Multiple sequence alignment - TraesCS3B01G526700

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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 TraesCS3B01G526700 chr3B 100.000 3163 0 0 1 3163 768747931 768744769 0.000000e+00 5842.0
1 TraesCS3B01G526700 chr3B 86.952 1027 113 12 1175 2189 766661573 766660556 0.000000e+00 1134.0
2 TraesCS3B01G526700 chr3B 87.020 963 106 14 1225 2176 766643166 766642212 0.000000e+00 1068.0
3 TraesCS3B01G526700 chr3B 97.561 82 2 0 1 82 452540790 452540709 1.180000e-29 141.0
4 TraesCS3B01G526700 chr3B 97.143 70 2 0 80 149 452518444 452518375 5.540000e-23 119.0
5 TraesCS3B01G526700 chr3B 90.000 50 5 0 2222 2271 172704892 172704941 7.320000e-07 65.8
6 TraesCS3B01G526700 chr3D 94.247 1043 52 3 1175 2212 577239401 577240440 0.000000e+00 1587.0
7 TraesCS3B01G526700 chr3D 87.928 994 108 11 1184 2171 575740564 575739577 0.000000e+00 1160.0
8 TraesCS3B01G526700 chr3D 87.703 984 112 5 1188 2164 575737907 575736926 0.000000e+00 1138.0
9 TraesCS3B01G526700 chr3D 92.540 496 14 8 166 658 577209994 577210469 0.000000e+00 689.0
10 TraesCS3B01G526700 chr3D 81.779 697 89 22 2475 3163 612531032 612531698 1.660000e-152 549.0
11 TraesCS3B01G526700 chr3D 92.508 307 23 0 774 1080 577238197 577238503 1.040000e-119 440.0
12 TraesCS3B01G526700 chr3D 82.564 390 61 6 2776 3163 23215550 23215934 1.410000e-88 337.0
13 TraesCS3B01G526700 chr3D 95.588 204 4 3 519 721 577237933 577238132 3.940000e-84 322.0
14 TraesCS3B01G526700 chr3D 92.308 104 3 3 2222 2324 612530771 612530870 3.290000e-30 143.0
15 TraesCS3B01G526700 chr3D 95.946 74 3 0 696 769 577210467 577210540 1.540000e-23 121.0
16 TraesCS3B01G526700 chr3D 89.583 48 5 0 2227 2274 110314538 110314585 9.470000e-06 62.1
17 TraesCS3B01G526700 chr3A 94.980 976 46 2 1189 2161 712545425 712546400 0.000000e+00 1528.0
18 TraesCS3B01G526700 chr3A 87.663 997 109 13 1175 2163 711286403 711285413 0.000000e+00 1147.0
19 TraesCS3B01G526700 chr3A 86.403 1037 118 17 1188 2212 711260743 711259718 0.000000e+00 1112.0
20 TraesCS3B01G526700 chr3A 87.898 942 103 8 1231 2165 712552977 712553914 0.000000e+00 1098.0
21 TraesCS3B01G526700 chr3A 90.595 521 34 9 258 772 712544055 712544566 0.000000e+00 676.0
22 TraesCS3B01G526700 chr3A 86.494 348 34 9 826 1173 712545004 712545338 1.390000e-98 370.0
23 TraesCS3B01G526700 chr3A 93.701 127 4 2 152 274 712541633 712541759 1.500000e-43 187.0
24 TraesCS3B01G526700 chr3A 91.304 69 4 2 1000 1067 712552605 712552672 3.360000e-15 93.5
25 TraesCS3B01G526700 chr2B 97.636 846 19 1 2319 3163 529260013 529259168 0.000000e+00 1450.0
26 TraesCS3B01G526700 chr2B 87.755 147 12 4 1 141 11223309 11223455 1.950000e-37 167.0
27 TraesCS3B01G526700 chr2B 100.000 39 0 0 2222 2260 529260048 529260010 4.380000e-09 73.1
28 TraesCS3B01G526700 chr7A 91.879 825 35 10 2362 3163 127996649 127997464 0.000000e+00 1123.0
29 TraesCS3B01G526700 chr5D 86.426 803 86 19 2373 3163 412732341 412731550 0.000000e+00 857.0
30 TraesCS3B01G526700 chr5D 89.556 383 30 9 2787 3163 412731979 412731601 7.940000e-131 477.0
31 TraesCS3B01G526700 chr2A 81.609 435 68 12 2735 3163 15908362 15908790 1.810000e-92 350.0
32 TraesCS3B01G526700 chr2A 76.877 506 96 17 2668 3163 759877437 759876943 1.870000e-67 267.0
33 TraesCS3B01G526700 chr4D 79.559 499 91 9 2668 3163 67288703 67288213 2.340000e-91 346.0
34 TraesCS3B01G526700 chr7D 79.281 473 78 17 2702 3163 168492975 168492512 2.370000e-81 313.0
35 TraesCS3B01G526700 chr5B 88.667 150 13 3 2215 2361 482307133 482307281 2.510000e-41 180.0
36 TraesCS3B01G526700 chr5B 96.875 32 0 1 2244 2275 440563773 440563743 6.000000e-03 52.8
37 TraesCS3B01G526700 chr2D 89.474 57 6 0 2220 2276 125532206 125532262 4.380000e-09 73.1


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 TraesCS3B01G526700 chr3B 768744769 768747931 3162 True 5842.00 5842 100.000000 1 3163 1 chr3B.!!$R5 3162
1 TraesCS3B01G526700 chr3B 766660556 766661573 1017 True 1134.00 1134 86.952000 1175 2189 1 chr3B.!!$R4 1014
2 TraesCS3B01G526700 chr3B 766642212 766643166 954 True 1068.00 1068 87.020000 1225 2176 1 chr3B.!!$R3 951
3 TraesCS3B01G526700 chr3D 575736926 575740564 3638 True 1149.00 1160 87.815500 1184 2171 2 chr3D.!!$R1 987
4 TraesCS3B01G526700 chr3D 577237933 577240440 2507 False 783.00 1587 94.114333 519 2212 3 chr3D.!!$F4 1693
5 TraesCS3B01G526700 chr3D 577209994 577210540 546 False 405.00 689 94.243000 166 769 2 chr3D.!!$F3 603
6 TraesCS3B01G526700 chr3D 612530771 612531698 927 False 346.00 549 87.043500 2222 3163 2 chr3D.!!$F5 941
7 TraesCS3B01G526700 chr3A 711285413 711286403 990 True 1147.00 1147 87.663000 1175 2163 1 chr3A.!!$R2 988
8 TraesCS3B01G526700 chr3A 711259718 711260743 1025 True 1112.00 1112 86.403000 1188 2212 1 chr3A.!!$R1 1024
9 TraesCS3B01G526700 chr3A 712541633 712546400 4767 False 690.25 1528 91.442500 152 2161 4 chr3A.!!$F1 2009
10 TraesCS3B01G526700 chr3A 712552605 712553914 1309 False 595.75 1098 89.601000 1000 2165 2 chr3A.!!$F2 1165
11 TraesCS3B01G526700 chr2B 529259168 529260048 880 True 761.55 1450 98.818000 2222 3163 2 chr2B.!!$R1 941
12 TraesCS3B01G526700 chr7A 127996649 127997464 815 False 1123.00 1123 91.879000 2362 3163 1 chr7A.!!$F1 801
13 TraesCS3B01G526700 chr5D 412731550 412732341 791 True 667.00 857 87.991000 2373 3163 2 chr5D.!!$R1 790

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
496 2815 0.031585 GTACGCACAGACAGGTGACA 59.968 55.0 0.0 0.0 41.32 3.58 F
1221 4800 0.108992 ATTTGCTCTTGCCGCACATG 60.109 50.0 0.0 0.0 37.07 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1697 7966 0.044092 TGGCCAGGAAGTCCAGGATA 59.956 55.0 12.74 0.00 44.73 2.59 R
2171 8449 0.171231 GGAAATTTCCAGCTGGCGTC 59.829 55.0 28.91 17.96 46.76 5.19 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
18 19 2.460330 GTCGACTCATGGTTGGCTG 58.540 57.895 8.70 0.00 31.52 4.85
19 20 0.320771 GTCGACTCATGGTTGGCTGT 60.321 55.000 8.70 0.00 31.52 4.40
20 21 0.037326 TCGACTCATGGTTGGCTGTC 60.037 55.000 0.00 0.00 0.00 3.51
21 22 1.021390 CGACTCATGGTTGGCTGTCC 61.021 60.000 0.00 0.00 0.00 4.02
22 23 0.326264 GACTCATGGTTGGCTGTCCT 59.674 55.000 0.00 0.00 0.00 3.85
23 24 0.326264 ACTCATGGTTGGCTGTCCTC 59.674 55.000 0.00 0.00 0.00 3.71
24 25 0.742281 CTCATGGTTGGCTGTCCTCG 60.742 60.000 0.00 0.00 0.00 4.63
25 26 2.045926 ATGGTTGGCTGTCCTCGC 60.046 61.111 0.00 0.00 0.00 5.03
26 27 2.596851 ATGGTTGGCTGTCCTCGCT 61.597 57.895 0.00 0.00 0.00 4.93
27 28 2.032681 GGTTGGCTGTCCTCGCTT 59.967 61.111 0.00 0.00 0.00 4.68
28 29 1.295423 GGTTGGCTGTCCTCGCTTA 59.705 57.895 0.00 0.00 0.00 3.09
29 30 0.741221 GGTTGGCTGTCCTCGCTTAG 60.741 60.000 0.00 0.00 0.00 2.18
30 31 0.037232 GTTGGCTGTCCTCGCTTAGT 60.037 55.000 0.00 0.00 0.00 2.24
31 32 0.037326 TTGGCTGTCCTCGCTTAGTG 60.037 55.000 0.00 0.00 0.00 2.74
32 33 1.185618 TGGCTGTCCTCGCTTAGTGT 61.186 55.000 0.00 0.00 0.00 3.55
33 34 0.458716 GGCTGTCCTCGCTTAGTGTC 60.459 60.000 0.00 0.00 0.00 3.67
34 35 0.798771 GCTGTCCTCGCTTAGTGTCG 60.799 60.000 0.00 0.00 0.00 4.35
35 36 0.522180 CTGTCCTCGCTTAGTGTCGT 59.478 55.000 0.00 0.00 0.00 4.34
36 37 0.956633 TGTCCTCGCTTAGTGTCGTT 59.043 50.000 0.00 0.00 0.00 3.85
37 38 1.338973 TGTCCTCGCTTAGTGTCGTTT 59.661 47.619 0.00 0.00 0.00 3.60
38 39 1.984297 GTCCTCGCTTAGTGTCGTTTC 59.016 52.381 0.00 0.00 0.00 2.78
39 40 1.068055 TCCTCGCTTAGTGTCGTTTCC 60.068 52.381 0.00 0.00 0.00 3.13
40 41 1.067776 CCTCGCTTAGTGTCGTTTCCT 60.068 52.381 0.00 0.00 0.00 3.36
41 42 2.163010 CCTCGCTTAGTGTCGTTTCCTA 59.837 50.000 0.00 0.00 0.00 2.94
42 43 3.427243 CTCGCTTAGTGTCGTTTCCTAG 58.573 50.000 0.00 0.00 0.00 3.02
43 44 2.163010 TCGCTTAGTGTCGTTTCCTAGG 59.837 50.000 0.82 0.82 0.00 3.02
44 45 2.734492 CGCTTAGTGTCGTTTCCTAGGG 60.734 54.545 9.46 0.00 0.00 3.53
45 46 2.889852 CTTAGTGTCGTTTCCTAGGGC 58.110 52.381 9.46 0.00 0.00 5.19
46 47 2.226962 TAGTGTCGTTTCCTAGGGCT 57.773 50.000 9.46 0.00 0.00 5.19
47 48 1.349067 AGTGTCGTTTCCTAGGGCTT 58.651 50.000 9.46 0.00 0.00 4.35
48 49 1.002087 AGTGTCGTTTCCTAGGGCTTG 59.998 52.381 9.46 0.00 0.00 4.01
49 50 0.323629 TGTCGTTTCCTAGGGCTTGG 59.676 55.000 9.46 0.00 0.00 3.61
50 51 0.392595 GTCGTTTCCTAGGGCTTGGG 60.393 60.000 9.46 0.00 0.00 4.12
51 52 1.077716 CGTTTCCTAGGGCTTGGGG 60.078 63.158 9.46 0.00 0.00 4.96
52 53 1.306633 GTTTCCTAGGGCTTGGGGG 59.693 63.158 9.46 0.00 0.00 5.40
68 69 2.367107 GGGTCTTCTCCCCCTCCC 60.367 72.222 0.00 0.00 41.54 4.30
69 70 2.367107 GGTCTTCTCCCCCTCCCC 60.367 72.222 0.00 0.00 0.00 4.81
70 71 2.788589 GTCTTCTCCCCCTCCCCT 59.211 66.667 0.00 0.00 0.00 4.79
71 72 1.383386 GTCTTCTCCCCCTCCCCTC 60.383 68.421 0.00 0.00 0.00 4.30
72 73 1.550374 TCTTCTCCCCCTCCCCTCT 60.550 63.158 0.00 0.00 0.00 3.69
73 74 1.074850 CTTCTCCCCCTCCCCTCTC 60.075 68.421 0.00 0.00 0.00 3.20
74 75 1.550374 TTCTCCCCCTCCCCTCTCT 60.550 63.158 0.00 0.00 0.00 3.10
75 76 1.162951 TTCTCCCCCTCCCCTCTCTT 61.163 60.000 0.00 0.00 0.00 2.85
76 77 1.074850 CTCCCCCTCCCCTCTCTTC 60.075 68.421 0.00 0.00 0.00 2.87
77 78 1.550374 TCCCCCTCCCCTCTCTTCT 60.550 63.158 0.00 0.00 0.00 2.85
78 79 1.074850 CCCCCTCCCCTCTCTTCTC 60.075 68.421 0.00 0.00 0.00 2.87
79 80 1.074850 CCCCTCCCCTCTCTTCTCC 60.075 68.421 0.00 0.00 0.00 3.71
80 81 1.706575 CCCTCCCCTCTCTTCTCCA 59.293 63.158 0.00 0.00 0.00 3.86
81 82 0.267356 CCCTCCCCTCTCTTCTCCAT 59.733 60.000 0.00 0.00 0.00 3.41
82 83 1.422531 CCTCCCCTCTCTTCTCCATG 58.577 60.000 0.00 0.00 0.00 3.66
83 84 1.343884 CCTCCCCTCTCTTCTCCATGT 60.344 57.143 0.00 0.00 0.00 3.21
84 85 2.091055 CCTCCCCTCTCTTCTCCATGTA 60.091 54.545 0.00 0.00 0.00 2.29
85 86 3.631087 CCTCCCCTCTCTTCTCCATGTAA 60.631 52.174 0.00 0.00 0.00 2.41
86 87 4.033709 CTCCCCTCTCTTCTCCATGTAAA 58.966 47.826 0.00 0.00 0.00 2.01
87 88 4.635473 TCCCCTCTCTTCTCCATGTAAAT 58.365 43.478 0.00 0.00 0.00 1.40
88 89 4.656112 TCCCCTCTCTTCTCCATGTAAATC 59.344 45.833 0.00 0.00 0.00 2.17
89 90 4.657969 CCCCTCTCTTCTCCATGTAAATCT 59.342 45.833 0.00 0.00 0.00 2.40
90 91 5.221621 CCCCTCTCTTCTCCATGTAAATCTC 60.222 48.000 0.00 0.00 0.00 2.75
91 92 5.602145 CCCTCTCTTCTCCATGTAAATCTCT 59.398 44.000 0.00 0.00 0.00 3.10
92 93 6.462768 CCCTCTCTTCTCCATGTAAATCTCTG 60.463 46.154 0.00 0.00 0.00 3.35
93 94 6.098124 CCTCTCTTCTCCATGTAAATCTCTGT 59.902 42.308 0.00 0.00 0.00 3.41
94 95 6.871844 TCTCTTCTCCATGTAAATCTCTGTG 58.128 40.000 0.00 0.00 0.00 3.66
95 96 6.438741 TCTCTTCTCCATGTAAATCTCTGTGT 59.561 38.462 0.00 0.00 0.00 3.72
96 97 6.401394 TCTTCTCCATGTAAATCTCTGTGTG 58.599 40.000 0.00 0.00 0.00 3.82
97 98 5.745312 TCTCCATGTAAATCTCTGTGTGT 57.255 39.130 0.00 0.00 0.00 3.72
98 99 5.482006 TCTCCATGTAAATCTCTGTGTGTG 58.518 41.667 0.00 0.00 0.00 3.82
99 100 5.012046 TCTCCATGTAAATCTCTGTGTGTGT 59.988 40.000 0.00 0.00 0.00 3.72
100 101 5.237815 TCCATGTAAATCTCTGTGTGTGTC 58.762 41.667 0.00 0.00 0.00 3.67
101 102 5.012046 TCCATGTAAATCTCTGTGTGTGTCT 59.988 40.000 0.00 0.00 0.00 3.41
102 103 5.121298 CCATGTAAATCTCTGTGTGTGTCTG 59.879 44.000 0.00 0.00 0.00 3.51
103 104 5.276461 TGTAAATCTCTGTGTGTGTCTGT 57.724 39.130 0.00 0.00 0.00 3.41
104 105 5.049828 TGTAAATCTCTGTGTGTGTCTGTG 58.950 41.667 0.00 0.00 0.00 3.66
105 106 3.827008 AATCTCTGTGTGTGTCTGTGT 57.173 42.857 0.00 0.00 0.00 3.72
106 107 3.827008 ATCTCTGTGTGTGTCTGTGTT 57.173 42.857 0.00 0.00 0.00 3.32
107 108 3.610040 TCTCTGTGTGTGTCTGTGTTT 57.390 42.857 0.00 0.00 0.00 2.83
108 109 3.261580 TCTCTGTGTGTGTCTGTGTTTG 58.738 45.455 0.00 0.00 0.00 2.93
109 110 2.352651 CTCTGTGTGTGTCTGTGTTTGG 59.647 50.000 0.00 0.00 0.00 3.28
110 111 0.808125 TGTGTGTGTCTGTGTTTGGC 59.192 50.000 0.00 0.00 0.00 4.52
111 112 0.248054 GTGTGTGTCTGTGTTTGGCG 60.248 55.000 0.00 0.00 0.00 5.69
112 113 1.298339 GTGTGTCTGTGTTTGGCGC 60.298 57.895 0.00 0.00 0.00 6.53
113 114 2.331451 GTGTCTGTGTTTGGCGCC 59.669 61.111 22.73 22.73 0.00 6.53
114 115 2.124529 TGTCTGTGTTTGGCGCCA 60.125 55.556 29.03 29.03 0.00 5.69
115 116 2.331451 GTCTGTGTTTGGCGCCAC 59.669 61.111 32.95 20.33 0.00 5.01
116 117 2.186826 GTCTGTGTTTGGCGCCACT 61.187 57.895 32.95 0.00 32.76 4.00
117 118 1.891919 TCTGTGTTTGGCGCCACTC 60.892 57.895 32.95 24.68 32.76 3.51
118 119 1.893808 CTGTGTTTGGCGCCACTCT 60.894 57.895 32.95 0.00 32.76 3.24
119 120 1.447317 CTGTGTTTGGCGCCACTCTT 61.447 55.000 32.95 0.00 32.76 2.85
120 121 1.008538 GTGTTTGGCGCCACTCTTG 60.009 57.895 32.95 0.00 0.00 3.02
129 130 3.052082 CCACTCTTGGCTGCCGTG 61.052 66.667 14.98 14.99 35.56 4.94
130 131 2.281070 CACTCTTGGCTGCCGTGT 60.281 61.111 14.98 7.00 0.00 4.49
131 132 1.005037 CACTCTTGGCTGCCGTGTA 60.005 57.895 14.98 0.00 0.00 2.90
132 133 0.602638 CACTCTTGGCTGCCGTGTAA 60.603 55.000 14.98 1.29 0.00 2.41
133 134 0.324943 ACTCTTGGCTGCCGTGTAAT 59.675 50.000 14.98 0.00 0.00 1.89
134 135 1.009829 CTCTTGGCTGCCGTGTAATC 58.990 55.000 14.98 0.00 0.00 1.75
135 136 0.323302 TCTTGGCTGCCGTGTAATCA 59.677 50.000 14.98 0.00 0.00 2.57
136 137 1.065491 TCTTGGCTGCCGTGTAATCAT 60.065 47.619 14.98 0.00 0.00 2.45
137 138 1.331756 CTTGGCTGCCGTGTAATCATC 59.668 52.381 14.98 0.00 0.00 2.92
138 139 0.809636 TGGCTGCCGTGTAATCATCG 60.810 55.000 14.98 0.00 0.00 3.84
139 140 1.498865 GGCTGCCGTGTAATCATCGG 61.499 60.000 1.35 0.00 45.94 4.18
140 141 1.498865 GCTGCCGTGTAATCATCGGG 61.499 60.000 5.06 0.00 43.77 5.14
141 142 0.179084 CTGCCGTGTAATCATCGGGT 60.179 55.000 5.06 0.00 43.77 5.28
142 143 0.250793 TGCCGTGTAATCATCGGGTT 59.749 50.000 5.06 0.00 43.77 4.11
143 144 1.339247 TGCCGTGTAATCATCGGGTTT 60.339 47.619 5.06 0.00 43.77 3.27
144 145 1.741145 GCCGTGTAATCATCGGGTTTT 59.259 47.619 5.06 0.00 43.77 2.43
145 146 2.162809 GCCGTGTAATCATCGGGTTTTT 59.837 45.455 5.06 0.00 43.77 1.94
176 177 8.791327 AAATGGAAAGCAGAAAAGAAAGAAAA 57.209 26.923 0.00 0.00 0.00 2.29
270 2587 0.669625 GTCCGTACCACCTCACAAGC 60.670 60.000 0.00 0.00 0.00 4.01
402 2721 9.535878 TCAAATTGAAAAGTATGTTTGGGTTAC 57.464 29.630 0.00 0.00 0.00 2.50
455 2774 6.938030 ACTTCACTGTAAATTAATTCCGTCCA 59.062 34.615 0.10 0.00 0.00 4.02
476 2795 1.582610 AATAACGCCCGTGCCACAAG 61.583 55.000 0.00 0.00 0.00 3.16
494 2813 0.826256 AGGTACGCACAGACAGGTGA 60.826 55.000 0.00 0.00 41.32 4.02
495 2814 0.666577 GGTACGCACAGACAGGTGAC 60.667 60.000 0.00 0.00 41.32 3.67
496 2815 0.031585 GTACGCACAGACAGGTGACA 59.968 55.000 0.00 0.00 41.32 3.58
497 2816 0.031585 TACGCACAGACAGGTGACAC 59.968 55.000 0.00 0.00 41.32 3.67
535 2865 2.412937 GCAACAAAGTGCGCACCT 59.587 55.556 35.51 22.46 34.21 4.00
536 2866 1.652012 GCAACAAAGTGCGCACCTA 59.348 52.632 35.51 0.00 34.21 3.08
564 2895 1.690845 CCACTATCAGCCCCTGAGACT 60.691 57.143 1.20 0.00 44.08 3.24
570 2901 3.650950 GCCCCTGAGACTGGCCAA 61.651 66.667 7.01 0.00 39.30 4.52
669 3000 4.189188 CGCGACCTGTACCGGGAG 62.189 72.222 6.32 0.00 40.48 4.30
741 3072 0.986019 TATGGCCGGACTGGATGGTT 60.986 55.000 9.82 0.00 42.00 3.67
750 3081 2.416972 GGACTGGATGGTTACACTCGTC 60.417 54.545 0.00 0.00 0.00 4.20
772 3103 2.561037 CCGGTTTCCACAGGCCAAC 61.561 63.158 5.01 0.00 30.81 3.77
790 3152 4.626771 GCCAACCCAATACACATACAGGTA 60.627 45.833 0.00 0.00 0.00 3.08
794 3156 6.475596 ACCCAATACACATACAGGTACTAC 57.524 41.667 0.00 0.00 36.02 2.73
819 3181 4.712476 CAATTGGTGGAAAATGGAAACCA 58.288 39.130 0.00 0.00 39.11 3.67
838 3553 2.595386 CAATAGGAAACTGCAAACGGC 58.405 47.619 0.00 0.00 43.88 5.68
887 3602 2.396157 GCGCCAAACTTCCCGGTAG 61.396 63.158 0.00 0.00 0.00 3.18
935 3650 3.326747 AGACGAGTTTGCTTGGTACATC 58.673 45.455 0.00 0.00 39.30 3.06
962 3677 5.163280 TGCAAATAAGGGTTATAGTACCGCT 60.163 40.000 0.00 0.00 39.18 5.52
967 3682 2.963782 AGGGTTATAGTACCGCTCAAGG 59.036 50.000 0.00 0.00 39.18 3.61
985 3700 2.260822 AGGCACCTCAAGATACACAGT 58.739 47.619 0.00 0.00 0.00 3.55
1005 3720 1.893919 GATAGGCGAGGAGGATGGCC 61.894 65.000 0.00 0.00 43.84 5.36
1016 3731 2.575461 GATGGCCAAGCAAGGTGC 59.425 61.111 10.96 0.00 45.46 5.01
1069 3784 3.056313 GCCCTCGCAGCATTTCCAC 62.056 63.158 0.00 0.00 34.03 4.02
1080 3795 5.070001 GCAGCATTTCCACCAGGTAATATA 58.930 41.667 0.00 0.00 33.64 0.86
1081 3796 5.711976 GCAGCATTTCCACCAGGTAATATAT 59.288 40.000 0.00 0.00 33.64 0.86
1082 3797 6.884295 GCAGCATTTCCACCAGGTAATATATA 59.116 38.462 0.00 0.00 33.64 0.86
1083 3798 7.066284 GCAGCATTTCCACCAGGTAATATATAG 59.934 40.741 0.00 0.00 33.64 1.31
1084 3799 7.554118 CAGCATTTCCACCAGGTAATATATAGG 59.446 40.741 0.00 0.00 33.64 2.57
1088 4521 8.745149 TTTCCACCAGGTAATATATAGGCTTA 57.255 34.615 0.00 0.00 35.89 3.09
1091 4524 8.626473 TCCACCAGGTAATATATAGGCTTACTA 58.374 37.037 0.00 0.00 35.89 1.82
1110 4543 3.871594 ACTAATTAAGATGAGTGCACGCC 59.128 43.478 18.33 11.43 0.00 5.68
1125 4562 4.214119 GTGCACGCCTGTATATCAATCAAT 59.786 41.667 0.00 0.00 0.00 2.57
1180 4756 7.710676 AACACACAATATATTTGGGCTGTAA 57.289 32.000 0.00 0.00 0.00 2.41
1182 4758 6.096282 ACACACAATATATTTGGGCTGTAACC 59.904 38.462 0.00 0.00 0.00 2.85
1205 4781 5.006552 CCAACGCAACAAATCAAACTCATTT 59.993 36.000 0.00 0.00 0.00 2.32
1221 4800 0.108992 ATTTGCTCTTGCCGCACATG 60.109 50.000 0.00 0.00 37.07 3.21
1493 7762 1.679898 CTTCCCTGGCGTCTCCTTT 59.320 57.895 0.00 0.00 35.26 3.11
1551 7820 1.333636 CGGCCAGAAGACCATCCTCT 61.334 60.000 2.24 0.00 0.00 3.69
1697 7966 1.529948 CGCATCATTCATGGGGCCT 60.530 57.895 0.84 0.00 40.93 5.19
2001 8276 2.362503 GGGCTTACAACCAGGGGC 60.363 66.667 0.00 0.00 0.00 5.80
2018 8293 1.374252 GCTGATCAACCACGTCCGT 60.374 57.895 0.00 0.00 0.00 4.69
2120 8395 1.318576 CGGAGAACAACTTTGGGCTT 58.681 50.000 0.00 0.00 0.00 4.35
2171 8449 4.082190 TCCATTACTTTCTGAGTCCGACAG 60.082 45.833 0.40 0.00 39.86 3.51
2212 8494 7.462571 TCCTAGTATATTCGAATAAGCTGCA 57.537 36.000 21.05 7.90 0.00 4.41
2213 8495 8.067751 TCCTAGTATATTCGAATAAGCTGCAT 57.932 34.615 21.05 7.19 0.00 3.96
2214 8496 9.185680 TCCTAGTATATTCGAATAAGCTGCATA 57.814 33.333 21.05 6.23 0.00 3.14
2215 8497 9.973450 CCTAGTATATTCGAATAAGCTGCATAT 57.027 33.333 21.05 5.81 0.00 1.78
2368 8685 3.708734 CACGAACCGGGCGTTGAC 61.709 66.667 19.96 0.00 40.44 3.18
2547 8900 8.373048 ACTCGAGTGACAATGTAAACATTTTA 57.627 30.769 19.30 0.00 43.48 1.52
2677 9037 1.011684 CGCGCACGAAAAAGTCACA 60.012 52.632 8.75 0.00 43.93 3.58
2759 9121 4.306600 GACTTGCAATTGGGACGAAAAAT 58.693 39.130 7.72 0.00 0.00 1.82
3121 9490 9.239551 GACTTATAACTGGGACATAAAAAGGTT 57.760 33.333 0.00 0.00 38.20 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.320771 ACAGCCAACCATGAGTCGAC 60.321 55.000 7.70 7.70 0.00 4.20
1 2 0.037326 GACAGCCAACCATGAGTCGA 60.037 55.000 0.00 0.00 0.00 4.20
2 3 1.021390 GGACAGCCAACCATGAGTCG 61.021 60.000 0.00 0.00 0.00 4.18
3 4 0.326264 AGGACAGCCAACCATGAGTC 59.674 55.000 0.00 0.00 36.29 3.36
4 5 0.326264 GAGGACAGCCAACCATGAGT 59.674 55.000 0.00 0.00 36.29 3.41
5 6 0.742281 CGAGGACAGCCAACCATGAG 60.742 60.000 0.00 0.00 36.29 2.90
6 7 1.296392 CGAGGACAGCCAACCATGA 59.704 57.895 0.00 0.00 36.29 3.07
7 8 2.401766 GCGAGGACAGCCAACCATG 61.402 63.158 0.00 0.00 36.29 3.66
8 9 2.045926 GCGAGGACAGCCAACCAT 60.046 61.111 0.00 0.00 36.29 3.55
9 10 1.476845 TAAGCGAGGACAGCCAACCA 61.477 55.000 0.00 0.00 36.29 3.67
10 11 0.741221 CTAAGCGAGGACAGCCAACC 60.741 60.000 0.00 0.00 36.29 3.77
11 12 0.037232 ACTAAGCGAGGACAGCCAAC 60.037 55.000 0.00 0.00 36.29 3.77
12 13 0.037326 CACTAAGCGAGGACAGCCAA 60.037 55.000 0.00 0.00 36.29 4.52
13 14 1.185618 ACACTAAGCGAGGACAGCCA 61.186 55.000 0.00 0.00 36.29 4.75
14 15 0.458716 GACACTAAGCGAGGACAGCC 60.459 60.000 0.00 0.00 34.64 4.85
15 16 0.798771 CGACACTAAGCGAGGACAGC 60.799 60.000 0.00 0.00 0.00 4.40
16 17 0.522180 ACGACACTAAGCGAGGACAG 59.478 55.000 0.00 0.00 0.00 3.51
17 18 0.956633 AACGACACTAAGCGAGGACA 59.043 50.000 0.00 0.00 0.00 4.02
18 19 1.984297 GAAACGACACTAAGCGAGGAC 59.016 52.381 0.00 0.00 0.00 3.85
19 20 1.068055 GGAAACGACACTAAGCGAGGA 60.068 52.381 0.00 0.00 0.00 3.71
20 21 1.067776 AGGAAACGACACTAAGCGAGG 60.068 52.381 0.00 0.00 0.00 4.63
21 22 2.349297 AGGAAACGACACTAAGCGAG 57.651 50.000 0.00 0.00 0.00 5.03
22 23 2.163010 CCTAGGAAACGACACTAAGCGA 59.837 50.000 1.05 0.00 0.00 4.93
23 24 2.527100 CCTAGGAAACGACACTAAGCG 58.473 52.381 1.05 0.00 0.00 4.68
24 25 2.889852 CCCTAGGAAACGACACTAAGC 58.110 52.381 11.48 0.00 0.00 3.09
25 26 2.496470 AGCCCTAGGAAACGACACTAAG 59.504 50.000 11.48 0.00 0.00 2.18
26 27 2.532843 AGCCCTAGGAAACGACACTAA 58.467 47.619 11.48 0.00 0.00 2.24
27 28 2.226962 AGCCCTAGGAAACGACACTA 57.773 50.000 11.48 0.00 0.00 2.74
28 29 1.002087 CAAGCCCTAGGAAACGACACT 59.998 52.381 11.48 0.00 0.00 3.55
29 30 1.439679 CAAGCCCTAGGAAACGACAC 58.560 55.000 11.48 0.00 0.00 3.67
30 31 0.323629 CCAAGCCCTAGGAAACGACA 59.676 55.000 11.48 0.00 0.00 4.35
31 32 0.392595 CCCAAGCCCTAGGAAACGAC 60.393 60.000 11.48 0.00 0.00 4.34
32 33 1.559065 CCCCAAGCCCTAGGAAACGA 61.559 60.000 11.48 0.00 0.00 3.85
33 34 1.077716 CCCCAAGCCCTAGGAAACG 60.078 63.158 11.48 0.00 0.00 3.60
34 35 1.306633 CCCCCAAGCCCTAGGAAAC 59.693 63.158 11.48 0.00 0.00 2.78
35 36 3.850061 CCCCCAAGCCCTAGGAAA 58.150 61.111 11.48 0.00 0.00 3.13
52 53 2.367107 GGGGAGGGGGAGAAGACC 60.367 72.222 0.00 0.00 0.00 3.85
53 54 1.383386 GAGGGGAGGGGGAGAAGAC 60.383 68.421 0.00 0.00 0.00 3.01
54 55 1.550374 AGAGGGGAGGGGGAGAAGA 60.550 63.158 0.00 0.00 0.00 2.87
55 56 1.074850 GAGAGGGGAGGGGGAGAAG 60.075 68.421 0.00 0.00 0.00 2.85
56 57 1.162951 AAGAGAGGGGAGGGGGAGAA 61.163 60.000 0.00 0.00 0.00 2.87
57 58 1.550374 AAGAGAGGGGAGGGGGAGA 60.550 63.158 0.00 0.00 0.00 3.71
58 59 1.074850 GAAGAGAGGGGAGGGGGAG 60.075 68.421 0.00 0.00 0.00 4.30
59 60 1.550374 AGAAGAGAGGGGAGGGGGA 60.550 63.158 0.00 0.00 0.00 4.81
60 61 1.074850 GAGAAGAGAGGGGAGGGGG 60.075 68.421 0.00 0.00 0.00 5.40
61 62 1.074850 GGAGAAGAGAGGGGAGGGG 60.075 68.421 0.00 0.00 0.00 4.79
62 63 0.267356 ATGGAGAAGAGAGGGGAGGG 59.733 60.000 0.00 0.00 0.00 4.30
63 64 1.343884 ACATGGAGAAGAGAGGGGAGG 60.344 57.143 0.00 0.00 0.00 4.30
64 65 2.173126 ACATGGAGAAGAGAGGGGAG 57.827 55.000 0.00 0.00 0.00 4.30
65 66 3.776731 TTACATGGAGAAGAGAGGGGA 57.223 47.619 0.00 0.00 0.00 4.81
66 67 4.657969 AGATTTACATGGAGAAGAGAGGGG 59.342 45.833 0.00 0.00 0.00 4.79
67 68 5.602145 AGAGATTTACATGGAGAAGAGAGGG 59.398 44.000 0.00 0.00 0.00 4.30
68 69 6.098124 ACAGAGATTTACATGGAGAAGAGAGG 59.902 42.308 0.00 0.00 0.00 3.69
69 70 6.979817 CACAGAGATTTACATGGAGAAGAGAG 59.020 42.308 0.00 0.00 0.00 3.20
70 71 6.438741 ACACAGAGATTTACATGGAGAAGAGA 59.561 38.462 0.00 0.00 0.00 3.10
71 72 6.534436 CACACAGAGATTTACATGGAGAAGAG 59.466 42.308 0.00 0.00 0.00 2.85
72 73 6.014242 ACACACAGAGATTTACATGGAGAAGA 60.014 38.462 0.00 0.00 0.00 2.87
73 74 6.091849 CACACACAGAGATTTACATGGAGAAG 59.908 42.308 0.00 0.00 0.00 2.85
74 75 5.934043 CACACACAGAGATTTACATGGAGAA 59.066 40.000 0.00 0.00 0.00 2.87
75 76 5.012046 ACACACACAGAGATTTACATGGAGA 59.988 40.000 0.00 0.00 0.00 3.71
76 77 5.240891 ACACACACAGAGATTTACATGGAG 58.759 41.667 0.00 0.00 0.00 3.86
77 78 5.012046 AGACACACACAGAGATTTACATGGA 59.988 40.000 0.00 0.00 0.00 3.41
78 79 5.121298 CAGACACACACAGAGATTTACATGG 59.879 44.000 0.00 0.00 0.00 3.66
79 80 5.698089 ACAGACACACACAGAGATTTACATG 59.302 40.000 0.00 0.00 0.00 3.21
80 81 5.698089 CACAGACACACACAGAGATTTACAT 59.302 40.000 0.00 0.00 0.00 2.29
81 82 5.049828 CACAGACACACACAGAGATTTACA 58.950 41.667 0.00 0.00 0.00 2.41
82 83 5.050490 ACACAGACACACACAGAGATTTAC 58.950 41.667 0.00 0.00 0.00 2.01
83 84 5.276461 ACACAGACACACACAGAGATTTA 57.724 39.130 0.00 0.00 0.00 1.40
84 85 4.142609 ACACAGACACACACAGAGATTT 57.857 40.909 0.00 0.00 0.00 2.17
85 86 3.827008 ACACAGACACACACAGAGATT 57.173 42.857 0.00 0.00 0.00 2.40
86 87 3.827008 AACACAGACACACACAGAGAT 57.173 42.857 0.00 0.00 0.00 2.75
87 88 3.261580 CAAACACAGACACACACAGAGA 58.738 45.455 0.00 0.00 0.00 3.10
88 89 2.352651 CCAAACACAGACACACACAGAG 59.647 50.000 0.00 0.00 0.00 3.35
89 90 2.355197 CCAAACACAGACACACACAGA 58.645 47.619 0.00 0.00 0.00 3.41
90 91 1.202177 GCCAAACACAGACACACACAG 60.202 52.381 0.00 0.00 0.00 3.66
91 92 0.808125 GCCAAACACAGACACACACA 59.192 50.000 0.00 0.00 0.00 3.72
92 93 0.248054 CGCCAAACACAGACACACAC 60.248 55.000 0.00 0.00 0.00 3.82
93 94 1.987704 GCGCCAAACACAGACACACA 61.988 55.000 0.00 0.00 0.00 3.72
94 95 1.298339 GCGCCAAACACAGACACAC 60.298 57.895 0.00 0.00 0.00 3.82
95 96 2.477176 GGCGCCAAACACAGACACA 61.477 57.895 24.80 0.00 0.00 3.72
96 97 2.331451 GGCGCCAAACACAGACAC 59.669 61.111 24.80 0.00 0.00 3.67
97 98 2.124529 TGGCGCCAAACACAGACA 60.125 55.556 30.74 0.00 0.00 3.41
98 99 2.117941 GAGTGGCGCCAAACACAGAC 62.118 60.000 34.66 16.62 39.99 3.51
99 100 1.891919 GAGTGGCGCCAAACACAGA 60.892 57.895 34.66 1.55 39.99 3.41
100 101 1.447317 AAGAGTGGCGCCAAACACAG 61.447 55.000 34.66 0.00 39.99 3.66
101 102 1.453015 AAGAGTGGCGCCAAACACA 60.453 52.632 34.66 3.51 39.99 3.72
102 103 1.008538 CAAGAGTGGCGCCAAACAC 60.009 57.895 34.66 19.60 37.86 3.32
103 104 2.192861 CCAAGAGTGGCGCCAAACA 61.193 57.895 34.66 5.01 38.35 2.83
104 105 2.644992 CCAAGAGTGGCGCCAAAC 59.355 61.111 34.66 26.79 38.35 2.93
113 114 0.602638 TTACACGGCAGCCAAGAGTG 60.603 55.000 13.30 13.67 38.63 3.51
114 115 0.324943 ATTACACGGCAGCCAAGAGT 59.675 50.000 13.30 6.27 0.00 3.24
115 116 1.009829 GATTACACGGCAGCCAAGAG 58.990 55.000 13.30 0.00 0.00 2.85
116 117 0.323302 TGATTACACGGCAGCCAAGA 59.677 50.000 13.30 0.00 0.00 3.02
117 118 1.331756 GATGATTACACGGCAGCCAAG 59.668 52.381 13.30 5.30 0.00 3.61
118 119 1.378531 GATGATTACACGGCAGCCAA 58.621 50.000 13.30 0.00 0.00 4.52
119 120 0.809636 CGATGATTACACGGCAGCCA 60.810 55.000 13.30 0.00 0.00 4.75
120 121 1.498865 CCGATGATTACACGGCAGCC 61.499 60.000 0.00 0.00 40.19 4.85
121 122 1.498865 CCCGATGATTACACGGCAGC 61.499 60.000 0.00 0.00 44.45 5.25
122 123 0.179084 ACCCGATGATTACACGGCAG 60.179 55.000 0.00 0.00 44.45 4.85
123 124 0.250793 AACCCGATGATTACACGGCA 59.749 50.000 0.00 0.00 44.45 5.69
124 125 1.375551 AAACCCGATGATTACACGGC 58.624 50.000 0.00 0.00 44.45 5.68
142 143 5.021033 TCTGCTTTCCATTTCTGCAAAAA 57.979 34.783 0.00 0.00 33.07 1.94
143 144 4.669206 TCTGCTTTCCATTTCTGCAAAA 57.331 36.364 0.00 0.00 33.07 2.44
144 145 4.669206 TTCTGCTTTCCATTTCTGCAAA 57.331 36.364 0.00 0.00 33.07 3.68
145 146 4.669206 TTTCTGCTTTCCATTTCTGCAA 57.331 36.364 0.00 0.00 33.07 4.08
146 147 4.341806 TCTTTTCTGCTTTCCATTTCTGCA 59.658 37.500 0.00 0.00 0.00 4.41
147 148 4.874970 TCTTTTCTGCTTTCCATTTCTGC 58.125 39.130 0.00 0.00 0.00 4.26
148 149 7.205297 TCTTTCTTTTCTGCTTTCCATTTCTG 58.795 34.615 0.00 0.00 0.00 3.02
149 150 7.352079 TCTTTCTTTTCTGCTTTCCATTTCT 57.648 32.000 0.00 0.00 0.00 2.52
150 151 8.424274 TTTCTTTCTTTTCTGCTTTCCATTTC 57.576 30.769 0.00 0.00 0.00 2.17
202 205 6.687081 TCTACGTTGTTTCATCTGGTTTTT 57.313 33.333 0.00 0.00 0.00 1.94
270 2587 1.283736 GGTACAAATCGCCCACTACG 58.716 55.000 0.00 0.00 0.00 3.51
391 2709 6.553100 AGAAATTGGATCTTGTAACCCAAACA 59.447 34.615 0.00 0.00 41.40 2.83
402 2721 5.048782 TGGTTTCACGAGAAATTGGATCTTG 60.049 40.000 11.20 0.00 44.87 3.02
455 2774 0.107606 TGTGGCACGGGCGTTATTAT 60.108 50.000 13.77 0.00 42.47 1.28
476 2795 0.666577 GTCACCTGTCTGTGCGTACC 60.667 60.000 0.00 0.00 36.17 3.34
494 2813 4.518211 ACTAGCTACGTTACTTGTCAGTGT 59.482 41.667 0.00 0.00 34.06 3.55
495 2814 4.852104 CACTAGCTACGTTACTTGTCAGTG 59.148 45.833 0.00 0.00 34.06 3.66
496 2815 4.615452 GCACTAGCTACGTTACTTGTCAGT 60.615 45.833 0.00 0.00 37.91 3.41
497 2816 3.852536 GCACTAGCTACGTTACTTGTCAG 59.147 47.826 0.00 0.00 37.91 3.51
534 2864 1.277557 GCTGATAGTGGCCCTGGATAG 59.722 57.143 0.00 0.00 0.00 2.08
535 2865 1.352083 GCTGATAGTGGCCCTGGATA 58.648 55.000 0.00 0.00 0.00 2.59
536 2866 1.422161 GGCTGATAGTGGCCCTGGAT 61.422 60.000 0.00 0.00 42.30 3.41
564 2895 2.803155 GATGACCGCTGACTTGGCCA 62.803 60.000 0.00 0.00 0.00 5.36
741 3072 0.752054 AAACCGGTTGGACGAGTGTA 59.248 50.000 23.08 0.00 39.21 2.90
750 3081 2.561037 GCCTGTGGAAACCGGTTGG 61.561 63.158 23.08 17.44 42.84 3.77
772 3103 5.508489 CCGTAGTACCTGTATGTGTATTGGG 60.508 48.000 0.00 0.00 0.00 4.12
790 3152 2.279935 TTTCCACCAATTGCCGTAGT 57.720 45.000 0.00 0.00 0.00 2.73
794 3156 1.274728 TCCATTTTCCACCAATTGCCG 59.725 47.619 0.00 0.00 0.00 5.69
819 3181 1.199097 CGCCGTTTGCAGTTTCCTATT 59.801 47.619 0.00 0.00 41.33 1.73
838 3553 4.271816 CGCTCCCGATCCAGTCCG 62.272 72.222 0.00 0.00 36.29 4.79
902 3617 5.530171 AGCAAACTCGTCTCTTATATACCGA 59.470 40.000 0.00 0.00 0.00 4.69
903 3618 5.759963 AGCAAACTCGTCTCTTATATACCG 58.240 41.667 0.00 0.00 0.00 4.02
935 3650 6.148811 CGGTACTATAACCCTTATTTGCATGG 59.851 42.308 0.00 0.00 36.03 3.66
962 3677 2.637382 TGTGTATCTTGAGGTGCCTTGA 59.363 45.455 0.00 0.00 0.00 3.02
967 3682 3.319137 TCACTGTGTATCTTGAGGTGC 57.681 47.619 7.79 0.00 0.00 5.01
985 3700 1.188219 GCCATCCTCCTCGCCTATCA 61.188 60.000 0.00 0.00 0.00 2.15
1016 3731 0.109272 CACTGCAAGCATGGAAGCAG 60.109 55.000 11.30 11.30 44.31 4.24
1080 3795 8.651389 TGCACTCATCTTAATTAGTAAGCCTAT 58.349 33.333 0.00 0.00 39.36 2.57
1081 3796 7.926555 GTGCACTCATCTTAATTAGTAAGCCTA 59.073 37.037 10.32 0.00 39.36 3.93
1082 3797 6.763610 GTGCACTCATCTTAATTAGTAAGCCT 59.236 38.462 10.32 0.00 39.36 4.58
1083 3798 6.292381 CGTGCACTCATCTTAATTAGTAAGCC 60.292 42.308 16.19 0.00 39.36 4.35
1084 3799 6.641062 CGTGCACTCATCTTAATTAGTAAGC 58.359 40.000 16.19 0.00 39.36 3.09
1088 4521 3.871594 GGCGTGCACTCATCTTAATTAGT 59.128 43.478 16.19 0.00 0.00 2.24
1091 4524 2.679837 CAGGCGTGCACTCATCTTAATT 59.320 45.455 16.19 0.00 0.00 1.40
1101 4534 2.979814 TTGATATACAGGCGTGCACT 57.020 45.000 16.19 0.00 0.00 4.40
1151 4631 9.248291 CAGCCCAAATATATTGTGTGTTAATTC 57.752 33.333 0.00 0.00 0.00 2.17
1157 4637 6.096282 GGTTACAGCCCAAATATATTGTGTGT 59.904 38.462 0.00 2.36 0.00 3.72
1168 4648 0.601057 GCGTTGGTTACAGCCCAAAT 59.399 50.000 0.00 0.00 43.30 2.32
1180 4756 3.119316 TGAGTTTGATTTGTTGCGTTGGT 60.119 39.130 0.00 0.00 0.00 3.67
1182 4758 5.640218 AATGAGTTTGATTTGTTGCGTTG 57.360 34.783 0.00 0.00 0.00 4.10
1205 4781 1.454572 AAACATGTGCGGCAAGAGCA 61.455 50.000 3.23 0.00 44.61 4.26
1265 4882 3.670377 GGTGCCGGCAGGTTGTTC 61.670 66.667 33.73 16.59 40.50 3.18
1341 4958 1.461091 TTGAGGACGTTGCTCTCCGT 61.461 55.000 0.00 0.00 35.71 4.69
1415 7684 4.373116 TCGTTGGCGAGGCTGGTC 62.373 66.667 0.00 0.00 42.81 4.02
1493 7762 4.246206 CCGACGGCGATGTAGCGA 62.246 66.667 15.16 0.00 40.82 4.93
1523 7792 3.154473 TTCTGGCCGGCGCTATCT 61.154 61.111 22.54 0.00 34.44 1.98
1526 7795 4.143333 GTCTTCTGGCCGGCGCTA 62.143 66.667 22.54 8.53 34.44 4.26
1551 7820 0.617935 TGGATGTTCTTCATGGCCGA 59.382 50.000 0.00 0.00 36.83 5.54
1680 7949 2.097825 GATAGGCCCCATGAATGATGC 58.902 52.381 0.00 0.00 0.00 3.91
1697 7966 0.044092 TGGCCAGGAAGTCCAGGATA 59.956 55.000 12.74 0.00 44.73 2.59
1973 8248 4.367023 TAAGCCCGCGCGTTCAGT 62.367 61.111 29.95 12.08 41.18 3.41
1975 8250 4.666397 TGTAAGCCCGCGCGTTCA 62.666 61.111 29.95 11.28 41.18 3.18
2001 8276 2.445274 CACGGACGTGGTTGATCAG 58.555 57.895 16.46 0.00 42.00 2.90
2043 8318 2.930040 CGAAAATGTACGTCTCCAGCAT 59.070 45.455 0.00 0.00 0.00 3.79
2120 8395 1.153353 GCGACTTGTCCGGATTGAAA 58.847 50.000 7.81 0.00 0.00 2.69
2171 8449 0.171231 GGAAATTTCCAGCTGGCGTC 59.829 55.000 28.91 17.96 46.76 5.19
2212 8494 9.548631 AGCTATAGACACACCCTTAACATATAT 57.451 33.333 3.21 0.00 0.00 0.86
2213 8495 8.951614 AGCTATAGACACACCCTTAACATATA 57.048 34.615 3.21 0.00 0.00 0.86
2214 8496 7.509318 TGAGCTATAGACACACCCTTAACATAT 59.491 37.037 3.21 0.00 0.00 1.78
2215 8497 6.837048 TGAGCTATAGACACACCCTTAACATA 59.163 38.462 3.21 0.00 0.00 2.29
2216 8498 5.661312 TGAGCTATAGACACACCCTTAACAT 59.339 40.000 3.21 0.00 0.00 2.71
2217 8499 5.020795 TGAGCTATAGACACACCCTTAACA 58.979 41.667 3.21 0.00 0.00 2.41
2218 8500 5.593679 TGAGCTATAGACACACCCTTAAC 57.406 43.478 3.21 0.00 0.00 2.01
2219 8501 6.136857 AGATGAGCTATAGACACACCCTTAA 58.863 40.000 3.21 0.00 0.00 1.85
2220 8502 5.706447 AGATGAGCTATAGACACACCCTTA 58.294 41.667 3.21 0.00 0.00 2.69
2368 8685 2.806856 GCGGCTCAACATCAGCGAG 61.807 63.158 0.00 0.00 37.81 5.03
2414 8746 4.923281 GCAAAATTCCTGTAGCAAATCGTT 59.077 37.500 0.00 0.00 0.00 3.85
2863 9226 2.016393 CTCGCAACTGGAGCCCGATA 62.016 60.000 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.