Multiple sequence alignment - TraesCS7D01G506000

Loading Multiple Alignment...

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 TraesCS7D01G506000 chr7D 100.000 2654 0 0 1 2654 611134689 611137342 0.000000e+00 4902.0
1 TraesCS7D01G506000 chr7D 82.099 324 34 6 5 326 581657778 581658079 3.390000e-64 255.0
2 TraesCS7D01G506000 chr7D 79.825 228 32 13 984 1204 91143783 91143563 1.270000e-33 154.0
3 TraesCS7D01G506000 chr7B 84.718 2022 130 70 139 2094 700183337 700185245 0.000000e+00 1857.0
4 TraesCS7D01G506000 chr7B 78.119 489 88 12 2174 2651 700185329 700185809 2.580000e-75 292.0
5 TraesCS7D01G506000 chr7B 79.149 235 37 11 976 1204 43754635 43754407 4.580000e-33 152.0
6 TraesCS7D01G506000 chr7A 86.933 1454 100 40 465 1891 701148937 701150327 0.000000e+00 1550.0
7 TraesCS7D01G506000 chr7A 80.903 775 102 18 1914 2651 701150503 701151268 1.070000e-158 569.0
8 TraesCS7D01G506000 chr7A 79.158 499 40 30 115 588 701126192 701126651 1.200000e-73 287.0
9 TraesCS7D01G506000 chr7A 79.221 231 36 11 980 1204 93081885 93082109 1.650000e-32 150.0
10 TraesCS7D01G506000 chr7A 87.500 96 8 2 654 745 701127862 701127957 1.000000e-19 108.0
11 TraesCS7D01G506000 chr2B 82.822 326 29 9 5 326 779962851 779963153 1.570000e-67 267.0
12 TraesCS7D01G506000 chr2B 82.258 186 25 8 1001 1182 744058437 744058256 1.270000e-33 154.0
13 TraesCS7D01G506000 chr6D 82.569 327 27 10 5 326 450543111 450542810 7.290000e-66 261.0
14 TraesCS7D01G506000 chr6D 81.595 326 30 13 5 326 58715961 58715662 2.640000e-60 243.0
15 TraesCS7D01G506000 chr5A 81.846 325 33 10 5 326 501461698 501461999 1.580000e-62 250.0
16 TraesCS7D01G506000 chr6A 81.651 327 31 10 5 326 308850913 308850611 7.340000e-61 244.0
17 TraesCS7D01G506000 chr5D 87.209 172 13 3 157 326 121680670 121680506 1.250000e-43 187.0
18 TraesCS7D01G506000 chr2D 82.609 184 28 4 1001 1182 609515761 609515580 2.730000e-35 159.0
19 TraesCS7D01G506000 chr2A 82.609 184 28 4 1001 1182 742293582 742293401 2.730000e-35 159.0
20 TraesCS7D01G506000 chr1A 100.000 28 0 0 1525 1552 95833389 95833416 5.000000e-03 52.8


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 TraesCS7D01G506000 chr7D 611134689 611137342 2653 False 4902.0 4902 100.0000 1 2654 1 chr7D.!!$F2 2653
1 TraesCS7D01G506000 chr7B 700183337 700185809 2472 False 1074.5 1857 81.4185 139 2651 2 chr7B.!!$F1 2512
2 TraesCS7D01G506000 chr7A 701148937 701151268 2331 False 1059.5 1550 83.9180 465 2651 2 chr7A.!!$F3 2186

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
511 539 0.036732 TTGTCGATTTCCTGCTGGCT 59.963 50.0 4.42 0.0 0.0 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1819 1919 0.026803 GTGCGCAGATCAATCGTTCC 59.973 55.0 12.22 0.0 0.0 3.62 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
77 78 8.924691 TCTTACATTTGCATAAACATTTTGAGC 58.075 29.630 0.00 0.00 0.00 4.26
78 79 8.599055 TTACATTTGCATAAACATTTTGAGCA 57.401 26.923 0.00 0.00 0.00 4.26
79 80 7.675962 ACATTTGCATAAACATTTTGAGCAT 57.324 28.000 0.00 0.00 0.00 3.79
80 81 7.523219 ACATTTGCATAAACATTTTGAGCATG 58.477 30.769 0.00 0.00 0.00 4.06
81 82 5.533533 TTGCATAAACATTTTGAGCATGC 57.466 34.783 10.51 10.51 38.19 4.06
82 83 4.566987 TGCATAAACATTTTGAGCATGCA 58.433 34.783 21.98 7.36 43.48 3.96
83 84 4.627900 TGCATAAACATTTTGAGCATGCAG 59.372 37.500 21.98 2.86 41.53 4.41
84 85 4.033587 GCATAAACATTTTGAGCATGCAGG 59.966 41.667 21.98 2.36 37.74 4.85
85 86 5.412640 CATAAACATTTTGAGCATGCAGGA 58.587 37.500 21.98 1.14 0.00 3.86
86 87 4.339872 AAACATTTTGAGCATGCAGGAA 57.660 36.364 21.98 9.24 0.00 3.36
87 88 3.587797 ACATTTTGAGCATGCAGGAAG 57.412 42.857 21.98 5.78 0.00 3.46
88 89 2.268298 CATTTTGAGCATGCAGGAAGC 58.732 47.619 21.98 0.00 45.96 3.86
112 113 2.037871 CTCCCTAGAGCCGAAGAGC 58.962 63.158 0.00 0.00 32.13 4.09
113 114 1.791103 CTCCCTAGAGCCGAAGAGCG 61.791 65.000 0.00 0.00 38.01 5.03
133 134 2.704572 GGGAGCCGAATTGGATATCTG 58.295 52.381 2.05 0.00 42.00 2.90
134 135 2.616510 GGGAGCCGAATTGGATATCTGG 60.617 54.545 2.05 0.00 42.00 3.86
135 136 2.039084 GGAGCCGAATTGGATATCTGGT 59.961 50.000 2.05 0.00 42.00 4.00
136 137 3.070018 GAGCCGAATTGGATATCTGGTG 58.930 50.000 2.05 0.00 42.00 4.17
137 138 1.537202 GCCGAATTGGATATCTGGTGC 59.463 52.381 2.05 0.00 42.00 5.01
153 155 2.927028 GGTGCCTACCATCCGTTTAAT 58.073 47.619 0.00 0.00 46.71 1.40
161 163 6.316890 GCCTACCATCCGTTTAATAAAGTTCA 59.683 38.462 0.00 0.00 0.00 3.18
180 182 8.887264 AAGTTCATATAGTAGGATGGGACTAG 57.113 38.462 0.00 0.00 31.87 2.57
191 193 6.380079 AGGATGGGACTAGCTATAAAATGG 57.620 41.667 0.00 0.00 0.00 3.16
230 232 1.071699 GCTCACTCAACTACCAACCCA 59.928 52.381 0.00 0.00 0.00 4.51
232 234 3.815809 CTCACTCAACTACCAACCCAAA 58.184 45.455 0.00 0.00 0.00 3.28
278 280 0.392998 CCGACCCCTGAACCTGAATG 60.393 60.000 0.00 0.00 0.00 2.67
297 299 0.807496 GATGAAAGGCCAGCACACTC 59.193 55.000 5.01 0.00 0.00 3.51
331 340 3.966979 TGACTTAACATCCCATGCACAT 58.033 40.909 0.00 0.00 0.00 3.21
385 394 3.731728 GGGGCAGGCATGTGAGGA 61.732 66.667 0.00 0.00 0.00 3.71
388 397 2.271497 GCAGGCATGTGAGGAGCT 59.729 61.111 0.00 0.00 0.00 4.09
437 459 0.177604 GCCTCAGATCACCCTGACAG 59.822 60.000 0.00 0.00 38.18 3.51
441 463 1.277273 TCAGATCACCCTGACAGCTTG 59.723 52.381 0.00 0.00 38.18 4.01
456 478 1.625315 AGCTTGGCATTTCTTTTCCCC 59.375 47.619 0.00 0.00 0.00 4.81
457 479 1.672737 GCTTGGCATTTCTTTTCCCCG 60.673 52.381 0.00 0.00 0.00 5.73
458 480 0.972883 TTGGCATTTCTTTTCCCCGG 59.027 50.000 0.00 0.00 0.00 5.73
460 482 1.257750 GGCATTTCTTTTCCCCGGCT 61.258 55.000 0.00 0.00 0.00 5.52
476 500 2.363172 GCTCTCTCCCCGCCTTTCT 61.363 63.158 0.00 0.00 0.00 2.52
493 517 4.427312 CTTTCTGCTTGCACTTTTGTCTT 58.573 39.130 0.00 0.00 0.00 3.01
496 520 3.111098 CTGCTTGCACTTTTGTCTTGTC 58.889 45.455 0.00 0.00 0.00 3.18
501 525 4.630894 TGCACTTTTGTCTTGTCGATTT 57.369 36.364 0.00 0.00 0.00 2.17
502 526 4.597079 TGCACTTTTGTCTTGTCGATTTC 58.403 39.130 0.00 0.00 0.00 2.17
511 539 0.036732 TTGTCGATTTCCTGCTGGCT 59.963 50.000 4.42 0.00 0.00 4.75
542 570 2.221169 TCTGTACTTGGTACGTCGTGT 58.779 47.619 8.47 0.00 41.41 4.49
569 597 1.071228 TCAATCCAGCATCCAGATCCG 59.929 52.381 0.00 0.00 0.00 4.18
597 625 1.348008 ACTGCATCCACGGGATCCAT 61.348 55.000 15.23 0.00 40.98 3.41
598 626 0.179009 CTGCATCCACGGGATCCATT 60.179 55.000 15.23 0.00 40.98 3.16
599 627 0.258484 TGCATCCACGGGATCCATTT 59.742 50.000 15.23 0.00 40.98 2.32
600 628 1.492599 TGCATCCACGGGATCCATTTA 59.507 47.619 15.23 0.00 40.98 1.40
609 637 2.250924 GGGATCCATTTAAGCCCCATG 58.749 52.381 15.23 0.00 34.10 3.66
613 641 4.039609 GGATCCATTTAAGCCCCATGAAAG 59.960 45.833 6.95 0.00 0.00 2.62
618 646 5.012354 CCATTTAAGCCCCATGAAAGCATAT 59.988 40.000 0.00 0.00 32.27 1.78
619 647 6.211184 CCATTTAAGCCCCATGAAAGCATATA 59.789 38.462 0.00 0.00 32.27 0.86
620 648 6.648879 TTTAAGCCCCATGAAAGCATATAC 57.351 37.500 0.00 0.00 32.27 1.47
621 649 2.783135 AGCCCCATGAAAGCATATACG 58.217 47.619 0.00 0.00 32.27 3.06
622 650 2.371841 AGCCCCATGAAAGCATATACGA 59.628 45.455 0.00 0.00 32.27 3.43
623 651 3.146066 GCCCCATGAAAGCATATACGAA 58.854 45.455 0.00 0.00 32.27 3.85
624 652 3.568007 GCCCCATGAAAGCATATACGAAA 59.432 43.478 0.00 0.00 32.27 3.46
625 653 4.556699 GCCCCATGAAAGCATATACGAAAC 60.557 45.833 0.00 0.00 32.27 2.78
644 675 5.389935 CGAAACAACACTTCAAGATAGGAGC 60.390 44.000 0.00 0.00 0.00 4.70
647 678 3.238108 ACACTTCAAGATAGGAGCGTG 57.762 47.619 0.00 0.00 0.00 5.34
648 679 2.563179 ACACTTCAAGATAGGAGCGTGT 59.437 45.455 0.00 0.00 0.00 4.49
649 680 3.762288 ACACTTCAAGATAGGAGCGTGTA 59.238 43.478 0.00 0.00 32.58 2.90
650 681 4.106197 CACTTCAAGATAGGAGCGTGTAC 58.894 47.826 0.00 0.00 0.00 2.90
651 682 3.762288 ACTTCAAGATAGGAGCGTGTACA 59.238 43.478 0.00 0.00 0.00 2.90
652 683 3.777465 TCAAGATAGGAGCGTGTACAC 57.223 47.619 16.32 16.32 0.00 2.90
653 684 3.353557 TCAAGATAGGAGCGTGTACACT 58.646 45.455 23.01 5.92 0.00 3.55
654 685 4.520179 TCAAGATAGGAGCGTGTACACTA 58.480 43.478 23.01 9.18 0.00 2.74
655 686 4.334759 TCAAGATAGGAGCGTGTACACTAC 59.665 45.833 23.01 14.94 0.00 2.73
656 687 3.882444 AGATAGGAGCGTGTACACTACA 58.118 45.455 23.01 3.63 36.08 2.74
750 787 3.230134 CAGCTAGCAGGAGTAATCCTCT 58.770 50.000 18.83 11.85 40.30 3.69
795 832 3.595758 GCAACCAACTGCGTGCCT 61.596 61.111 0.00 0.00 31.50 4.75
801 839 2.358003 AACTGCGTGCCTCTCTGC 60.358 61.111 0.00 0.00 0.00 4.26
810 848 2.187424 CCTCTCTGCTCTGGCTGC 59.813 66.667 0.00 0.00 39.59 5.25
813 851 2.187424 CTCTGCTCTGGCTGCCTC 59.813 66.667 21.03 7.02 39.59 4.70
814 852 3.719883 CTCTGCTCTGGCTGCCTCG 62.720 68.421 21.03 11.06 39.59 4.63
848 886 2.779755 ATAAAGATCCCACACGCACA 57.220 45.000 0.00 0.00 0.00 4.57
859 897 0.523072 ACACGCACAAATCATGAGCC 59.477 50.000 0.09 0.00 41.96 4.70
878 923 1.301401 AGCCGCGCTTACAAGTGAA 60.301 52.632 5.56 0.00 38.80 3.18
879 924 0.673644 AGCCGCGCTTACAAGTGAAT 60.674 50.000 5.56 0.00 38.80 2.57
880 925 0.521242 GCCGCGCTTACAAGTGAATG 60.521 55.000 5.56 0.00 38.80 2.67
881 926 1.075542 CCGCGCTTACAAGTGAATGA 58.924 50.000 5.56 0.00 38.80 2.57
896 941 3.069443 GTGAATGAGAGTGGGAGGAGATC 59.931 52.174 0.00 0.00 0.00 2.75
901 946 3.303938 GAGAGTGGGAGGAGATCATTCA 58.696 50.000 0.00 0.00 0.00 2.57
903 948 3.052262 AGAGTGGGAGGAGATCATTCAGA 60.052 47.826 0.00 0.00 0.00 3.27
904 949 3.903090 GAGTGGGAGGAGATCATTCAGAT 59.097 47.826 0.00 0.00 40.48 2.90
905 950 4.305524 AGTGGGAGGAGATCATTCAGATT 58.694 43.478 0.00 0.00 37.00 2.40
906 951 4.725810 AGTGGGAGGAGATCATTCAGATTT 59.274 41.667 0.00 0.00 37.00 2.17
907 952 5.062528 GTGGGAGGAGATCATTCAGATTTC 58.937 45.833 0.00 0.00 37.00 2.17
908 953 4.723285 TGGGAGGAGATCATTCAGATTTCA 59.277 41.667 0.00 0.00 39.10 2.69
909 954 5.062528 GGGAGGAGATCATTCAGATTTCAC 58.937 45.833 0.00 0.00 39.10 3.18
910 955 5.397221 GGGAGGAGATCATTCAGATTTCACA 60.397 44.000 0.00 0.00 39.10 3.58
911 956 6.297582 GGAGGAGATCATTCAGATTTCACAT 58.702 40.000 0.00 0.00 39.10 3.21
912 957 6.771749 GGAGGAGATCATTCAGATTTCACATT 59.228 38.462 0.00 0.00 39.10 2.71
913 958 7.284944 GGAGGAGATCATTCAGATTTCACATTT 59.715 37.037 0.00 0.00 39.10 2.32
914 959 8.223177 AGGAGATCATTCAGATTTCACATTTC 57.777 34.615 0.00 0.00 39.10 2.17
915 960 7.832685 AGGAGATCATTCAGATTTCACATTTCA 59.167 33.333 0.00 0.00 39.10 2.69
916 961 8.129840 GGAGATCATTCAGATTTCACATTTCAG 58.870 37.037 0.00 0.00 39.10 3.02
917 962 8.803397 AGATCATTCAGATTTCACATTTCAGA 57.197 30.769 0.00 0.00 37.00 3.27
925 970 7.389884 TCAGATTTCACATTTCAGAGAAGAAGG 59.610 37.037 0.00 0.00 0.00 3.46
936 981 1.476488 GAGAAGAAGGAGAAGCTCGCT 59.524 52.381 0.00 0.00 0.00 4.93
938 983 1.203523 GAAGAAGGAGAAGCTCGCTGA 59.796 52.381 0.00 0.00 0.00 4.26
970 1015 4.717778 AGGTCTAGCTAGAGTGTGTAGAGA 59.282 45.833 23.87 0.00 32.01 3.10
994 1039 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
996 1041 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
998 1043 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1180 1237 1.068921 GAGATCCTCAAGCTCGCCC 59.931 63.158 0.00 0.00 29.25 6.13
1539 1614 4.450122 TGCGCGTACGAGGACGAC 62.450 66.667 21.65 9.50 45.82 4.34
1542 1617 2.276306 GCGTACGAGGACGACGAC 60.276 66.667 21.65 0.00 45.82 4.34
1545 1620 1.343147 GTACGAGGACGACGACGAG 59.657 63.158 15.32 0.00 42.66 4.18
1632 1707 3.331889 AGATCAAGTGGGACTCCATGTTT 59.668 43.478 0.00 0.00 46.09 2.83
1681 1764 4.753877 CGACGACGCCGAGCAGAA 62.754 66.667 0.00 0.00 39.50 3.02
1743 1836 5.185056 AGTTTACTGTTTTCTTGGTGTGCTT 59.815 36.000 0.00 0.00 0.00 3.91
1749 1842 1.165907 TTCTTGGTGTGCTTGCGAGG 61.166 55.000 2.37 0.00 0.00 4.63
1750 1843 1.597854 CTTGGTGTGCTTGCGAGGA 60.598 57.895 2.37 0.00 0.00 3.71
1770 1863 0.467290 TGTGGCCTCTGGTTTTGTCC 60.467 55.000 3.32 0.00 0.00 4.02
1783 1883 6.831353 TCTGGTTTTGTCCTCTGTAAAATGAA 59.169 34.615 0.00 0.00 0.00 2.57
1786 1886 6.868339 GGTTTTGTCCTCTGTAAAATGAATGG 59.132 38.462 0.00 0.00 0.00 3.16
1879 1983 0.329931 ACCACACCAACAGACCAACA 59.670 50.000 0.00 0.00 0.00 3.33
1898 2005 5.382618 AACAGCATGGTGAATTTCTCTTC 57.617 39.130 30.46 0.00 43.62 2.87
1915 2175 6.928979 TCTCTTCAGAAATCTAGTACCGAG 57.071 41.667 0.00 0.00 0.00 4.63
1928 2188 2.761208 AGTACCGAGACTAGCTGCAATT 59.239 45.455 1.02 0.00 0.00 2.32
2048 2312 3.340337 AAGAGCGCACAACTTCTTTTC 57.660 42.857 11.47 0.00 0.00 2.29
2050 2314 3.728845 AGAGCGCACAACTTCTTTTCTA 58.271 40.909 11.47 0.00 0.00 2.10
2094 2360 1.069978 TGATGAGAAGCGACAACCACA 59.930 47.619 0.00 0.00 0.00 4.17
2095 2361 2.289631 TGATGAGAAGCGACAACCACAT 60.290 45.455 0.00 0.00 0.00 3.21
2096 2362 1.795768 TGAGAAGCGACAACCACATC 58.204 50.000 0.00 0.00 0.00 3.06
2098 2364 2.143122 GAGAAGCGACAACCACATCAA 58.857 47.619 0.00 0.00 0.00 2.57
2100 2366 1.873591 GAAGCGACAACCACATCAACT 59.126 47.619 0.00 0.00 0.00 3.16
2120 2415 2.357327 TCTATCCCGTGTGTTCAACG 57.643 50.000 0.00 0.00 0.00 4.10
2163 2458 8.677148 TGCTCCTTTATAATTGTGTCCTATTC 57.323 34.615 0.00 0.00 0.00 1.75
2164 2459 7.719633 TGCTCCTTTATAATTGTGTCCTATTCC 59.280 37.037 0.00 0.00 0.00 3.01
2165 2460 7.939588 GCTCCTTTATAATTGTGTCCTATTCCT 59.060 37.037 0.00 0.00 0.00 3.36
2166 2461 9.495572 CTCCTTTATAATTGTGTCCTATTCCTC 57.504 37.037 0.00 0.00 0.00 3.71
2167 2462 8.437575 TCCTTTATAATTGTGTCCTATTCCTCC 58.562 37.037 0.00 0.00 0.00 4.30
2168 2463 8.217799 CCTTTATAATTGTGTCCTATTCCTCCA 58.782 37.037 0.00 0.00 0.00 3.86
2169 2464 9.627123 CTTTATAATTGTGTCCTATTCCTCCAA 57.373 33.333 0.00 0.00 0.00 3.53
2170 2465 9.983024 TTTATAATTGTGTCCTATTCCTCCAAA 57.017 29.630 0.00 0.00 0.00 3.28
2171 2466 9.983024 TTATAATTGTGTCCTATTCCTCCAAAA 57.017 29.630 0.00 0.00 0.00 2.44
2173 2468 7.797121 AATTGTGTCCTATTCCTCCAAAATT 57.203 32.000 0.00 0.00 0.00 1.82
2174 2469 8.893563 AATTGTGTCCTATTCCTCCAAAATTA 57.106 30.769 0.00 0.00 0.00 1.40
2175 2470 8.893563 ATTGTGTCCTATTCCTCCAAAATTAA 57.106 30.769 0.00 0.00 0.00 1.40
2176 2471 8.893563 TTGTGTCCTATTCCTCCAAAATTAAT 57.106 30.769 0.00 0.00 0.00 1.40
2177 2472 8.893563 TGTGTCCTATTCCTCCAAAATTAATT 57.106 30.769 0.00 0.00 0.00 1.40
2178 2473 8.748412 TGTGTCCTATTCCTCCAAAATTAATTG 58.252 33.333 0.39 0.00 0.00 2.32
2179 2474 8.749354 GTGTCCTATTCCTCCAAAATTAATTGT 58.251 33.333 0.39 0.00 0.00 2.71
2180 2475 8.966868 TGTCCTATTCCTCCAAAATTAATTGTC 58.033 33.333 0.39 0.00 0.00 3.18
2181 2476 9.190317 GTCCTATTCCTCCAAAATTAATTGTCT 57.810 33.333 0.39 0.00 0.00 3.41
2238 2560 1.548719 TCCATCCGTACACAAGGACAG 59.451 52.381 0.00 0.00 39.66 3.51
2250 2572 1.129058 AAGGACAGGGACGTCAAAGT 58.871 50.000 18.91 11.68 37.66 2.66
2264 2586 7.019418 GGACGTCAAAGTCATTTATACAAACC 58.981 38.462 18.91 0.00 42.62 3.27
2265 2587 7.094933 GGACGTCAAAGTCATTTATACAAACCT 60.095 37.037 18.91 0.00 42.62 3.50
2289 2611 8.345565 CCTTTTCTTTGATTTACGGGATATCTG 58.654 37.037 2.05 0.00 0.00 2.90
2293 2615 8.018537 TCTTTGATTTACGGGATATCTGAGAA 57.981 34.615 2.05 0.00 0.00 2.87
2297 2619 6.323996 TGATTTACGGGATATCTGAGAACAGT 59.676 38.462 2.05 0.00 43.81 3.55
2346 2668 5.755409 TTCCTTACAATTACTCAGCTCCA 57.245 39.130 0.00 0.00 0.00 3.86
2347 2669 5.755409 TCCTTACAATTACTCAGCTCCAA 57.245 39.130 0.00 0.00 0.00 3.53
2364 2702 3.521727 TCCAAAGGAGAGCTCTAAAGGT 58.478 45.455 18.25 0.00 35.46 3.50
2365 2703 3.910627 TCCAAAGGAGAGCTCTAAAGGTT 59.089 43.478 18.25 4.05 32.07 3.50
2392 2730 2.036733 TCTTCGAAATGGACACCGTCTT 59.963 45.455 0.00 0.00 32.47 3.01
2394 2732 3.663995 TCGAAATGGACACCGTCTTTA 57.336 42.857 0.00 0.00 32.47 1.85
2395 2733 3.992643 TCGAAATGGACACCGTCTTTAA 58.007 40.909 0.00 0.00 32.47 1.52
2403 2741 2.298163 GACACCGTCTTTAAGGGTCTGA 59.702 50.000 0.00 0.00 44.34 3.27
2406 2744 2.165845 ACCGTCTTTAAGGGTCTGATCG 59.834 50.000 0.00 0.00 42.54 3.69
2411 2749 4.099573 GTCTTTAAGGGTCTGATCGGATCA 59.900 45.833 18.96 18.96 37.76 2.92
2418 2756 1.001406 GTCTGATCGGATCATGGGTCC 59.999 57.143 20.21 7.71 38.85 4.46
2422 2760 3.550431 CGGATCATGGGTCCCGCT 61.550 66.667 2.65 0.00 35.29 5.52
2428 2766 1.303236 CATGGGTCCCGCTTGACAA 60.303 57.895 2.65 0.00 36.97 3.18
2429 2767 1.002134 ATGGGTCCCGCTTGACAAG 60.002 57.895 11.02 11.02 36.97 3.16
2440 2778 2.414481 CGCTTGACAAGATCAGAACCAG 59.586 50.000 19.51 0.00 38.99 4.00
2451 2789 8.049117 ACAAGATCAGAACCAGCATTCTATTAA 58.951 33.333 0.00 0.00 36.78 1.40
2457 2795 7.665559 TCAGAACCAGCATTCTATTAAAACACT 59.334 33.333 0.00 0.00 36.78 3.55
2460 2800 8.816640 AACCAGCATTCTATTAAAACACTTTG 57.183 30.769 0.00 0.00 0.00 2.77
2504 2846 7.439955 ACAAATTTACGTTTTCCTGAATTTCCC 59.560 33.333 0.00 0.00 0.00 3.97
2505 2847 6.658188 ATTTACGTTTTCCTGAATTTCCCA 57.342 33.333 0.00 0.00 0.00 4.37
2509 2851 5.924356 ACGTTTTCCTGAATTTCCCAAAAT 58.076 33.333 0.00 0.00 36.64 1.82
2512 2854 6.295249 GTTTTCCTGAATTTCCCAAAATGGA 58.705 36.000 0.00 0.00 40.96 3.41
2513 2855 5.743636 TTCCTGAATTTCCCAAAATGGAG 57.256 39.130 0.00 0.00 40.96 3.86
2515 2857 5.018809 TCCTGAATTTCCCAAAATGGAGAG 58.981 41.667 0.00 0.00 40.96 3.20
2519 2861 7.310858 CCTGAATTTCCCAAAATGGAGAGAAAT 60.311 37.037 0.00 2.69 40.96 2.17
2521 2863 8.484641 GAATTTCCCAAAATGGAGAGAAATTC 57.515 34.615 22.25 22.25 44.88 2.17
2529 2871 8.146412 CCAAAATGGAGAGAAATTCTGAAAACT 58.854 33.333 0.00 0.00 40.96 2.66
2532 2874 9.755804 AAATGGAGAGAAATTCTGAAAACTTTC 57.244 29.630 0.00 6.79 35.87 2.62
2535 2877 7.557719 TGGAGAGAAATTCTGAAAACTTTCACT 59.442 33.333 0.00 12.99 41.88 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 8.924691 GCTCAAAATGTTTATGCAAATGTAAGA 58.075 29.630 0.00 0.00 0.00 2.10
52 53 8.710551 TGCTCAAAATGTTTATGCAAATGTAAG 58.289 29.630 0.00 0.00 0.00 2.34
53 54 8.599055 TGCTCAAAATGTTTATGCAAATGTAA 57.401 26.923 0.00 0.00 0.00 2.41
54 55 8.657729 CATGCTCAAAATGTTTATGCAAATGTA 58.342 29.630 0.00 0.00 32.66 2.29
55 56 7.523219 CATGCTCAAAATGTTTATGCAAATGT 58.477 30.769 0.00 0.00 32.66 2.71
56 57 6.467682 GCATGCTCAAAATGTTTATGCAAATG 59.532 34.615 11.37 0.00 39.25 2.32
57 58 6.149640 TGCATGCTCAAAATGTTTATGCAAAT 59.850 30.769 20.33 0.00 44.22 2.32
58 59 5.469084 TGCATGCTCAAAATGTTTATGCAAA 59.531 32.000 20.33 0.00 44.22 3.68
59 60 4.995487 TGCATGCTCAAAATGTTTATGCAA 59.005 33.333 20.33 0.00 44.22 4.08
60 61 4.566987 TGCATGCTCAAAATGTTTATGCA 58.433 34.783 20.33 0.00 44.76 3.96
61 62 4.033587 CCTGCATGCTCAAAATGTTTATGC 59.966 41.667 20.33 0.00 39.72 3.14
62 63 5.412640 TCCTGCATGCTCAAAATGTTTATG 58.587 37.500 20.33 0.00 0.00 1.90
63 64 5.664294 TCCTGCATGCTCAAAATGTTTAT 57.336 34.783 20.33 0.00 0.00 1.40
64 65 5.465532 TTCCTGCATGCTCAAAATGTTTA 57.534 34.783 20.33 0.00 0.00 2.01
65 66 4.312443 CTTCCTGCATGCTCAAAATGTTT 58.688 39.130 20.33 0.00 0.00 2.83
66 67 3.863400 GCTTCCTGCATGCTCAAAATGTT 60.863 43.478 20.33 0.00 42.31 2.71
67 68 2.353406 GCTTCCTGCATGCTCAAAATGT 60.353 45.455 20.33 0.00 42.31 2.71
68 69 2.268298 GCTTCCTGCATGCTCAAAATG 58.732 47.619 20.33 4.46 42.31 2.32
69 70 2.667473 GCTTCCTGCATGCTCAAAAT 57.333 45.000 20.33 0.00 42.31 1.82
94 95 1.791103 CGCTCTTCGGCTCTAGGGAG 61.791 65.000 0.00 0.00 42.18 4.30
95 96 1.824329 CGCTCTTCGGCTCTAGGGA 60.824 63.158 0.00 0.00 33.78 4.20
96 97 2.725008 CGCTCTTCGGCTCTAGGG 59.275 66.667 0.00 0.00 33.78 3.53
113 114 2.616510 CCAGATATCCAATTCGGCTCCC 60.617 54.545 0.00 0.00 33.14 4.30
114 115 2.039084 ACCAGATATCCAATTCGGCTCC 59.961 50.000 0.00 0.00 33.14 4.70
115 116 3.070018 CACCAGATATCCAATTCGGCTC 58.930 50.000 0.00 0.00 33.14 4.70
116 117 2.811873 GCACCAGATATCCAATTCGGCT 60.812 50.000 0.00 0.00 33.14 5.52
117 118 1.537202 GCACCAGATATCCAATTCGGC 59.463 52.381 0.00 0.00 33.14 5.54
118 119 2.154462 GGCACCAGATATCCAATTCGG 58.846 52.381 0.00 0.00 0.00 4.30
119 120 3.131709 AGGCACCAGATATCCAATTCG 57.868 47.619 0.00 0.00 0.00 3.34
120 121 4.327680 GGTAGGCACCAGATATCCAATTC 58.672 47.826 0.00 0.00 45.04 2.17
121 122 4.373156 GGTAGGCACCAGATATCCAATT 57.627 45.455 0.00 0.00 45.04 2.32
133 134 2.406596 TTAAACGGATGGTAGGCACC 57.593 50.000 0.00 0.00 46.00 5.01
134 135 5.587443 ACTTTATTAAACGGATGGTAGGCAC 59.413 40.000 0.00 0.00 0.00 5.01
135 136 5.747342 ACTTTATTAAACGGATGGTAGGCA 58.253 37.500 0.00 0.00 0.00 4.75
136 137 6.316890 TGAACTTTATTAAACGGATGGTAGGC 59.683 38.462 0.00 0.00 0.00 3.93
137 138 7.852971 TGAACTTTATTAAACGGATGGTAGG 57.147 36.000 0.00 0.00 0.00 3.18
169 171 5.501156 CCCATTTTATAGCTAGTCCCATCC 58.499 45.833 0.00 0.00 0.00 3.51
172 174 3.073946 GCCCCATTTTATAGCTAGTCCCA 59.926 47.826 0.00 0.00 0.00 4.37
174 176 4.367039 TGCCCCATTTTATAGCTAGTCC 57.633 45.455 0.00 0.00 0.00 3.85
180 182 3.749665 TGCATTGCCCCATTTTATAGC 57.250 42.857 6.12 0.00 0.00 2.97
189 191 3.457484 CACACTTGCATTGCCCCA 58.543 55.556 6.12 0.00 0.00 4.96
278 280 0.807496 GAGTGTGCTGGCCTTTCATC 59.193 55.000 3.32 0.00 0.00 2.92
331 340 3.216800 GGTTGATGGCTATCATTGCAGA 58.783 45.455 14.04 0.00 42.60 4.26
368 377 3.711059 CTCCTCACATGCCTGCCCC 62.711 68.421 0.00 0.00 0.00 5.80
374 383 4.427394 CGTAGCTCCTCACATGCC 57.573 61.111 0.00 0.00 0.00 4.40
388 397 2.134933 TATGTGGATGCCGGGCGTA 61.135 57.895 14.95 0.00 0.00 4.42
428 450 0.178953 AAATGCCAAGCTGTCAGGGT 60.179 50.000 1.14 0.00 0.00 4.34
429 451 0.529378 GAAATGCCAAGCTGTCAGGG 59.471 55.000 1.14 0.00 0.00 4.45
437 459 1.672737 CGGGGAAAAGAAATGCCAAGC 60.673 52.381 0.00 0.00 0.00 4.01
441 463 1.218047 GCCGGGGAAAAGAAATGCC 59.782 57.895 2.18 0.00 0.00 4.40
458 480 2.188207 GAAAGGCGGGGAGAGAGC 59.812 66.667 0.00 0.00 0.00 4.09
460 482 2.660064 GCAGAAAGGCGGGGAGAGA 61.660 63.158 0.00 0.00 0.00 3.10
476 500 2.477694 CGACAAGACAAAAGTGCAAGCA 60.478 45.455 0.00 0.00 0.00 3.91
493 517 0.674581 CAGCCAGCAGGAAATCGACA 60.675 55.000 0.00 0.00 36.89 4.35
496 520 2.796651 GCAGCCAGCAGGAAATCG 59.203 61.111 0.00 0.00 44.79 3.34
522 550 2.221169 ACACGACGTACCAAGTACAGA 58.779 47.619 0.00 0.00 38.77 3.41
527 555 0.746063 TCCAACACGACGTACCAAGT 59.254 50.000 0.00 0.00 0.00 3.16
528 556 1.990563 GATCCAACACGACGTACCAAG 59.009 52.381 0.00 0.00 0.00 3.61
529 557 1.614903 AGATCCAACACGACGTACCAA 59.385 47.619 0.00 0.00 0.00 3.67
531 559 1.200716 TGAGATCCAACACGACGTACC 59.799 52.381 0.00 0.00 0.00 3.34
569 597 0.721718 GTGGATGCAGTACAAGCGAC 59.278 55.000 0.00 0.00 33.85 5.19
597 625 5.240623 CGTATATGCTTTCATGGGGCTTAAA 59.759 40.000 0.00 0.00 34.22 1.52
598 626 4.759693 CGTATATGCTTTCATGGGGCTTAA 59.240 41.667 0.00 0.00 34.22 1.85
599 627 4.041075 TCGTATATGCTTTCATGGGGCTTA 59.959 41.667 0.00 0.00 34.22 3.09
600 628 3.149196 CGTATATGCTTTCATGGGGCTT 58.851 45.455 0.00 0.00 34.22 4.35
609 637 7.295201 TGAAGTGTTGTTTCGTATATGCTTTC 58.705 34.615 0.00 0.00 0.00 2.62
613 641 6.827641 TCTTGAAGTGTTGTTTCGTATATGC 58.172 36.000 0.00 0.00 0.00 3.14
618 646 6.751157 TCCTATCTTGAAGTGTTGTTTCGTA 58.249 36.000 0.00 0.00 0.00 3.43
619 647 5.607477 TCCTATCTTGAAGTGTTGTTTCGT 58.393 37.500 0.00 0.00 0.00 3.85
620 648 5.389935 GCTCCTATCTTGAAGTGTTGTTTCG 60.390 44.000 0.00 0.00 0.00 3.46
621 649 5.389935 CGCTCCTATCTTGAAGTGTTGTTTC 60.390 44.000 0.00 0.00 0.00 2.78
622 650 4.452455 CGCTCCTATCTTGAAGTGTTGTTT 59.548 41.667 0.00 0.00 0.00 2.83
623 651 3.997021 CGCTCCTATCTTGAAGTGTTGTT 59.003 43.478 0.00 0.00 0.00 2.83
624 652 3.006967 ACGCTCCTATCTTGAAGTGTTGT 59.993 43.478 0.00 0.00 0.00 3.32
625 653 3.369147 CACGCTCCTATCTTGAAGTGTTG 59.631 47.826 0.00 0.00 0.00 3.33
647 678 0.662374 AGCGCGTGTGTGTAGTGTAC 60.662 55.000 8.43 0.00 0.00 2.90
648 679 0.386352 GAGCGCGTGTGTGTAGTGTA 60.386 55.000 8.43 0.00 0.00 2.90
649 680 1.660575 GAGCGCGTGTGTGTAGTGT 60.661 57.895 8.43 0.00 0.00 3.55
650 681 1.371758 AGAGCGCGTGTGTGTAGTG 60.372 57.895 8.43 0.00 0.00 2.74
651 682 1.371758 CAGAGCGCGTGTGTGTAGT 60.372 57.895 8.43 0.00 0.00 2.73
652 683 2.088763 CCAGAGCGCGTGTGTGTAG 61.089 63.158 8.43 0.00 0.00 2.74
653 684 2.049526 CCAGAGCGCGTGTGTGTA 60.050 61.111 8.43 0.00 0.00 2.90
654 685 4.969196 CCCAGAGCGCGTGTGTGT 62.969 66.667 8.43 0.00 0.00 3.72
655 686 4.969196 ACCCAGAGCGCGTGTGTG 62.969 66.667 8.43 4.24 0.00 3.82
656 687 4.969196 CACCCAGAGCGCGTGTGT 62.969 66.667 8.43 0.00 0.00 3.72
688 719 3.122948 CACATTAGTTGCAGTGGTCGTAC 59.877 47.826 0.00 0.00 0.00 3.67
795 832 2.284478 AGGCAGCCAGAGCAGAGA 60.284 61.111 15.80 0.00 43.56 3.10
801 839 2.511145 GAAGCGAGGCAGCCAGAG 60.511 66.667 15.80 5.26 38.01 3.35
810 848 3.828875 ATAGAAAGGAAGGAAGCGAGG 57.171 47.619 0.00 0.00 0.00 4.63
813 851 6.425417 GGATCTTTATAGAAAGGAAGGAAGCG 59.575 42.308 9.85 0.00 42.13 4.68
814 852 6.712998 GGGATCTTTATAGAAAGGAAGGAAGC 59.287 42.308 9.85 0.00 42.13 3.86
848 886 2.475466 CGCGGCTGGCTCATGATTT 61.475 57.895 0.00 0.00 40.44 2.17
859 897 1.565156 TTCACTTGTAAGCGCGGCTG 61.565 55.000 8.83 0.00 39.62 4.85
878 923 3.634218 ATGATCTCCTCCCACTCTCAT 57.366 47.619 0.00 0.00 0.00 2.90
879 924 3.303938 GAATGATCTCCTCCCACTCTCA 58.696 50.000 0.00 0.00 0.00 3.27
880 925 3.303938 TGAATGATCTCCTCCCACTCTC 58.696 50.000 0.00 0.00 0.00 3.20
881 926 3.052262 TCTGAATGATCTCCTCCCACTCT 60.052 47.826 0.00 0.00 0.00 3.24
896 941 8.727910 TCTTCTCTGAAATGTGAAATCTGAATG 58.272 33.333 0.00 0.00 0.00 2.67
901 946 7.456725 TCCTTCTTCTCTGAAATGTGAAATCT 58.543 34.615 0.00 0.00 0.00 2.40
903 948 7.456725 TCTCCTTCTTCTCTGAAATGTGAAAT 58.543 34.615 0.00 0.00 0.00 2.17
904 949 6.830912 TCTCCTTCTTCTCTGAAATGTGAAA 58.169 36.000 0.00 0.00 0.00 2.69
905 950 6.425210 TCTCCTTCTTCTCTGAAATGTGAA 57.575 37.500 0.00 0.00 0.00 3.18
906 951 6.425210 TTCTCCTTCTTCTCTGAAATGTGA 57.575 37.500 0.00 0.00 0.00 3.58
907 952 5.122082 GCTTCTCCTTCTTCTCTGAAATGTG 59.878 44.000 0.00 0.00 0.00 3.21
908 953 5.012975 AGCTTCTCCTTCTTCTCTGAAATGT 59.987 40.000 0.00 0.00 0.00 2.71
909 954 5.490159 AGCTTCTCCTTCTTCTCTGAAATG 58.510 41.667 0.00 0.00 0.00 2.32
910 955 5.624281 CGAGCTTCTCCTTCTTCTCTGAAAT 60.624 44.000 0.00 0.00 0.00 2.17
911 956 4.321601 CGAGCTTCTCCTTCTTCTCTGAAA 60.322 45.833 0.00 0.00 0.00 2.69
912 957 3.192422 CGAGCTTCTCCTTCTTCTCTGAA 59.808 47.826 0.00 0.00 0.00 3.02
913 958 2.752354 CGAGCTTCTCCTTCTTCTCTGA 59.248 50.000 0.00 0.00 0.00 3.27
914 959 2.735126 GCGAGCTTCTCCTTCTTCTCTG 60.735 54.545 0.00 0.00 0.00 3.35
915 960 1.476488 GCGAGCTTCTCCTTCTTCTCT 59.524 52.381 0.00 0.00 0.00 3.10
916 961 1.476488 AGCGAGCTTCTCCTTCTTCTC 59.524 52.381 0.00 0.00 0.00 2.87
917 962 1.204467 CAGCGAGCTTCTCCTTCTTCT 59.796 52.381 0.00 0.00 0.00 2.85
925 970 0.381801 CTCCTCTCAGCGAGCTTCTC 59.618 60.000 0.00 0.00 38.49 2.87
936 981 2.487775 AGCTAGACCTCTCTCCTCTCA 58.512 52.381 0.00 0.00 0.00 3.27
938 983 3.904339 CTCTAGCTAGACCTCTCTCCTCT 59.096 52.174 19.72 0.00 0.00 3.69
970 1015 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
994 1039 1.394618 GCGTACCAGTCCATCTCTCT 58.605 55.000 0.00 0.00 0.00 3.10
996 1041 0.680280 ACGCGTACCAGTCCATCTCT 60.680 55.000 11.67 0.00 0.00 3.10
998 1043 1.511305 CACGCGTACCAGTCCATCT 59.489 57.895 13.44 0.00 0.00 2.90
1204 1261 2.212794 GAGGAGGAGGACTGGGACGA 62.213 65.000 0.00 0.00 0.00 4.20
1413 1476 4.272991 GTGATCATGAGCACCATCTTCTTC 59.727 45.833 29.45 4.11 41.49 2.87
1555 1630 3.578272 CTCCTCGTCCTCCTCGCG 61.578 72.222 0.00 0.00 0.00 5.87
1599 1674 1.299773 CTTGATCTCGCTCTCGCCC 60.300 63.158 0.00 0.00 35.26 6.13
1632 1707 2.636412 CGTCGGCTTGAGGTCCTGA 61.636 63.158 0.00 0.00 0.00 3.86
1679 1762 3.013219 GAGGGAGCAAGAGGAAATGTTC 58.987 50.000 0.00 0.00 0.00 3.18
1680 1763 2.616510 CGAGGGAGCAAGAGGAAATGTT 60.617 50.000 0.00 0.00 0.00 2.71
1681 1764 1.065854 CGAGGGAGCAAGAGGAAATGT 60.066 52.381 0.00 0.00 0.00 2.71
1721 1809 5.406649 CAAGCACACCAAGAAAACAGTAAA 58.593 37.500 0.00 0.00 0.00 2.01
1749 1842 1.541588 GACAAAACCAGAGGCCACATC 59.458 52.381 5.01 0.00 0.00 3.06
1750 1843 1.620822 GACAAAACCAGAGGCCACAT 58.379 50.000 5.01 0.00 0.00 3.21
1770 1863 7.596248 CACTCCAAAACCATTCATTTTACAGAG 59.404 37.037 0.00 0.00 32.05 3.35
1783 1883 4.371624 TCACTCATCACTCCAAAACCAT 57.628 40.909 0.00 0.00 0.00 3.55
1786 1886 5.529060 AGTTCTTCACTCATCACTCCAAAAC 59.471 40.000 0.00 0.00 0.00 2.43
1819 1919 0.026803 GTGCGCAGATCAATCGTTCC 59.973 55.000 12.22 0.00 0.00 3.62
1879 1983 4.914983 TCTGAAGAGAAATTCACCATGCT 58.085 39.130 0.00 0.00 35.40 3.79
1906 2013 2.704464 TGCAGCTAGTCTCGGTACTA 57.296 50.000 0.00 0.00 0.00 1.82
1908 2015 2.873133 ATTGCAGCTAGTCTCGGTAC 57.127 50.000 0.00 0.00 0.00 3.34
1910 2017 2.496070 TGTAATTGCAGCTAGTCTCGGT 59.504 45.455 0.00 0.00 0.00 4.69
1912 2172 3.549471 CACTGTAATTGCAGCTAGTCTCG 59.451 47.826 21.76 0.00 39.96 4.04
1915 2175 3.861840 TCCACTGTAATTGCAGCTAGTC 58.138 45.455 21.76 0.00 39.96 2.59
1928 2188 1.751351 CTCTGAAGCGGATCCACTGTA 59.249 52.381 13.41 0.00 0.00 2.74
2094 2360 4.020573 TGAACACACGGGATAGAAGTTGAT 60.021 41.667 0.00 0.00 0.00 2.57
2095 2361 3.322541 TGAACACACGGGATAGAAGTTGA 59.677 43.478 0.00 0.00 0.00 3.18
2096 2362 3.659786 TGAACACACGGGATAGAAGTTG 58.340 45.455 0.00 0.00 0.00 3.16
2098 2364 3.660865 GTTGAACACACGGGATAGAAGT 58.339 45.455 0.00 0.00 0.00 3.01
2100 2366 2.610976 CCGTTGAACACACGGGATAGAA 60.611 50.000 15.28 0.00 42.70 2.10
2138 2433 7.719633 GGAATAGGACACAATTATAAAGGAGCA 59.280 37.037 0.00 0.00 0.00 4.26
2174 2469 9.886132 ATTTTTGGACGACTATAGTAGACAATT 57.114 29.630 18.55 8.85 0.00 2.32
2182 2477 9.444600 ACACAATTATTTTTGGACGACTATAGT 57.555 29.630 4.68 4.68 0.00 2.12
2183 2478 9.916397 GACACAATTATTTTTGGACGACTATAG 57.084 33.333 0.00 0.00 0.00 1.31
2184 2479 8.885722 GGACACAATTATTTTTGGACGACTATA 58.114 33.333 0.00 0.00 0.00 1.31
2185 2480 7.610305 AGGACACAATTATTTTTGGACGACTAT 59.390 33.333 0.00 0.00 0.00 2.12
2186 2481 6.938030 AGGACACAATTATTTTTGGACGACTA 59.062 34.615 0.00 0.00 0.00 2.59
2187 2482 5.768164 AGGACACAATTATTTTTGGACGACT 59.232 36.000 0.00 0.00 0.00 4.18
2188 2483 6.009115 AGGACACAATTATTTTTGGACGAC 57.991 37.500 0.00 0.00 0.00 4.34
2191 2486 5.988561 TGCAAGGACACAATTATTTTTGGAC 59.011 36.000 0.00 0.00 0.00 4.02
2238 2560 6.730960 TTGTATAAATGACTTTGACGTCCC 57.269 37.500 14.12 0.00 32.97 4.46
2264 2586 9.109393 TCAGATATCCCGTAAATCAAAGAAAAG 57.891 33.333 0.00 0.00 0.00 2.27
2265 2587 9.109393 CTCAGATATCCCGTAAATCAAAGAAAA 57.891 33.333 0.00 0.00 0.00 2.29
2272 2594 6.323996 ACTGTTCTCAGATATCCCGTAAATCA 59.676 38.462 0.00 0.00 43.76 2.57
2273 2595 6.642950 CACTGTTCTCAGATATCCCGTAAATC 59.357 42.308 0.00 0.00 43.76 2.17
2289 2611 4.870991 GGCTCTACAATTACCACTGTTCTC 59.129 45.833 0.00 0.00 0.00 2.87
2293 2615 4.225042 TGATGGCTCTACAATTACCACTGT 59.775 41.667 0.00 0.00 32.13 3.55
2297 2619 5.185454 CAACTGATGGCTCTACAATTACCA 58.815 41.667 0.00 0.00 34.28 3.25
2324 2646 5.755409 TGGAGCTGAGTAATTGTAAGGAA 57.245 39.130 0.00 0.00 0.00 3.36
2330 2652 4.583871 CTCCTTTGGAGCTGAGTAATTGT 58.416 43.478 0.00 0.00 43.29 2.71
2379 2717 1.982958 ACCCTTAAAGACGGTGTCCAT 59.017 47.619 0.00 0.00 32.18 3.41
2392 2730 3.324846 CCATGATCCGATCAGACCCTTAA 59.675 47.826 16.07 0.00 43.53 1.85
2394 2732 1.696336 CCATGATCCGATCAGACCCTT 59.304 52.381 16.07 0.00 43.53 3.95
2395 2733 1.346062 CCATGATCCGATCAGACCCT 58.654 55.000 16.07 0.00 43.53 4.34
2403 2741 2.883828 GCGGGACCCATGATCCGAT 61.884 63.158 12.15 0.00 44.69 4.18
2406 2744 1.526917 CAAGCGGGACCCATGATCC 60.527 63.158 12.15 7.30 35.28 3.36
2411 2749 1.002134 CTTGTCAAGCGGGACCCAT 60.002 57.895 12.15 0.00 36.97 4.00
2418 2756 1.734465 GGTTCTGATCTTGTCAAGCGG 59.266 52.381 7.78 0.56 36.14 5.52
2422 2760 3.490439 TGCTGGTTCTGATCTTGTCAA 57.510 42.857 0.00 0.00 36.14 3.18
2428 2766 8.897752 GTTTTAATAGAATGCTGGTTCTGATCT 58.102 33.333 9.02 0.00 38.79 2.75
2429 2767 8.677300 TGTTTTAATAGAATGCTGGTTCTGATC 58.323 33.333 9.02 0.00 38.79 2.92
2478 2820 7.439955 GGGAAATTCAGGAAAACGTAAATTTGT 59.560 33.333 0.00 0.00 0.00 2.83
2479 2821 7.439655 TGGGAAATTCAGGAAAACGTAAATTTG 59.560 33.333 0.00 0.00 0.00 2.32
2482 2824 6.658188 TGGGAAATTCAGGAAAACGTAAAT 57.342 33.333 0.00 0.00 0.00 1.40
2488 2830 6.295249 TCCATTTTGGGAAATTCAGGAAAAC 58.705 36.000 0.00 0.00 38.32 2.43
2493 2835 5.018809 TCTCTCCATTTTGGGAAATTCAGG 58.981 41.667 0.00 0.00 38.32 3.86
2494 2836 6.594788 TTCTCTCCATTTTGGGAAATTCAG 57.405 37.500 0.00 0.00 38.32 3.02
2504 2846 9.538508 AAGTTTTCAGAATTTCTCTCCATTTTG 57.461 29.630 0.00 0.00 29.07 2.44
2509 2851 7.557719 AGTGAAAGTTTTCAGAATTTCTCTCCA 59.442 33.333 7.51 0.00 46.80 3.86


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

AutoCloner maintained by Alex Coulton.