Multiple sequence alignment - TraesCS4B01G344800

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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 TraesCS4B01G344800 chr4B 100.000 3054 0 0 1 3054 638149327 638146274 0.000000e+00 5640.0
1 TraesCS4B01G344800 chr4B 90.678 590 54 1 1469 2057 638175552 638174963 0.000000e+00 784.0
2 TraesCS4B01G344800 chr4B 97.093 344 10 0 975 1318 638181346 638181003 5.680000e-162 580.0
3 TraesCS4B01G344800 chr4B 98.876 89 1 0 1362 1450 638181005 638180917 3.150000e-35 159.0
4 TraesCS4B01G344800 chr5A 90.173 1038 50 15 1469 2455 677485492 677484456 0.000000e+00 1304.0
5 TraesCS4B01G344800 chr5A 93.381 846 35 7 639 1477 677486349 677485518 0.000000e+00 1232.0
6 TraesCS4B01G344800 chr5A 89.173 508 36 11 2472 2965 677475509 677475007 1.560000e-172 616.0
7 TraesCS4B01G344800 chr5A 89.082 403 28 5 2069 2455 677475896 677475494 1.270000e-133 486.0
8 TraesCS4B01G344800 chr4D 93.103 841 41 8 639 1477 497224746 497223921 0.000000e+00 1216.0
9 TraesCS4B01G344800 chr4D 89.437 852 56 18 1469 2289 497223895 497223047 0.000000e+00 1044.0
10 TraesCS4B01G344800 chr4D 91.973 598 45 3 1469 2064 497240620 497240024 0.000000e+00 835.0
11 TraesCS4B01G344800 chr4D 89.335 647 49 8 1 639 497225421 497224787 0.000000e+00 795.0
12 TraesCS4B01G344800 chr4D 93.465 505 31 1 975 1477 497241150 497240646 0.000000e+00 749.0
13 TraesCS4B01G344800 chr4D 84.186 215 24 5 2474 2679 497222971 497222758 1.860000e-47 200.0
14 TraesCS4B01G344800 chr4D 86.777 121 5 6 2337 2455 497223069 497222958 1.150000e-24 124.0
15 TraesCS4B01G344800 chr6B 79.746 1101 163 37 998 2054 633858641 633859725 0.000000e+00 743.0
16 TraesCS4B01G344800 chr6D 79.566 1106 156 41 1004 2054 420693820 420694910 0.000000e+00 726.0
17 TraesCS4B01G344800 chr6A 79.455 1100 164 40 1004 2056 563539407 563540491 0.000000e+00 723.0
18 TraesCS4B01G344800 chr6A 93.939 99 4 2 2957 3053 605324690 605324788 6.820000e-32 148.0
19 TraesCS4B01G344800 chr2B 79.321 324 43 18 335 646 789937771 789937460 3.990000e-49 206.0
20 TraesCS4B01G344800 chr2B 93.878 98 6 0 2955 3052 767652995 767653092 6.820000e-32 148.0
21 TraesCS4B01G344800 chr5D 97.849 93 2 0 2960 3052 223649890 223649982 8.760000e-36 161.0
22 TraesCS4B01G344800 chr5B 97.778 90 1 1 2959 3048 671717178 671717090 1.470000e-33 154.0
23 TraesCS4B01G344800 chr4A 96.739 92 3 0 2963 3054 614251515 614251424 1.470000e-33 154.0
24 TraesCS4B01G344800 chr7D 96.667 90 3 0 2960 3049 579751352 579751263 1.900000e-32 150.0
25 TraesCS4B01G344800 chr3B 94.737 95 5 0 2954 3048 804117475 804117569 6.820000e-32 148.0
26 TraesCS4B01G344800 chr7B 94.737 95 4 1 2959 3052 661996482 661996388 2.450000e-31 147.0
27 TraesCS4B01G344800 chr1D 91.429 105 7 2 2950 3052 424260201 424260305 3.170000e-30 143.0
28 TraesCS4B01G344800 chr1D 79.365 126 12 12 1186 1304 53231147 53231265 3.270000e-10 76.8
29 TraesCS4B01G344800 chr1A 79.675 123 15 9 1187 1304 53022643 53022760 2.520000e-11 80.5
30 TraesCS4B01G344800 chr3D 96.970 33 1 0 196 228 409010739 409010771 4.250000e-04 56.5


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 TraesCS4B01G344800 chr4B 638146274 638149327 3053 True 5640.0 5640 100.0000 1 3054 1 chr4B.!!$R1 3053
1 TraesCS4B01G344800 chr4B 638174963 638175552 589 True 784.0 784 90.6780 1469 2057 1 chr4B.!!$R2 588
2 TraesCS4B01G344800 chr5A 677484456 677486349 1893 True 1268.0 1304 91.7770 639 2455 2 chr5A.!!$R2 1816
3 TraesCS4B01G344800 chr5A 677475007 677475896 889 True 551.0 616 89.1275 2069 2965 2 chr5A.!!$R1 896
4 TraesCS4B01G344800 chr4D 497240024 497241150 1126 True 792.0 835 92.7190 975 2064 2 chr4D.!!$R2 1089
5 TraesCS4B01G344800 chr4D 497222758 497225421 2663 True 675.8 1216 88.5676 1 2679 5 chr4D.!!$R1 2678
6 TraesCS4B01G344800 chr6B 633858641 633859725 1084 False 743.0 743 79.7460 998 2054 1 chr6B.!!$F1 1056
7 TraesCS4B01G344800 chr6D 420693820 420694910 1090 False 726.0 726 79.5660 1004 2054 1 chr6D.!!$F1 1050
8 TraesCS4B01G344800 chr6A 563539407 563540491 1084 False 723.0 723 79.4550 1004 2056 1 chr6A.!!$F1 1052

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
897 952 0.165079 ACAACTAAAACATCGCGCGG 59.835 50.0 31.69 17.77 0.0 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2281 2455 0.040204 AGGGGATTTCTGGCTGGTTG 59.96 55.0 0.0 0.0 0.0 3.77 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
26 27 5.063564 GTCCAAAACTAGCATGTACTAGCAC 59.936 44.000 11.66 0.00 42.91 4.40
107 112 5.934625 GGGTACATGCTATTGTTATCCTCAG 59.065 44.000 0.00 0.00 0.00 3.35
120 125 9.965902 ATTGTTATCCTCAGTTTTACATCTTCT 57.034 29.630 0.00 0.00 0.00 2.85
132 137 8.214364 AGTTTTACATCTTCTAATCTCCATCCC 58.786 37.037 0.00 0.00 0.00 3.85
145 150 4.543689 TCTCCATCCCTACGATGTTAAGT 58.456 43.478 0.00 0.00 46.10 2.24
146 151 4.583489 TCTCCATCCCTACGATGTTAAGTC 59.417 45.833 0.00 0.00 46.10 3.01
147 152 4.283337 TCCATCCCTACGATGTTAAGTCA 58.717 43.478 0.00 0.00 46.10 3.41
148 153 4.712829 TCCATCCCTACGATGTTAAGTCAA 59.287 41.667 0.00 0.00 46.10 3.18
149 154 4.809426 CCATCCCTACGATGTTAAGTCAAC 59.191 45.833 0.00 0.00 46.10 3.18
161 166 6.474819 TGTTAAGTCAACACCGTAATCATG 57.525 37.500 0.00 0.00 42.29 3.07
165 170 9.304731 GTTAAGTCAACACCGTAATCATGTATA 57.695 33.333 0.00 0.00 37.09 1.47
185 190 3.343941 ACCTAGACGGCATTGCTAAAA 57.656 42.857 8.82 0.00 35.61 1.52
224 229 9.173939 CTTGCGTGAAGATCCATATAAAATTTC 57.826 33.333 0.00 0.00 32.82 2.17
225 230 7.648142 TGCGTGAAGATCCATATAAAATTTCC 58.352 34.615 0.00 0.00 0.00 3.13
226 231 7.502226 TGCGTGAAGATCCATATAAAATTTCCT 59.498 33.333 0.00 0.00 0.00 3.36
227 232 8.352942 GCGTGAAGATCCATATAAAATTTCCTT 58.647 33.333 0.00 0.00 0.00 3.36
228 233 9.884465 CGTGAAGATCCATATAAAATTTCCTTC 57.116 33.333 0.00 0.00 0.00 3.46
305 310 8.568676 TCAGATGAGTAAGATATAGCTACACC 57.431 38.462 0.00 0.00 0.00 4.16
388 395 0.244450 GTCCCACCACAACATGCATG 59.756 55.000 25.09 25.09 0.00 4.06
432 439 9.788889 TCTTCATTATTAGTTGATCTCATGCAT 57.211 29.630 0.00 0.00 0.00 3.96
438 445 7.918536 ATTAGTTGATCTCATGCATACATCC 57.081 36.000 0.00 0.00 32.87 3.51
447 454 4.910195 TCATGCATACATCCCATCTTACC 58.090 43.478 0.00 0.00 32.87 2.85
468 475 3.569277 CCACACATGTCACCTCATCAAAA 59.431 43.478 0.00 0.00 0.00 2.44
469 476 4.037803 CCACACATGTCACCTCATCAAAAA 59.962 41.667 0.00 0.00 0.00 1.94
485 492 7.317390 TCATCAAAAATCCACTCAACATGATG 58.683 34.615 0.00 0.00 41.67 3.07
487 494 7.287512 TCAAAAATCCACTCAACATGATGAA 57.712 32.000 7.13 0.00 0.00 2.57
518 526 7.385778 ACATTACATTATGCCACTTACGTTT 57.614 32.000 0.00 0.00 0.00 3.60
611 619 5.682943 TTACTACAACTGTGCATGTTTCC 57.317 39.130 5.48 0.00 0.00 3.13
661 711 6.017934 GCATGTATGATACACACCCAACTAAG 60.018 42.308 7.55 0.00 42.23 2.18
724 774 8.019094 CGTAGTTTTAAACTAACCCCAATTCAG 58.981 37.037 17.75 0.00 44.95 3.02
732 782 5.805728 ACTAACCCCAATTCAGAACTACAG 58.194 41.667 0.00 0.00 0.00 2.74
817 869 8.648698 TCATCAATCATTAAAAAGACTTCCCA 57.351 30.769 0.00 0.00 0.00 4.37
819 871 7.831691 TCAATCATTAAAAAGACTTCCCACA 57.168 32.000 0.00 0.00 0.00 4.17
820 872 8.243961 TCAATCATTAAAAAGACTTCCCACAA 57.756 30.769 0.00 0.00 0.00 3.33
821 873 8.700051 TCAATCATTAAAAAGACTTCCCACAAA 58.300 29.630 0.00 0.00 0.00 2.83
822 874 9.323985 CAATCATTAAAAAGACTTCCCACAAAA 57.676 29.630 0.00 0.00 0.00 2.44
823 875 9.898152 AATCATTAAAAAGACTTCCCACAAAAA 57.102 25.926 0.00 0.00 0.00 1.94
896 951 1.945207 AACAACTAAAACATCGCGCG 58.055 45.000 26.76 26.76 0.00 6.86
897 952 0.165079 ACAACTAAAACATCGCGCGG 59.835 50.000 31.69 17.77 0.00 6.46
898 953 0.520412 CAACTAAAACATCGCGCGGG 60.520 55.000 31.69 24.19 0.00 6.13
899 954 0.671163 AACTAAAACATCGCGCGGGA 60.671 50.000 31.69 28.58 0.00 5.14
1404 1465 3.213506 CAACTTGTTCCACACCATCTCA 58.786 45.455 0.00 0.00 0.00 3.27
1782 1879 4.452455 AGCTAACACTCCATTTGTTCTTCG 59.548 41.667 0.00 0.00 38.21 3.79
1865 1996 1.608627 GGGAGGTACAGGTCGGTGT 60.609 63.158 0.00 0.00 34.21 4.16
1924 2055 2.899838 TGGCCTGTGTTCGTGCAC 60.900 61.111 6.82 6.82 39.65 4.57
1936 2067 2.746277 GTGCACCCGCGGAAAGAT 60.746 61.111 30.73 2.95 42.97 2.40
2001 2132 1.547372 GGCCAAGTACGACTACAAGGA 59.453 52.381 0.00 0.00 0.00 3.36
2093 2249 2.444351 GCATGAGCAAATGTTCGTAGC 58.556 47.619 0.00 0.00 41.58 3.58
2217 2385 8.127150 AGATTTGGGGTATTTTCTCTTCTTTG 57.873 34.615 0.00 0.00 0.00 2.77
2231 2405 7.223260 TCTCTTCTTTGTTATCTTCACCGTA 57.777 36.000 0.00 0.00 0.00 4.02
2276 2450 9.730705 TTCATTATCCTTATCAATCATCACCTC 57.269 33.333 0.00 0.00 0.00 3.85
2277 2451 8.037166 TCATTATCCTTATCAATCATCACCTCG 58.963 37.037 0.00 0.00 0.00 4.63
2278 2452 3.995199 TCCTTATCAATCATCACCTCGC 58.005 45.455 0.00 0.00 0.00 5.03
2279 2453 3.387699 TCCTTATCAATCATCACCTCGCA 59.612 43.478 0.00 0.00 0.00 5.10
2280 2454 3.496130 CCTTATCAATCATCACCTCGCAC 59.504 47.826 0.00 0.00 0.00 5.34
2281 2455 1.959042 ATCAATCATCACCTCGCACC 58.041 50.000 0.00 0.00 0.00 5.01
2282 2456 0.612744 TCAATCATCACCTCGCACCA 59.387 50.000 0.00 0.00 0.00 4.17
2283 2457 1.003003 TCAATCATCACCTCGCACCAA 59.997 47.619 0.00 0.00 0.00 3.67
2284 2458 1.131126 CAATCATCACCTCGCACCAAC 59.869 52.381 0.00 0.00 0.00 3.77
2285 2459 0.392998 ATCATCACCTCGCACCAACC 60.393 55.000 0.00 0.00 0.00 3.77
2286 2460 1.302431 CATCACCTCGCACCAACCA 60.302 57.895 0.00 0.00 0.00 3.67
2287 2461 1.003355 ATCACCTCGCACCAACCAG 60.003 57.895 0.00 0.00 0.00 4.00
2288 2462 3.357079 CACCTCGCACCAACCAGC 61.357 66.667 0.00 0.00 0.00 4.85
2289 2463 4.643387 ACCTCGCACCAACCAGCC 62.643 66.667 0.00 0.00 0.00 4.85
2290 2464 4.641645 CCTCGCACCAACCAGCCA 62.642 66.667 0.00 0.00 0.00 4.75
2291 2465 3.052082 CTCGCACCAACCAGCCAG 61.052 66.667 0.00 0.00 0.00 4.85
2292 2466 3.535629 CTCGCACCAACCAGCCAGA 62.536 63.158 0.00 0.00 0.00 3.86
2293 2467 2.594303 CGCACCAACCAGCCAGAA 60.594 61.111 0.00 0.00 0.00 3.02
2294 2468 2.192861 CGCACCAACCAGCCAGAAA 61.193 57.895 0.00 0.00 0.00 2.52
2295 2469 1.526575 CGCACCAACCAGCCAGAAAT 61.527 55.000 0.00 0.00 0.00 2.17
2296 2470 0.244721 GCACCAACCAGCCAGAAATC 59.755 55.000 0.00 0.00 0.00 2.17
2297 2471 0.890683 CACCAACCAGCCAGAAATCC 59.109 55.000 0.00 0.00 0.00 3.01
2298 2472 0.251787 ACCAACCAGCCAGAAATCCC 60.252 55.000 0.00 0.00 0.00 3.85
2299 2473 0.972471 CCAACCAGCCAGAAATCCCC 60.972 60.000 0.00 0.00 0.00 4.81
2300 2474 0.040204 CAACCAGCCAGAAATCCCCT 59.960 55.000 0.00 0.00 0.00 4.79
2301 2475 0.040204 AACCAGCCAGAAATCCCCTG 59.960 55.000 0.00 0.00 0.00 4.45
2302 2476 0.846427 ACCAGCCAGAAATCCCCTGA 60.846 55.000 0.00 0.00 33.65 3.86
2303 2477 0.554792 CCAGCCAGAAATCCCCTGAT 59.445 55.000 0.00 0.00 33.65 2.90
2304 2478 1.688772 CAGCCAGAAATCCCCTGATG 58.311 55.000 0.00 0.00 33.65 3.07
2305 2479 1.064166 CAGCCAGAAATCCCCTGATGT 60.064 52.381 0.00 0.00 33.65 3.06
2306 2480 2.173356 CAGCCAGAAATCCCCTGATGTA 59.827 50.000 0.00 0.00 33.65 2.29
2307 2481 2.441001 AGCCAGAAATCCCCTGATGTAG 59.559 50.000 0.00 0.00 33.65 2.74
2308 2482 2.856222 CCAGAAATCCCCTGATGTAGC 58.144 52.381 0.00 0.00 33.65 3.58
2309 2483 2.173356 CCAGAAATCCCCTGATGTAGCA 59.827 50.000 0.00 0.00 33.65 3.49
2310 2484 3.209410 CAGAAATCCCCTGATGTAGCAC 58.791 50.000 0.00 0.00 33.65 4.40
2311 2485 2.173569 AGAAATCCCCTGATGTAGCACC 59.826 50.000 0.00 0.00 0.00 5.01
2312 2486 0.846693 AATCCCCTGATGTAGCACCC 59.153 55.000 0.00 0.00 0.00 4.61
2313 2487 1.410850 ATCCCCTGATGTAGCACCCG 61.411 60.000 0.00 0.00 0.00 5.28
2314 2488 2.203070 CCCTGATGTAGCACCCGC 60.203 66.667 0.00 0.00 38.99 6.13
2315 2489 2.203070 CCTGATGTAGCACCCGCC 60.203 66.667 0.00 0.00 39.83 6.13
2316 2490 2.735772 CCTGATGTAGCACCCGCCT 61.736 63.158 0.00 0.00 39.83 5.52
2317 2491 1.221840 CTGATGTAGCACCCGCCTT 59.778 57.895 0.00 0.00 39.83 4.35
2318 2492 0.811616 CTGATGTAGCACCCGCCTTC 60.812 60.000 0.00 0.00 39.83 3.46
2319 2493 1.523938 GATGTAGCACCCGCCTTCC 60.524 63.158 0.00 0.00 39.83 3.46
2320 2494 2.942648 GATGTAGCACCCGCCTTCCC 62.943 65.000 0.00 0.00 39.83 3.97
2321 2495 4.832608 GTAGCACCCGCCTTCCCG 62.833 72.222 0.00 0.00 39.83 5.14
2327 2501 4.452733 CCCGCCTTCCCGTCACTC 62.453 72.222 0.00 0.00 0.00 3.51
2328 2502 3.691342 CCGCCTTCCCGTCACTCA 61.691 66.667 0.00 0.00 0.00 3.41
2329 2503 2.342279 CGCCTTCCCGTCACTCAA 59.658 61.111 0.00 0.00 0.00 3.02
2330 2504 1.301401 CGCCTTCCCGTCACTCAAA 60.301 57.895 0.00 0.00 0.00 2.69
2331 2505 0.673644 CGCCTTCCCGTCACTCAAAT 60.674 55.000 0.00 0.00 0.00 2.32
2332 2506 1.087501 GCCTTCCCGTCACTCAAATC 58.912 55.000 0.00 0.00 0.00 2.17
2333 2507 1.739067 CCTTCCCGTCACTCAAATCC 58.261 55.000 0.00 0.00 0.00 3.01
2334 2508 1.359848 CTTCCCGTCACTCAAATCCG 58.640 55.000 0.00 0.00 0.00 4.18
2335 2509 0.682852 TTCCCGTCACTCAAATCCGT 59.317 50.000 0.00 0.00 0.00 4.69
2336 2510 0.682852 TCCCGTCACTCAAATCCGTT 59.317 50.000 0.00 0.00 0.00 4.44
2337 2511 1.076332 CCCGTCACTCAAATCCGTTC 58.924 55.000 0.00 0.00 0.00 3.95
2338 2512 1.606994 CCCGTCACTCAAATCCGTTCA 60.607 52.381 0.00 0.00 0.00 3.18
2339 2513 2.346803 CCGTCACTCAAATCCGTTCAT 58.653 47.619 0.00 0.00 0.00 2.57
2340 2514 2.742053 CCGTCACTCAAATCCGTTCATT 59.258 45.455 0.00 0.00 0.00 2.57
2341 2515 3.930229 CCGTCACTCAAATCCGTTCATTA 59.070 43.478 0.00 0.00 0.00 1.90
2455 2722 4.348486 ACAGGCAGATTTGTCTCTCTCTA 58.652 43.478 0.00 0.00 37.08 2.43
2456 2723 4.961730 ACAGGCAGATTTGTCTCTCTCTAT 59.038 41.667 0.00 0.00 37.08 1.98
2457 2724 5.424895 ACAGGCAGATTTGTCTCTCTCTATT 59.575 40.000 0.00 0.00 37.08 1.73
2458 2725 5.984926 CAGGCAGATTTGTCTCTCTCTATTC 59.015 44.000 0.00 0.00 37.08 1.75
2459 2726 5.898972 AGGCAGATTTGTCTCTCTCTATTCT 59.101 40.000 0.00 0.00 32.68 2.40
2460 2727 6.040842 AGGCAGATTTGTCTCTCTCTATTCTC 59.959 42.308 0.00 0.00 32.68 2.87
2461 2728 5.914635 GCAGATTTGTCTCTCTCTATTCTCG 59.085 44.000 0.00 0.00 0.00 4.04
2462 2729 5.914635 CAGATTTGTCTCTCTCTATTCTCGC 59.085 44.000 0.00 0.00 0.00 5.03
2463 2730 5.592282 AGATTTGTCTCTCTCTATTCTCGCA 59.408 40.000 0.00 0.00 0.00 5.10
2464 2731 5.644977 TTTGTCTCTCTCTATTCTCGCAA 57.355 39.130 0.00 0.00 0.00 4.85
2465 2732 5.644977 TTGTCTCTCTCTATTCTCGCAAA 57.355 39.130 0.00 0.00 0.00 3.68
2466 2733 5.644977 TGTCTCTCTCTATTCTCGCAAAA 57.355 39.130 0.00 0.00 0.00 2.44
2467 2734 6.025749 TGTCTCTCTCTATTCTCGCAAAAA 57.974 37.500 0.00 0.00 0.00 1.94
2504 2771 7.016170 TCTCTCTCTAGTGAGCATATAGACAGT 59.984 40.741 15.54 0.00 40.03 3.55
2533 2808 2.356382 TCATCACGTGTTTTGGTTGGAC 59.644 45.455 16.51 0.00 0.00 4.02
2566 2841 9.743057 ATTTCACATTCAATTGAAAACGAACTA 57.257 25.926 23.91 12.30 43.20 2.24
2616 2895 9.142515 CAATAAAAACATGACACTTGTATGCAT 57.857 29.630 3.79 3.79 0.00 3.96
2627 2906 5.048083 ACACTTGTATGCATTGAAACCGAAT 60.048 36.000 3.54 0.00 0.00 3.34
2669 2949 9.603921 AACAAATTCATCATCACTCAAAAACTT 57.396 25.926 0.00 0.00 0.00 2.66
2670 2950 9.252962 ACAAATTCATCATCACTCAAAAACTTC 57.747 29.630 0.00 0.00 0.00 3.01
2672 2952 9.820725 AAATTCATCATCACTCAAAAACTTCAA 57.179 25.926 0.00 0.00 0.00 2.69
2685 2965 7.257722 TCAAAAACTTCAACCACTCAATTCTC 58.742 34.615 0.00 0.00 0.00 2.87
2686 2966 6.773976 AAAACTTCAACCACTCAATTCTCA 57.226 33.333 0.00 0.00 0.00 3.27
2688 2968 4.392940 ACTTCAACCACTCAATTCTCAGG 58.607 43.478 0.00 0.00 0.00 3.86
2692 2972 1.707427 ACCACTCAATTCTCAGGGCTT 59.293 47.619 0.00 0.00 0.00 4.35
2708 2988 4.574013 CAGGGCTTGAGAGTGAATCATTAC 59.426 45.833 0.00 0.00 0.00 1.89
2714 2994 8.031277 GGCTTGAGAGTGAATCATTACAAAAAT 58.969 33.333 0.00 0.00 0.00 1.82
2715 2995 9.070149 GCTTGAGAGTGAATCATTACAAAAATC 57.930 33.333 0.00 0.00 0.00 2.17
2716 2996 9.270576 CTTGAGAGTGAATCATTACAAAAATCG 57.729 33.333 0.00 0.00 0.00 3.34
2764 3045 9.547753 AAACAGTACATCAAGTCATATACATCC 57.452 33.333 0.00 0.00 0.00 3.51
2788 3069 9.064706 TCCACTATAAAACGGTAAAAATGACAA 57.935 29.630 0.00 0.00 0.00 3.18
2794 3075 9.974980 ATAAAACGGTAAAAATGACAAACTGAT 57.025 25.926 0.00 0.00 0.00 2.90
2797 3078 9.974980 AAACGGTAAAAATGACAAACTGATAAT 57.025 25.926 0.00 0.00 0.00 1.28
2823 3104 7.986085 ATAATTCCGGGAGAACAATAATGAG 57.014 36.000 0.00 0.00 37.29 2.90
2925 3206 5.977129 ACCTCAAAAGCTAAAAACGACAATG 59.023 36.000 0.00 0.00 0.00 2.82
2956 3237 3.440173 CACATAACAAGAATGGACCGCTT 59.560 43.478 0.00 0.00 0.00 4.68
2965 3246 5.813080 AGAATGGACCGCTTAAAATGTAC 57.187 39.130 0.00 0.00 0.00 2.90
2966 3247 5.497474 AGAATGGACCGCTTAAAATGTACT 58.503 37.500 0.00 0.00 0.00 2.73
2967 3248 5.585047 AGAATGGACCGCTTAAAATGTACTC 59.415 40.000 0.00 0.00 0.00 2.59
2968 3249 3.602483 TGGACCGCTTAAAATGTACTCC 58.398 45.455 0.00 0.00 0.00 3.85
2969 3250 2.941064 GGACCGCTTAAAATGTACTCCC 59.059 50.000 0.00 0.00 0.00 4.30
2970 3251 3.370209 GGACCGCTTAAAATGTACTCCCT 60.370 47.826 0.00 0.00 0.00 4.20
2971 3252 3.869832 GACCGCTTAAAATGTACTCCCTC 59.130 47.826 0.00 0.00 0.00 4.30
2972 3253 3.203716 CCGCTTAAAATGTACTCCCTCC 58.796 50.000 0.00 0.00 0.00 4.30
2973 3254 2.864343 CGCTTAAAATGTACTCCCTCCG 59.136 50.000 0.00 0.00 0.00 4.63
2974 3255 3.677976 CGCTTAAAATGTACTCCCTCCGT 60.678 47.826 0.00 0.00 0.00 4.69
2975 3256 3.869832 GCTTAAAATGTACTCCCTCCGTC 59.130 47.826 0.00 0.00 0.00 4.79
2976 3257 4.439968 CTTAAAATGTACTCCCTCCGTCC 58.560 47.826 0.00 0.00 0.00 4.79
2977 3258 1.201424 AAATGTACTCCCTCCGTCCC 58.799 55.000 0.00 0.00 0.00 4.46
2978 3259 0.042131 AATGTACTCCCTCCGTCCCA 59.958 55.000 0.00 0.00 0.00 4.37
2979 3260 0.264955 ATGTACTCCCTCCGTCCCAT 59.735 55.000 0.00 0.00 0.00 4.00
2980 3261 0.928505 TGTACTCCCTCCGTCCCATA 59.071 55.000 0.00 0.00 0.00 2.74
2981 3262 1.288633 TGTACTCCCTCCGTCCCATAA 59.711 52.381 0.00 0.00 0.00 1.90
2982 3263 2.090943 TGTACTCCCTCCGTCCCATAAT 60.091 50.000 0.00 0.00 0.00 1.28
2983 3264 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
2984 3265 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
2985 3266 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
2986 3267 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
2987 3268 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
2988 3269 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
2989 3270 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
2991 3272 3.025978 TCCGTCCCATAATGTAAGACGT 58.974 45.455 9.63 0.00 46.62 4.34
2992 3273 3.448301 TCCGTCCCATAATGTAAGACGTT 59.552 43.478 9.63 0.00 46.62 3.99
2993 3274 4.081531 TCCGTCCCATAATGTAAGACGTTT 60.082 41.667 9.63 0.00 46.62 3.60
2994 3275 4.632688 CCGTCCCATAATGTAAGACGTTTT 59.367 41.667 9.63 0.00 46.62 2.43
2995 3276 5.122711 CCGTCCCATAATGTAAGACGTTTTT 59.877 40.000 9.63 0.00 46.62 1.94
3040 3321 3.720949 CGTCTTACATTATGGGACGGA 57.279 47.619 20.50 2.30 43.69 4.69
3041 3322 3.639538 CGTCTTACATTATGGGACGGAG 58.360 50.000 20.50 2.74 43.69 4.63
3042 3323 3.552273 CGTCTTACATTATGGGACGGAGG 60.552 52.174 20.50 5.87 43.69 4.30
3043 3324 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
3044 3325 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
3045 3326 1.424638 ACATTATGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
3046 3327 1.344087 ACATTATGGGACGGAGGGAGT 60.344 52.381 0.00 0.00 0.00 3.85
3047 3328 2.090943 ACATTATGGGACGGAGGGAGTA 60.091 50.000 0.00 0.00 0.00 2.59
3048 3329 2.376695 TTATGGGACGGAGGGAGTAG 57.623 55.000 0.00 0.00 0.00 2.57
3049 3330 1.526315 TATGGGACGGAGGGAGTAGA 58.474 55.000 0.00 0.00 0.00 2.59
3050 3331 0.635009 ATGGGACGGAGGGAGTAGAA 59.365 55.000 0.00 0.00 0.00 2.10
3051 3332 0.410663 TGGGACGGAGGGAGTAGAAA 59.589 55.000 0.00 0.00 0.00 2.52
3052 3333 1.007963 TGGGACGGAGGGAGTAGAAAT 59.992 52.381 0.00 0.00 0.00 2.17
3053 3334 2.117051 GGGACGGAGGGAGTAGAAATT 58.883 52.381 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.625742 ACGTGCTAGTACATGCTAGTTTTG 59.374 41.667 11.70 0.00 40.29 2.44
9 10 4.548991 GTACGTGCTAGTACATGCTAGT 57.451 45.455 11.70 11.58 44.59 2.57
26 27 2.501881 GGCAAAATAGCAACGTGTACG 58.498 47.619 2.43 2.43 40.02 3.67
33 34 0.455815 CCTCCCGGCAAAATAGCAAC 59.544 55.000 0.00 0.00 35.83 4.17
61 62 5.086058 CCTTTTGAAAATCCGACACGTATG 58.914 41.667 0.00 0.00 0.00 2.39
62 63 4.155280 CCCTTTTGAAAATCCGACACGTAT 59.845 41.667 0.00 0.00 0.00 3.06
63 64 3.499157 CCCTTTTGAAAATCCGACACGTA 59.501 43.478 0.00 0.00 0.00 3.57
64 65 2.292292 CCCTTTTGAAAATCCGACACGT 59.708 45.455 0.00 0.00 0.00 4.49
107 112 8.214364 AGGGATGGAGATTAGAAGATGTAAAAC 58.786 37.037 0.00 0.00 0.00 2.43
145 150 6.474140 AGGTATACATGATTACGGTGTTGA 57.526 37.500 5.01 0.00 0.00 3.18
146 151 7.594015 GTCTAGGTATACATGATTACGGTGTTG 59.406 40.741 5.01 0.00 0.00 3.33
147 152 7.521099 CGTCTAGGTATACATGATTACGGTGTT 60.521 40.741 5.01 0.00 0.00 3.32
148 153 6.072838 CGTCTAGGTATACATGATTACGGTGT 60.073 42.308 5.01 0.00 0.00 4.16
149 154 6.312487 CGTCTAGGTATACATGATTACGGTG 58.688 44.000 5.01 0.00 0.00 4.94
159 164 3.578716 AGCAATGCCGTCTAGGTATACAT 59.421 43.478 0.00 0.00 45.00 2.29
161 166 3.662247 AGCAATGCCGTCTAGGTATAC 57.338 47.619 0.00 0.00 45.00 1.47
165 170 3.007635 GTTTTAGCAATGCCGTCTAGGT 58.992 45.455 0.00 0.00 43.70 3.08
185 190 2.297315 TCACGCAAGATCTTGTCTGAGT 59.703 45.455 30.88 20.90 42.31 3.41
322 329 9.189723 GCGTGTTAAGATAATAAAGGTAGTAGG 57.810 37.037 0.00 0.00 0.00 3.18
332 339 8.722394 TGACATGTTTGCGTGTTAAGATAATAA 58.278 29.630 0.00 0.00 44.20 1.40
344 351 3.125658 TGATGAGATGACATGTTTGCGTG 59.874 43.478 0.00 0.00 37.62 5.34
346 353 3.619929 TCTGATGAGATGACATGTTTGCG 59.380 43.478 0.00 0.00 0.00 4.85
350 357 4.141756 GGGACTCTGATGAGATGACATGTT 60.142 45.833 0.00 0.00 42.73 2.71
388 395 3.817709 AGAAGTTCCTCTCATGCTAGC 57.182 47.619 8.10 8.10 0.00 3.42
432 439 4.473196 ACATGTGTGGTAAGATGGGATGTA 59.527 41.667 0.00 0.00 0.00 2.29
434 441 3.879295 GACATGTGTGGTAAGATGGGATG 59.121 47.826 1.15 0.00 0.00 3.51
438 445 3.009723 GGTGACATGTGTGGTAAGATGG 58.990 50.000 1.15 0.00 0.00 3.51
447 454 4.834357 TTTTGATGAGGTGACATGTGTG 57.166 40.909 1.15 0.00 0.00 3.82
594 602 2.098614 TGTGGAAACATGCACAGTTGT 58.901 42.857 7.09 0.00 46.14 3.32
600 608 5.745294 GTGATATGATTGTGGAAACATGCAC 59.255 40.000 0.00 0.00 46.14 4.57
647 697 2.429250 GTTTTGGCTTAGTTGGGTGTGT 59.571 45.455 0.00 0.00 0.00 3.72
661 711 6.183360 GGATCAGAGGTAATAGTTGTTTTGGC 60.183 42.308 0.00 0.00 0.00 4.52
724 774 5.886960 ATCCAAATTGAGTGCTGTAGTTC 57.113 39.130 0.00 0.00 0.00 3.01
732 782 2.167075 CCCTCCAATCCAAATTGAGTGC 59.833 50.000 0.00 0.00 44.25 4.40
1195 1253 1.671379 GGTTCACCGCCTGGAAGAC 60.671 63.158 0.00 0.00 39.21 3.01
1342 1400 4.779733 GGGGCTCCTCTGGACGGA 62.780 72.222 0.00 0.00 0.00 4.69
1924 2055 1.477030 CGACGTAATCTTTCCGCGGG 61.477 60.000 27.83 9.82 0.00 6.13
1932 2063 1.140375 GGCCCGACGACGTAATCTT 59.860 57.895 0.00 0.00 37.88 2.40
1972 2103 2.041430 TACTTGGCCGGGATCCCA 59.959 61.111 30.42 8.15 35.37 4.37
1974 2105 2.108362 CGTACTTGGCCGGGATCC 59.892 66.667 1.92 1.92 0.00 3.36
2001 2132 2.031333 GTGTAGTCCTCGAACGTCTTGT 60.031 50.000 0.00 0.00 0.00 3.16
2093 2249 4.122046 TGCAGAGGTGAATGTTGATATCG 58.878 43.478 0.00 0.00 0.00 2.92
2198 2366 8.809468 AGATAACAAAGAAGAGAAAATACCCC 57.191 34.615 0.00 0.00 0.00 4.95
2231 2405 1.048601 AACTGACTCACACCGACCAT 58.951 50.000 0.00 0.00 0.00 3.55
2274 2448 3.052082 CTGGCTGGTTGGTGCGAG 61.052 66.667 0.00 0.00 0.00 5.03
2275 2449 2.616797 TTTCTGGCTGGTTGGTGCGA 62.617 55.000 0.00 0.00 0.00 5.10
2276 2450 1.526575 ATTTCTGGCTGGTTGGTGCG 61.527 55.000 0.00 0.00 0.00 5.34
2277 2451 0.244721 GATTTCTGGCTGGTTGGTGC 59.755 55.000 0.00 0.00 0.00 5.01
2278 2452 0.890683 GGATTTCTGGCTGGTTGGTG 59.109 55.000 0.00 0.00 0.00 4.17
2279 2453 0.251787 GGGATTTCTGGCTGGTTGGT 60.252 55.000 0.00 0.00 0.00 3.67
2280 2454 0.972471 GGGGATTTCTGGCTGGTTGG 60.972 60.000 0.00 0.00 0.00 3.77
2281 2455 0.040204 AGGGGATTTCTGGCTGGTTG 59.960 55.000 0.00 0.00 0.00 3.77
2282 2456 0.040204 CAGGGGATTTCTGGCTGGTT 59.960 55.000 0.00 0.00 0.00 3.67
2283 2457 0.846427 TCAGGGGATTTCTGGCTGGT 60.846 55.000 0.00 0.00 33.36 4.00
2284 2458 0.554792 ATCAGGGGATTTCTGGCTGG 59.445 55.000 0.00 0.00 33.36 4.85
2285 2459 1.064166 ACATCAGGGGATTTCTGGCTG 60.064 52.381 0.00 0.00 33.36 4.85
2286 2460 1.302907 ACATCAGGGGATTTCTGGCT 58.697 50.000 0.00 0.00 33.36 4.75
2287 2461 2.856222 CTACATCAGGGGATTTCTGGC 58.144 52.381 0.00 0.00 33.36 4.85
2288 2462 2.173356 TGCTACATCAGGGGATTTCTGG 59.827 50.000 0.00 0.00 33.36 3.86
2289 2463 3.209410 GTGCTACATCAGGGGATTTCTG 58.791 50.000 0.00 0.00 0.00 3.02
2290 2464 2.173569 GGTGCTACATCAGGGGATTTCT 59.826 50.000 0.00 0.00 0.00 2.52
2291 2465 2.576615 GGTGCTACATCAGGGGATTTC 58.423 52.381 0.00 0.00 0.00 2.17
2292 2466 1.215423 GGGTGCTACATCAGGGGATTT 59.785 52.381 0.00 0.00 0.00 2.17
2293 2467 0.846693 GGGTGCTACATCAGGGGATT 59.153 55.000 0.00 0.00 0.00 3.01
2294 2468 1.410850 CGGGTGCTACATCAGGGGAT 61.411 60.000 0.00 0.00 0.00 3.85
2295 2469 2.063979 CGGGTGCTACATCAGGGGA 61.064 63.158 0.00 0.00 0.00 4.81
2296 2470 2.505982 CGGGTGCTACATCAGGGG 59.494 66.667 0.00 0.00 0.00 4.79
2297 2471 2.203070 GCGGGTGCTACATCAGGG 60.203 66.667 0.00 0.00 38.39 4.45
2298 2472 2.203070 GGCGGGTGCTACATCAGG 60.203 66.667 0.00 0.00 42.25 3.86
2299 2473 0.811616 GAAGGCGGGTGCTACATCAG 60.812 60.000 0.00 0.00 42.25 2.90
2300 2474 1.220749 GAAGGCGGGTGCTACATCA 59.779 57.895 0.00 0.00 42.25 3.07
2301 2475 1.523938 GGAAGGCGGGTGCTACATC 60.524 63.158 0.00 0.00 42.25 3.06
2302 2476 2.590092 GGAAGGCGGGTGCTACAT 59.410 61.111 0.00 0.00 42.25 2.29
2303 2477 3.712907 GGGAAGGCGGGTGCTACA 61.713 66.667 0.00 0.00 42.25 2.74
2304 2478 4.832608 CGGGAAGGCGGGTGCTAC 62.833 72.222 0.00 0.00 42.25 3.58
2310 2484 4.452733 GAGTGACGGGAAGGCGGG 62.453 72.222 0.00 0.00 0.00 6.13
2311 2485 2.725203 TTTGAGTGACGGGAAGGCGG 62.725 60.000 0.00 0.00 0.00 6.13
2312 2486 0.673644 ATTTGAGTGACGGGAAGGCG 60.674 55.000 0.00 0.00 0.00 5.52
2313 2487 1.087501 GATTTGAGTGACGGGAAGGC 58.912 55.000 0.00 0.00 0.00 4.35
2314 2488 1.739067 GGATTTGAGTGACGGGAAGG 58.261 55.000 0.00 0.00 0.00 3.46
2315 2489 1.337823 ACGGATTTGAGTGACGGGAAG 60.338 52.381 0.00 0.00 0.00 3.46
2316 2490 0.682852 ACGGATTTGAGTGACGGGAA 59.317 50.000 0.00 0.00 0.00 3.97
2317 2491 0.682852 AACGGATTTGAGTGACGGGA 59.317 50.000 0.00 0.00 0.00 5.14
2318 2492 1.076332 GAACGGATTTGAGTGACGGG 58.924 55.000 0.00 0.00 0.00 5.28
2319 2493 1.790755 TGAACGGATTTGAGTGACGG 58.209 50.000 0.00 0.00 0.00 4.79
2320 2494 4.625742 AGTAATGAACGGATTTGAGTGACG 59.374 41.667 0.00 0.00 0.00 4.35
2321 2495 5.869888 AGAGTAATGAACGGATTTGAGTGAC 59.130 40.000 0.00 0.00 0.00 3.67
2322 2496 6.037786 AGAGTAATGAACGGATTTGAGTGA 57.962 37.500 0.00 0.00 0.00 3.41
2323 2497 5.869344 TGAGAGTAATGAACGGATTTGAGTG 59.131 40.000 0.00 0.00 0.00 3.51
2324 2498 5.869888 GTGAGAGTAATGAACGGATTTGAGT 59.130 40.000 0.00 0.00 0.00 3.41
2325 2499 5.869344 TGTGAGAGTAATGAACGGATTTGAG 59.131 40.000 0.00 0.00 0.00 3.02
2326 2500 5.637810 GTGTGAGAGTAATGAACGGATTTGA 59.362 40.000 0.00 0.00 0.00 2.69
2327 2501 5.408299 TGTGTGAGAGTAATGAACGGATTTG 59.592 40.000 0.00 0.00 0.00 2.32
2328 2502 5.408604 GTGTGTGAGAGTAATGAACGGATTT 59.591 40.000 0.00 0.00 0.00 2.17
2329 2503 4.929808 GTGTGTGAGAGTAATGAACGGATT 59.070 41.667 0.00 0.00 0.00 3.01
2330 2504 4.495422 GTGTGTGAGAGTAATGAACGGAT 58.505 43.478 0.00 0.00 0.00 4.18
2331 2505 3.305813 GGTGTGTGAGAGTAATGAACGGA 60.306 47.826 0.00 0.00 0.00 4.69
2332 2506 2.993899 GGTGTGTGAGAGTAATGAACGG 59.006 50.000 0.00 0.00 0.00 4.44
2333 2507 2.993899 GGGTGTGTGAGAGTAATGAACG 59.006 50.000 0.00 0.00 0.00 3.95
2334 2508 3.997021 CTGGGTGTGTGAGAGTAATGAAC 59.003 47.826 0.00 0.00 0.00 3.18
2335 2509 3.557054 GCTGGGTGTGTGAGAGTAATGAA 60.557 47.826 0.00 0.00 0.00 2.57
2336 2510 2.028112 GCTGGGTGTGTGAGAGTAATGA 60.028 50.000 0.00 0.00 0.00 2.57
2337 2511 2.350522 GCTGGGTGTGTGAGAGTAATG 58.649 52.381 0.00 0.00 0.00 1.90
2338 2512 1.066858 CGCTGGGTGTGTGAGAGTAAT 60.067 52.381 0.00 0.00 0.00 1.89
2339 2513 0.317160 CGCTGGGTGTGTGAGAGTAA 59.683 55.000 0.00 0.00 0.00 2.24
2340 2514 0.538746 TCGCTGGGTGTGTGAGAGTA 60.539 55.000 0.00 0.00 0.00 2.59
2341 2515 1.832608 TCGCTGGGTGTGTGAGAGT 60.833 57.895 0.00 0.00 0.00 3.24
2431 2698 3.672808 AGAGAGACAAATCTGCCTGTTG 58.327 45.455 0.00 0.00 34.34 3.33
2467 2734 7.602265 GCTCACTAGAGAGAGACAAATCTTTTT 59.398 37.037 19.94 0.00 44.98 1.94
2468 2735 7.096551 GCTCACTAGAGAGAGACAAATCTTTT 58.903 38.462 19.94 0.00 44.98 2.27
2469 2736 6.210385 TGCTCACTAGAGAGAGACAAATCTTT 59.790 38.462 19.94 0.00 44.98 2.52
2470 2737 5.714333 TGCTCACTAGAGAGAGACAAATCTT 59.286 40.000 19.94 0.00 44.98 2.40
2471 2738 5.260424 TGCTCACTAGAGAGAGACAAATCT 58.740 41.667 19.94 0.00 44.98 2.40
2472 2739 5.574891 TGCTCACTAGAGAGAGACAAATC 57.425 43.478 19.94 1.54 44.98 2.17
2487 2754 6.780031 ACAATCCTACTGTCTATATGCTCACT 59.220 38.462 0.00 0.00 0.00 3.41
2504 2771 4.454161 CCAAAACACGTGATGACAATCCTA 59.546 41.667 25.01 0.00 31.15 2.94
2585 2864 5.789643 AGTGTCATGTTTTTATTGGCTGT 57.210 34.783 0.00 0.00 0.00 4.40
2627 2906 7.254137 TGAATTTGTTTTCAGTCGAATGTCAA 58.746 30.769 13.18 11.00 32.07 3.18
2667 2947 3.755378 CCCTGAGAATTGAGTGGTTGAAG 59.245 47.826 0.00 0.00 0.00 3.02
2669 2949 2.553028 GCCCTGAGAATTGAGTGGTTGA 60.553 50.000 0.00 0.00 0.00 3.18
2670 2950 1.815003 GCCCTGAGAATTGAGTGGTTG 59.185 52.381 0.00 0.00 0.00 3.77
2672 2952 1.366319 AGCCCTGAGAATTGAGTGGT 58.634 50.000 0.00 0.00 0.00 4.16
2685 2965 2.775911 TGATTCACTCTCAAGCCCTG 57.224 50.000 0.00 0.00 0.00 4.45
2686 2966 4.225942 TGTAATGATTCACTCTCAAGCCCT 59.774 41.667 0.00 0.00 0.00 5.19
2688 2968 6.500684 TTTGTAATGATTCACTCTCAAGCC 57.499 37.500 0.00 0.00 0.00 4.35
2692 2972 8.546597 TCGATTTTTGTAATGATTCACTCTCA 57.453 30.769 0.00 0.00 0.00 3.27
2699 2979 8.612619 TCTTAGCCTCGATTTTTGTAATGATTC 58.387 33.333 0.00 0.00 0.00 2.52
2708 2988 4.621068 TGCATCTTAGCCTCGATTTTTG 57.379 40.909 0.00 0.00 0.00 2.44
2762 3043 8.618702 TGTCATTTTTACCGTTTTATAGTGGA 57.381 30.769 0.00 0.00 0.00 4.02
2788 3069 9.503399 GTTCTCCCGGAATTATTATTATCAGTT 57.497 33.333 0.73 0.00 36.24 3.16
2797 3078 9.502091 CTCATTATTGTTCTCCCGGAATTATTA 57.498 33.333 0.73 0.00 36.24 0.98
2799 3080 7.518188 ACTCATTATTGTTCTCCCGGAATTAT 58.482 34.615 0.73 0.00 36.24 1.28
2900 3181 4.915704 TGTCGTTTTTAGCTTTTGAGGTG 58.084 39.130 0.00 0.00 0.00 4.00
2925 3206 8.398665 GTCCATTCTTGTTATGTGAGAATTACC 58.601 37.037 0.00 0.00 37.88 2.85
2956 3237 2.767960 GGGACGGAGGGAGTACATTTTA 59.232 50.000 0.00 0.00 0.00 1.52
2965 3246 1.424638 ACATTATGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
2966 3247 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
2967 3248 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
2968 3249 3.552273 CGTCTTACATTATGGGACGGAGG 60.552 52.174 20.50 5.87 43.69 4.30
2969 3250 3.639538 CGTCTTACATTATGGGACGGAG 58.360 50.000 20.50 2.74 43.69 4.63
2970 3251 3.720949 CGTCTTACATTATGGGACGGA 57.279 47.619 20.50 2.30 43.69 4.69
3015 3296 5.122711 CCGTCCCATAATGTAAGACGTTTTT 59.877 40.000 9.63 0.00 46.62 1.94
3016 3297 4.632688 CCGTCCCATAATGTAAGACGTTTT 59.367 41.667 9.63 0.00 46.62 2.43
3017 3298 4.081531 TCCGTCCCATAATGTAAGACGTTT 60.082 41.667 9.63 0.00 46.62 3.60
3018 3299 3.448301 TCCGTCCCATAATGTAAGACGTT 59.552 43.478 9.63 0.00 46.62 3.99
3019 3300 3.025978 TCCGTCCCATAATGTAAGACGT 58.974 45.455 9.63 0.00 46.62 4.34
3021 3302 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
3022 3303 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
3023 3304 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
3024 3305 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
3025 3306 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
3026 3307 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
3027 3308 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
3028 3309 2.449730 TCTACTCCCTCCGTCCCATAAT 59.550 50.000 0.00 0.00 0.00 1.28
3029 3310 1.854939 TCTACTCCCTCCGTCCCATAA 59.145 52.381 0.00 0.00 0.00 1.90
3030 3311 1.526315 TCTACTCCCTCCGTCCCATA 58.474 55.000 0.00 0.00 0.00 2.74
3031 3312 0.635009 TTCTACTCCCTCCGTCCCAT 59.365 55.000 0.00 0.00 0.00 4.00
3032 3313 0.410663 TTTCTACTCCCTCCGTCCCA 59.589 55.000 0.00 0.00 0.00 4.37
3033 3314 1.790818 ATTTCTACTCCCTCCGTCCC 58.209 55.000 0.00 0.00 0.00 4.46


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

AutoCloner maintained by Alex Coulton.