Multiple sequence alignment - TraesCS6D01G231400

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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 TraesCS6D01G231400 chr6D 100.000 3491 0 0 1 3491 324827378 324823888 0.000000e+00 6447.0
1 TraesCS6D01G231400 chr6D 85.039 127 15 4 3364 3490 50767846 50767968 3.660000e-25 126.0
2 TraesCS6D01G231400 chr6A 90.476 1533 84 32 1 1516 463166969 463165482 0.000000e+00 1965.0
3 TraesCS6D01G231400 chr6A 92.973 1167 46 12 1511 2662 462254672 462253527 0.000000e+00 1668.0
4 TraesCS6D01G231400 chr6A 92.777 1163 39 16 1522 2662 463165446 463164307 0.000000e+00 1640.0
5 TraesCS6D01G231400 chr6A 90.248 646 29 14 873 1512 462255317 462254700 0.000000e+00 813.0
6 TraesCS6D01G231400 chr6A 84.615 91 8 6 111 197 420102428 420102340 6.210000e-13 86.1
7 TraesCS6D01G231400 chr6B 92.130 1258 45 26 207 1452 498277436 498278651 0.000000e+00 1725.0
8 TraesCS6D01G231400 chr6B 93.629 1083 36 12 1513 2580 498278728 498279792 0.000000e+00 1587.0
9 TraesCS6D01G231400 chr6B 91.667 48 4 0 3364 3411 19985111 19985064 2.250000e-07 67.6
10 TraesCS6D01G231400 chr3B 90.490 347 17 3 1901 2247 23382144 23381814 8.890000e-121 444.0
11 TraesCS6D01G231400 chr7A 75.954 865 133 47 2665 3491 171534080 171533253 3.290000e-100 375.0
12 TraesCS6D01G231400 chr7A 92.188 128 9 1 1678 1804 219026924 219027051 2.770000e-41 180.0
13 TraesCS6D01G231400 chr7A 90.226 133 11 1 1674 1804 260926364 260926496 4.630000e-39 172.0
14 TraesCS6D01G231400 chr7A 85.437 103 13 2 3364 3465 19260107 19260006 4.770000e-19 106.0
15 TraesCS6D01G231400 chr1B 75.615 488 85 25 2790 3250 498068267 498068747 9.820000e-51 211.0
16 TraesCS6D01G231400 chrUn 74.281 591 109 27 2874 3442 79346264 79346833 3.530000e-50 209.0
17 TraesCS6D01G231400 chrUn 89.130 138 9 3 1669 1802 34347893 34348028 2.160000e-37 167.0
18 TraesCS6D01G231400 chrUn 72.659 534 102 30 2741 3250 285885765 285885252 1.690000e-28 137.0
19 TraesCS6D01G231400 chr3A 83.957 187 24 4 3307 3491 13565417 13565235 1.290000e-39 174.0
20 TraesCS6D01G231400 chr2B 82.381 210 28 7 1519 1727 621313486 621313285 1.290000e-39 174.0
21 TraesCS6D01G231400 chr2A 82.524 206 28 6 1523 1727 670685486 670685288 1.290000e-39 174.0
22 TraesCS6D01G231400 chr2A 85.714 126 14 4 3367 3491 261161290 261161168 2.830000e-26 130.0
23 TraesCS6D01G231400 chr2D 82.266 203 28 6 1523 1724 526112122 526112317 5.990000e-38 169.0
24 TraesCS6D01G231400 chr1A 84.242 165 19 6 10 169 237326020 237326182 1.680000e-33 154.0
25 TraesCS6D01G231400 chr5D 85.827 127 16 2 3364 3490 6051714 6051838 2.190000e-27 134.0


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 TraesCS6D01G231400 chr6D 324823888 324827378 3490 True 6447.0 6447 100.0000 1 3491 1 chr6D.!!$R1 3490
1 TraesCS6D01G231400 chr6A 463164307 463166969 2662 True 1802.5 1965 91.6265 1 2662 2 chr6A.!!$R3 2661
2 TraesCS6D01G231400 chr6A 462253527 462255317 1790 True 1240.5 1668 91.6105 873 2662 2 chr6A.!!$R2 1789
3 TraesCS6D01G231400 chr6B 498277436 498279792 2356 False 1656.0 1725 92.8795 207 2580 2 chr6B.!!$F1 2373
4 TraesCS6D01G231400 chr7A 171533253 171534080 827 True 375.0 375 75.9540 2665 3491 1 chr7A.!!$R2 826
5 TraesCS6D01G231400 chrUn 79346264 79346833 569 False 209.0 209 74.2810 2874 3442 1 chrUn.!!$F2 568

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
927 943 0.100503 AATTTAATCACTGCCCGCGC 59.899 50.0 0.0 0.0 0.0 6.86 F
1912 2000 0.179037 CTGGCATCCGTCATGTCCAT 60.179 55.0 0.0 0.0 36.1 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2360 2449 0.179234 CACACATACCCACGCCCATA 59.821 55.0 0.0 0.0 0.0 2.74 R
2834 2935 0.322098 TGGAAATGGCATCGAACCGT 60.322 50.0 0.0 0.0 0.0 4.83 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
76 77 9.643693 CTAGTTTGCATCTTTTATTGGAATTGT 57.356 29.630 0.00 0.00 0.00 2.71
78 79 9.341078 AGTTTGCATCTTTTATTGGAATTGTTT 57.659 25.926 0.00 0.00 0.00 2.83
102 104 7.851822 TTTTACATCTTCGTTTTGCATCTTC 57.148 32.000 0.00 0.00 0.00 2.87
104 106 5.039480 ACATCTTCGTTTTGCATCTTCTG 57.961 39.130 0.00 0.00 0.00 3.02
108 110 4.574421 TCTTCGTTTTGCATCTTCTGTTGA 59.426 37.500 0.00 0.00 0.00 3.18
231 234 4.101790 CGTGCATGCAACCGGACC 62.102 66.667 24.58 7.08 0.00 4.46
253 256 3.108289 CGAGCCACTGCGTGTCTG 61.108 66.667 7.68 0.00 44.33 3.51
299 302 2.770589 GCCCAGTGCACGTTGTTGT 61.771 57.895 12.01 0.00 40.77 3.32
314 320 0.451783 GTTGTGGCGCTTAATCTGGG 59.548 55.000 7.64 0.00 0.00 4.45
346 352 3.962421 CCGGCCGGAGCTACGTAG 61.962 72.222 41.82 18.47 39.73 3.51
505 513 3.458163 GGAGGGATCGACGGTGCA 61.458 66.667 0.99 0.00 0.00 4.57
516 524 2.029073 CGGTGCAGAGACGGTGTT 59.971 61.111 0.00 0.00 0.00 3.32
517 525 1.594293 CGGTGCAGAGACGGTGTTT 60.594 57.895 0.00 0.00 0.00 2.83
532 540 1.461127 GTGTTTGATCCTGACGACTGC 59.539 52.381 0.00 0.00 0.00 4.40
582 591 0.623324 TCGGGGAGGGTGAAATGGAT 60.623 55.000 0.00 0.00 0.00 3.41
694 703 0.881796 CACTGAGTGACTAGACGCCA 59.118 55.000 6.79 0.00 35.23 5.69
697 706 1.542030 CTGAGTGACTAGACGCCAAGT 59.458 52.381 0.00 0.00 0.00 3.16
883 898 6.417930 AGCAAGTAAGCAAGAATTCGTTTTTC 59.582 34.615 0.00 0.00 36.85 2.29
927 943 0.100503 AATTTAATCACTGCCCGCGC 59.899 50.000 0.00 0.00 0.00 6.86
1098 1123 0.811281 CTTTTCCGTGGCCAAGATCC 59.189 55.000 21.23 0.00 0.00 3.36
1139 1164 3.557220 GCCCTAGCCTTCCTCCTC 58.443 66.667 0.00 0.00 0.00 3.71
1249 1277 3.737774 GGGAGCGACGGTAATTAATACAC 59.262 47.826 0.00 0.00 36.14 2.90
1261 1289 7.326789 CGGTAATTAATACACGGACGAACATAT 59.673 37.037 0.00 0.00 36.14 1.78
1296 1327 9.797642 TTTCTCCAGAATATATATGTGCAATGT 57.202 29.630 0.00 0.00 33.54 2.71
1297 1328 8.782339 TCTCCAGAATATATATGTGCAATGTG 57.218 34.615 0.00 0.00 0.00 3.21
1298 1329 7.335171 TCTCCAGAATATATATGTGCAATGTGC 59.665 37.037 0.00 0.00 45.29 4.57
1388 1419 3.153781 TCCTCCATGATCGCCGCA 61.154 61.111 0.00 0.00 0.00 5.69
1446 1477 1.471119 CTCTTGCTACCAGGTCCGTA 58.529 55.000 0.00 0.00 0.00 4.02
1452 1483 1.337387 GCTACCAGGTCCGTAGATCAC 59.663 57.143 0.00 0.00 36.14 3.06
1454 1485 2.160721 ACCAGGTCCGTAGATCACAT 57.839 50.000 0.00 0.00 0.00 3.21
1455 1486 1.757118 ACCAGGTCCGTAGATCACATG 59.243 52.381 0.00 0.00 0.00 3.21
1457 1488 2.630098 CCAGGTCCGTAGATCACATGAT 59.370 50.000 0.00 0.00 37.51 2.45
1458 1489 3.070159 CCAGGTCCGTAGATCACATGATT 59.930 47.826 0.00 0.00 34.37 2.57
1459 1490 4.443457 CCAGGTCCGTAGATCACATGATTT 60.443 45.833 0.00 0.00 34.37 2.17
1460 1491 5.118990 CAGGTCCGTAGATCACATGATTTT 58.881 41.667 0.00 0.00 34.37 1.82
1461 1492 5.235186 CAGGTCCGTAGATCACATGATTTTC 59.765 44.000 0.00 0.00 34.37 2.29
1462 1493 5.104941 AGGTCCGTAGATCACATGATTTTCA 60.105 40.000 0.00 0.00 34.37 2.69
1463 1494 5.584649 GGTCCGTAGATCACATGATTTTCAA 59.415 40.000 0.00 0.00 34.37 2.69
1464 1495 6.238211 GGTCCGTAGATCACATGATTTTCAAG 60.238 42.308 0.00 0.00 34.37 3.02
1465 1496 6.313905 GTCCGTAGATCACATGATTTTCAAGT 59.686 38.462 0.00 0.00 34.37 3.16
1466 1497 7.491372 GTCCGTAGATCACATGATTTTCAAGTA 59.509 37.037 0.00 0.00 34.37 2.24
1467 1498 7.491372 TCCGTAGATCACATGATTTTCAAGTAC 59.509 37.037 0.00 0.00 34.37 2.73
1468 1499 7.277760 CCGTAGATCACATGATTTTCAAGTACA 59.722 37.037 0.00 0.00 34.37 2.90
1469 1500 8.323854 CGTAGATCACATGATTTTCAAGTACAG 58.676 37.037 0.00 0.00 34.37 2.74
1478 1512 9.421806 CATGATTTTCAAGTACAGCCATTTAAA 57.578 29.630 0.00 0.00 0.00 1.52
1497 1531 1.966493 ATTTAGCGCCGCGTTGTCAG 61.966 55.000 15.34 0.00 0.00 3.51
1498 1532 3.561217 TTAGCGCCGCGTTGTCAGA 62.561 57.895 15.34 0.00 0.00 3.27
1501 1535 2.995482 CGCCGCGTTGTCAGATAC 59.005 61.111 4.92 0.00 0.00 2.24
1512 1546 3.416119 TGTCAGATACTCGGCTTAACG 57.584 47.619 0.00 0.00 0.00 3.18
1516 1550 5.106197 TGTCAGATACTCGGCTTAACGTAAA 60.106 40.000 0.00 0.00 34.94 2.01
1518 1552 6.474751 GTCAGATACTCGGCTTAACGTAAATT 59.525 38.462 0.00 0.00 34.94 1.82
1519 1553 7.009907 GTCAGATACTCGGCTTAACGTAAATTT 59.990 37.037 0.00 0.00 34.94 1.82
1520 1554 7.546667 TCAGATACTCGGCTTAACGTAAATTTT 59.453 33.333 0.00 0.00 34.94 1.82
1529 1593 6.919115 GGCTTAACGTAAATTTTCAGGTGAAA 59.081 34.615 0.00 0.87 41.77 2.69
1634 1698 2.572284 CCCGTCCACTTCGACCTC 59.428 66.667 0.00 0.00 0.00 3.85
1904 1992 4.424711 TTGGCCCTGGCATCCGTC 62.425 66.667 10.86 0.00 44.11 4.79
1906 1994 4.195334 GGCCCTGGCATCCGTCAT 62.195 66.667 10.86 0.00 44.11 3.06
1907 1995 2.903855 GCCCTGGCATCCGTCATG 60.904 66.667 2.58 0.00 41.49 3.07
1908 1996 2.591753 CCCTGGCATCCGTCATGT 59.408 61.111 0.00 0.00 34.56 3.21
1909 1997 1.524621 CCCTGGCATCCGTCATGTC 60.525 63.158 0.00 0.00 37.65 3.06
1910 1998 1.524621 CCTGGCATCCGTCATGTCC 60.525 63.158 0.00 0.00 36.10 4.02
1911 1999 1.221566 CTGGCATCCGTCATGTCCA 59.778 57.895 0.00 7.22 36.10 4.02
1912 2000 0.179037 CTGGCATCCGTCATGTCCAT 60.179 55.000 0.00 0.00 36.10 3.41
2137 2225 2.364780 GGAGGTACAACTCCGGGGG 61.365 68.421 6.13 0.00 46.81 5.40
2262 2350 1.068748 GCTCCGTCGTCAACTACTGAA 60.069 52.381 0.00 0.00 35.22 3.02
2265 2353 3.635331 TCCGTCGTCAACTACTGAAAAG 58.365 45.455 0.00 0.00 35.22 2.27
2275 2363 7.594015 CGTCAACTACTGAAAAGCTAAACTAGA 59.406 37.037 0.00 0.00 35.22 2.43
2286 2374 1.897802 CTAAACTAGACGTGGGTGGGT 59.102 52.381 0.00 0.00 0.00 4.51
2287 2375 2.014010 AAACTAGACGTGGGTGGGTA 57.986 50.000 0.00 0.00 0.00 3.69
2360 2449 3.939740 TCCTGATTTATGCTTGGAGCT 57.060 42.857 1.29 0.00 42.97 4.09
2391 2481 2.028748 GGTATGTGTGTAACCTGACCGT 60.029 50.000 0.00 0.00 34.36 4.83
2410 2500 3.242284 CCGTCATTAATAAGGCGTGTGTG 60.242 47.826 0.00 0.00 0.00 3.82
2411 2501 3.369756 CGTCATTAATAAGGCGTGTGTGT 59.630 43.478 0.00 0.00 0.00 3.72
2412 2502 4.647964 GTCATTAATAAGGCGTGTGTGTG 58.352 43.478 0.00 0.00 0.00 3.82
2413 2503 4.153475 GTCATTAATAAGGCGTGTGTGTGT 59.847 41.667 0.00 0.00 0.00 3.72
2414 2504 4.390603 TCATTAATAAGGCGTGTGTGTGTC 59.609 41.667 0.00 0.00 0.00 3.67
2465 2555 3.740832 TGTGAAGCTTGTGTTATCTGTCG 59.259 43.478 2.10 0.00 0.00 4.35
2481 2571 4.956085 TCTGTCGGTTTGGTCCATATATG 58.044 43.478 5.68 5.68 0.00 1.78
2484 2574 4.162509 TGTCGGTTTGGTCCATATATGTGA 59.837 41.667 11.73 5.98 0.00 3.58
2485 2575 5.120399 GTCGGTTTGGTCCATATATGTGAA 58.880 41.667 11.73 0.00 0.00 3.18
2486 2576 5.587043 GTCGGTTTGGTCCATATATGTGAAA 59.413 40.000 11.73 2.64 0.00 2.69
2487 2577 6.262273 GTCGGTTTGGTCCATATATGTGAAAT 59.738 38.462 11.73 0.00 0.00 2.17
2573 2667 5.840715 TGTTGCAGTCATTTCATTTGCTTA 58.159 33.333 0.00 0.00 35.85 3.09
2574 2668 5.691305 TGTTGCAGTCATTTCATTTGCTTAC 59.309 36.000 0.00 0.00 35.85 2.34
2575 2669 5.450592 TGCAGTCATTTCATTTGCTTACA 57.549 34.783 0.00 0.00 35.85 2.41
2590 2688 5.794726 TGCTTACAAAGTACTGGAGTGTA 57.205 39.130 0.00 0.62 0.00 2.90
2662 2761 7.757624 GCGCCAGCCTAGATAGATATTAATATC 59.242 40.741 22.75 22.75 37.43 1.63
2663 2762 8.797438 CGCCAGCCTAGATAGATATTAATATCA 58.203 37.037 28.80 18.54 41.21 2.15
2684 2783 5.490159 TCATAGTTTAAAAATCCGGACCGT 58.510 37.500 6.12 0.00 0.00 4.83
2687 2786 4.002982 AGTTTAAAAATCCGGACCGTACC 58.997 43.478 6.12 0.00 0.00 3.34
2740 2840 1.029947 CCCGCCGGTTCTTTAAGCAT 61.030 55.000 1.90 0.00 32.47 3.79
2742 2842 1.597663 CCGCCGGTTCTTTAAGCATAG 59.402 52.381 1.90 0.00 32.47 2.23
2744 2844 1.003866 GCCGGTTCTTTAAGCATAGCG 60.004 52.381 1.90 6.31 32.47 4.26
2759 2859 0.530744 TAGCGGACTGTTCGAGCAAT 59.469 50.000 13.66 0.00 0.00 3.56
2762 2862 1.413767 CGGACTGTTCGAGCAATCGG 61.414 60.000 1.26 3.56 0.00 4.18
2766 2866 1.413767 CTGTTCGAGCAATCGGACCG 61.414 60.000 7.84 7.84 40.67 4.79
2798 2898 2.561373 GAGCCAGCCGGTTTTTCG 59.439 61.111 1.90 0.00 33.28 3.46
2799 2899 3.610791 GAGCCAGCCGGTTTTTCGC 62.611 63.158 1.90 0.00 33.28 4.70
2804 2904 1.496934 CAGCCGGTTTTTCGCAAAAT 58.503 45.000 1.90 0.00 34.35 1.82
2814 2914 3.906014 TTTCGCAAAATCGATGAACCA 57.094 38.095 0.00 0.00 38.37 3.67
2818 2919 1.135689 GCAAAATCGATGAACCAGCGT 60.136 47.619 0.00 0.00 43.92 5.07
2823 2924 2.093306 TCGATGAACCAGCGTTTCAT 57.907 45.000 9.42 9.42 43.92 2.57
2830 2931 5.759506 TGAACCAGCGTTTCATAGAAAAA 57.240 34.783 0.00 0.00 30.30 1.94
2831 2932 5.516090 TGAACCAGCGTTTCATAGAAAAAC 58.484 37.500 0.00 0.00 34.09 2.43
2851 2952 2.174060 GAACGGTTCGATGCCATTTC 57.826 50.000 4.94 5.23 0.00 2.17
2852 2953 0.808755 AACGGTTCGATGCCATTTCC 59.191 50.000 7.23 0.00 0.00 3.13
2858 2959 3.056891 GGTTCGATGCCATTTCCAGAAAA 60.057 43.478 0.00 0.00 33.56 2.29
2862 2963 3.305950 CGATGCCATTTCCAGAAAAACCA 60.306 43.478 0.00 0.00 33.56 3.67
2865 2966 3.454082 TGCCATTTCCAGAAAAACCACTT 59.546 39.130 0.00 0.00 33.56 3.16
2872 2973 8.981647 CATTTCCAGAAAAACCACTTAATTGAG 58.018 33.333 0.00 0.00 33.56 3.02
2881 2982 5.684550 ACCACTTAATTGAGTCGTTTTCC 57.315 39.130 0.00 0.00 0.00 3.13
2884 2985 5.238650 CCACTTAATTGAGTCGTTTTCCTGT 59.761 40.000 0.00 0.00 0.00 4.00
2892 2993 4.272504 TGAGTCGTTTTCCTGTGAACAATC 59.727 41.667 0.00 0.00 0.00 2.67
2894 2995 5.607477 AGTCGTTTTCCTGTGAACAATCTA 58.393 37.500 0.00 0.00 0.00 1.98
2896 2997 5.465724 GTCGTTTTCCTGTGAACAATCTAGT 59.534 40.000 0.00 0.00 0.00 2.57
2907 3008 7.323420 TGTGAACAATCTAGTGGTAGAATCAG 58.677 38.462 0.00 0.00 38.82 2.90
2942 3047 3.146847 CTCTTTTGGTAGGTTTTCGGCT 58.853 45.455 0.00 0.00 0.00 5.52
2943 3048 3.558033 TCTTTTGGTAGGTTTTCGGCTT 58.442 40.909 0.00 0.00 0.00 4.35
2952 3057 3.502356 AGGTTTTCGGCTTAATTGGGAA 58.498 40.909 0.00 0.00 0.00 3.97
2962 3067 5.449177 CGGCTTAATTGGGAACATTTCTCTC 60.449 44.000 0.00 0.00 42.32 3.20
2965 3070 6.675728 GCTTAATTGGGAACATTTCTCTCGAC 60.676 42.308 0.00 0.00 42.32 4.20
2974 3079 4.058817 ACATTTCTCTCGACTTTGTCCAC 58.941 43.478 0.00 0.00 0.00 4.02
2991 3096 4.755411 GTCCACAGACAAAATCCTATCGA 58.245 43.478 0.00 0.00 42.99 3.59
3024 3135 3.833304 TTGCGTGGCAATGTGTCA 58.167 50.000 0.00 0.00 43.99 3.58
3030 3143 4.101790 GGCAATGTGTCACGGCGG 62.102 66.667 13.24 0.00 0.00 6.13
3031 3144 4.759096 GCAATGTGTCACGGCGGC 62.759 66.667 13.24 0.00 0.00 6.53
3046 3159 2.258591 GGCGCTGTCTCTTCGTCA 59.741 61.111 7.64 0.00 0.00 4.35
3055 3168 4.415332 TCTTCGTCACCGCTCCGC 62.415 66.667 0.00 0.00 0.00 5.54
3056 3169 4.717629 CTTCGTCACCGCTCCGCA 62.718 66.667 0.00 0.00 0.00 5.69
3100 3213 4.489771 CCGCCACTCCCACATCCC 62.490 72.222 0.00 0.00 0.00 3.85
3118 3231 3.702048 GCCGTCCAGCACCACCTA 61.702 66.667 0.00 0.00 0.00 3.08
3130 3243 2.421388 GCACCACCTATGTTGATGGCTA 60.421 50.000 0.00 0.00 35.49 3.93
3134 3247 2.705658 CACCTATGTTGATGGCTAGGGA 59.294 50.000 0.00 0.00 35.97 4.20
3142 3255 0.118144 GATGGCTAGGGAGAGGGGAT 59.882 60.000 0.00 0.00 0.00 3.85
3144 3257 1.304179 TGGCTAGGGAGAGGGGATGA 61.304 60.000 0.00 0.00 0.00 2.92
3156 3269 1.192146 GGGGATGATGCCGCCTAGTA 61.192 60.000 0.00 0.00 35.02 1.82
3157 3270 0.685097 GGGATGATGCCGCCTAGTAA 59.315 55.000 0.00 0.00 0.00 2.24
3158 3271 1.338200 GGGATGATGCCGCCTAGTAAG 60.338 57.143 0.00 0.00 0.00 2.34
3162 3275 1.409064 TGATGCCGCCTAGTAAGACTG 59.591 52.381 0.00 0.00 0.00 3.51
3167 3287 2.307768 CCGCCTAGTAAGACTGATCCA 58.692 52.381 0.00 0.00 0.00 3.41
3176 3296 5.276440 AGTAAGACTGATCCATCCAACTCT 58.724 41.667 0.00 0.00 0.00 3.24
3177 3297 4.484537 AAGACTGATCCATCCAACTCTG 57.515 45.455 0.00 0.00 0.00 3.35
3196 3321 4.204799 TCTGATCCTGCTCCATTCAAATG 58.795 43.478 0.00 0.00 36.17 2.32
3197 3322 4.080186 TCTGATCCTGCTCCATTCAAATGA 60.080 41.667 4.30 0.00 38.70 2.57
3198 3323 4.800023 TGATCCTGCTCCATTCAAATGAT 58.200 39.130 4.30 0.00 38.70 2.45
3201 3326 4.204799 TCCTGCTCCATTCAAATGATCAG 58.795 43.478 0.09 7.70 38.70 2.90
3202 3327 3.318275 CCTGCTCCATTCAAATGATCAGG 59.682 47.826 16.15 16.15 38.84 3.86
3203 3328 2.691526 TGCTCCATTCAAATGATCAGGC 59.308 45.455 0.09 2.59 38.70 4.85
3204 3329 2.035576 GCTCCATTCAAATGATCAGGCC 59.964 50.000 0.09 0.00 38.70 5.19
3205 3330 3.563223 CTCCATTCAAATGATCAGGCCT 58.437 45.455 0.00 0.00 38.70 5.19
3206 3331 3.559069 TCCATTCAAATGATCAGGCCTC 58.441 45.455 0.00 0.00 38.70 4.70
3207 3332 3.203710 TCCATTCAAATGATCAGGCCTCT 59.796 43.478 0.00 0.00 38.70 3.69
3208 3333 3.568853 CCATTCAAATGATCAGGCCTCTC 59.431 47.826 0.00 3.09 38.70 3.20
3209 3334 4.462133 CATTCAAATGATCAGGCCTCTCT 58.538 43.478 0.00 0.00 38.70 3.10
3210 3335 3.834489 TCAAATGATCAGGCCTCTCTC 57.166 47.619 0.00 0.00 0.00 3.20
3211 3336 2.437281 TCAAATGATCAGGCCTCTCTCC 59.563 50.000 0.00 0.00 0.00 3.71
3212 3337 1.047002 AATGATCAGGCCTCTCTCCG 58.953 55.000 0.00 0.00 0.00 4.63
3213 3338 0.831288 ATGATCAGGCCTCTCTCCGG 60.831 60.000 0.00 0.00 0.00 5.14
3214 3339 2.123077 ATCAGGCCTCTCTCCGGG 60.123 66.667 0.00 0.00 0.00 5.73
3215 3340 2.937959 GATCAGGCCTCTCTCCGGGT 62.938 65.000 0.00 0.00 0.00 5.28
3250 3375 1.829849 CAGAGTCCAGATCAGGAGCAA 59.170 52.381 7.17 0.00 38.64 3.91
3263 3396 2.530151 AGCAAGAGGACCAGGGCA 60.530 61.111 0.00 0.00 0.00 5.36
3311 3444 4.265904 TGTTGCTTGCTGCTACTACTTA 57.734 40.909 14.61 0.00 45.30 2.24
3321 3458 5.122239 TGCTGCTACTACTTAATGTTGCTTG 59.878 40.000 0.00 0.00 36.28 4.01
3323 3460 4.092821 TGCTACTACTTAATGTTGCTTGCG 59.907 41.667 0.00 0.00 36.28 4.85
3326 3463 6.183360 GCTACTACTTAATGTTGCTTGCGTTA 60.183 38.462 0.00 0.00 33.49 3.18
3331 3468 7.141100 ACTTAATGTTGCTTGCGTTACTAAT 57.859 32.000 0.00 0.00 0.00 1.73
3346 3483 8.292448 TGCGTTACTAATTGCTACTATAGTACC 58.708 37.037 8.59 3.48 32.24 3.34
3358 3495 9.192642 TGCTACTATAGTACCATGTTTGAGTTA 57.807 33.333 8.59 0.00 0.00 2.24
3369 3506 8.954950 ACCATGTTTGAGTTAGAGATTATCAG 57.045 34.615 0.00 0.00 0.00 2.90
3411 3552 5.995565 ACATGTAGTTGCTGGTTACTCTA 57.004 39.130 0.00 0.00 0.00 2.43
3413 3554 6.947464 ACATGTAGTTGCTGGTTACTCTATT 58.053 36.000 0.00 0.00 0.00 1.73
3423 3564 8.437360 TGCTGGTTACTCTATTAATGTGATTG 57.563 34.615 0.00 0.00 0.00 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 1.900245 AGAAATGTAAAACGGGCCGT 58.100 45.000 28.83 28.83 43.97 5.68
38 39 8.728088 AAGATGCAAACTAGAAATGTAAAACG 57.272 30.769 0.00 0.00 0.00 3.60
78 79 7.591057 CAGAAGATGCAAAACGAAGATGTAAAA 59.409 33.333 0.00 0.00 0.00 1.52
82 83 4.516698 ACAGAAGATGCAAAACGAAGATGT 59.483 37.500 0.00 0.00 0.00 3.06
83 84 5.039480 ACAGAAGATGCAAAACGAAGATG 57.961 39.130 0.00 0.00 0.00 2.90
95 97 2.555757 AGCCAACTTCAACAGAAGATGC 59.444 45.455 11.79 10.09 40.97 3.91
99 101 4.907879 AAAGAGCCAACTTCAACAGAAG 57.092 40.909 3.83 3.83 43.45 2.85
165 167 8.991026 TCTCCAATAAAACATGCAAATTTGAAG 58.009 29.630 22.31 12.05 0.00 3.02
166 168 8.899427 TCTCCAATAAAACATGCAAATTTGAA 57.101 26.923 22.31 12.38 0.00 2.69
253 256 2.202987 CATGCCTCCCAGAGTCGC 60.203 66.667 0.00 0.00 0.00 5.19
299 302 1.526887 CTCCCCAGATTAAGCGCCA 59.473 57.895 2.29 0.00 0.00 5.69
314 320 2.772691 CCGGTAGTCAGCGTCCTCC 61.773 68.421 0.00 0.00 44.06 4.30
505 513 2.028930 GTCAGGATCAAACACCGTCTCT 60.029 50.000 0.00 0.00 0.00 3.10
516 524 0.037326 GGTGCAGTCGTCAGGATCAA 60.037 55.000 0.00 0.00 0.00 2.57
517 525 0.900182 AGGTGCAGTCGTCAGGATCA 60.900 55.000 0.00 0.00 0.00 2.92
532 540 0.249447 TCAACTGCTGTCACGAGGTG 60.249 55.000 0.00 0.00 34.45 4.00
708 717 5.661312 TCCAGATTTGTACACCAGCTATACT 59.339 40.000 0.00 0.00 0.00 2.12
709 718 5.914033 TCCAGATTTGTACACCAGCTATAC 58.086 41.667 0.00 0.00 0.00 1.47
710 719 6.382859 TCTTCCAGATTTGTACACCAGCTATA 59.617 38.462 0.00 0.00 0.00 1.31
711 720 5.189736 TCTTCCAGATTTGTACACCAGCTAT 59.810 40.000 0.00 0.00 0.00 2.97
752 764 2.064723 CTGGACGATCGATCTGCCGT 62.065 60.000 24.34 15.88 38.01 5.68
837 851 3.788766 GTTGCACGCGCGGATTCT 61.789 61.111 35.22 9.87 42.97 2.40
857 872 4.410492 ACGAATTCTTGCTTACTTGCTG 57.590 40.909 3.52 0.00 0.00 4.41
903 918 3.489229 GCGGGCAGTGATTAAATTCTTCC 60.489 47.826 0.00 0.00 0.00 3.46
905 920 2.097466 CGCGGGCAGTGATTAAATTCTT 59.903 45.455 0.00 0.00 0.00 2.52
927 943 2.740055 GGTGCACCGCTGAGTGAG 60.740 66.667 22.49 0.00 40.34 3.51
1290 1321 0.318107 AAAGCGTCAGTGCACATTGC 60.318 50.000 21.04 16.54 45.29 3.56
1291 1322 1.401530 CAAAGCGTCAGTGCACATTG 58.598 50.000 21.04 9.85 37.31 2.82
1292 1323 0.318107 GCAAAGCGTCAGTGCACATT 60.318 50.000 21.04 0.00 38.19 2.71
1293 1324 1.283793 GCAAAGCGTCAGTGCACAT 59.716 52.632 21.04 0.75 38.19 3.21
1294 1325 2.111582 TGCAAAGCGTCAGTGCACA 61.112 52.632 21.04 0.00 43.09 4.57
1295 1326 2.715005 TGCAAAGCGTCAGTGCAC 59.285 55.556 9.40 9.40 43.09 4.57
1297 1328 2.084681 GCATGCAAAGCGTCAGTGC 61.085 57.895 14.21 0.00 38.78 4.40
1298 1329 1.000233 GTGCATGCAAAGCGTCAGTG 61.000 55.000 24.58 0.00 33.85 3.66
1299 1330 1.283793 GTGCATGCAAAGCGTCAGT 59.716 52.632 24.58 0.00 33.85 3.41
1300 1331 1.794785 CGTGCATGCAAAGCGTCAG 60.795 57.895 24.58 2.80 33.85 3.51
1301 1332 1.576451 ATCGTGCATGCAAAGCGTCA 61.576 50.000 24.58 7.48 33.85 4.35
1302 1333 0.858961 GATCGTGCATGCAAAGCGTC 60.859 55.000 24.58 16.53 33.85 5.19
1388 1419 2.041922 TAGATGGACGGGCTGCCT 60.042 61.111 19.68 0.00 0.00 4.75
1446 1477 6.094603 GGCTGTACTTGAAAATCATGTGATCT 59.905 38.462 8.61 0.00 35.81 2.75
1452 1483 8.984891 TTAAATGGCTGTACTTGAAAATCATG 57.015 30.769 0.00 0.00 0.00 3.07
1454 1485 9.995003 AATTTAAATGGCTGTACTTGAAAATCA 57.005 25.926 0.39 0.00 0.00 2.57
1458 1489 9.418045 GCTAAATTTAAATGGCTGTACTTGAAA 57.582 29.630 0.39 0.00 0.00 2.69
1459 1490 7.753132 CGCTAAATTTAAATGGCTGTACTTGAA 59.247 33.333 0.39 0.00 0.00 2.69
1460 1491 7.247728 CGCTAAATTTAAATGGCTGTACTTGA 58.752 34.615 0.39 0.00 0.00 3.02
1461 1492 6.020678 GCGCTAAATTTAAATGGCTGTACTTG 60.021 38.462 0.00 0.00 0.00 3.16
1462 1493 6.033966 GCGCTAAATTTAAATGGCTGTACTT 58.966 36.000 0.00 0.00 0.00 2.24
1463 1494 5.449999 GGCGCTAAATTTAAATGGCTGTACT 60.450 40.000 7.64 0.00 0.00 2.73
1464 1495 4.738252 GGCGCTAAATTTAAATGGCTGTAC 59.262 41.667 7.64 0.00 0.00 2.90
1465 1496 4.496673 CGGCGCTAAATTTAAATGGCTGTA 60.497 41.667 7.64 0.00 0.00 2.74
1466 1497 3.733684 CGGCGCTAAATTTAAATGGCTGT 60.734 43.478 7.64 0.00 0.00 4.40
1467 1498 2.788786 CGGCGCTAAATTTAAATGGCTG 59.211 45.455 7.64 2.81 0.00 4.85
1468 1499 2.798145 GCGGCGCTAAATTTAAATGGCT 60.798 45.455 26.86 0.00 0.00 4.75
1469 1500 1.521006 GCGGCGCTAAATTTAAATGGC 59.479 47.619 26.86 6.27 0.00 4.40
1478 1512 1.966493 CTGACAACGCGGCGCTAAAT 61.966 55.000 30.54 12.90 0.00 1.40
1483 1517 2.883730 TATCTGACAACGCGGCGC 60.884 61.111 24.21 24.21 0.00 6.53
1497 1531 7.678226 TGAAAATTTACGTTAAGCCGAGTATC 58.322 34.615 0.00 0.00 0.00 2.24
1498 1532 7.201582 CCTGAAAATTTACGTTAAGCCGAGTAT 60.202 37.037 0.00 0.00 0.00 2.12
1501 1535 5.106830 ACCTGAAAATTTACGTTAAGCCGAG 60.107 40.000 0.00 0.00 0.00 4.63
1613 1677 2.282958 TCGAAGTGGACGGGCTCT 60.283 61.111 0.00 0.00 0.00 4.09
1904 1992 2.042259 AGCCACACGCATGGACATG 61.042 57.895 9.68 7.91 43.02 3.21
1905 1993 2.042259 CAGCCACACGCATGGACAT 61.042 57.895 9.68 0.00 43.02 3.06
1906 1994 2.669229 CAGCCACACGCATGGACA 60.669 61.111 9.68 0.00 43.02 4.02
1907 1995 4.107051 GCAGCCACACGCATGGAC 62.107 66.667 9.68 1.52 43.02 4.02
1908 1996 3.923782 ATGCAGCCACACGCATGGA 62.924 57.895 9.68 0.00 46.78 3.41
1909 1997 3.445687 ATGCAGCCACACGCATGG 61.446 61.111 1.08 1.08 46.78 3.66
2262 2350 3.556423 CCACCCACGTCTAGTTTAGCTTT 60.556 47.826 0.00 0.00 0.00 3.51
2265 2353 1.405121 CCCACCCACGTCTAGTTTAGC 60.405 57.143 0.00 0.00 0.00 3.09
2275 2363 3.153825 CAACCTACCCACCCACGT 58.846 61.111 0.00 0.00 0.00 4.49
2286 2374 2.603247 CGTGCTTGCGTGCAACCTA 61.603 57.895 2.58 0.00 45.12 3.08
2287 2375 3.952675 CGTGCTTGCGTGCAACCT 61.953 61.111 2.58 0.00 45.12 3.50
2360 2449 0.179234 CACACATACCCACGCCCATA 59.821 55.000 0.00 0.00 0.00 2.74
2391 2481 4.320023 ACACACACACGCCTTATTAATGA 58.680 39.130 0.00 0.00 0.00 2.57
2410 2500 1.276844 GCACAGACACTTGCGACAC 59.723 57.895 0.00 0.00 0.00 3.67
2411 2501 3.717899 GCACAGACACTTGCGACA 58.282 55.556 0.00 0.00 0.00 4.35
2416 2506 4.374702 GGCGCGCACAGACACTTG 62.375 66.667 34.42 0.00 0.00 3.16
2417 2507 4.908687 TGGCGCGCACAGACACTT 62.909 61.111 34.42 0.00 0.00 3.16
2418 2508 4.687215 ATGGCGCGCACAGACACT 62.687 61.111 34.42 9.95 0.00 3.55
2481 2571 5.337554 GCCCCGATACAGTTTTTATTTCAC 58.662 41.667 0.00 0.00 0.00 3.18
2484 2574 3.379057 CCGCCCCGATACAGTTTTTATTT 59.621 43.478 0.00 0.00 0.00 1.40
2485 2575 2.946990 CCGCCCCGATACAGTTTTTATT 59.053 45.455 0.00 0.00 0.00 1.40
2486 2576 2.171027 TCCGCCCCGATACAGTTTTTAT 59.829 45.455 0.00 0.00 0.00 1.40
2487 2577 1.554160 TCCGCCCCGATACAGTTTTTA 59.446 47.619 0.00 0.00 0.00 1.52
2573 2667 3.801293 GCCGTTACACTCCAGTACTTTGT 60.801 47.826 0.00 0.00 0.00 2.83
2574 2668 2.735134 GCCGTTACACTCCAGTACTTTG 59.265 50.000 0.00 0.00 0.00 2.77
2575 2669 2.366266 TGCCGTTACACTCCAGTACTTT 59.634 45.455 0.00 0.00 0.00 2.66
2590 2688 3.652274 CCAAAGTGAATGAAATGCCGTT 58.348 40.909 0.00 0.00 0.00 4.44
2662 2761 5.806366 ACGGTCCGGATTTTTAAACTATG 57.194 39.130 17.28 0.00 0.00 2.23
2663 2762 5.817296 GGTACGGTCCGGATTTTTAAACTAT 59.183 40.000 17.28 0.00 0.00 2.12
2664 2763 5.175127 GGTACGGTCCGGATTTTTAAACTA 58.825 41.667 17.28 0.00 0.00 2.24
2665 2764 4.002982 GGTACGGTCCGGATTTTTAAACT 58.997 43.478 17.28 0.00 0.00 2.66
2666 2765 4.340894 GGTACGGTCCGGATTTTTAAAC 57.659 45.455 17.28 0.00 0.00 2.01
2717 2817 0.614294 TTAAAGAACCGGCGGGATCA 59.386 50.000 31.78 9.48 37.57 2.92
2725 2825 1.597663 CCGCTATGCTTAAAGAACCGG 59.402 52.381 0.00 0.00 0.00 5.28
2726 2826 2.284417 GTCCGCTATGCTTAAAGAACCG 59.716 50.000 0.00 0.00 0.00 4.44
2728 2828 3.933332 ACAGTCCGCTATGCTTAAAGAAC 59.067 43.478 0.00 0.00 0.00 3.01
2731 2831 3.000322 CGAACAGTCCGCTATGCTTAAAG 60.000 47.826 0.00 0.00 0.00 1.85
2740 2840 0.530744 ATTGCTCGAACAGTCCGCTA 59.469 50.000 0.00 0.00 0.00 4.26
2742 2842 1.710339 GATTGCTCGAACAGTCCGC 59.290 57.895 0.13 0.00 0.00 5.54
2777 2877 4.699522 AAACCGGCTGGCTCGACC 62.700 66.667 12.89 0.00 39.70 4.79
2778 2878 2.183858 GAAAAACCGGCTGGCTCGAC 62.184 60.000 12.89 0.00 39.70 4.20
2779 2879 1.964373 GAAAAACCGGCTGGCTCGA 60.964 57.895 12.89 0.00 39.70 4.04
2780 2880 2.561373 GAAAAACCGGCTGGCTCG 59.439 61.111 12.89 0.00 39.70 5.03
2781 2881 2.561373 CGAAAAACCGGCTGGCTC 59.439 61.111 12.89 2.35 39.70 4.70
2782 2882 3.670377 GCGAAAAACCGGCTGGCT 61.670 61.111 12.89 0.00 39.70 4.75
2783 2883 2.962697 TTTGCGAAAAACCGGCTGGC 62.963 55.000 12.89 0.00 39.70 4.85
2784 2884 0.528684 TTTTGCGAAAAACCGGCTGG 60.529 50.000 11.02 11.02 42.84 4.85
2785 2885 1.455408 GATTTTGCGAAAAACCGGCTG 59.545 47.619 2.67 0.00 33.47 4.85
2786 2886 1.778334 GATTTTGCGAAAAACCGGCT 58.222 45.000 2.67 0.00 33.47 5.52
2787 2887 0.433115 CGATTTTGCGAAAAACCGGC 59.567 50.000 7.55 0.00 33.47 6.13
2788 2888 2.039327 TCGATTTTGCGAAAAACCGG 57.961 45.000 15.41 0.00 37.35 5.28
2789 2889 3.230355 TCATCGATTTTGCGAAAAACCG 58.770 40.909 9.25 9.25 44.22 4.44
2790 2890 4.143410 GGTTCATCGATTTTGCGAAAAACC 60.143 41.667 2.67 11.05 44.24 3.27
2791 2891 4.442733 TGGTTCATCGATTTTGCGAAAAAC 59.557 37.500 2.67 2.30 44.22 2.43
2798 2898 1.135689 ACGCTGGTTCATCGATTTTGC 60.136 47.619 0.00 0.00 0.00 3.68
2799 2899 2.900122 ACGCTGGTTCATCGATTTTG 57.100 45.000 0.00 0.00 0.00 2.44
2804 2904 2.093306 ATGAAACGCTGGTTCATCGA 57.907 45.000 13.66 0.00 34.62 3.59
2807 2907 5.957842 TTTTCTATGAAACGCTGGTTCAT 57.042 34.783 20.22 20.22 34.62 2.57
2833 2934 0.808755 GGAAATGGCATCGAACCGTT 59.191 50.000 0.00 9.00 38.05 4.44
2834 2935 0.322098 TGGAAATGGCATCGAACCGT 60.322 50.000 0.00 0.00 0.00 4.83
2845 2946 7.930865 TCAATTAAGTGGTTTTTCTGGAAATGG 59.069 33.333 2.65 0.00 0.00 3.16
2846 2947 8.885494 TCAATTAAGTGGTTTTTCTGGAAATG 57.115 30.769 2.65 0.00 0.00 2.32
2847 2948 8.704668 ACTCAATTAAGTGGTTTTTCTGGAAAT 58.295 29.630 2.65 0.00 0.00 2.17
2851 2952 6.142817 CGACTCAATTAAGTGGTTTTTCTGG 58.857 40.000 2.65 0.00 0.00 3.86
2852 2953 6.725246 ACGACTCAATTAAGTGGTTTTTCTG 58.275 36.000 2.65 0.00 35.00 3.02
2858 2959 5.826208 AGGAAAACGACTCAATTAAGTGGTT 59.174 36.000 3.44 3.44 46.17 3.67
2862 2963 6.053005 TCACAGGAAAACGACTCAATTAAGT 58.947 36.000 0.00 0.00 0.00 2.24
2865 2966 5.818336 TGTTCACAGGAAAACGACTCAATTA 59.182 36.000 0.00 0.00 34.13 1.40
2872 2973 4.813296 AGATTGTTCACAGGAAAACGAC 57.187 40.909 0.00 0.00 34.13 4.34
2881 2982 7.323420 TGATTCTACCACTAGATTGTTCACAG 58.677 38.462 0.00 0.00 0.00 3.66
2884 2985 7.718334 TCTGATTCTACCACTAGATTGTTCA 57.282 36.000 0.00 0.00 0.00 3.18
2892 2993 8.848474 TTTTCCTTTTCTGATTCTACCACTAG 57.152 34.615 0.00 0.00 0.00 2.57
2920 3025 2.882761 GCCGAAAACCTACCAAAAGAGT 59.117 45.455 0.00 0.00 0.00 3.24
2934 3039 5.476091 AATGTTCCCAATTAAGCCGAAAA 57.524 34.783 0.00 0.00 0.00 2.29
2942 3047 6.472887 AGTCGAGAGAAATGTTCCCAATTAA 58.527 36.000 0.00 0.00 45.01 1.40
2943 3048 6.049955 AGTCGAGAGAAATGTTCCCAATTA 57.950 37.500 0.00 0.00 45.01 1.40
2952 3057 4.058817 GTGGACAAAGTCGAGAGAAATGT 58.941 43.478 0.00 0.00 45.01 2.71
2974 3079 2.219674 GCGCTCGATAGGATTTTGTCTG 59.780 50.000 0.00 0.00 0.00 3.51
2982 3087 4.057428 GGCGGCGCTCGATAGGAT 62.057 66.667 32.30 0.00 42.43 3.24
3011 3116 2.255252 GCCGTGACACATTGCCAC 59.745 61.111 6.37 0.00 0.00 5.01
3030 3143 2.089349 GGTGACGAAGAGACAGCGC 61.089 63.158 0.00 0.00 33.94 5.92
3031 3144 4.154613 GGTGACGAAGAGACAGCG 57.845 61.111 0.00 0.00 33.94 5.18
3092 3205 4.838152 CTGGACGGCGGGATGTGG 62.838 72.222 13.24 0.00 0.00 4.17
3107 3220 2.019249 CCATCAACATAGGTGGTGCTG 58.981 52.381 0.00 0.00 42.93 4.41
3108 3221 1.683011 GCCATCAACATAGGTGGTGCT 60.683 52.381 0.00 0.00 42.93 4.40
3111 3224 2.439507 CCTAGCCATCAACATAGGTGGT 59.560 50.000 0.00 0.00 34.23 4.16
3118 3231 2.053244 CCTCTCCCTAGCCATCAACAT 58.947 52.381 0.00 0.00 0.00 2.71
3130 3243 1.463018 GGCATCATCCCCTCTCCCT 60.463 63.158 0.00 0.00 0.00 4.20
3134 3247 2.679619 TAGGCGGCATCATCCCCTCT 62.680 60.000 13.08 0.00 31.84 3.69
3142 3255 1.409064 CAGTCTTACTAGGCGGCATCA 59.591 52.381 13.08 0.00 0.00 3.07
3144 3257 1.776662 TCAGTCTTACTAGGCGGCAT 58.223 50.000 13.08 0.00 0.00 4.40
3156 3269 4.099633 TCAGAGTTGGATGGATCAGTCTT 58.900 43.478 0.00 0.00 0.00 3.01
3157 3270 3.717576 TCAGAGTTGGATGGATCAGTCT 58.282 45.455 0.00 0.00 0.00 3.24
3158 3271 4.502950 GGATCAGAGTTGGATGGATCAGTC 60.503 50.000 0.00 0.00 36.86 3.51
3162 3275 3.806507 GCAGGATCAGAGTTGGATGGATC 60.807 52.174 0.00 0.00 34.93 3.36
3167 3287 1.767681 GGAGCAGGATCAGAGTTGGAT 59.232 52.381 0.00 0.00 0.00 3.41
3176 3296 4.239428 TCATTTGAATGGAGCAGGATCA 57.761 40.909 4.05 0.00 37.03 2.92
3177 3297 4.825634 TGATCATTTGAATGGAGCAGGATC 59.174 41.667 4.05 0.00 37.03 3.36
3196 3321 2.206536 CCCGGAGAGAGGCCTGATC 61.207 68.421 12.00 8.49 0.00 2.92
3197 3322 2.123077 CCCGGAGAGAGGCCTGAT 60.123 66.667 12.00 0.00 0.00 2.90
3198 3323 3.673597 ACCCGGAGAGAGGCCTGA 61.674 66.667 12.00 0.00 0.00 3.86
3203 3328 3.151022 GAGGCACCCGGAGAGAGG 61.151 72.222 0.73 0.00 0.00 3.69
3204 3329 3.151022 GGAGGCACCCGGAGAGAG 61.151 72.222 0.73 0.00 0.00 3.20
3213 3338 2.276309 CTGGAATGGAGGGAGGCACC 62.276 65.000 0.00 0.00 38.08 5.01
3214 3339 1.225704 CTGGAATGGAGGGAGGCAC 59.774 63.158 0.00 0.00 0.00 5.01
3215 3340 0.984961 CTCTGGAATGGAGGGAGGCA 60.985 60.000 0.00 0.00 0.00 4.75
3250 3375 2.930562 GTGGTGCCCTGGTCCTCT 60.931 66.667 0.00 0.00 0.00 3.69
3263 3396 3.170991 TCAAGTAGTAGCAGAGGTGGT 57.829 47.619 0.00 0.00 38.25 4.16
3276 3409 4.855388 GCAAGCAACATCAACATCAAGTAG 59.145 41.667 0.00 0.00 0.00 2.57
3311 3444 4.621034 GCAATTAGTAACGCAAGCAACATT 59.379 37.500 2.06 0.00 45.62 2.71
3321 3458 8.666580 GGTACTATAGTAGCAATTAGTAACGC 57.333 38.462 28.83 7.72 45.45 4.84
3346 3483 8.954950 ACCTGATAATCTCTAACTCAAACATG 57.045 34.615 0.00 0.00 0.00 3.21
3400 3541 8.338259 GTGCAATCACATTAATAGAGTAACCAG 58.662 37.037 0.00 0.00 42.66 4.00


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

AutoCloner maintained by Alex Coulton.