Multiple sequence alignment - TraesCS1A01G054800

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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 TraesCS1A01G054800 chr1A 100.000 3848 0 0 1 3848 36262215 36258368 0.000000e+00 7107.0
1 TraesCS1A01G054800 chr1A 86.195 2528 298 25 366 2870 36613144 36615643 0.000000e+00 2687.0
2 TraesCS1A01G054800 chr1A 85.204 2521 329 15 366 2870 36188363 36185871 0.000000e+00 2549.0
3 TraesCS1A01G054800 chr1A 85.459 2297 312 11 584 2870 36174644 36172360 0.000000e+00 2372.0
4 TraesCS1A01G054800 chr1A 86.296 1547 194 5 1329 2870 36605769 36607302 0.000000e+00 1666.0
5 TraesCS1A01G054800 chr1A 91.768 656 36 7 3205 3848 36607886 36608535 0.000000e+00 896.0
6 TraesCS1A01G054800 chr1A 94.595 37 1 1 2876 2911 36259382 36259346 5.370000e-04 56.5
7 TraesCS1A01G054800 chr1D 87.585 2924 279 44 1 2868 36625046 36622151 0.000000e+00 3312.0
8 TraesCS1A01G054800 chr1D 87.401 2516 268 24 461 2949 37423882 37426375 0.000000e+00 2844.0
9 TraesCS1A01G054800 chr1D 85.697 2524 319 18 366 2870 36618237 36615737 0.000000e+00 2623.0
10 TraesCS1A01G054800 chr1D 86.126 1874 242 7 976 2844 37446562 37448422 0.000000e+00 2004.0
11 TraesCS1A01G054800 chr1D 90.847 295 17 3 3450 3739 37427379 37427668 1.680000e-103 387.0
12 TraesCS1A01G054800 chr1D 90.647 278 19 3 3186 3456 37426941 37427218 2.830000e-96 363.0
13 TraesCS1A01G054800 chr1D 94.309 123 7 0 2879 3001 37426263 37426385 5.070000e-44 189.0
14 TraesCS1A01G054800 chr1D 77.076 301 47 16 3353 3641 38256717 38256427 1.850000e-33 154.0
15 TraesCS1A01G054800 chr1B 87.033 2545 287 21 351 2868 57130159 57132687 0.000000e+00 2832.0
16 TraesCS1A01G054800 chr1B 86.002 2529 300 29 366 2870 56501841 56499343 0.000000e+00 2660.0
17 TraesCS1A01G054800 chr1B 85.354 2499 320 19 366 2846 57015861 57018331 0.000000e+00 2545.0
18 TraesCS1A01G054800 chr1B 85.141 2443 308 26 423 2844 57220298 57222706 0.000000e+00 2449.0
19 TraesCS1A01G054800 chr1B 87.264 1641 185 8 461 2089 57009487 57011115 0.000000e+00 1851.0
20 TraesCS1A01G054800 chr1B 91.150 678 41 7 3186 3848 57011547 57012220 0.000000e+00 902.0
21 TraesCS1A01G054800 chr1B 86.792 212 26 2 2879 3090 57011342 57011551 6.430000e-58 235.0
22 TraesCS1A01G054800 chr2D 85.104 2504 320 23 387 2870 579327467 579329937 0.000000e+00 2508.0
23 TraesCS1A01G054800 chr2D 87.273 55 6 1 1 54 425349651 425349597 1.150000e-05 62.1
24 TraesCS1A01G054800 chr6A 93.373 166 8 2 3683 3848 121747150 121746988 3.840000e-60 243.0
25 TraesCS1A01G054800 chr2A 90.196 51 5 0 1 51 562751930 562751980 2.480000e-07 67.6
26 TraesCS1A01G054800 chr2A 90.196 51 5 0 1 51 562866404 562866454 2.480000e-07 67.6
27 TraesCS1A01G054800 chr5D 93.182 44 3 0 70 113 217900025 217900068 8.920000e-07 65.8
28 TraesCS1A01G054800 chr5D 93.182 44 3 0 70 113 217900719 217900762 8.920000e-07 65.8


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 TraesCS1A01G054800 chr1A 36258368 36262215 3847 True 3581.75 7107 97.2975 1 3848 2 chr1A.!!$R3 3847
1 TraesCS1A01G054800 chr1A 36613144 36615643 2499 False 2687.00 2687 86.1950 366 2870 1 chr1A.!!$F1 2504
2 TraesCS1A01G054800 chr1A 36185871 36188363 2492 True 2549.00 2549 85.2040 366 2870 1 chr1A.!!$R2 2504
3 TraesCS1A01G054800 chr1A 36172360 36174644 2284 True 2372.00 2372 85.4590 584 2870 1 chr1A.!!$R1 2286
4 TraesCS1A01G054800 chr1A 36605769 36608535 2766 False 1281.00 1666 89.0320 1329 3848 2 chr1A.!!$F2 2519
5 TraesCS1A01G054800 chr1D 36615737 36625046 9309 True 2967.50 3312 86.6410 1 2870 2 chr1D.!!$R2 2869
6 TraesCS1A01G054800 chr1D 37446562 37448422 1860 False 2004.00 2004 86.1260 976 2844 1 chr1D.!!$F1 1868
7 TraesCS1A01G054800 chr1D 37423882 37427668 3786 False 945.75 2844 90.8010 461 3739 4 chr1D.!!$F2 3278
8 TraesCS1A01G054800 chr1B 57130159 57132687 2528 False 2832.00 2832 87.0330 351 2868 1 chr1B.!!$F1 2517
9 TraesCS1A01G054800 chr1B 56499343 56501841 2498 True 2660.00 2660 86.0020 366 2870 1 chr1B.!!$R1 2504
10 TraesCS1A01G054800 chr1B 57220298 57222706 2408 False 2449.00 2449 85.1410 423 2844 1 chr1B.!!$F2 2421
11 TraesCS1A01G054800 chr1B 57009487 57018331 8844 False 1383.25 2545 87.6400 366 3848 4 chr1B.!!$F3 3482
12 TraesCS1A01G054800 chr2D 579327467 579329937 2470 False 2508.00 2508 85.1040 387 2870 1 chr2D.!!$F1 2483

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
696 7276 0.034616 GTGTGTGCAGAGAGGAAGCT 59.965 55.0 0.00 0.0 0.00 3.74 F
1138 7718 0.526954 CGAAATGATGCAGCAAGGGC 60.527 55.0 9.54 0.0 41.61 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1543 14534 1.080569 CAATGCCGTTGCTTCCCAC 60.081 57.895 0.0 0.0 38.71 4.61 R
3114 16591 0.099436 CTACCTTTGCTCGCCAATGC 59.901 55.000 0.0 0.0 32.49 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
36 37 7.312899 TCATCGACGTTATGCATATATGACTT 58.687 34.615 17.10 8.41 0.00 3.01
54 55 6.043327 TGACTTCAAACTTACATGTTCACG 57.957 37.500 2.30 0.00 0.00 4.35
56 57 4.574828 ACTTCAAACTTACATGTTCACGCT 59.425 37.500 2.30 0.00 0.00 5.07
59 60 5.534407 TCAAACTTACATGTTCACGCTCTA 58.466 37.500 2.30 0.00 0.00 2.43
61 62 7.317390 TCAAACTTACATGTTCACGCTCTATA 58.683 34.615 2.30 0.00 0.00 1.31
62 63 7.979537 TCAAACTTACATGTTCACGCTCTATAT 59.020 33.333 2.30 0.00 0.00 0.86
63 64 9.244799 CAAACTTACATGTTCACGCTCTATATA 57.755 33.333 2.30 0.00 0.00 0.86
64 65 8.798748 AACTTACATGTTCACGCTCTATATAC 57.201 34.615 2.30 0.00 0.00 1.47
108 109 1.135689 GGTTACCAAAGCTCATGCGTG 60.136 52.381 0.00 0.00 45.42 5.34
132 133 5.919196 CAATAAGCATTGCAAAACTGAACC 58.081 37.500 11.91 0.00 35.44 3.62
133 134 3.825143 AAGCATTGCAAAACTGAACCT 57.175 38.095 11.91 0.00 0.00 3.50
134 135 3.102052 AGCATTGCAAAACTGAACCTG 57.898 42.857 11.91 0.00 0.00 4.00
135 136 2.137523 GCATTGCAAAACTGAACCTGG 58.862 47.619 1.71 0.00 0.00 4.45
136 137 2.137523 CATTGCAAAACTGAACCTGGC 58.862 47.619 1.71 0.00 0.00 4.85
137 138 1.484038 TTGCAAAACTGAACCTGGCT 58.516 45.000 0.00 0.00 0.00 4.75
144 145 1.002868 CTGAACCTGGCTGGGACTG 60.003 63.158 15.36 8.15 41.11 3.51
176 183 9.956720 ATATCTAAATTTGCTTGTTGATACTGC 57.043 29.630 0.00 0.00 0.00 4.40
185 192 5.067674 TGCTTGTTGATACTGCTTTTGAAGT 59.932 36.000 0.00 0.00 42.13 3.01
186 193 6.262049 TGCTTGTTGATACTGCTTTTGAAGTA 59.738 34.615 0.00 0.00 44.20 2.24
187 194 6.578919 GCTTGTTGATACTGCTTTTGAAGTAC 59.421 38.462 0.00 0.00 42.97 2.73
188 195 7.520614 GCTTGTTGATACTGCTTTTGAAGTACT 60.521 37.037 0.00 0.00 42.97 2.73
207 214 5.905913 AGTACTAGGAAGGGAGCATATTTGT 59.094 40.000 0.00 0.00 0.00 2.83
208 215 7.073854 AGTACTAGGAAGGGAGCATATTTGTA 58.926 38.462 0.00 0.00 0.00 2.41
239 246 2.657237 GGACCCACACACTCTCGG 59.343 66.667 0.00 0.00 0.00 4.63
549 627 1.885388 CCGGAAGACGCACACAACA 60.885 57.895 0.00 0.00 42.52 3.33
696 7276 0.034616 GTGTGTGCAGAGAGGAAGCT 59.965 55.000 0.00 0.00 0.00 3.74
738 7318 3.951037 TCACAGTTTGCACCTACAACATT 59.049 39.130 1.37 0.00 0.00 2.71
793 7373 1.610363 GCTAGGGCTTGCCTTATTCC 58.390 55.000 11.71 0.00 35.22 3.01
826 7406 0.980423 GAAGGGCCTGAAGACAGACT 59.020 55.000 6.92 0.00 46.03 3.24
1138 7718 0.526954 CGAAATGATGCAGCAAGGGC 60.527 55.000 9.54 0.00 41.61 5.19
1475 14466 3.490896 CACAAACCGGATATCGTCTCATG 59.509 47.826 9.46 0.00 37.11 3.07
1547 14538 6.409704 TGATTGATCTCTTTAACTCAGTGGG 58.590 40.000 0.00 0.00 0.00 4.61
1584 14575 0.378962 CCGACTGCCGTGTTTTCAAA 59.621 50.000 0.00 0.00 36.31 2.69
1706 14697 3.275617 TTCCATTGTAATAGCCGCACT 57.724 42.857 0.00 0.00 0.00 4.40
1707 14698 3.275617 TCCATTGTAATAGCCGCACTT 57.724 42.857 0.00 0.00 0.00 3.16
1708 14699 3.616219 TCCATTGTAATAGCCGCACTTT 58.384 40.909 0.00 0.00 0.00 2.66
1709 14700 3.625764 TCCATTGTAATAGCCGCACTTTC 59.374 43.478 0.00 0.00 0.00 2.62
1710 14701 3.243068 CCATTGTAATAGCCGCACTTTCC 60.243 47.826 0.00 0.00 0.00 3.13
1711 14702 2.772077 TGTAATAGCCGCACTTTCCA 57.228 45.000 0.00 0.00 0.00 3.53
1712 14703 2.627945 TGTAATAGCCGCACTTTCCAG 58.372 47.619 0.00 0.00 0.00 3.86
1713 14704 2.235155 TGTAATAGCCGCACTTTCCAGA 59.765 45.455 0.00 0.00 0.00 3.86
1714 14705 2.489938 AATAGCCGCACTTTCCAGAA 57.510 45.000 0.00 0.00 0.00 3.02
1715 14706 2.489938 ATAGCCGCACTTTCCAGAAA 57.510 45.000 0.00 0.00 0.00 2.52
1716 14707 2.264005 TAGCCGCACTTTCCAGAAAA 57.736 45.000 0.00 0.00 0.00 2.29
1717 14708 0.668535 AGCCGCACTTTCCAGAAAAC 59.331 50.000 0.00 0.00 0.00 2.43
1795 14786 1.147191 TGGGAGTACAGCCGGATAGAT 59.853 52.381 5.05 0.00 0.00 1.98
1812 14803 7.343316 CCGGATAGATCTATTTATCAGTCCCTT 59.657 40.741 16.37 0.00 32.37 3.95
2070 15061 8.237267 GTCGGGAATATGGATAAAGCATTTAAG 58.763 37.037 0.00 0.00 44.76 1.85
2338 15332 8.610369 TGAGCATTCCCACATATGGTATAATAA 58.390 33.333 7.80 0.00 45.66 1.40
2370 15364 8.915654 GGTTTTTGTAGAAATAATTGTGCAGAG 58.084 33.333 0.00 0.00 0.00 3.35
2381 15375 1.474330 TGTGCAGAGGAAGCTATCGA 58.526 50.000 0.00 0.00 0.00 3.59
2385 15379 2.231529 GCAGAGGAAGCTATCGACCTA 58.768 52.381 0.00 0.00 32.53 3.08
2391 15385 4.421131 AGGAAGCTATCGACCTATTCCAT 58.579 43.478 18.30 6.04 38.92 3.41
2395 15389 6.590677 GGAAGCTATCGACCTATTCCATAAAC 59.409 42.308 13.57 0.00 36.91 2.01
2398 15392 8.418597 AGCTATCGACCTATTCCATAAACTAA 57.581 34.615 0.00 0.00 0.00 2.24
2403 15397 6.097839 TCGACCTATTCCATAAACTAAGTGCT 59.902 38.462 0.00 0.00 0.00 4.40
2432 15426 9.571810 GAATGTGAAGTTTGATATTGCAATACA 57.428 29.630 21.10 16.90 0.00 2.29
2451 15445 9.265938 GCAATACACAATACTATGATTAATGCG 57.734 33.333 0.00 0.00 0.00 4.73
2475 15469 4.566426 ATTCAAGGTTGGGAGAAGAGAG 57.434 45.455 0.00 0.00 0.00 3.20
2647 15641 2.618045 CCCAGCTCCCGTCTGTTAAATT 60.618 50.000 0.00 0.00 0.00 1.82
2727 15721 5.649831 GTCTAAAGTTGATGGGAAGAGCATT 59.350 40.000 0.00 0.00 0.00 3.56
2729 15723 5.813513 AAAGTTGATGGGAAGAGCATTTT 57.186 34.783 0.00 0.00 0.00 1.82
2739 15733 4.218417 GGGAAGAGCATTTTACTTGAAGCA 59.782 41.667 0.00 0.00 0.00 3.91
2750 15744 8.819974 CATTTTACTTGAAGCATCAACAACTTT 58.180 29.630 0.00 0.00 40.59 2.66
2787 15781 7.434013 TCTTTGTTTTCGAAGAAAGGCAAATAC 59.566 33.333 18.63 6.24 44.54 1.89
2852 15849 4.067972 TGGACTTGGTTGACTAGTTGAC 57.932 45.455 0.00 0.00 35.27 3.18
2855 15852 4.439057 GACTTGGTTGACTAGTTGACACA 58.561 43.478 0.00 0.00 35.27 3.72
2870 15867 5.942236 AGTTGACACATTGCATATGAGACTT 59.058 36.000 6.97 0.00 0.00 3.01
2871 15868 5.806366 TGACACATTGCATATGAGACTTG 57.194 39.130 6.97 0.00 0.00 3.16
2872 15869 4.637091 TGACACATTGCATATGAGACTTGG 59.363 41.667 6.97 0.00 0.00 3.61
2873 15870 4.592942 ACACATTGCATATGAGACTTGGT 58.407 39.130 6.97 0.00 0.00 3.67
2874 15871 5.012239 ACACATTGCATATGAGACTTGGTT 58.988 37.500 6.97 0.00 0.00 3.67
2875 15872 5.106038 ACACATTGCATATGAGACTTGGTTG 60.106 40.000 6.97 3.66 0.00 3.77
2876 15873 5.124297 CACATTGCATATGAGACTTGGTTGA 59.876 40.000 6.97 0.00 0.00 3.18
2877 15874 5.124457 ACATTGCATATGAGACTTGGTTGAC 59.876 40.000 6.97 0.00 0.00 3.18
2878 15875 4.558226 TGCATATGAGACTTGGTTGACT 57.442 40.909 6.97 0.00 0.00 3.41
2879 15876 4.256110 TGCATATGAGACTTGGTTGACTG 58.744 43.478 6.97 0.00 0.00 3.51
2880 15877 3.624861 GCATATGAGACTTGGTTGACTGG 59.375 47.826 6.97 0.00 0.00 4.00
2881 15878 4.836825 CATATGAGACTTGGTTGACTGGT 58.163 43.478 0.00 0.00 0.00 4.00
2882 15879 3.864789 ATGAGACTTGGTTGACTGGTT 57.135 42.857 0.00 0.00 0.00 3.67
2883 15880 2.917933 TGAGACTTGGTTGACTGGTTG 58.082 47.619 0.00 0.00 0.00 3.77
2884 15881 2.503765 TGAGACTTGGTTGACTGGTTGA 59.496 45.455 0.00 0.00 0.00 3.18
2885 15882 2.872858 GAGACTTGGTTGACTGGTTGAC 59.127 50.000 0.00 0.00 0.00 3.18
2886 15883 2.505819 AGACTTGGTTGACTGGTTGACT 59.494 45.455 0.00 0.00 0.00 3.41
2887 15884 3.709653 AGACTTGGTTGACTGGTTGACTA 59.290 43.478 0.00 0.00 0.00 2.59
2888 15885 4.058817 GACTTGGTTGACTGGTTGACTAG 58.941 47.826 0.00 0.00 0.00 2.57
2889 15886 3.454812 ACTTGGTTGACTGGTTGACTAGT 59.545 43.478 0.00 0.00 40.53 2.57
2890 15887 4.080526 ACTTGGTTGACTGGTTGACTAGTT 60.081 41.667 0.00 0.00 37.82 2.24
2891 15888 3.804036 TGGTTGACTGGTTGACTAGTTG 58.196 45.455 0.00 0.00 37.82 3.16
2892 15889 3.452990 TGGTTGACTGGTTGACTAGTTGA 59.547 43.478 0.00 0.00 37.82 3.18
2893 15890 3.808174 GGTTGACTGGTTGACTAGTTGAC 59.192 47.826 0.00 0.00 37.82 3.18
2894 15891 4.439057 GTTGACTGGTTGACTAGTTGACA 58.561 43.478 0.00 0.00 37.82 3.58
2895 15892 4.054780 TGACTGGTTGACTAGTTGACAC 57.945 45.455 0.00 0.00 37.82 3.67
2896 15893 3.449377 TGACTGGTTGACTAGTTGACACA 59.551 43.478 0.00 0.00 37.82 3.72
2897 15894 4.100963 TGACTGGTTGACTAGTTGACACAT 59.899 41.667 0.00 0.00 37.82 3.21
2898 15895 5.036117 ACTGGTTGACTAGTTGACACATT 57.964 39.130 0.00 0.00 33.71 2.71
2899 15896 4.816385 ACTGGTTGACTAGTTGACACATTG 59.184 41.667 0.00 0.00 33.71 2.82
2900 15897 3.563808 TGGTTGACTAGTTGACACATTGC 59.436 43.478 0.00 0.00 0.00 3.56
2901 15898 3.563808 GGTTGACTAGTTGACACATTGCA 59.436 43.478 0.00 0.00 0.00 4.08
2902 15899 4.216257 GGTTGACTAGTTGACACATTGCAT 59.784 41.667 0.00 0.00 0.00 3.96
2903 15900 5.411361 GGTTGACTAGTTGACACATTGCATA 59.589 40.000 0.00 0.00 0.00 3.14
2904 15901 6.094048 GGTTGACTAGTTGACACATTGCATAT 59.906 38.462 0.00 0.00 0.00 1.78
2905 15902 6.667007 TGACTAGTTGACACATTGCATATG 57.333 37.500 0.00 0.00 0.00 1.78
2906 15903 6.405538 TGACTAGTTGACACATTGCATATGA 58.594 36.000 6.97 0.00 0.00 2.15
2907 15904 6.536224 TGACTAGTTGACACATTGCATATGAG 59.464 38.462 6.97 9.29 0.00 2.90
2908 15905 5.819379 ACTAGTTGACACATTGCATATGAGG 59.181 40.000 6.97 8.73 0.00 3.86
2909 15906 3.379372 AGTTGACACATTGCATATGAGGC 59.621 43.478 6.97 9.49 0.00 4.70
2910 15907 3.286329 TGACACATTGCATATGAGGCT 57.714 42.857 6.97 0.00 0.00 4.58
2915 15912 5.195940 ACACATTGCATATGAGGCTAACTT 58.804 37.500 6.97 0.00 0.00 2.66
2919 15916 5.357742 TTGCATATGAGGCTAACTTCTCA 57.642 39.130 6.97 0.00 43.15 3.27
2965 15962 6.511444 GCTTGCATATGAGCTTAAGTCAGAAG 60.511 42.308 6.97 3.12 36.01 2.85
3003 16000 1.031571 TTGCATAAAGCCTCCTGCCG 61.032 55.000 0.00 0.00 44.83 5.69
3005 16002 1.224592 CATAAAGCCTCCTGCCGGT 59.775 57.895 1.90 0.00 42.71 5.28
3006 16003 1.097547 CATAAAGCCTCCTGCCGGTG 61.098 60.000 1.90 0.00 42.71 4.94
3007 16004 1.562672 ATAAAGCCTCCTGCCGGTGT 61.563 55.000 1.90 0.00 42.71 4.16
3008 16005 0.905809 TAAAGCCTCCTGCCGGTGTA 60.906 55.000 1.90 0.00 42.71 2.90
3009 16006 1.774894 AAAGCCTCCTGCCGGTGTAA 61.775 55.000 1.90 0.00 42.71 2.41
3010 16007 1.774894 AAGCCTCCTGCCGGTGTAAA 61.775 55.000 1.90 0.00 42.71 2.01
3011 16008 1.302993 GCCTCCTGCCGGTGTAAAA 60.303 57.895 1.90 0.00 0.00 1.52
3038 16506 2.069273 CAAACTGACCGCTGGTAGAAG 58.931 52.381 0.09 2.64 35.25 2.85
3046 16514 2.100989 CCGCTGGTAGAAGTTAGACCT 58.899 52.381 7.10 0.00 34.13 3.85
3048 16516 3.056035 CCGCTGGTAGAAGTTAGACCTTT 60.056 47.826 7.10 0.00 34.13 3.11
3052 16520 6.100668 GCTGGTAGAAGTTAGACCTTTACTG 58.899 44.000 7.10 0.00 34.13 2.74
3078 16546 6.801539 TCATAGAGTTCATTTTGTGGTGTC 57.198 37.500 0.00 0.00 0.00 3.67
3082 16550 5.192927 AGAGTTCATTTTGTGGTGTCTCAA 58.807 37.500 0.00 0.00 0.00 3.02
3088 16556 5.471116 TCATTTTGTGGTGTCTCAAGATCAG 59.529 40.000 0.00 0.00 0.00 2.90
3090 16558 4.687901 TTGTGGTGTCTCAAGATCAGAA 57.312 40.909 0.00 0.00 0.00 3.02
3091 16559 4.687901 TGTGGTGTCTCAAGATCAGAAA 57.312 40.909 0.00 0.00 0.00 2.52
3092 16560 5.233083 TGTGGTGTCTCAAGATCAGAAAT 57.767 39.130 0.00 0.00 0.00 2.17
3093 16561 4.999311 TGTGGTGTCTCAAGATCAGAAATG 59.001 41.667 0.00 0.00 0.00 2.32
3094 16562 4.999950 GTGGTGTCTCAAGATCAGAAATGT 59.000 41.667 0.00 0.00 0.00 2.71
3095 16563 5.471456 GTGGTGTCTCAAGATCAGAAATGTT 59.529 40.000 0.00 0.00 0.00 2.71
3100 16577 8.180267 GTGTCTCAAGATCAGAAATGTTTATGG 58.820 37.037 0.00 0.00 30.74 2.74
3136 16613 0.321298 TTGGCGAGCAAAGGTAGACC 60.321 55.000 0.00 0.00 0.00 3.85
3137 16614 1.810030 GGCGAGCAAAGGTAGACCG 60.810 63.158 0.00 0.00 42.08 4.79
3138 16615 1.214589 GCGAGCAAAGGTAGACCGA 59.785 57.895 0.00 0.00 42.08 4.69
3139 16616 0.389426 GCGAGCAAAGGTAGACCGAA 60.389 55.000 0.00 0.00 42.08 4.30
3140 16617 1.739371 GCGAGCAAAGGTAGACCGAAT 60.739 52.381 0.00 0.00 42.08 3.34
3141 16618 1.927174 CGAGCAAAGGTAGACCGAATG 59.073 52.381 0.00 0.00 42.08 2.67
3144 16621 3.335579 AGCAAAGGTAGACCGAATGAAC 58.664 45.455 5.84 0.00 42.08 3.18
3158 16635 4.792189 CCGAATGAACTAGTCTAACACGAC 59.208 45.833 0.00 0.00 0.00 4.34
3168 16645 2.033151 GTCTAACACGACTGGTTGCAAC 60.033 50.000 21.59 21.59 0.00 4.17
3173 16650 3.211045 ACACGACTGGTTGCAACTTTAT 58.789 40.909 27.64 12.04 0.00 1.40
3175 16652 2.552315 ACGACTGGTTGCAACTTTATGG 59.448 45.455 27.64 15.36 0.00 2.74
3176 16653 2.811431 CGACTGGTTGCAACTTTATGGA 59.189 45.455 27.64 4.21 0.00 3.41
3179 16656 5.296780 CGACTGGTTGCAACTTTATGGATAT 59.703 40.000 27.64 3.56 0.00 1.63
3181 16658 6.866480 ACTGGTTGCAACTTTATGGATATTG 58.134 36.000 27.64 4.80 0.00 1.90
3182 16659 6.127366 ACTGGTTGCAACTTTATGGATATTGG 60.127 38.462 27.64 4.20 0.00 3.16
3183 16660 5.719085 TGGTTGCAACTTTATGGATATTGGT 59.281 36.000 27.64 0.00 0.00 3.67
3252 17074 8.081633 CCACAAGAAGCACTAAAAATACAATCA 58.918 33.333 0.00 0.00 0.00 2.57
3300 17123 9.535878 CCACCTGAGATTTTATAAACTCTCTAC 57.464 37.037 30.28 16.09 42.13 2.59
3339 17162 7.381408 CCTTCATATGAATGCATTTGTTAGCAG 59.619 37.037 18.26 5.83 44.94 4.24
3347 17170 4.797471 TGCATTTGTTAGCAGTGTCATTC 58.203 39.130 0.00 0.00 35.51 2.67
3348 17171 3.848019 GCATTTGTTAGCAGTGTCATTCG 59.152 43.478 0.00 0.00 0.00 3.34
3370 17195 3.683822 GGTGATCTGCTATCTATGCAAGC 59.316 47.826 0.21 0.21 40.13 4.01
3390 17215 7.489757 TGCAAGCGTTGTTTTACTTCTATTTTT 59.510 29.630 0.00 0.00 0.00 1.94
3430 17259 1.263217 CAAAAAGGTCCTGGACGAACG 59.737 52.381 19.98 3.34 32.65 3.95
3445 17274 1.871039 CGAACGGATGTTTGAGGTTGT 59.129 47.619 0.00 0.00 41.28 3.32
3448 17277 3.208747 ACGGATGTTTGAGGTTGTTCT 57.791 42.857 0.00 0.00 0.00 3.01
3505 17501 1.107945 GCTGGACTCTCCTACACTCC 58.892 60.000 0.00 0.00 37.46 3.85
3539 17535 2.743718 CACTGGTGGGAGCTCGTT 59.256 61.111 7.83 0.00 0.00 3.85
3574 17575 8.567948 GTGAGAAAATCCAGTGTGATTTCTTTA 58.432 33.333 15.55 7.36 42.58 1.85
3614 17615 7.912250 CGAAGATTCAACTATTTTTCCTCATGG 59.088 37.037 0.00 0.00 0.00 3.66
3644 17645 4.322057 AAGGTATGGCCAAGAATTCACT 57.678 40.909 10.96 0.00 40.61 3.41
3693 17694 3.577415 GGACACTAACACTACCTCAGGTT 59.423 47.826 0.00 0.00 37.09 3.50
3698 17699 5.475909 CACTAACACTACCTCAGGTTACAGA 59.524 44.000 0.00 0.00 37.09 3.41
3699 17700 5.711036 ACTAACACTACCTCAGGTTACAGAG 59.289 44.000 0.00 0.00 37.09 3.35
3718 17719 4.942483 CAGAGAAGGAATCAGAGCATTTGT 59.058 41.667 0.00 0.00 0.00 2.83
3739 17740 5.796279 GTTTGATGAAAACTTCTTGCTCG 57.204 39.130 0.00 0.00 44.10 5.03
3779 17780 1.298014 CTCTCCAGTTCTGGTGCCC 59.702 63.158 17.00 0.00 0.00 5.36
3806 17807 3.118454 CGTACTGCCCCGCAACAG 61.118 66.667 0.00 0.00 38.41 3.16
3816 17817 1.950909 CCCCGCAACAGTAAAGTTTCA 59.049 47.619 0.00 0.00 0.00 2.69
3826 17827 7.491048 GCAACAGTAAAGTTTCAAAGAATCCAA 59.509 33.333 0.00 0.00 0.00 3.53
3829 17830 7.068716 ACAGTAAAGTTTCAAAGAATCCAAGCT 59.931 33.333 0.00 0.00 0.00 3.74
3838 17839 1.891150 AGAATCCAAGCTTGCAACCTG 59.109 47.619 21.43 6.37 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 8.765219 AGTTTGAAGTCATATATGCATAACGTC 58.235 33.333 11.13 12.00 0.00 4.34
36 37 4.377021 AGAGCGTGAACATGTAAGTTTGA 58.623 39.130 0.00 0.00 0.00 2.69
93 94 0.108992 ATTGCACGCATGAGCTTTGG 60.109 50.000 0.00 0.00 39.10 3.28
98 99 2.864028 GCTTATTGCACGCATGAGC 58.136 52.632 0.00 0.00 42.31 4.26
125 126 1.462238 AGTCCCAGCCAGGTTCAGT 60.462 57.895 0.00 0.00 34.66 3.41
126 127 1.002868 CAGTCCCAGCCAGGTTCAG 60.003 63.158 0.00 0.00 34.66 3.02
127 128 1.059584 TTCAGTCCCAGCCAGGTTCA 61.060 55.000 0.00 0.00 34.66 3.18
128 129 0.110486 TTTCAGTCCCAGCCAGGTTC 59.890 55.000 0.00 0.00 34.66 3.62
130 131 0.555769 TTTTTCAGTCCCAGCCAGGT 59.444 50.000 0.00 0.00 34.66 4.00
131 132 3.437642 TTTTTCAGTCCCAGCCAGG 57.562 52.632 0.00 0.00 37.03 4.45
163 164 7.865707 AGTACTTCAAAAGCAGTATCAACAAG 58.134 34.615 0.00 0.00 0.00 3.16
164 165 7.801716 AGTACTTCAAAAGCAGTATCAACAA 57.198 32.000 0.00 0.00 0.00 2.83
165 166 7.602644 CCTAGTACTTCAAAAGCAGTATCAACA 59.397 37.037 0.00 0.00 0.00 3.33
166 167 7.817962 TCCTAGTACTTCAAAAGCAGTATCAAC 59.182 37.037 0.00 0.00 0.00 3.18
167 168 7.903145 TCCTAGTACTTCAAAAGCAGTATCAA 58.097 34.615 0.00 0.00 0.00 2.57
168 169 7.476540 TCCTAGTACTTCAAAAGCAGTATCA 57.523 36.000 0.00 0.00 0.00 2.15
176 183 5.179533 GCTCCCTTCCTAGTACTTCAAAAG 58.820 45.833 0.00 0.59 0.00 2.27
185 192 7.733047 TCATACAAATATGCTCCCTTCCTAGTA 59.267 37.037 0.00 0.00 38.50 1.82
186 193 6.558775 TCATACAAATATGCTCCCTTCCTAGT 59.441 38.462 0.00 0.00 38.50 2.57
187 194 6.876257 GTCATACAAATATGCTCCCTTCCTAG 59.124 42.308 0.00 0.00 38.50 3.02
188 195 6.328934 TGTCATACAAATATGCTCCCTTCCTA 59.671 38.462 0.00 0.00 38.50 2.94
207 214 2.293519 TGGGTCCCATCTTCCTGTCATA 60.294 50.000 6.47 0.00 0.00 2.15
208 215 1.216990 GGGTCCCATCTTCCTGTCAT 58.783 55.000 1.78 0.00 0.00 3.06
239 246 1.265365 GAGAGTTTGGAGTTGCACAGC 59.735 52.381 0.00 0.00 0.00 4.40
301 308 2.156098 GTCAGAGACCAGACTTCGTCT 58.844 52.381 2.23 2.23 44.44 4.18
302 309 2.156098 AGTCAGAGACCAGACTTCGTC 58.844 52.381 0.00 0.00 42.12 4.20
303 310 2.156098 GAGTCAGAGACCAGACTTCGT 58.844 52.381 0.00 0.00 44.61 3.85
305 312 1.470890 CGGAGTCAGAGACCAGACTTC 59.529 57.143 0.00 0.00 44.61 3.01
306 313 1.540267 CGGAGTCAGAGACCAGACTT 58.460 55.000 0.00 0.00 44.61 3.01
320 356 1.340114 GGAGAAAAGGAATGGCGGAGT 60.340 52.381 0.00 0.00 0.00 3.85
632 727 0.693430 AGGGCCATCTCTGATGCAGA 60.693 55.000 6.18 0.00 38.25 4.26
657 752 1.423395 GGTTGAAGAGAGACACTGCG 58.577 55.000 0.00 0.00 0.00 5.18
664 7220 1.538204 GCACACACGGTTGAAGAGAGA 60.538 52.381 0.00 0.00 0.00 3.10
712 7292 0.764890 TAGGTGCAAACTGTGAGCCT 59.235 50.000 2.60 0.00 36.95 4.58
713 7293 0.875059 GTAGGTGCAAACTGTGAGCC 59.125 55.000 2.60 0.00 0.00 4.70
738 7318 1.078637 GCAGCAGCAGTCCATGAGA 60.079 57.895 0.00 0.00 41.58 3.27
826 7406 1.320344 AAGGTGCTGGCGACGATCTA 61.320 55.000 0.00 0.00 0.00 1.98
929 7509 6.845908 ACAATGGAGTATGAGAAGGCATTAT 58.154 36.000 0.00 0.00 0.00 1.28
1065 7645 4.104738 CCCTCCTTAAAGAAGCCATGGATA 59.895 45.833 18.40 0.00 0.00 2.59
1113 7693 1.469703 TGCTGCATCATTTCGTGGAAG 59.530 47.619 0.00 0.00 0.00 3.46
1138 7718 1.302431 TCACCACATCGGGCACAAG 60.302 57.895 0.00 0.00 40.22 3.16
1475 14466 1.476488 ACCCATGAAGCAAAATACGGC 59.524 47.619 0.00 0.00 0.00 5.68
1539 14530 2.328099 GCCGTTGCTTCCCACTGAG 61.328 63.158 0.00 0.00 33.53 3.35
1543 14534 1.080569 CAATGCCGTTGCTTCCCAC 60.081 57.895 0.00 0.00 38.71 4.61
1597 14588 4.506288 TGTCATTCCACGTTTAGCATATCG 59.494 41.667 0.00 0.00 0.00 2.92
1706 14697 5.070313 CCCATTCTGGAAAGTTTTCTGGAAA 59.930 40.000 9.95 0.00 40.96 3.13
1707 14698 4.588528 CCCATTCTGGAAAGTTTTCTGGAA 59.411 41.667 9.95 10.90 40.96 3.53
1708 14699 4.151883 CCCATTCTGGAAAGTTTTCTGGA 58.848 43.478 9.95 0.00 40.96 3.86
1709 14700 3.897505 ACCCATTCTGGAAAGTTTTCTGG 59.102 43.478 4.75 4.29 40.96 3.86
1710 14701 5.183904 CCTACCCATTCTGGAAAGTTTTCTG 59.816 44.000 4.75 0.00 40.96 3.02
1711 14702 5.162980 ACCTACCCATTCTGGAAAGTTTTCT 60.163 40.000 4.75 0.00 40.96 2.52
1712 14703 5.077564 ACCTACCCATTCTGGAAAGTTTTC 58.922 41.667 0.00 0.00 40.96 2.29
1713 14704 5.074746 ACCTACCCATTCTGGAAAGTTTT 57.925 39.130 0.00 0.00 40.96 2.43
1714 14705 4.741928 ACCTACCCATTCTGGAAAGTTT 57.258 40.909 0.00 0.00 40.96 2.66
1715 14706 4.105697 TCAACCTACCCATTCTGGAAAGTT 59.894 41.667 0.00 0.00 40.96 2.66
1716 14707 3.655777 TCAACCTACCCATTCTGGAAAGT 59.344 43.478 0.00 0.00 40.96 2.66
1717 14708 4.010349 GTCAACCTACCCATTCTGGAAAG 58.990 47.826 0.00 0.00 40.96 2.62
2070 15061 4.037208 CCAACTTCCATGGCATCAAGTATC 59.963 45.833 17.58 0.00 0.00 2.24
2338 15332 9.777297 ACAATTATTTCTACAAAAACCAGCAAT 57.223 25.926 0.00 0.00 0.00 3.56
2370 15364 4.810191 ATGGAATAGGTCGATAGCTTCC 57.190 45.455 0.00 10.94 34.60 3.46
2381 15375 8.934697 TCATAGCACTTAGTTTATGGAATAGGT 58.065 33.333 11.38 0.00 0.00 3.08
2385 15379 9.632638 ACATTCATAGCACTTAGTTTATGGAAT 57.367 29.630 11.38 4.16 0.00 3.01
2391 15385 9.502091 AACTTCACATTCATAGCACTTAGTTTA 57.498 29.630 0.00 0.00 0.00 2.01
2395 15389 8.032952 TCAAACTTCACATTCATAGCACTTAG 57.967 34.615 0.00 0.00 0.00 2.18
2398 15392 8.743085 ATATCAAACTTCACATTCATAGCACT 57.257 30.769 0.00 0.00 0.00 4.40
2439 15433 8.729756 CCAACCTTGAATATCGCATTAATCATA 58.270 33.333 0.00 0.00 0.00 2.15
2451 15445 6.240549 TCTCTTCTCCCAACCTTGAATATC 57.759 41.667 0.00 0.00 0.00 1.63
2454 15448 3.265479 CCTCTCTTCTCCCAACCTTGAAT 59.735 47.826 0.00 0.00 0.00 2.57
2456 15450 2.158158 TCCTCTCTTCTCCCAACCTTGA 60.158 50.000 0.00 0.00 0.00 3.02
2475 15469 4.488879 CAGCAAACAAATCCTTAGCTTCC 58.511 43.478 0.00 0.00 0.00 3.46
2525 15519 9.639601 TTATCATTACTGCATAAGTAGATTCCG 57.360 33.333 0.00 0.00 42.38 4.30
2647 15641 7.757941 TTTCCAACAACATTCTGATGATACA 57.242 32.000 0.00 0.00 36.73 2.29
2729 15723 8.845227 TCAATAAAGTTGTTGATGCTTCAAGTA 58.155 29.630 14.79 5.39 42.41 2.24
2750 15744 8.616942 TCTTCGAAAACAAAGACAACATCAATA 58.383 29.630 0.00 0.00 0.00 1.90
2766 15760 4.615541 CGGTATTTGCCTTTCTTCGAAAAC 59.384 41.667 0.00 0.00 0.00 2.43
2787 15781 0.740737 GCAATTTCATGTCCTCCCGG 59.259 55.000 0.00 0.00 0.00 5.73
2830 15826 4.102524 TGTCAACTAGTCAACCAAGTCCAT 59.897 41.667 0.00 0.00 0.00 3.41
2831 15827 3.452990 TGTCAACTAGTCAACCAAGTCCA 59.547 43.478 0.00 0.00 0.00 4.02
2832 15828 3.808174 GTGTCAACTAGTCAACCAAGTCC 59.192 47.826 0.00 0.00 0.00 3.85
2835 15831 5.751680 CAATGTGTCAACTAGTCAACCAAG 58.248 41.667 0.00 0.00 0.00 3.61
2852 15849 5.124297 TCAACCAAGTCTCATATGCAATGTG 59.876 40.000 0.00 0.00 36.70 3.21
2855 15852 5.356190 CAGTCAACCAAGTCTCATATGCAAT 59.644 40.000 0.00 0.00 0.00 3.56
2870 15867 3.452990 TCAACTAGTCAACCAGTCAACCA 59.547 43.478 0.00 0.00 0.00 3.67
2871 15868 3.808174 GTCAACTAGTCAACCAGTCAACC 59.192 47.826 0.00 0.00 0.00 3.77
2872 15869 4.270325 GTGTCAACTAGTCAACCAGTCAAC 59.730 45.833 0.00 0.00 0.00 3.18
2873 15870 4.081365 TGTGTCAACTAGTCAACCAGTCAA 60.081 41.667 0.00 0.00 0.00 3.18
2874 15871 3.449377 TGTGTCAACTAGTCAACCAGTCA 59.551 43.478 0.00 0.00 0.00 3.41
2875 15872 4.054780 TGTGTCAACTAGTCAACCAGTC 57.945 45.455 0.00 0.00 0.00 3.51
2876 15873 4.689612 ATGTGTCAACTAGTCAACCAGT 57.310 40.909 0.00 0.00 0.00 4.00
2877 15874 4.319766 GCAATGTGTCAACTAGTCAACCAG 60.320 45.833 0.00 0.00 0.00 4.00
2878 15875 3.563808 GCAATGTGTCAACTAGTCAACCA 59.436 43.478 0.00 0.00 0.00 3.67
2879 15876 3.563808 TGCAATGTGTCAACTAGTCAACC 59.436 43.478 0.00 0.00 0.00 3.77
2880 15877 4.811555 TGCAATGTGTCAACTAGTCAAC 57.188 40.909 0.00 0.00 0.00 3.18
2881 15878 6.878389 TCATATGCAATGTGTCAACTAGTCAA 59.122 34.615 0.00 0.00 36.73 3.18
2882 15879 6.405538 TCATATGCAATGTGTCAACTAGTCA 58.594 36.000 0.00 0.00 36.73 3.41
2883 15880 6.018425 CCTCATATGCAATGTGTCAACTAGTC 60.018 42.308 0.00 0.00 36.73 2.59
2884 15881 5.819379 CCTCATATGCAATGTGTCAACTAGT 59.181 40.000 0.00 0.00 36.73 2.57
2885 15882 5.277683 GCCTCATATGCAATGTGTCAACTAG 60.278 44.000 0.00 0.00 36.73 2.57
2886 15883 4.576053 GCCTCATATGCAATGTGTCAACTA 59.424 41.667 0.00 0.00 36.73 2.24
2887 15884 3.379372 GCCTCATATGCAATGTGTCAACT 59.621 43.478 0.00 0.00 36.73 3.16
2888 15885 3.379372 AGCCTCATATGCAATGTGTCAAC 59.621 43.478 0.00 0.00 36.73 3.18
2889 15886 3.623703 AGCCTCATATGCAATGTGTCAA 58.376 40.909 0.00 0.00 36.73 3.18
2890 15887 3.286329 AGCCTCATATGCAATGTGTCA 57.714 42.857 0.00 0.00 36.73 3.58
2891 15888 4.818546 AGTTAGCCTCATATGCAATGTGTC 59.181 41.667 0.00 0.00 36.73 3.67
2892 15889 4.785301 AGTTAGCCTCATATGCAATGTGT 58.215 39.130 0.00 0.00 36.73 3.72
2893 15890 5.530171 AGAAGTTAGCCTCATATGCAATGTG 59.470 40.000 0.00 0.00 36.70 3.21
2894 15891 5.688807 AGAAGTTAGCCTCATATGCAATGT 58.311 37.500 0.00 0.00 0.00 2.71
2895 15892 5.761726 TGAGAAGTTAGCCTCATATGCAATG 59.238 40.000 0.00 0.00 34.78 2.82
2896 15893 5.933617 TGAGAAGTTAGCCTCATATGCAAT 58.066 37.500 0.00 0.00 34.78 3.56
2897 15894 5.129320 TCTGAGAAGTTAGCCTCATATGCAA 59.871 40.000 0.00 0.00 38.57 4.08
2898 15895 4.651045 TCTGAGAAGTTAGCCTCATATGCA 59.349 41.667 0.00 0.00 38.57 3.96
2899 15896 5.207110 TCTGAGAAGTTAGCCTCATATGC 57.793 43.478 0.00 0.00 38.57 3.14
2900 15897 6.202570 GCTTTCTGAGAAGTTAGCCTCATATG 59.797 42.308 6.16 0.00 38.57 1.78
2901 15898 6.126940 TGCTTTCTGAGAAGTTAGCCTCATAT 60.127 38.462 13.14 0.00 38.57 1.78
2902 15899 5.187772 TGCTTTCTGAGAAGTTAGCCTCATA 59.812 40.000 13.14 0.00 38.57 2.15
2903 15900 4.019860 TGCTTTCTGAGAAGTTAGCCTCAT 60.020 41.667 13.14 0.00 38.57 2.90
2904 15901 3.324846 TGCTTTCTGAGAAGTTAGCCTCA 59.675 43.478 13.14 0.00 37.77 3.86
2905 15902 3.682377 GTGCTTTCTGAGAAGTTAGCCTC 59.318 47.826 13.14 4.98 0.00 4.70
2906 15903 3.071602 TGTGCTTTCTGAGAAGTTAGCCT 59.928 43.478 13.14 0.00 0.00 4.58
2907 15904 3.403038 TGTGCTTTCTGAGAAGTTAGCC 58.597 45.455 13.14 6.82 0.00 3.93
2908 15905 4.061596 ACTGTGCTTTCTGAGAAGTTAGC 58.938 43.478 9.76 9.76 0.00 3.09
2909 15906 5.755375 TCAACTGTGCTTTCTGAGAAGTTAG 59.245 40.000 0.00 0.00 0.00 2.34
2910 15907 5.670485 TCAACTGTGCTTTCTGAGAAGTTA 58.330 37.500 0.00 0.00 0.00 2.24
2915 15912 3.827008 ACTCAACTGTGCTTTCTGAGA 57.173 42.857 10.87 0.00 37.53 3.27
2919 15916 4.082026 AGCAAAAACTCAACTGTGCTTTCT 60.082 37.500 0.00 0.00 39.19 2.52
2965 15962 3.546616 GCAAGCAAAAACTCAATTGTGCC 60.547 43.478 11.56 0.00 34.19 5.01
3009 16006 4.499696 CCAGCGGTCAGTTTGAGAATTTTT 60.500 41.667 0.00 0.00 0.00 1.94
3010 16007 3.004734 CCAGCGGTCAGTTTGAGAATTTT 59.995 43.478 0.00 0.00 0.00 1.82
3011 16008 2.554032 CCAGCGGTCAGTTTGAGAATTT 59.446 45.455 0.00 0.00 0.00 1.82
3013 16010 1.072331 ACCAGCGGTCAGTTTGAGAAT 59.928 47.619 0.00 0.00 0.00 2.40
3015 16012 1.272490 CTACCAGCGGTCAGTTTGAGA 59.728 52.381 3.45 0.00 37.09 3.27
3016 16013 1.272490 TCTACCAGCGGTCAGTTTGAG 59.728 52.381 3.45 0.00 37.09 3.02
3025 16493 1.823610 GGTCTAACTTCTACCAGCGGT 59.176 52.381 5.58 5.58 40.16 5.68
3027 16495 3.870633 AAGGTCTAACTTCTACCAGCG 57.129 47.619 0.00 0.00 35.64 5.18
3038 16506 9.708092 AACTCTATGAAACAGTAAAGGTCTAAC 57.292 33.333 0.00 0.00 0.00 2.34
3048 16516 8.783093 CCACAAAATGAACTCTATGAAACAGTA 58.217 33.333 0.00 0.00 0.00 2.74
3052 16520 7.425606 ACACCACAAAATGAACTCTATGAAAC 58.574 34.615 0.00 0.00 0.00 2.78
3059 16527 4.780815 TGAGACACCACAAAATGAACTCT 58.219 39.130 0.00 0.00 0.00 3.24
3078 16546 9.339850 AGATCCATAAACATTTCTGATCTTGAG 57.660 33.333 0.00 0.00 0.00 3.02
3094 16562 9.820725 CCAATGCAAGATTAAAAGATCCATAAA 57.179 29.630 0.00 0.00 0.00 1.40
3095 16563 7.927629 GCCAATGCAAGATTAAAAGATCCATAA 59.072 33.333 0.00 0.00 37.47 1.90
3100 16577 5.581605 TCGCCAATGCAAGATTAAAAGATC 58.418 37.500 0.00 0.00 37.32 2.75
3114 16591 0.099436 CTACCTTTGCTCGCCAATGC 59.901 55.000 0.00 0.00 32.49 3.56
3115 16592 1.398390 GTCTACCTTTGCTCGCCAATG 59.602 52.381 0.00 0.00 32.49 2.82
3118 16595 1.295423 GGTCTACCTTTGCTCGCCA 59.705 57.895 0.00 0.00 0.00 5.69
3125 16602 5.721232 ACTAGTTCATTCGGTCTACCTTTG 58.279 41.667 0.00 0.00 0.00 2.77
3136 16613 5.911615 GTCGTGTTAGACTAGTTCATTCG 57.088 43.478 0.00 0.00 38.09 3.34
3137 16614 7.999891 AACCAGTCGTGTTAGACTAGTTCATTC 61.000 40.741 0.00 0.00 45.24 2.67
3138 16615 6.239232 AACCAGTCGTGTTAGACTAGTTCATT 60.239 38.462 0.00 0.00 45.24 2.57
3139 16616 5.243283 AACCAGTCGTGTTAGACTAGTTCAT 59.757 40.000 0.00 0.00 45.24 2.57
3140 16617 4.581824 AACCAGTCGTGTTAGACTAGTTCA 59.418 41.667 0.00 0.00 45.24 3.18
3141 16618 4.916249 CAACCAGTCGTGTTAGACTAGTTC 59.084 45.833 7.71 0.00 45.24 3.01
3158 16635 6.127366 ACCAATATCCATAAAGTTGCAACCAG 60.127 38.462 25.62 11.01 0.00 4.00
3164 16641 7.771183 TCAGAAACCAATATCCATAAAGTTGC 58.229 34.615 0.00 0.00 0.00 4.17
3168 16645 7.373493 GCCATCAGAAACCAATATCCATAAAG 58.627 38.462 0.00 0.00 0.00 1.85
3173 16650 3.118075 TCGCCATCAGAAACCAATATCCA 60.118 43.478 0.00 0.00 0.00 3.41
3175 16652 5.455392 CAATCGCCATCAGAAACCAATATC 58.545 41.667 0.00 0.00 0.00 1.63
3176 16653 4.279169 CCAATCGCCATCAGAAACCAATAT 59.721 41.667 0.00 0.00 0.00 1.28
3179 16656 1.818060 CCAATCGCCATCAGAAACCAA 59.182 47.619 0.00 0.00 0.00 3.67
3181 16658 0.740737 CCCAATCGCCATCAGAAACC 59.259 55.000 0.00 0.00 0.00 3.27
3182 16659 0.740737 CCCCAATCGCCATCAGAAAC 59.259 55.000 0.00 0.00 0.00 2.78
3183 16660 0.331278 ACCCCAATCGCCATCAGAAA 59.669 50.000 0.00 0.00 0.00 2.52
3252 17074 4.823989 GGCTGGTGCAAATCATACTAGAAT 59.176 41.667 0.00 0.00 41.91 2.40
3268 17091 1.915141 AAAATCTCAGGTGGCTGGTG 58.085 50.000 0.00 0.00 0.00 4.17
3300 17123 6.688637 TCATATGAAGGAAAATGACTGCTG 57.311 37.500 1.98 0.00 0.00 4.41
3339 17162 2.015736 AGCAGATCACCGAATGACAC 57.984 50.000 0.00 0.00 41.24 3.67
3347 17170 3.582714 TGCATAGATAGCAGATCACCG 57.417 47.619 0.00 0.00 37.02 4.94
3348 17171 3.683822 GCTTGCATAGATAGCAGATCACC 59.316 47.826 2.44 0.00 43.75 4.02
3430 17259 4.918810 ACAAGAACAACCTCAAACATCC 57.081 40.909 0.00 0.00 0.00 3.51
3445 17274 5.492895 TCCGCTAATTGGACATAACAAGAA 58.507 37.500 0.00 0.00 0.00 2.52
3448 17277 7.867305 TTTATCCGCTAATTGGACATAACAA 57.133 32.000 0.00 0.00 38.60 2.83
3505 17501 0.386858 GTGCAACTGACAGCAGCATG 60.387 55.000 20.94 6.96 46.26 4.06
3539 17535 4.263462 ACTGGATTTTCTCACCTGTATGCA 60.263 41.667 0.00 0.00 34.91 3.96
3574 17575 7.335422 AGTTGAATCTTCGATGAAGTAAAGCAT 59.665 33.333 4.98 0.00 40.24 3.79
3614 17615 5.433526 TCTTGGCCATACCTTTATGTACAC 58.566 41.667 6.09 0.00 40.22 2.90
3644 17645 2.435805 ACTGAAGAGAAAGCTCACACCA 59.564 45.455 0.00 0.00 43.81 4.17
3693 17694 5.946942 AATGCTCTGATTCCTTCTCTGTA 57.053 39.130 0.00 0.00 0.00 2.74
3698 17699 5.771666 TCAAACAAATGCTCTGATTCCTTCT 59.228 36.000 0.00 0.00 0.00 2.85
3699 17700 6.017400 TCAAACAAATGCTCTGATTCCTTC 57.983 37.500 0.00 0.00 0.00 3.46
3718 17719 4.036734 AGCGAGCAAGAAGTTTTCATCAAA 59.963 37.500 0.00 0.00 0.00 2.69
3779 17780 0.173708 GGGCAGTACGGAGAACAGAG 59.826 60.000 0.00 0.00 0.00 3.35
3806 17807 7.306807 GCAAGCTTGGATTCTTTGAAACTTTAC 60.307 37.037 27.10 0.32 0.00 2.01
3816 17817 2.967887 AGGTTGCAAGCTTGGATTCTTT 59.032 40.909 24.96 10.67 31.69 2.52
3826 17827 1.421646 AGAAGGTACAGGTTGCAAGCT 59.578 47.619 24.96 24.96 37.19 3.74


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

AutoCloner maintained by Alex Coulton.