Multiple sequence alignment - TraesCS7A01G264900

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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 TraesCS7A01G264900 chr7A 100.000 5331 0 0 1 5331 264850274 264844944 0.000000e+00 9845.0
1 TraesCS7A01G264900 chr7A 94.915 118 6 0 2345 2462 619039662 619039545 9.120000e-43 185.0
2 TraesCS7A01G264900 chr7A 78.333 120 24 2 4799 4917 12469463 12469581 5.730000e-10 76.8
3 TraesCS7A01G264900 chr7B 97.503 2363 43 4 1 2348 223716077 223713716 0.000000e+00 4023.0
4 TraesCS7A01G264900 chr7B 94.338 1148 37 13 2451 3597 223713718 223712598 0.000000e+00 1735.0
5 TraesCS7A01G264900 chr7B 93.852 862 42 3 3651 4509 223712579 223711726 0.000000e+00 1288.0
6 TraesCS7A01G264900 chr7B 83.107 811 80 22 4551 5331 223702870 223702087 0.000000e+00 686.0
7 TraesCS7A01G264900 chr7B 95.192 416 17 1 2451 2866 606360635 606361047 0.000000e+00 654.0
8 TraesCS7A01G264900 chr7B 88.360 378 16 9 1973 2348 621336696 621337047 3.810000e-116 429.0
9 TraesCS7A01G264900 chr7B 86.702 376 26 11 1973 2348 606360286 606360637 3.870000e-106 396.0
10 TraesCS7A01G264900 chr7D 98.704 2160 28 0 189 2348 247317092 247314933 0.000000e+00 3834.0
11 TraesCS7A01G264900 chr7D 95.120 2295 66 26 2451 4724 247314935 247312666 0.000000e+00 3576.0
12 TraesCS7A01G264900 chr7D 96.129 155 6 0 1 155 247317244 247317090 2.460000e-63 254.0
13 TraesCS7A01G264900 chr7D 75.983 458 85 13 4888 5331 433782002 433782448 4.180000e-51 213.0
14 TraesCS7A01G264900 chr6B 94.952 416 21 0 2451 2866 560659563 560659978 0.000000e+00 652.0
15 TraesCS7A01G264900 chr6B 94.631 298 14 2 2569 2866 560638765 560639060 1.350000e-125 460.0
16 TraesCS7A01G264900 chr6B 86.436 376 27 11 1973 2348 560636568 560636919 1.800000e-104 390.0
17 TraesCS7A01G264900 chr6B 86.436 376 27 11 1973 2348 560659214 560659565 1.800000e-104 390.0
18 TraesCS7A01G264900 chr6B 76.709 395 67 9 4959 5331 225351485 225351094 4.210000e-46 196.0
19 TraesCS7A01G264900 chr6B 95.918 98 4 0 2771 2868 330958553 330958650 5.530000e-35 159.0
20 TraesCS7A01G264900 chr3B 93.990 416 24 1 2451 2866 510795726 510795312 3.500000e-176 628.0
21 TraesCS7A01G264900 chr3B 87.234 376 24 11 1973 2348 733428184 733427833 1.790000e-109 407.0
22 TraesCS7A01G264900 chr3B 86.968 376 25 11 1973 2348 510796075 510795724 8.320000e-108 401.0
23 TraesCS7A01G264900 chr3B 76.256 438 90 12 4896 5324 706915038 706915470 2.500000e-53 220.0
24 TraesCS7A01G264900 chr3B 96.552 116 3 1 2346 2460 454671489 454671374 1.960000e-44 191.0
25 TraesCS7A01G264900 chr3B 95.726 117 4 1 2345 2461 70582105 70582220 2.540000e-43 187.0
26 TraesCS7A01G264900 chr3A 89.474 418 20 6 2451 2868 575759726 575760119 1.710000e-139 507.0
27 TraesCS7A01G264900 chr2A 89.234 418 21 6 2451 2868 746820205 746819812 7.970000e-138 501.0
28 TraesCS7A01G264900 chr2A 86.702 376 26 11 1973 2348 676167847 676167496 3.870000e-106 396.0
29 TraesCS7A01G264900 chr2A 81.081 148 20 5 4800 4941 74046459 74046604 1.570000e-20 111.0
30 TraesCS7A01G264900 chr4A 93.811 307 19 0 2451 2757 730752411 730752105 3.760000e-126 462.0
31 TraesCS7A01G264900 chr4A 87.566 378 19 9 1973 2348 730752760 730752409 3.840000e-111 412.0
32 TraesCS7A01G264900 chr4A 75.404 557 109 20 4799 5330 175492804 175492251 1.480000e-60 244.0
33 TraesCS7A01G264900 chr4A 96.875 128 4 0 2741 2868 730752087 730751960 1.160000e-51 215.0
34 TraesCS7A01G264900 chr4A 97.345 113 3 0 2345 2457 550136494 550136382 5.450000e-45 193.0
35 TraesCS7A01G264900 chr4A 93.496 123 8 0 2335 2457 728715351 728715473 3.280000e-42 183.0
36 TraesCS7A01G264900 chr5A 86.243 378 26 13 1973 2348 324689097 324689450 2.330000e-103 387.0
37 TraesCS7A01G264900 chr5A 98.182 110 2 0 2346 2455 488034727 488034836 5.450000e-45 193.0
38 TraesCS7A01G264900 chr1B 79.396 563 84 18 4799 5331 564737146 564737706 8.430000e-98 368.0
39 TraesCS7A01G264900 chr1B 75.135 555 113 15 4799 5331 302007081 302006530 2.480000e-58 237.0
40 TraesCS7A01G264900 chr1B 75.368 544 106 19 4810 5331 638798831 638799368 2.480000e-58 237.0
41 TraesCS7A01G264900 chr6D 77.936 562 94 18 4797 5331 361544957 361545515 1.850000e-84 324.0
42 TraesCS7A01G264900 chr1D 77.858 551 101 13 4799 5331 417949796 417950343 6.660000e-84 322.0
43 TraesCS7A01G264900 chr4B 84.494 316 43 4 4794 5105 378749646 378749959 1.860000e-79 307.0
44 TraesCS7A01G264900 chr4B 84.345 313 41 5 4794 5102 378747119 378747427 3.120000e-77 300.0
45 TraesCS7A01G264900 chr4B 82.955 176 29 1 5156 5331 72658458 72658632 1.990000e-34 158.0
46 TraesCS7A01G264900 chr2D 78.636 440 68 18 4913 5331 641493537 641493971 8.800000e-68 268.0
47 TraesCS7A01G264900 chr2D 77.953 127 19 7 5210 5331 535243402 535243280 2.660000e-08 71.3
48 TraesCS7A01G264900 chr1A 96.552 116 3 1 2338 2453 449509995 449510109 1.960000e-44 191.0
49 TraesCS7A01G264900 chr1A 95.726 117 5 0 2346 2462 134973595 134973479 7.050000e-44 189.0
50 TraesCS7A01G264900 chr3D 95.000 120 4 1 2343 2460 431450773 431450654 2.540000e-43 187.0
51 TraesCS7A01G264900 chr3D 75.481 208 42 7 4888 5092 14394369 14394570 5.680000e-15 93.5
52 TraesCS7A01G264900 chr5D 73.936 376 76 18 4963 5331 327117385 327117745 1.200000e-26 132.0
53 TraesCS7A01G264900 chr4D 73.196 388 76 21 4952 5331 62305917 62306284 1.210000e-21 115.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G264900 chr7A 264844944 264850274 5330 True 9845.000000 9845 100.000000 1 5331 1 chr7A.!!$R1 5330
1 TraesCS7A01G264900 chr7B 223711726 223716077 4351 True 2348.666667 4023 95.231000 1 4509 3 chr7B.!!$R2 4508
2 TraesCS7A01G264900 chr7B 223702087 223702870 783 True 686.000000 686 83.107000 4551 5331 1 chr7B.!!$R1 780
3 TraesCS7A01G264900 chr7B 606360286 606361047 761 False 525.000000 654 90.947000 1973 2866 2 chr7B.!!$F2 893
4 TraesCS7A01G264900 chr7D 247312666 247317244 4578 True 2554.666667 3834 96.651000 1 4724 3 chr7D.!!$R1 4723
5 TraesCS7A01G264900 chr6B 560659214 560659978 764 False 521.000000 652 90.694000 1973 2866 2 chr6B.!!$F3 893
6 TraesCS7A01G264900 chr6B 560636568 560639060 2492 False 425.000000 460 90.533500 1973 2866 2 chr6B.!!$F2 893
7 TraesCS7A01G264900 chr3B 510795312 510796075 763 True 514.500000 628 90.479000 1973 2866 2 chr3B.!!$R3 893
8 TraesCS7A01G264900 chr4A 730751960 730752760 800 True 363.000000 462 92.750667 1973 2868 3 chr4A.!!$R3 895
9 TraesCS7A01G264900 chr4A 175492251 175492804 553 True 244.000000 244 75.404000 4799 5330 1 chr4A.!!$R1 531
10 TraesCS7A01G264900 chr1B 564737146 564737706 560 False 368.000000 368 79.396000 4799 5331 1 chr1B.!!$F1 532
11 TraesCS7A01G264900 chr1B 302006530 302007081 551 True 237.000000 237 75.135000 4799 5331 1 chr1B.!!$R1 532
12 TraesCS7A01G264900 chr1B 638798831 638799368 537 False 237.000000 237 75.368000 4810 5331 1 chr1B.!!$F2 521
13 TraesCS7A01G264900 chr6D 361544957 361545515 558 False 324.000000 324 77.936000 4797 5331 1 chr6D.!!$F1 534
14 TraesCS7A01G264900 chr1D 417949796 417950343 547 False 322.000000 322 77.858000 4799 5331 1 chr1D.!!$F1 532
15 TraesCS7A01G264900 chr4B 378747119 378749959 2840 False 303.500000 307 84.419500 4794 5105 2 chr4B.!!$F2 311

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
27 28 0.104855 CAGCTAATCCTGGCTACGCA 59.895 55.000 0.00 0.00 37.25 5.24 F
796 813 0.539669 TGTCCTTCGCTCACTCTCCA 60.540 55.000 0.00 0.00 0.00 3.86 F
1929 1946 1.105759 GCATGGTTGATCTCCTGGGC 61.106 60.000 0.00 6.17 0.00 5.36 F
2360 2379 1.000496 GCTAATACTCCCTCCGTTCGG 60.000 57.143 4.74 4.74 0.00 4.30 F
3409 5190 1.081174 TCCCCTGATTGTTCCTCCTCT 59.919 52.381 0.00 0.00 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1329 1346 0.674581 CCCTGCGAGCATCTTCAACA 60.675 55.000 0.00 0.00 0.00 3.33 R
2348 2367 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20 R
3737 5526 1.197721 GACACAACCAGCCTGAAATCG 59.802 52.381 0.00 0.00 0.00 3.34 R
3986 5775 2.028112 TCCAAGAAAGAGATGGTGTCGG 60.028 50.000 0.00 0.00 35.66 4.79 R
4844 6664 0.113776 TGAACTAGTCCCCTGTCCGT 59.886 55.000 0.00 0.00 0.00 4.69 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
27 28 0.104855 CAGCTAATCCTGGCTACGCA 59.895 55.000 0.00 0.00 37.25 5.24
80 82 2.027561 AGAAATCGAATCCCCACACGAA 60.028 45.455 0.00 0.00 38.22 3.85
86 88 1.721093 AATCCCCACACGAAACCCCA 61.721 55.000 0.00 0.00 0.00 4.96
89 91 1.074072 CCCACACGAAACCCCATGA 59.926 57.895 0.00 0.00 0.00 3.07
96 98 1.087771 CGAAACCCCATGACCGTAGC 61.088 60.000 0.00 0.00 0.00 3.58
231 233 1.268386 CGGCATGATCTGTTGTGCATC 60.268 52.381 0.00 0.00 39.27 3.91
398 415 6.012658 TCCATTCTCTGTGTGCAAAAATAC 57.987 37.500 0.00 0.00 0.00 1.89
437 454 6.555463 ATTGCTGATGGAAATGGAGAATTT 57.445 33.333 0.00 0.00 41.33 1.82
645 662 2.166664 GACACGCTCCTTCTCCATTACT 59.833 50.000 0.00 0.00 0.00 2.24
796 813 0.539669 TGTCCTTCGCTCACTCTCCA 60.540 55.000 0.00 0.00 0.00 3.86
842 859 2.859404 TCTCATTCCTCTCCCTACTCCA 59.141 50.000 0.00 0.00 0.00 3.86
1329 1346 1.993956 TGTATGCAAAGTGTGGGCTT 58.006 45.000 0.00 0.00 0.00 4.35
1638 1655 7.867921 TGTACTCAAAGTGTGGGGATATAAAT 58.132 34.615 0.00 0.00 28.49 1.40
1716 1733 1.849977 TGATAATGGGCTTTGCTGCA 58.150 45.000 0.00 0.00 34.04 4.41
1929 1946 1.105759 GCATGGTTGATCTCCTGGGC 61.106 60.000 0.00 6.17 0.00 5.36
2127 2146 7.149973 ACGTTTTACTTTCTACTGTCTATGCA 58.850 34.615 0.00 0.00 0.00 3.96
2295 2314 9.155975 ACTGAAGCTATATACAACACTCTTTTG 57.844 33.333 0.00 0.00 0.00 2.44
2298 2317 7.195374 AGCTATATACAACACTCTTTTGGGA 57.805 36.000 0.00 0.00 0.00 4.37
2348 2367 6.156949 TCCTTCCTGATGTGAAAGCTAATACT 59.843 38.462 0.00 0.00 0.00 2.12
2349 2368 6.481644 CCTTCCTGATGTGAAAGCTAATACTC 59.518 42.308 0.00 0.00 0.00 2.59
2350 2369 5.918608 TCCTGATGTGAAAGCTAATACTCC 58.081 41.667 0.00 0.00 0.00 3.85
2351 2370 5.059833 CCTGATGTGAAAGCTAATACTCCC 58.940 45.833 0.00 0.00 0.00 4.30
2352 2371 5.163258 CCTGATGTGAAAGCTAATACTCCCT 60.163 44.000 0.00 0.00 0.00 4.20
2353 2372 5.918608 TGATGTGAAAGCTAATACTCCCTC 58.081 41.667 0.00 0.00 0.00 4.30
2354 2373 4.755266 TGTGAAAGCTAATACTCCCTCC 57.245 45.455 0.00 0.00 0.00 4.30
2355 2374 3.132289 TGTGAAAGCTAATACTCCCTCCG 59.868 47.826 0.00 0.00 0.00 4.63
2356 2375 3.132467 GTGAAAGCTAATACTCCCTCCGT 59.868 47.826 0.00 0.00 0.00 4.69
2357 2376 3.773119 TGAAAGCTAATACTCCCTCCGTT 59.227 43.478 0.00 0.00 0.00 4.44
2358 2377 4.142004 TGAAAGCTAATACTCCCTCCGTTC 60.142 45.833 0.00 0.00 0.00 3.95
2359 2378 1.955080 AGCTAATACTCCCTCCGTTCG 59.045 52.381 0.00 0.00 0.00 3.95
2360 2379 1.000496 GCTAATACTCCCTCCGTTCGG 60.000 57.143 4.74 4.74 0.00 4.30
2361 2380 2.579873 CTAATACTCCCTCCGTTCGGA 58.420 52.381 13.34 13.34 0.00 4.55
2362 2381 1.856629 AATACTCCCTCCGTTCGGAA 58.143 50.000 14.79 0.00 33.41 4.30
2363 2382 2.083628 ATACTCCCTCCGTTCGGAAT 57.916 50.000 14.79 2.14 33.41 3.01
2364 2383 1.856629 TACTCCCTCCGTTCGGAATT 58.143 50.000 14.79 0.00 33.41 2.17
2365 2384 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
2366 2385 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
2367 2386 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
2368 2387 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
2369 2388 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
2370 2389 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
2371 2390 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
2372 2391 3.368116 CCTCCGTTCGGAATTACTTGTCT 60.368 47.826 14.79 0.00 33.41 3.41
2373 2392 3.841643 TCCGTTCGGAATTACTTGTCTC 58.158 45.455 11.66 0.00 0.00 3.36
2374 2393 2.597305 CCGTTCGGAATTACTTGTCTCG 59.403 50.000 5.19 0.00 0.00 4.04
2375 2394 2.597305 CGTTCGGAATTACTTGTCTCGG 59.403 50.000 0.00 0.00 0.00 4.63
2376 2395 3.671433 CGTTCGGAATTACTTGTCTCGGA 60.671 47.826 0.00 0.00 0.00 4.55
2377 2396 4.430908 GTTCGGAATTACTTGTCTCGGAT 58.569 43.478 0.00 0.00 0.00 4.18
2378 2397 5.585390 GTTCGGAATTACTTGTCTCGGATA 58.415 41.667 0.00 0.00 0.00 2.59
2379 2398 6.214399 GTTCGGAATTACTTGTCTCGGATAT 58.786 40.000 0.00 0.00 0.00 1.63
2380 2399 5.769367 TCGGAATTACTTGTCTCGGATATG 58.231 41.667 0.00 0.00 0.00 1.78
2381 2400 4.923871 CGGAATTACTTGTCTCGGATATGG 59.076 45.833 0.00 0.00 0.00 2.74
2382 2401 5.278808 CGGAATTACTTGTCTCGGATATGGA 60.279 44.000 0.00 0.00 0.00 3.41
2383 2402 6.572509 CGGAATTACTTGTCTCGGATATGGAT 60.573 42.308 0.00 0.00 0.00 3.41
2384 2403 6.591834 GGAATTACTTGTCTCGGATATGGATG 59.408 42.308 0.00 0.00 0.00 3.51
2385 2404 6.672266 ATTACTTGTCTCGGATATGGATGT 57.328 37.500 0.00 0.00 0.00 3.06
2386 2405 7.776618 ATTACTTGTCTCGGATATGGATGTA 57.223 36.000 0.00 0.00 0.00 2.29
2387 2406 7.776618 TTACTTGTCTCGGATATGGATGTAT 57.223 36.000 0.00 0.00 0.00 2.29
2388 2407 6.274157 ACTTGTCTCGGATATGGATGTATC 57.726 41.667 0.00 0.00 0.00 2.24
2389 2408 6.013379 ACTTGTCTCGGATATGGATGTATCT 58.987 40.000 0.00 0.00 32.78 1.98
2390 2409 7.175797 ACTTGTCTCGGATATGGATGTATCTA 58.824 38.462 0.00 0.00 32.78 1.98
2391 2410 7.338196 ACTTGTCTCGGATATGGATGTATCTAG 59.662 40.741 0.00 0.00 32.78 2.43
2392 2411 6.958767 TGTCTCGGATATGGATGTATCTAGA 58.041 40.000 0.00 0.00 32.78 2.43
2393 2412 7.402862 TGTCTCGGATATGGATGTATCTAGAA 58.597 38.462 0.00 0.00 31.35 2.10
2394 2413 7.337184 TGTCTCGGATATGGATGTATCTAGAAC 59.663 40.741 0.00 0.00 31.35 3.01
2395 2414 7.554835 GTCTCGGATATGGATGTATCTAGAACT 59.445 40.741 0.00 0.00 31.35 3.01
2396 2415 8.769359 TCTCGGATATGGATGTATCTAGAACTA 58.231 37.037 0.00 0.00 32.78 2.24
2397 2416 9.397280 CTCGGATATGGATGTATCTAGAACTAA 57.603 37.037 0.00 0.00 32.78 2.24
2398 2417 9.749340 TCGGATATGGATGTATCTAGAACTAAA 57.251 33.333 0.00 0.00 32.78 1.85
2424 2443 9.664332 AATATGTCTAGATACATCCATTTCTGC 57.336 33.333 0.00 0.00 40.52 4.26
2425 2444 5.532557 TGTCTAGATACATCCATTTCTGCG 58.467 41.667 0.00 0.00 0.00 5.18
2426 2445 5.301805 TGTCTAGATACATCCATTTCTGCGA 59.698 40.000 0.00 0.00 0.00 5.10
2427 2446 5.631512 GTCTAGATACATCCATTTCTGCGAC 59.368 44.000 0.00 0.00 0.00 5.19
2428 2447 4.406648 AGATACATCCATTTCTGCGACA 57.593 40.909 0.00 0.00 0.00 4.35
2429 2448 4.769688 AGATACATCCATTTCTGCGACAA 58.230 39.130 0.00 0.00 0.00 3.18
2430 2449 4.813161 AGATACATCCATTTCTGCGACAAG 59.187 41.667 0.00 0.00 0.00 3.16
2431 2450 2.783135 ACATCCATTTCTGCGACAAGT 58.217 42.857 0.00 0.00 0.00 3.16
2432 2451 3.937814 ACATCCATTTCTGCGACAAGTA 58.062 40.909 0.00 0.00 0.00 2.24
2433 2452 4.323417 ACATCCATTTCTGCGACAAGTAA 58.677 39.130 0.00 0.00 0.00 2.24
2434 2453 4.943705 ACATCCATTTCTGCGACAAGTAAT 59.056 37.500 0.00 0.00 0.00 1.89
2435 2454 5.415701 ACATCCATTTCTGCGACAAGTAATT 59.584 36.000 0.00 0.00 0.00 1.40
2436 2455 5.545658 TCCATTTCTGCGACAAGTAATTC 57.454 39.130 0.00 0.00 0.00 2.17
2437 2456 4.394920 TCCATTTCTGCGACAAGTAATTCC 59.605 41.667 0.00 0.00 0.00 3.01
2438 2457 4.334443 CATTTCTGCGACAAGTAATTCCG 58.666 43.478 0.00 0.00 0.00 4.30
2439 2458 3.306917 TTCTGCGACAAGTAATTCCGA 57.693 42.857 0.00 0.00 0.00 4.55
2440 2459 3.306917 TCTGCGACAAGTAATTCCGAA 57.693 42.857 0.00 0.00 0.00 4.30
2441 2460 3.857052 TCTGCGACAAGTAATTCCGAAT 58.143 40.909 0.00 0.00 0.00 3.34
2442 2461 3.616821 TCTGCGACAAGTAATTCCGAATG 59.383 43.478 0.00 0.00 0.00 2.67
2443 2462 2.675844 TGCGACAAGTAATTCCGAATGG 59.324 45.455 0.00 0.00 0.00 3.16
2444 2463 2.933906 GCGACAAGTAATTCCGAATGGA 59.066 45.455 0.00 0.00 44.61 3.41
2701 4448 4.287585 AGGTAATACCCACAGTTGTTGCTA 59.712 41.667 5.71 0.00 39.75 3.49
3000 4781 3.873952 GGGTAAAGTGCTGATGATGAGTC 59.126 47.826 0.00 0.00 0.00 3.36
3056 4837 7.208777 TGTTTGAATAGTTGCACATTGTCATT 58.791 30.769 0.00 0.00 0.00 2.57
3116 4897 5.978919 TGCACAAGTGATTGTTGAATTTCTC 59.021 36.000 4.04 0.00 31.86 2.87
3294 5075 5.860941 TGAGAGGAGAAGGTACATGAATC 57.139 43.478 0.00 0.00 0.00 2.52
3409 5190 1.081174 TCCCCTGATTGTTCCTCCTCT 59.919 52.381 0.00 0.00 0.00 3.69
3639 5421 2.869801 GTTTGGTTGGGCTTTTACTTGC 59.130 45.455 0.00 0.00 0.00 4.01
3640 5422 2.080654 TGGTTGGGCTTTTACTTGCT 57.919 45.000 0.00 0.00 0.00 3.91
3641 5423 2.393646 TGGTTGGGCTTTTACTTGCTT 58.606 42.857 0.00 0.00 0.00 3.91
3687 5475 1.335810 TGCTTCAAGCTTCAGCAACAG 59.664 47.619 22.25 0.00 42.97 3.16
3737 5526 8.107564 GTGTTGAAACATTGTTGATTGTGTAAC 58.892 33.333 2.13 1.93 41.59 2.50
3986 5775 2.901042 CCCCTTCCGTCAGGTAGC 59.099 66.667 0.00 0.00 39.05 3.58
4017 5806 5.468540 TCTCTTTCTTGGACGATTTCAGA 57.531 39.130 0.00 0.00 0.00 3.27
4090 5879 1.153369 GAGCTTATGAGGCGCCACA 60.153 57.895 28.80 28.80 34.52 4.17
4213 6005 4.263572 CCCACGGACACCAAGGCA 62.264 66.667 0.00 0.00 0.00 4.75
4315 6107 0.251354 GACCATCAGCAGAGGCAGAA 59.749 55.000 0.00 0.00 44.61 3.02
4343 6135 2.285834 GCTTCGTAGCGATGAACCATTG 60.286 50.000 0.00 0.00 37.71 2.82
4344 6136 1.934589 TCGTAGCGATGAACCATTGG 58.065 50.000 0.00 0.00 0.00 3.16
4345 6137 0.304705 CGTAGCGATGAACCATTGGC 59.695 55.000 1.54 0.00 0.00 4.52
4346 6138 0.663153 GTAGCGATGAACCATTGGCC 59.337 55.000 1.54 0.00 0.00 5.36
4347 6139 0.546122 TAGCGATGAACCATTGGCCT 59.454 50.000 3.32 0.00 0.00 5.19
4348 6140 1.033746 AGCGATGAACCATTGGCCTG 61.034 55.000 3.32 0.00 0.00 4.85
4349 6141 1.031571 GCGATGAACCATTGGCCTGA 61.032 55.000 3.32 0.00 0.00 3.86
4350 6142 1.683943 CGATGAACCATTGGCCTGAT 58.316 50.000 3.32 0.00 0.00 2.90
4351 6143 1.335810 CGATGAACCATTGGCCTGATG 59.664 52.381 3.32 8.53 0.00 3.07
4398 6190 0.654683 GCAAGCCGAGCAGAACATAG 59.345 55.000 0.00 0.00 0.00 2.23
4414 6206 7.050377 CAGAACATAGTCTGATATTTGTGGGT 58.950 38.462 0.00 0.00 46.76 4.51
4480 6272 4.039852 TGTGGCTGTTGTCTATTGTGAGTA 59.960 41.667 0.00 0.00 0.00 2.59
4494 6286 2.301870 TGTGAGTATGGACAAGGGACAC 59.698 50.000 0.00 0.00 0.00 3.67
4501 6293 0.602905 GGACAAGGGACACGTTGAGG 60.603 60.000 7.10 0.00 43.30 3.86
4516 6308 3.982058 CGTTGAGGTGTTCTTGAGTAGAC 59.018 47.826 0.00 0.00 30.90 2.59
4544 6336 4.038642 GGGTAAGGAAGACATAGAGCAGAG 59.961 50.000 0.00 0.00 0.00 3.35
4578 6371 7.151976 TGTAATGTGAAACGATGAAGAAGAGA 58.848 34.615 0.00 0.00 42.39 3.10
4579 6372 6.473397 AATGTGAAACGATGAAGAAGAGAC 57.527 37.500 0.00 0.00 42.39 3.36
4582 6385 6.382608 TGTGAAACGATGAAGAAGAGACTAG 58.617 40.000 0.00 0.00 42.39 2.57
4585 6388 7.272515 GTGAAACGATGAAGAAGAGACTAGAAG 59.727 40.741 0.00 0.00 0.00 2.85
4610 6413 2.346803 TCTCCAATGCAAGACGCTAAC 58.653 47.619 0.00 0.00 43.06 2.34
4611 6414 1.398390 CTCCAATGCAAGACGCTAACC 59.602 52.381 0.00 0.00 43.06 2.85
4612 6415 0.451783 CCAATGCAAGACGCTAACCC 59.548 55.000 0.00 0.00 43.06 4.11
4613 6416 1.453155 CAATGCAAGACGCTAACCCT 58.547 50.000 0.00 0.00 43.06 4.34
4614 6417 2.627945 CAATGCAAGACGCTAACCCTA 58.372 47.619 0.00 0.00 43.06 3.53
4615 6418 3.006940 CAATGCAAGACGCTAACCCTAA 58.993 45.455 0.00 0.00 43.06 2.69
4616 6419 2.380084 TGCAAGACGCTAACCCTAAG 57.620 50.000 0.00 0.00 43.06 2.18
4618 6421 2.500098 TGCAAGACGCTAACCCTAAGAT 59.500 45.455 0.00 0.00 43.06 2.40
4619 6422 3.702548 TGCAAGACGCTAACCCTAAGATA 59.297 43.478 0.00 0.00 43.06 1.98
4624 6429 5.447757 AGACGCTAACCCTAAGATAAGACT 58.552 41.667 0.00 0.00 0.00 3.24
4716 6530 1.017387 CGCTGCACTTAATTCCCTCC 58.983 55.000 0.00 0.00 0.00 4.30
4726 6540 5.182380 CACTTAATTCCCTCCTTTTGCGTTA 59.818 40.000 0.00 0.00 0.00 3.18
4744 6558 8.967664 TTGCGTTAATTACATAACTAATCCCT 57.032 30.769 0.00 0.00 34.35 4.20
4745 6559 8.373048 TGCGTTAATTACATAACTAATCCCTG 57.627 34.615 0.00 0.00 34.35 4.45
4753 6567 6.252599 ACATAACTAATCCCTGATCTTGCA 57.747 37.500 0.00 0.00 0.00 4.08
4758 6578 6.753913 ACTAATCCCTGATCTTGCATCTTA 57.246 37.500 0.00 0.00 0.00 2.10
4786 6606 2.609350 GCAAGTGGCAACCAATATGTG 58.391 47.619 0.00 0.00 43.97 3.21
4808 6628 2.703007 GTTGGATAGTCAGGGCATCTCT 59.297 50.000 0.00 0.00 0.00 3.10
4819 6639 0.107654 GGCATCTCTAACGGCAACCT 60.108 55.000 0.00 0.00 0.00 3.50
4830 6650 2.588620 ACGGCAACCTACAAAAATCCA 58.411 42.857 0.00 0.00 0.00 3.41
4844 6664 0.904649 AATCCACTCGCATCTGTCCA 59.095 50.000 0.00 0.00 0.00 4.02
4875 6700 4.098960 GGGACTAGTTCATGGACACGAATA 59.901 45.833 6.96 0.00 0.00 1.75
4879 6704 1.326548 GTTCATGGACACGAATACGGC 59.673 52.381 0.00 0.00 44.46 5.68
4881 6706 1.066787 TCATGGACACGAATACGGCAA 60.067 47.619 0.00 0.00 44.46 4.52
4882 6707 1.062002 CATGGACACGAATACGGCAAC 59.938 52.381 0.00 0.00 44.46 4.17
5007 6835 9.976255 TTACATAAAAAGGTCGATATTTCAACG 57.024 29.630 0.00 0.00 0.00 4.10
5117 6966 3.677648 CCGTCGTCGTGGTCCCTT 61.678 66.667 0.71 0.00 35.01 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 57 3.181510 CGTGTGGGGATTCGATTTCTTTC 60.182 47.826 0.00 0.00 0.00 2.62
80 82 1.335132 ATCGCTACGGTCATGGGGTT 61.335 55.000 0.00 0.00 0.00 4.11
86 88 1.269998 GCTAAGGATCGCTACGGTCAT 59.730 52.381 2.37 0.00 38.92 3.06
89 91 1.108776 TTGCTAAGGATCGCTACGGT 58.891 50.000 0.00 0.00 0.00 4.83
187 189 5.128991 GTCTACTGCTTTCCCAGGTAGTATT 59.871 44.000 0.00 0.00 37.16 1.89
231 233 5.470047 ACATAGCCTAAGAATAACGAGGG 57.530 43.478 0.00 0.00 0.00 4.30
398 415 7.148540 CCATCAGCAATAACAAAACCAAGATTG 60.149 37.037 0.00 0.00 0.00 2.67
437 454 4.627284 TGTTTTCTATTCGAACAGGGGA 57.373 40.909 3.15 0.00 0.00 4.81
468 485 5.566469 CAACCTACATTAAAGGAACCTGGA 58.434 41.667 0.00 0.00 37.57 3.86
842 859 2.584608 GCATGTAGCCAGACCGGT 59.415 61.111 6.92 6.92 37.23 5.28
1329 1346 0.674581 CCCTGCGAGCATCTTCAACA 60.675 55.000 0.00 0.00 0.00 3.33
1738 1755 3.755905 TCCATCTGCGCAAACAAATCTAA 59.244 39.130 13.05 0.00 0.00 2.10
1929 1946 2.609459 CTCTGCCAATAACTTAGCACGG 59.391 50.000 0.00 0.00 0.00 4.94
2295 2314 7.769044 TCTGCTACTAACAGTTCATTAATTCCC 59.231 37.037 0.00 0.00 36.50 3.97
2298 2317 9.372369 GACTCTGCTACTAACAGTTCATTAATT 57.628 33.333 0.00 0.00 36.50 1.40
2348 2367 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
2349 2368 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
2350 2369 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
2351 2370 3.846360 AGACAAGTAATTCCGAACGGAG 58.154 45.455 15.34 5.60 46.06 4.63
2352 2371 3.671433 CGAGACAAGTAATTCCGAACGGA 60.671 47.826 12.04 12.04 43.52 4.69
2353 2372 2.597305 CGAGACAAGTAATTCCGAACGG 59.403 50.000 6.94 6.94 0.00 4.44
2354 2373 2.597305 CCGAGACAAGTAATTCCGAACG 59.403 50.000 0.00 0.00 0.00 3.95
2355 2374 3.841643 TCCGAGACAAGTAATTCCGAAC 58.158 45.455 0.00 0.00 0.00 3.95
2356 2375 4.730949 ATCCGAGACAAGTAATTCCGAA 57.269 40.909 0.00 0.00 0.00 4.30
2357 2376 5.278808 CCATATCCGAGACAAGTAATTCCGA 60.279 44.000 0.00 0.00 0.00 4.55
2358 2377 4.923871 CCATATCCGAGACAAGTAATTCCG 59.076 45.833 0.00 0.00 0.00 4.30
2359 2378 6.097915 TCCATATCCGAGACAAGTAATTCC 57.902 41.667 0.00 0.00 0.00 3.01
2360 2379 7.155328 ACATCCATATCCGAGACAAGTAATTC 58.845 38.462 0.00 0.00 0.00 2.17
2361 2380 7.067496 ACATCCATATCCGAGACAAGTAATT 57.933 36.000 0.00 0.00 0.00 1.40
2362 2381 6.672266 ACATCCATATCCGAGACAAGTAAT 57.328 37.500 0.00 0.00 0.00 1.89
2363 2382 7.670140 AGATACATCCATATCCGAGACAAGTAA 59.330 37.037 0.00 0.00 32.76 2.24
2364 2383 7.175797 AGATACATCCATATCCGAGACAAGTA 58.824 38.462 0.00 0.00 32.76 2.24
2365 2384 6.013379 AGATACATCCATATCCGAGACAAGT 58.987 40.000 0.00 0.00 32.76 3.16
2366 2385 6.522625 AGATACATCCATATCCGAGACAAG 57.477 41.667 0.00 0.00 32.76 3.16
2367 2386 7.402862 TCTAGATACATCCATATCCGAGACAA 58.597 38.462 0.00 0.00 32.76 3.18
2368 2387 6.958767 TCTAGATACATCCATATCCGAGACA 58.041 40.000 0.00 0.00 32.76 3.41
2369 2388 7.554835 AGTTCTAGATACATCCATATCCGAGAC 59.445 40.741 0.00 0.00 32.76 3.36
2370 2389 7.634718 AGTTCTAGATACATCCATATCCGAGA 58.365 38.462 0.00 0.00 32.76 4.04
2371 2390 7.873719 AGTTCTAGATACATCCATATCCGAG 57.126 40.000 0.00 0.00 32.76 4.63
2372 2391 9.749340 TTTAGTTCTAGATACATCCATATCCGA 57.251 33.333 0.00 0.00 32.76 4.55
2398 2417 9.664332 GCAGAAATGGATGTATCTAGACATATT 57.336 33.333 0.00 0.00 40.18 1.28
2399 2418 7.978414 CGCAGAAATGGATGTATCTAGACATAT 59.022 37.037 0.00 0.00 40.18 1.78
2400 2419 7.176690 TCGCAGAAATGGATGTATCTAGACATA 59.823 37.037 0.00 0.00 40.18 2.29
2401 2420 6.015095 TCGCAGAAATGGATGTATCTAGACAT 60.015 38.462 0.00 0.00 42.82 3.06
2402 2421 5.301805 TCGCAGAAATGGATGTATCTAGACA 59.698 40.000 0.00 0.00 0.00 3.41
2403 2422 5.631512 GTCGCAGAAATGGATGTATCTAGAC 59.368 44.000 0.00 0.00 39.69 2.59
2404 2423 5.301805 TGTCGCAGAAATGGATGTATCTAGA 59.698 40.000 0.00 0.00 39.69 2.43
2405 2424 5.532557 TGTCGCAGAAATGGATGTATCTAG 58.467 41.667 0.00 0.00 39.69 2.43
2406 2425 5.529581 TGTCGCAGAAATGGATGTATCTA 57.470 39.130 0.00 0.00 39.69 1.98
2407 2426 4.406648 TGTCGCAGAAATGGATGTATCT 57.593 40.909 0.00 0.00 39.69 1.98
2408 2427 4.572389 ACTTGTCGCAGAAATGGATGTATC 59.428 41.667 0.00 0.00 39.69 2.24
2409 2428 4.517285 ACTTGTCGCAGAAATGGATGTAT 58.483 39.130 0.00 0.00 39.69 2.29
2410 2429 3.937814 ACTTGTCGCAGAAATGGATGTA 58.062 40.909 0.00 0.00 39.69 2.29
2411 2430 2.783135 ACTTGTCGCAGAAATGGATGT 58.217 42.857 0.00 0.00 39.69 3.06
2412 2431 4.944962 TTACTTGTCGCAGAAATGGATG 57.055 40.909 0.00 0.00 39.69 3.51
2413 2432 5.066505 GGAATTACTTGTCGCAGAAATGGAT 59.933 40.000 0.00 0.00 39.69 3.41
2414 2433 4.394920 GGAATTACTTGTCGCAGAAATGGA 59.605 41.667 0.00 0.00 39.69 3.41
2415 2434 4.662145 GGAATTACTTGTCGCAGAAATGG 58.338 43.478 0.00 0.00 39.69 3.16
2416 2435 4.092821 TCGGAATTACTTGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
2417 2436 4.250464 TCGGAATTACTTGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
2418 2437 3.655486 TCGGAATTACTTGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
2419 2438 3.306917 TCGGAATTACTTGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
2420 2439 3.306917 TTCGGAATTACTTGTCGCAGA 57.693 42.857 0.00 0.00 0.00 4.26
2421 2440 3.242413 CCATTCGGAATTACTTGTCGCAG 60.242 47.826 0.00 0.00 0.00 5.18
2422 2441 2.675844 CCATTCGGAATTACTTGTCGCA 59.324 45.455 0.00 0.00 0.00 5.10
2423 2442 2.933906 TCCATTCGGAATTACTTGTCGC 59.066 45.455 0.00 0.00 38.83 5.19
2424 2443 3.555956 CCTCCATTCGGAATTACTTGTCG 59.444 47.826 0.00 0.00 42.21 4.35
2425 2444 3.877508 CCCTCCATTCGGAATTACTTGTC 59.122 47.826 0.00 0.00 42.21 3.18
2426 2445 3.521937 TCCCTCCATTCGGAATTACTTGT 59.478 43.478 0.00 0.00 42.21 3.16
2427 2446 4.130118 CTCCCTCCATTCGGAATTACTTG 58.870 47.826 0.00 0.00 42.21 3.16
2428 2447 3.780850 ACTCCCTCCATTCGGAATTACTT 59.219 43.478 0.00 0.00 42.21 2.24
2429 2448 3.385115 ACTCCCTCCATTCGGAATTACT 58.615 45.455 0.00 0.00 42.21 2.24
2430 2449 3.840124 ACTCCCTCCATTCGGAATTAC 57.160 47.619 0.00 0.00 42.21 1.89
2431 2450 4.291792 TGTACTCCCTCCATTCGGAATTA 58.708 43.478 0.00 0.00 42.21 1.40
2432 2451 3.112263 TGTACTCCCTCCATTCGGAATT 58.888 45.455 0.00 0.00 42.21 2.17
2433 2452 2.759355 TGTACTCCCTCCATTCGGAAT 58.241 47.619 0.00 0.00 42.21 3.01
2434 2453 2.241281 TGTACTCCCTCCATTCGGAA 57.759 50.000 0.00 0.00 42.21 4.30
2435 2454 2.471815 ATGTACTCCCTCCATTCGGA 57.528 50.000 0.00 0.00 39.79 4.55
2436 2455 3.134804 AGAAATGTACTCCCTCCATTCGG 59.865 47.826 0.00 0.00 0.00 4.30
2437 2456 4.408182 AGAAATGTACTCCCTCCATTCG 57.592 45.455 0.00 0.00 0.00 3.34
2438 2457 6.183361 ACCATAGAAATGTACTCCCTCCATTC 60.183 42.308 0.00 0.00 0.00 2.67
2439 2458 5.672194 ACCATAGAAATGTACTCCCTCCATT 59.328 40.000 0.00 0.00 0.00 3.16
2440 2459 5.227593 ACCATAGAAATGTACTCCCTCCAT 58.772 41.667 0.00 0.00 0.00 3.41
2441 2460 4.631234 ACCATAGAAATGTACTCCCTCCA 58.369 43.478 0.00 0.00 0.00 3.86
2442 2461 6.464039 GGTTACCATAGAAATGTACTCCCTCC 60.464 46.154 0.00 0.00 0.00 4.30
2443 2462 6.099269 TGGTTACCATAGAAATGTACTCCCTC 59.901 42.308 0.00 0.00 0.00 4.30
2444 2463 5.968167 TGGTTACCATAGAAATGTACTCCCT 59.032 40.000 0.00 0.00 0.00 4.20
2445 2464 6.243216 TGGTTACCATAGAAATGTACTCCC 57.757 41.667 0.00 0.00 0.00 4.30
2446 2465 7.876582 GGTATGGTTACCATAGAAATGTACTCC 59.123 40.741 22.96 13.03 45.76 3.85
2447 2466 8.828688 GGTATGGTTACCATAGAAATGTACTC 57.171 38.462 22.96 8.26 45.76 2.59
2499 2518 6.095432 TCGGGTTTCATCATTTCACAAAAT 57.905 33.333 0.00 0.00 35.43 1.82
3056 4837 2.158726 AGCCAACCCGAGTTTTAGTGAA 60.159 45.455 0.00 0.00 32.45 3.18
3259 5040 3.196469 TCTCCTCTCAAATGCACCTACAG 59.804 47.826 0.00 0.00 0.00 2.74
3294 5075 2.481952 GCACAGCTTTCTGGACAACTAG 59.518 50.000 0.00 0.00 44.54 2.57
3572 5354 5.412904 GCTATAAGACACAAGAGCCAAGTTT 59.587 40.000 0.00 0.00 0.00 2.66
3641 5423 8.845413 AGTGCAAAATTGATATAAGCCAAAAA 57.155 26.923 0.00 0.00 0.00 1.94
3737 5526 1.197721 GACACAACCAGCCTGAAATCG 59.802 52.381 0.00 0.00 0.00 3.34
3986 5775 2.028112 TCCAAGAAAGAGATGGTGTCGG 60.028 50.000 0.00 0.00 35.66 4.79
4017 5806 5.586643 GGCCTTTACAGAAAATCTCGAGATT 59.413 40.000 30.53 30.53 45.91 2.40
4090 5879 3.077359 GCTATCTGTCACAAGGCAAAGT 58.923 45.455 0.00 0.00 0.00 2.66
4334 6126 3.286404 CCATCAGGCCAATGGTTCA 57.714 52.632 22.95 0.00 39.11 3.18
4345 6137 3.174265 GGGAGGGAGGCCATCAGG 61.174 72.222 5.01 0.00 35.86 3.86
4346 6138 2.040043 AGGGAGGGAGGCCATCAG 60.040 66.667 5.01 0.00 35.86 2.90
4347 6139 2.367377 CAGGGAGGGAGGCCATCA 60.367 66.667 5.01 0.00 35.86 3.07
4348 6140 3.174265 CCAGGGAGGGAGGCCATC 61.174 72.222 5.01 0.00 33.07 3.51
4349 6141 3.603330 AACCAGGGAGGGAGGCCAT 62.603 63.158 5.01 0.00 43.89 4.40
4350 6142 4.285790 AACCAGGGAGGGAGGCCA 62.286 66.667 5.01 0.00 43.89 5.36
4351 6143 3.412408 GAACCAGGGAGGGAGGCC 61.412 72.222 0.00 0.00 43.89 5.19
4384 6176 3.724508 ATCAGACTATGTTCTGCTCGG 57.275 47.619 1.38 0.00 42.52 4.63
4398 6190 5.360591 CCAGACTACCCACAAATATCAGAC 58.639 45.833 0.00 0.00 0.00 3.51
4414 6206 1.476845 TTCGCAACAGGGCCAGACTA 61.477 55.000 6.18 0.00 0.00 2.59
4444 6236 9.777297 AGACAACAGCCACAAAATAATAAAAAT 57.223 25.926 0.00 0.00 0.00 1.82
4473 6265 2.301870 GTGTCCCTTGTCCATACTCACA 59.698 50.000 0.00 0.00 0.00 3.58
4480 6272 0.762418 TCAACGTGTCCCTTGTCCAT 59.238 50.000 0.00 0.00 0.00 3.41
4494 6286 3.982058 GTCTACTCAAGAACACCTCAACG 59.018 47.826 0.00 0.00 35.47 4.10
4501 6293 1.067071 CCGGGGTCTACTCAAGAACAC 60.067 57.143 0.00 0.00 44.48 3.32
4516 6308 0.986550 ATGTCTTCCTTACCCCGGGG 60.987 60.000 39.18 39.18 42.03 5.73
4524 6316 4.219115 CCCTCTGCTCTATGTCTTCCTTA 58.781 47.826 0.00 0.00 0.00 2.69
4544 6336 4.696402 TCGTTTCACATTACATAACCACCC 59.304 41.667 0.00 0.00 0.00 4.61
4578 6371 2.158696 GCATTGGAGATGCCCTTCTAGT 60.159 50.000 0.00 0.00 39.01 2.57
4579 6372 2.158711 TGCATTGGAGATGCCCTTCTAG 60.159 50.000 8.36 0.00 43.94 2.43
4582 6385 1.407979 CTTGCATTGGAGATGCCCTTC 59.592 52.381 8.36 0.00 43.94 3.46
4585 6388 0.743097 GTCTTGCATTGGAGATGCCC 59.257 55.000 8.36 0.00 43.94 5.36
4666 6471 2.494059 GTTGAAACAGCAGGCACTCTA 58.506 47.619 0.00 0.00 34.60 2.43
4673 6478 0.166814 GCTAGCGTTGAAACAGCAGG 59.833 55.000 0.00 5.80 33.20 4.85
4726 6540 9.289782 GCAAGATCAGGGATTAGTTATGTAATT 57.710 33.333 0.00 0.00 0.00 1.40
4779 6599 4.446311 GCCCTGACTATCCAACCACATATT 60.446 45.833 0.00 0.00 0.00 1.28
4781 6601 2.438021 GCCCTGACTATCCAACCACATA 59.562 50.000 0.00 0.00 0.00 2.29
4782 6602 1.212935 GCCCTGACTATCCAACCACAT 59.787 52.381 0.00 0.00 0.00 3.21
4783 6603 0.618458 GCCCTGACTATCCAACCACA 59.382 55.000 0.00 0.00 0.00 4.17
4784 6604 0.618458 TGCCCTGACTATCCAACCAC 59.382 55.000 0.00 0.00 0.00 4.16
4785 6605 1.490490 GATGCCCTGACTATCCAACCA 59.510 52.381 0.00 0.00 0.00 3.67
4786 6606 1.771255 AGATGCCCTGACTATCCAACC 59.229 52.381 0.00 0.00 0.00 3.77
4787 6607 2.703007 AGAGATGCCCTGACTATCCAAC 59.297 50.000 0.00 0.00 0.00 3.77
4788 6608 3.051940 AGAGATGCCCTGACTATCCAA 57.948 47.619 0.00 0.00 0.00 3.53
4789 6609 2.783379 AGAGATGCCCTGACTATCCA 57.217 50.000 0.00 0.00 0.00 3.41
4790 6610 3.057174 CGTTAGAGATGCCCTGACTATCC 60.057 52.174 0.00 0.00 0.00 2.59
4791 6611 3.057174 CCGTTAGAGATGCCCTGACTATC 60.057 52.174 0.00 0.00 0.00 2.08
4792 6612 2.894126 CCGTTAGAGATGCCCTGACTAT 59.106 50.000 0.00 0.00 0.00 2.12
4793 6613 2.307768 CCGTTAGAGATGCCCTGACTA 58.692 52.381 0.00 0.00 0.00 2.59
4794 6614 1.115467 CCGTTAGAGATGCCCTGACT 58.885 55.000 0.00 0.00 0.00 3.41
4795 6615 0.530870 GCCGTTAGAGATGCCCTGAC 60.531 60.000 0.00 0.00 0.00 3.51
4808 6628 4.023021 GTGGATTTTTGTAGGTTGCCGTTA 60.023 41.667 0.00 0.00 0.00 3.18
4819 6639 4.323417 ACAGATGCGAGTGGATTTTTGTA 58.677 39.130 0.00 0.00 0.00 2.41
4830 6650 1.977009 TCCGTGGACAGATGCGAGT 60.977 57.895 0.00 0.00 0.00 4.18
4844 6664 0.113776 TGAACTAGTCCCCTGTCCGT 59.886 55.000 0.00 0.00 0.00 4.69
4875 6700 1.541147 CATTGGATGTCAAGTTGCCGT 59.459 47.619 0.00 0.00 38.95 5.68
4879 6704 3.181493 GGCTAGCATTGGATGTCAAGTTG 60.181 47.826 18.24 0.00 38.95 3.16
4881 6706 2.648059 GGCTAGCATTGGATGTCAAGT 58.352 47.619 18.24 0.00 38.95 3.16
4882 6707 1.600957 CGGCTAGCATTGGATGTCAAG 59.399 52.381 18.24 0.00 38.95 3.02
5215 7081 4.539083 ACGTTGTCAGTGGCCGCA 62.539 61.111 20.59 0.00 0.00 5.69
5296 7162 1.667154 CCAAGATCGGCGAGGAGTGA 61.667 60.000 17.22 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.