Multiple sequence alignment - TraesCS3D01G361100

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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 TraesCS3D01G361100 chr3D 100.000 3109 0 0 1 3109 474616872 474613764 0.000000e+00 5742.0
1 TraesCS3D01G361100 chr3D 94.048 168 4 1 2893 3054 560918475 560918642 1.850000e-62 250.0
2 TraesCS3D01G361100 chr3D 93.711 159 8 2 2897 3054 29974880 29974723 1.440000e-58 237.0
3 TraesCS3D01G361100 chr3D 95.918 49 2 0 3061 3109 29974152 29974104 2.570000e-11 80.5
4 TraesCS3D01G361100 chr3D 95.918 49 2 0 3061 3109 560919213 560919261 2.570000e-11 80.5
5 TraesCS3D01G361100 chr3A 94.279 2954 86 38 1 2896 617062535 617059607 0.000000e+00 4442.0
6 TraesCS3D01G361100 chr3B 94.015 2690 88 27 1 2657 631038770 631036121 0.000000e+00 4008.0
7 TraesCS3D01G361100 chr3B 92.549 255 13 1 2642 2896 631034949 631034701 8.200000e-96 361.0
8 TraesCS3D01G361100 chr2B 95.122 164 2 1 2897 3054 575173577 575173740 1.430000e-63 254.0
9 TraesCS3D01G361100 chr6D 93.902 164 4 2 2897 3054 465848106 465847943 3.100000e-60 243.0
10 TraesCS3D01G361100 chr6D 93.902 164 4 3 2897 3054 465849415 465849252 3.100000e-60 243.0
11 TraesCS3D01G361100 chr6D 97.959 49 1 0 3061 3109 465847401 465847353 5.520000e-13 86.1
12 TraesCS3D01G361100 chr7D 92.216 167 4 3 2897 3054 613768343 613768509 8.670000e-56 228.0
13 TraesCS3D01G361100 chr7D 93.878 49 3 0 3061 3109 613773489 613773537 1.200000e-09 75.0
14 TraesCS3D01G361100 chr1A 78.453 181 31 7 1240 1416 33398703 33398527 9.110000e-21 111.0
15 TraesCS3D01G361100 chr2D 77.838 185 36 4 1236 1416 590146420 590146603 3.280000e-20 110.0
16 TraesCS3D01G361100 chr1D 77.901 181 32 7 1240 1416 35060885 35060709 4.240000e-19 106.0
17 TraesCS3D01G361100 chr2A 77.297 185 37 4 1236 1416 724513591 724513774 1.530000e-18 104.0
18 TraesCS3D01G361100 chr5D 77.515 169 36 2 1249 1416 254023410 254023577 1.970000e-17 100.0
19 TraesCS3D01G361100 chr5A 77.515 169 36 2 1249 1416 336950101 336950268 1.970000e-17 100.0
20 TraesCS3D01G361100 chr5B 76.923 169 37 2 1249 1416 288892876 288892709 9.180000e-16 95.3


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 TraesCS3D01G361100 chr3D 474613764 474616872 3108 True 5742.0 5742 100.000 1 3109 1 chr3D.!!$R1 3108
1 TraesCS3D01G361100 chr3A 617059607 617062535 2928 True 4442.0 4442 94.279 1 2896 1 chr3A.!!$R1 2895
2 TraesCS3D01G361100 chr3B 631034701 631038770 4069 True 2184.5 4008 93.282 1 2896 2 chr3B.!!$R1 2895

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
845 852 0.104725 ATGTCTCCCTCCATCCCCTC 60.105 60.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2769 4031 0.109086 CGTCGAGTGTGCTGATCCTT 60.109 55.0 0.0 0.0 0.0 3.36 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
62 65 0.815615 GAACAGATAAGCCCGGCCTG 60.816 60.000 5.55 8.80 0.00 4.85
129 132 1.868498 TCACGTTCACCCGTTGAAATC 59.132 47.619 0.00 0.00 46.09 2.17
222 225 6.074142 GCTGCCAATAATTAAGTTATGCAAGC 60.074 38.462 0.00 0.00 33.72 4.01
353 356 7.800767 CAGGTGTACTGCTTAATTGCTATATG 58.199 38.462 0.00 0.00 40.97 1.78
442 449 3.632145 ACGCCTTCCATATTGAATTCACC 59.368 43.478 7.89 0.00 0.00 4.02
502 509 5.168526 TCAATGAACGAACTCCAAAACTG 57.831 39.130 0.00 0.00 0.00 3.16
503 510 4.036262 TCAATGAACGAACTCCAAAACTGG 59.964 41.667 0.00 0.00 0.00 4.00
504 511 2.993937 TGAACGAACTCCAAAACTGGT 58.006 42.857 0.00 0.00 0.00 4.00
554 561 0.459585 CACCACGTACGATTCCCCTG 60.460 60.000 24.41 7.57 0.00 4.45
558 565 2.108362 GTACGATTCCCCTGGGCG 59.892 66.667 7.39 8.14 34.68 6.13
760 767 0.179018 GCCTTAAGGATGTCGGGCAT 60.179 55.000 26.21 0.00 41.24 4.40
794 801 4.393680 GCGAGCTATGCTATCAGTAGTAGT 59.606 45.833 3.25 0.00 39.88 2.73
795 802 5.581479 GCGAGCTATGCTATCAGTAGTAGTA 59.419 44.000 3.25 0.00 39.88 1.82
796 803 6.237996 GCGAGCTATGCTATCAGTAGTAGTAG 60.238 46.154 3.25 0.00 39.88 2.57
845 852 0.104725 ATGTCTCCCTCCATCCCCTC 60.105 60.000 0.00 0.00 0.00 4.30
889 899 3.753434 CCGCGCACTGGAGAGAGT 61.753 66.667 8.75 0.00 0.00 3.24
1044 1054 3.519510 AGATCCCGGAAGAAACAAGATCA 59.480 43.478 0.73 0.00 32.86 2.92
1063 1073 5.303589 AGATCAGTAGTACGAGAGACTAGCT 59.696 44.000 0.00 0.00 30.08 3.32
1064 1074 6.491062 AGATCAGTAGTACGAGAGACTAGCTA 59.509 42.308 0.00 0.00 30.08 3.32
1104 1135 5.375956 AGTGGGGGTCAGATAGTAGATAGAA 59.624 44.000 0.00 0.00 0.00 2.10
1119 1150 5.389859 AGATAGAAAGATCATCGAGCTGG 57.610 43.478 0.00 0.00 0.00 4.85
1473 1504 2.385875 CGACAGCAGCAGCAACGAT 61.386 57.895 3.17 0.00 45.49 3.73
1594 1631 5.176406 CGGATCATGACATGTAAGTTAGCAG 59.824 44.000 14.98 0.00 0.00 4.24
1595 1632 6.051717 GGATCATGACATGTAAGTTAGCAGT 58.948 40.000 14.98 0.00 0.00 4.40
1596 1633 7.210174 GGATCATGACATGTAAGTTAGCAGTA 58.790 38.462 14.98 0.00 0.00 2.74
1597 1634 7.383572 GGATCATGACATGTAAGTTAGCAGTAG 59.616 40.741 14.98 0.00 0.00 2.57
1599 1636 5.400066 TGACATGTAAGTTAGCAGTAGCA 57.600 39.130 0.00 0.00 45.49 3.49
1600 1637 5.168569 TGACATGTAAGTTAGCAGTAGCAC 58.831 41.667 0.00 0.00 45.49 4.40
1601 1638 4.504858 ACATGTAAGTTAGCAGTAGCACC 58.495 43.478 0.00 0.00 45.49 5.01
1602 1639 3.604875 TGTAAGTTAGCAGTAGCACCC 57.395 47.619 0.00 0.00 45.49 4.61
1603 1640 2.901192 TGTAAGTTAGCAGTAGCACCCA 59.099 45.455 0.00 0.00 45.49 4.51
1604 1641 3.517901 TGTAAGTTAGCAGTAGCACCCAT 59.482 43.478 0.00 0.00 45.49 4.00
1666 1708 4.792521 ACAGTATCCTTAGATCATCGGC 57.207 45.455 0.00 0.00 33.67 5.54
1684 1726 2.008268 GCCCGGTGCTGATCCATTTG 62.008 60.000 0.00 0.00 36.87 2.32
1838 1880 1.905512 GGACAGGTTCAGCCGGTAT 59.094 57.895 1.90 0.00 45.67 2.73
1845 1887 0.535335 GTTCAGCCGGTATGTGAGGA 59.465 55.000 1.90 0.00 0.00 3.71
2247 2314 2.693762 CGGCCTGTTGCATGGTCTG 61.694 63.158 0.00 0.00 43.89 3.51
2265 2332 5.071788 TGGTCTGCTATAATTAACCTCTGGG 59.928 44.000 3.96 0.00 38.88 4.45
2268 2335 5.071788 TCTGCTATAATTAACCTCTGGGTGG 59.928 44.000 0.00 0.00 46.67 4.61
2428 2499 0.323629 CAAGGCGTTAGGTGGGAAGA 59.676 55.000 0.00 0.00 0.00 2.87
2577 2652 1.216678 TGTCCCTGGCCTTTTCAAGAA 59.783 47.619 3.32 0.00 0.00 2.52
2652 3914 2.409870 GGAAACTGCTGGGCGATGG 61.410 63.158 0.00 0.00 0.00 3.51
2746 4008 5.697473 TCTTGTTTGTTGACTTTCACACA 57.303 34.783 0.00 0.00 0.00 3.72
2769 4031 5.437946 ACTGAGTAGTGTGGATCGAGAATA 58.562 41.667 0.00 0.00 35.34 1.75
2770 4032 5.886474 ACTGAGTAGTGTGGATCGAGAATAA 59.114 40.000 0.00 0.00 35.34 1.40
2771 4033 6.038825 ACTGAGTAGTGTGGATCGAGAATAAG 59.961 42.308 0.00 0.00 35.34 1.73
2772 4034 5.299531 TGAGTAGTGTGGATCGAGAATAAGG 59.700 44.000 0.00 0.00 0.00 2.69
2773 4035 5.446860 AGTAGTGTGGATCGAGAATAAGGA 58.553 41.667 0.00 0.00 0.00 3.36
2774 4036 6.071984 AGTAGTGTGGATCGAGAATAAGGAT 58.928 40.000 0.00 0.00 0.00 3.24
2775 4037 5.461032 AGTGTGGATCGAGAATAAGGATC 57.539 43.478 0.00 0.00 36.65 3.36
2776 4038 4.895889 AGTGTGGATCGAGAATAAGGATCA 59.104 41.667 0.00 0.00 38.61 2.92
2793 4055 2.658593 AGCACACTCGACGCACAC 60.659 61.111 0.00 0.00 0.00 3.82
2794 4056 2.658593 GCACACTCGACGCACACT 60.659 61.111 0.00 0.00 0.00 3.55
2811 4074 2.620115 ACACTGTGTGGCAAAGATTCAG 59.380 45.455 13.50 0.00 37.94 3.02
2812 4075 2.620115 CACTGTGTGGCAAAGATTCAGT 59.380 45.455 0.00 0.00 35.49 3.41
2823 4086 1.831580 AGATTCAGTTTGCCTGCCTC 58.168 50.000 0.00 0.00 41.25 4.70
2872 4135 2.223876 TGTCAGGTTAGTTGGTGTCGAC 60.224 50.000 9.11 9.11 0.00 4.20
2896 4159 4.644685 GGCATAGGCAGAAATGGAGTTTAA 59.355 41.667 0.15 0.00 43.71 1.52
2897 4160 5.450550 GGCATAGGCAGAAATGGAGTTTAAC 60.451 44.000 0.15 0.00 43.71 2.01
2898 4161 5.358160 GCATAGGCAGAAATGGAGTTTAACT 59.642 40.000 0.00 0.00 40.72 2.24
2899 4162 6.542370 GCATAGGCAGAAATGGAGTTTAACTA 59.458 38.462 0.00 0.00 40.72 2.24
2900 4163 7.254932 GCATAGGCAGAAATGGAGTTTAACTAG 60.255 40.741 0.00 0.00 40.72 2.57
2901 4164 4.944317 AGGCAGAAATGGAGTTTAACTAGC 59.056 41.667 0.00 0.00 0.00 3.42
2902 4165 4.700213 GGCAGAAATGGAGTTTAACTAGCA 59.300 41.667 0.00 0.00 0.00 3.49
2903 4166 5.183140 GGCAGAAATGGAGTTTAACTAGCAA 59.817 40.000 0.00 0.00 0.00 3.91
2904 4167 6.294508 GGCAGAAATGGAGTTTAACTAGCAAA 60.295 38.462 0.00 0.00 0.00 3.68
2905 4168 6.803807 GCAGAAATGGAGTTTAACTAGCAAAG 59.196 38.462 0.00 0.00 0.00 2.77
2906 4169 6.803807 CAGAAATGGAGTTTAACTAGCAAAGC 59.196 38.462 0.00 0.00 0.00 3.51
2907 4170 6.717084 AGAAATGGAGTTTAACTAGCAAAGCT 59.283 34.615 0.00 0.00 43.41 3.74
2908 4171 6.502136 AATGGAGTTTAACTAGCAAAGCTC 57.498 37.500 0.00 11.03 40.44 4.09
2909 4172 3.994392 TGGAGTTTAACTAGCAAAGCTCG 59.006 43.478 0.00 0.00 40.44 5.03
2910 4173 3.181519 GGAGTTTAACTAGCAAAGCTCGC 60.182 47.826 0.00 0.00 40.44 5.03
2911 4174 2.412089 AGTTTAACTAGCAAAGCTCGCG 59.588 45.455 0.00 0.00 40.44 5.87
2912 4175 0.719465 TTAACTAGCAAAGCTCGCGC 59.281 50.000 0.00 0.00 40.44 6.86
2913 4176 1.410737 TAACTAGCAAAGCTCGCGCG 61.411 55.000 26.76 26.76 40.44 6.86
2914 4177 3.918220 CTAGCAAAGCTCGCGCGG 61.918 66.667 31.69 21.37 40.44 6.46
2934 4197 2.049433 GCACGCCGCCGATATAGT 60.049 61.111 0.00 0.00 38.29 2.12
2935 4198 2.372690 GCACGCCGCCGATATAGTG 61.373 63.158 0.00 0.00 38.29 2.74
2936 4199 1.007734 CACGCCGCCGATATAGTGT 60.008 57.895 0.00 0.00 38.29 3.55
2937 4200 1.007734 ACGCCGCCGATATAGTGTG 60.008 57.895 0.00 0.00 38.29 3.82
2938 4201 1.007734 CGCCGCCGATATAGTGTGT 60.008 57.895 0.00 0.00 36.29 3.72
2939 4202 1.002250 CGCCGCCGATATAGTGTGTC 61.002 60.000 0.00 0.00 36.29 3.67
2940 4203 0.314302 GCCGCCGATATAGTGTGTCT 59.686 55.000 0.00 0.00 0.00 3.41
2941 4204 1.538512 GCCGCCGATATAGTGTGTCTA 59.461 52.381 0.00 0.00 0.00 2.59
2942 4205 2.163815 GCCGCCGATATAGTGTGTCTAT 59.836 50.000 0.00 0.00 41.61 1.98
2943 4206 3.376234 GCCGCCGATATAGTGTGTCTATA 59.624 47.826 0.00 0.00 43.21 1.31
2945 4208 5.511571 CCGCCGATATAGTGTGTCTATATG 58.488 45.833 10.76 5.38 46.36 1.78
2946 4209 5.296035 CCGCCGATATAGTGTGTCTATATGA 59.704 44.000 10.76 0.00 46.36 2.15
2947 4210 6.183360 CCGCCGATATAGTGTGTCTATATGAA 60.183 42.308 10.76 0.00 46.36 2.57
2948 4211 6.907748 CGCCGATATAGTGTGTCTATATGAAG 59.092 42.308 10.76 4.48 46.36 3.02
2949 4212 7.414208 CGCCGATATAGTGTGTCTATATGAAGT 60.414 40.741 10.76 0.00 46.36 3.01
2950 4213 7.698550 GCCGATATAGTGTGTCTATATGAAGTG 59.301 40.741 10.76 0.08 46.36 3.16
2951 4214 8.947115 CCGATATAGTGTGTCTATATGAAGTGA 58.053 37.037 10.76 0.00 46.36 3.41
2952 4215 9.980780 CGATATAGTGTGTCTATATGAAGTGAG 57.019 37.037 10.76 0.00 46.36 3.51
2954 4217 5.860941 AGTGTGTCTATATGAAGTGAGGG 57.139 43.478 0.00 0.00 0.00 4.30
2955 4218 5.273208 AGTGTGTCTATATGAAGTGAGGGT 58.727 41.667 0.00 0.00 0.00 4.34
2956 4219 6.432581 AGTGTGTCTATATGAAGTGAGGGTA 58.567 40.000 0.00 0.00 0.00 3.69
2957 4220 6.321690 AGTGTGTCTATATGAAGTGAGGGTAC 59.678 42.308 0.00 0.00 0.00 3.34
2958 4221 6.096423 GTGTGTCTATATGAAGTGAGGGTACA 59.904 42.308 0.00 0.00 0.00 2.90
2959 4222 6.839134 TGTGTCTATATGAAGTGAGGGTACAT 59.161 38.462 0.00 0.00 0.00 2.29
2960 4223 7.148641 GTGTCTATATGAAGTGAGGGTACATG 58.851 42.308 0.00 0.00 0.00 3.21
2961 4224 6.159988 GTCTATATGAAGTGAGGGTACATGC 58.840 44.000 0.00 0.00 0.00 4.06
2962 4225 5.838521 TCTATATGAAGTGAGGGTACATGCA 59.161 40.000 0.00 0.00 0.00 3.96
2963 4226 2.768253 TGAAGTGAGGGTACATGCAG 57.232 50.000 0.00 0.00 0.00 4.41
2964 4227 2.256306 TGAAGTGAGGGTACATGCAGA 58.744 47.619 0.00 0.00 0.00 4.26
2965 4228 2.234661 TGAAGTGAGGGTACATGCAGAG 59.765 50.000 0.00 0.00 0.00 3.35
2966 4229 1.944177 AGTGAGGGTACATGCAGAGT 58.056 50.000 0.00 0.00 0.00 3.24
2967 4230 1.552337 AGTGAGGGTACATGCAGAGTG 59.448 52.381 4.94 0.00 0.00 3.51
2968 4231 0.904649 TGAGGGTACATGCAGAGTGG 59.095 55.000 4.94 0.00 0.00 4.00
2969 4232 0.905357 GAGGGTACATGCAGAGTGGT 59.095 55.000 4.94 0.00 0.00 4.16
2970 4233 2.108168 GAGGGTACATGCAGAGTGGTA 58.892 52.381 4.94 0.00 0.00 3.25
2971 4234 2.700897 GAGGGTACATGCAGAGTGGTAT 59.299 50.000 4.94 0.00 0.00 2.73
2972 4235 2.700897 AGGGTACATGCAGAGTGGTATC 59.299 50.000 4.94 0.00 0.00 2.24
2973 4236 2.434336 GGGTACATGCAGAGTGGTATCA 59.566 50.000 4.94 0.00 0.00 2.15
2974 4237 3.118408 GGGTACATGCAGAGTGGTATCAA 60.118 47.826 4.94 0.00 0.00 2.57
2975 4238 4.122776 GGTACATGCAGAGTGGTATCAAG 58.877 47.826 4.94 0.00 0.00 3.02
2976 4239 3.988976 ACATGCAGAGTGGTATCAAGT 57.011 42.857 0.00 0.00 0.00 3.16
2977 4240 3.866651 ACATGCAGAGTGGTATCAAGTC 58.133 45.455 0.00 0.00 0.00 3.01
2978 4241 3.261643 ACATGCAGAGTGGTATCAAGTCA 59.738 43.478 0.00 0.00 0.00 3.41
2979 4242 3.599730 TGCAGAGTGGTATCAAGTCAG 57.400 47.619 0.00 0.00 0.00 3.51
2980 4243 3.165071 TGCAGAGTGGTATCAAGTCAGA 58.835 45.455 0.00 0.00 0.00 3.27
2981 4244 3.578282 TGCAGAGTGGTATCAAGTCAGAA 59.422 43.478 0.00 0.00 0.00 3.02
2982 4245 4.040339 TGCAGAGTGGTATCAAGTCAGAAA 59.960 41.667 0.00 0.00 0.00 2.52
2983 4246 4.997395 GCAGAGTGGTATCAAGTCAGAAAA 59.003 41.667 0.00 0.00 0.00 2.29
2984 4247 5.121454 GCAGAGTGGTATCAAGTCAGAAAAG 59.879 44.000 0.00 0.00 0.00 2.27
2985 4248 6.226787 CAGAGTGGTATCAAGTCAGAAAAGT 58.773 40.000 0.00 0.00 0.00 2.66
2986 4249 6.708054 CAGAGTGGTATCAAGTCAGAAAAGTT 59.292 38.462 0.00 0.00 0.00 2.66
2987 4250 6.708054 AGAGTGGTATCAAGTCAGAAAAGTTG 59.292 38.462 0.00 0.00 0.00 3.16
2988 4251 6.357367 AGTGGTATCAAGTCAGAAAAGTTGT 58.643 36.000 0.00 0.00 32.49 3.32
2989 4252 6.828785 AGTGGTATCAAGTCAGAAAAGTTGTT 59.171 34.615 0.00 0.00 32.49 2.83
2990 4253 6.912591 GTGGTATCAAGTCAGAAAAGTTGTTG 59.087 38.462 0.00 0.00 32.49 3.33
2991 4254 5.915196 GGTATCAAGTCAGAAAAGTTGTTGC 59.085 40.000 0.00 0.00 32.49 4.17
2992 4255 5.581126 ATCAAGTCAGAAAAGTTGTTGCA 57.419 34.783 0.00 0.00 32.49 4.08
2993 4256 4.732784 TCAAGTCAGAAAAGTTGTTGCAC 58.267 39.130 0.00 0.00 32.49 4.57
2994 4257 4.217334 TCAAGTCAGAAAAGTTGTTGCACA 59.783 37.500 0.00 0.00 32.49 4.57
2995 4258 4.989279 AGTCAGAAAAGTTGTTGCACAT 57.011 36.364 0.00 0.00 0.00 3.21
2996 4259 4.925068 AGTCAGAAAAGTTGTTGCACATC 58.075 39.130 0.00 0.00 0.00 3.06
2997 4260 4.641989 AGTCAGAAAAGTTGTTGCACATCT 59.358 37.500 0.00 0.00 29.96 2.90
2998 4261 5.126061 AGTCAGAAAAGTTGTTGCACATCTT 59.874 36.000 0.00 0.00 39.16 2.40
2999 4262 5.807011 GTCAGAAAAGTTGTTGCACATCTTT 59.193 36.000 14.36 14.36 45.08 2.52
3000 4263 6.972328 GTCAGAAAAGTTGTTGCACATCTTTA 59.028 34.615 17.76 7.05 43.44 1.85
3001 4264 6.972328 TCAGAAAAGTTGTTGCACATCTTTAC 59.028 34.615 17.76 1.83 43.44 2.01
3002 4265 6.974622 CAGAAAAGTTGTTGCACATCTTTACT 59.025 34.615 17.76 9.37 43.44 2.24
3003 4266 7.489113 CAGAAAAGTTGTTGCACATCTTTACTT 59.511 33.333 17.76 9.75 43.44 2.24
3004 4267 7.702348 AGAAAAGTTGTTGCACATCTTTACTTC 59.298 33.333 17.76 14.04 43.44 3.01
3005 4268 6.449635 AAGTTGTTGCACATCTTTACTTCA 57.550 33.333 0.00 0.00 35.30 3.02
3006 4269 6.449635 AGTTGTTGCACATCTTTACTTCAA 57.550 33.333 0.00 0.00 0.00 2.69
3007 4270 7.042797 AGTTGTTGCACATCTTTACTTCAAT 57.957 32.000 0.00 0.00 0.00 2.57
3008 4271 7.491682 AGTTGTTGCACATCTTTACTTCAATT 58.508 30.769 0.00 0.00 0.00 2.32
3009 4272 7.649306 AGTTGTTGCACATCTTTACTTCAATTC 59.351 33.333 0.00 0.00 0.00 2.17
3010 4273 7.275888 TGTTGCACATCTTTACTTCAATTCT 57.724 32.000 0.00 0.00 0.00 2.40
3011 4274 7.715657 TGTTGCACATCTTTACTTCAATTCTT 58.284 30.769 0.00 0.00 0.00 2.52
3012 4275 7.648908 TGTTGCACATCTTTACTTCAATTCTTG 59.351 33.333 0.00 0.00 0.00 3.02
3013 4276 7.275888 TGCACATCTTTACTTCAATTCTTGT 57.724 32.000 0.00 0.00 0.00 3.16
3014 4277 7.715657 TGCACATCTTTACTTCAATTCTTGTT 58.284 30.769 0.00 0.00 0.00 2.83
3015 4278 8.196771 TGCACATCTTTACTTCAATTCTTGTTT 58.803 29.630 0.00 0.00 0.00 2.83
3016 4279 8.482429 GCACATCTTTACTTCAATTCTTGTTTG 58.518 33.333 0.00 0.00 0.00 2.93
3017 4280 8.482429 CACATCTTTACTTCAATTCTTGTTTGC 58.518 33.333 0.00 0.00 0.00 3.68
3018 4281 8.196771 ACATCTTTACTTCAATTCTTGTTTGCA 58.803 29.630 0.00 0.00 0.00 4.08
3019 4282 9.199982 CATCTTTACTTCAATTCTTGTTTGCAT 57.800 29.630 0.00 0.00 0.00 3.96
3020 4283 9.768662 ATCTTTACTTCAATTCTTGTTTGCATT 57.231 25.926 0.00 0.00 0.00 3.56
3021 4284 9.033481 TCTTTACTTCAATTCTTGTTTGCATTG 57.967 29.630 0.00 0.00 0.00 2.82
3022 4285 8.715191 TTTACTTCAATTCTTGTTTGCATTGT 57.285 26.923 0.00 0.00 0.00 2.71
3023 4286 9.809096 TTTACTTCAATTCTTGTTTGCATTGTA 57.191 25.926 0.00 0.00 0.00 2.41
3024 4287 9.809096 TTACTTCAATTCTTGTTTGCATTGTAA 57.191 25.926 0.00 0.00 0.00 2.41
3025 4288 8.715191 ACTTCAATTCTTGTTTGCATTGTAAA 57.285 26.923 0.00 0.00 0.00 2.01
3026 4289 9.328845 ACTTCAATTCTTGTTTGCATTGTAAAT 57.671 25.926 3.20 0.00 0.00 1.40
3041 4304 9.926751 TGCATTGTAAATTTATTTTGTTGTGTG 57.073 25.926 0.31 0.00 0.00 3.82
3042 4305 9.379811 GCATTGTAAATTTATTTTGTTGTGTGG 57.620 29.630 0.31 0.00 0.00 4.17
3050 4313 9.752961 AATTTATTTTGTTGTGTGGTTACCTAC 57.247 29.630 2.07 2.71 0.00 3.18
3051 4314 8.522542 TTTATTTTGTTGTGTGGTTACCTACT 57.477 30.769 2.07 0.00 0.00 2.57
3052 4315 5.821516 TTTTGTTGTGTGGTTACCTACTG 57.178 39.130 2.07 0.00 0.00 2.74
3053 4316 4.757019 TTGTTGTGTGGTTACCTACTGA 57.243 40.909 2.07 0.00 0.00 3.41
3054 4317 4.757019 TGTTGTGTGGTTACCTACTGAA 57.243 40.909 2.07 0.00 0.00 3.02
3055 4318 4.699637 TGTTGTGTGGTTACCTACTGAAG 58.300 43.478 2.07 0.00 0.00 3.02
3056 4319 4.162698 TGTTGTGTGGTTACCTACTGAAGT 59.837 41.667 2.07 0.00 0.00 3.01
3057 4320 4.330944 TGTGTGGTTACCTACTGAAGTG 57.669 45.455 2.07 0.00 0.00 3.16
3058 4321 3.962063 TGTGTGGTTACCTACTGAAGTGA 59.038 43.478 2.07 0.00 0.00 3.41
3059 4322 4.038763 TGTGTGGTTACCTACTGAAGTGAG 59.961 45.833 2.07 0.00 0.00 3.51
3060 4323 3.576982 TGTGGTTACCTACTGAAGTGAGG 59.423 47.826 2.07 0.00 36.36 3.86
3061 4324 3.056035 GTGGTTACCTACTGAAGTGAGGG 60.056 52.174 2.07 4.92 34.41 4.30
3062 4325 2.093606 GGTTACCTACTGAAGTGAGGGC 60.094 54.545 0.00 0.00 34.41 5.19
3063 4326 2.565834 GTTACCTACTGAAGTGAGGGCA 59.434 50.000 9.39 0.00 34.41 5.36
3064 4327 1.958288 ACCTACTGAAGTGAGGGCAT 58.042 50.000 9.39 0.00 34.41 4.40
3065 4328 1.834263 ACCTACTGAAGTGAGGGCATC 59.166 52.381 0.00 0.00 34.41 3.91
3066 4329 1.833630 CCTACTGAAGTGAGGGCATCA 59.166 52.381 0.00 0.00 34.79 3.07
3067 4330 2.158986 CCTACTGAAGTGAGGGCATCAG 60.159 54.545 0.25 0.30 43.79 2.90
3068 4331 0.035630 ACTGAAGTGAGGGCATCAGC 60.036 55.000 0.25 0.00 42.34 4.26
3069 4332 1.078918 TGAAGTGAGGGCATCAGCG 60.079 57.895 0.25 0.00 43.41 5.18
3070 4333 1.219124 GAAGTGAGGGCATCAGCGA 59.781 57.895 0.25 0.00 43.41 4.93
3071 4334 0.809241 GAAGTGAGGGCATCAGCGAG 60.809 60.000 0.25 0.00 43.41 5.03
3072 4335 2.866085 AAGTGAGGGCATCAGCGAGC 62.866 60.000 0.25 0.00 43.41 5.03
3073 4336 3.393106 TGAGGGCATCAGCGAGCA 61.393 61.111 0.00 0.00 43.41 4.26
3074 4337 2.110627 GAGGGCATCAGCGAGCAT 59.889 61.111 0.00 0.00 43.41 3.79
3075 4338 1.960250 GAGGGCATCAGCGAGCATC 60.960 63.158 0.00 0.00 43.41 3.91
3076 4339 2.976903 GGGCATCAGCGAGCATCC 60.977 66.667 0.00 0.00 43.41 3.51
3077 4340 2.976903 GGCATCAGCGAGCATCCC 60.977 66.667 0.00 0.00 43.41 3.85
3078 4341 2.976903 GCATCAGCGAGCATCCCC 60.977 66.667 0.00 0.00 0.00 4.81
3079 4342 2.664185 CATCAGCGAGCATCCCCG 60.664 66.667 0.00 0.00 0.00 5.73
3080 4343 2.839632 ATCAGCGAGCATCCCCGA 60.840 61.111 0.00 0.00 0.00 5.14
3081 4344 3.157217 ATCAGCGAGCATCCCCGAC 62.157 63.158 0.00 0.00 0.00 4.79
3082 4345 4.899239 CAGCGAGCATCCCCGACC 62.899 72.222 0.00 0.00 0.00 4.79
3084 4347 4.467084 GCGAGCATCCCCGACCAA 62.467 66.667 0.00 0.00 0.00 3.67
3085 4348 2.267642 CGAGCATCCCCGACCAAA 59.732 61.111 0.00 0.00 0.00 3.28
3086 4349 1.153168 CGAGCATCCCCGACCAAAT 60.153 57.895 0.00 0.00 0.00 2.32
3087 4350 1.160329 CGAGCATCCCCGACCAAATC 61.160 60.000 0.00 0.00 0.00 2.17
3088 4351 0.819666 GAGCATCCCCGACCAAATCC 60.820 60.000 0.00 0.00 0.00 3.01
3089 4352 1.828224 GCATCCCCGACCAAATCCC 60.828 63.158 0.00 0.00 0.00 3.85
3090 4353 1.152756 CATCCCCGACCAAATCCCC 60.153 63.158 0.00 0.00 0.00 4.81
3091 4354 1.621205 ATCCCCGACCAAATCCCCA 60.621 57.895 0.00 0.00 0.00 4.96
3092 4355 1.218439 ATCCCCGACCAAATCCCCAA 61.218 55.000 0.00 0.00 0.00 4.12
3093 4356 1.379843 CCCCGACCAAATCCCCAAG 60.380 63.158 0.00 0.00 0.00 3.61
3094 4357 1.379843 CCCGACCAAATCCCCAAGG 60.380 63.158 0.00 0.00 0.00 3.61
3095 4358 1.379843 CCGACCAAATCCCCAAGGG 60.380 63.158 0.00 0.00 46.11 3.95
3105 4368 4.579384 CCCAAGGGGTGCACGTGT 62.579 66.667 18.38 0.00 38.25 4.49
3106 4369 2.518349 CCAAGGGGTGCACGTGTT 60.518 61.111 18.38 0.00 0.00 3.32
3107 4370 2.551912 CCAAGGGGTGCACGTGTTC 61.552 63.158 18.38 10.27 0.00 3.18
3108 4371 1.525995 CAAGGGGTGCACGTGTTCT 60.526 57.895 18.38 5.05 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 65 3.518068 GGCGGTAACATGCTGGGC 61.518 66.667 0.00 0.00 0.00 5.36
129 132 2.155732 CAGTTGTACTACGTGCTTGCTG 59.844 50.000 0.00 0.00 0.00 4.41
222 225 2.149578 GGATCAGAGGATGGAAATGCG 58.850 52.381 0.00 0.00 32.67 4.73
298 301 5.527951 AGACAAGACAGATCGATGCTAATC 58.472 41.667 0.54 2.03 0.00 1.75
365 368 1.967319 ACGGCAACAAGACAGATTGT 58.033 45.000 0.00 0.00 45.18 2.71
442 449 3.864686 CAATCGAAGTGCCGGCCG 61.865 66.667 26.77 21.04 0.00 6.13
502 509 2.017049 GTGGTGCATGGACAATCTACC 58.983 52.381 19.67 0.00 0.00 3.18
503 510 1.665679 CGTGGTGCATGGACAATCTAC 59.334 52.381 19.67 8.42 0.00 2.59
504 511 1.406751 CCGTGGTGCATGGACAATCTA 60.407 52.381 19.67 0.00 42.73 1.98
554 561 2.126424 GTGACTCGTGACTCGCCC 60.126 66.667 0.00 0.00 39.67 6.13
558 565 1.209640 GGGTCGTGACTCGTGACTC 59.790 63.158 0.00 0.00 40.80 3.36
694 701 2.860009 CCCATGCATGCAGATCTAAGT 58.140 47.619 26.69 3.09 0.00 2.24
794 801 1.327303 CCACTGCTTGCAAAACCCTA 58.673 50.000 0.00 0.00 0.00 3.53
795 802 2.031674 GCCACTGCTTGCAAAACCCT 62.032 55.000 0.00 0.00 33.53 4.34
796 803 1.595109 GCCACTGCTTGCAAAACCC 60.595 57.895 0.00 0.00 33.53 4.11
845 852 1.871039 TCCTTTTGTTTTCCTCGAGCG 59.129 47.619 6.99 0.19 0.00 5.03
1044 1054 6.624423 GCTATAGCTAGTCTCTCGTACTACT 58.376 44.000 17.75 0.00 38.21 2.57
1063 1073 4.513442 CCCACTTTGTTGTGCTAGCTATA 58.487 43.478 17.23 0.00 36.68 1.31
1064 1074 3.347216 CCCACTTTGTTGTGCTAGCTAT 58.653 45.455 17.23 0.00 36.68 2.97
1104 1135 1.393603 TCGACCAGCTCGATGATCTT 58.606 50.000 0.00 0.00 46.75 2.40
1314 1345 2.733301 ATCCGCTGGATCTGCTCG 59.267 61.111 4.51 1.32 38.09 5.03
1443 1474 2.765807 CTGTCGGGGGAGCAGGAT 60.766 66.667 0.00 0.00 0.00 3.24
1473 1504 4.373116 GCACGGCCGGTCTCTTCA 62.373 66.667 31.76 0.00 0.00 3.02
1594 1631 1.463444 GAACAACGACATGGGTGCTAC 59.537 52.381 0.00 0.00 0.00 3.58
1595 1632 1.070914 TGAACAACGACATGGGTGCTA 59.929 47.619 0.00 0.00 0.00 3.49
1596 1633 0.179032 TGAACAACGACATGGGTGCT 60.179 50.000 0.00 0.00 0.00 4.40
1597 1634 0.881118 ATGAACAACGACATGGGTGC 59.119 50.000 0.00 0.00 0.00 5.01
1599 1636 2.289195 ACGTATGAACAACGACATGGGT 60.289 45.455 2.27 0.00 42.90 4.51
1600 1637 2.343101 ACGTATGAACAACGACATGGG 58.657 47.619 2.27 0.00 42.90 4.00
1601 1638 4.417506 TCTACGTATGAACAACGACATGG 58.582 43.478 0.00 0.00 42.90 3.66
1602 1639 4.027621 GCTCTACGTATGAACAACGACATG 60.028 45.833 0.00 0.00 42.90 3.21
1603 1640 4.103357 GCTCTACGTATGAACAACGACAT 58.897 43.478 0.00 0.00 42.90 3.06
1604 1641 3.189910 AGCTCTACGTATGAACAACGACA 59.810 43.478 0.00 0.00 42.90 4.35
1650 1687 0.898320 CGGGCCGATGATCTAAGGAT 59.102 55.000 24.41 0.00 34.45 3.24
1656 1698 4.241555 GCACCGGGCCGATGATCT 62.242 66.667 27.99 0.00 36.11 2.75
1666 1708 1.386525 CCAAATGGATCAGCACCGGG 61.387 60.000 6.32 0.00 37.39 5.73
1856 1898 2.601664 GGAGATCTCCCTGCACTGT 58.398 57.895 28.84 0.00 43.94 3.55
2120 2184 1.473610 CCTCTCAGATTCTGCCTGCAG 60.474 57.143 12.91 12.91 44.86 4.41
2168 2232 4.703093 TGAAAATATCAACGGAAAGGGGTC 59.297 41.667 0.00 0.00 34.30 4.46
2170 2234 5.359576 TGATGAAAATATCAACGGAAAGGGG 59.640 40.000 0.00 0.00 42.54 4.79
2202 2266 3.743396 CGAGGAGGAAGAAAAGAACAGTG 59.257 47.826 0.00 0.00 0.00 3.66
2265 2332 4.449068 CGGTCATATAGCATCAGTTTCCAC 59.551 45.833 0.00 0.00 0.00 4.02
2268 2335 7.891183 AATACGGTCATATAGCATCAGTTTC 57.109 36.000 0.00 0.00 0.00 2.78
2299 2368 6.789262 ACTGCAGATTTCATACTTGTAATGC 58.211 36.000 23.35 0.00 0.00 3.56
2428 2499 6.151480 TGTCAAATCATGTGTTCATACTGCAT 59.849 34.615 0.00 0.00 32.47 3.96
2577 2652 3.845781 TGAGCAAGTCAGAGTCCTTTT 57.154 42.857 0.00 0.00 0.00 2.27
2746 4008 3.351794 TCTCGATCCACACTACTCAGT 57.648 47.619 0.00 0.00 34.42 3.41
2769 4031 0.109086 CGTCGAGTGTGCTGATCCTT 60.109 55.000 0.00 0.00 0.00 3.36
2770 4032 1.508545 CGTCGAGTGTGCTGATCCT 59.491 57.895 0.00 0.00 0.00 3.24
2771 4033 2.161486 GCGTCGAGTGTGCTGATCC 61.161 63.158 0.00 0.00 0.00 3.36
2772 4034 1.444383 TGCGTCGAGTGTGCTGATC 60.444 57.895 0.00 0.00 0.00 2.92
2773 4035 1.734477 GTGCGTCGAGTGTGCTGAT 60.734 57.895 0.00 0.00 0.00 2.90
2774 4036 2.354656 GTGCGTCGAGTGTGCTGA 60.355 61.111 0.00 0.00 0.00 4.26
2775 4037 2.658268 TGTGCGTCGAGTGTGCTG 60.658 61.111 0.00 0.00 0.00 4.41
2776 4038 2.658593 GTGTGCGTCGAGTGTGCT 60.659 61.111 0.00 0.00 0.00 4.40
2793 4055 3.996150 AACTGAATCTTTGCCACACAG 57.004 42.857 0.00 0.00 0.00 3.66
2794 4056 3.737663 GCAAACTGAATCTTTGCCACACA 60.738 43.478 8.28 0.00 45.18 3.72
2811 4074 0.813821 GATTCTGGAGGCAGGCAAAC 59.186 55.000 0.00 0.00 0.00 2.93
2812 4075 0.405198 TGATTCTGGAGGCAGGCAAA 59.595 50.000 0.00 0.00 0.00 3.68
2823 4086 4.261072 GCAGAATGTATGCAGTGATTCTGG 60.261 45.833 28.27 18.17 46.33 3.86
2872 4135 1.233019 CTCCATTTCTGCCTATGCCG 58.767 55.000 0.00 0.00 36.33 5.69
2917 4180 2.049433 ACTATATCGGCGGCGTGC 60.049 61.111 31.06 0.00 45.38 5.34
2918 4181 1.007734 ACACTATATCGGCGGCGTG 60.008 57.895 31.06 22.03 0.00 5.34
2919 4182 1.007734 CACACTATATCGGCGGCGT 60.008 57.895 31.06 19.95 0.00 5.68
2920 4183 1.002250 GACACACTATATCGGCGGCG 61.002 60.000 27.15 27.15 0.00 6.46
2921 4184 0.314302 AGACACACTATATCGGCGGC 59.686 55.000 7.21 0.00 0.00 6.53
2922 4185 5.296035 TCATATAGACACACTATATCGGCGG 59.704 44.000 7.21 0.00 45.99 6.13
2923 4186 6.359480 TCATATAGACACACTATATCGGCG 57.641 41.667 0.00 0.00 45.99 6.46
2924 4187 7.698550 CACTTCATATAGACACACTATATCGGC 59.301 40.741 0.00 0.00 45.99 5.54
2925 4188 8.947115 TCACTTCATATAGACACACTATATCGG 58.053 37.037 0.00 0.00 45.99 4.18
2926 4189 9.980780 CTCACTTCATATAGACACACTATATCG 57.019 37.037 0.00 0.00 45.99 2.92
2929 4192 8.225416 ACCCTCACTTCATATAGACACACTATA 58.775 37.037 0.00 0.00 44.78 1.31
2930 4193 7.069986 ACCCTCACTTCATATAGACACACTAT 58.930 38.462 0.00 0.00 43.34 2.12
2931 4194 6.432581 ACCCTCACTTCATATAGACACACTA 58.567 40.000 0.00 0.00 35.42 2.74
2932 4195 5.273208 ACCCTCACTTCATATAGACACACT 58.727 41.667 0.00 0.00 0.00 3.55
2933 4196 5.599999 ACCCTCACTTCATATAGACACAC 57.400 43.478 0.00 0.00 0.00 3.82
2934 4197 6.192044 TGTACCCTCACTTCATATAGACACA 58.808 40.000 0.00 0.00 0.00 3.72
2935 4198 6.710597 TGTACCCTCACTTCATATAGACAC 57.289 41.667 0.00 0.00 0.00 3.67
2936 4199 6.239317 GCATGTACCCTCACTTCATATAGACA 60.239 42.308 0.00 0.00 0.00 3.41
2937 4200 6.159988 GCATGTACCCTCACTTCATATAGAC 58.840 44.000 0.00 0.00 0.00 2.59
2938 4201 5.838521 TGCATGTACCCTCACTTCATATAGA 59.161 40.000 0.00 0.00 0.00 1.98
2939 4202 6.015095 TCTGCATGTACCCTCACTTCATATAG 60.015 42.308 0.00 0.00 0.00 1.31
2940 4203 5.838521 TCTGCATGTACCCTCACTTCATATA 59.161 40.000 0.00 0.00 0.00 0.86
2941 4204 4.655649 TCTGCATGTACCCTCACTTCATAT 59.344 41.667 0.00 0.00 0.00 1.78
2942 4205 4.030216 TCTGCATGTACCCTCACTTCATA 58.970 43.478 0.00 0.00 0.00 2.15
2943 4206 2.840038 TCTGCATGTACCCTCACTTCAT 59.160 45.455 0.00 0.00 0.00 2.57
2944 4207 2.234661 CTCTGCATGTACCCTCACTTCA 59.765 50.000 0.00 0.00 0.00 3.02
2945 4208 2.234908 ACTCTGCATGTACCCTCACTTC 59.765 50.000 0.00 0.00 0.00 3.01
2946 4209 2.027745 CACTCTGCATGTACCCTCACTT 60.028 50.000 0.00 0.00 0.00 3.16
2947 4210 1.552337 CACTCTGCATGTACCCTCACT 59.448 52.381 0.00 0.00 0.00 3.41
2948 4211 1.406069 CCACTCTGCATGTACCCTCAC 60.406 57.143 0.00 0.00 0.00 3.51
2949 4212 0.904649 CCACTCTGCATGTACCCTCA 59.095 55.000 0.00 0.00 0.00 3.86
2950 4213 0.905357 ACCACTCTGCATGTACCCTC 59.095 55.000 0.00 0.00 0.00 4.30
2951 4214 2.247699 TACCACTCTGCATGTACCCT 57.752 50.000 0.00 0.00 0.00 4.34
2952 4215 2.434336 TGATACCACTCTGCATGTACCC 59.566 50.000 0.00 0.00 0.00 3.69
2953 4216 3.819564 TGATACCACTCTGCATGTACC 57.180 47.619 0.00 0.00 0.00 3.34
2954 4217 4.759782 ACTTGATACCACTCTGCATGTAC 58.240 43.478 0.00 0.00 0.00 2.90
2955 4218 4.466015 TGACTTGATACCACTCTGCATGTA 59.534 41.667 0.00 0.00 0.00 2.29
2956 4219 3.261643 TGACTTGATACCACTCTGCATGT 59.738 43.478 0.00 0.00 0.00 3.21
2957 4220 3.865446 TGACTTGATACCACTCTGCATG 58.135 45.455 0.00 0.00 0.00 4.06
2958 4221 3.771479 TCTGACTTGATACCACTCTGCAT 59.229 43.478 0.00 0.00 0.00 3.96
2959 4222 3.165071 TCTGACTTGATACCACTCTGCA 58.835 45.455 0.00 0.00 0.00 4.41
2960 4223 3.876274 TCTGACTTGATACCACTCTGC 57.124 47.619 0.00 0.00 0.00 4.26
2961 4224 6.226787 ACTTTTCTGACTTGATACCACTCTG 58.773 40.000 0.00 0.00 0.00 3.35
2962 4225 6.426646 ACTTTTCTGACTTGATACCACTCT 57.573 37.500 0.00 0.00 0.00 3.24
2963 4226 6.483640 ACAACTTTTCTGACTTGATACCACTC 59.516 38.462 0.00 0.00 0.00 3.51
2964 4227 6.357367 ACAACTTTTCTGACTTGATACCACT 58.643 36.000 0.00 0.00 0.00 4.00
2965 4228 6.619801 ACAACTTTTCTGACTTGATACCAC 57.380 37.500 0.00 0.00 0.00 4.16
2966 4229 6.459573 GCAACAACTTTTCTGACTTGATACCA 60.460 38.462 0.00 0.00 0.00 3.25
2967 4230 5.915196 GCAACAACTTTTCTGACTTGATACC 59.085 40.000 0.00 0.00 0.00 2.73
2968 4231 6.414987 GTGCAACAACTTTTCTGACTTGATAC 59.585 38.462 0.00 0.00 36.32 2.24
2969 4232 6.494842 GTGCAACAACTTTTCTGACTTGATA 58.505 36.000 0.00 0.00 36.32 2.15
2970 4233 5.343249 GTGCAACAACTTTTCTGACTTGAT 58.657 37.500 0.00 0.00 36.32 2.57
2971 4234 4.732784 GTGCAACAACTTTTCTGACTTGA 58.267 39.130 0.00 0.00 36.32 3.02
3015 4278 9.926751 CACACAACAAAATAAATTTACAATGCA 57.073 25.926 0.00 0.00 0.00 3.96
3016 4279 9.379811 CCACACAACAAAATAAATTTACAATGC 57.620 29.630 0.00 0.00 0.00 3.56
3024 4287 9.752961 GTAGGTAACCACACAACAAAATAAATT 57.247 29.630 0.00 0.00 37.17 1.82
3025 4288 9.138596 AGTAGGTAACCACACAACAAAATAAAT 57.861 29.630 0.00 0.00 37.17 1.40
3026 4289 8.407064 CAGTAGGTAACCACACAACAAAATAAA 58.593 33.333 0.00 0.00 37.17 1.40
3027 4290 7.774157 TCAGTAGGTAACCACACAACAAAATAA 59.226 33.333 0.00 0.00 37.17 1.40
3028 4291 7.281098 TCAGTAGGTAACCACACAACAAAATA 58.719 34.615 0.00 0.00 37.17 1.40
3029 4292 6.123651 TCAGTAGGTAACCACACAACAAAAT 58.876 36.000 0.00 0.00 37.17 1.82
3030 4293 5.498393 TCAGTAGGTAACCACACAACAAAA 58.502 37.500 0.00 0.00 37.17 2.44
3031 4294 5.100344 TCAGTAGGTAACCACACAACAAA 57.900 39.130 0.00 0.00 37.17 2.83
3032 4295 4.757019 TCAGTAGGTAACCACACAACAA 57.243 40.909 0.00 0.00 37.17 2.83
3033 4296 4.162698 ACTTCAGTAGGTAACCACACAACA 59.837 41.667 0.00 0.00 37.17 3.33
3034 4297 4.510340 CACTTCAGTAGGTAACCACACAAC 59.490 45.833 0.00 0.00 37.17 3.32
3035 4298 4.406326 TCACTTCAGTAGGTAACCACACAA 59.594 41.667 0.00 0.00 37.17 3.33
3036 4299 3.962063 TCACTTCAGTAGGTAACCACACA 59.038 43.478 0.00 0.00 37.17 3.72
3037 4300 4.557205 CTCACTTCAGTAGGTAACCACAC 58.443 47.826 0.00 0.00 37.17 3.82
3038 4301 3.576982 CCTCACTTCAGTAGGTAACCACA 59.423 47.826 0.00 0.00 37.17 4.17
3039 4302 3.056035 CCCTCACTTCAGTAGGTAACCAC 60.056 52.174 0.00 0.00 37.17 4.16
3040 4303 3.170717 CCCTCACTTCAGTAGGTAACCA 58.829 50.000 0.00 0.00 37.17 3.67
3041 4304 2.093606 GCCCTCACTTCAGTAGGTAACC 60.094 54.545 0.00 0.00 37.17 2.85
3042 4305 2.565834 TGCCCTCACTTCAGTAGGTAAC 59.434 50.000 0.00 0.00 0.00 2.50
3043 4306 2.897350 TGCCCTCACTTCAGTAGGTAA 58.103 47.619 0.00 0.00 0.00 2.85
3044 4307 2.615986 TGCCCTCACTTCAGTAGGTA 57.384 50.000 0.00 0.00 0.00 3.08
3045 4308 1.834263 GATGCCCTCACTTCAGTAGGT 59.166 52.381 0.00 0.00 0.00 3.08
3046 4309 1.833630 TGATGCCCTCACTTCAGTAGG 59.166 52.381 0.00 0.00 0.00 3.18
3047 4310 2.741228 GCTGATGCCCTCACTTCAGTAG 60.741 54.545 8.60 0.00 41.51 2.57
3048 4311 1.208052 GCTGATGCCCTCACTTCAGTA 59.792 52.381 8.60 0.00 41.51 2.74
3049 4312 0.035630 GCTGATGCCCTCACTTCAGT 60.036 55.000 8.60 0.00 41.51 3.41
3050 4313 1.088340 CGCTGATGCCCTCACTTCAG 61.088 60.000 0.00 0.00 42.06 3.02
3051 4314 1.078918 CGCTGATGCCCTCACTTCA 60.079 57.895 0.00 0.00 35.36 3.02
3052 4315 0.809241 CTCGCTGATGCCCTCACTTC 60.809 60.000 0.00 0.00 35.36 3.01
3053 4316 1.220206 CTCGCTGATGCCCTCACTT 59.780 57.895 0.00 0.00 35.36 3.16
3054 4317 2.898738 CTCGCTGATGCCCTCACT 59.101 61.111 0.00 0.00 35.36 3.41
3055 4318 2.894387 GCTCGCTGATGCCCTCAC 60.894 66.667 0.00 0.00 35.36 3.51
3056 4319 2.655526 GATGCTCGCTGATGCCCTCA 62.656 60.000 0.00 0.00 35.36 3.86
3057 4320 1.960250 GATGCTCGCTGATGCCCTC 60.960 63.158 0.00 0.00 35.36 4.30
3058 4321 2.110627 GATGCTCGCTGATGCCCT 59.889 61.111 0.00 0.00 35.36 5.19
3059 4322 2.976903 GGATGCTCGCTGATGCCC 60.977 66.667 0.00 0.00 35.36 5.36
3060 4323 2.976903 GGGATGCTCGCTGATGCC 60.977 66.667 0.00 0.00 35.36 4.40
3061 4324 2.976903 GGGGATGCTCGCTGATGC 60.977 66.667 0.00 0.00 0.00 3.91
3062 4325 2.664185 CGGGGATGCTCGCTGATG 60.664 66.667 0.00 0.00 37.86 3.07
3063 4326 2.839632 TCGGGGATGCTCGCTGAT 60.840 61.111 0.00 0.00 39.41 2.90
3064 4327 3.838271 GTCGGGGATGCTCGCTGA 61.838 66.667 0.00 7.38 41.60 4.26
3065 4328 4.899239 GGTCGGGGATGCTCGCTG 62.899 72.222 0.00 3.62 37.08 5.18
3067 4330 3.969250 TTTGGTCGGGGATGCTCGC 62.969 63.158 0.00 0.00 0.00 5.03
3068 4331 1.153168 ATTTGGTCGGGGATGCTCG 60.153 57.895 0.00 0.00 0.00 5.03
3069 4332 0.819666 GGATTTGGTCGGGGATGCTC 60.820 60.000 0.00 0.00 0.00 4.26
3070 4333 1.227383 GGATTTGGTCGGGGATGCT 59.773 57.895 0.00 0.00 0.00 3.79
3071 4334 1.828224 GGGATTTGGTCGGGGATGC 60.828 63.158 0.00 0.00 0.00 3.91
3072 4335 1.152756 GGGGATTTGGTCGGGGATG 60.153 63.158 0.00 0.00 0.00 3.51
3073 4336 1.218439 TTGGGGATTTGGTCGGGGAT 61.218 55.000 0.00 0.00 0.00 3.85
3074 4337 1.853095 TTGGGGATTTGGTCGGGGA 60.853 57.895 0.00 0.00 0.00 4.81
3075 4338 1.379843 CTTGGGGATTTGGTCGGGG 60.380 63.158 0.00 0.00 0.00 5.73
3076 4339 1.379843 CCTTGGGGATTTGGTCGGG 60.380 63.158 0.00 0.00 33.58 5.14
3077 4340 4.337013 CCTTGGGGATTTGGTCGG 57.663 61.111 0.00 0.00 33.58 4.79
3089 4352 2.518349 AACACGTGCACCCCTTGG 60.518 61.111 17.22 0.00 37.80 3.61
3090 4353 1.525995 AGAACACGTGCACCCCTTG 60.526 57.895 17.22 6.08 0.00 3.61
3091 4354 2.915869 AGAACACGTGCACCCCTT 59.084 55.556 17.22 0.07 0.00 3.95


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

AutoCloner maintained by Alex Coulton.