Multiple sequence alignment - TraesCS3B01G166200

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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 TraesCS3B01G166200 chr3B 100.000 8820 0 0 1 8820 166521428 166512609 0.000000e+00 16288.0
1 TraesCS3B01G166200 chr3D 94.894 3858 138 21 2172 6004 114319989 114323812 0.000000e+00 5978.0
2 TraesCS3B01G166200 chr3D 92.530 2142 75 22 31 2139 114317899 114319988 0.000000e+00 2990.0
3 TraesCS3B01G166200 chr3D 94.211 1900 76 14 6932 8820 114325071 114326947 0.000000e+00 2868.0
4 TraesCS3B01G166200 chr3D 96.753 893 19 4 6010 6893 114323994 114324885 0.000000e+00 1480.0
5 TraesCS3B01G166200 chr3D 96.667 60 2 0 6888 6947 114324987 114325046 5.630000e-17 100.0
6 TraesCS3B01G166200 chr3D 79.221 154 20 12 2704 2851 235586790 235586937 7.290000e-16 97.1
7 TraesCS3B01G166200 chr3A 94.370 2700 99 21 3338 6004 110314216 110316895 0.000000e+00 4095.0
8 TraesCS3B01G166200 chr3A 94.102 1933 70 24 217 2121 110309343 110311259 0.000000e+00 2898.0
9 TraesCS3B01G166200 chr3A 97.062 885 21 3 6010 6893 110317078 110317958 0.000000e+00 1485.0
10 TraesCS3B01G166200 chr3A 95.573 655 25 2 6887 7541 110318056 110318706 0.000000e+00 1046.0
11 TraesCS3B01G166200 chr3A 93.807 436 25 2 7532 7967 110319097 110319530 0.000000e+00 654.0
12 TraesCS3B01G166200 chr3A 95.029 342 16 1 2113 2454 110313875 110314215 3.620000e-148 536.0
13 TraesCS3B01G166200 chr3A 80.412 388 55 15 8018 8394 110319548 110319925 8.720000e-70 276.0
14 TraesCS3B01G166200 chr3A 91.579 95 8 0 8413 8507 110320122 110320216 2.000000e-26 132.0
15 TraesCS3B01G166200 chr5A 84.950 1515 182 26 875 2361 92441855 92440359 0.000000e+00 1493.0
16 TraesCS3B01G166200 chr5A 82.076 1339 146 53 4532 5809 92438443 92437138 0.000000e+00 1057.0
17 TraesCS3B01G166200 chr5A 86.622 897 94 16 6010 6893 92431091 92430208 0.000000e+00 968.0
18 TraesCS3B01G166200 chr5A 83.303 1102 123 27 6895 7972 92430093 92429029 0.000000e+00 959.0
19 TraesCS3B01G166200 chr5A 81.280 844 122 25 2459 3271 235246417 235247255 0.000000e+00 651.0
20 TraesCS3B01G166200 chr5A 79.777 628 84 21 3929 4544 92439309 92438713 4.930000e-112 416.0
21 TraesCS3B01G166200 chr5B 82.964 1491 151 56 4549 5969 103467588 103466131 0.000000e+00 1251.0
22 TraesCS3B01G166200 chr5B 82.420 1496 155 58 4549 5969 105698757 105697295 0.000000e+00 1206.0
23 TraesCS3B01G166200 chr5B 85.926 945 115 12 875 1806 103469614 103468675 0.000000e+00 992.0
24 TraesCS3B01G166200 chr5B 84.974 945 121 13 875 1806 105700848 105699912 0.000000e+00 939.0
25 TraesCS3B01G166200 chr5B 85.873 899 100 15 6010 6893 103465896 103465010 0.000000e+00 931.0
26 TraesCS3B01G166200 chr5B 85.873 899 100 16 6010 6893 105697064 105696178 0.000000e+00 931.0
27 TraesCS3B01G166200 chr5B 82.872 578 76 16 7414 7972 103464146 103463573 1.710000e-136 497.0
28 TraesCS3B01G166200 chr5B 85.872 453 52 9 6925 7370 103464774 103464327 1.040000e-128 472.0
29 TraesCS3B01G166200 chr5B 81.870 524 64 24 4029 4544 103468348 103467848 6.370000e-111 412.0
30 TraesCS3B01G166200 chr5B 81.836 523 66 22 4029 4544 105699585 105699085 6.370000e-111 412.0
31 TraesCS3B01G166200 chr5B 85.523 373 49 5 7604 7972 105689102 105688731 1.390000e-102 385.0
32 TraesCS3B01G166200 chr5B 88.931 262 26 3 6925 7184 105695942 105695682 3.970000e-83 320.0
33 TraesCS3B01G166200 chr5D 81.242 1498 177 55 4533 5966 97265974 97264517 0.000000e+00 1114.0
34 TraesCS3B01G166200 chr5D 83.938 1102 122 25 6895 7972 97263245 97262175 0.000000e+00 1003.0
35 TraesCS3B01G166200 chr5D 85.174 951 113 21 877 1806 97273816 97272873 0.000000e+00 950.0
36 TraesCS3B01G166200 chr5D 85.889 900 103 17 6010 6893 97264253 97263362 0.000000e+00 937.0
37 TraesCS3B01G166200 chr5D 85.426 446 46 16 4018 4460 97271980 97271551 6.280000e-121 446.0
38 TraesCS3B01G166200 chr5D 85.644 202 15 4 7000 7201 97187750 97187563 5.400000e-47 200.0
39 TraesCS3B01G166200 chr5D 82.911 158 22 2 7815 7972 97074130 97073978 4.290000e-28 137.0
40 TraesCS3B01G166200 chr4A 82.947 862 125 14 2493 3333 678296303 678297163 0.000000e+00 758.0
41 TraesCS3B01G166200 chr4A 78.740 127 23 4 2928 3052 559900192 559900316 2.040000e-11 82.4
42 TraesCS3B01G166200 chr4A 88.679 53 5 1 669 720 214195938 214195990 7.390000e-06 63.9
43 TraesCS3B01G166200 chrUn 83.386 638 96 10 2459 3088 115653604 115652969 4.590000e-162 582.0
44 TraesCS3B01G166200 chr7A 78.731 898 162 25 2456 3337 447747921 447748805 2.760000e-159 573.0
45 TraesCS3B01G166200 chr7A 82.105 95 12 5 2527 2618 335324114 335324022 9.500000e-10 76.8
46 TraesCS3B01G166200 chr2B 81.014 690 123 8 2479 3162 499003131 499003818 7.790000e-150 542.0
47 TraesCS3B01G166200 chr4D 78.363 892 140 36 2456 3337 173088686 173089534 6.060000e-146 529.0
48 TraesCS3B01G166200 chr4D 87.879 66 6 2 2559 2623 247687026 247686962 9.500000e-10 76.8
49 TraesCS3B01G166200 chr7D 77.620 916 150 43 2456 3337 339012155 339011261 1.020000e-138 505.0
50 TraesCS3B01G166200 chr7D 80.193 207 37 4 3133 3337 394112397 394112601 1.530000e-32 152.0
51 TraesCS3B01G166200 chr7D 74.096 166 32 9 3176 3337 428043450 428043608 3.440000e-04 58.4
52 TraesCS3B01G166200 chr7B 77.835 194 28 9 3006 3198 385181494 385181673 1.210000e-18 106.0
53 TraesCS3B01G166200 chr7B 78.261 92 16 3 3176 3267 370196633 370196546 1.000000e-03 56.5
54 TraesCS3B01G166200 chr2D 83.621 116 16 3 2920 3034 282693322 282693209 1.210000e-18 106.0
55 TraesCS3B01G166200 chr2D 78.022 182 31 9 2712 2888 365603819 365603996 1.210000e-18 106.0


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 TraesCS3B01G166200 chr3B 166512609 166521428 8819 True 16288.000000 16288 100.000000 1 8820 1 chr3B.!!$R1 8819
1 TraesCS3B01G166200 chr3D 114317899 114326947 9048 False 2683.200000 5978 95.011000 31 8820 5 chr3D.!!$F2 8789
2 TraesCS3B01G166200 chr3A 110309343 110320216 10873 False 1390.250000 4095 92.741750 217 8507 8 chr3A.!!$F1 8290
3 TraesCS3B01G166200 chr5A 92437138 92441855 4717 True 988.666667 1493 82.267667 875 5809 3 chr5A.!!$R2 4934
4 TraesCS3B01G166200 chr5A 92429029 92431091 2062 True 963.500000 968 84.962500 6010 7972 2 chr5A.!!$R1 1962
5 TraesCS3B01G166200 chr5A 235246417 235247255 838 False 651.000000 651 81.280000 2459 3271 1 chr5A.!!$F1 812
6 TraesCS3B01G166200 chr5B 105695682 105700848 5166 True 761.600000 1206 84.806800 875 7184 5 chr5B.!!$R3 6309
7 TraesCS3B01G166200 chr5B 103463573 103469614 6041 True 759.166667 1251 84.229500 875 7972 6 chr5B.!!$R2 7097
8 TraesCS3B01G166200 chr5D 97262175 97265974 3799 True 1018.000000 1114 83.689667 4533 7972 3 chr5D.!!$R3 3439
9 TraesCS3B01G166200 chr5D 97271551 97273816 2265 True 698.000000 950 85.300000 877 4460 2 chr5D.!!$R4 3583
10 TraesCS3B01G166200 chr4A 678296303 678297163 860 False 758.000000 758 82.947000 2493 3333 1 chr4A.!!$F3 840
11 TraesCS3B01G166200 chrUn 115652969 115653604 635 True 582.000000 582 83.386000 2459 3088 1 chrUn.!!$R1 629
12 TraesCS3B01G166200 chr7A 447747921 447748805 884 False 573.000000 573 78.731000 2456 3337 1 chr7A.!!$F1 881
13 TraesCS3B01G166200 chr2B 499003131 499003818 687 False 542.000000 542 81.014000 2479 3162 1 chr2B.!!$F1 683
14 TraesCS3B01G166200 chr4D 173088686 173089534 848 False 529.000000 529 78.363000 2456 3337 1 chr4D.!!$F1 881
15 TraesCS3B01G166200 chr7D 339011261 339012155 894 True 505.000000 505 77.620000 2456 3337 1 chr7D.!!$R1 881

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
22 23 0.449388 GCTTGTGCCTGTACTGATGC 59.551 55.000 0.6 0.0 0.0 3.91 F
576 619 0.622665 ATCAGCTCCCTCTTTGGTGG 59.377 55.000 0.0 0.0 0.0 4.61 F
1072 1127 1.004277 CATTCTTCCTCGGAACCCCAA 59.996 52.381 0.0 0.0 0.0 4.12 F
2572 5382 1.141254 TGAGCGTTTTACCCAGGTTCA 59.859 47.619 0.0 0.0 0.0 3.18 F
3290 6167 0.674895 GCAGGGAGGCTACAACTGTG 60.675 60.000 0.0 0.0 0.0 3.66 F
4091 7410 0.905357 ACCATGCTGAGTAGACCACC 59.095 55.000 0.0 0.0 0.0 4.61 F
5579 9297 2.949644 AGTTTGCGGCTGTACTTTTTCT 59.050 40.909 0.0 0.0 0.0 2.52 F
6070 10033 1.662629 CTTGTTGGTAGAGCGATGCAG 59.337 52.381 0.0 0.0 0.0 4.41 F
7034 11380 1.561542 AGATTTGAAGATCCACCGCCT 59.438 47.619 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1090 1145 1.403814 CTGCGGAGAAGAGGATGGTA 58.596 55.000 0.00 0.0 0.00 3.25 R
2066 2144 3.648339 ATGACAACATTTCACACAGCC 57.352 42.857 0.00 0.0 32.21 4.85 R
3037 5858 0.690762 TACCTGTCAGGACTTTGCCC 59.309 55.000 26.18 0.0 37.67 5.36 R
3808 6721 0.840722 GGGGTGGGAGACAAGAAGGA 60.841 60.000 0.00 0.0 0.00 3.36 R
4582 8229 2.431057 AGTTCAGTGTTTCGGTGAGTCT 59.569 45.455 0.00 0.0 0.00 3.24 R
6052 10015 0.740868 GCTGCATCGCTCTACCAACA 60.741 55.000 0.00 0.0 0.00 3.33 R
6717 10703 1.746470 GCGCCCTAACATACTGGTTT 58.254 50.000 0.00 0.0 32.29 3.27 R
7581 12487 0.536006 AGGGCACTTCTCACTGCAAC 60.536 55.000 0.00 0.0 34.90 4.17 R
8298 13221 0.482887 AAACAAGGAAGGGGGTCCAG 59.517 55.000 0.00 0.0 40.48 3.86 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
17 18 2.743718 AGCGCTTGTGCCTGTACT 59.256 55.556 2.64 0.00 35.36 2.73
18 19 1.669115 AGCGCTTGTGCCTGTACTG 60.669 57.895 2.64 0.00 35.36 2.74
19 20 1.667830 GCGCTTGTGCCTGTACTGA 60.668 57.895 0.00 0.00 35.36 3.41
20 21 1.021390 GCGCTTGTGCCTGTACTGAT 61.021 55.000 0.00 0.00 35.36 2.90
21 22 0.723414 CGCTTGTGCCTGTACTGATG 59.277 55.000 0.60 0.00 35.36 3.07
22 23 0.449388 GCTTGTGCCTGTACTGATGC 59.551 55.000 0.60 0.00 0.00 3.91
23 24 1.947678 GCTTGTGCCTGTACTGATGCT 60.948 52.381 0.60 0.00 0.00 3.79
24 25 2.677902 GCTTGTGCCTGTACTGATGCTA 60.678 50.000 0.60 0.00 0.00 3.49
25 26 3.599343 CTTGTGCCTGTACTGATGCTAA 58.401 45.455 0.60 0.00 0.00 3.09
26 27 3.694043 TGTGCCTGTACTGATGCTAAA 57.306 42.857 0.60 0.00 0.00 1.85
27 28 4.014569 TGTGCCTGTACTGATGCTAAAA 57.985 40.909 0.60 0.00 0.00 1.52
28 29 4.393834 TGTGCCTGTACTGATGCTAAAAA 58.606 39.130 0.60 0.00 0.00 1.94
67 68 9.045223 GTGCATTTTCACCTTAAAGAAAGAATT 57.955 29.630 0.00 0.00 37.38 2.17
68 69 9.612066 TGCATTTTCACCTTAAAGAAAGAATTT 57.388 25.926 0.00 0.00 43.98 1.82
137 138 4.443266 GCTCGCTGCCCTCTCGTT 62.443 66.667 0.00 0.00 35.15 3.85
139 140 3.708220 CTCGCTGCCCTCTCGTTCC 62.708 68.421 0.00 0.00 0.00 3.62
141 142 4.821589 GCTGCCCTCTCGTTCCCG 62.822 72.222 0.00 0.00 0.00 5.14
142 143 4.821589 CTGCCCTCTCGTTCCCGC 62.822 72.222 0.00 0.00 0.00 6.13
180 181 6.068670 CCCCAAAATTTTCCCTATCTCGTAT 58.931 40.000 0.00 0.00 0.00 3.06
188 189 3.775910 TCCCTATCTCGTATTTCCCCTC 58.224 50.000 0.00 0.00 0.00 4.30
191 197 4.347000 CCCTATCTCGTATTTCCCCTCAAA 59.653 45.833 0.00 0.00 0.00 2.69
286 292 0.974383 TCCCGTCAGTCTTCCCTTTC 59.026 55.000 0.00 0.00 0.00 2.62
477 505 3.268034 AGTTTTCTCTGGTCCCTCTCT 57.732 47.619 0.00 0.00 0.00 3.10
576 619 0.622665 ATCAGCTCCCTCTTTGGTGG 59.377 55.000 0.00 0.00 0.00 4.61
695 738 1.265568 GCGTGCTTCAAAGATGCATG 58.734 50.000 2.46 17.65 45.95 4.06
844 890 7.765819 GCTGTGTCATATATGCTTGTATCCATA 59.234 37.037 7.92 0.00 0.00 2.74
995 1050 1.153549 CCACTAGAACGGAGCCTGC 60.154 63.158 0.00 0.00 0.00 4.85
1057 1112 2.360350 CACGGGCCACTGCATTCT 60.360 61.111 4.39 0.00 40.13 2.40
1072 1127 1.004277 CATTCTTCCTCGGAACCCCAA 59.996 52.381 0.00 0.00 0.00 4.12
1090 1145 3.954258 CCCAATAAAATCCTTCCGCTCTT 59.046 43.478 0.00 0.00 0.00 2.85
1161 1216 2.041819 CCTACTCCCCGCTCCCTT 60.042 66.667 0.00 0.00 0.00 3.95
1243 1298 2.964925 GTTGCGACGACACTGCCA 60.965 61.111 0.00 0.00 0.00 4.92
1301 1357 7.270047 CCTTTCCGTCCAGTCACTTATATTTA 58.730 38.462 0.00 0.00 0.00 1.40
1307 1366 7.813148 CCGTCCAGTCACTTATATTTATCGAAT 59.187 37.037 0.00 0.00 0.00 3.34
1332 1391 7.796054 TCTTCTAGGATTTTATGCTTAGTGCT 58.204 34.615 0.00 0.00 43.37 4.40
1402 1462 3.009473 TCCTTAGCCAAGTGATTGCTTCT 59.991 43.478 0.00 0.00 36.57 2.85
1447 1507 7.987458 TCAGTTCACATTCTCTCTAGTTGTTTT 59.013 33.333 0.00 0.00 0.00 2.43
1455 1515 8.704234 CATTCTCTCTAGTTGTTTTGTGTCTAC 58.296 37.037 0.00 0.00 0.00 2.59
1506 1580 5.636121 CCTTTACACGTTGCTGATTGTACTA 59.364 40.000 0.00 0.00 0.00 1.82
1631 1706 9.449719 TCCTTTAAGAAGATGGATGACTTTAAC 57.550 33.333 0.00 0.00 34.71 2.01
1791 1867 7.110155 CCTTAGAGGTTCCTGTTTTTGCTATA 58.890 38.462 0.00 0.00 0.00 1.31
1985 2063 6.863126 GGTGACAATGGTTCAAATGAGTTAAG 59.137 38.462 0.00 0.00 0.00 1.85
2066 2144 3.860378 GCTGACTCTCTTGAAGTGTCCAG 60.860 52.174 10.95 9.43 44.37 3.86
2177 4880 4.217510 AGCCAATATTTGCTGCTTCCATA 58.782 39.130 12.93 0.00 36.23 2.74
2371 5080 2.754552 GACATAGCCATCTGCAAAACCA 59.245 45.455 0.00 0.00 44.83 3.67
2382 5091 6.319658 CCATCTGCAAAACCAGTTCATAGTAT 59.680 38.462 0.00 0.00 34.47 2.12
2454 5254 4.455877 ACATTTTTAGTCCCTCAGCTTTCG 59.544 41.667 0.00 0.00 0.00 3.46
2509 5315 3.436924 CCCCTTTACGTTGGGCGC 61.437 66.667 13.48 0.00 46.11 6.53
2572 5382 1.141254 TGAGCGTTTTACCCAGGTTCA 59.859 47.619 0.00 0.00 0.00 3.18
2604 5415 1.636988 CGTAAAACCCTACTCCTGCG 58.363 55.000 0.00 0.00 0.00 5.18
2762 5579 4.654091 TTATAGACGAAAGGGGTTACCG 57.346 45.455 0.00 0.00 46.96 4.02
2802 5621 5.881923 TTACAGGGGTAAATAGTGGCTAG 57.118 43.478 0.00 0.00 36.57 3.42
2863 5683 4.732784 CATTAAATGCGCTGTTAGGTGTT 58.267 39.130 9.73 0.00 0.00 3.32
3019 5840 2.233922 GACAAGCTCTACCTAACTGCCA 59.766 50.000 0.00 0.00 0.00 4.92
3020 5841 2.028020 ACAAGCTCTACCTAACTGCCAC 60.028 50.000 0.00 0.00 0.00 5.01
3204 6075 0.968393 ACCTGCCTCGAGGTCTTCTC 60.968 60.000 31.43 14.86 43.33 2.87
3290 6167 0.674895 GCAGGGAGGCTACAACTGTG 60.675 60.000 0.00 0.00 0.00 3.66
3343 6221 2.816689 TCAGTACACCGACACAAAGTG 58.183 47.619 0.00 0.00 39.75 3.16
3434 6327 2.133742 CTTGCCACACTGAAAGCGGG 62.134 60.000 0.00 0.00 37.60 6.13
3475 6369 6.635030 GTGGTTTCACAGACCTTAAAATCT 57.365 37.500 0.00 0.00 43.13 2.40
3600 6506 2.232452 TGTTGTGGAAAAACCCTGTGTG 59.768 45.455 0.00 0.00 31.25 3.82
3666 6578 8.673711 TCCACATAATTCTCAAAATTTCGGTAG 58.326 33.333 0.00 0.00 0.00 3.18
3681 6593 6.474140 TTTCGGTAGCTGAATATTCCTGTA 57.526 37.500 12.90 0.00 0.00 2.74
3842 6755 1.638589 CACCCCTCATTTTCCCCAGTA 59.361 52.381 0.00 0.00 0.00 2.74
3861 6778 3.649981 AGTAGTGCTGAATGGGCTATCAT 59.350 43.478 0.00 0.00 0.00 2.45
3896 7111 1.289109 CCGCGTCATCGTCAAAACCT 61.289 55.000 4.92 0.00 39.49 3.50
3917 7132 1.373044 TTTGGGTAGGGCAAAGGGGT 61.373 55.000 0.00 0.00 0.00 4.95
3998 7213 4.213482 AGGAACGAAAATTGGACTTCTTCG 59.787 41.667 4.99 4.99 43.35 3.79
3999 7214 4.464112 GAACGAAAATTGGACTTCTTCGG 58.536 43.478 10.05 0.00 42.33 4.30
4001 7216 3.881089 ACGAAAATTGGACTTCTTCGGTT 59.119 39.130 10.05 0.00 42.33 4.44
4004 7219 5.277828 CGAAAATTGGACTTCTTCGGTTCTT 60.278 40.000 0.00 0.00 36.21 2.52
4091 7410 0.905357 ACCATGCTGAGTAGACCACC 59.095 55.000 0.00 0.00 0.00 4.61
4260 7579 8.480643 AATGAATAACGAAGACCTCTGTAAAG 57.519 34.615 0.00 0.00 0.00 1.85
4363 7682 5.296780 ACATGCATTAGTTTCCAGGTAATCG 59.703 40.000 0.00 0.00 0.00 3.34
4392 7712 7.921214 GGACGTCTGACATCTCTTTAAATGATA 59.079 37.037 16.46 0.00 0.00 2.15
4431 7751 7.800155 TGAGTTCAACATCACACAGAATAAA 57.200 32.000 0.00 0.00 0.00 1.40
4535 8182 4.148891 GTTTGCGTGGATCTTCTTTTACG 58.851 43.478 0.00 0.00 34.93 3.18
4582 8229 6.129414 TGTTTTCCCCTTACAATAGCTACA 57.871 37.500 0.00 0.00 0.00 2.74
4587 8234 4.894114 TCCCCTTACAATAGCTACAGACTC 59.106 45.833 0.00 0.00 0.00 3.36
4761 8418 7.112122 TCTTTTGCCATGTCATATCTGTTACT 58.888 34.615 0.00 0.00 0.00 2.24
4779 8436 5.929992 TGTTACTAGCATACCTTGTTGTGAC 59.070 40.000 0.00 0.00 31.89 3.67
4920 8588 9.006839 TGATATTGCATTCTCTGAATTATGGAC 57.993 33.333 0.00 0.00 0.00 4.02
5058 8738 8.922237 TGATCTAGCTTAATTCTCTGTGATTCT 58.078 33.333 0.00 0.00 0.00 2.40
5209 8903 6.524239 CACTCGTACAAAATGACATTTCCATG 59.476 38.462 13.68 10.91 36.34 3.66
5225 8921 8.149647 ACATTTCCATGCACTAAATTTTGAGAA 58.850 29.630 6.63 0.00 33.05 2.87
5299 8995 7.674120 TGCATGATAGTATGTCTTAATCTGCT 58.326 34.615 0.00 0.00 0.00 4.24
5330 9026 5.414765 GCTAATTTTGGTACTAACACTGGCT 59.585 40.000 0.00 0.00 0.00 4.75
5497 9215 3.808174 GTCTTGATATACGGAAAGGTGGC 59.192 47.826 0.00 0.00 0.00 5.01
5579 9297 2.949644 AGTTTGCGGCTGTACTTTTTCT 59.050 40.909 0.00 0.00 0.00 2.52
6028 9990 7.393515 GTGTTAGGATGTGGTAGGATTCTTTTT 59.606 37.037 0.00 0.00 0.00 1.94
6052 10015 8.729805 TTTGACCAAATAACAAGAAAATGCTT 57.270 26.923 0.00 0.00 0.00 3.91
6070 10033 1.662629 CTTGTTGGTAGAGCGATGCAG 59.337 52.381 0.00 0.00 0.00 4.41
6217 10182 7.089770 ACGTGACTACATATGATATAGGCTG 57.910 40.000 10.38 3.37 0.00 4.85
6321 10297 4.526970 CATATTTGAAGCAGGGTAGGTGT 58.473 43.478 0.00 0.00 0.00 4.16
6391 10376 6.043127 ACCATTGTAGGTGCACAGATGATATA 59.957 38.462 20.43 0.00 41.30 0.86
6463 10448 2.038557 TGCCTCTTTCCAGGTTCAGTAC 59.961 50.000 0.00 0.00 35.72 2.73
6667 10653 9.947433 TTCAATTGCTTTCCTTAATTCATTCAT 57.053 25.926 0.00 0.00 0.00 2.57
6717 10703 1.680735 GTTTCAGGTGGTGTTGCATCA 59.319 47.619 0.00 0.00 0.00 3.07
7034 11380 1.561542 AGATTTGAAGATCCACCGCCT 59.438 47.619 0.00 0.00 0.00 5.52
7243 11593 5.703730 TTTCATATTAAGTTCTCCGGGGT 57.296 39.130 0.00 0.00 0.00 4.95
7477 11968 8.254508 AGTGTTGATAAACTAGCTCTTAGGAAG 58.745 37.037 0.00 0.00 33.42 3.46
7581 12487 3.543680 ACTGGAATGGTAGGAATCGTG 57.456 47.619 0.00 0.00 0.00 4.35
7587 12493 2.093306 TGGTAGGAATCGTGTTGCAG 57.907 50.000 0.00 0.00 0.00 4.41
7597 12503 0.041839 CGTGTTGCAGTGAGAAGTGC 60.042 55.000 0.00 0.00 40.29 4.40
7664 12570 3.438297 TCTGGCTGTTTCGCTAGTATC 57.562 47.619 0.00 0.00 39.27 2.24
7696 12603 9.098355 TGATCATTTTATTGTCTGCTACAGTAC 57.902 33.333 0.00 0.00 39.87 2.73
7886 12796 2.102578 CATCATCCAGTTTTGGGACCC 58.897 52.381 2.45 2.45 45.10 4.46
7918 12828 2.214201 AGCCCTGCTCCCCTTTATTTA 58.786 47.619 0.00 0.00 30.62 1.40
7923 12833 5.012893 CCCTGCTCCCCTTTATTTATCATC 58.987 45.833 0.00 0.00 0.00 2.92
7948 12858 5.644644 CAGTAATTAGCTTCAAAGGCTTGG 58.355 41.667 0.00 0.00 40.74 3.61
7979 12889 8.918202 TTATCTGTTCATTTGTTCCTTGTACT 57.082 30.769 0.00 0.00 0.00 2.73
8098 13008 5.207110 AGATGTATTCCTTGTGAGATCGG 57.793 43.478 0.00 0.00 0.00 4.18
8111 13021 3.196007 GAGATCGGTTGCTATCTCGAG 57.804 52.381 5.93 5.93 38.94 4.04
8165 13075 8.443953 AGAAATGTTCAGTTATCTAATGGCTC 57.556 34.615 0.00 0.00 0.00 4.70
8172 13082 3.253677 AGTTATCTAATGGCTCGTCTCGG 59.746 47.826 0.00 0.00 0.00 4.63
8180 13090 2.202492 CTCGTCTCGGTCCGCTTG 60.202 66.667 6.34 0.00 0.00 4.01
8250 13173 1.624336 ACAGTGTTCCCGCTACAGTA 58.376 50.000 0.00 0.00 0.00 2.74
8251 13174 2.176889 ACAGTGTTCCCGCTACAGTAT 58.823 47.619 0.00 0.00 0.00 2.12
8252 13175 2.165845 ACAGTGTTCCCGCTACAGTATC 59.834 50.000 0.00 0.00 0.00 2.24
8253 13176 2.427453 CAGTGTTCCCGCTACAGTATCT 59.573 50.000 0.00 0.00 0.00 1.98
8254 13177 3.630769 CAGTGTTCCCGCTACAGTATCTA 59.369 47.826 0.00 0.00 0.00 1.98
8255 13178 3.631227 AGTGTTCCCGCTACAGTATCTAC 59.369 47.826 0.00 0.00 0.00 2.59
8256 13179 3.379372 GTGTTCCCGCTACAGTATCTACA 59.621 47.826 0.00 0.00 0.00 2.74
8257 13180 3.630769 TGTTCCCGCTACAGTATCTACAG 59.369 47.826 0.00 0.00 0.00 2.74
8298 13221 0.955428 TGAGCCATTCCTGCGTGAAC 60.955 55.000 0.00 0.00 0.00 3.18
8310 13233 1.003718 CGTGAACTGGACCCCCTTC 60.004 63.158 0.00 0.00 0.00 3.46
8347 13270 4.638421 TGCAAATTCCCGGAACACTATTAG 59.362 41.667 0.73 0.00 0.00 1.73
8649 13749 1.819632 GAGAATCGCCGTTGCCCAT 60.820 57.895 0.00 0.00 0.00 4.00
8653 13753 0.965363 AATCGCCGTTGCCCATTTCT 60.965 50.000 0.00 0.00 0.00 2.52
8654 13754 1.656818 ATCGCCGTTGCCCATTTCTG 61.657 55.000 0.00 0.00 0.00 3.02
8683 13783 2.054799 ACTTGAAGCCTCCACCTAACA 58.945 47.619 0.00 0.00 0.00 2.41
8692 13792 1.134487 CCACCTAACAATGCGTGCG 59.866 57.895 0.00 0.00 0.00 5.34
8693 13793 1.511887 CACCTAACAATGCGTGCGC 60.512 57.895 9.85 9.85 42.35 6.09
8694 13794 2.276617 CCTAACAATGCGTGCGCG 60.277 61.111 16.86 16.86 45.51 6.86
8715 13815 0.814410 TCCGAAGCGTAGAGAGCGAT 60.814 55.000 0.00 0.00 40.04 4.58
8716 13816 0.029567 CCGAAGCGTAGAGAGCGATT 59.970 55.000 0.00 0.00 40.74 3.34
8748 13848 4.202556 TGAATTGAATTGAGTGGAGTCCCA 60.203 41.667 6.74 0.00 40.95 4.37
8765 13866 2.515005 TCCCAATCACCATCACCATGAT 59.485 45.455 0.00 0.00 37.65 2.45
8781 13882 7.970384 TCACCATGATGTAACGAATTTAAGAC 58.030 34.615 0.00 0.00 0.00 3.01
8783 13884 6.036735 ACCATGATGTAACGAATTTAAGACGG 59.963 38.462 0.00 0.00 0.00 4.79
8815 13916 1.442526 GGCAATGGATCGCCTGTCAG 61.443 60.000 2.39 0.00 45.29 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.021390 ATCAGTACAGGCACAAGCGC 61.021 55.000 0.00 0.00 43.41 5.92
2 3 0.723414 CATCAGTACAGGCACAAGCG 59.277 55.000 0.00 0.00 43.41 4.68
6 7 3.694043 TTTAGCATCAGTACAGGCACA 57.306 42.857 0.00 0.00 0.00 4.57
28 29 4.938226 TGAAAATGCACCGGAAAACTTTTT 59.062 33.333 9.46 10.70 0.00 1.94
29 30 4.331443 GTGAAAATGCACCGGAAAACTTTT 59.669 37.500 9.46 7.32 32.68 2.27
59 60 8.491950 GCGGATAGATGTAGAGAAAATTCTTTC 58.508 37.037 0.00 0.00 41.19 2.62
63 64 7.715265 TTGCGGATAGATGTAGAGAAAATTC 57.285 36.000 0.00 0.00 0.00 2.17
65 66 8.506168 TTTTTGCGGATAGATGTAGAGAAAAT 57.494 30.769 0.00 0.00 0.00 1.82
67 68 7.012327 CCATTTTTGCGGATAGATGTAGAGAAA 59.988 37.037 0.00 0.00 0.00 2.52
68 69 6.483307 CCATTTTTGCGGATAGATGTAGAGAA 59.517 38.462 0.00 0.00 0.00 2.87
142 143 4.426313 GGGGGAAGGTGGCCGAAG 62.426 72.222 0.00 0.00 0.00 3.79
160 161 7.287005 GGGGAAATACGAGATAGGGAAAATTTT 59.713 37.037 2.28 2.28 0.00 1.82
191 197 9.067986 CCGCCTCCTCTTTATATTCTTTATTTT 57.932 33.333 0.00 0.00 0.00 1.82
202 208 2.046938 CCGCCGCCTCCTCTTTATA 58.953 57.895 0.00 0.00 0.00 0.98
204 210 4.157120 GCCGCCGCCTCCTCTTTA 62.157 66.667 0.00 0.00 0.00 1.85
286 292 2.919228 CCCCGGTTTGAGAGAAATAGG 58.081 52.381 0.00 0.00 0.00 2.57
477 505 1.115467 GAAGAATCGGAGCAGGGAGA 58.885 55.000 0.00 0.00 0.00 3.71
576 619 4.207891 TGTTCATACCTGAGGAGAAAGC 57.792 45.455 4.99 0.00 31.68 3.51
629 672 4.494690 GCATCCACACAATGACACGATTAG 60.495 45.833 0.00 0.00 0.00 1.73
695 738 2.751166 TCTCTGAACTGCAGCTAACC 57.249 50.000 15.27 0.00 44.52 2.85
770 814 3.825585 TGTCCATCTACAATGCAAAAGCA 59.174 39.130 0.00 0.00 0.00 3.91
771 815 4.439305 TGTCCATCTACAATGCAAAAGC 57.561 40.909 0.00 0.00 0.00 3.51
805 851 1.472480 GACACAGCCGCATAAATTGGT 59.528 47.619 0.00 0.00 0.00 3.67
844 890 1.956477 GCACTGACAACCAAGGTCATT 59.044 47.619 0.00 0.00 43.72 2.57
909 962 7.062322 ACCATGTTCAATGTCCATACACATAT 58.938 34.615 0.00 0.00 38.78 1.78
1057 1112 3.810721 TTTTATTGGGGTTCCGAGGAA 57.189 42.857 0.00 0.00 35.24 3.36
1072 1127 5.367945 TGGTAAGAGCGGAAGGATTTTAT 57.632 39.130 0.00 0.00 0.00 1.40
1090 1145 1.403814 CTGCGGAGAAGAGGATGGTA 58.596 55.000 0.00 0.00 0.00 3.25
1332 1391 2.742856 CGACCAAGCATCATAGAGCCAA 60.743 50.000 0.00 0.00 0.00 4.52
1402 1462 6.737720 ACTGAGATGCATATCCTTACTTGA 57.262 37.500 18.25 0.00 33.64 3.02
1447 1507 6.065374 TGCCAAAAATTCCTAAGTAGACACA 58.935 36.000 0.00 0.00 0.00 3.72
1862 1938 6.652245 AGTTGAATTTGGTAACTAACGAACG 58.348 36.000 0.00 0.00 33.22 3.95
2066 2144 3.648339 ATGACAACATTTCACACAGCC 57.352 42.857 0.00 0.00 32.21 4.85
2177 4880 8.370940 CCTCAGACAGTGTAATACATATGGAAT 58.629 37.037 7.80 0.00 0.00 3.01
2347 5056 4.823989 GGTTTTGCAGATGGCTATGTCTAT 59.176 41.667 0.00 0.00 45.15 1.98
2357 5066 3.947910 ATGAACTGGTTTTGCAGATGG 57.052 42.857 0.00 0.00 0.00 3.51
2454 5254 4.539152 TCGTACGCCGACACTTTC 57.461 55.556 11.24 0.00 41.60 2.62
2604 5415 6.325919 TCAAACACTCATAAATCCACCAAC 57.674 37.500 0.00 0.00 0.00 3.77
2714 5528 1.337728 GGCCATGGCAACCTTTACAAC 60.338 52.381 36.56 12.09 44.11 3.32
2762 5579 2.460757 AATGACCATTTTGCCACTGC 57.539 45.000 0.00 0.00 38.26 4.40
2802 5621 6.019801 CGTTAGTGTTTGGTATGATAGCACTC 60.020 42.308 3.50 1.66 37.05 3.51
2863 5683 2.828868 GGCATCCATCCCAGCGTA 59.171 61.111 0.00 0.00 0.00 4.42
2901 5721 2.646175 GCTGGGCTGACGGTACAGA 61.646 63.158 0.00 0.00 39.94 3.41
3037 5858 0.690762 TACCTGTCAGGACTTTGCCC 59.309 55.000 26.18 0.00 37.67 5.36
3204 6075 5.734720 AGACATGGTAGACAAATACTGTGG 58.265 41.667 0.00 0.00 38.84 4.17
3326 6204 5.662211 ATTTACACTTTGTGTCGGTGTAC 57.338 39.130 6.62 0.00 43.92 2.90
3343 6221 7.308408 GGTGTAGAGTTCAGGAACCAAATTTAC 60.308 40.741 8.47 1.91 42.06 2.01
3434 6327 4.056050 ACCACAGTCAAGTCATCGTAAAC 58.944 43.478 0.00 0.00 0.00 2.01
3583 6489 3.056465 TCAAACACACAGGGTTTTTCCAC 60.056 43.478 0.00 0.00 36.38 4.02
3600 6506 7.059212 CGAAATGCTTTTGAAATCTGTCAAAC 58.941 34.615 1.76 0.00 44.96 2.93
3657 6569 5.930135 ACAGGAATATTCAGCTACCGAAAT 58.070 37.500 17.07 0.00 0.00 2.17
3803 6716 4.263771 GGGTGGGAGACAAGAAGGAAAATA 60.264 45.833 0.00 0.00 0.00 1.40
3808 6721 0.840722 GGGGTGGGAGACAAGAAGGA 60.841 60.000 0.00 0.00 0.00 3.36
3842 6755 2.174210 ACATGATAGCCCATTCAGCACT 59.826 45.455 0.00 0.00 0.00 4.40
3861 6778 2.970324 GGCACTGTTTCGCCGACA 60.970 61.111 0.00 0.00 38.82 4.35
3879 6796 1.429463 AGAGGTTTTGACGATGACGC 58.571 50.000 0.00 0.00 43.96 5.19
3880 6797 3.363970 CCAAAGAGGTTTTGACGATGACG 60.364 47.826 0.00 0.00 45.75 4.35
3881 6798 3.058224 CCCAAAGAGGTTTTGACGATGAC 60.058 47.826 0.00 0.00 34.66 3.06
3917 7132 4.462133 TCCAAAACCGTCTTGAATTGGTA 58.538 39.130 0.00 0.00 38.69 3.25
4091 7410 9.784531 AGTGTCCCACATAAAATAGAAGATATG 57.215 33.333 0.00 0.00 36.74 1.78
4148 7467 8.795786 TGCACTCACATAAACAATAGAAAAAC 57.204 30.769 0.00 0.00 0.00 2.43
4226 7545 6.237490 GGTCTTCGTTATTCATTACACTCACG 60.237 42.308 0.00 0.00 0.00 4.35
4240 7559 5.169295 GCACTTTACAGAGGTCTTCGTTAT 58.831 41.667 0.00 0.00 0.00 1.89
4260 7579 2.529151 CTTTGTGAACACCAACTGCAC 58.471 47.619 2.46 0.00 0.00 4.57
4363 7682 3.305398 AAGAGATGTCAGACGTCCAAC 57.695 47.619 17.80 11.35 34.73 3.77
4392 7712 8.791327 TGTTGAACTCATCATATAACATGTGT 57.209 30.769 0.00 0.00 38.03 3.72
4446 7766 5.452078 AATTCTGCATCCTCGAACAAAAA 57.548 34.783 0.00 0.00 0.00 1.94
4451 7771 3.557595 CACCTAATTCTGCATCCTCGAAC 59.442 47.826 0.00 0.00 0.00 3.95
4454 7774 3.185246 ACACCTAATTCTGCATCCTCG 57.815 47.619 0.00 0.00 0.00 4.63
4456 7776 7.397192 ACATTAAAACACCTAATTCTGCATCCT 59.603 33.333 0.00 0.00 0.00 3.24
4457 7777 7.547227 ACATTAAAACACCTAATTCTGCATCC 58.453 34.615 0.00 0.00 0.00 3.51
4459 7779 9.855021 GTTACATTAAAACACCTAATTCTGCAT 57.145 29.630 0.00 0.00 0.00 3.96
4460 7780 9.073475 AGTTACATTAAAACACCTAATTCTGCA 57.927 29.630 0.00 0.00 0.00 4.41
4535 8182 4.822026 ACTGTAGGACATGCAAGTAGTTC 58.178 43.478 0.00 0.00 0.00 3.01
4582 8229 2.431057 AGTTCAGTGTTTCGGTGAGTCT 59.569 45.455 0.00 0.00 0.00 3.24
4587 8234 3.057734 GACCTAGTTCAGTGTTTCGGTG 58.942 50.000 0.00 0.00 0.00 4.94
4761 8418 4.634012 AAGGTCACAACAAGGTATGCTA 57.366 40.909 0.00 0.00 0.00 3.49
4779 8436 7.860373 TCAAACAACGAATTTCACATCTTAAGG 59.140 33.333 1.85 0.00 0.00 2.69
4870 8536 3.460825 AGAAGTATGGGGAGGCACTTAA 58.539 45.455 0.00 0.00 41.55 1.85
4871 8537 3.130734 AGAAGTATGGGGAGGCACTTA 57.869 47.619 0.00 0.00 41.55 2.24
4920 8588 5.590259 CCTGATAAGGACCAAACCACATTAG 59.410 44.000 0.00 0.00 0.00 1.73
5316 9012 3.741344 CACAAGTGAGCCAGTGTTAGTAC 59.259 47.826 0.00 0.00 0.00 2.73
5330 9026 8.671384 ATTAACTAGTTAGCAAACACAAGTGA 57.329 30.769 14.73 0.00 38.12 3.41
5497 9215 3.432517 CTCTTCAAGAGCAGGACCG 57.567 57.895 0.18 0.00 35.30 4.79
5865 9597 8.996651 ATTCCGAGGATAAATAAACAAGGAAT 57.003 30.769 0.00 0.00 39.19 3.01
6004 9781 7.939784 AAAAAGAATCCTACCACATCCTAAC 57.060 36.000 0.00 0.00 0.00 2.34
6028 9990 8.140677 CAAGCATTTTCTTGTTATTTGGTCAA 57.859 30.769 0.00 0.00 38.81 3.18
6029 9991 7.712264 CAAGCATTTTCTTGTTATTTGGTCA 57.288 32.000 0.00 0.00 38.81 4.02
6052 10015 0.740868 GCTGCATCGCTCTACCAACA 60.741 55.000 0.00 0.00 0.00 3.33
6070 10033 6.768029 TTCAACAATGTTTTAAGCATCAGC 57.232 33.333 0.00 0.00 42.56 4.26
6150 10115 8.253113 ACCAAGGCATAATCTATTCAACAAAAG 58.747 33.333 0.00 0.00 0.00 2.27
6210 10175 9.638176 AATGATTTTGATTACTTCTCAGCCTAT 57.362 29.630 0.00 0.00 0.00 2.57
6259 10227 9.891828 CAGCGATAAATACATTAAGGCATTTTA 57.108 29.630 3.82 0.00 31.66 1.52
6321 10297 0.392863 ATAATCACAGCACAGCCGCA 60.393 50.000 0.00 0.00 0.00 5.69
6391 10376 3.159213 TCTGTTGCAGATGAAATGGGT 57.841 42.857 0.00 0.00 35.39 4.51
6463 10448 6.298361 TGGACAATGAGTACAATATCCATGG 58.702 40.000 4.97 4.97 38.41 3.66
6505 10491 5.065731 GCTGCACAAGTTAAAGCTATCAGAT 59.934 40.000 0.00 0.00 0.00 2.90
6717 10703 1.746470 GCGCCCTAACATACTGGTTT 58.254 50.000 0.00 0.00 32.29 3.27
7062 11408 3.861840 TCTGCATACTGCTTGGTTAGAC 58.138 45.455 0.34 0.00 45.31 2.59
7410 11901 5.980698 AGCTCAAGAATTCGACATATGTG 57.019 39.130 14.43 6.04 0.00 3.21
7411 11902 5.233050 CGAAGCTCAAGAATTCGACATATGT 59.767 40.000 8.43 8.43 46.57 2.29
7412 11903 5.233050 ACGAAGCTCAAGAATTCGACATATG 59.767 40.000 18.59 0.00 46.57 1.78
7430 11921 5.560378 CACTATTCGAAGTTTCAAACGAAGC 59.440 40.000 3.35 0.00 45.24 3.86
7477 11968 8.483307 AATCATGCCAAATTCACTTATTTGTC 57.517 30.769 0.00 0.00 41.67 3.18
7581 12487 0.536006 AGGGCACTTCTCACTGCAAC 60.536 55.000 0.00 0.00 34.90 4.17
7587 12493 1.070758 TCAGTTCAGGGCACTTCTCAC 59.929 52.381 0.00 0.00 0.00 3.51
7597 12503 8.792830 TCAGATTTTAAATACTCAGTTCAGGG 57.207 34.615 0.00 0.00 0.00 4.45
7633 12539 3.942130 AACAGCCAGAATAAAACCTGC 57.058 42.857 0.00 0.00 0.00 4.85
7696 12603 1.970917 GCCATCTTGGACGCAACTCG 61.971 60.000 0.00 0.00 40.96 4.18
7918 12828 6.017605 CCTTTGAAGCTAATTACTGCGATGAT 60.018 38.462 0.00 0.00 0.00 2.45
7923 12833 3.375299 AGCCTTTGAAGCTAATTACTGCG 59.625 43.478 0.00 0.00 39.29 5.18
7948 12858 6.096001 AGGAACAAATGAACAGATAATCAGCC 59.904 38.462 0.00 0.00 0.00 4.85
7979 12889 6.472016 TGGTTTATTGCTTCTCAGATGTACA 58.528 36.000 0.00 0.00 0.00 2.90
8067 12977 7.041721 TCACAAGGAATACATCTCACATGTAC 58.958 38.462 0.00 0.00 37.33 2.90
8098 13008 1.407258 ACAGCTCCTCGAGATAGCAAC 59.593 52.381 29.55 10.81 38.75 4.17
8109 13019 4.999950 TGATTCTTCAAAGAACAGCTCCTC 59.000 41.667 7.32 1.22 46.80 3.71
8110 13020 4.978099 TGATTCTTCAAAGAACAGCTCCT 58.022 39.130 7.32 0.00 46.80 3.69
8111 13021 5.471456 TCTTGATTCTTCAAAGAACAGCTCC 59.529 40.000 7.32 0.00 46.80 4.70
8165 13075 3.744719 TCCAAGCGGACCGAGACG 61.745 66.667 20.50 1.80 35.91 4.18
8180 13090 3.366739 GACACATCCCCGTCCGTCC 62.367 68.421 0.00 0.00 0.00 4.79
8203 13113 5.009010 ACATGCAACAGTAAAAGAGTGAAGG 59.991 40.000 0.00 0.00 32.27 3.46
8250 13173 4.461781 ACTTGCACGGTAACTACTGTAGAT 59.538 41.667 21.01 12.01 43.57 1.98
8251 13174 3.822735 ACTTGCACGGTAACTACTGTAGA 59.177 43.478 21.01 0.00 43.57 2.59
8252 13175 3.918591 CACTTGCACGGTAACTACTGTAG 59.081 47.826 13.13 13.13 43.57 2.74
8253 13176 3.569277 TCACTTGCACGGTAACTACTGTA 59.431 43.478 1.05 0.00 43.57 2.74
8254 13177 2.363038 TCACTTGCACGGTAACTACTGT 59.637 45.455 0.00 0.00 46.16 3.55
8255 13178 2.729882 GTCACTTGCACGGTAACTACTG 59.270 50.000 0.00 0.00 38.52 2.74
8256 13179 2.626743 AGTCACTTGCACGGTAACTACT 59.373 45.455 0.00 0.00 0.00 2.57
8257 13180 3.022607 AGTCACTTGCACGGTAACTAC 57.977 47.619 0.00 0.00 0.00 2.73
8298 13221 0.482887 AAACAAGGAAGGGGGTCCAG 59.517 55.000 0.00 0.00 40.48 3.86
8331 13254 8.938801 TTATATGTACTAATAGTGTTCCGGGA 57.061 34.615 0.00 0.00 0.00 5.14
8397 13325 6.882140 TCAGCCATGTTAATATTTATACGGGG 59.118 38.462 0.00 0.00 0.00 5.73
8587 13686 2.939756 TGTATGTGTGCGCCGATTAAAT 59.060 40.909 4.18 0.00 0.00 1.40
8595 13694 2.485122 GGCTTGTATGTGTGCGCC 59.515 61.111 4.18 0.00 0.00 6.53
8649 13749 4.503296 GGCTTCAAGTAGGTCACTCAGAAA 60.503 45.833 0.00 0.00 36.04 2.52
8653 13753 2.563179 GAGGCTTCAAGTAGGTCACTCA 59.437 50.000 0.00 0.00 36.04 3.41
8654 13754 2.093921 GGAGGCTTCAAGTAGGTCACTC 60.094 54.545 0.00 0.00 36.04 3.51
8694 13794 1.298788 GCTCTCTACGCTTCGGAGC 60.299 63.158 5.31 5.31 45.65 4.70
8695 13795 1.010574 CGCTCTCTACGCTTCGGAG 60.011 63.158 0.00 0.00 39.48 4.63
8716 13816 6.258287 CCACTCAATTCAATTCAGTGCAAAAA 59.742 34.615 8.59 0.00 34.34 1.94
8730 13830 3.330405 TGATTGGGACTCCACTCAATTCA 59.670 43.478 3.47 0.00 45.78 2.57
8738 13838 1.281867 TGATGGTGATTGGGACTCCAC 59.718 52.381 0.00 0.00 43.94 4.02
8765 13866 3.002102 GGCCCGTCTTAAATTCGTTACA 58.998 45.455 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.