Multiple sequence alignment - TraesCS5B01G009400

Loading Multiple Alignment...

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 TraesCS5B01G009400 chr5B 100.000 3858 0 0 1 3858 9335722 9331865 0.000000e+00 7125.0
1 TraesCS5B01G009400 chr5B 88.973 1460 129 14 1309 2749 9417060 9418506 0.000000e+00 1775.0
2 TraesCS5B01G009400 chr5D 91.268 1901 112 24 943 2818 9387466 9385595 0.000000e+00 2542.0
3 TraesCS5B01G009400 chr5D 89.567 1409 123 9 1309 2699 9471139 9472541 0.000000e+00 1766.0
4 TraesCS5B01G009400 chr5D 91.793 792 59 5 3071 3858 115429905 115429116 0.000000e+00 1098.0
5 TraesCS5B01G009400 chr5D 86.050 681 65 10 1 672 9390296 9389637 0.000000e+00 704.0
6 TraesCS5B01G009400 chr5D 92.093 215 14 1 669 883 9388114 9387903 2.250000e-77 300.0
7 TraesCS5B01G009400 chr5D 100.000 67 0 0 881 947 9387643 9387577 1.460000e-24 124.0
8 TraesCS5B01G009400 chr5A 88.323 2021 134 49 896 2856 7506638 7504660 0.000000e+00 2331.0
9 TraesCS5B01G009400 chr5A 87.910 1464 140 18 1309 2749 7619384 7620833 0.000000e+00 1688.0
10 TraesCS5B01G009400 chr5A 84.244 476 34 16 1 471 7514148 7513709 3.560000e-115 425.0
11 TraesCS5B01G009400 chr5A 93.897 213 13 0 460 672 7510305 7510093 4.810000e-84 322.0
12 TraesCS5B01G009400 chr5A 91.589 214 18 0 669 882 7507169 7506956 2.910000e-76 296.0
13 TraesCS5B01G009400 chr1B 92.395 789 54 4 3071 3858 148515428 148514645 0.000000e+00 1120.0
14 TraesCS5B01G009400 chr1B 91.667 792 60 5 3071 3858 445830862 445830073 0.000000e+00 1092.0
15 TraesCS5B01G009400 chr1B 85.000 200 27 3 128 325 529279728 529279530 2.350000e-47 200.0
16 TraesCS5B01G009400 chr7D 92.269 789 59 2 3071 3858 403448955 403449742 0.000000e+00 1118.0
17 TraesCS5B01G009400 chr7D 73.932 1358 290 40 1383 2696 4877377 4878714 4.480000e-134 488.0
18 TraesCS5B01G009400 chr7D 84.500 200 26 5 143 338 402325361 402325559 3.930000e-45 193.0
19 TraesCS5B01G009400 chr3B 92.172 792 56 5 3071 3858 526905461 526904672 0.000000e+00 1114.0
20 TraesCS5B01G009400 chr3B 73.593 462 104 14 1311 1757 807374281 807373823 1.110000e-35 161.0
21 TraesCS5B01G009400 chr7B 91.762 789 63 2 3071 3858 448583970 448584757 0.000000e+00 1096.0
22 TraesCS5B01G009400 chr7B 82.906 234 32 7 109 337 610486403 610486633 1.820000e-48 204.0
23 TraesCS5B01G009400 chr7B 75.524 429 79 13 1348 1757 600597281 600596860 1.830000e-43 187.0
24 TraesCS5B01G009400 chr7B 81.132 106 19 1 1876 1980 140163985 140164090 2.470000e-12 84.2
25 TraesCS5B01G009400 chr4A 91.772 790 61 4 3071 3858 615462930 615462143 0.000000e+00 1096.0
26 TraesCS5B01G009400 chr4A 75.708 848 173 19 1383 2203 738815419 738816260 1.000000e-105 394.0
27 TraesCS5B01G009400 chr4A 86.036 222 28 3 120 338 742356864 742356643 6.440000e-58 235.0
28 TraesCS5B01G009400 chr2B 91.762 789 63 2 3071 3858 534191838 534192625 0.000000e+00 1096.0
29 TraesCS5B01G009400 chr2B 82.979 235 32 7 109 338 507435978 507435747 5.050000e-49 206.0
30 TraesCS5B01G009400 chr1D 91.656 791 60 6 3071 3858 477295768 477296555 0.000000e+00 1090.0
31 TraesCS5B01G009400 chr7A 74.172 1359 289 42 1384 2699 4687629 4686290 3.440000e-140 508.0
32 TraesCS5B01G009400 chr3A 83.843 229 31 6 120 346 717947551 717947775 3.020000e-51 213.0
33 TraesCS5B01G009400 chr6D 85.024 207 29 2 120 324 376045911 376045705 3.910000e-50 209.0
34 TraesCS5B01G009400 chr6A 81.250 224 36 5 120 338 402663656 402663434 3.960000e-40 176.0
35 TraesCS5B01G009400 chr3D 74.408 422 90 13 1351 1757 600188730 600188312 8.570000e-37 165.0
36 TraesCS5B01G009400 chrUn 76.804 194 30 13 1690 1874 423714644 423714457 1.140000e-15 95.3
37 TraesCS5B01G009400 chrUn 76.804 194 30 13 1690 1874 429804082 429803895 1.140000e-15 95.3


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 TraesCS5B01G009400 chr5B 9331865 9335722 3857 True 7125.0 7125 100.00000 1 3858 1 chr5B.!!$R1 3857
1 TraesCS5B01G009400 chr5B 9417060 9418506 1446 False 1775.0 1775 88.97300 1309 2749 1 chr5B.!!$F1 1440
2 TraesCS5B01G009400 chr5D 9471139 9472541 1402 False 1766.0 1766 89.56700 1309 2699 1 chr5D.!!$F1 1390
3 TraesCS5B01G009400 chr5D 115429116 115429905 789 True 1098.0 1098 91.79300 3071 3858 1 chr5D.!!$R1 787
4 TraesCS5B01G009400 chr5D 9385595 9390296 4701 True 917.5 2542 92.35275 1 2818 4 chr5D.!!$R2 2817
5 TraesCS5B01G009400 chr5A 7619384 7620833 1449 False 1688.0 1688 87.91000 1309 2749 1 chr5A.!!$F1 1440
6 TraesCS5B01G009400 chr5A 7504660 7514148 9488 True 843.5 2331 89.51325 1 2856 4 chr5A.!!$R1 2855
7 TraesCS5B01G009400 chr1B 148514645 148515428 783 True 1120.0 1120 92.39500 3071 3858 1 chr1B.!!$R1 787
8 TraesCS5B01G009400 chr1B 445830073 445830862 789 True 1092.0 1092 91.66700 3071 3858 1 chr1B.!!$R2 787
9 TraesCS5B01G009400 chr7D 403448955 403449742 787 False 1118.0 1118 92.26900 3071 3858 1 chr7D.!!$F3 787
10 TraesCS5B01G009400 chr7D 4877377 4878714 1337 False 488.0 488 73.93200 1383 2696 1 chr7D.!!$F1 1313
11 TraesCS5B01G009400 chr3B 526904672 526905461 789 True 1114.0 1114 92.17200 3071 3858 1 chr3B.!!$R1 787
12 TraesCS5B01G009400 chr7B 448583970 448584757 787 False 1096.0 1096 91.76200 3071 3858 1 chr7B.!!$F2 787
13 TraesCS5B01G009400 chr4A 615462143 615462930 787 True 1096.0 1096 91.77200 3071 3858 1 chr4A.!!$R1 787
14 TraesCS5B01G009400 chr4A 738815419 738816260 841 False 394.0 394 75.70800 1383 2203 1 chr4A.!!$F1 820
15 TraesCS5B01G009400 chr2B 534191838 534192625 787 False 1096.0 1096 91.76200 3071 3858 1 chr2B.!!$F1 787
16 TraesCS5B01G009400 chr1D 477295768 477296555 787 False 1090.0 1090 91.65600 3071 3858 1 chr1D.!!$F1 787
17 TraesCS5B01G009400 chr7A 4686290 4687629 1339 True 508.0 508 74.17200 1384 2699 1 chr7A.!!$R1 1315

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
48 49 1.004745 ACAGTTGTAATGGGAGGCAGG 59.995 52.381 0.00 0.0 0.00 4.85 F
681 7434 1.297689 CACTAGCCTTGCCTGCTCA 59.702 57.895 0.00 0.0 40.23 4.26 F
1512 8743 0.250901 GAAGAAGGCCCTGCAGTTCA 60.251 55.000 13.81 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1046 8254 0.038251 CTGTCTGCCTGTCGCTTGTA 60.038 55.0 0.00 0.0 38.78 2.41 R
2501 9762 0.610687 GCTGGTTGTAGAGCTCCTGT 59.389 55.0 10.93 0.0 32.12 4.00 R
3068 10355 0.171007 AATCTCGTGGGCGCAAAATG 59.829 50.0 10.83 0.0 38.14 2.32 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
48 49 1.004745 ACAGTTGTAATGGGAGGCAGG 59.995 52.381 0.00 0.00 0.00 4.85
92 95 1.610886 GCCCTTGAGCGTAGGTTTTCT 60.611 52.381 0.00 0.00 39.88 2.52
113 118 9.435570 TTTTCTCCCAGCTATTACTTATACTCT 57.564 33.333 0.00 0.00 0.00 3.24
116 121 7.885922 TCTCCCAGCTATTACTTATACTCTCTG 59.114 40.741 0.00 0.00 0.00 3.35
118 123 8.666821 TCCCAGCTATTACTTATACTCTCTGTA 58.333 37.037 0.00 0.00 35.37 2.74
141 146 9.090692 TGTAGTCCTTTTTACTTCGCATATTAC 57.909 33.333 0.00 0.00 0.00 1.89
146 151 9.997482 TCCTTTTTACTTCGCATATTACATTTC 57.003 29.630 0.00 0.00 0.00 2.17
167 172 9.352784 CATTTCTGTCAAGTCAAACTTTGTAAA 57.647 29.630 1.44 0.00 36.03 2.01
168 173 8.964420 TTTCTGTCAAGTCAAACTTTGTAAAG 57.036 30.769 2.94 2.94 36.03 1.85
312 326 7.766219 TTCTACAAGTGTTGTGAAAGTAGAC 57.234 36.000 2.50 0.00 45.03 2.59
313 327 7.108841 TCTACAAGTGTTGTGAAAGTAGACT 57.891 36.000 2.50 0.00 45.03 3.24
385 405 8.052748 ACTTAGATAGATTTTTGTATGTGCCCA 58.947 33.333 0.00 0.00 0.00 5.36
425 446 4.023291 ACAACCAAACAGGACAAGTGAAT 58.977 39.130 0.00 0.00 41.22 2.57
549 3984 2.865119 ACTCCAATGCTCATGTGTCA 57.135 45.000 0.00 0.00 0.00 3.58
582 4017 3.541713 CGCCCTCCTCCCTAGCAC 61.542 72.222 0.00 0.00 0.00 4.40
647 4082 2.604914 CAGGCATTTGCAGACTAGTACG 59.395 50.000 4.74 0.00 44.36 3.67
661 4096 7.327275 GCAGACTAGTACGAATGGATCAATAAG 59.673 40.741 0.00 0.00 0.00 1.73
681 7434 1.297689 CACTAGCCTTGCCTGCTCA 59.702 57.895 0.00 0.00 40.23 4.26
747 7500 4.686554 GCTTATAAACATCTACTGCCTCCG 59.313 45.833 0.00 0.00 0.00 4.63
792 7545 2.525105 TTATCCCAGGCCAAACTTCC 57.475 50.000 5.01 0.00 0.00 3.46
835 7588 6.772716 GTCCATACAAAGTGTATTGATCCCAT 59.227 38.462 5.71 0.00 40.40 4.00
836 7589 7.285401 GTCCATACAAAGTGTATTGATCCCATT 59.715 37.037 5.71 0.00 40.40 3.16
842 7595 8.906867 ACAAAGTGTATTGATCCCATTATCTTG 58.093 33.333 0.00 0.00 34.38 3.02
1000 8208 4.456911 AGCTATCTTGTTGTTGGATGTGTG 59.543 41.667 0.00 0.00 0.00 3.82
1035 8243 2.881734 TCACTGCCCATCTATCGATCT 58.118 47.619 0.00 0.00 0.00 2.75
1036 8244 2.822561 TCACTGCCCATCTATCGATCTC 59.177 50.000 0.00 0.00 0.00 2.75
1046 8254 5.048154 CCATCTATCGATCTCACTCACACAT 60.048 44.000 0.00 0.00 0.00 3.21
1049 8257 6.055588 TCTATCGATCTCACTCACACATACA 58.944 40.000 0.00 0.00 0.00 2.29
1073 8281 0.678395 ACAGGCAGACAGACAGACAG 59.322 55.000 0.00 0.00 0.00 3.51
1081 8289 3.317711 CAGACAGACAGACAGACAGAAGT 59.682 47.826 0.00 0.00 0.00 3.01
1101 8309 1.741032 GTGCTGTGCTCTCTGCCTC 60.741 63.158 0.00 0.00 42.00 4.70
1102 8310 1.912264 TGCTGTGCTCTCTGCCTCT 60.912 57.895 0.00 0.00 42.00 3.69
1191 8407 3.490933 CGAATGCAGGTACAGCTAGCTAA 60.491 47.826 18.86 5.83 43.00 3.09
1201 8417 6.095720 AGGTACAGCTAGCTAACTTAAGTCAG 59.904 42.308 18.86 4.77 0.00 3.51
1203 8419 7.066766 GGTACAGCTAGCTAACTTAAGTCAGTA 59.933 40.741 18.86 7.93 0.00 2.74
1231 8447 5.275494 TGCATGCATGAATATTTCAACTCG 58.725 37.500 30.64 0.00 43.95 4.18
1246 8462 3.074412 CAACTCGTGGCCCCAATATATC 58.926 50.000 0.00 0.00 0.00 1.63
1248 8464 2.303022 ACTCGTGGCCCCAATATATCTG 59.697 50.000 0.00 0.00 0.00 2.90
1257 8473 6.189859 GGCCCCAATATATCTGATTGATTCA 58.810 40.000 0.00 0.00 36.57 2.57
1276 8492 8.771521 TGATTCATCAATGGAATGGAGTTATT 57.228 30.769 0.00 0.00 35.23 1.40
1290 8506 9.442047 GAATGGAGTTATTGATCGAGGATTATT 57.558 33.333 0.00 0.00 0.00 1.40
1305 8521 6.458751 CGAGGATTATTTATATGCCATGTGCC 60.459 42.308 4.07 0.00 40.16 5.01
1473 8692 4.662961 CGGTGCTGGACGTGAGCA 62.663 66.667 13.56 13.56 44.22 4.26
1512 8743 0.250901 GAAGAAGGCCCTGCAGTTCA 60.251 55.000 13.81 0.00 0.00 3.18
1531 8762 1.871676 CATCATCATGAAGCTCACCCG 59.128 52.381 0.00 0.00 30.57 5.28
1555 8786 2.343163 GACCGCCTCTCCATCGTCAG 62.343 65.000 0.00 0.00 0.00 3.51
1562 8793 1.336440 CTCTCCATCGTCAGCTTCGAT 59.664 52.381 15.12 15.12 46.70 3.59
1787 9018 4.660938 GGCGACCCCAGGCAAGTT 62.661 66.667 0.00 0.00 0.00 2.66
2013 9253 4.227134 CCGATGGCGACCTGGAGG 62.227 72.222 0.00 0.00 40.82 4.30
2019 9259 2.801631 GGCGACCTGGAGGAGATGG 61.802 68.421 0.00 0.00 38.94 3.51
2054 9294 0.725686 CGGACTACACGACGATCACT 59.274 55.000 0.00 0.00 0.00 3.41
2072 9312 2.048127 GACGACAAGAGCGGCCTT 60.048 61.111 0.00 0.00 0.00 4.35
2134 9374 1.761174 AGGTGGCCGTCAACTTCAT 59.239 52.632 0.00 0.00 41.45 2.57
2159 9399 2.559840 GACAGCGACGAGACCGAA 59.440 61.111 0.00 0.00 39.50 4.30
2501 9762 1.300963 GCTGGCCTTCATGGAGTCA 59.699 57.895 3.32 0.00 38.35 3.41
2517 9778 1.896465 AGTCACAGGAGCTCTACAACC 59.104 52.381 14.64 0.00 0.00 3.77
2602 9863 3.141488 CGACGAGGGGGAGGTCAG 61.141 72.222 0.00 0.00 0.00 3.51
2616 9877 1.227380 GTCAGGTGCCTCTATGCGG 60.227 63.158 0.00 0.00 0.00 5.69
2656 9917 2.270527 GGAGCAGGCCAAGAGGTC 59.729 66.667 5.01 6.84 40.92 3.85
2669 9930 2.039137 AGGTCCGAGGAGAACCCC 59.961 66.667 0.00 0.00 36.73 4.95
2678 9939 2.677848 GAGAACCCCAAGGAGCCC 59.322 66.667 0.00 0.00 36.73 5.19
2713 9974 4.232221 GACGACGATCTCTAGTCTAGGAG 58.768 52.174 0.00 4.01 35.38 3.69
2714 9975 3.890756 ACGACGATCTCTAGTCTAGGAGA 59.109 47.826 0.00 8.75 41.88 3.71
2718 9984 6.750501 CGACGATCTCTAGTCTAGGAGATAAG 59.249 46.154 15.86 15.02 45.72 1.73
2762 10042 3.959975 GCCGACGCCAGCAACAAA 61.960 61.111 0.00 0.00 0.00 2.83
2764 10044 1.285641 CCGACGCCAGCAACAAATT 59.714 52.632 0.00 0.00 0.00 1.82
2767 10047 2.353269 CCGACGCCAGCAACAAATTATA 59.647 45.455 0.00 0.00 0.00 0.98
2768 10048 3.350912 CGACGCCAGCAACAAATTATAC 58.649 45.455 0.00 0.00 0.00 1.47
2773 10053 5.163794 ACGCCAGCAACAAATTATACTGTAC 60.164 40.000 0.00 0.00 0.00 2.90
2774 10054 5.064707 CGCCAGCAACAAATTATACTGTACT 59.935 40.000 0.00 0.00 0.00 2.73
2775 10055 6.403200 CGCCAGCAACAAATTATACTGTACTT 60.403 38.462 0.00 0.00 0.00 2.24
2776 10056 7.312899 GCCAGCAACAAATTATACTGTACTTT 58.687 34.615 0.00 0.00 0.00 2.66
2777 10057 8.455682 GCCAGCAACAAATTATACTGTACTTTA 58.544 33.333 0.00 0.00 0.00 1.85
2812 10092 3.947910 TGTACGTCCTTACTTTCCCAG 57.052 47.619 0.00 0.00 0.00 4.45
2820 10100 3.084786 CCTTACTTTCCCAGGCTTTCTG 58.915 50.000 0.00 0.00 43.00 3.02
2821 10101 3.498661 CCTTACTTTCCCAGGCTTTCTGT 60.499 47.826 0.00 0.00 41.83 3.41
2823 10103 3.876309 ACTTTCCCAGGCTTTCTGTTA 57.124 42.857 0.00 0.00 41.83 2.41
2824 10104 4.178956 ACTTTCCCAGGCTTTCTGTTAA 57.821 40.909 0.00 0.00 41.83 2.01
2826 10106 5.887754 ACTTTCCCAGGCTTTCTGTTAATA 58.112 37.500 0.00 0.00 41.83 0.98
2830 10110 8.887264 TTTCCCAGGCTTTCTGTTAATATAAA 57.113 30.769 0.00 0.00 41.83 1.40
2831 10111 7.875327 TCCCAGGCTTTCTGTTAATATAAAC 57.125 36.000 0.00 0.00 41.83 2.01
2856 10143 6.457355 TGCATGTAATTGCTTGAGTTTGATT 58.543 32.000 12.61 0.00 43.18 2.57
2857 10144 7.600960 TGCATGTAATTGCTTGAGTTTGATTA 58.399 30.769 12.61 0.00 43.18 1.75
2858 10145 8.087136 TGCATGTAATTGCTTGAGTTTGATTAA 58.913 29.630 12.61 0.00 43.18 1.40
2859 10146 9.090692 GCATGTAATTGCTTGAGTTTGATTAAT 57.909 29.630 12.61 0.00 39.57 1.40
2867 10154 8.519492 TGCTTGAGTTTGATTAATAAAGTTGC 57.481 30.769 0.00 0.00 0.00 4.17
2868 10155 8.359642 TGCTTGAGTTTGATTAATAAAGTTGCT 58.640 29.630 0.00 0.00 0.00 3.91
2869 10156 9.196552 GCTTGAGTTTGATTAATAAAGTTGCTT 57.803 29.630 0.00 0.00 0.00 3.91
2883 10170 9.515226 AATAAAGTTGCTTATCTACCAGTTCAA 57.485 29.630 0.00 0.00 0.00 2.69
2884 10171 7.817418 AAAGTTGCTTATCTACCAGTTCAAA 57.183 32.000 0.00 0.00 0.00 2.69
2885 10172 6.803154 AGTTGCTTATCTACCAGTTCAAAC 57.197 37.500 0.00 0.00 0.00 2.93
2886 10173 6.296026 AGTTGCTTATCTACCAGTTCAAACA 58.704 36.000 0.00 0.00 0.00 2.83
2887 10174 6.770785 AGTTGCTTATCTACCAGTTCAAACAA 59.229 34.615 0.00 0.00 0.00 2.83
2888 10175 7.284489 AGTTGCTTATCTACCAGTTCAAACAAA 59.716 33.333 0.00 0.00 0.00 2.83
2889 10176 6.966021 TGCTTATCTACCAGTTCAAACAAAC 58.034 36.000 0.00 0.00 0.00 2.93
2890 10177 6.016610 TGCTTATCTACCAGTTCAAACAAACC 60.017 38.462 0.00 0.00 0.00 3.27
2891 10178 6.569801 GCTTATCTACCAGTTCAAACAAACCC 60.570 42.308 0.00 0.00 0.00 4.11
2892 10179 4.237976 TCTACCAGTTCAAACAAACCCA 57.762 40.909 0.00 0.00 0.00 4.51
2893 10180 4.204012 TCTACCAGTTCAAACAAACCCAG 58.796 43.478 0.00 0.00 0.00 4.45
2894 10181 1.480545 ACCAGTTCAAACAAACCCAGC 59.519 47.619 0.00 0.00 0.00 4.85
2895 10182 1.202521 CCAGTTCAAACAAACCCAGCC 60.203 52.381 0.00 0.00 0.00 4.85
2896 10183 1.119684 AGTTCAAACAAACCCAGCCC 58.880 50.000 0.00 0.00 0.00 5.19
2897 10184 0.827368 GTTCAAACAAACCCAGCCCA 59.173 50.000 0.00 0.00 0.00 5.36
2898 10185 1.416030 GTTCAAACAAACCCAGCCCAT 59.584 47.619 0.00 0.00 0.00 4.00
2899 10186 1.337118 TCAAACAAACCCAGCCCATC 58.663 50.000 0.00 0.00 0.00 3.51
2900 10187 1.133199 TCAAACAAACCCAGCCCATCT 60.133 47.619 0.00 0.00 0.00 2.90
2901 10188 1.693606 CAAACAAACCCAGCCCATCTT 59.306 47.619 0.00 0.00 0.00 2.40
2902 10189 2.101640 AACAAACCCAGCCCATCTTT 57.898 45.000 0.00 0.00 0.00 2.52
2903 10190 2.990740 ACAAACCCAGCCCATCTTTA 57.009 45.000 0.00 0.00 0.00 1.85
2904 10191 3.473113 ACAAACCCAGCCCATCTTTAT 57.527 42.857 0.00 0.00 0.00 1.40
2905 10192 4.601406 ACAAACCCAGCCCATCTTTATA 57.399 40.909 0.00 0.00 0.00 0.98
2906 10193 4.941713 ACAAACCCAGCCCATCTTTATAA 58.058 39.130 0.00 0.00 0.00 0.98
2907 10194 5.528337 ACAAACCCAGCCCATCTTTATAAT 58.472 37.500 0.00 0.00 0.00 1.28
2908 10195 6.678547 ACAAACCCAGCCCATCTTTATAATA 58.321 36.000 0.00 0.00 0.00 0.98
2909 10196 6.549736 ACAAACCCAGCCCATCTTTATAATAC 59.450 38.462 0.00 0.00 0.00 1.89
2910 10197 5.256806 ACCCAGCCCATCTTTATAATACC 57.743 43.478 0.00 0.00 0.00 2.73
2911 10198 4.044191 ACCCAGCCCATCTTTATAATACCC 59.956 45.833 0.00 0.00 0.00 3.69
2912 10199 4.292306 CCCAGCCCATCTTTATAATACCCT 59.708 45.833 0.00 0.00 0.00 4.34
2913 10200 5.501156 CCAGCCCATCTTTATAATACCCTC 58.499 45.833 0.00 0.00 0.00 4.30
2914 10201 5.014123 CCAGCCCATCTTTATAATACCCTCA 59.986 44.000 0.00 0.00 0.00 3.86
2915 10202 5.940470 CAGCCCATCTTTATAATACCCTCAC 59.060 44.000 0.00 0.00 0.00 3.51
2916 10203 4.935808 GCCCATCTTTATAATACCCTCACG 59.064 45.833 0.00 0.00 0.00 4.35
2917 10204 5.512576 GCCCATCTTTATAATACCCTCACGT 60.513 44.000 0.00 0.00 0.00 4.49
2918 10205 6.295462 GCCCATCTTTATAATACCCTCACGTA 60.295 42.308 0.00 0.00 0.00 3.57
2919 10206 7.580882 GCCCATCTTTATAATACCCTCACGTAT 60.581 40.741 0.00 0.00 0.00 3.06
2920 10207 8.319146 CCCATCTTTATAATACCCTCACGTATT 58.681 37.037 0.00 0.00 40.95 1.89
2921 10208 9.720769 CCATCTTTATAATACCCTCACGTATTT 57.279 33.333 0.00 0.00 39.21 1.40
2954 10241 6.737254 ATTTTACTACAATCTGGTCAACGG 57.263 37.500 0.00 0.00 0.00 4.44
2955 10242 5.471556 TTTACTACAATCTGGTCAACGGA 57.528 39.130 0.00 0.00 39.23 4.69
2956 10243 3.314541 ACTACAATCTGGTCAACGGAC 57.685 47.619 0.00 0.00 43.55 4.79
2957 10244 2.631062 ACTACAATCTGGTCAACGGACA 59.369 45.455 0.00 0.00 46.17 4.02
2958 10245 2.631160 ACAATCTGGTCAACGGACAA 57.369 45.000 0.00 0.00 46.17 3.18
2959 10246 2.925724 ACAATCTGGTCAACGGACAAA 58.074 42.857 0.00 0.00 46.17 2.83
2960 10247 3.283751 ACAATCTGGTCAACGGACAAAA 58.716 40.909 0.00 0.00 46.17 2.44
2961 10248 3.888930 ACAATCTGGTCAACGGACAAAAT 59.111 39.130 0.00 0.00 46.17 1.82
2962 10249 4.229096 CAATCTGGTCAACGGACAAAATG 58.771 43.478 0.00 0.00 46.17 2.32
2963 10250 2.226330 TCTGGTCAACGGACAAAATGG 58.774 47.619 0.00 0.00 46.17 3.16
2964 10251 1.953686 CTGGTCAACGGACAAAATGGT 59.046 47.619 0.00 0.00 46.17 3.55
2965 10252 3.142951 CTGGTCAACGGACAAAATGGTA 58.857 45.455 0.00 0.00 46.17 3.25
2966 10253 3.552875 TGGTCAACGGACAAAATGGTAA 58.447 40.909 0.00 0.00 46.17 2.85
2967 10254 4.145807 TGGTCAACGGACAAAATGGTAAT 58.854 39.130 0.00 0.00 46.17 1.89
2968 10255 4.216687 TGGTCAACGGACAAAATGGTAATC 59.783 41.667 0.00 0.00 46.17 1.75
2969 10256 4.216687 GGTCAACGGACAAAATGGTAATCA 59.783 41.667 0.00 0.00 46.17 2.57
2970 10257 5.105917 GGTCAACGGACAAAATGGTAATCAT 60.106 40.000 0.00 0.00 46.17 2.45
2971 10258 6.027749 GTCAACGGACAAAATGGTAATCATC 58.972 40.000 0.00 0.00 43.73 2.92
2972 10259 5.707764 TCAACGGACAAAATGGTAATCATCA 59.292 36.000 0.00 0.00 34.44 3.07
2973 10260 6.207614 TCAACGGACAAAATGGTAATCATCAA 59.792 34.615 0.00 0.00 34.44 2.57
2974 10261 6.582677 ACGGACAAAATGGTAATCATCAAA 57.417 33.333 0.00 0.00 34.44 2.69
2975 10262 7.169158 ACGGACAAAATGGTAATCATCAAAT 57.831 32.000 0.00 0.00 34.44 2.32
2976 10263 7.257722 ACGGACAAAATGGTAATCATCAAATC 58.742 34.615 0.00 0.00 34.44 2.17
2977 10264 7.093988 ACGGACAAAATGGTAATCATCAAATCA 60.094 33.333 0.00 0.00 34.44 2.57
2978 10265 7.922278 CGGACAAAATGGTAATCATCAAATCAT 59.078 33.333 0.00 0.00 34.44 2.45
2979 10266 9.252962 GGACAAAATGGTAATCATCAAATCATC 57.747 33.333 0.00 0.00 34.44 2.92
2980 10267 9.252962 GACAAAATGGTAATCATCAAATCATCC 57.747 33.333 0.00 0.00 34.44 3.51
2981 10268 8.760735 ACAAAATGGTAATCATCAAATCATCCA 58.239 29.630 0.00 0.00 34.44 3.41
2982 10269 9.602568 CAAAATGGTAATCATCAAATCATCCAA 57.397 29.630 0.00 0.00 34.44 3.53
3040 10327 8.357402 ACAAGTATGTTAAAGAAACCAATGTCC 58.643 33.333 0.00 0.00 35.91 4.02
3041 10328 7.141100 AGTATGTTAAAGAAACCAATGTCCG 57.859 36.000 0.00 0.00 37.27 4.79
3042 10329 6.938030 AGTATGTTAAAGAAACCAATGTCCGA 59.062 34.615 0.00 0.00 37.27 4.55
3043 10330 6.834168 ATGTTAAAGAAACCAATGTCCGAT 57.166 33.333 0.00 0.00 37.27 4.18
3044 10331 6.642707 TGTTAAAGAAACCAATGTCCGATT 57.357 33.333 0.00 0.00 37.27 3.34
3045 10332 7.045126 TGTTAAAGAAACCAATGTCCGATTT 57.955 32.000 0.00 0.00 37.27 2.17
3046 10333 7.493367 TGTTAAAGAAACCAATGTCCGATTTT 58.507 30.769 0.00 0.00 37.27 1.82
3047 10334 7.982354 TGTTAAAGAAACCAATGTCCGATTTTT 59.018 29.630 0.00 0.00 37.27 1.94
3048 10335 9.465985 GTTAAAGAAACCAATGTCCGATTTTTA 57.534 29.630 0.00 0.00 31.38 1.52
3050 10337 8.587952 AAAGAAACCAATGTCCGATTTTTAAG 57.412 30.769 0.00 0.00 0.00 1.85
3051 10338 7.519032 AGAAACCAATGTCCGATTTTTAAGA 57.481 32.000 0.00 0.00 0.00 2.10
3052 10339 8.122472 AGAAACCAATGTCCGATTTTTAAGAT 57.878 30.769 0.00 0.00 0.00 2.40
3053 10340 8.585018 AGAAACCAATGTCCGATTTTTAAGATT 58.415 29.630 0.00 0.00 0.00 2.40
3054 10341 8.757164 AAACCAATGTCCGATTTTTAAGATTC 57.243 30.769 0.00 0.00 0.00 2.52
3055 10342 6.863275 ACCAATGTCCGATTTTTAAGATTCC 58.137 36.000 0.00 0.00 0.00 3.01
3056 10343 6.127451 ACCAATGTCCGATTTTTAAGATTCCC 60.127 38.462 0.00 0.00 0.00 3.97
3057 10344 5.751243 ATGTCCGATTTTTAAGATTCCCG 57.249 39.130 0.00 0.00 0.00 5.14
3058 10345 4.834534 TGTCCGATTTTTAAGATTCCCGA 58.165 39.130 0.00 0.00 0.00 5.14
3059 10346 4.873827 TGTCCGATTTTTAAGATTCCCGAG 59.126 41.667 0.00 0.00 0.00 4.63
3060 10347 3.875134 TCCGATTTTTAAGATTCCCGAGC 59.125 43.478 0.00 0.00 0.00 5.03
3061 10348 3.625764 CCGATTTTTAAGATTCCCGAGCA 59.374 43.478 0.00 0.00 0.00 4.26
3062 10349 4.095782 CCGATTTTTAAGATTCCCGAGCAA 59.904 41.667 0.00 0.00 0.00 3.91
3063 10350 5.392595 CCGATTTTTAAGATTCCCGAGCAAA 60.393 40.000 0.00 0.00 0.00 3.68
3064 10351 6.090129 CGATTTTTAAGATTCCCGAGCAAAA 58.910 36.000 0.00 0.00 0.00 2.44
3065 10352 6.584563 CGATTTTTAAGATTCCCGAGCAAAAA 59.415 34.615 0.00 0.00 0.00 1.94
3066 10353 7.275560 CGATTTTTAAGATTCCCGAGCAAAAAT 59.724 33.333 0.00 0.00 37.02 1.82
3067 10354 7.883229 TTTTTAAGATTCCCGAGCAAAAATC 57.117 32.000 0.00 0.00 0.00 2.17
3068 10355 5.576447 TTAAGATTCCCGAGCAAAAATCC 57.424 39.130 0.00 0.00 0.00 3.01
3069 10356 3.085952 AGATTCCCGAGCAAAAATCCA 57.914 42.857 0.00 0.00 0.00 3.41
3268 10557 9.520204 CAGATTCTGTTTTCTATGTGTTGTTTT 57.480 29.630 5.46 0.00 0.00 2.43
3437 10728 6.730960 ACGAGTTTTCTGTTGAGTTTTGTA 57.269 33.333 0.00 0.00 0.00 2.41
3438 10729 6.540205 ACGAGTTTTCTGTTGAGTTTTGTAC 58.460 36.000 0.00 0.00 0.00 2.90
3450 10741 7.174253 TGTTGAGTTTTGTACTGTGAAGTTCTT 59.826 33.333 4.17 0.00 37.17 2.52
3459 10750 8.780846 TGTACTGTGAAGTTCTTAAGTTTTGA 57.219 30.769 4.17 0.00 0.00 2.69
3497 10788 5.437060 GACTATGGAATAAGGAGTGGCAAA 58.563 41.667 0.00 0.00 0.00 3.68
3500 10791 3.430453 TGGAATAAGGAGTGGCAAAAGG 58.570 45.455 0.00 0.00 0.00 3.11
3512 10803 1.256812 GCAAAAGGCTAAGCTTGGGA 58.743 50.000 9.86 0.00 40.25 4.37
3676 10968 2.472695 TGCTTGGAGCGTCTTGTATT 57.527 45.000 0.00 0.00 46.26 1.89
3705 10997 8.057536 TGAGTCTTTGCTTTTTAGTTTACCAA 57.942 30.769 0.00 0.00 0.00 3.67
3741 11033 1.202651 ACACACCTTTTGGGAGAGACG 60.203 52.381 0.00 0.00 46.08 4.18
3744 11036 0.693049 ACCTTTTGGGAGAGACGCAT 59.307 50.000 0.00 0.00 46.08 4.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 2.086869 CAACTGTCCACTAGCCATTGG 58.913 52.381 0.00 0.00 0.00 3.16
19 20 3.270877 CCATTACAACTGTCCACTAGCC 58.729 50.000 0.00 0.00 0.00 3.93
70 71 2.798148 AAACCTACGCTCAAGGGCCG 62.798 60.000 0.00 0.00 38.54 6.13
92 95 7.527796 ACAGAGAGTATAAGTAATAGCTGGGA 58.472 38.462 0.00 0.00 0.00 4.37
113 118 5.204409 TGCGAAGTAAAAAGGACTACAGA 57.796 39.130 0.00 0.00 0.00 3.41
116 121 9.090692 TGTAATATGCGAAGTAAAAAGGACTAC 57.909 33.333 0.00 0.00 0.00 2.73
118 123 8.732746 ATGTAATATGCGAAGTAAAAAGGACT 57.267 30.769 0.00 0.00 0.00 3.85
141 146 8.909708 TTACAAAGTTTGACTTGACAGAAATG 57.090 30.769 22.23 0.00 38.66 2.32
173 178 9.026074 CGTTGGTGTTTTTAATACAAATTCAGT 57.974 29.630 0.00 0.00 0.00 3.41
174 179 9.026074 ACGTTGGTGTTTTTAATACAAATTCAG 57.974 29.630 0.00 0.00 0.00 3.02
175 180 8.928270 ACGTTGGTGTTTTTAATACAAATTCA 57.072 26.923 0.00 0.00 0.00 2.57
176 181 9.240159 AGACGTTGGTGTTTTTAATACAAATTC 57.760 29.630 0.00 0.00 0.00 2.17
179 184 9.666626 CATAGACGTTGGTGTTTTTAATACAAA 57.333 29.630 0.00 0.00 0.00 2.83
180 185 9.053840 TCATAGACGTTGGTGTTTTTAATACAA 57.946 29.630 0.00 0.00 0.00 2.41
181 186 8.604640 TCATAGACGTTGGTGTTTTTAATACA 57.395 30.769 0.00 0.00 0.00 2.29
184 189 8.671028 GGTATCATAGACGTTGGTGTTTTTAAT 58.329 33.333 0.00 0.00 0.00 1.40
185 190 7.660617 TGGTATCATAGACGTTGGTGTTTTTAA 59.339 33.333 0.00 0.00 0.00 1.52
186 191 7.160049 TGGTATCATAGACGTTGGTGTTTTTA 58.840 34.615 0.00 0.00 0.00 1.52
187 192 5.998981 TGGTATCATAGACGTTGGTGTTTTT 59.001 36.000 0.00 0.00 0.00 1.94
188 193 5.553123 TGGTATCATAGACGTTGGTGTTTT 58.447 37.500 0.00 0.00 0.00 2.43
189 194 5.155278 TGGTATCATAGACGTTGGTGTTT 57.845 39.130 0.00 0.00 0.00 2.83
190 195 4.811969 TGGTATCATAGACGTTGGTGTT 57.188 40.909 0.00 0.00 0.00 3.32
258 272 9.729281 AGTATCAAAATTCAAAATGCCAAATCT 57.271 25.926 0.00 0.00 0.00 2.40
293 307 7.772332 AGTAAGTCTACTTTCACAACACTTG 57.228 36.000 0.00 0.00 34.53 3.16
325 339 6.354130 GGTCCTGCATAGTATAAGTTTTCCA 58.646 40.000 0.00 0.00 0.00 3.53
338 352 0.958091 CTCTCTCCGGTCCTGCATAG 59.042 60.000 0.00 0.00 0.00 2.23
339 353 0.259065 ACTCTCTCCGGTCCTGCATA 59.741 55.000 0.00 0.00 0.00 3.14
385 405 4.357279 GCTGGGCTGCCTGAACCT 62.357 66.667 19.68 0.00 0.00 3.50
425 446 2.637872 GCTAGCTGTATATCCCAACCCA 59.362 50.000 7.70 0.00 0.00 4.51
582 4017 8.735692 TTCGGTGTAAATAAAATTACTAGGGG 57.264 34.615 0.00 0.00 36.84 4.79
647 4082 4.457257 GGCTAGTGGCTTATTGATCCATTC 59.543 45.833 0.00 0.00 41.46 2.67
661 4096 3.136791 GCAGGCAAGGCTAGTGGC 61.137 66.667 4.68 4.68 41.67 5.01
792 7545 6.737254 ATGGACCGTTTACTAATTGTCAAG 57.263 37.500 0.00 0.00 0.00 3.02
835 7588 1.904287 AGGCCGTGCAAACAAGATAA 58.096 45.000 0.00 0.00 0.00 1.75
836 7589 1.539388 CAAGGCCGTGCAAACAAGATA 59.461 47.619 5.51 0.00 0.00 1.98
842 7595 0.031994 ATGTTCAAGGCCGTGCAAAC 59.968 50.000 14.54 14.17 0.00 2.93
1000 8208 8.713708 ATGGGCAGTGATACCTCTATATATAC 57.286 38.462 0.00 0.00 0.00 1.47
1035 8243 2.035321 TGTCGCTTGTATGTGTGAGTGA 59.965 45.455 0.00 0.00 0.00 3.41
1036 8244 2.403259 TGTCGCTTGTATGTGTGAGTG 58.597 47.619 0.00 0.00 0.00 3.51
1046 8254 0.038251 CTGTCTGCCTGTCGCTTGTA 60.038 55.000 0.00 0.00 38.78 2.41
1049 8257 1.005630 GTCTGTCTGCCTGTCGCTT 60.006 57.895 0.00 0.00 38.78 4.68
1073 8281 1.262683 GAGCACAGCACAACTTCTGTC 59.737 52.381 0.00 0.00 41.19 3.51
1081 8289 4.054085 GCAGAGAGCACAGCACAA 57.946 55.556 0.00 0.00 44.79 3.33
1101 8309 2.094182 TCCTGCTAAGGTCGCTAACAAG 60.094 50.000 0.00 0.00 44.82 3.16
1102 8310 1.897133 TCCTGCTAAGGTCGCTAACAA 59.103 47.619 0.00 0.00 44.82 2.83
1191 8407 5.105187 TGCATGCATCTCTACTGACTTAAGT 60.105 40.000 18.46 8.13 0.00 2.24
1201 8417 7.813645 TGAAATATTCATGCATGCATCTCTAC 58.186 34.615 30.07 15.86 34.08 2.59
1203 8419 6.894339 TGAAATATTCATGCATGCATCTCT 57.106 33.333 30.07 18.31 34.08 3.10
1231 8447 4.922206 TCAATCAGATATATTGGGGCCAC 58.078 43.478 4.39 0.00 35.48 5.01
1257 8473 7.226441 TCGATCAATAACTCCATTCCATTGAT 58.774 34.615 7.60 7.60 44.76 2.57
1262 8478 4.653801 TCCTCGATCAATAACTCCATTCCA 59.346 41.667 0.00 0.00 0.00 3.53
1276 8492 8.267183 ACATGGCATATAAATAATCCTCGATCA 58.733 33.333 0.00 0.00 0.00 2.92
1473 8692 1.140589 CGCTCTCGATCTTGTGCCT 59.859 57.895 0.00 0.00 38.10 4.75
1512 8743 1.813092 GCGGGTGAGCTTCATGATGAT 60.813 52.381 12.54 5.89 0.00 2.45
1787 9018 4.397832 GCCACTTCGCCGGGGTTA 62.398 66.667 19.13 7.14 0.00 2.85
2054 9294 1.529152 TAAGGCCGCTCTTGTCGTCA 61.529 55.000 0.00 0.00 0.00 4.35
2072 9312 2.627945 GTGCCGAACTTGATGGTGATA 58.372 47.619 0.00 0.00 0.00 2.15
2134 9374 4.056125 CGTCGCTGTCCCTGAGCA 62.056 66.667 0.00 0.00 36.12 4.26
2159 9399 1.585006 CAAGGTGGCGTCGTACTCT 59.415 57.895 0.00 0.00 0.00 3.24
2237 9483 4.382114 TTCGGCGTGCGCACAATG 62.382 61.111 37.03 25.32 44.11 2.82
2501 9762 0.610687 GCTGGTTGTAGAGCTCCTGT 59.389 55.000 10.93 0.00 32.12 4.00
2584 9845 3.940506 CTGACCTCCCCCTCGTCGT 62.941 68.421 0.00 0.00 0.00 4.34
2656 9917 1.612442 TCCTTGGGGTTCTCCTCGG 60.612 63.158 0.00 0.00 36.91 4.63
2669 9930 4.785453 GAGGGCACGGGCTCCTTG 62.785 72.222 19.01 0.00 43.51 3.61
2690 9951 3.005684 TCCTAGACTAGAGATCGTCGTCC 59.994 52.174 11.27 0.00 35.38 4.79
2699 9960 9.111613 CGTTTTTCTTATCTCCTAGACTAGAGA 57.888 37.037 11.27 11.47 0.00 3.10
2700 9961 7.858879 GCGTTTTTCTTATCTCCTAGACTAGAG 59.141 40.741 11.27 6.81 0.00 2.43
2703 9964 6.379133 TGGCGTTTTTCTTATCTCCTAGACTA 59.621 38.462 0.00 0.00 0.00 2.59
2706 9967 5.416947 GTGGCGTTTTTCTTATCTCCTAGA 58.583 41.667 0.00 0.00 0.00 2.43
2707 9968 4.571176 GGTGGCGTTTTTCTTATCTCCTAG 59.429 45.833 0.00 0.00 0.00 3.02
2708 9969 4.510571 GGTGGCGTTTTTCTTATCTCCTA 58.489 43.478 0.00 0.00 0.00 2.94
2709 9970 3.344515 GGTGGCGTTTTTCTTATCTCCT 58.655 45.455 0.00 0.00 0.00 3.69
2710 9971 2.422479 GGGTGGCGTTTTTCTTATCTCC 59.578 50.000 0.00 0.00 0.00 3.71
2713 9974 2.443416 AGGGGTGGCGTTTTTCTTATC 58.557 47.619 0.00 0.00 0.00 1.75
2714 9975 2.597578 AGGGGTGGCGTTTTTCTTAT 57.402 45.000 0.00 0.00 0.00 1.73
2718 9984 1.284715 CGAAGGGGTGGCGTTTTTC 59.715 57.895 0.00 0.00 0.00 2.29
2780 10060 6.821665 AGTAAGGACGTACAAATACATGCAAT 59.178 34.615 0.00 0.00 0.00 3.56
2812 10092 8.190784 ACATGCAGTTTATATTAACAGAAAGCC 58.809 33.333 7.30 0.00 0.00 4.35
2843 10130 8.748380 AGCAACTTTATTAATCAAACTCAAGC 57.252 30.769 0.00 0.00 0.00 4.01
2857 10144 9.515226 TTGAACTGGTAGATAAGCAACTTTATT 57.485 29.630 0.00 0.00 34.56 1.40
2858 10145 9.515226 TTTGAACTGGTAGATAAGCAACTTTAT 57.485 29.630 0.00 0.00 34.56 1.40
2859 10146 8.780249 GTTTGAACTGGTAGATAAGCAACTTTA 58.220 33.333 0.00 0.00 34.56 1.85
2860 10147 7.284489 TGTTTGAACTGGTAGATAAGCAACTTT 59.716 33.333 0.00 0.00 34.56 2.66
2861 10148 6.770785 TGTTTGAACTGGTAGATAAGCAACTT 59.229 34.615 0.00 0.00 34.56 2.66
2862 10149 6.296026 TGTTTGAACTGGTAGATAAGCAACT 58.704 36.000 0.00 0.00 34.56 3.16
2863 10150 6.554334 TGTTTGAACTGGTAGATAAGCAAC 57.446 37.500 0.00 0.00 34.56 4.17
2864 10151 7.422399 GTTTGTTTGAACTGGTAGATAAGCAA 58.578 34.615 0.00 0.00 34.56 3.91
2865 10152 6.016610 GGTTTGTTTGAACTGGTAGATAAGCA 60.017 38.462 0.00 0.00 0.00 3.91
2866 10153 6.379386 GGTTTGTTTGAACTGGTAGATAAGC 58.621 40.000 0.00 0.00 0.00 3.09
2867 10154 6.488683 TGGGTTTGTTTGAACTGGTAGATAAG 59.511 38.462 0.00 0.00 0.00 1.73
2868 10155 6.366340 TGGGTTTGTTTGAACTGGTAGATAA 58.634 36.000 0.00 0.00 0.00 1.75
2869 10156 5.942961 TGGGTTTGTTTGAACTGGTAGATA 58.057 37.500 0.00 0.00 0.00 1.98
2870 10157 4.798882 TGGGTTTGTTTGAACTGGTAGAT 58.201 39.130 0.00 0.00 0.00 1.98
2871 10158 4.204012 CTGGGTTTGTTTGAACTGGTAGA 58.796 43.478 0.00 0.00 0.00 2.59
2872 10159 3.243401 GCTGGGTTTGTTTGAACTGGTAG 60.243 47.826 0.00 0.00 0.00 3.18
2873 10160 2.691011 GCTGGGTTTGTTTGAACTGGTA 59.309 45.455 0.00 0.00 0.00 3.25
2874 10161 1.480545 GCTGGGTTTGTTTGAACTGGT 59.519 47.619 0.00 0.00 0.00 4.00
2875 10162 1.202521 GGCTGGGTTTGTTTGAACTGG 60.203 52.381 0.00 0.00 0.00 4.00
2876 10163 1.202521 GGGCTGGGTTTGTTTGAACTG 60.203 52.381 0.00 0.00 0.00 3.16
2877 10164 1.119684 GGGCTGGGTTTGTTTGAACT 58.880 50.000 0.00 0.00 0.00 3.01
2878 10165 0.827368 TGGGCTGGGTTTGTTTGAAC 59.173 50.000 0.00 0.00 0.00 3.18
2879 10166 1.691434 GATGGGCTGGGTTTGTTTGAA 59.309 47.619 0.00 0.00 0.00 2.69
2880 10167 1.133199 AGATGGGCTGGGTTTGTTTGA 60.133 47.619 0.00 0.00 0.00 2.69
2881 10168 1.341080 AGATGGGCTGGGTTTGTTTG 58.659 50.000 0.00 0.00 0.00 2.93
2882 10169 2.101640 AAGATGGGCTGGGTTTGTTT 57.898 45.000 0.00 0.00 0.00 2.83
2883 10170 2.101640 AAAGATGGGCTGGGTTTGTT 57.898 45.000 0.00 0.00 0.00 2.83
2884 10171 2.990740 TAAAGATGGGCTGGGTTTGT 57.009 45.000 0.00 0.00 0.00 2.83
2885 10172 6.015434 GGTATTATAAAGATGGGCTGGGTTTG 60.015 42.308 0.00 0.00 0.00 2.93
2886 10173 6.075315 GGTATTATAAAGATGGGCTGGGTTT 58.925 40.000 0.00 0.00 0.00 3.27
2887 10174 5.459094 GGGTATTATAAAGATGGGCTGGGTT 60.459 44.000 0.00 0.00 0.00 4.11
2888 10175 4.044191 GGGTATTATAAAGATGGGCTGGGT 59.956 45.833 0.00 0.00 0.00 4.51
2889 10176 4.292306 AGGGTATTATAAAGATGGGCTGGG 59.708 45.833 0.00 0.00 0.00 4.45
2890 10177 5.014123 TGAGGGTATTATAAAGATGGGCTGG 59.986 44.000 0.00 0.00 0.00 4.85
2891 10178 5.940470 GTGAGGGTATTATAAAGATGGGCTG 59.060 44.000 0.00 0.00 0.00 4.85
2892 10179 5.280011 CGTGAGGGTATTATAAAGATGGGCT 60.280 44.000 0.00 0.00 0.00 5.19
2893 10180 4.935808 CGTGAGGGTATTATAAAGATGGGC 59.064 45.833 0.00 0.00 0.00 5.36
2894 10181 6.110411 ACGTGAGGGTATTATAAAGATGGG 57.890 41.667 0.00 0.00 0.00 4.00
2895 10182 9.720769 AAATACGTGAGGGTATTATAAAGATGG 57.279 33.333 0.00 0.00 41.09 3.51
2928 10215 8.723311 CCGTTGACCAGATTGTAGTAAAATAAA 58.277 33.333 0.00 0.00 0.00 1.40
2929 10216 8.095792 TCCGTTGACCAGATTGTAGTAAAATAA 58.904 33.333 0.00 0.00 0.00 1.40
2930 10217 7.546667 GTCCGTTGACCAGATTGTAGTAAAATA 59.453 37.037 0.00 0.00 35.34 1.40
2931 10218 6.370718 GTCCGTTGACCAGATTGTAGTAAAAT 59.629 38.462 0.00 0.00 35.34 1.82
2932 10219 5.697633 GTCCGTTGACCAGATTGTAGTAAAA 59.302 40.000 0.00 0.00 35.34 1.52
2933 10220 5.221481 TGTCCGTTGACCAGATTGTAGTAAA 60.221 40.000 0.00 0.00 41.01 2.01
2934 10221 4.281435 TGTCCGTTGACCAGATTGTAGTAA 59.719 41.667 0.00 0.00 41.01 2.24
2935 10222 3.827876 TGTCCGTTGACCAGATTGTAGTA 59.172 43.478 0.00 0.00 41.01 1.82
2936 10223 2.631062 TGTCCGTTGACCAGATTGTAGT 59.369 45.455 0.00 0.00 41.01 2.73
2937 10224 3.313012 TGTCCGTTGACCAGATTGTAG 57.687 47.619 0.00 0.00 41.01 2.74
2938 10225 3.755112 TTGTCCGTTGACCAGATTGTA 57.245 42.857 0.00 0.00 41.01 2.41
2939 10226 2.631160 TTGTCCGTTGACCAGATTGT 57.369 45.000 0.00 0.00 41.01 2.71
2940 10227 3.980646 TTTTGTCCGTTGACCAGATTG 57.019 42.857 0.00 0.00 41.01 2.67
2941 10228 3.255642 CCATTTTGTCCGTTGACCAGATT 59.744 43.478 0.00 0.00 41.01 2.40
2942 10229 2.819608 CCATTTTGTCCGTTGACCAGAT 59.180 45.455 0.00 0.00 41.01 2.90
2943 10230 2.226330 CCATTTTGTCCGTTGACCAGA 58.774 47.619 0.00 0.00 41.01 3.86
2944 10231 1.953686 ACCATTTTGTCCGTTGACCAG 59.046 47.619 0.00 0.00 41.01 4.00
2945 10232 2.060050 ACCATTTTGTCCGTTGACCA 57.940 45.000 0.00 0.00 41.01 4.02
2946 10233 4.216687 TGATTACCATTTTGTCCGTTGACC 59.783 41.667 0.00 0.00 41.01 4.02
2947 10234 5.365403 TGATTACCATTTTGTCCGTTGAC 57.635 39.130 0.00 0.00 42.12 3.18
2948 10235 5.707764 TGATGATTACCATTTTGTCCGTTGA 59.292 36.000 0.00 0.00 35.17 3.18
2949 10236 5.948588 TGATGATTACCATTTTGTCCGTTG 58.051 37.500 0.00 0.00 35.17 4.10
2950 10237 6.582677 TTGATGATTACCATTTTGTCCGTT 57.417 33.333 0.00 0.00 35.17 4.44
2951 10238 6.582677 TTTGATGATTACCATTTTGTCCGT 57.417 33.333 0.00 0.00 35.17 4.69
2952 10239 7.257003 TGATTTGATGATTACCATTTTGTCCG 58.743 34.615 0.00 0.00 35.17 4.79
2953 10240 9.252962 GATGATTTGATGATTACCATTTTGTCC 57.747 33.333 0.00 0.00 35.17 4.02
2954 10241 9.252962 GGATGATTTGATGATTACCATTTTGTC 57.747 33.333 0.00 0.00 35.17 3.18
2955 10242 8.760735 TGGATGATTTGATGATTACCATTTTGT 58.239 29.630 0.00 0.00 35.17 2.83
2956 10243 9.602568 TTGGATGATTTGATGATTACCATTTTG 57.397 29.630 0.00 0.00 35.17 2.44
3014 10301 8.357402 GGACATTGGTTTCTTTAACATACTTGT 58.643 33.333 0.00 0.00 38.55 3.16
3015 10302 7.537306 CGGACATTGGTTTCTTTAACATACTTG 59.463 37.037 0.00 0.00 38.55 3.16
3016 10303 7.446013 TCGGACATTGGTTTCTTTAACATACTT 59.554 33.333 0.00 0.00 38.55 2.24
3017 10304 6.938030 TCGGACATTGGTTTCTTTAACATACT 59.062 34.615 0.00 0.00 38.55 2.12
3018 10305 7.136289 TCGGACATTGGTTTCTTTAACATAC 57.864 36.000 0.00 0.00 38.55 2.39
3019 10306 7.931578 ATCGGACATTGGTTTCTTTAACATA 57.068 32.000 0.00 0.00 38.55 2.29
3020 10307 6.834168 ATCGGACATTGGTTTCTTTAACAT 57.166 33.333 0.00 0.00 38.55 2.71
3021 10308 6.642707 AATCGGACATTGGTTTCTTTAACA 57.357 33.333 0.00 0.00 38.55 2.41
3022 10309 7.940178 AAAATCGGACATTGGTTTCTTTAAC 57.060 32.000 0.00 0.00 35.94 2.01
3024 10311 9.685828 CTTAAAAATCGGACATTGGTTTCTTTA 57.314 29.630 0.00 0.00 0.00 1.85
3025 10312 8.417884 TCTTAAAAATCGGACATTGGTTTCTTT 58.582 29.630 0.00 0.00 0.00 2.52
3026 10313 7.947282 TCTTAAAAATCGGACATTGGTTTCTT 58.053 30.769 0.00 0.00 0.00 2.52
3027 10314 7.519032 TCTTAAAAATCGGACATTGGTTTCT 57.481 32.000 0.00 0.00 0.00 2.52
3028 10315 8.757164 AATCTTAAAAATCGGACATTGGTTTC 57.243 30.769 0.00 0.00 0.00 2.78
3029 10316 7.817478 GGAATCTTAAAAATCGGACATTGGTTT 59.183 33.333 0.00 0.00 0.00 3.27
3030 10317 7.320399 GGAATCTTAAAAATCGGACATTGGTT 58.680 34.615 0.00 0.00 0.00 3.67
3031 10318 6.127451 GGGAATCTTAAAAATCGGACATTGGT 60.127 38.462 0.00 0.00 0.00 3.67
3032 10319 6.273071 GGGAATCTTAAAAATCGGACATTGG 58.727 40.000 0.00 0.00 0.00 3.16
3033 10320 5.971202 CGGGAATCTTAAAAATCGGACATTG 59.029 40.000 0.00 0.00 0.00 2.82
3034 10321 5.883673 TCGGGAATCTTAAAAATCGGACATT 59.116 36.000 0.00 0.00 0.00 2.71
3035 10322 5.433526 TCGGGAATCTTAAAAATCGGACAT 58.566 37.500 0.00 0.00 0.00 3.06
3036 10323 4.834534 TCGGGAATCTTAAAAATCGGACA 58.165 39.130 0.00 0.00 0.00 4.02
3037 10324 4.260661 GCTCGGGAATCTTAAAAATCGGAC 60.261 45.833 0.00 0.00 0.00 4.79
3038 10325 3.875134 GCTCGGGAATCTTAAAAATCGGA 59.125 43.478 0.00 0.00 0.00 4.55
3039 10326 3.625764 TGCTCGGGAATCTTAAAAATCGG 59.374 43.478 0.00 0.00 0.00 4.18
3040 10327 4.875544 TGCTCGGGAATCTTAAAAATCG 57.124 40.909 0.00 0.00 0.00 3.34
3041 10328 7.883229 TTTTTGCTCGGGAATCTTAAAAATC 57.117 32.000 0.00 0.00 0.00 2.17
3042 10329 7.549134 GGATTTTTGCTCGGGAATCTTAAAAAT 59.451 33.333 0.00 0.00 38.31 1.82
3043 10330 6.871492 GGATTTTTGCTCGGGAATCTTAAAAA 59.129 34.615 0.00 0.00 32.34 1.94
3044 10331 6.015010 TGGATTTTTGCTCGGGAATCTTAAAA 60.015 34.615 0.00 0.00 0.00 1.52
3045 10332 5.478679 TGGATTTTTGCTCGGGAATCTTAAA 59.521 36.000 0.00 0.00 0.00 1.52
3046 10333 5.013547 TGGATTTTTGCTCGGGAATCTTAA 58.986 37.500 0.00 0.00 0.00 1.85
3047 10334 4.594970 TGGATTTTTGCTCGGGAATCTTA 58.405 39.130 0.00 0.00 0.00 2.10
3048 10335 3.430453 TGGATTTTTGCTCGGGAATCTT 58.570 40.909 0.00 0.00 0.00 2.40
3049 10336 3.085952 TGGATTTTTGCTCGGGAATCT 57.914 42.857 0.00 0.00 0.00 2.40
3050 10337 4.391405 AATGGATTTTTGCTCGGGAATC 57.609 40.909 0.00 0.00 0.00 2.52
3051 10338 4.824479 AAATGGATTTTTGCTCGGGAAT 57.176 36.364 0.00 0.00 0.00 3.01
3052 10339 4.314121 CAAAATGGATTTTTGCTCGGGAA 58.686 39.130 0.00 0.00 45.52 3.97
3053 10340 3.924144 CAAAATGGATTTTTGCTCGGGA 58.076 40.909 0.00 0.00 45.52 5.14
3061 10348 2.150390 GTGGGCGCAAAATGGATTTTT 58.850 42.857 10.83 0.00 37.86 1.94
3062 10349 1.807139 GTGGGCGCAAAATGGATTTT 58.193 45.000 10.83 0.00 40.37 1.82
3063 10350 0.389687 CGTGGGCGCAAAATGGATTT 60.390 50.000 10.83 0.00 0.00 2.17
3064 10351 1.215117 CGTGGGCGCAAAATGGATT 59.785 52.632 10.83 0.00 0.00 3.01
3065 10352 1.656818 CTCGTGGGCGCAAAATGGAT 61.657 55.000 10.83 0.00 38.14 3.41
3066 10353 2.281831 TCGTGGGCGCAAAATGGA 60.282 55.556 10.83 0.00 38.14 3.41
3067 10354 1.656818 ATCTCGTGGGCGCAAAATGG 61.657 55.000 10.83 0.00 38.14 3.16
3068 10355 0.171007 AATCTCGTGGGCGCAAAATG 59.829 50.000 10.83 0.00 38.14 2.32
3069 10356 1.670811 CTAATCTCGTGGGCGCAAAAT 59.329 47.619 10.83 0.00 38.14 1.82
3078 10365 1.959042 AATGGCAGCTAATCTCGTGG 58.041 50.000 0.00 0.00 0.00 4.94
3103 10392 4.640771 TCAACCTAAAAGCACTCTCCAT 57.359 40.909 0.00 0.00 0.00 3.41
3156 10445 8.827832 TTCTGAAATAAATTGGTGGATCTGAT 57.172 30.769 0.00 0.00 0.00 2.90
3295 10584 3.228453 TCTATGGTTCATACCCTCCGAC 58.772 50.000 0.00 0.00 44.35 4.79
3412 10703 7.316544 ACAAAACTCAACAGAAAACTCGTAT 57.683 32.000 0.00 0.00 0.00 3.06
3437 10728 7.923414 ACTCAAAACTTAAGAACTTCACAGT 57.077 32.000 10.09 0.00 33.11 3.55
3450 10741 8.932791 GTCCATCGAATCTTTACTCAAAACTTA 58.067 33.333 0.00 0.00 0.00 2.24
3459 10750 6.978674 TCCATAGTCCATCGAATCTTTACT 57.021 37.500 0.00 0.00 0.00 2.24
3497 10788 1.478631 GCATTCCCAAGCTTAGCCTT 58.521 50.000 0.00 0.00 0.00 4.35
3705 10997 8.650143 AAAGGTGTGTACAATAAGGATGATTT 57.350 30.769 0.00 0.00 0.00 2.17
3808 11100 8.792830 AAAATATAAGTGAAGCACTAGAGCAA 57.207 30.769 14.80 0.00 44.62 3.91


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

AutoCloner maintained by Alex Coulton.