Multiple sequence alignment - TraesCS3D01G513600

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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 TraesCS3D01G513600 chr3D 100.000 2264 0 0 1 2264 597546037 597548300 0.000000e+00 4181
1 TraesCS3D01G513600 chr3D 83.943 984 67 30 710 1652 597421018 597421951 0.000000e+00 857
2 TraesCS3D01G513600 chr3D 81.797 423 40 15 5 417 597420163 597420558 1.010000e-83 320
3 TraesCS3D01G513600 chr3A 81.955 1330 119 43 710 1983 727478342 727479606 0.000000e+00 1014
4 TraesCS3D01G513600 chr3A 83.801 463 47 13 5 461 727477469 727477909 4.500000e-112 414
5 TraesCS3D01G513600 chr3A 84.270 178 27 1 2031 2208 727479690 727479866 2.990000e-39 172
6 TraesCS3D01G513600 chr3B 81.536 1354 118 54 711 2006 804248384 804249663 0.000000e+00 994
7 TraesCS3D01G513600 chr3B 82.073 463 64 9 5 461 804247490 804247939 5.900000e-101 377
8 TraesCS3D01G513600 chr3B 84.615 169 22 4 2031 2199 804249724 804249888 5.000000e-37 165
9 TraesCS3D01G513600 chr2A 84.350 754 61 18 710 1447 605115991 605115279 0.000000e+00 686
10 TraesCS3D01G513600 chr2A 83.153 463 50 13 5 461 605120470 605120030 4.530000e-107 398


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 TraesCS3D01G513600 chr3D 597546037 597548300 2263 False 4181.000000 4181 100.000000 1 2264 1 chr3D.!!$F1 2263
1 TraesCS3D01G513600 chr3D 597420163 597421951 1788 False 588.500000 857 82.870000 5 1652 2 chr3D.!!$F2 1647
2 TraesCS3D01G513600 chr3A 727477469 727479866 2397 False 533.333333 1014 83.342000 5 2208 3 chr3A.!!$F1 2203
3 TraesCS3D01G513600 chr3B 804247490 804249888 2398 False 512.000000 994 82.741333 5 2199 3 chr3B.!!$F1 2194
4 TraesCS3D01G513600 chr2A 605115279 605115991 712 True 686.000000 686 84.350000 710 1447 1 chr2A.!!$R1 737

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
179 196 0.106519 GTAGGCCATGGATGCACCTT 60.107 55.0 18.4 0.0 39.86 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1902 2220 0.242825 TCAGTAGCCACACGTACAGC 59.757 55.0 0.0 0.0 0.0 4.4 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
45 48 2.868583 ACACTATGCGCAGTCATGATTC 59.131 45.455 18.32 0.00 0.00 2.52
46 49 2.867975 CACTATGCGCAGTCATGATTCA 59.132 45.455 18.32 0.00 0.00 2.57
49 52 2.836479 TGCGCAGTCATGATTCATTG 57.164 45.000 5.66 0.00 0.00 2.82
95 98 5.006386 CCCTAACAATGACAAGAGCTTCTT 58.994 41.667 0.00 0.00 37.14 2.52
148 159 2.293170 GCCTATTTGTTGAGAGAGGCC 58.707 52.381 0.00 0.00 43.02 5.19
149 160 2.356125 GCCTATTTGTTGAGAGAGGCCA 60.356 50.000 5.01 0.00 43.02 5.36
150 161 3.686691 GCCTATTTGTTGAGAGAGGCCAT 60.687 47.826 5.01 0.00 43.02 4.40
152 163 4.337555 CCTATTTGTTGAGAGAGGCCATTG 59.662 45.833 5.01 0.00 0.00 2.82
159 176 2.234661 TGAGAGAGGCCATTGTGTACAG 59.765 50.000 5.01 0.00 0.00 2.74
179 196 0.106519 GTAGGCCATGGATGCACCTT 60.107 55.000 18.40 0.00 39.86 3.50
199 217 5.185056 ACCTTGGCGTGCTATAAAAATTCTT 59.815 36.000 0.00 0.00 0.00 2.52
267 285 3.786516 TGCACACATGGATTATTGCTG 57.213 42.857 0.00 0.00 0.00 4.41
268 286 2.427812 TGCACACATGGATTATTGCTGG 59.572 45.455 0.00 0.00 0.00 4.85
269 287 2.428171 GCACACATGGATTATTGCTGGT 59.572 45.455 0.00 0.00 0.00 4.00
270 288 3.489738 GCACACATGGATTATTGCTGGTC 60.490 47.826 0.00 0.00 0.00 4.02
282 300 4.630644 ATTGCTGGTCGGATCTGATATT 57.369 40.909 7.68 0.00 0.00 1.28
283 301 3.391506 TGCTGGTCGGATCTGATATTG 57.608 47.619 7.68 0.45 0.00 1.90
286 304 3.256879 GCTGGTCGGATCTGATATTGAGA 59.743 47.826 7.68 0.00 0.00 3.27
303 321 3.914312 TGAGAACCTAGCTCTTTTGTCG 58.086 45.455 0.00 0.00 33.57 4.35
304 322 3.254892 GAGAACCTAGCTCTTTTGTCGG 58.745 50.000 0.00 0.00 0.00 4.79
313 331 5.401531 AGCTCTTTTGTCGGTAGAACATA 57.598 39.130 0.00 0.00 0.00 2.29
379 397 4.531357 AGGGATGTCCACATTTGATGAT 57.469 40.909 0.86 0.00 36.57 2.45
409 427 7.012894 CCACAAATTGGTGTTCTGTAGTTAAGA 59.987 37.037 12.03 0.00 41.10 2.10
467 567 8.303780 TCTGTCAAAATTTGATAATGGGCATA 57.696 30.769 11.87 0.00 42.47 3.14
476 576 9.932207 AATTTGATAATGGGCATACACATATTG 57.068 29.630 0.00 0.00 0.00 1.90
480 580 5.611128 AATGGGCATACACATATTGCAAA 57.389 34.783 1.71 0.00 0.00 3.68
481 581 5.811796 ATGGGCATACACATATTGCAAAT 57.188 34.783 1.71 0.00 0.00 2.32
482 582 6.914654 ATGGGCATACACATATTGCAAATA 57.085 33.333 1.71 0.00 0.00 1.40
483 583 6.914654 TGGGCATACACATATTGCAAATAT 57.085 33.333 1.71 0.00 0.00 1.28
484 584 6.689554 TGGGCATACACATATTGCAAATATG 58.310 36.000 19.02 19.02 37.84 1.78
548 691 8.660295 ATGAATACAATTCCCATGAGCATATT 57.340 30.769 0.00 0.00 0.00 1.28
561 704 8.145767 CCCATGAGCATATTATTTTTGTGTCAT 58.854 33.333 0.00 0.00 0.00 3.06
562 705 8.974408 CCATGAGCATATTATTTTTGTGTCATG 58.026 33.333 0.00 0.00 38.07 3.07
641 807 5.720041 AGGAAGTAGCCATAACTACAAGTCA 59.280 40.000 4.67 0.00 44.14 3.41
647 813 9.417561 AGTAGCCATAACTACAAGTCATACTAA 57.582 33.333 4.67 0.00 44.14 2.24
760 1009 2.609459 GGATCTACACAACTTGCATCGG 59.391 50.000 0.00 0.00 0.00 4.18
797 1046 1.797713 CGGCATCACGTACACACTAGG 60.798 57.143 0.00 0.00 0.00 3.02
804 1053 4.081406 TCACGTACACACTAGGTACCAAT 58.919 43.478 15.94 0.00 38.26 3.16
814 1063 9.209048 ACACACTAGGTACCAATTCTATATTGA 57.791 33.333 15.94 0.00 0.00 2.57
850 1099 0.889186 AAAGCAACCTACCTGCCGTG 60.889 55.000 0.00 0.00 40.86 4.94
877 1126 3.955101 CGCCGCGAGCTAGCTAGT 61.955 66.667 23.49 8.90 40.39 2.57
900 1149 6.533819 TTCGATCGAACACACAACTAAATT 57.466 33.333 25.96 0.00 0.00 1.82
901 1150 7.640616 TTCGATCGAACACACAACTAAATTA 57.359 32.000 25.96 0.00 0.00 1.40
902 1151 7.640616 TCGATCGAACACACAACTAAATTAA 57.359 32.000 16.99 0.00 0.00 1.40
903 1152 7.503991 TCGATCGAACACACAACTAAATTAAC 58.496 34.615 16.99 0.00 0.00 2.01
923 1172 1.336240 CGCCAGGCTTCCAAAGAAAAG 60.336 52.381 10.54 0.00 0.00 2.27
950 1202 3.499050 GAGCAGCTAGGTCGTCGA 58.501 61.111 0.00 0.00 34.67 4.20
977 1230 1.148759 GAGGTCGATCTCGCCTTTGC 61.149 60.000 10.51 0.00 42.68 3.68
981 1234 2.819595 GATCTCGCCTTTGCCGCA 60.820 61.111 0.00 0.00 0.00 5.69
996 1261 2.663188 GCAGGCCGATCGATGTCC 60.663 66.667 18.66 11.71 0.00 4.02
997 1262 2.814604 CAGGCCGATCGATGTCCA 59.185 61.111 18.66 0.00 0.00 4.02
1167 1432 4.180946 CCGACTCAGGCGGTCTCG 62.181 72.222 12.31 0.00 43.66 4.04
1168 1433 4.180946 CGACTCAGGCGGTCTCGG 62.181 72.222 0.00 0.00 36.79 4.63
1169 1434 3.827898 GACTCAGGCGGTCTCGGG 61.828 72.222 0.00 0.00 36.79 5.14
1177 1442 3.507009 CGGTCTCGGGGTCGACTC 61.507 72.222 16.46 12.12 40.88 3.36
1178 1443 2.360852 GGTCTCGGGGTCGACTCA 60.361 66.667 18.98 0.00 40.88 3.41
1179 1444 2.408241 GGTCTCGGGGTCGACTCAG 61.408 68.421 18.98 14.26 40.88 3.35
1180 1445 2.045242 TCTCGGGGTCGACTCAGG 60.045 66.667 18.98 8.65 40.88 3.86
1181 1446 3.827898 CTCGGGGTCGACTCAGGC 61.828 72.222 18.98 0.00 40.88 4.85
1182 1447 4.671590 TCGGGGTCGACTCAGGCA 62.672 66.667 18.98 0.00 40.88 4.75
1197 1462 4.477975 GCAGTCTCGGGGTCGACG 62.478 72.222 9.92 0.00 40.88 5.12
1246 1511 1.000233 TCCATGGTTGGCATGTCCC 60.000 57.895 12.58 0.00 43.29 4.46
1264 1529 2.202810 GGCTCGACAGGCACTAGC 60.203 66.667 0.00 0.00 44.88 3.42
1265 1530 2.573869 GCTCGACAGGCACTAGCA 59.426 61.111 0.00 0.00 44.61 3.49
1266 1531 1.807573 GCTCGACAGGCACTAGCAC 60.808 63.158 0.00 0.00 44.61 4.40
1267 1532 1.886585 CTCGACAGGCACTAGCACT 59.113 57.895 0.00 0.00 44.61 4.40
1268 1533 0.457509 CTCGACAGGCACTAGCACTG 60.458 60.000 7.22 7.22 44.61 3.66
1269 1534 1.446792 CGACAGGCACTAGCACTGG 60.447 63.158 11.97 0.00 44.61 4.00
1270 1535 1.078848 GACAGGCACTAGCACTGGG 60.079 63.158 11.97 0.00 44.61 4.45
1271 1536 2.270205 CAGGCACTAGCACTGGGG 59.730 66.667 0.00 0.00 44.61 4.96
1376 1646 6.603237 TTGATTAGCTACATACACACATGC 57.397 37.500 0.00 0.00 0.00 4.06
1478 1761 3.814504 ATTGGATCTTGGTCAGGTGTT 57.185 42.857 0.00 0.00 0.00 3.32
1483 1766 3.260884 GGATCTTGGTCAGGTGTTCACTA 59.739 47.826 2.98 0.00 0.00 2.74
1484 1767 4.080863 GGATCTTGGTCAGGTGTTCACTAT 60.081 45.833 2.98 0.00 0.00 2.12
1485 1768 4.974645 TCTTGGTCAGGTGTTCACTATT 57.025 40.909 2.98 0.00 0.00 1.73
1486 1769 4.641396 TCTTGGTCAGGTGTTCACTATTG 58.359 43.478 2.98 0.93 0.00 1.90
1487 1770 4.102524 TCTTGGTCAGGTGTTCACTATTGT 59.897 41.667 2.98 0.00 0.00 2.71
1488 1771 3.738982 TGGTCAGGTGTTCACTATTGTG 58.261 45.455 0.36 0.36 45.07 3.33
1582 1867 3.701241 TGCTAGCTCGTTTTTGTTTTGG 58.299 40.909 17.23 0.00 0.00 3.28
1620 1905 8.704668 TCACTATTATGTAATCATGTGTGGACT 58.295 33.333 0.00 0.00 35.70 3.85
1621 1906 9.981114 CACTATTATGTAATCATGTGTGGACTA 57.019 33.333 0.00 0.00 35.70 2.59
1643 1940 9.110502 GACTAATTAAATCCTCCAGTGGTTTAG 57.889 37.037 9.54 0.00 0.00 1.85
1645 1942 9.681062 CTAATTAAATCCTCCAGTGGTTTAGAA 57.319 33.333 9.54 0.00 0.00 2.10
1725 2038 5.657826 ATATAGCACTAGACTGCATCCTG 57.342 43.478 7.95 0.00 39.86 3.86
1753 2068 4.219288 GGTGAATCTTCTTCCTTGCATGTT 59.781 41.667 0.00 0.00 0.00 2.71
1755 2070 4.154737 TGAATCTTCTTCCTTGCATGTTCG 59.845 41.667 0.00 0.00 0.00 3.95
1766 2081 2.845486 TGCATGTTCGTGTTTTATCGC 58.155 42.857 0.00 0.00 0.00 4.58
1768 2083 2.840176 GCATGTTCGTGTTTTATCGCTG 59.160 45.455 0.00 0.00 0.00 5.18
1776 2091 2.095415 GTGTTTTATCGCTGGGGTTGTC 60.095 50.000 0.00 0.00 0.00 3.18
1805 2120 2.855660 TGCTTATGCATGTGATGTGC 57.144 45.000 10.16 3.72 45.31 4.57
1816 2131 5.105675 TGCATGTGATGTGCTATCAATTTGT 60.106 36.000 5.91 0.00 42.92 2.83
1825 2140 7.643569 TGTGCTATCAATTTGTGGATATTGT 57.356 32.000 0.00 0.00 34.25 2.71
1829 2147 7.066887 TGCTATCAATTTGTGGATATTGTTCGT 59.933 33.333 0.00 0.00 34.25 3.85
1830 2148 8.556194 GCTATCAATTTGTGGATATTGTTCGTA 58.444 33.333 0.00 0.00 34.25 3.43
1853 2171 9.745880 CGTAATAGTCCAACTAATGTAGTTCAT 57.254 33.333 0.00 0.00 45.38 2.57
1892 2210 6.151691 TGAATTCTTGCTATGTTGTTTCTGC 58.848 36.000 7.05 0.00 0.00 4.26
1898 2216 7.475015 TCTTGCTATGTTGTTTCTGCATATTC 58.525 34.615 0.00 0.00 0.00 1.75
1901 2219 8.504812 TGCTATGTTGTTTCTGCATATTCTTA 57.495 30.769 0.00 0.00 0.00 2.10
1902 2220 8.615211 TGCTATGTTGTTTCTGCATATTCTTAG 58.385 33.333 0.00 0.00 0.00 2.18
1909 2227 6.255670 TGTTTCTGCATATTCTTAGCTGTACG 59.744 38.462 0.00 0.00 0.00 3.67
1914 2232 4.209288 GCATATTCTTAGCTGTACGTGTGG 59.791 45.833 0.00 0.00 0.00 4.17
1915 2233 2.074547 TTCTTAGCTGTACGTGTGGC 57.925 50.000 0.00 0.00 0.00 5.01
1917 2235 2.439409 TCTTAGCTGTACGTGTGGCTA 58.561 47.619 0.00 6.21 36.40 3.93
1939 2257 8.198109 GGCTACTGAAATGTTTGATCTACTAGA 58.802 37.037 0.00 0.00 0.00 2.43
1983 2301 8.237267 AGTGCACTAGTTTGTTATAAGCAAATC 58.763 33.333 20.16 8.98 38.00 2.17
1984 2302 8.020819 GTGCACTAGTTTGTTATAAGCAAATCA 58.979 33.333 10.32 6.65 38.00 2.57
2018 2336 9.686683 AACATCATAGCTTTATTTGTTACTCCT 57.313 29.630 0.00 0.00 0.00 3.69
2040 2394 9.778741 CTCCTATACATCTCTATACATCTCTCC 57.221 40.741 0.00 0.00 0.00 3.71
2041 2395 8.719596 TCCTATACATCTCTATACATCTCTCCC 58.280 40.741 0.00 0.00 0.00 4.30
2139 2493 9.274065 GATTTGTTTCATTAATTACCTGACGTC 57.726 33.333 9.11 9.11 0.00 4.34
2144 2498 5.607477 TCATTAATTACCTGACGTCCCATC 58.393 41.667 14.12 0.00 0.00 3.51
2146 2500 5.687166 TTAATTACCTGACGTCCCATCTT 57.313 39.130 14.12 2.60 0.00 2.40
2152 2506 3.890147 ACCTGACGTCCCATCTTATCTAC 59.110 47.826 14.12 0.00 0.00 2.59
2154 2508 4.216687 CCTGACGTCCCATCTTATCTACTC 59.783 50.000 14.12 0.00 0.00 2.59
2155 2509 4.142790 TGACGTCCCATCTTATCTACTCC 58.857 47.826 14.12 0.00 0.00 3.85
2166 2520 0.461961 ATCTACTCCCAACAGCTCGC 59.538 55.000 0.00 0.00 0.00 5.03
2167 2521 1.153549 CTACTCCCAACAGCTCGCC 60.154 63.158 0.00 0.00 0.00 5.54
2172 2526 3.818787 CCAACAGCTCGCCATGCC 61.819 66.667 0.00 0.00 0.00 4.40
2176 2530 2.437180 CAGCTCGCCATGCCTTGA 60.437 61.111 0.00 0.00 0.00 3.02
2179 2533 0.682209 AGCTCGCCATGCCTTGATTT 60.682 50.000 0.00 0.00 0.00 2.17
2212 2566 8.865590 ACAAAATGTTCAAGTGTATTTGTACC 57.134 30.769 0.00 0.00 37.64 3.34
2213 2567 7.923878 ACAAAATGTTCAAGTGTATTTGTACCC 59.076 33.333 0.00 0.00 37.64 3.69
2214 2568 5.873179 ATGTTCAAGTGTATTTGTACCCG 57.127 39.130 0.00 0.00 30.18 5.28
2215 2569 3.499157 TGTTCAAGTGTATTTGTACCCGC 59.501 43.478 0.00 0.00 30.18 6.13
2216 2570 2.702261 TCAAGTGTATTTGTACCCGCC 58.298 47.619 0.00 0.00 0.00 6.13
2217 2571 2.038689 TCAAGTGTATTTGTACCCGCCA 59.961 45.455 0.00 0.00 0.00 5.69
2218 2572 3.013921 CAAGTGTATTTGTACCCGCCAT 58.986 45.455 0.00 0.00 0.00 4.40
2219 2573 4.081031 TCAAGTGTATTTGTACCCGCCATA 60.081 41.667 0.00 0.00 0.00 2.74
2220 2574 4.699925 AGTGTATTTGTACCCGCCATAT 57.300 40.909 0.00 0.00 0.00 1.78
2221 2575 5.811796 AGTGTATTTGTACCCGCCATATA 57.188 39.130 0.00 0.00 0.00 0.86
2222 2576 6.368779 AGTGTATTTGTACCCGCCATATAT 57.631 37.500 0.00 0.00 0.00 0.86
2223 2577 6.775708 AGTGTATTTGTACCCGCCATATATT 58.224 36.000 0.00 0.00 0.00 1.28
2224 2578 6.653320 AGTGTATTTGTACCCGCCATATATTG 59.347 38.462 0.00 0.00 0.00 1.90
2225 2579 6.651643 GTGTATTTGTACCCGCCATATATTGA 59.348 38.462 0.00 0.00 0.00 2.57
2226 2580 6.876789 TGTATTTGTACCCGCCATATATTGAG 59.123 38.462 0.00 0.00 0.00 3.02
2227 2581 4.967084 TTGTACCCGCCATATATTGAGT 57.033 40.909 0.00 0.00 0.00 3.41
2228 2582 4.265904 TGTACCCGCCATATATTGAGTG 57.734 45.455 0.00 0.00 0.00 3.51
2229 2583 3.644265 TGTACCCGCCATATATTGAGTGT 59.356 43.478 0.00 0.00 0.00 3.55
2230 2584 3.857157 ACCCGCCATATATTGAGTGTT 57.143 42.857 0.00 0.00 0.00 3.32
2231 2585 3.740115 ACCCGCCATATATTGAGTGTTC 58.260 45.455 0.00 0.00 0.00 3.18
2232 2586 3.135712 ACCCGCCATATATTGAGTGTTCA 59.864 43.478 0.00 0.00 0.00 3.18
2233 2587 3.748048 CCCGCCATATATTGAGTGTTCAG 59.252 47.826 0.00 0.00 34.15 3.02
2234 2588 4.503123 CCCGCCATATATTGAGTGTTCAGA 60.503 45.833 0.00 0.00 34.15 3.27
2235 2589 5.056480 CCGCCATATATTGAGTGTTCAGAA 58.944 41.667 0.00 0.00 34.15 3.02
2236 2590 5.527214 CCGCCATATATTGAGTGTTCAGAAA 59.473 40.000 0.00 0.00 34.15 2.52
2237 2591 6.038161 CCGCCATATATTGAGTGTTCAGAAAA 59.962 38.462 0.00 0.00 34.15 2.29
2238 2592 7.415095 CCGCCATATATTGAGTGTTCAGAAAAA 60.415 37.037 0.00 0.00 34.15 1.94
2239 2593 7.641411 CGCCATATATTGAGTGTTCAGAAAAAG 59.359 37.037 0.00 0.00 34.15 2.27
2240 2594 8.677300 GCCATATATTGAGTGTTCAGAAAAAGA 58.323 33.333 0.00 0.00 34.15 2.52
2245 2599 9.971922 ATATTGAGTGTTCAGAAAAAGAAAAGG 57.028 29.630 0.00 0.00 34.15 3.11
2246 2600 5.650543 TGAGTGTTCAGAAAAAGAAAAGGC 58.349 37.500 0.00 0.00 0.00 4.35
2247 2601 5.184864 TGAGTGTTCAGAAAAAGAAAAGGCA 59.815 36.000 0.00 0.00 0.00 4.75
2248 2602 5.410924 AGTGTTCAGAAAAAGAAAAGGCAC 58.589 37.500 0.00 0.00 0.00 5.01
2249 2603 5.047377 AGTGTTCAGAAAAAGAAAAGGCACA 60.047 36.000 0.00 0.00 0.00 4.57
2250 2604 5.062183 GTGTTCAGAAAAAGAAAAGGCACAC 59.938 40.000 0.00 0.00 0.00 3.82
2251 2605 5.047377 TGTTCAGAAAAAGAAAAGGCACACT 60.047 36.000 0.00 0.00 0.00 3.55
2252 2606 5.248870 TCAGAAAAAGAAAAGGCACACTC 57.751 39.130 0.00 0.00 0.00 3.51
2253 2607 4.704540 TCAGAAAAAGAAAAGGCACACTCA 59.295 37.500 0.00 0.00 0.00 3.41
2254 2608 5.184864 TCAGAAAAAGAAAAGGCACACTCAA 59.815 36.000 0.00 0.00 0.00 3.02
2255 2609 6.044682 CAGAAAAAGAAAAGGCACACTCAAT 58.955 36.000 0.00 0.00 0.00 2.57
2256 2610 6.536224 CAGAAAAAGAAAAGGCACACTCAATT 59.464 34.615 0.00 0.00 0.00 2.32
2257 2611 7.064966 CAGAAAAAGAAAAGGCACACTCAATTT 59.935 33.333 0.00 0.00 0.00 1.82
2258 2612 8.257306 AGAAAAAGAAAAGGCACACTCAATTTA 58.743 29.630 0.00 0.00 0.00 1.40
2259 2613 8.962884 AAAAAGAAAAGGCACACTCAATTTAT 57.037 26.923 0.00 0.00 0.00 1.40
2262 2616 9.860898 AAAGAAAAGGCACACTCAATTTATATC 57.139 29.630 0.00 0.00 0.00 1.63
2263 2617 8.814038 AGAAAAGGCACACTCAATTTATATCT 57.186 30.769 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.441792 TGACTGCGCATAGTGTATTGAAT 58.558 39.130 12.24 0.00 0.00 2.57
22 23 3.733443 TCATGACTGCGCATAGTGTAT 57.267 42.857 12.24 0.31 0.00 2.29
33 36 3.176708 GCACACAATGAATCATGACTGC 58.823 45.455 0.00 0.00 0.00 4.40
72 75 4.583871 AGAAGCTCTTGTCATTGTTAGGG 58.416 43.478 0.00 0.00 0.00 3.53
120 131 3.691118 TCTCAACAAATAGGCACATCTGC 59.309 43.478 0.00 0.00 43.41 4.26
121 132 5.181009 TCTCTCAACAAATAGGCACATCTG 58.819 41.667 0.00 0.00 0.00 2.90
131 142 4.701651 CACAATGGCCTCTCTCAACAAATA 59.298 41.667 3.32 0.00 0.00 1.40
147 158 1.280710 TGGCCTACCTGTACACAATGG 59.719 52.381 3.32 0.00 36.63 3.16
148 159 2.779755 TGGCCTACCTGTACACAATG 57.220 50.000 3.32 0.00 36.63 2.82
149 160 2.092429 CCATGGCCTACCTGTACACAAT 60.092 50.000 3.32 0.00 36.63 2.71
150 161 1.280710 CCATGGCCTACCTGTACACAA 59.719 52.381 3.32 0.00 36.63 3.33
152 163 1.200519 TCCATGGCCTACCTGTACAC 58.799 55.000 6.96 0.00 36.63 2.90
159 176 1.529244 GGTGCATCCATGGCCTACC 60.529 63.158 6.96 9.07 35.97 3.18
179 196 8.082852 TGTTTAAAGAATTTTTATAGCACGCCA 58.917 29.630 0.00 0.00 40.09 5.69
258 276 4.630644 ATCAGATCCGACCAGCAATAAT 57.369 40.909 0.00 0.00 0.00 1.28
259 277 5.745312 ATATCAGATCCGACCAGCAATAA 57.255 39.130 0.00 0.00 0.00 1.40
260 278 5.245977 TCAATATCAGATCCGACCAGCAATA 59.754 40.000 0.00 0.00 0.00 1.90
261 279 4.040829 TCAATATCAGATCCGACCAGCAAT 59.959 41.667 0.00 0.00 0.00 3.56
262 280 3.387699 TCAATATCAGATCCGACCAGCAA 59.612 43.478 0.00 0.00 0.00 3.91
263 281 2.965147 TCAATATCAGATCCGACCAGCA 59.035 45.455 0.00 0.00 0.00 4.41
264 282 3.256879 TCTCAATATCAGATCCGACCAGC 59.743 47.826 0.00 0.00 0.00 4.85
265 283 5.226396 GTTCTCAATATCAGATCCGACCAG 58.774 45.833 0.00 0.00 0.00 4.00
266 284 4.039245 GGTTCTCAATATCAGATCCGACCA 59.961 45.833 0.00 0.00 0.00 4.02
267 285 4.282195 AGGTTCTCAATATCAGATCCGACC 59.718 45.833 0.00 0.00 35.60 4.79
268 286 5.461032 AGGTTCTCAATATCAGATCCGAC 57.539 43.478 0.00 0.00 35.60 4.79
269 287 5.184096 GCTAGGTTCTCAATATCAGATCCGA 59.816 44.000 0.00 0.00 35.60 4.55
270 288 5.184864 AGCTAGGTTCTCAATATCAGATCCG 59.815 44.000 0.00 0.00 35.60 4.18
282 300 3.306088 CCGACAAAAGAGCTAGGTTCTCA 60.306 47.826 0.00 0.00 33.15 3.27
283 301 3.254892 CCGACAAAAGAGCTAGGTTCTC 58.745 50.000 0.00 0.00 0.00 2.87
286 304 3.830755 TCTACCGACAAAAGAGCTAGGTT 59.169 43.478 0.00 0.00 0.00 3.50
303 321 7.999450 ACTAGGCATAGTACTATGTTCTACC 57.001 40.000 33.06 26.52 43.57 3.18
338 356 1.165907 AAGCTTGCGCAGTTGCACTA 61.166 50.000 25.71 4.66 46.25 2.74
452 500 7.015001 TGCAATATGTGTATGCCCATTATCAAA 59.985 33.333 0.00 0.00 0.00 2.69
455 503 6.513806 TGCAATATGTGTATGCCCATTATC 57.486 37.500 0.00 0.00 0.00 1.75
461 509 6.923012 TCATATTTGCAATATGTGTATGCCC 58.077 36.000 19.43 0.00 34.51 5.36
482 582 9.932207 ATGTCATTTGTGTTTCACATATTTCAT 57.068 25.926 3.43 8.10 44.16 2.57
483 583 9.409312 GATGTCATTTGTGTTTCACATATTTCA 57.591 29.630 3.43 6.55 44.16 2.69
484 584 9.409312 TGATGTCATTTGTGTTTCACATATTTC 57.591 29.630 3.43 2.10 44.16 2.17
530 667 9.550406 ACAAAAATAATATGCTCATGGGAATTG 57.450 29.630 0.00 0.00 0.00 2.32
531 668 9.550406 CACAAAAATAATATGCTCATGGGAATT 57.450 29.630 0.00 0.00 0.00 2.17
533 670 8.076910 ACACAAAAATAATATGCTCATGGGAA 57.923 30.769 0.00 0.00 0.00 3.97
537 674 9.738832 TCATGACACAAAAATAATATGCTCATG 57.261 29.630 0.00 0.00 34.14 3.07
572 737 9.689075 CGTACACAAGACAGAATATTATGTTTG 57.311 33.333 16.39 20.24 31.94 2.93
582 747 3.067106 CAAGGCGTACACAAGACAGAAT 58.933 45.455 0.00 0.00 0.00 2.40
589 754 2.704725 AAATGCAAGGCGTACACAAG 57.295 45.000 0.00 0.00 0.00 3.16
590 755 3.444703 AAAAATGCAAGGCGTACACAA 57.555 38.095 0.00 0.00 0.00 3.33
611 777 4.298626 AGTTATGGCTACTTCCTCATCCA 58.701 43.478 0.00 0.00 0.00 3.41
612 778 4.965200 AGTTATGGCTACTTCCTCATCC 57.035 45.455 0.00 0.00 0.00 3.51
618 784 5.974108 TGACTTGTAGTTATGGCTACTTCC 58.026 41.667 9.07 0.00 41.27 3.46
620 786 8.307582 AGTATGACTTGTAGTTATGGCTACTT 57.692 34.615 9.07 0.00 41.27 2.24
693 939 9.747293 CCATTTTTAAAATTTGCCTGAATTTGT 57.253 25.926 0.55 0.03 38.75 2.83
694 940 9.747293 ACCATTTTTAAAATTTGCCTGAATTTG 57.253 25.926 0.55 0.00 38.75 2.32
726 975 9.520515 AGTTGTGTAGATCCATGAAAAATTACT 57.479 29.630 0.00 0.00 0.00 2.24
731 980 6.040278 TGCAAGTTGTGTAGATCCATGAAAAA 59.960 34.615 4.48 0.00 0.00 1.94
732 981 5.534278 TGCAAGTTGTGTAGATCCATGAAAA 59.466 36.000 4.48 0.00 0.00 2.29
733 982 5.069318 TGCAAGTTGTGTAGATCCATGAAA 58.931 37.500 4.48 0.00 0.00 2.69
760 1009 1.592669 CGATGGCCGTCTGATGGAC 60.593 63.158 22.53 17.62 41.28 4.02
788 1037 9.209048 TCAATATAGAATTGGTACCTAGTGTGT 57.791 33.333 14.36 4.42 0.00 3.72
814 1063 6.206829 GGTTGCTTTTGTCATCTACTACCTTT 59.793 38.462 0.00 0.00 0.00 3.11
821 1070 5.122396 CAGGTAGGTTGCTTTTGTCATCTAC 59.878 44.000 0.00 0.00 0.00 2.59
822 1071 5.245531 CAGGTAGGTTGCTTTTGTCATCTA 58.754 41.667 0.00 0.00 0.00 1.98
823 1072 4.074970 CAGGTAGGTTGCTTTTGTCATCT 58.925 43.478 0.00 0.00 0.00 2.90
850 1099 1.154727 CTCGCGGCGTGTGTTTTAC 60.155 57.895 22.90 0.00 0.00 2.01
877 1126 6.533819 AATTTAGTTGTGTGTTCGATCGAA 57.466 33.333 25.96 25.96 0.00 3.71
895 1144 3.074675 TGGAAGCCTGGCGTTAATTTA 57.925 42.857 13.96 0.00 0.00 1.40
896 1145 1.917872 TGGAAGCCTGGCGTTAATTT 58.082 45.000 13.96 0.00 0.00 1.82
897 1146 1.917872 TTGGAAGCCTGGCGTTAATT 58.082 45.000 13.96 0.72 0.00 1.40
898 1147 1.818674 CTTTGGAAGCCTGGCGTTAAT 59.181 47.619 13.96 0.00 0.00 1.40
899 1148 1.202830 TCTTTGGAAGCCTGGCGTTAA 60.203 47.619 13.96 7.07 0.00 2.01
900 1149 0.398696 TCTTTGGAAGCCTGGCGTTA 59.601 50.000 13.96 0.50 0.00 3.18
901 1150 0.467290 TTCTTTGGAAGCCTGGCGTT 60.467 50.000 13.96 8.05 0.00 4.84
902 1151 0.467290 TTTCTTTGGAAGCCTGGCGT 60.467 50.000 13.96 10.59 32.61 5.68
903 1152 0.673437 TTTTCTTTGGAAGCCTGGCG 59.327 50.000 13.96 0.00 32.61 5.69
936 1188 1.136984 GGTGTCGACGACCTAGCTG 59.863 63.158 24.33 0.00 0.00 4.24
977 1230 4.592192 ACATCGATCGGCCTGCGG 62.592 66.667 16.41 0.03 0.00 5.69
981 1234 2.797278 GGTGGACATCGATCGGCCT 61.797 63.158 16.41 0.00 0.00 5.19
996 1261 1.091771 GGATCACGCAGTCCATGGTG 61.092 60.000 12.58 4.64 41.61 4.17
997 1262 1.221840 GGATCACGCAGTCCATGGT 59.778 57.895 12.58 0.00 41.61 3.55
1010 1275 1.303948 CCCAGCACCACATGGATCA 59.696 57.895 4.53 0.00 39.02 2.92
1139 1404 4.664677 GAGTCGGCGCTGGTGTGT 62.665 66.667 17.88 0.00 0.00 3.72
1160 1425 3.507009 GAGTCGACCCCGAGACCG 61.507 72.222 13.01 0.00 46.52 4.79
1162 1427 2.408241 CCTGAGTCGACCCCGAGAC 61.408 68.421 13.01 0.00 46.52 3.36
1163 1428 2.045242 CCTGAGTCGACCCCGAGA 60.045 66.667 13.01 0.00 46.52 4.04
1164 1429 3.827898 GCCTGAGTCGACCCCGAG 61.828 72.222 13.01 2.89 46.52 4.63
1165 1430 4.671590 TGCCTGAGTCGACCCCGA 62.672 66.667 13.01 0.00 43.35 5.14
1166 1431 4.135153 CTGCCTGAGTCGACCCCG 62.135 72.222 13.01 0.00 37.07 5.73
1167 1432 2.997897 ACTGCCTGAGTCGACCCC 60.998 66.667 13.01 5.21 0.00 4.95
1168 1433 2.574399 GACTGCCTGAGTCGACCC 59.426 66.667 13.01 0.00 41.91 4.46
1174 1439 2.681778 CCCCGAGACTGCCTGAGT 60.682 66.667 0.00 0.00 37.76 3.41
1175 1440 2.681778 ACCCCGAGACTGCCTGAG 60.682 66.667 0.00 0.00 0.00 3.35
1176 1441 2.680352 GACCCCGAGACTGCCTGA 60.680 66.667 0.00 0.00 0.00 3.86
1177 1442 4.135153 CGACCCCGAGACTGCCTG 62.135 72.222 0.00 0.00 38.22 4.85
1178 1443 4.361971 TCGACCCCGAGACTGCCT 62.362 66.667 0.00 0.00 40.30 4.75
1179 1444 4.131088 GTCGACCCCGAGACTGCC 62.131 72.222 3.51 0.00 46.52 4.85
1180 1445 4.477975 CGTCGACCCCGAGACTGC 62.478 72.222 10.58 0.00 46.52 4.40
1181 1446 4.477975 GCGTCGACCCCGAGACTG 62.478 72.222 10.58 0.00 46.52 3.51
1197 1462 1.606189 GGGGCGTAGTAGTAGTAGTGC 59.394 57.143 0.00 2.00 0.00 4.40
1246 1511 2.103143 CTAGTGCCTGTCGAGCCG 59.897 66.667 0.00 0.00 0.00 5.52
1264 1529 4.394712 GCTCACCGGTCCCCAGTG 62.395 72.222 2.59 0.00 0.00 3.66
1265 1530 3.233919 TAGCTCACCGGTCCCCAGT 62.234 63.158 2.59 0.00 0.00 4.00
1266 1531 2.363795 TAGCTCACCGGTCCCCAG 60.364 66.667 2.59 0.00 0.00 4.45
1267 1532 2.682494 GTAGCTCACCGGTCCCCA 60.682 66.667 2.59 0.00 0.00 4.96
1268 1533 2.682494 TGTAGCTCACCGGTCCCC 60.682 66.667 2.59 0.00 0.00 4.81
1269 1534 2.577593 GTGTAGCTCACCGGTCCC 59.422 66.667 2.59 0.00 40.84 4.46
1328 1598 8.798859 AGCACTGAATTTCATTATTACTCACT 57.201 30.769 0.00 0.00 0.00 3.41
1376 1646 9.906111 CACATATATTGCTTAATATACAGTGCG 57.094 33.333 14.56 0.00 34.25 5.34
1419 1689 6.808704 GCATGCGAGACTGATCAATTACTATA 59.191 38.462 0.00 0.00 0.00 1.31
1434 1704 1.746615 ACCACCATGCATGCGAGAC 60.747 57.895 21.69 0.00 0.00 3.36
1483 1766 5.184479 CCTGGAGTCATCACAAATTCACAAT 59.816 40.000 0.00 0.00 0.00 2.71
1484 1767 4.520111 CCTGGAGTCATCACAAATTCACAA 59.480 41.667 0.00 0.00 0.00 3.33
1485 1768 4.074259 CCTGGAGTCATCACAAATTCACA 58.926 43.478 0.00 0.00 0.00 3.58
1486 1769 3.441572 CCCTGGAGTCATCACAAATTCAC 59.558 47.826 0.00 0.00 0.00 3.18
1487 1770 3.074390 ACCCTGGAGTCATCACAAATTCA 59.926 43.478 0.00 0.00 0.00 2.57
1488 1771 3.690460 ACCCTGGAGTCATCACAAATTC 58.310 45.455 0.00 0.00 0.00 2.17
1489 1772 3.814504 ACCCTGGAGTCATCACAAATT 57.185 42.857 0.00 0.00 0.00 1.82
1490 1773 3.814504 AACCCTGGAGTCATCACAAAT 57.185 42.857 0.00 0.00 0.00 2.32
1531 1816 2.650322 AGAAACACAAATGGACACCGT 58.350 42.857 0.00 0.00 0.00 4.83
1616 1901 6.002653 ACCACTGGAGGATTTAATTAGTCC 57.997 41.667 0.71 9.76 0.00 3.85
1617 1902 7.939784 AAACCACTGGAGGATTTAATTAGTC 57.060 36.000 0.71 0.00 0.00 2.59
1650 1947 6.944234 TCTCTCGATTCTTCTTGTGCTATA 57.056 37.500 0.00 0.00 0.00 1.31
1654 1967 5.807520 TGTTATCTCTCGATTCTTCTTGTGC 59.192 40.000 0.00 0.00 0.00 4.57
1657 1970 7.254137 TGTCTGTTATCTCTCGATTCTTCTTG 58.746 38.462 0.00 0.00 0.00 3.02
1661 1974 7.397892 TCTTGTCTGTTATCTCTCGATTCTT 57.602 36.000 0.00 0.00 0.00 2.52
1694 2007 8.860088 TGCAGTCTAGTGCTATATATTCAGAAA 58.140 33.333 10.90 0.00 44.32 2.52
1696 2009 8.586879 ATGCAGTCTAGTGCTATATATTCAGA 57.413 34.615 10.90 0.00 44.32 3.27
1697 2010 7.920151 GGATGCAGTCTAGTGCTATATATTCAG 59.080 40.741 10.90 0.00 44.32 3.02
1698 2011 7.617329 AGGATGCAGTCTAGTGCTATATATTCA 59.383 37.037 10.90 0.00 44.32 2.57
1699 2012 7.920151 CAGGATGCAGTCTAGTGCTATATATTC 59.080 40.741 10.90 0.00 44.32 1.75
1700 2013 7.780064 CAGGATGCAGTCTAGTGCTATATATT 58.220 38.462 10.90 0.00 44.32 1.28
1701 2014 7.345422 CAGGATGCAGTCTAGTGCTATATAT 57.655 40.000 10.90 0.00 44.32 0.86
1702 2015 6.765915 CAGGATGCAGTCTAGTGCTATATA 57.234 41.667 10.90 0.00 44.32 0.86
1725 2038 4.036144 GCAAGGAAGAAGATTCACCTATGC 59.964 45.833 17.75 17.75 36.02 3.14
1734 2047 4.074970 ACGAACATGCAAGGAAGAAGATT 58.925 39.130 0.00 0.00 0.00 2.40
1753 2068 0.322322 ACCCCAGCGATAAAACACGA 59.678 50.000 0.00 0.00 0.00 4.35
1755 2070 1.883926 ACAACCCCAGCGATAAAACAC 59.116 47.619 0.00 0.00 0.00 3.32
1766 2081 2.355756 CAGCGATTAATGACAACCCCAG 59.644 50.000 0.00 0.00 0.00 4.45
1768 2083 1.065551 GCAGCGATTAATGACAACCCC 59.934 52.381 0.00 0.00 0.00 4.95
1804 2119 7.417612 ACGAACAATATCCACAAATTGATAGC 58.582 34.615 0.00 0.00 36.73 2.97
1816 2131 7.788026 AGTTGGACTATTACGAACAATATCCA 58.212 34.615 0.00 3.57 32.39 3.41
1853 2171 9.507329 AGCAAGAATTCAGTAATTAGTTCTCAA 57.493 29.630 8.44 0.00 35.41 3.02
1868 2186 6.151691 GCAGAAACAACATAGCAAGAATTCA 58.848 36.000 8.44 0.00 0.00 2.57
1870 2188 6.088016 TGCAGAAACAACATAGCAAGAATT 57.912 33.333 0.00 0.00 0.00 2.17
1878 2196 8.834465 AGCTAAGAATATGCAGAAACAACATAG 58.166 33.333 0.00 0.00 30.31 2.23
1880 2198 7.121759 ACAGCTAAGAATATGCAGAAACAACAT 59.878 33.333 0.00 0.00 0.00 2.71
1892 2210 4.209288 GCCACACGTACAGCTAAGAATATG 59.791 45.833 0.00 0.00 0.00 1.78
1898 2216 2.163815 AGTAGCCACACGTACAGCTAAG 59.836 50.000 12.52 0.00 39.40 2.18
1901 2219 0.243907 CAGTAGCCACACGTACAGCT 59.756 55.000 9.88 9.88 39.37 4.24
1902 2220 0.242825 TCAGTAGCCACACGTACAGC 59.757 55.000 0.00 0.00 0.00 4.40
1909 2227 4.829064 TCAAACATTTCAGTAGCCACAC 57.171 40.909 0.00 0.00 0.00 3.82
1914 2232 9.026074 GTCTAGTAGATCAAACATTTCAGTAGC 57.974 37.037 2.51 0.00 0.00 3.58
1917 2235 8.589338 ACAGTCTAGTAGATCAAACATTTCAGT 58.411 33.333 2.51 0.00 0.00 3.41
1939 2257 8.396272 AGTGCACTTTAATCTTTGATTACAGT 57.604 30.769 15.25 11.21 0.00 3.55
1956 2274 7.504924 TTGCTTATAACAAACTAGTGCACTT 57.495 32.000 27.06 4.60 0.00 3.16
1958 2276 8.020819 TGATTTGCTTATAACAAACTAGTGCAC 58.979 33.333 9.40 9.40 39.65 4.57
2014 2332 9.778741 GGAGAGATGTATAGAGATGTATAGGAG 57.221 40.741 0.00 0.00 0.00 3.69
2015 2333 8.719596 GGGAGAGATGTATAGAGATGTATAGGA 58.280 40.741 0.00 0.00 0.00 2.94
2016 2334 8.498575 TGGGAGAGATGTATAGAGATGTATAGG 58.501 40.741 0.00 0.00 0.00 2.57
2017 2335 9.559732 CTGGGAGAGATGTATAGAGATGTATAG 57.440 40.741 0.00 0.00 0.00 1.31
2018 2336 8.498575 CCTGGGAGAGATGTATAGAGATGTATA 58.501 40.741 0.00 0.00 0.00 1.47
2020 2338 6.726379 CCTGGGAGAGATGTATAGAGATGTA 58.274 44.000 0.00 0.00 0.00 2.29
2021 2339 5.579047 CCTGGGAGAGATGTATAGAGATGT 58.421 45.833 0.00 0.00 0.00 3.06
2022 2340 4.402155 GCCTGGGAGAGATGTATAGAGATG 59.598 50.000 0.00 0.00 0.00 2.90
2026 2344 2.375509 TCGCCTGGGAGAGATGTATAGA 59.624 50.000 0.00 0.00 0.00 1.98
2027 2345 2.752354 CTCGCCTGGGAGAGATGTATAG 59.248 54.545 13.83 0.00 43.22 1.31
2028 2346 2.555448 CCTCGCCTGGGAGAGATGTATA 60.555 54.545 19.34 0.00 43.22 1.47
2029 2347 1.626686 CTCGCCTGGGAGAGATGTAT 58.373 55.000 13.83 0.00 43.22 2.29
2054 2408 8.294577 AGAAACCAATTAAATGACCGAGTTTAC 58.705 33.333 0.00 0.00 0.00 2.01
2055 2409 8.398878 AGAAACCAATTAAATGACCGAGTTTA 57.601 30.769 0.00 0.00 0.00 2.01
2061 2415 8.040716 ACTTAGAGAAACCAATTAAATGACCG 57.959 34.615 0.00 0.00 0.00 4.79
2111 2465 9.840427 CGTCAGGTAATTAATGAAACAAATCTT 57.160 29.630 3.79 0.00 0.00 2.40
2139 2493 4.503991 GCTGTTGGGAGTAGATAAGATGGG 60.504 50.000 0.00 0.00 0.00 4.00
2144 2498 3.797184 GCGAGCTGTTGGGAGTAGATAAG 60.797 52.174 0.00 0.00 0.00 1.73
2146 2500 1.681793 GCGAGCTGTTGGGAGTAGATA 59.318 52.381 0.00 0.00 0.00 1.98
2152 2506 2.110967 CATGGCGAGCTGTTGGGAG 61.111 63.158 0.00 0.00 0.00 4.30
2154 2508 3.818787 GCATGGCGAGCTGTTGGG 61.819 66.667 0.00 0.00 0.00 4.12
2155 2509 3.818787 GGCATGGCGAGCTGTTGG 61.819 66.667 2.41 0.00 0.00 3.77
2166 2520 7.670009 TTGTTATTTCAAAATCAAGGCATGG 57.330 32.000 0.00 0.00 0.00 3.66
2192 2546 4.155280 GCGGGTACAAATACACTTGAACAT 59.845 41.667 0.00 0.00 31.91 2.71
2200 2554 6.651643 TCAATATATGGCGGGTACAAATACAC 59.348 38.462 0.00 0.00 32.40 2.90
2202 2556 6.877322 ACTCAATATATGGCGGGTACAAATAC 59.123 38.462 0.00 0.00 0.00 1.89
2208 2562 4.267349 ACACTCAATATATGGCGGGTAC 57.733 45.455 0.00 0.00 0.00 3.34
2209 2563 4.345547 TGAACACTCAATATATGGCGGGTA 59.654 41.667 0.00 0.00 0.00 3.69
2210 2564 3.135712 TGAACACTCAATATATGGCGGGT 59.864 43.478 0.00 0.00 0.00 5.28
2211 2565 3.738982 TGAACACTCAATATATGGCGGG 58.261 45.455 0.00 0.00 0.00 6.13
2212 2566 4.631131 TCTGAACACTCAATATATGGCGG 58.369 43.478 0.00 0.00 0.00 6.13
2213 2567 6.603237 TTTCTGAACACTCAATATATGGCG 57.397 37.500 0.00 0.00 0.00 5.69
2214 2568 8.677300 TCTTTTTCTGAACACTCAATATATGGC 58.323 33.333 0.00 0.00 0.00 4.40
2219 2573 9.971922 CCTTTTCTTTTTCTGAACACTCAATAT 57.028 29.630 0.00 0.00 0.00 1.28
2220 2574 7.920682 GCCTTTTCTTTTTCTGAACACTCAATA 59.079 33.333 0.00 0.00 0.00 1.90
2221 2575 6.758416 GCCTTTTCTTTTTCTGAACACTCAAT 59.242 34.615 0.00 0.00 0.00 2.57
2222 2576 6.099341 GCCTTTTCTTTTTCTGAACACTCAA 58.901 36.000 0.00 0.00 0.00 3.02
2223 2577 5.184864 TGCCTTTTCTTTTTCTGAACACTCA 59.815 36.000 0.00 0.00 0.00 3.41
2224 2578 5.516696 GTGCCTTTTCTTTTTCTGAACACTC 59.483 40.000 0.00 0.00 0.00 3.51
2225 2579 5.047377 TGTGCCTTTTCTTTTTCTGAACACT 60.047 36.000 0.00 0.00 0.00 3.55
2226 2580 5.062183 GTGTGCCTTTTCTTTTTCTGAACAC 59.938 40.000 0.00 0.00 0.00 3.32
2227 2581 5.047377 AGTGTGCCTTTTCTTTTTCTGAACA 60.047 36.000 0.00 0.00 0.00 3.18
2228 2582 5.410924 AGTGTGCCTTTTCTTTTTCTGAAC 58.589 37.500 0.00 0.00 0.00 3.18
2229 2583 5.184864 TGAGTGTGCCTTTTCTTTTTCTGAA 59.815 36.000 0.00 0.00 0.00 3.02
2230 2584 4.704540 TGAGTGTGCCTTTTCTTTTTCTGA 59.295 37.500 0.00 0.00 0.00 3.27
2231 2585 4.997565 TGAGTGTGCCTTTTCTTTTTCTG 58.002 39.130 0.00 0.00 0.00 3.02
2232 2586 5.659440 TTGAGTGTGCCTTTTCTTTTTCT 57.341 34.783 0.00 0.00 0.00 2.52
2233 2587 6.908870 AATTGAGTGTGCCTTTTCTTTTTC 57.091 33.333 0.00 0.00 0.00 2.29
2234 2588 8.962884 ATAAATTGAGTGTGCCTTTTCTTTTT 57.037 26.923 0.00 0.00 0.00 1.94
2236 2590 9.860898 GATATAAATTGAGTGTGCCTTTTCTTT 57.139 29.630 0.00 0.00 0.00 2.52
2237 2591 9.247861 AGATATAAATTGAGTGTGCCTTTTCTT 57.752 29.630 0.00 0.00 0.00 2.52
2238 2592 8.814038 AGATATAAATTGAGTGTGCCTTTTCT 57.186 30.769 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.