Multiple sequence alignment - TraesCS7A01G081700

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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 TraesCS7A01G081700 chr7A 100.000 3146 0 0 1 3146 47006277 47009422 0.000000e+00 5810.0
1 TraesCS7A01G081700 chr7A 77.966 1357 243 37 910 2226 47283032 47284372 0.000000e+00 798.0
2 TraesCS7A01G081700 chr7A 77.932 1228 229 29 985 2184 43015313 43014100 0.000000e+00 728.0
3 TraesCS7A01G081700 chr7D 94.407 2986 110 22 192 3141 44537456 44540420 0.000000e+00 4536.0
4 TraesCS7A01G081700 chr7D 78.392 1430 218 56 893 2247 44530419 44531832 0.000000e+00 845.0
5 TraesCS7A01G081700 chr7D 76.667 660 138 14 1342 1997 44542258 44542905 4.990000e-93 351.0
6 TraesCS7A01G081700 chr4A 91.900 2210 129 19 802 2971 656249560 656251759 0.000000e+00 3044.0
7 TraesCS7A01G081700 chr4A 91.634 1518 82 14 1492 2971 656472923 656474433 0.000000e+00 2058.0
8 TraesCS7A01G081700 chr4A 93.357 1385 88 4 802 2183 656029810 656031193 0.000000e+00 2045.0
9 TraesCS7A01G081700 chr4A 78.656 1354 227 41 919 2245 656499531 656498213 0.000000e+00 843.0
10 TraesCS7A01G081700 chr4A 92.742 496 26 2 2486 2971 656031283 656031778 0.000000e+00 708.0
11 TraesCS7A01G081700 chr4A 92.358 458 32 3 802 1257 656472460 656472916 0.000000e+00 649.0
12 TraesCS7A01G081700 chr4A 79.977 874 146 22 1288 2152 655659099 655659952 4.460000e-173 617.0
13 TraesCS7A01G081700 chr4A 88.300 453 27 15 304 735 656029333 656029780 1.290000e-143 520.0
14 TraesCS7A01G081700 chr4A 88.079 453 28 14 304 735 656249083 656249530 6.020000e-142 514.0
15 TraesCS7A01G081700 chr4A 91.781 365 20 3 2787 3143 656486602 656486964 1.680000e-137 499.0
16 TraesCS7A01G081700 chr4A 89.623 318 16 3 2787 3104 655469502 655469802 3.810000e-104 388.0
17 TraesCS7A01G081700 chr4A 80.556 432 69 11 1824 2247 655663943 655664367 5.060000e-83 318.0
18 TraesCS7A01G081700 chr4A 96.296 189 5 2 1 187 729868935 729869123 3.050000e-80 309.0
19 TraesCS7A01G081700 chr4A 90.667 225 17 2 304 524 656471961 656472185 2.370000e-76 296.0
20 TraesCS7A01G081700 chr4A 88.739 222 9 6 525 735 656472214 656472430 1.120000e-64 257.0
21 TraesCS7A01G081700 chr4A 77.303 445 79 18 1288 1726 656035607 656036035 3.130000e-60 243.0
22 TraesCS7A01G081700 chr4A 91.358 162 7 1 2992 3146 656474619 656474780 6.830000e-52 215.0
23 TraesCS7A01G081700 chr4A 93.694 111 7 0 200 310 655672010 655672120 1.940000e-37 167.0
24 TraesCS7A01G081700 chr4A 96.000 50 2 0 2217 2266 656031193 656031242 7.230000e-12 82.4
25 TraesCS7A01G081700 chr4A 95.652 46 2 0 2449 2494 651140051 651140096 1.210000e-09 75.0
26 TraesCS7A01G081700 chr3D 76.227 1039 194 35 997 2012 9132093 9131085 4.680000e-138 501.0
27 TraesCS7A01G081700 chr3A 74.780 1138 193 58 997 2106 11865278 11866349 2.900000e-115 425.0
28 TraesCS7A01G081700 chr3A 97.312 186 4 1 1 185 709042251 709042066 6.550000e-82 315.0
29 TraesCS7A01G081700 chr3B 75.153 978 195 31 997 1954 11475349 11474400 1.750000e-112 416.0
30 TraesCS7A01G081700 chr3B 97.340 188 4 1 1 187 623667399 623667586 5.060000e-83 318.0
31 TraesCS7A01G081700 chr3B 95.652 46 2 0 2449 2494 118815901 118815856 1.210000e-09 75.0
32 TraesCS7A01G081700 chr6A 96.791 187 5 1 1 186 181910033 181909847 8.470000e-81 311.0
33 TraesCS7A01G081700 chr5B 96.316 190 5 2 1 189 674376656 674376468 8.470000e-81 311.0
34 TraesCS7A01G081700 chr5B 94.030 201 10 2 1 199 141583914 141583714 1.420000e-78 303.0
35 TraesCS7A01G081700 chr5B 95.652 46 2 0 2449 2494 554673695 554673740 1.210000e-09 75.0
36 TraesCS7A01G081700 chr2B 96.791 187 4 2 1 185 77779410 77779596 8.470000e-81 311.0
37 TraesCS7A01G081700 chr7B 95.812 191 7 1 1 190 602082742 602082552 1.100000e-79 307.0
38 TraesCS7A01G081700 chr7B 94.444 198 7 2 1 194 120740390 120740587 5.100000e-78 302.0
39 TraesCS7A01G081700 chrUn 95.652 46 2 0 2449 2494 3175323 3175278 1.210000e-09 75.0
40 TraesCS7A01G081700 chr6B 95.652 46 2 0 2449 2494 645493428 645493383 1.210000e-09 75.0
41 TraesCS7A01G081700 chr1B 95.652 46 2 0 2449 2494 635185481 635185526 1.210000e-09 75.0


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 TraesCS7A01G081700 chr7A 47006277 47009422 3145 False 5810.00 5810 100.0000 1 3146 1 chr7A.!!$F1 3145
1 TraesCS7A01G081700 chr7A 47283032 47284372 1340 False 798.00 798 77.9660 910 2226 1 chr7A.!!$F2 1316
2 TraesCS7A01G081700 chr7A 43014100 43015313 1213 True 728.00 728 77.9320 985 2184 1 chr7A.!!$R1 1199
3 TraesCS7A01G081700 chr7D 44537456 44542905 5449 False 2443.50 4536 85.5370 192 3141 2 chr7D.!!$F2 2949
4 TraesCS7A01G081700 chr7D 44530419 44531832 1413 False 845.00 845 78.3920 893 2247 1 chr7D.!!$F1 1354
5 TraesCS7A01G081700 chr4A 656249083 656251759 2676 False 1779.00 3044 89.9895 304 2971 2 chr4A.!!$F8 2667
6 TraesCS7A01G081700 chr4A 656498213 656499531 1318 True 843.00 843 78.6560 919 2245 1 chr4A.!!$R1 1326
7 TraesCS7A01G081700 chr4A 656029333 656036035 6702 False 719.68 2045 89.5404 304 2971 5 chr4A.!!$F7 2667
8 TraesCS7A01G081700 chr4A 656471961 656474780 2819 False 695.00 2058 90.9512 304 3146 5 chr4A.!!$F9 2842
9 TraesCS7A01G081700 chr4A 655659099 655664367 5268 False 467.50 617 80.2665 1288 2247 2 chr4A.!!$F6 959
10 TraesCS7A01G081700 chr3D 9131085 9132093 1008 True 501.00 501 76.2270 997 2012 1 chr3D.!!$R1 1015
11 TraesCS7A01G081700 chr3A 11865278 11866349 1071 False 425.00 425 74.7800 997 2106 1 chr3A.!!$F1 1109
12 TraesCS7A01G081700 chr3B 11474400 11475349 949 True 416.00 416 75.1530 997 1954 1 chr3B.!!$R1 957

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
96 97 0.033601 AGTCTCTCGGAGGTGCTCAT 60.034 55.0 4.96 0.0 31.08 2.90 F
133 134 0.037447 TGTGCGTTCATGGGGATGAA 59.963 50.0 0.00 0.0 38.14 2.57 F
1165 1232 0.106149 GTTCAACCTCGGACACCACT 59.894 55.0 0.00 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1820 1994 1.121407 CCAGGTCCCGGCATCATAGA 61.121 60.0 0.0 0.0 0.00 1.98 R
2124 6622 7.880160 TCTTTATAACACAATGGAGAATGGG 57.120 36.0 0.0 0.0 0.00 4.00 R
3045 7761 0.539669 AGAAAAGACCCCCGCAAAGG 60.540 55.0 0.0 0.0 40.63 3.11 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
17 18 4.945645 TCAGTGGGAGGAGACGTT 57.054 55.556 0.00 0.00 0.00 3.99
18 19 2.654802 TCAGTGGGAGGAGACGTTC 58.345 57.895 0.00 0.00 0.00 3.95
41 42 4.883300 GACGACGAGGCGCCTACG 62.883 72.222 32.91 32.91 44.07 3.51
44 45 4.849329 GACGAGGCGCCTACGGTG 62.849 72.222 34.97 23.88 40.57 4.94
46 47 4.849329 CGAGGCGCCTACGGTGAC 62.849 72.222 32.97 14.51 42.50 3.67
49 50 2.508663 GGCGCCTACGGTGACTTC 60.509 66.667 22.15 0.00 38.38 3.01
50 51 2.879462 GCGCCTACGGTGACTTCG 60.879 66.667 0.00 0.00 40.57 3.79
51 52 2.564975 CGCCTACGGTGACTTCGT 59.435 61.111 0.00 0.00 43.64 3.85
52 53 1.796151 CGCCTACGGTGACTTCGTA 59.204 57.895 0.00 0.00 41.38 3.43
53 54 0.168788 CGCCTACGGTGACTTCGTAA 59.831 55.000 0.00 0.00 41.62 3.18
54 55 1.401409 CGCCTACGGTGACTTCGTAAA 60.401 52.381 0.00 0.00 41.62 2.01
55 56 2.733227 CGCCTACGGTGACTTCGTAAAT 60.733 50.000 0.00 0.00 41.62 1.40
56 57 2.856557 GCCTACGGTGACTTCGTAAATC 59.143 50.000 0.00 0.00 41.62 2.17
57 58 3.428589 GCCTACGGTGACTTCGTAAATCT 60.429 47.826 0.00 0.00 41.62 2.40
58 59 4.349501 CCTACGGTGACTTCGTAAATCTC 58.650 47.826 0.00 0.00 41.62 2.75
59 60 3.928727 ACGGTGACTTCGTAAATCTCA 57.071 42.857 0.00 0.00 39.22 3.27
60 61 4.247267 ACGGTGACTTCGTAAATCTCAA 57.753 40.909 0.00 0.00 39.22 3.02
61 62 4.235360 ACGGTGACTTCGTAAATCTCAAG 58.765 43.478 0.00 0.00 39.22 3.02
62 63 4.022589 ACGGTGACTTCGTAAATCTCAAGA 60.023 41.667 0.00 0.00 39.22 3.02
63 64 5.103000 CGGTGACTTCGTAAATCTCAAGAT 58.897 41.667 0.00 0.00 36.07 2.40
64 65 5.004821 CGGTGACTTCGTAAATCTCAAGATG 59.995 44.000 0.00 0.00 34.49 2.90
65 66 6.100004 GGTGACTTCGTAAATCTCAAGATGA 58.900 40.000 0.00 0.00 34.49 2.92
66 67 6.758886 GGTGACTTCGTAAATCTCAAGATGAT 59.241 38.462 0.00 0.00 34.49 2.45
67 68 7.921214 GGTGACTTCGTAAATCTCAAGATGATA 59.079 37.037 0.00 0.00 34.49 2.15
68 69 9.469807 GTGACTTCGTAAATCTCAAGATGATAT 57.530 33.333 0.00 0.00 34.49 1.63
69 70 9.468532 TGACTTCGTAAATCTCAAGATGATATG 57.531 33.333 0.00 0.00 34.49 1.78
70 71 8.304202 ACTTCGTAAATCTCAAGATGATATGC 57.696 34.615 0.00 0.00 34.49 3.14
71 72 7.386299 ACTTCGTAAATCTCAAGATGATATGCC 59.614 37.037 0.00 0.00 34.49 4.40
72 73 5.863935 TCGTAAATCTCAAGATGATATGCCG 59.136 40.000 0.00 0.00 34.49 5.69
73 74 5.062683 CGTAAATCTCAAGATGATATGCCGG 59.937 44.000 0.00 0.00 34.49 6.13
74 75 2.462456 TCTCAAGATGATATGCCGGC 57.538 50.000 22.73 22.73 0.00 6.13
75 76 1.973515 TCTCAAGATGATATGCCGGCT 59.026 47.619 29.70 15.76 0.00 5.52
76 77 2.028658 TCTCAAGATGATATGCCGGCTC 60.029 50.000 29.70 17.89 0.00 4.70
77 78 1.693606 TCAAGATGATATGCCGGCTCA 59.306 47.619 29.70 23.34 0.00 4.26
78 79 2.074576 CAAGATGATATGCCGGCTCAG 58.925 52.381 29.70 7.35 0.00 3.35
79 80 1.346062 AGATGATATGCCGGCTCAGT 58.654 50.000 29.70 13.44 0.00 3.41
80 81 1.274728 AGATGATATGCCGGCTCAGTC 59.725 52.381 29.70 19.55 0.00 3.51
81 82 1.274728 GATGATATGCCGGCTCAGTCT 59.725 52.381 29.70 8.26 0.00 3.24
82 83 0.676184 TGATATGCCGGCTCAGTCTC 59.324 55.000 29.70 15.31 0.00 3.36
83 84 0.965439 GATATGCCGGCTCAGTCTCT 59.035 55.000 29.70 3.16 0.00 3.10
84 85 0.965439 ATATGCCGGCTCAGTCTCTC 59.035 55.000 29.70 0.00 0.00 3.20
85 86 1.448119 TATGCCGGCTCAGTCTCTCG 61.448 60.000 29.70 0.00 0.00 4.04
86 87 4.200283 GCCGGCTCAGTCTCTCGG 62.200 72.222 22.15 0.00 43.13 4.63
87 88 2.438614 CCGGCTCAGTCTCTCGGA 60.439 66.667 0.00 0.00 42.94 4.55
88 89 2.477176 CCGGCTCAGTCTCTCGGAG 61.477 68.421 0.00 0.00 42.94 4.63
89 90 2.477176 CGGCTCAGTCTCTCGGAGG 61.477 68.421 4.96 0.00 38.48 4.30
90 91 1.379309 GGCTCAGTCTCTCGGAGGT 60.379 63.158 4.96 0.00 38.48 3.85
91 92 1.662438 GGCTCAGTCTCTCGGAGGTG 61.662 65.000 4.96 0.00 38.48 4.00
92 93 1.806568 CTCAGTCTCTCGGAGGTGC 59.193 63.158 4.96 0.00 35.32 5.01
93 94 0.679640 CTCAGTCTCTCGGAGGTGCT 60.680 60.000 4.96 0.00 35.32 4.40
94 95 0.678366 TCAGTCTCTCGGAGGTGCTC 60.678 60.000 4.96 0.00 0.00 4.26
95 96 0.962855 CAGTCTCTCGGAGGTGCTCA 60.963 60.000 4.96 0.00 31.08 4.26
96 97 0.033601 AGTCTCTCGGAGGTGCTCAT 60.034 55.000 4.96 0.00 31.08 2.90
97 98 1.213182 AGTCTCTCGGAGGTGCTCATA 59.787 52.381 4.96 0.00 31.08 2.15
98 99 1.606668 GTCTCTCGGAGGTGCTCATAG 59.393 57.143 4.96 0.00 31.08 2.23
99 100 0.958091 CTCTCGGAGGTGCTCATAGG 59.042 60.000 4.96 0.00 31.08 2.57
100 101 0.468214 TCTCGGAGGTGCTCATAGGG 60.468 60.000 4.96 0.00 31.08 3.53
101 102 0.757188 CTCGGAGGTGCTCATAGGGT 60.757 60.000 0.00 0.00 31.08 4.34
102 103 0.554305 TCGGAGGTGCTCATAGGGTA 59.446 55.000 0.00 0.00 31.08 3.69
103 104 0.962489 CGGAGGTGCTCATAGGGTAG 59.038 60.000 0.00 0.00 31.08 3.18
104 105 1.343069 GGAGGTGCTCATAGGGTAGG 58.657 60.000 0.00 0.00 31.08 3.18
105 106 1.343069 GAGGTGCTCATAGGGTAGGG 58.657 60.000 0.00 0.00 0.00 3.53
106 107 0.642710 AGGTGCTCATAGGGTAGGGT 59.357 55.000 0.00 0.00 0.00 4.34
107 108 0.759346 GGTGCTCATAGGGTAGGGTG 59.241 60.000 0.00 0.00 0.00 4.61
108 109 1.497161 GTGCTCATAGGGTAGGGTGT 58.503 55.000 0.00 0.00 0.00 4.16
109 110 1.139058 GTGCTCATAGGGTAGGGTGTG 59.861 57.143 0.00 0.00 0.00 3.82
110 111 0.106894 GCTCATAGGGTAGGGTGTGC 59.893 60.000 0.00 0.00 0.00 4.57
111 112 0.389391 CTCATAGGGTAGGGTGTGCG 59.611 60.000 0.00 0.00 0.00 5.34
112 113 0.324923 TCATAGGGTAGGGTGTGCGT 60.325 55.000 0.00 0.00 0.00 5.24
113 114 0.179084 CATAGGGTAGGGTGTGCGTG 60.179 60.000 0.00 0.00 0.00 5.34
114 115 0.616679 ATAGGGTAGGGTGTGCGTGT 60.617 55.000 0.00 0.00 0.00 4.49
115 116 1.537814 TAGGGTAGGGTGTGCGTGTG 61.538 60.000 0.00 0.00 0.00 3.82
116 117 2.424302 GGTAGGGTGTGCGTGTGT 59.576 61.111 0.00 0.00 0.00 3.72
117 118 1.959226 GGTAGGGTGTGCGTGTGTG 60.959 63.158 0.00 0.00 0.00 3.82
118 119 2.280524 TAGGGTGTGCGTGTGTGC 60.281 61.111 0.00 0.00 0.00 4.57
121 122 3.871574 GGTGTGCGTGTGTGCGTT 61.872 61.111 0.00 0.00 37.81 4.84
122 123 2.350760 GTGTGCGTGTGTGCGTTC 60.351 61.111 0.00 0.00 37.81 3.95
123 124 2.815647 TGTGCGTGTGTGCGTTCA 60.816 55.556 0.00 0.00 37.81 3.18
124 125 2.176926 TGTGCGTGTGTGCGTTCAT 61.177 52.632 0.00 0.00 37.81 2.57
125 126 1.722163 GTGCGTGTGTGCGTTCATG 60.722 57.895 0.00 0.00 37.81 3.07
126 127 2.127270 GCGTGTGTGCGTTCATGG 60.127 61.111 0.00 0.00 0.00 3.66
127 128 2.555782 CGTGTGTGCGTTCATGGG 59.444 61.111 0.00 0.00 0.00 4.00
128 129 2.953821 GTGTGTGCGTTCATGGGG 59.046 61.111 0.00 0.00 0.00 4.96
129 130 1.599518 GTGTGTGCGTTCATGGGGA 60.600 57.895 0.00 0.00 0.00 4.81
130 131 0.960364 GTGTGTGCGTTCATGGGGAT 60.960 55.000 0.00 0.00 0.00 3.85
131 132 0.959867 TGTGTGCGTTCATGGGGATG 60.960 55.000 0.00 0.00 0.00 3.51
132 133 0.676466 GTGTGCGTTCATGGGGATGA 60.676 55.000 0.00 0.00 0.00 2.92
133 134 0.037447 TGTGCGTTCATGGGGATGAA 59.963 50.000 0.00 0.00 38.14 2.57
134 135 1.340893 TGTGCGTTCATGGGGATGAAT 60.341 47.619 0.00 0.00 41.88 2.57
135 136 1.066002 GTGCGTTCATGGGGATGAATG 59.934 52.381 11.15 11.15 45.55 2.67
136 137 1.340893 TGCGTTCATGGGGATGAATGT 60.341 47.619 15.13 0.00 44.94 2.71
137 138 2.092699 TGCGTTCATGGGGATGAATGTA 60.093 45.455 15.13 10.05 44.94 2.29
138 139 3.149196 GCGTTCATGGGGATGAATGTAT 58.851 45.455 15.13 0.00 44.94 2.29
139 140 3.058016 GCGTTCATGGGGATGAATGTATG 60.058 47.826 15.13 0.00 44.94 2.39
140 141 4.136796 CGTTCATGGGGATGAATGTATGT 58.863 43.478 8.29 0.00 41.88 2.29
141 142 4.023792 CGTTCATGGGGATGAATGTATGTG 60.024 45.833 8.29 0.00 41.88 3.21
142 143 3.489355 TCATGGGGATGAATGTATGTGC 58.511 45.455 0.00 0.00 0.00 4.57
143 144 1.965935 TGGGGATGAATGTATGTGCG 58.034 50.000 0.00 0.00 0.00 5.34
144 145 1.211703 TGGGGATGAATGTATGTGCGT 59.788 47.619 0.00 0.00 0.00 5.24
145 146 1.603802 GGGGATGAATGTATGTGCGTG 59.396 52.381 0.00 0.00 0.00 5.34
146 147 2.288666 GGGATGAATGTATGTGCGTGT 58.711 47.619 0.00 0.00 0.00 4.49
147 148 3.462982 GGGATGAATGTATGTGCGTGTA 58.537 45.455 0.00 0.00 0.00 2.90
148 149 4.065088 GGGATGAATGTATGTGCGTGTAT 58.935 43.478 0.00 0.00 0.00 2.29
149 150 5.234752 GGGATGAATGTATGTGCGTGTATA 58.765 41.667 0.00 0.00 0.00 1.47
150 151 5.874810 GGGATGAATGTATGTGCGTGTATAT 59.125 40.000 0.00 0.00 0.00 0.86
151 152 6.183360 GGGATGAATGTATGTGCGTGTATATG 60.183 42.308 0.00 0.00 0.00 1.78
152 153 6.589907 GGATGAATGTATGTGCGTGTATATGA 59.410 38.462 0.00 0.00 0.00 2.15
153 154 7.201470 GGATGAATGTATGTGCGTGTATATGAG 60.201 40.741 0.00 0.00 0.00 2.90
154 155 5.405269 TGAATGTATGTGCGTGTATATGAGC 59.595 40.000 0.00 0.00 0.00 4.26
155 156 3.305110 TGTATGTGCGTGTATATGAGCG 58.695 45.455 0.00 0.00 0.00 5.03
160 161 1.209128 GCGTGTATATGAGCGCTTGT 58.791 50.000 13.26 5.98 45.48 3.16
161 162 1.071239 GCGTGTATATGAGCGCTTGTG 60.071 52.381 13.26 0.00 45.48 3.33
162 163 2.193447 CGTGTATATGAGCGCTTGTGT 58.807 47.619 13.26 4.27 0.00 3.72
163 164 2.216488 CGTGTATATGAGCGCTTGTGTC 59.784 50.000 13.26 0.00 0.00 3.67
164 165 3.448686 GTGTATATGAGCGCTTGTGTCT 58.551 45.455 13.26 0.00 0.00 3.41
165 166 3.243877 GTGTATATGAGCGCTTGTGTCTG 59.756 47.826 13.26 0.00 0.00 3.51
166 167 2.680312 ATATGAGCGCTTGTGTCTGT 57.320 45.000 13.26 0.00 0.00 3.41
167 168 3.801114 ATATGAGCGCTTGTGTCTGTA 57.199 42.857 13.26 0.00 0.00 2.74
168 169 2.455674 ATGAGCGCTTGTGTCTGTAA 57.544 45.000 13.26 0.00 0.00 2.41
169 170 2.455674 TGAGCGCTTGTGTCTGTAAT 57.544 45.000 13.26 0.00 0.00 1.89
170 171 2.068519 TGAGCGCTTGTGTCTGTAATG 58.931 47.619 13.26 0.00 0.00 1.90
171 172 2.288763 TGAGCGCTTGTGTCTGTAATGA 60.289 45.455 13.26 0.00 0.00 2.57
172 173 2.932614 GAGCGCTTGTGTCTGTAATGAT 59.067 45.455 13.26 0.00 0.00 2.45
173 174 2.674852 AGCGCTTGTGTCTGTAATGATG 59.325 45.455 2.64 0.00 0.00 3.07
174 175 2.789092 GCGCTTGTGTCTGTAATGATGC 60.789 50.000 0.00 0.00 0.00 3.91
175 176 2.674852 CGCTTGTGTCTGTAATGATGCT 59.325 45.455 0.00 0.00 0.00 3.79
176 177 3.865164 CGCTTGTGTCTGTAATGATGCTA 59.135 43.478 0.00 0.00 0.00 3.49
177 178 4.329801 CGCTTGTGTCTGTAATGATGCTAA 59.670 41.667 0.00 0.00 0.00 3.09
178 179 5.163864 CGCTTGTGTCTGTAATGATGCTAAA 60.164 40.000 0.00 0.00 0.00 1.85
179 180 6.611381 GCTTGTGTCTGTAATGATGCTAAAA 58.389 36.000 0.00 0.00 0.00 1.52
180 181 7.083858 GCTTGTGTCTGTAATGATGCTAAAAA 58.916 34.615 0.00 0.00 0.00 1.94
213 214 4.862559 CGCTAGCGTCGTCAAGAAGACA 62.863 54.545 28.66 0.00 39.29 3.41
245 246 2.094234 CGCCATTTTTCCTCGGGATTTT 60.094 45.455 0.00 0.00 0.00 1.82
247 248 3.769536 CCATTTTTCCTCGGGATTTTCG 58.230 45.455 0.00 0.00 0.00 3.46
268 269 4.038080 CCAAAACCGCCCGCTCAC 62.038 66.667 0.00 0.00 0.00 3.51
270 271 2.978010 AAAACCGCCCGCTCACTG 60.978 61.111 0.00 0.00 0.00 3.66
276 277 4.479993 GCCCGCTCACTGCCATCT 62.480 66.667 0.00 0.00 38.78 2.90
278 279 1.817099 CCCGCTCACTGCCATCTTC 60.817 63.158 0.00 0.00 38.78 2.87
279 280 1.078918 CCGCTCACTGCCATCTTCA 60.079 57.895 0.00 0.00 38.78 3.02
320 325 0.248661 CTGCGTGGTGACTCTATCCG 60.249 60.000 0.00 0.00 0.00 4.18
361 366 9.569122 GGGTTTCTATTAATTGCTGGTCTAATA 57.431 33.333 0.00 0.00 0.00 0.98
371 376 1.550976 CTGGTCTAATATCTCCGCCCC 59.449 57.143 0.00 0.00 0.00 5.80
390 395 2.348888 ACCCAGATCGTCCGTGTCC 61.349 63.158 0.00 0.00 0.00 4.02
472 484 0.460459 GAGCCCGCTCCAGAGTAAAC 60.460 60.000 5.34 0.00 37.11 2.01
476 488 1.221021 CGCTCCAGAGTAAACCCCC 59.779 63.158 0.00 0.00 0.00 5.40
505 517 1.874129 TCCGCCCATTCTCTCCTTTA 58.126 50.000 0.00 0.00 0.00 1.85
567 607 1.582610 TTCTTGCGCCAAATCCGTCC 61.583 55.000 4.18 0.00 0.00 4.79
568 608 2.281831 TTGCGCCAAATCCGTCCA 60.282 55.556 4.18 0.00 0.00 4.02
767 825 6.976088 AGATACGTGAATGTTAGGATCAGAG 58.024 40.000 0.00 0.00 0.00 3.35
800 858 7.530010 ACAACATGAATGCAAATAGTACAGTC 58.470 34.615 0.00 0.00 0.00 3.51
811 869 9.502091 TGCAAATAGTACAGTCTACATTTTTCT 57.498 29.630 0.00 0.00 0.00 2.52
935 996 6.375455 GTGATTTCTTAGCAGATCCCTTTTCA 59.625 38.462 0.00 0.00 0.00 2.69
1151 1218 2.465774 CATCCACCGATGCGTTCAA 58.534 52.632 0.00 0.00 39.59 2.69
1165 1232 0.106149 GTTCAACCTCGGACACCACT 59.894 55.000 0.00 0.00 0.00 4.00
1374 1464 0.179020 CCACCCTCAAGTGTGCTTCA 60.179 55.000 0.00 0.00 35.93 3.02
1529 1663 6.061022 TCAGTTGCCTGATTACTTTATCCA 57.939 37.500 0.00 0.00 42.80 3.41
1706 1859 1.519455 CCGAGACATTCCGGCAGAC 60.519 63.158 0.00 0.00 39.22 3.51
1820 1994 1.039856 GATGTTTGGGTGTTGCAGGT 58.960 50.000 0.00 0.00 0.00 4.00
2124 6622 2.360475 GCTGTGAACCAGGAGCCC 60.360 66.667 0.00 0.00 41.81 5.19
2174 6683 3.366273 CGTGCTCCATGTTAATGCTTTGT 60.366 43.478 0.00 0.00 31.93 2.83
2175 6684 4.559153 GTGCTCCATGTTAATGCTTTGTT 58.441 39.130 0.00 0.00 31.93 2.83
2195 6705 1.133945 TCTAGTTGTTTGCTGTGCCCA 60.134 47.619 0.00 0.00 0.00 5.36
2313 6830 2.885616 TCGTTTACTGTTCTCCCCTCT 58.114 47.619 0.00 0.00 0.00 3.69
2657 7191 2.148768 TGTGTCTGATTGCTGCTTCAG 58.851 47.619 20.15 20.15 40.58 3.02
2721 7255 6.234920 TCATTGACTAACCATTCGGAGAAAA 58.765 36.000 0.00 0.00 45.90 2.29
2753 7287 1.398692 TGCTTTTGTGTCCAGGGTTC 58.601 50.000 0.00 0.00 0.00 3.62
2842 7384 0.904649 CTGGTGATAGTGGTGCCTCA 59.095 55.000 0.00 0.00 0.00 3.86
2921 7463 4.175489 GCGCTCATGCTGTGCAGG 62.175 66.667 15.70 0.00 43.65 4.85
2975 7519 6.343716 TCCAGTACATGCATTGTCATTTTT 57.656 33.333 0.00 0.00 39.87 1.94
3013 7722 6.151144 ACCATTATTAGTTGACTTTCACCTGC 59.849 38.462 0.00 0.00 0.00 4.85
3045 7761 2.952310 GGCTTTGGTGATATCCTGGAAC 59.048 50.000 0.00 0.00 0.00 3.62
3052 7768 2.614057 GTGATATCCTGGAACCTTTGCG 59.386 50.000 0.00 0.00 0.00 4.85
3085 7801 0.467844 TCCTGCTTGCTGCTTTTGGA 60.468 50.000 0.00 0.00 43.37 3.53
3117 7833 2.225963 GGTGCTATCTTGATCAGCATGC 59.774 50.000 10.51 10.51 46.22 4.06
3133 7849 2.101917 GCATGCTATGGTTTGCTGGAAT 59.898 45.455 11.37 0.00 32.41 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.898789 GGAACGTCTCCTCCCACTGA 60.899 60.000 8.87 0.00 41.61 3.41
1 2 1.592223 GGAACGTCTCCTCCCACTG 59.408 63.158 8.87 0.00 41.61 3.66
2 3 4.115270 GGAACGTCTCCTCCCACT 57.885 61.111 8.87 0.00 41.61 4.00
23 24 4.883300 GTAGGCGCCTCGTCGTCG 62.883 72.222 36.73 0.00 39.34 5.12
24 25 4.883300 CGTAGGCGCCTCGTCGTC 62.883 72.222 36.73 15.88 36.23 4.20
37 38 4.978186 TGAGATTTACGAAGTCACCGTAG 58.022 43.478 0.00 0.00 43.93 3.51
38 39 5.181811 TCTTGAGATTTACGAAGTCACCGTA 59.818 40.000 0.00 0.00 43.93 4.02
39 40 3.928727 TGAGATTTACGAAGTCACCGT 57.071 42.857 0.00 0.00 43.93 4.83
40 41 4.482386 TCTTGAGATTTACGAAGTCACCG 58.518 43.478 0.00 0.00 43.93 4.94
41 42 6.100004 TCATCTTGAGATTTACGAAGTCACC 58.900 40.000 0.00 0.00 35.39 4.02
42 43 7.763172 ATCATCTTGAGATTTACGAAGTCAC 57.237 36.000 0.00 0.00 35.39 3.67
43 44 9.468532 CATATCATCTTGAGATTTACGAAGTCA 57.531 33.333 0.00 0.00 35.39 3.41
44 45 8.431593 GCATATCATCTTGAGATTTACGAAGTC 58.568 37.037 0.00 0.00 35.39 3.01
45 46 7.386299 GGCATATCATCTTGAGATTTACGAAGT 59.614 37.037 0.00 0.00 37.29 3.01
46 47 7.411264 CGGCATATCATCTTGAGATTTACGAAG 60.411 40.741 0.00 0.00 31.21 3.79
47 48 6.366061 CGGCATATCATCTTGAGATTTACGAA 59.634 38.462 0.00 0.00 31.21 3.85
48 49 5.863935 CGGCATATCATCTTGAGATTTACGA 59.136 40.000 0.00 0.00 31.21 3.43
49 50 5.062683 CCGGCATATCATCTTGAGATTTACG 59.937 44.000 0.00 0.00 31.21 3.18
50 51 5.163814 GCCGGCATATCATCTTGAGATTTAC 60.164 44.000 24.80 0.00 31.21 2.01
51 52 4.937620 GCCGGCATATCATCTTGAGATTTA 59.062 41.667 24.80 0.00 31.21 1.40
52 53 3.755378 GCCGGCATATCATCTTGAGATTT 59.245 43.478 24.80 0.00 31.21 2.17
53 54 3.008813 AGCCGGCATATCATCTTGAGATT 59.991 43.478 31.54 0.00 31.21 2.40
54 55 2.570752 AGCCGGCATATCATCTTGAGAT 59.429 45.455 31.54 0.00 34.56 2.75
55 56 1.973515 AGCCGGCATATCATCTTGAGA 59.026 47.619 31.54 0.00 0.00 3.27
56 57 2.289257 TGAGCCGGCATATCATCTTGAG 60.289 50.000 31.54 0.00 0.00 3.02
57 58 1.693606 TGAGCCGGCATATCATCTTGA 59.306 47.619 31.54 0.00 0.00 3.02
58 59 2.074576 CTGAGCCGGCATATCATCTTG 58.925 52.381 31.54 7.95 0.00 3.02
59 60 1.696336 ACTGAGCCGGCATATCATCTT 59.304 47.619 31.54 3.33 0.00 2.40
60 61 1.274728 GACTGAGCCGGCATATCATCT 59.725 52.381 31.54 11.40 0.00 2.90
61 62 1.274728 AGACTGAGCCGGCATATCATC 59.725 52.381 31.54 19.98 0.00 2.92
62 63 1.274728 GAGACTGAGCCGGCATATCAT 59.725 52.381 31.54 13.17 0.00 2.45
63 64 0.676184 GAGACTGAGCCGGCATATCA 59.324 55.000 31.54 22.44 0.00 2.15
64 65 0.965439 AGAGACTGAGCCGGCATATC 59.035 55.000 31.54 18.63 0.00 1.63
65 66 0.965439 GAGAGACTGAGCCGGCATAT 59.035 55.000 31.54 8.11 0.00 1.78
66 67 1.448119 CGAGAGACTGAGCCGGCATA 61.448 60.000 31.54 16.21 0.00 3.14
67 68 2.780094 CGAGAGACTGAGCCGGCAT 61.780 63.158 31.54 14.28 0.00 4.40
68 69 3.443925 CGAGAGACTGAGCCGGCA 61.444 66.667 31.54 7.98 0.00 5.69
69 70 4.200283 CCGAGAGACTGAGCCGGC 62.200 72.222 21.89 21.89 33.47 6.13
70 71 2.438614 TCCGAGAGACTGAGCCGG 60.439 66.667 0.00 0.00 41.36 6.13
71 72 2.477176 CCTCCGAGAGACTGAGCCG 61.477 68.421 0.00 0.00 0.00 5.52
72 73 1.379309 ACCTCCGAGAGACTGAGCC 60.379 63.158 0.00 0.00 0.00 4.70
73 74 1.806568 CACCTCCGAGAGACTGAGC 59.193 63.158 0.00 0.00 0.00 4.26
74 75 0.679640 AGCACCTCCGAGAGACTGAG 60.680 60.000 0.00 0.00 0.00 3.35
75 76 0.678366 GAGCACCTCCGAGAGACTGA 60.678 60.000 0.00 0.00 0.00 3.41
76 77 0.962855 TGAGCACCTCCGAGAGACTG 60.963 60.000 0.00 0.22 0.00 3.51
77 78 0.033601 ATGAGCACCTCCGAGAGACT 60.034 55.000 0.00 0.00 0.00 3.24
78 79 1.606668 CTATGAGCACCTCCGAGAGAC 59.393 57.143 0.00 0.00 0.00 3.36
79 80 1.477740 CCTATGAGCACCTCCGAGAGA 60.478 57.143 0.00 0.00 0.00 3.10
80 81 0.958091 CCTATGAGCACCTCCGAGAG 59.042 60.000 0.00 0.00 0.00 3.20
81 82 0.468214 CCCTATGAGCACCTCCGAGA 60.468 60.000 0.00 0.00 0.00 4.04
82 83 0.757188 ACCCTATGAGCACCTCCGAG 60.757 60.000 0.00 0.00 0.00 4.63
83 84 0.554305 TACCCTATGAGCACCTCCGA 59.446 55.000 0.00 0.00 0.00 4.55
84 85 0.962489 CTACCCTATGAGCACCTCCG 59.038 60.000 0.00 0.00 0.00 4.63
85 86 1.343069 CCTACCCTATGAGCACCTCC 58.657 60.000 0.00 0.00 0.00 4.30
86 87 1.343069 CCCTACCCTATGAGCACCTC 58.657 60.000 0.00 0.00 0.00 3.85
87 88 0.642710 ACCCTACCCTATGAGCACCT 59.357 55.000 0.00 0.00 0.00 4.00
88 89 0.759346 CACCCTACCCTATGAGCACC 59.241 60.000 0.00 0.00 0.00 5.01
89 90 1.139058 CACACCCTACCCTATGAGCAC 59.861 57.143 0.00 0.00 0.00 4.40
90 91 1.496060 CACACCCTACCCTATGAGCA 58.504 55.000 0.00 0.00 0.00 4.26
91 92 0.106894 GCACACCCTACCCTATGAGC 59.893 60.000 0.00 0.00 0.00 4.26
92 93 0.389391 CGCACACCCTACCCTATGAG 59.611 60.000 0.00 0.00 0.00 2.90
93 94 0.324923 ACGCACACCCTACCCTATGA 60.325 55.000 0.00 0.00 0.00 2.15
94 95 0.179084 CACGCACACCCTACCCTATG 60.179 60.000 0.00 0.00 0.00 2.23
95 96 0.616679 ACACGCACACCCTACCCTAT 60.617 55.000 0.00 0.00 0.00 2.57
96 97 1.228956 ACACGCACACCCTACCCTA 60.229 57.895 0.00 0.00 0.00 3.53
97 98 2.525877 ACACGCACACCCTACCCT 60.526 61.111 0.00 0.00 0.00 4.34
98 99 2.358247 CACACGCACACCCTACCC 60.358 66.667 0.00 0.00 0.00 3.69
99 100 1.959226 CACACACGCACACCCTACC 60.959 63.158 0.00 0.00 0.00 3.18
100 101 2.604174 GCACACACGCACACCCTAC 61.604 63.158 0.00 0.00 0.00 3.18
101 102 2.280524 GCACACACGCACACCCTA 60.281 61.111 0.00 0.00 0.00 3.53
104 105 3.783588 GAACGCACACACGCACACC 62.784 63.158 0.00 0.00 36.19 4.16
105 106 2.350760 GAACGCACACACGCACAC 60.351 61.111 0.00 0.00 36.19 3.82
106 107 2.176926 ATGAACGCACACACGCACA 61.177 52.632 0.00 0.00 36.19 4.57
107 108 1.722163 CATGAACGCACACACGCAC 60.722 57.895 0.00 0.00 36.19 5.34
108 109 2.630872 CATGAACGCACACACGCA 59.369 55.556 0.00 0.00 36.19 5.24
109 110 2.127270 CCATGAACGCACACACGC 60.127 61.111 0.00 0.00 36.19 5.34
110 111 2.555782 CCCATGAACGCACACACG 59.444 61.111 0.00 0.00 39.50 4.49
111 112 0.960364 ATCCCCATGAACGCACACAC 60.960 55.000 0.00 0.00 0.00 3.82
112 113 0.959867 CATCCCCATGAACGCACACA 60.960 55.000 0.00 0.00 30.57 3.72
113 114 0.676466 TCATCCCCATGAACGCACAC 60.676 55.000 0.00 0.00 35.99 3.82
114 115 0.037447 TTCATCCCCATGAACGCACA 59.963 50.000 0.00 0.00 42.99 4.57
115 116 2.866872 TTCATCCCCATGAACGCAC 58.133 52.632 0.00 0.00 42.99 5.34
121 122 3.489355 GCACATACATTCATCCCCATGA 58.511 45.455 0.00 0.00 37.24 3.07
122 123 2.227149 CGCACATACATTCATCCCCATG 59.773 50.000 0.00 0.00 0.00 3.66
123 124 2.158623 ACGCACATACATTCATCCCCAT 60.159 45.455 0.00 0.00 0.00 4.00
124 125 1.211703 ACGCACATACATTCATCCCCA 59.788 47.619 0.00 0.00 0.00 4.96
125 126 1.603802 CACGCACATACATTCATCCCC 59.396 52.381 0.00 0.00 0.00 4.81
126 127 2.288666 ACACGCACATACATTCATCCC 58.711 47.619 0.00 0.00 0.00 3.85
127 128 6.589907 TCATATACACGCACATACATTCATCC 59.410 38.462 0.00 0.00 0.00 3.51
128 129 7.581011 TCATATACACGCACATACATTCATC 57.419 36.000 0.00 0.00 0.00 2.92
129 130 6.091305 GCTCATATACACGCACATACATTCAT 59.909 38.462 0.00 0.00 0.00 2.57
130 131 5.405269 GCTCATATACACGCACATACATTCA 59.595 40.000 0.00 0.00 0.00 2.57
131 132 5.443301 CGCTCATATACACGCACATACATTC 60.443 44.000 0.00 0.00 0.00 2.67
132 133 4.385748 CGCTCATATACACGCACATACATT 59.614 41.667 0.00 0.00 0.00 2.71
133 134 3.920412 CGCTCATATACACGCACATACAT 59.080 43.478 0.00 0.00 0.00 2.29
134 135 3.305110 CGCTCATATACACGCACATACA 58.695 45.455 0.00 0.00 0.00 2.29
135 136 3.954030 CGCTCATATACACGCACATAC 57.046 47.619 0.00 0.00 0.00 2.39
142 143 2.193447 ACACAAGCGCTCATATACACG 58.807 47.619 12.06 0.00 0.00 4.49
143 144 3.243877 CAGACACAAGCGCTCATATACAC 59.756 47.826 12.06 0.00 0.00 2.90
144 145 3.119137 ACAGACACAAGCGCTCATATACA 60.119 43.478 12.06 0.00 0.00 2.29
145 146 3.448686 ACAGACACAAGCGCTCATATAC 58.551 45.455 12.06 1.00 0.00 1.47
146 147 3.801114 ACAGACACAAGCGCTCATATA 57.199 42.857 12.06 0.00 0.00 0.86
147 148 2.680312 ACAGACACAAGCGCTCATAT 57.320 45.000 12.06 0.00 0.00 1.78
148 149 3.586100 TTACAGACACAAGCGCTCATA 57.414 42.857 12.06 0.00 0.00 2.15
149 150 2.455674 TTACAGACACAAGCGCTCAT 57.544 45.000 12.06 0.00 0.00 2.90
150 151 2.068519 CATTACAGACACAAGCGCTCA 58.931 47.619 12.06 0.00 0.00 4.26
151 152 2.337583 TCATTACAGACACAAGCGCTC 58.662 47.619 12.06 0.00 0.00 5.03
152 153 2.455674 TCATTACAGACACAAGCGCT 57.544 45.000 2.64 2.64 0.00 5.92
153 154 2.789092 GCATCATTACAGACACAAGCGC 60.789 50.000 0.00 0.00 0.00 5.92
154 155 2.674852 AGCATCATTACAGACACAAGCG 59.325 45.455 0.00 0.00 0.00 4.68
155 156 5.801350 TTAGCATCATTACAGACACAAGC 57.199 39.130 0.00 0.00 0.00 4.01
213 214 0.827507 AAAATGGCGGCCAGAGTGTT 60.828 50.000 27.62 13.35 36.75 3.32
214 215 0.827507 AAAAATGGCGGCCAGAGTGT 60.828 50.000 27.62 7.09 36.75 3.55
221 222 2.489751 CGAGGAAAAATGGCGGCC 59.510 61.111 13.32 13.32 0.00 6.13
267 268 1.488705 TTCCCGGTGAAGATGGCAGT 61.489 55.000 0.00 0.00 0.00 4.40
268 269 1.299648 TTCCCGGTGAAGATGGCAG 59.700 57.895 0.00 0.00 0.00 4.85
276 277 1.302192 CCGAAAGCTTCCCGGTGAA 60.302 57.895 24.06 2.72 38.55 3.18
278 279 2.746277 CCCGAAAGCTTCCCGGTG 60.746 66.667 27.60 19.30 41.53 4.94
279 280 4.717313 GCCCGAAAGCTTCCCGGT 62.717 66.667 27.60 3.64 41.53 5.28
295 300 3.702555 GTCACCACGCAGTCACGC 61.703 66.667 0.00 0.00 41.61 5.34
320 325 4.785453 CCCTTCCTCTGCACGGGC 62.785 72.222 0.34 0.34 41.68 6.13
361 366 3.721172 ATCTGGGTGGGGCGGAGAT 62.721 63.158 0.00 0.00 0.00 2.75
371 376 1.153823 GACACGGACGATCTGGGTG 60.154 63.158 6.47 0.00 40.01 4.61
505 517 5.145564 TCTATGGATCTACCGGCTTAAACT 58.854 41.667 0.00 0.00 42.61 2.66
567 607 3.609853 TCCAGTGATTCCGGAGAAAATG 58.390 45.455 3.34 3.50 35.09 2.32
739 792 9.529325 CTGATCCTAACATTCACGTATCTAAAA 57.471 33.333 0.00 0.00 0.00 1.52
763 821 1.078709 CATGTTGTACACGCCCTCTG 58.921 55.000 0.00 0.00 0.00 3.35
767 825 1.467374 GCATTCATGTTGTACACGCCC 60.467 52.381 0.00 0.00 0.00 6.13
800 858 5.673818 GCCCTTGACGCTAAGAAAAATGTAG 60.674 44.000 1.18 0.00 0.00 2.74
935 996 2.960819 AGTACAGCGCTCGAAAAAGAT 58.039 42.857 7.13 0.00 0.00 2.40
979 1046 1.078918 TGATTGCTCGCTGACAGGG 60.079 57.895 13.14 13.14 0.00 4.45
1143 1210 1.593209 GTGTCCGAGGTTGAACGCA 60.593 57.895 0.00 0.00 0.00 5.24
1151 1218 3.456317 GACAGTGGTGTCCGAGGT 58.544 61.111 0.00 0.00 46.58 3.85
1182 1249 4.804868 CAATTTGTGTTGGATGATGGGA 57.195 40.909 0.00 0.00 0.00 4.37
1229 1296 4.153117 CAGGCCGTATCTTTAGATCATTGC 59.847 45.833 0.00 0.00 36.05 3.56
1374 1464 1.228769 TAGTGGAGGACGTGGCAGT 60.229 57.895 0.00 0.00 0.00 4.40
1706 1859 4.988598 ACTGTGTTGGGCGGCTCG 62.989 66.667 9.56 0.00 0.00 5.03
1820 1994 1.121407 CCAGGTCCCGGCATCATAGA 61.121 60.000 0.00 0.00 0.00 1.98
2124 6622 7.880160 TCTTTATAACACAATGGAGAATGGG 57.120 36.000 0.00 0.00 0.00 4.00
2174 6683 1.953686 GGGCACAGCAAACAACTAGAA 59.046 47.619 0.00 0.00 0.00 2.10
2175 6684 1.133945 TGGGCACAGCAAACAACTAGA 60.134 47.619 0.00 0.00 0.00 2.43
2313 6830 5.512753 TTGCAAGCTGAAAGTAAACATGA 57.487 34.783 0.00 0.00 35.30 3.07
2473 6991 3.439857 AGCAATAGGACCAATGTGTGT 57.560 42.857 0.00 0.00 0.00 3.72
2657 7191 9.667989 TCGGTTTCTTTTTAAAAATAGCTGTAC 57.332 29.630 13.55 5.96 0.00 2.90
2690 7224 7.229707 TCCGAATGGTTAGTCAATGAAAGAAAA 59.770 33.333 0.00 0.00 36.30 2.29
2721 7255 2.167075 ACAAAAGCAACAGCAAAGCTCT 59.833 40.909 0.00 0.00 36.40 4.09
2842 7384 4.473520 CCTGCACCGCGGATCCTT 62.474 66.667 35.90 5.52 37.02 3.36
2975 7519 8.679100 CAACTAATAATGGTTCATAACGGGAAA 58.321 33.333 0.00 0.00 0.00 3.13
2976 7520 8.047911 TCAACTAATAATGGTTCATAACGGGAA 58.952 33.333 0.00 0.00 0.00 3.97
2978 7522 7.497909 AGTCAACTAATAATGGTTCATAACGGG 59.502 37.037 0.00 0.00 0.00 5.28
2979 7523 8.433421 AGTCAACTAATAATGGTTCATAACGG 57.567 34.615 0.00 0.00 0.00 4.44
3013 7722 1.615392 CACCAAAGCCTTTTCTCCCAG 59.385 52.381 0.00 0.00 0.00 4.45
3045 7761 0.539669 AGAAAAGACCCCCGCAAAGG 60.540 55.000 0.00 0.00 40.63 3.11
3052 7768 1.203063 AGCAGGAAAGAAAAGACCCCC 60.203 52.381 0.00 0.00 0.00 5.40
3085 7801 4.721776 TCAAGATAGCACCAAACCCTAGAT 59.278 41.667 0.00 0.00 0.00 1.98
3117 7833 1.534595 GCGCATTCCAGCAAACCATAG 60.535 52.381 0.30 0.00 0.00 2.23


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

AutoCloner maintained by Alex Coulton.