Multiple sequence alignment - TraesCS1D01G042300

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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 TraesCS1D01G042300 chr1D 100.000 3437 0 0 1 3437 20828660 20825224 0.000000e+00 6348.0
1 TraesCS1D01G042300 chr1D 90.132 152 14 1 3023 3173 22952825 22952674 2.710000e-46 196.0
2 TraesCS1D01G042300 chr1B 94.039 2533 115 15 110 2620 34169183 34166665 0.000000e+00 3808.0
3 TraesCS1D01G042300 chr1B 88.462 598 62 5 2845 3437 34166383 34165788 0.000000e+00 715.0
4 TraesCS1D01G042300 chr1B 97.541 122 2 1 1 121 34188376 34188255 1.250000e-49 207.0
5 TraesCS1D01G042300 chr1A 94.867 2260 99 8 483 2731 22534176 22536429 0.000000e+00 3515.0
6 TraesCS1D01G042300 chr1A 88.024 501 34 11 2902 3401 22536968 22537443 1.380000e-158 569.0
7 TraesCS1D01G042300 chr1A 87.778 90 6 2 2438 2522 435966301 435966212 2.180000e-17 100.0
8 TraesCS1D01G042300 chr1A 86.813 91 6 1 2438 2522 12556269 12556179 2.820000e-16 97.1
9 TraesCS1D01G042300 chr7A 81.818 1705 267 37 747 2427 167987578 167985893 0.000000e+00 1391.0
10 TraesCS1D01G042300 chr7A 89.610 154 14 2 3022 3173 327915812 327915659 9.730000e-46 195.0
11 TraesCS1D01G042300 chr7B 81.236 1748 271 43 713 2427 130898641 130896918 0.000000e+00 1358.0
12 TraesCS1D01G042300 chr7D 81.436 1616 258 33 711 2301 166928298 166926700 0.000000e+00 1284.0
13 TraesCS1D01G042300 chr7D 84.044 1172 170 15 1263 2427 166887093 166885932 0.000000e+00 1112.0
14 TraesCS1D01G042300 chr7D 86.905 168 18 3 2999 3165 377600249 377600085 5.860000e-43 185.0
15 TraesCS1D01G042300 chr6B 80.722 1385 242 20 1040 2416 21093074 21091707 0.000000e+00 1055.0
16 TraesCS1D01G042300 chr6B 81.532 509 88 5 1040 1548 21099430 21098928 6.860000e-112 414.0
17 TraesCS1D01G042300 chr6A 80.099 1417 253 24 1038 2443 12433870 12432472 0.000000e+00 1027.0
18 TraesCS1D01G042300 chr6A 74.209 1264 292 29 1115 2361 525030965 525029719 6.620000e-137 497.0
19 TraesCS1D01G042300 chr6A 85.549 173 22 3 3002 3173 48709059 48709229 9.800000e-41 178.0
20 TraesCS1D01G042300 chr6D 74.089 1262 297 26 1115 2361 383228085 383226839 3.080000e-135 492.0
21 TraesCS1D01G042300 chr4A 91.447 152 10 3 3018 3166 109441636 109441485 4.500000e-49 206.0
22 TraesCS1D01G042300 chr4D 87.640 178 18 4 2999 3173 298223251 298223427 1.620000e-48 204.0
23 TraesCS1D01G042300 chr5D 86.127 173 17 7 3007 3177 14602334 14602501 2.730000e-41 180.0
24 TraesCS1D01G042300 chr5D 86.517 89 8 3 2439 2527 127258383 127258299 1.020000e-15 95.3
25 TraesCS1D01G042300 chr3B 87.778 90 5 1 2439 2522 809833128 809833039 2.180000e-17 100.0
26 TraesCS1D01G042300 chr2A 86.813 91 6 1 2438 2522 337606835 337606745 2.820000e-16 97.1
27 TraesCS1D01G042300 chrUn 86.170 94 6 5 2437 2523 301350032 301349939 1.020000e-15 95.3
28 TraesCS1D01G042300 chrUn 86.170 94 6 5 2437 2523 348118203 348118296 1.020000e-15 95.3
29 TraesCS1D01G042300 chr4B 83.495 103 9 3 2427 2523 670388291 670388391 4.720000e-14 89.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G042300 chr1D 20825224 20828660 3436 True 6348.0 6348 100.0000 1 3437 1 chr1D.!!$R1 3436
1 TraesCS1D01G042300 chr1B 34165788 34169183 3395 True 2261.5 3808 91.2505 110 3437 2 chr1B.!!$R2 3327
2 TraesCS1D01G042300 chr1A 22534176 22537443 3267 False 2042.0 3515 91.4455 483 3401 2 chr1A.!!$F1 2918
3 TraesCS1D01G042300 chr7A 167985893 167987578 1685 True 1391.0 1391 81.8180 747 2427 1 chr7A.!!$R1 1680
4 TraesCS1D01G042300 chr7B 130896918 130898641 1723 True 1358.0 1358 81.2360 713 2427 1 chr7B.!!$R1 1714
5 TraesCS1D01G042300 chr7D 166926700 166928298 1598 True 1284.0 1284 81.4360 711 2301 1 chr7D.!!$R2 1590
6 TraesCS1D01G042300 chr7D 166885932 166887093 1161 True 1112.0 1112 84.0440 1263 2427 1 chr7D.!!$R1 1164
7 TraesCS1D01G042300 chr6B 21091707 21093074 1367 True 1055.0 1055 80.7220 1040 2416 1 chr6B.!!$R1 1376
8 TraesCS1D01G042300 chr6B 21098928 21099430 502 True 414.0 414 81.5320 1040 1548 1 chr6B.!!$R2 508
9 TraesCS1D01G042300 chr6A 12432472 12433870 1398 True 1027.0 1027 80.0990 1038 2443 1 chr6A.!!$R1 1405
10 TraesCS1D01G042300 chr6A 525029719 525030965 1246 True 497.0 497 74.2090 1115 2361 1 chr6A.!!$R2 1246
11 TraesCS1D01G042300 chr6D 383226839 383228085 1246 True 492.0 492 74.0890 1115 2361 1 chr6D.!!$R1 1246

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
60 61 0.969149 TGACTGCTGACCTACCACAG 59.031 55.0 0.0 0.0 37.22 3.66 F
1052 1115 0.859232 CTGGTCGTGAACAACTTCCG 59.141 55.0 0.0 0.0 0.00 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1995 2058 0.978907 GGAGGACAACGGACCCTAAA 59.021 55.0 0.0 0.0 0.0 1.85 R
2787 2859 0.038526 CCTGAACGTACCTTCGCAGT 60.039 55.0 0.0 0.0 0.0 4.40 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
20 21 3.615224 GACATGGGAAATTGTTGGCAT 57.385 42.857 0.00 0.00 0.00 4.40
21 22 3.264104 GACATGGGAAATTGTTGGCATG 58.736 45.455 0.00 0.00 0.00 4.06
22 23 2.905085 ACATGGGAAATTGTTGGCATGA 59.095 40.909 0.00 0.00 0.00 3.07
23 24 3.327172 ACATGGGAAATTGTTGGCATGAA 59.673 39.130 0.00 0.00 0.00 2.57
24 25 3.399440 TGGGAAATTGTTGGCATGAAC 57.601 42.857 0.00 0.00 0.00 3.18
25 26 2.971330 TGGGAAATTGTTGGCATGAACT 59.029 40.909 0.00 0.00 0.00 3.01
26 27 3.244146 TGGGAAATTGTTGGCATGAACTG 60.244 43.478 0.00 0.00 0.00 3.16
41 42 6.932356 CATGAACTGCTATGGTAGTCAAAT 57.068 37.500 0.00 0.00 37.41 2.32
42 43 6.722301 CATGAACTGCTATGGTAGTCAAATG 58.278 40.000 0.00 2.09 37.41 2.32
43 44 6.048732 TGAACTGCTATGGTAGTCAAATGA 57.951 37.500 0.00 0.00 37.41 2.57
44 45 5.874810 TGAACTGCTATGGTAGTCAAATGAC 59.125 40.000 5.40 5.40 45.08 3.06
56 57 3.003480 GTCAAATGACTGCTGACCTACC 58.997 50.000 6.30 0.00 41.65 3.18
57 58 2.637382 TCAAATGACTGCTGACCTACCA 59.363 45.455 0.00 0.00 0.00 3.25
58 59 2.744202 CAAATGACTGCTGACCTACCAC 59.256 50.000 0.00 0.00 0.00 4.16
59 60 1.644509 ATGACTGCTGACCTACCACA 58.355 50.000 0.00 0.00 0.00 4.17
60 61 0.969149 TGACTGCTGACCTACCACAG 59.031 55.000 0.00 0.00 37.22 3.66
61 62 1.257743 GACTGCTGACCTACCACAGA 58.742 55.000 0.00 0.00 36.38 3.41
62 63 1.618837 GACTGCTGACCTACCACAGAA 59.381 52.381 0.00 0.00 36.38 3.02
63 64 2.037251 GACTGCTGACCTACCACAGAAA 59.963 50.000 0.00 0.00 36.38 2.52
64 65 2.037772 ACTGCTGACCTACCACAGAAAG 59.962 50.000 0.00 0.00 36.38 2.62
65 66 2.037772 CTGCTGACCTACCACAGAAAGT 59.962 50.000 0.00 0.00 36.38 2.66
78 79 3.251004 CACAGAAAGTGGTTACTCCTTGC 59.749 47.826 0.00 0.00 44.69 4.01
79 80 2.814336 CAGAAAGTGGTTACTCCTTGCC 59.186 50.000 0.00 0.00 35.69 4.52
80 81 2.711547 AGAAAGTGGTTACTCCTTGCCT 59.288 45.455 0.00 0.00 35.69 4.75
81 82 3.138468 AGAAAGTGGTTACTCCTTGCCTT 59.862 43.478 0.00 0.00 35.69 4.35
82 83 3.595190 AAGTGGTTACTCCTTGCCTTT 57.405 42.857 0.00 0.00 35.69 3.11
83 84 3.595190 AGTGGTTACTCCTTGCCTTTT 57.405 42.857 0.00 0.00 37.07 2.27
84 85 3.222603 AGTGGTTACTCCTTGCCTTTTG 58.777 45.455 0.00 0.00 37.07 2.44
85 86 3.117663 AGTGGTTACTCCTTGCCTTTTGA 60.118 43.478 0.00 0.00 37.07 2.69
86 87 3.253432 GTGGTTACTCCTTGCCTTTTGAG 59.747 47.826 0.00 0.00 37.07 3.02
87 88 2.820197 GGTTACTCCTTGCCTTTTGAGG 59.180 50.000 0.00 0.00 0.00 3.86
88 89 3.497942 GGTTACTCCTTGCCTTTTGAGGA 60.498 47.826 0.00 0.00 37.24 3.71
89 90 4.142038 GTTACTCCTTGCCTTTTGAGGAA 58.858 43.478 0.00 0.00 39.00 3.36
90 91 2.587522 ACTCCTTGCCTTTTGAGGAAC 58.412 47.619 0.00 0.00 39.00 3.62
91 92 2.091885 ACTCCTTGCCTTTTGAGGAACA 60.092 45.455 0.00 0.00 39.00 3.18
92 93 3.160269 CTCCTTGCCTTTTGAGGAACAT 58.840 45.455 0.00 0.00 39.00 2.71
93 94 4.202567 ACTCCTTGCCTTTTGAGGAACATA 60.203 41.667 0.00 0.00 39.00 2.29
94 95 4.735369 TCCTTGCCTTTTGAGGAACATAA 58.265 39.130 0.00 0.00 36.67 1.90
95 96 5.332743 TCCTTGCCTTTTGAGGAACATAAT 58.667 37.500 0.00 0.00 36.67 1.28
96 97 5.779771 TCCTTGCCTTTTGAGGAACATAATT 59.220 36.000 0.00 0.00 36.67 1.40
97 98 6.269769 TCCTTGCCTTTTGAGGAACATAATTT 59.730 34.615 0.00 0.00 36.67 1.82
98 99 7.453126 TCCTTGCCTTTTGAGGAACATAATTTA 59.547 33.333 0.00 0.00 36.67 1.40
99 100 8.093927 CCTTGCCTTTTGAGGAACATAATTTAA 58.906 33.333 0.00 0.00 32.11 1.52
100 101 9.487790 CTTGCCTTTTGAGGAACATAATTTAAA 57.512 29.630 0.00 0.00 0.00 1.52
101 102 9.838339 TTGCCTTTTGAGGAACATAATTTAAAA 57.162 25.926 0.00 0.00 0.00 1.52
105 106 9.956797 CTTTTGAGGAACATAATTTAAAATGCG 57.043 29.630 0.00 0.00 0.00 4.73
106 107 9.482627 TTTTGAGGAACATAATTTAAAATGCGT 57.517 25.926 0.00 0.00 0.00 5.24
154 155 2.514458 ATTAAGCAAGGGGGTGACAG 57.486 50.000 0.00 0.00 0.00 3.51
165 166 2.370849 GGGGGTGACAGTACAAGAGAAA 59.629 50.000 0.00 0.00 0.00 2.52
170 171 5.695363 GGGTGACAGTACAAGAGAAAGTAAC 59.305 44.000 0.00 0.00 0.00 2.50
186 187 7.743104 AGAAAGTAACACGAGCAAGATAAATG 58.257 34.615 0.00 0.00 0.00 2.32
196 197 8.486383 CACGAGCAAGATAAATGAATCTTCTAG 58.514 37.037 0.00 0.00 42.90 2.43
284 286 9.986833 AAGAAAATGTAAAAACGTACGTTTACT 57.013 25.926 38.02 30.08 46.22 2.24
304 306 2.556534 GCAAGCCAGATTTGCTACAG 57.443 50.000 2.93 0.00 45.64 2.74
309 311 1.210478 GCCAGATTTGCTACAGGAGGA 59.790 52.381 0.00 0.00 0.00 3.71
357 359 6.161855 AGAGATGTTGAAAGGCGATATGTA 57.838 37.500 0.00 0.00 0.00 2.29
432 434 5.047847 ACCGAATTCGTTCAATCGTGATAT 58.952 37.500 25.10 0.00 37.74 1.63
466 468 6.801539 TCATGTGTGTTTTTAAGAGGCTAG 57.198 37.500 0.00 0.00 0.00 3.42
481 483 1.419387 GGCTAGAGTGAATGCTCCCAT 59.581 52.381 0.00 0.00 36.20 4.00
527 529 2.829023 AGGGGACTCTTCCGATTAACA 58.171 47.619 0.00 0.00 43.94 2.41
625 647 1.156736 CGACAAGATTTGACCGGCTT 58.843 50.000 0.00 0.00 0.00 4.35
649 671 1.381872 ATGGAGGGGTCAGGACGAG 60.382 63.158 0.00 0.00 0.00 4.18
897 927 2.978824 CATGGGGACGACCGAGTT 59.021 61.111 0.00 0.00 41.60 3.01
972 1004 2.096417 CGCCTAAAAACAACGAGTCCTG 60.096 50.000 0.00 0.00 0.00 3.86
973 1005 2.225727 GCCTAAAAACAACGAGTCCTGG 59.774 50.000 0.00 0.00 0.00 4.45
974 1006 3.735591 CCTAAAAACAACGAGTCCTGGA 58.264 45.455 0.00 0.00 0.00 3.86
975 1007 4.324267 CCTAAAAACAACGAGTCCTGGAT 58.676 43.478 0.00 0.00 0.00 3.41
1052 1115 0.859232 CTGGTCGTGAACAACTTCCG 59.141 55.000 0.00 0.00 0.00 4.30
1098 1161 1.153823 CGTCGTCCTTCTCCGCAAT 60.154 57.895 0.00 0.00 0.00 3.56
1167 1230 1.204146 GGCAGGTCCATGTCTTCCTA 58.796 55.000 0.00 0.00 34.01 2.94
1272 1335 1.398692 GGCCTAAATCCAATTGCCGA 58.601 50.000 0.00 0.00 0.00 5.54
1723 1786 1.300963 CTGGTGGTGTCCATGGAGG 59.699 63.158 16.81 0.00 35.28 4.30
1725 1788 1.065410 TGGTGGTGTCCATGGAGGTT 61.065 55.000 16.81 0.00 35.28 3.50
1752 1815 5.704354 TCCTTTATATACTACACCGGACCA 58.296 41.667 9.46 0.00 0.00 4.02
2007 2070 2.046604 GCCGCTTTAGGGTCCGTT 60.047 61.111 0.00 0.00 0.00 4.44
2102 2165 1.943968 GCTGTACGTGCCTGATTTCCA 60.944 52.381 0.00 0.00 0.00 3.53
2124 2187 1.004440 GGCCTTCGAGCACTTCTGT 60.004 57.895 0.00 0.00 0.00 3.41
2265 2328 1.317431 TGTGGTACGAGCTGGCGTAT 61.317 55.000 10.44 0.00 46.81 3.06
2343 2406 1.027357 CTGGCTTCAAGTGCAACAGT 58.973 50.000 0.00 0.00 41.43 3.55
2361 2424 1.606025 TGCCGTGTGGGAATGCATT 60.606 52.632 12.83 12.83 38.47 3.56
2462 2533 6.936968 AGTACTCCCTCTGTAAAGAAATGT 57.063 37.500 0.00 0.00 0.00 2.71
2644 2716 8.916628 TTTGCTATACTATTCATGGCATTGTA 57.083 30.769 0.00 0.00 39.28 2.41
2766 2838 6.785488 TGTTGTAACATGATGTCTTCTGTC 57.215 37.500 0.00 0.00 33.17 3.51
2767 2839 5.700832 TGTTGTAACATGATGTCTTCTGTCC 59.299 40.000 0.00 0.00 33.17 4.02
2770 2842 5.934043 TGTAACATGATGTCTTCTGTCCAAG 59.066 40.000 0.00 0.00 0.00 3.61
2771 2843 4.630644 ACATGATGTCTTCTGTCCAAGT 57.369 40.909 0.00 0.00 0.00 3.16
2772 2844 4.321718 ACATGATGTCTTCTGTCCAAGTG 58.678 43.478 0.00 0.00 0.00 3.16
2773 2845 4.202398 ACATGATGTCTTCTGTCCAAGTGT 60.202 41.667 0.00 0.00 0.00 3.55
2774 2846 3.732212 TGATGTCTTCTGTCCAAGTGTG 58.268 45.455 0.00 0.00 0.00 3.82
2775 2847 3.387699 TGATGTCTTCTGTCCAAGTGTGA 59.612 43.478 0.00 0.00 0.00 3.58
2777 2849 4.214986 TGTCTTCTGTCCAAGTGTGAAA 57.785 40.909 0.00 0.00 0.00 2.69
2778 2850 4.584874 TGTCTTCTGTCCAAGTGTGAAAA 58.415 39.130 0.00 0.00 0.00 2.29
2779 2851 4.635765 TGTCTTCTGTCCAAGTGTGAAAAG 59.364 41.667 0.00 0.00 0.00 2.27
2782 2854 6.018669 GTCTTCTGTCCAAGTGTGAAAAGTAG 60.019 42.308 0.00 0.00 0.00 2.57
2783 2855 5.353394 TCTGTCCAAGTGTGAAAAGTAGT 57.647 39.130 0.00 0.00 0.00 2.73
2784 2856 5.116180 TCTGTCCAAGTGTGAAAAGTAGTG 58.884 41.667 0.00 0.00 0.00 2.74
2786 2858 3.003378 GTCCAAGTGTGAAAAGTAGTGCC 59.997 47.826 0.00 0.00 0.00 5.01
2787 2859 2.948979 CCAAGTGTGAAAAGTAGTGCCA 59.051 45.455 0.00 0.00 0.00 4.92
2789 2861 3.560636 AGTGTGAAAAGTAGTGCCACT 57.439 42.857 1.54 1.54 0.00 4.00
2790 2862 3.206150 AGTGTGAAAAGTAGTGCCACTG 58.794 45.455 7.83 0.00 31.01 3.66
2792 2864 1.069906 GTGAAAAGTAGTGCCACTGCG 60.070 52.381 7.83 0.00 41.78 5.18
2794 2866 1.871039 GAAAAGTAGTGCCACTGCGAA 59.129 47.619 7.83 0.00 41.78 4.70
2795 2867 1.512926 AAAGTAGTGCCACTGCGAAG 58.487 50.000 7.83 0.00 41.78 3.79
2796 2868 0.320771 AAGTAGTGCCACTGCGAAGG 60.321 55.000 7.83 0.00 41.78 3.46
2797 2869 1.004918 GTAGTGCCACTGCGAAGGT 60.005 57.895 7.83 0.00 41.78 3.50
2798 2870 0.245539 GTAGTGCCACTGCGAAGGTA 59.754 55.000 7.83 0.00 41.78 3.08
2799 2871 0.245539 TAGTGCCACTGCGAAGGTAC 59.754 55.000 7.83 1.97 41.78 3.34
2800 2872 2.048597 TGCCACTGCGAAGGTACG 60.049 61.111 0.00 0.00 41.78 3.67
2801 2873 2.048503 GCCACTGCGAAGGTACGT 60.049 61.111 0.00 0.00 35.59 3.57
2803 2875 1.623973 GCCACTGCGAAGGTACGTTC 61.624 60.000 16.54 16.54 35.59 3.95
2805 2877 1.060713 CACTGCGAAGGTACGTTCAG 58.939 55.000 23.79 18.06 35.59 3.02
2806 2878 0.038526 ACTGCGAAGGTACGTTCAGG 60.039 55.000 23.79 15.89 35.59 3.86
2807 2879 0.038526 CTGCGAAGGTACGTTCAGGT 60.039 55.000 23.79 0.00 35.59 4.00
2808 2880 1.200716 CTGCGAAGGTACGTTCAGGTA 59.799 52.381 23.79 10.29 35.59 3.08
2810 2882 1.905449 CGAAGGTACGTTCAGGTAGC 58.095 55.000 23.79 1.48 40.32 3.58
2811 2883 1.468736 CGAAGGTACGTTCAGGTAGCC 60.469 57.143 23.79 0.28 40.77 3.93
2812 2884 0.900421 AAGGTACGTTCAGGTAGCCC 59.100 55.000 0.00 0.00 40.77 5.19
2813 2885 0.251922 AGGTACGTTCAGGTAGCCCA 60.252 55.000 0.00 0.00 40.77 5.36
2814 2886 0.108472 GGTACGTTCAGGTAGCCCAC 60.108 60.000 0.00 0.00 35.42 4.61
2843 2915 2.709883 CCGCCCATCCGTTTGCATT 61.710 57.895 0.00 0.00 0.00 3.56
2865 3053 8.850452 GCATTTACTGAACAAATAGCAAGTAAC 58.150 33.333 0.00 0.00 0.00 2.50
2870 3058 5.070001 TGAACAAATAGCAAGTAACTGCCT 58.930 37.500 0.00 0.00 43.73 4.75
2890 3078 1.000896 ATTTGCAACCCCTCCTCCG 60.001 57.895 0.00 0.00 0.00 4.63
2893 3081 4.410400 GCAACCCCTCCTCCGTGG 62.410 72.222 0.00 0.00 37.10 4.94
2895 3083 4.974438 AACCCCTCCTCCGTGGCA 62.974 66.667 0.00 0.00 35.26 4.92
2896 3084 4.741239 ACCCCTCCTCCGTGGCAT 62.741 66.667 0.00 0.00 35.26 4.40
2897 3085 4.181010 CCCCTCCTCCGTGGCATG 62.181 72.222 0.00 0.00 35.26 4.06
2898 3086 3.402681 CCCTCCTCCGTGGCATGT 61.403 66.667 5.89 0.00 35.26 3.21
2899 3087 2.671070 CCTCCTCCGTGGCATGTT 59.329 61.111 5.89 0.00 35.26 2.71
2900 3088 1.622607 CCCTCCTCCGTGGCATGTTA 61.623 60.000 5.89 0.00 35.26 2.41
2979 3420 8.483307 AGATGAACACAATGCATAATTTTTCC 57.517 30.769 0.00 0.00 0.00 3.13
2986 3427 6.369340 CACAATGCATAATTTTTCCAGCTTCA 59.631 34.615 0.00 0.00 0.00 3.02
2989 3430 4.282957 TGCATAATTTTTCCAGCTTCACCA 59.717 37.500 0.00 0.00 0.00 4.17
3035 3476 7.492524 AGAGAGAAGATAATTGACGTAATGCA 58.507 34.615 0.00 0.00 0.00 3.96
3074 3515 7.173032 TGAGTCTCAAGGGCGAGTATATATTA 58.827 38.462 0.00 0.00 34.46 0.98
3106 3548 3.594603 TGAAGAAAAGACGCCTCCTAG 57.405 47.619 0.00 0.00 0.00 3.02
3110 3552 2.756207 AGAAAAGACGCCTCCTAGAGAC 59.244 50.000 0.00 0.00 0.00 3.36
3225 3667 4.202202 GCTAGCTCATGGTTGATGTAGACT 60.202 45.833 7.70 0.00 33.29 3.24
3232 3674 4.182693 TGGTTGATGTAGACTAACACGG 57.817 45.455 0.00 0.00 30.75 4.94
3237 3679 1.624336 TGTAGACTAACACGGCCAGT 58.376 50.000 2.24 0.00 0.00 4.00
3257 3699 1.601419 CCGTCGTGCTTCTTCCCCTA 61.601 60.000 0.00 0.00 0.00 3.53
3263 3705 1.205460 TGCTTCTTCCCCTACACCCC 61.205 60.000 0.00 0.00 0.00 4.95
3264 3706 1.923006 GCTTCTTCCCCTACACCCCC 61.923 65.000 0.00 0.00 0.00 5.40
3281 3723 2.103042 CCGCCTTGGCTTCTTCTCG 61.103 63.158 10.12 0.00 0.00 4.04
3283 3725 0.951040 CGCCTTGGCTTCTTCTCGTT 60.951 55.000 10.12 0.00 0.00 3.85
3285 3727 1.884235 CCTTGGCTTCTTCTCGTTGT 58.116 50.000 0.00 0.00 0.00 3.32
3297 3739 0.179240 CTCGTTGTTGATGTCGCTGC 60.179 55.000 0.00 0.00 0.00 5.25
3322 3764 2.668550 GGGCGTCTGCGGTTTCTT 60.669 61.111 0.00 0.00 44.10 2.52
3329 3771 2.495084 GTCTGCGGTTTCTTCCTCTTT 58.505 47.619 0.00 0.00 0.00 2.52
3401 3843 3.264897 GCGCCATACTCTGCCACG 61.265 66.667 0.00 0.00 0.00 4.94
3406 3848 1.663379 CCATACTCTGCCACGGACGA 61.663 60.000 0.00 0.00 0.00 4.20
3407 3849 0.525668 CATACTCTGCCACGGACGAC 60.526 60.000 0.00 0.00 0.00 4.34
3412 3854 2.598099 TGCCACGGACGACCACTA 60.598 61.111 4.48 0.00 35.59 2.74
3414 3856 2.633509 GCCACGGACGACCACTACT 61.634 63.158 4.48 0.00 35.59 2.57
3416 3858 0.388134 CCACGGACGACCACTACTTG 60.388 60.000 4.48 0.00 35.59 3.16
3417 3859 1.007336 CACGGACGACCACTACTTGC 61.007 60.000 4.48 0.00 35.59 4.01
3418 3860 1.287815 CGGACGACCACTACTTGCA 59.712 57.895 4.48 0.00 35.59 4.08
3419 3861 0.732880 CGGACGACCACTACTTGCAG 60.733 60.000 4.48 0.00 35.59 4.41
3421 3863 0.389948 GACGACCACTACTTGCAGGG 60.390 60.000 0.00 0.00 0.00 4.45
3425 3867 1.201429 ACCACTACTTGCAGGGGGAG 61.201 60.000 0.00 0.00 44.08 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.055963 TCATGCCAACAATTTCCCATGTC 60.056 43.478 0.00 0.00 33.63 3.06
1 2 2.905085 TCATGCCAACAATTTCCCATGT 59.095 40.909 0.00 0.00 33.63 3.21
2 3 3.613494 TCATGCCAACAATTTCCCATG 57.387 42.857 0.00 0.00 33.29 3.66
3 4 3.583966 AGTTCATGCCAACAATTTCCCAT 59.416 39.130 0.67 0.00 0.00 4.00
4 5 2.971330 AGTTCATGCCAACAATTTCCCA 59.029 40.909 0.67 0.00 0.00 4.37
5 6 3.328505 CAGTTCATGCCAACAATTTCCC 58.671 45.455 0.67 0.00 0.00 3.97
18 19 6.539826 TCATTTGACTACCATAGCAGTTCATG 59.460 38.462 0.00 0.00 0.00 3.07
19 20 6.540189 GTCATTTGACTACCATAGCAGTTCAT 59.460 38.462 3.45 0.00 41.65 2.57
20 21 5.874810 GTCATTTGACTACCATAGCAGTTCA 59.125 40.000 3.45 0.00 41.65 3.18
21 22 6.351327 GTCATTTGACTACCATAGCAGTTC 57.649 41.667 3.45 0.00 41.65 3.01
35 36 3.003480 GGTAGGTCAGCAGTCATTTGAC 58.997 50.000 2.41 2.41 45.08 3.18
36 37 2.637382 TGGTAGGTCAGCAGTCATTTGA 59.363 45.455 0.00 0.00 0.00 2.69
37 38 2.744202 GTGGTAGGTCAGCAGTCATTTG 59.256 50.000 0.00 0.00 34.69 2.32
38 39 2.371841 TGTGGTAGGTCAGCAGTCATTT 59.628 45.455 0.00 0.00 34.69 2.32
39 40 1.977854 TGTGGTAGGTCAGCAGTCATT 59.022 47.619 0.00 0.00 34.69 2.57
40 41 1.552337 CTGTGGTAGGTCAGCAGTCAT 59.448 52.381 0.00 0.00 34.69 3.06
41 42 0.969149 CTGTGGTAGGTCAGCAGTCA 59.031 55.000 0.00 0.00 34.69 3.41
42 43 1.257743 TCTGTGGTAGGTCAGCAGTC 58.742 55.000 0.00 0.00 34.69 3.51
43 44 1.717032 TTCTGTGGTAGGTCAGCAGT 58.283 50.000 0.00 0.00 34.69 4.40
44 45 2.037772 ACTTTCTGTGGTAGGTCAGCAG 59.962 50.000 0.00 0.00 34.69 4.24
45 46 2.047061 ACTTTCTGTGGTAGGTCAGCA 58.953 47.619 0.00 0.00 0.00 4.41
46 47 2.417719 CACTTTCTGTGGTAGGTCAGC 58.582 52.381 0.00 0.00 42.68 4.26
56 57 3.251004 GCAAGGAGTAACCACTTTCTGTG 59.749 47.826 0.00 0.00 45.80 3.66
57 58 3.477530 GCAAGGAGTAACCACTTTCTGT 58.522 45.455 0.00 0.00 42.04 3.41
58 59 2.814336 GGCAAGGAGTAACCACTTTCTG 59.186 50.000 0.00 0.00 42.04 3.02
59 60 2.711547 AGGCAAGGAGTAACCACTTTCT 59.288 45.455 0.00 0.00 42.04 2.52
60 61 3.141767 AGGCAAGGAGTAACCACTTTC 57.858 47.619 0.00 0.00 42.04 2.62
61 62 3.595190 AAGGCAAGGAGTAACCACTTT 57.405 42.857 0.00 0.00 42.04 2.66
62 63 3.595190 AAAGGCAAGGAGTAACCACTT 57.405 42.857 0.00 0.00 42.04 3.16
63 64 3.117663 TCAAAAGGCAAGGAGTAACCACT 60.118 43.478 0.00 0.00 42.04 4.00
64 65 3.219281 TCAAAAGGCAAGGAGTAACCAC 58.781 45.455 0.00 0.00 42.04 4.16
65 66 3.486383 CTCAAAAGGCAAGGAGTAACCA 58.514 45.455 0.00 0.00 42.04 3.67
66 67 2.820197 CCTCAAAAGGCAAGGAGTAACC 59.180 50.000 0.00 0.00 35.37 2.85
67 68 3.751518 TCCTCAAAAGGCAAGGAGTAAC 58.248 45.455 0.00 0.00 43.02 2.50
68 69 4.142038 GTTCCTCAAAAGGCAAGGAGTAA 58.858 43.478 0.00 0.00 43.02 2.24
69 70 3.137544 TGTTCCTCAAAAGGCAAGGAGTA 59.862 43.478 0.00 0.00 43.02 2.59
70 71 2.091885 TGTTCCTCAAAAGGCAAGGAGT 60.092 45.455 0.00 0.00 43.02 3.85
71 72 2.586425 TGTTCCTCAAAAGGCAAGGAG 58.414 47.619 0.00 0.00 43.02 3.69
72 73 2.746279 TGTTCCTCAAAAGGCAAGGA 57.254 45.000 0.00 0.00 43.02 3.36
73 74 5.665916 ATTATGTTCCTCAAAAGGCAAGG 57.334 39.130 0.00 0.00 43.02 3.61
74 75 9.487790 TTTAAATTATGTTCCTCAAAAGGCAAG 57.512 29.630 0.00 0.00 43.02 4.01
75 76 9.838339 TTTTAAATTATGTTCCTCAAAAGGCAA 57.162 25.926 0.00 0.00 43.02 4.52
79 80 9.956797 CGCATTTTAAATTATGTTCCTCAAAAG 57.043 29.630 2.66 0.00 0.00 2.27
80 81 9.482627 ACGCATTTTAAATTATGTTCCTCAAAA 57.517 25.926 2.66 0.00 0.00 2.44
101 102 9.770097 CTGAATATCCCAGAATAATATACGCAT 57.230 33.333 0.14 0.00 33.65 4.73
102 103 8.204160 CCTGAATATCCCAGAATAATATACGCA 58.796 37.037 6.64 0.00 33.65 5.24
103 104 8.204836 ACCTGAATATCCCAGAATAATATACGC 58.795 37.037 6.64 0.00 33.65 4.42
125 126 4.402474 CCCCCTTGCTTAATTCTAAACCTG 59.598 45.833 0.00 0.00 0.00 4.00
135 136 1.710809 ACTGTCACCCCCTTGCTTAAT 59.289 47.619 0.00 0.00 0.00 1.40
154 155 4.980434 TGCTCGTGTTACTTTCTCTTGTAC 59.020 41.667 0.00 0.00 0.00 2.90
165 166 7.766278 AGATTCATTTATCTTGCTCGTGTTACT 59.234 33.333 0.00 0.00 30.76 2.24
170 171 7.244166 AGAAGATTCATTTATCTTGCTCGTG 57.756 36.000 3.77 0.00 43.18 4.35
196 197 8.747538 ACCATCCAAATATAAGTTACCAGTTC 57.252 34.615 0.00 0.00 0.00 3.01
210 211 6.434028 GGCATAGCATAGAAACCATCCAAATA 59.566 38.462 0.00 0.00 0.00 1.40
265 267 5.709011 TGCAGTAAACGTACGTTTTTACA 57.291 34.783 41.09 30.87 44.84 2.41
274 276 2.409975 TCTGGCTTGCAGTAAACGTAC 58.590 47.619 0.00 0.00 0.00 3.67
277 279 3.236816 CAAATCTGGCTTGCAGTAAACG 58.763 45.455 0.00 0.00 0.00 3.60
304 306 5.057149 GTGTTGACCATATACATGTCCTCC 58.943 45.833 0.00 0.00 0.00 4.30
309 311 7.994425 TCAAAAGTGTTGACCATATACATGT 57.006 32.000 2.69 2.69 0.00 3.21
357 359 2.567615 ACATCTTTGCCGAGTTAGGTCT 59.432 45.455 0.00 0.00 0.00 3.85
390 392 3.570550 CGGTGGGATAACACTTCCAAAAA 59.429 43.478 0.00 0.00 41.09 1.94
456 458 3.639094 GGAGCATTCACTCTAGCCTCTTA 59.361 47.826 0.00 0.00 36.87 2.10
458 460 2.038659 GGAGCATTCACTCTAGCCTCT 58.961 52.381 0.00 0.00 36.87 3.69
466 468 7.550906 GGAATATTAGTATGGGAGCATTCACTC 59.449 40.741 0.00 0.00 35.86 3.51
481 483 9.276590 TCGTAGATGAAACTCGGAATATTAGTA 57.723 33.333 0.00 0.00 0.00 1.82
625 647 1.207488 CCTGACCCCTCCATCACCAA 61.207 60.000 0.00 0.00 0.00 3.67
897 927 5.131142 TCCAACTTGGGCCATTTTAAAAAGA 59.869 36.000 7.26 0.00 38.32 2.52
1052 1115 3.838795 GTGCCACGACGACGATGC 61.839 66.667 15.32 15.36 42.66 3.91
1167 1230 1.888736 GAACGGTAGGAAGACGGCT 59.111 57.895 0.00 0.00 0.00 5.52
1272 1335 3.766591 CGATGAAGGAGGCTATGGATACT 59.233 47.826 0.00 0.00 37.61 2.12
1723 1786 7.448469 TCCGGTGTAGTATATAAAGGAGGTAAC 59.552 40.741 0.00 0.00 0.00 2.50
1725 1788 6.942576 GTCCGGTGTAGTATATAAAGGAGGTA 59.057 42.308 0.00 0.00 0.00 3.08
1734 1797 4.655963 GGTCTGGTCCGGTGTAGTATATA 58.344 47.826 0.00 0.00 0.00 0.86
1752 1815 3.071206 AGCAGCATCGTCCGGTCT 61.071 61.111 0.00 0.00 0.00 3.85
1818 1881 3.411517 CGGGACTTGGCCCTGGAT 61.412 66.667 10.21 0.00 46.44 3.41
1974 2037 3.987404 GCGATGTTGGCCTTGAGT 58.013 55.556 3.32 0.00 0.00 3.41
1995 2058 0.978907 GGAGGACAACGGACCCTAAA 59.021 55.000 0.00 0.00 0.00 1.85
2064 2127 1.919600 GCTTGATCCTCCTGCCCAGT 61.920 60.000 0.00 0.00 0.00 4.00
2102 2165 0.674895 GAAGTGCTCGAAGGCCATGT 60.675 55.000 5.01 0.00 0.00 3.21
2217 2280 1.227615 GGACGTGTTCCCAAACCGA 60.228 57.895 0.00 0.00 38.70 4.69
2265 2328 2.131709 CCGTCCCTTGGCCTCGATA 61.132 63.158 3.32 0.00 0.00 2.92
2343 2406 0.322906 TAATGCATTCCCACACGGCA 60.323 50.000 16.86 0.00 39.03 5.69
2644 2716 7.765695 TTAAGGAGCTCAAATCTTTTGTCAT 57.234 32.000 17.19 0.00 0.00 3.06
2739 2811 9.283768 ACAGAAGACATCATGTTACAACATTAA 57.716 29.630 4.85 0.00 46.95 1.40
2741 2813 7.094634 GGACAGAAGACATCATGTTACAACATT 60.095 37.037 4.85 0.00 46.95 2.71
2743 2815 5.700832 GGACAGAAGACATCATGTTACAACA 59.299 40.000 0.00 0.00 44.06 3.33
2744 2816 5.700832 TGGACAGAAGACATCATGTTACAAC 59.299 40.000 0.00 0.00 0.00 3.32
2745 2817 5.863965 TGGACAGAAGACATCATGTTACAA 58.136 37.500 0.00 0.00 0.00 2.41
2748 2820 5.934043 CACTTGGACAGAAGACATCATGTTA 59.066 40.000 0.00 0.00 0.00 2.41
2749 2821 4.758674 CACTTGGACAGAAGACATCATGTT 59.241 41.667 0.00 0.00 0.00 2.71
2751 2823 4.153655 CACACTTGGACAGAAGACATCATG 59.846 45.833 0.00 0.00 0.00 3.07
2753 2825 3.387699 TCACACTTGGACAGAAGACATCA 59.612 43.478 0.00 0.00 0.00 3.07
2754 2826 3.995199 TCACACTTGGACAGAAGACATC 58.005 45.455 0.00 0.00 0.00 3.06
2757 2829 4.636206 ACTTTTCACACTTGGACAGAAGAC 59.364 41.667 0.00 0.00 0.00 3.01
2759 2831 5.817816 ACTACTTTTCACACTTGGACAGAAG 59.182 40.000 0.00 0.00 0.00 2.85
2760 2832 5.584649 CACTACTTTTCACACTTGGACAGAA 59.415 40.000 0.00 0.00 0.00 3.02
2761 2833 5.116180 CACTACTTTTCACACTTGGACAGA 58.884 41.667 0.00 0.00 0.00 3.41
2762 2834 4.260784 GCACTACTTTTCACACTTGGACAG 60.261 45.833 0.00 0.00 0.00 3.51
2763 2835 3.625764 GCACTACTTTTCACACTTGGACA 59.374 43.478 0.00 0.00 0.00 4.02
2764 2836 3.003378 GGCACTACTTTTCACACTTGGAC 59.997 47.826 0.00 0.00 0.00 4.02
2766 2838 2.948979 TGGCACTACTTTTCACACTTGG 59.051 45.455 0.00 0.00 0.00 3.61
2767 2839 3.627577 AGTGGCACTACTTTTCACACTTG 59.372 43.478 20.61 0.00 34.36 3.16
2770 2842 2.287009 GCAGTGGCACTACTTTTCACAC 60.287 50.000 21.59 0.00 40.72 3.82
2771 2843 1.946768 GCAGTGGCACTACTTTTCACA 59.053 47.619 21.59 0.00 40.72 3.58
2772 2844 1.069906 CGCAGTGGCACTACTTTTCAC 60.070 52.381 21.59 1.86 41.24 3.18
2773 2845 1.202592 TCGCAGTGGCACTACTTTTCA 60.203 47.619 21.59 0.00 41.24 2.69
2774 2846 1.508632 TCGCAGTGGCACTACTTTTC 58.491 50.000 21.59 4.68 41.24 2.29
2775 2847 1.873591 CTTCGCAGTGGCACTACTTTT 59.126 47.619 21.59 0.00 41.24 2.27
2777 2849 0.320771 CCTTCGCAGTGGCACTACTT 60.321 55.000 21.59 0.00 41.24 2.24
2778 2850 1.293498 CCTTCGCAGTGGCACTACT 59.707 57.895 21.59 0.00 41.24 2.57
2779 2851 0.245539 TACCTTCGCAGTGGCACTAC 59.754 55.000 21.59 14.42 41.24 2.73
2782 2854 2.380410 CGTACCTTCGCAGTGGCAC 61.380 63.158 10.29 10.29 41.24 5.01
2783 2855 2.048597 CGTACCTTCGCAGTGGCA 60.049 61.111 0.00 0.00 41.24 4.92
2784 2856 1.623973 GAACGTACCTTCGCAGTGGC 61.624 60.000 0.00 0.00 0.00 5.01
2786 2858 1.060713 CTGAACGTACCTTCGCAGTG 58.939 55.000 0.00 0.00 0.00 3.66
2787 2859 0.038526 CCTGAACGTACCTTCGCAGT 60.039 55.000 0.00 0.00 0.00 4.40
2789 2861 1.200716 CTACCTGAACGTACCTTCGCA 59.799 52.381 0.00 0.00 0.00 5.10
2790 2862 1.905449 CTACCTGAACGTACCTTCGC 58.095 55.000 0.00 0.00 0.00 4.70
2792 2864 1.134877 GGGCTACCTGAACGTACCTTC 60.135 57.143 0.00 0.00 0.00 3.46
2794 2866 0.251922 TGGGCTACCTGAACGTACCT 60.252 55.000 0.00 0.00 37.76 3.08
2795 2867 0.108472 GTGGGCTACCTGAACGTACC 60.108 60.000 0.00 0.00 37.76 3.34
2796 2868 0.108472 GGTGGGCTACCTGAACGTAC 60.108 60.000 13.48 0.00 46.51 3.67
2797 2869 2.279842 GGTGGGCTACCTGAACGTA 58.720 57.895 13.48 0.00 46.51 3.57
2798 2870 3.066198 GGTGGGCTACCTGAACGT 58.934 61.111 13.48 0.00 46.51 3.99
2825 2897 2.224495 AAATGCAAACGGATGGGCGG 62.224 55.000 0.00 0.00 0.00 6.13
2826 2898 0.453793 TAAATGCAAACGGATGGGCG 59.546 50.000 0.00 0.00 0.00 6.13
2827 2899 1.476488 AGTAAATGCAAACGGATGGGC 59.524 47.619 0.00 0.00 0.00 5.36
2828 2900 2.752354 TCAGTAAATGCAAACGGATGGG 59.248 45.455 0.00 0.00 0.00 4.00
2830 2902 4.793071 TGTTCAGTAAATGCAAACGGATG 58.207 39.130 0.00 0.00 0.00 3.51
2831 2903 5.446143 TTGTTCAGTAAATGCAAACGGAT 57.554 34.783 0.00 0.00 0.00 4.18
2832 2904 4.902443 TTGTTCAGTAAATGCAAACGGA 57.098 36.364 0.00 0.00 0.00 4.69
2833 2905 6.183359 GCTATTTGTTCAGTAAATGCAAACGG 60.183 38.462 0.00 0.00 32.85 4.44
2834 2906 6.362016 TGCTATTTGTTCAGTAAATGCAAACG 59.638 34.615 0.00 0.00 33.23 3.60
2836 2908 7.925483 ACTTGCTATTTGTTCAGTAAATGCAAA 59.075 29.630 0.00 0.00 38.89 3.68
2837 2909 7.432869 ACTTGCTATTTGTTCAGTAAATGCAA 58.567 30.769 0.00 1.73 38.13 4.08
2838 2910 6.980593 ACTTGCTATTTGTTCAGTAAATGCA 58.019 32.000 0.00 0.00 33.75 3.96
2839 2911 8.850452 GTTACTTGCTATTTGTTCAGTAAATGC 58.150 33.333 0.00 0.00 0.00 3.56
2843 2915 7.308348 GGCAGTTACTTGCTATTTGTTCAGTAA 60.308 37.037 6.72 0.00 43.57 2.24
2865 3053 0.901580 AGGGGTTGCAAATGAGGCAG 60.902 55.000 0.00 0.00 43.05 4.85
2870 3058 0.039618 GGAGGAGGGGTTGCAAATGA 59.960 55.000 0.00 0.00 0.00 2.57
2893 3081 2.590821 AGATGGGGCAGAATAACATGC 58.409 47.619 0.00 0.00 41.80 4.06
2895 3083 4.401925 GCTTAGATGGGGCAGAATAACAT 58.598 43.478 0.00 0.00 0.00 2.71
2896 3084 3.435026 GGCTTAGATGGGGCAGAATAACA 60.435 47.826 0.00 0.00 0.00 2.41
2897 3085 3.149981 GGCTTAGATGGGGCAGAATAAC 58.850 50.000 0.00 0.00 0.00 1.89
2898 3086 2.108250 GGGCTTAGATGGGGCAGAATAA 59.892 50.000 0.00 0.00 0.00 1.40
2899 3087 1.705186 GGGCTTAGATGGGGCAGAATA 59.295 52.381 0.00 0.00 0.00 1.75
2900 3088 0.480252 GGGCTTAGATGGGGCAGAAT 59.520 55.000 0.00 0.00 0.00 2.40
2986 3427 8.822805 TCTATCCTTTTACATACTTCACTTGGT 58.177 33.333 0.00 0.00 0.00 3.67
3004 3445 8.472007 ACGTCAATTATCTTCTCTCTATCCTT 57.528 34.615 0.00 0.00 0.00 3.36
3026 3467 8.389779 TCAATAATACATCCAATGCATTACGT 57.610 30.769 12.53 9.21 32.83 3.57
3035 3476 7.941238 CCCTTGAGACTCAATAATACATCCAAT 59.059 37.037 18.04 0.00 35.59 3.16
3091 3532 2.526432 TGTCTCTAGGAGGCGTCTTTT 58.474 47.619 6.34 0.00 37.04 2.27
3174 3616 9.742552 GCTTAGAAGTTTTATGTTCTTTCTACG 57.257 33.333 0.00 0.00 34.76 3.51
3211 3653 3.615592 GCCGTGTTAGTCTACATCAACCA 60.616 47.826 0.00 0.00 0.00 3.67
3232 3674 3.112709 GAAGCACGACGGACTGGC 61.113 66.667 0.00 0.00 0.00 4.85
3237 3679 2.654877 GGGAAGAAGCACGACGGA 59.345 61.111 0.00 0.00 0.00 4.69
3281 3723 2.069273 AGTAGCAGCGACATCAACAAC 58.931 47.619 8.50 0.00 0.00 3.32
3283 3725 1.000843 ACAGTAGCAGCGACATCAACA 59.999 47.619 8.50 0.00 0.00 3.33
3285 3727 1.732405 CGACAGTAGCAGCGACATCAA 60.732 52.381 8.50 0.00 0.00 2.57
3297 3739 2.202623 GCAGACGCCCGACAGTAG 60.203 66.667 0.00 0.00 0.00 2.57
3401 3843 0.389948 CCTGCAAGTAGTGGTCGTCC 60.390 60.000 0.00 0.00 0.00 4.79
3406 3848 1.151899 TCCCCCTGCAAGTAGTGGT 60.152 57.895 0.00 0.00 0.00 4.16
3407 3849 0.909610 TCTCCCCCTGCAAGTAGTGG 60.910 60.000 0.00 0.00 0.00 4.00
3412 3854 2.113243 GACGTTCTCCCCCTGCAAGT 62.113 60.000 0.00 0.00 0.00 3.16
3414 3856 2.747686 GACGTTCTCCCCCTGCAA 59.252 61.111 0.00 0.00 0.00 4.08
3416 3858 2.722201 ATCGACGTTCTCCCCCTGC 61.722 63.158 0.00 0.00 0.00 4.85
3417 3859 1.141881 CATCGACGTTCTCCCCCTG 59.858 63.158 0.00 0.00 0.00 4.45
3418 3860 2.058595 CCATCGACGTTCTCCCCCT 61.059 63.158 0.00 0.00 0.00 4.79
3419 3861 2.499685 CCATCGACGTTCTCCCCC 59.500 66.667 0.00 0.00 0.00 5.40


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

AutoCloner maintained by Alex Coulton.