Multiple sequence alignment - TraesCS5A01G178800

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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 TraesCS5A01G178800 chr5A 100.000 4855 0 0 1445 6299 376843018 376838164 0.000000e+00 8966.0
1 TraesCS5A01G178800 chr5A 100.000 1173 0 0 1 1173 376844462 376843290 0.000000e+00 2167.0
2 TraesCS5A01G178800 chr5B 96.043 3285 74 20 1451 4725 322332632 322329394 0.000000e+00 5295.0
3 TraesCS5A01G178800 chr5B 88.694 1371 69 25 4725 6049 322329353 322328023 0.000000e+00 1594.0
4 TraesCS5A01G178800 chr5B 88.731 772 44 10 422 1173 322333445 322332697 0.000000e+00 904.0
5 TraesCS5A01G178800 chr5B 92.079 101 3 1 6079 6174 322328025 322327925 3.060000e-28 137.0
6 TraesCS5A01G178800 chr5B 96.296 54 2 0 2778 2831 322331369 322331316 8.700000e-14 89.8
7 TraesCS5A01G178800 chr5D 95.816 1960 62 11 2778 4725 285028290 285026339 0.000000e+00 3147.0
8 TraesCS5A01G178800 chr5D 97.666 1328 28 2 1445 2770 285029565 285028239 0.000000e+00 2278.0
9 TraesCS5A01G178800 chr5D 89.062 1609 84 27 4726 6299 285026298 285024747 0.000000e+00 1912.0
10 TraesCS5A01G178800 chr5D 89.933 1202 80 19 1 1173 285030813 285029624 0.000000e+00 1511.0
11 TraesCS5A01G178800 chr1A 87.755 49 6 0 1122 1170 45696599 45696647 2.450000e-04 58.4
12 TraesCS5A01G178800 chr2D 100.000 29 0 0 5949 5977 542964942 542964970 3.000000e-03 54.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G178800 chr5A 376838164 376844462 6298 True 5566.50 8966 100.00000 1 6299 2 chr5A.!!$R1 6298
1 TraesCS5A01G178800 chr5B 322327925 322333445 5520 True 1603.96 5295 92.36860 422 6174 5 chr5B.!!$R1 5752
2 TraesCS5A01G178800 chr5D 285024747 285030813 6066 True 2212.00 3147 93.11925 1 6299 4 chr5D.!!$R1 6298

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
64 65 0.232816 GTTTCTTGCGGCGTCGTTTA 59.767 50.000 12.58 0.00 38.89 2.01 F
980 1028 0.752009 GGAATCCGGGAAGAAAGCCC 60.752 60.000 0.00 0.00 42.41 5.19 F
2289 2351 0.255890 GGGCATTCCTCTACTTGGCA 59.744 55.000 0.00 0.00 36.46 4.92 F
2779 2843 0.035739 TAGGGTGTTCTTTGCGGTCC 59.964 55.000 0.00 0.00 0.00 4.46 F
3572 3701 0.033796 ATGACAACCCTGAGCCCATG 60.034 55.000 0.00 0.00 0.00 3.66 F
4769 4951 1.128136 CAGCAGCTGTCATTCGAACAG 59.872 52.381 16.64 10.72 45.57 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1926 1988 0.394216 GCACATAGGACACCATGCCA 60.394 55.000 0.00 0.00 0.00 4.92 R
2760 2824 0.035739 GGACCGCAAAGAACACCCTA 59.964 55.000 0.00 0.00 0.00 3.53 R
3338 3467 4.090761 TCTGAGTTGAAAAGGCTGTCAT 57.909 40.909 2.30 0.00 0.00 3.06 R
4736 4918 5.163416 TGACAGCTGCTGTATAATGCTAAGA 60.163 40.000 33.04 3.27 45.44 2.10 R
5229 5423 0.667993 GACTCTGCAGGAGATCCGAG 59.332 60.000 15.13 3.70 44.45 4.63 R
6278 6523 1.133025 GACCAAATCTGCGGGAACATG 59.867 52.381 0.00 0.00 0.00 3.21 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
19 20 2.586258 GAGATAACCGAGCAAGCAGA 57.414 50.000 0.00 0.00 0.00 4.26
25 26 0.668535 ACCGAGCAAGCAGAAAAACC 59.331 50.000 0.00 0.00 0.00 3.27
40 41 0.326264 AAACCTGCTCCGCAAGAGAT 59.674 50.000 4.96 0.00 46.50 2.75
55 56 2.898705 AGAGATGCTAGTTTCTTGCGG 58.101 47.619 0.00 0.00 35.17 5.69
60 61 1.702299 CTAGTTTCTTGCGGCGTCG 59.298 57.895 4.29 4.29 39.81 5.12
64 65 0.232816 GTTTCTTGCGGCGTCGTTTA 59.767 50.000 12.58 0.00 38.89 2.01
65 66 1.136169 GTTTCTTGCGGCGTCGTTTAT 60.136 47.619 12.58 0.00 38.89 1.40
71 72 1.422269 CGGCGTCGTTTATGTTGGG 59.578 57.895 0.00 0.00 0.00 4.12
84 85 1.380302 GTTGGGTCACATGGCCTCT 59.620 57.895 3.32 0.00 40.38 3.69
88 89 2.265739 GTCACATGGCCTCTGCGA 59.734 61.111 3.32 0.00 38.85 5.10
96 97 1.301716 GGCCTCTGCGAACAACTCA 60.302 57.895 0.00 0.00 38.85 3.41
97 98 0.884704 GGCCTCTGCGAACAACTCAA 60.885 55.000 0.00 0.00 38.85 3.02
99 100 1.581934 CCTCTGCGAACAACTCAACA 58.418 50.000 0.00 0.00 0.00 3.33
112 113 2.248248 ACTCAACACGAGGAGATGGAA 58.752 47.619 0.00 0.00 46.98 3.53
114 115 1.550524 TCAACACGAGGAGATGGAAGG 59.449 52.381 0.00 0.00 0.00 3.46
129 130 1.771255 GGAAGGACCTGGATATGCACT 59.229 52.381 0.00 0.00 35.41 4.40
130 131 2.224402 GGAAGGACCTGGATATGCACTC 60.224 54.545 0.00 0.00 35.41 3.51
160 161 6.811665 CGTAGATGAAGTAACTTCCATGTCAA 59.188 38.462 0.00 0.00 39.51 3.18
161 162 7.009631 CGTAGATGAAGTAACTTCCATGTCAAG 59.990 40.741 0.00 0.00 39.51 3.02
165 166 5.071788 TGAAGTAACTTCCATGTCAAGACCT 59.928 40.000 8.31 0.03 39.51 3.85
211 213 2.601067 TTGTACCGGACGCCTCCA 60.601 61.111 9.46 0.00 36.12 3.86
212 214 2.934570 TTGTACCGGACGCCTCCAC 61.935 63.158 9.46 0.00 36.12 4.02
223 225 2.231235 GACGCCTCCACAATTCCAAATT 59.769 45.455 0.00 0.00 0.00 1.82
228 230 4.323715 GCCTCCACAATTCCAAATTTCCAT 60.324 41.667 0.00 0.00 0.00 3.41
250 252 8.811994 TCCATATTTGTATGATATTCTCCGTCA 58.188 33.333 0.00 0.00 0.00 4.35
253 255 7.953158 ATTTGTATGATATTCTCCGTCACAG 57.047 36.000 0.00 0.00 0.00 3.66
255 257 7.576861 TTGTATGATATTCTCCGTCACAGTA 57.423 36.000 0.00 0.00 0.00 2.74
258 260 5.244785 TGATATTCTCCGTCACAGTACAC 57.755 43.478 0.00 0.00 0.00 2.90
270 272 2.097396 CACAGTACACGAAGCAAAGACG 60.097 50.000 0.00 0.00 0.00 4.18
275 277 2.688507 ACACGAAGCAAAGACGATGAT 58.311 42.857 0.00 0.00 0.00 2.45
291 293 6.656693 AGACGATGATTCTTGAAAACCTCATT 59.343 34.615 0.00 0.00 32.78 2.57
357 362 9.747898 TCTTTTAATAAGGAATCCTTGTTGCTA 57.252 29.630 27.31 13.78 43.13 3.49
361 366 4.725790 AAGGAATCCTTGTTGCTATTGC 57.274 40.909 14.68 0.00 42.96 3.56
406 411 9.537192 TCATCGTAATTTGTATCGATTTTAGGT 57.463 29.630 1.71 0.00 40.29 3.08
413 418 7.861176 TTTGTATCGATTTTAGGTTTTGTGC 57.139 32.000 1.71 0.00 0.00 4.57
414 419 6.561737 TGTATCGATTTTAGGTTTTGTGCA 57.438 33.333 1.71 0.00 0.00 4.57
415 420 6.375377 TGTATCGATTTTAGGTTTTGTGCAC 58.625 36.000 10.75 10.75 0.00 4.57
416 421 4.902443 TCGATTTTAGGTTTTGTGCACA 57.098 36.364 17.42 17.42 0.00 4.57
417 422 4.854399 TCGATTTTAGGTTTTGTGCACAG 58.146 39.130 20.59 3.54 0.00 3.66
418 423 4.576873 TCGATTTTAGGTTTTGTGCACAGA 59.423 37.500 20.59 13.53 0.00 3.41
419 424 5.066634 TCGATTTTAGGTTTTGTGCACAGAA 59.933 36.000 20.59 19.27 0.00 3.02
458 475 1.896660 TGAAGAAACACAGCCGGGC 60.897 57.895 12.11 12.11 0.00 6.13
509 526 5.215160 CAATTCCTCAACAGTTGCTTACAC 58.785 41.667 8.58 0.00 0.00 2.90
514 531 2.863740 TCAACAGTTGCTTACACACTCG 59.136 45.455 8.58 0.00 0.00 4.18
564 581 1.153745 CCTAGCTGACAGTGACGGC 60.154 63.158 17.24 17.24 39.61 5.68
587 604 2.306805 ACAAAGATGAGATGTGCCCTCA 59.693 45.455 0.00 0.00 43.84 3.86
595 617 2.181954 GATGTGCCCTCATCTCATCC 57.818 55.000 3.73 0.00 40.46 3.51
605 627 2.371510 CTCATCTCATCCTTCCCTTCCC 59.628 54.545 0.00 0.00 0.00 3.97
607 629 1.885049 TCTCATCCTTCCCTTCCCTG 58.115 55.000 0.00 0.00 0.00 4.45
614 636 2.821679 CTTCCCTTCCCTGTTCCGCC 62.822 65.000 0.00 0.00 0.00 6.13
638 664 3.842428 GCTATTATTGCGTTGCATCATCG 59.158 43.478 0.00 0.00 38.76 3.84
688 714 4.570772 ACCGATCGTCCATAAACAAATCAG 59.429 41.667 15.09 0.00 0.00 2.90
698 724 5.066375 CCATAAACAAATCAGCCGATCTCAA 59.934 40.000 0.00 0.00 0.00 3.02
822 850 4.150454 CTCCGCCTCCCTCCTCCT 62.150 72.222 0.00 0.00 0.00 3.69
825 853 4.150454 CGCCTCCCTCCTCCTCCT 62.150 72.222 0.00 0.00 0.00 3.69
827 855 2.612251 CCTCCCTCCTCCTCCTCC 59.388 72.222 0.00 0.00 0.00 4.30
828 856 2.328589 CCTCCCTCCTCCTCCTCCA 61.329 68.421 0.00 0.00 0.00 3.86
829 857 1.706575 CTCCCTCCTCCTCCTCCAA 59.293 63.158 0.00 0.00 0.00 3.53
832 879 1.394151 CCTCCTCCTCCTCCAACCT 59.606 63.158 0.00 0.00 0.00 3.50
842 889 2.307098 CTCCTCCAACCTTCAATCACCT 59.693 50.000 0.00 0.00 0.00 4.00
844 891 2.350522 CTCCAACCTTCAATCACCTCG 58.649 52.381 0.00 0.00 0.00 4.63
938 986 2.435938 GCCGGACGCAGGAATCAA 60.436 61.111 5.05 0.00 37.47 2.57
948 996 1.972872 CAGGAATCAAGAATCCCCGG 58.027 55.000 0.00 0.00 36.31 5.73
980 1028 0.752009 GGAATCCGGGAAGAAAGCCC 60.752 60.000 0.00 0.00 42.41 5.19
981 1029 0.752009 GAATCCGGGAAGAAAGCCCC 60.752 60.000 0.00 0.00 42.92 5.80
986 1034 4.048470 GGAAGAAAGCCCCGGCCT 62.048 66.667 0.00 0.00 43.17 5.19
987 1035 2.035783 GAAGAAAGCCCCGGCCTT 59.964 61.111 0.00 0.00 43.17 4.35
988 1036 2.283173 AAGAAAGCCCCGGCCTTG 60.283 61.111 0.00 0.00 43.17 3.61
989 1037 3.886550 AAGAAAGCCCCGGCCTTGG 62.887 63.158 0.00 1.31 43.17 3.61
1494 1556 3.284251 TCCTGCTCCTCCTCCCCA 61.284 66.667 0.00 0.00 0.00 4.96
1501 1563 4.024984 CCTCCTCCCCACCCTCCA 62.025 72.222 0.00 0.00 0.00 3.86
1718 1780 4.577246 CCTGCTCGCCTACCTCGC 62.577 72.222 0.00 0.00 0.00 5.03
1761 1823 1.971695 CTTCCCGGCCAACTTCACC 60.972 63.158 2.24 0.00 0.00 4.02
1926 1988 0.542333 TCGTCGACATCCTCCTCTCT 59.458 55.000 17.16 0.00 0.00 3.10
1977 2039 2.187946 CACCTCCTCATCACCGCC 59.812 66.667 0.00 0.00 0.00 6.13
2256 2318 2.523168 TGGCTCCTCGTGTCCACA 60.523 61.111 0.00 0.00 0.00 4.17
2289 2351 0.255890 GGGCATTCCTCTACTTGGCA 59.744 55.000 0.00 0.00 36.46 4.92
2454 2516 2.086869 CCTGCATTGACCAATTCGTCT 58.913 47.619 4.80 0.00 33.70 4.18
2695 2759 9.026121 AGTGGACAGTAGGTATATTATTAGCAG 57.974 37.037 0.00 0.00 0.00 4.24
2732 2796 8.246180 ACTGTTATAATTTCCACAAATGAGCTG 58.754 33.333 0.00 0.00 32.18 4.24
2733 2797 8.347004 TGTTATAATTTCCACAAATGAGCTGA 57.653 30.769 0.00 0.00 32.18 4.26
2734 2798 8.970020 TGTTATAATTTCCACAAATGAGCTGAT 58.030 29.630 0.00 0.00 32.18 2.90
2737 2801 6.461110 AATTTCCACAAATGAGCTGATAGG 57.539 37.500 0.00 0.00 32.18 2.57
2738 2802 4.574674 TTCCACAAATGAGCTGATAGGT 57.425 40.909 0.00 0.00 0.00 3.08
2739 2803 4.574674 TCCACAAATGAGCTGATAGGTT 57.425 40.909 0.00 0.00 0.00 3.50
2740 2804 4.922206 TCCACAAATGAGCTGATAGGTTT 58.078 39.130 0.00 0.00 0.00 3.27
2741 2805 5.324409 TCCACAAATGAGCTGATAGGTTTT 58.676 37.500 0.00 0.00 0.00 2.43
2742 2806 5.183713 TCCACAAATGAGCTGATAGGTTTTG 59.816 40.000 0.00 0.00 32.63 2.44
2743 2807 5.047802 CCACAAATGAGCTGATAGGTTTTGT 60.048 40.000 0.00 0.00 37.22 2.83
2744 2808 5.860182 CACAAATGAGCTGATAGGTTTTGTG 59.140 40.000 12.69 12.69 42.63 3.33
2745 2809 4.708726 AATGAGCTGATAGGTTTTGTGC 57.291 40.909 0.00 0.00 0.00 4.57
2746 2810 2.436417 TGAGCTGATAGGTTTTGTGCC 58.564 47.619 0.00 0.00 0.00 5.01
2747 2811 2.040278 TGAGCTGATAGGTTTTGTGCCT 59.960 45.455 0.00 0.00 40.00 4.75
2748 2812 3.084786 GAGCTGATAGGTTTTGTGCCTT 58.915 45.455 0.00 0.00 37.54 4.35
2749 2813 4.261801 GAGCTGATAGGTTTTGTGCCTTA 58.738 43.478 0.00 0.00 37.54 2.69
2750 2814 4.860022 AGCTGATAGGTTTTGTGCCTTAT 58.140 39.130 0.00 0.00 37.54 1.73
2751 2815 5.264395 AGCTGATAGGTTTTGTGCCTTATT 58.736 37.500 0.00 0.00 37.54 1.40
2752 2816 5.716703 AGCTGATAGGTTTTGTGCCTTATTT 59.283 36.000 0.00 0.00 37.54 1.40
2753 2817 6.211384 AGCTGATAGGTTTTGTGCCTTATTTT 59.789 34.615 0.00 0.00 37.54 1.82
2754 2818 6.873605 GCTGATAGGTTTTGTGCCTTATTTTT 59.126 34.615 0.00 0.00 37.54 1.94
2775 2839 5.365403 TTTACAATAGGGTGTTCTTTGCG 57.635 39.130 0.00 0.00 32.75 4.85
2776 2840 2.159382 ACAATAGGGTGTTCTTTGCGG 58.841 47.619 0.00 0.00 0.00 5.69
2777 2841 2.159382 CAATAGGGTGTTCTTTGCGGT 58.841 47.619 0.00 0.00 0.00 5.68
2778 2842 2.109425 ATAGGGTGTTCTTTGCGGTC 57.891 50.000 0.00 0.00 0.00 4.79
2779 2843 0.035739 TAGGGTGTTCTTTGCGGTCC 59.964 55.000 0.00 0.00 0.00 4.46
2780 2844 1.527380 GGGTGTTCTTTGCGGTCCA 60.527 57.895 0.00 0.00 0.00 4.02
2781 2845 1.652563 GGTGTTCTTTGCGGTCCAC 59.347 57.895 0.00 0.00 0.00 4.02
2782 2846 1.098712 GGTGTTCTTTGCGGTCCACA 61.099 55.000 0.00 0.00 0.00 4.17
2783 2847 0.736053 GTGTTCTTTGCGGTCCACAA 59.264 50.000 0.00 0.00 0.00 3.33
2784 2848 1.133407 GTGTTCTTTGCGGTCCACAAA 59.867 47.619 5.00 5.00 35.77 2.83
2785 2849 2.028130 TGTTCTTTGCGGTCCACAAAT 58.972 42.857 5.53 0.00 36.49 2.32
2786 2850 2.223688 TGTTCTTTGCGGTCCACAAATG 60.224 45.455 5.53 1.55 36.49 2.32
2787 2851 1.974265 TCTTTGCGGTCCACAAATGA 58.026 45.000 5.53 3.65 36.49 2.57
2788 2852 1.879380 TCTTTGCGGTCCACAAATGAG 59.121 47.619 5.53 0.00 36.49 2.90
2789 2853 0.313672 TTTGCGGTCCACAAATGAGC 59.686 50.000 0.72 0.00 32.27 4.26
2790 2854 1.523154 TTGCGGTCCACAAATGAGCC 61.523 55.000 0.00 0.00 0.00 4.70
2892 3021 6.309494 GGAAACGGTAAAATAATGGCTCAAAC 59.691 38.462 0.00 0.00 0.00 2.93
2905 3034 7.865706 AATGGCTCAAACTAATACTACTTGG 57.134 36.000 0.00 0.00 0.00 3.61
3033 3162 4.895668 TGGAGACGGGTTACTATTGTTT 57.104 40.909 0.00 0.00 0.00 2.83
3135 3264 6.375174 TCACTTGTGATTCTGGTGAATTATGG 59.625 38.462 0.00 0.00 42.43 2.74
3213 3342 4.469586 TGTCTAGCCATGTTAGTGGAATCA 59.530 41.667 0.00 0.00 42.02 2.57
3338 3467 3.711863 AGGGCATTAAATCCAAAGAGCA 58.288 40.909 0.00 0.00 0.00 4.26
3572 3701 0.033796 ATGACAACCCTGAGCCCATG 60.034 55.000 0.00 0.00 0.00 3.66
3616 3745 7.072030 GGTACATATTAATTTGCAAGAGAGCG 58.928 38.462 0.00 0.00 37.31 5.03
3633 3762 6.729187 AGAGAGCGATTAATTTTGGTAATGC 58.271 36.000 0.00 0.00 0.00 3.56
4322 4461 8.749354 TGTATTGCACCTATAGTATATCCAGTG 58.251 37.037 0.00 0.00 0.00 3.66
4705 4846 1.468054 GCATCCAAGTGATTTGCGTCC 60.468 52.381 0.00 0.00 35.37 4.79
4755 4937 5.588568 CTGTCTTAGCATTATACAGCAGC 57.411 43.478 0.00 0.00 32.02 5.25
4769 4951 1.128136 CAGCAGCTGTCATTCGAACAG 59.872 52.381 16.64 10.72 45.57 3.16
4955 5149 8.905660 TTTAGTAACAGTTATTACACAGCCAA 57.094 30.769 0.00 0.00 37.49 4.52
4963 5157 5.764192 AGTTATTACACAGCCAAAACGGTTA 59.236 36.000 0.00 0.00 36.97 2.85
5060 5254 3.502191 TGGACACAACTTGCTTGTTTC 57.498 42.857 0.00 0.00 41.50 2.78
5068 5262 4.515567 ACAACTTGCTTGTTTCTAGTAGCC 59.484 41.667 0.00 0.00 40.45 3.93
5125 5319 5.300539 TGTTTCAGGAAATCGGAATTTGTGA 59.699 36.000 0.00 0.00 35.21 3.58
5229 5423 2.086054 ACTGTGGAAAGATCACGCTC 57.914 50.000 0.00 0.00 37.91 5.03
5250 5444 0.102120 CGGATCTCCTGCAGAGTCAC 59.898 60.000 17.39 3.47 43.71 3.67
5268 5462 2.751436 CACCTGGGCCATGAACCG 60.751 66.667 16.19 0.00 0.00 4.44
5357 5560 6.930722 AGCAAGAATTTTGGGACTGTAAAATG 59.069 34.615 1.67 0.00 36.80 2.32
5358 5561 6.347644 GCAAGAATTTTGGGACTGTAAAATGC 60.348 38.462 1.67 0.41 36.80 3.56
5386 5589 2.037902 GGAAGGTTAGAGCTAGGATGCC 59.962 54.545 0.00 0.00 0.00 4.40
5390 5593 0.676184 TTAGAGCTAGGATGCCTGCG 59.324 55.000 0.00 0.00 34.52 5.18
5484 5687 3.902881 AGAAGCGGTGAGAAGATCATT 57.097 42.857 0.00 0.00 40.92 2.57
5485 5688 4.213564 AGAAGCGGTGAGAAGATCATTT 57.786 40.909 0.00 0.00 40.92 2.32
5486 5689 4.187694 AGAAGCGGTGAGAAGATCATTTC 58.812 43.478 0.00 0.00 40.92 2.17
5527 5730 3.119849 AGGCTGTAAATACAAGCAAAGCG 60.120 43.478 13.27 0.00 35.50 4.68
5540 5743 2.866762 AGCAAAGCGGTTATCGAGATTC 59.133 45.455 0.00 0.00 42.43 2.52
5564 5769 7.479980 TCTTTTCTTTGGAAATATATGTGGCG 58.520 34.615 0.00 0.00 40.57 5.69
5583 5788 1.806542 CGGGTGAGGTGATCTGTTTTG 59.193 52.381 0.00 0.00 0.00 2.44
5584 5789 2.549992 CGGGTGAGGTGATCTGTTTTGA 60.550 50.000 0.00 0.00 0.00 2.69
5595 5800 3.371102 TCTGTTTTGACCTCTCACTCG 57.629 47.619 0.00 0.00 0.00 4.18
5606 5811 5.010719 TGACCTCTCACTCGTAATGTTTCTT 59.989 40.000 0.00 0.00 0.00 2.52
5609 5814 6.424207 ACCTCTCACTCGTAATGTTTCTTTTC 59.576 38.462 0.00 0.00 0.00 2.29
5621 5826 5.229921 TGTTTCTTTTCTCTGGTCAAACG 57.770 39.130 0.00 0.00 0.00 3.60
5630 5835 1.001974 TCTGGTCAAACGTGAGATGGG 59.998 52.381 0.00 0.00 33.27 4.00
5638 5843 1.448540 CGTGAGATGGGTGACAGGC 60.449 63.158 0.00 0.00 0.00 4.85
5662 5868 1.082117 GCCGTCTGGTCCACATAACG 61.082 60.000 0.00 0.00 37.68 3.18
5822 6035 9.852091 GCTGTCATGAAATTTAATTCTCTCTTT 57.148 29.630 0.00 0.00 0.00 2.52
5858 6071 5.937975 TGAGATTGAGATGACCATGTGTA 57.062 39.130 0.00 0.00 0.00 2.90
5953 6191 2.683933 GAGGGTTGCCTCGAGGGA 60.684 66.667 32.06 28.03 37.23 4.20
5954 6192 2.685380 AGGGTTGCCTCGAGGGAG 60.685 66.667 32.06 8.25 36.70 4.30
5955 6193 4.475135 GGGTTGCCTCGAGGGAGC 62.475 72.222 32.06 29.97 39.06 4.70
5956 6194 3.706373 GGTTGCCTCGAGGGAGCA 61.706 66.667 34.15 23.11 38.45 4.26
5957 6195 2.125350 GTTGCCTCGAGGGAGCAG 60.125 66.667 30.26 7.32 39.06 4.24
5958 6196 3.393970 TTGCCTCGAGGGAGCAGG 61.394 66.667 32.06 6.94 39.06 4.85
5961 6199 3.393970 CCTCGAGGGAGCAGGCAA 61.394 66.667 24.62 0.00 39.06 4.52
5962 6200 2.186384 CTCGAGGGAGCAGGCAAG 59.814 66.667 3.91 0.00 32.61 4.01
5963 6201 4.087892 TCGAGGGAGCAGGCAAGC 62.088 66.667 0.00 0.00 0.00 4.01
5966 6204 3.695747 GAGGGAGCAGGCAAGCCTC 62.696 68.421 11.38 6.54 46.28 4.70
5968 6206 4.400961 GGAGCAGGCAAGCCTCGT 62.401 66.667 11.38 0.48 46.28 4.18
5969 6207 2.817396 GAGCAGGCAAGCCTCGTC 60.817 66.667 11.38 7.04 46.28 4.20
5970 6208 4.400961 AGCAGGCAAGCCTCGTCC 62.401 66.667 11.38 0.24 46.28 4.79
6039 6277 0.389817 TCCCTGAAACATGCGACGAG 60.390 55.000 0.00 0.00 0.00 4.18
6043 6281 1.126846 CTGAAACATGCGACGAGGAAC 59.873 52.381 0.00 0.00 0.00 3.62
6177 6421 9.511272 TTCTAGTCCTTCAAATACCTTTAAACC 57.489 33.333 0.00 0.00 0.00 3.27
6179 6423 7.761038 AGTCCTTCAAATACCTTTAAACCAG 57.239 36.000 0.00 0.00 0.00 4.00
6182 6426 8.418662 GTCCTTCAAATACCTTTAAACCAGTTT 58.581 33.333 0.86 0.86 36.63 2.66
6205 6449 5.227569 TCATGGTGAAGTATGTGTCTTGT 57.772 39.130 0.00 0.00 0.00 3.16
6237 6482 0.746659 AACCACTGCTTTCAAGGCAC 59.253 50.000 0.00 0.00 35.71 5.01
6260 6505 9.401058 GCACATATTCTGGCCTCTATTAATTAT 57.599 33.333 3.32 0.00 0.00 1.28
6273 6518 9.793259 CCTCTATTAATTATTTGGACCTAGCAA 57.207 33.333 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.289109 GACGCCGCAAGAAACTAGCA 61.289 55.000 0.00 0.00 43.02 3.49
55 56 1.136169 GTGACCCAACATAAACGACGC 60.136 52.381 0.00 0.00 0.00 5.19
60 61 2.094234 GGCCATGTGACCCAACATAAAC 60.094 50.000 0.00 0.00 38.75 2.01
64 65 0.323725 GAGGCCATGTGACCCAACAT 60.324 55.000 5.01 0.00 41.50 2.71
65 66 1.074775 GAGGCCATGTGACCCAACA 59.925 57.895 5.01 0.00 0.00 3.33
71 72 1.375908 TTCGCAGAGGCCATGTGAC 60.376 57.895 20.23 4.22 36.94 3.67
84 85 0.927537 CTCGTGTTGAGTTGTTCGCA 59.072 50.000 0.00 0.00 40.03 5.10
88 89 3.393800 CATCTCCTCGTGTTGAGTTGTT 58.606 45.455 0.00 0.00 43.64 2.83
96 97 1.550976 GTCCTTCCATCTCCTCGTGTT 59.449 52.381 0.00 0.00 0.00 3.32
97 98 1.187087 GTCCTTCCATCTCCTCGTGT 58.813 55.000 0.00 0.00 0.00 4.49
99 100 0.336737 AGGTCCTTCCATCTCCTCGT 59.663 55.000 0.00 0.00 39.02 4.18
112 113 1.043816 CGAGTGCATATCCAGGTCCT 58.956 55.000 0.00 0.00 0.00 3.85
114 115 0.601311 GCCGAGTGCATATCCAGGTC 60.601 60.000 0.00 0.00 40.77 3.85
129 130 2.751259 AGTTACTTCATCTACGTGCCGA 59.249 45.455 0.00 0.00 0.00 5.54
130 131 3.146618 AGTTACTTCATCTACGTGCCG 57.853 47.619 0.00 0.00 0.00 5.69
160 161 3.772853 TTTGCAGCGCCACAGGTCT 62.773 57.895 2.29 0.00 0.00 3.85
161 162 3.259425 CTTTGCAGCGCCACAGGTC 62.259 63.158 2.29 0.00 0.00 3.85
165 166 3.594775 CACCTTTGCAGCGCCACA 61.595 61.111 2.29 0.00 0.00 4.17
183 185 0.999406 CCGGTACAACATCGCTTCTG 59.001 55.000 0.00 0.00 0.00 3.02
223 225 9.653287 GACGGAGAATATCATACAAATATGGAA 57.347 33.333 0.00 0.00 39.04 3.53
228 230 8.638873 ACTGTGACGGAGAATATCATACAAATA 58.361 33.333 0.00 0.00 0.00 1.40
237 239 4.034858 TCGTGTACTGTGACGGAGAATATC 59.965 45.833 0.00 0.00 36.23 1.63
250 252 2.124903 CGTCTTTGCTTCGTGTACTGT 58.875 47.619 0.00 0.00 0.00 3.55
253 255 2.984471 TCATCGTCTTTGCTTCGTGTAC 59.016 45.455 0.00 0.00 0.00 2.90
255 257 2.148916 TCATCGTCTTTGCTTCGTGT 57.851 45.000 0.00 0.00 0.00 4.49
258 260 4.091945 TCAAGAATCATCGTCTTTGCTTCG 59.908 41.667 0.00 0.00 32.96 3.79
305 307 6.415798 AAAAGCATACACAAAAGCGTTTTT 57.584 29.167 3.95 3.95 35.70 1.94
331 336 8.650143 AGCAACAAGGATTCCTTATTAAAAGA 57.350 30.769 17.54 0.00 42.67 2.52
342 347 3.950395 AGAGCAATAGCAACAAGGATTCC 59.050 43.478 0.00 0.00 45.49 3.01
357 362 8.665643 TGAATCAAAACAAAATGAAGAGCAAT 57.334 26.923 0.00 0.00 0.00 3.56
361 366 8.511465 ACGATGAATCAAAACAAAATGAAGAG 57.489 30.769 0.00 0.00 0.00 2.85
404 409 7.812648 TGTATATACTTTCTGTGCACAAAACC 58.187 34.615 21.98 0.00 0.00 3.27
405 410 9.672086 TTTGTATATACTTTCTGTGCACAAAAC 57.328 29.630 21.98 7.64 32.26 2.43
410 415 8.388103 ACGATTTTGTATATACTTTCTGTGCAC 58.612 33.333 10.75 10.75 0.00 4.57
412 417 9.769093 AAACGATTTTGTATATACTTTCTGTGC 57.231 29.630 13.89 0.00 0.00 4.57
458 475 3.635271 TTGGTATGGTCCCAACGTG 57.365 52.632 0.00 0.00 37.05 4.49
469 486 0.951525 TTGTCCCACGCGTTGGTATG 60.952 55.000 26.64 7.21 45.25 2.39
509 526 1.084370 GGAAGCCGTTGGATCGAGTG 61.084 60.000 0.00 0.00 0.00 3.51
514 531 2.106683 CCGTGGAAGCCGTTGGATC 61.107 63.158 0.00 0.00 0.00 3.36
542 559 2.548067 CCGTCACTGTCAGCTAGGTTTT 60.548 50.000 0.00 0.00 0.00 2.43
564 581 1.667724 GGGCACATCTCATCTTTGTCG 59.332 52.381 0.00 0.00 0.00 4.35
587 604 2.294127 ACAGGGAAGGGAAGGATGAGAT 60.294 50.000 0.00 0.00 0.00 2.75
595 617 1.377333 GCGGAACAGGGAAGGGAAG 60.377 63.158 0.00 0.00 0.00 3.46
605 627 1.531149 CAATAATAGCGGGCGGAACAG 59.469 52.381 0.00 0.00 0.00 3.16
607 629 0.237498 GCAATAATAGCGGGCGGAAC 59.763 55.000 0.00 0.00 0.00 3.62
636 662 2.893895 CGGGAGACGGATCGACGA 60.894 66.667 0.00 0.00 39.42 4.20
637 663 4.609247 GCGGGAGACGGATCGACG 62.609 72.222 0.00 0.00 44.51 5.12
638 664 4.267503 GGCGGGAGACGGATCGAC 62.268 72.222 0.00 0.00 44.51 4.20
666 692 4.552767 GCTGATTTGTTTATGGACGATCGG 60.553 45.833 20.98 1.23 0.00 4.18
673 699 4.780815 AGATCGGCTGATTTGTTTATGGA 58.219 39.130 9.98 0.00 34.09 3.41
819 847 2.305927 GTGATTGAAGGTTGGAGGAGGA 59.694 50.000 0.00 0.00 0.00 3.71
820 848 2.619074 GGTGATTGAAGGTTGGAGGAGG 60.619 54.545 0.00 0.00 0.00 4.30
822 850 2.305927 GAGGTGATTGAAGGTTGGAGGA 59.694 50.000 0.00 0.00 0.00 3.71
824 852 2.289694 ACGAGGTGATTGAAGGTTGGAG 60.290 50.000 0.00 0.00 0.00 3.86
825 853 1.697432 ACGAGGTGATTGAAGGTTGGA 59.303 47.619 0.00 0.00 0.00 3.53
827 855 2.076863 GGACGAGGTGATTGAAGGTTG 58.923 52.381 0.00 0.00 0.00 3.77
828 856 1.003233 GGGACGAGGTGATTGAAGGTT 59.997 52.381 0.00 0.00 0.00 3.50
829 857 0.613777 GGGACGAGGTGATTGAAGGT 59.386 55.000 0.00 0.00 0.00 3.50
832 879 0.323629 GTGGGGACGAGGTGATTGAA 59.676 55.000 0.00 0.00 0.00 2.69
902 950 3.938112 CGAGATTCGCCGGGATTC 58.062 61.111 2.18 5.22 31.14 2.52
1069 1131 0.456995 GCGAGGTCGAAGTTGGAGAG 60.457 60.000 2.94 0.00 43.02 3.20
1718 1780 1.453379 TAGAAGGAGACGCCGAGGG 60.453 63.158 0.00 0.00 43.43 4.30
1926 1988 0.394216 GCACATAGGACACCATGCCA 60.394 55.000 0.00 0.00 0.00 4.92
1977 2039 0.745845 CAGAGCGGGGGTTCTTGATG 60.746 60.000 0.00 0.00 0.00 3.07
2289 2351 3.221771 CCTCTTGTCGATCCTCATCTCT 58.778 50.000 0.00 0.00 0.00 3.10
2751 2815 6.210078 CGCAAAGAACACCCTATTGTAAAAA 58.790 36.000 0.00 0.00 0.00 1.94
2752 2816 5.278561 CCGCAAAGAACACCCTATTGTAAAA 60.279 40.000 0.00 0.00 0.00 1.52
2753 2817 4.216687 CCGCAAAGAACACCCTATTGTAAA 59.783 41.667 0.00 0.00 0.00 2.01
2754 2818 3.754323 CCGCAAAGAACACCCTATTGTAA 59.246 43.478 0.00 0.00 0.00 2.41
2755 2819 3.244630 ACCGCAAAGAACACCCTATTGTA 60.245 43.478 0.00 0.00 0.00 2.41
2756 2820 2.159382 CCGCAAAGAACACCCTATTGT 58.841 47.619 0.00 0.00 0.00 2.71
2757 2821 2.159382 ACCGCAAAGAACACCCTATTG 58.841 47.619 0.00 0.00 0.00 1.90
2758 2822 2.433436 GACCGCAAAGAACACCCTATT 58.567 47.619 0.00 0.00 0.00 1.73
2759 2823 1.339727 GGACCGCAAAGAACACCCTAT 60.340 52.381 0.00 0.00 0.00 2.57
2760 2824 0.035739 GGACCGCAAAGAACACCCTA 59.964 55.000 0.00 0.00 0.00 3.53
2761 2825 1.228154 GGACCGCAAAGAACACCCT 60.228 57.895 0.00 0.00 0.00 4.34
2762 2826 1.527380 TGGACCGCAAAGAACACCC 60.527 57.895 0.00 0.00 0.00 4.61
2763 2827 1.098712 TGTGGACCGCAAAGAACACC 61.099 55.000 4.92 0.00 0.00 4.16
2764 2828 0.736053 TTGTGGACCGCAAAGAACAC 59.264 50.000 18.13 0.00 30.61 3.32
2765 2829 1.464734 TTTGTGGACCGCAAAGAACA 58.535 45.000 25.78 7.03 38.64 3.18
2766 2830 2.034053 TCATTTGTGGACCGCAAAGAAC 59.966 45.455 30.89 4.31 44.99 3.01
2767 2831 2.293122 CTCATTTGTGGACCGCAAAGAA 59.707 45.455 30.89 21.92 44.99 2.52
2768 2832 1.879380 CTCATTTGTGGACCGCAAAGA 59.121 47.619 30.89 25.41 44.99 2.52
2769 2833 1.666888 GCTCATTTGTGGACCGCAAAG 60.667 52.381 30.89 23.39 44.99 2.77
2770 2834 0.313672 GCTCATTTGTGGACCGCAAA 59.686 50.000 30.08 30.08 45.66 3.68
2771 2835 1.523154 GGCTCATTTGTGGACCGCAA 61.523 55.000 16.58 16.58 31.73 4.85
2772 2836 1.971167 GGCTCATTTGTGGACCGCA 60.971 57.895 2.83 2.83 0.00 5.69
2773 2837 2.877691 GGCTCATTTGTGGACCGC 59.122 61.111 0.00 0.00 0.00 5.68
2774 2838 0.744414 ATCGGCTCATTTGTGGACCG 60.744 55.000 0.00 0.00 41.92 4.79
2775 2839 2.213499 CTATCGGCTCATTTGTGGACC 58.787 52.381 0.00 0.00 0.00 4.46
2776 2840 2.213499 CCTATCGGCTCATTTGTGGAC 58.787 52.381 0.00 0.00 0.00 4.02
2777 2841 1.837439 ACCTATCGGCTCATTTGTGGA 59.163 47.619 0.00 0.00 0.00 4.02
2778 2842 2.332063 ACCTATCGGCTCATTTGTGG 57.668 50.000 0.00 0.00 0.00 4.17
2779 2843 4.082787 ACAAAACCTATCGGCTCATTTGTG 60.083 41.667 8.37 0.00 36.07 3.33
2780 2844 4.079253 ACAAAACCTATCGGCTCATTTGT 58.921 39.130 0.00 0.00 34.30 2.83
2781 2845 4.414852 CACAAAACCTATCGGCTCATTTG 58.585 43.478 0.00 0.00 33.12 2.32
2782 2846 3.443681 CCACAAAACCTATCGGCTCATTT 59.556 43.478 0.00 0.00 0.00 2.32
2783 2847 3.016736 CCACAAAACCTATCGGCTCATT 58.983 45.455 0.00 0.00 0.00 2.57
2784 2848 2.643551 CCACAAAACCTATCGGCTCAT 58.356 47.619 0.00 0.00 0.00 2.90
2785 2849 1.948611 GCCACAAAACCTATCGGCTCA 60.949 52.381 0.00 0.00 36.58 4.26
2786 2850 0.733150 GCCACAAAACCTATCGGCTC 59.267 55.000 0.00 0.00 36.58 4.70
2787 2851 0.328258 AGCCACAAAACCTATCGGCT 59.672 50.000 0.00 0.00 44.89 5.52
2788 2852 1.173913 AAGCCACAAAACCTATCGGC 58.826 50.000 0.00 0.00 39.90 5.54
2789 2853 5.576447 AAATAAGCCACAAAACCTATCGG 57.424 39.130 0.00 0.00 0.00 4.18
3047 3176 8.037758 AGTCGTCTCTTTTTCAGATCACATATT 58.962 33.333 0.00 0.00 0.00 1.28
3048 3177 7.551585 AGTCGTCTCTTTTTCAGATCACATAT 58.448 34.615 0.00 0.00 0.00 1.78
3049 3178 6.925211 AGTCGTCTCTTTTTCAGATCACATA 58.075 36.000 0.00 0.00 0.00 2.29
3050 3179 5.788450 AGTCGTCTCTTTTTCAGATCACAT 58.212 37.500 0.00 0.00 0.00 3.21
3113 3242 5.450965 GGCCATAATTCACCAGAATCACAAG 60.451 44.000 0.00 0.00 43.52 3.16
3135 3264 5.120053 GCCAACATAAAATAAGTTGTGTGGC 59.880 40.000 0.00 0.00 40.64 5.01
3323 3452 4.158394 GGCTGTCATGCTCTTTGGATTTAA 59.842 41.667 0.00 0.00 0.00 1.52
3338 3467 4.090761 TCTGAGTTGAAAAGGCTGTCAT 57.909 40.909 2.30 0.00 0.00 3.06
3572 3701 7.801716 TGTACCCTAACATAATGCATTTCTC 57.198 36.000 18.75 0.00 0.00 2.87
3633 3762 6.817765 ACAATGTGTTGTCTTGTATAAGGG 57.182 37.500 0.00 0.00 45.14 3.95
3665 3794 8.232513 AGCGTGCATATGATGATAAATAAACAG 58.767 33.333 6.97 0.00 0.00 3.16
3822 3958 5.880332 AGTGAAGTTCTACAACAGAAGCAAA 59.120 36.000 4.17 0.00 44.02 3.68
4057 4194 6.348868 GGCACAATTCTCTCTTCCAACTTAAG 60.349 42.308 0.00 0.00 0.00 1.85
4450 4590 7.831193 AGATAACAATTGAGAACCATACTTGCT 59.169 33.333 13.59 0.00 0.00 3.91
4497 4637 8.246180 ACATTTTCTATGTTGATGATTGGTGAC 58.754 33.333 0.00 0.00 0.00 3.67
4592 4732 8.618702 ATGGATGCAAAAACAAATCATTTACA 57.381 26.923 0.00 0.00 0.00 2.41
4736 4918 5.163416 TGACAGCTGCTGTATAATGCTAAGA 60.163 40.000 33.04 3.27 45.44 2.10
4755 4937 6.466308 TTGTGTATTCTGTTCGAATGACAG 57.534 37.500 9.07 9.07 42.22 3.51
4769 4951 8.801715 ATTGCAATCCGAATTATTGTGTATTC 57.198 30.769 5.99 0.00 36.82 1.75
4955 5149 7.985184 TCATTAGATGATAGTGCTTAACCGTTT 59.015 33.333 0.00 0.00 33.59 3.60
5060 5254 7.152645 ACATCATTAACCAATACGGCTACTAG 58.847 38.462 0.00 0.00 39.03 2.57
5068 5262 6.117911 TGCAGAACATCATTAACCAATACG 57.882 37.500 0.00 0.00 0.00 3.06
5125 5319 4.952335 CCCCATCTCTTTCAGCTTGTAAAT 59.048 41.667 0.00 0.00 0.00 1.40
5229 5423 0.667993 GACTCTGCAGGAGATCCGAG 59.332 60.000 15.13 3.70 44.45 4.63
5250 5444 2.362889 GGTTCATGGCCCAGGTGG 60.363 66.667 0.00 0.00 37.09 4.61
5268 5462 0.999712 TCCCCCTTTTCATGTCCCTC 59.000 55.000 0.00 0.00 0.00 4.30
5334 5537 6.705381 TGCATTTTACAGTCCCAAAATTCTTG 59.295 34.615 0.00 0.00 33.23 3.02
5357 5560 3.615155 AGCTCTAACCTTCCTTTCATGC 58.385 45.455 0.00 0.00 0.00 4.06
5358 5561 5.129485 TCCTAGCTCTAACCTTCCTTTCATG 59.871 44.000 0.00 0.00 0.00 3.07
5386 5589 3.541950 ATGATCCCATCCGGCGCAG 62.542 63.158 10.83 4.65 0.00 5.18
5390 5593 1.610522 CTTCAAATGATCCCATCCGGC 59.389 52.381 0.00 0.00 31.40 6.13
5484 5687 3.181329 TCCTTCCTACAGGCATGAAGAA 58.819 45.455 4.84 3.88 37.07 2.52
5485 5688 2.768527 CTCCTTCCTACAGGCATGAAGA 59.231 50.000 4.84 0.00 37.07 2.87
5486 5689 2.158842 CCTCCTTCCTACAGGCATGAAG 60.159 54.545 4.84 0.00 33.35 3.02
5527 5730 7.611213 TCCAAAGAAAAGAATCTCGATAACC 57.389 36.000 0.00 0.00 0.00 2.85
5540 5743 6.697019 CCGCCACATATATTTCCAAAGAAAAG 59.303 38.462 0.00 0.00 44.91 2.27
5557 5762 2.257409 GATCACCTCACCCGCCACAT 62.257 60.000 0.00 0.00 0.00 3.21
5558 5763 2.927856 ATCACCTCACCCGCCACA 60.928 61.111 0.00 0.00 0.00 4.17
5564 5769 2.814336 GTCAAAACAGATCACCTCACCC 59.186 50.000 0.00 0.00 0.00 4.61
5583 5788 5.061920 AGAAACATTACGAGTGAGAGGTC 57.938 43.478 0.00 0.00 0.00 3.85
5584 5789 5.470047 AAGAAACATTACGAGTGAGAGGT 57.530 39.130 0.00 0.00 0.00 3.85
5595 5800 7.376072 CGTTTGACCAGAGAAAAGAAACATTAC 59.624 37.037 0.00 0.00 0.00 1.89
5606 5811 3.812156 TCTCACGTTTGACCAGAGAAA 57.188 42.857 0.00 0.00 32.83 2.52
5609 5814 2.341257 CCATCTCACGTTTGACCAGAG 58.659 52.381 0.00 0.00 0.00 3.35
5621 5826 1.448540 CGCCTGTCACCCATCTCAC 60.449 63.158 0.00 0.00 0.00 3.51
5662 5868 4.796495 AACCGCGGGCCTGAATCC 62.796 66.667 31.76 0.00 0.00 3.01
5822 6035 3.122297 CAATCTCAAACAGCGCCAAAAA 58.878 40.909 2.29 0.00 0.00 1.94
5858 6071 4.999311 GGTCCAAGTCGTTACCTACATTTT 59.001 41.667 0.00 0.00 0.00 1.82
5907 6145 1.674322 CAACCTCCCGTCGCCAAAT 60.674 57.895 0.00 0.00 0.00 2.32
5948 6186 3.695747 GAGGCTTGCCTGCTCCCTC 62.696 68.421 19.84 0.00 35.75 4.30
5949 6187 3.726144 GAGGCTTGCCTGCTCCCT 61.726 66.667 19.84 0.00 0.00 4.20
5951 6189 4.400961 ACGAGGCTTGCCTGCTCC 62.401 66.667 19.84 3.46 0.00 4.70
5952 6190 2.817396 GACGAGGCTTGCCTGCTC 60.817 66.667 19.84 8.92 0.00 4.26
5953 6191 4.400961 GGACGAGGCTTGCCTGCT 62.401 66.667 19.84 3.06 0.00 4.24
5954 6192 4.704833 TGGACGAGGCTTGCCTGC 62.705 66.667 19.84 9.56 0.00 4.85
5955 6193 2.435586 CTGGACGAGGCTTGCCTG 60.436 66.667 19.84 13.16 0.00 4.85
5956 6194 4.400961 GCTGGACGAGGCTTGCCT 62.401 66.667 14.69 14.69 0.00 4.75
5967 6205 3.680620 TATGCAGTGGCGGCTGGAC 62.681 63.158 11.43 0.00 45.35 4.02
5968 6206 3.390183 CTATGCAGTGGCGGCTGGA 62.390 63.158 11.43 2.08 45.35 3.86
5969 6207 2.898840 CTATGCAGTGGCGGCTGG 60.899 66.667 11.43 0.14 45.35 4.85
5970 6208 3.580193 GCTATGCAGTGGCGGCTG 61.580 66.667 11.43 1.49 45.35 4.85
6039 6277 4.717313 GGGGGCACAGTCCGTTCC 62.717 72.222 0.00 0.00 0.00 3.62
6046 6284 4.579384 CACCGTTGGGGGCACAGT 62.579 66.667 0.00 0.00 41.60 3.55
6153 6397 8.857694 TGGTTTAAAGGTATTTGAAGGACTAG 57.142 34.615 0.00 0.00 0.00 2.57
6174 6418 5.833131 ACATACTTCACCATGAAAACTGGTT 59.167 36.000 0.00 0.00 44.67 3.67
6176 6420 5.241506 ACACATACTTCACCATGAAAACTGG 59.758 40.000 0.00 0.00 35.73 4.00
6177 6421 6.205464 AGACACATACTTCACCATGAAAACTG 59.795 38.462 0.00 0.00 35.73 3.16
6179 6423 6.560253 AGACACATACTTCACCATGAAAAC 57.440 37.500 0.00 0.00 35.73 2.43
6182 6426 5.469760 CACAAGACACATACTTCACCATGAA 59.530 40.000 0.00 0.00 34.79 2.57
6190 6434 4.632153 ACAGGACACAAGACACATACTTC 58.368 43.478 0.00 0.00 0.00 3.01
6205 6449 4.980573 AGCAGTGGTTTTATAACAGGACA 58.019 39.130 0.00 0.00 35.92 4.02
6260 6505 4.980573 ACATGTTAGTTGCTAGGTCCAAA 58.019 39.130 0.00 0.00 0.00 3.28
6273 6518 3.350219 AATCTGCGGGAACATGTTAGT 57.650 42.857 11.95 0.00 0.00 2.24
6274 6519 3.181497 CCAAATCTGCGGGAACATGTTAG 60.181 47.826 11.95 4.98 0.00 2.34
6275 6520 2.752354 CCAAATCTGCGGGAACATGTTA 59.248 45.455 11.95 0.00 0.00 2.41
6276 6521 1.545582 CCAAATCTGCGGGAACATGTT 59.454 47.619 11.78 11.78 0.00 2.71
6277 6522 1.176527 CCAAATCTGCGGGAACATGT 58.823 50.000 0.00 0.00 0.00 3.21
6278 6523 1.133025 GACCAAATCTGCGGGAACATG 59.867 52.381 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.