Multiple sequence alignment - TraesCS6A01G369400

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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 TraesCS6A01G369400 chr6A 100.000 3884 0 0 1 3884 594975132 594979015 0.000000e+00 7173
1 TraesCS6A01G369400 chr6A 79.634 1149 178 31 327 1446 594953389 594954510 0.000000e+00 774
2 TraesCS6A01G369400 chr6A 82.614 834 127 12 1579 2404 24243702 24244525 0.000000e+00 721
3 TraesCS6A01G369400 chr6A 85.629 501 47 8 383 859 6442272 6442771 1.610000e-138 503
4 TraesCS6A01G369400 chr6A 81.416 565 92 7 1808 2361 594859215 594859777 2.130000e-122 449
5 TraesCS6A01G369400 chr6A 86.076 237 29 4 749 983 24242767 24243001 6.440000e-63 252
6 TraesCS6A01G369400 chr6D 95.350 3376 110 17 89 3423 448898839 448902208 0.000000e+00 5321
7 TraesCS6A01G369400 chr6D 92.157 510 40 0 3375 3884 448617200 448616691 0.000000e+00 721
8 TraesCS6A01G369400 chr6D 91.033 368 33 0 3494 3861 448902209 448902576 7.490000e-137 497
9 TraesCS6A01G369400 chr6D 98.253 229 3 1 2735 2963 448617433 448617206 2.170000e-107 399
10 TraesCS6A01G369400 chr6D 76.345 799 158 19 749 1533 449776035 449776816 2.170000e-107 399
11 TraesCS6A01G369400 chr6D 77.358 477 87 11 1838 2310 449384761 449385220 2.980000e-66 263
12 TraesCS6A01G369400 chr6D 98.039 102 2 0 1 102 448894137 448894238 1.110000e-40 178
13 TraesCS6A01G369400 chr6B 82.090 1206 185 21 1210 2404 42684524 42685709 0.000000e+00 1002
14 TraesCS6A01G369400 chr6B 80.582 1272 184 36 327 1566 680704555 680705795 0.000000e+00 922
15 TraesCS6A01G369400 chr6B 82.239 777 123 13 1593 2361 680705875 680706644 0.000000e+00 656
16 TraesCS6A01G369400 chr6B 75.469 799 168 18 749 1533 681205135 681205919 7.930000e-97 364
17 TraesCS6A01G369400 chr6B 73.842 799 165 29 1570 2357 681206005 681206770 1.060000e-70 278
18 TraesCS6A01G369400 chrUn 82.854 834 122 15 1579 2404 93757210 93758030 0.000000e+00 728
19 TraesCS6A01G369400 chr1D 87.174 499 39 6 383 857 416125308 416125805 9.490000e-151 544
20 TraesCS6A01G369400 chr1D 85.408 233 23 8 2714 2945 452588766 452588544 8.390000e-57 231
21 TraesCS6A01G369400 chr5B 85.000 500 49 11 383 857 660797430 660797928 5.830000e-133 484
22 TraesCS6A01G369400 chr1B 84.211 247 27 6 2699 2944 622608421 622608186 3.020000e-56 230
23 TraesCS6A01G369400 chr5A 93.151 73 5 0 3595 3667 657430125 657430197 1.480000e-19 108
24 TraesCS6A01G369400 chr2A 80.374 107 13 3 2320 2422 78597832 78597934 1.500000e-09 75


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 TraesCS6A01G369400 chr6A 594975132 594979015 3883 False 7173.0 7173 100.0000 1 3884 1 chr6A.!!$F4 3883
1 TraesCS6A01G369400 chr6A 594953389 594954510 1121 False 774.0 774 79.6340 327 1446 1 chr6A.!!$F3 1119
2 TraesCS6A01G369400 chr6A 24242767 24244525 1758 False 486.5 721 84.3450 749 2404 2 chr6A.!!$F5 1655
3 TraesCS6A01G369400 chr6A 594859215 594859777 562 False 449.0 449 81.4160 1808 2361 1 chr6A.!!$F2 553
4 TraesCS6A01G369400 chr6D 448898839 448902576 3737 False 2909.0 5321 93.1915 89 3861 2 chr6D.!!$F4 3772
5 TraesCS6A01G369400 chr6D 448616691 448617433 742 True 560.0 721 95.2050 2735 3884 2 chr6D.!!$R1 1149
6 TraesCS6A01G369400 chr6D 449776035 449776816 781 False 399.0 399 76.3450 749 1533 1 chr6D.!!$F3 784
7 TraesCS6A01G369400 chr6B 42684524 42685709 1185 False 1002.0 1002 82.0900 1210 2404 1 chr6B.!!$F1 1194
8 TraesCS6A01G369400 chr6B 680704555 680706644 2089 False 789.0 922 81.4105 327 2361 2 chr6B.!!$F2 2034
9 TraesCS6A01G369400 chr6B 681205135 681206770 1635 False 321.0 364 74.6555 749 2357 2 chr6B.!!$F3 1608
10 TraesCS6A01G369400 chrUn 93757210 93758030 820 False 728.0 728 82.8540 1579 2404 1 chrUn.!!$F1 825

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
87 88 0.035439 TTGCTCTAAAGGAAGGGGCG 60.035 55.000 0.0 0.00 0.00 6.13 F
162 163 0.861837 CTCGCCGATGAATGCCTTAC 59.138 55.000 0.0 0.00 0.00 2.34 F
290 291 1.002142 ACGGCTTTGTAGAAAAACGGC 60.002 47.619 11.3 0.89 0.00 5.68 F
860 899 1.303888 CCACCAGCCTGCACTTCAT 60.304 57.895 0.0 0.00 0.00 2.57 F
1857 2043 2.028930 CCAGCTTATCTACCGATGGGAC 60.029 54.545 0.0 0.00 36.97 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1537 1652 2.159572 GCAAGCGTACCATTACAGGTTG 60.160 50.000 0.00 11.04 43.08 3.77 R
1819 2005 5.023533 AGCTGGACATATTACACGTGAAT 57.976 39.130 25.01 18.48 0.00 2.57 R
1840 2026 6.568081 CGTTCTAAGTCCCATCGGTAGATAAG 60.568 46.154 0.00 0.00 34.85 1.73 R
2607 2833 1.765314 AGCCATCAGACGCCTAAAGAT 59.235 47.619 0.00 0.00 0.00 2.40 R
3562 3789 0.253044 AGTCGTATTGTGCTGCCCAT 59.747 50.000 0.00 0.00 0.00 4.00 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 2.754375 TGCCCTTCCCGTTCTTCC 59.246 61.111 0.00 0.00 0.00 3.46
18 19 2.150719 TGCCCTTCCCGTTCTTCCA 61.151 57.895 0.00 0.00 0.00 3.53
19 20 1.674651 GCCCTTCCCGTTCTTCCAC 60.675 63.158 0.00 0.00 0.00 4.02
20 21 1.002502 CCCTTCCCGTTCTTCCACC 60.003 63.158 0.00 0.00 0.00 4.61
21 22 1.758592 CCTTCCCGTTCTTCCACCA 59.241 57.895 0.00 0.00 0.00 4.17
22 23 0.321653 CCTTCCCGTTCTTCCACCAG 60.322 60.000 0.00 0.00 0.00 4.00
23 24 0.396811 CTTCCCGTTCTTCCACCAGT 59.603 55.000 0.00 0.00 0.00 4.00
24 25 0.107831 TTCCCGTTCTTCCACCAGTG 59.892 55.000 0.00 0.00 0.00 3.66
25 26 1.966451 CCCGTTCTTCCACCAGTGC 60.966 63.158 0.00 0.00 0.00 4.40
26 27 1.227823 CCGTTCTTCCACCAGTGCA 60.228 57.895 0.00 0.00 0.00 4.57
27 28 1.507141 CCGTTCTTCCACCAGTGCAC 61.507 60.000 9.40 9.40 0.00 4.57
28 29 1.831389 CGTTCTTCCACCAGTGCACG 61.831 60.000 12.01 6.45 0.00 5.34
29 30 0.531974 GTTCTTCCACCAGTGCACGA 60.532 55.000 12.01 0.00 0.00 4.35
30 31 0.531974 TTCTTCCACCAGTGCACGAC 60.532 55.000 12.01 0.00 0.00 4.34
31 32 1.069765 CTTCCACCAGTGCACGACT 59.930 57.895 12.01 0.00 34.02 4.18
32 33 0.946221 CTTCCACCAGTGCACGACTC 60.946 60.000 12.01 0.00 29.75 3.36
33 34 1.399744 TTCCACCAGTGCACGACTCT 61.400 55.000 12.01 0.00 29.75 3.24
34 35 0.538746 TCCACCAGTGCACGACTCTA 60.539 55.000 12.01 0.00 29.75 2.43
35 36 0.109086 CCACCAGTGCACGACTCTAG 60.109 60.000 12.01 0.00 29.75 2.43
36 37 0.109086 CACCAGTGCACGACTCTAGG 60.109 60.000 12.01 8.43 29.75 3.02
37 38 0.539901 ACCAGTGCACGACTCTAGGT 60.540 55.000 12.01 9.05 29.75 3.08
38 39 1.271762 ACCAGTGCACGACTCTAGGTA 60.272 52.381 12.01 0.00 29.75 3.08
39 40 1.816835 CCAGTGCACGACTCTAGGTAA 59.183 52.381 12.01 0.00 29.75 2.85
40 41 2.159366 CCAGTGCACGACTCTAGGTAAG 60.159 54.545 12.01 0.00 29.75 2.34
41 42 2.093106 AGTGCACGACTCTAGGTAAGG 58.907 52.381 12.01 0.00 0.00 2.69
42 43 1.817447 GTGCACGACTCTAGGTAAGGT 59.183 52.381 0.00 0.00 0.00 3.50
43 44 1.816835 TGCACGACTCTAGGTAAGGTG 59.183 52.381 0.00 0.00 0.00 4.00
44 45 2.089980 GCACGACTCTAGGTAAGGTGA 58.910 52.381 0.00 0.00 0.00 4.02
45 46 2.688958 GCACGACTCTAGGTAAGGTGAT 59.311 50.000 0.00 0.00 0.00 3.06
46 47 3.489398 GCACGACTCTAGGTAAGGTGATG 60.489 52.174 0.00 0.00 0.00 3.07
47 48 3.695060 CACGACTCTAGGTAAGGTGATGT 59.305 47.826 0.00 0.00 0.00 3.06
48 49 4.158025 CACGACTCTAGGTAAGGTGATGTT 59.842 45.833 0.00 0.00 0.00 2.71
49 50 4.158025 ACGACTCTAGGTAAGGTGATGTTG 59.842 45.833 0.00 0.00 0.00 3.33
50 51 4.434520 GACTCTAGGTAAGGTGATGTTGC 58.565 47.826 0.00 0.00 0.00 4.17
51 52 3.838317 ACTCTAGGTAAGGTGATGTTGCA 59.162 43.478 0.00 0.00 0.00 4.08
52 53 4.471386 ACTCTAGGTAAGGTGATGTTGCAT 59.529 41.667 0.00 0.00 0.00 3.96
53 54 5.045578 ACTCTAGGTAAGGTGATGTTGCATT 60.046 40.000 0.00 0.00 0.00 3.56
54 55 5.428253 TCTAGGTAAGGTGATGTTGCATTC 58.572 41.667 0.00 0.00 0.00 2.67
55 56 4.307032 AGGTAAGGTGATGTTGCATTCT 57.693 40.909 0.00 0.00 0.00 2.40
56 57 4.666512 AGGTAAGGTGATGTTGCATTCTT 58.333 39.130 0.00 0.00 0.00 2.52
57 58 4.702131 AGGTAAGGTGATGTTGCATTCTTC 59.298 41.667 0.00 0.00 0.00 2.87
58 59 4.702131 GGTAAGGTGATGTTGCATTCTTCT 59.298 41.667 0.00 0.00 0.00 2.85
59 60 5.183904 GGTAAGGTGATGTTGCATTCTTCTT 59.816 40.000 0.00 0.00 0.00 2.52
60 61 5.796424 AAGGTGATGTTGCATTCTTCTTT 57.204 34.783 0.00 0.00 0.00 2.52
61 62 5.796424 AGGTGATGTTGCATTCTTCTTTT 57.204 34.783 0.00 0.00 0.00 2.27
62 63 5.776744 AGGTGATGTTGCATTCTTCTTTTC 58.223 37.500 0.00 0.00 0.00 2.29
63 64 5.537674 AGGTGATGTTGCATTCTTCTTTTCT 59.462 36.000 0.00 0.00 0.00 2.52
64 65 6.041296 AGGTGATGTTGCATTCTTCTTTTCTT 59.959 34.615 0.00 0.00 0.00 2.52
65 66 6.145048 GGTGATGTTGCATTCTTCTTTTCTTG 59.855 38.462 0.00 0.00 0.00 3.02
66 67 6.698766 GTGATGTTGCATTCTTCTTTTCTTGT 59.301 34.615 0.00 0.00 0.00 3.16
67 68 7.223387 GTGATGTTGCATTCTTCTTTTCTTGTT 59.777 33.333 0.00 0.00 0.00 2.83
68 69 7.765360 TGATGTTGCATTCTTCTTTTCTTGTTT 59.235 29.630 0.00 0.00 0.00 2.83
69 70 7.903995 TGTTGCATTCTTCTTTTCTTGTTTT 57.096 28.000 0.00 0.00 0.00 2.43
70 71 7.741198 TGTTGCATTCTTCTTTTCTTGTTTTG 58.259 30.769 0.00 0.00 0.00 2.44
71 72 6.348621 TGCATTCTTCTTTTCTTGTTTTGC 57.651 33.333 0.00 0.00 0.00 3.68
72 73 6.108015 TGCATTCTTCTTTTCTTGTTTTGCT 58.892 32.000 0.00 0.00 0.00 3.91
73 74 6.256321 TGCATTCTTCTTTTCTTGTTTTGCTC 59.744 34.615 0.00 0.00 0.00 4.26
74 75 6.478016 GCATTCTTCTTTTCTTGTTTTGCTCT 59.522 34.615 0.00 0.00 0.00 4.09
75 76 7.649306 GCATTCTTCTTTTCTTGTTTTGCTCTA 59.351 33.333 0.00 0.00 0.00 2.43
76 77 9.520204 CATTCTTCTTTTCTTGTTTTGCTCTAA 57.480 29.630 0.00 0.00 0.00 2.10
78 79 9.573133 TTCTTCTTTTCTTGTTTTGCTCTAAAG 57.427 29.630 0.00 0.00 0.00 1.85
79 80 8.190784 TCTTCTTTTCTTGTTTTGCTCTAAAGG 58.809 33.333 0.00 0.00 0.00 3.11
80 81 7.639113 TCTTTTCTTGTTTTGCTCTAAAGGA 57.361 32.000 0.00 0.00 0.00 3.36
81 82 8.062065 TCTTTTCTTGTTTTGCTCTAAAGGAA 57.938 30.769 0.00 0.00 0.00 3.36
82 83 8.190784 TCTTTTCTTGTTTTGCTCTAAAGGAAG 58.809 33.333 0.00 0.00 34.04 3.46
83 84 6.391227 TTCTTGTTTTGCTCTAAAGGAAGG 57.609 37.500 0.00 0.00 34.04 3.46
84 85 4.827284 TCTTGTTTTGCTCTAAAGGAAGGG 59.173 41.667 0.00 0.00 34.04 3.95
85 86 3.496331 TGTTTTGCTCTAAAGGAAGGGG 58.504 45.455 0.00 0.00 34.04 4.79
86 87 2.215942 TTTGCTCTAAAGGAAGGGGC 57.784 50.000 0.00 0.00 34.04 5.80
87 88 0.035439 TTGCTCTAAAGGAAGGGGCG 60.035 55.000 0.00 0.00 0.00 6.13
110 111 5.345472 CGAAATCAGATGATTCCTCGATCTG 59.655 44.000 18.27 0.00 42.66 2.90
117 118 3.371034 TGATTCCTCGATCTGGTTGGTA 58.629 45.455 0.00 0.00 0.00 3.25
162 163 0.861837 CTCGCCGATGAATGCCTTAC 59.138 55.000 0.00 0.00 0.00 2.34
178 179 3.563223 CCTTACTGGGGAAGATCTCGTA 58.437 50.000 0.00 0.00 0.00 3.43
192 193 7.806014 GGAAGATCTCGTAGAAATATCACAGAC 59.194 40.741 0.00 0.00 34.09 3.51
209 210 2.854777 CAGACGATCTTGTGGAACGATC 59.145 50.000 0.00 0.00 41.72 3.69
222 223 4.023193 GTGGAACGATCTTGTGGATTTTGT 60.023 41.667 0.00 0.00 34.33 2.83
234 235 7.916450 TCTTGTGGATTTTGTTTTTAACCTACG 59.084 33.333 0.00 0.00 0.00 3.51
278 279 2.577449 AAAGTGGAACAACGGCTTTG 57.423 45.000 1.72 1.72 44.16 2.77
290 291 1.002142 ACGGCTTTGTAGAAAAACGGC 60.002 47.619 11.30 0.89 0.00 5.68
306 307 4.639189 AACGGCGTTTTGAAATATTTGC 57.361 36.364 21.19 1.42 0.00 3.68
317 318 5.957842 TGAAATATTTGCGGACTGTTCTT 57.042 34.783 5.17 0.00 0.00 2.52
455 468 9.059260 ACGATTTCATGATCATGACAATAATGA 57.941 29.630 33.02 16.41 46.49 2.57
509 527 5.826643 TGCTCTCCCTTGTGGTTTAAATAT 58.173 37.500 0.00 0.00 34.77 1.28
579 597 3.550431 GGCGGCCAGAGCATCCTA 61.550 66.667 15.62 0.00 42.56 2.94
626 644 6.601332 TCCATTTTCTTAAGACCTTGTCACT 58.399 36.000 4.18 0.00 34.60 3.41
629 647 7.229506 CCATTTTCTTAAGACCTTGTCACTCTT 59.770 37.037 4.18 0.00 34.60 2.85
633 651 7.776618 TCTTAAGACCTTGTCACTCTTATCA 57.223 36.000 0.00 0.00 34.60 2.15
762 801 2.997897 AGTGACCTCCTCCGGCAC 60.998 66.667 0.00 0.00 33.87 5.01
860 899 1.303888 CCACCAGCCTGCACTTCAT 60.304 57.895 0.00 0.00 0.00 2.57
1000 1096 4.684724 AGACTTATACACCAACCCTGAGA 58.315 43.478 0.00 0.00 0.00 3.27
1253 1361 5.654603 TCCAAATCACTAAAGCGTCTCTA 57.345 39.130 0.00 0.00 0.00 2.43
1383 1492 5.416013 TGAGGATATGCCATCTCTAGTAACG 59.584 44.000 0.00 0.00 40.02 3.18
1476 1585 6.038271 GTGAATGTGGTTGTCATACTTATCCC 59.962 42.308 0.00 0.00 0.00 3.85
1537 1652 6.072508 TGTTGTCAATTTGGAGTTGATAGCTC 60.073 38.462 0.00 0.00 37.84 4.09
1819 2005 8.824756 TCTTGAGCCTTATACTTCTCTTTCTA 57.175 34.615 0.00 0.00 0.00 2.10
1840 2026 6.213677 TCTATTCACGTGTAATATGTCCAGC 58.786 40.000 16.51 0.00 0.00 4.85
1857 2043 2.028930 CCAGCTTATCTACCGATGGGAC 60.029 54.545 0.00 0.00 36.97 4.46
2375 2576 3.685756 ACATTAACCCGTGTATGAAACCG 59.314 43.478 0.00 0.00 0.00 4.44
2390 2591 6.704512 ATGAAACCGTTTGCAAAACATATC 57.295 33.333 14.67 10.49 0.00 1.63
2405 2606 7.880195 GCAAAACATATCTGTATCCAGTATCCT 59.120 37.037 0.00 0.00 39.82 3.24
2449 2675 5.819379 GGTTGATGAAGATAGCAGATGTTCA 59.181 40.000 11.87 11.87 36.08 3.18
2470 2696 9.787435 TGTTCATGTTCCTAAATGTAGTTTAGT 57.213 29.630 6.76 0.00 45.10 2.24
2498 2724 5.794894 CTTCCAGTTGGTAGATTACACTGT 58.205 41.667 0.00 0.00 34.90 3.55
2523 2749 8.295288 GTCATCTATTCAGCAAGGATTAAATGG 58.705 37.037 0.00 0.00 0.00 3.16
2533 2759 7.703621 CAGCAAGGATTAAATGGTGTTTATCTG 59.296 37.037 0.00 0.00 37.68 2.90
2534 2760 6.476706 GCAAGGATTAAATGGTGTTTATCTGC 59.523 38.462 0.00 0.00 0.00 4.26
2540 2766 5.446143 AAATGGTGTTTATCTGCGTTTGA 57.554 34.783 0.00 0.00 0.00 2.69
2574 2800 4.693566 TCAGTTTTACTGTTATTCCCAGCG 59.306 41.667 6.71 0.00 46.03 5.18
2595 2821 3.428870 CGTATCGTCAGTGTGAAGCTTTT 59.571 43.478 0.00 0.00 0.00 2.27
2602 2828 4.570772 GTCAGTGTGAAGCTTTTGTGAGTA 59.429 41.667 0.00 0.00 0.00 2.59
2607 2833 8.128582 CAGTGTGAAGCTTTTGTGAGTATTAAA 58.871 33.333 0.00 0.00 0.00 1.52
2627 2853 1.195115 TCTTTAGGCGTCTGATGGCT 58.805 50.000 26.25 26.25 43.00 4.75
2667 2893 6.418057 AACAAAGATAATTGGTCAAGGCAA 57.582 33.333 0.00 0.00 34.56 4.52
2673 2899 7.243604 AGATAATTGGTCAAGGCAATTTGAA 57.756 32.000 0.00 0.00 38.69 2.69
2677 2903 4.952071 TGGTCAAGGCAATTTGAATTCA 57.048 36.364 3.38 3.38 38.69 2.57
2965 3191 4.453177 ACTCGCTACCTTTAGTTTCTCC 57.547 45.455 0.00 0.00 0.00 3.71
2967 3193 2.165030 TCGCTACCTTTAGTTTCTCCCG 59.835 50.000 0.00 0.00 0.00 5.14
2978 3204 2.076863 GTTTCTCCCGTCCATCTGTTG 58.923 52.381 0.00 0.00 0.00 3.33
3002 3228 5.358725 GGTCTTGTGTTGGAACCTTTTCTTA 59.641 40.000 0.00 0.00 31.71 2.10
3017 3243 2.953466 TCTTAGTTGTTAGGCGCGAT 57.047 45.000 12.10 0.00 0.00 4.58
3027 3253 0.885879 TAGGCGCGATTCGTCCATAT 59.114 50.000 12.10 4.49 45.48 1.78
3098 3324 4.539870 ACTCAGAACATTGCATTGTTTCG 58.460 39.130 23.63 18.09 39.85 3.46
3105 3331 5.643379 ACATTGCATTGTTTCGGTTATCT 57.357 34.783 8.41 0.00 0.00 1.98
3113 3339 6.404293 GCATTGTTTCGGTTATCTGTAATGGT 60.404 38.462 0.00 0.00 0.00 3.55
3114 3340 7.535139 CATTGTTTCGGTTATCTGTAATGGTT 58.465 34.615 0.00 0.00 0.00 3.67
3125 3351 1.841277 TGTAATGGTTATCGGGCTGGT 59.159 47.619 0.00 0.00 0.00 4.00
3126 3352 2.240160 TGTAATGGTTATCGGGCTGGTT 59.760 45.455 0.00 0.00 0.00 3.67
3127 3353 1.762708 AATGGTTATCGGGCTGGTTG 58.237 50.000 0.00 0.00 0.00 3.77
3150 3377 4.273318 GCCCTATTTGAGTCCATGAGTTT 58.727 43.478 0.00 0.00 0.00 2.66
3154 3381 6.884295 CCCTATTTGAGTCCATGAGTTTTACA 59.116 38.462 0.00 0.00 0.00 2.41
3163 3390 6.833933 AGTCCATGAGTTTTACAGGAGTTTTT 59.166 34.615 0.00 0.00 0.00 1.94
3204 3431 4.031611 ACCTGAACCTGGTATAAGGAGTC 58.968 47.826 22.37 6.65 40.02 3.36
3205 3432 4.030913 CCTGAACCTGGTATAAGGAGTCA 58.969 47.826 14.24 5.26 40.02 3.41
3269 3496 4.096003 TAGCAGCAAGGTCGGGCC 62.096 66.667 0.00 0.00 37.58 5.80
3288 3515 2.939640 GCCATCACCTTCATTGGTACGT 60.940 50.000 0.00 0.00 38.45 3.57
3326 3553 2.821366 GCACGATGGCCCTCACTG 60.821 66.667 8.86 3.87 0.00 3.66
3336 3563 3.131850 CCCTCACTGGCACCTTTTT 57.868 52.632 0.00 0.00 0.00 1.94
3358 3585 3.627577 TCTGAAGTGCCAGTTTGAACTTC 59.372 43.478 5.17 5.17 45.62 3.01
3462 3689 2.825836 CCCCGCACAATCTCTGGC 60.826 66.667 0.00 0.00 0.00 4.85
3501 3728 1.745653 GCTAGAAATGCCAACAGACCC 59.254 52.381 0.00 0.00 0.00 4.46
3513 3740 0.039764 ACAGACCCGAGGAGTGATGA 59.960 55.000 0.00 0.00 0.00 2.92
3519 3746 1.003118 CCCGAGGAGTGATGAAAACCA 59.997 52.381 0.00 0.00 0.00 3.67
3528 3755 5.241403 AGTGATGAAAACCACCTGACATA 57.759 39.130 0.00 0.00 34.00 2.29
3562 3789 4.922471 TCATGATACGTTACCATCGGAA 57.078 40.909 0.00 0.00 0.00 4.30
3576 3803 0.254462 TCGGAATGGGCAGCACAATA 59.746 50.000 0.00 0.00 0.00 1.90
3587 3814 0.673644 AGCACAATACGACTGTGGCC 60.674 55.000 14.76 0.00 43.61 5.36
3667 3894 1.740025 GGGCATGGAACGAGAAAGAAG 59.260 52.381 0.00 0.00 0.00 2.85
3668 3895 1.131315 GGCATGGAACGAGAAAGAAGC 59.869 52.381 0.00 0.00 0.00 3.86
3669 3896 2.079925 GCATGGAACGAGAAAGAAGCT 58.920 47.619 0.00 0.00 0.00 3.74
3711 3938 0.893270 ACCGCCTGCATGCAACTTTA 60.893 50.000 22.88 0.00 0.00 1.85
3765 3992 3.661745 GGCAACGACGATGTAGGAT 57.338 52.632 0.00 0.00 0.00 3.24
3780 4007 2.186903 GATGCGTGGACGGTGGAT 59.813 61.111 0.71 0.00 40.23 3.41
3781 4008 1.883084 GATGCGTGGACGGTGGATC 60.883 63.158 0.71 0.00 40.23 3.36
3809 4036 4.394712 GCGTGTGGACCAGGGGAG 62.395 72.222 0.00 0.00 0.00 4.30
3810 4037 2.923035 CGTGTGGACCAGGGGAGT 60.923 66.667 0.00 0.00 0.00 3.85
3832 4059 3.086818 CGGGTTGTTTCCGTGAAAAAT 57.913 42.857 1.37 0.00 42.33 1.82
3845 4072 3.068873 CGTGAAAAATGAGGGGTTTTCCA 59.931 43.478 6.45 0.00 41.15 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.150719 TGGAAGAACGGGAAGGGCA 61.151 57.895 0.00 0.00 0.00 5.36
1 2 1.674651 GTGGAAGAACGGGAAGGGC 60.675 63.158 0.00 0.00 0.00 5.19
2 3 1.002502 GGTGGAAGAACGGGAAGGG 60.003 63.158 0.00 0.00 0.00 3.95
3 4 0.321653 CTGGTGGAAGAACGGGAAGG 60.322 60.000 0.00 0.00 0.00 3.46
4 5 0.396811 ACTGGTGGAAGAACGGGAAG 59.603 55.000 0.00 0.00 0.00 3.46
5 6 0.107831 CACTGGTGGAAGAACGGGAA 59.892 55.000 0.00 0.00 0.00 3.97
6 7 1.752198 CACTGGTGGAAGAACGGGA 59.248 57.895 0.00 0.00 0.00 5.14
7 8 1.966451 GCACTGGTGGAAGAACGGG 60.966 63.158 2.84 0.00 0.00 5.28
8 9 1.227823 TGCACTGGTGGAAGAACGG 60.228 57.895 2.84 0.00 0.00 4.44
9 10 1.831389 CGTGCACTGGTGGAAGAACG 61.831 60.000 16.19 0.00 32.79 3.95
10 11 0.531974 TCGTGCACTGGTGGAAGAAC 60.532 55.000 16.19 0.00 36.63 3.01
11 12 0.531974 GTCGTGCACTGGTGGAAGAA 60.532 55.000 16.19 0.00 40.40 2.52
12 13 1.069090 GTCGTGCACTGGTGGAAGA 59.931 57.895 16.19 6.75 37.12 2.87
13 14 0.946221 GAGTCGTGCACTGGTGGAAG 60.946 60.000 16.19 2.58 34.41 3.46
14 15 1.069090 GAGTCGTGCACTGGTGGAA 59.931 57.895 16.19 0.00 34.41 3.53
15 16 0.538746 TAGAGTCGTGCACTGGTGGA 60.539 55.000 16.19 0.73 34.41 4.02
16 17 0.109086 CTAGAGTCGTGCACTGGTGG 60.109 60.000 16.19 0.00 34.41 4.61
17 18 0.109086 CCTAGAGTCGTGCACTGGTG 60.109 60.000 16.19 0.00 34.41 4.17
18 19 0.539901 ACCTAGAGTCGTGCACTGGT 60.540 55.000 16.19 8.31 34.41 4.00
19 20 1.460504 TACCTAGAGTCGTGCACTGG 58.539 55.000 16.19 0.00 34.41 4.00
20 21 2.159366 CCTTACCTAGAGTCGTGCACTG 60.159 54.545 16.19 8.79 34.41 3.66
21 22 2.093106 CCTTACCTAGAGTCGTGCACT 58.907 52.381 16.19 0.00 38.45 4.40
22 23 1.817447 ACCTTACCTAGAGTCGTGCAC 59.183 52.381 6.82 6.82 0.00 4.57
23 24 1.816835 CACCTTACCTAGAGTCGTGCA 59.183 52.381 0.00 0.00 0.00 4.57
24 25 2.089980 TCACCTTACCTAGAGTCGTGC 58.910 52.381 0.00 0.00 0.00 5.34
25 26 3.695060 ACATCACCTTACCTAGAGTCGTG 59.305 47.826 0.00 0.00 0.00 4.35
26 27 3.965694 ACATCACCTTACCTAGAGTCGT 58.034 45.455 0.00 0.00 0.00 4.34
27 28 4.673441 CAACATCACCTTACCTAGAGTCG 58.327 47.826 0.00 0.00 0.00 4.18
28 29 4.081642 TGCAACATCACCTTACCTAGAGTC 60.082 45.833 0.00 0.00 0.00 3.36
29 30 3.838317 TGCAACATCACCTTACCTAGAGT 59.162 43.478 0.00 0.00 0.00 3.24
30 31 4.471904 TGCAACATCACCTTACCTAGAG 57.528 45.455 0.00 0.00 0.00 2.43
31 32 5.189736 AGAATGCAACATCACCTTACCTAGA 59.810 40.000 0.00 0.00 0.00 2.43
32 33 5.431765 AGAATGCAACATCACCTTACCTAG 58.568 41.667 0.00 0.00 0.00 3.02
33 34 5.435686 AGAATGCAACATCACCTTACCTA 57.564 39.130 0.00 0.00 0.00 3.08
34 35 4.307032 AGAATGCAACATCACCTTACCT 57.693 40.909 0.00 0.00 0.00 3.08
35 36 4.702131 AGAAGAATGCAACATCACCTTACC 59.298 41.667 0.00 0.00 0.00 2.85
36 37 5.886960 AGAAGAATGCAACATCACCTTAC 57.113 39.130 0.00 0.00 0.00 2.34
37 38 6.899393 AAAGAAGAATGCAACATCACCTTA 57.101 33.333 0.00 0.00 0.00 2.69
38 39 5.796424 AAAGAAGAATGCAACATCACCTT 57.204 34.783 0.00 0.00 0.00 3.50
39 40 5.537674 AGAAAAGAAGAATGCAACATCACCT 59.462 36.000 0.00 0.00 0.00 4.00
40 41 5.776744 AGAAAAGAAGAATGCAACATCACC 58.223 37.500 0.00 0.00 0.00 4.02
41 42 6.698766 ACAAGAAAAGAAGAATGCAACATCAC 59.301 34.615 0.00 0.00 0.00 3.06
42 43 6.808829 ACAAGAAAAGAAGAATGCAACATCA 58.191 32.000 0.00 0.00 0.00 3.07
43 44 7.704789 AACAAGAAAAGAAGAATGCAACATC 57.295 32.000 0.00 0.00 0.00 3.06
44 45 8.392612 CAAAACAAGAAAAGAAGAATGCAACAT 58.607 29.630 0.00 0.00 0.00 2.71
45 46 7.623925 GCAAAACAAGAAAAGAAGAATGCAACA 60.624 33.333 0.00 0.00 0.00 3.33
46 47 6.684131 GCAAAACAAGAAAAGAAGAATGCAAC 59.316 34.615 0.00 0.00 0.00 4.17
47 48 6.594937 AGCAAAACAAGAAAAGAAGAATGCAA 59.405 30.769 0.00 0.00 0.00 4.08
48 49 6.108015 AGCAAAACAAGAAAAGAAGAATGCA 58.892 32.000 0.00 0.00 0.00 3.96
49 50 6.478016 AGAGCAAAACAAGAAAAGAAGAATGC 59.522 34.615 0.00 0.00 0.00 3.56
50 51 7.998753 AGAGCAAAACAAGAAAAGAAGAATG 57.001 32.000 0.00 0.00 0.00 2.67
52 53 9.573133 CTTTAGAGCAAAACAAGAAAAGAAGAA 57.427 29.630 0.00 0.00 0.00 2.52
53 54 8.190784 CCTTTAGAGCAAAACAAGAAAAGAAGA 58.809 33.333 0.00 0.00 0.00 2.87
54 55 8.190784 TCCTTTAGAGCAAAACAAGAAAAGAAG 58.809 33.333 0.00 0.00 0.00 2.85
55 56 8.062065 TCCTTTAGAGCAAAACAAGAAAAGAA 57.938 30.769 0.00 0.00 0.00 2.52
56 57 7.639113 TCCTTTAGAGCAAAACAAGAAAAGA 57.361 32.000 0.00 0.00 0.00 2.52
57 58 7.436376 CCTTCCTTTAGAGCAAAACAAGAAAAG 59.564 37.037 0.00 0.00 0.00 2.27
58 59 7.264947 CCTTCCTTTAGAGCAAAACAAGAAAA 58.735 34.615 0.00 0.00 0.00 2.29
59 60 6.183360 CCCTTCCTTTAGAGCAAAACAAGAAA 60.183 38.462 0.00 0.00 0.00 2.52
60 61 5.301805 CCCTTCCTTTAGAGCAAAACAAGAA 59.698 40.000 0.00 0.00 0.00 2.52
61 62 4.827284 CCCTTCCTTTAGAGCAAAACAAGA 59.173 41.667 0.00 0.00 0.00 3.02
62 63 4.021981 CCCCTTCCTTTAGAGCAAAACAAG 60.022 45.833 0.00 0.00 0.00 3.16
63 64 3.895041 CCCCTTCCTTTAGAGCAAAACAA 59.105 43.478 0.00 0.00 0.00 2.83
64 65 3.496331 CCCCTTCCTTTAGAGCAAAACA 58.504 45.455 0.00 0.00 0.00 2.83
65 66 2.231478 GCCCCTTCCTTTAGAGCAAAAC 59.769 50.000 0.00 0.00 0.00 2.43
66 67 2.525368 GCCCCTTCCTTTAGAGCAAAA 58.475 47.619 0.00 0.00 0.00 2.44
67 68 1.613255 CGCCCCTTCCTTTAGAGCAAA 60.613 52.381 0.00 0.00 0.00 3.68
68 69 0.035439 CGCCCCTTCCTTTAGAGCAA 60.035 55.000 0.00 0.00 0.00 3.91
69 70 0.907704 TCGCCCCTTCCTTTAGAGCA 60.908 55.000 0.00 0.00 0.00 4.26
70 71 0.252197 TTCGCCCCTTCCTTTAGAGC 59.748 55.000 0.00 0.00 0.00 4.09
71 72 2.781681 TTTCGCCCCTTCCTTTAGAG 57.218 50.000 0.00 0.00 0.00 2.43
72 73 2.574369 TGATTTCGCCCCTTCCTTTAGA 59.426 45.455 0.00 0.00 0.00 2.10
73 74 2.945668 CTGATTTCGCCCCTTCCTTTAG 59.054 50.000 0.00 0.00 0.00 1.85
74 75 2.574369 TCTGATTTCGCCCCTTCCTTTA 59.426 45.455 0.00 0.00 0.00 1.85
75 76 1.354368 TCTGATTTCGCCCCTTCCTTT 59.646 47.619 0.00 0.00 0.00 3.11
76 77 0.991920 TCTGATTTCGCCCCTTCCTT 59.008 50.000 0.00 0.00 0.00 3.36
77 78 1.133976 CATCTGATTTCGCCCCTTCCT 60.134 52.381 0.00 0.00 0.00 3.36
78 79 1.134098 TCATCTGATTTCGCCCCTTCC 60.134 52.381 0.00 0.00 0.00 3.46
79 80 2.332063 TCATCTGATTTCGCCCCTTC 57.668 50.000 0.00 0.00 0.00 3.46
80 81 3.217626 GAATCATCTGATTTCGCCCCTT 58.782 45.455 6.85 0.00 44.14 3.95
81 82 2.487986 GGAATCATCTGATTTCGCCCCT 60.488 50.000 6.85 0.00 44.14 4.79
82 83 1.882623 GGAATCATCTGATTTCGCCCC 59.117 52.381 6.85 0.38 44.14 5.80
83 84 2.810852 GAGGAATCATCTGATTTCGCCC 59.189 50.000 6.85 4.09 43.26 6.13
84 85 2.478134 CGAGGAATCATCTGATTTCGCC 59.522 50.000 11.77 7.28 43.26 5.54
85 86 3.384668 TCGAGGAATCATCTGATTTCGC 58.615 45.455 16.57 11.54 43.26 4.70
86 87 5.345472 CAGATCGAGGAATCATCTGATTTCG 59.655 44.000 15.76 15.76 44.35 3.46
87 88 5.638657 CCAGATCGAGGAATCATCTGATTTC 59.361 44.000 10.71 5.11 44.35 2.17
110 111 6.691508 AGAAAAATCAGCAGAAATACCAACC 58.308 36.000 0.00 0.00 0.00 3.77
117 118 5.467735 GCAACCAAGAAAAATCAGCAGAAAT 59.532 36.000 0.00 0.00 0.00 2.17
162 163 4.946478 ATTTCTACGAGATCTTCCCCAG 57.054 45.455 0.00 0.00 0.00 4.45
178 179 6.045318 CCACAAGATCGTCTGTGATATTTCT 58.955 40.000 20.55 0.00 31.65 2.52
192 193 3.061295 CACAAGATCGTTCCACAAGATCG 59.939 47.826 0.00 0.00 43.87 3.69
209 210 7.916450 TCGTAGGTTAAAAACAAAATCCACAAG 59.084 33.333 0.00 0.00 0.00 3.16
222 223 7.989416 AATCCACAAGATCGTAGGTTAAAAA 57.011 32.000 0.00 0.00 32.47 1.94
234 235 5.128499 TCTCTCTCCTCAAATCCACAAGATC 59.872 44.000 0.00 0.00 32.47 2.75
278 279 5.876576 ATTTCAAAACGCCGTTTTTCTAC 57.123 34.783 24.02 0.00 42.11 2.59
287 288 2.027451 CCGCAAATATTTCAAAACGCCG 59.973 45.455 0.00 0.00 0.00 6.46
290 291 4.915085 ACAGTCCGCAAATATTTCAAAACG 59.085 37.500 0.00 0.00 0.00 3.60
306 307 7.591426 CAGATTTTCCTTTTTAAGAACAGTCCG 59.409 37.037 0.00 0.00 0.00 4.79
317 318 5.303333 GTGTCCCCACAGATTTTCCTTTTTA 59.697 40.000 0.00 0.00 41.44 1.52
455 468 1.566298 GCTGTCCCTGGATTCCCTGT 61.566 60.000 0.00 0.00 0.00 4.00
509 527 1.338136 GCCTCCTCCCATTCCTTCGA 61.338 60.000 0.00 0.00 0.00 3.71
579 597 0.682209 GAATGCAGCATCACCTGGGT 60.682 55.000 8.77 0.00 33.44 4.51
626 644 5.758296 ACGAGAAAGCACAAAGTTGATAAGA 59.242 36.000 0.00 0.00 0.00 2.10
629 647 4.319477 GCACGAGAAAGCACAAAGTTGATA 60.319 41.667 0.00 0.00 0.00 2.15
633 651 2.017049 AGCACGAGAAAGCACAAAGTT 58.983 42.857 0.00 0.00 0.00 2.66
762 801 1.566018 GCGGAAGAAGGGACAACACG 61.566 60.000 0.00 0.00 0.00 4.49
826 865 0.676782 GTGGTGCGCCTCCATAGTTT 60.677 55.000 21.08 0.00 37.30 2.66
860 899 2.657757 CGCTCGCAGTCGAAAGCAA 61.658 57.895 10.48 0.00 44.98 3.91
1000 1096 4.038271 ACATGATCAACACCTCCAACAT 57.962 40.909 0.00 0.00 0.00 2.71
1476 1585 3.640498 TGAGAAGCACATCTCCCTCTATG 59.360 47.826 10.51 0.00 44.27 2.23
1537 1652 2.159572 GCAAGCGTACCATTACAGGTTG 60.160 50.000 0.00 11.04 43.08 3.77
1819 2005 5.023533 AGCTGGACATATTACACGTGAAT 57.976 39.130 25.01 18.48 0.00 2.57
1840 2026 6.568081 CGTTCTAAGTCCCATCGGTAGATAAG 60.568 46.154 0.00 0.00 34.85 1.73
2414 2615 8.462016 GCTATCTTCATCAACCTTTGTACATTT 58.538 33.333 0.00 0.00 0.00 2.32
2415 2616 7.611467 TGCTATCTTCATCAACCTTTGTACATT 59.389 33.333 0.00 0.00 0.00 2.71
2416 2617 7.112122 TGCTATCTTCATCAACCTTTGTACAT 58.888 34.615 0.00 0.00 0.00 2.29
2418 2619 6.818644 TCTGCTATCTTCATCAACCTTTGTAC 59.181 38.462 0.00 0.00 0.00 2.90
2470 2696 3.788227 ATCTACCAACTGGAAGCACAA 57.212 42.857 1.86 0.00 37.60 3.33
2472 2698 4.392138 GTGTAATCTACCAACTGGAAGCAC 59.608 45.833 1.86 0.00 37.60 4.40
2498 2724 8.000709 ACCATTTAATCCTTGCTGAATAGATGA 58.999 33.333 0.00 0.00 0.00 2.92
2523 2749 4.725556 TGAGTCAAACGCAGATAAACAC 57.274 40.909 0.00 0.00 0.00 3.32
2533 2759 4.351192 ACTGAAAACAATGAGTCAAACGC 58.649 39.130 0.00 0.00 0.00 4.84
2534 2760 6.869421 AAACTGAAAACAATGAGTCAAACG 57.131 33.333 0.00 0.00 0.00 3.60
2574 2800 4.211374 ACAAAAGCTTCACACTGACGATAC 59.789 41.667 0.00 0.00 0.00 2.24
2595 2821 7.491372 CAGACGCCTAAAGATTTAATACTCACA 59.509 37.037 0.00 0.00 0.00 3.58
2602 2828 5.239525 GCCATCAGACGCCTAAAGATTTAAT 59.760 40.000 0.00 0.00 0.00 1.40
2607 2833 1.765314 AGCCATCAGACGCCTAAAGAT 59.235 47.619 0.00 0.00 0.00 2.40
2652 2878 7.448420 TGAATTCAAATTGCCTTGACCAATTA 58.552 30.769 5.45 0.00 40.83 1.40
2673 2899 9.045223 GCTTGACTAAATTCCTTTTGTTTGAAT 57.955 29.630 0.00 0.00 31.77 2.57
2677 2903 6.479990 GCAGCTTGACTAAATTCCTTTTGTTT 59.520 34.615 0.00 0.00 31.77 2.83
2680 2906 5.531634 TGCAGCTTGACTAAATTCCTTTTG 58.468 37.500 0.00 0.00 0.00 2.44
2692 2918 2.568956 TGTAGAGGAATGCAGCTTGACT 59.431 45.455 0.00 0.00 0.00 3.41
2800 3026 4.122046 CTGAAAACTGCAAAAAGGAAGGG 58.878 43.478 0.00 0.00 0.00 3.95
2978 3204 3.699538 AGAAAAGGTTCCAACACAAGACC 59.300 43.478 0.00 0.00 33.92 3.85
3002 3228 0.389426 ACGAATCGCGCCTAACAACT 60.389 50.000 0.00 0.00 46.04 3.16
3017 3243 3.610040 AACACAGCAGATATGGACGAA 57.390 42.857 0.00 0.00 0.00 3.85
3098 3324 4.694037 GCCCGATAACCATTACAGATAACC 59.306 45.833 0.00 0.00 0.00 2.85
3105 3331 1.841277 ACCAGCCCGATAACCATTACA 59.159 47.619 0.00 0.00 0.00 2.41
3125 3351 2.580322 TCATGGACTCAAATAGGGCCAA 59.420 45.455 6.18 0.00 37.34 4.52
3126 3352 2.173356 CTCATGGACTCAAATAGGGCCA 59.827 50.000 6.18 0.00 37.92 5.36
3127 3353 2.173569 ACTCATGGACTCAAATAGGGCC 59.826 50.000 0.00 0.00 0.00 5.80
3133 3359 6.542821 TCCTGTAAAACTCATGGACTCAAAT 58.457 36.000 0.00 0.00 0.00 2.32
3163 3390 8.902806 GTTCAGGTCCAACATCATCATTTAATA 58.097 33.333 0.00 0.00 0.00 0.98
3204 3431 7.715265 AAACTATGAGTTCACTACTTGTGTG 57.285 36.000 0.00 0.00 46.27 3.82
3205 3432 8.612619 CAAAAACTATGAGTTCACTACTTGTGT 58.387 33.333 0.00 0.00 46.27 3.72
3245 3472 2.418746 CCGACCTTGCTGCTACTGTTAT 60.419 50.000 0.00 0.00 0.00 1.89
3248 3475 1.293498 CCGACCTTGCTGCTACTGT 59.707 57.895 0.00 0.00 0.00 3.55
3269 3496 2.095853 GCACGTACCAATGAAGGTGATG 59.904 50.000 10.88 0.00 43.14 3.07
3326 3553 1.269778 GGCACTTCAGAAAAAGGTGCC 60.270 52.381 22.07 22.07 41.59 5.01
3336 3563 3.281727 AGTTCAAACTGGCACTTCAGA 57.718 42.857 0.00 0.00 37.98 3.27
3358 3585 3.409570 GATGGACATGGACATGGATGAG 58.590 50.000 15.94 0.00 42.91 2.90
3400 3627 2.350522 GTGCACATCTTCGACTGGATT 58.649 47.619 13.17 0.00 0.00 3.01
3438 3665 2.668212 ATTGTGCGGGGACACGTG 60.668 61.111 15.48 15.48 43.74 4.49
3439 3666 2.358247 GATTGTGCGGGGACACGT 60.358 61.111 0.00 0.00 43.74 4.49
3501 3728 2.076863 GGTGGTTTTCATCACTCCTCG 58.923 52.381 0.00 0.00 34.57 4.63
3513 3740 7.778382 GGGTCTATTATTATGTCAGGTGGTTTT 59.222 37.037 0.00 0.00 0.00 2.43
3519 3746 7.872061 TGATGGGTCTATTATTATGTCAGGT 57.128 36.000 0.00 0.00 0.00 4.00
3528 3755 9.871238 GTAACGTATCATGATGGGTCTATTATT 57.129 33.333 18.72 2.22 0.00 1.40
3536 3763 4.560716 CGATGGTAACGTATCATGATGGGT 60.561 45.833 18.72 12.40 42.51 4.51
3562 3789 0.253044 AGTCGTATTGTGCTGCCCAT 59.747 50.000 0.00 0.00 0.00 4.00
3587 3814 0.806102 CTATGGAGTCACAACCGGCG 60.806 60.000 0.00 0.00 0.00 6.46
3630 3857 2.892852 TGCCCTTTTTCAATGGTCTCAG 59.107 45.455 0.00 0.00 0.00 3.35
3653 3880 2.476997 GACACAGCTTCTTTCTCGTTCC 59.523 50.000 0.00 0.00 0.00 3.62
3698 3925 6.040209 AGAATCCATTTAAAGTTGCATGCA 57.960 33.333 18.46 18.46 0.00 3.96
3711 3938 4.952335 GTGGAATCCAGTGAGAATCCATTT 59.048 41.667 16.66 0.00 35.44 2.32
3757 3984 1.327690 ACCGTCCACGCATCCTACAT 61.328 55.000 0.00 0.00 38.18 2.29
3760 3987 2.717044 CCACCGTCCACGCATCCTA 61.717 63.158 0.00 0.00 38.18 2.94
3765 3992 4.429212 CGATCCACCGTCCACGCA 62.429 66.667 0.00 0.00 38.18 5.24
3795 4022 3.249189 GCACTCCCCTGGTCCACA 61.249 66.667 0.00 0.00 0.00 4.17
3803 4030 2.692273 GAAACAACCCGCACTCCCCT 62.692 60.000 0.00 0.00 0.00 4.79
3832 4059 2.763448 CACTTTTGTGGAAAACCCCTCA 59.237 45.455 0.00 0.00 46.16 3.86


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

AutoCloner maintained by Alex Coulton.