Multiple sequence alignment - TraesCS4A01G183500

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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 TraesCS4A01G183500 chr4A 100.000 2867 0 0 1 2867 460905732 460902866 0.000000e+00 5295
1 TraesCS4A01G183500 chr4D 95.565 2187 43 19 701 2867 115932148 115934300 0.000000e+00 3452
2 TraesCS4A01G183500 chr4D 90.456 241 20 3 203 443 115930355 115930592 5.960000e-82 315
3 TraesCS4A01G183500 chr4B 96.266 1687 50 7 583 2267 176268245 176266570 0.000000e+00 2754
4 TraesCS4A01G183500 chr4B 95.285 615 16 3 2266 2867 176266409 176265795 0.000000e+00 963


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 TraesCS4A01G183500 chr4A 460902866 460905732 2866 True 5295.0 5295 100.0000 1 2867 1 chr4A.!!$R1 2866
1 TraesCS4A01G183500 chr4D 115930355 115934300 3945 False 1883.5 3452 93.0105 203 2867 2 chr4D.!!$F1 2664
2 TraesCS4A01G183500 chr4B 176265795 176268245 2450 True 1858.5 2754 95.7755 583 2867 2 chr4B.!!$R1 2284

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
280 281 0.038166 TTTCCCATGGACCTGTCTGC 59.962 55.0 15.22 0.0 0.00 4.26 F
405 406 0.109086 CTGGTCTGCATCGACGACTT 60.109 55.0 0.00 0.0 34.75 3.01 F
466 467 0.250467 TGCTCCACTGAGGCAGAAAC 60.250 55.0 0.82 0.0 39.14 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1740 3093 1.660333 GCGTCTTTCCAGTTTTCAGCG 60.660 52.381 0.00 0.0 0.00 5.18 R
1768 3121 2.091055 TCTTCCTCCTTCCTCGGATGAT 60.091 50.000 0.75 0.0 29.57 2.45 R
2411 3926 2.143231 AGGAGGGAACAAAGGGGTAA 57.857 50.000 0.00 0.0 0.00 2.85 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
17 18 4.900154 GAGAAGAGGGCGTGAGTG 57.100 61.111 0.00 0.00 0.00 3.51
18 19 1.446966 GAGAAGAGGGCGTGAGTGC 60.447 63.158 0.00 0.00 0.00 4.40
19 20 2.159819 GAGAAGAGGGCGTGAGTGCA 62.160 60.000 0.00 0.00 36.28 4.57
20 21 1.078848 GAAGAGGGCGTGAGTGCAT 60.079 57.895 0.00 0.00 36.28 3.96
21 22 1.364626 GAAGAGGGCGTGAGTGCATG 61.365 60.000 0.00 0.00 36.28 4.06
27 28 3.482809 CGTGAGTGCATGCTCCTG 58.517 61.111 20.33 1.69 34.74 3.86
28 29 2.104859 CGTGAGTGCATGCTCCTGG 61.105 63.158 20.33 1.48 34.74 4.45
29 30 1.297689 GTGAGTGCATGCTCCTGGA 59.702 57.895 20.33 0.00 34.74 3.86
30 31 1.023513 GTGAGTGCATGCTCCTGGAC 61.024 60.000 20.33 7.39 37.71 4.02
31 32 1.812922 GAGTGCATGCTCCTGGACG 60.813 63.158 20.33 0.00 41.79 4.79
32 33 2.230994 GAGTGCATGCTCCTGGACGA 62.231 60.000 20.33 0.00 41.79 4.20
33 34 2.103042 GTGCATGCTCCTGGACGAC 61.103 63.158 20.33 0.83 0.00 4.34
34 35 2.285773 TGCATGCTCCTGGACGACT 61.286 57.895 20.33 0.00 0.00 4.18
35 36 1.812922 GCATGCTCCTGGACGACTG 60.813 63.158 11.37 0.00 0.00 3.51
36 37 1.593787 CATGCTCCTGGACGACTGT 59.406 57.895 0.00 0.00 0.00 3.55
37 38 0.738762 CATGCTCCTGGACGACTGTG 60.739 60.000 0.00 0.00 0.00 3.66
38 39 0.900182 ATGCTCCTGGACGACTGTGA 60.900 55.000 0.00 0.00 0.00 3.58
39 40 1.214062 GCTCCTGGACGACTGTGAG 59.786 63.158 0.00 0.00 0.00 3.51
40 41 1.214062 CTCCTGGACGACTGTGAGC 59.786 63.158 0.00 0.00 0.00 4.26
41 42 1.228583 TCCTGGACGACTGTGAGCT 60.229 57.895 0.00 0.00 0.00 4.09
42 43 1.214062 CCTGGACGACTGTGAGCTC 59.786 63.158 6.82 6.82 0.00 4.09
43 44 1.154131 CTGGACGACTGTGAGCTCG 60.154 63.158 9.64 0.00 35.96 5.03
44 45 1.578206 CTGGACGACTGTGAGCTCGA 61.578 60.000 9.64 0.00 33.96 4.04
45 46 1.154188 GGACGACTGTGAGCTCGAC 60.154 63.158 9.64 9.11 33.96 4.20
46 47 1.574925 GACGACTGTGAGCTCGACA 59.425 57.895 9.64 13.12 33.96 4.35
47 48 0.169230 GACGACTGTGAGCTCGACAT 59.831 55.000 16.08 9.03 33.96 3.06
48 49 0.169230 ACGACTGTGAGCTCGACATC 59.831 55.000 16.08 14.15 33.96 3.06
49 50 0.169009 CGACTGTGAGCTCGACATCA 59.831 55.000 16.08 7.14 31.24 3.07
50 51 1.202234 CGACTGTGAGCTCGACATCAT 60.202 52.381 16.08 7.93 31.24 2.45
51 52 2.032178 CGACTGTGAGCTCGACATCATA 59.968 50.000 16.08 0.00 31.24 2.15
52 53 3.367607 GACTGTGAGCTCGACATCATAC 58.632 50.000 16.08 4.87 0.00 2.39
53 54 2.099921 ACTGTGAGCTCGACATCATACC 59.900 50.000 16.08 0.00 0.00 2.73
54 55 1.409064 TGTGAGCTCGACATCATACCC 59.591 52.381 9.64 0.00 0.00 3.69
55 56 0.668535 TGAGCTCGACATCATACCCG 59.331 55.000 9.64 0.00 0.00 5.28
56 57 0.952280 GAGCTCGACATCATACCCGA 59.048 55.000 0.00 0.00 0.00 5.14
57 58 1.337071 GAGCTCGACATCATACCCGAA 59.663 52.381 0.00 0.00 0.00 4.30
58 59 1.067212 AGCTCGACATCATACCCGAAC 59.933 52.381 0.00 0.00 0.00 3.95
59 60 1.202371 GCTCGACATCATACCCGAACA 60.202 52.381 0.00 0.00 0.00 3.18
60 61 2.545952 GCTCGACATCATACCCGAACAT 60.546 50.000 0.00 0.00 0.00 2.71
61 62 3.052745 CTCGACATCATACCCGAACATG 58.947 50.000 0.00 0.00 0.00 3.21
62 63 2.429250 TCGACATCATACCCGAACATGT 59.571 45.455 0.00 0.00 0.00 3.21
63 64 2.794910 CGACATCATACCCGAACATGTC 59.205 50.000 0.00 0.00 39.91 3.06
64 65 3.736740 CGACATCATACCCGAACATGTCA 60.737 47.826 0.00 0.00 42.31 3.58
65 66 4.380531 GACATCATACCCGAACATGTCAT 58.619 43.478 0.00 0.00 41.95 3.06
66 67 4.129380 ACATCATACCCGAACATGTCATG 58.871 43.478 11.41 11.41 0.00 3.07
68 69 5.163353 ACATCATACCCGAACATGTCATGTA 60.163 40.000 18.70 2.66 44.07 2.29
69 70 4.944048 TCATACCCGAACATGTCATGTAG 58.056 43.478 18.70 14.86 44.07 2.74
70 71 4.404394 TCATACCCGAACATGTCATGTAGT 59.596 41.667 18.70 15.02 44.07 2.73
71 72 2.972625 ACCCGAACATGTCATGTAGTG 58.027 47.619 18.70 11.07 44.07 2.74
72 73 2.279741 CCCGAACATGTCATGTAGTGG 58.720 52.381 18.70 18.17 44.07 4.00
73 74 1.665679 CCGAACATGTCATGTAGTGGC 59.334 52.381 18.70 5.91 44.07 5.01
78 79 3.880040 TGTCATGTAGTGGCATGGG 57.120 52.632 6.26 0.00 44.54 4.00
79 80 0.991146 TGTCATGTAGTGGCATGGGT 59.009 50.000 6.26 0.00 44.54 4.51
80 81 1.339920 TGTCATGTAGTGGCATGGGTG 60.340 52.381 6.26 0.00 44.54 4.61
81 82 1.065491 GTCATGTAGTGGCATGGGTGA 60.065 52.381 6.26 0.00 44.54 4.02
82 83 1.845791 TCATGTAGTGGCATGGGTGAT 59.154 47.619 6.26 0.00 44.54 3.06
83 84 2.241941 TCATGTAGTGGCATGGGTGATT 59.758 45.455 6.26 0.00 44.54 2.57
84 85 2.897271 TGTAGTGGCATGGGTGATTT 57.103 45.000 0.00 0.00 0.00 2.17
85 86 3.168035 TGTAGTGGCATGGGTGATTTT 57.832 42.857 0.00 0.00 0.00 1.82
86 87 3.505386 TGTAGTGGCATGGGTGATTTTT 58.495 40.909 0.00 0.00 0.00 1.94
111 112 9.689501 TTTTAACTTTTCTTTAGGGAGTCTTCA 57.310 29.630 0.00 0.00 0.00 3.02
112 113 9.862149 TTTAACTTTTCTTTAGGGAGTCTTCAT 57.138 29.630 0.00 0.00 0.00 2.57
115 116 8.208575 ACTTTTCTTTAGGGAGTCTTCATAGT 57.791 34.615 0.00 0.00 0.00 2.12
116 117 8.661345 ACTTTTCTTTAGGGAGTCTTCATAGTT 58.339 33.333 0.00 0.00 0.00 2.24
117 118 9.508642 CTTTTCTTTAGGGAGTCTTCATAGTTT 57.491 33.333 0.00 0.00 0.00 2.66
118 119 8.848474 TTTCTTTAGGGAGTCTTCATAGTTTG 57.152 34.615 0.00 0.00 0.00 2.93
119 120 6.947464 TCTTTAGGGAGTCTTCATAGTTTGG 58.053 40.000 0.00 0.00 0.00 3.28
120 121 5.693769 TTAGGGAGTCTTCATAGTTTGGG 57.306 43.478 0.00 0.00 0.00 4.12
121 122 2.846827 AGGGAGTCTTCATAGTTTGGGG 59.153 50.000 0.00 0.00 0.00 4.96
122 123 2.576648 GGGAGTCTTCATAGTTTGGGGT 59.423 50.000 0.00 0.00 0.00 4.95
123 124 3.610911 GGAGTCTTCATAGTTTGGGGTG 58.389 50.000 0.00 0.00 0.00 4.61
124 125 3.610911 GAGTCTTCATAGTTTGGGGTGG 58.389 50.000 0.00 0.00 0.00 4.61
125 126 2.092323 GTCTTCATAGTTTGGGGTGGC 58.908 52.381 0.00 0.00 0.00 5.01
126 127 1.707989 TCTTCATAGTTTGGGGTGGCA 59.292 47.619 0.00 0.00 0.00 4.92
127 128 2.109128 TCTTCATAGTTTGGGGTGGCAA 59.891 45.455 0.00 0.00 0.00 4.52
128 129 2.214376 TCATAGTTTGGGGTGGCAAG 57.786 50.000 0.00 0.00 0.00 4.01
129 130 1.185315 CATAGTTTGGGGTGGCAAGG 58.815 55.000 0.00 0.00 0.00 3.61
130 131 0.614697 ATAGTTTGGGGTGGCAAGGC 60.615 55.000 0.00 0.00 0.00 4.35
131 132 3.989787 GTTTGGGGTGGCAAGGCG 61.990 66.667 0.00 0.00 0.00 5.52
146 147 4.577246 GCGGAGGCGCTGACCTAG 62.577 72.222 7.64 0.00 41.32 3.02
147 148 3.141488 CGGAGGCGCTGACCTAGT 61.141 66.667 7.64 0.00 41.32 2.57
148 149 2.496817 GGAGGCGCTGACCTAGTG 59.503 66.667 7.64 0.00 41.32 2.74
149 150 2.352032 GGAGGCGCTGACCTAGTGT 61.352 63.158 7.64 0.00 41.32 3.55
150 151 1.035932 GGAGGCGCTGACCTAGTGTA 61.036 60.000 7.64 0.00 41.32 2.90
151 152 0.382515 GAGGCGCTGACCTAGTGTAG 59.617 60.000 7.64 0.00 41.32 2.74
168 169 8.675504 CCTAGTGTAGGTATAATATTCTCACCG 58.324 40.741 0.00 0.00 41.18 4.94
169 170 6.921914 AGTGTAGGTATAATATTCTCACCGC 58.078 40.000 0.00 0.00 34.36 5.68
170 171 6.492429 AGTGTAGGTATAATATTCTCACCGCA 59.508 38.462 0.00 1.24 34.36 5.69
171 172 6.585322 GTGTAGGTATAATATTCTCACCGCAC 59.415 42.308 17.31 17.31 35.03 5.34
172 173 6.492429 TGTAGGTATAATATTCTCACCGCACT 59.508 38.462 0.00 0.00 34.36 4.40
173 174 6.420913 AGGTATAATATTCTCACCGCACTT 57.579 37.500 0.00 0.00 34.36 3.16
174 175 6.827727 AGGTATAATATTCTCACCGCACTTT 58.172 36.000 0.00 0.00 34.36 2.66
175 176 6.929606 AGGTATAATATTCTCACCGCACTTTC 59.070 38.462 0.00 0.00 34.36 2.62
176 177 6.147328 GGTATAATATTCTCACCGCACTTTCC 59.853 42.308 0.00 0.00 0.00 3.13
177 178 2.396590 TATTCTCACCGCACTTTCCC 57.603 50.000 0.00 0.00 0.00 3.97
178 179 0.322546 ATTCTCACCGCACTTTCCCC 60.323 55.000 0.00 0.00 0.00 4.81
179 180 2.359975 CTCACCGCACTTTCCCCC 60.360 66.667 0.00 0.00 0.00 5.40
180 181 2.852075 TCACCGCACTTTCCCCCT 60.852 61.111 0.00 0.00 0.00 4.79
181 182 2.115266 CACCGCACTTTCCCCCTT 59.885 61.111 0.00 0.00 0.00 3.95
182 183 1.971695 CACCGCACTTTCCCCCTTC 60.972 63.158 0.00 0.00 0.00 3.46
183 184 2.361230 CCGCACTTTCCCCCTTCC 60.361 66.667 0.00 0.00 0.00 3.46
184 185 2.434331 CGCACTTTCCCCCTTCCA 59.566 61.111 0.00 0.00 0.00 3.53
185 186 1.000896 CGCACTTTCCCCCTTCCAT 60.001 57.895 0.00 0.00 0.00 3.41
186 187 0.611896 CGCACTTTCCCCCTTCCATT 60.612 55.000 0.00 0.00 0.00 3.16
187 188 0.897621 GCACTTTCCCCCTTCCATTG 59.102 55.000 0.00 0.00 0.00 2.82
188 189 1.560505 CACTTTCCCCCTTCCATTGG 58.439 55.000 0.00 0.00 0.00 3.16
189 190 1.167033 ACTTTCCCCCTTCCATTGGT 58.833 50.000 1.86 0.00 0.00 3.67
190 191 1.203174 ACTTTCCCCCTTCCATTGGTG 60.203 52.381 1.86 0.00 0.00 4.17
191 192 0.863956 TTTCCCCCTTCCATTGGTGT 59.136 50.000 1.86 0.00 0.00 4.16
192 193 0.114168 TTCCCCCTTCCATTGGTGTG 59.886 55.000 1.86 0.00 0.00 3.82
193 194 0.774096 TCCCCCTTCCATTGGTGTGA 60.774 55.000 1.86 0.00 0.00 3.58
194 195 0.336048 CCCCCTTCCATTGGTGTGAT 59.664 55.000 1.86 0.00 0.00 3.06
195 196 1.273211 CCCCCTTCCATTGGTGTGATT 60.273 52.381 1.86 0.00 0.00 2.57
196 197 1.826720 CCCCTTCCATTGGTGTGATTG 59.173 52.381 1.86 0.00 0.00 2.67
197 198 2.528564 CCCTTCCATTGGTGTGATTGT 58.471 47.619 1.86 0.00 0.00 2.71
198 199 2.493278 CCCTTCCATTGGTGTGATTGTC 59.507 50.000 1.86 0.00 0.00 3.18
199 200 2.162208 CCTTCCATTGGTGTGATTGTCG 59.838 50.000 1.86 0.00 0.00 4.35
200 201 1.164411 TCCATTGGTGTGATTGTCGC 58.836 50.000 1.86 0.00 0.00 5.19
201 202 0.171007 CCATTGGTGTGATTGTCGCC 59.829 55.000 0.00 0.00 36.18 5.54
202 203 0.179192 CATTGGTGTGATTGTCGCCG 60.179 55.000 0.00 0.00 38.19 6.46
203 204 1.305219 ATTGGTGTGATTGTCGCCGG 61.305 55.000 0.00 0.00 38.19 6.13
204 205 3.799755 GGTGTGATTGTCGCCGGC 61.800 66.667 19.07 19.07 0.00 6.13
205 206 4.147322 GTGTGATTGTCGCCGGCG 62.147 66.667 42.13 42.13 41.35 6.46
208 209 4.812476 TGATTGTCGCCGGCGGAG 62.812 66.667 44.95 28.73 40.25 4.63
243 244 1.004394 TGTCTCTGGCTAGTCCTTCGA 59.996 52.381 0.00 0.00 35.26 3.71
260 261 2.022195 TCGAGATCCTGTCGGTTTAGG 58.978 52.381 3.36 0.00 38.02 2.69
267 268 1.072648 CCTGTCGGTTTAGGTTTCCCA 59.927 52.381 0.00 0.00 0.00 4.37
280 281 0.038166 TTTCCCATGGACCTGTCTGC 59.962 55.000 15.22 0.00 0.00 4.26
285 286 1.012086 CATGGACCTGTCTGCATTCG 58.988 55.000 0.00 0.00 0.00 3.34
296 297 0.659957 CTGCATTCGGCTAGCTTTCC 59.340 55.000 15.72 0.00 45.15 3.13
324 325 4.354893 TCGGAGTTTTTACAAGCCCTTA 57.645 40.909 0.00 0.00 0.00 2.69
327 328 4.698304 CGGAGTTTTTACAAGCCCTTATCA 59.302 41.667 0.00 0.00 0.00 2.15
362 363 1.359459 GGGGCGACGATTCACTTCAC 61.359 60.000 0.00 0.00 0.00 3.18
374 375 2.276244 CTTCACAGATTGCGCGCG 60.276 61.111 28.44 28.44 0.00 6.86
405 406 0.109086 CTGGTCTGCATCGACGACTT 60.109 55.000 0.00 0.00 34.75 3.01
410 411 0.803768 CTGCATCGACGACTTCCCAG 60.804 60.000 0.00 0.00 0.00 4.45
411 412 1.248101 TGCATCGACGACTTCCCAGA 61.248 55.000 0.00 0.00 0.00 3.86
461 462 1.999648 AAAATTGCTCCACTGAGGCA 58.000 45.000 0.00 0.00 39.14 4.75
462 463 1.542492 AAATTGCTCCACTGAGGCAG 58.458 50.000 0.00 0.00 39.14 4.85
463 464 0.694771 AATTGCTCCACTGAGGCAGA 59.305 50.000 0.82 0.00 39.14 4.26
464 465 0.694771 ATTGCTCCACTGAGGCAGAA 59.305 50.000 0.82 0.00 39.14 3.02
465 466 0.473755 TTGCTCCACTGAGGCAGAAA 59.526 50.000 0.82 0.00 39.14 2.52
466 467 0.250467 TGCTCCACTGAGGCAGAAAC 60.250 55.000 0.82 0.00 39.14 2.78
467 468 0.957888 GCTCCACTGAGGCAGAAACC 60.958 60.000 0.82 0.00 39.14 3.27
468 469 0.397941 CTCCACTGAGGCAGAAACCA 59.602 55.000 0.82 0.00 37.29 3.67
469 470 0.843309 TCCACTGAGGCAGAAACCAA 59.157 50.000 0.82 0.00 37.29 3.67
470 471 1.214175 TCCACTGAGGCAGAAACCAAA 59.786 47.619 0.82 0.00 37.29 3.28
471 472 2.158475 TCCACTGAGGCAGAAACCAAAT 60.158 45.455 0.82 0.00 37.29 2.32
498 1836 0.927537 CGAGTTTTGCTCACGTCACA 59.072 50.000 0.00 0.00 44.33 3.58
499 1837 1.526887 CGAGTTTTGCTCACGTCACAT 59.473 47.619 0.00 0.00 44.33 3.21
500 1838 2.410262 CGAGTTTTGCTCACGTCACATC 60.410 50.000 0.00 0.00 44.33 3.06
502 1840 1.260561 GTTTTGCTCACGTCACATCGT 59.739 47.619 0.00 0.00 45.10 3.73
512 1850 1.153647 TCACATCGTCGGTGGATGC 60.154 57.895 10.81 0.00 43.98 3.91
518 1856 1.811266 CGTCGGTGGATGCAAGAGG 60.811 63.158 0.00 0.00 0.00 3.69
541 1879 2.370189 AGAAGACTTTGACCACTCCCAG 59.630 50.000 0.00 0.00 0.00 4.45
543 1881 2.625639 AGACTTTGACCACTCCCAGAT 58.374 47.619 0.00 0.00 0.00 2.90
621 1962 2.109229 ATAGGTGGAGATGGGTCTGG 57.891 55.000 0.00 0.00 33.97 3.86
629 1970 5.016831 GTGGAGATGGGTCTGGTTTTAAAT 58.983 41.667 0.00 0.00 33.97 1.40
633 1974 7.071824 TGGAGATGGGTCTGGTTTTAAATTTTT 59.928 33.333 0.00 0.00 33.97 1.94
738 2080 2.063266 GTGACATGGCAGCAATGTTTG 58.937 47.619 17.00 0.00 38.37 2.93
1555 2897 3.721035 GCATTTGGTTAGCAATGATCCC 58.279 45.455 0.00 0.00 32.91 3.85
1556 2898 3.493176 GCATTTGGTTAGCAATGATCCCC 60.493 47.826 0.00 0.00 32.91 4.81
1582 2934 7.381323 CCCTCTCTTGTTTGCATTCTATTTTT 58.619 34.615 0.00 0.00 0.00 1.94
1740 3093 4.849329 CTAGTGGCGACCGGCGTC 62.849 72.222 14.61 14.61 46.88 5.19
1768 3121 2.639065 ACTGGAAAGACGCTGAAAACA 58.361 42.857 0.00 0.00 0.00 2.83
1941 3294 7.539034 ACCAAAACAGAGTAAAGCCATATTT 57.461 32.000 0.00 0.00 0.00 1.40
2022 3375 9.542318 TGTGTGACACAAGGAAATCCTCCATTA 62.542 40.741 17.13 0.00 42.28 1.90
2132 3485 2.536803 CACAGCAAAATCAGTGTTGTGC 59.463 45.455 8.17 10.77 46.48 4.57
2211 3564 9.979578 TTTCTATTATCTGTGTTGCAAAATTGT 57.020 25.926 0.00 0.00 0.00 2.71
2214 3567 9.507280 CTATTATCTGTGTTGCAAAATTGTAGG 57.493 33.333 0.00 0.00 0.00 3.18
2215 3568 7.517614 TTATCTGTGTTGCAAAATTGTAGGA 57.482 32.000 0.00 0.00 0.00 2.94
2286 3801 1.893801 AGGTACTAGCGTGCTTGAACT 59.106 47.619 10.19 2.65 36.02 3.01
2342 3857 2.401583 AACTCAACAGCAGTGTGTGA 57.598 45.000 2.04 0.00 36.84 3.58
2344 3859 2.283298 ACTCAACAGCAGTGTGTGAAG 58.717 47.619 2.04 4.67 36.84 3.02
2405 3920 3.820557 ACAGGTTTGTGTACTCATGCTT 58.179 40.909 0.00 0.00 35.83 3.91
2409 3924 5.700832 CAGGTTTGTGTACTCATGCTTAGAA 59.299 40.000 0.00 0.00 0.00 2.10
2410 3925 6.204688 CAGGTTTGTGTACTCATGCTTAGAAA 59.795 38.462 0.00 0.00 0.00 2.52
2411 3926 6.942576 AGGTTTGTGTACTCATGCTTAGAAAT 59.057 34.615 0.00 0.00 0.00 2.17
2412 3927 7.448469 AGGTTTGTGTACTCATGCTTAGAAATT 59.552 33.333 0.00 0.00 0.00 1.82
2650 4181 4.762289 ATAATGAACTCTGGGTGTCCTC 57.238 45.455 0.00 0.00 0.00 3.71
2711 4242 7.041576 TGACTCAAGAAAATCTGATGACAGTTG 60.042 37.037 0.00 0.00 43.81 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.548357 ATGCACTCACGCCCTCTTCT 61.548 55.000 0.00 0.00 0.00 2.85
2 3 1.078848 ATGCACTCACGCCCTCTTC 60.079 57.895 0.00 0.00 0.00 2.87
3 4 1.376424 CATGCACTCACGCCCTCTT 60.376 57.895 0.00 0.00 0.00 2.85
4 5 2.267006 CATGCACTCACGCCCTCT 59.733 61.111 0.00 0.00 0.00 3.69
5 6 3.503363 GCATGCACTCACGCCCTC 61.503 66.667 14.21 0.00 0.00 4.30
6 7 3.965539 GAGCATGCACTCACGCCCT 62.966 63.158 21.98 0.00 36.65 5.19
8 9 3.503363 GGAGCATGCACTCACGCC 61.503 66.667 21.98 5.39 38.50 5.68
10 11 2.104859 CCAGGAGCATGCACTCACG 61.105 63.158 21.98 5.92 38.50 4.35
12 13 1.297689 GTCCAGGAGCATGCACTCA 59.702 57.895 21.98 3.65 38.50 3.41
13 14 1.812922 CGTCCAGGAGCATGCACTC 60.813 63.158 21.98 9.59 35.86 3.51
14 15 2.267006 CGTCCAGGAGCATGCACT 59.733 61.111 21.98 14.81 0.00 4.40
15 16 2.103042 GTCGTCCAGGAGCATGCAC 61.103 63.158 21.98 14.31 0.00 4.57
16 17 2.265739 GTCGTCCAGGAGCATGCA 59.734 61.111 21.98 0.00 0.00 3.96
17 18 1.812922 CAGTCGTCCAGGAGCATGC 60.813 63.158 10.51 10.51 0.00 4.06
18 19 0.738762 CACAGTCGTCCAGGAGCATG 60.739 60.000 0.00 0.00 0.00 4.06
19 20 0.900182 TCACAGTCGTCCAGGAGCAT 60.900 55.000 0.00 0.00 0.00 3.79
20 21 1.527433 CTCACAGTCGTCCAGGAGCA 61.527 60.000 0.00 0.00 0.00 4.26
21 22 1.214062 CTCACAGTCGTCCAGGAGC 59.786 63.158 0.00 0.00 0.00 4.70
22 23 1.214062 GCTCACAGTCGTCCAGGAG 59.786 63.158 0.00 0.00 0.00 3.69
23 24 1.228583 AGCTCACAGTCGTCCAGGA 60.229 57.895 0.00 0.00 0.00 3.86
24 25 1.214062 GAGCTCACAGTCGTCCAGG 59.786 63.158 9.40 0.00 0.00 4.45
25 26 1.154131 CGAGCTCACAGTCGTCCAG 60.154 63.158 15.40 0.00 0.00 3.86
26 27 1.599797 TCGAGCTCACAGTCGTCCA 60.600 57.895 15.40 0.00 37.46 4.02
27 28 1.154188 GTCGAGCTCACAGTCGTCC 60.154 63.158 15.40 0.00 37.46 4.79
28 29 0.169230 ATGTCGAGCTCACAGTCGTC 59.831 55.000 15.40 0.00 37.46 4.20
29 30 0.169230 GATGTCGAGCTCACAGTCGT 59.831 55.000 15.40 2.58 37.46 4.34
30 31 0.169009 TGATGTCGAGCTCACAGTCG 59.831 55.000 15.40 0.00 37.54 4.18
31 32 2.575694 ATGATGTCGAGCTCACAGTC 57.424 50.000 15.40 14.68 0.00 3.51
32 33 2.099921 GGTATGATGTCGAGCTCACAGT 59.900 50.000 15.40 9.72 0.00 3.55
33 34 2.544694 GGGTATGATGTCGAGCTCACAG 60.545 54.545 15.40 0.00 0.00 3.66
34 35 1.409064 GGGTATGATGTCGAGCTCACA 59.591 52.381 15.40 16.64 0.00 3.58
35 36 1.600663 CGGGTATGATGTCGAGCTCAC 60.601 57.143 15.40 11.50 0.00 3.51
36 37 0.668535 CGGGTATGATGTCGAGCTCA 59.331 55.000 15.40 0.00 0.00 4.26
37 38 0.952280 TCGGGTATGATGTCGAGCTC 59.048 55.000 2.73 2.73 0.00 4.09
38 39 1.067212 GTTCGGGTATGATGTCGAGCT 59.933 52.381 0.00 0.00 33.11 4.09
39 40 1.202371 TGTTCGGGTATGATGTCGAGC 60.202 52.381 0.00 0.00 34.37 5.03
40 41 2.863401 TGTTCGGGTATGATGTCGAG 57.137 50.000 0.00 0.00 33.11 4.04
41 42 2.429250 ACATGTTCGGGTATGATGTCGA 59.571 45.455 0.00 0.00 0.00 4.20
42 43 2.794910 GACATGTTCGGGTATGATGTCG 59.205 50.000 0.00 0.00 35.10 4.35
43 44 3.792401 TGACATGTTCGGGTATGATGTC 58.208 45.455 0.00 0.00 42.11 3.06
44 45 3.904800 TGACATGTTCGGGTATGATGT 57.095 42.857 0.00 0.00 0.00 3.06
45 46 4.129380 ACATGACATGTTCGGGTATGATG 58.871 43.478 15.48 0.00 41.63 3.07
46 47 4.422073 ACATGACATGTTCGGGTATGAT 57.578 40.909 15.48 0.00 41.63 2.45
47 48 3.904800 ACATGACATGTTCGGGTATGA 57.095 42.857 15.48 0.00 41.63 2.15
48 49 4.507756 CACTACATGACATGTTCGGGTATG 59.492 45.833 25.34 10.16 41.63 2.39
49 50 4.442893 CCACTACATGACATGTTCGGGTAT 60.443 45.833 25.34 1.42 41.63 2.73
50 51 3.118920 CCACTACATGACATGTTCGGGTA 60.119 47.826 25.34 6.36 41.63 3.69
51 52 2.354704 CCACTACATGACATGTTCGGGT 60.355 50.000 25.34 15.66 41.63 5.28
52 53 2.279741 CCACTACATGACATGTTCGGG 58.720 52.381 25.34 18.73 41.63 5.14
53 54 1.665679 GCCACTACATGACATGTTCGG 59.334 52.381 25.34 21.59 41.63 4.30
54 55 2.345876 TGCCACTACATGACATGTTCG 58.654 47.619 25.34 18.28 41.63 3.95
63 64 2.353357 ATCACCCATGCCACTACATG 57.647 50.000 0.00 0.00 45.74 3.21
64 65 3.386932 AAATCACCCATGCCACTACAT 57.613 42.857 0.00 0.00 0.00 2.29
65 66 2.897271 AAATCACCCATGCCACTACA 57.103 45.000 0.00 0.00 0.00 2.74
85 86 9.689501 TGAAGACTCCCTAAAGAAAAGTTAAAA 57.310 29.630 0.00 0.00 0.00 1.52
86 87 9.862149 ATGAAGACTCCCTAAAGAAAAGTTAAA 57.138 29.630 0.00 0.00 0.00 1.52
89 90 8.661345 ACTATGAAGACTCCCTAAAGAAAAGTT 58.339 33.333 0.00 0.00 0.00 2.66
90 91 8.208575 ACTATGAAGACTCCCTAAAGAAAAGT 57.791 34.615 0.00 0.00 0.00 2.66
91 92 9.508642 AAACTATGAAGACTCCCTAAAGAAAAG 57.491 33.333 0.00 0.00 0.00 2.27
92 93 9.284968 CAAACTATGAAGACTCCCTAAAGAAAA 57.715 33.333 0.00 0.00 0.00 2.29
93 94 7.883311 CCAAACTATGAAGACTCCCTAAAGAAA 59.117 37.037 0.00 0.00 0.00 2.52
94 95 7.394816 CCAAACTATGAAGACTCCCTAAAGAA 58.605 38.462 0.00 0.00 0.00 2.52
95 96 6.070194 CCCAAACTATGAAGACTCCCTAAAGA 60.070 42.308 0.00 0.00 0.00 2.52
96 97 6.116126 CCCAAACTATGAAGACTCCCTAAAG 58.884 44.000 0.00 0.00 0.00 1.85
97 98 5.045140 CCCCAAACTATGAAGACTCCCTAAA 60.045 44.000 0.00 0.00 0.00 1.85
98 99 4.473559 CCCCAAACTATGAAGACTCCCTAA 59.526 45.833 0.00 0.00 0.00 2.69
99 100 4.037927 CCCCAAACTATGAAGACTCCCTA 58.962 47.826 0.00 0.00 0.00 3.53
100 101 2.846827 CCCCAAACTATGAAGACTCCCT 59.153 50.000 0.00 0.00 0.00 4.20
101 102 2.576648 ACCCCAAACTATGAAGACTCCC 59.423 50.000 0.00 0.00 0.00 4.30
102 103 3.610911 CACCCCAAACTATGAAGACTCC 58.389 50.000 0.00 0.00 0.00 3.85
103 104 3.610911 CCACCCCAAACTATGAAGACTC 58.389 50.000 0.00 0.00 0.00 3.36
104 105 2.290960 GCCACCCCAAACTATGAAGACT 60.291 50.000 0.00 0.00 0.00 3.24
105 106 2.092323 GCCACCCCAAACTATGAAGAC 58.908 52.381 0.00 0.00 0.00 3.01
106 107 1.707989 TGCCACCCCAAACTATGAAGA 59.292 47.619 0.00 0.00 0.00 2.87
107 108 2.214376 TGCCACCCCAAACTATGAAG 57.786 50.000 0.00 0.00 0.00 3.02
108 109 2.524306 CTTGCCACCCCAAACTATGAA 58.476 47.619 0.00 0.00 0.00 2.57
109 110 1.272425 CCTTGCCACCCCAAACTATGA 60.272 52.381 0.00 0.00 0.00 2.15
110 111 1.185315 CCTTGCCACCCCAAACTATG 58.815 55.000 0.00 0.00 0.00 2.23
111 112 0.614697 GCCTTGCCACCCCAAACTAT 60.615 55.000 0.00 0.00 0.00 2.12
112 113 1.228737 GCCTTGCCACCCCAAACTA 60.229 57.895 0.00 0.00 0.00 2.24
113 114 2.524148 GCCTTGCCACCCCAAACT 60.524 61.111 0.00 0.00 0.00 2.66
114 115 3.989787 CGCCTTGCCACCCCAAAC 61.990 66.667 0.00 0.00 0.00 2.93
130 131 3.141488 ACTAGGTCAGCGCCTCCG 61.141 66.667 2.29 0.00 39.94 4.63
131 132 1.035932 TACACTAGGTCAGCGCCTCC 61.036 60.000 2.29 4.11 39.94 4.30
132 133 0.382515 CTACACTAGGTCAGCGCCTC 59.617 60.000 2.29 0.00 39.94 4.70
133 134 1.038130 CCTACACTAGGTCAGCGCCT 61.038 60.000 2.29 0.00 41.18 5.52
134 135 1.437986 CCTACACTAGGTCAGCGCC 59.562 63.158 2.29 0.00 41.18 6.53
143 144 8.182881 GCGGTGAGAATATTATACCTACACTAG 58.817 40.741 11.35 0.00 0.00 2.57
144 145 7.666804 TGCGGTGAGAATATTATACCTACACTA 59.333 37.037 11.35 0.00 0.00 2.74
145 146 6.492429 TGCGGTGAGAATATTATACCTACACT 59.508 38.462 11.35 0.00 0.00 3.55
146 147 6.585322 GTGCGGTGAGAATATTATACCTACAC 59.415 42.308 14.94 14.94 32.73 2.90
147 148 6.492429 AGTGCGGTGAGAATATTATACCTACA 59.508 38.462 11.35 7.94 0.00 2.74
148 149 6.921914 AGTGCGGTGAGAATATTATACCTAC 58.078 40.000 11.35 10.19 0.00 3.18
149 150 7.534723 AAGTGCGGTGAGAATATTATACCTA 57.465 36.000 11.35 1.72 0.00 3.08
150 151 6.420913 AAGTGCGGTGAGAATATTATACCT 57.579 37.500 11.35 0.00 0.00 3.08
151 152 6.147328 GGAAAGTGCGGTGAGAATATTATACC 59.853 42.308 0.00 0.00 0.00 2.73
152 153 6.147328 GGGAAAGTGCGGTGAGAATATTATAC 59.853 42.308 0.00 0.00 0.00 1.47
153 154 6.228258 GGGAAAGTGCGGTGAGAATATTATA 58.772 40.000 0.00 0.00 0.00 0.98
154 155 5.063880 GGGAAAGTGCGGTGAGAATATTAT 58.936 41.667 0.00 0.00 0.00 1.28
155 156 4.448210 GGGAAAGTGCGGTGAGAATATTA 58.552 43.478 0.00 0.00 0.00 0.98
156 157 3.279434 GGGAAAGTGCGGTGAGAATATT 58.721 45.455 0.00 0.00 0.00 1.28
157 158 2.421529 GGGGAAAGTGCGGTGAGAATAT 60.422 50.000 0.00 0.00 0.00 1.28
158 159 1.065709 GGGGAAAGTGCGGTGAGAATA 60.066 52.381 0.00 0.00 0.00 1.75
159 160 0.322546 GGGGAAAGTGCGGTGAGAAT 60.323 55.000 0.00 0.00 0.00 2.40
160 161 1.072505 GGGGAAAGTGCGGTGAGAA 59.927 57.895 0.00 0.00 0.00 2.87
161 162 2.747686 GGGGAAAGTGCGGTGAGA 59.252 61.111 0.00 0.00 0.00 3.27
162 163 2.359975 GGGGGAAAGTGCGGTGAG 60.360 66.667 0.00 0.00 0.00 3.51
163 164 2.406002 GAAGGGGGAAAGTGCGGTGA 62.406 60.000 0.00 0.00 0.00 4.02
164 165 1.971695 GAAGGGGGAAAGTGCGGTG 60.972 63.158 0.00 0.00 0.00 4.94
165 166 2.434774 GAAGGGGGAAAGTGCGGT 59.565 61.111 0.00 0.00 0.00 5.68
166 167 2.361230 GGAAGGGGGAAAGTGCGG 60.361 66.667 0.00 0.00 0.00 5.69
167 168 0.611896 AATGGAAGGGGGAAAGTGCG 60.612 55.000 0.00 0.00 0.00 5.34
168 169 0.897621 CAATGGAAGGGGGAAAGTGC 59.102 55.000 0.00 0.00 0.00 4.40
169 170 1.203174 ACCAATGGAAGGGGGAAAGTG 60.203 52.381 6.16 0.00 0.00 3.16
170 171 1.167033 ACCAATGGAAGGGGGAAAGT 58.833 50.000 6.16 0.00 0.00 2.66
171 172 1.203174 ACACCAATGGAAGGGGGAAAG 60.203 52.381 6.16 0.00 32.36 2.62
172 173 0.863956 ACACCAATGGAAGGGGGAAA 59.136 50.000 6.16 0.00 32.36 3.13
173 174 0.114168 CACACCAATGGAAGGGGGAA 59.886 55.000 6.16 0.00 32.36 3.97
174 175 0.774096 TCACACCAATGGAAGGGGGA 60.774 55.000 6.16 0.00 32.36 4.81
175 176 0.336048 ATCACACCAATGGAAGGGGG 59.664 55.000 6.16 0.00 32.36 5.40
176 177 1.826720 CAATCACACCAATGGAAGGGG 59.173 52.381 6.16 0.00 35.02 4.79
177 178 2.493278 GACAATCACACCAATGGAAGGG 59.507 50.000 6.16 0.00 0.00 3.95
178 179 2.162208 CGACAATCACACCAATGGAAGG 59.838 50.000 6.16 0.00 0.00 3.46
179 180 2.414559 GCGACAATCACACCAATGGAAG 60.415 50.000 6.16 0.00 0.00 3.46
180 181 1.539388 GCGACAATCACACCAATGGAA 59.461 47.619 6.16 0.00 0.00 3.53
181 182 1.164411 GCGACAATCACACCAATGGA 58.836 50.000 6.16 0.00 0.00 3.41
182 183 0.171007 GGCGACAATCACACCAATGG 59.829 55.000 0.00 0.00 0.00 3.16
183 184 0.179192 CGGCGACAATCACACCAATG 60.179 55.000 0.00 0.00 0.00 2.82
184 185 1.305219 CCGGCGACAATCACACCAAT 61.305 55.000 9.30 0.00 0.00 3.16
185 186 1.963855 CCGGCGACAATCACACCAA 60.964 57.895 9.30 0.00 0.00 3.67
186 187 2.358125 CCGGCGACAATCACACCA 60.358 61.111 9.30 0.00 0.00 4.17
187 188 3.799755 GCCGGCGACAATCACACC 61.800 66.667 12.58 0.00 0.00 4.16
188 189 4.147322 CGCCGGCGACAATCACAC 62.147 66.667 44.86 0.00 42.83 3.82
210 211 4.722700 AGACATGGCCCCACACGC 62.723 66.667 0.00 0.00 0.00 5.34
211 212 2.436646 GAGACATGGCCCCACACG 60.437 66.667 0.00 0.00 0.00 4.49
212 213 1.377725 CAGAGACATGGCCCCACAC 60.378 63.158 0.00 0.00 0.00 3.82
213 214 2.605607 CCAGAGACATGGCCCCACA 61.606 63.158 0.00 0.00 32.48 4.17
214 215 2.273449 CCAGAGACATGGCCCCAC 59.727 66.667 0.00 0.00 32.48 4.61
235 236 0.382515 CCGACAGGATCTCGAAGGAC 59.617 60.000 4.55 0.00 41.02 3.85
243 244 3.055312 GGAAACCTAAACCGACAGGATCT 60.055 47.826 0.00 0.00 41.02 2.75
260 261 1.826385 CAGACAGGTCCATGGGAAAC 58.174 55.000 13.02 2.24 31.38 2.78
267 268 0.107508 CCGAATGCAGACAGGTCCAT 60.108 55.000 0.00 0.00 0.00 3.41
280 281 1.303309 CCAGGAAAGCTAGCCGAATG 58.697 55.000 12.13 4.37 0.00 2.67
285 286 2.484889 CGAATACCAGGAAAGCTAGCC 58.515 52.381 12.13 0.00 0.00 3.93
296 297 5.391629 GGCTTGTAAAAACTCCGAATACCAG 60.392 44.000 0.00 0.00 0.00 4.00
324 325 3.377172 CCCCGAATAAGAAAAACGCTGAT 59.623 43.478 0.00 0.00 0.00 2.90
327 328 1.471287 GCCCCGAATAAGAAAAACGCT 59.529 47.619 0.00 0.00 0.00 5.07
374 375 0.463833 CAGACCAGGAAATACCGGCC 60.464 60.000 0.00 0.00 44.74 6.13
379 380 2.866762 GTCGATGCAGACCAGGAAATAC 59.133 50.000 0.00 0.00 35.22 1.89
380 381 2.481276 CGTCGATGCAGACCAGGAAATA 60.481 50.000 0.00 0.00 37.85 1.40
383 384 1.215382 CGTCGATGCAGACCAGGAA 59.785 57.895 0.00 0.00 37.85 3.36
405 406 1.375013 GTAAAAGCGGCGTCTGGGA 60.375 57.895 9.37 0.00 0.00 4.37
410 411 4.434876 GCTTGTAAAAGCGGCGTC 57.565 55.556 9.37 0.13 35.93 5.19
442 443 1.891150 CTGCCTCAGTGGAGCAATTTT 59.109 47.619 8.94 0.00 39.96 1.82
443 444 1.074405 TCTGCCTCAGTGGAGCAATTT 59.926 47.619 8.94 0.00 39.96 1.82
444 445 0.694771 TCTGCCTCAGTGGAGCAATT 59.305 50.000 8.94 0.00 39.96 2.32
446 447 0.473755 TTTCTGCCTCAGTGGAGCAA 59.526 50.000 8.94 0.00 39.96 3.91
447 448 0.250467 GTTTCTGCCTCAGTGGAGCA 60.250 55.000 7.61 7.61 39.96 4.26
448 449 0.957888 GGTTTCTGCCTCAGTGGAGC 60.958 60.000 0.00 0.00 39.96 4.70
449 450 0.397941 TGGTTTCTGCCTCAGTGGAG 59.602 55.000 0.00 0.00 41.02 3.86
450 451 0.843309 TTGGTTTCTGCCTCAGTGGA 59.157 50.000 0.00 0.00 38.35 4.02
451 452 1.691196 TTTGGTTTCTGCCTCAGTGG 58.309 50.000 0.00 0.00 39.35 4.00
453 454 1.615392 GCATTTGGTTTCTGCCTCAGT 59.385 47.619 0.00 0.00 32.61 3.41
455 456 1.614903 CAGCATTTGGTTTCTGCCTCA 59.385 47.619 0.00 0.00 36.56 3.86
456 457 1.670967 GCAGCATTTGGTTTCTGCCTC 60.671 52.381 1.96 0.00 44.35 4.70
457 458 0.319405 GCAGCATTTGGTTTCTGCCT 59.681 50.000 1.96 0.00 44.35 4.75
461 462 2.161855 TCGATGCAGCATTTGGTTTCT 58.838 42.857 9.90 0.00 0.00 2.52
462 463 2.095059 ACTCGATGCAGCATTTGGTTTC 60.095 45.455 9.90 0.00 0.00 2.78
463 464 1.888512 ACTCGATGCAGCATTTGGTTT 59.111 42.857 9.90 0.00 0.00 3.27
464 465 1.538047 ACTCGATGCAGCATTTGGTT 58.462 45.000 9.90 0.00 0.00 3.67
465 466 1.538047 AACTCGATGCAGCATTTGGT 58.462 45.000 9.90 5.85 0.00 3.67
466 467 2.642139 AAACTCGATGCAGCATTTGG 57.358 45.000 9.90 5.21 0.00 3.28
467 468 2.091588 GCAAAACTCGATGCAGCATTTG 59.908 45.455 9.90 10.65 42.12 2.32
468 469 2.029649 AGCAAAACTCGATGCAGCATTT 60.030 40.909 9.90 0.00 44.95 2.32
469 470 1.542915 AGCAAAACTCGATGCAGCATT 59.457 42.857 9.90 0.00 44.95 3.56
470 471 1.131883 GAGCAAAACTCGATGCAGCAT 59.868 47.619 7.91 7.91 44.95 3.79
471 472 0.518636 GAGCAAAACTCGATGCAGCA 59.481 50.000 11.05 0.00 44.95 4.41
498 1836 0.179100 CTCTTGCATCCACCGACGAT 60.179 55.000 0.00 0.00 0.00 3.73
499 1837 1.215382 CTCTTGCATCCACCGACGA 59.785 57.895 0.00 0.00 0.00 4.20
500 1838 1.811266 CCTCTTGCATCCACCGACG 60.811 63.158 0.00 0.00 0.00 5.12
502 1840 0.250234 CTTCCTCTTGCATCCACCGA 59.750 55.000 0.00 0.00 0.00 4.69
512 1850 4.513318 GTGGTCAAAGTCTTCTTCCTCTTG 59.487 45.833 0.00 0.00 32.90 3.02
518 1856 3.181454 TGGGAGTGGTCAAAGTCTTCTTC 60.181 47.826 0.00 0.00 32.90 2.87
603 1944 0.716591 ACCAGACCCATCTCCACCTA 59.283 55.000 0.00 0.00 30.42 3.08
633 1974 4.083565 CGGAGATTTTTGGGGGAAAGTAA 58.916 43.478 0.00 0.00 0.00 2.24
681 2023 4.436332 GGGTCATTCATTTGAAATGGAGC 58.564 43.478 17.01 14.71 37.61 4.70
771 2113 1.617947 CGGGGGAAGAAGACAGGAGG 61.618 65.000 0.00 0.00 0.00 4.30
780 2122 2.298661 GGGAAGAGCGGGGGAAGAA 61.299 63.158 0.00 0.00 0.00 2.52
995 2337 1.063417 CCTTGGAGATCCCCATTGCTT 60.063 52.381 0.00 0.00 35.87 3.91
1555 2897 1.821136 GAATGCAAACAAGAGAGGGGG 59.179 52.381 0.00 0.00 0.00 5.40
1556 2898 2.800250 AGAATGCAAACAAGAGAGGGG 58.200 47.619 0.00 0.00 0.00 4.79
1624 2977 3.558931 TCTTCATGTGGTGTCACTTGT 57.441 42.857 2.35 0.00 44.50 3.16
1625 2978 6.558771 TTTATCTTCATGTGGTGTCACTTG 57.441 37.500 2.35 6.19 45.12 3.16
1734 3087 2.170985 CAGTTTTCAGCGACGCCG 59.829 61.111 17.79 6.44 39.16 6.46
1740 3093 1.660333 GCGTCTTTCCAGTTTTCAGCG 60.660 52.381 0.00 0.00 0.00 5.18
1768 3121 2.091055 TCTTCCTCCTTCCTCGGATGAT 60.091 50.000 0.75 0.00 29.57 2.45
1941 3294 6.702449 AGAATGGCATGGTATTCCTATACA 57.298 37.500 0.00 0.00 38.71 2.29
2058 3411 6.907748 CACACATACATTGAACAAACACGTAA 59.092 34.615 0.00 0.00 0.00 3.18
2132 3485 8.330466 TCCATTATAAACCAAAGTGTACACTG 57.670 34.615 28.55 18.30 41.58 3.66
2210 3563 6.461640 TGAAGTTAAACCTTGCTACTCCTAC 58.538 40.000 0.00 0.00 0.00 3.18
2211 3564 6.675413 TGAAGTTAAACCTTGCTACTCCTA 57.325 37.500 0.00 0.00 0.00 2.94
2212 3565 5.562298 TGAAGTTAAACCTTGCTACTCCT 57.438 39.130 0.00 0.00 0.00 3.69
2213 3566 6.628919 TTTGAAGTTAAACCTTGCTACTCC 57.371 37.500 0.00 0.00 0.00 3.85
2214 3567 7.803659 GTCATTTGAAGTTAAACCTTGCTACTC 59.196 37.037 0.00 0.00 0.00 2.59
2215 3568 7.284489 TGTCATTTGAAGTTAAACCTTGCTACT 59.716 33.333 0.00 0.00 0.00 2.57
2276 3791 6.539649 TTTACATCTGTACAGTTCAAGCAC 57.460 37.500 21.99 0.00 0.00 4.40
2405 3920 5.281349 GGAGGGAACAAAGGGGTAATTTCTA 60.281 44.000 0.00 0.00 0.00 2.10
2409 3924 3.001086 AGGAGGGAACAAAGGGGTAATT 58.999 45.455 0.00 0.00 0.00 1.40
2410 3925 2.655914 AGGAGGGAACAAAGGGGTAAT 58.344 47.619 0.00 0.00 0.00 1.89
2411 3926 2.143231 AGGAGGGAACAAAGGGGTAA 57.857 50.000 0.00 0.00 0.00 2.85
2412 3927 3.294806 TTAGGAGGGAACAAAGGGGTA 57.705 47.619 0.00 0.00 0.00 3.69
2650 4181 3.423539 TCCTGGAGTGAGAACAAATGG 57.576 47.619 0.00 0.00 0.00 3.16
2711 4242 3.368236 GGAGAACTTGTCAGAATGCGTAC 59.632 47.826 0.00 0.00 34.76 3.67


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

AutoCloner maintained by Alex Coulton.