Multiple sequence alignment - TraesCS1D01G432500

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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 TraesCS1D01G432500 chr1D 100.000 4227 0 0 1 4227 482231518 482235744 0.000000e+00 7806.0
1 TraesCS1D01G432500 chr1D 78.563 1782 314 38 1294 3034 482517299 482515545 0.000000e+00 1112.0
2 TraesCS1D01G432500 chr1D 82.130 1136 187 12 1807 2934 482275283 482276410 0.000000e+00 959.0
3 TraesCS1D01G432500 chr1B 91.838 2536 159 19 812 3312 670797845 670800367 0.000000e+00 3493.0
4 TraesCS1D01G432500 chr1B 81.079 1279 216 18 1672 2934 670831455 670832723 0.000000e+00 998.0
5 TraesCS1D01G432500 chr1B 78.169 1617 305 27 1605 3196 670957097 670958690 0.000000e+00 987.0
6 TraesCS1D01G432500 chr1B 92.278 518 26 8 208 715 670794931 670795444 0.000000e+00 723.0
7 TraesCS1D01G432500 chr1B 91.586 309 16 7 3553 3858 65699583 65699884 6.540000e-113 418.0
8 TraesCS1D01G432500 chr1B 96.507 229 8 0 3861 4089 65700275 65700503 3.080000e-101 379.0
9 TraesCS1D01G432500 chr1B 87.266 267 28 6 3311 3574 65692565 65692828 2.470000e-77 300.0
10 TraesCS1D01G432500 chr1B 72.865 855 209 19 1807 2648 212410383 212409539 5.390000e-69 272.0
11 TraesCS1D01G432500 chr1B 76.395 466 75 19 1291 1731 670916836 670917291 7.120000e-53 219.0
12 TraesCS1D01G432500 chr1B 84.746 59 9 0 68 126 449754950 449755008 4.560000e-05 60.2
13 TraesCS1D01G432500 chr1A 93.985 1596 76 11 1729 3313 578933670 578935256 0.000000e+00 2398.0
14 TraesCS1D01G432500 chr1A 86.233 1075 88 22 721 1739 578932575 578933645 0.000000e+00 1110.0
15 TraesCS1D01G432500 chr1A 81.434 1158 205 9 1783 2934 579023813 579024966 0.000000e+00 939.0
16 TraesCS1D01G432500 chr1A 78.440 1308 240 26 1605 2880 578356645 578355348 0.000000e+00 815.0
17 TraesCS1D01G432500 chr1A 91.149 531 29 6 208 721 578931588 578932117 0.000000e+00 704.0
18 TraesCS1D01G432500 chr1A 83.400 500 70 10 1605 2097 579534860 579534367 6.440000e-123 451.0
19 TraesCS1D01G432500 chr7D 91.478 927 54 8 3311 4227 39146650 39145739 0.000000e+00 1251.0
20 TraesCS1D01G432500 chr7D 93.810 210 13 0 3311 3520 116063950 116064159 2.450000e-82 316.0
21 TraesCS1D01G432500 chr7D 81.720 93 8 5 34 126 191416080 191415997 7.580000e-08 69.4
22 TraesCS1D01G432500 chr7D 94.595 37 1 1 787 823 23516005 23515970 5.900000e-04 56.5
23 TraesCS1D01G432500 chrUn 79.162 1670 300 35 1425 3057 1926885 1928543 0.000000e+00 1112.0
24 TraesCS1D01G432500 chrUn 82.419 1240 197 15 1605 2833 346312590 346313819 0.000000e+00 1062.0
25 TraesCS1D01G432500 chr5D 89.101 367 15 13 3861 4227 27445076 27445417 2.330000e-117 433.0
26 TraesCS1D01G432500 chr2D 82.796 279 31 9 3311 3582 615936591 615936323 2.540000e-57 233.0
27 TraesCS1D01G432500 chr2D 81.362 279 35 9 3311 3582 615922058 615921790 1.190000e-50 211.0
28 TraesCS1D01G432500 chr2D 84.236 203 30 2 3311 3512 651505360 651505561 3.330000e-46 196.0
29 TraesCS1D01G432500 chr7B 85.149 202 29 1 3311 3512 710241882 710241682 5.540000e-49 206.0
30 TraesCS1D01G432500 chr7B 82.075 106 10 5 22 127 330735037 330735133 9.740000e-12 82.4
31 TraesCS1D01G432500 chr7B 80.189 106 12 6 22 127 136783398 136783494 2.110000e-08 71.3
32 TraesCS1D01G432500 chr3B 83.500 200 28 5 3311 3508 57229994 57229798 9.340000e-42 182.0
33 TraesCS1D01G432500 chr3B 81.982 222 33 6 3307 3525 119309375 119309592 9.340000e-42 182.0
34 TraesCS1D01G432500 chr3B 86.441 59 8 0 68 126 344273597 344273655 9.810000e-07 65.8
35 TraesCS1D01G432500 chr2B 90.411 73 2 3 119 186 134492490 134492562 1.620000e-14 91.6
36 TraesCS1D01G432500 chr2B 85.897 78 7 4 53 126 282958896 282958973 3.500000e-11 80.5
37 TraesCS1D01G432500 chr2B 78.632 117 16 6 10 126 187524386 187524279 7.580000e-08 69.4
38 TraesCS1D01G432500 chr6B 93.103 58 4 0 131 188 708590801 708590744 7.530000e-13 86.1
39 TraesCS1D01G432500 chr6B 89.655 58 6 0 131 188 604247292 604247349 1.630000e-09 75.0
40 TraesCS1D01G432500 chr7A 85.057 87 7 6 110 192 385496998 385497082 2.710000e-12 84.2
41 TraesCS1D01G432500 chr7A 80.000 95 10 5 22 116 385554161 385554246 1.270000e-05 62.1
42 TraesCS1D01G432500 chr2A 82.796 93 7 3 34 126 100831929 100831846 1.630000e-09 75.0
43 TraesCS1D01G432500 chr5B 86.885 61 7 1 3875 3935 545170026 545169967 2.730000e-07 67.6
44 TraesCS1D01G432500 chr6D 86.441 59 8 0 68 126 85792329 85792387 9.810000e-07 65.8
45 TraesCS1D01G432500 chr3A 86.441 59 8 0 68 126 329531244 329531186 9.810000e-07 65.8
46 TraesCS1D01G432500 chr4A 88.235 51 5 1 776 825 134055320 134055270 4.560000e-05 60.2


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 TraesCS1D01G432500 chr1D 482231518 482235744 4226 False 7806.0 7806 100.000000 1 4227 1 chr1D.!!$F1 4226
1 TraesCS1D01G432500 chr1D 482515545 482517299 1754 True 1112.0 1112 78.563000 1294 3034 1 chr1D.!!$R1 1740
2 TraesCS1D01G432500 chr1D 482275283 482276410 1127 False 959.0 959 82.130000 1807 2934 1 chr1D.!!$F2 1127
3 TraesCS1D01G432500 chr1B 670794931 670800367 5436 False 2108.0 3493 92.058000 208 3312 2 chr1B.!!$F7 3104
4 TraesCS1D01G432500 chr1B 670831455 670832723 1268 False 998.0 998 81.079000 1672 2934 1 chr1B.!!$F3 1262
5 TraesCS1D01G432500 chr1B 670957097 670958690 1593 False 987.0 987 78.169000 1605 3196 1 chr1B.!!$F5 1591
6 TraesCS1D01G432500 chr1B 65699583 65700503 920 False 398.5 418 94.046500 3553 4089 2 chr1B.!!$F6 536
7 TraesCS1D01G432500 chr1B 212409539 212410383 844 True 272.0 272 72.865000 1807 2648 1 chr1B.!!$R1 841
8 TraesCS1D01G432500 chr1A 578931588 578935256 3668 False 1404.0 2398 90.455667 208 3313 3 chr1A.!!$F2 3105
9 TraesCS1D01G432500 chr1A 579023813 579024966 1153 False 939.0 939 81.434000 1783 2934 1 chr1A.!!$F1 1151
10 TraesCS1D01G432500 chr1A 578355348 578356645 1297 True 815.0 815 78.440000 1605 2880 1 chr1A.!!$R1 1275
11 TraesCS1D01G432500 chr7D 39145739 39146650 911 True 1251.0 1251 91.478000 3311 4227 1 chr7D.!!$R2 916
12 TraesCS1D01G432500 chrUn 1926885 1928543 1658 False 1112.0 1112 79.162000 1425 3057 1 chrUn.!!$F1 1632
13 TraesCS1D01G432500 chrUn 346312590 346313819 1229 False 1062.0 1062 82.419000 1605 2833 1 chrUn.!!$F2 1228

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
458 468 0.036388 TCCTTGGTCAAGCGATCACC 60.036 55.0 5.26 0.0 37.11 4.02 F
1428 4151 0.032678 CTCGAAGATCACATCCCCGG 59.967 60.0 0.00 0.0 33.89 5.73 F
2780 5590 0.535335 CCACTACCGTGTACCATGCT 59.465 55.0 0.00 0.0 39.55 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1448 4174 0.037303 CATGAGTGGTGCTGGGTCTT 59.963 55.0 0.0 0.0 0.00 3.01 R
2972 5782 0.526096 CGTTGCTGTTGCTGCTTGTT 60.526 50.0 0.0 0.0 40.48 2.83 R
3640 6457 0.107410 ACCGACAGCAACCAGACAAA 60.107 50.0 0.0 0.0 0.00 2.83 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
25 26 6.901081 AGTATCATAGTATGTGCTGCTACA 57.099 37.500 9.94 4.29 34.63 2.74
26 27 7.473735 AGTATCATAGTATGTGCTGCTACAT 57.526 36.000 17.38 17.38 43.34 2.29
27 28 7.542890 AGTATCATAGTATGTGCTGCTACATC 58.457 38.462 16.95 11.10 41.31 3.06
28 29 6.602410 ATCATAGTATGTGCTGCTACATCT 57.398 37.500 16.95 15.50 41.31 2.90
29 30 5.776744 TCATAGTATGTGCTGCTACATCTG 58.223 41.667 16.95 12.14 41.31 2.90
30 31 5.302823 TCATAGTATGTGCTGCTACATCTGT 59.697 40.000 16.95 11.39 41.31 3.41
31 32 6.490040 TCATAGTATGTGCTGCTACATCTGTA 59.510 38.462 16.95 10.17 41.31 2.74
163 164 9.639563 TTTATTTAATTCTATGCCACCTCATCA 57.360 29.630 0.00 0.00 0.00 3.07
164 165 9.639563 TTATTTAATTCTATGCCACCTCATCAA 57.360 29.630 0.00 0.00 0.00 2.57
165 166 8.716674 ATTTAATTCTATGCCACCTCATCAAT 57.283 30.769 0.00 0.00 0.00 2.57
166 167 9.812347 ATTTAATTCTATGCCACCTCATCAATA 57.188 29.630 0.00 0.00 0.00 1.90
167 168 9.812347 TTTAATTCTATGCCACCTCATCAATAT 57.188 29.630 0.00 0.00 0.00 1.28
168 169 9.812347 TTAATTCTATGCCACCTCATCAATATT 57.188 29.630 0.00 0.00 0.00 1.28
169 170 7.698506 ATTCTATGCCACCTCATCAATATTG 57.301 36.000 9.29 9.29 0.00 1.90
170 171 5.005740 TCTATGCCACCTCATCAATATTGC 58.994 41.667 10.76 0.00 0.00 3.56
171 172 3.301794 TGCCACCTCATCAATATTGCT 57.698 42.857 10.76 0.00 0.00 3.91
172 173 3.634504 TGCCACCTCATCAATATTGCTT 58.365 40.909 10.76 0.00 0.00 3.91
173 174 4.790937 TGCCACCTCATCAATATTGCTTA 58.209 39.130 10.76 0.00 0.00 3.09
174 175 4.823442 TGCCACCTCATCAATATTGCTTAG 59.177 41.667 10.76 2.24 0.00 2.18
175 176 4.823989 GCCACCTCATCAATATTGCTTAGT 59.176 41.667 10.76 1.93 0.00 2.24
176 177 5.300286 GCCACCTCATCAATATTGCTTAGTT 59.700 40.000 10.76 0.00 0.00 2.24
177 178 6.732154 CCACCTCATCAATATTGCTTAGTTG 58.268 40.000 10.76 1.29 0.00 3.16
178 179 6.238842 CCACCTCATCAATATTGCTTAGTTGG 60.239 42.308 10.76 6.62 0.00 3.77
179 180 6.319658 CACCTCATCAATATTGCTTAGTTGGT 59.680 38.462 10.76 8.90 0.00 3.67
180 181 7.498900 CACCTCATCAATATTGCTTAGTTGGTA 59.501 37.037 10.76 0.00 0.00 3.25
181 182 8.220559 ACCTCATCAATATTGCTTAGTTGGTAT 58.779 33.333 10.76 0.00 0.00 2.73
182 183 8.509690 CCTCATCAATATTGCTTAGTTGGTATG 58.490 37.037 10.76 5.52 0.00 2.39
183 184 7.874940 TCATCAATATTGCTTAGTTGGTATGC 58.125 34.615 10.76 0.00 33.32 3.14
184 185 7.501892 TCATCAATATTGCTTAGTTGGTATGCA 59.498 33.333 10.76 0.00 39.42 3.96
185 186 7.822161 TCAATATTGCTTAGTTGGTATGCAT 57.178 32.000 10.76 3.79 40.48 3.96
186 187 7.650890 TCAATATTGCTTAGTTGGTATGCATG 58.349 34.615 10.16 0.00 40.48 4.06
187 188 7.501892 TCAATATTGCTTAGTTGGTATGCATGA 59.498 33.333 10.16 0.00 40.48 3.07
188 189 4.963276 TTGCTTAGTTGGTATGCATGAC 57.037 40.909 10.16 2.19 40.48 3.06
189 190 3.949132 TGCTTAGTTGGTATGCATGACA 58.051 40.909 10.16 5.17 36.99 3.58
190 191 3.689161 TGCTTAGTTGGTATGCATGACAC 59.311 43.478 10.16 0.00 36.99 3.67
191 192 3.941483 GCTTAGTTGGTATGCATGACACT 59.059 43.478 10.16 8.49 33.02 3.55
192 193 4.396166 GCTTAGTTGGTATGCATGACACTT 59.604 41.667 10.16 1.88 33.02 3.16
193 194 5.447818 GCTTAGTTGGTATGCATGACACTTC 60.448 44.000 10.16 2.18 33.02 3.01
194 195 4.019792 AGTTGGTATGCATGACACTTCA 57.980 40.909 10.16 0.00 35.73 3.02
195 196 4.592942 AGTTGGTATGCATGACACTTCAT 58.407 39.130 10.16 0.00 43.80 2.57
196 197 5.012239 AGTTGGTATGCATGACACTTCATT 58.988 37.500 10.16 0.00 40.79 2.57
197 198 6.179756 AGTTGGTATGCATGACACTTCATTA 58.820 36.000 10.16 0.00 40.79 1.90
198 199 6.094048 AGTTGGTATGCATGACACTTCATTAC 59.906 38.462 10.16 1.79 40.79 1.89
199 200 4.570369 TGGTATGCATGACACTTCATTACG 59.430 41.667 10.16 0.00 40.79 3.18
200 201 4.024893 GGTATGCATGACACTTCATTACGG 60.025 45.833 10.16 0.00 40.79 4.02
201 202 2.355197 TGCATGACACTTCATTACGGG 58.645 47.619 0.00 0.00 40.79 5.28
202 203 1.064060 GCATGACACTTCATTACGGGC 59.936 52.381 0.00 0.00 40.79 6.13
203 204 2.355197 CATGACACTTCATTACGGGCA 58.645 47.619 0.00 0.00 40.79 5.36
204 205 2.093306 TGACACTTCATTACGGGCAG 57.907 50.000 0.00 0.00 0.00 4.85
205 206 0.727398 GACACTTCATTACGGGCAGC 59.273 55.000 0.00 0.00 0.00 5.25
206 207 0.676782 ACACTTCATTACGGGCAGCC 60.677 55.000 1.26 1.26 0.00 4.85
324 331 6.038161 TCGCCAAGTTATCATCAAAACCTATG 59.962 38.462 0.00 0.00 0.00 2.23
370 380 4.380843 TCTAAAGACTTTTGGCCCATGA 57.619 40.909 5.61 0.00 0.00 3.07
378 388 1.619654 TTTGGCCCATGACAAGTCAG 58.380 50.000 8.99 1.68 43.61 3.51
412 422 1.887198 CGGGACAGTAGTTGAGTGAGT 59.113 52.381 0.00 0.00 32.27 3.41
458 468 0.036388 TCCTTGGTCAAGCGATCACC 60.036 55.000 5.26 0.00 37.11 4.02
542 554 1.153524 ACAAATGCACCAGGCCAGA 59.846 52.632 5.01 0.00 43.89 3.86
549 564 1.227823 CACCAGGCCAGAAACACGA 60.228 57.895 5.01 0.00 0.00 4.35
621 644 3.040795 CGACTAATGACGGAATACACGG 58.959 50.000 0.00 0.00 35.23 4.94
663 686 0.668706 CTGGTCAAGGCTCACGACAG 60.669 60.000 12.10 3.67 0.00 3.51
696 719 5.752955 GGCTTAACTTTTTGACTTCATGCAA 59.247 36.000 0.00 0.00 0.00 4.08
748 1592 7.655328 TGTATTTGCTTCAAATTTTAGGTGTGG 59.345 33.333 9.67 0.00 40.60 4.17
751 1595 3.574614 CTTCAAATTTTAGGTGTGGCGG 58.425 45.455 0.00 0.00 0.00 6.13
753 1597 3.426615 TCAAATTTTAGGTGTGGCGGAT 58.573 40.909 0.00 0.00 0.00 4.18
754 1598 3.192422 TCAAATTTTAGGTGTGGCGGATG 59.808 43.478 0.00 0.00 0.00 3.51
755 1599 1.102978 ATTTTAGGTGTGGCGGATGC 58.897 50.000 0.00 0.00 41.71 3.91
767 1611 4.424711 GGATGCCGGGCCTTGTCA 62.425 66.667 17.97 0.00 0.00 3.58
768 1612 2.825836 GATGCCGGGCCTTGTCAG 60.826 66.667 17.97 0.00 0.00 3.51
770 1614 2.615227 GATGCCGGGCCTTGTCAGAT 62.615 60.000 17.97 0.00 0.00 2.90
771 1615 1.344953 ATGCCGGGCCTTGTCAGATA 61.345 55.000 17.97 0.00 0.00 1.98
772 1616 1.227674 GCCGGGCCTTGTCAGATAG 60.228 63.158 8.12 0.00 0.00 2.08
773 1617 1.227674 CCGGGCCTTGTCAGATAGC 60.228 63.158 0.84 0.00 0.00 2.97
774 1618 1.690219 CCGGGCCTTGTCAGATAGCT 61.690 60.000 0.84 0.00 0.00 3.32
775 1619 0.531532 CGGGCCTTGTCAGATAGCTG 60.532 60.000 0.84 0.24 43.67 4.24
776 1620 0.543749 GGGCCTTGTCAGATAGCTGT 59.456 55.000 8.04 0.00 42.84 4.40
777 1621 1.762957 GGGCCTTGTCAGATAGCTGTA 59.237 52.381 8.04 0.00 42.84 2.74
798 1644 7.201359 GCTGTATTATGCGTATGTATGAGTGTC 60.201 40.741 0.00 0.00 0.00 3.67
802 1648 8.917415 ATTATGCGTATGTATGAGTGTCTATG 57.083 34.615 0.00 0.00 0.00 2.23
804 1650 5.758924 TGCGTATGTATGAGTGTCTATGTC 58.241 41.667 0.00 0.00 0.00 3.06
809 1655 8.010540 CGTATGTATGAGTGTCTATGTCTGTAC 58.989 40.741 0.00 0.00 0.00 2.90
817 3510 7.229907 TGAGTGTCTATGTCTGTACTGTGTTTA 59.770 37.037 0.00 0.00 0.00 2.01
820 3516 9.037737 GTGTCTATGTCTGTACTGTGTTTAAAA 57.962 33.333 0.00 0.00 0.00 1.52
947 3646 3.388308 CGATCGATTTGCAGATCCTCTT 58.612 45.455 10.26 0.00 39.91 2.85
976 3675 7.612633 TGTCCTACTCGCCATGTGTATATATAA 59.387 37.037 0.00 0.00 0.00 0.98
1158 3881 1.916697 GAGCCGCTTCTCCTTTGTGC 61.917 60.000 0.00 0.00 0.00 4.57
1324 4047 2.895865 TCGCGGCTCTACCTCTCG 60.896 66.667 6.13 0.00 35.61 4.04
1355 4078 4.094646 ACATGCCGCCGTCCATCA 62.095 61.111 0.00 0.00 0.00 3.07
1386 4109 3.508840 CGAAATGGGCACGGCTCC 61.509 66.667 0.00 0.00 0.00 4.70
1428 4151 0.032678 CTCGAAGATCACATCCCCGG 59.967 60.000 0.00 0.00 33.89 5.73
1459 4188 2.354259 CTGATGAAGAAGACCCAGCAC 58.646 52.381 0.00 0.00 0.00 4.40
1465 4194 0.764369 AGAAGACCCAGCACCACTCA 60.764 55.000 0.00 0.00 0.00 3.41
1636 4392 3.414700 GCCGCGCCCAATATCTCG 61.415 66.667 0.00 0.00 0.00 4.04
1669 4425 2.537401 GACGAGGAAAACATAGTCCCG 58.463 52.381 0.00 0.00 34.13 5.14
1793 4595 4.502282 GCATCATCGTCAGTCTCTAACAAG 59.498 45.833 0.00 0.00 0.00 3.16
1960 4767 2.746277 AACGGCATTCCTCCACGC 60.746 61.111 0.00 0.00 0.00 5.34
1994 4801 3.625897 CACGTCCTCTGGTGGGCA 61.626 66.667 0.00 0.00 0.00 5.36
2002 4809 1.892819 CTCTGGTGGGCATCTGTCGT 61.893 60.000 0.00 0.00 0.00 4.34
2240 5050 2.549064 TCTATGGCCAATGGATGTCG 57.451 50.000 10.96 0.00 0.00 4.35
2405 5215 2.696707 TGTTGTACTCTTCGTCACCCTT 59.303 45.455 0.00 0.00 0.00 3.95
2612 5422 3.127425 CTCTTTCGAGGGTTCAGGTTT 57.873 47.619 0.00 0.00 33.51 3.27
2654 5464 1.430632 GTTCCCGATCACGAGCGTA 59.569 57.895 3.84 0.00 42.66 4.42
2743 5553 1.452651 CAGGGATTGCCGCTGTCAT 60.453 57.895 0.00 0.00 46.96 3.06
2780 5590 0.535335 CCACTACCGTGTACCATGCT 59.465 55.000 0.00 0.00 39.55 3.79
2825 5635 1.226974 CGACGTCTCCATCGCCATT 60.227 57.895 14.70 0.00 0.00 3.16
2910 5720 0.753479 GGAGCTCGACCTCTCCATCA 60.753 60.000 7.83 0.00 46.24 3.07
2972 5782 2.972021 TGACTCATGTTCCAACTCCAGA 59.028 45.455 0.00 0.00 0.00 3.86
3060 5870 3.979789 CACAATAGGGTGCACGCA 58.020 55.556 32.29 19.76 31.10 5.24
3061 5871 2.481212 CACAATAGGGTGCACGCAT 58.519 52.632 32.29 20.95 31.10 4.73
3156 5971 5.994054 ACATAGTGGTAGATTAGCAGCAATG 59.006 40.000 0.00 0.00 36.78 2.82
3198 6013 8.741841 CATTGCCATGATGGTGATATTATTACA 58.258 33.333 13.84 0.00 40.46 2.41
3275 6090 8.242739 CGGAGGTGCATATCTATATATCATCAG 58.757 40.741 0.00 0.00 0.00 2.90
3291 6106 1.462616 TCAGTGTGCAATGTATGGCC 58.537 50.000 0.00 0.00 0.00 5.36
3294 6109 0.808125 GTGTGCAATGTATGGCCGAA 59.192 50.000 0.00 0.00 0.00 4.30
3330 6145 4.282496 AGATACCCAAGCCTCTATATCCG 58.718 47.826 0.00 0.00 0.00 4.18
3333 6148 1.552486 CCCAAGCCTCTATATCCGGGA 60.552 57.143 0.00 0.00 34.10 5.14
3376 6191 3.181418 ACCCACTTGGATGAAAATGACCT 60.181 43.478 0.00 0.00 37.39 3.85
3379 6194 5.068198 CCCACTTGGATGAAAATGACCTATG 59.932 44.000 0.00 0.00 37.39 2.23
3380 6195 5.068198 CCACTTGGATGAAAATGACCTATGG 59.932 44.000 0.00 0.00 37.39 2.74
3381 6196 5.068198 CACTTGGATGAAAATGACCTATGGG 59.932 44.000 0.00 0.00 38.88 4.00
3434 6249 0.534873 AAATGGCGGGGTACAAATGC 59.465 50.000 0.00 0.00 0.00 3.56
3448 6263 3.038352 CAAATGCGTTGTGTATCGAGG 57.962 47.619 0.00 0.00 32.08 4.63
3449 6264 1.651987 AATGCGTTGTGTATCGAGGG 58.348 50.000 0.00 0.00 0.00 4.30
3484 6299 4.442375 TTTTTGAACGTGTGTGATGGTT 57.558 36.364 0.00 0.00 0.00 3.67
3487 6302 1.668237 TGAACGTGTGTGATGGTTGTG 59.332 47.619 0.00 0.00 0.00 3.33
3536 6351 2.961669 GCGGCAGTTTGTACGGTGG 61.962 63.158 0.00 0.00 0.00 4.61
3561 6376 1.129437 GTCGTTCTGCTTCCATGCTTC 59.871 52.381 0.00 0.00 0.00 3.86
3595 6412 2.639286 GCCGCTGTTGGTTCAGTG 59.361 61.111 0.00 0.00 43.13 3.66
3636 6453 1.301716 ATTGGTTCTCGTGCGTGCT 60.302 52.632 0.00 0.00 0.00 4.40
3637 6454 1.568612 ATTGGTTCTCGTGCGTGCTG 61.569 55.000 0.00 0.00 0.00 4.41
3638 6455 4.077188 GGTTCTCGTGCGTGCTGC 62.077 66.667 0.00 0.00 46.70 5.25
3639 6456 3.038417 GTTCTCGTGCGTGCTGCT 61.038 61.111 0.00 0.00 46.63 4.24
3640 6457 2.280119 TTCTCGTGCGTGCTGCTT 60.280 55.556 0.00 0.00 46.63 3.91
3641 6458 1.887242 TTCTCGTGCGTGCTGCTTT 60.887 52.632 0.00 0.00 46.63 3.51
3642 6459 1.436195 TTCTCGTGCGTGCTGCTTTT 61.436 50.000 0.00 0.00 46.63 2.27
3643 6460 1.723542 CTCGTGCGTGCTGCTTTTG 60.724 57.895 0.00 0.00 46.63 2.44
3644 6461 2.024588 CGTGCGTGCTGCTTTTGT 59.975 55.556 0.00 0.00 46.63 2.83
3645 6462 2.005537 CGTGCGTGCTGCTTTTGTC 61.006 57.895 0.00 0.00 46.63 3.18
3646 6463 1.356624 GTGCGTGCTGCTTTTGTCT 59.643 52.632 0.00 0.00 46.63 3.41
3647 6464 0.931662 GTGCGTGCTGCTTTTGTCTG 60.932 55.000 0.00 0.00 46.63 3.51
3648 6465 1.370900 GCGTGCTGCTTTTGTCTGG 60.371 57.895 0.00 0.00 41.73 3.86
3649 6466 2.024918 CGTGCTGCTTTTGTCTGGT 58.975 52.632 0.00 0.00 0.00 4.00
3727 6559 2.264005 TATCTCTGTCGCTCCCTCTC 57.736 55.000 0.00 0.00 0.00 3.20
3734 6566 3.531207 CGCTCCCTCTCGATGGCA 61.531 66.667 0.00 0.00 0.00 4.92
3791 6623 1.539929 GCCATCTCTTCTGATCGGTGG 60.540 57.143 0.42 1.85 0.00 4.61
3793 6625 0.755686 ATCTCTTCTGATCGGTGGCC 59.244 55.000 0.00 0.00 0.00 5.36
3795 6627 1.612146 TCTTCTGATCGGTGGCCCA 60.612 57.895 0.00 0.00 0.00 5.36
3921 7141 2.353573 GTTGGGAAAGCGGGCCTA 59.646 61.111 0.84 0.00 0.00 3.93
4132 7352 2.230940 CGTTCTGCTACATCCGCGG 61.231 63.158 22.12 22.12 35.10 6.46
4148 7368 2.286523 CGGCCAGAGGTGAGTTCCT 61.287 63.158 2.24 0.00 40.97 3.36
4180 7400 1.755179 CCTCCATGATTGTTTCGCCT 58.245 50.000 0.00 0.00 0.00 5.52
4182 7402 2.614057 CCTCCATGATTGTTTCGCCTAC 59.386 50.000 0.00 0.00 0.00 3.18
4199 7419 2.845752 TACGCGTCCTGGCCATCAAC 62.846 60.000 18.63 3.84 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.045176 TGTAGCAGCACATACTATGATACTAG 57.955 38.462 2.90 0.00 35.96 2.57
1 2 7.996098 TGTAGCAGCACATACTATGATACTA 57.004 36.000 2.90 0.00 35.96 1.82
2 3 6.901081 TGTAGCAGCACATACTATGATACT 57.099 37.500 2.90 0.00 35.96 2.12
3 4 7.487509 CAGATGTAGCAGCACATACTATGATAC 59.512 40.741 9.59 0.00 39.25 2.24
5 6 6.014755 ACAGATGTAGCAGCACATACTATGAT 60.015 38.462 9.59 0.00 39.25 2.45
6 7 5.302823 ACAGATGTAGCAGCACATACTATGA 59.697 40.000 9.59 0.00 39.25 2.15
7 8 5.536260 ACAGATGTAGCAGCACATACTATG 58.464 41.667 9.59 9.02 39.25 2.23
8 9 5.798125 ACAGATGTAGCAGCACATACTAT 57.202 39.130 9.59 0.00 39.25 2.12
9 10 6.319141 CTACAGATGTAGCAGCACATACTA 57.681 41.667 7.05 1.87 41.15 1.82
10 11 5.193663 CTACAGATGTAGCAGCACATACT 57.806 43.478 7.05 7.05 41.15 2.12
137 138 9.639563 TGATGAGGTGGCATAGAATTAAATAAA 57.360 29.630 0.00 0.00 0.00 1.40
138 139 9.639563 TTGATGAGGTGGCATAGAATTAAATAA 57.360 29.630 0.00 0.00 0.00 1.40
139 140 9.812347 ATTGATGAGGTGGCATAGAATTAAATA 57.188 29.630 0.00 0.00 0.00 1.40
140 141 8.716674 ATTGATGAGGTGGCATAGAATTAAAT 57.283 30.769 0.00 0.00 0.00 1.40
141 142 9.812347 ATATTGATGAGGTGGCATAGAATTAAA 57.188 29.630 0.00 0.00 0.00 1.52
142 143 9.812347 AATATTGATGAGGTGGCATAGAATTAA 57.188 29.630 0.00 0.00 0.00 1.40
143 144 9.234827 CAATATTGATGAGGTGGCATAGAATTA 57.765 33.333 10.04 0.00 0.00 1.40
144 145 7.309621 GCAATATTGATGAGGTGGCATAGAATT 60.310 37.037 19.73 0.00 0.00 2.17
145 146 6.152323 GCAATATTGATGAGGTGGCATAGAAT 59.848 38.462 19.73 0.00 0.00 2.40
146 147 5.474532 GCAATATTGATGAGGTGGCATAGAA 59.525 40.000 19.73 0.00 0.00 2.10
147 148 5.005740 GCAATATTGATGAGGTGGCATAGA 58.994 41.667 19.73 0.00 0.00 1.98
148 149 5.008331 AGCAATATTGATGAGGTGGCATAG 58.992 41.667 19.73 0.00 0.00 2.23
149 150 4.989277 AGCAATATTGATGAGGTGGCATA 58.011 39.130 19.73 0.00 0.00 3.14
150 151 3.840991 AGCAATATTGATGAGGTGGCAT 58.159 40.909 19.73 0.00 0.00 4.40
151 152 3.301794 AGCAATATTGATGAGGTGGCA 57.698 42.857 19.73 0.00 0.00 4.92
152 153 4.823989 ACTAAGCAATATTGATGAGGTGGC 59.176 41.667 19.90 2.27 29.13 5.01
153 154 6.732154 CAACTAAGCAATATTGATGAGGTGG 58.268 40.000 23.41 8.99 38.75 4.61
154 155 6.319658 ACCAACTAAGCAATATTGATGAGGTG 59.680 38.462 23.97 23.97 41.42 4.00
155 156 6.426587 ACCAACTAAGCAATATTGATGAGGT 58.573 36.000 19.90 12.42 29.13 3.85
156 157 6.949352 ACCAACTAAGCAATATTGATGAGG 57.051 37.500 19.90 13.37 29.13 3.86
157 158 8.019669 GCATACCAACTAAGCAATATTGATGAG 58.980 37.037 19.73 17.37 31.28 2.90
158 159 7.501892 TGCATACCAACTAAGCAATATTGATGA 59.498 33.333 19.73 4.99 31.42 2.92
159 160 7.650890 TGCATACCAACTAAGCAATATTGATG 58.349 34.615 19.73 10.16 31.42 3.07
160 161 7.822161 TGCATACCAACTAAGCAATATTGAT 57.178 32.000 19.73 10.37 31.42 2.57
161 162 7.501892 TCATGCATACCAACTAAGCAATATTGA 59.498 33.333 19.73 0.00 38.85 2.57
162 163 7.592533 GTCATGCATACCAACTAAGCAATATTG 59.407 37.037 11.27 11.27 38.85 1.90
163 164 7.285172 TGTCATGCATACCAACTAAGCAATATT 59.715 33.333 0.00 0.00 38.85 1.28
164 165 6.772233 TGTCATGCATACCAACTAAGCAATAT 59.228 34.615 0.00 0.00 38.85 1.28
165 166 6.038161 GTGTCATGCATACCAACTAAGCAATA 59.962 38.462 0.00 0.00 38.85 1.90
166 167 4.949238 TGTCATGCATACCAACTAAGCAAT 59.051 37.500 0.00 0.00 38.85 3.56
167 168 4.155826 GTGTCATGCATACCAACTAAGCAA 59.844 41.667 0.00 0.00 38.85 3.91
168 169 3.689161 GTGTCATGCATACCAACTAAGCA 59.311 43.478 0.00 0.00 39.79 3.91
169 170 3.941483 AGTGTCATGCATACCAACTAAGC 59.059 43.478 0.00 0.00 0.00 3.09
170 171 5.643348 TGAAGTGTCATGCATACCAACTAAG 59.357 40.000 0.00 0.00 0.00 2.18
171 172 5.555966 TGAAGTGTCATGCATACCAACTAA 58.444 37.500 0.00 0.00 0.00 2.24
172 173 5.159273 TGAAGTGTCATGCATACCAACTA 57.841 39.130 0.00 0.00 0.00 2.24
173 174 4.019792 TGAAGTGTCATGCATACCAACT 57.980 40.909 0.00 0.00 0.00 3.16
174 175 4.970662 ATGAAGTGTCATGCATACCAAC 57.029 40.909 0.00 0.00 43.13 3.77
175 176 5.064579 CGTAATGAAGTGTCATGCATACCAA 59.935 40.000 0.00 0.00 44.02 3.67
176 177 4.570369 CGTAATGAAGTGTCATGCATACCA 59.430 41.667 0.00 0.00 44.02 3.25
177 178 4.024893 CCGTAATGAAGTGTCATGCATACC 60.025 45.833 0.00 0.00 44.02 2.73
178 179 4.024893 CCCGTAATGAAGTGTCATGCATAC 60.025 45.833 0.00 0.00 44.02 2.39
179 180 4.126437 CCCGTAATGAAGTGTCATGCATA 58.874 43.478 0.00 0.00 44.02 3.14
180 181 2.945008 CCCGTAATGAAGTGTCATGCAT 59.055 45.455 0.00 0.00 44.02 3.96
181 182 2.355197 CCCGTAATGAAGTGTCATGCA 58.645 47.619 0.00 0.00 44.02 3.96
182 183 1.064060 GCCCGTAATGAAGTGTCATGC 59.936 52.381 0.00 0.00 44.02 4.06
183 184 2.352651 CTGCCCGTAATGAAGTGTCATG 59.647 50.000 0.00 0.00 44.02 3.07
184 185 2.632377 CTGCCCGTAATGAAGTGTCAT 58.368 47.619 0.00 0.00 46.91 3.06
185 186 1.943968 GCTGCCCGTAATGAAGTGTCA 60.944 52.381 0.00 0.00 38.41 3.58
186 187 0.727398 GCTGCCCGTAATGAAGTGTC 59.273 55.000 0.00 0.00 0.00 3.67
187 188 0.676782 GGCTGCCCGTAATGAAGTGT 60.677 55.000 7.66 0.00 0.00 3.55
188 189 0.392998 AGGCTGCCCGTAATGAAGTG 60.393 55.000 16.57 0.00 35.76 3.16
189 190 0.328258 AAGGCTGCCCGTAATGAAGT 59.672 50.000 16.57 0.00 35.76 3.01
190 191 2.325583 TAAGGCTGCCCGTAATGAAG 57.674 50.000 16.57 0.00 35.76 3.02
191 192 2.092646 ACATAAGGCTGCCCGTAATGAA 60.093 45.455 16.57 0.00 35.76 2.57
192 193 1.488812 ACATAAGGCTGCCCGTAATGA 59.511 47.619 16.57 0.00 35.76 2.57
193 194 1.873591 GACATAAGGCTGCCCGTAATG 59.126 52.381 16.57 15.44 35.76 1.90
194 195 1.768870 AGACATAAGGCTGCCCGTAAT 59.231 47.619 16.57 0.70 35.76 1.89
195 196 1.138266 GAGACATAAGGCTGCCCGTAA 59.862 52.381 16.57 0.00 35.76 3.18
196 197 0.750850 GAGACATAAGGCTGCCCGTA 59.249 55.000 16.57 8.68 35.76 4.02
197 198 0.978146 AGAGACATAAGGCTGCCCGT 60.978 55.000 16.57 7.74 35.76 5.28
198 199 0.179000 AAGAGACATAAGGCTGCCCG 59.821 55.000 16.57 4.18 35.76 6.13
199 200 1.210478 TGAAGAGACATAAGGCTGCCC 59.790 52.381 16.57 0.00 0.00 5.36
200 201 2.698855 TGAAGAGACATAAGGCTGCC 57.301 50.000 11.65 11.65 0.00 4.85
201 202 3.801698 TGATGAAGAGACATAAGGCTGC 58.198 45.455 0.00 0.00 0.00 5.25
202 203 6.318144 ACAAATGATGAAGAGACATAAGGCTG 59.682 38.462 0.00 0.00 0.00 4.85
203 204 6.421485 ACAAATGATGAAGAGACATAAGGCT 58.579 36.000 0.00 0.00 0.00 4.58
204 205 6.238593 GGACAAATGATGAAGAGACATAAGGC 60.239 42.308 0.00 0.00 0.00 4.35
205 206 7.052873 AGGACAAATGATGAAGAGACATAAGG 58.947 38.462 0.00 0.00 0.00 2.69
206 207 7.986320 AGAGGACAAATGATGAAGAGACATAAG 59.014 37.037 0.00 0.00 0.00 1.73
257 258 1.732917 CGGCAGGTCAGCACAAAAA 59.267 52.632 0.00 0.00 35.83 1.94
297 304 4.412207 GTTTTGATGATAACTTGGCGACC 58.588 43.478 0.00 0.00 0.00 4.79
370 380 0.539986 ACGGACAACACCTGACTTGT 59.460 50.000 0.00 0.00 33.19 3.16
412 422 6.947464 AGTAGGTGGAGTAGTACTACGTTTA 58.053 40.000 23.87 11.50 40.80 2.01
458 468 0.392998 ATACGTGGAGCCAGCTTTGG 60.393 55.000 0.00 0.00 0.00 3.28
542 554 4.130118 ACTTGCTCTTGATTCTCGTGTTT 58.870 39.130 0.00 0.00 0.00 2.83
549 564 1.677217 GGCCGACTTGCTCTTGATTCT 60.677 52.381 0.00 0.00 0.00 2.40
621 644 2.731374 CTAGCGAGCCAGGTAGCC 59.269 66.667 2.91 0.00 35.76 3.93
663 686 2.820059 AAAGTTAAGCCTGCCTTTGC 57.180 45.000 0.00 0.00 34.95 3.68
751 1595 2.615227 ATCTGACAAGGCCCGGCATC 62.615 60.000 12.58 3.58 0.00 3.91
753 1597 1.971505 CTATCTGACAAGGCCCGGCA 61.972 60.000 12.58 0.00 0.00 5.69
754 1598 1.227674 CTATCTGACAAGGCCCGGC 60.228 63.158 0.00 0.00 0.00 6.13
755 1599 1.227674 GCTATCTGACAAGGCCCGG 60.228 63.158 0.00 0.00 0.00 5.73
756 1600 0.531532 CAGCTATCTGACAAGGCCCG 60.532 60.000 0.00 0.00 42.95 6.13
758 1602 3.760580 ATACAGCTATCTGACAAGGCC 57.239 47.619 0.00 0.00 42.95 5.19
759 1603 5.121454 GCATAATACAGCTATCTGACAAGGC 59.879 44.000 0.00 0.00 42.95 4.35
762 1606 5.842907 ACGCATAATACAGCTATCTGACAA 58.157 37.500 0.00 0.00 42.95 3.18
764 1608 7.030165 ACATACGCATAATACAGCTATCTGAC 58.970 38.462 0.00 0.00 42.95 3.51
765 1609 7.158099 ACATACGCATAATACAGCTATCTGA 57.842 36.000 0.00 0.00 42.95 3.27
767 1611 8.903820 TCATACATACGCATAATACAGCTATCT 58.096 33.333 0.00 0.00 0.00 1.98
768 1612 9.175060 CTCATACATACGCATAATACAGCTATC 57.825 37.037 0.00 0.00 0.00 2.08
770 1614 7.968405 CACTCATACATACGCATAATACAGCTA 59.032 37.037 0.00 0.00 0.00 3.32
771 1615 6.808704 CACTCATACATACGCATAATACAGCT 59.191 38.462 0.00 0.00 0.00 4.24
772 1616 6.586463 ACACTCATACATACGCATAATACAGC 59.414 38.462 0.00 0.00 0.00 4.40
773 1617 8.023706 AGACACTCATACATACGCATAATACAG 58.976 37.037 0.00 0.00 0.00 2.74
774 1618 7.882179 AGACACTCATACATACGCATAATACA 58.118 34.615 0.00 0.00 0.00 2.29
777 1621 8.523658 ACATAGACACTCATACATACGCATAAT 58.476 33.333 0.00 0.00 0.00 1.28
820 3516 6.172630 CCCAAAAGGCAGCTATATTGTTTTT 58.827 36.000 0.00 0.00 0.00 1.94
835 3531 0.317160 GTTGCAGGTACCCAAAAGGC 59.683 55.000 8.74 3.89 40.58 4.35
893 3590 2.774799 GCCGGCAATCACATGGACC 61.775 63.158 24.80 0.00 0.00 4.46
923 3622 2.064762 GGATCTGCAAATCGATCGGAG 58.935 52.381 16.41 4.09 37.50 4.63
924 3623 1.688735 AGGATCTGCAAATCGATCGGA 59.311 47.619 16.41 2.63 37.50 4.55
947 3646 1.204704 CACATGGCGAGTAGGACAGAA 59.795 52.381 0.00 0.00 0.00 3.02
976 3675 2.297895 TATCCCGTTGTGGCTGCCT 61.298 57.895 21.03 0.00 35.87 4.75
1124 3847 2.681778 CTCCGGGGACAGAGCACT 60.682 66.667 0.00 0.00 0.00 4.40
1151 3874 3.726517 CTGCGACGGGGCACAAAG 61.727 66.667 0.00 0.00 38.17 2.77
1189 3912 1.672030 CACAGAAGCGGCATGACCA 60.672 57.895 1.45 0.00 39.03 4.02
1191 3914 0.376152 CATCACAGAAGCGGCATGAC 59.624 55.000 1.45 0.00 0.00 3.06
1240 3963 1.081892 CGTCCTTGATGGTCAGCTTG 58.918 55.000 0.00 0.00 37.07 4.01
1310 4033 2.718731 CTGCGAGAGGTAGAGCCG 59.281 66.667 0.00 0.00 43.70 5.52
1324 4047 3.437795 ATGTCAAGCTGCGCCTGC 61.438 61.111 4.18 9.99 43.20 4.85
1338 4061 4.094646 TGATGGACGGCGGCATGT 62.095 61.111 17.61 0.00 0.00 3.21
1355 4078 2.748058 ATTTCGGGGTTGCACGAGCT 62.748 55.000 6.36 0.00 42.74 4.09
1416 4139 4.241555 GCTCGCCGGGGATGTGAT 62.242 66.667 22.85 0.00 0.00 3.06
1448 4174 0.037303 CATGAGTGGTGCTGGGTCTT 59.963 55.000 0.00 0.00 0.00 3.01
1465 4194 2.520536 GCCTACCAGGGATCGCCAT 61.521 63.158 6.09 0.00 35.37 4.40
1591 4347 3.044059 GATGTCAACTGGCGGCAGC 62.044 63.158 36.06 21.26 44.18 5.25
1636 4392 3.384014 CTCGTCGGTGTCCTCGCTC 62.384 68.421 0.00 0.00 0.00 5.03
1793 4595 0.038251 TCGACTGCATGTCCACACTC 60.038 55.000 9.71 0.00 42.49 3.51
1994 4801 2.711922 GGCGGTGAGGACGACAGAT 61.712 63.158 0.00 0.00 39.67 2.90
2002 4809 2.362503 AGACGATGGCGGTGAGGA 60.363 61.111 0.00 0.00 43.17 3.71
2150 4957 3.399181 TGGATCTCCCACACCGGC 61.399 66.667 0.00 0.00 40.82 6.13
2405 5215 1.068943 TGGTGGGGAGCCTTTGGTAA 61.069 55.000 0.00 0.00 0.00 2.85
2612 5422 1.602323 GGCCCACCACGACAATGAA 60.602 57.895 0.00 0.00 35.26 2.57
2654 5464 2.124320 AACACTGTTGCCACGGCT 60.124 55.556 9.92 0.00 42.51 5.52
2780 5590 0.531974 AGAGGTCTTTGCGCACGAAA 60.532 50.000 11.12 0.00 0.00 3.46
2825 5635 2.967507 TTTTGGGCCTGCGCTGTGTA 62.968 55.000 9.73 0.00 34.44 2.90
2910 5720 8.360390 GTTCTTGGAATTGGAATTTGAACTAGT 58.640 33.333 0.00 0.00 30.94 2.57
2972 5782 0.526096 CGTTGCTGTTGCTGCTTGTT 60.526 50.000 0.00 0.00 40.48 2.83
3061 5871 6.085756 CTATGTGGTAGATATGCATGCAGCA 61.086 44.000 26.69 16.52 44.87 4.41
3063 5873 5.727434 TCTATGTGGTAGATATGCATGCAG 58.273 41.667 26.69 6.99 34.50 4.41
3064 5874 5.743636 TCTATGTGGTAGATATGCATGCA 57.256 39.130 25.04 25.04 34.50 3.96
3156 5971 4.176271 GGCAATGCAAATTACTCAAGGAC 58.824 43.478 7.79 0.00 0.00 3.85
3275 6090 0.808125 TTCGGCCATACATTGCACAC 59.192 50.000 2.24 0.00 0.00 3.82
3291 6106 5.050091 GGGTATCTTGCATCTTACACATTCG 60.050 44.000 0.00 0.00 0.00 3.34
3294 6109 5.372343 TGGGTATCTTGCATCTTACACAT 57.628 39.130 0.00 0.00 0.00 3.21
3342 6157 2.689983 CCAAGTGGGTGAATATTGGAGC 59.310 50.000 0.00 0.00 42.46 4.70
3384 6199 1.098869 ACACGTGCCATGTTCAAACA 58.901 45.000 17.22 0.00 44.06 2.83
3416 6231 1.662438 CGCATTTGTACCCCGCCATT 61.662 55.000 0.00 0.00 0.00 3.16
3479 6294 3.181470 GCTAAACCAACCAACACAACCAT 60.181 43.478 0.00 0.00 0.00 3.55
3480 6295 2.166664 GCTAAACCAACCAACACAACCA 59.833 45.455 0.00 0.00 0.00 3.67
3482 6297 3.512033 TGCTAAACCAACCAACACAAC 57.488 42.857 0.00 0.00 0.00 3.32
3484 6299 4.744795 AATTGCTAAACCAACCAACACA 57.255 36.364 0.00 0.00 0.00 3.72
3487 6302 6.429791 ACAAAAATTGCTAAACCAACCAAC 57.570 33.333 0.00 0.00 0.00 3.77
3536 6351 2.668280 GGAAGCAGAACGACCACGC 61.668 63.158 0.00 0.00 43.96 5.34
3561 6376 2.287009 GCGGCCGAATAGAAATGAAAGG 60.287 50.000 33.48 0.00 0.00 3.11
3595 6412 2.308039 AACAGAAAGCGACGCGACC 61.308 57.895 15.93 7.22 0.00 4.79
3636 6453 1.405105 GACAGCAACCAGACAAAAGCA 59.595 47.619 0.00 0.00 0.00 3.91
3637 6454 1.597937 CGACAGCAACCAGACAAAAGC 60.598 52.381 0.00 0.00 0.00 3.51
3638 6455 1.002468 CCGACAGCAACCAGACAAAAG 60.002 52.381 0.00 0.00 0.00 2.27
3639 6456 1.021202 CCGACAGCAACCAGACAAAA 58.979 50.000 0.00 0.00 0.00 2.44
3640 6457 0.107410 ACCGACAGCAACCAGACAAA 60.107 50.000 0.00 0.00 0.00 2.83
3641 6458 0.107410 AACCGACAGCAACCAGACAA 60.107 50.000 0.00 0.00 0.00 3.18
3642 6459 0.107410 AAACCGACAGCAACCAGACA 60.107 50.000 0.00 0.00 0.00 3.41
3643 6460 0.307760 CAAACCGACAGCAACCAGAC 59.692 55.000 0.00 0.00 0.00 3.51
3644 6461 0.817634 CCAAACCGACAGCAACCAGA 60.818 55.000 0.00 0.00 0.00 3.86
3645 6462 1.101049 ACCAAACCGACAGCAACCAG 61.101 55.000 0.00 0.00 0.00 4.00
3646 6463 0.180642 TACCAAACCGACAGCAACCA 59.819 50.000 0.00 0.00 0.00 3.67
3647 6464 0.589708 GTACCAAACCGACAGCAACC 59.410 55.000 0.00 0.00 0.00 3.77
3648 6465 0.233848 CGTACCAAACCGACAGCAAC 59.766 55.000 0.00 0.00 0.00 4.17
3649 6466 1.500512 GCGTACCAAACCGACAGCAA 61.501 55.000 0.00 0.00 0.00 3.91
3744 6576 1.817217 CGAAGCAACGTCAACAGCGA 61.817 55.000 0.00 0.00 0.00 4.93
3791 6623 4.537433 AAGGCGCGAGAGATGGGC 62.537 66.667 12.10 0.00 43.79 5.36
3793 6625 2.279784 GGAAGGCGCGAGAGATGG 60.280 66.667 12.10 0.00 0.00 3.51
3921 7141 3.491619 CGTCGATTGAGAGTGGGATCAAT 60.492 47.826 0.29 0.29 46.21 2.57
4116 7336 2.202878 GCCGCGGATGTAGCAGAA 60.203 61.111 33.48 0.00 34.19 3.02
4132 7352 0.398318 ACAAGGAACTCACCTCTGGC 59.602 55.000 0.00 0.00 38.49 4.85
4144 7364 1.412343 GAGGCCAAAAAGCACAAGGAA 59.588 47.619 5.01 0.00 0.00 3.36
4148 7368 1.070445 CATGGAGGCCAAAAAGCACAA 59.930 47.619 5.01 0.00 36.95 3.33
4180 7400 2.651105 TTGATGGCCAGGACGCGTA 61.651 57.895 13.97 0.00 0.00 4.42
4182 7402 3.499737 GTTGATGGCCAGGACGCG 61.500 66.667 13.05 3.53 0.00 6.01
4199 7419 3.487202 CGTCACCATTGGTCGCCG 61.487 66.667 5.04 4.71 31.02 6.46
4206 7426 1.031571 CATCCACCCCGTCACCATTG 61.032 60.000 0.00 0.00 0.00 2.82


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

AutoCloner maintained by Alex Coulton.