Multiple sequence alignment - TraesCS4A01G100100

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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 TraesCS4A01G100100 chr4A 100.000 2471 0 0 1 2471 112848035 112845565 0.000000e+00 4564
1 TraesCS4A01G100100 chr4A 95.199 729 31 3 744 1472 112853637 112852913 0.000000e+00 1149
2 TraesCS4A01G100100 chr4A 88.012 684 55 18 804 1470 112858263 112857590 0.000000e+00 784
3 TraesCS4A01G100100 chr4A 85.778 450 45 12 219 659 112854126 112853687 2.240000e-125 459
4 TraesCS4A01G100100 chr4A 99.083 218 2 0 1 218 739014758 739014541 2.300000e-105 392
5 TraesCS4A01G100100 chr4B 89.793 2077 117 31 425 2446 436101995 436104031 0.000000e+00 2573
6 TraesCS4A01G100100 chr4B 87.977 682 62 14 804 1472 436098273 436098947 0.000000e+00 787
7 TraesCS4A01G100100 chr4B 83.902 205 16 12 219 418 436101762 436101954 1.950000e-41 180
8 TraesCS4A01G100100 chr4D 90.006 1681 74 27 689 2343 352579682 352581294 0.000000e+00 2087
9 TraesCS4A01G100100 chr4D 86.364 682 63 17 804 1472 352524834 352525498 0.000000e+00 717
10 TraesCS4A01G100100 chr4D 86.000 200 20 6 219 418 352543436 352543627 8.960000e-50 207
11 TraesCS4A01G100100 chr4D 90.361 83 6 2 2387 2468 352581291 352581372 9.340000e-20 108
12 TraesCS4A01G100100 chr5D 95.652 437 19 0 1022 1458 358798407 358798843 0.000000e+00 702
13 TraesCS4A01G100100 chr5B 95.652 437 19 0 1022 1458 423796206 423796642 0.000000e+00 702
14 TraesCS4A01G100100 chr5A 94.737 437 23 0 1022 1458 459542701 459543137 0.000000e+00 680
15 TraesCS4A01G100100 chr2B 98.649 222 3 0 1 222 626041155 626041376 6.410000e-106 394
16 TraesCS4A01G100100 chr2B 99.083 218 2 0 1 218 626032876 626033093 2.300000e-105 392
17 TraesCS4A01G100100 chr2B 88.971 136 14 1 2209 2343 168838730 168838595 1.520000e-37 167
18 TraesCS4A01G100100 chr1B 99.087 219 2 0 1 219 610388323 610388541 6.410000e-106 394
19 TraesCS4A01G100100 chr1B 99.083 218 2 0 1 218 610380043 610380260 2.300000e-105 392
20 TraesCS4A01G100100 chr7B 99.083 218 2 0 1 218 535651027 535651244 2.300000e-105 392
21 TraesCS4A01G100100 chr6A 99.083 218 2 0 1 218 584410935 584411152 2.300000e-105 392
22 TraesCS4A01G100100 chr6A 98.636 220 3 0 1 220 584419229 584419448 8.290000e-105 390
23 TraesCS4A01G100100 chr6A 98.624 218 3 0 1 218 570353718 570353935 1.070000e-103 387
24 TraesCS4A01G100100 chr3B 85.950 121 15 1 2212 2330 816214353 816214233 7.170000e-26 128


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 TraesCS4A01G100100 chr4A 112845565 112848035 2470 True 4564.000000 4564 100.0000 1 2471 1 chr4A.!!$R1 2470
1 TraesCS4A01G100100 chr4A 112852913 112858263 5350 True 797.333333 1149 89.6630 219 1472 3 chr4A.!!$R3 1253
2 TraesCS4A01G100100 chr4B 436098273 436104031 5758 False 1180.000000 2573 87.2240 219 2446 3 chr4B.!!$F1 2227
3 TraesCS4A01G100100 chr4D 352579682 352581372 1690 False 1097.500000 2087 90.1835 689 2468 2 chr4D.!!$F3 1779
4 TraesCS4A01G100100 chr4D 352524834 352525498 664 False 717.000000 717 86.3640 804 1472 1 chr4D.!!$F1 668

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
222 223 0.038618 CTTCGGGTCGTGACACATGA 60.039 55.0 6.37 0.0 33.38 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1893 6221 0.037326 AAGCATTCCGTCGAGCAAGA 60.037 50.0 0.0 0.0 0.0 3.02 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 1.198867 GCATATGCACGTGGTTGAACA 59.801 47.619 22.84 5.67 41.59 3.18
25 26 2.850321 CATATGCACGTGGTTGAACAC 58.150 47.619 18.88 0.00 37.99 3.32
27 28 1.388547 ATGCACGTGGTTGAACACTT 58.611 45.000 18.88 0.00 39.19 3.16
28 29 0.449786 TGCACGTGGTTGAACACTTG 59.550 50.000 18.88 1.67 41.80 3.16
29 30 0.248458 GCACGTGGTTGAACACTTGG 60.248 55.000 18.88 0.00 39.97 3.61
30 31 0.248458 CACGTGGTTGAACACTTGGC 60.248 55.000 7.95 0.00 37.08 4.52
32 33 1.101049 CGTGGTTGAACACTTGGCCT 61.101 55.000 3.32 0.00 39.19 5.19
33 34 1.812324 CGTGGTTGAACACTTGGCCTA 60.812 52.381 3.32 0.00 39.19 3.93
35 36 1.493022 TGGTTGAACACTTGGCCTACT 59.507 47.619 3.32 0.00 0.00 2.57
36 37 2.706723 TGGTTGAACACTTGGCCTACTA 59.293 45.455 3.32 0.00 0.00 1.82
37 38 3.329520 TGGTTGAACACTTGGCCTACTAT 59.670 43.478 3.32 0.00 0.00 2.12
38 39 3.939592 GGTTGAACACTTGGCCTACTATC 59.060 47.826 3.32 0.00 0.00 2.08
39 40 4.323562 GGTTGAACACTTGGCCTACTATCT 60.324 45.833 3.32 0.00 0.00 1.98
40 41 5.105064 GGTTGAACACTTGGCCTACTATCTA 60.105 44.000 3.32 0.00 0.00 1.98
41 42 6.408206 GGTTGAACACTTGGCCTACTATCTAT 60.408 42.308 3.32 0.00 0.00 1.98
42 43 6.808321 TGAACACTTGGCCTACTATCTATT 57.192 37.500 3.32 0.00 0.00 1.73
43 44 7.907841 TGAACACTTGGCCTACTATCTATTA 57.092 36.000 3.32 0.00 0.00 0.98
44 45 8.492415 TGAACACTTGGCCTACTATCTATTAT 57.508 34.615 3.32 0.00 0.00 1.28
45 46 8.934697 TGAACACTTGGCCTACTATCTATTATT 58.065 33.333 3.32 0.00 0.00 1.40
46 47 9.780186 GAACACTTGGCCTACTATCTATTATTT 57.220 33.333 3.32 0.00 0.00 1.40
47 48 9.561069 AACACTTGGCCTACTATCTATTATTTG 57.439 33.333 3.32 0.00 0.00 2.32
48 49 8.157476 ACACTTGGCCTACTATCTATTATTTGG 58.843 37.037 3.32 0.00 0.00 3.28
49 50 8.157476 CACTTGGCCTACTATCTATTATTTGGT 58.843 37.037 3.32 0.00 0.00 3.67
50 51 8.724310 ACTTGGCCTACTATCTATTATTTGGTT 58.276 33.333 3.32 0.00 0.00 3.67
62 63 7.924541 TCTATTATTTGGTTAAGTGAGGGTGT 58.075 34.615 0.00 0.00 0.00 4.16
63 64 9.049050 TCTATTATTTGGTTAAGTGAGGGTGTA 57.951 33.333 0.00 0.00 0.00 2.90
64 65 9.675464 CTATTATTTGGTTAAGTGAGGGTGTAA 57.325 33.333 0.00 0.00 0.00 2.41
65 66 7.989416 TTATTTGGTTAAGTGAGGGTGTAAG 57.011 36.000 0.00 0.00 0.00 2.34
66 67 3.412237 TGGTTAAGTGAGGGTGTAAGC 57.588 47.619 0.00 0.00 0.00 3.09
67 68 2.976882 TGGTTAAGTGAGGGTGTAAGCT 59.023 45.455 0.00 0.00 0.00 3.74
68 69 4.161876 TGGTTAAGTGAGGGTGTAAGCTA 58.838 43.478 0.00 0.00 0.00 3.32
69 70 4.781087 TGGTTAAGTGAGGGTGTAAGCTAT 59.219 41.667 0.00 0.00 0.00 2.97
70 71 5.249852 TGGTTAAGTGAGGGTGTAAGCTATT 59.750 40.000 0.00 0.00 0.00 1.73
71 72 6.441284 TGGTTAAGTGAGGGTGTAAGCTATTA 59.559 38.462 0.00 0.00 0.00 0.98
72 73 7.126726 TGGTTAAGTGAGGGTGTAAGCTATTAT 59.873 37.037 0.00 0.00 0.00 1.28
74 75 6.561519 AAGTGAGGGTGTAAGCTATTATGT 57.438 37.500 0.00 0.00 0.00 2.29
75 76 7.670605 AAGTGAGGGTGTAAGCTATTATGTA 57.329 36.000 0.00 0.00 0.00 2.29
76 77 7.670605 AGTGAGGGTGTAAGCTATTATGTAA 57.329 36.000 0.00 0.00 0.00 2.41
77 78 8.086143 AGTGAGGGTGTAAGCTATTATGTAAA 57.914 34.615 0.00 0.00 0.00 2.01
78 79 8.204836 AGTGAGGGTGTAAGCTATTATGTAAAG 58.795 37.037 0.00 0.00 0.00 1.85
79 80 8.202137 GTGAGGGTGTAAGCTATTATGTAAAGA 58.798 37.037 0.00 0.00 0.00 2.52
80 81 8.764558 TGAGGGTGTAAGCTATTATGTAAAGAA 58.235 33.333 0.00 0.00 0.00 2.52
81 82 9.780186 GAGGGTGTAAGCTATTATGTAAAGAAT 57.220 33.333 0.00 0.00 0.00 2.40
109 110 6.972901 GCTGGAATTAAAGTATTACTTGTGCC 59.027 38.462 9.78 8.01 38.66 5.01
110 111 7.399245 TGGAATTAAAGTATTACTTGTGCCC 57.601 36.000 9.78 8.47 38.66 5.36
112 113 7.122055 TGGAATTAAAGTATTACTTGTGCCCTG 59.878 37.037 9.78 0.00 38.66 4.45
114 115 8.417273 AATTAAAGTATTACTTGTGCCCTGTT 57.583 30.769 9.78 0.00 38.66 3.16
115 116 5.705609 AAAGTATTACTTGTGCCCTGTTG 57.294 39.130 9.78 0.00 38.66 3.33
116 117 4.367039 AGTATTACTTGTGCCCTGTTGT 57.633 40.909 0.00 0.00 0.00 3.32
119 120 3.290948 TTACTTGTGCCCTGTTGTTCT 57.709 42.857 0.00 0.00 0.00 3.01
120 121 1.392589 ACTTGTGCCCTGTTGTTCTG 58.607 50.000 0.00 0.00 0.00 3.02
122 123 2.233271 CTTGTGCCCTGTTGTTCTGAT 58.767 47.619 0.00 0.00 0.00 2.90
123 124 3.181445 ACTTGTGCCCTGTTGTTCTGATA 60.181 43.478 0.00 0.00 0.00 2.15
125 126 4.835284 TGTGCCCTGTTGTTCTGATATA 57.165 40.909 0.00 0.00 0.00 0.86
127 128 5.125356 TGTGCCCTGTTGTTCTGATATATG 58.875 41.667 0.00 0.00 0.00 1.78
128 129 4.023707 GTGCCCTGTTGTTCTGATATATGC 60.024 45.833 0.00 0.00 0.00 3.14
129 130 4.141413 TGCCCTGTTGTTCTGATATATGCT 60.141 41.667 0.00 0.00 0.00 3.79
130 131 5.071653 TGCCCTGTTGTTCTGATATATGCTA 59.928 40.000 0.00 0.00 0.00 3.49
132 133 6.742644 GCCCTGTTGTTCTGATATATGCTACT 60.743 42.308 0.00 0.00 0.00 2.57
135 136 8.093307 CCTGTTGTTCTGATATATGCTACTCAT 58.907 37.037 0.00 0.00 39.17 2.90
136 137 8.822652 TGTTGTTCTGATATATGCTACTCATG 57.177 34.615 0.00 0.00 36.63 3.07
138 139 6.401394 TGTTCTGATATATGCTACTCATGCC 58.599 40.000 0.00 0.00 36.63 4.40
139 140 6.212187 TGTTCTGATATATGCTACTCATGCCT 59.788 38.462 0.00 0.00 36.63 4.75
140 141 6.864151 TCTGATATATGCTACTCATGCCTT 57.136 37.500 0.00 0.00 36.63 4.35
141 142 6.637657 TCTGATATATGCTACTCATGCCTTG 58.362 40.000 0.00 0.00 36.63 3.61
142 143 6.212187 TCTGATATATGCTACTCATGCCTTGT 59.788 38.462 0.00 0.00 36.63 3.16
143 144 6.168389 TGATATATGCTACTCATGCCTTGTG 58.832 40.000 0.00 0.00 36.63 3.33
144 145 2.795231 ATGCTACTCATGCCTTGTGT 57.205 45.000 0.00 0.00 36.15 3.72
145 146 1.812235 TGCTACTCATGCCTTGTGTG 58.188 50.000 0.00 0.00 34.13 3.82
147 148 1.947678 GCTACTCATGCCTTGTGTGCT 60.948 52.381 0.00 0.00 34.13 4.40
148 149 2.430465 CTACTCATGCCTTGTGTGCTT 58.570 47.619 0.00 0.00 34.13 3.91
150 151 3.077484 ACTCATGCCTTGTGTGCTTAT 57.923 42.857 0.00 0.00 31.07 1.73
151 152 2.751259 ACTCATGCCTTGTGTGCTTATG 59.249 45.455 0.00 0.00 31.07 1.90
152 153 3.011818 CTCATGCCTTGTGTGCTTATGA 58.988 45.455 0.00 0.00 0.00 2.15
153 154 3.011818 TCATGCCTTGTGTGCTTATGAG 58.988 45.455 0.00 0.00 0.00 2.90
154 155 2.566833 TGCCTTGTGTGCTTATGAGT 57.433 45.000 0.00 0.00 0.00 3.41
155 156 2.153645 TGCCTTGTGTGCTTATGAGTG 58.846 47.619 0.00 0.00 0.00 3.51
156 157 2.154462 GCCTTGTGTGCTTATGAGTGT 58.846 47.619 0.00 0.00 0.00 3.55
157 158 2.554032 GCCTTGTGTGCTTATGAGTGTT 59.446 45.455 0.00 0.00 0.00 3.32
158 159 3.365364 GCCTTGTGTGCTTATGAGTGTTC 60.365 47.826 0.00 0.00 0.00 3.18
159 160 4.067896 CCTTGTGTGCTTATGAGTGTTCT 58.932 43.478 0.00 0.00 0.00 3.01
160 161 4.516698 CCTTGTGTGCTTATGAGTGTTCTT 59.483 41.667 0.00 0.00 0.00 2.52
161 162 5.334414 CCTTGTGTGCTTATGAGTGTTCTTC 60.334 44.000 0.00 0.00 0.00 2.87
162 163 4.702831 TGTGTGCTTATGAGTGTTCTTCA 58.297 39.130 0.00 0.00 0.00 3.02
163 164 5.122519 TGTGTGCTTATGAGTGTTCTTCAA 58.877 37.500 0.00 0.00 0.00 2.69
164 165 5.007626 TGTGTGCTTATGAGTGTTCTTCAAC 59.992 40.000 0.00 0.00 0.00 3.18
165 166 5.237344 GTGTGCTTATGAGTGTTCTTCAACT 59.763 40.000 0.00 0.00 33.17 3.16
166 167 5.466728 TGTGCTTATGAGTGTTCTTCAACTC 59.533 40.000 0.00 0.00 33.17 3.01
167 168 5.466728 GTGCTTATGAGTGTTCTTCAACTCA 59.533 40.000 7.86 7.86 37.99 3.41
168 169 6.148480 GTGCTTATGAGTGTTCTTCAACTCAT 59.852 38.462 19.00 19.00 42.08 2.90
169 170 7.331934 GTGCTTATGAGTGTTCTTCAACTCATA 59.668 37.037 17.32 17.32 40.99 2.15
170 171 7.877612 TGCTTATGAGTGTTCTTCAACTCATAA 59.122 33.333 25.27 25.27 43.79 1.90
172 173 8.777865 TTATGAGTGTTCTTCAACTCATAAGG 57.222 34.615 24.08 0.00 42.82 2.69
173 174 6.419484 TGAGTGTTCTTCAACTCATAAGGA 57.581 37.500 1.50 0.00 33.11 3.36
175 176 6.174720 AGTGTTCTTCAACTCATAAGGACA 57.825 37.500 0.00 0.00 38.59 4.02
177 178 4.988540 TGTTCTTCAACTCATAAGGACACG 59.011 41.667 0.00 0.00 36.51 4.49
179 180 4.806330 TCTTCAACTCATAAGGACACGAC 58.194 43.478 0.00 0.00 0.00 4.34
180 181 4.279922 TCTTCAACTCATAAGGACACGACA 59.720 41.667 0.00 0.00 0.00 4.35
182 183 4.304110 TCAACTCATAAGGACACGACAAC 58.696 43.478 0.00 0.00 0.00 3.32
183 184 4.038763 TCAACTCATAAGGACACGACAACT 59.961 41.667 0.00 0.00 0.00 3.16
184 185 3.914312 ACTCATAAGGACACGACAACTG 58.086 45.455 0.00 0.00 0.00 3.16
189 190 0.821517 AGGACACGACAACTGTCACA 59.178 50.000 10.32 0.00 44.99 3.58
191 192 2.158957 AGGACACGACAACTGTCACATT 60.159 45.455 10.32 0.00 44.99 2.71
192 193 2.612212 GGACACGACAACTGTCACATTT 59.388 45.455 10.32 0.00 44.99 2.32
194 195 4.451096 GGACACGACAACTGTCACATTTAT 59.549 41.667 10.32 0.00 44.99 1.40
195 196 5.049680 GGACACGACAACTGTCACATTTATT 60.050 40.000 10.32 0.00 44.99 1.40
196 197 6.371809 ACACGACAACTGTCACATTTATTT 57.628 33.333 10.32 0.00 44.99 1.40
197 198 6.427150 ACACGACAACTGTCACATTTATTTC 58.573 36.000 10.32 0.00 44.99 2.17
198 199 5.851177 CACGACAACTGTCACATTTATTTCC 59.149 40.000 10.32 0.00 44.99 3.13
199 200 5.079406 CGACAACTGTCACATTTATTTCCG 58.921 41.667 10.32 0.00 44.99 4.30
200 201 5.107259 CGACAACTGTCACATTTATTTCCGA 60.107 40.000 10.32 0.00 44.99 4.55
201 202 6.565060 CGACAACTGTCACATTTATTTCCGAA 60.565 38.462 10.32 0.00 44.99 4.30
202 203 6.435428 ACAACTGTCACATTTATTTCCGAAC 58.565 36.000 0.00 0.00 0.00 3.95
204 205 5.313712 ACTGTCACATTTATTTCCGAACCT 58.686 37.500 0.00 0.00 0.00 3.50
219 220 2.732016 CCTTCGGGTCGTGACACA 59.268 61.111 6.37 0.00 33.38 3.72
220 221 1.292223 CCTTCGGGTCGTGACACAT 59.708 57.895 6.37 0.00 33.38 3.21
221 222 1.014044 CCTTCGGGTCGTGACACATG 61.014 60.000 6.37 0.00 33.38 3.21
222 223 0.038618 CTTCGGGTCGTGACACATGA 60.039 55.000 6.37 0.00 33.38 3.07
285 4476 4.662145 GAGGCTTTGTTGATGTAAATCCG 58.338 43.478 0.00 0.00 29.76 4.18
322 4513 7.973048 ACTCAACTATCCATCCAGTTAAGTA 57.027 36.000 0.00 0.00 32.58 2.24
323 4514 7.783042 ACTCAACTATCCATCCAGTTAAGTAC 58.217 38.462 0.00 0.00 32.58 2.73
324 4515 7.399191 ACTCAACTATCCATCCAGTTAAGTACA 59.601 37.037 0.00 0.00 32.58 2.90
325 4516 8.319057 TCAACTATCCATCCAGTTAAGTACAT 57.681 34.615 0.00 0.00 33.29 2.29
326 4517 8.768397 TCAACTATCCATCCAGTTAAGTACATT 58.232 33.333 0.00 0.00 33.29 2.71
332 4523 7.227873 TCCATCCAGTTAAGTACATTGAACAA 58.772 34.615 0.00 0.00 0.00 2.83
377 4568 5.129634 TGAAAGCACATTTAAGGACACTCA 58.870 37.500 0.00 0.00 0.00 3.41
380 4571 6.655078 AAGCACATTTAAGGACACTCAAAT 57.345 33.333 0.00 0.00 0.00 2.32
435 4666 2.671963 GCCGTTCAGACCAACCCC 60.672 66.667 0.00 0.00 0.00 4.95
436 4667 3.157680 CCGTTCAGACCAACCCCT 58.842 61.111 0.00 0.00 0.00 4.79
437 4668 1.003718 CCGTTCAGACCAACCCCTC 60.004 63.158 0.00 0.00 0.00 4.30
438 4669 1.481056 CCGTTCAGACCAACCCCTCT 61.481 60.000 0.00 0.00 0.00 3.69
439 4670 0.396811 CGTTCAGACCAACCCCTCTT 59.603 55.000 0.00 0.00 0.00 2.85
440 4671 1.608283 CGTTCAGACCAACCCCTCTTC 60.608 57.143 0.00 0.00 0.00 2.87
441 4672 1.420138 GTTCAGACCAACCCCTCTTCA 59.580 52.381 0.00 0.00 0.00 3.02
442 4673 1.352083 TCAGACCAACCCCTCTTCAG 58.648 55.000 0.00 0.00 0.00 3.02
443 4674 0.322008 CAGACCAACCCCTCTTCAGC 60.322 60.000 0.00 0.00 0.00 4.26
456 4688 4.394300 CCCTCTTCAGCATTGTCTTTAGTG 59.606 45.833 0.00 0.00 0.00 2.74
461 4693 6.992123 TCTTCAGCATTGTCTTTAGTGAGAAA 59.008 34.615 0.00 0.00 0.00 2.52
462 4694 7.663081 TCTTCAGCATTGTCTTTAGTGAGAAAT 59.337 33.333 0.00 0.00 0.00 2.17
463 4695 7.137490 TCAGCATTGTCTTTAGTGAGAAATG 57.863 36.000 0.00 0.00 32.94 2.32
464 4696 5.798934 CAGCATTGTCTTTAGTGAGAAATGC 59.201 40.000 17.27 17.27 42.47 3.56
465 4697 5.709164 AGCATTGTCTTTAGTGAGAAATGCT 59.291 36.000 19.54 19.54 44.36 3.79
466 4698 6.881065 AGCATTGTCTTTAGTGAGAAATGCTA 59.119 34.615 21.59 0.00 45.48 3.49
511 4743 9.802039 ATAACACTTTAATTTTCAGAGGTACCA 57.198 29.630 15.94 0.00 0.00 3.25
512 4744 7.506328 ACACTTTAATTTTCAGAGGTACCAC 57.494 36.000 15.94 8.18 0.00 4.16
513 4745 7.057894 ACACTTTAATTTTCAGAGGTACCACA 58.942 34.615 15.94 0.00 0.00 4.17
515 4747 7.860872 CACTTTAATTTTCAGAGGTACCACAAC 59.139 37.037 15.94 2.51 0.00 3.32
538 4770 9.203421 CAACAAACCATAATTTCTTAAAGGGAC 57.797 33.333 0.00 0.00 0.00 4.46
562 4794 1.532868 CCTCTTGGACTGCTTTCAACG 59.467 52.381 0.00 0.00 34.57 4.10
597 4829 8.117813 TGGATTTAACAGTAAAATTCCCTGAC 57.882 34.615 6.11 0.00 31.37 3.51
628 4861 5.820947 AGTTTCCATCTAACAGTGTCGTTTT 59.179 36.000 0.00 0.00 0.00 2.43
664 4897 8.296713 GCTGGACATCTTTACAAAAATTCTGTA 58.703 33.333 0.00 0.00 0.00 2.74
677 4910 9.516314 ACAAAAATTCTGTAAACTTAGAGCAAC 57.484 29.630 0.00 0.00 0.00 4.17
678 4911 9.736023 CAAAAATTCTGTAAACTTAGAGCAACT 57.264 29.630 0.00 0.00 0.00 3.16
679 4912 9.952188 AAAAATTCTGTAAACTTAGAGCAACTC 57.048 29.630 0.00 0.00 0.00 3.01
681 4914 5.801531 TCTGTAAACTTAGAGCAACTCCA 57.198 39.130 0.00 0.00 0.00 3.86
683 4916 5.989777 TCTGTAAACTTAGAGCAACTCCAAC 59.010 40.000 0.00 0.00 0.00 3.77
684 4917 4.748102 TGTAAACTTAGAGCAACTCCAACG 59.252 41.667 0.00 0.00 0.00 4.10
716 4952 7.372396 CCTCAAATTTCGTCGGAATTTAATACG 59.628 37.037 21.01 10.69 34.99 3.06
737 4973 6.350629 ACGTAGTACTATTCCAACCTTGTT 57.649 37.500 5.75 0.00 41.94 2.83
754 4998 7.317722 ACCTTGTTACTATCACTTTCTCCTT 57.682 36.000 0.00 0.00 0.00 3.36
759 5003 7.963532 TGTTACTATCACTTTCTCCTTCTGTT 58.036 34.615 0.00 0.00 0.00 3.16
760 5004 8.429641 TGTTACTATCACTTTCTCCTTCTGTTT 58.570 33.333 0.00 0.00 0.00 2.83
761 5005 9.274206 GTTACTATCACTTTCTCCTTCTGTTTT 57.726 33.333 0.00 0.00 0.00 2.43
762 5006 7.736447 ACTATCACTTTCTCCTTCTGTTTTG 57.264 36.000 0.00 0.00 0.00 2.44
763 5007 7.283329 ACTATCACTTTCTCCTTCTGTTTTGT 58.717 34.615 0.00 0.00 0.00 2.83
764 5008 7.775561 ACTATCACTTTCTCCTTCTGTTTTGTT 59.224 33.333 0.00 0.00 0.00 2.83
765 5009 6.834168 TCACTTTCTCCTTCTGTTTTGTTT 57.166 33.333 0.00 0.00 0.00 2.83
766 5010 6.620678 TCACTTTCTCCTTCTGTTTTGTTTG 58.379 36.000 0.00 0.00 0.00 2.93
770 5014 6.707440 TTCTCCTTCTGTTTTGTTTGCATA 57.293 33.333 0.00 0.00 0.00 3.14
797 5041 1.073199 CGGGATGCCCAGGGTATTC 59.927 63.158 11.00 8.60 45.83 1.75
874 5118 2.283676 ATCGACGGACCCACCACT 60.284 61.111 0.00 0.00 38.90 4.00
1458 5764 1.460255 CAAGTCCCCCAAGAAGGCA 59.540 57.895 0.00 0.00 35.39 4.75
1480 5786 1.069227 CCAAGGCTTAGAAACACGCAC 60.069 52.381 0.00 0.00 0.00 5.34
1538 5845 0.179200 CGTTGTTCGGCTAATGGTGC 60.179 55.000 0.00 0.00 35.71 5.01
1551 5858 4.083802 GCTAATGGTGCCGATGTAATCTTC 60.084 45.833 0.00 0.00 42.58 2.87
1608 5915 4.397420 TGCCTAAATTCTTTGCTCTGTCA 58.603 39.130 0.00 0.00 0.00 3.58
1633 5940 0.250295 TCTTGTTTCCCAGTGCTCGG 60.250 55.000 0.00 0.00 0.00 4.63
1644 5951 2.034558 CCAGTGCTCGGTTTTGACATTT 59.965 45.455 0.00 0.00 0.00 2.32
1647 5954 1.611491 TGCTCGGTTTTGACATTTCCC 59.389 47.619 0.00 0.00 0.00 3.97
1729 6046 0.237498 GAAGTTTGCACGGTAGCACC 59.763 55.000 5.03 0.00 45.61 5.01
1772 6099 1.364171 CGATCCCTTCCGTGCCTAG 59.636 63.158 0.00 0.00 0.00 3.02
1858 6186 0.179084 ACGGTCAAGTGGTGTCTGTG 60.179 55.000 0.00 0.00 34.13 3.66
1863 6191 1.742831 TCAAGTGGTGTCTGTGCAAAC 59.257 47.619 0.00 0.00 0.00 2.93
1893 6221 2.775890 CTGAATCTTCTGTGCACCTGT 58.224 47.619 15.69 0.00 0.00 4.00
2058 6396 5.181009 TGACTGATTGAATCATGGTCTGTC 58.819 41.667 20.91 17.13 38.85 3.51
2069 6407 2.448926 TGGTCTGTCGTTACACCATG 57.551 50.000 0.00 0.00 29.27 3.66
2070 6408 1.689813 TGGTCTGTCGTTACACCATGT 59.310 47.619 0.00 0.00 29.27 3.21
2084 6422 9.272901 CGTTACACCATGTGTTAATTTTATCTG 57.727 33.333 5.06 0.00 45.08 2.90
2089 6427 9.726232 CACCATGTGTTAATTTTATCTGAGATG 57.274 33.333 4.96 0.00 0.00 2.90
2092 6430 9.726232 CATGTGTTAATTTTATCTGAGATGGTG 57.274 33.333 4.96 0.00 0.00 4.17
2094 6432 9.166173 TGTGTTAATTTTATCTGAGATGGTGAG 57.834 33.333 4.96 0.00 0.00 3.51
2095 6433 8.616076 GTGTTAATTTTATCTGAGATGGTGAGG 58.384 37.037 4.96 0.00 0.00 3.86
2136 6483 4.412528 AGTTTTTCCAGAGTAGTTGTCCCT 59.587 41.667 0.00 0.00 0.00 4.20
2137 6484 4.618920 TTTTCCAGAGTAGTTGTCCCTC 57.381 45.455 0.00 0.00 0.00 4.30
2138 6485 2.233305 TCCAGAGTAGTTGTCCCTCC 57.767 55.000 0.00 0.00 0.00 4.30
2140 6487 0.818296 CAGAGTAGTTGTCCCTCCCG 59.182 60.000 0.00 0.00 0.00 5.14
2147 6494 0.971386 GTTGTCCCTCCCGTTCAGTA 59.029 55.000 0.00 0.00 0.00 2.74
2148 6495 1.553704 GTTGTCCCTCCCGTTCAGTAT 59.446 52.381 0.00 0.00 0.00 2.12
2309 6663 9.142515 TGGTACAATAACTTATCTAACAACACG 57.857 33.333 0.00 0.00 31.92 4.49
2360 6714 0.517316 GTTGCTGTTAACTCGCCTGG 59.483 55.000 7.22 0.00 0.00 4.45
2375 6729 1.079266 CTGGCTGTCTGGCACTCTC 60.079 63.158 1.56 0.00 46.76 3.20
2379 6733 1.896694 CTGTCTGGCACTCTCCCTC 59.103 63.158 0.00 0.00 0.00 4.30
2384 6738 2.686835 GGCACTCTCCCTCTGCCT 60.687 66.667 0.50 0.00 46.05 4.75
2389 6743 2.114616 CACTCTCCCTCTGCCTTGTAT 58.885 52.381 0.00 0.00 0.00 2.29
2396 6750 1.207791 CTCTGCCTTGTATGGGTCCT 58.792 55.000 0.00 0.00 0.00 3.85
2429 6783 5.009610 GTCAGACAGGGAAATAAAAGCAACA 59.990 40.000 0.00 0.00 0.00 3.33
2461 6815 0.804989 CTCTGCCGTGATTCAAACCC 59.195 55.000 0.00 0.00 0.00 4.11
2462 6816 0.953471 TCTGCCGTGATTCAAACCCG 60.953 55.000 0.00 0.00 0.00 5.28
2463 6817 1.228003 TGCCGTGATTCAAACCCGT 60.228 52.632 0.00 0.00 0.00 5.28
2468 6822 1.194547 CGTGATTCAAACCCGTGACAG 59.805 52.381 0.00 0.00 0.00 3.51
2469 6823 1.535462 GTGATTCAAACCCGTGACAGG 59.465 52.381 0.00 0.00 0.00 4.00
2470 6824 1.418264 TGATTCAAACCCGTGACAGGA 59.582 47.619 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.198867 TGTTCAACCACGTGCATATGC 59.801 47.619 21.09 21.09 42.50 3.14
5 6 2.483877 AGTGTTCAACCACGTGCATATG 59.516 45.455 10.91 5.93 40.33 1.78
6 7 2.778299 AGTGTTCAACCACGTGCATAT 58.222 42.857 10.91 0.00 40.33 1.78
7 8 2.248280 AGTGTTCAACCACGTGCATA 57.752 45.000 10.91 0.00 40.33 3.14
8 9 1.065401 CAAGTGTTCAACCACGTGCAT 59.935 47.619 10.91 0.00 37.85 3.96
9 10 0.449786 CAAGTGTTCAACCACGTGCA 59.550 50.000 10.91 0.00 37.85 4.57
10 11 0.248458 CCAAGTGTTCAACCACGTGC 60.248 55.000 10.91 0.00 41.56 5.34
12 13 1.381165 GGCCAAGTGTTCAACCACGT 61.381 55.000 0.00 0.00 40.33 4.49
13 14 1.101049 AGGCCAAGTGTTCAACCACG 61.101 55.000 5.01 0.00 40.33 4.94
14 15 1.607148 GTAGGCCAAGTGTTCAACCAC 59.393 52.381 5.01 0.00 35.53 4.16
15 16 1.493022 AGTAGGCCAAGTGTTCAACCA 59.507 47.619 5.01 0.00 0.00 3.67
17 18 4.833390 AGATAGTAGGCCAAGTGTTCAAC 58.167 43.478 5.01 0.00 0.00 3.18
18 19 6.808321 ATAGATAGTAGGCCAAGTGTTCAA 57.192 37.500 5.01 0.00 0.00 2.69
19 20 6.808321 AATAGATAGTAGGCCAAGTGTTCA 57.192 37.500 5.01 0.00 0.00 3.18
20 21 9.780186 AAATAATAGATAGTAGGCCAAGTGTTC 57.220 33.333 5.01 0.00 0.00 3.18
21 22 9.561069 CAAATAATAGATAGTAGGCCAAGTGTT 57.439 33.333 5.01 0.00 0.00 3.32
22 23 8.157476 CCAAATAATAGATAGTAGGCCAAGTGT 58.843 37.037 5.01 0.00 0.00 3.55
24 25 8.276453 ACCAAATAATAGATAGTAGGCCAAGT 57.724 34.615 5.01 0.00 0.00 3.16
36 37 8.557450 ACACCCTCACTTAACCAAATAATAGAT 58.443 33.333 0.00 0.00 0.00 1.98
37 38 7.924541 ACACCCTCACTTAACCAAATAATAGA 58.075 34.615 0.00 0.00 0.00 1.98
38 39 9.675464 TTACACCCTCACTTAACCAAATAATAG 57.325 33.333 0.00 0.00 0.00 1.73
39 40 9.675464 CTTACACCCTCACTTAACCAAATAATA 57.325 33.333 0.00 0.00 0.00 0.98
40 41 7.122204 GCTTACACCCTCACTTAACCAAATAAT 59.878 37.037 0.00 0.00 0.00 1.28
41 42 6.431852 GCTTACACCCTCACTTAACCAAATAA 59.568 38.462 0.00 0.00 0.00 1.40
42 43 5.941647 GCTTACACCCTCACTTAACCAAATA 59.058 40.000 0.00 0.00 0.00 1.40
43 44 4.765339 GCTTACACCCTCACTTAACCAAAT 59.235 41.667 0.00 0.00 0.00 2.32
44 45 4.139038 GCTTACACCCTCACTTAACCAAA 58.861 43.478 0.00 0.00 0.00 3.28
45 46 3.393278 AGCTTACACCCTCACTTAACCAA 59.607 43.478 0.00 0.00 0.00 3.67
46 47 2.976882 AGCTTACACCCTCACTTAACCA 59.023 45.455 0.00 0.00 0.00 3.67
47 48 3.697619 AGCTTACACCCTCACTTAACC 57.302 47.619 0.00 0.00 0.00 2.85
48 49 7.985752 ACATAATAGCTTACACCCTCACTTAAC 59.014 37.037 0.00 0.00 0.00 2.01
49 50 8.086143 ACATAATAGCTTACACCCTCACTTAA 57.914 34.615 0.00 0.00 0.00 1.85
50 51 7.670605 ACATAATAGCTTACACCCTCACTTA 57.329 36.000 0.00 0.00 0.00 2.24
51 52 6.561519 ACATAATAGCTTACACCCTCACTT 57.438 37.500 0.00 0.00 0.00 3.16
52 53 7.670605 TTACATAATAGCTTACACCCTCACT 57.329 36.000 0.00 0.00 0.00 3.41
54 55 8.313944 TCTTTACATAATAGCTTACACCCTCA 57.686 34.615 0.00 0.00 0.00 3.86
55 56 9.780186 ATTCTTTACATAATAGCTTACACCCTC 57.220 33.333 0.00 0.00 0.00 4.30
82 83 8.244113 GCACAAGTAATACTTTAATTCCAGCTT 58.756 33.333 2.41 0.00 36.03 3.74
83 84 7.148069 GGCACAAGTAATACTTTAATTCCAGCT 60.148 37.037 2.41 0.00 36.03 4.24
84 85 6.972901 GGCACAAGTAATACTTTAATTCCAGC 59.027 38.462 2.41 0.00 36.03 4.85
85 86 7.339466 AGGGCACAAGTAATACTTTAATTCCAG 59.661 37.037 2.41 0.00 36.03 3.86
87 88 7.122204 ACAGGGCACAAGTAATACTTTAATTCC 59.878 37.037 2.41 2.75 36.03 3.01
88 89 8.051901 ACAGGGCACAAGTAATACTTTAATTC 57.948 34.615 2.41 0.00 36.03 2.17
91 92 6.773685 ACAACAGGGCACAAGTAATACTTTAA 59.226 34.615 2.41 0.00 36.03 1.52
95 96 4.367039 ACAACAGGGCACAAGTAATACT 57.633 40.909 0.00 0.00 0.00 2.12
96 97 4.760204 AGAACAACAGGGCACAAGTAATAC 59.240 41.667 0.00 0.00 0.00 1.89
97 98 4.759693 CAGAACAACAGGGCACAAGTAATA 59.240 41.667 0.00 0.00 0.00 0.98
98 99 3.569701 CAGAACAACAGGGCACAAGTAAT 59.430 43.478 0.00 0.00 0.00 1.89
99 100 2.948979 CAGAACAACAGGGCACAAGTAA 59.051 45.455 0.00 0.00 0.00 2.24
100 101 2.171659 TCAGAACAACAGGGCACAAGTA 59.828 45.455 0.00 0.00 0.00 2.24
101 102 1.064758 TCAGAACAACAGGGCACAAGT 60.065 47.619 0.00 0.00 0.00 3.16
103 104 2.363306 ATCAGAACAACAGGGCACAA 57.637 45.000 0.00 0.00 0.00 3.33
105 106 4.023707 GCATATATCAGAACAACAGGGCAC 60.024 45.833 0.00 0.00 0.00 5.01
106 107 4.136796 GCATATATCAGAACAACAGGGCA 58.863 43.478 0.00 0.00 0.00 5.36
109 110 7.436933 TGAGTAGCATATATCAGAACAACAGG 58.563 38.462 0.00 0.00 0.00 4.00
110 111 8.923683 CATGAGTAGCATATATCAGAACAACAG 58.076 37.037 0.00 0.00 34.82 3.16
112 113 7.148507 GGCATGAGTAGCATATATCAGAACAAC 60.149 40.741 0.00 0.00 34.82 3.32
114 115 6.212187 AGGCATGAGTAGCATATATCAGAACA 59.788 38.462 0.00 0.00 34.82 3.18
115 116 6.638610 AGGCATGAGTAGCATATATCAGAAC 58.361 40.000 0.00 0.00 34.82 3.01
116 117 6.864151 AGGCATGAGTAGCATATATCAGAA 57.136 37.500 0.00 0.00 34.82 3.02
119 120 6.168389 CACAAGGCATGAGTAGCATATATCA 58.832 40.000 0.00 0.00 34.82 2.15
120 121 6.091849 CACACAAGGCATGAGTAGCATATATC 59.908 42.308 0.00 0.00 34.82 1.63
122 123 5.299949 CACACAAGGCATGAGTAGCATATA 58.700 41.667 0.00 0.00 34.82 0.86
123 124 4.132336 CACACAAGGCATGAGTAGCATAT 58.868 43.478 0.00 0.00 34.82 1.78
125 126 2.362736 CACACAAGGCATGAGTAGCAT 58.637 47.619 0.00 0.00 37.85 3.79
127 128 0.449388 GCACACAAGGCATGAGTAGC 59.551 55.000 0.00 0.00 31.17 3.58
128 129 2.105006 AGCACACAAGGCATGAGTAG 57.895 50.000 0.00 0.00 31.17 2.57
129 130 2.566833 AAGCACACAAGGCATGAGTA 57.433 45.000 0.00 0.00 31.17 2.59
130 131 2.566833 TAAGCACACAAGGCATGAGT 57.433 45.000 0.00 0.00 32.65 3.41
132 133 3.011818 CTCATAAGCACACAAGGCATGA 58.988 45.455 0.00 0.00 0.00 3.07
135 136 2.153645 CACTCATAAGCACACAAGGCA 58.846 47.619 0.00 0.00 0.00 4.75
136 137 2.154462 ACACTCATAAGCACACAAGGC 58.846 47.619 0.00 0.00 0.00 4.35
138 139 5.237127 TGAAGAACACTCATAAGCACACAAG 59.763 40.000 0.00 0.00 0.00 3.16
139 140 5.122519 TGAAGAACACTCATAAGCACACAA 58.877 37.500 0.00 0.00 0.00 3.33
140 141 4.702831 TGAAGAACACTCATAAGCACACA 58.297 39.130 0.00 0.00 0.00 3.72
141 142 5.237344 AGTTGAAGAACACTCATAAGCACAC 59.763 40.000 0.00 0.00 34.17 3.82
142 143 5.368145 AGTTGAAGAACACTCATAAGCACA 58.632 37.500 0.00 0.00 34.17 4.57
143 144 5.466728 TGAGTTGAAGAACACTCATAAGCAC 59.533 40.000 0.00 0.00 34.43 4.40
144 145 5.610398 TGAGTTGAAGAACACTCATAAGCA 58.390 37.500 0.00 0.00 34.43 3.91
145 146 6.734104 ATGAGTTGAAGAACACTCATAAGC 57.266 37.500 12.11 0.00 41.13 3.09
147 148 8.593679 TCCTTATGAGTTGAAGAACACTCATAA 58.406 33.333 23.59 23.59 44.65 1.90
148 149 8.035394 GTCCTTATGAGTTGAAGAACACTCATA 58.965 37.037 15.03 15.03 41.98 2.15
150 151 6.183360 TGTCCTTATGAGTTGAAGAACACTCA 60.183 38.462 4.56 4.56 39.21 3.41
151 152 6.146347 GTGTCCTTATGAGTTGAAGAACACTC 59.854 42.308 0.00 0.00 34.17 3.51
152 153 5.992217 GTGTCCTTATGAGTTGAAGAACACT 59.008 40.000 0.00 0.00 34.17 3.55
153 154 5.107453 CGTGTCCTTATGAGTTGAAGAACAC 60.107 44.000 0.00 0.00 34.17 3.32
154 155 4.988540 CGTGTCCTTATGAGTTGAAGAACA 59.011 41.667 0.00 0.00 34.17 3.18
155 156 5.118817 GTCGTGTCCTTATGAGTTGAAGAAC 59.881 44.000 0.00 0.00 0.00 3.01
156 157 5.221362 TGTCGTGTCCTTATGAGTTGAAGAA 60.221 40.000 0.00 0.00 0.00 2.52
157 158 4.279922 TGTCGTGTCCTTATGAGTTGAAGA 59.720 41.667 0.00 0.00 0.00 2.87
158 159 4.556233 TGTCGTGTCCTTATGAGTTGAAG 58.444 43.478 0.00 0.00 0.00 3.02
159 160 4.594123 TGTCGTGTCCTTATGAGTTGAA 57.406 40.909 0.00 0.00 0.00 2.69
160 161 4.038763 AGTTGTCGTGTCCTTATGAGTTGA 59.961 41.667 0.00 0.00 0.00 3.18
161 162 4.150627 CAGTTGTCGTGTCCTTATGAGTTG 59.849 45.833 0.00 0.00 0.00 3.16
162 163 4.202223 ACAGTTGTCGTGTCCTTATGAGTT 60.202 41.667 0.00 0.00 0.00 3.01
163 164 3.321111 ACAGTTGTCGTGTCCTTATGAGT 59.679 43.478 0.00 0.00 0.00 3.41
164 165 3.914312 ACAGTTGTCGTGTCCTTATGAG 58.086 45.455 0.00 0.00 0.00 2.90
165 166 3.909430 GACAGTTGTCGTGTCCTTATGA 58.091 45.455 0.00 0.00 38.75 2.15
177 178 6.236017 TCGGAAATAAATGTGACAGTTGTC 57.764 37.500 8.69 5.33 44.97 3.18
179 180 5.856455 GGTTCGGAAATAAATGTGACAGTTG 59.144 40.000 8.69 0.00 0.00 3.16
180 181 5.768164 AGGTTCGGAAATAAATGTGACAGTT 59.232 36.000 3.13 3.13 0.00 3.16
182 183 5.880054 AGGTTCGGAAATAAATGTGACAG 57.120 39.130 0.00 0.00 0.00 3.51
183 184 5.106869 CGAAGGTTCGGAAATAAATGTGACA 60.107 40.000 4.14 0.00 46.30 3.58
184 185 5.321516 CGAAGGTTCGGAAATAAATGTGAC 58.678 41.667 4.14 0.00 46.30 3.67
204 205 0.038618 CTCATGTGTCACGACCCGAA 60.039 55.000 0.00 0.00 0.00 4.30
207 208 1.741770 GGCTCATGTGTCACGACCC 60.742 63.158 0.00 0.00 0.00 4.46
208 209 2.094659 CGGCTCATGTGTCACGACC 61.095 63.158 0.00 0.00 0.00 4.79
209 210 0.944311 AACGGCTCATGTGTCACGAC 60.944 55.000 12.88 0.00 0.00 4.34
210 211 0.599060 TAACGGCTCATGTGTCACGA 59.401 50.000 12.88 0.00 0.00 4.35
211 212 1.424403 TTAACGGCTCATGTGTCACG 58.576 50.000 0.00 4.08 0.00 4.35
212 213 3.000041 TCATTAACGGCTCATGTGTCAC 59.000 45.455 0.00 0.00 0.00 3.67
213 214 3.000041 GTCATTAACGGCTCATGTGTCA 59.000 45.455 0.00 0.00 0.00 3.58
214 215 3.262420 AGTCATTAACGGCTCATGTGTC 58.738 45.455 0.00 0.00 0.00 3.67
215 216 3.334583 AGTCATTAACGGCTCATGTGT 57.665 42.857 0.00 0.00 0.00 3.72
216 217 4.083324 ACAAAGTCATTAACGGCTCATGTG 60.083 41.667 0.00 0.00 0.00 3.21
217 218 4.072131 ACAAAGTCATTAACGGCTCATGT 58.928 39.130 0.00 0.00 0.00 3.21
218 219 4.685169 ACAAAGTCATTAACGGCTCATG 57.315 40.909 0.00 0.00 0.00 3.07
219 220 6.811253 TTAACAAAGTCATTAACGGCTCAT 57.189 33.333 0.00 0.00 0.00 2.90
220 221 6.607689 CATTAACAAAGTCATTAACGGCTCA 58.392 36.000 0.00 0.00 0.00 4.26
221 222 5.511729 GCATTAACAAAGTCATTAACGGCTC 59.488 40.000 0.00 0.00 0.00 4.70
222 223 5.048364 TGCATTAACAAAGTCATTAACGGCT 60.048 36.000 0.00 0.00 30.78 5.52
255 4446 3.469008 TCAACAAAGCCTCGAGAAGAA 57.531 42.857 15.71 0.00 0.00 2.52
350 4541 5.470098 GTGTCCTTAAATGTGCTTTCAGAGA 59.530 40.000 0.00 0.00 0.00 3.10
354 4545 5.129634 TGAGTGTCCTTAAATGTGCTTTCA 58.870 37.500 0.00 0.00 0.00 2.69
369 4560 9.444600 TTTTAGTTAGGTATGATTTGAGTGTCC 57.555 33.333 0.00 0.00 0.00 4.02
377 4568 9.953565 TGCACTACTTTTAGTTAGGTATGATTT 57.046 29.630 0.00 0.00 36.31 2.17
380 4571 9.781633 TTTTGCACTACTTTTAGTTAGGTATGA 57.218 29.630 0.00 0.00 36.31 2.15
418 4614 2.671963 GGGGTTGGTCTGAACGGC 60.672 66.667 0.00 0.00 0.00 5.68
420 4616 0.396811 AAGAGGGGTTGGTCTGAACG 59.603 55.000 0.00 0.00 0.00 3.95
435 4666 6.162079 TCTCACTAAAGACAATGCTGAAGAG 58.838 40.000 0.00 0.00 0.00 2.85
436 4667 6.101650 TCTCACTAAAGACAATGCTGAAGA 57.898 37.500 0.00 0.00 0.00 2.87
437 4668 6.791887 TTCTCACTAAAGACAATGCTGAAG 57.208 37.500 0.00 0.00 0.00 3.02
438 4669 7.587629 CATTTCTCACTAAAGACAATGCTGAA 58.412 34.615 0.00 0.00 0.00 3.02
439 4670 6.348786 GCATTTCTCACTAAAGACAATGCTGA 60.349 38.462 17.09 0.00 41.01 4.26
440 4671 5.798934 GCATTTCTCACTAAAGACAATGCTG 59.201 40.000 17.09 0.00 41.01 4.41
441 4672 5.709164 AGCATTTCTCACTAAAGACAATGCT 59.291 36.000 19.18 19.18 44.31 3.79
442 4673 5.947443 AGCATTTCTCACTAAAGACAATGC 58.053 37.500 16.87 16.87 42.39 3.56
486 4718 9.059260 GTGGTACCTCTGAAAATTAAAGTGTTA 57.941 33.333 14.36 0.00 0.00 2.41
511 4743 8.929487 TCCCTTTAAGAAATTATGGTTTGTTGT 58.071 29.630 0.00 0.00 0.00 3.32
512 4744 9.203421 GTCCCTTTAAGAAATTATGGTTTGTTG 57.797 33.333 0.00 0.00 0.00 3.33
513 4745 8.929487 TGTCCCTTTAAGAAATTATGGTTTGTT 58.071 29.630 0.00 0.00 0.00 2.83
515 4747 9.942850 ATTGTCCCTTTAAGAAATTATGGTTTG 57.057 29.630 0.00 0.00 0.00 2.93
597 4829 5.643777 CACTGTTAGATGGAAACTTACTGGG 59.356 44.000 0.00 0.00 0.00 4.45
664 4897 3.139077 CCGTTGGAGTTGCTCTAAGTTT 58.861 45.455 0.00 0.00 31.92 2.66
669 4902 1.295423 GGCCGTTGGAGTTGCTCTA 59.705 57.895 0.00 0.00 0.00 2.43
671 4904 3.056328 GGGCCGTTGGAGTTGCTC 61.056 66.667 0.00 0.00 0.00 4.26
672 4905 4.660938 GGGGCCGTTGGAGTTGCT 62.661 66.667 0.00 0.00 0.00 3.91
735 4971 8.834749 AAACAGAAGGAGAAAGTGATAGTAAC 57.165 34.615 0.00 0.00 0.00 2.50
737 4973 8.429641 ACAAAACAGAAGGAGAAAGTGATAGTA 58.570 33.333 0.00 0.00 0.00 1.82
754 4998 3.628032 TCGGTGTATGCAAACAAAACAGA 59.372 39.130 0.00 0.00 0.00 3.41
759 5003 2.160615 CGGATCGGTGTATGCAAACAAA 59.839 45.455 0.00 0.00 0.00 2.83
760 5004 1.735018 CGGATCGGTGTATGCAAACAA 59.265 47.619 0.00 0.00 0.00 2.83
761 5005 1.364721 CGGATCGGTGTATGCAAACA 58.635 50.000 0.00 0.00 0.00 2.83
762 5006 0.655733 CCGGATCGGTGTATGCAAAC 59.344 55.000 0.00 0.00 42.73 2.93
763 5007 0.462937 CCCGGATCGGTGTATGCAAA 60.463 55.000 0.73 0.00 46.80 3.68
764 5008 1.145156 CCCGGATCGGTGTATGCAA 59.855 57.895 0.73 0.00 46.80 4.08
765 5009 1.118965 ATCCCGGATCGGTGTATGCA 61.119 55.000 0.73 0.00 46.80 3.96
766 5010 0.670546 CATCCCGGATCGGTGTATGC 60.671 60.000 0.73 0.00 46.80 3.14
770 5014 3.861797 GGCATCCCGGATCGGTGT 61.862 66.667 0.73 0.00 46.80 4.16
781 5025 3.733709 CAGAATACCCTGGGCATCC 57.266 57.895 14.08 0.00 0.00 3.51
802 5046 3.338676 GAATGGACGGCCGCGATC 61.339 66.667 28.58 16.08 36.79 3.69
876 5120 0.678684 ATTTAAACGGTGCGGGGAGG 60.679 55.000 0.00 0.00 0.00 4.30
885 5129 3.518303 AGGAGGCAGAGTATTTAAACGGT 59.482 43.478 0.00 0.00 0.00 4.83
1362 5668 0.744771 GGAGCACCGGGTTGATCTTC 60.745 60.000 6.32 0.00 0.00 2.87
1458 5764 1.607148 GCGTGTTTCTAAGCCTTGGTT 59.393 47.619 0.00 0.00 0.00 3.67
1538 5845 5.041287 TCTTAGCAACGAAGATTACATCGG 58.959 41.667 0.00 0.00 40.75 4.18
1551 5858 5.845985 TTCTGACATTTCTCTTAGCAACG 57.154 39.130 0.00 0.00 0.00 4.10
1608 5915 2.427095 GCACTGGGAAACAAGAACAGTT 59.573 45.455 0.00 0.00 40.14 3.16
1633 5940 5.195001 TGCTGTTAGGGAAATGTCAAAAC 57.805 39.130 0.00 0.00 0.00 2.43
1644 5951 0.323360 GTGGGCATTGCTGTTAGGGA 60.323 55.000 8.82 0.00 0.00 4.20
1647 5954 0.813184 CTGGTGGGCATTGCTGTTAG 59.187 55.000 8.82 0.00 0.00 2.34
1772 6099 3.493873 GGAGTATACCGTGTGGGGATTTC 60.494 52.174 0.00 0.00 34.83 2.17
1841 6169 0.463654 TGCACAGACACCACTTGACC 60.464 55.000 0.00 0.00 0.00 4.02
1893 6221 0.037326 AAGCATTCCGTCGAGCAAGA 60.037 50.000 0.00 0.00 0.00 3.02
2058 6396 9.272901 CAGATAAAATTAACACATGGTGTAACG 57.727 33.333 2.00 0.00 46.79 3.18
2069 6407 8.616076 CCTCACCATCTCAGATAAAATTAACAC 58.384 37.037 0.00 0.00 0.00 3.32
2070 6408 8.328758 ACCTCACCATCTCAGATAAAATTAACA 58.671 33.333 0.00 0.00 0.00 2.41
2084 6422 0.392193 CCACAGCACCTCACCATCTC 60.392 60.000 0.00 0.00 0.00 2.75
2086 6424 2.042831 GCCACAGCACCTCACCATC 61.043 63.158 0.00 0.00 39.53 3.51
2089 6427 3.958860 AGGCCACAGCACCTCACC 61.959 66.667 5.01 0.00 42.56 4.02
2094 6432 4.648626 TGCAGAGGCCACAGCACC 62.649 66.667 16.06 0.00 42.56 5.01
2095 6433 2.138656 CTTTGCAGAGGCCACAGCAC 62.139 60.000 19.43 0.00 42.56 4.40
2136 6483 5.205821 TCTGGATAAAGATACTGAACGGGA 58.794 41.667 0.00 0.00 0.00 5.14
2137 6484 5.302059 TCTCTGGATAAAGATACTGAACGGG 59.698 44.000 0.00 0.00 0.00 5.28
2138 6485 6.392625 TCTCTGGATAAAGATACTGAACGG 57.607 41.667 0.00 0.00 0.00 4.44
2140 6487 7.049799 AGCTCTCTGGATAAAGATACTGAAC 57.950 40.000 0.00 0.00 0.00 3.18
2147 6494 6.162777 GCGATTAAGCTCTCTGGATAAAGAT 58.837 40.000 0.00 0.00 0.00 2.40
2148 6495 5.509840 GGCGATTAAGCTCTCTGGATAAAGA 60.510 44.000 0.00 0.00 37.29 2.52
2337 6691 0.110823 GCGAGTTAACAGCAACACCG 60.111 55.000 17.54 5.63 33.11 4.94
2343 6697 1.671054 GCCAGGCGAGTTAACAGCA 60.671 57.895 21.89 0.00 0.00 4.41
2360 6714 2.237534 GAGGGAGAGTGCCAGACAGC 62.238 65.000 0.00 0.00 0.00 4.40
2375 6729 0.181350 GACCCATACAAGGCAGAGGG 59.819 60.000 0.00 0.00 42.07 4.30
2379 6733 2.119495 AGTAGGACCCATACAAGGCAG 58.881 52.381 0.00 0.00 0.00 4.85
2383 6737 4.223032 ACTGACAAGTAGGACCCATACAAG 59.777 45.833 0.00 0.00 33.79 3.16
2384 6738 4.164981 ACTGACAAGTAGGACCCATACAA 58.835 43.478 0.00 0.00 33.79 2.41
2389 6743 2.158370 TCTGACTGACAAGTAGGACCCA 60.158 50.000 0.00 0.00 36.52 4.51


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

AutoCloner maintained by Alex Coulton.