Multiple sequence alignment - TraesCS1B01G446000

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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 TraesCS1B01G446000 chr1B 100.000 3361 0 0 1 3361 666080899 666077539 0.000000e+00 6207.0
1 TraesCS1B01G446000 chr1D 92.616 1774 79 14 295 2042 478293614 478291867 0.000000e+00 2503.0
2 TraesCS1B01G446000 chr1D 79.057 721 70 36 2078 2761 478291862 478291186 1.440000e-113 420.0
3 TraesCS1B01G446000 chr1D 96.698 212 3 4 2911 3119 478290814 478290604 1.920000e-92 350.0
4 TraesCS1B01G446000 chr1D 93.182 44 2 1 452 495 478293414 478293372 2.800000e-06 63.9
5 TraesCS1B01G446000 chr1A 90.817 1775 76 32 306 2048 574500549 574498830 0.000000e+00 2294.0
6 TraesCS1B01G446000 chr1A 87.222 720 54 18 1 710 574502973 574502282 0.000000e+00 785.0
7 TraesCS1B01G446000 chr1A 86.957 621 46 20 2761 3357 574498218 574497609 0.000000e+00 665.0
8 TraesCS1B01G446000 chr1A 86.415 530 46 12 2078 2604 574498832 574498326 1.050000e-154 556.0
9 TraesCS1B01G446000 chr1A 95.455 44 1 1 452 495 574502495 574502453 6.020000e-08 69.4
10 TraesCS1B01G446000 chr3B 78.530 871 127 31 1173 2013 418440123 418439283 4.970000e-143 518.0
11 TraesCS1B01G446000 chr3D 82.372 624 81 15 1407 2013 302947519 302948130 1.790000e-142 516.0
12 TraesCS1B01G446000 chr3A 77.647 510 84 19 1173 1673 431741156 431740668 1.970000e-72 283.0


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 TraesCS1B01G446000 chr1B 666077539 666080899 3360 True 6207.000 6207 100.00000 1 3361 1 chr1B.!!$R1 3360
1 TraesCS1B01G446000 chr1D 478290604 478293614 3010 True 834.225 2503 90.38825 295 3119 4 chr1D.!!$R1 2824
2 TraesCS1B01G446000 chr1A 574497609 574502973 5364 True 873.880 2294 89.37320 1 3357 5 chr1A.!!$R1 3356
3 TraesCS1B01G446000 chr3B 418439283 418440123 840 True 518.000 518 78.53000 1173 2013 1 chr3B.!!$R1 840
4 TraesCS1B01G446000 chr3D 302947519 302948130 611 False 516.000 516 82.37200 1407 2013 1 chr3D.!!$F1 606

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
959 3116 0.033090 TCACTGCTCACTGCTCACTG 59.967 55.000 0.0 0.0 43.37 3.66 F
961 3118 1.004799 CTGCTCACTGCTCACTGCT 60.005 57.895 0.0 0.0 43.37 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2061 4262 0.035317 TTGAGTTGATGACCAGCGCT 59.965 50.0 2.64 2.64 0.0 5.92 R
2714 4973 0.108756 GACCACCGAAGAGCCACTAC 60.109 60.0 0.00 0.00 0.0 2.73 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
38 39 5.591877 AGCCTCATCATCCACTGAAATTAAC 59.408 40.000 0.00 0.00 37.44 2.01
56 57 0.560688 ACCCCACACCAAACCAATCT 59.439 50.000 0.00 0.00 0.00 2.40
65 66 1.209504 CCAAACCAATCTCCGAGGCTA 59.790 52.381 0.00 0.00 0.00 3.93
67 68 2.678336 CAAACCAATCTCCGAGGCTAAC 59.322 50.000 0.00 0.00 0.00 2.34
74 75 3.802948 TCTCCGAGGCTAACAAATCTC 57.197 47.619 0.00 0.00 0.00 2.75
116 118 4.081531 CCTTCTTCTGAGACTCTTGAGCAT 60.082 45.833 3.68 0.00 0.00 3.79
121 123 2.233186 CTGAGACTCTTGAGCATGGTCA 59.767 50.000 23.20 23.20 0.00 4.02
149 151 7.175119 CACCCTAGTCGAAAGATATAGACATGA 59.825 40.741 0.00 0.00 45.19 3.07
150 152 7.891183 ACCCTAGTCGAAAGATATAGACATGAT 59.109 37.037 0.00 0.00 45.19 2.45
170 177 4.340950 TGATTGTGTGTCTATATCGAGGCA 59.659 41.667 0.00 0.00 0.00 4.75
191 198 1.373497 GACCCCGCTGATATGCTCG 60.373 63.158 0.00 0.00 0.00 5.03
192 199 2.047844 CCCCGCTGATATGCTCGG 60.048 66.667 0.00 0.00 41.41 4.63
197 204 1.217585 CGCTGATATGCTCGGTGTGG 61.218 60.000 0.00 0.00 36.23 4.17
201 208 0.597637 GATATGCTCGGTGTGGTCGG 60.598 60.000 0.00 0.00 0.00 4.79
216 223 4.117685 GTGGTCGGTAATCTCCATTGTAC 58.882 47.826 0.00 0.00 32.45 2.90
235 242 4.569162 TGTACGCAACAATCTGCTATTACC 59.431 41.667 0.00 0.00 40.33 2.85
237 244 2.599848 CGCAACAATCTGCTATTACCGC 60.600 50.000 0.00 0.00 40.33 5.68
239 246 1.217882 ACAATCTGCTATTACCGCGC 58.782 50.000 0.00 0.00 0.00 6.86
254 261 1.532505 CCGCGCTTCAATGAGATTTGG 60.533 52.381 5.56 0.00 0.00 3.28
255 262 1.131126 CGCGCTTCAATGAGATTTGGT 59.869 47.619 5.56 0.00 0.00 3.67
256 263 2.414559 CGCGCTTCAATGAGATTTGGTT 60.415 45.455 5.56 0.00 0.00 3.67
257 264 3.174375 GCGCTTCAATGAGATTTGGTTC 58.826 45.455 0.00 0.00 0.00 3.62
258 265 3.119708 GCGCTTCAATGAGATTTGGTTCT 60.120 43.478 0.00 0.00 0.00 3.01
259 266 4.409570 CGCTTCAATGAGATTTGGTTCTG 58.590 43.478 0.00 0.00 0.00 3.02
260 267 4.171754 GCTTCAATGAGATTTGGTTCTGC 58.828 43.478 0.00 0.00 0.00 4.26
261 268 4.741342 CTTCAATGAGATTTGGTTCTGCC 58.259 43.478 0.00 0.00 37.90 4.85
262 269 4.038271 TCAATGAGATTTGGTTCTGCCT 57.962 40.909 0.00 0.00 38.35 4.75
279 286 6.686484 TCTGCCTTTCTAGATGCCATAATA 57.314 37.500 0.00 0.00 0.00 0.98
280 287 6.705302 TCTGCCTTTCTAGATGCCATAATAG 58.295 40.000 0.00 0.00 0.00 1.73
293 300 9.412460 AGATGCCATAATAGTTGAAATTTCTCA 57.588 29.630 18.64 3.37 0.00 3.27
316 323 8.224389 TCAATATTGTCCATTCCATGTAGTTG 57.776 34.615 14.97 0.00 0.00 3.16
337 344 1.514678 GGCCTGATGCGTGAACACAA 61.515 55.000 0.00 0.00 42.61 3.33
339 346 1.737236 GCCTGATGCGTGAACACAATA 59.263 47.619 5.80 0.00 0.00 1.90
394 401 1.065701 ACGATAGAGGTCATGTGACGC 59.934 52.381 7.03 2.48 42.46 5.19
448 456 1.273327 CAAAAAGACCTCCACCATGCC 59.727 52.381 0.00 0.00 0.00 4.40
464 472 7.502226 TCCACCATGCCTATAAACAATCTTAAG 59.498 37.037 0.00 0.00 0.00 1.85
515 523 8.721478 TGCTCTTAAACAATCTTAAGCAGTAAG 58.279 33.333 0.00 1.68 38.33 2.34
542 550 2.038557 TCTCACCTGTTTGCTCTAACCC 59.961 50.000 0.00 0.00 0.00 4.11
548 556 3.244561 CCTGTTTGCTCTAACCCTTCTCA 60.245 47.826 0.00 0.00 0.00 3.27
566 574 3.313526 TCTCAAAAGAGCAGACAACTTGC 59.686 43.478 0.00 0.00 0.00 4.01
590 598 8.980610 TGCAATCTTCAAACTAAAATGACAATG 58.019 29.630 0.00 0.00 0.00 2.82
622 633 5.677319 AGCTTACACTACATTTGAGCCTA 57.323 39.130 0.00 0.00 0.00 3.93
655 666 6.728632 ACTCAAATTAACCCCACATACCAAAT 59.271 34.615 0.00 0.00 0.00 2.32
661 672 4.608170 ACCCCACATACCAAATCAATCT 57.392 40.909 0.00 0.00 0.00 2.40
738 2891 0.037326 TAACGGCTGCCACTCTCTTG 60.037 55.000 20.29 1.70 0.00 3.02
739 2892 2.044806 AACGGCTGCCACTCTCTTGT 62.045 55.000 20.29 2.40 0.00 3.16
740 2893 1.185618 ACGGCTGCCACTCTCTTGTA 61.186 55.000 20.29 0.00 0.00 2.41
741 2894 0.176680 CGGCTGCCACTCTCTTGTAT 59.823 55.000 20.29 0.00 0.00 2.29
742 2895 1.804372 CGGCTGCCACTCTCTTGTATC 60.804 57.143 20.29 0.00 0.00 2.24
743 2896 1.484240 GGCTGCCACTCTCTTGTATCT 59.516 52.381 15.17 0.00 0.00 1.98
744 2897 2.093235 GGCTGCCACTCTCTTGTATCTT 60.093 50.000 15.17 0.00 0.00 2.40
861 3014 2.420890 CAGGATCAGAGCTCCGGC 59.579 66.667 10.93 0.00 37.88 6.13
883 3036 2.094854 CCATGCCAAGAACAAGAAGCTC 60.095 50.000 0.00 0.00 0.00 4.09
917 3074 1.341877 CCTCCCTCTCTCTCTTCTGCA 60.342 57.143 0.00 0.00 0.00 4.41
950 3107 2.813042 GCTCCGCTCACTGCTCAC 60.813 66.667 0.00 0.00 40.11 3.51
951 3108 2.969016 CTCCGCTCACTGCTCACT 59.031 61.111 0.00 0.00 40.11 3.41
952 3109 1.445754 CTCCGCTCACTGCTCACTG 60.446 63.158 0.00 0.00 40.11 3.66
953 3110 3.117171 CCGCTCACTGCTCACTGC 61.117 66.667 0.00 0.00 40.11 4.40
954 3111 2.048409 CGCTCACTGCTCACTGCT 60.048 61.111 0.00 0.00 43.37 4.24
955 3112 2.093473 CGCTCACTGCTCACTGCTC 61.093 63.158 0.00 0.00 43.37 4.26
956 3113 1.005275 GCTCACTGCTCACTGCTCA 60.005 57.895 0.00 0.00 43.37 4.26
957 3114 1.290491 GCTCACTGCTCACTGCTCAC 61.290 60.000 0.00 0.00 43.37 3.51
958 3115 0.317799 CTCACTGCTCACTGCTCACT 59.682 55.000 0.00 0.00 43.37 3.41
959 3116 0.033090 TCACTGCTCACTGCTCACTG 59.967 55.000 0.00 0.00 43.37 3.66
960 3117 1.301558 ACTGCTCACTGCTCACTGC 60.302 57.895 0.00 0.00 43.37 4.40
961 3118 1.004799 CTGCTCACTGCTCACTGCT 60.005 57.895 0.00 0.00 43.37 4.24
962 3119 1.005275 TGCTCACTGCTCACTGCTC 60.005 57.895 0.00 0.00 43.37 4.26
963 3120 1.741032 GCTCACTGCTCACTGCTCC 60.741 63.158 0.00 0.00 43.37 4.70
996 3153 1.532437 GTACAAAACCACCACCGCTAC 59.468 52.381 0.00 0.00 0.00 3.58
1005 3162 1.065928 CCACCGCTACCTAGCTTCG 59.934 63.158 0.00 0.00 46.85 3.79
1012 3169 1.065851 GCTACCTAGCTTCGGAGACAC 59.934 57.143 8.58 0.00 45.62 3.67
1056 3217 2.121385 ACTCTCTGCCTGCCTCCA 59.879 61.111 0.00 0.00 0.00 3.86
1094 3256 2.344500 GCCATTGCCTTGCTTGCA 59.656 55.556 0.00 0.00 36.84 4.08
1095 3257 1.740296 GCCATTGCCTTGCTTGCAG 60.740 57.895 0.00 0.00 40.35 4.41
1096 3258 1.969085 CCATTGCCTTGCTTGCAGA 59.031 52.632 0.00 0.00 40.35 4.26
2042 4243 4.077184 GGCACGGTGGATGGTCGA 62.077 66.667 10.60 0.00 0.00 4.20
2045 4246 2.987547 ACGGTGGATGGTCGACGT 60.988 61.111 9.92 0.00 0.00 4.34
2046 4247 2.202570 CGGTGGATGGTCGACGTC 60.203 66.667 9.92 5.18 0.00 4.34
2047 4248 2.967397 GGTGGATGGTCGACGTCA 59.033 61.111 17.16 9.02 36.81 4.35
2048 4249 1.445582 GGTGGATGGTCGACGTCAC 60.446 63.158 17.16 16.73 36.81 3.67
2049 4250 1.800315 GTGGATGGTCGACGTCACG 60.800 63.158 17.16 2.92 36.81 4.35
2075 4276 2.348620 AGCAGCGCTGGTCATCAA 59.651 55.556 34.85 0.00 37.57 2.57
2076 4277 2.037136 AGCAGCGCTGGTCATCAAC 61.037 57.895 34.85 17.07 37.57 3.18
2077 4278 2.037136 GCAGCGCTGGTCATCAACT 61.037 57.895 36.47 0.00 0.00 3.16
2078 4279 1.975363 GCAGCGCTGGTCATCAACTC 61.975 60.000 36.47 13.65 0.00 3.01
2079 4280 0.671472 CAGCGCTGGTCATCAACTCA 60.671 55.000 29.88 0.00 0.00 3.41
2080 4281 0.035317 AGCGCTGGTCATCAACTCAA 59.965 50.000 10.39 0.00 0.00 3.02
2081 4282 1.089920 GCGCTGGTCATCAACTCAAT 58.910 50.000 0.00 0.00 0.00 2.57
2082 4283 1.470098 GCGCTGGTCATCAACTCAATT 59.530 47.619 0.00 0.00 0.00 2.32
2083 4284 2.730090 GCGCTGGTCATCAACTCAATTG 60.730 50.000 0.00 0.00 39.94 2.32
2084 4285 2.159476 CGCTGGTCATCAACTCAATTGG 60.159 50.000 5.42 0.00 38.98 3.16
2085 4286 2.416431 GCTGGTCATCAACTCAATTGGC 60.416 50.000 5.42 0.00 38.98 4.52
2086 4287 1.811965 TGGTCATCAACTCAATTGGCG 59.188 47.619 5.42 0.00 38.98 5.69
2087 4288 1.812571 GGTCATCAACTCAATTGGCGT 59.187 47.619 5.42 0.44 38.98 5.68
2088 4289 2.228822 GGTCATCAACTCAATTGGCGTT 59.771 45.455 5.42 6.89 38.98 4.84
2089 4290 3.305335 GGTCATCAACTCAATTGGCGTTT 60.305 43.478 5.42 0.00 38.98 3.60
2112 4313 1.529438 TCGTTTCTGTGCATTCGGTTC 59.471 47.619 0.00 0.00 0.00 3.62
2128 4329 1.270252 GGTTCGTGGAAACGGGTTAGA 60.270 52.381 0.00 0.00 0.00 2.10
2132 4333 1.796459 CGTGGAAACGGGTTAGACTTG 59.204 52.381 0.00 0.00 0.00 3.16
2134 4335 3.671716 GTGGAAACGGGTTAGACTTGAT 58.328 45.455 0.00 0.00 0.00 2.57
2164 4365 0.719465 CGCTCGTTGGAAGCGTAAAT 59.281 50.000 9.20 0.00 45.59 1.40
2166 4367 2.770532 GCTCGTTGGAAGCGTAAATTC 58.229 47.619 0.00 0.00 0.00 2.17
2169 4370 1.461897 CGTTGGAAGCGTAAATTCGGT 59.538 47.619 0.00 0.00 43.29 4.69
2175 4376 3.547649 AAGCGTAAATTCGGTTGGAAC 57.452 42.857 3.52 0.00 46.89 3.62
2230 4431 1.635487 AGCAGGGGAGTCATTTGCTAA 59.365 47.619 11.39 0.00 42.81 3.09
2292 4494 2.158755 GGATGGACTCCGGACAATGAAT 60.159 50.000 0.00 0.00 33.29 2.57
2308 4510 3.906720 TGAATTGGAGTGGTAGTAGCC 57.093 47.619 0.00 0.00 0.00 3.93
2397 4620 9.912634 ATGTAGTTTTGTCCTTCATTTTGTATG 57.087 29.630 0.00 0.00 0.00 2.39
2398 4621 9.126151 TGTAGTTTTGTCCTTCATTTTGTATGA 57.874 29.630 0.00 0.00 0.00 2.15
2399 4622 9.959749 GTAGTTTTGTCCTTCATTTTGTATGAA 57.040 29.630 0.00 0.00 36.67 2.57
2401 4624 9.883142 AGTTTTGTCCTTCATTTTGTATGAAAA 57.117 25.926 0.00 0.00 37.55 2.29
2483 4725 8.633561 TGTTTCACAAAATTTCTTTGGGTTTTT 58.366 25.926 0.00 0.00 34.58 1.94
2512 4754 4.025061 TGCAATCAAGCAAACCAAAAATCG 60.025 37.500 0.00 0.00 42.46 3.34
2528 4770 9.010029 ACCAAAAATCGTATAAGATTCAAGTGT 57.990 29.630 13.31 6.19 39.69 3.55
2545 4787 7.004555 TCAAGTGTACATGACATTTAGACCT 57.995 36.000 0.00 0.00 41.14 3.85
2569 4828 6.582677 TTCAAATCGATTCAAGGGCTTTTA 57.417 33.333 11.83 0.00 0.00 1.52
2601 4860 3.931907 TCCTTAGGGACACCATTCATG 57.068 47.619 0.00 0.00 40.13 3.07
2602 4861 3.459828 TCCTTAGGGACACCATTCATGA 58.540 45.455 0.00 0.00 40.13 3.07
2603 4862 3.849574 TCCTTAGGGACACCATTCATGAA 59.150 43.478 11.26 11.26 40.13 2.57
2604 4863 4.290985 TCCTTAGGGACACCATTCATGAAA 59.709 41.667 13.09 0.00 40.13 2.69
2605 4864 5.016173 CCTTAGGGACACCATTCATGAAAA 58.984 41.667 13.09 0.00 40.13 2.29
2606 4865 5.480073 CCTTAGGGACACCATTCATGAAAAA 59.520 40.000 13.09 0.00 40.13 1.94
2607 4866 6.155049 CCTTAGGGACACCATTCATGAAAAAT 59.845 38.462 13.09 0.00 40.13 1.82
2608 4867 5.410355 AGGGACACCATTCATGAAAAATG 57.590 39.130 13.09 12.58 40.13 2.32
2609 4868 4.840115 AGGGACACCATTCATGAAAAATGT 59.160 37.500 13.09 15.58 40.13 2.71
2610 4869 5.307716 AGGGACACCATTCATGAAAAATGTT 59.692 36.000 13.09 0.03 40.13 2.71
2611 4870 5.409214 GGGACACCATTCATGAAAAATGTTG 59.591 40.000 13.09 7.80 34.00 3.33
2612 4871 5.409214 GGACACCATTCATGAAAAATGTTGG 59.591 40.000 17.95 17.95 32.60 3.77
2613 4872 5.927819 ACACCATTCATGAAAAATGTTGGT 58.072 33.333 19.03 19.03 37.21 3.67
2614 4873 5.990996 ACACCATTCATGAAAAATGTTGGTC 59.009 36.000 21.03 0.00 35.81 4.02
2615 4874 5.409214 CACCATTCATGAAAAATGTTGGTCC 59.591 40.000 21.03 0.00 35.81 4.46
2616 4875 5.307716 ACCATTCATGAAAAATGTTGGTCCT 59.692 36.000 19.03 2.41 34.21 3.85
2617 4876 6.183361 ACCATTCATGAAAAATGTTGGTCCTT 60.183 34.615 19.03 2.12 34.21 3.36
2618 4877 7.016072 ACCATTCATGAAAAATGTTGGTCCTTA 59.984 33.333 19.03 0.00 34.21 2.69
2619 4878 7.546667 CCATTCATGAAAAATGTTGGTCCTTAG 59.453 37.037 13.09 0.00 33.22 2.18
2620 4879 6.588719 TCATGAAAAATGTTGGTCCTTAGG 57.411 37.500 0.00 0.00 0.00 2.69
2621 4880 5.480073 TCATGAAAAATGTTGGTCCTTAGGG 59.520 40.000 0.00 0.00 0.00 3.53
2622 4881 4.810345 TGAAAAATGTTGGTCCTTAGGGT 58.190 39.130 0.00 0.00 0.00 4.34
2623 4882 4.830600 TGAAAAATGTTGGTCCTTAGGGTC 59.169 41.667 0.00 0.00 0.00 4.46
2624 4883 4.463050 AAAATGTTGGTCCTTAGGGTCA 57.537 40.909 0.00 0.00 0.00 4.02
2625 4884 3.434940 AATGTTGGTCCTTAGGGTCAC 57.565 47.619 0.00 0.00 0.00 3.67
2628 4887 1.071228 GTTGGTCCTTAGGGTCACGTT 59.929 52.381 0.00 0.00 0.00 3.99
2645 4904 2.223971 ACGTTCATGAACACTTCTCGGT 60.224 45.455 32.06 18.93 41.20 4.69
2674 4933 1.149148 GACAAGGTCAAGCCGACTTC 58.851 55.000 4.07 0.00 44.70 3.01
2677 4936 0.319641 AAGGTCAAGCCGACTTCGAC 60.320 55.000 0.00 5.81 44.70 4.20
2682 4941 1.067974 TCAAGCCGACTTCGACAAAGA 59.932 47.619 0.00 0.00 43.02 2.52
2683 4942 1.864711 CAAGCCGACTTCGACAAAGAA 59.135 47.619 0.00 0.00 43.02 2.52
2684 4943 2.234300 AGCCGACTTCGACAAAGAAA 57.766 45.000 0.00 0.00 43.02 2.52
2689 4948 1.595794 GACTTCGACAAAGAAACGGCA 59.404 47.619 0.00 0.00 38.44 5.69
2693 4952 2.756829 TCGACAAAGAAACGGCACATA 58.243 42.857 0.00 0.00 0.00 2.29
2694 4953 3.331150 TCGACAAAGAAACGGCACATAT 58.669 40.909 0.00 0.00 0.00 1.78
2704 4963 2.722094 ACGGCACATATGTGGTTCATT 58.278 42.857 31.63 7.99 45.72 2.57
2706 4965 2.033299 CGGCACATATGTGGTTCATTCC 59.967 50.000 31.63 21.97 45.72 3.01
2707 4966 2.033299 GGCACATATGTGGTTCATTCCG 59.967 50.000 31.63 7.88 45.72 4.30
2708 4967 2.942376 GCACATATGTGGTTCATTCCGA 59.058 45.455 31.63 0.00 45.72 4.55
2709 4968 3.376859 GCACATATGTGGTTCATTCCGAA 59.623 43.478 31.63 0.00 45.72 4.30
2714 4973 3.677700 TATGTGGTTCATTCCGAAGACGG 60.678 47.826 0.00 0.00 46.88 4.79
2723 4985 4.787999 CGAAGACGGTAGTGGCTC 57.212 61.111 0.00 0.00 35.72 4.70
2802 5064 0.597637 ACTGTTGTGAACGCTCGAGG 60.598 55.000 15.58 6.97 0.00 4.63
2842 5199 9.345517 CATTATGATTGTAAATGCCCTTATTCG 57.654 33.333 0.00 0.00 0.00 3.34
2852 5209 5.755409 ATGCCCTTATTCGTATACCATCA 57.245 39.130 0.00 0.00 0.00 3.07
2858 5215 5.048224 CCTTATTCGTATACCATCAGTCGGT 60.048 44.000 0.00 0.00 40.73 4.69
2863 5220 2.579207 ATACCATCAGTCGGTTGTCG 57.421 50.000 0.00 0.00 37.99 4.35
2888 5245 3.434637 GTGCAGAATGTGAAAACACGTT 58.565 40.909 7.40 7.40 39.31 3.99
2984 5486 4.104738 TCCACCCTTCTCAAAAGACTCAAT 59.895 41.667 0.00 0.00 0.00 2.57
3119 5621 2.182825 GCTCATGCATTCGCTCAAAAG 58.817 47.619 0.00 0.00 39.64 2.27
3120 5622 2.793933 CTCATGCATTCGCTCAAAAGG 58.206 47.619 0.00 0.00 39.64 3.11
3122 5624 2.421073 TCATGCATTCGCTCAAAAGGAG 59.579 45.455 0.00 0.00 46.93 3.69
3154 5657 7.193377 ACATGCTCCAAATCATTTGAAAAAC 57.807 32.000 11.98 0.00 43.26 2.43
3156 5659 7.282675 ACATGCTCCAAATCATTTGAAAAACAA 59.717 29.630 11.98 0.00 43.26 2.83
3199 5702 7.490402 CCATTTGCAAAAATAGCCAAAACAAAA 59.510 29.630 17.19 0.00 0.00 2.44
3200 5703 7.803079 TTTGCAAAAATAGCCAAAACAAAAC 57.197 28.000 10.02 0.00 0.00 2.43
3204 5707 6.971756 GCAAAAATAGCCAAAACAAAACACAT 59.028 30.769 0.00 0.00 0.00 3.21
3215 5718 9.039870 CCAAAACAAAACACATACACACAATAT 57.960 29.630 0.00 0.00 0.00 1.28
3247 5750 5.417580 AGATCTCTATGAATAACGGGAGAGC 59.582 44.000 0.00 0.00 36.76 4.09
3248 5751 4.470602 TCTCTATGAATAACGGGAGAGCA 58.529 43.478 0.00 0.00 32.27 4.26
3257 5760 2.327228 CGGGAGAGCAAACCGTTTT 58.673 52.632 0.00 0.00 42.53 2.43
3263 5766 2.182904 GAGCAAACCGTTTTGTTCGT 57.817 45.000 6.53 0.00 41.36 3.85
3264 5767 2.106418 GAGCAAACCGTTTTGTTCGTC 58.894 47.619 6.53 0.00 41.36 4.20
3271 5774 2.289547 ACCGTTTTGTTCGTCTTCATGG 59.710 45.455 0.00 0.00 0.00 3.66
3281 5784 1.673033 CGTCTTCATGGAAACCGCTCT 60.673 52.381 0.00 0.00 0.00 4.09
3308 5821 1.863624 GCGATCTTCTGCCTTCTCTCG 60.864 57.143 0.00 0.00 0.00 4.04
3315 5828 2.347490 GCCTTCTCTCGCCACCAA 59.653 61.111 0.00 0.00 0.00 3.67
3317 5830 1.371183 CCTTCTCTCGCCACCAACA 59.629 57.895 0.00 0.00 0.00 3.33
3322 5835 2.972505 CTCGCCACCAACAACGCT 60.973 61.111 0.00 0.00 0.00 5.07
3333 5846 2.738521 CAACGCTGTGGGTCCTCG 60.739 66.667 0.00 0.00 0.00 4.63
3341 5854 1.000646 GTGGGTCCTCGTCCTCTCT 60.001 63.158 0.00 0.00 0.00 3.10
3347 5860 0.678366 TCCTCGTCCTCTCTGTCTGC 60.678 60.000 0.00 0.00 0.00 4.26
3353 5866 2.101965 CTCTCTGTCTGCCGCTCG 59.898 66.667 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.434739 GGATGATGAGGCTGAAATGGAGT 60.435 47.826 0.00 0.00 0.00 3.85
38 39 1.256812 GAGATTGGTTTGGTGTGGGG 58.743 55.000 0.00 0.00 0.00 4.96
56 57 1.485066 GGGAGATTTGTTAGCCTCGGA 59.515 52.381 0.00 0.00 0.00 4.55
65 66 1.147817 ACAAGGCAGGGGAGATTTGTT 59.852 47.619 0.00 0.00 0.00 2.83
67 68 1.272092 TGACAAGGCAGGGGAGATTTG 60.272 52.381 0.00 0.00 0.00 2.32
74 75 1.479389 GGGAATATGACAAGGCAGGGG 60.479 57.143 0.00 0.00 0.00 4.79
116 118 1.707106 TTCGACTAGGGTGTTGACCA 58.293 50.000 0.00 0.00 45.25 4.02
121 123 6.832384 TGTCTATATCTTTCGACTAGGGTGTT 59.168 38.462 0.00 0.00 0.00 3.32
149 151 4.937201 TGCCTCGATATAGACACACAAT 57.063 40.909 0.00 0.00 0.00 2.71
150 152 4.871513 GATGCCTCGATATAGACACACAA 58.128 43.478 0.00 0.00 0.00 3.33
165 172 4.899239 CAGCGGGGTCGATGCCTC 62.899 72.222 0.00 0.00 45.73 4.70
170 177 1.188219 AGCATATCAGCGGGGTCGAT 61.188 55.000 0.00 0.00 40.15 3.59
180 187 1.858091 GACCACACCGAGCATATCAG 58.142 55.000 0.00 0.00 0.00 2.90
191 198 0.899720 TGGAGATTACCGACCACACC 59.100 55.000 0.00 0.00 0.00 4.16
192 199 2.936498 CAATGGAGATTACCGACCACAC 59.064 50.000 0.00 0.00 35.19 3.82
197 204 2.793232 GCGTACAATGGAGATTACCGAC 59.207 50.000 0.00 0.00 0.00 4.79
201 208 5.539582 TTGTTGCGTACAATGGAGATTAC 57.460 39.130 0.51 0.00 41.73 1.89
227 234 1.864711 TCATTGAAGCGCGGTAATAGC 59.135 47.619 12.91 0.00 0.00 2.97
229 236 3.446310 TCTCATTGAAGCGCGGTAATA 57.554 42.857 12.91 0.00 0.00 0.98
235 242 1.131126 ACCAAATCTCATTGAAGCGCG 59.869 47.619 0.00 0.00 31.84 6.86
237 244 4.409570 CAGAACCAAATCTCATTGAAGCG 58.590 43.478 0.00 0.00 31.84 4.68
239 246 4.461781 AGGCAGAACCAAATCTCATTGAAG 59.538 41.667 0.00 0.00 43.14 3.02
254 261 2.991250 TGGCATCTAGAAAGGCAGAAC 58.009 47.619 17.30 2.44 33.64 3.01
255 262 3.939740 ATGGCATCTAGAAAGGCAGAA 57.060 42.857 22.90 6.91 41.26 3.02
256 263 5.573380 ATTATGGCATCTAGAAAGGCAGA 57.427 39.130 22.90 18.29 41.26 4.26
257 264 6.471146 ACTATTATGGCATCTAGAAAGGCAG 58.529 40.000 22.90 14.63 41.26 4.85
258 265 6.439636 ACTATTATGGCATCTAGAAAGGCA 57.560 37.500 21.55 21.55 42.19 4.75
259 266 6.936900 TCAACTATTATGGCATCTAGAAAGGC 59.063 38.462 18.64 13.21 0.00 4.35
260 267 8.908786 TTCAACTATTATGGCATCTAGAAAGG 57.091 34.615 18.64 8.60 0.00 3.11
316 323 1.375908 TGTTCACGCATCAGGCCTC 60.376 57.895 0.00 0.00 40.31 4.70
378 385 1.834188 TCTGCGTCACATGACCTCTA 58.166 50.000 0.00 0.00 41.86 2.43
381 388 0.897621 TCATCTGCGTCACATGACCT 59.102 50.000 0.00 0.00 41.86 3.85
383 390 2.931969 TCAATCATCTGCGTCACATGAC 59.068 45.455 0.00 1.70 41.47 3.06
464 472 9.285770 CAAACAGGTGAGAAAAAGTTTACTTAC 57.714 33.333 0.00 8.24 34.61 2.34
515 523 3.067320 AGAGCAAACAGGTGAGAAAAAGC 59.933 43.478 0.00 0.00 0.00 3.51
548 556 4.340381 AGATTGCAAGTTGTCTGCTCTTTT 59.660 37.500 4.94 0.00 0.00 2.27
566 574 9.199982 AGCATTGTCATTTTAGTTTGAAGATTG 57.800 29.630 0.00 0.00 0.00 2.67
622 633 3.769300 GGGGTTAATTTGAGTGGCTGATT 59.231 43.478 0.00 0.00 0.00 2.57
655 666 1.330655 GCCTCGGAGTGGGAGATTGA 61.331 60.000 4.02 0.00 42.22 2.57
661 672 0.619255 TTATTGGCCTCGGAGTGGGA 60.619 55.000 3.32 0.00 42.22 4.37
738 2891 4.037446 ACGGCTGAGAAGAGATGAAGATAC 59.963 45.833 0.00 0.00 0.00 2.24
739 2892 4.211125 ACGGCTGAGAAGAGATGAAGATA 58.789 43.478 0.00 0.00 0.00 1.98
740 2893 3.030291 ACGGCTGAGAAGAGATGAAGAT 58.970 45.455 0.00 0.00 0.00 2.40
741 2894 2.425312 GACGGCTGAGAAGAGATGAAGA 59.575 50.000 0.00 0.00 0.00 2.87
742 2895 2.481104 GGACGGCTGAGAAGAGATGAAG 60.481 54.545 0.00 0.00 0.00 3.02
743 2896 1.478510 GGACGGCTGAGAAGAGATGAA 59.521 52.381 0.00 0.00 0.00 2.57
744 2897 1.107114 GGACGGCTGAGAAGAGATGA 58.893 55.000 0.00 0.00 0.00 2.92
842 2995 1.760086 CCGGAGCTCTGATCCTGGT 60.760 63.158 24.60 0.00 34.45 4.00
845 2998 2.841988 GGCCGGAGCTCTGATCCT 60.842 66.667 24.60 0.00 39.73 3.24
861 3014 1.067354 GCTTCTTGTTCTTGGCATGGG 60.067 52.381 0.00 0.00 0.00 4.00
883 3036 0.105709 GGGAGGAGGAAGGAGAGAGG 60.106 65.000 0.00 0.00 0.00 3.69
917 3074 2.037847 GCAGAGCCCCCACCAAAT 59.962 61.111 0.00 0.00 0.00 2.32
952 3109 4.416738 GGGTGGGGAGCAGTGAGC 62.417 72.222 0.00 0.00 46.19 4.26
953 3110 3.721706 GGGGTGGGGAGCAGTGAG 61.722 72.222 0.00 0.00 0.00 3.51
954 3111 4.590553 TGGGGTGGGGAGCAGTGA 62.591 66.667 0.00 0.00 0.00 3.41
955 3112 4.351054 GTGGGGTGGGGAGCAGTG 62.351 72.222 0.00 0.00 0.00 3.66
960 3117 3.572715 TACTGGGTGGGGTGGGGAG 62.573 68.421 0.00 0.00 0.00 4.30
961 3118 3.543626 TACTGGGTGGGGTGGGGA 61.544 66.667 0.00 0.00 0.00 4.81
962 3119 3.335729 GTACTGGGTGGGGTGGGG 61.336 72.222 0.00 0.00 0.00 4.96
963 3120 1.721093 TTTGTACTGGGTGGGGTGGG 61.721 60.000 0.00 0.00 0.00 4.61
996 3153 0.179124 GCTGTGTCTCCGAAGCTAGG 60.179 60.000 1.91 1.91 32.82 3.02
1005 3162 1.067495 GTGGTCTACTGCTGTGTCTCC 60.067 57.143 6.48 4.65 0.00 3.71
1033 3194 1.233285 GGCAGGCAGAGAGTGTTGTG 61.233 60.000 0.00 0.00 0.00 3.33
1076 3237 2.812178 GCAAGCAAGGCAATGGCG 60.812 61.111 0.00 0.00 42.47 5.69
1094 3256 2.881389 CGACCTCTGCTTCGCTCT 59.119 61.111 0.00 0.00 0.00 4.09
1098 3260 2.169789 CATGGCGACCTCTGCTTCG 61.170 63.158 0.00 0.00 38.31 3.79
1100 3262 1.220206 CTCATGGCGACCTCTGCTT 59.780 57.895 0.00 0.00 0.00 3.91
1101 3263 1.674764 CTCTCATGGCGACCTCTGCT 61.675 60.000 0.00 0.00 0.00 4.24
1102 3264 1.227205 CTCTCATGGCGACCTCTGC 60.227 63.158 0.00 0.00 0.00 4.26
1103 3265 1.227205 GCTCTCATGGCGACCTCTG 60.227 63.158 0.00 0.00 0.00 3.35
1104 3266 2.430610 GGCTCTCATGGCGACCTCT 61.431 63.158 0.00 0.00 0.00 3.69
2058 4259 2.037136 GTTGATGACCAGCGCTGCT 61.037 57.895 31.96 19.65 40.77 4.24
2059 4260 1.975363 GAGTTGATGACCAGCGCTGC 61.975 60.000 31.96 19.42 0.00 5.25
2060 4261 0.671472 TGAGTTGATGACCAGCGCTG 60.671 55.000 30.52 30.52 0.00 5.18
2061 4262 0.035317 TTGAGTTGATGACCAGCGCT 59.965 50.000 2.64 2.64 0.00 5.92
2062 4263 1.089920 ATTGAGTTGATGACCAGCGC 58.910 50.000 0.00 0.00 0.00 5.92
2063 4264 2.159476 CCAATTGAGTTGATGACCAGCG 60.159 50.000 7.12 0.00 40.37 5.18
2064 4265 2.416431 GCCAATTGAGTTGATGACCAGC 60.416 50.000 7.12 0.00 40.37 4.85
2065 4266 2.159476 CGCCAATTGAGTTGATGACCAG 60.159 50.000 7.12 0.00 40.37 4.00
2066 4267 1.811965 CGCCAATTGAGTTGATGACCA 59.188 47.619 7.12 0.00 40.37 4.02
2067 4268 1.812571 ACGCCAATTGAGTTGATGACC 59.187 47.619 7.12 0.00 40.37 4.02
2068 4269 3.559238 AACGCCAATTGAGTTGATGAC 57.441 42.857 7.12 0.00 40.37 3.06
2069 4270 4.582701 AAAACGCCAATTGAGTTGATGA 57.417 36.364 16.28 0.00 40.37 2.92
2088 4289 3.181495 ACCGAATGCACAGAAACGAAAAA 60.181 39.130 0.00 0.00 0.00 1.94
2089 4290 2.356382 ACCGAATGCACAGAAACGAAAA 59.644 40.909 0.00 0.00 0.00 2.29
2095 4296 1.262950 CACGAACCGAATGCACAGAAA 59.737 47.619 0.00 0.00 0.00 2.52
2098 4299 0.948623 TCCACGAACCGAATGCACAG 60.949 55.000 0.00 0.00 0.00 3.66
2112 4313 1.796459 CAAGTCTAACCCGTTTCCACG 59.204 52.381 0.00 0.00 46.71 4.94
2128 4329 2.849081 CGTAAACGCCCCATCAAGT 58.151 52.632 0.00 0.00 0.00 3.16
2164 4365 1.682740 GTTCCCAAGTTCCAACCGAA 58.317 50.000 0.00 0.00 0.00 4.30
2166 4367 0.466555 TGGTTCCCAAGTTCCAACCG 60.467 55.000 0.00 0.00 41.17 4.44
2169 4370 4.810345 AGTATTTGGTTCCCAAGTTCCAA 58.190 39.130 0.00 0.00 44.84 3.53
2170 4371 4.463050 AGTATTTGGTTCCCAAGTTCCA 57.537 40.909 0.00 0.00 44.84 3.53
2171 4372 4.393990 CGTAGTATTTGGTTCCCAAGTTCC 59.606 45.833 0.00 0.00 44.84 3.62
2172 4373 4.999311 ACGTAGTATTTGGTTCCCAAGTTC 59.001 41.667 0.00 0.00 42.14 3.01
2173 4374 4.976864 ACGTAGTATTTGGTTCCCAAGTT 58.023 39.130 0.00 0.00 42.14 2.66
2174 4375 4.628963 ACGTAGTATTTGGTTCCCAAGT 57.371 40.909 0.00 0.00 42.14 3.16
2175 4376 5.952526 AAACGTAGTATTTGGTTCCCAAG 57.047 39.130 0.00 0.00 45.00 3.61
2230 4431 9.857656 AATCTACAGAATCATTACATCCAACAT 57.142 29.630 0.00 0.00 0.00 2.71
2292 4494 2.743553 GTAGGGCTACTACCACTCCAA 58.256 52.381 7.59 0.00 45.15 3.53
2308 4510 1.466856 TGCGTGGTACTACTGGTAGG 58.533 55.000 7.83 0.00 37.49 3.18
2352 4559 5.164620 ACATGATGCCCGATGATAATACA 57.835 39.130 0.00 0.00 0.00 2.29
2353 4560 6.341316 ACTACATGATGCCCGATGATAATAC 58.659 40.000 0.00 0.00 0.00 1.89
2357 4564 4.890158 AACTACATGATGCCCGATGATA 57.110 40.909 0.00 0.00 0.00 2.15
2360 4567 3.378112 ACAAAACTACATGATGCCCGATG 59.622 43.478 0.00 0.00 0.00 3.84
2361 4568 3.620488 ACAAAACTACATGATGCCCGAT 58.380 40.909 0.00 0.00 0.00 4.18
2464 4706 9.505995 CATCAAGAAAAACCCAAAGAAATTTTG 57.494 29.630 0.00 0.00 0.00 2.44
2528 4770 8.664798 CGATTTGAAAGGTCTAAATGTCATGTA 58.335 33.333 0.00 0.00 0.00 2.29
2539 4781 5.880332 CCCTTGAATCGATTTGAAAGGTCTA 59.120 40.000 28.30 9.22 0.00 2.59
2545 4787 5.467035 AAAGCCCTTGAATCGATTTGAAA 57.533 34.783 12.81 6.86 0.00 2.69
2569 4828 1.338136 CCTAAGGACCAGCATCCCGT 61.338 60.000 0.00 0.00 39.91 5.28
2594 4853 7.546667 CCTAAGGACCAACATTTTTCATGAATG 59.453 37.037 9.40 7.47 39.73 2.67
2595 4854 7.310609 CCCTAAGGACCAACATTTTTCATGAAT 60.311 37.037 9.40 0.00 33.47 2.57
2596 4855 6.014669 CCCTAAGGACCAACATTTTTCATGAA 60.015 38.462 3.38 3.38 33.47 2.57
2597 4856 5.480073 CCCTAAGGACCAACATTTTTCATGA 59.520 40.000 0.00 0.00 33.47 3.07
2598 4857 5.245977 ACCCTAAGGACCAACATTTTTCATG 59.754 40.000 0.00 0.00 36.73 3.07
2599 4858 5.402630 ACCCTAAGGACCAACATTTTTCAT 58.597 37.500 0.00 0.00 36.73 2.57
2600 4859 4.810345 ACCCTAAGGACCAACATTTTTCA 58.190 39.130 0.00 0.00 36.73 2.69
2601 4860 4.830600 TGACCCTAAGGACCAACATTTTTC 59.169 41.667 0.00 0.00 36.73 2.29
2602 4861 4.587262 GTGACCCTAAGGACCAACATTTTT 59.413 41.667 0.00 0.00 36.73 1.94
2603 4862 4.149598 GTGACCCTAAGGACCAACATTTT 58.850 43.478 0.00 0.00 36.73 1.82
2604 4863 3.763057 GTGACCCTAAGGACCAACATTT 58.237 45.455 0.00 0.00 36.73 2.32
2605 4864 2.290071 CGTGACCCTAAGGACCAACATT 60.290 50.000 0.00 0.00 36.73 2.71
2606 4865 1.278127 CGTGACCCTAAGGACCAACAT 59.722 52.381 0.00 0.00 36.73 2.71
2607 4866 0.682852 CGTGACCCTAAGGACCAACA 59.317 55.000 0.00 0.00 36.73 3.33
2608 4867 0.683412 ACGTGACCCTAAGGACCAAC 59.317 55.000 0.00 0.00 36.73 3.77
2609 4868 1.345415 GAACGTGACCCTAAGGACCAA 59.655 52.381 0.00 0.00 36.73 3.67
2610 4869 0.971386 GAACGTGACCCTAAGGACCA 59.029 55.000 0.00 0.00 36.73 4.02
2611 4870 0.971386 TGAACGTGACCCTAAGGACC 59.029 55.000 0.00 0.00 36.73 4.46
2612 4871 2.232941 TCATGAACGTGACCCTAAGGAC 59.767 50.000 0.00 0.00 36.73 3.85
2613 4872 2.531771 TCATGAACGTGACCCTAAGGA 58.468 47.619 0.00 0.00 36.73 3.36
2614 4873 3.000727 GTTCATGAACGTGACCCTAAGG 58.999 50.000 22.09 0.00 40.04 2.69
2615 4874 3.432252 GTGTTCATGAACGTGACCCTAAG 59.568 47.826 28.55 0.00 43.94 2.18
2616 4875 3.070446 AGTGTTCATGAACGTGACCCTAA 59.930 43.478 28.55 9.32 43.94 2.69
2617 4876 2.631062 AGTGTTCATGAACGTGACCCTA 59.369 45.455 28.55 9.99 43.94 3.53
2618 4877 1.416401 AGTGTTCATGAACGTGACCCT 59.584 47.619 28.55 16.01 43.94 4.34
2619 4878 1.878953 AGTGTTCATGAACGTGACCC 58.121 50.000 28.55 14.37 43.94 4.46
2620 4879 3.131396 AGAAGTGTTCATGAACGTGACC 58.869 45.455 28.55 17.83 43.94 4.02
2621 4880 3.121328 CGAGAAGTGTTCATGAACGTGAC 60.121 47.826 28.55 22.04 43.94 3.67
2622 4881 3.049912 CGAGAAGTGTTCATGAACGTGA 58.950 45.455 28.55 12.71 43.94 4.35
2623 4882 2.155732 CCGAGAAGTGTTCATGAACGTG 59.844 50.000 28.55 14.78 43.94 4.49
2624 4883 2.223971 ACCGAGAAGTGTTCATGAACGT 60.224 45.455 28.55 18.23 43.94 3.99
2625 4884 2.404215 ACCGAGAAGTGTTCATGAACG 58.596 47.619 28.55 17.13 43.94 3.95
2628 4887 2.104111 ACCAACCGAGAAGTGTTCATGA 59.896 45.455 0.00 0.00 0.00 3.07
2674 4933 3.120338 ACATATGTGCCGTTTCTTTGTCG 60.120 43.478 7.78 0.00 0.00 4.35
2677 4936 3.057596 ACCACATATGTGCCGTTTCTTTG 60.058 43.478 27.27 13.52 44.34 2.77
2682 4941 2.509569 TGAACCACATATGTGCCGTTT 58.490 42.857 27.27 17.09 44.34 3.60
2683 4942 2.192664 TGAACCACATATGTGCCGTT 57.807 45.000 27.27 24.68 44.34 4.44
2684 4943 2.418368 ATGAACCACATATGTGCCGT 57.582 45.000 27.27 18.66 44.34 5.68
2689 4948 4.876107 GTCTTCGGAATGAACCACATATGT 59.124 41.667 1.41 1.41 38.38 2.29
2693 4952 2.346803 CGTCTTCGGAATGAACCACAT 58.653 47.619 0.00 0.00 41.45 3.21
2694 4953 1.790755 CGTCTTCGGAATGAACCACA 58.209 50.000 0.00 0.00 31.87 4.17
2706 4965 0.526662 AAGAGCCACTACCGTCTTCG 59.473 55.000 0.00 0.00 0.00 3.79
2707 4966 1.467713 CGAAGAGCCACTACCGTCTTC 60.468 57.143 0.00 0.00 40.97 2.87
2708 4967 0.526662 CGAAGAGCCACTACCGTCTT 59.473 55.000 0.00 0.00 31.85 3.01
2709 4968 1.313812 CCGAAGAGCCACTACCGTCT 61.314 60.000 0.00 0.00 0.00 4.18
2714 4973 0.108756 GACCACCGAAGAGCCACTAC 60.109 60.000 0.00 0.00 0.00 2.73
2723 4985 2.076863 GAAGACAATGGACCACCGAAG 58.923 52.381 0.00 0.00 39.42 3.79
2770 5032 8.911662 GCGTTCACAACAGTTATGATAATTTTT 58.088 29.630 0.00 0.00 0.00 1.94
2771 5033 8.296713 AGCGTTCACAACAGTTATGATAATTTT 58.703 29.630 0.00 0.00 0.00 1.82
2772 5034 7.816640 AGCGTTCACAACAGTTATGATAATTT 58.183 30.769 0.00 0.00 0.00 1.82
2773 5035 7.377766 AGCGTTCACAACAGTTATGATAATT 57.622 32.000 0.00 0.00 0.00 1.40
2785 5047 1.300620 CCCTCGAGCGTTCACAACA 60.301 57.895 6.99 0.00 0.00 3.33
2786 5048 2.027625 CCCCTCGAGCGTTCACAAC 61.028 63.158 6.99 0.00 0.00 3.32
2787 5049 2.342279 CCCCTCGAGCGTTCACAA 59.658 61.111 6.99 0.00 0.00 3.33
2795 5057 1.468914 GACAAATTTGACCCCTCGAGC 59.531 52.381 24.64 0.00 0.00 5.03
2802 5064 7.330262 ACAATCATAATGGACAAATTTGACCC 58.670 34.615 28.83 24.16 41.36 4.46
2842 5199 3.369385 CGACAACCGACTGATGGTATAC 58.631 50.000 0.00 0.00 39.29 1.47
2852 5209 3.048602 CACCTCCGACAACCGACT 58.951 61.111 0.00 0.00 41.76 4.18
2858 5215 0.396435 ACATTCTGCACCTCCGACAA 59.604 50.000 0.00 0.00 0.00 3.18
2863 5220 2.622942 TGTTTTCACATTCTGCACCTCC 59.377 45.455 0.00 0.00 0.00 4.30
2888 5245 3.442625 CCTGTCTATCAGTCCACAACGTA 59.557 47.826 0.00 0.00 42.19 3.57
3029 5531 4.515567 ACGGCAAAAGAGAGTAAAGGAAAG 59.484 41.667 0.00 0.00 0.00 2.62
3131 5634 7.192148 TGTTTTTCAAATGATTTGGAGCATG 57.808 32.000 17.01 0.00 40.98 4.06
3132 5635 7.804843 TTGTTTTTCAAATGATTTGGAGCAT 57.195 28.000 17.01 0.00 40.98 3.79
3168 5671 4.759183 TGGCTATTTTTGCAAATGGGTTTC 59.241 37.500 13.65 1.78 34.29 2.78
3221 5724 6.785076 TCTCCCGTTATTCATAGAGATCTCT 58.215 40.000 27.69 27.69 43.40 3.10
3222 5725 6.404293 GCTCTCCCGTTATTCATAGAGATCTC 60.404 46.154 15.29 15.29 33.82 2.75
3223 5726 5.417580 GCTCTCCCGTTATTCATAGAGATCT 59.582 44.000 0.00 0.00 33.82 2.75
3225 5728 5.080337 TGCTCTCCCGTTATTCATAGAGAT 58.920 41.667 0.00 0.00 33.82 2.75
3226 5729 4.470602 TGCTCTCCCGTTATTCATAGAGA 58.529 43.478 0.00 0.00 33.82 3.10
3227 5730 4.855715 TGCTCTCCCGTTATTCATAGAG 57.144 45.455 0.00 0.00 34.84 2.43
3228 5731 5.357257 GTTTGCTCTCCCGTTATTCATAGA 58.643 41.667 0.00 0.00 0.00 1.98
3230 5733 4.448210 GGTTTGCTCTCCCGTTATTCATA 58.552 43.478 0.00 0.00 0.00 2.15
3231 5734 3.279434 GGTTTGCTCTCCCGTTATTCAT 58.721 45.455 0.00 0.00 0.00 2.57
3232 5735 2.706890 GGTTTGCTCTCCCGTTATTCA 58.293 47.619 0.00 0.00 0.00 2.57
3235 5738 3.453559 CGGTTTGCTCTCCCGTTAT 57.546 52.632 0.00 0.00 37.00 1.89
3248 5751 4.347813 CATGAAGACGAACAAAACGGTTT 58.652 39.130 0.00 0.00 34.93 3.27
3253 5756 4.738252 GGTTTCCATGAAGACGAACAAAAC 59.262 41.667 0.00 0.00 0.00 2.43
3254 5757 4.496673 CGGTTTCCATGAAGACGAACAAAA 60.497 41.667 0.00 0.00 0.00 2.44
3257 5760 2.139917 CGGTTTCCATGAAGACGAACA 58.860 47.619 0.00 0.00 0.00 3.18
3263 5766 2.832129 ACTAGAGCGGTTTCCATGAAGA 59.168 45.455 0.00 0.00 0.00 2.87
3264 5767 2.932614 CACTAGAGCGGTTTCCATGAAG 59.067 50.000 0.00 0.00 0.00 3.02
3271 5774 0.802607 CGCCTCACTAGAGCGGTTTC 60.803 60.000 0.00 0.00 40.68 2.78
3281 5784 0.747255 GGCAGAAGATCGCCTCACTA 59.253 55.000 2.39 0.00 45.29 2.74
3308 5821 2.026014 CACAGCGTTGTTGGTGGC 59.974 61.111 0.63 0.00 41.54 5.01
3315 5828 2.426023 GAGGACCCACAGCGTTGT 59.574 61.111 0.00 0.00 38.31 3.32
3317 5830 3.222354 GACGAGGACCCACAGCGTT 62.222 63.158 0.00 0.00 35.09 4.84
3322 5835 1.304217 GAGAGGACGAGGACCCACA 60.304 63.158 0.00 0.00 0.00 4.17
3333 5846 2.183046 GCGGCAGACAGAGAGGAC 59.817 66.667 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.