Multiple sequence alignment - TraesCS2B01G086300

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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 TraesCS2B01G086300 chr2B 100.000 4398 0 0 1 4398 48038740 48043137 0.000000e+00 8122.0
1 TraesCS2B01G086300 chr2B 96.521 1897 55 8 361 2251 49332510 49330619 0.000000e+00 3127.0
2 TraesCS2B01G086300 chr2B 95.550 1753 71 6 2251 3998 49330328 49328578 0.000000e+00 2798.0
3 TraesCS2B01G086300 chr2B 98.214 224 3 1 4174 4396 49328495 49328272 1.480000e-104 390.0
4 TraesCS2B01G086300 chr2B 97.701 87 2 0 4035 4121 49328576 49328490 2.740000e-32 150.0
5 TraesCS2B01G086300 chr2B 95.122 41 1 1 3076 3115 733744771 733744731 3.670000e-06 63.9
6 TraesCS2B01G086300 chr2D 96.701 1940 44 9 359 2291 29877250 29879176 0.000000e+00 3210.0
7 TraesCS2B01G086300 chr2D 97.356 1324 32 2 2332 3655 29879173 29880493 0.000000e+00 2248.0
8 TraesCS2B01G086300 chr2D 88.202 1568 156 18 2251 3808 29843416 29844964 0.000000e+00 1844.0
9 TraesCS2B01G086300 chr2D 78.490 967 188 11 2360 3325 29744349 29745296 2.250000e-172 616.0
10 TraesCS2B01G086300 chr2D 77.734 1006 200 15 2360 3362 29745978 29746962 2.930000e-166 595.0
11 TraesCS2B01G086300 chr2D 86.127 519 46 5 3702 4195 29880485 29881002 1.800000e-148 536.0
12 TraesCS2B01G086300 chr2D 78.530 857 137 32 908 1740 29841638 29842471 1.810000e-143 520.0
13 TraesCS2B01G086300 chr2D 90.385 104 10 0 4292 4395 29881469 29881572 2.130000e-28 137.0
14 TraesCS2B01G086300 chr2D 88.462 104 12 0 255 358 310712350 310712247 4.620000e-25 126.0
15 TraesCS2B01G086300 chr2A 90.317 1260 118 2 2332 3588 31977779 31979037 0.000000e+00 1648.0
16 TraesCS2B01G086300 chr2A 92.534 509 33 3 3582 4090 31979724 31980227 0.000000e+00 725.0
17 TraesCS2B01G086300 chr2A 78.535 969 184 14 2360 3325 31956954 31957901 2.250000e-172 616.0
18 TraesCS2B01G086300 chr2A 78.630 861 144 26 908 1744 31975998 31976842 6.470000e-148 534.0
19 TraesCS2B01G086300 chr2A 77.915 729 149 6 2634 3362 31938107 31938823 1.120000e-120 444.0
20 TraesCS2B01G086300 chr2A 85.141 249 20 10 4151 4398 31980227 31980459 5.680000e-59 239.0
21 TraesCS2B01G086300 chr7B 98.343 362 4 2 1 360 624445437 624445076 6.210000e-178 634.0
22 TraesCS2B01G086300 chr7B 93.651 63 4 0 296 358 727420197 727420259 1.300000e-15 95.3
23 TraesCS2B01G086300 chrUn 77.011 348 68 11 954 1294 12630895 12631237 5.810000e-44 189.0
24 TraesCS2B01G086300 chrUn 76.437 348 70 11 954 1294 306910083 306910425 1.260000e-40 178.0
25 TraesCS2B01G086300 chr3D 89.423 104 10 1 255 358 461319056 461319158 3.570000e-26 130.0
26 TraesCS2B01G086300 chr7A 87.963 108 13 0 255 362 422825704 422825811 1.280000e-25 128.0
27 TraesCS2B01G086300 chr5B 92.647 68 4 1 296 363 508597972 508597906 3.620000e-16 97.1
28 TraesCS2B01G086300 chr5B 94.828 58 1 2 302 358 664891288 664891232 6.060000e-14 89.8
29 TraesCS2B01G086300 chr3B 93.548 62 4 0 296 357 820688339 820688400 4.680000e-15 93.5
30 TraesCS2B01G086300 chr6B 92.188 64 5 0 296 359 171807377 171807314 1.680000e-14 91.6


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 TraesCS2B01G086300 chr2B 48038740 48043137 4397 False 8122.00 8122 100.00000 1 4398 1 chr2B.!!$F1 4397
1 TraesCS2B01G086300 chr2B 49328272 49332510 4238 True 1616.25 3127 96.99650 361 4396 4 chr2B.!!$R2 4035
2 TraesCS2B01G086300 chr2D 29877250 29881572 4322 False 1532.75 3210 92.64225 359 4395 4 chr2D.!!$F3 4036
3 TraesCS2B01G086300 chr2D 29841638 29844964 3326 False 1182.00 1844 83.36600 908 3808 2 chr2D.!!$F2 2900
4 TraesCS2B01G086300 chr2D 29744349 29746962 2613 False 605.50 616 78.11200 2360 3362 2 chr2D.!!$F1 1002
5 TraesCS2B01G086300 chr2A 31975998 31980459 4461 False 786.50 1648 86.65550 908 4398 4 chr2A.!!$F3 3490
6 TraesCS2B01G086300 chr2A 31956954 31957901 947 False 616.00 616 78.53500 2360 3325 1 chr2A.!!$F2 965
7 TraesCS2B01G086300 chr2A 31938107 31938823 716 False 444.00 444 77.91500 2634 3362 1 chr2A.!!$F1 728

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 0.031314 AGATCGCGTGCTACATCTGG 59.969 55.000 5.77 0.0 0.00 3.86 F
137 138 0.040157 TTACGACGAGGGTCAACGTG 60.040 55.000 0.00 0.0 43.61 4.49 F
198 199 0.179048 TAGCGAGGGGATTACGACGA 60.179 55.000 0.00 0.0 0.00 4.20 F
235 236 0.464373 CGCAGCCTCTCTCTCTCTCT 60.464 60.000 0.00 0.0 0.00 3.10 F
239 240 0.550914 GCCTCTCTCTCTCTCTCCCA 59.449 60.000 0.00 0.0 0.00 4.37 F
245 246 0.730265 CTCTCTCTCTCCCAACGACG 59.270 60.000 0.00 0.0 0.00 5.12 F
779 781 1.101331 TGCTTGTGTGCATGTGTGAA 58.899 45.000 0.00 0.0 38.12 3.18 F
2308 3168 5.652994 AATGGCAAAATGTTACGGTACAT 57.347 34.783 0.00 0.0 40.37 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1884 1963 4.730042 CACAGCAACGACAAATATGTATGC 59.270 41.667 0.00 6.01 40.74 3.14 R
2014 2095 5.006386 CCAAACTCCACTGAGCTCTTTAAT 58.994 41.667 16.19 0.00 42.74 1.40 R
2155 2669 2.158959 CACGACCGTCGATTGAGCC 61.159 63.158 27.03 0.00 43.74 4.70 R
2214 2741 2.952310 GGGGGCTAAACATGAGATTCAC 59.048 50.000 0.00 0.00 0.00 3.18 R
2231 2758 3.697045 TCATATTTAACAACAAGCGGGGG 59.303 43.478 0.00 0.00 0.00 5.40 R
2422 3286 4.461198 GGTCCCTCAACTTTCTTTTCTCA 58.539 43.478 0.00 0.00 0.00 3.27 R
2435 3299 2.907696 TCTTATTGAACCGGTCCCTCAA 59.092 45.455 19.65 19.65 33.82 3.02 R
4133 7351 0.389817 CGCATGGTTTGTCCTCTCGA 60.390 55.000 0.00 0.00 37.07 4.04 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 3.950254 CTCGACGGCGGCGACTAT 61.950 66.667 36.47 16.22 38.28 2.12
24 25 4.246206 TCGACGGCGGCGACTATG 62.246 66.667 36.47 18.77 38.28 2.23
25 26 4.547905 CGACGGCGGCGACTATGT 62.548 66.667 38.93 14.89 0.00 2.29
26 27 2.202703 GACGGCGGCGACTATGTT 60.203 61.111 38.93 14.02 0.00 2.71
27 28 1.808390 GACGGCGGCGACTATGTTT 60.808 57.895 38.93 13.14 0.00 2.83
28 29 1.356527 GACGGCGGCGACTATGTTTT 61.357 55.000 38.93 12.27 0.00 2.43
29 30 0.952010 ACGGCGGCGACTATGTTTTT 60.952 50.000 38.93 8.36 0.00 1.94
46 47 2.593346 TTTTTGTTGCAACCATCGCT 57.407 40.000 26.14 0.00 0.00 4.93
47 48 1.850377 TTTTGTTGCAACCATCGCTG 58.150 45.000 26.14 0.00 0.00 5.18
48 49 0.597118 TTTGTTGCAACCATCGCTGC 60.597 50.000 26.14 0.00 39.09 5.25
49 50 1.454572 TTGTTGCAACCATCGCTGCT 61.455 50.000 26.14 0.00 39.38 4.24
50 51 1.286880 GTTGCAACCATCGCTGCTT 59.713 52.632 19.15 0.00 39.38 3.91
51 52 0.318955 GTTGCAACCATCGCTGCTTT 60.319 50.000 19.15 0.00 39.38 3.51
52 53 0.388659 TTGCAACCATCGCTGCTTTT 59.611 45.000 0.00 0.00 39.38 2.27
53 54 0.388659 TGCAACCATCGCTGCTTTTT 59.611 45.000 0.00 0.00 39.38 1.94
54 55 0.785979 GCAACCATCGCTGCTTTTTG 59.214 50.000 0.00 0.00 35.62 2.44
55 56 0.785979 CAACCATCGCTGCTTTTTGC 59.214 50.000 0.00 0.00 43.25 3.68
56 57 0.675633 AACCATCGCTGCTTTTTGCT 59.324 45.000 0.00 0.00 43.37 3.91
57 58 1.533625 ACCATCGCTGCTTTTTGCTA 58.466 45.000 0.00 0.00 43.37 3.49
58 59 1.885887 ACCATCGCTGCTTTTTGCTAA 59.114 42.857 0.00 0.00 43.37 3.09
59 60 2.095059 ACCATCGCTGCTTTTTGCTAAG 60.095 45.455 0.00 0.00 43.37 2.18
60 61 2.162208 CCATCGCTGCTTTTTGCTAAGA 59.838 45.455 0.00 0.00 43.37 2.10
61 62 2.969443 TCGCTGCTTTTTGCTAAGAC 57.031 45.000 0.00 0.00 43.37 3.01
62 63 2.494059 TCGCTGCTTTTTGCTAAGACT 58.506 42.857 0.00 0.00 43.37 3.24
63 64 2.878406 TCGCTGCTTTTTGCTAAGACTT 59.122 40.909 0.00 0.00 43.37 3.01
64 65 3.058914 TCGCTGCTTTTTGCTAAGACTTC 60.059 43.478 0.00 0.00 43.37 3.01
65 66 3.229552 GCTGCTTTTTGCTAAGACTTCG 58.770 45.455 0.00 0.00 43.37 3.79
66 67 3.304057 GCTGCTTTTTGCTAAGACTTCGT 60.304 43.478 0.00 0.00 43.37 3.85
67 68 4.789802 GCTGCTTTTTGCTAAGACTTCGTT 60.790 41.667 0.00 0.00 43.37 3.85
68 69 5.243426 TGCTTTTTGCTAAGACTTCGTTT 57.757 34.783 0.00 0.00 43.37 3.60
69 70 5.646606 TGCTTTTTGCTAAGACTTCGTTTT 58.353 33.333 0.00 0.00 43.37 2.43
70 71 6.096695 TGCTTTTTGCTAAGACTTCGTTTTT 58.903 32.000 0.00 0.00 43.37 1.94
87 88 0.110238 TTTTTGCTGAGATCGCGTGC 60.110 50.000 5.77 7.17 0.00 5.34
88 89 0.950555 TTTTGCTGAGATCGCGTGCT 60.951 50.000 5.77 4.32 0.00 4.40
89 90 0.108851 TTTGCTGAGATCGCGTGCTA 60.109 50.000 5.77 5.40 0.00 3.49
90 91 0.802222 TTGCTGAGATCGCGTGCTAC 60.802 55.000 5.77 0.00 0.00 3.58
91 92 1.226688 GCTGAGATCGCGTGCTACA 60.227 57.895 5.77 4.80 0.00 2.74
92 93 0.596083 GCTGAGATCGCGTGCTACAT 60.596 55.000 5.77 0.00 0.00 2.29
93 94 1.403493 CTGAGATCGCGTGCTACATC 58.597 55.000 5.77 0.00 0.00 3.06
94 95 1.001924 CTGAGATCGCGTGCTACATCT 60.002 52.381 5.77 5.62 0.00 2.90
95 96 1.268743 TGAGATCGCGTGCTACATCTG 60.269 52.381 5.77 0.00 0.00 2.90
96 97 0.031314 AGATCGCGTGCTACATCTGG 59.969 55.000 5.77 0.00 0.00 3.86
97 98 1.552348 GATCGCGTGCTACATCTGGC 61.552 60.000 5.77 0.00 0.00 4.85
98 99 3.620428 CGCGTGCTACATCTGGCG 61.620 66.667 0.00 0.00 37.56 5.69
99 100 2.202743 GCGTGCTACATCTGGCGA 60.203 61.111 0.00 0.00 0.00 5.54
100 101 2.517450 GCGTGCTACATCTGGCGAC 61.517 63.158 0.00 0.00 0.00 5.19
101 102 1.153842 CGTGCTACATCTGGCGACA 60.154 57.895 0.00 0.00 39.59 4.35
102 103 0.735978 CGTGCTACATCTGGCGACAA 60.736 55.000 0.00 0.00 42.06 3.18
103 104 1.656652 GTGCTACATCTGGCGACAAT 58.343 50.000 0.00 0.00 42.06 2.71
104 105 1.594862 GTGCTACATCTGGCGACAATC 59.405 52.381 0.00 0.00 42.06 2.67
105 106 1.482182 TGCTACATCTGGCGACAATCT 59.518 47.619 0.00 0.00 42.06 2.40
106 107 2.131183 GCTACATCTGGCGACAATCTC 58.869 52.381 0.00 0.00 42.06 2.75
107 108 2.223923 GCTACATCTGGCGACAATCTCT 60.224 50.000 0.00 0.00 42.06 3.10
108 109 2.306341 ACATCTGGCGACAATCTCTG 57.694 50.000 0.00 0.00 42.06 3.35
109 110 1.134580 ACATCTGGCGACAATCTCTGG 60.135 52.381 0.00 0.00 42.06 3.86
110 111 0.179062 ATCTGGCGACAATCTCTGGC 60.179 55.000 0.00 0.00 42.06 4.85
115 116 4.844420 GACAATCTCTGGCGAGGG 57.156 61.111 0.00 0.00 37.86 4.30
116 117 1.144936 GACAATCTCTGGCGAGGGG 59.855 63.158 0.00 0.00 37.86 4.79
117 118 1.306141 ACAATCTCTGGCGAGGGGA 60.306 57.895 0.00 0.00 37.86 4.81
118 119 0.692419 ACAATCTCTGGCGAGGGGAT 60.692 55.000 0.00 0.00 37.86 3.85
119 120 0.471617 CAATCTCTGGCGAGGGGATT 59.528 55.000 0.00 4.17 37.86 3.01
120 121 1.694150 CAATCTCTGGCGAGGGGATTA 59.306 52.381 13.78 0.00 37.86 1.75
121 122 1.343069 ATCTCTGGCGAGGGGATTAC 58.657 55.000 0.00 0.00 37.86 1.89
122 123 1.107538 TCTCTGGCGAGGGGATTACG 61.108 60.000 0.00 0.00 37.86 3.18
123 124 1.076559 TCTGGCGAGGGGATTACGA 60.077 57.895 0.00 0.00 0.00 3.43
124 125 1.067582 CTGGCGAGGGGATTACGAC 59.932 63.158 0.00 0.00 35.49 4.34
125 126 2.027169 GGCGAGGGGATTACGACG 59.973 66.667 0.00 0.00 0.00 5.12
126 127 2.484062 GGCGAGGGGATTACGACGA 61.484 63.158 0.00 0.00 0.00 4.20
127 128 1.008767 GCGAGGGGATTACGACGAG 60.009 63.158 0.00 0.00 0.00 4.18
128 129 1.653115 CGAGGGGATTACGACGAGG 59.347 63.158 0.00 0.00 0.00 4.63
129 130 1.793134 CGAGGGGATTACGACGAGGG 61.793 65.000 0.00 0.00 0.00 4.30
130 131 0.754587 GAGGGGATTACGACGAGGGT 60.755 60.000 0.00 0.00 0.00 4.34
131 132 0.754587 AGGGGATTACGACGAGGGTC 60.755 60.000 0.00 0.00 39.89 4.46
132 133 1.039233 GGGGATTACGACGAGGGTCA 61.039 60.000 0.00 0.00 43.61 4.02
133 134 0.819582 GGGATTACGACGAGGGTCAA 59.180 55.000 0.00 0.00 43.61 3.18
134 135 1.470458 GGGATTACGACGAGGGTCAAC 60.470 57.143 0.00 0.00 43.61 3.18
135 136 1.542544 GATTACGACGAGGGTCAACG 58.457 55.000 0.00 0.00 43.61 4.10
136 137 0.883833 ATTACGACGAGGGTCAACGT 59.116 50.000 0.00 0.00 43.61 3.99
137 138 0.040157 TTACGACGAGGGTCAACGTG 60.040 55.000 0.00 0.00 43.61 4.49
138 139 0.884259 TACGACGAGGGTCAACGTGA 60.884 55.000 0.00 0.00 43.61 4.35
139 140 1.442184 CGACGAGGGTCAACGTGAG 60.442 63.158 0.00 0.00 43.61 3.51
140 141 1.733399 GACGAGGGTCAACGTGAGC 60.733 63.158 0.00 8.17 43.63 4.26
141 142 2.805353 CGAGGGTCAACGTGAGCG 60.805 66.667 0.00 0.00 45.17 5.03
142 143 3.112709 GAGGGTCAACGTGAGCGC 61.113 66.667 0.00 0.00 45.17 5.92
147 148 4.717629 TCAACGTGAGCGCGGGAG 62.718 66.667 8.83 0.00 42.83 4.30
176 177 2.945984 CGCGTGTGGTGCTTCAAT 59.054 55.556 0.00 0.00 0.00 2.57
177 178 1.154413 CGCGTGTGGTGCTTCAATC 60.154 57.895 0.00 0.00 0.00 2.67
178 179 1.568612 CGCGTGTGGTGCTTCAATCT 61.569 55.000 0.00 0.00 0.00 2.40
179 180 0.593128 GCGTGTGGTGCTTCAATCTT 59.407 50.000 0.00 0.00 0.00 2.40
180 181 1.804151 GCGTGTGGTGCTTCAATCTTA 59.196 47.619 0.00 0.00 0.00 2.10
181 182 2.159653 GCGTGTGGTGCTTCAATCTTAG 60.160 50.000 0.00 0.00 0.00 2.18
182 183 2.159653 CGTGTGGTGCTTCAATCTTAGC 60.160 50.000 0.00 0.00 37.89 3.09
183 184 2.076100 TGTGGTGCTTCAATCTTAGCG 58.924 47.619 0.00 0.00 40.26 4.26
184 185 2.289382 TGTGGTGCTTCAATCTTAGCGA 60.289 45.455 0.00 0.00 40.26 4.93
185 186 2.349886 GTGGTGCTTCAATCTTAGCGAG 59.650 50.000 0.00 0.00 40.26 5.03
186 187 1.936547 GGTGCTTCAATCTTAGCGAGG 59.063 52.381 0.00 0.00 40.26 4.63
187 188 1.936547 GTGCTTCAATCTTAGCGAGGG 59.063 52.381 0.00 0.00 40.26 4.30
188 189 1.134401 TGCTTCAATCTTAGCGAGGGG 60.134 52.381 0.00 0.00 40.26 4.79
189 190 1.139058 GCTTCAATCTTAGCGAGGGGA 59.861 52.381 0.00 0.00 0.00 4.81
190 191 2.224402 GCTTCAATCTTAGCGAGGGGAT 60.224 50.000 0.00 0.00 0.00 3.85
191 192 3.745797 GCTTCAATCTTAGCGAGGGGATT 60.746 47.826 0.00 0.00 0.00 3.01
192 193 4.503296 GCTTCAATCTTAGCGAGGGGATTA 60.503 45.833 0.00 0.00 0.00 1.75
193 194 4.602340 TCAATCTTAGCGAGGGGATTAC 57.398 45.455 0.00 0.00 0.00 1.89
194 195 3.005472 TCAATCTTAGCGAGGGGATTACG 59.995 47.826 0.00 0.00 0.00 3.18
195 196 2.353357 TCTTAGCGAGGGGATTACGA 57.647 50.000 0.00 0.00 0.00 3.43
196 197 1.952296 TCTTAGCGAGGGGATTACGAC 59.048 52.381 0.00 0.00 0.00 4.34
197 198 0.664761 TTAGCGAGGGGATTACGACG 59.335 55.000 0.00 0.00 0.00 5.12
198 199 0.179048 TAGCGAGGGGATTACGACGA 60.179 55.000 0.00 0.00 0.00 4.20
199 200 1.008767 GCGAGGGGATTACGACGAG 60.009 63.158 0.00 0.00 0.00 4.18
200 201 1.653115 CGAGGGGATTACGACGAGG 59.347 63.158 0.00 0.00 0.00 4.63
201 202 1.793134 CGAGGGGATTACGACGAGGG 61.793 65.000 0.00 0.00 0.00 4.30
202 203 0.754587 GAGGGGATTACGACGAGGGT 60.755 60.000 0.00 0.00 0.00 4.34
203 204 0.754587 AGGGGATTACGACGAGGGTC 60.755 60.000 0.00 0.00 39.89 4.46
228 229 4.567385 CTCGCCGCAGCCTCTCTC 62.567 72.222 0.00 0.00 34.57 3.20
230 231 4.567385 CGCCGCAGCCTCTCTCTC 62.567 72.222 0.00 0.00 34.57 3.20
231 232 3.146913 GCCGCAGCCTCTCTCTCT 61.147 66.667 0.00 0.00 0.00 3.10
232 233 3.119193 CCGCAGCCTCTCTCTCTC 58.881 66.667 0.00 0.00 0.00 3.20
233 234 1.453745 CCGCAGCCTCTCTCTCTCT 60.454 63.158 0.00 0.00 0.00 3.10
234 235 1.447317 CCGCAGCCTCTCTCTCTCTC 61.447 65.000 0.00 0.00 0.00 3.20
235 236 0.464373 CGCAGCCTCTCTCTCTCTCT 60.464 60.000 0.00 0.00 0.00 3.10
236 237 1.312815 GCAGCCTCTCTCTCTCTCTC 58.687 60.000 0.00 0.00 0.00 3.20
237 238 1.972872 CAGCCTCTCTCTCTCTCTCC 58.027 60.000 0.00 0.00 0.00 3.71
238 239 0.846693 AGCCTCTCTCTCTCTCTCCC 59.153 60.000 0.00 0.00 0.00 4.30
239 240 0.550914 GCCTCTCTCTCTCTCTCCCA 59.449 60.000 0.00 0.00 0.00 4.37
240 241 1.064017 GCCTCTCTCTCTCTCTCCCAA 60.064 57.143 0.00 0.00 0.00 4.12
241 242 2.654863 CCTCTCTCTCTCTCTCCCAAC 58.345 57.143 0.00 0.00 0.00 3.77
242 243 2.288666 CTCTCTCTCTCTCTCCCAACG 58.711 57.143 0.00 0.00 0.00 4.10
243 244 1.909986 TCTCTCTCTCTCTCCCAACGA 59.090 52.381 0.00 0.00 0.00 3.85
244 245 2.014128 CTCTCTCTCTCTCCCAACGAC 58.986 57.143 0.00 0.00 0.00 4.34
245 246 0.730265 CTCTCTCTCTCCCAACGACG 59.270 60.000 0.00 0.00 0.00 5.12
246 247 1.137825 CTCTCTCTCCCAACGACGC 59.862 63.158 0.00 0.00 0.00 5.19
247 248 2.202492 CTCTCTCCCAACGACGCG 60.202 66.667 3.53 3.53 0.00 6.01
248 249 3.685214 CTCTCTCCCAACGACGCGG 62.685 68.421 12.47 0.00 0.00 6.46
249 250 4.796231 CTCTCCCAACGACGCGGG 62.796 72.222 12.47 15.29 44.60 6.13
274 275 4.570874 GGGAGGGGGCGCTGAATC 62.571 72.222 7.64 0.62 0.00 2.52
275 276 4.918201 GGAGGGGGCGCTGAATCG 62.918 72.222 7.64 0.00 0.00 3.34
276 277 4.162690 GAGGGGGCGCTGAATCGT 62.163 66.667 7.64 0.00 0.00 3.73
277 278 4.473520 AGGGGGCGCTGAATCGTG 62.474 66.667 7.64 0.00 0.00 4.35
278 279 4.467084 GGGGGCGCTGAATCGTGA 62.467 66.667 7.64 0.00 0.00 4.35
279 280 2.892425 GGGGCGCTGAATCGTGAG 60.892 66.667 7.64 0.00 0.00 3.51
280 281 2.892425 GGGCGCTGAATCGTGAGG 60.892 66.667 7.64 0.00 0.00 3.86
281 282 3.567797 GGCGCTGAATCGTGAGGC 61.568 66.667 7.64 0.00 0.00 4.70
283 284 3.918220 CGCTGAATCGTGAGGCGC 61.918 66.667 0.00 0.00 39.42 6.53
284 285 3.918220 GCTGAATCGTGAGGCGCG 61.918 66.667 0.00 0.00 41.07 6.86
285 286 3.257561 CTGAATCGTGAGGCGCGG 61.258 66.667 8.83 0.00 41.07 6.46
286 287 4.812476 TGAATCGTGAGGCGCGGG 62.812 66.667 8.83 0.00 41.07 6.13
287 288 4.508128 GAATCGTGAGGCGCGGGA 62.508 66.667 8.83 0.00 41.07 5.14
288 289 3.792053 GAATCGTGAGGCGCGGGAT 62.792 63.158 8.83 0.00 41.07 3.85
289 290 4.592192 ATCGTGAGGCGCGGGATG 62.592 66.667 8.83 0.00 41.07 3.51
311 312 3.792047 CATCGTGTGGCTGCCGTG 61.792 66.667 14.98 3.55 0.00 4.94
326 327 3.370231 GTGCGACCGGCCCAAATT 61.370 61.111 0.00 0.00 42.61 1.82
327 328 2.598985 TGCGACCGGCCCAAATTT 60.599 55.556 0.00 0.00 42.61 1.82
328 329 2.126110 GCGACCGGCCCAAATTTG 60.126 61.111 11.40 11.40 34.80 2.32
337 338 2.047370 CCAAATTTGGGCCGGTGC 60.047 61.111 26.87 0.00 44.70 5.01
338 339 2.432285 CAAATTTGGGCCGGTGCG 60.432 61.111 10.49 0.00 38.85 5.34
354 355 3.036084 CGCCGGCGCCTATTAGTG 61.036 66.667 38.48 5.99 0.00 2.74
355 356 3.346606 GCCGGCGCCTATTAGTGC 61.347 66.667 26.68 11.27 42.62 4.40
428 429 3.692101 TGTTTCAAACTCTCCTGCGAAAA 59.308 39.130 1.10 0.00 0.00 2.29
719 720 5.178096 TGGTGAAAGCAGATCCTGAATAA 57.822 39.130 0.00 0.00 40.88 1.40
779 781 1.101331 TGCTTGTGTGCATGTGTGAA 58.899 45.000 0.00 0.00 38.12 3.18
818 820 9.502091 ACATCGCATAGTATGGTTAAATGTATT 57.498 29.630 12.07 0.00 0.00 1.89
1828 1906 6.920758 AGCTGCGTTGAAAAATAAAATGTACA 59.079 30.769 0.00 0.00 0.00 2.90
1876 1955 8.984891 TGATGTCATTGTTTGCTAATTTTAGG 57.015 30.769 0.00 0.00 0.00 2.69
1884 1963 8.984891 TTGTTTGCTAATTTTAGGTCATCATG 57.015 30.769 0.00 0.00 0.00 3.07
2214 2741 9.868277 ACATCTTCTTATCTCTTTGTACTTCTG 57.132 33.333 0.00 0.00 0.00 3.02
2231 2758 6.734104 ACTTCTGTGAATCTCATGTTTAGC 57.266 37.500 0.00 0.00 0.00 3.09
2302 3162 6.761731 TTCAAGAAATGGCAAAATGTTACG 57.238 33.333 0.00 0.00 0.00 3.18
2308 3168 5.652994 AATGGCAAAATGTTACGGTACAT 57.347 34.783 0.00 0.00 40.37 2.29
2316 3176 7.586300 GCAAAATGTTACGGTACATATCATCAC 59.414 37.037 5.28 0.00 37.76 3.06
2319 3179 9.692749 AAATGTTACGGTACATATCATCACTAG 57.307 33.333 5.28 0.00 37.76 2.57
2320 3180 7.210718 TGTTACGGTACATATCATCACTAGG 57.789 40.000 0.00 0.00 0.00 3.02
2322 3182 7.938490 TGTTACGGTACATATCATCACTAGGTA 59.062 37.037 0.00 0.00 0.00 3.08
2422 3286 9.745880 CTACTAATATTCTTACACATGGAACGT 57.254 33.333 0.00 0.00 0.00 3.99
2435 3299 4.881850 ACATGGAACGTGAGAAAAGAAAGT 59.118 37.500 0.00 0.00 0.00 2.66
2631 3495 1.750193 GTGAAATGCTCGATCCCCAA 58.250 50.000 0.00 0.00 0.00 4.12
3215 4082 1.409064 CGAGGGAGATGTTTGATCCGA 59.591 52.381 0.00 0.00 33.68 4.55
3307 5803 1.244816 AGGACGATGTGAACGACAGA 58.755 50.000 0.00 0.00 38.23 3.41
3409 5905 7.711846 AGATATGCACTTAGTTACTGTCAGAG 58.288 38.462 6.91 0.00 0.00 3.35
3487 5985 2.620251 AATTAGCCAGTATGCTCGCA 57.380 45.000 2.96 0.00 41.68 5.10
3496 5994 1.067565 AGTATGCTCGCATGTATCCCG 60.068 52.381 14.27 0.00 37.82 5.14
3653 6846 9.023967 CCAAAGTCTTGTCTTATGAAAGTTTTG 57.976 33.333 0.00 0.00 34.13 2.44
3697 6890 7.124448 TGGTCAAGTACATGGGTTTTAAAAACT 59.876 33.333 15.33 4.86 0.00 2.66
3789 6982 1.663695 AGAACCACACACAAACTCCG 58.336 50.000 0.00 0.00 0.00 4.63
3808 7001 6.661777 ACTCCGTTAGAGACTAGGAAAGTAT 58.338 40.000 0.00 0.00 46.50 2.12
3844 7037 2.042162 AGAACTCCTACACGGGTTCCTA 59.958 50.000 0.00 0.00 40.73 2.94
3930 7123 6.479972 ACAGGATCATATAGAAACACCGAA 57.520 37.500 0.00 0.00 0.00 4.30
3955 7160 5.996644 TCTCTCCGCTCCCAAATATAAAAA 58.003 37.500 0.00 0.00 0.00 1.94
4124 7342 1.509923 GCACTCTGCAGCCAAATCC 59.490 57.895 9.47 0.00 44.26 3.01
4131 7349 0.961019 TGCAGCCAAATCCAACTCAC 59.039 50.000 0.00 0.00 0.00 3.51
4133 7351 1.238439 CAGCCAAATCCAACTCACGT 58.762 50.000 0.00 0.00 0.00 4.49
4134 7352 1.197721 CAGCCAAATCCAACTCACGTC 59.802 52.381 0.00 0.00 0.00 4.34
4141 7359 0.250597 TCCAACTCACGTCGAGAGGA 60.251 55.000 21.28 18.61 45.45 3.71
4146 7364 1.001597 ACTCACGTCGAGAGGACAAAC 60.002 52.381 21.28 0.00 46.42 2.93
4147 7365 0.313043 TCACGTCGAGAGGACAAACC 59.687 55.000 0.00 0.00 46.42 3.27
4148 7366 0.031585 CACGTCGAGAGGACAAACCA 59.968 55.000 0.00 0.00 46.42 3.67
4149 7367 0.966920 ACGTCGAGAGGACAAACCAT 59.033 50.000 0.00 0.00 46.42 3.55
4153 7371 0.389817 CGAGAGGACAAACCATGCGA 60.390 55.000 0.00 0.00 42.04 5.10
4302 7893 7.933223 TCTTCCCTTCTTCCTCTTTTATCATT 58.067 34.615 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 3.950254 ATAGTCGCCGCCGTCGAG 61.950 66.667 0.00 0.00 36.56 4.04
7 8 4.246206 CATAGTCGCCGCCGTCGA 62.246 66.667 0.00 0.00 38.10 4.20
8 9 4.547905 ACATAGTCGCCGCCGTCG 62.548 66.667 0.00 0.00 35.54 5.12
9 10 1.356527 AAAACATAGTCGCCGCCGTC 61.357 55.000 0.00 0.00 35.54 4.79
10 11 0.952010 AAAAACATAGTCGCCGCCGT 60.952 50.000 0.00 0.00 35.54 5.68
11 12 1.791662 AAAAACATAGTCGCCGCCG 59.208 52.632 0.00 0.00 0.00 6.46
27 28 2.200067 CAGCGATGGTTGCAACAAAAA 58.800 42.857 29.55 13.12 33.85 1.94
28 29 1.850377 CAGCGATGGTTGCAACAAAA 58.150 45.000 29.55 15.58 33.85 2.44
29 30 3.566273 CAGCGATGGTTGCAACAAA 57.434 47.368 29.55 18.08 33.85 2.83
36 37 0.785979 GCAAAAAGCAGCGATGGTTG 59.214 50.000 19.77 8.80 44.79 3.77
37 38 3.199764 GCAAAAAGCAGCGATGGTT 57.800 47.368 13.04 13.04 44.79 3.67
38 39 4.972591 GCAAAAAGCAGCGATGGT 57.027 50.000 0.00 0.00 44.79 3.55
43 44 6.591441 ACGAAGTCTTAGCAAAAAGCAGCG 62.591 45.833 0.00 0.00 42.56 5.18
44 45 3.304057 ACGAAGTCTTAGCAAAAAGCAGC 60.304 43.478 0.00 0.00 42.56 5.25
45 46 4.474226 ACGAAGTCTTAGCAAAAAGCAG 57.526 40.909 0.00 0.00 42.56 4.24
46 47 4.893424 AACGAAGTCTTAGCAAAAAGCA 57.107 36.364 0.00 0.00 45.00 3.91
47 48 6.569228 AAAAACGAAGTCTTAGCAAAAAGC 57.431 33.333 0.00 0.00 45.00 3.51
68 69 0.110238 GCACGCGATCTCAGCAAAAA 60.110 50.000 15.93 0.00 34.19 1.94
69 70 0.950555 AGCACGCGATCTCAGCAAAA 60.951 50.000 15.93 0.00 34.19 2.44
70 71 0.108851 TAGCACGCGATCTCAGCAAA 60.109 50.000 15.93 0.00 34.19 3.68
71 72 0.802222 GTAGCACGCGATCTCAGCAA 60.802 55.000 15.93 0.00 34.19 3.91
72 73 1.226688 GTAGCACGCGATCTCAGCA 60.227 57.895 15.93 0.00 34.19 4.41
73 74 0.596083 ATGTAGCACGCGATCTCAGC 60.596 55.000 15.93 6.71 0.00 4.26
74 75 1.001924 AGATGTAGCACGCGATCTCAG 60.002 52.381 15.93 0.00 0.00 3.35
75 76 1.025041 AGATGTAGCACGCGATCTCA 58.975 50.000 15.93 9.57 0.00 3.27
76 77 1.403493 CAGATGTAGCACGCGATCTC 58.597 55.000 15.93 4.26 0.00 2.75
77 78 0.031314 CCAGATGTAGCACGCGATCT 59.969 55.000 15.93 11.82 0.00 2.75
78 79 1.552348 GCCAGATGTAGCACGCGATC 61.552 60.000 15.93 3.70 0.00 3.69
79 80 1.592669 GCCAGATGTAGCACGCGAT 60.593 57.895 15.93 0.00 0.00 4.58
80 81 2.202743 GCCAGATGTAGCACGCGA 60.203 61.111 15.93 0.00 0.00 5.87
81 82 3.620428 CGCCAGATGTAGCACGCG 61.620 66.667 3.53 3.53 0.00 6.01
82 83 2.202743 TCGCCAGATGTAGCACGC 60.203 61.111 0.00 0.00 0.00 5.34
83 84 0.735978 TTGTCGCCAGATGTAGCACG 60.736 55.000 0.00 0.00 0.00 5.34
84 85 1.594862 GATTGTCGCCAGATGTAGCAC 59.405 52.381 0.00 0.00 0.00 4.40
85 86 1.482182 AGATTGTCGCCAGATGTAGCA 59.518 47.619 0.00 0.00 0.00 3.49
86 87 2.131183 GAGATTGTCGCCAGATGTAGC 58.869 52.381 0.00 0.00 0.00 3.58
87 88 3.379240 CAGAGATTGTCGCCAGATGTAG 58.621 50.000 0.00 0.00 0.00 2.74
88 89 2.101415 CCAGAGATTGTCGCCAGATGTA 59.899 50.000 0.00 0.00 0.00 2.29
89 90 1.134580 CCAGAGATTGTCGCCAGATGT 60.135 52.381 0.00 0.00 0.00 3.06
90 91 1.579698 CCAGAGATTGTCGCCAGATG 58.420 55.000 0.00 0.00 0.00 2.90
91 92 0.179062 GCCAGAGATTGTCGCCAGAT 60.179 55.000 0.00 0.00 0.00 2.90
92 93 1.219124 GCCAGAGATTGTCGCCAGA 59.781 57.895 0.00 0.00 0.00 3.86
93 94 2.169789 CGCCAGAGATTGTCGCCAG 61.170 63.158 0.00 0.00 0.00 4.85
94 95 2.125552 CGCCAGAGATTGTCGCCA 60.126 61.111 0.00 0.00 0.00 5.69
95 96 2.184322 TCGCCAGAGATTGTCGCC 59.816 61.111 0.00 0.00 0.00 5.54
104 105 1.107538 TCGTAATCCCCTCGCCAGAG 61.108 60.000 0.00 0.00 43.98 3.35
105 106 1.076559 TCGTAATCCCCTCGCCAGA 60.077 57.895 0.00 0.00 0.00 3.86
106 107 1.067582 GTCGTAATCCCCTCGCCAG 59.932 63.158 0.00 0.00 0.00 4.85
107 108 2.777972 CGTCGTAATCCCCTCGCCA 61.778 63.158 0.00 0.00 0.00 5.69
108 109 2.027169 CGTCGTAATCCCCTCGCC 59.973 66.667 0.00 0.00 0.00 5.54
109 110 1.008767 CTCGTCGTAATCCCCTCGC 60.009 63.158 0.00 0.00 0.00 5.03
110 111 1.653115 CCTCGTCGTAATCCCCTCG 59.347 63.158 0.00 0.00 0.00 4.63
111 112 0.754587 ACCCTCGTCGTAATCCCCTC 60.755 60.000 0.00 0.00 0.00 4.30
112 113 0.754587 GACCCTCGTCGTAATCCCCT 60.755 60.000 0.00 0.00 0.00 4.79
113 114 1.039233 TGACCCTCGTCGTAATCCCC 61.039 60.000 0.00 0.00 42.37 4.81
114 115 0.819582 TTGACCCTCGTCGTAATCCC 59.180 55.000 0.00 0.00 42.37 3.85
115 116 1.796617 CGTTGACCCTCGTCGTAATCC 60.797 57.143 0.00 0.00 42.37 3.01
116 117 1.135575 ACGTTGACCCTCGTCGTAATC 60.136 52.381 0.00 0.00 42.37 1.75
117 118 0.883833 ACGTTGACCCTCGTCGTAAT 59.116 50.000 0.00 0.00 42.37 1.89
118 119 0.040157 CACGTTGACCCTCGTCGTAA 60.040 55.000 0.00 0.00 42.37 3.18
119 120 0.884259 TCACGTTGACCCTCGTCGTA 60.884 55.000 0.00 0.00 42.37 3.43
120 121 2.126417 CTCACGTTGACCCTCGTCGT 62.126 60.000 0.00 0.00 42.37 4.34
121 122 1.442184 CTCACGTTGACCCTCGTCG 60.442 63.158 0.00 0.00 42.37 5.12
122 123 1.733399 GCTCACGTTGACCCTCGTC 60.733 63.158 0.00 0.00 38.23 4.20
123 124 2.338984 GCTCACGTTGACCCTCGT 59.661 61.111 0.00 0.00 40.99 4.18
124 125 2.805353 CGCTCACGTTGACCCTCG 60.805 66.667 0.00 0.00 33.53 4.63
125 126 3.112709 GCGCTCACGTTGACCCTC 61.113 66.667 0.00 0.00 42.83 4.30
130 131 4.717629 CTCCCGCGCTCACGTTGA 62.718 66.667 5.56 0.00 42.83 3.18
155 156 3.862063 GAAGCACCACACGCGCTTG 62.862 63.158 12.94 12.94 45.63 4.01
157 158 4.908687 TGAAGCACCACACGCGCT 62.909 61.111 5.73 0.00 37.68 5.92
158 159 3.254014 ATTGAAGCACCACACGCGC 62.254 57.895 5.73 0.00 0.00 6.86
159 160 1.154413 GATTGAAGCACCACACGCG 60.154 57.895 3.53 3.53 0.00 6.01
160 161 0.593128 AAGATTGAAGCACCACACGC 59.407 50.000 0.00 0.00 0.00 5.34
161 162 2.159653 GCTAAGATTGAAGCACCACACG 60.160 50.000 0.00 0.00 38.63 4.49
162 163 2.159653 CGCTAAGATTGAAGCACCACAC 60.160 50.000 0.00 0.00 38.70 3.82
163 164 2.076100 CGCTAAGATTGAAGCACCACA 58.924 47.619 0.00 0.00 38.70 4.17
164 165 2.346803 TCGCTAAGATTGAAGCACCAC 58.653 47.619 0.00 0.00 38.70 4.16
165 166 2.621338 CTCGCTAAGATTGAAGCACCA 58.379 47.619 0.00 0.00 38.70 4.17
166 167 1.936547 CCTCGCTAAGATTGAAGCACC 59.063 52.381 0.00 0.00 38.70 5.01
167 168 1.936547 CCCTCGCTAAGATTGAAGCAC 59.063 52.381 0.00 0.00 38.70 4.40
168 169 1.134401 CCCCTCGCTAAGATTGAAGCA 60.134 52.381 0.00 0.00 38.70 3.91
169 170 1.139058 TCCCCTCGCTAAGATTGAAGC 59.861 52.381 0.00 0.00 35.33 3.86
170 171 3.760580 ATCCCCTCGCTAAGATTGAAG 57.239 47.619 0.00 0.00 0.00 3.02
171 172 4.500887 CGTAATCCCCTCGCTAAGATTGAA 60.501 45.833 0.00 0.00 31.63 2.69
172 173 3.005472 CGTAATCCCCTCGCTAAGATTGA 59.995 47.826 0.00 0.00 31.63 2.57
173 174 3.005472 TCGTAATCCCCTCGCTAAGATTG 59.995 47.826 0.00 0.00 31.63 2.67
174 175 3.005578 GTCGTAATCCCCTCGCTAAGATT 59.994 47.826 0.00 0.00 33.66 2.40
175 176 2.557490 GTCGTAATCCCCTCGCTAAGAT 59.443 50.000 0.00 0.00 0.00 2.40
176 177 1.952296 GTCGTAATCCCCTCGCTAAGA 59.048 52.381 0.00 0.00 0.00 2.10
177 178 1.334779 CGTCGTAATCCCCTCGCTAAG 60.335 57.143 0.00 0.00 0.00 2.18
178 179 0.664761 CGTCGTAATCCCCTCGCTAA 59.335 55.000 0.00 0.00 0.00 3.09
179 180 0.179048 TCGTCGTAATCCCCTCGCTA 60.179 55.000 0.00 0.00 0.00 4.26
180 181 1.445716 CTCGTCGTAATCCCCTCGCT 61.446 60.000 0.00 0.00 0.00 4.93
181 182 1.008767 CTCGTCGTAATCCCCTCGC 60.009 63.158 0.00 0.00 0.00 5.03
182 183 1.653115 CCTCGTCGTAATCCCCTCG 59.347 63.158 0.00 0.00 0.00 4.63
183 184 0.754587 ACCCTCGTCGTAATCCCCTC 60.755 60.000 0.00 0.00 0.00 4.30
184 185 0.754587 GACCCTCGTCGTAATCCCCT 60.755 60.000 0.00 0.00 0.00 4.79
185 186 1.738432 GACCCTCGTCGTAATCCCC 59.262 63.158 0.00 0.00 0.00 4.81
211 212 4.567385 GAGAGAGGCTGCGGCGAG 62.567 72.222 12.98 6.53 39.81 5.03
213 214 4.567385 GAGAGAGAGGCTGCGGCG 62.567 72.222 12.29 0.51 39.81 6.46
214 215 3.137637 GAGAGAGAGAGGCTGCGGC 62.138 68.421 9.72 9.72 37.82 6.53
215 216 1.447317 GAGAGAGAGAGAGGCTGCGG 61.447 65.000 0.00 0.00 0.00 5.69
216 217 0.464373 AGAGAGAGAGAGAGGCTGCG 60.464 60.000 0.00 0.00 0.00 5.18
217 218 1.312815 GAGAGAGAGAGAGAGGCTGC 58.687 60.000 0.00 0.00 0.00 5.25
218 219 1.477558 GGGAGAGAGAGAGAGAGGCTG 60.478 61.905 0.00 0.00 0.00 4.85
219 220 0.846693 GGGAGAGAGAGAGAGAGGCT 59.153 60.000 0.00 0.00 0.00 4.58
220 221 0.550914 TGGGAGAGAGAGAGAGAGGC 59.449 60.000 0.00 0.00 0.00 4.70
221 222 2.654863 GTTGGGAGAGAGAGAGAGAGG 58.345 57.143 0.00 0.00 0.00 3.69
222 223 2.093181 TCGTTGGGAGAGAGAGAGAGAG 60.093 54.545 0.00 0.00 0.00 3.20
223 224 1.909986 TCGTTGGGAGAGAGAGAGAGA 59.090 52.381 0.00 0.00 0.00 3.10
224 225 2.014128 GTCGTTGGGAGAGAGAGAGAG 58.986 57.143 0.00 0.00 0.00 3.20
225 226 1.676314 CGTCGTTGGGAGAGAGAGAGA 60.676 57.143 0.00 0.00 0.00 3.10
226 227 0.730265 CGTCGTTGGGAGAGAGAGAG 59.270 60.000 0.00 0.00 0.00 3.20
227 228 1.306642 GCGTCGTTGGGAGAGAGAGA 61.307 60.000 0.00 0.00 0.00 3.10
228 229 1.137825 GCGTCGTTGGGAGAGAGAG 59.862 63.158 0.00 0.00 0.00 3.20
229 230 2.687805 CGCGTCGTTGGGAGAGAGA 61.688 63.158 0.00 0.00 0.00 3.10
230 231 2.202492 CGCGTCGTTGGGAGAGAG 60.202 66.667 0.00 0.00 0.00 3.20
231 232 3.744719 CCGCGTCGTTGGGAGAGA 61.745 66.667 4.92 0.00 0.00 3.10
257 258 4.570874 GATTCAGCGCCCCCTCCC 62.571 72.222 2.29 0.00 0.00 4.30
258 259 4.918201 CGATTCAGCGCCCCCTCC 62.918 72.222 2.29 0.00 0.00 4.30
259 260 4.162690 ACGATTCAGCGCCCCCTC 62.163 66.667 2.29 0.00 33.86 4.30
260 261 4.473520 CACGATTCAGCGCCCCCT 62.474 66.667 2.29 0.00 33.86 4.79
261 262 4.467084 TCACGATTCAGCGCCCCC 62.467 66.667 2.29 0.00 33.86 5.40
262 263 2.892425 CTCACGATTCAGCGCCCC 60.892 66.667 2.29 0.00 33.86 5.80
263 264 2.892425 CCTCACGATTCAGCGCCC 60.892 66.667 2.29 0.00 33.86 6.13
264 265 3.567797 GCCTCACGATTCAGCGCC 61.568 66.667 2.29 0.00 33.86 6.53
294 295 3.792047 CACGGCAGCCACACGATG 61.792 66.667 13.30 0.00 0.00 3.84
309 310 2.926420 AAATTTGGGCCGGTCGCAC 61.926 57.895 13.63 0.00 43.39 5.34
310 311 2.598985 AAATTTGGGCCGGTCGCA 60.599 55.556 1.90 7.47 40.31 5.10
311 312 2.126110 CAAATTTGGGCCGGTCGC 60.126 61.111 10.49 4.53 0.00 5.19
312 313 2.571231 CCAAATTTGGGCCGGTCG 59.429 61.111 26.87 1.10 44.70 4.79
321 322 2.432285 CGCACCGGCCCAAATTTG 60.432 61.111 11.40 11.40 36.38 2.32
322 323 4.371590 GCGCACCGGCCCAAATTT 62.372 61.111 0.30 0.00 36.38 1.82
337 338 3.036084 CACTAATAGGCGCCGGCG 61.036 66.667 43.13 43.13 41.24 6.46
338 339 3.346606 GCACTAATAGGCGCCGGC 61.347 66.667 23.20 19.07 38.90 6.13
339 340 2.665185 GGCACTAATAGGCGCCGG 60.665 66.667 23.20 12.44 34.26 6.13
340 341 2.665185 GGGCACTAATAGGCGCCG 60.665 66.667 23.20 9.03 45.85 6.46
341 342 0.537371 ATTGGGCACTAATAGGCGCC 60.537 55.000 21.89 21.89 37.89 6.53
342 343 2.178912 TATTGGGCACTAATAGGCGC 57.821 50.000 0.00 0.00 40.79 6.53
347 348 8.129496 TCACGATTATCTATTGGGCACTAATA 57.871 34.615 0.00 0.00 40.79 0.98
348 349 7.004555 TCACGATTATCTATTGGGCACTAAT 57.995 36.000 0.00 0.00 43.47 1.73
349 350 6.266786 TCTCACGATTATCTATTGGGCACTAA 59.733 38.462 0.00 0.00 0.00 2.24
350 351 5.773176 TCTCACGATTATCTATTGGGCACTA 59.227 40.000 0.00 0.00 0.00 2.74
351 352 4.588951 TCTCACGATTATCTATTGGGCACT 59.411 41.667 0.00 0.00 0.00 4.40
352 353 4.883083 TCTCACGATTATCTATTGGGCAC 58.117 43.478 0.00 0.00 0.00 5.01
353 354 5.545063 TTCTCACGATTATCTATTGGGCA 57.455 39.130 0.00 0.00 0.00 5.36
354 355 7.766278 ACATATTCTCACGATTATCTATTGGGC 59.234 37.037 0.00 0.00 0.00 5.36
355 356 9.658799 AACATATTCTCACGATTATCTATTGGG 57.341 33.333 0.00 0.00 0.00 4.12
428 429 9.981114 GGGCTTGCATAAATATTTTACATACTT 57.019 29.630 5.91 0.00 0.00 2.24
719 720 9.921637 CTCTTCTATCTCTTTAACTGACAAACT 57.078 33.333 0.00 0.00 0.00 2.66
740 742 5.659463 AGCATGACATCACTAAGACTCTTC 58.341 41.667 0.00 0.00 0.00 2.87
779 781 1.153369 CGATGTCACCCATCCGCTT 60.153 57.895 0.00 0.00 46.10 4.68
818 820 3.628008 TGGGTGAGACTAGAAAGCGATA 58.372 45.455 0.00 0.00 0.00 2.92
867 869 3.054878 GACTAACAACACGACAATCCGT 58.945 45.455 0.00 0.00 44.43 4.69
977 980 7.393234 TCATATTCCCAGTTAGGTCACTTTTTG 59.607 37.037 0.00 0.00 34.66 2.44
1465 1491 4.869861 ACAAAAACAATGACAAAGCTCACC 59.130 37.500 0.00 0.00 0.00 4.02
1850 1928 9.590451 CCTAAAATTAGCAAACAATGACATCAT 57.410 29.630 0.00 0.00 38.41 2.45
1872 1950 8.922931 ACAAATATGTATGCATGATGACCTAA 57.077 30.769 10.16 0.00 38.24 2.69
1876 1955 6.891624 ACGACAAATATGTATGCATGATGAC 58.108 36.000 10.16 0.00 40.74 3.06
1884 1963 4.730042 CACAGCAACGACAAATATGTATGC 59.270 41.667 0.00 6.01 40.74 3.14
2014 2095 5.006386 CCAAACTCCACTGAGCTCTTTAAT 58.994 41.667 16.19 0.00 42.74 1.40
2100 2614 9.699410 ATTGAAATTCAGTGGAATAGGAATACA 57.301 29.630 0.00 0.00 42.87 2.29
2136 2650 7.544804 TGAGCCATAGACATCAATGTACTAT 57.455 36.000 0.00 3.27 41.95 2.12
2155 2669 2.158959 CACGACCGTCGATTGAGCC 61.159 63.158 27.03 0.00 43.74 4.70
2213 2740 3.620488 GGGGCTAAACATGAGATTCACA 58.380 45.455 0.00 0.00 0.00 3.58
2214 2741 2.952310 GGGGGCTAAACATGAGATTCAC 59.048 50.000 0.00 0.00 0.00 3.18
2231 2758 3.697045 TCATATTTAACAACAAGCGGGGG 59.303 43.478 0.00 0.00 0.00 5.40
2422 3286 4.461198 GGTCCCTCAACTTTCTTTTCTCA 58.539 43.478 0.00 0.00 0.00 3.27
2435 3299 2.907696 TCTTATTGAACCGGTCCCTCAA 59.092 45.455 19.65 19.65 33.82 3.02
2585 3449 3.619767 TGCACTGTCTCCAGCGCT 61.620 61.111 2.64 2.64 45.08 5.92
3307 5803 0.401738 CCACTTCACTCATGGTGGGT 59.598 55.000 12.53 9.71 45.38 4.51
3475 5973 2.341257 GGGATACATGCGAGCATACTG 58.659 52.381 10.48 2.98 34.91 2.74
3487 5985 5.812286 ACAAAGTTTAACTCCGGGATACAT 58.188 37.500 0.00 0.00 39.74 2.29
3496 5994 7.008440 AGTACACGAAACAAAGTTTAACTCC 57.992 36.000 0.00 0.00 0.00 3.85
3608 6801 9.167311 GACTTTGGAATGTCAGTGATATAACTT 57.833 33.333 2.45 0.00 34.34 2.66
3609 6802 8.543774 AGACTTTGGAATGTCAGTGATATAACT 58.456 33.333 2.45 0.00 36.02 2.24
3653 6846 4.933400 TGACCAGCTTAATTAAGACCGTTC 59.067 41.667 26.00 15.11 35.33 3.95
3697 6890 5.642686 ACGAATTTGAACCAAAACTTCGAA 58.357 33.333 23.29 0.00 42.90 3.71
3711 6904 1.885887 CTGCAAGGGGAACGAATTTGA 59.114 47.619 0.00 0.00 0.00 2.69
3808 7001 2.627699 GAGTTCTGTTGGGGCAATTTCA 59.372 45.455 0.00 0.00 0.00 2.69
3844 7037 0.608640 GGACGGTCAGAACACAGGAT 59.391 55.000 10.76 0.00 0.00 3.24
3875 7068 2.551006 GGTTGATGGCGTGTGTGCA 61.551 57.895 0.00 0.00 36.28 4.57
3930 7123 2.160721 TATTTGGGAGCGGAGAGAGT 57.839 50.000 0.00 0.00 0.00 3.24
4028 7234 2.513897 GGGGTGGTGCTACGCATC 60.514 66.667 5.28 0.00 41.91 3.91
4131 7349 1.350193 CATGGTTTGTCCTCTCGACG 58.650 55.000 0.00 0.00 45.23 5.12
4133 7351 0.389817 CGCATGGTTTGTCCTCTCGA 60.390 55.000 0.00 0.00 37.07 4.04
4134 7352 0.389817 TCGCATGGTTTGTCCTCTCG 60.390 55.000 0.00 0.00 37.07 4.04
4141 7359 1.148310 CTCGTTCTCGCATGGTTTGT 58.852 50.000 0.00 0.00 36.96 2.83
4146 7364 2.159653 CCTTTTTCTCGTTCTCGCATGG 60.160 50.000 0.00 0.00 36.96 3.66
4147 7365 2.159653 CCCTTTTTCTCGTTCTCGCATG 60.160 50.000 0.00 0.00 36.96 4.06
4148 7366 2.076863 CCCTTTTTCTCGTTCTCGCAT 58.923 47.619 0.00 0.00 36.96 4.73
4149 7367 1.508632 CCCTTTTTCTCGTTCTCGCA 58.491 50.000 0.00 0.00 36.96 5.10
4153 7371 1.566018 CGCGCCCTTTTTCTCGTTCT 61.566 55.000 0.00 0.00 0.00 3.01
4302 7893 1.067821 GACCGGGTTCAAAACAATGCA 59.932 47.619 6.32 0.00 0.00 3.96


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

AutoCloner maintained by Alex Coulton.