Multiple sequence alignment - TraesCS6B01G380200

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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 TraesCS6B01G380200 chr6B 100.000 3114 0 0 1 3114 655052470 655055583 0.000000e+00 5751
1 TraesCS6B01G380200 chr6B 93.790 2625 151 6 1 2616 654853089 654855710 0.000000e+00 3934
2 TraesCS6B01G380200 chr6B 93.714 2625 153 6 1 2616 654877186 654879807 0.000000e+00 3923
3 TraesCS6B01G380200 chr6B 93.631 2622 158 5 1 2616 654887309 654889927 0.000000e+00 3908
4 TraesCS6B01G380200 chr6B 93.671 2228 128 4 547 2762 654917154 654919380 0.000000e+00 3321
5 TraesCS6B01G380200 chr6B 89.668 542 53 2 1 540 654904247 654904787 0.000000e+00 688
6 TraesCS6B01G380200 chr6B 90.378 291 26 1 2824 3114 336905422 336905134 6.300000e-102 381
7 TraesCS6B01G380200 chr6B 88.325 197 10 8 2625 2819 654886030 654886215 1.120000e-54 224
8 TraesCS6B01G380200 chr6B 88.325 197 10 7 2625 2819 654902694 654902879 1.120000e-54 224
9 TraesCS6B01G380200 chr6D 94.136 2831 132 8 2 2819 433567460 433570269 0.000000e+00 4277
10 TraesCS6B01G380200 chr6D 93.889 2831 139 10 2 2819 433561759 433564568 0.000000e+00 4239
11 TraesCS6B01G380200 chr6D 93.818 2831 142 11 2 2819 433546633 433549443 0.000000e+00 4228
12 TraesCS6B01G380200 chr6A 93.571 2831 156 14 1 2819 579758037 579760853 0.000000e+00 4196
13 TraesCS6B01G380200 chr6A 93.496 2829 170 11 1 2819 579516133 579518957 0.000000e+00 4193
14 TraesCS6B01G380200 chr6A 93.114 2832 172 12 1 2819 579753016 579755837 0.000000e+00 4128
15 TraesCS6B01G380200 chr6A 91.582 297 23 2 2819 3114 507641347 507641052 2.890000e-110 409
16 TraesCS6B01G380200 chr6A 90.845 284 23 2 2820 3102 254707514 254707233 8.150000e-101 377
17 TraesCS6B01G380200 chr3D 93.898 295 18 0 2820 3114 77405957 77406251 2.200000e-121 446
18 TraesCS6B01G380200 chr3D 92.278 259 15 5 2859 3114 566848731 566848475 2.280000e-96 363
19 TraesCS6B01G380200 chr5D 90.572 297 23 5 2820 3114 391206517 391206810 3.770000e-104 388
20 TraesCS6B01G380200 chr3B 89.562 297 29 1 2820 3114 753847161 753847457 2.930000e-100 375
21 TraesCS6B01G380200 chr1D 92.248 258 16 4 2859 3114 405137200 405136945 2.280000e-96 363
22 TraesCS6B01G380200 chr1D 95.385 65 3 0 2820 2884 155895626 155895690 1.530000e-18 104
23 TraesCS6B01G380200 chr4D 92.188 256 15 5 2859 3112 1720893 1721145 1.060000e-94 357
24 TraesCS6B01G380200 chr5A 92.754 69 5 0 2816 2884 503377323 503377391 1.980000e-17 100
25 TraesCS6B01G380200 chr5B 95.161 62 3 0 2820 2881 538181535 538181596 7.110000e-17 99


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 TraesCS6B01G380200 chr6B 655052470 655055583 3113 False 5751 5751 100.0000 1 3114 1 chr6B.!!$F4 3113
1 TraesCS6B01G380200 chr6B 654853089 654855710 2621 False 3934 3934 93.7900 1 2616 1 chr6B.!!$F1 2615
2 TraesCS6B01G380200 chr6B 654877186 654879807 2621 False 3923 3923 93.7140 1 2616 1 chr6B.!!$F2 2615
3 TraesCS6B01G380200 chr6B 654917154 654919380 2226 False 3321 3321 93.6710 547 2762 1 chr6B.!!$F3 2215
4 TraesCS6B01G380200 chr6B 654886030 654889927 3897 False 2066 3908 90.9780 1 2819 2 chr6B.!!$F5 2818
5 TraesCS6B01G380200 chr6B 654902694 654904787 2093 False 456 688 88.9965 1 2819 2 chr6B.!!$F6 2818
6 TraesCS6B01G380200 chr6D 433561759 433570269 8510 False 4258 4277 94.0125 2 2819 2 chr6D.!!$F2 2817
7 TraesCS6B01G380200 chr6D 433546633 433549443 2810 False 4228 4228 93.8180 2 2819 1 chr6D.!!$F1 2817
8 TraesCS6B01G380200 chr6A 579516133 579518957 2824 False 4193 4193 93.4960 1 2819 1 chr6A.!!$F1 2818
9 TraesCS6B01G380200 chr6A 579753016 579760853 7837 False 4162 4196 93.3425 1 2819 2 chr6A.!!$F2 2818

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
189 1748 0.183492 ATGGCCGCCAGACATATGTT 59.817 50.0 18.96 0.0 36.75 2.71 F
1261 7845 0.298707 CATCAATCAGTTCGCCGACG 59.701 55.0 0.00 0.0 42.01 5.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1651 8238 0.466189 CCATAAGCCCACCTTCGCAT 60.466 55.0 0.00 0.0 34.95 4.73 R
2873 15177 0.100503 GGCCATTAATGACGCACCAC 59.899 55.0 17.23 0.0 0.00 4.16 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
189 1748 0.183492 ATGGCCGCCAGACATATGTT 59.817 50.000 18.96 0.00 36.75 2.71
197 1756 3.994392 CGCCAGACATATGTTATGGGTAC 59.006 47.826 28.61 17.82 36.36 3.34
210 1769 7.482169 TGTTATGGGTACTGAGATATGATCC 57.518 40.000 0.00 0.00 0.00 3.36
266 1825 1.189524 TGGGAAGTATATCCGGCGGG 61.190 60.000 27.98 7.65 40.62 6.13
296 6877 9.607988 AATATTAATTCATGGACTTGACGTACA 57.392 29.630 0.00 0.00 41.72 2.90
388 6970 9.902684 AGTTCTCTTAACATTTGATGATCTGAT 57.097 29.630 0.00 0.00 0.00 2.90
437 7019 3.606846 CGTTTCCGTGTTACACTCGTCTA 60.607 47.826 13.86 0.00 33.75 2.59
458 7040 3.535280 TGCAAGCGGTCACATCTAATA 57.465 42.857 0.00 0.00 0.00 0.98
489 7071 5.873179 TCGGTAGGCTACAAGAATTTTTG 57.127 39.130 24.96 7.15 0.00 2.44
1023 7607 2.026915 GGCCATCCCAAAAGCTTTGATT 60.027 45.455 13.54 0.00 0.00 2.57
1102 7686 2.562738 AGTGATGACTTGTCGATGGTGA 59.437 45.455 0.00 0.00 0.00 4.02
1163 7747 1.066573 CAAGGACGATGCTGAGAAGGT 60.067 52.381 0.00 0.00 0.00 3.50
1208 7792 2.346803 CAATGTCGGGTTCATCGAGTT 58.653 47.619 0.00 0.00 37.31 3.01
1261 7845 0.298707 CATCAATCAGTTCGCCGACG 59.701 55.000 0.00 0.00 42.01 5.12
1570 8157 2.266055 GCTGCTACAGAGGGCGTT 59.734 61.111 0.00 0.00 32.44 4.84
1813 14101 2.225091 TGAGGATGTTCCAGCCAACAAT 60.225 45.455 0.93 0.00 43.12 2.71
1873 14161 1.330655 CGGTGGCTGTAGATGGAGGT 61.331 60.000 0.00 0.00 0.00 3.85
1931 14219 1.002868 GGCTCATGTGGCACAGACT 60.003 57.895 26.04 6.42 41.80 3.24
2132 14420 5.357314 GCATAGAATGAGCCTCATATGCAAT 59.643 40.000 25.47 5.28 42.00 3.56
2280 14568 8.865001 GTGTTAGCTATATCATTCGGAGATTTC 58.135 37.037 0.00 0.00 35.04 2.17
2290 14578 1.071071 TCGGAGATTTCACACCCGTTT 59.929 47.619 0.00 0.00 40.87 3.60
2311 14599 6.521898 GTTTTGTTTTGTAAGTGAACTGTGC 58.478 36.000 0.00 0.00 0.00 4.57
2334 14625 5.123979 GCCGTCTCTTGTTCCTTCATATTTT 59.876 40.000 0.00 0.00 0.00 1.82
2434 14727 8.599055 TTGATTTGCAAATAAATGTTACAGCA 57.401 26.923 24.15 10.60 32.46 4.41
2442 14735 9.734620 GCAAATAAATGTTACAGCATGAGAATA 57.265 29.630 0.00 0.00 39.69 1.75
2518 14812 3.133183 TCCATTAATTCCCGTCGTCATGA 59.867 43.478 0.00 0.00 0.00 3.07
2572 14866 3.443976 CAACTGCAACACCAACCTTAAC 58.556 45.455 0.00 0.00 0.00 2.01
2581 14875 6.512903 GCAACACCAACCTTAACTTTACTCTC 60.513 42.308 0.00 0.00 0.00 3.20
2596 14890 8.425577 ACTTTACTCTCGATAATCCACAATTG 57.574 34.615 3.24 3.24 0.00 2.32
2617 14911 7.660030 ATTGGAAAGTGGACCTTAATTATGG 57.340 36.000 14.33 14.33 31.48 2.74
2700 15004 6.183360 GGAGAAACAATAAGCTAGCTTTCTGG 60.183 42.308 33.50 20.76 37.47 3.86
2733 15037 1.271379 GGCAGGCTAACAACTCCTTCA 60.271 52.381 0.00 0.00 0.00 3.02
2739 15043 6.582636 CAGGCTAACAACTCCTTCACATATA 58.417 40.000 0.00 0.00 0.00 0.86
2752 15056 7.301420 TCCTTCACATATAGAAGAGATGGTCT 58.699 38.462 15.21 0.00 44.00 3.85
2798 15102 6.756074 TGTTTGGTTTTGCACTTTCTAATCTG 59.244 34.615 0.00 0.00 0.00 2.90
2819 15123 6.220930 TCTGTAGAACAACTTCACCACATAC 58.779 40.000 0.00 0.00 0.00 2.39
2820 15124 5.919755 TGTAGAACAACTTCACCACATACA 58.080 37.500 0.00 0.00 0.00 2.29
2821 15125 5.756347 TGTAGAACAACTTCACCACATACAC 59.244 40.000 0.00 0.00 0.00 2.90
2822 15126 5.036117 AGAACAACTTCACCACATACACT 57.964 39.130 0.00 0.00 0.00 3.55
2823 15127 6.169557 AGAACAACTTCACCACATACACTA 57.830 37.500 0.00 0.00 0.00 2.74
2824 15128 5.989777 AGAACAACTTCACCACATACACTAC 59.010 40.000 0.00 0.00 0.00 2.73
2825 15129 5.546621 ACAACTTCACCACATACACTACT 57.453 39.130 0.00 0.00 0.00 2.57
2826 15130 6.659745 ACAACTTCACCACATACACTACTA 57.340 37.500 0.00 0.00 0.00 1.82
2827 15131 6.688578 ACAACTTCACCACATACACTACTAG 58.311 40.000 0.00 0.00 0.00 2.57
2828 15132 6.492429 ACAACTTCACCACATACACTACTAGA 59.508 38.462 0.00 0.00 0.00 2.43
2829 15133 7.014905 ACAACTTCACCACATACACTACTAGAA 59.985 37.037 0.00 0.00 0.00 2.10
2830 15134 7.534723 ACTTCACCACATACACTACTAGAAA 57.465 36.000 0.00 0.00 0.00 2.52
2831 15135 7.959175 ACTTCACCACATACACTACTAGAAAA 58.041 34.615 0.00 0.00 0.00 2.29
2832 15136 8.426489 ACTTCACCACATACACTACTAGAAAAA 58.574 33.333 0.00 0.00 0.00 1.94
2833 15137 8.597662 TTCACCACATACACTACTAGAAAAAC 57.402 34.615 0.00 0.00 0.00 2.43
2834 15138 6.864685 TCACCACATACACTACTAGAAAAACG 59.135 38.462 0.00 0.00 0.00 3.60
2835 15139 6.090358 CACCACATACACTACTAGAAAAACGG 59.910 42.308 0.00 0.00 0.00 4.44
2836 15140 6.161381 CCACATACACTACTAGAAAAACGGT 58.839 40.000 0.00 0.00 0.00 4.83
2837 15141 6.647895 CCACATACACTACTAGAAAAACGGTT 59.352 38.462 0.00 0.00 0.00 4.44
2838 15142 7.814107 CCACATACACTACTAGAAAAACGGTTA 59.186 37.037 0.00 0.00 0.00 2.85
2839 15143 9.362539 CACATACACTACTAGAAAAACGGTTAT 57.637 33.333 0.00 0.00 0.00 1.89
2842 15146 9.741647 ATACACTACTAGAAAAACGGTTATAGC 57.258 33.333 0.00 0.00 0.00 2.97
2843 15147 7.834803 ACACTACTAGAAAAACGGTTATAGCT 58.165 34.615 0.00 0.00 0.00 3.32
2844 15148 8.960591 ACACTACTAGAAAAACGGTTATAGCTA 58.039 33.333 0.00 0.00 0.00 3.32
2845 15149 9.793252 CACTACTAGAAAAACGGTTATAGCTAA 57.207 33.333 0.00 0.00 0.00 3.09
2852 15156 9.269453 AGAAAAACGGTTATAGCTAATATGGAC 57.731 33.333 0.00 0.00 0.00 4.02
2853 15157 9.269453 GAAAAACGGTTATAGCTAATATGGACT 57.731 33.333 0.00 0.00 0.00 3.85
2854 15158 9.623000 AAAAACGGTTATAGCTAATATGGACTT 57.377 29.630 0.00 0.00 0.00 3.01
2855 15159 9.623000 AAAACGGTTATAGCTAATATGGACTTT 57.377 29.630 0.00 0.00 0.00 2.66
2862 15166 7.849804 ATAGCTAATATGGACTTTAATGGCG 57.150 36.000 0.00 0.00 0.00 5.69
2863 15167 4.455877 AGCTAATATGGACTTTAATGGCGC 59.544 41.667 0.00 0.00 0.00 6.53
2864 15168 4.215399 GCTAATATGGACTTTAATGGCGCA 59.785 41.667 10.83 0.00 0.00 6.09
2865 15169 4.568152 AATATGGACTTTAATGGCGCAC 57.432 40.909 10.83 0.00 0.00 5.34
2866 15170 1.102978 ATGGACTTTAATGGCGCACC 58.897 50.000 10.83 0.00 0.00 5.01
2875 15179 3.902318 TGGCGCACCATGTATGTG 58.098 55.556 10.83 3.91 42.67 3.21
2876 15180 1.748500 TGGCGCACCATGTATGTGG 60.749 57.895 10.83 0.00 42.67 4.17
2883 15187 3.151461 CCATGTATGTGGTGCGTCA 57.849 52.632 0.00 0.00 34.46 4.35
2884 15188 1.667236 CCATGTATGTGGTGCGTCAT 58.333 50.000 0.00 0.00 34.46 3.06
2885 15189 2.016318 CCATGTATGTGGTGCGTCATT 58.984 47.619 0.00 0.00 34.46 2.57
2886 15190 3.202097 CCATGTATGTGGTGCGTCATTA 58.798 45.455 0.00 0.00 34.46 1.90
2887 15191 3.625313 CCATGTATGTGGTGCGTCATTAA 59.375 43.478 0.00 0.00 34.46 1.40
2888 15192 4.275689 CCATGTATGTGGTGCGTCATTAAT 59.724 41.667 0.00 0.00 34.46 1.40
2889 15193 4.873768 TGTATGTGGTGCGTCATTAATG 57.126 40.909 9.29 9.29 0.00 1.90
2890 15194 3.625313 TGTATGTGGTGCGTCATTAATGG 59.375 43.478 15.36 1.65 0.00 3.16
2891 15195 0.808125 TGTGGTGCGTCATTAATGGC 59.192 50.000 15.36 12.82 0.00 4.40
2892 15196 0.100503 GTGGTGCGTCATTAATGGCC 59.899 55.000 14.27 7.85 0.00 5.36
2893 15197 0.322906 TGGTGCGTCATTAATGGCCA 60.323 50.000 8.56 8.56 0.00 5.36
2894 15198 1.032014 GGTGCGTCATTAATGGCCAT 58.968 50.000 14.09 14.09 0.00 4.40
2895 15199 2.226330 GGTGCGTCATTAATGGCCATA 58.774 47.619 21.15 4.23 0.00 2.74
2896 15200 2.819608 GGTGCGTCATTAATGGCCATAT 59.180 45.455 21.15 6.96 0.00 1.78
2897 15201 3.255642 GGTGCGTCATTAATGGCCATATT 59.744 43.478 21.15 7.90 0.00 1.28
2898 15202 4.457603 GGTGCGTCATTAATGGCCATATTA 59.542 41.667 21.15 6.69 0.00 0.98
2899 15203 5.390613 GTGCGTCATTAATGGCCATATTAC 58.609 41.667 21.15 10.51 0.00 1.89
2900 15204 5.181245 GTGCGTCATTAATGGCCATATTACT 59.819 40.000 21.15 5.21 0.00 2.24
2901 15205 6.370442 GTGCGTCATTAATGGCCATATTACTA 59.630 38.462 21.15 4.03 0.00 1.82
2902 15206 6.937465 TGCGTCATTAATGGCCATATTACTAA 59.063 34.615 21.15 13.87 0.00 2.24
2903 15207 7.609918 TGCGTCATTAATGGCCATATTACTAAT 59.390 33.333 21.15 15.59 0.00 1.73
2904 15208 7.910162 GCGTCATTAATGGCCATATTACTAATG 59.090 37.037 27.16 27.16 0.00 1.90
2905 15209 8.397906 CGTCATTAATGGCCATATTACTAATGG 58.602 37.037 29.75 19.22 45.68 3.16
2906 15210 9.243105 GTCATTAATGGCCATATTACTAATGGT 57.757 33.333 29.75 13.03 44.87 3.55
2907 15211 9.241919 TCATTAATGGCCATATTACTAATGGTG 57.758 33.333 29.75 17.16 44.87 4.17
2908 15212 9.023962 CATTAATGGCCATATTACTAATGGTGT 57.976 33.333 26.19 9.66 44.87 4.16
2910 15214 7.996098 AATGGCCATATTACTAATGGTGTAC 57.004 36.000 21.15 0.00 44.87 2.90
2911 15215 5.871834 TGGCCATATTACTAATGGTGTACC 58.128 41.667 0.00 0.00 44.87 3.34
2912 15216 5.609284 TGGCCATATTACTAATGGTGTACCT 59.391 40.000 0.00 0.00 44.87 3.08
2913 15217 5.938125 GGCCATATTACTAATGGTGTACCTG 59.062 44.000 0.00 0.00 44.87 4.00
2914 15218 5.938125 GCCATATTACTAATGGTGTACCTGG 59.062 44.000 2.32 0.00 44.87 4.45
2915 15219 6.465321 GCCATATTACTAATGGTGTACCTGGT 60.465 42.308 4.05 4.05 44.87 4.00
2916 15220 6.934645 CCATATTACTAATGGTGTACCTGGTG 59.065 42.308 10.23 0.00 39.30 4.17
2917 15221 7.419750 CCATATTACTAATGGTGTACCTGGTGT 60.420 40.741 10.23 0.00 39.30 4.16
2918 15222 3.695830 ACTAATGGTGTACCTGGTGTG 57.304 47.619 10.23 0.00 36.82 3.82
2919 15223 2.976882 ACTAATGGTGTACCTGGTGTGT 59.023 45.455 10.23 0.00 36.82 3.72
2920 15224 2.270352 AATGGTGTACCTGGTGTGTG 57.730 50.000 10.23 0.00 36.82 3.82
2921 15225 0.400213 ATGGTGTACCTGGTGTGTGG 59.600 55.000 10.23 0.00 36.82 4.17
2922 15226 0.983905 TGGTGTACCTGGTGTGTGGT 60.984 55.000 10.23 0.00 40.12 4.16
2923 15227 0.534203 GGTGTACCTGGTGTGTGGTG 60.534 60.000 10.23 0.00 37.74 4.17
2924 15228 1.147376 TGTACCTGGTGTGTGGTGC 59.853 57.895 10.23 0.00 39.01 5.01
2925 15229 1.959226 GTACCTGGTGTGTGGTGCG 60.959 63.158 10.23 0.00 37.74 5.34
2926 15230 3.818121 TACCTGGTGTGTGGTGCGC 62.818 63.158 10.23 0.00 37.74 6.09
2940 15244 4.103365 TGGTGCGCCATTACTAATTTTG 57.897 40.909 16.89 0.00 40.46 2.44
2941 15245 3.508012 TGGTGCGCCATTACTAATTTTGT 59.492 39.130 16.89 0.00 40.46 2.83
2942 15246 4.102649 GGTGCGCCATTACTAATTTTGTC 58.897 43.478 12.58 0.00 34.09 3.18
2943 15247 4.102649 GTGCGCCATTACTAATTTTGTCC 58.897 43.478 4.18 0.00 0.00 4.02
2944 15248 4.013728 TGCGCCATTACTAATTTTGTCCT 58.986 39.130 4.18 0.00 0.00 3.85
2945 15249 4.142491 TGCGCCATTACTAATTTTGTCCTG 60.142 41.667 4.18 0.00 0.00 3.86
2946 15250 4.733523 GCGCCATTACTAATTTTGTCCTGG 60.734 45.833 0.00 7.12 0.00 4.45
2947 15251 4.682787 GCCATTACTAATTTTGTCCTGGC 58.317 43.478 15.54 15.54 37.68 4.85
2948 15252 4.441495 GCCATTACTAATTTTGTCCTGGCC 60.441 45.833 17.89 0.00 38.28 5.36
2949 15253 4.099419 CCATTACTAATTTTGTCCTGGCCC 59.901 45.833 0.00 0.00 0.00 5.80
2950 15254 2.231716 ACTAATTTTGTCCTGGCCCC 57.768 50.000 0.00 0.00 0.00 5.80
2951 15255 1.431243 ACTAATTTTGTCCTGGCCCCA 59.569 47.619 0.00 0.00 0.00 4.96
2952 15256 1.824852 CTAATTTTGTCCTGGCCCCAC 59.175 52.381 0.00 0.00 0.00 4.61
2953 15257 0.105246 AATTTTGTCCTGGCCCCACA 60.105 50.000 0.00 0.00 0.00 4.17
2954 15258 0.831711 ATTTTGTCCTGGCCCCACAC 60.832 55.000 0.00 0.00 0.00 3.82
2955 15259 2.937959 TTTTGTCCTGGCCCCACACC 62.938 60.000 0.00 0.00 0.00 4.16
2958 15262 4.938756 TCCTGGCCCCACACCCTT 62.939 66.667 0.00 0.00 0.00 3.95
2959 15263 4.366684 CCTGGCCCCACACCCTTC 62.367 72.222 0.00 0.00 0.00 3.46
2960 15264 4.366684 CTGGCCCCACACCCTTCC 62.367 72.222 0.00 0.00 0.00 3.46
2963 15267 4.366684 GCCCCACACCCTTCCCAG 62.367 72.222 0.00 0.00 0.00 4.45
2964 15268 2.531685 CCCCACACCCTTCCCAGA 60.532 66.667 0.00 0.00 0.00 3.86
2965 15269 2.757077 CCCACACCCTTCCCAGAC 59.243 66.667 0.00 0.00 0.00 3.51
2966 15270 1.847968 CCCACACCCTTCCCAGACT 60.848 63.158 0.00 0.00 0.00 3.24
2967 15271 1.427072 CCCACACCCTTCCCAGACTT 61.427 60.000 0.00 0.00 0.00 3.01
2968 15272 1.358152 CCACACCCTTCCCAGACTTA 58.642 55.000 0.00 0.00 0.00 2.24
2969 15273 1.279271 CCACACCCTTCCCAGACTTAG 59.721 57.143 0.00 0.00 0.00 2.18
2970 15274 0.984995 ACACCCTTCCCAGACTTAGC 59.015 55.000 0.00 0.00 0.00 3.09
2971 15275 0.984230 CACCCTTCCCAGACTTAGCA 59.016 55.000 0.00 0.00 0.00 3.49
2972 15276 1.065854 CACCCTTCCCAGACTTAGCAG 60.066 57.143 0.00 0.00 0.00 4.24
2973 15277 1.280457 CCCTTCCCAGACTTAGCAGT 58.720 55.000 0.00 0.00 35.17 4.40
2974 15278 1.065854 CCCTTCCCAGACTTAGCAGTG 60.066 57.143 0.00 0.00 31.22 3.66
2975 15279 1.065854 CCTTCCCAGACTTAGCAGTGG 60.066 57.143 0.00 0.00 31.22 4.00
2976 15280 0.324943 TTCCCAGACTTAGCAGTGGC 59.675 55.000 0.00 0.00 41.61 5.01
2986 15290 2.203070 GCAGTGGCGTATCAGGGG 60.203 66.667 0.00 0.00 0.00 4.79
2987 15291 2.731571 GCAGTGGCGTATCAGGGGA 61.732 63.158 0.00 0.00 0.00 4.81
2988 15292 1.904771 CAGTGGCGTATCAGGGGAA 59.095 57.895 0.00 0.00 0.00 3.97
2989 15293 0.469917 CAGTGGCGTATCAGGGGAAT 59.530 55.000 0.00 0.00 0.00 3.01
2990 15294 0.469917 AGTGGCGTATCAGGGGAATG 59.530 55.000 0.00 0.00 0.00 2.67
2991 15295 0.180406 GTGGCGTATCAGGGGAATGT 59.820 55.000 0.00 0.00 0.00 2.71
2992 15296 0.180171 TGGCGTATCAGGGGAATGTG 59.820 55.000 0.00 0.00 0.00 3.21
2993 15297 1.166531 GGCGTATCAGGGGAATGTGC 61.167 60.000 0.00 0.00 0.00 4.57
2994 15298 1.498865 GCGTATCAGGGGAATGTGCG 61.499 60.000 0.00 0.00 0.00 5.34
2995 15299 1.498865 CGTATCAGGGGAATGTGCGC 61.499 60.000 0.00 0.00 0.00 6.09
2996 15300 1.148273 TATCAGGGGAATGTGCGCC 59.852 57.895 4.18 0.00 40.90 6.53
2997 15301 1.631071 TATCAGGGGAATGTGCGCCA 61.631 55.000 4.18 2.31 42.86 5.69
2998 15302 2.288642 ATCAGGGGAATGTGCGCCAT 62.289 55.000 4.18 5.09 42.86 4.40
2999 15303 2.053865 CAGGGGAATGTGCGCCATT 61.054 57.895 19.68 19.68 46.51 3.16
3000 15304 0.751277 CAGGGGAATGTGCGCCATTA 60.751 55.000 19.63 0.00 43.87 1.90
3001 15305 0.751643 AGGGGAATGTGCGCCATTAC 60.752 55.000 19.70 19.70 43.87 1.89
3002 15306 0.751643 GGGGAATGTGCGCCATTACT 60.752 55.000 24.10 7.29 43.87 2.24
3003 15307 1.476110 GGGGAATGTGCGCCATTACTA 60.476 52.381 24.10 0.00 43.87 1.82
3004 15308 2.294074 GGGAATGTGCGCCATTACTAA 58.706 47.619 24.10 0.00 43.87 2.24
3005 15309 2.884639 GGGAATGTGCGCCATTACTAAT 59.115 45.455 24.10 6.14 43.87 1.73
3006 15310 3.317993 GGGAATGTGCGCCATTACTAATT 59.682 43.478 24.10 7.15 43.87 1.40
3007 15311 4.202111 GGGAATGTGCGCCATTACTAATTT 60.202 41.667 24.10 5.63 43.87 1.82
3008 15312 5.348164 GGAATGTGCGCCATTACTAATTTT 58.652 37.500 20.27 2.24 43.87 1.82
3009 15313 6.460399 GGGAATGTGCGCCATTACTAATTTTA 60.460 38.462 24.10 0.00 43.87 1.52
3010 15314 6.975772 GGAATGTGCGCCATTACTAATTTTAA 59.024 34.615 20.27 0.00 43.87 1.52
3011 15315 7.043656 GGAATGTGCGCCATTACTAATTTTAAC 60.044 37.037 20.27 2.27 43.87 2.01
3012 15316 6.503589 TGTGCGCCATTACTAATTTTAACT 57.496 33.333 4.18 0.00 0.00 2.24
3013 15317 7.612668 TGTGCGCCATTACTAATTTTAACTA 57.387 32.000 4.18 0.00 0.00 2.24
3014 15318 8.215926 TGTGCGCCATTACTAATTTTAACTAT 57.784 30.769 4.18 0.00 0.00 2.12
3015 15319 8.679100 TGTGCGCCATTACTAATTTTAACTATT 58.321 29.630 4.18 0.00 0.00 1.73
3026 15330 8.132995 ACTAATTTTAACTATTAATGGCGCACC 58.867 33.333 10.83 0.00 0.00 5.01
3048 15352 4.373116 CCACGGTGCGCCACTACT 62.373 66.667 18.18 0.00 34.40 2.57
3049 15353 2.569657 CACGGTGCGCCACTACTA 59.430 61.111 18.18 0.00 34.40 1.82
3050 15354 1.080366 CACGGTGCGCCACTACTAA 60.080 57.895 18.18 0.00 34.40 2.24
3051 15355 1.080298 ACGGTGCGCCACTACTAAC 60.080 57.895 18.18 0.00 34.40 2.34
3052 15356 1.080366 CGGTGCGCCACTACTAACA 60.080 57.895 18.18 0.00 34.40 2.41
3053 15357 0.459585 CGGTGCGCCACTACTAACAT 60.460 55.000 18.18 0.00 34.40 2.71
3054 15358 1.734163 GGTGCGCCACTACTAACATT 58.266 50.000 12.58 0.00 34.40 2.71
3055 15359 2.081462 GGTGCGCCACTACTAACATTT 58.919 47.619 12.58 0.00 34.40 2.32
3056 15360 2.486592 GGTGCGCCACTACTAACATTTT 59.513 45.455 12.58 0.00 34.40 1.82
3057 15361 3.057806 GGTGCGCCACTACTAACATTTTT 60.058 43.478 12.58 0.00 34.40 1.94
3090 15394 5.440234 TTTTCAAAACTAGTAATGGCGCA 57.560 34.783 10.83 0.00 0.00 6.09
3091 15395 4.413495 TTCAAAACTAGTAATGGCGCAC 57.587 40.909 10.83 0.00 0.00 5.34
3092 15396 2.745281 TCAAAACTAGTAATGGCGCACC 59.255 45.455 10.83 0.00 0.00 5.01
3101 15405 2.046411 TGGCGCACCATACACCAG 60.046 61.111 10.83 0.00 42.67 4.00
3102 15406 2.267642 GGCGCACCATACACCAGA 59.732 61.111 10.83 0.00 35.26 3.86
3103 15407 1.153168 GGCGCACCATACACCAGAT 60.153 57.895 10.83 0.00 35.26 2.90
3104 15408 1.439353 GGCGCACCATACACCAGATG 61.439 60.000 10.83 0.00 35.26 2.90
3105 15409 2.016961 CGCACCATACACCAGATGC 58.983 57.895 0.00 0.00 0.00 3.91
3106 15410 2.016961 GCACCATACACCAGATGCG 58.983 57.895 0.00 0.00 0.00 4.73
3107 15411 2.016961 CACCATACACCAGATGCGC 58.983 57.895 0.00 0.00 0.00 6.09
3108 15412 0.462581 CACCATACACCAGATGCGCT 60.463 55.000 9.73 0.00 0.00 5.92
3109 15413 1.119684 ACCATACACCAGATGCGCTA 58.880 50.000 9.73 0.00 0.00 4.26
3110 15414 1.694150 ACCATACACCAGATGCGCTAT 59.306 47.619 9.73 0.00 0.00 2.97
3111 15415 2.104792 ACCATACACCAGATGCGCTATT 59.895 45.455 9.73 0.00 0.00 1.73
3112 15416 3.323691 ACCATACACCAGATGCGCTATTA 59.676 43.478 9.73 0.00 0.00 0.98
3113 15417 3.928992 CCATACACCAGATGCGCTATTAG 59.071 47.826 9.73 0.00 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 1561 2.943033 GTGTCCAACAATTATCCCCTCG 59.057 50.000 0.00 0.00 0.00 4.63
18 1572 0.171455 GCAACCAACGTGTCCAACAA 59.829 50.000 0.00 0.00 0.00 2.83
156 1715 2.649129 GCCATGGTTTGTGGGAGGC 61.649 63.158 14.67 0.00 37.22 4.70
163 1722 2.990967 CTGGCGGCCATGGTTTGT 60.991 61.111 24.10 0.00 30.82 2.83
189 1748 5.652452 CGTGGATCATATCTCAGTACCCATA 59.348 44.000 0.00 0.00 0.00 2.74
197 1756 5.461407 CACAACTTCGTGGATCATATCTCAG 59.539 44.000 0.00 0.00 33.05 3.35
234 1793 0.537188 CTTCCCAGCCACGTAGATGT 59.463 55.000 0.00 0.00 0.00 3.06
296 6877 2.566724 CAAACATGCATTGGTACCCCTT 59.433 45.455 10.07 0.00 0.00 3.95
437 7019 2.401583 TTAGATGTGACCGCTTGCAT 57.598 45.000 0.00 0.00 0.00 3.96
458 7040 4.546829 TGTAGCCTACCGATGAAAAGTT 57.453 40.909 0.00 0.00 0.00 2.66
592 7175 0.912486 GGCATGAGTACCCAGGAACT 59.088 55.000 0.00 0.00 43.88 3.01
1083 7667 2.298729 TGTCACCATCGACAAGTCATCA 59.701 45.455 0.72 0.00 42.82 3.07
1102 7686 1.548357 ATCCAGCTCTCGTGCCTTGT 61.548 55.000 0.00 0.00 0.00 3.16
1163 7747 1.228003 AACACCCCGAATCGTTGCA 60.228 52.632 0.82 0.00 0.00 4.08
1208 7792 4.404073 ACTTGTGGTTCTTGGCATTAAACA 59.596 37.500 8.71 3.41 0.00 2.83
1261 7845 3.064931 CCTTGAACTCCTCGTTGGTTAC 58.935 50.000 0.00 0.00 35.56 2.50
1570 8157 1.681538 TGCCGGTTTTGAGCTTAACA 58.318 45.000 1.90 0.00 0.00 2.41
1651 8238 0.466189 CCATAAGCCCACCTTCGCAT 60.466 55.000 0.00 0.00 34.95 4.73
1813 14101 0.540454 CTTGCATGAGAGCTCCCTCA 59.460 55.000 10.93 9.26 46.02 3.86
1873 14161 8.748412 CCTTTGTAAAATTGGAAGGTCATATCA 58.252 33.333 0.00 0.00 33.76 2.15
1931 14219 1.034838 GCCGCAATACCATGGTCCAA 61.035 55.000 23.76 4.00 0.00 3.53
1972 14260 3.305950 GCAACCAATACTTTGTGCCATCA 60.306 43.478 0.00 0.00 31.83 3.07
2280 14568 4.324936 CACTTACAAAACAAAACGGGTGTG 59.675 41.667 0.00 0.00 0.00 3.82
2290 14578 4.673061 CGGCACAGTTCACTTACAAAACAA 60.673 41.667 0.00 0.00 0.00 2.83
2311 14599 6.743575 AAAATATGAAGGAACAAGAGACGG 57.256 37.500 0.00 0.00 0.00 4.79
2388 14681 8.694581 ATCAAATCCACCATTTTCACATTTTT 57.305 26.923 0.00 0.00 31.79 1.94
2429 14722 7.458409 ACATTTTGTTCTATTCTCATGCTGT 57.542 32.000 0.00 0.00 0.00 4.40
2470 14764 7.468141 GGAAAAGTCCATCCTATTTCACTTT 57.532 36.000 0.00 0.00 44.26 2.66
2500 14794 3.493699 GGGATCATGACGACGGGAATTAA 60.494 47.826 0.00 0.00 0.00 1.40
2501 14795 2.036733 GGGATCATGACGACGGGAATTA 59.963 50.000 0.00 0.00 0.00 1.40
2518 14812 0.389948 GTTGTCGAGCGTTGAGGGAT 60.390 55.000 0.00 0.00 0.00 3.85
2596 14890 7.832685 ACTAACCATAATTAAGGTCCACTTTCC 59.167 37.037 12.58 0.00 40.64 3.13
2617 14911 9.955208 CCCCCACGAAATATTTTAATTACTAAC 57.045 33.333 1.43 0.00 0.00 2.34
2700 15004 3.268023 AGCCTGCCTGTTCATTACTAC 57.732 47.619 0.00 0.00 0.00 2.73
2739 15043 9.199645 CATCCATATATGTAGACCATCTCTTCT 57.800 37.037 11.73 0.00 34.86 2.85
2778 15082 7.435068 TCTACAGATTAGAAAGTGCAAAACC 57.565 36.000 0.00 0.00 0.00 3.27
2798 15102 5.989777 AGTGTATGTGGTGAAGTTGTTCTAC 59.010 40.000 0.00 0.00 33.38 2.59
2819 15123 9.793252 TTAGCTATAACCGTTTTTCTAGTAGTG 57.207 33.333 0.00 0.00 0.00 2.74
2826 15130 9.269453 GTCCATATTAGCTATAACCGTTTTTCT 57.731 33.333 0.00 0.00 0.00 2.52
2827 15131 9.269453 AGTCCATATTAGCTATAACCGTTTTTC 57.731 33.333 0.00 0.00 0.00 2.29
2828 15132 9.623000 AAGTCCATATTAGCTATAACCGTTTTT 57.377 29.630 0.00 0.00 0.00 1.94
2829 15133 9.623000 AAAGTCCATATTAGCTATAACCGTTTT 57.377 29.630 0.00 0.00 0.00 2.43
2836 15140 9.378551 CGCCATTAAAGTCCATATTAGCTATAA 57.621 33.333 0.00 0.00 0.00 0.98
2837 15141 7.494625 GCGCCATTAAAGTCCATATTAGCTATA 59.505 37.037 0.00 0.00 0.00 1.31
2838 15142 6.316390 GCGCCATTAAAGTCCATATTAGCTAT 59.684 38.462 0.00 0.00 0.00 2.97
2839 15143 5.642063 GCGCCATTAAAGTCCATATTAGCTA 59.358 40.000 0.00 0.00 0.00 3.32
2840 15144 4.455877 GCGCCATTAAAGTCCATATTAGCT 59.544 41.667 0.00 0.00 0.00 3.32
2841 15145 4.215399 TGCGCCATTAAAGTCCATATTAGC 59.785 41.667 4.18 0.00 0.00 3.09
2842 15146 5.334879 GGTGCGCCATTAAAGTCCATATTAG 60.335 44.000 12.58 0.00 34.09 1.73
2843 15147 4.517453 GGTGCGCCATTAAAGTCCATATTA 59.483 41.667 12.58 0.00 34.09 0.98
2844 15148 3.317993 GGTGCGCCATTAAAGTCCATATT 59.682 43.478 12.58 0.00 34.09 1.28
2845 15149 2.884639 GGTGCGCCATTAAAGTCCATAT 59.115 45.455 12.58 0.00 34.09 1.78
2846 15150 2.294074 GGTGCGCCATTAAAGTCCATA 58.706 47.619 12.58 0.00 34.09 2.74
2847 15151 1.102978 GGTGCGCCATTAAAGTCCAT 58.897 50.000 12.58 0.00 34.09 3.41
2848 15152 0.250945 TGGTGCGCCATTAAAGTCCA 60.251 50.000 16.89 0.00 40.46 4.02
2849 15153 2.562125 TGGTGCGCCATTAAAGTCC 58.438 52.632 16.89 0.00 40.46 3.85
2859 15163 3.110139 CCACATACATGGTGCGCC 58.890 61.111 10.11 10.11 34.77 6.53
2865 15169 1.667236 ATGACGCACCACATACATGG 58.333 50.000 0.00 0.00 46.10 3.66
2866 15170 4.873768 TTAATGACGCACCACATACATG 57.126 40.909 0.00 0.00 0.00 3.21
2867 15171 4.275689 CCATTAATGACGCACCACATACAT 59.724 41.667 17.23 0.00 0.00 2.29
2868 15172 3.625313 CCATTAATGACGCACCACATACA 59.375 43.478 17.23 0.00 0.00 2.29
2869 15173 3.548014 GCCATTAATGACGCACCACATAC 60.548 47.826 17.23 0.00 0.00 2.39
2870 15174 2.616376 GCCATTAATGACGCACCACATA 59.384 45.455 17.23 0.00 0.00 2.29
2871 15175 1.405105 GCCATTAATGACGCACCACAT 59.595 47.619 17.23 0.00 0.00 3.21
2872 15176 0.808125 GCCATTAATGACGCACCACA 59.192 50.000 17.23 0.00 0.00 4.17
2873 15177 0.100503 GGCCATTAATGACGCACCAC 59.899 55.000 17.23 0.00 0.00 4.16
2874 15178 0.322906 TGGCCATTAATGACGCACCA 60.323 50.000 17.23 12.20 0.00 4.17
2875 15179 1.032014 ATGGCCATTAATGACGCACC 58.968 50.000 14.09 9.99 0.00 5.01
2876 15180 4.503741 AATATGGCCATTAATGACGCAC 57.496 40.909 26.37 7.41 0.00 5.34
2877 15181 5.312895 AGTAATATGGCCATTAATGACGCA 58.687 37.500 26.37 1.80 0.00 5.24
2878 15182 5.880054 AGTAATATGGCCATTAATGACGC 57.120 39.130 26.37 12.01 0.00 5.19
2879 15183 8.397906 CCATTAGTAATATGGCCATTAATGACG 58.602 37.037 31.22 19.82 36.43 4.35
2880 15184 9.243105 ACCATTAGTAATATGGCCATTAATGAC 57.757 33.333 31.22 21.51 45.24 3.06
2881 15185 9.241919 CACCATTAGTAATATGGCCATTAATGA 57.758 33.333 31.22 16.84 45.24 2.57
2882 15186 9.023962 ACACCATTAGTAATATGGCCATTAATG 57.976 33.333 26.60 26.60 45.24 1.90
2884 15188 9.509956 GTACACCATTAGTAATATGGCCATTAA 57.490 33.333 26.37 16.15 45.24 1.40
2885 15189 8.104566 GGTACACCATTAGTAATATGGCCATTA 58.895 37.037 26.37 9.40 45.24 1.90
2886 15190 6.946009 GGTACACCATTAGTAATATGGCCATT 59.054 38.462 26.37 10.62 45.24 3.16
2887 15191 6.274672 AGGTACACCATTAGTAATATGGCCAT 59.725 38.462 24.45 24.45 45.24 4.40
2888 15192 5.609284 AGGTACACCATTAGTAATATGGCCA 59.391 40.000 8.56 8.56 45.24 5.36
2889 15193 5.938125 CAGGTACACCATTAGTAATATGGCC 59.062 44.000 0.00 0.00 45.24 5.36
2890 15194 5.938125 CCAGGTACACCATTAGTAATATGGC 59.062 44.000 0.38 0.73 45.24 4.40
2891 15195 6.934645 CACCAGGTACACCATTAGTAATATGG 59.065 42.308 0.38 6.23 46.48 2.74
2892 15196 7.441157 CACACCAGGTACACCATTAGTAATATG 59.559 40.741 0.38 0.40 38.89 1.78
2893 15197 7.126726 ACACACCAGGTACACCATTAGTAATAT 59.873 37.037 0.38 0.00 38.89 1.28
2894 15198 6.441284 ACACACCAGGTACACCATTAGTAATA 59.559 38.462 0.38 0.00 38.89 0.98
2895 15199 5.249852 ACACACCAGGTACACCATTAGTAAT 59.750 40.000 0.38 0.00 38.89 1.89
2896 15200 4.594062 ACACACCAGGTACACCATTAGTAA 59.406 41.667 0.38 0.00 38.89 2.24
2897 15201 4.020928 CACACACCAGGTACACCATTAGTA 60.021 45.833 0.38 0.00 38.89 1.82
2898 15202 2.976882 ACACACCAGGTACACCATTAGT 59.023 45.455 0.38 0.00 38.89 2.24
2899 15203 3.334691 CACACACCAGGTACACCATTAG 58.665 50.000 0.38 0.00 38.89 1.73
2900 15204 2.039216 CCACACACCAGGTACACCATTA 59.961 50.000 0.38 0.00 38.89 1.90
2901 15205 1.202879 CCACACACCAGGTACACCATT 60.203 52.381 0.38 0.00 38.89 3.16
2902 15206 0.400213 CCACACACCAGGTACACCAT 59.600 55.000 0.38 0.00 38.89 3.55
2903 15207 0.983905 ACCACACACCAGGTACACCA 60.984 55.000 0.38 0.00 36.07 4.17
2904 15208 0.534203 CACCACACACCAGGTACACC 60.534 60.000 0.00 0.00 36.07 4.16
2905 15209 1.164041 GCACCACACACCAGGTACAC 61.164 60.000 0.00 0.00 36.07 2.90
2906 15210 1.147376 GCACCACACACCAGGTACA 59.853 57.895 0.00 0.00 36.07 2.90
2907 15211 1.959226 CGCACCACACACCAGGTAC 60.959 63.158 0.00 0.00 36.07 3.34
2908 15212 2.423874 CGCACCACACACCAGGTA 59.576 61.111 0.00 0.00 36.07 3.08
2920 15224 4.102649 GACAAAATTAGTAATGGCGCACC 58.897 43.478 10.83 0.00 0.00 5.01
2921 15225 4.102649 GGACAAAATTAGTAATGGCGCAC 58.897 43.478 10.83 0.00 0.00 5.34
2922 15226 4.013728 AGGACAAAATTAGTAATGGCGCA 58.986 39.130 10.83 0.00 0.00 6.09
2923 15227 4.351192 CAGGACAAAATTAGTAATGGCGC 58.649 43.478 0.00 0.00 0.00 6.53
2924 15228 4.733523 GCCAGGACAAAATTAGTAATGGCG 60.734 45.833 16.46 0.00 39.42 5.69
2925 15229 4.441495 GGCCAGGACAAAATTAGTAATGGC 60.441 45.833 20.01 20.01 44.11 4.40
2926 15230 4.099419 GGGCCAGGACAAAATTAGTAATGG 59.901 45.833 4.39 8.46 0.00 3.16
2927 15231 4.099419 GGGGCCAGGACAAAATTAGTAATG 59.901 45.833 4.39 0.00 0.00 1.90
2928 15232 4.264623 TGGGGCCAGGACAAAATTAGTAAT 60.265 41.667 4.39 0.00 0.00 1.89
2929 15233 3.076182 TGGGGCCAGGACAAAATTAGTAA 59.924 43.478 4.39 0.00 0.00 2.24
2930 15234 2.650322 TGGGGCCAGGACAAAATTAGTA 59.350 45.455 4.39 0.00 0.00 1.82
2931 15235 1.431243 TGGGGCCAGGACAAAATTAGT 59.569 47.619 4.39 0.00 0.00 2.24
2932 15236 1.824852 GTGGGGCCAGGACAAAATTAG 59.175 52.381 4.39 0.00 0.00 1.73
2933 15237 1.148027 TGTGGGGCCAGGACAAAATTA 59.852 47.619 4.39 0.00 0.00 1.40
2934 15238 0.105246 TGTGGGGCCAGGACAAAATT 60.105 50.000 4.39 0.00 0.00 1.82
2935 15239 0.831711 GTGTGGGGCCAGGACAAAAT 60.832 55.000 4.39 0.00 0.00 1.82
2936 15240 1.456705 GTGTGGGGCCAGGACAAAA 60.457 57.895 4.39 0.00 0.00 2.44
2937 15241 2.197324 GTGTGGGGCCAGGACAAA 59.803 61.111 4.39 0.00 0.00 2.83
2938 15242 3.897122 GGTGTGGGGCCAGGACAA 61.897 66.667 4.39 0.00 0.00 3.18
2941 15245 4.938756 AAGGGTGTGGGGCCAGGA 62.939 66.667 4.39 0.00 0.00 3.86
2942 15246 4.366684 GAAGGGTGTGGGGCCAGG 62.367 72.222 4.39 0.00 0.00 4.45
2943 15247 4.366684 GGAAGGGTGTGGGGCCAG 62.367 72.222 4.39 0.00 0.00 4.85
2946 15250 4.366684 CTGGGAAGGGTGTGGGGC 62.367 72.222 0.00 0.00 0.00 5.80
2947 15251 2.531685 TCTGGGAAGGGTGTGGGG 60.532 66.667 0.00 0.00 0.00 4.96
2948 15252 1.427072 AAGTCTGGGAAGGGTGTGGG 61.427 60.000 0.00 0.00 0.00 4.61
2949 15253 1.279271 CTAAGTCTGGGAAGGGTGTGG 59.721 57.143 0.00 0.00 0.00 4.17
2950 15254 1.339151 GCTAAGTCTGGGAAGGGTGTG 60.339 57.143 0.00 0.00 0.00 3.82
2951 15255 0.984995 GCTAAGTCTGGGAAGGGTGT 59.015 55.000 0.00 0.00 0.00 4.16
2952 15256 0.984230 TGCTAAGTCTGGGAAGGGTG 59.016 55.000 0.00 0.00 0.00 4.61
2953 15257 1.280457 CTGCTAAGTCTGGGAAGGGT 58.720 55.000 0.00 0.00 0.00 4.34
2954 15258 1.065854 CACTGCTAAGTCTGGGAAGGG 60.066 57.143 0.00 0.00 32.98 3.95
2955 15259 1.065854 CCACTGCTAAGTCTGGGAAGG 60.066 57.143 0.00 0.00 32.98 3.46
2956 15260 1.677217 GCCACTGCTAAGTCTGGGAAG 60.677 57.143 0.00 0.00 32.98 3.46
2957 15261 0.324943 GCCACTGCTAAGTCTGGGAA 59.675 55.000 0.00 0.00 32.98 3.97
2958 15262 1.888436 CGCCACTGCTAAGTCTGGGA 61.888 60.000 0.00 0.00 32.98 4.37
2959 15263 1.448540 CGCCACTGCTAAGTCTGGG 60.449 63.158 0.00 0.00 32.98 4.45
2960 15264 0.530744 TACGCCACTGCTAAGTCTGG 59.469 55.000 0.00 0.00 32.98 3.86
2961 15265 2.159240 TGATACGCCACTGCTAAGTCTG 60.159 50.000 0.00 0.00 32.98 3.51
2962 15266 2.099921 CTGATACGCCACTGCTAAGTCT 59.900 50.000 0.00 0.00 32.98 3.24
2963 15267 2.464865 CTGATACGCCACTGCTAAGTC 58.535 52.381 0.00 0.00 32.98 3.01
2964 15268 1.137086 CCTGATACGCCACTGCTAAGT 59.863 52.381 0.00 0.00 36.98 2.24
2965 15269 1.539065 CCCTGATACGCCACTGCTAAG 60.539 57.143 0.00 0.00 34.43 2.18
2966 15270 0.464036 CCCTGATACGCCACTGCTAA 59.536 55.000 0.00 0.00 34.43 3.09
2967 15271 1.399744 CCCCTGATACGCCACTGCTA 61.400 60.000 0.00 0.00 34.43 3.49
2968 15272 2.735772 CCCCTGATACGCCACTGCT 61.736 63.158 0.00 0.00 34.43 4.24
2969 15273 2.203070 CCCCTGATACGCCACTGC 60.203 66.667 0.00 0.00 0.00 4.40
2970 15274 0.469917 ATTCCCCTGATACGCCACTG 59.530 55.000 0.00 0.00 0.00 3.66
2971 15275 0.469917 CATTCCCCTGATACGCCACT 59.530 55.000 0.00 0.00 0.00 4.00
2972 15276 0.180406 ACATTCCCCTGATACGCCAC 59.820 55.000 0.00 0.00 0.00 5.01
2973 15277 0.180171 CACATTCCCCTGATACGCCA 59.820 55.000 0.00 0.00 0.00 5.69
2974 15278 1.166531 GCACATTCCCCTGATACGCC 61.167 60.000 0.00 0.00 0.00 5.68
2975 15279 1.498865 CGCACATTCCCCTGATACGC 61.499 60.000 0.00 0.00 0.00 4.42
2976 15280 1.498865 GCGCACATTCCCCTGATACG 61.499 60.000 0.30 0.00 0.00 3.06
2977 15281 1.166531 GGCGCACATTCCCCTGATAC 61.167 60.000 10.83 0.00 0.00 2.24
2978 15282 1.148273 GGCGCACATTCCCCTGATA 59.852 57.895 10.83 0.00 0.00 2.15
2979 15283 2.124151 GGCGCACATTCCCCTGAT 60.124 61.111 10.83 0.00 0.00 2.90
2980 15284 2.497792 AATGGCGCACATTCCCCTGA 62.498 55.000 10.83 0.00 46.67 3.86
2981 15285 0.751277 TAATGGCGCACATTCCCCTG 60.751 55.000 22.04 0.00 46.67 4.45
2982 15286 0.751643 GTAATGGCGCACATTCCCCT 60.752 55.000 22.04 6.38 46.67 4.79
2983 15287 0.751643 AGTAATGGCGCACATTCCCC 60.752 55.000 22.04 13.83 46.67 4.81
2984 15288 1.961793 TAGTAATGGCGCACATTCCC 58.038 50.000 22.04 15.65 46.67 3.97
2985 15289 4.568152 AATTAGTAATGGCGCACATTCC 57.432 40.909 22.04 14.16 46.67 3.01
2986 15290 7.700656 AGTTAAAATTAGTAATGGCGCACATTC 59.299 33.333 22.04 15.36 46.67 2.67
2988 15292 7.095695 AGTTAAAATTAGTAATGGCGCACAT 57.904 32.000 10.83 7.73 43.07 3.21
2989 15293 6.503589 AGTTAAAATTAGTAATGGCGCACA 57.496 33.333 10.83 5.20 0.00 4.57
3000 15304 8.132995 GGTGCGCCATTAATAGTTAAAATTAGT 58.867 33.333 12.58 0.00 34.09 2.24
3001 15305 8.132362 TGGTGCGCCATTAATAGTTAAAATTAG 58.868 33.333 16.89 0.00 40.46 1.73
3002 15306 7.997482 TGGTGCGCCATTAATAGTTAAAATTA 58.003 30.769 16.89 0.00 40.46 1.40
3003 15307 6.868622 TGGTGCGCCATTAATAGTTAAAATT 58.131 32.000 16.89 0.00 40.46 1.82
3004 15308 6.458232 TGGTGCGCCATTAATAGTTAAAAT 57.542 33.333 16.89 0.00 40.46 1.82
3005 15309 5.899120 TGGTGCGCCATTAATAGTTAAAA 57.101 34.783 16.89 0.00 40.46 1.52
3031 15335 2.495366 TTAGTAGTGGCGCACCGTGG 62.495 60.000 10.83 0.00 39.70 4.94
3032 15336 1.080366 TTAGTAGTGGCGCACCGTG 60.080 57.895 10.83 0.00 39.70 4.94
3033 15337 1.080298 GTTAGTAGTGGCGCACCGT 60.080 57.895 10.83 0.00 39.70 4.83
3034 15338 0.459585 ATGTTAGTAGTGGCGCACCG 60.460 55.000 10.83 0.00 39.70 4.94
3035 15339 1.734163 AATGTTAGTAGTGGCGCACC 58.266 50.000 10.83 0.00 34.49 5.01
3036 15340 3.824414 AAAATGTTAGTAGTGGCGCAC 57.176 42.857 10.83 5.73 34.10 5.34
3067 15371 5.688176 GTGCGCCATTACTAGTTTTGAAAAA 59.312 36.000 4.18 0.00 0.00 1.94
3068 15372 5.216648 GTGCGCCATTACTAGTTTTGAAAA 58.783 37.500 4.18 0.00 0.00 2.29
3069 15373 4.320641 GGTGCGCCATTACTAGTTTTGAAA 60.321 41.667 12.58 0.00 34.09 2.69
3070 15374 3.189702 GGTGCGCCATTACTAGTTTTGAA 59.810 43.478 12.58 0.00 34.09 2.69
3071 15375 2.745281 GGTGCGCCATTACTAGTTTTGA 59.255 45.455 12.58 0.00 34.09 2.69
3072 15376 2.486203 TGGTGCGCCATTACTAGTTTTG 59.514 45.455 16.89 0.00 40.46 2.44
3073 15377 2.785562 TGGTGCGCCATTACTAGTTTT 58.214 42.857 16.89 0.00 40.46 2.43
3074 15378 2.483014 TGGTGCGCCATTACTAGTTT 57.517 45.000 16.89 0.00 40.46 2.66
3085 15389 1.153168 ATCTGGTGTATGGTGCGCC 60.153 57.895 10.11 10.11 37.06 6.53
3086 15390 2.016961 CATCTGGTGTATGGTGCGC 58.983 57.895 0.00 0.00 0.00 6.09
3087 15391 2.016961 GCATCTGGTGTATGGTGCG 58.983 57.895 0.00 0.00 0.00 5.34
3088 15392 2.016961 CGCATCTGGTGTATGGTGC 58.983 57.895 0.00 0.00 0.00 5.01
3089 15393 0.462581 AGCGCATCTGGTGTATGGTG 60.463 55.000 11.47 0.00 0.00 4.17
3090 15394 1.119684 TAGCGCATCTGGTGTATGGT 58.880 50.000 11.47 0.00 0.00 3.55
3091 15395 2.462456 ATAGCGCATCTGGTGTATGG 57.538 50.000 11.47 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.