Multiple sequence alignment - TraesCS3D01G268500

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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 TraesCS3D01G268500 chr3D 100.000 2593 0 0 1 2593 372631634 372634226 0.000000e+00 4789.0
1 TraesCS3D01G268500 chr3D 96.000 100 3 1 2276 2374 372704112 372704211 7.430000e-36 161.0
2 TraesCS3D01G268500 chr3B 91.291 1309 58 18 880 2148 486817821 486819113 0.000000e+00 1735.0
3 TraesCS3D01G268500 chr3B 84.837 521 39 17 7 505 486814466 486814968 3.000000e-134 488.0
4 TraesCS3D01G268500 chr3B 94.298 228 10 3 625 851 486817594 486817819 1.910000e-91 346.0
5 TraesCS3D01G268500 chr3B 93.274 223 7 4 2152 2374 486820114 486820328 3.220000e-84 322.0
6 TraesCS3D01G268500 chr3B 91.304 138 7 1 503 635 486815255 486815392 1.580000e-42 183.0
7 TraesCS3D01G268500 chr3A 90.031 1284 69 23 898 2148 494045392 494046649 0.000000e+00 1607.0
8 TraesCS3D01G268500 chr3A 94.043 554 22 9 303 851 494044832 494045379 0.000000e+00 830.0
9 TraesCS3D01G268500 chr3A 85.231 325 13 11 7 311 494043890 494044199 4.190000e-78 302.0
10 TraesCS3D01G268500 chr3A 93.564 202 10 1 2176 2374 494054636 494054837 5.420000e-77 298.0
11 TraesCS3D01G268500 chr3A 100.000 29 0 0 2152 2180 494047792 494047820 1.000000e-03 54.7
12 TraesCS3D01G268500 chr7A 91.667 192 13 3 2404 2593 696408892 696408702 1.980000e-66 263.0
13 TraesCS3D01G268500 chr2A 91.237 194 12 2 2387 2576 121219460 121219652 2.560000e-65 259.0
14 TraesCS3D01G268500 chr5B 90.769 195 15 3 2401 2593 225515519 225515326 9.210000e-65 257.0
15 TraesCS3D01G268500 chr5A 90.769 195 15 3 2401 2593 37973960 37973767 9.210000e-65 257.0
16 TraesCS3D01G268500 chr4D 90.769 195 15 3 2401 2593 445388254 445388061 9.210000e-65 257.0
17 TraesCS3D01G268500 chr6B 91.053 190 12 2 2389 2574 691754873 691754685 4.280000e-63 252.0
18 TraesCS3D01G268500 chr4A 90.256 195 16 2 2401 2593 708705261 708705068 4.280000e-63 252.0
19 TraesCS3D01G268500 chr4B 90.426 188 16 2 2389 2576 554563506 554563691 1.990000e-61 246.0
20 TraesCS3D01G268500 chr7D 88.660 194 16 5 2403 2593 210389162 210388972 5.580000e-57 231.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3D01G268500 chr3D 372631634 372634226 2592 False 4789.000 4789 100.00000 1 2593 1 chr3D.!!$F1 2592
1 TraesCS3D01G268500 chr3B 486814466 486820328 5862 False 614.800 1735 91.00080 7 2374 5 chr3B.!!$F1 2367
2 TraesCS3D01G268500 chr3A 494043890 494047820 3930 False 698.425 1607 92.32625 7 2180 4 chr3A.!!$F2 2173

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
854 4035 0.178909 TCCAAACCACCATGGGCATT 60.179 50.0 18.09 3.61 43.37 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2202 6597 0.179134 TTTCGCAAAAACGTGTGGGG 60.179 50.0 10.13 0.99 0.0 4.96 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
24 25 6.633500 TCGACAAAATTTCTCCAGAACAAT 57.367 33.333 0.00 0.00 33.13 2.71
186 198 3.755378 CCCACTCTCATTCCAAGAACTTG 59.245 47.826 7.49 7.49 40.13 3.16
231 251 1.610673 GTCCTGGGCTGGAGAGACA 60.611 63.158 0.00 0.00 36.69 3.41
234 254 1.601171 CTGGGCTGGAGAGACAAGG 59.399 63.158 0.00 0.00 0.00 3.61
300 320 1.134640 ACGTTGCGCCCATAGAATACA 60.135 47.619 4.18 0.00 0.00 2.29
343 1004 7.662897 TGCATATATATGTTCGTTCCAGTACA 58.337 34.615 21.10 5.86 36.11 2.90
344 1005 7.597369 TGCATATATATGTTCGTTCCAGTACAC 59.403 37.037 21.10 2.72 36.11 2.90
435 1104 0.517316 GGTTGCTGGTTAGTCAAGCG 59.483 55.000 0.00 0.00 34.80 4.68
442 1111 3.491267 GCTGGTTAGTCAAGCGCTAATAG 59.509 47.826 12.05 5.13 34.80 1.73
447 1116 6.091713 TGGTTAGTCAAGCGCTAATAGAAAAC 59.908 38.462 12.05 13.39 34.80 2.43
479 1150 2.591429 CAGACAGCAACCACGGCA 60.591 61.111 0.00 0.00 0.00 5.69
480 1151 1.968017 CAGACAGCAACCACGGCAT 60.968 57.895 0.00 0.00 0.00 4.40
481 1152 0.673333 CAGACAGCAACCACGGCATA 60.673 55.000 0.00 0.00 0.00 3.14
482 1153 0.391661 AGACAGCAACCACGGCATAG 60.392 55.000 0.00 0.00 0.00 2.23
483 1154 1.982073 GACAGCAACCACGGCATAGC 61.982 60.000 0.00 0.00 0.00 2.97
484 1155 1.746615 CAGCAACCACGGCATAGCT 60.747 57.895 0.00 0.00 0.00 3.32
485 1156 1.746615 AGCAACCACGGCATAGCTG 60.747 57.895 0.00 0.00 41.29 4.24
557 1521 4.651778 ACCAGCTGTTAGAATAAGCACAA 58.348 39.130 13.81 0.00 39.47 3.33
558 1522 5.256474 ACCAGCTGTTAGAATAAGCACAAT 58.744 37.500 13.81 0.00 39.47 2.71
612 1581 5.934625 GCACCAATAGATGATAAGGTACTGG 59.065 44.000 0.00 0.00 40.86 4.00
833 4014 1.619654 TGCAATTGACCAAGTCCAGG 58.380 50.000 10.34 0.00 0.00 4.45
851 4032 2.282783 GGTCCAAACCACCATGGGC 61.283 63.158 18.09 0.00 45.68 5.36
852 4033 1.532794 GTCCAAACCACCATGGGCA 60.533 57.895 18.09 0.00 43.37 5.36
853 4034 0.904394 GTCCAAACCACCATGGGCAT 60.904 55.000 18.09 0.00 43.37 4.40
854 4035 0.178909 TCCAAACCACCATGGGCATT 60.179 50.000 18.09 3.61 43.37 3.56
855 4036 1.077828 TCCAAACCACCATGGGCATTA 59.922 47.619 18.09 0.00 43.37 1.90
856 4037 2.117865 CCAAACCACCATGGGCATTAT 58.882 47.619 18.09 0.00 43.37 1.28
857 4038 2.158928 CCAAACCACCATGGGCATTATG 60.159 50.000 18.09 3.54 43.37 1.90
858 4039 2.500910 CAAACCACCATGGGCATTATGT 59.499 45.455 18.09 0.00 43.37 2.29
859 4040 2.548464 ACCACCATGGGCATTATGTT 57.452 45.000 18.09 0.00 43.37 2.71
860 4041 2.387757 ACCACCATGGGCATTATGTTC 58.612 47.619 18.09 0.00 43.37 3.18
861 4042 2.024080 ACCACCATGGGCATTATGTTCT 60.024 45.455 18.09 0.00 43.37 3.01
862 4043 3.204158 ACCACCATGGGCATTATGTTCTA 59.796 43.478 18.09 0.00 43.37 2.10
863 4044 3.569701 CCACCATGGGCATTATGTTCTAC 59.430 47.826 18.09 0.00 32.67 2.59
864 4045 4.206375 CACCATGGGCATTATGTTCTACA 58.794 43.478 18.09 0.00 0.00 2.74
865 4046 4.828939 CACCATGGGCATTATGTTCTACAT 59.171 41.667 18.09 0.00 42.35 2.29
866 4047 4.828939 ACCATGGGCATTATGTTCTACATG 59.171 41.667 18.09 0.00 39.53 3.21
867 4048 4.219070 CCATGGGCATTATGTTCTACATGG 59.781 45.833 2.85 15.25 45.36 3.66
868 4049 4.518278 TGGGCATTATGTTCTACATGGT 57.482 40.909 0.00 0.00 39.53 3.55
869 4050 4.460263 TGGGCATTATGTTCTACATGGTC 58.540 43.478 0.00 0.00 39.53 4.02
870 4051 3.821033 GGGCATTATGTTCTACATGGTCC 59.179 47.826 0.00 0.44 39.53 4.46
871 4052 4.446311 GGGCATTATGTTCTACATGGTCCT 60.446 45.833 0.00 0.00 39.53 3.85
872 4053 4.757149 GGCATTATGTTCTACATGGTCCTC 59.243 45.833 0.00 0.00 39.53 3.71
873 4054 5.368145 GCATTATGTTCTACATGGTCCTCA 58.632 41.667 0.00 0.00 39.53 3.86
874 4055 5.237344 GCATTATGTTCTACATGGTCCTCAC 59.763 44.000 0.00 0.00 39.53 3.51
875 4056 6.586344 CATTATGTTCTACATGGTCCTCACT 58.414 40.000 0.00 0.00 39.53 3.41
876 4057 6.620877 TTATGTTCTACATGGTCCTCACTT 57.379 37.500 0.00 0.00 39.53 3.16
877 4058 4.271696 TGTTCTACATGGTCCTCACTTG 57.728 45.455 0.00 0.00 0.00 3.16
878 4059 3.646162 TGTTCTACATGGTCCTCACTTGT 59.354 43.478 0.00 0.00 0.00 3.16
888 4069 4.286032 TGGTCCTCACTTGTGTATAAAGCT 59.714 41.667 0.46 0.00 0.00 3.74
890 4071 6.043411 GGTCCTCACTTGTGTATAAAGCTAG 58.957 44.000 0.46 0.00 0.00 3.42
900 4081 4.757149 GTGTATAAAGCTAGCCATTGGAGG 59.243 45.833 12.13 0.00 0.00 4.30
902 4083 1.298953 AAAGCTAGCCATTGGAGGGA 58.701 50.000 12.13 0.00 0.00 4.20
907 4088 2.830370 GCCATTGGAGGGAAGGCG 60.830 66.667 6.95 0.00 35.42 5.52
920 4101 2.892542 GAAGGCGTTCGGGAGAGCTC 62.893 65.000 5.27 5.27 41.75 4.09
931 4112 1.353804 GAGAGCTCGAGTACAGGCG 59.646 63.158 15.13 0.00 0.00 5.52
932 4113 2.054140 GAGAGCTCGAGTACAGGCGG 62.054 65.000 15.13 0.00 0.00 6.13
948 4129 3.069016 CAGGCGGATATACCAAGTACACA 59.931 47.826 0.00 0.00 38.90 3.72
955 4136 6.984474 CGGATATACCAAGTACACAAATCAGT 59.016 38.462 0.00 0.00 38.90 3.41
966 4147 8.034058 AGTACACAAATCAGTAATCTTCAAGC 57.966 34.615 0.00 0.00 0.00 4.01
990 4171 2.607282 CCTAGTTTAATCTCGCCGCGAT 60.607 50.000 17.22 4.07 34.61 4.58
1028 4209 4.440663 GGTTCTGCATGCTCTTAATTTCCC 60.441 45.833 20.33 1.55 0.00 3.97
1046 4227 0.610232 CCTCCTCCCTGGCTTGTTTG 60.610 60.000 0.00 0.00 35.26 2.93
1054 4235 2.229784 CCCTGGCTTGTTTGTGAGATTC 59.770 50.000 0.00 0.00 0.00 2.52
1180 4372 6.325286 AGGTCAAAGGTCTGTATATTCTCTCC 59.675 42.308 0.00 0.00 0.00 3.71
1181 4373 6.210078 GTCAAAGGTCTGTATATTCTCTCCG 58.790 44.000 0.00 0.00 0.00 4.63
1219 4415 5.755813 TCGTCTCTGTAACTTACTTGACAC 58.244 41.667 14.11 6.02 0.00 3.67
1220 4416 4.916249 CGTCTCTGTAACTTACTTGACACC 59.084 45.833 14.11 0.00 0.00 4.16
1316 4517 2.660552 GACGTGGTGGTGGTCGTG 60.661 66.667 0.00 0.00 36.67 4.35
1403 4604 3.119280 CGGAGGAGAAGAAGAAGAAGGAC 60.119 52.174 0.00 0.00 0.00 3.85
1420 4621 3.768878 AGGACGAAGAGGAGAAGAAGAA 58.231 45.455 0.00 0.00 0.00 2.52
1421 4622 3.761752 AGGACGAAGAGGAGAAGAAGAAG 59.238 47.826 0.00 0.00 0.00 2.85
1422 4623 3.759618 GGACGAAGAGGAGAAGAAGAAGA 59.240 47.826 0.00 0.00 0.00 2.87
1423 4624 4.218852 GGACGAAGAGGAGAAGAAGAAGAA 59.781 45.833 0.00 0.00 0.00 2.52
1424 4625 5.385509 ACGAAGAGGAGAAGAAGAAGAAG 57.614 43.478 0.00 0.00 0.00 2.85
1425 4626 4.219725 ACGAAGAGGAGAAGAAGAAGAAGG 59.780 45.833 0.00 0.00 0.00 3.46
1467 4668 2.174360 AGAAAAAGGAATGCCTGGAGC 58.826 47.619 0.00 0.00 46.28 4.70
1468 4669 2.174360 GAAAAAGGAATGCCTGGAGCT 58.826 47.619 0.00 0.00 46.28 4.09
1549 4780 3.124921 CCCGCCGCAAACCTACAG 61.125 66.667 0.00 0.00 0.00 2.74
1566 4797 2.576317 GCTGCTACGTCGACGACC 60.576 66.667 41.52 27.11 43.02 4.79
1567 4798 2.865308 CTGCTACGTCGACGACCA 59.135 61.111 41.52 29.63 43.02 4.02
1568 4799 1.511464 CTGCTACGTCGACGACCAC 60.511 63.158 41.52 26.33 43.02 4.16
1569 4800 2.202401 GCTACGTCGACGACCACC 60.202 66.667 41.52 20.81 43.02 4.61
1613 4844 1.832883 CGAGAGGGGAGATCATCGAT 58.167 55.000 0.00 0.00 32.13 3.59
1616 4847 1.430853 AGAGGGGAGATCATCGATCCA 59.569 52.381 0.00 0.00 39.66 3.41
1622 4853 1.005748 GATCATCGATCCAGCGCCA 60.006 57.895 2.29 0.00 33.37 5.69
1628 4859 2.585247 GATCCAGCGCCACCGTAC 60.585 66.667 2.29 0.00 36.67 3.67
1629 4860 4.157120 ATCCAGCGCCACCGTACC 62.157 66.667 2.29 0.00 36.67 3.34
1654 4885 0.037697 TACAGCCGATCGTTGTTGCT 60.038 50.000 22.28 16.51 0.00 3.91
1760 4992 5.579511 AGCTTGCATGCACATTATTTTCTTC 59.420 36.000 22.58 0.00 34.99 2.87
1939 5178 8.856153 TTAGCTTCACCTAATAATGTGACAAA 57.144 30.769 0.00 0.00 40.96 2.83
1954 5193 7.865706 ATGTGACAAATTGATTAGTCTACCC 57.134 36.000 0.00 0.00 32.41 3.69
2212 6607 5.945144 AACTAGATAATACCCCACACGTT 57.055 39.130 0.00 0.00 0.00 3.99
2213 6608 5.945144 ACTAGATAATACCCCACACGTTT 57.055 39.130 0.00 0.00 0.00 3.60
2288 6683 9.784531 ACATGACCTTTGGACTAATAATATGAG 57.215 33.333 0.00 0.00 0.00 2.90
2344 6739 7.554211 TGTTATGAATAGCATGCAATTCCAAA 58.446 30.769 21.98 3.68 37.87 3.28
2374 6769 8.457238 AGAAGGAAAGGTCAAAATGCTATATC 57.543 34.615 0.00 0.00 0.00 1.63
2375 6770 8.277918 AGAAGGAAAGGTCAAAATGCTATATCT 58.722 33.333 0.00 0.00 0.00 1.98
2376 6771 8.829373 AAGGAAAGGTCAAAATGCTATATCTT 57.171 30.769 0.00 0.00 0.00 2.40
2377 6772 8.457238 AGGAAAGGTCAAAATGCTATATCTTC 57.543 34.615 0.00 0.00 0.00 2.87
2378 6773 8.277918 AGGAAAGGTCAAAATGCTATATCTTCT 58.722 33.333 0.00 0.00 0.00 2.85
2379 6774 9.561069 GGAAAGGTCAAAATGCTATATCTTCTA 57.439 33.333 0.00 0.00 0.00 2.10
2382 6777 9.771534 AAGGTCAAAATGCTATATCTTCTACTC 57.228 33.333 0.00 0.00 0.00 2.59
2383 6778 8.371699 AGGTCAAAATGCTATATCTTCTACTCC 58.628 37.037 0.00 0.00 0.00 3.85
2384 6779 8.371699 GGTCAAAATGCTATATCTTCTACTCCT 58.628 37.037 0.00 0.00 0.00 3.69
2404 6799 4.932146 CCTAAATAGGAAATTGCCCGTTG 58.068 43.478 0.00 0.00 46.63 4.10
2405 6800 2.959507 AATAGGAAATTGCCCGTTGC 57.040 45.000 0.00 0.00 41.77 4.17
2416 6811 3.301554 CCGTTGCAATGGGGCACA 61.302 61.111 27.32 0.00 44.86 4.57
2417 6812 2.733301 CGTTGCAATGGGGCACAA 59.267 55.556 11.00 0.00 44.86 3.33
2418 6813 1.068753 CGTTGCAATGGGGCACAAA 59.931 52.632 11.00 0.00 44.86 2.83
2419 6814 0.320596 CGTTGCAATGGGGCACAAAT 60.321 50.000 11.00 0.00 44.86 2.32
2420 6815 1.067283 CGTTGCAATGGGGCACAAATA 60.067 47.619 11.00 0.00 44.86 1.40
2421 6816 2.418471 CGTTGCAATGGGGCACAAATAT 60.418 45.455 11.00 0.00 44.86 1.28
2422 6817 3.608796 GTTGCAATGGGGCACAAATATT 58.391 40.909 0.59 0.00 44.86 1.28
2423 6818 3.540314 TGCAATGGGGCACAAATATTC 57.460 42.857 0.00 0.00 39.25 1.75
2424 6819 3.106054 TGCAATGGGGCACAAATATTCT 58.894 40.909 0.00 0.00 39.25 2.40
2425 6820 4.285020 TGCAATGGGGCACAAATATTCTA 58.715 39.130 0.00 0.00 39.25 2.10
2426 6821 4.713814 TGCAATGGGGCACAAATATTCTAA 59.286 37.500 0.00 0.00 39.25 2.10
2427 6822 5.366186 TGCAATGGGGCACAAATATTCTAAT 59.634 36.000 0.00 0.00 39.25 1.73
2428 6823 6.552725 TGCAATGGGGCACAAATATTCTAATA 59.447 34.615 0.00 0.00 39.25 0.98
2429 6824 7.092716 GCAATGGGGCACAAATATTCTAATAG 58.907 38.462 0.00 0.00 0.00 1.73
2430 6825 7.255942 GCAATGGGGCACAAATATTCTAATAGT 60.256 37.037 0.00 0.00 0.00 2.12
2431 6826 8.641541 CAATGGGGCACAAATATTCTAATAGTT 58.358 33.333 0.00 0.00 30.10 2.24
2432 6827 8.782137 ATGGGGCACAAATATTCTAATAGTTT 57.218 30.769 0.00 0.00 27.75 2.66
2433 6828 9.875708 ATGGGGCACAAATATTCTAATAGTTTA 57.124 29.630 0.00 0.00 27.75 2.01
2434 6829 9.349713 TGGGGCACAAATATTCTAATAGTTTAG 57.650 33.333 0.00 0.00 36.87 1.85
2435 6830 9.350951 GGGGCACAAATATTCTAATAGTTTAGT 57.649 33.333 0.00 0.00 36.87 2.24
2466 6861 9.502091 TCATGGCAAATATATACCTTTACAGTC 57.498 33.333 0.00 0.00 0.00 3.51
2467 6862 8.730680 CATGGCAAATATATACCTTTACAGTCC 58.269 37.037 0.00 0.00 0.00 3.85
2468 6863 8.041143 TGGCAAATATATACCTTTACAGTCCT 57.959 34.615 0.00 0.00 0.00 3.85
2469 6864 8.499406 TGGCAAATATATACCTTTACAGTCCTT 58.501 33.333 0.00 0.00 0.00 3.36
2476 6871 4.634012 ACCTTTACAGTCCTTATGCACA 57.366 40.909 0.00 0.00 0.00 4.57
2477 6872 5.179452 ACCTTTACAGTCCTTATGCACAT 57.821 39.130 0.00 0.00 0.00 3.21
2478 6873 5.186198 ACCTTTACAGTCCTTATGCACATC 58.814 41.667 0.00 0.00 0.00 3.06
2479 6874 5.045578 ACCTTTACAGTCCTTATGCACATCT 60.046 40.000 0.00 0.00 0.00 2.90
2480 6875 5.882557 CCTTTACAGTCCTTATGCACATCTT 59.117 40.000 0.00 0.00 0.00 2.40
2481 6876 6.183360 CCTTTACAGTCCTTATGCACATCTTG 60.183 42.308 0.00 0.00 0.00 3.02
2492 6887 3.241067 GCACATCTTGCCAAATCATGT 57.759 42.857 0.00 0.00 46.63 3.21
2493 6888 3.184541 GCACATCTTGCCAAATCATGTC 58.815 45.455 0.00 0.00 46.63 3.06
2494 6889 3.119245 GCACATCTTGCCAAATCATGTCT 60.119 43.478 0.00 0.00 46.63 3.41
2495 6890 4.619863 GCACATCTTGCCAAATCATGTCTT 60.620 41.667 0.00 0.00 46.63 3.01
2496 6891 4.862574 CACATCTTGCCAAATCATGTCTTG 59.137 41.667 0.00 0.00 0.00 3.02
2497 6892 4.525487 ACATCTTGCCAAATCATGTCTTGT 59.475 37.500 0.00 0.00 0.00 3.16
2498 6893 5.011329 ACATCTTGCCAAATCATGTCTTGTT 59.989 36.000 0.00 0.00 0.00 2.83
2499 6894 5.125100 TCTTGCCAAATCATGTCTTGTTC 57.875 39.130 0.00 0.00 0.00 3.18
2500 6895 4.583907 TCTTGCCAAATCATGTCTTGTTCA 59.416 37.500 0.00 0.00 0.00 3.18
2501 6896 5.244402 TCTTGCCAAATCATGTCTTGTTCAT 59.756 36.000 0.00 0.00 0.00 2.57
2502 6897 6.433716 TCTTGCCAAATCATGTCTTGTTCATA 59.566 34.615 0.00 0.00 0.00 2.15
2503 6898 6.587206 TGCCAAATCATGTCTTGTTCATAA 57.413 33.333 0.00 0.00 0.00 1.90
2504 6899 6.990798 TGCCAAATCATGTCTTGTTCATAAA 58.009 32.000 0.00 0.00 0.00 1.40
2505 6900 6.867816 TGCCAAATCATGTCTTGTTCATAAAC 59.132 34.615 0.00 0.00 35.85 2.01
2506 6901 6.867816 GCCAAATCATGTCTTGTTCATAAACA 59.132 34.615 0.00 0.00 43.58 2.83
2507 6902 7.546667 GCCAAATCATGTCTTGTTCATAAACAT 59.453 33.333 0.00 0.00 44.59 2.71
2508 6903 9.426837 CCAAATCATGTCTTGTTCATAAACATT 57.573 29.630 0.00 0.00 44.59 2.71
2512 6907 9.793252 ATCATGTCTTGTTCATAAACATTTAGC 57.207 29.630 0.00 0.00 44.59 3.09
2513 6908 9.013229 TCATGTCTTGTTCATAAACATTTAGCT 57.987 29.630 0.00 0.00 44.59 3.32
2516 6911 9.719355 TGTCTTGTTCATAAACATTTAGCTAGA 57.281 29.630 0.00 0.00 44.59 2.43
2520 6915 9.840427 TTGTTCATAAACATTTAGCTAGAAAGC 57.160 29.630 0.00 0.00 45.76 3.51
2521 6916 9.008965 TGTTCATAAACATTTAGCTAGAAAGCA 57.991 29.630 0.00 0.00 44.72 3.91
2522 6917 9.840427 GTTCATAAACATTTAGCTAGAAAGCAA 57.160 29.630 0.00 0.00 42.09 3.91
2552 6947 5.953571 AGATGTAATAAATCCTTGGGTCCC 58.046 41.667 0.00 0.00 0.00 4.46
2553 6948 4.159244 TGTAATAAATCCTTGGGTCCCG 57.841 45.455 2.65 0.00 0.00 5.14
2554 6949 3.524380 TGTAATAAATCCTTGGGTCCCGT 59.476 43.478 2.65 0.00 0.00 5.28
2555 6950 3.750501 AATAAATCCTTGGGTCCCGTT 57.249 42.857 2.65 0.00 0.00 4.44
2556 6951 3.750501 ATAAATCCTTGGGTCCCGTTT 57.249 42.857 2.65 2.32 0.00 3.60
2557 6952 2.391926 AAATCCTTGGGTCCCGTTTT 57.608 45.000 2.65 0.00 0.00 2.43
2558 6953 2.391926 AATCCTTGGGTCCCGTTTTT 57.608 45.000 2.65 0.00 0.00 1.94
2559 6954 3.529216 AATCCTTGGGTCCCGTTTTTA 57.471 42.857 2.65 0.00 0.00 1.52
2560 6955 3.750501 ATCCTTGGGTCCCGTTTTTAT 57.249 42.857 2.65 0.00 0.00 1.40
2561 6956 4.866327 ATCCTTGGGTCCCGTTTTTATA 57.134 40.909 2.65 0.00 0.00 0.98
2562 6957 4.866327 TCCTTGGGTCCCGTTTTTATAT 57.134 40.909 2.65 0.00 0.00 0.86
2563 6958 4.528920 TCCTTGGGTCCCGTTTTTATATG 58.471 43.478 2.65 0.00 0.00 1.78
2564 6959 3.634910 CCTTGGGTCCCGTTTTTATATGG 59.365 47.826 2.65 0.00 0.00 2.74
2565 6960 4.528920 CTTGGGTCCCGTTTTTATATGGA 58.471 43.478 2.65 0.00 0.00 3.41
2566 6961 3.888583 TGGGTCCCGTTTTTATATGGAC 58.111 45.455 2.65 0.00 43.78 4.02
2567 6962 3.266254 TGGGTCCCGTTTTTATATGGACA 59.734 43.478 2.65 0.00 45.81 4.02
2568 6963 3.881089 GGGTCCCGTTTTTATATGGACAG 59.119 47.826 9.02 0.00 45.81 3.51
2569 6964 4.384427 GGGTCCCGTTTTTATATGGACAGA 60.384 45.833 9.02 0.00 45.81 3.41
2570 6965 5.187687 GGTCCCGTTTTTATATGGACAGAA 58.812 41.667 9.02 0.00 45.81 3.02
2571 6966 5.826208 GGTCCCGTTTTTATATGGACAGAAT 59.174 40.000 9.02 0.00 45.81 2.40
2572 6967 6.993902 GGTCCCGTTTTTATATGGACAGAATA 59.006 38.462 9.02 0.00 45.81 1.75
2573 6968 7.664318 GGTCCCGTTTTTATATGGACAGAATAT 59.336 37.037 9.02 0.00 45.81 1.28
2574 6969 8.504005 GTCCCGTTTTTATATGGACAGAATATG 58.496 37.037 0.00 0.00 43.92 1.78
2575 6970 8.433599 TCCCGTTTTTATATGGACAGAATATGA 58.566 33.333 0.00 0.00 0.00 2.15
2576 6971 8.721478 CCCGTTTTTATATGGACAGAATATGAG 58.279 37.037 0.00 0.00 0.00 2.90
2577 6972 9.489084 CCGTTTTTATATGGACAGAATATGAGA 57.511 33.333 0.00 0.00 0.00 3.27
2584 6979 6.990908 ATGGACAGAATATGAGAGTGATGA 57.009 37.500 0.00 0.00 0.00 2.92
2585 6980 6.796785 TGGACAGAATATGAGAGTGATGAA 57.203 37.500 0.00 0.00 0.00 2.57
2586 6981 7.186570 TGGACAGAATATGAGAGTGATGAAA 57.813 36.000 0.00 0.00 0.00 2.69
2587 6982 7.044181 TGGACAGAATATGAGAGTGATGAAAC 58.956 38.462 0.00 0.00 0.00 2.78
2588 6983 6.481644 GGACAGAATATGAGAGTGATGAAACC 59.518 42.308 0.00 0.00 0.00 3.27
2589 6984 6.045318 ACAGAATATGAGAGTGATGAAACCG 58.955 40.000 0.00 0.00 0.00 4.44
2590 6985 5.050499 CAGAATATGAGAGTGATGAAACCGC 60.050 44.000 0.00 0.00 0.00 5.68
2591 6986 2.768253 ATGAGAGTGATGAAACCGCA 57.232 45.000 0.00 0.00 0.00 5.69
2592 6987 2.542020 TGAGAGTGATGAAACCGCAA 57.458 45.000 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.443934 TTGTTCTGGAGAAATTTTGTCGAA 57.556 33.333 0.00 0.00 35.58 3.71
1 2 6.437928 CATTGTTCTGGAGAAATTTTGTCGA 58.562 36.000 0.00 0.00 35.58 4.20
2 3 5.630680 CCATTGTTCTGGAGAAATTTTGTCG 59.369 40.000 0.00 0.00 38.69 4.35
3 4 6.748132 TCCATTGTTCTGGAGAAATTTTGTC 58.252 36.000 0.00 0.00 40.43 3.18
4 5 6.729690 TCCATTGTTCTGGAGAAATTTTGT 57.270 33.333 0.00 0.00 40.43 2.83
186 198 9.758651 GTTATGTTTTGGGGTTATTGATATTCC 57.241 33.333 0.00 0.00 0.00 3.01
187 199 9.458374 CGTTATGTTTTGGGGTTATTGATATTC 57.542 33.333 0.00 0.00 0.00 1.75
196 208 4.073549 CAGGACGTTATGTTTTGGGGTTA 58.926 43.478 0.00 0.00 0.00 2.85
198 210 2.510613 CAGGACGTTATGTTTTGGGGT 58.489 47.619 0.00 0.00 0.00 4.95
256 276 9.823098 CGTCGCTTATACTGTATATAAGAAACT 57.177 33.333 14.90 0.00 38.92 2.66
257 277 9.604626 ACGTCGCTTATACTGTATATAAGAAAC 57.395 33.333 14.90 10.93 38.92 2.78
259 279 9.603298 CAACGTCGCTTATACTGTATATAAGAA 57.397 33.333 14.90 0.00 38.92 2.52
260 280 7.747799 GCAACGTCGCTTATACTGTATATAAGA 59.252 37.037 14.90 7.94 38.92 2.10
261 281 7.252897 CGCAACGTCGCTTATACTGTATATAAG 60.253 40.741 8.27 7.07 39.36 1.73
262 282 6.520790 CGCAACGTCGCTTATACTGTATATAA 59.479 38.462 8.27 0.00 0.00 0.98
263 283 6.017325 CGCAACGTCGCTTATACTGTATATA 58.983 40.000 8.27 0.41 0.00 0.86
264 284 4.849926 CGCAACGTCGCTTATACTGTATAT 59.150 41.667 8.27 0.00 0.00 0.86
265 285 4.213674 CGCAACGTCGCTTATACTGTATA 58.786 43.478 3.44 3.44 0.00 1.47
266 286 3.040795 CGCAACGTCGCTTATACTGTAT 58.959 45.455 5.53 5.53 0.00 2.29
267 287 2.443387 CGCAACGTCGCTTATACTGTA 58.557 47.619 0.00 0.00 0.00 2.74
268 288 1.265568 CGCAACGTCGCTTATACTGT 58.734 50.000 0.00 0.00 0.00 3.55
290 310 8.873215 AGTTGGTTCGTATTCTGTATTCTATG 57.127 34.615 0.00 0.00 0.00 2.23
300 320 4.530710 TGCAGTAGTTGGTTCGTATTCT 57.469 40.909 0.00 0.00 0.00 2.40
343 1004 0.109723 ACAAACAGCACGGTATGGGT 59.890 50.000 0.00 0.00 0.00 4.51
344 1005 0.802494 GACAAACAGCACGGTATGGG 59.198 55.000 0.00 0.00 0.00 4.00
442 1111 9.575783 CTGTCTGGTTAGATAGTCTTAGTTTTC 57.424 37.037 0.00 0.00 37.39 2.29
447 1116 6.701145 TGCTGTCTGGTTAGATAGTCTTAG 57.299 41.667 0.00 0.00 42.34 2.18
557 1521 1.082117 CGAACGGCGGCAGTTAAGAT 61.082 55.000 18.14 0.00 36.03 2.40
558 1522 1.735198 CGAACGGCGGCAGTTAAGA 60.735 57.895 18.14 0.00 36.03 2.10
582 1546 6.038271 ACCTTATCATCTATTGGTGCGTTTTC 59.962 38.462 0.00 0.00 0.00 2.29
588 1557 5.934625 CCAGTACCTTATCATCTATTGGTGC 59.065 44.000 0.00 0.00 0.00 5.01
612 1581 3.614150 GCAAAAAGAAGTCCCGGGATTTC 60.614 47.826 38.55 38.55 39.95 2.17
808 3989 4.141756 TGGACTTGGTCAATTGCAACAATT 60.142 37.500 0.00 0.00 33.68 2.32
833 4014 2.282783 GCCCATGGTGGTTTGGACC 61.283 63.158 11.73 0.00 46.71 4.46
847 4028 4.460263 GACCATGTAGAACATAATGCCCA 58.540 43.478 0.00 0.00 36.53 5.36
851 4032 6.586344 AGTGAGGACCATGTAGAACATAATG 58.414 40.000 0.00 0.00 36.53 1.90
852 4033 6.814954 AGTGAGGACCATGTAGAACATAAT 57.185 37.500 0.00 0.00 36.53 1.28
853 4034 6.013725 ACAAGTGAGGACCATGTAGAACATAA 60.014 38.462 0.00 0.00 36.53 1.90
854 4035 5.483937 ACAAGTGAGGACCATGTAGAACATA 59.516 40.000 0.00 0.00 36.53 2.29
855 4036 4.287067 ACAAGTGAGGACCATGTAGAACAT 59.713 41.667 0.00 0.00 39.91 2.71
856 4037 3.646162 ACAAGTGAGGACCATGTAGAACA 59.354 43.478 0.00 0.00 0.00 3.18
857 4038 3.997021 CACAAGTGAGGACCATGTAGAAC 59.003 47.826 0.00 0.00 0.00 3.01
858 4039 3.646162 ACACAAGTGAGGACCATGTAGAA 59.354 43.478 7.28 0.00 0.00 2.10
859 4040 3.239449 ACACAAGTGAGGACCATGTAGA 58.761 45.455 7.28 0.00 0.00 2.59
860 4041 3.685139 ACACAAGTGAGGACCATGTAG 57.315 47.619 7.28 0.00 0.00 2.74
861 4042 6.860790 TTATACACAAGTGAGGACCATGTA 57.139 37.500 7.28 0.00 0.00 2.29
862 4043 5.755409 TTATACACAAGTGAGGACCATGT 57.245 39.130 7.28 0.00 0.00 3.21
863 4044 5.065218 GCTTTATACACAAGTGAGGACCATG 59.935 44.000 7.28 0.00 0.00 3.66
864 4045 5.045578 AGCTTTATACACAAGTGAGGACCAT 60.046 40.000 7.28 0.00 0.00 3.55
865 4046 4.286032 AGCTTTATACACAAGTGAGGACCA 59.714 41.667 7.28 0.00 0.00 4.02
866 4047 4.833390 AGCTTTATACACAAGTGAGGACC 58.167 43.478 7.28 0.00 0.00 4.46
867 4048 5.520649 GCTAGCTTTATACACAAGTGAGGAC 59.479 44.000 7.70 0.00 0.00 3.85
868 4049 5.395324 GGCTAGCTTTATACACAAGTGAGGA 60.395 44.000 15.72 0.00 0.00 3.71
869 4050 4.811557 GGCTAGCTTTATACACAAGTGAGG 59.188 45.833 15.72 0.00 0.00 3.86
870 4051 5.419542 TGGCTAGCTTTATACACAAGTGAG 58.580 41.667 15.72 0.00 0.00 3.51
871 4052 5.414789 TGGCTAGCTTTATACACAAGTGA 57.585 39.130 15.72 0.00 0.00 3.41
872 4053 6.458751 CCAATGGCTAGCTTTATACACAAGTG 60.459 42.308 15.72 0.00 0.00 3.16
873 4054 5.590259 CCAATGGCTAGCTTTATACACAAGT 59.410 40.000 15.72 0.00 0.00 3.16
874 4055 5.822519 TCCAATGGCTAGCTTTATACACAAG 59.177 40.000 15.72 0.00 0.00 3.16
875 4056 5.750524 TCCAATGGCTAGCTTTATACACAA 58.249 37.500 15.72 0.00 0.00 3.33
876 4057 5.366482 TCCAATGGCTAGCTTTATACACA 57.634 39.130 15.72 1.24 0.00 3.72
877 4058 4.757149 CCTCCAATGGCTAGCTTTATACAC 59.243 45.833 15.72 0.00 0.00 2.90
878 4059 4.202461 CCCTCCAATGGCTAGCTTTATACA 60.202 45.833 15.72 2.85 0.00 2.29
888 4069 1.922821 GCCTTCCCTCCAATGGCTA 59.077 57.895 0.00 0.00 40.36 3.93
890 4071 2.830370 CGCCTTCCCTCCAATGGC 60.830 66.667 0.00 0.00 40.14 4.40
900 4081 2.184579 CTCTCCCGAACGCCTTCC 59.815 66.667 0.00 0.00 0.00 3.46
902 4083 2.997897 AGCTCTCCCGAACGCCTT 60.998 61.111 0.00 0.00 0.00 4.35
907 4088 0.377905 GTACTCGAGCTCTCCCGAAC 59.622 60.000 13.61 0.00 34.17 3.95
920 4101 2.156917 TGGTATATCCGCCTGTACTCG 58.843 52.381 0.00 0.00 39.52 4.18
922 4103 3.573695 ACTTGGTATATCCGCCTGTACT 58.426 45.455 0.00 0.00 39.52 2.73
923 4104 4.279169 TGTACTTGGTATATCCGCCTGTAC 59.721 45.833 0.00 0.00 39.52 2.90
925 4106 3.069158 GTGTACTTGGTATATCCGCCTGT 59.931 47.826 0.00 0.00 39.52 4.00
931 4112 9.826574 TTACTGATTTGTGTACTTGGTATATCC 57.173 33.333 0.00 0.00 0.00 2.59
948 4129 8.270744 ACTAGGATGCTTGAAGATTACTGATTT 58.729 33.333 2.19 0.00 0.00 2.17
958 4139 6.980978 CGAGATTAAACTAGGATGCTTGAAGA 59.019 38.462 2.19 0.00 0.00 2.87
966 4147 2.731976 GCGGCGAGATTAAACTAGGATG 59.268 50.000 12.98 0.00 0.00 3.51
990 4171 0.108329 GAACCTTCATCTTCGCGGGA 60.108 55.000 6.13 5.63 0.00 5.14
1028 4209 0.111253 ACAAACAAGCCAGGGAGGAG 59.889 55.000 0.00 0.00 41.22 3.69
1046 4227 4.498345 GGTGAGTGACCGATAGAATCTCAC 60.498 50.000 12.15 12.15 42.83 3.51
1180 4372 2.802667 CGAGCGAATCAAGGCCACG 61.803 63.158 5.01 1.68 0.00 4.94
1181 4373 1.696832 GACGAGCGAATCAAGGCCAC 61.697 60.000 5.01 0.00 0.00 5.01
1219 4415 2.034879 GCCATGGACACACACGAGG 61.035 63.158 18.40 0.00 0.00 4.63
1220 4416 1.293963 CTGCCATGGACACACACGAG 61.294 60.000 18.40 0.00 0.00 4.18
1403 4604 4.461081 TCCTTCTTCTTCTTCTCCTCTTCG 59.539 45.833 0.00 0.00 0.00 3.79
1420 4621 0.686112 CTCGGCCTCCTTCTCCTTCT 60.686 60.000 0.00 0.00 0.00 2.85
1421 4622 1.681486 CCTCGGCCTCCTTCTCCTTC 61.681 65.000 0.00 0.00 0.00 3.46
1422 4623 1.687493 CCTCGGCCTCCTTCTCCTT 60.687 63.158 0.00 0.00 0.00 3.36
1423 4624 2.042435 CCTCGGCCTCCTTCTCCT 60.042 66.667 0.00 0.00 0.00 3.69
1424 4625 2.042843 TCCTCGGCCTCCTTCTCC 60.043 66.667 0.00 0.00 0.00 3.71
1425 4626 0.684805 TTCTCCTCGGCCTCCTTCTC 60.685 60.000 0.00 0.00 0.00 2.87
1542 4773 0.675837 TCGACGTAGCAGCTGTAGGT 60.676 55.000 16.64 16.43 0.00 3.08
1547 4778 1.863880 GTCGTCGACGTAGCAGCTG 60.864 63.158 34.40 10.11 40.80 4.24
1548 4779 2.479650 GTCGTCGACGTAGCAGCT 59.520 61.111 34.40 0.00 40.80 4.24
1549 4780 2.576317 GGTCGTCGACGTAGCAGC 60.576 66.667 34.40 22.03 40.80 5.25
1589 4820 0.467106 TGATCTCCCCTCTCGCTCAG 60.467 60.000 0.00 0.00 0.00 3.35
1616 4847 1.263356 ATATATGGTACGGTGGCGCT 58.737 50.000 7.64 0.00 0.00 5.92
1622 4853 3.689347 TCGGCTGTATATATGGTACGGT 58.311 45.455 0.00 0.00 32.30 4.83
1628 4859 4.744570 ACAACGATCGGCTGTATATATGG 58.255 43.478 20.98 0.00 0.00 2.74
1629 4860 5.444613 GCAACAACGATCGGCTGTATATATG 60.445 44.000 20.98 15.90 0.00 1.78
1630 4861 4.625742 GCAACAACGATCGGCTGTATATAT 59.374 41.667 20.98 4.21 0.00 0.86
1654 4885 1.892474 GGAGTGGCTTAATTTGCACCA 59.108 47.619 0.00 0.00 0.00 4.17
1664 4895 1.995626 GGCCTGGAGGAGTGGCTTA 60.996 63.158 0.00 0.00 45.45 3.09
1760 4992 3.197983 AGGAACCGGAAAAGATACAGGAG 59.802 47.826 9.46 0.00 0.00 3.69
1939 5178 2.035576 GCCGACGGGTAGACTAATCAAT 59.964 50.000 17.22 0.00 34.97 2.57
2148 5387 7.107639 AGATTTGTTCTCTAGTCTTAGCTCC 57.892 40.000 0.00 0.00 0.00 4.70
2150 5389 9.863845 GTTTAGATTTGTTCTCTAGTCTTAGCT 57.136 33.333 0.00 0.00 35.79 3.32
2202 6597 0.179134 TTTCGCAAAAACGTGTGGGG 60.179 50.000 10.13 0.99 0.00 4.96
2206 6601 4.912528 AAACATTTTCGCAAAAACGTGT 57.087 31.818 0.00 0.00 37.20 4.49
2244 6639 2.778299 TGTTTGGCACACTCAGGTATC 58.222 47.619 5.27 0.00 39.29 2.24
2245 6640 2.949177 TGTTTGGCACACTCAGGTAT 57.051 45.000 5.27 0.00 39.29 2.73
2246 6641 2.105649 TCATGTTTGGCACACTCAGGTA 59.894 45.455 5.27 0.00 39.29 3.08
2300 6695 8.328758 TCATAACAGTCATTGATTCCCTACTTT 58.671 33.333 0.00 0.00 0.00 2.66
2344 6739 4.519906 TTTTGACCTTTCCTTCTCTGGT 57.480 40.909 0.00 0.00 0.00 4.00
2381 6776 6.895929 GCAACGGGCAATTTCCTATTTAGGA 61.896 44.000 2.07 2.07 46.07 2.94
2382 6777 4.736464 GCAACGGGCAATTTCCTATTTAGG 60.736 45.833 0.00 0.00 43.05 2.69
2383 6778 4.359706 GCAACGGGCAATTTCCTATTTAG 58.640 43.478 0.00 0.00 43.97 1.85
2384 6779 4.379339 GCAACGGGCAATTTCCTATTTA 57.621 40.909 0.00 0.00 43.97 1.40
2385 6780 3.245518 GCAACGGGCAATTTCCTATTT 57.754 42.857 0.00 0.00 43.97 1.40
2386 6781 2.959507 GCAACGGGCAATTTCCTATT 57.040 45.000 0.00 0.00 43.97 1.73
2398 6793 4.067913 GTGCCCCATTGCAACGGG 62.068 66.667 23.93 23.93 44.11 5.28
2399 6794 2.374830 TTTGTGCCCCATTGCAACGG 62.375 55.000 4.08 4.08 44.11 4.44
2400 6795 0.320596 ATTTGTGCCCCATTGCAACG 60.321 50.000 0.00 0.00 44.11 4.10
2401 6796 2.758736 TATTTGTGCCCCATTGCAAC 57.241 45.000 0.00 0.00 44.11 4.17
2402 6797 3.518705 AGAATATTTGTGCCCCATTGCAA 59.481 39.130 0.00 0.00 44.11 4.08
2403 6798 3.106054 AGAATATTTGTGCCCCATTGCA 58.894 40.909 0.00 0.00 39.37 4.08
2404 6799 3.825143 AGAATATTTGTGCCCCATTGC 57.175 42.857 0.00 0.00 0.00 3.56
2405 6800 8.181904 ACTATTAGAATATTTGTGCCCCATTG 57.818 34.615 0.00 0.00 0.00 2.82
2406 6801 8.782137 AACTATTAGAATATTTGTGCCCCATT 57.218 30.769 0.00 0.00 0.00 3.16
2407 6802 8.782137 AAACTATTAGAATATTTGTGCCCCAT 57.218 30.769 0.00 0.00 0.00 4.00
2408 6803 9.349713 CTAAACTATTAGAATATTTGTGCCCCA 57.650 33.333 0.00 0.00 40.90 4.96
2409 6804 9.350951 ACTAAACTATTAGAATATTTGTGCCCC 57.649 33.333 0.00 0.00 40.90 5.80
2440 6835 9.502091 GACTGTAAAGGTATATATTTGCCATGA 57.498 33.333 0.00 0.00 0.00 3.07
2441 6836 8.730680 GGACTGTAAAGGTATATATTTGCCATG 58.269 37.037 3.33 0.00 0.00 3.66
2442 6837 8.669571 AGGACTGTAAAGGTATATATTTGCCAT 58.330 33.333 3.33 0.00 0.00 4.40
2443 6838 8.041143 AGGACTGTAAAGGTATATATTTGCCA 57.959 34.615 3.33 0.00 0.00 4.92
2444 6839 8.919777 AAGGACTGTAAAGGTATATATTTGCC 57.080 34.615 0.00 0.00 0.00 4.52
2450 6845 9.150028 TGTGCATAAGGACTGTAAAGGTATATA 57.850 33.333 0.00 0.00 36.96 0.86
2451 6846 8.029782 TGTGCATAAGGACTGTAAAGGTATAT 57.970 34.615 0.00 0.00 36.96 0.86
2452 6847 7.426606 TGTGCATAAGGACTGTAAAGGTATA 57.573 36.000 0.00 0.00 36.96 1.47
2453 6848 6.308015 TGTGCATAAGGACTGTAAAGGTAT 57.692 37.500 0.00 0.00 36.96 2.73
2454 6849 5.748670 TGTGCATAAGGACTGTAAAGGTA 57.251 39.130 0.00 0.00 36.96 3.08
2455 6850 4.634012 TGTGCATAAGGACTGTAAAGGT 57.366 40.909 0.00 0.00 36.96 3.50
2456 6851 5.431765 AGATGTGCATAAGGACTGTAAAGG 58.568 41.667 0.00 0.00 36.96 3.11
2457 6852 6.779117 CAAGATGTGCATAAGGACTGTAAAG 58.221 40.000 0.00 0.00 36.96 1.85
2458 6853 6.741992 CAAGATGTGCATAAGGACTGTAAA 57.258 37.500 0.00 0.00 36.96 2.01
2473 6868 4.713824 AGACATGATTTGGCAAGATGTG 57.286 40.909 19.94 12.40 34.87 3.21
2474 6869 4.525487 ACAAGACATGATTTGGCAAGATGT 59.475 37.500 16.75 16.75 34.87 3.06
2475 6870 5.068234 ACAAGACATGATTTGGCAAGATG 57.932 39.130 0.00 7.16 34.87 2.90
2476 6871 5.244402 TGAACAAGACATGATTTGGCAAGAT 59.756 36.000 0.00 0.00 34.87 2.40
2477 6872 4.583907 TGAACAAGACATGATTTGGCAAGA 59.416 37.500 0.00 0.00 34.87 3.02
2478 6873 4.873817 TGAACAAGACATGATTTGGCAAG 58.126 39.130 0.00 0.00 34.87 4.01
2479 6874 4.933505 TGAACAAGACATGATTTGGCAA 57.066 36.364 0.00 0.00 34.87 4.52
2480 6875 6.587206 TTATGAACAAGACATGATTTGGCA 57.413 33.333 0.00 6.91 34.87 4.92
2481 6876 6.867816 TGTTTATGAACAAGACATGATTTGGC 59.132 34.615 0.00 1.61 42.54 4.52
2494 6889 9.840427 GCTTTCTAGCTAAATGTTTATGAACAA 57.160 29.630 7.18 0.00 44.93 2.83
2526 6921 8.170730 GGGACCCAAGGATTTATTACATCTTAT 58.829 37.037 5.33 0.00 0.00 1.73
2527 6922 7.523415 GGGACCCAAGGATTTATTACATCTTA 58.477 38.462 5.33 0.00 0.00 2.10
2528 6923 6.373759 GGGACCCAAGGATTTATTACATCTT 58.626 40.000 5.33 0.00 0.00 2.40
2529 6924 5.456186 CGGGACCCAAGGATTTATTACATCT 60.456 44.000 12.15 0.00 0.00 2.90
2530 6925 4.760204 CGGGACCCAAGGATTTATTACATC 59.240 45.833 12.15 0.00 0.00 3.06
2531 6926 4.167307 ACGGGACCCAAGGATTTATTACAT 59.833 41.667 12.15 0.00 0.00 2.29
2532 6927 3.524380 ACGGGACCCAAGGATTTATTACA 59.476 43.478 12.15 0.00 0.00 2.41
2533 6928 4.160642 ACGGGACCCAAGGATTTATTAC 57.839 45.455 12.15 0.00 0.00 1.89
2534 6929 4.866327 AACGGGACCCAAGGATTTATTA 57.134 40.909 12.15 0.00 0.00 0.98
2535 6930 3.750501 AACGGGACCCAAGGATTTATT 57.249 42.857 12.15 0.00 0.00 1.40
2536 6931 3.750501 AAACGGGACCCAAGGATTTAT 57.249 42.857 12.15 0.00 0.00 1.40
2537 6932 3.529216 AAAACGGGACCCAAGGATTTA 57.471 42.857 12.15 0.00 0.00 1.40
2538 6933 2.391926 AAAACGGGACCCAAGGATTT 57.608 45.000 12.15 0.00 0.00 2.17
2539 6934 2.391926 AAAAACGGGACCCAAGGATT 57.608 45.000 12.15 0.00 0.00 3.01
2540 6935 3.750501 ATAAAAACGGGACCCAAGGAT 57.249 42.857 12.15 0.00 0.00 3.24
2541 6936 4.528920 CATATAAAAACGGGACCCAAGGA 58.471 43.478 12.15 0.00 0.00 3.36
2542 6937 3.634910 CCATATAAAAACGGGACCCAAGG 59.365 47.826 12.15 0.00 0.00 3.61
2543 6938 4.337274 GTCCATATAAAAACGGGACCCAAG 59.663 45.833 12.15 0.00 41.67 3.61
2544 6939 4.263816 TGTCCATATAAAAACGGGACCCAA 60.264 41.667 12.15 0.00 45.81 4.12
2545 6940 3.266254 TGTCCATATAAAAACGGGACCCA 59.734 43.478 12.15 0.00 45.81 4.51
2546 6941 3.881089 CTGTCCATATAAAAACGGGACCC 59.119 47.826 0.00 0.00 45.81 4.46
2547 6942 4.773013 TCTGTCCATATAAAAACGGGACC 58.227 43.478 6.66 0.00 45.81 4.46
2548 6943 6.937436 ATTCTGTCCATATAAAAACGGGAC 57.063 37.500 0.00 0.00 46.40 4.46
2549 6944 8.433599 TCATATTCTGTCCATATAAAAACGGGA 58.566 33.333 0.00 0.00 0.00 5.14
2550 6945 8.615878 TCATATTCTGTCCATATAAAAACGGG 57.384 34.615 0.00 0.00 0.00 5.28
2551 6946 9.489084 TCTCATATTCTGTCCATATAAAAACGG 57.511 33.333 0.00 0.00 0.00 4.44
2558 6953 9.759473 TCATCACTCTCATATTCTGTCCATATA 57.241 33.333 0.00 0.00 0.00 0.86
2559 6954 8.661752 TCATCACTCTCATATTCTGTCCATAT 57.338 34.615 0.00 0.00 0.00 1.78
2560 6955 8.482852 TTCATCACTCTCATATTCTGTCCATA 57.517 34.615 0.00 0.00 0.00 2.74
2561 6956 6.990908 TCATCACTCTCATATTCTGTCCAT 57.009 37.500 0.00 0.00 0.00 3.41
2562 6957 6.796785 TTCATCACTCTCATATTCTGTCCA 57.203 37.500 0.00 0.00 0.00 4.02
2563 6958 6.481644 GGTTTCATCACTCTCATATTCTGTCC 59.518 42.308 0.00 0.00 0.00 4.02
2564 6959 6.199908 CGGTTTCATCACTCTCATATTCTGTC 59.800 42.308 0.00 0.00 0.00 3.51
2565 6960 6.045318 CGGTTTCATCACTCTCATATTCTGT 58.955 40.000 0.00 0.00 0.00 3.41
2566 6961 5.050499 GCGGTTTCATCACTCTCATATTCTG 60.050 44.000 0.00 0.00 0.00 3.02
2567 6962 5.053145 GCGGTTTCATCACTCTCATATTCT 58.947 41.667 0.00 0.00 0.00 2.40
2568 6963 4.811024 TGCGGTTTCATCACTCTCATATTC 59.189 41.667 0.00 0.00 0.00 1.75
2569 6964 4.769688 TGCGGTTTCATCACTCTCATATT 58.230 39.130 0.00 0.00 0.00 1.28
2570 6965 4.406648 TGCGGTTTCATCACTCTCATAT 57.593 40.909 0.00 0.00 0.00 1.78
2571 6966 3.885724 TGCGGTTTCATCACTCTCATA 57.114 42.857 0.00 0.00 0.00 2.15
2572 6967 2.768253 TGCGGTTTCATCACTCTCAT 57.232 45.000 0.00 0.00 0.00 2.90
2573 6968 2.542020 TTGCGGTTTCATCACTCTCA 57.458 45.000 0.00 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.