Multiple sequence alignment - TraesCS7D01G458600

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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 TraesCS7D01G458600 chr7D 100.000 2285 0 0 772 3056 576302187 576304471 0.000000e+00 4220.0
1 TraesCS7D01G458600 chr7D 100.000 456 0 0 1 456 576301416 576301871 0.000000e+00 843.0
2 TraesCS7D01G458600 chr7D 80.804 995 140 25 1375 2334 576634469 576633491 0.000000e+00 732.0
3 TraesCS7D01G458600 chr7B 91.730 1584 70 11 772 2340 639038486 639040023 0.000000e+00 2143.0
4 TraesCS7D01G458600 chr7B 93.352 361 22 2 2619 2978 639040500 639040859 1.610000e-147 532.0
5 TraesCS7D01G458600 chr7B 94.306 281 10 4 2332 2607 639040099 639040378 2.820000e-115 425.0
6 TraesCS7D01G458600 chr7B 77.530 494 105 6 1547 2037 639515052 639514562 2.980000e-75 292.0
7 TraesCS7D01G458600 chr7B 89.091 165 8 1 37 191 170877108 170877272 2.400000e-46 196.0
8 TraesCS7D01G458600 chr7B 83.784 185 20 4 1 184 455416497 455416322 1.880000e-37 167.0
9 TraesCS7D01G458600 chr7B 92.683 82 6 0 2975 3056 639040925 639041006 5.350000e-23 119.0
10 TraesCS7D01G458600 chr7A 87.892 1784 94 37 857 2613 667229349 667231037 0.000000e+00 1986.0
11 TraesCS7D01G458600 chr7A 90.661 696 44 5 833 1522 667354458 667355138 0.000000e+00 905.0
12 TraesCS7D01G458600 chr7A 80.556 972 145 22 1398 2334 667945718 667944756 0.000000e+00 708.0
13 TraesCS7D01G458600 chr7A 83.558 742 108 8 1398 2136 667962976 667962246 0.000000e+00 682.0
14 TraesCS7D01G458600 chr7A 78.659 492 103 2 1547 2037 668256689 668256199 2.940000e-85 326.0
15 TraesCS7D01G458600 chr7A 90.083 242 18 3 2742 2982 667231515 667231751 2.960000e-80 309.0
16 TraesCS7D01G458600 chr7A 92.523 214 10 2 249 456 667229019 667229232 4.950000e-78 302.0
17 TraesCS7D01G458600 chr7A 94.475 181 10 0 2798 2978 667405042 667405222 2.320000e-71 279.0
18 TraesCS7D01G458600 chr7A 90.854 164 13 1 2639 2800 667404681 667404844 5.130000e-53 219.0
19 TraesCS7D01G458600 chr7A 89.552 67 7 0 772 838 667229291 667229357 5.430000e-13 86.1
20 TraesCS7D01G458600 chr7A 96.774 31 1 0 1826 1856 668779630 668779660 6.000000e-03 52.8
21 TraesCS7D01G458600 chr4D 89.474 209 9 7 1 198 416069254 416069048 5.060000e-63 252.0
22 TraesCS7D01G458600 chr4D 96.581 117 4 0 85 201 405778081 405778197 8.650000e-46 195.0
23 TraesCS7D01G458600 chr2A 89.055 201 11 4 1 199 575605541 575605350 3.940000e-59 239.0
24 TraesCS7D01G458600 chr5B 87.560 209 14 4 5 202 708215503 708215710 6.590000e-57 231.0
25 TraesCS7D01G458600 chr4A 85.047 214 10 4 1 192 55195556 55195769 6.680000e-47 198.0
26 TraesCS7D01G458600 chr4A 87.342 158 14 3 1 156 576788734 576788887 3.130000e-40 176.0
27 TraesCS7D01G458600 chr1D 85.000 200 25 5 1 197 5704253 5704450 6.680000e-47 198.0
28 TraesCS7D01G458600 chrUn 83.163 196 23 5 1 194 12798517 12798704 1.460000e-38 171.0
29 TraesCS7D01G458600 chr2D 82.412 199 23 7 1 197 22305362 22305550 2.440000e-36 163.0
30 TraesCS7D01G458600 chr5A 82.383 193 24 4 1 192 363123226 363123409 3.150000e-35 159.0
31 TraesCS7D01G458600 chr2B 82.051 195 26 7 1 194 46672352 46672538 1.130000e-34 158.0


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 TraesCS7D01G458600 chr7D 576301416 576304471 3055 False 2531.500 4220 100.00000 1 3056 2 chr7D.!!$F1 3055
1 TraesCS7D01G458600 chr7D 576633491 576634469 978 True 732.000 732 80.80400 1375 2334 1 chr7D.!!$R1 959
2 TraesCS7D01G458600 chr7B 639038486 639041006 2520 False 804.750 2143 93.01775 772 3056 4 chr7B.!!$F2 2284
3 TraesCS7D01G458600 chr7A 667354458 667355138 680 False 905.000 905 90.66100 833 1522 1 chr7A.!!$F1 689
4 TraesCS7D01G458600 chr7A 667944756 667945718 962 True 708.000 708 80.55600 1398 2334 1 chr7A.!!$R1 936
5 TraesCS7D01G458600 chr7A 667962246 667962976 730 True 682.000 682 83.55800 1398 2136 1 chr7A.!!$R2 738
6 TraesCS7D01G458600 chr7A 667229019 667231751 2732 False 670.775 1986 90.01250 249 2982 4 chr7A.!!$F3 2733
7 TraesCS7D01G458600 chr7A 667404681 667405222 541 False 249.000 279 92.66450 2639 2978 2 chr7A.!!$F4 339

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
974 996 0.605319 TCATGTCCACCCAGAAACGC 60.605 55.0 0.0 0.0 0.0 4.84 F
975 997 0.606401 CATGTCCACCCAGAAACGCT 60.606 55.0 0.0 0.0 0.0 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1809 1869 0.175302 AGATCAGCTTGAGCCTGTCG 59.825 55.0 0.00 0.0 43.38 4.35 R
2081 2149 0.487325 TTGGACCTCTGGACCTCTGA 59.513 55.0 6.66 0.0 38.31 3.27 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
23 24 6.961359 GGTTAATTTGGTAAATGCCACTTC 57.039 37.500 0.00 0.00 38.42 3.01
24 25 6.459923 GGTTAATTTGGTAAATGCCACTTCA 58.540 36.000 0.00 0.00 38.42 3.02
25 26 6.931840 GGTTAATTTGGTAAATGCCACTTCAA 59.068 34.615 0.00 0.00 38.42 2.69
26 27 7.442666 GGTTAATTTGGTAAATGCCACTTCAAA 59.557 33.333 0.00 0.00 38.42 2.69
27 28 8.998377 GTTAATTTGGTAAATGCCACTTCAAAT 58.002 29.630 0.00 0.00 38.42 2.32
28 29 9.566432 TTAATTTGGTAAATGCCACTTCAAATT 57.434 25.926 13.24 13.24 42.31 1.82
29 30 8.462589 AATTTGGTAAATGCCACTTCAAATTT 57.537 26.923 0.00 0.00 39.04 1.82
30 31 6.857777 TTGGTAAATGCCACTTCAAATTTG 57.142 33.333 12.15 12.15 38.42 2.32
31 32 5.303971 TGGTAAATGCCACTTCAAATTTGG 58.696 37.500 17.90 3.50 32.81 3.28
34 35 3.883997 GCCACTTCAAATTTGGCGA 57.116 47.368 17.90 4.32 46.11 5.54
35 36 2.368655 GCCACTTCAAATTTGGCGAT 57.631 45.000 17.90 0.00 46.11 4.58
36 37 2.687370 GCCACTTCAAATTTGGCGATT 58.313 42.857 17.90 0.00 46.11 3.34
37 38 2.667969 GCCACTTCAAATTTGGCGATTC 59.332 45.455 17.90 1.25 46.11 2.52
38 39 3.253230 CCACTTCAAATTTGGCGATTCC 58.747 45.455 17.90 0.00 0.00 3.01
39 40 3.305950 CCACTTCAAATTTGGCGATTCCA 60.306 43.478 17.90 0.00 44.85 3.53
48 49 0.817013 TGGCGATTCCAAGAAATGCC 59.183 50.000 13.36 13.36 43.21 4.40
49 50 0.817013 GGCGATTCCAAGAAATGCCA 59.183 50.000 14.68 0.00 40.66 4.92
50 51 1.469767 GGCGATTCCAAGAAATGCCAC 60.470 52.381 14.68 0.00 40.66 5.01
51 52 1.474077 GCGATTCCAAGAAATGCCACT 59.526 47.619 0.00 0.00 0.00 4.00
52 53 2.682856 GCGATTCCAAGAAATGCCACTA 59.317 45.455 0.00 0.00 0.00 2.74
53 54 3.487544 GCGATTCCAAGAAATGCCACTAC 60.488 47.826 0.00 0.00 0.00 2.73
54 55 3.689161 CGATTCCAAGAAATGCCACTACA 59.311 43.478 0.00 0.00 0.00 2.74
55 56 4.155826 CGATTCCAAGAAATGCCACTACAA 59.844 41.667 0.00 0.00 0.00 2.41
56 57 5.163622 CGATTCCAAGAAATGCCACTACAAT 60.164 40.000 0.00 0.00 0.00 2.71
57 58 6.610075 ATTCCAAGAAATGCCACTACAATT 57.390 33.333 0.00 0.00 0.00 2.32
58 59 6.418057 TTCCAAGAAATGCCACTACAATTT 57.582 33.333 0.00 0.00 0.00 1.82
59 60 6.024552 TCCAAGAAATGCCACTACAATTTC 57.975 37.500 0.00 0.00 0.00 2.17
60 61 5.047377 TCCAAGAAATGCCACTACAATTTCC 60.047 40.000 0.00 0.00 33.17 3.13
61 62 5.279406 CCAAGAAATGCCACTACAATTTCCA 60.279 40.000 0.00 0.00 33.17 3.53
62 63 6.222389 CAAGAAATGCCACTACAATTTCCAA 58.778 36.000 0.00 0.00 33.17 3.53
63 64 6.418057 AGAAATGCCACTACAATTTCCAAA 57.582 33.333 0.00 0.00 33.17 3.28
64 65 6.223120 AGAAATGCCACTACAATTTCCAAAC 58.777 36.000 0.00 0.00 33.17 2.93
65 66 5.806654 AATGCCACTACAATTTCCAAACT 57.193 34.783 0.00 0.00 0.00 2.66
66 67 5.806654 ATGCCACTACAATTTCCAAACTT 57.193 34.783 0.00 0.00 0.00 2.66
67 68 5.606348 TGCCACTACAATTTCCAAACTTT 57.394 34.783 0.00 0.00 0.00 2.66
68 69 5.355596 TGCCACTACAATTTCCAAACTTTG 58.644 37.500 0.00 0.00 0.00 2.77
69 70 5.127845 TGCCACTACAATTTCCAAACTTTGA 59.872 36.000 2.87 0.00 0.00 2.69
70 71 6.045955 GCCACTACAATTTCCAAACTTTGAA 58.954 36.000 2.87 0.00 0.00 2.69
71 72 6.536941 GCCACTACAATTTCCAAACTTTGAAA 59.463 34.615 2.87 3.11 0.00 2.69
72 73 7.065204 GCCACTACAATTTCCAAACTTTGAAAA 59.935 33.333 2.87 0.00 0.00 2.29
73 74 8.940952 CCACTACAATTTCCAAACTTTGAAAAA 58.059 29.630 2.87 4.27 0.00 1.94
76 77 9.437045 CTACAATTTCCAAACTTTGAAAAATGC 57.563 29.630 2.87 0.00 31.07 3.56
77 78 7.257003 ACAATTTCCAAACTTTGAAAAATGCC 58.743 30.769 2.87 0.00 31.07 4.40
78 79 7.094032 ACAATTTCCAAACTTTGAAAAATGCCA 60.094 29.630 2.87 0.00 31.07 4.92
79 80 7.585579 ATTTCCAAACTTTGAAAAATGCCAT 57.414 28.000 2.87 0.00 30.16 4.40
80 81 7.401955 TTTCCAAACTTTGAAAAATGCCATT 57.598 28.000 2.87 0.00 0.00 3.16
81 82 7.401955 TTCCAAACTTTGAAAAATGCCATTT 57.598 28.000 2.87 0.00 0.00 2.32
82 83 7.025485 TCCAAACTTTGAAAAATGCCATTTC 57.975 32.000 2.61 0.00 37.31 2.17
83 84 6.827762 TCCAAACTTTGAAAAATGCCATTTCT 59.172 30.769 2.61 0.00 37.60 2.52
84 85 7.989741 TCCAAACTTTGAAAAATGCCATTTCTA 59.010 29.630 2.61 0.00 37.60 2.10
85 86 8.284693 CCAAACTTTGAAAAATGCCATTTCTAG 58.715 33.333 2.61 0.38 37.60 2.43
86 87 8.829612 CAAACTTTGAAAAATGCCATTTCTAGT 58.170 29.630 2.61 0.94 37.60 2.57
87 88 7.951530 ACTTTGAAAAATGCCATTTCTAGTG 57.048 32.000 2.61 0.00 37.60 2.74
88 89 6.930722 ACTTTGAAAAATGCCATTTCTAGTGG 59.069 34.615 2.61 0.00 37.60 4.00
100 101 7.355332 CCATTTCTAGTGGCATTTTTCAAAG 57.645 36.000 0.00 0.00 0.00 2.77
101 102 6.930722 CCATTTCTAGTGGCATTTTTCAAAGT 59.069 34.615 0.00 0.00 0.00 2.66
102 103 7.442062 CCATTTCTAGTGGCATTTTTCAAAGTT 59.558 33.333 0.00 0.00 0.00 2.66
103 104 8.829612 CATTTCTAGTGGCATTTTTCAAAGTTT 58.170 29.630 0.00 0.00 0.00 2.66
105 106 8.865590 TTCTAGTGGCATTTTTCAAAGTTTAC 57.134 30.769 0.00 0.00 0.00 2.01
106 107 8.001881 TCTAGTGGCATTTTTCAAAGTTTACA 57.998 30.769 0.00 0.00 0.00 2.41
107 108 8.470805 TCTAGTGGCATTTTTCAAAGTTTACAA 58.529 29.630 0.00 0.00 0.00 2.41
108 109 7.913674 AGTGGCATTTTTCAAAGTTTACAAA 57.086 28.000 0.00 0.00 0.00 2.83
109 110 8.329203 AGTGGCATTTTTCAAAGTTTACAAAA 57.671 26.923 0.00 6.58 0.00 2.44
110 111 8.787852 AGTGGCATTTTTCAAAGTTTACAAAAA 58.212 25.926 14.92 14.92 33.46 1.94
111 112 9.566530 GTGGCATTTTTCAAAGTTTACAAAAAT 57.433 25.926 17.01 17.01 38.41 1.82
114 115 9.884299 GCATTTTTCAAAGTTTACAAAAATTGC 57.116 25.926 18.75 19.43 36.66 3.56
118 119 9.604626 TTTTCAAAGTTTACAAAAATTGCAGTG 57.395 25.926 0.00 0.00 0.00 3.66
119 120 8.539770 TTCAAAGTTTACAAAAATTGCAGTGA 57.460 26.923 0.00 0.00 0.00 3.41
120 121 7.958674 TCAAAGTTTACAAAAATTGCAGTGAC 58.041 30.769 0.00 0.00 0.00 3.67
121 122 7.600375 TCAAAGTTTACAAAAATTGCAGTGACA 59.400 29.630 0.00 0.00 0.00 3.58
122 123 8.389603 CAAAGTTTACAAAAATTGCAGTGACAT 58.610 29.630 0.00 0.00 0.00 3.06
123 124 8.491331 AAGTTTACAAAAATTGCAGTGACATT 57.509 26.923 0.00 0.00 0.00 2.71
124 125 8.491331 AGTTTACAAAAATTGCAGTGACATTT 57.509 26.923 0.00 0.00 0.00 2.32
125 126 8.945057 AGTTTACAAAAATTGCAGTGACATTTT 58.055 25.926 0.00 0.53 0.00 1.82
126 127 9.553418 GTTTACAAAAATTGCAGTGACATTTTT 57.447 25.926 14.93 14.93 35.65 1.94
127 128 9.766277 TTTACAAAAATTGCAGTGACATTTTTC 57.234 25.926 16.68 0.00 34.01 2.29
128 129 7.375106 ACAAAAATTGCAGTGACATTTTTCA 57.625 28.000 16.68 0.00 34.01 2.69
129 130 7.814642 ACAAAAATTGCAGTGACATTTTTCAA 58.185 26.923 16.68 1.59 34.01 2.69
130 131 8.295288 ACAAAAATTGCAGTGACATTTTTCAAA 58.705 25.926 16.68 0.00 34.01 2.69
131 132 8.790674 CAAAAATTGCAGTGACATTTTTCAAAG 58.209 29.630 16.68 7.48 34.01 2.77
132 133 7.614124 AAATTGCAGTGACATTTTTCAAAGT 57.386 28.000 0.00 0.00 0.00 2.66
133 134 7.614124 AATTGCAGTGACATTTTTCAAAGTT 57.386 28.000 0.00 0.00 0.00 2.66
134 135 7.614124 ATTGCAGTGACATTTTTCAAAGTTT 57.386 28.000 0.00 0.00 0.00 2.66
135 136 6.406093 TGCAGTGACATTTTTCAAAGTTTG 57.594 33.333 9.44 9.44 0.00 2.93
136 137 5.350914 TGCAGTGACATTTTTCAAAGTTTGG 59.649 36.000 15.47 1.10 0.00 3.28
137 138 5.580297 GCAGTGACATTTTTCAAAGTTTGGA 59.420 36.000 15.47 3.83 0.00 3.53
138 139 6.091986 GCAGTGACATTTTTCAAAGTTTGGAA 59.908 34.615 15.47 10.54 0.00 3.53
139 140 7.360776 GCAGTGACATTTTTCAAAGTTTGGAAA 60.361 33.333 16.59 16.59 36.38 3.13
140 141 8.667463 CAGTGACATTTTTCAAAGTTTGGAAAT 58.333 29.630 20.26 18.72 37.93 2.17
141 142 9.230122 AGTGACATTTTTCAAAGTTTGGAAATT 57.770 25.926 20.26 14.79 37.93 1.82
142 143 9.276397 GTGACATTTTTCAAAGTTTGGAAATTG 57.724 29.630 27.50 27.50 41.69 2.32
143 144 7.967303 TGACATTTTTCAAAGTTTGGAAATTGC 59.033 29.630 28.34 23.32 40.56 3.56
144 145 7.824672 ACATTTTTCAAAGTTTGGAAATTGCA 58.175 26.923 28.34 15.17 40.56 4.08
145 146 7.969508 ACATTTTTCAAAGTTTGGAAATTGCAG 59.030 29.630 28.34 17.42 40.56 4.41
146 147 7.446001 TTTTTCAAAGTTTGGAAATTGCAGT 57.554 28.000 20.26 0.00 37.93 4.40
147 148 6.419980 TTTCAAAGTTTGGAAATTGCAGTG 57.580 33.333 15.47 0.00 0.00 3.66
148 149 4.440880 TCAAAGTTTGGAAATTGCAGTGG 58.559 39.130 15.47 0.00 0.00 4.00
149 150 2.531522 AGTTTGGAAATTGCAGTGGC 57.468 45.000 0.00 0.00 41.68 5.01
164 165 4.423732 GCAGTGGCATTTTTATGAATCGT 58.576 39.130 0.00 0.00 40.72 3.73
165 166 4.500477 GCAGTGGCATTTTTATGAATCGTC 59.500 41.667 0.00 0.00 40.72 4.20
166 167 5.639757 CAGTGGCATTTTTATGAATCGTCA 58.360 37.500 0.00 0.00 38.41 4.35
167 168 6.267817 CAGTGGCATTTTTATGAATCGTCAT 58.732 36.000 0.00 0.00 46.52 3.06
168 169 7.416817 CAGTGGCATTTTTATGAATCGTCATA 58.583 34.615 0.00 0.00 42.94 2.15
178 179 7.728847 TTATGAATCGTCATAATTGGAGTGG 57.271 36.000 5.29 0.00 46.93 4.00
179 180 3.876914 TGAATCGTCATAATTGGAGTGGC 59.123 43.478 0.00 0.00 0.00 5.01
180 181 3.558931 ATCGTCATAATTGGAGTGGCA 57.441 42.857 0.00 0.00 0.00 4.92
181 182 3.558931 TCGTCATAATTGGAGTGGCAT 57.441 42.857 0.00 0.00 0.00 4.40
182 183 3.884895 TCGTCATAATTGGAGTGGCATT 58.115 40.909 0.00 0.00 0.00 3.56
183 184 4.269183 TCGTCATAATTGGAGTGGCATTT 58.731 39.130 0.00 0.00 0.00 2.32
184 185 5.432645 TCGTCATAATTGGAGTGGCATTTA 58.567 37.500 0.00 0.00 0.00 1.40
185 186 6.061441 TCGTCATAATTGGAGTGGCATTTAT 58.939 36.000 0.00 0.00 0.00 1.40
186 187 6.204688 TCGTCATAATTGGAGTGGCATTTATC 59.795 38.462 0.00 0.00 0.00 1.75
187 188 6.205464 CGTCATAATTGGAGTGGCATTTATCT 59.795 38.462 0.00 0.00 0.00 1.98
188 189 7.387673 CGTCATAATTGGAGTGGCATTTATCTA 59.612 37.037 0.00 0.00 0.00 1.98
189 190 9.066892 GTCATAATTGGAGTGGCATTTATCTAA 57.933 33.333 0.00 0.00 0.00 2.10
190 191 9.812347 TCATAATTGGAGTGGCATTTATCTAAT 57.188 29.630 0.00 0.00 0.00 1.73
195 196 7.817418 TGGAGTGGCATTTATCTAATTAACC 57.183 36.000 0.00 0.00 0.00 2.85
196 197 6.775629 TGGAGTGGCATTTATCTAATTAACCC 59.224 38.462 0.00 0.00 0.00 4.11
197 198 6.775629 GGAGTGGCATTTATCTAATTAACCCA 59.224 38.462 0.00 0.00 0.00 4.51
198 199 7.286775 GGAGTGGCATTTATCTAATTAACCCAA 59.713 37.037 0.00 0.00 0.00 4.12
199 200 8.602472 AGTGGCATTTATCTAATTAACCCAAA 57.398 30.769 0.00 0.00 0.00 3.28
200 201 9.041354 AGTGGCATTTATCTAATTAACCCAAAA 57.959 29.630 0.00 0.00 0.00 2.44
201 202 9.660180 GTGGCATTTATCTAATTAACCCAAAAA 57.340 29.630 0.00 0.00 0.00 1.94
343 350 3.289834 CCTGCAGCGTGCCTTTGT 61.290 61.111 8.66 0.00 44.23 2.83
405 412 2.076863 CAGTCTCCCACCGTCAATTTC 58.923 52.381 0.00 0.00 0.00 2.17
910 932 1.333636 CCGCCCTTCATCTCCTCTGT 61.334 60.000 0.00 0.00 0.00 3.41
922 944 2.202676 CTCTGTCCTCGCGCCTTC 60.203 66.667 0.00 0.00 0.00 3.46
972 994 1.535462 CGTTCATGTCCACCCAGAAAC 59.465 52.381 0.00 0.00 0.00 2.78
973 995 1.535462 GTTCATGTCCACCCAGAAACG 59.465 52.381 0.00 0.00 0.00 3.60
974 996 0.605319 TCATGTCCACCCAGAAACGC 60.605 55.000 0.00 0.00 0.00 4.84
975 997 0.606401 CATGTCCACCCAGAAACGCT 60.606 55.000 0.00 0.00 0.00 5.07
1032 1054 0.808453 GCATAAGCTTCACCGCCGTA 60.808 55.000 0.00 0.00 37.91 4.02
1155 1177 2.753043 GAGGTCCGCGTCTACCCA 60.753 66.667 16.24 0.00 36.34 4.51
1307 1335 4.216257 ACTCAAACCGTCCAATGAAATCAG 59.784 41.667 0.00 0.00 0.00 2.90
1308 1336 4.141287 TCAAACCGTCCAATGAAATCAGT 58.859 39.130 0.00 0.00 0.00 3.41
1643 1703 3.683822 GCTCAGTTCTTTGGAGACATGAG 59.316 47.826 0.00 10.49 42.37 2.90
1759 1819 0.677098 CGACGAGAAGGGTGAGGAGA 60.677 60.000 0.00 0.00 0.00 3.71
1809 1869 1.816537 TGCTGACAGATACGGGCTC 59.183 57.895 6.65 0.00 0.00 4.70
1872 1932 1.677942 TCAATGTTGACACTGCAGCA 58.322 45.000 15.27 2.30 33.53 4.41
2081 2149 3.748083 CTGATGCATAGTTGGGTGCTAT 58.252 45.455 0.00 0.00 41.78 2.97
2082 2150 3.743521 TGATGCATAGTTGGGTGCTATC 58.256 45.455 0.00 0.00 41.78 2.08
2083 2151 3.136260 TGATGCATAGTTGGGTGCTATCA 59.864 43.478 0.00 0.00 41.78 2.15
2084 2152 3.198409 TGCATAGTTGGGTGCTATCAG 57.802 47.619 0.00 0.00 41.78 2.90
2085 2153 2.771372 TGCATAGTTGGGTGCTATCAGA 59.229 45.455 0.00 0.00 41.78 3.27
2086 2154 3.181462 TGCATAGTTGGGTGCTATCAGAG 60.181 47.826 0.00 0.00 41.78 3.35
2087 2155 3.805108 GCATAGTTGGGTGCTATCAGAGG 60.805 52.174 0.00 0.00 38.30 3.69
2088 2156 1.958288 AGTTGGGTGCTATCAGAGGT 58.042 50.000 0.00 0.00 0.00 3.85
2171 2259 6.683883 CGTCGTGTCTTAACATTGAATCTAC 58.316 40.000 0.00 0.00 37.81 2.59
2246 2338 0.954452 CTTGTGTTCCCCTGACTTGC 59.046 55.000 0.00 0.00 0.00 4.01
2278 2370 7.445707 TGCAACCTGTTGTGATGTAATTTAGTA 59.554 33.333 11.35 0.00 42.31 1.82
2355 2541 6.768381 CAGGTGATACATGAGTAGTCTCTGTA 59.232 42.308 0.00 12.83 40.98 2.74
2356 2542 7.446931 CAGGTGATACATGAGTAGTCTCTGTAT 59.553 40.741 18.46 18.46 41.62 2.29
2357 2543 7.446931 AGGTGATACATGAGTAGTCTCTGTATG 59.553 40.741 21.25 10.51 40.55 2.39
2358 2544 7.229707 GGTGATACATGAGTAGTCTCTGTATGT 59.770 40.741 21.25 14.41 40.55 2.29
2359 2545 8.073167 GTGATACATGAGTAGTCTCTGTATGTG 58.927 40.741 21.25 4.36 40.55 3.21
2360 2546 5.255710 ACATGAGTAGTCTCTGTATGTGC 57.744 43.478 0.00 0.00 40.98 4.57
2361 2547 4.952957 ACATGAGTAGTCTCTGTATGTGCT 59.047 41.667 0.00 0.00 40.98 4.40
2362 2548 5.420421 ACATGAGTAGTCTCTGTATGTGCTT 59.580 40.000 0.00 0.00 40.98 3.91
2363 2549 5.984695 TGAGTAGTCTCTGTATGTGCTTT 57.015 39.130 0.00 0.00 40.98 3.51
2364 2550 6.346477 TGAGTAGTCTCTGTATGTGCTTTT 57.654 37.500 0.00 0.00 40.98 2.27
2581 2771 5.844004 CAGTTCACTGTTACTGAAGTAGGT 58.156 41.667 12.25 0.00 43.45 3.08
2597 2787 9.463443 CTGAAGTAGGTTGTTTAAAATTCCTTG 57.537 33.333 10.25 0.00 0.00 3.61
2691 3061 0.675837 TGCTGCAGCTTCTCATGGTC 60.676 55.000 36.61 6.43 42.66 4.02
2731 3223 2.105993 AGTAACTTGTGTTCCCCTGACC 59.894 50.000 0.00 0.00 37.59 4.02
2739 3231 0.755079 GTTCCCCTGACCCGTATACC 59.245 60.000 0.00 0.00 0.00 2.73
2886 3624 7.630525 GCTTTGGCAAGAACCTTCTGTTCAA 62.631 44.000 0.00 0.00 45.61 2.69
2906 3644 8.642432 TGTTCAATGATACTATAGAGTCAAGGG 58.358 37.037 6.78 4.76 37.10 3.95
2908 3646 9.877222 TTCAATGATACTATAGAGTCAAGGGTA 57.123 33.333 6.78 0.00 37.10 3.69
2936 3674 5.352569 CAGAGTTCGCTGGTATGATTTTCTT 59.647 40.000 0.00 0.00 32.26 2.52
2997 3804 9.804758 ACTAGTATTTGTTATCTTTCTCTTCGG 57.195 33.333 0.00 0.00 0.00 4.30
3007 3814 5.598416 TCTTTCTCTTCGGATGCTTATCA 57.402 39.130 0.00 0.00 0.00 2.15
3047 3854 2.263540 CAATGTGCAAGGCCTGGC 59.736 61.111 26.51 26.51 0.00 4.85
3050 3857 0.682209 AATGTGCAAGGCCTGGCTAG 60.682 55.000 32.14 9.21 0.00 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.459923 TGAAGTGGCATTTACCAAATTAACC 58.540 36.000 0.00 0.00 42.70 2.85
1 2 7.954788 TTGAAGTGGCATTTACCAAATTAAC 57.045 32.000 0.00 0.00 42.70 2.01
2 3 9.566432 AATTTGAAGTGGCATTTACCAAATTAA 57.434 25.926 22.27 2.74 42.70 1.40
3 4 9.566432 AAATTTGAAGTGGCATTTACCAAATTA 57.434 25.926 23.12 3.82 42.70 1.40
4 5 8.351461 CAAATTTGAAGTGGCATTTACCAAATT 58.649 29.630 19.96 19.96 42.70 1.82
5 6 7.040548 CCAAATTTGAAGTGGCATTTACCAAAT 60.041 33.333 19.86 13.22 42.70 2.32
6 7 6.261826 CCAAATTTGAAGTGGCATTTACCAAA 59.738 34.615 19.86 10.52 42.70 3.28
7 8 5.762218 CCAAATTTGAAGTGGCATTTACCAA 59.238 36.000 19.86 0.00 42.70 3.67
8 9 5.303971 CCAAATTTGAAGTGGCATTTACCA 58.696 37.500 19.86 0.00 37.38 3.25
9 10 5.861222 CCAAATTTGAAGTGGCATTTACC 57.139 39.130 19.86 0.00 0.00 2.85
17 18 3.253230 GGAATCGCCAAATTTGAAGTGG 58.747 45.455 19.86 4.15 36.34 4.00
18 19 3.911868 TGGAATCGCCAAATTTGAAGTG 58.088 40.909 19.86 10.28 45.87 3.16
30 31 0.817013 TGGCATTTCTTGGAATCGCC 59.183 50.000 11.22 11.22 35.56 5.54
31 32 1.474077 AGTGGCATTTCTTGGAATCGC 59.526 47.619 0.00 0.00 0.00 4.58
32 33 3.689161 TGTAGTGGCATTTCTTGGAATCG 59.311 43.478 0.00 0.00 0.00 3.34
33 34 5.643379 TTGTAGTGGCATTTCTTGGAATC 57.357 39.130 0.00 0.00 0.00 2.52
34 35 6.610075 AATTGTAGTGGCATTTCTTGGAAT 57.390 33.333 0.00 0.00 0.00 3.01
35 36 6.418057 AAATTGTAGTGGCATTTCTTGGAA 57.582 33.333 0.00 0.00 0.00 3.53
36 37 5.047377 GGAAATTGTAGTGGCATTTCTTGGA 60.047 40.000 8.42 0.00 33.25 3.53
37 38 5.170748 GGAAATTGTAGTGGCATTTCTTGG 58.829 41.667 8.42 0.00 33.25 3.61
38 39 5.782047 TGGAAATTGTAGTGGCATTTCTTG 58.218 37.500 8.42 0.00 33.25 3.02
39 40 6.418057 TTGGAAATTGTAGTGGCATTTCTT 57.582 33.333 8.42 0.00 33.25 2.52
40 41 6.041979 AGTTTGGAAATTGTAGTGGCATTTCT 59.958 34.615 8.42 0.00 33.25 2.52
41 42 6.223120 AGTTTGGAAATTGTAGTGGCATTTC 58.777 36.000 0.00 0.00 0.00 2.17
42 43 6.173427 AGTTTGGAAATTGTAGTGGCATTT 57.827 33.333 0.00 0.00 0.00 2.32
43 44 5.806654 AGTTTGGAAATTGTAGTGGCATT 57.193 34.783 0.00 0.00 0.00 3.56
44 45 5.806654 AAGTTTGGAAATTGTAGTGGCAT 57.193 34.783 0.00 0.00 0.00 4.40
45 46 5.127845 TCAAAGTTTGGAAATTGTAGTGGCA 59.872 36.000 15.47 0.00 0.00 4.92
46 47 5.596845 TCAAAGTTTGGAAATTGTAGTGGC 58.403 37.500 15.47 0.00 0.00 5.01
47 48 8.485976 TTTTCAAAGTTTGGAAATTGTAGTGG 57.514 30.769 16.59 0.00 33.31 4.00
50 51 9.437045 GCATTTTTCAAAGTTTGGAAATTGTAG 57.563 29.630 28.41 16.98 39.74 2.74
51 52 8.401709 GGCATTTTTCAAAGTTTGGAAATTGTA 58.598 29.630 28.41 15.58 39.74 2.41
52 53 7.094032 TGGCATTTTTCAAAGTTTGGAAATTGT 60.094 29.630 28.41 15.81 39.74 2.71
53 54 7.256286 TGGCATTTTTCAAAGTTTGGAAATTG 58.744 30.769 26.17 26.17 37.93 2.32
54 55 7.401955 TGGCATTTTTCAAAGTTTGGAAATT 57.598 28.000 20.26 14.79 37.93 1.82
55 56 7.585579 ATGGCATTTTTCAAAGTTTGGAAAT 57.414 28.000 20.26 18.72 37.93 2.17
56 57 7.401955 AATGGCATTTTTCAAAGTTTGGAAA 57.598 28.000 16.59 16.59 36.38 3.13
57 58 7.338957 AGAAATGGCATTTTTCAAAGTTTGGAA 59.661 29.630 25.02 10.54 35.90 3.53
58 59 6.827762 AGAAATGGCATTTTTCAAAGTTTGGA 59.172 30.769 25.02 3.83 35.90 3.53
59 60 7.030075 AGAAATGGCATTTTTCAAAGTTTGG 57.970 32.000 25.02 0.00 35.90 3.28
60 61 8.829612 ACTAGAAATGGCATTTTTCAAAGTTTG 58.170 29.630 25.02 9.44 35.90 2.93
61 62 8.829612 CACTAGAAATGGCATTTTTCAAAGTTT 58.170 29.630 25.02 0.90 35.90 2.66
62 63 7.442062 CCACTAGAAATGGCATTTTTCAAAGTT 59.558 33.333 25.02 0.77 35.90 2.66
63 64 6.930722 CCACTAGAAATGGCATTTTTCAAAGT 59.069 34.615 25.02 16.65 35.90 2.66
64 65 7.355332 CCACTAGAAATGGCATTTTTCAAAG 57.645 36.000 25.02 16.07 35.90 2.77
76 77 6.930722 ACTTTGAAAAATGCCACTAGAAATGG 59.069 34.615 0.00 0.00 40.50 3.16
77 78 7.951530 ACTTTGAAAAATGCCACTAGAAATG 57.048 32.000 0.00 0.00 0.00 2.32
78 79 8.962884 AAACTTTGAAAAATGCCACTAGAAAT 57.037 26.923 0.00 0.00 0.00 2.17
79 80 9.308318 GTAAACTTTGAAAAATGCCACTAGAAA 57.692 29.630 0.00 0.00 0.00 2.52
80 81 8.470805 TGTAAACTTTGAAAAATGCCACTAGAA 58.529 29.630 0.00 0.00 0.00 2.10
81 82 8.001881 TGTAAACTTTGAAAAATGCCACTAGA 57.998 30.769 0.00 0.00 0.00 2.43
82 83 8.641499 TTGTAAACTTTGAAAAATGCCACTAG 57.359 30.769 0.00 0.00 0.00 2.57
83 84 9.436957 TTTTGTAAACTTTGAAAAATGCCACTA 57.563 25.926 0.00 0.00 0.00 2.74
84 85 7.913674 TTTGTAAACTTTGAAAAATGCCACT 57.086 28.000 0.00 0.00 0.00 4.00
85 86 8.956617 TTTTTGTAAACTTTGAAAAATGCCAC 57.043 26.923 0.00 0.00 0.00 5.01
88 89 9.884299 GCAATTTTTGTAAACTTTGAAAAATGC 57.116 25.926 13.96 13.01 37.80 3.56
92 93 9.604626 CACTGCAATTTTTGTAAACTTTGAAAA 57.395 25.926 0.00 0.00 0.00 2.29
93 94 8.993121 TCACTGCAATTTTTGTAAACTTTGAAA 58.007 25.926 0.00 0.00 0.00 2.69
94 95 8.439286 GTCACTGCAATTTTTGTAAACTTTGAA 58.561 29.630 0.00 0.00 0.00 2.69
95 96 7.600375 TGTCACTGCAATTTTTGTAAACTTTGA 59.400 29.630 0.00 0.00 0.00 2.69
96 97 7.737395 TGTCACTGCAATTTTTGTAAACTTTG 58.263 30.769 0.00 0.00 0.00 2.77
97 98 7.897575 TGTCACTGCAATTTTTGTAAACTTT 57.102 28.000 0.00 0.00 0.00 2.66
98 99 8.491331 AATGTCACTGCAATTTTTGTAAACTT 57.509 26.923 0.00 0.00 0.00 2.66
99 100 8.491331 AAATGTCACTGCAATTTTTGTAAACT 57.509 26.923 0.00 0.00 0.00 2.66
100 101 9.553418 AAAAATGTCACTGCAATTTTTGTAAAC 57.447 25.926 14.81 0.53 34.40 2.01
101 102 9.766277 GAAAAATGTCACTGCAATTTTTGTAAA 57.234 25.926 18.68 0.00 35.40 2.01
102 103 8.939929 TGAAAAATGTCACTGCAATTTTTGTAA 58.060 25.926 18.68 6.30 35.40 2.41
103 104 8.484641 TGAAAAATGTCACTGCAATTTTTGTA 57.515 26.923 18.68 8.63 35.40 2.41
104 105 7.375106 TGAAAAATGTCACTGCAATTTTTGT 57.625 28.000 18.68 1.78 35.40 2.83
105 106 8.670804 TTTGAAAAATGTCACTGCAATTTTTG 57.329 26.923 18.68 0.00 35.40 2.44
106 107 8.513774 ACTTTGAAAAATGTCACTGCAATTTTT 58.486 25.926 15.28 15.28 37.20 1.94
107 108 8.042944 ACTTTGAAAAATGTCACTGCAATTTT 57.957 26.923 1.11 1.11 35.08 1.82
108 109 7.614124 ACTTTGAAAAATGTCACTGCAATTT 57.386 28.000 0.00 0.00 0.00 1.82
109 110 7.614124 AACTTTGAAAAATGTCACTGCAATT 57.386 28.000 0.00 0.00 0.00 2.32
110 111 7.414319 CCAAACTTTGAAAAATGTCACTGCAAT 60.414 33.333 2.87 0.00 0.00 3.56
111 112 6.128336 CCAAACTTTGAAAAATGTCACTGCAA 60.128 34.615 2.87 0.00 0.00 4.08
112 113 5.350914 CCAAACTTTGAAAAATGTCACTGCA 59.649 36.000 2.87 0.00 0.00 4.41
113 114 5.580297 TCCAAACTTTGAAAAATGTCACTGC 59.420 36.000 2.87 0.00 0.00 4.40
114 115 7.593875 TTCCAAACTTTGAAAAATGTCACTG 57.406 32.000 2.87 0.00 0.00 3.66
115 116 8.791327 ATTTCCAAACTTTGAAAAATGTCACT 57.209 26.923 2.87 0.00 30.16 3.41
116 117 9.276397 CAATTTCCAAACTTTGAAAAATGTCAC 57.724 29.630 2.87 0.00 31.07 3.67
117 118 7.967303 GCAATTTCCAAACTTTGAAAAATGTCA 59.033 29.630 2.87 0.00 31.07 3.58
118 119 7.967303 TGCAATTTCCAAACTTTGAAAAATGTC 59.033 29.630 2.87 5.60 31.07 3.06
119 120 7.824672 TGCAATTTCCAAACTTTGAAAAATGT 58.175 26.923 2.87 0.00 31.07 2.71
120 121 7.969508 ACTGCAATTTCCAAACTTTGAAAAATG 59.030 29.630 2.87 0.43 31.07 2.32
121 122 7.969508 CACTGCAATTTCCAAACTTTGAAAAAT 59.030 29.630 2.87 6.16 31.56 1.82
122 123 7.303998 CACTGCAATTTCCAAACTTTGAAAAA 58.696 30.769 2.87 4.27 0.00 1.94
123 124 6.128063 CCACTGCAATTTCCAAACTTTGAAAA 60.128 34.615 2.87 0.00 0.00 2.29
124 125 5.353678 CCACTGCAATTTCCAAACTTTGAAA 59.646 36.000 2.87 3.11 0.00 2.69
125 126 4.874966 CCACTGCAATTTCCAAACTTTGAA 59.125 37.500 2.87 0.00 0.00 2.69
126 127 4.440880 CCACTGCAATTTCCAAACTTTGA 58.559 39.130 2.87 0.00 0.00 2.69
127 128 3.002553 GCCACTGCAATTTCCAAACTTTG 59.997 43.478 0.00 0.00 37.47 2.77
128 129 3.205338 GCCACTGCAATTTCCAAACTTT 58.795 40.909 0.00 0.00 37.47 2.66
129 130 2.170187 TGCCACTGCAATTTCCAAACTT 59.830 40.909 0.00 0.00 46.66 2.66
130 131 1.761784 TGCCACTGCAATTTCCAAACT 59.238 42.857 0.00 0.00 46.66 2.66
131 132 2.237393 TGCCACTGCAATTTCCAAAC 57.763 45.000 0.00 0.00 46.66 2.93
141 142 9.446507 ATGACGATTCATAAAAATGCCACTGCA 62.447 37.037 0.00 0.00 45.95 4.41
142 143 4.423732 ACGATTCATAAAAATGCCACTGC 58.576 39.130 0.00 0.00 38.26 4.40
143 144 5.639757 TGACGATTCATAAAAATGCCACTG 58.360 37.500 0.00 0.00 0.00 3.66
144 145 5.895636 TGACGATTCATAAAAATGCCACT 57.104 34.783 0.00 0.00 0.00 4.00
155 156 5.700832 GCCACTCCAATTATGACGATTCATA 59.299 40.000 0.00 0.00 42.77 2.15
156 157 4.516698 GCCACTCCAATTATGACGATTCAT 59.483 41.667 0.00 0.00 45.04 2.57
157 158 3.876914 GCCACTCCAATTATGACGATTCA 59.123 43.478 0.00 0.00 35.73 2.57
158 159 3.876914 TGCCACTCCAATTATGACGATTC 59.123 43.478 0.00 0.00 0.00 2.52
159 160 3.884895 TGCCACTCCAATTATGACGATT 58.115 40.909 0.00 0.00 0.00 3.34
160 161 3.558931 TGCCACTCCAATTATGACGAT 57.441 42.857 0.00 0.00 0.00 3.73
161 162 3.558931 ATGCCACTCCAATTATGACGA 57.441 42.857 0.00 0.00 0.00 4.20
162 163 4.637483 AAATGCCACTCCAATTATGACG 57.363 40.909 0.00 0.00 0.00 4.35
163 164 7.516198 AGATAAATGCCACTCCAATTATGAC 57.484 36.000 0.00 0.00 0.00 3.06
164 165 9.812347 ATTAGATAAATGCCACTCCAATTATGA 57.188 29.630 0.00 0.00 0.00 2.15
169 170 8.860088 GGTTAATTAGATAAATGCCACTCCAAT 58.140 33.333 0.00 0.00 0.00 3.16
170 171 7.286775 GGGTTAATTAGATAAATGCCACTCCAA 59.713 37.037 0.00 0.00 0.00 3.53
171 172 6.775629 GGGTTAATTAGATAAATGCCACTCCA 59.224 38.462 0.00 0.00 0.00 3.86
172 173 6.775629 TGGGTTAATTAGATAAATGCCACTCC 59.224 38.462 0.00 0.00 0.00 3.85
173 174 7.817418 TGGGTTAATTAGATAAATGCCACTC 57.183 36.000 0.00 0.00 0.00 3.51
174 175 8.602472 TTTGGGTTAATTAGATAAATGCCACT 57.398 30.769 0.00 0.00 0.00 4.00
175 176 9.660180 TTTTTGGGTTAATTAGATAAATGCCAC 57.340 29.630 0.00 0.00 0.00 5.01
240 241 0.463620 GCACAGGGGCACTTGAAAAA 59.536 50.000 4.49 0.00 0.00 1.94
241 242 1.398958 GGCACAGGGGCACTTGAAAA 61.399 55.000 4.49 0.00 42.77 2.29
242 243 1.832167 GGCACAGGGGCACTTGAAA 60.832 57.895 4.49 0.00 42.77 2.69
243 244 2.203480 GGCACAGGGGCACTTGAA 60.203 61.111 4.49 0.00 42.77 2.69
244 245 4.641645 CGGCACAGGGGCACTTGA 62.642 66.667 4.49 0.00 43.60 3.02
267 268 2.472909 GCACGGCCCAACTGCTATC 61.473 63.158 0.00 0.00 0.00 2.08
405 412 2.434884 ATTCCGACTGCACTGCCG 60.435 61.111 0.00 0.00 0.00 5.69
792 799 3.357079 GACTTGCCTGCCGGTGTG 61.357 66.667 1.90 0.00 0.00 3.82
851 872 2.609747 GCTGGATATGAGGACCCTACA 58.390 52.381 0.00 0.00 0.00 2.74
900 922 2.485795 GCGCGAGGACAGAGGAGAT 61.486 63.158 12.10 0.00 0.00 2.75
901 923 3.134792 GCGCGAGGACAGAGGAGA 61.135 66.667 12.10 0.00 0.00 3.71
931 953 1.301322 TGTGAGCACGATTCGGCAA 60.301 52.632 17.64 6.58 0.00 4.52
972 994 1.088340 CCTGTGCCTCAGATCAAGCG 61.088 60.000 7.45 0.00 46.27 4.68
973 995 1.375098 GCCTGTGCCTCAGATCAAGC 61.375 60.000 7.45 0.00 46.27 4.01
974 996 2.777969 GCCTGTGCCTCAGATCAAG 58.222 57.895 7.45 0.00 46.27 3.02
1155 1177 2.186384 GCAGAGCTGGTCATCGCT 59.814 61.111 9.78 0.00 39.61 4.93
1191 1213 1.079819 CACCTCCAGCACCACGTAG 60.080 63.158 0.00 0.00 0.00 3.51
1307 1335 3.368236 GCGACTGAACACCTTTGAGATAC 59.632 47.826 0.00 0.00 0.00 2.24
1308 1336 3.585862 GCGACTGAACACCTTTGAGATA 58.414 45.455 0.00 0.00 0.00 1.98
1437 1483 0.249657 CCGTATCAGGCAGCTCCTTC 60.250 60.000 2.32 0.00 44.75 3.46
1643 1703 2.289945 ACACTCTGTGAGCATTTCTCCC 60.290 50.000 4.61 0.00 41.18 4.30
1759 1819 2.094675 GTGCTGGGCTAACATTGTCAT 58.905 47.619 0.00 0.00 0.00 3.06
1809 1869 0.175302 AGATCAGCTTGAGCCTGTCG 59.825 55.000 0.00 0.00 43.38 4.35
1895 1955 2.899838 GCCGTGGACAGTTGTGCA 60.900 61.111 2.12 2.12 44.12 4.57
2081 2149 0.487325 TTGGACCTCTGGACCTCTGA 59.513 55.000 6.66 0.00 38.31 3.27
2082 2150 1.352083 TTTGGACCTCTGGACCTCTG 58.648 55.000 6.66 0.00 38.31 3.35
2083 2151 2.350863 ATTTGGACCTCTGGACCTCT 57.649 50.000 6.66 0.00 38.31 3.69
2084 2152 3.244911 TGAAATTTGGACCTCTGGACCTC 60.245 47.826 0.00 0.00 38.31 3.85
2085 2153 2.716424 TGAAATTTGGACCTCTGGACCT 59.284 45.455 0.00 0.00 38.31 3.85
2086 2154 3.084786 CTGAAATTTGGACCTCTGGACC 58.915 50.000 0.00 0.00 38.00 4.46
2087 2155 3.503748 CACTGAAATTTGGACCTCTGGAC 59.496 47.826 0.00 0.00 0.00 4.02
2088 2156 3.394274 TCACTGAAATTTGGACCTCTGGA 59.606 43.478 0.00 0.00 0.00 3.86
2171 2259 2.356382 CAGAGACTAACCTACCTGAGCG 59.644 54.545 0.00 0.00 0.00 5.03
2246 2338 4.022935 ACATCACAACAGGTTGCACATAAG 60.023 41.667 11.84 0.00 44.03 1.73
2560 2750 6.047231 ACAACCTACTTCAGTAACAGTGAAC 58.953 40.000 0.00 0.00 32.96 3.18
2624 2820 8.184192 CCAGCTGTGAATAATTCGAATTTTACT 58.816 33.333 27.10 10.41 0.00 2.24
2625 2821 7.968405 ACCAGCTGTGAATAATTCGAATTTTAC 59.032 33.333 27.10 17.11 0.00 2.01
2627 2823 6.924111 ACCAGCTGTGAATAATTCGAATTTT 58.076 32.000 27.10 17.36 0.00 1.82
2633 2976 4.631377 TCAGAACCAGCTGTGAATAATTCG 59.369 41.667 13.81 0.00 37.20 3.34
2681 3051 1.911357 AGGCATCAGTGACCATGAGAA 59.089 47.619 0.00 0.00 31.93 2.87
2731 3223 2.802057 GCAGTAGGTTGCTGGTATACGG 60.802 54.545 0.00 0.00 40.89 4.02
2895 3633 6.127703 CGAACTCTGAATTACCCTTGACTCTA 60.128 42.308 0.00 0.00 0.00 2.43
2906 3644 5.348986 TCATACCAGCGAACTCTGAATTAC 58.651 41.667 0.00 0.00 36.19 1.89
2908 3646 4.471904 TCATACCAGCGAACTCTGAATT 57.528 40.909 0.00 0.00 36.19 2.17
2997 3804 0.305922 GCGTGCCACTGATAAGCATC 59.694 55.000 0.00 0.00 39.04 3.91
2999 3806 2.100031 CGCGTGCCACTGATAAGCA 61.100 57.895 0.00 0.00 0.00 3.91
3007 3814 2.125673 GTATCACCGCGTGCCACT 60.126 61.111 4.92 0.00 32.98 4.00
3017 3824 3.016031 TGCACATTGGTCATGTATCACC 58.984 45.455 0.00 0.00 45.06 4.02


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

AutoCloner maintained by Alex Coulton.