Multiple sequence alignment - TraesCS7D01G369100

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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 TraesCS7D01G369100 chr7D 100.000 3775 0 0 1 3775 478065838 478069612 0.000000e+00 6972
1 TraesCS7D01G369100 chr7D 100.000 170 0 0 1042 1211 585549409 585549578 7.870000e-82 315
2 TraesCS7D01G369100 chr7A 93.580 2570 146 12 1207 3775 517646279 517643728 0.000000e+00 3814
3 TraesCS7D01G369100 chr7A 91.105 1068 59 19 1 1042 517647325 517646268 0.000000e+00 1413
4 TraesCS7D01G369100 chr7A 85.063 636 78 5 1729 2364 733832937 733833555 1.910000e-177 632
5 TraesCS7D01G369100 chr7B 90.971 1750 112 19 1445 3167 503147675 503149405 0.000000e+00 2314
6 TraesCS7D01G369100 chr7B 94.376 569 31 1 471 1039 503142335 503142902 0.000000e+00 872
7 TraesCS7D01G369100 chr7B 97.959 245 5 0 1205 1449 503142892 503143136 3.490000e-115 425
8 TraesCS7D01G369100 chr7B 91.875 160 11 1 319 478 503137460 503137617 4.910000e-54 222
9 TraesCS7D01G369100 chr3B 84.630 1080 141 12 1705 2774 727118823 727119887 0.000000e+00 1051
10 TraesCS7D01G369100 chr2B 86.240 625 76 6 1868 2484 635171798 635172420 0.000000e+00 669
11 TraesCS7D01G369100 chrUn 98.864 176 2 0 1034 1209 108724604 108724779 7.870000e-82 315
12 TraesCS7D01G369100 chr2A 97.802 182 2 2 1036 1217 111432908 111432729 2.830000e-81 313
13 TraesCS7D01G369100 chr1D 99.419 172 1 0 1042 1213 486378126 486378297 2.830000e-81 313
14 TraesCS7D01G369100 chr1D 79.717 212 36 5 3542 3748 328861488 328861697 3.040000e-31 147
15 TraesCS7D01G369100 chr1D 86.726 113 11 3 3525 3636 465109992 465109883 5.120000e-24 122
16 TraesCS7D01G369100 chr4B 97.802 182 1 3 1040 1218 560663266 560663447 1.020000e-80 311
17 TraesCS7D01G369100 chr4B 76.496 468 95 14 1445 1900 467101052 467101516 1.350000e-59 241
18 TraesCS7D01G369100 chr4B 77.033 209 43 4 3542 3746 37221452 37221659 8.570000e-22 115
19 TraesCS7D01G369100 chr6B 85.430 302 39 1 1961 2262 129865578 129865874 3.660000e-80 309
20 TraesCS7D01G369100 chr2D 97.268 183 4 1 1034 1216 529602958 529602777 3.660000e-80 309
21 TraesCS7D01G369100 chr5D 96.757 185 5 1 1034 1218 412360786 412360969 1.320000e-79 307
22 TraesCS7D01G369100 chr5D 85.165 182 21 4 3465 3642 432845312 432845491 8.330000e-42 182
23 TraesCS7D01G369100 chr4A 96.257 187 3 4 1028 1212 536870026 536869842 1.700000e-78 303
24 TraesCS7D01G369100 chr4A 96.703 182 5 1 1035 1216 592537210 592537390 6.130000e-78 302
25 TraesCS7D01G369100 chr4A 75.926 270 52 9 3489 3746 222567067 222566799 3.960000e-25 126
26 TraesCS7D01G369100 chr6A 91.667 108 9 0 1698 1805 613169837 613169944 2.350000e-32 150
27 TraesCS7D01G369100 chr6A 93.684 95 6 0 1711 1805 613234873 613234967 3.930000e-30 143
28 TraesCS7D01G369100 chr6A 91.089 101 9 0 1705 1805 613142940 613143040 1.830000e-28 137
29 TraesCS7D01G369100 chr6A 88.889 108 12 0 1698 1805 613216596 613216703 2.370000e-27 134
30 TraesCS7D01G369100 chr5A 77.358 265 42 12 3489 3742 368779349 368779092 1.410000e-29 141
31 TraesCS7D01G369100 chr1A 86.486 111 10 4 3525 3633 557465029 557464922 2.380000e-22 117
32 TraesCS7D01G369100 chr1A 78.363 171 30 5 3542 3707 425708671 425708839 1.850000e-18 104


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 TraesCS7D01G369100 chr7D 478065838 478069612 3774 False 6972.0 6972 100.0000 1 3775 1 chr7D.!!$F1 3774
1 TraesCS7D01G369100 chr7A 517643728 517647325 3597 True 2613.5 3814 92.3425 1 3775 2 chr7A.!!$R1 3774
2 TraesCS7D01G369100 chr7A 733832937 733833555 618 False 632.0 632 85.0630 1729 2364 1 chr7A.!!$F1 635
3 TraesCS7D01G369100 chr7B 503147675 503149405 1730 False 2314.0 2314 90.9710 1445 3167 1 chr7B.!!$F2 1722
4 TraesCS7D01G369100 chr7B 503142335 503143136 801 False 648.5 872 96.1675 471 1449 2 chr7B.!!$F3 978
5 TraesCS7D01G369100 chr3B 727118823 727119887 1064 False 1051.0 1051 84.6300 1705 2774 1 chr3B.!!$F1 1069
6 TraesCS7D01G369100 chr2B 635171798 635172420 622 False 669.0 669 86.2400 1868 2484 1 chr2B.!!$F1 616

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
177 181 1.423161 GGCTTGGCCCTCTCATATCTT 59.577 52.381 0.00 0.0 44.06 2.40 F
1036 1063 1.376424 ATCCTGGTTGCACTGCTCG 60.376 57.895 1.98 0.0 0.00 5.03 F
1067 1094 0.107214 GTAGCTAGCCCAACATGCCA 60.107 55.000 12.13 0.0 0.00 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1048 1075 0.107214 TGGCATGTTGGGCTAGCTAC 60.107 55.0 15.72 10.98 0.00 3.58 R
2444 2483 0.105964 TCGTGTTGTCCCACCAGAAG 59.894 55.0 0.00 0.00 31.47 2.85 R
3038 3109 0.040425 GGCCGCAAATGCCTAATACG 60.040 55.0 0.00 0.00 45.70 3.06 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
29 30 4.111916 CTGCTACGGCCCAAAATTTTATG 58.888 43.478 2.44 0.00 37.74 1.90
38 39 6.210584 CGGCCCAAAATTTTATGGTATCCTAT 59.789 38.462 16.07 0.00 34.79 2.57
59 60 5.618056 ATTTTACATCATCTGCTATGGCG 57.382 39.130 0.00 0.00 42.25 5.69
68 69 6.449635 TCATCTGCTATGGCGTAAAAATTT 57.550 33.333 0.00 0.00 42.25 1.82
69 70 6.494842 TCATCTGCTATGGCGTAAAAATTTC 58.505 36.000 0.00 0.00 42.25 2.17
71 72 4.022464 TGCTATGGCGTAAAAATTTCGG 57.978 40.909 0.00 0.00 42.25 4.30
72 73 3.690139 TGCTATGGCGTAAAAATTTCGGA 59.310 39.130 0.00 0.00 42.25 4.55
73 74 4.336993 TGCTATGGCGTAAAAATTTCGGAT 59.663 37.500 0.00 0.00 42.25 4.18
74 75 4.675114 GCTATGGCGTAAAAATTTCGGATG 59.325 41.667 0.00 0.00 0.00 3.51
76 77 2.190161 GGCGTAAAAATTTCGGATGCC 58.810 47.619 12.03 12.03 0.00 4.40
77 78 2.190161 GCGTAAAAATTTCGGATGCCC 58.810 47.619 0.00 0.00 0.00 5.36
78 79 2.159296 GCGTAAAAATTTCGGATGCCCT 60.159 45.455 0.00 0.00 0.00 5.19
80 81 4.439016 GCGTAAAAATTTCGGATGCCCTAA 60.439 41.667 0.00 0.00 0.00 2.69
81 82 5.642686 CGTAAAAATTTCGGATGCCCTAAA 58.357 37.500 0.00 0.00 32.56 1.85
82 83 6.094061 CGTAAAAATTTCGGATGCCCTAAAA 58.906 36.000 0.00 0.00 31.91 1.52
83 84 6.034150 CGTAAAAATTTCGGATGCCCTAAAAC 59.966 38.462 0.00 0.00 31.91 2.43
95 96 4.484912 TGCCCTAAAACCTACATTTTGGT 58.515 39.130 0.00 0.00 38.35 3.67
111 112 5.601583 TTTTGGTCCCCTAAAACTGTTTC 57.398 39.130 6.20 0.00 0.00 2.78
131 135 2.244510 TCTGGGTGCCCAATACATCATT 59.755 45.455 11.54 0.00 46.63 2.57
137 141 4.183101 GTGCCCAATACATCATTTGTTGG 58.817 43.478 0.00 0.00 39.87 3.77
140 144 4.402155 GCCCAATACATCATTTGTTGGAGA 59.598 41.667 0.96 0.00 38.14 3.71
142 146 6.509656 CCCAATACATCATTTGTTGGAGATG 58.490 40.000 0.96 0.00 38.14 2.90
150 154 7.341256 ACATCATTTGTTGGAGATGCTCTAATT 59.659 33.333 0.00 0.00 41.08 1.40
151 155 8.843262 CATCATTTGTTGGAGATGCTCTAATTA 58.157 33.333 0.00 0.00 33.81 1.40
177 181 1.423161 GGCTTGGCCCTCTCATATCTT 59.577 52.381 0.00 0.00 44.06 2.40
181 185 5.320277 GCTTGGCCCTCTCATATCTTTAAT 58.680 41.667 0.00 0.00 0.00 1.40
216 220 6.397272 TGACAAATGATAAGCAATCCAAACC 58.603 36.000 0.00 0.00 33.22 3.27
218 222 6.949715 ACAAATGATAAGCAATCCAAACCAT 58.050 32.000 0.00 0.00 33.22 3.55
219 223 7.396418 ACAAATGATAAGCAATCCAAACCATT 58.604 30.769 0.00 0.00 33.22 3.16
224 228 6.436847 TGATAAGCAATCCAAACCATTTGAGA 59.563 34.615 2.86 0.02 40.50 3.27
225 229 5.549742 AAGCAATCCAAACCATTTGAGAA 57.450 34.783 2.86 0.00 43.26 2.87
226 230 5.549742 AGCAATCCAAACCATTTGAGAAA 57.450 34.783 2.86 0.00 43.26 2.52
268 272 7.136289 TGTAGCTTATGGTTAAAAGAAACGG 57.864 36.000 0.00 0.00 0.00 4.44
286 290 4.373348 ACGGCACTAACTAACTCATCTC 57.627 45.455 0.00 0.00 0.00 2.75
288 292 3.381908 CGGCACTAACTAACTCATCTCCT 59.618 47.826 0.00 0.00 0.00 3.69
291 295 4.688021 CACTAACTAACTCATCTCCTGCC 58.312 47.826 0.00 0.00 0.00 4.85
309 313 5.248477 TCCTGCCTAAGTAAAACATCACTCT 59.752 40.000 0.00 0.00 0.00 3.24
345 349 1.752683 TCTCCGCTAGACTTGGTCTC 58.247 55.000 3.32 0.00 42.40 3.36
394 398 2.094803 CACAAGCAAATCCATACCGCAA 60.095 45.455 0.00 0.00 0.00 4.85
408 412 1.899814 ACCGCAACATCTCCTAGTGAA 59.100 47.619 0.00 0.00 0.00 3.18
415 422 2.044492 ACATCTCCTAGTGAAGGGTCCA 59.956 50.000 0.00 0.00 46.55 4.02
463 470 6.089417 GCATTGTCGTCCTTTATTTTGGAAAG 59.911 38.462 0.00 0.00 33.72 2.62
466 473 7.804843 TGTCGTCCTTTATTTTGGAAAGTTA 57.195 32.000 0.00 0.00 32.94 2.24
467 474 8.398878 TGTCGTCCTTTATTTTGGAAAGTTAT 57.601 30.769 0.00 0.00 32.94 1.89
489 497 9.174166 GTTATTTAGGTCTTTGTATGGACATGT 57.826 33.333 0.00 0.00 34.86 3.21
494 502 5.483937 AGGTCTTTGTATGGACATGTCACTA 59.516 40.000 26.47 14.19 34.86 2.74
532 540 4.097741 TGTGCCTACATGAATGCATTTACC 59.902 41.667 14.33 1.20 35.96 2.85
844 869 2.342648 GCCGAGGAAAGACGTGGT 59.657 61.111 0.00 0.00 0.00 4.16
933 958 5.230182 GGCTTTACTTCCAAAGTTCCAATG 58.770 41.667 0.00 0.00 42.81 2.82
990 1017 3.165875 ACTCCTCAGTCCTCGAATCAAA 58.834 45.455 0.00 0.00 0.00 2.69
1031 1058 4.730487 GAGCATCCTGGTTGCACT 57.270 55.556 26.67 11.10 42.62 4.40
1032 1059 2.177950 GAGCATCCTGGTTGCACTG 58.822 57.895 26.67 4.24 42.62 3.66
1033 1060 1.930908 GAGCATCCTGGTTGCACTGC 61.931 60.000 26.67 12.37 42.62 4.40
1034 1061 1.975407 GCATCCTGGTTGCACTGCT 60.975 57.895 21.74 0.00 39.90 4.24
1035 1062 1.930908 GCATCCTGGTTGCACTGCTC 61.931 60.000 21.74 0.00 39.90 4.26
1036 1063 1.376424 ATCCTGGTTGCACTGCTCG 60.376 57.895 1.98 0.00 0.00 5.03
1037 1064 3.730761 CCTGGTTGCACTGCTCGC 61.731 66.667 1.98 0.00 0.00 5.03
1038 1065 3.730761 CTGGTTGCACTGCTCGCC 61.731 66.667 1.98 2.73 0.00 5.54
1065 1092 2.311294 CGTAGCTAGCCCAACATGC 58.689 57.895 12.13 0.00 0.00 4.06
1066 1093 1.160329 CGTAGCTAGCCCAACATGCC 61.160 60.000 12.13 0.00 0.00 4.40
1067 1094 0.107214 GTAGCTAGCCCAACATGCCA 60.107 55.000 12.13 0.00 0.00 4.92
1068 1095 0.181114 TAGCTAGCCCAACATGCCAG 59.819 55.000 12.13 0.00 0.00 4.85
1069 1096 2.123428 GCTAGCCCAACATGCCAGG 61.123 63.158 2.29 0.00 0.00 4.45
1070 1097 1.454479 CTAGCCCAACATGCCAGGG 60.454 63.158 12.20 12.20 45.68 4.45
1071 1098 2.215451 CTAGCCCAACATGCCAGGGT 62.215 60.000 16.46 11.28 44.69 4.34
1072 1099 2.497792 TAGCCCAACATGCCAGGGTG 62.498 60.000 16.46 0.00 44.69 4.61
1073 1100 2.681064 CCCAACATGCCAGGGTGG 60.681 66.667 6.42 6.42 41.55 4.61
1074 1101 2.118076 CCAACATGCCAGGGTGGT 59.882 61.111 4.99 0.00 40.46 4.16
1075 1102 1.978617 CCAACATGCCAGGGTGGTC 60.979 63.158 4.99 0.00 40.46 4.02
1076 1103 1.978617 CAACATGCCAGGGTGGTCC 60.979 63.158 0.00 0.00 40.46 4.46
1077 1104 2.468868 AACATGCCAGGGTGGTCCA 61.469 57.895 0.00 0.00 40.46 4.02
1078 1105 2.361610 CATGCCAGGGTGGTCCAC 60.362 66.667 14.13 14.13 40.46 4.02
1093 1120 5.083533 TGGTCCACCAATGCAAAATATTC 57.916 39.130 0.00 0.00 44.35 1.75
1094 1121 4.529769 TGGTCCACCAATGCAAAATATTCA 59.470 37.500 0.00 0.00 44.35 2.57
1095 1122 4.869861 GGTCCACCAATGCAAAATATTCAC 59.130 41.667 0.00 0.00 35.64 3.18
1096 1123 5.477510 GTCCACCAATGCAAAATATTCACA 58.522 37.500 0.00 0.00 0.00 3.58
1097 1124 6.108015 GTCCACCAATGCAAAATATTCACAT 58.892 36.000 0.00 0.00 0.00 3.21
1098 1125 7.264221 GTCCACCAATGCAAAATATTCACATA 58.736 34.615 0.00 0.00 0.00 2.29
1099 1126 7.763528 GTCCACCAATGCAAAATATTCACATAA 59.236 33.333 0.00 0.00 0.00 1.90
1100 1127 8.316946 TCCACCAATGCAAAATATTCACATAAA 58.683 29.630 0.00 0.00 0.00 1.40
1101 1128 9.111613 CCACCAATGCAAAATATTCACATAAAT 57.888 29.630 0.00 0.00 0.00 1.40
1163 1190 9.067963 TGCTATATAGATTATGGGGAAATTCCA 57.932 33.333 14.68 0.00 38.64 3.53
1164 1191 9.566432 GCTATATAGATTATGGGGAAATTCCAG 57.434 37.037 14.68 0.00 38.64 3.86
1166 1193 4.475919 AGATTATGGGGAAATTCCAGGG 57.524 45.455 14.68 0.00 38.64 4.45
1167 1194 3.799578 AGATTATGGGGAAATTCCAGGGT 59.200 43.478 14.68 0.00 38.64 4.34
1168 1195 3.396685 TTATGGGGAAATTCCAGGGTG 57.603 47.619 14.68 0.00 38.64 4.61
1169 1196 0.339510 ATGGGGAAATTCCAGGGTGG 59.660 55.000 14.68 0.00 38.64 4.61
1170 1197 1.077298 TGGGGAAATTCCAGGGTGGT 61.077 55.000 14.68 0.00 38.64 4.16
1171 1198 0.324368 GGGGAAATTCCAGGGTGGTC 60.324 60.000 14.68 0.00 38.64 4.02
1172 1199 0.324368 GGGAAATTCCAGGGTGGTCC 60.324 60.000 14.68 0.00 38.64 4.46
1173 1200 0.407918 GGAAATTCCAGGGTGGTCCA 59.592 55.000 7.23 0.00 39.03 4.02
1174 1201 1.007118 GGAAATTCCAGGGTGGTCCAT 59.993 52.381 7.23 0.00 39.03 3.41
1175 1202 2.102578 GAAATTCCAGGGTGGTCCATG 58.897 52.381 0.00 0.00 44.12 3.66
1186 1213 3.495729 GTCCATGGACCACCCTGT 58.504 61.111 31.37 0.00 39.08 4.00
1187 1214 1.299976 GTCCATGGACCACCCTGTC 59.700 63.158 31.37 5.53 39.08 3.51
1193 1220 3.647771 GACCACCCTGTCCACCCC 61.648 72.222 0.00 0.00 0.00 4.95
1196 1223 2.124085 CACCCTGTCCACCCCCTA 59.876 66.667 0.00 0.00 0.00 3.53
1197 1224 1.995626 CACCCTGTCCACCCCCTAG 60.996 68.421 0.00 0.00 0.00 3.02
1198 1225 2.181773 ACCCTGTCCACCCCCTAGA 61.182 63.158 0.00 0.00 0.00 2.43
1199 1226 1.318380 CCCTGTCCACCCCCTAGAT 59.682 63.158 0.00 0.00 0.00 1.98
1200 1227 0.566176 CCCTGTCCACCCCCTAGATA 59.434 60.000 0.00 0.00 0.00 1.98
1201 1228 1.718280 CCTGTCCACCCCCTAGATAC 58.282 60.000 0.00 0.00 0.00 2.24
1202 1229 1.329256 CTGTCCACCCCCTAGATACG 58.671 60.000 0.00 0.00 0.00 3.06
1203 1230 0.757935 TGTCCACCCCCTAGATACGC 60.758 60.000 0.00 0.00 0.00 4.42
1204 1231 1.152398 TCCACCCCCTAGATACGCC 60.152 63.158 0.00 0.00 0.00 5.68
1205 1232 1.458777 CCACCCCCTAGATACGCCA 60.459 63.158 0.00 0.00 0.00 5.69
1325 1352 0.450583 GGATCGTCTACACGCAGTCA 59.549 55.000 0.00 0.00 46.28 3.41
1331 1358 1.135489 GTCTACACGCAGTCATCGGAA 60.135 52.381 0.00 0.00 41.61 4.30
1338 1365 1.338337 CGCAGTCATCGGAATCCTACT 59.662 52.381 0.00 0.00 0.00 2.57
1906 1933 1.152030 TGGTGTCCTGGAAGCTCCT 60.152 57.895 0.00 0.00 37.46 3.69
2444 2483 0.037605 ACAACCTGCAGTACTACGGC 60.038 55.000 13.81 4.52 39.77 5.68
2487 2534 1.300156 GCGTCGGAGCAGCATATGA 60.300 57.895 6.97 0.00 37.05 2.15
2489 2536 1.280886 CGTCGGAGCAGCATATGAGC 61.281 60.000 6.97 9.64 0.00 4.26
2528 2575 0.820891 GGGAGATGGAGCCGTACGTA 60.821 60.000 15.21 0.00 0.00 3.57
2597 2644 1.693083 GCGTCAACGAGTATGGTGGC 61.693 60.000 6.75 0.00 43.02 5.01
2663 2710 4.756502 AGGCGTACTTCAAGGATAACTTC 58.243 43.478 0.00 0.00 37.29 3.01
2739 2786 1.209990 AGCAGAGCATTCCTCCTCTTG 59.790 52.381 0.00 0.00 41.74 3.02
2825 2872 5.529791 TGAAGAAGTTACTTGACTCGAAGG 58.470 41.667 0.93 0.00 0.00 3.46
2842 2889 4.636648 TCGAAGGACTGAAGTCTAGATGTC 59.363 45.833 10.17 0.00 44.20 3.06
2843 2890 4.201970 CGAAGGACTGAAGTCTAGATGTCC 60.202 50.000 16.81 16.81 44.20 4.02
2848 2895 6.214412 AGGACTGAAGTCTAGATGTCCAAAAT 59.786 38.462 22.01 8.64 44.41 1.82
2850 2897 8.207545 GGACTGAAGTCTAGATGTCCAAAATAT 58.792 37.037 18.35 0.00 44.20 1.28
2917 2964 5.710513 ATTAGAAAATCACTTGTGCTGCA 57.289 34.783 0.00 0.00 0.00 4.41
2951 2998 3.181530 CGACTATCACAAGACCGCTTTTG 60.182 47.826 0.00 0.00 34.00 2.44
2952 2999 3.074412 ACTATCACAAGACCGCTTTTGG 58.926 45.455 0.00 0.00 33.62 3.28
2955 3002 1.673920 TCACAAGACCGCTTTTGGAAC 59.326 47.619 0.00 0.00 33.62 3.62
2977 3024 3.123804 CCCGACTTTTCATCGATACTGG 58.876 50.000 0.00 0.00 42.25 4.00
2989 3036 8.926715 TTCATCGATACTGGATTTATATTCGG 57.073 34.615 0.00 0.00 0.00 4.30
3038 3109 7.698836 ATTATTTGTTCTCAACTGTTTGTGC 57.301 32.000 0.00 0.00 34.02 4.57
3074 3145 1.618345 GGCCATGTTGATTGTACCCCA 60.618 52.381 0.00 0.00 0.00 4.96
3080 3151 2.159382 GTTGATTGTACCCCAGTGTGG 58.841 52.381 0.00 0.00 37.25 4.17
3134 3205 3.316308 GCTAAGATGCAAAATCATCCCGT 59.684 43.478 0.00 0.00 42.84 5.28
3168 3240 0.895530 TCAGAATCGTCTCCACCCAC 59.104 55.000 0.00 0.00 28.78 4.61
3172 3244 0.175760 AATCGTCTCCACCCACATCG 59.824 55.000 0.00 0.00 0.00 3.84
3174 3246 1.153823 CGTCTCCACCCACATCGAC 60.154 63.158 0.00 0.00 0.00 4.20
3176 3248 0.320374 GTCTCCACCCACATCGACAA 59.680 55.000 0.00 0.00 0.00 3.18
3188 3260 4.084328 CCACATCGACAAAGTCTTTCTCAC 60.084 45.833 0.00 0.00 0.00 3.51
3193 3265 5.047847 TCGACAAAGTCTTTCTCACGAAAT 58.952 37.500 0.00 0.00 38.39 2.17
3198 3270 8.827177 ACAAAGTCTTTCTCACGAAATATACA 57.173 30.769 0.00 0.00 38.39 2.29
3205 3277 8.092068 TCTTTCTCACGAAATATACAGAAACCA 58.908 33.333 0.00 0.00 38.39 3.67
3206 3278 7.827819 TTCTCACGAAATATACAGAAACCAG 57.172 36.000 0.00 0.00 0.00 4.00
3207 3279 6.931838 TCTCACGAAATATACAGAAACCAGT 58.068 36.000 0.00 0.00 0.00 4.00
3209 3281 8.525316 TCTCACGAAATATACAGAAACCAGTTA 58.475 33.333 0.00 0.00 0.00 2.24
3240 3312 4.160439 AGAAAGAGAAGATGCGGACATACA 59.840 41.667 0.00 0.00 36.35 2.29
3241 3313 3.724508 AGAGAAGATGCGGACATACAG 57.275 47.619 0.00 0.00 36.35 2.74
3247 3319 1.070758 GATGCGGACATACAGGTGGAT 59.929 52.381 0.00 0.00 36.35 3.41
3270 3342 8.342634 GGATAAACAATGTATATGCGACAAAGT 58.657 33.333 0.00 0.00 0.00 2.66
3271 3343 9.716507 GATAAACAATGTATATGCGACAAAGTT 57.283 29.630 0.00 0.00 32.55 2.66
3295 3367 2.044123 ATAAGCAAAAGCCTCGAGGG 57.956 50.000 32.06 16.36 35.18 4.30
3303 3375 1.128188 AAGCCTCGAGGGTGAAAGGT 61.128 55.000 35.28 16.93 46.73 3.50
3318 3390 1.583054 AAGGTGTGTCGTCTTCTTGC 58.417 50.000 0.00 0.00 0.00 4.01
3329 3401 2.931105 TTCTTGCGGGTAGGGCCA 60.931 61.111 6.18 0.00 39.65 5.36
3368 3440 6.543831 AGTTGAGAAATCACATATTAGGGCAC 59.456 38.462 0.00 0.00 0.00 5.01
3415 3487 4.761975 ACATAATAAACGTCCACGGACAT 58.238 39.130 16.23 0.00 44.77 3.06
3421 3493 3.705043 AACGTCCACGGACATAGATAC 57.295 47.619 16.23 0.00 44.77 2.24
3431 3503 0.882474 ACATAGATACGAGAGCGGGC 59.118 55.000 0.00 0.00 43.17 6.13
3435 3507 1.115930 AGATACGAGAGCGGGCCATT 61.116 55.000 4.39 0.00 43.17 3.16
3445 3517 3.451894 GGGCCATTCAACCCGCTG 61.452 66.667 4.39 0.00 36.07 5.18
3446 3518 2.676471 GGCCATTCAACCCGCTGT 60.676 61.111 0.00 0.00 0.00 4.40
3454 3526 0.881159 TCAACCCGCTGTACCAAACG 60.881 55.000 0.00 0.00 0.00 3.60
3466 3538 3.701040 TGTACCAAACGTCTACCCTATCC 59.299 47.826 0.00 0.00 0.00 2.59
3489 3561 4.684877 GCCCCTGTTTTCGTTTTCTTTTA 58.315 39.130 0.00 0.00 0.00 1.52
3490 3562 5.294356 GCCCCTGTTTTCGTTTTCTTTTAT 58.706 37.500 0.00 0.00 0.00 1.40
3491 3563 5.176774 GCCCCTGTTTTCGTTTTCTTTTATG 59.823 40.000 0.00 0.00 0.00 1.90
3492 3564 6.277605 CCCCTGTTTTCGTTTTCTTTTATGT 58.722 36.000 0.00 0.00 0.00 2.29
3493 3565 6.419710 CCCCTGTTTTCGTTTTCTTTTATGTC 59.580 38.462 0.00 0.00 0.00 3.06
3494 3566 6.419710 CCCTGTTTTCGTTTTCTTTTATGTCC 59.580 38.462 0.00 0.00 0.00 4.02
3495 3567 6.141685 CCTGTTTTCGTTTTCTTTTATGTCCG 59.858 38.462 0.00 0.00 0.00 4.79
3496 3568 5.456173 TGTTTTCGTTTTCTTTTATGTCCGC 59.544 36.000 0.00 0.00 0.00 5.54
3497 3569 4.815040 TTCGTTTTCTTTTATGTCCGCA 57.185 36.364 0.00 0.00 0.00 5.69
3516 3588 5.580691 TCCGCATCACTCAAAATAAGTACAG 59.419 40.000 0.00 0.00 0.00 2.74
3640 3712 8.484641 TTTCAAACATAAATTCAACTTGCACA 57.515 26.923 0.00 0.00 0.00 4.57
3658 3730 4.566545 CACATATGCTCGAGTTCTCTCT 57.433 45.455 15.13 0.00 38.45 3.10
3659 3731 4.930963 CACATATGCTCGAGTTCTCTCTT 58.069 43.478 15.13 0.00 38.45 2.85
3663 3735 7.651304 CACATATGCTCGAGTTCTCTCTTTTAT 59.349 37.037 15.13 0.00 38.45 1.40
3667 3739 6.507900 TGCTCGAGTTCTCTCTTTTATATGG 58.492 40.000 15.13 0.00 38.45 2.74
3699 3771 4.630111 CTCAACCAGATCATTCTAGAGCC 58.370 47.826 0.00 0.00 0.00 4.70
3705 3777 3.056678 CAGATCATTCTAGAGCCGCTCAT 60.057 47.826 22.29 9.89 32.06 2.90
3727 3799 3.055458 TGAGTTCCTCAATGCCGAATACA 60.055 43.478 0.00 0.00 37.57 2.29
3729 3801 4.526970 AGTTCCTCAATGCCGAATACATT 58.473 39.130 0.00 0.00 38.25 2.71
3762 3834 6.098679 TGGATAAAATTTTGGAACATCGCTG 58.901 36.000 13.76 0.00 39.30 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 5.302313 GGATACCATAAAATTTTGGGCCGTA 59.698 40.000 13.76 7.04 37.32 4.02
38 39 4.450976 ACGCCATAGCAGATGATGTAAAA 58.549 39.130 0.39 0.00 39.83 1.52
55 56 2.416162 GGCATCCGAAATTTTTACGCCA 60.416 45.455 12.15 0.00 36.99 5.69
59 60 6.311935 GGTTTTAGGGCATCCGAAATTTTTAC 59.688 38.462 0.00 0.00 37.46 2.01
68 69 2.189676 TGTAGGTTTTAGGGCATCCGA 58.810 47.619 0.00 0.00 38.33 4.55
69 70 2.702592 TGTAGGTTTTAGGGCATCCG 57.297 50.000 0.00 0.00 38.33 4.18
71 72 5.186992 ACCAAAATGTAGGTTTTAGGGCATC 59.813 40.000 0.00 0.00 33.39 3.91
72 73 5.090845 ACCAAAATGTAGGTTTTAGGGCAT 58.909 37.500 0.00 0.00 33.39 4.40
73 74 4.484912 ACCAAAATGTAGGTTTTAGGGCA 58.515 39.130 0.00 0.00 33.39 5.36
74 75 4.081862 GGACCAAAATGTAGGTTTTAGGGC 60.082 45.833 0.00 0.00 38.50 5.19
76 77 5.654603 GGGACCAAAATGTAGGTTTTAGG 57.345 43.478 0.00 0.00 38.50 2.69
95 96 2.787035 ACCCAGAAACAGTTTTAGGGGA 59.213 45.455 27.68 0.00 41.46 4.81
111 112 5.657239 ACAAATGATGTATTGGGCACCCAG 61.657 45.833 8.74 0.00 46.14 4.45
253 257 4.883006 AGTTAGTGCCGTTTCTTTTAACCA 59.117 37.500 0.00 0.00 0.00 3.67
254 258 5.428496 AGTTAGTGCCGTTTCTTTTAACC 57.572 39.130 0.00 0.00 0.00 2.85
268 272 4.116238 GCAGGAGATGAGTTAGTTAGTGC 58.884 47.826 0.00 0.00 0.00 4.40
286 290 5.491982 AGAGTGATGTTTTACTTAGGCAGG 58.508 41.667 0.00 0.00 0.00 4.85
288 292 6.594159 GCTAAGAGTGATGTTTTACTTAGGCA 59.406 38.462 0.00 0.00 37.97 4.75
291 295 8.443937 GTTGGCTAAGAGTGATGTTTTACTTAG 58.556 37.037 0.00 0.00 39.45 2.18
309 313 1.001633 GAGAACACGAGGGTTGGCTAA 59.998 52.381 0.00 0.00 0.00 3.09
463 470 9.174166 ACATGTCCATACAAAGACCTAAATAAC 57.826 33.333 0.00 0.00 39.58 1.89
466 473 7.336931 GTGACATGTCCATACAAAGACCTAAAT 59.663 37.037 22.85 0.00 39.58 1.40
467 474 6.653320 GTGACATGTCCATACAAAGACCTAAA 59.347 38.462 22.85 0.00 39.58 1.85
470 477 4.287067 AGTGACATGTCCATACAAAGACCT 59.713 41.667 22.85 0.00 39.58 3.85
471 478 4.579869 AGTGACATGTCCATACAAAGACC 58.420 43.478 22.85 0.00 39.58 3.85
473 480 7.181569 TCATAGTGACATGTCCATACAAAGA 57.818 36.000 22.85 10.19 39.58 2.52
474 481 6.018425 GCTCATAGTGACATGTCCATACAAAG 60.018 42.308 22.85 12.64 39.58 2.77
475 482 5.817296 GCTCATAGTGACATGTCCATACAAA 59.183 40.000 22.85 7.67 39.58 2.83
489 497 2.501128 GCCTGCCGCTCATAGTGA 59.499 61.111 0.00 0.00 0.00 3.41
532 540 2.682952 AGATATCTTCGCGTACACGG 57.317 50.000 5.77 0.00 40.23 4.94
641 651 2.790433 TGGCTAGTGAATTTGGTGGTC 58.210 47.619 0.00 0.00 0.00 4.02
844 869 1.024046 CGGTTGGTTGCATCGATCCA 61.024 55.000 0.00 0.00 0.00 3.41
933 958 4.615541 GTCGCAACTTATAAACTTGTTGGC 59.384 41.667 13.92 7.84 39.82 4.52
1039 1066 2.586357 GCTAGCTACGCCACTGGC 60.586 66.667 10.35 10.35 46.75 4.85
1040 1067 2.107141 GGCTAGCTACGCCACTGG 59.893 66.667 22.05 0.00 46.77 4.00
1045 1072 1.146263 ATGTTGGGCTAGCTACGCC 59.854 57.895 15.72 19.98 46.83 5.68
1046 1073 1.776034 GCATGTTGGGCTAGCTACGC 61.776 60.000 15.72 6.93 0.00 4.42
1047 1074 1.160329 GGCATGTTGGGCTAGCTACG 61.160 60.000 15.72 1.04 0.00 3.51
1048 1075 0.107214 TGGCATGTTGGGCTAGCTAC 60.107 55.000 15.72 10.98 0.00 3.58
1049 1076 0.181114 CTGGCATGTTGGGCTAGCTA 59.819 55.000 15.72 0.96 33.06 3.32
1050 1077 1.077212 CTGGCATGTTGGGCTAGCT 60.077 57.895 15.72 0.00 33.06 3.32
1051 1078 2.123428 CCTGGCATGTTGGGCTAGC 61.123 63.158 6.04 6.04 38.40 3.42
1052 1079 1.454479 CCCTGGCATGTTGGGCTAG 60.454 63.158 6.83 0.00 39.31 3.42
1053 1080 2.237965 ACCCTGGCATGTTGGGCTA 61.238 57.895 16.24 0.00 44.56 3.93
1054 1081 3.593680 ACCCTGGCATGTTGGGCT 61.594 61.111 16.24 5.04 44.56 5.19
1055 1082 3.384532 CACCCTGGCATGTTGGGC 61.385 66.667 16.24 0.00 44.56 5.36
1056 1083 2.681064 CCACCCTGGCATGTTGGG 60.681 66.667 15.17 15.17 46.07 4.12
1057 1084 1.978617 GACCACCCTGGCATGTTGG 60.979 63.158 4.83 4.83 42.67 3.77
1058 1085 1.978617 GGACCACCCTGGCATGTTG 60.979 63.158 0.00 0.00 42.67 3.33
1059 1086 2.440599 GGACCACCCTGGCATGTT 59.559 61.111 0.00 0.00 42.67 2.71
1060 1087 2.858476 TGGACCACCCTGGCATGT 60.858 61.111 0.00 0.00 42.67 3.21
1061 1088 2.361610 GTGGACCACCCTGGCATG 60.362 66.667 14.16 0.00 42.67 4.06
1071 1098 4.529769 TGAATATTTTGCATTGGTGGACCA 59.470 37.500 0.00 0.00 45.94 4.02
1072 1099 4.869861 GTGAATATTTTGCATTGGTGGACC 59.130 41.667 0.00 0.00 0.00 4.46
1073 1100 5.477510 TGTGAATATTTTGCATTGGTGGAC 58.522 37.500 0.00 0.00 0.00 4.02
1074 1101 5.735285 TGTGAATATTTTGCATTGGTGGA 57.265 34.783 0.00 0.00 0.00 4.02
1075 1102 8.489990 TTTATGTGAATATTTTGCATTGGTGG 57.510 30.769 0.00 0.00 0.00 4.61
1137 1164 9.067963 TGGAATTTCCCCATAATCTATATAGCA 57.932 33.333 12.90 0.00 35.03 3.49
1138 1165 9.566432 CTGGAATTTCCCCATAATCTATATAGC 57.434 37.037 12.90 0.00 35.03 2.97
1140 1167 9.014049 CCCTGGAATTTCCCCATAATCTATATA 57.986 37.037 12.90 0.00 35.03 0.86
1141 1168 7.468830 ACCCTGGAATTTCCCCATAATCTATAT 59.531 37.037 12.90 0.00 35.03 0.86
1142 1169 6.802660 ACCCTGGAATTTCCCCATAATCTATA 59.197 38.462 12.90 0.00 35.03 1.31
1143 1170 5.621329 ACCCTGGAATTTCCCCATAATCTAT 59.379 40.000 12.90 0.00 35.03 1.98
1144 1171 4.988221 ACCCTGGAATTTCCCCATAATCTA 59.012 41.667 12.90 0.00 35.03 1.98
1145 1172 3.799578 ACCCTGGAATTTCCCCATAATCT 59.200 43.478 12.90 0.00 35.03 2.40
1146 1173 3.897505 CACCCTGGAATTTCCCCATAATC 59.102 47.826 12.90 0.00 35.03 1.75
1147 1174 3.375207 CCACCCTGGAATTTCCCCATAAT 60.375 47.826 12.90 0.00 40.96 1.28
1148 1175 2.023501 CCACCCTGGAATTTCCCCATAA 60.024 50.000 12.90 0.00 40.96 1.90
1149 1176 1.573376 CCACCCTGGAATTTCCCCATA 59.427 52.381 12.90 0.00 40.96 2.74
1150 1177 0.339510 CCACCCTGGAATTTCCCCAT 59.660 55.000 12.90 0.00 40.96 4.00
1151 1178 1.077298 ACCACCCTGGAATTTCCCCA 61.077 55.000 12.90 0.00 40.96 4.96
1152 1179 0.324368 GACCACCCTGGAATTTCCCC 60.324 60.000 12.90 0.00 40.96 4.81
1153 1180 0.324368 GGACCACCCTGGAATTTCCC 60.324 60.000 12.90 0.00 40.96 3.97
1154 1181 0.407918 TGGACCACCCTGGAATTTCC 59.592 55.000 8.59 8.59 40.96 3.13
1155 1182 2.102578 CATGGACCACCCTGGAATTTC 58.897 52.381 0.00 0.00 40.96 2.17
1156 1183 2.236489 CATGGACCACCCTGGAATTT 57.764 50.000 0.00 0.00 40.96 1.82
1176 1203 3.647771 GGGGTGGACAGGGTGGTC 61.648 72.222 0.00 0.00 37.06 4.02
1178 1205 3.572715 TAGGGGGTGGACAGGGTGG 62.573 68.421 0.00 0.00 0.00 4.61
1179 1206 1.995626 CTAGGGGGTGGACAGGGTG 60.996 68.421 0.00 0.00 0.00 4.61
1180 1207 1.537478 ATCTAGGGGGTGGACAGGGT 61.537 60.000 0.00 0.00 0.00 4.34
1181 1208 0.566176 TATCTAGGGGGTGGACAGGG 59.434 60.000 0.00 0.00 0.00 4.45
1182 1209 1.718280 GTATCTAGGGGGTGGACAGG 58.282 60.000 0.00 0.00 0.00 4.00
1183 1210 1.329256 CGTATCTAGGGGGTGGACAG 58.671 60.000 0.00 0.00 0.00 3.51
1184 1211 0.757935 GCGTATCTAGGGGGTGGACA 60.758 60.000 0.00 0.00 0.00 4.02
1185 1212 1.470165 GGCGTATCTAGGGGGTGGAC 61.470 65.000 0.00 0.00 0.00 4.02
1186 1213 1.152398 GGCGTATCTAGGGGGTGGA 60.152 63.158 0.00 0.00 0.00 4.02
1187 1214 1.458777 TGGCGTATCTAGGGGGTGG 60.459 63.158 0.00 0.00 0.00 4.61
1188 1215 0.759436 AGTGGCGTATCTAGGGGGTG 60.759 60.000 0.00 0.00 0.00 4.61
1189 1216 0.759436 CAGTGGCGTATCTAGGGGGT 60.759 60.000 0.00 0.00 0.00 4.95
1190 1217 2.050269 CAGTGGCGTATCTAGGGGG 58.950 63.158 0.00 0.00 0.00 5.40
1191 1218 1.367840 GCAGTGGCGTATCTAGGGG 59.632 63.158 0.00 0.00 0.00 4.79
1331 1358 0.532417 CGAGGACGGACGAGTAGGAT 60.532 60.000 0.00 0.00 35.72 3.24
1338 1365 1.004080 AGAACTCGAGGACGGACGA 60.004 57.895 18.41 0.00 40.21 4.20
1542 1569 2.127118 GTCGACGACGGCGAAAGA 60.127 61.111 29.80 10.97 39.73 2.52
1788 1815 1.077501 CCTTGGCGTCCACCATGAT 60.078 57.895 0.00 0.00 40.13 2.45
1826 1853 4.692041 TGGTCCTCCCCCATGGCA 62.692 66.667 6.09 0.00 0.00 4.92
2416 2455 2.432628 GCAGGTTGTAGAGCGCGT 60.433 61.111 8.43 0.00 0.00 6.01
2444 2483 0.105964 TCGTGTTGTCCCACCAGAAG 59.894 55.000 0.00 0.00 31.47 2.85
2502 2549 2.187946 CTCCATCTCCCGGTGCAC 59.812 66.667 8.80 8.80 0.00 4.57
2528 2575 2.697644 CCCCTGGGGCTCTTGGAT 60.698 66.667 21.20 0.00 35.35 3.41
2605 2652 1.511768 GTCTCGTAGCTGGTCCCAC 59.488 63.158 0.00 0.00 0.00 4.61
2606 2653 2.044555 CGTCTCGTAGCTGGTCCCA 61.045 63.158 0.00 0.00 0.00 4.37
2696 2743 3.084786 GTTCCTGAAGAAATCACTGGGG 58.915 50.000 0.00 0.00 35.85 4.96
2739 2786 1.402787 CCATTGCCACCTGGTAATCC 58.597 55.000 0.00 0.00 45.46 3.01
2848 2895 9.126151 TCCACAACAAGTTTGAATTTCACTATA 57.874 29.630 0.00 0.00 0.00 1.31
2850 2897 7.397892 TCCACAACAAGTTTGAATTTCACTA 57.602 32.000 0.00 0.00 0.00 2.74
2869 2916 5.269189 TGAGGAGTAGATTACACATCCACA 58.731 41.667 0.00 0.00 30.79 4.17
2903 2950 1.527034 ACGAATGCAGCACAAGTGAT 58.473 45.000 0.00 0.00 0.00 3.06
2904 2951 1.308047 AACGAATGCAGCACAAGTGA 58.692 45.000 0.00 0.00 0.00 3.41
2905 2952 2.046313 GAAACGAATGCAGCACAAGTG 58.954 47.619 0.00 0.00 0.00 3.16
2906 2953 1.001378 GGAAACGAATGCAGCACAAGT 60.001 47.619 0.00 0.00 0.00 3.16
2951 2998 1.084289 CGATGAAAAGTCGGGGTTCC 58.916 55.000 0.00 0.00 35.55 3.62
2952 2999 2.088950 TCGATGAAAAGTCGGGGTTC 57.911 50.000 0.00 0.00 39.45 3.62
2955 3002 3.123804 CAGTATCGATGAAAAGTCGGGG 58.876 50.000 8.54 0.00 39.45 5.73
2989 3036 9.862371 ATAACTATGACGACAATCTGGATATTC 57.138 33.333 0.00 0.00 0.00 1.75
3029 3100 4.355543 AATGCCTAATACGCACAAACAG 57.644 40.909 0.00 0.00 39.49 3.16
3038 3109 0.040425 GGCCGCAAATGCCTAATACG 60.040 55.000 0.00 0.00 45.70 3.06
3080 3151 4.134563 ACCAACACTCATAGGTTGTTGAC 58.865 43.478 19.37 0.00 42.09 3.18
3134 3205 4.803613 CGATTCTGATCATCGGTTACAACA 59.196 41.667 8.94 0.00 39.94 3.33
3168 3240 3.981416 TCGTGAGAAAGACTTTGTCGATG 59.019 43.478 17.46 12.64 35.85 3.84
3188 3260 8.142994 AGCATAACTGGTTTCTGTATATTTCG 57.857 34.615 0.00 0.00 0.00 3.46
3193 3265 9.143155 TCTCATAGCATAACTGGTTTCTGTATA 57.857 33.333 0.00 0.00 34.31 1.47
3198 3270 7.624549 TCTTTCTCATAGCATAACTGGTTTCT 58.375 34.615 0.00 0.00 34.31 2.52
3205 3277 7.656948 GCATCTTCTCTTTCTCATAGCATAACT 59.343 37.037 0.00 0.00 0.00 2.24
3206 3278 7.359097 CGCATCTTCTCTTTCTCATAGCATAAC 60.359 40.741 0.00 0.00 0.00 1.89
3207 3279 6.644181 CGCATCTTCTCTTTCTCATAGCATAA 59.356 38.462 0.00 0.00 0.00 1.90
3209 3281 4.989797 CGCATCTTCTCTTTCTCATAGCAT 59.010 41.667 0.00 0.00 0.00 3.79
3240 3312 6.426937 GTCGCATATACATTGTTTATCCACCT 59.573 38.462 0.00 0.00 0.00 4.00
3241 3313 6.203915 TGTCGCATATACATTGTTTATCCACC 59.796 38.462 0.00 0.00 0.00 4.61
3247 3319 8.508062 ACAACTTTGTCGCATATACATTGTTTA 58.492 29.630 0.00 0.00 36.50 2.01
3270 3342 3.818210 TCGAGGCTTTTGCTTATTCACAA 59.182 39.130 0.00 0.00 46.54 3.33
3271 3343 3.407698 TCGAGGCTTTTGCTTATTCACA 58.592 40.909 0.00 0.00 46.54 3.58
3295 3367 2.822764 AGAAGACGACACACCTTTCAC 58.177 47.619 0.00 0.00 0.00 3.18
3303 3375 1.300620 CCCGCAAGAAGACGACACA 60.301 57.895 0.00 0.00 43.02 3.72
3318 3390 0.396811 CTCCTTATTGGCCCTACCCG 59.603 60.000 0.00 0.00 37.83 5.28
3329 3401 9.354673 TGATTTCTCAACTTGTTTCTCCTTATT 57.645 29.630 0.00 0.00 0.00 1.40
3368 3440 0.322997 TTTGGGTACGCCATTGGAGG 60.323 55.000 6.95 0.00 36.17 4.30
3406 3478 2.095668 GCTCTCGTATCTATGTCCGTGG 60.096 54.545 0.00 0.00 0.00 4.94
3415 3487 0.251209 ATGGCCCGCTCTCGTATCTA 60.251 55.000 0.00 0.00 0.00 1.98
3421 3493 2.125147 TTGAATGGCCCGCTCTCG 60.125 61.111 0.00 0.00 0.00 4.04
3431 3503 0.322098 TGGTACAGCGGGTTGAATGG 60.322 55.000 0.00 0.00 0.00 3.16
3435 3507 0.881159 CGTTTGGTACAGCGGGTTGA 60.881 55.000 0.00 0.00 42.39 3.18
3442 3514 1.274447 AGGGTAGACGTTTGGTACAGC 59.726 52.381 0.00 0.00 42.39 4.40
3445 3517 3.243201 CGGATAGGGTAGACGTTTGGTAC 60.243 52.174 0.00 0.00 0.00 3.34
3446 3518 2.951642 CGGATAGGGTAGACGTTTGGTA 59.048 50.000 0.00 0.00 0.00 3.25
3454 3526 1.155624 AGGGGCGGATAGGGTAGAC 59.844 63.158 0.00 0.00 0.00 2.59
3466 3538 0.666374 AGAAAACGAAAACAGGGGCG 59.334 50.000 0.00 0.00 0.00 6.13
3489 3561 4.943705 ACTTATTTTGAGTGATGCGGACAT 59.056 37.500 0.00 0.00 39.98 3.06
3490 3562 4.323417 ACTTATTTTGAGTGATGCGGACA 58.677 39.130 0.00 0.00 0.00 4.02
3491 3563 4.946784 ACTTATTTTGAGTGATGCGGAC 57.053 40.909 0.00 0.00 0.00 4.79
3492 3564 5.483811 TGTACTTATTTTGAGTGATGCGGA 58.516 37.500 0.00 0.00 0.00 5.54
3493 3565 5.580691 TCTGTACTTATTTTGAGTGATGCGG 59.419 40.000 0.00 0.00 0.00 5.69
3494 3566 6.647212 TCTGTACTTATTTTGAGTGATGCG 57.353 37.500 0.00 0.00 0.00 4.73
3640 3712 9.853555 CATATAAAAGAGAGAACTCGAGCATAT 57.146 33.333 13.61 0.00 46.64 1.78
3645 3717 5.923684 GGCCATATAAAAGAGAGAACTCGAG 59.076 44.000 11.84 11.84 46.64 4.04
3647 3719 5.463724 GTGGCCATATAAAAGAGAGAACTCG 59.536 44.000 9.72 0.00 46.64 4.18
3652 3724 6.039717 GCATTTGTGGCCATATAAAAGAGAGA 59.960 38.462 9.72 0.00 0.00 3.10
3658 3730 5.929058 TGAGCATTTGTGGCCATATAAAA 57.071 34.783 9.72 8.52 0.00 1.52
3659 3731 5.395103 GGTTGAGCATTTGTGGCCATATAAA 60.395 40.000 9.72 11.94 0.00 1.40
3663 3735 1.824230 GGTTGAGCATTTGTGGCCATA 59.176 47.619 9.72 1.91 0.00 2.74
3667 3739 0.961019 TCTGGTTGAGCATTTGTGGC 59.039 50.000 0.00 0.00 0.00 5.01
3727 3799 9.463902 TCCAAAATTTTATCCAAATGCATCAAT 57.536 25.926 0.00 0.00 35.09 2.57
3729 3801 8.728833 GTTCCAAAATTTTATCCAAATGCATCA 58.271 29.630 0.00 0.00 35.09 3.07
3749 3821 2.352617 GCAAAATCCAGCGATGTTCCAA 60.353 45.455 0.00 0.00 0.00 3.53
3751 3823 1.474077 AGCAAAATCCAGCGATGTTCC 59.526 47.619 0.00 0.00 35.48 3.62


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

AutoCloner maintained by Alex Coulton.