Multiple sequence alignment - TraesCS5B01G546800

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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 TraesCS5B01G546800 chr5B 100.000 3277 0 0 1 3277 699949141 699952417 0.000000e+00 6052.0
1 TraesCS5B01G546800 chr5B 89.061 1618 127 19 533 2142 700229897 700228322 0.000000e+00 1962.0
2 TraesCS5B01G546800 chr5B 87.326 576 62 7 2426 2994 700228004 700227433 0.000000e+00 649.0
3 TraesCS5B01G546800 chr5B 86.774 310 39 2 2069 2378 700228325 700228018 8.710000e-91 344.0
4 TraesCS5B01G546800 chr5B 77.471 435 89 8 1560 1988 703645251 703645682 5.430000e-63 252.0
5 TraesCS5B01G546800 chr5B 82.126 207 26 8 41 244 700231235 700231037 2.020000e-37 167.0
6 TraesCS5B01G546800 chr5B 90.323 124 10 2 242 365 700230941 700230820 9.410000e-36 161.0
7 TraesCS5B01G546800 chr5B 95.349 43 2 0 8 50 700231302 700231260 5.870000e-08 69.4
8 TraesCS5B01G546800 chr5D 95.649 2459 96 10 536 2991 552034005 552031555 0.000000e+00 3938.0
9 TraesCS5B01G546800 chr5D 88.884 2447 223 21 564 2994 551989513 551987100 0.000000e+00 2966.0
10 TraesCS5B01G546800 chr5D 89.583 288 17 7 2996 3277 551591054 551591334 1.450000e-93 353.0
11 TraesCS5B01G546800 chr5D 78.291 433 86 8 1560 1988 552352178 552351750 4.170000e-69 272.0
12 TraesCS5B01G546800 chr5D 76.327 452 85 15 780 1217 551738661 551739104 4.260000e-54 222.0
13 TraesCS5B01G546800 chr5D 90.400 125 8 4 242 365 552036389 552036268 9.410000e-36 161.0
14 TraesCS5B01G546800 chr5D 90.244 123 7 4 388 507 552034121 552034001 4.380000e-34 156.0
15 TraesCS5B01G546800 chr5D 88.764 89 6 3 242 329 551990558 551990473 4.470000e-19 106.0
16 TraesCS5B01G546800 chr5D 89.157 83 6 2 152 231 552036584 552036502 2.080000e-17 100.0
17 TraesCS5B01G546800 chr4A 94.082 2467 130 14 534 2991 616213069 616210610 0.000000e+00 3733.0
18 TraesCS5B01G546800 chr4A 93.449 2473 135 18 522 2991 616297170 616299618 0.000000e+00 3644.0
19 TraesCS5B01G546800 chr4A 94.731 1689 77 6 1311 2991 616230056 616228372 0.000000e+00 2615.0
20 TraesCS5B01G546800 chr4A 86.667 1725 184 19 564 2267 616315011 616316710 0.000000e+00 1869.0
21 TraesCS5B01G546800 chr4A 85.946 185 16 7 3 186 616313464 616313639 4.320000e-44 189.0
22 TraesCS5B01G546800 chr4A 90.526 95 6 1 242 336 616230428 616230337 4.440000e-24 122.0
23 TraesCS5B01G546800 chr4A 91.463 82 4 2 242 323 616313780 616313858 3.460000e-20 110.0
24 TraesCS5B01G546800 chr1B 82.330 764 117 18 694 1452 627719310 627720060 0.000000e+00 647.0
25 TraesCS5B01G546800 chr1A 70.879 910 210 45 838 1715 569656856 569657742 9.410000e-36 161.0
26 TraesCS5B01G546800 chr2D 94.949 99 5 0 250 348 420719678 420719580 4.380000e-34 156.0
27 TraesCS5B01G546800 chr2D 80.930 215 20 12 41 247 420719984 420719783 2.040000e-32 150.0


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 TraesCS5B01G546800 chr5B 699949141 699952417 3276 False 6052.000000 6052 100.000000 1 3277 1 chr5B.!!$F1 3276
1 TraesCS5B01G546800 chr5B 700227433 700231302 3869 True 558.733333 1962 88.493167 8 2994 6 chr5B.!!$R1 2986
2 TraesCS5B01G546800 chr5D 551987100 551990558 3458 True 1536.000000 2966 88.824000 242 2994 2 chr5D.!!$R2 2752
3 TraesCS5B01G546800 chr5D 552031555 552036584 5029 True 1088.750000 3938 91.362500 152 2991 4 chr5D.!!$R3 2839
4 TraesCS5B01G546800 chr4A 616210610 616213069 2459 True 3733.000000 3733 94.082000 534 2991 1 chr4A.!!$R1 2457
5 TraesCS5B01G546800 chr4A 616297170 616299618 2448 False 3644.000000 3644 93.449000 522 2991 1 chr4A.!!$F1 2469
6 TraesCS5B01G546800 chr4A 616228372 616230428 2056 True 1368.500000 2615 92.628500 242 2991 2 chr4A.!!$R2 2749
7 TraesCS5B01G546800 chr4A 616313464 616316710 3246 False 722.666667 1869 88.025333 3 2267 3 chr4A.!!$F2 2264
8 TraesCS5B01G546800 chr1B 627719310 627720060 750 False 647.000000 647 82.330000 694 1452 1 chr1B.!!$F1 758

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
428 2879 0.041400 CGTCACCGTACACGTACACA 60.041 55.0 8.02 0.0 35.87 3.72 F
1098 5276 0.035439 AATTCGGTGCGGACATTCCT 60.035 50.0 9.96 0.0 33.30 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1648 5834 0.911769 AAACTGCCATCCTCCATCGA 59.088 50.0 0.0 0.0 0.0 3.59 R
3043 7338 0.529833 TTTTGTGTGTGTGGGTGCTG 59.470 50.0 0.0 0.0 0.0 4.41 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
72 107 6.039717 TGCTAACAAATTCAGTCAGCTTCTTT 59.960 34.615 7.43 0.00 0.00 2.52
90 125 8.211629 AGCTTCTTTTTCTTCTTCCTTGTACTA 58.788 33.333 0.00 0.00 0.00 1.82
137 172 1.536644 AAACCTAGTTCCCCACCCAA 58.463 50.000 0.00 0.00 0.00 4.12
168 206 2.805099 GACTGAATCGATGAATCCCTGC 59.195 50.000 0.00 0.00 0.00 4.85
233 283 1.227205 CAGCTAGAGCAGGCGGAAG 60.227 63.158 4.01 0.00 45.16 3.46
234 284 1.380515 AGCTAGAGCAGGCGGAAGA 60.381 57.895 4.01 0.00 45.16 2.87
235 285 1.067250 GCTAGAGCAGGCGGAAGAG 59.933 63.158 0.00 0.00 41.59 2.85
236 286 1.671901 GCTAGAGCAGGCGGAAGAGT 61.672 60.000 0.00 0.00 41.59 3.24
237 287 1.681538 CTAGAGCAGGCGGAAGAGTA 58.318 55.000 0.00 0.00 0.00 2.59
238 288 2.025155 CTAGAGCAGGCGGAAGAGTAA 58.975 52.381 0.00 0.00 0.00 2.24
239 289 0.820871 AGAGCAGGCGGAAGAGTAAG 59.179 55.000 0.00 0.00 0.00 2.34
240 290 0.179097 GAGCAGGCGGAAGAGTAAGG 60.179 60.000 0.00 0.00 0.00 2.69
246 404 0.686769 GCGGAAGAGTAAGGGGAGGA 60.687 60.000 0.00 0.00 0.00 3.71
248 406 1.796017 GGAAGAGTAAGGGGAGGAGG 58.204 60.000 0.00 0.00 0.00 4.30
323 481 3.393970 CCTCCTGCTCTTCCGGCA 61.394 66.667 0.00 0.00 38.10 5.69
428 2879 0.041400 CGTCACCGTACACGTACACA 60.041 55.000 8.02 0.00 35.87 3.72
435 3411 1.370293 TACACGTACACACCACGCG 60.370 57.895 3.53 3.53 43.10 6.01
462 3438 1.527370 CGGACCCTCCATTTCCTCC 59.473 63.158 0.00 0.00 35.91 4.30
491 3736 5.178809 ACTTTGTTTGTAGCCGTCAGATTAC 59.821 40.000 0.00 0.00 0.00 1.89
502 3747 5.127194 AGCCGTCAGATTACTAGTTTGATCA 59.873 40.000 0.00 0.00 0.00 2.92
505 3750 7.148474 GCCGTCAGATTACTAGTTTGATCAAAA 60.148 37.037 22.07 7.39 31.33 2.44
506 3751 8.717821 CCGTCAGATTACTAGTTTGATCAAAAA 58.282 33.333 22.07 12.81 31.33 1.94
714 4886 0.179018 GAGCTTTCGGTGGCCCATAT 60.179 55.000 0.00 0.00 0.00 1.78
715 4887 0.179018 AGCTTTCGGTGGCCCATATC 60.179 55.000 0.00 0.00 0.00 1.63
730 4902 3.808728 CCATATCGTGGTCAATCTTGGT 58.191 45.455 0.00 0.00 43.44 3.67
738 4910 3.435671 GTGGTCAATCTTGGTAGGAAACG 59.564 47.826 0.00 0.00 0.00 3.60
876 5054 6.056428 GAACTACTCGAGGAGATCTTCTTC 57.944 45.833 31.50 18.14 33.32 2.87
1089 5267 3.311080 CACCATGAAATTCGGTGCG 57.689 52.632 7.03 0.00 43.43 5.34
1098 5276 0.035439 AATTCGGTGCGGACATTCCT 60.035 50.000 9.96 0.00 33.30 3.36
1105 5283 0.396435 TGCGGACATTCCTGACAACT 59.604 50.000 0.00 0.00 33.30 3.16
1176 5362 1.142870 CTCCTTCGGGATAATTGGGCA 59.857 52.381 0.00 0.00 44.11 5.36
1236 5422 3.243873 GCCAAAGAAAGCTAAAAGTGCCT 60.244 43.478 0.00 0.00 0.00 4.75
1255 5441 0.744057 TACGTCGATGGGCTACGTCA 60.744 55.000 9.90 0.00 44.34 4.35
1467 5653 3.493129 TGTGCTCTAGTTTACAACTTGCG 59.507 43.478 0.00 0.00 42.81 4.85
1513 5699 8.098422 AATGCCTTCCATCCTTGTTGAAAACA 62.098 38.462 0.00 0.00 44.43 2.83
1554 5740 5.284864 ACACACGATGATGATGATAGTGTC 58.715 41.667 7.69 0.00 37.50 3.67
1555 5741 5.163519 ACACACGATGATGATGATAGTGTCA 60.164 40.000 7.69 0.00 37.50 3.58
1629 5815 2.097110 TGTCCGGGGCTATCATTAGT 57.903 50.000 0.00 0.00 0.00 2.24
1648 5834 3.454858 AGTGGTTCCACTATCCTCATGT 58.545 45.455 21.13 0.00 44.42 3.21
1745 5931 3.066621 GCTAATGGAATTGCGTCATGGAA 59.933 43.478 0.00 0.00 36.99 3.53
1754 5940 5.673337 ATTGCGTCATGGAATATGTGTAC 57.327 39.130 0.00 0.00 36.79 2.90
1806 5992 4.070630 TCAAAATCCAACCAAAAGGCTG 57.929 40.909 0.00 0.00 0.00 4.85
1822 6008 5.441718 AAGGCTGAAACTGATTGGATCTA 57.558 39.130 0.00 0.00 0.00 1.98
1869 6055 0.811616 CTGCGGACCTTGGCATCTAC 60.812 60.000 0.00 0.00 38.69 2.59
1881 6067 6.231211 CCTTGGCATCTACGAGGTTAATATT 58.769 40.000 0.00 0.00 35.21 1.28
2504 6789 9.891828 GGCGAATGAATTATGTTGTAATGAATA 57.108 29.630 0.00 0.00 0.00 1.75
2543 6828 3.583806 TCAACTTTGTGCTTTGTGGTTG 58.416 40.909 0.00 0.00 35.40 3.77
2721 7008 6.238759 GGTTTCTATTGCCCAAGACATGATAC 60.239 42.308 0.00 0.00 0.00 2.24
2757 7044 1.001860 TGATGGCTCGTTGACATGTCA 59.998 47.619 24.56 24.56 46.18 3.58
2898 7193 3.962421 GAGCTGCATGCCCGCATC 61.962 66.667 24.99 17.05 42.06 3.91
2904 7199 0.179023 TGCATGCCCGCATCAAGATA 60.179 50.000 16.68 0.00 36.86 1.98
2911 7206 3.515104 TGCCCGCATCAAGATATCATAGA 59.485 43.478 5.32 0.00 0.00 1.98
2912 7207 4.020307 TGCCCGCATCAAGATATCATAGAA 60.020 41.667 5.32 0.00 0.00 2.10
2946 7241 6.433847 TTCTTGAGTTCCTCCACAAATCTA 57.566 37.500 0.00 0.00 0.00 1.98
2972 7267 3.489398 GGTGTTTGTTCGGTAATTGTGCA 60.489 43.478 0.00 0.00 0.00 4.57
2991 7286 4.388469 GTGCAAATGCGGACACAATTAATT 59.612 37.500 0.35 0.00 45.83 1.40
3011 7306 6.966435 AATTGTGCAAAGTGTTTATATGCC 57.034 33.333 0.00 0.00 36.20 4.40
3012 7307 5.459536 TTGTGCAAAGTGTTTATATGCCA 57.540 34.783 0.00 0.00 36.20 4.92
3013 7308 4.804108 TGTGCAAAGTGTTTATATGCCAC 58.196 39.130 0.00 0.00 36.20 5.01
3014 7309 4.279420 TGTGCAAAGTGTTTATATGCCACA 59.721 37.500 0.00 0.00 36.20 4.17
3015 7310 4.621034 GTGCAAAGTGTTTATATGCCACAC 59.379 41.667 0.00 5.99 41.03 3.82
3016 7311 4.279420 TGCAAAGTGTTTATATGCCACACA 59.721 37.500 13.38 0.00 42.81 3.72
3017 7312 5.221322 TGCAAAGTGTTTATATGCCACACAA 60.221 36.000 13.38 0.00 42.81 3.33
3018 7313 5.868801 GCAAAGTGTTTATATGCCACACAAT 59.131 36.000 13.38 3.16 42.81 2.71
3019 7314 6.183360 GCAAAGTGTTTATATGCCACACAATG 60.183 38.462 13.38 12.03 42.81 2.82
3043 7338 6.487103 GGTAACAATTATAGCTGTGACTTGC 58.513 40.000 0.00 0.00 29.01 4.01
3044 7339 6.093495 GGTAACAATTATAGCTGTGACTTGCA 59.907 38.462 0.00 0.00 29.01 4.08
3045 7340 5.808042 ACAATTATAGCTGTGACTTGCAG 57.192 39.130 0.00 0.00 37.06 4.41
3050 7345 3.348236 CTGTGACTTGCAGCACCC 58.652 61.111 0.00 0.00 34.19 4.61
3051 7346 1.526686 CTGTGACTTGCAGCACCCA 60.527 57.895 0.00 0.00 34.19 4.51
3052 7347 1.789078 CTGTGACTTGCAGCACCCAC 61.789 60.000 11.96 11.96 34.19 4.61
3053 7348 1.823470 GTGACTTGCAGCACCCACA 60.823 57.895 13.34 2.47 0.00 4.17
3054 7349 1.823470 TGACTTGCAGCACCCACAC 60.823 57.895 0.00 0.00 0.00 3.82
3055 7350 1.823470 GACTTGCAGCACCCACACA 60.823 57.895 0.00 0.00 0.00 3.72
3056 7351 2.063541 GACTTGCAGCACCCACACAC 62.064 60.000 0.00 0.00 0.00 3.82
3057 7352 2.044551 TTGCAGCACCCACACACA 60.045 55.556 0.00 0.00 0.00 3.72
3058 7353 2.340453 CTTGCAGCACCCACACACAC 62.340 60.000 0.00 0.00 0.00 3.82
3059 7354 2.828095 GCAGCACCCACACACACA 60.828 61.111 0.00 0.00 0.00 3.72
3060 7355 2.413963 GCAGCACCCACACACACAA 61.414 57.895 0.00 0.00 0.00 3.33
3061 7356 1.943116 GCAGCACCCACACACACAAA 61.943 55.000 0.00 0.00 0.00 2.83
3062 7357 0.529833 CAGCACCCACACACACAAAA 59.470 50.000 0.00 0.00 0.00 2.44
3063 7358 1.067283 CAGCACCCACACACACAAAAA 60.067 47.619 0.00 0.00 0.00 1.94
3087 7382 8.545229 AAAAAGAGAGTCATGTCAAGTCTATG 57.455 34.615 0.00 0.00 0.00 2.23
3088 7383 7.473735 AAAGAGAGTCATGTCAAGTCTATGA 57.526 36.000 0.00 0.00 0.00 2.15
3089 7384 6.698008 AGAGAGTCATGTCAAGTCTATGAG 57.302 41.667 0.00 0.00 32.00 2.90
3090 7385 5.067674 AGAGAGTCATGTCAAGTCTATGAGC 59.932 44.000 0.00 0.00 32.00 4.26
3091 7386 4.708909 AGAGTCATGTCAAGTCTATGAGCA 59.291 41.667 0.00 0.00 32.00 4.26
3092 7387 5.363292 AGAGTCATGTCAAGTCTATGAGCAT 59.637 40.000 0.00 0.00 32.00 3.79
3093 7388 5.358090 AGTCATGTCAAGTCTATGAGCATG 58.642 41.667 0.00 0.00 38.61 4.06
3094 7389 4.510711 GTCATGTCAAGTCTATGAGCATGG 59.489 45.833 14.16 0.00 38.25 3.66
3095 7390 4.162888 TCATGTCAAGTCTATGAGCATGGT 59.837 41.667 0.00 0.00 38.25 3.55
3096 7391 5.363580 TCATGTCAAGTCTATGAGCATGGTA 59.636 40.000 0.00 0.00 38.25 3.25
3097 7392 5.675684 TGTCAAGTCTATGAGCATGGTAA 57.324 39.130 0.00 0.00 0.00 2.85
3098 7393 6.048732 TGTCAAGTCTATGAGCATGGTAAA 57.951 37.500 0.00 0.00 0.00 2.01
3099 7394 5.874810 TGTCAAGTCTATGAGCATGGTAAAC 59.125 40.000 0.00 0.00 0.00 2.01
3100 7395 5.874810 GTCAAGTCTATGAGCATGGTAAACA 59.125 40.000 0.00 0.00 0.00 2.83
3101 7396 6.540189 GTCAAGTCTATGAGCATGGTAAACAT 59.460 38.462 0.00 0.00 41.57 2.71
3122 7417 8.940768 AACATGTAAATAAATAACATGGTGCC 57.059 30.769 16.45 0.00 46.84 5.01
3123 7418 8.757877 AACATGTAAATAAATAACATGGTGCCT 58.242 29.630 16.45 0.00 46.84 4.75
3125 7420 9.248291 CATGTAAATAAATAACATGGTGCCTTC 57.752 33.333 0.00 0.00 44.28 3.46
3126 7421 8.588290 TGTAAATAAATAACATGGTGCCTTCT 57.412 30.769 0.00 0.00 0.00 2.85
3127 7422 8.682710 TGTAAATAAATAACATGGTGCCTTCTC 58.317 33.333 0.00 0.00 0.00 2.87
3128 7423 7.961326 AAATAAATAACATGGTGCCTTCTCT 57.039 32.000 0.00 0.00 0.00 3.10
3129 7424 7.961326 AATAAATAACATGGTGCCTTCTCTT 57.039 32.000 0.00 0.00 0.00 2.85
3130 7425 5.649782 AAATAACATGGTGCCTTCTCTTG 57.350 39.130 0.00 0.00 0.00 3.02
3131 7426 2.664402 AACATGGTGCCTTCTCTTGT 57.336 45.000 0.00 0.00 0.00 3.16
3132 7427 2.664402 ACATGGTGCCTTCTCTTGTT 57.336 45.000 0.00 0.00 0.00 2.83
3133 7428 2.233271 ACATGGTGCCTTCTCTTGTTG 58.767 47.619 0.00 0.00 0.00 3.33
3134 7429 2.233271 CATGGTGCCTTCTCTTGTTGT 58.767 47.619 0.00 0.00 0.00 3.32
3135 7430 1.679139 TGGTGCCTTCTCTTGTTGTG 58.321 50.000 0.00 0.00 0.00 3.33
3136 7431 1.211703 TGGTGCCTTCTCTTGTTGTGA 59.788 47.619 0.00 0.00 0.00 3.58
3137 7432 2.297701 GGTGCCTTCTCTTGTTGTGAA 58.702 47.619 0.00 0.00 0.00 3.18
3138 7433 2.887152 GGTGCCTTCTCTTGTTGTGAAT 59.113 45.455 0.00 0.00 0.00 2.57
3139 7434 3.319122 GGTGCCTTCTCTTGTTGTGAATT 59.681 43.478 0.00 0.00 0.00 2.17
3140 7435 4.202151 GGTGCCTTCTCTTGTTGTGAATTT 60.202 41.667 0.00 0.00 0.00 1.82
3141 7436 5.351458 GTGCCTTCTCTTGTTGTGAATTTT 58.649 37.500 0.00 0.00 0.00 1.82
3142 7437 5.460091 GTGCCTTCTCTTGTTGTGAATTTTC 59.540 40.000 0.00 0.00 0.00 2.29
3143 7438 4.676924 GCCTTCTCTTGTTGTGAATTTTCG 59.323 41.667 0.00 0.00 0.00 3.46
3144 7439 4.676924 CCTTCTCTTGTTGTGAATTTTCGC 59.323 41.667 0.00 0.00 38.16 4.70
3145 7440 4.223320 TCTCTTGTTGTGAATTTTCGCC 57.777 40.909 1.70 0.00 36.89 5.54
3146 7441 3.882888 TCTCTTGTTGTGAATTTTCGCCT 59.117 39.130 1.70 0.00 36.89 5.52
3147 7442 5.060506 TCTCTTGTTGTGAATTTTCGCCTA 58.939 37.500 1.70 0.00 36.89 3.93
3148 7443 5.529430 TCTCTTGTTGTGAATTTTCGCCTAA 59.471 36.000 1.70 0.00 36.89 2.69
3149 7444 6.038825 TCTCTTGTTGTGAATTTTCGCCTAAA 59.961 34.615 1.70 0.00 36.89 1.85
3150 7445 6.744112 TCTTGTTGTGAATTTTCGCCTAAAT 58.256 32.000 1.70 0.00 36.89 1.40
3151 7446 7.877003 TCTTGTTGTGAATTTTCGCCTAAATA 58.123 30.769 1.70 0.00 36.89 1.40
3152 7447 8.020819 TCTTGTTGTGAATTTTCGCCTAAATAG 58.979 33.333 1.70 0.00 36.89 1.73
3153 7448 7.441890 TGTTGTGAATTTTCGCCTAAATAGA 57.558 32.000 1.70 0.00 36.89 1.98
3154 7449 8.050778 TGTTGTGAATTTTCGCCTAAATAGAT 57.949 30.769 1.70 0.00 36.89 1.98
3155 7450 9.168451 TGTTGTGAATTTTCGCCTAAATAGATA 57.832 29.630 1.70 0.00 36.89 1.98
3156 7451 9.434559 GTTGTGAATTTTCGCCTAAATAGATAC 57.565 33.333 1.70 0.00 36.89 2.24
3157 7452 8.149973 TGTGAATTTTCGCCTAAATAGATACC 57.850 34.615 1.70 0.00 36.89 2.73
3158 7453 7.227910 TGTGAATTTTCGCCTAAATAGATACCC 59.772 37.037 1.70 0.00 36.89 3.69
3159 7454 7.444487 GTGAATTTTCGCCTAAATAGATACCCT 59.556 37.037 0.00 0.00 0.00 4.34
3160 7455 7.444183 TGAATTTTCGCCTAAATAGATACCCTG 59.556 37.037 0.00 0.00 0.00 4.45
3161 7456 5.881923 TTTCGCCTAAATAGATACCCTGT 57.118 39.130 0.00 0.00 0.00 4.00
3162 7457 5.881923 TTCGCCTAAATAGATACCCTGTT 57.118 39.130 0.00 0.00 0.00 3.16
3163 7458 6.982160 TTCGCCTAAATAGATACCCTGTTA 57.018 37.500 0.00 0.00 0.00 2.41
3164 7459 7.549147 TTCGCCTAAATAGATACCCTGTTAT 57.451 36.000 0.00 0.00 0.00 1.89
3165 7460 7.549147 TCGCCTAAATAGATACCCTGTTATT 57.451 36.000 0.00 0.00 0.00 1.40
3166 7461 8.654485 TCGCCTAAATAGATACCCTGTTATTA 57.346 34.615 0.00 0.00 0.00 0.98
3167 7462 9.263446 TCGCCTAAATAGATACCCTGTTATTAT 57.737 33.333 0.00 0.00 0.00 1.28
3192 7487 6.757897 AATAAATCTTGAAAGATGCCGACA 57.242 33.333 6.32 0.00 44.67 4.35
3193 7488 6.757897 ATAAATCTTGAAAGATGCCGACAA 57.242 33.333 6.32 0.00 44.67 3.18
3194 7489 5.452078 AAATCTTGAAAGATGCCGACAAA 57.548 34.783 6.32 0.00 44.67 2.83
3195 7490 4.691860 ATCTTGAAAGATGCCGACAAAG 57.308 40.909 4.75 0.00 43.81 2.77
3196 7491 3.476552 TCTTGAAAGATGCCGACAAAGT 58.523 40.909 0.00 0.00 0.00 2.66
3197 7492 3.498397 TCTTGAAAGATGCCGACAAAGTC 59.502 43.478 0.00 0.00 0.00 3.01
3198 7493 3.126001 TGAAAGATGCCGACAAAGTCT 57.874 42.857 0.00 0.00 0.00 3.24
3199 7494 3.067106 TGAAAGATGCCGACAAAGTCTC 58.933 45.455 0.00 0.00 0.00 3.36
3200 7495 3.244215 TGAAAGATGCCGACAAAGTCTCT 60.244 43.478 0.00 0.00 0.00 3.10
3201 7496 2.663826 AGATGCCGACAAAGTCTCTC 57.336 50.000 0.00 0.00 0.00 3.20
3202 7497 1.895798 AGATGCCGACAAAGTCTCTCA 59.104 47.619 0.00 0.00 0.00 3.27
3203 7498 2.499289 AGATGCCGACAAAGTCTCTCAT 59.501 45.455 0.00 0.00 0.00 2.90
3204 7499 2.370281 TGCCGACAAAGTCTCTCATC 57.630 50.000 0.00 0.00 0.00 2.92
3205 7500 1.618343 TGCCGACAAAGTCTCTCATCA 59.382 47.619 0.00 0.00 0.00 3.07
3206 7501 2.037121 TGCCGACAAAGTCTCTCATCAA 59.963 45.455 0.00 0.00 0.00 2.57
3207 7502 3.067106 GCCGACAAAGTCTCTCATCAAA 58.933 45.455 0.00 0.00 0.00 2.69
3208 7503 3.498397 GCCGACAAAGTCTCTCATCAAAA 59.502 43.478 0.00 0.00 0.00 2.44
3209 7504 4.154918 GCCGACAAAGTCTCTCATCAAAAT 59.845 41.667 0.00 0.00 0.00 1.82
3210 7505 5.351465 GCCGACAAAGTCTCTCATCAAAATA 59.649 40.000 0.00 0.00 0.00 1.40
3211 7506 6.037610 GCCGACAAAGTCTCTCATCAAAATAT 59.962 38.462 0.00 0.00 0.00 1.28
3212 7507 7.414540 GCCGACAAAGTCTCTCATCAAAATATT 60.415 37.037 0.00 0.00 0.00 1.28
3213 7508 8.454106 CCGACAAAGTCTCTCATCAAAATATTT 58.546 33.333 0.00 0.00 0.00 1.40
3214 7509 9.270576 CGACAAAGTCTCTCATCAAAATATTTG 57.729 33.333 0.39 0.00 0.00 2.32
3219 7514 9.965902 AAGTCTCTCATCAAAATATTTGTAGGT 57.034 29.630 0.39 0.00 0.00 3.08
3234 7529 9.745880 ATATTTGTAGGTAATACGTGTTCAGAG 57.254 33.333 0.00 0.00 37.17 3.35
3235 7530 6.579666 TTGTAGGTAATACGTGTTCAGAGT 57.420 37.500 0.00 0.00 37.17 3.24
3236 7531 5.946298 TGTAGGTAATACGTGTTCAGAGTG 58.054 41.667 0.00 0.00 37.17 3.51
3237 7532 5.474532 TGTAGGTAATACGTGTTCAGAGTGT 59.525 40.000 0.00 0.00 37.17 3.55
3238 7533 6.654582 TGTAGGTAATACGTGTTCAGAGTGTA 59.345 38.462 0.00 0.00 37.17 2.90
3239 7534 6.770746 AGGTAATACGTGTTCAGAGTGTAT 57.229 37.500 0.00 0.00 0.00 2.29
3240 7535 7.870509 AGGTAATACGTGTTCAGAGTGTATA 57.129 36.000 0.00 0.00 0.00 1.47
3241 7536 8.284945 AGGTAATACGTGTTCAGAGTGTATAA 57.715 34.615 0.00 0.00 0.00 0.98
3242 7537 8.404000 AGGTAATACGTGTTCAGAGTGTATAAG 58.596 37.037 0.00 0.00 0.00 1.73
3243 7538 8.400947 GGTAATACGTGTTCAGAGTGTATAAGA 58.599 37.037 0.00 0.00 0.00 2.10
3244 7539 9.947669 GTAATACGTGTTCAGAGTGTATAAGAT 57.052 33.333 0.00 0.00 0.00 2.40
3249 7544 8.784994 ACGTGTTCAGAGTGTATAAGATATAGG 58.215 37.037 0.00 0.00 0.00 2.57
3250 7545 8.784994 CGTGTTCAGAGTGTATAAGATATAGGT 58.215 37.037 0.00 0.00 0.00 3.08
3273 7568 9.379791 AGGTTTCAACATAGCAATAGTAGTTAC 57.620 33.333 0.00 0.00 0.00 2.50
3274 7569 9.158233 GGTTTCAACATAGCAATAGTAGTTACA 57.842 33.333 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.278985 CATCTCCCCACTGCAACTGTA 59.721 52.381 0.00 0.00 0.00 2.74
5 6 0.037303 CATCTCCCCACTGCAACTGT 59.963 55.000 0.00 0.00 0.00 3.55
6 7 0.679002 CCATCTCCCCACTGCAACTG 60.679 60.000 0.00 0.00 0.00 3.16
90 125 9.034544 GTTCAGCTTGTCAAATTGAAACTAATT 57.965 29.630 11.10 0.00 30.43 1.40
233 283 2.668625 CTACACCTCCTCCCCTTACTC 58.331 57.143 0.00 0.00 0.00 2.59
234 284 1.343176 GCTACACCTCCTCCCCTTACT 60.343 57.143 0.00 0.00 0.00 2.24
235 285 1.121378 GCTACACCTCCTCCCCTTAC 58.879 60.000 0.00 0.00 0.00 2.34
236 286 0.031414 GGCTACACCTCCTCCCCTTA 60.031 60.000 0.00 0.00 34.51 2.69
237 287 1.307084 GGCTACACCTCCTCCCCTT 60.307 63.158 0.00 0.00 34.51 3.95
238 288 2.369001 GGCTACACCTCCTCCCCT 59.631 66.667 0.00 0.00 34.51 4.79
239 289 2.768769 GGGCTACACCTCCTCCCC 60.769 72.222 0.00 0.00 39.10 4.81
240 290 3.155167 CGGGCTACACCTCCTCCC 61.155 72.222 0.00 0.00 39.10 4.30
396 2764 1.579932 GTGACGACTTGCCGAGAGA 59.420 57.895 0.00 0.00 0.00 3.10
397 2765 1.444553 GGTGACGACTTGCCGAGAG 60.445 63.158 0.00 0.00 0.00 3.20
428 2879 4.415332 CGGCTGTAGACGCGTGGT 62.415 66.667 20.70 6.13 40.91 4.16
435 3411 2.424733 GGAGGGTCCGGCTGTAGAC 61.425 68.421 0.00 0.00 0.00 2.59
462 3438 4.212425 TGACGGCTACAAACAAAGTGTATG 59.788 41.667 0.00 0.00 31.27 2.39
568 3927 2.763645 AAGAGGCCAACCCGGTGTT 61.764 57.895 5.01 0.95 39.21 3.32
671 4833 6.014327 TCAAGGCTAGCCAAAGAATTGAAAAT 60.014 34.615 34.70 6.54 38.94 1.82
714 4886 2.531771 TCCTACCAAGATTGACCACGA 58.468 47.619 0.00 0.00 0.00 4.35
715 4887 3.328382 TTCCTACCAAGATTGACCACG 57.672 47.619 0.00 0.00 0.00 4.94
730 4902 2.642154 TGGAAGGTTTGCGTTTCCTA 57.358 45.000 4.36 0.00 0.00 2.94
738 4910 7.489574 TTTATGTTGATTTTGGAAGGTTTGC 57.510 32.000 0.00 0.00 0.00 3.68
1089 5267 0.798776 CGCAGTTGTCAGGAATGTCC 59.201 55.000 0.00 0.00 36.58 4.02
1098 5276 1.071814 GTTACCCCCGCAGTTGTCA 59.928 57.895 0.00 0.00 0.00 3.58
1105 5283 4.622260 GGTATTTATAGTTACCCCCGCA 57.378 45.455 3.02 0.00 33.20 5.69
1176 5362 0.892063 AAACAACAAGGTGCGTTGGT 59.108 45.000 7.82 0.00 46.04 3.67
1255 5441 2.036256 GAGTGCAGTGGCCCCATT 59.964 61.111 0.00 0.00 40.13 3.16
1421 5607 1.203287 CGCTCCACTCAACATCAGAGA 59.797 52.381 0.00 0.00 36.91 3.10
1467 5653 3.133691 TGAGTCGATTAATGCATCAGGC 58.866 45.455 0.00 0.00 45.13 4.85
1494 5680 4.709397 AGTGTGTTTTCAACAAGGATGGAA 59.291 37.500 0.00 0.00 44.16 3.53
1513 5699 4.273480 GTGTGTAAGCATGAAGTGAAGTGT 59.727 41.667 0.00 0.00 0.00 3.55
1629 5815 2.430694 CGACATGAGGATAGTGGAACCA 59.569 50.000 0.00 0.00 37.80 3.67
1648 5834 0.911769 AAACTGCCATCCTCCATCGA 59.088 50.000 0.00 0.00 0.00 3.59
1745 5931 4.393990 TGAGTTCGACGACTGTACACATAT 59.606 41.667 0.00 0.00 0.00 1.78
1754 5940 1.986378 GGTTCATGAGTTCGACGACTG 59.014 52.381 0.00 0.00 0.00 3.51
1806 5992 5.312079 CCCTCCATAGATCCAATCAGTTTC 58.688 45.833 0.00 0.00 0.00 2.78
1822 6008 4.736611 AAATGATATCACTGCCCTCCAT 57.263 40.909 7.78 0.00 0.00 3.41
1881 6067 6.360370 AGCTTCTTCCATTGTAGTGTCTTA 57.640 37.500 0.00 0.00 0.00 2.10
2504 6789 6.017400 AGTTGATGTTGCGAGAAAATTGAT 57.983 33.333 0.00 0.00 0.00 2.57
2543 6828 9.759259 GCTACAAATAAAATTTGAAGGCAATTC 57.241 29.630 16.94 0.00 38.50 2.17
2721 7008 3.377439 CCATCATGCAAAACCATCATCG 58.623 45.455 0.00 0.00 0.00 3.84
2855 7149 2.552155 CCCATCAACCTTCAGTTTCCGA 60.552 50.000 0.00 0.00 36.18 4.55
2946 7241 5.751028 CACAATTACCGAACAAACACCAAAT 59.249 36.000 0.00 0.00 0.00 2.32
2991 7286 4.279420 TGTGGCATATAAACACTTTGCACA 59.721 37.500 0.00 0.00 36.16 4.57
2994 7289 4.804108 TGTGTGGCATATAAACACTTTGC 58.196 39.130 13.05 0.00 43.63 3.68
2995 7290 6.310956 CCATTGTGTGGCATATAAACACTTTG 59.689 38.462 13.05 10.64 43.63 2.77
2996 7291 6.397272 CCATTGTGTGGCATATAAACACTTT 58.603 36.000 13.05 2.37 43.63 2.66
2997 7292 5.964758 CCATTGTGTGGCATATAAACACTT 58.035 37.500 13.05 2.62 43.63 3.16
2998 7293 5.581126 CCATTGTGTGGCATATAAACACT 57.419 39.130 13.05 0.00 43.63 3.55
3011 7306 7.697710 CACAGCTATAATTGTTACCATTGTGTG 59.302 37.037 0.00 0.00 0.00 3.82
3012 7307 7.609918 TCACAGCTATAATTGTTACCATTGTGT 59.390 33.333 0.00 0.00 34.34 3.72
3013 7308 7.910162 GTCACAGCTATAATTGTTACCATTGTG 59.090 37.037 0.00 0.00 34.07 3.33
3014 7309 7.829211 AGTCACAGCTATAATTGTTACCATTGT 59.171 33.333 0.00 0.00 0.00 2.71
3015 7310 8.213518 AGTCACAGCTATAATTGTTACCATTG 57.786 34.615 0.00 0.00 0.00 2.82
3016 7311 8.677300 CAAGTCACAGCTATAATTGTTACCATT 58.323 33.333 0.00 0.00 0.00 3.16
3017 7312 7.201732 GCAAGTCACAGCTATAATTGTTACCAT 60.202 37.037 0.00 0.00 0.00 3.55
3018 7313 6.093495 GCAAGTCACAGCTATAATTGTTACCA 59.907 38.462 0.00 0.00 0.00 3.25
3019 7314 6.093495 TGCAAGTCACAGCTATAATTGTTACC 59.907 38.462 0.00 0.00 0.00 2.85
3020 7315 7.072177 TGCAAGTCACAGCTATAATTGTTAC 57.928 36.000 0.00 0.00 0.00 2.50
3021 7316 7.307493 CTGCAAGTCACAGCTATAATTGTTA 57.693 36.000 0.00 0.00 0.00 2.41
3022 7317 6.187125 CTGCAAGTCACAGCTATAATTGTT 57.813 37.500 0.00 0.00 0.00 2.83
3023 7318 5.808042 CTGCAAGTCACAGCTATAATTGT 57.192 39.130 0.00 0.00 0.00 2.71
3033 7328 1.526686 TGGGTGCTGCAAGTCACAG 60.527 57.895 2.77 0.00 40.93 3.66
3034 7329 1.823470 GTGGGTGCTGCAAGTCACA 60.823 57.895 19.35 7.73 40.93 3.58
3035 7330 1.823470 TGTGGGTGCTGCAAGTCAC 60.823 57.895 18.18 18.18 39.28 3.67
3036 7331 1.823470 GTGTGGGTGCTGCAAGTCA 60.823 57.895 2.77 0.00 35.30 3.41
3037 7332 1.823470 TGTGTGGGTGCTGCAAGTC 60.823 57.895 2.77 0.00 35.30 3.01
3038 7333 2.120909 GTGTGTGGGTGCTGCAAGT 61.121 57.895 2.77 0.00 35.30 3.16
3039 7334 2.120282 TGTGTGTGGGTGCTGCAAG 61.120 57.895 2.77 0.00 0.00 4.01
3040 7335 2.044551 TGTGTGTGGGTGCTGCAA 60.045 55.556 2.77 0.00 0.00 4.08
3041 7336 2.828095 GTGTGTGTGGGTGCTGCA 60.828 61.111 0.00 0.00 0.00 4.41
3042 7337 1.943116 TTTGTGTGTGTGGGTGCTGC 61.943 55.000 0.00 0.00 0.00 5.25
3043 7338 0.529833 TTTTGTGTGTGTGGGTGCTG 59.470 50.000 0.00 0.00 0.00 4.41
3044 7339 1.261480 TTTTTGTGTGTGTGGGTGCT 58.739 45.000 0.00 0.00 0.00 4.40
3045 7340 3.822607 TTTTTGTGTGTGTGGGTGC 57.177 47.368 0.00 0.00 0.00 5.01
3062 7357 8.370940 TCATAGACTTGACATGACTCTCTTTTT 58.629 33.333 0.00 0.00 0.00 1.94
3063 7358 7.901029 TCATAGACTTGACATGACTCTCTTTT 58.099 34.615 0.00 0.00 0.00 2.27
3064 7359 7.473735 TCATAGACTTGACATGACTCTCTTT 57.526 36.000 0.00 0.00 0.00 2.52
3065 7360 6.405731 GCTCATAGACTTGACATGACTCTCTT 60.406 42.308 0.00 0.00 0.00 2.85
3066 7361 5.067674 GCTCATAGACTTGACATGACTCTCT 59.932 44.000 0.00 0.00 0.00 3.10
3067 7362 5.163571 TGCTCATAGACTTGACATGACTCTC 60.164 44.000 0.00 0.00 0.00 3.20
3068 7363 4.708909 TGCTCATAGACTTGACATGACTCT 59.291 41.667 0.00 0.00 0.00 3.24
3069 7364 5.003692 TGCTCATAGACTTGACATGACTC 57.996 43.478 0.00 0.00 0.00 3.36
3070 7365 5.358090 CATGCTCATAGACTTGACATGACT 58.642 41.667 0.00 0.00 37.34 3.41
3071 7366 4.510711 CCATGCTCATAGACTTGACATGAC 59.489 45.833 0.00 0.00 37.34 3.06
3072 7367 4.162888 ACCATGCTCATAGACTTGACATGA 59.837 41.667 0.00 7.87 37.34 3.07
3073 7368 4.449131 ACCATGCTCATAGACTTGACATG 58.551 43.478 0.00 0.00 36.27 3.21
3074 7369 4.767578 ACCATGCTCATAGACTTGACAT 57.232 40.909 0.00 0.00 0.00 3.06
3075 7370 5.675684 TTACCATGCTCATAGACTTGACA 57.324 39.130 0.00 0.00 0.00 3.58
3076 7371 5.874810 TGTTTACCATGCTCATAGACTTGAC 59.125 40.000 0.00 0.00 0.00 3.18
3077 7372 6.048732 TGTTTACCATGCTCATAGACTTGA 57.951 37.500 0.00 0.00 0.00 3.02
3078 7373 6.722301 CATGTTTACCATGCTCATAGACTTG 58.278 40.000 0.00 0.00 44.21 3.16
3079 7374 6.932356 CATGTTTACCATGCTCATAGACTT 57.068 37.500 0.00 0.00 44.21 3.01
3096 7391 9.377312 GGCACCATGTTATTTATTTACATGTTT 57.623 29.630 2.30 0.00 44.72 2.83
3097 7392 8.757877 AGGCACCATGTTATTTATTTACATGTT 58.242 29.630 2.30 0.00 44.72 2.71
3098 7393 8.305046 AGGCACCATGTTATTTATTTACATGT 57.695 30.769 2.69 2.69 44.72 3.21
3099 7394 9.248291 GAAGGCACCATGTTATTTATTTACATG 57.752 33.333 0.00 0.00 45.40 3.21
3100 7395 9.200817 AGAAGGCACCATGTTATTTATTTACAT 57.799 29.630 0.00 0.00 32.98 2.29
3101 7396 8.588290 AGAAGGCACCATGTTATTTATTTACA 57.412 30.769 0.00 0.00 0.00 2.41
3102 7397 8.903820 AGAGAAGGCACCATGTTATTTATTTAC 58.096 33.333 0.00 0.00 0.00 2.01
3103 7398 9.474313 AAGAGAAGGCACCATGTTATTTATTTA 57.526 29.630 0.00 0.00 0.00 1.40
3104 7399 7.961326 AGAGAAGGCACCATGTTATTTATTT 57.039 32.000 0.00 0.00 0.00 1.40
3105 7400 7.397192 ACAAGAGAAGGCACCATGTTATTTATT 59.603 33.333 0.00 0.00 0.00 1.40
3106 7401 6.891908 ACAAGAGAAGGCACCATGTTATTTAT 59.108 34.615 0.00 0.00 0.00 1.40
3107 7402 6.245408 ACAAGAGAAGGCACCATGTTATTTA 58.755 36.000 0.00 0.00 0.00 1.40
3108 7403 5.079643 ACAAGAGAAGGCACCATGTTATTT 58.920 37.500 0.00 0.00 0.00 1.40
3109 7404 4.666512 ACAAGAGAAGGCACCATGTTATT 58.333 39.130 0.00 0.00 0.00 1.40
3110 7405 4.307032 ACAAGAGAAGGCACCATGTTAT 57.693 40.909 0.00 0.00 0.00 1.89
3111 7406 3.788227 ACAAGAGAAGGCACCATGTTA 57.212 42.857 0.00 0.00 0.00 2.41
3112 7407 2.624838 CAACAAGAGAAGGCACCATGTT 59.375 45.455 0.00 0.00 0.00 2.71
3113 7408 2.233271 CAACAAGAGAAGGCACCATGT 58.767 47.619 0.00 0.00 0.00 3.21
3114 7409 2.030540 CACAACAAGAGAAGGCACCATG 60.031 50.000 0.00 0.00 0.00 3.66
3115 7410 2.158623 TCACAACAAGAGAAGGCACCAT 60.159 45.455 0.00 0.00 0.00 3.55
3116 7411 1.211703 TCACAACAAGAGAAGGCACCA 59.788 47.619 0.00 0.00 0.00 4.17
3117 7412 1.967319 TCACAACAAGAGAAGGCACC 58.033 50.000 0.00 0.00 0.00 5.01
3118 7413 4.574599 AATTCACAACAAGAGAAGGCAC 57.425 40.909 0.00 0.00 30.30 5.01
3119 7414 5.591099 GAAAATTCACAACAAGAGAAGGCA 58.409 37.500 0.00 0.00 30.30 4.75
3120 7415 4.676924 CGAAAATTCACAACAAGAGAAGGC 59.323 41.667 0.00 0.00 30.30 4.35
3121 7416 4.676924 GCGAAAATTCACAACAAGAGAAGG 59.323 41.667 0.00 0.00 30.30 3.46
3122 7417 4.676924 GGCGAAAATTCACAACAAGAGAAG 59.323 41.667 0.00 0.00 30.30 2.85
3123 7418 4.338118 AGGCGAAAATTCACAACAAGAGAA 59.662 37.500 0.00 0.00 0.00 2.87
3124 7419 3.882888 AGGCGAAAATTCACAACAAGAGA 59.117 39.130 0.00 0.00 0.00 3.10
3125 7420 4.228912 AGGCGAAAATTCACAACAAGAG 57.771 40.909 0.00 0.00 0.00 2.85
3126 7421 5.759506 TTAGGCGAAAATTCACAACAAGA 57.240 34.783 0.00 0.00 0.00 3.02
3127 7422 8.020819 TCTATTTAGGCGAAAATTCACAACAAG 58.979 33.333 6.24 0.00 31.63 3.16
3128 7423 7.877003 TCTATTTAGGCGAAAATTCACAACAA 58.123 30.769 6.24 0.00 31.63 2.83
3129 7424 7.441890 TCTATTTAGGCGAAAATTCACAACA 57.558 32.000 6.24 0.00 31.63 3.33
3130 7425 9.434559 GTATCTATTTAGGCGAAAATTCACAAC 57.565 33.333 6.24 0.00 31.63 3.32
3131 7426 8.617809 GGTATCTATTTAGGCGAAAATTCACAA 58.382 33.333 6.24 0.00 31.63 3.33
3132 7427 7.227910 GGGTATCTATTTAGGCGAAAATTCACA 59.772 37.037 6.24 0.00 31.63 3.58
3133 7428 7.444487 AGGGTATCTATTTAGGCGAAAATTCAC 59.556 37.037 6.24 0.00 31.63 3.18
3134 7429 7.444183 CAGGGTATCTATTTAGGCGAAAATTCA 59.556 37.037 6.24 0.00 31.63 2.57
3135 7430 7.444487 ACAGGGTATCTATTTAGGCGAAAATTC 59.556 37.037 6.24 0.00 31.63 2.17
3136 7431 7.287810 ACAGGGTATCTATTTAGGCGAAAATT 58.712 34.615 6.24 0.00 31.63 1.82
3137 7432 6.838382 ACAGGGTATCTATTTAGGCGAAAAT 58.162 36.000 0.00 1.74 33.69 1.82
3138 7433 6.243216 ACAGGGTATCTATTTAGGCGAAAA 57.757 37.500 0.00 0.00 0.00 2.29
3139 7434 5.881923 ACAGGGTATCTATTTAGGCGAAA 57.118 39.130 0.00 0.00 0.00 3.46
3140 7435 5.881923 AACAGGGTATCTATTTAGGCGAA 57.118 39.130 0.00 0.00 0.00 4.70
3141 7436 7.549147 AATAACAGGGTATCTATTTAGGCGA 57.451 36.000 0.00 0.00 0.00 5.54
3166 7461 8.902806 TGTCGGCATCTTTCAAGATTTATTTAT 58.097 29.630 0.00 0.00 42.96 1.40
3167 7462 8.275015 TGTCGGCATCTTTCAAGATTTATTTA 57.725 30.769 0.00 0.00 42.96 1.40
3168 7463 7.156876 TGTCGGCATCTTTCAAGATTTATTT 57.843 32.000 0.00 0.00 42.96 1.40
3169 7464 6.757897 TGTCGGCATCTTTCAAGATTTATT 57.242 33.333 0.00 0.00 42.96 1.40
3170 7465 6.757897 TTGTCGGCATCTTTCAAGATTTAT 57.242 33.333 0.00 0.00 42.96 1.40
3171 7466 6.206634 ACTTTGTCGGCATCTTTCAAGATTTA 59.793 34.615 4.02 0.00 42.96 1.40
3172 7467 5.010012 ACTTTGTCGGCATCTTTCAAGATTT 59.990 36.000 4.02 0.00 42.96 2.17
3173 7468 4.520492 ACTTTGTCGGCATCTTTCAAGATT 59.480 37.500 4.02 0.00 42.96 2.40
3174 7469 4.074970 ACTTTGTCGGCATCTTTCAAGAT 58.925 39.130 4.02 0.00 46.30 2.40
3175 7470 3.476552 ACTTTGTCGGCATCTTTCAAGA 58.523 40.909 4.02 0.00 39.78 3.02
3176 7471 3.499918 AGACTTTGTCGGCATCTTTCAAG 59.500 43.478 0.00 0.00 37.67 3.02
3177 7472 3.476552 AGACTTTGTCGGCATCTTTCAA 58.523 40.909 0.00 0.00 37.67 2.69
3178 7473 3.067106 GAGACTTTGTCGGCATCTTTCA 58.933 45.455 0.00 0.00 37.67 2.69
3179 7474 3.330267 AGAGACTTTGTCGGCATCTTTC 58.670 45.455 0.00 0.00 37.67 2.62
3180 7475 3.244215 TGAGAGACTTTGTCGGCATCTTT 60.244 43.478 0.00 0.00 37.67 2.52
3181 7476 2.300152 TGAGAGACTTTGTCGGCATCTT 59.700 45.455 0.00 0.00 37.67 2.40
3182 7477 1.895798 TGAGAGACTTTGTCGGCATCT 59.104 47.619 0.00 0.00 37.67 2.90
3183 7478 2.370281 TGAGAGACTTTGTCGGCATC 57.630 50.000 0.00 0.00 37.67 3.91
3184 7479 2.234661 TGATGAGAGACTTTGTCGGCAT 59.765 45.455 0.00 0.00 37.67 4.40
3185 7480 1.618343 TGATGAGAGACTTTGTCGGCA 59.382 47.619 0.00 0.00 37.67 5.69
3186 7481 2.370281 TGATGAGAGACTTTGTCGGC 57.630 50.000 0.00 0.00 37.67 5.54
3187 7482 5.869753 ATTTTGATGAGAGACTTTGTCGG 57.130 39.130 0.00 0.00 37.67 4.79
3188 7483 9.270576 CAAATATTTTGATGAGAGACTTTGTCG 57.729 33.333 0.00 0.00 37.67 4.35
3193 7488 9.965902 ACCTACAAATATTTTGATGAGAGACTT 57.034 29.630 6.96 0.00 0.00 3.01
3208 7503 9.745880 CTCTGAACACGTATTACCTACAAATAT 57.254 33.333 0.00 0.00 0.00 1.28
3209 7504 8.742777 ACTCTGAACACGTATTACCTACAAATA 58.257 33.333 0.00 0.00 0.00 1.40
3210 7505 7.544566 CACTCTGAACACGTATTACCTACAAAT 59.455 37.037 0.00 0.00 0.00 2.32
3211 7506 6.864685 CACTCTGAACACGTATTACCTACAAA 59.135 38.462 0.00 0.00 0.00 2.83
3212 7507 6.016024 ACACTCTGAACACGTATTACCTACAA 60.016 38.462 0.00 0.00 0.00 2.41
3213 7508 5.474532 ACACTCTGAACACGTATTACCTACA 59.525 40.000 0.00 0.00 0.00 2.74
3214 7509 5.947443 ACACTCTGAACACGTATTACCTAC 58.053 41.667 0.00 0.00 0.00 3.18
3215 7510 7.870509 ATACACTCTGAACACGTATTACCTA 57.129 36.000 0.00 0.00 0.00 3.08
3216 7511 6.770746 ATACACTCTGAACACGTATTACCT 57.229 37.500 0.00 0.00 0.00 3.08
3217 7512 8.400947 TCTTATACACTCTGAACACGTATTACC 58.599 37.037 0.00 0.00 0.00 2.85
3218 7513 9.947669 ATCTTATACACTCTGAACACGTATTAC 57.052 33.333 0.00 0.00 0.00 1.89
3223 7518 8.784994 CCTATATCTTATACACTCTGAACACGT 58.215 37.037 0.00 0.00 0.00 4.49
3224 7519 8.784994 ACCTATATCTTATACACTCTGAACACG 58.215 37.037 0.00 0.00 0.00 4.49
3247 7542 9.379791 GTAACTACTATTGCTATGTTGAAACCT 57.620 33.333 0.00 0.00 0.00 3.50
3248 7543 9.158233 TGTAACTACTATTGCTATGTTGAAACC 57.842 33.333 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.