Multiple sequence alignment - TraesCS4A01G031900

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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 TraesCS4A01G031900 chr4A 100.000 3881 0 0 1 3881 24808220 24812100 0.000000e+00 7167
1 TraesCS4A01G031900 chr4A 89.066 439 44 2 3443 3881 656482298 656482732 3.410000e-150 542
2 TraesCS4A01G031900 chr4B 93.658 3390 143 40 176 3524 551790151 551786793 0.000000e+00 5003
3 TraesCS4A01G031900 chr4B 94.188 2839 116 25 715 3524 551735003 551732185 0.000000e+00 4283
4 TraesCS4A01G031900 chr4B 84.361 876 95 15 437 1285 551697854 551696994 0.000000e+00 821
5 TraesCS4A01G031900 chr4B 86.478 673 74 9 2248 2906 551695758 551695089 0.000000e+00 723
6 TraesCS4A01G031900 chr4B 86.478 673 74 8 2248 2906 551749337 551748668 0.000000e+00 723
7 TraesCS4A01G031900 chr4B 81.460 863 121 20 2222 3062 551262716 551261871 0.000000e+00 671
8 TraesCS4A01G031900 chr4B 74.788 1531 296 69 1551 3027 551079892 551078398 1.190000e-169 606
9 TraesCS4A01G031900 chr4B 83.492 630 63 15 681 1285 551751187 551750574 2.040000e-152 549
10 TraesCS4A01G031900 chr4B 94.855 311 16 0 3571 3881 551786795 551786485 1.620000e-133 486
11 TraesCS4A01G031900 chr4B 94.212 311 18 0 3571 3881 551732187 551731877 3.510000e-130 475
12 TraesCS4A01G031900 chr4D 95.490 1397 45 16 1351 2735 442889158 442887768 0.000000e+00 2215
13 TraesCS4A01G031900 chr4D 92.593 1215 56 18 178 1364 442891827 442890619 0.000000e+00 1714
14 TraesCS4A01G031900 chr4D 93.045 1179 51 14 2727 3881 442881569 442882740 0.000000e+00 1694
15 TraesCS4A01G031900 chr4D 92.887 942 37 15 2964 3881 442879627 442878692 0.000000e+00 1341
16 TraesCS4A01G031900 chr4D 83.013 1248 149 26 1732 2937 442761675 442760449 0.000000e+00 1072
17 TraesCS4A01G031900 chr4D 74.888 1561 300 68 1532 3039 442742808 442741287 9.150000e-176 627
18 TraesCS4A01G031900 chr5A 89.749 439 41 1 3443 3881 689900828 689900394 3.390000e-155 558
19 TraesCS4A01G031900 chr7B 88.155 439 48 1 3443 3881 141013012 141013446 1.600000e-143 520
20 TraesCS4A01G031900 chr2B 87.244 439 51 3 3443 3881 154530770 154531203 2.690000e-136 496
21 TraesCS4A01G031900 chr2B 93.785 177 10 1 1 176 731216807 731216631 8.270000e-67 265
22 TraesCS4A01G031900 chr7D 84.018 438 64 3 3443 3879 531068951 531068519 2.160000e-112 416
23 TraesCS4A01G031900 chr2D 92.935 184 12 1 1 184 70391772 70391954 2.300000e-67 267
24 TraesCS4A01G031900 chr6D 93.714 175 11 0 1 175 464213872 464213698 2.970000e-66 263
25 TraesCS4A01G031900 chr1A 91.579 190 14 2 1 188 579858344 579858155 1.070000e-65 261
26 TraesCS4A01G031900 chr3A 93.182 176 12 0 1 176 507124942 507124767 3.850000e-65 259
27 TraesCS4A01G031900 chr3A 92.350 183 12 1 1 181 660860957 660860775 3.850000e-65 259
28 TraesCS4A01G031900 chr3A 93.182 176 12 0 1 176 749288944 749289119 3.850000e-65 259
29 TraesCS4A01G031900 chr3A 89.744 195 18 2 1 194 16604346 16604153 8.330000e-62 248
30 TraesCS4A01G031900 chr3D 91.803 183 14 1 1 183 15154530 15154349 1.790000e-63 254


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 TraesCS4A01G031900 chr4A 24808220 24812100 3880 False 7167.0 7167 100.0000 1 3881 1 chr4A.!!$F1 3880
1 TraesCS4A01G031900 chr4B 551786485 551790151 3666 True 2744.5 5003 94.2565 176 3881 2 chr4B.!!$R6 3705
2 TraesCS4A01G031900 chr4B 551731877 551735003 3126 True 2379.0 4283 94.2000 715 3881 2 chr4B.!!$R4 3166
3 TraesCS4A01G031900 chr4B 551695089 551697854 2765 True 772.0 821 85.4195 437 2906 2 chr4B.!!$R3 2469
4 TraesCS4A01G031900 chr4B 551261871 551262716 845 True 671.0 671 81.4600 2222 3062 1 chr4B.!!$R2 840
5 TraesCS4A01G031900 chr4B 551748668 551751187 2519 True 636.0 723 84.9850 681 2906 2 chr4B.!!$R5 2225
6 TraesCS4A01G031900 chr4B 551078398 551079892 1494 True 606.0 606 74.7880 1551 3027 1 chr4B.!!$R1 1476
7 TraesCS4A01G031900 chr4D 442887768 442891827 4059 True 1964.5 2215 94.0415 178 2735 2 chr4D.!!$R4 2557
8 TraesCS4A01G031900 chr4D 442881569 442882740 1171 False 1694.0 1694 93.0450 2727 3881 1 chr4D.!!$F1 1154
9 TraesCS4A01G031900 chr4D 442878692 442879627 935 True 1341.0 1341 92.8870 2964 3881 1 chr4D.!!$R3 917
10 TraesCS4A01G031900 chr4D 442760449 442761675 1226 True 1072.0 1072 83.0130 1732 2937 1 chr4D.!!$R2 1205
11 TraesCS4A01G031900 chr4D 442741287 442742808 1521 True 627.0 627 74.8880 1532 3039 1 chr4D.!!$R1 1507

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
80 81 0.037790 TGGGCGCTAATTGTTTTGCC 60.038 50.000 7.64 0.0 41.72 4.52 F
82 83 0.037790 GGCGCTAATTGTTTTGCCCA 60.038 50.000 7.64 0.0 36.51 5.36 F
95 96 0.106769 TTGCCCACACACAGACATGT 60.107 50.000 0.00 0.0 41.57 3.21 F
112 113 0.116342 TGTGGGCTGGTCCTCTTAGA 59.884 55.000 0.00 0.0 34.39 2.10 F
165 166 0.320073 GCCCACACGTGTAGCAGTTA 60.320 55.000 28.44 0.0 0.00 2.24 F
905 949 0.820871 CCTGAGGAAGAAGAGGACGG 59.179 60.000 0.00 0.0 0.00 4.79 F
2208 3962 1.527380 GCGGGTCACAAAGGGAACA 60.527 57.895 0.00 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1799 3547 0.321564 TCTTCCATCCACTGTTGCCG 60.322 55.000 0.00 0.0 0.00 5.69 R
1822 3570 0.595053 ATGAGCGGCAAGTATCGACG 60.595 55.000 1.45 0.0 0.00 5.12 R
1917 3665 4.439563 CCCCACTGAACAACAACAAGTTAC 60.440 45.833 0.00 0.0 38.74 2.50 R
2094 3846 6.491403 ACTCCTAAATCAAGTGAATGCAACTT 59.509 34.615 0.00 0.0 0.00 2.66 R
2172 3926 1.670811 CGCCGCCAAATCTCAAAGTAT 59.329 47.619 0.00 0.0 0.00 2.12 R
2524 4421 1.740025 GTGCAGGTATGGAACTGAAGC 59.260 52.381 0.00 0.0 36.86 3.86 R
3361 5363 0.744414 CATCCAAGCAACCGTCCGAT 60.744 55.000 0.00 0.0 0.00 4.18 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
21 22 4.433382 GTTATCTATTTCGTCCACACGC 57.567 45.455 0.00 0.00 46.28 5.34
22 23 2.665649 ATCTATTTCGTCCACACGCA 57.334 45.000 0.00 0.00 46.28 5.24
23 24 1.705256 TCTATTTCGTCCACACGCAC 58.295 50.000 0.00 0.00 46.28 5.34
24 25 0.365523 CTATTTCGTCCACACGCACG 59.634 55.000 0.00 0.00 46.28 5.34
25 26 1.619526 TATTTCGTCCACACGCACGC 61.620 55.000 0.00 0.00 46.28 5.34
36 37 3.179265 CGCACGCGTGTAAGAGGG 61.179 66.667 36.80 17.01 34.35 4.30
37 38 2.260434 GCACGCGTGTAAGAGGGA 59.740 61.111 36.80 0.00 0.00 4.20
38 39 2.092882 GCACGCGTGTAAGAGGGAC 61.093 63.158 36.80 15.74 0.00 4.46
39 40 1.445582 CACGCGTGTAAGAGGGACC 60.446 63.158 30.50 0.00 0.00 4.46
40 41 2.202570 CGCGTGTAAGAGGGACCG 60.203 66.667 0.00 0.00 0.00 4.79
41 42 2.183555 GCGTGTAAGAGGGACCGG 59.816 66.667 0.00 0.00 0.00 5.28
42 43 2.890371 CGTGTAAGAGGGACCGGG 59.110 66.667 6.32 0.00 0.00 5.73
43 44 1.679977 CGTGTAAGAGGGACCGGGA 60.680 63.158 6.32 0.00 0.00 5.14
44 45 1.664321 CGTGTAAGAGGGACCGGGAG 61.664 65.000 6.32 0.00 0.00 4.30
74 75 3.573558 CGTGTGGGCGCTAATTGT 58.426 55.556 7.64 0.00 0.00 2.71
75 76 1.873165 CGTGTGGGCGCTAATTGTT 59.127 52.632 7.64 0.00 0.00 2.83
76 77 0.239879 CGTGTGGGCGCTAATTGTTT 59.760 50.000 7.64 0.00 0.00 2.83
77 78 1.335506 CGTGTGGGCGCTAATTGTTTT 60.336 47.619 7.64 0.00 0.00 2.43
78 79 2.058057 GTGTGGGCGCTAATTGTTTTG 58.942 47.619 7.64 0.00 0.00 2.44
79 80 1.067693 GTGGGCGCTAATTGTTTTGC 58.932 50.000 7.64 0.00 0.00 3.68
80 81 0.037790 TGGGCGCTAATTGTTTTGCC 60.038 50.000 7.64 0.00 41.72 4.52
81 82 2.749541 GGCGCTAATTGTTTTGCCC 58.250 52.632 7.64 0.00 36.51 5.36
82 83 0.037790 GGCGCTAATTGTTTTGCCCA 60.038 50.000 7.64 0.00 36.51 5.36
83 84 1.067693 GCGCTAATTGTTTTGCCCAC 58.932 50.000 0.00 0.00 30.98 4.61
84 85 1.604185 GCGCTAATTGTTTTGCCCACA 60.604 47.619 0.00 0.00 30.98 4.17
85 86 2.058057 CGCTAATTGTTTTGCCCACAC 58.942 47.619 0.00 0.00 30.98 3.82
86 87 2.544694 CGCTAATTGTTTTGCCCACACA 60.545 45.455 0.00 0.00 30.98 3.72
87 88 2.799978 GCTAATTGTTTTGCCCACACAC 59.200 45.455 0.00 0.00 0.00 3.82
88 89 3.739519 GCTAATTGTTTTGCCCACACACA 60.740 43.478 0.00 0.00 0.00 3.72
89 90 2.600470 ATTGTTTTGCCCACACACAG 57.400 45.000 0.00 0.00 0.00 3.66
90 91 1.550327 TTGTTTTGCCCACACACAGA 58.450 45.000 0.00 0.00 0.00 3.41
91 92 0.814457 TGTTTTGCCCACACACAGAC 59.186 50.000 0.00 0.00 0.00 3.51
92 93 0.814457 GTTTTGCCCACACACAGACA 59.186 50.000 0.00 0.00 0.00 3.41
93 94 1.408702 GTTTTGCCCACACACAGACAT 59.591 47.619 0.00 0.00 0.00 3.06
94 95 1.031235 TTTGCCCACACACAGACATG 58.969 50.000 0.00 0.00 0.00 3.21
95 96 0.106769 TTGCCCACACACAGACATGT 60.107 50.000 0.00 0.00 41.57 3.21
103 104 3.580084 ACAGACATGTGGGCTGGT 58.420 55.556 1.15 0.00 38.57 4.00
104 105 1.376466 ACAGACATGTGGGCTGGTC 59.624 57.895 1.15 0.00 38.57 4.02
105 106 1.377725 CAGACATGTGGGCTGGTCC 60.378 63.158 1.15 0.00 0.00 4.46
106 107 1.539869 AGACATGTGGGCTGGTCCT 60.540 57.895 1.15 0.00 34.39 3.85
107 108 1.078143 GACATGTGGGCTGGTCCTC 60.078 63.158 1.15 0.00 34.39 3.71
108 109 1.539869 ACATGTGGGCTGGTCCTCT 60.540 57.895 0.00 0.00 34.39 3.69
109 110 1.136329 ACATGTGGGCTGGTCCTCTT 61.136 55.000 0.00 0.00 34.39 2.85
110 111 0.911769 CATGTGGGCTGGTCCTCTTA 59.088 55.000 0.00 0.00 34.39 2.10
111 112 1.134280 CATGTGGGCTGGTCCTCTTAG 60.134 57.143 0.00 0.00 34.39 2.18
112 113 0.116342 TGTGGGCTGGTCCTCTTAGA 59.884 55.000 0.00 0.00 34.39 2.10
113 114 0.537653 GTGGGCTGGTCCTCTTAGAC 59.462 60.000 0.00 0.00 35.95 2.59
114 115 0.116342 TGGGCTGGTCCTCTTAGACA 59.884 55.000 0.00 0.00 38.59 3.41
115 116 1.273838 TGGGCTGGTCCTCTTAGACAT 60.274 52.381 0.00 0.00 38.59 3.06
116 117 1.414550 GGGCTGGTCCTCTTAGACATC 59.585 57.143 0.00 0.00 38.59 3.06
117 118 2.111384 GGCTGGTCCTCTTAGACATCA 58.889 52.381 0.00 0.00 38.59 3.07
118 119 2.159028 GGCTGGTCCTCTTAGACATCAC 60.159 54.545 0.00 0.00 38.59 3.06
119 120 2.497675 GCTGGTCCTCTTAGACATCACA 59.502 50.000 0.00 0.00 38.59 3.58
120 121 3.677424 GCTGGTCCTCTTAGACATCACAC 60.677 52.174 0.00 0.00 38.59 3.82
121 122 3.506398 TGGTCCTCTTAGACATCACACA 58.494 45.455 0.00 0.00 38.59 3.72
122 123 3.511540 TGGTCCTCTTAGACATCACACAG 59.488 47.826 0.00 0.00 38.59 3.66
123 124 3.764434 GGTCCTCTTAGACATCACACAGA 59.236 47.826 0.00 0.00 38.59 3.41
124 125 4.220821 GGTCCTCTTAGACATCACACAGAA 59.779 45.833 0.00 0.00 38.59 3.02
125 126 5.164954 GTCCTCTTAGACATCACACAGAAC 58.835 45.833 0.00 0.00 36.73 3.01
126 127 4.082733 TCCTCTTAGACATCACACAGAACG 60.083 45.833 0.00 0.00 0.00 3.95
127 128 4.321304 CCTCTTAGACATCACACAGAACGT 60.321 45.833 0.00 0.00 0.00 3.99
128 129 5.106277 CCTCTTAGACATCACACAGAACGTA 60.106 44.000 0.00 0.00 0.00 3.57
129 130 6.404844 CCTCTTAGACATCACACAGAACGTAT 60.405 42.308 0.00 0.00 0.00 3.06
130 131 6.322491 TCTTAGACATCACACAGAACGTATG 58.678 40.000 0.00 0.00 0.00 2.39
131 132 3.849911 AGACATCACACAGAACGTATGG 58.150 45.455 5.75 0.00 0.00 2.74
132 133 2.930040 GACATCACACAGAACGTATGGG 59.070 50.000 1.58 1.58 0.00 4.00
133 134 1.665679 CATCACACAGAACGTATGGGC 59.334 52.381 2.99 0.00 0.00 5.36
134 135 0.682292 TCACACAGAACGTATGGGCA 59.318 50.000 2.99 0.00 0.00 5.36
135 136 1.078709 CACACAGAACGTATGGGCAG 58.921 55.000 2.99 0.00 0.00 4.85
136 137 0.973632 ACACAGAACGTATGGGCAGA 59.026 50.000 2.99 0.00 0.00 4.26
137 138 1.555075 ACACAGAACGTATGGGCAGAT 59.445 47.619 2.99 0.00 0.00 2.90
138 139 2.027192 ACACAGAACGTATGGGCAGATT 60.027 45.455 2.99 0.00 0.00 2.40
139 140 3.009723 CACAGAACGTATGGGCAGATTT 58.990 45.455 5.75 0.00 0.00 2.17
140 141 3.063997 CACAGAACGTATGGGCAGATTTC 59.936 47.826 5.75 0.00 0.00 2.17
141 142 3.055094 ACAGAACGTATGGGCAGATTTCT 60.055 43.478 5.75 0.00 0.00 2.52
142 143 3.941483 CAGAACGTATGGGCAGATTTCTT 59.059 43.478 0.00 0.00 0.00 2.52
143 144 5.116180 CAGAACGTATGGGCAGATTTCTTA 58.884 41.667 0.00 0.00 0.00 2.10
144 145 5.584649 CAGAACGTATGGGCAGATTTCTTAA 59.415 40.000 0.00 0.00 0.00 1.85
145 146 6.260936 CAGAACGTATGGGCAGATTTCTTAAT 59.739 38.462 0.00 0.00 0.00 1.40
146 147 6.260936 AGAACGTATGGGCAGATTTCTTAATG 59.739 38.462 0.00 0.00 0.00 1.90
147 148 4.275936 ACGTATGGGCAGATTTCTTAATGC 59.724 41.667 0.00 0.00 37.95 3.56
153 154 3.774066 GCAGATTTCTTAATGCCCACAC 58.226 45.455 0.00 0.00 32.49 3.82
154 155 3.731867 GCAGATTTCTTAATGCCCACACG 60.732 47.826 0.00 0.00 32.49 4.49
155 156 3.440173 CAGATTTCTTAATGCCCACACGT 59.560 43.478 0.00 0.00 0.00 4.49
156 157 3.440173 AGATTTCTTAATGCCCACACGTG 59.560 43.478 15.48 15.48 0.00 4.49
157 158 2.264005 TTCTTAATGCCCACACGTGT 57.736 45.000 17.22 17.22 0.00 4.49
158 159 3.404224 TTCTTAATGCCCACACGTGTA 57.596 42.857 22.90 6.04 0.00 2.90
159 160 2.967362 TCTTAATGCCCACACGTGTAG 58.033 47.619 22.90 14.79 0.00 2.74
160 161 1.396996 CTTAATGCCCACACGTGTAGC 59.603 52.381 27.32 27.32 0.00 3.58
161 162 0.321996 TAATGCCCACACGTGTAGCA 59.678 50.000 34.18 34.18 40.56 3.49
162 163 0.955428 AATGCCCACACGTGTAGCAG 60.955 55.000 34.57 19.97 39.96 4.24
163 164 2.030562 GCCCACACGTGTAGCAGT 59.969 61.111 28.44 3.32 0.00 4.40
164 165 1.597027 GCCCACACGTGTAGCAGTT 60.597 57.895 28.44 2.62 0.00 3.16
165 166 0.320073 GCCCACACGTGTAGCAGTTA 60.320 55.000 28.44 0.00 0.00 2.24
166 167 1.674817 GCCCACACGTGTAGCAGTTAT 60.675 52.381 28.44 1.20 0.00 1.89
167 168 2.268298 CCCACACGTGTAGCAGTTATC 58.732 52.381 22.90 0.00 0.00 1.75
168 169 2.268298 CCACACGTGTAGCAGTTATCC 58.732 52.381 22.90 0.00 0.00 2.59
169 170 2.353307 CCACACGTGTAGCAGTTATCCA 60.353 50.000 22.90 0.00 0.00 3.41
170 171 2.666508 CACACGTGTAGCAGTTATCCAC 59.333 50.000 22.90 0.00 0.00 4.02
172 173 2.273370 CGTGTAGCAGTTATCCACGT 57.727 50.000 0.00 0.00 42.72 4.49
173 174 2.182825 CGTGTAGCAGTTATCCACGTC 58.817 52.381 0.00 0.00 42.72 4.34
174 175 2.537401 GTGTAGCAGTTATCCACGTCC 58.463 52.381 0.00 0.00 0.00 4.79
175 176 2.165845 GTGTAGCAGTTATCCACGTCCT 59.834 50.000 0.00 0.00 0.00 3.85
176 177 2.829720 TGTAGCAGTTATCCACGTCCTT 59.170 45.455 0.00 0.00 0.00 3.36
185 186 7.441458 GCAGTTATCCACGTCCTTCTTTTATAT 59.559 37.037 0.00 0.00 0.00 0.86
219 231 3.119637 ACACGTTTTCAGTTTGGAAGGTG 60.120 43.478 0.00 0.00 33.91 4.00
228 240 2.644798 AGTTTGGAAGGTGCTCCATACT 59.355 45.455 7.70 8.58 46.69 2.12
237 249 3.055094 AGGTGCTCCATACTTTACAGTGG 60.055 47.826 7.70 0.00 33.41 4.00
239 251 2.571653 TGCTCCATACTTTACAGTGGCT 59.428 45.455 0.00 0.00 34.06 4.75
455 467 1.069358 GAGGACATCCCCGAATCTGAC 59.931 57.143 0.00 0.00 36.42 3.51
799 843 5.687285 GCATTTGCTGGATTATTTAACCTCG 59.313 40.000 0.00 0.00 38.21 4.63
843 887 7.263496 TCTTCTATGTGTCATCTCATTGTCTG 58.737 38.462 0.00 0.00 0.00 3.51
844 888 6.535963 TCTATGTGTCATCTCATTGTCTGT 57.464 37.500 0.00 0.00 0.00 3.41
871 915 2.930562 AGCCCAAGGAAGAGCCGT 60.931 61.111 0.00 0.00 43.43 5.68
887 931 2.104281 AGCCGTATGGTGATAACCTTCC 59.896 50.000 0.00 0.00 37.67 3.46
905 949 0.820871 CCTGAGGAAGAAGAGGACGG 59.179 60.000 0.00 0.00 0.00 4.79
1059 1115 6.183347 TCTTGAGGAGAAGGGATTTTTCATC 58.817 40.000 0.00 0.00 32.95 2.92
1257 1318 6.918022 GTCTCCAAAACTACCATTCTTGTTTG 59.082 38.462 0.00 0.00 33.61 2.93
1266 1327 4.948847 ACCATTCTTGTTTGGAAAGAAGC 58.051 39.130 4.52 0.00 44.52 3.86
1267 1328 4.202253 ACCATTCTTGTTTGGAAAGAAGCC 60.202 41.667 4.52 0.00 44.52 4.35
1285 1346 2.084546 GCCGAAAAATGTAGCAGGACT 58.915 47.619 0.00 0.00 0.00 3.85
1345 1537 4.222145 TCCTTAGTGCTCATTACCTTCGTT 59.778 41.667 0.00 0.00 0.00 3.85
1369 3034 5.545658 TTTTATCAAACGGCTCACTGATC 57.454 39.130 0.00 0.00 31.20 2.92
1394 3059 5.564550 ACTCTTTGACTGTGCCTAATGATT 58.435 37.500 0.00 0.00 0.00 2.57
1395 3060 6.006449 ACTCTTTGACTGTGCCTAATGATTT 58.994 36.000 0.00 0.00 0.00 2.17
1396 3061 6.150140 ACTCTTTGACTGTGCCTAATGATTTC 59.850 38.462 0.00 0.00 0.00 2.17
1621 3296 2.224992 TGTAGGGTGGTACCGAGTACAA 60.225 50.000 7.57 2.73 40.41 2.41
1670 3345 7.099764 ACCTTCATAGCTATGATATTGAACGG 58.900 38.462 31.73 22.17 41.86 4.44
1689 3364 2.688446 CGGGAGTATCTCAAGTACTGCA 59.312 50.000 0.00 0.00 40.85 4.41
1789 3537 9.581099 TTCAAATTTCTTTGGACTTACAACTTC 57.419 29.630 0.00 0.00 41.74 3.01
1799 3547 5.826208 TGGACTTACAACTTCCTTTTTCTCC 59.174 40.000 0.00 0.00 0.00 3.71
1822 3570 3.378427 GGCAACAGTGGATGGAAGATTAC 59.622 47.826 0.00 0.00 0.00 1.89
1887 3635 5.291971 ACAAAATTCTTGGAATGACACTGC 58.708 37.500 0.00 0.00 0.00 4.40
2094 3846 9.725019 CTTACAATGGCCTATATTGTATCTGAA 57.275 33.333 21.46 11.46 45.31 3.02
2172 3926 8.316214 ACTTGGTTTAAGGAGTATGATCGTTTA 58.684 33.333 0.00 0.00 40.84 2.01
2208 3962 1.527380 GCGGGTCACAAAGGGAACA 60.527 57.895 0.00 0.00 0.00 3.18
2255 4135 5.356190 AGCAACTACTCAATGATGGTTCATG 59.644 40.000 0.00 0.00 41.83 3.07
2449 4333 3.721035 AGGACGTACGTTAGCTGTTTTT 58.279 40.909 23.70 0.00 0.00 1.94
2524 4421 6.118170 TGCTTATCTCTTTTCATCTTCCTGG 58.882 40.000 0.00 0.00 0.00 4.45
2725 4662 3.837213 ATTTGTGAATTCACCTCTGCG 57.163 42.857 30.66 0.00 45.88 5.18
2867 4825 1.896465 CCTTCCTTCCGAGAAGACTGT 59.104 52.381 13.28 0.00 42.80 3.55
2920 4885 4.096732 AGATAATTGGCAAACAAGCGTC 57.903 40.909 3.01 0.00 43.48 5.19
3211 5213 0.536915 TTTTTGGCAAAGCATGGGGC 60.537 50.000 13.04 0.00 45.30 5.80
3258 5260 7.985634 AATTAGCATATAGTTTTTGCGGTTG 57.014 32.000 0.00 0.00 41.22 3.77
3361 5363 4.868268 ACTACACCCATCTAACAGCTCTA 58.132 43.478 0.00 0.00 0.00 2.43
3380 5382 0.744414 ATCGGACGGTTGCTTGGATG 60.744 55.000 0.00 0.00 0.00 3.51
3387 5389 3.936453 GACGGTTGCTTGGATGTAACATA 59.064 43.478 0.00 0.00 34.89 2.29
3425 5427 9.443323 TGTTAGTTTTGCTGTATGCTAAGAATA 57.557 29.630 0.00 0.00 43.37 1.75
3431 5433 6.317789 TGCTGTATGCTAAGAATAAATGCC 57.682 37.500 0.00 0.00 43.37 4.40
3477 5479 0.468214 ATACTCGGCCTGCTCTGCTA 60.468 55.000 0.00 0.00 0.00 3.49
3478 5480 1.103987 TACTCGGCCTGCTCTGCTAG 61.104 60.000 0.00 0.00 0.00 3.42
3538 5540 0.710567 GATTGCACACGTGTCGAGAG 59.289 55.000 20.49 8.53 0.00 3.20
3663 5665 0.037326 GTCGGCTGTGTGATCAGGAA 60.037 55.000 0.00 0.00 36.12 3.36
3717 5719 0.318614 GCTATGCGAGAGAGGTCTGC 60.319 60.000 0.00 0.00 30.97 4.26
3792 5794 4.990526 ACTCAGTTTCAGATTGGTGGAAT 58.009 39.130 0.00 0.00 0.00 3.01
3828 5830 4.133796 GGTGCGCAATCCAAGGCC 62.134 66.667 14.00 1.73 0.00 5.19
3829 5831 3.372730 GTGCGCAATCCAAGGCCA 61.373 61.111 14.00 0.00 0.00 5.36
3831 5833 3.372730 GCGCAATCCAAGGCCACA 61.373 61.111 5.01 0.00 0.00 4.17
3846 5848 1.952367 GCCACAGAGGAAACATCCCTG 60.952 57.143 10.10 10.10 41.22 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 3.179265 CCCTCTTACACGCGTGCG 61.179 66.667 37.35 25.19 46.03 5.34
20 21 2.092882 GTCCCTCTTACACGCGTGC 61.093 63.158 37.35 15.17 0.00 5.34
21 22 1.445582 GGTCCCTCTTACACGCGTG 60.446 63.158 35.99 35.99 0.00 5.34
22 23 2.968206 GGTCCCTCTTACACGCGT 59.032 61.111 5.58 5.58 0.00 6.01
23 24 2.202570 CGGTCCCTCTTACACGCG 60.203 66.667 3.53 3.53 0.00 6.01
24 25 2.183555 CCGGTCCCTCTTACACGC 59.816 66.667 0.00 0.00 0.00 5.34
25 26 1.664321 CTCCCGGTCCCTCTTACACG 61.664 65.000 0.00 0.00 0.00 4.49
26 27 1.328430 CCTCCCGGTCCCTCTTACAC 61.328 65.000 0.00 0.00 0.00 2.90
27 28 1.001248 CCTCCCGGTCCCTCTTACA 59.999 63.158 0.00 0.00 0.00 2.41
28 29 1.761271 CCCTCCCGGTCCCTCTTAC 60.761 68.421 0.00 0.00 0.00 2.34
29 30 1.521119 TTCCCTCCCGGTCCCTCTTA 61.521 60.000 0.00 0.00 0.00 2.10
30 31 2.411476 TTTCCCTCCCGGTCCCTCTT 62.411 60.000 0.00 0.00 0.00 2.85
31 32 2.411476 TTTTCCCTCCCGGTCCCTCT 62.411 60.000 0.00 0.00 0.00 3.69
32 33 1.494716 TTTTTCCCTCCCGGTCCCTC 61.495 60.000 0.00 0.00 0.00 4.30
33 34 1.464593 TTTTTCCCTCCCGGTCCCT 60.465 57.895 0.00 0.00 0.00 4.20
34 35 3.173323 TTTTTCCCTCCCGGTCCC 58.827 61.111 0.00 0.00 0.00 4.46
57 58 0.239879 AAACAATTAGCGCCCACACG 59.760 50.000 2.29 0.00 0.00 4.49
58 59 2.058057 CAAAACAATTAGCGCCCACAC 58.942 47.619 2.29 0.00 0.00 3.82
59 60 1.604185 GCAAAACAATTAGCGCCCACA 60.604 47.619 2.29 0.00 0.00 4.17
60 61 1.067693 GCAAAACAATTAGCGCCCAC 58.932 50.000 2.29 0.00 0.00 4.61
61 62 0.037790 GGCAAAACAATTAGCGCCCA 60.038 50.000 2.29 0.00 33.31 5.36
62 63 2.749541 GGCAAAACAATTAGCGCCC 58.250 52.632 2.29 0.00 33.31 6.13
63 64 0.037790 TGGGCAAAACAATTAGCGCC 60.038 50.000 2.29 0.00 38.93 6.53
64 65 1.067693 GTGGGCAAAACAATTAGCGC 58.932 50.000 0.00 0.00 39.95 5.92
65 66 2.058057 GTGTGGGCAAAACAATTAGCG 58.942 47.619 0.00 0.00 0.00 4.26
66 67 2.799978 GTGTGTGGGCAAAACAATTAGC 59.200 45.455 0.00 0.00 0.00 3.09
67 68 4.050553 CTGTGTGTGGGCAAAACAATTAG 58.949 43.478 0.00 0.00 0.00 1.73
68 69 3.701542 TCTGTGTGTGGGCAAAACAATTA 59.298 39.130 0.00 0.00 0.00 1.40
69 70 2.499289 TCTGTGTGTGGGCAAAACAATT 59.501 40.909 0.00 0.00 0.00 2.32
70 71 2.106566 TCTGTGTGTGGGCAAAACAAT 58.893 42.857 0.00 0.00 0.00 2.71
71 72 1.203523 GTCTGTGTGTGGGCAAAACAA 59.796 47.619 0.00 0.00 0.00 2.83
72 73 0.814457 GTCTGTGTGTGGGCAAAACA 59.186 50.000 0.00 0.00 0.00 2.83
73 74 0.814457 TGTCTGTGTGTGGGCAAAAC 59.186 50.000 0.00 0.00 0.00 2.43
74 75 1.408340 CATGTCTGTGTGTGGGCAAAA 59.592 47.619 0.00 0.00 0.00 2.44
75 76 1.031235 CATGTCTGTGTGTGGGCAAA 58.969 50.000 0.00 0.00 0.00 3.68
76 77 0.106769 ACATGTCTGTGTGTGGGCAA 60.107 50.000 0.00 0.00 33.22 4.52
77 78 0.818852 CACATGTCTGTGTGTGGGCA 60.819 55.000 0.00 0.00 46.33 5.36
78 79 1.951510 CACATGTCTGTGTGTGGGC 59.048 57.895 0.00 0.00 46.33 5.36
86 87 1.376466 GACCAGCCCACATGTCTGT 59.624 57.895 11.00 1.61 35.44 3.41
87 88 1.377725 GGACCAGCCCACATGTCTG 60.378 63.158 0.00 0.04 0.00 3.51
88 89 1.539869 AGGACCAGCCCACATGTCT 60.540 57.895 0.00 0.00 37.37 3.41
89 90 1.078143 GAGGACCAGCCCACATGTC 60.078 63.158 0.00 0.00 37.37 3.06
90 91 1.136329 AAGAGGACCAGCCCACATGT 61.136 55.000 0.00 0.00 37.37 3.21
91 92 0.911769 TAAGAGGACCAGCCCACATG 59.088 55.000 0.00 0.00 37.37 3.21
92 93 1.207791 CTAAGAGGACCAGCCCACAT 58.792 55.000 0.00 0.00 37.37 3.21
93 94 0.116342 TCTAAGAGGACCAGCCCACA 59.884 55.000 0.00 0.00 37.37 4.17
94 95 0.537653 GTCTAAGAGGACCAGCCCAC 59.462 60.000 0.00 0.00 37.37 4.61
95 96 0.116342 TGTCTAAGAGGACCAGCCCA 59.884 55.000 0.00 0.00 37.37 5.36
96 97 1.414550 GATGTCTAAGAGGACCAGCCC 59.585 57.143 0.00 0.00 37.37 5.19
97 98 2.111384 TGATGTCTAAGAGGACCAGCC 58.889 52.381 0.00 0.00 35.54 4.85
98 99 2.497675 TGTGATGTCTAAGAGGACCAGC 59.502 50.000 0.00 0.00 35.54 4.85
99 100 3.511540 TGTGTGATGTCTAAGAGGACCAG 59.488 47.826 0.00 0.00 35.54 4.00
100 101 3.506398 TGTGTGATGTCTAAGAGGACCA 58.494 45.455 0.00 0.00 35.54 4.02
101 102 3.764434 TCTGTGTGATGTCTAAGAGGACC 59.236 47.826 0.00 0.00 35.54 4.46
102 103 5.164954 GTTCTGTGTGATGTCTAAGAGGAC 58.835 45.833 0.00 0.00 36.81 3.85
103 104 4.082733 CGTTCTGTGTGATGTCTAAGAGGA 60.083 45.833 0.00 0.00 0.00 3.71
104 105 4.169508 CGTTCTGTGTGATGTCTAAGAGG 58.830 47.826 0.00 0.00 0.00 3.69
105 106 4.799678 ACGTTCTGTGTGATGTCTAAGAG 58.200 43.478 0.00 0.00 0.00 2.85
106 107 4.848562 ACGTTCTGTGTGATGTCTAAGA 57.151 40.909 0.00 0.00 0.00 2.10
107 108 5.516696 CCATACGTTCTGTGTGATGTCTAAG 59.483 44.000 0.00 0.00 41.84 2.18
108 109 5.407502 CCATACGTTCTGTGTGATGTCTAA 58.592 41.667 0.00 0.00 41.84 2.10
109 110 4.142249 CCCATACGTTCTGTGTGATGTCTA 60.142 45.833 0.00 0.00 41.84 2.59
110 111 3.368427 CCCATACGTTCTGTGTGATGTCT 60.368 47.826 0.00 0.00 41.84 3.41
111 112 2.930040 CCCATACGTTCTGTGTGATGTC 59.070 50.000 0.00 0.00 41.84 3.06
112 113 2.935238 GCCCATACGTTCTGTGTGATGT 60.935 50.000 0.00 0.00 41.84 3.06
113 114 1.665679 GCCCATACGTTCTGTGTGATG 59.334 52.381 0.00 0.00 41.84 3.07
114 115 1.277842 TGCCCATACGTTCTGTGTGAT 59.722 47.619 0.00 0.00 41.84 3.06
115 116 0.682292 TGCCCATACGTTCTGTGTGA 59.318 50.000 0.00 0.00 41.84 3.58
116 117 1.078709 CTGCCCATACGTTCTGTGTG 58.921 55.000 0.00 0.00 39.24 3.82
117 118 0.973632 TCTGCCCATACGTTCTGTGT 59.026 50.000 0.00 0.00 0.00 3.72
118 119 2.315925 ATCTGCCCATACGTTCTGTG 57.684 50.000 0.00 0.00 0.00 3.66
119 120 3.055094 AGAAATCTGCCCATACGTTCTGT 60.055 43.478 0.00 0.00 0.00 3.41
120 121 3.535561 AGAAATCTGCCCATACGTTCTG 58.464 45.455 0.00 0.00 0.00 3.02
121 122 3.914426 AGAAATCTGCCCATACGTTCT 57.086 42.857 0.00 0.00 0.00 3.01
122 123 6.430451 CATTAAGAAATCTGCCCATACGTTC 58.570 40.000 0.00 0.00 0.00 3.95
123 124 5.221048 GCATTAAGAAATCTGCCCATACGTT 60.221 40.000 0.00 0.00 0.00 3.99
124 125 4.275936 GCATTAAGAAATCTGCCCATACGT 59.724 41.667 0.00 0.00 0.00 3.57
125 126 4.320494 GGCATTAAGAAATCTGCCCATACG 60.320 45.833 4.45 0.00 46.76 3.06
126 127 5.126396 GGCATTAAGAAATCTGCCCATAC 57.874 43.478 4.45 0.00 46.76 2.39
132 133 3.731867 CGTGTGGGCATTAAGAAATCTGC 60.732 47.826 0.00 0.00 0.00 4.26
133 134 3.440173 ACGTGTGGGCATTAAGAAATCTG 59.560 43.478 0.00 0.00 0.00 2.90
134 135 3.440173 CACGTGTGGGCATTAAGAAATCT 59.560 43.478 7.58 0.00 0.00 2.40
135 136 3.190535 ACACGTGTGGGCATTAAGAAATC 59.809 43.478 22.71 0.00 34.19 2.17
136 137 3.153919 ACACGTGTGGGCATTAAGAAAT 58.846 40.909 22.71 0.00 34.19 2.17
137 138 2.577700 ACACGTGTGGGCATTAAGAAA 58.422 42.857 22.71 0.00 34.19 2.52
138 139 2.264005 ACACGTGTGGGCATTAAGAA 57.736 45.000 22.71 0.00 34.19 2.52
139 140 2.933492 GCTACACGTGTGGGCATTAAGA 60.933 50.000 30.83 5.86 34.99 2.10
140 141 1.396996 GCTACACGTGTGGGCATTAAG 59.603 52.381 30.83 17.80 34.99 1.85
141 142 1.270893 TGCTACACGTGTGGGCATTAA 60.271 47.619 32.14 18.58 38.05 1.40
142 143 0.321996 TGCTACACGTGTGGGCATTA 59.678 50.000 32.14 18.84 38.05 1.90
143 144 0.955428 CTGCTACACGTGTGGGCATT 60.955 55.000 34.09 13.13 40.46 3.56
144 145 1.375908 CTGCTACACGTGTGGGCAT 60.376 57.895 34.09 13.76 40.46 4.40
145 146 2.030412 CTGCTACACGTGTGGGCA 59.970 61.111 32.80 32.80 39.60 5.36
146 147 0.320073 TAACTGCTACACGTGTGGGC 60.320 55.000 30.83 29.70 35.27 5.36
147 148 2.268298 GATAACTGCTACACGTGTGGG 58.732 52.381 30.83 22.33 34.19 4.61
148 149 2.268298 GGATAACTGCTACACGTGTGG 58.732 52.381 30.83 28.31 34.19 4.17
149 150 2.666508 GTGGATAACTGCTACACGTGTG 59.333 50.000 30.83 20.31 0.00 3.82
150 151 2.670229 CGTGGATAACTGCTACACGTGT 60.670 50.000 26.52 26.52 46.78 4.49
151 152 1.917955 CGTGGATAACTGCTACACGTG 59.082 52.381 15.48 15.48 46.78 4.49
152 153 2.273370 CGTGGATAACTGCTACACGT 57.727 50.000 7.28 0.00 46.78 4.49
154 155 2.165845 AGGACGTGGATAACTGCTACAC 59.834 50.000 0.00 0.00 0.00 2.90
155 156 2.453521 AGGACGTGGATAACTGCTACA 58.546 47.619 0.00 0.00 0.00 2.74
156 157 3.130693 AGAAGGACGTGGATAACTGCTAC 59.869 47.826 0.00 0.00 0.00 3.58
157 158 3.362706 AGAAGGACGTGGATAACTGCTA 58.637 45.455 0.00 0.00 0.00 3.49
158 159 2.180276 AGAAGGACGTGGATAACTGCT 58.820 47.619 0.00 0.00 0.00 4.24
159 160 2.674796 AGAAGGACGTGGATAACTGC 57.325 50.000 0.00 0.00 0.00 4.40
160 161 8.888579 ATATAAAAGAAGGACGTGGATAACTG 57.111 34.615 0.00 0.00 0.00 3.16
161 162 8.925338 AGATATAAAAGAAGGACGTGGATAACT 58.075 33.333 0.00 0.00 0.00 2.24
162 163 8.979574 CAGATATAAAAGAAGGACGTGGATAAC 58.020 37.037 0.00 0.00 0.00 1.89
163 164 8.701895 ACAGATATAAAAGAAGGACGTGGATAA 58.298 33.333 0.00 0.00 0.00 1.75
164 165 8.246430 ACAGATATAAAAGAAGGACGTGGATA 57.754 34.615 0.00 0.00 0.00 2.59
165 166 7.125792 ACAGATATAAAAGAAGGACGTGGAT 57.874 36.000 0.00 0.00 0.00 3.41
166 167 6.540438 ACAGATATAAAAGAAGGACGTGGA 57.460 37.500 0.00 0.00 0.00 4.02
167 168 7.611213 AAACAGATATAAAAGAAGGACGTGG 57.389 36.000 0.00 0.00 0.00 4.94
185 186 7.136289 ACTGAAAACGTGTCTTAAAAACAGA 57.864 32.000 0.00 0.00 0.00 3.41
219 231 2.939103 CAGCCACTGTAAAGTATGGAGC 59.061 50.000 0.00 0.00 33.80 4.70
228 240 1.302192 GCGGTCCAGCCACTGTAAA 60.302 57.895 0.00 0.00 36.97 2.01
237 249 4.803426 CCGTCTCTGCGGTCCAGC 62.803 72.222 0.00 0.00 46.11 4.85
455 467 0.316204 AAACTACACACTCGTCGGGG 59.684 55.000 0.00 0.00 0.00 5.73
828 872 6.090088 GTGACAACTACAGACAATGAGATGAC 59.910 42.308 0.00 0.00 0.00 3.06
829 873 6.159293 GTGACAACTACAGACAATGAGATGA 58.841 40.000 0.00 0.00 0.00 2.92
830 874 5.928264 TGTGACAACTACAGACAATGAGATG 59.072 40.000 0.00 0.00 0.00 2.90
831 875 6.101650 TGTGACAACTACAGACAATGAGAT 57.898 37.500 0.00 0.00 0.00 2.75
834 878 4.058124 GCTGTGACAACTACAGACAATGA 58.942 43.478 9.14 0.00 46.52 2.57
835 879 4.395581 GCTGTGACAACTACAGACAATG 57.604 45.455 9.14 0.00 46.52 2.82
843 887 1.071699 TCCTTGGGCTGTGACAACTAC 59.928 52.381 0.00 0.00 0.00 2.73
844 888 1.429930 TCCTTGGGCTGTGACAACTA 58.570 50.000 0.00 0.00 0.00 2.24
887 931 1.551452 ACCGTCCTCTTCTTCCTCAG 58.449 55.000 0.00 0.00 0.00 3.35
905 949 8.982091 AGCTAAATATTCCCTTTCTTCCTTAC 57.018 34.615 0.00 0.00 0.00 2.34
969 1013 0.317103 CCTCTTCCGATGTAGCGTCG 60.317 60.000 4.00 4.00 41.82 5.12
1059 1115 4.518211 AGTGTTCCATCTTCTTCAAAGCTG 59.482 41.667 0.00 0.00 0.00 4.24
1199 1258 1.949525 GTGATTGCCAGACAGTTGTGT 59.050 47.619 0.00 0.00 40.71 3.72
1257 1318 4.166523 GCTACATTTTTCGGCTTCTTTCC 58.833 43.478 0.00 0.00 0.00 3.13
1266 1327 5.873179 TTTAGTCCTGCTACATTTTTCGG 57.127 39.130 0.00 0.00 0.00 4.30
1353 3018 0.716108 GTCGATCAGTGAGCCGTTTG 59.284 55.000 14.69 0.00 0.00 2.93
1369 3034 2.724977 TAGGCACAGTCAAAGAGTCG 57.275 50.000 0.00 0.00 0.00 4.18
1503 3175 6.393171 AGATTTGATTGAACTAAAGGCTTGC 58.607 36.000 0.00 0.00 0.00 4.01
1580 3255 5.815233 ACATTGAAAAGGACAGAGAGAGA 57.185 39.130 0.00 0.00 0.00 3.10
1621 3296 3.133003 GCTATGGTAGTCACTCCACATGT 59.867 47.826 0.00 0.00 36.50 3.21
1670 3345 4.402793 TCCTTGCAGTACTTGAGATACTCC 59.597 45.833 0.00 0.00 30.22 3.85
1689 3364 4.487714 TCAGTCGCTTGGATAATTCCTT 57.512 40.909 0.00 0.00 43.07 3.36
1789 3537 1.001378 CACTGTTGCCGGAGAAAAAGG 60.001 52.381 5.05 0.00 0.00 3.11
1799 3547 0.321564 TCTTCCATCCACTGTTGCCG 60.322 55.000 0.00 0.00 0.00 5.69
1822 3570 0.595053 ATGAGCGGCAAGTATCGACG 60.595 55.000 1.45 0.00 0.00 5.12
1917 3665 4.439563 CCCCACTGAACAACAACAAGTTAC 60.440 45.833 0.00 0.00 38.74 2.50
2094 3846 6.491403 ACTCCTAAATCAAGTGAATGCAACTT 59.509 34.615 0.00 0.00 0.00 2.66
2172 3926 1.670811 CGCCGCCAAATCTCAAAGTAT 59.329 47.619 0.00 0.00 0.00 2.12
2208 3962 3.399330 AGTTGCGCATAACACACTAACT 58.601 40.909 12.75 4.26 33.02 2.24
2255 4135 7.478520 AGCATATACAGTGTATTCGAAAACC 57.521 36.000 20.52 2.65 0.00 3.27
2524 4421 1.740025 GTGCAGGTATGGAACTGAAGC 59.260 52.381 0.00 0.00 36.86 3.86
2562 4459 6.584942 TCACATACAAAAGACGCTACTTACTG 59.415 38.462 0.00 0.00 0.00 2.74
2867 4825 7.337938 TCAGAATCTTCATTATACTGTTGCCA 58.662 34.615 0.00 0.00 0.00 4.92
2981 4950 3.696548 TGCCATTTCTACACACAACAACA 59.303 39.130 0.00 0.00 0.00 3.33
3173 5175 7.902917 GCCAAAAACTGTGTTTCTTTGAATAAC 59.097 33.333 0.00 0.00 0.00 1.89
3211 5213 2.028385 AGAGTTACAACCCTAGCCAACG 60.028 50.000 0.00 0.00 0.00 4.10
3361 5363 0.744414 CATCCAAGCAACCGTCCGAT 60.744 55.000 0.00 0.00 0.00 4.18
3380 5382 2.102588 ACATGAGGGGCTCGTATGTTAC 59.897 50.000 0.00 0.00 32.35 2.50
3387 5389 1.276622 AACTAACATGAGGGGCTCGT 58.723 50.000 0.00 0.00 32.35 4.18
3425 5427 4.487948 CAGTGACATTTTCGATGGCATTT 58.512 39.130 0.00 0.00 39.53 2.32
3431 5433 4.325204 CCATTTGCAGTGACATTTTCGATG 59.675 41.667 0.00 0.00 0.00 3.84
3477 5479 2.697751 AGCGAACTGGATCTCATAAGCT 59.302 45.455 0.00 0.00 0.00 3.74
3478 5480 2.799412 CAGCGAACTGGATCTCATAAGC 59.201 50.000 0.00 0.00 40.48 3.09
3479 5481 2.799412 GCAGCGAACTGGATCTCATAAG 59.201 50.000 0.00 0.00 44.63 1.73
3480 5482 2.168313 TGCAGCGAACTGGATCTCATAA 59.832 45.455 0.00 0.00 44.63 1.90
3538 5540 1.332195 ACCTTTCCCTCAAGCTTTGC 58.668 50.000 0.00 0.00 0.00 3.68
3717 5719 4.960469 TCACTTGTACCCTGGAATAGGTAG 59.040 45.833 0.00 0.00 45.80 3.18
3741 5743 3.068560 GTGCACCACGTTGTAAATCCTA 58.931 45.455 5.22 0.00 0.00 2.94
3792 5794 1.405463 CCGCGATGCATATAGAGCCTA 59.595 52.381 8.23 0.00 0.00 3.93
3828 5830 2.704572 GACAGGGATGTTTCCTCTGTG 58.295 52.381 16.03 3.21 45.65 3.66
3831 5833 0.905357 CCGACAGGGATGTTTCCTCT 59.095 55.000 0.00 0.00 42.20 3.69


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

AutoCloner maintained by Alex Coulton.