Multiple sequence alignment - TraesCS5B01G063800

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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 TraesCS5B01G063800 chr5B 100.000 3245 0 0 1 3245 71629068 71632312 0.000000e+00 5993.0
1 TraesCS5B01G063800 chr5B 98.478 2431 32 2 816 3245 92216011 92213585 0.000000e+00 4279.0
2 TraesCS5B01G063800 chr5B 92.613 2315 166 4 933 3245 635394482 635392171 0.000000e+00 3323.0
3 TraesCS5B01G063800 chr5B 95.276 127 5 1 159 285 71629100 71629225 1.970000e-47 200.0
4 TraesCS5B01G063800 chr5B 95.276 127 5 1 33 158 71629226 71629352 1.970000e-47 200.0
5 TraesCS5B01G063800 chr5B 100.000 35 0 0 22 56 484636905 484636871 7.510000e-07 65.8
6 TraesCS5B01G063800 chr2B 98.478 2431 36 1 816 3245 449938297 449940727 0.000000e+00 4283.0
7 TraesCS5B01G063800 chr2B 88.615 527 48 10 271 793 388118185 388118703 5.910000e-177 630.0
8 TraesCS5B01G063800 chr2B 97.436 39 1 0 21 59 73307013 73307051 2.090000e-07 67.6
9 TraesCS5B01G063800 chr2B 97.436 39 1 0 21 59 160892228 160892266 2.090000e-07 67.6
10 TraesCS5B01G063800 chr2A 98.438 2433 35 3 815 3245 553475734 553473303 0.000000e+00 4279.0
11 TraesCS5B01G063800 chr5A 97.450 2431 36 8 816 3245 69838223 69835818 0.000000e+00 4122.0
12 TraesCS5B01G063800 chr1B 92.516 2432 178 4 817 3245 514429778 514432208 0.000000e+00 3480.0
13 TraesCS5B01G063800 chr1B 87.470 423 40 9 380 796 633024390 633024805 2.930000e-130 475.0
14 TraesCS5B01G063800 chr1B 84.746 236 18 9 159 383 633023887 633024115 1.520000e-53 220.0
15 TraesCS5B01G063800 chr1B 83.582 134 10 6 21 142 633023875 633024008 7.360000e-22 115.0
16 TraesCS5B01G063800 chr7B 89.020 2450 257 9 805 3245 37584426 37586872 0.000000e+00 3024.0
17 TraesCS5B01G063800 chr7B 88.644 2448 271 5 805 3245 67337618 67340065 0.000000e+00 2974.0
18 TraesCS5B01G063800 chr7B 86.321 424 37 12 293 714 619362086 619361682 2.970000e-120 442.0
19 TraesCS5B01G063800 chr7B 93.684 190 9 2 608 796 513971105 513970918 6.850000e-72 281.0
20 TraesCS5B01G063800 chr7B 86.154 195 14 8 184 372 514054512 514054325 7.100000e-47 198.0
21 TraesCS5B01G063800 chr7B 84.559 136 7 5 21 142 514054558 514054423 4.400000e-24 122.0
22 TraesCS5B01G063800 chr7B 97.222 36 1 0 21 56 16839282 16839247 9.720000e-06 62.1
23 TraesCS5B01G063800 chr1D 88.988 2352 252 5 898 3243 450025054 450022704 0.000000e+00 2902.0
24 TraesCS5B01G063800 chr1D 90.317 630 45 8 178 796 434078358 434078982 0.000000e+00 811.0
25 TraesCS5B01G063800 chr1D 86.207 116 5 6 52 158 434078359 434078472 7.360000e-22 115.0
26 TraesCS5B01G063800 chr6B 84.862 654 71 17 159 794 671649614 671650257 4.570000e-178 634.0
27 TraesCS5B01G063800 chr6B 82.609 138 8 6 21 142 671649602 671649739 1.230000e-19 108.0
28 TraesCS5B01G063800 chr7D 95.466 397 15 3 312 706 59908965 59909360 5.910000e-177 630.0
29 TraesCS5B01G063800 chr3D 86.505 289 32 4 508 795 573626099 573625817 8.740000e-81 311.0
30 TraesCS5B01G063800 chr1A 92.647 204 11 4 380 581 551939698 551939899 1.140000e-74 291.0
31 TraesCS5B01G063800 chr1A 97.222 36 1 0 21 56 531662406 531662371 9.720000e-06 62.1
32 TraesCS5B01G063800 chrUn 97.143 35 1 0 21 55 96275826 96275792 3.500000e-05 60.2


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 TraesCS5B01G063800 chr5B 71629068 71632312 3244 False 2131 5993 96.850667 1 3245 3 chr5B.!!$F1 3244
1 TraesCS5B01G063800 chr5B 92213585 92216011 2426 True 4279 4279 98.478000 816 3245 1 chr5B.!!$R1 2429
2 TraesCS5B01G063800 chr5B 635392171 635394482 2311 True 3323 3323 92.613000 933 3245 1 chr5B.!!$R3 2312
3 TraesCS5B01G063800 chr2B 449938297 449940727 2430 False 4283 4283 98.478000 816 3245 1 chr2B.!!$F4 2429
4 TraesCS5B01G063800 chr2B 388118185 388118703 518 False 630 630 88.615000 271 793 1 chr2B.!!$F3 522
5 TraesCS5B01G063800 chr2A 553473303 553475734 2431 True 4279 4279 98.438000 815 3245 1 chr2A.!!$R1 2430
6 TraesCS5B01G063800 chr5A 69835818 69838223 2405 True 4122 4122 97.450000 816 3245 1 chr5A.!!$R1 2429
7 TraesCS5B01G063800 chr1B 514429778 514432208 2430 False 3480 3480 92.516000 817 3245 1 chr1B.!!$F1 2428
8 TraesCS5B01G063800 chr1B 633023875 633024805 930 False 270 475 85.266000 21 796 3 chr1B.!!$F2 775
9 TraesCS5B01G063800 chr7B 37584426 37586872 2446 False 3024 3024 89.020000 805 3245 1 chr7B.!!$F1 2440
10 TraesCS5B01G063800 chr7B 67337618 67340065 2447 False 2974 2974 88.644000 805 3245 1 chr7B.!!$F2 2440
11 TraesCS5B01G063800 chr1D 450022704 450025054 2350 True 2902 2902 88.988000 898 3243 1 chr1D.!!$R1 2345
12 TraesCS5B01G063800 chr1D 434078358 434078982 624 False 463 811 88.262000 52 796 2 chr1D.!!$F1 744
13 TraesCS5B01G063800 chr6B 671649602 671650257 655 False 371 634 83.735500 21 794 2 chr6B.!!$F1 773

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
165 166 0.035458 AGACTGTGGCCGAAGAAAGG 59.965 55.0 11.27 0.0 0.00 3.11 F
800 1094 0.107116 AGGTAACACCAACGTGGCAA 60.107 50.0 0.00 0.0 44.86 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1989 2285 0.178975 TCCCAACATCAACGCCCTTT 60.179 50.0 0.00 0.00 0.00 3.11 R
2541 2863 0.246360 CCGTACATCACTGTGAGCCA 59.754 55.0 16.46 0.54 36.79 4.75 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
55 56 5.600669 AGAAAGGGTAGGATGGTCTTTTT 57.399 39.130 0.00 0.00 0.00 1.94
92 93 3.634568 TTTTAAATGCGTCCACCAGTG 57.365 42.857 0.00 0.00 0.00 3.66
93 94 2.264005 TTAAATGCGTCCACCAGTGT 57.736 45.000 0.00 0.00 0.00 3.55
94 95 3.404224 TTAAATGCGTCCACCAGTGTA 57.596 42.857 0.00 0.00 0.00 2.90
95 96 2.489938 AAATGCGTCCACCAGTGTAT 57.510 45.000 0.00 0.00 0.00 2.29
96 97 3.620427 AAATGCGTCCACCAGTGTATA 57.380 42.857 0.00 0.00 0.00 1.47
97 98 2.596904 ATGCGTCCACCAGTGTATAC 57.403 50.000 0.00 0.00 0.00 1.47
98 99 0.171679 TGCGTCCACCAGTGTATACG 59.828 55.000 11.11 11.11 34.57 3.06
99 100 1.143969 GCGTCCACCAGTGTATACGC 61.144 60.000 19.57 19.57 42.96 4.42
100 101 0.454600 CGTCCACCAGTGTATACGCT 59.545 55.000 13.24 13.24 37.13 5.07
114 115 2.104331 CGCTGTACGCCTACTGGG 59.896 66.667 4.51 3.41 38.36 4.45
130 131 2.516225 GGCCGGCCCATTAGTGAC 60.516 66.667 36.64 5.01 0.00 3.67
131 132 2.516225 GCCGGCCCATTAGTGACC 60.516 66.667 18.11 0.00 0.00 4.02
132 133 2.203015 CCGGCCCATTAGTGACCG 60.203 66.667 11.17 11.17 41.59 4.79
133 134 2.727392 CCGGCCCATTAGTGACCGA 61.727 63.158 17.32 0.00 43.36 4.69
134 135 1.445942 CGGCCCATTAGTGACCGAT 59.554 57.895 12.33 0.00 43.36 4.18
135 136 0.880278 CGGCCCATTAGTGACCGATG 60.880 60.000 12.33 0.00 43.36 3.84
136 137 0.180406 GGCCCATTAGTGACCGATGT 59.820 55.000 0.00 0.00 0.00 3.06
137 138 1.414919 GGCCCATTAGTGACCGATGTA 59.585 52.381 0.00 0.00 0.00 2.29
138 139 2.158871 GGCCCATTAGTGACCGATGTAA 60.159 50.000 0.00 0.00 0.00 2.41
139 140 3.537580 GCCCATTAGTGACCGATGTAAA 58.462 45.455 0.00 0.00 0.00 2.01
140 141 3.560068 GCCCATTAGTGACCGATGTAAAG 59.440 47.826 0.00 0.00 0.00 1.85
141 142 4.682320 GCCCATTAGTGACCGATGTAAAGA 60.682 45.833 0.00 0.00 0.00 2.52
142 143 4.809426 CCCATTAGTGACCGATGTAAAGAC 59.191 45.833 0.00 0.00 0.00 3.01
143 144 5.395324 CCCATTAGTGACCGATGTAAAGACT 60.395 44.000 0.00 0.00 0.00 3.24
144 145 6.183360 CCCATTAGTGACCGATGTAAAGACTA 60.183 42.308 0.00 0.00 0.00 2.59
145 146 6.918569 CCATTAGTGACCGATGTAAAGACTAG 59.081 42.308 0.00 0.00 0.00 2.57
146 147 7.201794 CCATTAGTGACCGATGTAAAGACTAGA 60.202 40.741 0.00 0.00 0.00 2.43
147 148 5.821516 AGTGACCGATGTAAAGACTAGAG 57.178 43.478 0.00 0.00 0.00 2.43
148 149 5.498393 AGTGACCGATGTAAAGACTAGAGA 58.502 41.667 0.00 0.00 0.00 3.10
149 150 5.354792 AGTGACCGATGTAAAGACTAGAGAC 59.645 44.000 0.00 0.00 0.00 3.36
150 151 5.354792 GTGACCGATGTAAAGACTAGAGACT 59.645 44.000 0.00 0.00 0.00 3.24
151 152 5.354513 TGACCGATGTAAAGACTAGAGACTG 59.645 44.000 0.00 0.00 0.00 3.51
152 153 5.254901 ACCGATGTAAAGACTAGAGACTGT 58.745 41.667 0.00 0.00 0.00 3.55
153 154 5.124138 ACCGATGTAAAGACTAGAGACTGTG 59.876 44.000 0.00 0.00 0.00 3.66
154 155 5.449314 CCGATGTAAAGACTAGAGACTGTGG 60.449 48.000 0.00 0.00 0.00 4.17
155 156 4.785511 TGTAAAGACTAGAGACTGTGGC 57.214 45.455 0.00 0.00 0.00 5.01
156 157 3.510360 TGTAAAGACTAGAGACTGTGGCC 59.490 47.826 0.00 0.00 0.00 5.36
157 158 1.178276 AAGACTAGAGACTGTGGCCG 58.822 55.000 0.00 0.00 0.00 6.13
158 159 0.328592 AGACTAGAGACTGTGGCCGA 59.671 55.000 0.00 0.00 0.00 5.54
159 160 1.174783 GACTAGAGACTGTGGCCGAA 58.825 55.000 0.00 0.00 0.00 4.30
160 161 1.133407 GACTAGAGACTGTGGCCGAAG 59.867 57.143 0.00 0.00 0.00 3.79
161 162 1.271982 ACTAGAGACTGTGGCCGAAGA 60.272 52.381 11.27 0.00 0.00 2.87
162 163 1.819288 CTAGAGACTGTGGCCGAAGAA 59.181 52.381 11.27 0.00 0.00 2.52
163 164 1.048601 AGAGACTGTGGCCGAAGAAA 58.951 50.000 11.27 0.00 0.00 2.52
164 165 1.001406 AGAGACTGTGGCCGAAGAAAG 59.999 52.381 11.27 0.00 0.00 2.62
165 166 0.035458 AGACTGTGGCCGAAGAAAGG 59.965 55.000 11.27 0.00 0.00 3.11
166 167 0.955919 GACTGTGGCCGAAGAAAGGG 60.956 60.000 11.27 0.00 0.00 3.95
167 168 1.073199 CTGTGGCCGAAGAAAGGGT 59.927 57.895 0.00 0.00 0.00 4.34
168 169 0.323629 CTGTGGCCGAAGAAAGGGTA 59.676 55.000 0.00 0.00 0.00 3.69
169 170 0.323629 TGTGGCCGAAGAAAGGGTAG 59.676 55.000 0.00 0.00 0.00 3.18
170 171 0.392595 GTGGCCGAAGAAAGGGTAGG 60.393 60.000 0.00 0.00 0.00 3.18
171 172 0.545787 TGGCCGAAGAAAGGGTAGGA 60.546 55.000 0.00 0.00 0.00 2.94
172 173 0.837940 GGCCGAAGAAAGGGTAGGAT 59.162 55.000 0.00 0.00 0.00 3.24
173 174 1.475213 GGCCGAAGAAAGGGTAGGATG 60.475 57.143 0.00 0.00 0.00 3.51
174 175 1.475213 GCCGAAGAAAGGGTAGGATGG 60.475 57.143 0.00 0.00 0.00 3.51
175 176 1.838077 CCGAAGAAAGGGTAGGATGGT 59.162 52.381 0.00 0.00 0.00 3.55
176 177 2.158943 CCGAAGAAAGGGTAGGATGGTC 60.159 54.545 0.00 0.00 0.00 4.02
265 275 2.158871 GGCCCATTAGTGACCGATGTAA 60.159 50.000 0.00 0.00 0.00 2.41
276 286 6.123651 AGTGACCGATGTAAAGACTAGAGAT 58.876 40.000 0.00 0.00 0.00 2.75
336 346 6.731292 AGTACATGCACATACTAGGAATCA 57.269 37.500 9.46 0.00 29.70 2.57
355 365 2.173519 CAAACCATGGACCTCTTGCAT 58.826 47.619 21.47 0.00 36.52 3.96
361 371 1.059098 TGGACCTCTTGCATGTGAGT 58.941 50.000 3.43 0.62 0.00 3.41
372 382 1.338105 GCATGTGAGTGTGAGTGGCTA 60.338 52.381 0.00 0.00 0.00 3.93
396 684 4.954202 ACCGGTTGAGATGATTAGTGTCTA 59.046 41.667 0.00 0.00 0.00 2.59
484 775 2.906691 CCAAAACCAAGGCACATCAA 57.093 45.000 0.00 0.00 0.00 2.57
547 838 6.404293 CCAGGATTGAATGGTTTTAACTACCG 60.404 42.308 2.42 0.00 38.55 4.02
582 876 1.135094 ACCTCCTCGCATCCATCAAT 58.865 50.000 0.00 0.00 0.00 2.57
614 908 2.025767 ATTGCTGCCCAAACACGCAA 62.026 50.000 0.00 0.00 43.65 4.85
620 914 2.667481 CTGCCCAAACACGCAAATATTG 59.333 45.455 0.00 0.00 33.87 1.90
654 948 3.530067 GCCATGGCCCAATCAGAC 58.470 61.111 27.24 0.00 34.56 3.51
656 950 1.307309 CCATGGCCCAATCAGACCA 59.693 57.895 0.00 0.00 36.43 4.02
672 966 6.235231 TCAGACCACAACTTTCTCTTAACT 57.765 37.500 0.00 0.00 0.00 2.24
721 1015 6.422776 ACAAACTGACTATTAATTCAGGCG 57.577 37.500 17.48 9.93 43.12 5.52
722 1016 5.938125 ACAAACTGACTATTAATTCAGGCGT 59.062 36.000 17.48 10.40 43.12 5.68
723 1017 7.101054 ACAAACTGACTATTAATTCAGGCGTA 58.899 34.615 17.48 0.00 43.12 4.42
724 1018 7.277981 ACAAACTGACTATTAATTCAGGCGTAG 59.722 37.037 17.48 8.12 43.12 3.51
725 1019 5.844004 ACTGACTATTAATTCAGGCGTAGG 58.156 41.667 17.48 0.00 43.12 3.18
726 1020 5.209818 TGACTATTAATTCAGGCGTAGGG 57.790 43.478 0.00 0.00 0.00 3.53
727 1021 4.897076 TGACTATTAATTCAGGCGTAGGGA 59.103 41.667 0.00 0.00 0.00 4.20
728 1022 5.364446 TGACTATTAATTCAGGCGTAGGGAA 59.636 40.000 0.00 0.00 0.00 3.97
729 1023 6.042781 TGACTATTAATTCAGGCGTAGGGAAT 59.957 38.462 0.00 0.00 32.90 3.01
730 1024 7.233962 TGACTATTAATTCAGGCGTAGGGAATA 59.766 37.037 0.00 0.00 31.40 1.75
731 1025 7.612677 ACTATTAATTCAGGCGTAGGGAATAG 58.387 38.462 0.00 0.00 31.40 1.73
732 1026 2.841442 ATTCAGGCGTAGGGAATAGC 57.159 50.000 0.00 0.00 29.93 2.97
733 1027 1.491668 TTCAGGCGTAGGGAATAGCA 58.508 50.000 0.00 0.00 0.00 3.49
734 1028 1.040646 TCAGGCGTAGGGAATAGCAG 58.959 55.000 0.00 0.00 0.00 4.24
735 1029 0.753262 CAGGCGTAGGGAATAGCAGT 59.247 55.000 0.00 0.00 0.00 4.40
736 1030 1.041437 AGGCGTAGGGAATAGCAGTC 58.959 55.000 0.00 0.00 0.00 3.51
737 1031 0.318784 GGCGTAGGGAATAGCAGTCG 60.319 60.000 0.00 0.00 0.00 4.18
738 1032 0.940047 GCGTAGGGAATAGCAGTCGC 60.940 60.000 0.00 0.00 38.99 5.19
739 1033 0.318784 CGTAGGGAATAGCAGTCGCC 60.319 60.000 0.00 0.00 39.83 5.54
740 1034 1.041437 GTAGGGAATAGCAGTCGCCT 58.959 55.000 0.00 0.00 39.83 5.52
741 1035 1.413077 GTAGGGAATAGCAGTCGCCTT 59.587 52.381 0.00 0.00 39.83 4.35
742 1036 1.789523 AGGGAATAGCAGTCGCCTTA 58.210 50.000 0.00 0.00 39.83 2.69
743 1037 1.413077 AGGGAATAGCAGTCGCCTTAC 59.587 52.381 0.00 0.00 39.83 2.34
744 1038 1.138266 GGGAATAGCAGTCGCCTTACA 59.862 52.381 0.00 0.00 39.83 2.41
745 1039 2.419574 GGGAATAGCAGTCGCCTTACAA 60.420 50.000 0.00 0.00 39.83 2.41
746 1040 3.267483 GGAATAGCAGTCGCCTTACAAA 58.733 45.455 0.00 0.00 39.83 2.83
747 1041 3.687698 GGAATAGCAGTCGCCTTACAAAA 59.312 43.478 0.00 0.00 39.83 2.44
748 1042 4.201822 GGAATAGCAGTCGCCTTACAAAAG 60.202 45.833 0.00 0.00 39.83 2.27
749 1043 2.256117 AGCAGTCGCCTTACAAAAGT 57.744 45.000 0.00 0.00 39.83 2.66
750 1044 1.873591 AGCAGTCGCCTTACAAAAGTG 59.126 47.619 0.00 0.00 39.83 3.16
751 1045 1.069227 GCAGTCGCCTTACAAAAGTGG 60.069 52.381 0.00 0.00 0.00 4.00
752 1046 2.489971 CAGTCGCCTTACAAAAGTGGA 58.510 47.619 0.00 0.00 0.00 4.02
753 1047 2.223377 CAGTCGCCTTACAAAAGTGGAC 59.777 50.000 0.00 0.00 35.13 4.02
754 1048 2.104281 AGTCGCCTTACAAAAGTGGACT 59.896 45.455 0.00 0.00 37.97 3.85
755 1049 2.876550 GTCGCCTTACAAAAGTGGACTT 59.123 45.455 0.00 0.00 37.91 3.01
756 1050 3.059120 GTCGCCTTACAAAAGTGGACTTC 60.059 47.826 0.00 0.00 34.61 3.01
757 1051 2.225727 CGCCTTACAAAAGTGGACTTCC 59.774 50.000 0.00 0.00 34.61 3.46
758 1052 3.487372 GCCTTACAAAAGTGGACTTCCT 58.513 45.455 0.00 0.00 34.61 3.36
759 1053 3.502595 GCCTTACAAAAGTGGACTTCCTC 59.497 47.826 0.00 0.00 34.61 3.71
760 1054 4.747009 GCCTTACAAAAGTGGACTTCCTCT 60.747 45.833 0.00 0.00 41.23 3.69
761 1055 5.512576 GCCTTACAAAAGTGGACTTCCTCTA 60.513 44.000 0.29 0.00 38.77 2.43
762 1056 5.932883 CCTTACAAAAGTGGACTTCCTCTAC 59.067 44.000 0.29 0.00 38.77 2.59
763 1057 4.353383 ACAAAAGTGGACTTCCTCTACC 57.647 45.455 0.29 0.00 38.77 3.18
764 1058 3.072622 ACAAAAGTGGACTTCCTCTACCC 59.927 47.826 0.29 0.00 38.77 3.69
765 1059 3.277416 AAAGTGGACTTCCTCTACCCT 57.723 47.619 0.29 0.00 38.77 4.34
766 1060 4.415224 AAAGTGGACTTCCTCTACCCTA 57.585 45.455 0.29 0.00 38.77 3.53
767 1061 3.673543 AGTGGACTTCCTCTACCCTAG 57.326 52.381 0.00 0.00 38.02 3.02
768 1062 3.199671 AGTGGACTTCCTCTACCCTAGA 58.800 50.000 0.00 0.00 38.02 2.43
769 1063 3.596956 AGTGGACTTCCTCTACCCTAGAA 59.403 47.826 0.00 0.00 38.02 2.10
770 1064 4.045590 AGTGGACTTCCTCTACCCTAGAAA 59.954 45.833 0.00 0.00 38.02 2.52
771 1065 4.963628 GTGGACTTCCTCTACCCTAGAAAT 59.036 45.833 0.00 0.00 36.82 2.17
772 1066 5.069383 GTGGACTTCCTCTACCCTAGAAATC 59.931 48.000 0.00 0.00 36.82 2.17
773 1067 4.589798 GGACTTCCTCTACCCTAGAAATCC 59.410 50.000 0.00 0.00 33.75 3.01
774 1068 4.558715 ACTTCCTCTACCCTAGAAATCCC 58.441 47.826 0.00 0.00 33.75 3.85
775 1069 3.240310 TCCTCTACCCTAGAAATCCCG 57.760 52.381 0.00 0.00 33.75 5.14
776 1070 2.787625 TCCTCTACCCTAGAAATCCCGA 59.212 50.000 0.00 0.00 33.75 5.14
777 1071 3.205959 TCCTCTACCCTAGAAATCCCGAA 59.794 47.826 0.00 0.00 33.75 4.30
778 1072 3.321396 CCTCTACCCTAGAAATCCCGAAC 59.679 52.174 0.00 0.00 33.75 3.95
779 1073 3.958798 CTCTACCCTAGAAATCCCGAACA 59.041 47.826 0.00 0.00 33.75 3.18
780 1074 4.553678 TCTACCCTAGAAATCCCGAACAT 58.446 43.478 0.00 0.00 0.00 2.71
781 1075 5.708544 TCTACCCTAGAAATCCCGAACATA 58.291 41.667 0.00 0.00 0.00 2.29
782 1076 4.957684 ACCCTAGAAATCCCGAACATAG 57.042 45.455 0.00 0.00 0.00 2.23
783 1077 3.646637 ACCCTAGAAATCCCGAACATAGG 59.353 47.826 0.00 0.00 0.00 2.57
784 1078 3.646637 CCCTAGAAATCCCGAACATAGGT 59.353 47.826 0.00 0.00 0.00 3.08
785 1079 4.836736 CCCTAGAAATCCCGAACATAGGTA 59.163 45.833 0.00 0.00 0.00 3.08
786 1080 5.306160 CCCTAGAAATCCCGAACATAGGTAA 59.694 44.000 0.00 0.00 0.00 2.85
787 1081 6.221659 CCTAGAAATCCCGAACATAGGTAAC 58.778 44.000 0.00 0.00 0.00 2.50
788 1082 5.687166 AGAAATCCCGAACATAGGTAACA 57.313 39.130 0.00 0.00 41.41 2.41
789 1083 5.425630 AGAAATCCCGAACATAGGTAACAC 58.574 41.667 0.00 0.00 41.41 3.32
790 1084 3.832615 ATCCCGAACATAGGTAACACC 57.167 47.619 0.00 0.00 38.99 4.16
791 1085 2.538222 TCCCGAACATAGGTAACACCA 58.462 47.619 0.00 0.00 41.95 4.17
792 1086 2.905085 TCCCGAACATAGGTAACACCAA 59.095 45.455 0.00 0.00 41.95 3.67
793 1087 3.004862 CCCGAACATAGGTAACACCAAC 58.995 50.000 0.00 0.00 41.95 3.77
794 1088 2.669434 CCGAACATAGGTAACACCAACG 59.331 50.000 0.00 0.00 41.95 4.10
795 1089 3.319755 CGAACATAGGTAACACCAACGT 58.680 45.455 0.00 0.00 41.95 3.99
796 1090 3.122278 CGAACATAGGTAACACCAACGTG 59.878 47.826 0.00 0.00 41.95 4.49
797 1091 3.048337 ACATAGGTAACACCAACGTGG 57.952 47.619 0.00 0.00 44.86 4.94
798 1092 1.735571 CATAGGTAACACCAACGTGGC 59.264 52.381 0.00 0.00 44.86 5.01
799 1093 0.757512 TAGGTAACACCAACGTGGCA 59.242 50.000 0.00 0.00 44.86 4.92
800 1094 0.107116 AGGTAACACCAACGTGGCAA 60.107 50.000 0.00 0.00 44.86 4.52
801 1095 0.739561 GGTAACACCAACGTGGCAAA 59.260 50.000 0.00 0.00 44.86 3.68
802 1096 1.134560 GGTAACACCAACGTGGCAAAA 59.865 47.619 0.00 0.00 44.86 2.44
803 1097 2.186891 GTAACACCAACGTGGCAAAAC 58.813 47.619 0.00 0.00 44.86 2.43
804 1098 0.603569 AACACCAACGTGGCAAAACA 59.396 45.000 0.00 0.00 44.86 2.83
805 1099 0.603569 ACACCAACGTGGCAAAACAA 59.396 45.000 0.00 0.00 44.86 2.83
806 1100 1.276415 CACCAACGTGGCAAAACAAG 58.724 50.000 0.00 0.00 42.67 3.16
807 1101 1.135257 CACCAACGTGGCAAAACAAGA 60.135 47.619 0.00 0.00 42.67 3.02
808 1102 1.546476 ACCAACGTGGCAAAACAAGAA 59.454 42.857 0.00 0.00 42.67 2.52
809 1103 1.923864 CCAACGTGGCAAAACAAGAAC 59.076 47.619 0.00 0.00 0.00 3.01
810 1104 2.416701 CCAACGTGGCAAAACAAGAACT 60.417 45.455 0.00 0.00 0.00 3.01
811 1105 3.181495 CCAACGTGGCAAAACAAGAACTA 60.181 43.478 0.00 0.00 0.00 2.24
812 1106 4.416620 CAACGTGGCAAAACAAGAACTAA 58.583 39.130 0.00 0.00 0.00 2.24
813 1107 4.911514 ACGTGGCAAAACAAGAACTAAT 57.088 36.364 0.00 0.00 0.00 1.73
896 1190 0.759346 GATCCGGATAACCTGCCTGT 59.241 55.000 19.15 0.00 0.00 4.00
966 1260 4.332543 TCCTTCCACCCGGCCTCT 62.333 66.667 0.00 0.00 0.00 3.69
1384 1680 2.856231 AGGGGACTTATGGTGGCAATTA 59.144 45.455 0.00 0.00 37.44 1.40
1489 1785 6.042666 GGAGCTCTACAGGAAGGAGATAATTT 59.957 42.308 14.64 0.00 0.00 1.82
1674 1970 7.440198 TCTTGCCAGTAAGATATGAGAAGATG 58.560 38.462 0.00 0.00 32.02 2.90
1989 2285 1.834263 GCTAAGAGCCCTCTCAAGGAA 59.166 52.381 0.00 0.00 46.67 3.36
2263 2562 4.890158 TGAGTCTTTCATGCTGGAACTA 57.110 40.909 0.00 0.00 0.00 2.24
2541 2863 1.687612 CCTGGTGCTTCTCCATGGT 59.312 57.895 12.58 0.00 34.26 3.55
3015 3480 2.291043 ACGAGGGTTTCCAGGCGAT 61.291 57.895 0.00 0.00 34.83 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.924060 GGGTATACACTGATACACTGATTCAC 59.076 42.308 5.01 0.00 33.60 3.18
5 6 5.138758 AGGGGTATACACTGATACACTGA 57.861 43.478 4.84 0.00 36.19 3.41
7 8 5.525484 TGAAGGGGTATACACTGATACACT 58.475 41.667 4.84 0.00 36.19 3.55
8 9 5.864418 TGAAGGGGTATACACTGATACAC 57.136 43.478 4.84 0.00 35.32 2.90
9 10 8.008332 TCTTATGAAGGGGTATACACTGATACA 58.992 37.037 4.84 0.00 34.50 2.29
10 11 8.418597 TCTTATGAAGGGGTATACACTGATAC 57.581 38.462 4.84 0.00 0.00 2.24
11 12 9.442062 TTTCTTATGAAGGGGTATACACTGATA 57.558 33.333 4.84 1.14 33.28 2.15
12 13 7.931015 TTCTTATGAAGGGGTATACACTGAT 57.069 36.000 4.84 1.97 0.00 2.90
13 14 7.147549 CCTTTCTTATGAAGGGGTATACACTGA 60.148 40.741 4.84 0.00 43.31 3.41
14 15 6.992715 CCTTTCTTATGAAGGGGTATACACTG 59.007 42.308 4.84 0.00 43.31 3.66
15 16 7.138054 CCTTTCTTATGAAGGGGTATACACT 57.862 40.000 4.84 0.00 43.31 3.55
71 72 3.381908 ACACTGGTGGACGCATTTAAAAA 59.618 39.130 5.70 0.00 34.19 1.94
72 73 2.952978 ACACTGGTGGACGCATTTAAAA 59.047 40.909 5.70 0.00 34.19 1.52
73 74 2.577700 ACACTGGTGGACGCATTTAAA 58.422 42.857 5.70 0.00 34.19 1.52
74 75 2.264005 ACACTGGTGGACGCATTTAA 57.736 45.000 5.70 0.00 34.19 1.52
75 76 3.620427 ATACACTGGTGGACGCATTTA 57.380 42.857 5.70 0.00 34.19 1.40
76 77 2.489938 ATACACTGGTGGACGCATTT 57.510 45.000 5.70 0.00 34.19 2.32
77 78 2.737359 CGTATACACTGGTGGACGCATT 60.737 50.000 3.32 0.00 31.97 3.56
78 79 1.202371 CGTATACACTGGTGGACGCAT 60.202 52.381 3.32 0.00 31.97 4.73
79 80 0.171679 CGTATACACTGGTGGACGCA 59.828 55.000 3.32 0.00 31.97 5.24
80 81 1.143969 GCGTATACACTGGTGGACGC 61.144 60.000 23.08 23.08 45.95 5.19
81 82 0.454600 AGCGTATACACTGGTGGACG 59.545 55.000 15.50 15.50 37.91 4.79
82 83 1.203994 ACAGCGTATACACTGGTGGAC 59.796 52.381 21.69 0.27 38.25 4.02
83 84 1.552578 ACAGCGTATACACTGGTGGA 58.447 50.000 21.69 0.00 38.25 4.02
84 85 2.793585 CGTACAGCGTATACACTGGTGG 60.794 54.545 21.69 8.74 38.25 4.61
85 86 2.447250 CGTACAGCGTATACACTGGTG 58.553 52.381 21.69 14.19 38.25 4.17
86 87 1.202222 GCGTACAGCGTATACACTGGT 60.202 52.381 21.69 11.69 43.66 4.00
87 88 1.474017 GCGTACAGCGTATACACTGG 58.526 55.000 21.69 8.16 43.66 4.00
113 114 2.516225 GTCACTAATGGGCCGGCC 60.516 66.667 38.57 38.57 0.00 6.13
114 115 2.516225 GGTCACTAATGGGCCGGC 60.516 66.667 21.18 21.18 0.00 6.13
115 116 2.040009 ATCGGTCACTAATGGGCCGG 62.040 60.000 5.55 0.00 41.74 6.13
116 117 0.880278 CATCGGTCACTAATGGGCCG 60.880 60.000 0.00 0.00 42.33 6.13
117 118 0.180406 ACATCGGTCACTAATGGGCC 59.820 55.000 0.00 0.00 0.00 5.80
118 119 2.902705 TACATCGGTCACTAATGGGC 57.097 50.000 0.00 0.00 0.00 5.36
119 120 4.809426 GTCTTTACATCGGTCACTAATGGG 59.191 45.833 0.00 0.00 0.00 4.00
120 121 5.661458 AGTCTTTACATCGGTCACTAATGG 58.339 41.667 0.00 0.00 0.00 3.16
121 122 7.704271 TCTAGTCTTTACATCGGTCACTAATG 58.296 38.462 0.00 0.00 0.00 1.90
122 123 7.774157 TCTCTAGTCTTTACATCGGTCACTAAT 59.226 37.037 0.00 0.00 0.00 1.73
123 124 7.065563 GTCTCTAGTCTTTACATCGGTCACTAA 59.934 40.741 0.00 0.00 0.00 2.24
124 125 6.538021 GTCTCTAGTCTTTACATCGGTCACTA 59.462 42.308 0.00 0.00 0.00 2.74
125 126 5.354792 GTCTCTAGTCTTTACATCGGTCACT 59.645 44.000 0.00 0.00 0.00 3.41
126 127 5.354792 AGTCTCTAGTCTTTACATCGGTCAC 59.645 44.000 0.00 0.00 0.00 3.67
127 128 5.354513 CAGTCTCTAGTCTTTACATCGGTCA 59.645 44.000 0.00 0.00 0.00 4.02
128 129 5.354792 ACAGTCTCTAGTCTTTACATCGGTC 59.645 44.000 0.00 0.00 0.00 4.79
129 130 5.124138 CACAGTCTCTAGTCTTTACATCGGT 59.876 44.000 0.00 0.00 0.00 4.69
130 131 5.449314 CCACAGTCTCTAGTCTTTACATCGG 60.449 48.000 0.00 0.00 0.00 4.18
131 132 5.574082 CCACAGTCTCTAGTCTTTACATCG 58.426 45.833 0.00 0.00 0.00 3.84
132 133 5.344884 GCCACAGTCTCTAGTCTTTACATC 58.655 45.833 0.00 0.00 0.00 3.06
133 134 4.160626 GGCCACAGTCTCTAGTCTTTACAT 59.839 45.833 0.00 0.00 0.00 2.29
134 135 3.510360 GGCCACAGTCTCTAGTCTTTACA 59.490 47.826 0.00 0.00 0.00 2.41
135 136 3.427773 CGGCCACAGTCTCTAGTCTTTAC 60.428 52.174 2.24 0.00 0.00 2.01
136 137 2.753452 CGGCCACAGTCTCTAGTCTTTA 59.247 50.000 2.24 0.00 0.00 1.85
137 138 1.546476 CGGCCACAGTCTCTAGTCTTT 59.454 52.381 2.24 0.00 0.00 2.52
138 139 1.178276 CGGCCACAGTCTCTAGTCTT 58.822 55.000 2.24 0.00 0.00 3.01
139 140 0.328592 TCGGCCACAGTCTCTAGTCT 59.671 55.000 2.24 0.00 0.00 3.24
140 141 1.133407 CTTCGGCCACAGTCTCTAGTC 59.867 57.143 2.24 0.00 0.00 2.59
141 142 1.178276 CTTCGGCCACAGTCTCTAGT 58.822 55.000 2.24 0.00 0.00 2.57
142 143 1.464734 TCTTCGGCCACAGTCTCTAG 58.535 55.000 2.24 0.00 0.00 2.43
143 144 1.919240 TTCTTCGGCCACAGTCTCTA 58.081 50.000 2.24 0.00 0.00 2.43
144 145 1.001406 CTTTCTTCGGCCACAGTCTCT 59.999 52.381 2.24 0.00 0.00 3.10
145 146 1.433534 CTTTCTTCGGCCACAGTCTC 58.566 55.000 2.24 0.00 0.00 3.36
146 147 0.035458 CCTTTCTTCGGCCACAGTCT 59.965 55.000 2.24 0.00 0.00 3.24
147 148 0.955919 CCCTTTCTTCGGCCACAGTC 60.956 60.000 2.24 0.00 0.00 3.51
148 149 1.073199 CCCTTTCTTCGGCCACAGT 59.927 57.895 2.24 0.00 0.00 3.55
149 150 0.323629 TACCCTTTCTTCGGCCACAG 59.676 55.000 2.24 0.00 0.00 3.66
150 151 0.323629 CTACCCTTTCTTCGGCCACA 59.676 55.000 2.24 0.00 0.00 4.17
151 152 0.392595 CCTACCCTTTCTTCGGCCAC 60.393 60.000 2.24 0.00 0.00 5.01
152 153 0.545787 TCCTACCCTTTCTTCGGCCA 60.546 55.000 2.24 0.00 0.00 5.36
153 154 0.837940 ATCCTACCCTTTCTTCGGCC 59.162 55.000 0.00 0.00 0.00 6.13
154 155 1.475213 CCATCCTACCCTTTCTTCGGC 60.475 57.143 0.00 0.00 0.00 5.54
155 156 1.838077 ACCATCCTACCCTTTCTTCGG 59.162 52.381 0.00 0.00 0.00 4.30
156 157 2.766828 AGACCATCCTACCCTTTCTTCG 59.233 50.000 0.00 0.00 0.00 3.79
157 158 4.846168 AAGACCATCCTACCCTTTCTTC 57.154 45.455 0.00 0.00 0.00 2.87
158 159 5.600669 AAAAGACCATCCTACCCTTTCTT 57.399 39.130 0.00 0.00 0.00 2.52
159 160 5.600669 AAAAAGACCATCCTACCCTTTCT 57.399 39.130 0.00 0.00 0.00 2.52
265 275 2.180276 ACGGCCACAATCTCTAGTCTT 58.820 47.619 2.24 0.00 0.00 3.01
310 320 8.360390 TGATTCCTAGTATGTGCATGTACTTAG 58.640 37.037 15.25 10.63 33.48 2.18
336 346 2.173519 CATGCAAGAGGTCCATGGTTT 58.826 47.619 12.58 0.00 34.26 3.27
355 365 1.070134 GGTTAGCCACTCACACTCACA 59.930 52.381 0.00 0.00 34.09 3.58
361 371 0.250124 CAACCGGTTAGCCACTCACA 60.250 55.000 21.79 0.00 34.09 3.58
372 382 4.223032 AGACACTAATCATCTCAACCGGTT 59.777 41.667 15.86 15.86 0.00 4.44
406 694 8.542497 TGTAATTCTTAAGCTTGTACGTTCAT 57.458 30.769 9.86 0.00 0.00 2.57
407 695 7.949903 TGTAATTCTTAAGCTTGTACGTTCA 57.050 32.000 9.86 0.00 0.00 3.18
415 704 6.093495 TCCGGACAATGTAATTCTTAAGCTTG 59.907 38.462 9.86 0.00 31.22 4.01
418 707 6.619801 ATCCGGACAATGTAATTCTTAAGC 57.380 37.500 6.12 0.00 31.22 3.09
497 788 5.538053 TCACTAATTGGGCAGATTCAAAACA 59.462 36.000 0.00 0.00 0.00 2.83
547 838 7.148306 TGCGAGGAGGTTTGAGAATTAATTTAC 60.148 37.037 1.43 0.93 0.00 2.01
558 849 0.250234 TGGATGCGAGGAGGTTTGAG 59.750 55.000 0.00 0.00 0.00 3.02
564 855 1.520494 CATTGATGGATGCGAGGAGG 58.480 55.000 0.00 0.00 0.00 4.30
601 895 1.999024 CCAATATTTGCGTGTTTGGGC 59.001 47.619 0.00 0.00 34.51 5.36
603 897 3.120718 GCAACCAATATTTGCGTGTTTGG 60.121 43.478 0.00 0.00 40.01 3.28
614 908 3.665544 GCGCCATGCAACCAATATT 57.334 47.368 0.00 0.00 45.45 1.28
638 932 1.039233 GTGGTCTGATTGGGCCATGG 61.039 60.000 7.26 7.63 33.20 3.66
644 938 3.490348 AGAAAGTTGTGGTCTGATTGGG 58.510 45.455 0.00 0.00 0.00 4.12
654 948 5.296780 TCAAGCAGTTAAGAGAAAGTTGTGG 59.703 40.000 0.00 0.00 0.00 4.17
656 950 7.391148 TTTCAAGCAGTTAAGAGAAAGTTGT 57.609 32.000 0.00 0.00 0.00 3.32
706 1000 5.881923 TTCCCTACGCCTGAATTAATAGT 57.118 39.130 0.00 0.00 0.00 2.12
712 1006 2.438021 TGCTATTCCCTACGCCTGAATT 59.562 45.455 0.00 0.00 31.55 2.17
713 1007 2.037772 CTGCTATTCCCTACGCCTGAAT 59.962 50.000 0.00 0.00 33.54 2.57
714 1008 1.412710 CTGCTATTCCCTACGCCTGAA 59.587 52.381 0.00 0.00 0.00 3.02
715 1009 1.040646 CTGCTATTCCCTACGCCTGA 58.959 55.000 0.00 0.00 0.00 3.86
716 1010 0.753262 ACTGCTATTCCCTACGCCTG 59.247 55.000 0.00 0.00 0.00 4.85
717 1011 1.041437 GACTGCTATTCCCTACGCCT 58.959 55.000 0.00 0.00 0.00 5.52
718 1012 0.318784 CGACTGCTATTCCCTACGCC 60.319 60.000 0.00 0.00 0.00 5.68
719 1013 0.940047 GCGACTGCTATTCCCTACGC 60.940 60.000 0.00 0.00 38.39 4.42
720 1014 0.318784 GGCGACTGCTATTCCCTACG 60.319 60.000 0.00 0.00 42.25 3.51
721 1015 1.041437 AGGCGACTGCTATTCCCTAC 58.959 55.000 0.00 0.00 41.13 3.18
722 1016 1.789523 AAGGCGACTGCTATTCCCTA 58.210 50.000 0.00 0.00 42.68 3.53
723 1017 1.413077 GTAAGGCGACTGCTATTCCCT 59.587 52.381 0.00 0.00 42.68 4.20
724 1018 1.138266 TGTAAGGCGACTGCTATTCCC 59.862 52.381 0.00 0.00 42.68 3.97
725 1019 2.596904 TGTAAGGCGACTGCTATTCC 57.403 50.000 0.00 0.00 42.68 3.01
726 1020 4.392138 ACTTTTGTAAGGCGACTGCTATTC 59.608 41.667 0.00 0.00 42.68 1.75
727 1021 4.154195 CACTTTTGTAAGGCGACTGCTATT 59.846 41.667 0.00 0.00 42.68 1.73
728 1022 3.684788 CACTTTTGTAAGGCGACTGCTAT 59.315 43.478 0.00 0.00 42.68 2.97
729 1023 3.064207 CACTTTTGTAAGGCGACTGCTA 58.936 45.455 0.00 0.00 42.68 3.49
730 1024 1.873591 CACTTTTGTAAGGCGACTGCT 59.126 47.619 0.00 0.00 42.68 4.24
731 1025 1.069227 CCACTTTTGTAAGGCGACTGC 60.069 52.381 0.00 0.00 42.68 4.40
732 1026 2.223377 GTCCACTTTTGTAAGGCGACTG 59.777 50.000 0.00 0.00 42.68 3.51
733 1027 3.433173 AAGTCCACTTTTGTAAGGCGACT 60.433 43.478 0.00 0.00 41.65 4.18
734 1028 2.490991 AGTCCACTTTTGTAAGGCGAC 58.509 47.619 0.00 0.00 35.61 5.19
735 1029 2.922740 AGTCCACTTTTGTAAGGCGA 57.077 45.000 0.00 0.00 35.61 5.54
736 1030 2.225727 GGAAGTCCACTTTTGTAAGGCG 59.774 50.000 0.00 0.00 36.11 5.52
737 1031 3.487372 AGGAAGTCCACTTTTGTAAGGC 58.513 45.455 0.00 0.00 38.89 4.35
738 1032 4.974399 AGAGGAAGTCCACTTTTGTAAGG 58.026 43.478 0.00 0.00 38.89 2.69
739 1033 5.932883 GGTAGAGGAAGTCCACTTTTGTAAG 59.067 44.000 2.47 0.00 38.01 2.34
740 1034 5.221783 GGGTAGAGGAAGTCCACTTTTGTAA 60.222 44.000 2.47 0.00 38.01 2.41
741 1035 4.285260 GGGTAGAGGAAGTCCACTTTTGTA 59.715 45.833 2.47 0.00 38.01 2.41
742 1036 3.072622 GGGTAGAGGAAGTCCACTTTTGT 59.927 47.826 2.47 0.00 38.01 2.83
743 1037 3.328050 AGGGTAGAGGAAGTCCACTTTTG 59.672 47.826 2.47 0.00 38.01 2.44
744 1038 3.599348 AGGGTAGAGGAAGTCCACTTTT 58.401 45.455 2.47 0.00 38.01 2.27
745 1039 3.277416 AGGGTAGAGGAAGTCCACTTT 57.723 47.619 2.47 0.00 38.01 2.66
746 1040 3.596956 TCTAGGGTAGAGGAAGTCCACTT 59.403 47.826 2.47 0.00 38.01 3.16
747 1041 3.199671 TCTAGGGTAGAGGAAGTCCACT 58.800 50.000 2.74 2.74 40.15 4.00
748 1042 3.666345 TCTAGGGTAGAGGAAGTCCAC 57.334 52.381 0.00 0.00 38.89 4.02
749 1043 4.687262 TTTCTAGGGTAGAGGAAGTCCA 57.313 45.455 0.00 0.00 38.89 4.02
750 1044 4.589798 GGATTTCTAGGGTAGAGGAAGTCC 59.410 50.000 0.00 0.00 37.40 3.85
751 1045 4.589798 GGGATTTCTAGGGTAGAGGAAGTC 59.410 50.000 0.00 0.00 35.96 3.01
752 1046 4.558715 GGGATTTCTAGGGTAGAGGAAGT 58.441 47.826 0.00 0.00 35.96 3.01
753 1047 3.574826 CGGGATTTCTAGGGTAGAGGAAG 59.425 52.174 0.00 0.00 35.96 3.46
754 1048 3.205959 TCGGGATTTCTAGGGTAGAGGAA 59.794 47.826 0.00 0.00 35.96 3.36
755 1049 2.787625 TCGGGATTTCTAGGGTAGAGGA 59.212 50.000 0.00 0.00 35.96 3.71
756 1050 3.240310 TCGGGATTTCTAGGGTAGAGG 57.760 52.381 0.00 0.00 35.96 3.69
757 1051 3.958798 TGTTCGGGATTTCTAGGGTAGAG 59.041 47.826 0.00 0.00 35.96 2.43
758 1052 3.985127 TGTTCGGGATTTCTAGGGTAGA 58.015 45.455 0.00 0.00 0.00 2.59
759 1053 4.957684 ATGTTCGGGATTTCTAGGGTAG 57.042 45.455 0.00 0.00 0.00 3.18
760 1054 4.836736 CCTATGTTCGGGATTTCTAGGGTA 59.163 45.833 0.00 0.00 0.00 3.69
761 1055 3.646637 CCTATGTTCGGGATTTCTAGGGT 59.353 47.826 0.00 0.00 0.00 4.34
762 1056 3.646637 ACCTATGTTCGGGATTTCTAGGG 59.353 47.826 0.00 0.00 30.72 3.53
763 1057 4.957684 ACCTATGTTCGGGATTTCTAGG 57.042 45.455 0.00 0.00 0.00 3.02
764 1058 6.700520 GTGTTACCTATGTTCGGGATTTCTAG 59.299 42.308 0.00 0.00 0.00 2.43
765 1059 6.407299 GGTGTTACCTATGTTCGGGATTTCTA 60.407 42.308 0.00 0.00 34.73 2.10
766 1060 5.425630 GTGTTACCTATGTTCGGGATTTCT 58.574 41.667 0.00 0.00 0.00 2.52
767 1061 4.573607 GGTGTTACCTATGTTCGGGATTTC 59.426 45.833 0.00 0.00 34.73 2.17
768 1062 4.019141 TGGTGTTACCTATGTTCGGGATTT 60.019 41.667 0.00 0.00 39.58 2.17
769 1063 3.520317 TGGTGTTACCTATGTTCGGGATT 59.480 43.478 0.00 0.00 39.58 3.01
770 1064 3.109151 TGGTGTTACCTATGTTCGGGAT 58.891 45.455 0.00 0.00 39.58 3.85
771 1065 2.538222 TGGTGTTACCTATGTTCGGGA 58.462 47.619 0.00 0.00 39.58 5.14
772 1066 3.004862 GTTGGTGTTACCTATGTTCGGG 58.995 50.000 0.00 0.00 39.58 5.14
773 1067 2.669434 CGTTGGTGTTACCTATGTTCGG 59.331 50.000 0.00 0.00 39.58 4.30
774 1068 3.122278 CACGTTGGTGTTACCTATGTTCG 59.878 47.826 4.86 0.00 39.59 3.95
775 1069 3.434299 CCACGTTGGTGTTACCTATGTTC 59.566 47.826 4.86 0.00 39.59 3.18
776 1070 3.404899 CCACGTTGGTGTTACCTATGTT 58.595 45.455 4.86 0.00 39.59 2.71
777 1071 2.872842 GCCACGTTGGTGTTACCTATGT 60.873 50.000 2.20 2.20 42.50 2.29
778 1072 1.735571 GCCACGTTGGTGTTACCTATG 59.264 52.381 6.02 0.19 42.80 2.23
779 1073 1.348366 TGCCACGTTGGTGTTACCTAT 59.652 47.619 6.02 0.00 42.80 2.57
780 1074 0.757512 TGCCACGTTGGTGTTACCTA 59.242 50.000 6.02 0.00 42.80 3.08
781 1075 0.107116 TTGCCACGTTGGTGTTACCT 60.107 50.000 6.02 0.00 42.80 3.08
782 1076 0.739561 TTTGCCACGTTGGTGTTACC 59.260 50.000 6.02 0.00 42.80 2.85
783 1077 2.186891 GTTTTGCCACGTTGGTGTTAC 58.813 47.619 6.02 0.00 42.80 2.50
784 1078 1.816835 TGTTTTGCCACGTTGGTGTTA 59.183 42.857 6.02 0.00 42.80 2.41
785 1079 0.603569 TGTTTTGCCACGTTGGTGTT 59.396 45.000 6.02 0.00 42.80 3.32
786 1080 0.603569 TTGTTTTGCCACGTTGGTGT 59.396 45.000 6.02 0.00 42.80 4.16
787 1081 1.135257 TCTTGTTTTGCCACGTTGGTG 60.135 47.619 6.02 0.00 40.46 4.17
788 1082 1.178276 TCTTGTTTTGCCACGTTGGT 58.822 45.000 6.02 0.00 40.46 3.67
789 1083 1.923864 GTTCTTGTTTTGCCACGTTGG 59.076 47.619 0.00 0.00 41.55 3.77
790 1084 2.874849 AGTTCTTGTTTTGCCACGTTG 58.125 42.857 0.00 0.00 0.00 4.10
791 1085 4.705337 TTAGTTCTTGTTTTGCCACGTT 57.295 36.364 0.00 0.00 0.00 3.99
792 1086 4.911514 ATTAGTTCTTGTTTTGCCACGT 57.088 36.364 0.00 0.00 0.00 4.49
793 1087 5.048991 AGGTATTAGTTCTTGTTTTGCCACG 60.049 40.000 0.00 0.00 0.00 4.94
794 1088 6.327279 AGGTATTAGTTCTTGTTTTGCCAC 57.673 37.500 0.00 0.00 0.00 5.01
795 1089 6.431852 GGTAGGTATTAGTTCTTGTTTTGCCA 59.568 38.462 0.00 0.00 0.00 4.92
796 1090 6.127814 GGGTAGGTATTAGTTCTTGTTTTGCC 60.128 42.308 0.00 0.00 0.00 4.52
797 1091 6.657966 AGGGTAGGTATTAGTTCTTGTTTTGC 59.342 38.462 0.00 0.00 0.00 3.68
798 1092 9.379791 CTAGGGTAGGTATTAGTTCTTGTTTTG 57.620 37.037 0.00 0.00 0.00 2.44
799 1093 8.045507 GCTAGGGTAGGTATTAGTTCTTGTTTT 58.954 37.037 0.00 0.00 0.00 2.43
800 1094 7.365384 GGCTAGGGTAGGTATTAGTTCTTGTTT 60.365 40.741 0.00 0.00 0.00 2.83
801 1095 6.099413 GGCTAGGGTAGGTATTAGTTCTTGTT 59.901 42.308 0.00 0.00 0.00 2.83
802 1096 5.601729 GGCTAGGGTAGGTATTAGTTCTTGT 59.398 44.000 0.00 0.00 0.00 3.16
803 1097 5.278858 CGGCTAGGGTAGGTATTAGTTCTTG 60.279 48.000 0.00 0.00 0.00 3.02
804 1098 4.831710 CGGCTAGGGTAGGTATTAGTTCTT 59.168 45.833 0.00 0.00 0.00 2.52
805 1099 4.405548 CGGCTAGGGTAGGTATTAGTTCT 58.594 47.826 0.00 0.00 0.00 3.01
806 1100 3.056962 GCGGCTAGGGTAGGTATTAGTTC 60.057 52.174 0.00 0.00 0.00 3.01
807 1101 2.896044 GCGGCTAGGGTAGGTATTAGTT 59.104 50.000 0.00 0.00 0.00 2.24
808 1102 2.523245 GCGGCTAGGGTAGGTATTAGT 58.477 52.381 0.00 0.00 0.00 2.24
809 1103 1.823610 GGCGGCTAGGGTAGGTATTAG 59.176 57.143 0.00 0.00 0.00 1.73
810 1104 1.887956 CGGCGGCTAGGGTAGGTATTA 60.888 57.143 7.61 0.00 0.00 0.98
811 1105 1.183676 CGGCGGCTAGGGTAGGTATT 61.184 60.000 7.61 0.00 0.00 1.89
812 1106 1.605738 CGGCGGCTAGGGTAGGTAT 60.606 63.158 7.61 0.00 0.00 2.73
813 1107 2.203394 CGGCGGCTAGGGTAGGTA 60.203 66.667 7.61 0.00 0.00 3.08
896 1190 1.000233 GTGGGATGGTTGGGATGCA 60.000 57.895 0.00 0.00 0.00 3.96
1384 1680 6.152831 GGTTTACCTTTGCCATCATACTCTTT 59.847 38.462 0.00 0.00 0.00 2.52
1489 1785 0.242825 CGACGAGCCAGTTGGTCTAA 59.757 55.000 0.00 0.00 39.38 2.10
1621 1917 2.889756 GCCCTTCCCCTTTGATGTTCAT 60.890 50.000 0.00 0.00 0.00 2.57
1674 1970 2.224402 ACAGACTTCACAGAAGAAGCCC 60.224 50.000 13.23 3.28 46.97 5.19
1873 2169 0.881118 GCTCCATTGTTTCTTCCGCA 59.119 50.000 0.00 0.00 0.00 5.69
1989 2285 0.178975 TCCCAACATCAACGCCCTTT 60.179 50.000 0.00 0.00 0.00 3.11
2541 2863 0.246360 CCGTACATCACTGTGAGCCA 59.754 55.000 16.46 0.54 36.79 4.75
3015 3480 3.243704 GCCTTGCCAGTGTTGTTCAATTA 60.244 43.478 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.