Multiple sequence alignment - TraesCS5A01G105800

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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 TraesCS5A01G105800 chr5A 100.000 3405 0 0 1 3405 170098297 170101701 0.000000e+00 6288.0
1 TraesCS5A01G105800 chr5A 89.565 115 11 1 1726 1839 597850030 597849916 9.850000e-31 145.0
2 TraesCS5A01G105800 chr5A 86.607 112 13 2 2791 2900 705867906 705868017 4.610000e-24 122.0
3 TraesCS5A01G105800 chr5A 86.538 104 10 3 1736 1839 415195433 415195334 9.990000e-21 111.0
4 TraesCS5A01G105800 chr5A 85.321 109 13 3 2794 2900 44244004 44244111 3.590000e-20 110.0
5 TraesCS5A01G105800 chr5D 90.303 1454 71 28 1319 2728 135061604 135060177 0.000000e+00 1840.0
6 TraesCS5A01G105800 chr5D 92.327 1225 50 15 47 1254 135062842 135061645 0.000000e+00 1701.0
7 TraesCS5A01G105800 chr5B 88.422 1477 64 49 29 1449 146808701 146807276 0.000000e+00 1681.0
8 TraesCS5A01G105800 chr5B 85.342 730 52 23 1469 2151 146807290 146806569 0.000000e+00 704.0
9 TraesCS5A01G105800 chr5B 88.079 453 35 7 2892 3329 346621314 346620866 1.400000e-143 520.0
10 TraesCS5A01G105800 chr5B 86.947 452 40 7 2892 3329 346654067 346653621 1.100000e-134 490.0
11 TraesCS5A01G105800 chr5B 83.187 571 56 19 2191 2726 146806560 146805995 1.420000e-133 486.0
12 TraesCS5A01G105800 chr5B 89.565 115 11 1 1726 1839 586876169 586876055 9.850000e-31 145.0
13 TraesCS5A01G105800 chr3A 91.054 626 42 5 2794 3405 656087332 656086707 0.000000e+00 833.0
14 TraesCS5A01G105800 chr2A 89.888 445 36 5 2961 3405 396230891 396231326 6.380000e-157 564.0
15 TraesCS5A01G105800 chr2A 89.593 442 38 4 2964 3405 404880028 404879595 3.840000e-154 555.0
16 TraesCS5A01G105800 chr2A 89.344 122 11 2 1718 1839 459446606 459446725 5.890000e-33 152.0
17 TraesCS5A01G105800 chr2A 84.615 104 12 3 1736 1839 6126454 6126553 2.160000e-17 100.0
18 TraesCS5A01G105800 chr6A 94.654 318 16 1 3088 3405 10034868 10034552 3.050000e-135 492.0
19 TraesCS5A01G105800 chr6A 87.055 309 20 7 2795 3088 10035141 10034838 7.040000e-87 331.0
20 TraesCS5A01G105800 chr1B 88.474 321 21 5 2877 3182 684618934 684618615 1.150000e-99 374.0
21 TraesCS5A01G105800 chr1B 86.607 112 13 2 2795 2905 668060145 668060255 4.610000e-24 122.0
22 TraesCS5A01G105800 chr1B 97.619 42 1 0 3364 3405 684618617 684618576 4.710000e-09 73.1
23 TraesCS5A01G105800 chrUn 86.784 227 15 6 2874 3085 36271473 36271699 4.390000e-59 239.0
24 TraesCS5A01G105800 chrUn 86.784 227 15 6 2877 3088 320087919 320087693 4.390000e-59 239.0
25 TraesCS5A01G105800 chr2B 90.840 131 6 2 3058 3182 160679393 160679263 1.620000e-38 171.0
26 TraesCS5A01G105800 chr2B 97.619 42 1 0 3364 3405 160679265 160679224 4.710000e-09 73.1
27 TraesCS5A01G105800 chr7A 91.579 95 8 0 3088 3182 625072358 625072452 7.670000e-27 132.0
28 TraesCS5A01G105800 chr7A 84.615 104 12 3 1736 1839 675068627 675068528 2.160000e-17 100.0
29 TraesCS5A01G105800 chr7A 97.619 42 1 0 3364 3405 625072450 625072491 4.710000e-09 73.1
30 TraesCS5A01G105800 chr1A 88.288 111 12 1 2791 2900 13800750 13800860 7.670000e-27 132.0
31 TraesCS5A01G105800 chr6B 88.785 107 11 1 2794 2899 482532102 482531996 2.760000e-26 130.0
32 TraesCS5A01G105800 chr3B 87.619 105 12 1 2794 2897 802309356 802309252 1.660000e-23 121.0
33 TraesCS5A01G105800 chr3B 97.500 40 1 0 3364 3403 5496914 5496875 6.100000e-08 69.4
34 TraesCS5A01G105800 chr7B 86.916 107 13 1 2794 2899 708020361 708020255 5.970000e-23 119.0
35 TraesCS5A01G105800 chr7B 85.185 108 15 1 2794 2900 368210439 368210332 3.590000e-20 110.0
36 TraesCS5A01G105800 chr3D 85.577 104 11 3 1736 1839 126612539 126612440 4.650000e-19 106.0


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 TraesCS5A01G105800 chr5A 170098297 170101701 3404 False 6288.0 6288 100.000000 1 3405 1 chr5A.!!$F2 3404
1 TraesCS5A01G105800 chr5D 135060177 135062842 2665 True 1770.5 1840 91.315000 47 2728 2 chr5D.!!$R1 2681
2 TraesCS5A01G105800 chr5B 146805995 146808701 2706 True 957.0 1681 85.650333 29 2726 3 chr5B.!!$R4 2697
3 TraesCS5A01G105800 chr3A 656086707 656087332 625 True 833.0 833 91.054000 2794 3405 1 chr3A.!!$R1 611
4 TraesCS5A01G105800 chr6A 10034552 10035141 589 True 411.5 492 90.854500 2795 3405 2 chr6A.!!$R1 610

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
202 203 0.037590 AAATAGTGCGCCACCCAAGA 59.962 50.0 4.18 0.0 34.49 3.02 F
511 528 0.173935 TTGCGGTTGATATCGTCGGT 59.826 50.0 12.00 0.0 0.00 4.69 F
1536 1639 0.235926 GCTTCACAAGCGACTCAACC 59.764 55.0 0.00 0.0 45.74 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1627 1730 0.178981 AGACAAGCCAGCAACCACAT 60.179 50.000 0.00 0.00 0.00 3.21 R
1786 1891 2.844451 GCGGAAACACTGCCTGCAA 61.844 57.895 0.00 0.00 44.40 4.08 R
2772 2948 0.025898 CTCATTCATGTGCTCACGCG 59.974 55.000 3.53 3.53 39.65 6.01 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
192 193 1.831343 GCATTCAGCCAAATAGTGCG 58.169 50.000 0.00 0.00 37.23 5.34
193 194 1.831343 CATTCAGCCAAATAGTGCGC 58.169 50.000 0.00 0.00 0.00 6.09
195 196 0.607762 TTCAGCCAAATAGTGCGCCA 60.608 50.000 4.18 0.00 0.00 5.69
196 197 1.137404 CAGCCAAATAGTGCGCCAC 59.863 57.895 4.18 3.02 34.10 5.01
198 199 3.063743 GCCAAATAGTGCGCCACCC 62.064 63.158 4.18 0.00 34.49 4.61
201 202 0.171007 CAAATAGTGCGCCACCCAAG 59.829 55.000 4.18 0.00 34.49 3.61
202 203 0.037590 AAATAGTGCGCCACCCAAGA 59.962 50.000 4.18 0.00 34.49 3.02
203 204 0.392998 AATAGTGCGCCACCCAAGAG 60.393 55.000 4.18 0.00 34.49 2.85
211 226 1.068741 CGCCACCCAAGAGGATAGTAC 59.931 57.143 0.00 0.00 39.89 2.73
273 290 1.882623 GCAGGAAAGAACCCTCACAAG 59.117 52.381 0.00 0.00 0.00 3.16
274 291 2.749800 GCAGGAAAGAACCCTCACAAGT 60.750 50.000 0.00 0.00 0.00 3.16
275 292 3.496160 GCAGGAAAGAACCCTCACAAGTA 60.496 47.826 0.00 0.00 0.00 2.24
276 293 4.714632 CAGGAAAGAACCCTCACAAGTAA 58.285 43.478 0.00 0.00 0.00 2.24
277 294 4.515567 CAGGAAAGAACCCTCACAAGTAAC 59.484 45.833 0.00 0.00 0.00 2.50
278 295 4.165372 AGGAAAGAACCCTCACAAGTAACA 59.835 41.667 0.00 0.00 0.00 2.41
279 296 4.885325 GGAAAGAACCCTCACAAGTAACAA 59.115 41.667 0.00 0.00 0.00 2.83
280 297 5.220989 GGAAAGAACCCTCACAAGTAACAAC 60.221 44.000 0.00 0.00 0.00 3.32
304 321 3.785859 GTCAGGCCCAGGATCGCA 61.786 66.667 0.00 0.00 0.00 5.10
347 364 4.462508 TGATGAGACAAACCTAGAGCAG 57.537 45.455 0.00 0.00 0.00 4.24
415 432 4.100084 CATGGCAGGGAGGTGCGA 62.100 66.667 0.00 0.00 45.00 5.10
501 518 2.107041 ATCGTCCACCTTGCGGTTGA 62.107 55.000 0.00 0.00 42.13 3.18
511 528 0.173935 TTGCGGTTGATATCGTCGGT 59.826 50.000 12.00 0.00 0.00 4.69
603 623 1.108132 CAGAGACGGTAGGTAGGGGC 61.108 65.000 0.00 0.00 0.00 5.80
604 624 1.229643 GAGACGGTAGGTAGGGGCT 59.770 63.158 0.00 0.00 0.00 5.19
605 625 0.475906 GAGACGGTAGGTAGGGGCTA 59.524 60.000 0.00 0.00 0.00 3.93
692 718 4.838486 GCGAGTCGGAGTGGAGCG 62.838 72.222 15.52 0.00 0.00 5.03
694 720 4.500116 GAGTCGGAGTGGAGCGGC 62.500 72.222 0.00 0.00 0.00 6.53
750 776 2.404186 ACGGCGAGTCGTGCAGATA 61.404 57.895 16.62 0.00 42.21 1.98
751 777 1.939785 CGGCGAGTCGTGCAGATAC 60.940 63.158 15.08 0.00 0.00 2.24
752 778 1.138883 GGCGAGTCGTGCAGATACA 59.861 57.895 15.08 0.00 0.00 2.29
753 779 0.867753 GGCGAGTCGTGCAGATACAG 60.868 60.000 15.08 0.00 0.00 2.74
881 911 1.092348 CTTGGCTTAGGGTTTACCGC 58.908 55.000 0.00 0.00 46.96 5.68
882 912 0.674269 TTGGCTTAGGGTTTACCGCG 60.674 55.000 0.00 0.00 46.96 6.46
902 936 2.176889 GGCGTCTCCCTATATAAGCCA 58.823 52.381 0.00 0.00 42.57 4.75
935 969 2.271173 CCGCCACCTACCCTTTCC 59.729 66.667 0.00 0.00 0.00 3.13
996 1030 4.445545 GCGAACAAGAAGGCGGCG 62.446 66.667 0.51 0.51 0.00 6.46
1119 1153 5.642063 TCTCCTTAAAATGCCTAGTTCGTTG 59.358 40.000 0.00 0.00 0.00 4.10
1120 1154 5.310451 TCCTTAAAATGCCTAGTTCGTTGT 58.690 37.500 0.00 0.00 0.00 3.32
1121 1155 5.766174 TCCTTAAAATGCCTAGTTCGTTGTT 59.234 36.000 0.00 0.00 0.00 2.83
1122 1156 6.072893 TCCTTAAAATGCCTAGTTCGTTGTTC 60.073 38.462 0.00 0.00 0.00 3.18
1123 1157 3.806316 AAATGCCTAGTTCGTTGTTCG 57.194 42.857 0.00 0.00 41.41 3.95
1124 1158 2.450609 ATGCCTAGTTCGTTGTTCGT 57.549 45.000 0.00 0.00 40.80 3.85
1125 1159 2.228138 TGCCTAGTTCGTTGTTCGTT 57.772 45.000 0.00 0.00 40.80 3.85
1163 1198 1.071605 CTGCTAGACCAACTGTTCGC 58.928 55.000 0.00 0.00 0.00 4.70
1176 1211 2.100631 GTTCGCCCGGATCTGTGTG 61.101 63.158 0.73 0.00 0.00 3.82
1177 1212 2.579657 TTCGCCCGGATCTGTGTGT 61.580 57.895 0.73 0.00 0.00 3.72
1182 1217 1.739371 GCCCGGATCTGTGTGTCTTAC 60.739 57.143 0.73 0.00 0.00 2.34
1261 1312 5.852282 AAACCTTGTTTGCTCTGTGTTAT 57.148 34.783 0.00 0.00 0.00 1.89
1266 1317 5.450412 CCTTGTTTGCTCTGTGTTATGTGTT 60.450 40.000 0.00 0.00 0.00 3.32
1273 1324 3.738982 TCTGTGTTATGTGTTGTCAGGG 58.261 45.455 0.00 0.00 0.00 4.45
1277 1328 4.134563 GTGTTATGTGTTGTCAGGGACTT 58.865 43.478 0.00 0.00 34.60 3.01
1283 1334 8.448615 GTTATGTGTTGTCAGGGACTTATTAAC 58.551 37.037 0.00 0.00 34.60 2.01
1288 1339 3.583966 TGTCAGGGACTTATTAACCGGTT 59.416 43.478 25.64 25.64 34.60 4.44
1303 1354 8.980143 ATTAACCGGTTAAATTCTCACATTTG 57.020 30.769 36.33 0.00 38.38 2.32
1304 1355 6.642707 AACCGGTTAAATTCTCACATTTGA 57.357 33.333 20.78 0.00 0.00 2.69
1311 1362 9.643693 GGTTAAATTCTCACATTTGATGATTGT 57.356 29.630 0.00 0.00 0.00 2.71
1372 1447 5.567534 GTGTATTTTGTTGATGTAGTTGGCG 59.432 40.000 0.00 0.00 0.00 5.69
1447 1522 5.479306 TGCTTAACTCTGTTAGATGTGGTC 58.521 41.667 0.00 0.00 0.00 4.02
1457 1550 4.595781 TGTTAGATGTGGTCAGGTAGGTTT 59.404 41.667 0.00 0.00 0.00 3.27
1465 1558 2.420642 GTCAGGTAGGTTTCGGGTTTC 58.579 52.381 0.00 0.00 0.00 2.78
1467 1560 1.051008 AGGTAGGTTTCGGGTTTCGT 58.949 50.000 0.00 0.00 40.32 3.85
1479 1572 4.236935 TCGGGTTTCGTTGTTAGTATGTC 58.763 43.478 0.00 0.00 40.32 3.06
1526 1619 0.740149 TGTGCAAGTGGCTTCACAAG 59.260 50.000 0.00 0.00 43.53 3.16
1536 1639 0.235926 GCTTCACAAGCGACTCAACC 59.764 55.000 0.00 0.00 45.74 3.77
1549 1652 4.156008 GCGACTCAACCAGGAAAATATTGT 59.844 41.667 0.00 0.00 0.00 2.71
1576 1679 8.962884 AGAATTGCCTCAAAAGTTTAATTTGT 57.037 26.923 0.00 0.00 38.57 2.83
1577 1680 9.394767 AGAATTGCCTCAAAAGTTTAATTTGTT 57.605 25.926 0.00 0.00 38.57 2.83
1627 1730 3.815962 TGCGGTAACAAACTGAAATAGCA 59.184 39.130 0.00 0.00 36.47 3.49
1786 1891 2.092753 CAGGAAGTATGGGCTGATGTGT 60.093 50.000 0.00 0.00 0.00 3.72
1866 1971 4.789012 AGAACATTATTGTTGCACCAGG 57.211 40.909 7.69 0.00 46.01 4.45
2023 2158 8.554490 AGTGTTTGATGATACCTATTCCTAGT 57.446 34.615 0.00 0.00 0.00 2.57
2036 2171 8.568617 ACCTATTCCTAGTCTACATCCAAATT 57.431 34.615 0.00 0.00 0.00 1.82
2122 2259 6.882610 TTGCAGTTTCTGTATTGAGATGTT 57.117 33.333 0.00 0.00 33.43 2.71
2200 2337 2.291217 TGGTATGCTGTTATTGTGGCCA 60.291 45.455 0.00 0.00 0.00 5.36
2283 2420 6.000219 AGTTGTCTTGATGTTCTTATGCAGT 59.000 36.000 0.00 0.00 0.00 4.40
2317 2455 5.055265 TGCATCTAGCCTTCTAGTCTAGT 57.945 43.478 6.77 0.00 44.83 2.57
2365 2526 6.795098 ATCGTTTGTGCAGAACTATTGTTA 57.205 33.333 0.00 0.00 36.39 2.41
2413 2574 3.244284 TGCAGTACCGTTAATTCACCTGT 60.244 43.478 0.00 0.00 0.00 4.00
2419 2580 2.747446 CCGTTAATTCACCTGTTCCTGG 59.253 50.000 0.00 0.00 0.00 4.45
2453 2614 2.703947 AGCTGATCAGGGATGAAGGAT 58.296 47.619 23.89 0.00 0.00 3.24
2471 2632 7.577303 TGAAGGATTGGAGCACTTAATAGAAT 58.423 34.615 0.00 0.00 0.00 2.40
2506 2679 2.151202 CCAGTAATGTTTGCTCGTGGT 58.849 47.619 0.00 0.00 0.00 4.16
2576 2750 8.170730 AGTTAATTACCCATGGAGAAGTCTTTT 58.829 33.333 15.22 0.44 0.00 2.27
2580 2754 4.770795 ACCCATGGAGAAGTCTTTTATCG 58.229 43.478 15.22 0.00 0.00 2.92
2589 2763 6.424207 GGAGAAGTCTTTTATCGTTCTGTTGT 59.576 38.462 0.00 0.00 0.00 3.32
2618 2792 2.644299 TGTCCCCTCTCATTGTCATTGT 59.356 45.455 0.00 0.00 0.00 2.71
2684 2860 2.550830 CTGTAACAGACCAGCAACCT 57.449 50.000 0.00 0.00 32.44 3.50
2693 2869 4.009675 CAGACCAGCAACCTAGCAAATAA 58.990 43.478 0.00 0.00 36.85 1.40
2720 2896 8.997323 GCTTATTTCATATCTATCTGTGCTTGT 58.003 33.333 0.00 0.00 0.00 3.16
2742 2918 9.264719 CTTGTATATAAGCACATGAATGACTGA 57.735 33.333 0.00 0.00 0.00 3.41
2743 2919 9.612066 TTGTATATAAGCACATGAATGACTGAA 57.388 29.630 0.00 0.00 0.00 3.02
2744 2920 9.783081 TGTATATAAGCACATGAATGACTGAAT 57.217 29.630 0.00 0.00 0.00 2.57
2746 2922 4.978083 AAGCACATGAATGACTGAATCC 57.022 40.909 0.00 0.00 0.00 3.01
2747 2923 3.959293 AGCACATGAATGACTGAATCCA 58.041 40.909 0.00 0.00 0.00 3.41
2748 2924 3.693085 AGCACATGAATGACTGAATCCAC 59.307 43.478 0.00 0.00 0.00 4.02
2749 2925 3.486375 GCACATGAATGACTGAATCCACG 60.486 47.826 0.00 0.00 0.00 4.94
2750 2926 2.679837 ACATGAATGACTGAATCCACGC 59.320 45.455 0.00 0.00 0.00 5.34
2751 2927 2.470983 TGAATGACTGAATCCACGCA 57.529 45.000 0.00 0.00 0.00 5.24
2752 2928 2.076100 TGAATGACTGAATCCACGCAC 58.924 47.619 0.00 0.00 0.00 5.34
2753 2929 1.398390 GAATGACTGAATCCACGCACC 59.602 52.381 0.00 0.00 0.00 5.01
2754 2930 0.740868 ATGACTGAATCCACGCACCG 60.741 55.000 0.00 0.00 0.00 4.94
2755 2931 1.374252 GACTGAATCCACGCACCGT 60.374 57.895 0.00 0.00 42.36 4.83
2756 2932 0.108992 GACTGAATCCACGCACCGTA 60.109 55.000 0.00 0.00 38.32 4.02
2757 2933 0.389426 ACTGAATCCACGCACCGTAC 60.389 55.000 0.00 0.00 38.32 3.67
2758 2934 1.079681 TGAATCCACGCACCGTACC 60.080 57.895 0.00 0.00 38.32 3.34
2759 2935 1.079681 GAATCCACGCACCGTACCA 60.080 57.895 0.00 0.00 38.32 3.25
2760 2936 1.079405 AATCCACGCACCGTACCAG 60.079 57.895 0.00 0.00 38.32 4.00
2761 2937 1.537814 AATCCACGCACCGTACCAGA 61.538 55.000 0.00 0.00 38.32 3.86
2762 2938 1.945354 ATCCACGCACCGTACCAGAG 61.945 60.000 0.00 0.00 38.32 3.35
2763 2939 2.632544 CCACGCACCGTACCAGAGA 61.633 63.158 0.00 0.00 38.32 3.10
2764 2940 1.154016 CACGCACCGTACCAGAGAG 60.154 63.158 0.00 0.00 38.32 3.20
2765 2941 1.303074 ACGCACCGTACCAGAGAGA 60.303 57.895 0.00 0.00 38.73 3.10
2766 2942 0.892358 ACGCACCGTACCAGAGAGAA 60.892 55.000 0.00 0.00 38.73 2.87
2767 2943 0.456221 CGCACCGTACCAGAGAGAAT 59.544 55.000 0.00 0.00 0.00 2.40
2768 2944 1.799181 CGCACCGTACCAGAGAGAATG 60.799 57.143 0.00 0.00 0.00 2.67
2769 2945 1.476891 GCACCGTACCAGAGAGAATGA 59.523 52.381 0.00 0.00 0.00 2.57
2770 2946 2.094182 GCACCGTACCAGAGAGAATGAA 60.094 50.000 0.00 0.00 0.00 2.57
2771 2947 3.775202 CACCGTACCAGAGAGAATGAAG 58.225 50.000 0.00 0.00 0.00 3.02
2772 2948 2.166664 ACCGTACCAGAGAGAATGAAGC 59.833 50.000 0.00 0.00 0.00 3.86
2773 2949 2.455032 CGTACCAGAGAGAATGAAGCG 58.545 52.381 0.00 0.00 0.00 4.68
2774 2950 2.197577 GTACCAGAGAGAATGAAGCGC 58.802 52.381 0.00 0.00 0.00 5.92
2775 2951 0.459237 ACCAGAGAGAATGAAGCGCG 60.459 55.000 0.00 0.00 0.00 6.86
2776 2952 0.459237 CCAGAGAGAATGAAGCGCGT 60.459 55.000 8.43 0.00 0.00 6.01
2777 2953 0.644331 CAGAGAGAATGAAGCGCGTG 59.356 55.000 8.43 0.00 0.00 5.34
2778 2954 0.528017 AGAGAGAATGAAGCGCGTGA 59.472 50.000 8.43 0.00 0.00 4.35
2779 2955 0.919981 GAGAGAATGAAGCGCGTGAG 59.080 55.000 8.43 0.00 0.00 3.51
2792 2968 3.891786 CGTGAGCACATGAATGAGC 57.108 52.632 0.00 4.74 43.36 4.26
2812 2988 6.132658 TGAGCATCTCTACTCCTAATGTCTT 58.867 40.000 0.00 0.00 34.92 3.01
2826 3002 6.499350 TCCTAATGTCTTAGTTGGTAGGTTGT 59.501 38.462 0.00 0.00 33.78 3.32
2831 3007 5.129815 TGTCTTAGTTGGTAGGTTGTGTTCT 59.870 40.000 0.00 0.00 0.00 3.01
2838 3014 3.458857 TGGTAGGTTGTGTTCTGGGTTTA 59.541 43.478 0.00 0.00 0.00 2.01
2848 3024 5.591067 TGTGTTCTGGGTTTAATTTTCGTCT 59.409 36.000 0.00 0.00 0.00 4.18
2857 3033 5.702209 GGTTTAATTTTCGTCTCACCTACCA 59.298 40.000 0.00 0.00 0.00 3.25
2858 3034 6.373495 GGTTTAATTTTCGTCTCACCTACCAT 59.627 38.462 0.00 0.00 0.00 3.55
2861 3038 4.345859 TTTTCGTCTCACCTACCATGTT 57.654 40.909 0.00 0.00 0.00 2.71
2890 3067 4.777896 TGGTACTTCTTTGATACCTGCTCT 59.222 41.667 0.00 0.00 39.36 4.09
2899 3076 0.757188 ATACCTGCTCTCACCTCCCG 60.757 60.000 0.00 0.00 0.00 5.14
2931 3108 1.410882 CCCAACCAAAACCACGTTCAT 59.589 47.619 0.00 0.00 0.00 2.57
2962 3140 1.992667 CGCAAGCGACAGAATCTAACA 59.007 47.619 9.11 0.00 42.83 2.41
2965 3143 4.398247 GCAAGCGACAGAATCTAACAAAG 58.602 43.478 0.00 0.00 0.00 2.77
2977 3169 4.561735 TCTAACAAAGAAAAACCAGCGG 57.438 40.909 0.00 0.00 0.00 5.52
3027 3219 2.279784 GAATGAGCGAGGCCTCCG 60.280 66.667 27.20 21.49 0.00 4.63
3140 3332 0.035056 CTGCAGGGGAAATCGGTCTT 60.035 55.000 5.57 0.00 0.00 3.01
3141 3333 0.404040 TGCAGGGGAAATCGGTCTTT 59.596 50.000 0.00 0.00 0.00 2.52
3155 3347 2.741878 CGGTCTTTAGAATCGCCACCAT 60.742 50.000 0.00 0.00 0.00 3.55
3167 3359 2.202919 CACCATCGATGCCGCTCA 60.203 61.111 20.25 0.00 35.37 4.26
3171 3363 1.091771 CCATCGATGCCGCTCAGTTT 61.092 55.000 20.25 0.00 35.37 2.66
3209 3401 4.353437 GCAACGGACCGAGGTCGT 62.353 66.667 23.38 13.34 45.41 4.34
3254 3446 1.457009 GGAGCTACTTCGCCCTCGAT 61.457 60.000 0.00 0.00 45.04 3.59
3257 3449 0.179108 GCTACTTCGCCCTCGATGTT 60.179 55.000 10.59 0.00 46.54 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 8.387190 TGGCAAGTCTCATATTTATGAATGAG 57.613 34.615 6.07 6.07 46.90 2.90
27 28 8.929260 ATGGCAAGTCTCATATTTATGAATGA 57.071 30.769 0.00 0.00 41.72 2.57
30 31 9.625747 TGTTATGGCAAGTCTCATATTTATGAA 57.374 29.630 0.00 0.00 41.72 2.57
31 32 9.056005 GTGTTATGGCAAGTCTCATATTTATGA 57.944 33.333 0.00 0.65 40.19 2.15
32 33 9.060347 AGTGTTATGGCAAGTCTCATATTTATG 57.940 33.333 0.00 0.00 35.04 1.90
33 34 9.632638 AAGTGTTATGGCAAGTCTCATATTTAT 57.367 29.630 0.00 0.00 0.00 1.40
34 35 9.461312 AAAGTGTTATGGCAAGTCTCATATTTA 57.539 29.630 0.00 0.00 0.00 1.40
35 36 7.944729 AAGTGTTATGGCAAGTCTCATATTT 57.055 32.000 0.00 0.00 0.00 1.40
36 37 7.201644 CGAAAGTGTTATGGCAAGTCTCATATT 60.202 37.037 0.00 0.00 0.00 1.28
37 38 6.258727 CGAAAGTGTTATGGCAAGTCTCATAT 59.741 38.462 0.00 0.00 0.00 1.78
38 39 5.580691 CGAAAGTGTTATGGCAAGTCTCATA 59.419 40.000 0.00 0.00 0.00 2.15
39 40 4.393062 CGAAAGTGTTATGGCAAGTCTCAT 59.607 41.667 0.00 0.00 0.00 2.90
40 41 3.745975 CGAAAGTGTTATGGCAAGTCTCA 59.254 43.478 0.00 0.00 0.00 3.27
41 42 3.994392 TCGAAAGTGTTATGGCAAGTCTC 59.006 43.478 0.00 0.00 0.00 3.36
42 43 3.997021 CTCGAAAGTGTTATGGCAAGTCT 59.003 43.478 0.00 0.00 0.00 3.24
174 175 1.534595 GGCGCACTATTTGGCTGAATG 60.535 52.381 10.83 0.00 0.00 2.67
192 193 2.399580 AGTACTATCCTCTTGGGTGGC 58.600 52.381 0.00 0.00 36.25 5.01
193 194 4.153411 CCTAGTACTATCCTCTTGGGTGG 58.847 52.174 2.33 0.00 36.25 4.61
195 196 4.060192 TCCCTAGTACTATCCTCTTGGGT 58.940 47.826 16.65 0.00 42.11 4.51
196 197 4.354387 TCTCCCTAGTACTATCCTCTTGGG 59.646 50.000 12.79 12.79 42.56 4.12
198 199 7.899648 TTTTCTCCCTAGTACTATCCTCTTG 57.100 40.000 2.33 0.00 0.00 3.02
236 253 3.864686 CGGTTTGATGCGCTCCCG 61.865 66.667 9.73 8.56 37.57 5.14
242 259 0.454957 CTTTCCTGCGGTTTGATGCG 60.455 55.000 0.00 0.00 0.00 4.73
252 269 0.250295 TGTGAGGGTTCTTTCCTGCG 60.250 55.000 0.00 0.00 34.21 5.18
257 274 5.220989 GGTTGTTACTTGTGAGGGTTCTTTC 60.221 44.000 0.00 0.00 0.00 2.62
258 275 4.643334 GGTTGTTACTTGTGAGGGTTCTTT 59.357 41.667 0.00 0.00 0.00 2.52
268 285 1.606668 ACATGCGGGTTGTTACTTGTG 59.393 47.619 0.00 0.00 0.00 3.33
273 290 0.802494 CCTGACATGCGGGTTGTTAC 59.198 55.000 6.79 0.00 38.31 2.50
274 291 0.958382 GCCTGACATGCGGGTTGTTA 60.958 55.000 14.13 0.00 45.49 2.41
275 292 2.268076 GCCTGACATGCGGGTTGTT 61.268 57.895 14.13 0.00 45.49 2.83
276 293 2.672996 GCCTGACATGCGGGTTGT 60.673 61.111 14.13 0.00 45.49 3.32
277 294 3.443045 GGCCTGACATGCGGGTTG 61.443 66.667 14.13 0.00 45.49 3.77
278 295 4.740822 GGGCCTGACATGCGGGTT 62.741 66.667 0.84 0.00 45.49 4.11
304 321 2.698797 TCCTCTTCGAGTTTGGTGTCTT 59.301 45.455 0.00 0.00 0.00 3.01
328 345 3.055530 CCACTGCTCTAGGTTTGTCTCAT 60.056 47.826 0.00 0.00 0.00 2.90
501 518 3.072768 AGAGAGGAAGGTACCGACGATAT 59.927 47.826 6.18 0.00 34.73 1.63
511 528 2.245287 GGGAAGGAGAGAGAGGAAGGTA 59.755 54.545 0.00 0.00 0.00 3.08
558 575 2.433868 TTCTTACACTCCACTGACGC 57.566 50.000 0.00 0.00 0.00 5.19
603 623 0.041047 TGTCCGTGTGAACGACGTAG 60.041 55.000 0.00 0.00 34.97 3.51
604 624 0.041047 CTGTCCGTGTGAACGACGTA 60.041 55.000 0.00 0.00 34.97 3.57
605 625 1.298863 CTGTCCGTGTGAACGACGT 60.299 57.895 0.00 0.00 34.97 4.34
750 776 1.974236 GGGCCTCAGATATAGTGCTGT 59.026 52.381 0.84 0.00 33.90 4.40
751 777 1.973515 TGGGCCTCAGATATAGTGCTG 59.026 52.381 4.53 0.00 0.00 4.41
752 778 2.405618 TGGGCCTCAGATATAGTGCT 57.594 50.000 4.53 0.00 0.00 4.40
753 779 3.492102 TTTGGGCCTCAGATATAGTGC 57.508 47.619 4.53 0.00 0.00 4.40
756 782 4.260170 GAGCATTTGGGCCTCAGATATAG 58.740 47.826 4.53 0.00 0.00 1.31
881 911 1.134560 GGCTTATATAGGGAGACGCCG 59.865 57.143 0.00 0.00 37.63 6.46
882 912 2.094130 GTGGCTTATATAGGGAGACGCC 60.094 54.545 0.00 0.00 36.85 5.68
935 969 4.899239 GGATGCGCGTGGGAGGAG 62.899 72.222 6.97 0.00 0.00 3.69
996 1030 1.745489 GTTGGAGTGCCCCATCGTC 60.745 63.158 0.00 0.00 35.87 4.20
1123 1157 0.889306 AGATATCTAGCCGCGGGAAC 59.111 55.000 29.38 10.66 0.00 3.62
1124 1158 1.174783 GAGATATCTAGCCGCGGGAA 58.825 55.000 29.38 7.19 0.00 3.97
1125 1159 0.680280 GGAGATATCTAGCCGCGGGA 60.680 60.000 29.38 16.71 0.00 5.14
1163 1198 1.548719 TGTAAGACACACAGATCCGGG 59.451 52.381 0.00 0.00 30.04 5.73
1176 1211 3.922240 TCGCCAACTAAATCGTGTAAGAC 59.078 43.478 0.00 0.00 0.00 3.01
1177 1212 3.922240 GTCGCCAACTAAATCGTGTAAGA 59.078 43.478 0.00 0.00 0.00 2.10
1182 1217 6.364976 TGATATATGTCGCCAACTAAATCGTG 59.635 38.462 0.00 0.00 0.00 4.35
1188 1223 6.683715 TCGAATGATATATGTCGCCAACTAA 58.316 36.000 0.00 0.00 33.58 2.24
1261 1312 5.310451 GGTTAATAAGTCCCTGACAACACA 58.690 41.667 0.00 0.00 34.60 3.72
1266 1317 3.175594 ACCGGTTAATAAGTCCCTGACA 58.824 45.455 0.00 0.00 34.60 3.58
1273 1324 8.938906 TGTGAGAATTTAACCGGTTAATAAGTC 58.061 33.333 34.14 27.77 35.27 3.01
1283 1334 6.851609 TCATCAAATGTGAGAATTTAACCGG 58.148 36.000 0.00 0.00 37.14 5.28
1302 1353 7.944061 CCTTTATCAAGGCATAACAATCATCA 58.056 34.615 0.00 0.00 43.55 3.07
1372 1447 4.447054 CGCCAGAATCAGATGATACAAGTC 59.553 45.833 0.00 0.00 33.73 3.01
1447 1522 1.270465 ACGAAACCCGAAACCTACCTG 60.270 52.381 0.00 0.00 41.76 4.00
1457 1550 4.236935 GACATACTAACAACGAAACCCGA 58.763 43.478 0.00 0.00 41.76 5.14
1465 1558 4.433805 GGTTTGAGCGACATACTAACAACG 60.434 45.833 0.00 0.00 32.50 4.10
1467 1560 4.633175 TGGTTTGAGCGACATACTAACAA 58.367 39.130 0.00 0.00 32.50 2.83
1479 1572 3.984292 GCTCTGAATGGTTTGAGCG 57.016 52.632 0.00 0.00 41.67 5.03
1526 1619 4.156008 ACAATATTTTCCTGGTTGAGTCGC 59.844 41.667 0.00 0.00 0.00 5.19
1532 1634 8.872845 GCAATTCTAACAATATTTTCCTGGTTG 58.127 33.333 0.00 0.00 0.00 3.77
1536 1639 8.469200 TGAGGCAATTCTAACAATATTTTCCTG 58.531 33.333 0.00 0.00 0.00 3.86
1574 1677 6.293735 CCGGAAGAAATGCTTGTTAAGTAACA 60.294 38.462 0.00 0.00 43.80 2.41
1575 1678 6.084277 CCGGAAGAAATGCTTGTTAAGTAAC 58.916 40.000 0.00 0.00 36.83 2.50
1576 1679 5.766174 ACCGGAAGAAATGCTTGTTAAGTAA 59.234 36.000 9.46 0.00 36.83 2.24
1577 1680 5.180492 CACCGGAAGAAATGCTTGTTAAGTA 59.820 40.000 9.46 0.00 36.83 2.24
1627 1730 0.178981 AGACAAGCCAGCAACCACAT 60.179 50.000 0.00 0.00 0.00 3.21
1659 1762 8.339344 TGTTCATCACAATAACATCAGTGATT 57.661 30.769 1.86 0.00 46.35 2.57
1786 1891 2.844451 GCGGAAACACTGCCTGCAA 61.844 57.895 0.00 0.00 44.40 4.08
1923 2028 4.467795 TGAAGCTGCTTACTGAAGGACTAT 59.532 41.667 15.95 0.00 32.84 2.12
1932 2037 4.214971 ACTGACATTTGAAGCTGCTTACTG 59.785 41.667 15.95 12.14 0.00 2.74
1938 2043 5.300969 TCATAACTGACATTTGAAGCTGC 57.699 39.130 0.00 0.00 0.00 5.25
2155 2292 6.483307 CACTAGTGAATTGTCAGACTTGGAAA 59.517 38.462 18.45 0.00 33.27 3.13
2159 2296 5.300752 ACCACTAGTGAATTGTCAGACTTG 58.699 41.667 24.68 4.56 33.27 3.16
2160 2297 5.552870 ACCACTAGTGAATTGTCAGACTT 57.447 39.130 24.68 0.00 33.27 3.01
2200 2337 6.625532 ATTAACCCATTTCAGAAATTGCCT 57.374 33.333 5.58 0.00 0.00 4.75
2255 2392 7.095229 TGCATAAGAACATCAAGACAACTGTAC 60.095 37.037 0.00 0.00 0.00 2.90
2283 2420 3.254060 GCTAGATGCAGAAGAAACGACA 58.746 45.455 0.00 0.00 42.31 4.35
2374 2535 8.394877 CGGTACTGCAACAAAAGATAATAATCA 58.605 33.333 0.00 0.00 34.28 2.57
2382 2543 6.569179 ATTAACGGTACTGCAACAAAAGAT 57.431 33.333 0.23 0.00 0.00 2.40
2419 2580 3.055819 TGATCAGCTTCACTTCAGGGTAC 60.056 47.826 0.00 0.00 0.00 3.34
2453 2614 8.752005 ATTAAGCATTCTATTAAGTGCTCCAA 57.248 30.769 0.00 0.00 46.37 3.53
2471 2632 9.995003 AAACATTACTGGAATTGAAATTAAGCA 57.005 25.926 0.00 0.00 0.00 3.91
2576 2750 5.113383 ACAAACACAGACAACAGAACGATA 58.887 37.500 0.00 0.00 0.00 2.92
2580 2754 3.181500 GGGACAAACACAGACAACAGAAC 60.181 47.826 0.00 0.00 0.00 3.01
2589 2763 1.801242 TGAGAGGGGACAAACACAGA 58.199 50.000 0.00 0.00 0.00 3.41
2641 2817 7.448161 CAGCCATTGACCCAATATGTTCTAATA 59.552 37.037 0.00 0.00 32.35 0.98
2650 2826 4.865905 TGTTACAGCCATTGACCCAATAT 58.134 39.130 0.00 0.00 32.35 1.28
2693 2869 9.217278 CAAGCACAGATAGATATGAAATAAGCT 57.783 33.333 0.00 0.00 29.06 3.74
2716 2892 9.264719 TCAGTCATTCATGTGCTTATATACAAG 57.735 33.333 0.00 0.00 0.00 3.16
2720 2896 9.440773 GGATTCAGTCATTCATGTGCTTATATA 57.559 33.333 0.00 0.00 0.00 0.86
2726 2902 3.693085 GTGGATTCAGTCATTCATGTGCT 59.307 43.478 0.00 0.00 0.00 4.40
2727 2903 3.486375 CGTGGATTCAGTCATTCATGTGC 60.486 47.826 0.00 0.00 0.00 4.57
2728 2904 3.486375 GCGTGGATTCAGTCATTCATGTG 60.486 47.826 0.00 0.00 0.00 3.21
2729 2905 2.679837 GCGTGGATTCAGTCATTCATGT 59.320 45.455 0.00 0.00 0.00 3.21
2730 2906 2.679336 TGCGTGGATTCAGTCATTCATG 59.321 45.455 0.00 0.00 0.00 3.07
2731 2907 2.679837 GTGCGTGGATTCAGTCATTCAT 59.320 45.455 0.00 0.00 0.00 2.57
2732 2908 2.076100 GTGCGTGGATTCAGTCATTCA 58.924 47.619 0.00 0.00 0.00 2.57
2733 2909 1.398390 GGTGCGTGGATTCAGTCATTC 59.602 52.381 0.00 0.00 0.00 2.67
2734 2910 1.453155 GGTGCGTGGATTCAGTCATT 58.547 50.000 0.00 0.00 0.00 2.57
2735 2911 0.740868 CGGTGCGTGGATTCAGTCAT 60.741 55.000 0.00 0.00 0.00 3.06
2736 2912 1.374125 CGGTGCGTGGATTCAGTCA 60.374 57.895 0.00 0.00 0.00 3.41
2737 2913 0.108992 TACGGTGCGTGGATTCAGTC 60.109 55.000 0.00 0.00 41.39 3.51
2738 2914 0.389426 GTACGGTGCGTGGATTCAGT 60.389 55.000 0.00 0.00 41.39 3.41
2739 2915 1.082117 GGTACGGTGCGTGGATTCAG 61.082 60.000 0.00 0.00 41.39 3.02
2740 2916 1.079681 GGTACGGTGCGTGGATTCA 60.080 57.895 0.00 0.00 41.39 2.57
2741 2917 1.079681 TGGTACGGTGCGTGGATTC 60.080 57.895 0.00 0.00 41.39 2.52
2742 2918 1.079405 CTGGTACGGTGCGTGGATT 60.079 57.895 0.00 0.00 41.39 3.01
2743 2919 1.945354 CTCTGGTACGGTGCGTGGAT 61.945 60.000 0.00 0.00 41.39 3.41
2744 2920 2.598099 TCTGGTACGGTGCGTGGA 60.598 61.111 0.00 0.00 41.39 4.02
2745 2921 2.126071 CTCTGGTACGGTGCGTGG 60.126 66.667 0.00 0.00 41.39 4.94
2746 2922 1.154016 CTCTCTGGTACGGTGCGTG 60.154 63.158 0.00 0.00 41.39 5.34
2747 2923 0.892358 TTCTCTCTGGTACGGTGCGT 60.892 55.000 0.00 0.00 44.35 5.24
2748 2924 0.456221 ATTCTCTCTGGTACGGTGCG 59.544 55.000 0.00 0.00 35.30 5.34
2749 2925 1.476891 TCATTCTCTCTGGTACGGTGC 59.523 52.381 0.00 0.00 35.30 5.01
2750 2926 3.775202 CTTCATTCTCTCTGGTACGGTG 58.225 50.000 0.00 0.00 35.30 4.94
2751 2927 2.166664 GCTTCATTCTCTCTGGTACGGT 59.833 50.000 0.00 0.00 35.30 4.83
2752 2928 2.796383 CGCTTCATTCTCTCTGGTACGG 60.796 54.545 0.00 0.00 0.00 4.02
2753 2929 2.455032 CGCTTCATTCTCTCTGGTACG 58.545 52.381 0.00 0.00 0.00 3.67
2754 2930 2.197577 GCGCTTCATTCTCTCTGGTAC 58.802 52.381 0.00 0.00 0.00 3.34
2755 2931 1.202302 CGCGCTTCATTCTCTCTGGTA 60.202 52.381 5.56 0.00 0.00 3.25
2756 2932 0.459237 CGCGCTTCATTCTCTCTGGT 60.459 55.000 5.56 0.00 0.00 4.00
2757 2933 0.459237 ACGCGCTTCATTCTCTCTGG 60.459 55.000 5.73 0.00 0.00 3.86
2758 2934 0.644331 CACGCGCTTCATTCTCTCTG 59.356 55.000 5.73 0.00 0.00 3.35
2759 2935 0.528017 TCACGCGCTTCATTCTCTCT 59.472 50.000 5.73 0.00 0.00 3.10
2760 2936 0.919981 CTCACGCGCTTCATTCTCTC 59.080 55.000 5.73 0.00 0.00 3.20
2761 2937 1.080995 GCTCACGCGCTTCATTCTCT 61.081 55.000 5.73 0.00 0.00 3.10
2762 2938 1.346538 GCTCACGCGCTTCATTCTC 59.653 57.895 5.73 0.00 0.00 2.87
2763 2939 1.374631 TGCTCACGCGCTTCATTCT 60.375 52.632 5.73 0.00 39.65 2.40
2764 2940 1.225854 GTGCTCACGCGCTTCATTC 60.226 57.895 5.73 0.00 43.21 2.67
2765 2941 1.300971 ATGTGCTCACGCGCTTCATT 61.301 50.000 5.73 0.00 46.58 2.57
2766 2942 1.742880 ATGTGCTCACGCGCTTCAT 60.743 52.632 5.73 0.00 46.58 2.57
2767 2943 2.357396 ATGTGCTCACGCGCTTCA 60.357 55.556 5.73 0.00 46.58 3.02
2768 2944 1.900585 TTCATGTGCTCACGCGCTTC 61.901 55.000 5.73 0.00 46.58 3.86
2769 2945 1.300971 ATTCATGTGCTCACGCGCTT 61.301 50.000 5.73 0.00 46.58 4.68
2770 2946 1.742880 ATTCATGTGCTCACGCGCT 60.743 52.632 5.73 0.00 46.58 5.92
2771 2947 1.581912 CATTCATGTGCTCACGCGC 60.582 57.895 5.73 0.00 46.63 6.86
2772 2948 0.025898 CTCATTCATGTGCTCACGCG 59.974 55.000 3.53 3.53 39.65 6.01
2773 2949 0.247974 GCTCATTCATGTGCTCACGC 60.248 55.000 6.59 0.00 42.29 5.34
2774 2950 1.081094 TGCTCATTCATGTGCTCACG 58.919 50.000 13.46 0.00 44.90 4.35
2775 2951 2.943690 AGATGCTCATTCATGTGCTCAC 59.056 45.455 13.46 6.46 44.90 3.51
2776 2952 3.118371 AGAGATGCTCATTCATGTGCTCA 60.118 43.478 13.46 0.00 44.90 4.26
2777 2953 3.468770 AGAGATGCTCATTCATGTGCTC 58.531 45.455 13.46 9.16 44.90 4.26
2778 2954 3.562343 AGAGATGCTCATTCATGTGCT 57.438 42.857 13.46 1.82 44.90 4.40
2779 2955 4.378774 AGTAGAGATGCTCATTCATGTGC 58.621 43.478 6.85 6.85 44.88 4.57
2780 2956 4.989797 GGAGTAGAGATGCTCATTCATGTG 59.010 45.833 0.00 0.00 33.66 3.21
2781 2957 4.900652 AGGAGTAGAGATGCTCATTCATGT 59.099 41.667 0.00 0.00 33.66 3.21
2782 2958 5.471556 AGGAGTAGAGATGCTCATTCATG 57.528 43.478 0.00 0.00 33.66 3.07
2783 2959 7.235193 ACATTAGGAGTAGAGATGCTCATTCAT 59.765 37.037 0.00 0.00 33.66 2.57
2784 2960 6.552725 ACATTAGGAGTAGAGATGCTCATTCA 59.447 38.462 0.00 0.00 33.66 2.57
2785 2961 6.991938 ACATTAGGAGTAGAGATGCTCATTC 58.008 40.000 0.00 0.00 33.66 2.67
2786 2962 6.782000 AGACATTAGGAGTAGAGATGCTCATT 59.218 38.462 0.00 0.00 33.66 2.57
2787 2963 6.314120 AGACATTAGGAGTAGAGATGCTCAT 58.686 40.000 0.00 0.00 33.66 2.90
2788 2964 5.700183 AGACATTAGGAGTAGAGATGCTCA 58.300 41.667 0.00 0.00 33.66 4.26
2789 2965 6.648879 AAGACATTAGGAGTAGAGATGCTC 57.351 41.667 0.00 0.00 0.00 4.26
2790 2966 7.294584 ACTAAGACATTAGGAGTAGAGATGCT 58.705 38.462 0.57 0.00 42.38 3.79
2791 2967 7.519032 ACTAAGACATTAGGAGTAGAGATGC 57.481 40.000 0.57 0.00 42.38 3.91
2792 2968 8.356657 CCAACTAAGACATTAGGAGTAGAGATG 58.643 40.741 0.57 0.00 42.38 2.90
2812 2988 3.071892 CCCAGAACACAACCTACCAACTA 59.928 47.826 0.00 0.00 0.00 2.24
2826 3002 5.823570 TGAGACGAAAATTAAACCCAGAACA 59.176 36.000 0.00 0.00 0.00 3.18
2831 3007 4.721132 AGGTGAGACGAAAATTAAACCCA 58.279 39.130 0.00 0.00 0.00 4.51
2838 3014 4.906618 ACATGGTAGGTGAGACGAAAATT 58.093 39.130 0.00 0.00 0.00 1.82
2880 3057 0.757188 CGGGAGGTGAGAGCAGGTAT 60.757 60.000 0.00 0.00 0.00 2.73
2931 3108 0.879090 TCGCTTGCGAGAGAACTACA 59.121 50.000 13.93 0.00 0.00 2.74
2983 3175 2.847234 TGCAGGTCGTGGAGGGTT 60.847 61.111 0.00 0.00 0.00 4.11
3004 3196 2.203126 CCTCGCTCATTCCTGCCC 60.203 66.667 0.00 0.00 0.00 5.36
3099 3291 1.000019 ACGAGATCGGGAGGGTGAA 60.000 57.895 7.22 0.00 44.95 3.18
3140 3332 2.754472 CATCGATGGTGGCGATTCTAA 58.246 47.619 17.96 0.00 45.29 2.10
3141 3333 1.605457 GCATCGATGGTGGCGATTCTA 60.605 52.381 26.00 0.00 45.29 2.10
3155 3347 1.447838 GGAAACTGAGCGGCATCGA 60.448 57.895 1.45 0.00 39.00 3.59
3167 3359 1.073199 CAGGTTGCGGAGGGAAACT 59.927 57.895 0.00 0.00 42.90 2.66
3209 3401 4.492160 GCGTCGAGCCCACATCGA 62.492 66.667 0.00 0.00 46.26 3.59
3254 3446 3.636231 CCCACGCCCTCCTCAACA 61.636 66.667 0.00 0.00 0.00 3.33
3294 3486 7.663905 GGATAGAGATAGTCTGTAGAGAAGCAA 59.336 40.741 0.00 0.00 36.64 3.91
3299 3491 7.733047 ACTGAGGATAGAGATAGTCTGTAGAGA 59.267 40.741 0.00 0.00 36.64 3.10


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

AutoCloner maintained by Alex Coulton.