Multiple sequence alignment - TraesCS3A01G061800

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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 TraesCS3A01G061800 chr3A 100.000 2495 0 0 1 2495 36946731 36944237 0.000000e+00 4608.0
1 TraesCS3A01G061800 chr3A 89.780 1634 100 27 636 2255 37305749 37304169 0.000000e+00 2030.0
2 TraesCS3A01G061800 chr3A 91.920 1250 68 13 740 1981 37242805 37241581 0.000000e+00 1718.0
3 TraesCS3A01G061800 chr3A 89.233 678 45 10 1 658 37243504 37242835 0.000000e+00 822.0
4 TraesCS3A01G061800 chr3A 79.710 138 17 4 2049 2176 657302484 657302348 3.420000e-14 89.8
5 TraesCS3A01G061800 chr3D 91.243 1770 112 28 477 2227 27053650 27055395 0.000000e+00 2370.0
6 TraesCS3A01G061800 chr3D 93.599 1203 53 12 477 1664 26687724 26686531 0.000000e+00 1773.0
7 TraesCS3A01G061800 chr3D 84.947 1807 178 59 485 2255 26809229 26810977 0.000000e+00 1744.0
8 TraesCS3A01G061800 chrUn 87.828 1717 149 22 527 2226 336342460 336344133 0.000000e+00 1958.0
9 TraesCS3A01G061800 chrUn 87.711 1717 151 22 527 2226 39212308 39210635 0.000000e+00 1947.0
10 TraesCS3A01G061800 chrUn 87.711 1717 151 22 527 2226 336353128 336354801 0.000000e+00 1947.0
11 TraesCS3A01G061800 chrUn 91.850 1092 71 10 479 1563 38655666 38656746 0.000000e+00 1507.0
12 TraesCS3A01G061800 chrUn 84.317 695 71 13 1540 2226 311241690 311242354 0.000000e+00 645.0
13 TraesCS3A01G061800 chrUn 88.254 315 30 7 1915 2226 38657137 38657447 1.090000e-98 370.0
14 TraesCS3A01G061800 chrUn 88.412 233 23 3 2266 2495 315958453 315958684 6.800000e-71 278.0
15 TraesCS3A01G061800 chrUn 89.720 214 18 4 2285 2495 275012200 275011988 1.140000e-68 270.0
16 TraesCS3A01G061800 chr3B 79.482 926 110 43 694 1603 45367416 45366555 3.580000e-163 584.0
17 TraesCS3A01G061800 chr1D 88.347 472 27 11 1 445 253216860 253217330 2.180000e-150 542.0
18 TraesCS3A01G061800 chr5D 88.073 436 37 7 1 427 302376391 302375962 1.030000e-138 503.0
19 TraesCS3A01G061800 chr5D 89.344 244 21 3 2256 2494 423328465 423328222 4.030000e-78 302.0
20 TraesCS3A01G061800 chr5D 87.190 242 28 3 2257 2495 301100310 301100551 3.160000e-69 272.0
21 TraesCS3A01G061800 chr5D 84.524 84 11 2 2242 2323 408743959 408744042 5.720000e-12 82.4
22 TraesCS3A01G061800 chr2B 89.720 214 18 4 2285 2495 797552111 797551899 1.140000e-68 270.0
23 TraesCS3A01G061800 chr7A 86.408 206 22 5 2290 2494 566146571 566146771 1.160000e-53 220.0
24 TraesCS3A01G061800 chr2A 89.571 163 16 1 2254 2415 777047428 777047266 3.250000e-49 206.0
25 TraesCS3A01G061800 chr2D 87.647 170 15 3 2327 2494 24864195 24864360 2.530000e-45 193.0
26 TraesCS3A01G061800 chr5B 79.487 234 36 12 2256 2485 54478051 54477826 3.320000e-34 156.0
27 TraesCS3A01G061800 chr7B 81.609 87 12 2 2052 2137 485426902 485426985 4.450000e-08 69.4


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 TraesCS3A01G061800 chr3A 36944237 36946731 2494 True 4608.0 4608 100.0000 1 2495 1 chr3A.!!$R1 2494
1 TraesCS3A01G061800 chr3A 37304169 37305749 1580 True 2030.0 2030 89.7800 636 2255 1 chr3A.!!$R2 1619
2 TraesCS3A01G061800 chr3A 37241581 37243504 1923 True 1270.0 1718 90.5765 1 1981 2 chr3A.!!$R4 1980
3 TraesCS3A01G061800 chr3D 27053650 27055395 1745 False 2370.0 2370 91.2430 477 2227 1 chr3D.!!$F2 1750
4 TraesCS3A01G061800 chr3D 26686531 26687724 1193 True 1773.0 1773 93.5990 477 1664 1 chr3D.!!$R1 1187
5 TraesCS3A01G061800 chr3D 26809229 26810977 1748 False 1744.0 1744 84.9470 485 2255 1 chr3D.!!$F1 1770
6 TraesCS3A01G061800 chrUn 336342460 336344133 1673 False 1958.0 1958 87.8280 527 2226 1 chrUn.!!$F3 1699
7 TraesCS3A01G061800 chrUn 39210635 39212308 1673 True 1947.0 1947 87.7110 527 2226 1 chrUn.!!$R1 1699
8 TraesCS3A01G061800 chrUn 336353128 336354801 1673 False 1947.0 1947 87.7110 527 2226 1 chrUn.!!$F4 1699
9 TraesCS3A01G061800 chrUn 38655666 38657447 1781 False 938.5 1507 90.0520 479 2226 2 chrUn.!!$F5 1747
10 TraesCS3A01G061800 chrUn 311241690 311242354 664 False 645.0 645 84.3170 1540 2226 1 chrUn.!!$F1 686
11 TraesCS3A01G061800 chr3B 45366555 45367416 861 True 584.0 584 79.4820 694 1603 1 chr3B.!!$R1 909

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
678 720 0.249073 GTGTGAGGCGTATGCGATCT 60.249 55.0 7.6 3.07 44.1 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2308 2524 0.029567 CTGTATCAGACCGACGGCTC 59.97 60.0 15.39 10.92 32.44 4.7 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
36 40 4.324991 GAAGTGGCCCCCGTCGTT 62.325 66.667 0.00 0.00 0.00 3.85
37 41 4.636435 AAGTGGCCCCCGTCGTTG 62.636 66.667 0.00 0.00 0.00 4.10
282 301 0.617935 TCGATTGCATTGTCCAGGGA 59.382 50.000 0.00 0.00 0.00 4.20
292 311 4.465446 TCCAGGGAGGCGGAGGAG 62.465 72.222 0.00 0.00 37.29 3.69
311 330 4.689549 TCGAAGGAGGGGCGGTGA 62.690 66.667 0.00 0.00 0.00 4.02
326 345 1.444553 GTGAAGAGAGGACGCGGTG 60.445 63.158 12.47 0.00 0.00 4.94
344 363 0.470080 TGGGGATCTCAGATCCGGTC 60.470 60.000 24.94 17.44 39.07 4.79
345 364 1.528292 GGGGATCTCAGATCCGGTCG 61.528 65.000 24.94 0.00 39.07 4.79
349 368 1.739338 ATCTCAGATCCGGTCGTGGC 61.739 60.000 0.00 0.00 0.00 5.01
384 403 1.075151 GGAGGAAGGAGATCGGGGT 60.075 63.158 0.00 0.00 0.00 4.95
386 405 2.034048 GAGGAAGGAGATCGGGGTGC 62.034 65.000 0.00 0.00 0.00 5.01
442 461 1.369321 GAGATGCGAGACCCATCCC 59.631 63.158 0.00 0.00 39.87 3.85
458 477 0.988145 TCCCCTCGAATCCCTGCATT 60.988 55.000 0.00 0.00 0.00 3.56
562 590 6.832520 TTGCTGGCTCTATTTTATTGTTCA 57.167 33.333 0.00 0.00 0.00 3.18
598 628 0.674895 AACGAGGGCTTCACATGCTC 60.675 55.000 0.00 0.00 0.00 4.26
600 630 1.817099 GAGGGCTTCACATGCTCGG 60.817 63.158 0.00 0.00 35.78 4.63
647 683 1.668101 AAGCGACGGAGGACCAGATC 61.668 60.000 0.00 0.00 35.59 2.75
655 691 2.041081 CGGAGGACCAGATCTAGGAGAT 59.959 54.545 15.51 0.00 35.04 2.75
669 706 2.180276 AGGAGATTAAGTGTGAGGCGT 58.820 47.619 0.00 0.00 0.00 5.68
678 720 0.249073 GTGTGAGGCGTATGCGATCT 60.249 55.000 7.60 3.07 44.10 2.75
823 871 7.655732 GCATATACCCCAATTTAATTGTGGAAC 59.344 37.037 22.42 4.80 39.77 3.62
914 969 2.008242 ACTGCTCCATCTAGGCCTAG 57.992 55.000 30.94 30.94 37.29 3.02
962 1033 7.031372 CAGAATAGCATTACAACAAGCACAAT 58.969 34.615 0.00 0.00 0.00 2.71
983 1058 5.834239 ATACACACGTACAGCAAAAGTAC 57.166 39.130 0.00 0.00 38.71 2.73
984 1059 3.788937 ACACACGTACAGCAAAAGTACT 58.211 40.909 0.00 0.00 39.66 2.73
985 1060 4.186159 ACACACGTACAGCAAAAGTACTT 58.814 39.130 1.12 1.12 39.66 2.24
986 1061 5.350633 ACACACGTACAGCAAAAGTACTTA 58.649 37.500 8.92 0.00 39.66 2.24
1070 1152 3.801698 TCTGCAGCAGAGGTATTCAATC 58.198 45.455 21.85 0.00 35.39 2.67
1338 1425 0.253327 GGTTCAAATCCTCCGAGCCT 59.747 55.000 0.00 0.00 0.00 4.58
1413 1500 2.995547 GGCTCCCCGGTGTACAAT 59.004 61.111 0.00 0.00 0.00 2.71
1416 1503 1.988015 CTCCCCGGTGTACAATGGT 59.012 57.895 12.32 0.00 0.00 3.55
1593 1769 4.446994 TTAATCCGCACATGCATGAAAA 57.553 36.364 32.75 13.10 42.21 2.29
1694 1873 3.318839 TCCCAAGAAAAAGTCAGCACATG 59.681 43.478 0.00 0.00 0.00 3.21
1704 1883 9.098355 GAAAAAGTCAGCACATGATATACAGTA 57.902 33.333 0.00 0.00 40.92 2.74
1782 1969 1.202521 ACGTGCTTCACAGTGTCATGA 60.203 47.619 14.75 0.00 33.40 3.07
1829 2023 2.541762 GTGCCATCGTAGCTCTCATTTC 59.458 50.000 0.00 0.00 0.00 2.17
1838 2032 5.812642 TCGTAGCTCTCATTTCCTTGAAATC 59.187 40.000 0.00 0.00 39.82 2.17
1866 2060 9.204570 GTAATTAGTGTCTGTTTGTCATACTGT 57.795 33.333 0.00 0.00 0.00 3.55
1878 2072 9.814899 TGTTTGTCATACTGTGAATCAAAATTT 57.185 25.926 0.00 0.00 38.90 1.82
1963 2171 9.553064 AGATATGTTCACAAGTTTGGAGATATC 57.447 33.333 11.49 11.49 0.00 1.63
2151 2365 6.358974 AAAATATTTCAGACCCCACCAAAG 57.641 37.500 0.10 0.00 0.00 2.77
2163 2377 5.189928 ACCCCACCAAAGTTTTGAAAATTC 58.810 37.500 6.18 0.00 40.55 2.17
2165 2379 4.578516 CCCACCAAAGTTTTGAAAATTCCC 59.421 41.667 6.18 0.00 40.55 3.97
2227 2443 8.249638 GGTATTATCGGTAGGATTTAGAGTTCC 58.750 40.741 0.00 0.00 36.55 3.62
2231 2447 4.648307 TCGGTAGGATTTAGAGTTCCTTCC 59.352 45.833 4.94 4.94 42.91 3.46
2236 2452 3.606687 GATTTAGAGTTCCTTCCGCCAA 58.393 45.455 0.00 0.00 0.00 4.52
2255 2471 5.444877 CGCCAAACTTGTGCATATGATTTTG 60.445 40.000 6.97 2.87 0.00 2.44
2256 2472 5.163834 GCCAAACTTGTGCATATGATTTTGG 60.164 40.000 18.60 18.60 43.02 3.28
2257 2473 5.352016 CCAAACTTGTGCATATGATTTTGGG 59.648 40.000 16.68 2.24 38.61 4.12
2258 2474 4.741321 ACTTGTGCATATGATTTTGGGG 57.259 40.909 6.97 0.00 0.00 4.96
2259 2475 3.451902 ACTTGTGCATATGATTTTGGGGG 59.548 43.478 6.97 0.00 0.00 5.40
2260 2476 1.761784 TGTGCATATGATTTTGGGGGC 59.238 47.619 6.97 0.00 0.00 5.80
2261 2477 2.041701 GTGCATATGATTTTGGGGGCT 58.958 47.619 6.97 0.00 0.00 5.19
2262 2478 2.040939 TGCATATGATTTTGGGGGCTG 58.959 47.619 6.97 0.00 0.00 4.85
2263 2479 1.270465 GCATATGATTTTGGGGGCTGC 60.270 52.381 6.97 0.00 0.00 5.25
2264 2480 2.322658 CATATGATTTTGGGGGCTGCT 58.677 47.619 0.00 0.00 0.00 4.24
2265 2481 3.499338 CATATGATTTTGGGGGCTGCTA 58.501 45.455 0.00 0.00 0.00 3.49
2266 2482 1.780503 ATGATTTTGGGGGCTGCTAC 58.219 50.000 0.00 0.00 0.00 3.58
2267 2483 0.679640 TGATTTTGGGGGCTGCTACG 60.680 55.000 0.00 0.00 0.00 3.51
2268 2484 2.004808 GATTTTGGGGGCTGCTACGC 62.005 60.000 0.00 2.33 0.00 4.42
2269 2485 2.779742 ATTTTGGGGGCTGCTACGCA 62.780 55.000 0.00 5.10 36.92 5.24
2270 2486 2.779742 TTTTGGGGGCTGCTACGCAT 62.780 55.000 13.19 0.00 38.13 4.73
2271 2487 3.697439 TTGGGGGCTGCTACGCATC 62.697 63.158 13.19 0.00 38.13 3.91
2284 2500 4.241555 GCATCGGCCGGTGGATCT 62.242 66.667 37.64 6.10 0.00 2.75
2285 2501 2.505982 CATCGGCCGGTGGATCTT 59.494 61.111 31.13 0.00 0.00 2.40
2286 2502 1.153168 CATCGGCCGGTGGATCTTT 60.153 57.895 31.13 0.00 0.00 2.52
2287 2503 0.748005 CATCGGCCGGTGGATCTTTT 60.748 55.000 31.13 0.00 0.00 2.27
2288 2504 0.034477 ATCGGCCGGTGGATCTTTTT 60.034 50.000 27.83 0.00 0.00 1.94
2289 2505 0.614294 TCGGCCGGTGGATCTTTTTA 59.386 50.000 27.83 0.00 0.00 1.52
2290 2506 1.003349 TCGGCCGGTGGATCTTTTTAA 59.997 47.619 27.83 0.00 0.00 1.52
2291 2507 1.813786 CGGCCGGTGGATCTTTTTAAA 59.186 47.619 20.10 0.00 0.00 1.52
2292 2508 2.229302 CGGCCGGTGGATCTTTTTAAAA 59.771 45.455 20.10 0.00 0.00 1.52
2293 2509 3.672241 CGGCCGGTGGATCTTTTTAAAAG 60.672 47.826 20.10 10.89 0.00 2.27
2294 2510 3.508402 GGCCGGTGGATCTTTTTAAAAGA 59.492 43.478 20.42 20.42 0.00 2.52
2295 2511 4.159693 GGCCGGTGGATCTTTTTAAAAGAT 59.840 41.667 26.87 26.87 39.53 2.40
2303 2519 4.776795 TCTTTTTAAAAGATCCGCCACC 57.223 40.909 15.24 0.00 0.00 4.61
2304 2520 4.403734 TCTTTTTAAAAGATCCGCCACCT 58.596 39.130 15.24 0.00 0.00 4.00
2305 2521 4.457949 TCTTTTTAAAAGATCCGCCACCTC 59.542 41.667 15.24 0.00 0.00 3.85
2306 2522 2.018542 TTAAAAGATCCGCCACCTCG 57.981 50.000 0.00 0.00 0.00 4.63
2307 2523 0.899720 TAAAAGATCCGCCACCTCGT 59.100 50.000 0.00 0.00 0.00 4.18
2308 2524 0.673644 AAAAGATCCGCCACCTCGTG 60.674 55.000 0.00 0.00 0.00 4.35
2309 2525 1.541310 AAAGATCCGCCACCTCGTGA 61.541 55.000 0.00 0.00 35.23 4.35
2310 2526 1.949847 AAGATCCGCCACCTCGTGAG 61.950 60.000 0.00 0.00 35.23 3.51
2311 2527 4.148825 ATCCGCCACCTCGTGAGC 62.149 66.667 0.00 0.00 35.23 4.26
2316 2532 4.778415 CCACCTCGTGAGCCGTCG 62.778 72.222 0.00 0.00 35.23 5.12
2317 2533 4.778415 CACCTCGTGAGCCGTCGG 62.778 72.222 6.99 6.99 35.23 4.79
2319 2535 4.477975 CCTCGTGAGCCGTCGGTC 62.478 72.222 13.94 9.76 37.94 4.79
2320 2536 3.432588 CTCGTGAGCCGTCGGTCT 61.433 66.667 13.94 10.51 37.40 3.85
2321 2537 3.669036 CTCGTGAGCCGTCGGTCTG 62.669 68.421 13.94 6.71 37.40 3.51
2322 2538 3.733960 CGTGAGCCGTCGGTCTGA 61.734 66.667 13.94 1.82 37.40 3.27
2323 2539 2.885861 GTGAGCCGTCGGTCTGAT 59.114 61.111 13.94 0.00 37.40 2.90
2324 2540 1.712018 CGTGAGCCGTCGGTCTGATA 61.712 60.000 13.94 0.00 37.40 2.15
2325 2541 0.248539 GTGAGCCGTCGGTCTGATAC 60.249 60.000 13.94 6.01 37.40 2.24
2326 2542 0.678684 TGAGCCGTCGGTCTGATACA 60.679 55.000 13.94 2.42 37.40 2.29
2327 2543 0.029567 GAGCCGTCGGTCTGATACAG 59.970 60.000 13.94 0.00 33.54 2.74
2328 2544 0.393944 AGCCGTCGGTCTGATACAGA 60.394 55.000 13.94 0.00 38.25 3.41
2329 2545 0.669077 GCCGTCGGTCTGATACAGAT 59.331 55.000 13.94 0.00 42.73 2.90
2330 2546 1.335142 GCCGTCGGTCTGATACAGATC 60.335 57.143 13.94 3.53 42.73 2.75
2331 2547 2.222886 CCGTCGGTCTGATACAGATCT 58.777 52.381 2.08 0.00 42.73 2.75
2332 2548 3.400255 CCGTCGGTCTGATACAGATCTA 58.600 50.000 2.08 0.00 42.73 1.98
2333 2549 3.433957 CCGTCGGTCTGATACAGATCTAG 59.566 52.174 2.08 0.00 42.73 2.43
2334 2550 4.059511 CGTCGGTCTGATACAGATCTAGT 58.940 47.826 9.76 0.00 42.73 2.57
2335 2551 5.228665 CGTCGGTCTGATACAGATCTAGTA 58.771 45.833 9.76 1.13 42.73 1.82
2336 2552 5.346551 CGTCGGTCTGATACAGATCTAGTAG 59.653 48.000 9.76 0.00 42.73 2.57
2337 2553 5.640357 GTCGGTCTGATACAGATCTAGTAGG 59.360 48.000 9.76 0.00 42.73 3.18
2338 2554 4.938832 CGGTCTGATACAGATCTAGTAGGG 59.061 50.000 9.76 0.00 42.73 3.53
2339 2555 5.513441 CGGTCTGATACAGATCTAGTAGGGT 60.513 48.000 9.76 0.00 42.73 4.34
2340 2556 5.708230 GGTCTGATACAGATCTAGTAGGGTG 59.292 48.000 0.00 0.00 42.73 4.61
2341 2557 6.466038 GGTCTGATACAGATCTAGTAGGGTGA 60.466 46.154 0.00 0.00 42.73 4.02
2342 2558 6.999272 GTCTGATACAGATCTAGTAGGGTGAA 59.001 42.308 0.00 0.00 42.73 3.18
2343 2559 6.999272 TCTGATACAGATCTAGTAGGGTGAAC 59.001 42.308 0.00 0.00 35.39 3.18
2344 2560 6.912426 TGATACAGATCTAGTAGGGTGAACT 58.088 40.000 0.00 0.00 32.79 3.01
2345 2561 7.355101 TGATACAGATCTAGTAGGGTGAACTT 58.645 38.462 0.00 0.00 32.79 2.66
2346 2562 7.502895 TGATACAGATCTAGTAGGGTGAACTTC 59.497 40.741 0.00 0.00 32.79 3.01
2347 2563 5.833340 ACAGATCTAGTAGGGTGAACTTCT 58.167 41.667 0.00 0.00 0.00 2.85
2348 2564 6.257586 ACAGATCTAGTAGGGTGAACTTCTT 58.742 40.000 0.00 0.00 0.00 2.52
2349 2565 6.726764 ACAGATCTAGTAGGGTGAACTTCTTT 59.273 38.462 0.00 0.00 0.00 2.52
2350 2566 7.235812 ACAGATCTAGTAGGGTGAACTTCTTTT 59.764 37.037 0.00 0.00 0.00 2.27
2351 2567 7.762159 CAGATCTAGTAGGGTGAACTTCTTTTC 59.238 40.741 0.00 0.00 0.00 2.29
2352 2568 7.676468 AGATCTAGTAGGGTGAACTTCTTTTCT 59.324 37.037 0.00 0.00 0.00 2.52
2353 2569 7.229581 TCTAGTAGGGTGAACTTCTTTTCTC 57.770 40.000 0.00 0.00 0.00 2.87
2354 2570 7.011382 TCTAGTAGGGTGAACTTCTTTTCTCT 58.989 38.462 0.00 0.00 0.00 3.10
2355 2571 8.168725 TCTAGTAGGGTGAACTTCTTTTCTCTA 58.831 37.037 0.00 0.00 0.00 2.43
2356 2572 6.995364 AGTAGGGTGAACTTCTTTTCTCTAC 58.005 40.000 0.00 0.00 31.73 2.59
2357 2573 6.783482 AGTAGGGTGAACTTCTTTTCTCTACT 59.217 38.462 0.00 0.00 34.10 2.57
2358 2574 6.502074 AGGGTGAACTTCTTTTCTCTACTT 57.498 37.500 0.00 0.00 0.00 2.24
2359 2575 6.901300 AGGGTGAACTTCTTTTCTCTACTTT 58.099 36.000 0.00 0.00 0.00 2.66
2360 2576 6.768381 AGGGTGAACTTCTTTTCTCTACTTTG 59.232 38.462 0.00 0.00 0.00 2.77
2361 2577 6.431278 GGTGAACTTCTTTTCTCTACTTTGC 58.569 40.000 0.00 0.00 0.00 3.68
2362 2578 6.038271 GGTGAACTTCTTTTCTCTACTTTGCA 59.962 38.462 0.00 0.00 0.00 4.08
2363 2579 7.415206 GGTGAACTTCTTTTCTCTACTTTGCAA 60.415 37.037 0.00 0.00 0.00 4.08
2364 2580 8.131731 GTGAACTTCTTTTCTCTACTTTGCAAT 58.868 33.333 0.00 0.00 0.00 3.56
2365 2581 9.337396 TGAACTTCTTTTCTCTACTTTGCAATA 57.663 29.630 0.00 0.00 0.00 1.90
2371 2587 8.784043 TCTTTTCTCTACTTTGCAATAAAGACC 58.216 33.333 0.00 0.00 0.00 3.85
2372 2588 8.691661 TTTTCTCTACTTTGCAATAAAGACCT 57.308 30.769 0.00 0.00 0.00 3.85
2373 2589 8.691661 TTTCTCTACTTTGCAATAAAGACCTT 57.308 30.769 0.00 0.00 0.00 3.50
2374 2590 7.672983 TCTCTACTTTGCAATAAAGACCTTG 57.327 36.000 0.00 0.00 0.00 3.61
2375 2591 7.224297 TCTCTACTTTGCAATAAAGACCTTGT 58.776 34.615 0.00 0.00 0.00 3.16
2376 2592 7.719633 TCTCTACTTTGCAATAAAGACCTTGTT 59.280 33.333 0.00 0.00 0.00 2.83
2377 2593 7.648142 TCTACTTTGCAATAAAGACCTTGTTG 58.352 34.615 0.00 0.00 0.00 3.33
2378 2594 5.049828 ACTTTGCAATAAAGACCTTGTTGC 58.950 37.500 18.30 18.30 41.40 4.17
2379 2595 3.281341 TGCAATAAAGACCTTGTTGCG 57.719 42.857 19.11 0.00 42.67 4.85
2380 2596 2.030363 TGCAATAAAGACCTTGTTGCGG 60.030 45.455 19.11 0.00 42.67 5.69
2381 2597 2.227865 GCAATAAAGACCTTGTTGCGGA 59.772 45.455 13.52 0.00 36.23 5.54
2382 2598 3.305064 GCAATAAAGACCTTGTTGCGGAA 60.305 43.478 13.52 0.00 36.23 4.30
2383 2599 4.794655 GCAATAAAGACCTTGTTGCGGAAA 60.795 41.667 13.52 0.00 36.23 3.13
2384 2600 2.863401 AAAGACCTTGTTGCGGAAAC 57.137 45.000 0.00 0.00 39.41 2.78
2397 2613 7.072177 TGTTGCGGAAACATTTCTAATAGAG 57.928 36.000 0.00 0.00 43.96 2.43
2398 2614 6.876789 TGTTGCGGAAACATTTCTAATAGAGA 59.123 34.615 0.00 0.00 43.96 3.10
2399 2615 7.552687 TGTTGCGGAAACATTTCTAATAGAGAT 59.447 33.333 0.00 0.00 43.96 2.75
2400 2616 8.398665 GTTGCGGAAACATTTCTAATAGAGATT 58.601 33.333 4.45 0.00 38.75 2.40
2401 2617 7.919690 TGCGGAAACATTTCTAATAGAGATTG 58.080 34.615 4.45 0.00 37.35 2.67
2402 2618 7.552687 TGCGGAAACATTTCTAATAGAGATTGT 59.447 33.333 4.45 0.00 37.35 2.71
2403 2619 7.852945 GCGGAAACATTTCTAATAGAGATTGTG 59.147 37.037 4.45 0.00 37.35 3.33
2404 2620 8.883731 CGGAAACATTTCTAATAGAGATTGTGT 58.116 33.333 4.45 0.00 37.35 3.72
2407 2623 9.846248 AAACATTTCTAATAGAGATTGTGTTGC 57.154 29.630 0.89 0.00 35.38 4.17
2408 2624 8.565896 ACATTTCTAATAGAGATTGTGTTGCA 57.434 30.769 0.00 0.00 32.45 4.08
2409 2625 8.671921 ACATTTCTAATAGAGATTGTGTTGCAG 58.328 33.333 0.00 0.00 32.45 4.41
2410 2626 8.886719 CATTTCTAATAGAGATTGTGTTGCAGA 58.113 33.333 0.00 0.00 32.88 4.26
2411 2627 8.846943 TTTCTAATAGAGATTGTGTTGCAGAA 57.153 30.769 0.00 0.00 32.88 3.02
2412 2628 9.453572 TTTCTAATAGAGATTGTGTTGCAGAAT 57.546 29.630 0.00 0.00 32.88 2.40
2413 2629 9.453572 TTCTAATAGAGATTGTGTTGCAGAATT 57.546 29.630 0.00 0.00 32.88 2.17
2414 2630 9.453572 TCTAATAGAGATTGTGTTGCAGAATTT 57.546 29.630 0.00 0.00 27.44 1.82
2420 2636 9.846248 AGAGATTGTGTTGCAGAATTTTTATAC 57.154 29.630 0.00 0.00 27.44 1.47
2421 2637 9.624697 GAGATTGTGTTGCAGAATTTTTATACA 57.375 29.630 0.00 0.00 27.44 2.29
2422 2638 9.979578 AGATTGTGTTGCAGAATTTTTATACAA 57.020 25.926 0.00 0.00 27.44 2.41
2424 2640 8.932945 TTGTGTTGCAGAATTTTTATACAACA 57.067 26.923 0.00 0.00 42.41 3.33
2425 2641 8.572828 TGTGTTGCAGAATTTTTATACAACAG 57.427 30.769 5.95 0.00 44.45 3.16
2426 2642 8.409371 TGTGTTGCAGAATTTTTATACAACAGA 58.591 29.630 5.95 2.67 44.45 3.41
2427 2643 8.905702 GTGTTGCAGAATTTTTATACAACAGAG 58.094 33.333 5.95 0.00 44.45 3.35
2428 2644 8.081633 TGTTGCAGAATTTTTATACAACAGAGG 58.918 33.333 0.00 0.00 40.49 3.69
2429 2645 7.759489 TGCAGAATTTTTATACAACAGAGGT 57.241 32.000 0.00 0.00 0.00 3.85
2430 2646 8.177119 TGCAGAATTTTTATACAACAGAGGTT 57.823 30.769 0.00 0.00 37.87 3.50
2439 2655 2.480224 CAACAGAGGTTGTGTTGCAG 57.520 50.000 6.21 0.00 46.03 4.41
2440 2656 2.016318 CAACAGAGGTTGTGTTGCAGA 58.984 47.619 6.21 0.00 46.03 4.26
2441 2657 2.418368 ACAGAGGTTGTGTTGCAGAA 57.582 45.000 0.00 0.00 38.99 3.02
2442 2658 2.936202 ACAGAGGTTGTGTTGCAGAAT 58.064 42.857 0.00 0.00 38.99 2.40
2443 2659 3.290710 ACAGAGGTTGTGTTGCAGAATT 58.709 40.909 0.00 0.00 38.99 2.17
2444 2660 3.701040 ACAGAGGTTGTGTTGCAGAATTT 59.299 39.130 0.00 0.00 38.99 1.82
2445 2661 4.160252 ACAGAGGTTGTGTTGCAGAATTTT 59.840 37.500 0.00 0.00 38.99 1.82
2446 2662 5.111293 CAGAGGTTGTGTTGCAGAATTTTT 58.889 37.500 0.00 0.00 0.00 1.94
2469 2685 2.799126 AACAGAGGTTGTGTTGTGGA 57.201 45.000 0.00 0.00 40.74 4.02
2470 2686 3.297134 AACAGAGGTTGTGTTGTGGAT 57.703 42.857 0.00 0.00 40.74 3.41
2471 2687 3.297134 ACAGAGGTTGTGTTGTGGATT 57.703 42.857 0.00 0.00 38.99 3.01
2472 2688 3.631250 ACAGAGGTTGTGTTGTGGATTT 58.369 40.909 0.00 0.00 38.99 2.17
2473 2689 4.023291 ACAGAGGTTGTGTTGTGGATTTT 58.977 39.130 0.00 0.00 38.99 1.82
2474 2690 4.466015 ACAGAGGTTGTGTTGTGGATTTTT 59.534 37.500 0.00 0.00 38.99 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 59 4.729856 CGCCTTGCTTGCCTTGGC 62.730 66.667 4.43 4.43 40.14 4.52
192 211 4.400961 GCTCCGGCCACTCAGCTT 62.401 66.667 2.24 0.00 0.00 3.74
257 276 1.732259 GGACAATGCAATCGAGTTCGT 59.268 47.619 0.00 0.00 40.80 3.85
282 301 3.144193 CTTCGAGCTCCTCCGCCT 61.144 66.667 8.47 0.00 0.00 5.52
311 330 3.382832 CCCACCGCGTCCTCTCTT 61.383 66.667 4.92 0.00 0.00 2.85
326 345 1.528292 CGACCGGATCTGAGATCCCC 61.528 65.000 30.29 19.91 34.76 4.81
345 364 3.415087 ATCCCCTGCTCCTGCCAC 61.415 66.667 0.00 0.00 38.71 5.01
366 385 1.075151 ACCCCGATCTCCTTCCTCC 60.075 63.158 0.00 0.00 0.00 4.30
422 441 1.663074 GATGGGTCTCGCATCTCGC 60.663 63.158 15.94 0.00 45.98 5.03
423 442 4.643733 GATGGGTCTCGCATCTCG 57.356 61.111 15.94 0.00 45.98 4.04
427 446 2.040464 AGGGGATGGGTCTCGCAT 60.040 61.111 0.00 0.00 39.69 4.73
428 447 2.764128 GAGGGGATGGGTCTCGCA 60.764 66.667 0.00 0.00 0.00 5.10
458 477 5.570483 ATCTAGGGCAGAAGCAAATGCGA 62.570 47.826 0.00 0.00 43.49 5.10
562 590 4.160626 CCTCGTTTCTACCAAGGAGAAGAT 59.839 45.833 5.01 0.00 39.88 2.40
647 683 3.381908 ACGCCTCACACTTAATCTCCTAG 59.618 47.826 0.00 0.00 0.00 3.02
655 691 1.202817 TCGCATACGCCTCACACTTAA 59.797 47.619 0.00 0.00 39.84 1.85
678 720 6.889301 ATTACTATTCGACACCGATCCTAA 57.111 37.500 0.00 0.00 45.10 2.69
914 969 2.906354 TCTTTCTCTGCCGGCTATTTC 58.094 47.619 29.70 0.00 0.00 2.17
962 1033 4.935702 AGTACTTTTGCTGTACGTGTGTA 58.064 39.130 0.00 0.00 43.41 2.90
1010 1086 1.889170 TCCCGAAGATCCTCATCATCG 59.111 52.381 3.27 3.27 45.63 3.84
1028 1104 2.602738 CTGACGAGCATCAGCATCC 58.397 57.895 0.00 0.00 45.49 3.51
1070 1152 0.530744 TTCGGAGAGTGGATCAACGG 59.469 55.000 0.00 0.00 38.43 4.44
1135 1222 7.210873 ACACCAACAACAAAAACAAGTAGAAA 58.789 30.769 0.00 0.00 0.00 2.52
1232 1319 4.011517 GGTTCCCTCCGGCGTTCA 62.012 66.667 6.01 0.00 0.00 3.18
1338 1425 1.448497 GAAGACGTTGGGGTCCACA 59.552 57.895 0.00 0.00 37.66 4.17
1413 1500 4.780815 AGTTGAAGTTGATCTTGTCACCA 58.219 39.130 0.00 0.00 36.32 4.17
1416 1503 4.447724 GCGTAGTTGAAGTTGATCTTGTCA 59.552 41.667 0.00 0.00 36.40 3.58
1593 1769 3.057315 CCCATCAATTCTCAAAGCAACGT 60.057 43.478 0.00 0.00 0.00 3.99
1764 1951 2.759191 TCTCATGACACTGTGAAGCAC 58.241 47.619 15.86 0.00 34.56 4.40
1767 1954 6.549912 TTTGATTCTCATGACACTGTGAAG 57.450 37.500 15.86 4.04 33.57 3.02
1772 1959 8.048534 ACCTAAATTTGATTCTCATGACACTG 57.951 34.615 0.00 0.00 0.00 3.66
1829 2023 8.553459 ACAGACACTAATTACAGATTTCAAGG 57.447 34.615 0.00 0.00 0.00 3.61
1838 2032 9.424319 AGTATGACAAACAGACACTAATTACAG 57.576 33.333 0.00 0.00 42.40 2.74
1940 2146 9.383519 GAAGATATCTCCAAACTTGTGAACATA 57.616 33.333 5.51 0.00 0.00 2.29
1985 2193 7.272948 ACGCAAACTTGTTTTGTTTACGAAATA 59.727 29.630 15.67 0.00 45.70 1.40
2004 2212 1.816074 TATTGGGGTGAGACGCAAAC 58.184 50.000 0.00 0.00 44.72 2.93
2007 2215 1.138859 CTGATATTGGGGTGAGACGCA 59.861 52.381 0.00 0.00 32.03 5.24
2009 2217 3.133003 AGTTCTGATATTGGGGTGAGACG 59.867 47.826 0.00 0.00 0.00 4.18
2138 2352 2.838637 TCAAAACTTTGGTGGGGTCT 57.161 45.000 2.49 0.00 38.66 3.85
2151 2365 8.839343 ACAGAATTTCATGGGAATTTTCAAAAC 58.161 29.630 8.65 0.00 32.29 2.43
2184 2400 9.284968 CGATAATACCAAGGAACAGGATTAAAT 57.715 33.333 0.00 0.00 0.00 1.40
2195 2411 7.383156 AAATCCTACCGATAATACCAAGGAA 57.617 36.000 0.00 0.00 35.42 3.36
2227 2443 0.314935 ATGCACAAGTTTGGCGGAAG 59.685 50.000 0.00 0.00 0.00 3.46
2231 2447 2.917701 TCATATGCACAAGTTTGGCG 57.082 45.000 0.00 0.00 0.00 5.69
2236 2452 4.080975 CCCCCAAAATCATATGCACAAGTT 60.081 41.667 0.00 0.00 0.00 2.66
2267 2483 3.757248 AAGATCCACCGGCCGATGC 62.757 63.158 30.73 7.21 0.00 3.91
2268 2484 0.748005 AAAAGATCCACCGGCCGATG 60.748 55.000 30.73 22.93 0.00 3.84
2269 2485 0.034477 AAAAAGATCCACCGGCCGAT 60.034 50.000 30.73 6.36 0.00 4.18
2270 2486 0.614294 TAAAAAGATCCACCGGCCGA 59.386 50.000 30.73 6.75 0.00 5.54
2271 2487 1.455248 TTAAAAAGATCCACCGGCCG 58.545 50.000 21.04 21.04 0.00 6.13
2272 2488 3.508402 TCTTTTAAAAAGATCCACCGGCC 59.492 43.478 0.00 0.00 0.00 6.13
2273 2489 4.776795 TCTTTTAAAAAGATCCACCGGC 57.223 40.909 0.00 0.00 0.00 6.13
2281 2497 5.016831 AGGTGGCGGATCTTTTAAAAAGAT 58.983 37.500 0.00 0.00 39.53 2.40
2282 2498 4.403734 AGGTGGCGGATCTTTTAAAAAGA 58.596 39.130 1.66 0.00 0.00 2.52
2283 2499 4.671766 CGAGGTGGCGGATCTTTTAAAAAG 60.672 45.833 1.66 0.00 0.00 2.27
2284 2500 3.189702 CGAGGTGGCGGATCTTTTAAAAA 59.810 43.478 1.66 0.00 0.00 1.94
2285 2501 2.745281 CGAGGTGGCGGATCTTTTAAAA 59.255 45.455 0.00 0.00 0.00 1.52
2286 2502 2.289819 ACGAGGTGGCGGATCTTTTAAA 60.290 45.455 0.00 0.00 35.12 1.52
2287 2503 1.276989 ACGAGGTGGCGGATCTTTTAA 59.723 47.619 0.00 0.00 35.12 1.52
2288 2504 0.899720 ACGAGGTGGCGGATCTTTTA 59.100 50.000 0.00 0.00 35.12 1.52
2289 2505 0.673644 CACGAGGTGGCGGATCTTTT 60.674 55.000 0.00 0.00 35.12 2.27
2290 2506 1.079127 CACGAGGTGGCGGATCTTT 60.079 57.895 0.00 0.00 35.12 2.52
2291 2507 1.949847 CTCACGAGGTGGCGGATCTT 61.950 60.000 0.00 0.00 33.87 2.40
2292 2508 2.362503 TCACGAGGTGGCGGATCT 60.363 61.111 0.00 0.00 33.87 2.75
2293 2509 2.105128 CTCACGAGGTGGCGGATC 59.895 66.667 0.00 0.00 33.87 3.36
2294 2510 4.148825 GCTCACGAGGTGGCGGAT 62.149 66.667 0.00 0.00 33.87 4.18
2306 2522 0.248539 GTATCAGACCGACGGCTCAC 60.249 60.000 15.39 3.28 0.00 3.51
2307 2523 0.678684 TGTATCAGACCGACGGCTCA 60.679 55.000 15.39 0.00 0.00 4.26
2308 2524 0.029567 CTGTATCAGACCGACGGCTC 59.970 60.000 15.39 10.92 32.44 4.70
2309 2525 0.393944 TCTGTATCAGACCGACGGCT 60.394 55.000 15.39 9.49 35.39 5.52
2310 2526 0.669077 ATCTGTATCAGACCGACGGC 59.331 55.000 15.39 7.02 43.63 5.68
2311 2527 2.222886 AGATCTGTATCAGACCGACGG 58.777 52.381 13.61 13.61 43.63 4.79
2312 2528 4.059511 ACTAGATCTGTATCAGACCGACG 58.940 47.826 5.18 0.00 43.63 5.12
2313 2529 5.640357 CCTACTAGATCTGTATCAGACCGAC 59.360 48.000 5.18 0.00 43.63 4.79
2314 2530 5.280062 CCCTACTAGATCTGTATCAGACCGA 60.280 48.000 5.18 0.00 43.63 4.69
2315 2531 4.938832 CCCTACTAGATCTGTATCAGACCG 59.061 50.000 5.18 0.00 43.63 4.79
2316 2532 5.708230 CACCCTACTAGATCTGTATCAGACC 59.292 48.000 5.18 0.00 43.63 3.85
2317 2533 6.535540 TCACCCTACTAGATCTGTATCAGAC 58.464 44.000 5.18 0.00 43.63 3.51
2318 2534 6.765355 TCACCCTACTAGATCTGTATCAGA 57.235 41.667 5.18 1.92 44.99 3.27
2319 2535 7.001674 AGTTCACCCTACTAGATCTGTATCAG 58.998 42.308 5.18 0.00 34.28 2.90
2320 2536 6.912426 AGTTCACCCTACTAGATCTGTATCA 58.088 40.000 5.18 0.00 34.28 2.15
2321 2537 7.722285 AGAAGTTCACCCTACTAGATCTGTATC 59.278 40.741 5.18 0.00 0.00 2.24
2322 2538 7.588169 AGAAGTTCACCCTACTAGATCTGTAT 58.412 38.462 5.18 0.00 0.00 2.29
2323 2539 6.971340 AGAAGTTCACCCTACTAGATCTGTA 58.029 40.000 5.18 5.28 0.00 2.74
2324 2540 5.833340 AGAAGTTCACCCTACTAGATCTGT 58.167 41.667 5.18 4.31 0.00 3.41
2325 2541 6.783708 AAGAAGTTCACCCTACTAGATCTG 57.216 41.667 5.18 0.00 0.00 2.90
2326 2542 7.676468 AGAAAAGAAGTTCACCCTACTAGATCT 59.324 37.037 5.50 0.00 0.00 2.75
2327 2543 7.842982 AGAAAAGAAGTTCACCCTACTAGATC 58.157 38.462 5.50 0.00 0.00 2.75
2328 2544 7.676468 AGAGAAAAGAAGTTCACCCTACTAGAT 59.324 37.037 5.50 0.00 0.00 1.98
2329 2545 7.011382 AGAGAAAAGAAGTTCACCCTACTAGA 58.989 38.462 5.50 0.00 0.00 2.43
2330 2546 7.234661 AGAGAAAAGAAGTTCACCCTACTAG 57.765 40.000 5.50 0.00 0.00 2.57
2331 2547 7.949006 AGTAGAGAAAAGAAGTTCACCCTACTA 59.051 37.037 5.50 0.04 36.66 1.82
2332 2548 6.783482 AGTAGAGAAAAGAAGTTCACCCTACT 59.217 38.462 5.50 9.32 35.31 2.57
2333 2549 6.995364 AGTAGAGAAAAGAAGTTCACCCTAC 58.005 40.000 5.50 7.47 32.89 3.18
2334 2550 7.613551 AAGTAGAGAAAAGAAGTTCACCCTA 57.386 36.000 5.50 0.00 0.00 3.53
2335 2551 6.502074 AAGTAGAGAAAAGAAGTTCACCCT 57.498 37.500 5.50 0.00 0.00 4.34
2336 2552 6.513556 GCAAAGTAGAGAAAAGAAGTTCACCC 60.514 42.308 5.50 0.00 0.00 4.61
2337 2553 6.038271 TGCAAAGTAGAGAAAAGAAGTTCACC 59.962 38.462 5.50 0.00 0.00 4.02
2338 2554 7.016361 TGCAAAGTAGAGAAAAGAAGTTCAC 57.984 36.000 5.50 0.00 0.00 3.18
2339 2555 7.624360 TTGCAAAGTAGAGAAAAGAAGTTCA 57.376 32.000 5.50 0.00 0.00 3.18
2345 2561 8.784043 GGTCTTTATTGCAAAGTAGAGAAAAGA 58.216 33.333 1.71 6.40 0.00 2.52
2346 2562 8.787852 AGGTCTTTATTGCAAAGTAGAGAAAAG 58.212 33.333 1.71 4.29 0.00 2.27
2347 2563 8.691661 AGGTCTTTATTGCAAAGTAGAGAAAA 57.308 30.769 1.71 0.00 0.00 2.29
2348 2564 8.567948 CAAGGTCTTTATTGCAAAGTAGAGAAA 58.432 33.333 1.71 0.00 0.00 2.52
2349 2565 7.719633 ACAAGGTCTTTATTGCAAAGTAGAGAA 59.280 33.333 1.71 0.00 0.00 2.87
2350 2566 7.224297 ACAAGGTCTTTATTGCAAAGTAGAGA 58.776 34.615 1.71 0.00 0.00 3.10
2351 2567 7.440523 ACAAGGTCTTTATTGCAAAGTAGAG 57.559 36.000 1.71 0.00 0.00 2.43
2352 2568 7.648142 CAACAAGGTCTTTATTGCAAAGTAGA 58.352 34.615 1.71 3.36 0.00 2.59
2353 2569 6.363357 GCAACAAGGTCTTTATTGCAAAGTAG 59.637 38.462 1.71 0.70 39.78 2.57
2354 2570 6.212955 GCAACAAGGTCTTTATTGCAAAGTA 58.787 36.000 1.71 0.00 39.78 2.24
2355 2571 5.049828 GCAACAAGGTCTTTATTGCAAAGT 58.950 37.500 1.71 0.00 39.78 2.66
2356 2572 4.148696 CGCAACAAGGTCTTTATTGCAAAG 59.851 41.667 20.28 0.00 39.90 2.77
2357 2573 4.047822 CGCAACAAGGTCTTTATTGCAAA 58.952 39.130 20.28 0.00 39.90 3.68
2358 2574 3.551863 CCGCAACAAGGTCTTTATTGCAA 60.552 43.478 20.28 0.00 39.90 4.08
2359 2575 2.030363 CCGCAACAAGGTCTTTATTGCA 60.030 45.455 20.28 0.00 39.90 4.08
2360 2576 2.227865 TCCGCAACAAGGTCTTTATTGC 59.772 45.455 14.64 14.64 38.10 3.56
2361 2577 4.497473 TTCCGCAACAAGGTCTTTATTG 57.503 40.909 0.00 0.00 0.00 1.90
2362 2578 4.339814 TGTTTCCGCAACAAGGTCTTTATT 59.660 37.500 0.00 0.00 42.76 1.40
2363 2579 3.886505 TGTTTCCGCAACAAGGTCTTTAT 59.113 39.130 0.00 0.00 42.76 1.40
2364 2580 3.280295 TGTTTCCGCAACAAGGTCTTTA 58.720 40.909 0.00 0.00 42.76 1.85
2365 2581 2.096248 TGTTTCCGCAACAAGGTCTTT 58.904 42.857 0.00 0.00 42.76 2.52
2366 2582 1.757682 TGTTTCCGCAACAAGGTCTT 58.242 45.000 0.00 0.00 42.76 3.01
2367 2583 3.487576 TGTTTCCGCAACAAGGTCT 57.512 47.368 0.00 0.00 42.76 3.85
2373 2589 7.552687 ATCTCTATTAGAAATGTTTCCGCAACA 59.447 33.333 2.04 1.34 43.06 3.33
2374 2590 7.303634 TCTCTATTAGAAATGTTTCCGCAAC 57.696 36.000 2.04 0.00 37.92 4.17
2375 2591 8.397906 CAATCTCTATTAGAAATGTTTCCGCAA 58.602 33.333 2.04 0.00 37.89 4.85
2376 2592 7.552687 ACAATCTCTATTAGAAATGTTTCCGCA 59.447 33.333 2.04 0.00 35.79 5.69
2377 2593 7.852945 CACAATCTCTATTAGAAATGTTTCCGC 59.147 37.037 2.04 0.00 36.64 5.54
2378 2594 8.883731 ACACAATCTCTATTAGAAATGTTTCCG 58.116 33.333 2.04 0.00 36.64 4.30
2381 2597 9.846248 GCAACACAATCTCTATTAGAAATGTTT 57.154 29.630 0.00 0.00 36.64 2.83
2382 2598 9.013229 TGCAACACAATCTCTATTAGAAATGTT 57.987 29.630 0.00 0.00 36.64 2.71
2383 2599 8.565896 TGCAACACAATCTCTATTAGAAATGT 57.434 30.769 0.00 0.00 38.30 2.71
2384 2600 8.886719 TCTGCAACACAATCTCTATTAGAAATG 58.113 33.333 0.00 0.00 37.89 2.32
2385 2601 9.453572 TTCTGCAACACAATCTCTATTAGAAAT 57.546 29.630 0.00 0.00 37.89 2.17
2386 2602 8.846943 TTCTGCAACACAATCTCTATTAGAAA 57.153 30.769 0.00 0.00 37.89 2.52
2387 2603 9.453572 AATTCTGCAACACAATCTCTATTAGAA 57.546 29.630 0.00 0.00 37.89 2.10
2388 2604 9.453572 AAATTCTGCAACACAATCTCTATTAGA 57.546 29.630 0.00 0.00 39.02 2.10
2394 2610 9.846248 GTATAAAAATTCTGCAACACAATCTCT 57.154 29.630 0.00 0.00 0.00 3.10
2395 2611 9.624697 TGTATAAAAATTCTGCAACACAATCTC 57.375 29.630 0.00 0.00 0.00 2.75
2396 2612 9.979578 TTGTATAAAAATTCTGCAACACAATCT 57.020 25.926 0.00 0.00 0.00 2.40
2398 2614 9.539825 TGTTGTATAAAAATTCTGCAACACAAT 57.460 25.926 7.62 0.00 39.45 2.71
2399 2615 8.932945 TGTTGTATAAAAATTCTGCAACACAA 57.067 26.923 7.62 0.00 39.45 3.33
2400 2616 8.409371 TCTGTTGTATAAAAATTCTGCAACACA 58.591 29.630 7.62 0.00 39.45 3.72
2401 2617 8.795786 TCTGTTGTATAAAAATTCTGCAACAC 57.204 30.769 7.62 0.00 39.45 3.32
2402 2618 8.081633 CCTCTGTTGTATAAAAATTCTGCAACA 58.918 33.333 10.14 10.14 41.22 3.33
2403 2619 8.082242 ACCTCTGTTGTATAAAAATTCTGCAAC 58.918 33.333 0.00 0.00 36.33 4.17
2404 2620 8.177119 ACCTCTGTTGTATAAAAATTCTGCAA 57.823 30.769 0.00 0.00 0.00 4.08
2405 2621 7.759489 ACCTCTGTTGTATAAAAATTCTGCA 57.241 32.000 0.00 0.00 0.00 4.41
2406 2622 8.452989 CAACCTCTGTTGTATAAAAATTCTGC 57.547 34.615 0.00 0.00 45.51 4.26
2421 2637 2.418368 TCTGCAACACAACCTCTGTT 57.582 45.000 0.00 0.00 35.47 3.16
2422 2638 2.418368 TTCTGCAACACAACCTCTGT 57.582 45.000 0.00 0.00 39.56 3.41
2423 2639 3.996150 AATTCTGCAACACAACCTCTG 57.004 42.857 0.00 0.00 0.00 3.35
2424 2640 5.343307 AAAAATTCTGCAACACAACCTCT 57.657 34.783 0.00 0.00 0.00 3.69
2450 2666 2.799126 TCCACAACACAACCTCTGTT 57.201 45.000 0.00 0.00 35.47 3.16
2451 2667 3.297134 AATCCACAACACAACCTCTGT 57.703 42.857 0.00 0.00 39.56 3.41
2452 2668 4.654091 AAAATCCACAACACAACCTCTG 57.346 40.909 0.00 0.00 0.00 3.35


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

AutoCloner maintained by Alex Coulton.