Multiple sequence alignment - TraesCS6A01G255100

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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 TraesCS6A01G255100 chr6A 100.000 5473 0 0 1 5473 472522394 472516922 0.000000e+00 10107.0
1 TraesCS6A01G255100 chr6A 82.759 145 15 5 5327 5466 2939185 2939046 2.680000e-23 121.0
2 TraesCS6A01G255100 chr6D 96.348 4491 97 19 362 4832 332957309 332952866 0.000000e+00 7323.0
3 TraesCS6A01G255100 chr6D 90.000 280 10 6 4832 5103 332952751 332952482 4.060000e-91 346.0
4 TraesCS6A01G255100 chr6D 92.784 194 11 3 5223 5414 332951248 332951056 1.500000e-70 278.0
5 TraesCS6A01G255100 chr6D 87.826 115 12 2 234 348 332957409 332957297 3.440000e-27 134.0
6 TraesCS6A01G255100 chr6B 93.744 3101 153 18 1739 4830 487200152 487203220 0.000000e+00 4614.0
7 TraesCS6A01G255100 chr6B 94.161 822 31 9 388 1196 487198917 487199734 0.000000e+00 1236.0
8 TraesCS6A01G255100 chr6B 89.394 396 26 12 5092 5473 487207515 487207908 8.240000e-133 484.0
9 TraesCS6A01G255100 chr6B 86.189 391 37 8 1199 1577 487199766 487200151 1.840000e-109 407.0
10 TraesCS6A01G255100 chr6B 92.490 253 12 2 4830 5082 487206828 487207073 6.740000e-94 355.0
11 TraesCS6A01G255100 chr6B 89.695 262 11 4 4829 5082 487203570 487203823 2.460000e-83 320.0
12 TraesCS6A01G255100 chr6B 89.796 98 8 2 1599 1695 574023756 574023852 2.070000e-24 124.0
13 TraesCS6A01G255100 chr6B 89.286 56 6 0 5418 5473 692334207 692334262 2.740000e-08 71.3
14 TraesCS6A01G255100 chr7D 80.328 183 20 8 5150 5317 501910478 501910659 2.070000e-24 124.0
15 TraesCS6A01G255100 chr5A 79.885 174 29 4 7 174 640912752 640912579 7.440000e-24 122.0
16 TraesCS6A01G255100 chr1D 89.362 94 9 1 5219 5312 270199674 270199766 3.460000e-22 117.0
17 TraesCS6A01G255100 chr1D 86.735 98 13 0 1598 1695 216018434 216018531 5.800000e-20 110.0
18 TraesCS6A01G255100 chr2A 79.570 186 18 14 5150 5317 778615754 778615571 1.250000e-21 115.0
19 TraesCS6A01G255100 chr1A 87.379 103 7 5 1597 1695 471324113 471324213 4.480000e-21 113.0
20 TraesCS6A01G255100 chr1A 87.000 100 9 4 1599 1695 471324213 471324115 5.800000e-20 110.0
21 TraesCS6A01G255100 chr1A 86.598 97 13 0 1599 1695 206793682 206793778 2.080000e-19 108.0
22 TraesCS6A01G255100 chr1A 77.473 182 20 13 5151 5312 343630958 343631138 7.550000e-14 89.8
23 TraesCS6A01G255100 chr2D 87.629 97 7 4 5322 5414 587108257 587108162 2.080000e-19 108.0
24 TraesCS6A01G255100 chrUn 89.024 82 7 2 5236 5317 369116023 369116102 3.490000e-17 100.0
25 TraesCS6A01G255100 chrUn 84.375 96 11 3 5222 5317 242571339 242571248 2.100000e-14 91.6
26 TraesCS6A01G255100 chrUn 86.585 82 7 3 5236 5317 283601565 283601642 2.720000e-13 87.9
27 TraesCS6A01G255100 chrUn 87.143 70 8 1 5145 5214 242571435 242571367 1.630000e-10 78.7
28 TraesCS6A01G255100 chrUn 88.060 67 7 1 5145 5211 369115913 369115978 1.630000e-10 78.7
29 TraesCS6A01G255100 chr7B 85.294 102 10 4 1599 1695 645325187 645325288 3.490000e-17 100.0
30 TraesCS6A01G255100 chr7B 84.848 99 11 4 1599 1695 245070347 245070443 4.510000e-16 97.1
31 TraesCS6A01G255100 chr2B 89.024 82 7 2 5236 5317 777953619 777953698 3.490000e-17 100.0
32 TraesCS6A01G255100 chr2B 89.024 82 7 2 5236 5317 778009070 778009149 3.490000e-17 100.0
33 TraesCS6A01G255100 chr2B 85.417 96 10 4 5322 5414 708827479 708827385 4.510000e-16 97.1
34 TraesCS6A01G255100 chr2B 86.585 82 7 3 5236 5317 777948194 777948271 2.720000e-13 87.9
35 TraesCS6A01G255100 chr2B 86.585 82 7 3 5236 5317 777996336 777996413 2.720000e-13 87.9
36 TraesCS6A01G255100 chr2B 88.060 67 7 1 5145 5211 777953509 777953574 1.630000e-10 78.7
37 TraesCS6A01G255100 chr4B 77.895 190 20 12 5148 5317 463575143 463575330 1.250000e-16 99.0
38 TraesCS6A01G255100 chr4B 79.612 103 13 6 5355 5457 602727843 602727749 3.540000e-07 67.6
39 TraesCS6A01G255100 chr3A 79.054 148 24 6 5320 5463 638707386 638707242 1.620000e-15 95.3
40 TraesCS6A01G255100 chr3B 83.019 106 15 3 1599 1703 705916982 705917085 5.840000e-15 93.5
41 TraesCS6A01G255100 chr3B 89.831 59 2 3 5322 5376 15806716 15806658 7.600000e-09 73.1
42 TraesCS6A01G255100 chr4D 83.673 98 8 5 5327 5421 62729163 62729071 9.770000e-13 86.1
43 TraesCS6A01G255100 chr3D 87.500 56 6 1 5418 5473 528913979 528914033 4.580000e-06 63.9
44 TraesCS6A01G255100 chr4A 87.037 54 6 1 5420 5473 617589071 617589123 5.920000e-05 60.2


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 TraesCS6A01G255100 chr6A 472516922 472522394 5472 True 10107.00 10107 100.0000 1 5473 1 chr6A.!!$R2 5472
1 TraesCS6A01G255100 chr6D 332951056 332957409 6353 True 2020.25 7323 91.7395 234 5414 4 chr6D.!!$R1 5180
2 TraesCS6A01G255100 chr6B 487198917 487207908 8991 False 1236.00 4614 90.9455 388 5473 6 chr6B.!!$F3 5085

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
148 149 0.179067 TCGGACAAACGGTTTGAGCT 60.179 50.000 33.41 16.11 43.26 4.09 F
980 995 0.390472 CCGCTTCCTCTCTGTGTTCC 60.390 60.000 0.00 0.00 0.00 3.62 F
1162 1189 2.118313 TGATGCCAATGTGACCTGAG 57.882 50.000 0.00 0.00 0.00 3.35 F
1969 2037 0.324943 TAGGCTGAGCAACTTGGGTC 59.675 55.000 6.82 0.00 35.89 4.46 F
2696 2766 4.211125 TGGAGATCTTGGACTAGCTACAG 58.789 47.826 0.00 0.00 0.00 2.74 F
3534 3610 1.226407 GCTCGGGCGAGAAAAATGC 60.226 57.895 0.00 0.00 44.53 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1005 1032 1.156736 CATCCCGATCGCCAAATACC 58.843 55.000 10.32 0.0 0.00 2.73 R
1969 2037 2.350522 CCTCGGTCCAAATCACTTCAG 58.649 52.381 0.00 0.0 0.00 3.02 R
2573 2643 5.997746 GGCTGTGCAAGTAATCTAATCCATA 59.002 40.000 0.00 0.0 0.00 2.74 R
3440 3516 2.159382 CCGTACTGCTTTGGGAATTGT 58.841 47.619 0.00 0.0 0.00 2.71 R
4433 4509 1.089123 ACTTCTCCTGTCCTCCTCCT 58.911 55.000 0.00 0.0 0.00 3.69 R
5029 8715 0.173708 GCGACTAGGGTTCCTGTCAG 59.826 60.000 0.00 0.0 34.06 3.51 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
22 23 4.651778 TGGGCATGATAACTTACATAGGC 58.348 43.478 0.00 0.00 0.00 3.93
23 24 4.010349 GGGCATGATAACTTACATAGGCC 58.990 47.826 0.00 0.00 35.92 5.19
24 25 4.506625 GGGCATGATAACTTACATAGGCCA 60.507 45.833 5.01 0.00 37.33 5.36
25 26 4.455877 GGCATGATAACTTACATAGGCCAC 59.544 45.833 5.01 0.00 36.36 5.01
26 27 5.063204 GCATGATAACTTACATAGGCCACA 58.937 41.667 5.01 0.00 0.00 4.17
27 28 5.049405 GCATGATAACTTACATAGGCCACAC 60.049 44.000 5.01 0.00 0.00 3.82
28 29 4.689071 TGATAACTTACATAGGCCACACG 58.311 43.478 5.01 0.00 0.00 4.49
29 30 4.160814 TGATAACTTACATAGGCCACACGT 59.839 41.667 5.01 0.00 0.00 4.49
30 31 2.380084 ACTTACATAGGCCACACGTG 57.620 50.000 15.48 15.48 0.00 4.49
41 42 1.855513 CCACACGTGGTAACTTTCGA 58.144 50.000 21.57 0.00 45.53 3.71
42 43 1.523934 CCACACGTGGTAACTTTCGAC 59.476 52.381 21.57 0.00 45.53 4.20
43 44 2.195096 CACACGTGGTAACTTTCGACA 58.805 47.619 21.57 0.00 37.61 4.35
44 45 2.604011 CACACGTGGTAACTTTCGACAA 59.396 45.455 21.57 0.00 37.61 3.18
45 46 3.062369 CACACGTGGTAACTTTCGACAAA 59.938 43.478 21.57 0.00 37.61 2.83
46 47 3.683822 ACACGTGGTAACTTTCGACAAAA 59.316 39.130 21.57 0.00 37.61 2.44
47 48 4.153835 ACACGTGGTAACTTTCGACAAAAA 59.846 37.500 21.57 0.00 37.61 1.94
69 70 5.827568 AAAAATCATCGCAACATGTCAAC 57.172 34.783 0.00 0.00 0.00 3.18
70 71 4.502171 AAATCATCGCAACATGTCAACA 57.498 36.364 0.00 0.00 0.00 3.33
71 72 4.707030 AATCATCGCAACATGTCAACAT 57.293 36.364 0.00 0.00 36.96 2.71
85 86 3.996363 TGTCAACATGAGATCTGGTTTCG 59.004 43.478 0.00 0.00 0.00 3.46
86 87 4.245660 GTCAACATGAGATCTGGTTTCGA 58.754 43.478 0.00 0.00 0.00 3.71
87 88 4.690748 GTCAACATGAGATCTGGTTTCGAA 59.309 41.667 0.00 0.00 0.00 3.71
88 89 5.352569 GTCAACATGAGATCTGGTTTCGAAT 59.647 40.000 0.00 0.00 0.00 3.34
89 90 5.582269 TCAACATGAGATCTGGTTTCGAATC 59.418 40.000 0.00 0.00 0.00 2.52
90 91 5.350504 ACATGAGATCTGGTTTCGAATCT 57.649 39.130 0.00 0.00 0.00 2.40
91 92 5.355596 ACATGAGATCTGGTTTCGAATCTC 58.644 41.667 14.46 14.46 36.14 2.75
92 93 5.128499 ACATGAGATCTGGTTTCGAATCTCT 59.872 40.000 19.53 9.56 36.45 3.10
93 94 5.255710 TGAGATCTGGTTTCGAATCTCTC 57.744 43.478 19.53 16.03 36.45 3.20
101 102 3.877145 CGAATCTCTCGTCGCGAC 58.123 61.111 28.96 28.96 42.89 5.19
135 136 8.731275 ATATGAAAATAGTGTTTGATCGGACA 57.269 30.769 0.00 0.00 0.00 4.02
136 137 6.869315 TGAAAATAGTGTTTGATCGGACAA 57.131 33.333 2.90 0.00 0.00 3.18
137 138 7.265647 TGAAAATAGTGTTTGATCGGACAAA 57.734 32.000 2.90 4.39 37.41 2.83
143 144 3.343380 GTTTGATCGGACAAACGGTTT 57.657 42.857 17.24 0.00 45.93 3.27
144 145 3.040099 GTTTGATCGGACAAACGGTTTG 58.960 45.455 27.21 27.21 45.93 2.93
145 146 2.242047 TGATCGGACAAACGGTTTGA 57.758 45.000 33.41 16.02 43.26 2.69
146 147 2.139917 TGATCGGACAAACGGTTTGAG 58.860 47.619 33.41 23.73 43.26 3.02
147 148 0.872388 ATCGGACAAACGGTTTGAGC 59.128 50.000 33.41 24.26 43.26 4.26
148 149 0.179067 TCGGACAAACGGTTTGAGCT 60.179 50.000 33.41 16.11 43.26 4.09
149 150 1.068895 TCGGACAAACGGTTTGAGCTA 59.931 47.619 33.41 16.59 43.26 3.32
150 151 1.193874 CGGACAAACGGTTTGAGCTAC 59.806 52.381 33.41 15.63 43.26 3.58
151 152 2.215196 GGACAAACGGTTTGAGCTACA 58.785 47.619 33.41 0.00 43.26 2.74
152 153 2.614983 GGACAAACGGTTTGAGCTACAA 59.385 45.455 33.41 0.00 43.26 2.41
153 154 3.065648 GGACAAACGGTTTGAGCTACAAA 59.934 43.478 33.41 7.09 44.79 2.83
242 243 5.636965 GCATATTTGCTCGTCATAGACATCT 59.363 40.000 0.35 0.00 45.77 2.90
277 278 4.797693 CAAAATGAGTTGCATGCAAACA 57.202 36.364 33.42 31.33 37.28 2.83
278 279 5.158101 CAAAATGAGTTGCATGCAAACAA 57.842 34.783 33.42 21.23 37.28 2.83
279 280 5.570344 CAAAATGAGTTGCATGCAAACAAA 58.430 33.333 33.42 19.51 37.28 2.83
280 281 5.412526 AAATGAGTTGCATGCAAACAAAG 57.587 34.783 33.42 0.00 37.28 2.77
281 282 2.823984 TGAGTTGCATGCAAACAAAGG 58.176 42.857 33.42 0.00 37.70 3.11
282 283 2.429971 TGAGTTGCATGCAAACAAAGGA 59.570 40.909 33.42 7.59 37.70 3.36
348 349 6.298361 TGTCCTTTCTCAAATCAATGACAGA 58.702 36.000 0.00 0.00 0.00 3.41
357 358 5.185056 TCAAATCAATGACAGACTCCGACTA 59.815 40.000 0.00 0.00 0.00 2.59
358 359 5.661056 AATCAATGACAGACTCCGACTAA 57.339 39.130 0.00 0.00 0.00 2.24
359 360 5.661056 ATCAATGACAGACTCCGACTAAA 57.339 39.130 0.00 0.00 0.00 1.85
360 361 5.462530 TCAATGACAGACTCCGACTAAAA 57.537 39.130 0.00 0.00 0.00 1.52
361 362 5.849510 TCAATGACAGACTCCGACTAAAAA 58.150 37.500 0.00 0.00 0.00 1.94
381 382 5.613358 AAAAATCAATGACAGACTCCGAC 57.387 39.130 0.00 0.00 0.00 4.79
382 383 4.543590 AAATCAATGACAGACTCCGACT 57.456 40.909 0.00 0.00 0.00 4.18
383 384 3.791973 ATCAATGACAGACTCCGACTC 57.208 47.619 0.00 0.00 0.00 3.36
384 385 2.514803 TCAATGACAGACTCCGACTCA 58.485 47.619 0.00 0.00 0.00 3.41
385 386 2.890945 TCAATGACAGACTCCGACTCAA 59.109 45.455 0.00 0.00 0.00 3.02
574 580 0.909610 ATTTCTCCTCGCCTCCACCA 60.910 55.000 0.00 0.00 0.00 4.17
980 995 0.390472 CCGCTTCCTCTCTGTGTTCC 60.390 60.000 0.00 0.00 0.00 3.62
998 1025 4.022416 TGTTCCCAAATTCGTTTGATCCAG 60.022 41.667 2.67 0.00 33.95 3.86
1083 1110 2.502163 GCGATACATGCGCGTAAGA 58.498 52.632 8.43 0.00 45.27 2.10
1162 1189 2.118313 TGATGCCAATGTGACCTGAG 57.882 50.000 0.00 0.00 0.00 3.35
1313 1371 7.010460 GCATCCTGTTTTATCAATAAAGGTTGC 59.990 37.037 13.81 13.81 35.74 4.17
1357 1424 5.379732 AAATTTTGCCCATTTGCTCATTG 57.620 34.783 0.00 0.00 0.00 2.82
1386 1454 2.503895 AAATCAGCAAGGAGGGAGTG 57.496 50.000 0.00 0.00 0.00 3.51
1547 1615 6.922957 TGTTTCTTTGTCAATTGATAGGTTGC 59.077 34.615 12.12 0.00 0.00 4.17
1641 1709 8.951787 TTACTTGTCACATGTTTAGTACAACT 57.048 30.769 0.99 0.00 40.89 3.16
1642 1710 7.859325 ACTTGTCACATGTTTAGTACAACTT 57.141 32.000 0.00 0.00 40.89 2.66
1643 1711 8.276252 ACTTGTCACATGTTTAGTACAACTTT 57.724 30.769 0.00 0.00 40.89 2.66
1644 1712 9.386010 ACTTGTCACATGTTTAGTACAACTTTA 57.614 29.630 0.00 0.00 40.89 1.85
1645 1713 9.864034 CTTGTCACATGTTTAGTACAACTTTAG 57.136 33.333 0.00 0.00 40.89 1.85
1646 1714 8.951787 TGTCACATGTTTAGTACAACTTTAGT 57.048 30.769 0.00 0.00 40.89 2.24
1730 1798 6.710597 ATGTCGCTCTAATTAAGGTGTAGA 57.289 37.500 0.00 0.00 0.00 2.59
1731 1799 6.132791 TGTCGCTCTAATTAAGGTGTAGAG 57.867 41.667 3.14 3.14 42.47 2.43
1850 1918 4.126520 TCAAAATAACCAGAAAGGCCCT 57.873 40.909 0.00 0.00 43.14 5.19
1855 1923 4.948062 ATAACCAGAAAGGCCCTAGTTT 57.052 40.909 0.00 0.00 43.14 2.66
1969 2037 0.324943 TAGGCTGAGCAACTTGGGTC 59.675 55.000 6.82 0.00 35.89 4.46
2007 2075 4.940046 CCGAGGGAATATCATCATTTCAGG 59.060 45.833 0.00 0.00 0.00 3.86
2323 2391 6.071334 ACTCGGAAGTTCATCTACTGAAATCA 60.071 38.462 5.01 0.00 45.27 2.57
2573 2643 5.082425 AGAATTGGGCAAGACAGATTCTTT 58.918 37.500 0.00 0.00 42.37 2.52
2696 2766 4.211125 TGGAGATCTTGGACTAGCTACAG 58.789 47.826 0.00 0.00 0.00 2.74
2794 2865 9.860898 GCTGAACAAATATCTTATGGTTCTTTT 57.139 29.630 0.00 0.00 36.50 2.27
2958 3029 5.977129 GTGTATTTTCAACAACCCACTCTTG 59.023 40.000 0.00 0.00 0.00 3.02
3103 3174 9.706691 AATTACGATGAACTGGTCGATATTTAT 57.293 29.630 1.49 0.00 40.11 1.40
3235 3311 9.944376 TTTATATTCTAGAGTTGTGCTTCAGTT 57.056 29.630 0.00 0.00 0.00 3.16
3236 3312 7.840342 ATATTCTAGAGTTGTGCTTCAGTTG 57.160 36.000 0.00 0.00 0.00 3.16
3440 3516 3.202906 GCTAGCATTACGGTTCCATCAA 58.797 45.455 10.63 0.00 0.00 2.57
3534 3610 1.226407 GCTCGGGCGAGAAAAATGC 60.226 57.895 0.00 0.00 44.53 3.56
3586 3662 3.936661 GTTCACGAGAACCAACAGAAAC 58.063 45.455 13.98 0.00 46.68 2.78
3641 3717 5.808366 TGATAGTTCAGTCTCACTGGTTT 57.192 39.130 3.86 0.00 45.94 3.27
3694 3770 8.962679 ACTTACTTTATGTTGTTTGGAACTCAA 58.037 29.630 0.00 0.00 0.00 3.02
4112 4188 1.676967 GCCAAAGTGCTCTGAGGGG 60.677 63.158 6.83 1.36 0.00 4.79
4166 4242 2.361119 TGAAAGTCCGAGATACGATGGG 59.639 50.000 0.00 0.00 45.77 4.00
4289 4365 7.276438 TCGATTTTCCATATAGATGAAGCATCG 59.724 37.037 0.00 7.14 44.67 3.84
4331 4407 2.487762 TGGTTGCTCGTCAATTTCCATC 59.512 45.455 0.00 0.00 36.99 3.51
4433 4509 0.908910 TGCGGGAAGAAGCTATGGAA 59.091 50.000 0.00 0.00 0.00 3.53
4469 4545 9.613428 CAGGAGAAGTGGTTACAATATAATGAA 57.387 33.333 0.00 0.00 0.00 2.57
4557 4633 0.901124 CTGCCTCCTGCTTCTACAGT 59.099 55.000 0.00 0.00 42.00 3.55
4561 4637 2.485814 GCCTCCTGCTTCTACAGTTTTG 59.514 50.000 0.00 0.00 35.83 2.44
4563 4639 3.499918 CCTCCTGCTTCTACAGTTTTGTG 59.500 47.826 0.00 0.00 38.23 3.33
4583 4659 3.248125 GTGTTTTGGTCATGCAAATGTGG 59.752 43.478 0.00 0.00 0.00 4.17
4700 4776 4.846779 TTCCCAGCATTACAACTTTGAC 57.153 40.909 0.00 0.00 0.00 3.18
4701 4777 4.098914 TCCCAGCATTACAACTTTGACT 57.901 40.909 0.00 0.00 0.00 3.41
4703 4779 4.892934 TCCCAGCATTACAACTTTGACTTT 59.107 37.500 0.00 0.00 0.00 2.66
4704 4780 4.984161 CCCAGCATTACAACTTTGACTTTG 59.016 41.667 0.00 0.00 0.00 2.77
4705 4781 5.221224 CCCAGCATTACAACTTTGACTTTGA 60.221 40.000 0.00 0.00 0.00 2.69
4706 4782 6.449698 CCAGCATTACAACTTTGACTTTGAT 58.550 36.000 0.00 0.00 0.00 2.57
4707 4783 6.364165 CCAGCATTACAACTTTGACTTTGATG 59.636 38.462 0.00 0.00 0.00 3.07
4708 4784 6.919662 CAGCATTACAACTTTGACTTTGATGT 59.080 34.615 0.00 0.00 0.00 3.06
4839 8525 5.686753 AGTTCCCCAATTTTTAACCAAACC 58.313 37.500 0.00 0.00 0.00 3.27
4956 8642 6.054295 GTCCTGTCATTTAGATGATTGCTCT 58.946 40.000 0.00 0.00 43.76 4.09
4992 8678 8.658609 GCATTTCATTTGTGTGCATAGTTTTAT 58.341 29.630 0.00 0.00 35.93 1.40
5009 8695 5.009410 AGTTTTATATCAGCTGCAATGGCTC 59.991 40.000 9.47 0.00 41.91 4.70
5015 8701 3.359033 TCAGCTGCAATGGCTCTTTTAT 58.641 40.909 9.47 0.00 41.91 1.40
5016 8702 4.525996 TCAGCTGCAATGGCTCTTTTATA 58.474 39.130 9.47 0.00 41.91 0.98
5017 8703 4.577693 TCAGCTGCAATGGCTCTTTTATAG 59.422 41.667 9.47 0.00 41.91 1.31
5018 8704 3.887716 AGCTGCAATGGCTCTTTTATAGG 59.112 43.478 1.02 0.00 41.91 2.57
5019 8705 3.885297 GCTGCAATGGCTCTTTTATAGGA 59.115 43.478 0.00 0.00 41.91 2.94
5020 8706 4.023365 GCTGCAATGGCTCTTTTATAGGAG 60.023 45.833 0.00 0.00 41.91 3.69
5054 8740 2.434702 CAGGAACCCTAGTCGCCTATTT 59.565 50.000 0.00 0.00 31.46 1.40
5078 8768 2.428085 GGAGGAGAGACGAAGGGGC 61.428 68.421 0.00 0.00 0.00 5.80
5082 8772 1.545706 GGAGAGACGAAGGGGCAAGT 61.546 60.000 0.00 0.00 0.00 3.16
5092 9210 1.382914 AGGGGCAAGTAAGGGACAAT 58.617 50.000 0.00 0.00 0.00 2.71
5093 9211 1.005924 AGGGGCAAGTAAGGGACAATG 59.994 52.381 0.00 0.00 0.00 2.82
5114 9396 2.026542 GGTGTTAGGAACCAACCCTAGG 60.027 54.545 0.06 0.06 37.55 3.02
5175 10461 8.644374 TTTTTAGCACAATCCACTAGGTTTAT 57.356 30.769 0.00 0.00 35.89 1.40
5203 10489 9.858247 GATTAATAATCAACGCGATACAAAGAA 57.142 29.630 15.93 0.00 37.83 2.52
5220 10526 7.050970 ACAAAGAATATCATGAGGTACGCTA 57.949 36.000 0.09 0.00 0.00 4.26
5234 10540 6.039047 TGAGGTACGCTAATCTAACGAAGAAT 59.961 38.462 0.00 0.00 37.89 2.40
5256 10562 5.499004 TCAAAACTAGCTAGATTGTGGGT 57.501 39.130 27.45 3.48 0.00 4.51
5257 10563 6.614694 TCAAAACTAGCTAGATTGTGGGTA 57.385 37.500 27.45 11.58 0.00 3.69
5306 10612 8.696374 TCATGGACAAAATTACACAAGGTAAAA 58.304 29.630 0.00 0.00 44.70 1.52
5320 10626 5.222068 ACAAGGTAAAAGAAGAACTAGGGGG 60.222 44.000 0.00 0.00 0.00 5.40
5337 10643 1.133356 GGGGAATGCCTAATGGAGCTT 60.133 52.381 0.00 0.00 34.57 3.74
5448 10755 5.183014 TGGATGTATACTACTTGTCTGCG 57.817 43.478 4.17 0.00 0.00 5.18
5454 10761 7.751047 TGTATACTACTTGTCTGCGAAATTC 57.249 36.000 4.17 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.506625 GGCCTATGTAAGTTATCATGCCCA 60.507 45.833 0.00 0.00 31.34 5.36
1 2 4.010349 GGCCTATGTAAGTTATCATGCCC 58.990 47.826 0.00 5.90 31.34 5.36
2 3 4.455877 GTGGCCTATGTAAGTTATCATGCC 59.544 45.833 3.32 13.77 35.25 4.40
3 4 5.049405 GTGTGGCCTATGTAAGTTATCATGC 60.049 44.000 3.32 4.76 0.00 4.06
4 5 5.177511 CGTGTGGCCTATGTAAGTTATCATG 59.822 44.000 3.32 0.00 0.00 3.07
5 6 5.163343 ACGTGTGGCCTATGTAAGTTATCAT 60.163 40.000 3.32 0.00 0.00 2.45
6 7 4.160814 ACGTGTGGCCTATGTAAGTTATCA 59.839 41.667 3.32 0.00 0.00 2.15
7 8 4.506654 CACGTGTGGCCTATGTAAGTTATC 59.493 45.833 7.58 0.00 0.00 1.75
8 9 4.439057 CACGTGTGGCCTATGTAAGTTAT 58.561 43.478 7.58 0.00 0.00 1.89
9 10 3.368635 CCACGTGTGGCCTATGTAAGTTA 60.369 47.826 15.65 0.00 44.73 2.24
10 11 2.614481 CCACGTGTGGCCTATGTAAGTT 60.614 50.000 15.65 0.00 44.73 2.66
11 12 1.066430 CCACGTGTGGCCTATGTAAGT 60.066 52.381 15.65 0.00 44.73 2.24
12 13 1.651987 CCACGTGTGGCCTATGTAAG 58.348 55.000 15.65 0.00 44.73 2.34
13 14 3.844911 CCACGTGTGGCCTATGTAA 57.155 52.632 15.65 0.00 44.73 2.41
23 24 2.195096 TGTCGAAAGTTACCACGTGTG 58.805 47.619 15.65 8.62 0.00 3.82
24 25 2.582728 TGTCGAAAGTTACCACGTGT 57.417 45.000 15.65 5.35 0.00 4.49
25 26 3.929417 TTTGTCGAAAGTTACCACGTG 57.071 42.857 9.08 9.08 0.00 4.49
26 27 4.943142 TTTTTGTCGAAAGTTACCACGT 57.057 36.364 0.00 0.00 0.00 4.49
47 48 5.288015 TGTTGACATGTTGCGATGATTTTT 58.712 33.333 0.00 0.00 0.00 1.94
48 49 4.869215 TGTTGACATGTTGCGATGATTTT 58.131 34.783 0.00 0.00 0.00 1.82
49 50 4.502171 TGTTGACATGTTGCGATGATTT 57.498 36.364 0.00 0.00 0.00 2.17
50 51 4.417506 CATGTTGACATGTTGCGATGATT 58.582 39.130 14.44 0.00 46.40 2.57
51 52 4.023739 CATGTTGACATGTTGCGATGAT 57.976 40.909 14.44 0.00 46.40 2.45
52 53 3.474693 CATGTTGACATGTTGCGATGA 57.525 42.857 14.44 0.00 46.40 2.92
62 63 4.633126 CGAAACCAGATCTCATGTTGACAT 59.367 41.667 0.00 0.00 36.96 3.06
63 64 3.996363 CGAAACCAGATCTCATGTTGACA 59.004 43.478 0.00 0.00 0.00 3.58
64 65 4.245660 TCGAAACCAGATCTCATGTTGAC 58.754 43.478 0.00 0.00 0.00 3.18
65 66 4.535526 TCGAAACCAGATCTCATGTTGA 57.464 40.909 0.00 0.00 0.00 3.18
66 67 5.583854 AGATTCGAAACCAGATCTCATGTTG 59.416 40.000 0.00 0.00 0.00 3.33
67 68 5.738909 AGATTCGAAACCAGATCTCATGTT 58.261 37.500 0.00 0.00 0.00 2.71
68 69 5.128499 AGAGATTCGAAACCAGATCTCATGT 59.872 40.000 20.53 3.76 37.56 3.21
69 70 5.599732 AGAGATTCGAAACCAGATCTCATG 58.400 41.667 20.53 0.00 37.56 3.07
70 71 5.841810 GAGAGATTCGAAACCAGATCTCAT 58.158 41.667 20.53 9.87 37.56 2.90
71 72 5.255710 GAGAGATTCGAAACCAGATCTCA 57.744 43.478 20.53 0.00 37.56 3.27
109 110 9.825109 TGTCCGATCAAACACTATTTTCATATA 57.175 29.630 0.00 0.00 0.00 0.86
110 111 8.731275 TGTCCGATCAAACACTATTTTCATAT 57.269 30.769 0.00 0.00 0.00 1.78
111 112 8.554835 TTGTCCGATCAAACACTATTTTCATA 57.445 30.769 0.00 0.00 0.00 2.15
112 113 7.447374 TTGTCCGATCAAACACTATTTTCAT 57.553 32.000 0.00 0.00 0.00 2.57
113 114 6.869315 TTGTCCGATCAAACACTATTTTCA 57.131 33.333 0.00 0.00 0.00 2.69
124 125 2.943690 TCAAACCGTTTGTCCGATCAAA 59.056 40.909 20.71 0.00 41.36 2.69
125 126 2.546368 CTCAAACCGTTTGTCCGATCAA 59.454 45.455 20.71 1.62 41.36 2.57
126 127 2.139917 CTCAAACCGTTTGTCCGATCA 58.860 47.619 20.71 2.26 41.36 2.92
127 128 1.136057 GCTCAAACCGTTTGTCCGATC 60.136 52.381 20.71 4.70 41.36 3.69
128 129 0.872388 GCTCAAACCGTTTGTCCGAT 59.128 50.000 20.71 0.00 41.36 4.18
129 130 0.179067 AGCTCAAACCGTTTGTCCGA 60.179 50.000 20.71 3.87 41.36 4.55
130 131 1.193874 GTAGCTCAAACCGTTTGTCCG 59.806 52.381 20.71 12.78 41.36 4.79
131 132 2.215196 TGTAGCTCAAACCGTTTGTCC 58.785 47.619 20.71 13.71 41.36 4.02
132 133 3.955771 TTGTAGCTCAAACCGTTTGTC 57.044 42.857 20.71 14.52 41.36 3.18
133 134 4.705337 TTTTGTAGCTCAAACCGTTTGT 57.295 36.364 20.71 7.24 44.39 2.83
134 135 6.582437 AATTTTTGTAGCTCAAACCGTTTG 57.418 33.333 16.53 16.53 44.39 2.93
135 136 7.332182 TGAAAATTTTTGTAGCTCAAACCGTTT 59.668 29.630 4.63 9.72 44.39 3.60
136 137 6.814146 TGAAAATTTTTGTAGCTCAAACCGTT 59.186 30.769 4.63 4.66 44.39 4.44
137 138 6.334202 TGAAAATTTTTGTAGCTCAAACCGT 58.666 32.000 4.63 0.02 44.39 4.83
138 139 6.820470 TGAAAATTTTTGTAGCTCAAACCG 57.180 33.333 4.63 0.00 44.39 4.44
214 215 8.204886 TGTCTATGACGAGCAAATATGCATGC 62.205 42.308 11.82 11.82 44.59 4.06
215 216 5.178067 TGTCTATGACGAGCAAATATGCATG 59.822 40.000 10.16 0.00 44.59 4.06
216 217 5.299949 TGTCTATGACGAGCAAATATGCAT 58.700 37.500 3.79 3.79 44.59 3.96
217 218 4.692228 TGTCTATGACGAGCAAATATGCA 58.308 39.130 3.41 0.00 44.59 3.96
218 219 5.636965 AGATGTCTATGACGAGCAAATATGC 59.363 40.000 0.00 0.00 43.43 3.14
219 220 6.400834 GCAGATGTCTATGACGAGCAAATATG 60.401 42.308 0.00 0.00 34.95 1.78
220 221 5.636965 GCAGATGTCTATGACGAGCAAATAT 59.363 40.000 0.00 0.00 34.95 1.28
221 222 4.984785 GCAGATGTCTATGACGAGCAAATA 59.015 41.667 0.00 0.00 34.95 1.40
222 223 3.806521 GCAGATGTCTATGACGAGCAAAT 59.193 43.478 0.00 0.00 34.95 2.32
223 224 3.190079 GCAGATGTCTATGACGAGCAAA 58.810 45.455 0.00 0.00 34.95 3.68
224 225 2.166254 TGCAGATGTCTATGACGAGCAA 59.834 45.455 0.00 0.00 34.95 3.91
225 226 1.750778 TGCAGATGTCTATGACGAGCA 59.249 47.619 0.00 0.00 34.95 4.26
226 227 2.498807 TGCAGATGTCTATGACGAGC 57.501 50.000 0.00 0.00 34.95 5.03
227 228 2.730404 GCATGCAGATGTCTATGACGAG 59.270 50.000 14.21 0.00 34.95 4.18
228 229 2.101249 TGCATGCAGATGTCTATGACGA 59.899 45.455 18.46 0.00 34.95 4.20
229 230 2.476821 TGCATGCAGATGTCTATGACG 58.523 47.619 18.46 0.00 34.95 4.35
230 231 5.434352 AATTGCATGCAGATGTCTATGAC 57.566 39.130 21.50 0.00 31.50 3.06
231 232 5.704053 CCTAATTGCATGCAGATGTCTATGA 59.296 40.000 21.50 1.72 31.50 2.15
232 233 5.619309 GCCTAATTGCATGCAGATGTCTATG 60.619 44.000 21.50 5.94 31.50 2.23
242 243 4.185394 CTCATTTTGCCTAATTGCATGCA 58.815 39.130 18.46 18.46 41.70 3.96
261 262 2.429971 TCCTTTGTTTGCATGCAACTCA 59.570 40.909 31.99 27.49 35.46 3.41
266 267 1.067706 CCGATCCTTTGTTTGCATGCA 60.068 47.619 18.46 18.46 0.00 3.96
267 268 1.202114 TCCGATCCTTTGTTTGCATGC 59.798 47.619 11.82 11.82 0.00 4.06
268 269 3.489738 GGATCCGATCCTTTGTTTGCATG 60.490 47.826 18.84 0.00 46.19 4.06
269 270 2.689983 GGATCCGATCCTTTGTTTGCAT 59.310 45.455 18.84 0.00 46.19 3.96
270 271 2.091541 GGATCCGATCCTTTGTTTGCA 58.908 47.619 18.84 0.00 46.19 4.08
271 272 2.851805 GGATCCGATCCTTTGTTTGC 57.148 50.000 18.84 0.00 46.19 3.68
359 360 5.308825 AGTCGGAGTCTGTCATTGATTTTT 58.691 37.500 0.00 0.00 0.00 1.94
360 361 4.899502 AGTCGGAGTCTGTCATTGATTTT 58.100 39.130 0.00 0.00 0.00 1.82
361 362 4.021104 TGAGTCGGAGTCTGTCATTGATTT 60.021 41.667 13.63 0.00 0.00 2.17
362 363 3.511540 TGAGTCGGAGTCTGTCATTGATT 59.488 43.478 13.63 0.00 0.00 2.57
363 364 3.092301 TGAGTCGGAGTCTGTCATTGAT 58.908 45.455 13.63 0.00 0.00 2.57
364 365 2.514803 TGAGTCGGAGTCTGTCATTGA 58.485 47.619 13.63 0.00 0.00 2.57
365 366 3.303881 TTGAGTCGGAGTCTGTCATTG 57.696 47.619 13.63 0.00 0.00 2.82
366 367 4.336889 TTTTGAGTCGGAGTCTGTCATT 57.663 40.909 13.63 0.00 0.00 2.57
367 368 4.336889 TTTTTGAGTCGGAGTCTGTCAT 57.663 40.909 13.63 0.00 0.00 3.06
368 369 3.812156 TTTTTGAGTCGGAGTCTGTCA 57.188 42.857 13.63 0.00 0.00 3.58
432 435 4.734398 TTTGCGGATTTTGGATAGCAAT 57.266 36.364 1.48 0.00 42.90 3.56
980 995 5.104374 CCATTCTGGATCAAACGAATTTGG 58.896 41.667 0.00 0.00 41.98 3.28
998 1025 2.480419 CGATCGCCAAATACCTCCATTC 59.520 50.000 0.26 0.00 0.00 2.67
1005 1032 1.156736 CATCCCGATCGCCAAATACC 58.843 55.000 10.32 0.00 0.00 2.73
1089 1116 8.030692 TCAATCATCAGAAAATAAAGCACCAAG 58.969 33.333 0.00 0.00 0.00 3.61
1158 1185 7.025963 GTCAAAAACTAGCATGGAAATCTCAG 58.974 38.462 0.00 0.00 0.00 3.35
1162 1189 5.185828 AGGGTCAAAAACTAGCATGGAAATC 59.814 40.000 0.00 0.00 0.00 2.17
1229 1287 6.271488 TCTATGGAAGGAAGCAACAAAATG 57.729 37.500 0.00 0.00 0.00 2.32
1330 1397 3.250521 AGCAAATGGGCAAAATTTTCACG 59.749 39.130 0.00 0.00 35.83 4.35
1331 1398 4.275443 TGAGCAAATGGGCAAAATTTTCAC 59.725 37.500 0.00 0.00 35.83 3.18
1357 1424 7.287696 TCCCTCCTTGCTGATTTTTAATAATCC 59.712 37.037 13.86 3.20 34.34 3.01
1386 1454 6.313658 GGATGGTTTTGTTGATCATTTTAGGC 59.686 38.462 0.00 0.00 0.00 3.93
1439 1507 2.107378 TCATTGTACTGCAACAAGGGGA 59.893 45.455 14.08 7.29 42.33 4.81
1547 1615 4.649088 AAGGTTTGGAAAGAAAACGAGG 57.351 40.909 0.00 0.00 38.21 4.63
1646 1714 8.312896 TGTCGCAGATTTAGTACAATTTTGTA 57.687 30.769 0.00 0.00 40.11 2.41
1647 1715 7.197071 TGTCGCAGATTTAGTACAATTTTGT 57.803 32.000 1.08 1.08 41.84 2.83
1648 1716 7.803189 ACTTGTCGCAGATTTAGTACAATTTTG 59.197 33.333 0.00 0.00 40.67 2.44
1649 1717 7.871853 ACTTGTCGCAGATTTAGTACAATTTT 58.128 30.769 0.00 0.00 40.67 1.82
1650 1718 7.435068 ACTTGTCGCAGATTTAGTACAATTT 57.565 32.000 0.00 0.00 40.67 1.82
1651 1719 8.542497 TTACTTGTCGCAGATTTAGTACAATT 57.458 30.769 0.00 0.00 40.67 2.32
1652 1720 8.718102 ATTACTTGTCGCAGATTTAGTACAAT 57.282 30.769 0.00 0.00 40.67 2.71
1653 1721 9.811995 ATATTACTTGTCGCAGATTTAGTACAA 57.188 29.630 0.00 0.00 40.67 2.41
1663 1731 4.546570 CGATCCATATTACTTGTCGCAGA 58.453 43.478 0.00 0.00 0.00 4.26
1723 1791 8.958119 TGAATCATTGTATTAACCTCTACACC 57.042 34.615 0.00 0.00 0.00 4.16
1765 1833 3.146104 AGCCTAAAACTGAGCATGTGT 57.854 42.857 0.00 0.00 0.00 3.72
1969 2037 2.350522 CCTCGGTCCAAATCACTTCAG 58.649 52.381 0.00 0.00 0.00 3.02
2007 2075 6.481644 CCAGAACAATTTAGAGAGGCTACATC 59.518 42.308 0.00 0.00 0.00 3.06
2323 2391 7.889469 ACTTCATTACATTTTCATGCTTGAGT 58.111 30.769 2.23 0.56 33.05 3.41
2573 2643 5.997746 GGCTGTGCAAGTAATCTAATCCATA 59.002 40.000 0.00 0.00 0.00 2.74
3235 3311 7.164122 AGACAGTAATTCAGAAAAGATGCTCA 58.836 34.615 0.00 0.00 0.00 4.26
3236 3312 7.548780 AGAGACAGTAATTCAGAAAAGATGCTC 59.451 37.037 0.00 0.00 0.00 4.26
3373 3449 6.406177 GGCAAAGAAATGGATCTTGCAATAGA 60.406 38.462 13.53 0.00 39.54 1.98
3413 3489 3.439129 GGAACCGTAATGCTAGCAAAACT 59.561 43.478 23.54 9.24 0.00 2.66
3440 3516 2.159382 CCGTACTGCTTTGGGAATTGT 58.841 47.619 0.00 0.00 0.00 2.71
3534 3610 2.710096 ATTATGTGGAGACCCAACGG 57.290 50.000 0.00 0.00 45.59 4.44
3577 3653 4.273480 AGATTGAGTTCCGTGTTTCTGTTG 59.727 41.667 0.00 0.00 0.00 3.33
3586 3662 2.678336 GCCCTTTAGATTGAGTTCCGTG 59.322 50.000 0.00 0.00 0.00 4.94
3641 3717 3.190327 CCACACAAATCAGCAATCCGTAA 59.810 43.478 0.00 0.00 0.00 3.18
4112 4188 1.493311 CTGCGCAGAAAAGTCCGAC 59.507 57.895 33.66 0.00 0.00 4.79
4157 4233 1.757118 CAGTCACCAGTCCCATCGTAT 59.243 52.381 0.00 0.00 0.00 3.06
4166 4242 1.629043 TAGTCCCACAGTCACCAGTC 58.371 55.000 0.00 0.00 0.00 3.51
4331 4407 2.862536 CAGCACATCTTGACTATCGGTG 59.137 50.000 0.00 0.00 0.00 4.94
4433 4509 1.089123 ACTTCTCCTGTCCTCCTCCT 58.911 55.000 0.00 0.00 0.00 3.69
4469 4545 7.009265 CACACGATACTCGAACTTAAACATCAT 59.991 37.037 3.20 0.00 43.74 2.45
4470 4546 6.307077 CACACGATACTCGAACTTAAACATCA 59.693 38.462 3.20 0.00 43.74 3.07
4471 4547 6.307318 ACACACGATACTCGAACTTAAACATC 59.693 38.462 3.20 0.00 43.74 3.06
4472 4548 6.089016 CACACACGATACTCGAACTTAAACAT 59.911 38.462 3.20 0.00 43.74 2.71
4557 4633 5.413833 ACATTTGCATGACCAAAACACAAAA 59.586 32.000 0.00 0.00 38.12 2.44
4561 4637 3.248125 CCACATTTGCATGACCAAAACAC 59.752 43.478 0.00 0.00 38.12 3.32
4563 4639 2.807392 CCCACATTTGCATGACCAAAAC 59.193 45.455 0.00 0.00 38.12 2.43
4583 4659 9.886132 ACAATGATCCTACCGATTATTATAACC 57.114 33.333 0.00 0.00 35.55 2.85
4665 4741 2.626840 CTGGGAAAACTCAGAGCTAGC 58.373 52.381 6.62 6.62 33.11 3.42
4700 4776 4.475944 GTTTTCCCGATGACACATCAAAG 58.524 43.478 11.39 1.00 38.69 2.77
4701 4777 3.058570 CGTTTTCCCGATGACACATCAAA 60.059 43.478 11.39 3.14 38.69 2.69
4703 4779 2.073056 CGTTTTCCCGATGACACATCA 58.927 47.619 11.39 0.00 39.83 3.07
4704 4780 1.202031 GCGTTTTCCCGATGACACATC 60.202 52.381 0.00 0.00 0.00 3.06
4705 4781 0.802494 GCGTTTTCCCGATGACACAT 59.198 50.000 0.00 0.00 0.00 3.21
4706 4782 0.533085 TGCGTTTTCCCGATGACACA 60.533 50.000 0.00 0.00 0.00 3.72
4707 4783 0.589223 TTGCGTTTTCCCGATGACAC 59.411 50.000 0.00 0.00 0.00 3.67
4708 4784 0.589223 GTTGCGTTTTCCCGATGACA 59.411 50.000 0.00 0.00 0.00 3.58
4839 8525 5.390613 CGTGCACTATTTAACCCTCAAAAG 58.609 41.667 16.19 0.00 0.00 2.27
4956 8642 5.410746 ACACAAATGAAATGCACAACAACAA 59.589 32.000 0.00 0.00 0.00 2.83
4992 8678 2.723322 AAGAGCCATTGCAGCTGATA 57.277 45.000 20.43 3.96 41.75 2.15
5015 8701 7.508296 GGGTTCCTGTCAGTTATAATACTCCTA 59.492 40.741 0.00 0.00 0.00 2.94
5016 8702 6.326843 GGGTTCCTGTCAGTTATAATACTCCT 59.673 42.308 0.00 0.00 0.00 3.69
5017 8703 6.326843 AGGGTTCCTGTCAGTTATAATACTCC 59.673 42.308 0.00 0.00 29.57 3.85
5018 8704 7.362802 AGGGTTCCTGTCAGTTATAATACTC 57.637 40.000 0.00 0.00 29.57 2.59
5019 8705 8.066247 ACTAGGGTTCCTGTCAGTTATAATACT 58.934 37.037 0.00 0.00 34.61 2.12
5020 8706 8.247666 ACTAGGGTTCCTGTCAGTTATAATAC 57.752 38.462 0.00 0.00 34.61 1.89
5029 8715 0.173708 GCGACTAGGGTTCCTGTCAG 59.826 60.000 0.00 0.00 34.06 3.51
5054 8740 0.541998 TTCGTCTCTCCTCCCAAGCA 60.542 55.000 0.00 0.00 0.00 3.91
5078 8768 4.700213 CCTAACACCATTGTCCCTTACTTG 59.300 45.833 0.00 0.00 33.55 3.16
5082 8772 4.263594 GGTTCCTAACACCATTGTCCCTTA 60.264 45.833 0.00 0.00 33.55 2.69
5092 9210 1.525175 AGGGTTGGTTCCTAACACCA 58.475 50.000 0.00 0.00 42.90 4.17
5093 9211 2.026542 CCTAGGGTTGGTTCCTAACACC 60.027 54.545 0.00 0.00 36.54 4.16
5184 10470 7.477144 TGATATTCTTTGTATCGCGTTGATT 57.523 32.000 5.77 0.00 38.57 2.57
5185 10471 7.384932 TCATGATATTCTTTGTATCGCGTTGAT 59.615 33.333 5.77 0.00 41.30 2.57
5186 10472 6.699642 TCATGATATTCTTTGTATCGCGTTGA 59.300 34.615 5.77 0.00 32.46 3.18
5187 10473 6.876804 TCATGATATTCTTTGTATCGCGTTG 58.123 36.000 5.77 0.00 32.46 4.10
5188 10474 6.146184 CCTCATGATATTCTTTGTATCGCGTT 59.854 38.462 5.77 0.00 32.46 4.84
5189 10475 5.635280 CCTCATGATATTCTTTGTATCGCGT 59.365 40.000 5.77 0.00 32.46 6.01
5190 10476 5.635280 ACCTCATGATATTCTTTGTATCGCG 59.365 40.000 0.00 0.00 32.46 5.87
5191 10477 7.201359 CGTACCTCATGATATTCTTTGTATCGC 60.201 40.741 0.00 0.00 32.46 4.58
5192 10478 7.201359 GCGTACCTCATGATATTCTTTGTATCG 60.201 40.741 0.00 0.00 32.46 2.92
5193 10479 7.815068 AGCGTACCTCATGATATTCTTTGTATC 59.185 37.037 0.00 0.00 0.00 2.24
5203 10489 7.336176 TCGTTAGATTAGCGTACCTCATGATAT 59.664 37.037 0.00 0.00 33.93 1.63
5220 10526 8.779354 AGCTAGTTTTGATTCTTCGTTAGATT 57.221 30.769 0.00 0.00 31.54 2.40
5234 10540 5.499004 ACCCACAATCTAGCTAGTTTTGA 57.501 39.130 29.33 12.33 0.00 2.69
5306 10612 1.847088 GGCATTCCCCCTAGTTCTTCT 59.153 52.381 0.00 0.00 0.00 2.85
5320 10626 2.292845 GCTCAAGCTCCATTAGGCATTC 59.707 50.000 0.00 0.00 38.21 2.67


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

AutoCloner maintained by Alex Coulton.