Multiple sequence alignment - TraesCS3B01G017300

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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 TraesCS3B01G017300 chr3B 100.000 5303 0 0 1 5303 7180239 7185541 0.000000e+00 9793.0
1 TraesCS3B01G017300 chr3B 81.890 1016 129 28 40 1034 7133016 7133997 0.000000e+00 806.0
2 TraesCS3B01G017300 chr3B 86.875 320 38 4 3992 4310 7302837 7303153 6.530000e-94 355.0
3 TraesCS3B01G017300 chr3B 85.890 326 30 9 847 1171 7112063 7112373 3.060000e-87 333.0
4 TraesCS3B01G017300 chr3B 86.316 285 25 9 825 1095 7107682 7107966 1.120000e-76 298.0
5 TraesCS3B01G017300 chr3B 85.085 295 26 12 817 1095 7139692 7139984 8.690000e-73 285.0
6 TraesCS3B01G017300 chr3B 89.623 212 20 2 3044 3255 7306479 7306688 8.750000e-68 268.0
7 TraesCS3B01G017300 chr3B 82.209 326 28 13 846 1163 7144287 7144590 2.450000e-63 254.0
8 TraesCS3B01G017300 chr3B 80.734 327 52 9 3989 4313 7234413 7234730 1.480000e-60 244.0
9 TraesCS3B01G017300 chr3B 81.754 285 30 12 825 1095 7103030 7103306 8.940000e-53 219.0
10 TraesCS3B01G017300 chr3B 86.207 203 18 7 3081 3280 7309010 7309205 1.500000e-50 211.0
11 TraesCS3B01G017300 chr3B 77.922 308 57 8 855 1152 7087706 7088012 1.170000e-41 182.0
12 TraesCS3B01G017300 chr3B 76.398 322 61 10 846 1153 7134415 7134735 5.500000e-35 159.0
13 TraesCS3B01G017300 chr3B 84.242 165 23 2 4337 4501 7235083 7235244 1.980000e-34 158.0
14 TraesCS3B01G017300 chr3B 87.597 129 9 5 3140 3266 7287655 7287778 5.540000e-30 143.0
15 TraesCS3B01G017300 chr3B 90.385 104 10 0 3044 3147 7281422 7281525 2.580000e-28 137.0
16 TraesCS3B01G017300 chr3B 91.026 78 7 0 5035 5112 7289945 7290022 7.260000e-19 106.0
17 TraesCS3B01G017300 chr3B 78.528 163 29 5 1502 1658 343015 343177 9.400000e-18 102.0
18 TraesCS3B01G017300 chr3B 97.561 41 1 0 1131 1171 7138667 7138707 2.650000e-08 71.3
19 TraesCS3B01G017300 chr3A 93.551 3039 137 26 1502 4510 14038869 14041878 0.000000e+00 4471.0
20 TraesCS3B01G017300 chr3A 86.186 485 53 7 4824 5299 14042081 14042560 3.660000e-141 512.0
21 TraesCS3B01G017300 chr3A 86.788 386 33 5 803 1171 14038354 14038738 1.060000e-111 414.0
22 TraesCS3B01G017300 chr3A 84.615 338 25 12 809 1139 13949167 13949484 1.430000e-80 311.0
23 TraesCS3B01G017300 chr3A 84.192 291 23 10 817 1093 13931699 13931980 1.460000e-65 261.0
24 TraesCS3B01G017300 chr3A 81.470 313 41 13 3013 3315 14161375 14161680 1.910000e-59 241.0
25 TraesCS3B01G017300 chr3A 76.923 429 76 15 4659 5081 14053730 14054141 6.910000e-54 222.0
26 TraesCS3B01G017300 chr3A 92.913 127 5 4 3112 3237 14081125 14081248 1.170000e-41 182.0
27 TraesCS3B01G017300 chr3A 76.266 316 61 10 846 1153 13965896 13966205 7.110000e-34 156.0
28 TraesCS3B01G017300 chr3A 95.455 66 3 0 5042 5107 14160732 14160797 7.260000e-19 106.0
29 TraesCS3B01G017300 chr3A 92.958 71 5 0 5042 5112 14082028 14082098 2.610000e-18 104.0
30 TraesCS3B01G017300 chr3A 89.041 73 7 1 811 882 13930277 13930349 7.310000e-14 89.8
31 TraesCS3B01G017300 chr3A 100.000 34 0 0 4337 4370 14053432 14053465 4.430000e-06 63.9
32 TraesCS3B01G017300 chr3D 90.422 2892 157 32 804 3624 6345221 6342379 0.000000e+00 3696.0
33 TraesCS3B01G017300 chr3D 95.222 900 39 2 3615 4510 6340959 6340060 0.000000e+00 1421.0
34 TraesCS3B01G017300 chr3D 89.525 611 48 4 4707 5303 6339946 6339338 0.000000e+00 760.0
35 TraesCS3B01G017300 chr3D 83.080 591 75 17 3583 4172 6306045 6305479 1.020000e-141 514.0
36 TraesCS3B01G017300 chr3D 83.641 379 41 13 810 1171 6348661 6348287 2.370000e-88 337.0
37 TraesCS3B01G017300 chr3D 82.911 316 40 10 3013 3318 6225005 6224694 6.770000e-69 272.0
38 TraesCS3B01G017300 chr3D 88.341 223 23 3 3044 3266 6226624 6226405 1.130000e-66 265.0
39 TraesCS3B01G017300 chr3D 86.008 243 30 3 3358 3597 6306422 6306181 1.890000e-64 257.0
40 TraesCS3B01G017300 chr3D 95.122 41 2 0 1131 1171 6394742 6394702 1.230000e-06 65.8
41 TraesCS3B01G017300 chr6B 84.259 108 17 0 4089 4196 42570607 42570500 7.260000e-19 106.0
42 TraesCS3B01G017300 chr1D 84.694 98 13 2 614 711 81171946 81172041 4.370000e-16 97.1
43 TraesCS3B01G017300 chrUn 84.694 98 12 3 613 709 225540477 225540382 1.570000e-15 95.3
44 TraesCS3B01G017300 chrUn 85.870 92 10 3 613 703 271361042 271361131 1.570000e-15 95.3
45 TraesCS3B01G017300 chrUn 84.694 98 12 3 613 709 396544110 396544015 1.570000e-15 95.3
46 TraesCS3B01G017300 chrUn 85.870 92 10 3 613 703 415802759 415802848 1.570000e-15 95.3
47 TraesCS3B01G017300 chrUn 85.870 92 10 3 613 703 415803649 415803738 1.570000e-15 95.3
48 TraesCS3B01G017300 chrUn 85.870 92 10 3 613 703 445414951 445415040 1.570000e-15 95.3
49 TraesCS3B01G017300 chr7A 84.694 98 12 3 613 709 5781564 5781469 1.570000e-15 95.3
50 TraesCS3B01G017300 chr5A 91.071 56 5 0 3675 3730 606359417 606359472 5.690000e-10 76.8


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 TraesCS3B01G017300 chr3B 7180239 7185541 5302 False 9793.000 9793 100.000000 1 5303 1 chr3B.!!$F7 5302
1 TraesCS3B01G017300 chr3B 7133016 7139984 6968 False 330.325 806 85.233500 40 1171 4 chr3B.!!$F9 1131
2 TraesCS3B01G017300 chr3B 7302837 7309205 6368 False 278.000 355 87.568333 3044 4310 3 chr3B.!!$F12 1266
3 TraesCS3B01G017300 chr3B 7234413 7235244 831 False 201.000 244 82.488000 3989 4501 2 chr3B.!!$F10 512
4 TraesCS3B01G017300 chr3A 14038354 14042560 4206 False 1799.000 4471 88.841667 803 5299 3 chr3A.!!$F4 4496
5 TraesCS3B01G017300 chr3D 6339338 6348661 9323 True 1553.500 3696 89.702500 804 5303 4 chr3D.!!$R4 4499
6 TraesCS3B01G017300 chr3D 6305479 6306422 943 True 385.500 514 84.544000 3358 4172 2 chr3D.!!$R3 814
7 TraesCS3B01G017300 chr3D 6224694 6226624 1930 True 268.500 272 85.626000 3013 3318 2 chr3D.!!$R2 305

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
82 84 0.253044 CATCCCAGACCGACACCAAT 59.747 55.000 0.00 0.00 0.00 3.16 F
1163 8403 0.320508 GAACGAGAGGCGAGGGTTTT 60.321 55.000 0.00 0.00 44.57 2.43 F
1192 8452 0.533032 CGGTTTCCCTCTGGAGAGTC 59.467 60.000 3.03 0.00 43.07 3.36 F
1354 8639 0.607489 CCACCTTGAGGCAAGACTGG 60.607 60.000 8.64 8.56 43.42 4.00 F
1750 9037 0.693049 TGGAGAAGAAAGGGCTCACC 59.307 55.000 0.00 0.00 40.67 4.02 F
2559 9852 1.550524 AGCCTTACGCATCAGTTCAGA 59.449 47.619 0.00 0.00 41.38 3.27 F
3921 13547 1.064091 GGTTCTCCTCCGTACTACCCT 60.064 57.143 0.00 0.00 0.00 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1335 8596 0.607489 CCAGTCTTGCCTCAAGGTGG 60.607 60.000 6.71 9.6 41.33 4.61 R
2047 9339 1.078497 TGTGCAAGGCATAGACCGG 60.078 57.895 0.00 0.0 41.91 5.28 R
2049 9341 1.089920 CTGTGTGCAAGGCATAGACC 58.910 55.000 0.00 0.0 41.91 3.85 R
2600 9893 1.280710 TGTGTCTGTGTTTGTGGGACT 59.719 47.619 0.00 0.0 0.00 3.85 R
3542 11589 0.862490 TTGGCGTCGTTGTGTACATG 59.138 50.000 0.00 0.0 0.00 3.21 R
4176 13809 1.003580 ACACCGTCCATCTGCTCATTT 59.996 47.619 0.00 0.0 0.00 2.32 R
5085 15598 0.036388 TTGCTCGACCCATGTTCCTC 60.036 55.000 0.00 0.0 0.00 3.71 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
18 19 2.203294 AACACCAAGTCCACGGCC 60.203 61.111 0.00 0.00 0.00 6.13
36 37 2.741985 TGCGCATTGGTCCGACAG 60.742 61.111 5.66 0.00 0.00 3.51
38 39 2.740714 GCGCATTGGTCCGACAGTC 61.741 63.158 0.30 0.00 0.00 3.51
82 84 0.253044 CATCCCAGACCGACACCAAT 59.747 55.000 0.00 0.00 0.00 3.16
84 86 1.125093 TCCCAGACCGACACCAATGT 61.125 55.000 0.00 0.00 43.71 2.71
90 92 3.751175 CAGACCGACACCAATGTTACAAT 59.249 43.478 0.00 0.00 39.95 2.71
105 108 7.840342 ATGTTACAATGAGAAGATGACTCAC 57.160 36.000 0.00 0.00 45.19 3.51
117 120 0.828022 TGACTCACCAACCAAGTCGT 59.172 50.000 0.00 0.00 41.84 4.34
142 145 1.677552 CCACCTTAGCTTGACCGGT 59.322 57.895 6.92 6.92 0.00 5.28
164 167 2.152016 GCAACCTAAAGCCGAGAAGTT 58.848 47.619 0.00 0.00 0.00 2.66
165 168 2.159824 GCAACCTAAAGCCGAGAAGTTC 59.840 50.000 0.00 0.00 0.00 3.01
182 185 0.400213 TTCGACTCCAAGGTGGCAAT 59.600 50.000 0.00 0.00 37.47 3.56
231 234 0.918983 CCCTTGGCAGGAGAACCATA 59.081 55.000 0.00 0.00 44.19 2.74
292 295 1.414919 ACTGCCGACACAAGAACCTAA 59.585 47.619 0.00 0.00 0.00 2.69
298 301 2.152489 CGACACAAGAACCTAAACGACG 59.848 50.000 0.00 0.00 0.00 5.12
300 303 2.861935 ACACAAGAACCTAAACGACGTG 59.138 45.455 0.00 0.00 0.00 4.49
301 304 2.220133 CACAAGAACCTAAACGACGTGG 59.780 50.000 0.00 0.45 0.00 4.94
302 305 1.796459 CAAGAACCTAAACGACGTGGG 59.204 52.381 0.00 7.30 0.00 4.61
303 306 1.331214 AGAACCTAAACGACGTGGGA 58.669 50.000 17.74 0.29 0.00 4.37
306 309 1.447314 CCTAAACGACGTGGGAGCC 60.447 63.158 0.00 0.00 0.00 4.70
307 310 1.804326 CTAAACGACGTGGGAGCCG 60.804 63.158 0.00 0.00 0.00 5.52
323 326 2.115266 CGCCCCAACAAGAGGGTT 59.885 61.111 0.00 0.00 45.95 4.11
398 401 4.864334 CCGGCATCCAGCTCACCC 62.864 72.222 0.00 0.00 44.79 4.61
422 425 4.641645 CCCTGCACCCTGTCGCAA 62.642 66.667 0.00 0.00 37.76 4.85
468 472 2.124570 ATGAGCGTGCCACCCATC 60.125 61.111 0.00 0.00 0.00 3.51
493 497 4.248842 CCTCCACGCCACCACACA 62.249 66.667 0.00 0.00 0.00 3.72
500 504 2.357517 GCCACCACACAGAGTCGG 60.358 66.667 0.00 0.00 0.00 4.79
523 527 2.670592 TCGTCGCAGGACCTCGAA 60.671 61.111 14.87 2.00 40.17 3.71
525 529 2.963371 GTCGCAGGACCTCGAAGT 59.037 61.111 14.87 0.00 37.19 3.01
531 535 2.126031 GGACCTCGAAGTCACGCC 60.126 66.667 15.75 0.00 38.59 5.68
532 536 2.504244 GACCTCGAAGTCACGCCG 60.504 66.667 9.32 0.00 36.73 6.46
535 539 2.870161 CTCGAAGTCACGCCGTCG 60.870 66.667 0.00 0.00 42.43 5.12
552 556 4.070552 GCGCCCCTCGTCTGAACT 62.071 66.667 0.00 0.00 41.07 3.01
554 558 2.435059 GCCCCTCGTCTGAACTGC 60.435 66.667 0.00 0.00 0.00 4.40
555 559 3.059982 CCCCTCGTCTGAACTGCA 58.940 61.111 0.00 0.00 0.00 4.41
557 561 1.668294 CCCTCGTCTGAACTGCACT 59.332 57.895 0.00 0.00 0.00 4.40
563 567 2.667536 CTGAACTGCACTGCCGCT 60.668 61.111 0.00 0.00 0.00 5.52
611 616 3.430862 CCACCGCCATCACCAACG 61.431 66.667 0.00 0.00 0.00 4.10
628 660 4.222847 GGGCGGCGAGGGAGTAAG 62.223 72.222 12.98 0.00 0.00 2.34
641 673 3.330998 AGGGAGTAAGAAAAAGGGTGGAG 59.669 47.826 0.00 0.00 0.00 3.86
774 806 8.918202 TTCTACTCTAGCCAATTTCTTTTTGA 57.082 30.769 0.00 0.00 0.00 2.69
777 809 9.965824 CTACTCTAGCCAATTTCTTTTTGAAAA 57.034 29.630 0.00 0.00 46.32 2.29
993 3659 2.281139 TTGATGCGGCCGTGAACA 60.281 55.556 28.70 16.76 0.00 3.18
1055 4342 2.590859 GATTCCTAACCCGCCGGC 60.591 66.667 19.07 19.07 0.00 6.13
1163 8403 0.320508 GAACGAGAGGCGAGGGTTTT 60.321 55.000 0.00 0.00 44.57 2.43
1192 8452 0.533032 CGGTTTCCCTCTGGAGAGTC 59.467 60.000 3.03 0.00 43.07 3.36
1195 8455 2.104170 GTTTCCCTCTGGAGAGTCGAT 58.896 52.381 3.03 0.00 43.07 3.59
1236 8496 5.672856 GTCAGATTGATGCGAATCGTAAAAC 59.327 40.000 4.07 0.00 37.41 2.43
1293 8554 2.094182 TGATTCGTGGTTGTCTAGCTCC 60.094 50.000 0.00 0.00 0.00 4.70
1314 8575 2.484264 CGGTGACTTTTTCCATGGAGAC 59.516 50.000 15.53 4.44 0.00 3.36
1332 8593 2.437281 AGACAAGGCTATGGACTGGATG 59.563 50.000 0.00 0.00 0.00 3.51
1335 8596 1.055040 AGGCTATGGACTGGATGCTC 58.945 55.000 0.00 0.00 0.00 4.26
1340 8625 0.622738 ATGGACTGGATGCTCCACCT 60.623 55.000 0.00 0.00 42.67 4.00
1350 8635 1.376466 GCTCCACCTTGAGGCAAGA 59.624 57.895 8.64 0.00 43.42 3.02
1354 8639 0.607489 CCACCTTGAGGCAAGACTGG 60.607 60.000 8.64 8.56 43.42 4.00
1360 8645 3.575687 CCTTGAGGCAAGACTGGAAATTT 59.424 43.478 8.64 0.00 43.42 1.82
1361 8646 4.039609 CCTTGAGGCAAGACTGGAAATTTT 59.960 41.667 8.64 0.00 43.42 1.82
1362 8647 5.243730 CCTTGAGGCAAGACTGGAAATTTTA 59.756 40.000 8.64 0.00 43.42 1.52
1363 8648 5.964958 TGAGGCAAGACTGGAAATTTTAG 57.035 39.130 0.00 0.00 0.00 1.85
1364 8649 5.630121 TGAGGCAAGACTGGAAATTTTAGA 58.370 37.500 9.55 0.00 0.00 2.10
1365 8650 6.068010 TGAGGCAAGACTGGAAATTTTAGAA 58.932 36.000 9.55 0.00 0.00 2.10
1366 8651 6.207417 TGAGGCAAGACTGGAAATTTTAGAAG 59.793 38.462 9.55 1.11 0.00 2.85
1368 8653 6.551227 AGGCAAGACTGGAAATTTTAGAAGTT 59.449 34.615 9.55 0.00 0.00 2.66
1369 8654 7.069950 AGGCAAGACTGGAAATTTTAGAAGTTT 59.930 33.333 9.55 0.00 0.00 2.66
1370 8655 8.357402 GGCAAGACTGGAAATTTTAGAAGTTTA 58.643 33.333 9.55 0.00 0.00 2.01
1439 8724 8.137437 CCCTAATTGTGGTTTAAAGCATCATAG 58.863 37.037 21.88 18.75 38.81 2.23
1489 8774 6.800072 AATTGTTTTCCCCAAGAGTTGTAA 57.200 33.333 0.00 0.00 0.00 2.41
1516 8801 5.361857 GGTCAATCCCTGATGTTGAATGATT 59.638 40.000 0.00 0.00 36.14 2.57
1750 9037 0.693049 TGGAGAAGAAAGGGCTCACC 59.307 55.000 0.00 0.00 40.67 4.02
1801 9088 4.094442 CGGGTTCCTGTAAGTTGCTATTTC 59.906 45.833 0.00 0.00 0.00 2.17
1827 9115 2.817258 CCACCTCCGCTTGAATGTTTAA 59.183 45.455 0.00 0.00 0.00 1.52
1846 9135 8.383318 TGTTTAACTGAGAAAATGAGAAGAGG 57.617 34.615 0.00 0.00 0.00 3.69
1847 9136 7.445402 TGTTTAACTGAGAAAATGAGAAGAGGG 59.555 37.037 0.00 0.00 0.00 4.30
1857 9146 3.753294 TGAGAAGAGGGTCAAGTGTTC 57.247 47.619 0.00 0.00 0.00 3.18
1858 9147 2.368875 TGAGAAGAGGGTCAAGTGTTCC 59.631 50.000 0.00 0.00 0.00 3.62
1859 9148 2.635427 GAGAAGAGGGTCAAGTGTTCCT 59.365 50.000 0.00 0.00 0.00 3.36
1973 9263 7.377766 TGAATGGTTGAGCTAATGAAGTAAC 57.622 36.000 0.00 0.00 0.00 2.50
1986 9276 6.535274 AATGAAGTAACGGTTTACAGTGAC 57.465 37.500 0.00 0.00 40.25 3.67
1990 9280 5.204409 AGTAACGGTTTACAGTGACATCA 57.796 39.130 0.00 0.00 40.25 3.07
1993 9283 4.265904 ACGGTTTACAGTGACATCATCA 57.734 40.909 0.00 0.00 33.79 3.07
2049 9341 6.230472 TGGATGGATCTTTACATAATGTCCG 58.770 40.000 0.00 0.00 0.00 4.79
2163 9455 8.225603 ACTTTAGGTAATGCATCTAAATGGTG 57.774 34.615 15.56 9.25 33.99 4.17
2178 9470 2.838637 TGGTGTTTTCTTCAAGGGGT 57.161 45.000 0.00 0.00 0.00 4.95
2202 9494 7.436673 GGTATTCATCTAGTTCAGACACACATC 59.563 40.741 0.00 0.00 35.62 3.06
2435 9728 6.238869 GCTTCAAAGTTCTGTCCTGAAATCTT 60.239 38.462 0.00 0.00 0.00 2.40
2436 9729 6.624352 TCAAAGTTCTGTCCTGAAATCTTG 57.376 37.500 0.00 0.00 0.00 3.02
2437 9730 5.009010 TCAAAGTTCTGTCCTGAAATCTTGC 59.991 40.000 0.00 0.00 0.00 4.01
2438 9731 3.416156 AGTTCTGTCCTGAAATCTTGCC 58.584 45.455 0.00 0.00 0.00 4.52
2440 9733 3.726557 TCTGTCCTGAAATCTTGCCAT 57.273 42.857 0.00 0.00 0.00 4.40
2441 9734 4.842531 TCTGTCCTGAAATCTTGCCATA 57.157 40.909 0.00 0.00 0.00 2.74
2443 9736 5.759059 TCTGTCCTGAAATCTTGCCATATT 58.241 37.500 0.00 0.00 0.00 1.28
2444 9737 5.824624 TCTGTCCTGAAATCTTGCCATATTC 59.175 40.000 0.00 0.00 0.00 1.75
2445 9738 5.508567 TGTCCTGAAATCTTGCCATATTCA 58.491 37.500 0.00 0.00 0.00 2.57
2447 9740 5.824624 GTCCTGAAATCTTGCCATATTCAGA 59.175 40.000 13.71 0.42 46.16 3.27
2449 9742 6.060136 CCTGAAATCTTGCCATATTCAGAGA 58.940 40.000 13.71 0.00 46.16 3.10
2460 9753 4.687948 CCATATTCAGAGAAGCGTACCATG 59.312 45.833 0.00 0.00 0.00 3.66
2488 9781 8.801882 TGTTAACTTATATGCTAAAAGGCTGT 57.198 30.769 7.22 0.00 0.00 4.40
2499 9792 3.722728 AAAAGGCTGTCTTGCTTTCTG 57.277 42.857 0.00 0.00 35.55 3.02
2531 9824 3.431922 AGCAATCCAAATCAATCTGCG 57.568 42.857 0.00 0.00 33.61 5.18
2559 9852 1.550524 AGCCTTACGCATCAGTTCAGA 59.449 47.619 0.00 0.00 41.38 3.27
2600 9893 2.623416 CTCTGTCGCCACTGGTCATATA 59.377 50.000 0.00 0.00 0.00 0.86
2612 9905 4.534500 ACTGGTCATATAGTCCCACAAACA 59.466 41.667 0.00 0.00 0.00 2.83
2639 9932 7.495606 CAGACACAATTTAGCTGGTATCATACA 59.504 37.037 0.00 0.00 0.00 2.29
2701 9994 7.170965 AGTTCAGTTGTCATCATCAAGGTATT 58.829 34.615 0.00 0.00 0.00 1.89
2944 10237 8.223100 GCTATTGCTAAAACAAACCAAGAATTG 58.777 33.333 0.00 0.00 40.26 2.32
3055 11089 9.827411 GATTACATTAGTGGTTTTCTCTTGTTC 57.173 33.333 0.00 0.00 0.00 3.18
3294 11336 3.567478 ATCACCCAGATCCTTGCTTAC 57.433 47.619 0.00 0.00 28.20 2.34
3462 11507 7.147724 CCCAGGTATGATTTGTAGACTTGTAGA 60.148 40.741 0.00 0.00 0.00 2.59
3542 11589 4.264380 CGTTTCTGTTTGTAGCAAACCAAC 59.736 41.667 18.33 16.20 34.95 3.77
3600 11797 7.729431 ACTCAGGTAAGAACTAAGGAACTAACT 59.271 37.037 0.00 0.00 38.49 2.24
3631 13257 4.532521 GCACCACCATATCTCCTACCTTAT 59.467 45.833 0.00 0.00 0.00 1.73
3659 13285 3.750371 TCACTCCTGTGTTATGTTTGGG 58.250 45.455 0.00 0.00 44.14 4.12
3670 13296 2.991540 GTTTGGGCAGGGAGGCAC 60.992 66.667 0.00 0.00 46.44 5.01
3701 13327 3.535561 CCATTACCTGCAGAACCTACAG 58.464 50.000 17.39 0.00 0.00 2.74
3757 13383 9.465985 GTAAGCTACTGTATCATCCTTTAAGAC 57.534 37.037 0.00 0.00 0.00 3.01
3760 13386 7.561722 AGCTACTGTATCATCCTTTAAGACAGA 59.438 37.037 13.65 0.81 37.01 3.41
3921 13547 1.064091 GGTTCTCCTCCGTACTACCCT 60.064 57.143 0.00 0.00 0.00 4.34
4318 14455 2.413371 GCCTGATTTTGACGAGAGCAAC 60.413 50.000 0.00 0.00 0.00 4.17
4467 14917 1.225855 TGTGTGATTCACTTGACGGC 58.774 50.000 17.26 0.00 46.27 5.68
4534 15007 7.977490 GAAAATATTTTCTACCAGCAGCTTC 57.023 36.000 26.65 3.04 42.42 3.86
4580 15053 9.454585 AAAATGAGCATGTTATTATGAACGATG 57.545 29.630 0.00 0.00 31.59 3.84
4581 15054 7.734924 ATGAGCATGTTATTATGAACGATGT 57.265 32.000 0.00 0.00 31.59 3.06
4583 15056 6.760770 TGAGCATGTTATTATGAACGATGTCA 59.239 34.615 0.00 0.00 31.59 3.58
4584 15057 7.442062 TGAGCATGTTATTATGAACGATGTCAT 59.558 33.333 0.00 0.00 41.21 3.06
4585 15058 8.831715 AGCATGTTATTATGAACGATGTCATA 57.168 30.769 0.00 0.00 39.07 2.15
4586 15059 8.712363 AGCATGTTATTATGAACGATGTCATAC 58.288 33.333 7.43 1.95 39.62 2.39
4587 15060 8.712363 GCATGTTATTATGAACGATGTCATACT 58.288 33.333 7.43 5.96 39.62 2.12
4589 15062 9.981114 ATGTTATTATGAACGATGTCATACTGA 57.019 29.630 7.43 0.00 39.62 3.41
4590 15063 9.810545 TGTTATTATGAACGATGTCATACTGAA 57.189 29.630 7.43 0.00 39.62 3.02
4606 15079 7.324616 GTCATACTGAAAACATGTTGAAAGAGC 59.675 37.037 12.82 0.00 0.00 4.09
4612 15085 4.739046 AACATGTTGAAAGAGCGAAGAG 57.261 40.909 11.07 0.00 0.00 2.85
4624 15097 2.182030 GAAGAGTCGAGGGTGCGG 59.818 66.667 0.00 0.00 0.00 5.69
4627 15100 0.395311 AAGAGTCGAGGGTGCGGATA 60.395 55.000 0.00 0.00 0.00 2.59
4638 15111 3.694566 AGGGTGCGGATATTTCAGTTTTC 59.305 43.478 0.00 0.00 0.00 2.29
4651 15124 3.520569 TCAGTTTTCTTTGTTTGCTGGC 58.479 40.909 0.00 0.00 0.00 4.85
4666 15139 2.806608 CTGGCAACTTCAGCATGTTT 57.193 45.000 0.00 0.00 35.18 2.83
4667 15140 3.921119 CTGGCAACTTCAGCATGTTTA 57.079 42.857 0.00 0.00 35.18 2.01
4668 15141 4.241590 CTGGCAACTTCAGCATGTTTAA 57.758 40.909 0.00 0.00 35.18 1.52
4669 15142 4.619973 CTGGCAACTTCAGCATGTTTAAA 58.380 39.130 0.00 0.00 35.18 1.52
4670 15143 5.212532 TGGCAACTTCAGCATGTTTAAAT 57.787 34.783 0.00 0.00 35.18 1.40
4671 15144 6.338214 TGGCAACTTCAGCATGTTTAAATA 57.662 33.333 0.00 0.00 35.18 1.40
4672 15145 6.934056 TGGCAACTTCAGCATGTTTAAATAT 58.066 32.000 0.00 0.00 35.18 1.28
4675 15148 7.545265 GGCAACTTCAGCATGTTTAAATATTGA 59.455 33.333 0.00 0.00 37.40 2.57
4703 15176 9.999009 GTTAAGTAGAAATTGCTTAATGTACCC 57.001 33.333 0.00 0.00 43.05 3.69
4705 15178 8.644374 AAGTAGAAATTGCTTAATGTACCCAA 57.356 30.769 0.00 0.00 29.18 4.12
4724 15206 0.034337 ACTTTTCCGCGGTAGCTCAA 59.966 50.000 27.15 7.98 42.32 3.02
4737 15219 4.671766 CGGTAGCTCAAGTTTTTATGGTGC 60.672 45.833 0.00 0.00 0.00 5.01
4749 15232 6.607198 AGTTTTTATGGTGCATTGGCTAGTAT 59.393 34.615 0.00 0.00 41.91 2.12
4772 15255 4.165372 TCTTTCCAAGTGAACTGGTAGGTT 59.835 41.667 0.00 0.00 31.05 3.50
4838 15322 6.558009 CATTGGTCACATGAAAACAGATAGG 58.442 40.000 0.00 0.00 0.00 2.57
4845 15329 0.931005 GAAAACAGATAGGCGCTCCG 59.069 55.000 7.64 0.00 37.47 4.63
4900 15388 0.537188 ATACTGCTCCAACTCCACCG 59.463 55.000 0.00 0.00 0.00 4.94
4991 15498 2.872370 CGTAGTTACGCACCTAGCTTT 58.128 47.619 0.00 0.00 43.14 3.51
5017 15528 4.860802 ATCATGTAGGGGAAATCACACA 57.139 40.909 0.00 0.00 0.00 3.72
5018 15529 3.950397 TCATGTAGGGGAAATCACACAC 58.050 45.455 0.00 0.00 0.00 3.82
5019 15530 3.329225 TCATGTAGGGGAAATCACACACA 59.671 43.478 0.00 0.00 0.00 3.72
5020 15531 3.134574 TGTAGGGGAAATCACACACAC 57.865 47.619 0.00 0.00 0.00 3.82
5085 15598 0.038744 ATGTGGGAACAGGAGGCTTG 59.961 55.000 0.00 0.00 44.46 4.01
5139 15652 5.643777 TGTTGGATGAAGTTAAGCTAGAAGC 59.356 40.000 0.00 0.00 42.84 3.86
5242 16528 9.269415 GCAGACATTTCAATTTTATGAATTTGC 57.731 29.630 0.00 0.00 38.98 3.68
5261 16889 1.069378 CCGGTAACTCGCGTCTGTTC 61.069 60.000 5.77 5.02 0.00 3.18
5263 16891 1.337821 GGTAACTCGCGTCTGTTCAG 58.662 55.000 5.77 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.551912 GGCCGTGGACTTGGTGTTG 61.552 63.158 0.00 0.00 0.00 3.33
4 5 4.643387 GCAGGCCGTGGACTTGGT 62.643 66.667 0.00 0.00 0.00 3.67
18 19 2.741985 TGTCGGACCAATGCGCAG 60.742 61.111 18.32 4.62 39.93 5.18
22 23 3.474806 CGACTGTCGGACCAATGC 58.525 61.111 21.78 0.00 36.00 3.56
33 34 1.303561 ACAATGCCATGCCGACTGT 60.304 52.632 0.00 0.00 0.00 3.55
36 37 2.774799 GGGACAATGCCATGCCGAC 61.775 63.158 0.00 0.00 0.00 4.79
38 39 3.891400 CGGGACAATGCCATGCCG 61.891 66.667 0.00 0.00 0.00 5.69
44 45 2.750237 GGTGGACGGGACAATGCC 60.750 66.667 0.00 0.00 0.00 4.40
47 48 0.035439 GATGTGGTGGACGGGACAAT 60.035 55.000 0.00 0.00 0.00 2.71
82 84 6.166279 GGTGAGTCATCTTCTCATTGTAACA 58.834 40.000 0.00 0.00 42.63 2.41
84 86 6.358974 TGGTGAGTCATCTTCTCATTGTAA 57.641 37.500 4.73 0.00 42.63 2.41
90 92 2.972021 TGGTTGGTGAGTCATCTTCTCA 59.028 45.455 4.73 0.00 39.25 3.27
105 108 1.439679 GGAGCTTACGACTTGGTTGG 58.560 55.000 0.00 0.00 0.00 3.77
157 160 2.610727 CCACCTTGGAGTCGAACTTCTC 60.611 54.545 0.00 0.00 40.96 2.87
164 167 0.321564 CATTGCCACCTTGGAGTCGA 60.322 55.000 0.00 0.00 40.96 4.20
165 168 1.926511 GCATTGCCACCTTGGAGTCG 61.927 60.000 0.00 0.00 40.96 4.18
215 218 3.114606 TCTGATATGGTTCTCCTGCCAA 58.885 45.455 0.00 0.00 38.38 4.52
216 219 2.435805 GTCTGATATGGTTCTCCTGCCA 59.564 50.000 0.00 0.00 39.33 4.92
231 234 1.535833 CGCCGGGTATAGAGTCTGAT 58.464 55.000 2.18 0.00 0.00 2.90
284 287 1.271656 CTCCCACGTCGTTTAGGTTCT 59.728 52.381 0.00 0.00 0.00 3.01
301 304 4.344865 TCTTGTTGGGGCGGCTCC 62.345 66.667 13.29 13.29 0.00 4.70
302 305 2.747855 CTCTTGTTGGGGCGGCTC 60.748 66.667 9.56 4.97 0.00 4.70
303 306 4.351054 CCTCTTGTTGGGGCGGCT 62.351 66.667 9.56 0.00 0.00 5.52
359 362 2.027625 GTTCCTGCCGGTTCTGTCG 61.028 63.158 1.90 0.00 0.00 4.35
385 388 2.821366 GTGCGGGTGAGCTGGATG 60.821 66.667 0.00 0.00 38.13 3.51
422 425 0.469144 GGCTCTCCTTCCGGATCTCT 60.469 60.000 4.15 0.00 39.01 3.10
477 481 2.666190 CTGTGTGGTGGCGTGGAG 60.666 66.667 0.00 0.00 0.00 3.86
479 483 2.666190 CTCTGTGTGGTGGCGTGG 60.666 66.667 0.00 0.00 0.00 4.94
493 497 3.444805 GACGAGGCTGCCGACTCT 61.445 66.667 13.96 0.00 43.50 3.24
517 521 2.504244 GACGGCGTGACTTCGAGG 60.504 66.667 21.19 0.00 0.00 4.63
535 539 4.070552 AGTTCAGACGAGGGGCGC 62.071 66.667 0.00 0.00 46.04 6.53
539 543 0.668706 CAGTGCAGTTCAGACGAGGG 60.669 60.000 0.00 0.00 0.00 4.30
541 545 1.287730 GGCAGTGCAGTTCAGACGAG 61.288 60.000 18.61 0.00 0.00 4.18
542 546 1.300931 GGCAGTGCAGTTCAGACGA 60.301 57.895 18.61 0.00 0.00 4.20
545 549 2.666190 GCGGCAGTGCAGTTCAGA 60.666 61.111 18.61 0.00 34.15 3.27
546 550 2.667536 AGCGGCAGTGCAGTTCAG 60.668 61.111 18.61 1.70 37.31 3.02
548 552 4.395583 GCAGCGGCAGTGCAGTTC 62.396 66.667 18.61 0.76 40.86 3.01
569 573 3.474570 CCTCTTCCCCCTGCTCGG 61.475 72.222 0.00 0.00 0.00 4.63
570 574 1.341156 ATTCCTCTTCCCCCTGCTCG 61.341 60.000 0.00 0.00 0.00 5.03
580 584 1.153147 GGTGGCGGGATTCCTCTTC 60.153 63.158 2.01 0.00 0.00 2.87
611 616 4.222847 CTTACTCCCTCGCCGCCC 62.223 72.222 0.00 0.00 0.00 6.13
612 617 2.234913 TTTCTTACTCCCTCGCCGCC 62.235 60.000 0.00 0.00 0.00 6.13
616 648 2.290134 ACCCTTTTTCTTACTCCCTCGC 60.290 50.000 0.00 0.00 0.00 5.03
625 657 2.597578 GGCCTCCACCCTTTTTCTTA 57.402 50.000 0.00 0.00 0.00 2.10
688 720 4.493747 CTCCCTTCCGCGTCGTCC 62.494 72.222 4.92 0.00 0.00 4.79
689 721 3.398353 CTCTCCCTTCCGCGTCGTC 62.398 68.421 4.92 0.00 0.00 4.20
699 731 0.419459 ACATCTCACCCCTCTCCCTT 59.581 55.000 0.00 0.00 0.00 3.95
710 742 4.212214 GTGTGTCTTCCTTTGACATCTCAC 59.788 45.833 0.00 0.00 44.74 3.51
730 762 6.998673 AGTAGAAATTTGGTTAGCAAGAGTGT 59.001 34.615 0.00 0.00 0.00 3.55
823 3463 6.595772 AATAGCGAAAAGAACTCTATGCAG 57.404 37.500 0.00 0.00 0.00 4.41
954 3605 2.488355 GGAATCTCGCCGACGACA 59.512 61.111 0.00 0.00 45.12 4.35
1064 4351 1.092345 GCAGCTCAAGGAATCGGGAC 61.092 60.000 0.00 0.00 0.00 4.46
1108 4395 1.705337 CGCAGGGTGGTGCTTAATCG 61.705 60.000 0.00 0.00 41.62 3.34
1163 8403 1.450669 GGGAAACCGCGGCTGATAA 60.451 57.895 28.58 0.00 43.64 1.75
1236 8496 1.337260 CGAACTCACTCAGGAACCCAG 60.337 57.143 0.00 0.00 0.00 4.45
1293 8554 2.484264 GTCTCCATGGAAAAAGTCACCG 59.516 50.000 17.00 0.00 0.00 4.94
1314 8575 1.142465 AGCATCCAGTCCATAGCCTTG 59.858 52.381 0.00 0.00 0.00 3.61
1332 8593 0.957888 GTCTTGCCTCAAGGTGGAGC 60.958 60.000 6.71 0.00 41.33 4.70
1335 8596 0.607489 CCAGTCTTGCCTCAAGGTGG 60.607 60.000 6.71 9.60 41.33 4.61
1340 8625 6.068010 TCTAAAATTTCCAGTCTTGCCTCAA 58.932 36.000 0.00 0.00 0.00 3.02
1439 8724 5.305585 GGGGGAAAGAATTTTCAAAGTTCC 58.694 41.667 1.91 0.00 43.62 3.62
1489 8774 2.644299 TCAACATCAGGGATTGACCACT 59.356 45.455 0.00 0.00 38.99 4.00
1516 8801 6.318648 AGAACAGTGCAAGTCTGACAAAATTA 59.681 34.615 10.88 0.00 36.81 1.40
1566 8853 6.434028 ACCATCTGCAGCATTAGAAAAGTTAA 59.566 34.615 9.47 0.00 0.00 2.01
1750 9037 1.927895 CCTCGTCGATTTCCTCCTTG 58.072 55.000 0.00 0.00 0.00 3.61
1827 9115 4.594920 TGACCCTCTTCTCATTTTCTCAGT 59.405 41.667 0.00 0.00 0.00 3.41
1846 9135 3.208747 TCAGGAAAGGAACACTTGACC 57.791 47.619 0.00 0.00 39.96 4.02
1847 9136 4.022849 CCATTCAGGAAAGGAACACTTGAC 60.023 45.833 0.00 0.00 39.96 3.18
1857 9146 3.094572 ACATCAAGCCATTCAGGAAAGG 58.905 45.455 0.00 0.00 41.22 3.11
1858 9147 4.015084 AGACATCAAGCCATTCAGGAAAG 58.985 43.478 0.00 0.00 41.22 2.62
1859 9148 4.038271 AGACATCAAGCCATTCAGGAAA 57.962 40.909 0.00 0.00 41.22 3.13
1973 9263 7.482654 AATATGATGATGTCACTGTAAACCG 57.517 36.000 0.00 0.00 40.28 4.44
2047 9339 1.078497 TGTGCAAGGCATAGACCGG 60.078 57.895 0.00 0.00 41.91 5.28
2049 9341 1.089920 CTGTGTGCAAGGCATAGACC 58.910 55.000 0.00 0.00 41.91 3.85
2163 9455 7.829706 ACTAGATGAATACCCCTTGAAGAAAAC 59.170 37.037 0.00 0.00 0.00 2.43
2178 9470 8.298729 AGATGTGTGTCTGAACTAGATGAATA 57.701 34.615 0.00 0.00 37.83 1.75
2309 9602 1.578897 TCCGGATTTCCATGTGAGGA 58.421 50.000 0.00 0.00 35.14 3.71
2435 9728 2.988010 ACGCTTCTCTGAATATGGCA 57.012 45.000 0.00 0.00 0.00 4.92
2436 9729 3.060602 GGTACGCTTCTCTGAATATGGC 58.939 50.000 0.00 0.00 0.00 4.40
2437 9730 4.322080 TGGTACGCTTCTCTGAATATGG 57.678 45.455 0.00 0.00 0.00 2.74
2438 9731 5.292765 ACATGGTACGCTTCTCTGAATATG 58.707 41.667 0.00 0.00 0.00 1.78
2440 9733 5.339008 AACATGGTACGCTTCTCTGAATA 57.661 39.130 0.00 0.00 0.00 1.75
2441 9734 3.895232 ACATGGTACGCTTCTCTGAAT 57.105 42.857 0.00 0.00 0.00 2.57
2443 9736 3.244078 ACAAACATGGTACGCTTCTCTGA 60.244 43.478 0.00 0.00 0.00 3.27
2444 9737 3.067106 ACAAACATGGTACGCTTCTCTG 58.933 45.455 0.00 0.00 0.00 3.35
2445 9738 3.402628 ACAAACATGGTACGCTTCTCT 57.597 42.857 0.00 0.00 0.00 3.10
2447 9740 5.061179 AGTTAACAAACATGGTACGCTTCT 58.939 37.500 8.61 0.00 0.00 2.85
2449 9742 5.761165 AAGTTAACAAACATGGTACGCTT 57.239 34.783 8.61 0.00 0.00 4.68
2488 9781 2.224606 CTGGAAGCACAGAAAGCAAGA 58.775 47.619 0.00 0.00 40.97 3.02
2600 9893 1.280710 TGTGTCTGTGTTTGTGGGACT 59.719 47.619 0.00 0.00 0.00 3.85
2612 9905 5.804639 TGATACCAGCTAAATTGTGTCTGT 58.195 37.500 0.00 0.00 0.00 3.41
2639 9932 3.421844 GAAAATACCAGCACCAAGGAGT 58.578 45.455 0.00 0.00 0.00 3.85
2701 9994 3.194329 TGACCATTTGCAGAACACACAAA 59.806 39.130 0.00 0.00 37.66 2.83
2854 10147 7.943079 TTCATCATAAAGCTTGGATTTCAGA 57.057 32.000 0.00 0.00 0.00 3.27
2944 10237 1.543358 CCTTCTTCCTTTGAAGCCAGC 59.457 52.381 0.00 0.00 46.28 4.85
3003 10298 9.573133 CAAACTCAAACAATAATGGTTATCCTC 57.427 33.333 0.00 0.00 32.99 3.71
3237 11271 7.327214 TCAAAATTAACAGAATAATGTGCCCC 58.673 34.615 0.00 0.00 32.52 5.80
3266 11300 5.471456 GCAAGGATCTGGGTGATAGTAATTG 59.529 44.000 0.00 0.00 35.14 2.32
3268 11302 4.910304 AGCAAGGATCTGGGTGATAGTAAT 59.090 41.667 0.00 0.00 35.14 1.89
3270 11304 3.928754 AGCAAGGATCTGGGTGATAGTA 58.071 45.455 0.00 0.00 35.14 1.82
3271 11305 2.769209 AGCAAGGATCTGGGTGATAGT 58.231 47.619 0.00 0.00 35.14 2.12
3272 11306 3.853355 AAGCAAGGATCTGGGTGATAG 57.147 47.619 0.00 0.00 35.14 2.08
3273 11307 3.069586 CGTAAGCAAGGATCTGGGTGATA 59.930 47.826 0.00 0.00 35.14 2.15
3274 11308 2.158900 CGTAAGCAAGGATCTGGGTGAT 60.159 50.000 0.00 0.00 38.27 3.06
3282 11324 2.973945 AGGTTCACGTAAGCAAGGATC 58.026 47.619 0.00 0.00 45.62 3.36
3294 11336 8.142994 AGTATTTTATATGCAGAAGGTTCACG 57.857 34.615 0.00 0.00 0.00 4.35
3542 11589 0.862490 TTGGCGTCGTTGTGTACATG 59.138 50.000 0.00 0.00 0.00 3.21
3670 13296 1.024271 CAGGTAATGGCATGAACGGG 58.976 55.000 0.00 0.00 0.00 5.28
4176 13809 1.003580 ACACCGTCCATCTGCTCATTT 59.996 47.619 0.00 0.00 0.00 2.32
4318 14455 4.151070 CACAACACGGAAAATCGAATGAG 58.849 43.478 0.00 0.00 0.00 2.90
4467 14917 9.653287 AATATAAGTGATTCCGTATACATGGTG 57.347 33.333 3.32 0.00 32.08 4.17
4510 14968 6.688813 CGAAGCTGCTGGTAGAAAATATTTTC 59.311 38.462 26.64 26.64 45.22 2.29
4512 14970 5.880332 TCGAAGCTGCTGGTAGAAAATATTT 59.120 36.000 1.35 0.00 0.00 1.40
4513 14971 5.428253 TCGAAGCTGCTGGTAGAAAATATT 58.572 37.500 1.35 0.00 0.00 1.28
4514 14972 5.023533 TCGAAGCTGCTGGTAGAAAATAT 57.976 39.130 1.35 0.00 0.00 1.28
4515 14973 4.465632 TCGAAGCTGCTGGTAGAAAATA 57.534 40.909 1.35 0.00 0.00 1.40
4517 14975 2.831685 TCGAAGCTGCTGGTAGAAAA 57.168 45.000 1.35 0.00 0.00 2.29
4518 14976 4.046938 CTATCGAAGCTGCTGGTAGAAA 57.953 45.455 1.35 0.00 0.00 2.52
4583 15056 6.204688 TCGCTCTTTCAACATGTTTTCAGTAT 59.795 34.615 8.77 0.00 0.00 2.12
4584 15057 5.525745 TCGCTCTTTCAACATGTTTTCAGTA 59.474 36.000 8.77 0.00 0.00 2.74
4585 15058 4.335315 TCGCTCTTTCAACATGTTTTCAGT 59.665 37.500 8.77 0.00 0.00 3.41
4586 15059 4.847633 TCGCTCTTTCAACATGTTTTCAG 58.152 39.130 8.77 4.91 0.00 3.02
4587 15060 4.891627 TCGCTCTTTCAACATGTTTTCA 57.108 36.364 8.77 0.00 0.00 2.69
4588 15061 5.510671 TCTTCGCTCTTTCAACATGTTTTC 58.489 37.500 8.77 0.00 0.00 2.29
4589 15062 5.066505 ACTCTTCGCTCTTTCAACATGTTTT 59.933 36.000 8.77 0.00 0.00 2.43
4590 15063 4.576463 ACTCTTCGCTCTTTCAACATGTTT 59.424 37.500 8.77 0.00 0.00 2.83
4591 15064 4.130118 ACTCTTCGCTCTTTCAACATGTT 58.870 39.130 4.92 4.92 0.00 2.71
4612 15085 1.202486 TGAAATATCCGCACCCTCGAC 60.202 52.381 0.00 0.00 0.00 4.20
4619 15092 6.149633 ACAAAGAAAACTGAAATATCCGCAC 58.850 36.000 0.00 0.00 0.00 5.34
4620 15093 6.325919 ACAAAGAAAACTGAAATATCCGCA 57.674 33.333 0.00 0.00 0.00 5.69
4623 15096 8.490355 CAGCAAACAAAGAAAACTGAAATATCC 58.510 33.333 0.00 0.00 0.00 2.59
4624 15097 8.490355 CCAGCAAACAAAGAAAACTGAAATATC 58.510 33.333 0.00 0.00 0.00 1.63
4627 15100 5.065090 GCCAGCAAACAAAGAAAACTGAAAT 59.935 36.000 0.00 0.00 0.00 2.17
4638 15111 2.861935 CTGAAGTTGCCAGCAAACAAAG 59.138 45.455 6.64 0.00 37.70 2.77
4678 15151 9.742144 TGGGTACATTAAGCAATTTCTACTTAA 57.258 29.630 0.00 0.00 39.47 1.85
4680 15153 8.520351 GTTGGGTACATTAAGCAATTTCTACTT 58.480 33.333 0.00 0.00 0.00 2.24
4682 15155 8.051901 AGTTGGGTACATTAAGCAATTTCTAC 57.948 34.615 0.00 0.00 0.00 2.59
4685 15158 8.601845 AAAAGTTGGGTACATTAAGCAATTTC 57.398 30.769 0.00 0.00 0.00 2.17
4688 15161 6.571537 CGGAAAAGTTGGGTACATTAAGCAAT 60.572 38.462 0.00 0.00 0.00 3.56
4691 15164 4.729595 CGGAAAAGTTGGGTACATTAAGC 58.270 43.478 0.00 0.00 0.00 3.09
4692 15165 4.670735 CGCGGAAAAGTTGGGTACATTAAG 60.671 45.833 0.00 0.00 0.00 1.85
4694 15167 2.743126 CGCGGAAAAGTTGGGTACATTA 59.257 45.455 0.00 0.00 0.00 1.90
4698 15171 0.886043 ACCGCGGAAAAGTTGGGTAC 60.886 55.000 35.90 0.00 0.00 3.34
4699 15172 0.683973 TACCGCGGAAAAGTTGGGTA 59.316 50.000 35.90 6.39 0.00 3.69
4700 15173 0.604511 CTACCGCGGAAAAGTTGGGT 60.605 55.000 35.90 7.61 0.00 4.51
4703 15176 0.442699 GAGCTACCGCGGAAAAGTTG 59.557 55.000 35.90 11.26 42.32 3.16
4705 15178 0.034337 TTGAGCTACCGCGGAAAAGT 59.966 50.000 35.90 12.08 42.32 2.66
4724 15206 4.772100 ACTAGCCAATGCACCATAAAAACT 59.228 37.500 0.00 0.00 41.13 2.66
4772 15255 9.984190 ATATGCATATCAACATAAATTGTGCAA 57.016 25.926 13.63 0.00 40.39 4.08
4799 15282 3.701040 GACCAATGCCCATGAGTTACAAT 59.299 43.478 0.00 0.00 0.00 2.71
4845 15329 6.357240 GGATCTTATAAACGCAAGCGAAAATC 59.643 38.462 22.30 6.08 42.83 2.17
4900 15388 4.142945 ACGATGTAACGCGATATCTAGTCC 60.143 45.833 15.93 0.00 36.70 3.85
4991 15498 7.071824 TGTGTGATTTCCCCTACATGATATACA 59.928 37.037 0.00 0.00 0.00 2.29
5017 15528 3.320541 TCGCAAATCATTTCCCTTTGTGT 59.679 39.130 7.44 0.00 39.90 3.72
5018 15529 3.911868 TCGCAAATCATTTCCCTTTGTG 58.088 40.909 0.00 0.00 40.16 3.33
5019 15530 3.056607 CCTCGCAAATCATTTCCCTTTGT 60.057 43.478 0.00 0.00 33.46 2.83
5020 15531 3.514645 CCTCGCAAATCATTTCCCTTTG 58.485 45.455 0.00 0.00 33.93 2.77
5085 15598 0.036388 TTGCTCGACCCATGTTCCTC 60.036 55.000 0.00 0.00 0.00 3.71
5139 15652 1.067749 CTCTGAGATGGAGCCGCAG 59.932 63.158 0.00 0.00 33.61 5.18
5235 16521 0.247537 CGCGAGTTACCGGCAAATTC 60.248 55.000 0.00 1.61 0.00 2.17


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

AutoCloner maintained by Alex Coulton.