
882 913 6.576185 TCCTACCTCATTTATTGTTCCGTAC 58.424 40.000 0.00 0.00 0.00 3.67
883 914 6.381994 TCCTACCTCATTTATTGTTCCGTACT 59.618 38.462 0.00 0.00 0.00 2.73
884 915 7.046033 CCTACCTCATTTATTGTTCCGTACTT 58.954 38.462 0.00 0.00 0.00 2.24
885 916 6.737254 ACCTCATTTATTGTTCCGTACTTG 57.263 37.500 0.00 0.00 0.00 3.16
886 917 5.123344 ACCTCATTTATTGTTCCGTACTTGC 59.877 40.000 0.00 0.00 0.00 4.01
887 918 5.354234 CCTCATTTATTGTTCCGTACTTGCT 59.646 40.000 0.00 0.00 0.00 3.91
888 919 6.128007 CCTCATTTATTGTTCCGTACTTGCTT 60.128 38.462 0.00 0.00 0.00 3.91
889 920 6.837992 TCATTTATTGTTCCGTACTTGCTTC 58.162 36.000 0.00 0.00 0.00 3.86
890 921 6.653320 TCATTTATTGTTCCGTACTTGCTTCT 59.347 34.615 0.00 0.00 0.00 2.85
891 922 5.856126 TTATTGTTCCGTACTTGCTTCTG 57.144 39.130 0.00 0.00 0.00 3.02
892 923 1.508632 TGTTCCGTACTTGCTTCTGC 58.491 50.000 0.00 0.00 40.20 4.26
893 924 1.070134 TGTTCCGTACTTGCTTCTGCT 59.930 47.619 0.00 0.00 40.48 4.24
894 925 2.143925 GTTCCGTACTTGCTTCTGCTT 58.856 47.619 0.00 0.00 40.48 3.91
895 926 2.080286 TCCGTACTTGCTTCTGCTTC 57.920 50.000 0.00 0.00 40.48 3.86
896 927 1.618837 TCCGTACTTGCTTCTGCTTCT 59.381 47.619 0.00 0.00 40.48 2.85
897 928 1.728971 CCGTACTTGCTTCTGCTTCTG 59.271 52.381 0.00 0.00 40.48 3.02
898 929 2.610479 CCGTACTTGCTTCTGCTTCTGA 60.610 50.000 0.00 0.00 40.48 3.27
899 930 3.257393 CGTACTTGCTTCTGCTTCTGAT 58.743 45.455 0.00 0.00 40.48 2.90
900 931 3.061831 CGTACTTGCTTCTGCTTCTGATG 59.938 47.826 0.00 0.00 40.48 3.07
901 932 2.434428 ACTTGCTTCTGCTTCTGATGG 58.566 47.619 0.00 0.00 40.48 3.51
902 933 2.039480 ACTTGCTTCTGCTTCTGATGGA 59.961 45.455 0.00 0.00 40.48 3.41
903 934 3.280295 CTTGCTTCTGCTTCTGATGGAT 58.720 45.455 0.00 0.00 40.48 3.41
904 935 4.080695 ACTTGCTTCTGCTTCTGATGGATA 60.081 41.667 0.00 0.00 40.48 2.59
905 936 4.492494 TGCTTCTGCTTCTGATGGATAA 57.508 40.909 0.00 0.00 40.48 1.75
906 937 4.847198 TGCTTCTGCTTCTGATGGATAAA 58.153 39.130 0.00 0.00 40.48 1.40
907 938 4.637534 TGCTTCTGCTTCTGATGGATAAAC 59.362 41.667 0.00 0.00 40.48 2.01
908 939 4.036144 GCTTCTGCTTCTGATGGATAAACC 59.964 45.833 0.00 0.00 36.24 3.27
909 940 4.156455 TCTGCTTCTGATGGATAAACCC 57.844 45.455 0.00 0.00 38.00 4.11
910 941 3.523157 TCTGCTTCTGATGGATAAACCCA 59.477 43.478 0.00 0.00 41.05 4.51
919 950 3.992943 TGGATAAACCCATCTTCGTGT 57.007 42.857 0.00 0.00 38.00 4.49
920 951 5.623956 ATGGATAAACCCATCTTCGTGTA 57.376 39.130 0.00 0.00 43.07 2.90
921 952 5.623956 TGGATAAACCCATCTTCGTGTAT 57.376 39.130 0.00 0.00 38.00 2.29
922 953 5.996644 TGGATAAACCCATCTTCGTGTATT 58.003 37.500 0.00 0.00 38.00 1.89
923 954 6.053005 TGGATAAACCCATCTTCGTGTATTC 58.947 40.000 0.00 0.00 38.00 1.75
924 955 6.053005 GGATAAACCCATCTTCGTGTATTCA 58.947 40.000 0.00 0.00 0.00 2.57
994 1069 0.521291 TCGGCGATTCAAGCAAAAGG 59.479 50.000 4.99 0.00 36.08 3.11
1008 1083 4.347607 AGCAAAAGGAAACCATGAGCTAT 58.652 39.130 0.00 0.00 0.00 2.97
1049 1124 1.602311 CCTCATACTGGGCTCATTGC 58.398 55.000 0.00 0.00 41.94 3.56
1064 1139 2.172505 TCATTGCGGACAGACCCATAAT 59.827 45.455 0.00 0.00 34.64 1.28
1098 1173 3.702045 AGACCTGCAGATTACTACCTGTC 59.298 47.826 17.39 9.70 33.19 3.51
1164 1239 5.784177 CTTGATAAGCATATCTACCCACGT 58.216 41.667 10.11 0.00 38.99 4.49
1277 1352 3.895232 ATTCCGTGTCTCTATGCTTGT 57.105 42.857 0.00 0.00 0.00 3.16
1326 1401 9.699410 TCTGAACCCATAAAATAGTCATGAATT 57.301 29.630 0.00 0.00 0.00 2.17
1397 1472 0.768221 ACCTTGCTCCACCTTCTCCA 60.768 55.000 0.00 0.00 0.00 3.86
1429 1504 3.589951 ATGGCATGCTCCTGAAACTAT 57.410 42.857 18.92 0.00 0.00 2.12
1442 1517 8.704234 GCTCCTGAAACTATGATATTTAACTCG 58.296 37.037 0.00 0.00 0.00 4.18
1474 1549 4.482386 GGTTGGTCGAAAGGCTATTTTTC 58.518 43.478 0.00 0.00 34.89 2.29
1489 1564 7.500559 AGGCTATTTTTCCTTGTGTCTGATATC 59.499 37.037 0.00 0.00 0.00 1.63
1625 1702 3.329520 TGGGTTTCTAGTTAGGTGCATGT 59.670 43.478 0.00 0.00 0.00 3.21
1649 1726 5.734720 TCTGGCTTGGTCATAGAAGTAAAG 58.265 41.667 0.00 0.00 0.00 1.85
1650 1727 4.843728 TGGCTTGGTCATAGAAGTAAAGG 58.156 43.478 0.00 0.00 0.00 3.11
1776 1853 0.390472 GTGTAGCAGGACAGTCAGCC 60.390 60.000 12.26 1.44 0.00 4.85
1796 1873 3.123050 CCTAACTTGTTTGTTGCCTTGC 58.877 45.455 0.00 0.00 0.00 4.01
1883 1960 5.542616 AGATGTGCTGAAAGAGAAATTCG 57.457 39.130 0.00 0.00 34.07 3.34
1942 2019 2.430367 GGAAACAGGCGTGGAGGT 59.570 61.111 11.67 0.00 0.00 3.85
2086 2163 8.463930 TGTGTTTATCCTTTCTTTCAGAATGT 57.536 30.769 0.00 0.00 33.67 2.71
2104 2181 7.222031 TCAGAATGTTATTTCGTTCCATCTACG 59.778 37.037 0.00 0.00 37.62 3.51
2245 2322 3.350219 AGAACAATAACCGTGCCATCT 57.650 42.857 0.00 0.00 0.00 2.90
2246 2323 4.481368 AGAACAATAACCGTGCCATCTA 57.519 40.909 0.00 0.00 0.00 1.98
2247 2324 4.189231 AGAACAATAACCGTGCCATCTAC 58.811 43.478 0.00 0.00 0.00 2.59
2248 2325 3.906720 ACAATAACCGTGCCATCTACT 57.093 42.857 0.00 0.00 0.00 2.57
2249 2326 3.793559 ACAATAACCGTGCCATCTACTC 58.206 45.455 0.00 0.00 0.00 2.59
2250 2327 3.131396 CAATAACCGTGCCATCTACTCC 58.869 50.000 0.00 0.00 0.00 3.85
2251 2328 1.117150 TAACCGTGCCATCTACTCCC 58.883 55.000 0.00 0.00 0.00 4.30
2252 2329 0.617820 AACCGTGCCATCTACTCCCT 60.618 55.000 0.00 0.00 0.00 4.20
2253 2330 1.043673 ACCGTGCCATCTACTCCCTC 61.044 60.000 0.00 0.00 0.00 4.30
2254 2331 1.742768 CGTGCCATCTACTCCCTCC 59.257 63.158 0.00 0.00 0.00 4.30
2255 2332 1.742768 GTGCCATCTACTCCCTCCG 59.257 63.158 0.00 0.00 0.00 4.63
2256 2333 1.043673 GTGCCATCTACTCCCTCCGT 61.044 60.000 0.00 0.00 0.00 4.69
2257 2334 0.325296 TGCCATCTACTCCCTCCGTT 60.325 55.000 0.00 0.00 0.00 4.44
2258 2335 0.389757 GCCATCTACTCCCTCCGTTC 59.610 60.000 0.00 0.00 0.00 3.95
2259 2336 0.669077 CCATCTACTCCCTCCGTTCG 59.331 60.000 0.00 0.00 0.00 3.95
2260 2337 0.669077 CATCTACTCCCTCCGTTCGG 59.331 60.000 4.74 4.74 0.00 4.30
2261 2338 0.549950 ATCTACTCCCTCCGTTCGGA 59.450 55.000 13.34 13.34 0.00 4.55
2262 2339 0.329261 TCTACTCCCTCCGTTCGGAA 59.671 55.000 14.79 0.04 33.41 4.30
2263 2340 1.064166 TCTACTCCCTCCGTTCGGAAT 60.064 52.381 14.79 2.09 33.41 3.01
2264 2341 1.755380 CTACTCCCTCCGTTCGGAATT 59.245 52.381 14.79 0.00 33.41 2.17
2265 2342 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
2266 2343 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
2267 2344 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
2268 2345 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
2269 2346 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
2270 2347 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
2271 2348 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
2272 2349 3.581755 CTCCGTTCGGAATTACTTGTCA 58.418 45.455 14.79 0.00 33.41 3.58
2273 2350 3.319755 TCCGTTCGGAATTACTTGTCAC 58.680 45.455 11.66 0.00 0.00 3.67
2274 2351 3.061322 CCGTTCGGAATTACTTGTCACA 58.939 45.455 5.19 0.00 0.00 3.58
2275 2352 3.495377 CCGTTCGGAATTACTTGTCACAA 59.505 43.478 5.19 0.00 0.00 3.33
2276 2353 4.024725 CCGTTCGGAATTACTTGTCACAAA 60.025 41.667 5.19 0.00 0.00 2.83
2277 2354 5.503498 CGTTCGGAATTACTTGTCACAAAA 58.497 37.500 0.00 0.00 0.00 2.44
2278 2355 5.966503 CGTTCGGAATTACTTGTCACAAAAA 59.033 36.000 0.00 0.00 0.00 1.94
2279 2356 6.635239 CGTTCGGAATTACTTGTCACAAAAAT 59.365 34.615 0.00 0.00 0.00 1.82
2280 2357 7.357206 CGTTCGGAATTACTTGTCACAAAAATG 60.357 37.037 0.00 0.00 0.00 2.32
2281 2358 6.442952 TCGGAATTACTTGTCACAAAAATGG 58.557 36.000 0.00 0.00 0.00 3.16
2282 2359 6.263392 TCGGAATTACTTGTCACAAAAATGGA 59.737 34.615 0.00 0.00 0.00 3.41
2283 2360 7.040062 TCGGAATTACTTGTCACAAAAATGGAT 60.040 33.333 0.00 0.00 0.00 3.41
2284 2361 7.062138 CGGAATTACTTGTCACAAAAATGGATG 59.938 37.037 0.00 0.00 0.00 3.51
2285 2362 7.872483 GGAATTACTTGTCACAAAAATGGATGT 59.128 33.333 0.00 0.00 0.00 3.06
2286 2363 9.906660 GAATTACTTGTCACAAAAATGGATGTA 57.093 29.630 0.00 0.00 0.00 2.29
2289 2366 7.765695 ACTTGTCACAAAAATGGATGTATCT 57.234 32.000 0.00 0.00 0.00 1.98
2290 2367 8.862325 ACTTGTCACAAAAATGGATGTATCTA 57.138 30.769 0.00 0.00 0.00 1.98
2291 2368 8.730680 ACTTGTCACAAAAATGGATGTATCTAC 58.269 33.333 0.00 0.00 0.00 2.59
2292 2369 8.628630 TTGTCACAAAAATGGATGTATCTACA 57.371 30.769 0.00 0.00 40.98 2.74
2293 2370 8.628630 TGTCACAAAAATGGATGTATCTACAA 57.371 30.769 0.00 0.00 39.99 2.41
2294 2371 8.511321 TGTCACAAAAATGGATGTATCTACAAC 58.489 33.333 0.00 0.00 39.99 3.32
2295 2372 8.730680 GTCACAAAAATGGATGTATCTACAACT 58.269 33.333 0.00 0.00 39.99 3.16
2296 2373 9.952030 TCACAAAAATGGATGTATCTACAACTA 57.048 29.630 0.00 0.00 39.99 2.24
2343 2420 4.735662 TTTGGACGAGTAATTCCAAACG 57.264 40.909 10.97 0.00 44.37 3.60
2344 2421 2.690786 TGGACGAGTAATTCCAAACGG 58.309 47.619 0.00 0.00 0.00 4.44
2345 2422 2.299582 TGGACGAGTAATTCCAAACGGA 59.700 45.455 0.00 0.00 0.00 4.69
2346 2423 2.928116 GGACGAGTAATTCCAAACGGAG 59.072 50.000 0.00 0.00 32.88 4.63
2347 2424 2.928116 GACGAGTAATTCCAAACGGAGG 59.072 50.000 0.00 0.00 32.88 4.30
2348 2425 2.277084 CGAGTAATTCCAAACGGAGGG 58.723 52.381 0.00 0.00 32.88 4.30
2349 2426 2.093869 CGAGTAATTCCAAACGGAGGGA 60.094 50.000 0.00 0.00 32.88 4.20
2350 2427 3.532542 GAGTAATTCCAAACGGAGGGAG 58.467 50.000 0.00 0.00 34.02 4.30
2360 2437 4.258543 CAAACGGAGGGAGTAGCATTTTA 58.741 43.478 0.00 0.00 0.00 1.52
2430 2508 9.996554 TTCTCTGAGTATGTTTTAGTCATCAAA 57.003 29.630 4.32 0.00 0.00 2.69
2435 2513 7.172532 TGAGTATGTTTTAGTCATCAAACGCTT 59.827 33.333 0.00 0.00 35.93 4.68
2455 2533 7.960793 ACGCTTTATGTTGACAGATAGTTTAC 58.039 34.615 0.00 0.00 0.00 2.01
2510 2588 7.725251 TGAAAGATTTTAGTTCATTGCCAGTT 58.275 30.769 0.00 0.00 0.00 3.16
2581 2659 4.500035 GCTTGGTTCGGGTTGTAATGAAAA 60.500 41.667 0.00 0.00 0.00 2.29
2662 2740 1.953686 GCTGGTTGCTTACTTGGTTCA 59.046 47.619 0.00 0.00 38.95 3.18
2826 2904 8.094548 TCTCATAGTTGTGTATTTGTGCTTAGT 58.905 33.333 0.00 0.00 0.00 2.24
2833 2911 7.744087 TGTGTATTTGTGCTTAGTTTGATCT 57.256 32.000 0.00 0.00 0.00 2.75
2967 3045 5.793030 ACACTAGATATCTGGTTACTGGC 57.207 43.478 18.29 0.00 35.39 4.85
3269 3347 2.870119 TTGCTTGGCTGGCGCAAAT 61.870 52.632 10.83 0.00 40.33 2.32
3301 3379 1.139498 TGGAGTTTCCTGATGGGGCA 61.139 55.000 0.00 0.00 37.46 5.36
3302 3380 0.394899 GGAGTTTCCTGATGGGGCAG 60.395 60.000 0.00 0.00 32.53 4.85
3330 3408 4.033019 GTGTTGTTCTTTGTTCGTTAGCC 58.967 43.478 0.00 0.00 0.00 3.93
3457 3535 4.040829 TGCTAATCAGATGTAGGTCATGGG 59.959 45.833 0.00 0.00 36.83 4.00
3483 3561 1.545582 ACCTGTTTTGCAATGGATCGG 59.454 47.619 0.00 0.00 0.00 4.18
3513 3591 5.841957 AAAGCCATATGAGAACCAATGTC 57.158 39.130 3.65 0.00 0.00 3.06
3532 3610 8.344831 CCAATGTCGCTAAATTGAAGATTGATA 58.655 33.333 2.73 0.00 36.13 2.15
3550 3628 5.692115 TGATATAAGCACTTGGTCCTTGA 57.308 39.130 0.00 0.00 0.00 3.02
3618 3696 8.571336 ACAAGAAAAGAACATGGAAGATTAGTG 58.429 33.333 0.00 0.00 0.00 2.74
3647 3726 6.932947 TGTGCAATGAATATCATGAACCAAA 58.067 32.000 0.00 0.00 37.15 3.28
3649 3728 7.093858 TGTGCAATGAATATCATGAACCAAAGA 60.094 33.333 0.00 0.00 37.15 2.52
3650 3729 7.760794 GTGCAATGAATATCATGAACCAAAGAA 59.239 33.333 0.00 0.00 37.15 2.52
3651 3730 8.312564 TGCAATGAATATCATGAACCAAAGAAA 58.687 29.630 0.00 0.00 37.15 2.52
3652 3731 9.153721 GCAATGAATATCATGAACCAAAGAAAA 57.846 29.630 0.00 0.00 37.15 2.29
3655 3734 8.706492 TGAATATCATGAACCAAAGAAAATGC 57.294 30.769 0.00 0.00 0.00 3.56
3684 3791 5.242069 TCTGCTCTTCTATCTGTTTCTCG 57.758 43.478 0.00 0.00 0.00 4.04
3741 3848 1.026182 GGGATGCGATGCTGTCAACA 61.026 55.000 0.00 0.00 0.00 3.33
3763 3870 1.686355 TGTGTGTGGGTGTCCATTTC 58.314 50.000 0.00 0.00 46.09 2.17
3764 3871 0.591170 GTGTGTGGGTGTCCATTTCG 59.409 55.000 0.00 0.00 46.09 3.46
3765 3872 0.470341 TGTGTGGGTGTCCATTTCGA 59.530 50.000 0.00 0.00 46.09 3.71
3766 3873 1.134068 TGTGTGGGTGTCCATTTCGAA 60.134 47.619 0.00 0.00 46.09 3.71
3825 3944 1.299541 GGTGGCGTGGAATGTGATAG 58.700 55.000 0.00 0.00 0.00 2.08
3826 3945 1.406887 GGTGGCGTGGAATGTGATAGT 60.407 52.381 0.00 0.00 0.00 2.12
3827 3946 1.933853 GTGGCGTGGAATGTGATAGTC 59.066 52.381 0.00 0.00 0.00 2.59
3828 3947 1.134521 TGGCGTGGAATGTGATAGTCC 60.135 52.381 0.00 0.00 43.83 3.85
3903 4022 1.065564 GCAGATCAAAGCTCTCAGGGT 60.066 52.381 0.00 0.00 0.00 4.34
3995 5793 6.200286 GTGATCGTTTACTTCTTTCTGTGTCA 59.800 38.462 0.00 0.00 0.00 3.58
4014 5812 0.250901 ATGTGGCGGCACTTCTCTTT 60.251 50.000 37.33 14.25 0.00 2.52
4154 5990 4.697352 GGTCATTCTTGTGCAATACTCTGT 59.303 41.667 0.00 0.00 0.00 3.41
4170 6006 4.188462 ACTCTGTCTCGAGTCTCACATAG 58.812 47.826 13.13 12.95 40.04 2.23
4171 6007 4.188462 CTCTGTCTCGAGTCTCACATAGT 58.812 47.826 13.13 0.00 0.00 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
223 224 1.342819 CCTATGAAAGAGAGAGGCCCG 59.657 57.143 0.00 0.00 0.00 6.13
254 255 0.320946 CCAAGAAGGAAACGGGCGTA 60.321 55.000 0.00 0.00 41.22 4.42
284 285 4.277476 AGAGAGAGAGACCCAATACAGTG 58.723 47.826 0.00 0.00 0.00 3.66
285 286 4.601406 AGAGAGAGAGACCCAATACAGT 57.399 45.455 0.00 0.00 0.00 3.55
305 306 9.685005 GAAACAACACGTGCTTAGTATATAAAG 57.315 33.333 17.22 0.00 0.00 1.85
307 308 8.760103 TGAAACAACACGTGCTTAGTATATAA 57.240 30.769 17.22 0.00 0.00 0.98
312 313 5.051153 TGATGAAACAACACGTGCTTAGTA 58.949 37.500 17.22 0.00 0.00 1.82
313 314 3.874543 TGATGAAACAACACGTGCTTAGT 59.125 39.130 17.22 6.20 0.00 2.24
315 316 5.008118 TCAATGATGAAACAACACGTGCTTA 59.992 36.000 17.22 0.00 30.99 3.09
316 317 3.988379 ATGATGAAACAACACGTGCTT 57.012 38.095 17.22 6.51 0.00 3.91
317 318 3.314913 TCAATGATGAAACAACACGTGCT 59.685 39.130 17.22 0.00 30.99 4.40
318 319 3.421888 GTCAATGATGAAACAACACGTGC 59.578 43.478 17.22 0.00 37.30 5.34
319 320 4.847633 AGTCAATGATGAAACAACACGTG 58.152 39.130 15.48 15.48 37.30 4.49
320 321 4.816385 AGAGTCAATGATGAAACAACACGT 59.184 37.500 0.00 0.00 37.30 4.49
321 322 5.348418 AGAGTCAATGATGAAACAACACG 57.652 39.130 0.00 0.00 37.30 4.49
322 323 6.963796 AGAAGAGTCAATGATGAAACAACAC 58.036 36.000 0.00 0.00 37.30 3.32
323 324 6.994496 AGAGAAGAGTCAATGATGAAACAACA 59.006 34.615 0.00 0.00 37.30 3.33
324 325 7.432350 AGAGAAGAGTCAATGATGAAACAAC 57.568 36.000 0.00 0.00 37.30 3.32
325 326 7.935755 AGAAGAGAAGAGTCAATGATGAAACAA 59.064 33.333 0.00 0.00 37.30 2.83
340 341 4.825085 ACGCTCCCTATAAGAAGAGAAGAG 59.175 45.833 0.00 0.00 0.00 2.85
392 393 1.911766 GAGTCCGGTCTGGGGAACA 60.912 63.158 5.76 0.00 38.76 3.18
402 403 3.782656 ACAAAAATAGGTGAGTCCGGT 57.217 42.857 0.00 0.00 41.99 5.28
489 493 1.810030 CCGCCTCGCTTCCTTACAC 60.810 63.158 0.00 0.00 0.00 2.90
495 499 3.145551 TAGTCCCGCCTCGCTTCC 61.146 66.667 0.00 0.00 0.00 3.46
505 509 7.276218 TGTTTCGTTTGATAATTAGTAGTCCCG 59.724 37.037 0.00 0.00 0.00 5.14
529 533 2.545952 CGGTTGTGCTCTAACAGACTGT 60.546 50.000 1.07 1.07 0.00 3.55
540 544 1.941812 CCAGTTGTCGGTTGTGCTC 59.058 57.895 0.00 0.00 0.00 4.26
633 639 3.007074 TGCTTCGGGCCAATTCGTATATA 59.993 43.478 4.39 0.00 40.92 0.86
697 703 4.557301 CCGCAATACCAAGAAAAACGATTC 59.443 41.667 0.00 0.00 0.00 2.52
747 753 5.295787 TCTGTCACGCACTTTCTTACAAAAT 59.704 36.000 0.00 0.00 0.00 1.82
782 788 6.263617 TGGAAACATATTAATAAAGGGCGGTC 59.736 38.462 0.00 0.00 33.40 4.79
864 895 6.422776 AGCAAGTACGGAACAATAAATGAG 57.577 37.500 0.00 0.00 0.00 2.90
881 912 2.039480 TCCATCAGAAGCAGAAGCAAGT 59.961 45.455 0.00 0.00 45.49 3.16
882 913 2.708051 TCCATCAGAAGCAGAAGCAAG 58.292 47.619 0.00 0.00 45.49 4.01
883 914 2.865119 TCCATCAGAAGCAGAAGCAA 57.135 45.000 0.00 0.00 45.49 3.91
884 915 4.492494 TTATCCATCAGAAGCAGAAGCA 57.508 40.909 0.00 0.00 45.49 3.91
885 916 4.036144 GGTTTATCCATCAGAAGCAGAAGC 59.964 45.833 0.00 0.00 37.29 3.86
886 917 4.578105 GGGTTTATCCATCAGAAGCAGAAG 59.422 45.833 0.00 0.00 38.11 2.85
887 918 4.018506 TGGGTTTATCCATCAGAAGCAGAA 60.019 41.667 0.00 0.00 38.11 3.02
888 919 3.523157 TGGGTTTATCCATCAGAAGCAGA 59.477 43.478 0.00 0.00 38.11 4.26
889 920 3.889815 TGGGTTTATCCATCAGAAGCAG 58.110 45.455 0.00 0.00 38.11 4.24
890 921 4.524802 ATGGGTTTATCCATCAGAAGCA 57.475 40.909 0.00 0.00 43.57 3.91
899 930 3.992943 ACACGAAGATGGGTTTATCCA 57.007 42.857 0.00 0.00 41.60 3.41
900 931 6.053005 TGAATACACGAAGATGGGTTTATCC 58.947 40.000 0.00 0.00 0.00 2.59
901 932 7.494625 TCTTGAATACACGAAGATGGGTTTATC 59.505 37.037 0.00 0.00 0.00 1.75
902 933 7.335627 TCTTGAATACACGAAGATGGGTTTAT 58.664 34.615 0.00 0.00 0.00 1.40
903 934 6.703319 TCTTGAATACACGAAGATGGGTTTA 58.297 36.000 0.00 0.00 0.00 2.01
904 935 5.556915 TCTTGAATACACGAAGATGGGTTT 58.443 37.500 0.00 0.00 0.00 3.27
905 936 5.160607 TCTTGAATACACGAAGATGGGTT 57.839 39.130 0.00 0.00 0.00 4.11
906 937 4.819105 TCTTGAATACACGAAGATGGGT 57.181 40.909 0.00 0.00 0.00 4.51
907 938 6.494893 TTTTCTTGAATACACGAAGATGGG 57.505 37.500 0.00 0.00 36.08 4.00
908 939 8.454106 AGATTTTTCTTGAATACACGAAGATGG 58.546 33.333 0.00 0.00 36.08 3.51
909 940 9.483062 GAGATTTTTCTTGAATACACGAAGATG 57.517 33.333 0.00 0.00 36.08 2.90
910 941 9.219603 TGAGATTTTTCTTGAATACACGAAGAT 57.780 29.630 0.00 0.00 36.08 2.40
911 942 8.601845 TGAGATTTTTCTTGAATACACGAAGA 57.398 30.769 0.00 0.00 36.08 2.87
912 943 9.270576 CATGAGATTTTTCTTGAATACACGAAG 57.729 33.333 0.00 0.00 36.08 3.79
913 944 7.750458 GCATGAGATTTTTCTTGAATACACGAA 59.250 33.333 0.00 0.00 33.56 3.85
914 945 7.119699 AGCATGAGATTTTTCTTGAATACACGA 59.880 33.333 0.00 0.00 0.00 4.35
915 946 7.217636 CAGCATGAGATTTTTCTTGAATACACG 59.782 37.037 0.00 0.00 39.69 4.49
916 947 8.025445 ACAGCATGAGATTTTTCTTGAATACAC 58.975 33.333 0.00 0.00 39.69 2.90
917 948 8.114331 ACAGCATGAGATTTTTCTTGAATACA 57.886 30.769 0.00 0.00 39.69 2.29
918 949 8.457261 AGACAGCATGAGATTTTTCTTGAATAC 58.543 33.333 0.00 0.00 39.69 1.89
919 950 8.571461 AGACAGCATGAGATTTTTCTTGAATA 57.429 30.769 0.00 0.00 39.69 1.75
920 951 7.463961 AGACAGCATGAGATTTTTCTTGAAT 57.536 32.000 0.00 0.00 39.69 2.57
921 952 6.889301 AGACAGCATGAGATTTTTCTTGAA 57.111 33.333 0.00 0.00 39.69 2.69
922 953 9.671279 TTATAGACAGCATGAGATTTTTCTTGA 57.329 29.630 0.00 0.00 39.69 3.02
994 1069 4.400567 AGCTTGGAAATAGCTCATGGTTTC 59.599 41.667 0.00 0.00 45.52 2.78
1008 1083 3.552684 GCTTGCATGTTGTAGCTTGGAAA 60.553 43.478 0.00 0.00 0.00 3.13
1023 1098 0.466922 GCCCAGTATGAGGCTTGCAT 60.467 55.000 0.00 0.00 45.32 3.96
1164 1239 2.549754 GCTAGCAGCAACAAGAACAAGA 59.450 45.455 10.63 0.00 41.89 3.02
1233 1308 5.723492 TGCTTACATCATTGTCAATCTCG 57.277 39.130 0.00 0.00 37.28 4.04
1277 1352 5.693961 ACACATACTCCCATCATGCATAAA 58.306 37.500 0.00 0.00 0.00 1.40
1326 1401 7.226720 AGTTCGCTTTGAGAAAAGAACAATAGA 59.773 33.333 14.28 0.00 38.98 1.98
1429 1504 7.788026 ACCCAGATTACACGAGTTAAATATCA 58.212 34.615 0.00 0.00 0.00 2.15
1442 1517 2.754946 TCGACCAACCCAGATTACAC 57.245 50.000 0.00 0.00 0.00 2.90
1451 1526 2.124277 AATAGCCTTTCGACCAACCC 57.876 50.000 0.00 0.00 0.00 4.11
1474 1549 5.850557 ACAGAGAGATATCAGACACAAGG 57.149 43.478 5.32 0.00 0.00 3.61
1613 1690 1.826385 AGCCAGAACATGCACCTAAC 58.174 50.000 0.00 0.00 0.00 2.34
1625 1702 5.755409 TTACTTCTATGACCAAGCCAGAA 57.245 39.130 0.00 0.00 0.00 3.02
1649 1726 0.254747 TGTGCCCCATACAGCTAACC 59.745 55.000 0.00 0.00 0.00 2.85
1650 1727 2.017049 CTTGTGCCCCATACAGCTAAC 58.983 52.381 0.00 0.00 0.00 2.34
1761 1838 0.610687 GTTAGGCTGACTGTCCTGCT 59.389 55.000 17.83 9.76 34.02 4.24
1773 1850 2.666317 AGGCAACAAACAAGTTAGGCT 58.334 42.857 0.00 0.00 41.41 4.58
1776 1853 4.045636 AGCAAGGCAACAAACAAGTTAG 57.954 40.909 0.00 0.00 41.41 2.34
1796 1873 6.064060 TCAAATGATCCATAAAGGGCTGTAG 58.936 40.000 0.00 0.00 38.24 2.74
1856 1933 7.750229 ATTTCTCTTTCAGCACATCTTGTAA 57.250 32.000 0.00 0.00 0.00 2.41
1883 1960 0.520847 GCTTGTTCTCTCAGCTTGGC 59.479 55.000 0.00 0.00 0.00 4.52
1942 2019 1.001887 GCCACCGGAACCACCATTA 60.002 57.895 9.46 0.00 38.90 1.90
2051 2128 8.293699 AGAAAGGATAAACACAACAAGAAAGT 57.706 30.769 0.00 0.00 0.00 2.66
2086 2163 4.365723 GAGCCGTAGATGGAACGAAATAA 58.634 43.478 0.00 0.00 42.90 1.40
2093 2170 1.112113 TCAGGAGCCGTAGATGGAAC 58.888 55.000 0.00 0.00 0.00 3.62
2104 2181 5.122396 CACTACAGTTTACAAATCAGGAGCC 59.878 44.000 0.00 0.00 0.00 4.70
2227 2304 4.189231 GAGTAGATGGCACGGTTATTGTT 58.811 43.478 0.00 0.00 0.00 2.83
2245 2322 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
2246 2323 1.479730 GTAATTCCGAACGGAGGGAGT 59.520 52.381 15.34 4.12 46.06 3.85
2247 2324 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
2248 2325 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
2249 2326 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
2250 2327 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
2251 2328 3.367025 GTGACAAGTAATTCCGAACGGAG 59.633 47.826 15.34 5.60 46.06 4.63
2252 2329 3.243805 TGTGACAAGTAATTCCGAACGGA 60.244 43.478 12.04 12.04 43.52 4.69
2253 2330 3.061322 TGTGACAAGTAATTCCGAACGG 58.939 45.455 6.94 6.94 0.00 4.44
2254 2331 4.718858 TTGTGACAAGTAATTCCGAACG 57.281 40.909 0.00 0.00 0.00 3.95
2255 2332 7.096230 CCATTTTTGTGACAAGTAATTCCGAAC 60.096 37.037 0.00 0.00 0.00 3.95
2256 2333 6.920758 CCATTTTTGTGACAAGTAATTCCGAA 59.079 34.615 0.00 0.00 0.00 4.30
2257 2334 6.263392 TCCATTTTTGTGACAAGTAATTCCGA 59.737 34.615 0.00 0.00 0.00 4.55
2258 2335 6.442952 TCCATTTTTGTGACAAGTAATTCCG 58.557 36.000 0.00 0.00 0.00 4.30
2259 2336 7.872483 ACATCCATTTTTGTGACAAGTAATTCC 59.128 33.333 0.00 0.00 0.00 3.01
2260 2337 8.816640 ACATCCATTTTTGTGACAAGTAATTC 57.183 30.769 0.00 0.00 0.00 2.17
2263 2340 9.295825 AGATACATCCATTTTTGTGACAAGTAA 57.704 29.630 0.00 0.00 0.00 2.24
2264 2341 8.862325 AGATACATCCATTTTTGTGACAAGTA 57.138 30.769 0.00 0.00 0.00 2.24
2265 2342 7.765695 AGATACATCCATTTTTGTGACAAGT 57.234 32.000 0.00 0.00 0.00 3.16
2266 2343 8.729756 TGTAGATACATCCATTTTTGTGACAAG 58.270 33.333 0.00 0.00 0.00 3.16
2267 2344 8.628630 TGTAGATACATCCATTTTTGTGACAA 57.371 30.769 0.00 0.00 0.00 3.18
2268 2345 8.511321 GTTGTAGATACATCCATTTTTGTGACA 58.489 33.333 0.00 0.00 35.89 3.58
2269 2346 8.730680 AGTTGTAGATACATCCATTTTTGTGAC 58.269 33.333 0.00 0.00 35.89 3.67
2270 2347 8.862325 AGTTGTAGATACATCCATTTTTGTGA 57.138 30.769 0.00 0.00 35.89 3.58
2324 2401 2.299582 TCCGTTTGGAATTACTCGTCCA 59.700 45.455 0.00 0.00 42.85 4.02
2325 2402 2.928116 CTCCGTTTGGAATTACTCGTCC 59.072 50.000 0.00 0.00 45.87 4.79
2326 2403 2.928116 CCTCCGTTTGGAATTACTCGTC 59.072 50.000 0.00 0.00 45.87 4.20
2327 2404 2.354403 CCCTCCGTTTGGAATTACTCGT 60.354 50.000 0.00 0.00 45.87 4.18
2328 2405 2.093869 TCCCTCCGTTTGGAATTACTCG 60.094 50.000 0.00 0.00 45.87 4.18
2329 2406 3.055312 ACTCCCTCCGTTTGGAATTACTC 60.055 47.826 0.00 0.00 45.87 2.59
2330 2407 2.910977 ACTCCCTCCGTTTGGAATTACT 59.089 45.455 0.00 0.00 45.87 2.24
2331 2408 3.345508 ACTCCCTCCGTTTGGAATTAC 57.654 47.619 0.00 0.00 45.87 1.89
2332 2409 3.118519 GCTACTCCCTCCGTTTGGAATTA 60.119 47.826 0.00 0.00 45.87 1.40
2333 2410 2.355818 GCTACTCCCTCCGTTTGGAATT 60.356 50.000 0.00 0.00 45.87 2.17
2334 2411 1.209747 GCTACTCCCTCCGTTTGGAAT 59.790 52.381 0.00 0.00 45.87 3.01
2335 2412 0.611714 GCTACTCCCTCCGTTTGGAA 59.388 55.000 0.00 0.00 45.87 3.53
2336 2413 0.543410 TGCTACTCCCTCCGTTTGGA 60.543 55.000 0.00 0.00 43.88 3.53
2337 2414 0.541863 ATGCTACTCCCTCCGTTTGG 59.458 55.000 0.00 0.00 0.00 3.28
2338 2415 2.403252 AATGCTACTCCCTCCGTTTG 57.597 50.000 0.00 0.00 0.00 2.93
2339 2416 3.434940 AAAATGCTACTCCCTCCGTTT 57.565 42.857 0.00 0.00 0.00 3.60
2340 2417 3.518303 AGTAAAATGCTACTCCCTCCGTT 59.482 43.478 0.00 0.00 0.00 4.44
2341 2418 3.105283 AGTAAAATGCTACTCCCTCCGT 58.895 45.455 0.00 0.00 0.00 4.69
2342 2419 3.821421 AGTAAAATGCTACTCCCTCCG 57.179 47.619 0.00 0.00 0.00 4.63
2343 2420 4.636206 CACAAGTAAAATGCTACTCCCTCC 59.364 45.833 0.00 0.00 30.67 4.30
2344 2421 5.488341 TCACAAGTAAAATGCTACTCCCTC 58.512 41.667 0.00 0.00 30.67 4.30
2345 2422 5.499004 TCACAAGTAAAATGCTACTCCCT 57.501 39.130 0.00 0.00 30.67 4.20
2346 2423 6.759497 AATCACAAGTAAAATGCTACTCCC 57.241 37.500 0.00 0.00 30.67 4.30
2347 2424 8.718102 TCTAATCACAAGTAAAATGCTACTCC 57.282 34.615 0.00 0.00 30.67 3.85
2348 2425 9.974750 GTTCTAATCACAAGTAAAATGCTACTC 57.025 33.333 0.00 0.00 30.67 2.59
2349 2426 8.947115 GGTTCTAATCACAAGTAAAATGCTACT 58.053 33.333 0.00 0.00 33.41 2.57
2350 2427 8.726988 TGGTTCTAATCACAAGTAAAATGCTAC 58.273 33.333 0.00 0.00 0.00 3.58
2360 2437 3.935203 CGATGCTGGTTCTAATCACAAGT 59.065 43.478 0.00 0.00 0.00 3.16
2430 2508 7.817962 AGTAAACTATCTGTCAACATAAAGCGT 59.182 33.333 0.00 0.00 0.00 5.07
2435 2513 7.549134 CCAGCAGTAAACTATCTGTCAACATAA 59.451 37.037 9.36 0.00 34.57 1.90
2552 2630 2.978010 CCCGAACCAAGCAAGCGT 60.978 61.111 0.00 0.00 0.00 5.07
2662 2740 6.959639 ACACACAATCTTTCAATACAACCT 57.040 33.333 0.00 0.00 0.00 3.50
2696 2774 4.760878 TCATAAGCACATGGTACGCTTTA 58.239 39.130 15.88 6.30 43.23 1.85
2697 2775 3.605634 TCATAAGCACATGGTACGCTTT 58.394 40.909 15.88 5.36 43.23 3.51
2699 2777 2.979814 TCATAAGCACATGGTACGCT 57.020 45.000 0.00 0.00 37.68 5.07
2826 2904 8.015087 CACGAGTGCTTAATGTTAAAGATCAAA 58.985 33.333 0.00 0.00 0.00 2.69
2833 2911 6.854496 AAGTCACGAGTGCTTAATGTTAAA 57.146 33.333 9.83 0.00 0.00 1.52
3269 3347 5.476599 CAGGAAACTCCATCCATGTAAAACA 59.523 40.000 0.00 0.00 39.61 2.83
3301 3379 4.273480 CGAACAAAGAACAACACCATCTCT 59.727 41.667 0.00 0.00 0.00 3.10
3302 3380 4.035208 ACGAACAAAGAACAACACCATCTC 59.965 41.667 0.00 0.00 0.00 2.75
3330 3408 5.991606 TGACAAACCAGAGACAGAAATACAG 59.008 40.000 0.00 0.00 0.00 2.74
3457 3535 2.472816 CATTGCAAAACAGGTGACCAC 58.527 47.619 1.71 0.00 0.00 4.16
3467 3545 3.244976 CAGTTCCGATCCATTGCAAAAC 58.755 45.455 1.71 0.22 0.00 2.43
3474 3552 3.694566 GGCTTTTACAGTTCCGATCCATT 59.305 43.478 0.00 0.00 0.00 3.16
3483 3561 6.374333 TGGTTCTCATATGGCTTTTACAGTTC 59.626 38.462 2.13 0.00 0.00 3.01
3513 3591 9.322776 GTGCTTATATCAATCTTCAATTTAGCG 57.677 33.333 0.00 0.00 0.00 4.26
3532 3610 4.666512 ACATTCAAGGACCAAGTGCTTAT 58.333 39.130 0.98 0.00 42.02 1.73
3618 3696 4.037089 TCATGATATTCATTGCACAGTGGC 59.963 41.667 1.84 0.00 34.28 5.01
3647 3726 4.279145 AGAGCAGATGGAATGCATTTTCT 58.721 39.130 14.33 13.03 46.31 2.52
3649 3728 4.710375 AGAAGAGCAGATGGAATGCATTTT 59.290 37.500 14.33 1.65 46.31 1.82
3650 3729 4.279145 AGAAGAGCAGATGGAATGCATTT 58.721 39.130 14.33 0.00 46.31 2.32
3651 3730 3.899726 AGAAGAGCAGATGGAATGCATT 58.100 40.909 12.83 12.83 46.31 3.56
3652 3731 3.579534 AGAAGAGCAGATGGAATGCAT 57.420 42.857 0.00 0.00 46.31 3.96
3653 3732 4.347292 AGATAGAAGAGCAGATGGAATGCA 59.653 41.667 0.00 0.00 46.31 3.96
3654 3733 4.691685 CAGATAGAAGAGCAGATGGAATGC 59.308 45.833 0.00 0.00 44.18 3.56
3655 3734 5.856156 ACAGATAGAAGAGCAGATGGAATG 58.144 41.667 0.00 0.00 0.00 2.67
3741 3848 2.380064 ATGGACACCCACACACATTT 57.620 45.000 0.00 0.00 46.98 2.32
3773 3880 1.404748 TCGACGACACCAACACACTTA 59.595 47.619 0.00 0.00 0.00 2.24
3778 3885 1.455786 CAAGATCGACGACACCAACAC 59.544 52.381 0.00 0.00 0.00 3.32
3782 3890 0.109272 GAGCAAGATCGACGACACCA 60.109 55.000 0.00 0.00 0.00 4.17
3825 3944 1.098050 GGCAATGACCATGACTGGAC 58.902 55.000 0.00 0.00 46.37 4.02
3826 3945 0.697658 TGGCAATGACCATGACTGGA 59.302 50.000 0.00 0.00 46.37 3.86
3834 3953 2.992273 GCGTGCATGGCAATGACCA 61.992 57.895 4.87 0.00 45.82 4.02
3835 3954 2.202650 GCGTGCATGGCAATGACC 60.203 61.111 4.87 0.00 41.47 4.02
3903 4022 7.038154 AGTTTGCAAAACTAGATAAAGCACA 57.962 32.000 14.67 0.00 0.00 4.57
3995 5793 0.250901 AAAGAGAAGTGCCGCCACAT 60.251 50.000 0.00 0.00 44.53 3.21


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

AutoCloner maintained by Alex Coulton.