Multiple sequence alignment - TraesCS2D01G203400

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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 TraesCS2D01G203400 chr2D 100.000 1416 0 0 957 2372 155506914 155505499 0.000000e+00 2615.0
1 TraesCS2D01G203400 chr2D 100.000 529 0 0 1 529 155507870 155507342 0.000000e+00 977.0
2 TraesCS2D01G203400 chr2A 92.902 789 26 15 957 1738 144658004 144658769 0.000000e+00 1120.0
3 TraesCS2D01G203400 chr2A 84.337 332 18 8 193 520 144657259 144657560 6.410000e-76 294.0
4 TraesCS2D01G203400 chr2A 82.915 199 16 6 6 194 144657039 144657229 1.890000e-36 163.0
5 TraesCS2D01G203400 chr2B 93.759 705 32 7 957 1657 212931350 212930654 0.000000e+00 1048.0
6 TraesCS2D01G203400 chr2B 85.227 352 20 14 193 520 212931923 212931580 1.360000e-87 333.0
7 TraesCS2D01G203400 chr2B 87.195 164 12 6 2210 2372 212929308 212929153 6.740000e-41 178.0
8 TraesCS2D01G203400 chr2B 77.391 115 19 7 2195 2304 387508874 387508986 7.080000e-06 62.1
9 TraesCS2D01G203400 chr7B 85.714 84 9 3 2222 2303 103298515 103298597 4.200000e-13 86.1
10 TraesCS2D01G203400 chr5D 79.464 112 20 3 2193 2302 357940406 357940516 2.530000e-10 76.8
11 TraesCS2D01G203400 chr5A 93.478 46 1 2 2256 2299 466010783 466010828 1.520000e-07 67.6
12 TraesCS2D01G203400 chr7A 95.000 40 2 0 2262 2301 463015061 463015022 1.970000e-06 63.9
13 TraesCS2D01G203400 chr4A 77.778 108 15 7 2201 2302 114739984 114739880 9.160000e-05 58.4


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 TraesCS2D01G203400 chr2D 155505499 155507870 2371 True 1796.000000 2615 100.000 1 2372 2 chr2D.!!$R1 2371
1 TraesCS2D01G203400 chr2A 144657039 144658769 1730 False 525.666667 1120 86.718 6 1738 3 chr2A.!!$F1 1732
2 TraesCS2D01G203400 chr2B 212929153 212931923 2770 True 519.666667 1048 88.727 193 2372 3 chr2B.!!$R1 2179

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
422 488 0.038343 CCATTCAAAACACAGCCCCG 60.038 55.0 0.0 0.0 0.0 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1383 1474 0.374758 GCCAGTACACATGCACATCG 59.625 55.0 0.0 0.0 0.0 3.84 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
31 32 3.355378 TGTCATGCCAGGACAATAAAGG 58.645 45.455 10.12 0.00 41.96 3.11
33 34 1.410153 CATGCCAGGACAATAAAGGCC 59.590 52.381 0.00 0.00 44.60 5.19
52 53 2.099098 GCCATACAATTCACCTTTCCCG 59.901 50.000 0.00 0.00 0.00 5.14
55 56 1.923356 ACAATTCACCTTTCCCGCAT 58.077 45.000 0.00 0.00 0.00 4.73
56 57 1.818674 ACAATTCACCTTTCCCGCATC 59.181 47.619 0.00 0.00 0.00 3.91
58 59 1.463674 ATTCACCTTTCCCGCATCAC 58.536 50.000 0.00 0.00 0.00 3.06
61 62 0.523072 CACCTTTCCCGCATCACAAG 59.477 55.000 0.00 0.00 0.00 3.16
68 69 2.857483 TCCCGCATCACAAGAAAAAGA 58.143 42.857 0.00 0.00 0.00 2.52
69 70 3.218453 TCCCGCATCACAAGAAAAAGAA 58.782 40.909 0.00 0.00 0.00 2.52
70 71 3.634448 TCCCGCATCACAAGAAAAAGAAA 59.366 39.130 0.00 0.00 0.00 2.52
71 72 3.983344 CCCGCATCACAAGAAAAAGAAAG 59.017 43.478 0.00 0.00 0.00 2.62
72 73 4.261572 CCCGCATCACAAGAAAAAGAAAGA 60.262 41.667 0.00 0.00 0.00 2.52
73 74 5.280945 CCGCATCACAAGAAAAAGAAAGAA 58.719 37.500 0.00 0.00 0.00 2.52
74 75 5.748152 CCGCATCACAAGAAAAAGAAAGAAA 59.252 36.000 0.00 0.00 0.00 2.52
164 174 4.080299 AGACCCTGGAATGGTAAACTGATC 60.080 45.833 0.00 0.00 33.82 2.92
165 175 3.852578 ACCCTGGAATGGTAAACTGATCT 59.147 43.478 0.00 0.00 30.92 2.75
184 195 3.082548 TCTGCAGCTAACTCTAACTCGT 58.917 45.455 9.47 0.00 0.00 4.18
234 277 0.468648 CCTACCGGGTCAATCCTTCC 59.531 60.000 6.32 0.00 36.25 3.46
253 312 0.739813 CCCGTCTCCGTTGAACCATC 60.740 60.000 0.00 0.00 0.00 3.51
256 315 1.606994 CGTCTCCGTTGAACCATCCAA 60.607 52.381 0.00 0.00 0.00 3.53
275 334 3.622826 ACGGCTACGGCACTTGGT 61.623 61.111 0.00 0.00 46.48 3.67
279 338 2.033194 GCTACGGCACTTGGTCACC 61.033 63.158 0.00 0.00 38.54 4.02
316 375 2.435586 GAGACGACCGACCGGAGA 60.436 66.667 16.07 0.00 38.96 3.71
338 397 1.436336 CGGACCATACACCGTCTCC 59.564 63.158 0.00 0.00 43.53 3.71
418 484 2.865551 CCACAACCATTCAAAACACAGC 59.134 45.455 0.00 0.00 0.00 4.40
422 488 0.038343 CCATTCAAAACACAGCCCCG 60.038 55.000 0.00 0.00 0.00 5.73
446 512 1.202203 GCGGAAAAACCAACGAAACC 58.798 50.000 0.00 0.00 38.90 3.27
524 590 2.378507 GGCACGTACTCACAACAAAC 57.621 50.000 0.00 0.00 0.00 2.93
527 593 2.281517 CACGTACTCACAACAAACCCA 58.718 47.619 0.00 0.00 0.00 4.51
993 1078 4.517292 CAGCAGTAGCAGCAGAGG 57.483 61.111 0.00 0.00 45.49 3.69
994 1079 1.153409 CAGCAGTAGCAGCAGAGGG 60.153 63.158 0.00 0.00 45.49 4.30
996 1081 2.362369 GCAGTAGCAGCAGAGGGGA 61.362 63.158 0.00 0.00 41.58 4.81
1356 1447 2.772691 CGACGAGGAGGGGCTGTAC 61.773 68.421 0.00 0.00 0.00 2.90
1383 1474 2.167861 CGACTAGGAAAGCAGCCGC 61.168 63.158 0.00 0.00 38.99 6.53
1400 1491 0.025384 CGCGATGTGCATGTGTACTG 59.975 55.000 0.00 0.00 46.97 2.74
1438 1529 0.036765 TTGTGTTAGCTAGGCGGTGG 60.037 55.000 0.00 0.00 0.00 4.61
1547 1638 6.210287 AGACGGTTTTTCACATTTGGTTTA 57.790 33.333 0.00 0.00 0.00 2.01
1585 1676 5.694006 TGGTTTGAAAAGTTGAAACACTGTG 59.306 36.000 6.19 6.19 32.30 3.66
1674 1797 4.649674 TCTCCTGTCCTTGTCATGGTATAC 59.350 45.833 4.76 0.00 0.00 1.47
1742 2718 6.513180 TCGGGAGATAACTTGATGTGATTAC 58.487 40.000 0.00 0.00 0.00 1.89
1745 2721 7.227156 GGGAGATAACTTGATGTGATTACCAT 58.773 38.462 0.00 0.00 0.00 3.55
1746 2722 7.173907 GGGAGATAACTTGATGTGATTACCATG 59.826 40.741 0.00 0.00 0.00 3.66
1747 2723 7.308229 GGAGATAACTTGATGTGATTACCATGC 60.308 40.741 0.00 0.00 0.00 4.06
1748 2724 4.621068 AACTTGATGTGATTACCATGCG 57.379 40.909 0.00 0.00 0.00 4.73
1749 2725 2.945008 ACTTGATGTGATTACCATGCGG 59.055 45.455 0.00 0.00 38.77 5.69
1750 2726 1.965935 TGATGTGATTACCATGCGGG 58.034 50.000 0.00 0.00 44.81 6.13
1751 2727 0.593128 GATGTGATTACCATGCGGGC 59.407 55.000 0.00 0.00 42.05 6.13
1752 2728 1.165907 ATGTGATTACCATGCGGGCG 61.166 55.000 0.00 0.00 42.05 6.13
1753 2729 1.522806 GTGATTACCATGCGGGCGA 60.523 57.895 0.00 0.00 42.05 5.54
1754 2730 1.227527 TGATTACCATGCGGGCGAG 60.228 57.895 0.00 0.00 42.05 5.03
1755 2731 1.227556 GATTACCATGCGGGCGAGT 60.228 57.895 0.00 0.00 42.05 4.18
1758 2734 0.606944 TTACCATGCGGGCGAGTTTT 60.607 50.000 0.00 0.00 42.05 2.43
1759 2735 0.606944 TACCATGCGGGCGAGTTTTT 60.607 50.000 0.00 0.00 42.05 1.94
1760 2736 1.154035 CCATGCGGGCGAGTTTTTC 60.154 57.895 0.00 0.00 0.00 2.29
1763 2739 1.586154 ATGCGGGCGAGTTTTTCTGG 61.586 55.000 0.00 0.00 0.00 3.86
1764 2740 2.258726 GCGGGCGAGTTTTTCTGGT 61.259 57.895 0.00 0.00 0.00 4.00
1765 2741 1.574428 CGGGCGAGTTTTTCTGGTG 59.426 57.895 0.00 0.00 0.00 4.17
1766 2742 0.882927 CGGGCGAGTTTTTCTGGTGA 60.883 55.000 0.00 0.00 0.00 4.02
1767 2743 1.314730 GGGCGAGTTTTTCTGGTGAA 58.685 50.000 0.00 0.00 0.00 3.18
1768 2744 1.679153 GGGCGAGTTTTTCTGGTGAAA 59.321 47.619 0.00 0.00 40.08 2.69
1780 2786 3.237746 TCTGGTGAAAATGGCCAAATGA 58.762 40.909 10.96 0.00 0.00 2.57
1781 2787 3.258872 TCTGGTGAAAATGGCCAAATGAG 59.741 43.478 10.96 0.00 0.00 2.90
1802 2808 2.874849 CCAATTGTTTATGGTGACGGC 58.125 47.619 4.43 0.00 31.84 5.68
1803 2809 2.230025 CCAATTGTTTATGGTGACGGCA 59.770 45.455 4.43 0.00 31.84 5.69
1804 2810 3.305676 CCAATTGTTTATGGTGACGGCAA 60.306 43.478 0.00 0.00 31.84 4.52
1805 2811 3.569250 ATTGTTTATGGTGACGGCAAC 57.431 42.857 0.00 0.00 0.00 4.17
1826 2832 2.549754 CGGGGACTATTGTTCATCATGC 59.450 50.000 0.00 0.00 0.00 4.06
1827 2833 2.887152 GGGGACTATTGTTCATCATGCC 59.113 50.000 0.00 0.00 0.00 4.40
1861 2867 1.239347 GTGAAAGGGTCCAAGAGCAC 58.761 55.000 0.00 0.00 0.00 4.40
1867 2873 1.302832 GGTCCAAGAGCACCCACAG 60.303 63.158 0.00 0.00 0.00 3.66
1883 2890 3.305335 CCCACAGTGTATGGTTTTTCTGC 60.305 47.826 0.00 0.00 35.23 4.26
1900 2907 2.024464 TCTGCCTCTAAGCCTTCTCTCT 60.024 50.000 0.00 0.00 0.00 3.10
1901 2908 2.362077 CTGCCTCTAAGCCTTCTCTCTC 59.638 54.545 0.00 0.00 0.00 3.20
1906 2913 4.137543 CTCTAAGCCTTCTCTCTCCTCTC 58.862 52.174 0.00 0.00 0.00 3.20
1911 2918 2.092429 GCCTTCTCTCTCCTCTCAGAGA 60.092 54.545 2.09 0.00 45.60 3.10
1915 2922 4.860802 TCTCTCTCCTCTCAGAGACAAT 57.139 45.455 2.09 0.00 43.40 2.71
1921 2928 4.079269 TCTCCTCTCAGAGACAATCTCCAT 60.079 45.833 2.09 0.00 44.42 3.41
1922 2929 4.214310 TCCTCTCAGAGACAATCTCCATC 58.786 47.826 2.09 0.00 44.42 3.51
1927 2934 6.138967 TCTCAGAGACAATCTCCATCCATTA 58.861 40.000 0.00 0.00 44.42 1.90
1941 2948 4.772100 CCATCCATTACAAACCTCAACCTT 59.228 41.667 0.00 0.00 0.00 3.50
1943 2950 6.435904 CCATCCATTACAAACCTCAACCTTTA 59.564 38.462 0.00 0.00 0.00 1.85
1944 2951 7.362920 CCATCCATTACAAACCTCAACCTTTAG 60.363 40.741 0.00 0.00 0.00 1.85
1952 2959 3.856900 ACCTCAACCTTTAGCCCAAAAT 58.143 40.909 0.00 0.00 0.00 1.82
1954 2961 5.399113 ACCTCAACCTTTAGCCCAAAATTA 58.601 37.500 0.00 0.00 0.00 1.40
1955 2962 6.022958 ACCTCAACCTTTAGCCCAAAATTAT 58.977 36.000 0.00 0.00 0.00 1.28
1956 2963 6.500400 ACCTCAACCTTTAGCCCAAAATTATT 59.500 34.615 0.00 0.00 0.00 1.40
1957 2964 7.676468 ACCTCAACCTTTAGCCCAAAATTATTA 59.324 33.333 0.00 0.00 0.00 0.98
1959 2966 8.658840 TCAACCTTTAGCCCAAAATTATTAGT 57.341 30.769 0.00 0.00 0.00 2.24
1960 2967 9.756571 TCAACCTTTAGCCCAAAATTATTAGTA 57.243 29.630 0.00 0.00 0.00 1.82
1963 2970 9.063615 ACCTTTAGCCCAAAATTATTAGTATCG 57.936 33.333 0.00 0.00 0.00 2.92
1964 2971 8.021396 CCTTTAGCCCAAAATTATTAGTATCGC 58.979 37.037 0.00 0.00 0.00 4.58
1965 2972 5.959618 AGCCCAAAATTATTAGTATCGCC 57.040 39.130 0.00 0.00 0.00 5.54
1966 2973 5.631119 AGCCCAAAATTATTAGTATCGCCT 58.369 37.500 0.00 0.00 0.00 5.52
1967 2974 5.705905 AGCCCAAAATTATTAGTATCGCCTC 59.294 40.000 0.00 0.00 0.00 4.70
1968 2975 5.705905 GCCCAAAATTATTAGTATCGCCTCT 59.294 40.000 0.00 0.00 0.00 3.69
1969 2976 6.206829 GCCCAAAATTATTAGTATCGCCTCTT 59.793 38.462 0.00 0.00 0.00 2.85
1970 2977 7.389607 GCCCAAAATTATTAGTATCGCCTCTTA 59.610 37.037 0.00 0.00 0.00 2.10
1971 2978 8.936864 CCCAAAATTATTAGTATCGCCTCTTAG 58.063 37.037 0.00 0.00 0.00 2.18
1972 2979 8.443937 CCAAAATTATTAGTATCGCCTCTTAGC 58.556 37.037 0.00 0.00 0.00 3.09
1973 2980 8.988934 CAAAATTATTAGTATCGCCTCTTAGCA 58.011 33.333 0.00 0.00 0.00 3.49
1974 2981 9.726438 AAAATTATTAGTATCGCCTCTTAGCAT 57.274 29.630 0.00 0.00 0.00 3.79
1975 2982 8.709386 AATTATTAGTATCGCCTCTTAGCATG 57.291 34.615 0.00 0.00 0.00 4.06
1976 2983 4.521130 TTAGTATCGCCTCTTAGCATGG 57.479 45.455 0.00 0.00 0.00 3.66
1977 2984 2.598565 AGTATCGCCTCTTAGCATGGA 58.401 47.619 0.00 0.00 0.00 3.41
1978 2985 2.560542 AGTATCGCCTCTTAGCATGGAG 59.439 50.000 0.00 0.00 0.00 3.86
1984 2991 0.534652 CTCTTAGCATGGAGGCTGCC 60.535 60.000 11.65 11.65 45.44 4.85
2012 3019 7.588497 AAGAAATATAGAAATTGAGTGCCCC 57.412 36.000 0.00 0.00 0.00 5.80
2027 3034 1.922447 TGCCCCCATATGTCAGTTCTT 59.078 47.619 1.24 0.00 0.00 2.52
2028 3035 2.301346 GCCCCCATATGTCAGTTCTTG 58.699 52.381 1.24 0.00 0.00 3.02
2051 3058 6.916909 TGGGAATGGCTATGGTAGAATAAAA 58.083 36.000 0.00 0.00 0.00 1.52
2054 3061 8.957466 GGGAATGGCTATGGTAGAATAAAATAC 58.043 37.037 0.00 0.00 0.00 1.89
2092 3099 7.530863 GTTTTCTAAACCTGCAATCTAAGAGG 58.469 38.462 0.00 0.00 0.00 3.69
2097 3104 2.237392 ACCTGCAATCTAAGAGGTGACC 59.763 50.000 0.00 0.00 37.44 4.02
2115 3123 5.292589 GGTGACCACAACCTTATACATTACG 59.707 44.000 0.00 0.00 0.00 3.18
2117 3125 7.035004 GTGACCACAACCTTATACATTACGTA 58.965 38.462 0.00 0.00 0.00 3.57
2118 3126 7.545265 GTGACCACAACCTTATACATTACGTAA 59.455 37.037 11.02 11.02 32.59 3.18
2119 3127 7.545265 TGACCACAACCTTATACATTACGTAAC 59.455 37.037 10.81 0.00 32.59 2.50
2122 3130 8.598075 CCACAACCTTATACATTACGTAACTTC 58.402 37.037 10.81 0.00 32.59 3.01
2123 3131 8.598075 CACAACCTTATACATTACGTAACTTCC 58.402 37.037 10.81 0.00 32.59 3.46
2144 3152 2.418976 CCCTAAAACTTAGAGGCAACGC 59.581 50.000 0.00 0.00 46.39 4.84
2156 3164 3.656045 CAACGCGTGGGACCCAAC 61.656 66.667 16.98 9.93 34.18 3.77
2157 3165 4.178169 AACGCGTGGGACCCAACA 62.178 61.111 16.98 0.00 34.18 3.33
2158 3166 4.619227 ACGCGTGGGACCCAACAG 62.619 66.667 16.98 11.71 34.18 3.16
2159 3167 4.308458 CGCGTGGGACCCAACAGA 62.308 66.667 16.98 0.00 34.18 3.41
2160 3168 2.358737 GCGTGGGACCCAACAGAG 60.359 66.667 16.98 5.83 34.18 3.35
2161 3169 2.879233 GCGTGGGACCCAACAGAGA 61.879 63.158 16.98 0.00 34.18 3.10
2162 3170 1.293498 CGTGGGACCCAACAGAGAG 59.707 63.158 16.98 0.00 34.18 3.20
2163 3171 1.679898 GTGGGACCCAACAGAGAGG 59.320 63.158 16.98 0.00 34.18 3.69
2164 3172 2.224159 TGGGACCCAACAGAGAGGC 61.224 63.158 12.05 0.00 0.00 4.70
2165 3173 2.266055 GGACCCAACAGAGAGGCG 59.734 66.667 0.00 0.00 0.00 5.52
2166 3174 2.266055 GACCCAACAGAGAGGCGG 59.734 66.667 0.00 0.00 0.00 6.13
2167 3175 2.526873 ACCCAACAGAGAGGCGGT 60.527 61.111 0.00 0.00 0.00 5.68
2168 3176 2.046892 CCCAACAGAGAGGCGGTG 60.047 66.667 0.00 0.00 0.00 4.94
2169 3177 2.743928 CCAACAGAGAGGCGGTGC 60.744 66.667 0.00 0.00 0.00 5.01
2170 3178 2.345244 CAACAGAGAGGCGGTGCT 59.655 61.111 0.00 0.00 0.00 4.40
2171 3179 1.739562 CAACAGAGAGGCGGTGCTC 60.740 63.158 0.00 0.00 0.00 4.26
2172 3180 2.948720 AACAGAGAGGCGGTGCTCC 61.949 63.158 0.00 0.00 0.00 4.70
2173 3181 4.154347 CAGAGAGGCGGTGCTCCC 62.154 72.222 0.00 0.00 0.00 4.30
2174 3182 4.390556 AGAGAGGCGGTGCTCCCT 62.391 66.667 0.00 0.00 0.00 4.20
2175 3183 3.844090 GAGAGGCGGTGCTCCCTC 61.844 72.222 0.00 1.23 46.39 4.30
2177 3185 2.442272 GAGGCGGTGCTCCCTCTA 60.442 66.667 0.00 0.00 43.42 2.43
2178 3186 2.760385 AGGCGGTGCTCCCTCTAC 60.760 66.667 0.00 0.00 0.00 2.59
2179 3187 3.075005 GGCGGTGCTCCCTCTACA 61.075 66.667 0.00 0.00 0.00 2.74
2180 3188 2.184579 GCGGTGCTCCCTCTACAC 59.815 66.667 0.00 0.00 0.00 2.90
2181 3189 2.646175 GCGGTGCTCCCTCTACACA 61.646 63.158 0.00 0.00 36.00 3.72
2182 3190 1.961180 GCGGTGCTCCCTCTACACAT 61.961 60.000 0.00 0.00 36.00 3.21
2183 3191 0.537188 CGGTGCTCCCTCTACACATT 59.463 55.000 0.00 0.00 36.00 2.71
2184 3192 1.754803 CGGTGCTCCCTCTACACATTA 59.245 52.381 0.00 0.00 36.00 1.90
2185 3193 2.365617 CGGTGCTCCCTCTACACATTAT 59.634 50.000 0.00 0.00 36.00 1.28
2186 3194 3.733337 GGTGCTCCCTCTACACATTATG 58.267 50.000 0.00 0.00 36.00 1.90
2187 3195 3.495100 GGTGCTCCCTCTACACATTATGG 60.495 52.174 0.00 0.00 36.00 2.74
2188 3196 3.388024 GTGCTCCCTCTACACATTATGGA 59.612 47.826 0.00 0.00 34.43 3.41
2189 3197 4.040952 GTGCTCCCTCTACACATTATGGAT 59.959 45.833 0.00 0.00 34.43 3.41
2190 3198 4.040829 TGCTCCCTCTACACATTATGGATG 59.959 45.833 0.00 0.00 41.71 3.51
2191 3199 4.573900 CTCCCTCTACACATTATGGATGC 58.426 47.826 0.00 0.00 39.47 3.91
2192 3200 3.327757 TCCCTCTACACATTATGGATGCC 59.672 47.826 0.00 0.00 39.47 4.40
2193 3201 3.560025 CCCTCTACACATTATGGATGCCC 60.560 52.174 0.00 0.00 39.47 5.36
2194 3202 3.328931 CCTCTACACATTATGGATGCCCT 59.671 47.826 0.00 0.00 39.47 5.19
2195 3203 4.532126 CCTCTACACATTATGGATGCCCTA 59.468 45.833 0.00 0.00 39.47 3.53
2196 3204 5.013079 CCTCTACACATTATGGATGCCCTAA 59.987 44.000 0.00 0.00 39.47 2.69
2197 3205 6.114187 TCTACACATTATGGATGCCCTAAG 57.886 41.667 0.00 0.00 39.47 2.18
2198 3206 4.104383 ACACATTATGGATGCCCTAAGG 57.896 45.455 0.00 0.00 39.47 2.69
2199 3207 3.463329 ACACATTATGGATGCCCTAAGGT 59.537 43.478 0.00 0.00 39.47 3.50
2200 3208 4.074970 CACATTATGGATGCCCTAAGGTC 58.925 47.826 0.00 0.00 39.47 3.85
2201 3209 3.721575 ACATTATGGATGCCCTAAGGTCA 59.278 43.478 0.00 0.00 39.47 4.02
2202 3210 4.354987 ACATTATGGATGCCCTAAGGTCAT 59.645 41.667 0.00 0.00 39.47 3.06
2203 3211 5.551583 ACATTATGGATGCCCTAAGGTCATA 59.448 40.000 0.00 0.00 39.47 2.15
2204 3212 6.218315 ACATTATGGATGCCCTAAGGTCATAT 59.782 38.462 0.00 0.00 39.47 1.78
2205 3213 7.405858 ACATTATGGATGCCCTAAGGTCATATA 59.594 37.037 0.00 0.00 39.47 0.86
2206 3214 8.443176 CATTATGGATGCCCTAAGGTCATATAT 58.557 37.037 0.00 0.00 32.25 0.86
2207 3215 6.915468 ATGGATGCCCTAAGGTCATATATT 57.085 37.500 0.00 0.00 32.25 1.28
2208 3216 9.514093 TTATGGATGCCCTAAGGTCATATATTA 57.486 33.333 0.00 0.00 32.25 0.98
2209 3217 7.822749 TGGATGCCCTAAGGTCATATATTAA 57.177 36.000 0.00 0.00 32.25 1.40
2215 3223 6.595716 GCCCTAAGGTCATATATTAAGCACTG 59.404 42.308 0.00 0.00 34.57 3.66
2229 3237 2.862541 AGCACTGCATGTCCTTACAAA 58.137 42.857 3.30 0.00 39.58 2.83
2235 3243 3.550820 TGCATGTCCTTACAAACACACT 58.449 40.909 0.00 0.00 39.58 3.55
2239 3247 5.411361 GCATGTCCTTACAAACACACTCATA 59.589 40.000 0.00 0.00 39.58 2.15
2248 3256 9.950680 CTTACAAACACACTCATACAGAAAAAT 57.049 29.630 0.00 0.00 0.00 1.82
2285 3293 2.143925 CTTTGGGGTGTCGAAGTCTTC 58.856 52.381 2.18 2.18 0.00 2.87
2291 3299 2.352912 GGGTGTCGAAGTCTTCTTCCTC 60.353 54.545 10.81 0.23 45.02 3.71
2292 3300 2.352912 GGTGTCGAAGTCTTCTTCCTCC 60.353 54.545 10.81 5.10 45.02 4.30
2294 3302 3.757493 GTGTCGAAGTCTTCTTCCTCCTA 59.243 47.826 10.81 0.00 45.02 2.94
2302 3310 3.769844 GTCTTCTTCCTCCTACATCCACA 59.230 47.826 0.00 0.00 0.00 4.17
2303 3311 4.407296 GTCTTCTTCCTCCTACATCCACAT 59.593 45.833 0.00 0.00 0.00 3.21
2304 3312 4.651503 TCTTCTTCCTCCTACATCCACATC 59.348 45.833 0.00 0.00 0.00 3.06
2305 3313 3.309296 TCTTCCTCCTACATCCACATCC 58.691 50.000 0.00 0.00 0.00 3.51
2306 3314 2.866923 TCCTCCTACATCCACATCCA 57.133 50.000 0.00 0.00 0.00 3.41
2307 3315 3.350992 TCCTCCTACATCCACATCCAT 57.649 47.619 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.171237 CCTGGCATGACAAGATGTAGGA 59.829 50.000 1.11 0.00 34.39 2.94
1 2 2.171237 TCCTGGCATGACAAGATGTAGG 59.829 50.000 1.11 0.00 34.07 3.18
2 3 3.201290 GTCCTGGCATGACAAGATGTAG 58.799 50.000 16.66 0.00 32.91 2.74
3 4 2.571202 TGTCCTGGCATGACAAGATGTA 59.429 45.455 21.03 0.00 39.66 2.29
4 5 1.352017 TGTCCTGGCATGACAAGATGT 59.648 47.619 21.03 0.00 39.66 3.06
10 11 3.355378 CCTTTATTGTCCTGGCATGACA 58.645 45.455 19.71 19.71 40.80 3.58
12 13 2.378038 GCCTTTATTGTCCTGGCATGA 58.622 47.619 0.00 0.00 42.79 3.07
13 14 1.410153 GGCCTTTATTGTCCTGGCATG 59.590 52.381 0.00 0.00 44.85 4.06
25 26 6.098266 GGAAAGGTGAATTGTATGGCCTTTAT 59.902 38.462 3.32 0.00 43.70 1.40
26 27 5.420739 GGAAAGGTGAATTGTATGGCCTTTA 59.579 40.000 3.32 0.00 43.70 1.85
27 28 4.222810 GGAAAGGTGAATTGTATGGCCTTT 59.777 41.667 3.32 6.13 45.54 3.11
28 29 3.769300 GGAAAGGTGAATTGTATGGCCTT 59.231 43.478 3.32 0.00 37.88 4.35
31 32 2.099098 CGGGAAAGGTGAATTGTATGGC 59.901 50.000 0.00 0.00 0.00 4.40
33 34 2.752354 TGCGGGAAAGGTGAATTGTATG 59.248 45.455 0.00 0.00 0.00 2.39
52 53 7.992180 TCTTTCTTTCTTTTTCTTGTGATGC 57.008 32.000 0.00 0.00 0.00 3.91
68 69 7.630082 GCCTGCTGAATTGTATCATCTTTCTTT 60.630 37.037 0.00 0.00 0.00 2.52
69 70 6.183360 GCCTGCTGAATTGTATCATCTTTCTT 60.183 38.462 0.00 0.00 0.00 2.52
70 71 5.298777 GCCTGCTGAATTGTATCATCTTTCT 59.701 40.000 0.00 0.00 0.00 2.52
71 72 5.506982 GGCCTGCTGAATTGTATCATCTTTC 60.507 44.000 0.00 0.00 0.00 2.62
72 73 4.340381 GGCCTGCTGAATTGTATCATCTTT 59.660 41.667 0.00 0.00 0.00 2.52
73 74 3.887716 GGCCTGCTGAATTGTATCATCTT 59.112 43.478 0.00 0.00 0.00 2.40
74 75 3.117776 TGGCCTGCTGAATTGTATCATCT 60.118 43.478 3.32 0.00 0.00 2.90
84 85 0.546122 TATTCCGTGGCCTGCTGAAT 59.454 50.000 3.32 12.60 0.00 2.57
111 112 3.780173 TGCGGATCCATGCGACCA 61.780 61.111 13.41 0.00 44.78 4.02
113 114 2.511373 TGTGCGGATCCATGCGAC 60.511 61.111 13.41 9.33 44.78 5.19
164 174 3.119814 TCACGAGTTAGAGTTAGCTGCAG 60.120 47.826 10.11 10.11 0.00 4.41
165 175 2.817844 TCACGAGTTAGAGTTAGCTGCA 59.182 45.455 1.02 0.00 0.00 4.41
171 181 5.621555 GCTCCAATGTCACGAGTTAGAGTTA 60.622 44.000 0.00 0.00 0.00 2.24
174 184 3.182967 GCTCCAATGTCACGAGTTAGAG 58.817 50.000 0.00 0.00 0.00 2.43
184 195 3.645660 TGGCCCGCTCCAATGTCA 61.646 61.111 0.00 0.00 32.18 3.58
211 253 1.558294 AGGATTGACCCGGTAGGAAAC 59.442 52.381 0.00 0.00 41.02 2.78
212 254 1.961133 AGGATTGACCCGGTAGGAAA 58.039 50.000 0.00 0.00 41.02 3.13
216 258 0.468648 GGGAAGGATTGACCCGGTAG 59.531 60.000 0.00 0.00 40.05 3.18
253 312 2.781595 AAGTGCCGTAGCCGTCTTGG 62.782 60.000 0.00 0.00 38.69 3.61
256 315 2.261671 CAAGTGCCGTAGCCGTCT 59.738 61.111 0.00 0.00 38.69 4.18
275 334 1.107945 TACGATGGAGAATGCGGTGA 58.892 50.000 0.00 0.00 0.00 4.02
279 338 1.781429 CTTCGTACGATGGAGAATGCG 59.219 52.381 20.27 0.00 0.00 4.73
316 375 2.975536 CGGTGTATGGTCCGGTGT 59.024 61.111 0.00 0.00 42.61 4.16
422 488 0.931202 CGTTGGTTTTTCCGCGTTCC 60.931 55.000 4.92 0.00 39.52 3.62
982 1067 2.589610 ATCCGTCCCCTCTGCTGCTA 62.590 60.000 0.00 0.00 0.00 3.49
988 1073 1.553690 AACACCATCCGTCCCCTCTG 61.554 60.000 0.00 0.00 0.00 3.35
991 1076 1.537889 TGAACACCATCCGTCCCCT 60.538 57.895 0.00 0.00 0.00 4.79
992 1077 1.078426 CTGAACACCATCCGTCCCC 60.078 63.158 0.00 0.00 0.00 4.81
993 1078 1.745489 GCTGAACACCATCCGTCCC 60.745 63.158 0.00 0.00 0.00 4.46
994 1079 2.100631 CGCTGAACACCATCCGTCC 61.101 63.158 0.00 0.00 0.00 4.79
996 1081 2.047274 CCGCTGAACACCATCCGT 60.047 61.111 0.00 0.00 0.00 4.69
1356 1447 2.031930 GCTTTCCTAGTCGTCCGAGTAG 59.968 54.545 19.74 19.74 43.92 2.57
1383 1474 0.374758 GCCAGTACACATGCACATCG 59.625 55.000 0.00 0.00 0.00 3.84
1438 1529 2.251371 GAACGGACAAAGCGGCAC 59.749 61.111 1.45 0.00 0.00 5.01
1444 1535 4.568152 ACAAAGAATGGAACGGACAAAG 57.432 40.909 0.00 0.00 0.00 2.77
1493 1584 0.396974 TGAAGCCAACCAACCAAGCT 60.397 50.000 0.00 0.00 34.64 3.74
1565 1656 7.426410 TGTTACACAGTGTTTCAACTTTTCAA 58.574 30.769 12.53 0.00 0.00 2.69
1566 1657 6.971602 TGTTACACAGTGTTTCAACTTTTCA 58.028 32.000 12.53 0.00 0.00 2.69
1568 1659 7.209471 TCTGTTACACAGTGTTTCAACTTTT 57.791 32.000 12.53 0.00 46.03 2.27
1569 1660 6.811253 TCTGTTACACAGTGTTTCAACTTT 57.189 33.333 12.53 0.00 46.03 2.66
1585 1676 4.578928 ACGGGCATAATTTCCATCTGTTAC 59.421 41.667 0.00 0.00 0.00 2.50
1674 1797 2.800544 CCCGATTAGTAGCACGATTTGG 59.199 50.000 0.00 0.00 0.00 3.28
1718 2694 5.614324 AATCACATCAAGTTATCTCCCGA 57.386 39.130 0.00 0.00 0.00 5.14
1738 2714 0.393808 AAACTCGCCCGCATGGTAAT 60.394 50.000 0.00 0.00 36.04 1.89
1742 2718 1.154035 GAAAAACTCGCCCGCATGG 60.154 57.895 0.00 0.00 37.09 3.66
1745 2721 2.258013 CCAGAAAAACTCGCCCGCA 61.258 57.895 0.00 0.00 0.00 5.69
1746 2722 2.258726 ACCAGAAAAACTCGCCCGC 61.259 57.895 0.00 0.00 0.00 6.13
1747 2723 0.882927 TCACCAGAAAAACTCGCCCG 60.883 55.000 0.00 0.00 0.00 6.13
1748 2724 1.314730 TTCACCAGAAAAACTCGCCC 58.685 50.000 0.00 0.00 0.00 6.13
1758 2734 3.645212 TCATTTGGCCATTTTCACCAGAA 59.355 39.130 6.09 0.00 34.28 3.02
1759 2735 3.237746 TCATTTGGCCATTTTCACCAGA 58.762 40.909 6.09 0.00 34.28 3.86
1760 2736 3.592059 CTCATTTGGCCATTTTCACCAG 58.408 45.455 6.09 0.00 34.28 4.00
1772 2748 4.333372 CCATAAACAATTGGCTCATTTGGC 59.667 41.667 10.83 0.00 31.54 4.52
1773 2749 5.352016 CACCATAAACAATTGGCTCATTTGG 59.648 40.000 10.83 9.38 36.41 3.28
1774 2750 6.091169 GTCACCATAAACAATTGGCTCATTTG 59.909 38.462 10.83 0.00 36.41 2.32
1780 2786 2.491693 CCGTCACCATAAACAATTGGCT 59.508 45.455 10.83 0.00 36.41 4.75
1781 2787 2.874849 CCGTCACCATAAACAATTGGC 58.125 47.619 10.83 0.00 36.41 4.52
1791 2797 2.266372 CCCGTTGCCGTCACCATA 59.734 61.111 0.00 0.00 0.00 2.74
1792 2798 4.715523 CCCCGTTGCCGTCACCAT 62.716 66.667 0.00 0.00 0.00 3.55
1802 2808 3.605634 TGATGAACAATAGTCCCCGTTG 58.394 45.455 0.00 0.00 0.00 4.10
1803 2809 3.992943 TGATGAACAATAGTCCCCGTT 57.007 42.857 0.00 0.00 0.00 4.44
1804 2810 3.808728 CATGATGAACAATAGTCCCCGT 58.191 45.455 0.00 0.00 0.00 5.28
1805 2811 2.549754 GCATGATGAACAATAGTCCCCG 59.450 50.000 0.00 0.00 0.00 5.73
1806 2812 2.887152 GGCATGATGAACAATAGTCCCC 59.113 50.000 0.00 0.00 0.00 4.81
1807 2813 3.825328 AGGCATGATGAACAATAGTCCC 58.175 45.455 0.00 0.00 0.00 4.46
1808 2814 5.841957 AAAGGCATGATGAACAATAGTCC 57.158 39.130 0.00 0.00 0.00 3.85
1834 2840 5.511363 TCTTGGACCCTTTCACAGTAAAAA 58.489 37.500 0.00 0.00 0.00 1.94
1835 2841 5.118729 TCTTGGACCCTTTCACAGTAAAA 57.881 39.130 0.00 0.00 0.00 1.52
1836 2842 4.714632 CTCTTGGACCCTTTCACAGTAAA 58.285 43.478 0.00 0.00 0.00 2.01
1837 2843 3.496160 GCTCTTGGACCCTTTCACAGTAA 60.496 47.826 0.00 0.00 0.00 2.24
1838 2844 2.038557 GCTCTTGGACCCTTTCACAGTA 59.961 50.000 0.00 0.00 0.00 2.74
1843 2849 3.725754 GTGCTCTTGGACCCTTTCA 57.274 52.632 0.00 0.00 0.00 2.69
1850 2856 0.886490 CACTGTGGGTGCTCTTGGAC 60.886 60.000 0.00 0.00 39.22 4.02
1851 2857 1.451504 CACTGTGGGTGCTCTTGGA 59.548 57.895 0.00 0.00 39.22 3.53
1861 2867 3.305335 GCAGAAAAACCATACACTGTGGG 60.305 47.826 13.09 6.39 41.14 4.61
1863 2869 3.569701 AGGCAGAAAAACCATACACTGTG 59.430 43.478 6.19 6.19 0.00 3.66
1867 2873 5.392057 GCTTAGAGGCAGAAAAACCATACAC 60.392 44.000 0.00 0.00 0.00 2.90
1883 2890 3.117512 AGAGGAGAGAGAAGGCTTAGAGG 60.118 52.174 0.00 0.00 0.00 3.69
1900 2907 3.746792 TGGAGATTGTCTCTGAGAGGA 57.253 47.619 9.97 0.00 42.95 3.71
1901 2908 3.321682 GGATGGAGATTGTCTCTGAGAGG 59.678 52.174 9.97 0.00 42.95 3.69
1906 2913 5.922053 TGTAATGGATGGAGATTGTCTCTG 58.078 41.667 6.89 0.00 42.95 3.35
1911 2918 5.831103 AGGTTTGTAATGGATGGAGATTGT 58.169 37.500 0.00 0.00 0.00 2.71
1915 2922 5.253330 GTTGAGGTTTGTAATGGATGGAGA 58.747 41.667 0.00 0.00 0.00 3.71
1921 2928 5.475564 GCTAAAGGTTGAGGTTTGTAATGGA 59.524 40.000 0.00 0.00 0.00 3.41
1922 2929 5.336451 GGCTAAAGGTTGAGGTTTGTAATGG 60.336 44.000 0.00 0.00 0.00 3.16
1927 2934 2.091555 TGGGCTAAAGGTTGAGGTTTGT 60.092 45.455 0.00 0.00 0.00 2.83
1941 2948 7.228590 AGGCGATACTAATAATTTTGGGCTAA 58.771 34.615 0.00 0.00 0.00 3.09
1943 2950 5.631119 AGGCGATACTAATAATTTTGGGCT 58.369 37.500 0.00 0.00 0.00 5.19
1944 2951 5.705905 AGAGGCGATACTAATAATTTTGGGC 59.294 40.000 0.00 0.00 0.00 5.36
1952 2959 6.436218 TCCATGCTAAGAGGCGATACTAATAA 59.564 38.462 0.00 0.00 34.52 1.40
1954 2961 4.772624 TCCATGCTAAGAGGCGATACTAAT 59.227 41.667 0.00 0.00 34.52 1.73
1955 2962 4.149598 TCCATGCTAAGAGGCGATACTAA 58.850 43.478 0.00 0.00 34.52 2.24
1956 2963 3.759086 CTCCATGCTAAGAGGCGATACTA 59.241 47.826 0.00 0.00 34.52 1.82
1957 2964 2.560542 CTCCATGCTAAGAGGCGATACT 59.439 50.000 0.00 0.00 34.52 2.12
1959 2966 1.895798 CCTCCATGCTAAGAGGCGATA 59.104 52.381 3.18 0.00 43.11 2.92
1960 2967 0.683973 CCTCCATGCTAAGAGGCGAT 59.316 55.000 3.18 0.00 43.11 4.58
1961 2968 2.127839 CCTCCATGCTAAGAGGCGA 58.872 57.895 3.18 0.00 43.11 5.54
1962 2969 4.766970 CCTCCATGCTAAGAGGCG 57.233 61.111 3.18 0.00 43.11 5.52
1965 2972 0.534652 GGCAGCCTCCATGCTAAGAG 60.535 60.000 3.29 0.00 43.35 2.85
1966 2973 0.984961 AGGCAGCCTCCATGCTAAGA 60.985 55.000 8.70 0.00 43.35 2.10
1967 2974 0.534652 GAGGCAGCCTCCATGCTAAG 60.535 60.000 29.22 0.00 44.36 2.18
1968 2975 1.528824 GAGGCAGCCTCCATGCTAA 59.471 57.895 29.22 0.00 44.36 3.09
1969 2976 3.234349 GAGGCAGCCTCCATGCTA 58.766 61.111 29.22 0.00 44.36 3.49
1977 2984 7.380423 TTTCTATATTTCTTAGAGGCAGCCT 57.620 36.000 16.12 16.12 36.03 4.58
1978 2985 8.510505 CAATTTCTATATTTCTTAGAGGCAGCC 58.489 37.037 1.84 1.84 0.00 4.85
1979 2986 9.277783 TCAATTTCTATATTTCTTAGAGGCAGC 57.722 33.333 0.00 0.00 0.00 5.25
1990 2997 5.833131 TGGGGGCACTCAATTTCTATATTTC 59.167 40.000 0.00 0.00 0.00 2.17
1991 2998 5.776358 TGGGGGCACTCAATTTCTATATTT 58.224 37.500 0.00 0.00 0.00 1.40
1998 3005 3.299503 ACATATGGGGGCACTCAATTTC 58.700 45.455 7.80 0.00 0.00 2.17
2009 3016 2.423373 CCCAAGAACTGACATATGGGGG 60.423 54.545 7.80 0.00 43.06 5.40
2012 3019 4.581824 CCATTCCCAAGAACTGACATATGG 59.418 45.833 7.80 0.00 33.97 2.74
2027 3034 6.523035 TTTATTCTACCATAGCCATTCCCA 57.477 37.500 0.00 0.00 0.00 4.37
2028 3035 8.957466 GTATTTTATTCTACCATAGCCATTCCC 58.043 37.037 0.00 0.00 0.00 3.97
2066 3073 7.129109 TCTTAGATTGCAGGTTTAGAAAACG 57.871 36.000 0.00 0.00 0.00 3.60
2092 3099 5.870978 ACGTAATGTATAAGGTTGTGGTCAC 59.129 40.000 0.00 0.00 0.00 3.67
2097 3104 8.598075 GGAAGTTACGTAATGTATAAGGTTGTG 58.402 37.037 11.86 0.00 31.81 3.33
2115 3123 5.879223 GCCTCTAAGTTTTAGGGGAAGTTAC 59.121 44.000 16.98 0.00 37.37 2.50
2117 3125 4.352893 TGCCTCTAAGTTTTAGGGGAAGTT 59.647 41.667 16.98 0.00 37.37 2.66
2118 3126 3.914435 TGCCTCTAAGTTTTAGGGGAAGT 59.086 43.478 16.98 0.00 37.37 3.01
2119 3127 4.569719 TGCCTCTAAGTTTTAGGGGAAG 57.430 45.455 16.98 0.00 37.37 3.46
2122 3130 3.007635 CGTTGCCTCTAAGTTTTAGGGG 58.992 50.000 9.88 9.88 38.23 4.79
2123 3131 2.418976 GCGTTGCCTCTAAGTTTTAGGG 59.581 50.000 5.59 0.00 0.00 3.53
2144 3152 1.293498 CTCTCTGTTGGGTCCCACG 59.707 63.158 11.24 2.11 30.78 4.94
2155 3163 3.386237 GGAGCACCGCCTCTCTGT 61.386 66.667 0.00 0.00 32.43 3.41
2156 3164 4.154347 GGGAGCACCGCCTCTCTG 62.154 72.222 0.00 0.00 36.97 3.35
2157 3165 4.390556 AGGGAGCACCGCCTCTCT 62.391 66.667 0.00 0.00 46.96 3.10
2158 3166 2.912987 TAGAGGGAGCACCGCCTCTC 62.913 65.000 11.25 4.52 46.96 3.20
2159 3167 2.997584 TAGAGGGAGCACCGCCTCT 61.998 63.158 12.28 12.28 46.96 3.69
2160 3168 2.442272 TAGAGGGAGCACCGCCTC 60.442 66.667 0.00 0.00 46.96 4.70
2161 3169 2.760385 GTAGAGGGAGCACCGCCT 60.760 66.667 0.00 0.00 46.96 5.52
2162 3170 3.075005 TGTAGAGGGAGCACCGCC 61.075 66.667 0.00 0.00 46.96 6.13
2163 3171 1.961180 ATGTGTAGAGGGAGCACCGC 61.961 60.000 0.00 0.00 46.96 5.68
2164 3172 0.537188 AATGTGTAGAGGGAGCACCG 59.463 55.000 0.00 0.00 46.96 4.94
2165 3173 3.495100 CCATAATGTGTAGAGGGAGCACC 60.495 52.174 0.00 0.00 40.67 5.01
2166 3174 3.388024 TCCATAATGTGTAGAGGGAGCAC 59.612 47.826 0.00 0.00 0.00 4.40
2167 3175 3.653164 TCCATAATGTGTAGAGGGAGCA 58.347 45.455 0.00 0.00 0.00 4.26
2168 3176 4.573900 CATCCATAATGTGTAGAGGGAGC 58.426 47.826 0.00 0.00 0.00 4.70
2169 3177 4.564406 GGCATCCATAATGTGTAGAGGGAG 60.564 50.000 0.00 0.00 37.71 4.30
2170 3178 3.327757 GGCATCCATAATGTGTAGAGGGA 59.672 47.826 0.00 0.00 37.71 4.20
2171 3179 3.560025 GGGCATCCATAATGTGTAGAGGG 60.560 52.174 0.00 0.00 37.71 4.30
2172 3180 3.328931 AGGGCATCCATAATGTGTAGAGG 59.671 47.826 0.00 0.00 37.71 3.69
2173 3181 4.630644 AGGGCATCCATAATGTGTAGAG 57.369 45.455 0.00 0.00 37.71 2.43
2174 3182 5.013079 CCTTAGGGCATCCATAATGTGTAGA 59.987 44.000 0.00 0.00 37.71 2.59
2175 3183 5.221925 ACCTTAGGGCATCCATAATGTGTAG 60.222 44.000 2.32 0.00 37.71 2.74
2176 3184 4.663120 ACCTTAGGGCATCCATAATGTGTA 59.337 41.667 2.32 0.00 37.71 2.90
2177 3185 3.463329 ACCTTAGGGCATCCATAATGTGT 59.537 43.478 2.32 0.00 37.71 3.72
2178 3186 4.074970 GACCTTAGGGCATCCATAATGTG 58.925 47.826 0.00 0.00 37.71 3.21
2179 3187 3.721575 TGACCTTAGGGCATCCATAATGT 59.278 43.478 0.85 0.00 37.71 2.71
2180 3188 4.371624 TGACCTTAGGGCATCCATAATG 57.628 45.455 0.85 0.00 38.50 1.90
2181 3189 6.915468 ATATGACCTTAGGGCATCCATAAT 57.085 37.500 24.70 8.25 33.63 1.28
2182 3190 8.405971 AATATATGACCTTAGGGCATCCATAA 57.594 34.615 24.70 5.85 33.63 1.90
2183 3191 9.514093 TTAATATATGACCTTAGGGCATCCATA 57.486 33.333 24.70 16.69 33.63 2.74
2184 3192 6.915468 AATATATGACCTTAGGGCATCCAT 57.085 37.500 24.70 14.94 33.63 3.41
2185 3193 7.583416 GCTTAATATATGACCTTAGGGCATCCA 60.583 40.741 24.70 12.86 33.63 3.41
2186 3194 6.768381 GCTTAATATATGACCTTAGGGCATCC 59.232 42.308 24.70 0.00 33.63 3.51
2187 3195 7.281100 GTGCTTAATATATGACCTTAGGGCATC 59.719 40.741 24.70 7.05 33.63 3.91
2188 3196 7.037297 AGTGCTTAATATATGACCTTAGGGCAT 60.037 37.037 24.39 24.39 35.04 4.40
2189 3197 6.272324 AGTGCTTAATATATGACCTTAGGGCA 59.728 38.462 10.19 10.19 35.63 5.36
2190 3198 6.595716 CAGTGCTTAATATATGACCTTAGGGC 59.404 42.308 2.32 0.00 35.63 5.19
2191 3199 6.595716 GCAGTGCTTAATATATGACCTTAGGG 59.404 42.308 8.18 0.00 38.88 3.53
2192 3200 7.161404 TGCAGTGCTTAATATATGACCTTAGG 58.839 38.462 17.60 0.00 0.00 2.69
2193 3201 8.663025 CATGCAGTGCTTAATATATGACCTTAG 58.337 37.037 17.60 0.00 0.00 2.18
2194 3202 8.156820 ACATGCAGTGCTTAATATATGACCTTA 58.843 33.333 17.60 0.00 0.00 2.69
2195 3203 7.000472 ACATGCAGTGCTTAATATATGACCTT 59.000 34.615 17.60 0.00 0.00 3.50
2196 3204 6.537355 ACATGCAGTGCTTAATATATGACCT 58.463 36.000 17.60 0.00 0.00 3.85
2197 3205 6.128172 GGACATGCAGTGCTTAATATATGACC 60.128 42.308 17.60 14.48 35.41 4.02
2198 3206 6.835914 GGACATGCAGTGCTTAATATATGAC 58.164 40.000 17.60 9.56 35.41 3.06
2215 3223 3.563808 TGAGTGTGTTTGTAAGGACATGC 59.436 43.478 0.00 0.00 34.86 4.06
2229 3237 8.396272 AGCTTTATTTTTCTGTATGAGTGTGT 57.604 30.769 0.00 0.00 0.00 3.72
2248 3256 6.723977 ACCCCAAAGATTTGAATGTAGCTTTA 59.276 34.615 6.87 0.00 40.55 1.85
2252 3260 4.220602 ACACCCCAAAGATTTGAATGTAGC 59.779 41.667 6.87 0.00 40.55 3.58
2260 3268 2.884639 ACTTCGACACCCCAAAGATTTG 59.115 45.455 0.00 0.00 37.90 2.32
2269 3277 2.081725 GAAGAAGACTTCGACACCCC 57.918 55.000 9.53 0.00 42.14 4.95
2285 3293 3.041211 TGGATGTGGATGTAGGAGGAAG 58.959 50.000 0.00 0.00 0.00 3.46
2291 3299 2.233271 GCCAATGGATGTGGATGTAGG 58.767 52.381 2.05 0.00 38.54 3.18
2292 3300 1.875514 CGCCAATGGATGTGGATGTAG 59.124 52.381 2.05 0.00 38.54 2.74
2294 3302 0.752743 CCGCCAATGGATGTGGATGT 60.753 55.000 2.05 0.00 38.54 3.06
2302 3310 2.834505 AATGCGCCGCCAATGGAT 60.835 55.556 6.63 0.00 0.00 3.41
2303 3311 3.824469 CAATGCGCCGCCAATGGA 61.824 61.111 6.63 0.00 0.00 3.41
2304 3312 4.132441 ACAATGCGCCGCCAATGG 62.132 61.111 6.63 0.00 0.00 3.16
2305 3313 2.881827 CACAATGCGCCGCCAATG 60.882 61.111 6.63 5.40 0.00 2.82
2306 3314 3.055080 CTCACAATGCGCCGCCAAT 62.055 57.895 6.63 0.00 0.00 3.16
2307 3315 3.736100 CTCACAATGCGCCGCCAA 61.736 61.111 6.63 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.