Multiple sequence alignment - TraesCS6B01G001400

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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 TraesCS6B01G001400 chr6B 100.000 3233 0 0 1 3233 943442 946674 0.000000e+00 5971.0
1 TraesCS6B01G001400 chr6B 86.234 1678 192 22 692 2355 17803237 17801585 0.000000e+00 1783.0
2 TraesCS6B01G001400 chr6B 86.545 1583 193 11 778 2349 2198011 2199584 0.000000e+00 1725.0
3 TraesCS6B01G001400 chr6B 97.126 696 15 4 2542 3233 207083202 207082508 0.000000e+00 1170.0
4 TraesCS6B01G001400 chr6B 94.000 50 3 0 1 50 2197894 2197943 3.460000e-10 76.8
5 TraesCS6B01G001400 chr6B 92.000 50 4 0 1 50 17803284 17803235 1.610000e-08 71.3
6 TraesCS6B01G001400 chr6B 92.308 39 3 0 692 730 2197941 2197979 4.510000e-04 56.5
7 TraesCS6B01G001400 chrUn 85.389 1670 211 17 692 2355 70996296 70994654 0.000000e+00 1701.0
8 TraesCS6B01G001400 chrUn 81.498 908 131 16 1366 2270 322508456 322509329 0.000000e+00 712.0
9 TraesCS6B01G001400 chrUn 80.617 227 42 2 1905 2130 29861261 29861486 1.190000e-39 174.0
10 TraesCS6B01G001400 chrUn 90.000 50 5 0 1 50 70996343 70996294 7.490000e-07 65.8
11 TraesCS6B01G001400 chr1B 82.215 1490 251 13 692 2174 3047152 3048634 0.000000e+00 1271.0
12 TraesCS6B01G001400 chr5B 97.418 697 14 3 2541 3233 221552431 221551735 0.000000e+00 1184.0
13 TraesCS6B01G001400 chr5B 97.270 696 15 3 2542 3233 210739560 210740255 0.000000e+00 1177.0
14 TraesCS6B01G001400 chr5B 97.270 696 15 3 2542 3233 210746532 210747227 0.000000e+00 1177.0
15 TraesCS6B01G001400 chr5B 97.126 696 16 3 2542 3233 221545456 221544761 0.000000e+00 1171.0
16 TraesCS6B01G001400 chr5B 96.739 644 13 3 53 691 16185665 16185025 0.000000e+00 1066.0
17 TraesCS6B01G001400 chr5B 96.584 644 14 3 53 691 16184109 16183469 0.000000e+00 1061.0
18 TraesCS6B01G001400 chr3B 97.274 697 14 4 2541 3233 461887763 461888458 0.000000e+00 1177.0
19 TraesCS6B01G001400 chr3B 97.126 696 15 4 2542 3233 461995594 461994900 0.000000e+00 1170.0
20 TraesCS6B01G001400 chr2B 96.742 706 17 5 2532 3233 152032800 152032097 0.000000e+00 1171.0
21 TraesCS6B01G001400 chr7B 96.987 697 16 4 2541 3233 224709078 224708383 0.000000e+00 1166.0
22 TraesCS6B01G001400 chr7B 76.898 606 117 17 1578 2175 601127807 601128397 4.020000e-84 322.0
23 TraesCS6B01G001400 chr3A 97.660 641 13 1 53 691 722462989 722463629 0.000000e+00 1099.0
24 TraesCS6B01G001400 chr3A 97.653 639 15 0 53 691 722459881 722460519 0.000000e+00 1098.0
25 TraesCS6B01G001400 chr3A 97.340 639 15 1 53 691 722461436 722462072 0.000000e+00 1085.0
26 TraesCS6B01G001400 chr3A 97.340 639 13 1 53 691 722458330 722458964 0.000000e+00 1083.0
27 TraesCS6B01G001400 chr3A 97.106 622 18 0 53 674 722464546 722465167 0.000000e+00 1050.0
28 TraesCS6B01G001400 chr3A 100.000 28 0 0 1617 1644 574011434 574011407 6.000000e-03 52.8
29 TraesCS6B01G001400 chr7A 97.289 627 11 2 53 674 38720987 38721612 0.000000e+00 1059.0
30 TraesCS6B01G001400 chr7A 96.124 645 15 3 52 691 38719431 38720070 0.000000e+00 1044.0
31 TraesCS6B01G001400 chr7A 75.366 1092 209 43 947 2020 640595489 640596538 3.780000e-129 472.0
32 TraesCS6B01G001400 chr1D 82.665 848 132 13 755 1594 2517227 2516387 0.000000e+00 737.0
33 TraesCS6B01G001400 chr7D 76.033 1452 284 44 813 2238 554980500 554979087 0.000000e+00 695.0
34 TraesCS6B01G001400 chr7D 78.224 1070 185 30 1109 2155 555157976 555156932 2.720000e-180 641.0
35 TraesCS6B01G001400 chr7D 94.340 53 3 0 802 854 555158277 555158225 7.430000e-12 82.4
36 TraesCS6B01G001400 chr3D 87.755 49 4 2 1597 1644 435293150 435293103 4.510000e-04 56.5


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 TraesCS6B01G001400 chr6B 943442 946674 3232 False 5971.000000 5971 100.0000 1 3233 1 chr6B.!!$F1 3232
1 TraesCS6B01G001400 chr6B 207082508 207083202 694 True 1170.000000 1170 97.1260 2542 3233 1 chr6B.!!$R1 691
2 TraesCS6B01G001400 chr6B 17801585 17803284 1699 True 927.150000 1783 89.1170 1 2355 2 chr6B.!!$R2 2354
3 TraesCS6B01G001400 chr6B 2197894 2199584 1690 False 619.433333 1725 90.9510 1 2349 3 chr6B.!!$F2 2348
4 TraesCS6B01G001400 chrUn 70994654 70996343 1689 True 883.400000 1701 87.6945 1 2355 2 chrUn.!!$R1 2354
5 TraesCS6B01G001400 chrUn 322508456 322509329 873 False 712.000000 712 81.4980 1366 2270 1 chrUn.!!$F2 904
6 TraesCS6B01G001400 chr1B 3047152 3048634 1482 False 1271.000000 1271 82.2150 692 2174 1 chr1B.!!$F1 1482
7 TraesCS6B01G001400 chr5B 221551735 221552431 696 True 1184.000000 1184 97.4180 2541 3233 1 chr5B.!!$R2 692
8 TraesCS6B01G001400 chr5B 210739560 210740255 695 False 1177.000000 1177 97.2700 2542 3233 1 chr5B.!!$F1 691
9 TraesCS6B01G001400 chr5B 210746532 210747227 695 False 1177.000000 1177 97.2700 2542 3233 1 chr5B.!!$F2 691
10 TraesCS6B01G001400 chr5B 221544761 221545456 695 True 1171.000000 1171 97.1260 2542 3233 1 chr5B.!!$R1 691
11 TraesCS6B01G001400 chr5B 16183469 16185665 2196 True 1063.500000 1066 96.6615 53 691 2 chr5B.!!$R3 638
12 TraesCS6B01G001400 chr3B 461887763 461888458 695 False 1177.000000 1177 97.2740 2541 3233 1 chr3B.!!$F1 692
13 TraesCS6B01G001400 chr3B 461994900 461995594 694 True 1170.000000 1170 97.1260 2542 3233 1 chr3B.!!$R1 691
14 TraesCS6B01G001400 chr2B 152032097 152032800 703 True 1171.000000 1171 96.7420 2532 3233 1 chr2B.!!$R1 701
15 TraesCS6B01G001400 chr7B 224708383 224709078 695 True 1166.000000 1166 96.9870 2541 3233 1 chr7B.!!$R1 692
16 TraesCS6B01G001400 chr7B 601127807 601128397 590 False 322.000000 322 76.8980 1578 2175 1 chr7B.!!$F1 597
17 TraesCS6B01G001400 chr3A 722458330 722465167 6837 False 1083.000000 1099 97.4198 53 691 5 chr3A.!!$F1 638
18 TraesCS6B01G001400 chr7A 38719431 38721612 2181 False 1051.500000 1059 96.7065 52 691 2 chr7A.!!$F2 639
19 TraesCS6B01G001400 chr7A 640595489 640596538 1049 False 472.000000 472 75.3660 947 2020 1 chr7A.!!$F1 1073
20 TraesCS6B01G001400 chr1D 2516387 2517227 840 True 737.000000 737 82.6650 755 1594 1 chr1D.!!$R1 839
21 TraesCS6B01G001400 chr7D 554979087 554980500 1413 True 695.000000 695 76.0330 813 2238 1 chr7D.!!$R1 1425
22 TraesCS6B01G001400 chr7D 555156932 555158277 1345 True 361.700000 641 86.2820 802 2155 2 chr7D.!!$R2 1353

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
731 6957 0.037605 ACGCGAAGGGAACAAGGTAG 60.038 55.0 15.93 0.0 46.37 3.18 F
1511 7759 0.036010 AACGCTGCCAGCTACAAGAT 60.036 50.0 15.80 0.0 39.60 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1737 7985 0.179065 TCCCAAGCATCAGCATCTCG 60.179 55.0 0.0 0.0 45.49 4.04 R
2903 9171 1.948104 CACACAAAGTGTTCCTCCGA 58.052 50.0 0.0 0.0 45.08 4.55 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
30 31 1.339291 GCCATGGGCTCTAAAGAATGC 59.661 52.381 15.13 0.00 46.69 3.56
33 34 3.228453 CATGGGCTCTAAAGAATGCCAT 58.772 45.455 11.19 0.00 46.53 4.40
50 51 2.934887 CCATTATCAGTGGCATGGTCA 58.065 47.619 0.00 0.00 32.82 4.02
90 91 2.737376 GTGTTGTCGGGCTCGTCC 60.737 66.667 5.57 0.00 37.69 4.79
165 4830 2.732094 GTTCGTCGGGTGTGTCGG 60.732 66.667 0.00 0.00 0.00 4.79
215 4880 3.777925 CAGTAGCGTGGCGTGTGC 61.778 66.667 0.00 0.00 41.71 4.57
264 4929 1.594293 GTGTAGCGTGGCTGTGTGT 60.594 57.895 0.00 0.00 40.10 3.72
315 4980 5.352284 CGTGAGTTAGTTAGCCAGATGATT 58.648 41.667 0.00 0.00 0.00 2.57
456 5121 6.070481 TCAGTTTGGTAGTGCATGGATTAGTA 60.070 38.462 0.00 0.00 0.00 1.82
701 6927 2.016318 TGCAACAACAGTCACCTCTTG 58.984 47.619 0.00 0.00 0.00 3.02
730 6956 0.320073 CACGCGAAGGGAACAAGGTA 60.320 55.000 15.93 0.00 46.37 3.08
731 6957 0.037605 ACGCGAAGGGAACAAGGTAG 60.038 55.000 15.93 0.00 46.37 3.18
738 6964 2.227194 AGGGAACAAGGTAGTTTTGCG 58.773 47.619 0.00 0.00 0.00 4.85
740 6966 2.031420 GGGAACAAGGTAGTTTTGCGTC 60.031 50.000 0.00 0.00 0.00 5.19
741 6967 2.614983 GGAACAAGGTAGTTTTGCGTCA 59.385 45.455 0.00 0.00 0.00 4.35
743 6969 4.464112 GAACAAGGTAGTTTTGCGTCATC 58.536 43.478 0.00 0.00 0.00 2.92
745 6971 1.722011 AGGTAGTTTTGCGTCATCCG 58.278 50.000 0.00 0.00 40.40 4.18
752 6978 2.204865 TTTGCGTCATCCGGGGGATT 62.205 55.000 0.00 0.00 39.79 3.01
753 6979 2.192175 GCGTCATCCGGGGGATTT 59.808 61.111 0.00 0.00 39.79 2.17
763 6989 1.194218 CGGGGGATTTTGCATTTCCT 58.806 50.000 9.25 0.00 0.00 3.36
771 6997 5.308014 GGATTTTGCATTTCCTTTCTTGGT 58.692 37.500 0.00 0.00 0.00 3.67
798 7024 1.860078 GTCCAAAAGCGGACGACAG 59.140 57.895 0.00 0.00 45.77 3.51
810 7036 1.347817 GACGACAGGAAGAAGCAGCG 61.348 60.000 0.00 0.00 0.00 5.18
862 7088 1.871126 GCAAGAAGCAAGGAGGTGCC 61.871 60.000 0.00 0.00 46.14 5.01
888 7114 0.174617 GGTCAGAGCTAGCCAGTGAC 59.825 60.000 23.88 23.88 37.41 3.67
901 7127 1.528129 CAGTGACCAAGAGAAAGCCC 58.472 55.000 0.00 0.00 0.00 5.19
918 7144 3.416156 AGCCCAAGAACTAGCTTTGAAG 58.584 45.455 0.00 0.00 29.27 3.02
923 7149 5.059833 CCAAGAACTAGCTTTGAAGTCTGT 58.940 41.667 0.00 0.00 0.00 3.41
926 7155 5.293560 AGAACTAGCTTTGAAGTCTGTGAC 58.706 41.667 0.00 0.00 0.00 3.67
929 7158 4.811557 ACTAGCTTTGAAGTCTGTGACAAC 59.188 41.667 0.00 0.00 34.60 3.32
931 7160 2.851008 GCTTTGAAGTCTGTGACAACGC 60.851 50.000 0.46 0.00 34.60 4.84
938 7167 1.208358 CTGTGACAACGCATGCCAG 59.792 57.895 13.15 7.79 35.92 4.85
1012 7241 5.405935 ACAACTTTTTATGGCCCTTGATC 57.594 39.130 0.00 0.00 0.00 2.92
1028 7263 1.545136 TGATCGCCAACATGCACATTT 59.455 42.857 0.00 0.00 0.00 2.32
1030 7265 0.243365 TCGCCAACATGCACATTTCC 59.757 50.000 0.00 0.00 0.00 3.13
1040 7275 5.014858 ACATGCACATTTCCTCTCAGAATT 58.985 37.500 0.00 0.00 0.00 2.17
1045 7280 4.698780 CACATTTCCTCTCAGAATTCAGCA 59.301 41.667 8.44 0.00 0.00 4.41
1052 7287 4.942483 CCTCTCAGAATTCAGCATCAGTTT 59.058 41.667 8.44 0.00 0.00 2.66
1078 7313 3.586470 TTGGGGAGCTCTACACAAAAA 57.414 42.857 14.64 0.00 0.00 1.94
1147 7382 3.308402 CCCATTTCTGACCTTAGCTTCCA 60.308 47.826 0.00 0.00 0.00 3.53
1150 7385 3.914426 TTCTGACCTTAGCTTCCATCC 57.086 47.619 0.00 0.00 0.00 3.51
1248 7493 0.967380 CCTTGCCGCTGGATTTCCTT 60.967 55.000 0.00 0.00 36.82 3.36
1267 7512 0.603707 TTTGCTCTTGCTCGGTCCTG 60.604 55.000 0.00 0.00 40.48 3.86
1321 7569 3.491104 CCAGTATAGCCTCTTGTCGTTCC 60.491 52.174 0.00 0.00 0.00 3.62
1362 7610 3.755378 CCACTACTTTGATGAAGCTTGCT 59.245 43.478 2.10 0.00 39.04 3.91
1384 7632 1.334869 CAGTTGTCTGTTGCAAGGACC 59.665 52.381 22.00 12.36 36.97 4.46
1433 7681 2.169352 ACGGACCATCTGATTCCTCAAG 59.831 50.000 6.77 0.00 0.00 3.02
1467 7715 5.440610 GAGTTGGTCCTTGGATATGTGAAT 58.559 41.667 0.00 0.00 0.00 2.57
1511 7759 0.036010 AACGCTGCCAGCTACAAGAT 60.036 50.000 15.80 0.00 39.60 2.40
1512 7760 0.460987 ACGCTGCCAGCTACAAGATC 60.461 55.000 15.80 0.00 39.60 2.75
1520 7768 3.753272 GCCAGCTACAAGATCTTCAACAA 59.247 43.478 4.57 0.00 0.00 2.83
1737 7985 2.801631 CCTGCTCTCCATCCGTCCC 61.802 68.421 0.00 0.00 0.00 4.46
1822 8070 1.375908 CTGGGCAGCGAGTTAGCAA 60.376 57.895 0.00 0.00 40.15 3.91
1824 8072 1.671054 GGGCAGCGAGTTAGCAACA 60.671 57.895 0.00 0.00 40.15 3.33
1859 8110 3.052455 TGCGCAGGTAATTCTTCTCAA 57.948 42.857 5.66 0.00 0.00 3.02
1887 8144 0.622136 AGCTTCCCTCATCACATGCA 59.378 50.000 0.00 0.00 0.00 3.96
1890 8147 2.719739 CTTCCCTCATCACATGCAAGT 58.280 47.619 0.00 0.00 0.00 3.16
1959 8222 3.137728 TGATGGATCTGCAGGATGAACAT 59.862 43.478 15.13 10.00 39.69 2.71
2074 8337 2.355193 GGTCCGGAGCTGCTCTCTT 61.355 63.158 26.19 0.00 41.60 2.85
2145 8408 1.207791 ATCAAATGTCGGAGCCTCCT 58.792 50.000 9.52 0.00 33.30 3.69
2189 8452 1.202818 AGAAGGTGGAGAAGTTGGTGC 60.203 52.381 0.00 0.00 0.00 5.01
2270 8536 9.868277 TCTTTACTTTGTTTGTTGATGATGTTT 57.132 25.926 0.00 0.00 0.00 2.83
2271 8537 9.904647 CTTTACTTTGTTTGTTGATGATGTTTG 57.095 29.630 0.00 0.00 0.00 2.93
2272 8538 9.645059 TTTACTTTGTTTGTTGATGATGTTTGA 57.355 25.926 0.00 0.00 0.00 2.69
2273 8539 9.814899 TTACTTTGTTTGTTGATGATGTTTGAT 57.185 25.926 0.00 0.00 0.00 2.57
2274 8540 8.133754 ACTTTGTTTGTTGATGATGTTTGATG 57.866 30.769 0.00 0.00 0.00 3.07
2275 8541 7.765360 ACTTTGTTTGTTGATGATGTTTGATGT 59.235 29.630 0.00 0.00 0.00 3.06
2335 8601 5.127845 CCACTCTGTCTCTGTTGGTGTATAT 59.872 44.000 0.00 0.00 0.00 0.86
2337 8603 5.066634 ACTCTGTCTCTGTTGGTGTATATCG 59.933 44.000 0.00 0.00 0.00 2.92
2361 8627 9.443323 TCGATAATACAAATGTTTTCCAAGAGA 57.557 29.630 0.00 0.00 0.00 3.10
2374 8640 9.739276 TGTTTTCCAAGAGATATCTTTATGTGT 57.261 29.630 6.70 0.00 0.00 3.72
2378 8644 9.739276 TTCCAAGAGATATCTTTATGTGTTTGT 57.261 29.630 6.70 0.00 0.00 2.83
2379 8645 9.739276 TCCAAGAGATATCTTTATGTGTTTGTT 57.261 29.630 6.70 0.00 0.00 2.83
2394 8660 7.443218 TGTGTTTGTTAATTCATTTGTCACG 57.557 32.000 0.00 0.00 0.00 4.35
2395 8661 7.030165 TGTGTTTGTTAATTCATTTGTCACGT 58.970 30.769 0.00 0.00 0.00 4.49
2396 8662 7.542477 TGTGTTTGTTAATTCATTTGTCACGTT 59.458 29.630 0.00 0.00 0.00 3.99
2397 8663 8.376942 GTGTTTGTTAATTCATTTGTCACGTTT 58.623 29.630 0.00 0.00 0.00 3.60
2398 8664 8.587950 TGTTTGTTAATTCATTTGTCACGTTTC 58.412 29.630 0.00 0.00 0.00 2.78
2399 8665 8.587950 GTTTGTTAATTCATTTGTCACGTTTCA 58.412 29.630 0.00 0.00 0.00 2.69
2400 8666 7.906611 TGTTAATTCATTTGTCACGTTTCAG 57.093 32.000 0.00 0.00 0.00 3.02
2401 8667 7.476667 TGTTAATTCATTTGTCACGTTTCAGT 58.523 30.769 0.00 0.00 0.00 3.41
2402 8668 8.613482 TGTTAATTCATTTGTCACGTTTCAGTA 58.387 29.630 0.00 0.00 0.00 2.74
2403 8669 9.607285 GTTAATTCATTTGTCACGTTTCAGTAT 57.393 29.630 0.00 0.00 0.00 2.12
2406 8672 6.403333 TCATTTGTCACGTTTCAGTATAGC 57.597 37.500 0.00 0.00 0.00 2.97
2407 8673 5.929415 TCATTTGTCACGTTTCAGTATAGCA 59.071 36.000 0.00 0.00 0.00 3.49
2408 8674 5.839262 TTTGTCACGTTTCAGTATAGCAG 57.161 39.130 0.00 0.00 0.00 4.24
2409 8675 4.514781 TGTCACGTTTCAGTATAGCAGT 57.485 40.909 0.00 0.00 0.00 4.40
2410 8676 4.234574 TGTCACGTTTCAGTATAGCAGTG 58.765 43.478 0.00 0.00 0.00 3.66
2411 8677 3.060895 GTCACGTTTCAGTATAGCAGTGC 59.939 47.826 7.13 7.13 0.00 4.40
2412 8678 3.056821 TCACGTTTCAGTATAGCAGTGCT 60.057 43.478 23.44 23.44 43.41 4.40
2413 8679 3.679980 CACGTTTCAGTATAGCAGTGCTT 59.320 43.478 25.23 13.49 40.44 3.91
2414 8680 3.927142 ACGTTTCAGTATAGCAGTGCTTC 59.073 43.478 25.23 14.03 40.44 3.86
2415 8681 4.177026 CGTTTCAGTATAGCAGTGCTTCT 58.823 43.478 25.23 16.05 40.44 2.85
2416 8682 4.032217 CGTTTCAGTATAGCAGTGCTTCTG 59.968 45.833 25.23 25.22 46.12 3.02
2417 8683 4.808414 TTCAGTATAGCAGTGCTTCTGT 57.192 40.909 25.23 9.87 45.23 3.41
2418 8684 4.808414 TCAGTATAGCAGTGCTTCTGTT 57.192 40.909 25.23 6.22 45.23 3.16
2419 8685 4.498241 TCAGTATAGCAGTGCTTCTGTTG 58.502 43.478 25.23 15.11 45.23 3.33
2420 8686 4.021104 TCAGTATAGCAGTGCTTCTGTTGT 60.021 41.667 25.23 0.00 45.23 3.32
2421 8687 4.692625 CAGTATAGCAGTGCTTCTGTTGTT 59.307 41.667 25.23 0.00 45.23 2.83
2422 8688 4.692625 AGTATAGCAGTGCTTCTGTTGTTG 59.307 41.667 25.23 0.00 45.23 3.33
2423 8689 2.042686 AGCAGTGCTTCTGTTGTTGA 57.957 45.000 13.14 0.00 45.23 3.18
2424 8690 2.579873 AGCAGTGCTTCTGTTGTTGAT 58.420 42.857 13.14 0.00 45.23 2.57
2425 8691 2.954318 AGCAGTGCTTCTGTTGTTGATT 59.046 40.909 13.14 0.00 45.23 2.57
2426 8692 3.004106 AGCAGTGCTTCTGTTGTTGATTC 59.996 43.478 13.14 0.00 45.23 2.52
2427 8693 3.854784 GCAGTGCTTCTGTTGTTGATTCC 60.855 47.826 8.18 0.00 45.23 3.01
2428 8694 2.549754 AGTGCTTCTGTTGTTGATTCCG 59.450 45.455 0.00 0.00 0.00 4.30
2429 8695 2.290641 GTGCTTCTGTTGTTGATTCCGT 59.709 45.455 0.00 0.00 0.00 4.69
2430 8696 3.496884 GTGCTTCTGTTGTTGATTCCGTA 59.503 43.478 0.00 0.00 0.00 4.02
2431 8697 4.154195 GTGCTTCTGTTGTTGATTCCGTAT 59.846 41.667 0.00 0.00 0.00 3.06
2432 8698 4.154015 TGCTTCTGTTGTTGATTCCGTATG 59.846 41.667 0.00 0.00 0.00 2.39
2433 8699 4.391830 GCTTCTGTTGTTGATTCCGTATGA 59.608 41.667 0.00 0.00 0.00 2.15
2434 8700 5.065218 GCTTCTGTTGTTGATTCCGTATGAT 59.935 40.000 0.00 0.00 0.00 2.45
2435 8701 6.403636 GCTTCTGTTGTTGATTCCGTATGATT 60.404 38.462 0.00 0.00 0.00 2.57
2436 8702 7.447374 TTCTGTTGTTGATTCCGTATGATTT 57.553 32.000 0.00 0.00 0.00 2.17
2437 8703 7.072177 TCTGTTGTTGATTCCGTATGATTTC 57.928 36.000 0.00 0.00 0.00 2.17
2438 8704 6.878923 TCTGTTGTTGATTCCGTATGATTTCT 59.121 34.615 0.00 0.00 0.00 2.52
2439 8705 8.038351 TCTGTTGTTGATTCCGTATGATTTCTA 58.962 33.333 0.00 0.00 0.00 2.10
2440 8706 7.970384 TGTTGTTGATTCCGTATGATTTCTAC 58.030 34.615 0.00 0.00 0.00 2.59
2441 8707 7.604545 TGTTGTTGATTCCGTATGATTTCTACA 59.395 33.333 0.00 0.00 0.00 2.74
2442 8708 8.447833 GTTGTTGATTCCGTATGATTTCTACAA 58.552 33.333 0.00 0.00 33.34 2.41
2443 8709 7.970384 TGTTGATTCCGTATGATTTCTACAAC 58.030 34.615 0.00 0.00 35.08 3.32
2444 8710 7.065324 TGTTGATTCCGTATGATTTCTACAACC 59.935 37.037 0.00 0.00 34.08 3.77
2445 8711 6.053005 TGATTCCGTATGATTTCTACAACCC 58.947 40.000 0.00 0.00 0.00 4.11
2446 8712 5.687166 TTCCGTATGATTTCTACAACCCT 57.313 39.130 0.00 0.00 0.00 4.34
2447 8713 5.018539 TCCGTATGATTTCTACAACCCTG 57.981 43.478 0.00 0.00 0.00 4.45
2448 8714 4.468510 TCCGTATGATTTCTACAACCCTGT 59.531 41.667 0.00 0.00 39.75 4.00
2449 8715 5.046159 TCCGTATGATTTCTACAACCCTGTT 60.046 40.000 0.00 0.00 36.96 3.16
2450 8716 5.064707 CCGTATGATTTCTACAACCCTGTTG 59.935 44.000 5.46 5.46 36.96 3.33
2451 8717 5.642063 CGTATGATTTCTACAACCCTGTTGT 59.358 40.000 15.96 15.96 36.96 3.32
2452 8718 6.148811 CGTATGATTTCTACAACCCTGTTGTT 59.851 38.462 16.77 0.00 36.96 2.83
2453 8719 6.575162 ATGATTTCTACAACCCTGTTGTTC 57.425 37.500 16.77 9.21 36.96 3.18
2454 8720 5.441500 TGATTTCTACAACCCTGTTGTTCA 58.558 37.500 16.77 11.39 36.96 3.18
2455 8721 5.298276 TGATTTCTACAACCCTGTTGTTCAC 59.702 40.000 16.77 5.58 36.96 3.18
2456 8722 3.916359 TCTACAACCCTGTTGTTCACA 57.084 42.857 16.77 0.00 36.96 3.58
2457 8723 3.537580 TCTACAACCCTGTTGTTCACAC 58.462 45.455 16.77 0.00 36.96 3.82
2458 8724 2.507407 ACAACCCTGTTGTTCACACT 57.493 45.000 6.78 0.00 28.57 3.55
2459 8725 2.802719 ACAACCCTGTTGTTCACACTT 58.197 42.857 6.78 0.00 28.57 3.16
2460 8726 2.491693 ACAACCCTGTTGTTCACACTTG 59.508 45.455 6.78 0.00 28.57 3.16
2461 8727 2.491693 CAACCCTGTTGTTCACACTTGT 59.508 45.455 0.00 0.00 0.00 3.16
2462 8728 3.637911 ACCCTGTTGTTCACACTTGTA 57.362 42.857 0.00 0.00 0.00 2.41
2463 8729 3.958018 ACCCTGTTGTTCACACTTGTAA 58.042 40.909 0.00 0.00 0.00 2.41
2464 8730 4.337145 ACCCTGTTGTTCACACTTGTAAA 58.663 39.130 0.00 0.00 0.00 2.01
2465 8731 4.953579 ACCCTGTTGTTCACACTTGTAAAT 59.046 37.500 0.00 0.00 0.00 1.40
2466 8732 5.420739 ACCCTGTTGTTCACACTTGTAAATT 59.579 36.000 0.00 0.00 0.00 1.82
2467 8733 5.977129 CCCTGTTGTTCACACTTGTAAATTC 59.023 40.000 0.00 0.00 0.00 2.17
2468 8734 6.183360 CCCTGTTGTTCACACTTGTAAATTCT 60.183 38.462 0.00 0.00 0.00 2.40
2469 8735 6.692681 CCTGTTGTTCACACTTGTAAATTCTG 59.307 38.462 0.00 0.00 0.00 3.02
2470 8736 7.151999 TGTTGTTCACACTTGTAAATTCTGT 57.848 32.000 0.00 0.00 0.00 3.41
2471 8737 8.270080 TGTTGTTCACACTTGTAAATTCTGTA 57.730 30.769 0.00 0.00 0.00 2.74
2472 8738 8.898761 TGTTGTTCACACTTGTAAATTCTGTAT 58.101 29.630 0.00 0.00 0.00 2.29
2473 8739 9.169468 GTTGTTCACACTTGTAAATTCTGTATG 57.831 33.333 0.00 0.00 0.00 2.39
2474 8740 8.445275 TGTTCACACTTGTAAATTCTGTATGT 57.555 30.769 0.00 0.00 0.00 2.29
2475 8741 8.898761 TGTTCACACTTGTAAATTCTGTATGTT 58.101 29.630 0.00 0.00 0.00 2.71
2490 8756 9.751542 ATTCTGTATGTTATTAGTACTCAGTGC 57.248 33.333 0.00 0.00 0.00 4.40
2491 8757 7.415229 TCTGTATGTTATTAGTACTCAGTGCG 58.585 38.462 0.00 0.00 0.00 5.34
2492 8758 7.281549 TCTGTATGTTATTAGTACTCAGTGCGA 59.718 37.037 0.00 0.00 0.00 5.10
2493 8759 7.764331 TGTATGTTATTAGTACTCAGTGCGAA 58.236 34.615 0.00 0.00 0.00 4.70
2494 8760 7.913821 TGTATGTTATTAGTACTCAGTGCGAAG 59.086 37.037 0.00 0.00 0.00 3.79
2495 8761 6.263516 TGTTATTAGTACTCAGTGCGAAGT 57.736 37.500 0.00 0.00 0.00 3.01
2496 8762 6.090783 TGTTATTAGTACTCAGTGCGAAGTG 58.909 40.000 0.00 0.00 0.00 3.16
2497 8763 6.072342 TGTTATTAGTACTCAGTGCGAAGTGA 60.072 38.462 0.00 0.00 0.00 3.41
2498 8764 5.584253 ATTAGTACTCAGTGCGAAGTGAT 57.416 39.130 0.08 0.00 0.00 3.06
2499 8765 3.944055 AGTACTCAGTGCGAAGTGATT 57.056 42.857 0.08 0.00 0.00 2.57
2500 8766 4.258702 AGTACTCAGTGCGAAGTGATTT 57.741 40.909 0.08 0.00 0.00 2.17
2501 8767 3.990469 AGTACTCAGTGCGAAGTGATTTG 59.010 43.478 0.08 0.00 0.00 2.32
2502 8768 3.111853 ACTCAGTGCGAAGTGATTTGA 57.888 42.857 0.08 0.00 0.00 2.69
2503 8769 3.668447 ACTCAGTGCGAAGTGATTTGAT 58.332 40.909 0.08 0.00 0.00 2.57
2504 8770 3.434641 ACTCAGTGCGAAGTGATTTGATG 59.565 43.478 0.08 0.00 0.00 3.07
2505 8771 3.402110 TCAGTGCGAAGTGATTTGATGT 58.598 40.909 0.00 0.00 0.00 3.06
2506 8772 3.814842 TCAGTGCGAAGTGATTTGATGTT 59.185 39.130 0.00 0.00 0.00 2.71
2507 8773 3.910170 CAGTGCGAAGTGATTTGATGTTG 59.090 43.478 0.00 0.00 0.00 3.33
2508 8774 3.058016 AGTGCGAAGTGATTTGATGTTGG 60.058 43.478 0.00 0.00 0.00 3.77
2509 8775 2.884012 TGCGAAGTGATTTGATGTTGGT 59.116 40.909 0.00 0.00 0.00 3.67
2510 8776 3.058293 TGCGAAGTGATTTGATGTTGGTC 60.058 43.478 0.00 0.00 0.00 4.02
2511 8777 3.189287 GCGAAGTGATTTGATGTTGGTCT 59.811 43.478 0.00 0.00 0.00 3.85
2512 8778 4.670221 GCGAAGTGATTTGATGTTGGTCTC 60.670 45.833 0.00 0.00 0.00 3.36
2513 8779 4.142816 CGAAGTGATTTGATGTTGGTCTCC 60.143 45.833 0.00 0.00 0.00 3.71
2514 8780 3.690460 AGTGATTTGATGTTGGTCTCCC 58.310 45.455 0.00 0.00 0.00 4.30
2515 8781 3.331889 AGTGATTTGATGTTGGTCTCCCT 59.668 43.478 0.00 0.00 0.00 4.20
2516 8782 4.082125 GTGATTTGATGTTGGTCTCCCTT 58.918 43.478 0.00 0.00 0.00 3.95
2517 8783 4.524328 GTGATTTGATGTTGGTCTCCCTTT 59.476 41.667 0.00 0.00 0.00 3.11
2518 8784 4.766891 TGATTTGATGTTGGTCTCCCTTTC 59.233 41.667 0.00 0.00 0.00 2.62
2519 8785 2.879103 TGATGTTGGTCTCCCTTTCC 57.121 50.000 0.00 0.00 0.00 3.13
2520 8786 1.354368 TGATGTTGGTCTCCCTTTCCC 59.646 52.381 0.00 0.00 0.00 3.97
2521 8787 1.636003 GATGTTGGTCTCCCTTTCCCT 59.364 52.381 0.00 0.00 0.00 4.20
2522 8788 2.426431 TGTTGGTCTCCCTTTCCCTA 57.574 50.000 0.00 0.00 0.00 3.53
2523 8789 1.982958 TGTTGGTCTCCCTTTCCCTAC 59.017 52.381 0.00 0.00 0.00 3.18
2524 8790 2.267192 GTTGGTCTCCCTTTCCCTACT 58.733 52.381 0.00 0.00 0.00 2.57
2525 8791 3.181404 TGTTGGTCTCCCTTTCCCTACTA 60.181 47.826 0.00 0.00 0.00 1.82
2526 8792 3.111741 TGGTCTCCCTTTCCCTACTAC 57.888 52.381 0.00 0.00 0.00 2.73
2527 8793 2.292719 TGGTCTCCCTTTCCCTACTACC 60.293 54.545 0.00 0.00 0.00 3.18
2528 8794 2.292719 GGTCTCCCTTTCCCTACTACCA 60.293 54.545 0.00 0.00 0.00 3.25
2529 8795 3.447950 GTCTCCCTTTCCCTACTACCAA 58.552 50.000 0.00 0.00 0.00 3.67
2530 8796 3.197333 GTCTCCCTTTCCCTACTACCAAC 59.803 52.174 0.00 0.00 0.00 3.77
2531 8797 3.078612 TCTCCCTTTCCCTACTACCAACT 59.921 47.826 0.00 0.00 0.00 3.16
2532 8798 3.178865 TCCCTTTCCCTACTACCAACTG 58.821 50.000 0.00 0.00 0.00 3.16
2533 8799 2.238898 CCCTTTCCCTACTACCAACTGG 59.761 54.545 0.00 0.00 42.17 4.00
2556 8822 6.101150 TGGTACTACATGAAGGAAATATGCCT 59.899 38.462 0.00 0.00 37.35 4.75
2767 9035 6.742718 GTGTTGTCATTTGATTAACAGGATCG 59.257 38.462 11.29 0.00 35.88 3.69
2903 9171 5.680619 TGAGATTATGCAACTCCCGTTTAT 58.319 37.500 0.00 0.00 0.00 1.40
3017 9287 4.807304 TGGCGTAATTCGAGATTAGGTTTC 59.193 41.667 15.13 9.69 42.86 2.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 2.620115 GTGACCATGCCACTGATAATGG 59.380 50.000 8.63 0.00 44.31 3.16
47 48 2.159627 CGTGGCTTATTCCAACAGTGAC 59.840 50.000 0.00 0.00 37.96 3.67
48 49 2.422597 CGTGGCTTATTCCAACAGTGA 58.577 47.619 0.00 0.00 37.96 3.41
49 50 1.468520 CCGTGGCTTATTCCAACAGTG 59.531 52.381 0.00 0.00 37.96 3.66
50 51 1.821216 CCGTGGCTTATTCCAACAGT 58.179 50.000 0.00 0.00 37.96 3.55
215 4880 4.980434 ACTGCTACAAGTAAACACACTACG 59.020 41.667 0.00 0.00 0.00 3.51
264 4929 2.288763 ACTATCACGTCACACACATGCA 60.289 45.455 0.00 0.00 0.00 3.96
315 4980 2.186903 GCCGCTAACAGCCTGCTA 59.813 61.111 0.00 0.00 38.18 3.49
701 6927 1.880340 CTTCGCGTGGATGGAGAGC 60.880 63.158 5.77 0.00 0.00 4.09
730 6956 1.674322 CCCCGGATGACGCAAAACT 60.674 57.895 0.73 0.00 42.52 2.66
731 6957 2.696759 CCCCCGGATGACGCAAAAC 61.697 63.158 0.73 0.00 42.52 2.43
738 6964 0.682855 TGCAAAATCCCCCGGATGAC 60.683 55.000 0.73 0.00 42.27 3.06
740 6966 1.122227 AATGCAAAATCCCCCGGATG 58.878 50.000 0.73 0.00 42.27 3.51
741 6967 1.762370 GAAATGCAAAATCCCCCGGAT 59.238 47.619 0.73 0.00 45.46 4.18
743 6969 0.177836 GGAAATGCAAAATCCCCCGG 59.822 55.000 0.00 0.00 0.00 5.73
745 6971 3.264193 AGAAAGGAAATGCAAAATCCCCC 59.736 43.478 11.05 3.14 33.55 5.40
752 6978 5.128499 TCAGAACCAAGAAAGGAAATGCAAA 59.872 36.000 0.00 0.00 0.00 3.68
753 6979 4.648762 TCAGAACCAAGAAAGGAAATGCAA 59.351 37.500 0.00 0.00 0.00 4.08
763 6989 6.537453 TTTGGACAATTCAGAACCAAGAAA 57.463 33.333 0.00 0.00 40.80 2.52
771 6997 3.218453 TCCGCTTTTGGACAATTCAGAA 58.782 40.909 0.00 0.00 31.53 3.02
793 7019 2.097038 CCGCTGCTTCTTCCTGTCG 61.097 63.158 0.00 0.00 0.00 4.35
798 7024 0.247736 TCTCTTCCGCTGCTTCTTCC 59.752 55.000 0.00 0.00 0.00 3.46
810 7036 1.208293 AGCGGAATGTCCTTCTCTTCC 59.792 52.381 0.00 0.00 33.30 3.46
862 7088 0.030101 GCTAGCTCTGACCGCAGTAG 59.970 60.000 7.70 0.00 42.84 2.57
869 7095 0.174617 GTCACTGGCTAGCTCTGACC 59.825 60.000 15.72 0.00 0.00 4.02
888 7114 2.868899 AGTTCTTGGGCTTTCTCTTGG 58.131 47.619 0.00 0.00 0.00 3.61
901 7127 5.755375 TCACAGACTTCAAAGCTAGTTCTTG 59.245 40.000 0.00 0.00 0.00 3.02
914 7140 1.866601 CATGCGTTGTCACAGACTTCA 59.133 47.619 0.00 0.00 33.15 3.02
918 7144 1.207593 GGCATGCGTTGTCACAGAC 59.792 57.895 12.44 0.00 0.00 3.51
923 7149 2.594013 TGCTGGCATGCGTTGTCA 60.594 55.556 12.44 2.25 37.70 3.58
938 7167 3.502595 TGATATGTCTACGAGTAGCCTGC 59.497 47.826 5.44 0.00 33.32 4.85
948 7177 7.441890 AGAGTATGGAGTTGATATGTCTACG 57.558 40.000 0.00 0.00 35.61 3.51
1012 7241 0.244450 AGGAAATGTGCATGTTGGCG 59.756 50.000 0.00 0.00 36.28 5.69
1028 7263 3.773667 ACTGATGCTGAATTCTGAGAGGA 59.226 43.478 15.79 2.00 0.00 3.71
1030 7265 5.411977 ACAAACTGATGCTGAATTCTGAGAG 59.588 40.000 15.79 1.52 0.00 3.20
1040 7275 4.220382 CCCCAAATAACAAACTGATGCTGA 59.780 41.667 0.00 0.00 0.00 4.26
1045 7280 4.677182 AGCTCCCCAAATAACAAACTGAT 58.323 39.130 0.00 0.00 0.00 2.90
1052 7287 3.585289 TGTGTAGAGCTCCCCAAATAACA 59.415 43.478 10.93 1.51 0.00 2.41
1078 7313 5.171339 AGGCCGCTGATTATCATCTTTAT 57.829 39.130 0.00 0.00 0.00 1.40
1147 7382 2.425683 GGCTAGTGGAGAAGAGGAGGAT 60.426 54.545 0.00 0.00 0.00 3.24
1150 7385 1.754226 GTGGCTAGTGGAGAAGAGGAG 59.246 57.143 0.00 0.00 0.00 3.69
1248 7493 0.603707 CAGGACCGAGCAAGAGCAAA 60.604 55.000 0.00 0.00 45.49 3.68
1274 7519 3.094572 ACCTTGATGAATCCAAAGCCTG 58.905 45.455 0.00 0.00 0.00 4.85
1321 7569 1.576356 GGCCTCTTCTTACGAGCATG 58.424 55.000 0.00 0.00 0.00 4.06
1408 7656 2.305927 AGGAATCAGATGGTCCGTGTTT 59.694 45.455 0.00 0.00 36.49 2.83
1511 7759 0.467290 GCCCCTGTGGTTGTTGAAGA 60.467 55.000 0.00 0.00 36.04 2.87
1512 7760 1.795170 CGCCCCTGTGGTTGTTGAAG 61.795 60.000 0.00 0.00 36.04 3.02
1737 7985 0.179065 TCCCAAGCATCAGCATCTCG 60.179 55.000 0.00 0.00 45.49 4.04
1775 8023 1.805943 CGACATCATCACAAGCAACCA 59.194 47.619 0.00 0.00 0.00 3.67
1776 8024 2.076100 TCGACATCATCACAAGCAACC 58.924 47.619 0.00 0.00 0.00 3.77
1782 8030 3.192466 CATGAGCTCGACATCATCACAA 58.808 45.455 9.64 0.00 33.91 3.33
1822 8070 2.675317 GCGCAAGACCTCTTACATCTGT 60.675 50.000 0.30 0.00 43.02 3.41
1824 8072 1.550524 TGCGCAAGACCTCTTACATCT 59.449 47.619 8.16 0.00 43.02 2.90
1859 8110 3.909086 GAGGGAAGCTGTTGCGCCT 62.909 63.158 4.18 0.00 45.42 5.52
1887 8144 4.324331 GGGACCAAAGCTCCTATGTTACTT 60.324 45.833 0.00 0.00 0.00 2.24
1890 8147 3.926058 GGGACCAAAGCTCCTATGTTA 57.074 47.619 0.00 0.00 0.00 2.41
1935 8195 3.487120 TCATCCTGCAGATCCATCAAG 57.513 47.619 17.39 0.00 30.59 3.02
1959 8222 0.909610 GGATCACCTCCCACCTCACA 60.910 60.000 0.00 0.00 38.19 3.58
2074 8337 4.614475 AGTGACAAGAGGATCCAGACATA 58.386 43.478 15.82 0.00 33.66 2.29
2132 8395 1.671742 GTTTCAGGAGGCTCCGACA 59.328 57.895 27.11 17.03 42.75 4.35
2145 8408 4.166144 ACCTCTTCTTCTTCCTTGGTTTCA 59.834 41.667 0.00 0.00 0.00 2.69
2189 8452 1.814634 GCTGGATGGATCTGCCTTCAG 60.815 57.143 0.00 0.00 41.44 3.02
2242 8508 9.683069 ACATCATCAACAAACAAAGTAAAGATC 57.317 29.630 0.00 0.00 0.00 2.75
2270 8536 9.853555 AAATGAAAACATAAAAGCGATACATCA 57.146 25.926 0.00 0.00 0.00 3.07
2335 8601 9.443323 TCTCTTGGAAAACATTTGTATTATCGA 57.557 29.630 0.00 0.00 0.00 3.59
2368 8634 9.175060 CGTGACAAATGAATTAACAAACACATA 57.825 29.630 0.00 0.00 0.00 2.29
2369 8635 7.704472 ACGTGACAAATGAATTAACAAACACAT 59.296 29.630 0.00 0.00 0.00 3.21
2370 8636 7.030165 ACGTGACAAATGAATTAACAAACACA 58.970 30.769 0.00 0.00 0.00 3.72
2371 8637 7.444558 ACGTGACAAATGAATTAACAAACAC 57.555 32.000 0.00 0.00 0.00 3.32
2372 8638 8.467402 AAACGTGACAAATGAATTAACAAACA 57.533 26.923 0.00 0.00 0.00 2.83
2373 8639 8.587950 TGAAACGTGACAAATGAATTAACAAAC 58.412 29.630 0.00 0.00 0.00 2.93
2374 8640 8.689251 TGAAACGTGACAAATGAATTAACAAA 57.311 26.923 0.00 0.00 0.00 2.83
2375 8641 7.971168 ACTGAAACGTGACAAATGAATTAACAA 59.029 29.630 0.00 0.00 0.00 2.83
2376 8642 7.476667 ACTGAAACGTGACAAATGAATTAACA 58.523 30.769 0.00 0.00 0.00 2.41
2377 8643 7.908193 ACTGAAACGTGACAAATGAATTAAC 57.092 32.000 0.00 0.00 0.00 2.01
2380 8646 7.962918 GCTATACTGAAACGTGACAAATGAATT 59.037 33.333 0.00 0.00 0.00 2.17
2381 8647 7.119116 TGCTATACTGAAACGTGACAAATGAAT 59.881 33.333 0.00 0.00 0.00 2.57
2382 8648 6.425417 TGCTATACTGAAACGTGACAAATGAA 59.575 34.615 0.00 0.00 0.00 2.57
2383 8649 5.929415 TGCTATACTGAAACGTGACAAATGA 59.071 36.000 0.00 0.00 0.00 2.57
2384 8650 6.128553 ACTGCTATACTGAAACGTGACAAATG 60.129 38.462 0.00 0.00 0.00 2.32
2385 8651 5.932303 ACTGCTATACTGAAACGTGACAAAT 59.068 36.000 0.00 0.00 0.00 2.32
2386 8652 5.176774 CACTGCTATACTGAAACGTGACAAA 59.823 40.000 0.00 0.00 0.00 2.83
2387 8653 4.684242 CACTGCTATACTGAAACGTGACAA 59.316 41.667 0.00 0.00 0.00 3.18
2388 8654 4.234574 CACTGCTATACTGAAACGTGACA 58.765 43.478 0.00 0.00 0.00 3.58
2389 8655 3.060895 GCACTGCTATACTGAAACGTGAC 59.939 47.826 0.00 0.00 0.00 3.67
2390 8656 3.056821 AGCACTGCTATACTGAAACGTGA 60.057 43.478 0.21 0.00 36.99 4.35
2391 8657 3.254060 AGCACTGCTATACTGAAACGTG 58.746 45.455 0.21 0.00 36.99 4.49
2392 8658 3.594603 AGCACTGCTATACTGAAACGT 57.405 42.857 0.21 0.00 36.99 3.99
2393 8659 4.032217 CAGAAGCACTGCTATACTGAAACG 59.968 45.833 19.40 0.00 38.25 3.60
2394 8660 5.462034 CAGAAGCACTGCTATACTGAAAC 57.538 43.478 19.40 1.41 38.25 2.78
2407 8673 2.549754 CGGAATCAACAACAGAAGCACT 59.450 45.455 0.00 0.00 0.00 4.40
2408 8674 2.290641 ACGGAATCAACAACAGAAGCAC 59.709 45.455 0.00 0.00 0.00 4.40
2409 8675 2.571212 ACGGAATCAACAACAGAAGCA 58.429 42.857 0.00 0.00 0.00 3.91
2410 8676 4.391830 TCATACGGAATCAACAACAGAAGC 59.608 41.667 0.00 0.00 0.00 3.86
2411 8677 6.668541 ATCATACGGAATCAACAACAGAAG 57.331 37.500 0.00 0.00 0.00 2.85
2412 8678 7.390440 AGAAATCATACGGAATCAACAACAGAA 59.610 33.333 0.00 0.00 0.00 3.02
2413 8679 6.878923 AGAAATCATACGGAATCAACAACAGA 59.121 34.615 0.00 0.00 0.00 3.41
2414 8680 7.076842 AGAAATCATACGGAATCAACAACAG 57.923 36.000 0.00 0.00 0.00 3.16
2415 8681 7.604545 TGTAGAAATCATACGGAATCAACAACA 59.395 33.333 0.00 0.00 0.00 3.33
2416 8682 7.970384 TGTAGAAATCATACGGAATCAACAAC 58.030 34.615 0.00 0.00 0.00 3.32
2417 8683 8.447833 GTTGTAGAAATCATACGGAATCAACAA 58.552 33.333 0.00 0.00 33.18 2.83
2418 8684 7.065324 GGTTGTAGAAATCATACGGAATCAACA 59.935 37.037 0.00 0.00 34.14 3.33
2419 8685 7.407337 GGTTGTAGAAATCATACGGAATCAAC 58.593 38.462 0.00 0.00 0.00 3.18
2420 8686 6.540914 GGGTTGTAGAAATCATACGGAATCAA 59.459 38.462 0.00 0.00 0.00 2.57
2421 8687 6.053005 GGGTTGTAGAAATCATACGGAATCA 58.947 40.000 0.00 0.00 0.00 2.57
2422 8688 6.202954 CAGGGTTGTAGAAATCATACGGAATC 59.797 42.308 0.00 0.00 0.00 2.52
2423 8689 6.055588 CAGGGTTGTAGAAATCATACGGAAT 58.944 40.000 0.00 0.00 0.00 3.01
2424 8690 5.046159 ACAGGGTTGTAGAAATCATACGGAA 60.046 40.000 0.00 0.00 35.25 4.30
2425 8691 4.468510 ACAGGGTTGTAGAAATCATACGGA 59.531 41.667 0.00 0.00 35.25 4.69
2426 8692 4.766375 ACAGGGTTGTAGAAATCATACGG 58.234 43.478 0.00 0.00 35.25 4.02
2427 8693 5.642063 ACAACAGGGTTGTAGAAATCATACG 59.358 40.000 12.64 0.00 36.23 3.06
2428 8694 7.174253 TGAACAACAGGGTTGTAGAAATCATAC 59.826 37.037 14.40 0.00 36.23 2.39
2429 8695 7.174253 GTGAACAACAGGGTTGTAGAAATCATA 59.826 37.037 14.40 0.00 36.23 2.15
2430 8696 6.016276 GTGAACAACAGGGTTGTAGAAATCAT 60.016 38.462 14.40 0.00 36.23 2.45
2431 8697 5.298276 GTGAACAACAGGGTTGTAGAAATCA 59.702 40.000 14.40 11.15 36.23 2.57
2432 8698 5.298276 TGTGAACAACAGGGTTGTAGAAATC 59.702 40.000 14.40 8.97 36.23 2.17
2433 8699 5.067283 GTGTGAACAACAGGGTTGTAGAAAT 59.933 40.000 14.40 0.00 40.26 2.17
2434 8700 4.396790 GTGTGAACAACAGGGTTGTAGAAA 59.603 41.667 14.40 0.00 40.26 2.52
2435 8701 3.942748 GTGTGAACAACAGGGTTGTAGAA 59.057 43.478 14.40 2.09 40.26 2.10
2436 8702 3.199071 AGTGTGAACAACAGGGTTGTAGA 59.801 43.478 14.40 2.73 40.26 2.59
2437 8703 3.541632 AGTGTGAACAACAGGGTTGTAG 58.458 45.455 14.40 0.00 40.26 2.74
2438 8704 3.637911 AGTGTGAACAACAGGGTTGTA 57.362 42.857 14.40 0.00 40.26 2.41
2439 8705 2.491693 CAAGTGTGAACAACAGGGTTGT 59.508 45.455 8.82 8.82 40.26 3.32
2440 8706 2.491693 ACAAGTGTGAACAACAGGGTTG 59.508 45.455 7.51 7.51 40.26 3.77
2441 8707 2.802719 ACAAGTGTGAACAACAGGGTT 58.197 42.857 0.00 0.00 40.26 4.11
2442 8708 2.507407 ACAAGTGTGAACAACAGGGT 57.493 45.000 0.00 0.00 40.26 4.34
2443 8709 4.974368 TTTACAAGTGTGAACAACAGGG 57.026 40.909 0.00 0.00 40.26 4.45
2444 8710 6.692681 CAGAATTTACAAGTGTGAACAACAGG 59.307 38.462 0.00 0.00 40.26 4.00
2445 8711 7.250569 ACAGAATTTACAAGTGTGAACAACAG 58.749 34.615 0.00 0.00 40.26 3.16
2446 8712 7.151999 ACAGAATTTACAAGTGTGAACAACA 57.848 32.000 0.00 0.00 36.04 3.33
2447 8713 9.169468 CATACAGAATTTACAAGTGTGAACAAC 57.831 33.333 0.00 0.00 0.00 3.32
2448 8714 8.898761 ACATACAGAATTTACAAGTGTGAACAA 58.101 29.630 0.00 0.00 0.00 2.83
2449 8715 8.445275 ACATACAGAATTTACAAGTGTGAACA 57.555 30.769 0.00 0.00 0.00 3.18
2464 8730 9.751542 GCACTGAGTACTAATAACATACAGAAT 57.248 33.333 0.00 0.00 0.00 2.40
2465 8731 7.913821 CGCACTGAGTACTAATAACATACAGAA 59.086 37.037 0.00 0.00 0.00 3.02
2466 8732 7.281549 TCGCACTGAGTACTAATAACATACAGA 59.718 37.037 0.00 0.00 0.00 3.41
2467 8733 7.415229 TCGCACTGAGTACTAATAACATACAG 58.585 38.462 0.00 0.00 0.00 2.74
2468 8734 7.324354 TCGCACTGAGTACTAATAACATACA 57.676 36.000 0.00 0.00 0.00 2.29
2469 8735 7.914346 ACTTCGCACTGAGTACTAATAACATAC 59.086 37.037 0.00 0.00 0.00 2.39
2470 8736 7.913821 CACTTCGCACTGAGTACTAATAACATA 59.086 37.037 0.00 0.00 0.00 2.29
2471 8737 6.752351 CACTTCGCACTGAGTACTAATAACAT 59.248 38.462 0.00 0.00 0.00 2.71
2472 8738 6.072342 TCACTTCGCACTGAGTACTAATAACA 60.072 38.462 0.00 0.00 0.00 2.41
2473 8739 6.320171 TCACTTCGCACTGAGTACTAATAAC 58.680 40.000 0.00 0.00 0.00 1.89
2474 8740 6.505044 TCACTTCGCACTGAGTACTAATAA 57.495 37.500 0.00 0.00 0.00 1.40
2475 8741 6.694877 ATCACTTCGCACTGAGTACTAATA 57.305 37.500 0.00 0.00 0.00 0.98
2476 8742 5.584253 ATCACTTCGCACTGAGTACTAAT 57.416 39.130 0.00 0.00 0.00 1.73
2477 8743 5.386958 AATCACTTCGCACTGAGTACTAA 57.613 39.130 0.00 0.00 0.00 2.24
2478 8744 5.048294 TCAAATCACTTCGCACTGAGTACTA 60.048 40.000 0.00 0.00 0.00 1.82
2479 8745 3.944055 AATCACTTCGCACTGAGTACT 57.056 42.857 0.00 0.00 0.00 2.73
2480 8746 3.987868 TCAAATCACTTCGCACTGAGTAC 59.012 43.478 0.00 0.00 0.00 2.73
2481 8747 4.251543 TCAAATCACTTCGCACTGAGTA 57.748 40.909 0.00 0.00 0.00 2.59
2482 8748 3.111853 TCAAATCACTTCGCACTGAGT 57.888 42.857 0.00 0.00 0.00 3.41
2483 8749 3.434641 ACATCAAATCACTTCGCACTGAG 59.565 43.478 0.00 0.00 0.00 3.35
2484 8750 3.402110 ACATCAAATCACTTCGCACTGA 58.598 40.909 0.00 0.00 0.00 3.41
2485 8751 3.818961 ACATCAAATCACTTCGCACTG 57.181 42.857 0.00 0.00 0.00 3.66
2486 8752 3.058016 CCAACATCAAATCACTTCGCACT 60.058 43.478 0.00 0.00 0.00 4.40
2487 8753 3.236816 CCAACATCAAATCACTTCGCAC 58.763 45.455 0.00 0.00 0.00 5.34
2488 8754 2.884012 ACCAACATCAAATCACTTCGCA 59.116 40.909 0.00 0.00 0.00 5.10
2489 8755 3.189287 AGACCAACATCAAATCACTTCGC 59.811 43.478 0.00 0.00 0.00 4.70
2490 8756 4.142816 GGAGACCAACATCAAATCACTTCG 60.143 45.833 0.00 0.00 0.00 3.79
2491 8757 5.302357 GGAGACCAACATCAAATCACTTC 57.698 43.478 0.00 0.00 0.00 3.01
2508 8774 3.111741 TGGTAGTAGGGAAAGGGAGAC 57.888 52.381 0.00 0.00 0.00 3.36
2509 8775 3.078612 AGTTGGTAGTAGGGAAAGGGAGA 59.921 47.826 0.00 0.00 0.00 3.71
2510 8776 3.197983 CAGTTGGTAGTAGGGAAAGGGAG 59.802 52.174 0.00 0.00 0.00 4.30
2511 8777 3.178865 CAGTTGGTAGTAGGGAAAGGGA 58.821 50.000 0.00 0.00 0.00 4.20
2512 8778 2.238898 CCAGTTGGTAGTAGGGAAAGGG 59.761 54.545 0.00 0.00 0.00 3.95
2513 8779 3.629142 CCAGTTGGTAGTAGGGAAAGG 57.371 52.381 0.00 0.00 0.00 3.11
2526 8792 4.819105 TCCTTCATGTAGTACCAGTTGG 57.181 45.455 0.00 0.00 42.17 3.77
2527 8793 8.830580 CATATTTCCTTCATGTAGTACCAGTTG 58.169 37.037 0.00 0.00 0.00 3.16
2528 8794 7.499232 GCATATTTCCTTCATGTAGTACCAGTT 59.501 37.037 0.00 0.00 0.00 3.16
2529 8795 6.992715 GCATATTTCCTTCATGTAGTACCAGT 59.007 38.462 0.00 0.00 0.00 4.00
2530 8796 6.428159 GGCATATTTCCTTCATGTAGTACCAG 59.572 42.308 0.00 0.00 0.00 4.00
2531 8797 6.101150 AGGCATATTTCCTTCATGTAGTACCA 59.899 38.462 0.00 0.00 0.00 3.25
2532 8798 6.534634 AGGCATATTTCCTTCATGTAGTACC 58.465 40.000 0.00 0.00 0.00 3.34
2533 8799 9.209175 CTAAGGCATATTTCCTTCATGTAGTAC 57.791 37.037 8.83 0.00 42.57 2.73
2534 8800 9.154632 TCTAAGGCATATTTCCTTCATGTAGTA 57.845 33.333 8.83 0.00 42.57 1.82
2535 8801 8.034313 TCTAAGGCATATTTCCTTCATGTAGT 57.966 34.615 8.83 0.00 42.57 2.73
2536 8802 7.605691 CCTCTAAGGCATATTTCCTTCATGTAG 59.394 40.741 8.83 0.00 42.57 2.74
2537 8803 7.453393 CCTCTAAGGCATATTTCCTTCATGTA 58.547 38.462 8.83 0.00 42.57 2.29
2787 9055 2.305927 ACGGAATGGGTCAAGTCAATCT 59.694 45.455 0.00 0.00 0.00 2.40
2903 9171 1.948104 CACACAAAGTGTTCCTCCGA 58.052 50.000 0.00 0.00 45.08 4.55


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

AutoCloner maintained by Alex Coulton.