Multiple sequence alignment - TraesCS7B01G249200

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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 TraesCS7B01G249200 chr7B 100.000 3188 0 0 1 3188 460601682 460604869 0.000000e+00 5888
1 TraesCS7B01G249200 chr7B 92.500 80 6 0 1 80 589348383 589348304 7.230000e-22 115
2 TraesCS7B01G249200 chr7D 93.205 3076 86 52 196 3188 443170514 443173549 0.000000e+00 4409
3 TraesCS7B01G249200 chr7D 85.606 132 15 4 3052 3182 101082539 101082667 5.550000e-28 135
4 TraesCS7B01G249200 chr7D 92.500 80 6 0 1 80 545397602 545397523 7.230000e-22 115
5 TraesCS7B01G249200 chr7D 95.714 70 3 0 1 70 105999707 105999776 2.600000e-21 113
6 TraesCS7B01G249200 chr7A 93.536 2367 92 29 714 3049 494130258 494132594 0.000000e+00 3467
7 TraesCS7B01G249200 chr7A 88.051 544 28 21 196 721 493710797 493711321 7.560000e-171 610
8 TraesCS7B01G249200 chr7A 82.911 158 12 11 3038 3187 335980734 335980884 9.280000e-26 128
9 TraesCS7B01G249200 chr5D 88.806 134 12 3 3053 3185 559346442 559346573 9.150000e-36 161
10 TraesCS7B01G249200 chr5A 85.315 143 10 7 3053 3187 382336309 382336448 1.540000e-28 137
11 TraesCS7B01G249200 chr5A 84.058 138 19 3 3052 3187 556176348 556176484 2.580000e-26 130
12 TraesCS7B01G249200 chr6D 85.294 136 13 7 3053 3187 457685533 457685404 2.000000e-27 134
13 TraesCS7B01G249200 chr3A 81.928 166 22 7 3025 3187 719340264 719340424 2.000000e-27 134
14 TraesCS7B01G249200 chr2D 83.448 145 19 4 3045 3187 100188203 100188344 2.580000e-26 130
15 TraesCS7B01G249200 chr2B 98.630 73 1 0 1 73 774087889 774087961 2.580000e-26 130
16 TraesCS7B01G249200 chr2A 98.571 70 1 0 1 70 619208064 619208133 1.200000e-24 124
17 TraesCS7B01G249200 chr5B 95.890 73 3 0 1 73 107732779 107732851 5.590000e-23 119
18 TraesCS7B01G249200 chr5B 95.890 73 1 2 1 72 701174693 701174764 2.010000e-22 117
19 TraesCS7B01G249200 chr3B 94.737 76 3 1 1 76 794347608 794347682 2.010000e-22 117
20 TraesCS7B01G249200 chr1B 94.737 76 2 2 1 75 526192347 526192421 2.010000e-22 117


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 TraesCS7B01G249200 chr7B 460601682 460604869 3187 False 5888 5888 100.000 1 3188 1 chr7B.!!$F1 3187
1 TraesCS7B01G249200 chr7D 443170514 443173549 3035 False 4409 4409 93.205 196 3188 1 chr7D.!!$F3 2992
2 TraesCS7B01G249200 chr7A 494130258 494132594 2336 False 3467 3467 93.536 714 3049 1 chr7A.!!$F3 2335
3 TraesCS7B01G249200 chr7A 493710797 493711321 524 False 610 610 88.051 196 721 1 chr7A.!!$F2 525

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
66 67 0.115745 TTTGGGACGGAGGGAGTACT 59.884 55.0 0.00 0.0 0.0 2.73 F
726 755 0.178990 AACAAAGGCCACTCTCCCAC 60.179 55.0 5.01 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1461 1575 0.399075 AAGGGTTGGGACTTACCACG 59.601 55.0 0.00 0.0 41.03 4.94 R
2466 2580 0.247736 AGCACAGTCGACCATCTTCC 59.752 55.0 13.01 0.0 0.00 3.46 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
40 41 7.451501 ACTAGAGGTAGTACAAAGTTGAGAC 57.548 40.000 2.06 0.00 37.76 3.36
41 42 7.002879 ACTAGAGGTAGTACAAAGTTGAGACA 58.997 38.462 2.06 0.00 37.76 3.41
42 43 6.086785 AGAGGTAGTACAAAGTTGAGACAC 57.913 41.667 2.06 0.00 0.00 3.67
43 44 5.834204 AGAGGTAGTACAAAGTTGAGACACT 59.166 40.000 2.06 0.00 0.00 3.55
44 45 6.324254 AGAGGTAGTACAAAGTTGAGACACTT 59.676 38.462 2.06 0.00 38.74 3.16
45 46 7.504911 AGAGGTAGTACAAAGTTGAGACACTTA 59.495 37.037 2.06 0.00 35.87 2.24
46 47 8.191534 AGGTAGTACAAAGTTGAGACACTTAT 57.808 34.615 2.06 0.00 35.87 1.73
47 48 8.648693 AGGTAGTACAAAGTTGAGACACTTATT 58.351 33.333 2.06 0.00 35.87 1.40
48 49 9.269453 GGTAGTACAAAGTTGAGACACTTATTT 57.731 33.333 2.06 0.00 35.87 1.40
51 52 8.621286 AGTACAAAGTTGAGACACTTATTTTGG 58.379 33.333 0.00 0.00 35.87 3.28
52 53 6.805713 ACAAAGTTGAGACACTTATTTTGGG 58.194 36.000 0.00 0.00 35.87 4.12
53 54 6.605594 ACAAAGTTGAGACACTTATTTTGGGA 59.394 34.615 0.00 0.00 35.87 4.37
54 55 6.635030 AAGTTGAGACACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
55 56 4.755123 AGTTGAGACACTTATTTTGGGACG 59.245 41.667 0.00 0.00 0.00 4.79
56 57 3.670625 TGAGACACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 0.00 4.79
57 58 3.325425 TGAGACACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 0.00 4.69
58 59 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
59 60 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
60 61 2.290705 ACACTTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
61 62 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
62 63 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
63 64 1.961133 TATTTTGGGACGGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
64 65 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
65 66 0.978907 TTTTGGGACGGAGGGAGTAC 59.021 55.000 0.00 0.00 0.00 2.73
66 67 0.115745 TTTGGGACGGAGGGAGTACT 59.884 55.000 0.00 0.00 0.00 2.73
67 68 1.002069 TTGGGACGGAGGGAGTACTA 58.998 55.000 0.00 0.00 0.00 1.82
68 69 0.257039 TGGGACGGAGGGAGTACTAC 59.743 60.000 0.00 0.00 0.00 2.73
69 70 0.257039 GGGACGGAGGGAGTACTACA 59.743 60.000 7.57 0.00 0.00 2.74
70 71 1.677942 GGACGGAGGGAGTACTACAG 58.322 60.000 7.57 0.00 0.00 2.74
71 72 1.064832 GGACGGAGGGAGTACTACAGT 60.065 57.143 7.57 0.89 0.00 3.55
72 73 2.171448 GGACGGAGGGAGTACTACAGTA 59.829 54.545 7.57 0.00 0.00 2.74
73 74 3.465871 GACGGAGGGAGTACTACAGTAG 58.534 54.545 7.57 6.00 0.00 2.57
74 75 2.843113 ACGGAGGGAGTACTACAGTAGT 59.157 50.000 17.51 17.51 42.68 2.73
75 76 4.033709 ACGGAGGGAGTACTACAGTAGTA 58.966 47.826 15.43 15.43 40.14 1.82
87 88 6.205101 ACTACAGTAGTACCAACAGCATAC 57.795 41.667 11.84 0.00 37.23 2.39
88 89 5.713389 ACTACAGTAGTACCAACAGCATACA 59.287 40.000 11.84 0.00 37.23 2.29
89 90 5.073311 ACAGTAGTACCAACAGCATACAG 57.927 43.478 0.00 0.00 0.00 2.74
90 91 4.081642 ACAGTAGTACCAACAGCATACAGG 60.082 45.833 0.00 0.00 0.00 4.00
91 92 4.159693 CAGTAGTACCAACAGCATACAGGA 59.840 45.833 0.00 0.00 0.00 3.86
92 93 4.962995 AGTAGTACCAACAGCATACAGGAT 59.037 41.667 0.00 0.00 0.00 3.24
93 94 6.040504 CAGTAGTACCAACAGCATACAGGATA 59.959 42.308 0.00 0.00 0.00 2.59
94 95 6.782988 AGTAGTACCAACAGCATACAGGATAT 59.217 38.462 0.00 0.00 0.00 1.63
95 96 5.858381 AGTACCAACAGCATACAGGATATG 58.142 41.667 0.00 0.00 0.00 1.78
96 97 5.602561 AGTACCAACAGCATACAGGATATGA 59.397 40.000 0.00 0.00 0.00 2.15
97 98 5.372343 ACCAACAGCATACAGGATATGAA 57.628 39.130 0.00 0.00 0.00 2.57
98 99 5.126067 ACCAACAGCATACAGGATATGAAC 58.874 41.667 0.00 0.00 0.00 3.18
99 100 5.125356 CCAACAGCATACAGGATATGAACA 58.875 41.667 0.00 0.00 0.00 3.18
100 101 5.589855 CCAACAGCATACAGGATATGAACAA 59.410 40.000 0.00 0.00 0.00 2.83
101 102 6.095300 CCAACAGCATACAGGATATGAACAAA 59.905 38.462 0.00 0.00 0.00 2.83
102 103 7.362834 CCAACAGCATACAGGATATGAACAAAA 60.363 37.037 0.00 0.00 0.00 2.44
103 104 7.701539 ACAGCATACAGGATATGAACAAAAA 57.298 32.000 0.00 0.00 0.00 1.94
123 124 3.893326 AAAAAGTAATCATGCAGGGCC 57.107 42.857 0.00 0.00 0.00 5.80
124 125 2.834638 AAAGTAATCATGCAGGGCCT 57.165 45.000 0.00 0.00 0.00 5.19
125 126 2.355010 AAGTAATCATGCAGGGCCTC 57.645 50.000 0.95 0.00 0.00 4.70
126 127 1.216064 AGTAATCATGCAGGGCCTCA 58.784 50.000 0.95 5.50 0.00 3.86
127 128 1.565759 AGTAATCATGCAGGGCCTCAA 59.434 47.619 0.95 0.00 0.00 3.02
128 129 2.025037 AGTAATCATGCAGGGCCTCAAA 60.025 45.455 0.95 0.00 0.00 2.69
129 130 2.170012 AATCATGCAGGGCCTCAAAT 57.830 45.000 0.95 0.00 0.00 2.32
130 131 2.170012 ATCATGCAGGGCCTCAAATT 57.830 45.000 0.95 0.00 0.00 1.82
131 132 1.941377 TCATGCAGGGCCTCAAATTT 58.059 45.000 0.95 0.00 0.00 1.82
132 133 1.826720 TCATGCAGGGCCTCAAATTTC 59.173 47.619 0.95 0.00 0.00 2.17
133 134 0.819582 ATGCAGGGCCTCAAATTTCG 59.180 50.000 0.95 0.00 0.00 3.46
134 135 1.153765 GCAGGGCCTCAAATTTCGC 60.154 57.895 0.95 0.00 0.00 4.70
135 136 1.512694 CAGGGCCTCAAATTTCGCC 59.487 57.895 0.95 10.66 40.85 5.54
136 137 1.076549 AGGGCCTCAAATTTCGCCA 59.923 52.632 17.79 0.00 43.50 5.69
137 138 0.967380 AGGGCCTCAAATTTCGCCAG 60.967 55.000 17.79 0.95 43.50 4.85
138 139 1.153765 GGCCTCAAATTTCGCCAGC 60.154 57.895 13.23 2.27 41.25 4.85
139 140 1.153765 GCCTCAAATTTCGCCAGCC 60.154 57.895 0.00 0.00 0.00 4.85
140 141 1.512694 CCTCAAATTTCGCCAGCCC 59.487 57.895 0.00 0.00 0.00 5.19
141 142 1.512694 CTCAAATTTCGCCAGCCCC 59.487 57.895 0.00 0.00 0.00 5.80
142 143 1.228706 TCAAATTTCGCCAGCCCCA 60.229 52.632 0.00 0.00 0.00 4.96
143 144 0.614415 TCAAATTTCGCCAGCCCCAT 60.614 50.000 0.00 0.00 0.00 4.00
144 145 0.179103 CAAATTTCGCCAGCCCCATC 60.179 55.000 0.00 0.00 0.00 3.51
145 146 0.614415 AAATTTCGCCAGCCCCATCA 60.614 50.000 0.00 0.00 0.00 3.07
146 147 0.397535 AATTTCGCCAGCCCCATCAT 60.398 50.000 0.00 0.00 0.00 2.45
147 148 0.825010 ATTTCGCCAGCCCCATCATC 60.825 55.000 0.00 0.00 0.00 2.92
148 149 1.925285 TTTCGCCAGCCCCATCATCT 61.925 55.000 0.00 0.00 0.00 2.90
149 150 1.053835 TTCGCCAGCCCCATCATCTA 61.054 55.000 0.00 0.00 0.00 1.98
150 151 1.053835 TCGCCAGCCCCATCATCTAA 61.054 55.000 0.00 0.00 0.00 2.10
151 152 0.886490 CGCCAGCCCCATCATCTAAC 60.886 60.000 0.00 0.00 0.00 2.34
152 153 0.475906 GCCAGCCCCATCATCTAACT 59.524 55.000 0.00 0.00 0.00 2.24
153 154 1.816961 GCCAGCCCCATCATCTAACTG 60.817 57.143 0.00 0.00 0.00 3.16
154 155 1.770658 CCAGCCCCATCATCTAACTGA 59.229 52.381 0.00 0.00 0.00 3.41
155 156 2.173356 CCAGCCCCATCATCTAACTGAA 59.827 50.000 0.00 0.00 0.00 3.02
156 157 3.474600 CAGCCCCATCATCTAACTGAAG 58.525 50.000 0.00 0.00 0.00 3.02
157 158 3.135348 CAGCCCCATCATCTAACTGAAGA 59.865 47.826 0.00 0.00 0.00 2.87
158 159 3.979347 AGCCCCATCATCTAACTGAAGAT 59.021 43.478 0.00 0.00 36.64 2.40
159 160 4.414846 AGCCCCATCATCTAACTGAAGATT 59.585 41.667 0.00 0.00 33.87 2.40
160 161 5.608437 AGCCCCATCATCTAACTGAAGATTA 59.392 40.000 0.00 0.00 33.87 1.75
161 162 6.101734 AGCCCCATCATCTAACTGAAGATTAA 59.898 38.462 0.00 0.00 33.87 1.40
162 163 6.205658 GCCCCATCATCTAACTGAAGATTAAC 59.794 42.308 0.00 0.00 33.87 2.01
163 164 6.712547 CCCCATCATCTAACTGAAGATTAACC 59.287 42.308 0.00 0.00 33.87 2.85
164 165 7.282585 CCCATCATCTAACTGAAGATTAACCA 58.717 38.462 0.00 0.00 33.87 3.67
165 166 7.941238 CCCATCATCTAACTGAAGATTAACCAT 59.059 37.037 0.00 0.00 33.87 3.55
166 167 8.997323 CCATCATCTAACTGAAGATTAACCATC 58.003 37.037 0.00 0.00 33.87 3.51
167 168 8.706936 CATCATCTAACTGAAGATTAACCATCG 58.293 37.037 0.00 0.00 36.93 3.84
168 169 6.701841 TCATCTAACTGAAGATTAACCATCGC 59.298 38.462 0.00 0.00 36.93 4.58
169 170 5.972935 TCTAACTGAAGATTAACCATCGCA 58.027 37.500 0.00 0.00 36.93 5.10
170 171 6.042777 TCTAACTGAAGATTAACCATCGCAG 58.957 40.000 0.00 0.00 41.40 5.18
171 172 4.471904 ACTGAAGATTAACCATCGCAGA 57.528 40.909 11.98 0.00 39.60 4.26
172 173 4.184629 ACTGAAGATTAACCATCGCAGAC 58.815 43.478 11.98 0.00 42.51 3.51
173 174 4.183865 CTGAAGATTAACCATCGCAGACA 58.816 43.478 0.00 0.00 42.51 3.41
174 175 4.769688 TGAAGATTAACCATCGCAGACAT 58.230 39.130 0.00 0.00 42.51 3.06
175 176 5.912892 TGAAGATTAACCATCGCAGACATA 58.087 37.500 0.00 0.00 42.51 2.29
176 177 6.524734 TGAAGATTAACCATCGCAGACATAT 58.475 36.000 0.00 0.00 42.51 1.78
177 178 7.666623 TGAAGATTAACCATCGCAGACATATA 58.333 34.615 0.00 0.00 42.51 0.86
178 179 7.814587 TGAAGATTAACCATCGCAGACATATAG 59.185 37.037 0.00 0.00 42.51 1.31
179 180 6.102663 AGATTAACCATCGCAGACATATAGC 58.897 40.000 0.00 0.00 42.51 2.97
180 181 3.751479 AACCATCGCAGACATATAGCA 57.249 42.857 0.00 0.00 42.51 3.49
181 182 3.309961 ACCATCGCAGACATATAGCAG 57.690 47.619 0.00 0.00 42.51 4.24
182 183 1.998315 CCATCGCAGACATATAGCAGC 59.002 52.381 0.00 0.00 42.51 5.25
183 184 2.611224 CCATCGCAGACATATAGCAGCA 60.611 50.000 0.00 0.00 42.51 4.41
184 185 2.428888 TCGCAGACATATAGCAGCAG 57.571 50.000 0.00 0.00 0.00 4.24
185 186 0.788995 CGCAGACATATAGCAGCAGC 59.211 55.000 0.00 0.00 42.56 5.25
198 199 3.325230 GCAGCAGCTAAATTACGAAGG 57.675 47.619 0.00 0.00 37.91 3.46
199 200 2.032178 GCAGCAGCTAAATTACGAAGGG 59.968 50.000 0.00 0.00 37.91 3.95
200 201 3.270877 CAGCAGCTAAATTACGAAGGGT 58.729 45.455 0.00 0.00 0.00 4.34
320 323 1.118965 TCCTGACCTTGTCTGCGGAA 61.119 55.000 0.00 0.00 33.15 4.30
361 370 4.022849 GCCAGTGAGATTTGCAGTTTTACT 60.023 41.667 0.00 0.00 0.00 2.24
362 371 5.507985 GCCAGTGAGATTTGCAGTTTTACTT 60.508 40.000 0.00 0.00 0.00 2.24
363 372 5.916883 CCAGTGAGATTTGCAGTTTTACTTG 59.083 40.000 0.00 0.00 0.00 3.16
364 373 5.400485 CAGTGAGATTTGCAGTTTTACTTGC 59.600 40.000 0.00 0.00 0.00 4.01
365 374 5.067674 AGTGAGATTTGCAGTTTTACTTGCA 59.932 36.000 0.00 0.00 33.01 4.08
366 375 5.173854 GTGAGATTTGCAGTTTTACTTGCAC 59.826 40.000 0.00 0.00 34.01 4.57
367 376 4.290155 AGATTTGCAGTTTTACTTGCACG 58.710 39.130 0.00 0.00 34.01 5.34
368 377 3.766676 TTTGCAGTTTTACTTGCACGA 57.233 38.095 0.00 0.00 34.01 4.35
369 378 2.748461 TGCAGTTTTACTTGCACGAC 57.252 45.000 0.00 0.00 31.03 4.34
396 406 4.496840 GGGGAAAAGCGATGTATAAAACGG 60.497 45.833 0.00 0.00 0.00 4.44
640 666 2.011046 GCCTGCTGGTTTTGTTTTGCA 61.011 47.619 11.69 0.00 35.27 4.08
652 678 5.643379 TTTGTTTTGCACAAGAGAAGAGT 57.357 34.783 0.00 0.00 46.37 3.24
681 707 0.875059 CTCTCGTGGGCCACTTTTTC 59.125 55.000 32.28 7.32 31.34 2.29
713 742 4.215613 ACGGAGCTAAAGCCTAAAACAAAG 59.784 41.667 0.00 0.00 43.38 2.77
723 752 2.820197 CCTAAAACAAAGGCCACTCTCC 59.180 50.000 5.01 0.00 0.00 3.71
725 754 0.555769 AAACAAAGGCCACTCTCCCA 59.444 50.000 5.01 0.00 0.00 4.37
726 755 0.178990 AACAAAGGCCACTCTCCCAC 60.179 55.000 5.01 0.00 0.00 4.61
727 756 1.303643 CAAAGGCCACTCTCCCACC 60.304 63.158 5.01 0.00 0.00 4.61
770 839 1.101049 ACACGGTCAAAGGCCACAAG 61.101 55.000 5.01 0.00 0.00 3.16
772 841 1.898574 CGGTCAAAGGCCACAAGCT 60.899 57.895 5.01 0.00 43.05 3.74
773 842 0.605319 CGGTCAAAGGCCACAAGCTA 60.605 55.000 5.01 0.00 43.05 3.32
775 844 1.269723 GGTCAAAGGCCACAAGCTAAC 59.730 52.381 5.01 0.00 43.05 2.34
776 845 1.269723 GTCAAAGGCCACAAGCTAACC 59.730 52.381 5.01 0.00 43.05 2.85
777 846 0.603065 CAAAGGCCACAAGCTAACCC 59.397 55.000 5.01 0.00 43.05 4.11
778 847 0.482887 AAAGGCCACAAGCTAACCCT 59.517 50.000 5.01 0.00 43.05 4.34
779 848 1.368374 AAGGCCACAAGCTAACCCTA 58.632 50.000 5.01 0.00 43.05 3.53
780 849 0.912486 AGGCCACAAGCTAACCCTAG 59.088 55.000 5.01 0.00 43.05 3.02
972 1077 1.598130 GCAGATCCACCGCATACCC 60.598 63.158 0.00 0.00 0.00 3.69
991 1096 1.985116 AGGGGAAGCGGAGTCAGAC 60.985 63.158 0.00 0.00 0.00 3.51
1461 1575 1.067821 CGCAAGATCTCCACTACTCCC 59.932 57.143 0.00 0.00 43.02 4.30
1601 1715 3.702045 AGCAGGAGAGGTACTGATAACAC 59.298 47.826 0.00 0.00 41.55 3.32
2185 2299 2.341176 GTTACAGTCCCACCGCGT 59.659 61.111 4.92 0.00 0.00 6.01
2186 2300 2.025418 GTTACAGTCCCACCGCGTG 61.025 63.158 4.92 3.32 0.00 5.34
2187 2301 2.201708 TTACAGTCCCACCGCGTGA 61.202 57.895 4.92 0.00 35.23 4.35
2188 2302 1.746322 TTACAGTCCCACCGCGTGAA 61.746 55.000 4.92 0.00 35.23 3.18
2189 2303 1.746322 TACAGTCCCACCGCGTGAAA 61.746 55.000 4.92 0.00 35.23 2.69
2190 2304 1.890041 CAGTCCCACCGCGTGAAAA 60.890 57.895 4.92 0.00 35.23 2.29
2191 2305 1.890510 AGTCCCACCGCGTGAAAAC 60.891 57.895 4.92 0.00 35.23 2.43
2263 2377 6.543465 CCTTGTGGAATTTGCAGTGATATAGA 59.457 38.462 0.00 0.00 34.57 1.98
2324 2438 0.472044 TGTGTGCCCTTCTAGTTGCA 59.528 50.000 0.00 0.00 0.00 4.08
2375 2489 3.846588 AGGGATTTATCCTATGATGGCGT 59.153 43.478 8.58 0.00 46.35 5.68
2376 2490 4.289672 AGGGATTTATCCTATGATGGCGTT 59.710 41.667 8.58 0.00 46.35 4.84
2377 2491 5.010282 GGGATTTATCCTATGATGGCGTTT 58.990 41.667 8.58 0.00 46.35 3.60
2424 2538 4.578516 ACCTGACAACGAACATCAAATTCA 59.421 37.500 0.00 0.00 0.00 2.57
2466 2580 7.706281 AACTCATCTAAAGATATTCAGCACG 57.294 36.000 0.00 0.00 32.63 5.34
2474 2588 4.000331 AGATATTCAGCACGGAAGATGG 58.000 45.455 0.00 0.00 29.45 3.51
2479 2594 1.078759 CAGCACGGAAGATGGTCGAC 61.079 60.000 7.13 7.13 0.00 4.20
2489 2604 0.103208 GATGGTCGACTGTGCTAGGG 59.897 60.000 16.46 0.00 0.00 3.53
2491 2606 1.982938 GGTCGACTGTGCTAGGGGT 60.983 63.158 16.46 0.00 0.00 4.95
2572 2687 3.652274 AGGCATTTTGGAAACGTGAATG 58.348 40.909 0.00 0.00 32.78 2.67
2640 2756 3.026694 GCATTTCCCTAGCAAACTCCAT 58.973 45.455 0.00 0.00 0.00 3.41
2647 2763 5.332743 TCCCTAGCAAACTCCATCATTTTT 58.667 37.500 0.00 0.00 0.00 1.94
2811 2929 5.526846 TCGGGAAAGTTAAACGTTTGTATGT 59.473 36.000 23.46 5.96 0.00 2.29
2960 3081 2.888834 AACTTGGTCAAACATGCACC 57.111 45.000 0.00 0.00 0.00 5.01
3028 3150 6.429692 TGGTTGGAGTACATGTTGATAAGTTG 59.570 38.462 2.30 0.00 0.00 3.16
3086 3209 4.696479 CATCTAGATGTGCCCCTAAGTT 57.304 45.455 22.42 0.00 34.23 2.66
3096 3219 2.378547 TGCCCCTAAGTTTTGGACATCT 59.621 45.455 0.00 0.00 0.00 2.90
3129 3252 9.859427 TTTGTCATTGATTTTACATGGAGATTC 57.141 29.630 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 8.159447 TGTCTCAACTTTGTACTACCTCTAGTA 58.841 37.037 0.00 0.00 34.79 1.82
16 17 7.002879 TGTCTCAACTTTGTACTACCTCTAGT 58.997 38.462 0.00 0.00 37.04 2.57
17 18 7.175293 AGTGTCTCAACTTTGTACTACCTCTAG 59.825 40.741 0.00 0.00 0.00 2.43
18 19 7.002879 AGTGTCTCAACTTTGTACTACCTCTA 58.997 38.462 0.00 0.00 0.00 2.43
19 20 5.834204 AGTGTCTCAACTTTGTACTACCTCT 59.166 40.000 0.00 0.00 0.00 3.69
20 21 6.086785 AGTGTCTCAACTTTGTACTACCTC 57.913 41.667 0.00 0.00 0.00 3.85
21 22 6.481434 AAGTGTCTCAACTTTGTACTACCT 57.519 37.500 0.00 0.00 37.05 3.08
22 23 8.828688 AATAAGTGTCTCAACTTTGTACTACC 57.171 34.615 0.00 0.00 40.77 3.18
25 26 8.621286 CCAAAATAAGTGTCTCAACTTTGTACT 58.379 33.333 0.00 0.00 40.77 2.73
26 27 7.860872 CCCAAAATAAGTGTCTCAACTTTGTAC 59.139 37.037 0.00 0.00 40.77 2.90
27 28 7.776030 TCCCAAAATAAGTGTCTCAACTTTGTA 59.224 33.333 0.00 0.00 40.77 2.41
28 29 6.605594 TCCCAAAATAAGTGTCTCAACTTTGT 59.394 34.615 0.00 0.00 40.77 2.83
29 30 6.918022 GTCCCAAAATAAGTGTCTCAACTTTG 59.082 38.462 0.00 0.00 40.77 2.77
30 31 6.238648 CGTCCCAAAATAAGTGTCTCAACTTT 60.239 38.462 0.00 0.00 40.77 2.66
31 32 5.238650 CGTCCCAAAATAAGTGTCTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
32 33 4.755123 CGTCCCAAAATAAGTGTCTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
33 34 4.083484 CCGTCCCAAAATAAGTGTCTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
34 35 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
35 36 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
36 37 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
37 38 3.307480 CCTCCGTCCCAAAATAAGTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
38 39 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
39 40 2.290705 CCCTCCGTCCCAAAATAAGTGT 60.291 50.000 0.00 0.00 0.00 3.55
40 41 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
41 42 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
42 43 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
43 44 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
44 45 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
45 46 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
46 47 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
47 48 0.115745 AGTACTCCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
48 49 1.002069 TAGTACTCCCTCCGTCCCAA 58.998 55.000 0.00 0.00 0.00 4.12
49 50 0.257039 GTAGTACTCCCTCCGTCCCA 59.743 60.000 0.00 0.00 0.00 4.37
50 51 0.257039 TGTAGTACTCCCTCCGTCCC 59.743 60.000 0.00 0.00 0.00 4.46
51 52 1.064832 ACTGTAGTACTCCCTCCGTCC 60.065 57.143 0.00 0.00 0.00 4.79
52 53 2.416680 ACTGTAGTACTCCCTCCGTC 57.583 55.000 0.00 0.00 0.00 4.79
53 54 2.843113 ACTACTGTAGTACTCCCTCCGT 59.157 50.000 18.42 0.00 37.23 4.69
54 55 3.557228 ACTACTGTAGTACTCCCTCCG 57.443 52.381 18.42 0.00 37.23 4.63
63 64 6.885918 TGTATGCTGTTGGTACTACTGTAGTA 59.114 38.462 20.74 20.74 40.14 1.82
64 65 5.713389 TGTATGCTGTTGGTACTACTGTAGT 59.287 40.000 22.72 22.72 42.68 2.73
65 66 6.203808 TGTATGCTGTTGGTACTACTGTAG 57.796 41.667 13.13 13.13 0.00 2.74
66 67 5.126545 CCTGTATGCTGTTGGTACTACTGTA 59.873 44.000 0.00 0.00 0.00 2.74
67 68 4.081642 CCTGTATGCTGTTGGTACTACTGT 60.082 45.833 0.00 0.00 0.00 3.55
68 69 4.159693 TCCTGTATGCTGTTGGTACTACTG 59.840 45.833 0.00 0.00 0.00 2.74
69 70 4.350245 TCCTGTATGCTGTTGGTACTACT 58.650 43.478 0.00 0.00 0.00 2.57
70 71 4.730949 TCCTGTATGCTGTTGGTACTAC 57.269 45.455 0.00 0.00 0.00 2.73
71 72 6.780522 TCATATCCTGTATGCTGTTGGTACTA 59.219 38.462 0.00 0.00 0.00 1.82
72 73 5.602561 TCATATCCTGTATGCTGTTGGTACT 59.397 40.000 0.00 0.00 0.00 2.73
73 74 5.853936 TCATATCCTGTATGCTGTTGGTAC 58.146 41.667 0.00 0.00 0.00 3.34
74 75 6.126911 TGTTCATATCCTGTATGCTGTTGGTA 60.127 38.462 0.00 0.00 0.00 3.25
75 76 5.126067 GTTCATATCCTGTATGCTGTTGGT 58.874 41.667 0.00 0.00 0.00 3.67
76 77 5.125356 TGTTCATATCCTGTATGCTGTTGG 58.875 41.667 0.00 0.00 0.00 3.77
77 78 6.682423 TTGTTCATATCCTGTATGCTGTTG 57.318 37.500 0.00 0.00 0.00 3.33
78 79 7.701539 TTTTGTTCATATCCTGTATGCTGTT 57.298 32.000 0.00 0.00 0.00 3.16
79 80 7.701539 TTTTTGTTCATATCCTGTATGCTGT 57.298 32.000 0.00 0.00 0.00 4.40
103 104 3.444029 AGGCCCTGCATGATTACTTTTT 58.556 40.909 0.00 0.00 0.00 1.94
104 105 3.026694 GAGGCCCTGCATGATTACTTTT 58.973 45.455 0.00 0.00 0.00 2.27
105 106 2.025037 TGAGGCCCTGCATGATTACTTT 60.025 45.455 0.00 0.00 0.00 2.66
106 107 1.565759 TGAGGCCCTGCATGATTACTT 59.434 47.619 0.00 0.00 0.00 2.24
107 108 1.216064 TGAGGCCCTGCATGATTACT 58.784 50.000 0.00 0.00 0.00 2.24
108 109 2.057137 TTGAGGCCCTGCATGATTAC 57.943 50.000 0.00 0.00 0.00 1.89
109 110 2.824689 TTTGAGGCCCTGCATGATTA 57.175 45.000 0.00 0.00 0.00 1.75
110 111 2.170012 ATTTGAGGCCCTGCATGATT 57.830 45.000 0.00 0.00 0.00 2.57
111 112 2.170012 AATTTGAGGCCCTGCATGAT 57.830 45.000 0.00 0.00 0.00 2.45
112 113 1.826720 GAAATTTGAGGCCCTGCATGA 59.173 47.619 0.00 0.00 0.00 3.07
113 114 1.470285 CGAAATTTGAGGCCCTGCATG 60.470 52.381 0.00 0.00 0.00 4.06
114 115 0.819582 CGAAATTTGAGGCCCTGCAT 59.180 50.000 0.00 0.00 0.00 3.96
115 116 1.876497 GCGAAATTTGAGGCCCTGCA 61.876 55.000 0.00 0.00 0.00 4.41
116 117 1.153765 GCGAAATTTGAGGCCCTGC 60.154 57.895 0.00 0.00 0.00 4.85
117 118 1.250154 TGGCGAAATTTGAGGCCCTG 61.250 55.000 17.30 0.00 44.96 4.45
118 119 0.967380 CTGGCGAAATTTGAGGCCCT 60.967 55.000 17.30 0.00 44.96 5.19
119 120 1.512694 CTGGCGAAATTTGAGGCCC 59.487 57.895 17.30 0.00 44.96 5.80
120 121 1.153765 GCTGGCGAAATTTGAGGCC 60.154 57.895 14.53 14.53 45.76 5.19
121 122 1.153765 GGCTGGCGAAATTTGAGGC 60.154 57.895 0.00 2.52 0.00 4.70
122 123 1.512694 GGGCTGGCGAAATTTGAGG 59.487 57.895 0.00 0.00 0.00 3.86
123 124 1.250154 TGGGGCTGGCGAAATTTGAG 61.250 55.000 0.00 0.00 0.00 3.02
124 125 0.614415 ATGGGGCTGGCGAAATTTGA 60.614 50.000 0.00 0.00 0.00 2.69
125 126 0.179103 GATGGGGCTGGCGAAATTTG 60.179 55.000 0.00 0.00 0.00 2.32
126 127 0.614415 TGATGGGGCTGGCGAAATTT 60.614 50.000 0.00 0.00 0.00 1.82
127 128 0.397535 ATGATGGGGCTGGCGAAATT 60.398 50.000 0.00 0.00 0.00 1.82
128 129 0.825010 GATGATGGGGCTGGCGAAAT 60.825 55.000 0.00 0.00 0.00 2.17
129 130 1.453745 GATGATGGGGCTGGCGAAA 60.454 57.895 0.00 0.00 0.00 3.46
130 131 1.053835 TAGATGATGGGGCTGGCGAA 61.054 55.000 0.00 0.00 0.00 4.70
131 132 1.053835 TTAGATGATGGGGCTGGCGA 61.054 55.000 0.00 0.00 0.00 5.54
132 133 0.886490 GTTAGATGATGGGGCTGGCG 60.886 60.000 0.00 0.00 0.00 5.69
133 134 0.475906 AGTTAGATGATGGGGCTGGC 59.524 55.000 0.00 0.00 0.00 4.85
134 135 1.770658 TCAGTTAGATGATGGGGCTGG 59.229 52.381 0.00 0.00 0.00 4.85
135 136 3.135348 TCTTCAGTTAGATGATGGGGCTG 59.865 47.826 0.00 0.00 0.00 4.85
136 137 3.387962 TCTTCAGTTAGATGATGGGGCT 58.612 45.455 0.00 0.00 0.00 5.19
137 138 3.845781 TCTTCAGTTAGATGATGGGGC 57.154 47.619 0.00 0.00 0.00 5.80
138 139 6.712547 GGTTAATCTTCAGTTAGATGATGGGG 59.287 42.308 0.00 0.00 40.05 4.96
139 140 7.282585 TGGTTAATCTTCAGTTAGATGATGGG 58.717 38.462 0.00 0.00 40.05 4.00
140 141 8.915057 ATGGTTAATCTTCAGTTAGATGATGG 57.085 34.615 0.00 0.00 40.05 3.51
141 142 8.706936 CGATGGTTAATCTTCAGTTAGATGATG 58.293 37.037 2.87 0.00 40.05 3.07
142 143 7.386299 GCGATGGTTAATCTTCAGTTAGATGAT 59.614 37.037 2.87 0.00 41.43 2.45
143 144 6.701841 GCGATGGTTAATCTTCAGTTAGATGA 59.298 38.462 2.87 0.00 35.12 2.92
144 145 6.479990 TGCGATGGTTAATCTTCAGTTAGATG 59.520 38.462 2.87 0.00 35.12 2.90
145 146 6.582636 TGCGATGGTTAATCTTCAGTTAGAT 58.417 36.000 2.87 0.00 36.44 1.98
146 147 5.972935 TGCGATGGTTAATCTTCAGTTAGA 58.027 37.500 2.87 0.00 32.61 2.10
147 148 6.019479 GTCTGCGATGGTTAATCTTCAGTTAG 60.019 42.308 2.87 0.00 36.11 2.34
148 149 5.810587 GTCTGCGATGGTTAATCTTCAGTTA 59.189 40.000 2.87 0.00 36.11 2.24
149 150 4.631813 GTCTGCGATGGTTAATCTTCAGTT 59.368 41.667 2.87 0.00 36.11 3.16
150 151 4.184629 GTCTGCGATGGTTAATCTTCAGT 58.815 43.478 2.87 0.00 36.11 3.41
151 152 4.183865 TGTCTGCGATGGTTAATCTTCAG 58.816 43.478 2.87 0.00 36.05 3.02
152 153 4.200838 TGTCTGCGATGGTTAATCTTCA 57.799 40.909 2.87 0.00 32.61 3.02
153 154 7.201478 GCTATATGTCTGCGATGGTTAATCTTC 60.201 40.741 0.00 0.00 32.61 2.87
154 155 6.591834 GCTATATGTCTGCGATGGTTAATCTT 59.408 38.462 0.00 0.00 32.61 2.40
155 156 6.102663 GCTATATGTCTGCGATGGTTAATCT 58.897 40.000 0.00 0.00 32.61 2.40
156 157 5.869344 TGCTATATGTCTGCGATGGTTAATC 59.131 40.000 0.00 0.00 0.00 1.75
157 158 5.793817 TGCTATATGTCTGCGATGGTTAAT 58.206 37.500 0.00 0.00 0.00 1.40
158 159 5.208463 TGCTATATGTCTGCGATGGTTAA 57.792 39.130 0.00 0.00 0.00 2.01
159 160 4.809673 CTGCTATATGTCTGCGATGGTTA 58.190 43.478 0.00 0.00 0.00 2.85
160 161 3.657634 CTGCTATATGTCTGCGATGGTT 58.342 45.455 0.00 0.00 0.00 3.67
161 162 2.611473 GCTGCTATATGTCTGCGATGGT 60.611 50.000 0.00 0.00 0.00 3.55
162 163 1.998315 GCTGCTATATGTCTGCGATGG 59.002 52.381 0.00 0.00 0.00 3.51
163 164 2.666994 CTGCTGCTATATGTCTGCGATG 59.333 50.000 0.00 0.00 0.00 3.84
164 165 2.930023 GCTGCTGCTATATGTCTGCGAT 60.930 50.000 8.53 0.00 36.03 4.58
165 166 1.603931 GCTGCTGCTATATGTCTGCGA 60.604 52.381 8.53 0.00 36.03 5.10
166 167 0.788995 GCTGCTGCTATATGTCTGCG 59.211 55.000 8.53 0.00 36.03 5.18
178 179 2.032178 CCCTTCGTAATTTAGCTGCTGC 59.968 50.000 13.43 7.62 40.05 5.25
179 180 3.063997 CACCCTTCGTAATTTAGCTGCTG 59.936 47.826 13.43 0.00 0.00 4.41
180 181 3.270877 CACCCTTCGTAATTTAGCTGCT 58.729 45.455 7.57 7.57 0.00 4.24
181 182 2.354821 CCACCCTTCGTAATTTAGCTGC 59.645 50.000 0.00 0.00 0.00 5.25
182 183 2.354821 GCCACCCTTCGTAATTTAGCTG 59.645 50.000 0.00 0.00 0.00 4.24
183 184 2.026636 TGCCACCCTTCGTAATTTAGCT 60.027 45.455 0.00 0.00 0.00 3.32
184 185 2.354821 CTGCCACCCTTCGTAATTTAGC 59.645 50.000 0.00 0.00 0.00 3.09
185 186 2.354821 GCTGCCACCCTTCGTAATTTAG 59.645 50.000 0.00 0.00 0.00 1.85
186 187 2.026636 AGCTGCCACCCTTCGTAATTTA 60.027 45.455 0.00 0.00 0.00 1.40
187 188 1.173913 GCTGCCACCCTTCGTAATTT 58.826 50.000 0.00 0.00 0.00 1.82
188 189 0.328258 AGCTGCCACCCTTCGTAATT 59.672 50.000 0.00 0.00 0.00 1.40
189 190 0.107654 GAGCTGCCACCCTTCGTAAT 60.108 55.000 0.00 0.00 0.00 1.89
190 191 1.295423 GAGCTGCCACCCTTCGTAA 59.705 57.895 0.00 0.00 0.00 3.18
191 192 2.978824 GAGCTGCCACCCTTCGTA 59.021 61.111 0.00 0.00 0.00 3.43
192 193 4.379243 CGAGCTGCCACCCTTCGT 62.379 66.667 0.00 0.00 0.00 3.85
361 370 0.181587 TTTTCCCCTCTGTCGTGCAA 59.818 50.000 0.00 0.00 0.00 4.08
362 371 0.250295 CTTTTCCCCTCTGTCGTGCA 60.250 55.000 0.00 0.00 0.00 4.57
363 372 1.578206 GCTTTTCCCCTCTGTCGTGC 61.578 60.000 0.00 0.00 0.00 5.34
364 373 1.291877 CGCTTTTCCCCTCTGTCGTG 61.292 60.000 0.00 0.00 0.00 4.35
365 374 1.004918 CGCTTTTCCCCTCTGTCGT 60.005 57.895 0.00 0.00 0.00 4.34
366 375 0.108138 ATCGCTTTTCCCCTCTGTCG 60.108 55.000 0.00 0.00 0.00 4.35
367 376 1.339151 ACATCGCTTTTCCCCTCTGTC 60.339 52.381 0.00 0.00 0.00 3.51
368 377 0.693049 ACATCGCTTTTCCCCTCTGT 59.307 50.000 0.00 0.00 0.00 3.41
369 378 2.691409 TACATCGCTTTTCCCCTCTG 57.309 50.000 0.00 0.00 0.00 3.35
411 421 0.827507 GCTAGCTCCTCCCTCTCTGG 60.828 65.000 7.70 0.00 0.00 3.86
412 422 0.185901 AGCTAGCTCCTCCCTCTCTG 59.814 60.000 12.68 0.00 0.00 3.35
640 666 2.952310 GCCCAACAAACTCTTCTCTTGT 59.048 45.455 0.00 0.00 34.81 3.16
652 678 1.228124 CCACGAGAGGCCCAACAAA 60.228 57.895 0.00 0.00 0.00 2.83
687 713 2.667473 TTAGGCTTTAGCTCCGTGTC 57.333 50.000 0.00 0.00 41.70 3.67
713 742 1.077429 GATTGGTGGGAGAGTGGCC 60.077 63.158 0.00 0.00 0.00 5.36
715 744 1.609783 GGGATTGGTGGGAGAGTGG 59.390 63.158 0.00 0.00 0.00 4.00
717 746 0.621862 GAGGGGATTGGTGGGAGAGT 60.622 60.000 0.00 0.00 0.00 3.24
721 750 1.993391 GACGAGGGGATTGGTGGGA 60.993 63.158 0.00 0.00 0.00 4.37
722 751 2.297895 TGACGAGGGGATTGGTGGG 61.298 63.158 0.00 0.00 0.00 4.61
723 752 1.078426 GTGACGAGGGGATTGGTGG 60.078 63.158 0.00 0.00 0.00 4.61
725 754 1.537889 TGGTGACGAGGGGATTGGT 60.538 57.895 0.00 0.00 0.00 3.67
726 755 1.078426 GTGGTGACGAGGGGATTGG 60.078 63.158 0.00 0.00 0.00 3.16
727 756 0.108138 GAGTGGTGACGAGGGGATTG 60.108 60.000 0.00 0.00 0.00 2.67
824 917 1.719063 TTGATGCAGGGGATAGGGGC 61.719 60.000 0.00 0.00 0.00 5.80
826 919 0.250467 CGTTGATGCAGGGGATAGGG 60.250 60.000 0.00 0.00 0.00 3.53
829 922 1.148273 GGCGTTGATGCAGGGGATA 59.852 57.895 0.00 0.00 36.28 2.59
830 923 2.124151 GGCGTTGATGCAGGGGAT 60.124 61.111 0.00 0.00 36.28 3.85
831 924 3.329889 AGGCGTTGATGCAGGGGA 61.330 61.111 0.00 0.00 36.28 4.81
972 1077 1.984570 TCTGACTCCGCTTCCCCTG 60.985 63.158 0.00 0.00 0.00 4.45
991 1096 0.392998 CCTCGACCCATCACCAAAGG 60.393 60.000 0.00 0.00 0.00 3.11
1461 1575 0.399075 AAGGGTTGGGACTTACCACG 59.601 55.000 0.00 0.00 41.03 4.94
1743 1857 3.200593 CCACTCGCAGGCTGATGC 61.201 66.667 20.86 2.27 42.95 3.91
2185 2299 4.588106 TCCATGCATCCTTTTCAGTTTTCA 59.412 37.500 0.00 0.00 0.00 2.69
2186 2300 5.138125 TCCATGCATCCTTTTCAGTTTTC 57.862 39.130 0.00 0.00 0.00 2.29
2187 2301 5.511888 CCTTCCATGCATCCTTTTCAGTTTT 60.512 40.000 0.00 0.00 0.00 2.43
2188 2302 4.020839 CCTTCCATGCATCCTTTTCAGTTT 60.021 41.667 0.00 0.00 0.00 2.66
2189 2303 3.512724 CCTTCCATGCATCCTTTTCAGTT 59.487 43.478 0.00 0.00 0.00 3.16
2190 2304 3.094572 CCTTCCATGCATCCTTTTCAGT 58.905 45.455 0.00 0.00 0.00 3.41
2191 2305 3.094572 ACCTTCCATGCATCCTTTTCAG 58.905 45.455 0.00 0.00 0.00 3.02
2263 2377 7.769044 CACAACTAGTACATTAACCAGGCTAAT 59.231 37.037 0.00 0.00 0.00 1.73
2443 2557 6.040955 TCCGTGCTGAATATCTTTAGATGAGT 59.959 38.462 2.51 0.00 36.05 3.41
2444 2558 6.450545 TCCGTGCTGAATATCTTTAGATGAG 58.549 40.000 2.51 0.00 36.05 2.90
2454 2568 3.733337 ACCATCTTCCGTGCTGAATATC 58.267 45.455 0.00 0.00 0.00 1.63
2466 2580 0.247736 AGCACAGTCGACCATCTTCC 59.752 55.000 13.01 0.00 0.00 3.46
2474 2588 1.215647 CACCCCTAGCACAGTCGAC 59.784 63.158 7.70 7.70 0.00 4.20
2479 2594 2.086869 CATTTGTCACCCCTAGCACAG 58.913 52.381 0.00 0.00 0.00 3.66
2489 2604 5.010012 ACCTTCTTGAATGTCATTTGTCACC 59.990 40.000 0.00 0.00 0.00 4.02
2491 2606 6.064060 AGACCTTCTTGAATGTCATTTGTCA 58.936 36.000 16.78 0.00 0.00 3.58
2584 2700 4.012374 TGAAATGACAATCAAGGAGCTCC 58.988 43.478 26.22 26.22 0.00 4.70
2622 2738 4.591321 ATGATGGAGTTTGCTAGGGAAA 57.409 40.909 0.00 0.00 0.00 3.13
2695 2811 6.045931 TGAGCCCAAATAGATCAAATCCCTAT 59.954 38.462 0.00 0.00 0.00 2.57
2696 2812 5.372363 TGAGCCCAAATAGATCAAATCCCTA 59.628 40.000 0.00 0.00 0.00 3.53
2697 2813 4.168675 TGAGCCCAAATAGATCAAATCCCT 59.831 41.667 0.00 0.00 0.00 4.20
2698 2814 4.473444 TGAGCCCAAATAGATCAAATCCC 58.527 43.478 0.00 0.00 0.00 3.85
2701 2817 7.614583 CCATAGATGAGCCCAAATAGATCAAAT 59.385 37.037 0.00 0.00 0.00 2.32
2702 2818 6.944290 CCATAGATGAGCCCAAATAGATCAAA 59.056 38.462 0.00 0.00 0.00 2.69
2768 2886 8.972458 TTCCCGAAAATTCACATCATATTCTA 57.028 30.769 0.00 0.00 0.00 2.10
3104 3227 9.022884 TGAATCTCCATGTAAAATCAATGACAA 57.977 29.630 0.00 0.00 0.00 3.18
3121 3244 8.408043 AAAACAAATACTCACATGAATCTCCA 57.592 30.769 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.