Multiple sequence alignment - TraesCS1D01G219900

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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 TraesCS1D01G219900 chr1D 100.000 2990 0 0 1 2990 307699412 307702401 0.000000e+00 5522.0
1 TraesCS1D01G219900 chr1D 80.469 512 57 21 2516 2990 483067484 483066979 4.740000e-93 351.0
2 TraesCS1D01G219900 chr1D 79.920 498 72 19 2516 2990 469124410 469123918 1.030000e-89 340.0
3 TraesCS1D01G219900 chr1D 97.333 75 2 0 1417 1491 307700774 307700848 8.700000e-26 128.0
4 TraesCS1D01G219900 chr1D 97.333 75 2 0 1363 1437 307700828 307700902 8.700000e-26 128.0
5 TraesCS1D01G219900 chr1A 93.326 974 39 10 1418 2381 386870330 386871287 0.000000e+00 1415.0
6 TraesCS1D01G219900 chr1A 94.608 816 39 5 625 1437 386869590 386870403 0.000000e+00 1258.0
7 TraesCS1D01G219900 chr1A 80.430 465 58 19 2537 2968 590718035 590717571 1.030000e-84 324.0
8 TraesCS1D01G219900 chr1B 93.773 819 35 10 625 1437 416775614 416776422 0.000000e+00 1216.0
9 TraesCS1D01G219900 chr1B 94.526 749 28 8 1417 2165 416776348 416777083 0.000000e+00 1144.0
10 TraesCS1D01G219900 chr1B 91.803 61 2 2 562 619 416775502 416775562 6.870000e-12 82.4
11 TraesCS1D01G219900 chr2B 95.230 566 25 2 2 565 741919136 741919701 0.000000e+00 894.0
12 TraesCS1D01G219900 chr5D 93.085 564 36 2 1 561 191920513 191921076 0.000000e+00 822.0
13 TraesCS1D01G219900 chrUn 92.769 567 39 2 1 565 323597255 323597821 0.000000e+00 819.0
14 TraesCS1D01G219900 chrUn 92.593 567 40 2 1 565 12995028 12995594 0.000000e+00 813.0
15 TraesCS1D01G219900 chrUn 93.692 539 28 5 1 536 33807489 33806954 0.000000e+00 802.0
16 TraesCS1D01G219900 chrUn 93.692 539 28 5 1 536 33955631 33955096 0.000000e+00 802.0
17 TraesCS1D01G219900 chrUn 93.506 539 29 5 1 536 33525757 33526292 0.000000e+00 797.0
18 TraesCS1D01G219900 chrUn 93.506 539 29 5 1 536 332861969 332862504 0.000000e+00 797.0
19 TraesCS1D01G219900 chrUn 93.506 539 29 5 1 536 332864759 332865294 0.000000e+00 797.0
20 TraesCS1D01G219900 chr4A 85.331 484 62 7 2513 2990 17103773 17104253 2.680000e-135 492.0
21 TraesCS1D01G219900 chr4A 84.040 495 62 9 2513 2990 600951367 600951861 7.550000e-126 460.0
22 TraesCS1D01G219900 chr7B 85.084 476 69 2 2516 2990 58720129 58719655 4.480000e-133 484.0
23 TraesCS1D01G219900 chr4D 83.537 492 57 10 2516 2990 449826467 449825983 3.540000e-119 438.0
24 TraesCS1D01G219900 chr2D 83.532 419 57 9 2581 2990 192071316 192070901 6.050000e-102 381.0
25 TraesCS1D01G219900 chr3D 79.441 501 58 22 2513 2990 67484961 67485439 2.240000e-81 313.0
26 TraesCS1D01G219900 chr3D 84.589 292 32 9 2700 2983 389079230 389079516 8.160000e-71 278.0
27 TraesCS1D01G219900 chr3D 97.143 35 1 0 2537 2571 526067338 526067304 3.220000e-05 60.2
28 TraesCS1D01G219900 chr5A 86.957 69 5 2 2537 2603 597283194 597283128 1.150000e-09 75.0
29 TraesCS1D01G219900 chr2A 78.846 104 21 1 2378 2480 16979923 16980026 5.350000e-08 69.4
30 TraesCS1D01G219900 chr3A 89.583 48 5 0 2518 2565 724308458 724308505 8.950000e-06 62.1


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 TraesCS1D01G219900 chr1D 307699412 307702401 2989 False 1926.000000 5522 98.222000 1 2990 3 chr1D.!!$F1 2989
1 TraesCS1D01G219900 chr1D 483066979 483067484 505 True 351.000000 351 80.469000 2516 2990 1 chr1D.!!$R2 474
2 TraesCS1D01G219900 chr1A 386869590 386871287 1697 False 1336.500000 1415 93.967000 625 2381 2 chr1A.!!$F1 1756
3 TraesCS1D01G219900 chr1B 416775502 416777083 1581 False 814.133333 1216 93.367333 562 2165 3 chr1B.!!$F1 1603
4 TraesCS1D01G219900 chr2B 741919136 741919701 565 False 894.000000 894 95.230000 2 565 1 chr2B.!!$F1 563
5 TraesCS1D01G219900 chr5D 191920513 191921076 563 False 822.000000 822 93.085000 1 561 1 chr5D.!!$F1 560
6 TraesCS1D01G219900 chrUn 323597255 323597821 566 False 819.000000 819 92.769000 1 565 1 chrUn.!!$F3 564
7 TraesCS1D01G219900 chrUn 12995028 12995594 566 False 813.000000 813 92.593000 1 565 1 chrUn.!!$F1 564
8 TraesCS1D01G219900 chrUn 33806954 33807489 535 True 802.000000 802 93.692000 1 536 1 chrUn.!!$R1 535
9 TraesCS1D01G219900 chrUn 33955096 33955631 535 True 802.000000 802 93.692000 1 536 1 chrUn.!!$R2 535
10 TraesCS1D01G219900 chrUn 33525757 33526292 535 False 797.000000 797 93.506000 1 536 1 chrUn.!!$F2 535
11 TraesCS1D01G219900 chrUn 332861969 332865294 3325 False 797.000000 797 93.506000 1 536 2 chrUn.!!$F4 535

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
817 3663 0.528466 GAGAACGCGATGGAGCATGA 60.528 55.0 15.93 0.0 36.85 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2469 5337 0.035739 AGGCGGACACGTTTATGGTT 59.964 50.0 0.0 0.0 43.45 3.67 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
155 2949 2.373434 AAACGCCCGTTCTTCTCCGT 62.373 55.000 6.52 0.00 37.35 4.69
348 3142 1.806623 CGAAAGTTATGGCCTCGAGGG 60.807 57.143 32.06 14.53 35.18 4.30
402 3196 1.185315 CATCTCCAACCCGCCAAATT 58.815 50.000 0.00 0.00 0.00 1.82
519 3313 6.082984 GGGATAGTACTTCGCTCGTAATAAC 58.917 44.000 0.00 0.00 0.00 1.89
524 3318 2.095059 ACTTCGCTCGTAATAACCGTGT 60.095 45.455 0.00 0.00 0.00 4.49
568 3362 2.894387 GTCGCCAGGCTGCTCATC 60.894 66.667 10.54 0.00 0.00 2.92
573 3367 1.451567 CCAGGCTGCTCATCACCAG 60.452 63.158 9.56 0.00 0.00 4.00
623 3420 1.657822 GCCTAGAGCTGCCAAACTAC 58.342 55.000 0.00 0.00 38.99 2.73
694 3539 2.240493 AGGGTTGAACGTGAAGTGAG 57.760 50.000 0.00 0.00 0.00 3.51
804 3650 2.057316 CAGTGTCTGCTGAAGAGAACG 58.943 52.381 0.00 0.00 38.70 3.95
817 3663 0.528466 GAGAACGCGATGGAGCATGA 60.528 55.000 15.93 0.00 36.85 3.07
890 3736 1.304217 TTCCTTCTCCTCGTCGCCT 60.304 57.895 0.00 0.00 0.00 5.52
891 3737 1.313812 TTCCTTCTCCTCGTCGCCTC 61.314 60.000 0.00 0.00 0.00 4.70
892 3738 2.776913 CCTTCTCCTCGTCGCCTCC 61.777 68.421 0.00 0.00 0.00 4.30
893 3739 2.754658 TTCTCCTCGTCGCCTCCC 60.755 66.667 0.00 0.00 0.00 4.30
894 3740 3.283812 TTCTCCTCGTCGCCTCCCT 62.284 63.158 0.00 0.00 0.00 4.20
935 3786 1.415374 GCAGCGTCGACAAGAAGTAA 58.585 50.000 17.16 0.00 0.00 2.24
977 3832 1.802880 CGGAAAGATGGCGTAGGTGAG 60.803 57.143 0.00 0.00 0.00 3.51
1038 3893 1.852067 AAACAAGCCGCGCGAATCTT 61.852 50.000 34.63 25.87 0.00 2.40
1275 4133 1.748122 GTCGGTGTCGGAGCTCCTA 60.748 63.158 29.73 17.64 36.95 2.94
1416 4274 4.637489 CGAGCGAGGATGCGGGAG 62.637 72.222 0.00 0.00 40.67 4.30
1417 4275 4.292178 GAGCGAGGATGCGGGAGG 62.292 72.222 0.00 0.00 40.67 4.30
1418 4276 4.841617 AGCGAGGATGCGGGAGGA 62.842 66.667 0.00 0.00 40.67 3.71
1419 4277 4.292178 GCGAGGATGCGGGAGGAG 62.292 72.222 0.00 0.00 0.00 3.69
1420 4278 4.292178 CGAGGATGCGGGAGGAGC 62.292 72.222 0.00 0.00 35.14 4.70
1421 4279 2.841988 GAGGATGCGGGAGGAGCT 60.842 66.667 0.00 0.00 36.59 4.09
1422 4280 2.841988 AGGATGCGGGAGGAGCTC 60.842 66.667 4.71 4.71 36.59 4.09
1423 4281 4.292178 GGATGCGGGAGGAGCTCG 62.292 72.222 7.83 0.00 45.45 5.03
1424 4282 3.219928 GATGCGGGAGGAGCTCGA 61.220 66.667 7.83 0.00 45.56 4.04
1425 4283 3.492311 GATGCGGGAGGAGCTCGAC 62.492 68.421 7.83 3.89 45.56 4.20
1542 4400 2.436646 CGGGTGCGGATGAAGCTT 60.437 61.111 0.00 0.00 35.28 3.74
1551 4409 2.046892 ATGAAGCTTGCCGACGCT 60.047 55.556 2.10 0.00 38.30 5.07
1773 4631 2.432628 CACCGGCGAGAAGTCACC 60.433 66.667 9.30 0.00 0.00 4.02
1834 4692 1.684734 GTGGAGTTCCCGAGGGCTA 60.685 63.158 2.58 0.00 37.93 3.93
1875 4733 2.782222 GGAGCGCGTGGATCTGGTA 61.782 63.158 8.43 0.00 0.00 3.25
2002 4860 3.362831 CGTCGTGTAACAATGTACTCACC 59.637 47.826 0.00 0.00 35.74 4.02
2086 4951 1.009675 CGCTGCAGTCGTTTGCTTT 60.010 52.632 16.64 0.00 44.38 3.51
2087 4952 1.264141 CGCTGCAGTCGTTTGCTTTG 61.264 55.000 16.64 6.61 44.38 2.77
2129 4994 7.823665 TCTAGTCTCATCTTGCTTAACGTTTA 58.176 34.615 5.91 0.00 0.00 2.01
2130 4995 6.707599 AGTCTCATCTTGCTTAACGTTTAC 57.292 37.500 5.91 0.00 0.00 2.01
2136 5001 5.081888 TCTTGCTTAACGTTTACCGAAAC 57.918 39.130 5.91 0.00 41.40 2.78
2169 5034 0.037734 ATGGTTTTCCTCCGGGTGTC 59.962 55.000 0.00 0.00 41.38 3.67
2191 5056 2.977178 CCGCTGAAGCTGGTCTCT 59.023 61.111 0.10 0.00 39.32 3.10
2193 5058 1.447489 CGCTGAAGCTGGTCTCTGG 60.447 63.158 0.10 0.00 39.32 3.86
2202 5067 0.543749 CTGGTCTCTGGGGTGGAATC 59.456 60.000 0.00 0.00 0.00 2.52
2221 5086 1.522580 GAGCTCGGAGTGGCCATTC 60.523 63.158 19.57 19.57 35.94 2.67
2252 5117 2.584791 GCATGACGCGTTGAGATTTTT 58.415 42.857 15.53 0.00 0.00 1.94
2264 5129 4.305989 TGAGATTTTTGGACACACTTGC 57.694 40.909 0.00 0.00 0.00 4.01
2267 5132 4.936891 AGATTTTTGGACACACTTGCTTC 58.063 39.130 0.00 0.00 0.00 3.86
2269 5134 1.021202 TTTGGACACACTTGCTTCGG 58.979 50.000 0.00 0.00 0.00 4.30
2271 5136 0.107410 TGGACACACTTGCTTCGGTT 60.107 50.000 0.00 0.00 0.00 4.44
2273 5138 0.307760 GACACACTTGCTTCGGTTGG 59.692 55.000 0.00 0.00 0.00 3.77
2296 5164 2.094659 CGTCTGATGTCACCCGCAC 61.095 63.158 0.00 0.00 0.00 5.34
2309 5177 2.805353 CGCACGACTCCCAGTTCG 60.805 66.667 0.00 0.00 0.00 3.95
2321 5189 0.443869 CCAGTTCGTGCCATCTTTCG 59.556 55.000 0.00 0.00 0.00 3.46
2347 5215 3.942351 CAGTGCTCCAGTGGATTCA 57.058 52.632 13.56 11.12 31.77 2.57
2350 5218 0.326264 GTGCTCCAGTGGATTCAGGT 59.674 55.000 13.56 0.00 0.00 4.00
2355 5223 2.304180 CTCCAGTGGATTCAGGTTCAGT 59.696 50.000 13.56 0.00 0.00 3.41
2356 5224 2.038952 TCCAGTGGATTCAGGTTCAGTG 59.961 50.000 8.12 0.00 0.00 3.66
2357 5225 2.224621 CCAGTGGATTCAGGTTCAGTGT 60.225 50.000 1.68 0.00 0.00 3.55
2358 5226 2.810274 CAGTGGATTCAGGTTCAGTGTG 59.190 50.000 0.00 0.00 0.00 3.82
2359 5227 2.705658 AGTGGATTCAGGTTCAGTGTGA 59.294 45.455 0.00 0.00 0.00 3.58
2360 5228 2.808543 GTGGATTCAGGTTCAGTGTGAC 59.191 50.000 0.00 0.00 0.00 3.67
2381 5249 0.324943 GTGAGGGTGCCTTGCTTAGA 59.675 55.000 0.00 0.00 31.76 2.10
2382 5250 0.615331 TGAGGGTGCCTTGCTTAGAG 59.385 55.000 0.00 0.00 31.76 2.43
2383 5251 0.746204 GAGGGTGCCTTGCTTAGAGC 60.746 60.000 0.00 0.00 36.25 4.09
2398 5266 1.663173 GAGCATCTCTAGCGGACCC 59.337 63.158 0.00 0.00 37.01 4.46
2399 5267 0.825840 GAGCATCTCTAGCGGACCCT 60.826 60.000 0.00 0.00 37.01 4.34
2400 5268 0.397816 AGCATCTCTAGCGGACCCTT 60.398 55.000 0.00 0.00 37.01 3.95
2401 5269 0.466124 GCATCTCTAGCGGACCCTTT 59.534 55.000 0.00 0.00 0.00 3.11
2402 5270 1.687123 GCATCTCTAGCGGACCCTTTA 59.313 52.381 0.00 0.00 0.00 1.85
2403 5271 2.300437 GCATCTCTAGCGGACCCTTTAT 59.700 50.000 0.00 0.00 0.00 1.40
2404 5272 3.510360 GCATCTCTAGCGGACCCTTTATA 59.490 47.826 0.00 0.00 0.00 0.98
2405 5273 4.160626 GCATCTCTAGCGGACCCTTTATAT 59.839 45.833 0.00 0.00 0.00 0.86
2406 5274 5.680151 GCATCTCTAGCGGACCCTTTATATC 60.680 48.000 0.00 0.00 0.00 1.63
2407 5275 4.994282 TCTCTAGCGGACCCTTTATATCA 58.006 43.478 0.00 0.00 0.00 2.15
2408 5276 5.580998 TCTCTAGCGGACCCTTTATATCAT 58.419 41.667 0.00 0.00 0.00 2.45
2409 5277 5.652891 TCTCTAGCGGACCCTTTATATCATC 59.347 44.000 0.00 0.00 0.00 2.92
2410 5278 3.983044 AGCGGACCCTTTATATCATCC 57.017 47.619 0.00 0.00 0.00 3.51
2411 5279 2.572104 AGCGGACCCTTTATATCATCCC 59.428 50.000 0.00 0.00 0.00 3.85
2412 5280 2.677037 GCGGACCCTTTATATCATCCCG 60.677 54.545 0.00 0.00 37.67 5.14
2413 5281 2.829720 CGGACCCTTTATATCATCCCGA 59.170 50.000 0.00 0.00 36.86 5.14
2414 5282 3.368116 CGGACCCTTTATATCATCCCGAC 60.368 52.174 0.00 0.00 36.86 4.79
2415 5283 3.055312 GGACCCTTTATATCATCCCGACC 60.055 52.174 0.00 0.00 0.00 4.79
2416 5284 2.910977 ACCCTTTATATCATCCCGACCC 59.089 50.000 0.00 0.00 0.00 4.46
2417 5285 2.910319 CCCTTTATATCATCCCGACCCA 59.090 50.000 0.00 0.00 0.00 4.51
2418 5286 3.523564 CCCTTTATATCATCCCGACCCAT 59.476 47.826 0.00 0.00 0.00 4.00
2419 5287 4.719773 CCCTTTATATCATCCCGACCCATA 59.280 45.833 0.00 0.00 0.00 2.74
2420 5288 5.190925 CCCTTTATATCATCCCGACCCATAA 59.809 44.000 0.00 0.00 0.00 1.90
2421 5289 6.296778 CCCTTTATATCATCCCGACCCATAAA 60.297 42.308 0.00 0.00 0.00 1.40
2422 5290 7.172342 CCTTTATATCATCCCGACCCATAAAA 58.828 38.462 0.00 0.00 0.00 1.52
2423 5291 7.834181 CCTTTATATCATCCCGACCCATAAAAT 59.166 37.037 0.00 0.00 0.00 1.82
2424 5292 9.899661 CTTTATATCATCCCGACCCATAAAATA 57.100 33.333 0.00 0.00 0.00 1.40
2427 5295 8.980481 ATATCATCCCGACCCATAAAATAATC 57.020 34.615 0.00 0.00 0.00 1.75
2428 5296 5.242434 TCATCCCGACCCATAAAATAATCG 58.758 41.667 0.00 0.00 0.00 3.34
2429 5297 4.693042 TCCCGACCCATAAAATAATCGT 57.307 40.909 0.00 0.00 0.00 3.73
2430 5298 4.634199 TCCCGACCCATAAAATAATCGTC 58.366 43.478 0.00 0.00 0.00 4.20
2431 5299 4.101274 TCCCGACCCATAAAATAATCGTCA 59.899 41.667 0.00 0.00 0.00 4.35
2432 5300 5.001232 CCCGACCCATAAAATAATCGTCAT 58.999 41.667 0.00 0.00 0.00 3.06
2433 5301 5.472137 CCCGACCCATAAAATAATCGTCATT 59.528 40.000 0.00 0.00 0.00 2.57
2434 5302 6.651643 CCCGACCCATAAAATAATCGTCATTA 59.348 38.462 0.00 0.00 0.00 1.90
2435 5303 7.335924 CCCGACCCATAAAATAATCGTCATTAT 59.664 37.037 0.00 0.00 36.85 1.28
2436 5304 9.373603 CCGACCCATAAAATAATCGTCATTATA 57.626 33.333 0.00 0.00 34.57 0.98
2447 5315 6.732181 AATCGTCATTATACAATTTTGCGC 57.268 33.333 0.00 0.00 0.00 6.09
2448 5316 4.267733 TCGTCATTATACAATTTTGCGCG 58.732 39.130 0.00 0.00 0.00 6.86
2449 5317 3.417321 CGTCATTATACAATTTTGCGCGG 59.583 43.478 8.83 0.00 0.00 6.46
2450 5318 4.593157 GTCATTATACAATTTTGCGCGGA 58.407 39.130 8.83 0.00 0.00 5.54
2451 5319 5.031578 GTCATTATACAATTTTGCGCGGAA 58.968 37.500 9.68 9.68 0.00 4.30
2452 5320 5.171337 GTCATTATACAATTTTGCGCGGAAG 59.829 40.000 14.05 4.33 0.00 3.46
2464 5332 4.966005 CGGAAGCAGTGTCTCGAA 57.034 55.556 0.00 0.00 0.00 3.71
2465 5333 2.435741 CGGAAGCAGTGTCTCGAAC 58.564 57.895 0.00 0.00 0.00 3.95
2466 5334 0.318699 CGGAAGCAGTGTCTCGAACA 60.319 55.000 0.00 0.00 34.78 3.18
2467 5335 1.423395 GGAAGCAGTGTCTCGAACAG 58.577 55.000 1.43 0.00 38.97 3.16
2468 5336 1.000163 GGAAGCAGTGTCTCGAACAGA 60.000 52.381 1.43 0.00 38.97 3.41
2469 5337 2.545952 GGAAGCAGTGTCTCGAACAGAA 60.546 50.000 1.43 0.00 38.97 3.02
2470 5338 2.890808 AGCAGTGTCTCGAACAGAAA 57.109 45.000 1.43 0.00 38.97 2.52
2471 5339 2.474816 AGCAGTGTCTCGAACAGAAAC 58.525 47.619 1.43 0.00 39.51 2.78
2472 5340 1.527311 GCAGTGTCTCGAACAGAAACC 59.473 52.381 1.43 0.00 40.03 3.27
2473 5341 2.821546 CAGTGTCTCGAACAGAAACCA 58.178 47.619 1.43 0.00 40.03 3.67
2474 5342 3.393800 CAGTGTCTCGAACAGAAACCAT 58.606 45.455 1.43 0.00 40.03 3.55
2475 5343 4.556233 CAGTGTCTCGAACAGAAACCATA 58.444 43.478 1.43 0.00 40.03 2.74
2476 5344 4.988540 CAGTGTCTCGAACAGAAACCATAA 59.011 41.667 1.43 0.00 40.03 1.90
2477 5345 5.465390 CAGTGTCTCGAACAGAAACCATAAA 59.535 40.000 1.43 0.00 40.03 1.40
2478 5346 5.465724 AGTGTCTCGAACAGAAACCATAAAC 59.534 40.000 1.43 0.00 40.03 2.01
2479 5347 4.446385 TGTCTCGAACAGAAACCATAAACG 59.554 41.667 0.00 0.00 32.81 3.60
2480 5348 4.446719 GTCTCGAACAGAAACCATAAACGT 59.553 41.667 0.00 0.00 30.72 3.99
2481 5349 4.446385 TCTCGAACAGAAACCATAAACGTG 59.554 41.667 0.00 0.00 0.00 4.49
2482 5350 4.121317 TCGAACAGAAACCATAAACGTGT 58.879 39.130 0.00 0.00 0.00 4.49
2483 5351 4.209703 TCGAACAGAAACCATAAACGTGTC 59.790 41.667 0.00 0.00 0.00 3.67
2484 5352 4.609783 CGAACAGAAACCATAAACGTGTCC 60.610 45.833 0.00 0.00 0.00 4.02
2485 5353 2.803956 ACAGAAACCATAAACGTGTCCG 59.196 45.455 0.00 0.00 40.83 4.79
2486 5354 1.802365 AGAAACCATAAACGTGTCCGC 59.198 47.619 0.00 0.00 37.70 5.54
2487 5355 0.876399 AAACCATAAACGTGTCCGCC 59.124 50.000 0.00 0.00 37.70 6.13
2488 5356 0.035739 AACCATAAACGTGTCCGCCT 59.964 50.000 0.00 0.00 37.70 5.52
2489 5357 0.035739 ACCATAAACGTGTCCGCCTT 59.964 50.000 0.00 0.00 37.70 4.35
2490 5358 1.275856 ACCATAAACGTGTCCGCCTTA 59.724 47.619 0.00 0.00 37.70 2.69
2491 5359 2.289569 ACCATAAACGTGTCCGCCTTAA 60.290 45.455 0.00 0.00 37.70 1.85
2492 5360 2.743126 CCATAAACGTGTCCGCCTTAAA 59.257 45.455 0.00 0.00 37.70 1.52
2493 5361 3.188873 CCATAAACGTGTCCGCCTTAAAA 59.811 43.478 0.00 0.00 37.70 1.52
2494 5362 4.320348 CCATAAACGTGTCCGCCTTAAAAA 60.320 41.667 0.00 0.00 37.70 1.94
2510 5378 2.361189 AAAAATTGAGGGGTGCGGG 58.639 52.632 0.00 0.00 0.00 6.13
2511 5379 1.191489 AAAAATTGAGGGGTGCGGGG 61.191 55.000 0.00 0.00 0.00 5.73
2512 5380 4.759205 AATTGAGGGGTGCGGGGC 62.759 66.667 0.00 0.00 0.00 5.80
2535 5403 3.557290 GGGGCCCAGTATCCCGTC 61.557 72.222 26.86 0.00 43.55 4.79
2541 5409 0.810031 CCCAGTATCCCGTCAAAGCG 60.810 60.000 0.00 0.00 0.00 4.68
2560 5428 3.991318 TTGGCGGGAGGGGCATTT 61.991 61.111 0.00 0.00 42.48 2.32
2561 5429 3.955543 TTGGCGGGAGGGGCATTTC 62.956 63.158 0.00 0.00 42.48 2.17
2562 5430 4.440829 GGCGGGAGGGGCATTTCA 62.441 66.667 0.00 0.00 0.00 2.69
2565 5433 2.830370 GGGAGGGGCATTTCAGCG 60.830 66.667 0.00 0.00 34.64 5.18
2621 5505 1.373590 CCCGTTGCCTACATTTCCGG 61.374 60.000 0.00 0.00 0.00 5.14
2628 5512 1.834188 CCTACATTTCCGGCCACTTT 58.166 50.000 2.24 0.00 0.00 2.66
2631 5515 1.408969 ACATTTCCGGCCACTTTTGT 58.591 45.000 2.24 0.00 0.00 2.83
2633 5517 0.596082 ATTTCCGGCCACTTTTGTCG 59.404 50.000 2.24 0.00 0.00 4.35
2641 5525 1.136057 GCCACTTTTGTCGACGGAATC 60.136 52.381 11.62 0.00 0.00 2.52
2672 5556 2.579657 CGCACTACACCCAGGTCCA 61.580 63.158 0.00 0.00 0.00 4.02
2677 5561 0.898789 CTACACCCAGGTCCACTCGT 60.899 60.000 0.00 0.00 0.00 4.18
2681 5565 4.436998 CCAGGTCCACTCGTCGGC 62.437 72.222 0.00 0.00 0.00 5.54
2745 5680 4.570663 GGATCGACCGCCACCGAG 62.571 72.222 0.00 0.00 38.25 4.63
2746 5681 3.823330 GATCGACCGCCACCGAGT 61.823 66.667 0.00 0.00 38.25 4.18
2747 5682 3.753070 GATCGACCGCCACCGAGTC 62.753 68.421 0.00 0.00 38.25 3.36
2789 5724 2.757077 CCGGTGAGCCCCTTTTCT 59.243 61.111 0.00 0.00 0.00 2.52
2797 5732 1.984570 GCCCCTTTTCTGCCCCTTC 60.985 63.158 0.00 0.00 0.00 3.46
2810 5745 2.024871 CCTTCTAGCTCGACCGCG 59.975 66.667 0.00 0.00 39.35 6.46
2833 5768 3.119463 GGTGTTCAAATTTCGTTGATGCG 59.881 43.478 0.00 0.00 37.36 4.73
2839 5774 1.725641 ATTTCGTTGATGCGAGCTCA 58.274 45.000 15.40 0.00 42.10 4.26
2841 5776 0.038251 TTCGTTGATGCGAGCTCAGT 60.038 50.000 15.40 0.00 42.10 3.41
2875 5810 1.039233 ATGGATTTGAGCCCTTGCGG 61.039 55.000 0.00 0.00 44.33 5.69
2891 5827 4.483711 GGGCATTTTTGCTCGAGC 57.516 55.556 30.42 30.42 42.50 5.03
2902 5838 1.842686 GCTCGAGCATTCGTCATCG 59.157 57.895 31.91 0.00 46.72 3.84
2943 5879 1.202568 CGATGCTAAAGCGCCATCG 59.797 57.895 24.33 24.33 45.83 3.84
2984 5920 0.970937 CCTAGCCGTGAAGGAGGTCA 60.971 60.000 0.00 0.00 45.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
155 2949 4.158394 GTCAAGATTTCTTTGCCTGGCATA 59.842 41.667 24.03 17.16 38.76 3.14
348 3142 2.131023 ACTTGGAGGGATCCTTGGATC 58.869 52.381 18.64 18.64 31.76 3.36
422 3216 5.832595 TGGAAAGAAATTGAACATGGTCTGA 59.167 36.000 12.94 0.76 0.00 3.27
489 3283 4.499188 CGAGCGAAGTACTATCCCAATGAA 60.499 45.833 0.00 0.00 0.00 2.57
490 3284 3.004419 CGAGCGAAGTACTATCCCAATGA 59.996 47.826 0.00 0.00 0.00 2.57
519 3313 3.199677 TCCAGAAAGTTTGTGTACACGG 58.800 45.455 20.61 12.13 0.00 4.94
524 3318 8.160765 TCCTTGATAATCCAGAAAGTTTGTGTA 58.839 33.333 11.43 0.00 0.00 2.90
568 3362 2.766263 TGGGAGCTCTATGTAACTGGTG 59.234 50.000 14.64 0.00 0.00 4.17
573 3367 4.636206 CCAGTTTTGGGAGCTCTATGTAAC 59.364 45.833 14.64 11.46 41.05 2.50
619 3416 6.969993 TTTGCTAAACAAATTGGGAGTAGT 57.030 33.333 0.00 0.00 43.35 2.73
676 3520 1.226746 CCTCACTTCACGTTCAACCC 58.773 55.000 0.00 0.00 0.00 4.11
685 3530 1.968540 GCTGGCCACCTCACTTCAC 60.969 63.158 0.00 0.00 0.00 3.18
694 3539 3.446570 GTGCATGAGCTGGCCACC 61.447 66.667 0.00 0.00 42.74 4.61
758 3603 8.662141 GCAGTAAGATTTAACTTATTTCCGTCA 58.338 33.333 0.00 0.00 35.32 4.35
767 3612 8.534333 CAGACACTGCAGTAAGATTTAACTTA 57.466 34.615 21.20 0.00 0.00 2.24
803 3649 1.490258 CGATTCATGCTCCATCGCG 59.510 57.895 0.00 0.00 33.94 5.87
890 3736 2.039879 GTGAGCTGTAAAAGGGAAGGGA 59.960 50.000 0.00 0.00 0.00 4.20
891 3737 2.224769 TGTGAGCTGTAAAAGGGAAGGG 60.225 50.000 0.00 0.00 0.00 3.95
892 3738 3.140325 TGTGAGCTGTAAAAGGGAAGG 57.860 47.619 0.00 0.00 0.00 3.46
893 3739 4.022849 CCTTTGTGAGCTGTAAAAGGGAAG 60.023 45.833 17.33 0.65 43.23 3.46
894 3740 3.888930 CCTTTGTGAGCTGTAAAAGGGAA 59.111 43.478 17.33 0.00 43.23 3.97
1295 4153 4.116328 CGAACTCGAGCTCCGCCA 62.116 66.667 13.61 0.00 43.02 5.69
1329 4187 4.898607 TTGAGCGCCTCAACCTTT 57.101 50.000 15.33 0.00 44.27 3.11
1399 4257 4.637489 CTCCCGCATCCTCGCTCG 62.637 72.222 0.00 0.00 0.00 5.03
1400 4258 4.292178 CCTCCCGCATCCTCGCTC 62.292 72.222 0.00 0.00 0.00 5.03
1401 4259 4.841617 TCCTCCCGCATCCTCGCT 62.842 66.667 0.00 0.00 0.00 4.93
1402 4260 4.292178 CTCCTCCCGCATCCTCGC 62.292 72.222 0.00 0.00 0.00 5.03
1403 4261 4.292178 GCTCCTCCCGCATCCTCG 62.292 72.222 0.00 0.00 0.00 4.63
1404 4262 2.841988 AGCTCCTCCCGCATCCTC 60.842 66.667 0.00 0.00 0.00 3.71
1405 4263 2.841988 GAGCTCCTCCCGCATCCT 60.842 66.667 0.87 0.00 0.00 3.24
1406 4264 4.292178 CGAGCTCCTCCCGCATCC 62.292 72.222 8.47 0.00 0.00 3.51
1407 4265 3.219928 TCGAGCTCCTCCCGCATC 61.220 66.667 8.47 0.00 0.00 3.91
1408 4266 3.532155 GTCGAGCTCCTCCCGCAT 61.532 66.667 8.47 0.00 0.00 4.73
1411 4269 3.578272 CTCGTCGAGCTCCTCCCG 61.578 72.222 9.74 5.43 0.00 5.14
1412 4270 3.213402 CCTCGTCGAGCTCCTCCC 61.213 72.222 17.02 0.00 0.00 4.30
1413 4271 2.124653 TCCTCGTCGAGCTCCTCC 60.125 66.667 17.02 0.00 0.00 4.30
1414 4272 3.416490 CTCCTCGTCGAGCTCCTC 58.584 66.667 17.02 0.15 0.00 3.71
1525 4383 2.436646 AAGCTTCATCCGCACCCG 60.437 61.111 0.00 0.00 0.00 5.28
1875 4733 1.453155 GTTGGCACTCGATGTTGGAT 58.547 50.000 0.00 0.00 0.00 3.41
2086 4951 0.322975 GAGCACCTGGAAGCTTCTCA 59.677 55.000 25.05 19.06 42.04 3.27
2087 4952 0.612744 AGAGCACCTGGAAGCTTCTC 59.387 55.000 25.05 15.71 42.04 2.87
2096 4961 2.665165 AGATGAGACTAGAGCACCTGG 58.335 52.381 0.00 0.00 0.00 4.45
2191 5056 2.721167 CGAGCTCGATTCCACCCCA 61.721 63.158 32.06 0.00 43.02 4.96
2193 5058 2.107141 CCGAGCTCGATTCCACCC 59.893 66.667 36.59 0.00 43.02 4.61
2202 5067 3.376935 AATGGCCACTCCGAGCTCG 62.377 63.158 29.06 29.06 37.80 5.03
2221 5086 1.640069 CGTCATGCCGCTGAATCAG 59.360 57.895 5.78 5.78 34.12 2.90
2252 5117 0.107410 AACCGAAGCAAGTGTGTCCA 60.107 50.000 0.00 0.00 0.00 4.02
2269 5134 1.352156 GACATCAGACGGACGCCAAC 61.352 60.000 0.00 0.00 0.00 3.77
2271 5136 2.272447 TGACATCAGACGGACGCCA 61.272 57.895 0.00 0.00 0.00 5.69
2273 5138 1.805945 GGTGACATCAGACGGACGC 60.806 63.158 0.00 0.00 0.00 5.19
2296 5164 2.432628 GGCACGAACTGGGAGTCG 60.433 66.667 0.00 0.00 0.00 4.18
2309 5177 1.079503 GACTCCACGAAAGATGGCAC 58.920 55.000 0.00 0.00 37.13 5.01
2337 5205 2.810274 CACACTGAACCTGAATCCACTG 59.190 50.000 0.00 0.00 0.00 3.66
2355 5223 1.344953 AAGGCACCCTCACAGTCACA 61.345 55.000 0.00 0.00 30.89 3.58
2356 5224 0.886490 CAAGGCACCCTCACAGTCAC 60.886 60.000 0.00 0.00 30.89 3.67
2357 5225 1.451504 CAAGGCACCCTCACAGTCA 59.548 57.895 0.00 0.00 30.89 3.41
2358 5226 1.968540 GCAAGGCACCCTCACAGTC 60.969 63.158 0.00 0.00 30.89 3.51
2359 5227 1.999634 AAGCAAGGCACCCTCACAGT 62.000 55.000 0.00 0.00 30.89 3.55
2360 5228 0.036732 TAAGCAAGGCACCCTCACAG 59.963 55.000 0.00 0.00 30.89 3.66
2381 5249 0.397816 AAGGGTCCGCTAGAGATGCT 60.398 55.000 0.00 0.00 0.00 3.79
2382 5250 0.466124 AAAGGGTCCGCTAGAGATGC 59.534 55.000 0.00 0.00 0.00 3.91
2383 5251 5.419155 TGATATAAAGGGTCCGCTAGAGATG 59.581 44.000 0.00 0.00 0.00 2.90
2384 5252 5.580998 TGATATAAAGGGTCCGCTAGAGAT 58.419 41.667 0.00 0.00 0.00 2.75
2385 5253 4.994282 TGATATAAAGGGTCCGCTAGAGA 58.006 43.478 0.00 0.00 0.00 3.10
2386 5254 5.163499 GGATGATATAAAGGGTCCGCTAGAG 60.163 48.000 0.00 0.00 0.00 2.43
2387 5255 4.710375 GGATGATATAAAGGGTCCGCTAGA 59.290 45.833 0.00 0.00 0.00 2.43
2388 5256 4.141914 GGGATGATATAAAGGGTCCGCTAG 60.142 50.000 0.00 0.00 0.00 3.42
2389 5257 3.773119 GGGATGATATAAAGGGTCCGCTA 59.227 47.826 0.00 0.00 0.00 4.26
2390 5258 2.572104 GGGATGATATAAAGGGTCCGCT 59.428 50.000 0.00 0.00 0.00 5.52
2391 5259 2.677037 CGGGATGATATAAAGGGTCCGC 60.677 54.545 0.00 0.00 0.00 5.54
2392 5260 2.829720 TCGGGATGATATAAAGGGTCCG 59.170 50.000 0.00 0.00 36.70 4.79
2393 5261 3.055312 GGTCGGGATGATATAAAGGGTCC 60.055 52.174 0.00 0.00 0.00 4.46
2394 5262 3.055312 GGGTCGGGATGATATAAAGGGTC 60.055 52.174 0.00 0.00 0.00 4.46
2395 5263 2.910977 GGGTCGGGATGATATAAAGGGT 59.089 50.000 0.00 0.00 0.00 4.34
2396 5264 2.910319 TGGGTCGGGATGATATAAAGGG 59.090 50.000 0.00 0.00 0.00 3.95
2397 5265 4.844349 ATGGGTCGGGATGATATAAAGG 57.156 45.455 0.00 0.00 0.00 3.11
2398 5266 8.807948 ATTTTATGGGTCGGGATGATATAAAG 57.192 34.615 0.00 0.00 0.00 1.85
2402 5270 7.715249 CGATTATTTTATGGGTCGGGATGATAT 59.285 37.037 0.00 0.00 0.00 1.63
2403 5271 7.045416 CGATTATTTTATGGGTCGGGATGATA 58.955 38.462 0.00 0.00 0.00 2.15
2404 5272 5.880332 CGATTATTTTATGGGTCGGGATGAT 59.120 40.000 0.00 0.00 0.00 2.45
2405 5273 5.221762 ACGATTATTTTATGGGTCGGGATGA 60.222 40.000 0.00 0.00 33.75 2.92
2406 5274 5.001232 ACGATTATTTTATGGGTCGGGATG 58.999 41.667 0.00 0.00 33.75 3.51
2407 5275 5.221762 TGACGATTATTTTATGGGTCGGGAT 60.222 40.000 0.00 0.00 33.75 3.85
2408 5276 4.101274 TGACGATTATTTTATGGGTCGGGA 59.899 41.667 0.00 0.00 33.75 5.14
2409 5277 4.382291 TGACGATTATTTTATGGGTCGGG 58.618 43.478 0.00 0.00 33.75 5.14
2410 5278 6.554334 AATGACGATTATTTTATGGGTCGG 57.446 37.500 0.00 0.00 33.75 4.79
2421 5289 8.901748 GCGCAAAATTGTATAATGACGATTATT 58.098 29.630 0.30 0.00 36.38 1.40
2422 5290 7.268235 CGCGCAAAATTGTATAATGACGATTAT 59.732 33.333 8.75 0.00 38.20 1.28
2423 5291 6.571887 CGCGCAAAATTGTATAATGACGATTA 59.428 34.615 8.75 0.00 33.13 1.75
2424 5292 5.395195 CGCGCAAAATTGTATAATGACGATT 59.605 36.000 8.75 0.00 35.34 3.34
2425 5293 4.903585 CGCGCAAAATTGTATAATGACGAT 59.096 37.500 8.75 0.00 0.00 3.73
2426 5294 4.267733 CGCGCAAAATTGTATAATGACGA 58.732 39.130 8.75 0.00 0.00 4.20
2427 5295 3.417321 CCGCGCAAAATTGTATAATGACG 59.583 43.478 8.75 0.00 0.00 4.35
2428 5296 4.593157 TCCGCGCAAAATTGTATAATGAC 58.407 39.130 8.75 0.00 0.00 3.06
2429 5297 4.884458 TCCGCGCAAAATTGTATAATGA 57.116 36.364 8.75 0.00 0.00 2.57
2430 5298 4.085619 GCTTCCGCGCAAAATTGTATAATG 60.086 41.667 8.75 0.00 0.00 1.90
2431 5299 4.041723 GCTTCCGCGCAAAATTGTATAAT 58.958 39.130 8.75 0.00 0.00 1.28
2432 5300 3.119814 TGCTTCCGCGCAAAATTGTATAA 60.120 39.130 8.75 0.00 39.65 0.98
2433 5301 2.420372 TGCTTCCGCGCAAAATTGTATA 59.580 40.909 8.75 0.00 39.65 1.47
2434 5302 1.201181 TGCTTCCGCGCAAAATTGTAT 59.799 42.857 8.75 0.00 39.65 2.29
2435 5303 0.593618 TGCTTCCGCGCAAAATTGTA 59.406 45.000 8.75 0.00 39.65 2.41
2436 5304 0.664166 CTGCTTCCGCGCAAAATTGT 60.664 50.000 8.75 0.00 39.80 2.71
2437 5305 0.664166 ACTGCTTCCGCGCAAAATTG 60.664 50.000 8.75 0.00 39.80 2.32
2438 5306 0.664166 CACTGCTTCCGCGCAAAATT 60.664 50.000 8.75 0.00 39.80 1.82
2439 5307 1.081242 CACTGCTTCCGCGCAAAAT 60.081 52.632 8.75 0.00 39.80 1.82
2440 5308 2.331098 CACTGCTTCCGCGCAAAA 59.669 55.556 8.75 0.00 39.80 2.44
2441 5309 2.892334 GACACTGCTTCCGCGCAAA 61.892 57.895 8.75 0.00 39.80 3.68
2442 5310 3.345808 GACACTGCTTCCGCGCAA 61.346 61.111 8.75 0.00 39.80 4.85
2443 5311 4.299547 AGACACTGCTTCCGCGCA 62.300 61.111 8.75 0.00 39.65 6.09
2444 5312 3.482783 GAGACACTGCTTCCGCGC 61.483 66.667 0.00 0.00 39.65 6.86
2445 5313 3.175240 CGAGACACTGCTTCCGCG 61.175 66.667 0.00 0.00 39.65 6.46
2446 5314 1.372997 TTCGAGACACTGCTTCCGC 60.373 57.895 0.00 0.00 0.00 5.54
2447 5315 0.318699 TGTTCGAGACACTGCTTCCG 60.319 55.000 0.00 0.00 32.00 4.30
2448 5316 1.000163 TCTGTTCGAGACACTGCTTCC 60.000 52.381 0.00 0.00 33.82 3.46
2449 5317 2.423926 TCTGTTCGAGACACTGCTTC 57.576 50.000 0.00 0.00 33.82 3.86
2450 5318 2.866762 GTTTCTGTTCGAGACACTGCTT 59.133 45.455 0.00 0.00 33.82 3.91
2451 5319 2.474816 GTTTCTGTTCGAGACACTGCT 58.525 47.619 0.00 0.00 33.82 4.24
2452 5320 1.527311 GGTTTCTGTTCGAGACACTGC 59.473 52.381 0.00 0.00 32.68 4.40
2453 5321 2.821546 TGGTTTCTGTTCGAGACACTG 58.178 47.619 0.00 0.00 32.68 3.66
2454 5322 3.753294 ATGGTTTCTGTTCGAGACACT 57.247 42.857 0.00 0.00 32.68 3.55
2455 5323 5.611844 CGTTTATGGTTTCTGTTCGAGACAC 60.612 44.000 0.00 0.00 33.82 3.67
2456 5324 4.446385 CGTTTATGGTTTCTGTTCGAGACA 59.554 41.667 0.00 0.00 36.65 3.41
2457 5325 4.446719 ACGTTTATGGTTTCTGTTCGAGAC 59.553 41.667 0.00 0.00 0.00 3.36
2458 5326 4.446385 CACGTTTATGGTTTCTGTTCGAGA 59.554 41.667 0.00 0.00 0.00 4.04
2459 5327 4.210537 ACACGTTTATGGTTTCTGTTCGAG 59.789 41.667 0.00 0.00 0.00 4.04
2460 5328 4.121317 ACACGTTTATGGTTTCTGTTCGA 58.879 39.130 0.00 0.00 0.00 3.71
2461 5329 4.451557 GACACGTTTATGGTTTCTGTTCG 58.548 43.478 0.00 0.00 0.00 3.95
2462 5330 4.609783 CGGACACGTTTATGGTTTCTGTTC 60.610 45.833 0.00 0.00 34.81 3.18
2463 5331 3.249080 CGGACACGTTTATGGTTTCTGTT 59.751 43.478 0.00 0.00 34.81 3.16
2464 5332 2.803956 CGGACACGTTTATGGTTTCTGT 59.196 45.455 0.00 0.00 34.81 3.41
2465 5333 2.412325 GCGGACACGTTTATGGTTTCTG 60.412 50.000 0.00 0.00 43.45 3.02
2466 5334 1.802365 GCGGACACGTTTATGGTTTCT 59.198 47.619 0.00 0.00 43.45 2.52
2467 5335 1.135888 GGCGGACACGTTTATGGTTTC 60.136 52.381 0.00 0.00 43.45 2.78
2468 5336 0.876399 GGCGGACACGTTTATGGTTT 59.124 50.000 0.00 0.00 43.45 3.27
2469 5337 0.035739 AGGCGGACACGTTTATGGTT 59.964 50.000 0.00 0.00 43.45 3.67
2470 5338 0.035739 AAGGCGGACACGTTTATGGT 59.964 50.000 0.00 0.00 43.45 3.55
2471 5339 2.012937 TAAGGCGGACACGTTTATGG 57.987 50.000 0.00 0.00 43.45 2.74
2472 5340 4.407496 TTTTAAGGCGGACACGTTTATG 57.593 40.909 0.00 0.00 43.45 1.90
2492 5360 1.191489 CCCCGCACCCCTCAATTTTT 61.191 55.000 0.00 0.00 0.00 1.94
2493 5361 1.609210 CCCCGCACCCCTCAATTTT 60.609 57.895 0.00 0.00 0.00 1.82
2494 5362 2.037208 CCCCGCACCCCTCAATTT 59.963 61.111 0.00 0.00 0.00 1.82
2495 5363 4.759205 GCCCCGCACCCCTCAATT 62.759 66.667 0.00 0.00 0.00 2.32
2513 5381 3.925090 GATACTGGGCCCCGACCG 61.925 72.222 22.27 4.87 29.56 4.79
2514 5382 3.557290 GGATACTGGGCCCCGACC 61.557 72.222 22.27 15.27 0.00 4.79
2534 5402 4.257654 TCCCGCCAACCGCTTTGA 62.258 61.111 0.00 0.00 37.39 2.69
2535 5403 3.737172 CTCCCGCCAACCGCTTTG 61.737 66.667 0.00 0.00 35.03 2.77
2565 5433 2.323447 GATTTAGGGAACGCGCGC 59.677 61.111 32.58 23.91 0.00 6.86
2569 5437 0.179026 GGAGGGGATTTAGGGAACGC 60.179 60.000 0.00 0.00 0.00 4.84
2577 5445 2.752807 GGCTGCGGGAGGGGATTTA 61.753 63.158 0.00 0.00 0.00 1.40
2600 5469 1.663379 GGAAATGTAGGCAACGGGGC 61.663 60.000 0.00 0.00 46.39 5.80
2603 5472 2.094904 CCGGAAATGTAGGCAACGG 58.905 57.895 0.00 0.00 46.39 4.44
2609 5478 1.834188 AAAGTGGCCGGAAATGTAGG 58.166 50.000 5.05 0.00 0.00 3.18
2611 5480 2.554893 GACAAAAGTGGCCGGAAATGTA 59.445 45.455 5.05 0.00 0.00 2.29
2612 5481 1.339929 GACAAAAGTGGCCGGAAATGT 59.660 47.619 5.05 0.00 0.00 2.71
2614 5483 0.596082 CGACAAAAGTGGCCGGAAAT 59.404 50.000 5.05 0.00 0.00 2.17
2621 5505 0.872388 ATTCCGTCGACAAAAGTGGC 59.128 50.000 17.16 0.00 0.00 5.01
2730 5665 3.823330 GACTCGGTGGCGGTCGAT 61.823 66.667 0.00 0.00 34.77 3.59
2753 5688 4.444838 TGCGGTCGATTCGGGGTG 62.445 66.667 6.18 0.00 0.00 4.61
2754 5689 4.143333 CTGCGGTCGATTCGGGGT 62.143 66.667 6.18 0.00 0.00 4.95
2759 5694 4.814294 ACCGGCTGCGGTCGATTC 62.814 66.667 23.59 0.00 44.06 2.52
2789 5724 2.058595 GGTCGAGCTAGAAGGGGCA 61.059 63.158 7.51 0.00 0.00 5.36
2797 5732 4.554363 CACCCGCGGTCGAGCTAG 62.554 72.222 26.12 8.44 38.10 3.42
2810 5745 3.428534 GCATCAACGAAATTTGAACACCC 59.571 43.478 0.00 0.00 38.95 4.61
2817 5752 2.842485 GAGCTCGCATCAACGAAATTTG 59.158 45.455 0.00 0.00 42.39 2.32
2833 5768 1.065551 ACAAAAACCGCAACTGAGCTC 59.934 47.619 6.82 6.82 0.00 4.09
2839 5774 3.482436 TCCATCTACAAAAACCGCAACT 58.518 40.909 0.00 0.00 0.00 3.16
2841 5776 5.010112 TCAAATCCATCTACAAAAACCGCAA 59.990 36.000 0.00 0.00 0.00 4.85
2916 5852 1.993370 GCTTTAGCATCGACTCAACGT 59.007 47.619 0.00 0.00 41.59 3.99
2919 5855 0.999406 GCGCTTTAGCATCGACTCAA 59.001 50.000 0.00 0.00 42.21 3.02
2920 5856 0.806102 GGCGCTTTAGCATCGACTCA 60.806 55.000 7.64 0.00 42.21 3.41
2943 5879 3.443045 CCGCCACCATCTGTTGCC 61.443 66.667 0.00 0.00 32.08 4.52


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

AutoCloner maintained by Alex Coulton.