Multiple sequence alignment - TraesCS6A01G057600

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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 TraesCS6A01G057600 chr6A 100.000 3813 0 0 1 3813 30421628 30425440 0.000000e+00 7042.0
1 TraesCS6A01G057600 chr6A 83.814 902 130 12 1056 1948 30283398 30282504 0.000000e+00 843.0
2 TraesCS6A01G057600 chr6A 84.292 643 74 13 1296 1929 30263664 30263040 1.520000e-168 603.0
3 TraesCS6A01G057600 chr6A 82.500 600 100 4 996 1594 30036460 30035865 4.360000e-144 521.0
4 TraesCS6A01G057600 chr6A 72.447 1136 237 50 1006 2100 30041689 30040589 1.040000e-75 294.0
5 TraesCS6A01G057600 chr6A 87.342 237 22 3 2045 2281 30263020 30262792 8.120000e-67 265.0
6 TraesCS6A01G057600 chr6A 73.497 366 76 19 1744 2100 40622737 40622384 6.690000e-23 119.0
7 TraesCS6A01G057600 chr6A 86.047 86 12 0 2004 2089 30282506 30282421 4.060000e-15 93.5
8 TraesCS6A01G057600 chr6D 95.225 3016 118 14 799 3813 27683908 27680918 0.000000e+00 4748.0
9 TraesCS6A01G057600 chr6D 84.477 1108 141 18 996 2094 27711107 27712192 0.000000e+00 1064.0
10 TraesCS6A01G057600 chr6D 82.255 603 102 4 996 1594 27845335 27845936 2.030000e-142 516.0
11 TraesCS6A01G057600 chr6D 82.004 489 72 12 1021 1501 28415994 28415514 5.930000e-108 401.0
12 TraesCS6A01G057600 chr6D 79.439 428 70 14 1606 2017 28415387 28414962 1.730000e-73 287.0
13 TraesCS6A01G057600 chr6D 93.333 105 7 0 209 313 27684849 27684745 5.100000e-34 156.0
14 TraesCS6A01G057600 chr6D 74.032 439 83 21 1679 2097 36324603 36325030 2.370000e-32 150.0
15 TraesCS6A01G057600 chr6D 94.253 87 5 0 330 416 27684319 27684233 2.390000e-27 134.0
16 TraesCS6A01G057600 chr6D 82.734 139 24 0 1754 1892 27760729 27760867 1.440000e-24 124.0
17 TraesCS6A01G057600 chr6B 94.310 3093 139 10 721 3813 51436023 51432968 0.000000e+00 4702.0
18 TraesCS6A01G057600 chr6B 84.813 777 102 11 996 1766 51537981 51538747 0.000000e+00 767.0
19 TraesCS6A01G057600 chr6B 89.578 403 26 6 329 730 51439029 51438642 7.360000e-137 497.0
20 TraesCS6A01G057600 chr6B 82.131 582 97 5 990 1569 51732096 51732672 3.420000e-135 492.0
21 TraesCS6A01G057600 chr6B 88.268 358 34 2 1919 2276 51553674 51554023 4.550000e-114 422.0
22 TraesCS6A01G057600 chr6B 87.681 276 27 6 1 273 51502857 51502586 7.950000e-82 315.0
23 TraesCS6A01G057600 chr6B 76.331 507 85 23 1613 2095 51732743 51733238 4.920000e-59 239.0
24 TraesCS6A01G057600 chr6B 81.429 140 25 1 1751 1890 49700664 49700526 3.110000e-21 113.0
25 TraesCS6A01G057600 chrUn 83.212 274 41 3 3020 3288 137673356 137673629 2.940000e-61 246.0
26 TraesCS6A01G057600 chrUn 80.488 123 11 9 329 446 137673105 137673219 8.780000e-12 82.4


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 TraesCS6A01G057600 chr6A 30421628 30425440 3812 False 7042.000000 7042 100.000000 1 3813 1 chr6A.!!$F1 3812
1 TraesCS6A01G057600 chr6A 30035865 30036460 595 True 521.000000 521 82.500000 996 1594 1 chr6A.!!$R1 598
2 TraesCS6A01G057600 chr6A 30282421 30283398 977 True 468.250000 843 84.930500 1056 2089 2 chr6A.!!$R5 1033
3 TraesCS6A01G057600 chr6A 30262792 30263664 872 True 434.000000 603 85.817000 1296 2281 2 chr6A.!!$R4 985
4 TraesCS6A01G057600 chr6A 30040589 30041689 1100 True 294.000000 294 72.447000 1006 2100 1 chr6A.!!$R2 1094
5 TraesCS6A01G057600 chr6D 27680918 27684849 3931 True 1679.333333 4748 94.270333 209 3813 3 chr6D.!!$R1 3604
6 TraesCS6A01G057600 chr6D 27711107 27712192 1085 False 1064.000000 1064 84.477000 996 2094 1 chr6D.!!$F1 1098
7 TraesCS6A01G057600 chr6D 27845335 27845936 601 False 516.000000 516 82.255000 996 1594 1 chr6D.!!$F3 598
8 TraesCS6A01G057600 chr6D 28414962 28415994 1032 True 344.000000 401 80.721500 1021 2017 2 chr6D.!!$R2 996
9 TraesCS6A01G057600 chr6B 51432968 51439029 6061 True 2599.500000 4702 91.944000 329 3813 2 chr6B.!!$R3 3484
10 TraesCS6A01G057600 chr6B 51537981 51538747 766 False 767.000000 767 84.813000 996 1766 1 chr6B.!!$F1 770
11 TraesCS6A01G057600 chr6B 51732096 51733238 1142 False 365.500000 492 79.231000 990 2095 2 chr6B.!!$F3 1105

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
193 194 0.109153 GGGACGTTGTGTTACCCCTT 59.891 55.0 0.00 0.0 35.0 3.95 F
868 3975 0.322906 CTTCCTTCCAGTGGGCTTCC 60.323 60.0 9.92 0.0 0.0 3.46 F
871 3978 0.322906 CCTTCCAGTGGGCTTCCTTC 60.323 60.0 9.92 0.0 0.0 3.46 F
1856 5040 0.614415 GGTGTTGCATCATGGGGGAA 60.614 55.0 0.00 0.0 0.0 3.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1900 5084 0.532862 AATAGGGGCGCAATCTCGTG 60.533 55.000 10.83 0.0 0.00 4.35 R
2776 5969 0.958091 TTGGATTGCCCACAAGTTCG 59.042 50.000 0.00 0.0 46.62 3.95 R
2795 5988 8.798859 AAGCATATCTAACAGACAATCACTTT 57.201 30.769 0.00 0.0 0.00 2.66 R
3146 6339 1.079612 GCAAAAGGGCACATCCAGC 60.080 57.895 0.00 0.0 36.21 4.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.548081 CATGGTTTGCTCATGTCCCA 58.452 50.000 0.00 0.00 37.72 4.37
25 26 1.203052 CATGGTTTGCTCATGTCCCAC 59.797 52.381 0.00 0.00 37.72 4.61
26 27 0.184692 TGGTTTGCTCATGTCCCACA 59.815 50.000 0.00 0.00 0.00 4.17
27 28 1.327303 GGTTTGCTCATGTCCCACAA 58.673 50.000 0.00 0.00 0.00 3.33
28 29 1.895131 GGTTTGCTCATGTCCCACAAT 59.105 47.619 0.00 0.00 0.00 2.71
29 30 3.088532 GGTTTGCTCATGTCCCACAATA 58.911 45.455 0.00 0.00 0.00 1.90
30 31 3.701040 GGTTTGCTCATGTCCCACAATAT 59.299 43.478 0.00 0.00 0.00 1.28
31 32 4.160252 GGTTTGCTCATGTCCCACAATATT 59.840 41.667 0.00 0.00 0.00 1.28
32 33 5.337491 GGTTTGCTCATGTCCCACAATATTT 60.337 40.000 0.00 0.00 0.00 1.40
33 34 4.987408 TGCTCATGTCCCACAATATTTG 57.013 40.909 0.00 0.00 0.00 2.32
34 35 3.130869 TGCTCATGTCCCACAATATTTGC 59.869 43.478 0.00 0.00 0.00 3.68
35 36 3.382546 GCTCATGTCCCACAATATTTGCT 59.617 43.478 0.00 0.00 0.00 3.91
36 37 4.142093 GCTCATGTCCCACAATATTTGCTT 60.142 41.667 0.00 0.00 0.00 3.91
37 38 5.067674 GCTCATGTCCCACAATATTTGCTTA 59.932 40.000 0.00 0.00 0.00 3.09
38 39 6.239120 GCTCATGTCCCACAATATTTGCTTAT 60.239 38.462 0.00 0.00 0.00 1.73
39 40 7.041635 TCATGTCCCACAATATTTGCTTATG 57.958 36.000 0.00 0.00 0.00 1.90
40 41 5.261209 TGTCCCACAATATTTGCTTATGC 57.739 39.130 0.00 0.00 40.20 3.14
41 42 4.099266 TGTCCCACAATATTTGCTTATGCC 59.901 41.667 0.00 0.00 38.71 4.40
42 43 4.099266 GTCCCACAATATTTGCTTATGCCA 59.901 41.667 0.00 0.00 38.71 4.92
43 44 4.713814 TCCCACAATATTTGCTTATGCCAA 59.286 37.500 0.00 0.00 38.71 4.52
44 45 5.366186 TCCCACAATATTTGCTTATGCCAAT 59.634 36.000 5.42 5.42 38.04 3.16
45 46 5.467399 CCCACAATATTTGCTTATGCCAATG 59.533 40.000 9.42 0.00 35.66 2.82
46 47 6.282167 CCACAATATTTGCTTATGCCAATGA 58.718 36.000 9.42 0.00 35.66 2.57
47 48 6.201425 CCACAATATTTGCTTATGCCAATGAC 59.799 38.462 9.42 0.00 35.66 3.06
48 49 6.757478 CACAATATTTGCTTATGCCAATGACA 59.243 34.615 9.42 0.00 35.66 3.58
49 50 7.439955 CACAATATTTGCTTATGCCAATGACAT 59.560 33.333 9.42 0.00 35.66 3.06
50 51 7.988599 ACAATATTTGCTTATGCCAATGACATT 59.011 29.630 9.42 0.00 35.66 2.71
51 52 8.832521 CAATATTTGCTTATGCCAATGACATTT 58.167 29.630 9.42 0.00 35.66 2.32
52 53 6.913873 ATTTGCTTATGCCAATGACATTTC 57.086 33.333 0.00 0.00 33.94 2.17
53 54 5.402997 TTGCTTATGCCAATGACATTTCA 57.597 34.783 0.00 0.30 38.71 2.69
54 55 5.601583 TGCTTATGCCAATGACATTTCAT 57.398 34.783 13.92 13.92 40.48 2.57
55 56 5.979993 TGCTTATGCCAATGACATTTCATT 58.020 33.333 14.41 1.10 43.75 2.57
56 57 7.110043 TGCTTATGCCAATGACATTTCATTA 57.890 32.000 6.77 7.78 43.29 1.90
57 58 7.728148 TGCTTATGCCAATGACATTTCATTAT 58.272 30.769 6.77 1.04 43.29 1.28
58 59 8.205512 TGCTTATGCCAATGACATTTCATTATT 58.794 29.630 6.77 0.00 43.29 1.40
69 70 9.985730 ATGACATTTCATTATTTCTGTGTGTTT 57.014 25.926 0.00 0.00 39.66 2.83
70 71 9.247126 TGACATTTCATTATTTCTGTGTGTTTG 57.753 29.630 0.00 0.00 0.00 2.93
71 72 9.462174 GACATTTCATTATTTCTGTGTGTTTGA 57.538 29.630 0.00 0.00 0.00 2.69
72 73 9.814899 ACATTTCATTATTTCTGTGTGTTTGAA 57.185 25.926 0.00 0.00 0.00 2.69
75 76 9.814899 TTTCATTATTTCTGTGTGTTTGAATGT 57.185 25.926 0.00 0.00 0.00 2.71
76 77 8.800231 TCATTATTTCTGTGTGTTTGAATGTG 57.200 30.769 0.00 0.00 0.00 3.21
77 78 8.412456 TCATTATTTCTGTGTGTTTGAATGTGT 58.588 29.630 0.00 0.00 0.00 3.72
78 79 9.676195 CATTATTTCTGTGTGTTTGAATGTGTA 57.324 29.630 0.00 0.00 0.00 2.90
79 80 9.677567 ATTATTTCTGTGTGTTTGAATGTGTAC 57.322 29.630 0.00 0.00 0.00 2.90
80 81 6.751514 TTTCTGTGTGTTTGAATGTGTACT 57.248 33.333 0.00 0.00 0.00 2.73
81 82 5.733226 TCTGTGTGTTTGAATGTGTACTG 57.267 39.130 0.00 0.00 0.00 2.74
82 83 5.182487 TCTGTGTGTTTGAATGTGTACTGT 58.818 37.500 0.00 0.00 0.00 3.55
83 84 6.342111 TCTGTGTGTTTGAATGTGTACTGTA 58.658 36.000 0.00 0.00 0.00 2.74
84 85 6.478673 TCTGTGTGTTTGAATGTGTACTGTAG 59.521 38.462 0.00 0.00 0.00 2.74
85 86 6.110033 TGTGTGTTTGAATGTGTACTGTAGT 58.890 36.000 0.00 0.00 0.00 2.73
86 87 6.256975 TGTGTGTTTGAATGTGTACTGTAGTC 59.743 38.462 0.00 0.00 0.00 2.59
87 88 5.756347 TGTGTTTGAATGTGTACTGTAGTCC 59.244 40.000 0.00 0.00 0.00 3.85
88 89 5.178809 GTGTTTGAATGTGTACTGTAGTCCC 59.821 44.000 0.00 0.00 0.00 4.46
89 90 5.163290 TGTTTGAATGTGTACTGTAGTCCCA 60.163 40.000 0.00 0.00 0.00 4.37
90 91 4.530710 TGAATGTGTACTGTAGTCCCAC 57.469 45.455 0.00 7.45 33.35 4.61
91 92 3.898741 TGAATGTGTACTGTAGTCCCACA 59.101 43.478 15.38 15.38 41.23 4.17
140 141 9.483916 TTCTTAAGAAATGAAACGTACAGATGA 57.516 29.630 15.57 0.00 0.00 2.92
141 142 9.653287 TCTTAAGAAATGAAACGTACAGATGAT 57.347 29.630 1.68 0.00 0.00 2.45
142 143 9.694520 CTTAAGAAATGAAACGTACAGATGATG 57.305 33.333 0.00 0.00 0.00 3.07
143 144 7.672983 AAGAAATGAAACGTACAGATGATGT 57.327 32.000 0.00 0.00 46.45 3.06
144 145 8.771920 AAGAAATGAAACGTACAGATGATGTA 57.228 30.769 0.00 0.00 43.66 2.29
145 146 8.948631 AGAAATGAAACGTACAGATGATGTAT 57.051 30.769 0.00 0.00 45.94 2.29
160 161 9.578439 CAGATGATGTATATATATACCCATGCG 57.422 37.037 26.14 18.37 38.17 4.73
161 162 8.253810 AGATGATGTATATATATACCCATGCGC 58.746 37.037 26.14 18.09 38.17 6.09
162 163 7.539034 TGATGTATATATATACCCATGCGCT 57.461 36.000 23.94 0.00 38.17 5.92
163 164 7.962441 TGATGTATATATATACCCATGCGCTT 58.038 34.615 23.94 0.00 38.17 4.68
164 165 8.088365 TGATGTATATATATACCCATGCGCTTC 58.912 37.037 23.94 9.60 38.17 3.86
165 166 7.354751 TGTATATATATACCCATGCGCTTCA 57.645 36.000 23.94 4.44 38.17 3.02
166 167 7.433680 TGTATATATATACCCATGCGCTTCAG 58.566 38.462 23.94 0.00 38.17 3.02
167 168 4.826274 ATATATACCCATGCGCTTCAGT 57.174 40.909 9.73 4.42 0.00 3.41
168 169 2.238942 TATACCCATGCGCTTCAGTG 57.761 50.000 9.73 0.00 0.00 3.66
169 170 0.253044 ATACCCATGCGCTTCAGTGT 59.747 50.000 9.73 0.83 0.00 3.55
170 171 0.673333 TACCCATGCGCTTCAGTGTG 60.673 55.000 9.73 0.00 0.00 3.82
171 172 2.177531 CCATGCGCTTCAGTGTGC 59.822 61.111 9.73 0.00 43.07 4.57
172 173 2.330372 CCATGCGCTTCAGTGTGCT 61.330 57.895 9.73 0.00 43.17 4.40
173 174 1.154282 CATGCGCTTCAGTGTGCTG 60.154 57.895 9.73 0.00 43.17 4.41
174 175 2.330372 ATGCGCTTCAGTGTGCTGG 61.330 57.895 9.73 0.00 42.78 4.85
175 176 3.730761 GCGCTTCAGTGTGCTGGG 61.731 66.667 0.00 0.24 42.78 4.45
176 177 3.052082 CGCTTCAGTGTGCTGGGG 61.052 66.667 8.65 0.00 42.78 4.96
177 178 2.431683 GCTTCAGTGTGCTGGGGA 59.568 61.111 4.17 0.00 42.78 4.81
178 179 1.968540 GCTTCAGTGTGCTGGGGAC 60.969 63.158 4.17 0.00 42.78 4.46
179 180 1.669115 CTTCAGTGTGCTGGGGACG 60.669 63.158 0.00 0.00 42.78 4.79
180 181 2.383245 CTTCAGTGTGCTGGGGACGT 62.383 60.000 0.00 0.00 42.78 4.34
181 182 1.978455 TTCAGTGTGCTGGGGACGTT 61.978 55.000 0.00 0.00 42.78 3.99
182 183 2.111043 AGTGTGCTGGGGACGTTG 59.889 61.111 0.00 0.00 0.00 4.10
183 184 2.203153 GTGTGCTGGGGACGTTGT 60.203 61.111 0.00 0.00 0.00 3.32
184 185 2.203139 TGTGCTGGGGACGTTGTG 60.203 61.111 0.00 0.00 0.00 3.33
185 186 2.203153 GTGCTGGGGACGTTGTGT 60.203 61.111 0.00 0.00 0.00 3.72
186 187 1.822186 GTGCTGGGGACGTTGTGTT 60.822 57.895 0.00 0.00 0.00 3.32
187 188 0.533308 GTGCTGGGGACGTTGTGTTA 60.533 55.000 0.00 0.00 0.00 2.41
188 189 0.533308 TGCTGGGGACGTTGTGTTAC 60.533 55.000 0.00 0.00 0.00 2.50
189 190 1.232621 GCTGGGGACGTTGTGTTACC 61.233 60.000 0.00 0.00 0.00 2.85
190 191 0.604511 CTGGGGACGTTGTGTTACCC 60.605 60.000 0.00 0.00 44.26 3.69
191 192 4.384599 GGGACGTTGTGTTACCCC 57.615 61.111 0.00 0.00 35.00 4.95
192 193 1.756665 GGGACGTTGTGTTACCCCT 59.243 57.895 0.00 0.00 35.00 4.79
193 194 0.109153 GGGACGTTGTGTTACCCCTT 59.891 55.000 0.00 0.00 35.00 3.95
194 195 1.347378 GGGACGTTGTGTTACCCCTTA 59.653 52.381 0.00 0.00 35.00 2.69
195 196 2.416747 GGACGTTGTGTTACCCCTTAC 58.583 52.381 0.00 0.00 0.00 2.34
196 197 2.224257 GGACGTTGTGTTACCCCTTACA 60.224 50.000 0.00 0.00 0.00 2.41
197 198 3.465871 GACGTTGTGTTACCCCTTACAA 58.534 45.455 0.00 0.00 0.00 2.41
198 199 3.205338 ACGTTGTGTTACCCCTTACAAC 58.795 45.455 0.00 0.00 45.64 3.32
199 200 2.549329 CGTTGTGTTACCCCTTACAACC 59.451 50.000 11.94 0.00 46.09 3.77
200 201 3.745163 CGTTGTGTTACCCCTTACAACCT 60.745 47.826 11.94 0.00 46.09 3.50
201 202 3.495434 TGTGTTACCCCTTACAACCTG 57.505 47.619 0.00 0.00 0.00 4.00
202 203 2.106857 TGTGTTACCCCTTACAACCTGG 59.893 50.000 0.00 0.00 0.00 4.45
203 204 2.372837 GTGTTACCCCTTACAACCTGGA 59.627 50.000 0.00 0.00 0.00 3.86
204 205 3.054576 TGTTACCCCTTACAACCTGGAA 58.945 45.455 0.00 0.00 0.00 3.53
205 206 3.462579 TGTTACCCCTTACAACCTGGAAA 59.537 43.478 0.00 0.00 0.00 3.13
206 207 4.106663 TGTTACCCCTTACAACCTGGAAAT 59.893 41.667 0.00 0.00 0.00 2.17
207 208 3.915346 ACCCCTTACAACCTGGAAATT 57.085 42.857 0.00 0.00 0.00 1.82
214 215 5.480073 CCTTACAACCTGGAAATTGGATGAA 59.520 40.000 0.00 0.00 31.69 2.57
267 268 6.381133 TGAATCTTGCACTGTAGAATCCTCTA 59.619 38.462 0.00 0.00 32.70 2.43
270 271 8.663209 ATCTTGCACTGTAGAATCCTCTATAT 57.337 34.615 0.00 0.00 36.54 0.86
273 274 9.853555 CTTGCACTGTAGAATCCTCTATATTAG 57.146 37.037 0.00 0.00 36.54 1.73
313 314 2.172293 GCCATCTGATGAGAAGTCCCTT 59.828 50.000 18.92 0.00 0.00 3.95
314 315 3.806380 CCATCTGATGAGAAGTCCCTTG 58.194 50.000 18.92 0.00 0.00 3.61
317 318 2.027745 TCTGATGAGAAGTCCCTTGCAC 60.028 50.000 0.00 0.00 0.00 4.57
319 320 2.289882 TGATGAGAAGTCCCTTGCACAG 60.290 50.000 0.00 0.00 0.00 3.66
322 323 2.300152 TGAGAAGTCCCTTGCACAGTAG 59.700 50.000 0.00 0.00 0.00 2.57
323 324 2.563179 GAGAAGTCCCTTGCACAGTAGA 59.437 50.000 0.00 0.00 0.00 2.59
324 325 2.972713 AGAAGTCCCTTGCACAGTAGAA 59.027 45.455 0.00 0.00 0.00 2.10
326 327 3.618690 AGTCCCTTGCACAGTAGAATC 57.381 47.619 0.00 0.00 0.00 2.52
327 328 2.237392 AGTCCCTTGCACAGTAGAATCC 59.763 50.000 0.00 0.00 0.00 3.01
508 922 7.883391 TTGTTTTGACAAGTTAAGGGTGATA 57.117 32.000 0.00 0.00 0.00 2.15
515 929 5.491982 ACAAGTTAAGGGTGATAGCTTCTG 58.508 41.667 0.00 0.00 0.00 3.02
559 973 5.821516 TCGCTGGTTCTTTTCTACAAAAA 57.178 34.783 0.00 0.00 30.90 1.94
631 1047 5.237779 TCCAAAGAAATGTGTCGTTTCTACC 59.762 40.000 14.56 0.00 45.41 3.18
639 1055 4.863491 TGTGTCGTTTCTACCAACTAGAC 58.137 43.478 0.00 0.00 30.56 2.59
664 1080 7.855904 ACGATCACAAGTTGTTTACAAGATTTC 59.144 33.333 5.57 0.00 36.39 2.17
673 1089 7.867403 AGTTGTTTACAAGATTTCGCATTTCAT 59.133 29.630 0.00 0.00 36.39 2.57
674 1090 7.795431 TGTTTACAAGATTTCGCATTTCATC 57.205 32.000 0.00 0.00 0.00 2.92
681 1097 3.997319 TTTCGCATTTCATCGACTGAG 57.003 42.857 0.00 0.00 34.68 3.35
682 1098 1.280982 TCGCATTTCATCGACTGAGC 58.719 50.000 0.00 0.00 34.68 4.26
687 1103 2.386661 TTTCATCGACTGAGCCCTTC 57.613 50.000 0.00 0.00 34.68 3.46
698 1114 1.640149 TGAGCCCTTCATCCATTTCCA 59.360 47.619 0.00 0.00 0.00 3.53
733 3777 1.545582 TGAGCTGCATTACAAAAGGCC 59.454 47.619 1.02 0.00 41.66 5.19
748 3792 5.850028 ACAAAAGGCCTAGGATAGCCTTATA 59.150 40.000 19.48 0.00 46.87 0.98
749 3793 6.174049 CAAAAGGCCTAGGATAGCCTTATAC 58.826 44.000 19.48 0.00 46.87 1.47
751 3795 4.615513 AGGCCTAGGATAGCCTTATACTG 58.384 47.826 14.75 0.00 43.90 2.74
753 3797 5.255679 AGGCCTAGGATAGCCTTATACTGTA 59.744 44.000 14.75 0.00 43.90 2.74
757 3801 9.198475 GCCTAGGATAGCCTTATACTGTATTTA 57.802 37.037 14.75 0.00 43.90 1.40
782 3853 8.574251 AAAAAGGCAAAAGGATTAGTTTTTGT 57.426 26.923 10.30 0.00 43.03 2.83
783 3854 8.574251 AAAAGGCAAAAGGATTAGTTTTTGTT 57.426 26.923 10.30 0.00 43.03 2.83
784 3855 8.574251 AAAGGCAAAAGGATTAGTTTTTGTTT 57.426 26.923 10.30 3.33 43.03 2.83
785 3856 8.574251 AAGGCAAAAGGATTAGTTTTTGTTTT 57.426 26.923 10.30 4.31 43.03 2.43
786 3857 8.574251 AGGCAAAAGGATTAGTTTTTGTTTTT 57.426 26.923 10.30 0.00 43.03 1.94
857 3964 2.046217 GGTCGTGGGCTTCCTTCC 60.046 66.667 0.00 0.00 0.00 3.46
858 3965 2.747686 GTCGTGGGCTTCCTTCCA 59.252 61.111 0.00 0.00 0.00 3.53
859 3966 1.376037 GTCGTGGGCTTCCTTCCAG 60.376 63.158 0.00 0.00 33.13 3.86
860 3967 1.841556 TCGTGGGCTTCCTTCCAGT 60.842 57.895 0.00 0.00 33.13 4.00
861 3968 1.672356 CGTGGGCTTCCTTCCAGTG 60.672 63.158 0.00 0.00 33.13 3.66
862 3969 1.303643 GTGGGCTTCCTTCCAGTGG 60.304 63.158 1.40 1.40 33.13 4.00
863 3970 2.356667 GGGCTTCCTTCCAGTGGG 59.643 66.667 9.92 0.00 0.00 4.61
864 3971 2.361737 GGCTTCCTTCCAGTGGGC 60.362 66.667 9.92 3.06 0.00 5.36
865 3972 2.759795 GCTTCCTTCCAGTGGGCT 59.240 61.111 9.92 0.00 0.00 5.19
866 3973 1.075659 GCTTCCTTCCAGTGGGCTT 59.924 57.895 9.92 0.00 0.00 4.35
867 3974 0.962855 GCTTCCTTCCAGTGGGCTTC 60.963 60.000 9.92 0.00 0.00 3.86
868 3975 0.322906 CTTCCTTCCAGTGGGCTTCC 60.323 60.000 9.92 0.00 0.00 3.46
869 3976 0.772124 TTCCTTCCAGTGGGCTTCCT 60.772 55.000 9.92 0.00 0.00 3.36
870 3977 0.772124 TCCTTCCAGTGGGCTTCCTT 60.772 55.000 9.92 0.00 0.00 3.36
871 3978 0.322906 CCTTCCAGTGGGCTTCCTTC 60.323 60.000 9.92 0.00 0.00 3.46
904 4011 1.227943 TCTCACTTGCAGGCACACC 60.228 57.895 0.00 0.00 0.00 4.16
954 4081 1.657751 GCTTCGACCCCAGCATTTCC 61.658 60.000 1.96 0.00 35.95 3.13
973 4100 1.045407 CCCGCATAGCAGTAACCCTA 58.955 55.000 0.00 0.00 0.00 3.53
974 4101 1.414919 CCCGCATAGCAGTAACCCTAA 59.585 52.381 0.00 0.00 0.00 2.69
975 4102 2.158871 CCCGCATAGCAGTAACCCTAAA 60.159 50.000 0.00 0.00 0.00 1.85
976 4103 3.537580 CCGCATAGCAGTAACCCTAAAA 58.462 45.455 0.00 0.00 0.00 1.52
977 4104 3.942748 CCGCATAGCAGTAACCCTAAAAA 59.057 43.478 0.00 0.00 0.00 1.94
1195 4327 2.522193 CTCCCCTCCTCGGCTACC 60.522 72.222 0.00 0.00 0.00 3.18
1232 4364 1.202903 AGGCATCTCGTACGACCCTAT 60.203 52.381 15.28 2.95 0.00 2.57
1736 4908 1.151450 AAGTGCCAGTTGGTGAGGG 59.849 57.895 0.00 0.00 37.57 4.30
1856 5040 0.614415 GGTGTTGCATCATGGGGGAA 60.614 55.000 0.00 0.00 0.00 3.97
1900 5084 5.169295 ACAAGCTACTTTCTCCGTATTCAC 58.831 41.667 0.00 0.00 0.00 3.18
1907 5091 4.158025 ACTTTCTCCGTATTCACACGAGAT 59.842 41.667 0.00 0.00 44.69 2.75
1936 5126 6.575162 CCCTATTCATATTAGGGTTTGCAC 57.425 41.667 9.18 0.00 44.26 4.57
2102 5295 6.934645 GGTAATAGCATGCCTTTACACTGATA 59.065 38.462 27.91 9.20 0.00 2.15
2103 5296 7.607991 GGTAATAGCATGCCTTTACACTGATAT 59.392 37.037 27.91 10.74 0.00 1.63
2129 5322 2.240414 TGCCATTCACATCCTCTCATGT 59.760 45.455 0.00 0.00 37.49 3.21
2130 5323 3.285484 GCCATTCACATCCTCTCATGTT 58.715 45.455 0.00 0.00 34.60 2.71
2138 5331 7.252612 TCACATCCTCTCATGTTAACCTAAA 57.747 36.000 2.48 0.00 34.60 1.85
2139 5332 7.861629 TCACATCCTCTCATGTTAACCTAAAT 58.138 34.615 2.48 0.00 34.60 1.40
2140 5333 8.328758 TCACATCCTCTCATGTTAACCTAAATT 58.671 33.333 2.48 0.00 34.60 1.82
2452 5645 5.885449 TCAAATGTTGGGGAATGAGTTTT 57.115 34.783 0.00 0.00 0.00 2.43
2694 5887 3.634397 TTCTCCTGTCTATTTGGCCTG 57.366 47.619 3.32 0.00 0.00 4.85
2776 5969 2.120909 CGGTGAACATGATGGGGCC 61.121 63.158 0.00 0.00 0.00 5.80
2968 6161 3.636764 GAGAGGACTCCAAGATTCTCTCC 59.363 52.174 0.00 0.00 37.19 3.71
3102 6295 4.404715 CAGCTTTCCATTCCCTTCATCATT 59.595 41.667 0.00 0.00 0.00 2.57
3121 6314 4.516698 TCATTCTTTCACTTCACCAGCTTC 59.483 41.667 0.00 0.00 0.00 3.86
3145 6338 0.908198 GGCTGACTGATGTTCTCCCT 59.092 55.000 0.00 0.00 0.00 4.20
3146 6339 1.406614 GGCTGACTGATGTTCTCCCTG 60.407 57.143 0.00 0.00 0.00 4.45
3231 6424 5.014858 TCCTGGTTGTACGAACTCTTCTAT 58.985 41.667 0.00 0.00 0.00 1.98
3290 6483 3.290948 TCTCCCTCTAGCTTCTCAGAC 57.709 52.381 0.00 0.00 0.00 3.51
3324 6517 8.240682 TGCTTGCAATTATTATTTTCTGTACGT 58.759 29.630 0.00 0.00 0.00 3.57
3325 6518 9.072294 GCTTGCAATTATTATTTTCTGTACGTT 57.928 29.630 0.00 0.00 0.00 3.99
3403 6596 5.109903 GTGATTCGCTATTGGACACTAGTT 58.890 41.667 0.00 0.00 0.00 2.24
3407 6600 5.258456 TCGCTATTGGACACTAGTTTAGG 57.742 43.478 0.00 0.00 0.00 2.69
3430 6623 5.240844 GGTTGTCTGGTTTAAGCTACATGTT 59.759 40.000 2.30 0.00 0.00 2.71
3451 6644 7.462109 TGTTGCTATGTTTCAATTTTGACAC 57.538 32.000 3.25 3.25 38.13 3.67
3472 6665 2.953648 CCCCTCCGTTTAGTTTTGTGTT 59.046 45.455 0.00 0.00 0.00 3.32
3556 6749 9.868277 CTGCATATTAAATTTTGGTAGGACAAA 57.132 29.630 0.00 0.00 38.48 2.83
3584 6777 9.669353 CTTTCACAAACGTTTACTCTAGTAGTA 57.331 33.333 14.20 0.00 39.80 1.82
3701 6894 1.883926 GCGTAACCATTGGTCAAAGGT 59.116 47.619 9.22 4.95 43.45 3.50
3763 6956 8.554490 AATATTAGTAATGGTCTGGTGAGAGT 57.446 34.615 5.61 0.00 0.00 3.24
3764 6957 5.661056 TTAGTAATGGTCTGGTGAGAGTG 57.339 43.478 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.203038 TGTGGGACATGAGCAAACCAT 60.203 47.619 0.00 0.00 44.52 3.55
8 9 1.327303 TTGTGGGACATGAGCAAACC 58.673 50.000 0.00 0.00 44.52 3.27
9 10 4.989279 ATATTGTGGGACATGAGCAAAC 57.011 40.909 0.00 0.00 44.52 2.93
10 11 5.722263 CAAATATTGTGGGACATGAGCAAA 58.278 37.500 0.00 0.00 44.52 3.68
11 12 4.381825 GCAAATATTGTGGGACATGAGCAA 60.382 41.667 0.00 0.00 44.52 3.91
12 13 3.130869 GCAAATATTGTGGGACATGAGCA 59.869 43.478 0.00 0.00 44.52 4.26
13 14 3.382546 AGCAAATATTGTGGGACATGAGC 59.617 43.478 0.00 0.00 44.52 4.26
14 15 5.587388 AAGCAAATATTGTGGGACATGAG 57.413 39.130 0.00 0.00 44.52 2.90
15 16 6.461370 GCATAAGCAAATATTGTGGGACATGA 60.461 38.462 0.00 0.00 40.59 3.07
16 17 5.693104 GCATAAGCAAATATTGTGGGACATG 59.307 40.000 0.00 0.00 40.59 3.21
17 18 5.221501 GGCATAAGCAAATATTGTGGGACAT 60.222 40.000 0.00 0.00 42.34 3.06
18 19 4.099266 GGCATAAGCAAATATTGTGGGACA 59.901 41.667 0.00 0.00 44.61 4.02
19 20 4.099266 TGGCATAAGCAAATATTGTGGGAC 59.901 41.667 0.00 0.00 44.61 4.46
20 21 4.285020 TGGCATAAGCAAATATTGTGGGA 58.715 39.130 0.00 0.00 44.61 4.37
21 22 4.669206 TGGCATAAGCAAATATTGTGGG 57.331 40.909 0.00 0.00 44.61 4.61
22 23 6.201425 GTCATTGGCATAAGCAAATATTGTGG 59.799 38.462 0.00 0.00 42.53 4.17
23 24 6.757478 TGTCATTGGCATAAGCAAATATTGTG 59.243 34.615 0.00 0.00 42.53 3.33
24 25 6.876155 TGTCATTGGCATAAGCAAATATTGT 58.124 32.000 0.00 0.00 42.53 2.71
25 26 7.956420 ATGTCATTGGCATAAGCAAATATTG 57.044 32.000 0.92 0.00 42.53 1.90
26 27 8.967664 AAATGTCATTGGCATAAGCAAATATT 57.032 26.923 3.79 0.00 42.53 1.28
27 28 8.205512 TGAAATGTCATTGGCATAAGCAAATAT 58.794 29.630 3.79 0.00 42.53 1.28
28 29 7.554211 TGAAATGTCATTGGCATAAGCAAATA 58.446 30.769 3.79 0.00 42.53 1.40
29 30 6.408035 TGAAATGTCATTGGCATAAGCAAAT 58.592 32.000 3.79 0.00 45.31 2.32
30 31 5.791666 TGAAATGTCATTGGCATAAGCAAA 58.208 33.333 3.79 0.00 44.61 3.68
31 32 5.402997 TGAAATGTCATTGGCATAAGCAA 57.597 34.783 3.79 0.00 44.61 3.91
32 33 5.601583 ATGAAATGTCATTGGCATAAGCA 57.398 34.783 3.79 3.90 42.03 3.91
43 44 9.985730 AAACACACAGAAATAATGAAATGTCAT 57.014 25.926 0.00 0.00 46.91 3.06
44 45 9.247126 CAAACACACAGAAATAATGAAATGTCA 57.753 29.630 0.00 0.00 38.41 3.58
45 46 9.462174 TCAAACACACAGAAATAATGAAATGTC 57.538 29.630 0.00 0.00 0.00 3.06
46 47 9.814899 TTCAAACACACAGAAATAATGAAATGT 57.185 25.926 0.00 0.00 0.00 2.71
49 50 9.814899 ACATTCAAACACACAGAAATAATGAAA 57.185 25.926 0.00 0.00 0.00 2.69
50 51 9.247126 CACATTCAAACACACAGAAATAATGAA 57.753 29.630 0.00 0.00 0.00 2.57
51 52 8.412456 ACACATTCAAACACACAGAAATAATGA 58.588 29.630 0.00 0.00 0.00 2.57
52 53 8.578308 ACACATTCAAACACACAGAAATAATG 57.422 30.769 0.00 0.00 0.00 1.90
53 54 9.677567 GTACACATTCAAACACACAGAAATAAT 57.322 29.630 0.00 0.00 0.00 1.28
54 55 8.898761 AGTACACATTCAAACACACAGAAATAA 58.101 29.630 0.00 0.00 0.00 1.40
55 56 8.341903 CAGTACACATTCAAACACACAGAAATA 58.658 33.333 0.00 0.00 0.00 1.40
56 57 7.148086 ACAGTACACATTCAAACACACAGAAAT 60.148 33.333 0.00 0.00 0.00 2.17
57 58 6.150307 ACAGTACACATTCAAACACACAGAAA 59.850 34.615 0.00 0.00 0.00 2.52
58 59 5.645929 ACAGTACACATTCAAACACACAGAA 59.354 36.000 0.00 0.00 0.00 3.02
59 60 5.182487 ACAGTACACATTCAAACACACAGA 58.818 37.500 0.00 0.00 0.00 3.41
60 61 5.484173 ACAGTACACATTCAAACACACAG 57.516 39.130 0.00 0.00 0.00 3.66
61 62 6.110033 ACTACAGTACACATTCAAACACACA 58.890 36.000 0.00 0.00 0.00 3.72
62 63 6.292703 GGACTACAGTACACATTCAAACACAC 60.293 42.308 0.00 0.00 0.00 3.82
63 64 5.756347 GGACTACAGTACACATTCAAACACA 59.244 40.000 0.00 0.00 0.00 3.72
64 65 5.178809 GGGACTACAGTACACATTCAAACAC 59.821 44.000 0.00 0.00 0.00 3.32
65 66 5.163290 TGGGACTACAGTACACATTCAAACA 60.163 40.000 0.00 0.00 0.00 2.83
66 67 5.178809 GTGGGACTACAGTACACATTCAAAC 59.821 44.000 10.24 0.00 36.57 2.93
67 68 5.163290 TGTGGGACTACAGTACACATTCAAA 60.163 40.000 12.67 0.00 39.47 2.69
68 69 4.345547 TGTGGGACTACAGTACACATTCAA 59.654 41.667 12.67 0.00 39.47 2.69
69 70 3.898741 TGTGGGACTACAGTACACATTCA 59.101 43.478 12.67 0.00 39.47 2.57
70 71 4.495422 CTGTGGGACTACAGTACACATTC 58.505 47.826 15.53 0.00 41.71 2.67
71 72 4.537135 CTGTGGGACTACAGTACACATT 57.463 45.455 15.53 0.00 41.71 2.71
114 115 9.483916 TCATCTGTACGTTTCATTTCTTAAGAA 57.516 29.630 13.99 13.99 0.00 2.52
115 116 9.653287 ATCATCTGTACGTTTCATTTCTTAAGA 57.347 29.630 0.00 0.00 0.00 2.10
116 117 9.694520 CATCATCTGTACGTTTCATTTCTTAAG 57.305 33.333 0.00 0.00 0.00 1.85
117 118 9.214957 ACATCATCTGTACGTTTCATTTCTTAA 57.785 29.630 0.00 0.00 35.91 1.85
118 119 8.771920 ACATCATCTGTACGTTTCATTTCTTA 57.228 30.769 0.00 0.00 35.91 2.10
119 120 7.672983 ACATCATCTGTACGTTTCATTTCTT 57.327 32.000 0.00 0.00 35.91 2.52
120 121 8.948631 ATACATCATCTGTACGTTTCATTTCT 57.051 30.769 0.00 0.00 43.01 2.52
134 135 9.578439 CGCATGGGTATATATATACATCATCTG 57.422 37.037 26.66 20.26 40.16 2.90
135 136 8.253810 GCGCATGGGTATATATATACATCATCT 58.746 37.037 26.66 12.44 40.16 2.90
136 137 8.253810 AGCGCATGGGTATATATATACATCATC 58.746 37.037 26.66 20.01 40.16 2.92
137 138 8.138928 AGCGCATGGGTATATATATACATCAT 57.861 34.615 26.66 24.15 40.16 2.45
138 139 7.539034 AGCGCATGGGTATATATATACATCA 57.461 36.000 26.66 23.35 40.16 3.07
139 140 8.088365 TGAAGCGCATGGGTATATATATACATC 58.912 37.037 26.66 19.87 40.16 3.06
140 141 7.962441 TGAAGCGCATGGGTATATATATACAT 58.038 34.615 26.66 14.56 40.16 2.29
141 142 7.069455 ACTGAAGCGCATGGGTATATATATACA 59.931 37.037 26.66 13.20 40.16 2.29
142 143 7.382488 CACTGAAGCGCATGGGTATATATATAC 59.618 40.741 20.38 20.38 38.21 1.47
143 144 7.069455 ACACTGAAGCGCATGGGTATATATATA 59.931 37.037 11.47 0.00 0.00 0.86
144 145 6.127054 ACACTGAAGCGCATGGGTATATATAT 60.127 38.462 11.47 0.00 0.00 0.86
145 146 5.186992 ACACTGAAGCGCATGGGTATATATA 59.813 40.000 11.47 0.00 0.00 0.86
146 147 4.020218 ACACTGAAGCGCATGGGTATATAT 60.020 41.667 11.47 0.00 0.00 0.86
147 148 3.323691 ACACTGAAGCGCATGGGTATATA 59.676 43.478 11.47 0.00 0.00 0.86
148 149 2.104792 ACACTGAAGCGCATGGGTATAT 59.895 45.455 11.47 0.00 0.00 0.86
149 150 1.484653 ACACTGAAGCGCATGGGTATA 59.515 47.619 11.47 0.00 0.00 1.47
150 151 0.253044 ACACTGAAGCGCATGGGTAT 59.747 50.000 11.47 0.26 0.00 2.73
151 152 0.673333 CACACTGAAGCGCATGGGTA 60.673 55.000 11.47 0.00 0.00 3.69
152 153 1.968017 CACACTGAAGCGCATGGGT 60.968 57.895 11.47 0.00 0.00 4.51
153 154 2.872557 CACACTGAAGCGCATGGG 59.127 61.111 11.47 5.19 0.00 4.00
154 155 2.177531 GCACACTGAAGCGCATGG 59.822 61.111 11.47 0.00 0.00 3.66
155 156 3.260931 AGCACACTGAAGCGCATG 58.739 55.556 11.47 1.80 35.48 4.06
164 165 2.111043 AACGTCCCCAGCACACTG 59.889 61.111 0.00 0.00 44.05 3.66
165 166 2.111043 CAACGTCCCCAGCACACT 59.889 61.111 0.00 0.00 0.00 3.55
166 167 2.203153 ACAACGTCCCCAGCACAC 60.203 61.111 0.00 0.00 0.00 3.82
167 168 2.203139 CACAACGTCCCCAGCACA 60.203 61.111 0.00 0.00 0.00 4.57
168 169 0.533308 TAACACAACGTCCCCAGCAC 60.533 55.000 0.00 0.00 0.00 4.40
169 170 0.533308 GTAACACAACGTCCCCAGCA 60.533 55.000 0.00 0.00 0.00 4.41
170 171 1.232621 GGTAACACAACGTCCCCAGC 61.233 60.000 0.00 0.00 0.00 4.85
171 172 0.604511 GGGTAACACAACGTCCCCAG 60.605 60.000 0.00 0.00 38.19 4.45
172 173 1.451072 GGGTAACACAACGTCCCCA 59.549 57.895 0.00 0.00 38.19 4.96
173 174 4.384599 GGGTAACACAACGTCCCC 57.615 61.111 0.00 0.00 39.74 4.81
174 175 4.384599 GGGGTAACACAACGTCCC 57.615 61.111 0.00 0.00 42.67 4.46
182 183 2.372837 TCCAGGTTGTAAGGGGTAACAC 59.627 50.000 0.00 0.00 44.66 3.32
183 184 2.703947 TCCAGGTTGTAAGGGGTAACA 58.296 47.619 0.00 0.00 39.74 2.41
184 185 3.793819 TTCCAGGTTGTAAGGGGTAAC 57.206 47.619 0.00 0.00 0.00 2.50
185 186 5.081032 CAATTTCCAGGTTGTAAGGGGTAA 58.919 41.667 0.00 0.00 0.00 2.85
186 187 4.509482 CCAATTTCCAGGTTGTAAGGGGTA 60.509 45.833 0.00 0.00 0.00 3.69
187 188 3.506398 CAATTTCCAGGTTGTAAGGGGT 58.494 45.455 0.00 0.00 0.00 4.95
188 189 2.831526 CCAATTTCCAGGTTGTAAGGGG 59.168 50.000 0.00 0.00 0.00 4.79
189 190 3.773560 TCCAATTTCCAGGTTGTAAGGG 58.226 45.455 0.00 0.00 0.00 3.95
190 191 5.016173 TCATCCAATTTCCAGGTTGTAAGG 58.984 41.667 0.00 0.00 0.00 2.69
191 192 6.588719 TTCATCCAATTTCCAGGTTGTAAG 57.411 37.500 0.00 0.00 0.00 2.34
192 193 6.953520 AGATTCATCCAATTTCCAGGTTGTAA 59.046 34.615 0.00 0.00 0.00 2.41
193 194 6.493166 AGATTCATCCAATTTCCAGGTTGTA 58.507 36.000 0.00 0.00 0.00 2.41
194 195 5.336102 AGATTCATCCAATTTCCAGGTTGT 58.664 37.500 0.00 0.00 0.00 3.32
195 196 5.927281 AGATTCATCCAATTTCCAGGTTG 57.073 39.130 0.00 0.00 0.00 3.77
196 197 6.259123 AGAAGATTCATCCAATTTCCAGGTT 58.741 36.000 0.00 0.00 0.00 3.50
197 198 5.835582 AGAAGATTCATCCAATTTCCAGGT 58.164 37.500 0.00 0.00 0.00 4.00
198 199 6.154021 ACAAGAAGATTCATCCAATTTCCAGG 59.846 38.462 0.00 0.00 0.00 4.45
199 200 7.166691 ACAAGAAGATTCATCCAATTTCCAG 57.833 36.000 0.00 0.00 0.00 3.86
200 201 7.543359 AACAAGAAGATTCATCCAATTTCCA 57.457 32.000 0.00 0.00 0.00 3.53
201 202 9.578439 CTAAACAAGAAGATTCATCCAATTTCC 57.422 33.333 0.00 0.00 0.00 3.13
228 229 9.507329 AGTGCAAGATTCATTCTACTTCTTTTA 57.493 29.630 0.00 0.00 33.05 1.52
241 242 5.999044 AGGATTCTACAGTGCAAGATTCAT 58.001 37.500 14.84 8.69 0.00 2.57
313 314 3.866066 GCAGAAGTGGATTCTACTGTGCA 60.866 47.826 22.54 0.00 46.91 4.57
314 315 2.675348 GCAGAAGTGGATTCTACTGTGC 59.325 50.000 16.81 16.81 46.91 4.57
323 324 9.950496 CCTTGTATATAATAGCAGAAGTGGATT 57.050 33.333 0.00 0.00 0.00 3.01
324 325 9.326489 TCCTTGTATATAATAGCAGAAGTGGAT 57.674 33.333 0.00 0.00 0.00 3.41
326 327 8.589338 AGTCCTTGTATATAATAGCAGAAGTGG 58.411 37.037 0.00 0.00 0.00 4.00
435 845 7.048512 ACTACTATTAACTGGGCAACAATCTC 58.951 38.462 0.00 0.00 39.74 2.75
442 852 9.391006 CATTTCTTACTACTATTAACTGGGCAA 57.609 33.333 0.00 0.00 0.00 4.52
475 885 9.919348 CTTAACTTGTCAAAACAATTGAAATGG 57.081 29.630 13.59 0.00 44.18 3.16
620 1036 4.410492 TCGTCTAGTTGGTAGAAACGAC 57.590 45.455 0.00 0.00 39.61 4.34
623 1039 5.706916 TGTGATCGTCTAGTTGGTAGAAAC 58.293 41.667 0.00 0.00 39.61 2.78
631 1047 5.907197 AACAACTTGTGATCGTCTAGTTG 57.093 39.130 26.17 26.17 46.02 3.16
639 1055 7.058354 CGAAATCTTGTAAACAACTTGTGATCG 59.942 37.037 0.00 0.00 0.00 3.69
664 1080 0.302890 GGCTCAGTCGATGAAATGCG 59.697 55.000 0.00 0.00 37.52 4.73
673 1089 0.614697 TGGATGAAGGGCTCAGTCGA 60.615 55.000 0.00 0.00 37.52 4.20
674 1090 0.467384 ATGGATGAAGGGCTCAGTCG 59.533 55.000 0.00 0.00 37.52 4.18
681 1097 3.099141 TCTTTGGAAATGGATGAAGGGC 58.901 45.455 0.00 0.00 0.00 5.19
682 1098 5.743636 TTTCTTTGGAAATGGATGAAGGG 57.256 39.130 0.00 0.00 36.63 3.95
698 1114 5.673514 TGCAGCTCAAAAGGAAATTTCTTT 58.326 33.333 17.42 13.53 36.15 2.52
757 3801 8.574251 ACAAAAACTAATCCTTTTGCCTTTTT 57.426 26.923 7.08 0.00 43.30 1.94
785 3856 2.765699 AGTTTGAGCCTTGCCTGAAAAA 59.234 40.909 0.00 0.00 0.00 1.94
786 3857 2.387757 AGTTTGAGCCTTGCCTGAAAA 58.612 42.857 0.00 0.00 0.00 2.29
790 3861 0.600057 GGAAGTTTGAGCCTTGCCTG 59.400 55.000 0.00 0.00 0.00 4.85
801 3908 3.373565 GGCCCGGCAGGAAGTTTG 61.374 66.667 12.58 0.00 41.02 2.93
857 3964 1.065854 CCACTAGAAGGAAGCCCACTG 60.066 57.143 0.00 0.00 33.88 3.66
858 3965 1.280457 CCACTAGAAGGAAGCCCACT 58.720 55.000 0.00 0.00 33.88 4.00
859 3966 0.253327 CCCACTAGAAGGAAGCCCAC 59.747 60.000 0.00 0.00 33.88 4.61
860 3967 1.562672 GCCCACTAGAAGGAAGCCCA 61.563 60.000 0.00 0.00 33.88 5.36
861 3968 1.224870 GCCCACTAGAAGGAAGCCC 59.775 63.158 0.00 0.00 0.00 5.19
862 3969 0.621082 AAGCCCACTAGAAGGAAGCC 59.379 55.000 0.00 0.00 0.00 4.35
863 3970 2.290323 TGAAAGCCCACTAGAAGGAAGC 60.290 50.000 0.00 0.00 0.00 3.86
864 3971 3.008485 AGTGAAAGCCCACTAGAAGGAAG 59.992 47.826 0.00 0.00 44.82 3.46
865 3972 2.979678 AGTGAAAGCCCACTAGAAGGAA 59.020 45.455 0.00 0.00 44.82 3.36
866 3973 2.567615 GAGTGAAAGCCCACTAGAAGGA 59.432 50.000 0.00 0.00 46.45 3.36
867 3974 2.569404 AGAGTGAAAGCCCACTAGAAGG 59.431 50.000 0.00 0.00 46.45 3.46
868 3975 3.259374 TGAGAGTGAAAGCCCACTAGAAG 59.741 47.826 0.00 0.00 46.45 2.85
869 3976 3.006967 GTGAGAGTGAAAGCCCACTAGAA 59.993 47.826 0.00 0.00 46.45 2.10
870 3977 2.563179 GTGAGAGTGAAAGCCCACTAGA 59.437 50.000 0.00 0.00 46.45 2.43
871 3978 2.564947 AGTGAGAGTGAAAGCCCACTAG 59.435 50.000 4.29 0.00 46.45 2.57
904 4011 1.013005 CGTGAGAAGAGCAGCAGGTG 61.013 60.000 0.00 0.00 0.00 4.00
954 4081 1.045407 TAGGGTTACTGCTATGCGGG 58.955 55.000 3.35 0.00 39.57 6.13
1195 4327 1.226802 CTCGGCTGTCGTGGATGAG 60.227 63.158 0.09 0.00 40.32 2.90
1414 4553 1.463444 CTGGTTTTTGATCCCGTCGAC 59.537 52.381 5.18 5.18 0.00 4.20
1736 4908 3.248602 CCGCATAACAGTGAAGCTATTCC 59.751 47.826 0.00 0.00 34.28 3.01
1856 5040 1.355720 CCAGTTGAATGGTCCTTCCCT 59.644 52.381 0.00 0.00 35.47 4.20
1900 5084 0.532862 AATAGGGGCGCAATCTCGTG 60.533 55.000 10.83 0.00 0.00 4.35
1907 5091 3.950397 CCTAATATGAATAGGGGCGCAA 58.050 45.455 10.83 0.00 36.97 4.85
1936 5126 6.808212 GTCAGGAACACCACATTATTTTCATG 59.192 38.462 0.00 0.00 0.00 3.07
2023 5216 8.129161 TGATGTTGATCAAAAATGTTGTCAAC 57.871 30.769 10.35 17.09 43.32 3.18
2694 5887 2.736192 CAACCAATGAAATTCCAACCGC 59.264 45.455 0.00 0.00 31.22 5.68
2776 5969 0.958091 TTGGATTGCCCACAAGTTCG 59.042 50.000 0.00 0.00 46.62 3.95
2795 5988 8.798859 AAGCATATCTAACAGACAATCACTTT 57.201 30.769 0.00 0.00 0.00 2.66
2968 6161 2.224606 ACAACTGAGCCAAGTGTCATG 58.775 47.619 0.00 0.00 0.00 3.07
3102 6295 3.134623 TGAGAAGCTGGTGAAGTGAAAGA 59.865 43.478 0.00 0.00 0.00 2.52
3121 6314 3.196463 GAGAACATCAGTCAGCCATGAG 58.804 50.000 0.00 0.00 35.66 2.90
3145 6338 1.818959 GCAAAAGGGCACATCCAGCA 61.819 55.000 0.00 0.00 36.21 4.41
3146 6339 1.079612 GCAAAAGGGCACATCCAGC 60.080 57.895 0.00 0.00 36.21 4.85
3231 6424 1.203313 AGCAACTGGGGGAGTAAGAGA 60.203 52.381 0.00 0.00 33.09 3.10
3290 6483 4.602159 ATTGCAAGCAATTGGCCG 57.398 50.000 14.13 0.00 43.32 6.13
3403 6596 6.177310 TGTAGCTTAAACCAGACAACCTAA 57.823 37.500 0.00 0.00 0.00 2.69
3407 6600 5.941948 ACATGTAGCTTAAACCAGACAAC 57.058 39.130 0.00 0.00 0.00 3.32
3430 6623 5.510520 GGGGTGTCAAAATTGAAACATAGCA 60.511 40.000 16.20 0.00 45.26 3.49
3451 6644 2.578786 ACACAAAACTAAACGGAGGGG 58.421 47.619 0.00 0.00 0.00 4.79
3556 6749 6.343703 ACTAGAGTAAACGTTTGTGAAAGGT 58.656 36.000 23.46 10.71 40.84 3.50
3748 6941 2.050144 ACAACACTCTCACCAGACCAT 58.950 47.619 0.00 0.00 0.00 3.55
3763 6956 4.388165 CAGCACAACATCACAAAAACAACA 59.612 37.500 0.00 0.00 0.00 3.33
3764 6957 4.724602 GCAGCACAACATCACAAAAACAAC 60.725 41.667 0.00 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.