Multiple sequence alignment - TraesCS2D01G150900

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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 TraesCS2D01G150900 chr2D 100.000 2924 0 0 1 2924 93259984 93262907 0.000000e+00 5400.0
1 TraesCS2D01G150900 chr2D 81.034 812 136 8 974 1770 74774845 74774037 5.320000e-177 630.0
2 TraesCS2D01G150900 chr2D 84.314 204 16 7 2733 2924 14399237 14399436 4.980000e-43 185.0
3 TraesCS2D01G150900 chr2D 78.313 166 35 1 2759 2924 6459072 6458908 3.990000e-19 106.0
4 TraesCS2D01G150900 chr2A 95.703 1443 58 2 339 1780 90767977 90769416 0.000000e+00 2318.0
5 TraesCS2D01G150900 chr2A 91.033 513 38 6 1685 2196 90769477 90769982 0.000000e+00 686.0
6 TraesCS2D01G150900 chr2A 81.863 816 136 5 974 1780 73923107 73922295 0.000000e+00 676.0
7 TraesCS2D01G150900 chr2A 96.091 307 12 0 2226 2532 90769966 90770272 4.350000e-138 501.0
8 TraesCS2D01G150900 chr2A 85.583 326 21 8 1 326 90767695 90767994 4.700000e-83 318.0
9 TraesCS2D01G150900 chr2A 96.203 158 5 1 2547 2703 90770957 90771114 1.040000e-64 257.0
10 TraesCS2D01G150900 chr2A 88.542 192 22 0 2733 2924 715248728 715248537 1.750000e-57 233.0
11 TraesCS2D01G150900 chr2A 86.755 151 16 4 15 162 351660251 351660400 6.480000e-37 165.0
12 TraesCS2D01G150900 chr2A 85.811 148 17 4 10 154 24137589 24137735 1.400000e-33 154.0
13 TraesCS2D01G150900 chr2A 100.000 31 0 0 2701 2731 90771157 90771187 1.130000e-04 58.4
14 TraesCS2D01G150900 chr2B 92.879 1292 84 6 339 1627 145088025 145089311 0.000000e+00 1869.0
15 TraesCS2D01G150900 chr2B 82.674 733 108 12 1470 2196 145089305 145090024 1.480000e-177 632.0
16 TraesCS2D01G150900 chr2B 77.751 818 163 12 974 1780 113377754 113376945 4.380000e-133 484.0
17 TraesCS2D01G150900 chr2B 93.569 311 15 2 2226 2532 145090008 145090317 2.660000e-125 459.0
18 TraesCS2D01G150900 chr2B 93.678 174 10 1 1 173 145069012 145069185 2.890000e-65 259.0
19 TraesCS2D01G150900 chr2B 94.937 158 7 1 2547 2703 145090897 145091054 2.250000e-61 246.0
20 TraesCS2D01G150900 chr2B 91.720 157 9 2 170 326 145087890 145088042 6.350000e-52 215.0
21 TraesCS2D01G150900 chr2B 90.446 157 14 1 2734 2890 727221101 727220946 3.820000e-49 206.0
22 TraesCS2D01G150900 chr2B 81.065 169 20 9 724 890 113480092 113479934 1.100000e-24 124.0
23 TraesCS2D01G150900 chr2B 100.000 31 0 0 2701 2731 145091097 145091127 1.130000e-04 58.4
24 TraesCS2D01G150900 chr3B 93.229 192 12 1 2733 2924 741676984 741677174 6.170000e-72 281.0
25 TraesCS2D01G150900 chr3B 84.810 158 22 2 3 158 3244834 3244991 1.080000e-34 158.0
26 TraesCS2D01G150900 chr7A 89.119 193 21 0 2732 2924 608533308 608533500 1.050000e-59 241.0
27 TraesCS2D01G150900 chr7A 86.207 203 15 4 2733 2924 25704752 25704552 1.060000e-49 207.0
28 TraesCS2D01G150900 chr3A 91.720 157 13 0 2734 2890 739534288 739534444 4.910000e-53 219.0
29 TraesCS2D01G150900 chr3A 86.792 159 17 4 3 158 217786473 217786630 1.080000e-39 174.0
30 TraesCS2D01G150900 chr4D 82.902 193 30 3 2733 2924 418419140 418418950 1.390000e-38 171.0
31 TraesCS2D01G150900 chr5D 82.843 204 19 6 2733 2924 367989654 367989455 5.010000e-38 169.0
32 TraesCS2D01G150900 chr5D 82.266 203 20 7 2734 2924 106690090 106689892 8.390000e-36 161.0
33 TraesCS2D01G150900 chr4A 86.667 150 18 2 6 153 201593410 201593261 6.480000e-37 165.0
34 TraesCS2D01G150900 chr4A 84.516 155 20 4 3 154 35014665 35014818 1.820000e-32 150.0
35 TraesCS2D01G150900 chr3D 86.076 158 16 3 3 154 5509566 5509723 6.480000e-37 165.0
36 TraesCS2D01G150900 chr1B 84.375 160 16 7 6 158 506658680 506658523 6.530000e-32 148.0
37 TraesCS2D01G150900 chr6D 77.381 168 30 6 2759 2924 55678006 55678167 3.100000e-15 93.5


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 TraesCS2D01G150900 chr2D 93259984 93262907 2923 False 5400.000000 5400 100.000000 1 2924 1 chr2D.!!$F2 2923
1 TraesCS2D01G150900 chr2D 74774037 74774845 808 True 630.000000 630 81.034000 974 1770 1 chr2D.!!$R2 796
2 TraesCS2D01G150900 chr2A 90767695 90771187 3492 False 689.733333 2318 94.102167 1 2731 6 chr2A.!!$F3 2730
3 TraesCS2D01G150900 chr2A 73922295 73923107 812 True 676.000000 676 81.863000 974 1780 1 chr2A.!!$R1 806
4 TraesCS2D01G150900 chr2B 145087890 145091127 3237 False 579.900000 1869 92.629833 170 2731 6 chr2B.!!$F2 2561
5 TraesCS2D01G150900 chr2B 113376945 113377754 809 True 484.000000 484 77.751000 974 1780 1 chr2B.!!$R1 806

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
108 109 0.737219 CGGTGACCCTACGAGTAAGG 59.263 60.0 0.00 0.0 0.00 2.69 F
1230 1235 0.541392 AGAACATGCCGGACATAGCA 59.459 50.0 5.05 0.0 44.45 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1337 1342 0.034670 GGCCTTGTGCAGAAGGATCT 60.035 55.0 39.03 0.00 44.87 2.75 R
2856 3791 0.035458 CAGTAATCCGGGCCTGATCC 59.965 60.0 15.09 5.33 0.00 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
27 28 1.442148 GTTAGCTGGCGAGTAGGGG 59.558 63.158 0.00 0.00 0.00 4.79
28 29 1.760875 TTAGCTGGCGAGTAGGGGG 60.761 63.158 0.00 0.00 0.00 5.40
46 47 7.967747 AGTAGGGGGTAATAGGATAATCAACAT 59.032 37.037 0.00 0.00 0.00 2.71
92 93 4.602340 ATCAATTTATCGGCTACTCGGT 57.398 40.909 0.00 0.00 0.00 4.69
93 94 3.713288 TCAATTTATCGGCTACTCGGTG 58.287 45.455 0.00 0.00 0.00 4.94
95 96 2.857592 TTTATCGGCTACTCGGTGAC 57.142 50.000 0.00 0.00 0.00 3.67
96 97 1.027357 TTATCGGCTACTCGGTGACC 58.973 55.000 0.00 0.00 0.00 4.02
97 98 0.820891 TATCGGCTACTCGGTGACCC 60.821 60.000 0.00 0.00 0.00 4.46
98 99 2.569218 ATCGGCTACTCGGTGACCCT 62.569 60.000 0.00 0.00 0.00 4.34
99 100 1.452651 CGGCTACTCGGTGACCCTA 60.453 63.158 0.00 0.00 0.00 3.53
100 101 1.722636 CGGCTACTCGGTGACCCTAC 61.723 65.000 0.00 0.00 0.00 3.18
101 102 1.722636 GGCTACTCGGTGACCCTACG 61.723 65.000 0.00 0.00 0.00 3.51
102 103 0.745845 GCTACTCGGTGACCCTACGA 60.746 60.000 0.00 0.00 35.14 3.43
104 105 4.315588 CTCGGTGACCCTACGAGT 57.684 61.111 0.00 0.00 46.43 4.18
105 106 3.465990 CTCGGTGACCCTACGAGTA 57.534 57.895 0.00 0.00 46.43 2.59
106 107 1.742761 CTCGGTGACCCTACGAGTAA 58.257 55.000 0.00 0.00 46.43 2.24
107 108 1.669779 CTCGGTGACCCTACGAGTAAG 59.330 57.143 0.00 0.00 46.43 2.34
108 109 0.737219 CGGTGACCCTACGAGTAAGG 59.263 60.000 0.00 0.00 0.00 2.69
109 110 1.679944 CGGTGACCCTACGAGTAAGGA 60.680 57.143 5.01 0.00 0.00 3.36
110 111 2.664015 GGTGACCCTACGAGTAAGGAT 58.336 52.381 5.01 0.00 0.00 3.24
111 112 3.029570 GGTGACCCTACGAGTAAGGATT 58.970 50.000 5.01 0.00 0.00 3.01
112 113 4.210331 GGTGACCCTACGAGTAAGGATTA 58.790 47.826 5.01 0.00 0.00 1.75
113 114 4.646492 GGTGACCCTACGAGTAAGGATTAA 59.354 45.833 5.01 0.00 28.70 1.40
114 115 5.303845 GGTGACCCTACGAGTAAGGATTAAT 59.696 44.000 5.01 0.00 28.70 1.40
115 116 6.183360 GGTGACCCTACGAGTAAGGATTAATT 60.183 42.308 5.01 0.00 28.70 1.40
116 117 6.700520 GTGACCCTACGAGTAAGGATTAATTG 59.299 42.308 5.01 0.00 36.19 2.32
117 118 6.170846 ACCCTACGAGTAAGGATTAATTGG 57.829 41.667 5.01 0.00 34.48 3.16
118 119 4.995487 CCCTACGAGTAAGGATTAATTGGC 59.005 45.833 0.00 0.00 34.48 4.52
119 120 5.454187 CCCTACGAGTAAGGATTAATTGGCA 60.454 44.000 0.00 0.00 34.48 4.92
120 121 6.053005 CCTACGAGTAAGGATTAATTGGCAA 58.947 40.000 0.68 0.68 34.48 4.52
121 122 6.202954 CCTACGAGTAAGGATTAATTGGCAAG 59.797 42.308 5.96 0.00 34.48 4.01
130 131 6.016555 AGGATTAATTGGCAAGTAACTGGTT 58.983 36.000 20.80 6.27 0.00 3.67
150 151 7.176690 ACTGGTTAATTGGACGAATTCTTGAAT 59.823 33.333 3.52 0.00 35.74 2.57
152 153 8.673711 TGGTTAATTGGACGAATTCTTGAATAG 58.326 33.333 3.52 0.00 35.74 1.73
313 314 6.478344 TGCATGATAAATTCGGGTTTAATTGC 59.522 34.615 0.00 12.77 32.88 3.56
314 315 6.701400 GCATGATAAATTCGGGTTTAATTGCT 59.299 34.615 0.00 0.00 31.39 3.91
315 316 7.224557 GCATGATAAATTCGGGTTTAATTGCTT 59.775 33.333 0.00 0.00 31.39 3.91
316 317 9.743057 CATGATAAATTCGGGTTTAATTGCTTA 57.257 29.630 0.00 0.00 0.00 3.09
501 502 8.638565 CACCAACTTTAGAGAAAATTAAATGCG 58.361 33.333 0.00 0.00 0.00 4.73
844 845 3.844211 CCGATCCTCCCCTATAAATCCAA 59.156 47.826 0.00 0.00 0.00 3.53
933 934 1.272554 ACCCATCGTCCTCCCTTTCC 61.273 60.000 0.00 0.00 0.00 3.13
1046 1051 2.621055 GGTACATTGGCAACTCAACACA 59.379 45.455 0.00 0.00 37.61 3.72
1227 1232 2.779755 ACAAGAACATGCCGGACATA 57.220 45.000 5.05 0.00 36.64 2.29
1230 1235 0.541392 AGAACATGCCGGACATAGCA 59.459 50.000 5.05 0.00 44.45 3.49
1337 1342 1.514087 GTGAGGACCGCGATACCAA 59.486 57.895 8.23 0.00 0.00 3.67
1526 1531 4.530857 CATGGGCCCTCCGTCGAC 62.531 72.222 25.70 5.18 38.76 4.20
1576 1581 1.078567 CAGCCAGAGGTCTTCCAGC 60.079 63.158 0.00 0.00 35.89 4.85
1577 1582 1.537397 AGCCAGAGGTCTTCCAGCA 60.537 57.895 0.00 0.00 35.89 4.41
1578 1583 1.078567 GCCAGAGGTCTTCCAGCAG 60.079 63.158 0.00 0.00 35.89 4.24
1617 1622 2.740714 GAGCAACGTCGACATGGGC 61.741 63.158 17.16 12.82 0.00 5.36
1638 1643 2.827800 ATCTGCCGACATATCAGGTG 57.172 50.000 0.00 0.00 0.00 4.00
1647 1652 0.602106 CATATCAGGTGCCGCCTCAG 60.602 60.000 0.00 0.00 46.96 3.35
1793 2005 4.075793 CCAGAGGTCCGAGGGGGA 62.076 72.222 0.00 0.00 44.68 4.81
1818 2030 3.629398 GTGCCTTGCTCTACAATGCTAAT 59.371 43.478 7.11 0.00 46.54 1.73
1819 2031 4.816385 GTGCCTTGCTCTACAATGCTAATA 59.184 41.667 7.11 0.00 46.54 0.98
1820 2032 5.296780 GTGCCTTGCTCTACAATGCTAATAA 59.703 40.000 7.11 0.00 46.54 1.40
1918 2130 1.247567 CAATATGGGATCCGGGTTGC 58.752 55.000 5.45 0.00 0.00 4.17
1935 2148 2.202479 CAGTGAGCGCGATCGTGA 60.202 61.111 31.43 8.72 38.14 4.35
1976 2189 2.245159 GGATCGATCCTCACATGCAA 57.755 50.000 32.91 0.00 43.73 4.08
2015 2228 7.114529 CGTGTCGTCTCATTTTACTTAGTCTTT 59.885 37.037 0.00 0.00 0.00 2.52
2235 2450 6.686130 AAAGAGTACATGTTTCGTAACTCG 57.314 37.500 15.20 0.28 41.41 4.18
2236 2451 5.368256 AGAGTACATGTTTCGTAACTCGT 57.632 39.130 15.20 5.89 40.80 4.18
2237 2452 6.486253 AGAGTACATGTTTCGTAACTCGTA 57.514 37.500 15.20 5.02 40.80 3.43
2238 2453 6.310197 AGAGTACATGTTTCGTAACTCGTAC 58.690 40.000 19.73 19.73 39.83 3.67
2239 2454 6.148480 AGAGTACATGTTTCGTAACTCGTACT 59.852 38.462 25.11 25.11 45.27 2.73
2240 2455 6.672147 AGTACATGTTTCGTAACTCGTACTT 58.328 36.000 22.14 13.31 43.02 2.24
2277 2492 8.196802 TGTGTCTATATACATGTTTTGTCAGC 57.803 34.615 2.30 0.00 39.87 4.26
2518 2737 3.489355 AGTTGAATGTGCTGGTTCATCA 58.511 40.909 0.00 0.00 34.60 3.07
2522 2741 2.953466 ATGTGCTGGTTCATCATTGC 57.047 45.000 0.00 0.00 0.00 3.56
2532 2751 4.210331 GGTTCATCATTGCCTGGATAACT 58.790 43.478 0.00 0.00 0.00 2.24
2533 2752 4.646492 GGTTCATCATTGCCTGGATAACTT 59.354 41.667 0.00 0.00 0.00 2.66
2635 3525 4.513442 ACCTTCTTGCGCTCATAATACAA 58.487 39.130 9.73 0.00 0.00 2.41
2731 3666 2.093500 TCCATAGGATGCGGCATGTATC 60.093 50.000 21.98 6.47 38.82 2.24
2736 3671 1.089920 GATGCGGCATGTATCCATCC 58.910 55.000 21.98 0.00 33.96 3.51
2737 3672 0.401356 ATGCGGCATGTATCCATCCA 59.599 50.000 15.87 0.00 0.00 3.41
2738 3673 0.250424 TGCGGCATGTATCCATCCAG 60.250 55.000 0.00 0.00 0.00 3.86
2739 3674 0.035317 GCGGCATGTATCCATCCAGA 59.965 55.000 0.00 0.00 0.00 3.86
2740 3675 1.543208 GCGGCATGTATCCATCCAGAA 60.543 52.381 0.00 0.00 0.00 3.02
2741 3676 2.849942 CGGCATGTATCCATCCAGAAA 58.150 47.619 0.00 0.00 0.00 2.52
2742 3677 2.549754 CGGCATGTATCCATCCAGAAAC 59.450 50.000 0.00 0.00 0.00 2.78
2743 3678 3.554934 GGCATGTATCCATCCAGAAACA 58.445 45.455 0.00 0.00 0.00 2.83
2744 3679 3.953612 GGCATGTATCCATCCAGAAACAA 59.046 43.478 0.00 0.00 0.00 2.83
2745 3680 4.037208 GGCATGTATCCATCCAGAAACAAG 59.963 45.833 0.00 0.00 0.00 3.16
2746 3681 4.498682 GCATGTATCCATCCAGAAACAAGC 60.499 45.833 0.00 0.00 0.00 4.01
2747 3682 4.299586 TGTATCCATCCAGAAACAAGCA 57.700 40.909 0.00 0.00 0.00 3.91
2748 3683 4.858850 TGTATCCATCCAGAAACAAGCAT 58.141 39.130 0.00 0.00 0.00 3.79
2749 3684 6.000246 TGTATCCATCCAGAAACAAGCATA 58.000 37.500 0.00 0.00 0.00 3.14
2750 3685 6.057533 TGTATCCATCCAGAAACAAGCATAG 58.942 40.000 0.00 0.00 0.00 2.23
2751 3686 3.282021 TCCATCCAGAAACAAGCATAGC 58.718 45.455 0.00 0.00 0.00 2.97
2752 3687 3.018856 CCATCCAGAAACAAGCATAGCA 58.981 45.455 0.00 0.00 0.00 3.49
2753 3688 3.066342 CCATCCAGAAACAAGCATAGCAG 59.934 47.826 0.00 0.00 0.00 4.24
2754 3689 3.423539 TCCAGAAACAAGCATAGCAGT 57.576 42.857 0.00 0.00 0.00 4.40
2755 3690 3.076621 TCCAGAAACAAGCATAGCAGTG 58.923 45.455 0.00 0.00 0.00 3.66
2756 3691 2.415090 CCAGAAACAAGCATAGCAGTGC 60.415 50.000 7.13 7.13 45.38 4.40
2762 3697 2.787249 GCATAGCAGTGCACACCG 59.213 61.111 21.04 8.12 44.43 4.94
2763 3698 1.741401 GCATAGCAGTGCACACCGA 60.741 57.895 21.04 5.81 44.43 4.69
2764 3699 1.699656 GCATAGCAGTGCACACCGAG 61.700 60.000 21.04 5.25 44.43 4.63
2765 3700 1.086067 CATAGCAGTGCACACCGAGG 61.086 60.000 21.04 3.41 0.00 4.63
2766 3701 2.859273 ATAGCAGTGCACACCGAGGC 62.859 60.000 21.04 11.98 0.00 4.70
2767 3702 4.996434 GCAGTGCACACCGAGGCT 62.996 66.667 21.04 0.00 0.00 4.58
2768 3703 2.281070 CAGTGCACACCGAGGCTT 60.281 61.111 21.04 0.00 0.00 4.35
2769 3704 2.031163 AGTGCACACCGAGGCTTC 59.969 61.111 21.04 0.00 0.00 3.86
2770 3705 2.031163 GTGCACACCGAGGCTTCT 59.969 61.111 13.17 0.00 0.00 2.85
2771 3706 2.029844 GTGCACACCGAGGCTTCTC 61.030 63.158 13.17 0.00 0.00 2.87
2772 3707 2.435059 GCACACCGAGGCTTCTCC 60.435 66.667 0.00 0.00 34.10 3.71
2773 3708 2.266055 CACACCGAGGCTTCTCCC 59.734 66.667 0.00 0.00 34.10 4.30
2774 3709 3.003763 ACACCGAGGCTTCTCCCC 61.004 66.667 0.00 0.00 34.10 4.81
2775 3710 4.148825 CACCGAGGCTTCTCCCCG 62.149 72.222 0.00 0.00 34.10 5.73
2778 3713 4.214327 CGAGGCTTCTCCCCGCTC 62.214 72.222 0.00 0.00 34.10 5.03
2779 3714 3.077556 GAGGCTTCTCCCCGCTCA 61.078 66.667 0.00 0.00 34.51 4.26
2780 3715 3.080121 AGGCTTCTCCCCGCTCAG 61.080 66.667 0.00 0.00 34.51 3.35
2781 3716 4.168291 GGCTTCTCCCCGCTCAGG 62.168 72.222 0.00 0.00 40.63 3.86
2782 3717 3.077556 GCTTCTCCCCGCTCAGGA 61.078 66.667 0.00 0.00 45.00 3.86
2783 3718 2.439104 GCTTCTCCCCGCTCAGGAT 61.439 63.158 0.00 0.00 45.00 3.24
2784 3719 1.977293 GCTTCTCCCCGCTCAGGATT 61.977 60.000 0.00 0.00 45.00 3.01
2785 3720 0.543749 CTTCTCCCCGCTCAGGATTT 59.456 55.000 0.00 0.00 45.00 2.17
2786 3721 0.541863 TTCTCCCCGCTCAGGATTTC 59.458 55.000 0.00 0.00 45.00 2.17
2787 3722 0.325671 TCTCCCCGCTCAGGATTTCT 60.326 55.000 0.00 0.00 45.00 2.52
2788 3723 0.179062 CTCCCCGCTCAGGATTTCTG 60.179 60.000 0.00 0.00 45.00 3.02
2789 3724 1.153086 CCCCGCTCAGGATTTCTGG 60.153 63.158 0.00 0.00 45.00 3.86
2790 3725 1.821332 CCCGCTCAGGATTTCTGGC 60.821 63.158 0.00 0.00 45.00 4.85
2791 3726 1.821332 CCGCTCAGGATTTCTGGCC 60.821 63.158 0.00 0.00 45.00 5.36
2792 3727 2.176273 CGCTCAGGATTTCTGGCCG 61.176 63.158 0.00 0.00 43.53 6.13
2793 3728 1.078143 GCTCAGGATTTCTGGCCGT 60.078 57.895 0.00 0.00 43.53 5.68
2794 3729 1.092345 GCTCAGGATTTCTGGCCGTC 61.092 60.000 0.00 0.00 43.53 4.79
2795 3730 0.807667 CTCAGGATTTCTGGCCGTCG 60.808 60.000 0.00 0.00 43.53 5.12
2796 3731 1.815421 CAGGATTTCTGGCCGTCGG 60.815 63.158 6.99 6.99 39.76 4.79
2797 3732 1.987855 AGGATTTCTGGCCGTCGGA 60.988 57.895 17.49 0.00 0.00 4.55
2798 3733 1.146263 GGATTTCTGGCCGTCGGAT 59.854 57.895 17.49 0.00 0.00 4.18
2799 3734 0.880718 GGATTTCTGGCCGTCGGATC 60.881 60.000 17.49 7.66 0.00 3.36
2800 3735 0.880718 GATTTCTGGCCGTCGGATCC 60.881 60.000 17.49 8.35 0.00 3.36
2801 3736 1.338136 ATTTCTGGCCGTCGGATCCT 61.338 55.000 17.49 0.00 0.00 3.24
2802 3737 1.550130 TTTCTGGCCGTCGGATCCTT 61.550 55.000 17.49 0.00 0.00 3.36
2803 3738 1.956629 TTCTGGCCGTCGGATCCTTC 61.957 60.000 17.49 1.50 0.00 3.46
2804 3739 3.447025 CTGGCCGTCGGATCCTTCC 62.447 68.421 17.49 5.89 38.81 3.46
2805 3740 3.155167 GGCCGTCGGATCCTTCCT 61.155 66.667 17.49 0.00 40.17 3.36
2806 3741 2.732619 GGCCGTCGGATCCTTCCTT 61.733 63.158 17.49 0.00 40.17 3.36
2807 3742 1.221021 GCCGTCGGATCCTTCCTTT 59.779 57.895 17.49 0.00 40.17 3.11
2808 3743 1.090052 GCCGTCGGATCCTTCCTTTG 61.090 60.000 17.49 0.00 40.17 2.77
2809 3744 0.535335 CCGTCGGATCCTTCCTTTGA 59.465 55.000 4.91 0.00 40.17 2.69
2810 3745 1.139058 CCGTCGGATCCTTCCTTTGAT 59.861 52.381 4.91 0.00 40.17 2.57
2811 3746 2.205074 CGTCGGATCCTTCCTTTGATG 58.795 52.381 10.75 0.00 40.17 3.07
2812 3747 1.943340 GTCGGATCCTTCCTTTGATGC 59.057 52.381 10.75 0.00 40.17 3.91
2813 3748 1.559219 TCGGATCCTTCCTTTGATGCA 59.441 47.619 10.75 0.00 40.17 3.96
2814 3749 2.173356 TCGGATCCTTCCTTTGATGCAT 59.827 45.455 10.75 0.00 40.17 3.96
2815 3750 2.954318 CGGATCCTTCCTTTGATGCATT 59.046 45.455 10.75 0.00 40.17 3.56
2816 3751 3.243301 CGGATCCTTCCTTTGATGCATTG 60.243 47.826 10.75 0.00 40.17 2.82
2817 3752 3.703052 GGATCCTTCCTTTGATGCATTGT 59.297 43.478 3.84 0.00 39.14 2.71
2818 3753 4.441079 GGATCCTTCCTTTGATGCATTGTG 60.441 45.833 3.84 0.00 39.14 3.33
2819 3754 2.827322 TCCTTCCTTTGATGCATTGTGG 59.173 45.455 0.00 1.58 0.00 4.17
2820 3755 2.827322 CCTTCCTTTGATGCATTGTGGA 59.173 45.455 0.00 4.13 0.00 4.02
2821 3756 3.367703 CCTTCCTTTGATGCATTGTGGAC 60.368 47.826 0.00 0.00 0.00 4.02
2822 3757 2.170166 TCCTTTGATGCATTGTGGACC 58.830 47.619 0.00 0.00 0.00 4.46
2823 3758 1.894466 CCTTTGATGCATTGTGGACCA 59.106 47.619 0.00 0.00 0.00 4.02
2824 3759 2.498481 CCTTTGATGCATTGTGGACCAT 59.502 45.455 0.00 0.00 0.00 3.55
2825 3760 3.700539 CCTTTGATGCATTGTGGACCATA 59.299 43.478 0.00 0.00 0.00 2.74
2826 3761 4.160065 CCTTTGATGCATTGTGGACCATAA 59.840 41.667 6.09 6.09 0.00 1.90
2827 3762 4.987408 TTGATGCATTGTGGACCATAAG 57.013 40.909 9.70 3.51 0.00 1.73
2828 3763 4.233632 TGATGCATTGTGGACCATAAGA 57.766 40.909 9.70 0.00 0.00 2.10
2829 3764 4.795469 TGATGCATTGTGGACCATAAGAT 58.205 39.130 9.70 1.89 0.00 2.40
2830 3765 4.823442 TGATGCATTGTGGACCATAAGATC 59.177 41.667 9.70 10.42 0.00 2.75
2831 3766 4.508551 TGCATTGTGGACCATAAGATCT 57.491 40.909 9.70 0.00 0.00 2.75
2832 3767 4.454678 TGCATTGTGGACCATAAGATCTC 58.545 43.478 9.70 0.00 0.00 2.75
2833 3768 3.496130 GCATTGTGGACCATAAGATCTCG 59.504 47.826 9.70 0.00 0.00 4.04
2834 3769 2.890808 TGTGGACCATAAGATCTCGC 57.109 50.000 0.00 0.00 0.00 5.03
2835 3770 1.412710 TGTGGACCATAAGATCTCGCC 59.587 52.381 0.00 0.00 0.00 5.54
2836 3771 1.689273 GTGGACCATAAGATCTCGCCT 59.311 52.381 0.00 0.00 0.00 5.52
2837 3772 2.103263 GTGGACCATAAGATCTCGCCTT 59.897 50.000 0.00 0.00 0.00 4.35
2838 3773 2.365617 TGGACCATAAGATCTCGCCTTC 59.634 50.000 0.00 0.00 0.00 3.46
2839 3774 2.608261 GGACCATAAGATCTCGCCTTCG 60.608 54.545 0.00 0.00 0.00 3.79
2840 3775 1.341531 ACCATAAGATCTCGCCTTCGG 59.658 52.381 0.00 0.00 36.13 4.30
2841 3776 1.613925 CCATAAGATCTCGCCTTCGGA 59.386 52.381 0.00 0.00 36.13 4.55
2842 3777 2.232452 CCATAAGATCTCGCCTTCGGAT 59.768 50.000 0.00 0.00 36.13 4.18
2843 3778 3.249091 CATAAGATCTCGCCTTCGGATG 58.751 50.000 0.00 0.00 36.13 3.51
2844 3779 1.403814 AAGATCTCGCCTTCGGATGA 58.596 50.000 0.00 0.00 36.13 2.92
2845 3780 0.671251 AGATCTCGCCTTCGGATGAC 59.329 55.000 0.00 0.00 36.13 3.06
2846 3781 0.671251 GATCTCGCCTTCGGATGACT 59.329 55.000 0.00 0.00 36.13 3.41
2847 3782 1.067821 GATCTCGCCTTCGGATGACTT 59.932 52.381 0.00 0.00 36.13 3.01
2848 3783 0.895530 TCTCGCCTTCGGATGACTTT 59.104 50.000 0.00 0.00 36.13 2.66
2849 3784 1.002366 CTCGCCTTCGGATGACTTTG 58.998 55.000 0.00 0.00 36.13 2.77
2850 3785 0.391130 TCGCCTTCGGATGACTTTGG 60.391 55.000 0.00 0.00 36.13 3.28
2851 3786 1.803289 GCCTTCGGATGACTTTGGC 59.197 57.895 0.00 0.00 0.00 4.52
2852 3787 1.657751 GCCTTCGGATGACTTTGGCC 61.658 60.000 0.00 0.00 33.45 5.36
2853 3788 1.369091 CCTTCGGATGACTTTGGCCG 61.369 60.000 0.00 0.00 44.83 6.13
2854 3789 0.673644 CTTCGGATGACTTTGGCCGT 60.674 55.000 0.00 0.00 43.92 5.68
2855 3790 0.672401 TTCGGATGACTTTGGCCGTC 60.672 55.000 0.00 0.00 43.92 4.79
2856 3791 2.452813 CGGATGACTTTGGCCGTCG 61.453 63.158 0.00 0.00 38.99 5.12
2857 3792 2.106683 GGATGACTTTGGCCGTCGG 61.107 63.158 6.99 6.99 34.17 4.79
2858 3793 1.079405 GATGACTTTGGCCGTCGGA 60.079 57.895 17.49 0.00 34.17 4.55
2859 3794 0.462047 GATGACTTTGGCCGTCGGAT 60.462 55.000 17.49 0.00 34.17 4.18
2860 3795 0.462047 ATGACTTTGGCCGTCGGATC 60.462 55.000 17.49 6.79 34.17 3.36
2861 3796 1.079405 GACTTTGGCCGTCGGATCA 60.079 57.895 17.49 9.64 0.00 2.92
2862 3797 1.079127 ACTTTGGCCGTCGGATCAG 60.079 57.895 17.49 7.04 0.00 2.90
2863 3798 1.815421 CTTTGGCCGTCGGATCAGG 60.815 63.158 17.49 5.73 0.00 3.86
2870 3805 3.234730 GTCGGATCAGGCCCGGAT 61.235 66.667 0.73 7.21 46.47 4.18
2871 3806 2.445845 TCGGATCAGGCCCGGATT 60.446 61.111 0.73 0.00 46.47 3.01
2872 3807 1.152419 TCGGATCAGGCCCGGATTA 60.152 57.895 0.73 0.00 46.47 1.75
2873 3808 1.004918 CGGATCAGGCCCGGATTAC 60.005 63.158 0.73 5.16 43.05 1.89
2874 3809 1.472662 CGGATCAGGCCCGGATTACT 61.473 60.000 0.73 0.00 43.05 2.24
2875 3810 0.035458 GGATCAGGCCCGGATTACTG 59.965 60.000 0.73 5.63 0.00 2.74
2876 3811 0.603975 GATCAGGCCCGGATTACTGC 60.604 60.000 0.73 0.00 0.00 4.40
2877 3812 1.056700 ATCAGGCCCGGATTACTGCT 61.057 55.000 0.73 0.00 0.00 4.24
2878 3813 0.397957 TCAGGCCCGGATTACTGCTA 60.398 55.000 0.73 0.00 0.00 3.49
2879 3814 0.249911 CAGGCCCGGATTACTGCTAC 60.250 60.000 0.73 0.00 0.00 3.58
2880 3815 0.689745 AGGCCCGGATTACTGCTACA 60.690 55.000 0.73 0.00 0.00 2.74
2881 3816 0.179468 GGCCCGGATTACTGCTACAA 59.821 55.000 0.73 0.00 0.00 2.41
2882 3817 1.202770 GGCCCGGATTACTGCTACAAT 60.203 52.381 0.73 0.00 0.00 2.71
2883 3818 1.873591 GCCCGGATTACTGCTACAATG 59.126 52.381 0.73 0.00 0.00 2.82
2884 3819 2.484770 GCCCGGATTACTGCTACAATGA 60.485 50.000 0.73 0.00 0.00 2.57
2885 3820 3.804036 CCCGGATTACTGCTACAATGAA 58.196 45.455 0.73 0.00 0.00 2.57
2886 3821 4.389374 CCCGGATTACTGCTACAATGAAT 58.611 43.478 0.73 0.00 0.00 2.57
2887 3822 5.547465 CCCGGATTACTGCTACAATGAATA 58.453 41.667 0.73 0.00 0.00 1.75
2888 3823 5.639506 CCCGGATTACTGCTACAATGAATAG 59.360 44.000 0.73 0.00 0.00 1.73
2889 3824 6.223852 CCGGATTACTGCTACAATGAATAGT 58.776 40.000 0.00 0.00 0.00 2.12
2890 3825 7.375834 CCGGATTACTGCTACAATGAATAGTA 58.624 38.462 0.00 0.00 0.00 1.82
2891 3826 7.542477 CCGGATTACTGCTACAATGAATAGTAG 59.458 40.741 0.00 0.00 40.45 2.57
2900 3835 7.897575 CTACAATGAATAGTAGCCTCCATTC 57.102 40.000 0.00 0.00 32.25 2.67
2901 3836 5.300752 ACAATGAATAGTAGCCTCCATTCG 58.699 41.667 0.00 0.00 31.43 3.34
2902 3837 5.070446 ACAATGAATAGTAGCCTCCATTCGA 59.930 40.000 0.00 0.00 31.43 3.71
2903 3838 6.169094 CAATGAATAGTAGCCTCCATTCGAT 58.831 40.000 0.00 0.00 31.43 3.59
2904 3839 5.808366 TGAATAGTAGCCTCCATTCGATT 57.192 39.130 0.00 0.00 31.43 3.34
2905 3840 6.174720 TGAATAGTAGCCTCCATTCGATTT 57.825 37.500 0.00 0.00 31.43 2.17
2906 3841 6.591935 TGAATAGTAGCCTCCATTCGATTTT 58.408 36.000 0.00 0.00 31.43 1.82
2907 3842 7.054124 TGAATAGTAGCCTCCATTCGATTTTT 58.946 34.615 0.00 0.00 31.43 1.94
2908 3843 7.226720 TGAATAGTAGCCTCCATTCGATTTTTC 59.773 37.037 0.00 0.00 31.43 2.29
2909 3844 5.104259 AGTAGCCTCCATTCGATTTTTCT 57.896 39.130 0.00 0.00 0.00 2.52
2910 3845 5.501156 AGTAGCCTCCATTCGATTTTTCTT 58.499 37.500 0.00 0.00 0.00 2.52
2911 3846 6.650120 AGTAGCCTCCATTCGATTTTTCTTA 58.350 36.000 0.00 0.00 0.00 2.10
2912 3847 5.819825 AGCCTCCATTCGATTTTTCTTAC 57.180 39.130 0.00 0.00 0.00 2.34
2913 3848 5.501156 AGCCTCCATTCGATTTTTCTTACT 58.499 37.500 0.00 0.00 0.00 2.24
2914 3849 5.355350 AGCCTCCATTCGATTTTTCTTACTG 59.645 40.000 0.00 0.00 0.00 2.74
2915 3850 5.354234 GCCTCCATTCGATTTTTCTTACTGA 59.646 40.000 0.00 0.00 0.00 3.41
2916 3851 6.675728 GCCTCCATTCGATTTTTCTTACTGAC 60.676 42.308 0.00 0.00 0.00 3.51
2917 3852 6.595716 CCTCCATTCGATTTTTCTTACTGACT 59.404 38.462 0.00 0.00 0.00 3.41
2918 3853 7.119846 CCTCCATTCGATTTTTCTTACTGACTT 59.880 37.037 0.00 0.00 0.00 3.01
2919 3854 8.391075 TCCATTCGATTTTTCTTACTGACTTT 57.609 30.769 0.00 0.00 0.00 2.66
2920 3855 8.846211 TCCATTCGATTTTTCTTACTGACTTTT 58.154 29.630 0.00 0.00 0.00 2.27
2921 3856 9.118236 CCATTCGATTTTTCTTACTGACTTTTC 57.882 33.333 0.00 0.00 0.00 2.29
2922 3857 9.884465 CATTCGATTTTTCTTACTGACTTTTCT 57.116 29.630 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.885861 CTCGCCAGCTAACCGAGT 59.114 61.111 16.98 0.00 42.41 4.18
10 11 1.760875 CCCCCTACTCGCCAGCTAA 60.761 63.158 0.00 0.00 0.00 3.09
17 18 2.299326 TCCTATTACCCCCTACTCGC 57.701 55.000 0.00 0.00 0.00 5.03
61 62 9.979270 GTAGCCGATAAATTGATAAATCATCTG 57.021 33.333 0.00 0.00 36.56 2.90
81 82 1.452651 TAGGGTCACCGAGTAGCCG 60.453 63.158 0.00 0.00 43.47 5.52
92 93 6.183360 CCAATTAATCCTTACTCGTAGGGTCA 60.183 42.308 5.31 0.00 34.30 4.02
93 94 6.221659 CCAATTAATCCTTACTCGTAGGGTC 58.778 44.000 5.31 0.00 34.30 4.46
95 96 4.995487 GCCAATTAATCCTTACTCGTAGGG 59.005 45.833 0.00 0.00 33.98 3.53
96 97 5.607477 TGCCAATTAATCCTTACTCGTAGG 58.393 41.667 0.00 0.00 0.00 3.18
97 98 6.761714 ACTTGCCAATTAATCCTTACTCGTAG 59.238 38.462 0.00 0.00 0.00 3.51
98 99 6.646267 ACTTGCCAATTAATCCTTACTCGTA 58.354 36.000 0.00 0.00 0.00 3.43
99 100 5.497474 ACTTGCCAATTAATCCTTACTCGT 58.503 37.500 0.00 0.00 0.00 4.18
100 101 7.280205 AGTTACTTGCCAATTAATCCTTACTCG 59.720 37.037 0.00 0.00 0.00 4.18
101 102 8.398665 CAGTTACTTGCCAATTAATCCTTACTC 58.601 37.037 0.00 0.00 0.00 2.59
102 103 7.339466 CCAGTTACTTGCCAATTAATCCTTACT 59.661 37.037 0.00 0.00 0.00 2.24
103 104 7.122204 ACCAGTTACTTGCCAATTAATCCTTAC 59.878 37.037 0.00 0.00 0.00 2.34
104 105 7.179269 ACCAGTTACTTGCCAATTAATCCTTA 58.821 34.615 0.00 0.00 0.00 2.69
105 106 6.016555 ACCAGTTACTTGCCAATTAATCCTT 58.983 36.000 0.00 0.00 0.00 3.36
106 107 5.580022 ACCAGTTACTTGCCAATTAATCCT 58.420 37.500 0.00 0.00 0.00 3.24
107 108 5.914898 ACCAGTTACTTGCCAATTAATCC 57.085 39.130 0.00 0.00 0.00 3.01
108 109 9.869757 AATTAACCAGTTACTTGCCAATTAATC 57.130 29.630 0.00 0.00 0.00 1.75
109 110 9.651913 CAATTAACCAGTTACTTGCCAATTAAT 57.348 29.630 7.45 0.00 31.94 1.40
110 111 8.091449 CCAATTAACCAGTTACTTGCCAATTAA 58.909 33.333 12.64 0.00 35.60 1.40
111 112 7.451877 TCCAATTAACCAGTTACTTGCCAATTA 59.548 33.333 12.64 0.00 35.60 1.40
112 113 6.268847 TCCAATTAACCAGTTACTTGCCAATT 59.731 34.615 12.64 0.00 35.60 2.32
113 114 5.777732 TCCAATTAACCAGTTACTTGCCAAT 59.222 36.000 12.64 0.00 35.60 3.16
114 115 5.010213 GTCCAATTAACCAGTTACTTGCCAA 59.990 40.000 12.64 1.96 35.60 4.52
115 116 4.521256 GTCCAATTAACCAGTTACTTGCCA 59.479 41.667 12.64 2.52 35.60 4.92
116 117 4.379082 CGTCCAATTAACCAGTTACTTGCC 60.379 45.833 12.64 6.73 35.60 4.52
117 118 4.453136 TCGTCCAATTAACCAGTTACTTGC 59.547 41.667 12.64 3.19 35.60 4.01
118 119 6.548441 TTCGTCCAATTAACCAGTTACTTG 57.452 37.500 11.61 11.61 36.24 3.16
119 120 7.664318 AGAATTCGTCCAATTAACCAGTTACTT 59.336 33.333 0.00 0.00 34.60 2.24
120 121 7.166167 AGAATTCGTCCAATTAACCAGTTACT 58.834 34.615 0.00 0.00 34.60 2.24
121 122 7.373778 AGAATTCGTCCAATTAACCAGTTAC 57.626 36.000 0.00 0.00 34.60 2.50
130 131 8.265055 ACTCCTATTCAAGAATTCGTCCAATTA 58.735 33.333 0.02 0.00 34.60 1.40
150 151 4.612264 AAGCCGAGTGTAAAAACTCCTA 57.388 40.909 0.00 0.00 43.09 2.94
152 153 4.060205 TGTAAGCCGAGTGTAAAAACTCC 58.940 43.478 0.00 0.00 43.09 3.85
264 265 1.073284 TGTGGGAGTAAAGTTCTGCCC 59.927 52.381 0.00 0.00 41.66 5.36
280 281 4.741185 CCGAATTTATCATGCACATTGTGG 59.259 41.667 18.05 2.32 33.64 4.17
682 683 5.671329 GCGTCATAACACCACAGATTTTCTC 60.671 44.000 0.00 0.00 0.00 2.87
844 845 1.136329 TGAAAGCAAGGGAGGAGGCT 61.136 55.000 0.00 0.00 38.45 4.58
933 934 2.505819 AGGGTAATACCAGCAGAAGGTG 59.494 50.000 12.03 0.00 41.02 4.00
1046 1051 0.524816 CGTCACATAAGTACGGCGCT 60.525 55.000 6.90 0.00 33.13 5.92
1081 1086 2.815647 CTCGCCCGCCTTCTTCAC 60.816 66.667 0.00 0.00 0.00 3.18
1227 1232 0.535102 CCACCTTCTTGAACCGTGCT 60.535 55.000 0.00 0.00 0.00 4.40
1230 1235 0.834612 TCACCACCTTCTTGAACCGT 59.165 50.000 0.00 0.00 0.00 4.83
1337 1342 0.034670 GGCCTTGTGCAGAAGGATCT 60.035 55.000 39.03 0.00 44.87 2.75
1617 1622 3.842820 CACCTGATATGTCGGCAGATAG 58.157 50.000 0.00 0.00 0.00 2.08
1668 1673 4.344865 TGGGGCCGAAAGACCTGC 62.345 66.667 0.00 0.00 0.00 4.85
1793 2005 0.324943 ATTGTAGAGCAAGGCACCGT 59.675 50.000 0.00 0.00 40.86 4.83
1800 2012 5.523916 ACCGTTATTAGCATTGTAGAGCAAG 59.476 40.000 0.00 0.00 40.86 4.01
1818 2030 1.672898 GTGGCCACCAGTACCGTTA 59.327 57.895 26.31 0.00 32.34 3.18
1819 2031 2.428622 GTGGCCACCAGTACCGTT 59.571 61.111 26.31 0.00 32.34 4.44
1820 2032 3.998672 CGTGGCCACCAGTACCGT 61.999 66.667 29.95 0.00 32.34 4.83
1918 2130 2.202479 TCACGATCGCGCTCACTG 60.202 61.111 16.60 4.00 42.48 3.66
1935 2148 3.882888 CTCTACTCGAAGAAGATGCTCCT 59.117 47.826 0.00 0.00 34.09 3.69
2210 2425 7.223387 ACGAGTTACGAAACATGTACTCTTTTT 59.777 33.333 17.69 0.28 45.77 1.94
2211 2426 6.698766 ACGAGTTACGAAACATGTACTCTTTT 59.301 34.615 17.69 0.94 45.77 2.27
2212 2427 6.211515 ACGAGTTACGAAACATGTACTCTTT 58.788 36.000 17.69 1.61 45.77 2.52
2213 2428 5.766222 ACGAGTTACGAAACATGTACTCTT 58.234 37.500 17.69 9.16 45.77 2.85
2214 2429 5.368256 ACGAGTTACGAAACATGTACTCT 57.632 39.130 17.69 6.52 45.77 3.24
2215 2430 6.310197 AGTACGAGTTACGAAACATGTACTC 58.690 40.000 12.31 12.31 45.62 2.59
2216 2431 6.246420 AGTACGAGTTACGAAACATGTACT 57.754 37.500 0.00 14.52 44.85 2.73
2217 2432 6.918043 AAGTACGAGTTACGAAACATGTAC 57.082 37.500 0.00 11.75 45.77 2.90
2218 2433 6.129115 GCAAAGTACGAGTTACGAAACATGTA 60.129 38.462 0.00 0.00 45.77 2.29
2219 2434 5.332808 GCAAAGTACGAGTTACGAAACATGT 60.333 40.000 0.00 0.00 45.77 3.21
2220 2435 5.070862 GCAAAGTACGAGTTACGAAACATG 58.929 41.667 0.00 0.00 45.77 3.21
2221 2436 4.746115 TGCAAAGTACGAGTTACGAAACAT 59.254 37.500 0.00 0.00 45.77 2.71
2222 2437 4.026640 GTGCAAAGTACGAGTTACGAAACA 60.027 41.667 0.00 0.00 45.77 2.83
2223 2438 4.440068 GTGCAAAGTACGAGTTACGAAAC 58.560 43.478 0.00 0.00 45.77 2.78
2224 2439 3.490526 GGTGCAAAGTACGAGTTACGAAA 59.509 43.478 0.00 0.00 45.77 3.46
2225 2440 3.052036 GGTGCAAAGTACGAGTTACGAA 58.948 45.455 0.00 0.00 45.77 3.85
2226 2441 2.664916 GGTGCAAAGTACGAGTTACGA 58.335 47.619 0.00 0.00 45.77 3.43
2228 2443 1.125566 GCGGTGCAAAGTACGAGTTAC 59.874 52.381 0.00 0.00 0.00 2.50
2229 2444 1.421382 GCGGTGCAAAGTACGAGTTA 58.579 50.000 0.00 0.00 0.00 2.24
2230 2445 1.226030 GGCGGTGCAAAGTACGAGTT 61.226 55.000 0.00 0.00 0.00 3.01
2231 2446 1.666872 GGCGGTGCAAAGTACGAGT 60.667 57.895 0.00 0.00 0.00 4.18
2232 2447 1.352156 GAGGCGGTGCAAAGTACGAG 61.352 60.000 0.00 0.00 0.00 4.18
2233 2448 1.373748 GAGGCGGTGCAAAGTACGA 60.374 57.895 0.00 0.00 0.00 3.43
2234 2449 1.374252 AGAGGCGGTGCAAAGTACG 60.374 57.895 0.00 0.00 0.00 3.67
2235 2450 0.602905 ACAGAGGCGGTGCAAAGTAC 60.603 55.000 0.00 0.00 0.00 2.73
2236 2451 0.602638 CACAGAGGCGGTGCAAAGTA 60.603 55.000 0.00 0.00 0.00 2.24
2237 2452 1.893808 CACAGAGGCGGTGCAAAGT 60.894 57.895 0.00 0.00 0.00 2.66
2238 2453 1.845809 GACACAGAGGCGGTGCAAAG 61.846 60.000 6.86 0.00 39.87 2.77
2239 2454 1.891919 GACACAGAGGCGGTGCAAA 60.892 57.895 6.86 0.00 39.87 3.68
2240 2455 1.468506 TAGACACAGAGGCGGTGCAA 61.469 55.000 6.86 0.00 39.87 4.08
2277 2492 7.602753 TGTAAGTATACACATAGCTATGCCTG 58.397 38.462 29.60 23.39 37.11 4.85
2518 2737 4.082026 GCTTCAACAAGTTATCCAGGCAAT 60.082 41.667 0.00 0.00 31.45 3.56
2522 2741 3.420893 TGGCTTCAACAAGTTATCCAGG 58.579 45.455 0.00 0.00 31.45 4.45
2532 2751 1.327303 GGGACACATGGCTTCAACAA 58.673 50.000 0.00 0.00 0.00 2.83
2533 2752 0.184692 TGGGACACATGGCTTCAACA 59.815 50.000 0.00 0.00 0.00 3.33
2731 3666 3.018856 TGCTATGCTTGTTTCTGGATGG 58.981 45.455 0.00 0.00 0.00 3.51
2732 3667 3.693085 ACTGCTATGCTTGTTTCTGGATG 59.307 43.478 0.00 0.00 0.00 3.51
2733 3668 3.693085 CACTGCTATGCTTGTTTCTGGAT 59.307 43.478 0.00 0.00 0.00 3.41
2734 3669 3.076621 CACTGCTATGCTTGTTTCTGGA 58.923 45.455 0.00 0.00 0.00 3.86
2735 3670 2.415090 GCACTGCTATGCTTGTTTCTGG 60.415 50.000 5.61 0.00 42.62 3.86
2736 3671 2.227149 TGCACTGCTATGCTTGTTTCTG 59.773 45.455 12.94 0.00 46.28 3.02
2737 3672 2.227388 GTGCACTGCTATGCTTGTTTCT 59.773 45.455 10.32 0.00 46.28 2.52
2738 3673 2.030893 TGTGCACTGCTATGCTTGTTTC 60.031 45.455 19.41 0.00 46.28 2.78
2739 3674 1.955778 TGTGCACTGCTATGCTTGTTT 59.044 42.857 19.41 0.00 46.28 2.83
2740 3675 1.267806 GTGTGCACTGCTATGCTTGTT 59.732 47.619 19.41 0.00 46.28 2.83
2741 3676 0.877071 GTGTGCACTGCTATGCTTGT 59.123 50.000 19.41 0.00 46.28 3.16
2742 3677 0.169672 GGTGTGCACTGCTATGCTTG 59.830 55.000 19.41 0.00 46.28 4.01
2743 3678 1.300971 CGGTGTGCACTGCTATGCTT 61.301 55.000 19.41 0.00 46.28 3.91
2744 3679 1.742880 CGGTGTGCACTGCTATGCT 60.743 57.895 19.41 0.00 46.28 3.79
2745 3680 1.699656 CTCGGTGTGCACTGCTATGC 61.700 60.000 19.41 5.88 46.32 3.14
2746 3681 1.086067 CCTCGGTGTGCACTGCTATG 61.086 60.000 19.41 4.05 37.60 2.23
2747 3682 1.219124 CCTCGGTGTGCACTGCTAT 59.781 57.895 19.41 0.00 37.60 2.97
2748 3683 2.656646 CCTCGGTGTGCACTGCTA 59.343 61.111 19.41 0.00 37.60 3.49
2749 3684 4.996434 GCCTCGGTGTGCACTGCT 62.996 66.667 19.41 0.00 37.60 4.24
2750 3685 4.996434 AGCCTCGGTGTGCACTGC 62.996 66.667 19.41 10.77 37.60 4.40
2751 3686 2.281070 AAGCCTCGGTGTGCACTG 60.281 61.111 19.41 8.16 39.02 3.66
2752 3687 2.031163 GAAGCCTCGGTGTGCACT 59.969 61.111 19.41 0.00 0.00 4.40
2753 3688 2.029844 GAGAAGCCTCGGTGTGCAC 61.030 63.158 10.75 10.75 0.00 4.57
2754 3689 2.343758 GAGAAGCCTCGGTGTGCA 59.656 61.111 0.00 0.00 0.00 4.57
2755 3690 2.435059 GGAGAAGCCTCGGTGTGC 60.435 66.667 0.00 0.00 40.33 4.57
2756 3691 2.266055 GGGAGAAGCCTCGGTGTG 59.734 66.667 0.00 0.00 40.33 3.82
2757 3692 3.003763 GGGGAGAAGCCTCGGTGT 61.004 66.667 0.00 0.00 40.33 4.16
2762 3697 3.077556 TGAGCGGGGAGAAGCCTC 61.078 66.667 0.00 0.00 38.70 4.70
2763 3698 3.080121 CTGAGCGGGGAGAAGCCT 61.080 66.667 0.00 0.00 36.66 4.58
2764 3699 4.168291 CCTGAGCGGGGAGAAGCC 62.168 72.222 0.00 0.00 0.00 4.35
2765 3700 1.977293 AATCCTGAGCGGGGAGAAGC 61.977 60.000 0.00 0.00 36.21 3.86
2766 3701 0.543749 AAATCCTGAGCGGGGAGAAG 59.456 55.000 0.00 0.00 36.21 2.85
2767 3702 0.541863 GAAATCCTGAGCGGGGAGAA 59.458 55.000 0.00 0.00 36.21 2.87
2768 3703 0.325671 AGAAATCCTGAGCGGGGAGA 60.326 55.000 0.00 0.00 36.21 3.71
2769 3704 0.179062 CAGAAATCCTGAGCGGGGAG 60.179 60.000 0.00 0.00 45.78 4.30
2770 3705 1.626356 CCAGAAATCCTGAGCGGGGA 61.626 60.000 0.00 0.00 45.78 4.81
2771 3706 1.153086 CCAGAAATCCTGAGCGGGG 60.153 63.158 0.00 0.00 45.78 5.73
2772 3707 1.821332 GCCAGAAATCCTGAGCGGG 60.821 63.158 0.00 0.00 45.78 6.13
2773 3708 1.821332 GGCCAGAAATCCTGAGCGG 60.821 63.158 0.00 0.00 45.78 5.52
2774 3709 2.176273 CGGCCAGAAATCCTGAGCG 61.176 63.158 2.24 0.00 45.78 5.03
2775 3710 1.078143 ACGGCCAGAAATCCTGAGC 60.078 57.895 2.24 0.00 45.78 4.26
2776 3711 0.807667 CGACGGCCAGAAATCCTGAG 60.808 60.000 2.24 0.00 45.78 3.35
2777 3712 1.218047 CGACGGCCAGAAATCCTGA 59.782 57.895 2.24 0.00 45.78 3.86
2778 3713 1.815421 CCGACGGCCAGAAATCCTG 60.815 63.158 2.24 0.00 42.55 3.86
2779 3714 1.338136 ATCCGACGGCCAGAAATCCT 61.338 55.000 9.66 0.00 0.00 3.24
2780 3715 0.880718 GATCCGACGGCCAGAAATCC 60.881 60.000 9.66 0.00 0.00 3.01
2781 3716 0.880718 GGATCCGACGGCCAGAAATC 60.881 60.000 9.66 5.72 0.00 2.17
2782 3717 1.146263 GGATCCGACGGCCAGAAAT 59.854 57.895 9.66 0.00 0.00 2.17
2783 3718 1.550130 AAGGATCCGACGGCCAGAAA 61.550 55.000 9.66 0.00 0.00 2.52
2784 3719 1.956629 GAAGGATCCGACGGCCAGAA 61.957 60.000 9.66 0.00 0.00 3.02
2785 3720 2.363795 AAGGATCCGACGGCCAGA 60.364 61.111 9.66 0.00 0.00 3.86
2786 3721 2.107141 GAAGGATCCGACGGCCAG 59.893 66.667 9.66 0.00 0.00 4.85
2787 3722 3.467226 GGAAGGATCCGACGGCCA 61.467 66.667 9.66 0.00 35.59 5.36
2795 3730 3.703052 ACAATGCATCAAAGGAAGGATCC 59.297 43.478 2.48 2.48 46.98 3.36
2796 3731 4.441079 CCACAATGCATCAAAGGAAGGATC 60.441 45.833 0.00 0.00 0.00 3.36
2797 3732 3.449737 CCACAATGCATCAAAGGAAGGAT 59.550 43.478 0.00 0.00 0.00 3.24
2798 3733 2.827322 CCACAATGCATCAAAGGAAGGA 59.173 45.455 0.00 0.00 0.00 3.36
2799 3734 2.827322 TCCACAATGCATCAAAGGAAGG 59.173 45.455 0.00 0.00 0.00 3.46
2800 3735 3.367703 GGTCCACAATGCATCAAAGGAAG 60.368 47.826 0.00 0.00 0.00 3.46
2801 3736 2.562298 GGTCCACAATGCATCAAAGGAA 59.438 45.455 0.00 0.00 0.00 3.36
2802 3737 2.170166 GGTCCACAATGCATCAAAGGA 58.830 47.619 0.00 2.69 0.00 3.36
2803 3738 1.894466 TGGTCCACAATGCATCAAAGG 59.106 47.619 0.00 0.00 0.00 3.11
2804 3739 3.880047 ATGGTCCACAATGCATCAAAG 57.120 42.857 0.00 0.00 0.00 2.77
2805 3740 5.015515 TCTTATGGTCCACAATGCATCAAA 58.984 37.500 0.00 0.00 0.00 2.69
2806 3741 4.598022 TCTTATGGTCCACAATGCATCAA 58.402 39.130 0.00 0.00 0.00 2.57
2807 3742 4.233632 TCTTATGGTCCACAATGCATCA 57.766 40.909 0.00 0.00 0.00 3.07
2808 3743 5.068636 AGATCTTATGGTCCACAATGCATC 58.931 41.667 0.00 0.00 0.00 3.91
2809 3744 5.057843 AGATCTTATGGTCCACAATGCAT 57.942 39.130 0.00 0.00 0.00 3.96
2810 3745 4.454678 GAGATCTTATGGTCCACAATGCA 58.545 43.478 0.00 0.00 0.00 3.96
2811 3746 3.496130 CGAGATCTTATGGTCCACAATGC 59.504 47.826 0.00 0.00 0.00 3.56
2812 3747 3.496130 GCGAGATCTTATGGTCCACAATG 59.504 47.826 0.00 0.00 0.00 2.82
2813 3748 3.495100 GGCGAGATCTTATGGTCCACAAT 60.495 47.826 0.00 0.00 0.00 2.71
2814 3749 2.158957 GGCGAGATCTTATGGTCCACAA 60.159 50.000 0.00 0.00 0.00 3.33
2815 3750 1.412710 GGCGAGATCTTATGGTCCACA 59.587 52.381 0.00 0.00 0.00 4.17
2816 3751 1.689273 AGGCGAGATCTTATGGTCCAC 59.311 52.381 0.00 0.00 0.00 4.02
2817 3752 2.088104 AGGCGAGATCTTATGGTCCA 57.912 50.000 0.00 0.00 0.00 4.02
2818 3753 2.608261 CGAAGGCGAGATCTTATGGTCC 60.608 54.545 0.00 0.00 40.82 4.46
2819 3754 2.608261 CCGAAGGCGAGATCTTATGGTC 60.608 54.545 0.00 0.00 46.14 4.02
2820 3755 1.341531 CCGAAGGCGAGATCTTATGGT 59.658 52.381 0.00 0.00 46.14 3.55
2821 3756 2.071688 CCGAAGGCGAGATCTTATGG 57.928 55.000 0.00 0.00 46.14 2.74
2835 3770 0.673644 ACGGCCAAAGTCATCCGAAG 60.674 55.000 2.24 0.00 44.23 3.79
2836 3771 0.672401 GACGGCCAAAGTCATCCGAA 60.672 55.000 2.24 0.00 44.23 4.30
2837 3772 1.079405 GACGGCCAAAGTCATCCGA 60.079 57.895 2.24 0.00 44.23 4.55
2838 3773 2.452813 CGACGGCCAAAGTCATCCG 61.453 63.158 2.24 0.00 46.61 4.18
2839 3774 2.106683 CCGACGGCCAAAGTCATCC 61.107 63.158 2.24 0.00 38.46 3.51
2840 3775 0.462047 ATCCGACGGCCAAAGTCATC 60.462 55.000 9.66 0.00 38.46 2.92
2841 3776 0.462047 GATCCGACGGCCAAAGTCAT 60.462 55.000 9.66 0.00 38.46 3.06
2842 3777 1.079405 GATCCGACGGCCAAAGTCA 60.079 57.895 9.66 0.00 38.46 3.41
2843 3778 1.079405 TGATCCGACGGCCAAAGTC 60.079 57.895 9.66 0.58 35.41 3.01
2844 3779 1.079127 CTGATCCGACGGCCAAAGT 60.079 57.895 9.66 0.00 0.00 2.66
2845 3780 1.815421 CCTGATCCGACGGCCAAAG 60.815 63.158 9.66 3.94 0.00 2.77
2846 3781 2.267642 CCTGATCCGACGGCCAAA 59.732 61.111 9.66 0.00 0.00 3.28
2847 3782 4.467084 GCCTGATCCGACGGCCAA 62.467 66.667 9.66 0.00 37.86 4.52
2855 3790 1.004918 GTAATCCGGGCCTGATCCG 60.005 63.158 15.09 1.39 46.43 4.18
2856 3791 0.035458 CAGTAATCCGGGCCTGATCC 59.965 60.000 15.09 5.33 0.00 3.36
2857 3792 0.603975 GCAGTAATCCGGGCCTGATC 60.604 60.000 15.09 0.00 0.00 2.92
2858 3793 1.056700 AGCAGTAATCCGGGCCTGAT 61.057 55.000 15.09 7.90 0.00 2.90
2859 3794 0.397957 TAGCAGTAATCCGGGCCTGA 60.398 55.000 15.09 5.41 0.00 3.86
2860 3795 0.249911 GTAGCAGTAATCCGGGCCTG 60.250 60.000 3.88 3.88 0.00 4.85
2861 3796 0.689745 TGTAGCAGTAATCCGGGCCT 60.690 55.000 0.84 0.00 0.00 5.19
2862 3797 0.179468 TTGTAGCAGTAATCCGGGCC 59.821 55.000 0.00 0.00 0.00 5.80
2863 3798 1.873591 CATTGTAGCAGTAATCCGGGC 59.126 52.381 0.00 0.00 0.00 6.13
2864 3799 3.469008 TCATTGTAGCAGTAATCCGGG 57.531 47.619 0.00 0.00 0.00 5.73
2865 3800 6.223852 ACTATTCATTGTAGCAGTAATCCGG 58.776 40.000 0.00 0.00 0.00 5.14
2866 3801 8.454293 CTACTATTCATTGTAGCAGTAATCCG 57.546 38.462 0.00 0.00 31.48 4.18
2876 3811 6.587990 CGAATGGAGGCTACTATTCATTGTAG 59.412 42.308 16.77 4.57 37.52 2.74
2877 3812 6.266786 TCGAATGGAGGCTACTATTCATTGTA 59.733 38.462 16.77 0.00 37.52 2.41
2878 3813 5.070446 TCGAATGGAGGCTACTATTCATTGT 59.930 40.000 16.77 0.00 37.52 2.71
2879 3814 5.541845 TCGAATGGAGGCTACTATTCATTG 58.458 41.667 16.77 6.10 37.52 2.82
2880 3815 5.808366 TCGAATGGAGGCTACTATTCATT 57.192 39.130 16.77 8.26 37.52 2.57
2881 3816 6.365970 AATCGAATGGAGGCTACTATTCAT 57.634 37.500 16.77 9.74 37.52 2.57
2882 3817 5.808366 AATCGAATGGAGGCTACTATTCA 57.192 39.130 16.77 8.45 37.52 2.57
2883 3818 7.442666 AGAAAAATCGAATGGAGGCTACTATTC 59.557 37.037 0.00 5.17 35.44 1.75
2884 3819 7.283329 AGAAAAATCGAATGGAGGCTACTATT 58.717 34.615 0.00 0.00 0.00 1.73
2885 3820 6.831976 AGAAAAATCGAATGGAGGCTACTAT 58.168 36.000 0.00 0.00 0.00 2.12
2886 3821 6.235231 AGAAAAATCGAATGGAGGCTACTA 57.765 37.500 0.00 0.00 0.00 1.82
2887 3822 5.104259 AGAAAAATCGAATGGAGGCTACT 57.896 39.130 0.00 0.00 0.00 2.57
2888 3823 5.819825 AAGAAAAATCGAATGGAGGCTAC 57.180 39.130 0.00 0.00 0.00 3.58
2889 3824 6.538742 CAGTAAGAAAAATCGAATGGAGGCTA 59.461 38.462 0.00 0.00 0.00 3.93
2890 3825 5.355350 CAGTAAGAAAAATCGAATGGAGGCT 59.645 40.000 0.00 0.00 0.00 4.58
2891 3826 5.354234 TCAGTAAGAAAAATCGAATGGAGGC 59.646 40.000 0.00 0.00 0.00 4.70
2892 3827 6.595716 AGTCAGTAAGAAAAATCGAATGGAGG 59.404 38.462 0.00 0.00 0.00 4.30
2893 3828 7.602517 AGTCAGTAAGAAAAATCGAATGGAG 57.397 36.000 0.00 0.00 0.00 3.86
2894 3829 7.979444 AAGTCAGTAAGAAAAATCGAATGGA 57.021 32.000 0.00 0.00 0.00 3.41
2895 3830 9.118236 GAAAAGTCAGTAAGAAAAATCGAATGG 57.882 33.333 0.00 0.00 0.00 3.16
2896 3831 9.884465 AGAAAAGTCAGTAAGAAAAATCGAATG 57.116 29.630 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.