Multiple sequence alignment - TraesCS7D01G263100

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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 TraesCS7D01G263100 chr7D 100.000 3827 0 0 1 3827 242786484 242782658 0.000000e+00 7068
1 TraesCS7D01G263100 chr7B 90.937 3233 89 78 725 3827 218549858 218546700 0.000000e+00 4159
2 TraesCS7D01G263100 chr7B 90.594 202 7 4 75 270 218550524 218550329 1.360000e-64 257
3 TraesCS7D01G263100 chr7B 93.617 94 2 1 1 90 218550829 218550736 1.850000e-28 137
4 TraesCS7D01G263100 chr7B 82.432 148 16 6 527 665 218550087 218549941 1.870000e-23 121
5 TraesCS7D01G263100 chr7A 89.796 3283 134 79 608 3793 254896197 254899375 0.000000e+00 4021
6 TraesCS7D01G263100 chr7A 89.818 275 10 10 3 266 254895694 254895961 1.700000e-88 337
7 TraesCS7D01G263100 chr7A 89.412 85 3 3 605 689 254895624 254895702 6.760000e-18 102
8 TraesCS7D01G263100 chr5D 82.292 384 64 4 1796 2177 393995090 393994709 2.850000e-86 329
9 TraesCS7D01G263100 chr5B 82.031 384 59 8 1796 2174 473872373 473871995 6.170000e-83 318
10 TraesCS7D01G263100 chr5A 81.890 381 63 6 1797 2174 496011465 496011088 2.220000e-82 316


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 TraesCS7D01G263100 chr7D 242782658 242786484 3826 True 7068.000000 7068 100.000000 1 3827 1 chr7D.!!$R1 3826
1 TraesCS7D01G263100 chr7B 218546700 218550829 4129 True 1168.500000 4159 89.395000 1 3827 4 chr7B.!!$R1 3826
2 TraesCS7D01G263100 chr7A 254895624 254899375 3751 False 1486.666667 4021 89.675333 3 3793 3 chr7A.!!$F1 3790

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
377 841 0.099259 CCGATGCGTACGAGTACCAA 59.901 55.0 21.65 0.0 32.61 3.67 F
1234 1856 0.035056 AGGGAAGCTAGCGCACAATT 60.035 50.0 11.47 0.0 39.10 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2194 2867 0.10104 CAGAAGAGAGAGAGGCAGCG 59.899 60.0 0.00 0.0 0.00 5.18 R
3192 3907 0.17915 GACGCGAGAGAGACTGCAAT 60.179 55.0 15.93 0.0 33.96 3.56 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
28 100 7.501844 AGACAGGAGTAGTTATTGAAATAGCC 58.498 38.462 0.00 0.00 0.00 3.93
106 405 6.069556 TCTCCTGTAGAGGTATCACTAACACT 60.070 42.308 5.71 0.00 43.44 3.55
118 417 9.257651 GGTATCACTAACACTATAACCAACATC 57.742 37.037 0.00 0.00 0.00 3.06
157 456 0.179094 AGCGTTTCGTGAAGACACCA 60.179 50.000 0.00 0.00 43.34 4.17
183 483 0.235665 CCGTGTCACATCAACTGCAC 59.764 55.000 3.42 0.00 0.00 4.57
270 578 5.588240 ACAGCAGTAAACAAGGTTTAAAGC 58.412 37.500 9.39 9.39 0.00 3.51
272 580 6.183360 ACAGCAGTAAACAAGGTTTAAAGCAT 60.183 34.615 18.91 4.69 0.00 3.79
274 582 6.923508 AGCAGTAAACAAGGTTTAAAGCATTC 59.076 34.615 18.91 3.25 0.00 2.67
276 584 5.918576 AGTAAACAAGGTTTAAAGCATTCGC 59.081 36.000 18.91 7.20 38.99 4.70
277 585 4.314740 AACAAGGTTTAAAGCATTCGCA 57.685 36.364 18.91 0.00 42.27 5.10
278 586 4.314740 ACAAGGTTTAAAGCATTCGCAA 57.685 36.364 18.91 0.00 42.27 4.85
279 587 4.688021 ACAAGGTTTAAAGCATTCGCAAA 58.312 34.783 18.91 0.00 42.27 3.68
280 588 5.112686 ACAAGGTTTAAAGCATTCGCAAAA 58.887 33.333 18.91 0.00 42.27 2.44
281 589 5.582665 ACAAGGTTTAAAGCATTCGCAAAAA 59.417 32.000 18.91 0.00 42.27 1.94
315 623 9.143155 AGGTTTAAAGAAGCTGATTTTCCTTTA 57.857 29.630 2.09 0.00 0.00 1.85
321 629 9.479549 AAAGAAGCTGATTTTCCTTTATATGGA 57.520 29.630 0.00 0.00 0.00 3.41
322 630 8.457238 AGAAGCTGATTTTCCTTTATATGGAC 57.543 34.615 0.00 0.00 32.65 4.02
323 631 8.055181 AGAAGCTGATTTTCCTTTATATGGACA 58.945 33.333 0.00 0.00 32.65 4.02
325 633 8.593945 AGCTGATTTTCCTTTATATGGACAAA 57.406 30.769 0.00 0.00 32.65 2.83
326 634 8.689972 AGCTGATTTTCCTTTATATGGACAAAG 58.310 33.333 0.00 0.00 32.65 2.77
334 798 9.919416 TTCCTTTATATGGACAAAGAATGATGA 57.081 29.630 0.00 0.00 34.35 2.92
347 811 7.929785 ACAAAGAATGATGATGCTTTCAGTTTT 59.070 29.630 0.00 0.00 35.49 2.43
348 812 7.884816 AAGAATGATGATGCTTTCAGTTTTG 57.115 32.000 0.00 0.00 37.89 2.44
350 814 7.088905 AGAATGATGATGCTTTCAGTTTTGTC 58.911 34.615 0.00 0.00 37.89 3.18
352 816 4.514816 TGATGATGCTTTCAGTTTTGTCGA 59.485 37.500 0.00 0.00 37.89 4.20
370 834 4.201679 CCCAGCCGATGCGTACGA 62.202 66.667 21.65 4.52 44.33 3.43
373 837 1.354155 CAGCCGATGCGTACGAGTA 59.646 57.895 21.65 4.46 44.33 2.59
374 838 0.928908 CAGCCGATGCGTACGAGTAC 60.929 60.000 21.65 0.89 44.33 2.73
375 839 1.656569 GCCGATGCGTACGAGTACC 60.657 63.158 21.65 0.45 32.61 3.34
376 840 1.723273 CCGATGCGTACGAGTACCA 59.277 57.895 21.65 7.26 32.61 3.25
377 841 0.099259 CCGATGCGTACGAGTACCAA 59.901 55.000 21.65 0.00 32.61 3.67
384 848 3.130869 TGCGTACGAGTACCAATACCAAT 59.869 43.478 21.65 0.00 32.61 3.16
394 858 2.752903 ACCAATACCAATTCAACGAGGC 59.247 45.455 0.00 0.00 0.00 4.70
395 859 3.016736 CCAATACCAATTCAACGAGGCT 58.983 45.455 0.00 0.00 0.00 4.58
407 871 2.875933 CAACGAGGCTAAACAAGAACCA 59.124 45.455 0.00 0.00 0.00 3.67
408 872 3.202829 ACGAGGCTAAACAAGAACCAA 57.797 42.857 0.00 0.00 0.00 3.67
409 873 3.139077 ACGAGGCTAAACAAGAACCAAG 58.861 45.455 0.00 0.00 0.00 3.61
410 874 2.484264 CGAGGCTAAACAAGAACCAAGG 59.516 50.000 0.00 0.00 0.00 3.61
411 875 2.820197 GAGGCTAAACAAGAACCAAGGG 59.180 50.000 0.00 0.00 0.00 3.95
412 876 2.445525 AGGCTAAACAAGAACCAAGGGA 59.554 45.455 0.00 0.00 0.00 4.20
413 877 3.117284 AGGCTAAACAAGAACCAAGGGAA 60.117 43.478 0.00 0.00 0.00 3.97
414 878 3.005472 GGCTAAACAAGAACCAAGGGAAC 59.995 47.826 0.00 0.00 0.00 3.62
444 908 1.226746 GTCTGTCCACCGGTTTTCAG 58.773 55.000 2.97 13.60 0.00 3.02
511 1019 3.621142 CGATACGCATGCATCGTTC 57.379 52.632 24.63 18.36 40.89 3.95
513 1021 0.852777 GATACGCATGCATCGTTCGT 59.147 50.000 22.76 18.51 40.89 3.85
514 1022 0.576798 ATACGCATGCATCGTTCGTG 59.423 50.000 22.76 10.36 40.89 4.35
515 1023 2.019708 TACGCATGCATCGTTCGTGC 62.020 55.000 22.76 11.78 41.65 5.34
516 1024 2.645628 GCATGCATCGTTCGTGCG 60.646 61.111 14.21 0.00 45.37 5.34
517 1025 3.080274 CATGCATCGTTCGTGCGA 58.920 55.556 0.00 6.55 45.37 5.10
518 1026 1.419532 CATGCATCGTTCGTGCGAA 59.580 52.632 0.00 2.65 45.37 4.70
520 1028 1.695893 ATGCATCGTTCGTGCGAAGG 61.696 55.000 17.46 17.46 45.37 3.46
521 1029 2.380410 GCATCGTTCGTGCGAAGGT 61.380 57.895 21.03 10.10 44.38 3.50
522 1030 1.702299 CATCGTTCGTGCGAAGGTC 59.298 57.895 21.03 5.44 44.38 3.85
523 1031 1.800315 ATCGTTCGTGCGAAGGTCG 60.800 57.895 21.03 15.01 44.38 4.79
524 1032 2.191354 ATCGTTCGTGCGAAGGTCGA 62.191 55.000 21.03 18.71 43.74 4.20
527 1035 0.365859 GTTCGTGCGAAGGTCGAATC 59.634 55.000 7.31 0.00 43.74 2.52
528 1036 1.068832 TTCGTGCGAAGGTCGAATCG 61.069 55.000 11.01 11.01 43.74 3.34
545 1069 4.412207 GAATCGCTCGCCATTTACTTTTT 58.588 39.130 0.00 0.00 0.00 1.94
587 1132 3.396260 TCTTTCCAGGACTAAACCACG 57.604 47.619 0.00 0.00 0.00 4.94
588 1133 1.804748 CTTTCCAGGACTAAACCACGC 59.195 52.381 0.00 0.00 0.00 5.34
589 1134 0.759959 TTCCAGGACTAAACCACGCA 59.240 50.000 0.00 0.00 0.00 5.24
590 1135 0.759959 TCCAGGACTAAACCACGCAA 59.240 50.000 0.00 0.00 0.00 4.85
591 1136 1.141254 TCCAGGACTAAACCACGCAAA 59.859 47.619 0.00 0.00 0.00 3.68
592 1137 1.950909 CCAGGACTAAACCACGCAAAA 59.049 47.619 0.00 0.00 0.00 2.44
593 1138 2.359531 CCAGGACTAAACCACGCAAAAA 59.640 45.455 0.00 0.00 0.00 1.94
594 1139 3.368495 CAGGACTAAACCACGCAAAAAC 58.632 45.455 0.00 0.00 0.00 2.43
595 1140 2.032426 AGGACTAAACCACGCAAAAACG 59.968 45.455 0.00 0.00 39.50 3.60
596 1141 2.031930 GGACTAAACCACGCAAAAACGA 59.968 45.455 0.00 0.00 36.70 3.85
597 1142 3.285745 GACTAAACCACGCAAAAACGAG 58.714 45.455 0.00 0.00 36.70 4.18
598 1143 2.937799 ACTAAACCACGCAAAAACGAGA 59.062 40.909 0.00 0.00 36.70 4.04
599 1144 3.562557 ACTAAACCACGCAAAAACGAGAT 59.437 39.130 0.00 0.00 36.70 2.75
656 1203 4.449131 TCCAAATGCAGCAAAATGTTTCA 58.551 34.783 0.00 0.00 0.00 2.69
663 1210 3.645884 CAGCAAAATGTTTCACAGAGGG 58.354 45.455 0.00 0.00 0.00 4.30
664 1211 2.629617 AGCAAAATGTTTCACAGAGGGG 59.370 45.455 0.00 0.00 0.00 4.79
665 1212 2.867647 GCAAAATGTTTCACAGAGGGGC 60.868 50.000 0.00 0.00 0.00 5.80
666 1213 1.632589 AAATGTTTCACAGAGGGGCC 58.367 50.000 0.00 0.00 0.00 5.80
683 1230 4.124943 CGGGGAGGGAGACGGAGA 62.125 72.222 0.00 0.00 0.00 3.71
817 1404 0.457035 CAAACCACACAAGCAGCAGT 59.543 50.000 0.00 0.00 0.00 4.40
857 1444 1.432514 CACTGATCCTTGTGTCACCG 58.567 55.000 0.00 0.00 0.00 4.94
894 1481 2.683933 GGACTCTTGGCTCCGGGA 60.684 66.667 0.00 0.00 0.00 5.14
895 1482 2.579738 GACTCTTGGCTCCGGGAC 59.420 66.667 0.00 0.00 0.00 4.46
1063 1662 4.508128 CCGGCATCGCAGGTACGT 62.508 66.667 0.00 0.00 39.00 3.57
1067 1666 1.137513 GGCATCGCAGGTACGTAATC 58.862 55.000 0.00 0.00 0.00 1.75
1074 1673 2.480845 GCAGGTACGTAATCCATGGAC 58.519 52.381 18.99 3.99 0.00 4.02
1076 1675 3.717707 CAGGTACGTAATCCATGGACAG 58.282 50.000 18.99 11.11 0.00 3.51
1091 1691 2.743664 TGGACAGATGCAGTTTCATTCG 59.256 45.455 0.00 0.00 0.00 3.34
1108 1724 6.176975 TCATTCGGTGTTTGTATGTCATTC 57.823 37.500 0.00 0.00 0.00 2.67
1109 1725 4.655440 TTCGGTGTTTGTATGTCATTCG 57.345 40.909 0.00 0.00 0.00 3.34
1110 1726 2.997303 TCGGTGTTTGTATGTCATTCGG 59.003 45.455 0.00 0.00 0.00 4.30
1111 1727 2.475519 CGGTGTTTGTATGTCATTCGGC 60.476 50.000 0.00 0.00 0.00 5.54
1112 1728 2.486203 GGTGTTTGTATGTCATTCGGCA 59.514 45.455 0.00 0.00 0.00 5.69
1113 1729 3.488489 GTGTTTGTATGTCATTCGGCAC 58.512 45.455 0.00 0.00 0.00 5.01
1114 1730 3.058570 GTGTTTGTATGTCATTCGGCACA 60.059 43.478 0.00 0.00 0.00 4.57
1115 1731 3.188254 TGTTTGTATGTCATTCGGCACAG 59.812 43.478 0.00 0.00 0.00 3.66
1116 1732 1.368641 TGTATGTCATTCGGCACAGC 58.631 50.000 0.00 0.00 0.00 4.40
1117 1733 1.338579 TGTATGTCATTCGGCACAGCA 60.339 47.619 0.00 0.00 0.00 4.41
1118 1734 1.062587 GTATGTCATTCGGCACAGCAC 59.937 52.381 0.00 0.00 0.00 4.40
1119 1735 0.606130 ATGTCATTCGGCACAGCACA 60.606 50.000 0.00 0.00 0.00 4.57
1120 1736 1.207593 GTCATTCGGCACAGCACAC 59.792 57.895 0.00 0.00 0.00 3.82
1121 1737 1.965930 TCATTCGGCACAGCACACC 60.966 57.895 0.00 0.00 0.00 4.16
1122 1738 1.968017 CATTCGGCACAGCACACCT 60.968 57.895 0.00 0.00 0.00 4.00
1123 1739 1.672356 ATTCGGCACAGCACACCTC 60.672 57.895 0.00 0.00 0.00 3.85
1144 1760 1.349026 TGGTGCTTCCTCTCTTCCTTG 59.651 52.381 0.80 0.00 37.07 3.61
1148 1764 2.705658 TGCTTCCTCTCTTCCTTGTTGA 59.294 45.455 0.00 0.00 0.00 3.18
1149 1765 3.244353 TGCTTCCTCTCTTCCTTGTTGAG 60.244 47.826 0.00 0.00 0.00 3.02
1150 1766 3.333804 CTTCCTCTCTTCCTTGTTGAGC 58.666 50.000 0.00 0.00 0.00 4.26
1153 1769 2.038295 CCTCTCTTCCTTGTTGAGCAGT 59.962 50.000 0.00 0.00 0.00 4.40
1154 1770 3.324993 CTCTCTTCCTTGTTGAGCAGTC 58.675 50.000 0.00 0.00 0.00 3.51
1155 1771 2.968574 TCTCTTCCTTGTTGAGCAGTCT 59.031 45.455 0.00 0.00 0.00 3.24
1156 1772 3.065655 CTCTTCCTTGTTGAGCAGTCTG 58.934 50.000 0.00 0.00 0.00 3.51
1158 1774 0.250467 TCCTTGTTGAGCAGTCTGCC 60.250 55.000 21.32 13.02 46.52 4.85
1159 1775 0.535780 CCTTGTTGAGCAGTCTGCCA 60.536 55.000 21.32 15.41 46.52 4.92
1223 1845 1.701847 CATGCATAGGGTAGGGAAGCT 59.298 52.381 0.00 0.00 0.00 3.74
1224 1846 2.787339 TGCATAGGGTAGGGAAGCTA 57.213 50.000 0.00 0.00 0.00 3.32
1225 1847 2.609747 TGCATAGGGTAGGGAAGCTAG 58.390 52.381 0.00 0.00 0.00 3.42
1226 1848 1.276705 GCATAGGGTAGGGAAGCTAGC 59.723 57.143 6.62 6.62 0.00 3.42
1227 1849 1.546476 CATAGGGTAGGGAAGCTAGCG 59.454 57.143 9.55 0.00 0.00 4.26
1228 1850 0.826672 TAGGGTAGGGAAGCTAGCGC 60.827 60.000 9.55 0.00 0.00 5.92
1229 1851 2.432300 GGGTAGGGAAGCTAGCGCA 61.432 63.158 11.47 0.00 39.10 6.09
1230 1852 1.227292 GGTAGGGAAGCTAGCGCAC 60.227 63.158 11.47 6.94 39.10 5.34
1231 1853 1.515954 GTAGGGAAGCTAGCGCACA 59.484 57.895 11.47 0.00 39.10 4.57
1232 1854 0.108329 GTAGGGAAGCTAGCGCACAA 60.108 55.000 11.47 0.00 39.10 3.33
1233 1855 0.830648 TAGGGAAGCTAGCGCACAAT 59.169 50.000 11.47 0.00 39.10 2.71
1234 1856 0.035056 AGGGAAGCTAGCGCACAATT 60.035 50.000 11.47 0.00 39.10 2.32
1235 1857 0.378610 GGGAAGCTAGCGCACAATTC 59.621 55.000 11.47 8.53 39.10 2.17
1236 1858 1.373570 GGAAGCTAGCGCACAATTCT 58.626 50.000 11.47 0.00 39.10 2.40
1237 1859 1.740025 GGAAGCTAGCGCACAATTCTT 59.260 47.619 11.47 3.53 39.10 2.52
1238 1860 2.223135 GGAAGCTAGCGCACAATTCTTC 60.223 50.000 11.47 12.44 39.10 2.87
1239 1861 2.099141 AGCTAGCGCACAATTCTTCA 57.901 45.000 11.47 0.00 39.10 3.02
1401 2032 2.121291 TTTGTCACCAACAGCTCACA 57.879 45.000 0.00 0.00 39.58 3.58
1422 2053 3.058293 CAGTGCACTCTCTATCGATCTCC 60.058 52.174 18.64 0.00 0.00 3.71
1708 2356 3.560636 TCTAACCAGCTGCTAATTCCC 57.439 47.619 8.66 0.00 0.00 3.97
1709 2357 2.843730 TCTAACCAGCTGCTAATTCCCA 59.156 45.455 8.66 0.00 0.00 4.37
1710 2358 2.134789 AACCAGCTGCTAATTCCCAG 57.865 50.000 8.66 0.00 0.00 4.45
1749 2417 0.657312 CGTACGCCATTGATGCATGT 59.343 50.000 2.46 0.00 0.00 3.21
1750 2418 1.595246 CGTACGCCATTGATGCATGTG 60.595 52.381 2.46 0.00 0.00 3.21
1754 2423 0.818938 GCCATTGATGCATGTGGTGA 59.181 50.000 18.47 0.00 34.23 4.02
1758 2427 0.818938 TTGATGCATGTGGTGATGGC 59.181 50.000 2.46 0.00 0.00 4.40
1913 2586 3.964221 TACGCGCTGCTCAAGACCG 62.964 63.158 5.73 0.00 0.00 4.79
1973 2646 1.660614 GCATCGAGACCGTCTACATCG 60.661 57.143 0.00 1.25 37.05 3.84
2174 2847 0.664767 GCCGCTCTCCATCATCGTAC 60.665 60.000 0.00 0.00 0.00 3.67
2176 2849 0.308068 CGCTCTCCATCATCGTACGT 59.692 55.000 16.05 0.00 0.00 3.57
2179 2852 1.598132 CTCTCCATCATCGTACGTCGT 59.402 52.381 16.05 2.21 40.80 4.34
2180 2853 2.011947 TCTCCATCATCGTACGTCGTT 58.988 47.619 16.05 0.00 40.80 3.85
2181 2854 3.197265 TCTCCATCATCGTACGTCGTTA 58.803 45.455 16.05 0.00 40.80 3.18
2182 2855 3.246936 TCTCCATCATCGTACGTCGTTAG 59.753 47.826 16.05 5.91 40.80 2.34
2183 2856 2.041966 CCATCATCGTACGTCGTTAGC 58.958 52.381 16.05 0.00 40.80 3.09
2184 2857 2.286831 CCATCATCGTACGTCGTTAGCT 60.287 50.000 16.05 0.00 40.80 3.32
2185 2858 3.059393 CCATCATCGTACGTCGTTAGCTA 60.059 47.826 16.05 0.00 40.80 3.32
2186 2859 4.521010 CATCATCGTACGTCGTTAGCTAA 58.479 43.478 16.05 0.86 40.80 3.09
2187 2860 4.187594 TCATCGTACGTCGTTAGCTAAG 57.812 45.455 16.05 1.61 40.80 2.18
2188 2861 2.442189 TCGTACGTCGTTAGCTAAGC 57.558 50.000 16.05 1.36 40.80 3.09
2189 2862 1.062587 TCGTACGTCGTTAGCTAAGCC 59.937 52.381 16.05 0.00 40.80 4.35
2190 2863 1.460766 GTACGTCGTTAGCTAAGCCG 58.539 55.000 6.38 11.53 0.00 5.52
2191 2864 0.248215 TACGTCGTTAGCTAAGCCGC 60.248 55.000 6.38 4.07 0.00 6.53
2192 2865 2.228914 CGTCGTTAGCTAAGCCGCC 61.229 63.158 6.38 0.00 0.00 6.13
2193 2866 1.881709 GTCGTTAGCTAAGCCGCCC 60.882 63.158 6.38 0.00 0.00 6.13
2194 2867 2.588034 CGTTAGCTAAGCCGCCCC 60.588 66.667 6.38 0.00 0.00 5.80
2195 2868 2.588034 GTTAGCTAAGCCGCCCCG 60.588 66.667 6.38 0.00 0.00 5.73
2196 2869 4.540735 TTAGCTAAGCCGCCCCGC 62.541 66.667 0.86 0.00 0.00 6.13
2222 2896 4.021192 CCTCTCTCTCTTCTGTTCTGCTTT 60.021 45.833 0.00 0.00 0.00 3.51
2250 2924 3.451004 GCCGGCCATGCATGACAA 61.451 61.111 28.31 0.00 0.00 3.18
2416 3092 5.485209 GGTATGCCACCTAGCTAATTACT 57.515 43.478 0.00 0.00 44.79 2.24
2417 3093 5.480205 GGTATGCCACCTAGCTAATTACTC 58.520 45.833 0.00 0.00 44.79 2.59
2418 3094 5.246429 GGTATGCCACCTAGCTAATTACTCT 59.754 44.000 0.00 0.00 44.79 3.24
2419 3095 4.939052 TGCCACCTAGCTAATTACTCTC 57.061 45.455 0.00 0.00 0.00 3.20
2440 3116 5.421374 TCTCTAGCTACTTGTTCCCTTAACC 59.579 44.000 0.00 0.00 37.27 2.85
2451 3127 1.077005 TCCCTTAACCTGGCATTGCTT 59.923 47.619 8.82 0.00 0.00 3.91
2452 3128 1.901833 CCCTTAACCTGGCATTGCTTT 59.098 47.619 8.82 0.23 0.00 3.51
2847 3543 2.531942 AGACTTCCACCCCACCCC 60.532 66.667 0.00 0.00 0.00 4.95
2943 3640 7.177744 GGAGAACTGATGGGTTTGGTTAATTAA 59.822 37.037 0.00 0.00 0.00 1.40
2944 3641 8.122472 AGAACTGATGGGTTTGGTTAATTAAG 57.878 34.615 0.00 0.00 0.00 1.85
2945 3642 7.728532 AGAACTGATGGGTTTGGTTAATTAAGT 59.271 33.333 0.00 0.00 0.00 2.24
2946 3643 8.943594 AACTGATGGGTTTGGTTAATTAAGTA 57.056 30.769 0.00 0.00 0.00 2.24
3129 3841 4.378563 CGTTGGTGCGGTGACAATAATAAA 60.379 41.667 0.00 0.00 0.00 1.40
3192 3907 6.127196 TGTGTACTGGTCATTCATGCTGTATA 60.127 38.462 0.00 0.00 0.00 1.47
3207 3926 4.225984 GCTGTATATTGCAGTCTCTCTCG 58.774 47.826 8.24 0.00 36.42 4.04
3208 3927 4.225984 CTGTATATTGCAGTCTCTCTCGC 58.774 47.826 0.00 0.00 0.00 5.03
3242 3961 2.032550 GCCTGATTTGTGTCATCCATCG 59.967 50.000 0.00 0.00 0.00 3.84
3345 4084 7.997482 TCTACTTATACTGTTTACTGGCTCAG 58.003 38.462 1.16 1.16 37.52 3.35
3457 4200 6.486657 ACAGCTTAGCACAATAAAGACAAGAA 59.513 34.615 7.07 0.00 0.00 2.52
3523 4275 1.003696 GGCCTCTACTGCCTCAAAGTT 59.996 52.381 0.00 0.00 45.70 2.66
3547 4299 7.452880 TCCTGAAAATTCACAATTGGAGTAG 57.547 36.000 10.83 0.00 32.90 2.57
3568 4320 6.999871 AGTAGGATTTAAACGGTTTCTTGGAA 59.000 34.615 9.78 0.00 0.00 3.53
3612 4380 4.986054 AATGTGGGTGTAGGTTTACTGA 57.014 40.909 0.00 0.00 0.00 3.41
3634 4402 1.276421 ACCAGAAACAGTCATCTCCCG 59.724 52.381 0.00 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
106 405 2.363038 CGAGGGACGGATGTTGGTTATA 59.637 50.000 0.00 0.00 38.46 0.98
157 456 3.612247 GATGTGACACGGGCAGGCT 62.612 63.158 0.22 0.00 0.00 4.58
183 483 1.339291 TCTCTAGTGCATCATCAGCGG 59.661 52.381 0.00 0.00 33.85 5.52
282 590 9.448438 AAATCAGCTTCTTTAAACCTTGTTTTT 57.552 25.926 0.00 0.00 0.00 1.94
283 591 9.448438 AAAATCAGCTTCTTTAAACCTTGTTTT 57.552 25.926 0.00 0.00 0.00 2.43
284 592 9.098355 GAAAATCAGCTTCTTTAAACCTTGTTT 57.902 29.630 0.00 0.00 0.00 2.83
285 593 7.710907 GGAAAATCAGCTTCTTTAAACCTTGTT 59.289 33.333 0.00 0.00 0.00 2.83
286 594 7.069950 AGGAAAATCAGCTTCTTTAAACCTTGT 59.930 33.333 0.00 0.00 0.00 3.16
287 595 7.436933 AGGAAAATCAGCTTCTTTAAACCTTG 58.563 34.615 0.00 0.00 0.00 3.61
288 596 7.603180 AGGAAAATCAGCTTCTTTAAACCTT 57.397 32.000 0.00 0.00 0.00 3.50
289 597 7.603180 AAGGAAAATCAGCTTCTTTAAACCT 57.397 32.000 0.00 0.00 0.00 3.50
290 598 9.929180 ATAAAGGAAAATCAGCTTCTTTAAACC 57.071 29.630 0.00 0.00 0.00 3.27
295 603 9.479549 TCCATATAAAGGAAAATCAGCTTCTTT 57.520 29.630 0.00 0.00 30.71 2.52
296 604 8.907885 GTCCATATAAAGGAAAATCAGCTTCTT 58.092 33.333 0.00 0.00 36.80 2.52
297 605 8.055181 TGTCCATATAAAGGAAAATCAGCTTCT 58.945 33.333 0.00 0.00 36.80 2.85
298 606 8.225603 TGTCCATATAAAGGAAAATCAGCTTC 57.774 34.615 0.00 0.00 36.80 3.86
299 607 8.593945 TTGTCCATATAAAGGAAAATCAGCTT 57.406 30.769 0.00 0.00 36.80 3.74
300 608 8.593945 TTTGTCCATATAAAGGAAAATCAGCT 57.406 30.769 2.08 0.00 36.80 4.24
301 609 8.686334 TCTTTGTCCATATAAAGGAAAATCAGC 58.314 33.333 2.08 0.00 36.80 4.26
315 623 7.834881 AAGCATCATCATTCTTTGTCCATAT 57.165 32.000 0.00 0.00 0.00 1.78
319 627 5.957798 TGAAAGCATCATCATTCTTTGTCC 58.042 37.500 0.00 0.00 31.50 4.02
320 628 6.618811 ACTGAAAGCATCATCATTCTTTGTC 58.381 36.000 0.00 0.00 37.44 3.18
321 629 6.585695 ACTGAAAGCATCATCATTCTTTGT 57.414 33.333 0.00 0.00 37.44 2.83
322 630 7.884816 AAACTGAAAGCATCATCATTCTTTG 57.115 32.000 0.00 0.00 37.44 2.77
323 631 7.929785 ACAAAACTGAAAGCATCATCATTCTTT 59.070 29.630 0.00 0.00 37.44 2.52
325 633 6.989659 ACAAAACTGAAAGCATCATCATTCT 58.010 32.000 0.00 0.00 37.44 2.40
326 634 6.033196 CGACAAAACTGAAAGCATCATCATTC 59.967 38.462 0.00 0.00 37.44 2.67
331 795 4.320494 GGTCGACAAAACTGAAAGCATCAT 60.320 41.667 18.91 0.00 37.44 2.45
334 798 2.293399 GGGTCGACAAAACTGAAAGCAT 59.707 45.455 18.91 0.00 37.60 3.79
336 800 1.673920 TGGGTCGACAAAACTGAAAGC 59.326 47.619 18.91 0.00 37.60 3.51
347 811 4.451150 GCATCGGCTGGGTCGACA 62.451 66.667 18.91 0.00 44.04 4.35
370 834 5.183228 CCTCGTTGAATTGGTATTGGTACT 58.817 41.667 0.00 0.00 0.00 2.73
373 837 2.752903 GCCTCGTTGAATTGGTATTGGT 59.247 45.455 0.00 0.00 0.00 3.67
374 838 3.016736 AGCCTCGTTGAATTGGTATTGG 58.983 45.455 0.00 0.00 0.00 3.16
375 839 5.811399 TTAGCCTCGTTGAATTGGTATTG 57.189 39.130 0.00 0.00 0.00 1.90
376 840 5.708230 TGTTTAGCCTCGTTGAATTGGTATT 59.292 36.000 0.00 0.00 0.00 1.89
377 841 5.250200 TGTTTAGCCTCGTTGAATTGGTAT 58.750 37.500 0.00 0.00 0.00 2.73
384 848 3.562557 GGTTCTTGTTTAGCCTCGTTGAA 59.437 43.478 0.00 0.00 0.00 2.69
394 858 3.252458 CGGTTCCCTTGGTTCTTGTTTAG 59.748 47.826 0.00 0.00 0.00 1.85
395 859 3.215975 CGGTTCCCTTGGTTCTTGTTTA 58.784 45.455 0.00 0.00 0.00 2.01
460 924 1.002544 CTTCGCTCCTCTTCCACCTTT 59.997 52.381 0.00 0.00 0.00 3.11
468 976 3.775654 CCCGGCTTCGCTCCTCTT 61.776 66.667 0.00 0.00 0.00 2.85
496 1004 1.995228 CACGAACGATGCATGCGTA 59.005 52.632 13.55 0.00 41.75 4.42
497 1005 2.778026 CACGAACGATGCATGCGT 59.222 55.556 13.43 13.43 44.94 5.24
498 1006 2.645628 GCACGAACGATGCATGCG 60.646 61.111 14.09 10.48 42.88 4.73
499 1007 2.561628 TTCGCACGAACGATGCATGC 62.562 55.000 11.82 11.82 43.57 4.06
501 1009 1.695893 CCTTCGCACGAACGATGCAT 61.696 55.000 0.00 0.00 43.57 3.96
502 1010 2.379634 CCTTCGCACGAACGATGCA 61.380 57.895 0.49 0.00 43.57 3.96
503 1011 2.279937 GACCTTCGCACGAACGATGC 62.280 60.000 0.49 6.48 42.54 3.91
504 1012 1.702299 GACCTTCGCACGAACGATG 59.298 57.895 0.49 7.77 42.54 3.84
505 1013 1.800315 CGACCTTCGCACGAACGAT 60.800 57.895 0.49 0.00 42.54 3.73
506 1014 2.391238 TTCGACCTTCGCACGAACGA 62.391 55.000 11.37 11.37 40.26 3.85
507 1015 1.342082 ATTCGACCTTCGCACGAACG 61.342 55.000 0.49 4.78 45.93 3.95
508 1016 0.365859 GATTCGACCTTCGCACGAAC 59.634 55.000 0.49 0.00 45.93 3.95
510 1018 1.513373 CGATTCGACCTTCGCACGA 60.513 57.895 0.00 0.00 40.21 4.35
511 1019 2.987593 CGATTCGACCTTCGCACG 59.012 61.111 0.00 0.00 40.21 5.34
523 1031 3.675467 AAAGTAAATGGCGAGCGATTC 57.325 42.857 5.82 0.00 0.00 2.52
524 1032 4.156008 AGAAAAAGTAAATGGCGAGCGATT 59.844 37.500 0.00 0.00 0.00 3.34
527 1035 3.417185 GAGAAAAAGTAAATGGCGAGCG 58.583 45.455 0.00 0.00 0.00 5.03
528 1036 3.120304 ACGAGAAAAAGTAAATGGCGAGC 60.120 43.478 0.00 0.00 0.00 5.03
529 1037 4.663636 ACGAGAAAAAGTAAATGGCGAG 57.336 40.909 0.00 0.00 0.00 5.03
575 1120 2.031930 TCGTTTTTGCGTGGTTTAGTCC 59.968 45.455 0.00 0.00 0.00 3.85
587 1132 3.183775 ACGTGTCTGTATCTCGTTTTTGC 59.816 43.478 0.00 0.00 32.52 3.68
588 1133 4.966850 ACGTGTCTGTATCTCGTTTTTG 57.033 40.909 0.00 0.00 32.52 2.44
589 1134 5.978934 AAACGTGTCTGTATCTCGTTTTT 57.021 34.783 10.93 0.00 45.63 1.94
592 1137 4.613944 TGAAAACGTGTCTGTATCTCGTT 58.386 39.130 0.00 0.00 43.35 3.85
593 1138 4.233123 TGAAAACGTGTCTGTATCTCGT 57.767 40.909 0.00 0.00 36.77 4.18
594 1139 5.570262 TTTGAAAACGTGTCTGTATCTCG 57.430 39.130 0.00 0.00 0.00 4.04
595 1140 6.945072 AGTTTTGAAAACGTGTCTGTATCTC 58.055 36.000 14.38 0.00 0.00 2.75
596 1141 6.537301 TGAGTTTTGAAAACGTGTCTGTATCT 59.463 34.615 14.38 0.00 0.00 1.98
597 1142 6.711579 TGAGTTTTGAAAACGTGTCTGTATC 58.288 36.000 14.38 4.89 0.00 2.24
598 1143 6.671614 TGAGTTTTGAAAACGTGTCTGTAT 57.328 33.333 14.38 0.00 0.00 2.29
599 1144 6.671614 ATGAGTTTTGAAAACGTGTCTGTA 57.328 33.333 14.38 0.00 0.00 2.74
666 1213 4.124943 TCTCCGTCTCCCTCCCCG 62.125 72.222 0.00 0.00 0.00 5.73
683 1230 1.674057 GCACCAGCTACCACTCTGT 59.326 57.895 0.00 0.00 37.91 3.41
802 1389 2.941333 CGACTGCTGCTTGTGTGG 59.059 61.111 0.00 0.00 0.00 4.17
817 1404 1.153066 AGCTCTCGAGGAGATGCGA 60.153 57.895 13.56 0.00 44.45 5.10
857 1444 1.693083 CCCTCTCCTACTCCCTTTCCC 60.693 61.905 0.00 0.00 0.00 3.97
889 1476 0.391263 GCCAAGAACTAGTGTCCCGG 60.391 60.000 0.00 0.00 0.00 5.73
894 1481 6.439058 AGAAGATCTTAGCCAAGAACTAGTGT 59.561 38.462 8.25 0.00 41.57 3.55
895 1482 6.872920 AGAAGATCTTAGCCAAGAACTAGTG 58.127 40.000 8.25 0.00 41.57 2.74
1063 1662 4.508551 AACTGCATCTGTCCATGGATTA 57.491 40.909 19.62 9.59 0.00 1.75
1067 1666 2.439409 TGAAACTGCATCTGTCCATGG 58.561 47.619 4.97 4.97 0.00 3.66
1074 1673 2.485426 ACACCGAATGAAACTGCATCTG 59.515 45.455 0.00 0.00 0.00 2.90
1076 1675 3.559238 AACACCGAATGAAACTGCATC 57.441 42.857 0.00 0.00 0.00 3.91
1091 1691 2.486203 TGCCGAATGACATACAAACACC 59.514 45.455 0.00 0.00 0.00 4.16
1108 1724 3.046087 CAGAGGTGTGCTGTGCCG 61.046 66.667 0.00 0.00 0.00 5.69
1109 1725 2.670934 CCAGAGGTGTGCTGTGCC 60.671 66.667 0.00 0.00 0.00 5.01
1110 1726 2.111878 ACCAGAGGTGTGCTGTGC 59.888 61.111 0.00 0.00 32.98 4.57
1119 1735 0.116143 AGAGAGGAAGCACCAGAGGT 59.884 55.000 2.96 0.00 42.04 3.85
1120 1736 1.206849 GAAGAGAGGAAGCACCAGAGG 59.793 57.143 2.96 0.00 42.04 3.69
1121 1737 1.206849 GGAAGAGAGGAAGCACCAGAG 59.793 57.143 2.96 0.00 42.04 3.35
1122 1738 1.203237 AGGAAGAGAGGAAGCACCAGA 60.203 52.381 2.96 0.00 42.04 3.86
1123 1739 1.274712 AGGAAGAGAGGAAGCACCAG 58.725 55.000 2.96 0.00 42.04 4.00
1144 1760 3.261933 GCTGGCAGACTGCTCAAC 58.738 61.111 25.92 13.96 44.28 3.18
1149 1765 3.735029 GCACAGCTGGCAGACTGC 61.735 66.667 27.48 19.55 44.08 4.40
1150 1766 1.241990 AATGCACAGCTGGCAGACTG 61.242 55.000 26.54 26.55 45.68 3.51
1153 1769 2.019249 GATAAATGCACAGCTGGCAGA 58.981 47.619 26.54 17.91 45.68 4.26
1154 1770 1.268386 CGATAAATGCACAGCTGGCAG 60.268 52.381 26.54 10.94 45.68 4.85
1155 1771 0.734309 CGATAAATGCACAGCTGGCA 59.266 50.000 25.46 25.46 46.66 4.92
1156 1772 0.593263 GCGATAAATGCACAGCTGGC 60.593 55.000 19.93 18.37 0.00 4.85
1158 1774 2.096335 TCTTGCGATAAATGCACAGCTG 59.904 45.455 13.48 13.48 43.10 4.24
1159 1775 2.358957 TCTTGCGATAAATGCACAGCT 58.641 42.857 0.00 0.00 43.10 4.24
1223 1845 2.984562 TGGATGAAGAATTGTGCGCTA 58.015 42.857 9.73 0.00 0.00 4.26
1224 1846 1.825090 TGGATGAAGAATTGTGCGCT 58.175 45.000 9.73 0.00 0.00 5.92
1225 1847 2.634982 TTGGATGAAGAATTGTGCGC 57.365 45.000 0.00 0.00 0.00 6.09
1226 1848 3.674753 GGTTTTGGATGAAGAATTGTGCG 59.325 43.478 0.00 0.00 0.00 5.34
1227 1849 3.996363 GGGTTTTGGATGAAGAATTGTGC 59.004 43.478 0.00 0.00 0.00 4.57
1228 1850 4.040217 TGGGGTTTTGGATGAAGAATTGTG 59.960 41.667 0.00 0.00 0.00 3.33
1229 1851 4.040339 GTGGGGTTTTGGATGAAGAATTGT 59.960 41.667 0.00 0.00 0.00 2.71
1230 1852 4.563374 GGTGGGGTTTTGGATGAAGAATTG 60.563 45.833 0.00 0.00 0.00 2.32
1231 1853 3.582647 GGTGGGGTTTTGGATGAAGAATT 59.417 43.478 0.00 0.00 0.00 2.17
1232 1854 3.173151 GGTGGGGTTTTGGATGAAGAAT 58.827 45.455 0.00 0.00 0.00 2.40
1233 1855 2.091055 TGGTGGGGTTTTGGATGAAGAA 60.091 45.455 0.00 0.00 0.00 2.52
1234 1856 1.501170 TGGTGGGGTTTTGGATGAAGA 59.499 47.619 0.00 0.00 0.00 2.87
1235 1857 1.618343 GTGGTGGGGTTTTGGATGAAG 59.382 52.381 0.00 0.00 0.00 3.02
1236 1858 1.710816 GTGGTGGGGTTTTGGATGAA 58.289 50.000 0.00 0.00 0.00 2.57
1237 1859 0.178947 GGTGGTGGGGTTTTGGATGA 60.179 55.000 0.00 0.00 0.00 2.92
1238 1860 0.178935 AGGTGGTGGGGTTTTGGATG 60.179 55.000 0.00 0.00 0.00 3.51
1239 1861 0.114364 GAGGTGGTGGGGTTTTGGAT 59.886 55.000 0.00 0.00 0.00 3.41
1422 2053 4.040829 AGAAAAGAAAGGGAATTTGGCAGG 59.959 41.667 0.00 0.00 0.00 4.85
1708 2356 5.232202 ACGTACGTCAAAGATCAATATGCTG 59.768 40.000 16.72 0.00 0.00 4.41
1709 2357 5.348986 ACGTACGTCAAAGATCAATATGCT 58.651 37.500 16.72 0.00 0.00 3.79
1710 2358 5.637104 ACGTACGTCAAAGATCAATATGC 57.363 39.130 16.72 0.00 0.00 3.14
1712 2360 6.964677 CGTACGTACGTCAAAGATCAATAT 57.035 37.500 33.95 0.00 44.13 1.28
1749 2417 0.107643 TCAGTTCAACGCCATCACCA 59.892 50.000 0.00 0.00 0.00 4.17
1750 2418 0.517316 GTCAGTTCAACGCCATCACC 59.483 55.000 0.00 0.00 0.00 4.02
1754 2423 1.078709 CATCGTCAGTTCAACGCCAT 58.921 50.000 0.00 0.00 39.90 4.40
1758 2427 0.790207 CACCCATCGTCAGTTCAACG 59.210 55.000 0.00 0.00 41.39 4.10
1973 2646 1.640604 CGTAGACGAGGTAGGCGAC 59.359 63.158 0.00 0.00 43.02 5.19
2131 2804 0.179073 CGAAGACGGCCATGGAGAAT 60.179 55.000 18.40 0.00 35.72 2.40
2174 2847 2.228914 GGCGGCTTAGCTAACGACG 61.229 63.158 20.25 20.25 37.29 5.12
2176 2849 2.497770 GGGCGGCTTAGCTAACGA 59.502 61.111 17.76 0.00 37.29 3.85
2179 2852 4.540735 GCGGGGCGGCTTAGCTAA 62.541 66.667 9.56 5.94 37.29 3.09
2191 2864 3.535962 GAGAGAGAGGCAGCGGGG 61.536 72.222 0.00 0.00 0.00 5.73
2192 2865 2.015227 GAAGAGAGAGAGGCAGCGGG 62.015 65.000 0.00 0.00 0.00 6.13
2193 2866 1.037030 AGAAGAGAGAGAGGCAGCGG 61.037 60.000 0.00 0.00 0.00 5.52
2194 2867 0.101040 CAGAAGAGAGAGAGGCAGCG 59.899 60.000 0.00 0.00 0.00 5.18
2195 2868 1.185315 ACAGAAGAGAGAGAGGCAGC 58.815 55.000 0.00 0.00 0.00 5.25
2196 2869 3.091545 AGAACAGAAGAGAGAGAGGCAG 58.908 50.000 0.00 0.00 0.00 4.85
2197 2870 2.824936 CAGAACAGAAGAGAGAGAGGCA 59.175 50.000 0.00 0.00 0.00 4.75
2198 2871 2.417243 GCAGAACAGAAGAGAGAGAGGC 60.417 54.545 0.00 0.00 0.00 4.70
2199 2872 3.091545 AGCAGAACAGAAGAGAGAGAGG 58.908 50.000 0.00 0.00 0.00 3.69
2200 2873 4.789012 AAGCAGAACAGAAGAGAGAGAG 57.211 45.455 0.00 0.00 0.00 3.20
2201 2874 4.586421 TCAAAGCAGAACAGAAGAGAGAGA 59.414 41.667 0.00 0.00 0.00 3.10
2222 2896 3.059386 GGCCGGCCAAAACGATCA 61.059 61.111 40.73 0.00 35.81 2.92
2250 2924 3.556213 GCATGCCATATTGCCATGTCAAT 60.556 43.478 6.36 7.21 39.70 2.57
2408 3084 8.354426 GGGAACAAGTAGCTAGAGAGTAATTAG 58.646 40.741 0.00 0.00 0.00 1.73
2409 3085 8.060075 AGGGAACAAGTAGCTAGAGAGTAATTA 58.940 37.037 0.00 0.00 0.00 1.40
2410 3086 6.898521 AGGGAACAAGTAGCTAGAGAGTAATT 59.101 38.462 0.00 0.00 0.00 1.40
2411 3087 6.436890 AGGGAACAAGTAGCTAGAGAGTAAT 58.563 40.000 0.00 0.00 0.00 1.89
2412 3088 5.828871 AGGGAACAAGTAGCTAGAGAGTAA 58.171 41.667 0.00 0.00 0.00 2.24
2413 3089 5.453866 AGGGAACAAGTAGCTAGAGAGTA 57.546 43.478 0.00 0.00 0.00 2.59
2414 3090 4.325084 AGGGAACAAGTAGCTAGAGAGT 57.675 45.455 0.00 0.00 0.00 3.24
2415 3091 6.406065 GGTTAAGGGAACAAGTAGCTAGAGAG 60.406 46.154 0.00 0.00 40.09 3.20
2416 3092 5.421374 GGTTAAGGGAACAAGTAGCTAGAGA 59.579 44.000 0.00 0.00 40.09 3.10
2417 3093 5.422650 AGGTTAAGGGAACAAGTAGCTAGAG 59.577 44.000 0.00 0.00 40.09 2.43
2418 3094 5.187186 CAGGTTAAGGGAACAAGTAGCTAGA 59.813 44.000 0.00 0.00 40.09 2.43
2419 3095 5.420409 CAGGTTAAGGGAACAAGTAGCTAG 58.580 45.833 0.00 0.00 40.09 3.42
2440 3116 2.036217 TCCACTCAAAAAGCAATGCCAG 59.964 45.455 0.00 0.00 0.00 4.85
2451 3127 4.533707 AGTCAGAGATCCATCCACTCAAAA 59.466 41.667 0.00 0.00 33.69 2.44
2452 3128 4.099633 AGTCAGAGATCCATCCACTCAAA 58.900 43.478 0.00 0.00 33.69 2.69
2847 3543 2.032634 CGTCGATGTTGGTGGGGTG 61.033 63.158 0.00 0.00 0.00 4.61
2869 3566 2.310233 GCATGCTCGTGTCGTGTGT 61.310 57.895 11.37 0.00 0.00 3.72
2870 3567 1.629345 ATGCATGCTCGTGTCGTGTG 61.629 55.000 20.33 0.00 0.00 3.82
2989 3689 1.636988 AGTAAGTAATCCACACGCGC 58.363 50.000 5.73 0.00 0.00 6.86
3129 3841 2.363038 TGCACAAGTAGTAGGTCGTGTT 59.637 45.455 0.00 0.00 0.00 3.32
3192 3907 0.179150 GACGCGAGAGAGACTGCAAT 60.179 55.000 15.93 0.00 33.96 3.56
3207 3926 1.739562 CAGGCAAGGTCTGAGACGC 60.740 63.158 6.50 4.48 37.47 5.19
3208 3927 1.967535 TCAGGCAAGGTCTGAGACG 59.032 57.895 6.50 0.00 39.51 4.18
3242 3961 6.775939 TTGCAGTCTATTGATGAATCGATC 57.224 37.500 0.00 0.00 33.15 3.69
3288 4008 8.790718 ACAGCCAAGCTAATTAATCAATCATAG 58.209 33.333 0.00 0.00 36.40 2.23
3290 4010 7.504911 AGACAGCCAAGCTAATTAATCAATCAT 59.495 33.333 0.00 0.00 36.40 2.45
3291 4011 6.830324 AGACAGCCAAGCTAATTAATCAATCA 59.170 34.615 0.00 0.00 36.40 2.57
3294 4014 6.418101 AGAGACAGCCAAGCTAATTAATCAA 58.582 36.000 0.00 0.00 36.40 2.57
3300 4036 4.916183 AGAAAGAGACAGCCAAGCTAATT 58.084 39.130 0.00 0.00 36.40 1.40
3457 4200 3.761218 TGCGGGATGTGTTGTGAAATAAT 59.239 39.130 0.00 0.00 0.00 1.28
3473 4216 0.884704 GAGCTTGTTTCAGTGCGGGA 60.885 55.000 0.00 0.00 0.00 5.14
3523 4275 6.434028 CCTACTCCAATTGTGAATTTTCAGGA 59.566 38.462 4.43 0.00 37.98 3.86
3547 4299 5.834169 TGTTCCAAGAAACCGTTTAAATCC 58.166 37.500 0.00 0.00 0.00 3.01
3568 4320 0.106015 AAGAGCTGCCTTTGGGTTGT 60.106 50.000 0.00 0.00 34.45 3.32
3612 4380 2.039084 GGGAGATGACTGTTTCTGGTGT 59.961 50.000 0.00 0.00 0.00 4.16
3634 4402 1.095807 GCAACCCGATAAGGTCAGGC 61.096 60.000 0.00 0.00 40.05 4.85


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

AutoCloner maintained by Alex Coulton.