Multiple sequence alignment - TraesCS2A01G534200

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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 TraesCS2A01G534200 chr2A 100.000 2678 0 0 1 2678 749905441 749902764 0.000000e+00 4946.0
1 TraesCS2A01G534200 chr2A 92.020 401 24 2 980 1380 749910503 749910111 8.380000e-155 556.0
2 TraesCS2A01G534200 chr2A 77.624 867 97 50 990 1786 726986072 726986911 1.140000e-118 436.0
3 TraesCS2A01G534200 chr2A 82.791 430 50 8 1228 1636 749915112 749914686 1.960000e-96 363.0
4 TraesCS2A01G534200 chr2A 84.395 314 20 13 868 1174 749915418 749915127 5.640000e-72 281.0
5 TraesCS2A01G534200 chr2A 78.571 182 12 15 1956 2127 749914347 749914183 7.890000e-16 95.3
6 TraesCS2A01G534200 chr2A 88.462 78 5 4 903 977 726985955 726986031 1.020000e-14 91.6
7 TraesCS2A01G534200 chr2D 89.910 2210 65 45 61 2211 619047597 619045487 0.000000e+00 2700.0
8 TraesCS2A01G534200 chr2D 78.756 1431 134 79 855 2202 619058628 619057285 0.000000e+00 802.0
9 TraesCS2A01G534200 chr2D 81.250 512 50 21 990 1472 592410953 592411447 3.260000e-99 372.0
10 TraesCS2A01G534200 chr2D 94.606 241 11 2 1140 1380 619052960 619052722 3.260000e-99 372.0
11 TraesCS2A01G534200 chr2D 82.927 369 50 12 2311 2670 49888113 49887749 1.200000e-83 320.0
12 TraesCS2A01G534200 chr2D 83.226 310 29 16 2352 2654 565526886 565527179 2.040000e-66 263.0
13 TraesCS2A01G534200 chr2D 74.144 263 48 15 24 278 45552002 45551752 1.020000e-14 91.6
14 TraesCS2A01G534200 chr2D 87.838 74 5 4 905 975 592410841 592410913 1.710000e-12 84.2
15 TraesCS2A01G534200 chr2B 89.800 1500 94 21 1 1472 756554400 756552932 0.000000e+00 1868.0
16 TraesCS2A01G534200 chr2B 81.818 869 59 38 855 1636 756571426 756570570 2.910000e-179 638.0
17 TraesCS2A01G534200 chr2B 89.362 329 20 7 1513 1830 756552746 756552422 1.490000e-107 399.0
18 TraesCS2A01G534200 chr2B 89.961 259 12 6 1825 2078 756552298 756552049 3.330000e-84 322.0
19 TraesCS2A01G534200 chr2B 78.862 492 53 30 1306 1756 718396625 718397106 4.360000e-73 285.0
20 TraesCS2A01G534200 chr2B 81.068 206 24 6 1007 1197 718396362 718396567 1.660000e-32 150.0
21 TraesCS2A01G534200 chr2B 85.211 142 7 7 2074 2211 756550962 756550831 1.670000e-27 134.0
22 TraesCS2A01G534200 chr3D 81.662 349 48 12 2311 2648 90202710 90203053 2.630000e-70 276.0
23 TraesCS2A01G534200 chr3B 81.232 357 50 15 2323 2670 661813529 661813877 3.400000e-69 272.0
24 TraesCS2A01G534200 chr3B 74.126 286 60 13 1 278 407091952 407092231 3.650000e-19 106.0
25 TraesCS2A01G534200 chr4A 80.435 368 55 14 2311 2669 478479957 478480316 5.680000e-67 265.0
26 TraesCS2A01G534200 chr7A 79.670 364 59 12 2316 2670 232332777 232333134 5.720000e-62 248.0
27 TraesCS2A01G534200 chr6B 79.887 353 56 14 2311 2654 591460529 591460183 7.410000e-61 244.0
28 TraesCS2A01G534200 chr7D 78.591 369 64 14 2311 2670 614283149 614283511 2.070000e-56 230.0
29 TraesCS2A01G534200 chr5D 79.429 350 53 14 2311 2650 416425425 416425085 2.070000e-56 230.0
30 TraesCS2A01G534200 chr5D 77.512 209 36 9 24 221 379088162 379087954 6.060000e-22 115.0
31 TraesCS2A01G534200 chr3A 81.481 297 39 15 1 287 472784152 472784442 2.070000e-56 230.0
32 TraesCS2A01G534200 chr4B 90.244 164 15 1 1310 1472 631608693 631608530 2.090000e-51 213.0
33 TraesCS2A01G534200 chr4B 81.053 190 30 6 23 208 93774802 93774615 2.150000e-31 147.0
34 TraesCS2A01G534200 chr5A 84.186 215 24 8 1 209 54829806 54829596 1.630000e-47 200.0
35 TraesCS2A01G534200 chr1B 76.667 240 41 11 2 228 677128324 677128561 4.680000e-23 119.0
36 TraesCS2A01G534200 chr4D 100.000 29 0 0 1741 1769 736992 737020 1.000000e-03 54.7


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 TraesCS2A01G534200 chr2A 749902764 749905441 2677 True 4946.000 4946 100.00000 1 2678 1 chr2A.!!$R1 2677
1 TraesCS2A01G534200 chr2A 749910111 749915418 5307 True 323.825 556 84.44425 868 2127 4 chr2A.!!$R2 1259
2 TraesCS2A01G534200 chr2A 726985955 726986911 956 False 263.800 436 83.04300 903 1786 2 chr2A.!!$F1 883
3 TraesCS2A01G534200 chr2D 619045487 619047597 2110 True 2700.000 2700 89.91000 61 2211 1 chr2D.!!$R3 2150
4 TraesCS2A01G534200 chr2D 619057285 619058628 1343 True 802.000 802 78.75600 855 2202 1 chr2D.!!$R5 1347
5 TraesCS2A01G534200 chr2D 592410841 592411447 606 False 228.100 372 84.54400 905 1472 2 chr2D.!!$F2 567
6 TraesCS2A01G534200 chr2B 756550831 756554400 3569 True 680.750 1868 88.58350 1 2211 4 chr2B.!!$R2 2210
7 TraesCS2A01G534200 chr2B 756570570 756571426 856 True 638.000 638 81.81800 855 1636 1 chr2B.!!$R1 781
8 TraesCS2A01G534200 chr2B 718396362 718397106 744 False 217.500 285 79.96500 1007 1756 2 chr2B.!!$F1 749

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
746 764 0.031178 GGATGCATGCACGGGAAATC 59.969 55.0 25.37 14.59 0.0 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2300 6011 0.036294 GTGCCCACTCTAGGTTCACC 60.036 60.0 0.0 0.0 0.0 4.02 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
22 23 4.001017 ACAAATGTTTTGTGCGCTTTTG 57.999 36.364 9.73 8.22 35.09 2.44
36 37 6.308524 TGTGCGCTTTTGAAATTTATCATGAG 59.691 34.615 9.73 0.00 0.00 2.90
50 51 6.505048 TTATCATGAGAGGACATTCATGGT 57.495 37.500 12.84 9.38 46.70 3.55
161 163 6.530350 CGAATGTCGTTTCATGATGAAAAG 57.470 37.500 20.94 21.66 46.53 2.27
186 188 7.224557 AGTTTCAAGCATACAAAACATTTGTCC 59.775 33.333 11.40 3.26 34.76 4.02
340 342 1.068474 CTACCTTTGTTGTCGCCTCG 58.932 55.000 0.00 0.00 0.00 4.63
368 370 1.039233 GCCTACGGCTGGTGTACCTA 61.039 60.000 0.00 0.00 46.69 3.08
370 372 2.867624 CCTACGGCTGGTGTACCTATA 58.132 52.381 0.00 0.00 36.82 1.31
372 374 2.449137 ACGGCTGGTGTACCTATAGT 57.551 50.000 0.00 0.00 36.82 2.12
373 375 2.305009 ACGGCTGGTGTACCTATAGTC 58.695 52.381 0.00 0.00 36.82 2.59
403 405 5.700832 CGGATGCCATACTTTGATTAGCTTA 59.299 40.000 0.00 0.00 0.00 3.09
467 484 1.137479 CCATGTTGGGATGATTGTGGC 59.863 52.381 0.00 0.00 32.67 5.01
470 487 0.324645 GTTGGGATGATTGTGGCCCT 60.325 55.000 0.00 0.00 41.28 5.19
501 518 5.902613 TCATTAATCTTGTTGCCTCCAAG 57.097 39.130 0.00 0.00 40.51 3.61
502 519 4.158394 TCATTAATCTTGTTGCCTCCAAGC 59.842 41.667 0.00 0.00 39.30 4.01
503 520 1.999648 AATCTTGTTGCCTCCAAGCA 58.000 45.000 0.00 0.00 42.17 3.91
657 674 8.619546 ACTTAGTCGGTAGAGAATAACATGTAC 58.380 37.037 0.00 0.00 0.00 2.90
720 738 3.366883 GCGATCCCACACAGCAATAAAAA 60.367 43.478 0.00 0.00 0.00 1.94
721 739 4.677779 GCGATCCCACACAGCAATAAAAAT 60.678 41.667 0.00 0.00 0.00 1.82
722 740 4.799949 CGATCCCACACAGCAATAAAAATG 59.200 41.667 0.00 0.00 0.00 2.32
723 741 3.924144 TCCCACACAGCAATAAAAATGC 58.076 40.909 0.00 0.00 44.15 3.56
724 742 3.323115 TCCCACACAGCAATAAAAATGCA 59.677 39.130 0.00 0.00 46.22 3.96
725 743 4.063689 CCCACACAGCAATAAAAATGCAA 58.936 39.130 0.00 0.00 46.22 4.08
726 744 4.696402 CCCACACAGCAATAAAAATGCAAT 59.304 37.500 0.00 0.00 46.22 3.56
727 745 5.391097 CCCACACAGCAATAAAAATGCAATG 60.391 40.000 0.00 1.53 46.22 2.82
728 746 5.391097 CCACACAGCAATAAAAATGCAATGG 60.391 40.000 0.00 0.00 46.22 3.16
729 747 5.408909 CACACAGCAATAAAAATGCAATGGA 59.591 36.000 0.00 0.00 46.22 3.41
730 748 6.092944 CACACAGCAATAAAAATGCAATGGAT 59.907 34.615 0.00 0.00 46.22 3.41
731 749 6.092944 ACACAGCAATAAAAATGCAATGGATG 59.907 34.615 0.00 0.00 46.22 3.51
740 758 4.722008 CAATGGATGCATGCACGG 57.278 55.556 25.37 14.31 0.00 4.94
741 759 1.066752 CAATGGATGCATGCACGGG 59.933 57.895 25.37 11.74 0.00 5.28
742 760 1.076850 AATGGATGCATGCACGGGA 60.077 52.632 25.37 7.80 0.00 5.14
743 761 0.683828 AATGGATGCATGCACGGGAA 60.684 50.000 25.37 7.71 0.00 3.97
744 762 0.683828 ATGGATGCATGCACGGGAAA 60.684 50.000 25.37 6.15 0.00 3.13
745 763 0.683828 TGGATGCATGCACGGGAAAT 60.684 50.000 25.37 4.65 0.00 2.17
746 764 0.031178 GGATGCATGCACGGGAAATC 59.969 55.000 25.37 14.59 0.00 2.17
754 801 0.243365 GCACGGGAAATCACATGCAA 59.757 50.000 0.00 0.00 33.27 4.08
819 866 0.834612 TGTCCACCTTTCTTGGTCGT 59.165 50.000 0.00 0.00 38.45 4.34
978 1047 6.993079 TCAACTCAAGCAAGATCTACTGTAA 58.007 36.000 0.00 0.00 0.00 2.41
1020 1120 0.252881 TGGAGGAGCTGTGGAAGGAT 60.253 55.000 0.00 0.00 0.00 3.24
1033 1133 1.473257 GGAAGGATATGTCGCTGTGCA 60.473 52.381 0.00 0.00 0.00 4.57
1260 1378 0.605319 CCGGCTGTCACTTTGGCTTA 60.605 55.000 0.00 0.00 0.00 3.09
1681 2000 1.614711 GCCCCTCCACCATGAATCA 59.385 57.895 0.00 0.00 0.00 2.57
1682 2001 0.186873 GCCCCTCCACCATGAATCAT 59.813 55.000 0.00 0.00 0.00 2.45
1684 2003 1.496001 CCCCTCCACCATGAATCATGA 59.504 52.381 23.55 0.00 43.81 3.07
1685 2004 2.109480 CCCCTCCACCATGAATCATGAT 59.891 50.000 23.55 4.19 43.81 2.45
1686 2005 3.418995 CCCTCCACCATGAATCATGATC 58.581 50.000 23.55 3.57 43.81 2.92
1687 2006 3.181437 CCCTCCACCATGAATCATGATCA 60.181 47.826 23.55 9.24 43.81 2.92
1688 2007 3.819337 CCTCCACCATGAATCATGATCAC 59.181 47.826 23.55 7.24 43.81 3.06
1791 2130 5.246203 TGACTTATTCAGCACTGGACTACTT 59.754 40.000 0.00 0.00 0.00 2.24
1805 2144 6.988580 ACTGGACTACTTGTTAACAAAGTACC 59.011 38.462 23.59 21.97 35.15 3.34
1810 2149 9.702494 GACTACTTGTTAACAAAGTACCACTAT 57.298 33.333 20.42 1.85 35.15 2.12
1811 2150 9.485206 ACTACTTGTTAACAAAGTACCACTATG 57.515 33.333 20.89 12.82 35.15 2.23
1812 2151 9.485206 CTACTTGTTAACAAAGTACCACTATGT 57.515 33.333 20.89 12.89 35.15 2.29
1848 2320 8.749354 TGTATGTATGTATCGAATCATAGCCTT 58.251 33.333 11.42 4.82 0.00 4.35
1849 2321 9.587772 GTATGTATGTATCGAATCATAGCCTTT 57.412 33.333 11.42 1.93 0.00 3.11
1999 2566 5.765677 CAGAGATGAATGGATCAATTGAGCT 59.234 40.000 22.04 0.00 42.54 4.09
2000 2567 6.935208 CAGAGATGAATGGATCAATTGAGCTA 59.065 38.462 22.04 17.48 42.54 3.32
2001 2568 7.118535 CAGAGATGAATGGATCAATTGAGCTAG 59.881 40.741 22.04 0.00 42.54 3.42
2002 2569 6.239396 AGATGAATGGATCAATTGAGCTAGG 58.761 40.000 22.04 0.00 42.54 3.02
2003 2570 5.635278 TGAATGGATCAATTGAGCTAGGA 57.365 39.130 22.04 5.82 34.30 2.94
2004 2571 5.618236 TGAATGGATCAATTGAGCTAGGAG 58.382 41.667 22.04 0.00 34.30 3.69
2080 2647 4.447734 CCTGGCCTGGCAAGAAAT 57.552 55.556 24.89 0.00 29.58 2.17
2082 2649 2.077687 CCTGGCCTGGCAAGAAATAT 57.922 50.000 24.89 0.00 29.58 1.28
2084 2651 2.887152 CCTGGCCTGGCAAGAAATATAC 59.113 50.000 24.89 0.76 29.58 1.47
2086 2653 3.817647 CTGGCCTGGCAAGAAATATACTC 59.182 47.826 18.68 0.00 29.58 2.59
2087 2654 3.149981 GGCCTGGCAAGAAATATACTCC 58.850 50.000 22.05 0.00 0.00 3.85
2088 2655 3.181439 GGCCTGGCAAGAAATATACTCCT 60.181 47.826 22.05 0.00 0.00 3.69
2090 2657 4.998033 GCCTGGCAAGAAATATACTCCTAC 59.002 45.833 15.17 0.00 0.00 3.18
2094 3749 6.742109 TGGCAAGAAATATACTCCTACGTAC 58.258 40.000 0.00 0.00 0.00 3.67
2105 3760 4.995124 ACTCCTACGTACATGAATGACAC 58.005 43.478 0.00 0.00 0.00 3.67
2154 3809 6.666678 TGATAAAATGGATTCTCTTCAGGCT 58.333 36.000 0.00 0.00 0.00 4.58
2197 3856 0.378962 TCGGTTTTGTTTCGTGCCAG 59.621 50.000 0.00 0.00 0.00 4.85
2211 3870 2.481449 CGTGCCAGGTACTACCAAGATC 60.481 54.545 8.01 0.00 41.95 2.75
2212 3871 2.766828 GTGCCAGGTACTACCAAGATCT 59.233 50.000 8.01 0.00 41.95 2.75
2216 3875 4.442192 GCCAGGTACTACCAAGATCTTGAG 60.442 50.000 32.49 24.70 41.95 3.02
2217 3876 4.956700 CCAGGTACTACCAAGATCTTGAGA 59.043 45.833 32.49 19.65 41.95 3.27
2218 3877 5.600484 CCAGGTACTACCAAGATCTTGAGAT 59.400 44.000 32.49 20.45 41.95 2.75
2219 3878 6.462207 CCAGGTACTACCAAGATCTTGAGATG 60.462 46.154 32.49 19.55 41.95 2.90
2220 3879 5.600484 AGGTACTACCAAGATCTTGAGATGG 59.400 44.000 32.49 20.71 41.95 3.51
2221 3880 5.221541 GGTACTACCAAGATCTTGAGATGGG 60.222 48.000 32.49 19.04 42.93 4.00
2222 3881 3.713764 ACTACCAAGATCTTGAGATGGGG 59.286 47.826 32.49 18.37 42.93 4.96
2223 3882 2.850833 ACCAAGATCTTGAGATGGGGA 58.149 47.619 32.49 0.00 42.93 4.81
2260 4327 2.999185 AAAAAGATGGGGAGCCAAGA 57.001 45.000 0.00 0.00 0.00 3.02
2261 4328 3.479866 AAAAAGATGGGGAGCCAAGAT 57.520 42.857 0.00 0.00 0.00 2.40
2264 5975 0.106318 AGATGGGGAGCCAAGATTGC 60.106 55.000 0.00 0.00 0.00 3.56
2268 5979 0.255890 GGGGAGCCAAGATTGCTGTA 59.744 55.000 0.00 0.00 39.69 2.74
2287 5998 0.038159 ACTAGCAGCAAGACGTGGAC 60.038 55.000 0.00 0.00 0.00 4.02
2288 5999 1.073216 CTAGCAGCAAGACGTGGACG 61.073 60.000 0.00 0.00 46.33 4.79
2289 6000 4.077188 GCAGCAAGACGTGGACGC 62.077 66.667 0.00 0.00 44.43 5.19
2290 6001 3.767230 CAGCAAGACGTGGACGCG 61.767 66.667 3.53 3.53 44.43 6.01
2293 6004 2.355363 CAAGACGTGGACGCGGAA 60.355 61.111 12.47 0.00 44.43 4.30
2294 6005 1.736645 CAAGACGTGGACGCGGAAT 60.737 57.895 12.47 0.00 44.43 3.01
2296 6007 2.830704 AAGACGTGGACGCGGAATCC 62.831 60.000 12.47 9.47 44.43 3.01
2310 6021 3.113260 GGAATCCGATGGTGAACCTAG 57.887 52.381 0.37 0.00 36.82 3.02
2311 6022 2.698797 GGAATCCGATGGTGAACCTAGA 59.301 50.000 0.37 0.00 36.82 2.43
2312 6023 3.243907 GGAATCCGATGGTGAACCTAGAG 60.244 52.174 0.37 0.00 36.82 2.43
2313 6024 2.526888 TCCGATGGTGAACCTAGAGT 57.473 50.000 0.37 0.00 36.82 3.24
2314 6025 2.100197 TCCGATGGTGAACCTAGAGTG 58.900 52.381 0.37 0.00 36.82 3.51
2315 6026 1.137086 CCGATGGTGAACCTAGAGTGG 59.863 57.143 0.37 0.00 36.82 4.00
2316 6027 1.137086 CGATGGTGAACCTAGAGTGGG 59.863 57.143 0.37 0.00 36.82 4.61
2317 6028 0.912486 ATGGTGAACCTAGAGTGGGC 59.088 55.000 0.37 0.00 36.82 5.36
2318 6029 0.472925 TGGTGAACCTAGAGTGGGCA 60.473 55.000 0.37 0.00 36.82 5.36
2319 6030 0.036294 GGTGAACCTAGAGTGGGCAC 60.036 60.000 0.00 0.00 36.47 5.01
2320 6031 0.389948 GTGAACCTAGAGTGGGCACG 60.390 60.000 0.00 0.00 36.20 5.34
2321 6032 0.830444 TGAACCTAGAGTGGGCACGT 60.830 55.000 0.00 0.00 36.20 4.49
2322 6033 0.108756 GAACCTAGAGTGGGCACGTC 60.109 60.000 0.00 0.00 36.20 4.34
2323 6034 1.542187 AACCTAGAGTGGGCACGTCC 61.542 60.000 0.00 0.00 36.20 4.79
2324 6035 1.682684 CCTAGAGTGGGCACGTCCT 60.683 63.158 0.00 0.00 36.20 3.85
2325 6036 1.513158 CTAGAGTGGGCACGTCCTG 59.487 63.158 0.00 0.00 36.20 3.86
2326 6037 0.965866 CTAGAGTGGGCACGTCCTGA 60.966 60.000 0.00 0.00 36.20 3.86
2327 6038 0.541063 TAGAGTGGGCACGTCCTGAA 60.541 55.000 0.00 0.00 36.20 3.02
2328 6039 1.668151 GAGTGGGCACGTCCTGAAC 60.668 63.158 0.00 0.00 36.20 3.18
2337 6048 2.006772 CGTCCTGAACGCATAAGGC 58.993 57.895 0.00 0.00 45.76 4.35
2338 6049 0.739462 CGTCCTGAACGCATAAGGCA 60.739 55.000 0.00 0.00 45.76 4.75
2339 6050 1.668419 GTCCTGAACGCATAAGGCAT 58.332 50.000 0.00 0.00 45.17 4.40
2341 6052 3.403038 GTCCTGAACGCATAAGGCATAT 58.597 45.455 0.00 0.00 45.17 1.78
2342 6053 3.187227 GTCCTGAACGCATAAGGCATATG 59.813 47.826 5.40 5.40 45.17 1.78
2353 6064 6.403866 CATAAGGCATATGCACCCTTTAAA 57.596 37.500 28.07 8.86 44.36 1.52
2354 6065 6.815089 CATAAGGCATATGCACCCTTTAAAA 58.185 36.000 28.07 8.55 44.36 1.52
2355 6066 5.753721 AAGGCATATGCACCCTTTAAAAA 57.246 34.783 28.07 0.00 44.36 1.94
2431 7186 8.109705 TCAAGTATACATGTTTGCAAATCTGT 57.890 30.769 24.13 24.13 0.00 3.41
2432 7187 8.022550 TCAAGTATACATGTTTGCAAATCTGTG 58.977 33.333 26.86 19.65 0.00 3.66
2434 7189 7.307694 AGTATACATGTTTGCAAATCTGTGTG 58.692 34.615 26.86 17.14 0.00 3.82
2435 7190 3.125316 ACATGTTTGCAAATCTGTGTGC 58.875 40.909 21.68 6.92 41.29 4.57
2436 7191 1.837648 TGTTTGCAAATCTGTGTGCG 58.162 45.000 16.21 0.00 43.93 5.34
2437 7192 1.133982 TGTTTGCAAATCTGTGTGCGT 59.866 42.857 16.21 0.00 43.93 5.24
2522 7453 6.296027 GTGTTTCTAAATAACGTTTCACGACG 59.704 38.462 5.91 0.00 46.05 5.12
2523 7454 4.551056 TCTAAATAACGTTTCACGACGC 57.449 40.909 5.91 0.00 46.05 5.19
2524 7455 3.980134 TCTAAATAACGTTTCACGACGCA 59.020 39.130 5.91 0.00 46.05 5.24
2527 7458 3.799137 ATAACGTTTCACGACGCAATT 57.201 38.095 5.91 0.00 46.05 2.32
2528 7459 2.461897 AACGTTTCACGACGCAATTT 57.538 40.000 2.75 0.00 46.05 1.82
2530 7461 2.788030 ACGTTTCACGACGCAATTTTT 58.212 38.095 2.75 0.00 46.05 1.94
2551 7482 5.843673 TTTATCTTTTTGCACAGACCACA 57.156 34.783 0.00 0.00 0.00 4.17
2553 7484 4.734398 ATCTTTTTGCACAGACCACAAA 57.266 36.364 0.00 0.00 0.00 2.83
2554 7485 4.527509 TCTTTTTGCACAGACCACAAAA 57.472 36.364 0.00 0.00 40.47 2.44
2555 7486 4.887748 TCTTTTTGCACAGACCACAAAAA 58.112 34.783 11.14 11.14 45.79 1.94
2582 7513 9.934190 AAATTGTTTTGTCATGAAACTTTATGC 57.066 25.926 0.00 0.00 37.75 3.14
2583 7514 8.659925 ATTGTTTTGTCATGAAACTTTATGCA 57.340 26.923 0.00 0.00 37.75 3.96
2584 7515 8.659925 TTGTTTTGTCATGAAACTTTATGCAT 57.340 26.923 3.79 3.79 37.75 3.96
2586 7517 6.709145 TTTGTCATGAAACTTTATGCATGC 57.291 33.333 11.82 11.82 38.34 4.06
2588 7519 5.162794 TGTCATGAAACTTTATGCATGCAC 58.837 37.500 25.37 8.21 38.34 4.57
2589 7520 5.162794 GTCATGAAACTTTATGCATGCACA 58.837 37.500 25.37 9.23 38.34 4.57
2590 7521 5.808540 GTCATGAAACTTTATGCATGCACAT 59.191 36.000 25.37 15.99 38.34 3.21
2591 7522 6.974048 GTCATGAAACTTTATGCATGCACATA 59.026 34.615 25.37 10.03 38.34 2.29
2592 7523 7.166970 GTCATGAAACTTTATGCATGCACATAG 59.833 37.037 25.37 18.85 38.34 2.23
2593 7524 6.756299 TGAAACTTTATGCATGCACATAGA 57.244 33.333 25.37 6.96 34.15 1.98
2594 7525 7.155655 TGAAACTTTATGCATGCACATAGAA 57.844 32.000 25.37 12.04 34.15 2.10
2595 7526 7.028962 TGAAACTTTATGCATGCACATAGAAC 58.971 34.615 25.37 12.57 34.15 3.01
2596 7527 6.513806 AACTTTATGCATGCACATAGAACA 57.486 33.333 25.37 0.00 34.15 3.18
2597 7528 6.513806 ACTTTATGCATGCACATAGAACAA 57.486 33.333 25.37 0.00 34.15 2.83
2598 7529 6.558009 ACTTTATGCATGCACATAGAACAAG 58.442 36.000 25.37 13.26 34.15 3.16
2599 7530 5.503662 TTATGCATGCACATAGAACAAGG 57.496 39.130 25.37 0.00 34.15 3.61
2600 7531 3.070476 TGCATGCACATAGAACAAGGA 57.930 42.857 18.46 0.00 0.00 3.36
2601 7532 3.011818 TGCATGCACATAGAACAAGGAG 58.988 45.455 18.46 0.00 0.00 3.69
2602 7533 3.273434 GCATGCACATAGAACAAGGAGA 58.727 45.455 14.21 0.00 0.00 3.71
2604 7535 2.959516 TGCACATAGAACAAGGAGACG 58.040 47.619 0.00 0.00 0.00 4.18
2605 7536 2.299013 TGCACATAGAACAAGGAGACGT 59.701 45.455 0.00 0.00 0.00 4.34
2606 7537 3.508402 TGCACATAGAACAAGGAGACGTA 59.492 43.478 0.00 0.00 0.00 3.57
2607 7538 3.858238 GCACATAGAACAAGGAGACGTAC 59.142 47.826 0.00 0.00 0.00 3.67
2608 7539 4.380655 GCACATAGAACAAGGAGACGTACT 60.381 45.833 0.00 0.00 0.00 2.73
2609 7540 5.710984 CACATAGAACAAGGAGACGTACTT 58.289 41.667 0.00 0.00 0.00 2.24
2615 7546 3.364889 CAAGGAGACGTACTTGTGTCA 57.635 47.619 15.22 0.00 39.30 3.58
2616 7547 3.050619 CAAGGAGACGTACTTGTGTCAC 58.949 50.000 15.22 0.00 39.30 3.67
2617 7548 2.584236 AGGAGACGTACTTGTGTCACT 58.416 47.619 4.27 0.00 37.58 3.41
2618 7549 2.957006 AGGAGACGTACTTGTGTCACTT 59.043 45.455 4.27 0.00 37.58 3.16
2619 7550 3.383825 AGGAGACGTACTTGTGTCACTTT 59.616 43.478 4.27 0.00 37.58 2.66
2621 7552 4.208666 GGAGACGTACTTGTGTCACTTTTC 59.791 45.833 4.27 0.00 37.58 2.29
2622 7553 4.751060 AGACGTACTTGTGTCACTTTTCA 58.249 39.130 4.27 0.00 37.58 2.69
2623 7554 4.804139 AGACGTACTTGTGTCACTTTTCAG 59.196 41.667 4.27 0.00 37.58 3.02
2624 7555 4.751060 ACGTACTTGTGTCACTTTTCAGA 58.249 39.130 4.27 0.00 0.00 3.27
2626 7557 5.815740 ACGTACTTGTGTCACTTTTCAGATT 59.184 36.000 4.27 0.00 0.00 2.40
2627 7558 6.315393 ACGTACTTGTGTCACTTTTCAGATTT 59.685 34.615 4.27 0.00 0.00 2.17
2629 7560 7.696453 CGTACTTGTGTCACTTTTCAGATTTTT 59.304 33.333 4.27 0.00 0.00 1.94
2657 7588 9.809096 TTAGCATTTAGAAATGTGTGTTTTTGA 57.191 25.926 14.72 0.00 45.77 2.69
2658 7589 8.715191 AGCATTTAGAAATGTGTGTTTTTGAA 57.285 26.923 14.72 0.00 45.77 2.69
2659 7590 8.819974 AGCATTTAGAAATGTGTGTTTTTGAAG 58.180 29.630 14.72 0.00 45.77 3.02
2660 7591 8.603181 GCATTTAGAAATGTGTGTTTTTGAAGT 58.397 29.630 14.72 0.00 45.77 3.01
2663 7594 9.698309 TTTAGAAATGTGTGTTTTTGAAGTTGA 57.302 25.926 0.00 0.00 0.00 3.18
2664 7595 9.868277 TTAGAAATGTGTGTTTTTGAAGTTGAT 57.132 25.926 0.00 0.00 0.00 2.57
2665 7596 8.776376 AGAAATGTGTGTTTTTGAAGTTGATT 57.224 26.923 0.00 0.00 0.00 2.57
2667 7598 8.545229 AAATGTGTGTTTTTGAAGTTGATTCA 57.455 26.923 0.00 0.00 46.31 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 7.122550 TGATAAATTTCAAAAGCGCACAAAAC 58.877 30.769 11.47 0.00 0.00 2.43
10 11 6.644181 TCATGATAAATTTCAAAAGCGCACAA 59.356 30.769 11.47 0.00 0.00 3.33
16 17 8.246180 TGTCCTCTCATGATAAATTTCAAAAGC 58.754 33.333 0.00 0.00 0.00 3.51
36 37 3.448686 CACGACTACCATGAATGTCCTC 58.551 50.000 0.00 0.00 0.00 3.71
161 163 7.010923 TGGACAAATGTTTTGTATGCTTGAAAC 59.989 33.333 5.66 0.00 31.96 2.78
228 230 5.774630 CTCTCGGGATGACTAGTAAATTCC 58.225 45.833 0.00 0.00 0.00 3.01
239 241 2.159043 TCAAATGAGCTCTCGGGATGAC 60.159 50.000 16.19 0.00 0.00 3.06
357 359 3.069729 GGGCAAGACTATAGGTACACCAG 59.930 52.174 4.43 0.00 38.89 4.00
363 365 3.162666 CATCCGGGCAAGACTATAGGTA 58.837 50.000 0.00 0.00 0.00 3.08
368 370 1.451936 GGCATCCGGGCAAGACTAT 59.548 57.895 0.00 0.00 42.77 2.12
403 405 1.882912 TCACATGCAAAAGCGAGAGT 58.117 45.000 0.00 0.00 0.00 3.24
467 484 4.989875 AGATTAATGATGGTCAGGAGGG 57.010 45.455 0.00 0.00 0.00 4.30
470 487 5.357878 GCAACAAGATTAATGATGGTCAGGA 59.642 40.000 0.00 0.00 0.00 3.86
657 674 9.979270 GTGTTTTCTCTCTCAATAACATACATG 57.021 33.333 0.00 0.00 0.00 3.21
723 741 1.066752 CCCGTGCATGCATCCATTG 59.933 57.895 25.64 9.54 0.00 2.82
724 742 0.683828 TTCCCGTGCATGCATCCATT 60.684 50.000 25.64 0.00 0.00 3.16
725 743 0.683828 TTTCCCGTGCATGCATCCAT 60.684 50.000 25.64 0.00 0.00 3.41
726 744 0.683828 ATTTCCCGTGCATGCATCCA 60.684 50.000 25.64 5.54 0.00 3.41
727 745 0.031178 GATTTCCCGTGCATGCATCC 59.969 55.000 25.64 11.18 0.00 3.51
728 746 0.740149 TGATTTCCCGTGCATGCATC 59.260 50.000 25.64 15.63 0.00 3.91
729 747 0.457035 GTGATTTCCCGTGCATGCAT 59.543 50.000 25.64 5.36 0.00 3.96
730 748 0.892814 TGTGATTTCCCGTGCATGCA 60.893 50.000 18.46 18.46 0.00 3.96
731 749 0.457035 ATGTGATTTCCCGTGCATGC 59.543 50.000 11.82 11.82 0.00 4.06
732 750 1.799917 GCATGTGATTTCCCGTGCATG 60.800 52.381 0.00 0.00 41.98 4.06
733 751 0.457035 GCATGTGATTTCCCGTGCAT 59.543 50.000 2.86 0.00 41.98 3.96
734 752 1.882311 GCATGTGATTTCCCGTGCA 59.118 52.632 2.86 0.00 41.98 4.57
735 753 0.243365 TTGCATGTGATTTCCCGTGC 59.757 50.000 0.91 0.91 42.56 5.34
736 754 1.135315 CCTTGCATGTGATTTCCCGTG 60.135 52.381 0.00 0.00 0.00 4.94
737 755 1.176527 CCTTGCATGTGATTTCCCGT 58.823 50.000 0.00 0.00 0.00 5.28
738 756 1.176527 ACCTTGCATGTGATTTCCCG 58.823 50.000 0.00 0.00 0.00 5.14
739 757 3.620488 TCTACCTTGCATGTGATTTCCC 58.380 45.455 0.00 0.00 0.00 3.97
740 758 5.643379 TTTCTACCTTGCATGTGATTTCC 57.357 39.130 0.00 0.00 0.00 3.13
741 759 6.753744 GGATTTTCTACCTTGCATGTGATTTC 59.246 38.462 0.00 0.00 0.00 2.17
742 760 6.438425 AGGATTTTCTACCTTGCATGTGATTT 59.562 34.615 0.00 0.00 31.95 2.17
743 761 5.954150 AGGATTTTCTACCTTGCATGTGATT 59.046 36.000 0.00 0.00 31.95 2.57
744 762 5.513233 AGGATTTTCTACCTTGCATGTGAT 58.487 37.500 0.00 0.00 31.95 3.06
745 763 4.922206 AGGATTTTCTACCTTGCATGTGA 58.078 39.130 0.00 0.00 31.95 3.58
746 764 4.946157 AGAGGATTTTCTACCTTGCATGTG 59.054 41.667 0.00 0.00 36.57 3.21
754 801 5.346270 AGTTGGAGAGAGGATTTTCTACCT 58.654 41.667 0.00 0.00 39.41 3.08
819 866 1.598882 TGGCATGCACGTGAAGTTTA 58.401 45.000 22.23 0.00 0.00 2.01
978 1047 6.350864 CCATCGATGATCTTATCCAAGCTACT 60.351 42.308 26.86 0.00 0.00 2.57
1020 1120 1.375396 GGTGGTGCACAGCGACATA 60.375 57.895 20.43 0.00 37.90 2.29
1620 1936 2.359602 TGCTGCTTCTGCTGGAGC 60.360 61.111 16.61 16.61 46.71 4.70
1681 2000 3.144871 TCGACGGCCGGTGATCAT 61.145 61.111 31.76 5.85 39.14 2.45
1682 2001 4.124351 GTCGACGGCCGGTGATCA 62.124 66.667 31.76 3.49 39.14 2.92
1684 2003 4.129737 CAGTCGACGGCCGGTGAT 62.130 66.667 31.76 8.20 39.14 3.06
1686 2005 3.678717 CTACAGTCGACGGCCGGTG 62.679 68.421 31.76 21.35 39.14 4.94
1687 2006 3.437795 CTACAGTCGACGGCCGGT 61.438 66.667 31.76 18.69 39.14 5.28
1688 2007 4.849329 GCTACAGTCGACGGCCGG 62.849 72.222 31.76 13.23 39.14 6.13
1761 2097 5.129980 TCCAGTGCTGAATAAGTCATCTCAT 59.870 40.000 0.02 0.00 35.07 2.90
1763 2099 4.808364 GTCCAGTGCTGAATAAGTCATCTC 59.192 45.833 0.02 0.00 35.07 2.75
1821 2160 8.918116 AGGCTATGATTCGATACATACATACAT 58.082 33.333 7.62 0.00 0.00 2.29
1822 2161 8.293699 AGGCTATGATTCGATACATACATACA 57.706 34.615 7.62 0.00 0.00 2.29
1823 2162 9.587772 AAAGGCTATGATTCGATACATACATAC 57.412 33.333 7.62 1.56 0.00 2.39
1848 2320 6.983307 TGCTTAATTACTTTTGCAAGCAAGAA 59.017 30.769 16.01 7.67 43.75 2.52
1849 2321 6.511416 TGCTTAATTACTTTTGCAAGCAAGA 58.489 32.000 16.01 2.71 43.75 3.02
1954 2516 9.560860 TCTCTGGCCTCAATATATATTAAGGAA 57.439 33.333 23.93 12.48 33.64 3.36
1999 2566 1.018752 TGCGCACGTACGTACTCCTA 61.019 55.000 22.34 2.91 34.88 2.94
2000 2567 1.855213 TTGCGCACGTACGTACTCCT 61.855 55.000 22.34 3.10 34.88 3.69
2001 2568 1.003262 TTTGCGCACGTACGTACTCC 61.003 55.000 22.34 9.66 34.88 3.85
2002 2569 0.986992 ATTTGCGCACGTACGTACTC 59.013 50.000 22.34 11.40 34.88 2.59
2003 2570 1.421382 AATTTGCGCACGTACGTACT 58.579 45.000 22.34 7.87 34.88 2.73
2004 2571 3.076518 GTTAATTTGCGCACGTACGTAC 58.923 45.455 22.34 15.19 34.88 3.67
2080 2647 7.499895 TGTGTCATTCATGTACGTAGGAGTATA 59.500 37.037 0.00 0.00 0.00 1.47
2082 2649 5.648960 TGTGTCATTCATGTACGTAGGAGTA 59.351 40.000 0.00 0.00 0.00 2.59
2084 2651 4.993905 TGTGTCATTCATGTACGTAGGAG 58.006 43.478 0.00 0.00 0.00 3.69
2086 2653 4.025730 GCATGTGTCATTCATGTACGTAGG 60.026 45.833 0.00 0.00 42.94 3.18
2087 2654 4.566360 TGCATGTGTCATTCATGTACGTAG 59.434 41.667 0.00 0.00 42.94 3.51
2088 2655 4.499183 TGCATGTGTCATTCATGTACGTA 58.501 39.130 0.00 0.00 42.94 3.57
2090 2657 4.276460 CATGCATGTGTCATTCATGTACG 58.724 43.478 18.91 0.00 42.94 3.67
2094 3749 3.157932 TGCATGCATGTGTCATTCATG 57.842 42.857 26.79 14.50 43.58 3.07
2154 3809 2.788640 GGCGCCCACGGTATGTCTA 61.789 63.158 18.11 0.00 40.57 2.59
2197 3856 5.221541 CCCATCTCAAGATCTTGGTAGTACC 60.222 48.000 30.33 12.80 40.78 3.34
2211 3870 3.659183 ATCTTGGTTCCCCATCTCAAG 57.341 47.619 0.00 0.00 41.49 3.02
2212 3871 3.075882 ACAATCTTGGTTCCCCATCTCAA 59.924 43.478 0.00 0.00 41.49 3.02
2216 3875 3.085952 TGACAATCTTGGTTCCCCATC 57.914 47.619 0.00 0.00 41.49 3.51
2217 3876 3.541242 TTGACAATCTTGGTTCCCCAT 57.459 42.857 0.00 0.00 41.49 4.00
2218 3877 3.320610 TTTGACAATCTTGGTTCCCCA 57.679 42.857 0.00 0.00 39.65 4.96
2219 3878 4.681074 TTTTTGACAATCTTGGTTCCCC 57.319 40.909 0.00 0.00 0.00 4.81
2245 4312 0.106318 GCAATCTTGGCTCCCCATCT 60.106 55.000 0.00 0.00 41.78 2.90
2246 4313 0.106318 AGCAATCTTGGCTCCCCATC 60.106 55.000 0.00 0.00 41.78 3.51
2247 4314 0.396695 CAGCAATCTTGGCTCCCCAT 60.397 55.000 0.00 0.00 41.78 4.00
2248 4315 1.000521 CAGCAATCTTGGCTCCCCA 60.001 57.895 0.00 0.00 40.23 4.96
2249 4316 0.255890 TACAGCAATCTTGGCTCCCC 59.744 55.000 0.00 0.00 40.23 4.81
2250 4317 1.065126 AGTACAGCAATCTTGGCTCCC 60.065 52.381 0.00 0.00 40.23 4.30
2251 4318 2.409948 AGTACAGCAATCTTGGCTCC 57.590 50.000 0.00 0.00 40.23 4.70
2264 5975 2.254459 CACGTCTTGCTGCTAGTACAG 58.746 52.381 10.72 4.27 40.80 2.74
2268 5979 0.038159 GTCCACGTCTTGCTGCTAGT 60.038 55.000 10.72 0.00 0.00 2.57
2288 5999 1.436983 GGTTCACCATCGGATTCCGC 61.437 60.000 20.36 3.49 40.61 5.54
2289 6000 0.178068 AGGTTCACCATCGGATTCCG 59.822 55.000 19.16 19.16 43.27 4.30
2290 6001 2.698797 TCTAGGTTCACCATCGGATTCC 59.301 50.000 0.00 0.00 38.89 3.01
2291 6002 3.385111 ACTCTAGGTTCACCATCGGATTC 59.615 47.826 0.00 0.00 38.89 2.52
2293 6004 2.695666 CACTCTAGGTTCACCATCGGAT 59.304 50.000 0.00 0.00 38.89 4.18
2294 6005 2.100197 CACTCTAGGTTCACCATCGGA 58.900 52.381 0.00 0.00 38.89 4.55
2296 6007 1.137086 CCCACTCTAGGTTCACCATCG 59.863 57.143 0.00 0.00 38.89 3.84
2297 6008 1.134371 GCCCACTCTAGGTTCACCATC 60.134 57.143 0.00 0.00 38.89 3.51
2300 6011 0.036294 GTGCCCACTCTAGGTTCACC 60.036 60.000 0.00 0.00 0.00 4.02
2301 6012 0.389948 CGTGCCCACTCTAGGTTCAC 60.390 60.000 0.00 0.00 0.00 3.18
2302 6013 0.830444 ACGTGCCCACTCTAGGTTCA 60.830 55.000 0.00 0.00 0.00 3.18
2303 6014 0.108756 GACGTGCCCACTCTAGGTTC 60.109 60.000 0.00 0.00 0.00 3.62
2304 6015 1.542187 GGACGTGCCCACTCTAGGTT 61.542 60.000 0.00 0.00 0.00 3.50
2306 6017 1.682684 AGGACGTGCCCACTCTAGG 60.683 63.158 2.38 0.00 37.37 3.02
2307 6018 0.965866 TCAGGACGTGCCCACTCTAG 60.966 60.000 2.38 0.00 37.37 2.43
2308 6019 0.541063 TTCAGGACGTGCCCACTCTA 60.541 55.000 2.38 0.00 37.37 2.43
2309 6020 1.837051 TTCAGGACGTGCCCACTCT 60.837 57.895 2.38 0.00 37.37 3.24
2310 6021 1.668151 GTTCAGGACGTGCCCACTC 60.668 63.158 2.38 0.00 37.37 3.51
2311 6022 2.426023 GTTCAGGACGTGCCCACT 59.574 61.111 2.38 0.00 37.37 4.00
2312 6023 3.041940 CGTTCAGGACGTGCCCAC 61.042 66.667 2.38 0.00 46.49 4.61
2320 6031 1.668419 ATGCCTTATGCGTTCAGGAC 58.332 50.000 7.84 1.27 45.60 3.85
2321 6032 3.402110 CATATGCCTTATGCGTTCAGGA 58.598 45.455 7.84 0.00 45.60 3.86
2322 6033 3.818961 CATATGCCTTATGCGTTCAGG 57.181 47.619 0.00 0.26 45.60 3.86
2330 6041 6.403866 TTTAAAGGGTGCATATGCCTTATG 57.596 37.500 24.54 0.54 40.67 1.90
2331 6042 7.430760 TTTTTAAAGGGTGCATATGCCTTAT 57.569 32.000 24.54 12.77 41.18 1.73
2332 6043 6.859112 TTTTTAAAGGGTGCATATGCCTTA 57.141 33.333 24.54 11.13 41.18 2.69
2359 6070 9.809096 TGACATTTTAAAACATGCTTAAAGTGA 57.191 25.926 26.13 13.22 37.79 3.41
2405 6560 8.742777 ACAGATTTGCAAACATGTATACTTGAT 58.257 29.630 22.86 10.12 0.00 2.57
2406 6561 8.022550 CACAGATTTGCAAACATGTATACTTGA 58.977 33.333 23.39 2.03 0.00 3.02
2407 6562 7.809331 ACACAGATTTGCAAACATGTATACTTG 59.191 33.333 23.39 15.29 0.00 3.16
2408 6563 7.809331 CACACAGATTTGCAAACATGTATACTT 59.191 33.333 23.39 3.03 0.00 2.24
2410 6565 6.033831 GCACACAGATTTGCAAACATGTATAC 59.966 38.462 23.39 14.84 38.68 1.47
2411 6566 6.092092 GCACACAGATTTGCAAACATGTATA 58.908 36.000 23.39 0.00 38.68 1.47
2422 7177 1.730547 GCCACGCACACAGATTTGC 60.731 57.895 0.00 0.00 35.26 3.68
2423 7178 1.653667 TGCCACGCACACAGATTTG 59.346 52.632 0.00 0.00 31.71 2.32
2424 7179 4.155950 TGCCACGCACACAGATTT 57.844 50.000 0.00 0.00 31.71 2.17
2492 7423 9.493206 GTGAAACGTTATTTAGAAACACTGAAA 57.507 29.630 0.00 0.00 0.00 2.69
2527 7458 6.634805 TGTGGTCTGTGCAAAAAGATAAAAA 58.365 32.000 0.00 0.00 0.00 1.94
2528 7459 6.214191 TGTGGTCTGTGCAAAAAGATAAAA 57.786 33.333 0.00 0.00 0.00 1.52
2530 7461 5.843673 TTGTGGTCTGTGCAAAAAGATAA 57.156 34.783 0.00 0.00 0.00 1.75
2531 7462 5.843673 TTTGTGGTCTGTGCAAAAAGATA 57.156 34.783 0.00 0.00 0.00 1.98
2532 7463 4.734398 TTTGTGGTCTGTGCAAAAAGAT 57.266 36.364 0.00 0.00 0.00 2.40
2533 7464 4.527509 TTTTGTGGTCTGTGCAAAAAGA 57.472 36.364 0.00 0.00 38.59 2.52
2556 7487 9.934190 GCATAAAGTTTCATGACAAAACAATTT 57.066 25.926 10.56 6.44 38.73 1.82
2557 7488 9.107177 TGCATAAAGTTTCATGACAAAACAATT 57.893 25.926 10.56 7.80 38.73 2.32
2558 7489 8.659925 TGCATAAAGTTTCATGACAAAACAAT 57.340 26.923 10.56 2.76 38.73 2.71
2559 7490 8.549548 CATGCATAAAGTTTCATGACAAAACAA 58.450 29.630 0.00 0.00 38.77 2.83
2561 7492 7.011189 GCATGCATAAAGTTTCATGACAAAAC 58.989 34.615 14.21 0.00 38.77 2.43
2562 7493 6.704937 TGCATGCATAAAGTTTCATGACAAAA 59.295 30.769 18.46 0.00 38.77 2.44
2563 7494 6.145858 GTGCATGCATAAAGTTTCATGACAAA 59.854 34.615 25.64 0.00 38.77 2.83
2564 7495 5.634439 GTGCATGCATAAAGTTTCATGACAA 59.366 36.000 25.64 0.00 38.77 3.18
2566 7497 5.162794 TGTGCATGCATAAAGTTTCATGAC 58.837 37.500 25.64 5.93 38.77 3.06
2567 7498 5.388408 TGTGCATGCATAAAGTTTCATGA 57.612 34.783 25.64 0.00 38.77 3.07
2568 7499 7.197703 TCTATGTGCATGCATAAAGTTTCATG 58.802 34.615 25.64 13.22 39.29 3.07
2569 7500 7.337480 TCTATGTGCATGCATAAAGTTTCAT 57.663 32.000 25.64 20.38 31.76 2.57
2570 7501 6.756299 TCTATGTGCATGCATAAAGTTTCA 57.244 33.333 25.64 14.63 31.76 2.69
2571 7502 7.028962 TGTTCTATGTGCATGCATAAAGTTTC 58.971 34.615 25.64 8.75 31.76 2.78
2572 7503 6.923012 TGTTCTATGTGCATGCATAAAGTTT 58.077 32.000 25.64 8.23 31.76 2.66
2573 7504 6.513806 TGTTCTATGTGCATGCATAAAGTT 57.486 33.333 25.64 8.63 31.76 2.66
2574 7505 6.405065 CCTTGTTCTATGTGCATGCATAAAGT 60.405 38.462 25.64 9.03 31.76 2.66
2575 7506 5.975344 CCTTGTTCTATGTGCATGCATAAAG 59.025 40.000 25.64 18.52 31.76 1.85
2576 7507 5.651576 TCCTTGTTCTATGTGCATGCATAAA 59.348 36.000 25.64 13.31 31.76 1.40
2577 7508 5.192176 TCCTTGTTCTATGTGCATGCATAA 58.808 37.500 25.64 16.04 31.76 1.90
2578 7509 4.779696 TCCTTGTTCTATGTGCATGCATA 58.220 39.130 25.64 22.69 0.00 3.14
2579 7510 3.623703 TCCTTGTTCTATGTGCATGCAT 58.376 40.909 25.64 11.73 0.00 3.96
2580 7511 3.011818 CTCCTTGTTCTATGTGCATGCA 58.988 45.455 18.46 18.46 0.00 3.96
2581 7512 3.064545 GTCTCCTTGTTCTATGTGCATGC 59.935 47.826 11.82 11.82 0.00 4.06
2582 7513 3.308053 CGTCTCCTTGTTCTATGTGCATG 59.692 47.826 0.00 0.00 0.00 4.06
2583 7514 3.055819 ACGTCTCCTTGTTCTATGTGCAT 60.056 43.478 0.00 0.00 0.00 3.96
2584 7515 2.299013 ACGTCTCCTTGTTCTATGTGCA 59.701 45.455 0.00 0.00 0.00 4.57
2586 7517 5.312120 AGTACGTCTCCTTGTTCTATGTG 57.688 43.478 0.00 0.00 0.00 3.21
2588 7519 5.573282 CACAAGTACGTCTCCTTGTTCTATG 59.427 44.000 19.57 9.26 46.82 2.23
2589 7520 5.243283 ACACAAGTACGTCTCCTTGTTCTAT 59.757 40.000 19.57 8.20 46.82 1.98
2590 7521 4.581824 ACACAAGTACGTCTCCTTGTTCTA 59.418 41.667 19.57 0.00 46.82 2.10
2591 7522 3.383825 ACACAAGTACGTCTCCTTGTTCT 59.616 43.478 19.57 9.61 46.82 3.01
2592 7523 3.714391 ACACAAGTACGTCTCCTTGTTC 58.286 45.455 19.57 0.00 46.82 3.18
2593 7524 3.131577 TGACACAAGTACGTCTCCTTGTT 59.868 43.478 19.57 13.55 46.82 2.83
2595 7526 3.050619 GTGACACAAGTACGTCTCCTTG 58.949 50.000 16.52 16.52 42.91 3.61
2596 7527 2.957006 AGTGACACAAGTACGTCTCCTT 59.043 45.455 8.59 0.00 33.18 3.36
2597 7528 2.584236 AGTGACACAAGTACGTCTCCT 58.416 47.619 8.59 0.00 33.18 3.69
2598 7529 3.366440 AAGTGACACAAGTACGTCTCC 57.634 47.619 8.59 0.00 33.18 3.71
2599 7530 4.802039 TGAAAAGTGACACAAGTACGTCTC 59.198 41.667 8.59 0.00 33.18 3.36
2600 7531 4.751060 TGAAAAGTGACACAAGTACGTCT 58.249 39.130 8.59 0.00 33.18 4.18
2601 7532 4.802039 TCTGAAAAGTGACACAAGTACGTC 59.198 41.667 8.59 0.00 0.00 4.34
2602 7533 4.751060 TCTGAAAAGTGACACAAGTACGT 58.249 39.130 8.59 0.00 0.00 3.57
2604 7535 8.911247 AAAAATCTGAAAAGTGACACAAGTAC 57.089 30.769 8.59 0.00 0.00 2.73
2637 7568 9.698309 TCAACTTCAAAAACACACATTTCTAAA 57.302 25.926 0.00 0.00 0.00 1.85
2638 7569 9.868277 ATCAACTTCAAAAACACACATTTCTAA 57.132 25.926 0.00 0.00 0.00 2.10
2639 7570 9.868277 AATCAACTTCAAAAACACACATTTCTA 57.132 25.926 0.00 0.00 0.00 2.10
2640 7571 8.776376 AATCAACTTCAAAAACACACATTTCT 57.224 26.923 0.00 0.00 0.00 2.52
2641 7572 8.655092 TGAATCAACTTCAAAAACACACATTTC 58.345 29.630 0.00 0.00 40.92 2.17
2642 7573 8.545229 TGAATCAACTTCAAAAACACACATTT 57.455 26.923 0.00 0.00 40.92 2.32
2643 7574 8.721019 ATGAATCAACTTCAAAAACACACATT 57.279 26.923 0.00 0.00 46.62 2.71
2644 7575 9.248291 GTATGAATCAACTTCAAAAACACACAT 57.752 29.630 0.00 0.00 46.62 3.21
2645 7576 8.246871 TGTATGAATCAACTTCAAAAACACACA 58.753 29.630 0.00 0.00 46.62 3.72


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

AutoCloner maintained by Alex Coulton.