Multiple sequence alignment - TraesCS4B01G154700

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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 TraesCS4B01G154700 chr4B 100.000 2839 0 0 1 2839 273687372 273690210 0.000000e+00 5243.0
1 TraesCS4B01G154700 chr4B 96.726 733 21 1 665 1394 565111688 565112420 0.000000e+00 1218.0
2 TraesCS4B01G154700 chr4B 96.696 575 16 1 665 1236 10622227 10621653 0.000000e+00 953.0
3 TraesCS4B01G154700 chr4B 100.000 34 0 0 2075 2108 273689404 273689437 2.360000e-06 63.9
4 TraesCS4B01G154700 chr4B 100.000 34 0 0 2033 2066 273689446 273689479 2.360000e-06 63.9
5 TraesCS4B01G154700 chr4D 84.819 1739 100 65 1 1647 291738052 291736386 0.000000e+00 1598.0
6 TraesCS4B01G154700 chr4D 93.171 410 26 2 1646 2054 291736304 291735896 4.050000e-168 601.0
7 TraesCS4B01G154700 chr4D 92.920 226 12 4 2283 2508 291735689 291735468 2.730000e-85 326.0
8 TraesCS4B01G154700 chr4D 92.500 80 6 0 2173 2252 291735761 291735682 6.430000e-22 115.0
9 TraesCS4B01G154700 chr4D 89.744 78 4 2 2700 2774 291735105 291735029 2.330000e-16 97.1
10 TraesCS4B01G154700 chr4D 89.394 66 1 1 2510 2575 291735156 291735097 8.430000e-11 78.7
11 TraesCS4B01G154700 chr4A 84.263 1595 109 65 76 1592 210999129 211000659 0.000000e+00 1424.0
12 TraesCS4B01G154700 chr4A 89.047 493 30 10 1587 2078 211000619 211001088 8.760000e-165 590.0
13 TraesCS4B01G154700 chr4A 90.780 141 3 5 2700 2839 211002057 211002188 2.250000e-41 180.0
14 TraesCS4B01G154700 chr4A 95.745 47 0 1 2655 2701 335204576 335204532 1.090000e-09 75.0
15 TraesCS4B01G154700 chr2B 96.317 733 24 2 665 1394 29006114 29005382 0.000000e+00 1201.0
16 TraesCS4B01G154700 chr3B 96.049 734 24 3 665 1394 16180715 16179983 0.000000e+00 1190.0
17 TraesCS4B01G154700 chr7B 95.362 733 31 1 665 1394 613375640 613374908 0.000000e+00 1162.0
18 TraesCS4B01G154700 chr7B 95.362 733 31 1 665 1394 709128678 709129410 0.000000e+00 1162.0
19 TraesCS4B01G154700 chr7B 96.348 575 18 1 665 1236 718399801 718400375 0.000000e+00 942.0
20 TraesCS4B01G154700 chr7B 88.018 217 25 1 2290 2506 591953487 591953702 3.630000e-64 255.0
21 TraesCS4B01G154700 chr7B 87.558 217 26 1 2290 2506 592345905 592345690 1.690000e-62 250.0
22 TraesCS4B01G154700 chr7B 96.970 33 1 0 2715 2747 591954215 591954247 3.950000e-04 56.5
23 TraesCS4B01G154700 chr6B 94.422 735 36 3 665 1394 387720106 387719372 0.000000e+00 1125.0
24 TraesCS4B01G154700 chr6B 96.696 575 16 1 665 1236 160388274 160388848 0.000000e+00 953.0
25 TraesCS4B01G154700 chr7D 87.097 217 27 1 2290 2506 548774198 548773983 7.860000e-61 244.0
26 TraesCS4B01G154700 chr7D 86.735 196 16 7 1766 1957 548774966 548774777 2.870000e-50 209.0
27 TraesCS4B01G154700 chr7D 91.176 136 6 3 2569 2701 599867504 599867636 2.250000e-41 180.0
28 TraesCS4B01G154700 chr7A 86.175 217 29 1 2290 2506 632548928 632548713 1.700000e-57 233.0
29 TraesCS4B01G154700 chr7A 84.112 214 20 8 1799 2004 632549685 632549478 8.030000e-46 195.0
30 TraesCS4B01G154700 chr5B 92.701 137 5 2 2569 2702 536374041 536374175 2.890000e-45 193.0
31 TraesCS4B01G154700 chr2A 93.233 133 4 2 2572 2701 17905764 17905634 1.040000e-44 191.0
32 TraesCS4B01G154700 chr3D 89.706 136 8 4 2569 2701 604751635 604751767 4.860000e-38 169.0
33 TraesCS4B01G154700 chr3D 87.879 132 12 2 2573 2702 604761770 604761899 4.900000e-33 152.0


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 TraesCS4B01G154700 chr4B 273687372 273690210 2838 False 1790.266667 5243 100.000000 1 2839 3 chr4B.!!$F2 2838
1 TraesCS4B01G154700 chr4B 565111688 565112420 732 False 1218.000000 1218 96.726000 665 1394 1 chr4B.!!$F1 729
2 TraesCS4B01G154700 chr4B 10621653 10622227 574 True 953.000000 953 96.696000 665 1236 1 chr4B.!!$R1 571
3 TraesCS4B01G154700 chr4D 291735029 291738052 3023 True 469.300000 1598 90.424667 1 2774 6 chr4D.!!$R1 2773
4 TraesCS4B01G154700 chr4A 210999129 211002188 3059 False 731.333333 1424 88.030000 76 2839 3 chr4A.!!$F1 2763
5 TraesCS4B01G154700 chr2B 29005382 29006114 732 True 1201.000000 1201 96.317000 665 1394 1 chr2B.!!$R1 729
6 TraesCS4B01G154700 chr3B 16179983 16180715 732 True 1190.000000 1190 96.049000 665 1394 1 chr3B.!!$R1 729
7 TraesCS4B01G154700 chr7B 613374908 613375640 732 True 1162.000000 1162 95.362000 665 1394 1 chr7B.!!$R2 729
8 TraesCS4B01G154700 chr7B 709128678 709129410 732 False 1162.000000 1162 95.362000 665 1394 1 chr7B.!!$F1 729
9 TraesCS4B01G154700 chr7B 718399801 718400375 574 False 942.000000 942 96.348000 665 1236 1 chr7B.!!$F2 571
10 TraesCS4B01G154700 chr6B 387719372 387720106 734 True 1125.000000 1125 94.422000 665 1394 1 chr6B.!!$R1 729
11 TraesCS4B01G154700 chr6B 160388274 160388848 574 False 953.000000 953 96.696000 665 1236 1 chr6B.!!$F1 571
12 TraesCS4B01G154700 chr7D 548773983 548774966 983 True 226.500000 244 86.916000 1766 2506 2 chr7D.!!$R1 740
13 TraesCS4B01G154700 chr7A 632548713 632549685 972 True 214.000000 233 85.143500 1799 2506 2 chr7A.!!$R1 707

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
291 296 0.036875 AGCGGGAGGGAAGAAAACAG 59.963 55.0 0.00 0.0 0.00 3.16 F
773 839 0.042448 GGATTCGTGGTTAATCGCGC 60.042 55.0 16.69 0.0 40.07 6.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1757 1978 0.171007 CACCCTGGCAAAGCATAACG 59.829 55.0 0.0 0.0 0.0 3.18 R
2587 3627 0.029300 CACACTGCCGTTTTCACCTG 59.971 55.0 0.0 0.0 0.0 4.00 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
256 259 2.202053 GGGGGTTTCGGGGGTTTT 59.798 61.111 0.00 0.00 0.00 2.43
261 264 1.183030 GGTTTCGGGGGTTTTGGGAG 61.183 60.000 0.00 0.00 0.00 4.30
284 289 3.157949 GGAGGAGCGGGAGGGAAG 61.158 72.222 0.00 0.00 0.00 3.46
286 291 1.686110 GAGGAGCGGGAGGGAAGAA 60.686 63.158 0.00 0.00 0.00 2.52
289 294 0.677098 GGAGCGGGAGGGAAGAAAAC 60.677 60.000 0.00 0.00 0.00 2.43
291 296 0.036875 AGCGGGAGGGAAGAAAACAG 59.963 55.000 0.00 0.00 0.00 3.16
337 356 1.000359 GGCCCAGCCCAATAACAGT 60.000 57.895 0.00 0.00 44.06 3.55
429 474 0.764890 TGGCCGCTCCTGCTATAAAT 59.235 50.000 0.00 0.00 36.97 1.40
436 481 2.427506 CTCCTGCTATAAATTCCCGGC 58.572 52.381 0.00 0.00 0.00 6.13
575 639 2.159099 GCTCGATCTTGTATGTCCACCA 60.159 50.000 0.00 0.00 0.00 4.17
587 651 1.302431 TCCACCATCCTGCGTGTTG 60.302 57.895 0.00 0.00 0.00 3.33
597 661 1.006825 CTGCGTGTTGGTCGATTCGA 61.007 55.000 4.29 4.29 0.00 3.71
607 671 2.168496 GGTCGATTCGATCCCATCCTA 58.832 52.381 12.54 0.00 38.42 2.94
614 678 1.954382 TCGATCCCATCCTACGTCTTG 59.046 52.381 0.00 0.00 0.00 3.02
628 692 4.825546 ACGTCTTGACGTCTTCTTCTTA 57.174 40.909 21.04 0.00 43.43 2.10
638 702 6.208007 TGACGTCTTCTTCTTATCACCAAGTA 59.792 38.462 17.92 0.00 0.00 2.24
639 703 7.093902 TGACGTCTTCTTCTTATCACCAAGTAT 60.094 37.037 17.92 0.00 0.00 2.12
640 704 8.289939 ACGTCTTCTTCTTATCACCAAGTATA 57.710 34.615 0.00 0.00 0.00 1.47
641 705 8.746530 ACGTCTTCTTCTTATCACCAAGTATAA 58.253 33.333 0.00 0.00 0.00 0.98
642 706 9.582431 CGTCTTCTTCTTATCACCAAGTATAAA 57.418 33.333 0.00 0.00 0.00 1.40
710 775 1.193203 CCTAGTATGCGATGCTTTGCG 59.807 52.381 7.28 0.00 34.71 4.85
729 794 2.607771 GCGTAGTTTCGTCCCTGTAACA 60.608 50.000 0.00 0.00 0.00 2.41
773 839 0.042448 GGATTCGTGGTTAATCGCGC 60.042 55.000 16.69 0.00 40.07 6.86
1036 1147 1.899814 GTGACATGGTGGACCTCTACA 59.100 52.381 0.00 0.00 36.82 2.74
1068 1186 3.007635 GTGGTATGCACACCCTCTTTAC 58.992 50.000 12.63 0.00 37.84 2.01
1101 1219 2.485795 TTTTGCACTGGTGGACGCC 61.486 57.895 2.84 0.00 0.00 5.68
1416 1554 5.514169 TGGATATTTTCTATTGGTGGTGCA 58.486 37.500 0.00 0.00 0.00 4.57
1420 1558 7.448469 GGATATTTTCTATTGGTGGTGCATACT 59.552 37.037 0.00 0.00 0.00 2.12
1421 1559 8.766994 ATATTTTCTATTGGTGGTGCATACTT 57.233 30.769 0.00 0.00 0.00 2.24
1434 1572 7.257722 GTGGTGCATACTTTTGCTTATGTTAT 58.742 34.615 0.00 0.00 43.18 1.89
1454 1592 9.784531 ATGTTATAACCTGATAATCTTGACCTG 57.215 33.333 13.01 0.00 0.00 4.00
1455 1593 8.988060 TGTTATAACCTGATAATCTTGACCTGA 58.012 33.333 13.01 0.00 0.00 3.86
1456 1594 9.262358 GTTATAACCTGATAATCTTGACCTGAC 57.738 37.037 4.11 0.00 0.00 3.51
1457 1595 7.682787 ATAACCTGATAATCTTGACCTGACT 57.317 36.000 0.00 0.00 0.00 3.41
1458 1596 5.606348 ACCTGATAATCTTGACCTGACTC 57.394 43.478 0.00 0.00 0.00 3.36
1459 1597 4.098654 ACCTGATAATCTTGACCTGACTCG 59.901 45.833 0.00 0.00 0.00 4.18
1460 1598 4.500545 CCTGATAATCTTGACCTGACTCGG 60.501 50.000 0.00 0.00 0.00 4.63
1480 1618 6.313905 ACTCGGTGAACATGTATTTTCATCTC 59.686 38.462 0.00 0.00 34.34 2.75
1498 1636 9.877178 TTTCATCTCTACTTTGTCTTATCCTTC 57.123 33.333 0.00 0.00 0.00 3.46
1503 1641 6.936279 TCTACTTTGTCTTATCCTTCCACTG 58.064 40.000 0.00 0.00 0.00 3.66
1508 1646 5.407407 TGTCTTATCCTTCCACTGAAGTC 57.593 43.478 2.03 0.00 45.45 3.01
1528 1666 6.369059 AGTCATTGTTTGAAGACTTGTCTG 57.631 37.500 3.87 0.00 38.08 3.51
1529 1667 5.297776 AGTCATTGTTTGAAGACTTGTCTGG 59.702 40.000 3.87 0.00 38.08 3.86
1544 1682 4.955811 TGTCTGGCTTTTAGTTCTGAGA 57.044 40.909 0.00 0.00 0.00 3.27
1560 1698 8.276252 AGTTCTGAGAGTTCTAGTTATCTCAC 57.724 38.462 15.05 9.11 42.36 3.51
1569 1707 7.560368 AGTTCTAGTTATCTCACTCAAATGGG 58.440 38.462 0.00 0.00 0.00 4.00
1578 1716 2.637382 TCACTCAAATGGGTGCTCAGTA 59.363 45.455 8.57 0.00 33.91 2.74
1592 1730 6.462500 GGTGCTCAGTATCATCATGTTATCT 58.538 40.000 0.00 0.00 0.00 1.98
1593 1731 6.368243 GGTGCTCAGTATCATCATGTTATCTG 59.632 42.308 0.00 0.00 0.00 2.90
1596 1734 8.373220 TGCTCAGTATCATCATGTTATCTGATT 58.627 33.333 0.00 0.00 31.00 2.57
1597 1735 8.871862 GCTCAGTATCATCATGTTATCTGATTC 58.128 37.037 0.00 0.00 31.00 2.52
1598 1736 9.924650 CTCAGTATCATCATGTTATCTGATTCA 57.075 33.333 0.00 0.00 31.00 2.57
1614 1752 5.750547 TCTGATTCAAATCGATGCTCAGTAC 59.249 40.000 0.00 0.00 38.26 2.73
1627 1765 7.391833 TCGATGCTCAGTACTATCATGTTATCT 59.608 37.037 0.00 0.00 0.00 1.98
1747 1968 4.252878 TGTATCATATACATTGCTGGGCG 58.747 43.478 0.00 0.00 0.00 6.13
1753 1974 0.251916 TACATTGCTGGGCGCTTACT 59.748 50.000 7.64 0.00 40.11 2.24
1757 1978 3.198489 GCTGGGCGCTTACTGCTC 61.198 66.667 7.64 0.00 40.11 4.26
1764 1985 0.042967 GCGCTTACTGCTCGTTATGC 60.043 55.000 0.00 0.00 40.11 3.14
1769 1990 3.674423 CTTACTGCTCGTTATGCTTTGC 58.326 45.455 0.00 0.00 0.00 3.68
1848 2069 3.451141 AGCAGCTCTAGATGTTGCTAC 57.549 47.619 22.47 11.16 42.81 3.58
2006 2235 9.791820 TTTAATCTGTGTTGAATGCTTGATATG 57.208 29.630 0.00 0.00 0.00 1.78
2010 2239 6.878389 TCTGTGTTGAATGCTTGATATGTGTA 59.122 34.615 0.00 0.00 0.00 2.90
2032 2302 6.755141 TGTACCTTATCTCGTTGCTTAATGTC 59.245 38.462 0.00 0.00 0.00 3.06
2054 2324 5.239525 GTCATACTGATGATTTGGCCCTTAC 59.760 44.000 0.00 0.00 43.95 2.34
2069 2339 6.723339 TGGCCCTTACTTTACTAGCAAATTA 58.277 36.000 0.00 0.00 0.00 1.40
2071 2341 7.284489 TGGCCCTTACTTTACTAGCAAATTATG 59.716 37.037 0.00 0.00 0.00 1.90
2072 2342 7.255486 GGCCCTTACTTTACTAGCAAATTATGG 60.255 40.741 0.00 9.26 0.00 2.74
2078 2348 8.166422 ACTTTACTAGCAAATTATGGCCATAC 57.834 34.615 25.39 13.18 0.00 2.39
2080 2350 7.744087 TTACTAGCAAATTATGGCCATACTG 57.256 36.000 25.39 21.13 0.00 2.74
2081 2351 5.940617 ACTAGCAAATTATGGCCATACTGA 58.059 37.500 25.39 11.57 0.00 3.41
2082 2352 6.546484 ACTAGCAAATTATGGCCATACTGAT 58.454 36.000 25.39 21.12 0.00 2.90
2083 2353 5.717078 AGCAAATTATGGCCATACTGATG 57.283 39.130 25.39 20.73 0.00 3.07
2084 2354 5.387788 AGCAAATTATGGCCATACTGATGA 58.612 37.500 25.39 10.01 34.73 2.92
2086 2356 6.495872 AGCAAATTATGGCCATACTGATGATT 59.504 34.615 25.39 17.07 34.73 2.57
2088 2358 7.117236 GCAAATTATGGCCATACTGATGATTTG 59.883 37.037 31.70 31.70 35.22 2.32
2092 2362 1.615392 GCCATACTGATGATTTGGCCC 59.385 52.381 0.00 0.00 45.63 5.80
2096 2366 4.520492 CCATACTGATGATTTGGCCCTTAC 59.480 45.833 0.00 0.00 34.73 2.34
2097 2367 5.380043 CATACTGATGATTTGGCCCTTACT 58.620 41.667 0.00 0.00 34.73 2.24
2098 2368 4.322057 ACTGATGATTTGGCCCTTACTT 57.678 40.909 0.00 0.00 0.00 2.24
2099 2369 4.677182 ACTGATGATTTGGCCCTTACTTT 58.323 39.130 0.00 0.00 0.00 2.66
2100 2370 5.826643 ACTGATGATTTGGCCCTTACTTTA 58.173 37.500 0.00 0.00 0.00 1.85
2101 2371 5.652452 ACTGATGATTTGGCCCTTACTTTAC 59.348 40.000 0.00 0.00 0.00 2.01
2103 2373 6.964464 TGATGATTTGGCCCTTACTTTACTA 58.036 36.000 0.00 0.00 0.00 1.82
2104 2374 7.054124 TGATGATTTGGCCCTTACTTTACTAG 58.946 38.462 0.00 0.00 0.00 2.57
2105 2375 5.190677 TGATTTGGCCCTTACTTTACTAGC 58.809 41.667 0.00 0.00 0.00 3.42
2108 2378 3.946606 TGGCCCTTACTTTACTAGCAAC 58.053 45.455 0.00 0.00 0.00 4.17
2109 2379 3.585732 TGGCCCTTACTTTACTAGCAACT 59.414 43.478 0.00 0.00 0.00 3.16
2116 2494 8.601476 CCCTTACTTTACTAGCAACTTTATTCG 58.399 37.037 0.00 0.00 0.00 3.34
2138 2519 6.163476 TCGTACTTCAAAATGCATGTACTCT 58.837 36.000 16.28 0.00 0.00 3.24
2154 2545 0.441533 CTCTGCAGCACAAGTAAGCG 59.558 55.000 9.47 0.00 35.48 4.68
2251 2818 1.401552 GGCTGACGATTAATGCTGCAA 59.598 47.619 6.36 0.00 0.00 4.08
2253 2820 3.489738 GGCTGACGATTAATGCTGCAATT 60.490 43.478 6.36 4.55 0.00 2.32
2257 2824 7.077605 GCTGACGATTAATGCTGCAATTATTA 58.922 34.615 6.36 0.00 0.00 0.98
2262 2829 9.541724 ACGATTAATGCTGCAATTATTAATACG 57.458 29.630 15.21 18.50 37.21 3.06
2358 2945 0.470341 GGTAGAAGCCACCAGGGATC 59.530 60.000 0.00 0.00 40.01 3.36
2375 2962 3.803082 CATGCTCGTTGCCGGTGG 61.803 66.667 1.90 0.00 42.00 4.61
2420 3010 2.753043 GTGTCCGGGCGTAGGAGA 60.753 66.667 0.00 0.00 38.65 3.71
2421 3011 2.439701 TGTCCGGGCGTAGGAGAG 60.440 66.667 0.00 0.00 38.65 3.20
2424 3014 4.835891 CCGGGCGTAGGAGAGGGT 62.836 72.222 0.00 0.00 0.00 4.34
2428 3018 2.772691 GGCGTAGGAGAGGGTGTCG 61.773 68.421 0.00 0.00 0.00 4.35
2472 3062 2.188994 GATCTTGCCCTCTGCGCT 59.811 61.111 9.73 0.00 45.60 5.92
2508 3112 1.984570 TGAGCCCCTCGTCCTTGAG 60.985 63.158 0.00 0.00 32.35 3.02
2525 3565 1.009552 TGAGGATCTTTGGCCTAGGGA 59.990 52.381 11.72 0.00 33.84 4.20
2526 3566 2.127708 GAGGATCTTTGGCCTAGGGAA 58.872 52.381 11.72 0.00 33.84 3.97
2527 3567 2.509964 GAGGATCTTTGGCCTAGGGAAA 59.490 50.000 11.72 0.00 33.84 3.13
2528 3568 2.926329 AGGATCTTTGGCCTAGGGAAAA 59.074 45.455 11.72 0.00 31.31 2.29
2529 3569 3.053320 AGGATCTTTGGCCTAGGGAAAAG 60.053 47.826 11.72 4.32 32.66 2.27
2530 3570 3.309193 GGATCTTTGGCCTAGGGAAAAGT 60.309 47.826 11.72 0.00 32.97 2.66
2569 3609 1.593265 GATGGCCCTGCAACCAAAG 59.407 57.895 0.00 0.00 39.96 2.77
2570 3610 1.152269 ATGGCCCTGCAACCAAAGT 60.152 52.632 0.00 0.00 39.96 2.66
2571 3611 1.474332 ATGGCCCTGCAACCAAAGTG 61.474 55.000 0.00 0.00 39.96 3.16
2572 3612 1.832167 GGCCCTGCAACCAAAGTGA 60.832 57.895 0.00 0.00 0.00 3.41
2573 3613 1.398958 GGCCCTGCAACCAAAGTGAA 61.399 55.000 0.00 0.00 0.00 3.18
2574 3614 0.032540 GCCCTGCAACCAAAGTGAAG 59.967 55.000 0.00 0.00 0.00 3.02
2575 3615 0.032540 CCCTGCAACCAAAGTGAAGC 59.967 55.000 0.00 0.00 0.00 3.86
2576 3616 1.035139 CCTGCAACCAAAGTGAAGCT 58.965 50.000 0.00 0.00 0.00 3.74
2577 3617 2.229792 CCTGCAACCAAAGTGAAGCTA 58.770 47.619 0.00 0.00 0.00 3.32
2578 3618 2.227388 CCTGCAACCAAAGTGAAGCTAG 59.773 50.000 0.00 0.00 0.00 3.42
2579 3619 3.141398 CTGCAACCAAAGTGAAGCTAGA 58.859 45.455 0.00 0.00 0.00 2.43
2580 3620 3.754965 TGCAACCAAAGTGAAGCTAGAT 58.245 40.909 0.00 0.00 0.00 1.98
2581 3621 4.144297 TGCAACCAAAGTGAAGCTAGATT 58.856 39.130 0.00 0.00 0.00 2.40
2582 3622 4.022935 TGCAACCAAAGTGAAGCTAGATTG 60.023 41.667 0.00 0.00 0.00 2.67
2583 3623 4.216257 GCAACCAAAGTGAAGCTAGATTGA 59.784 41.667 0.00 0.00 0.00 2.57
2584 3624 5.618640 GCAACCAAAGTGAAGCTAGATTGAG 60.619 44.000 0.00 0.00 0.00 3.02
2585 3625 5.489792 ACCAAAGTGAAGCTAGATTGAGA 57.510 39.130 0.00 0.00 0.00 3.27
2586 3626 5.486526 ACCAAAGTGAAGCTAGATTGAGAG 58.513 41.667 0.00 0.00 0.00 3.20
2587 3627 4.332268 CCAAAGTGAAGCTAGATTGAGAGC 59.668 45.833 0.00 0.00 39.08 4.09
2588 3628 4.815533 AAGTGAAGCTAGATTGAGAGCA 57.184 40.909 0.00 0.00 41.36 4.26
2589 3629 4.389890 AGTGAAGCTAGATTGAGAGCAG 57.610 45.455 0.00 0.00 41.36 4.24
2590 3630 3.132646 AGTGAAGCTAGATTGAGAGCAGG 59.867 47.826 0.00 0.00 41.36 4.85
2591 3631 3.102972 TGAAGCTAGATTGAGAGCAGGT 58.897 45.455 0.00 0.00 41.36 4.00
2592 3632 3.118847 TGAAGCTAGATTGAGAGCAGGTG 60.119 47.826 0.00 0.00 41.36 4.00
2593 3633 2.744760 AGCTAGATTGAGAGCAGGTGA 58.255 47.619 0.00 0.00 41.36 4.02
2594 3634 3.102972 AGCTAGATTGAGAGCAGGTGAA 58.897 45.455 0.00 0.00 41.36 3.18
2595 3635 3.517100 AGCTAGATTGAGAGCAGGTGAAA 59.483 43.478 0.00 0.00 41.36 2.69
2596 3636 4.019860 AGCTAGATTGAGAGCAGGTGAAAA 60.020 41.667 0.00 0.00 41.36 2.29
2597 3637 4.094146 GCTAGATTGAGAGCAGGTGAAAAC 59.906 45.833 0.00 0.00 38.62 2.43
2598 3638 3.070018 AGATTGAGAGCAGGTGAAAACG 58.930 45.455 0.00 0.00 0.00 3.60
2599 3639 1.593196 TTGAGAGCAGGTGAAAACGG 58.407 50.000 0.00 0.00 0.00 4.44
2600 3640 0.884704 TGAGAGCAGGTGAAAACGGC 60.885 55.000 0.00 0.00 0.00 5.68
2601 3641 0.884704 GAGAGCAGGTGAAAACGGCA 60.885 55.000 0.00 0.00 0.00 5.69
2602 3642 0.886490 AGAGCAGGTGAAAACGGCAG 60.886 55.000 0.00 0.00 0.00 4.85
2603 3643 1.152963 AGCAGGTGAAAACGGCAGT 60.153 52.632 0.00 0.00 0.00 4.40
2604 3644 1.008538 GCAGGTGAAAACGGCAGTG 60.009 57.895 0.00 0.00 0.00 3.66
2605 3645 1.724582 GCAGGTGAAAACGGCAGTGT 61.725 55.000 0.00 0.00 0.00 3.55
2606 3646 0.029300 CAGGTGAAAACGGCAGTGTG 59.971 55.000 0.00 0.00 0.00 3.82
2607 3647 1.101049 AGGTGAAAACGGCAGTGTGG 61.101 55.000 0.00 0.00 0.00 4.17
2608 3648 1.299089 GTGAAAACGGCAGTGTGGC 60.299 57.895 0.00 0.00 39.85 5.01
2609 3649 1.453015 TGAAAACGGCAGTGTGGCT 60.453 52.632 0.00 0.00 41.25 4.75
2610 3650 1.034838 TGAAAACGGCAGTGTGGCTT 61.035 50.000 0.00 0.00 41.25 4.35
2611 3651 0.317854 GAAAACGGCAGTGTGGCTTC 60.318 55.000 0.00 0.00 41.25 3.86
2612 3652 2.058829 AAAACGGCAGTGTGGCTTCG 62.059 55.000 0.00 0.00 41.25 3.79
2613 3653 3.750373 AACGGCAGTGTGGCTTCGT 62.750 57.895 0.00 0.00 41.25 3.85
2614 3654 2.048597 CGGCAGTGTGGCTTCGTA 60.049 61.111 0.00 0.00 41.25 3.43
2615 3655 1.666553 CGGCAGTGTGGCTTCGTAA 60.667 57.895 0.00 0.00 41.25 3.18
2616 3656 1.019278 CGGCAGTGTGGCTTCGTAAT 61.019 55.000 0.00 0.00 41.25 1.89
2617 3657 1.165270 GGCAGTGTGGCTTCGTAATT 58.835 50.000 0.00 0.00 40.14 1.40
2618 3658 1.539827 GGCAGTGTGGCTTCGTAATTT 59.460 47.619 0.00 0.00 40.14 1.82
2619 3659 2.414161 GGCAGTGTGGCTTCGTAATTTC 60.414 50.000 0.00 0.00 40.14 2.17
2620 3660 2.414161 GCAGTGTGGCTTCGTAATTTCC 60.414 50.000 0.00 0.00 0.00 3.13
2621 3661 2.161609 CAGTGTGGCTTCGTAATTTCCC 59.838 50.000 0.00 0.00 0.00 3.97
2622 3662 1.471287 GTGTGGCTTCGTAATTTCCCC 59.529 52.381 0.00 0.00 0.00 4.81
2623 3663 1.100510 GTGGCTTCGTAATTTCCCCC 58.899 55.000 0.00 0.00 0.00 5.40
2637 3677 3.460868 CCCCCGGAAATTGCTGCC 61.461 66.667 0.73 0.00 0.00 4.85
2638 3678 2.679642 CCCCGGAAATTGCTGCCA 60.680 61.111 0.73 0.00 0.00 4.92
2639 3679 2.059786 CCCCGGAAATTGCTGCCAT 61.060 57.895 0.73 0.00 0.00 4.40
2640 3680 1.142314 CCCGGAAATTGCTGCCATG 59.858 57.895 0.73 0.00 0.00 3.66
2641 3681 1.321805 CCCGGAAATTGCTGCCATGA 61.322 55.000 0.73 0.00 0.00 3.07
2642 3682 0.531657 CCGGAAATTGCTGCCATGAA 59.468 50.000 0.00 0.00 0.00 2.57
2643 3683 1.632422 CGGAAATTGCTGCCATGAAC 58.368 50.000 0.00 0.00 0.00 3.18
2644 3684 1.203052 CGGAAATTGCTGCCATGAACT 59.797 47.619 0.00 0.00 0.00 3.01
2645 3685 2.353011 CGGAAATTGCTGCCATGAACTT 60.353 45.455 0.00 0.00 0.00 2.66
2646 3686 3.667360 GGAAATTGCTGCCATGAACTTT 58.333 40.909 0.00 0.00 0.00 2.66
2647 3687 3.434299 GGAAATTGCTGCCATGAACTTTG 59.566 43.478 0.00 0.00 0.00 2.77
2648 3688 4.309099 GAAATTGCTGCCATGAACTTTGA 58.691 39.130 0.00 0.00 0.00 2.69
2649 3689 4.546829 AATTGCTGCCATGAACTTTGAT 57.453 36.364 0.00 0.00 0.00 2.57
2650 3690 4.546829 ATTGCTGCCATGAACTTTGATT 57.453 36.364 0.00 0.00 0.00 2.57
2651 3691 3.306917 TGCTGCCATGAACTTTGATTG 57.693 42.857 0.00 0.00 0.00 2.67
2652 3692 2.629137 TGCTGCCATGAACTTTGATTGT 59.371 40.909 0.00 0.00 0.00 2.71
2653 3693 3.825585 TGCTGCCATGAACTTTGATTGTA 59.174 39.130 0.00 0.00 0.00 2.41
2654 3694 4.463539 TGCTGCCATGAACTTTGATTGTAT 59.536 37.500 0.00 0.00 0.00 2.29
2655 3695 5.039333 GCTGCCATGAACTTTGATTGTATC 58.961 41.667 0.00 0.00 0.00 2.24
2656 3696 5.163581 GCTGCCATGAACTTTGATTGTATCT 60.164 40.000 0.00 0.00 0.00 1.98
2657 3697 6.441093 TGCCATGAACTTTGATTGTATCTC 57.559 37.500 0.00 0.00 0.00 2.75
2658 3698 6.182627 TGCCATGAACTTTGATTGTATCTCT 58.817 36.000 0.00 0.00 0.00 3.10
2659 3699 7.337938 TGCCATGAACTTTGATTGTATCTCTA 58.662 34.615 0.00 0.00 0.00 2.43
2660 3700 7.994911 TGCCATGAACTTTGATTGTATCTCTAT 59.005 33.333 0.00 0.00 0.00 1.98
2661 3701 8.844244 GCCATGAACTTTGATTGTATCTCTATT 58.156 33.333 0.00 0.00 0.00 1.73
2692 3732 7.104290 AGCTAATATAAATACTCTTTCCCCGC 58.896 38.462 0.00 0.00 0.00 6.13
2693 3733 6.877322 GCTAATATAAATACTCTTTCCCCGCA 59.123 38.462 0.00 0.00 0.00 5.69
2694 3734 7.389607 GCTAATATAAATACTCTTTCCCCGCAA 59.610 37.037 0.00 0.00 0.00 4.85
2695 3735 9.280174 CTAATATAAATACTCTTTCCCCGCAAA 57.720 33.333 0.00 0.00 0.00 3.68
2696 3736 8.528044 AATATAAATACTCTTTCCCCGCAAAA 57.472 30.769 0.00 0.00 0.00 2.44
2697 3737 6.844097 ATAAATACTCTTTCCCCGCAAAAA 57.156 33.333 0.00 0.00 0.00 1.94
2799 3843 7.707893 TCAGGTAGAGTAATAACGGTAAAATGC 59.292 37.037 0.00 0.00 0.00 3.56
2806 3850 7.693952 AGTAATAACGGTAAAATGCTGTGATG 58.306 34.615 0.00 0.00 0.00 3.07
2814 3858 2.665649 AATGCTGTGATGGTTGCATG 57.334 45.000 0.00 0.00 44.15 4.06
2815 3859 0.174845 ATGCTGTGATGGTTGCATGC 59.825 50.000 11.82 11.82 43.41 4.06
2816 3860 1.179814 TGCTGTGATGGTTGCATGCA 61.180 50.000 18.46 18.46 0.00 3.96
2817 3861 0.174845 GCTGTGATGGTTGCATGCAT 59.825 50.000 23.37 6.15 0.00 3.96
2818 3862 1.406180 GCTGTGATGGTTGCATGCATA 59.594 47.619 23.37 11.70 0.00 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 2.448926 TCTCATGTTTTCGCCTTCGA 57.551 45.000 0.00 0.00 43.89 3.71
256 259 0.972983 CGCTCCTCCTCTTTCTCCCA 60.973 60.000 0.00 0.00 0.00 4.37
261 264 1.681486 CCTCCCGCTCCTCCTCTTTC 61.681 65.000 0.00 0.00 0.00 2.62
284 289 1.029681 AAAGCCCACGTCCTGTTTTC 58.970 50.000 0.00 0.00 0.00 2.29
286 291 1.106944 CCAAAGCCCACGTCCTGTTT 61.107 55.000 0.00 0.00 0.00 2.83
289 294 1.672356 CTCCAAAGCCCACGTCCTG 60.672 63.158 0.00 0.00 0.00 3.86
291 296 0.252197 ATACTCCAAAGCCCACGTCC 59.748 55.000 0.00 0.00 0.00 4.79
350 369 3.753434 ACCGGCAGCGAGACAGAG 61.753 66.667 0.00 0.00 0.00 3.35
429 474 3.948719 GTGTGTGAGGGCCGGGAA 61.949 66.667 2.18 0.00 0.00 3.97
436 481 2.669569 CGCAAGGGTGTGTGAGGG 60.670 66.667 0.00 0.00 0.00 4.30
575 639 0.036388 AATCGACCAACACGCAGGAT 60.036 50.000 0.00 0.00 0.00 3.24
587 651 0.969894 AGGATGGGATCGAATCGACC 59.030 55.000 7.77 11.32 39.18 4.79
614 678 5.471257 ACTTGGTGATAAGAAGAAGACGTC 58.529 41.667 7.70 7.70 0.00 4.34
654 718 1.878522 CCAAGCACTACGGCGCTAG 60.879 63.158 6.90 10.75 37.54 3.42
710 775 2.991866 GCTGTTACAGGGACGAAACTAC 59.008 50.000 14.63 0.00 31.21 2.73
729 794 2.295885 GCATAGTTGCTCCATCTTGCT 58.704 47.619 0.00 0.00 45.77 3.91
773 839 1.079127 AGGATCTGGGTCGCAAACG 60.079 57.895 0.00 0.00 42.01 3.60
1036 1147 0.846693 GCATACCACTTCCTGGGGAT 59.153 55.000 0.00 0.00 45.78 3.85
1068 1186 2.358582 TGCAAAACACACACCATCAGAG 59.641 45.455 0.00 0.00 0.00 3.35
1101 1219 7.086230 AGAAGCAGAAGAAAATGATTAGCAG 57.914 36.000 0.00 0.00 0.00 4.24
1394 1532 6.655078 ATGCACCACCAATAGAAAATATCC 57.345 37.500 0.00 0.00 0.00 2.59
1434 1572 6.183360 CGAGTCAGGTCAAGATTATCAGGTTA 60.183 42.308 0.00 0.00 0.00 2.85
1453 1591 5.301555 TGAAAATACATGTTCACCGAGTCA 58.698 37.500 2.30 0.00 0.00 3.41
1454 1592 5.856126 TGAAAATACATGTTCACCGAGTC 57.144 39.130 2.30 0.00 0.00 3.36
1455 1593 6.173339 AGATGAAAATACATGTTCACCGAGT 58.827 36.000 2.30 0.00 36.62 4.18
1456 1594 6.536582 AGAGATGAAAATACATGTTCACCGAG 59.463 38.462 2.30 0.00 36.62 4.63
1457 1595 6.406370 AGAGATGAAAATACATGTTCACCGA 58.594 36.000 2.30 0.00 36.62 4.69
1458 1596 6.668541 AGAGATGAAAATACATGTTCACCG 57.331 37.500 2.30 0.00 36.62 4.94
1459 1597 8.723942 AGTAGAGATGAAAATACATGTTCACC 57.276 34.615 2.30 0.00 36.62 4.02
1480 1618 6.936279 TCAGTGGAAGGATAAGACAAAGTAG 58.064 40.000 0.00 0.00 0.00 2.57
1498 1636 5.297776 AGTCTTCAAACAATGACTTCAGTGG 59.702 40.000 11.10 0.00 45.21 4.00
1503 1641 6.909357 CAGACAAGTCTTCAAACAATGACTTC 59.091 38.462 0.00 0.00 44.73 3.01
1508 1646 4.037208 AGCCAGACAAGTCTTCAAACAATG 59.963 41.667 0.00 0.00 37.98 2.82
1528 1666 6.693466 ACTAGAACTCTCAGAACTAAAAGCC 58.307 40.000 0.00 0.00 0.00 4.35
1529 1667 9.863845 ATAACTAGAACTCTCAGAACTAAAAGC 57.136 33.333 0.00 0.00 0.00 3.51
1544 1682 7.181125 ACCCATTTGAGTGAGATAACTAGAACT 59.819 37.037 0.00 0.00 0.00 3.01
1558 1696 1.901591 ACTGAGCACCCATTTGAGTG 58.098 50.000 0.00 0.00 37.05 3.51
1560 1698 3.877559 TGATACTGAGCACCCATTTGAG 58.122 45.455 0.00 0.00 0.00 3.02
1569 1707 7.150640 TCAGATAACATGATGATACTGAGCAC 58.849 38.462 0.00 0.00 0.00 4.40
1578 1716 9.498176 TCGATTTGAATCAGATAACATGATGAT 57.502 29.630 0.00 0.00 37.46 2.45
1592 1730 5.664457 AGTACTGAGCATCGATTTGAATCA 58.336 37.500 0.00 0.00 38.61 2.57
1593 1731 7.596621 TGATAGTACTGAGCATCGATTTGAATC 59.403 37.037 5.39 0.00 38.61 2.52
1596 1734 6.391227 TGATAGTACTGAGCATCGATTTGA 57.609 37.500 5.39 0.00 38.61 2.69
1597 1735 6.644181 ACATGATAGTACTGAGCATCGATTTG 59.356 38.462 5.39 0.00 38.61 2.32
1598 1736 6.753180 ACATGATAGTACTGAGCATCGATTT 58.247 36.000 5.39 0.00 38.61 2.17
1599 1737 6.338214 ACATGATAGTACTGAGCATCGATT 57.662 37.500 5.39 0.00 38.61 3.34
1600 1738 5.973899 ACATGATAGTACTGAGCATCGAT 57.026 39.130 5.39 0.00 38.61 3.59
1601 1739 5.774498 AACATGATAGTACTGAGCATCGA 57.226 39.130 5.39 0.00 38.61 3.59
1602 1740 7.534282 AGATAACATGATAGTACTGAGCATCG 58.466 38.462 5.39 4.57 38.61 3.84
1685 1906 8.977505 CCCAACAATTATCAAAACAGTTACAAG 58.022 33.333 0.00 0.00 0.00 3.16
1747 1968 3.674423 CAAAGCATAACGAGCAGTAAGC 58.326 45.455 0.00 0.00 46.19 3.09
1753 1974 0.804364 CTGGCAAAGCATAACGAGCA 59.196 50.000 0.00 0.00 0.00 4.26
1757 1978 0.171007 CACCCTGGCAAAGCATAACG 59.829 55.000 0.00 0.00 0.00 3.18
1764 1985 0.609957 TCAGCATCACCCTGGCAAAG 60.610 55.000 0.00 0.00 0.00 2.77
1769 1990 1.826921 GCCATCAGCATCACCCTGG 60.827 63.158 0.00 0.00 42.97 4.45
1950 2178 1.064017 TGTTCACAAGAAACCAGGCCT 60.064 47.619 0.00 0.00 35.08 5.19
2006 2235 6.534079 ACATTAAGCAACGAGATAAGGTACAC 59.466 38.462 0.00 0.00 0.00 2.90
2010 2239 5.730550 TGACATTAAGCAACGAGATAAGGT 58.269 37.500 0.00 0.00 0.00 3.50
2032 2302 5.380043 AGTAAGGGCCAAATCATCAGTATG 58.620 41.667 6.18 0.00 37.54 2.39
2054 2324 8.292448 CAGTATGGCCATAATTTGCTAGTAAAG 58.708 37.037 27.04 5.75 0.00 1.85
2078 2348 5.888161 AGTAAAGTAAGGGCCAAATCATCAG 59.112 40.000 6.18 0.00 0.00 2.90
2080 2350 6.017026 GCTAGTAAAGTAAGGGCCAAATCATC 60.017 42.308 6.18 0.00 0.00 2.92
2081 2351 5.828328 GCTAGTAAAGTAAGGGCCAAATCAT 59.172 40.000 6.18 0.00 0.00 2.45
2082 2352 5.190677 GCTAGTAAAGTAAGGGCCAAATCA 58.809 41.667 6.18 0.00 0.00 2.57
2083 2353 5.190677 TGCTAGTAAAGTAAGGGCCAAATC 58.809 41.667 6.18 0.00 0.00 2.17
2084 2354 5.187621 TGCTAGTAAAGTAAGGGCCAAAT 57.812 39.130 6.18 0.00 0.00 2.32
2086 2356 4.042435 AGTTGCTAGTAAAGTAAGGGCCAA 59.958 41.667 6.18 0.00 29.64 4.52
2088 2358 4.217836 AGTTGCTAGTAAAGTAAGGGCC 57.782 45.455 0.00 0.00 29.64 5.80
2090 2360 8.601476 CGAATAAAGTTGCTAGTAAAGTAAGGG 58.399 37.037 0.00 0.00 29.64 3.95
2097 2367 9.695526 TGAAGTACGAATAAAGTTGCTAGTAAA 57.304 29.630 0.00 0.00 0.00 2.01
2098 2368 9.695526 TTGAAGTACGAATAAAGTTGCTAGTAA 57.304 29.630 0.00 0.00 0.00 2.24
2099 2369 9.695526 TTTGAAGTACGAATAAAGTTGCTAGTA 57.304 29.630 0.00 0.00 0.00 1.82
2100 2370 8.597662 TTTGAAGTACGAATAAAGTTGCTAGT 57.402 30.769 0.00 0.00 0.00 2.57
2103 2373 7.326063 GCATTTTGAAGTACGAATAAAGTTGCT 59.674 33.333 0.00 0.00 0.00 3.91
2104 2374 7.114247 TGCATTTTGAAGTACGAATAAAGTTGC 59.886 33.333 0.00 0.00 0.00 4.17
2105 2375 8.500837 TGCATTTTGAAGTACGAATAAAGTTG 57.499 30.769 0.00 0.00 0.00 3.16
2108 2378 8.673626 ACATGCATTTTGAAGTACGAATAAAG 57.326 30.769 0.00 0.00 0.00 1.85
2109 2379 9.549509 GTACATGCATTTTGAAGTACGAATAAA 57.450 29.630 0.00 0.00 0.00 1.40
2116 2494 6.024049 GCAGAGTACATGCATTTTGAAGTAC 58.976 40.000 15.83 12.50 43.31 2.73
2138 2519 1.891449 TGCGCTTACTTGTGCTGCA 60.891 52.632 9.73 0.00 43.17 4.41
2165 2607 3.371898 CAGCGTCTGATGTCTTTTGCATA 59.628 43.478 1.18 0.00 32.44 3.14
2177 2666 0.460987 GCCTAAGTGCAGCGTCTGAT 60.461 55.000 10.46 0.00 32.44 2.90
2222 2729 7.118245 CAGCATTAATCGTCAGCCAGAATAATA 59.882 37.037 0.00 0.00 0.00 0.98
2242 2756 8.175069 CGTATCCGTATTAATAATTGCAGCATT 58.825 33.333 0.00 0.00 0.00 3.56
2251 2818 8.071177 ACTAAGCCCGTATCCGTATTAATAAT 57.929 34.615 0.00 0.00 0.00 1.28
2253 2820 7.466746 AACTAAGCCCGTATCCGTATTAATA 57.533 36.000 0.00 0.00 0.00 0.98
2257 2824 5.789643 TTAACTAAGCCCGTATCCGTATT 57.210 39.130 0.00 0.00 0.00 1.89
2262 2829 4.820173 AGCAAATTAACTAAGCCCGTATCC 59.180 41.667 0.00 0.00 0.00 2.59
2375 2962 1.414550 GTTGCTCAGGATCCTCTACCC 59.585 57.143 12.69 0.00 0.00 3.69
2508 3112 3.291584 CTTTTCCCTAGGCCAAAGATCC 58.708 50.000 19.46 0.00 29.66 3.36
2525 3565 0.552363 ACGGTGGGTGGGTTACTTTT 59.448 50.000 0.00 0.00 0.00 2.27
2526 3566 0.179012 CACGGTGGGTGGGTTACTTT 60.179 55.000 0.00 0.00 43.16 2.66
2527 3567 1.452801 CACGGTGGGTGGGTTACTT 59.547 57.895 0.00 0.00 43.16 2.24
2528 3568 3.153825 CACGGTGGGTGGGTTACT 58.846 61.111 0.00 0.00 43.16 2.24
2569 3609 3.118811 ACCTGCTCTCAATCTAGCTTCAC 60.119 47.826 0.00 0.00 39.53 3.18
2570 3610 3.102972 ACCTGCTCTCAATCTAGCTTCA 58.897 45.455 0.00 0.00 39.53 3.02
2571 3611 3.131933 TCACCTGCTCTCAATCTAGCTTC 59.868 47.826 0.00 0.00 39.53 3.86
2572 3612 3.102972 TCACCTGCTCTCAATCTAGCTT 58.897 45.455 0.00 0.00 39.53 3.74
2573 3613 2.744760 TCACCTGCTCTCAATCTAGCT 58.255 47.619 0.00 0.00 39.53 3.32
2574 3614 3.533606 TTCACCTGCTCTCAATCTAGC 57.466 47.619 0.00 0.00 39.25 3.42
2575 3615 4.328440 CGTTTTCACCTGCTCTCAATCTAG 59.672 45.833 0.00 0.00 0.00 2.43
2576 3616 4.245660 CGTTTTCACCTGCTCTCAATCTA 58.754 43.478 0.00 0.00 0.00 1.98
2577 3617 3.070018 CGTTTTCACCTGCTCTCAATCT 58.930 45.455 0.00 0.00 0.00 2.40
2578 3618 2.160417 CCGTTTTCACCTGCTCTCAATC 59.840 50.000 0.00 0.00 0.00 2.67
2579 3619 2.154462 CCGTTTTCACCTGCTCTCAAT 58.846 47.619 0.00 0.00 0.00 2.57
2580 3620 1.593196 CCGTTTTCACCTGCTCTCAA 58.407 50.000 0.00 0.00 0.00 3.02
2581 3621 0.884704 GCCGTTTTCACCTGCTCTCA 60.885 55.000 0.00 0.00 0.00 3.27
2582 3622 0.884704 TGCCGTTTTCACCTGCTCTC 60.885 55.000 0.00 0.00 0.00 3.20
2583 3623 0.886490 CTGCCGTTTTCACCTGCTCT 60.886 55.000 0.00 0.00 0.00 4.09
2584 3624 1.166531 ACTGCCGTTTTCACCTGCTC 61.167 55.000 0.00 0.00 0.00 4.26
2585 3625 1.152963 ACTGCCGTTTTCACCTGCT 60.153 52.632 0.00 0.00 0.00 4.24
2586 3626 1.008538 CACTGCCGTTTTCACCTGC 60.009 57.895 0.00 0.00 0.00 4.85
2587 3627 0.029300 CACACTGCCGTTTTCACCTG 59.971 55.000 0.00 0.00 0.00 4.00
2588 3628 1.101049 CCACACTGCCGTTTTCACCT 61.101 55.000 0.00 0.00 0.00 4.00
2589 3629 1.358759 CCACACTGCCGTTTTCACC 59.641 57.895 0.00 0.00 0.00 4.02
2590 3630 1.299089 GCCACACTGCCGTTTTCAC 60.299 57.895 0.00 0.00 0.00 3.18
2591 3631 1.034838 AAGCCACACTGCCGTTTTCA 61.035 50.000 0.00 0.00 0.00 2.69
2592 3632 0.317854 GAAGCCACACTGCCGTTTTC 60.318 55.000 0.00 0.00 0.00 2.29
2593 3633 1.733526 GAAGCCACACTGCCGTTTT 59.266 52.632 0.00 0.00 0.00 2.43
2594 3634 2.542907 CGAAGCCACACTGCCGTTT 61.543 57.895 0.00 0.00 0.00 3.60
2595 3635 2.372040 TACGAAGCCACACTGCCGTT 62.372 55.000 0.00 0.00 38.75 4.44
2596 3636 2.372040 TTACGAAGCCACACTGCCGT 62.372 55.000 0.00 0.00 40.29 5.68
2597 3637 1.019278 ATTACGAAGCCACACTGCCG 61.019 55.000 0.00 0.00 0.00 5.69
2598 3638 1.165270 AATTACGAAGCCACACTGCC 58.835 50.000 0.00 0.00 0.00 4.85
2599 3639 2.414161 GGAAATTACGAAGCCACACTGC 60.414 50.000 0.00 0.00 0.00 4.40
2600 3640 2.161609 GGGAAATTACGAAGCCACACTG 59.838 50.000 0.00 0.00 0.00 3.66
2601 3641 2.433436 GGGAAATTACGAAGCCACACT 58.567 47.619 0.00 0.00 0.00 3.55
2602 3642 1.471287 GGGGAAATTACGAAGCCACAC 59.529 52.381 0.00 0.00 0.00 3.82
2603 3643 1.614850 GGGGGAAATTACGAAGCCACA 60.615 52.381 0.00 0.00 0.00 4.17
2604 3644 1.100510 GGGGGAAATTACGAAGCCAC 58.899 55.000 0.00 0.00 0.00 5.01
2605 3645 3.581163 GGGGGAAATTACGAAGCCA 57.419 52.632 0.00 0.00 0.00 4.75
2620 3660 3.460868 GGCAGCAATTTCCGGGGG 61.461 66.667 0.00 0.00 0.00 5.40
2621 3661 2.059786 ATGGCAGCAATTTCCGGGG 61.060 57.895 0.00 0.00 0.00 5.73
2622 3662 1.142314 CATGGCAGCAATTTCCGGG 59.858 57.895 0.00 0.00 0.00 5.73
2623 3663 0.531657 TTCATGGCAGCAATTTCCGG 59.468 50.000 0.00 0.00 0.00 5.14
2624 3664 1.203052 AGTTCATGGCAGCAATTTCCG 59.797 47.619 0.00 0.00 0.00 4.30
2625 3665 3.323751 AAGTTCATGGCAGCAATTTCC 57.676 42.857 0.00 0.00 0.00 3.13
2626 3666 4.309099 TCAAAGTTCATGGCAGCAATTTC 58.691 39.130 0.00 0.00 0.00 2.17
2627 3667 4.339872 TCAAAGTTCATGGCAGCAATTT 57.660 36.364 0.00 0.00 0.00 1.82
2628 3668 4.546829 ATCAAAGTTCATGGCAGCAATT 57.453 36.364 0.00 0.00 0.00 2.32
2629 3669 4.250464 CAATCAAAGTTCATGGCAGCAAT 58.750 39.130 0.00 0.00 0.00 3.56
2630 3670 3.069872 ACAATCAAAGTTCATGGCAGCAA 59.930 39.130 0.00 0.00 0.00 3.91
2631 3671 2.629137 ACAATCAAAGTTCATGGCAGCA 59.371 40.909 0.00 0.00 0.00 4.41
2632 3672 3.308438 ACAATCAAAGTTCATGGCAGC 57.692 42.857 0.00 0.00 0.00 5.25
2633 3673 6.318144 AGAGATACAATCAAAGTTCATGGCAG 59.682 38.462 0.00 0.00 0.00 4.85
2634 3674 6.182627 AGAGATACAATCAAAGTTCATGGCA 58.817 36.000 0.00 0.00 0.00 4.92
2635 3675 6.690194 AGAGATACAATCAAAGTTCATGGC 57.310 37.500 0.00 0.00 0.00 4.40
2666 3706 8.255905 GCGGGGAAAGAGTATTTATATTAGCTA 58.744 37.037 0.00 0.00 0.00 3.32
2667 3707 7.104290 GCGGGGAAAGAGTATTTATATTAGCT 58.896 38.462 0.00 0.00 0.00 3.32
2668 3708 6.877322 TGCGGGGAAAGAGTATTTATATTAGC 59.123 38.462 0.00 0.00 0.00 3.09
2669 3709 8.842358 TTGCGGGGAAAGAGTATTTATATTAG 57.158 34.615 0.00 0.00 0.00 1.73
2670 3710 9.629878 TTTTGCGGGGAAAGAGTATTTATATTA 57.370 29.630 0.00 0.00 0.00 0.98
2671 3711 8.528044 TTTTGCGGGGAAAGAGTATTTATATT 57.472 30.769 0.00 0.00 0.00 1.28
2672 3712 8.528044 TTTTTGCGGGGAAAGAGTATTTATAT 57.472 30.769 0.00 0.00 0.00 0.86
2673 3713 7.941431 TTTTTGCGGGGAAAGAGTATTTATA 57.059 32.000 0.00 0.00 0.00 0.98
2674 3714 6.844097 TTTTTGCGGGGAAAGAGTATTTAT 57.156 33.333 0.00 0.00 0.00 1.40
2698 3738 4.837860 TCCATATGTTGCCCTTCACTTTTT 59.162 37.500 1.24 0.00 0.00 1.94
2699 3739 4.415596 TCCATATGTTGCCCTTCACTTTT 58.584 39.130 1.24 0.00 0.00 2.27
2700 3740 4.046286 TCCATATGTTGCCCTTCACTTT 57.954 40.909 1.24 0.00 0.00 2.66
2701 3741 3.737559 TCCATATGTTGCCCTTCACTT 57.262 42.857 1.24 0.00 0.00 3.16
2702 3742 3.959495 ATCCATATGTTGCCCTTCACT 57.041 42.857 1.24 0.00 0.00 3.41
2703 3743 5.105392 TGAAAATCCATATGTTGCCCTTCAC 60.105 40.000 1.24 0.00 0.00 3.18
2774 3817 7.709613 AGCATTTTACCGTTATTACTCTACCTG 59.290 37.037 0.00 0.00 0.00 4.00
2775 3818 7.709613 CAGCATTTTACCGTTATTACTCTACCT 59.290 37.037 0.00 0.00 0.00 3.08
2776 3819 7.493645 ACAGCATTTTACCGTTATTACTCTACC 59.506 37.037 0.00 0.00 0.00 3.18
2799 3843 2.543031 GCTATGCATGCAACCATCACAG 60.543 50.000 26.68 11.99 0.00 3.66
2806 3850 0.383231 GGTCTGCTATGCATGCAACC 59.617 55.000 26.68 21.93 40.13 3.77
2814 3858 0.539051 ACACCTGAGGTCTGCTATGC 59.461 55.000 0.00 0.00 31.02 3.14
2815 3859 1.137872 GGACACCTGAGGTCTGCTATG 59.862 57.143 0.00 0.00 35.61 2.23
2816 3860 1.490574 GGACACCTGAGGTCTGCTAT 58.509 55.000 0.00 0.00 35.61 2.97
2817 3861 0.965866 CGGACACCTGAGGTCTGCTA 60.966 60.000 0.00 0.00 35.10 3.49
2818 3862 2.279069 CGGACACCTGAGGTCTGCT 61.279 63.158 0.00 0.00 35.10 4.24


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

AutoCloner maintained by Alex Coulton.