Multiple sequence alignment - TraesCS1B01G287100

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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 TraesCS1B01G287100 chr1B 100.000 2620 0 0 733 3352 499208133 499205514 0.000000e+00 4839.0
1 TraesCS1B01G287100 chr1B 100.000 1567 0 0 3587 5153 499205279 499203713 0.000000e+00 2894.0
2 TraesCS1B01G287100 chr1B 100.000 450 0 0 1 450 499208865 499208416 0.000000e+00 832.0
3 TraesCS1B01G287100 chr1B 87.703 553 63 4 1475 2024 499206381 499205831 1.560000e-179 640.0
4 TraesCS1B01G287100 chr1B 87.703 553 63 4 2485 3035 499207391 499206842 1.560000e-179 640.0
5 TraesCS1B01G287100 chr1A 91.247 2639 163 40 733 3352 474201415 474198826 0.000000e+00 3531.0
6 TraesCS1B01G287100 chr1A 91.864 1524 80 17 3587 5080 474198433 474196924 0.000000e+00 2087.0
7 TraesCS1B01G287100 chr1A 82.365 1015 127 35 1039 2024 474200136 474199145 0.000000e+00 835.0
8 TraesCS1B01G287100 chr1A 87.004 554 65 3 2485 3034 474200702 474200152 7.330000e-173 617.0
9 TraesCS1B01G287100 chr1A 94.737 76 3 1 5079 5153 474196844 474196769 3.260000e-22 117.0
10 TraesCS1B01G287100 chr1A 91.667 72 6 0 117 188 474202423 474202352 3.280000e-17 100.0
11 TraesCS1B01G287100 chr1A 81.746 126 6 7 327 450 474201580 474201470 7.110000e-14 89.8
12 TraesCS1B01G287100 chr1A 96.296 54 2 0 80 133 474202497 474202444 7.110000e-14 89.8
13 TraesCS1B01G287100 chr1D 90.762 2663 149 36 733 3352 374400675 374398067 0.000000e+00 3465.0
14 TraesCS1B01G287100 chr1D 90.965 974 41 16 3587 4548 374397820 374396882 0.000000e+00 1267.0
15 TraesCS1B01G287100 chr1D 82.755 1009 132 27 1039 2024 374399375 374398386 0.000000e+00 861.0
16 TraesCS1B01G287100 chr1D 83.205 780 108 14 2262 3035 374400152 374399390 0.000000e+00 693.0
17 TraesCS1B01G287100 chr1D 89.683 378 28 3 4591 4968 374394909 374394543 6.040000e-129 472.0
18 TraesCS1B01G287100 chr1D 91.803 122 4 4 5036 5153 374378463 374378344 1.150000e-36 165.0
19 TraesCS1B01G287100 chr1D 97.468 79 2 0 4965 5043 374394513 374394435 9.000000e-28 135.0
20 TraesCS1B01G287100 chr7B 78.899 218 40 3 2195 2411 555322501 555322289 5.380000e-30 143.0
21 TraesCS1B01G287100 chr2A 82.895 152 22 2 2254 2405 256190703 256190850 3.240000e-27 134.0
22 TraesCS1B01G287100 chr2A 89.062 64 6 1 4 67 580384492 580384430 1.540000e-10 78.7
23 TraesCS1B01G287100 chr7A 81.013 158 26 2 2254 2411 46808960 46808807 7.010000e-24 122.0
24 TraesCS1B01G287100 chr6D 93.651 63 4 0 4 66 129780562 129780500 1.530000e-15 95.3
25 TraesCS1B01G287100 chrUn 91.667 60 5 0 4 63 27338389 27338330 3.310000e-12 84.2
26 TraesCS1B01G287100 chr3D 91.667 60 4 1 4 63 14221649 14221591 1.190000e-11 82.4
27 TraesCS1B01G287100 chr3D 88.710 62 4 3 21 81 81200965 81200906 7.160000e-09 73.1
28 TraesCS1B01G287100 chr7D 90.000 60 6 0 10 69 113042127 113042068 1.540000e-10 78.7
29 TraesCS1B01G287100 chr6B 87.302 63 8 0 10 72 80083552 80083490 7.160000e-09 73.1
30 TraesCS1B01G287100 chr2B 88.333 60 7 0 4 63 12076308 12076249 7.160000e-09 73.1
31 TraesCS1B01G287100 chr3B 83.750 80 5 7 16 91 492230030 492230105 9.260000e-08 69.4


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 TraesCS1B01G287100 chr1B 499203713 499208865 5152 True 1969.000000 4839 95.081200 1 5153 5 chr1B.!!$R1 5152
1 TraesCS1B01G287100 chr1A 474196769 474202497 5728 True 933.325000 3531 89.615750 80 5153 8 chr1A.!!$R1 5073
2 TraesCS1B01G287100 chr1D 374394435 374400675 6240 True 1148.833333 3465 89.139667 733 5043 6 chr1D.!!$R2 4310

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
972 1704 1.351017 CAGGGTTCAGTCAGGGCTTTA 59.649 52.381 0.00 0.0 0.00 1.85 F
1436 2177 0.107312 CTCCCCTGAGCCATTGACAG 60.107 60.000 0.00 0.0 0.00 3.51 F
2651 3420 0.541764 TGGATTGGTTGGAAGGCCAC 60.542 55.000 5.01 0.0 45.94 5.01 F
2994 3763 0.673437 AGAAATGGTGTTGTTGCGGG 59.327 50.000 0.00 0.0 0.00 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2956 3725 0.180878 TGCCTTGATCATCATCGGCA 59.819 50.0 21.4 21.4 45.1 5.69 R
3271 4040 0.451383 TTCATTCGGCAAAGCATCGG 59.549 50.0 0.0 0.0 0.0 4.18 R
4092 5035 0.260230 TCCAACCCCAAAGCAACTCA 59.740 50.0 0.0 0.0 0.0 3.41 R
4431 5376 0.673333 TGCGCGATTCACTGACCATT 60.673 50.0 12.1 0.0 0.0 3.16 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
26 27 7.704789 ACCTCCGTAAACTAATATAAAAGCG 57.295 36.000 0.00 0.00 0.00 4.68
27 28 7.491682 ACCTCCGTAAACTAATATAAAAGCGA 58.508 34.615 0.00 0.00 0.00 4.93
28 29 8.146412 ACCTCCGTAAACTAATATAAAAGCGAT 58.854 33.333 0.00 0.00 0.00 4.58
29 30 8.645487 CCTCCGTAAACTAATATAAAAGCGATC 58.355 37.037 0.00 0.00 0.00 3.69
30 31 9.408069 CTCCGTAAACTAATATAAAAGCGATCT 57.592 33.333 0.00 0.00 0.00 2.75
122 123 3.320879 CTGCTGGGCATGAGACGGT 62.321 63.158 0.00 0.00 38.13 4.83
123 124 2.045926 GCTGGGCATGAGACGGTT 60.046 61.111 0.00 0.00 0.00 4.44
162 200 2.882876 GTTGCATCTGCTGGCCTG 59.117 61.111 3.32 4.26 42.66 4.85
170 208 3.381272 GCATCTGCTGGCCTGTATTTTAA 59.619 43.478 11.69 0.00 38.21 1.52
180 218 5.192923 TGGCCTGTATTTTAACCCATCTAGT 59.807 40.000 3.32 0.00 0.00 2.57
181 219 6.387513 TGGCCTGTATTTTAACCCATCTAGTA 59.612 38.462 3.32 0.00 0.00 1.82
182 220 6.709397 GGCCTGTATTTTAACCCATCTAGTAC 59.291 42.308 0.00 0.00 0.00 2.73
183 221 7.277396 GCCTGTATTTTAACCCATCTAGTACA 58.723 38.462 0.00 0.00 0.00 2.90
184 222 7.226128 GCCTGTATTTTAACCCATCTAGTACAC 59.774 40.741 0.00 0.00 0.00 2.90
185 223 8.262227 CCTGTATTTTAACCCATCTAGTACACA 58.738 37.037 0.00 0.00 0.00 3.72
186 224 9.095065 CTGTATTTTAACCCATCTAGTACACAC 57.905 37.037 0.00 0.00 0.00 3.82
187 225 8.818860 TGTATTTTAACCCATCTAGTACACACT 58.181 33.333 0.00 0.00 38.91 3.55
188 226 9.310716 GTATTTTAACCCATCTAGTACACACTC 57.689 37.037 0.00 0.00 36.14 3.51
189 227 7.549147 TTTTAACCCATCTAGTACACACTCT 57.451 36.000 0.00 0.00 36.14 3.24
190 228 7.549147 TTTAACCCATCTAGTACACACTCTT 57.451 36.000 0.00 0.00 36.14 2.85
191 229 7.549147 TTAACCCATCTAGTACACACTCTTT 57.451 36.000 0.00 0.00 36.14 2.52
192 230 6.435292 AACCCATCTAGTACACACTCTTTT 57.565 37.500 0.00 0.00 36.14 2.27
193 231 6.435292 ACCCATCTAGTACACACTCTTTTT 57.565 37.500 0.00 0.00 36.14 1.94
233 271 5.008712 CACTTTCCTGTCCTTTCCTGTTTAC 59.991 44.000 0.00 0.00 0.00 2.01
242 280 2.851263 TTCCTGTTTACGCACTCCAT 57.149 45.000 0.00 0.00 0.00 3.41
243 281 2.380084 TCCTGTTTACGCACTCCATC 57.620 50.000 0.00 0.00 0.00 3.51
245 283 2.094182 TCCTGTTTACGCACTCCATCTC 60.094 50.000 0.00 0.00 0.00 2.75
246 284 2.271800 CTGTTTACGCACTCCATCTCC 58.728 52.381 0.00 0.00 0.00 3.71
247 285 1.621317 TGTTTACGCACTCCATCTCCA 59.379 47.619 0.00 0.00 0.00 3.86
248 286 2.000447 GTTTACGCACTCCATCTCCAC 59.000 52.381 0.00 0.00 0.00 4.02
249 287 1.557099 TTACGCACTCCATCTCCACT 58.443 50.000 0.00 0.00 0.00 4.00
250 288 2.430248 TACGCACTCCATCTCCACTA 57.570 50.000 0.00 0.00 0.00 2.74
251 289 1.557099 ACGCACTCCATCTCCACTAA 58.443 50.000 0.00 0.00 0.00 2.24
252 290 1.899814 ACGCACTCCATCTCCACTAAA 59.100 47.619 0.00 0.00 0.00 1.85
253 291 2.271800 CGCACTCCATCTCCACTAAAC 58.728 52.381 0.00 0.00 0.00 2.01
254 292 2.633488 GCACTCCATCTCCACTAAACC 58.367 52.381 0.00 0.00 0.00 3.27
255 293 2.237392 GCACTCCATCTCCACTAAACCT 59.763 50.000 0.00 0.00 0.00 3.50
256 294 3.307762 GCACTCCATCTCCACTAAACCTT 60.308 47.826 0.00 0.00 0.00 3.50
257 295 4.256920 CACTCCATCTCCACTAAACCTTG 58.743 47.826 0.00 0.00 0.00 3.61
258 296 3.264450 ACTCCATCTCCACTAAACCTTGG 59.736 47.826 0.00 0.00 0.00 3.61
259 297 2.026262 TCCATCTCCACTAAACCTTGGC 60.026 50.000 0.00 0.00 32.37 4.52
260 298 2.025887 CCATCTCCACTAAACCTTGGCT 60.026 50.000 0.00 0.00 32.37 4.75
261 299 3.274288 CATCTCCACTAAACCTTGGCTC 58.726 50.000 0.00 0.00 32.37 4.70
262 300 2.334977 TCTCCACTAAACCTTGGCTCA 58.665 47.619 0.00 0.00 32.37 4.26
263 301 2.708861 TCTCCACTAAACCTTGGCTCAA 59.291 45.455 0.00 0.00 32.37 3.02
264 302 3.137544 TCTCCACTAAACCTTGGCTCAAA 59.862 43.478 0.00 0.00 32.37 2.69
265 303 3.888930 CTCCACTAAACCTTGGCTCAAAA 59.111 43.478 0.00 0.00 32.37 2.44
266 304 4.282496 TCCACTAAACCTTGGCTCAAAAA 58.718 39.130 0.00 0.00 32.37 1.94
316 354 1.410882 GGTGGCAGCAAAACCAAGTAA 59.589 47.619 12.58 0.00 37.79 2.24
321 1045 5.182380 GTGGCAGCAAAACCAAGTAATACTA 59.818 40.000 0.00 0.00 37.79 1.82
323 1047 5.392703 GGCAGCAAAACCAAGTAATACTACC 60.393 44.000 0.00 0.00 0.00 3.18
325 1049 6.622896 GCAGCAAAACCAAGTAATACTACCAG 60.623 42.308 0.00 0.00 0.00 4.00
336 1060 7.433537 AGTAATACTACCAGTAGGCAATTGT 57.566 36.000 7.40 0.00 39.06 2.71
373 1097 5.012768 AGTTGTACTACCACTAGGCAATTGT 59.987 40.000 7.40 0.00 39.06 2.71
374 1098 5.080969 TGTACTACCACTAGGCAATTGTC 57.919 43.478 0.50 0.50 39.06 3.18
443 1167 2.769095 AGTCTAGAAATCCAGTCCAGCC 59.231 50.000 0.00 0.00 0.00 4.85
782 1506 3.677648 ACCTGTCCGTCCGTTCCG 61.678 66.667 0.00 0.00 0.00 4.30
784 1508 2.126580 CTGTCCGTCCGTTCCGTC 60.127 66.667 0.00 0.00 0.00 4.79
822 1546 4.742201 CACACTCCCCTCGTGCCG 62.742 72.222 0.00 0.00 35.84 5.69
894 1620 4.293648 CACACTCCGACACGCCCA 62.294 66.667 0.00 0.00 0.00 5.36
895 1621 4.295119 ACACTCCGACACGCCCAC 62.295 66.667 0.00 0.00 0.00 4.61
896 1622 3.991051 CACTCCGACACGCCCACT 61.991 66.667 0.00 0.00 0.00 4.00
897 1623 3.991051 ACTCCGACACGCCCACTG 61.991 66.667 0.00 0.00 0.00 3.66
972 1704 1.351017 CAGGGTTCAGTCAGGGCTTTA 59.649 52.381 0.00 0.00 0.00 1.85
1195 1933 3.465403 CCCTCCTCCACCAGCTCG 61.465 72.222 0.00 0.00 0.00 5.03
1306 2044 2.258013 TTTCCGCCTTTGCTCCACG 61.258 57.895 0.00 0.00 34.43 4.94
1414 2155 0.250640 CTCCTGCTGGTGAGTTTGCT 60.251 55.000 9.73 0.00 34.23 3.91
1415 2156 0.250467 TCCTGCTGGTGAGTTTGCTC 60.250 55.000 9.73 0.00 41.97 4.26
1416 2157 1.239968 CCTGCTGGTGAGTTTGCTCC 61.240 60.000 0.51 0.00 40.95 4.70
1436 2177 0.107312 CTCCCCTGAGCCATTGACAG 60.107 60.000 0.00 0.00 0.00 3.51
1447 2188 1.064906 CCATTGACAGGCTGATGAGGT 60.065 52.381 23.66 0.00 0.00 3.85
1464 2220 7.281841 TGATGAGGTGCATGTTTCTTATGATA 58.718 34.615 0.00 0.00 37.34 2.15
1668 2428 3.305744 GGACAGTGGAGAAAGTGAGACTC 60.306 52.174 0.00 0.00 0.00 3.36
1672 2432 1.258676 GGAGAAAGTGAGACTCCGGT 58.741 55.000 0.00 0.00 40.28 5.28
1673 2433 1.619332 GGAGAAAGTGAGACTCCGGTT 59.381 52.381 0.00 0.00 40.28 4.44
1674 2434 2.824341 GGAGAAAGTGAGACTCCGGTTA 59.176 50.000 0.00 0.00 40.28 2.85
1737 2499 6.538742 ACTTCGTCATCTCTTTTCTGTTTTGA 59.461 34.615 0.00 0.00 0.00 2.69
1738 2500 6.918892 TCGTCATCTCTTTTCTGTTTTGAA 57.081 33.333 0.00 0.00 0.00 2.69
1827 2589 2.290323 ACTGGCAGAATGGACCTAACAC 60.290 50.000 23.66 0.00 35.86 3.32
1870 2632 4.202567 ACCACAAAGACATTGGTGGTCTAT 60.203 41.667 13.31 0.00 43.67 1.98
1961 2723 2.483876 CAGTTGTCAATGACGACCACT 58.516 47.619 25.51 13.86 45.29 4.00
1963 2725 2.158957 AGTTGTCAATGACGACCACTGT 60.159 45.455 25.51 8.14 45.29 3.55
1966 2728 1.993370 GTCAATGACGACCACTGTAGC 59.007 52.381 0.00 0.00 0.00 3.58
2086 2848 1.688187 GGTCCGGGTCACCTATGGT 60.688 63.158 0.00 0.00 35.62 3.55
2170 2932 2.431260 GTCACCGCGCTACCGAAA 60.431 61.111 5.56 0.00 36.29 3.46
2186 2948 2.172483 GAAACCCCTCGAGCAGCTCA 62.172 60.000 22.49 8.59 0.00 4.26
2256 3018 2.170397 TCAAGATCGGAATAGGCTTGCA 59.830 45.455 0.00 0.00 36.72 4.08
2345 3114 2.692368 TGATGAGGTCCAGGGGGC 60.692 66.667 0.00 0.00 0.00 5.80
2417 3186 3.624707 GCTCCCCTGAACCATTGACATTA 60.625 47.826 0.00 0.00 0.00 1.90
2490 3259 4.460731 TCTTACCATCTGTCTGTCTGTCTG 59.539 45.833 0.00 0.00 0.00 3.51
2491 3260 2.603021 ACCATCTGTCTGTCTGTCTGT 58.397 47.619 0.00 0.00 0.00 3.41
2492 3261 2.560542 ACCATCTGTCTGTCTGTCTGTC 59.439 50.000 0.00 0.00 0.00 3.51
2493 3262 2.824936 CCATCTGTCTGTCTGTCTGTCT 59.175 50.000 0.00 0.00 0.00 3.41
2494 3263 3.367190 CCATCTGTCTGTCTGTCTGTCTG 60.367 52.174 0.00 0.00 0.00 3.51
2498 3267 4.068599 CTGTCTGTCTGTCTGTCTGTCTA 58.931 47.826 0.00 0.00 0.00 2.59
2651 3420 0.541764 TGGATTGGTTGGAAGGCCAC 60.542 55.000 5.01 0.00 45.94 5.01
2680 3449 4.730966 ACAGTAGAGAAAGTGAGACTCCA 58.269 43.478 0.00 0.00 0.00 3.86
2687 3456 6.112058 AGAGAAAGTGAGACTCCATTTATGC 58.888 40.000 0.00 0.00 0.00 3.14
2880 3649 3.764237 AAAGACATTGGTGGTCTACGT 57.236 42.857 0.00 0.00 44.50 3.57
2903 3672 5.304686 AGATTGGGGTAATGCGAAGAATA 57.695 39.130 0.00 0.00 0.00 1.75
2905 3674 6.126409 AGATTGGGGTAATGCGAAGAATAAA 58.874 36.000 0.00 0.00 0.00 1.40
2906 3675 5.828299 TTGGGGTAATGCGAAGAATAAAG 57.172 39.130 0.00 0.00 0.00 1.85
2911 3680 6.764560 GGGGTAATGCGAAGAATAAAGAAGTA 59.235 38.462 0.00 0.00 0.00 2.24
2913 3682 7.494952 GGGTAATGCGAAGAATAAAGAAGTAGT 59.505 37.037 0.00 0.00 0.00 2.73
2924 3693 8.002459 AGAATAAAGAAGTAGTAGAGGAGGGAG 58.998 40.741 0.00 0.00 0.00 4.30
2929 3698 2.171027 AGTAGTAGAGGAGGGAGACACG 59.829 54.545 0.00 0.00 0.00 4.49
2932 3701 1.859841 TAGAGGAGGGAGACACGCCA 61.860 60.000 0.00 0.00 0.00 5.69
2936 3705 1.374758 GAGGGAGACACGCCAGTTG 60.375 63.158 0.00 0.00 0.00 3.16
2948 3717 2.183409 CCAGTTGAAATGGCGGAGG 58.817 57.895 0.00 0.00 0.00 4.30
2971 3740 3.127376 CAGTTGTTGCCGATGATGATCAA 59.873 43.478 0.00 0.00 0.00 2.57
2990 3759 3.125316 CAAGGCAGAAATGGTGTTGTTG 58.875 45.455 0.00 0.00 0.00 3.33
2994 3763 0.673437 AGAAATGGTGTTGTTGCGGG 59.327 50.000 0.00 0.00 0.00 6.13
2996 3765 1.067821 GAAATGGTGTTGTTGCGGGAA 59.932 47.619 0.00 0.00 0.00 3.97
3002 3771 1.336755 GTGTTGTTGCGGGAAATGAGT 59.663 47.619 0.00 0.00 0.00 3.41
3011 3780 2.414161 GCGGGAAATGAGTTACAAGTGC 60.414 50.000 0.00 0.00 0.00 4.40
3057 3826 4.386049 GGACGAATCAACTATAAGCGATGG 59.614 45.833 0.00 0.00 0.00 3.51
3065 3834 6.216569 TCAACTATAAGCGATGGTGAGAATC 58.783 40.000 0.00 0.00 28.00 2.52
3074 3843 2.425143 TGGTGAGAATCCAATGGCTC 57.575 50.000 0.00 0.00 31.50 4.70
3100 3869 2.775911 TTGCATCTGTTGGAGAGGAG 57.224 50.000 0.00 0.00 34.14 3.69
3215 3984 4.796038 ACTGAAATTCCAGAGGCATTTG 57.204 40.909 0.00 0.00 37.59 2.32
3258 4027 5.914033 TGCTGAAAGTAAGTAGTTCAGTGT 58.086 37.500 12.70 0.00 35.30 3.55
3259 4028 7.013942 TCTGCTGAAAGTAAGTAGTTCAGTGTA 59.986 37.037 12.70 2.07 35.30 2.90
3271 4040 4.822026 AGTTCAGTGTACCTTGTATGCTC 58.178 43.478 0.00 0.00 0.00 4.26
3272 4041 3.887621 TCAGTGTACCTTGTATGCTCC 57.112 47.619 0.00 0.00 0.00 4.70
3296 4065 1.052287 CTTTGCCGAATGAAACGTGC 58.948 50.000 0.00 0.00 0.00 5.34
3302 4071 1.062587 CCGAATGAAACGTGCCATCTC 59.937 52.381 0.00 0.00 0.00 2.75
3303 4072 1.267038 CGAATGAAACGTGCCATCTCG 60.267 52.381 14.10 14.10 35.54 4.04
3304 4073 1.999735 GAATGAAACGTGCCATCTCGA 59.000 47.619 0.00 0.00 33.82 4.04
3318 4089 4.421058 CCATCTCGATTTCGTTAGTCACA 58.579 43.478 0.00 0.00 40.80 3.58
3327 4098 3.755112 TCGTTAGTCACACCATTTCCA 57.245 42.857 0.00 0.00 0.00 3.53
3344 4115 1.198713 CCAGGCACAGAGACCATACT 58.801 55.000 0.00 0.00 0.00 2.12
3347 4118 3.005554 CAGGCACAGAGACCATACTTTG 58.994 50.000 0.00 0.00 0.00 2.77
3711 4640 5.112686 AGATCACTCGTTTCATTAGAAGGC 58.887 41.667 0.00 0.00 34.71 4.35
3716 4645 2.997986 TCGTTTCATTAGAAGGCGGAAC 59.002 45.455 0.00 0.00 35.85 3.62
3802 4733 6.828502 TTAGTGTAAGCTGCATAAATCTCG 57.171 37.500 1.02 0.00 0.00 4.04
3807 4738 4.871993 AAGCTGCATAAATCTCGTTCAG 57.128 40.909 1.02 0.00 0.00 3.02
3827 4758 2.840038 AGTGATCATGGCTACCAGTTCA 59.160 45.455 0.00 0.00 36.75 3.18
3934 4865 4.638865 TGAATCAGCTGTTGATGGATGAAG 59.361 41.667 14.67 0.00 45.82 3.02
3936 4867 4.498894 TCAGCTGTTGATGGATGAAGAT 57.501 40.909 14.67 0.00 0.00 2.40
3950 4881 7.320443 TGGATGAAGATAAAATTCAAGACGG 57.680 36.000 0.00 0.00 39.92 4.79
3956 4887 5.253330 AGATAAAATTCAAGACGGGCTTCA 58.747 37.500 0.00 0.00 33.60 3.02
3958 4889 3.855689 AAATTCAAGACGGGCTTCATG 57.144 42.857 0.00 0.00 33.60 3.07
3969 4900 4.978099 ACGGGCTTCATGATGAAATAGAT 58.022 39.130 9.39 0.00 35.73 1.98
4025 4956 3.677121 GCTGATGCTGATAGTGAATACGG 59.323 47.826 0.00 0.00 36.03 4.02
4033 4964 4.426416 TGATAGTGAATACGGTGAAACGG 58.574 43.478 0.00 0.00 43.57 4.44
4073 5010 0.802494 AATGGCGTTCTGGTTAAGCG 59.198 50.000 0.00 0.00 0.00 4.68
4092 5035 1.968540 GGCAGGAGCTTTTGAGCGT 60.969 57.895 2.88 0.00 41.70 5.07
4185 5128 5.334414 GCATCTGGTATTGCTTGCTATGTAC 60.334 44.000 0.17 0.00 35.95 2.90
4200 5143 3.387091 TACGCACGAGGGCATGGT 61.387 61.111 0.00 0.00 0.00 3.55
4202 5145 4.758251 CGCACGAGGGCATGGTGA 62.758 66.667 18.38 0.00 39.84 4.02
4329 5273 4.003648 CTCTGGGAGAAACGCTATTTGTT 58.996 43.478 0.00 0.00 0.00 2.83
4386 5330 0.852777 CGGTCTGTCGACAGTTTGTG 59.147 55.000 37.21 22.60 44.12 3.33
4428 5373 4.782156 CCAGGGAAGATAATATCCTCTGCT 59.218 45.833 0.00 0.00 34.93 4.24
4431 5376 6.894654 CAGGGAAGATAATATCCTCTGCTAGA 59.105 42.308 0.00 0.00 35.95 2.43
4458 5410 2.724174 CAGTGAATCGCGCATATTCGTA 59.276 45.455 21.02 7.77 36.35 3.43
4508 5460 4.973396 TGCACAGAAATCGTTTGATGATC 58.027 39.130 0.00 0.00 34.24 2.92
4616 7499 0.723981 CACTTCGCTTTCTGCCTAGC 59.276 55.000 0.00 0.00 38.78 3.42
4753 7642 0.324738 AGACGAGCCAATCAGAGGGA 60.325 55.000 0.00 0.00 0.00 4.20
4754 7643 0.755686 GACGAGCCAATCAGAGGGAT 59.244 55.000 0.00 0.00 38.05 3.85
4762 7651 5.383476 AGCCAATCAGAGGGATAAAATGAG 58.617 41.667 0.00 0.00 34.28 2.90
4770 7659 6.881065 TCAGAGGGATAAAATGAGAACTTGTG 59.119 38.462 0.00 0.00 0.00 3.33
4782 7671 7.902920 ATGAGAACTTGTGGCCATAATAAAT 57.097 32.000 15.99 2.75 0.00 1.40
4792 7681 5.928264 GTGGCCATAATAAATTTCCAGATGC 59.072 40.000 9.72 0.00 0.00 3.91
4803 7692 2.105006 TCCAGATGCTGCTTTCACTC 57.895 50.000 0.00 0.00 0.00 3.51
4845 7734 5.199024 TGTTGAACCCATGTGAAAATGAG 57.801 39.130 0.00 0.00 0.00 2.90
4866 7755 1.071228 AGTAGGAACGTGGAACCAACC 59.929 52.381 0.00 0.00 0.00 3.77
4901 7790 4.982241 AGGAGAGAATTGTGGACTTGAA 57.018 40.909 0.00 0.00 0.00 2.69
4902 7791 4.646572 AGGAGAGAATTGTGGACTTGAAC 58.353 43.478 0.00 0.00 0.00 3.18
4903 7792 3.753797 GGAGAGAATTGTGGACTTGAACC 59.246 47.826 0.00 0.00 0.00 3.62
4904 7793 4.389374 GAGAGAATTGTGGACTTGAACCA 58.611 43.478 0.00 0.00 34.84 3.67
4927 7816 7.557719 ACCACCCATAAAGAAATGAGAATACTG 59.442 37.037 0.00 0.00 0.00 2.74
5051 7973 9.156940 AGGGGTCTTATTAAGTCCTATCTTAAC 57.843 37.037 16.09 1.59 40.93 2.01
5054 7976 9.156940 GGTCTTATTAAGTCCTATCTTAACCCT 57.843 37.037 11.17 0.00 40.93 4.34
5058 7980 4.645968 AAGTCCTATCTTAACCCTCCCT 57.354 45.455 0.00 0.00 0.00 4.20
5059 7981 3.930035 AGTCCTATCTTAACCCTCCCTG 58.070 50.000 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.606602 CGCTTTTATATTAGTTTACGGAGGTTT 58.393 33.333 0.00 0.00 0.00 3.27
1 2 7.981225 TCGCTTTTATATTAGTTTACGGAGGTT 59.019 33.333 0.00 0.00 0.00 3.50
2 3 7.491682 TCGCTTTTATATTAGTTTACGGAGGT 58.508 34.615 0.00 0.00 0.00 3.85
3 4 7.935338 TCGCTTTTATATTAGTTTACGGAGG 57.065 36.000 0.00 0.00 0.00 4.30
4 5 9.408069 AGATCGCTTTTATATTAGTTTACGGAG 57.592 33.333 0.00 0.00 0.00 4.63
122 123 4.377328 CGCATCGAAACTTCAATCAGACAA 60.377 41.667 0.00 0.00 0.00 3.18
123 124 3.123453 CGCATCGAAACTTCAATCAGACA 59.877 43.478 0.00 0.00 0.00 3.41
156 194 4.601406 AGATGGGTTAAAATACAGGCCA 57.399 40.909 5.01 0.00 0.00 5.36
162 200 9.310716 GAGTGTGTACTAGATGGGTTAAAATAC 57.689 37.037 0.00 0.00 37.25 1.89
170 208 6.435292 AAAAAGAGTGTGTACTAGATGGGT 57.565 37.500 0.00 0.00 37.25 4.51
199 237 4.900054 AGGACAGGAAAGTGTGTACTACTT 59.100 41.667 9.40 9.40 35.99 2.24
200 238 4.481072 AGGACAGGAAAGTGTGTACTACT 58.519 43.478 0.00 0.00 35.99 2.57
201 239 4.868314 AGGACAGGAAAGTGTGTACTAC 57.132 45.455 0.00 0.00 35.99 2.73
202 240 5.221581 GGAAAGGACAGGAAAGTGTGTACTA 60.222 44.000 0.00 0.00 36.81 1.82
203 241 4.444449 GGAAAGGACAGGAAAGTGTGTACT 60.444 45.833 0.00 0.00 39.72 2.73
204 242 3.813724 GGAAAGGACAGGAAAGTGTGTAC 59.186 47.826 0.00 0.00 0.00 2.90
205 243 3.714798 AGGAAAGGACAGGAAAGTGTGTA 59.285 43.478 0.00 0.00 0.00 2.90
219 257 2.549349 GGAGTGCGTAAACAGGAAAGGA 60.549 50.000 0.00 0.00 0.00 3.36
233 271 2.271800 GTTTAGTGGAGATGGAGTGCG 58.728 52.381 0.00 0.00 0.00 5.34
242 280 2.334977 TGAGCCAAGGTTTAGTGGAGA 58.665 47.619 0.00 0.00 37.03 3.71
243 281 2.859165 TGAGCCAAGGTTTAGTGGAG 57.141 50.000 0.00 0.00 37.03 3.86
245 283 4.664150 TTTTTGAGCCAAGGTTTAGTGG 57.336 40.909 0.00 0.00 38.00 4.00
268 306 4.804597 AGCCTTGGTTTAGAGGAGTTTTT 58.195 39.130 0.00 0.00 34.91 1.94
269 307 4.455070 AGCCTTGGTTTAGAGGAGTTTT 57.545 40.909 0.00 0.00 34.91 2.43
270 308 4.455070 AAGCCTTGGTTTAGAGGAGTTT 57.545 40.909 0.00 0.00 34.91 2.66
271 309 4.145052 CAAAGCCTTGGTTTAGAGGAGTT 58.855 43.478 0.00 0.00 34.91 3.01
272 310 3.498661 CCAAAGCCTTGGTTTAGAGGAGT 60.499 47.826 5.87 0.00 46.25 3.85
294 332 3.438017 TTGGTTTTGCTGCCACCGC 62.438 57.895 0.00 0.00 34.02 5.68
347 1071 7.093024 ACAATTGCCTAGTGGTAGTACAACTAT 60.093 37.037 16.39 1.71 32.65 2.12
348 1072 6.211986 ACAATTGCCTAGTGGTAGTACAACTA 59.788 38.462 15.42 15.42 35.27 2.24
349 1073 5.012768 ACAATTGCCTAGTGGTAGTACAACT 59.987 40.000 14.79 14.79 35.27 3.16
350 1074 5.243207 ACAATTGCCTAGTGGTAGTACAAC 58.757 41.667 5.05 0.00 35.27 3.32
351 1075 5.012251 TGACAATTGCCTAGTGGTAGTACAA 59.988 40.000 5.05 0.00 35.27 2.41
352 1076 4.528987 TGACAATTGCCTAGTGGTAGTACA 59.471 41.667 5.05 0.00 35.27 2.90
387 1111 3.888583 AGTGCCTGGTAGAGTACTACTC 58.111 50.000 8.02 8.02 45.70 2.59
388 1112 4.686670 GCTAGTGCCTGGTAGAGTACTACT 60.687 50.000 0.00 0.00 45.70 2.57
389 1113 3.565063 GCTAGTGCCTGGTAGAGTACTAC 59.435 52.174 0.00 0.00 45.70 2.73
390 1114 3.818180 GCTAGTGCCTGGTAGAGTACTA 58.182 50.000 0.00 0.00 0.00 1.82
391 1115 2.657143 GCTAGTGCCTGGTAGAGTACT 58.343 52.381 0.00 0.00 0.00 2.73
426 1150 2.501723 GTCTGGCTGGACTGGATTTCTA 59.498 50.000 4.44 0.00 33.81 2.10
427 1151 1.280421 GTCTGGCTGGACTGGATTTCT 59.720 52.381 4.44 0.00 33.81 2.52
428 1152 1.743996 GTCTGGCTGGACTGGATTTC 58.256 55.000 4.44 0.00 33.81 2.17
429 1153 0.036010 CGTCTGGCTGGACTGGATTT 60.036 55.000 8.87 0.00 34.38 2.17
430 1154 0.904865 TCGTCTGGCTGGACTGGATT 60.905 55.000 8.87 0.00 34.38 3.01
878 1604 4.295119 GTGGGCGTGTCGGAGTGT 62.295 66.667 0.00 0.00 0.00 3.55
898 1624 3.691342 TTCACGAGGCGGAGGTGG 61.691 66.667 0.00 0.00 32.65 4.61
899 1625 2.432628 GTTCACGAGGCGGAGGTG 60.433 66.667 0.00 0.00 0.00 4.00
900 1626 3.692406 GGTTCACGAGGCGGAGGT 61.692 66.667 0.00 0.00 0.00 3.85
901 1627 3.234630 TTGGTTCACGAGGCGGAGG 62.235 63.158 0.00 0.00 0.00 4.30
902 1628 2.027625 GTTGGTTCACGAGGCGGAG 61.028 63.158 0.00 0.00 0.00 4.63
903 1629 2.029964 GTTGGTTCACGAGGCGGA 59.970 61.111 0.00 0.00 0.00 5.54
904 1630 3.047877 GGTTGGTTCACGAGGCGG 61.048 66.667 0.00 0.00 0.00 6.13
976 1708 2.069776 CCTGAAGCCCTGAACCTCA 58.930 57.895 0.00 0.00 0.00 3.86
987 1719 2.049627 ATCTCATCCCGGCCTGAAGC 62.050 60.000 0.00 0.00 42.60 3.86
988 1720 0.034616 GATCTCATCCCGGCCTGAAG 59.965 60.000 0.00 0.00 0.00 3.02
989 1721 1.410850 GGATCTCATCCCGGCCTGAA 61.411 60.000 0.00 0.00 43.88 3.02
990 1722 1.838846 GGATCTCATCCCGGCCTGA 60.839 63.158 0.00 0.00 43.88 3.86
991 1723 2.746359 GGATCTCATCCCGGCCTG 59.254 66.667 0.00 0.00 43.88 4.85
1120 1852 2.427245 CGGTCCCAGTCCCAGCTAG 61.427 68.421 0.00 0.00 0.00 3.42
1213 1951 4.717629 CGGCGACAGTGCTTCGGA 62.718 66.667 0.00 0.00 36.96 4.55
1217 1955 4.379243 CCTCCGGCGACAGTGCTT 62.379 66.667 9.30 0.00 34.52 3.91
1306 2044 3.012518 CCTCACCATCAGTCAATCAACC 58.987 50.000 0.00 0.00 0.00 3.77
1336 2074 2.601666 ACCTCGTCAGCCTGCAGA 60.602 61.111 17.39 0.00 0.00 4.26
1348 2089 0.321919 CCATATCCCCATGCACCTCG 60.322 60.000 0.00 0.00 0.00 4.63
1414 2155 2.002977 CAATGGCTCAGGGGAGGGA 61.003 63.158 0.00 0.00 41.67 4.20
1415 2156 2.002977 TCAATGGCTCAGGGGAGGG 61.003 63.158 0.00 0.00 41.67 4.30
1416 2157 1.225704 GTCAATGGCTCAGGGGAGG 59.774 63.158 0.00 0.00 41.67 4.30
1436 2177 1.133790 GAAACATGCACCTCATCAGCC 59.866 52.381 0.00 0.00 31.79 4.85
1437 2178 2.089980 AGAAACATGCACCTCATCAGC 58.910 47.619 0.00 0.00 31.79 4.26
1438 2179 5.587443 TCATAAGAAACATGCACCTCATCAG 59.413 40.000 0.00 0.00 31.79 2.90
1439 2180 5.499313 TCATAAGAAACATGCACCTCATCA 58.501 37.500 0.00 0.00 31.79 3.07
1442 2183 7.512130 AGATATCATAAGAAACATGCACCTCA 58.488 34.615 5.32 0.00 0.00 3.86
1443 2184 7.976135 AGATATCATAAGAAACATGCACCTC 57.024 36.000 5.32 0.00 0.00 3.85
1444 2185 9.277783 GTAAGATATCATAAGAAACATGCACCT 57.722 33.333 5.32 0.00 0.00 4.00
1445 2186 8.507249 GGTAAGATATCATAAGAAACATGCACC 58.493 37.037 5.32 0.00 0.00 5.01
1447 2188 9.625747 TTGGTAAGATATCATAAGAAACATGCA 57.374 29.630 5.32 0.00 0.00 3.96
1464 2220 6.211584 ACAGACAGACATACAGTTGGTAAGAT 59.788 38.462 0.00 0.00 35.14 2.40
1668 2428 3.558006 TGAAACATCGTGCATATAACCGG 59.442 43.478 0.00 0.00 0.00 5.28
1669 2429 4.787381 TGAAACATCGTGCATATAACCG 57.213 40.909 0.00 0.00 0.00 4.44
1670 2430 9.677567 AAATAATGAAACATCGTGCATATAACC 57.322 29.630 0.00 0.00 0.00 2.85
1674 2434 8.023128 GGCTAAATAATGAAACATCGTGCATAT 58.977 33.333 0.00 0.00 0.00 1.78
1827 2589 3.139077 GTTTCACCTGTCTGTAGGGTTG 58.861 50.000 0.00 0.00 42.35 3.77
1870 2632 3.054728 TCTTCGCATTACCCCAATCTTCA 60.055 43.478 0.00 0.00 0.00 3.02
1961 2723 2.811431 CCGAAACAAGACCATTGCTACA 59.189 45.455 0.00 0.00 0.00 2.74
1963 2725 1.810151 GCCGAAACAAGACCATTGCTA 59.190 47.619 0.00 0.00 0.00 3.49
1966 2728 1.336440 TGTGCCGAAACAAGACCATTG 59.664 47.619 0.00 0.00 0.00 2.82
1973 2735 0.877071 AGCTCATGTGCCGAAACAAG 59.123 50.000 15.81 0.00 32.81 3.16
2170 2932 2.364842 ATGAGCTGCTCGAGGGGT 60.365 61.111 23.35 3.81 32.35 4.95
2345 3114 0.252479 AATCTCAGCAGAGGCCACTG 59.748 55.000 24.36 24.36 42.34 3.66
2417 3186 6.594159 CAGGTTATGTTAAGACCAAAGATCGT 59.406 38.462 0.00 0.00 35.89 3.73
2651 3420 3.502595 TCACTTTCTCTACTGTCCAGTCG 59.497 47.826 2.65 0.00 42.54 4.18
2687 3456 9.643693 AAAGAGGCTAAATCATTAAACATTGTG 57.356 29.630 0.00 0.00 0.00 3.33
2859 3628 4.081322 ACGTAGACCACCAATGTCTTTT 57.919 40.909 0.00 0.00 42.78 2.27
2880 3649 4.764050 TTCTTCGCATTACCCCAATCTA 57.236 40.909 0.00 0.00 0.00 1.98
2903 3672 5.015391 TGTCTCCCTCCTCTACTACTTCTTT 59.985 44.000 0.00 0.00 0.00 2.52
2905 3674 4.080186 GTGTCTCCCTCCTCTACTACTTCT 60.080 50.000 0.00 0.00 0.00 2.85
2906 3675 4.201657 GTGTCTCCCTCCTCTACTACTTC 58.798 52.174 0.00 0.00 0.00 3.01
2911 3680 0.394625 GCGTGTCTCCCTCCTCTACT 60.395 60.000 0.00 0.00 0.00 2.57
2913 3682 1.076923 GGCGTGTCTCCCTCCTCTA 60.077 63.158 0.00 0.00 0.00 2.43
2924 3693 3.773117 CCATTTCAACTGGCGTGTC 57.227 52.632 0.00 0.00 0.00 3.67
2932 3701 0.962356 CTGCCTCCGCCATTTCAACT 60.962 55.000 0.00 0.00 0.00 3.16
2936 3705 1.244019 ACAACTGCCTCCGCCATTTC 61.244 55.000 0.00 0.00 0.00 2.17
2956 3725 0.180878 TGCCTTGATCATCATCGGCA 59.819 50.000 21.40 21.40 45.10 5.69
2957 3726 0.873054 CTGCCTTGATCATCATCGGC 59.127 55.000 17.57 17.57 41.11 5.54
2958 3727 2.538512 TCTGCCTTGATCATCATCGG 57.461 50.000 0.00 0.00 0.00 4.18
2959 3728 4.320275 CCATTTCTGCCTTGATCATCATCG 60.320 45.833 0.00 0.00 0.00 3.84
2960 3729 4.583489 ACCATTTCTGCCTTGATCATCATC 59.417 41.667 0.00 0.00 0.00 2.92
2971 3740 1.069049 GCAACAACACCATTTCTGCCT 59.931 47.619 0.00 0.00 0.00 4.75
2990 3759 2.414161 GCACTTGTAACTCATTTCCCGC 60.414 50.000 0.00 0.00 0.00 6.13
2994 3763 4.025229 TGTCACGCACTTGTAACTCATTTC 60.025 41.667 0.00 0.00 0.00 2.17
2996 3765 3.462982 TGTCACGCACTTGTAACTCATT 58.537 40.909 0.00 0.00 0.00 2.57
3002 3771 4.123506 TCTTGATTGTCACGCACTTGTAA 58.876 39.130 0.00 0.00 0.00 2.41
3011 3780 5.063186 CCTCTTTGATCTCTTGATTGTCACG 59.937 44.000 0.00 0.00 32.19 4.35
3057 3826 2.295885 CAGGAGCCATTGGATTCTCAC 58.704 52.381 6.95 0.00 0.00 3.51
3065 3834 0.672342 GCAATAGCAGGAGCCATTGG 59.328 55.000 9.86 0.00 45.91 3.16
3100 3869 2.490903 AGCTTCACATGCCTTCATTGTC 59.509 45.455 0.00 0.00 0.00 3.18
3167 3936 8.100791 AGTAAATAAATGTCTAGCTTCCACACA 58.899 33.333 0.00 0.00 0.00 3.72
3215 3984 3.064545 GCAGAACAGATGGCAAGACATAC 59.935 47.826 0.00 0.00 0.00 2.39
3228 3997 6.406692 ACTACTTACTTTCAGCAGAACAGA 57.593 37.500 0.00 0.00 32.39 3.41
3258 4027 2.039418 AGCATCGGAGCATACAAGGTA 58.961 47.619 3.00 0.00 36.85 3.08
3259 4028 0.833287 AGCATCGGAGCATACAAGGT 59.167 50.000 3.00 0.00 36.85 3.50
3271 4040 0.451383 TTCATTCGGCAAAGCATCGG 59.549 50.000 0.00 0.00 0.00 4.18
3272 4041 1.913403 GTTTCATTCGGCAAAGCATCG 59.087 47.619 0.00 0.00 0.00 3.84
3296 4065 4.265556 GTGTGACTAACGAAATCGAGATGG 59.734 45.833 10.16 0.55 43.02 3.51
3302 4071 4.921470 AATGGTGTGACTAACGAAATCG 57.079 40.909 0.48 0.48 46.33 3.34
3303 4072 5.180492 TGGAAATGGTGTGACTAACGAAATC 59.820 40.000 0.00 0.00 0.00 2.17
3304 4073 5.067273 TGGAAATGGTGTGACTAACGAAAT 58.933 37.500 0.00 0.00 0.00 2.17
3318 4089 1.067295 TCTCTGTGCCTGGAAATGGT 58.933 50.000 0.00 0.00 0.00 3.55
3327 4098 2.906389 TCAAAGTATGGTCTCTGTGCCT 59.094 45.455 0.00 0.00 0.00 4.75
3606 4535 0.467844 AGCAAACATGTGGTGCTCCA 60.468 50.000 24.58 2.64 45.32 3.86
3778 4709 6.816640 ACGAGATTTATGCAGCTTACACTAAA 59.183 34.615 0.00 0.00 0.00 1.85
3779 4710 6.338146 ACGAGATTTATGCAGCTTACACTAA 58.662 36.000 0.00 0.00 0.00 2.24
3802 4733 3.201290 CTGGTAGCCATGATCACTGAAC 58.799 50.000 0.00 0.00 30.82 3.18
3807 4738 3.266510 TGAACTGGTAGCCATGATCAC 57.733 47.619 0.00 0.00 30.82 3.06
3882 4813 1.037493 AGCACCGTGTGAGTTGAGTA 58.963 50.000 8.04 0.00 35.23 2.59
3934 4865 5.560966 TGAAGCCCGTCTTGAATTTTATC 57.439 39.130 0.00 0.00 34.56 1.75
3936 4867 5.007034 TCATGAAGCCCGTCTTGAATTTTA 58.993 37.500 0.00 0.00 34.56 1.52
3948 4879 5.934043 TGTATCTATTTCATCATGAAGCCCG 59.066 40.000 0.00 0.00 37.70 6.13
3950 4881 6.429078 TGCTGTATCTATTTCATCATGAAGCC 59.571 38.462 0.00 0.00 37.70 4.35
3956 4887 5.073554 TGGGGTGCTGTATCTATTTCATCAT 59.926 40.000 0.00 0.00 0.00 2.45
3958 4889 4.973168 TGGGGTGCTGTATCTATTTCATC 58.027 43.478 0.00 0.00 0.00 2.92
3969 4900 1.302949 GCCATTCTGGGGTGCTGTA 59.697 57.895 0.00 0.00 38.19 2.74
4025 4956 1.952266 GACATCGTCGGCCGTTTCAC 61.952 60.000 27.15 15.17 37.94 3.18
4033 4964 2.202756 GGACAGGACATCGTCGGC 60.203 66.667 0.00 0.00 32.65 5.54
4048 4985 0.400213 ACCAGAACGCCATTCTTGGA 59.600 50.000 15.03 0.00 46.05 3.53
4061 4998 1.002624 CCTGCCCGCTTAACCAGAA 60.003 57.895 0.00 0.00 0.00 3.02
4073 5010 2.694760 CGCTCAAAAGCTCCTGCCC 61.695 63.158 0.00 0.00 46.91 5.36
4092 5035 0.260230 TCCAACCCCAAAGCAACTCA 59.740 50.000 0.00 0.00 0.00 3.41
4185 5128 4.758251 TCACCATGCCCTCGTGCG 62.758 66.667 0.00 0.00 0.00 5.34
4200 5143 2.401583 ACAGCATGCCGTCTAAATCA 57.598 45.000 15.66 0.00 42.53 2.57
4202 5145 2.017049 GGAACAGCATGCCGTCTAAAT 58.983 47.619 15.66 0.00 42.53 1.40
4270 5213 2.795329 ACAGAGGGCCACAACAAATAG 58.205 47.619 6.18 0.00 0.00 1.73
4329 5273 9.575868 TTGATAACAAGTTGTTACAATCCCTTA 57.424 29.630 26.58 6.77 44.54 2.69
4386 5330 2.981350 TCAAAACGGGGCCGCTTC 60.981 61.111 18.79 0.00 44.19 3.86
4428 5373 2.809446 CGCGATTCACTGACCATTCTA 58.191 47.619 0.00 0.00 0.00 2.10
4431 5376 0.673333 TGCGCGATTCACTGACCATT 60.673 50.000 12.10 0.00 0.00 3.16
4458 5410 1.766496 TCTGAAACACGGTTTCCTCCT 59.234 47.619 19.93 0.00 0.00 3.69
4508 5460 2.392613 AAACAGCGCAAGGAAGCACG 62.393 55.000 11.47 0.00 35.48 5.34
4652 7535 1.819632 GCTGATAGGGCCAACCACG 60.820 63.158 6.18 0.00 43.89 4.94
4753 7642 7.716799 TTATGGCCACAAGTTCTCATTTTAT 57.283 32.000 8.16 0.00 0.00 1.40
4754 7643 7.716799 ATTATGGCCACAAGTTCTCATTTTA 57.283 32.000 8.16 0.00 0.00 1.52
4762 7651 7.327214 TGGAAATTTATTATGGCCACAAGTTC 58.673 34.615 8.16 10.90 0.00 3.01
4770 7659 6.161381 CAGCATCTGGAAATTTATTATGGCC 58.839 40.000 0.00 0.00 0.00 5.36
4782 7671 2.816087 GAGTGAAAGCAGCATCTGGAAA 59.184 45.455 0.00 0.00 31.21 3.13
4792 7681 1.457303 GCGTACACAGAGTGAAAGCAG 59.543 52.381 3.88 0.00 36.96 4.24
4803 7692 3.003275 ACAAATGGTCTTTGCGTACACAG 59.997 43.478 0.00 0.00 32.93 3.66
4845 7734 2.410939 GTTGGTTCCACGTTCCTACTC 58.589 52.381 0.00 0.00 0.00 2.59
4866 7755 8.579863 ACAATTCTCTCCTTTAAACCAAAGATG 58.420 33.333 0.00 0.00 45.62 2.90
4901 7790 7.557719 CAGTATTCTCATTTCTTTATGGGTGGT 59.442 37.037 0.00 0.00 0.00 4.16
4902 7791 7.469181 GCAGTATTCTCATTTCTTTATGGGTGG 60.469 40.741 0.00 0.00 0.00 4.61
4903 7792 7.284034 AGCAGTATTCTCATTTCTTTATGGGTG 59.716 37.037 0.00 0.00 0.00 4.61
4904 7793 7.349598 AGCAGTATTCTCATTTCTTTATGGGT 58.650 34.615 0.00 0.00 0.00 4.51
4927 7816 4.481072 TCTACCTTCCTCCCTTGTATAGC 58.519 47.826 0.00 0.00 0.00 2.97
4934 7823 3.722172 GGTAGTTCTACCTTCCTCCCTT 58.278 50.000 18.49 0.00 37.16 3.95
4968 7857 5.462729 CGAGTCAATGAGATCAAGGATTCAG 59.537 44.000 0.00 1.90 0.00 3.02
5051 7973 1.413118 AAGTGTTTTTGCAGGGAGGG 58.587 50.000 0.00 0.00 0.00 4.30
5054 7976 6.468543 AGTTTTTAAAGTGTTTTTGCAGGGA 58.531 32.000 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.