Multiple sequence alignment - TraesCS3A01G291000

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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 TraesCS3A01G291000 chr3A 100.000 4283 0 0 1 4283 521301071 521305353 0.000000e+00 7910.0
1 TraesCS3A01G291000 chr3A 96.000 125 4 1 2447 2571 699764889 699765012 7.260000e-48 202.0
2 TraesCS3A01G291000 chr3A 77.340 203 36 9 109 304 407452325 407452126 1.260000e-20 111.0
3 TraesCS3A01G291000 chr3A 75.000 236 38 10 16 235 458841415 458841185 5.900000e-14 89.8
4 TraesCS3A01G291000 chr3A 96.364 55 0 2 2212 2266 480109026 480108974 5.900000e-14 89.8
5 TraesCS3A01G291000 chr3D 94.112 2123 76 21 341 2451 400990733 400992818 0.000000e+00 3182.0
6 TraesCS3A01G291000 chr3D 95.429 1750 43 8 2562 4283 400992815 400994555 0.000000e+00 2754.0
7 TraesCS3A01G291000 chr3D 92.982 342 21 3 1 339 400990338 400990679 2.970000e-136 496.0
8 TraesCS3A01G291000 chr3D 73.109 238 41 12 16 235 207054420 207054652 3.580000e-06 63.9
9 TraesCS3A01G291000 chr3B 95.938 1157 47 0 1060 2216 526692210 526693366 0.000000e+00 1877.0
10 TraesCS3A01G291000 chr3B 93.774 1044 36 4 2562 3581 526693715 526694753 0.000000e+00 1541.0
11 TraesCS3A01G291000 chr3B 95.104 674 21 7 3620 4283 526695020 526695691 0.000000e+00 1051.0
12 TraesCS3A01G291000 chr3B 88.434 709 44 20 341 1041 526691298 526691976 0.000000e+00 821.0
13 TraesCS3A01G291000 chr3B 87.644 348 33 5 1 339 526690898 526691244 3.100000e-106 396.0
14 TraesCS3A01G291000 chr3B 93.798 129 8 0 2442 2570 270893960 270893832 1.220000e-45 195.0
15 TraesCS3A01G291000 chr3B 89.933 149 15 0 341 489 652753372 652753224 4.370000e-45 193.0
16 TraesCS3A01G291000 chr3B 100.000 41 0 0 3580 3620 526694856 526694896 4.590000e-10 76.8
17 TraesCS3A01G291000 chr5A 93.220 236 16 0 1069 1304 384619158 384619393 8.810000e-92 348.0
18 TraesCS3A01G291000 chr5A 95.918 49 2 0 1440 1488 384619391 384619439 3.550000e-11 80.5
19 TraesCS3A01G291000 chr5A 94.872 39 2 0 18 56 93975848 93975886 1.290000e-05 62.1
20 TraesCS3A01G291000 chr5D 96.094 128 5 0 2450 2577 140016630 140016503 4.340000e-50 209.0
21 TraesCS3A01G291000 chr5D 100.000 50 0 0 2217 2266 538010582 538010533 4.560000e-15 93.5
22 TraesCS3A01G291000 chr5D 92.188 64 2 2 2206 2267 168495281 168495219 2.120000e-13 87.9
23 TraesCS3A01G291000 chr5B 99.138 116 1 0 2450 2565 65773575 65773690 4.340000e-50 209.0
24 TraesCS3A01G291000 chr5B 93.421 76 5 0 1178 1253 657403127 657403202 3.500000e-21 113.0
25 TraesCS3A01G291000 chr5B 74.009 227 42 7 16 227 330225503 330225279 4.590000e-10 76.8
26 TraesCS3A01G291000 chr5B 92.683 41 2 1 502 542 673767929 673767890 1.660000e-04 58.4
27 TraesCS3A01G291000 chr2B 99.138 116 1 0 2450 2565 148404475 148404590 4.340000e-50 209.0
28 TraesCS3A01G291000 chr2B 75.806 310 57 10 8 302 259844787 259844481 1.610000e-29 141.0
29 TraesCS3A01G291000 chr2B 82.353 119 18 3 367 484 160266373 160266489 2.730000e-17 100.0
30 TraesCS3A01G291000 chr2B 96.491 57 1 1 2212 2267 183536517 183536573 4.560000e-15 93.5
31 TraesCS3A01G291000 chr2B 100.000 33 0 0 492 524 108883312 108883280 1.290000e-05 62.1
32 TraesCS3A01G291000 chr2A 99.138 116 1 0 2450 2565 634608909 634609024 4.340000e-50 209.0
33 TraesCS3A01G291000 chr2A 100.000 29 0 0 499 527 179296691 179296719 2.000000e-03 54.7
34 TraesCS3A01G291000 chr1B 94.737 133 6 1 2443 2574 654278552 654278684 5.610000e-49 206.0
35 TraesCS3A01G291000 chr1B 78.498 293 47 8 8 284 391438282 391437990 1.220000e-40 178.0
36 TraesCS3A01G291000 chr1B 100.000 50 0 0 2218 2267 190886032 190885983 4.560000e-15 93.5
37 TraesCS3A01G291000 chr1B 75.429 175 34 7 123 289 467639439 467639612 4.590000e-10 76.8
38 TraesCS3A01G291000 chr1B 94.286 35 2 0 492 526 630183551 630183585 2.000000e-03 54.7
39 TraesCS3A01G291000 chr4A 95.238 126 6 0 2441 2566 514351533 514351658 2.610000e-47 200.0
40 TraesCS3A01G291000 chr4A 95.968 124 4 1 2442 2565 580709462 580709340 2.610000e-47 200.0
41 TraesCS3A01G291000 chr4A 100.000 50 0 0 2218 2267 619281439 619281488 4.560000e-15 93.5
42 TraesCS3A01G291000 chr4A 98.148 54 0 1 2215 2267 653333691 653333638 4.560000e-15 93.5
43 TraesCS3A01G291000 chr6D 90.000 100 7 3 1169 1267 326170979 326170882 4.500000e-25 126.0
44 TraesCS3A01G291000 chr6D 75.000 224 38 9 19 227 43941693 43941473 2.120000e-13 87.9
45 TraesCS3A01G291000 chr6D 96.875 32 1 0 528 559 2100216 2100185 2.000000e-03 54.7
46 TraesCS3A01G291000 chr2D 85.841 113 12 4 3150 3260 579595005 579594895 2.710000e-22 117.0
47 TraesCS3A01G291000 chr2D 75.314 239 34 14 7 227 512538012 512538243 1.640000e-14 91.6
48 TraesCS3A01G291000 chr2D 96.875 32 1 0 528 559 458155240 458155209 2.000000e-03 54.7
49 TraesCS3A01G291000 chr7B 93.333 75 5 0 1178 1252 253708132 253708206 1.260000e-20 111.0
50 TraesCS3A01G291000 chr7B 80.531 113 22 0 372 484 157573743 157573855 2.120000e-13 87.9
51 TraesCS3A01G291000 chr7B 100.000 30 0 0 1460 1489 253708208 253708237 5.980000e-04 56.5
52 TraesCS3A01G291000 chr7D 75.610 246 36 11 7 235 385020889 385020651 2.730000e-17 100.0
53 TraesCS3A01G291000 chr7D 88.889 54 4 2 16 68 167697243 167697191 9.940000e-07 65.8
54 TraesCS3A01G291000 chr4B 82.051 117 19 2 372 487 417050767 417050652 9.800000e-17 99.0
55 TraesCS3A01G291000 chr4B 79.646 113 19 4 3150 3260 227095159 227095269 1.280000e-10 78.7
56 TraesCS3A01G291000 chr6A 73.944 284 54 16 7 273 314405807 314405527 3.530000e-16 97.1
57 TraesCS3A01G291000 chr6A 98.077 52 1 0 2216 2267 268571434 268571383 1.640000e-14 91.6
58 TraesCS3A01G291000 chr6A 74.026 231 35 13 16 227 435698184 435697960 2.140000e-08 71.3
59 TraesCS3A01G291000 chr4D 96.429 56 1 1 2213 2267 441512253 441512308 1.640000e-14 91.6
60 TraesCS3A01G291000 chr4D 74.459 231 35 10 16 227 188318799 188318574 1.280000e-10 78.7
61 TraesCS3A01G291000 chr7A 74.459 231 34 15 16 227 432413797 432414021 4.590000e-10 76.8
62 TraesCS3A01G291000 chr1D 97.143 35 1 0 525 559 466373974 466374008 4.630000e-05 60.2
63 TraesCS3A01G291000 chr1A 97.143 35 1 0 525 559 558518588 558518622 4.630000e-05 60.2


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3A01G291000 chr3A 521301071 521305353 4282 False 7910.000000 7910 100.000000 1 4283 1 chr3A.!!$F1 4282
1 TraesCS3A01G291000 chr3D 400990338 400994555 4217 False 2144.000000 3182 94.174333 1 4283 3 chr3D.!!$F2 4282
2 TraesCS3A01G291000 chr3B 526690898 526695691 4793 False 960.466667 1877 93.482333 1 4283 6 chr3B.!!$F1 4282

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
341 351 0.036010 CACATGACCCCACTCACCTC 60.036 60.000 0.00 0.00 0.00 3.85 F
846 917 1.326548 GGCTCAAATACGCCGTACTTG 59.673 52.381 11.85 11.85 36.45 3.16 F
2468 2922 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1954 2248 0.037326 TTGGACAGCAGCCTACTTCG 60.037 55.0 0.00 0.00 0.00 3.79 R
2452 2906 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.0 13.64 4.95 46.06 4.20 R
4010 4725 2.237392 ACAATGCACCTAAGGTCTCTCC 59.763 50.0 0.00 0.00 31.02 3.71 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
28 29 8.302515 TCGGAAATAGTCTGTTAATAAGACCT 57.697 34.615 14.41 7.55 44.27 3.85
31 32 9.315525 GGAAATAGTCTGTTAATAAGACCTGAC 57.684 37.037 14.41 4.68 44.27 3.51
50 51 7.471890 ACCTGACCAACCTTATTAATGGTTTA 58.528 34.615 7.34 0.00 45.85 2.01
197 199 6.613153 AGACCTAGAACTAAAAGTGCTCAT 57.387 37.500 0.00 0.00 35.26 2.90
210 212 9.820229 CTAAAAGTGCTCATAATGTCGTAAAAA 57.180 29.630 0.00 0.00 0.00 1.94
264 273 2.194597 GCACTGGACACACCCCAA 59.805 61.111 0.00 0.00 38.00 4.12
299 309 4.980702 CACAAGGGCAGCAGGGCA 62.981 66.667 0.00 0.00 45.66 5.36
339 349 1.002134 CCACATGACCCCACTCACC 60.002 63.158 0.00 0.00 0.00 4.02
341 351 0.036010 CACATGACCCCACTCACCTC 60.036 60.000 0.00 0.00 0.00 3.85
450 512 5.430886 CTTGGTATGTGACTCATCCATTGA 58.569 41.667 8.51 0.00 37.91 2.57
471 533 9.190858 CATTGATCCAATTCGTTTTTGTTCTAA 57.809 29.630 0.00 0.00 31.05 2.10
500 562 9.352784 GTTTATACATAGCTTGCAAAAATGTCA 57.647 29.630 18.83 9.76 33.15 3.58
593 655 7.234355 CCTTTAGGTTCTATAATTGCATCCCT 58.766 38.462 0.00 0.00 0.00 4.20
594 656 7.175641 CCTTTAGGTTCTATAATTGCATCCCTG 59.824 40.741 0.00 0.00 0.00 4.45
747 816 5.801350 TCAATCATGATGGAACTTCGAAC 57.199 39.130 10.53 0.00 0.00 3.95
779 848 3.011517 AGTCGAGCCCAGCCCAAT 61.012 61.111 0.00 0.00 0.00 3.16
844 915 3.357504 GGCTCAAATACGCCGTACT 57.642 52.632 0.00 0.00 36.45 2.73
845 916 1.648504 GGCTCAAATACGCCGTACTT 58.351 50.000 0.00 0.00 36.45 2.24
846 917 1.326548 GGCTCAAATACGCCGTACTTG 59.673 52.381 11.85 11.85 36.45 3.16
1419 1713 1.377725 CGTCTGCCTGCCCAAGAAT 60.378 57.895 0.00 0.00 0.00 2.40
1518 1812 2.415608 CCTCCGGACGCTCAAGCTA 61.416 63.158 0.00 0.00 39.32 3.32
1923 2217 3.818773 TCGCATCCATCGTACTCTATCAA 59.181 43.478 0.00 0.00 0.00 2.57
1954 2248 6.595716 ACTGCAGTGTTAATTTGTCTAGATCC 59.404 38.462 20.97 0.00 0.00 3.36
1956 2250 5.810587 GCAGTGTTAATTTGTCTAGATCCGA 59.189 40.000 0.00 0.00 0.00 4.55
2036 2330 1.734465 GTTGATGAACGGAAGCCTCAG 59.266 52.381 0.00 0.00 30.89 3.35
2180 2474 4.040217 TGGGTTTGATCCATGAAAACTTGG 59.960 41.667 0.00 0.00 34.84 3.61
2204 2498 5.997384 TTTAGGAAGGACAGAGTAGTTCC 57.003 43.478 0.00 0.00 37.53 3.62
2216 2510 3.505293 AGAGTAGTTCCACCGTGACTTAC 59.495 47.826 0.00 0.00 0.00 2.34
2222 2516 3.648339 TCCACCGTGACTTACTTGTAC 57.352 47.619 0.00 0.00 0.00 2.90
2223 2517 3.225104 TCCACCGTGACTTACTTGTACT 58.775 45.455 0.00 0.00 0.00 2.73
2224 2518 3.254166 TCCACCGTGACTTACTTGTACTC 59.746 47.826 0.00 0.00 0.00 2.59
2227 2521 2.824341 CCGTGACTTACTTGTACTCCCT 59.176 50.000 0.00 0.00 0.00 4.20
2228 2522 3.119566 CCGTGACTTACTTGTACTCCCTC 60.120 52.174 0.00 0.00 0.00 4.30
2229 2523 3.119566 CGTGACTTACTTGTACTCCCTCC 60.120 52.174 0.00 0.00 0.00 4.30
2230 2524 3.087031 TGACTTACTTGTACTCCCTCCG 58.913 50.000 0.00 0.00 0.00 4.63
2232 2526 3.087781 ACTTACTTGTACTCCCTCCGTC 58.912 50.000 0.00 0.00 0.00 4.79
2233 2527 2.134789 TACTTGTACTCCCTCCGTCC 57.865 55.000 0.00 0.00 0.00 4.79
2234 2528 0.614134 ACTTGTACTCCCTCCGTCCC 60.614 60.000 0.00 0.00 0.00 4.46
2235 2529 0.613853 CTTGTACTCCCTCCGTCCCA 60.614 60.000 0.00 0.00 0.00 4.37
2239 2533 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
2240 2534 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
2241 2535 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
2242 2536 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
2243 2537 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
2244 2538 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
2245 2539 2.026636 CCCTCCGTCCCAAAATAAGTGA 60.027 50.000 0.00 0.00 0.00 3.41
2246 2540 3.007635 CCTCCGTCCCAAAATAAGTGAC 58.992 50.000 0.00 0.00 0.00 3.67
2247 2541 3.307480 CCTCCGTCCCAAAATAAGTGACT 60.307 47.826 0.00 0.00 0.00 3.41
2248 2542 3.933332 CTCCGTCCCAAAATAAGTGACTC 59.067 47.826 0.00 0.00 0.00 3.36
2249 2543 3.325425 TCCGTCCCAAAATAAGTGACTCA 59.675 43.478 0.00 0.00 0.00 3.41
2250 2544 4.069304 CCGTCCCAAAATAAGTGACTCAA 58.931 43.478 0.00 0.00 0.00 3.02
2251 2545 4.083484 CCGTCCCAAAATAAGTGACTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
2252 2546 4.755123 CGTCCCAAAATAAGTGACTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
2253 2547 5.238650 CGTCCCAAAATAAGTGACTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
2254 2548 6.238648 CGTCCCAAAATAAGTGACTCAACTTT 60.239 38.462 0.00 0.00 40.77 2.66
2255 2549 6.918022 GTCCCAAAATAAGTGACTCAACTTTG 59.082 38.462 0.00 0.00 40.77 2.77
2256 2550 6.605594 TCCCAAAATAAGTGACTCAACTTTGT 59.394 34.615 0.00 0.00 40.77 2.83
2257 2551 7.776030 TCCCAAAATAAGTGACTCAACTTTGTA 59.224 33.333 0.00 0.00 40.77 2.41
2258 2552 7.860872 CCCAAAATAAGTGACTCAACTTTGTAC 59.139 37.037 0.00 0.00 40.77 2.90
2259 2553 8.621286 CCAAAATAAGTGACTCAACTTTGTACT 58.379 33.333 0.00 0.00 40.77 2.73
2265 2559 8.788325 AAGTGACTCAACTTTGTACTAACTTT 57.212 30.769 0.00 0.00 37.05 2.66
2266 2560 9.880157 AAGTGACTCAACTTTGTACTAACTTTA 57.120 29.630 0.00 0.00 37.05 1.85
2267 2561 9.880157 AGTGACTCAACTTTGTACTAACTTTAA 57.120 29.630 0.00 0.00 0.00 1.52
2292 2586 7.752638 AGGGGTAATACTTTGAAGTTACAGTT 58.247 34.615 1.20 0.00 40.37 3.16
2451 2905 7.739498 TTTGTAGATTCCAGGAAACAAGTAC 57.261 36.000 14.80 8.49 0.00 2.73
2452 2906 6.681729 TGTAGATTCCAGGAAACAAGTACT 57.318 37.500 5.81 0.00 0.00 2.73
2453 2907 6.698380 TGTAGATTCCAGGAAACAAGTACTC 58.302 40.000 5.81 0.00 0.00 2.59
2454 2908 5.167303 AGATTCCAGGAAACAAGTACTCC 57.833 43.478 5.81 0.00 0.00 3.85
2455 2909 3.782656 TTCCAGGAAACAAGTACTCCC 57.217 47.619 0.00 0.00 0.00 4.30
2456 2910 2.986050 TCCAGGAAACAAGTACTCCCT 58.014 47.619 0.00 0.00 0.00 4.20
2457 2911 2.904434 TCCAGGAAACAAGTACTCCCTC 59.096 50.000 0.00 0.00 0.00 4.30
2458 2912 2.027100 CCAGGAAACAAGTACTCCCTCC 60.027 54.545 0.00 0.45 0.00 4.30
2459 2913 1.900486 AGGAAACAAGTACTCCCTCCG 59.100 52.381 0.00 0.00 0.00 4.63
2460 2914 1.622312 GGAAACAAGTACTCCCTCCGT 59.378 52.381 0.00 0.00 0.00 4.69
2461 2915 2.353505 GGAAACAAGTACTCCCTCCGTC 60.354 54.545 0.00 0.00 0.00 4.79
2462 2916 1.264295 AACAAGTACTCCCTCCGTCC 58.736 55.000 0.00 0.00 0.00 4.79
2463 2917 0.964358 ACAAGTACTCCCTCCGTCCG 60.964 60.000 0.00 0.00 0.00 4.79
2464 2918 1.379576 AAGTACTCCCTCCGTCCGG 60.380 63.158 0.00 0.00 0.00 5.14
2465 2919 1.856539 AAGTACTCCCTCCGTCCGGA 61.857 60.000 0.00 0.00 42.90 5.14
2466 2920 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
2467 2921 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
2468 2922 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
2469 2923 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
2470 2924 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
2471 2925 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
2472 2926 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
2473 2927 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
2474 2928 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
2475 2929 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
2476 2930 1.205417 TCCGTCCGGAAATACTTGTCC 59.795 52.381 5.23 0.00 42.05 4.02
2477 2931 1.206371 CCGTCCGGAAATACTTGTCCT 59.794 52.381 5.23 0.00 37.50 3.85
2478 2932 2.537401 CGTCCGGAAATACTTGTCCTC 58.463 52.381 5.23 0.00 0.00 3.71
2479 2933 2.537401 GTCCGGAAATACTTGTCCTCG 58.463 52.381 5.23 0.00 0.00 4.63
2480 2934 2.165030 GTCCGGAAATACTTGTCCTCGA 59.835 50.000 5.23 0.00 0.00 4.04
2481 2935 2.827322 TCCGGAAATACTTGTCCTCGAA 59.173 45.455 0.00 0.00 0.00 3.71
2482 2936 3.449737 TCCGGAAATACTTGTCCTCGAAT 59.550 43.478 0.00 0.00 0.00 3.34
2483 2937 4.081309 TCCGGAAATACTTGTCCTCGAATT 60.081 41.667 0.00 0.00 0.00 2.17
2484 2938 4.034048 CCGGAAATACTTGTCCTCGAATTG 59.966 45.833 0.00 0.00 0.00 2.32
2485 2939 4.034048 CGGAAATACTTGTCCTCGAATTGG 59.966 45.833 0.00 0.00 0.00 3.16
2486 2940 5.183228 GGAAATACTTGTCCTCGAATTGGA 58.817 41.667 0.00 0.00 0.00 3.53
2487 2941 5.823045 GGAAATACTTGTCCTCGAATTGGAT 59.177 40.000 0.00 0.00 35.87 3.41
2488 2942 6.990349 GGAAATACTTGTCCTCGAATTGGATA 59.010 38.462 0.00 0.00 35.87 2.59
2489 2943 7.497909 GGAAATACTTGTCCTCGAATTGGATAA 59.502 37.037 0.00 0.00 35.87 1.75
2490 2944 8.801882 AAATACTTGTCCTCGAATTGGATAAA 57.198 30.769 3.54 0.00 34.98 1.40
2491 2945 8.801882 AATACTTGTCCTCGAATTGGATAAAA 57.198 30.769 3.54 0.00 34.98 1.52
2492 2946 8.980481 ATACTTGTCCTCGAATTGGATAAAAT 57.020 30.769 3.54 0.00 34.98 1.82
2493 2947 7.088589 ACTTGTCCTCGAATTGGATAAAATG 57.911 36.000 3.54 0.00 34.98 2.32
2494 2948 6.095440 ACTTGTCCTCGAATTGGATAAAATGG 59.905 38.462 3.54 0.00 34.98 3.16
2495 2949 5.750524 TGTCCTCGAATTGGATAAAATGGA 58.249 37.500 0.00 0.00 35.87 3.41
2496 2950 6.364701 TGTCCTCGAATTGGATAAAATGGAT 58.635 36.000 0.00 0.00 35.87 3.41
2497 2951 6.262944 TGTCCTCGAATTGGATAAAATGGATG 59.737 38.462 0.00 0.00 35.87 3.51
2498 2952 6.263168 GTCCTCGAATTGGATAAAATGGATGT 59.737 38.462 0.00 0.00 35.87 3.06
2499 2953 7.444183 GTCCTCGAATTGGATAAAATGGATGTA 59.556 37.037 0.00 0.00 35.87 2.29
2500 2954 8.163408 TCCTCGAATTGGATAAAATGGATGTAT 58.837 33.333 0.00 0.00 0.00 2.29
2501 2955 8.454106 CCTCGAATTGGATAAAATGGATGTATC 58.546 37.037 0.00 0.00 0.00 2.24
2502 2956 9.224267 CTCGAATTGGATAAAATGGATGTATCT 57.776 33.333 0.00 0.00 0.00 1.98
2538 2992 9.838339 ATAAGTCTAGATACAACCATTTTGAGG 57.162 33.333 0.00 0.00 0.00 3.86
2539 2993 7.496346 AGTCTAGATACAACCATTTTGAGGA 57.504 36.000 0.00 0.00 0.00 3.71
2540 2994 7.331791 AGTCTAGATACAACCATTTTGAGGAC 58.668 38.462 0.00 0.00 0.00 3.85
2541 2995 7.038302 AGTCTAGATACAACCATTTTGAGGACA 60.038 37.037 0.00 0.00 0.00 4.02
2542 2996 7.606456 GTCTAGATACAACCATTTTGAGGACAA 59.394 37.037 0.00 0.00 0.00 3.18
2543 2997 6.824305 AGATACAACCATTTTGAGGACAAG 57.176 37.500 0.00 0.00 37.32 3.16
2544 2998 6.306987 AGATACAACCATTTTGAGGACAAGT 58.693 36.000 0.00 0.00 37.32 3.16
2545 2999 7.458397 AGATACAACCATTTTGAGGACAAGTA 58.542 34.615 0.00 0.00 37.32 2.24
2546 3000 8.109634 AGATACAACCATTTTGAGGACAAGTAT 58.890 33.333 0.00 0.00 37.32 2.12
2547 3001 6.976934 ACAACCATTTTGAGGACAAGTATT 57.023 33.333 0.00 0.00 37.32 1.89
2548 3002 7.360113 ACAACCATTTTGAGGACAAGTATTT 57.640 32.000 0.00 0.00 37.32 1.40
2549 3003 7.433680 ACAACCATTTTGAGGACAAGTATTTC 58.566 34.615 0.00 0.00 37.32 2.17
2550 3004 6.590234 ACCATTTTGAGGACAAGTATTTCC 57.410 37.500 0.00 0.00 37.32 3.13
2551 3005 5.183140 ACCATTTTGAGGACAAGTATTTCCG 59.817 40.000 0.00 0.00 36.95 4.30
2552 3006 5.393027 CCATTTTGAGGACAAGTATTTCCGG 60.393 44.000 0.00 0.00 36.95 5.14
2553 3007 4.627284 TTTGAGGACAAGTATTTCCGGA 57.373 40.909 0.00 0.00 36.95 5.14
2554 3008 3.604875 TGAGGACAAGTATTTCCGGAC 57.395 47.619 1.83 0.00 36.95 4.79
2555 3009 2.094390 TGAGGACAAGTATTTCCGGACG 60.094 50.000 1.83 0.00 36.95 4.79
2556 3010 1.206371 AGGACAAGTATTTCCGGACGG 59.794 52.381 1.83 3.96 36.95 4.79
2557 3011 1.205417 GGACAAGTATTTCCGGACGGA 59.795 52.381 1.83 9.76 43.52 4.69
2558 3012 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
2559 3013 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
2560 3014 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
2561 3015 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
2562 3016 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
2563 3017 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
2564 3018 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
2626 3080 9.477484 CACACACTACTTAACACTTCTATTTCT 57.523 33.333 0.00 0.00 0.00 2.52
2815 3269 4.467438 TGAGGATATTGTCAGTGAGCTTGA 59.533 41.667 0.00 0.00 0.00 3.02
2916 3370 6.659242 TCTCGGTATGCATCTTATCATCTACA 59.341 38.462 0.19 0.00 0.00 2.74
3075 3547 6.768381 GCCTAACTAATAGCCTGTTGAAGATT 59.232 38.462 0.00 0.00 0.00 2.40
3338 3810 1.130561 GTTTCGCTGCACATACTTCCC 59.869 52.381 0.00 0.00 0.00 3.97
3501 3979 6.213600 AGAGAATATCTGGGTTGTGTTGTAGT 59.786 38.462 0.00 0.00 36.69 2.73
3504 3982 7.724061 AGAATATCTGGGTTGTGTTGTAGTTTT 59.276 33.333 0.00 0.00 0.00 2.43
3506 3984 4.590918 TCTGGGTTGTGTTGTAGTTTTCA 58.409 39.130 0.00 0.00 0.00 2.69
3507 3985 4.396790 TCTGGGTTGTGTTGTAGTTTTCAC 59.603 41.667 0.00 0.00 0.00 3.18
3508 3986 4.079970 TGGGTTGTGTTGTAGTTTTCACA 58.920 39.130 0.00 0.00 38.71 3.58
3509 3987 4.523173 TGGGTTGTGTTGTAGTTTTCACAA 59.477 37.500 5.64 5.64 44.70 3.33
3510 3988 5.099575 GGGTTGTGTTGTAGTTTTCACAAG 58.900 41.667 9.32 0.00 46.48 3.16
3797 4507 3.953612 AGGTGTCTGAAATTCAAACAGCA 59.046 39.130 26.68 7.26 0.00 4.41
3941 4651 3.808618 GCAGGACTCCACTGTTGAGATTT 60.809 47.826 15.03 0.00 38.22 2.17
3990 4700 2.143122 AGAACAGATGCGCGAGAAAAA 58.857 42.857 12.10 0.00 0.00 1.94
4010 4725 8.435982 AGAAAAATATGTATTGAGAGAGGGAGG 58.564 37.037 0.00 0.00 0.00 4.30
4067 4785 6.183360 GCTCAGAGCTCTAATACCCTATCATC 60.183 46.154 17.75 0.00 38.45 2.92
4143 4861 1.999048 TGTACGGTTGCAATACCTCG 58.001 50.000 0.59 5.08 35.97 4.63
4152 4870 2.804647 TGCAATACCTCGTACACATCG 58.195 47.619 0.00 0.00 0.00 3.84
4163 4881 3.067601 TCGTACACATCGCCAGTAATGAT 59.932 43.478 0.00 0.00 0.00 2.45
4209 4927 5.316987 AGTCCGAATTCCTTCTTCAAACAT 58.683 37.500 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 62 5.067273 AGGTTGTGTTTACGGAATTCATCA 58.933 37.500 7.93 0.00 0.00 3.07
135 136 3.938963 TCAGAAAGCGGGATAAACATGAC 59.061 43.478 0.00 0.00 0.00 3.06
170 171 7.441458 TGAGCACTTTTAGTTCTAGGTCTTTTC 59.559 37.037 0.00 0.00 0.00 2.29
299 309 1.610624 CCCCACAATGCACTTAGACGT 60.611 52.381 0.00 0.00 0.00 4.34
339 349 1.142778 GCAAGACCGCGAGCTAAGAG 61.143 60.000 8.23 0.00 0.00 2.85
341 351 1.142778 GAGCAAGACCGCGAGCTAAG 61.143 60.000 8.23 2.03 37.48 2.18
389 451 6.255453 CGAAAAGTTTTGAAAATGAAGCTCCA 59.745 34.615 5.36 0.00 0.00 3.86
423 485 3.706594 GGATGAGTCACATACCAAGGAGA 59.293 47.826 0.00 0.00 39.56 3.71
450 512 7.666623 ACCATTAGAACAAAAACGAATTGGAT 58.333 30.769 0.00 0.00 32.02 3.41
471 533 9.316730 CATTTTTGCAAGCTATGTATAAACCAT 57.683 29.630 0.00 0.00 30.24 3.55
500 562 7.909784 AGTACTCCCTCCATCCCATAATATAT 58.090 38.462 0.00 0.00 0.00 0.86
513 575 5.525454 TGAACTAAGTAGTACTCCCTCCA 57.475 43.478 2.58 0.00 34.99 3.86
583 645 1.868713 TTGAATGCCAGGGATGCAAT 58.131 45.000 10.41 0.00 42.92 3.56
660 726 6.499106 ACCCCTCACAAAAGAAAATTCATT 57.501 33.333 0.00 0.00 0.00 2.57
743 812 2.511600 GCCCCACCATCTCGTTCG 60.512 66.667 0.00 0.00 0.00 3.95
747 816 3.432051 GACTCGCCCCACCATCTCG 62.432 68.421 0.00 0.00 0.00 4.04
844 915 1.866237 GTCGGTTCGATGCAAGCAA 59.134 52.632 0.00 0.00 38.42 3.91
845 916 2.379634 CGTCGGTTCGATGCAAGCA 61.380 57.895 0.00 0.00 38.42 3.91
846 917 2.395690 CGTCGGTTCGATGCAAGC 59.604 61.111 0.00 0.00 38.42 4.01
1204 1498 0.917821 TCGAGGTGGGAGTAGAGGGA 60.918 60.000 0.00 0.00 0.00 4.20
1316 1610 2.105806 GAGGGCGGAGGGCTTGATAG 62.106 65.000 0.00 0.00 42.94 2.08
1447 1741 1.340017 GCTGCAGGTGTTGAGGGATAA 60.340 52.381 17.12 0.00 0.00 1.75
1518 1812 1.269883 TGTTTGATGTAGACGCGGTGT 60.270 47.619 12.47 0.00 0.00 4.16
1866 2160 2.573869 GCACAGCCTCTGAGCGTA 59.426 61.111 0.00 0.00 38.17 4.42
1923 2217 8.848474 AGACAAATTAACACTGCAGTAATAGT 57.152 30.769 21.20 16.54 0.00 2.12
1954 2248 0.037326 TTGGACAGCAGCCTACTTCG 60.037 55.000 0.00 0.00 0.00 3.79
1956 2250 2.224867 ACAATTGGACAGCAGCCTACTT 60.225 45.455 10.83 0.00 0.00 2.24
2036 2330 1.003718 AAGGAACACGTAGCCTGGC 60.004 57.895 11.65 11.65 31.06 4.85
2160 2454 7.552458 AAAACCAAGTTTTCATGGATCAAAC 57.448 32.000 0.00 0.00 41.11 2.93
2180 2474 6.164876 GGAACTACTCTGTCCTTCCTAAAAC 58.835 44.000 0.00 0.00 0.00 2.43
2204 2498 3.572584 GGAGTACAAGTAAGTCACGGTG 58.427 50.000 0.56 0.56 0.00 4.94
2216 2510 0.613853 TGGGACGGAGGGAGTACAAG 60.614 60.000 0.00 0.00 0.00 3.16
2222 2516 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
2223 2517 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
2224 2518 2.026636 TCACTTATTTTGGGACGGAGGG 60.027 50.000 0.00 0.00 0.00 4.30
2227 2521 3.325425 TGAGTCACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 33.84 4.69
2228 2522 3.670625 TGAGTCACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 33.84 4.79
2229 2523 4.755123 AGTTGAGTCACTTATTTTGGGACG 59.245 41.667 0.00 0.00 33.84 4.79
2230 2524 6.635030 AAGTTGAGTCACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
2232 2526 6.805713 ACAAAGTTGAGTCACTTATTTTGGG 58.194 36.000 12.94 0.00 35.87 4.12
2233 2527 8.621286 AGTACAAAGTTGAGTCACTTATTTTGG 58.379 33.333 12.94 0.78 35.87 3.28
2239 2533 9.880157 AAAGTTAGTACAAAGTTGAGTCACTTA 57.120 29.630 0.00 0.00 35.87 2.24
2240 2534 8.788325 AAAGTTAGTACAAAGTTGAGTCACTT 57.212 30.769 0.00 0.00 38.74 3.16
2241 2535 9.880157 TTAAAGTTAGTACAAAGTTGAGTCACT 57.120 29.630 0.00 0.00 0.00 3.41
2243 2537 9.321562 CCTTAAAGTTAGTACAAAGTTGAGTCA 57.678 33.333 0.00 0.00 0.00 3.41
2244 2538 8.771766 CCCTTAAAGTTAGTACAAAGTTGAGTC 58.228 37.037 0.00 0.00 0.00 3.36
2245 2539 7.718314 CCCCTTAAAGTTAGTACAAAGTTGAGT 59.282 37.037 0.00 0.00 0.00 3.41
2246 2540 7.718314 ACCCCTTAAAGTTAGTACAAAGTTGAG 59.282 37.037 0.00 0.00 0.00 3.02
2247 2541 7.576403 ACCCCTTAAAGTTAGTACAAAGTTGA 58.424 34.615 0.00 0.00 0.00 3.18
2248 2542 7.812690 ACCCCTTAAAGTTAGTACAAAGTTG 57.187 36.000 0.00 0.00 0.00 3.16
2260 2554 9.650714 AACTTCAAAGTATTACCCCTTAAAGTT 57.349 29.630 0.00 0.00 38.57 2.66
2264 2558 9.729281 CTGTAACTTCAAAGTATTACCCCTTAA 57.271 33.333 0.00 0.00 38.57 1.85
2265 2559 8.883302 ACTGTAACTTCAAAGTATTACCCCTTA 58.117 33.333 0.00 0.00 38.57 2.69
2266 2560 7.752638 ACTGTAACTTCAAAGTATTACCCCTT 58.247 34.615 0.00 0.00 38.57 3.95
2267 2561 7.325725 ACTGTAACTTCAAAGTATTACCCCT 57.674 36.000 0.00 0.00 38.57 4.79
2296 2590 9.681062 ACCATACAAAGCATTACAAGTAAGTAT 57.319 29.630 0.00 0.00 0.00 2.12
2311 2605 5.002464 AGAATCAATGCACCATACAAAGC 57.998 39.130 0.00 0.00 0.00 3.51
2451 2905 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
2452 2906 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
2453 2907 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
2454 2908 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
2455 2909 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
2456 2910 1.205417 GGACAAGTATTTCCGGACGGA 59.795 52.381 1.83 9.76 43.52 4.69
2457 2911 1.206371 AGGACAAGTATTTCCGGACGG 59.794 52.381 1.83 3.96 36.95 4.79
2458 2912 2.537401 GAGGACAAGTATTTCCGGACG 58.463 52.381 1.83 0.00 36.95 4.79
2459 2913 2.165030 TCGAGGACAAGTATTTCCGGAC 59.835 50.000 1.83 0.00 36.95 4.79
2460 2914 2.449464 TCGAGGACAAGTATTTCCGGA 58.551 47.619 0.00 0.00 36.95 5.14
2461 2915 2.953466 TCGAGGACAAGTATTTCCGG 57.047 50.000 0.00 0.00 36.95 5.14
2462 2916 4.034048 CCAATTCGAGGACAAGTATTTCCG 59.966 45.833 0.00 0.00 36.95 4.30
2463 2917 5.183228 TCCAATTCGAGGACAAGTATTTCC 58.817 41.667 0.00 0.00 0.00 3.13
2464 2918 6.927294 ATCCAATTCGAGGACAAGTATTTC 57.073 37.500 0.00 0.00 38.13 2.17
2465 2919 8.801882 TTTATCCAATTCGAGGACAAGTATTT 57.198 30.769 0.00 0.00 38.13 1.40
2466 2920 8.801882 TTTTATCCAATTCGAGGACAAGTATT 57.198 30.769 0.00 0.00 38.13 1.89
2467 2921 8.840321 CATTTTATCCAATTCGAGGACAAGTAT 58.160 33.333 0.00 0.00 38.13 2.12
2468 2922 7.282224 CCATTTTATCCAATTCGAGGACAAGTA 59.718 37.037 0.00 0.00 38.13 2.24
2469 2923 6.095440 CCATTTTATCCAATTCGAGGACAAGT 59.905 38.462 0.00 0.00 38.13 3.16
2470 2924 6.318648 TCCATTTTATCCAATTCGAGGACAAG 59.681 38.462 0.00 0.00 38.13 3.16
2471 2925 6.184068 TCCATTTTATCCAATTCGAGGACAA 58.816 36.000 0.00 0.00 38.13 3.18
2472 2926 5.750524 TCCATTTTATCCAATTCGAGGACA 58.249 37.500 0.00 0.00 38.13 4.02
2473 2927 6.263168 ACATCCATTTTATCCAATTCGAGGAC 59.737 38.462 0.00 0.00 38.13 3.85
2474 2928 6.364701 ACATCCATTTTATCCAATTCGAGGA 58.635 36.000 0.00 0.00 39.97 3.71
2475 2929 6.639632 ACATCCATTTTATCCAATTCGAGG 57.360 37.500 0.00 0.00 0.00 4.63
2476 2930 9.224267 AGATACATCCATTTTATCCAATTCGAG 57.776 33.333 0.00 0.00 0.00 4.04
2512 2966 9.838339 CCTCAAAATGGTTGTATCTAGACTTAT 57.162 33.333 0.00 0.00 0.00 1.73
2513 2967 9.042450 TCCTCAAAATGGTTGTATCTAGACTTA 57.958 33.333 0.00 0.00 0.00 2.24
2514 2968 7.824779 GTCCTCAAAATGGTTGTATCTAGACTT 59.175 37.037 0.00 0.00 0.00 3.01
2515 2969 7.038302 TGTCCTCAAAATGGTTGTATCTAGACT 60.038 37.037 0.00 0.00 0.00 3.24
2516 2970 7.103641 TGTCCTCAAAATGGTTGTATCTAGAC 58.896 38.462 0.00 0.00 0.00 2.59
2517 2971 7.252612 TGTCCTCAAAATGGTTGTATCTAGA 57.747 36.000 0.00 0.00 0.00 2.43
2518 2972 7.607991 ACTTGTCCTCAAAATGGTTGTATCTAG 59.392 37.037 0.00 0.00 32.87 2.43
2519 2973 7.458397 ACTTGTCCTCAAAATGGTTGTATCTA 58.542 34.615 0.00 0.00 32.87 1.98
2520 2974 6.306987 ACTTGTCCTCAAAATGGTTGTATCT 58.693 36.000 0.00 0.00 32.87 1.98
2521 2975 6.575162 ACTTGTCCTCAAAATGGTTGTATC 57.425 37.500 0.00 0.00 32.87 2.24
2522 2976 8.650143 AATACTTGTCCTCAAAATGGTTGTAT 57.350 30.769 0.00 0.00 32.87 2.29
2523 2977 8.472007 AAATACTTGTCCTCAAAATGGTTGTA 57.528 30.769 0.00 0.00 32.87 2.41
2524 2978 6.976934 AATACTTGTCCTCAAAATGGTTGT 57.023 33.333 0.00 0.00 32.87 3.32
2525 2979 6.868339 GGAAATACTTGTCCTCAAAATGGTTG 59.132 38.462 0.00 0.00 32.87 3.77
2526 2980 6.294508 CGGAAATACTTGTCCTCAAAATGGTT 60.295 38.462 0.00 0.00 32.87 3.67
2527 2981 5.183140 CGGAAATACTTGTCCTCAAAATGGT 59.817 40.000 0.00 0.00 32.87 3.55
2528 2982 5.393027 CCGGAAATACTTGTCCTCAAAATGG 60.393 44.000 0.00 0.00 32.87 3.16
2529 2983 5.414454 TCCGGAAATACTTGTCCTCAAAATG 59.586 40.000 0.00 0.00 32.87 2.32
2530 2984 5.414765 GTCCGGAAATACTTGTCCTCAAAAT 59.585 40.000 5.23 0.00 32.87 1.82
2531 2985 4.758165 GTCCGGAAATACTTGTCCTCAAAA 59.242 41.667 5.23 0.00 32.87 2.44
2532 2986 4.320870 GTCCGGAAATACTTGTCCTCAAA 58.679 43.478 5.23 0.00 32.87 2.69
2533 2987 3.615592 CGTCCGGAAATACTTGTCCTCAA 60.616 47.826 5.23 0.00 0.00 3.02
2534 2988 2.094390 CGTCCGGAAATACTTGTCCTCA 60.094 50.000 5.23 0.00 0.00 3.86
2535 2989 2.537401 CGTCCGGAAATACTTGTCCTC 58.463 52.381 5.23 0.00 0.00 3.71
2536 2990 1.206371 CCGTCCGGAAATACTTGTCCT 59.794 52.381 5.23 0.00 37.50 3.85
2537 2991 1.205417 TCCGTCCGGAAATACTTGTCC 59.795 52.381 5.23 0.00 42.05 4.02
2538 2992 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
2539 2993 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
2540 2994 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
2541 2995 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
2542 2996 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
2543 2997 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
2544 2998 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
2545 2999 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
2546 3000 0.682209 CTACTCCCTCCGTCCGGAAA 60.682 60.000 5.23 0.00 44.66 3.13
2547 3001 1.077212 CTACTCCCTCCGTCCGGAA 60.077 63.158 5.23 0.00 44.66 4.30
2548 3002 1.856539 AACTACTCCCTCCGTCCGGA 61.857 60.000 0.00 0.00 42.90 5.14
2549 3003 1.379576 AACTACTCCCTCCGTCCGG 60.380 63.158 0.00 0.00 0.00 5.14
2550 3004 0.964358 ACAACTACTCCCTCCGTCCG 60.964 60.000 0.00 0.00 0.00 4.79
2551 3005 1.264295 AACAACTACTCCCTCCGTCC 58.736 55.000 0.00 0.00 0.00 4.79
2552 3006 2.298163 TCAAACAACTACTCCCTCCGTC 59.702 50.000 0.00 0.00 0.00 4.79
2553 3007 2.299297 CTCAAACAACTACTCCCTCCGT 59.701 50.000 0.00 0.00 0.00 4.69
2554 3008 2.299297 ACTCAAACAACTACTCCCTCCG 59.701 50.000 0.00 0.00 0.00 4.63
2555 3009 3.323979 TGACTCAAACAACTACTCCCTCC 59.676 47.826 0.00 0.00 0.00 4.30
2556 3010 4.281182 TCTGACTCAAACAACTACTCCCTC 59.719 45.833 0.00 0.00 0.00 4.30
2557 3011 4.223953 TCTGACTCAAACAACTACTCCCT 58.776 43.478 0.00 0.00 0.00 4.20
2558 3012 4.602340 TCTGACTCAAACAACTACTCCC 57.398 45.455 0.00 0.00 0.00 4.30
2559 3013 5.357257 TGTTCTGACTCAAACAACTACTCC 58.643 41.667 5.03 0.00 32.69 3.85
2560 3014 8.488764 GTTATGTTCTGACTCAAACAACTACTC 58.511 37.037 9.43 0.00 38.74 2.59
2561 3015 7.985184 TGTTATGTTCTGACTCAAACAACTACT 59.015 33.333 9.43 0.18 38.74 2.57
2562 3016 8.138365 TGTTATGTTCTGACTCAAACAACTAC 57.862 34.615 9.43 8.64 38.74 2.73
2563 3017 8.725405 TTGTTATGTTCTGACTCAAACAACTA 57.275 30.769 9.43 2.52 38.74 2.24
2564 3018 7.336931 ACTTGTTATGTTCTGACTCAAACAACT 59.663 33.333 9.43 1.14 38.74 3.16
2626 3080 1.202794 GGTTAGACCCAAACCCACGAA 60.203 52.381 0.00 0.00 40.49 3.85
2627 3081 0.397564 GGTTAGACCCAAACCCACGA 59.602 55.000 0.00 0.00 40.49 4.35
2765 3219 6.222389 CCTTCAAATGTAATTGGCAACTTCA 58.778 36.000 0.00 0.00 36.10 3.02
2815 3269 3.181516 GCTTCTGATTCACGCGAGAAATT 60.182 43.478 22.33 7.58 0.00 1.82
2916 3370 5.874093 ACATCTCTCAATGAACTGAAACCT 58.126 37.500 0.00 0.00 0.00 3.50
3338 3810 6.318900 AGTCAAGGACAAAAGTTCTACCAAAG 59.681 38.462 0.00 0.00 34.60 2.77
3496 3974 6.093495 CCTGTTCTTGTCTTGTGAAAACTACA 59.907 38.462 0.00 0.00 0.00 2.74
3497 3975 6.315393 TCCTGTTCTTGTCTTGTGAAAACTAC 59.685 38.462 0.00 0.00 0.00 2.73
3501 3979 5.496556 TCTCCTGTTCTTGTCTTGTGAAAA 58.503 37.500 0.00 0.00 0.00 2.29
3504 3982 4.344968 TCATCTCCTGTTCTTGTCTTGTGA 59.655 41.667 0.00 0.00 0.00 3.58
3506 3984 4.346418 ACTCATCTCCTGTTCTTGTCTTGT 59.654 41.667 0.00 0.00 0.00 3.16
3507 3985 4.892433 ACTCATCTCCTGTTCTTGTCTTG 58.108 43.478 0.00 0.00 0.00 3.02
3508 3986 5.559148 AACTCATCTCCTGTTCTTGTCTT 57.441 39.130 0.00 0.00 0.00 3.01
3509 3987 5.559148 AAACTCATCTCCTGTTCTTGTCT 57.441 39.130 0.00 0.00 0.00 3.41
3510 3988 6.931840 AGTAAAACTCATCTCCTGTTCTTGTC 59.068 38.462 0.00 0.00 0.00 3.18
3677 4385 8.454106 GCTAAATCTTCACAGTAATCACAACAT 58.546 33.333 0.00 0.00 0.00 2.71
3681 4389 9.317936 CTATGCTAAATCTTCACAGTAATCACA 57.682 33.333 0.00 0.00 0.00 3.58
3756 4464 5.715279 ACACCTAGCATAGACAGTTTACTCA 59.285 40.000 0.00 0.00 42.77 3.41
3941 4651 4.016479 TGGGGCCTAAATGGGTTTACATAA 60.016 41.667 0.84 0.00 36.00 1.90
3990 4700 5.317262 TCTCCCTCCCTCTCTCAATACATAT 59.683 44.000 0.00 0.00 0.00 1.78
4010 4725 2.237392 ACAATGCACCTAAGGTCTCTCC 59.763 50.000 0.00 0.00 31.02 3.71
4143 4861 5.769367 TCTATCATTACTGGCGATGTGTAC 58.231 41.667 0.00 0.00 0.00 2.90
4152 4870 3.764434 TCCTCCGATCTATCATTACTGGC 59.236 47.826 0.00 0.00 0.00 4.85
4163 4881 5.614324 AACAATGAACATCCTCCGATCTA 57.386 39.130 0.00 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.