Multiple sequence alignment - TraesCS4D01G260500

Loading Multiple Alignment...

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 TraesCS4D01G260500 chr4D 100.000 2711 0 0 542 3252 430795180 430792470 0.000000e+00 5007.0
1 TraesCS4D01G260500 chr4D 100.000 226 0 0 1 226 430795721 430795496 5.020000e-113 418.0
2 TraesCS4D01G260500 chr4D 87.719 114 14 0 1 114 39239657 39239770 2.040000e-27 134.0
3 TraesCS4D01G260500 chr4B 91.847 2490 88 48 827 3252 529298527 529296089 0.000000e+00 3367.0
4 TraesCS4D01G260500 chr4B 93.750 272 14 1 544 812 529298846 529298575 3.910000e-109 405.0
5 TraesCS4D01G260500 chr4B 89.189 111 11 1 1 111 568552142 568552251 1.570000e-28 137.0
6 TraesCS4D01G260500 chr4A 88.510 2463 134 73 882 3252 32463075 32460670 0.000000e+00 2843.0
7 TraesCS4D01G260500 chr4A 90.000 270 13 5 544 799 32463384 32463115 1.450000e-88 337.0
8 TraesCS4D01G260500 chr7D 90.753 757 36 16 1172 1903 234344749 234345496 0.000000e+00 979.0
9 TraesCS4D01G260500 chr7D 91.150 113 10 0 1 113 461627807 461627695 1.560000e-33 154.0
10 TraesCS4D01G260500 chr7D 92.157 102 8 0 10 111 43371684 43371785 9.400000e-31 145.0
11 TraesCS4D01G260500 chr3D 90.489 757 38 16 1172 1903 456654123 456654870 0.000000e+00 968.0
12 TraesCS4D01G260500 chr2B 75.800 781 97 45 991 1732 659064347 659065074 8.760000e-81 311.0
13 TraesCS4D01G260500 chr2B 96.226 53 2 0 1000 1052 58689434 58689486 1.610000e-13 87.9
14 TraesCS4D01G260500 chr2D 75.671 559 62 36 1184 1721 553330520 553331025 9.140000e-51 211.0
15 TraesCS4D01G260500 chr2D 80.576 139 19 7 998 1132 35639074 35639208 2.060000e-17 100.0
16 TraesCS4D01G260500 chr6B 89.474 114 12 0 1 114 712493547 712493660 9.400000e-31 145.0
17 TraesCS4D01G260500 chr7B 87.719 114 14 0 1 114 594530845 594530958 2.040000e-27 134.0
18 TraesCS4D01G260500 chr7B 88.288 111 12 1 1 111 705328257 705328366 7.320000e-27 132.0
19 TraesCS4D01G260500 chr5D 87.611 113 12 2 1 113 446552264 446552154 2.630000e-26 130.0
20 TraesCS4D01G260500 chr5B 87.179 117 9 5 1 114 366026023 366025910 9.470000e-26 128.0


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 TraesCS4D01G260500 chr4D 430792470 430795721 3251 True 2712.5 5007 100.0000 1 3252 2 chr4D.!!$R1 3251
1 TraesCS4D01G260500 chr4B 529296089 529298846 2757 True 1886.0 3367 92.7985 544 3252 2 chr4B.!!$R1 2708
2 TraesCS4D01G260500 chr4A 32460670 32463384 2714 True 1590.0 2843 89.2550 544 3252 2 chr4A.!!$R1 2708
3 TraesCS4D01G260500 chr7D 234344749 234345496 747 False 979.0 979 90.7530 1172 1903 1 chr7D.!!$F2 731
4 TraesCS4D01G260500 chr3D 456654123 456654870 747 False 968.0 968 90.4890 1172 1903 1 chr3D.!!$F1 731
5 TraesCS4D01G260500 chr2B 659064347 659065074 727 False 311.0 311 75.8000 991 1732 1 chr2B.!!$F2 741
6 TraesCS4D01G260500 chr2D 553330520 553331025 505 False 211.0 211 75.6710 1184 1721 1 chr2D.!!$F2 537

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
125 126 0.179004 TGGTTCGCCATTCCACACTT 60.179 50.0 0.0 0.0 43.56 3.16 F
815 836 0.309302 CACGTATCTCTCTCCCGCAG 59.691 60.0 0.0 0.0 0.00 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1803 1929 0.539051 CCGAAACTGGGAGAGATGCT 59.461 55.0 0.0 0.0 0.0 3.79 R
2402 2567 0.036388 ACCAGTGACCCATACTTGCG 60.036 55.0 0.0 0.0 0.0 4.85 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
28 29 9.787532 TCGCCAGAAATTCTAAAATAAATTCAG 57.212 29.630 0.00 0.00 0.00 3.02
29 30 9.573133 CGCCAGAAATTCTAAAATAAATTCAGT 57.427 29.630 0.00 0.00 0.00 3.41
45 46 9.831737 ATAAATTCAGTAATAAATGCGAGCATC 57.168 29.630 11.26 0.00 35.31 3.91
46 47 6.866010 ATTCAGTAATAAATGCGAGCATCA 57.134 33.333 11.26 3.11 35.31 3.07
47 48 5.912360 TCAGTAATAAATGCGAGCATCAG 57.088 39.130 11.26 0.00 35.31 2.90
48 49 4.751600 TCAGTAATAAATGCGAGCATCAGG 59.248 41.667 11.26 0.00 35.31 3.86
49 50 4.751600 CAGTAATAAATGCGAGCATCAGGA 59.248 41.667 11.26 0.00 35.31 3.86
50 51 5.410746 CAGTAATAAATGCGAGCATCAGGAT 59.589 40.000 11.26 0.39 35.31 3.24
51 52 6.000219 AGTAATAAATGCGAGCATCAGGATT 59.000 36.000 11.26 10.32 35.31 3.01
52 53 5.779529 AATAAATGCGAGCATCAGGATTT 57.220 34.783 11.26 4.40 40.41 2.17
53 54 6.882610 AATAAATGCGAGCATCAGGATTTA 57.117 33.333 11.26 6.42 41.59 1.40
54 55 6.882610 ATAAATGCGAGCATCAGGATTTAA 57.117 33.333 11.26 0.00 41.16 1.52
55 56 5.581126 AAATGCGAGCATCAGGATTTAAA 57.419 34.783 11.26 0.00 37.66 1.52
56 57 4.558538 ATGCGAGCATCAGGATTTAAAC 57.441 40.909 4.52 0.00 33.17 2.01
57 58 2.682856 TGCGAGCATCAGGATTTAAACC 59.317 45.455 0.00 0.00 33.17 3.27
58 59 2.033424 GCGAGCATCAGGATTTAAACCC 59.967 50.000 0.00 0.00 33.17 4.11
59 60 3.545703 CGAGCATCAGGATTTAAACCCT 58.454 45.455 0.00 0.00 33.17 4.34
74 75 3.479203 CCTGGTGGGCTGCGGATA 61.479 66.667 0.00 0.00 0.00 2.59
75 76 2.203070 CTGGTGGGCTGCGGATAC 60.203 66.667 0.00 0.00 0.00 2.24
76 77 3.757248 CTGGTGGGCTGCGGATACC 62.757 68.421 0.00 1.14 0.00 2.73
77 78 3.792736 GGTGGGCTGCGGATACCA 61.793 66.667 0.00 0.00 0.00 3.25
78 79 2.513897 GTGGGCTGCGGATACCAC 60.514 66.667 15.69 15.69 45.56 4.16
79 80 3.006133 TGGGCTGCGGATACCACA 61.006 61.111 0.00 0.00 0.00 4.17
80 81 2.203070 GGGCTGCGGATACCACAG 60.203 66.667 0.00 0.00 39.62 3.66
81 82 2.584608 GGCTGCGGATACCACAGT 59.415 61.111 0.00 0.00 39.02 3.55
82 83 1.521681 GGCTGCGGATACCACAGTC 60.522 63.158 0.00 1.75 39.02 3.51
83 84 1.218047 GCTGCGGATACCACAGTCA 59.782 57.895 0.00 0.00 39.02 3.41
84 85 1.084370 GCTGCGGATACCACAGTCAC 61.084 60.000 0.00 0.00 39.02 3.67
85 86 0.532573 CTGCGGATACCACAGTCACT 59.467 55.000 0.00 0.00 33.65 3.41
86 87 0.530744 TGCGGATACCACAGTCACTC 59.469 55.000 0.00 0.00 0.00 3.51
87 88 0.818296 GCGGATACCACAGTCACTCT 59.182 55.000 0.00 0.00 0.00 3.24
88 89 2.022195 GCGGATACCACAGTCACTCTA 58.978 52.381 0.00 0.00 0.00 2.43
89 90 2.426024 GCGGATACCACAGTCACTCTAA 59.574 50.000 0.00 0.00 0.00 2.10
90 91 3.734293 GCGGATACCACAGTCACTCTAAC 60.734 52.174 0.00 0.00 0.00 2.34
91 92 3.181489 CGGATACCACAGTCACTCTAACC 60.181 52.174 0.00 0.00 0.00 2.85
92 93 3.767673 GGATACCACAGTCACTCTAACCA 59.232 47.826 0.00 0.00 0.00 3.67
93 94 4.406003 GGATACCACAGTCACTCTAACCAT 59.594 45.833 0.00 0.00 0.00 3.55
94 95 3.963428 ACCACAGTCACTCTAACCATC 57.037 47.619 0.00 0.00 0.00 3.51
95 96 2.231478 ACCACAGTCACTCTAACCATCG 59.769 50.000 0.00 0.00 0.00 3.84
96 97 2.492088 CCACAGTCACTCTAACCATCGA 59.508 50.000 0.00 0.00 0.00 3.59
97 98 3.056821 CCACAGTCACTCTAACCATCGAA 60.057 47.826 0.00 0.00 0.00 3.71
98 99 3.921021 CACAGTCACTCTAACCATCGAAC 59.079 47.826 0.00 0.00 0.00 3.95
99 100 3.056749 ACAGTCACTCTAACCATCGAACC 60.057 47.826 0.00 0.00 0.00 3.62
100 101 3.056821 CAGTCACTCTAACCATCGAACCA 60.057 47.826 0.00 0.00 0.00 3.67
101 102 3.056749 AGTCACTCTAACCATCGAACCAC 60.057 47.826 0.00 0.00 0.00 4.16
102 103 2.894765 TCACTCTAACCATCGAACCACA 59.105 45.455 0.00 0.00 0.00 4.17
103 104 3.513912 TCACTCTAACCATCGAACCACAT 59.486 43.478 0.00 0.00 0.00 3.21
104 105 3.618594 CACTCTAACCATCGAACCACATG 59.381 47.826 0.00 0.00 0.00 3.21
105 106 3.260884 ACTCTAACCATCGAACCACATGT 59.739 43.478 0.00 0.00 0.00 3.21
106 107 4.253685 CTCTAACCATCGAACCACATGTT 58.746 43.478 0.00 0.00 40.81 2.71
107 108 4.000325 TCTAACCATCGAACCACATGTTG 59.000 43.478 0.00 0.00 37.29 3.33
123 124 4.073052 TGGTTCGCCATTCCACAC 57.927 55.556 0.00 0.00 43.56 3.82
124 125 1.454104 TGGTTCGCCATTCCACACT 59.546 52.632 0.00 0.00 43.56 3.55
125 126 0.179004 TGGTTCGCCATTCCACACTT 60.179 50.000 0.00 0.00 43.56 3.16
126 127 0.958822 GGTTCGCCATTCCACACTTT 59.041 50.000 0.00 0.00 37.19 2.66
127 128 1.339929 GGTTCGCCATTCCACACTTTT 59.660 47.619 0.00 0.00 37.19 2.27
128 129 2.607038 GGTTCGCCATTCCACACTTTTC 60.607 50.000 0.00 0.00 37.19 2.29
129 130 2.270352 TCGCCATTCCACACTTTTCT 57.730 45.000 0.00 0.00 0.00 2.52
130 131 3.410631 TCGCCATTCCACACTTTTCTA 57.589 42.857 0.00 0.00 0.00 2.10
131 132 3.334691 TCGCCATTCCACACTTTTCTAG 58.665 45.455 0.00 0.00 0.00 2.43
132 133 2.159517 CGCCATTCCACACTTTTCTAGC 60.160 50.000 0.00 0.00 0.00 3.42
133 134 2.819608 GCCATTCCACACTTTTCTAGCA 59.180 45.455 0.00 0.00 0.00 3.49
134 135 3.119708 GCCATTCCACACTTTTCTAGCAG 60.120 47.826 0.00 0.00 0.00 4.24
135 136 4.074970 CCATTCCACACTTTTCTAGCAGT 58.925 43.478 0.00 0.00 0.00 4.40
136 137 4.154918 CCATTCCACACTTTTCTAGCAGTC 59.845 45.833 0.00 0.00 0.00 3.51
137 138 3.402628 TCCACACTTTTCTAGCAGTCC 57.597 47.619 0.00 0.00 0.00 3.85
138 139 2.038557 TCCACACTTTTCTAGCAGTCCC 59.961 50.000 0.00 0.00 0.00 4.46
139 140 2.427506 CACACTTTTCTAGCAGTCCCC 58.572 52.381 0.00 0.00 0.00 4.81
140 141 1.351350 ACACTTTTCTAGCAGTCCCCC 59.649 52.381 0.00 0.00 0.00 5.40
141 142 1.630878 CACTTTTCTAGCAGTCCCCCT 59.369 52.381 0.00 0.00 0.00 4.79
142 143 2.040412 CACTTTTCTAGCAGTCCCCCTT 59.960 50.000 0.00 0.00 0.00 3.95
143 144 2.306219 ACTTTTCTAGCAGTCCCCCTTC 59.694 50.000 0.00 0.00 0.00 3.46
144 145 2.344093 TTTCTAGCAGTCCCCCTTCT 57.656 50.000 0.00 0.00 0.00 2.85
145 146 3.484953 TTTCTAGCAGTCCCCCTTCTA 57.515 47.619 0.00 0.00 0.00 2.10
146 147 3.708236 TTCTAGCAGTCCCCCTTCTAT 57.292 47.619 0.00 0.00 0.00 1.98
147 148 3.246416 TCTAGCAGTCCCCCTTCTATC 57.754 52.381 0.00 0.00 0.00 2.08
148 149 2.792370 TCTAGCAGTCCCCCTTCTATCT 59.208 50.000 0.00 0.00 0.00 1.98
149 150 3.988186 TCTAGCAGTCCCCCTTCTATCTA 59.012 47.826 0.00 0.00 0.00 1.98
150 151 3.933239 AGCAGTCCCCCTTCTATCTAT 57.067 47.619 0.00 0.00 0.00 1.98
151 152 5.796399 TCTAGCAGTCCCCCTTCTATCTATA 59.204 44.000 0.00 0.00 0.00 1.31
152 153 4.679331 AGCAGTCCCCCTTCTATCTATAC 58.321 47.826 0.00 0.00 0.00 1.47
153 154 4.108124 AGCAGTCCCCCTTCTATCTATACA 59.892 45.833 0.00 0.00 0.00 2.29
154 155 5.026790 GCAGTCCCCCTTCTATCTATACAT 58.973 45.833 0.00 0.00 0.00 2.29
155 156 6.010650 AGCAGTCCCCCTTCTATCTATACATA 60.011 42.308 0.00 0.00 0.00 2.29
156 157 6.097129 GCAGTCCCCCTTCTATCTATACATAC 59.903 46.154 0.00 0.00 0.00 2.39
157 158 7.182760 CAGTCCCCCTTCTATCTATACATACA 58.817 42.308 0.00 0.00 0.00 2.29
158 159 7.841729 CAGTCCCCCTTCTATCTATACATACAT 59.158 40.741 0.00 0.00 0.00 2.29
159 160 9.081508 AGTCCCCCTTCTATCTATACATACATA 57.918 37.037 0.00 0.00 0.00 2.29
160 161 9.884814 GTCCCCCTTCTATCTATACATACATAT 57.115 37.037 0.00 0.00 0.00 1.78
184 185 8.978564 ATACATGTCATAGATTCATCGTTCTC 57.021 34.615 0.00 0.00 0.00 2.87
185 186 5.917447 ACATGTCATAGATTCATCGTTCTCG 59.083 40.000 0.00 0.00 38.55 4.04
186 187 4.290969 TGTCATAGATTCATCGTTCTCGC 58.709 43.478 0.00 0.00 36.96 5.03
187 188 4.202010 TGTCATAGATTCATCGTTCTCGCA 60.202 41.667 0.00 0.00 36.96 5.10
188 189 4.740205 GTCATAGATTCATCGTTCTCGCAA 59.260 41.667 0.00 0.00 36.96 4.85
189 190 5.232202 GTCATAGATTCATCGTTCTCGCAAA 59.768 40.000 0.00 0.00 36.96 3.68
190 191 3.999229 AGATTCATCGTTCTCGCAAAC 57.001 42.857 0.00 0.00 36.96 2.93
191 192 3.589988 AGATTCATCGTTCTCGCAAACT 58.410 40.909 0.00 0.00 36.96 2.66
192 193 3.997021 AGATTCATCGTTCTCGCAAACTT 59.003 39.130 0.00 0.00 36.96 2.66
193 194 3.519908 TTCATCGTTCTCGCAAACTTG 57.480 42.857 0.00 0.00 36.96 3.16
194 195 2.749776 TCATCGTTCTCGCAAACTTGA 58.250 42.857 0.00 0.43 36.96 3.02
195 196 2.475111 TCATCGTTCTCGCAAACTTGAC 59.525 45.455 0.00 0.00 36.96 3.18
196 197 1.929230 TCGTTCTCGCAAACTTGACA 58.071 45.000 0.00 0.00 36.96 3.58
197 198 2.479837 TCGTTCTCGCAAACTTGACAT 58.520 42.857 0.00 0.00 36.96 3.06
198 199 2.869801 TCGTTCTCGCAAACTTGACATT 59.130 40.909 0.00 0.00 36.96 2.71
199 200 4.052608 TCGTTCTCGCAAACTTGACATTA 58.947 39.130 0.00 0.00 36.96 1.90
200 201 4.508492 TCGTTCTCGCAAACTTGACATTAA 59.492 37.500 0.00 0.00 36.96 1.40
201 202 4.607235 CGTTCTCGCAAACTTGACATTAAC 59.393 41.667 0.00 0.00 0.00 2.01
202 203 5.558273 CGTTCTCGCAAACTTGACATTAACT 60.558 40.000 0.00 0.00 0.00 2.24
203 204 6.199393 GTTCTCGCAAACTTGACATTAACTT 58.801 36.000 0.00 0.00 0.00 2.66
204 205 7.349711 GTTCTCGCAAACTTGACATTAACTTA 58.650 34.615 0.00 0.00 0.00 2.24
205 206 7.117241 TCTCGCAAACTTGACATTAACTTAG 57.883 36.000 0.00 0.00 0.00 2.18
206 207 6.147164 TCTCGCAAACTTGACATTAACTTAGG 59.853 38.462 0.00 0.00 0.00 2.69
207 208 5.992829 TCGCAAACTTGACATTAACTTAGGA 59.007 36.000 0.00 0.00 0.00 2.94
208 209 6.073440 TCGCAAACTTGACATTAACTTAGGAC 60.073 38.462 0.00 0.00 0.00 3.85
209 210 6.293190 CGCAAACTTGACATTAACTTAGGACA 60.293 38.462 0.00 0.00 0.00 4.02
210 211 7.422399 GCAAACTTGACATTAACTTAGGACAA 58.578 34.615 0.00 0.00 0.00 3.18
211 212 8.082242 GCAAACTTGACATTAACTTAGGACAAT 58.918 33.333 0.00 0.00 0.00 2.71
212 213 9.965824 CAAACTTGACATTAACTTAGGACAATT 57.034 29.630 0.00 0.00 0.00 2.32
760 766 1.840635 GCTGGGTGGGAGAGAAATACT 59.159 52.381 0.00 0.00 0.00 2.12
761 767 2.158885 GCTGGGTGGGAGAGAAATACTC 60.159 54.545 0.00 0.00 45.22 2.59
785 797 7.844009 TCCTAATAATTAACTTCGGTCACACT 58.156 34.615 0.00 0.00 0.00 3.55
786 798 8.316214 TCCTAATAATTAACTTCGGTCACACTT 58.684 33.333 0.00 0.00 0.00 3.16
812 833 1.280142 CGCACGTATCTCTCTCCCG 59.720 63.158 0.00 0.00 0.00 5.14
814 835 1.725557 GCACGTATCTCTCTCCCGCA 61.726 60.000 0.00 0.00 0.00 5.69
815 836 0.309302 CACGTATCTCTCTCCCGCAG 59.691 60.000 0.00 0.00 0.00 5.18
817 838 1.140452 ACGTATCTCTCTCCCGCAGTA 59.860 52.381 0.00 0.00 0.00 2.74
818 839 1.801771 CGTATCTCTCTCCCGCAGTAG 59.198 57.143 0.00 0.00 0.00 2.57
819 840 2.156098 GTATCTCTCTCCCGCAGTAGG 58.844 57.143 0.00 0.00 0.00 3.18
820 841 0.825840 ATCTCTCTCCCGCAGTAGGC 60.826 60.000 0.00 0.00 39.90 3.93
965 1020 2.683933 TCCCCCTCGCCTCTCAAC 60.684 66.667 0.00 0.00 0.00 3.18
1531 1652 6.812160 CCGTACTCCATTATTTGCTAGTATCC 59.188 42.308 0.00 0.00 30.00 2.59
1553 1676 6.209774 TCCTCTTTCCTATTCTATTCCCACA 58.790 40.000 0.00 0.00 0.00 4.17
1558 1681 5.157770 TCCTATTCTATTCCCACAGAGGT 57.842 43.478 0.00 0.00 34.66 3.85
1598 1721 1.343789 CCATTGATTGGTGTTGTGCCA 59.656 47.619 0.00 0.00 40.99 4.92
1821 1949 2.801342 GCTAGCATCTCTCCCAGTTTCG 60.801 54.545 10.63 0.00 0.00 3.46
1871 2000 3.514417 GGCTCGGCCCAAATCTTC 58.486 61.111 0.00 0.00 44.06 2.87
1929 2086 2.672874 TCTTCATCGAATTGAACTGCCG 59.327 45.455 0.00 0.00 32.39 5.69
1990 2147 2.825982 CCGTGTCACCAACCCTGA 59.174 61.111 0.00 0.00 0.00 3.86
1992 2149 1.164041 CCGTGTCACCAACCCTGAAC 61.164 60.000 0.00 0.00 0.00 3.18
2003 2160 3.435026 CCAACCCTGAACCTTTTCTCTCA 60.435 47.826 0.00 0.00 32.36 3.27
2048 2208 1.002274 GAGGAGGAGAAGGAGGCCA 59.998 63.158 5.01 0.00 0.00 5.36
2173 2333 4.079850 CTGGAGTCGCTGCTGCCT 62.080 66.667 10.24 1.85 35.36 4.75
2261 2421 0.523757 GCGAGACTGAAGCGGAGTAC 60.524 60.000 0.00 0.00 0.00 2.73
2262 2422 0.803117 CGAGACTGAAGCGGAGTACA 59.197 55.000 0.00 0.00 0.00 2.90
2263 2423 1.466024 CGAGACTGAAGCGGAGTACAC 60.466 57.143 0.00 0.00 0.00 2.90
2264 2424 0.522180 AGACTGAAGCGGAGTACACG 59.478 55.000 5.71 5.71 0.00 4.49
2267 2427 0.456312 CTGAAGCGGAGTACACGACC 60.456 60.000 13.23 1.96 0.00 4.79
2326 2487 9.930693 TGTGTATGTATGTGTAAAATGTACTCA 57.069 29.630 0.00 0.00 0.00 3.41
2386 2551 3.823873 CTCCAGATGCCTAGTGGTAGTAG 59.176 52.174 0.00 0.00 35.27 2.57
2387 2552 3.204606 TCCAGATGCCTAGTGGTAGTAGT 59.795 47.826 0.00 0.00 35.27 2.73
2388 2553 3.319405 CCAGATGCCTAGTGGTAGTAGTG 59.681 52.174 0.00 0.00 35.27 2.74
2391 2556 4.167502 AGATGCCTAGTGGTAGTAGTGGTA 59.832 45.833 0.00 0.00 35.27 3.25
2402 2567 5.882557 TGGTAGTAGTGGTACTAGTAACTGC 59.117 44.000 18.57 15.11 42.21 4.40
2421 2586 0.036388 CGCAAGTATGGGTCACTGGT 60.036 55.000 0.00 0.00 34.94 4.00
2452 2617 6.631016 AGTGTGTAACGTGACAGATGATATT 58.369 36.000 5.81 0.00 42.39 1.28
2453 2618 7.768240 AGTGTGTAACGTGACAGATGATATTA 58.232 34.615 5.81 0.00 42.39 0.98
2454 2619 7.701078 AGTGTGTAACGTGACAGATGATATTAC 59.299 37.037 5.81 0.00 42.39 1.89
2455 2620 6.689669 TGTGTAACGTGACAGATGATATTACG 59.310 38.462 5.81 0.00 42.39 3.18
2456 2621 5.684184 TGTAACGTGACAGATGATATTACGC 59.316 40.000 0.10 0.00 33.80 4.42
2457 2622 4.569761 ACGTGACAGATGATATTACGCT 57.430 40.909 0.00 0.00 33.80 5.07
2472 2637 0.250338 ACGCTCTTTTGACTGGTCCC 60.250 55.000 0.00 0.00 0.00 4.46
2479 2644 0.685097 TTTGACTGGTCCCCGAGAAG 59.315 55.000 0.00 0.00 0.00 2.85
2480 2645 0.471211 TTGACTGGTCCCCGAGAAGT 60.471 55.000 0.00 0.00 0.00 3.01
2556 2722 1.202770 AGCCCTCCCACATTATTACGC 60.203 52.381 0.00 0.00 0.00 4.42
2586 2752 3.002144 GGCTCAATCTCTTTTGATCGAGC 59.998 47.826 8.43 8.43 35.20 5.03
2627 2809 2.244486 TTGATCTCCAGTCAGAGGCT 57.756 50.000 0.00 0.00 34.46 4.58
2628 2810 1.482954 TGATCTCCAGTCAGAGGCTG 58.517 55.000 0.00 0.00 34.46 4.85
2654 2840 3.706373 ATCTGAACAGCGGCCGGT 61.706 61.111 26.97 26.97 0.00 5.28
2713 2900 1.588404 CTATCATCGAACACGTGCACC 59.412 52.381 17.22 3.80 0.00 5.01
2779 2969 1.377856 GGTTTCCTCTGCCTGCCTC 60.378 63.158 0.00 0.00 0.00 4.70
2780 2970 1.682257 GTTTCCTCTGCCTGCCTCT 59.318 57.895 0.00 0.00 0.00 3.69
2781 2971 0.676151 GTTTCCTCTGCCTGCCTCTG 60.676 60.000 0.00 0.00 0.00 3.35
2782 2972 2.475371 TTTCCTCTGCCTGCCTCTGC 62.475 60.000 0.00 0.00 38.26 4.26
2783 2973 4.486503 CCTCTGCCTGCCTCTGCC 62.487 72.222 0.00 0.00 36.33 4.85
2784 2974 3.400928 CTCTGCCTGCCTCTGCCT 61.401 66.667 0.00 0.00 36.33 4.75
2812 3005 3.214253 CTGATCAGCTCGGCTCCA 58.786 61.111 10.38 0.00 36.40 3.86
2848 3042 0.804989 GGATTCGGCAGTGTTTCAGG 59.195 55.000 0.00 0.00 0.00 3.86
2910 3105 2.971452 GGACTGACCCGACCTGAC 59.029 66.667 0.00 0.00 0.00 3.51
2911 3106 1.606889 GGACTGACCCGACCTGACT 60.607 63.158 0.00 0.00 0.00 3.41
2991 3194 5.010708 TGGTATCTGTATCTGCCTATCCA 57.989 43.478 0.00 0.00 0.00 3.41
3055 3263 1.202359 GCCTAGCTTCCGAGACAAGAG 60.202 57.143 0.00 0.00 0.00 2.85
3096 3304 1.075536 TGCATAGATAGCTCCCGGAGA 59.924 52.381 19.33 0.00 0.00 3.71
3113 3321 1.514873 GAGCAAAATTCCTGGCGCG 60.515 57.895 0.00 0.00 0.00 6.86
3116 3324 4.114997 AAAATTCCTGGCGCGGCG 62.115 61.111 28.22 19.62 0.00 6.46
3129 3337 1.324718 CGCGGCGTATGATACTGTAC 58.675 55.000 15.36 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.787532 CTGAATTTATTTTAGAATTTCTGGCGA 57.212 29.630 9.22 0.00 0.00 5.54
3 4 9.573133 ACTGAATTTATTTTAGAATTTCTGGCG 57.427 29.630 9.22 0.00 0.00 5.69
19 20 9.831737 GATGCTCGCATTTATTACTGAATTTAT 57.168 29.630 5.79 0.00 36.70 1.40
20 21 8.835439 TGATGCTCGCATTTATTACTGAATTTA 58.165 29.630 5.79 0.00 36.70 1.40
21 22 7.706159 TGATGCTCGCATTTATTACTGAATTT 58.294 30.769 5.79 0.00 36.70 1.82
22 23 7.263100 TGATGCTCGCATTTATTACTGAATT 57.737 32.000 5.79 0.00 36.70 2.17
23 24 6.072838 CCTGATGCTCGCATTTATTACTGAAT 60.073 38.462 5.79 0.00 36.70 2.57
24 25 5.237127 CCTGATGCTCGCATTTATTACTGAA 59.763 40.000 5.79 0.00 36.70 3.02
25 26 4.751600 CCTGATGCTCGCATTTATTACTGA 59.248 41.667 5.79 0.00 36.70 3.41
26 27 4.751600 TCCTGATGCTCGCATTTATTACTG 59.248 41.667 5.79 0.00 36.70 2.74
27 28 4.960938 TCCTGATGCTCGCATTTATTACT 58.039 39.130 5.79 0.00 36.70 2.24
28 29 5.869753 ATCCTGATGCTCGCATTTATTAC 57.130 39.130 5.79 0.00 36.70 1.89
29 30 6.882610 AAATCCTGATGCTCGCATTTATTA 57.117 33.333 5.79 0.00 36.70 0.98
30 31 5.779529 AAATCCTGATGCTCGCATTTATT 57.220 34.783 5.79 1.98 36.70 1.40
31 32 6.882610 TTAAATCCTGATGCTCGCATTTAT 57.117 33.333 5.79 0.00 36.70 1.40
32 33 6.459573 GGTTTAAATCCTGATGCTCGCATTTA 60.460 38.462 5.79 0.00 36.70 1.40
33 34 5.343249 GTTTAAATCCTGATGCTCGCATTT 58.657 37.500 5.79 0.00 36.70 2.32
34 35 4.202050 GGTTTAAATCCTGATGCTCGCATT 60.202 41.667 5.79 0.00 36.70 3.56
35 36 3.316308 GGTTTAAATCCTGATGCTCGCAT 59.684 43.478 3.70 3.70 39.69 4.73
36 37 2.682856 GGTTTAAATCCTGATGCTCGCA 59.317 45.455 0.00 0.00 0.00 5.10
37 38 2.033424 GGGTTTAAATCCTGATGCTCGC 59.967 50.000 10.45 0.00 0.00 5.03
38 39 3.545703 AGGGTTTAAATCCTGATGCTCG 58.454 45.455 19.53 0.00 38.36 5.03
57 58 3.479203 TATCCGCAGCCCACCAGG 61.479 66.667 0.00 0.00 39.47 4.45
58 59 2.203070 GTATCCGCAGCCCACCAG 60.203 66.667 0.00 0.00 0.00 4.00
59 60 3.792736 GGTATCCGCAGCCCACCA 61.793 66.667 0.00 0.00 0.00 4.17
60 61 3.792736 TGGTATCCGCAGCCCACC 61.793 66.667 0.00 0.00 0.00 4.61
61 62 2.513897 GTGGTATCCGCAGCCCAC 60.514 66.667 2.40 2.40 40.47 4.61
62 63 3.006133 TGTGGTATCCGCAGCCCA 61.006 61.111 0.00 0.00 39.28 5.36
67 68 0.530744 GAGTGACTGTGGTATCCGCA 59.469 55.000 0.00 2.10 42.15 5.69
68 69 0.818296 AGAGTGACTGTGGTATCCGC 59.182 55.000 0.00 0.00 34.12 5.54
69 70 3.181489 GGTTAGAGTGACTGTGGTATCCG 60.181 52.174 0.00 0.00 0.00 4.18
70 71 3.767673 TGGTTAGAGTGACTGTGGTATCC 59.232 47.826 0.00 0.00 0.00 2.59
71 72 5.593010 GATGGTTAGAGTGACTGTGGTATC 58.407 45.833 0.00 0.00 0.00 2.24
72 73 4.098044 CGATGGTTAGAGTGACTGTGGTAT 59.902 45.833 0.00 0.00 0.00 2.73
73 74 3.442625 CGATGGTTAGAGTGACTGTGGTA 59.557 47.826 0.00 0.00 0.00 3.25
74 75 2.231478 CGATGGTTAGAGTGACTGTGGT 59.769 50.000 0.00 0.00 0.00 4.16
75 76 2.492088 TCGATGGTTAGAGTGACTGTGG 59.508 50.000 0.00 0.00 0.00 4.17
76 77 3.850122 TCGATGGTTAGAGTGACTGTG 57.150 47.619 0.00 0.00 0.00 3.66
77 78 3.056749 GGTTCGATGGTTAGAGTGACTGT 60.057 47.826 0.00 0.00 0.00 3.55
78 79 3.056821 TGGTTCGATGGTTAGAGTGACTG 60.057 47.826 0.00 0.00 0.00 3.51
79 80 3.056749 GTGGTTCGATGGTTAGAGTGACT 60.057 47.826 0.00 0.00 0.00 3.41
80 81 3.251571 GTGGTTCGATGGTTAGAGTGAC 58.748 50.000 0.00 0.00 0.00 3.67
81 82 2.894765 TGTGGTTCGATGGTTAGAGTGA 59.105 45.455 0.00 0.00 0.00 3.41
82 83 3.313012 TGTGGTTCGATGGTTAGAGTG 57.687 47.619 0.00 0.00 0.00 3.51
83 84 3.260884 ACATGTGGTTCGATGGTTAGAGT 59.739 43.478 0.00 0.00 0.00 3.24
84 85 3.861840 ACATGTGGTTCGATGGTTAGAG 58.138 45.455 0.00 0.00 0.00 2.43
85 86 3.973206 ACATGTGGTTCGATGGTTAGA 57.027 42.857 0.00 0.00 0.00 2.10
86 87 3.126858 CCAACATGTGGTTCGATGGTTAG 59.873 47.826 0.00 0.00 43.20 2.34
87 88 3.078097 CCAACATGTGGTTCGATGGTTA 58.922 45.455 0.00 0.00 43.20 2.85
88 89 1.885887 CCAACATGTGGTTCGATGGTT 59.114 47.619 0.00 0.00 43.20 3.67
89 90 1.533625 CCAACATGTGGTTCGATGGT 58.466 50.000 0.00 0.00 43.20 3.55
107 108 0.958822 AAAGTGTGGAATGGCGAACC 59.041 50.000 0.00 0.00 0.00 3.62
108 109 2.293399 AGAAAAGTGTGGAATGGCGAAC 59.707 45.455 0.00 0.00 0.00 3.95
109 110 2.582052 AGAAAAGTGTGGAATGGCGAA 58.418 42.857 0.00 0.00 0.00 4.70
110 111 2.270352 AGAAAAGTGTGGAATGGCGA 57.730 45.000 0.00 0.00 0.00 5.54
111 112 2.159517 GCTAGAAAAGTGTGGAATGGCG 60.160 50.000 0.00 0.00 0.00 5.69
112 113 2.819608 TGCTAGAAAAGTGTGGAATGGC 59.180 45.455 0.00 0.00 0.00 4.40
113 114 4.074970 ACTGCTAGAAAAGTGTGGAATGG 58.925 43.478 0.00 0.00 0.00 3.16
114 115 4.154918 GGACTGCTAGAAAAGTGTGGAATG 59.845 45.833 0.00 0.00 0.00 2.67
115 116 4.327680 GGACTGCTAGAAAAGTGTGGAAT 58.672 43.478 0.00 0.00 0.00 3.01
116 117 3.496160 GGGACTGCTAGAAAAGTGTGGAA 60.496 47.826 0.00 0.00 0.00 3.53
117 118 2.038557 GGGACTGCTAGAAAAGTGTGGA 59.961 50.000 0.00 0.00 0.00 4.02
118 119 2.427506 GGGACTGCTAGAAAAGTGTGG 58.572 52.381 0.00 0.00 0.00 4.17
119 120 2.427506 GGGGACTGCTAGAAAAGTGTG 58.572 52.381 0.00 0.00 0.00 3.82
120 121 1.351350 GGGGGACTGCTAGAAAAGTGT 59.649 52.381 0.00 0.00 0.00 3.55
121 122 1.630878 AGGGGGACTGCTAGAAAAGTG 59.369 52.381 0.00 0.00 0.00 3.16
122 123 2.046280 AGGGGGACTGCTAGAAAAGT 57.954 50.000 0.00 0.00 0.00 2.66
123 124 2.573915 AGAAGGGGGACTGCTAGAAAAG 59.426 50.000 0.00 0.00 31.31 2.27
124 125 2.632537 AGAAGGGGGACTGCTAGAAAA 58.367 47.619 0.00 0.00 31.31 2.29
125 126 2.344093 AGAAGGGGGACTGCTAGAAA 57.656 50.000 0.00 0.00 31.31 2.52
126 127 3.207777 AGATAGAAGGGGGACTGCTAGAA 59.792 47.826 0.00 0.00 40.74 2.10
127 128 2.792370 AGATAGAAGGGGGACTGCTAGA 59.208 50.000 0.00 0.00 40.74 2.43
128 129 3.252554 AGATAGAAGGGGGACTGCTAG 57.747 52.381 0.00 0.00 40.74 3.42
129 130 5.315109 TGTATAGATAGAAGGGGGACTGCTA 59.685 44.000 0.00 0.00 41.66 3.49
130 131 3.933239 ATAGATAGAAGGGGGACTGCT 57.067 47.619 0.00 0.00 39.04 4.24
131 132 4.417437 TGTATAGATAGAAGGGGGACTGC 58.583 47.826 0.00 0.00 0.00 4.40
132 133 7.182760 TGTATGTATAGATAGAAGGGGGACTG 58.817 42.308 0.00 0.00 0.00 3.51
133 134 7.358255 TGTATGTATAGATAGAAGGGGGACT 57.642 40.000 0.00 0.00 0.00 3.85
134 135 9.884814 ATATGTATGTATAGATAGAAGGGGGAC 57.115 37.037 0.00 0.00 0.00 4.46
159 160 7.752686 CGAGAACGATGAATCTATGACATGTAT 59.247 37.037 0.00 0.00 42.66 2.29
160 161 7.078228 CGAGAACGATGAATCTATGACATGTA 58.922 38.462 0.00 0.00 42.66 2.29
161 162 5.917447 CGAGAACGATGAATCTATGACATGT 59.083 40.000 0.00 0.00 42.66 3.21
162 163 5.164109 GCGAGAACGATGAATCTATGACATG 60.164 44.000 0.00 0.00 42.66 3.21
163 164 4.920340 GCGAGAACGATGAATCTATGACAT 59.080 41.667 0.00 0.00 42.66 3.06
164 165 4.202010 TGCGAGAACGATGAATCTATGACA 60.202 41.667 0.00 0.00 42.66 3.58
165 166 4.290969 TGCGAGAACGATGAATCTATGAC 58.709 43.478 0.00 0.00 42.66 3.06
166 167 4.568152 TGCGAGAACGATGAATCTATGA 57.432 40.909 0.00 0.00 42.66 2.15
167 168 5.233050 AGTTTGCGAGAACGATGAATCTATG 59.767 40.000 0.00 0.00 42.66 2.23
168 169 5.352284 AGTTTGCGAGAACGATGAATCTAT 58.648 37.500 0.00 0.00 42.66 1.98
169 170 4.744570 AGTTTGCGAGAACGATGAATCTA 58.255 39.130 0.00 0.00 42.66 1.98
170 171 3.589988 AGTTTGCGAGAACGATGAATCT 58.410 40.909 0.00 0.00 42.66 2.40
171 172 3.999229 AGTTTGCGAGAACGATGAATC 57.001 42.857 0.00 0.00 42.66 2.52
172 173 3.745975 TCAAGTTTGCGAGAACGATGAAT 59.254 39.130 0.00 0.00 42.66 2.57
173 174 3.059868 GTCAAGTTTGCGAGAACGATGAA 60.060 43.478 11.40 0.00 42.66 2.57
174 175 2.475111 GTCAAGTTTGCGAGAACGATGA 59.525 45.455 0.00 0.00 42.66 2.92
175 176 2.220824 TGTCAAGTTTGCGAGAACGATG 59.779 45.455 0.00 0.00 42.66 3.84
176 177 2.479837 TGTCAAGTTTGCGAGAACGAT 58.520 42.857 0.00 0.00 42.66 3.73
177 178 1.929230 TGTCAAGTTTGCGAGAACGA 58.071 45.000 0.00 0.00 42.66 3.85
178 179 2.949714 ATGTCAAGTTTGCGAGAACG 57.050 45.000 0.00 0.00 42.93 3.95
179 180 5.748592 AGTTAATGTCAAGTTTGCGAGAAC 58.251 37.500 0.00 0.00 0.00 3.01
180 181 6.371809 AAGTTAATGTCAAGTTTGCGAGAA 57.628 33.333 0.00 0.00 0.00 2.87
181 182 6.147164 CCTAAGTTAATGTCAAGTTTGCGAGA 59.853 38.462 0.00 0.00 0.00 4.04
182 183 6.147164 TCCTAAGTTAATGTCAAGTTTGCGAG 59.853 38.462 0.00 0.00 0.00 5.03
183 184 5.992829 TCCTAAGTTAATGTCAAGTTTGCGA 59.007 36.000 0.00 0.00 0.00 5.10
184 185 6.077838 GTCCTAAGTTAATGTCAAGTTTGCG 58.922 40.000 0.00 0.00 0.00 4.85
185 186 6.966021 TGTCCTAAGTTAATGTCAAGTTTGC 58.034 36.000 0.00 0.00 0.00 3.68
186 187 9.965824 AATTGTCCTAAGTTAATGTCAAGTTTG 57.034 29.630 0.00 0.00 0.00 2.93
541 542 0.471211 AGACAAACCGGGGAGAGTGA 60.471 55.000 6.32 0.00 0.00 3.41
542 543 0.037232 GAGACAAACCGGGGAGAGTG 60.037 60.000 6.32 0.00 0.00 3.51
760 766 7.844009 AGTGTGACCGAAGTTAATTATTAGGA 58.156 34.615 5.32 0.00 0.00 2.94
761 767 8.488651 AAGTGTGACCGAAGTTAATTATTAGG 57.511 34.615 0.00 0.00 0.00 2.69
763 769 9.090692 GCTAAGTGTGACCGAAGTTAATTATTA 57.909 33.333 0.00 0.00 0.00 0.98
785 797 3.778360 GATACGTGCGGCCGGCTAA 62.778 63.158 29.38 9.48 44.05 3.09
786 798 4.274700 GATACGTGCGGCCGGCTA 62.275 66.667 29.38 10.17 44.05 3.93
812 833 1.814169 GTACTTGGCCGCCTACTGC 60.814 63.158 11.61 0.00 0.00 4.40
814 835 1.411612 GTATGTACTTGGCCGCCTACT 59.588 52.381 11.61 0.00 0.00 2.57
815 836 1.539712 GGTATGTACTTGGCCGCCTAC 60.540 57.143 11.61 5.67 0.00 3.18
817 838 1.525442 GGTATGTACTTGGCCGCCT 59.475 57.895 11.61 0.00 0.00 5.52
818 839 1.885850 CGGTATGTACTTGGCCGCC 60.886 63.158 1.04 1.04 35.90 6.13
819 840 1.153509 ACGGTATGTACTTGGCCGC 60.154 57.895 19.20 0.00 45.53 6.53
820 841 1.426041 GCACGGTATGTACTTGGCCG 61.426 60.000 18.28 18.28 46.83 6.13
821 842 0.107848 AGCACGGTATGTACTTGGCC 60.108 55.000 0.00 0.00 0.00 5.36
822 843 2.199236 GTAGCACGGTATGTACTTGGC 58.801 52.381 0.00 0.00 0.00 4.52
825 846 3.160777 GCTGTAGCACGGTATGTACTT 57.839 47.619 0.00 0.00 41.59 2.24
878 932 3.437741 CCGTTTTATAACAAGGCGGTTCT 59.562 43.478 0.87 0.00 33.75 3.01
965 1020 0.591236 CGTTTGTTCCCTTGTGCGTG 60.591 55.000 0.00 0.00 0.00 5.34
1494 1615 2.015587 GGAGTACGGTGACACCTAGAG 58.984 57.143 22.14 9.21 35.66 2.43
1531 1652 7.366847 TCTGTGGGAATAGAATAGGAAAGAG 57.633 40.000 0.00 0.00 0.00 2.85
1553 1676 3.978610 AGATCCCGTTAGTTACACCTCT 58.021 45.455 0.00 0.00 0.00 3.69
1558 1681 4.996788 GGAGAAGATCCCGTTAGTTACA 57.003 45.455 0.00 0.00 43.01 2.41
1598 1721 1.107114 ACCTCTGCTTGATCGATCGT 58.893 50.000 20.03 6.70 0.00 3.73
1801 1927 2.223923 CCGAAACTGGGAGAGATGCTAG 60.224 54.545 0.00 0.00 0.00 3.42
1803 1929 0.539051 CCGAAACTGGGAGAGATGCT 59.461 55.000 0.00 0.00 0.00 3.79
1821 1949 1.466360 GCATGTGCGAGTGAACATTCC 60.466 52.381 0.00 0.00 41.94 3.01
1871 2000 2.158959 GCGACCGAACGGATCACAG 61.159 63.158 20.14 5.40 38.96 3.66
1913 2070 1.369625 GACCGGCAGTTCAATTCGAT 58.630 50.000 0.00 0.00 0.00 3.59
1929 2086 1.226717 GACAGCGATGACGAGGACC 60.227 63.158 8.12 0.00 42.66 4.46
1990 2147 7.006509 TGATCTGGATTTTGAGAGAAAAGGTT 58.993 34.615 0.00 0.00 0.00 3.50
1992 2149 7.481642 CATGATCTGGATTTTGAGAGAAAAGG 58.518 38.462 0.00 0.00 0.00 3.11
2003 2160 1.679680 CTGGCGCATGATCTGGATTTT 59.320 47.619 10.83 0.00 0.00 1.82
2131 2291 4.108437 TCGTCGTCGTCGTCGTCG 62.108 66.667 20.39 20.39 45.27 5.12
2132 2292 2.566765 GTCGTCGTCGTCGTCGTC 60.567 66.667 18.44 11.28 45.27 4.20
2133 2293 3.032609 AGTCGTCGTCGTCGTCGT 61.033 61.111 18.44 1.12 45.27 4.34
2261 2421 2.579787 GTCTGATCCGCGGTCGTG 60.580 66.667 27.15 17.01 0.00 4.35
2262 2422 4.175489 CGTCTGATCCGCGGTCGT 62.175 66.667 27.15 12.83 31.22 4.34
2386 2551 2.642139 TGCGCAGTTACTAGTACCAC 57.358 50.000 5.66 0.00 0.00 4.16
2387 2552 2.559668 ACTTGCGCAGTTACTAGTACCA 59.440 45.455 11.31 0.00 27.32 3.25
2388 2553 3.227810 ACTTGCGCAGTTACTAGTACC 57.772 47.619 11.31 0.00 27.32 3.34
2391 2556 3.430374 CCCATACTTGCGCAGTTACTAGT 60.430 47.826 11.31 12.98 36.88 2.57
2402 2567 0.036388 ACCAGTGACCCATACTTGCG 60.036 55.000 0.00 0.00 0.00 4.85
2421 2586 5.868258 TCTGTCACGTTACACACTTTTACAA 59.132 36.000 0.00 0.00 0.00 2.41
2452 2617 1.001633 GGGACCAGTCAAAAGAGCGTA 59.998 52.381 0.00 0.00 0.00 4.42
2453 2618 0.250338 GGGACCAGTCAAAAGAGCGT 60.250 55.000 0.00 0.00 0.00 5.07
2454 2619 2.544726 GGGACCAGTCAAAAGAGCG 58.455 57.895 0.00 0.00 0.00 5.03
2472 2637 2.093783 GCGTGGTCATTTTACTTCTCGG 59.906 50.000 0.00 0.00 0.00 4.63
2479 2644 3.733024 TTGATCGCGTGGTCATTTTAC 57.267 42.857 13.59 0.00 0.00 2.01
2480 2645 3.749088 AGTTTGATCGCGTGGTCATTTTA 59.251 39.130 13.59 0.00 0.00 1.52
2538 2703 2.631160 TGCGTAATAATGTGGGAGGG 57.369 50.000 0.00 0.00 0.00 4.30
2556 2722 1.047002 AGAGATTGAGCCTCCCGATG 58.953 55.000 0.00 0.00 0.00 3.84
2586 2752 1.067669 TGAGCATCCCGATCTTTCTCG 59.932 52.381 0.00 0.00 38.37 4.04
2627 2809 0.321564 CTGTTCAGATGCCCGAACCA 60.322 55.000 0.00 0.00 40.65 3.67
2628 2810 1.648467 GCTGTTCAGATGCCCGAACC 61.648 60.000 3.84 0.00 40.65 3.62
2669 2856 0.744057 TGCTACACGTGCATGATGGG 60.744 55.000 17.22 1.63 35.31 4.00
2713 2900 5.122239 GGAGATCAGACTATCAGAGATCACG 59.878 48.000 0.00 0.00 38.00 4.35
2782 2972 0.979709 TGATCAGCCCAGAGACCAGG 60.980 60.000 0.00 0.00 0.00 4.45
2783 2973 0.464870 CTGATCAGCCCAGAGACCAG 59.535 60.000 10.38 0.00 33.65 4.00
2784 2974 2.600439 CTGATCAGCCCAGAGACCA 58.400 57.895 10.38 0.00 33.65 4.02
2812 3005 0.846427 TCCCTCCCTGGCTTTGTCAT 60.846 55.000 0.00 0.00 0.00 3.06
2848 3042 0.533531 TCTGTCCATCCATGCATCGC 60.534 55.000 0.00 0.00 0.00 4.58
2903 3098 0.605589 CAGGTCAGGTCAGTCAGGTC 59.394 60.000 0.00 0.00 0.00 3.85
2904 3099 0.188587 TCAGGTCAGGTCAGTCAGGT 59.811 55.000 0.00 0.00 0.00 4.00
2905 3100 1.480137 GATCAGGTCAGGTCAGTCAGG 59.520 57.143 0.00 0.00 0.00 3.86
2906 3101 1.133982 CGATCAGGTCAGGTCAGTCAG 59.866 57.143 0.00 0.00 0.00 3.51
2907 3102 1.177401 CGATCAGGTCAGGTCAGTCA 58.823 55.000 0.00 0.00 0.00 3.41
2908 3103 1.464734 TCGATCAGGTCAGGTCAGTC 58.535 55.000 0.00 0.00 0.00 3.51
2909 3104 1.546476 GTTCGATCAGGTCAGGTCAGT 59.454 52.381 0.00 0.00 0.00 3.41
2910 3105 1.821753 AGTTCGATCAGGTCAGGTCAG 59.178 52.381 0.00 0.00 0.00 3.51
2911 3106 1.924731 AGTTCGATCAGGTCAGGTCA 58.075 50.000 0.00 0.00 0.00 4.02
3055 3263 1.070776 GGCACTTTTCGTGTCGACTTC 60.071 52.381 17.92 9.02 45.57 3.01
3096 3304 2.568090 CGCGCCAGGAATTTTGCT 59.432 55.556 0.00 0.00 0.00 3.91
3113 3321 4.461405 CTGTACGTACAGTATCATACGCC 58.539 47.826 36.61 5.47 46.34 5.68


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

AutoCloner maintained by Alex Coulton.