Multiple sequence alignment - TraesCS1A01G061300

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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 TraesCS1A01G061300 chr1A 100.000 2502 0 0 1 2502 41914709 41917210 0.000000e+00 4621
1 TraesCS1A01G061300 chr1A 82.285 604 62 16 926 1504 41900906 41901489 4.840000e-132 481
2 TraesCS1A01G061300 chr1A 80.296 609 83 27 18 608 41898267 41898856 2.300000e-115 425
3 TraesCS1A01G061300 chr1A 77.917 240 36 6 1003 1239 41910193 41910418 1.560000e-27 134
4 TraesCS1A01G061300 chr1D 90.792 1553 76 11 3 1510 41886554 41888084 0.000000e+00 2013
5 TraesCS1A01G061300 chr1D 90.948 464 28 12 1790 2250 41891724 41892176 1.650000e-171 612
6 TraesCS1A01G061300 chr1D 82.679 560 60 21 722 1263 41860866 41861406 1.750000e-126 462
7 TraesCS1A01G061300 chr1D 89.964 279 23 4 1525 1803 41888131 41888404 3.060000e-94 355
8 TraesCS1A01G061300 chr1D 84.926 272 26 7 1244 1504 41861419 41861686 6.860000e-66 261
9 TraesCS1A01G061300 chr1D 87.500 128 10 1 739 866 41856123 41856244 2.590000e-30 143
10 TraesCS1A01G061300 chr1D 91.566 83 7 0 602 684 41855900 41855982 5.660000e-22 115
11 TraesCS1A01G061300 chr1B 87.539 1589 114 39 685 2251 62245775 62247301 0.000000e+00 1760
12 TraesCS1A01G061300 chr1B 84.187 683 86 11 1 681 62034258 62034920 0.000000e+00 643
13 TraesCS1A01G061300 chr1B 84.565 609 55 14 926 1510 62000407 62001000 3.610000e-158 568
14 TraesCS1A01G061300 chr1B 80.790 734 87 31 789 1506 62056945 62057640 2.200000e-145 525
15 TraesCS1A01G061300 chr1B 91.912 272 14 1 415 686 62244335 62244598 8.450000e-100 374
16 TraesCS1A01G061300 chr1B 79.389 262 38 8 992 1251 62022727 62022974 1.190000e-38 171
17 TraesCS1A01G061300 chr1B 86.614 127 15 1 301 427 62242898 62243022 3.360000e-29 139
18 TraesCS1A01G061300 chr1B 94.872 78 4 0 602 679 62000073 62000150 3.380000e-24 122
19 TraesCS1A01G061300 chr6D 77.228 202 41 4 234 432 455396195 455396394 2.030000e-21 113


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 TraesCS1A01G061300 chr1A 41914709 41917210 2501 False 4621.000000 4621 100.000000 1 2502 1 chr1A.!!$F2 2501
1 TraesCS1A01G061300 chr1A 41898267 41901489 3222 False 453.000000 481 81.290500 18 1504 2 chr1A.!!$F3 1486
2 TraesCS1A01G061300 chr1D 41886554 41892176 5622 False 993.333333 2013 90.568000 3 2250 3 chr1D.!!$F3 2247
3 TraesCS1A01G061300 chr1D 41860866 41861686 820 False 361.500000 462 83.802500 722 1504 2 chr1D.!!$F2 782
4 TraesCS1A01G061300 chr1B 62242898 62247301 4403 False 757.666667 1760 88.688333 301 2251 3 chr1B.!!$F5 1950
5 TraesCS1A01G061300 chr1B 62034258 62034920 662 False 643.000000 643 84.187000 1 681 1 chr1B.!!$F2 680
6 TraesCS1A01G061300 chr1B 62056945 62057640 695 False 525.000000 525 80.790000 789 1506 1 chr1B.!!$F3 717
7 TraesCS1A01G061300 chr1B 62000073 62001000 927 False 345.000000 568 89.718500 602 1510 2 chr1B.!!$F4 908

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
870 3487 0.324645 AGCCCCTAAAACCATGCTGG 60.325 55.0 1.16 1.16 45.02 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2424 10202 0.121402 AAGGAGGGGCTAGGGAAAGT 59.879 55.0 0.0 0.0 0.0 2.66 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
204 209 7.381678 GGTAATATGGAGAGTAAGTAAACGCAG 59.618 40.741 0.00 0.00 0.00 5.18
209 214 4.321824 GGAGAGTAAGTAAACGCAGAGGTT 60.322 45.833 0.00 0.00 0.00 3.50
363 371 3.417069 ACATCGATTGGTTGACAGGAA 57.583 42.857 0.00 0.00 0.00 3.36
438 1771 2.289547 TGCCTACTTTCGTGTTTGAAGC 59.710 45.455 0.00 0.00 0.00 3.86
453 1786 2.380660 TGAAGCGTGAAAATTTGCGTC 58.619 42.857 7.06 7.06 36.56 5.19
531 1866 8.922058 ACTGAAGCATTGTAATTCAAATGATC 57.078 30.769 14.23 11.70 39.62 2.92
532 1867 8.525316 ACTGAAGCATTGTAATTCAAATGATCA 58.475 29.630 14.23 0.00 39.62 2.92
533 1868 9.361315 CTGAAGCATTGTAATTCAAATGATCAA 57.639 29.630 14.23 3.07 39.62 2.57
534 1869 9.708092 TGAAGCATTGTAATTCAAATGATCAAA 57.292 25.926 14.23 0.00 39.62 2.69
639 2010 2.553079 TTTGTTTGACGGTTGAGTGC 57.447 45.000 0.00 0.00 0.00 4.40
732 3321 2.245159 TATGATGTACTGCTGCTGCC 57.755 50.000 13.47 0.00 38.71 4.85
737 3329 2.438975 TACTGCTGCTGCCCATGC 60.439 61.111 13.47 0.00 38.71 4.06
749 3341 0.383231 GCCCATGCATCTGTAACAGC 59.617 55.000 0.00 0.00 37.47 4.40
779 3394 3.374402 ACCGCGTGAGAGTGAGGG 61.374 66.667 4.92 0.00 0.00 4.30
786 3401 1.204146 GTGAGAGTGAGGGGGCATAA 58.796 55.000 0.00 0.00 0.00 1.90
807 3423 2.992817 ACCGTGATGGGGCTTTTGCA 62.993 55.000 0.00 0.00 44.69 4.08
838 3455 6.183360 GCCCCTACTTTGAATATGAAGTTCAC 60.183 42.308 7.96 0.00 37.32 3.18
866 3483 4.099419 GGTGATTTAGCCCCTAAAACCATG 59.901 45.833 11.15 0.00 39.03 3.66
868 3485 3.466395 TTTAGCCCCTAAAACCATGCT 57.534 42.857 0.00 0.00 33.67 3.79
869 3486 2.435372 TAGCCCCTAAAACCATGCTG 57.565 50.000 0.00 0.00 0.00 4.41
870 3487 0.324645 AGCCCCTAAAACCATGCTGG 60.325 55.000 1.16 1.16 45.02 4.85
871 3488 1.960040 GCCCCTAAAACCATGCTGGC 61.960 60.000 2.50 0.00 42.67 4.85
872 3489 0.614415 CCCCTAAAACCATGCTGGCA 60.614 55.000 0.00 0.00 42.67 4.92
873 3490 1.265236 CCCTAAAACCATGCTGGCAA 58.735 50.000 0.00 0.00 42.67 4.52
874 3491 1.205417 CCCTAAAACCATGCTGGCAAG 59.795 52.381 0.00 0.00 42.67 4.01
922 5237 8.526667 TGCTCTTACCTCTCCATATATATCAC 57.473 38.462 0.00 0.00 0.00 3.06
967 5297 2.173782 TCACTCCTCAGTCCCTAGCTAG 59.826 54.545 14.20 14.20 0.00 3.42
1057 5387 0.617249 CTCCTTCCTGCTCCTCACCT 60.617 60.000 0.00 0.00 0.00 4.00
1060 5390 1.537397 TTCCTGCTCCTCACCTGCT 60.537 57.895 0.00 0.00 0.00 4.24
1065 5395 0.250467 TGCTCCTCACCTGCTTTGTC 60.250 55.000 0.00 0.00 0.00 3.18
1069 5399 1.294659 CCTCACCTGCTTTGTCGCTC 61.295 60.000 0.00 0.00 0.00 5.03
1242 5592 1.083806 ACGACGACGAGCCGTATGTA 61.084 55.000 15.32 0.00 43.49 2.29
1270 5649 2.293677 TCTGTTTCTCTCTCCGTGTGAC 59.706 50.000 0.00 0.00 0.00 3.67
1274 5653 2.271944 TCTCTCTCCGTGTGACTTCA 57.728 50.000 0.00 0.00 0.00 3.02
1312 5700 2.826428 TCTAGCTAAGCTTGCGATTGG 58.174 47.619 9.86 0.00 40.44 3.16
1451 5845 4.212004 CGAGTTCTTGCTGATTTCAGAACA 59.788 41.667 11.70 0.00 46.59 3.18
1521 5955 0.708209 TAGCAGGTACCCACTGGAGA 59.292 55.000 8.74 0.00 36.48 3.71
1522 5956 0.043334 AGCAGGTACCCACTGGAGAT 59.957 55.000 8.74 0.00 36.48 2.75
1523 5957 0.912486 GCAGGTACCCACTGGAGATT 59.088 55.000 8.74 0.00 36.48 2.40
1539 5973 5.467738 TGGAGATTATTGGAGAAGGAGCTA 58.532 41.667 0.00 0.00 0.00 3.32
1602 6036 2.561733 TGTGTCGTAGTATCTGCAGC 57.438 50.000 9.47 0.00 0.00 5.25
1603 6037 1.202143 TGTGTCGTAGTATCTGCAGCG 60.202 52.381 9.47 5.78 0.00 5.18
1607 6045 1.535896 TCGTAGTATCTGCAGCGATCC 59.464 52.381 9.47 0.00 0.00 3.36
1611 6049 1.267261 AGTATCTGCAGCGATCCGTAC 59.733 52.381 9.47 3.52 0.00 3.67
1670 6108 5.033507 CCGATCTTCATGTATCTCTATGCG 58.966 45.833 0.00 0.00 0.00 4.73
1671 6109 5.163713 CCGATCTTCATGTATCTCTATGCGA 60.164 44.000 0.00 0.00 0.00 5.10
1672 6110 6.317857 CGATCTTCATGTATCTCTATGCGAA 58.682 40.000 0.00 0.00 0.00 4.70
1695 6133 2.542020 ATCGTGGATTGTGTGTGTCA 57.458 45.000 0.00 0.00 0.00 3.58
1725 6163 7.765307 ACATAATTAAGAGGCAATTGTGTGAG 58.235 34.615 7.40 0.00 42.49 3.51
1758 6196 6.844279 CGGGTTCGAGAAACAAAATATATTCG 59.156 38.462 3.13 0.00 39.81 3.34
1810 9580 4.878397 CCAATATCTGTCAAGTGGAGGAAC 59.122 45.833 0.00 0.00 0.00 3.62
1824 9594 7.898014 AGTGGAGGAACTTAATTTTGTTTCT 57.102 32.000 4.37 4.37 41.55 2.52
1900 9670 3.304726 GGATACGAGCGAGAATGTCATCA 60.305 47.826 0.00 0.00 0.00 3.07
1964 9740 3.872459 ACGGTACCCTATACTGCTAGT 57.128 47.619 6.25 0.00 0.00 2.57
1989 9765 4.567159 GTGAGGAGAGCGGTATAACAAAAG 59.433 45.833 0.00 0.00 0.00 2.27
1995 9771 1.202098 GCGGTATAACAAAAGCCCACG 60.202 52.381 0.00 0.00 0.00 4.94
2017 9793 5.014018 ACGGTTAATTTCCCTGGGTTAGTAA 59.986 40.000 13.56 8.85 0.00 2.24
2032 9808 5.357314 GGGTTAGTAAAGGCATTTCCTCTTC 59.643 44.000 0.00 0.00 46.94 2.87
2072 9848 4.229582 AGGGTTTTAGCTGTAATCCCATCA 59.770 41.667 22.02 0.00 36.17 3.07
2088 9864 4.221482 TCCCATCAGGTTGATAGATGATCG 59.779 45.833 0.00 0.00 41.18 3.69
2118 9895 1.078709 CAACTGTGCACATCGTAGGG 58.921 55.000 22.00 9.31 0.00 3.53
2145 9922 0.556747 TGAGTAGCCCCTCTCCCTAC 59.443 60.000 2.33 0.00 32.50 3.18
2159 9936 1.133363 CCCTACGAGAGAGGAGAGGA 58.867 60.000 0.00 0.00 35.99 3.71
2175 9952 1.971695 GGAGAGTTTTGGCACCCGG 60.972 63.158 0.00 0.00 0.00 5.73
2176 9953 1.072505 GAGAGTTTTGGCACCCGGA 59.927 57.895 0.73 0.00 0.00 5.14
2203 9980 8.082334 GCATATGCTTTTGGTTTTTGTAAAGA 57.918 30.769 20.64 0.00 38.21 2.52
2251 10029 8.707839 GTCACAAAATTCTGACAAAAAGTTTCA 58.292 29.630 6.16 0.00 37.36 2.69
2252 10030 8.707839 TCACAAAATTCTGACAAAAAGTTTCAC 58.292 29.630 0.00 0.00 0.00 3.18
2253 10031 7.683676 CACAAAATTCTGACAAAAAGTTTCACG 59.316 33.333 0.00 0.00 0.00 4.35
2254 10032 6.885735 AAATTCTGACAAAAAGTTTCACGG 57.114 33.333 0.00 0.00 0.00 4.94
2255 10033 5.576447 ATTCTGACAAAAAGTTTCACGGT 57.424 34.783 0.00 0.00 0.00 4.83
2256 10034 6.687081 ATTCTGACAAAAAGTTTCACGGTA 57.313 33.333 0.00 0.00 0.00 4.02
2257 10035 5.473796 TCTGACAAAAAGTTTCACGGTAC 57.526 39.130 0.00 0.00 0.00 3.34
2258 10036 4.936411 TCTGACAAAAAGTTTCACGGTACA 59.064 37.500 0.00 0.00 0.00 2.90
2259 10037 5.411977 TCTGACAAAAAGTTTCACGGTACAA 59.588 36.000 0.00 0.00 0.00 2.41
2260 10038 6.094325 TCTGACAAAAAGTTTCACGGTACAAT 59.906 34.615 0.00 0.00 0.00 2.71
2261 10039 6.622549 TGACAAAAAGTTTCACGGTACAATT 58.377 32.000 0.00 0.00 0.00 2.32
2262 10040 7.091443 TGACAAAAAGTTTCACGGTACAATTT 58.909 30.769 0.00 0.00 0.00 1.82
2263 10041 7.599245 TGACAAAAAGTTTCACGGTACAATTTT 59.401 29.630 0.00 0.00 0.00 1.82
2264 10042 7.955502 ACAAAAAGTTTCACGGTACAATTTTC 58.044 30.769 0.00 0.00 0.00 2.29
2265 10043 7.815549 ACAAAAAGTTTCACGGTACAATTTTCT 59.184 29.630 0.00 0.00 0.00 2.52
2266 10044 8.652463 CAAAAAGTTTCACGGTACAATTTTCTT 58.348 29.630 0.00 0.00 0.00 2.52
2267 10045 8.766000 AAAAGTTTCACGGTACAATTTTCTTT 57.234 26.923 0.00 0.00 0.00 2.52
2268 10046 8.766000 AAAGTTTCACGGTACAATTTTCTTTT 57.234 26.923 0.00 0.00 0.00 2.27
2269 10047 9.857957 AAAGTTTCACGGTACAATTTTCTTTTA 57.142 25.926 0.00 0.00 0.00 1.52
2270 10048 8.845942 AGTTTCACGGTACAATTTTCTTTTAC 57.154 30.769 0.00 0.00 0.00 2.01
2271 10049 8.460428 AGTTTCACGGTACAATTTTCTTTTACA 58.540 29.630 0.00 0.00 0.00 2.41
2272 10050 8.525876 GTTTCACGGTACAATTTTCTTTTACAC 58.474 33.333 0.00 0.00 0.00 2.90
2273 10051 6.727215 TCACGGTACAATTTTCTTTTACACC 58.273 36.000 0.00 0.00 0.00 4.16
2275 10053 4.613866 CGGTACAATTTTCTTTTACACCGC 59.386 41.667 0.00 0.00 39.79 5.68
2276 10054 4.919168 GGTACAATTTTCTTTTACACCGCC 59.081 41.667 0.00 0.00 0.00 6.13
2277 10055 4.657436 ACAATTTTCTTTTACACCGCCA 57.343 36.364 0.00 0.00 0.00 5.69
2278 10056 4.364860 ACAATTTTCTTTTACACCGCCAC 58.635 39.130 0.00 0.00 0.00 5.01
2279 10057 4.142138 ACAATTTTCTTTTACACCGCCACA 60.142 37.500 0.00 0.00 0.00 4.17
2280 10058 4.657436 ATTTTCTTTTACACCGCCACAA 57.343 36.364 0.00 0.00 0.00 3.33
2281 10059 4.451629 TTTTCTTTTACACCGCCACAAA 57.548 36.364 0.00 0.00 0.00 2.83
2282 10060 4.451629 TTTCTTTTACACCGCCACAAAA 57.548 36.364 0.00 0.00 0.00 2.44
2283 10061 4.451629 TTCTTTTACACCGCCACAAAAA 57.548 36.364 0.00 0.00 0.00 1.94
2306 10084 6.826893 AATGTTGGTTTTCTGTGAATTTCG 57.173 33.333 0.00 0.00 0.00 3.46
2307 10085 4.677584 TGTTGGTTTTCTGTGAATTTCGG 58.322 39.130 0.00 0.00 0.00 4.30
2308 10086 3.363341 TGGTTTTCTGTGAATTTCGGC 57.637 42.857 0.00 0.00 0.00 5.54
2309 10087 2.287308 TGGTTTTCTGTGAATTTCGGCG 60.287 45.455 0.00 0.00 0.00 6.46
2310 10088 2.287368 GGTTTTCTGTGAATTTCGGCGT 60.287 45.455 6.85 0.00 0.00 5.68
2311 10089 2.679355 TTTCTGTGAATTTCGGCGTG 57.321 45.000 6.85 0.00 0.00 5.34
2312 10090 0.237235 TTCTGTGAATTTCGGCGTGC 59.763 50.000 6.85 0.00 0.00 5.34
2313 10091 1.509787 CTGTGAATTTCGGCGTGCG 60.510 57.895 6.85 0.00 0.00 5.34
2314 10092 2.869702 GTGAATTTCGGCGTGCGC 60.870 61.111 6.85 8.17 41.06 6.09
2315 10093 3.349808 TGAATTTCGGCGTGCGCA 61.350 55.556 18.36 5.66 44.11 6.09
2316 10094 2.869702 GAATTTCGGCGTGCGCAC 60.870 61.111 30.42 30.42 44.11 5.34
2317 10095 3.308878 GAATTTCGGCGTGCGCACT 62.309 57.895 35.27 16.47 44.11 4.40
2318 10096 2.780149 GAATTTCGGCGTGCGCACTT 62.780 55.000 35.27 22.05 44.11 3.16
2319 10097 1.570347 AATTTCGGCGTGCGCACTTA 61.570 50.000 35.27 16.64 44.11 2.24
2320 10098 1.966493 ATTTCGGCGTGCGCACTTAG 61.966 55.000 35.27 25.00 44.11 2.18
2321 10099 3.561217 TTCGGCGTGCGCACTTAGA 62.561 57.895 35.27 26.65 44.11 2.10
2322 10100 3.109547 CGGCGTGCGCACTTAGAA 61.110 61.111 35.27 0.00 44.11 2.10
2323 10101 2.452813 CGGCGTGCGCACTTAGAAT 61.453 57.895 35.27 0.00 44.11 2.40
2324 10102 1.060937 GGCGTGCGCACTTAGAATG 59.939 57.895 35.27 20.23 44.11 2.67
2325 10103 1.635663 GGCGTGCGCACTTAGAATGT 61.636 55.000 35.27 0.00 44.11 2.71
2326 10104 0.247301 GCGTGCGCACTTAGAATGTC 60.247 55.000 35.27 12.21 41.49 3.06
2327 10105 1.067693 CGTGCGCACTTAGAATGTCA 58.932 50.000 35.27 0.00 0.00 3.58
2328 10106 1.459209 CGTGCGCACTTAGAATGTCAA 59.541 47.619 35.27 0.00 0.00 3.18
2329 10107 2.472886 CGTGCGCACTTAGAATGTCAAG 60.473 50.000 35.27 13.36 0.00 3.02
2330 10108 2.736721 GTGCGCACTTAGAATGTCAAGA 59.263 45.455 32.55 0.00 0.00 3.02
2331 10109 3.372206 GTGCGCACTTAGAATGTCAAGAT 59.628 43.478 32.55 0.00 0.00 2.40
2332 10110 3.371898 TGCGCACTTAGAATGTCAAGATG 59.628 43.478 5.66 0.00 0.00 2.90
2333 10111 3.372206 GCGCACTTAGAATGTCAAGATGT 59.628 43.478 0.30 0.00 0.00 3.06
2334 10112 4.566759 GCGCACTTAGAATGTCAAGATGTA 59.433 41.667 0.30 0.00 0.00 2.29
2335 10113 5.500931 GCGCACTTAGAATGTCAAGATGTAC 60.501 44.000 0.30 0.00 0.00 2.90
2336 10114 5.275927 CGCACTTAGAATGTCAAGATGTACG 60.276 44.000 0.00 0.00 0.00 3.67
2337 10115 5.577164 GCACTTAGAATGTCAAGATGTACGT 59.423 40.000 0.00 0.00 0.00 3.57
2338 10116 6.454318 GCACTTAGAATGTCAAGATGTACGTG 60.454 42.308 0.00 0.00 0.00 4.49
2339 10117 6.035005 CACTTAGAATGTCAAGATGTACGTGG 59.965 42.308 0.00 0.00 0.00 4.94
2340 10118 3.262420 AGAATGTCAAGATGTACGTGGC 58.738 45.455 0.00 0.00 33.51 5.01
2341 10119 2.760634 ATGTCAAGATGTACGTGGCA 57.239 45.000 0.00 0.00 45.19 4.92
2342 10120 2.535012 TGTCAAGATGTACGTGGCAA 57.465 45.000 0.00 0.00 39.34 4.52
2343 10121 3.052455 TGTCAAGATGTACGTGGCAAT 57.948 42.857 0.00 0.00 39.34 3.56
2344 10122 3.407698 TGTCAAGATGTACGTGGCAATT 58.592 40.909 0.00 0.00 39.34 2.32
2345 10123 3.818210 TGTCAAGATGTACGTGGCAATTT 59.182 39.130 0.00 0.00 39.34 1.82
2346 10124 4.277174 TGTCAAGATGTACGTGGCAATTTT 59.723 37.500 0.00 0.00 39.34 1.82
2347 10125 5.219633 GTCAAGATGTACGTGGCAATTTTT 58.780 37.500 0.00 0.00 33.16 1.94
2393 10171 9.936759 TGAAATATTTTTATTGGTGGAAAGACC 57.063 29.630 1.43 0.00 39.54 3.85
2402 10180 3.094386 TGGAAAGACCATATGCGCC 57.906 52.632 4.18 0.00 44.64 6.53
2403 10181 0.465460 TGGAAAGACCATATGCGCCC 60.465 55.000 4.18 0.00 44.64 6.13
2404 10182 0.465460 GGAAAGACCATATGCGCCCA 60.465 55.000 4.18 0.00 38.79 5.36
2405 10183 1.609208 GAAAGACCATATGCGCCCAT 58.391 50.000 4.18 0.00 35.44 4.00
2406 10184 1.267806 GAAAGACCATATGCGCCCATG 59.732 52.381 4.18 8.22 32.85 3.66
2407 10185 0.183492 AAGACCATATGCGCCCATGT 59.817 50.000 4.18 0.00 32.85 3.21
2408 10186 1.055849 AGACCATATGCGCCCATGTA 58.944 50.000 4.18 0.00 32.85 2.29
2409 10187 1.156736 GACCATATGCGCCCATGTAC 58.843 55.000 4.18 1.02 32.85 2.90
2410 10188 0.250727 ACCATATGCGCCCATGTACC 60.251 55.000 4.18 0.00 32.85 3.34
2411 10189 0.250684 CCATATGCGCCCATGTACCA 60.251 55.000 4.18 0.00 32.85 3.25
2412 10190 1.603456 CATATGCGCCCATGTACCAA 58.397 50.000 4.18 0.00 32.85 3.67
2413 10191 1.952990 CATATGCGCCCATGTACCAAA 59.047 47.619 4.18 0.00 32.85 3.28
2414 10192 1.674359 TATGCGCCCATGTACCAAAG 58.326 50.000 4.18 0.00 32.85 2.77
2415 10193 0.323360 ATGCGCCCATGTACCAAAGT 60.323 50.000 4.18 0.00 0.00 2.66
2416 10194 1.240641 TGCGCCCATGTACCAAAGTG 61.241 55.000 4.18 0.00 0.00 3.16
2417 10195 0.958382 GCGCCCATGTACCAAAGTGA 60.958 55.000 0.00 0.00 0.00 3.41
2418 10196 1.529226 CGCCCATGTACCAAAGTGAA 58.471 50.000 0.00 0.00 0.00 3.18
2419 10197 2.091541 CGCCCATGTACCAAAGTGAAT 58.908 47.619 0.00 0.00 0.00 2.57
2420 10198 2.097466 CGCCCATGTACCAAAGTGAATC 59.903 50.000 0.00 0.00 0.00 2.52
2421 10199 3.356290 GCCCATGTACCAAAGTGAATCT 58.644 45.455 0.00 0.00 0.00 2.40
2422 10200 3.378427 GCCCATGTACCAAAGTGAATCTC 59.622 47.826 0.00 0.00 0.00 2.75
2423 10201 3.947834 CCCATGTACCAAAGTGAATCTCC 59.052 47.826 0.00 0.00 0.00 3.71
2424 10202 4.567537 CCCATGTACCAAAGTGAATCTCCA 60.568 45.833 0.00 0.00 0.00 3.86
2425 10203 4.396166 CCATGTACCAAAGTGAATCTCCAC 59.604 45.833 0.00 0.00 37.32 4.02
2435 10213 3.198853 AGTGAATCTCCACTTTCCCTAGC 59.801 47.826 0.00 0.00 44.32 3.42
2436 10214 2.505819 TGAATCTCCACTTTCCCTAGCC 59.494 50.000 0.00 0.00 0.00 3.93
2437 10215 1.512735 ATCTCCACTTTCCCTAGCCC 58.487 55.000 0.00 0.00 0.00 5.19
2438 10216 0.620700 TCTCCACTTTCCCTAGCCCC 60.621 60.000 0.00 0.00 0.00 5.80
2439 10217 0.621862 CTCCACTTTCCCTAGCCCCT 60.622 60.000 0.00 0.00 0.00 4.79
2440 10218 0.620700 TCCACTTTCCCTAGCCCCTC 60.621 60.000 0.00 0.00 0.00 4.30
2441 10219 1.636769 CCACTTTCCCTAGCCCCTCC 61.637 65.000 0.00 0.00 0.00 4.30
2442 10220 0.621862 CACTTTCCCTAGCCCCTCCT 60.622 60.000 0.00 0.00 0.00 3.69
2443 10221 0.121402 ACTTTCCCTAGCCCCTCCTT 59.879 55.000 0.00 0.00 0.00 3.36
2444 10222 1.299939 CTTTCCCTAGCCCCTCCTTT 58.700 55.000 0.00 0.00 0.00 3.11
2445 10223 1.213182 CTTTCCCTAGCCCCTCCTTTC 59.787 57.143 0.00 0.00 0.00 2.62
2446 10224 0.623617 TTCCCTAGCCCCTCCTTTCC 60.624 60.000 0.00 0.00 0.00 3.13
2447 10225 2.079288 CCCTAGCCCCTCCTTTCCC 61.079 68.421 0.00 0.00 0.00 3.97
2448 10226 1.307866 CCTAGCCCCTCCTTTCCCA 60.308 63.158 0.00 0.00 0.00 4.37
2449 10227 1.636769 CCTAGCCCCTCCTTTCCCAC 61.637 65.000 0.00 0.00 0.00 4.61
2450 10228 0.621862 CTAGCCCCTCCTTTCCCACT 60.622 60.000 0.00 0.00 0.00 4.00
2451 10229 0.914417 TAGCCCCTCCTTTCCCACTG 60.914 60.000 0.00 0.00 0.00 3.66
2452 10230 2.539081 GCCCCTCCTTTCCCACTGT 61.539 63.158 0.00 0.00 0.00 3.55
2453 10231 2.081585 GCCCCTCCTTTCCCACTGTT 62.082 60.000 0.00 0.00 0.00 3.16
2454 10232 0.251341 CCCCTCCTTTCCCACTGTTG 60.251 60.000 0.00 0.00 0.00 3.33
2455 10233 0.251341 CCCTCCTTTCCCACTGTTGG 60.251 60.000 0.00 0.00 43.50 3.77
2456 10234 0.478507 CCTCCTTTCCCACTGTTGGT 59.521 55.000 0.00 0.00 42.10 3.67
2457 10235 1.545651 CCTCCTTTCCCACTGTTGGTC 60.546 57.143 0.00 0.00 42.10 4.02
2458 10236 0.476771 TCCTTTCCCACTGTTGGTCC 59.523 55.000 0.00 0.00 42.10 4.46
2459 10237 0.539669 CCTTTCCCACTGTTGGTCCC 60.540 60.000 0.00 0.00 42.10 4.46
2460 10238 0.539669 CTTTCCCACTGTTGGTCCCC 60.540 60.000 0.00 0.00 42.10 4.81
2461 10239 2.346284 TTTCCCACTGTTGGTCCCCG 62.346 60.000 0.00 0.00 42.10 5.73
2462 10240 4.344865 CCCACTGTTGGTCCCCGG 62.345 72.222 0.00 0.00 42.10 5.73
2466 10244 4.722700 CTGTTGGTCCCCGGCCAG 62.723 72.222 2.24 0.00 37.31 4.85
2491 10269 4.704833 CACCAGCCCCCTGACGTG 62.705 72.222 0.00 0.00 41.77 4.49
2498 10276 3.941188 CCCCTGACGTGCACCACT 61.941 66.667 12.15 0.00 31.34 4.00
2499 10277 2.357517 CCCTGACGTGCACCACTC 60.358 66.667 12.15 4.07 31.34 3.51
2500 10278 2.737180 CCTGACGTGCACCACTCT 59.263 61.111 12.15 0.00 31.34 3.24
2501 10279 1.665916 CCTGACGTGCACCACTCTG 60.666 63.158 12.15 7.40 31.34 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
187 192 4.437772 ACCTCTGCGTTTACTTACTCTC 57.562 45.455 0.00 0.00 0.00 3.20
363 371 9.177608 TCTATCTTGATCGGATGTTTTCAAAAT 57.822 29.630 10.15 0.00 0.00 1.82
438 1771 4.466828 AGATTCAGACGCAAATTTTCACG 58.533 39.130 4.05 4.05 0.00 4.35
535 1870 9.448438 AGACAATAACAGCACAATTATGTTAGA 57.552 29.630 3.73 0.00 41.32 2.10
615 1986 3.249080 ACTCAACCGTCAAACAAATACCG 59.751 43.478 0.00 0.00 0.00 4.02
740 3332 2.863153 GCCGTGCAGCTGTTACAG 59.137 61.111 16.64 8.18 34.12 2.74
774 3389 0.322997 CACGGTTTTATGCCCCCTCA 60.323 55.000 0.00 0.00 0.00 3.86
775 3390 0.034863 TCACGGTTTTATGCCCCCTC 60.035 55.000 0.00 0.00 0.00 4.30
776 3391 0.629058 ATCACGGTTTTATGCCCCCT 59.371 50.000 0.00 0.00 0.00 4.79
779 3394 0.744281 CCCATCACGGTTTTATGCCC 59.256 55.000 0.00 0.00 0.00 5.36
786 3401 0.678950 CAAAAGCCCCATCACGGTTT 59.321 50.000 0.00 0.00 0.00 3.27
807 3423 5.132648 TCATATTCAAAGTAGGGGCATGAGT 59.867 40.000 0.00 0.00 0.00 3.41
808 3424 5.624159 TCATATTCAAAGTAGGGGCATGAG 58.376 41.667 0.00 0.00 0.00 2.90
838 3455 2.459555 AGGGGCTAAATCACCATTGG 57.540 50.000 0.00 0.00 0.00 3.16
866 3483 2.337532 CTGTTGCCACTTGCCAGC 59.662 61.111 0.00 0.00 40.16 4.85
868 3485 2.441717 TGCTGTTGCCACTTGCCA 60.442 55.556 4.62 0.00 40.16 4.92
869 3486 2.337532 CTGCTGTTGCCACTTGCC 59.662 61.111 4.62 0.00 40.16 4.52
870 3487 2.355481 GCTGCTGTTGCCACTTGC 60.355 61.111 0.00 0.00 38.71 4.01
871 3488 1.299620 GTGCTGCTGTTGCCACTTG 60.300 57.895 0.00 0.00 38.71 3.16
872 3489 1.450531 GAGTGCTGCTGTTGCCACTT 61.451 55.000 0.00 0.00 40.20 3.16
873 3490 1.895707 GAGTGCTGCTGTTGCCACT 60.896 57.895 0.00 2.11 41.86 4.00
874 3491 2.126417 CTGAGTGCTGCTGTTGCCAC 62.126 60.000 0.00 0.00 38.71 5.01
922 5237 0.595095 GCTTGCACAGAAGAACCCAG 59.405 55.000 0.00 0.00 0.00 4.45
967 5297 1.101331 CCTCTTCTCATTTGGCAGCC 58.899 55.000 3.66 3.66 0.00 4.85
1057 5387 0.610174 AGATGAGGAGCGACAAAGCA 59.390 50.000 0.00 0.00 40.15 3.91
1060 5390 1.066858 GGACAGATGAGGAGCGACAAA 60.067 52.381 0.00 0.00 0.00 2.83
1065 5395 2.069465 CTCGGGACAGATGAGGAGCG 62.069 65.000 0.00 0.00 0.00 5.03
1149 5487 3.299162 CGCTGAGATCTTGATCTTCTCG 58.701 50.000 13.56 12.38 38.97 4.04
1242 5592 4.199310 CGGAGAGAGAAACAGAGAGAGAT 58.801 47.826 0.00 0.00 0.00 2.75
1312 5700 1.446272 CGAAACCGAGGCTGGAGTC 60.446 63.158 9.53 5.66 0.00 3.36
1390 5781 6.404954 GGAGCAAACTCTACTCTAGTTACCTG 60.405 46.154 0.00 0.00 42.98 4.00
1413 5804 0.113776 ACTCGGAACAGTAGGGTGGA 59.886 55.000 0.00 0.00 0.00 4.02
1451 5845 1.143684 AGGGTCAGCACTTCACATTGT 59.856 47.619 0.00 0.00 0.00 2.71
1521 5955 7.444703 AAAGAGTAGCTCCTTCTCCAATAAT 57.555 36.000 0.00 0.00 29.90 1.28
1522 5956 6.875972 AAAGAGTAGCTCCTTCTCCAATAA 57.124 37.500 0.00 0.00 29.90 1.40
1523 5957 6.405953 CGAAAAGAGTAGCTCCTTCTCCAATA 60.406 42.308 0.00 0.00 29.90 1.90
1539 5973 3.570912 TTCCCTTGGAACGAAAAGAGT 57.429 42.857 0.00 0.00 36.71 3.24
1602 6036 6.639671 GTACTACCATACTAGTACGGATCG 57.360 45.833 21.44 10.78 39.35 3.69
1611 6049 4.278669 CCCTGCACAGTACTACCATACTAG 59.721 50.000 0.00 0.00 33.50 2.57
1670 6108 6.478673 TGACACACACAATCCACGATATATTC 59.521 38.462 0.00 0.00 0.00 1.75
1671 6109 6.345298 TGACACACACAATCCACGATATATT 58.655 36.000 0.00 0.00 0.00 1.28
1672 6110 5.912892 TGACACACACAATCCACGATATAT 58.087 37.500 0.00 0.00 0.00 0.86
1695 6133 8.246180 CACAATTGCCTCTTAATTATGTTGAGT 58.754 33.333 5.05 0.00 0.00 3.41
1725 6163 0.886563 TTCTCGAACCCGGAAGAGAC 59.113 55.000 0.73 0.00 39.19 3.36
1780 6218 5.295292 CCACTTGACAGATATTGGCTACAAG 59.705 44.000 0.00 0.00 40.49 3.16
1786 6224 3.118261 TCCTCCACTTGACAGATATTGGC 60.118 47.826 0.00 0.00 34.37 4.52
1792 6230 5.825593 TTAAGTTCCTCCACTTGACAGAT 57.174 39.130 0.00 0.00 37.57 2.90
1851 9621 5.518847 CGTTCTTCTTGACACTGTGAAGTTA 59.481 40.000 15.86 1.71 37.67 2.24
1852 9622 4.330074 CGTTCTTCTTGACACTGTGAAGTT 59.670 41.667 15.86 0.00 37.67 2.66
1853 9623 3.865745 CGTTCTTCTTGACACTGTGAAGT 59.134 43.478 15.86 0.00 37.67 3.01
1854 9624 4.112634 TCGTTCTTCTTGACACTGTGAAG 58.887 43.478 15.86 8.75 37.75 3.02
1855 9625 4.118093 TCGTTCTTCTTGACACTGTGAA 57.882 40.909 15.86 0.00 0.00 3.18
1856 9626 3.793797 TCGTTCTTCTTGACACTGTGA 57.206 42.857 15.86 0.00 0.00 3.58
1859 9629 3.717707 TCCTTCGTTCTTCTTGACACTG 58.282 45.455 0.00 0.00 0.00 3.66
1900 9670 2.428890 CCTCGACTCTCAATACTGGCTT 59.571 50.000 0.00 0.00 0.00 4.35
1964 9740 2.029623 GTTATACCGCTCTCCTCACCA 58.970 52.381 0.00 0.00 0.00 4.17
1989 9765 0.815095 CAGGGAAATTAACCGTGGGC 59.185 55.000 13.18 0.00 38.93 5.36
1995 9771 6.379133 CCTTTACTAACCCAGGGAAATTAACC 59.621 42.308 14.54 0.00 0.00 2.85
2043 9819 5.475564 GGATTACAGCTAAAACCCTTTCACA 59.524 40.000 0.00 0.00 0.00 3.58
2072 9848 2.230025 CGAGGCGATCATCTATCAACCT 59.770 50.000 0.00 0.00 41.40 3.50
2088 9864 3.058160 ACAGTTGCATGGCGAGGC 61.058 61.111 0.00 0.00 0.00 4.70
2112 9888 1.033746 TACTCAACGGCCTCCCTACG 61.034 60.000 0.00 0.00 0.00 3.51
2118 9895 2.187163 GGGCTACTCAACGGCCTC 59.813 66.667 0.00 0.00 44.70 4.70
2145 9922 2.710096 AACTCTCCTCTCCTCTCTCG 57.290 55.000 0.00 0.00 0.00 4.04
2151 9928 1.349357 GTGCCAAAACTCTCCTCTCCT 59.651 52.381 0.00 0.00 0.00 3.69
2159 9936 0.537371 CTTCCGGGTGCCAAAACTCT 60.537 55.000 0.00 0.00 0.00 3.24
2212 9990 7.871973 CAGAATTTTGTGACATTCCCAAATACA 59.128 33.333 0.00 0.00 30.75 2.29
2251 10029 5.750650 CGGTGTAAAAGAAAATTGTACCGT 58.249 37.500 0.00 0.00 42.40 4.83
2253 10031 4.919168 GGCGGTGTAAAAGAAAATTGTACC 59.081 41.667 0.00 0.00 0.00 3.34
2254 10032 5.400188 GTGGCGGTGTAAAAGAAAATTGTAC 59.600 40.000 0.00 0.00 0.00 2.90
2255 10033 5.067413 TGTGGCGGTGTAAAAGAAAATTGTA 59.933 36.000 0.00 0.00 0.00 2.41
2256 10034 4.142138 TGTGGCGGTGTAAAAGAAAATTGT 60.142 37.500 0.00 0.00 0.00 2.71
2257 10035 4.363999 TGTGGCGGTGTAAAAGAAAATTG 58.636 39.130 0.00 0.00 0.00 2.32
2258 10036 4.657436 TGTGGCGGTGTAAAAGAAAATT 57.343 36.364 0.00 0.00 0.00 1.82
2259 10037 4.657436 TTGTGGCGGTGTAAAAGAAAAT 57.343 36.364 0.00 0.00 0.00 1.82
2260 10038 4.451629 TTTGTGGCGGTGTAAAAGAAAA 57.548 36.364 0.00 0.00 0.00 2.29
2261 10039 4.451629 TTTTGTGGCGGTGTAAAAGAAA 57.548 36.364 0.00 0.00 0.00 2.52
2262 10040 4.451629 TTTTTGTGGCGGTGTAAAAGAA 57.548 36.364 0.00 0.00 0.00 2.52
2280 10058 8.174422 CGAAATTCACAGAAAACCAACATTTTT 58.826 29.630 0.00 0.00 31.90 1.94
2281 10059 7.201600 CCGAAATTCACAGAAAACCAACATTTT 60.202 33.333 0.00 0.00 34.46 1.82
2282 10060 6.257630 CCGAAATTCACAGAAAACCAACATTT 59.742 34.615 0.00 0.00 0.00 2.32
2283 10061 5.752955 CCGAAATTCACAGAAAACCAACATT 59.247 36.000 0.00 0.00 0.00 2.71
2284 10062 5.288804 CCGAAATTCACAGAAAACCAACAT 58.711 37.500 0.00 0.00 0.00 2.71
2285 10063 4.677584 CCGAAATTCACAGAAAACCAACA 58.322 39.130 0.00 0.00 0.00 3.33
2286 10064 3.489416 GCCGAAATTCACAGAAAACCAAC 59.511 43.478 0.00 0.00 0.00 3.77
2287 10065 3.712187 GCCGAAATTCACAGAAAACCAA 58.288 40.909 0.00 0.00 0.00 3.67
2288 10066 2.287308 CGCCGAAATTCACAGAAAACCA 60.287 45.455 0.00 0.00 0.00 3.67
2289 10067 2.287368 ACGCCGAAATTCACAGAAAACC 60.287 45.455 0.00 0.00 0.00 3.27
2290 10068 2.719046 CACGCCGAAATTCACAGAAAAC 59.281 45.455 0.00 0.00 0.00 2.43
2291 10069 2.856720 GCACGCCGAAATTCACAGAAAA 60.857 45.455 0.00 0.00 0.00 2.29
2292 10070 1.334599 GCACGCCGAAATTCACAGAAA 60.335 47.619 0.00 0.00 0.00 2.52
2293 10071 0.237235 GCACGCCGAAATTCACAGAA 59.763 50.000 0.00 0.00 0.00 3.02
2294 10072 1.866237 GCACGCCGAAATTCACAGA 59.134 52.632 0.00 0.00 0.00 3.41
2295 10073 1.509787 CGCACGCCGAAATTCACAG 60.510 57.895 0.00 0.00 40.02 3.66
2296 10074 2.553770 CGCACGCCGAAATTCACA 59.446 55.556 0.00 0.00 40.02 3.58
2297 10075 2.869702 GCGCACGCCGAAATTCAC 60.870 61.111 0.30 0.00 40.02 3.18
2298 10076 3.349808 TGCGCACGCCGAAATTCA 61.350 55.556 5.66 0.00 41.09 2.57
2299 10077 2.780149 AAGTGCGCACGCCGAAATTC 62.780 55.000 32.94 7.07 41.09 2.17
2300 10078 1.570347 TAAGTGCGCACGCCGAAATT 61.570 50.000 32.94 22.00 41.09 1.82
2301 10079 1.966493 CTAAGTGCGCACGCCGAAAT 61.966 55.000 32.94 12.74 41.09 2.17
2302 10080 2.662196 TAAGTGCGCACGCCGAAA 60.662 55.556 32.94 14.14 41.09 3.46
2303 10081 3.109547 CTAAGTGCGCACGCCGAA 61.110 61.111 32.94 17.09 41.09 4.30
2304 10082 2.829043 ATTCTAAGTGCGCACGCCGA 62.829 55.000 32.94 25.44 41.09 5.54
2305 10083 2.452813 ATTCTAAGTGCGCACGCCG 61.453 57.895 32.94 23.73 41.09 6.46
2306 10084 1.060937 CATTCTAAGTGCGCACGCC 59.939 57.895 32.94 11.91 41.09 5.68
2307 10085 0.247301 GACATTCTAAGTGCGCACGC 60.247 55.000 32.94 12.73 42.35 5.34
2308 10086 1.067693 TGACATTCTAAGTGCGCACG 58.932 50.000 32.94 20.16 36.20 5.34
2309 10087 2.736721 TCTTGACATTCTAAGTGCGCAC 59.263 45.455 32.79 32.79 0.00 5.34
2310 10088 3.038788 TCTTGACATTCTAAGTGCGCA 57.961 42.857 5.66 5.66 0.00 6.09
2311 10089 3.372206 ACATCTTGACATTCTAAGTGCGC 59.628 43.478 0.00 0.00 0.00 6.09
2312 10090 5.275927 CGTACATCTTGACATTCTAAGTGCG 60.276 44.000 0.00 0.00 0.00 5.34
2313 10091 5.577164 ACGTACATCTTGACATTCTAAGTGC 59.423 40.000 0.00 0.00 0.00 4.40
2314 10092 6.035005 CCACGTACATCTTGACATTCTAAGTG 59.965 42.308 0.00 0.00 0.00 3.16
2315 10093 6.100004 CCACGTACATCTTGACATTCTAAGT 58.900 40.000 0.00 0.00 0.00 2.24
2316 10094 5.005779 GCCACGTACATCTTGACATTCTAAG 59.994 44.000 0.00 0.00 0.00 2.18
2317 10095 4.868171 GCCACGTACATCTTGACATTCTAA 59.132 41.667 0.00 0.00 0.00 2.10
2318 10096 4.081917 TGCCACGTACATCTTGACATTCTA 60.082 41.667 0.00 0.00 0.00 2.10
2319 10097 3.262420 GCCACGTACATCTTGACATTCT 58.738 45.455 0.00 0.00 0.00 2.40
2320 10098 3.000041 TGCCACGTACATCTTGACATTC 59.000 45.455 0.00 0.00 0.00 2.67
2321 10099 3.052455 TGCCACGTACATCTTGACATT 57.948 42.857 0.00 0.00 0.00 2.71
2322 10100 2.760634 TGCCACGTACATCTTGACAT 57.239 45.000 0.00 0.00 0.00 3.06
2323 10101 2.535012 TTGCCACGTACATCTTGACA 57.465 45.000 0.00 0.00 0.00 3.58
2324 10102 4.419522 AAATTGCCACGTACATCTTGAC 57.580 40.909 0.00 0.00 0.00 3.18
2325 10103 5.446143 AAAAATTGCCACGTACATCTTGA 57.554 34.783 0.00 0.00 0.00 3.02
2367 10145 9.936759 GGTCTTTCCACCAATAAAAATATTTCA 57.063 29.630 0.10 0.00 36.32 2.69
2368 10146 9.936759 TGGTCTTTCCACCAATAAAAATATTTC 57.063 29.630 0.10 0.00 43.88 2.17
2385 10163 0.465460 TGGGCGCATATGGTCTTTCC 60.465 55.000 10.83 0.00 0.00 3.13
2386 10164 1.267806 CATGGGCGCATATGGTCTTTC 59.732 52.381 16.74 0.00 0.00 2.62
2387 10165 1.321474 CATGGGCGCATATGGTCTTT 58.679 50.000 16.74 0.00 0.00 2.52
2388 10166 0.183492 ACATGGGCGCATATGGTCTT 59.817 50.000 16.74 3.84 0.00 3.01
2389 10167 1.055849 TACATGGGCGCATATGGTCT 58.944 50.000 16.74 8.39 0.00 3.85
2390 10168 1.156736 GTACATGGGCGCATATGGTC 58.843 55.000 16.74 13.04 0.00 4.02
2391 10169 0.250727 GGTACATGGGCGCATATGGT 60.251 55.000 16.74 12.63 0.00 3.55
2392 10170 0.250684 TGGTACATGGGCGCATATGG 60.251 55.000 16.74 6.98 0.00 2.74
2393 10171 1.603456 TTGGTACATGGGCGCATATG 58.397 50.000 16.74 15.46 39.30 1.78
2394 10172 2.229792 CTTTGGTACATGGGCGCATAT 58.770 47.619 16.74 8.01 39.30 1.78
2395 10173 1.065053 ACTTTGGTACATGGGCGCATA 60.065 47.619 16.74 0.00 39.30 3.14
2396 10174 0.323360 ACTTTGGTACATGGGCGCAT 60.323 50.000 11.00 11.00 39.30 4.73
2397 10175 1.074072 ACTTTGGTACATGGGCGCA 59.926 52.632 10.83 5.70 39.30 6.09
2398 10176 0.958382 TCACTTTGGTACATGGGCGC 60.958 55.000 0.00 0.00 39.30 6.53
2399 10177 1.529226 TTCACTTTGGTACATGGGCG 58.471 50.000 0.00 0.00 39.30 6.13
2400 10178 3.356290 AGATTCACTTTGGTACATGGGC 58.644 45.455 0.00 0.00 39.30 5.36
2401 10179 3.947834 GGAGATTCACTTTGGTACATGGG 59.052 47.826 0.00 0.00 39.30 4.00
2402 10180 4.396166 GTGGAGATTCACTTTGGTACATGG 59.604 45.833 0.00 0.00 34.52 3.66
2403 10181 5.248640 AGTGGAGATTCACTTTGGTACATG 58.751 41.667 0.00 0.00 44.74 3.21
2404 10182 5.505181 AGTGGAGATTCACTTTGGTACAT 57.495 39.130 0.00 0.00 44.74 2.29
2405 10183 4.974645 AGTGGAGATTCACTTTGGTACA 57.025 40.909 0.00 0.00 44.74 2.90
2414 10192 3.536570 GCTAGGGAAAGTGGAGATTCAC 58.463 50.000 0.00 0.00 37.89 3.18
2415 10193 2.505819 GGCTAGGGAAAGTGGAGATTCA 59.494 50.000 0.00 0.00 0.00 2.57
2416 10194 2.158740 GGGCTAGGGAAAGTGGAGATTC 60.159 54.545 0.00 0.00 0.00 2.52
2417 10195 1.847088 GGGCTAGGGAAAGTGGAGATT 59.153 52.381 0.00 0.00 0.00 2.40
2418 10196 1.512735 GGGCTAGGGAAAGTGGAGAT 58.487 55.000 0.00 0.00 0.00 2.75
2419 10197 0.620700 GGGGCTAGGGAAAGTGGAGA 60.621 60.000 0.00 0.00 0.00 3.71
2420 10198 0.621862 AGGGGCTAGGGAAAGTGGAG 60.622 60.000 0.00 0.00 0.00 3.86
2421 10199 0.620700 GAGGGGCTAGGGAAAGTGGA 60.621 60.000 0.00 0.00 0.00 4.02
2422 10200 1.636769 GGAGGGGCTAGGGAAAGTGG 61.637 65.000 0.00 0.00 0.00 4.00
2423 10201 0.621862 AGGAGGGGCTAGGGAAAGTG 60.622 60.000 0.00 0.00 0.00 3.16
2424 10202 0.121402 AAGGAGGGGCTAGGGAAAGT 59.879 55.000 0.00 0.00 0.00 2.66
2425 10203 1.213182 GAAAGGAGGGGCTAGGGAAAG 59.787 57.143 0.00 0.00 0.00 2.62
2426 10204 1.296002 GAAAGGAGGGGCTAGGGAAA 58.704 55.000 0.00 0.00 0.00 3.13
2427 10205 0.623617 GGAAAGGAGGGGCTAGGGAA 60.624 60.000 0.00 0.00 0.00 3.97
2428 10206 1.004361 GGAAAGGAGGGGCTAGGGA 59.996 63.158 0.00 0.00 0.00 4.20
2429 10207 2.079288 GGGAAAGGAGGGGCTAGGG 61.079 68.421 0.00 0.00 0.00 3.53
2430 10208 1.307866 TGGGAAAGGAGGGGCTAGG 60.308 63.158 0.00 0.00 0.00 3.02
2431 10209 0.621862 AGTGGGAAAGGAGGGGCTAG 60.622 60.000 0.00 0.00 0.00 3.42
2432 10210 0.914417 CAGTGGGAAAGGAGGGGCTA 60.914 60.000 0.00 0.00 0.00 3.93
2433 10211 2.211279 AGTGGGAAAGGAGGGGCT 59.789 61.111 0.00 0.00 0.00 5.19
2434 10212 2.081585 AACAGTGGGAAAGGAGGGGC 62.082 60.000 0.00 0.00 0.00 5.80
2435 10213 0.251341 CAACAGTGGGAAAGGAGGGG 60.251 60.000 0.00 0.00 0.00 4.79
2436 10214 0.251341 CCAACAGTGGGAAAGGAGGG 60.251 60.000 0.00 0.00 41.77 4.30
2437 10215 3.346426 CCAACAGTGGGAAAGGAGG 57.654 57.895 0.00 0.00 41.77 4.30
2474 10252 4.704833 CACGTCAGGGGGCTGGTG 62.705 72.222 0.00 0.00 0.00 4.17
2481 10259 3.883744 GAGTGGTGCACGTCAGGGG 62.884 68.421 11.45 0.00 39.64 4.79
2482 10260 2.357517 GAGTGGTGCACGTCAGGG 60.358 66.667 11.45 0.00 39.64 4.45
2483 10261 1.665916 CAGAGTGGTGCACGTCAGG 60.666 63.158 11.45 0.90 39.64 3.86
2484 10262 3.942500 CAGAGTGGTGCACGTCAG 58.057 61.111 11.45 0.69 39.64 3.51


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

AutoCloner maintained by Alex Coulton.