Multiple sequence alignment - TraesCS7A01G014300

Loading Multiple Alignment...

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 TraesCS7A01G014300 chr7A 100.000 2705 0 0 1 2705 6352360 6349656 0.000000e+00 4996
1 TraesCS7A01G014300 chr7A 90.260 154 14 1 2426 2579 680258162 680258010 1.640000e-47 200
2 TraesCS7A01G014300 chr4A 91.609 2038 120 24 1 1998 737441804 737443830 0.000000e+00 2769
3 TraesCS7A01G014300 chr4A 89.007 282 23 4 2255 2532 737443837 737444114 2.580000e-90 342
4 TraesCS7A01G014300 chr4A 88.889 153 15 2 2426 2578 658108025 658108175 1.280000e-43 187
5 TraesCS7A01G014300 chr7D 91.331 1442 70 20 1 1431 5125546 5124149 0.000000e+00 1919
6 TraesCS7A01G014300 chr7D 92.823 836 21 16 1245 2050 5124254 5123428 0.000000e+00 1175
7 TraesCS7A01G014300 chr7D 90.338 207 10 6 2218 2419 5123323 5123122 2.070000e-66 263
8 TraesCS7A01G014300 chr7D 93.143 175 11 1 2049 2222 184381394 184381220 3.460000e-64 255
9 TraesCS7A01G014300 chr7D 90.155 193 14 5 2037 2226 56399628 56399818 2.080000e-61 246
10 TraesCS7A01G014300 chr7D 91.209 91 6 2 2579 2667 5123140 5123050 3.660000e-24 122
11 TraesCS7A01G014300 chr6D 92.857 182 11 2 2052 2231 104041327 104041146 2.070000e-66 263
12 TraesCS7A01G014300 chr6D 93.182 176 10 2 2048 2222 27494483 27494657 9.610000e-65 257
13 TraesCS7A01G014300 chr1D 95.181 166 7 1 2053 2217 356185937 356185772 7.430000e-66 261
14 TraesCS7A01G014300 chr3D 94.152 171 9 1 2053 2222 526050789 526050619 2.670000e-65 259
15 TraesCS7A01G014300 chr3D 93.642 173 10 1 2050 2221 329681925 329681753 9.610000e-65 257
16 TraesCS7A01G014300 chr1A 94.643 168 8 1 2053 2219 551812576 551812409 2.670000e-65 259
17 TraesCS7A01G014300 chr1A 93.333 150 10 0 2429 2578 534915564 534915713 3.510000e-54 222
18 TraesCS7A01G014300 chr1A 93.333 150 10 0 2429 2578 534919876 534920025 3.510000e-54 222
19 TraesCS7A01G014300 chr6A 91.803 183 13 2 2039 2219 420829518 420829336 1.240000e-63 254
20 TraesCS7A01G014300 chrUn 93.333 150 10 0 2429 2578 308680942 308681091 3.510000e-54 222
21 TraesCS7A01G014300 chrUn 93.333 150 10 0 2429 2578 324198440 324198589 3.510000e-54 222
22 TraesCS7A01G014300 chr4B 90.667 150 14 0 2430 2579 521735037 521735186 1.640000e-47 200
23 TraesCS7A01G014300 chr4B 89.933 149 14 1 2432 2580 521734955 521734808 9.890000e-45 191


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 TraesCS7A01G014300 chr7A 6349656 6352360 2704 True 4996.00 4996 100.00000 1 2705 1 chr7A.!!$R1 2704
1 TraesCS7A01G014300 chr4A 737441804 737444114 2310 False 1555.50 2769 90.30800 1 2532 2 chr4A.!!$F2 2531
2 TraesCS7A01G014300 chr7D 5123050 5125546 2496 True 869.75 1919 91.42525 1 2667 4 chr7D.!!$R2 2666

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
922 951 0.249398 CACGGTAGGGCAGCTAACTT 59.751 55.0 0.0 0.0 0.0 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2555 2712 0.323302 TGAAATGCGCCACTAGTCCA 59.677 50.0 4.18 0.0 0.0 4.02 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
32 33 4.079672 AGTCCAGCTTTACTCTAGCCTCTA 60.080 45.833 0.00 0.00 39.47 2.43
508 522 6.101650 AGGATTTTTGGGTCTCAAATTCAC 57.898 37.500 0.00 0.00 43.95 3.18
526 540 4.478206 TCACTTGAGCTTGGGATCTAAG 57.522 45.455 0.00 0.00 0.00 2.18
551 565 9.719355 AGTTTCTTGAAAACCACACTTAAAAAT 57.281 25.926 0.00 0.00 0.00 1.82
827 856 9.965902 GAATAGGATCATTTACATGGTTAGGAT 57.034 33.333 0.00 0.00 0.00 3.24
857 886 4.021016 CCTTCCCGGATGGACTAGAATAAG 60.021 50.000 13.20 0.00 45.11 1.73
888 917 5.797051 AGCAAACATATTGGAGCACAAATT 58.203 33.333 0.00 0.00 43.46 1.82
908 937 4.579384 CCCACTTGCACCCACGGT 62.579 66.667 0.00 0.00 35.62 4.83
922 951 0.249398 CACGGTAGGGCAGCTAACTT 59.751 55.000 0.00 0.00 0.00 2.66
936 965 5.460419 GCAGCTAACTTGCGCCTATATATAG 59.540 44.000 12.18 12.18 38.13 1.31
960 989 3.117794 CCAATCCATACAAAGCAATGCG 58.882 45.455 0.00 0.00 0.00 4.73
980 1009 3.614616 GCGCACAAGCCATAGATAGATAC 59.385 47.826 0.30 0.00 37.52 2.24
982 1011 4.081972 CGCACAAGCCATAGATAGATACCT 60.082 45.833 0.00 0.00 37.52 3.08
984 1013 6.183360 CGCACAAGCCATAGATAGATACCTAT 60.183 42.308 0.00 0.00 36.46 2.57
985 1014 7.013369 CGCACAAGCCATAGATAGATACCTATA 59.987 40.741 0.00 0.00 34.96 1.31
986 1015 8.696374 GCACAAGCCATAGATAGATACCTATAA 58.304 37.037 0.00 0.00 33.47 0.98
1183 1212 2.281900 TGCTACGGCAACAACCCC 60.282 61.111 0.00 0.00 46.36 4.95
1214 1243 1.897802 GGGGACGAAGGTGTTCTCTAA 59.102 52.381 0.00 0.00 0.00 2.10
1215 1244 2.301009 GGGGACGAAGGTGTTCTCTAAA 59.699 50.000 0.00 0.00 0.00 1.85
1218 1247 4.262335 GGGACGAAGGTGTTCTCTAAAGAA 60.262 45.833 0.00 0.00 39.22 2.52
1299 1385 1.227674 GGCGCATGGGTTCTCTAGG 60.228 63.158 10.83 0.00 0.00 3.02
1304 1390 2.679082 GCATGGGTTCTCTAGGGACTA 58.321 52.381 0.00 0.00 41.75 2.59
1305 1391 3.243724 GCATGGGTTCTCTAGGGACTAT 58.756 50.000 0.00 0.00 41.70 2.12
1306 1392 3.648545 GCATGGGTTCTCTAGGGACTATT 59.351 47.826 0.00 0.00 41.70 1.73
1309 1395 3.454812 TGGGTTCTCTAGGGACTATTTGC 59.545 47.826 0.00 0.00 41.70 3.68
1313 1399 0.756903 TCTAGGGACTATTTGCCGGC 59.243 55.000 22.73 22.73 41.70 6.13
1318 1419 0.815615 GGACTATTTGCCGGCCTCAG 60.816 60.000 26.77 17.72 0.00 3.35
1334 1435 2.203640 AGTGGCAGTCCCTCGTGA 60.204 61.111 0.00 0.00 32.31 4.35
1551 1658 2.664151 CGACGATGATGAGGATGACGAG 60.664 54.545 0.00 0.00 0.00 4.18
1862 1981 3.626924 GCCTCACCCGTGGAGTGT 61.627 66.667 7.19 0.00 36.58 3.55
1878 1997 9.498307 CCGTGGAGTGTGATTTAAATAAATAAC 57.502 33.333 0.00 6.48 37.48 1.89
1937 2056 0.670546 CCCGATGTATGGACGATGCC 60.671 60.000 0.00 0.00 0.00 4.40
2004 2123 0.098376 CCTAGTGACTCCGTACGTGC 59.902 60.000 15.21 0.00 0.00 5.34
2022 2141 1.691434 TGCGTGCATGGATAGTGGATA 59.309 47.619 8.27 0.00 0.00 2.59
2046 2165 3.381949 CTCATTGGCGCTTACTACCTAC 58.618 50.000 7.64 0.00 0.00 3.18
2050 2169 3.234234 TGGCGCTTACTACCTACCTAT 57.766 47.619 7.64 0.00 0.00 2.57
2051 2170 4.371624 TGGCGCTTACTACCTACCTATA 57.628 45.455 7.64 0.00 0.00 1.31
2052 2171 4.927049 TGGCGCTTACTACCTACCTATAT 58.073 43.478 7.64 0.00 0.00 0.86
2053 2172 6.065976 TGGCGCTTACTACCTACCTATATA 57.934 41.667 7.64 0.00 0.00 0.86
2058 2177 7.201688 GCGCTTACTACCTACCTATATACTTCC 60.202 44.444 0.00 0.00 0.00 3.46
2060 2179 9.394767 GCTTACTACCTACCTATATACTTCCTC 57.605 40.741 0.00 0.00 0.00 3.71
2062 2181 6.956497 ACTACCTACCTATATACTTCCTCCG 58.044 44.000 0.00 0.00 0.00 4.63
2063 2182 5.857106 ACCTACCTATATACTTCCTCCGT 57.143 43.478 0.00 0.00 0.00 4.69
2064 2183 6.211505 ACCTACCTATATACTTCCTCCGTT 57.788 41.667 0.00 0.00 0.00 4.44
2065 2184 6.618501 ACCTACCTATATACTTCCTCCGTTT 58.381 40.000 0.00 0.00 0.00 3.60
2066 2185 7.071917 ACCTACCTATATACTTCCTCCGTTTT 58.928 38.462 0.00 0.00 0.00 2.43
2070 2223 7.854337 ACCTATATACTTCCTCCGTTTTCAAA 58.146 34.615 0.00 0.00 0.00 2.69
2078 2231 8.265165 ACTTCCTCCGTTTTCAAATATAAGTC 57.735 34.615 0.00 0.00 0.00 3.01
2083 2236 8.947115 CCTCCGTTTTCAAATATAAGTCTTTCT 58.053 33.333 0.00 0.00 0.00 2.52
2101 2254 9.784531 AGTCTTTCTAGAGATTTCAACAAATGA 57.215 29.630 0.00 0.00 31.94 2.57
2102 2255 9.818796 GTCTTTCTAGAGATTTCAACAAATGAC 57.181 33.333 0.00 0.00 37.92 3.06
2110 2263 8.873830 AGAGATTTCAACAAATGACTACATACG 58.126 33.333 0.00 0.00 37.92 3.06
2111 2264 8.771920 AGATTTCAACAAATGACTACATACGA 57.228 30.769 0.00 0.00 37.92 3.43
2112 2265 9.214957 AGATTTCAACAAATGACTACATACGAA 57.785 29.630 0.00 0.00 37.92 3.85
2113 2266 9.478019 GATTTCAACAAATGACTACATACGAAG 57.522 33.333 0.00 0.00 37.92 3.79
2114 2267 7.956420 TTCAACAAATGACTACATACGAAGT 57.044 32.000 0.00 0.00 41.11 3.01
2115 2268 9.478768 TTTCAACAAATGACTACATACGAAGTA 57.521 29.630 0.00 0.00 42.78 2.24
2117 2270 9.478768 TCAACAAATGACTACATACGAAGTAAA 57.521 29.630 0.00 0.00 39.00 2.01
2133 2286 8.240883 ACGAAGTAAAATGAGTGAATCTACAC 57.759 34.615 0.00 0.00 41.94 2.90
2172 2325 5.838529 CATACATCCGTATGTTGTAGTCCA 58.161 41.667 0.00 0.00 46.70 4.02
2173 2326 6.455647 CATACATCCGTATGTTGTAGTCCAT 58.544 40.000 0.00 0.00 46.70 3.41
2174 2327 5.353394 ACATCCGTATGTTGTAGTCCATT 57.647 39.130 0.00 0.00 44.07 3.16
2175 2328 5.741011 ACATCCGTATGTTGTAGTCCATTT 58.259 37.500 0.00 0.00 44.07 2.32
2176 2329 5.584649 ACATCCGTATGTTGTAGTCCATTTG 59.415 40.000 0.00 0.00 44.07 2.32
2177 2330 5.408880 TCCGTATGTTGTAGTCCATTTGA 57.591 39.130 0.00 0.00 0.00 2.69
2178 2331 5.795972 TCCGTATGTTGTAGTCCATTTGAA 58.204 37.500 0.00 0.00 0.00 2.69
2179 2332 6.231951 TCCGTATGTTGTAGTCCATTTGAAA 58.768 36.000 0.00 0.00 0.00 2.69
2180 2333 6.882140 TCCGTATGTTGTAGTCCATTTGAAAT 59.118 34.615 0.00 0.00 0.00 2.17
2181 2334 6.966632 CCGTATGTTGTAGTCCATTTGAAATG 59.033 38.462 10.84 10.84 0.00 2.32
2182 2335 7.361713 CCGTATGTTGTAGTCCATTTGAAATGT 60.362 37.037 15.93 1.43 0.00 2.71
2183 2336 7.692291 CGTATGTTGTAGTCCATTTGAAATGTC 59.308 37.037 15.93 9.10 0.00 3.06
2184 2337 7.765695 ATGTTGTAGTCCATTTGAAATGTCT 57.234 32.000 15.93 14.81 0.00 3.41
2185 2338 8.862325 ATGTTGTAGTCCATTTGAAATGTCTA 57.138 30.769 15.93 13.97 0.00 2.59
2186 2339 8.684386 TGTTGTAGTCCATTTGAAATGTCTAA 57.316 30.769 15.93 4.89 0.00 2.10
2187 2340 9.126151 TGTTGTAGTCCATTTGAAATGTCTAAA 57.874 29.630 15.93 10.39 0.00 1.85
2188 2341 9.959749 GTTGTAGTCCATTTGAAATGTCTAAAA 57.040 29.630 15.93 14.59 0.00 1.52
2211 2364 8.515695 AAAAACTTATATTTAGGAACGGAGGG 57.484 34.615 0.00 0.00 0.00 4.30
2212 2365 7.441903 AAACTTATATTTAGGAACGGAGGGA 57.558 36.000 0.00 0.00 0.00 4.20
2213 2366 6.667558 ACTTATATTTAGGAACGGAGGGAG 57.332 41.667 0.00 0.00 0.00 4.30
2216 2369 7.786464 ACTTATATTTAGGAACGGAGGGAGTAA 59.214 37.037 0.00 0.00 0.00 2.24
2231 2384 3.740832 GGGAGTAAATTTTTGCTGTGTGC 59.259 43.478 0.00 0.00 43.25 4.57
2359 2514 8.345565 CAGGTAAATAAATCCTGCTTATGTGTC 58.654 37.037 0.00 0.00 41.46 3.67
2405 2562 4.880696 TGATCGATCGAGCTGATGATCTAT 59.119 41.667 30.86 6.82 39.62 1.98
2421 2578 8.522003 TGATGATCTATCTAGAGTGAAATGCTC 58.478 37.037 0.00 0.00 36.71 4.26
2425 2582 3.895232 TCTAGAGTGAAATGCTCCACC 57.105 47.619 0.00 0.00 34.00 4.61
2438 2595 2.361610 CCACCAGTCCATGTGGCC 60.362 66.667 0.00 0.00 44.98 5.36
2439 2596 2.747460 CACCAGTCCATGTGGCCG 60.747 66.667 0.00 0.00 38.83 6.13
2458 2615 4.262617 GCCGGTTTTTCTCCTCTCTAATT 58.737 43.478 1.90 0.00 0.00 1.40
2459 2616 4.095036 GCCGGTTTTTCTCCTCTCTAATTG 59.905 45.833 1.90 0.00 0.00 2.32
2483 2640 7.911651 TGGTTTTGGCCTTATTTGATCAAATA 58.088 30.769 28.93 28.93 40.99 1.40
2487 2644 8.472683 TTTGGCCTTATTTGATCAAATAAACG 57.527 30.769 35.72 30.49 46.45 3.60
2504 2661 9.113876 CAAATAAACGAGTTTGTGGACTAAATC 57.886 33.333 11.09 0.00 34.23 2.17
2528 2685 3.777106 TCACTTTCTGAGTTGATGGCT 57.223 42.857 0.00 0.00 36.10 4.75
2532 2689 6.061441 TCACTTTCTGAGTTGATGGCTTAAA 58.939 36.000 0.00 0.00 36.10 1.52
2533 2690 6.205464 TCACTTTCTGAGTTGATGGCTTAAAG 59.795 38.462 0.00 0.00 36.10 1.85
2534 2691 6.016777 CACTTTCTGAGTTGATGGCTTAAAGT 60.017 38.462 0.00 0.00 36.10 2.66
2535 2692 5.947228 TTCTGAGTTGATGGCTTAAAGTG 57.053 39.130 0.00 0.00 0.00 3.16
2536 2693 4.973168 TCTGAGTTGATGGCTTAAAGTGT 58.027 39.130 0.00 0.00 0.00 3.55
2537 2694 4.756642 TCTGAGTTGATGGCTTAAAGTGTG 59.243 41.667 0.00 0.00 0.00 3.82
2538 2695 4.460263 TGAGTTGATGGCTTAAAGTGTGT 58.540 39.130 0.00 0.00 0.00 3.72
2539 2696 5.616270 TGAGTTGATGGCTTAAAGTGTGTA 58.384 37.500 0.00 0.00 0.00 2.90
2540 2697 6.058833 TGAGTTGATGGCTTAAAGTGTGTAA 58.941 36.000 0.00 0.00 0.00 2.41
2541 2698 6.714810 TGAGTTGATGGCTTAAAGTGTGTAAT 59.285 34.615 0.00 0.00 0.00 1.89
2542 2699 7.094805 TGAGTTGATGGCTTAAAGTGTGTAATC 60.095 37.037 0.00 0.00 0.00 1.75
2543 2700 6.714810 AGTTGATGGCTTAAAGTGTGTAATCA 59.285 34.615 0.00 0.00 0.00 2.57
2544 2701 7.230510 AGTTGATGGCTTAAAGTGTGTAATCAA 59.769 33.333 0.00 0.00 31.13 2.57
2545 2702 7.701539 TGATGGCTTAAAGTGTGTAATCAAT 57.298 32.000 0.00 0.00 0.00 2.57
2546 2703 8.121305 TGATGGCTTAAAGTGTGTAATCAATT 57.879 30.769 0.00 0.00 0.00 2.32
2547 2704 8.584157 TGATGGCTTAAAGTGTGTAATCAATTT 58.416 29.630 0.00 0.00 38.71 1.82
2548 2705 8.761575 ATGGCTTAAAGTGTGTAATCAATTTG 57.238 30.769 0.00 0.00 36.53 2.32
2549 2706 7.946207 TGGCTTAAAGTGTGTAATCAATTTGA 58.054 30.769 0.75 0.75 36.53 2.69
2550 2707 8.081633 TGGCTTAAAGTGTGTAATCAATTTGAG 58.918 33.333 5.21 6.91 39.85 3.02
2551 2708 8.082242 GGCTTAAAGTGTGTAATCAATTTGAGT 58.918 33.333 5.21 4.90 39.42 3.41
2552 2709 9.463443 GCTTAAAGTGTGTAATCAATTTGAGTT 57.537 29.630 4.51 2.72 39.42 3.01
2557 2714 9.912634 AAGTGTGTAATCAATTTGAGTTTATGG 57.087 29.630 4.51 0.00 0.00 2.74
2558 2715 9.295825 AGTGTGTAATCAATTTGAGTTTATGGA 57.704 29.630 4.51 0.00 0.00 3.41
2559 2716 9.341899 GTGTGTAATCAATTTGAGTTTATGGAC 57.658 33.333 4.51 0.00 0.00 4.02
2560 2717 9.295825 TGTGTAATCAATTTGAGTTTATGGACT 57.704 29.630 4.51 0.00 0.00 3.85
2565 2722 7.921786 TCAATTTGAGTTTATGGACTAGTGG 57.078 36.000 0.00 0.00 0.00 4.00
2566 2723 6.374333 TCAATTTGAGTTTATGGACTAGTGGC 59.626 38.462 0.00 0.00 0.00 5.01
2567 2724 3.520290 TGAGTTTATGGACTAGTGGCG 57.480 47.619 0.00 0.00 0.00 5.69
2568 2725 2.202566 GAGTTTATGGACTAGTGGCGC 58.797 52.381 0.00 0.00 0.00 6.53
2569 2726 1.553248 AGTTTATGGACTAGTGGCGCA 59.447 47.619 10.83 0.00 0.00 6.09
2570 2727 2.170607 AGTTTATGGACTAGTGGCGCAT 59.829 45.455 10.83 0.00 0.00 4.73
2571 2728 2.943033 GTTTATGGACTAGTGGCGCATT 59.057 45.455 10.83 0.00 0.00 3.56
2572 2729 3.275617 TTATGGACTAGTGGCGCATTT 57.724 42.857 10.83 0.00 0.00 2.32
2573 2730 1.668419 ATGGACTAGTGGCGCATTTC 58.332 50.000 10.83 0.00 0.00 2.17
2574 2731 0.323302 TGGACTAGTGGCGCATTTCA 59.677 50.000 10.83 0.00 0.00 2.69
2575 2732 0.727398 GGACTAGTGGCGCATTTCAC 59.273 55.000 10.83 8.22 0.00 3.18
2576 2733 1.676014 GGACTAGTGGCGCATTTCACT 60.676 52.381 18.76 18.76 45.10 3.41
2577 2734 1.661112 GACTAGTGGCGCATTTCACTC 59.339 52.381 18.39 3.92 42.51 3.51
2578 2735 1.001974 ACTAGTGGCGCATTTCACTCA 59.998 47.619 18.39 6.83 42.51 3.41
2579 2736 2.283298 CTAGTGGCGCATTTCACTCAT 58.717 47.619 18.39 0.99 42.51 2.90
2580 2737 1.089920 AGTGGCGCATTTCACTCATC 58.910 50.000 10.83 0.00 39.77 2.92
2581 2738 1.089920 GTGGCGCATTTCACTCATCT 58.910 50.000 10.83 0.00 0.00 2.90
2582 2739 2.093500 AGTGGCGCATTTCACTCATCTA 60.093 45.455 10.83 0.00 39.77 1.98
2583 2740 2.286294 GTGGCGCATTTCACTCATCTAG 59.714 50.000 10.83 0.00 0.00 2.43
2584 2741 1.262683 GGCGCATTTCACTCATCTAGC 59.737 52.381 10.83 0.00 0.00 3.42
2585 2742 2.208431 GCGCATTTCACTCATCTAGCT 58.792 47.619 0.30 0.00 0.00 3.32
2586 2743 3.384668 GCGCATTTCACTCATCTAGCTA 58.615 45.455 0.30 0.00 0.00 3.32
2587 2744 3.428198 GCGCATTTCACTCATCTAGCTAG 59.572 47.826 15.01 15.01 0.00 3.42
2588 2745 3.986572 CGCATTTCACTCATCTAGCTAGG 59.013 47.826 20.58 7.03 0.00 3.02
2589 2746 4.500545 CGCATTTCACTCATCTAGCTAGGT 60.501 45.833 20.58 11.30 0.00 3.08
2601 2758 9.727859 CTCATCTAGCTAGGTAAGATGTAAGTA 57.272 37.037 20.58 14.00 44.50 2.24
2602 2759 9.504708 TCATCTAGCTAGGTAAGATGTAAGTAC 57.495 37.037 20.58 0.00 44.50 2.73
2607 2764 7.050377 AGCTAGGTAAGATGTAAGTACGTACA 58.950 38.462 26.55 21.34 38.32 2.90
2652 2809 4.479619 CTTCTGCTGCTGTTATTGGTTTC 58.520 43.478 0.00 0.00 0.00 2.78
2653 2810 2.819608 TCTGCTGCTGTTATTGGTTTCC 59.180 45.455 0.00 0.00 0.00 3.13
2660 2817 5.841810 TGCTGTTATTGGTTTCCTGAAAAG 58.158 37.500 0.00 0.00 31.33 2.27
2663 2820 5.212745 TGTTATTGGTTTCCTGAAAAGGGT 58.787 37.500 0.00 0.00 31.33 4.34
2664 2821 5.069781 TGTTATTGGTTTCCTGAAAAGGGTG 59.930 40.000 0.00 0.00 31.33 4.61
2665 2822 3.390175 TTGGTTTCCTGAAAAGGGTGA 57.610 42.857 0.00 0.00 31.33 4.02
2667 2824 3.922375 TGGTTTCCTGAAAAGGGTGAAT 58.078 40.909 0.00 0.00 31.33 2.57
2668 2825 4.294347 TGGTTTCCTGAAAAGGGTGAATT 58.706 39.130 0.00 0.00 31.33 2.17
2669 2826 4.719273 TGGTTTCCTGAAAAGGGTGAATTT 59.281 37.500 0.00 0.00 31.33 1.82
2670 2827 5.190726 TGGTTTCCTGAAAAGGGTGAATTTT 59.809 36.000 0.00 0.00 32.68 1.82
2671 2828 5.527214 GGTTTCCTGAAAAGGGTGAATTTTG 59.473 40.000 0.00 0.00 30.22 2.44
2672 2829 5.948742 TTCCTGAAAAGGGTGAATTTTGT 57.051 34.783 0.00 0.00 30.22 2.83
2673 2830 5.948742 TCCTGAAAAGGGTGAATTTTGTT 57.051 34.783 0.00 0.00 30.22 2.83
2674 2831 7.425224 TTCCTGAAAAGGGTGAATTTTGTTA 57.575 32.000 0.00 0.00 30.22 2.41
2675 2832 7.049799 TCCTGAAAAGGGTGAATTTTGTTAG 57.950 36.000 0.00 0.00 30.22 2.34
2676 2833 6.041523 TCCTGAAAAGGGTGAATTTTGTTAGG 59.958 38.462 0.00 0.00 30.22 2.69
2677 2834 6.041523 CCTGAAAAGGGTGAATTTTGTTAGGA 59.958 38.462 0.00 0.00 30.75 2.94
2678 2835 7.256296 CCTGAAAAGGGTGAATTTTGTTAGGAT 60.256 37.037 0.00 0.00 30.75 3.24
2679 2836 7.441017 TGAAAAGGGTGAATTTTGTTAGGATG 58.559 34.615 0.00 0.00 30.22 3.51
2680 2837 5.405935 AAGGGTGAATTTTGTTAGGATGC 57.594 39.130 0.00 0.00 0.00 3.91
2681 2838 4.415596 AGGGTGAATTTTGTTAGGATGCA 58.584 39.130 0.00 0.00 0.00 3.96
2682 2839 4.837860 AGGGTGAATTTTGTTAGGATGCAA 59.162 37.500 0.00 0.00 0.00 4.08
2683 2840 4.929211 GGGTGAATTTTGTTAGGATGCAAC 59.071 41.667 0.00 0.00 0.00 4.17
2684 2841 4.929211 GGTGAATTTTGTTAGGATGCAACC 59.071 41.667 4.51 4.51 0.00 3.77
2685 2842 4.621034 GTGAATTTTGTTAGGATGCAACCG 59.379 41.667 7.44 0.00 34.73 4.44
2686 2843 4.520874 TGAATTTTGTTAGGATGCAACCGA 59.479 37.500 7.44 0.00 34.73 4.69
2687 2844 5.010112 TGAATTTTGTTAGGATGCAACCGAA 59.990 36.000 7.44 5.86 34.73 4.30
2688 2845 3.907894 TTTGTTAGGATGCAACCGAAC 57.092 42.857 25.48 25.48 42.79 3.95
2689 2846 1.816074 TGTTAGGATGCAACCGAACC 58.184 50.000 27.83 15.26 42.16 3.62
2690 2847 1.349688 TGTTAGGATGCAACCGAACCT 59.650 47.619 27.83 15.38 42.16 3.50
2691 2848 1.737793 GTTAGGATGCAACCGAACCTG 59.262 52.381 22.94 0.00 38.81 4.00
2692 2849 0.392461 TAGGATGCAACCGAACCTGC 60.392 55.000 7.44 0.00 39.09 4.85
2693 2850 2.700773 GGATGCAACCGAACCTGCC 61.701 63.158 0.00 0.00 37.79 4.85
2694 2851 1.675641 GATGCAACCGAACCTGCCT 60.676 57.895 0.00 0.00 37.79 4.75
2695 2852 1.648467 GATGCAACCGAACCTGCCTC 61.648 60.000 0.00 0.00 37.79 4.70
2696 2853 3.056328 GCAACCGAACCTGCCTCC 61.056 66.667 0.00 0.00 32.18 4.30
2697 2854 2.750350 CAACCGAACCTGCCTCCT 59.250 61.111 0.00 0.00 0.00 3.69
2698 2855 1.672356 CAACCGAACCTGCCTCCTG 60.672 63.158 0.00 0.00 0.00 3.86
2699 2856 2.895424 AACCGAACCTGCCTCCTGG 61.895 63.158 0.00 0.00 36.24 4.45
2700 2857 3.322466 CCGAACCTGCCTCCTGGT 61.322 66.667 0.00 0.00 44.22 4.00
2701 2858 2.046892 CGAACCTGCCTCCTGGTG 60.047 66.667 0.00 0.00 41.83 4.17
2702 2859 2.883828 CGAACCTGCCTCCTGGTGT 61.884 63.158 0.00 0.00 41.83 4.16
2703 2860 1.456287 GAACCTGCCTCCTGGTGTT 59.544 57.895 0.00 0.00 41.83 3.32
2704 2861 0.690762 GAACCTGCCTCCTGGTGTTA 59.309 55.000 0.00 0.00 41.83 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 3.028130 AGAGGCTAGAGTAAAGCTGGAC 58.972 50.000 0.00 0.00 39.97 4.02
71 72 4.274459 GTCTATGCAGGTTAGAGGCAAATG 59.726 45.833 0.00 0.00 41.43 2.32
397 408 6.597672 CACTATTACATAAACTTGCAGGGTGA 59.402 38.462 0.00 0.00 0.00 4.02
404 415 6.197096 GCACATGCACTATTACATAAACTTGC 59.803 38.462 0.00 0.00 41.59 4.01
508 522 5.495640 AGAAACTTAGATCCCAAGCTCAAG 58.504 41.667 4.90 0.00 0.00 3.02
551 565 8.394121 GTGTAAATGTTTTCAGCAATTTCCAAA 58.606 29.630 0.00 0.00 0.00 3.28
618 646 3.423996 TTTTTCACACAGGGCGTAAAC 57.576 42.857 0.00 0.00 0.00 2.01
695 724 9.515226 TTATCCAGTTATTATATTTCAGCACCC 57.485 33.333 0.00 0.00 0.00 4.61
765 794 7.988737 TGTGACCTATGAATGATAAAAGCAAG 58.011 34.615 0.00 0.00 0.00 4.01
778 807 5.245075 TCGTATGCCATATGTGACCTATGAA 59.755 40.000 9.09 0.00 0.00 2.57
827 856 3.553375 TCCATCCGGGAAGGTATATCA 57.447 47.619 17.31 0.00 44.80 2.15
888 917 2.836154 GTGGGTGCAAGTGGGAGA 59.164 61.111 0.00 0.00 0.00 3.71
908 937 1.449601 GCGCAAGTTAGCTGCCCTA 60.450 57.895 0.30 0.00 41.68 3.53
922 951 4.039245 GGATTGGCTCTATATATAGGCGCA 59.961 45.833 23.93 18.63 40.96 6.09
936 965 4.365723 CATTGCTTTGTATGGATTGGCTC 58.634 43.478 0.00 0.00 0.00 4.70
960 989 5.413309 AGGTATCTATCTATGGCTTGTGC 57.587 43.478 0.00 0.00 38.76 4.57
980 1009 8.082852 ACGTCATTGCTAACTATCTGTTATAGG 58.917 37.037 0.00 0.00 40.02 2.57
982 1011 9.459640 GAACGTCATTGCTAACTATCTGTTATA 57.540 33.333 0.00 0.00 40.02 0.98
984 1013 6.471198 CGAACGTCATTGCTAACTATCTGTTA 59.529 38.462 0.00 0.00 39.89 2.41
985 1014 5.288712 CGAACGTCATTGCTAACTATCTGTT 59.711 40.000 0.00 0.00 42.31 3.16
986 1015 4.798907 CGAACGTCATTGCTAACTATCTGT 59.201 41.667 0.00 0.00 0.00 3.41
991 1020 3.428452 CCTCCGAACGTCATTGCTAACTA 60.428 47.826 0.00 0.00 0.00 2.24
1118 1147 2.675056 CGCAGCTTTCGCTCTTGCT 61.675 57.895 0.00 0.00 45.15 3.91
1122 1151 4.687215 TGCCGCAGCTTTCGCTCT 62.687 61.111 0.00 0.00 45.15 4.09
1201 1230 6.234177 CCAGTGATTCTTTAGAGAACACCTT 58.766 40.000 17.30 5.56 44.27 3.50
1205 1234 5.221722 ACTGCCAGTGATTCTTTAGAGAACA 60.222 40.000 0.00 0.00 44.27 3.18
1214 1243 0.322975 AGCGACTGCCAGTGATTCTT 59.677 50.000 0.00 0.00 44.31 2.52
1215 1244 0.108424 GAGCGACTGCCAGTGATTCT 60.108 55.000 0.00 0.00 44.31 2.40
1218 1247 2.159819 AACGAGCGACTGCCAGTGAT 62.160 55.000 0.00 0.00 44.31 3.06
1299 1385 0.815615 CTGAGGCCGGCAAATAGTCC 60.816 60.000 30.85 8.01 0.00 3.85
1304 1390 2.361610 CCACTGAGGCCGGCAAAT 60.362 61.111 30.85 13.99 0.00 2.32
1313 1399 2.985456 GAGGGACTGCCACTGAGG 59.015 66.667 0.00 0.00 41.55 3.86
1318 1419 1.153549 GATCACGAGGGACTGCCAC 60.154 63.158 0.00 0.00 41.55 5.01
1551 1658 1.135083 TCGTCTTCTTCGAAGGCATCC 60.135 52.381 24.37 8.64 34.36 3.51
1809 1919 7.415229 CAGACAGCAAACATATACTAGTACGA 58.585 38.462 4.31 0.00 0.00 3.43
1878 1997 7.147549 TGGATTTAGTTACAGACATTAGGAGGG 60.148 40.741 0.00 0.00 0.00 4.30
1937 2056 1.945394 GCACAATAGAGTGGATGCAGG 59.055 52.381 0.00 0.00 39.87 4.85
2004 2123 3.067106 GGTTATCCACTATCCATGCACG 58.933 50.000 0.00 0.00 0.00 5.34
2022 2141 2.629051 GTAGTAAGCGCCAATGAGGTT 58.371 47.619 2.29 0.00 40.61 3.50
2046 2165 8.904099 ATTTGAAAACGGAGGAAGTATATAGG 57.096 34.615 0.00 0.00 0.00 2.57
2051 2170 9.901172 ACTTATATTTGAAAACGGAGGAAGTAT 57.099 29.630 0.00 0.00 0.00 2.12
2052 2171 9.374838 GACTTATATTTGAAAACGGAGGAAGTA 57.625 33.333 0.00 0.00 0.00 2.24
2053 2172 8.101419 AGACTTATATTTGAAAACGGAGGAAGT 58.899 33.333 0.00 0.00 0.00 3.01
2084 2237 8.873830 CGTATGTAGTCATTTGTTGAAATCTCT 58.126 33.333 0.00 0.00 35.70 3.10
2085 2238 8.869897 TCGTATGTAGTCATTTGTTGAAATCTC 58.130 33.333 0.00 0.00 35.70 2.75
2087 2240 9.478019 CTTCGTATGTAGTCATTTGTTGAAATC 57.522 33.333 0.00 0.00 35.70 2.17
2089 2242 8.373048 ACTTCGTATGTAGTCATTTGTTGAAA 57.627 30.769 0.00 0.00 35.70 2.69
2090 2243 7.956420 ACTTCGTATGTAGTCATTTGTTGAA 57.044 32.000 0.00 0.00 35.70 2.69
2091 2244 9.478768 TTTACTTCGTATGTAGTCATTTGTTGA 57.521 29.630 0.00 0.00 35.70 3.18
2098 2251 9.302345 CACTCATTTTACTTCGTATGTAGTCAT 57.698 33.333 0.00 0.00 38.00 3.06
2100 2253 8.906636 TCACTCATTTTACTTCGTATGTAGTC 57.093 34.615 0.00 0.00 0.00 2.59
2101 2254 9.871238 ATTCACTCATTTTACTTCGTATGTAGT 57.129 29.630 0.00 0.00 0.00 2.73
2108 2261 8.088981 AGTGTAGATTCACTCATTTTACTTCGT 58.911 33.333 0.00 0.00 44.07 3.85
2109 2262 8.467402 AGTGTAGATTCACTCATTTTACTTCG 57.533 34.615 0.00 0.00 44.07 3.79
2150 2303 6.665992 ATGGACTACAACATACGGATGTAT 57.334 37.500 15.10 8.21 45.93 2.29
2151 2304 6.474140 AATGGACTACAACATACGGATGTA 57.526 37.500 15.10 0.00 45.93 2.29
2153 2306 5.815222 TCAAATGGACTACAACATACGGATG 59.185 40.000 5.94 5.94 39.16 3.51
2154 2307 5.984725 TCAAATGGACTACAACATACGGAT 58.015 37.500 0.00 0.00 0.00 4.18
2155 2308 5.408880 TCAAATGGACTACAACATACGGA 57.591 39.130 0.00 0.00 0.00 4.69
2156 2309 6.489127 TTTCAAATGGACTACAACATACGG 57.511 37.500 0.00 0.00 0.00 4.02
2157 2310 7.526608 ACATTTCAAATGGACTACAACATACG 58.473 34.615 14.70 0.00 0.00 3.06
2158 2311 8.730680 AGACATTTCAAATGGACTACAACATAC 58.269 33.333 14.70 0.00 0.00 2.39
2159 2312 8.862325 AGACATTTCAAATGGACTACAACATA 57.138 30.769 14.70 0.00 0.00 2.29
2160 2313 7.765695 AGACATTTCAAATGGACTACAACAT 57.234 32.000 14.70 0.00 0.00 2.71
2161 2314 8.684386 TTAGACATTTCAAATGGACTACAACA 57.316 30.769 14.70 1.25 0.00 3.33
2162 2315 9.959749 TTTTAGACATTTCAAATGGACTACAAC 57.040 29.630 14.70 0.00 0.00 3.32
2186 2339 8.330993 TCCCTCCGTTCCTAAATATAAGTTTTT 58.669 33.333 0.00 0.00 0.00 1.94
2187 2340 7.864770 TCCCTCCGTTCCTAAATATAAGTTTT 58.135 34.615 0.00 0.00 0.00 2.43
2188 2341 7.126879 ACTCCCTCCGTTCCTAAATATAAGTTT 59.873 37.037 0.00 0.00 0.00 2.66
2189 2342 6.614496 ACTCCCTCCGTTCCTAAATATAAGTT 59.386 38.462 0.00 0.00 0.00 2.66
2190 2343 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
2191 2344 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
2192 2345 8.551682 TTTACTCCCTCCGTTCCTAAATATAA 57.448 34.615 0.00 0.00 0.00 0.98
2193 2346 8.731591 ATTTACTCCCTCCGTTCCTAAATATA 57.268 34.615 0.00 0.00 0.00 0.86
2194 2347 7.628501 ATTTACTCCCTCCGTTCCTAAATAT 57.371 36.000 0.00 0.00 0.00 1.28
2195 2348 7.441903 AATTTACTCCCTCCGTTCCTAAATA 57.558 36.000 0.00 0.00 0.00 1.40
2196 2349 5.970501 ATTTACTCCCTCCGTTCCTAAAT 57.029 39.130 0.00 0.00 0.00 1.40
2197 2350 5.767277 AATTTACTCCCTCCGTTCCTAAA 57.233 39.130 0.00 0.00 0.00 1.85
2198 2351 5.767277 AAATTTACTCCCTCCGTTCCTAA 57.233 39.130 0.00 0.00 0.00 2.69
2199 2352 5.767277 AAAATTTACTCCCTCCGTTCCTA 57.233 39.130 0.00 0.00 0.00 2.94
2200 2353 4.652679 AAAATTTACTCCCTCCGTTCCT 57.347 40.909 0.00 0.00 0.00 3.36
2201 2354 4.617530 GCAAAAATTTACTCCCTCCGTTCC 60.618 45.833 0.00 0.00 0.00 3.62
2202 2355 4.217767 AGCAAAAATTTACTCCCTCCGTTC 59.782 41.667 0.00 0.00 0.00 3.95
2203 2356 4.022329 CAGCAAAAATTTACTCCCTCCGTT 60.022 41.667 0.00 0.00 0.00 4.44
2204 2357 3.506067 CAGCAAAAATTTACTCCCTCCGT 59.494 43.478 0.00 0.00 0.00 4.69
2205 2358 3.506067 ACAGCAAAAATTTACTCCCTCCG 59.494 43.478 0.00 0.00 0.00 4.63
2206 2359 4.280929 ACACAGCAAAAATTTACTCCCTCC 59.719 41.667 0.00 0.00 0.00 4.30
2207 2360 5.222631 CACACAGCAAAAATTTACTCCCTC 58.777 41.667 0.00 0.00 0.00 4.30
2208 2361 4.501400 GCACACAGCAAAAATTTACTCCCT 60.501 41.667 0.00 0.00 44.79 4.20
2209 2362 3.740832 GCACACAGCAAAAATTTACTCCC 59.259 43.478 0.00 0.00 44.79 4.30
2210 2363 4.972286 GCACACAGCAAAAATTTACTCC 57.028 40.909 0.00 0.00 44.79 3.85
2334 2489 8.275040 AGACACATAAGCAGGATTTATTTACCT 58.725 33.333 0.00 0.00 34.02 3.08
2405 2562 3.173151 TGGTGGAGCATTTCACTCTAGA 58.827 45.455 0.00 0.00 34.46 2.43
2425 2582 1.178534 AAAACCGGCCACATGGACTG 61.179 55.000 0.00 0.00 42.58 3.51
2438 2595 5.246307 ACCAATTAGAGAGGAGAAAAACCG 58.754 41.667 0.00 0.00 0.00 4.44
2439 2596 7.526142 AAACCAATTAGAGAGGAGAAAAACC 57.474 36.000 0.00 0.00 0.00 3.27
2458 2615 5.815233 TTGATCAAATAAGGCCAAAACCA 57.185 34.783 5.01 0.00 0.00 3.67
2459 2616 8.785329 TTATTTGATCAAATAAGGCCAAAACC 57.215 30.769 34.38 0.00 44.01 3.27
2483 2640 6.053005 TCAGATTTAGTCCACAAACTCGTTT 58.947 36.000 0.00 0.00 0.00 3.60
2487 2644 6.876257 AGTGATCAGATTTAGTCCACAAACTC 59.124 38.462 0.00 0.00 0.00 3.01
2504 2661 4.094590 GCCATCAACTCAGAAAGTGATCAG 59.905 45.833 0.00 0.00 38.58 2.90
2532 2689 9.295825 TCCATAAACTCAAATTGATTACACACT 57.704 29.630 0.00 0.00 0.00 3.55
2533 2690 9.341899 GTCCATAAACTCAAATTGATTACACAC 57.658 33.333 0.00 0.00 0.00 3.82
2534 2691 9.295825 AGTCCATAAACTCAAATTGATTACACA 57.704 29.630 0.00 0.00 0.00 3.72
2539 2696 8.960591 CCACTAGTCCATAAACTCAAATTGATT 58.039 33.333 0.00 0.00 0.00 2.57
2540 2697 7.067494 GCCACTAGTCCATAAACTCAAATTGAT 59.933 37.037 0.00 0.00 0.00 2.57
2541 2698 6.374333 GCCACTAGTCCATAAACTCAAATTGA 59.626 38.462 0.00 0.00 0.00 2.57
2542 2699 6.555315 GCCACTAGTCCATAAACTCAAATTG 58.445 40.000 0.00 0.00 0.00 2.32
2543 2700 5.354234 CGCCACTAGTCCATAAACTCAAATT 59.646 40.000 0.00 0.00 0.00 1.82
2544 2701 4.876107 CGCCACTAGTCCATAAACTCAAAT 59.124 41.667 0.00 0.00 0.00 2.32
2545 2702 4.250464 CGCCACTAGTCCATAAACTCAAA 58.750 43.478 0.00 0.00 0.00 2.69
2546 2703 3.857052 CGCCACTAGTCCATAAACTCAA 58.143 45.455 0.00 0.00 0.00 3.02
2547 2704 2.418197 GCGCCACTAGTCCATAAACTCA 60.418 50.000 0.00 0.00 0.00 3.41
2548 2705 2.202566 GCGCCACTAGTCCATAAACTC 58.797 52.381 0.00 0.00 0.00 3.01
2549 2706 1.553248 TGCGCCACTAGTCCATAAACT 59.447 47.619 4.18 0.00 0.00 2.66
2550 2707 2.018542 TGCGCCACTAGTCCATAAAC 57.981 50.000 4.18 0.00 0.00 2.01
2551 2708 3.275617 AATGCGCCACTAGTCCATAAA 57.724 42.857 4.18 0.00 0.00 1.40
2552 2709 3.202906 GAAATGCGCCACTAGTCCATAA 58.797 45.455 4.18 0.00 0.00 1.90
2553 2710 2.169561 TGAAATGCGCCACTAGTCCATA 59.830 45.455 4.18 0.00 0.00 2.74
2554 2711 1.065491 TGAAATGCGCCACTAGTCCAT 60.065 47.619 4.18 0.00 0.00 3.41
2555 2712 0.323302 TGAAATGCGCCACTAGTCCA 59.677 50.000 4.18 0.00 0.00 4.02
2556 2713 0.727398 GTGAAATGCGCCACTAGTCC 59.273 55.000 4.18 0.00 0.00 3.85
2557 2714 1.661112 GAGTGAAATGCGCCACTAGTC 59.339 52.381 15.59 2.53 43.02 2.59
2558 2715 1.001974 TGAGTGAAATGCGCCACTAGT 59.998 47.619 15.59 0.00 43.02 2.57
2559 2716 1.725641 TGAGTGAAATGCGCCACTAG 58.274 50.000 15.59 0.00 43.02 2.57
2560 2717 2.093500 AGATGAGTGAAATGCGCCACTA 60.093 45.455 15.59 6.59 43.02 2.74
2561 2718 1.089920 GATGAGTGAAATGCGCCACT 58.910 50.000 15.55 15.55 45.37 4.00
2562 2719 1.089920 AGATGAGTGAAATGCGCCAC 58.910 50.000 4.18 5.55 0.00 5.01
2563 2720 2.554142 CTAGATGAGTGAAATGCGCCA 58.446 47.619 4.18 0.00 0.00 5.69
2564 2721 1.262683 GCTAGATGAGTGAAATGCGCC 59.737 52.381 4.18 0.00 0.00 6.53
2565 2722 2.208431 AGCTAGATGAGTGAAATGCGC 58.792 47.619 0.00 0.00 0.00 6.09
2566 2723 3.986572 CCTAGCTAGATGAGTGAAATGCG 59.013 47.826 22.70 0.00 0.00 4.73
2567 2724 4.954875 ACCTAGCTAGATGAGTGAAATGC 58.045 43.478 22.70 0.00 0.00 3.56
2568 2725 7.946207 TCTTACCTAGCTAGATGAGTGAAATG 58.054 38.462 22.70 3.15 0.00 2.32
2569 2726 8.584157 CATCTTACCTAGCTAGATGAGTGAAAT 58.416 37.037 22.70 0.00 45.09 2.17
2570 2727 7.561722 ACATCTTACCTAGCTAGATGAGTGAAA 59.438 37.037 23.90 6.65 45.09 2.69
2571 2728 7.063593 ACATCTTACCTAGCTAGATGAGTGAA 58.936 38.462 23.90 0.62 45.09 3.18
2572 2729 6.606069 ACATCTTACCTAGCTAGATGAGTGA 58.394 40.000 23.90 13.96 45.09 3.41
2573 2730 6.892658 ACATCTTACCTAGCTAGATGAGTG 57.107 41.667 23.90 15.37 45.09 3.51
2574 2731 8.221944 ACTTACATCTTACCTAGCTAGATGAGT 58.778 37.037 23.90 16.59 45.09 3.41
2575 2732 8.630054 ACTTACATCTTACCTAGCTAGATGAG 57.370 38.462 23.90 14.28 45.09 2.90
2576 2733 9.504708 GTACTTACATCTTACCTAGCTAGATGA 57.495 37.037 23.90 15.35 45.09 2.92
2577 2734 8.444715 CGTACTTACATCTTACCTAGCTAGATG 58.555 40.741 22.70 19.96 46.73 2.90
2578 2735 8.156165 ACGTACTTACATCTTACCTAGCTAGAT 58.844 37.037 22.70 7.77 0.00 1.98
2579 2736 7.504403 ACGTACTTACATCTTACCTAGCTAGA 58.496 38.462 22.70 3.68 0.00 2.43
2580 2737 7.727331 ACGTACTTACATCTTACCTAGCTAG 57.273 40.000 14.20 14.20 0.00 3.42
2581 2738 8.204160 TGTACGTACTTACATCTTACCTAGCTA 58.796 37.037 25.12 0.00 0.00 3.32
2582 2739 7.050377 TGTACGTACTTACATCTTACCTAGCT 58.950 38.462 25.12 0.00 0.00 3.32
2583 2740 7.251704 TGTACGTACTTACATCTTACCTAGC 57.748 40.000 25.12 0.00 0.00 3.42
2584 2741 7.041508 CCCTGTACGTACTTACATCTTACCTAG 60.042 44.444 25.12 9.59 31.51 3.02
2585 2742 6.767902 CCCTGTACGTACTTACATCTTACCTA 59.232 42.308 25.12 0.22 31.51 3.08
2586 2743 5.591877 CCCTGTACGTACTTACATCTTACCT 59.408 44.000 25.12 0.00 31.51 3.08
2587 2744 5.734503 GCCCTGTACGTACTTACATCTTACC 60.735 48.000 25.12 0.00 31.51 2.85
2588 2745 5.277047 GCCCTGTACGTACTTACATCTTAC 58.723 45.833 25.12 0.00 31.51 2.34
2589 2746 4.035558 CGCCCTGTACGTACTTACATCTTA 59.964 45.833 25.12 2.07 31.51 2.10
2601 2758 1.206132 TCAATTCATCGCCCTGTACGT 59.794 47.619 0.00 0.00 0.00 3.57
2602 2759 1.934589 TCAATTCATCGCCCTGTACG 58.065 50.000 0.00 0.00 0.00 3.67
2607 2764 3.315191 CCGTAAAATCAATTCATCGCCCT 59.685 43.478 0.00 0.00 0.00 5.19
2639 2796 5.304357 ACCCTTTTCAGGAAACCAATAACAG 59.696 40.000 0.00 0.00 44.19 3.16
2652 2809 6.041523 TCCTAACAAAATTCACCCTTTTCAGG 59.958 38.462 0.00 0.00 40.45 3.86
2653 2810 7.049799 TCCTAACAAAATTCACCCTTTTCAG 57.950 36.000 0.00 0.00 0.00 3.02
2660 2817 4.799564 TGCATCCTAACAAAATTCACCC 57.200 40.909 0.00 0.00 0.00 4.61
2663 2820 4.520874 TCGGTTGCATCCTAACAAAATTCA 59.479 37.500 11.96 0.00 0.00 2.57
2664 2821 5.054390 TCGGTTGCATCCTAACAAAATTC 57.946 39.130 11.96 0.00 0.00 2.17
2665 2822 5.227152 GTTCGGTTGCATCCTAACAAAATT 58.773 37.500 20.65 0.00 34.60 1.82
2667 2824 3.004944 GGTTCGGTTGCATCCTAACAAAA 59.995 43.478 24.60 1.87 35.66 2.44
2668 2825 2.554893 GGTTCGGTTGCATCCTAACAAA 59.445 45.455 24.60 6.13 35.66 2.83
2669 2826 2.156098 GGTTCGGTTGCATCCTAACAA 58.844 47.619 24.60 6.83 35.66 2.83
2670 2827 1.349688 AGGTTCGGTTGCATCCTAACA 59.650 47.619 24.60 1.75 35.66 2.41
2671 2828 1.737793 CAGGTTCGGTTGCATCCTAAC 59.262 52.381 18.44 18.44 33.98 2.34
2672 2829 1.948611 GCAGGTTCGGTTGCATCCTAA 60.949 52.381 11.96 4.52 40.02 2.69
2673 2830 0.392461 GCAGGTTCGGTTGCATCCTA 60.392 55.000 11.96 0.00 40.02 2.94
2674 2831 1.675641 GCAGGTTCGGTTGCATCCT 60.676 57.895 11.96 0.00 40.02 3.24
2675 2832 2.700773 GGCAGGTTCGGTTGCATCC 61.701 63.158 3.51 3.51 42.02 3.51
2676 2833 1.648467 GAGGCAGGTTCGGTTGCATC 61.648 60.000 0.00 0.00 42.72 3.91
2677 2834 1.675641 GAGGCAGGTTCGGTTGCAT 60.676 57.895 0.00 0.00 42.02 3.96
2678 2835 2.281484 GAGGCAGGTTCGGTTGCA 60.281 61.111 0.00 0.00 42.02 4.08
2679 2836 3.056328 GGAGGCAGGTTCGGTTGC 61.056 66.667 0.00 0.00 39.56 4.17
2680 2837 1.672356 CAGGAGGCAGGTTCGGTTG 60.672 63.158 0.00 0.00 0.00 3.77
2681 2838 2.750350 CAGGAGGCAGGTTCGGTT 59.250 61.111 0.00 0.00 0.00 4.44
2682 2839 3.322466 CCAGGAGGCAGGTTCGGT 61.322 66.667 0.00 0.00 0.00 4.69
2683 2840 3.322466 ACCAGGAGGCAGGTTCGG 61.322 66.667 0.00 0.00 39.06 4.30
2684 2841 2.046892 CACCAGGAGGCAGGTTCG 60.047 66.667 0.00 0.00 39.06 3.95
2685 2842 0.690762 TAACACCAGGAGGCAGGTTC 59.309 55.000 0.00 0.00 39.06 3.62
2686 2843 2.862780 TAACACCAGGAGGCAGGTT 58.137 52.632 0.00 0.00 39.06 3.50
2687 2844 4.660521 TAACACCAGGAGGCAGGT 57.339 55.556 0.00 0.00 39.06 4.00


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

AutoCloner maintained by Alex Coulton.