Multiple sequence alignment - TraesCS4B01G268900

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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 TraesCS4B01G268900 chr4B 100.000 3305 0 0 1 3305 544030468 544027164 0.000000e+00 6104.0
1 TraesCS4B01G268900 chr4D 95.074 1888 59 15 728 2613 439681953 439680098 0.000000e+00 2940.0
2 TraesCS4B01G268900 chr4D 88.013 634 61 11 1 625 439682572 439681945 0.000000e+00 736.0
3 TraesCS4B01G268900 chr4A 94.590 1904 80 13 728 2613 29014228 29012330 0.000000e+00 2924.0
4 TraesCS4B01G268900 chr4A 94.231 52 3 0 264 315 29014924 29014873 2.730000e-11 80.5
5 TraesCS4B01G268900 chr7A 95.286 700 3 2 2606 3305 538797603 538798272 0.000000e+00 1083.0
6 TraesCS4B01G268900 chr3B 86.291 693 66 9 2614 3289 775564580 775565260 0.000000e+00 726.0
7 TraesCS4B01G268900 chr3B 100.000 28 0 0 3278 3305 775565111 775565138 6.000000e-03 52.8
8 TraesCS4B01G268900 chr6B 82.719 434 52 14 2614 3040 636380572 636380155 6.740000e-97 364.0
9 TraesCS4B01G268900 chr6B 92.500 40 3 0 3266 3305 636380113 636380074 1.280000e-04 58.4
10 TraesCS4B01G268900 chr2D 84.514 381 25 13 2945 3305 586288144 586288510 2.440000e-91 346.0
11 TraesCS4B01G268900 chr2D 88.889 234 21 4 2732 2961 586286698 586286930 1.940000e-72 283.0
12 TraesCS4B01G268900 chr2D 96.970 33 1 0 3273 3305 586288321 586288353 4.610000e-04 56.5
13 TraesCS4B01G268900 chr2B 74.012 481 73 33 2614 3071 180560258 180560709 7.390000e-32 148.0
14 TraesCS4B01G268900 chr5D 83.448 145 17 6 3133 3273 466901506 466901365 9.630000e-26 128.0
15 TraesCS4B01G268900 chr5D 81.529 157 22 6 3121 3273 553781972 553782125 4.480000e-24 122.0
16 TraesCS4B01G268900 chr7D 82.759 145 18 6 3133 3273 116313665 116313806 4.480000e-24 122.0
17 TraesCS4B01G268900 chr7D 82.759 145 18 6 3133 3273 287250418 287250559 4.480000e-24 122.0
18 TraesCS4B01G268900 chr6D 82.759 145 18 6 3133 3273 54876221 54876080 4.480000e-24 122.0
19 TraesCS4B01G268900 chr6D 91.860 86 6 1 3121 3206 15574294 15574210 5.790000e-23 119.0
20 TraesCS4B01G268900 chr6D 96.970 33 1 0 3273 3305 15574372 15574340 4.610000e-04 56.5
21 TraesCS4B01G268900 chr1D 82.759 145 18 6 3133 3273 421364367 421364226 4.480000e-24 122.0
22 TraesCS4B01G268900 chr1A 83.621 116 18 1 2609 2724 498426043 498425929 1.250000e-19 108.0
23 TraesCS4B01G268900 chr6A 94.118 34 2 0 3272 3305 88089717 88089750 6.000000e-03 52.8


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 TraesCS4B01G268900 chr4B 544027164 544030468 3304 True 6104.00 6104 100.000000 1 3305 1 chr4B.!!$R1 3304
1 TraesCS4B01G268900 chr4D 439680098 439682572 2474 True 1838.00 2940 91.543500 1 2613 2 chr4D.!!$R1 2612
2 TraesCS4B01G268900 chr4A 29012330 29014924 2594 True 1502.25 2924 94.410500 264 2613 2 chr4A.!!$R1 2349
3 TraesCS4B01G268900 chr7A 538797603 538798272 669 False 1083.00 1083 95.286000 2606 3305 1 chr7A.!!$F1 699
4 TraesCS4B01G268900 chr3B 775564580 775565260 680 False 389.40 726 93.145500 2614 3305 2 chr3B.!!$F1 691
5 TraesCS4B01G268900 chr2D 586286698 586288510 1812 False 228.50 346 90.124333 2732 3305 3 chr2D.!!$F1 573

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
151 153 0.179009 CTGCGGTCCCCATGATGATT 60.179 55.000 0.0 0.0 0.0 2.57 F
642 913 0.257039 ATGATGCTCCAGTCCAACCC 59.743 55.000 0.0 0.0 0.0 4.11 F
1302 1643 0.330604 ATGTGGGTTGATCTGCTGCT 59.669 50.000 0.0 0.0 0.0 4.24 F
1909 2250 1.522580 GAGAAGATGCCGCTCACCC 60.523 63.158 0.0 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1258 1599 1.133761 TCTCCATCGAGGACGGATTCT 60.134 52.381 0.00 0.0 43.07 2.40 R
2082 2423 1.324740 CGTCGGAGGACATGGGGTTA 61.325 60.000 0.00 0.0 43.61 2.85 R
2246 2587 2.510918 GGGGCTTCTCGGCGTTAC 60.511 66.667 6.85 0.0 39.52 2.50 R
2716 3058 5.219633 CGGGACAAATAGGAACAAACAAAG 58.780 41.667 0.00 0.0 0.00 2.77 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
41 43 3.477504 CAACAGACCCATTGTTGCG 57.522 52.632 5.32 0.00 45.97 4.85
46 48 1.399440 CAGACCCATTGTTGCGATGAG 59.601 52.381 0.00 0.00 0.00 2.90
69 71 2.421424 GAGATTGCAAGAACGAGCCAAT 59.579 45.455 4.94 0.00 0.00 3.16
70 72 3.609853 AGATTGCAAGAACGAGCCAATA 58.390 40.909 4.94 0.00 0.00 1.90
89 91 5.942872 CAATAGCAAAAACTAGTGGAGGTG 58.057 41.667 0.00 0.00 35.20 4.00
90 92 2.863809 AGCAAAAACTAGTGGAGGTGG 58.136 47.619 0.00 0.00 0.00 4.61
91 93 2.441750 AGCAAAAACTAGTGGAGGTGGA 59.558 45.455 0.00 0.00 0.00 4.02
92 94 2.552743 GCAAAAACTAGTGGAGGTGGAC 59.447 50.000 0.00 0.00 0.00 4.02
93 95 3.815809 CAAAAACTAGTGGAGGTGGACA 58.184 45.455 0.00 0.00 0.00 4.02
94 96 4.398319 CAAAAACTAGTGGAGGTGGACAT 58.602 43.478 0.00 0.00 0.00 3.06
95 97 3.703001 AAACTAGTGGAGGTGGACATG 57.297 47.619 0.00 0.00 0.00 3.21
96 98 1.573108 ACTAGTGGAGGTGGACATGG 58.427 55.000 0.00 0.00 0.00 3.66
97 99 0.833287 CTAGTGGAGGTGGACATGGG 59.167 60.000 0.00 0.00 0.00 4.00
98 100 1.271840 TAGTGGAGGTGGACATGGGC 61.272 60.000 0.00 0.00 0.00 5.36
99 101 2.531428 TGGAGGTGGACATGGGCA 60.531 61.111 0.00 0.00 0.00 5.36
100 102 2.044946 GGAGGTGGACATGGGCAC 60.045 66.667 0.00 0.00 0.00 5.01
101 103 2.436646 GAGGTGGACATGGGCACG 60.437 66.667 0.00 0.00 0.00 5.34
102 104 3.249189 AGGTGGACATGGGCACGT 61.249 61.111 0.00 0.00 0.00 4.49
103 105 3.055719 GGTGGACATGGGCACGTG 61.056 66.667 12.28 12.28 39.55 4.49
104 106 3.055719 GTGGACATGGGCACGTGG 61.056 66.667 18.88 2.06 37.94 4.94
114 116 2.743538 GCACGTGGCATGCAGAGA 60.744 61.111 21.36 0.00 42.88 3.10
115 117 2.327343 GCACGTGGCATGCAGAGAA 61.327 57.895 21.36 0.00 42.88 2.87
116 118 1.792301 CACGTGGCATGCAGAGAAG 59.208 57.895 21.36 6.65 0.00 2.85
117 119 1.376424 ACGTGGCATGCAGAGAAGG 60.376 57.895 21.36 7.29 0.00 3.46
118 120 2.758089 CGTGGCATGCAGAGAAGGC 61.758 63.158 21.36 0.00 0.00 4.35
119 121 2.437180 TGGCATGCAGAGAAGGCG 60.437 61.111 21.36 0.00 0.00 5.52
120 122 2.437359 GGCATGCAGAGAAGGCGT 60.437 61.111 21.36 0.00 0.00 5.68
121 123 2.467826 GGCATGCAGAGAAGGCGTC 61.468 63.158 21.36 0.00 0.00 5.19
122 124 2.806856 GCATGCAGAGAAGGCGTCG 61.807 63.158 14.21 0.00 0.00 5.12
123 125 2.169789 CATGCAGAGAAGGCGTCGG 61.170 63.158 0.00 0.00 0.00 4.79
124 126 2.351244 ATGCAGAGAAGGCGTCGGA 61.351 57.895 0.00 0.00 0.00 4.55
125 127 1.680522 ATGCAGAGAAGGCGTCGGAT 61.681 55.000 0.00 0.00 0.00 4.18
126 128 1.880340 GCAGAGAAGGCGTCGGATG 60.880 63.158 0.00 0.00 0.00 3.51
127 129 1.513158 CAGAGAAGGCGTCGGATGT 59.487 57.895 0.00 0.00 0.00 3.06
128 130 0.803768 CAGAGAAGGCGTCGGATGTG 60.804 60.000 0.00 0.00 0.00 3.21
129 131 1.519455 GAGAAGGCGTCGGATGTGG 60.519 63.158 0.00 0.00 0.00 4.17
130 132 1.945354 GAGAAGGCGTCGGATGTGGA 61.945 60.000 0.00 0.00 0.00 4.02
131 133 1.144057 GAAGGCGTCGGATGTGGAT 59.856 57.895 0.00 0.00 0.00 3.41
132 134 0.876342 GAAGGCGTCGGATGTGGATC 60.876 60.000 0.00 0.00 0.00 3.36
133 135 1.330655 AAGGCGTCGGATGTGGATCT 61.331 55.000 0.00 0.00 0.00 2.75
134 136 1.592669 GGCGTCGGATGTGGATCTG 60.593 63.158 0.00 0.00 36.41 2.90
135 137 2.240500 GCGTCGGATGTGGATCTGC 61.241 63.158 0.00 0.00 35.21 4.26
136 138 1.946156 CGTCGGATGTGGATCTGCG 60.946 63.158 0.00 0.00 35.21 5.18
137 139 1.592669 GTCGGATGTGGATCTGCGG 60.593 63.158 0.00 0.00 35.21 5.69
138 140 2.058001 TCGGATGTGGATCTGCGGT 61.058 57.895 0.00 0.00 35.21 5.68
139 141 1.592669 CGGATGTGGATCTGCGGTC 60.593 63.158 0.00 0.00 0.00 4.79
140 142 1.227674 GGATGTGGATCTGCGGTCC 60.228 63.158 7.09 7.09 36.26 4.46
141 143 1.227674 GATGTGGATCTGCGGTCCC 60.228 63.158 10.50 5.59 34.76 4.46
142 144 2.666596 GATGTGGATCTGCGGTCCCC 62.667 65.000 10.50 3.43 34.76 4.81
143 145 3.399181 GTGGATCTGCGGTCCCCA 61.399 66.667 10.50 5.68 34.76 4.96
144 146 2.366837 TGGATCTGCGGTCCCCAT 60.367 61.111 10.50 0.00 34.76 4.00
145 147 2.111878 GGATCTGCGGTCCCCATG 59.888 66.667 0.00 0.00 0.00 3.66
146 148 2.443394 GGATCTGCGGTCCCCATGA 61.443 63.158 0.00 0.00 0.00 3.07
147 149 1.757306 GATCTGCGGTCCCCATGAT 59.243 57.895 0.00 0.00 0.00 2.45
148 150 0.604780 GATCTGCGGTCCCCATGATG 60.605 60.000 0.00 0.00 0.00 3.07
149 151 1.056125 ATCTGCGGTCCCCATGATGA 61.056 55.000 0.00 0.00 0.00 2.92
150 152 1.056125 TCTGCGGTCCCCATGATGAT 61.056 55.000 0.00 0.00 0.00 2.45
151 153 0.179009 CTGCGGTCCCCATGATGATT 60.179 55.000 0.00 0.00 0.00 2.57
152 154 0.258484 TGCGGTCCCCATGATGATTT 59.742 50.000 0.00 0.00 0.00 2.17
153 155 1.492599 TGCGGTCCCCATGATGATTTA 59.507 47.619 0.00 0.00 0.00 1.40
154 156 2.092158 TGCGGTCCCCATGATGATTTAA 60.092 45.455 0.00 0.00 0.00 1.52
155 157 2.955660 GCGGTCCCCATGATGATTTAAA 59.044 45.455 0.00 0.00 0.00 1.52
156 158 3.004734 GCGGTCCCCATGATGATTTAAAG 59.995 47.826 0.00 0.00 0.00 1.85
157 159 3.004734 CGGTCCCCATGATGATTTAAAGC 59.995 47.826 0.00 0.00 0.00 3.51
158 160 3.960102 GGTCCCCATGATGATTTAAAGCA 59.040 43.478 8.84 8.84 0.00 3.91
159 161 4.590222 GGTCCCCATGATGATTTAAAGCAT 59.410 41.667 18.38 18.38 37.81 3.79
160 162 5.070847 GGTCCCCATGATGATTTAAAGCATT 59.929 40.000 19.23 2.74 34.76 3.56
161 163 6.408434 GGTCCCCATGATGATTTAAAGCATTT 60.408 38.462 19.23 8.40 43.42 2.32
162 164 7.049754 GTCCCCATGATGATTTAAAGCATTTT 58.950 34.615 19.23 8.07 40.09 1.82
163 165 7.553760 GTCCCCATGATGATTTAAAGCATTTTT 59.446 33.333 19.23 5.80 40.09 1.94
164 166 7.553402 TCCCCATGATGATTTAAAGCATTTTTG 59.447 33.333 19.23 15.56 40.09 2.44
165 167 7.337436 CCCCATGATGATTTAAAGCATTTTTGT 59.663 33.333 19.23 0.00 40.09 2.83
166 168 8.732531 CCCATGATGATTTAAAGCATTTTTGTT 58.267 29.630 19.23 0.00 40.09 2.83
197 199 7.524717 TTTCACCTTTTTCTATTTCTCTGGG 57.475 36.000 0.00 0.00 0.00 4.45
198 200 6.200878 TCACCTTTTTCTATTTCTCTGGGT 57.799 37.500 0.00 0.00 0.00 4.51
199 201 6.610830 TCACCTTTTTCTATTTCTCTGGGTT 58.389 36.000 0.00 0.00 0.00 4.11
200 202 7.066781 TCACCTTTTTCTATTTCTCTGGGTTT 58.933 34.615 0.00 0.00 0.00 3.27
201 203 7.563556 TCACCTTTTTCTATTTCTCTGGGTTTT 59.436 33.333 0.00 0.00 0.00 2.43
202 204 8.856103 CACCTTTTTCTATTTCTCTGGGTTTTA 58.144 33.333 0.00 0.00 0.00 1.52
203 205 9.601810 ACCTTTTTCTATTTCTCTGGGTTTTAT 57.398 29.630 0.00 0.00 0.00 1.40
208 210 9.581289 TTTCTATTTCTCTGGGTTTTATTGTGA 57.419 29.630 0.00 0.00 0.00 3.58
209 211 9.581289 TTCTATTTCTCTGGGTTTTATTGTGAA 57.419 29.630 0.00 0.00 0.00 3.18
210 212 9.581289 TCTATTTCTCTGGGTTTTATTGTGAAA 57.419 29.630 0.00 0.00 0.00 2.69
215 217 9.974980 TTCTCTGGGTTTTATTGTGAAATTAAC 57.025 29.630 0.00 0.00 0.00 2.01
216 218 9.362151 TCTCTGGGTTTTATTGTGAAATTAACT 57.638 29.630 0.00 0.00 0.00 2.24
246 248 8.924511 AGTTTAGAGATGGATGAAACTTTTGA 57.075 30.769 0.00 0.00 37.09 2.69
247 249 9.354673 AGTTTAGAGATGGATGAAACTTTTGAA 57.645 29.630 0.00 0.00 37.09 2.69
250 252 7.401955 AGAGATGGATGAAACTTTTGAATCC 57.598 36.000 6.24 6.24 37.83 3.01
254 256 6.729690 TGGATGAAACTTTTGAATCCAGTT 57.270 33.333 9.96 0.00 41.39 3.16
255 257 7.831691 TGGATGAAACTTTTGAATCCAGTTA 57.168 32.000 9.96 0.00 41.39 2.24
256 258 8.421249 TGGATGAAACTTTTGAATCCAGTTAT 57.579 30.769 9.96 0.00 41.39 1.89
257 259 9.527157 TGGATGAAACTTTTGAATCCAGTTATA 57.473 29.630 9.96 0.00 41.39 0.98
258 260 9.788960 GGATGAAACTTTTGAATCCAGTTATAC 57.211 33.333 7.64 0.00 37.37 1.47
261 263 9.567776 TGAAACTTTTGAATCCAGTTATACAGA 57.432 29.630 0.00 0.00 30.37 3.41
516 787 1.081094 AAACCGGTTCCGCGATAAAG 58.919 50.000 22.53 0.00 0.00 1.85
526 797 1.852895 CCGCGATAAAGTCCTTTCTCG 59.147 52.381 8.23 17.91 45.67 4.04
545 816 1.812571 CGTGTATTCCCTTGCTGCTTT 59.187 47.619 0.00 0.00 0.00 3.51
552 823 4.953940 TTCCCTTGCTGCTTTATTTTGT 57.046 36.364 0.00 0.00 0.00 2.83
566 837 8.510505 TGCTTTATTTTGTGCCAATAAAATTCC 58.489 29.630 6.32 0.00 37.94 3.01
575 846 6.183361 TGTGCCAATAAAATTCCTCCTTTGTT 60.183 34.615 0.00 0.00 0.00 2.83
576 847 6.368791 GTGCCAATAAAATTCCTCCTTTGTTC 59.631 38.462 0.00 0.00 0.00 3.18
591 862 6.516718 TCCTTTGTTCGGAAAAATAATTGCA 58.483 32.000 0.00 0.00 0.00 4.08
597 868 3.380142 CGGAAAAATAATTGCATCCGGG 58.620 45.455 12.23 0.00 44.47 5.73
598 869 3.727726 GGAAAAATAATTGCATCCGGGG 58.272 45.455 0.00 0.00 0.00 5.73
618 889 6.208007 CCGGGGTACTACTTTTTCAAGATTTT 59.792 38.462 0.00 0.00 33.72 1.82
619 890 7.391275 CCGGGGTACTACTTTTTCAAGATTTTA 59.609 37.037 0.00 0.00 33.72 1.52
620 891 8.953313 CGGGGTACTACTTTTTCAAGATTTTAT 58.047 33.333 0.00 0.00 33.72 1.40
635 906 9.412460 TCAAGATTTTATTTATGATGCTCCAGT 57.588 29.630 0.00 0.00 0.00 4.00
636 907 9.674824 CAAGATTTTATTTATGATGCTCCAGTC 57.325 33.333 0.00 0.00 0.00 3.51
637 908 8.401490 AGATTTTATTTATGATGCTCCAGTCC 57.599 34.615 0.00 0.00 0.00 3.85
638 909 8.000709 AGATTTTATTTATGATGCTCCAGTCCA 58.999 33.333 0.00 0.00 0.00 4.02
639 910 7.953005 TTTTATTTATGATGCTCCAGTCCAA 57.047 32.000 0.00 0.00 0.00 3.53
640 911 6.942532 TTATTTATGATGCTCCAGTCCAAC 57.057 37.500 0.00 0.00 0.00 3.77
642 913 0.257039 ATGATGCTCCAGTCCAACCC 59.743 55.000 0.00 0.00 0.00 4.11
643 914 1.077429 GATGCTCCAGTCCAACCCC 60.077 63.158 0.00 0.00 0.00 4.95
644 915 1.542375 ATGCTCCAGTCCAACCCCT 60.542 57.895 0.00 0.00 0.00 4.79
645 916 1.856539 ATGCTCCAGTCCAACCCCTG 61.857 60.000 0.00 0.00 0.00 4.45
648 919 2.282462 CCAGTCCAACCCCTGTGC 60.282 66.667 0.00 0.00 0.00 4.57
649 920 2.515398 CAGTCCAACCCCTGTGCA 59.485 61.111 0.00 0.00 0.00 4.57
650 921 1.152777 CAGTCCAACCCCTGTGCAA 60.153 57.895 0.00 0.00 0.00 4.08
651 922 1.152756 AGTCCAACCCCTGTGCAAC 60.153 57.895 0.00 0.00 37.35 4.17
664 935 3.039452 TGCAACAGCACATCATGGT 57.961 47.368 0.00 0.00 40.62 3.55
665 936 1.330234 TGCAACAGCACATCATGGTT 58.670 45.000 0.00 0.00 36.72 3.67
666 937 2.512705 TGCAACAGCACATCATGGTTA 58.487 42.857 0.00 0.00 36.72 2.85
667 938 2.488937 TGCAACAGCACATCATGGTTAG 59.511 45.455 0.00 0.00 36.72 2.34
673 944 2.174210 AGCACATCATGGTTAGGATGCT 59.826 45.455 0.00 0.00 46.24 3.79
675 946 3.004106 GCACATCATGGTTAGGATGCTTC 59.996 47.826 0.00 0.00 46.24 3.86
676 947 3.567164 CACATCATGGTTAGGATGCTTCC 59.433 47.826 10.66 10.66 46.24 3.46
687 958 1.821136 GGATGCTTCCTCCAAAAGTGG 59.179 52.381 11.34 0.00 39.14 4.00
688 959 1.821136 GATGCTTCCTCCAAAAGTGGG 59.179 52.381 0.00 0.00 46.01 4.61
689 960 0.555769 TGCTTCCTCCAAAAGTGGGT 59.444 50.000 0.00 0.00 46.01 4.51
690 961 1.248486 GCTTCCTCCAAAAGTGGGTC 58.752 55.000 0.00 0.00 46.01 4.46
691 962 1.478654 GCTTCCTCCAAAAGTGGGTCA 60.479 52.381 0.00 0.00 46.01 4.02
692 963 2.944129 CTTCCTCCAAAAGTGGGTCAA 58.056 47.619 0.00 0.00 46.01 3.18
693 964 2.656947 TCCTCCAAAAGTGGGTCAAG 57.343 50.000 0.00 0.00 46.01 3.02
694 965 2.131854 TCCTCCAAAAGTGGGTCAAGA 58.868 47.619 0.00 0.00 46.01 3.02
696 967 3.053245 TCCTCCAAAAGTGGGTCAAGAAA 60.053 43.478 0.00 0.00 46.01 2.52
697 968 3.068165 CCTCCAAAAGTGGGTCAAGAAAC 59.932 47.826 0.00 0.00 46.01 2.78
699 970 3.445805 TCCAAAAGTGGGTCAAGAAACAC 59.554 43.478 0.00 0.00 46.01 3.32
701 972 3.382083 AAAGTGGGTCAAGAAACACCT 57.618 42.857 0.00 0.00 34.50 4.00
702 973 2.348411 AGTGGGTCAAGAAACACCTG 57.652 50.000 0.00 0.00 34.50 4.00
704 975 2.775384 AGTGGGTCAAGAAACACCTGTA 59.225 45.455 0.00 0.00 34.50 2.74
705 976 3.139077 GTGGGTCAAGAAACACCTGTAG 58.861 50.000 0.00 0.00 32.69 2.74
706 977 3.042682 TGGGTCAAGAAACACCTGTAGA 58.957 45.455 0.00 0.00 32.69 2.59
708 979 4.104102 TGGGTCAAGAAACACCTGTAGAAT 59.896 41.667 0.00 0.00 32.69 2.40
710 981 5.535030 GGGTCAAGAAACACCTGTAGAATTT 59.465 40.000 0.00 0.00 32.69 1.82
711 982 6.040504 GGGTCAAGAAACACCTGTAGAATTTT 59.959 38.462 0.00 0.00 32.69 1.82
712 983 7.139392 GGTCAAGAAACACCTGTAGAATTTTC 58.861 38.462 0.00 0.00 0.00 2.29
713 984 7.201785 GGTCAAGAAACACCTGTAGAATTTTCA 60.202 37.037 0.00 0.00 0.00 2.69
714 985 8.188139 GTCAAGAAACACCTGTAGAATTTTCAA 58.812 33.333 0.00 0.00 0.00 2.69
715 986 8.744652 TCAAGAAACACCTGTAGAATTTTCAAA 58.255 29.630 0.00 0.00 0.00 2.69
716 987 9.364989 CAAGAAACACCTGTAGAATTTTCAAAA 57.635 29.630 0.00 0.00 0.00 2.44
717 988 8.926715 AGAAACACCTGTAGAATTTTCAAAAC 57.073 30.769 0.00 0.00 0.00 2.43
718 989 7.979537 AGAAACACCTGTAGAATTTTCAAAACC 59.020 33.333 0.00 0.00 0.00 3.27
719 990 6.156748 ACACCTGTAGAATTTTCAAAACCC 57.843 37.500 0.00 0.00 0.00 4.11
723 994 7.812669 CACCTGTAGAATTTTCAAAACCCATAC 59.187 37.037 0.00 0.00 0.00 2.39
725 996 7.308951 CCTGTAGAATTTTCAAAACCCATACGT 60.309 37.037 0.00 0.00 0.00 3.57
726 997 7.364200 TGTAGAATTTTCAAAACCCATACGTG 58.636 34.615 0.00 0.00 0.00 4.49
734 1053 6.489127 TCAAAACCCATACGTGTTTATCTG 57.511 37.500 0.00 0.00 33.76 2.90
748 1067 5.970023 GTGTTTATCTGTAGCTGGTAGTACG 59.030 44.000 0.00 0.00 0.00 3.67
792 1111 2.461695 TGGTGATGGAGAAGAGAGGAC 58.538 52.381 0.00 0.00 0.00 3.85
852 1171 2.221981 CAGACAAGGAAGTCGAAAGTGC 59.778 50.000 0.00 0.00 43.24 4.40
929 1256 1.227438 GCCAGGGTATTAAGCGCGA 60.227 57.895 12.10 0.00 0.00 5.87
970 1299 2.196776 AAGGCCTTGCTGCACACT 59.803 55.556 19.73 0.00 0.00 3.55
997 1328 1.136305 CCTTGCTTGCATTGGATCCAG 59.864 52.381 15.53 5.51 0.00 3.86
1218 1552 2.519175 CGCCAATGTACGTACGCCC 61.519 63.158 20.18 6.49 0.00 6.13
1243 1584 5.350640 CCCTCGTTTGGTTCTTGATTAGTAC 59.649 44.000 0.00 0.00 0.00 2.73
1244 1585 5.061808 CCTCGTTTGGTTCTTGATTAGTACG 59.938 44.000 0.00 0.00 0.00 3.67
1245 1586 5.531634 TCGTTTGGTTCTTGATTAGTACGT 58.468 37.500 0.00 0.00 0.00 3.57
1246 1587 6.676950 TCGTTTGGTTCTTGATTAGTACGTA 58.323 36.000 0.00 0.00 0.00 3.57
1249 1590 7.326789 CGTTTGGTTCTTGATTAGTACGTAGAA 59.673 37.037 0.00 0.00 0.00 2.10
1302 1643 0.330604 ATGTGGGTTGATCTGCTGCT 59.669 50.000 0.00 0.00 0.00 4.24
1345 1686 6.183360 TGCATGCATGGATGTTATGTTATGTT 60.183 34.615 27.34 0.00 31.24 2.71
1425 1766 2.124695 GGGCCCAACATCTCGGTC 60.125 66.667 19.95 0.00 0.00 4.79
1778 2119 2.519622 CCATGGAGGCGGGCTATCA 61.520 63.158 5.56 6.80 0.00 2.15
1858 2199 1.959226 CAGTCCAACCCCAACGTCG 60.959 63.158 0.00 0.00 0.00 5.12
1909 2250 1.522580 GAGAAGATGCCGCTCACCC 60.523 63.158 0.00 0.00 0.00 4.61
2065 2406 2.600769 ACGGCGAGGTCAGGAAGT 60.601 61.111 16.62 0.00 0.00 3.01
2066 2407 2.156051 GACGGCGAGGTCAGGAAGTT 62.156 60.000 16.62 0.00 36.91 2.66
2082 2423 5.003804 AGGAAGTTATGCAACGAGTTCAAT 58.996 37.500 13.51 3.32 39.78 2.57
2095 2436 3.370527 CGAGTTCAATAACCCCATGTCCT 60.371 47.826 0.00 0.00 36.15 3.85
2096 2437 4.200092 GAGTTCAATAACCCCATGTCCTC 58.800 47.826 0.00 0.00 36.15 3.71
2160 2501 4.809496 CTGGATGGCTTGGCGGCT 62.809 66.667 11.43 0.00 39.32 5.52
2189 2530 1.895707 AGCAGCAGGTGTCAAGCAC 60.896 57.895 0.66 0.00 46.97 4.40
2250 2591 3.122971 GGCAAGGCGGACGGTAAC 61.123 66.667 0.00 0.00 0.00 2.50
2312 2653 1.136872 CGCAGCGACTAGAAGCAGTC 61.137 60.000 9.98 0.00 41.33 3.51
2407 2748 1.762460 ACGTAGGCCTCCATCCAGG 60.762 63.158 9.68 0.00 36.50 4.45
2435 2776 6.974048 CGTCTCCATCAAATTGATTAATTGCA 59.026 34.615 5.63 0.00 34.28 4.08
2712 3054 2.203998 CACTGTCCCCTGTCCCCT 60.204 66.667 0.00 0.00 0.00 4.79
2713 3055 2.203998 ACTGTCCCCTGTCCCCTG 60.204 66.667 0.00 0.00 0.00 4.45
2714 3056 2.203998 CTGTCCCCTGTCCCCTGT 60.204 66.667 0.00 0.00 0.00 4.00
2715 3057 2.203938 TGTCCCCTGTCCCCTGTC 60.204 66.667 0.00 0.00 0.00 3.51
2716 3058 3.009714 GTCCCCTGTCCCCTGTCC 61.010 72.222 0.00 0.00 0.00 4.02
2907 3254 7.733402 AAGGACCAAAATGAAATGACAAATG 57.267 32.000 0.00 0.00 0.00 2.32
3051 4627 9.575868 TCCACTAAAATTACACTGTAAAATCCA 57.424 29.630 5.73 0.00 0.00 3.41
3052 4628 9.620660 CCACTAAAATTACACTGTAAAATCCAC 57.379 33.333 5.73 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 1.293062 ATGGGTCTGTTGCAGGATCT 58.707 50.000 0.00 0.00 31.51 2.75
25 26 1.167851 CATCGCAACAATGGGTCTGT 58.832 50.000 0.00 0.00 40.23 3.41
26 27 1.399440 CTCATCGCAACAATGGGTCTG 59.601 52.381 0.00 0.00 40.23 3.51
41 43 4.428209 TCGTTCTTGCAATCTCTCTCATC 58.572 43.478 0.00 0.00 0.00 2.92
46 48 1.663135 GGCTCGTTCTTGCAATCTCTC 59.337 52.381 0.00 0.00 0.00 3.20
69 71 3.649023 TCCACCTCCACTAGTTTTTGCTA 59.351 43.478 0.00 0.00 0.00 3.49
70 72 2.441750 TCCACCTCCACTAGTTTTTGCT 59.558 45.455 0.00 0.00 0.00 3.91
73 75 4.398319 CATGTCCACCTCCACTAGTTTTT 58.602 43.478 0.00 0.00 0.00 1.94
74 76 3.244911 CCATGTCCACCTCCACTAGTTTT 60.245 47.826 0.00 0.00 0.00 2.43
75 77 2.305927 CCATGTCCACCTCCACTAGTTT 59.694 50.000 0.00 0.00 0.00 2.66
76 78 1.909302 CCATGTCCACCTCCACTAGTT 59.091 52.381 0.00 0.00 0.00 2.24
77 79 1.573108 CCATGTCCACCTCCACTAGT 58.427 55.000 0.00 0.00 0.00 2.57
78 80 0.833287 CCCATGTCCACCTCCACTAG 59.167 60.000 0.00 0.00 0.00 2.57
79 81 1.271840 GCCCATGTCCACCTCCACTA 61.272 60.000 0.00 0.00 0.00 2.74
80 82 2.606587 GCCCATGTCCACCTCCACT 61.607 63.158 0.00 0.00 0.00 4.00
81 83 2.044946 GCCCATGTCCACCTCCAC 60.045 66.667 0.00 0.00 0.00 4.02
82 84 2.531428 TGCCCATGTCCACCTCCA 60.531 61.111 0.00 0.00 0.00 3.86
83 85 2.044946 GTGCCCATGTCCACCTCC 60.045 66.667 0.00 0.00 0.00 4.30
84 86 2.436646 CGTGCCCATGTCCACCTC 60.437 66.667 7.22 0.00 0.00 3.85
85 87 3.249189 ACGTGCCCATGTCCACCT 61.249 61.111 7.22 0.00 0.00 4.00
86 88 3.055719 CACGTGCCCATGTCCACC 61.056 66.667 0.82 0.00 0.00 4.61
87 89 3.055719 CCACGTGCCCATGTCCAC 61.056 66.667 10.91 0.00 0.00 4.02
90 92 2.751436 ATGCCACGTGCCCATGTC 60.751 61.111 10.91 0.00 40.16 3.06
91 93 3.063704 CATGCCACGTGCCCATGT 61.064 61.111 26.34 6.89 40.16 3.21
92 94 4.501714 GCATGCCACGTGCCCATG 62.502 66.667 28.53 28.53 40.16 3.66
96 98 3.807538 CTCTGCATGCCACGTGCC 61.808 66.667 16.68 0.00 41.83 5.01
97 99 2.249557 CTTCTCTGCATGCCACGTGC 62.250 60.000 16.68 6.53 42.81 5.34
98 100 1.642037 CCTTCTCTGCATGCCACGTG 61.642 60.000 16.68 9.08 0.00 4.49
99 101 1.376424 CCTTCTCTGCATGCCACGT 60.376 57.895 16.68 0.00 0.00 4.49
100 102 2.758089 GCCTTCTCTGCATGCCACG 61.758 63.158 16.68 3.68 0.00 4.94
101 103 2.758089 CGCCTTCTCTGCATGCCAC 61.758 63.158 16.68 0.00 0.00 5.01
102 104 2.437180 CGCCTTCTCTGCATGCCA 60.437 61.111 16.68 0.00 0.00 4.92
103 105 2.437359 ACGCCTTCTCTGCATGCC 60.437 61.111 16.68 0.00 0.00 4.40
104 106 2.806856 CGACGCCTTCTCTGCATGC 61.807 63.158 11.82 11.82 0.00 4.06
105 107 2.169789 CCGACGCCTTCTCTGCATG 61.170 63.158 0.00 0.00 0.00 4.06
106 108 1.680522 ATCCGACGCCTTCTCTGCAT 61.681 55.000 0.00 0.00 0.00 3.96
107 109 2.351244 ATCCGACGCCTTCTCTGCA 61.351 57.895 0.00 0.00 0.00 4.41
108 110 1.880340 CATCCGACGCCTTCTCTGC 60.880 63.158 0.00 0.00 0.00 4.26
109 111 0.803768 CACATCCGACGCCTTCTCTG 60.804 60.000 0.00 0.00 0.00 3.35
110 112 1.513158 CACATCCGACGCCTTCTCT 59.487 57.895 0.00 0.00 0.00 3.10
111 113 1.519455 CCACATCCGACGCCTTCTC 60.519 63.158 0.00 0.00 0.00 2.87
112 114 1.330655 ATCCACATCCGACGCCTTCT 61.331 55.000 0.00 0.00 0.00 2.85
113 115 0.876342 GATCCACATCCGACGCCTTC 60.876 60.000 0.00 0.00 0.00 3.46
114 116 1.144057 GATCCACATCCGACGCCTT 59.856 57.895 0.00 0.00 0.00 4.35
115 117 1.758514 AGATCCACATCCGACGCCT 60.759 57.895 0.00 0.00 0.00 5.52
116 118 1.592669 CAGATCCACATCCGACGCC 60.593 63.158 0.00 0.00 0.00 5.68
117 119 2.240500 GCAGATCCACATCCGACGC 61.241 63.158 0.00 0.00 0.00 5.19
118 120 1.946156 CGCAGATCCACATCCGACG 60.946 63.158 0.00 0.00 0.00 5.12
119 121 1.592669 CCGCAGATCCACATCCGAC 60.593 63.158 0.00 0.00 0.00 4.79
120 122 2.016393 GACCGCAGATCCACATCCGA 62.016 60.000 0.00 0.00 0.00 4.55
121 123 1.592669 GACCGCAGATCCACATCCG 60.593 63.158 0.00 0.00 0.00 4.18
122 124 1.227674 GGACCGCAGATCCACATCC 60.228 63.158 0.00 0.00 0.00 3.51
123 125 1.227674 GGGACCGCAGATCCACATC 60.228 63.158 0.00 0.00 0.00 3.06
124 126 2.746375 GGGGACCGCAGATCCACAT 61.746 63.158 3.14 0.00 40.86 3.21
125 127 3.399181 GGGGACCGCAGATCCACA 61.399 66.667 3.14 0.00 40.86 4.17
137 139 5.796424 ATGCTTTAAATCATCATGGGGAC 57.204 39.130 0.00 0.00 0.00 4.46
138 140 6.811634 AAATGCTTTAAATCATCATGGGGA 57.188 33.333 5.07 0.00 0.00 4.81
139 141 7.337436 ACAAAAATGCTTTAAATCATCATGGGG 59.663 33.333 5.07 0.00 0.00 4.96
140 142 8.271312 ACAAAAATGCTTTAAATCATCATGGG 57.729 30.769 5.07 0.00 0.00 4.00
171 173 9.243105 CCCAGAGAAATAGAAAAAGGTGAAATA 57.757 33.333 0.00 0.00 0.00 1.40
172 174 7.730332 ACCCAGAGAAATAGAAAAAGGTGAAAT 59.270 33.333 0.00 0.00 0.00 2.17
173 175 7.066781 ACCCAGAGAAATAGAAAAAGGTGAAA 58.933 34.615 0.00 0.00 0.00 2.69
174 176 6.610830 ACCCAGAGAAATAGAAAAAGGTGAA 58.389 36.000 0.00 0.00 0.00 3.18
175 177 6.200878 ACCCAGAGAAATAGAAAAAGGTGA 57.799 37.500 0.00 0.00 0.00 4.02
176 178 6.901081 AACCCAGAGAAATAGAAAAAGGTG 57.099 37.500 0.00 0.00 0.00 4.00
177 179 7.914427 AAAACCCAGAGAAATAGAAAAAGGT 57.086 32.000 0.00 0.00 0.00 3.50
182 184 9.581289 TCACAATAAAACCCAGAGAAATAGAAA 57.419 29.630 0.00 0.00 0.00 2.52
183 185 9.581289 TTCACAATAAAACCCAGAGAAATAGAA 57.419 29.630 0.00 0.00 0.00 2.10
184 186 9.581289 TTTCACAATAAAACCCAGAGAAATAGA 57.419 29.630 0.00 0.00 0.00 1.98
189 191 9.974980 GTTAATTTCACAATAAAACCCAGAGAA 57.025 29.630 0.00 0.00 0.00 2.87
190 192 9.362151 AGTTAATTTCACAATAAAACCCAGAGA 57.638 29.630 0.00 0.00 0.00 3.10
220 222 9.354673 TCAAAAGTTTCATCCATCTCTAAACTT 57.645 29.630 0.00 0.00 46.72 2.66
221 223 8.924511 TCAAAAGTTTCATCCATCTCTAAACT 57.075 30.769 0.00 0.00 40.98 2.66
224 226 8.960591 GGATTCAAAAGTTTCATCCATCTCTAA 58.039 33.333 13.13 0.00 34.58 2.10
225 227 8.108999 TGGATTCAAAAGTTTCATCCATCTCTA 58.891 33.333 15.41 0.00 38.80 2.43
226 228 6.950041 TGGATTCAAAAGTTTCATCCATCTCT 59.050 34.615 15.41 0.00 38.80 3.10
227 229 7.094032 ACTGGATTCAAAAGTTTCATCCATCTC 60.094 37.037 18.00 0.00 42.02 2.75
228 230 6.723052 ACTGGATTCAAAAGTTTCATCCATCT 59.277 34.615 18.00 8.84 42.02 2.90
229 231 6.928520 ACTGGATTCAAAAGTTTCATCCATC 58.071 36.000 18.00 5.25 42.02 3.51
230 232 6.923199 ACTGGATTCAAAAGTTTCATCCAT 57.077 33.333 18.00 10.12 42.02 3.41
231 233 6.729690 AACTGGATTCAAAAGTTTCATCCA 57.270 33.333 17.22 17.22 40.94 3.41
232 234 9.788960 GTATAACTGGATTCAAAAGTTTCATCC 57.211 33.333 11.85 11.85 35.77 3.51
235 237 9.567776 TCTGTATAACTGGATTCAAAAGTTTCA 57.432 29.630 4.58 3.17 35.77 2.69
239 241 9.739276 TGATTCTGTATAACTGGATTCAAAAGT 57.261 29.630 0.00 0.00 0.00 2.66
242 244 9.739276 AGTTGATTCTGTATAACTGGATTCAAA 57.261 29.630 0.00 0.00 33.20 2.69
243 245 9.739276 AAGTTGATTCTGTATAACTGGATTCAA 57.261 29.630 0.00 0.00 33.95 2.69
420 690 9.396022 CACTATGAACATTTCCTAAATACAGGT 57.604 33.333 0.00 0.00 36.99 4.00
462 732 9.913451 CGTCATAAACATTTTTGAAATGTTGTT 57.087 25.926 24.28 15.88 46.62 2.83
500 771 1.149964 GGACTTTATCGCGGAACCGG 61.150 60.000 15.01 0.00 40.19 5.28
501 772 0.179119 AGGACTTTATCGCGGAACCG 60.179 55.000 6.13 9.00 43.09 4.44
505 776 3.160777 GAGAAAGGACTTTATCGCGGA 57.839 47.619 6.13 0.00 32.22 5.54
510 781 6.479331 GGGAATACACGAGAAAGGACTTTATC 59.521 42.308 8.88 8.88 37.42 1.75
516 787 3.889520 AGGGAATACACGAGAAAGGAC 57.110 47.619 0.00 0.00 0.00 3.85
526 797 5.582689 AATAAAGCAGCAAGGGAATACAC 57.417 39.130 0.00 0.00 0.00 2.90
552 823 6.432403 AACAAAGGAGGAATTTTATTGGCA 57.568 33.333 0.00 0.00 0.00 4.92
566 837 6.644592 TGCAATTATTTTTCCGAACAAAGGAG 59.355 34.615 0.00 0.00 39.22 3.69
575 846 3.067461 CCCGGATGCAATTATTTTTCCGA 59.933 43.478 19.78 0.00 46.84 4.55
576 847 3.380142 CCCGGATGCAATTATTTTTCCG 58.620 45.455 12.95 12.95 44.28 4.30
591 862 4.533311 TCTTGAAAAAGTAGTACCCCGGAT 59.467 41.667 0.73 0.00 0.00 4.18
618 889 5.376625 GGTTGGACTGGAGCATCATAAATA 58.623 41.667 0.00 0.00 36.25 1.40
619 890 4.210331 GGTTGGACTGGAGCATCATAAAT 58.790 43.478 0.00 0.00 36.25 1.40
620 891 3.620488 GGTTGGACTGGAGCATCATAAA 58.380 45.455 0.00 0.00 36.25 1.40
622 893 1.490490 GGGTTGGACTGGAGCATCATA 59.510 52.381 0.00 0.00 36.25 2.15
623 894 0.257039 GGGTTGGACTGGAGCATCAT 59.743 55.000 0.00 0.00 36.25 2.45
624 895 1.685224 GGGTTGGACTGGAGCATCA 59.315 57.895 0.00 0.00 36.25 3.07
625 896 1.077429 GGGGTTGGACTGGAGCATC 60.077 63.158 0.00 0.00 0.00 3.91
626 897 1.542375 AGGGGTTGGACTGGAGCAT 60.542 57.895 0.00 0.00 0.00 3.79
627 898 2.121963 AGGGGTTGGACTGGAGCA 60.122 61.111 0.00 0.00 0.00 4.26
628 899 2.352805 CAGGGGTTGGACTGGAGC 59.647 66.667 0.00 0.00 0.00 4.70
631 902 2.282462 GCACAGGGGTTGGACTGG 60.282 66.667 0.00 0.00 39.00 4.00
633 904 1.152756 GTTGCACAGGGGTTGGACT 60.153 57.895 0.00 0.00 0.00 3.85
634 905 1.454847 TGTTGCACAGGGGTTGGAC 60.455 57.895 0.00 0.00 0.00 4.02
635 906 1.152777 CTGTTGCACAGGGGTTGGA 60.153 57.895 8.03 0.00 42.35 3.53
636 907 2.859981 GCTGTTGCACAGGGGTTGG 61.860 63.158 15.16 0.00 46.01 3.77
637 908 2.126596 TGCTGTTGCACAGGGGTTG 61.127 57.895 15.16 0.00 46.01 3.77
638 909 2.278404 TGCTGTTGCACAGGGGTT 59.722 55.556 15.16 0.00 46.01 4.11
648 919 3.346315 TCCTAACCATGATGTGCTGTTG 58.654 45.455 0.00 0.00 0.00 3.33
649 920 3.719268 TCCTAACCATGATGTGCTGTT 57.281 42.857 0.00 0.00 0.00 3.16
650 921 3.548770 CATCCTAACCATGATGTGCTGT 58.451 45.455 0.00 0.00 34.90 4.40
651 922 2.292569 GCATCCTAACCATGATGTGCTG 59.707 50.000 0.00 0.00 40.37 4.41
652 923 2.174210 AGCATCCTAACCATGATGTGCT 59.826 45.455 0.00 0.00 40.37 4.40
682 953 2.025321 ACAGGTGTTTCTTGACCCACTT 60.025 45.455 0.00 0.00 32.03 3.16
684 955 2.052782 ACAGGTGTTTCTTGACCCAC 57.947 50.000 0.00 0.00 32.03 4.61
685 956 3.042682 TCTACAGGTGTTTCTTGACCCA 58.957 45.455 0.00 0.00 32.03 4.51
686 957 3.764237 TCTACAGGTGTTTCTTGACCC 57.236 47.619 0.00 0.00 32.03 4.46
687 958 6.635030 AAATTCTACAGGTGTTTCTTGACC 57.365 37.500 0.00 0.00 0.00 4.02
688 959 7.703328 TGAAAATTCTACAGGTGTTTCTTGAC 58.297 34.615 0.00 0.00 0.00 3.18
689 960 7.873719 TGAAAATTCTACAGGTGTTTCTTGA 57.126 32.000 0.00 0.00 0.00 3.02
690 961 8.925161 TTTGAAAATTCTACAGGTGTTTCTTG 57.075 30.769 0.00 0.00 0.00 3.02
691 962 9.366216 GTTTTGAAAATTCTACAGGTGTTTCTT 57.634 29.630 0.00 0.00 0.00 2.52
692 963 7.979537 GGTTTTGAAAATTCTACAGGTGTTTCT 59.020 33.333 0.00 0.00 0.00 2.52
693 964 7.223971 GGGTTTTGAAAATTCTACAGGTGTTTC 59.776 37.037 0.00 0.00 0.00 2.78
694 965 7.045416 GGGTTTTGAAAATTCTACAGGTGTTT 58.955 34.615 0.00 0.00 0.00 2.83
696 967 5.659079 TGGGTTTTGAAAATTCTACAGGTGT 59.341 36.000 0.00 0.00 0.00 4.16
697 968 6.155475 TGGGTTTTGAAAATTCTACAGGTG 57.845 37.500 0.00 0.00 0.00 4.00
699 970 7.027161 CGTATGGGTTTTGAAAATTCTACAGG 58.973 38.462 0.00 0.00 0.00 4.00
701 972 7.013464 ACACGTATGGGTTTTGAAAATTCTACA 59.987 33.333 0.00 0.00 0.00 2.74
702 973 7.364970 ACACGTATGGGTTTTGAAAATTCTAC 58.635 34.615 0.00 0.00 0.00 2.59
704 975 6.399639 ACACGTATGGGTTTTGAAAATTCT 57.600 33.333 0.00 0.00 0.00 2.40
705 976 7.471657 AAACACGTATGGGTTTTGAAAATTC 57.528 32.000 9.58 0.00 33.69 2.17
706 977 9.198837 GATAAACACGTATGGGTTTTGAAAATT 57.801 29.630 19.96 0.00 38.17 1.82
708 979 7.863375 CAGATAAACACGTATGGGTTTTGAAAA 59.137 33.333 19.96 2.77 38.17 2.29
710 981 6.487331 ACAGATAAACACGTATGGGTTTTGAA 59.513 34.615 19.96 3.51 38.17 2.69
711 982 5.998981 ACAGATAAACACGTATGGGTTTTGA 59.001 36.000 19.96 4.24 38.17 2.69
712 983 6.249035 ACAGATAAACACGTATGGGTTTTG 57.751 37.500 19.96 14.48 38.17 2.44
713 984 6.093082 GCTACAGATAAACACGTATGGGTTTT 59.907 38.462 19.96 8.58 38.17 2.43
714 985 5.583457 GCTACAGATAAACACGTATGGGTTT 59.417 40.000 18.86 18.86 40.15 3.27
715 986 5.105064 AGCTACAGATAAACACGTATGGGTT 60.105 40.000 0.00 0.00 0.00 4.11
716 987 4.404715 AGCTACAGATAAACACGTATGGGT 59.595 41.667 0.00 0.00 0.00 4.51
717 988 4.745125 CAGCTACAGATAAACACGTATGGG 59.255 45.833 0.00 0.00 0.00 4.00
718 989 4.745125 CCAGCTACAGATAAACACGTATGG 59.255 45.833 0.00 0.00 0.00 2.74
719 990 5.348986 ACCAGCTACAGATAAACACGTATG 58.651 41.667 0.00 0.00 0.00 2.39
723 994 4.995124 ACTACCAGCTACAGATAAACACG 58.005 43.478 0.00 0.00 0.00 4.49
725 996 5.649395 ACGTACTACCAGCTACAGATAAACA 59.351 40.000 0.00 0.00 0.00 2.83
726 997 5.970023 CACGTACTACCAGCTACAGATAAAC 59.030 44.000 0.00 0.00 0.00 2.01
734 1053 2.865343 ATGCACGTACTACCAGCTAC 57.135 50.000 0.00 0.00 0.00 3.58
792 1111 1.971695 GTGCCTTCCCTCCGTTTGG 60.972 63.158 0.00 0.00 0.00 3.28
852 1171 0.675837 CATCAGTGGGTGGCTGTCAG 60.676 60.000 0.00 0.00 35.60 3.51
1068 1402 2.441532 TAGAAGTCGGGGGCGAGG 60.442 66.667 0.00 0.00 0.00 4.63
1218 1552 2.200373 ATCAAGAACCAAACGAGGGG 57.800 50.000 0.00 0.00 0.00 4.79
1243 1584 9.257651 AGGACGGATTCTAATTAAATTTCTACG 57.742 33.333 0.00 0.00 0.00 3.51
1245 1586 9.472361 CGAGGACGGATTCTAATTAAATTTCTA 57.528 33.333 0.00 0.00 35.72 2.10
1246 1587 8.202137 TCGAGGACGGATTCTAATTAAATTTCT 58.798 33.333 0.00 0.00 40.21 2.52
1249 1590 7.387948 CCATCGAGGACGGATTCTAATTAAATT 59.612 37.037 0.00 0.00 41.22 1.82
1258 1599 1.133761 TCTCCATCGAGGACGGATTCT 60.134 52.381 0.00 0.00 43.07 2.40
1326 1667 7.004086 ACCCCTAACATAACATAACATCCATG 58.996 38.462 0.00 0.00 0.00 3.66
1327 1668 7.004086 CACCCCTAACATAACATAACATCCAT 58.996 38.462 0.00 0.00 0.00 3.41
1425 1766 2.016704 GATGATGTCGTAGCCGCGG 61.017 63.158 24.05 24.05 0.00 6.46
1602 1943 2.737376 GGCAGGTTGTCGTCGGAC 60.737 66.667 0.00 0.00 43.71 4.79
1778 2119 3.437795 GCTTGCTGATGCTGGCGT 61.438 61.111 0.00 0.00 40.48 5.68
1858 2199 1.531578 GGCGAAGAAGGAGTTGTCAAC 59.468 52.381 7.68 7.68 0.00 3.18
2065 2406 4.396790 GGGGTTATTGAACTCGTTGCATAA 59.603 41.667 0.00 0.00 36.85 1.90
2066 2407 3.942748 GGGGTTATTGAACTCGTTGCATA 59.057 43.478 0.00 0.00 36.85 3.14
2082 2423 1.324740 CGTCGGAGGACATGGGGTTA 61.325 60.000 0.00 0.00 43.61 2.85
2160 2501 2.834043 TGCTGCTGCTTGTTGCCA 60.834 55.556 17.00 0.00 42.00 4.92
2206 2547 4.379243 CTCCGGCTGTGCGTCCTT 62.379 66.667 0.00 0.00 0.00 3.36
2246 2587 2.510918 GGGGCTTCTCGGCGTTAC 60.511 66.667 6.85 0.00 39.52 2.50
2250 2591 4.697756 TTGTGGGGCTTCTCGGCG 62.698 66.667 0.00 0.00 39.52 6.46
2407 2748 4.889832 AATCAATTTGATGGAGACGCTC 57.110 40.909 12.50 0.00 37.15 5.03
2435 2776 8.655901 AGAGGAAGAAGAAGAGTAATTCAAAGT 58.344 33.333 0.00 0.00 0.00 2.66
2507 2848 8.627208 AGCATTAAGTAACTAGCCGTAGTATA 57.373 34.615 0.00 0.00 38.66 1.47
2513 2854 4.189231 CCAAGCATTAAGTAACTAGCCGT 58.811 43.478 0.00 0.00 0.00 5.68
2551 2893 6.399204 AAAACTCGACGCGATATTAGTTTT 57.601 33.333 23.18 23.18 35.79 2.43
2712 3054 6.183360 GGACAAATAGGAACAAACAAAGGACA 60.183 38.462 0.00 0.00 0.00 4.02
2713 3055 6.213677 GGACAAATAGGAACAAACAAAGGAC 58.786 40.000 0.00 0.00 0.00 3.85
2714 3056 5.303333 GGGACAAATAGGAACAAACAAAGGA 59.697 40.000 0.00 0.00 0.00 3.36
2715 3057 5.538118 GGGACAAATAGGAACAAACAAAGG 58.462 41.667 0.00 0.00 0.00 3.11
2716 3058 5.219633 CGGGACAAATAGGAACAAACAAAG 58.780 41.667 0.00 0.00 0.00 2.77
2907 3254 9.685828 TGTAATTTTAGTTATTTTCCAGTGTGC 57.314 29.630 0.00 0.00 0.00 4.57
3048 4624 9.153721 CGGTATTTACAGTGTAATTTTAGTGGA 57.846 33.333 16.26 0.00 0.00 4.02
3049 4625 7.906527 GCGGTATTTACAGTGTAATTTTAGTGG 59.093 37.037 16.26 3.71 0.00 4.00
3050 4626 8.662141 AGCGGTATTTACAGTGTAATTTTAGTG 58.338 33.333 16.26 5.47 0.00 2.74
3051 4627 8.782339 AGCGGTATTTACAGTGTAATTTTAGT 57.218 30.769 16.26 2.63 0.00 2.24
3060 4636 8.445493 GTGTATTTTTAGCGGTATTTACAGTGT 58.555 33.333 0.00 0.00 0.00 3.55


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

AutoCloner maintained by Alex Coulton.