Multiple sequence alignment - TraesCS5D01G354000

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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 TraesCS5D01G354000 chr5D 100.000 4317 0 0 1 4317 436256676 436260992 0.000000e+00 7973
1 TraesCS5D01G354000 chr5D 90.632 427 39 1 3892 4317 436344224 436344650 2.250000e-157 566
2 TraesCS5D01G354000 chr5A 90.265 2116 113 36 1698 3769 550719731 550721797 0.000000e+00 2680
3 TraesCS5D01G354000 chr5A 91.725 858 36 8 846 1701 550718869 550719693 0.000000e+00 1158
4 TraesCS5D01G354000 chr5A 87.354 427 53 1 3892 4317 528832883 528833309 5.020000e-134 488
5 TraesCS5D01G354000 chr5A 82.527 372 11 15 529 857 550718361 550718721 1.180000e-70 278
6 TraesCS5D01G354000 chr5B 93.109 1161 44 20 1704 2850 530263010 530264148 0.000000e+00 1668
7 TraesCS5D01G354000 chr5B 91.353 983 27 20 723 1701 530262028 530262956 0.000000e+00 1291
8 TraesCS5D01G354000 chr5B 92.848 783 31 13 2849 3613 530264203 530264978 0.000000e+00 1112
9 TraesCS5D01G354000 chr5B 89.004 673 44 17 3674 4317 530265178 530265849 0.000000e+00 806
10 TraesCS5D01G354000 chr5B 86.455 347 25 12 4 342 530261026 530261358 1.140000e-95 361
11 TraesCS5D01G354000 chr5B 81.455 275 26 9 469 728 530261713 530261977 7.320000e-48 202
12 TraesCS5D01G354000 chr4A 88.993 427 46 1 3892 4317 470958709 470959135 1.060000e-145 527
13 TraesCS5D01G354000 chr2D 88.759 427 46 2 3892 4317 427976249 427975824 4.950000e-144 521
14 TraesCS5D01G354000 chr3D 87.822 427 51 1 3892 4317 11774084 11774510 2.320000e-137 499
15 TraesCS5D01G354000 chr1D 87.354 427 53 1 3892 4317 27958720 27959146 5.020000e-134 488
16 TraesCS5D01G354000 chr2B 87.294 425 52 2 3892 4315 512299041 512299464 6.490000e-133 484
17 TraesCS5D01G354000 chr2A 87.441 422 51 2 3898 4317 74555605 74555184 6.490000e-133 484
18 TraesCS5D01G354000 chr7D 87.119 427 54 1 3892 4317 333539731 333540157 2.330000e-132 483
19 TraesCS5D01G354000 chr6D 94.372 231 13 0 1465 1695 405486455 405486225 5.310000e-94 355
20 TraesCS5D01G354000 chr6D 86.585 246 16 9 1456 1701 467099215 467098987 5.540000e-64 255
21 TraesCS5D01G354000 chr3A 89.167 240 25 1 1456 1695 372190193 372189955 9.080000e-77 298


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 TraesCS5D01G354000 chr5D 436256676 436260992 4316 False 7973.000000 7973 100.000000 1 4317 1 chr5D.!!$F1 4316
1 TraesCS5D01G354000 chr5A 550718361 550721797 3436 False 1372.000000 2680 88.172333 529 3769 3 chr5A.!!$F2 3240
2 TraesCS5D01G354000 chr5B 530261026 530265849 4823 False 906.666667 1668 89.037333 4 4317 6 chr5B.!!$F1 4313

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
383 390 0.027586 GCCACGCGGACATTAACATC 59.972 55.0 12.47 0.0 0.0 3.06 F
912 1417 0.034896 CTCCACTGTACCACCACCAC 59.965 60.0 0.00 0.0 0.0 4.16 F
2103 2668 0.467844 AGTTGTGCTTGTGATGGGCA 60.468 50.0 0.00 0.0 0.0 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1863 2424 0.109412 GCAGCTTCACATCAGCAACC 60.109 55.0 0.0 0.0 39.99 3.77 R
2805 3396 0.037232 GCTGACTAGCCCACGAAGTT 60.037 55.0 0.0 0.0 41.58 2.66 R
3606 4271 0.108520 GCGTGGAGTTCGGATGGTTA 60.109 55.0 0.0 0.0 0.00 2.85 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
87 88 1.361668 CGATGTTGTTGGCCTCGAGG 61.362 60.000 27.83 27.83 38.53 4.63
104 105 1.997606 GAGGTTTGGACGGTTCGTATG 59.002 52.381 0.00 0.00 41.37 2.39
134 135 2.540101 CGTATGGGCACGAATCTTTCTC 59.460 50.000 0.00 0.00 44.69 2.87
136 137 2.386661 TGGGCACGAATCTTTCTCTC 57.613 50.000 0.00 0.00 0.00 3.20
137 138 1.902508 TGGGCACGAATCTTTCTCTCT 59.097 47.619 0.00 0.00 0.00 3.10
138 139 2.303022 TGGGCACGAATCTTTCTCTCTT 59.697 45.455 0.00 0.00 0.00 2.85
178 179 3.650369 CGGTTTCAACGGGTCCTG 58.350 61.111 0.00 0.00 0.00 3.86
192 193 2.036256 CCTGCCTGTTCTTGGGGG 59.964 66.667 0.00 0.00 0.00 5.40
243 250 2.030412 TGCCAAGTGCGTGTCGAT 59.970 55.556 0.00 0.00 45.60 3.59
246 253 2.100631 CCAAGTGCGTGTCGATCCC 61.101 63.158 0.00 0.00 0.00 3.85
253 260 2.125106 GTGTCGATCCCTGGTGCC 60.125 66.667 0.00 0.00 0.00 5.01
259 266 1.222936 GATCCCTGGTGCCACAGAG 59.777 63.158 6.34 0.00 40.97 3.35
260 267 1.539869 ATCCCTGGTGCCACAGAGT 60.540 57.895 6.34 0.00 40.97 3.24
261 268 1.136329 ATCCCTGGTGCCACAGAGTT 61.136 55.000 6.34 0.00 40.97 3.01
262 269 1.302832 CCCTGGTGCCACAGAGTTC 60.303 63.158 6.34 0.00 40.97 3.01
263 270 1.302832 CCTGGTGCCACAGAGTTCC 60.303 63.158 6.34 0.00 40.97 3.62
274 281 4.204012 CCACAGAGTTCCTTTGGTAAACA 58.796 43.478 0.00 0.00 37.82 2.83
308 315 5.822278 AGTACATACGATCAGCTACAAGTG 58.178 41.667 0.00 0.00 0.00 3.16
313 320 1.468224 CGATCAGCTACAAGTGCTCGT 60.468 52.381 0.00 0.00 38.92 4.18
334 341 4.021925 GGAGAGGCCAAGCACGGT 62.022 66.667 5.01 0.00 36.34 4.83
357 364 4.659111 CACCCATGCATGACATTAACAT 57.341 40.909 28.31 0.00 36.64 2.71
365 372 3.683989 CATGACATTAACATCACGGTGC 58.316 45.455 2.51 0.00 0.00 5.01
370 377 1.570347 TTAACATCACGGTGCCACGC 61.570 55.000 2.51 0.00 37.37 5.34
383 390 0.027586 GCCACGCGGACATTAACATC 59.972 55.000 12.47 0.00 0.00 3.06
384 391 1.364721 CCACGCGGACATTAACATCA 58.635 50.000 12.47 0.00 0.00 3.07
391 398 4.271687 GCGGACATTAACATCACGAATTC 58.728 43.478 0.00 0.00 0.00 2.17
396 403 7.164171 CGGACATTAACATCACGAATTCATTTC 59.836 37.037 6.22 0.00 0.00 2.17
397 404 7.967854 GGACATTAACATCACGAATTCATTTCA 59.032 33.333 6.22 0.00 33.66 2.69
398 405 8.673626 ACATTAACATCACGAATTCATTTCAC 57.326 30.769 6.22 0.00 33.66 3.18
399 406 7.754924 ACATTAACATCACGAATTCATTTCACC 59.245 33.333 6.22 0.00 33.66 4.02
400 407 4.701956 ACATCACGAATTCATTTCACCC 57.298 40.909 6.22 0.00 33.66 4.61
401 408 3.126858 ACATCACGAATTCATTTCACCCG 59.873 43.478 6.22 0.00 33.66 5.28
402 409 1.466950 TCACGAATTCATTTCACCCGC 59.533 47.619 6.22 0.00 33.66 6.13
403 410 1.198867 CACGAATTCATTTCACCCGCA 59.801 47.619 6.22 0.00 33.66 5.69
404 411 1.883275 ACGAATTCATTTCACCCGCAA 59.117 42.857 6.22 0.00 33.66 4.85
405 412 2.294791 ACGAATTCATTTCACCCGCAAA 59.705 40.909 6.22 0.00 33.66 3.68
453 715 9.675464 TTATTTTATTTACGATCCACTTCCTGT 57.325 29.630 0.00 0.00 0.00 4.00
455 717 7.989416 TTTATTTACGATCCACTTCCTGTTT 57.011 32.000 0.00 0.00 0.00 2.83
457 719 4.610605 TTACGATCCACTTCCTGTTTGA 57.389 40.909 0.00 0.00 0.00 2.69
459 721 3.815809 ACGATCCACTTCCTGTTTGAAA 58.184 40.909 0.00 0.00 0.00 2.69
460 722 4.398319 ACGATCCACTTCCTGTTTGAAAT 58.602 39.130 0.00 0.00 0.00 2.17
461 723 5.556915 ACGATCCACTTCCTGTTTGAAATA 58.443 37.500 0.00 0.00 0.00 1.40
462 724 5.411669 ACGATCCACTTCCTGTTTGAAATAC 59.588 40.000 0.00 0.00 0.00 1.89
463 725 5.643777 CGATCCACTTCCTGTTTGAAATACT 59.356 40.000 0.00 0.00 0.00 2.12
464 726 6.816640 CGATCCACTTCCTGTTTGAAATACTA 59.183 38.462 0.00 0.00 0.00 1.82
465 727 7.201530 CGATCCACTTCCTGTTTGAAATACTAC 60.202 40.741 0.00 0.00 0.00 2.73
466 728 7.074653 TCCACTTCCTGTTTGAAATACTACT 57.925 36.000 0.00 0.00 0.00 2.57
467 729 7.159372 TCCACTTCCTGTTTGAAATACTACTC 58.841 38.462 0.00 0.00 0.00 2.59
523 785 2.132089 TTGGGGCCTTTCACGTAGGG 62.132 60.000 0.84 0.00 33.19 3.53
524 786 2.599757 GGGGCCTTTCACGTAGGGT 61.600 63.158 0.84 0.00 33.19 4.34
525 787 1.266867 GGGGCCTTTCACGTAGGGTA 61.267 60.000 0.84 0.00 33.19 3.69
526 788 0.177373 GGGCCTTTCACGTAGGGTAG 59.823 60.000 0.84 0.00 33.19 3.18
651 936 2.343426 GGCCCACTTGCTACAAGCC 61.343 63.158 7.23 0.32 41.51 4.35
654 939 0.323725 CCCACTTGCTACAAGCCCAT 60.324 55.000 7.23 0.00 41.51 4.00
656 941 0.171903 CACTTGCTACAAGCCCATGC 59.828 55.000 7.23 0.00 41.51 4.06
657 942 0.967380 ACTTGCTACAAGCCCATGCC 60.967 55.000 7.23 0.00 41.51 4.40
658 943 1.996786 CTTGCTACAAGCCCATGCCG 61.997 60.000 0.00 0.00 41.51 5.69
659 944 3.211963 GCTACAAGCCCATGCCGG 61.212 66.667 0.00 0.00 38.69 6.13
690 975 4.778143 ACCAGAATCGCACGGCCC 62.778 66.667 0.00 0.00 0.00 5.80
691 976 4.473520 CCAGAATCGCACGGCCCT 62.474 66.667 0.00 0.00 0.00 5.19
693 978 4.473520 AGAATCGCACGGCCCTGG 62.474 66.667 0.00 0.00 0.00 4.45
699 1002 2.676471 GCACGGCCCTGGTTTGAT 60.676 61.111 0.00 0.00 0.00 2.57
706 1009 1.378762 CCCTGGTTTGATCACCCGT 59.621 57.895 0.00 0.00 35.73 5.28
710 1013 2.226330 CTGGTTTGATCACCCGTCAAA 58.774 47.619 0.00 0.00 41.75 2.69
713 1016 2.350057 TTTGATCACCCGTCAAACCA 57.650 45.000 0.00 0.00 39.81 3.67
715 1018 0.036164 TGATCACCCGTCAAACCAGG 59.964 55.000 0.00 0.00 0.00 4.45
718 1021 1.826054 CACCCGTCAAACCAGGCAA 60.826 57.895 0.00 0.00 0.00 4.52
719 1022 1.152830 ACCCGTCAAACCAGGCAAT 59.847 52.632 0.00 0.00 0.00 3.56
721 1024 0.893270 CCCGTCAAACCAGGCAATGA 60.893 55.000 0.00 0.00 0.00 2.57
722 1025 0.240945 CCGTCAAACCAGGCAATGAC 59.759 55.000 9.01 9.01 38.98 3.06
724 1027 1.327303 GTCAAACCAGGCAATGACCA 58.673 50.000 8.15 0.00 36.94 4.02
790 1127 3.374402 CCACGCCACGGACTCTCT 61.374 66.667 0.00 0.00 0.00 3.10
801 1138 2.997897 ACTCTCTCACCGCCACCC 60.998 66.667 0.00 0.00 0.00 4.61
859 1363 2.630580 TCCCCAACATTTAAACAGCCAC 59.369 45.455 0.00 0.00 0.00 5.01
860 1364 2.609244 CCCCAACATTTAAACAGCCACG 60.609 50.000 0.00 0.00 0.00 4.94
911 1416 1.764571 GCTCCACTGTACCACCACCA 61.765 60.000 0.00 0.00 0.00 4.17
912 1417 0.034896 CTCCACTGTACCACCACCAC 59.965 60.000 0.00 0.00 0.00 4.16
913 1418 1.072505 CCACTGTACCACCACCACC 59.927 63.158 0.00 0.00 0.00 4.61
914 1419 1.072505 CACTGTACCACCACCACCC 59.927 63.158 0.00 0.00 0.00 4.61
915 1420 2.345991 CTGTACCACCACCACCCG 59.654 66.667 0.00 0.00 0.00 5.28
916 1421 3.894547 CTGTACCACCACCACCCGC 62.895 68.421 0.00 0.00 0.00 6.13
917 1422 3.943691 GTACCACCACCACCCGCA 61.944 66.667 0.00 0.00 0.00 5.69
918 1423 3.943691 TACCACCACCACCCGCAC 61.944 66.667 0.00 0.00 0.00 5.34
982 1487 3.150335 CAGCCGAGCTAGCTCCCA 61.150 66.667 33.57 0.00 38.95 4.37
1047 1552 3.151022 CTCCTCCTCACCCTCGCC 61.151 72.222 0.00 0.00 0.00 5.54
1065 1570 4.767255 GCGCTGTCCCTGTCCCTG 62.767 72.222 0.00 0.00 0.00 4.45
1066 1571 3.314331 CGCTGTCCCTGTCCCTGT 61.314 66.667 0.00 0.00 0.00 4.00
1067 1572 2.665603 GCTGTCCCTGTCCCTGTC 59.334 66.667 0.00 0.00 0.00 3.51
1068 1573 2.960688 GCTGTCCCTGTCCCTGTCC 61.961 68.421 0.00 0.00 0.00 4.02
1241 1746 2.359975 CTCCAACAACCTCCCGCC 60.360 66.667 0.00 0.00 0.00 6.13
1479 1984 4.106925 CAGGAGCTCTGGGTGCCC 62.107 72.222 14.64 0.00 39.76 5.36
1673 2178 4.124351 CGTGCCGCTCCGAGGTAA 62.124 66.667 0.00 0.00 0.00 2.85
1688 2193 1.102978 GGTAATGCCGCCACAAAGAT 58.897 50.000 0.00 0.00 0.00 2.40
1713 2271 6.094603 TCTCTCTCCTTTTGCTATGCATTTTC 59.905 38.462 3.54 0.00 38.76 2.29
1731 2289 2.341846 TCGCCTCCTCTTTTTGTGTT 57.658 45.000 0.00 0.00 0.00 3.32
1732 2290 1.946768 TCGCCTCCTCTTTTTGTGTTG 59.053 47.619 0.00 0.00 0.00 3.33
1733 2291 1.676006 CGCCTCCTCTTTTTGTGTTGT 59.324 47.619 0.00 0.00 0.00 3.32
1734 2292 2.099098 CGCCTCCTCTTTTTGTGTTGTT 59.901 45.455 0.00 0.00 0.00 2.83
1735 2293 3.706698 GCCTCCTCTTTTTGTGTTGTTC 58.293 45.455 0.00 0.00 0.00 3.18
1792 2351 6.494893 TTTTGCGATAGTTTGCTACTGATT 57.505 33.333 2.79 0.00 37.73 2.57
1810 2369 3.569277 TGATTGTACATTGTGCTTGTGCT 59.431 39.130 6.45 0.00 40.48 4.40
1818 2379 6.609237 ACATTGTGCTTGTGCTATATGTAG 57.391 37.500 0.00 0.00 40.48 2.74
1863 2424 5.125100 ACAAATTATAGGATGCAATGGCG 57.875 39.130 0.00 0.00 45.35 5.69
1951 2513 2.367377 TGGAGGGAGCCATGGAGG 60.367 66.667 18.40 0.00 41.84 4.30
2103 2668 0.467844 AGTTGTGCTTGTGATGGGCA 60.468 50.000 0.00 0.00 0.00 5.36
2108 2673 2.137523 GTGCTTGTGATGGGCAAAAAG 58.862 47.619 0.00 0.00 37.73 2.27
2152 2718 7.338710 AGTTGCAACACATATCATACTACCTT 58.661 34.615 30.11 0.88 0.00 3.50
2217 2783 9.612620 CTGAAGTTATGAACAGTTAACATTTCC 57.387 33.333 8.61 0.00 32.03 3.13
2248 2814 4.028993 TGGTTGATTCCAGGAGGTTAAC 57.971 45.455 0.00 0.00 35.89 2.01
2314 2881 6.607198 TGTAGTACTACTAGCCGGGTTAAATT 59.393 38.462 28.56 0.00 37.00 1.82
2333 2900 6.377327 AAATTATCGTAGCAGGACCAAATG 57.623 37.500 0.00 0.00 0.00 2.32
2335 2902 2.380084 TCGTAGCAGGACCAAATGAC 57.620 50.000 0.00 0.00 0.00 3.06
2377 2945 8.412456 TCTGTCTTTTAATTTGCAAGTCATTCA 58.588 29.630 0.00 0.00 0.00 2.57
2419 2987 2.163613 CCTGGTTAATTTGCGTTCTCCC 59.836 50.000 0.00 0.00 0.00 4.30
2522 3090 3.077359 GCTGTCATCAAGCTTAACCTGT 58.923 45.455 0.00 0.00 0.00 4.00
2538 3106 3.849911 ACCTGTCATAGTGTCATGAACG 58.150 45.455 0.00 0.00 36.71 3.95
2566 3134 3.187700 CGCTTCCGCAAGTTAATACTCT 58.812 45.455 0.00 0.00 31.99 3.24
2567 3135 3.243177 CGCTTCCGCAAGTTAATACTCTC 59.757 47.826 0.00 0.00 31.99 3.20
2568 3136 3.556365 GCTTCCGCAAGTTAATACTCTCC 59.444 47.826 0.00 0.00 31.99 3.71
2572 3140 6.665992 TCCGCAAGTTAATACTCTCCATAT 57.334 37.500 0.00 0.00 31.99 1.78
2751 3342 0.930742 CGAACGCGAGCTACATCCTC 60.931 60.000 15.93 0.00 40.82 3.71
2811 3402 2.755650 ACTTGGCAGTGAGTAACTTCG 58.244 47.619 0.00 0.00 36.83 3.79
2817 3408 1.000955 CAGTGAGTAACTTCGTGGGCT 59.999 52.381 0.00 0.00 36.83 5.19
2860 3507 9.502091 TTCCTACTAAATCATAATGTACATGCC 57.498 33.333 9.63 0.00 0.00 4.40
2978 3625 0.036010 AATGCGGAGACCTGTTCCTG 60.036 55.000 0.00 0.00 32.34 3.86
3051 3698 2.261671 CCGGCTACACGAACAGCT 59.738 61.111 0.00 0.00 37.91 4.24
3116 3765 1.067416 CGGTGAGCGCTAGCCATTA 59.933 57.895 23.87 0.00 46.67 1.90
3222 3871 4.021925 GCAGCCGTCCCACTCCTT 62.022 66.667 0.00 0.00 0.00 3.36
3286 3935 2.490148 CGGGCTCCATGTCGCTCTA 61.490 63.158 2.40 0.00 0.00 2.43
3399 4055 2.101575 CATGTGCATGTGCGGCTC 59.898 61.111 0.00 0.00 45.83 4.70
3543 4203 1.423541 TGGCCTGGTGTTATCACTGTT 59.576 47.619 3.32 0.00 43.41 3.16
3601 4266 1.439679 GCTACAAACCGAACTCCAGG 58.560 55.000 0.00 0.00 0.00 4.45
3602 4267 1.439679 CTACAAACCGAACTCCAGGC 58.560 55.000 0.00 0.00 0.00 4.85
3603 4268 1.002087 CTACAAACCGAACTCCAGGCT 59.998 52.381 0.00 0.00 0.00 4.58
3604 4269 0.182775 ACAAACCGAACTCCAGGCTT 59.817 50.000 0.00 0.00 0.00 4.35
3605 4270 1.318576 CAAACCGAACTCCAGGCTTT 58.681 50.000 0.00 0.00 0.00 3.51
3606 4271 1.681264 CAAACCGAACTCCAGGCTTTT 59.319 47.619 0.00 0.00 0.00 2.27
3607 4272 2.882137 CAAACCGAACTCCAGGCTTTTA 59.118 45.455 0.00 0.00 0.00 1.52
3608 4273 2.943036 ACCGAACTCCAGGCTTTTAA 57.057 45.000 0.00 0.00 0.00 1.52
3609 4274 2.501261 ACCGAACTCCAGGCTTTTAAC 58.499 47.619 0.00 0.00 0.00 2.01
3610 4275 1.810755 CCGAACTCCAGGCTTTTAACC 59.189 52.381 0.00 0.00 0.00 2.85
3611 4276 2.500229 CGAACTCCAGGCTTTTAACCA 58.500 47.619 0.00 0.00 0.00 3.67
3612 4277 3.081804 CGAACTCCAGGCTTTTAACCAT 58.918 45.455 0.00 0.00 0.00 3.55
3613 4278 3.127030 CGAACTCCAGGCTTTTAACCATC 59.873 47.826 0.00 0.00 0.00 3.51
3614 4279 3.087370 ACTCCAGGCTTTTAACCATCC 57.913 47.619 0.00 0.00 0.00 3.51
3615 4280 2.017049 CTCCAGGCTTTTAACCATCCG 58.983 52.381 0.00 0.00 0.00 4.18
3616 4281 1.631388 TCCAGGCTTTTAACCATCCGA 59.369 47.619 0.00 0.00 0.00 4.55
3617 4282 2.040545 TCCAGGCTTTTAACCATCCGAA 59.959 45.455 0.00 0.00 0.00 4.30
3618 4283 2.163613 CCAGGCTTTTAACCATCCGAAC 59.836 50.000 0.00 0.00 0.00 3.95
3619 4284 3.081804 CAGGCTTTTAACCATCCGAACT 58.918 45.455 0.00 0.00 0.00 3.01
3620 4285 3.127030 CAGGCTTTTAACCATCCGAACTC 59.873 47.826 0.00 0.00 0.00 3.01
3623 4288 3.119955 GCTTTTAACCATCCGAACTCCAC 60.120 47.826 0.00 0.00 0.00 4.02
3643 4308 4.987912 CCACGCTTTTAACCATGACAAATT 59.012 37.500 0.00 0.00 0.00 1.82
3669 4334 4.173256 CGTGTTTTTAGGATGGCAATTCC 58.827 43.478 0.00 0.00 0.00 3.01
3752 4588 5.221422 GGGAATTTTCATCCTTGTGTCAACA 60.221 40.000 0.00 0.00 37.14 3.33
3770 4606 9.810231 GTGTCAACATAATTTGCCATTAAAAAG 57.190 29.630 0.00 0.00 0.00 2.27
3793 4629 2.216488 CGTTCACTATGGATTCTTCGCG 59.784 50.000 0.00 0.00 0.00 5.87
3794 4630 3.444916 GTTCACTATGGATTCTTCGCGA 58.555 45.455 3.71 3.71 0.00 5.87
3804 4640 4.328983 TGGATTCTTCGCGATTAAAGACAC 59.671 41.667 10.88 6.16 31.46 3.67
3814 4650 7.970384 TCGCGATTAAAGACACATAAGAAATT 58.030 30.769 3.71 0.00 0.00 1.82
3825 4661 6.895782 ACACATAAGAAATTAGATTCGGGGA 58.104 36.000 0.00 0.00 34.46 4.81
3828 4665 7.880195 CACATAAGAAATTAGATTCGGGGAGAT 59.120 37.037 0.00 0.00 34.46 2.75
3853 4690 3.131223 GTGGCTAGTCAATGCTAGACTCA 59.869 47.826 15.12 8.06 45.13 3.41
3866 4703 7.838079 ATGCTAGACTCAGAGAACAATATCT 57.162 36.000 3.79 0.00 0.00 1.98
3961 4798 9.979578 ACACAAAATAAATCAAGACAGCAATAA 57.020 25.926 0.00 0.00 0.00 1.40
3970 4807 6.882610 TCAAGACAGCAATAACACAGATTT 57.117 33.333 0.00 0.00 0.00 2.17
3971 4808 6.902341 TCAAGACAGCAATAACACAGATTTC 58.098 36.000 0.00 0.00 0.00 2.17
3979 4816 9.791820 CAGCAATAACACAGATTTCATTAATCA 57.208 29.630 0.00 0.00 44.25 2.57
3986 4823 5.911280 CACAGATTTCATTAATCATGCGGAC 59.089 40.000 0.00 0.00 44.25 4.79
4065 4929 3.070734 CCATGATCTCGAACAAGAGGGAT 59.929 47.826 0.00 0.00 38.71 3.85
4067 4931 5.221521 CCATGATCTCGAACAAGAGGGATAA 60.222 44.000 0.00 0.00 38.71 1.75
4098 4962 1.675310 TGCAATGGGAGCAGAACCG 60.675 57.895 0.00 0.00 37.02 4.44
4105 4969 2.617274 GGAGCAGAACCGTTGGCAC 61.617 63.158 7.14 1.67 0.00 5.01
4108 4972 2.908073 GCAGAACCGTTGGCACTGG 61.908 63.158 2.74 2.74 32.71 4.00
4149 5013 1.446272 GAAGAGGTTGGCGAGGTCG 60.446 63.158 0.00 0.00 43.27 4.79
4164 5028 1.530013 GGTCGGGGAAGAAGTCGTCA 61.530 60.000 0.00 0.00 0.00 4.35
4169 5033 1.087501 GGGAAGAAGTCGTCATTGCC 58.912 55.000 0.00 0.00 0.00 4.52
4171 5035 1.734465 GGAAGAAGTCGTCATTGCCAG 59.266 52.381 0.00 0.00 0.00 4.85
4198 5063 2.783440 CGAGTGCGCTTCCAAAAAC 58.217 52.632 9.73 0.00 0.00 2.43
4212 5077 2.290323 CCAAAAACCTGATCGTCCCTCT 60.290 50.000 0.00 0.00 0.00 3.69
4229 5094 1.749634 CTCTCCCGTAAAGGATCACGT 59.250 52.381 0.00 0.00 45.00 4.49
4236 5101 0.174845 TAAAGGATCACGTGAGGCGG 59.825 55.000 24.41 0.00 46.52 6.13
4242 5107 4.308458 CACGTGAGGCGGGGTTCA 62.308 66.667 10.90 0.00 46.52 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.454600 TACTCGTCCGACTCCATTGC 59.545 55.000 0.00 0.00 0.00 3.56
1 2 2.933495 TTACTCGTCCGACTCCATTG 57.067 50.000 0.00 0.00 0.00 2.82
2 3 3.947910 TTTTACTCGTCCGACTCCATT 57.052 42.857 0.00 0.00 0.00 3.16
3 4 3.947910 TTTTTACTCGTCCGACTCCAT 57.052 42.857 0.00 0.00 0.00 3.41
87 88 2.280708 CGATCATACGAACCGTCCAAAC 59.719 50.000 0.00 0.00 41.54 2.93
104 105 1.520564 TGCCCATACGCACACGATC 60.521 57.895 0.00 0.00 43.93 3.69
138 139 3.350612 CCGTCGGGCGAGCAAAAA 61.351 61.111 2.31 0.00 44.77 1.94
157 158 2.593436 ACCCGTTGAAACCGGCTG 60.593 61.111 0.00 0.00 44.13 4.85
160 161 1.964373 CAGGACCCGTTGAAACCGG 60.964 63.158 0.00 0.00 45.07 5.28
162 163 2.265904 GGCAGGACCCGTTGAAACC 61.266 63.158 0.00 0.00 0.00 3.27
163 164 1.228154 AGGCAGGACCCGTTGAAAC 60.228 57.895 0.00 0.00 40.58 2.78
170 171 1.672356 CAAGAACAGGCAGGACCCG 60.672 63.158 0.00 0.00 40.58 5.28
175 176 2.036256 CCCCCAAGAACAGGCAGG 59.964 66.667 0.00 0.00 0.00 4.85
192 193 4.937431 GGTCCTATGCAGGCCGCC 62.937 72.222 15.40 0.00 42.30 6.13
217 218 4.465512 CACTTGGCACGGCGCATC 62.466 66.667 10.83 0.00 45.17 3.91
243 250 1.768684 GAACTCTGTGGCACCAGGGA 61.769 60.000 16.26 7.28 36.39 4.20
246 253 0.109342 AAGGAACTCTGTGGCACCAG 59.891 55.000 16.26 13.31 38.49 4.00
253 260 5.828299 TTGTTTACCAAAGGAACTCTGTG 57.172 39.130 0.00 0.00 38.49 3.66
259 266 5.286797 GTCAACGTTTGTTTACCAAAGGAAC 59.713 40.000 0.00 5.92 46.77 3.62
260 267 5.400703 GTCAACGTTTGTTTACCAAAGGAA 58.599 37.500 0.00 0.00 46.77 3.36
261 268 4.437121 CGTCAACGTTTGTTTACCAAAGGA 60.437 41.667 0.00 0.00 46.77 3.36
263 270 4.649977 TCGTCAACGTTTGTTTACCAAAG 58.350 39.130 0.00 0.00 43.52 2.77
274 281 4.145876 TCGTATGTACTCGTCAACGTTT 57.854 40.909 0.00 0.00 40.80 3.60
336 343 4.098196 TGATGTTAATGTCATGCATGGGTG 59.902 41.667 25.97 2.33 37.96 4.61
337 344 4.098349 GTGATGTTAATGTCATGCATGGGT 59.902 41.667 25.97 9.91 37.96 4.51
341 348 3.947196 ACCGTGATGTTAATGTCATGCAT 59.053 39.130 0.00 0.00 40.03 3.96
342 349 3.126686 CACCGTGATGTTAATGTCATGCA 59.873 43.478 0.00 0.00 31.54 3.96
343 350 3.683989 CACCGTGATGTTAATGTCATGC 58.316 45.455 0.00 0.00 31.54 4.06
344 351 3.487376 GGCACCGTGATGTTAATGTCATG 60.487 47.826 1.65 5.67 0.00 3.07
345 352 2.682856 GGCACCGTGATGTTAATGTCAT 59.317 45.455 1.65 0.00 0.00 3.06
346 353 2.080693 GGCACCGTGATGTTAATGTCA 58.919 47.619 1.65 0.00 0.00 3.58
347 354 2.080693 TGGCACCGTGATGTTAATGTC 58.919 47.619 1.65 0.00 0.00 3.06
348 355 1.810151 GTGGCACCGTGATGTTAATGT 59.190 47.619 6.29 0.00 0.00 2.71
349 356 1.202020 CGTGGCACCGTGATGTTAATG 60.202 52.381 12.86 0.00 0.00 1.90
350 357 1.083489 CGTGGCACCGTGATGTTAAT 58.917 50.000 12.86 0.00 0.00 1.40
351 358 1.570347 GCGTGGCACCGTGATGTTAA 61.570 55.000 12.86 0.00 0.00 2.01
352 359 2.030401 GCGTGGCACCGTGATGTTA 61.030 57.895 12.86 0.00 0.00 2.41
353 360 3.353836 GCGTGGCACCGTGATGTT 61.354 61.111 12.86 0.00 0.00 2.71
365 372 1.062002 GTGATGTTAATGTCCGCGTGG 59.938 52.381 9.28 9.28 0.00 4.94
370 377 5.463499 TGAATTCGTGATGTTAATGTCCG 57.537 39.130 0.04 0.00 0.00 4.79
383 390 1.198867 TGCGGGTGAAATGAATTCGTG 59.801 47.619 0.00 0.00 41.18 4.35
384 391 1.529226 TGCGGGTGAAATGAATTCGT 58.471 45.000 0.04 0.00 41.18 3.85
427 634 9.675464 ACAGGAAGTGGATCGTAAATAAAATAA 57.325 29.630 0.00 0.00 0.00 1.40
429 636 8.575649 AACAGGAAGTGGATCGTAAATAAAAT 57.424 30.769 0.00 0.00 0.00 1.82
432 639 7.162761 TCAAACAGGAAGTGGATCGTAAATAA 58.837 34.615 0.00 0.00 0.00 1.40
433 640 6.703319 TCAAACAGGAAGTGGATCGTAAATA 58.297 36.000 0.00 0.00 0.00 1.40
434 641 5.556915 TCAAACAGGAAGTGGATCGTAAAT 58.443 37.500 0.00 0.00 0.00 1.40
435 642 4.963373 TCAAACAGGAAGTGGATCGTAAA 58.037 39.130 0.00 0.00 0.00 2.01
494 756 1.699730 AAGGCCCCAAGTTTGTACAC 58.300 50.000 0.00 0.00 0.00 2.90
523 785 6.377146 TCCATTTATTGCAGTTTTCCTCCTAC 59.623 38.462 0.00 0.00 0.00 3.18
524 786 6.377146 GTCCATTTATTGCAGTTTTCCTCCTA 59.623 38.462 0.00 0.00 0.00 2.94
525 787 5.185828 GTCCATTTATTGCAGTTTTCCTCCT 59.814 40.000 0.00 0.00 0.00 3.69
526 788 5.410924 GTCCATTTATTGCAGTTTTCCTCC 58.589 41.667 0.00 0.00 0.00 4.30
659 944 4.367023 TGGTCGCACGGTGTAGGC 62.367 66.667 10.24 5.94 0.00 3.93
660 945 2.126071 CTGGTCGCACGGTGTAGG 60.126 66.667 10.24 0.04 0.00 3.18
690 975 1.890876 TTGACGGGTGATCAAACCAG 58.109 50.000 15.70 9.16 42.47 4.00
691 976 2.350057 TTTGACGGGTGATCAAACCA 57.650 45.000 15.70 0.69 40.32 3.67
699 1002 2.112297 GCCTGGTTTGACGGGTGA 59.888 61.111 0.00 0.00 39.19 4.02
706 1009 1.327303 GTGGTCATTGCCTGGTTTGA 58.673 50.000 0.00 0.00 0.00 2.69
710 1013 2.440599 GGGTGGTCATTGCCTGGT 59.559 61.111 0.00 0.00 0.00 4.00
711 1014 2.362889 GGGGTGGTCATTGCCTGG 60.363 66.667 0.00 0.00 0.00 4.45
712 1015 1.978617 GTGGGGTGGTCATTGCCTG 60.979 63.158 0.00 0.00 0.00 4.85
713 1016 2.440599 GTGGGGTGGTCATTGCCT 59.559 61.111 0.00 0.00 0.00 4.75
715 1018 3.061848 CGGTGGGGTGGTCATTGC 61.062 66.667 0.00 0.00 0.00 3.56
801 1138 1.104577 GTAGAGGAGGAGAGCGGTGG 61.105 65.000 0.00 0.00 0.00 4.61
859 1363 1.486439 GTGTGTGGATTTGTTTGGCG 58.514 50.000 0.00 0.00 0.00 5.69
860 1364 1.486439 CGTGTGTGGATTTGTTTGGC 58.514 50.000 0.00 0.00 0.00 4.52
922 1427 0.106708 GAGAGTGGGACTGTGTTGCA 59.893 55.000 0.00 0.00 0.00 4.08
923 1428 0.603975 GGAGAGTGGGACTGTGTTGC 60.604 60.000 0.00 0.00 0.00 4.17
924 1429 0.035458 GGGAGAGTGGGACTGTGTTG 59.965 60.000 0.00 0.00 0.00 3.33
925 1430 0.399949 TGGGAGAGTGGGACTGTGTT 60.400 55.000 0.00 0.00 0.00 3.32
969 1474 2.049618 GCGATGGGAGCTAGCTCG 60.050 66.667 32.78 24.53 43.59 5.03
1057 1562 3.330720 GGTGGGGGACAGGGACAG 61.331 72.222 0.00 0.00 0.00 3.51
1058 1563 4.995058 GGGTGGGGGACAGGGACA 62.995 72.222 0.00 0.00 0.00 4.02
1566 2071 2.439883 GTCCCGTACTCCTCCGCT 60.440 66.667 0.00 0.00 0.00 5.52
1673 2178 0.254178 AGAGATCTTTGTGGCGGCAT 59.746 50.000 17.19 0.00 0.00 4.40
1688 2193 4.767578 ATGCATAGCAAAAGGAGAGAGA 57.232 40.909 0.00 0.00 43.62 3.10
1713 2271 1.676006 ACAACACAAAAAGAGGAGGCG 59.324 47.619 0.00 0.00 0.00 5.52
1731 2289 4.699637 ACGGTTTATCACTGAACAGAACA 58.300 39.130 8.87 0.00 35.45 3.18
1732 2290 5.668558 AACGGTTTATCACTGAACAGAAC 57.331 39.130 8.87 2.43 35.45 3.01
1733 2291 5.929992 CCTAACGGTTTATCACTGAACAGAA 59.070 40.000 8.87 0.00 35.45 3.02
1734 2292 5.244402 TCCTAACGGTTTATCACTGAACAGA 59.756 40.000 8.87 0.00 35.45 3.41
1735 2293 5.475719 TCCTAACGGTTTATCACTGAACAG 58.524 41.667 0.00 0.00 35.45 3.16
1792 2351 5.879777 ACATATAGCACAAGCACAATGTACA 59.120 36.000 0.00 0.00 45.49 2.90
1863 2424 0.109412 GCAGCTTCACATCAGCAACC 60.109 55.000 0.00 0.00 39.99 3.77
2145 2711 6.257586 AGACTCTAATCTGAACCAAGGTAGT 58.742 40.000 0.00 0.00 0.00 2.73
2146 2712 6.783708 AGACTCTAATCTGAACCAAGGTAG 57.216 41.667 0.00 0.00 0.00 3.18
2152 2718 7.687837 GCATATCCAAGACTCTAATCTGAACCA 60.688 40.741 0.00 0.00 0.00 3.67
2217 2783 4.065088 CTGGAATCAACCATACCATACGG 58.935 47.826 0.00 0.00 39.34 4.02
2248 2814 4.833478 TTCCTCAGAGAAAGAAGATGGG 57.167 45.455 0.00 0.00 0.00 4.00
2314 2881 3.704566 AGTCATTTGGTCCTGCTACGATA 59.295 43.478 0.00 0.00 0.00 2.92
2333 2900 5.048083 AGACAGACAGATTCTTGACTGAGTC 60.048 44.000 5.47 5.47 41.34 3.36
2335 2902 5.389859 AGACAGACAGATTCTTGACTGAG 57.610 43.478 16.08 0.00 41.34 3.35
2396 2964 3.119955 GGAGAACGCAAATTAACCAGGTC 60.120 47.826 0.00 0.00 0.00 3.85
2419 2987 7.210718 ACATATACAGGCATTGTCATGAATG 57.789 36.000 15.77 0.00 41.29 2.67
2522 3090 5.343860 CGTTACAACGTTCATGACACTATGA 59.656 40.000 0.00 0.00 46.63 2.15
2566 3134 9.114952 TCGCAAACAAAAAGTATATGATATGGA 57.885 29.630 0.00 0.00 0.00 3.41
2567 3135 9.385902 CTCGCAAACAAAAAGTATATGATATGG 57.614 33.333 0.00 0.00 0.00 2.74
2568 3136 9.385902 CCTCGCAAACAAAAAGTATATGATATG 57.614 33.333 0.00 0.00 0.00 1.78
2572 3140 5.941058 TCCCTCGCAAACAAAAAGTATATGA 59.059 36.000 0.00 0.00 0.00 2.15
2733 3324 0.100682 TGAGGATGTAGCTCGCGTTC 59.899 55.000 5.77 0.00 0.00 3.95
2751 3342 1.081242 GATGCAGTTGTTGGCCGTG 60.081 57.895 0.00 0.00 0.00 4.94
2805 3396 0.037232 GCTGACTAGCCCACGAAGTT 60.037 55.000 0.00 0.00 41.58 2.66
2817 3408 5.717178 AGTAGGAATGACAAGAAGCTGACTA 59.283 40.000 0.00 0.00 0.00 2.59
2850 3441 3.753272 GTCAGTTTCAGTGGCATGTACAT 59.247 43.478 1.41 1.41 0.00 2.29
2860 3507 5.235186 AGTTCAGATTTCGTCAGTTTCAGTG 59.765 40.000 0.00 0.00 0.00 3.66
3051 3698 1.945354 GCGAGGATGGTGAACGAGGA 61.945 60.000 0.00 0.00 0.00 3.71
3116 3765 6.147864 ACACAACAATGAAAATGTACAGCT 57.852 33.333 0.33 0.00 0.00 4.24
3222 3871 2.933287 ACCCCAATCTGGACGCCA 60.933 61.111 0.00 0.00 40.96 5.69
3286 3935 1.071471 CAGAAACCCGAGGCACAGT 59.929 57.895 0.00 0.00 0.00 3.55
3399 4055 1.468520 CTAACACATCCTGCAAACCGG 59.531 52.381 0.00 0.00 0.00 5.28
3456 4112 2.292016 CGATCTGATCTACGAGCACCTT 59.708 50.000 15.16 0.00 0.00 3.50
3543 4203 4.231890 AGAGGGTCCCCATTTTATAGCAAA 59.768 41.667 3.51 0.00 38.92 3.68
3601 4266 3.078837 TGGAGTTCGGATGGTTAAAAGC 58.921 45.455 0.00 0.00 0.00 3.51
3602 4267 3.124636 CGTGGAGTTCGGATGGTTAAAAG 59.875 47.826 0.00 0.00 0.00 2.27
3603 4268 3.068560 CGTGGAGTTCGGATGGTTAAAA 58.931 45.455 0.00 0.00 0.00 1.52
3604 4269 2.690786 CGTGGAGTTCGGATGGTTAAA 58.309 47.619 0.00 0.00 0.00 1.52
3605 4270 1.673626 GCGTGGAGTTCGGATGGTTAA 60.674 52.381 0.00 0.00 0.00 2.01
3606 4271 0.108520 GCGTGGAGTTCGGATGGTTA 60.109 55.000 0.00 0.00 0.00 2.85
3607 4272 1.375523 GCGTGGAGTTCGGATGGTT 60.376 57.895 0.00 0.00 0.00 3.67
3608 4273 1.827399 AAGCGTGGAGTTCGGATGGT 61.827 55.000 0.00 0.00 0.00 3.55
3609 4274 0.673644 AAAGCGTGGAGTTCGGATGG 60.674 55.000 0.00 0.00 0.00 3.51
3610 4275 1.156736 AAAAGCGTGGAGTTCGGATG 58.843 50.000 0.00 0.00 0.00 3.51
3611 4276 2.740447 GTTAAAAGCGTGGAGTTCGGAT 59.260 45.455 0.00 0.00 0.00 4.18
3612 4277 2.137523 GTTAAAAGCGTGGAGTTCGGA 58.862 47.619 0.00 0.00 0.00 4.55
3613 4278 1.196127 GGTTAAAAGCGTGGAGTTCGG 59.804 52.381 0.00 0.00 0.00 4.30
3614 4279 1.868498 TGGTTAAAAGCGTGGAGTTCG 59.132 47.619 0.00 0.00 0.00 3.95
3615 4280 3.500680 TCATGGTTAAAAGCGTGGAGTTC 59.499 43.478 12.71 0.00 42.18 3.01
3616 4281 3.252458 GTCATGGTTAAAAGCGTGGAGTT 59.748 43.478 12.71 0.00 42.18 3.01
3617 4282 2.812011 GTCATGGTTAAAAGCGTGGAGT 59.188 45.455 12.71 0.00 42.18 3.85
3618 4283 2.811431 TGTCATGGTTAAAAGCGTGGAG 59.189 45.455 12.71 0.00 42.18 3.86
3619 4284 2.852449 TGTCATGGTTAAAAGCGTGGA 58.148 42.857 12.71 0.16 42.18 4.02
3620 4285 3.634568 TTGTCATGGTTAAAAGCGTGG 57.365 42.857 12.71 0.00 42.18 4.94
3623 4288 7.096394 ACGTTTAATTTGTCATGGTTAAAAGCG 60.096 33.333 0.00 0.00 32.52 4.68
3643 4308 5.769484 TTGCCATCCTAAAAACACGTTTA 57.231 34.783 0.00 0.00 31.63 2.01
3669 4334 3.619929 GGAATTGCCATGCTTGCTAAAAG 59.380 43.478 0.00 0.00 36.34 2.27
3752 4588 6.876257 TGAACGCCTTTTTAATGGCAAATTAT 59.124 30.769 16.62 0.07 46.42 1.28
3770 4606 2.540101 CGAAGAATCCATAGTGAACGCC 59.460 50.000 0.00 0.00 0.00 5.68
3776 4612 6.420903 TCTTTAATCGCGAAGAATCCATAGTG 59.579 38.462 15.24 0.00 0.00 2.74
3777 4613 6.421202 GTCTTTAATCGCGAAGAATCCATAGT 59.579 38.462 15.24 0.00 34.00 2.12
3804 4640 9.944376 TTATCTCCCCGAATCTAATTTCTTATG 57.056 33.333 0.00 0.00 0.00 1.90
3814 4650 2.897969 GCCACTTATCTCCCCGAATCTA 59.102 50.000 0.00 0.00 0.00 1.98
3825 4661 5.835819 TCTAGCATTGACTAGCCACTTATCT 59.164 40.000 9.11 0.00 39.64 1.98
3828 4665 4.956700 AGTCTAGCATTGACTAGCCACTTA 59.043 41.667 4.78 0.00 42.28 2.24
3882 4719 8.278729 TGCTCATATTTTCAACATGATGTACA 57.721 30.769 0.00 0.00 0.00 2.90
3913 4750 9.389755 TGTGTTTATTCGGATTAAATCTCATCA 57.610 29.630 7.97 0.09 0.00 3.07
3950 4787 7.458409 AATGAAATCTGTGTTATTGCTGTCT 57.542 32.000 0.00 0.00 0.00 3.41
3961 4798 5.589855 TCCGCATGATTAATGAAATCTGTGT 59.410 36.000 0.00 0.00 43.83 3.72
3964 4801 6.309712 AGTCCGCATGATTAATGAAATCTG 57.690 37.500 0.00 0.00 43.83 2.90
3970 4807 4.335400 TGCTAGTCCGCATGATTAATGA 57.665 40.909 0.00 0.00 38.72 2.57
3986 4823 5.470437 TCGGTCTGTTCATCTACTATGCTAG 59.530 44.000 0.00 0.00 0.00 3.42
4007 4844 3.574396 TCTGGTCTATGCCTTAGATTCGG 59.426 47.826 0.00 0.46 39.14 4.30
4046 4910 5.932619 TTTATCCCTCTTGTTCGAGATCA 57.067 39.130 0.00 0.00 32.74 2.92
4050 4914 5.874810 TGTGATTTTATCCCTCTTGTTCGAG 59.125 40.000 0.00 0.00 0.00 4.04
4098 4962 2.331451 GACAACGCCAGTGCCAAC 59.669 61.111 0.00 0.00 0.00 3.77
4149 5013 1.087501 GCAATGACGACTTCTTCCCC 58.912 55.000 0.00 0.00 0.00 4.81
4190 5054 1.702957 AGGGACGATCAGGTTTTTGGA 59.297 47.619 0.00 0.00 0.00 3.53
4193 5057 2.027100 GGAGAGGGACGATCAGGTTTTT 60.027 50.000 0.00 0.00 0.00 1.94
4198 5063 2.196925 CGGGAGAGGGACGATCAGG 61.197 68.421 0.00 0.00 0.00 3.86
4229 5094 3.003173 CTCCTGAACCCCGCCTCA 61.003 66.667 0.00 0.00 0.00 3.86
4242 5107 1.464198 AAGGGACAACAGGCCTCCT 60.464 57.895 0.00 1.33 0.00 3.69
4280 5145 1.134250 GCAAGTCTTCTCCATCCCTCC 60.134 57.143 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.