Multiple sequence alignment - TraesCS4B01G282000

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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 TraesCS4B01G282000 chr4B 100.000 3488 0 0 1 3488 565089652 565093139 0.000000e+00 6442.0
1 TraesCS4B01G282000 chr4B 80.044 456 84 6 2638 3091 59236272 59236722 7.220000e-87 331.0
2 TraesCS4B01G282000 chr4B 80.057 351 64 5 2638 2986 59226827 59227173 4.470000e-64 255.0
3 TraesCS4B01G282000 chr4D 93.478 2760 99 29 758 3488 451682630 451685337 0.000000e+00 4024.0
4 TraesCS4B01G282000 chr4D 87.556 450 37 6 836 1284 451640385 451640816 1.450000e-138 503.0
5 TraesCS4B01G282000 chr4D 86.777 363 37 10 260 618 451639888 451640243 9.070000e-106 394.0
6 TraesCS4B01G282000 chr4D 80.984 447 80 4 2646 3091 40567681 40568123 1.990000e-92 350.0
7 TraesCS4B01G282000 chr4D 93.293 164 8 3 423 586 451678753 451678913 4.500000e-59 239.0
8 TraesCS4B01G282000 chr4D 93.671 79 4 1 660 737 451640233 451640311 2.200000e-22 117.0
9 TraesCS4B01G282000 chr4D 93.750 64 1 3 569 629 451681338 451681401 3.710000e-15 93.5
10 TraesCS4B01G282000 chr4A 93.213 2210 94 20 1323 3488 15124496 15126693 0.000000e+00 3199.0
11 TraesCS4B01G282000 chr4A 91.238 525 25 3 778 1295 15123684 15124194 0.000000e+00 695.0
12 TraesCS4B01G282000 chr4A 82.379 454 77 2 2638 3091 559067760 559068210 3.260000e-105 392.0
13 TraesCS4B01G282000 chr4A 89.510 143 14 1 118 259 597178786 597178928 2.770000e-41 180.0
14 TraesCS4B01G282000 chr7B 95.420 262 11 1 1 262 735035320 735035580 1.940000e-112 416.0
15 TraesCS4B01G282000 chr5B 86.047 258 33 3 2 257 55229185 55228929 1.230000e-69 274.0
16 TraesCS4B01G282000 chr5B 82.836 268 36 10 1 262 8026017 8026280 7.530000e-57 231.0
17 TraesCS4B01G282000 chr2D 94.798 173 7 1 1 173 355689397 355689567 5.740000e-68 268.0
18 TraesCS4B01G282000 chr2D 86.250 80 6 5 174 251 629069298 629069222 8.020000e-12 82.4
19 TraesCS4B01G282000 chr5A 83.525 261 33 10 3 259 692269906 692269652 5.820000e-58 235.0
20 TraesCS4B01G282000 chr6B 74.086 629 126 32 2645 3256 30967919 30967311 1.260000e-54 224.0
21 TraesCS4B01G282000 chr6B 73.684 418 91 17 2645 3051 31574783 31575192 1.010000e-30 145.0
22 TraesCS4B01G282000 chr2A 82.759 261 35 10 3 259 38394872 38394618 1.260000e-54 224.0
23 TraesCS4B01G282000 chr6A 82.490 257 35 10 10 262 63831938 63831688 2.110000e-52 217.0
24 TraesCS4B01G282000 chr1D 82.353 102 11 7 174 271 355097159 355097061 8.020000e-12 82.4


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 TraesCS4B01G282000 chr4B 565089652 565093139 3487 False 6442.000000 6442 100.000000 1 3488 1 chr4B.!!$F3 3487
1 TraesCS4B01G282000 chr4D 451678753 451685337 6584 False 1452.166667 4024 93.507000 423 3488 3 chr4D.!!$F3 3065
2 TraesCS4B01G282000 chr4D 451639888 451640816 928 False 338.000000 503 89.334667 260 1284 3 chr4D.!!$F2 1024
3 TraesCS4B01G282000 chr4A 15123684 15126693 3009 False 1947.000000 3199 92.225500 778 3488 2 chr4A.!!$F3 2710
4 TraesCS4B01G282000 chr6B 30967311 30967919 608 True 224.000000 224 74.086000 2645 3256 1 chr6B.!!$R1 611

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
131 132 0.028902 GCAGTCACCGCGTTCTTTTT 59.971 50.0 4.92 0.00 0.00 1.94 F
205 206 0.031585 TGTATGCTGGATCGTACGGC 59.968 55.0 16.52 10.93 40.60 5.68 F
751 4386 0.040499 AATAAGGCCTCCCCGCAAAA 59.960 50.0 5.23 0.00 39.21 2.44 F
1893 5862 0.460284 GTGCTCATGTACCTGTCCGG 60.460 60.0 0.00 0.00 39.35 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1671 5611 0.108424 GGGGAGAGCATAGCATAGCG 60.108 60.0 0.0 0.0 35.48 4.26 R
2165 6144 1.095228 CACAGGTTTCACTGCCACGT 61.095 55.0 0.0 0.0 42.21 4.49 R
2262 6241 1.107114 ACTTCTCGCCATCGATCACT 58.893 50.0 0.0 0.0 44.56 3.41 R
2839 6831 1.132500 GGATGGACCCCTTCTACCTG 58.868 60.0 0.0 0.0 0.00 4.00 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 4.357947 GTGAGCACCGTCGCTGGA 62.358 66.667 0.00 0.00 44.01 3.86
18 19 4.056125 TGAGCACCGTCGCTGGAG 62.056 66.667 0.00 0.00 44.01 3.86
19 20 3.749064 GAGCACCGTCGCTGGAGA 61.749 66.667 0.00 0.00 44.01 3.71
20 21 3.973267 GAGCACCGTCGCTGGAGAC 62.973 68.421 0.00 0.00 44.01 3.36
27 28 3.579685 TCGCTGGAGACGACAGAG 58.420 61.111 0.00 1.11 38.20 3.35
28 29 1.302591 TCGCTGGAGACGACAGAGT 60.303 57.895 0.00 0.00 38.20 3.24
29 30 0.036671 TCGCTGGAGACGACAGAGTA 60.037 55.000 0.00 0.00 38.20 2.59
30 31 0.375454 CGCTGGAGACGACAGAGTAG 59.625 60.000 0.00 0.00 38.20 2.57
31 32 0.736053 GCTGGAGACGACAGAGTAGG 59.264 60.000 0.00 0.00 38.20 3.18
32 33 0.736053 CTGGAGACGACAGAGTAGGC 59.264 60.000 0.00 0.00 38.20 3.93
33 34 0.680280 TGGAGACGACAGAGTAGGCC 60.680 60.000 0.00 0.00 0.00 5.19
34 35 0.394625 GGAGACGACAGAGTAGGCCT 60.395 60.000 11.78 11.78 0.00 5.19
35 36 0.736053 GAGACGACAGAGTAGGCCTG 59.264 60.000 17.99 0.25 37.64 4.85
36 37 1.139947 GACGACAGAGTAGGCCTGC 59.860 63.158 17.99 15.82 35.14 4.85
37 38 2.286127 GACGACAGAGTAGGCCTGCC 62.286 65.000 17.99 8.44 35.14 4.85
38 39 2.496817 GACAGAGTAGGCCTGCCG 59.503 66.667 17.99 8.32 41.95 5.69
39 40 2.283966 ACAGAGTAGGCCTGCCGT 60.284 61.111 17.99 9.04 41.95 5.68
40 41 2.286127 GACAGAGTAGGCCTGCCGTC 62.286 65.000 17.99 16.90 41.95 4.79
41 42 3.141488 AGAGTAGGCCTGCCGTCG 61.141 66.667 17.99 0.00 41.95 5.12
42 43 3.450115 GAGTAGGCCTGCCGTCGT 61.450 66.667 17.99 0.00 41.95 4.34
43 44 3.701604 GAGTAGGCCTGCCGTCGTG 62.702 68.421 17.99 0.00 41.95 4.35
44 45 3.755628 GTAGGCCTGCCGTCGTGA 61.756 66.667 17.99 0.00 41.95 4.35
45 46 3.449227 TAGGCCTGCCGTCGTGAG 61.449 66.667 17.99 0.00 41.95 3.51
63 64 4.841861 CGGGGCCGCCATAAACGA 62.842 66.667 15.16 0.00 0.00 3.85
64 65 2.203294 GGGGCCGCCATAAACGAT 60.203 61.111 12.58 0.00 0.00 3.73
65 66 2.551912 GGGGCCGCCATAAACGATG 61.552 63.158 12.58 0.00 35.05 3.84
66 67 2.331451 GGCCGCCATAAACGATGC 59.669 61.111 3.91 0.00 33.79 3.91
67 68 2.331451 GCCGCCATAAACGATGCC 59.669 61.111 0.00 0.00 33.79 4.40
68 69 3.030652 CCGCCATAAACGATGCCC 58.969 61.111 0.00 0.00 33.79 5.36
69 70 1.525995 CCGCCATAAACGATGCCCT 60.526 57.895 0.00 0.00 33.79 5.19
70 71 1.507141 CCGCCATAAACGATGCCCTC 61.507 60.000 0.00 0.00 33.79 4.30
71 72 0.532862 CGCCATAAACGATGCCCTCT 60.533 55.000 0.00 0.00 33.79 3.69
72 73 1.680338 GCCATAAACGATGCCCTCTT 58.320 50.000 0.00 0.00 33.79 2.85
73 74 2.024414 GCCATAAACGATGCCCTCTTT 58.976 47.619 0.00 0.00 33.79 2.52
74 75 2.427095 GCCATAAACGATGCCCTCTTTT 59.573 45.455 0.00 0.00 33.79 2.27
75 76 3.734902 GCCATAAACGATGCCCTCTTTTG 60.735 47.826 0.00 0.00 33.79 2.44
76 77 3.181487 CCATAAACGATGCCCTCTTTTGG 60.181 47.826 0.00 0.00 33.79 3.28
82 83 3.282271 GCCCTCTTTTGGCTCTGC 58.718 61.111 0.00 0.00 45.70 4.26
83 84 2.694760 GCCCTCTTTTGGCTCTGCG 61.695 63.158 0.00 0.00 45.70 5.18
84 85 1.003355 CCCTCTTTTGGCTCTGCGA 60.003 57.895 0.00 0.00 0.00 5.10
85 86 1.301677 CCCTCTTTTGGCTCTGCGAC 61.302 60.000 0.00 0.00 0.00 5.19
86 87 1.630244 CCTCTTTTGGCTCTGCGACG 61.630 60.000 0.00 0.00 0.00 5.12
87 88 0.667487 CTCTTTTGGCTCTGCGACGA 60.667 55.000 0.00 0.00 0.00 4.20
88 89 0.667487 TCTTTTGGCTCTGCGACGAG 60.667 55.000 0.00 0.00 0.00 4.18
129 130 3.330275 GCAGTCACCGCGTTCTTT 58.670 55.556 4.92 0.00 0.00 2.52
130 131 1.647084 GCAGTCACCGCGTTCTTTT 59.353 52.632 4.92 0.00 0.00 2.27
131 132 0.028902 GCAGTCACCGCGTTCTTTTT 59.971 50.000 4.92 0.00 0.00 1.94
153 154 5.860941 TTTTTGTATGCAAAGACAGGGAA 57.139 34.783 8.99 0.00 44.32 3.97
154 155 5.452078 TTTTGTATGCAAAGACAGGGAAG 57.548 39.130 8.99 0.00 44.32 3.46
155 156 4.365514 TTGTATGCAAAGACAGGGAAGA 57.634 40.909 0.00 0.00 0.00 2.87
156 157 4.365514 TGTATGCAAAGACAGGGAAGAA 57.634 40.909 0.00 0.00 0.00 2.52
157 158 4.326826 TGTATGCAAAGACAGGGAAGAAG 58.673 43.478 0.00 0.00 0.00 2.85
158 159 3.795688 ATGCAAAGACAGGGAAGAAGA 57.204 42.857 0.00 0.00 0.00 2.87
159 160 3.795688 TGCAAAGACAGGGAAGAAGAT 57.204 42.857 0.00 0.00 0.00 2.40
160 161 3.415212 TGCAAAGACAGGGAAGAAGATG 58.585 45.455 0.00 0.00 0.00 2.90
161 162 2.163211 GCAAAGACAGGGAAGAAGATGC 59.837 50.000 0.00 0.00 0.00 3.91
162 163 3.683802 CAAAGACAGGGAAGAAGATGCT 58.316 45.455 0.00 0.00 0.00 3.79
163 164 3.347077 AAGACAGGGAAGAAGATGCTG 57.653 47.619 0.00 0.00 0.00 4.41
164 165 1.558756 AGACAGGGAAGAAGATGCTGG 59.441 52.381 0.00 0.00 0.00 4.85
165 166 0.034670 ACAGGGAAGAAGATGCTGGC 60.035 55.000 0.00 0.00 0.00 4.85
166 167 1.094073 CAGGGAAGAAGATGCTGGCG 61.094 60.000 0.00 0.00 0.00 5.69
167 168 1.078143 GGGAAGAAGATGCTGGCGT 60.078 57.895 0.00 0.00 0.00 5.68
168 169 1.372087 GGGAAGAAGATGCTGGCGTG 61.372 60.000 0.00 0.00 0.00 5.34
169 170 1.372087 GGAAGAAGATGCTGGCGTGG 61.372 60.000 0.00 0.00 0.00 4.94
170 171 1.372087 GAAGAAGATGCTGGCGTGGG 61.372 60.000 0.00 0.00 0.00 4.61
171 172 2.825836 GAAGATGCTGGCGTGGGG 60.826 66.667 0.00 0.00 0.00 4.96
189 190 2.202690 CATCGAACGGCGGCTGTA 60.203 61.111 15.95 0.00 41.33 2.74
190 191 1.591594 CATCGAACGGCGGCTGTAT 60.592 57.895 15.95 2.08 41.33 2.29
191 192 1.591594 ATCGAACGGCGGCTGTATG 60.592 57.895 15.95 10.74 41.33 2.39
192 193 3.925238 CGAACGGCGGCTGTATGC 61.925 66.667 15.95 7.06 41.94 3.14
193 194 2.511600 GAACGGCGGCTGTATGCT 60.512 61.111 15.95 0.00 42.39 3.79
199 200 3.942500 CGGCTGTATGCTGGATCG 58.057 61.111 0.00 0.00 44.06 3.69
200 201 1.068083 CGGCTGTATGCTGGATCGT 59.932 57.895 0.00 0.00 44.06 3.73
201 202 0.313987 CGGCTGTATGCTGGATCGTA 59.686 55.000 0.00 0.00 44.06 3.43
202 203 1.784525 GGCTGTATGCTGGATCGTAC 58.215 55.000 0.00 0.00 42.39 3.67
203 204 1.409412 GCTGTATGCTGGATCGTACG 58.591 55.000 9.53 9.53 38.95 3.67
204 205 1.930817 GCTGTATGCTGGATCGTACGG 60.931 57.143 16.52 0.00 37.69 4.02
205 206 0.031585 TGTATGCTGGATCGTACGGC 59.968 55.000 16.52 10.93 40.60 5.68
206 207 0.314302 GTATGCTGGATCGTACGGCT 59.686 55.000 16.52 2.89 40.81 5.52
207 208 0.313987 TATGCTGGATCGTACGGCTG 59.686 55.000 16.52 6.79 40.81 4.85
208 209 2.279517 GCTGGATCGTACGGCTGG 60.280 66.667 16.52 3.83 37.26 4.85
209 210 2.417516 CTGGATCGTACGGCTGGG 59.582 66.667 16.52 0.00 0.00 4.45
210 211 2.363276 TGGATCGTACGGCTGGGT 60.363 61.111 16.52 0.00 0.00 4.51
211 212 2.106332 GGATCGTACGGCTGGGTG 59.894 66.667 16.52 0.00 0.00 4.61
212 213 2.585247 GATCGTACGGCTGGGTGC 60.585 66.667 16.52 0.00 41.94 5.01
213 214 3.365291 GATCGTACGGCTGGGTGCA 62.365 63.158 16.52 0.00 45.15 4.57
214 215 3.371097 ATCGTACGGCTGGGTGCAG 62.371 63.158 16.52 0.00 45.15 4.41
215 216 4.063967 CGTACGGCTGGGTGCAGA 62.064 66.667 7.57 0.00 45.15 4.26
216 217 2.434359 GTACGGCTGGGTGCAGAC 60.434 66.667 0.00 0.00 45.15 3.51
217 218 3.702048 TACGGCTGGGTGCAGACC 61.702 66.667 0.00 0.35 45.15 3.85
225 226 4.966787 GGTGCAGACCGGCCCAAA 62.967 66.667 0.00 0.00 30.61 3.28
226 227 2.676471 GTGCAGACCGGCCCAAAT 60.676 61.111 0.00 0.00 0.00 2.32
227 228 2.117206 TGCAGACCGGCCCAAATT 59.883 55.556 0.00 0.00 0.00 1.82
228 229 1.532794 TGCAGACCGGCCCAAATTT 60.533 52.632 0.00 0.00 0.00 1.82
229 230 1.079888 GCAGACCGGCCCAAATTTG 60.080 57.895 11.40 11.40 0.00 2.32
239 240 4.370066 CAAATTTGGGCCGGCGCA 62.370 61.111 39.14 39.14 36.38 6.09
240 241 4.371590 AAATTTGGGCCGGCGCAC 62.372 61.111 41.97 24.75 38.61 5.34
273 274 5.955355 AGTGCTGCCCTTTTTATTACCATTA 59.045 36.000 0.00 0.00 0.00 1.90
276 277 7.224557 GTGCTGCCCTTTTTATTACCATTATTG 59.775 37.037 0.00 0.00 0.00 1.90
280 281 7.976734 TGCCCTTTTTATTACCATTATTGTTCG 59.023 33.333 0.00 0.00 0.00 3.95
291 293 6.177610 ACCATTATTGTTCGTTGTACTCCAT 58.822 36.000 0.00 0.00 0.00 3.41
302 304 8.447833 GTTCGTTGTACTCCATGATTGAAAATA 58.552 33.333 0.00 0.00 0.00 1.40
303 305 8.554835 TCGTTGTACTCCATGATTGAAAATAA 57.445 30.769 0.00 0.00 0.00 1.40
329 331 8.767478 ATAAATTGCAATTTCCTCACAGAAAG 57.233 30.769 34.40 0.00 39.04 2.62
330 332 6.409524 AATTGCAATTTCCTCACAGAAAGA 57.590 33.333 18.99 0.00 39.04 2.52
331 333 4.836125 TGCAATTTCCTCACAGAAAGAC 57.164 40.909 0.00 0.00 39.04 3.01
338 341 5.398603 TTCCTCACAGAAAGACAGAGATC 57.601 43.478 0.00 0.00 0.00 2.75
353 356 1.834822 GATCCCGCCTCAGCTACCT 60.835 63.158 0.00 0.00 36.60 3.08
415 419 3.602205 ATCTAAATTGAAGGAGGCCCC 57.398 47.619 0.00 0.00 0.00 5.80
515 520 4.888326 TCCCCAAAAGGAAACATGATTG 57.112 40.909 0.00 0.00 38.24 2.67
571 576 2.193127 CCATATACGGGCCCATAAGGA 58.807 52.381 24.92 1.00 38.24 3.36
608 4242 2.640316 ACAAACCTTCCAGAGTCCAC 57.360 50.000 0.00 0.00 0.00 4.02
612 4246 2.030027 ACCTTCCAGAGTCCACATCA 57.970 50.000 0.00 0.00 0.00 3.07
613 4247 1.625818 ACCTTCCAGAGTCCACATCAC 59.374 52.381 0.00 0.00 0.00 3.06
614 4248 1.065854 CCTTCCAGAGTCCACATCACC 60.066 57.143 0.00 0.00 0.00 4.02
615 4249 0.984230 TTCCAGAGTCCACATCACCC 59.016 55.000 0.00 0.00 0.00 4.61
616 4250 0.178906 TCCAGAGTCCACATCACCCA 60.179 55.000 0.00 0.00 0.00 4.51
617 4251 0.914644 CCAGAGTCCACATCACCCAT 59.085 55.000 0.00 0.00 0.00 4.00
618 4252 1.283029 CCAGAGTCCACATCACCCATT 59.717 52.381 0.00 0.00 0.00 3.16
619 4253 2.636830 CAGAGTCCACATCACCCATTC 58.363 52.381 0.00 0.00 0.00 2.67
620 4254 2.238144 CAGAGTCCACATCACCCATTCT 59.762 50.000 0.00 0.00 0.00 2.40
621 4255 3.452264 CAGAGTCCACATCACCCATTCTA 59.548 47.826 0.00 0.00 0.00 2.10
622 4256 4.080919 CAGAGTCCACATCACCCATTCTAA 60.081 45.833 0.00 0.00 0.00 2.10
623 4257 4.536090 AGAGTCCACATCACCCATTCTAAA 59.464 41.667 0.00 0.00 0.00 1.85
624 4258 5.014123 AGAGTCCACATCACCCATTCTAAAA 59.986 40.000 0.00 0.00 0.00 1.52
625 4259 5.640147 AGTCCACATCACCCATTCTAAAAA 58.360 37.500 0.00 0.00 0.00 1.94
741 4376 5.367945 TCGTCAAGGAATTAATAAGGCCT 57.632 39.130 0.00 0.00 0.00 5.19
742 4377 5.365619 TCGTCAAGGAATTAATAAGGCCTC 58.634 41.667 5.23 0.00 0.00 4.70
743 4378 4.515567 CGTCAAGGAATTAATAAGGCCTCC 59.484 45.833 5.23 0.00 0.00 4.30
744 4379 4.827835 GTCAAGGAATTAATAAGGCCTCCC 59.172 45.833 5.23 0.00 0.00 4.30
745 4380 4.141018 TCAAGGAATTAATAAGGCCTCCCC 60.141 45.833 5.23 0.00 0.00 4.81
746 4381 2.375509 AGGAATTAATAAGGCCTCCCCG 59.624 50.000 5.23 0.00 39.21 5.73
747 4382 2.160205 GAATTAATAAGGCCTCCCCGC 58.840 52.381 5.23 0.00 39.21 6.13
748 4383 1.145571 ATTAATAAGGCCTCCCCGCA 58.854 50.000 5.23 0.00 39.21 5.69
749 4384 0.920438 TTAATAAGGCCTCCCCGCAA 59.080 50.000 5.23 0.00 39.21 4.85
750 4385 0.920438 TAATAAGGCCTCCCCGCAAA 59.080 50.000 5.23 0.00 39.21 3.68
751 4386 0.040499 AATAAGGCCTCCCCGCAAAA 59.960 50.000 5.23 0.00 39.21 2.44
1220 4879 2.532235 GACATACATAACGTCCGTGCA 58.468 47.619 0.00 0.00 0.00 4.57
1230 4889 1.663379 CGTCCGTGCATCCCTCTGTA 61.663 60.000 0.00 0.00 0.00 2.74
1318 4977 5.163561 GGTGAGTTAACCATCTCTCTCTCTG 60.164 48.000 0.88 0.00 40.22 3.35
1319 4978 5.417580 GTGAGTTAACCATCTCTCTCTCTGT 59.582 44.000 0.88 0.00 0.00 3.41
1320 4979 5.650266 TGAGTTAACCATCTCTCTCTCTGTC 59.350 44.000 0.88 0.00 0.00 3.51
1321 4980 5.826643 AGTTAACCATCTCTCTCTCTGTCT 58.173 41.667 0.88 0.00 0.00 3.41
1322 4981 5.885912 AGTTAACCATCTCTCTCTCTGTCTC 59.114 44.000 0.88 0.00 0.00 3.36
1323 4982 4.591321 AACCATCTCTCTCTCTGTCTCT 57.409 45.455 0.00 0.00 0.00 3.10
1540 5471 0.960364 GCCTTCGACCTTTCATGGCA 60.960 55.000 0.00 0.00 38.79 4.92
1597 5528 1.126488 TCTGTCTCATCCATCTGCCC 58.874 55.000 0.00 0.00 0.00 5.36
1671 5611 1.750399 CCATGCTGCCACAGGGTAC 60.750 63.158 0.00 0.00 36.74 3.34
1853 5822 1.133792 CCAAAGGATACCATTCCCGCT 60.134 52.381 0.00 0.00 36.35 5.52
1893 5862 0.460284 GTGCTCATGTACCTGTCCGG 60.460 60.000 0.00 0.00 39.35 5.14
1942 5911 2.167075 CCCCAACTCCGACGTACTAATT 59.833 50.000 0.00 0.00 0.00 1.40
1954 5924 5.969435 CGACGTACTAATTGCAGATCTGTTA 59.031 40.000 23.38 13.12 0.00 2.41
1955 5925 6.637254 CGACGTACTAATTGCAGATCTGTTAT 59.363 38.462 23.38 13.95 0.00 1.89
1971 5945 6.188400 TCTGTTATCTAGCTGCATATCTCG 57.812 41.667 1.02 0.00 0.00 4.04
2092 6066 1.470979 CGCAGGTAATAAGCGTGGACT 60.471 52.381 0.00 0.00 45.82 3.85
2115 6089 3.758755 TGGCCATGCAGATAGTCTTAG 57.241 47.619 0.00 0.00 0.00 2.18
2116 6090 2.224378 TGGCCATGCAGATAGTCTTAGC 60.224 50.000 0.00 0.00 0.00 3.09
2117 6091 2.224378 GGCCATGCAGATAGTCTTAGCA 60.224 50.000 0.00 0.00 39.79 3.49
2127 6101 7.939588 TGCAGATAGTCTTAGCAGTATCTCTTA 59.060 37.037 6.26 0.00 37.05 2.10
2160 6139 6.347725 GCACTACACTTTGGAGTACTGATTTG 60.348 42.308 0.00 0.00 40.18 2.32
2165 6144 8.514330 ACACTTTGGAGTACTGATTTGTTTTA 57.486 30.769 0.00 0.00 33.90 1.52
2271 6250 1.445095 GAGCTGCCCAGTGATCGAT 59.555 57.895 0.00 0.00 0.00 3.59
2452 6431 4.722700 GCTTCCCCGGCTTCTGCA 62.723 66.667 0.00 0.00 41.91 4.41
2491 6470 5.106442 CGTGCACCAGTACATTGTAGATTA 58.894 41.667 12.15 0.00 0.00 1.75
2492 6471 5.005394 CGTGCACCAGTACATTGTAGATTAC 59.995 44.000 12.15 0.00 0.00 1.89
2495 6474 7.926555 GTGCACCAGTACATTGTAGATTACTAT 59.073 37.037 5.22 0.00 0.00 2.12
2613 6605 4.776322 TGTCCGGCCAGGCAATCG 62.776 66.667 15.19 7.76 40.77 3.34
2839 6831 2.715624 GGCCGCGGATTCATGAAC 59.284 61.111 33.48 7.28 0.00 3.18
3163 7158 2.125512 AGCGCCACGGAGATGAAC 60.126 61.111 2.29 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.357947 TCCAGCGACGGTGCTCAC 62.358 66.667 21.16 0.00 45.23 3.51
1 2 4.056125 CTCCAGCGACGGTGCTCA 62.056 66.667 21.16 6.47 45.23 4.26
2 3 3.749064 TCTCCAGCGACGGTGCTC 61.749 66.667 21.16 0.00 45.23 4.26
10 11 0.036671 TACTCTGTCGTCTCCAGCGA 60.037 55.000 0.00 0.00 35.89 4.93
11 12 0.375454 CTACTCTGTCGTCTCCAGCG 59.625 60.000 0.00 0.00 0.00 5.18
12 13 0.736053 CCTACTCTGTCGTCTCCAGC 59.264 60.000 0.00 0.00 0.00 4.85
13 14 0.736053 GCCTACTCTGTCGTCTCCAG 59.264 60.000 0.00 0.00 0.00 3.86
14 15 0.680280 GGCCTACTCTGTCGTCTCCA 60.680 60.000 0.00 0.00 0.00 3.86
15 16 0.394625 AGGCCTACTCTGTCGTCTCC 60.395 60.000 1.29 0.00 0.00 3.71
16 17 0.736053 CAGGCCTACTCTGTCGTCTC 59.264 60.000 3.98 0.00 0.00 3.36
17 18 1.316706 GCAGGCCTACTCTGTCGTCT 61.317 60.000 3.98 0.00 34.89 4.18
18 19 1.139947 GCAGGCCTACTCTGTCGTC 59.860 63.158 3.98 0.00 34.89 4.20
19 20 2.352032 GGCAGGCCTACTCTGTCGT 61.352 63.158 3.98 0.00 34.89 4.34
20 21 2.496817 GGCAGGCCTACTCTGTCG 59.503 66.667 3.98 0.00 34.89 4.35
21 22 2.286127 GACGGCAGGCCTACTCTGTC 62.286 65.000 19.00 19.00 34.89 3.51
22 23 2.283966 ACGGCAGGCCTACTCTGT 60.284 61.111 3.98 6.19 34.89 3.41
23 24 2.496817 GACGGCAGGCCTACTCTG 59.503 66.667 3.98 5.46 35.49 3.35
24 25 3.141488 CGACGGCAGGCCTACTCT 61.141 66.667 3.98 0.00 0.00 3.24
25 26 3.450115 ACGACGGCAGGCCTACTC 61.450 66.667 3.98 0.00 0.00 2.59
26 27 3.760035 CACGACGGCAGGCCTACT 61.760 66.667 3.98 0.00 0.00 2.57
27 28 3.701604 CTCACGACGGCAGGCCTAC 62.702 68.421 3.98 0.00 0.00 3.18
28 29 3.449227 CTCACGACGGCAGGCCTA 61.449 66.667 3.98 0.00 0.00 3.93
46 47 4.841861 TCGTTTATGGCGGCCCCG 62.842 66.667 17.97 10.78 43.09 5.73
47 48 2.203294 ATCGTTTATGGCGGCCCC 60.203 61.111 17.97 0.00 0.00 5.80
48 49 3.030652 CATCGTTTATGGCGGCCC 58.969 61.111 17.97 0.00 31.38 5.80
49 50 2.331451 GCATCGTTTATGGCGGCC 59.669 61.111 13.32 13.32 35.99 6.13
54 55 3.181487 CCAAAAGAGGGCATCGTTTATGG 60.181 47.826 12.36 8.22 37.49 2.74
55 56 4.032703 CCAAAAGAGGGCATCGTTTATG 57.967 45.455 12.36 3.04 37.49 1.90
66 67 1.003355 TCGCAGAGCCAAAAGAGGG 60.003 57.895 0.00 0.00 0.00 4.30
67 68 1.630244 CGTCGCAGAGCCAAAAGAGG 61.630 60.000 0.00 0.00 36.95 3.69
68 69 0.667487 TCGTCGCAGAGCCAAAAGAG 60.667 55.000 0.00 0.00 36.95 2.85
69 70 0.667487 CTCGTCGCAGAGCCAAAAGA 60.667 55.000 0.00 0.00 36.95 2.52
70 71 1.784062 CTCGTCGCAGAGCCAAAAG 59.216 57.895 0.00 0.00 36.95 2.27
71 72 3.951332 CTCGTCGCAGAGCCAAAA 58.049 55.556 0.00 0.00 36.95 2.44
112 113 0.028902 AAAAAGAACGCGGTGACTGC 59.971 50.000 12.47 6.27 0.00 4.40
131 132 5.596361 TCTTCCCTGTCTTTGCATACAAAAA 59.404 36.000 0.00 0.00 44.90 1.94
132 133 5.136828 TCTTCCCTGTCTTTGCATACAAAA 58.863 37.500 0.00 0.00 44.90 2.44
133 134 4.724399 TCTTCCCTGTCTTTGCATACAAA 58.276 39.130 0.00 0.00 43.45 2.83
134 135 4.365514 TCTTCCCTGTCTTTGCATACAA 57.634 40.909 0.00 0.00 0.00 2.41
135 136 4.041567 TCTTCTTCCCTGTCTTTGCATACA 59.958 41.667 0.00 0.00 0.00 2.29
136 137 4.579869 TCTTCTTCCCTGTCTTTGCATAC 58.420 43.478 0.00 0.00 0.00 2.39
137 138 4.908601 TCTTCTTCCCTGTCTTTGCATA 57.091 40.909 0.00 0.00 0.00 3.14
138 139 3.795688 TCTTCTTCCCTGTCTTTGCAT 57.204 42.857 0.00 0.00 0.00 3.96
139 140 3.415212 CATCTTCTTCCCTGTCTTTGCA 58.585 45.455 0.00 0.00 0.00 4.08
140 141 2.163211 GCATCTTCTTCCCTGTCTTTGC 59.837 50.000 0.00 0.00 0.00 3.68
141 142 3.439476 CAGCATCTTCTTCCCTGTCTTTG 59.561 47.826 0.00 0.00 0.00 2.77
142 143 3.560882 CCAGCATCTTCTTCCCTGTCTTT 60.561 47.826 0.00 0.00 0.00 2.52
143 144 2.026449 CCAGCATCTTCTTCCCTGTCTT 60.026 50.000 0.00 0.00 0.00 3.01
144 145 1.558756 CCAGCATCTTCTTCCCTGTCT 59.441 52.381 0.00 0.00 0.00 3.41
145 146 2.016096 GCCAGCATCTTCTTCCCTGTC 61.016 57.143 0.00 0.00 0.00 3.51
146 147 0.034670 GCCAGCATCTTCTTCCCTGT 60.035 55.000 0.00 0.00 0.00 4.00
147 148 1.094073 CGCCAGCATCTTCTTCCCTG 61.094 60.000 0.00 0.00 0.00 4.45
148 149 1.222936 CGCCAGCATCTTCTTCCCT 59.777 57.895 0.00 0.00 0.00 4.20
149 150 1.078143 ACGCCAGCATCTTCTTCCC 60.078 57.895 0.00 0.00 0.00 3.97
150 151 1.372087 CCACGCCAGCATCTTCTTCC 61.372 60.000 0.00 0.00 0.00 3.46
151 152 1.372087 CCCACGCCAGCATCTTCTTC 61.372 60.000 0.00 0.00 0.00 2.87
152 153 1.377725 CCCACGCCAGCATCTTCTT 60.378 57.895 0.00 0.00 0.00 2.52
153 154 2.270205 CCCACGCCAGCATCTTCT 59.730 61.111 0.00 0.00 0.00 2.85
154 155 2.825836 CCCCACGCCAGCATCTTC 60.826 66.667 0.00 0.00 0.00 2.87
161 162 4.776322 TTCGATGCCCCACGCCAG 62.776 66.667 0.00 0.00 36.24 4.85
172 173 1.591594 ATACAGCCGCCGTTCGATG 60.592 57.895 0.00 0.00 41.67 3.84
173 174 1.591594 CATACAGCCGCCGTTCGAT 60.592 57.895 0.00 0.00 41.67 3.59
174 175 2.202690 CATACAGCCGCCGTTCGA 60.203 61.111 0.00 0.00 41.67 3.71
175 176 3.925238 GCATACAGCCGCCGTTCG 61.925 66.667 0.00 0.00 37.23 3.95
184 185 1.409412 CGTACGATCCAGCATACAGC 58.591 55.000 10.44 0.00 46.19 4.40
185 186 1.930817 GCCGTACGATCCAGCATACAG 60.931 57.143 18.76 0.00 0.00 2.74
186 187 0.031585 GCCGTACGATCCAGCATACA 59.968 55.000 18.76 0.00 0.00 2.29
187 188 0.314302 AGCCGTACGATCCAGCATAC 59.686 55.000 18.76 0.00 0.00 2.39
188 189 0.313987 CAGCCGTACGATCCAGCATA 59.686 55.000 18.76 0.00 0.00 3.14
189 190 1.068083 CAGCCGTACGATCCAGCAT 59.932 57.895 18.76 0.00 0.00 3.79
190 191 2.494445 CAGCCGTACGATCCAGCA 59.506 61.111 18.76 0.00 0.00 4.41
191 192 2.279517 CCAGCCGTACGATCCAGC 60.280 66.667 18.76 11.24 0.00 4.85
192 193 2.417516 CCCAGCCGTACGATCCAG 59.582 66.667 18.76 0.00 0.00 3.86
193 194 2.363276 ACCCAGCCGTACGATCCA 60.363 61.111 18.76 0.00 0.00 3.41
194 195 2.106332 CACCCAGCCGTACGATCC 59.894 66.667 18.76 4.59 0.00 3.36
195 196 2.585247 GCACCCAGCCGTACGATC 60.585 66.667 18.76 8.14 37.23 3.69
196 197 3.371097 CTGCACCCAGCCGTACGAT 62.371 63.158 18.76 1.33 44.83 3.73
197 198 4.063967 CTGCACCCAGCCGTACGA 62.064 66.667 18.76 0.00 44.83 3.43
198 199 4.063967 TCTGCACCCAGCCGTACG 62.064 66.667 8.69 8.69 44.83 3.67
199 200 2.434359 GTCTGCACCCAGCCGTAC 60.434 66.667 0.00 0.00 44.83 3.67
200 201 3.702048 GGTCTGCACCCAGCCGTA 61.702 66.667 0.00 0.00 44.83 4.02
208 209 4.966787 TTTGGGCCGGTCTGCACC 62.967 66.667 5.77 0.00 39.69 5.01
209 210 1.815817 AAATTTGGGCCGGTCTGCAC 61.816 55.000 5.77 0.00 34.38 4.57
210 211 1.532794 AAATTTGGGCCGGTCTGCA 60.533 52.632 5.77 0.00 0.00 4.41
211 212 1.079888 CAAATTTGGGCCGGTCTGC 60.080 57.895 5.77 0.00 0.00 4.26
212 213 1.591183 CCAAATTTGGGCCGGTCTG 59.409 57.895 26.87 0.00 44.70 3.51
213 214 4.111967 CCAAATTTGGGCCGGTCT 57.888 55.556 26.87 0.00 44.70 3.85
222 223 4.370066 TGCGCCGGCCCAAATTTG 62.370 61.111 23.46 11.40 38.85 2.32
223 224 4.371590 GTGCGCCGGCCCAAATTT 62.372 61.111 23.46 0.00 38.85 1.82
245 246 1.161843 TAAAAAGGGCAGCACTACGC 58.838 50.000 0.00 0.00 42.91 4.42
246 247 4.201881 GGTAATAAAAAGGGCAGCACTACG 60.202 45.833 0.00 0.00 0.00 3.51
247 248 4.703093 TGGTAATAAAAAGGGCAGCACTAC 59.297 41.667 0.00 0.00 0.00 2.73
248 249 4.924625 TGGTAATAAAAAGGGCAGCACTA 58.075 39.130 0.00 0.00 0.00 2.74
249 250 3.773560 TGGTAATAAAAAGGGCAGCACT 58.226 40.909 0.00 0.00 0.00 4.40
250 251 4.736126 ATGGTAATAAAAAGGGCAGCAC 57.264 40.909 0.00 0.00 0.00 4.40
251 252 7.093112 ACAATAATGGTAATAAAAAGGGCAGCA 60.093 33.333 0.00 0.00 0.00 4.41
252 253 7.272244 ACAATAATGGTAATAAAAAGGGCAGC 58.728 34.615 0.00 0.00 0.00 5.25
253 254 9.313118 GAACAATAATGGTAATAAAAAGGGCAG 57.687 33.333 0.00 0.00 0.00 4.85
254 255 7.976734 CGAACAATAATGGTAATAAAAAGGGCA 59.023 33.333 0.00 0.00 0.00 5.36
255 256 7.977293 ACGAACAATAATGGTAATAAAAAGGGC 59.023 33.333 0.00 0.00 0.00 5.19
256 257 9.863845 AACGAACAATAATGGTAATAAAAAGGG 57.136 29.630 0.00 0.00 0.00 3.95
273 274 5.937540 TCAATCATGGAGTACAACGAACAAT 59.062 36.000 0.00 0.00 0.00 2.71
276 277 5.856126 TTCAATCATGGAGTACAACGAAC 57.144 39.130 0.00 0.00 0.00 3.95
302 304 9.558396 TTTCTGTGAGGAAATTGCAATTTATTT 57.442 25.926 31.79 21.35 38.64 1.40
303 305 9.211485 CTTTCTGTGAGGAAATTGCAATTTATT 57.789 29.630 31.79 23.49 38.64 1.40
312 314 5.994054 TCTCTGTCTTTCTGTGAGGAAATTG 59.006 40.000 0.00 0.00 35.12 2.32
318 320 3.118811 GGGATCTCTGTCTTTCTGTGAGG 60.119 52.174 0.00 0.00 0.00 3.86
319 321 3.428725 CGGGATCTCTGTCTTTCTGTGAG 60.429 52.174 0.00 0.00 0.00 3.51
324 326 0.827368 GGCGGGATCTCTGTCTTTCT 59.173 55.000 0.00 0.00 0.00 2.52
325 327 0.827368 AGGCGGGATCTCTGTCTTTC 59.173 55.000 0.00 0.00 31.47 2.62
329 331 1.739049 CTGAGGCGGGATCTCTGTC 59.261 63.158 0.00 0.00 32.78 3.51
330 332 2.430610 GCTGAGGCGGGATCTCTGT 61.431 63.158 0.00 0.00 34.20 3.41
331 333 0.825425 TAGCTGAGGCGGGATCTCTG 60.825 60.000 0.00 0.00 44.37 3.35
338 341 2.759973 TCAGGTAGCTGAGGCGGG 60.760 66.667 20.43 0.00 44.37 6.13
353 356 2.846206 ACAAAGGGAGATATGTGGCTCA 59.154 45.455 0.00 0.00 32.83 4.26
415 419 9.947669 CTTTGGATTAGCATTGATAAGAGAAAG 57.052 33.333 0.52 4.72 0.00 2.62
416 420 8.906867 CCTTTGGATTAGCATTGATAAGAGAAA 58.093 33.333 0.52 0.00 0.00 2.52
418 422 6.488006 GCCTTTGGATTAGCATTGATAAGAGA 59.512 38.462 0.52 0.00 0.00 3.10
419 423 6.489361 AGCCTTTGGATTAGCATTGATAAGAG 59.511 38.462 0.52 0.00 0.00 2.85
482 487 5.208121 TCCTTTTGGGGAATACCATCATTC 58.792 41.667 0.00 0.00 40.91 2.67
483 488 5.219468 TCCTTTTGGGGAATACCATCATT 57.781 39.130 0.00 0.00 40.91 2.57
484 489 4.898014 TCCTTTTGGGGAATACCATCAT 57.102 40.909 0.00 0.00 40.91 2.45
485 490 4.683766 TTCCTTTTGGGGAATACCATCA 57.316 40.909 0.00 0.00 40.91 3.07
486 491 4.775253 TGTTTCCTTTTGGGGAATACCATC 59.225 41.667 0.00 0.00 43.82 3.51
487 492 4.757692 TGTTTCCTTTTGGGGAATACCAT 58.242 39.130 0.00 0.00 43.82 3.55
488 493 4.200447 TGTTTCCTTTTGGGGAATACCA 57.800 40.909 0.00 0.00 43.82 3.25
489 494 4.775253 TCATGTTTCCTTTTGGGGAATACC 59.225 41.667 0.00 0.00 43.82 2.73
515 520 4.438744 CCATCTGGGCTTTGTTTCGTTATC 60.439 45.833 0.00 0.00 0.00 1.75
544 549 3.045142 CCCGTATATGGACGCCGT 58.955 61.111 12.92 0.00 41.56 5.68
571 576 2.486663 TATGGTCGTCGATGCGGCT 61.487 57.895 0.00 0.00 36.62 5.52
662 4296 9.578576 CTTTTCAGGATTATTAATCATGGGAGA 57.421 33.333 23.54 11.85 46.56 3.71
663 4297 9.578576 TCTTTTCAGGATTATTAATCATGGGAG 57.421 33.333 23.54 18.87 46.56 4.30
679 4313 6.294361 TCACGGATAGATTTCTTTTCAGGA 57.706 37.500 0.00 0.00 0.00 3.86
693 4327 7.036220 AGGATTCGCTTTATAATCACGGATAG 58.964 38.462 0.00 0.00 34.44 2.08
763 4398 7.874252 TCAGGGTTATTAGTTGGCCTTATTAA 58.126 34.615 3.32 0.00 0.00 1.40
764 4399 7.454553 TCAGGGTTATTAGTTGGCCTTATTA 57.545 36.000 3.32 0.00 0.00 0.98
765 4400 6.335781 TCAGGGTTATTAGTTGGCCTTATT 57.664 37.500 3.32 0.00 0.00 1.40
767 4402 5.782677 TTCAGGGTTATTAGTTGGCCTTA 57.217 39.130 3.32 0.00 0.00 2.69
768 4403 4.668138 TTCAGGGTTATTAGTTGGCCTT 57.332 40.909 3.32 0.00 0.00 4.35
769 4404 4.668138 TTTCAGGGTTATTAGTTGGCCT 57.332 40.909 3.32 0.00 0.00 5.19
770 4405 5.014202 TCTTTTCAGGGTTATTAGTTGGCC 58.986 41.667 0.00 0.00 0.00 5.36
771 4406 6.584185 TTCTTTTCAGGGTTATTAGTTGGC 57.416 37.500 0.00 0.00 0.00 4.52
772 4407 9.025041 AGATTTCTTTTCAGGGTTATTAGTTGG 57.975 33.333 0.00 0.00 0.00 3.77
970 4629 3.730761 CGAGACGGTCGGGTCGTT 61.731 66.667 9.36 0.00 45.58 3.85
1318 4977 2.804856 GGGCGCAGAGAGAGAGAC 59.195 66.667 10.83 0.00 0.00 3.36
1319 4978 2.826287 CGGGCGCAGAGAGAGAGA 60.826 66.667 10.83 0.00 0.00 3.10
1320 4979 3.898509 CCGGGCGCAGAGAGAGAG 61.899 72.222 10.83 0.00 0.00 3.20
1528 5459 1.377725 CCTCGCTGCCATGAAAGGT 60.378 57.895 0.00 0.00 0.00 3.50
1540 5471 0.678048 GGAAATGGACTTGCCTCGCT 60.678 55.000 0.00 0.00 37.63 4.93
1597 5528 6.462207 CCACAACTTGGTCCTAGATGAGATAG 60.462 46.154 15.68 2.72 41.10 2.08
1626 5566 1.611936 CGGCGATCCTCTCCTCTATCA 60.612 57.143 0.00 0.00 0.00 2.15
1671 5611 0.108424 GGGGAGAGCATAGCATAGCG 60.108 60.000 0.00 0.00 35.48 4.26
1942 5911 3.987547 GCAGCTAGATAACAGATCTGCA 58.012 45.455 22.83 11.25 43.32 4.41
1954 5924 5.336372 GGAAGAACGAGATATGCAGCTAGAT 60.336 44.000 0.00 0.00 0.00 1.98
1955 5925 4.022762 GGAAGAACGAGATATGCAGCTAGA 60.023 45.833 0.00 0.00 0.00 2.43
1971 5945 1.622312 AGGTCGTAGGTTGGGAAGAAC 59.378 52.381 0.00 0.00 0.00 3.01
2092 6066 2.121948 AGACTATCTGCATGGCCAAGA 58.878 47.619 10.96 9.22 0.00 3.02
2115 6089 4.026475 GTGCGTCACATTAAGAGATACTGC 60.026 45.833 5.30 0.00 34.08 4.40
2116 6090 5.344066 AGTGCGTCACATTAAGAGATACTG 58.656 41.667 11.58 0.00 36.74 2.74
2117 6091 5.584253 AGTGCGTCACATTAAGAGATACT 57.416 39.130 11.58 0.00 36.74 2.12
2127 6101 2.548057 CCAAAGTGTAGTGCGTCACATT 59.452 45.455 11.58 0.00 36.74 2.71
2160 6139 2.356695 AGGTTTCACTGCCACGTAAAAC 59.643 45.455 0.00 0.00 0.00 2.43
2165 6144 1.095228 CACAGGTTTCACTGCCACGT 61.095 55.000 0.00 0.00 42.21 4.49
2262 6241 1.107114 ACTTCTCGCCATCGATCACT 58.893 50.000 0.00 0.00 44.56 3.41
2271 6250 4.373116 GCCGACCACTTCTCGCCA 62.373 66.667 0.00 0.00 0.00 5.69
2388 6367 1.978617 CTTGGCGCACTCCCCATTT 60.979 57.895 10.83 0.00 0.00 2.32
2437 6416 4.033776 CCTGCAGAAGCCGGGGAA 62.034 66.667 17.39 0.00 41.03 3.97
2452 6431 2.740055 CGCGTTGCAGCTCTTCCT 60.740 61.111 0.00 0.00 34.40 3.36
2491 6470 4.040461 AGTGGCCTGCGATTACAATATAGT 59.960 41.667 3.32 0.00 0.00 2.12
2492 6471 4.389992 CAGTGGCCTGCGATTACAATATAG 59.610 45.833 3.32 0.00 0.00 1.31
2495 6474 2.169561 TCAGTGGCCTGCGATTACAATA 59.830 45.455 3.32 0.00 38.66 1.90
2575 6558 7.270047 GGACAATGATTTGTTGATCCATTGAT 58.730 34.615 19.16 8.47 46.01 2.57
2576 6559 6.625520 CGGACAATGATTTGTTGATCCATTGA 60.626 38.462 19.16 0.00 46.01 2.57
2578 6561 5.394443 CCGGACAATGATTTGTTGATCCATT 60.394 40.000 0.00 0.00 46.01 3.16
2581 6564 3.734902 GCCGGACAATGATTTGTTGATCC 60.735 47.826 5.05 0.00 46.01 3.36
2603 6586 2.480555 GTGAACGCGATTGCCTGG 59.519 61.111 15.93 0.00 38.08 4.45
2613 6605 4.683334 GCAAGGGCACGTGAACGC 62.683 66.667 22.23 11.00 44.43 4.84
2830 6822 3.852578 ACCCCTTCTACCTGTTCATGAAT 59.147 43.478 12.12 0.00 0.00 2.57
2839 6831 1.132500 GGATGGACCCCTTCTACCTG 58.868 60.000 0.00 0.00 0.00 4.00
3343 7338 1.632965 GGTACCCCATCGGCTTCCTT 61.633 60.000 0.00 0.00 33.26 3.36


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

AutoCloner maintained by Alex Coulton.