Multiple sequence alignment - TraesCS4B01G209100

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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 TraesCS4B01G209100 chr4B 100.000 3144 0 0 1 3144 446341946 446345089 0.000000e+00 5806.0
1 TraesCS4B01G209100 chr4B 96.266 482 16 1 2002 2483 560292808 560292329 0.000000e+00 789.0
2 TraesCS4B01G209100 chr4B 95.781 237 10 0 2245 2481 648942480 648942716 1.770000e-102 383.0
3 TraesCS4B01G209100 chr4B 94.595 148 7 1 92 239 446341971 446342117 8.770000e-56 228.0
4 TraesCS4B01G209100 chr4B 94.595 148 7 1 26 172 446342037 446342184 8.770000e-56 228.0
5 TraesCS4B01G209100 chr4B 97.000 100 3 0 1907 2006 560294617 560294518 5.390000e-38 169.0
6 TraesCS4B01G209100 chr4B 93.590 78 5 0 158 235 446341971 446342048 1.980000e-22 117.0
7 TraesCS4B01G209100 chr4B 93.590 78 5 0 26 103 446342103 446342180 1.980000e-22 117.0
8 TraesCS4B01G209100 chr4D 92.972 2604 78 47 556 3144 360943564 360941051 0.000000e+00 3698.0
9 TraesCS4B01G209100 chr4D 75.493 355 45 19 240 575 360943916 360943585 5.470000e-28 135.0
10 TraesCS4B01G209100 chr4A 94.194 2394 93 24 760 3144 103766831 103769187 0.000000e+00 3609.0
11 TraesCS4B01G209100 chr4A 95.359 237 11 0 2245 2481 695669120 695668884 8.230000e-101 377.0
12 TraesCS4B01G209100 chr4A 76.993 552 50 27 210 722 103766318 103766831 8.710000e-61 244.0
13 TraesCS4B01G209100 chr3B 96.234 717 22 3 1838 2552 356022090 356022803 0.000000e+00 1170.0
14 TraesCS4B01G209100 chr3B 95.944 715 25 3 1838 2552 661974734 661975444 0.000000e+00 1157.0
15 TraesCS4B01G209100 chr3B 94.017 117 7 0 1241 1357 116690152 116690036 8.960000e-41 178.0
16 TraesCS4B01G209100 chr3B 100.000 38 0 0 1186 1223 116690192 116690155 1.560000e-08 71.3
17 TraesCS4B01G209100 chr6B 95.504 645 25 3 1838 2481 251103297 251103938 0.000000e+00 1027.0
18 TraesCS4B01G209100 chr6B 95.489 532 20 3 1951 2481 306015091 306014563 0.000000e+00 846.0
19 TraesCS4B01G209100 chr1B 88.060 201 20 2 1001 1201 42067453 42067257 5.240000e-58 235.0
20 TraesCS4B01G209100 chr2D 91.667 96 6 2 1227 1321 102626735 102626641 7.080000e-27 132.0


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 TraesCS4B01G209100 chr4B 446341946 446345089 3143 False 1299.2 5806 95.2740 1 3144 5 chr4B.!!$F2 3143
1 TraesCS4B01G209100 chr4B 560292329 560294617 2288 True 479.0 789 96.6330 1907 2483 2 chr4B.!!$R1 576
2 TraesCS4B01G209100 chr4D 360941051 360943916 2865 True 1916.5 3698 84.2325 240 3144 2 chr4D.!!$R1 2904
3 TraesCS4B01G209100 chr4A 103766318 103769187 2869 False 1926.5 3609 85.5935 210 3144 2 chr4A.!!$F1 2934
4 TraesCS4B01G209100 chr3B 356022090 356022803 713 False 1170.0 1170 96.2340 1838 2552 1 chr3B.!!$F1 714
5 TraesCS4B01G209100 chr3B 661974734 661975444 710 False 1157.0 1157 95.9440 1838 2552 1 chr3B.!!$F2 714
6 TraesCS4B01G209100 chr6B 251103297 251103938 641 False 1027.0 1027 95.5040 1838 2481 1 chr6B.!!$F1 643
7 TraesCS4B01G209100 chr6B 306014563 306015091 528 True 846.0 846 95.4890 1951 2481 1 chr6B.!!$R1 530

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
58 59 0.037447 AAAGGACCTTGGAGAGCAGC 59.963 55.0 7.72 0.0 0.00 5.25 F
124 125 0.037447 AAAGGACCTTGGAGAGCAGC 59.963 55.0 7.72 0.0 0.00 5.25 F
126 127 0.041833 AGGACCTTGGAGAGCAGCTA 59.958 55.0 0.00 0.0 0.00 3.32 F
1076 1172 0.107361 ATTCGTCCGGGGGATTTGTC 60.107 55.0 0.00 0.0 32.73 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1260 1357 1.429148 GCACGATCACCGGGTTCATC 61.429 60.000 6.32 1.12 45.17 2.92 R
1596 1693 2.688666 TTGCGGAGGGAGAGCCAT 60.689 61.111 0.00 0.00 35.15 4.40 R
1716 1813 3.053896 CCGGCGAACCTTCCAACC 61.054 66.667 9.30 0.00 0.00 3.77 R
2905 4726 3.070015 AGCCCAACATGAACTTGGAAAAG 59.930 43.478 13.71 0.60 40.76 2.27 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
51 52 6.867519 AAAGAAAAAGAAAAGGACCTTGGA 57.132 33.333 7.72 0.00 0.00 3.53
52 53 6.471233 AAGAAAAAGAAAAGGACCTTGGAG 57.529 37.500 7.72 0.00 0.00 3.86
53 54 5.766590 AGAAAAAGAAAAGGACCTTGGAGA 58.233 37.500 7.72 0.00 0.00 3.71
54 55 5.830457 AGAAAAAGAAAAGGACCTTGGAGAG 59.170 40.000 7.72 0.00 0.00 3.20
55 56 2.869101 AGAAAAGGACCTTGGAGAGC 57.131 50.000 7.72 0.00 0.00 4.09
56 57 2.057922 AGAAAAGGACCTTGGAGAGCA 58.942 47.619 7.72 0.00 0.00 4.26
57 58 2.039613 AGAAAAGGACCTTGGAGAGCAG 59.960 50.000 7.72 0.00 0.00 4.24
58 59 0.037447 AAAGGACCTTGGAGAGCAGC 59.963 55.000 7.72 0.00 0.00 5.25
59 60 0.839853 AAGGACCTTGGAGAGCAGCT 60.840 55.000 5.76 0.00 0.00 4.24
60 61 0.041833 AGGACCTTGGAGAGCAGCTA 59.958 55.000 0.00 0.00 0.00 3.32
61 62 0.905357 GGACCTTGGAGAGCAGCTAA 59.095 55.000 0.00 0.00 0.00 3.09
62 63 1.279271 GGACCTTGGAGAGCAGCTAAA 59.721 52.381 0.00 0.00 0.00 1.85
63 64 2.092699 GGACCTTGGAGAGCAGCTAAAT 60.093 50.000 0.00 0.00 0.00 1.40
64 65 2.941720 GACCTTGGAGAGCAGCTAAATG 59.058 50.000 0.00 0.00 0.00 2.32
65 66 2.295885 CCTTGGAGAGCAGCTAAATGG 58.704 52.381 0.00 0.00 0.00 3.16
66 67 1.674962 CTTGGAGAGCAGCTAAATGGC 59.325 52.381 0.00 0.00 0.00 4.40
67 68 0.914644 TGGAGAGCAGCTAAATGGCT 59.085 50.000 0.00 0.00 44.10 4.75
68 69 1.283029 TGGAGAGCAGCTAAATGGCTT 59.717 47.619 0.00 0.00 41.00 4.35
69 70 1.946081 GGAGAGCAGCTAAATGGCTTC 59.054 52.381 0.00 0.00 41.00 3.86
70 71 1.946081 GAGAGCAGCTAAATGGCTTCC 59.054 52.381 0.00 0.00 41.00 3.46
71 72 1.563410 AGAGCAGCTAAATGGCTTCCT 59.437 47.619 0.00 0.00 41.00 3.36
72 73 2.025510 AGAGCAGCTAAATGGCTTCCTT 60.026 45.455 0.00 0.00 41.00 3.36
73 74 2.097825 AGCAGCTAAATGGCTTCCTTG 58.902 47.619 0.00 0.00 41.00 3.61
74 75 1.821136 GCAGCTAAATGGCTTCCTTGT 59.179 47.619 0.00 0.00 41.00 3.16
75 76 2.159324 GCAGCTAAATGGCTTCCTTGTC 60.159 50.000 0.00 0.00 41.00 3.18
76 77 3.350833 CAGCTAAATGGCTTCCTTGTCT 58.649 45.455 0.00 0.00 41.00 3.41
77 78 3.128242 CAGCTAAATGGCTTCCTTGTCTG 59.872 47.826 0.00 0.00 41.00 3.51
78 79 3.084786 GCTAAATGGCTTCCTTGTCTGT 58.915 45.455 0.00 0.00 0.00 3.41
79 80 3.119708 GCTAAATGGCTTCCTTGTCTGTG 60.120 47.826 0.00 0.00 0.00 3.66
80 81 2.957402 AATGGCTTCCTTGTCTGTGA 57.043 45.000 0.00 0.00 0.00 3.58
81 82 2.957402 ATGGCTTCCTTGTCTGTGAA 57.043 45.000 0.00 0.00 0.00 3.18
82 83 2.957402 TGGCTTCCTTGTCTGTGAAT 57.043 45.000 0.00 0.00 0.00 2.57
83 84 4.574674 ATGGCTTCCTTGTCTGTGAATA 57.425 40.909 0.00 0.00 0.00 1.75
84 85 3.942829 TGGCTTCCTTGTCTGTGAATAG 58.057 45.455 0.00 0.00 0.00 1.73
85 86 3.327757 TGGCTTCCTTGTCTGTGAATAGT 59.672 43.478 0.00 0.00 0.00 2.12
86 87 4.530553 TGGCTTCCTTGTCTGTGAATAGTA 59.469 41.667 0.00 0.00 0.00 1.82
87 88 5.012664 TGGCTTCCTTGTCTGTGAATAGTAA 59.987 40.000 0.00 0.00 0.00 2.24
88 89 5.938125 GGCTTCCTTGTCTGTGAATAGTAAA 59.062 40.000 0.00 0.00 0.00 2.01
89 90 6.599638 GGCTTCCTTGTCTGTGAATAGTAAAT 59.400 38.462 0.00 0.00 0.00 1.40
90 91 7.769044 GGCTTCCTTGTCTGTGAATAGTAAATA 59.231 37.037 0.00 0.00 0.00 1.40
91 92 9.162764 GCTTCCTTGTCTGTGAATAGTAAATAA 57.837 33.333 0.00 0.00 0.00 1.40
121 122 0.988063 AGGAAAGGACCTTGGAGAGC 59.012 55.000 7.72 0.00 36.86 4.09
122 123 0.693049 GGAAAGGACCTTGGAGAGCA 59.307 55.000 7.72 0.00 0.00 4.26
123 124 1.339535 GGAAAGGACCTTGGAGAGCAG 60.340 57.143 7.72 0.00 0.00 4.24
124 125 0.037447 AAAGGACCTTGGAGAGCAGC 59.963 55.000 7.72 0.00 0.00 5.25
125 126 0.839853 AAGGACCTTGGAGAGCAGCT 60.840 55.000 5.76 0.00 0.00 4.24
126 127 0.041833 AGGACCTTGGAGAGCAGCTA 59.958 55.000 0.00 0.00 0.00 3.32
127 128 0.905357 GGACCTTGGAGAGCAGCTAA 59.095 55.000 0.00 0.00 0.00 3.09
128 129 1.279271 GGACCTTGGAGAGCAGCTAAA 59.721 52.381 0.00 0.00 0.00 1.85
129 130 2.092699 GGACCTTGGAGAGCAGCTAAAT 60.093 50.000 0.00 0.00 0.00 1.40
130 131 2.941720 GACCTTGGAGAGCAGCTAAATG 59.058 50.000 0.00 0.00 0.00 2.32
131 132 2.295885 CCTTGGAGAGCAGCTAAATGG 58.704 52.381 0.00 0.00 0.00 3.16
132 133 1.674962 CTTGGAGAGCAGCTAAATGGC 59.325 52.381 0.00 0.00 0.00 4.40
133 134 0.914644 TGGAGAGCAGCTAAATGGCT 59.085 50.000 0.00 0.00 44.10 4.75
134 135 1.283029 TGGAGAGCAGCTAAATGGCTT 59.717 47.619 0.00 0.00 41.00 4.35
135 136 1.946081 GGAGAGCAGCTAAATGGCTTC 59.054 52.381 0.00 0.00 41.00 3.86
136 137 1.946081 GAGAGCAGCTAAATGGCTTCC 59.054 52.381 0.00 0.00 41.00 3.46
137 138 1.563410 AGAGCAGCTAAATGGCTTCCT 59.437 47.619 0.00 0.00 41.00 3.36
138 139 2.025510 AGAGCAGCTAAATGGCTTCCTT 60.026 45.455 0.00 0.00 41.00 3.36
139 140 2.097825 AGCAGCTAAATGGCTTCCTTG 58.902 47.619 0.00 0.00 41.00 3.61
140 141 1.821136 GCAGCTAAATGGCTTCCTTGT 59.179 47.619 0.00 0.00 41.00 3.16
141 142 2.159324 GCAGCTAAATGGCTTCCTTGTC 60.159 50.000 0.00 0.00 41.00 3.18
142 143 3.350833 CAGCTAAATGGCTTCCTTGTCT 58.649 45.455 0.00 0.00 41.00 3.41
143 144 3.128242 CAGCTAAATGGCTTCCTTGTCTG 59.872 47.826 0.00 0.00 41.00 3.51
144 145 3.084786 GCTAAATGGCTTCCTTGTCTGT 58.915 45.455 0.00 0.00 0.00 3.41
145 146 3.119708 GCTAAATGGCTTCCTTGTCTGTG 60.120 47.826 0.00 0.00 0.00 3.66
146 147 2.957402 AATGGCTTCCTTGTCTGTGA 57.043 45.000 0.00 0.00 0.00 3.58
147 148 2.957402 ATGGCTTCCTTGTCTGTGAA 57.043 45.000 0.00 0.00 0.00 3.18
148 149 1.967319 TGGCTTCCTTGTCTGTGAAC 58.033 50.000 0.00 0.00 0.00 3.18
149 150 1.211703 TGGCTTCCTTGTCTGTGAACA 59.788 47.619 0.00 0.00 0.00 3.18
150 151 2.297701 GGCTTCCTTGTCTGTGAACAA 58.702 47.619 0.00 0.00 37.56 2.83
151 152 2.887152 GGCTTCCTTGTCTGTGAACAAT 59.113 45.455 0.00 0.00 38.41 2.71
152 153 4.072131 GGCTTCCTTGTCTGTGAACAATA 58.928 43.478 0.00 0.00 38.41 1.90
153 154 4.518970 GGCTTCCTTGTCTGTGAACAATAA 59.481 41.667 0.00 0.00 38.41 1.40
154 155 5.009610 GGCTTCCTTGTCTGTGAACAATAAA 59.990 40.000 0.00 0.00 38.41 1.40
155 156 6.294731 GGCTTCCTTGTCTGTGAACAATAAAT 60.295 38.462 0.00 0.00 38.41 1.40
156 157 7.094377 GGCTTCCTTGTCTGTGAACAATAAATA 60.094 37.037 0.00 0.00 38.41 1.40
157 158 8.296713 GCTTCCTTGTCTGTGAACAATAAATAA 58.703 33.333 0.00 0.00 38.41 1.40
182 183 5.453567 AAAGAAAAATGAAAGGACCTCGG 57.546 39.130 0.00 0.00 0.00 4.63
183 184 4.367039 AGAAAAATGAAAGGACCTCGGA 57.633 40.909 0.00 0.00 0.00 4.55
184 185 4.327680 AGAAAAATGAAAGGACCTCGGAG 58.672 43.478 0.00 0.00 0.00 4.63
185 186 4.041691 AGAAAAATGAAAGGACCTCGGAGA 59.958 41.667 6.58 0.00 0.00 3.71
198 199 0.179073 TCGGAGAGCAGCTAAATGGC 60.179 55.000 0.00 0.00 0.00 4.40
199 200 0.179062 CGGAGAGCAGCTAAATGGCT 60.179 55.000 0.00 0.00 44.10 4.75
200 201 1.745141 CGGAGAGCAGCTAAATGGCTT 60.745 52.381 0.00 0.00 41.00 4.35
201 202 1.946081 GGAGAGCAGCTAAATGGCTTC 59.054 52.381 0.00 0.00 41.00 3.86
202 203 1.946081 GAGAGCAGCTAAATGGCTTCC 59.054 52.381 0.00 0.00 41.00 3.46
203 204 1.563410 AGAGCAGCTAAATGGCTTCCT 59.437 47.619 0.00 0.00 41.00 3.36
204 205 2.025510 AGAGCAGCTAAATGGCTTCCTT 60.026 45.455 0.00 0.00 41.00 3.36
205 206 2.097825 AGCAGCTAAATGGCTTCCTTG 58.902 47.619 0.00 0.00 41.00 3.61
206 207 1.821136 GCAGCTAAATGGCTTCCTTGT 59.179 47.619 0.00 0.00 41.00 3.16
207 208 2.159324 GCAGCTAAATGGCTTCCTTGTC 60.159 50.000 0.00 0.00 41.00 3.18
208 209 3.350833 CAGCTAAATGGCTTCCTTGTCT 58.649 45.455 0.00 0.00 41.00 3.41
214 215 1.967319 TGGCTTCCTTGTCTGTGAAC 58.033 50.000 0.00 0.00 0.00 3.18
221 222 5.239525 GCTTCCTTGTCTGTGAACAGTAAAT 59.760 40.000 10.14 0.00 44.12 1.40
222 223 6.426937 GCTTCCTTGTCTGTGAACAGTAAATA 59.573 38.462 10.14 0.00 44.12 1.40
224 225 8.918202 TTCCTTGTCTGTGAACAGTAAATAAT 57.082 30.769 10.14 0.00 44.12 1.28
292 301 5.468409 TGATGACTGTCAATTTTTAGCGTGA 59.532 36.000 15.31 0.00 0.00 4.35
296 305 6.072112 ACTGTCAATTTTTAGCGTGATTGT 57.928 33.333 0.00 0.00 32.70 2.71
302 311 7.748683 GTCAATTTTTAGCGTGATTGTACATCA 59.251 33.333 0.00 0.00 32.70 3.07
319 328 5.581126 ACATCAGAGTAGCTCTCAGAAAG 57.419 43.478 13.42 10.55 44.98 2.62
320 329 5.016173 ACATCAGAGTAGCTCTCAGAAAGT 58.984 41.667 13.42 10.99 44.98 2.66
329 338 6.898521 AGTAGCTCTCAGAAAGTAATAGGGTT 59.101 38.462 0.00 0.00 0.00 4.11
339 349 9.463443 CAGAAAGTAATAGGGTTTGTGAAAAAG 57.537 33.333 0.00 0.00 28.42 2.27
340 350 9.197306 AGAAAGTAATAGGGTTTGTGAAAAAGT 57.803 29.630 0.00 0.00 0.00 2.66
341 351 9.811995 GAAAGTAATAGGGTTTGTGAAAAAGTT 57.188 29.630 0.00 0.00 0.00 2.66
348 358 7.949690 AGGGTTTGTGAAAAAGTTTACTAGT 57.050 32.000 0.00 0.00 0.00 2.57
349 359 8.357290 AGGGTTTGTGAAAAAGTTTACTAGTT 57.643 30.769 0.00 0.00 0.00 2.24
350 360 8.464404 AGGGTTTGTGAAAAAGTTTACTAGTTC 58.536 33.333 0.00 0.00 0.00 3.01
351 361 7.703621 GGGTTTGTGAAAAAGTTTACTAGTTCC 59.296 37.037 0.00 0.00 0.00 3.62
352 362 7.703621 GGTTTGTGAAAAAGTTTACTAGTTCCC 59.296 37.037 0.00 0.00 0.00 3.97
353 363 6.607735 TGTGAAAAAGTTTACTAGTTCCCG 57.392 37.500 0.00 0.00 0.00 5.14
354 364 5.007921 TGTGAAAAAGTTTACTAGTTCCCGC 59.992 40.000 0.00 0.00 0.00 6.13
355 365 5.007921 GTGAAAAAGTTTACTAGTTCCCGCA 59.992 40.000 0.00 0.00 0.00 5.69
356 366 5.589452 TGAAAAAGTTTACTAGTTCCCGCAA 59.411 36.000 0.00 0.00 0.00 4.85
357 367 6.095160 TGAAAAAGTTTACTAGTTCCCGCAAA 59.905 34.615 0.00 0.00 0.00 3.68
358 368 6.453926 AAAAGTTTACTAGTTCCCGCAAAA 57.546 33.333 0.00 0.00 0.00 2.44
359 369 6.453926 AAAGTTTACTAGTTCCCGCAAAAA 57.546 33.333 0.00 0.00 0.00 1.94
382 392 8.465273 AAAAAGAAGTTTACTAGTTCCTGCAT 57.535 30.769 0.00 0.00 36.95 3.96
383 393 7.440523 AAAGAAGTTTACTAGTTCCTGCATG 57.559 36.000 0.00 0.00 36.95 4.06
390 405 4.574674 ACTAGTTCCTGCATGGATTGAA 57.425 40.909 5.83 0.00 45.68 2.69
428 446 1.745653 CTACTCAGATGTCCGAGCACA 59.254 52.381 0.00 0.00 32.21 4.57
431 449 1.745653 CTCAGATGTCCGAGCACACTA 59.254 52.381 0.00 0.00 0.00 2.74
437 455 4.393062 AGATGTCCGAGCACACTAAAAATG 59.607 41.667 0.00 0.00 0.00 2.32
439 457 2.161609 GTCCGAGCACACTAAAAATGGG 59.838 50.000 0.00 0.00 0.00 4.00
442 460 3.945285 CCGAGCACACTAAAAATGGGTAT 59.055 43.478 0.00 0.00 0.00 2.73
457 475 1.614241 GGTATGGACCTCACGCACCT 61.614 60.000 0.00 0.00 43.16 4.00
463 481 1.145803 GACCTCACGCACCTAAACAC 58.854 55.000 0.00 0.00 0.00 3.32
476 494 3.826729 ACCTAAACACCTTCCATTCAAGC 59.173 43.478 0.00 0.00 0.00 4.01
484 502 7.008021 ACACCTTCCATTCAAGCATAATTTT 57.992 32.000 0.00 0.00 0.00 1.82
487 505 7.063780 CACCTTCCATTCAAGCATAATTTTGAC 59.936 37.037 0.00 0.00 33.36 3.18
515 562 3.933861 AGTGTTTCTGAGTTTGGGTCT 57.066 42.857 0.00 0.00 0.00 3.85
554 602 2.358898 GACCTTGCTGCTTTTCACTTCA 59.641 45.455 0.00 0.00 0.00 3.02
592 678 4.301637 TCCCGCAGAAAAGAAAAGAAAC 57.698 40.909 0.00 0.00 0.00 2.78
671 757 2.203351 GAACCATCCATCCCGCCC 60.203 66.667 0.00 0.00 0.00 6.13
676 762 2.851102 ATCCATCCCGCCCCTCTG 60.851 66.667 0.00 0.00 0.00 3.35
704 791 2.129555 GAGGCTTTGACTCCCTGCCA 62.130 60.000 0.00 0.00 45.42 4.92
875 967 1.150536 ACTCACCCACCACGCAATT 59.849 52.632 0.00 0.00 0.00 2.32
876 968 0.889186 ACTCACCCACCACGCAATTC 60.889 55.000 0.00 0.00 0.00 2.17
877 969 1.586154 CTCACCCACCACGCAATTCC 61.586 60.000 0.00 0.00 0.00 3.01
878 970 2.282887 ACCCACCACGCAATTCCC 60.283 61.111 0.00 0.00 0.00 3.97
879 971 3.068064 CCCACCACGCAATTCCCC 61.068 66.667 0.00 0.00 0.00 4.81
907 999 1.075600 CTCTCCAGGTCTCCTCCCC 60.076 68.421 0.00 0.00 0.00 4.81
908 1000 1.862138 TCTCCAGGTCTCCTCCCCA 60.862 63.158 0.00 0.00 0.00 4.96
909 1001 1.687493 CTCCAGGTCTCCTCCCCAC 60.687 68.421 0.00 0.00 0.00 4.61
910 1002 2.174876 CTCCAGGTCTCCTCCCCACT 62.175 65.000 0.00 0.00 0.00 4.00
911 1003 1.992277 CCAGGTCTCCTCCCCACTG 60.992 68.421 0.00 0.00 0.00 3.66
912 1004 2.284995 AGGTCTCCTCCCCACTGC 60.285 66.667 0.00 0.00 0.00 4.40
913 1005 3.403558 GGTCTCCTCCCCACTGCC 61.404 72.222 0.00 0.00 0.00 4.85
914 1006 2.284995 GTCTCCTCCCCACTGCCT 60.285 66.667 0.00 0.00 0.00 4.75
915 1007 2.284921 TCTCCTCCCCACTGCCTG 60.285 66.667 0.00 0.00 0.00 4.85
916 1008 4.106925 CTCCTCCCCACTGCCTGC 62.107 72.222 0.00 0.00 0.00 4.85
999 1092 4.821589 CTCCGGCTGGTTCGCTCC 62.822 72.222 12.43 0.00 36.30 4.70
1076 1172 0.107361 ATTCGTCCGGGGGATTTGTC 60.107 55.000 0.00 0.00 32.73 3.18
1078 1174 2.983791 GTCCGGGGGATTTGTCGA 59.016 61.111 0.00 0.00 32.73 4.20
1479 1576 2.278013 GAGTCGATGCCGTCCGTC 60.278 66.667 0.00 0.00 37.05 4.79
1833 1930 0.914644 CATGGCCAGAAGGAGAAGGA 59.085 55.000 13.05 0.00 36.89 3.36
2067 3880 4.888326 TGTAAATGAAGGGCTTGCATTT 57.112 36.364 18.37 18.37 42.77 2.32
2227 4042 5.125417 GTCACTGGCAATATTCTAGGCAAAA 59.875 40.000 2.77 0.00 37.38 2.44
2438 4255 1.381522 AAGTTGTAACAACGGCCGTT 58.618 45.000 36.96 36.96 39.13 4.44
2498 4315 4.443978 AGGGATAGCTTGCACACAATAT 57.556 40.909 0.00 0.00 34.61 1.28
2590 4411 7.391554 TCATTTGCACTGCTAAATAGAGAAACT 59.608 33.333 1.98 0.00 0.00 2.66
2697 4518 3.659786 TCCGTGAATTGAACTAGTGTGG 58.340 45.455 0.00 0.00 0.00 4.17
2701 4522 2.714250 TGAATTGAACTAGTGTGGGGGT 59.286 45.455 0.00 0.00 0.00 4.95
2710 4531 1.979809 AGTGTGGGGGTCCATATGAA 58.020 50.000 3.65 0.00 46.09 2.57
2722 4543 6.431234 GGGGTCCATATGAATGAAGTGATTAC 59.569 42.308 3.65 0.00 34.84 1.89
2739 4560 7.907389 AGTGATTACTGAAGAAATGTCTACCA 58.093 34.615 0.00 0.00 35.34 3.25
2905 4726 2.694628 TGCTGGGAATGCCATGTTATTC 59.305 45.455 0.00 9.51 35.15 1.75
2929 4750 1.144708 TCCAAGTTCATGTTGGGCTGA 59.855 47.619 12.31 0.00 44.13 4.26
2934 4755 3.771216 AGTTCATGTTGGGCTGAATTCT 58.229 40.909 7.05 0.00 34.18 2.40
3014 4837 9.903682 ATTGTAGTTCATTTCTCTTGTTTGATG 57.096 29.630 0.00 0.00 0.00 3.07
3051 4874 3.446873 TGCATAGTGGTTGGCCTAATTTG 59.553 43.478 3.32 0.00 35.27 2.32
3079 4902 9.868277 ATGTTCTACTTCTCATTTCTTCTGTAG 57.132 33.333 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 8.988060 TCCAAGGTCCTTTTCTTTTTCTTTTAT 58.012 29.630 0.00 0.00 0.00 1.40
26 27 8.368962 TCCAAGGTCCTTTTCTTTTTCTTTTA 57.631 30.769 0.00 0.00 0.00 1.52
27 28 7.180229 TCTCCAAGGTCCTTTTCTTTTTCTTTT 59.820 33.333 0.00 0.00 0.00 2.27
28 29 6.667848 TCTCCAAGGTCCTTTTCTTTTTCTTT 59.332 34.615 0.00 0.00 0.00 2.52
29 30 6.194967 TCTCCAAGGTCCTTTTCTTTTTCTT 58.805 36.000 0.00 0.00 0.00 2.52
30 31 5.766590 TCTCCAAGGTCCTTTTCTTTTTCT 58.233 37.500 0.00 0.00 0.00 2.52
31 32 5.508153 GCTCTCCAAGGTCCTTTTCTTTTTC 60.508 44.000 0.00 0.00 0.00 2.29
32 33 4.342378 GCTCTCCAAGGTCCTTTTCTTTTT 59.658 41.667 0.00 0.00 0.00 1.94
33 34 3.891977 GCTCTCCAAGGTCCTTTTCTTTT 59.108 43.478 0.00 0.00 0.00 2.27
34 35 3.117512 TGCTCTCCAAGGTCCTTTTCTTT 60.118 43.478 0.00 0.00 0.00 2.52
35 36 2.443255 TGCTCTCCAAGGTCCTTTTCTT 59.557 45.455 0.00 0.00 0.00 2.52
36 37 2.039613 CTGCTCTCCAAGGTCCTTTTCT 59.960 50.000 0.00 0.00 0.00 2.52
37 38 2.431454 CTGCTCTCCAAGGTCCTTTTC 58.569 52.381 0.00 0.00 0.00 2.29
38 39 1.546548 GCTGCTCTCCAAGGTCCTTTT 60.547 52.381 0.00 0.00 0.00 2.27
39 40 0.037447 GCTGCTCTCCAAGGTCCTTT 59.963 55.000 0.00 0.00 0.00 3.11
40 41 0.839853 AGCTGCTCTCCAAGGTCCTT 60.840 55.000 0.00 0.00 0.00 3.36
41 42 0.041833 TAGCTGCTCTCCAAGGTCCT 59.958 55.000 4.91 0.00 0.00 3.85
42 43 0.905357 TTAGCTGCTCTCCAAGGTCC 59.095 55.000 4.91 0.00 0.00 4.46
43 44 2.770164 TTTAGCTGCTCTCCAAGGTC 57.230 50.000 4.91 0.00 0.00 3.85
44 45 2.356535 CCATTTAGCTGCTCTCCAAGGT 60.357 50.000 4.91 0.00 0.00 3.50
45 46 2.295885 CCATTTAGCTGCTCTCCAAGG 58.704 52.381 4.91 0.00 0.00 3.61
46 47 1.674962 GCCATTTAGCTGCTCTCCAAG 59.325 52.381 4.91 0.00 0.00 3.61
47 48 1.283029 AGCCATTTAGCTGCTCTCCAA 59.717 47.619 4.91 0.00 42.95 3.53
48 49 0.914644 AGCCATTTAGCTGCTCTCCA 59.085 50.000 4.91 0.00 42.95 3.86
49 50 1.946081 GAAGCCATTTAGCTGCTCTCC 59.054 52.381 4.91 0.00 44.11 3.71
50 51 1.946081 GGAAGCCATTTAGCTGCTCTC 59.054 52.381 4.91 0.00 44.11 3.20
51 52 1.563410 AGGAAGCCATTTAGCTGCTCT 59.437 47.619 4.91 0.00 44.11 4.09
52 53 2.049888 AGGAAGCCATTTAGCTGCTC 57.950 50.000 4.91 0.00 44.11 4.26
53 54 2.097825 CAAGGAAGCCATTTAGCTGCT 58.902 47.619 7.57 7.57 44.11 4.24
54 55 1.821136 ACAAGGAAGCCATTTAGCTGC 59.179 47.619 0.00 0.00 44.11 5.25
55 56 3.128242 CAGACAAGGAAGCCATTTAGCTG 59.872 47.826 0.00 0.00 44.11 4.24
57 58 3.084786 ACAGACAAGGAAGCCATTTAGC 58.915 45.455 0.00 0.00 0.00 3.09
58 59 4.326826 TCACAGACAAGGAAGCCATTTAG 58.673 43.478 0.00 0.00 0.00 1.85
59 60 4.365514 TCACAGACAAGGAAGCCATTTA 57.634 40.909 0.00 0.00 0.00 1.40
60 61 3.228188 TCACAGACAAGGAAGCCATTT 57.772 42.857 0.00 0.00 0.00 2.32
61 62 2.957402 TCACAGACAAGGAAGCCATT 57.043 45.000 0.00 0.00 0.00 3.16
62 63 2.957402 TTCACAGACAAGGAAGCCAT 57.043 45.000 0.00 0.00 0.00 4.40
63 64 2.957402 ATTCACAGACAAGGAAGCCA 57.043 45.000 0.00 0.00 0.00 4.75
64 65 3.944087 ACTATTCACAGACAAGGAAGCC 58.056 45.455 0.00 0.00 0.00 4.35
65 66 7.617041 ATTTACTATTCACAGACAAGGAAGC 57.383 36.000 0.00 0.00 0.00 3.86
90 91 8.210946 CCAAGGTCCTTTCCTTTTTCTTTTATT 58.789 33.333 0.00 0.00 44.36 1.40
91 92 7.567250 TCCAAGGTCCTTTCCTTTTTCTTTTAT 59.433 33.333 0.00 0.00 44.36 1.40
92 93 6.898521 TCCAAGGTCCTTTCCTTTTTCTTTTA 59.101 34.615 0.00 0.00 44.36 1.52
93 94 5.724370 TCCAAGGTCCTTTCCTTTTTCTTTT 59.276 36.000 0.00 0.00 44.36 2.27
94 95 5.277250 TCCAAGGTCCTTTCCTTTTTCTTT 58.723 37.500 0.00 0.00 44.36 2.52
95 96 4.878968 TCCAAGGTCCTTTCCTTTTTCTT 58.121 39.130 0.00 0.00 44.36 2.52
96 97 4.168088 TCTCCAAGGTCCTTTCCTTTTTCT 59.832 41.667 0.00 0.00 44.36 2.52
97 98 4.470602 TCTCCAAGGTCCTTTCCTTTTTC 58.529 43.478 0.00 0.00 44.36 2.29
98 99 4.474394 CTCTCCAAGGTCCTTTCCTTTTT 58.526 43.478 0.00 0.00 44.36 1.94
99 100 3.752218 GCTCTCCAAGGTCCTTTCCTTTT 60.752 47.826 0.00 0.00 44.36 2.27
100 101 2.224892 GCTCTCCAAGGTCCTTTCCTTT 60.225 50.000 0.00 0.00 44.36 3.11
102 103 0.988063 GCTCTCCAAGGTCCTTTCCT 59.012 55.000 0.00 0.00 39.84 3.36
103 104 0.693049 TGCTCTCCAAGGTCCTTTCC 59.307 55.000 0.00 0.00 0.00 3.13
104 105 1.948144 GCTGCTCTCCAAGGTCCTTTC 60.948 57.143 0.00 0.00 0.00 2.62
105 106 0.037447 GCTGCTCTCCAAGGTCCTTT 59.963 55.000 0.00 0.00 0.00 3.11
106 107 0.839853 AGCTGCTCTCCAAGGTCCTT 60.840 55.000 0.00 0.00 0.00 3.36
107 108 0.041833 TAGCTGCTCTCCAAGGTCCT 59.958 55.000 4.91 0.00 0.00 3.85
108 109 0.905357 TTAGCTGCTCTCCAAGGTCC 59.095 55.000 4.91 0.00 0.00 4.46
109 110 2.770164 TTTAGCTGCTCTCCAAGGTC 57.230 50.000 4.91 0.00 0.00 3.85
110 111 2.356535 CCATTTAGCTGCTCTCCAAGGT 60.357 50.000 4.91 0.00 0.00 3.50
111 112 2.295885 CCATTTAGCTGCTCTCCAAGG 58.704 52.381 4.91 0.00 0.00 3.61
112 113 1.674962 GCCATTTAGCTGCTCTCCAAG 59.325 52.381 4.91 0.00 0.00 3.61
113 114 1.283029 AGCCATTTAGCTGCTCTCCAA 59.717 47.619 4.91 0.00 42.95 3.53
114 115 0.914644 AGCCATTTAGCTGCTCTCCA 59.085 50.000 4.91 0.00 42.95 3.86
115 116 1.946081 GAAGCCATTTAGCTGCTCTCC 59.054 52.381 4.91 0.00 44.11 3.71
116 117 1.946081 GGAAGCCATTTAGCTGCTCTC 59.054 52.381 4.91 0.00 44.11 3.20
117 118 1.563410 AGGAAGCCATTTAGCTGCTCT 59.437 47.619 4.91 0.00 44.11 4.09
118 119 2.049888 AGGAAGCCATTTAGCTGCTC 57.950 50.000 4.91 0.00 44.11 4.26
119 120 2.097825 CAAGGAAGCCATTTAGCTGCT 58.902 47.619 7.57 7.57 44.11 4.24
120 121 1.821136 ACAAGGAAGCCATTTAGCTGC 59.179 47.619 0.00 0.00 44.11 5.25
121 122 3.128242 CAGACAAGGAAGCCATTTAGCTG 59.872 47.826 0.00 0.00 44.11 4.24
123 124 3.084786 ACAGACAAGGAAGCCATTTAGC 58.915 45.455 0.00 0.00 0.00 3.09
124 125 4.326826 TCACAGACAAGGAAGCCATTTAG 58.673 43.478 0.00 0.00 0.00 1.85
125 126 4.365514 TCACAGACAAGGAAGCCATTTA 57.634 40.909 0.00 0.00 0.00 1.40
126 127 3.228188 TCACAGACAAGGAAGCCATTT 57.772 42.857 0.00 0.00 0.00 2.32
127 128 2.887152 GTTCACAGACAAGGAAGCCATT 59.113 45.455 0.00 0.00 0.00 3.16
128 129 2.158623 TGTTCACAGACAAGGAAGCCAT 60.159 45.455 0.00 0.00 0.00 4.40
129 130 1.211703 TGTTCACAGACAAGGAAGCCA 59.788 47.619 0.00 0.00 0.00 4.75
130 131 1.967319 TGTTCACAGACAAGGAAGCC 58.033 50.000 0.00 0.00 0.00 4.35
131 132 5.689383 TTATTGTTCACAGACAAGGAAGC 57.311 39.130 0.00 0.00 42.28 3.86
156 157 8.088365 CCGAGGTCCTTTCATTTTTCTTTTATT 58.912 33.333 0.00 0.00 0.00 1.40
157 158 7.450323 TCCGAGGTCCTTTCATTTTTCTTTTAT 59.550 33.333 0.00 0.00 0.00 1.40
158 159 6.773685 TCCGAGGTCCTTTCATTTTTCTTTTA 59.226 34.615 0.00 0.00 0.00 1.52
159 160 5.596772 TCCGAGGTCCTTTCATTTTTCTTTT 59.403 36.000 0.00 0.00 0.00 2.27
160 161 5.137551 TCCGAGGTCCTTTCATTTTTCTTT 58.862 37.500 0.00 0.00 0.00 2.52
161 162 4.725490 TCCGAGGTCCTTTCATTTTTCTT 58.275 39.130 0.00 0.00 0.00 2.52
162 163 4.041691 TCTCCGAGGTCCTTTCATTTTTCT 59.958 41.667 0.00 0.00 0.00 2.52
163 164 4.324267 TCTCCGAGGTCCTTTCATTTTTC 58.676 43.478 0.00 0.00 0.00 2.29
164 165 4.327680 CTCTCCGAGGTCCTTTCATTTTT 58.672 43.478 0.00 0.00 0.00 1.94
165 166 3.870299 GCTCTCCGAGGTCCTTTCATTTT 60.870 47.826 0.00 0.00 0.00 1.82
166 167 2.355209 GCTCTCCGAGGTCCTTTCATTT 60.355 50.000 0.00 0.00 0.00 2.32
167 168 1.208293 GCTCTCCGAGGTCCTTTCATT 59.792 52.381 0.00 0.00 0.00 2.57
168 169 0.827368 GCTCTCCGAGGTCCTTTCAT 59.173 55.000 0.00 0.00 0.00 2.57
169 170 0.541998 TGCTCTCCGAGGTCCTTTCA 60.542 55.000 0.00 0.00 0.00 2.69
170 171 0.174617 CTGCTCTCCGAGGTCCTTTC 59.825 60.000 0.00 0.00 0.00 2.62
171 172 1.893919 GCTGCTCTCCGAGGTCCTTT 61.894 60.000 0.00 0.00 0.00 3.11
172 173 2.355193 GCTGCTCTCCGAGGTCCTT 61.355 63.158 0.00 0.00 0.00 3.36
173 174 1.927569 TAGCTGCTCTCCGAGGTCCT 61.928 60.000 4.91 0.00 0.00 3.85
174 175 1.038130 TTAGCTGCTCTCCGAGGTCC 61.038 60.000 4.91 0.00 0.00 4.46
175 176 0.818296 TTTAGCTGCTCTCCGAGGTC 59.182 55.000 4.91 0.00 0.00 3.85
176 177 1.137872 CATTTAGCTGCTCTCCGAGGT 59.862 52.381 4.91 0.00 0.00 3.85
177 178 1.539929 CCATTTAGCTGCTCTCCGAGG 60.540 57.143 4.91 0.00 0.00 4.63
178 179 1.863267 CCATTTAGCTGCTCTCCGAG 58.137 55.000 4.91 0.00 0.00 4.63
179 180 0.179073 GCCATTTAGCTGCTCTCCGA 60.179 55.000 4.91 0.00 0.00 4.55
180 181 0.179062 AGCCATTTAGCTGCTCTCCG 60.179 55.000 4.91 0.00 42.95 4.63
181 182 1.946081 GAAGCCATTTAGCTGCTCTCC 59.054 52.381 4.91 0.00 44.11 3.71
182 183 1.946081 GGAAGCCATTTAGCTGCTCTC 59.054 52.381 4.91 0.00 44.11 3.20
183 184 1.563410 AGGAAGCCATTTAGCTGCTCT 59.437 47.619 4.91 0.00 44.11 4.09
184 185 2.049888 AGGAAGCCATTTAGCTGCTC 57.950 50.000 4.91 0.00 44.11 4.26
185 186 2.097825 CAAGGAAGCCATTTAGCTGCT 58.902 47.619 7.57 7.57 44.11 4.24
186 187 1.821136 ACAAGGAAGCCATTTAGCTGC 59.179 47.619 0.00 0.00 44.11 5.25
187 188 3.128242 CAGACAAGGAAGCCATTTAGCTG 59.872 47.826 0.00 0.00 44.11 4.24
189 190 3.084786 ACAGACAAGGAAGCCATTTAGC 58.915 45.455 0.00 0.00 0.00 3.09
190 191 4.326826 TCACAGACAAGGAAGCCATTTAG 58.673 43.478 0.00 0.00 0.00 1.85
191 192 4.365514 TCACAGACAAGGAAGCCATTTA 57.634 40.909 0.00 0.00 0.00 1.40
192 193 3.228188 TCACAGACAAGGAAGCCATTT 57.772 42.857 0.00 0.00 0.00 2.32
193 194 2.887152 GTTCACAGACAAGGAAGCCATT 59.113 45.455 0.00 0.00 0.00 3.16
194 195 2.158623 TGTTCACAGACAAGGAAGCCAT 60.159 45.455 0.00 0.00 0.00 4.40
195 196 1.211703 TGTTCACAGACAAGGAAGCCA 59.788 47.619 0.00 0.00 0.00 4.75
196 197 1.876156 CTGTTCACAGACAAGGAAGCC 59.124 52.381 0.14 0.00 46.59 4.35
197 198 2.565841 ACTGTTCACAGACAAGGAAGC 58.434 47.619 14.00 0.00 46.59 3.86
198 199 6.867662 ATTTACTGTTCACAGACAAGGAAG 57.132 37.500 14.00 0.00 46.59 3.46
199 200 8.918202 ATTATTTACTGTTCACAGACAAGGAA 57.082 30.769 14.00 5.20 46.59 3.36
250 257 5.468072 GTCATCACACACTCAAACATCTCTT 59.532 40.000 0.00 0.00 0.00 2.85
292 301 6.125719 TCTGAGAGCTACTCTGATGTACAAT 58.874 40.000 0.00 0.00 44.56 2.71
302 311 6.775629 CCCTATTACTTTCTGAGAGCTACTCT 59.224 42.308 12.45 0.00 44.28 3.24
329 338 6.458615 GCGGGAACTAGTAAACTTTTTCACAA 60.459 38.462 0.00 0.00 0.00 3.33
357 367 7.875327 TGCAGGAACTAGTAAACTTCTTTTT 57.125 32.000 0.00 0.00 36.02 1.94
358 368 7.040409 CCATGCAGGAACTAGTAAACTTCTTTT 60.040 37.037 0.00 0.00 41.22 2.27
359 369 6.431234 CCATGCAGGAACTAGTAAACTTCTTT 59.569 38.462 0.00 0.00 41.22 2.52
360 370 5.940470 CCATGCAGGAACTAGTAAACTTCTT 59.060 40.000 0.00 0.00 41.22 2.52
361 371 5.248477 TCCATGCAGGAACTAGTAAACTTCT 59.752 40.000 0.00 0.00 45.65 2.85
362 372 5.488341 TCCATGCAGGAACTAGTAAACTTC 58.512 41.667 0.00 0.00 45.65 3.01
363 373 5.499004 TCCATGCAGGAACTAGTAAACTT 57.501 39.130 0.00 0.00 45.65 2.66
403 421 2.548057 CTCGGACATCTGAGTAGCTCTC 59.452 54.545 9.25 0.00 42.86 3.20
439 457 1.108776 TAGGTGCGTGAGGTCCATAC 58.891 55.000 0.00 0.00 0.00 2.39
442 460 0.034337 GTTTAGGTGCGTGAGGTCCA 59.966 55.000 0.00 0.00 0.00 4.02
457 475 7.716799 ATTATGCTTGAATGGAAGGTGTTTA 57.283 32.000 0.00 0.00 0.00 2.01
463 481 7.325694 AGTCAAAATTATGCTTGAATGGAAGG 58.674 34.615 0.00 0.00 33.52 3.46
484 502 7.681939 AACTCAGAAACACTAAAACAAGTCA 57.318 32.000 0.00 0.00 0.00 3.41
487 505 6.751888 CCCAAACTCAGAAACACTAAAACAAG 59.248 38.462 0.00 0.00 0.00 3.16
515 562 3.973973 AGGTCCTCGAATATCCATTTCCA 59.026 43.478 0.00 0.00 0.00 3.53
554 602 5.200483 TGCGGGATTCCTTCTGATTATTTT 58.800 37.500 2.01 0.00 0.00 1.82
569 655 5.289595 GTTTCTTTTCTTTTCTGCGGGATT 58.710 37.500 0.00 0.00 0.00 3.01
592 678 5.759963 AGGCGATTCTACTATGTACTTTCG 58.240 41.667 0.00 0.00 0.00 3.46
602 688 2.231529 GCTGGAGAGGCGATTCTACTA 58.768 52.381 0.00 0.00 0.00 1.82
604 690 3.579066 GCTGGAGAGGCGATTCTAC 57.421 57.895 0.00 0.00 0.00 2.59
704 791 0.390124 TTACGTTGACCGGTCAGCTT 59.610 50.000 37.80 33.27 41.13 3.74
826 913 0.889638 TTTTTATGTGGGACGGCGCA 60.890 50.000 10.83 2.72 34.23 6.09
828 915 0.179210 CGTTTTTATGTGGGACGGCG 60.179 55.000 4.80 4.80 0.00 6.46
829 916 1.158434 TCGTTTTTATGTGGGACGGC 58.842 50.000 0.00 0.00 34.72 5.68
875 967 4.761304 AGAGGGGAGGGGAGGGGA 62.761 72.222 0.00 0.00 0.00 4.81
876 968 4.179599 GAGAGGGGAGGGGAGGGG 62.180 77.778 0.00 0.00 0.00 4.79
877 969 4.179599 GGAGAGGGGAGGGGAGGG 62.180 77.778 0.00 0.00 0.00 4.30
878 970 3.368501 TGGAGAGGGGAGGGGAGG 61.369 72.222 0.00 0.00 0.00 4.30
879 971 2.285180 CTGGAGAGGGGAGGGGAG 59.715 72.222 0.00 0.00 0.00 4.30
907 999 3.365265 GGTTTCGGGCAGGCAGTG 61.365 66.667 0.00 0.00 0.00 3.66
908 1000 4.660938 GGGTTTCGGGCAGGCAGT 62.661 66.667 0.00 0.00 0.00 4.40
912 1004 3.600410 ATTGGGGGTTTCGGGCAGG 62.600 63.158 0.00 0.00 0.00 4.85
913 1005 1.604147 GAATTGGGGGTTTCGGGCAG 61.604 60.000 0.00 0.00 0.00 4.85
914 1006 1.608046 GAATTGGGGGTTTCGGGCA 60.608 57.895 0.00 0.00 0.00 5.36
915 1007 2.706834 CGAATTGGGGGTTTCGGGC 61.707 63.158 0.00 0.00 40.67 6.13
916 1008 0.609681 TTCGAATTGGGGGTTTCGGG 60.610 55.000 0.00 0.00 43.63 5.14
917 1009 1.249407 TTTCGAATTGGGGGTTTCGG 58.751 50.000 0.00 0.00 43.63 4.30
918 1010 3.507786 GATTTTCGAATTGGGGGTTTCG 58.492 45.455 0.00 0.00 44.53 3.46
1260 1357 1.429148 GCACGATCACCGGGTTCATC 61.429 60.000 6.32 1.12 45.17 2.92
1596 1693 2.688666 TTGCGGAGGGAGAGCCAT 60.689 61.111 0.00 0.00 35.15 4.40
1716 1813 3.053896 CCGGCGAACCTTCCAACC 61.054 66.667 9.30 0.00 0.00 3.77
2447 4264 4.809426 CAGCCCTAGATTTAACCAACTACG 59.191 45.833 0.00 0.00 0.00 3.51
2590 4411 7.291566 TCAAAACCCTGTAATGGACTTCTTTA 58.708 34.615 0.00 0.00 0.00 1.85
2697 4518 4.437682 TCACTTCATTCATATGGACCCC 57.562 45.455 2.13 0.00 32.40 4.95
2701 4522 9.551734 CTTCAGTAATCACTTCATTCATATGGA 57.448 33.333 2.13 0.00 30.46 3.41
2722 4543 9.529325 TTACGAATATGGTAGACATTTCTTCAG 57.471 33.333 0.00 0.00 41.03 3.02
2894 4715 6.454795 TGAACTTGGAAAAGAATAACATGGC 58.545 36.000 0.00 0.00 0.00 4.40
2905 4726 3.070015 AGCCCAACATGAACTTGGAAAAG 59.930 43.478 13.71 0.60 40.76 2.27
2929 4750 9.846248 GCAAGATAACTAACATTGTTCAGAATT 57.154 29.630 5.07 0.00 0.00 2.17
2934 4755 7.744087 ACTGCAAGATAACTAACATTGTTCA 57.256 32.000 5.07 0.00 37.43 3.18
3014 4837 5.523916 CCACTATGCACTAACTTGTATGACC 59.476 44.000 0.00 0.00 0.00 4.02
3029 4852 3.380471 AATTAGGCCAACCACTATGCA 57.620 42.857 5.01 0.00 39.06 3.96
3051 4874 7.821846 ACAGAAGAAATGAGAAGTAGAACATCC 59.178 37.037 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.