Multiple sequence alignment - TraesCS4A01G040000

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4A01G040000 chr4A 100.000 3158 0 0 1 3158 32678413 32675256 0.000000e+00 5832
1 TraesCS4A01G040000 chr4B 92.252 2878 108 54 182 3018 529852445 529849642 0.000000e+00 3973
2 TraesCS4A01G040000 chr4B 91.720 157 8 2 3005 3158 529849624 529849470 2.470000e-51 213
3 TraesCS4A01G040000 chr4D 93.501 2631 82 42 178 2784 431418381 431415816 0.000000e+00 3829


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 TraesCS4A01G040000 chr4A 32675256 32678413 3157 True 5832 5832 100.000 1 3158 1 chr4A.!!$R1 3157
1 TraesCS4A01G040000 chr4B 529849470 529852445 2975 True 2093 3973 91.986 182 3158 2 chr4B.!!$R1 2976
2 TraesCS4A01G040000 chr4D 431415816 431418381 2565 True 3829 3829 93.501 178 2784 1 chr4D.!!$R1 2606

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
132 133 0.179070 GGAGATTCTCCGAACAGGGC 60.179 60.0 16.79 0.0 41.08 5.19 F
684 699 0.185175 TCATCTTCGATCTCCCCCGA 59.815 55.0 0.00 0.0 0.00 5.14 F
762 799 0.746659 GCAGCTTCTCCCTCTCTCTC 59.253 60.0 0.00 0.0 0.00 3.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1788 1834 0.757561 TGGACCCTATCGGAATCGCA 60.758 55.000 0.00 0.0 36.13 5.1 R
1960 2006 0.807667 ACGCAGTCGATCATTGAGCC 60.808 55.000 0.00 0.0 29.74 4.7 R
2327 2373 1.614903 TGTGCAAAAAGAGGCCATGAG 59.385 47.619 5.01 0.0 0.00 2.9 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
22 23 5.468540 AGTAAAGGCCTGTTTGGAATTTC 57.531 39.130 5.69 0.00 38.35 2.17
23 24 4.898861 AGTAAAGGCCTGTTTGGAATTTCA 59.101 37.500 5.69 0.00 38.35 2.69
24 25 3.751479 AAGGCCTGTTTGGAATTTCAC 57.249 42.857 5.69 0.00 38.35 3.18
25 26 1.970640 AGGCCTGTTTGGAATTTCACC 59.029 47.619 3.11 0.00 38.35 4.02
26 27 1.691434 GGCCTGTTTGGAATTTCACCA 59.309 47.619 0.00 0.00 38.35 4.17
27 28 2.289010 GGCCTGTTTGGAATTTCACCAG 60.289 50.000 0.00 5.84 38.70 4.00
28 29 2.289010 GCCTGTTTGGAATTTCACCAGG 60.289 50.000 20.60 20.60 38.70 4.45
29 30 2.965147 CCTGTTTGGAATTTCACCAGGT 59.035 45.455 18.08 0.00 38.70 4.00
30 31 3.387699 CCTGTTTGGAATTTCACCAGGTT 59.612 43.478 18.08 0.00 38.70 3.50
31 32 4.501400 CCTGTTTGGAATTTCACCAGGTTC 60.501 45.833 18.08 0.00 38.70 3.62
32 33 4.026744 TGTTTGGAATTTCACCAGGTTCA 58.973 39.130 0.00 0.00 38.70 3.18
33 34 4.142049 TGTTTGGAATTTCACCAGGTTCAC 60.142 41.667 0.00 0.00 38.70 3.18
34 35 2.226330 TGGAATTTCACCAGGTTCACG 58.774 47.619 0.00 0.00 33.22 4.35
35 36 2.158740 TGGAATTTCACCAGGTTCACGA 60.159 45.455 0.00 0.00 33.22 4.35
36 37 2.882137 GGAATTTCACCAGGTTCACGAA 59.118 45.455 0.00 0.00 0.00 3.85
37 38 3.316868 GGAATTTCACCAGGTTCACGAAA 59.683 43.478 5.51 5.51 0.00 3.46
38 39 4.022329 GGAATTTCACCAGGTTCACGAAAT 60.022 41.667 9.02 9.02 37.78 2.17
39 40 5.508994 GGAATTTCACCAGGTTCACGAAATT 60.509 40.000 20.64 20.64 44.65 1.82
40 41 3.980646 TTCACCAGGTTCACGAAATTG 57.019 42.857 0.00 0.00 0.00 2.32
41 42 1.606668 TCACCAGGTTCACGAAATTGC 59.393 47.619 0.00 0.00 0.00 3.56
42 43 1.336440 CACCAGGTTCACGAAATTGCA 59.664 47.619 0.00 0.00 0.00 4.08
43 44 2.028130 ACCAGGTTCACGAAATTGCAA 58.972 42.857 0.00 0.00 0.00 4.08
44 45 2.034558 ACCAGGTTCACGAAATTGCAAG 59.965 45.455 4.94 0.00 0.00 4.01
45 46 2.293122 CCAGGTTCACGAAATTGCAAGA 59.707 45.455 4.94 0.00 0.00 3.02
46 47 3.558505 CAGGTTCACGAAATTGCAAGAG 58.441 45.455 4.94 0.00 0.00 2.85
47 48 2.030805 AGGTTCACGAAATTGCAAGAGC 60.031 45.455 4.94 0.00 42.57 4.09
48 49 2.319472 GTTCACGAAATTGCAAGAGCC 58.681 47.619 4.94 0.00 41.13 4.70
49 50 0.516877 TCACGAAATTGCAAGAGCCG 59.483 50.000 4.94 8.39 41.13 5.52
50 51 0.238289 CACGAAATTGCAAGAGCCGT 59.762 50.000 4.94 9.03 41.13 5.68
51 52 0.238289 ACGAAATTGCAAGAGCCGTG 59.762 50.000 14.94 1.08 41.13 4.94
52 53 0.454957 CGAAATTGCAAGAGCCGTGG 60.455 55.000 4.94 0.00 41.13 4.94
53 54 0.881118 GAAATTGCAAGAGCCGTGGA 59.119 50.000 4.94 0.00 41.13 4.02
54 55 0.883833 AAATTGCAAGAGCCGTGGAG 59.116 50.000 4.94 0.00 41.13 3.86
55 56 0.250901 AATTGCAAGAGCCGTGGAGT 60.251 50.000 4.94 0.00 41.13 3.85
56 57 0.674895 ATTGCAAGAGCCGTGGAGTC 60.675 55.000 4.94 0.00 41.13 3.36
57 58 2.038814 TTGCAAGAGCCGTGGAGTCA 62.039 55.000 0.00 0.00 41.13 3.41
58 59 1.739562 GCAAGAGCCGTGGAGTCAG 60.740 63.158 0.00 0.00 33.58 3.51
59 60 1.967535 CAAGAGCCGTGGAGTCAGA 59.032 57.895 0.00 0.00 0.00 3.27
60 61 0.318441 CAAGAGCCGTGGAGTCAGAA 59.682 55.000 0.00 0.00 0.00 3.02
61 62 1.048601 AAGAGCCGTGGAGTCAGAAA 58.951 50.000 0.00 0.00 0.00 2.52
62 63 1.048601 AGAGCCGTGGAGTCAGAAAA 58.951 50.000 0.00 0.00 0.00 2.29
63 64 1.625818 AGAGCCGTGGAGTCAGAAAAT 59.374 47.619 0.00 0.00 0.00 1.82
64 65 2.832129 AGAGCCGTGGAGTCAGAAAATA 59.168 45.455 0.00 0.00 0.00 1.40
65 66 3.118956 AGAGCCGTGGAGTCAGAAAATAG 60.119 47.826 0.00 0.00 0.00 1.73
66 67 1.666189 GCCGTGGAGTCAGAAAATAGC 59.334 52.381 0.00 0.00 0.00 2.97
67 68 2.280628 CCGTGGAGTCAGAAAATAGCC 58.719 52.381 0.00 0.00 0.00 3.93
68 69 1.927174 CGTGGAGTCAGAAAATAGCCG 59.073 52.381 0.00 0.00 0.00 5.52
69 70 1.666189 GTGGAGTCAGAAAATAGCCGC 59.334 52.381 0.00 0.00 0.00 6.53
70 71 1.555075 TGGAGTCAGAAAATAGCCGCT 59.445 47.619 0.00 0.00 0.00 5.52
71 72 2.205911 GGAGTCAGAAAATAGCCGCTC 58.794 52.381 0.00 0.00 0.00 5.03
72 73 2.205911 GAGTCAGAAAATAGCCGCTCC 58.794 52.381 0.00 0.00 0.00 4.70
73 74 0.931005 GTCAGAAAATAGCCGCTCCG 59.069 55.000 0.00 0.00 0.00 4.63
74 75 0.810031 TCAGAAAATAGCCGCTCCGC 60.810 55.000 0.00 0.00 0.00 5.54
75 76 1.089481 CAGAAAATAGCCGCTCCGCA 61.089 55.000 0.00 0.00 0.00 5.69
76 77 0.811616 AGAAAATAGCCGCTCCGCAG 60.812 55.000 0.00 0.00 0.00 5.18
77 78 1.078426 AAAATAGCCGCTCCGCAGT 60.078 52.632 0.00 0.00 0.00 4.40
78 79 0.676782 AAAATAGCCGCTCCGCAGTT 60.677 50.000 0.00 0.00 0.00 3.16
79 80 0.676782 AAATAGCCGCTCCGCAGTTT 60.677 50.000 0.00 0.00 0.00 2.66
80 81 0.676782 AATAGCCGCTCCGCAGTTTT 60.677 50.000 0.00 0.00 0.00 2.43
81 82 1.090052 ATAGCCGCTCCGCAGTTTTC 61.090 55.000 0.00 0.00 0.00 2.29
82 83 2.443260 TAGCCGCTCCGCAGTTTTCA 62.443 55.000 0.00 0.00 0.00 2.69
83 84 2.903547 GCCGCTCCGCAGTTTTCAA 61.904 57.895 0.00 0.00 0.00 2.69
84 85 1.082104 CCGCTCCGCAGTTTTCAAC 60.082 57.895 0.00 0.00 0.00 3.18
85 86 1.507141 CCGCTCCGCAGTTTTCAACT 61.507 55.000 0.00 0.00 44.06 3.16
96 97 3.620488 AGTTTTCAACTGCAACTCTGGA 58.380 40.909 0.00 0.00 41.01 3.86
97 98 4.016444 AGTTTTCAACTGCAACTCTGGAA 58.984 39.130 0.00 0.00 41.01 3.53
98 99 4.096984 AGTTTTCAACTGCAACTCTGGAAG 59.903 41.667 0.00 0.00 41.01 3.46
99 100 3.281727 TTCAACTGCAACTCTGGAAGT 57.718 42.857 0.00 0.00 41.10 3.01
100 101 2.564771 TCAACTGCAACTCTGGAAGTG 58.435 47.619 0.00 0.00 38.58 3.16
101 102 1.605710 CAACTGCAACTCTGGAAGTGG 59.394 52.381 0.00 0.00 38.58 4.00
102 103 1.131638 ACTGCAACTCTGGAAGTGGA 58.868 50.000 0.00 0.00 38.58 4.02
103 104 1.071385 ACTGCAACTCTGGAAGTGGAG 59.929 52.381 0.00 0.00 38.58 3.86
104 105 1.071385 CTGCAACTCTGGAAGTGGAGT 59.929 52.381 0.00 0.00 43.60 3.85
108 109 2.918712 ACTCTGGAAGTGGAGTTGTG 57.081 50.000 0.00 0.00 39.44 3.33
109 110 1.417890 ACTCTGGAAGTGGAGTTGTGG 59.582 52.381 0.00 0.00 39.44 4.17
110 111 1.694150 CTCTGGAAGTGGAGTTGTGGA 59.306 52.381 0.00 0.00 33.76 4.02
111 112 1.694150 TCTGGAAGTGGAGTTGTGGAG 59.306 52.381 0.00 0.00 33.76 3.86
112 113 1.417890 CTGGAAGTGGAGTTGTGGAGT 59.582 52.381 0.00 0.00 0.00 3.85
113 114 1.140852 TGGAAGTGGAGTTGTGGAGTG 59.859 52.381 0.00 0.00 0.00 3.51
114 115 1.543429 GGAAGTGGAGTTGTGGAGTGG 60.543 57.143 0.00 0.00 0.00 4.00
115 116 1.416401 GAAGTGGAGTTGTGGAGTGGA 59.584 52.381 0.00 0.00 0.00 4.02
116 117 1.051812 AGTGGAGTTGTGGAGTGGAG 58.948 55.000 0.00 0.00 0.00 3.86
117 118 1.048601 GTGGAGTTGTGGAGTGGAGA 58.951 55.000 0.00 0.00 0.00 3.71
118 119 1.625818 GTGGAGTTGTGGAGTGGAGAT 59.374 52.381 0.00 0.00 0.00 2.75
119 120 2.039084 GTGGAGTTGTGGAGTGGAGATT 59.961 50.000 0.00 0.00 0.00 2.40
120 121 2.303022 TGGAGTTGTGGAGTGGAGATTC 59.697 50.000 0.00 0.00 0.00 2.52
121 122 2.569404 GGAGTTGTGGAGTGGAGATTCT 59.431 50.000 0.00 0.00 0.00 2.40
122 123 3.368948 GGAGTTGTGGAGTGGAGATTCTC 60.369 52.174 5.03 5.03 0.00 2.87
132 133 0.179070 GGAGATTCTCCGAACAGGGC 60.179 60.000 16.79 0.00 41.08 5.19
133 134 0.827368 GAGATTCTCCGAACAGGGCT 59.173 55.000 1.97 0.00 41.52 5.19
134 135 1.208293 GAGATTCTCCGAACAGGGCTT 59.792 52.381 1.97 0.00 41.52 4.35
135 136 2.431057 GAGATTCTCCGAACAGGGCTTA 59.569 50.000 1.97 0.00 41.52 3.09
136 137 2.838202 AGATTCTCCGAACAGGGCTTAA 59.162 45.455 0.00 0.00 41.52 1.85
137 138 2.762535 TTCTCCGAACAGGGCTTAAG 57.237 50.000 0.00 0.00 41.52 1.85
138 139 0.902531 TCTCCGAACAGGGCTTAAGG 59.097 55.000 4.29 0.00 41.52 2.69
139 140 0.902531 CTCCGAACAGGGCTTAAGGA 59.097 55.000 4.29 0.00 41.52 3.36
140 141 1.486726 CTCCGAACAGGGCTTAAGGAT 59.513 52.381 4.29 0.00 41.52 3.24
141 142 1.209504 TCCGAACAGGGCTTAAGGATG 59.790 52.381 4.29 0.00 41.52 3.51
142 143 1.017387 CGAACAGGGCTTAAGGATGC 58.983 55.000 4.29 0.00 0.00 3.91
143 144 1.407437 CGAACAGGGCTTAAGGATGCT 60.407 52.381 4.29 0.00 0.00 3.79
144 145 2.158957 CGAACAGGGCTTAAGGATGCTA 60.159 50.000 4.29 0.00 0.00 3.49
145 146 3.681594 CGAACAGGGCTTAAGGATGCTAA 60.682 47.826 4.29 0.00 0.00 3.09
146 147 4.270008 GAACAGGGCTTAAGGATGCTAAA 58.730 43.478 4.29 0.00 0.00 1.85
147 148 4.316025 ACAGGGCTTAAGGATGCTAAAA 57.684 40.909 4.29 0.00 0.00 1.52
148 149 4.871822 ACAGGGCTTAAGGATGCTAAAAT 58.128 39.130 4.29 0.00 0.00 1.82
149 150 4.646492 ACAGGGCTTAAGGATGCTAAAATG 59.354 41.667 4.29 0.00 0.00 2.32
150 151 4.038402 CAGGGCTTAAGGATGCTAAAATGG 59.962 45.833 4.29 0.00 0.00 3.16
151 152 4.079212 AGGGCTTAAGGATGCTAAAATGGA 60.079 41.667 4.29 0.00 0.00 3.41
152 153 4.649218 GGGCTTAAGGATGCTAAAATGGAA 59.351 41.667 4.29 0.00 0.00 3.53
153 154 5.305386 GGGCTTAAGGATGCTAAAATGGAAT 59.695 40.000 4.29 0.00 0.00 3.01
154 155 6.183361 GGGCTTAAGGATGCTAAAATGGAATT 60.183 38.462 4.29 0.00 38.98 2.17
155 156 7.015195 GGGCTTAAGGATGCTAAAATGGAATTA 59.985 37.037 4.29 0.00 33.67 1.40
156 157 8.084684 GGCTTAAGGATGCTAAAATGGAATTAG 58.915 37.037 4.29 0.00 33.67 1.73
157 158 8.850156 GCTTAAGGATGCTAAAATGGAATTAGA 58.150 33.333 4.29 0.00 33.67 2.10
254 258 5.173854 GTGAAGGAAAAGAAATCAGTTTGCG 59.826 40.000 0.00 0.00 0.00 4.85
300 304 0.249405 TTTCCCTTTTTGCTGCTGCG 60.249 50.000 11.21 0.00 43.34 5.18
301 305 2.048877 CCCTTTTTGCTGCTGCGG 60.049 61.111 11.21 3.55 43.34 5.69
302 306 2.730094 CCTTTTTGCTGCTGCGGT 59.270 55.556 10.62 0.00 43.34 5.68
303 307 1.662446 CCTTTTTGCTGCTGCGGTG 60.662 57.895 10.62 0.00 43.34 4.94
304 308 1.066257 CTTTTTGCTGCTGCGGTGT 59.934 52.632 10.62 0.00 43.34 4.16
321 325 3.276091 TGGTGGTGCGTTGCTTCG 61.276 61.111 0.00 0.00 0.00 3.79
342 346 1.743252 GCTTGCTTCCCCGAGACAG 60.743 63.158 0.00 0.00 0.00 3.51
361 365 2.681848 CAGAAACTAATCAGGGCAGCAG 59.318 50.000 0.00 0.00 0.00 4.24
407 411 2.059541 GCTCGTGTGTTTACTCCACTC 58.940 52.381 0.00 0.00 33.92 3.51
634 649 1.901464 CTCCACAAAACCACCCCCG 60.901 63.158 0.00 0.00 0.00 5.73
636 651 2.197605 CCACAAAACCACCCCCGAC 61.198 63.158 0.00 0.00 0.00 4.79
639 654 3.905873 AAAACCACCCCCGACCCC 61.906 66.667 0.00 0.00 0.00 4.95
661 676 0.552848 TCCCTCCCTGCATTCATTCC 59.447 55.000 0.00 0.00 0.00 3.01
680 695 2.634940 TCCCATTCATCTTCGATCTCCC 59.365 50.000 0.00 0.00 0.00 4.30
682 697 2.289945 CCATTCATCTTCGATCTCCCCC 60.290 54.545 0.00 0.00 0.00 5.40
683 698 1.040646 TTCATCTTCGATCTCCCCCG 58.959 55.000 0.00 0.00 0.00 5.73
684 699 0.185175 TCATCTTCGATCTCCCCCGA 59.815 55.000 0.00 0.00 0.00 5.14
758 795 1.437160 CTCGCAGCTTCTCCCTCTC 59.563 63.158 0.00 0.00 0.00 3.20
759 796 1.000270 TCGCAGCTTCTCCCTCTCT 60.000 57.895 0.00 0.00 0.00 3.10
761 798 1.037030 CGCAGCTTCTCCCTCTCTCT 61.037 60.000 0.00 0.00 0.00 3.10
762 799 0.746659 GCAGCTTCTCCCTCTCTCTC 59.253 60.000 0.00 0.00 0.00 3.20
763 800 1.686115 GCAGCTTCTCCCTCTCTCTCT 60.686 57.143 0.00 0.00 0.00 3.10
764 801 2.301346 CAGCTTCTCCCTCTCTCTCTC 58.699 57.143 0.00 0.00 0.00 3.20
765 802 2.092212 CAGCTTCTCCCTCTCTCTCTCT 60.092 54.545 0.00 0.00 0.00 3.10
766 803 2.173569 AGCTTCTCCCTCTCTCTCTCTC 59.826 54.545 0.00 0.00 0.00 3.20
767 804 2.173569 GCTTCTCCCTCTCTCTCTCTCT 59.826 54.545 0.00 0.00 0.00 3.10
768 805 3.745797 GCTTCTCCCTCTCTCTCTCTCTC 60.746 56.522 0.00 0.00 0.00 3.20
769 806 2.039418 TCTCCCTCTCTCTCTCTCTCG 58.961 57.143 0.00 0.00 0.00 4.04
770 807 1.762957 CTCCCTCTCTCTCTCTCTCGT 59.237 57.143 0.00 0.00 0.00 4.18
790 827 2.105128 CCGCTCGAATCCGCTTCT 59.895 61.111 0.00 0.00 35.37 2.85
812 849 0.965363 GGCTCCCGGATTTTCTTGCA 60.965 55.000 0.73 0.00 0.00 4.08
1009 1046 2.677228 CTCCGGCAATGGGGAACT 59.323 61.111 0.00 0.00 0.00 3.01
1475 1512 3.164011 CGACGAGGACGACAACGC 61.164 66.667 0.00 0.00 43.96 4.84
1476 1513 2.804090 GACGAGGACGACAACGCC 60.804 66.667 0.00 0.00 43.96 5.68
1477 1514 4.695231 ACGAGGACGACAACGCCG 62.695 66.667 0.00 0.00 43.96 6.46
1668 1714 5.353678 GGACAAGAAGATCAAGACCATCAAG 59.646 44.000 0.00 0.00 0.00 3.02
1695 1741 2.767445 CCGGGTGTCGAGCGTCATA 61.767 63.158 0.00 0.00 42.43 2.15
1960 2006 1.662608 CGGGTGGAGATGGAGATCG 59.337 63.158 0.00 0.00 33.34 3.69
1983 2029 1.136891 TCAATGATCGACTGCGTGGAT 59.863 47.619 6.05 6.05 38.98 3.41
2161 2207 1.817099 CGGCATCCCAACTGAGAGC 60.817 63.158 0.00 0.00 0.00 4.09
2169 2215 1.407989 CCCAACTGAGAGCCAAGGATC 60.408 57.143 0.00 0.00 0.00 3.36
2181 2227 3.065655 GCCAAGGATCGATGATGAAGAG 58.934 50.000 0.54 0.00 0.00 2.85
2182 2228 3.494048 GCCAAGGATCGATGATGAAGAGT 60.494 47.826 0.54 0.00 0.00 3.24
2183 2229 4.056740 CCAAGGATCGATGATGAAGAGTG 58.943 47.826 0.54 0.00 0.00 3.51
2281 2327 4.142447 GCTCCTTGTAGACACTATGAACGA 60.142 45.833 0.00 0.00 0.00 3.85
2282 2328 5.306532 TCCTTGTAGACACTATGAACGAC 57.693 43.478 0.00 0.00 0.00 4.34
2327 2373 3.002791 TGGCTCATCGATTTGTTCTGTC 58.997 45.455 0.00 0.00 0.00 3.51
2333 2379 4.872124 TCATCGATTTGTTCTGTCTCATGG 59.128 41.667 0.00 0.00 0.00 3.66
2336 2382 2.957402 TTTGTTCTGTCTCATGGCCT 57.043 45.000 3.32 0.00 0.00 5.19
2342 2388 3.795688 TCTGTCTCATGGCCTCTTTTT 57.204 42.857 3.32 0.00 0.00 1.94
2343 2389 3.415212 TCTGTCTCATGGCCTCTTTTTG 58.585 45.455 3.32 0.00 0.00 2.44
2352 2398 2.298729 TGGCCTCTTTTTGCACAATACC 59.701 45.455 3.32 0.00 0.00 2.73
2361 2407 5.950758 TTTTGCACAATACCGTACAAGAT 57.049 34.783 0.00 0.00 0.00 2.40
2362 2408 5.950758 TTTGCACAATACCGTACAAGATT 57.049 34.783 0.00 0.00 0.00 2.40
2391 2437 6.487103 GGTGAATGAAATTTCTCCGTATGTC 58.513 40.000 18.64 5.68 36.07 3.06
2410 2456 3.745975 TGTCAAGTTGCGGTGAATTCTAG 59.254 43.478 7.05 0.00 0.00 2.43
2442 2488 9.929180 TGATATAATACATAACTCTTGTGCTCC 57.071 33.333 0.00 0.00 0.00 4.70
2443 2489 8.988064 ATATAATACATAACTCTTGTGCTCCG 57.012 34.615 0.00 0.00 0.00 4.63
2444 2490 4.737855 ATACATAACTCTTGTGCTCCGT 57.262 40.909 0.00 0.00 0.00 4.69
2473 2519 5.836024 AAGTAGTAATTCCAGTGGGTGAA 57.164 39.130 9.92 0.00 34.93 3.18
2476 2522 2.081462 GTAATTCCAGTGGGTGAACCG 58.919 52.381 9.92 0.00 44.64 4.44
2479 2525 1.628238 TTCCAGTGGGTGAACCGTGT 61.628 55.000 9.92 0.00 44.64 4.49
2490 2536 4.557205 GGTGAACCGTGTCTATATGATCC 58.443 47.826 0.00 0.00 0.00 3.36
2491 2537 4.038763 GGTGAACCGTGTCTATATGATCCA 59.961 45.833 0.00 0.00 0.00 3.41
2492 2538 5.223382 GTGAACCGTGTCTATATGATCCAG 58.777 45.833 0.00 0.00 0.00 3.86
2493 2539 5.009710 GTGAACCGTGTCTATATGATCCAGA 59.990 44.000 0.00 0.00 0.00 3.86
2494 2540 5.009710 TGAACCGTGTCTATATGATCCAGAC 59.990 44.000 6.83 6.83 39.32 3.51
2495 2541 3.827302 ACCGTGTCTATATGATCCAGACC 59.173 47.826 9.87 3.58 38.32 3.85
2496 2542 3.826729 CCGTGTCTATATGATCCAGACCA 59.173 47.826 9.87 0.00 38.32 4.02
2497 2543 4.280929 CCGTGTCTATATGATCCAGACCAA 59.719 45.833 9.87 0.00 38.32 3.67
2498 2544 5.465051 CGTGTCTATATGATCCAGACCAAG 58.535 45.833 9.87 1.46 38.32 3.61
2499 2545 5.010112 CGTGTCTATATGATCCAGACCAAGT 59.990 44.000 9.87 0.00 38.32 3.16
2500 2546 6.451393 GTGTCTATATGATCCAGACCAAGTC 58.549 44.000 9.87 0.00 38.32 3.01
2501 2547 6.040955 GTGTCTATATGATCCAGACCAAGTCA 59.959 42.308 9.87 0.00 38.32 3.41
2502 2548 6.266330 TGTCTATATGATCCAGACCAAGTCAG 59.734 42.308 9.87 0.00 38.32 3.51
2503 2549 4.970860 ATATGATCCAGACCAAGTCAGG 57.029 45.455 0.00 0.00 40.00 3.86
2504 2550 2.030027 TGATCCAGACCAAGTCAGGT 57.970 50.000 6.13 0.00 46.82 4.00
2576 2643 2.851195 TCAGAGGTCCAAGTTTTCTGC 58.149 47.619 0.00 0.00 36.19 4.26
2619 2687 5.106118 GGGAAAAGGTCATTGTCTAAGCTTC 60.106 44.000 0.00 0.00 30.88 3.86
2622 2690 4.851639 AGGTCATTGTCTAAGCTTCCAT 57.148 40.909 0.00 0.00 0.00 3.41
2845 2913 7.066645 CAGATAATCATTGTTGTGTGATCACCT 59.933 37.037 22.85 4.03 43.26 4.00
2847 2915 3.411446 TCATTGTTGTGTGATCACCTCC 58.589 45.455 22.85 11.25 43.26 4.30
2848 2916 3.148412 CATTGTTGTGTGATCACCTCCA 58.852 45.455 22.85 13.64 43.26 3.86
2870 2940 8.642935 TCCACATGTACTTTTTGGATATTTGA 57.357 30.769 0.00 0.00 31.19 2.69
2914 2986 6.142320 GCGCTTATATAACATTTTGGAGCAAC 59.858 38.462 0.00 0.00 0.00 4.17
2941 3013 8.867097 TGTACCCTCCTAAGTATGTCAAATATC 58.133 37.037 0.00 0.00 0.00 1.63
2944 3016 9.004231 ACCCTCCTAAGTATGTCAAATATCTTT 57.996 33.333 0.00 0.00 0.00 2.52
2945 3017 9.495572 CCCTCCTAAGTATGTCAAATATCTTTC 57.504 37.037 0.00 0.00 0.00 2.62
3038 3142 4.560128 TCGCACAAGGAATATCTGCTATC 58.440 43.478 0.00 0.00 0.00 2.08
3046 3150 6.151335 AGGAATATCTGCTATCTCCTCTCA 57.849 41.667 0.00 0.00 28.96 3.27
3052 3156 5.787953 TCTGCTATCTCCTCTCAAATCTG 57.212 43.478 0.00 0.00 0.00 2.90
3088 3192 6.885918 TCTGGATTCTATGTTCTTGCATTTGA 59.114 34.615 0.00 0.00 0.00 2.69
3098 3205 5.749588 TGTTCTTGCATTTGAATGTGAACTG 59.250 36.000 22.88 7.37 40.05 3.16
3105 3212 6.867816 TGCATTTGAATGTGAACTGGTATTTC 59.132 34.615 5.68 0.00 38.65 2.17
3129 3236 7.304735 TCTCAATGTATCACATTTTGTTTCCG 58.695 34.615 1.83 0.00 45.80 4.30
3136 3243 8.951243 TGTATCACATTTTGTTTCCGAATATCA 58.049 29.630 0.00 0.00 0.00 2.15
3137 3244 9.781834 GTATCACATTTTGTTTCCGAATATCAA 57.218 29.630 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.898861 TGAAATTCCAAACAGGCCTTTACT 59.101 37.500 0.00 0.00 37.29 2.24
1 2 4.988540 GTGAAATTCCAAACAGGCCTTTAC 59.011 41.667 0.00 0.00 37.29 2.01
2 3 4.039852 GGTGAAATTCCAAACAGGCCTTTA 59.960 41.667 0.00 0.00 37.29 1.85
3 4 3.181455 GGTGAAATTCCAAACAGGCCTTT 60.181 43.478 0.00 0.00 37.29 3.11
4 5 2.368548 GGTGAAATTCCAAACAGGCCTT 59.631 45.455 0.00 0.00 37.29 4.35
5 6 1.970640 GGTGAAATTCCAAACAGGCCT 59.029 47.619 0.00 0.00 37.29 5.19
6 7 1.691434 TGGTGAAATTCCAAACAGGCC 59.309 47.619 0.00 0.00 37.29 5.19
7 8 2.289010 CCTGGTGAAATTCCAAACAGGC 60.289 50.000 4.72 0.00 36.96 4.85
8 9 2.965147 ACCTGGTGAAATTCCAAACAGG 59.035 45.455 13.85 13.85 43.44 4.00
9 10 4.099266 TGAACCTGGTGAAATTCCAAACAG 59.901 41.667 0.00 0.00 34.35 3.16
10 11 4.026744 TGAACCTGGTGAAATTCCAAACA 58.973 39.130 0.00 0.00 34.35 2.83
11 12 4.368315 GTGAACCTGGTGAAATTCCAAAC 58.632 43.478 0.00 0.00 34.35 2.93
12 13 3.067461 CGTGAACCTGGTGAAATTCCAAA 59.933 43.478 0.00 0.00 34.35 3.28
13 14 2.621055 CGTGAACCTGGTGAAATTCCAA 59.379 45.455 0.00 0.00 34.35 3.53
14 15 2.158740 TCGTGAACCTGGTGAAATTCCA 60.159 45.455 0.00 0.00 0.00 3.53
15 16 2.500229 TCGTGAACCTGGTGAAATTCC 58.500 47.619 0.00 0.00 0.00 3.01
16 17 4.561735 TTTCGTGAACCTGGTGAAATTC 57.438 40.909 0.00 0.00 0.00 2.17
17 18 5.288804 CAATTTCGTGAACCTGGTGAAATT 58.711 37.500 20.97 20.97 45.22 1.82
18 19 4.795962 GCAATTTCGTGAACCTGGTGAAAT 60.796 41.667 13.96 13.96 40.05 2.17
19 20 3.490078 GCAATTTCGTGAACCTGGTGAAA 60.490 43.478 11.14 11.14 33.56 2.69
20 21 2.034053 GCAATTTCGTGAACCTGGTGAA 59.966 45.455 0.00 0.00 0.00 3.18
21 22 1.606668 GCAATTTCGTGAACCTGGTGA 59.393 47.619 0.00 0.00 0.00 4.02
22 23 1.336440 TGCAATTTCGTGAACCTGGTG 59.664 47.619 0.00 0.00 0.00 4.17
23 24 1.686355 TGCAATTTCGTGAACCTGGT 58.314 45.000 0.00 0.00 0.00 4.00
24 25 2.293122 TCTTGCAATTTCGTGAACCTGG 59.707 45.455 0.00 0.00 0.00 4.45
25 26 3.558505 CTCTTGCAATTTCGTGAACCTG 58.441 45.455 0.00 0.00 0.00 4.00
26 27 2.030805 GCTCTTGCAATTTCGTGAACCT 60.031 45.455 0.00 0.00 39.41 3.50
27 28 2.319472 GCTCTTGCAATTTCGTGAACC 58.681 47.619 0.00 0.00 39.41 3.62
28 29 2.319472 GGCTCTTGCAATTTCGTGAAC 58.681 47.619 0.00 0.00 41.91 3.18
29 30 1.069296 CGGCTCTTGCAATTTCGTGAA 60.069 47.619 0.00 0.00 41.91 3.18
30 31 0.516877 CGGCTCTTGCAATTTCGTGA 59.483 50.000 0.00 0.00 41.91 4.35
31 32 0.238289 ACGGCTCTTGCAATTTCGTG 59.762 50.000 0.00 0.00 41.91 4.35
32 33 0.238289 CACGGCTCTTGCAATTTCGT 59.762 50.000 0.00 5.54 41.91 3.85
33 34 0.454957 CCACGGCTCTTGCAATTTCG 60.455 55.000 0.00 4.88 41.91 3.46
34 35 0.881118 TCCACGGCTCTTGCAATTTC 59.119 50.000 0.00 0.00 41.91 2.17
35 36 0.883833 CTCCACGGCTCTTGCAATTT 59.116 50.000 0.00 0.00 41.91 1.82
36 37 0.250901 ACTCCACGGCTCTTGCAATT 60.251 50.000 0.00 0.00 41.91 2.32
37 38 0.674895 GACTCCACGGCTCTTGCAAT 60.675 55.000 0.00 0.00 41.91 3.56
38 39 1.301716 GACTCCACGGCTCTTGCAA 60.302 57.895 0.00 0.00 41.91 4.08
39 40 2.343758 GACTCCACGGCTCTTGCA 59.656 61.111 0.00 0.00 41.91 4.08
40 41 1.739562 CTGACTCCACGGCTCTTGC 60.740 63.158 0.00 0.00 38.76 4.01
41 42 0.318441 TTCTGACTCCACGGCTCTTG 59.682 55.000 0.00 0.00 0.00 3.02
42 43 1.048601 TTTCTGACTCCACGGCTCTT 58.951 50.000 0.00 0.00 0.00 2.85
43 44 1.048601 TTTTCTGACTCCACGGCTCT 58.951 50.000 0.00 0.00 0.00 4.09
44 45 2.100605 ATTTTCTGACTCCACGGCTC 57.899 50.000 0.00 0.00 0.00 4.70
45 46 2.678190 GCTATTTTCTGACTCCACGGCT 60.678 50.000 0.00 0.00 0.00 5.52
46 47 1.666189 GCTATTTTCTGACTCCACGGC 59.334 52.381 0.00 0.00 0.00 5.68
47 48 2.280628 GGCTATTTTCTGACTCCACGG 58.719 52.381 0.00 0.00 0.00 4.94
48 49 1.927174 CGGCTATTTTCTGACTCCACG 59.073 52.381 0.00 0.00 0.00 4.94
49 50 1.666189 GCGGCTATTTTCTGACTCCAC 59.334 52.381 0.00 0.00 0.00 4.02
50 51 1.555075 AGCGGCTATTTTCTGACTCCA 59.445 47.619 0.00 0.00 0.00 3.86
51 52 2.205911 GAGCGGCTATTTTCTGACTCC 58.794 52.381 0.60 0.00 0.00 3.85
52 53 2.205911 GGAGCGGCTATTTTCTGACTC 58.794 52.381 0.60 0.00 0.00 3.36
53 54 1.471676 CGGAGCGGCTATTTTCTGACT 60.472 52.381 0.60 0.00 0.00 3.41
54 55 0.931005 CGGAGCGGCTATTTTCTGAC 59.069 55.000 0.60 0.00 0.00 3.51
55 56 3.362581 CGGAGCGGCTATTTTCTGA 57.637 52.632 0.60 0.00 0.00 3.27
76 77 4.142381 ACTTCCAGAGTTGCAGTTGAAAAC 60.142 41.667 0.00 0.00 41.13 2.43
77 78 4.016444 ACTTCCAGAGTTGCAGTTGAAAA 58.984 39.130 0.00 0.00 33.92 2.29
78 79 3.378112 CACTTCCAGAGTTGCAGTTGAAA 59.622 43.478 0.00 0.00 36.10 2.69
79 80 2.945008 CACTTCCAGAGTTGCAGTTGAA 59.055 45.455 0.00 0.00 36.10 2.69
80 81 2.564771 CACTTCCAGAGTTGCAGTTGA 58.435 47.619 0.00 0.00 36.10 3.18
81 82 1.605710 CCACTTCCAGAGTTGCAGTTG 59.394 52.381 0.00 0.00 36.10 3.16
82 83 1.490490 TCCACTTCCAGAGTTGCAGTT 59.510 47.619 0.00 0.00 36.10 3.16
83 84 1.071385 CTCCACTTCCAGAGTTGCAGT 59.929 52.381 0.00 0.00 36.10 4.40
84 85 1.071385 ACTCCACTTCCAGAGTTGCAG 59.929 52.381 0.00 0.00 40.43 4.41
85 86 1.131638 ACTCCACTTCCAGAGTTGCA 58.868 50.000 0.00 0.00 40.43 4.08
89 90 1.417890 CCACAACTCCACTTCCAGAGT 59.582 52.381 0.00 0.00 45.18 3.24
90 91 1.694150 TCCACAACTCCACTTCCAGAG 59.306 52.381 0.00 0.00 36.16 3.35
91 92 1.694150 CTCCACAACTCCACTTCCAGA 59.306 52.381 0.00 0.00 0.00 3.86
92 93 1.417890 ACTCCACAACTCCACTTCCAG 59.582 52.381 0.00 0.00 0.00 3.86
93 94 1.140852 CACTCCACAACTCCACTTCCA 59.859 52.381 0.00 0.00 0.00 3.53
94 95 1.543429 CCACTCCACAACTCCACTTCC 60.543 57.143 0.00 0.00 0.00 3.46
95 96 1.416401 TCCACTCCACAACTCCACTTC 59.584 52.381 0.00 0.00 0.00 3.01
96 97 1.417890 CTCCACTCCACAACTCCACTT 59.582 52.381 0.00 0.00 0.00 3.16
97 98 1.051812 CTCCACTCCACAACTCCACT 58.948 55.000 0.00 0.00 0.00 4.00
98 99 1.048601 TCTCCACTCCACAACTCCAC 58.951 55.000 0.00 0.00 0.00 4.02
99 100 2.030027 ATCTCCACTCCACAACTCCA 57.970 50.000 0.00 0.00 0.00 3.86
100 101 2.569404 AGAATCTCCACTCCACAACTCC 59.431 50.000 0.00 0.00 0.00 3.85
101 102 3.855858 GAGAATCTCCACTCCACAACTC 58.144 50.000 0.00 0.00 0.00 3.01
102 103 3.971245 GAGAATCTCCACTCCACAACT 57.029 47.619 0.00 0.00 0.00 3.16
113 114 0.179070 GCCCTGTTCGGAGAATCTCC 60.179 60.000 19.08 19.08 46.44 3.71
114 115 0.827368 AGCCCTGTTCGGAGAATCTC 59.173 55.000 0.71 0.71 45.90 2.75
115 116 1.280457 AAGCCCTGTTCGGAGAATCT 58.720 50.000 0.00 0.00 45.90 2.40
116 117 2.981859 TAAGCCCTGTTCGGAGAATC 57.018 50.000 0.00 0.00 45.90 2.52
117 118 2.092914 CCTTAAGCCCTGTTCGGAGAAT 60.093 50.000 0.00 0.00 45.90 2.40
118 119 1.278127 CCTTAAGCCCTGTTCGGAGAA 59.722 52.381 0.00 0.00 45.90 2.87
119 120 0.902531 CCTTAAGCCCTGTTCGGAGA 59.097 55.000 0.00 0.00 33.16 3.71
120 121 0.902531 TCCTTAAGCCCTGTTCGGAG 59.097 55.000 0.00 0.00 33.16 4.63
121 122 1.209504 CATCCTTAAGCCCTGTTCGGA 59.790 52.381 0.00 0.00 33.16 4.55
122 123 1.668419 CATCCTTAAGCCCTGTTCGG 58.332 55.000 0.00 0.00 0.00 4.30
123 124 1.017387 GCATCCTTAAGCCCTGTTCG 58.983 55.000 0.00 0.00 0.00 3.95
124 125 2.426842 AGCATCCTTAAGCCCTGTTC 57.573 50.000 0.00 0.00 0.00 3.18
125 126 4.316025 TTTAGCATCCTTAAGCCCTGTT 57.684 40.909 0.00 0.00 0.00 3.16
126 127 4.316025 TTTTAGCATCCTTAAGCCCTGT 57.684 40.909 0.00 0.00 0.00 4.00
127 128 4.038402 CCATTTTAGCATCCTTAAGCCCTG 59.962 45.833 0.00 0.00 0.00 4.45
128 129 4.079212 TCCATTTTAGCATCCTTAAGCCCT 60.079 41.667 0.00 0.00 0.00 5.19
129 130 4.215109 TCCATTTTAGCATCCTTAAGCCC 58.785 43.478 0.00 0.00 0.00 5.19
130 131 5.852282 TTCCATTTTAGCATCCTTAAGCC 57.148 39.130 0.00 0.00 0.00 4.35
131 132 8.850156 TCTAATTCCATTTTAGCATCCTTAAGC 58.150 33.333 0.00 0.00 0.00 3.09
199 200 3.314635 CCACTTTCTGGCTGCATTATCTC 59.685 47.826 0.50 0.00 31.36 2.75
254 258 4.437390 CCAAAGTGCCACATCGAGTAATTC 60.437 45.833 0.00 0.00 0.00 2.17
300 304 4.264638 GCAACGCACCACCACACC 62.265 66.667 0.00 0.00 0.00 4.16
301 305 2.662091 GAAGCAACGCACCACCACAC 62.662 60.000 0.00 0.00 0.00 3.82
302 306 2.439338 AAGCAACGCACCACCACA 60.439 55.556 0.00 0.00 0.00 4.17
303 307 2.331451 GAAGCAACGCACCACCAC 59.669 61.111 0.00 0.00 0.00 4.16
304 308 3.276091 CGAAGCAACGCACCACCA 61.276 61.111 0.00 0.00 0.00 4.17
321 325 1.302511 TCTCGGGGAAGCAAGCAAC 60.303 57.895 0.00 0.00 0.00 4.17
342 346 1.403323 GCTGCTGCCCTGATTAGTTTC 59.597 52.381 3.85 0.00 0.00 2.78
361 365 4.988486 GTGCGTGTTGCTGCTGGC 62.988 66.667 0.00 0.00 46.63 4.85
407 411 2.012237 CAATCGCAGCAGCAGTAGG 58.988 57.895 0.82 0.00 42.27 3.18
523 538 2.281345 GAGATGGATGGGCAGGCG 60.281 66.667 0.00 0.00 0.00 5.52
560 575 4.426112 GACGAACGGACGGGGGAC 62.426 72.222 8.20 0.00 37.61 4.46
561 576 4.972733 TGACGAACGGACGGGGGA 62.973 66.667 8.20 0.00 37.61 4.81
639 654 1.358830 ATGAATGCAGGGAGGGAGGG 61.359 60.000 0.00 0.00 0.00 4.30
640 655 0.554792 AATGAATGCAGGGAGGGAGG 59.445 55.000 0.00 0.00 0.00 4.30
641 656 1.478288 GGAATGAATGCAGGGAGGGAG 60.478 57.143 0.00 0.00 0.00 4.30
642 657 0.552848 GGAATGAATGCAGGGAGGGA 59.447 55.000 0.00 0.00 0.00 4.20
661 676 2.289945 GGGGGAGATCGAAGATGAATGG 60.290 54.545 0.00 0.00 45.12 3.16
683 698 1.715993 GGTCAAGAAAGCGAGGTCTC 58.284 55.000 0.00 0.00 0.00 3.36
684 699 0.038159 CGGTCAAGAAAGCGAGGTCT 60.038 55.000 0.00 0.00 42.48 3.85
727 764 3.338676 GCGAGCTTTATCGGCGGG 61.339 66.667 7.21 0.00 42.94 6.13
812 849 0.622665 CAGGAGCCCACAGAATCCTT 59.377 55.000 0.00 0.00 40.23 3.36
1422 1459 3.363844 GACGTGGAGGAGGAGCTGC 62.364 68.421 0.00 0.00 0.00 5.25
1788 1834 0.757561 TGGACCCTATCGGAATCGCA 60.758 55.000 0.00 0.00 36.13 5.10
1960 2006 0.807667 ACGCAGTCGATCATTGAGCC 60.808 55.000 0.00 0.00 29.74 4.70
2161 2207 4.056740 CACTCTTCATCATCGATCCTTGG 58.943 47.826 0.00 0.00 0.00 3.61
2169 2215 4.748892 ACCTTACACACTCTTCATCATCG 58.251 43.478 0.00 0.00 0.00 3.84
2181 2227 9.998106 AACTTATCATATCCATACCTTACACAC 57.002 33.333 0.00 0.00 0.00 3.82
2218 2264 4.232221 CAACCACAACATGATCAAAGAGC 58.768 43.478 0.00 0.00 0.00 4.09
2314 2360 2.096496 GGCCATGAGACAGAACAAATCG 59.904 50.000 0.00 0.00 0.00 3.34
2327 2373 1.614903 TGTGCAAAAAGAGGCCATGAG 59.385 47.619 5.01 0.00 0.00 2.90
2333 2379 2.030274 ACGGTATTGTGCAAAAAGAGGC 60.030 45.455 0.00 0.00 0.00 4.70
2336 2382 5.527951 TCTTGTACGGTATTGTGCAAAAAGA 59.472 36.000 0.00 0.00 42.53 2.52
2342 2388 5.694816 CAAAATCTTGTACGGTATTGTGCA 58.305 37.500 0.00 0.00 32.43 4.57
2343 2389 4.557301 GCAAAATCTTGTACGGTATTGTGC 59.443 41.667 11.16 11.16 35.91 4.57
2352 2398 3.529634 TTCACCGCAAAATCTTGTACG 57.470 42.857 0.00 0.00 34.79 3.67
2361 2407 4.987912 GGAGAAATTTCATTCACCGCAAAA 59.012 37.500 19.99 0.00 31.81 2.44
2362 2408 4.555262 GGAGAAATTTCATTCACCGCAAA 58.445 39.130 19.99 0.00 31.81 3.68
2391 2437 4.393062 ACATCTAGAATTCACCGCAACTTG 59.607 41.667 8.44 0.00 0.00 3.16
2438 2484 7.707893 TGGAATTACTACTTACAAATACGGAGC 59.292 37.037 0.00 0.00 0.00 4.70
2439 2485 9.245962 CTGGAATTACTACTTACAAATACGGAG 57.754 37.037 0.00 0.00 0.00 4.63
2440 2486 8.752187 ACTGGAATTACTACTTACAAATACGGA 58.248 33.333 0.00 0.00 0.00 4.69
2441 2487 8.814235 CACTGGAATTACTACTTACAAATACGG 58.186 37.037 0.00 0.00 0.00 4.02
2442 2488 8.814235 CCACTGGAATTACTACTTACAAATACG 58.186 37.037 0.00 0.00 0.00 3.06
2443 2489 9.106070 CCCACTGGAATTACTACTTACAAATAC 57.894 37.037 0.00 0.00 0.00 1.89
2444 2490 8.828751 ACCCACTGGAATTACTACTTACAAATA 58.171 33.333 0.00 0.00 34.81 1.40
2473 2519 3.827302 GGTCTGGATCATATAGACACGGT 59.173 47.826 15.74 0.00 41.93 4.83
2476 2522 6.040955 TGACTTGGTCTGGATCATATAGACAC 59.959 42.308 15.74 9.01 41.93 3.67
2479 2525 6.907853 CTGACTTGGTCTGGATCATATAGA 57.092 41.667 0.00 0.00 33.15 1.98
2619 2687 4.688021 GTCTAGAAGACTAGCAACCATGG 58.312 47.826 11.19 11.19 43.97 3.66
2622 2690 3.190744 CACGTCTAGAAGACTAGCAACCA 59.809 47.826 12.91 0.00 42.92 3.67
2835 2903 3.173151 AGTACATGTGGAGGTGATCACA 58.827 45.455 26.47 6.65 46.15 3.58
2845 2913 8.642935 TCAAATATCCAAAAAGTACATGTGGA 57.357 30.769 9.11 11.73 42.38 4.02
2891 2961 8.190784 ACAGTTGCTCCAAAATGTTATATAAGC 58.809 33.333 0.00 0.00 0.00 3.09
2894 2964 9.116067 GGTACAGTTGCTCCAAAATGTTATATA 57.884 33.333 0.00 0.00 31.26 0.86
2901 2971 3.157087 AGGGTACAGTTGCTCCAAAATG 58.843 45.455 0.00 0.00 0.00 2.32
2902 2972 3.421844 GAGGGTACAGTTGCTCCAAAAT 58.578 45.455 0.00 0.00 0.00 1.82
2914 2986 6.540438 TTTGACATACTTAGGAGGGTACAG 57.460 41.667 0.00 0.00 0.00 2.74
3038 3142 4.222588 AGTGAAGTCCAGATTTGAGAGGAG 59.777 45.833 0.00 0.00 0.00 3.69
3046 3150 6.821616 ATCCAGATAGTGAAGTCCAGATTT 57.178 37.500 0.00 0.00 0.00 2.17
3052 3156 7.296628 ACATAGAATCCAGATAGTGAAGTCC 57.703 40.000 0.00 0.00 0.00 3.85
3088 3192 7.765695 ACATTGAGAAATACCAGTTCACATT 57.234 32.000 0.00 0.00 0.00 2.71


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

AutoCloner maintained by Alex Coulton.