Multiple sequence alignment - TraesCS7B01G358500

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 TraesCS7B01G358500 chr7B 100.000 1432 0 0 959 2390 620652807 620654238 0.000000e+00 2645
1 TraesCS7B01G358500 chr7B 100.000 490 0 0 1 490 620651849 620652338 0.000000e+00 905
2 TraesCS7B01G358500 chr7A 88.714 700 51 13 1694 2390 652728615 652727941 0.000000e+00 830
3 TraesCS7B01G358500 chr7A 91.190 420 22 7 981 1397 652729272 652728865 7.460000e-155 556
4 TraesCS7B01G358500 chr7A 84.266 286 16 11 1397 1673 652728832 652728567 3.940000e-63 252
5 TraesCS7B01G358500 chr7D 94.131 426 25 0 1965 2390 566558311 566557886 0.000000e+00 649
6 TraesCS7B01G358500 chr7D 90.888 428 26 7 978 1397 566559203 566558781 1.600000e-156 562
7 TraesCS7B01G358500 chr7D 91.120 259 10 7 243 488 566559482 566559224 2.940000e-89 339
8 TraesCS7B01G358500 chr7D 85.315 286 15 9 1394 1669 566558750 566558482 1.090000e-68 270
9 TraesCS7B01G358500 chr7D 87.248 149 15 3 1797 1943 566558445 566558299 1.470000e-37 167


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 TraesCS7B01G358500 chr7B 620651849 620654238 2389 False 1775.0 2645 100.000000 1 2390 2 chr7B.!!$F1 2389
1 TraesCS7B01G358500 chr7A 652727941 652729272 1331 True 546.0 830 88.056667 981 2390 3 chr7A.!!$R1 1409
2 TraesCS7B01G358500 chr7D 566557886 566559482 1596 True 397.4 649 89.740400 243 2390 5 chr7D.!!$R1 2147

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
187 188 0.035056 GCCACCCATGACTACTTGCT 60.035 55.0 0.0 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2023 2104 1.066143 CAAGGGCTAGTGATGACGGTT 60.066 52.381 0.0 0.0 0.0 4.44 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 3.474806 CGTGTTGGCGGATGAGTC 58.525 61.111 0.00 0.00 0.00 3.36
29 30 2.100631 CGTGTTGGCGGATGAGTCC 61.101 63.158 0.00 0.00 41.40 3.85
30 31 1.745489 GTGTTGGCGGATGAGTCCC 60.745 63.158 0.00 0.00 41.83 4.46
31 32 1.918293 TGTTGGCGGATGAGTCCCT 60.918 57.895 0.00 0.00 41.83 4.20
32 33 1.153349 GTTGGCGGATGAGTCCCTC 60.153 63.158 0.00 0.00 41.83 4.30
33 34 2.367202 TTGGCGGATGAGTCCCTCC 61.367 63.158 0.00 0.00 41.83 4.30
34 35 3.551407 GGCGGATGAGTCCCTCCC 61.551 72.222 3.84 0.00 41.83 4.30
35 36 2.764128 GCGGATGAGTCCCTCCCA 60.764 66.667 3.84 0.00 41.83 4.37
36 37 2.143419 GCGGATGAGTCCCTCCCAT 61.143 63.158 3.84 0.00 41.83 4.00
37 38 1.750930 CGGATGAGTCCCTCCCATG 59.249 63.158 3.84 0.00 41.83 3.66
38 39 1.050988 CGGATGAGTCCCTCCCATGT 61.051 60.000 3.84 0.00 41.83 3.21
39 40 0.471617 GGATGAGTCCCTCCCATGTG 59.528 60.000 0.00 0.00 38.69 3.21
40 41 0.471617 GATGAGTCCCTCCCATGTGG 59.528 60.000 0.00 0.00 0.00 4.17
52 53 4.424711 ATGTGGGCGGTTGGCGAT 62.425 61.111 0.00 0.00 44.92 4.58
59 60 4.473520 CGGTTGGCGATGGAGGCT 62.474 66.667 0.00 0.00 37.59 4.58
60 61 2.514824 GGTTGGCGATGGAGGCTC 60.515 66.667 5.78 5.78 37.59 4.70
61 62 2.586792 GTTGGCGATGGAGGCTCT 59.413 61.111 15.23 0.00 37.59 4.09
62 63 1.078143 GTTGGCGATGGAGGCTCTT 60.078 57.895 15.23 2.05 37.59 2.85
63 64 1.078214 TTGGCGATGGAGGCTCTTG 60.078 57.895 15.23 0.22 37.59 3.02
64 65 2.203126 GGCGATGGAGGCTCTTGG 60.203 66.667 15.23 5.16 0.00 3.61
65 66 2.203126 GCGATGGAGGCTCTTGGG 60.203 66.667 15.23 3.30 0.00 4.12
66 67 3.036429 GCGATGGAGGCTCTTGGGT 62.036 63.158 15.23 0.00 0.00 4.51
67 68 1.604378 CGATGGAGGCTCTTGGGTT 59.396 57.895 15.23 0.00 0.00 4.11
68 69 0.462759 CGATGGAGGCTCTTGGGTTC 60.463 60.000 15.23 0.00 0.00 3.62
69 70 0.620556 GATGGAGGCTCTTGGGTTCA 59.379 55.000 15.23 1.94 0.00 3.18
70 71 1.213926 GATGGAGGCTCTTGGGTTCAT 59.786 52.381 15.23 7.16 0.00 2.57
71 72 1.075601 TGGAGGCTCTTGGGTTCATT 58.924 50.000 15.23 0.00 0.00 2.57
72 73 1.428912 TGGAGGCTCTTGGGTTCATTT 59.571 47.619 15.23 0.00 0.00 2.32
73 74 1.821136 GGAGGCTCTTGGGTTCATTTG 59.179 52.381 15.23 0.00 0.00 2.32
74 75 1.821136 GAGGCTCTTGGGTTCATTTGG 59.179 52.381 7.40 0.00 0.00 3.28
75 76 1.428912 AGGCTCTTGGGTTCATTTGGA 59.571 47.619 0.00 0.00 0.00 3.53
76 77 2.158325 AGGCTCTTGGGTTCATTTGGAA 60.158 45.455 0.00 0.00 0.00 3.53
86 87 4.561735 GTTCATTTGGAACGACCTTCAA 57.438 40.909 0.00 0.00 45.82 2.69
87 88 4.927422 GTTCATTTGGAACGACCTTCAAA 58.073 39.130 0.00 0.00 45.82 2.69
88 89 5.344884 GTTCATTTGGAACGACCTTCAAAA 58.655 37.500 0.00 0.00 45.82 2.44
89 90 5.584253 TCATTTGGAACGACCTTCAAAAA 57.416 34.783 0.00 0.00 35.73 1.94
90 91 6.155475 TCATTTGGAACGACCTTCAAAAAT 57.845 33.333 0.00 0.00 35.73 1.82
91 92 6.578023 TCATTTGGAACGACCTTCAAAAATT 58.422 32.000 0.00 0.00 35.73 1.82
92 93 7.717568 TCATTTGGAACGACCTTCAAAAATTA 58.282 30.769 0.00 0.00 35.73 1.40
93 94 8.364142 TCATTTGGAACGACCTTCAAAAATTAT 58.636 29.630 0.00 0.00 35.73 1.28
94 95 7.938563 TTTGGAACGACCTTCAAAAATTATG 57.061 32.000 0.00 0.00 39.86 1.90
95 96 6.885952 TGGAACGACCTTCAAAAATTATGA 57.114 33.333 0.00 0.00 39.86 2.15
96 97 6.674066 TGGAACGACCTTCAAAAATTATGAC 58.326 36.000 0.00 0.00 39.86 3.06
97 98 6.263392 TGGAACGACCTTCAAAAATTATGACA 59.737 34.615 0.00 0.00 39.86 3.58
98 99 7.142680 GGAACGACCTTCAAAAATTATGACAA 58.857 34.615 0.00 0.00 35.41 3.18
99 100 7.812669 GGAACGACCTTCAAAAATTATGACAAT 59.187 33.333 0.00 0.00 35.41 2.71
100 101 9.191995 GAACGACCTTCAAAAATTATGACAATT 57.808 29.630 0.00 0.00 0.00 2.32
101 102 8.519492 ACGACCTTCAAAAATTATGACAATTG 57.481 30.769 3.24 3.24 0.00 2.32
102 103 8.356657 ACGACCTTCAAAAATTATGACAATTGA 58.643 29.630 13.59 0.00 0.00 2.57
103 104 8.853345 CGACCTTCAAAAATTATGACAATTGAG 58.147 33.333 13.59 0.00 0.00 3.02
104 105 9.696917 GACCTTCAAAAATTATGACAATTGAGT 57.303 29.630 13.59 0.00 0.00 3.41
105 106 9.480053 ACCTTCAAAAATTATGACAATTGAGTG 57.520 29.630 13.59 0.00 0.00 3.51
106 107 8.437742 CCTTCAAAAATTATGACAATTGAGTGC 58.562 33.333 13.59 0.00 0.00 4.40
107 108 7.565450 TCAAAAATTATGACAATTGAGTGCG 57.435 32.000 13.59 0.00 0.00 5.34
108 109 6.585702 TCAAAAATTATGACAATTGAGTGCGG 59.414 34.615 13.59 0.00 0.00 5.69
109 110 5.895636 AAATTATGACAATTGAGTGCGGA 57.104 34.783 13.59 0.00 0.00 5.54
110 111 5.895636 AATTATGACAATTGAGTGCGGAA 57.104 34.783 13.59 0.00 0.00 4.30
111 112 4.678509 TTATGACAATTGAGTGCGGAAC 57.321 40.909 13.59 0.00 0.00 3.62
126 127 1.661341 GGAACGCCGACTCTACTAGA 58.339 55.000 0.00 0.00 0.00 2.43
127 128 1.330213 GGAACGCCGACTCTACTAGAC 59.670 57.143 0.00 0.00 0.00 2.59
128 129 1.330213 GAACGCCGACTCTACTAGACC 59.670 57.143 0.00 0.00 0.00 3.85
129 130 0.251354 ACGCCGACTCTACTAGACCA 59.749 55.000 0.00 0.00 0.00 4.02
130 131 1.134159 ACGCCGACTCTACTAGACCAT 60.134 52.381 0.00 0.00 0.00 3.55
131 132 1.532007 CGCCGACTCTACTAGACCATC 59.468 57.143 0.00 0.00 0.00 3.51
132 133 2.807472 CGCCGACTCTACTAGACCATCT 60.807 54.545 0.00 0.00 0.00 2.90
133 134 3.215975 GCCGACTCTACTAGACCATCTT 58.784 50.000 0.00 0.00 0.00 2.40
134 135 3.633065 GCCGACTCTACTAGACCATCTTT 59.367 47.826 0.00 0.00 0.00 2.52
135 136 4.098196 GCCGACTCTACTAGACCATCTTTT 59.902 45.833 0.00 0.00 0.00 2.27
136 137 5.733937 GCCGACTCTACTAGACCATCTTTTC 60.734 48.000 0.00 0.00 0.00 2.29
137 138 5.503498 CGACTCTACTAGACCATCTTTTCG 58.497 45.833 0.00 0.00 0.00 3.46
138 139 5.293814 CGACTCTACTAGACCATCTTTTCGA 59.706 44.000 0.00 0.00 0.00 3.71
139 140 6.017770 CGACTCTACTAGACCATCTTTTCGAT 60.018 42.308 0.00 0.00 0.00 3.59
140 141 7.266922 ACTCTACTAGACCATCTTTTCGATC 57.733 40.000 0.00 0.00 0.00 3.69
141 142 6.829298 ACTCTACTAGACCATCTTTTCGATCA 59.171 38.462 0.00 0.00 0.00 2.92
142 143 7.339721 ACTCTACTAGACCATCTTTTCGATCAA 59.660 37.037 0.00 0.00 0.00 2.57
143 144 8.063200 TCTACTAGACCATCTTTTCGATCAAA 57.937 34.615 0.00 0.00 0.00 2.69
144 145 8.528643 TCTACTAGACCATCTTTTCGATCAAAA 58.471 33.333 0.00 0.00 32.77 2.44
145 146 9.319143 CTACTAGACCATCTTTTCGATCAAAAT 57.681 33.333 0.00 0.00 33.34 1.82
146 147 8.202745 ACTAGACCATCTTTTCGATCAAAATC 57.797 34.615 0.00 0.00 33.34 2.17
159 160 5.833400 GATCAAAATCGACACATAAACGC 57.167 39.130 0.00 0.00 0.00 4.84
160 161 3.727518 TCAAAATCGACACATAAACGCG 58.272 40.909 3.53 3.53 0.00 6.01
161 162 2.798834 AAATCGACACATAAACGCGG 57.201 45.000 12.47 0.00 0.00 6.46
162 163 0.372334 AATCGACACATAAACGCGGC 59.628 50.000 12.47 0.00 0.00 6.53
163 164 0.738063 ATCGACACATAAACGCGGCA 60.738 50.000 12.47 0.00 0.00 5.69
164 165 0.944788 TCGACACATAAACGCGGCAA 60.945 50.000 12.47 0.00 0.00 4.52
165 166 0.096281 CGACACATAAACGCGGCAAT 59.904 50.000 12.47 0.00 0.00 3.56
166 167 1.810197 GACACATAAACGCGGCAATC 58.190 50.000 12.47 0.00 0.00 2.67
167 168 0.096281 ACACATAAACGCGGCAATCG 59.904 50.000 12.47 0.00 42.76 3.34
168 169 0.588730 CACATAAACGCGGCAATCGG 60.589 55.000 12.47 0.00 39.69 4.18
169 170 1.654137 CATAAACGCGGCAATCGGC 60.654 57.895 12.47 0.00 43.74 5.54
178 179 2.440065 GCAATCGGCCACCCATGA 60.440 61.111 2.24 0.00 36.11 3.07
179 180 2.774799 GCAATCGGCCACCCATGAC 61.775 63.158 2.24 0.00 36.11 3.06
180 181 1.077501 CAATCGGCCACCCATGACT 60.078 57.895 2.24 0.00 0.00 3.41
181 182 0.180171 CAATCGGCCACCCATGACTA 59.820 55.000 2.24 0.00 0.00 2.59
182 183 0.180406 AATCGGCCACCCATGACTAC 59.820 55.000 2.24 0.00 0.00 2.73
183 184 0.691078 ATCGGCCACCCATGACTACT 60.691 55.000 2.24 0.00 0.00 2.57
184 185 0.907704 TCGGCCACCCATGACTACTT 60.908 55.000 2.24 0.00 0.00 2.24
185 186 0.744414 CGGCCACCCATGACTACTTG 60.744 60.000 2.24 0.00 0.00 3.16
186 187 1.032114 GGCCACCCATGACTACTTGC 61.032 60.000 0.00 0.00 0.00 4.01
187 188 0.035056 GCCACCCATGACTACTTGCT 60.035 55.000 0.00 0.00 0.00 3.91
188 189 2.014068 GCCACCCATGACTACTTGCTC 61.014 57.143 0.00 0.00 0.00 4.26
189 190 1.556911 CCACCCATGACTACTTGCTCT 59.443 52.381 0.00 0.00 0.00 4.09
190 191 2.625737 CACCCATGACTACTTGCTCTG 58.374 52.381 0.00 0.00 0.00 3.35
191 192 1.556911 ACCCATGACTACTTGCTCTGG 59.443 52.381 0.00 0.00 0.00 3.86
192 193 1.134280 CCCATGACTACTTGCTCTGGG 60.134 57.143 0.00 0.00 36.21 4.45
193 194 1.661341 CATGACTACTTGCTCTGGGC 58.339 55.000 0.00 0.00 42.22 5.36
194 195 0.543749 ATGACTACTTGCTCTGGGCC 59.456 55.000 0.00 0.00 40.92 5.80
195 196 0.545309 TGACTACTTGCTCTGGGCCT 60.545 55.000 4.53 0.00 40.92 5.19
196 197 0.615850 GACTACTTGCTCTGGGCCTT 59.384 55.000 4.53 0.00 40.92 4.35
197 198 0.615850 ACTACTTGCTCTGGGCCTTC 59.384 55.000 4.53 0.00 40.92 3.46
198 199 0.107459 CTACTTGCTCTGGGCCTTCC 60.107 60.000 4.53 0.00 40.92 3.46
209 210 3.197664 GGCCTTCCCCTGATTTGAG 57.802 57.895 0.00 0.00 0.00 3.02
210 211 0.396278 GGCCTTCCCCTGATTTGAGG 60.396 60.000 0.00 0.00 0.00 3.86
211 212 1.039785 GCCTTCCCCTGATTTGAGGC 61.040 60.000 0.00 0.00 0.00 4.70
212 213 0.749454 CCTTCCCCTGATTTGAGGCG 60.749 60.000 0.00 0.00 0.00 5.52
213 214 0.035056 CTTCCCCTGATTTGAGGCGT 60.035 55.000 0.00 0.00 0.00 5.68
214 215 0.322456 TTCCCCTGATTTGAGGCGTG 60.322 55.000 0.00 0.00 0.00 5.34
215 216 1.002134 CCCCTGATTTGAGGCGTGT 60.002 57.895 0.00 0.00 0.00 4.49
216 217 1.026718 CCCCTGATTTGAGGCGTGTC 61.027 60.000 0.00 0.00 0.00 3.67
217 218 0.321564 CCCTGATTTGAGGCGTGTCA 60.322 55.000 0.00 0.00 0.00 3.58
218 219 1.679944 CCCTGATTTGAGGCGTGTCAT 60.680 52.381 0.00 0.00 0.00 3.06
219 220 1.667724 CCTGATTTGAGGCGTGTCATC 59.332 52.381 0.00 0.00 0.00 2.92
220 221 1.325640 CTGATTTGAGGCGTGTCATCG 59.674 52.381 0.00 0.00 0.00 3.84
221 222 0.652592 GATTTGAGGCGTGTCATCGG 59.347 55.000 0.00 0.00 0.00 4.18
222 223 0.744414 ATTTGAGGCGTGTCATCGGG 60.744 55.000 0.00 0.00 0.00 5.14
223 224 1.822114 TTTGAGGCGTGTCATCGGGA 61.822 55.000 0.00 0.00 0.00 5.14
224 225 1.613317 TTGAGGCGTGTCATCGGGAT 61.613 55.000 0.00 0.00 0.00 3.85
225 226 0.753848 TGAGGCGTGTCATCGGGATA 60.754 55.000 0.00 0.00 0.00 2.59
226 227 0.318784 GAGGCGTGTCATCGGGATAC 60.319 60.000 0.00 0.00 34.56 2.24
240 241 0.964700 GGATACCTACCTACCACGGC 59.035 60.000 0.00 0.00 0.00 5.68
241 242 0.964700 GATACCTACCTACCACGGCC 59.035 60.000 0.00 0.00 0.00 6.13
354 362 2.433446 CCTTGTCAGCTGCCACCT 59.567 61.111 9.47 0.00 0.00 4.00
366 380 3.700350 CCACCTCCCTCCCTCCCT 61.700 72.222 0.00 0.00 0.00 4.20
434 448 3.506398 CACCAAACCCCAATATATCCCC 58.494 50.000 0.00 0.00 0.00 4.81
435 449 2.453212 ACCAAACCCCAATATATCCCCC 59.547 50.000 0.00 0.00 0.00 5.40
441 455 1.608425 CCAATATATCCCCCTCCCCC 58.392 60.000 0.00 0.00 0.00 5.40
457 471 4.548513 CCTCCCCCTCCCCTCTCG 62.549 77.778 0.00 0.00 0.00 4.04
463 477 1.764054 CCCTCCCCTCTCGCTCAAT 60.764 63.158 0.00 0.00 0.00 2.57
468 482 0.758685 CCCCTCTCGCTCAATCTCCT 60.759 60.000 0.00 0.00 0.00 3.69
975 989 4.051932 ATCCTCCCAACCTCGACC 57.948 61.111 0.00 0.00 0.00 4.79
976 990 1.080354 ATCCTCCCAACCTCGACCA 59.920 57.895 0.00 0.00 0.00 4.02
1128 1148 1.934956 CGACTCCAAGATCGTCGCG 60.935 63.158 0.00 0.00 43.02 5.87
1458 1531 2.233922 GCTGCCTACTGAAGACCAACTA 59.766 50.000 0.00 0.00 0.00 2.24
1459 1532 3.118592 GCTGCCTACTGAAGACCAACTAT 60.119 47.826 0.00 0.00 0.00 2.12
1460 1533 4.624125 GCTGCCTACTGAAGACCAACTATT 60.624 45.833 0.00 0.00 0.00 1.73
1471 1544 0.096976 CCAACTATTTGTGCCGCTCG 59.903 55.000 0.00 0.00 0.00 5.03
1519 1592 7.807977 TCTGTGTAGATGCTTCTTTCTTTTT 57.192 32.000 7.51 0.00 33.17 1.94
1520 1593 7.865707 TCTGTGTAGATGCTTCTTTCTTTTTC 58.134 34.615 7.51 0.00 33.17 2.29
1521 1594 6.970484 TGTGTAGATGCTTCTTTCTTTTTCC 58.030 36.000 7.51 0.00 33.17 3.13
1522 1595 6.772716 TGTGTAGATGCTTCTTTCTTTTTCCT 59.227 34.615 7.51 0.00 33.17 3.36
1523 1596 7.285401 TGTGTAGATGCTTCTTTCTTTTTCCTT 59.715 33.333 7.51 0.00 33.17 3.36
1524 1597 8.138074 GTGTAGATGCTTCTTTCTTTTTCCTTT 58.862 33.333 7.51 0.00 33.17 3.11
1633 1712 4.137543 ACAAAGGAATCTGTGGTCTTGAC 58.862 43.478 0.00 0.00 32.49 3.18
1638 1717 3.769844 GGAATCTGTGGTCTTGACCTCTA 59.230 47.826 19.11 9.68 0.00 2.43
1667 1746 8.969260 AATCTTCTGTAATGTATGCATCTTCA 57.031 30.769 0.19 1.70 33.50 3.02
1669 1748 8.599055 TCTTCTGTAATGTATGCATCTTCATC 57.401 34.615 0.19 0.00 33.50 2.92
1670 1749 8.427276 TCTTCTGTAATGTATGCATCTTCATCT 58.573 33.333 0.19 1.96 33.50 2.90
1671 1750 8.599055 TTCTGTAATGTATGCATCTTCATCTC 57.401 34.615 0.19 5.05 33.50 2.75
1672 1751 7.960262 TCTGTAATGTATGCATCTTCATCTCT 58.040 34.615 0.19 0.00 33.50 3.10
1673 1752 9.082313 TCTGTAATGTATGCATCTTCATCTCTA 57.918 33.333 0.19 0.00 33.50 2.43
1674 1753 9.702494 CTGTAATGTATGCATCTTCATCTCTAA 57.298 33.333 0.19 0.00 33.50 2.10
1710 1789 9.958180 TGTAATGTTTGGATCTTCATCTCTAAA 57.042 29.630 0.00 0.00 0.00 1.85
1750 1829 5.221481 TGGATCTTCATCTCTGATTGCTCTC 60.221 44.000 0.00 0.00 0.00 3.20
1781 1860 6.112927 TGCTCCATCAAGCATATGTATACA 57.887 37.500 8.27 8.27 47.00 2.29
1782 1861 5.934043 TGCTCCATCAAGCATATGTATACAC 59.066 40.000 7.96 0.00 47.00 2.90
1783 1862 5.934043 GCTCCATCAAGCATATGTATACACA 59.066 40.000 7.96 0.00 42.05 3.72
1784 1863 6.091849 GCTCCATCAAGCATATGTATACACAG 59.908 42.308 7.96 2.26 42.05 3.66
1785 1864 7.066307 TCCATCAAGCATATGTATACACAGT 57.934 36.000 7.96 0.00 38.30 3.55
1786 1865 7.508687 TCCATCAAGCATATGTATACACAGTT 58.491 34.615 7.96 0.00 38.30 3.16
1787 1866 7.992608 TCCATCAAGCATATGTATACACAGTTT 59.007 33.333 7.96 2.79 38.30 2.66
1788 1867 9.271828 CCATCAAGCATATGTATACACAGTTTA 57.728 33.333 7.96 0.00 38.30 2.01
1795 1874 9.103048 GCATATGTATACACAGTTTAAAATCGC 57.897 33.333 7.96 0.00 38.30 4.58
1815 1896 4.626172 TCGCGCATATGTACACAGTTAAAA 59.374 37.500 8.75 0.00 0.00 1.52
1907 1988 4.635223 GTGCTCCTCATATGATGCAACTA 58.365 43.478 21.58 5.12 32.10 2.24
1911 1992 6.171921 GCTCCTCATATGATGCAACTATTCT 58.828 40.000 5.72 0.00 0.00 2.40
1922 2003 7.935520 TGATGCAACTATTCTTTTGTTACACA 58.064 30.769 0.00 0.00 0.00 3.72
1923 2004 8.409371 TGATGCAACTATTCTTTTGTTACACAA 58.591 29.630 0.00 0.00 36.11 3.33
1925 2006 6.975772 TGCAACTATTCTTTTGTTACACAACC 59.024 34.615 0.00 0.00 37.90 3.77
1928 2009 7.833285 ACTATTCTTTTGTTACACAACCCAT 57.167 32.000 0.00 0.00 37.90 4.00
1929 2010 7.882179 ACTATTCTTTTGTTACACAACCCATC 58.118 34.615 0.00 0.00 37.90 3.51
1933 2014 7.118496 TCTTTTGTTACACAACCCATCATTT 57.882 32.000 0.00 0.00 37.90 2.32
1943 2024 4.088634 CAACCCATCATTTCTTCCCTTGA 58.911 43.478 0.00 0.00 0.00 3.02
1944 2025 4.402616 ACCCATCATTTCTTCCCTTGAA 57.597 40.909 0.00 0.00 0.00 2.69
1945 2026 4.089361 ACCCATCATTTCTTCCCTTGAAC 58.911 43.478 0.00 0.00 0.00 3.18
1947 2028 4.159135 CCCATCATTTCTTCCCTTGAACTG 59.841 45.833 0.00 0.00 0.00 3.16
1948 2029 4.768968 CCATCATTTCTTCCCTTGAACTGT 59.231 41.667 0.00 0.00 0.00 3.55
1949 2030 5.945784 CCATCATTTCTTCCCTTGAACTGTA 59.054 40.000 0.00 0.00 0.00 2.74
1952 2033 8.526147 CATCATTTCTTCCCTTGAACTGTATTT 58.474 33.333 0.00 0.00 0.00 1.40
1954 2035 8.923270 TCATTTCTTCCCTTGAACTGTATTTTT 58.077 29.630 0.00 0.00 0.00 1.94
2023 2104 4.279671 ACAACACTCCAAAACAACACAAGA 59.720 37.500 0.00 0.00 0.00 3.02
2064 2145 2.866762 GCTCAGGTATTTACTCGCAAGG 59.133 50.000 0.00 0.00 38.47 3.61
2202 2283 1.517832 CCTGAACCTCTCCGCGATT 59.482 57.895 8.23 0.00 0.00 3.34
2268 2349 1.768684 TTCGAGGGGCAGCAGAAACT 61.769 55.000 0.00 0.00 0.00 2.66
2294 2375 5.097529 CCATGTTTTCGGATCAATGTCTTG 58.902 41.667 0.00 0.00 0.00 3.02
2301 2382 3.259625 TCGGATCAATGTCTTGTACCACA 59.740 43.478 0.00 0.00 33.87 4.17
2318 2399 4.819105 CCACAGAATGGTCTAGTGGTAA 57.181 45.455 13.03 0.00 44.46 2.85
2364 2445 1.264749 TGGATCCACCGAGGTCAAGG 61.265 60.000 11.44 0.00 42.61 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.100631 GGACTCATCCGCCAACACG 61.101 63.158 0.00 0.00 34.48 4.49
12 13 3.890674 GGACTCATCCGCCAACAC 58.109 61.111 0.00 0.00 34.48 3.32
35 36 4.424711 ATCGCCAACCGCCCACAT 62.425 61.111 0.00 0.00 36.73 3.21
42 43 4.473520 AGCCTCCATCGCCAACCG 62.474 66.667 0.00 0.00 38.61 4.44
43 44 2.514824 GAGCCTCCATCGCCAACC 60.515 66.667 0.00 0.00 0.00 3.77
44 45 1.078143 AAGAGCCTCCATCGCCAAC 60.078 57.895 0.00 0.00 0.00 3.77
45 46 1.078214 CAAGAGCCTCCATCGCCAA 60.078 57.895 0.00 0.00 0.00 4.52
46 47 2.586245 CAAGAGCCTCCATCGCCA 59.414 61.111 0.00 0.00 0.00 5.69
47 48 2.203126 CCAAGAGCCTCCATCGCC 60.203 66.667 0.00 0.00 0.00 5.54
48 49 2.203126 CCCAAGAGCCTCCATCGC 60.203 66.667 0.00 0.00 0.00 4.58
49 50 0.462759 GAACCCAAGAGCCTCCATCG 60.463 60.000 0.00 0.00 0.00 3.84
50 51 0.620556 TGAACCCAAGAGCCTCCATC 59.379 55.000 0.00 0.00 0.00 3.51
51 52 1.302907 ATGAACCCAAGAGCCTCCAT 58.697 50.000 0.00 0.00 0.00 3.41
52 53 1.075601 AATGAACCCAAGAGCCTCCA 58.924 50.000 0.00 0.00 0.00 3.86
53 54 1.821136 CAAATGAACCCAAGAGCCTCC 59.179 52.381 0.00 0.00 0.00 4.30
54 55 1.821136 CCAAATGAACCCAAGAGCCTC 59.179 52.381 0.00 0.00 0.00 4.70
55 56 1.428912 TCCAAATGAACCCAAGAGCCT 59.571 47.619 0.00 0.00 0.00 4.58
56 57 1.923356 TCCAAATGAACCCAAGAGCC 58.077 50.000 0.00 0.00 0.00 4.70
57 58 3.303881 GTTCCAAATGAACCCAAGAGC 57.696 47.619 0.00 0.00 46.35 4.09
66 67 5.584253 TTTTGAAGGTCGTTCCAAATGAA 57.416 34.783 2.94 0.00 39.02 2.57
67 68 5.584253 TTTTTGAAGGTCGTTCCAAATGA 57.416 34.783 5.63 0.00 39.02 2.57
68 69 6.843069 AATTTTTGAAGGTCGTTCCAAATG 57.157 33.333 10.81 0.00 39.02 2.32
69 70 8.364142 TCATAATTTTTGAAGGTCGTTCCAAAT 58.636 29.630 5.63 6.20 39.02 2.32
70 71 7.650104 GTCATAATTTTTGAAGGTCGTTCCAAA 59.350 33.333 2.94 2.19 39.02 3.28
71 72 7.142680 GTCATAATTTTTGAAGGTCGTTCCAA 58.857 34.615 2.94 0.00 39.02 3.53
72 73 6.263392 TGTCATAATTTTTGAAGGTCGTTCCA 59.737 34.615 2.94 0.00 39.02 3.53
73 74 6.674066 TGTCATAATTTTTGAAGGTCGTTCC 58.326 36.000 2.94 0.00 33.75 3.62
74 75 8.742554 ATTGTCATAATTTTTGAAGGTCGTTC 57.257 30.769 0.00 0.00 35.48 3.95
75 76 8.977505 CAATTGTCATAATTTTTGAAGGTCGTT 58.022 29.630 0.00 0.00 0.00 3.85
76 77 8.356657 TCAATTGTCATAATTTTTGAAGGTCGT 58.643 29.630 5.13 0.00 0.00 4.34
77 78 8.741101 TCAATTGTCATAATTTTTGAAGGTCG 57.259 30.769 5.13 0.00 0.00 4.79
78 79 9.696917 ACTCAATTGTCATAATTTTTGAAGGTC 57.303 29.630 5.13 0.00 0.00 3.85
79 80 9.480053 CACTCAATTGTCATAATTTTTGAAGGT 57.520 29.630 5.13 0.00 0.00 3.50
80 81 8.437742 GCACTCAATTGTCATAATTTTTGAAGG 58.562 33.333 5.13 0.00 0.00 3.46
81 82 8.157813 CGCACTCAATTGTCATAATTTTTGAAG 58.842 33.333 5.13 0.00 0.00 3.02
82 83 7.116090 CCGCACTCAATTGTCATAATTTTTGAA 59.884 33.333 5.13 0.00 0.00 2.69
83 84 6.585702 CCGCACTCAATTGTCATAATTTTTGA 59.414 34.615 5.13 0.00 0.00 2.69
84 85 6.585702 TCCGCACTCAATTGTCATAATTTTTG 59.414 34.615 5.13 0.00 0.00 2.44
85 86 6.686630 TCCGCACTCAATTGTCATAATTTTT 58.313 32.000 5.13 0.00 0.00 1.94
86 87 6.266168 TCCGCACTCAATTGTCATAATTTT 57.734 33.333 5.13 0.00 0.00 1.82
87 88 5.895636 TCCGCACTCAATTGTCATAATTT 57.104 34.783 5.13 0.00 0.00 1.82
88 89 5.640732 GTTCCGCACTCAATTGTCATAATT 58.359 37.500 5.13 0.00 0.00 1.40
89 90 4.201812 CGTTCCGCACTCAATTGTCATAAT 60.202 41.667 5.13 0.00 0.00 1.28
90 91 3.124466 CGTTCCGCACTCAATTGTCATAA 59.876 43.478 5.13 0.00 0.00 1.90
91 92 2.670905 CGTTCCGCACTCAATTGTCATA 59.329 45.455 5.13 0.00 0.00 2.15
92 93 1.464608 CGTTCCGCACTCAATTGTCAT 59.535 47.619 5.13 0.00 0.00 3.06
93 94 0.865111 CGTTCCGCACTCAATTGTCA 59.135 50.000 5.13 0.00 0.00 3.58
94 95 3.657537 CGTTCCGCACTCAATTGTC 57.342 52.632 5.13 0.00 0.00 3.18
107 108 1.330213 GTCTAGTAGAGTCGGCGTTCC 59.670 57.143 6.85 0.00 0.00 3.62
108 109 1.330213 GGTCTAGTAGAGTCGGCGTTC 59.670 57.143 6.85 6.42 0.00 3.95
109 110 1.339438 TGGTCTAGTAGAGTCGGCGTT 60.339 52.381 6.85 0.00 0.00 4.84
110 111 0.251354 TGGTCTAGTAGAGTCGGCGT 59.749 55.000 6.85 0.00 0.00 5.68
111 112 1.532007 GATGGTCTAGTAGAGTCGGCG 59.468 57.143 0.00 0.00 0.00 6.46
112 113 2.853705 AGATGGTCTAGTAGAGTCGGC 58.146 52.381 0.00 0.00 0.00 5.54
113 114 5.504337 CGAAAAGATGGTCTAGTAGAGTCGG 60.504 48.000 0.00 0.00 0.00 4.79
114 115 5.293814 TCGAAAAGATGGTCTAGTAGAGTCG 59.706 44.000 0.00 1.15 0.00 4.18
115 116 6.680874 TCGAAAAGATGGTCTAGTAGAGTC 57.319 41.667 0.00 0.00 0.00 3.36
116 117 6.829298 TGATCGAAAAGATGGTCTAGTAGAGT 59.171 38.462 0.00 0.00 40.26 3.24
117 118 7.265647 TGATCGAAAAGATGGTCTAGTAGAG 57.734 40.000 0.00 0.00 40.26 2.43
118 119 7.640597 TTGATCGAAAAGATGGTCTAGTAGA 57.359 36.000 0.00 0.00 40.26 2.59
119 120 8.703604 TTTTGATCGAAAAGATGGTCTAGTAG 57.296 34.615 5.60 0.00 40.26 2.57
120 121 9.314321 GATTTTGATCGAAAAGATGGTCTAGTA 57.686 33.333 12.14 0.00 40.26 1.82
121 122 7.010552 CGATTTTGATCGAAAAGATGGTCTAGT 59.989 37.037 12.14 0.00 46.12 2.57
122 123 7.340699 CGATTTTGATCGAAAAGATGGTCTAG 58.659 38.462 12.14 0.00 46.12 2.43
123 124 7.234187 CGATTTTGATCGAAAAGATGGTCTA 57.766 36.000 12.14 0.00 46.12 2.59
124 125 6.111768 CGATTTTGATCGAAAAGATGGTCT 57.888 37.500 12.14 0.00 46.12 3.85
136 137 4.430118 GCGTTTATGTGTCGATTTTGATCG 59.570 41.667 2.58 2.58 44.73 3.69
137 138 4.430118 CGCGTTTATGTGTCGATTTTGATC 59.570 41.667 0.00 0.00 0.00 2.92
138 139 4.331137 CGCGTTTATGTGTCGATTTTGAT 58.669 39.130 0.00 0.00 0.00 2.57
139 140 3.423776 CCGCGTTTATGTGTCGATTTTGA 60.424 43.478 4.92 0.00 0.00 2.69
140 141 2.837878 CCGCGTTTATGTGTCGATTTTG 59.162 45.455 4.92 0.00 0.00 2.44
141 142 2.726681 GCCGCGTTTATGTGTCGATTTT 60.727 45.455 4.92 0.00 0.00 1.82
142 143 1.201987 GCCGCGTTTATGTGTCGATTT 60.202 47.619 4.92 0.00 0.00 2.17
143 144 0.372334 GCCGCGTTTATGTGTCGATT 59.628 50.000 4.92 0.00 0.00 3.34
144 145 0.738063 TGCCGCGTTTATGTGTCGAT 60.738 50.000 4.92 0.00 0.00 3.59
145 146 0.944788 TTGCCGCGTTTATGTGTCGA 60.945 50.000 4.92 0.00 0.00 4.20
146 147 0.096281 ATTGCCGCGTTTATGTGTCG 59.904 50.000 4.92 0.00 0.00 4.35
147 148 1.810197 GATTGCCGCGTTTATGTGTC 58.190 50.000 4.92 0.00 0.00 3.67
148 149 0.096281 CGATTGCCGCGTTTATGTGT 59.904 50.000 4.92 0.00 0.00 3.72
149 150 0.588730 CCGATTGCCGCGTTTATGTG 60.589 55.000 4.92 0.00 36.84 3.21
150 151 1.719117 CCGATTGCCGCGTTTATGT 59.281 52.632 4.92 0.00 36.84 2.29
151 152 1.654137 GCCGATTGCCGCGTTTATG 60.654 57.895 4.92 0.00 36.84 1.90
152 153 2.713154 GCCGATTGCCGCGTTTAT 59.287 55.556 4.92 0.00 36.84 1.40
161 162 2.440065 TCATGGGTGGCCGATTGC 60.440 61.111 0.00 0.00 40.16 3.56
162 163 0.180171 TAGTCATGGGTGGCCGATTG 59.820 55.000 0.00 0.00 0.00 2.67
163 164 0.180406 GTAGTCATGGGTGGCCGATT 59.820 55.000 0.00 0.00 0.00 3.34
164 165 0.691078 AGTAGTCATGGGTGGCCGAT 60.691 55.000 0.00 0.00 0.00 4.18
165 166 0.907704 AAGTAGTCATGGGTGGCCGA 60.908 55.000 0.00 0.00 0.00 5.54
166 167 0.744414 CAAGTAGTCATGGGTGGCCG 60.744 60.000 0.00 0.00 0.00 6.13
167 168 1.032114 GCAAGTAGTCATGGGTGGCC 61.032 60.000 0.00 0.00 0.00 5.36
168 169 0.035056 AGCAAGTAGTCATGGGTGGC 60.035 55.000 0.00 0.00 0.00 5.01
169 170 1.556911 AGAGCAAGTAGTCATGGGTGG 59.443 52.381 0.00 0.00 0.00 4.61
170 171 2.625737 CAGAGCAAGTAGTCATGGGTG 58.374 52.381 0.00 0.00 0.00 4.61
171 172 1.556911 CCAGAGCAAGTAGTCATGGGT 59.443 52.381 0.00 0.00 0.00 4.51
172 173 1.134280 CCCAGAGCAAGTAGTCATGGG 60.134 57.143 0.00 0.00 39.96 4.00
173 174 1.745141 GCCCAGAGCAAGTAGTCATGG 60.745 57.143 0.00 0.00 42.97 3.66
174 175 1.661341 GCCCAGAGCAAGTAGTCATG 58.339 55.000 0.00 0.00 42.97 3.07
175 176 0.543749 GGCCCAGAGCAAGTAGTCAT 59.456 55.000 0.00 0.00 46.50 3.06
176 177 0.545309 AGGCCCAGAGCAAGTAGTCA 60.545 55.000 0.00 0.00 46.50 3.41
177 178 0.615850 AAGGCCCAGAGCAAGTAGTC 59.384 55.000 0.00 0.00 46.50 2.59
178 179 0.615850 GAAGGCCCAGAGCAAGTAGT 59.384 55.000 0.00 0.00 46.50 2.73
179 180 0.107459 GGAAGGCCCAGAGCAAGTAG 60.107 60.000 0.00 0.00 46.50 2.57
180 181 1.991230 GGAAGGCCCAGAGCAAGTA 59.009 57.895 0.00 0.00 46.50 2.24
181 182 2.759795 GGAAGGCCCAGAGCAAGT 59.240 61.111 0.00 0.00 46.50 3.16
191 192 0.396278 CCTCAAATCAGGGGAAGGCC 60.396 60.000 0.00 0.00 0.00 5.19
192 193 1.039785 GCCTCAAATCAGGGGAAGGC 61.040 60.000 0.00 0.00 33.58 4.35
193 194 3.197664 GCCTCAAATCAGGGGAAGG 57.802 57.895 0.00 0.00 33.58 3.46
198 199 0.321564 TGACACGCCTCAAATCAGGG 60.322 55.000 0.00 0.00 33.58 4.45
199 200 1.667724 GATGACACGCCTCAAATCAGG 59.332 52.381 0.00 0.00 36.50 3.86
200 201 1.325640 CGATGACACGCCTCAAATCAG 59.674 52.381 0.00 0.00 0.00 2.90
201 202 1.358877 CGATGACACGCCTCAAATCA 58.641 50.000 0.00 0.00 0.00 2.57
202 203 0.652592 CCGATGACACGCCTCAAATC 59.347 55.000 0.00 0.00 0.00 2.17
203 204 0.744414 CCCGATGACACGCCTCAAAT 60.744 55.000 0.00 0.00 0.00 2.32
204 205 1.375396 CCCGATGACACGCCTCAAA 60.375 57.895 0.00 0.00 0.00 2.69
205 206 1.613317 ATCCCGATGACACGCCTCAA 61.613 55.000 0.00 0.00 0.00 3.02
206 207 0.753848 TATCCCGATGACACGCCTCA 60.754 55.000 0.00 0.00 0.00 3.86
207 208 0.318784 GTATCCCGATGACACGCCTC 60.319 60.000 0.00 0.00 0.00 4.70
208 209 1.740285 GTATCCCGATGACACGCCT 59.260 57.895 0.00 0.00 0.00 5.52
209 210 1.300697 GGTATCCCGATGACACGCC 60.301 63.158 0.00 0.00 0.00 5.68
210 211 0.956633 TAGGTATCCCGATGACACGC 59.043 55.000 0.00 0.00 35.12 5.34
211 212 1.268899 GGTAGGTATCCCGATGACACG 59.731 57.143 0.00 0.00 35.12 4.49
212 213 2.595238 AGGTAGGTATCCCGATGACAC 58.405 52.381 0.00 0.00 35.12 3.67
213 214 3.499202 GGTAGGTAGGTATCCCGATGACA 60.499 52.174 0.00 0.00 35.12 3.58
214 215 3.087781 GGTAGGTAGGTATCCCGATGAC 58.912 54.545 0.00 0.00 35.12 3.06
215 216 2.718062 TGGTAGGTAGGTATCCCGATGA 59.282 50.000 0.00 0.00 35.12 2.92
216 217 2.824341 GTGGTAGGTAGGTATCCCGATG 59.176 54.545 0.00 0.00 35.12 3.84
217 218 2.553904 CGTGGTAGGTAGGTATCCCGAT 60.554 54.545 0.00 0.00 35.12 4.18
218 219 1.202806 CGTGGTAGGTAGGTATCCCGA 60.203 57.143 0.00 0.00 35.12 5.14
219 220 1.242076 CGTGGTAGGTAGGTATCCCG 58.758 60.000 0.00 0.00 35.12 5.14
220 221 1.625511 CCGTGGTAGGTAGGTATCCC 58.374 60.000 0.00 0.00 0.00 3.85
221 222 0.964700 GCCGTGGTAGGTAGGTATCC 59.035 60.000 0.00 0.00 0.00 2.59
222 223 0.964700 GGCCGTGGTAGGTAGGTATC 59.035 60.000 0.00 0.00 0.00 2.24
223 224 0.262580 TGGCCGTGGTAGGTAGGTAT 59.737 55.000 0.00 0.00 0.00 2.73
224 225 0.684153 GTGGCCGTGGTAGGTAGGTA 60.684 60.000 0.00 0.00 0.00 3.08
225 226 1.986210 GTGGCCGTGGTAGGTAGGT 60.986 63.158 0.00 0.00 0.00 3.08
226 227 1.985662 TGTGGCCGTGGTAGGTAGG 60.986 63.158 0.00 0.00 0.00 3.18
227 228 1.217244 GTGTGGCCGTGGTAGGTAG 59.783 63.158 0.00 0.00 0.00 3.18
228 229 2.638354 CGTGTGGCCGTGGTAGGTA 61.638 63.158 0.00 0.00 0.00 3.08
229 230 3.998672 CGTGTGGCCGTGGTAGGT 61.999 66.667 0.00 0.00 0.00 3.08
354 362 2.191846 AAAGGGAGGGAGGGAGGGA 61.192 63.158 0.00 0.00 0.00 4.20
366 380 1.361197 GGGAGGGAAATTGGAAAGGGA 59.639 52.381 0.00 0.00 0.00 4.20
457 471 1.522580 GTGCGGGAGGAGATTGAGC 60.523 63.158 0.00 0.00 0.00 4.26
463 477 0.536460 GTTTTTGGTGCGGGAGGAGA 60.536 55.000 0.00 0.00 0.00 3.71
468 482 2.907917 CGGGTTTTTGGTGCGGGA 60.908 61.111 0.00 0.00 0.00 5.14
958 972 1.080354 TGGTCGAGGTTGGGAGGAT 59.920 57.895 0.00 0.00 0.00 3.24
959 973 1.911766 GTGGTCGAGGTTGGGAGGA 60.912 63.158 0.00 0.00 0.00 3.71
960 974 2.663196 GTGGTCGAGGTTGGGAGG 59.337 66.667 0.00 0.00 0.00 4.30
961 975 2.172483 CTGGTGGTCGAGGTTGGGAG 62.172 65.000 0.00 0.00 0.00 4.30
962 976 2.122769 TGGTGGTCGAGGTTGGGA 60.123 61.111 0.00 0.00 0.00 4.37
963 977 1.553690 ATCTGGTGGTCGAGGTTGGG 61.554 60.000 0.00 0.00 0.00 4.12
964 978 0.108138 GATCTGGTGGTCGAGGTTGG 60.108 60.000 0.00 0.00 0.00 3.77
965 979 0.108138 GGATCTGGTGGTCGAGGTTG 60.108 60.000 0.00 0.00 0.00 3.77
966 980 1.605058 CGGATCTGGTGGTCGAGGTT 61.605 60.000 0.00 0.00 0.00 3.50
967 981 2.052690 CGGATCTGGTGGTCGAGGT 61.053 63.158 0.00 0.00 0.00 3.85
968 982 2.808315 CGGATCTGGTGGTCGAGG 59.192 66.667 0.00 0.00 0.00 4.63
969 983 2.105128 GCGGATCTGGTGGTCGAG 59.895 66.667 3.14 0.00 0.00 4.04
970 984 3.458163 GGCGGATCTGGTGGTCGA 61.458 66.667 3.14 0.00 0.00 4.20
971 985 4.530857 GGGCGGATCTGGTGGTCG 62.531 72.222 3.14 0.00 0.00 4.79
972 986 4.176752 GGGGCGGATCTGGTGGTC 62.177 72.222 3.14 0.00 0.00 4.02
975 989 4.530857 GTCGGGGCGGATCTGGTG 62.531 72.222 3.14 0.00 0.00 4.17
1182 1208 4.263572 TGCGTGGGTGACAAGGGG 62.264 66.667 0.00 0.00 0.00 4.79
1285 1314 4.003788 CAGGAACACGACGCCCCT 62.004 66.667 0.00 0.00 0.00 4.79
1443 1513 5.001232 GGCACAAATAGTTGGTCTTCAGTA 58.999 41.667 7.93 0.00 39.22 2.74
1471 1544 1.520342 CGAAGCCTAGACAGCAGCC 60.520 63.158 0.00 0.00 0.00 4.85
1519 1592 3.788227 TGCAGCTCCTAAAAGAAAGGA 57.212 42.857 0.00 0.00 40.92 3.36
1520 1593 3.823304 AGTTGCAGCTCCTAAAAGAAAGG 59.177 43.478 0.00 0.00 35.26 3.11
1521 1594 5.444663 AAGTTGCAGCTCCTAAAAGAAAG 57.555 39.130 2.60 0.00 0.00 2.62
1522 1595 5.852282 AAAGTTGCAGCTCCTAAAAGAAA 57.148 34.783 2.60 0.00 0.00 2.52
1523 1596 5.852282 AAAAGTTGCAGCTCCTAAAAGAA 57.148 34.783 2.60 0.00 0.00 2.52
1524 1597 5.852282 AAAAAGTTGCAGCTCCTAAAAGA 57.148 34.783 2.60 0.00 0.00 2.52
1684 1763 9.958180 TTTAGAGATGAAGATCCAAACATTACA 57.042 29.630 0.00 0.00 0.00 2.41
1712 1791 9.917887 AGATGAAGATCCAGATTACAAAAGATT 57.082 29.630 0.00 0.00 0.00 2.40
1713 1792 9.558396 GAGATGAAGATCCAGATTACAAAAGAT 57.442 33.333 0.00 0.00 0.00 2.40
1714 1793 8.766476 AGAGATGAAGATCCAGATTACAAAAGA 58.234 33.333 0.00 0.00 0.00 2.52
1715 1794 8.828644 CAGAGATGAAGATCCAGATTACAAAAG 58.171 37.037 0.00 0.00 0.00 2.27
1716 1795 8.542926 TCAGAGATGAAGATCCAGATTACAAAA 58.457 33.333 0.00 0.00 0.00 2.44
1717 1796 8.082672 TCAGAGATGAAGATCCAGATTACAAA 57.917 34.615 0.00 0.00 0.00 2.83
1718 1797 7.666063 TCAGAGATGAAGATCCAGATTACAA 57.334 36.000 0.00 0.00 0.00 2.41
1719 1798 7.852550 ATCAGAGATGAAGATCCAGATTACA 57.147 36.000 0.00 0.00 0.00 2.41
1720 1799 7.118101 GCAATCAGAGATGAAGATCCAGATTAC 59.882 40.741 0.00 0.00 29.56 1.89
1721 1800 7.016366 AGCAATCAGAGATGAAGATCCAGATTA 59.984 37.037 0.00 0.00 29.56 1.75
1722 1801 5.998981 GCAATCAGAGATGAAGATCCAGATT 59.001 40.000 0.00 0.00 30.16 2.40
1723 1802 5.308497 AGCAATCAGAGATGAAGATCCAGAT 59.692 40.000 0.00 0.00 0.00 2.90
1724 1803 4.654724 AGCAATCAGAGATGAAGATCCAGA 59.345 41.667 0.00 0.00 0.00 3.86
1725 1804 4.963373 AGCAATCAGAGATGAAGATCCAG 58.037 43.478 0.00 0.00 0.00 3.86
1726 1805 4.654724 AGAGCAATCAGAGATGAAGATCCA 59.345 41.667 0.00 0.00 0.00 3.41
1727 1806 5.217978 AGAGCAATCAGAGATGAAGATCC 57.782 43.478 0.00 0.00 0.00 3.36
1728 1807 5.232463 GGAGAGCAATCAGAGATGAAGATC 58.768 45.833 0.00 0.00 0.00 2.75
1729 1808 4.040706 GGGAGAGCAATCAGAGATGAAGAT 59.959 45.833 0.00 0.00 0.00 2.40
1730 1809 3.387374 GGGAGAGCAATCAGAGATGAAGA 59.613 47.826 0.00 0.00 0.00 2.87
1731 1810 3.134262 TGGGAGAGCAATCAGAGATGAAG 59.866 47.826 0.00 0.00 0.00 3.02
1750 1829 2.624636 GCTTGATGGAGCAATTTTGGG 58.375 47.619 0.00 0.00 42.25 4.12
1773 1852 6.183360 TGCGCGATTTTAAACTGTGTATACAT 60.183 34.615 12.10 0.00 35.97 2.29
1778 1857 4.671880 ATGCGCGATTTTAAACTGTGTA 57.328 36.364 12.10 0.00 0.00 2.90
1779 1858 3.552604 ATGCGCGATTTTAAACTGTGT 57.447 38.095 12.10 0.00 0.00 3.72
1780 1859 5.027737 ACATATGCGCGATTTTAAACTGTG 58.972 37.500 12.10 0.00 0.00 3.66
1781 1860 5.229921 ACATATGCGCGATTTTAAACTGT 57.770 34.783 12.10 0.00 0.00 3.55
1782 1861 6.138546 GTGTACATATGCGCGATTTTAAACTG 59.861 38.462 12.10 0.00 0.00 3.16
1783 1862 6.183360 TGTGTACATATGCGCGATTTTAAACT 60.183 34.615 12.10 0.00 0.00 2.66
1784 1863 5.960683 TGTGTACATATGCGCGATTTTAAAC 59.039 36.000 12.10 0.00 0.00 2.01
1785 1864 6.108097 TGTGTACATATGCGCGATTTTAAA 57.892 33.333 12.10 0.00 0.00 1.52
1786 1865 5.292345 ACTGTGTACATATGCGCGATTTTAA 59.708 36.000 12.10 0.00 0.00 1.52
1787 1866 4.806775 ACTGTGTACATATGCGCGATTTTA 59.193 37.500 12.10 0.00 0.00 1.52
1788 1867 3.621268 ACTGTGTACATATGCGCGATTTT 59.379 39.130 12.10 0.00 0.00 1.82
1789 1868 3.194861 ACTGTGTACATATGCGCGATTT 58.805 40.909 12.10 0.00 0.00 2.17
1790 1869 2.821546 ACTGTGTACATATGCGCGATT 58.178 42.857 12.10 0.00 0.00 3.34
1791 1870 2.509052 ACTGTGTACATATGCGCGAT 57.491 45.000 12.10 2.89 0.00 4.58
1792 1871 2.287393 AACTGTGTACATATGCGCGA 57.713 45.000 12.10 0.00 0.00 5.87
1793 1872 4.508376 TTTAACTGTGTACATATGCGCG 57.492 40.909 0.00 0.00 0.00 6.86
1794 1873 6.138546 CGATTTTTAACTGTGTACATATGCGC 59.861 38.462 0.00 0.00 0.00 6.09
1795 1874 6.138546 GCGATTTTTAACTGTGTACATATGCG 59.861 38.462 1.58 0.00 0.00 4.73
1922 2003 4.402616 TCAAGGGAAGAAATGATGGGTT 57.597 40.909 0.00 0.00 0.00 4.11
1923 2004 4.089361 GTTCAAGGGAAGAAATGATGGGT 58.911 43.478 0.00 0.00 32.62 4.51
1925 2006 4.768968 ACAGTTCAAGGGAAGAAATGATGG 59.231 41.667 9.87 0.00 41.96 3.51
1928 2009 8.477419 AAAATACAGTTCAAGGGAAGAAATGA 57.523 30.769 9.87 0.00 41.96 2.57
1970 2051 4.700213 CAGTGGTTGTCTAAATACAAGGGG 59.300 45.833 0.00 0.00 39.92 4.79
2023 2104 1.066143 CAAGGGCTAGTGATGACGGTT 60.066 52.381 0.00 0.00 0.00 4.44
2046 2127 1.940613 GCCCTTGCGAGTAAATACCTG 59.059 52.381 0.00 0.00 0.00 4.00
2064 2145 3.112709 GACGCCAAGTCTGTCGCC 61.113 66.667 0.00 0.00 46.13 5.54
2119 2200 3.005539 GAGGGAGAGGCAGCACCA 61.006 66.667 0.00 0.00 43.14 4.17
2202 2283 0.546122 ATGCTCCGCCTGAAATACCA 59.454 50.000 0.00 0.00 0.00 3.25
2244 2325 0.465705 CTGCTGCCCCTCGAAGAATA 59.534 55.000 0.00 0.00 34.09 1.75
2245 2326 1.222936 CTGCTGCCCCTCGAAGAAT 59.777 57.895 0.00 0.00 34.09 2.40
2246 2327 1.480212 TTCTGCTGCCCCTCGAAGAA 61.480 55.000 0.00 0.00 34.09 2.52
2268 2349 1.916506 TTGATCCGAAAACATGGGCA 58.083 45.000 0.00 0.00 0.00 5.36
2301 2382 4.624125 GCAAGCTTACCACTAGACCATTCT 60.624 45.833 0.00 0.00 35.66 2.40
2318 2399 1.000506 CAAGTGAAGCATTGGCAAGCT 59.999 47.619 15.41 15.41 44.61 3.74
2364 2445 0.036388 TCAACCCGAAGCCATCACTC 60.036 55.000 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.