Multiple sequence alignment - TraesCS2D01G396000

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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 TraesCS2D01G396000 chr2D 100.000 3290 0 0 1 3290 507048461 507051750 0.000000e+00 6076.0
1 TraesCS2D01G396000 chr2A 92.405 2291 103 27 358 2585 651801018 651803300 0.000000e+00 3201.0
2 TraesCS2D01G396000 chr2A 82.581 465 28 27 2855 3290 651803535 651803975 8.680000e-96 361.0
3 TraesCS2D01G396000 chr2A 90.310 258 15 7 1 253 651800770 651801022 2.450000e-86 329.0
4 TraesCS2D01G396000 chr2B 91.608 2133 85 35 695 2764 595125131 595127232 0.000000e+00 2861.0
5 TraesCS2D01G396000 chr2B 88.300 453 18 18 2855 3285 595127959 595128398 8.140000e-141 510.0
6 TraesCS2D01G396000 chr2B 81.314 685 68 24 1 673 595124332 595124968 4.900000e-138 501.0
7 TraesCS2D01G396000 chr1B 97.619 42 1 0 2980 3021 331072514 331072555 4.550000e-09 73.1


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 TraesCS2D01G396000 chr2D 507048461 507051750 3289 False 6076.000000 6076 100.000 1 3290 1 chr2D.!!$F1 3289
1 TraesCS2D01G396000 chr2A 651800770 651803975 3205 False 1297.000000 3201 88.432 1 3290 3 chr2A.!!$F1 3289
2 TraesCS2D01G396000 chr2B 595124332 595128398 4066 False 1290.666667 2861 87.074 1 3285 3 chr2B.!!$F1 3284

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
147 152 0.734889 CCAAACCATGATCGTCTGCC 59.265 55.0 0.0 0.0 0.0 4.85 F
787 984 0.816825 CCCCACCGCAGAAGATCATG 60.817 60.0 0.0 0.0 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2083 2301 0.102844 TTCGGTTTCGTCTTGTCGGT 59.897 50.0 0.0 0.0 37.69 4.69 R
2292 2510 0.321653 GATGTCGAACACTTGGGGCT 60.322 55.0 0.0 0.0 0.00 5.19 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
25 26 5.346551 CCGTTTCTTTTTCTTTTCCGTGTTT 59.653 36.000 0.00 0.00 0.00 2.83
147 152 0.734889 CCAAACCATGATCGTCTGCC 59.265 55.000 0.00 0.00 0.00 4.85
200 205 1.609555 AGGCGCGTCCAAATAAAAACA 59.390 42.857 19.30 0.00 37.29 2.83
201 206 2.230266 AGGCGCGTCCAAATAAAAACAT 59.770 40.909 19.30 0.00 37.29 2.71
252 262 7.670364 ACACCAGGGAATTTTAAGATTTGAAG 58.330 34.615 0.00 0.00 0.00 3.02
257 267 6.725834 AGGGAATTTTAAGATTTGAAGCTCCA 59.274 34.615 0.00 0.00 0.00 3.86
268 278 9.866798 AAGATTTGAAGCTCCAAAGAAATTATC 57.133 29.630 3.96 0.00 39.13 1.75
269 279 8.473219 AGATTTGAAGCTCCAAAGAAATTATCC 58.527 33.333 3.96 0.00 39.13 2.59
270 280 7.781324 TTTGAAGCTCCAAAGAAATTATCCT 57.219 32.000 0.00 0.00 32.77 3.24
271 281 7.781324 TTGAAGCTCCAAAGAAATTATCCTT 57.219 32.000 0.00 0.00 0.00 3.36
272 282 7.781324 TGAAGCTCCAAAGAAATTATCCTTT 57.219 32.000 0.00 0.00 33.29 3.11
273 283 8.193953 TGAAGCTCCAAAGAAATTATCCTTTT 57.806 30.769 0.00 0.00 30.89 2.27
274 284 8.650490 TGAAGCTCCAAAGAAATTATCCTTTTT 58.350 29.630 0.00 0.00 30.89 1.94
277 287 8.753133 AGCTCCAAAGAAATTATCCTTTTTAGG 58.247 33.333 0.00 0.00 30.89 2.69
278 288 7.981789 GCTCCAAAGAAATTATCCTTTTTAGGG 59.018 37.037 0.00 0.00 30.89 3.53
279 289 8.374184 TCCAAAGAAATTATCCTTTTTAGGGG 57.626 34.615 0.00 0.00 30.89 4.79
280 290 7.047891 CCAAAGAAATTATCCTTTTTAGGGGC 58.952 38.462 0.00 0.00 30.89 5.80
281 291 6.808321 AAGAAATTATCCTTTTTAGGGGCC 57.192 37.500 0.00 0.00 0.00 5.80
282 292 5.216622 AGAAATTATCCTTTTTAGGGGCCC 58.783 41.667 17.12 17.12 0.00 5.80
283 293 4.635558 AATTATCCTTTTTAGGGGCCCA 57.364 40.909 27.72 8.13 0.00 5.36
284 294 4.635558 ATTATCCTTTTTAGGGGCCCAA 57.364 40.909 27.72 14.37 0.00 4.12
285 295 2.550277 ATCCTTTTTAGGGGCCCAAG 57.450 50.000 27.72 18.95 0.00 3.61
286 296 1.462426 TCCTTTTTAGGGGCCCAAGA 58.538 50.000 27.72 9.56 0.00 3.02
287 297 1.790157 TCCTTTTTAGGGGCCCAAGAA 59.210 47.619 27.72 16.30 0.00 2.52
288 298 2.180308 TCCTTTTTAGGGGCCCAAGAAA 59.820 45.455 27.72 18.51 0.00 2.52
289 299 3.181329 CCTTTTTAGGGGCCCAAGAAAT 58.819 45.455 27.72 4.91 0.00 2.17
290 300 3.587061 CCTTTTTAGGGGCCCAAGAAATT 59.413 43.478 27.72 4.03 0.00 1.82
291 301 4.780554 CCTTTTTAGGGGCCCAAGAAATTA 59.219 41.667 27.72 2.82 0.00 1.40
292 302 5.428457 CCTTTTTAGGGGCCCAAGAAATTAT 59.572 40.000 27.72 2.27 0.00 1.28
293 303 6.408092 CCTTTTTAGGGGCCCAAGAAATTATC 60.408 42.308 27.72 0.82 0.00 1.75
294 304 5.481615 TTTAGGGGCCCAAGAAATTATCT 57.518 39.130 27.72 9.74 41.32 1.98
295 305 3.319031 AGGGGCCCAAGAAATTATCTG 57.681 47.619 27.72 0.00 38.79 2.90
296 306 2.091111 AGGGGCCCAAGAAATTATCTGG 60.091 50.000 27.72 0.00 38.79 3.86
321 331 1.068679 GCCTTTTGCAGTCTCTTGAGC 60.069 52.381 0.00 0.00 40.77 4.26
325 335 2.556144 TTGCAGTCTCTTGAGCATGT 57.444 45.000 0.00 0.00 36.80 3.21
340 350 6.494893 TGAGCATGTCCTACACAAATTAAC 57.505 37.500 0.00 0.00 38.97 2.01
346 356 7.749126 GCATGTCCTACACAAATTAACACTTAC 59.251 37.037 0.00 0.00 38.97 2.34
364 374 6.861055 ACACTTACAATTTTTGTATGAAGCGG 59.139 34.615 15.87 6.34 44.85 5.52
420 430 6.604735 TTTTTATCGCTCATTTCTCCTAGC 57.395 37.500 0.00 0.00 0.00 3.42
437 447 7.272978 TCTCCTAGCAAACCAATGTATACTTC 58.727 38.462 4.17 0.00 0.00 3.01
444 454 6.378582 CAAACCAATGTATACTTCGCAAGTT 58.621 36.000 4.17 0.00 42.81 2.66
448 458 6.861055 ACCAATGTATACTTCGCAAGTTTTTG 59.139 34.615 4.17 2.87 42.81 2.44
457 467 6.791303 ACTTCGCAAGTTTTTGAATAGAACA 58.209 32.000 0.00 0.00 39.04 3.18
466 476 8.947055 AGTTTTTGAATAGAACAAGCAAATGT 57.053 26.923 0.00 0.00 34.24 2.71
479 489 7.422465 ACAAGCAAATGTATATCCCACAAAT 57.578 32.000 0.00 0.00 0.00 2.32
483 493 9.816354 AAGCAAATGTATATCCCACAAATAAAC 57.184 29.630 0.00 0.00 0.00 2.01
505 523 6.391227 ACAAGCAAATGCCTATGTTATACC 57.609 37.500 0.94 0.00 43.38 2.73
532 555 9.167311 AGTATAACTTTCACATTTCTGATGTCC 57.833 33.333 0.00 0.00 0.00 4.02
549 572 2.091055 TGTCCAGGGGAATCCACAAAAA 60.091 45.455 3.57 0.00 38.24 1.94
550 573 2.299013 GTCCAGGGGAATCCACAAAAAC 59.701 50.000 3.57 0.00 38.24 2.43
552 575 2.235016 CAGGGGAATCCACAAAAACGA 58.765 47.619 3.57 0.00 38.24 3.85
573 596 7.379098 ACGAGGTCCTATTTCTTTGATTTTC 57.621 36.000 0.00 0.00 0.00 2.29
574 597 6.940298 ACGAGGTCCTATTTCTTTGATTTTCA 59.060 34.615 0.00 0.00 0.00 2.69
577 600 7.550712 AGGTCCTATTTCTTTGATTTTCATGC 58.449 34.615 0.00 0.00 0.00 4.06
606 631 3.750371 TCACCGTTCAGAATGTCCAAAT 58.250 40.909 1.60 0.00 37.40 2.32
612 637 7.273381 CACCGTTCAGAATGTCCAAATTTTATC 59.727 37.037 1.60 0.00 37.40 1.75
675 700 7.116090 TCCACGTGCTAAAATGAATGAAAAATG 59.884 33.333 10.91 0.00 0.00 2.32
680 705 8.231837 GTGCTAAAATGAATGAAAAATGTGCAT 58.768 29.630 0.00 0.00 0.00 3.96
714 880 4.503910 TCTATTTCGACAGTGGTGAATGG 58.496 43.478 0.00 0.00 0.00 3.16
787 984 0.816825 CCCCACCGCAGAAGATCATG 60.817 60.000 0.00 0.00 0.00 3.07
858 1062 1.783979 ACCCAACCTAACCATGGTCAA 59.216 47.619 20.07 8.86 36.69 3.18
891 1095 3.655211 CCCAGCCTGGCCTCAACT 61.655 66.667 16.57 0.00 35.79 3.16
953 1167 4.602259 CCCACGCGTCACACCACT 62.602 66.667 9.86 0.00 0.00 4.00
954 1168 3.337889 CCACGCGTCACACCACTG 61.338 66.667 9.86 0.00 0.00 3.66
959 1173 4.602259 CGTCACACCACTGCCCGT 62.602 66.667 0.00 0.00 0.00 5.28
960 1174 2.665185 GTCACACCACTGCCCGTC 60.665 66.667 0.00 0.00 0.00 4.79
961 1175 3.936203 TCACACCACTGCCCGTCC 61.936 66.667 0.00 0.00 0.00 4.79
1131 1349 3.573110 ACTCGCTCTACAACAACTACCTT 59.427 43.478 0.00 0.00 0.00 3.50
1188 1406 3.991051 ACGGTGACCTGCCTCGTG 61.991 66.667 0.00 0.00 32.60 4.35
1521 1739 2.590092 GACCCCATCACCTTCCCG 59.410 66.667 0.00 0.00 0.00 5.14
2103 2321 0.782384 CCGACAAGACGAAACCGAAG 59.218 55.000 0.00 0.00 35.09 3.79
2292 2510 1.803289 CGCGACACTCCTCTGATCA 59.197 57.895 0.00 0.00 0.00 2.92
2383 2620 1.269413 GCCATTGAAATGCTCATCCGG 60.269 52.381 0.00 0.00 35.08 5.14
2503 2749 3.132111 TGCTATGATGCTCGTTCCAGTTA 59.868 43.478 0.00 0.00 0.00 2.24
2505 2751 4.387256 GCTATGATGCTCGTTCCAGTTATC 59.613 45.833 0.00 0.00 0.00 1.75
2506 2752 4.679373 ATGATGCTCGTTCCAGTTATCT 57.321 40.909 0.00 0.00 0.00 1.98
2507 2753 4.471904 TGATGCTCGTTCCAGTTATCTT 57.528 40.909 0.00 0.00 0.00 2.40
2508 2754 4.183865 TGATGCTCGTTCCAGTTATCTTG 58.816 43.478 0.00 0.00 0.00 3.02
2509 2755 3.953712 TGCTCGTTCCAGTTATCTTGA 57.046 42.857 0.00 0.00 0.00 3.02
2516 2765 5.065090 TCGTTCCAGTTATCTTGATGCATTG 59.935 40.000 0.00 0.00 0.00 2.82
2563 2813 3.954200 TCCTGATGCAGTTATCTTGCAA 58.046 40.909 0.00 0.00 42.12 4.08
2592 2849 6.896613 CGATGAAGTAACTTGTGATTTGATCG 59.103 38.462 2.22 2.22 0.00 3.69
2603 2863 8.166706 ACTTGTGATTTGATCGTACGAATTAAC 58.833 33.333 23.56 13.96 0.00 2.01
2606 2866 7.117454 GTGATTTGATCGTACGAATTAACTGG 58.883 38.462 23.56 0.00 0.00 4.00
2613 2873 5.409211 TCGTACGAATTAACTGGTGCATTA 58.591 37.500 17.11 0.00 0.00 1.90
2622 2882 1.535462 ACTGGTGCATTAGTTCGTTGC 59.465 47.619 0.00 0.00 36.91 4.17
2624 2884 1.535028 TGGTGCATTAGTTCGTTGCAG 59.465 47.619 0.00 0.00 46.18 4.41
2627 2887 3.226347 GTGCATTAGTTCGTTGCAGAAC 58.774 45.455 10.11 10.11 46.18 3.01
2643 2903 8.798748 GTTGCAGAACGTAGATTATACAGTAT 57.201 34.615 0.00 0.00 0.00 2.12
2644 2904 8.903723 GTTGCAGAACGTAGATTATACAGTATC 58.096 37.037 0.00 0.00 0.00 2.24
2645 2905 8.161699 TGCAGAACGTAGATTATACAGTATCA 57.838 34.615 0.00 0.00 0.00 2.15
2646 2906 8.074370 TGCAGAACGTAGATTATACAGTATCAC 58.926 37.037 0.00 0.00 0.00 3.06
2647 2907 7.537991 GCAGAACGTAGATTATACAGTATCACC 59.462 40.741 0.00 0.00 0.00 4.02
2648 2908 7.745155 CAGAACGTAGATTATACAGTATCACCG 59.255 40.741 0.00 0.00 0.00 4.94
2663 2923 6.087555 CAGTATCACCGTTTTGCACATTAAAC 59.912 38.462 2.27 2.27 0.00 2.01
2671 2931 6.575942 CCGTTTTGCACATTAAACAGTAGTAC 59.424 38.462 11.24 0.00 34.68 2.73
2673 2933 7.529519 CGTTTTGCACATTAAACAGTAGTACTC 59.470 37.037 0.00 0.00 34.68 2.59
2694 2959 2.866156 CCTACATTGCATCGTCGATTGT 59.134 45.455 4.63 10.00 0.00 2.71
2745 3050 2.590007 CTGGCCTACTGGATGCGC 60.590 66.667 3.32 0.00 34.57 6.09
2748 3053 2.187946 GCCTACTGGATGCGCACT 59.812 61.111 14.90 1.12 34.57 4.40
2753 3058 2.224042 CCTACTGGATGCGCACTTATCA 60.224 50.000 14.90 6.01 34.57 2.15
2754 3059 1.945387 ACTGGATGCGCACTTATCAG 58.055 50.000 14.90 17.69 0.00 2.90
2755 3060 1.208052 ACTGGATGCGCACTTATCAGT 59.792 47.619 14.90 18.34 0.00 3.41
2786 3091 3.408389 TTTTTGTGCGTGTGTGTGG 57.592 47.368 0.00 0.00 0.00 4.17
2787 3092 0.734253 TTTTTGTGCGTGTGTGTGGC 60.734 50.000 0.00 0.00 0.00 5.01
2788 3093 1.866853 TTTTGTGCGTGTGTGTGGCA 61.867 50.000 0.00 0.00 0.00 4.92
2789 3094 1.866853 TTTGTGCGTGTGTGTGGCAA 61.867 50.000 0.00 0.00 38.58 4.52
2790 3095 1.866853 TTGTGCGTGTGTGTGGCAAA 61.867 50.000 0.00 0.00 38.58 3.68
2791 3096 1.065600 GTGCGTGTGTGTGGCAAAT 59.934 52.632 0.00 0.00 38.58 2.32
2792 3097 0.934436 GTGCGTGTGTGTGGCAAATC 60.934 55.000 0.00 0.00 38.58 2.17
2793 3098 1.358402 GCGTGTGTGTGGCAAATCA 59.642 52.632 0.00 0.00 0.00 2.57
2794 3099 0.661187 GCGTGTGTGTGGCAAATCAG 60.661 55.000 0.00 0.00 0.00 2.90
2806 3111 3.745975 TGGCAAATCAGTGAAAGTACTCG 59.254 43.478 0.00 0.00 0.00 4.18
2810 3115 5.442909 GCAAATCAGTGAAAGTACTCGTACG 60.443 44.000 9.53 9.53 40.80 3.67
2818 3123 1.649664 AGTACTCGTACGAGCGTGAT 58.350 50.000 38.10 23.96 45.54 3.06
2822 3127 0.384477 CTCGTACGAGCGTGATAGCC 60.384 60.000 30.44 0.00 38.01 3.93
2824 3129 0.657659 CGTACGAGCGTGATAGCCTG 60.658 60.000 10.44 0.00 38.01 4.85
2825 3130 0.661552 GTACGAGCGTGATAGCCTGA 59.338 55.000 5.69 0.00 38.01 3.86
2827 3132 1.313091 ACGAGCGTGATAGCCTGACA 61.313 55.000 0.00 0.00 38.01 3.58
2828 3133 0.593518 CGAGCGTGATAGCCTGACAG 60.594 60.000 0.00 0.00 38.01 3.51
2829 3134 0.457851 GAGCGTGATAGCCTGACAGT 59.542 55.000 0.93 0.00 38.01 3.55
2830 3135 0.174389 AGCGTGATAGCCTGACAGTG 59.826 55.000 0.93 0.00 38.01 3.66
2832 3137 1.914634 CGTGATAGCCTGACAGTGAC 58.085 55.000 0.00 0.00 0.00 3.67
2834 3139 0.817654 TGATAGCCTGACAGTGACCG 59.182 55.000 0.00 0.00 0.00 4.79
2835 3140 0.528684 GATAGCCTGACAGTGACCGC 60.529 60.000 0.00 0.00 0.00 5.68
2836 3141 1.257750 ATAGCCTGACAGTGACCGCA 61.258 55.000 0.00 0.00 0.00 5.69
2837 3142 1.257750 TAGCCTGACAGTGACCGCAT 61.258 55.000 0.00 0.00 0.00 4.73
2838 3143 1.672356 GCCTGACAGTGACCGCATT 60.672 57.895 0.00 0.00 0.00 3.56
2839 3144 0.391130 GCCTGACAGTGACCGCATTA 60.391 55.000 0.00 0.00 0.00 1.90
2841 3146 2.002586 CCTGACAGTGACCGCATTAAG 58.997 52.381 0.00 0.00 0.00 1.85
2843 3148 2.926200 CTGACAGTGACCGCATTAAGAG 59.074 50.000 0.00 0.00 0.00 2.85
2844 3149 2.271800 GACAGTGACCGCATTAAGAGG 58.728 52.381 0.00 0.00 43.77 3.69
2846 3151 2.501723 ACAGTGACCGCATTAAGAGGAT 59.498 45.455 0.00 0.00 40.01 3.24
2847 3152 2.868583 CAGTGACCGCATTAAGAGGATG 59.131 50.000 0.00 0.00 40.01 3.51
2848 3153 2.501723 AGTGACCGCATTAAGAGGATGT 59.498 45.455 0.00 0.00 40.01 3.06
2849 3154 3.704566 AGTGACCGCATTAAGAGGATGTA 59.295 43.478 0.00 0.00 40.01 2.29
2851 3156 3.704566 TGACCGCATTAAGAGGATGTACT 59.295 43.478 0.00 0.00 40.01 2.73
2852 3157 4.891168 TGACCGCATTAAGAGGATGTACTA 59.109 41.667 0.00 0.00 40.01 1.82
2853 3158 5.361571 TGACCGCATTAAGAGGATGTACTAA 59.638 40.000 0.00 0.00 40.01 2.24
2868 3849 7.123847 AGGATGTACTAACCTTCTAAATCGTGT 59.876 37.037 0.00 0.00 0.00 4.49
2886 3867 1.182667 GTCCCATTAAGCCCACAACC 58.817 55.000 0.00 0.00 0.00 3.77
2887 3868 0.322997 TCCCATTAAGCCCACAACCG 60.323 55.000 0.00 0.00 0.00 4.44
2888 3869 0.610785 CCCATTAAGCCCACAACCGT 60.611 55.000 0.00 0.00 0.00 4.83
2910 3891 5.451908 GTTTCGAATTTGTCATCTTCTGCA 58.548 37.500 0.00 0.00 0.00 4.41
2911 3892 4.668576 TCGAATTTGTCATCTTCTGCAC 57.331 40.909 0.00 0.00 0.00 4.57
2918 3900 1.067565 GTCATCTTCTGCACGGAGTCA 60.068 52.381 0.00 0.00 41.61 3.41
2919 3901 1.203287 TCATCTTCTGCACGGAGTCAG 59.797 52.381 0.00 0.00 41.61 3.51
2920 3902 0.534412 ATCTTCTGCACGGAGTCAGG 59.466 55.000 0.00 0.00 41.61 3.86
2921 3903 0.539669 TCTTCTGCACGGAGTCAGGA 60.540 55.000 0.00 0.00 41.61 3.86
2923 3905 2.126307 CTGCACGGAGTCAGGACG 60.126 66.667 0.00 0.00 41.61 4.79
2924 3906 2.596338 TGCACGGAGTCAGGACGA 60.596 61.111 0.00 0.00 41.61 4.20
2925 3907 1.938657 CTGCACGGAGTCAGGACGAT 61.939 60.000 0.00 0.00 41.61 3.73
2926 3908 1.226717 GCACGGAGTCAGGACGATC 60.227 63.158 0.00 0.00 41.61 3.69
2927 3909 1.934220 GCACGGAGTCAGGACGATCA 61.934 60.000 0.00 0.00 41.61 2.92
2928 3910 0.179161 CACGGAGTCAGGACGATCAC 60.179 60.000 0.00 0.00 41.61 3.06
2929 3911 1.062685 CGGAGTCAGGACGATCACG 59.937 63.158 0.00 0.00 45.75 4.35
2930 3912 1.366854 CGGAGTCAGGACGATCACGA 61.367 60.000 0.00 0.00 42.66 4.35
2931 3913 0.809385 GGAGTCAGGACGATCACGAA 59.191 55.000 0.00 0.00 42.66 3.85
2932 3914 1.202200 GGAGTCAGGACGATCACGAAG 60.202 57.143 0.00 0.00 42.66 3.79
2933 3915 0.171455 AGTCAGGACGATCACGAAGC 59.829 55.000 0.00 0.00 42.66 3.86
2934 3916 0.109272 GTCAGGACGATCACGAAGCA 60.109 55.000 0.00 0.00 42.66 3.91
2935 3917 0.171231 TCAGGACGATCACGAAGCAG 59.829 55.000 0.00 0.00 42.66 4.24
2976 3958 1.102154 AGACTGGACGCATCTCTCAG 58.898 55.000 0.00 0.00 0.00 3.35
2978 3960 1.227205 CTGGACGCATCTCTCAGCC 60.227 63.158 0.00 0.00 0.00 4.85
3010 3995 4.035017 CAGCTCGACGTGTTTTGAATTTT 58.965 39.130 0.00 0.00 0.00 1.82
3025 4010 1.479368 ATTTTGGTGGCGCAATGGGT 61.479 50.000 10.83 0.00 0.00 4.51
3028 4013 2.093537 TTGGTGGCGCAATGGGTTTC 62.094 55.000 10.83 0.00 0.00 2.78
3031 4041 0.249657 GTGGCGCAATGGGTTTCAAA 60.250 50.000 10.83 0.00 0.00 2.69
3033 4043 0.865111 GGCGCAATGGGTTTCAAAAC 59.135 50.000 10.83 0.00 38.17 2.43
3036 4046 2.547634 GCGCAATGGGTTTCAAAACATT 59.452 40.909 0.30 3.74 40.63 2.71
3062 4072 6.817765 TTCCTAGACAAAATTTACTGCCTG 57.182 37.500 0.00 0.00 0.00 4.85
3088 4098 4.093556 GCTACTTTTTACCTACTGCAGCAG 59.906 45.833 21.54 21.54 37.52 4.24
3100 4110 2.649034 CAGCAGCAGCCTTGGTTG 59.351 61.111 0.00 0.00 43.56 3.77
3221 4232 1.373435 CCGTGGTCCCTGTAAAGCA 59.627 57.895 0.00 0.00 0.00 3.91
3245 4256 0.101399 CTCGTAGCAGCTCGAATGGT 59.899 55.000 15.01 7.12 35.69 3.55
3275 4286 1.024579 GGTCGTTCGTTGGATGCCAT 61.025 55.000 0.00 0.00 31.53 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
147 152 2.498167 CTGATATTTCCTGGGCCTTCG 58.502 52.381 4.53 0.00 0.00 3.79
155 160 5.240183 CCCATGTGTAAGCTGATATTTCCTG 59.760 44.000 0.00 0.00 0.00 3.86
218 223 2.452600 TTCCCTGGTGTTGAGCTTTT 57.547 45.000 0.00 0.00 0.00 2.27
222 227 4.522789 TCTTAAAATTCCCTGGTGTTGAGC 59.477 41.667 0.00 0.00 0.00 4.26
252 262 7.981789 CCCTAAAAAGGATAATTTCTTTGGAGC 59.018 37.037 0.00 0.00 33.96 4.70
257 267 6.157994 GGGCCCCTAAAAAGGATAATTTCTTT 59.842 38.462 12.23 0.00 35.01 2.52
265 275 3.203059 TCTTGGGCCCCTAAAAAGGATA 58.797 45.455 22.27 0.00 0.00 2.59
268 278 2.319025 TTCTTGGGCCCCTAAAAAGG 57.681 50.000 22.27 0.00 0.00 3.11
269 279 4.908601 AATTTCTTGGGCCCCTAAAAAG 57.091 40.909 22.27 16.13 0.00 2.27
270 280 6.156083 CAGATAATTTCTTGGGCCCCTAAAAA 59.844 38.462 22.27 14.83 29.93 1.94
271 281 5.660864 CAGATAATTTCTTGGGCCCCTAAAA 59.339 40.000 22.27 16.71 29.93 1.52
272 282 5.208121 CAGATAATTTCTTGGGCCCCTAAA 58.792 41.667 22.27 17.11 29.93 1.85
273 283 4.387437 CCAGATAATTTCTTGGGCCCCTAA 60.387 45.833 22.27 6.89 29.93 2.69
274 284 3.140144 CCAGATAATTTCTTGGGCCCCTA 59.860 47.826 22.27 6.40 29.93 3.53
275 285 2.091111 CCAGATAATTTCTTGGGCCCCT 60.091 50.000 22.27 0.79 29.93 4.79
276 286 2.319844 CCAGATAATTTCTTGGGCCCC 58.680 52.381 22.27 0.85 29.93 5.80
277 287 2.091333 TCCCAGATAATTTCTTGGGCCC 60.091 50.000 17.59 17.59 40.17 5.80
278 288 3.312736 TCCCAGATAATTTCTTGGGCC 57.687 47.619 13.31 0.00 40.17 5.80
279 289 4.442052 GCTTTCCCAGATAATTTCTTGGGC 60.442 45.833 13.31 4.80 40.17 5.36
280 290 4.100035 GGCTTTCCCAGATAATTTCTTGGG 59.900 45.833 12.35 12.35 41.00 4.12
281 291 4.958581 AGGCTTTCCCAGATAATTTCTTGG 59.041 41.667 0.00 0.00 38.39 3.61
282 292 6.535963 AAGGCTTTCCCAGATAATTTCTTG 57.464 37.500 0.00 0.00 35.39 3.02
283 293 7.389232 CAAAAGGCTTTCCCAGATAATTTCTT 58.611 34.615 13.76 0.00 35.39 2.52
284 294 6.575056 GCAAAAGGCTTTCCCAGATAATTTCT 60.575 38.462 13.76 0.00 40.25 2.52
285 295 5.582269 GCAAAAGGCTTTCCCAGATAATTTC 59.418 40.000 13.76 0.00 40.25 2.17
286 296 5.012975 TGCAAAAGGCTTTCCCAGATAATTT 59.987 36.000 13.76 0.00 45.15 1.82
287 297 4.531732 TGCAAAAGGCTTTCCCAGATAATT 59.468 37.500 13.76 0.00 45.15 1.40
288 298 4.095946 TGCAAAAGGCTTTCCCAGATAAT 58.904 39.130 13.76 0.00 45.15 1.28
289 299 3.505386 TGCAAAAGGCTTTCCCAGATAA 58.495 40.909 13.76 0.00 45.15 1.75
290 300 3.091545 CTGCAAAAGGCTTTCCCAGATA 58.908 45.455 24.25 5.76 45.15 1.98
291 301 1.897802 CTGCAAAAGGCTTTCCCAGAT 59.102 47.619 24.25 4.30 45.15 2.90
292 302 1.331214 CTGCAAAAGGCTTTCCCAGA 58.669 50.000 24.25 5.78 45.15 3.86
293 303 1.000171 GACTGCAAAAGGCTTTCCCAG 60.000 52.381 25.64 25.64 45.15 4.45
294 304 1.039856 GACTGCAAAAGGCTTTCCCA 58.960 50.000 13.76 11.92 45.15 4.37
295 305 1.270826 GAGACTGCAAAAGGCTTTCCC 59.729 52.381 13.76 7.83 44.41 3.97
296 306 2.234143 AGAGACTGCAAAAGGCTTTCC 58.766 47.619 13.76 8.19 44.41 3.13
297 307 3.316308 TCAAGAGACTGCAAAAGGCTTTC 59.684 43.478 13.76 2.15 44.41 2.62
298 308 3.290710 TCAAGAGACTGCAAAAGGCTTT 58.709 40.909 6.68 6.68 44.41 3.51
299 309 2.883386 CTCAAGAGACTGCAAAAGGCTT 59.117 45.455 0.00 0.00 44.41 4.35
301 311 1.068679 GCTCAAGAGACTGCAAAAGGC 60.069 52.381 0.32 0.00 45.13 4.35
302 312 2.224606 TGCTCAAGAGACTGCAAAAGG 58.775 47.619 0.32 0.00 32.12 3.11
303 313 3.252701 ACATGCTCAAGAGACTGCAAAAG 59.747 43.478 0.32 0.00 38.96 2.27
304 314 3.216800 ACATGCTCAAGAGACTGCAAAA 58.783 40.909 0.32 0.00 38.96 2.44
321 331 8.779303 TGTAAGTGTTAATTTGTGTAGGACATG 58.221 33.333 0.00 0.00 33.40 3.21
346 356 6.949578 ATGTTCCGCTTCATACAAAAATTG 57.050 33.333 0.00 0.00 0.00 2.32
405 415 3.347216 TGGTTTGCTAGGAGAAATGAGC 58.653 45.455 0.00 0.00 35.43 4.26
420 430 5.938322 ACTTGCGAAGTATACATTGGTTTG 58.062 37.500 5.50 0.00 40.69 2.93
437 447 5.458452 TGCTTGTTCTATTCAAAAACTTGCG 59.542 36.000 0.00 0.00 0.00 4.85
448 458 9.066892 TGGGATATACATTTGCTTGTTCTATTC 57.933 33.333 0.00 0.00 0.00 1.75
457 467 9.816354 GTTTATTTGTGGGATATACATTTGCTT 57.184 29.630 0.00 0.00 0.00 3.91
466 476 9.814899 CATTTGCTTGTTTATTTGTGGGATATA 57.185 29.630 0.00 0.00 0.00 0.86
467 477 7.280652 GCATTTGCTTGTTTATTTGTGGGATAT 59.719 33.333 0.00 0.00 38.21 1.63
479 489 8.410141 GGTATAACATAGGCATTTGCTTGTTTA 58.590 33.333 17.45 10.82 41.70 2.01
483 493 6.039717 ACTGGTATAACATAGGCATTTGCTTG 59.960 38.462 2.12 1.54 41.70 4.01
505 523 9.979270 GACATCAGAAATGTGAAAGTTATACTG 57.021 33.333 0.00 0.00 31.52 2.74
532 555 2.228822 CTCGTTTTTGTGGATTCCCCTG 59.771 50.000 0.00 0.00 35.38 4.45
549 572 6.940298 TGAAAATCAAAGAAATAGGACCTCGT 59.060 34.615 0.00 0.00 0.00 4.18
550 573 7.377766 TGAAAATCAAAGAAATAGGACCTCG 57.622 36.000 0.00 0.00 0.00 4.63
552 575 7.178983 TGCATGAAAATCAAAGAAATAGGACCT 59.821 33.333 0.00 0.00 0.00 3.85
573 596 2.226200 TGAACGGTGAAGACAATGCATG 59.774 45.455 0.00 0.00 0.00 4.06
574 597 2.485426 CTGAACGGTGAAGACAATGCAT 59.515 45.455 0.00 0.00 0.00 3.96
577 600 4.214119 ACATTCTGAACGGTGAAGACAATG 59.786 41.667 0.00 0.00 0.00 2.82
606 631 9.337091 GATGGTTTTCGAATTTTCTCGATAAAA 57.663 29.630 10.65 10.65 46.54 1.52
612 637 5.689819 AGTGATGGTTTTCGAATTTTCTCG 58.310 37.500 0.00 0.00 40.25 4.04
628 653 7.519488 CGTGGATATGATTTCTGAAAGTGATGG 60.519 40.741 8.95 0.00 33.76 3.51
675 700 9.982291 TCGAAATAGAAAACAAACTATATGCAC 57.018 29.630 0.00 0.00 0.00 4.57
683 708 6.317893 ACCACTGTCGAAATAGAAAACAAACT 59.682 34.615 0.00 0.00 0.00 2.66
699 865 5.621197 TTAAAATCCATTCACCACTGTCG 57.379 39.130 0.00 0.00 0.00 4.35
714 880 6.196079 AGATTGGCCTCGTCTTTTAAAATC 57.804 37.500 3.32 0.00 0.00 2.17
787 984 2.264166 AGCGCCTTGAGAGCTGTC 59.736 61.111 2.29 3.38 40.07 3.51
858 1062 0.861155 TGGGTTGGGTTGGGTTACAT 59.139 50.000 0.00 0.00 0.00 2.29
891 1095 1.108132 GGGTTTTTGGCGTGTGGGTA 61.108 55.000 0.00 0.00 0.00 3.69
1260 1478 0.394625 AGTAGTCGAGGAGGGTGAGC 60.395 60.000 0.00 0.00 0.00 4.26
1521 1739 3.412408 GGGGAGGTGAAGAGGCCC 61.412 72.222 0.00 0.00 38.08 5.80
2079 2297 1.525619 GGTTTCGTCTTGTCGGTCTTG 59.474 52.381 0.00 0.00 0.00 3.02
2083 2301 0.102844 TTCGGTTTCGTCTTGTCGGT 59.897 50.000 0.00 0.00 37.69 4.69
2206 2424 3.343421 GGTCGCGCCGTTCTTGTT 61.343 61.111 0.00 0.00 0.00 2.83
2292 2510 0.321653 GATGTCGAACACTTGGGGCT 60.322 55.000 0.00 0.00 0.00 5.19
2318 2536 3.753272 ACATCATGAGGAAAACAGAACGG 59.247 43.478 15.42 0.00 0.00 4.44
2383 2620 3.330267 CAACCAGGAAGAAGTACAGCTC 58.670 50.000 0.00 0.00 0.00 4.09
2516 2765 3.879892 GGAATGGAGTTCTTGGTAGATGC 59.120 47.826 0.00 0.00 37.01 3.91
2522 2771 4.728860 AGGATATGGAATGGAGTTCTTGGT 59.271 41.667 0.00 0.00 37.01 3.67
2563 2813 7.819415 TCAAATCACAAGTTACTTCATCGAGAT 59.181 33.333 0.00 0.00 0.00 2.75
2592 2849 6.657836 ACTAATGCACCAGTTAATTCGTAC 57.342 37.500 0.00 0.00 0.00 3.67
2603 2863 1.535028 TGCAACGAACTAATGCACCAG 59.465 47.619 0.00 0.00 44.52 4.00
2606 2866 3.226347 GTTCTGCAACGAACTAATGCAC 58.774 45.455 10.69 0.00 44.52 4.57
2622 2882 7.745155 CGGTGATACTGTATAATCTACGTTCTG 59.255 40.741 0.00 0.00 0.00 3.02
2624 2884 7.579726 ACGGTGATACTGTATAATCTACGTTC 58.420 38.462 0.00 0.00 35.60 3.95
2627 2887 8.688184 CAAAACGGTGATACTGTATAATCTACG 58.312 37.037 0.00 3.11 36.53 3.51
2628 2888 8.485591 GCAAAACGGTGATACTGTATAATCTAC 58.514 37.037 0.00 0.00 36.53 2.59
2630 2890 7.011109 GTGCAAAACGGTGATACTGTATAATCT 59.989 37.037 0.00 0.00 36.53 2.40
2631 2891 7.123830 GTGCAAAACGGTGATACTGTATAATC 58.876 38.462 0.00 0.00 36.53 1.75
2632 2892 6.596106 TGTGCAAAACGGTGATACTGTATAAT 59.404 34.615 0.00 0.00 36.53 1.28
2633 2893 5.932883 TGTGCAAAACGGTGATACTGTATAA 59.067 36.000 0.00 0.00 36.53 0.98
2634 2894 5.480205 TGTGCAAAACGGTGATACTGTATA 58.520 37.500 0.00 0.00 36.53 1.47
2635 2895 4.320023 TGTGCAAAACGGTGATACTGTAT 58.680 39.130 0.00 0.00 36.53 2.29
2636 2896 3.729966 TGTGCAAAACGGTGATACTGTA 58.270 40.909 0.00 0.00 36.53 2.74
2637 2897 2.566913 TGTGCAAAACGGTGATACTGT 58.433 42.857 0.00 0.00 39.91 3.55
2638 2898 3.829886 ATGTGCAAAACGGTGATACTG 57.170 42.857 0.00 0.00 0.00 2.74
2639 2899 5.950758 TTAATGTGCAAAACGGTGATACT 57.049 34.783 0.00 0.00 0.00 2.12
2640 2900 5.915758 TGTTTAATGTGCAAAACGGTGATAC 59.084 36.000 7.12 0.00 38.21 2.24
2641 2901 6.073327 TGTTTAATGTGCAAAACGGTGATA 57.927 33.333 7.12 0.00 38.21 2.15
2642 2902 4.938080 TGTTTAATGTGCAAAACGGTGAT 58.062 34.783 7.12 0.00 38.21 3.06
2643 2903 4.355437 CTGTTTAATGTGCAAAACGGTGA 58.645 39.130 10.98 0.00 38.21 4.02
2644 2904 4.690731 CTGTTTAATGTGCAAAACGGTG 57.309 40.909 10.98 0.69 38.21 4.94
2645 2905 4.379339 ACTGTTTAATGTGCAAAACGGT 57.621 36.364 16.81 16.81 45.70 4.83
2646 2906 5.516090 ACTACTGTTTAATGTGCAAAACGG 58.484 37.500 15.74 15.74 44.13 4.44
2647 2907 7.349711 AGTACTACTGTTTAATGTGCAAAACG 58.650 34.615 0.00 5.19 38.21 3.60
2648 2908 7.801783 GGAGTACTACTGTTTAATGTGCAAAAC 59.198 37.037 0.00 5.03 36.38 2.43
2671 2931 2.492019 TCGACGATGCAATGTAGGAG 57.508 50.000 0.00 0.00 0.00 3.69
2673 2933 2.866156 ACAATCGACGATGCAATGTAGG 59.134 45.455 11.83 0.00 0.00 3.18
2684 2949 1.996898 GGCACACATAACAATCGACGA 59.003 47.619 0.00 0.00 0.00 4.20
2712 3013 2.823154 GGCCAGCAGTACCACATTTTTA 59.177 45.455 0.00 0.00 0.00 1.52
2724 3029 1.910722 CATCCAGTAGGCCAGCAGT 59.089 57.895 5.01 0.00 33.74 4.40
2768 3073 0.734253 GCCACACACACGCACAAAAA 60.734 50.000 0.00 0.00 0.00 1.94
2769 3074 1.153939 GCCACACACACGCACAAAA 60.154 52.632 0.00 0.00 0.00 2.44
2770 3075 1.866853 TTGCCACACACACGCACAAA 61.867 50.000 0.00 0.00 30.84 2.83
2771 3076 1.866853 TTTGCCACACACACGCACAA 61.867 50.000 0.00 0.00 30.84 3.33
2772 3077 1.661498 ATTTGCCACACACACGCACA 61.661 50.000 0.00 0.00 30.84 4.57
2773 3078 0.934436 GATTTGCCACACACACGCAC 60.934 55.000 0.00 0.00 30.84 5.34
2774 3079 1.358402 GATTTGCCACACACACGCA 59.642 52.632 0.00 0.00 0.00 5.24
2775 3080 0.661187 CTGATTTGCCACACACACGC 60.661 55.000 0.00 0.00 0.00 5.34
2776 3081 0.662619 ACTGATTTGCCACACACACG 59.337 50.000 0.00 0.00 0.00 4.49
2777 3082 1.675483 TCACTGATTTGCCACACACAC 59.325 47.619 0.00 0.00 0.00 3.82
2778 3083 2.049888 TCACTGATTTGCCACACACA 57.950 45.000 0.00 0.00 0.00 3.72
2779 3084 3.181487 ACTTTCACTGATTTGCCACACAC 60.181 43.478 0.00 0.00 0.00 3.82
2780 3085 3.023119 ACTTTCACTGATTTGCCACACA 58.977 40.909 0.00 0.00 0.00 3.72
2781 3086 3.715628 ACTTTCACTGATTTGCCACAC 57.284 42.857 0.00 0.00 0.00 3.82
2782 3087 4.460263 AGTACTTTCACTGATTTGCCACA 58.540 39.130 0.00 0.00 0.00 4.17
2783 3088 4.377431 CGAGTACTTTCACTGATTTGCCAC 60.377 45.833 0.00 0.00 0.00 5.01
2784 3089 3.745975 CGAGTACTTTCACTGATTTGCCA 59.254 43.478 0.00 0.00 0.00 4.92
2785 3090 3.746492 ACGAGTACTTTCACTGATTTGCC 59.254 43.478 0.00 0.00 0.00 4.52
2786 3091 4.992381 ACGAGTACTTTCACTGATTTGC 57.008 40.909 0.00 0.00 0.00 3.68
2787 3092 5.854866 TCGTACGAGTACTTTCACTGATTTG 59.145 40.000 15.28 0.00 34.04 2.32
2788 3093 6.005583 TCGTACGAGTACTTTCACTGATTT 57.994 37.500 15.28 0.00 34.04 2.17
2789 3094 5.618056 TCGTACGAGTACTTTCACTGATT 57.382 39.130 15.28 0.00 34.04 2.57
2790 3095 4.437121 GCTCGTACGAGTACTTTCACTGAT 60.437 45.833 37.58 0.00 43.70 2.90
2791 3096 3.120408 GCTCGTACGAGTACTTTCACTGA 60.120 47.826 37.58 5.34 43.70 3.41
2792 3097 3.162068 GCTCGTACGAGTACTTTCACTG 58.838 50.000 37.58 15.93 43.70 3.66
2793 3098 2.159734 CGCTCGTACGAGTACTTTCACT 60.160 50.000 37.58 0.00 43.70 3.41
2794 3099 2.164427 CGCTCGTACGAGTACTTTCAC 58.836 52.381 37.58 21.65 43.70 3.18
2806 3111 0.661552 TCAGGCTATCACGCTCGTAC 59.338 55.000 0.00 0.00 0.00 3.67
2810 3115 0.457851 ACTGTCAGGCTATCACGCTC 59.542 55.000 4.53 0.00 0.00 5.03
2818 3123 1.257750 ATGCGGTCACTGTCAGGCTA 61.258 55.000 4.53 0.00 0.00 3.93
2822 3127 2.926200 CTCTTAATGCGGTCACTGTCAG 59.074 50.000 0.00 0.00 0.00 3.51
2824 3129 2.094182 TCCTCTTAATGCGGTCACTGTC 60.094 50.000 0.00 0.00 0.00 3.51
2825 3130 1.899814 TCCTCTTAATGCGGTCACTGT 59.100 47.619 0.00 0.00 0.00 3.55
2827 3132 2.501723 ACATCCTCTTAATGCGGTCACT 59.498 45.455 0.00 0.00 0.00 3.41
2828 3133 2.906354 ACATCCTCTTAATGCGGTCAC 58.094 47.619 0.00 0.00 0.00 3.67
2829 3134 3.704566 AGTACATCCTCTTAATGCGGTCA 59.295 43.478 0.00 0.00 0.00 4.02
2830 3135 4.323553 AGTACATCCTCTTAATGCGGTC 57.676 45.455 0.00 0.00 0.00 4.79
2832 3137 4.989168 GGTTAGTACATCCTCTTAATGCGG 59.011 45.833 0.00 0.00 0.00 5.69
2834 3139 7.501844 AGAAGGTTAGTACATCCTCTTAATGC 58.498 38.462 0.00 0.00 0.00 3.56
2839 3144 8.414778 CGATTTAGAAGGTTAGTACATCCTCTT 58.585 37.037 0.00 0.00 0.00 2.85
2841 3146 7.648510 CACGATTTAGAAGGTTAGTACATCCTC 59.351 40.741 0.00 0.00 0.00 3.71
2843 3148 7.263496 ACACGATTTAGAAGGTTAGTACATCC 58.737 38.462 0.00 0.00 0.00 3.51
2844 3149 7.434602 GGACACGATTTAGAAGGTTAGTACATC 59.565 40.741 0.00 0.00 0.00 3.06
2846 3151 6.350445 GGGACACGATTTAGAAGGTTAGTACA 60.350 42.308 0.00 0.00 0.00 2.90
2847 3152 6.038985 GGGACACGATTTAGAAGGTTAGTAC 58.961 44.000 0.00 0.00 0.00 2.73
2848 3153 5.716228 TGGGACACGATTTAGAAGGTTAGTA 59.284 40.000 0.00 0.00 0.00 1.82
2849 3154 4.529377 TGGGACACGATTTAGAAGGTTAGT 59.471 41.667 0.00 0.00 0.00 2.24
2868 3849 0.322997 CGGTTGTGGGCTTAATGGGA 60.323 55.000 0.00 0.00 0.00 4.37
2886 3867 4.551126 GCAGAAGATGACAAATTCGAAACG 59.449 41.667 0.00 0.00 0.00 3.60
2887 3868 5.340667 GTGCAGAAGATGACAAATTCGAAAC 59.659 40.000 0.00 0.00 0.00 2.78
2888 3869 5.451908 GTGCAGAAGATGACAAATTCGAAA 58.548 37.500 0.00 0.00 0.00 3.46
2910 3891 1.645704 CGTGATCGTCCTGACTCCGT 61.646 60.000 0.00 0.00 0.00 4.69
2911 3892 1.062685 CGTGATCGTCCTGACTCCG 59.937 63.158 0.00 0.00 0.00 4.63
2918 3900 1.107114 ATCTGCTTCGTGATCGTCCT 58.893 50.000 0.00 0.00 38.33 3.85
2919 3901 1.203928 CATCTGCTTCGTGATCGTCC 58.796 55.000 0.00 0.00 38.33 4.79
2920 3902 1.203928 CCATCTGCTTCGTGATCGTC 58.796 55.000 0.00 0.00 38.33 4.20
2921 3903 0.807667 GCCATCTGCTTCGTGATCGT 60.808 55.000 0.00 0.00 36.25 3.73
2923 3905 1.590932 ATGCCATCTGCTTCGTGATC 58.409 50.000 0.00 0.00 42.00 2.92
2924 3906 2.048444 AATGCCATCTGCTTCGTGAT 57.952 45.000 0.00 0.00 42.00 3.06
2925 3907 1.739466 GAAATGCCATCTGCTTCGTGA 59.261 47.619 0.00 0.00 42.00 4.35
2926 3908 1.202222 GGAAATGCCATCTGCTTCGTG 60.202 52.381 0.00 0.00 42.00 4.35
2927 3909 1.098050 GGAAATGCCATCTGCTTCGT 58.902 50.000 0.00 0.00 42.00 3.85
2928 3910 0.028505 CGGAAATGCCATCTGCTTCG 59.971 55.000 0.00 0.00 42.00 3.79
2929 3911 0.248784 GCGGAAATGCCATCTGCTTC 60.249 55.000 6.96 0.00 44.14 3.86
2930 3912 0.966875 TGCGGAAATGCCATCTGCTT 60.967 50.000 13.39 0.00 46.93 3.91
2931 3913 0.754217 ATGCGGAAATGCCATCTGCT 60.754 50.000 13.39 0.38 46.93 4.24
2932 3914 0.953727 TATGCGGAAATGCCATCTGC 59.046 50.000 7.21 7.21 46.98 4.26
2933 3915 3.713858 TTTATGCGGAAATGCCATCTG 57.286 42.857 0.00 0.00 35.94 2.90
2934 3916 4.247267 CATTTATGCGGAAATGCCATCT 57.753 40.909 9.43 0.00 39.31 2.90
2976 3958 1.061570 CGAGCTGCGATTTTCTGGC 59.938 57.895 0.00 0.00 44.57 4.85
3010 3995 2.522923 AAACCCATTGCGCCACCA 60.523 55.556 4.18 0.00 0.00 4.17
3036 4046 8.141268 CAGGCAGTAAATTTTGTCTAGGAAAAA 58.859 33.333 0.00 6.11 0.00 1.94
3041 4051 5.163854 CGACAGGCAGTAAATTTTGTCTAGG 60.164 44.000 13.67 0.54 34.35 3.02
3062 4072 4.240096 TGCAGTAGGTAAAAAGTAGCGAC 58.760 43.478 0.00 0.00 0.00 5.19
3088 4098 4.621087 ACCCCCAACCAAGGCTGC 62.621 66.667 0.00 0.00 0.00 5.25
3240 4251 1.560505 GACCATGGCCAAGAACCATT 58.439 50.000 10.96 0.00 45.86 3.16
3245 4256 0.953471 CGAACGACCATGGCCAAGAA 60.953 55.000 10.96 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.