Multiple sequence alignment - TraesCS6B01G191500

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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 TraesCS6B01G191500 chr6B 100.000 3111 0 0 1 3111 225866206 225869316 0.000000e+00 5746
1 TraesCS6B01G191500 chr6B 99.174 121 1 0 2789 2909 341547695 341547815 5.220000e-53 219
2 TraesCS6B01G191500 chr6B 99.167 120 1 0 2789 2908 171973686 171973805 1.880000e-52 217
3 TraesCS6B01G191500 chr6B 88.235 102 10 2 2358 2457 457218398 457218499 1.520000e-23 121
4 TraesCS6B01G191500 chr6D 97.267 1171 26 4 1 1171 126869799 126870963 0.000000e+00 1980
5 TraesCS6B01G191500 chr6D 95.648 1080 32 7 1278 2357 126870965 126872029 0.000000e+00 1720
6 TraesCS6B01G191500 chr6D 94.554 202 11 0 2910 3111 126872423 126872624 2.330000e-81 313
7 TraesCS6B01G191500 chr6D 94.798 173 5 2 2451 2622 126872049 126872218 1.840000e-67 267
8 TraesCS6B01G191500 chr6D 91.515 165 11 3 2628 2790 126872272 126872435 1.120000e-54 224
9 TraesCS6B01G191500 chr6A 95.396 1086 40 5 1281 2360 152061640 152060559 0.000000e+00 1720
10 TraesCS6B01G191500 chr6A 97.706 654 15 0 518 1171 152062298 152061645 0.000000e+00 1125
11 TraesCS6B01G191500 chr6A 98.925 279 3 0 196 474 152063033 152062755 1.670000e-137 499
12 TraesCS6B01G191500 chr6A 96.059 203 8 0 2909 3111 152060190 152059988 6.430000e-87 331
13 TraesCS6B01G191500 chr6A 96.970 198 5 1 1 198 152063311 152063115 6.430000e-87 331
14 TraesCS6B01G191500 chr3A 100.000 121 0 0 2789 2909 708952472 708952352 1.120000e-54 224
15 TraesCS6B01G191500 chr2B 100.000 121 0 0 2789 2909 492706898 492707018 1.120000e-54 224
16 TraesCS6B01G191500 chr2B 97.368 114 2 1 1168 1281 25365982 25366094 3.170000e-45 193
17 TraesCS6B01G191500 chr2B 98.148 108 2 0 1170 1277 154145905 154146012 4.100000e-44 189
18 TraesCS6B01G191500 chr2B 86.139 101 12 2 2357 2456 40493837 40493738 1.180000e-19 108
19 TraesCS6B01G191500 chr1A 100.000 121 0 0 2789 2909 204838153 204838033 1.120000e-54 224
20 TraesCS6B01G191500 chr1A 98.148 108 2 0 1170 1277 119717404 119717297 4.100000e-44 189
21 TraesCS6B01G191500 chr1A 85.106 141 17 4 1946 2084 566564801 566564939 1.160000e-29 141
22 TraesCS6B01G191500 chr5D 99.174 121 1 0 2789 2909 519818286 519818166 5.220000e-53 219
23 TraesCS6B01G191500 chr5D 83.688 141 19 4 1946 2084 438360600 438360738 2.520000e-26 130
24 TraesCS6B01G191500 chr4A 99.174 121 1 0 2789 2909 275123024 275122904 5.220000e-53 219
25 TraesCS6B01G191500 chr1B 99.174 121 1 0 2789 2909 15344006 15343886 5.220000e-53 219
26 TraesCS6B01G191500 chr1B 84.507 142 16 6 1946 2084 657272693 657272831 5.410000e-28 135
27 TraesCS6B01G191500 chr2A 94.245 139 6 2 2781 2918 716884420 716884283 8.740000e-51 211
28 TraesCS6B01G191500 chr2A 95.690 116 5 0 1162 1277 16547054 16546939 1.470000e-43 187
29 TraesCS6B01G191500 chr2A 89.524 105 10 1 2354 2457 515503784 515503680 7.000000e-27 132
30 TraesCS6B01G191500 chr4B 100.000 108 0 0 1170 1277 628505267 628505160 1.890000e-47 200
31 TraesCS6B01G191500 chr5B 97.414 116 2 1 1168 1283 558558587 558558701 2.450000e-46 196
32 TraesCS6B01G191500 chr5B 84.397 141 18 4 1946 2084 532877282 532877420 5.410000e-28 135
33 TraesCS6B01G191500 chr5B 80.576 139 25 2 1947 2084 638344605 638344468 4.240000e-19 106
34 TraesCS6B01G191500 chr5A 98.182 110 2 0 1168 1277 350570287 350570178 3.170000e-45 193
35 TraesCS6B01G191500 chr5A 85.106 141 17 4 1946 2084 553421511 553421649 1.160000e-29 141
36 TraesCS6B01G191500 chr4D 96.552 116 4 0 1162 1277 127149703 127149818 3.170000e-45 193
37 TraesCS6B01G191500 chr4D 87.619 105 11 2 2354 2457 82567651 82567754 1.520000e-23 121
38 TraesCS6B01G191500 chr4D 86.275 102 11 3 2358 2457 166011968 166011868 1.180000e-19 108
39 TraesCS6B01G191500 chr7A 93.600 125 6 2 1160 1283 15276653 15276530 5.300000e-43 185
40 TraesCS6B01G191500 chr1D 85.816 141 16 4 1946 2084 472561544 472561682 2.500000e-31 147
41 TraesCS6B01G191500 chr7D 90.099 101 9 1 2358 2457 412475276 412475176 2.520000e-26 130
42 TraesCS6B01G191500 chr7B 90.099 101 9 1 2358 2457 158013597 158013697 2.520000e-26 130
43 TraesCS6B01G191500 chr3B 88.119 101 11 1 2358 2457 24919135 24919035 5.450000e-23 119
44 TraesCS6B01G191500 chr3B 88.119 101 11 1 2358 2457 519364395 519364295 5.450000e-23 119


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 TraesCS6B01G191500 chr6B 225866206 225869316 3110 False 5746.0 5746 100.0000 1 3111 1 chr6B.!!$F2 3110
1 TraesCS6B01G191500 chr6D 126869799 126872624 2825 False 900.8 1980 94.7564 1 3111 5 chr6D.!!$F1 3110
2 TraesCS6B01G191500 chr6A 152059988 152063311 3323 True 801.2 1720 97.0112 1 3111 5 chr6A.!!$R1 3110

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
973 1472 1.363443 CTGCCTCATCTCTCGGAGC 59.637 63.158 0.0 0.0 0.0 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2854 3422 0.108615 CGACCACTGACTGATGGACC 60.109 60.0 0.0 0.0 39.46 4.46 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
67 68 7.028962 GCATTGCACTGTCATAGTTTTTCATA 58.971 34.615 3.15 0.00 37.60 2.15
118 119 6.435277 AGATCTGATTAAACAACAGTGCCATT 59.565 34.615 0.00 0.00 33.93 3.16
478 562 7.129109 TGAAAATTCACTTTGGTCTCGTATC 57.871 36.000 0.00 0.00 31.01 2.24
492 576 3.067601 TCTCGTATCACCGCACACAATAT 59.932 43.478 0.00 0.00 0.00 1.28
505 589 4.617298 GCACACAATATTAACCGCCAAAGT 60.617 41.667 0.00 0.00 0.00 2.66
624 1121 6.577838 GCAACCATGATATCTCATATCCCACT 60.578 42.308 3.98 0.00 40.20 4.00
666 1163 5.104374 CAGACACAAAAATTGCAACTGTCT 58.896 37.500 0.00 8.38 41.25 3.41
667 1164 5.005012 CAGACACAAAAATTGCAACTGTCTG 59.995 40.000 21.83 21.83 45.77 3.51
850 1349 5.130311 TCACATCGGAATAAGATTTCCCTGA 59.870 40.000 7.19 0.00 41.87 3.86
972 1471 2.040330 CCTGCCTCATCTCTCGGAG 58.960 63.158 0.00 0.00 0.00 4.63
973 1472 1.363443 CTGCCTCATCTCTCGGAGC 59.637 63.158 0.00 0.00 0.00 4.70
974 1473 1.380380 TGCCTCATCTCTCGGAGCA 60.380 57.895 0.00 0.00 0.00 4.26
979 1478 1.592131 CATCTCTCGGAGCAGCAGC 60.592 63.158 0.00 0.00 42.56 5.25
1038 1540 2.932194 TCTGGGAGGCAGCTGCTT 60.932 61.111 35.82 30.90 41.70 3.91
1151 1653 0.101399 AGTTCGACTCTAGCCATGCG 59.899 55.000 0.00 0.00 0.00 4.73
1171 1673 3.623060 GCGGCATGTTTTCTTCTGATCTA 59.377 43.478 0.00 0.00 0.00 1.98
1172 1674 4.494855 GCGGCATGTTTTCTTCTGATCTAC 60.495 45.833 0.00 0.00 0.00 2.59
1173 1675 4.872691 CGGCATGTTTTCTTCTGATCTACT 59.127 41.667 0.00 0.00 0.00 2.57
1174 1676 5.006165 CGGCATGTTTTCTTCTGATCTACTC 59.994 44.000 0.00 0.00 0.00 2.59
1175 1677 5.295540 GGCATGTTTTCTTCTGATCTACTCC 59.704 44.000 0.00 0.00 0.00 3.85
1176 1678 5.295540 GCATGTTTTCTTCTGATCTACTCCC 59.704 44.000 0.00 0.00 0.00 4.30
1177 1679 6.648192 CATGTTTTCTTCTGATCTACTCCCT 58.352 40.000 0.00 0.00 0.00 4.20
1178 1680 6.287589 TGTTTTCTTCTGATCTACTCCCTC 57.712 41.667 0.00 0.00 0.00 4.30
1179 1681 5.187967 TGTTTTCTTCTGATCTACTCCCTCC 59.812 44.000 0.00 0.00 0.00 4.30
1180 1682 3.216187 TCTTCTGATCTACTCCCTCCG 57.784 52.381 0.00 0.00 0.00 4.63
1181 1683 2.510382 TCTTCTGATCTACTCCCTCCGT 59.490 50.000 0.00 0.00 0.00 4.69
1182 1684 3.053544 TCTTCTGATCTACTCCCTCCGTT 60.054 47.826 0.00 0.00 0.00 4.44
1183 1685 2.933573 TCTGATCTACTCCCTCCGTTC 58.066 52.381 0.00 0.00 0.00 3.95
1184 1686 1.604755 CTGATCTACTCCCTCCGTTCG 59.395 57.143 0.00 0.00 0.00 3.95
1185 1687 0.953003 GATCTACTCCCTCCGTTCGG 59.047 60.000 4.74 4.74 0.00 4.30
1186 1688 0.549950 ATCTACTCCCTCCGTTCGGA 59.450 55.000 13.34 13.34 0.00 4.55
1187 1689 0.329261 TCTACTCCCTCCGTTCGGAA 59.671 55.000 14.79 0.04 33.41 4.30
1188 1690 1.064166 TCTACTCCCTCCGTTCGGAAT 60.064 52.381 14.79 2.09 33.41 3.01
1189 1691 1.755380 CTACTCCCTCCGTTCGGAATT 59.245 52.381 14.79 0.00 33.41 2.17
1190 1692 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
1191 1693 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
1192 1694 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
1193 1695 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
1194 1696 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
1195 1697 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
1196 1698 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
1197 1699 3.368116 CCTCCGTTCGGAATTACTTGTCT 60.368 47.826 14.79 0.00 33.41 3.41
1198 1700 3.841643 TCCGTTCGGAATTACTTGTCTC 58.158 45.455 11.66 0.00 0.00 3.36
1199 1701 2.597305 CCGTTCGGAATTACTTGTCTCG 59.403 50.000 5.19 0.00 0.00 4.04
1200 1702 3.495193 CGTTCGGAATTACTTGTCTCGA 58.505 45.455 0.00 0.00 0.00 4.04
1201 1703 3.916172 CGTTCGGAATTACTTGTCTCGAA 59.084 43.478 0.00 0.00 33.66 3.71
1202 1704 4.383649 CGTTCGGAATTACTTGTCTCGAAA 59.616 41.667 0.00 0.00 37.00 3.46
1203 1705 5.107760 CGTTCGGAATTACTTGTCTCGAAAA 60.108 40.000 0.00 0.00 37.00 2.29
1204 1706 6.400727 CGTTCGGAATTACTTGTCTCGAAAAT 60.401 38.462 0.00 0.00 37.00 1.82
1205 1707 6.403333 TCGGAATTACTTGTCTCGAAAATG 57.597 37.500 0.00 0.00 0.00 2.32
1206 1708 5.350365 TCGGAATTACTTGTCTCGAAAATGG 59.650 40.000 0.00 0.00 0.00 3.16
1207 1709 5.350365 CGGAATTACTTGTCTCGAAAATGGA 59.650 40.000 0.00 0.00 0.00 3.41
1208 1710 6.037172 CGGAATTACTTGTCTCGAAAATGGAT 59.963 38.462 0.00 0.00 0.00 3.41
1209 1711 7.189512 GGAATTACTTGTCTCGAAAATGGATG 58.810 38.462 0.00 0.00 0.00 3.51
1210 1712 7.148239 GGAATTACTTGTCTCGAAAATGGATGT 60.148 37.037 0.00 0.00 0.00 3.06
1211 1713 8.786826 AATTACTTGTCTCGAAAATGGATGTA 57.213 30.769 0.00 0.00 0.00 2.29
1212 1714 8.964476 ATTACTTGTCTCGAAAATGGATGTAT 57.036 30.769 0.00 0.00 0.00 2.29
1213 1715 6.910536 ACTTGTCTCGAAAATGGATGTATC 57.089 37.500 0.00 0.00 0.00 2.24
1214 1716 6.644347 ACTTGTCTCGAAAATGGATGTATCT 58.356 36.000 0.00 0.00 0.00 1.98
1215 1717 7.782049 ACTTGTCTCGAAAATGGATGTATCTA 58.218 34.615 0.00 0.00 0.00 1.98
1216 1718 7.923344 ACTTGTCTCGAAAATGGATGTATCTAG 59.077 37.037 0.00 0.00 0.00 2.43
1217 1719 7.582667 TGTCTCGAAAATGGATGTATCTAGA 57.417 36.000 0.00 0.00 0.00 2.43
1218 1720 8.007405 TGTCTCGAAAATGGATGTATCTAGAA 57.993 34.615 0.00 0.00 0.00 2.10
1219 1721 7.921214 TGTCTCGAAAATGGATGTATCTAGAAC 59.079 37.037 0.00 0.00 0.00 3.01
1220 1722 8.138712 GTCTCGAAAATGGATGTATCTAGAACT 58.861 37.037 0.00 0.00 0.00 3.01
1221 1723 8.353684 TCTCGAAAATGGATGTATCTAGAACTC 58.646 37.037 0.00 0.00 0.00 3.01
1222 1724 8.007405 TCGAAAATGGATGTATCTAGAACTCA 57.993 34.615 0.00 0.00 0.00 3.41
1223 1725 8.474831 TCGAAAATGGATGTATCTAGAACTCAA 58.525 33.333 0.00 0.00 0.00 3.02
1224 1726 9.098355 CGAAAATGGATGTATCTAGAACTCAAA 57.902 33.333 0.00 0.00 0.00 2.69
1228 1730 9.698309 AATGGATGTATCTAGAACTCAAATACG 57.302 33.333 0.00 0.00 0.00 3.06
1229 1731 8.234136 TGGATGTATCTAGAACTCAAATACGT 57.766 34.615 0.00 0.00 0.00 3.57
1230 1732 8.350722 TGGATGTATCTAGAACTCAAATACGTC 58.649 37.037 0.00 3.99 37.78 4.34
1231 1733 8.569641 GGATGTATCTAGAACTCAAATACGTCT 58.430 37.037 14.68 0.00 38.23 4.18
1234 1736 9.828039 TGTATCTAGAACTCAAATACGTCTAGA 57.172 33.333 10.27 10.27 38.94 2.43
1238 1740 9.828039 TCTAGAACTCAAATACGTCTAGATACA 57.172 33.333 0.00 0.00 32.48 2.29
1241 1743 8.569641 AGAACTCAAATACGTCTAGATACATCC 58.430 37.037 0.00 0.00 0.00 3.51
1242 1744 7.818997 ACTCAAATACGTCTAGATACATCCA 57.181 36.000 0.00 0.00 0.00 3.41
1243 1745 8.410673 ACTCAAATACGTCTAGATACATCCAT 57.589 34.615 0.00 0.00 0.00 3.41
1244 1746 8.516234 ACTCAAATACGTCTAGATACATCCATC 58.484 37.037 0.00 0.00 0.00 3.51
1245 1747 8.637196 TCAAATACGTCTAGATACATCCATCT 57.363 34.615 0.00 0.00 38.76 2.90
1246 1748 8.731605 TCAAATACGTCTAGATACATCCATCTC 58.268 37.037 0.00 0.00 36.63 2.75
1247 1749 8.735315 CAAATACGTCTAGATACATCCATCTCT 58.265 37.037 0.00 0.00 36.63 3.10
1248 1750 7.857734 ATACGTCTAGATACATCCATCTCTG 57.142 40.000 0.00 0.00 36.63 3.35
1249 1751 4.457603 ACGTCTAGATACATCCATCTCTGC 59.542 45.833 0.00 0.00 36.63 4.26
1250 1752 4.436718 CGTCTAGATACATCCATCTCTGCG 60.437 50.000 0.00 0.00 36.63 5.18
1251 1753 4.697828 GTCTAGATACATCCATCTCTGCGA 59.302 45.833 0.00 0.00 36.63 5.10
1252 1754 3.932545 AGATACATCCATCTCTGCGAC 57.067 47.619 0.00 0.00 28.83 5.19
1253 1755 3.225940 AGATACATCCATCTCTGCGACA 58.774 45.455 0.00 0.00 28.83 4.35
1254 1756 3.638627 AGATACATCCATCTCTGCGACAA 59.361 43.478 0.00 0.00 28.83 3.18
1255 1757 2.306341 ACATCCATCTCTGCGACAAG 57.694 50.000 0.00 0.00 0.00 3.16
1256 1758 1.552337 ACATCCATCTCTGCGACAAGT 59.448 47.619 0.00 0.00 0.00 3.16
1257 1759 2.760650 ACATCCATCTCTGCGACAAGTA 59.239 45.455 0.00 0.00 0.00 2.24
1258 1760 3.195610 ACATCCATCTCTGCGACAAGTAA 59.804 43.478 0.00 0.00 0.00 2.24
1259 1761 4.141846 ACATCCATCTCTGCGACAAGTAAT 60.142 41.667 0.00 0.00 0.00 1.89
1260 1762 4.471904 TCCATCTCTGCGACAAGTAATT 57.528 40.909 0.00 0.00 0.00 1.40
1261 1763 4.433615 TCCATCTCTGCGACAAGTAATTC 58.566 43.478 0.00 0.00 0.00 2.17
1262 1764 3.557595 CCATCTCTGCGACAAGTAATTCC 59.442 47.826 0.00 0.00 0.00 3.01
1263 1765 2.876091 TCTCTGCGACAAGTAATTCCG 58.124 47.619 0.00 0.00 0.00 4.30
1264 1766 2.490509 TCTCTGCGACAAGTAATTCCGA 59.509 45.455 0.00 0.00 0.00 4.55
1265 1767 3.057104 TCTCTGCGACAAGTAATTCCGAA 60.057 43.478 0.00 0.00 0.00 4.30
1266 1768 2.991190 TCTGCGACAAGTAATTCCGAAC 59.009 45.455 0.00 0.00 0.00 3.95
1267 1769 1.722464 TGCGACAAGTAATTCCGAACG 59.278 47.619 0.00 0.00 0.00 3.95
1268 1770 1.060122 GCGACAAGTAATTCCGAACGG 59.940 52.381 6.94 6.94 0.00 4.44
1269 1771 2.598589 CGACAAGTAATTCCGAACGGA 58.401 47.619 12.04 12.04 43.52 4.69
1270 1772 2.597305 CGACAAGTAATTCCGAACGGAG 59.403 50.000 15.34 5.60 46.06 4.63
1271 1773 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
1272 1774 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
1273 1775 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
1274 1776 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
1275 1777 1.479730 GTAATTCCGAACGGAGGGAGT 59.520 52.381 15.34 4.12 46.06 3.85
1276 1778 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
1279 1781 1.856629 TCCGAACGGAGGGAGTAATT 58.143 50.000 12.04 0.00 39.76 1.40
1286 1788 2.959707 ACGGAGGGAGTAATTAGAGCTG 59.040 50.000 0.00 0.00 0.00 4.24
1295 1797 2.706339 AATTAGAGCTGGCTGGAGTG 57.294 50.000 0.00 0.00 0.00 3.51
1297 1799 1.903877 TTAGAGCTGGCTGGAGTGGC 61.904 60.000 0.00 0.00 0.00 5.01
1299 1801 2.284921 AGCTGGCTGGAGTGGCTA 60.285 61.111 0.00 0.00 0.00 3.93
1310 1812 4.749976 CTGGAGTGGCTACTAACTTTCTC 58.250 47.826 1.28 0.00 37.25 2.87
1314 1816 6.183361 TGGAGTGGCTACTAACTTTCTCTTTT 60.183 38.462 1.28 0.00 37.25 2.27
1315 1817 6.147985 GGAGTGGCTACTAACTTTCTCTTTTG 59.852 42.308 1.28 0.00 37.25 2.44
1383 1885 0.616111 AGCAGTCCCTCACCTACCTG 60.616 60.000 0.00 0.00 0.00 4.00
1408 1910 2.431942 CGTAAGTCTTGGCGCCGT 60.432 61.111 23.90 4.84 0.00 5.68
1414 1916 1.019278 AGTCTTGGCGCCGTAACATG 61.019 55.000 23.90 6.09 0.00 3.21
1420 1922 0.372334 GGCGCCGTAACATGTTACAG 59.628 55.000 35.70 29.37 44.12 2.74
1432 1934 5.414789 ACATGTTACAGCTGGTGTATGTA 57.585 39.130 19.93 11.13 41.45 2.29
1434 1936 5.817296 ACATGTTACAGCTGGTGTATGTATG 59.183 40.000 19.93 21.35 41.45 2.39
1464 1966 3.638160 TGTGGCAAAGAGAAGCTGATTTT 59.362 39.130 0.00 0.00 0.00 1.82
1485 1987 0.104120 GAGGTGTTGGGTTTTGTGCC 59.896 55.000 0.00 0.00 0.00 5.01
1696 2198 3.699134 GATCCCGTGGTTCCAGGCC 62.699 68.421 0.00 0.00 0.00 5.19
2119 2621 2.678336 CAAGTTCCACTAGGCGAAATCC 59.322 50.000 0.00 0.00 33.74 3.01
2310 2812 4.115401 TCTCTCATCATCTTCACCAACG 57.885 45.455 0.00 0.00 0.00 4.10
2347 2855 1.486726 CCCGCTCCTCTTCTGGTTATT 59.513 52.381 0.00 0.00 0.00 1.40
2357 2865 4.827692 TCTTCTGGTTATTGTACGTGCAT 58.172 39.130 7.30 0.56 0.00 3.96
2360 2868 5.950758 TCTGGTTATTGTACGTGCATTTT 57.049 34.783 7.30 0.00 0.00 1.82
2361 2869 6.320494 TCTGGTTATTGTACGTGCATTTTT 57.680 33.333 7.30 0.00 0.00 1.94
2382 2890 7.892778 TTTTTGCATAGTAATACGTGTCTCA 57.107 32.000 0.00 0.00 0.00 3.27
2383 2891 8.487313 TTTTTGCATAGTAATACGTGTCTCAT 57.513 30.769 0.00 0.00 0.00 2.90
2384 2892 8.487313 TTTTGCATAGTAATACGTGTCTCATT 57.513 30.769 0.00 0.00 0.00 2.57
2385 2893 8.487313 TTTGCATAGTAATACGTGTCTCATTT 57.513 30.769 0.00 0.00 0.00 2.32
2386 2894 9.589111 TTTGCATAGTAATACGTGTCTCATTTA 57.411 29.630 0.00 0.00 0.00 1.40
2387 2895 9.758651 TTGCATAGTAATACGTGTCTCATTTAT 57.241 29.630 0.00 0.00 0.00 1.40
2399 2907 9.477484 ACGTGTCTCATTTATATCATAAAGGTC 57.523 33.333 0.00 0.00 0.00 3.85
2400 2908 9.476202 CGTGTCTCATTTATATCATAAAGGTCA 57.524 33.333 3.97 1.43 0.00 4.02
2413 2921 8.732746 ATCATAAAGGTCATAGTACAAACCAC 57.267 34.615 0.00 0.00 34.09 4.16
2414 2922 6.814644 TCATAAAGGTCATAGTACAAACCACG 59.185 38.462 0.00 0.00 34.09 4.94
2415 2923 4.612264 AAGGTCATAGTACAAACCACGT 57.388 40.909 0.00 0.00 34.09 4.49
2416 2924 5.726980 AAGGTCATAGTACAAACCACGTA 57.273 39.130 0.00 0.00 34.09 3.57
2417 2925 5.064441 AGGTCATAGTACAAACCACGTAC 57.936 43.478 0.00 0.00 39.64 3.67
2418 2926 4.523943 AGGTCATAGTACAAACCACGTACA 59.476 41.667 0.00 0.00 41.40 2.90
2419 2927 5.010922 AGGTCATAGTACAAACCACGTACAA 59.989 40.000 0.00 0.00 41.40 2.41
2420 2928 5.695816 GGTCATAGTACAAACCACGTACAAA 59.304 40.000 0.00 0.00 41.40 2.83
2421 2929 6.346838 GGTCATAGTACAAACCACGTACAAAC 60.347 42.308 0.00 0.00 41.40 2.93
2422 2930 5.695816 TCATAGTACAAACCACGTACAAACC 59.304 40.000 0.00 0.00 41.40 3.27
2423 2931 2.865551 AGTACAAACCACGTACAAACCG 59.134 45.455 0.00 0.00 41.40 4.44
2424 2932 2.021355 ACAAACCACGTACAAACCGA 57.979 45.000 0.00 0.00 0.00 4.69
2425 2933 2.563702 ACAAACCACGTACAAACCGAT 58.436 42.857 0.00 0.00 0.00 4.18
2426 2934 2.545106 ACAAACCACGTACAAACCGATC 59.455 45.455 0.00 0.00 0.00 3.69
2427 2935 2.803956 CAAACCACGTACAAACCGATCT 59.196 45.455 0.00 0.00 0.00 2.75
2428 2936 2.074547 ACCACGTACAAACCGATCTG 57.925 50.000 0.00 0.00 0.00 2.90
2429 2937 1.614903 ACCACGTACAAACCGATCTGA 59.385 47.619 0.00 0.00 0.00 3.27
2430 2938 2.036217 ACCACGTACAAACCGATCTGAA 59.964 45.455 0.00 0.00 0.00 3.02
2431 2939 3.061322 CCACGTACAAACCGATCTGAAA 58.939 45.455 0.00 0.00 0.00 2.69
2432 2940 3.495377 CCACGTACAAACCGATCTGAAAA 59.505 43.478 0.00 0.00 0.00 2.29
2433 2941 4.024725 CCACGTACAAACCGATCTGAAAAA 60.025 41.667 0.00 0.00 0.00 1.94
2453 2961 5.509605 AAAACTGAAAAGACAACAAACGC 57.490 34.783 0.00 0.00 0.00 4.84
2461 2969 1.202651 AGACAACAAACGCTAGTGGCT 60.203 47.619 8.42 0.00 39.13 4.75
2469 2982 3.611766 AACGCTAGTGGCTGTATCTTT 57.388 42.857 8.42 0.00 39.13 2.52
2632 3199 1.486997 ATCTGAGTGGCTGTGGCTGT 61.487 55.000 0.00 0.00 38.73 4.40
2651 3218 4.938226 GCTGTGGTTTCTTCTATGCTTACT 59.062 41.667 0.00 0.00 0.00 2.24
2698 3265 1.601914 GCCAAGAAACGCGTTGGAATT 60.602 47.619 27.40 16.23 45.35 2.17
2711 3278 2.301583 GTTGGAATTGGGCCAGCTTTTA 59.698 45.455 6.23 0.00 36.64 1.52
2739 3307 0.311165 AGGTTAGATCATCCGCGACG 59.689 55.000 8.23 0.00 0.00 5.12
2768 3336 1.733061 GCCGTCTTCTTTCGTCTCTCC 60.733 57.143 0.00 0.00 0.00 3.71
2802 3370 4.479993 CCAGAAGCGGCTCCCCTG 62.480 72.222 1.45 11.05 0.00 4.45
2803 3371 3.393970 CAGAAGCGGCTCCCCTGA 61.394 66.667 16.88 0.00 0.00 3.86
2804 3372 3.394836 AGAAGCGGCTCCCCTGAC 61.395 66.667 1.45 0.00 0.00 3.51
2805 3373 4.821589 GAAGCGGCTCCCCTGACG 62.822 72.222 1.45 0.00 42.16 4.35
2848 3416 2.362889 CCATGTGGGCCTGTTCCC 60.363 66.667 4.53 0.00 46.73 3.97
2849 3417 2.362889 CATGTGGGCCTGTTCCCC 60.363 66.667 4.53 0.00 45.97 4.81
2850 3418 4.047125 ATGTGGGCCTGTTCCCCG 62.047 66.667 4.53 0.00 45.95 5.73
2852 3420 3.728373 GTGGGCCTGTTCCCCGAT 61.728 66.667 4.53 0.00 45.95 4.18
2853 3421 3.727258 TGGGCCTGTTCCCCGATG 61.727 66.667 4.53 0.00 45.95 3.84
2854 3422 4.506255 GGGCCTGTTCCCCGATGG 62.506 72.222 0.84 0.00 40.51 3.51
2870 3438 0.914644 ATGGGTCCATCAGTCAGTGG 59.085 55.000 0.00 0.00 36.82 4.00
2871 3439 0.473694 TGGGTCCATCAGTCAGTGGT 60.474 55.000 0.00 0.00 36.84 4.16
2872 3440 0.250513 GGGTCCATCAGTCAGTGGTC 59.749 60.000 0.00 0.00 36.84 4.02
2873 3441 0.108615 GGTCCATCAGTCAGTGGTCG 60.109 60.000 0.00 0.00 36.84 4.79
2874 3442 0.888619 GTCCATCAGTCAGTGGTCGA 59.111 55.000 0.00 0.00 36.84 4.20
2875 3443 1.272490 GTCCATCAGTCAGTGGTCGAA 59.728 52.381 0.00 0.00 36.84 3.71
2876 3444 1.272490 TCCATCAGTCAGTGGTCGAAC 59.728 52.381 0.00 0.00 36.84 3.95
2877 3445 1.340658 CATCAGTCAGTGGTCGAACG 58.659 55.000 0.00 0.00 0.00 3.95
2878 3446 0.243907 ATCAGTCAGTGGTCGAACGG 59.756 55.000 0.00 0.00 0.00 4.44
2879 3447 2.022129 CAGTCAGTGGTCGAACGGC 61.022 63.158 0.00 0.00 0.00 5.68
2880 3448 2.028484 GTCAGTGGTCGAACGGCA 59.972 61.111 0.00 0.00 0.00 5.69
2881 3449 2.028484 TCAGTGGTCGAACGGCAC 59.972 61.111 0.00 0.00 0.00 5.01
2882 3450 3.041940 CAGTGGTCGAACGGCACC 61.042 66.667 0.00 0.00 0.00 5.01
2883 3451 4.309950 AGTGGTCGAACGGCACCC 62.310 66.667 0.00 0.00 0.00 4.61
2884 3452 4.309950 GTGGTCGAACGGCACCCT 62.310 66.667 0.00 0.00 0.00 4.34
2885 3453 4.308458 TGGTCGAACGGCACCCTG 62.308 66.667 0.00 0.00 0.00 4.45
2903 3471 2.107141 CCGAACGGCAGAGGATCC 59.893 66.667 2.48 2.48 33.66 3.36
2904 3472 2.427245 CCGAACGGCAGAGGATCCT 61.427 63.158 16.13 16.13 33.66 3.24
2905 3473 1.066587 CGAACGGCAGAGGATCCTC 59.933 63.158 31.27 31.27 43.03 3.71
2906 3474 1.066587 GAACGGCAGAGGATCCTCG 59.933 63.158 31.51 26.20 46.90 4.63
2907 3475 1.668101 GAACGGCAGAGGATCCTCGT 61.668 60.000 31.51 24.57 46.90 4.18
2908 3476 1.668101 AACGGCAGAGGATCCTCGTC 61.668 60.000 31.51 25.76 46.90 4.20
2909 3477 1.826054 CGGCAGAGGATCCTCGTCT 60.826 63.158 31.51 15.40 46.90 4.18
2912 3480 4.268720 AGAGGATCCTCGTCTGCC 57.731 61.111 31.51 10.89 46.90 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 8.383175 TGAAGACCACTAATACAAGAAATTCCT 58.617 33.333 0.00 0.00 0.00 3.36
118 119 7.348080 ACGAACCAGATTCTGATACTTATGA 57.652 36.000 15.36 0.00 34.88 2.15
476 560 3.311322 CGGTTAATATTGTGTGCGGTGAT 59.689 43.478 0.00 0.00 0.00 3.06
478 562 2.789779 GCGGTTAATATTGTGTGCGGTG 60.790 50.000 0.00 0.00 0.00 4.94
624 1121 4.038522 GTCTGGCTAGAGAGTATGCATTCA 59.961 45.833 3.54 0.00 32.48 2.57
666 1163 2.188829 GCAGCTTGTGGACAGCACA 61.189 57.895 0.00 0.00 0.00 4.57
667 1164 1.895707 AGCAGCTTGTGGACAGCAC 60.896 57.895 0.00 0.00 0.00 4.40
972 1471 3.625348 AAGCTCCTCCTGCTGCTGC 62.625 63.158 8.89 8.89 41.03 5.25
973 1472 1.745864 CAAGCTCCTCCTGCTGCTG 60.746 63.158 0.00 0.00 41.03 4.41
974 1473 2.669849 CAAGCTCCTCCTGCTGCT 59.330 61.111 0.00 0.00 41.03 4.24
979 1478 0.676151 GTTCCTGCAAGCTCCTCCTG 60.676 60.000 0.00 0.00 0.00 3.86
1038 1540 3.005539 GACTGCAGAGGCCTCCCA 61.006 66.667 29.54 23.70 40.13 4.37
1090 1592 3.665675 ATGCCCTGACGACGAAGGC 62.666 63.158 13.67 13.24 44.13 4.35
1151 1653 5.295540 GGAGTAGATCAGAAGAAAACATGCC 59.704 44.000 0.00 0.00 0.00 4.40
1171 1673 1.479730 GTAATTCCGAACGGAGGGAGT 59.520 52.381 15.34 4.12 46.06 3.85
1172 1674 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
1173 1675 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
1174 1676 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
1175 1677 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
1176 1678 3.846360 AGACAAGTAATTCCGAACGGAG 58.154 45.455 15.34 5.60 46.06 4.63
1177 1679 3.671433 CGAGACAAGTAATTCCGAACGGA 60.671 47.826 12.04 12.04 43.52 4.69
1178 1680 2.597305 CGAGACAAGTAATTCCGAACGG 59.403 50.000 6.94 6.94 0.00 4.44
1179 1681 3.495193 TCGAGACAAGTAATTCCGAACG 58.505 45.455 0.00 0.00 0.00 3.95
1180 1682 5.834239 TTTCGAGACAAGTAATTCCGAAC 57.166 39.130 0.00 0.00 34.86 3.95
1181 1683 6.128391 CCATTTTCGAGACAAGTAATTCCGAA 60.128 38.462 0.00 0.00 33.57 4.30
1182 1684 5.350365 CCATTTTCGAGACAAGTAATTCCGA 59.650 40.000 0.00 0.00 0.00 4.55
1183 1685 5.350365 TCCATTTTCGAGACAAGTAATTCCG 59.650 40.000 0.00 0.00 0.00 4.30
1184 1686 6.737254 TCCATTTTCGAGACAAGTAATTCC 57.263 37.500 0.00 0.00 0.00 3.01
1185 1687 7.752695 ACATCCATTTTCGAGACAAGTAATTC 58.247 34.615 0.00 0.00 0.00 2.17
1186 1688 7.687941 ACATCCATTTTCGAGACAAGTAATT 57.312 32.000 0.00 0.00 0.00 1.40
1187 1689 8.964476 ATACATCCATTTTCGAGACAAGTAAT 57.036 30.769 0.00 0.00 0.00 1.89
1188 1690 8.258007 AGATACATCCATTTTCGAGACAAGTAA 58.742 33.333 0.00 0.00 0.00 2.24
1189 1691 7.782049 AGATACATCCATTTTCGAGACAAGTA 58.218 34.615 0.00 0.00 0.00 2.24
1190 1692 6.644347 AGATACATCCATTTTCGAGACAAGT 58.356 36.000 0.00 0.00 0.00 3.16
1191 1693 8.138074 TCTAGATACATCCATTTTCGAGACAAG 58.862 37.037 0.00 0.00 0.00 3.16
1192 1694 8.007405 TCTAGATACATCCATTTTCGAGACAA 57.993 34.615 0.00 0.00 0.00 3.18
1193 1695 7.582667 TCTAGATACATCCATTTTCGAGACA 57.417 36.000 0.00 0.00 0.00 3.41
1194 1696 8.138712 AGTTCTAGATACATCCATTTTCGAGAC 58.861 37.037 0.00 0.00 0.00 3.36
1195 1697 8.239038 AGTTCTAGATACATCCATTTTCGAGA 57.761 34.615 0.00 0.00 0.00 4.04
1196 1698 8.138074 TGAGTTCTAGATACATCCATTTTCGAG 58.862 37.037 0.00 0.00 0.00 4.04
1197 1699 8.007405 TGAGTTCTAGATACATCCATTTTCGA 57.993 34.615 0.00 0.00 0.00 3.71
1198 1700 8.648557 TTGAGTTCTAGATACATCCATTTTCG 57.351 34.615 0.00 0.00 0.00 3.46
1202 1704 9.698309 CGTATTTGAGTTCTAGATACATCCATT 57.302 33.333 0.00 0.00 0.00 3.16
1203 1705 8.861086 ACGTATTTGAGTTCTAGATACATCCAT 58.139 33.333 0.00 0.00 0.00 3.41
1204 1706 8.234136 ACGTATTTGAGTTCTAGATACATCCA 57.766 34.615 0.00 0.00 0.00 3.41
1205 1707 8.569641 AGACGTATTTGAGTTCTAGATACATCC 58.430 37.037 0.00 0.00 0.00 3.51
1208 1710 9.828039 TCTAGACGTATTTGAGTTCTAGATACA 57.172 33.333 0.00 0.00 32.48 2.29
1212 1714 9.828039 TGTATCTAGACGTATTTGAGTTCTAGA 57.172 33.333 8.64 8.64 38.94 2.43
1215 1717 8.569641 GGATGTATCTAGACGTATTTGAGTTCT 58.430 37.037 0.00 0.00 0.00 3.01
1216 1718 8.350722 TGGATGTATCTAGACGTATTTGAGTTC 58.649 37.037 0.00 0.00 0.00 3.01
1217 1719 8.234136 TGGATGTATCTAGACGTATTTGAGTT 57.766 34.615 0.00 0.00 0.00 3.01
1218 1720 7.818997 TGGATGTATCTAGACGTATTTGAGT 57.181 36.000 0.00 0.00 0.00 3.41
1219 1721 8.735315 AGATGGATGTATCTAGACGTATTTGAG 58.265 37.037 0.00 0.00 35.70 3.02
1220 1722 8.637196 AGATGGATGTATCTAGACGTATTTGA 57.363 34.615 0.00 0.00 35.70 2.69
1221 1723 8.735315 AGAGATGGATGTATCTAGACGTATTTG 58.265 37.037 0.00 0.00 37.53 2.32
1222 1724 8.735315 CAGAGATGGATGTATCTAGACGTATTT 58.265 37.037 0.00 0.00 37.53 1.40
1223 1725 7.148154 GCAGAGATGGATGTATCTAGACGTATT 60.148 40.741 0.00 0.00 37.53 1.89
1224 1726 6.317642 GCAGAGATGGATGTATCTAGACGTAT 59.682 42.308 0.00 0.00 37.53 3.06
1225 1727 5.644206 GCAGAGATGGATGTATCTAGACGTA 59.356 44.000 0.00 0.00 37.53 3.57
1226 1728 4.457603 GCAGAGATGGATGTATCTAGACGT 59.542 45.833 0.00 0.00 37.53 4.34
1227 1729 4.436718 CGCAGAGATGGATGTATCTAGACG 60.437 50.000 0.00 0.00 37.53 4.18
1228 1730 4.697828 TCGCAGAGATGGATGTATCTAGAC 59.302 45.833 0.00 0.00 37.53 2.59
1229 1731 4.697828 GTCGCAGAGATGGATGTATCTAGA 59.302 45.833 0.00 0.00 37.53 2.43
1230 1732 4.457257 TGTCGCAGAGATGGATGTATCTAG 59.543 45.833 0.00 0.00 37.53 2.43
1231 1733 4.398319 TGTCGCAGAGATGGATGTATCTA 58.602 43.478 0.00 0.00 37.53 1.98
1232 1734 3.225940 TGTCGCAGAGATGGATGTATCT 58.774 45.455 0.00 0.00 40.02 1.98
1233 1735 3.650070 TGTCGCAGAGATGGATGTATC 57.350 47.619 0.00 0.00 36.95 2.24
1234 1736 3.386078 ACTTGTCGCAGAGATGGATGTAT 59.614 43.478 0.00 0.00 36.95 2.29
1235 1737 2.760650 ACTTGTCGCAGAGATGGATGTA 59.239 45.455 0.00 0.00 36.95 2.29
1236 1738 1.552337 ACTTGTCGCAGAGATGGATGT 59.448 47.619 0.00 0.00 36.95 3.06
1237 1739 2.306341 ACTTGTCGCAGAGATGGATG 57.694 50.000 0.00 0.00 36.95 3.51
1238 1740 4.679373 ATTACTTGTCGCAGAGATGGAT 57.321 40.909 0.00 0.00 36.95 3.41
1239 1741 4.433615 GAATTACTTGTCGCAGAGATGGA 58.566 43.478 0.00 0.00 36.95 3.41
1240 1742 3.557595 GGAATTACTTGTCGCAGAGATGG 59.442 47.826 0.00 0.00 36.95 3.51
1241 1743 3.243877 CGGAATTACTTGTCGCAGAGATG 59.756 47.826 0.00 0.00 36.95 2.90
1242 1744 3.130516 TCGGAATTACTTGTCGCAGAGAT 59.869 43.478 0.00 0.00 36.95 2.75
1243 1745 2.490509 TCGGAATTACTTGTCGCAGAGA 59.509 45.455 0.00 0.00 36.95 3.10
1244 1746 2.876091 TCGGAATTACTTGTCGCAGAG 58.124 47.619 0.00 0.00 36.95 3.35
1245 1747 2.991190 GTTCGGAATTACTTGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
1246 1748 2.222508 CGTTCGGAATTACTTGTCGCAG 60.223 50.000 0.00 0.00 0.00 5.18
1247 1749 1.722464 CGTTCGGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
1248 1750 1.060122 CCGTTCGGAATTACTTGTCGC 59.940 52.381 5.19 0.00 0.00 5.19
1249 1751 2.597305 CTCCGTTCGGAATTACTTGTCG 59.403 50.000 14.79 0.00 33.41 4.35
1250 1752 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
1251 1753 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
1252 1754 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
1253 1755 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
1254 1756 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
1255 1757 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
1256 1758 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
1257 1759 1.856629 TACTCCCTCCGTTCGGAATT 58.143 50.000 14.79 0.00 33.41 2.17
1258 1760 1.856629 TTACTCCCTCCGTTCGGAAT 58.143 50.000 14.79 2.09 33.41 3.01
1259 1761 1.856629 ATTACTCCCTCCGTTCGGAA 58.143 50.000 14.79 0.04 33.41 4.30
1260 1762 1.856629 AATTACTCCCTCCGTTCGGA 58.143 50.000 13.34 13.34 0.00 4.55
1261 1763 2.954318 TCTAATTACTCCCTCCGTTCGG 59.046 50.000 4.74 4.74 0.00 4.30
1262 1764 3.550436 GCTCTAATTACTCCCTCCGTTCG 60.550 52.174 0.00 0.00 0.00 3.95
1263 1765 3.637694 AGCTCTAATTACTCCCTCCGTTC 59.362 47.826 0.00 0.00 0.00 3.95
1264 1766 3.385111 CAGCTCTAATTACTCCCTCCGTT 59.615 47.826 0.00 0.00 0.00 4.44
1265 1767 2.959707 CAGCTCTAATTACTCCCTCCGT 59.040 50.000 0.00 0.00 0.00 4.69
1266 1768 2.297597 CCAGCTCTAATTACTCCCTCCG 59.702 54.545 0.00 0.00 0.00 4.63
1267 1769 2.037902 GCCAGCTCTAATTACTCCCTCC 59.962 54.545 0.00 0.00 0.00 4.30
1268 1770 2.969262 AGCCAGCTCTAATTACTCCCTC 59.031 50.000 0.00 0.00 0.00 4.30
1269 1771 2.703007 CAGCCAGCTCTAATTACTCCCT 59.297 50.000 0.00 0.00 0.00 4.20
1270 1772 2.224402 CCAGCCAGCTCTAATTACTCCC 60.224 54.545 0.00 0.00 0.00 4.30
1271 1773 2.700897 TCCAGCCAGCTCTAATTACTCC 59.299 50.000 0.00 0.00 0.00 3.85
1272 1774 3.386402 ACTCCAGCCAGCTCTAATTACTC 59.614 47.826 0.00 0.00 0.00 2.59
1273 1775 3.133721 CACTCCAGCCAGCTCTAATTACT 59.866 47.826 0.00 0.00 0.00 2.24
1274 1776 3.462021 CACTCCAGCCAGCTCTAATTAC 58.538 50.000 0.00 0.00 0.00 1.89
1275 1777 2.435805 CCACTCCAGCCAGCTCTAATTA 59.564 50.000 0.00 0.00 0.00 1.40
1276 1778 1.211457 CCACTCCAGCCAGCTCTAATT 59.789 52.381 0.00 0.00 0.00 1.40
1279 1781 2.362369 GCCACTCCAGCCAGCTCTA 61.362 63.158 0.00 0.00 0.00 2.43
1286 1788 1.196012 AGTTAGTAGCCACTCCAGCC 58.804 55.000 0.00 0.00 36.14 4.85
1295 1797 7.731882 AGAACAAAAGAGAAAGTTAGTAGCC 57.268 36.000 0.00 0.00 0.00 3.93
1299 1801 9.674068 AAGAGAAGAACAAAAGAGAAAGTTAGT 57.326 29.630 0.00 0.00 0.00 2.24
1310 1812 7.816945 TTTTGCTGAAAGAGAAGAACAAAAG 57.183 32.000 0.00 0.00 34.07 2.27
1314 1816 6.095300 TGTCATTTTGCTGAAAGAGAAGAACA 59.905 34.615 0.00 0.00 34.07 3.18
1315 1817 6.498304 TGTCATTTTGCTGAAAGAGAAGAAC 58.502 36.000 0.00 0.00 34.07 3.01
1383 1885 1.012486 CCAAGACTTACGTGCCGTCC 61.012 60.000 0.00 0.00 41.54 4.79
1397 1899 0.604243 AACATGTTACGGCGCCAAGA 60.604 50.000 28.98 13.41 0.00 3.02
1398 1900 1.080298 TAACATGTTACGGCGCCAAG 58.920 50.000 28.98 14.14 0.00 3.61
1399 1901 0.797542 GTAACATGTTACGGCGCCAA 59.202 50.000 27.96 11.78 36.47 4.52
1401 1903 0.372334 CTGTAACATGTTACGGCGCC 59.628 55.000 33.60 19.07 46.19 6.53
1408 1910 5.800296 ACATACACCAGCTGTAACATGTTA 58.200 37.500 14.35 14.35 38.90 2.41
1414 1916 5.064707 CCAACATACATACACCAGCTGTAAC 59.935 44.000 13.81 0.00 38.90 2.50
1420 1922 2.355756 CTGCCAACATACATACACCAGC 59.644 50.000 0.00 0.00 0.00 4.85
1432 1934 0.390124 CTTTGCCACACTGCCAACAT 59.610 50.000 0.00 0.00 0.00 2.71
1434 1936 0.031178 CTCTTTGCCACACTGCCAAC 59.969 55.000 0.00 0.00 0.00 3.77
1464 1966 1.479709 CACAAAACCCAACACCTCCA 58.520 50.000 0.00 0.00 0.00 3.86
1615 2117 3.576356 GCGATCATGCCCACCACG 61.576 66.667 0.00 0.00 0.00 4.94
1711 2213 2.038329 TACTGGTAGGTGCCCGCT 59.962 61.111 0.00 0.00 0.00 5.52
2008 2510 1.300963 GGTGAAGATGGCCTGCAGA 59.699 57.895 17.39 0.00 28.87 4.26
2035 2537 0.905337 CGAGGAGGTTCTGGAAGGGT 60.905 60.000 0.00 0.00 0.00 4.34
2119 2621 1.153939 GCTCGGATCGGATCGGATG 60.154 63.158 23.23 18.36 37.87 3.51
2310 2812 2.143925 CGGGGAAAGAAAGACACAGAC 58.856 52.381 0.00 0.00 0.00 3.51
2360 2868 8.487313 AAATGAGACACGTATTACTATGCAAA 57.513 30.769 0.00 0.00 0.00 3.68
2361 2869 9.758651 ATAAATGAGACACGTATTACTATGCAA 57.241 29.630 0.00 0.00 0.00 4.08
2374 2882 9.476202 TGACCTTTATGATATAAATGAGACACG 57.524 33.333 0.00 0.00 0.00 4.49
2387 2895 9.826574 GTGGTTTGTACTATGACCTTTATGATA 57.173 33.333 0.00 0.00 33.33 2.15
2388 2896 7.494625 CGTGGTTTGTACTATGACCTTTATGAT 59.505 37.037 0.00 0.00 33.33 2.45
2389 2897 6.814644 CGTGGTTTGTACTATGACCTTTATGA 59.185 38.462 0.00 0.00 33.33 2.15
2390 2898 6.592607 ACGTGGTTTGTACTATGACCTTTATG 59.407 38.462 0.00 0.00 33.33 1.90
2391 2899 6.704310 ACGTGGTTTGTACTATGACCTTTAT 58.296 36.000 0.00 0.00 33.33 1.40
2392 2900 6.100404 ACGTGGTTTGTACTATGACCTTTA 57.900 37.500 0.00 0.00 33.33 1.85
2393 2901 4.964593 ACGTGGTTTGTACTATGACCTTT 58.035 39.130 0.00 0.00 33.33 3.11
2394 2902 4.612264 ACGTGGTTTGTACTATGACCTT 57.388 40.909 0.00 0.00 33.33 3.50
2395 2903 4.523943 TGTACGTGGTTTGTACTATGACCT 59.476 41.667 0.00 0.00 42.09 3.85
2396 2904 4.808558 TGTACGTGGTTTGTACTATGACC 58.191 43.478 0.00 0.00 42.09 4.02
2397 2905 6.346838 GGTTTGTACGTGGTTTGTACTATGAC 60.347 42.308 0.00 0.00 42.09 3.06
2398 2906 5.695816 GGTTTGTACGTGGTTTGTACTATGA 59.304 40.000 0.00 0.00 42.09 2.15
2399 2907 5.388682 CGGTTTGTACGTGGTTTGTACTATG 60.389 44.000 0.00 0.00 42.09 2.23
2400 2908 4.685628 CGGTTTGTACGTGGTTTGTACTAT 59.314 41.667 0.00 0.00 42.09 2.12
2401 2909 4.047822 CGGTTTGTACGTGGTTTGTACTA 58.952 43.478 0.00 0.00 42.09 1.82
2402 2910 2.865551 CGGTTTGTACGTGGTTTGTACT 59.134 45.455 0.00 0.00 42.09 2.73
2403 2911 2.863137 TCGGTTTGTACGTGGTTTGTAC 59.137 45.455 0.00 0.00 41.97 2.90
2404 2912 3.170791 TCGGTTTGTACGTGGTTTGTA 57.829 42.857 0.00 0.00 0.00 2.41
2405 2913 2.021355 TCGGTTTGTACGTGGTTTGT 57.979 45.000 0.00 0.00 0.00 2.83
2406 2914 2.803956 AGATCGGTTTGTACGTGGTTTG 59.196 45.455 0.00 0.00 0.00 2.93
2407 2915 2.803956 CAGATCGGTTTGTACGTGGTTT 59.196 45.455 0.00 0.00 0.00 3.27
2408 2916 2.036217 TCAGATCGGTTTGTACGTGGTT 59.964 45.455 0.00 0.00 0.00 3.67
2409 2917 1.614903 TCAGATCGGTTTGTACGTGGT 59.385 47.619 0.00 0.00 0.00 4.16
2410 2918 2.357327 TCAGATCGGTTTGTACGTGG 57.643 50.000 0.00 0.00 0.00 4.94
2411 2919 4.718858 TTTTCAGATCGGTTTGTACGTG 57.281 40.909 0.00 0.00 0.00 4.49
2430 2938 5.694458 AGCGTTTGTTGTCTTTTCAGTTTTT 59.306 32.000 0.00 0.00 0.00 1.94
2431 2939 5.227152 AGCGTTTGTTGTCTTTTCAGTTTT 58.773 33.333 0.00 0.00 0.00 2.43
2432 2940 4.805219 AGCGTTTGTTGTCTTTTCAGTTT 58.195 34.783 0.00 0.00 0.00 2.66
2433 2941 4.434713 AGCGTTTGTTGTCTTTTCAGTT 57.565 36.364 0.00 0.00 0.00 3.16
2434 2942 4.634443 ACTAGCGTTTGTTGTCTTTTCAGT 59.366 37.500 0.00 0.00 0.00 3.41
2435 2943 4.963953 CACTAGCGTTTGTTGTCTTTTCAG 59.036 41.667 0.00 0.00 0.00 3.02
2436 2944 4.201871 CCACTAGCGTTTGTTGTCTTTTCA 60.202 41.667 0.00 0.00 0.00 2.69
2437 2945 4.279659 CCACTAGCGTTTGTTGTCTTTTC 58.720 43.478 0.00 0.00 0.00 2.29
2438 2946 3.488553 GCCACTAGCGTTTGTTGTCTTTT 60.489 43.478 0.00 0.00 0.00 2.27
2439 2947 2.032924 GCCACTAGCGTTTGTTGTCTTT 59.967 45.455 0.00 0.00 0.00 2.52
2440 2948 1.602377 GCCACTAGCGTTTGTTGTCTT 59.398 47.619 0.00 0.00 0.00 3.01
2441 2949 1.226746 GCCACTAGCGTTTGTTGTCT 58.773 50.000 0.00 0.00 0.00 3.41
2442 2950 3.748021 GCCACTAGCGTTTGTTGTC 57.252 52.632 0.00 0.00 0.00 3.18
2569 3086 3.801594 CCTTTTCCCAAAATTCACGTGTG 59.198 43.478 16.51 5.75 0.00 3.82
2632 3199 5.932303 GTCACAGTAAGCATAGAAGAAACCA 59.068 40.000 0.00 0.00 0.00 3.67
2651 3218 3.991773 CCCGATTTAAGAACTTCGTCACA 59.008 43.478 0.00 0.00 0.00 3.58
2698 3265 1.605165 CCGGTTAAAAGCTGGCCCA 60.605 57.895 0.00 0.00 0.00 5.36
2785 3353 4.479993 CAGGGGAGCCGCTTCTGG 62.480 72.222 3.01 0.00 37.10 3.86
2786 3354 3.393970 TCAGGGGAGCCGCTTCTG 61.394 66.667 3.01 5.91 37.10 3.02
2787 3355 3.394836 GTCAGGGGAGCCGCTTCT 61.395 66.667 3.01 0.00 37.10 2.85
2788 3356 4.821589 CGTCAGGGGAGCCGCTTC 62.822 72.222 3.01 0.00 37.10 3.86
2851 3419 0.914644 CCACTGACTGATGGACCCAT 59.085 55.000 0.32 0.32 38.34 4.00
2852 3420 0.473694 ACCACTGACTGATGGACCCA 60.474 55.000 0.00 0.00 39.46 4.51
2853 3421 0.250513 GACCACTGACTGATGGACCC 59.749 60.000 0.00 0.00 39.46 4.46
2854 3422 0.108615 CGACCACTGACTGATGGACC 60.109 60.000 0.00 0.00 39.46 4.46
2855 3423 0.888619 TCGACCACTGACTGATGGAC 59.111 55.000 0.00 0.00 39.46 4.02
2856 3424 1.272490 GTTCGACCACTGACTGATGGA 59.728 52.381 0.00 0.00 39.46 3.41
2857 3425 1.714794 GTTCGACCACTGACTGATGG 58.285 55.000 0.00 0.00 42.13 3.51
2858 3426 1.340658 CGTTCGACCACTGACTGATG 58.659 55.000 0.00 0.00 0.00 3.07
2859 3427 0.243907 CCGTTCGACCACTGACTGAT 59.756 55.000 0.00 0.00 0.00 2.90
2860 3428 1.658114 CCGTTCGACCACTGACTGA 59.342 57.895 0.00 0.00 0.00 3.41
2861 3429 2.022129 GCCGTTCGACCACTGACTG 61.022 63.158 0.00 0.00 0.00 3.51
2862 3430 2.338984 GCCGTTCGACCACTGACT 59.661 61.111 0.00 0.00 0.00 3.41
2863 3431 2.028484 TGCCGTTCGACCACTGAC 59.972 61.111 0.00 0.00 0.00 3.51
2864 3432 2.028484 GTGCCGTTCGACCACTGA 59.972 61.111 0.00 0.00 0.00 3.41
2865 3433 3.041940 GGTGCCGTTCGACCACTG 61.042 66.667 12.56 0.00 31.97 3.66
2866 3434 4.309950 GGGTGCCGTTCGACCACT 62.310 66.667 12.56 0.00 33.48 4.00
2867 3435 4.309950 AGGGTGCCGTTCGACCAC 62.310 66.667 5.67 6.47 33.48 4.16
2868 3436 4.308458 CAGGGTGCCGTTCGACCA 62.308 66.667 5.67 0.00 33.48 4.02
2886 3454 2.107141 GGATCCTCTGCCGTTCGG 59.893 66.667 3.84 6.90 0.00 4.30
2887 3455 1.066587 GAGGATCCTCTGCCGTTCG 59.933 63.158 31.11 0.00 39.80 3.95
2888 3456 1.066587 CGAGGATCCTCTGCCGTTC 59.933 63.158 33.70 11.23 40.69 3.95
2889 3457 1.668101 GACGAGGATCCTCTGCCGTT 61.668 60.000 33.70 15.24 40.69 4.44
2890 3458 2.043852 ACGAGGATCCTCTGCCGT 60.044 61.111 33.70 25.82 40.69 5.68
2891 3459 1.826054 AGACGAGGATCCTCTGCCG 60.826 63.158 33.70 25.21 40.69 5.69
2892 3460 1.739049 CAGACGAGGATCCTCTGCC 59.261 63.158 33.70 23.03 40.41 4.85
2894 3462 1.739049 GGCAGACGAGGATCCTCTG 59.261 63.158 33.70 28.14 46.62 3.35
2895 3463 1.456705 GGGCAGACGAGGATCCTCT 60.457 63.158 33.70 22.77 40.69 3.69
2896 3464 1.456705 AGGGCAGACGAGGATCCTC 60.457 63.158 29.15 29.15 39.55 3.71
2897 3465 1.760086 CAGGGCAGACGAGGATCCT 60.760 63.158 16.13 16.13 0.00 3.24
2898 3466 2.818132 CAGGGCAGACGAGGATCC 59.182 66.667 2.48 2.48 0.00 3.36
2899 3467 2.107953 GCAGGGCAGACGAGGATC 59.892 66.667 0.00 0.00 0.00 3.36
2900 3468 3.474570 GGCAGGGCAGACGAGGAT 61.475 66.667 0.00 0.00 0.00 3.24
2903 3471 4.463879 CTGGGCAGGGCAGACGAG 62.464 72.222 0.00 0.00 0.00 4.18
2905 3473 3.790437 ATCTGGGCAGGGCAGACG 61.790 66.667 0.00 0.00 0.00 4.18
2906 3474 2.124403 CATCTGGGCAGGGCAGAC 60.124 66.667 0.00 0.00 0.00 3.51
2907 3475 4.119363 GCATCTGGGCAGGGCAGA 62.119 66.667 0.00 0.00 32.19 4.26
2908 3476 3.657038 AAGCATCTGGGCAGGGCAG 62.657 63.158 0.00 0.00 35.83 4.85
2909 3477 3.650298 GAAGCATCTGGGCAGGGCA 62.650 63.158 0.00 0.00 35.83 5.36
2910 3478 2.832201 GAAGCATCTGGGCAGGGC 60.832 66.667 0.00 0.00 35.83 5.19
2911 3479 2.123982 GGAAGCATCTGGGCAGGG 60.124 66.667 0.00 0.00 35.83 4.45
2912 3480 2.123982 GGGAAGCATCTGGGCAGG 60.124 66.667 0.00 0.00 35.83 4.85


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

AutoCloner maintained by Alex Coulton.