Multiple sequence alignment - TraesCS3A01G125000

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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 TraesCS3A01G125000 chr3A 100.000 2318 0 0 1 2318 100865278 100862961 0.000000e+00 4281.0
1 TraesCS3A01G125000 chr3A 96.358 1620 57 2 1 1618 127189227 127190846 0.000000e+00 2663.0
2 TraesCS3A01G125000 chr3A 90.709 409 31 3 1617 2019 100929927 100929520 2.620000e-149 538.0
3 TraesCS3A01G125000 chr3A 95.638 298 13 0 2019 2316 691482118 691481821 1.610000e-131 479.0
4 TraesCS3A01G125000 chr3A 87.042 409 40 9 1617 2019 100930833 100930432 1.260000e-122 449.0
5 TraesCS3A01G125000 chr3A 82.801 407 31 11 1617 2019 100962491 100962120 6.180000e-86 327.0
6 TraesCS3A01G125000 chr1B 95.676 1619 68 2 1 1618 651901455 651903072 0.000000e+00 2601.0
7 TraesCS3A01G125000 chr2B 95.553 1619 71 1 1 1618 669240667 669239049 0.000000e+00 2590.0
8 TraesCS3A01G125000 chr2B 95.059 1619 77 3 1 1618 768647838 768649454 0.000000e+00 2543.0
9 TraesCS3A01G125000 chr2D 95.488 1618 70 2 1 1618 546410568 546412182 0.000000e+00 2580.0
10 TraesCS3A01G125000 chr7B 95.370 1620 70 4 1 1618 721205902 721207518 0.000000e+00 2571.0
11 TraesCS3A01G125000 chr4A 95.188 1621 75 3 1 1618 687426671 687428291 0.000000e+00 2558.0
12 TraesCS3A01G125000 chr6B 95.068 1622 76 3 1 1618 544077870 544079491 0.000000e+00 2549.0
13 TraesCS3A01G125000 chr6B 95.056 1618 78 2 1 1618 29972352 29973967 0.000000e+00 2543.0
14 TraesCS3A01G125000 chr5A 97.049 305 9 0 2014 2318 29722899 29722595 4.420000e-142 514.0
15 TraesCS3A01G125000 chr5A 95.000 300 15 0 2019 2318 12149206 12148907 2.700000e-129 472.0
16 TraesCS3A01G125000 chr5A 94.020 301 17 1 2019 2318 386462810 386463110 2.720000e-124 455.0
17 TraesCS3A01G125000 chr5A 93.688 301 17 2 2019 2318 651686554 651686853 1.260000e-122 449.0
18 TraesCS3A01G125000 chr5A 89.333 300 28 4 2019 2317 291269436 291269732 7.820000e-100 374.0
19 TraesCS3A01G125000 chr4B 92.667 300 21 1 2019 2318 121569558 121569856 4.580000e-117 431.0
20 TraesCS3A01G125000 chr7A 91.391 302 23 3 2018 2317 558110986 558111286 5.960000e-111 411.0
21 TraesCS3A01G125000 chr1A 91.030 301 23 4 2019 2317 249442583 249442285 9.970000e-109 403.0
22 TraesCS3A01G125000 chr3D 90.429 303 24 3 1616 1914 84670608 84670307 6.000000e-106 394.0
23 TraesCS3A01G125000 chr3D 87.640 89 6 3 1703 1787 84557640 84557553 5.270000e-17 99.0
24 TraesCS3A01G125000 chr3D 95.556 45 2 0 1980 2024 84670301 84670257 3.190000e-09 73.1
25 TraesCS3A01G125000 chr3B 85.393 89 8 3 1703 1787 131997271 131997358 1.140000e-13 87.9


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 TraesCS3A01G125000 chr3A 100862961 100865278 2317 True 4281.0 4281 100.0000 1 2318 1 chr3A.!!$R1 2317
1 TraesCS3A01G125000 chr3A 127189227 127190846 1619 False 2663.0 2663 96.3580 1 1618 1 chr3A.!!$F1 1617
2 TraesCS3A01G125000 chr3A 100929520 100930833 1313 True 493.5 538 88.8755 1617 2019 2 chr3A.!!$R4 402
3 TraesCS3A01G125000 chr1B 651901455 651903072 1617 False 2601.0 2601 95.6760 1 1618 1 chr1B.!!$F1 1617
4 TraesCS3A01G125000 chr2B 669239049 669240667 1618 True 2590.0 2590 95.5530 1 1618 1 chr2B.!!$R1 1617
5 TraesCS3A01G125000 chr2B 768647838 768649454 1616 False 2543.0 2543 95.0590 1 1618 1 chr2B.!!$F1 1617
6 TraesCS3A01G125000 chr2D 546410568 546412182 1614 False 2580.0 2580 95.4880 1 1618 1 chr2D.!!$F1 1617
7 TraesCS3A01G125000 chr7B 721205902 721207518 1616 False 2571.0 2571 95.3700 1 1618 1 chr7B.!!$F1 1617
8 TraesCS3A01G125000 chr4A 687426671 687428291 1620 False 2558.0 2558 95.1880 1 1618 1 chr4A.!!$F1 1617
9 TraesCS3A01G125000 chr6B 544077870 544079491 1621 False 2549.0 2549 95.0680 1 1618 1 chr6B.!!$F2 1617
10 TraesCS3A01G125000 chr6B 29972352 29973967 1615 False 2543.0 2543 95.0560 1 1618 1 chr6B.!!$F1 1617

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
309 311 3.403558 GAGGAGGGGGACTGGCAC 61.404 72.222 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2236 3157 0.040204 AGGGATGGGCAGTCCTTTTG 59.96 55.0 7.25 0.0 36.0 2.44 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
53 54 7.336931 AGAGAGACTCATTCTTACTGAGACTTC 59.663 40.741 5.02 6.95 42.85 3.01
309 311 3.403558 GAGGAGGGGGACTGGCAC 61.404 72.222 0.00 0.00 0.00 5.01
399 401 4.476846 TCCCACTTCTGGAATGGCTTAATA 59.523 41.667 0.00 0.00 40.55 0.98
491 493 4.691216 GGAAGATGCGTGGATAAAGGATAC 59.309 45.833 0.00 0.00 0.00 2.24
555 558 3.790152 TGCAAACATGTTACTGTTGCA 57.210 38.095 24.10 24.10 39.25 4.08
707 710 9.287373 AGTTAAATGGTTACTTACAAATTCCGA 57.713 29.630 0.00 0.00 0.00 4.55
921 924 3.799420 GTGACTGTGAAGAGAGTGTGAAC 59.201 47.826 0.00 0.00 0.00 3.18
934 937 8.463930 AGAGAGTGTGAACCATTTATTTTTCA 57.536 30.769 0.00 0.00 0.00 2.69
960 963 4.591498 TGTTCCTTAGCTAAGTTCCTGTGA 59.409 41.667 27.54 15.25 0.00 3.58
976 979 5.579047 TCCTGTGAAATATTGTGGGATGTT 58.421 37.500 0.00 0.00 0.00 2.71
1004 1007 0.252479 AGCCAGAGAGCTCCAATGTG 59.748 55.000 10.93 0.43 39.48 3.21
1180 1185 9.362151 ACATTATCTTTCTTGTTTGTTCCCTAA 57.638 29.630 0.00 0.00 0.00 2.69
1213 1218 5.130145 TGGAAAAATTTGCAGAAAAGAGGGA 59.870 36.000 0.00 0.00 33.44 4.20
1336 1341 4.540153 GCTAGCCGCTGGAAATGA 57.460 55.556 8.12 0.00 35.14 2.57
1398 1403 7.177216 TCGTCCTTTAGTCTGTTGATACCTTTA 59.823 37.037 0.00 0.00 0.00 1.85
1639 1649 0.611062 ACCTCGTGGATCTTCCGACA 60.611 55.000 11.17 0.00 40.17 4.35
1642 1652 2.464865 CTCGTGGATCTTCCGACATTC 58.535 52.381 0.00 0.00 40.17 2.67
1643 1653 1.822371 TCGTGGATCTTCCGACATTCA 59.178 47.619 0.00 0.00 40.17 2.57
1736 2652 6.976934 AATTTCTCATACAACCAACCACTT 57.023 33.333 0.00 0.00 0.00 3.16
1814 2730 7.539034 AGTTTTTCATACATTAGGCAACCTT 57.461 32.000 0.00 0.00 34.61 3.50
1834 2750 4.583489 CCTTTATGCTCAAATCATGGCTCT 59.417 41.667 0.00 0.00 0.00 4.09
1844 2760 1.499368 TCATGGCTCTGCATCCTACA 58.501 50.000 0.00 0.00 0.00 2.74
1845 2761 2.052468 TCATGGCTCTGCATCCTACAT 58.948 47.619 0.00 0.00 0.00 2.29
1846 2762 2.152016 CATGGCTCTGCATCCTACATG 58.848 52.381 0.00 0.00 0.00 3.21
1847 2763 1.206878 TGGCTCTGCATCCTACATGT 58.793 50.000 2.69 2.69 0.00 3.21
1848 2764 1.561076 TGGCTCTGCATCCTACATGTT 59.439 47.619 2.30 0.00 0.00 2.71
1849 2765 2.216898 GGCTCTGCATCCTACATGTTC 58.783 52.381 2.30 0.00 0.00 3.18
1851 2767 3.070159 GGCTCTGCATCCTACATGTTCTA 59.930 47.826 2.30 0.00 0.00 2.10
1852 2768 4.305769 GCTCTGCATCCTACATGTTCTAG 58.694 47.826 2.30 0.00 0.00 2.43
1853 2769 4.305769 CTCTGCATCCTACATGTTCTAGC 58.694 47.826 2.30 3.33 0.00 3.42
1855 2771 4.162131 TCTGCATCCTACATGTTCTAGCAA 59.838 41.667 2.30 0.00 0.00 3.91
1856 2772 5.039920 TGCATCCTACATGTTCTAGCAAT 57.960 39.130 2.30 0.00 0.00 3.56
1857 2773 4.818005 TGCATCCTACATGTTCTAGCAATG 59.182 41.667 2.30 3.85 0.00 2.82
1858 2774 5.059161 GCATCCTACATGTTCTAGCAATGA 58.941 41.667 2.30 0.00 0.00 2.57
1859 2775 5.049818 GCATCCTACATGTTCTAGCAATGAC 60.050 44.000 2.30 0.00 0.00 3.06
1860 2776 5.939764 TCCTACATGTTCTAGCAATGACT 57.060 39.130 2.30 0.00 0.00 3.41
1861 2777 7.436933 CATCCTACATGTTCTAGCAATGACTA 58.563 38.462 2.30 0.00 0.00 2.59
1862 2778 7.603180 TCCTACATGTTCTAGCAATGACTAT 57.397 36.000 2.30 0.00 0.00 2.12
1863 2779 7.436933 TCCTACATGTTCTAGCAATGACTATG 58.563 38.462 2.30 0.00 0.00 2.23
1870 2788 6.127225 TGTTCTAGCAATGACTATGAGCTTCT 60.127 38.462 0.00 0.00 36.80 2.85
1889 2807 5.645497 GCTTCTGGTCAGAATCAATGTTACT 59.355 40.000 13.04 0.00 45.40 2.24
1890 2808 6.402983 GCTTCTGGTCAGAATCAATGTTACTG 60.403 42.308 13.04 0.00 45.40 2.74
1895 2813 6.430925 TGGTCAGAATCAATGTTACTGAAAGG 59.569 38.462 0.00 0.00 38.90 3.11
1903 2821 5.473504 TCAATGTTACTGAAAGGCTTTCCTC 59.526 40.000 31.17 18.62 43.40 3.71
1906 2824 5.385198 TGTTACTGAAAGGCTTTCCTCAAT 58.615 37.500 31.17 17.00 43.40 2.57
1924 2842 4.870363 TCAATGAAACTTACTGCAAAGCC 58.130 39.130 0.00 0.00 0.00 4.35
1925 2843 4.340666 TCAATGAAACTTACTGCAAAGCCA 59.659 37.500 0.00 0.00 0.00 4.75
1944 2862 3.003068 GCCAGTGAGTGAATCATGTATGC 59.997 47.826 0.00 0.00 40.92 3.14
1959 2877 5.581605 CATGTATGCCATGTTAGTGGAAAC 58.418 41.667 0.00 0.00 44.96 2.78
1987 2905 2.238395 AGAAGACCAGGCAATTCCTCTC 59.762 50.000 0.00 0.00 45.52 3.20
2045 2966 5.515797 TTAGAACATAGATGTCAGGGACG 57.484 43.478 0.00 0.00 40.80 4.79
2046 2967 3.366396 AGAACATAGATGTCAGGGACGT 58.634 45.455 0.00 0.00 40.80 4.34
2047 2968 3.381908 AGAACATAGATGTCAGGGACGTC 59.618 47.826 7.13 7.13 45.72 4.34
2048 2969 2.032620 ACATAGATGTCAGGGACGTCC 58.967 52.381 27.04 27.04 46.31 4.79
2049 2970 1.001268 CATAGATGTCAGGGACGTCCG 60.001 57.143 27.68 15.50 46.31 4.79
2050 2971 0.750546 TAGATGTCAGGGACGTCCGG 60.751 60.000 27.68 21.63 46.31 5.14
2051 2972 3.718210 GATGTCAGGGACGTCCGGC 62.718 68.421 27.68 17.18 41.25 6.13
2052 2973 4.988716 TGTCAGGGACGTCCGGCT 62.989 66.667 27.68 17.44 41.52 5.52
2053 2974 3.692406 GTCAGGGACGTCCGGCTT 61.692 66.667 27.68 10.83 41.52 4.35
2054 2975 2.920912 TCAGGGACGTCCGGCTTT 60.921 61.111 27.68 8.31 41.52 3.51
2055 2976 1.607178 TCAGGGACGTCCGGCTTTA 60.607 57.895 27.68 8.31 41.52 1.85
2056 2977 1.186917 TCAGGGACGTCCGGCTTTAA 61.187 55.000 27.68 6.44 41.52 1.52
2057 2978 0.320946 CAGGGACGTCCGGCTTTAAA 60.321 55.000 27.68 0.00 41.52 1.52
2058 2979 0.616891 AGGGACGTCCGGCTTTAAAT 59.383 50.000 27.68 2.64 41.52 1.40
2059 2980 1.003928 AGGGACGTCCGGCTTTAAATT 59.996 47.619 27.68 0.85 41.52 1.82
2060 2981 2.236893 AGGGACGTCCGGCTTTAAATTA 59.763 45.455 27.68 0.00 41.52 1.40
2061 2982 3.009026 GGGACGTCCGGCTTTAAATTAA 58.991 45.455 27.68 0.00 36.71 1.40
2062 2983 3.628942 GGGACGTCCGGCTTTAAATTAAT 59.371 43.478 27.68 0.00 36.71 1.40
2063 2984 4.815846 GGGACGTCCGGCTTTAAATTAATA 59.184 41.667 27.68 0.00 36.71 0.98
2064 2985 5.296531 GGGACGTCCGGCTTTAAATTAATAA 59.703 40.000 27.68 0.00 36.71 1.40
2065 2986 6.183360 GGGACGTCCGGCTTTAAATTAATAAA 60.183 38.462 27.68 0.00 36.71 1.40
2066 2987 6.908820 GGACGTCCGGCTTTAAATTAATAAAG 59.091 38.462 20.85 6.41 42.93 1.85
2079 3000 7.839680 AAATTAATAAAGCCCTCCACATAGG 57.160 36.000 0.00 0.00 39.47 2.57
2083 3004 2.203266 GCCCTCCACATAGGCAGC 60.203 66.667 0.00 0.00 46.34 5.25
2084 3005 2.109799 CCCTCCACATAGGCAGCG 59.890 66.667 0.00 0.00 37.29 5.18
2085 3006 2.735772 CCCTCCACATAGGCAGCGT 61.736 63.158 0.00 0.00 37.29 5.07
2086 3007 1.522355 CCTCCACATAGGCAGCGTG 60.522 63.158 0.00 0.00 37.29 5.34
2087 3008 2.125147 TCCACATAGGCAGCGTGC 60.125 61.111 0.00 1.92 44.08 5.34
2096 3017 2.715005 GCAGCGTGCACAAACAGA 59.285 55.556 18.64 0.00 44.26 3.41
2097 3018 1.063972 GCAGCGTGCACAAACAGAA 59.936 52.632 18.64 0.00 44.26 3.02
2098 3019 1.202348 GCAGCGTGCACAAACAGAAC 61.202 55.000 18.64 0.00 44.26 3.01
2099 3020 0.098552 CAGCGTGCACAAACAGAACA 59.901 50.000 18.64 0.00 0.00 3.18
2100 3021 0.378257 AGCGTGCACAAACAGAACAG 59.622 50.000 18.64 0.00 0.00 3.16
2101 3022 0.376852 GCGTGCACAAACAGAACAGA 59.623 50.000 18.64 0.00 0.00 3.41
2102 3023 1.856014 GCGTGCACAAACAGAACAGAC 60.856 52.381 18.64 0.00 0.00 3.51
2103 3024 1.268032 CGTGCACAAACAGAACAGACC 60.268 52.381 18.64 0.00 0.00 3.85
2104 3025 1.742831 GTGCACAAACAGAACAGACCA 59.257 47.619 13.17 0.00 0.00 4.02
2105 3026 2.163412 GTGCACAAACAGAACAGACCAA 59.837 45.455 13.17 0.00 0.00 3.67
2106 3027 2.822561 TGCACAAACAGAACAGACCAAA 59.177 40.909 0.00 0.00 0.00 3.28
2107 3028 3.179048 GCACAAACAGAACAGACCAAAC 58.821 45.455 0.00 0.00 0.00 2.93
2108 3029 3.366883 GCACAAACAGAACAGACCAAACA 60.367 43.478 0.00 0.00 0.00 2.83
2109 3030 4.414852 CACAAACAGAACAGACCAAACAG 58.585 43.478 0.00 0.00 0.00 3.16
2110 3031 4.155826 CACAAACAGAACAGACCAAACAGA 59.844 41.667 0.00 0.00 0.00 3.41
2111 3032 4.156008 ACAAACAGAACAGACCAAACAGAC 59.844 41.667 0.00 0.00 0.00 3.51
2112 3033 2.550978 ACAGAACAGACCAAACAGACG 58.449 47.619 0.00 0.00 0.00 4.18
2113 3034 1.867233 CAGAACAGACCAAACAGACGG 59.133 52.381 0.00 0.00 0.00 4.79
2114 3035 1.760613 AGAACAGACCAAACAGACGGA 59.239 47.619 0.00 0.00 0.00 4.69
2115 3036 2.169769 AGAACAGACCAAACAGACGGAA 59.830 45.455 0.00 0.00 0.00 4.30
2116 3037 1.949465 ACAGACCAAACAGACGGAAC 58.051 50.000 0.00 0.00 0.00 3.62
2117 3038 1.226746 CAGACCAAACAGACGGAACC 58.773 55.000 0.00 0.00 0.00 3.62
2118 3039 0.249741 AGACCAAACAGACGGAACCG 60.250 55.000 11.83 11.83 46.03 4.44
2119 3040 0.249573 GACCAAACAGACGGAACCGA 60.250 55.000 20.14 0.00 42.83 4.69
2120 3041 0.178533 ACCAAACAGACGGAACCGAA 59.821 50.000 20.14 0.00 42.83 4.30
2121 3042 0.865769 CCAAACAGACGGAACCGAAG 59.134 55.000 20.14 10.73 42.83 3.79
2122 3043 0.234884 CAAACAGACGGAACCGAAGC 59.765 55.000 20.14 8.52 42.83 3.86
2123 3044 0.106149 AAACAGACGGAACCGAAGCT 59.894 50.000 20.14 10.51 42.83 3.74
2124 3045 0.963962 AACAGACGGAACCGAAGCTA 59.036 50.000 20.14 0.00 42.83 3.32
2125 3046 0.526662 ACAGACGGAACCGAAGCTAG 59.473 55.000 20.14 10.24 42.83 3.42
2126 3047 0.526662 CAGACGGAACCGAAGCTAGT 59.473 55.000 20.14 0.00 42.83 2.57
2127 3048 0.810016 AGACGGAACCGAAGCTAGTC 59.190 55.000 20.14 5.08 42.83 2.59
2128 3049 0.524862 GACGGAACCGAAGCTAGTCA 59.475 55.000 20.14 0.00 42.83 3.41
2129 3050 0.243095 ACGGAACCGAAGCTAGTCAC 59.757 55.000 20.14 0.00 42.83 3.67
2130 3051 0.458025 CGGAACCGAAGCTAGTCACC 60.458 60.000 7.53 0.00 42.83 4.02
2131 3052 0.108281 GGAACCGAAGCTAGTCACCC 60.108 60.000 0.00 0.00 0.00 4.61
2132 3053 0.606604 GAACCGAAGCTAGTCACCCA 59.393 55.000 0.00 0.00 0.00 4.51
2133 3054 1.001633 GAACCGAAGCTAGTCACCCAA 59.998 52.381 0.00 0.00 0.00 4.12
2134 3055 0.608640 ACCGAAGCTAGTCACCCAAG 59.391 55.000 0.00 0.00 0.00 3.61
2135 3056 0.608640 CCGAAGCTAGTCACCCAAGT 59.391 55.000 0.00 0.00 0.00 3.16
2136 3057 1.002087 CCGAAGCTAGTCACCCAAGTT 59.998 52.381 0.00 0.00 0.00 2.66
2137 3058 2.338500 CGAAGCTAGTCACCCAAGTTC 58.662 52.381 0.00 0.00 0.00 3.01
2138 3059 2.028930 CGAAGCTAGTCACCCAAGTTCT 60.029 50.000 0.00 0.00 0.00 3.01
2139 3060 3.192844 CGAAGCTAGTCACCCAAGTTCTA 59.807 47.826 0.00 0.00 0.00 2.10
2140 3061 4.321750 CGAAGCTAGTCACCCAAGTTCTAA 60.322 45.833 0.00 0.00 0.00 2.10
2141 3062 4.810191 AGCTAGTCACCCAAGTTCTAAG 57.190 45.455 0.00 0.00 0.00 2.18
2142 3063 3.515901 AGCTAGTCACCCAAGTTCTAAGG 59.484 47.826 0.00 0.00 0.00 2.69
2143 3064 2.861147 AGTCACCCAAGTTCTAAGGC 57.139 50.000 0.00 0.00 0.00 4.35
2144 3065 2.054799 AGTCACCCAAGTTCTAAGGCA 58.945 47.619 0.00 0.00 0.00 4.75
2145 3066 2.644798 AGTCACCCAAGTTCTAAGGCAT 59.355 45.455 0.00 0.00 0.00 4.40
2146 3067 2.749621 GTCACCCAAGTTCTAAGGCATG 59.250 50.000 0.00 0.00 0.00 4.06
2147 3068 1.474077 CACCCAAGTTCTAAGGCATGC 59.526 52.381 9.90 9.90 0.00 4.06
2148 3069 1.106285 CCCAAGTTCTAAGGCATGCC 58.894 55.000 30.12 30.12 0.00 4.40
2149 3070 1.616725 CCCAAGTTCTAAGGCATGCCA 60.617 52.381 37.18 18.01 38.92 4.92
2150 3071 1.474077 CCAAGTTCTAAGGCATGCCAC 59.526 52.381 37.18 25.46 38.92 5.01
2151 3072 2.161855 CAAGTTCTAAGGCATGCCACA 58.838 47.619 37.18 22.98 38.92 4.17
2152 3073 2.557924 CAAGTTCTAAGGCATGCCACAA 59.442 45.455 37.18 20.76 38.92 3.33
2153 3074 2.875296 AGTTCTAAGGCATGCCACAAA 58.125 42.857 37.18 21.93 38.92 2.83
2154 3075 3.230134 AGTTCTAAGGCATGCCACAAAA 58.770 40.909 37.18 22.28 38.92 2.44
2155 3076 3.256631 AGTTCTAAGGCATGCCACAAAAG 59.743 43.478 37.18 24.09 38.92 2.27
2156 3077 2.170166 TCTAAGGCATGCCACAAAAGG 58.830 47.619 37.18 18.82 38.92 3.11
2164 3085 4.607024 CCACAAAAGGCAACGACG 57.393 55.556 0.00 0.00 46.39 5.12
2165 3086 1.008995 CCACAAAAGGCAACGACGG 60.009 57.895 0.00 0.00 46.39 4.79
2166 3087 1.657181 CACAAAAGGCAACGACGGC 60.657 57.895 0.00 0.00 46.39 5.68
2167 3088 2.426752 CAAAAGGCAACGACGGCG 60.427 61.111 10.39 10.39 46.39 6.46
2168 3089 2.589442 AAAAGGCAACGACGGCGA 60.589 55.556 22.49 0.00 46.39 5.54
2169 3090 2.181521 AAAAGGCAACGACGGCGAA 61.182 52.632 22.49 0.00 46.39 4.70
2170 3091 1.716826 AAAAGGCAACGACGGCGAAA 61.717 50.000 22.49 0.00 46.39 3.46
2171 3092 1.512156 AAAGGCAACGACGGCGAAAT 61.512 50.000 22.49 0.00 46.39 2.17
2172 3093 0.671163 AAGGCAACGACGGCGAAATA 60.671 50.000 22.49 0.00 46.39 1.40
2173 3094 0.671163 AGGCAACGACGGCGAAATAA 60.671 50.000 22.49 0.00 46.39 1.40
2174 3095 0.166379 GGCAACGACGGCGAAATAAA 59.834 50.000 22.49 0.00 41.64 1.40
2175 3096 1.520368 GCAACGACGGCGAAATAAAG 58.480 50.000 22.49 0.00 41.64 1.85
2176 3097 1.136169 GCAACGACGGCGAAATAAAGT 60.136 47.619 22.49 0.00 41.64 2.66
2177 3098 2.492001 CAACGACGGCGAAATAAAGTG 58.508 47.619 22.49 0.00 41.64 3.16
2178 3099 0.441145 ACGACGGCGAAATAAAGTGC 59.559 50.000 22.49 0.00 41.64 4.40
2179 3100 0.440758 CGACGGCGAAATAAAGTGCA 59.559 50.000 16.62 0.00 40.82 4.57
2180 3101 1.062002 CGACGGCGAAATAAAGTGCAT 59.938 47.619 16.62 0.00 40.82 3.96
2181 3102 2.475519 CGACGGCGAAATAAAGTGCATT 60.476 45.455 16.62 0.00 40.82 3.56
2182 3103 3.242155 CGACGGCGAAATAAAGTGCATTA 60.242 43.478 16.62 0.00 40.82 1.90
2183 3104 4.011058 ACGGCGAAATAAAGTGCATTAC 57.989 40.909 16.62 0.00 0.00 1.89
2184 3105 3.437395 ACGGCGAAATAAAGTGCATTACA 59.563 39.130 16.62 0.00 0.00 2.41
2185 3106 4.095782 ACGGCGAAATAAAGTGCATTACAT 59.904 37.500 16.62 0.00 0.00 2.29
2186 3107 4.437495 CGGCGAAATAAAGTGCATTACATG 59.563 41.667 0.00 0.00 0.00 3.21
2187 3108 4.739716 GGCGAAATAAAGTGCATTACATGG 59.260 41.667 0.00 0.00 0.00 3.66
2188 3109 4.207019 GCGAAATAAAGTGCATTACATGGC 59.793 41.667 0.00 0.00 0.00 4.40
2189 3110 5.339177 CGAAATAAAGTGCATTACATGGCA 58.661 37.500 0.00 0.00 37.77 4.92
2190 3111 5.978919 CGAAATAAAGTGCATTACATGGCAT 59.021 36.000 0.00 0.00 42.75 4.40
2191 3112 7.138081 CGAAATAAAGTGCATTACATGGCATA 58.862 34.615 0.00 0.00 42.75 3.14
2192 3113 7.324375 CGAAATAAAGTGCATTACATGGCATAG 59.676 37.037 0.00 0.00 42.75 2.23
2193 3114 3.996150 AAGTGCATTACATGGCATAGC 57.004 42.857 0.00 0.38 42.75 2.97
2206 3127 2.851805 GCATAGCCAGCCAAACTAAC 57.148 50.000 0.00 0.00 0.00 2.34
2207 3128 1.064060 GCATAGCCAGCCAAACTAACG 59.936 52.381 0.00 0.00 0.00 3.18
2208 3129 2.627945 CATAGCCAGCCAAACTAACGA 58.372 47.619 0.00 0.00 0.00 3.85
2209 3130 2.380084 TAGCCAGCCAAACTAACGAG 57.620 50.000 0.00 0.00 0.00 4.18
2210 3131 0.396811 AGCCAGCCAAACTAACGAGT 59.603 50.000 0.00 0.00 37.59 4.18
2211 3132 0.517316 GCCAGCCAAACTAACGAGTG 59.483 55.000 0.00 0.00 35.52 3.51
2212 3133 0.517316 CCAGCCAAACTAACGAGTGC 59.483 55.000 0.00 0.00 35.52 4.40
2213 3134 0.163788 CAGCCAAACTAACGAGTGCG 59.836 55.000 0.00 0.00 44.79 5.34
2214 3135 1.154469 GCCAAACTAACGAGTGCGC 60.154 57.895 0.00 0.00 42.48 6.09
2215 3136 1.837538 GCCAAACTAACGAGTGCGCA 61.838 55.000 5.66 5.66 42.48 6.09
2216 3137 0.163788 CCAAACTAACGAGTGCGCAG 59.836 55.000 12.22 0.60 42.48 5.18
2217 3138 0.163788 CAAACTAACGAGTGCGCAGG 59.836 55.000 12.22 5.81 42.48 4.85
2218 3139 1.566018 AAACTAACGAGTGCGCAGGC 61.566 55.000 12.22 4.52 42.48 4.85
2219 3140 2.125912 CTAACGAGTGCGCAGGCT 60.126 61.111 12.22 4.89 42.48 4.58
2220 3141 2.126071 TAACGAGTGCGCAGGCTC 60.126 61.111 12.22 14.65 42.48 4.70
2243 3164 2.375014 GGAACCCAAGACCAAAAGGA 57.625 50.000 0.00 0.00 0.00 3.36
2244 3165 1.961394 GGAACCCAAGACCAAAAGGAC 59.039 52.381 0.00 0.00 0.00 3.85
2245 3166 2.424379 GGAACCCAAGACCAAAAGGACT 60.424 50.000 0.00 0.00 0.00 3.85
2246 3167 2.364972 ACCCAAGACCAAAAGGACTG 57.635 50.000 0.00 0.00 0.00 3.51
2247 3168 0.961753 CCCAAGACCAAAAGGACTGC 59.038 55.000 0.00 0.00 0.00 4.40
2248 3169 0.961753 CCAAGACCAAAAGGACTGCC 59.038 55.000 0.00 0.00 0.00 4.85
2249 3170 0.961753 CAAGACCAAAAGGACTGCCC 59.038 55.000 0.00 0.00 33.31 5.36
2250 3171 0.555769 AAGACCAAAAGGACTGCCCA 59.444 50.000 0.00 0.00 37.41 5.36
2251 3172 0.779997 AGACCAAAAGGACTGCCCAT 59.220 50.000 0.00 0.00 37.41 4.00
2252 3173 1.177401 GACCAAAAGGACTGCCCATC 58.823 55.000 0.00 0.00 37.41 3.51
2253 3174 0.251787 ACCAAAAGGACTGCCCATCC 60.252 55.000 0.00 0.00 37.41 3.51
2254 3175 0.972471 CCAAAAGGACTGCCCATCCC 60.972 60.000 0.00 0.00 36.86 3.85
2255 3176 0.040204 CAAAAGGACTGCCCATCCCT 59.960 55.000 0.00 0.00 36.86 4.20
2256 3177 1.284785 CAAAAGGACTGCCCATCCCTA 59.715 52.381 0.00 0.00 36.86 3.53
2257 3178 1.912862 AAAGGACTGCCCATCCCTAT 58.087 50.000 0.00 0.00 36.86 2.57
2258 3179 1.143813 AAGGACTGCCCATCCCTATG 58.856 55.000 0.00 0.00 36.86 2.23
2259 3180 0.268869 AGGACTGCCCATCCCTATGA 59.731 55.000 0.00 0.00 36.86 2.15
2260 3181 0.689623 GGACTGCCCATCCCTATGAG 59.310 60.000 0.00 0.00 34.84 2.90
2261 3182 0.689623 GACTGCCCATCCCTATGAGG 59.310 60.000 0.00 0.00 34.84 3.86
2262 3183 1.377994 CTGCCCATCCCTATGAGGC 59.622 63.158 9.56 9.56 43.90 4.70
2263 3184 3.580084 GCCCATCCCTATGAGGCA 58.420 61.111 10.91 0.00 43.48 4.75
2264 3185 1.377994 GCCCATCCCTATGAGGCAG 59.622 63.158 10.91 0.00 43.48 4.85
2265 3186 1.377994 CCCATCCCTATGAGGCAGC 59.622 63.158 0.00 0.00 34.84 5.25
2266 3187 1.421346 CCCATCCCTATGAGGCAGCA 61.421 60.000 0.00 0.00 34.84 4.41
2267 3188 0.475475 CCATCCCTATGAGGCAGCAA 59.525 55.000 0.00 0.00 34.84 3.91
2268 3189 1.133699 CCATCCCTATGAGGCAGCAAA 60.134 52.381 0.00 0.00 34.84 3.68
2269 3190 1.952296 CATCCCTATGAGGCAGCAAAC 59.048 52.381 0.00 0.00 34.84 2.93
2270 3191 0.107703 TCCCTATGAGGCAGCAAACG 60.108 55.000 0.00 0.00 32.73 3.60
2271 3192 1.097547 CCCTATGAGGCAGCAAACGG 61.098 60.000 0.00 0.00 32.73 4.44
2272 3193 0.107703 CCTATGAGGCAGCAAACGGA 60.108 55.000 0.00 0.00 0.00 4.69
2273 3194 1.293924 CTATGAGGCAGCAAACGGAG 58.706 55.000 0.00 0.00 0.00 4.63
2274 3195 0.107703 TATGAGGCAGCAAACGGAGG 60.108 55.000 0.00 0.00 0.00 4.30
2275 3196 2.032681 GAGGCAGCAAACGGAGGT 59.967 61.111 0.00 0.00 0.00 3.85
2276 3197 1.295423 GAGGCAGCAAACGGAGGTA 59.705 57.895 0.00 0.00 0.00 3.08
2277 3198 0.321298 GAGGCAGCAAACGGAGGTAA 60.321 55.000 0.00 0.00 0.00 2.85
2278 3199 0.605589 AGGCAGCAAACGGAGGTAAC 60.606 55.000 0.00 0.00 0.00 2.50
2279 3200 1.495951 GCAGCAAACGGAGGTAACG 59.504 57.895 0.00 0.00 46.39 3.18
2280 3201 1.908066 GCAGCAAACGGAGGTAACGG 61.908 60.000 0.00 0.00 46.39 4.44
2281 3202 1.004200 AGCAAACGGAGGTAACGGG 60.004 57.895 0.00 0.00 46.39 5.28
2282 3203 2.036571 GCAAACGGAGGTAACGGGG 61.037 63.158 0.00 0.00 46.39 5.73
2283 3204 2.036571 CAAACGGAGGTAACGGGGC 61.037 63.158 0.00 0.00 46.39 5.80
2284 3205 2.219164 AAACGGAGGTAACGGGGCT 61.219 57.895 0.00 0.00 46.39 5.19
2285 3206 2.176314 AAACGGAGGTAACGGGGCTC 62.176 60.000 0.00 0.00 46.39 4.70
2286 3207 4.203076 CGGAGGTAACGGGGCTCG 62.203 72.222 4.58 4.58 46.39 5.03
2287 3208 2.757099 GGAGGTAACGGGGCTCGA 60.757 66.667 16.65 0.00 46.39 4.04
2288 3209 2.783288 GGAGGTAACGGGGCTCGAG 61.783 68.421 16.65 8.45 46.39 4.04
2289 3210 1.751927 GAGGTAACGGGGCTCGAGA 60.752 63.158 16.65 0.00 46.39 4.04
2290 3211 2.002509 GAGGTAACGGGGCTCGAGAC 62.003 65.000 16.65 14.94 46.39 3.36
2291 3212 2.101770 GTAACGGGGCTCGAGACG 59.898 66.667 16.65 18.70 42.43 4.18
2292 3213 3.818787 TAACGGGGCTCGAGACGC 61.819 66.667 24.73 24.73 42.43 5.19
2301 3222 3.791539 TCGAGACGCCGAGTAGAC 58.208 61.111 0.00 0.00 34.19 2.59
2302 3223 2.163390 TCGAGACGCCGAGTAGACG 61.163 63.158 0.00 0.00 34.19 4.18
2317 3238 2.050351 ACGGAGTGAAGACGTGCG 60.050 61.111 0.00 0.00 42.51 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 4.523173 TGTGACTAGGAACACTACTCAAGG 59.477 45.833 14.57 0.00 37.81 3.61
214 215 0.340908 GTAACCCCCAGTCCTCCCTA 59.659 60.000 0.00 0.00 0.00 3.53
309 311 6.975197 TCAGATACTTTGCTCTAATCAACTCG 59.025 38.462 0.00 0.00 0.00 4.18
491 493 7.042797 TGAGGAAAAATCAAACAAAGAGGAG 57.957 36.000 0.00 0.00 0.00 3.69
492 494 7.506938 AGATGAGGAAAAATCAAACAAAGAGGA 59.493 33.333 0.00 0.00 0.00 3.71
702 705 7.993183 AGAGATTTAATGGAAAAGCTATCGGAA 59.007 33.333 0.00 0.00 35.34 4.30
921 924 8.925700 GCTAAGGAACAAGTGAAAAATAAATGG 58.074 33.333 0.00 0.00 0.00 3.16
934 937 5.071923 ACAGGAACTTAGCTAAGGAACAAGT 59.928 40.000 31.67 20.71 34.60 3.16
960 963 6.389869 TCCCTAGAGAACATCCCACAATATTT 59.610 38.462 0.00 0.00 0.00 1.40
976 979 0.184933 GCTCTCTGGCTCCCTAGAGA 59.815 60.000 14.99 10.67 45.20 3.10
1180 1185 6.761312 TCTGCAAATTTTTCCATGAGTCAAT 58.239 32.000 0.00 0.00 0.00 2.57
1296 1301 5.048504 GCTTCACAAAATCCTTCTCACATGA 60.049 40.000 0.00 0.00 0.00 3.07
1513 1522 5.104610 ACATCATTGATCTAGAAGCCACACT 60.105 40.000 0.00 0.00 0.00 3.55
1633 1643 6.703319 TGGTAAAGATAAGTTGAATGTCGGA 58.297 36.000 0.00 0.00 0.00 4.55
1716 2632 5.304686 AGAAGTGGTTGGTTGTATGAGAA 57.695 39.130 0.00 0.00 0.00 2.87
1736 2652 7.581213 ATGTAATGAAACAGACCAAACAAGA 57.419 32.000 0.00 0.00 31.70 3.02
1814 2730 3.317149 GCAGAGCCATGATTTGAGCATAA 59.683 43.478 0.00 0.00 0.00 1.90
1834 2750 4.486125 TTGCTAGAACATGTAGGATGCA 57.514 40.909 0.00 4.08 33.12 3.96
1844 2760 6.172136 AGCTCATAGTCATTGCTAGAACAT 57.828 37.500 0.00 0.00 31.71 2.71
1845 2761 5.604758 AGCTCATAGTCATTGCTAGAACA 57.395 39.130 0.00 0.00 31.71 3.18
1846 2762 6.200665 CAGAAGCTCATAGTCATTGCTAGAAC 59.799 42.308 0.00 0.00 33.28 3.01
1847 2763 6.279123 CAGAAGCTCATAGTCATTGCTAGAA 58.721 40.000 0.00 0.00 33.28 2.10
1848 2764 5.221402 CCAGAAGCTCATAGTCATTGCTAGA 60.221 44.000 0.00 0.00 33.28 2.43
1849 2765 4.989797 CCAGAAGCTCATAGTCATTGCTAG 59.010 45.833 0.00 0.00 33.28 3.42
1851 2767 3.199508 ACCAGAAGCTCATAGTCATTGCT 59.800 43.478 0.00 0.00 35.30 3.91
1852 2768 3.539604 ACCAGAAGCTCATAGTCATTGC 58.460 45.455 0.00 0.00 0.00 3.56
1853 2769 4.763073 TGACCAGAAGCTCATAGTCATTG 58.237 43.478 5.72 0.00 29.75 2.82
1855 2771 4.285020 TCTGACCAGAAGCTCATAGTCAT 58.715 43.478 9.27 0.00 34.06 3.06
1856 2772 3.701664 TCTGACCAGAAGCTCATAGTCA 58.298 45.455 8.70 8.70 33.91 3.41
1857 2773 4.727507 TTCTGACCAGAAGCTCATAGTC 57.272 45.455 8.27 0.00 42.06 2.59
1870 2788 6.430925 CCTTTCAGTAACATTGATTCTGACCA 59.569 38.462 3.30 0.00 35.36 4.02
1876 2794 6.808704 GGAAAGCCTTTCAGTAACATTGATTC 59.191 38.462 18.33 0.00 41.43 2.52
1895 2813 5.157067 GCAGTAAGTTTCATTGAGGAAAGC 58.843 41.667 0.00 0.00 37.44 3.51
1903 2821 4.619973 TGGCTTTGCAGTAAGTTTCATTG 58.380 39.130 0.36 0.00 0.00 2.82
1906 2824 3.066621 CACTGGCTTTGCAGTAAGTTTCA 59.933 43.478 0.36 0.00 0.00 2.69
1924 2842 4.193865 TGGCATACATGATTCACTCACTG 58.806 43.478 0.00 0.00 36.48 3.66
1925 2843 4.492494 TGGCATACATGATTCACTCACT 57.508 40.909 0.00 0.00 36.48 3.41
1959 2877 7.913674 GGAATTGCCTGGTCTTCTTATATAG 57.086 40.000 0.00 0.00 0.00 1.31
2020 2941 6.816640 CGTCCCTGACATCTATGTTCTAAAAA 59.183 38.462 0.00 0.00 41.95 1.94
2021 2942 6.070995 ACGTCCCTGACATCTATGTTCTAAAA 60.071 38.462 0.00 0.00 41.95 1.52
2022 2943 5.421056 ACGTCCCTGACATCTATGTTCTAAA 59.579 40.000 0.00 0.00 41.95 1.85
2023 2944 4.954202 ACGTCCCTGACATCTATGTTCTAA 59.046 41.667 0.00 0.00 41.95 2.10
2024 2945 4.533815 ACGTCCCTGACATCTATGTTCTA 58.466 43.478 0.00 0.00 41.95 2.10
2025 2946 3.366396 ACGTCCCTGACATCTATGTTCT 58.634 45.455 0.00 0.00 41.95 3.01
2026 2947 3.491104 GGACGTCCCTGACATCTATGTTC 60.491 52.174 24.75 0.00 41.95 3.18
2027 2948 2.431057 GGACGTCCCTGACATCTATGTT 59.569 50.000 24.75 0.00 41.95 2.71
2028 2949 2.032620 GGACGTCCCTGACATCTATGT 58.967 52.381 24.75 0.00 45.16 2.29
2029 2950 1.001268 CGGACGTCCCTGACATCTATG 60.001 57.143 28.52 6.17 32.09 2.23
2030 2951 1.319541 CGGACGTCCCTGACATCTAT 58.680 55.000 28.52 0.00 32.09 1.98
2031 2952 0.750546 CCGGACGTCCCTGACATCTA 60.751 60.000 28.52 0.00 32.09 1.98
2032 2953 2.052690 CCGGACGTCCCTGACATCT 61.053 63.158 28.52 0.00 32.09 2.90
2033 2954 2.494918 CCGGACGTCCCTGACATC 59.505 66.667 28.52 1.35 32.09 3.06
2034 2955 3.771160 GCCGGACGTCCCTGACAT 61.771 66.667 28.52 0.00 32.09 3.06
2035 2956 4.988716 AGCCGGACGTCCCTGACA 62.989 66.667 28.52 0.00 32.09 3.58
2036 2957 1.880819 TAAAGCCGGACGTCCCTGAC 61.881 60.000 28.52 14.97 0.00 3.51
2037 2958 1.186917 TTAAAGCCGGACGTCCCTGA 61.187 55.000 28.52 9.86 0.00 3.86
2038 2959 0.320946 TTTAAAGCCGGACGTCCCTG 60.321 55.000 28.52 20.26 0.00 4.45
2039 2960 0.616891 ATTTAAAGCCGGACGTCCCT 59.383 50.000 28.52 17.77 0.00 4.20
2040 2961 1.456296 AATTTAAAGCCGGACGTCCC 58.544 50.000 28.52 15.65 0.00 4.46
2041 2962 4.888038 ATTAATTTAAAGCCGGACGTCC 57.112 40.909 25.28 25.28 0.00 4.79
2042 2963 7.887752 CTTTATTAATTTAAAGCCGGACGTC 57.112 36.000 5.05 7.13 33.69 4.34
2053 2974 9.362151 CCTATGTGGAGGGCTTTATTAATTTAA 57.638 33.333 0.00 0.00 38.35 1.52
2054 2975 7.450323 GCCTATGTGGAGGGCTTTATTAATTTA 59.550 37.037 0.00 0.00 42.31 1.40
2055 2976 6.267699 GCCTATGTGGAGGGCTTTATTAATTT 59.732 38.462 0.00 0.00 42.31 1.82
2056 2977 5.775195 GCCTATGTGGAGGGCTTTATTAATT 59.225 40.000 0.00 0.00 42.31 1.40
2057 2978 5.162991 TGCCTATGTGGAGGGCTTTATTAAT 60.163 40.000 0.00 0.00 45.45 1.40
2058 2979 4.167113 TGCCTATGTGGAGGGCTTTATTAA 59.833 41.667 0.00 0.00 45.45 1.40
2059 2980 3.719479 TGCCTATGTGGAGGGCTTTATTA 59.281 43.478 0.00 0.00 45.45 0.98
2060 2981 2.513738 TGCCTATGTGGAGGGCTTTATT 59.486 45.455 0.00 0.00 45.45 1.40
2061 2982 2.107204 CTGCCTATGTGGAGGGCTTTAT 59.893 50.000 0.00 0.00 45.45 1.40
2062 2983 1.490490 CTGCCTATGTGGAGGGCTTTA 59.510 52.381 0.00 0.00 45.45 1.85
2063 2984 0.257039 CTGCCTATGTGGAGGGCTTT 59.743 55.000 0.00 0.00 45.45 3.51
2064 2985 1.918253 CTGCCTATGTGGAGGGCTT 59.082 57.895 0.00 0.00 45.45 4.35
2065 2986 2.750657 GCTGCCTATGTGGAGGGCT 61.751 63.158 0.00 0.00 45.45 5.19
2066 2987 2.203266 GCTGCCTATGTGGAGGGC 60.203 66.667 0.00 0.00 45.45 5.19
2067 2988 2.109799 CGCTGCCTATGTGGAGGG 59.890 66.667 0.00 0.00 37.06 4.30
2068 2989 1.522355 CACGCTGCCTATGTGGAGG 60.522 63.158 0.00 0.00 39.88 4.30
2069 2990 2.176273 GCACGCTGCCTATGTGGAG 61.176 63.158 7.36 0.00 37.42 3.86
2070 2991 2.125147 GCACGCTGCCTATGTGGA 60.125 61.111 7.36 0.00 37.42 4.02
2071 2992 2.436469 TGCACGCTGCCTATGTGG 60.436 61.111 7.36 0.00 44.23 4.17
2072 2993 1.576451 TTGTGCACGCTGCCTATGTG 61.576 55.000 13.13 0.00 44.23 3.21
2073 2994 0.888736 TTTGTGCACGCTGCCTATGT 60.889 50.000 13.13 0.00 44.23 2.29
2074 2995 0.454957 GTTTGTGCACGCTGCCTATG 60.455 55.000 13.13 0.00 44.23 2.23
2075 2996 0.888736 TGTTTGTGCACGCTGCCTAT 60.889 50.000 13.13 0.00 44.23 2.57
2076 2997 1.506309 CTGTTTGTGCACGCTGCCTA 61.506 55.000 13.13 0.00 44.23 3.93
2077 2998 2.828095 TGTTTGTGCACGCTGCCT 60.828 55.556 13.13 0.00 44.23 4.75
2078 2999 2.335052 TTCTGTTTGTGCACGCTGCC 62.335 55.000 13.13 0.00 44.23 4.85
2079 3000 1.063972 TTCTGTTTGTGCACGCTGC 59.936 52.632 13.13 3.01 45.29 5.25
2080 3001 0.098552 TGTTCTGTTTGTGCACGCTG 59.901 50.000 13.13 9.07 0.00 5.18
2081 3002 0.378257 CTGTTCTGTTTGTGCACGCT 59.622 50.000 13.13 0.00 0.00 5.07
2082 3003 0.376852 TCTGTTCTGTTTGTGCACGC 59.623 50.000 13.13 5.65 0.00 5.34
2083 3004 1.268032 GGTCTGTTCTGTTTGTGCACG 60.268 52.381 13.13 0.00 0.00 5.34
2084 3005 1.742831 TGGTCTGTTCTGTTTGTGCAC 59.257 47.619 10.75 10.75 0.00 4.57
2085 3006 2.121291 TGGTCTGTTCTGTTTGTGCA 57.879 45.000 0.00 0.00 0.00 4.57
2086 3007 3.179048 GTTTGGTCTGTTCTGTTTGTGC 58.821 45.455 0.00 0.00 0.00 4.57
2087 3008 4.155826 TCTGTTTGGTCTGTTCTGTTTGTG 59.844 41.667 0.00 0.00 0.00 3.33
2088 3009 4.156008 GTCTGTTTGGTCTGTTCTGTTTGT 59.844 41.667 0.00 0.00 0.00 2.83
2089 3010 4.662145 GTCTGTTTGGTCTGTTCTGTTTG 58.338 43.478 0.00 0.00 0.00 2.93
2090 3011 3.374058 CGTCTGTTTGGTCTGTTCTGTTT 59.626 43.478 0.00 0.00 0.00 2.83
2091 3012 2.936498 CGTCTGTTTGGTCTGTTCTGTT 59.064 45.455 0.00 0.00 0.00 3.16
2092 3013 2.550978 CGTCTGTTTGGTCTGTTCTGT 58.449 47.619 0.00 0.00 0.00 3.41
2093 3014 1.867233 CCGTCTGTTTGGTCTGTTCTG 59.133 52.381 0.00 0.00 0.00 3.02
2094 3015 1.760613 TCCGTCTGTTTGGTCTGTTCT 59.239 47.619 0.00 0.00 0.00 3.01
2095 3016 2.234300 TCCGTCTGTTTGGTCTGTTC 57.766 50.000 0.00 0.00 0.00 3.18
2096 3017 2.285977 GTTCCGTCTGTTTGGTCTGTT 58.714 47.619 0.00 0.00 0.00 3.16
2097 3018 1.474498 GGTTCCGTCTGTTTGGTCTGT 60.474 52.381 0.00 0.00 0.00 3.41
2098 3019 1.226746 GGTTCCGTCTGTTTGGTCTG 58.773 55.000 0.00 0.00 0.00 3.51
2099 3020 0.249741 CGGTTCCGTCTGTTTGGTCT 60.250 55.000 2.82 0.00 0.00 3.85
2100 3021 0.249573 TCGGTTCCGTCTGTTTGGTC 60.250 55.000 11.04 0.00 0.00 4.02
2101 3022 0.178533 TTCGGTTCCGTCTGTTTGGT 59.821 50.000 11.04 0.00 0.00 3.67
2102 3023 0.865769 CTTCGGTTCCGTCTGTTTGG 59.134 55.000 11.04 0.00 0.00 3.28
2103 3024 0.234884 GCTTCGGTTCCGTCTGTTTG 59.765 55.000 11.04 0.00 0.00 2.93
2104 3025 0.106149 AGCTTCGGTTCCGTCTGTTT 59.894 50.000 11.04 0.00 0.00 2.83
2105 3026 0.963962 TAGCTTCGGTTCCGTCTGTT 59.036 50.000 11.04 3.97 0.00 3.16
2106 3027 0.526662 CTAGCTTCGGTTCCGTCTGT 59.473 55.000 11.04 0.00 0.00 3.41
2107 3028 0.526662 ACTAGCTTCGGTTCCGTCTG 59.473 55.000 11.04 4.30 0.00 3.51
2108 3029 0.810016 GACTAGCTTCGGTTCCGTCT 59.190 55.000 11.04 9.19 0.00 4.18
2109 3030 0.524862 TGACTAGCTTCGGTTCCGTC 59.475 55.000 11.04 0.58 0.00 4.79
2110 3031 0.243095 GTGACTAGCTTCGGTTCCGT 59.757 55.000 11.04 0.00 0.00 4.69
2111 3032 0.458025 GGTGACTAGCTTCGGTTCCG 60.458 60.000 4.74 4.74 0.00 4.30
2112 3033 0.108281 GGGTGACTAGCTTCGGTTCC 60.108 60.000 0.00 0.00 0.00 3.62
2113 3034 0.606604 TGGGTGACTAGCTTCGGTTC 59.393 55.000 0.00 0.00 0.00 3.62
2114 3035 1.002087 CTTGGGTGACTAGCTTCGGTT 59.998 52.381 0.00 0.00 0.00 4.44
2115 3036 0.608640 CTTGGGTGACTAGCTTCGGT 59.391 55.000 0.00 0.00 0.00 4.69
2116 3037 0.608640 ACTTGGGTGACTAGCTTCGG 59.391 55.000 0.00 0.00 0.00 4.30
2117 3038 2.028930 AGAACTTGGGTGACTAGCTTCG 60.029 50.000 0.00 0.00 0.00 3.79
2118 3039 3.686916 AGAACTTGGGTGACTAGCTTC 57.313 47.619 0.00 0.00 0.00 3.86
2119 3040 4.020128 CCTTAGAACTTGGGTGACTAGCTT 60.020 45.833 0.00 0.00 0.00 3.74
2120 3041 3.515901 CCTTAGAACTTGGGTGACTAGCT 59.484 47.826 0.00 0.00 0.00 3.32
2121 3042 3.863041 CCTTAGAACTTGGGTGACTAGC 58.137 50.000 0.00 0.00 0.00 3.42
2122 3043 3.260884 TGCCTTAGAACTTGGGTGACTAG 59.739 47.826 0.00 0.00 0.00 2.57
2123 3044 3.244582 TGCCTTAGAACTTGGGTGACTA 58.755 45.455 0.00 0.00 0.00 2.59
2124 3045 2.054799 TGCCTTAGAACTTGGGTGACT 58.945 47.619 0.00 0.00 0.00 3.41
2125 3046 2.561478 TGCCTTAGAACTTGGGTGAC 57.439 50.000 0.00 0.00 0.00 3.67
2126 3047 2.879756 GCATGCCTTAGAACTTGGGTGA 60.880 50.000 6.36 0.00 0.00 4.02
2127 3048 1.474077 GCATGCCTTAGAACTTGGGTG 59.526 52.381 6.36 0.00 0.00 4.61
2128 3049 1.616994 GGCATGCCTTAGAACTTGGGT 60.617 52.381 29.98 0.00 0.00 4.51
2129 3050 1.106285 GGCATGCCTTAGAACTTGGG 58.894 55.000 29.98 0.00 0.00 4.12
2130 3051 1.474077 GTGGCATGCCTTAGAACTTGG 59.526 52.381 35.53 0.00 36.94 3.61
2131 3052 2.161855 TGTGGCATGCCTTAGAACTTG 58.838 47.619 35.53 0.00 36.94 3.16
2132 3053 2.584835 TGTGGCATGCCTTAGAACTT 57.415 45.000 35.53 0.00 36.94 2.66
2133 3054 2.584835 TTGTGGCATGCCTTAGAACT 57.415 45.000 35.53 0.00 36.94 3.01
2134 3055 3.578688 CTTTTGTGGCATGCCTTAGAAC 58.421 45.455 35.53 25.01 36.94 3.01
2135 3056 2.562298 CCTTTTGTGGCATGCCTTAGAA 59.438 45.455 35.53 22.81 36.94 2.10
2136 3057 2.170166 CCTTTTGTGGCATGCCTTAGA 58.830 47.619 35.53 17.63 36.94 2.10
2137 3058 2.660189 CCTTTTGTGGCATGCCTTAG 57.340 50.000 35.53 22.78 36.94 2.18
2147 3068 1.008995 CCGTCGTTGCCTTTTGTGG 60.009 57.895 0.00 0.00 0.00 4.17
2148 3069 1.657181 GCCGTCGTTGCCTTTTGTG 60.657 57.895 0.00 0.00 0.00 3.33
2149 3070 2.719354 GCCGTCGTTGCCTTTTGT 59.281 55.556 0.00 0.00 0.00 2.83
2150 3071 2.381665 TTCGCCGTCGTTGCCTTTTG 62.382 55.000 0.00 0.00 36.96 2.44
2151 3072 1.716826 TTTCGCCGTCGTTGCCTTTT 61.717 50.000 0.00 0.00 36.96 2.27
2152 3073 1.512156 ATTTCGCCGTCGTTGCCTTT 61.512 50.000 0.00 0.00 36.96 3.11
2153 3074 0.671163 TATTTCGCCGTCGTTGCCTT 60.671 50.000 0.00 0.00 36.96 4.35
2154 3075 0.671163 TTATTTCGCCGTCGTTGCCT 60.671 50.000 0.00 0.00 36.96 4.75
2155 3076 0.166379 TTTATTTCGCCGTCGTTGCC 59.834 50.000 0.00 0.00 36.96 4.52
2156 3077 1.136169 ACTTTATTTCGCCGTCGTTGC 60.136 47.619 0.00 0.00 36.96 4.17
2157 3078 2.492001 CACTTTATTTCGCCGTCGTTG 58.508 47.619 0.00 0.00 36.96 4.10
2158 3079 1.136169 GCACTTTATTTCGCCGTCGTT 60.136 47.619 0.00 0.00 36.96 3.85
2159 3080 0.441145 GCACTTTATTTCGCCGTCGT 59.559 50.000 0.00 0.00 36.96 4.34
2160 3081 0.440758 TGCACTTTATTTCGCCGTCG 59.559 50.000 0.00 0.00 0.00 5.12
2161 3082 2.825086 ATGCACTTTATTTCGCCGTC 57.175 45.000 0.00 0.00 0.00 4.79
2162 3083 3.437395 TGTAATGCACTTTATTTCGCCGT 59.563 39.130 0.00 0.00 0.00 5.68
2163 3084 4.009798 TGTAATGCACTTTATTTCGCCG 57.990 40.909 0.00 0.00 0.00 6.46
2164 3085 4.739716 CCATGTAATGCACTTTATTTCGCC 59.260 41.667 0.00 0.00 44.97 5.54
2165 3086 4.207019 GCCATGTAATGCACTTTATTTCGC 59.793 41.667 0.00 0.00 44.97 4.70
2166 3087 5.339177 TGCCATGTAATGCACTTTATTTCG 58.661 37.500 0.00 0.00 44.97 3.46
2167 3088 7.115378 GCTATGCCATGTAATGCACTTTATTTC 59.885 37.037 0.00 0.00 44.97 2.17
2168 3089 6.925165 GCTATGCCATGTAATGCACTTTATTT 59.075 34.615 0.00 0.00 44.97 1.40
2169 3090 6.449698 GCTATGCCATGTAATGCACTTTATT 58.550 36.000 0.00 0.00 44.97 1.40
2170 3091 6.017400 GCTATGCCATGTAATGCACTTTAT 57.983 37.500 0.00 0.00 44.97 1.40
2171 3092 5.437289 GCTATGCCATGTAATGCACTTTA 57.563 39.130 0.00 0.00 44.97 1.85
2172 3093 4.311816 GCTATGCCATGTAATGCACTTT 57.688 40.909 0.00 0.00 44.97 2.66
2173 3094 3.996150 GCTATGCCATGTAATGCACTT 57.004 42.857 0.00 0.00 44.97 3.16
2187 3108 1.064060 CGTTAGTTTGGCTGGCTATGC 59.936 52.381 2.00 0.00 0.00 3.14
2188 3109 2.609459 CTCGTTAGTTTGGCTGGCTATG 59.391 50.000 2.00 0.00 0.00 2.23
2189 3110 2.236395 ACTCGTTAGTTTGGCTGGCTAT 59.764 45.455 2.00 0.00 29.00 2.97
2190 3111 1.621814 ACTCGTTAGTTTGGCTGGCTA 59.378 47.619 2.00 0.00 29.00 3.93
2191 3112 0.396811 ACTCGTTAGTTTGGCTGGCT 59.603 50.000 2.00 0.00 29.00 4.75
2192 3113 0.517316 CACTCGTTAGTTTGGCTGGC 59.483 55.000 0.00 0.00 31.97 4.85
2193 3114 0.517316 GCACTCGTTAGTTTGGCTGG 59.483 55.000 0.00 0.00 31.97 4.85
2194 3115 0.163788 CGCACTCGTTAGTTTGGCTG 59.836 55.000 0.00 0.00 31.97 4.85
2195 3116 1.566018 GCGCACTCGTTAGTTTGGCT 61.566 55.000 0.30 0.00 38.14 4.75
2196 3117 1.154469 GCGCACTCGTTAGTTTGGC 60.154 57.895 0.30 0.00 38.14 4.52
2197 3118 0.163788 CTGCGCACTCGTTAGTTTGG 59.836 55.000 5.66 0.00 38.14 3.28
2198 3119 0.163788 CCTGCGCACTCGTTAGTTTG 59.836 55.000 5.66 0.00 38.14 2.93
2199 3120 1.566018 GCCTGCGCACTCGTTAGTTT 61.566 55.000 5.66 0.00 38.14 2.66
2200 3121 2.027625 GCCTGCGCACTCGTTAGTT 61.028 57.895 5.66 0.00 38.14 2.24
2201 3122 2.432628 GCCTGCGCACTCGTTAGT 60.433 61.111 5.66 0.00 38.14 2.24
2202 3123 2.125912 AGCCTGCGCACTCGTTAG 60.126 61.111 5.66 0.00 37.52 2.34
2203 3124 2.126071 GAGCCTGCGCACTCGTTA 60.126 61.111 5.66 0.00 37.52 3.18
2222 3143 1.338107 CTTTTGGTCTTGGGTTCCCC 58.662 55.000 5.34 0.00 45.71 4.81
2223 3144 1.133294 TCCTTTTGGTCTTGGGTTCCC 60.133 52.381 0.12 0.12 41.38 3.97
2224 3145 1.961394 GTCCTTTTGGTCTTGGGTTCC 59.039 52.381 0.00 0.00 41.38 3.62
2225 3146 2.623416 CAGTCCTTTTGGTCTTGGGTTC 59.377 50.000 0.00 0.00 41.38 3.62
2226 3147 2.666317 CAGTCCTTTTGGTCTTGGGTT 58.334 47.619 0.00 0.00 41.38 4.11
2227 3148 1.754201 GCAGTCCTTTTGGTCTTGGGT 60.754 52.381 0.00 0.00 41.38 4.51
2228 3149 0.961753 GCAGTCCTTTTGGTCTTGGG 59.038 55.000 0.00 0.00 41.38 4.12
2229 3150 0.961753 GGCAGTCCTTTTGGTCTTGG 59.038 55.000 0.00 0.00 41.38 3.61
2230 3151 0.961753 GGGCAGTCCTTTTGGTCTTG 59.038 55.000 0.00 0.00 41.38 3.02
2231 3152 0.555769 TGGGCAGTCCTTTTGGTCTT 59.444 50.000 0.00 0.00 41.38 3.01
2232 3153 0.779997 ATGGGCAGTCCTTTTGGTCT 59.220 50.000 0.00 0.00 41.38 3.85
2233 3154 1.177401 GATGGGCAGTCCTTTTGGTC 58.823 55.000 0.00 0.00 41.38 4.02
2234 3155 0.251787 GGATGGGCAGTCCTTTTGGT 60.252 55.000 0.00 0.00 41.38 3.67
2235 3156 0.972471 GGGATGGGCAGTCCTTTTGG 60.972 60.000 7.25 0.00 42.21 3.28
2236 3157 0.040204 AGGGATGGGCAGTCCTTTTG 59.960 55.000 7.25 0.00 36.00 2.44
2237 3158 1.681229 TAGGGATGGGCAGTCCTTTT 58.319 50.000 7.25 0.00 36.00 2.27
2238 3159 1.496429 CATAGGGATGGGCAGTCCTTT 59.504 52.381 7.25 0.48 36.00 3.11
2239 3160 1.143813 CATAGGGATGGGCAGTCCTT 58.856 55.000 7.25 2.85 36.00 3.36
2240 3161 0.268869 TCATAGGGATGGGCAGTCCT 59.731 55.000 7.25 1.10 36.00 3.85
2241 3162 0.689623 CTCATAGGGATGGGCAGTCC 59.310 60.000 0.00 0.00 33.49 3.85
2242 3163 0.689623 CCTCATAGGGATGGGCAGTC 59.310 60.000 0.00 0.00 31.42 3.51
2243 3164 1.422161 GCCTCATAGGGATGGGCAGT 61.422 60.000 10.64 0.00 43.52 4.40
2244 3165 1.377994 GCCTCATAGGGATGGGCAG 59.622 63.158 10.64 0.00 43.52 4.85
2245 3166 3.580084 GCCTCATAGGGATGGGCA 58.420 61.111 10.64 0.00 43.52 5.36
2246 3167 1.377994 CTGCCTCATAGGGATGGGC 59.622 63.158 9.28 9.28 43.95 5.36
2247 3168 1.377994 GCTGCCTCATAGGGATGGG 59.622 63.158 0.00 0.00 34.27 4.00
2248 3169 0.475475 TTGCTGCCTCATAGGGATGG 59.525 55.000 0.00 0.00 34.27 3.51
2249 3170 1.952296 GTTTGCTGCCTCATAGGGATG 59.048 52.381 0.00 0.00 34.27 3.51
2250 3171 1.475751 CGTTTGCTGCCTCATAGGGAT 60.476 52.381 0.00 0.00 34.27 3.85
2251 3172 0.107703 CGTTTGCTGCCTCATAGGGA 60.108 55.000 0.00 0.00 35.37 4.20
2252 3173 1.097547 CCGTTTGCTGCCTCATAGGG 61.098 60.000 0.00 0.00 35.37 3.53
2253 3174 0.107703 TCCGTTTGCTGCCTCATAGG 60.108 55.000 0.00 0.00 38.80 2.57
2254 3175 1.293924 CTCCGTTTGCTGCCTCATAG 58.706 55.000 0.00 0.00 0.00 2.23
2255 3176 0.107703 CCTCCGTTTGCTGCCTCATA 60.108 55.000 0.00 0.00 0.00 2.15
2256 3177 1.377725 CCTCCGTTTGCTGCCTCAT 60.378 57.895 0.00 0.00 0.00 2.90
2257 3178 1.476845 TACCTCCGTTTGCTGCCTCA 61.477 55.000 0.00 0.00 0.00 3.86
2258 3179 0.321298 TTACCTCCGTTTGCTGCCTC 60.321 55.000 0.00 0.00 0.00 4.70
2259 3180 0.605589 GTTACCTCCGTTTGCTGCCT 60.606 55.000 0.00 0.00 0.00 4.75
2260 3181 1.873863 GTTACCTCCGTTTGCTGCC 59.126 57.895 0.00 0.00 0.00 4.85
2261 3182 1.495951 CGTTACCTCCGTTTGCTGC 59.504 57.895 0.00 0.00 0.00 5.25
2262 3183 1.296056 CCCGTTACCTCCGTTTGCTG 61.296 60.000 0.00 0.00 0.00 4.41
2263 3184 1.004200 CCCGTTACCTCCGTTTGCT 60.004 57.895 0.00 0.00 0.00 3.91
2264 3185 2.036571 CCCCGTTACCTCCGTTTGC 61.037 63.158 0.00 0.00 0.00 3.68
2265 3186 2.036571 GCCCCGTTACCTCCGTTTG 61.037 63.158 0.00 0.00 0.00 2.93
2266 3187 2.176314 GAGCCCCGTTACCTCCGTTT 62.176 60.000 0.00 0.00 0.00 3.60
2267 3188 2.605601 AGCCCCGTTACCTCCGTT 60.606 61.111 0.00 0.00 0.00 4.44
2268 3189 3.073101 GAGCCCCGTTACCTCCGT 61.073 66.667 0.00 0.00 0.00 4.69
2269 3190 4.203076 CGAGCCCCGTTACCTCCG 62.203 72.222 0.00 0.00 0.00 4.63
2270 3191 2.757099 TCGAGCCCCGTTACCTCC 60.757 66.667 0.00 0.00 39.75 4.30
2271 3192 1.751927 TCTCGAGCCCCGTTACCTC 60.752 63.158 7.81 0.00 39.75 3.85
2272 3193 2.050934 GTCTCGAGCCCCGTTACCT 61.051 63.158 7.81 0.00 39.75 3.08
2273 3194 2.493501 GTCTCGAGCCCCGTTACC 59.506 66.667 7.81 0.00 39.75 2.85
2274 3195 2.101770 CGTCTCGAGCCCCGTTAC 59.898 66.667 7.81 0.00 39.75 2.50
2275 3196 3.818787 GCGTCTCGAGCCCCGTTA 61.819 66.667 7.81 0.00 39.75 3.18
2284 3205 2.163390 CGTCTACTCGGCGTCTCGA 61.163 63.158 6.85 0.00 37.60 4.04
2285 3206 2.320383 CGTCTACTCGGCGTCTCG 59.680 66.667 6.85 1.20 0.00 4.04
2286 3207 2.708255 CCGTCTACTCGGCGTCTC 59.292 66.667 6.85 0.00 43.96 3.36
2287 3208 2.518973 ACTCCGTCTACTCGGCGTCT 62.519 60.000 6.85 0.00 43.93 4.18
2288 3209 2.105466 ACTCCGTCTACTCGGCGTC 61.105 63.158 6.85 0.00 43.93 5.19
2293 3214 1.060842 CGTCTTCACTCCGTCTACTCG 59.939 57.143 0.00 0.00 0.00 4.18
2294 3215 2.075338 ACGTCTTCACTCCGTCTACTC 58.925 52.381 0.00 0.00 0.00 2.59
2295 3216 1.805345 CACGTCTTCACTCCGTCTACT 59.195 52.381 0.00 0.00 31.46 2.57
2296 3217 1.728502 GCACGTCTTCACTCCGTCTAC 60.729 57.143 0.00 0.00 31.46 2.59
2297 3218 0.520404 GCACGTCTTCACTCCGTCTA 59.480 55.000 0.00 0.00 31.46 2.59
2298 3219 1.286260 GCACGTCTTCACTCCGTCT 59.714 57.895 0.00 0.00 31.46 4.18
2299 3220 2.081212 CGCACGTCTTCACTCCGTC 61.081 63.158 0.00 0.00 31.46 4.79
2300 3221 2.050351 CGCACGTCTTCACTCCGT 60.050 61.111 0.00 0.00 34.71 4.69


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

AutoCloner maintained by Alex Coulton.