Multiple sequence alignment - TraesCS5A01G497700

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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 TraesCS5A01G497700 chr5A 100.000 2811 0 0 1 2811 664806402 664809212 0.000000e+00 5192.0
1 TraesCS5A01G497700 chr5A 84.091 220 19 8 286 495 562503022 562502809 6.140000e-47 198.0
2 TraesCS5A01G497700 chr5A 88.060 67 7 1 594 659 519855764 519855698 8.350000e-11 78.7
3 TraesCS5A01G497700 chr4D 90.734 2331 115 53 531 2811 484400144 484402423 0.000000e+00 3014.0
4 TraesCS5A01G497700 chr4D 86.864 236 12 11 23 258 484399915 484400131 2.160000e-61 246.0
5 TraesCS5A01G497700 chr4B 87.784 2374 158 73 500 2809 616303488 616305793 0.000000e+00 2656.0
6 TraesCS5A01G497700 chr4B 79.775 267 27 14 288 528 528199921 528199656 4.820000e-38 169.0
7 TraesCS5A01G497700 chr4B 80.952 189 26 6 347 527 20728718 20728532 1.050000e-29 141.0
8 TraesCS5A01G497700 chr4B 85.294 136 18 2 703 837 505499661 505499795 3.780000e-29 139.0
9 TraesCS5A01G497700 chr4B 77.959 245 31 11 300 523 634308589 634308347 6.320000e-27 132.0
10 TraesCS5A01G497700 chr5D 88.265 196 11 3 335 522 434308003 434308194 1.010000e-54 224.0
11 TraesCS5A01G497700 chr5D 86.735 196 16 5 335 522 457986992 457987185 2.840000e-50 209.0
12 TraesCS5A01G497700 chr1D 86.735 196 13 5 335 522 254621317 254621507 3.670000e-49 206.0
13 TraesCS5A01G497700 chr1D 89.091 55 3 3 287 340 9000131 9000079 6.500000e-07 65.8
14 TraesCS5A01G497700 chr3B 85.279 197 16 5 335 522 20359284 20359476 1.030000e-44 191.0
15 TraesCS5A01G497700 chr3B 82.659 173 27 3 668 837 788514162 788514334 1.740000e-32 150.0
16 TraesCS5A01G497700 chrUn 84.058 207 20 4 335 532 195604578 195604780 1.330000e-43 187.0
17 TraesCS5A01G497700 chrUn 84.536 194 18 7 338 522 31627194 31627004 6.190000e-42 182.0
18 TraesCS5A01G497700 chrUn 85.393 178 18 7 335 511 35686943 35686773 8.000000e-41 178.0
19 TraesCS5A01G497700 chrUn 84.393 173 23 3 668 837 333063257 333063086 1.730000e-37 167.0
20 TraesCS5A01G497700 chrUn 82.090 134 22 2 705 837 97477175 97477307 2.290000e-21 113.0
21 TraesCS5A01G497700 chr3D 85.128 195 15 4 335 521 418755918 418756106 1.330000e-43 187.0
22 TraesCS5A01G497700 chr3D 84.466 103 12 4 690 790 538175975 538175875 6.410000e-17 99.0
23 TraesCS5A01G497700 chr2A 78.405 301 51 13 1195 1491 51945223 51945513 1.720000e-42 183.0
24 TraesCS5A01G497700 chr2A 87.500 96 12 0 434 529 27092505 27092410 8.230000e-21 111.0
25 TraesCS5A01G497700 chr2A 74.800 250 32 20 300 522 703390225 703390470 1.790000e-12 84.2
26 TraesCS5A01G497700 chr2A 89.091 55 4 2 288 340 762848632 762848578 1.810000e-07 67.6
27 TraesCS5A01G497700 chr7D 87.195 164 13 2 367 522 573920033 573919870 2.220000e-41 180.0
28 TraesCS5A01G497700 chr7D 79.085 153 24 4 891 1042 528079775 528079920 6.410000e-17 99.0
29 TraesCS5A01G497700 chr7D 86.441 59 6 2 286 342 430487588 430487646 2.340000e-06 63.9
30 TraesCS5A01G497700 chr6D 84.393 173 23 3 668 837 468143189 468143018 1.730000e-37 167.0
31 TraesCS5A01G497700 chr7B 82.941 170 22 4 359 522 646067637 646067469 2.260000e-31 147.0
32 TraesCS5A01G497700 chr7B 79.085 153 24 6 891 1042 565576939 565577084 6.410000e-17 99.0
33 TraesCS5A01G497700 chr7A 79.570 186 28 8 345 522 513209795 513209978 1.060000e-24 124.0
34 TraesCS5A01G497700 chr7A 80.392 153 22 6 891 1042 608359033 608359178 2.960000e-20 110.0
35 TraesCS5A01G497700 chr7A 98.000 50 0 1 605 653 89036654 89036703 4.990000e-13 86.1
36 TraesCS5A01G497700 chr2D 82.836 134 21 2 704 836 5197840 5197972 4.920000e-23 119.0
37 TraesCS5A01G497700 chr6A 84.298 121 18 1 718 837 490474135 490474255 1.770000e-22 117.0
38 TraesCS5A01G497700 chr3A 82.222 135 16 4 703 837 513924176 513924050 2.960000e-20 110.0
39 TraesCS5A01G497700 chr3A 91.045 67 5 1 594 659 628874577 628874643 3.860000e-14 89.8
40 TraesCS5A01G497700 chr3A 87.273 55 5 2 288 340 647490690 647490636 8.410000e-06 62.1
41 TraesCS5A01G497700 chr6B 91.176 68 6 0 594 661 669907906 669907839 2.980000e-15 93.5
42 TraesCS5A01G497700 chr1B 91.045 67 5 1 594 659 670904820 670904886 3.860000e-14 89.8
43 TraesCS5A01G497700 chr2B 89.091 55 4 2 288 340 440357646 440357592 1.810000e-07 67.6


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 TraesCS5A01G497700 chr5A 664806402 664809212 2810 False 5192 5192 100.000 1 2811 1 chr5A.!!$F1 2810
1 TraesCS5A01G497700 chr4D 484399915 484402423 2508 False 1630 3014 88.799 23 2811 2 chr4D.!!$F1 2788
2 TraesCS5A01G497700 chr4B 616303488 616305793 2305 False 2656 2656 87.784 500 2809 1 chr4B.!!$F2 2309

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
264 265 0.108804 CATGCCGTCACCTCGTAGTT 60.109 55.0 0.0 0.0 0.0 2.24 F
265 266 0.172803 ATGCCGTCACCTCGTAGTTC 59.827 55.0 0.0 0.0 0.0 3.01 F
267 268 0.172803 GCCGTCACCTCGTAGTTCAT 59.827 55.0 0.0 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1766 1772 0.319083 TACGGCGACCTTTGTGATGT 59.681 50.000 16.62 0.0 0.00 3.06 R
1769 1775 1.005867 GGTACGGCGACCTTTGTGA 60.006 57.895 16.62 0.0 36.47 3.58 R
1924 1937 1.507141 CCACAAGTTCGGCAGTGACC 61.507 60.000 0.00 0.0 33.99 4.02 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
76 77 0.895559 GGTTCACCCCTTTCCAGCTG 60.896 60.000 6.78 6.78 0.00 4.24
89 90 0.532862 CCAGCTGGTCGTTGTCTTGT 60.533 55.000 25.53 0.00 0.00 3.16
90 91 0.583438 CAGCTGGTCGTTGTCTTGTG 59.417 55.000 5.57 0.00 0.00 3.33
102 103 4.703897 GTTGTCTTGTGCTATGGCCTATA 58.296 43.478 3.32 0.00 37.74 1.31
103 104 4.607293 TGTCTTGTGCTATGGCCTATAG 57.393 45.455 3.32 10.79 41.46 1.31
104 105 3.967326 TGTCTTGTGCTATGGCCTATAGT 59.033 43.478 17.93 0.00 40.77 2.12
105 106 5.144832 TGTCTTGTGCTATGGCCTATAGTA 58.855 41.667 17.93 13.37 40.77 1.82
106 107 5.780282 TGTCTTGTGCTATGGCCTATAGTAT 59.220 40.000 17.93 1.07 40.77 2.12
107 108 6.951778 TGTCTTGTGCTATGGCCTATAGTATA 59.048 38.462 17.93 12.09 40.77 1.47
133 134 4.134563 GTGTGTACAATTCTGGTCAACCT 58.865 43.478 0.00 0.00 36.82 3.50
134 135 4.213482 GTGTGTACAATTCTGGTCAACCTC 59.787 45.833 0.00 0.00 36.82 3.85
135 136 3.751698 GTGTACAATTCTGGTCAACCTCC 59.248 47.826 0.00 0.00 36.82 4.30
136 137 2.586648 ACAATTCTGGTCAACCTCCC 57.413 50.000 0.10 0.00 36.82 4.30
137 138 1.075536 ACAATTCTGGTCAACCTCCCC 59.924 52.381 0.10 0.00 36.82 4.81
138 139 1.355720 CAATTCTGGTCAACCTCCCCT 59.644 52.381 0.10 0.00 36.82 4.79
139 140 1.760405 ATTCTGGTCAACCTCCCCTT 58.240 50.000 0.10 0.00 36.82 3.95
140 141 2.426431 TTCTGGTCAACCTCCCCTTA 57.574 50.000 0.10 0.00 36.82 2.69
155 156 5.070580 CCTCCCCTTACCTATAGTTGACAAG 59.929 48.000 0.00 0.00 0.00 3.16
158 159 6.608808 TCCCCTTACCTATAGTTGACAAGTAC 59.391 42.308 4.85 0.00 0.00 2.73
161 162 8.848182 CCCTTACCTATAGTTGACAAGTACTAG 58.152 40.741 4.85 8.13 30.95 2.57
162 163 9.406113 CCTTACCTATAGTTGACAAGTACTAGT 57.594 37.037 4.85 0.00 30.95 2.57
170 171 6.783162 AGTTGACAAGTACTAGTAGTATGCG 58.217 40.000 13.09 7.17 32.65 4.73
171 172 6.373774 AGTTGACAAGTACTAGTAGTATGCGT 59.626 38.462 13.09 9.98 32.65 5.24
172 173 6.115450 TGACAAGTACTAGTAGTATGCGTG 57.885 41.667 13.09 11.47 32.65 5.34
173 174 5.876460 TGACAAGTACTAGTAGTATGCGTGA 59.124 40.000 13.09 2.88 32.65 4.35
174 175 6.541278 TGACAAGTACTAGTAGTATGCGTGAT 59.459 38.462 13.09 2.39 32.65 3.06
187 188 5.997746 AGTATGCGTGATAATTAATGCCAGT 59.002 36.000 0.00 0.00 0.00 4.00
191 192 5.147162 GCGTGATAATTAATGCCAGTAAGC 58.853 41.667 0.00 0.00 0.00 3.09
212 213 3.310501 GCAACAAGCTGCATTTTTCAACT 59.689 39.130 1.02 0.00 42.17 3.16
218 219 3.575256 AGCTGCATTTTTCAACTCCATCA 59.425 39.130 1.02 0.00 0.00 3.07
240 241 5.700373 TCAATTTGCTGGTTAATTTGCTTCC 59.300 36.000 0.00 0.00 0.00 3.46
254 255 1.031571 GCTTCCAATCCATGCCGTCA 61.032 55.000 0.00 0.00 0.00 4.35
256 257 0.679640 TTCCAATCCATGCCGTCACC 60.680 55.000 0.00 0.00 0.00 4.02
257 258 1.077501 CCAATCCATGCCGTCACCT 60.078 57.895 0.00 0.00 0.00 4.00
258 259 1.097547 CCAATCCATGCCGTCACCTC 61.098 60.000 0.00 0.00 0.00 3.85
259 260 1.153369 AATCCATGCCGTCACCTCG 60.153 57.895 0.00 0.00 0.00 4.63
261 262 1.040893 ATCCATGCCGTCACCTCGTA 61.041 55.000 0.00 0.00 0.00 3.43
264 265 0.108804 CATGCCGTCACCTCGTAGTT 60.109 55.000 0.00 0.00 0.00 2.24
265 266 0.172803 ATGCCGTCACCTCGTAGTTC 59.827 55.000 0.00 0.00 0.00 3.01
266 267 1.174078 TGCCGTCACCTCGTAGTTCA 61.174 55.000 0.00 0.00 0.00 3.18
267 268 0.172803 GCCGTCACCTCGTAGTTCAT 59.827 55.000 0.00 0.00 0.00 2.57
268 269 1.798079 GCCGTCACCTCGTAGTTCATC 60.798 57.143 0.00 0.00 0.00 2.92
269 270 1.531264 CCGTCACCTCGTAGTTCATCG 60.531 57.143 0.00 0.00 0.00 3.84
270 271 1.395954 CGTCACCTCGTAGTTCATCGA 59.604 52.381 0.00 0.00 34.88 3.59
271 272 2.031807 CGTCACCTCGTAGTTCATCGAT 59.968 50.000 0.00 0.00 35.57 3.59
272 273 3.487042 CGTCACCTCGTAGTTCATCGATT 60.487 47.826 0.00 0.00 35.57 3.34
273 274 3.791887 GTCACCTCGTAGTTCATCGATTG 59.208 47.826 0.00 0.00 35.57 2.67
274 275 2.535984 CACCTCGTAGTTCATCGATTGC 59.464 50.000 0.00 0.00 35.57 3.56
275 276 2.165641 ACCTCGTAGTTCATCGATTGCA 59.834 45.455 0.00 0.00 35.57 4.08
276 277 2.535984 CCTCGTAGTTCATCGATTGCAC 59.464 50.000 0.00 0.00 35.57 4.57
277 278 2.535984 CTCGTAGTTCATCGATTGCACC 59.464 50.000 0.00 0.00 35.57 5.01
278 279 2.165641 TCGTAGTTCATCGATTGCACCT 59.834 45.455 0.00 0.00 0.00 4.00
279 280 2.535984 CGTAGTTCATCGATTGCACCTC 59.464 50.000 0.00 0.00 0.00 3.85
280 281 1.645034 AGTTCATCGATTGCACCTCG 58.355 50.000 10.80 10.80 37.47 4.63
281 282 1.066858 AGTTCATCGATTGCACCTCGT 60.067 47.619 15.29 3.42 37.40 4.18
282 283 1.061131 GTTCATCGATTGCACCTCGTG 59.939 52.381 15.29 12.91 37.40 4.35
283 284 0.246360 TCATCGATTGCACCTCGTGT 59.754 50.000 15.29 5.57 37.40 4.49
284 285 1.474879 TCATCGATTGCACCTCGTGTA 59.525 47.619 15.29 0.25 37.40 2.90
285 286 2.100749 TCATCGATTGCACCTCGTGTAT 59.899 45.455 15.29 2.34 37.40 2.29
286 287 1.921243 TCGATTGCACCTCGTGTATG 58.079 50.000 15.29 0.00 37.40 2.39
287 288 1.203758 TCGATTGCACCTCGTGTATGT 59.796 47.619 15.29 0.00 37.40 2.29
288 289 2.424246 TCGATTGCACCTCGTGTATGTA 59.576 45.455 15.29 0.00 37.40 2.29
289 290 2.534349 CGATTGCACCTCGTGTATGTAC 59.466 50.000 9.20 0.00 35.75 2.90
290 291 3.733988 CGATTGCACCTCGTGTATGTACT 60.734 47.826 9.20 0.00 35.75 2.73
291 292 3.671008 TTGCACCTCGTGTATGTACTT 57.329 42.857 0.00 0.00 35.75 2.24
292 293 3.226346 TGCACCTCGTGTATGTACTTC 57.774 47.619 0.00 0.00 35.75 3.01
293 294 2.094390 TGCACCTCGTGTATGTACTTCC 60.094 50.000 0.00 0.00 35.75 3.46
294 295 2.165845 GCACCTCGTGTATGTACTTCCT 59.834 50.000 0.00 0.00 35.75 3.36
295 296 3.734293 GCACCTCGTGTATGTACTTCCTC 60.734 52.174 0.00 0.00 35.75 3.71
296 297 3.695060 CACCTCGTGTATGTACTTCCTCT 59.305 47.826 0.00 0.00 0.00 3.69
297 298 4.880120 CACCTCGTGTATGTACTTCCTCTA 59.120 45.833 0.00 0.00 0.00 2.43
298 299 5.531659 CACCTCGTGTATGTACTTCCTCTAT 59.468 44.000 0.00 0.00 0.00 1.98
299 300 6.039493 CACCTCGTGTATGTACTTCCTCTATT 59.961 42.308 0.00 0.00 0.00 1.73
300 301 6.606395 ACCTCGTGTATGTACTTCCTCTATTT 59.394 38.462 0.00 0.00 0.00 1.40
301 302 7.123847 ACCTCGTGTATGTACTTCCTCTATTTT 59.876 37.037 0.00 0.00 0.00 1.82
302 303 7.435488 CCTCGTGTATGTACTTCCTCTATTTTG 59.565 40.741 0.00 0.00 0.00 2.44
303 304 7.833786 TCGTGTATGTACTTCCTCTATTTTGT 58.166 34.615 0.00 0.00 0.00 2.83
304 305 8.308931 TCGTGTATGTACTTCCTCTATTTTGTT 58.691 33.333 0.00 0.00 0.00 2.83
305 306 8.932791 CGTGTATGTACTTCCTCTATTTTGTTT 58.067 33.333 0.00 0.00 0.00 2.83
311 312 9.706691 TGTACTTCCTCTATTTTGTTTAGTCTG 57.293 33.333 0.00 0.00 0.00 3.51
312 313 7.674471 ACTTCCTCTATTTTGTTTAGTCTGC 57.326 36.000 0.00 0.00 0.00 4.26
313 314 7.224297 ACTTCCTCTATTTTGTTTAGTCTGCA 58.776 34.615 0.00 0.00 0.00 4.41
314 315 7.885399 ACTTCCTCTATTTTGTTTAGTCTGCAT 59.115 33.333 0.00 0.00 0.00 3.96
315 316 9.383519 CTTCCTCTATTTTGTTTAGTCTGCATA 57.616 33.333 0.00 0.00 0.00 3.14
316 317 9.905713 TTCCTCTATTTTGTTTAGTCTGCATAT 57.094 29.630 0.00 0.00 0.00 1.78
474 475 8.782533 AAGCTAGTCAAAATTTACAAAGTTCG 57.217 30.769 0.00 0.00 0.00 3.95
475 476 8.149973 AGCTAGTCAAAATTTACAAAGTTCGA 57.850 30.769 0.00 0.00 0.00 3.71
476 477 8.068380 AGCTAGTCAAAATTTACAAAGTTCGAC 58.932 33.333 0.00 0.00 0.00 4.20
477 478 8.068380 GCTAGTCAAAATTTACAAAGTTCGACT 58.932 33.333 11.71 11.71 34.58 4.18
478 479 9.931210 CTAGTCAAAATTTACAAAGTTCGACTT 57.069 29.630 12.12 0.00 40.80 3.01
495 496 9.840427 AGTTCGACTTTGACCAAATTTTATATG 57.160 29.630 0.00 0.00 0.00 1.78
496 497 8.583765 GTTCGACTTTGACCAAATTTTATATGC 58.416 33.333 0.00 0.00 0.00 3.14
497 498 7.821652 TCGACTTTGACCAAATTTTATATGCA 58.178 30.769 0.00 0.00 0.00 3.96
498 499 8.300286 TCGACTTTGACCAAATTTTATATGCAA 58.700 29.630 0.00 0.00 0.00 4.08
499 500 8.920665 CGACTTTGACCAAATTTTATATGCAAA 58.079 29.630 0.00 0.00 0.00 3.68
501 502 9.777297 ACTTTGACCAAATTTTATATGCAAACT 57.223 25.926 0.00 0.00 0.00 2.66
529 530 9.955102 AAAAGAAACGAAGGGAGTATTAGTTAT 57.045 29.630 0.00 0.00 0.00 1.89
552 553 2.564062 CCCAGCTGTCCATGTTCATTTT 59.436 45.455 13.81 0.00 0.00 1.82
603 604 0.883833 CACATGAGCTGGGTTTCACC 59.116 55.000 0.00 0.00 37.60 4.02
632 636 7.049754 AGTTTCAGAAAAATTTCAGCACCAAT 58.950 30.769 8.47 0.00 39.61 3.16
659 663 5.567138 ATCACCGAAATTCAGTGATTTCC 57.433 39.130 16.62 0.00 46.42 3.13
660 664 4.393834 TCACCGAAATTCAGTGATTTCCA 58.606 39.130 7.87 0.00 41.02 3.53
662 666 8.267036 ATCACCGAAATTCAGTGATTTCCACG 62.267 42.308 16.62 13.66 46.42 4.94
686 690 6.183359 CGAACGCTTGAATTCAGTTAAATGTG 60.183 38.462 8.41 4.17 0.00 3.21
692 696 8.816144 GCTTGAATTCAGTTAAATGTGTGAAAA 58.184 29.630 8.41 0.00 32.85 2.29
870 874 1.440353 GCTAACGCGGCAACTTGTG 60.440 57.895 12.47 0.00 0.00 3.33
1059 1064 1.211703 ACGTAATCCATCCACCATGCA 59.788 47.619 0.00 0.00 0.00 3.96
1078 1083 0.677288 AATGCATCCATCGCCATTGG 59.323 50.000 0.00 0.00 35.45 3.16
1842 1854 8.964476 ACTGATAATTCCATCTGTTAACGAAT 57.036 30.769 0.26 0.85 34.53 3.34
1845 1857 4.900635 ATTCCATCTGTTAACGAATGGC 57.099 40.909 24.24 0.00 0.00 4.40
1850 1862 4.414852 CATCTGTTAACGAATGGCCTTTG 58.585 43.478 8.91 4.72 0.00 2.77
1853 1865 4.155826 TCTGTTAACGAATGGCCTTTGATG 59.844 41.667 8.91 1.26 0.00 3.07
1857 1869 6.375736 TGTTAACGAATGGCCTTTGATGATTA 59.624 34.615 8.91 0.00 0.00 1.75
1858 1870 5.913137 AACGAATGGCCTTTGATGATTAA 57.087 34.783 8.91 0.00 0.00 1.40
1859 1871 6.469782 AACGAATGGCCTTTGATGATTAAT 57.530 33.333 8.91 0.00 0.00 1.40
1861 1873 6.877236 ACGAATGGCCTTTGATGATTAATTT 58.123 32.000 8.91 0.00 0.00 1.82
1862 1874 6.980397 ACGAATGGCCTTTGATGATTAATTTC 59.020 34.615 8.91 0.00 0.00 2.17
1863 1875 7.147846 ACGAATGGCCTTTGATGATTAATTTCT 60.148 33.333 8.91 0.00 0.00 2.52
1864 1876 7.707893 CGAATGGCCTTTGATGATTAATTTCTT 59.292 33.333 8.91 0.00 0.00 2.52
1865 1877 8.726870 AATGGCCTTTGATGATTAATTTCTTG 57.273 30.769 3.32 0.00 0.00 3.02
1883 1895 6.861065 TTCTTGATTTCTTTGTTCGCTAGT 57.139 33.333 0.00 0.00 0.00 2.57
1895 1907 5.151632 TGTTCGCTAGTCAGTTTTGTTTC 57.848 39.130 0.00 0.00 0.00 2.78
1900 1912 4.212150 GCTAGTCAGTTTTGTTTCGCTTC 58.788 43.478 0.00 0.00 0.00 3.86
1911 1924 4.875544 TGTTTCGCTTCATATACTTGCC 57.124 40.909 0.00 0.00 0.00 4.52
1935 1975 3.093814 TGAATTACTAGGTCACTGCCGA 58.906 45.455 0.00 0.00 0.00 5.54
1974 2014 9.570488 GTATTCTTGTGTACTTTGTCTAGTAGG 57.430 37.037 0.00 0.00 31.56 3.18
1976 2016 7.450124 TCTTGTGTACTTTGTCTAGTAGGAG 57.550 40.000 0.00 0.00 31.56 3.69
2071 2114 4.142534 GCAATCACAGACTGTTGCATACAT 60.143 41.667 20.73 0.24 44.63 2.29
2110 2153 3.606687 CAAGGTGTACAGGTGTAATCCC 58.393 50.000 0.00 0.00 31.52 3.85
2114 2157 2.494870 GTGTACAGGTGTAATCCCGAGT 59.505 50.000 0.00 0.00 31.52 4.18
2115 2158 3.696051 GTGTACAGGTGTAATCCCGAGTA 59.304 47.826 0.00 0.00 31.52 2.59
2201 2247 7.482169 AAAGGGAGGAAAATAAAACATCTCC 57.518 36.000 0.00 0.00 38.74 3.71
2217 2263 9.678260 AAAACATCTCCTATCATCCTATTATGC 57.322 33.333 0.00 0.00 0.00 3.14
2235 2281 4.856801 ATGCACCATCGTCGGCCC 62.857 66.667 0.00 0.00 0.00 5.80
2270 2318 0.396417 TCTAGACAGCTCCCTGCCTC 60.396 60.000 0.00 0.00 43.02 4.70
2292 2357 2.290134 ACACATGAGCAGCACTGATCTT 60.290 45.455 16.11 7.84 45.45 2.40
2296 2361 3.345508 TGAGCAGCACTGATCTTGAAT 57.654 42.857 16.11 0.00 45.45 2.57
2297 2362 3.268330 TGAGCAGCACTGATCTTGAATC 58.732 45.455 16.11 0.00 45.45 2.52
2321 2386 3.762779 CAGGATTGCATTTTTCGAGACC 58.237 45.455 0.00 0.00 0.00 3.85
2331 2396 5.414360 CATTTTTCGAGACCAGAGATGAGA 58.586 41.667 0.00 0.00 0.00 3.27
2337 2402 4.277921 TCGAGACCAGAGATGAGATTGATG 59.722 45.833 0.00 0.00 0.00 3.07
2340 2405 4.344679 AGACCAGAGATGAGATTGATGGAC 59.655 45.833 0.00 0.00 0.00 4.02
2342 2407 3.058450 CAGAGATGAGATTGATGGACGC 58.942 50.000 0.00 0.00 0.00 5.19
2346 2411 2.696989 TGAGATTGATGGACGCATGT 57.303 45.000 0.00 0.00 0.00 3.21
2355 2420 5.017294 TGATGGACGCATGTATTCTTACA 57.983 39.130 0.00 0.00 42.35 2.41
2357 2422 3.194861 TGGACGCATGTATTCTTACAGC 58.805 45.455 0.00 0.00 41.49 4.40
2362 2427 2.866156 GCATGTATTCTTACAGCGAGCA 59.134 45.455 0.00 0.00 41.49 4.26
2378 2443 1.266718 GAGCAAAACAATCCGAGTGCA 59.733 47.619 0.00 0.00 34.44 4.57
2380 2445 1.001378 GCAAAACAATCCGAGTGCACT 60.001 47.619 21.88 21.88 32.29 4.40
2381 2446 2.918131 GCAAAACAATCCGAGTGCACTC 60.918 50.000 32.73 32.73 39.55 3.51
2385 2450 1.552337 ACAATCCGAGTGCACTCATCT 59.448 47.619 38.31 22.75 43.00 2.90
2386 2451 1.931841 CAATCCGAGTGCACTCATCTG 59.068 52.381 38.31 26.56 43.00 2.90
2387 2452 0.179089 ATCCGAGTGCACTCATCTGC 60.179 55.000 38.31 17.64 43.00 4.26
2388 2453 1.079612 CCGAGTGCACTCATCTGCA 60.080 57.895 38.31 0.00 45.06 4.41
2497 2570 4.003648 AGTCCAGCAATACTTACACAAGC 58.996 43.478 0.00 0.00 34.94 4.01
2506 2579 0.716108 CTTACACAAGCGAGAAGGCG 59.284 55.000 0.00 0.00 38.18 5.52
2536 2610 3.085443 CGTAAGGATGCATCTTCGACT 57.915 47.619 25.28 11.28 0.00 4.18
2537 2611 3.046390 CGTAAGGATGCATCTTCGACTC 58.954 50.000 25.28 7.64 0.00 3.36
2538 2612 3.243234 CGTAAGGATGCATCTTCGACTCT 60.243 47.826 25.28 9.85 0.00 3.24
2539 2613 3.902881 AAGGATGCATCTTCGACTCTT 57.097 42.857 25.28 14.99 0.00 2.85
2540 2614 3.451141 AGGATGCATCTTCGACTCTTC 57.549 47.619 25.28 5.48 0.00 2.87
2541 2615 2.762887 AGGATGCATCTTCGACTCTTCA 59.237 45.455 25.28 0.00 0.00 3.02
2542 2616 3.387374 AGGATGCATCTTCGACTCTTCAT 59.613 43.478 25.28 0.00 0.00 2.57
2543 2617 3.493877 GGATGCATCTTCGACTCTTCATG 59.506 47.826 25.28 0.00 0.00 3.07
2544 2618 3.874392 TGCATCTTCGACTCTTCATGA 57.126 42.857 0.00 0.00 0.00 3.07
2569 2643 1.498865 AAACTGACGCGTGAAGGCAG 61.499 55.000 20.70 20.05 0.00 4.85
2625 2703 3.542712 TCAAGCAAGCTTTCGAATGTC 57.457 42.857 4.24 5.41 33.42 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 7.364149 TGTAAGTAACAGTAACAGAAAGGGA 57.636 36.000 0.00 0.00 33.01 4.20
2 3 7.876068 TCATGTAAGTAACAGTAACAGAAAGGG 59.124 37.037 0.00 0.00 42.70 3.95
3 4 8.827177 TCATGTAAGTAACAGTAACAGAAAGG 57.173 34.615 0.00 0.00 42.70 3.11
15 16 9.898152 TCCATTGACATTATCATGTAAGTAACA 57.102 29.630 0.00 0.00 44.22 2.41
76 77 1.732259 CCATAGCACAAGACAACGACC 59.268 52.381 0.00 0.00 0.00 4.79
89 90 5.656859 CACACCTATACTATAGGCCATAGCA 59.343 44.000 18.74 1.48 40.42 3.49
90 91 5.657302 ACACACCTATACTATAGGCCATAGC 59.343 44.000 18.74 0.00 40.42 2.97
102 103 6.212791 ACCAGAATTGTACACACACCTATACT 59.787 38.462 0.00 0.00 33.30 2.12
103 104 6.403878 ACCAGAATTGTACACACACCTATAC 58.596 40.000 0.00 0.00 33.30 1.47
104 105 6.211785 TGACCAGAATTGTACACACACCTATA 59.788 38.462 0.00 0.00 33.30 1.31
105 106 5.012664 TGACCAGAATTGTACACACACCTAT 59.987 40.000 0.00 0.00 33.30 2.57
106 107 4.345547 TGACCAGAATTGTACACACACCTA 59.654 41.667 0.00 0.00 33.30 3.08
107 108 3.135712 TGACCAGAATTGTACACACACCT 59.864 43.478 0.00 0.00 33.30 4.00
133 134 5.596763 ACTTGTCAACTATAGGTAAGGGGA 58.403 41.667 4.43 0.00 0.00 4.81
134 135 5.952347 ACTTGTCAACTATAGGTAAGGGG 57.048 43.478 4.43 0.00 0.00 4.79
135 136 7.657023 AGTACTTGTCAACTATAGGTAAGGG 57.343 40.000 4.43 0.00 0.00 3.95
136 137 9.406113 ACTAGTACTTGTCAACTATAGGTAAGG 57.594 37.037 0.00 0.00 0.00 2.69
158 159 8.808529 GGCATTAATTATCACGCATACTACTAG 58.191 37.037 0.00 0.00 0.00 2.57
161 162 7.117812 ACTGGCATTAATTATCACGCATACTAC 59.882 37.037 0.00 0.00 0.00 2.73
162 163 7.158697 ACTGGCATTAATTATCACGCATACTA 58.841 34.615 0.00 0.00 0.00 1.82
163 164 5.997746 ACTGGCATTAATTATCACGCATACT 59.002 36.000 0.00 0.00 0.00 2.12
166 167 6.568462 GCTTACTGGCATTAATTATCACGCAT 60.568 38.462 0.00 0.00 0.00 4.73
167 168 5.277779 GCTTACTGGCATTAATTATCACGCA 60.278 40.000 0.00 0.00 0.00 5.24
168 169 5.147162 GCTTACTGGCATTAATTATCACGC 58.853 41.667 0.00 0.00 0.00 5.34
169 170 6.299023 TGCTTACTGGCATTAATTATCACG 57.701 37.500 0.00 0.00 37.29 4.35
170 171 7.479980 TGTTGCTTACTGGCATTAATTATCAC 58.520 34.615 0.00 0.00 42.09 3.06
171 172 7.637631 TGTTGCTTACTGGCATTAATTATCA 57.362 32.000 0.00 0.00 42.09 2.15
172 173 7.168135 GCTTGTTGCTTACTGGCATTAATTATC 59.832 37.037 0.00 0.00 42.09 1.75
173 174 6.980397 GCTTGTTGCTTACTGGCATTAATTAT 59.020 34.615 0.00 0.00 42.09 1.28
174 175 6.329496 GCTTGTTGCTTACTGGCATTAATTA 58.671 36.000 0.00 0.00 42.09 1.40
191 192 4.025480 GGAGTTGAAAAATGCAGCTTGTTG 60.025 41.667 0.00 0.00 30.68 3.33
218 219 5.619220 TGGAAGCAAATTAACCAGCAAATT 58.381 33.333 0.00 0.00 0.00 1.82
240 241 1.431488 CGAGGTGACGGCATGGATTG 61.431 60.000 0.00 0.00 0.00 2.67
254 255 2.165641 TGCAATCGATGAACTACGAGGT 59.834 45.455 0.00 0.00 41.63 3.85
256 257 2.535984 GGTGCAATCGATGAACTACGAG 59.464 50.000 0.00 0.00 41.63 4.18
257 258 2.165641 AGGTGCAATCGATGAACTACGA 59.834 45.455 0.00 0.00 37.76 3.43
258 259 2.535984 GAGGTGCAATCGATGAACTACG 59.464 50.000 0.00 0.00 37.76 3.51
259 260 2.535984 CGAGGTGCAATCGATGAACTAC 59.464 50.000 15.55 0.00 42.76 2.73
261 262 1.066858 ACGAGGTGCAATCGATGAACT 60.067 47.619 24.59 0.00 42.76 3.01
264 265 0.246360 ACACGAGGTGCAATCGATGA 59.754 50.000 24.59 0.00 42.76 2.92
265 266 1.921243 TACACGAGGTGCAATCGATG 58.079 50.000 24.59 19.82 42.76 3.84
266 267 2.159099 ACATACACGAGGTGCAATCGAT 60.159 45.455 24.59 15.75 42.76 3.59
267 268 1.203758 ACATACACGAGGTGCAATCGA 59.796 47.619 24.59 7.14 42.76 3.59
268 269 1.640428 ACATACACGAGGTGCAATCG 58.360 50.000 18.20 18.20 45.54 3.34
269 270 3.782046 AGTACATACACGAGGTGCAATC 58.218 45.455 0.00 0.00 36.98 2.67
270 271 3.887621 AGTACATACACGAGGTGCAAT 57.112 42.857 0.00 0.00 36.98 3.56
271 272 3.581755 GAAGTACATACACGAGGTGCAA 58.418 45.455 0.00 0.00 36.98 4.08
272 273 2.094390 GGAAGTACATACACGAGGTGCA 60.094 50.000 0.00 0.00 36.98 4.57
273 274 2.165845 AGGAAGTACATACACGAGGTGC 59.834 50.000 0.00 0.00 36.98 5.01
274 275 3.695060 AGAGGAAGTACATACACGAGGTG 59.305 47.826 0.00 0.00 39.75 4.00
275 276 3.965694 AGAGGAAGTACATACACGAGGT 58.034 45.455 0.00 0.00 0.00 3.85
276 277 6.636562 AATAGAGGAAGTACATACACGAGG 57.363 41.667 0.00 0.00 0.00 4.63
277 278 7.974501 ACAAAATAGAGGAAGTACATACACGAG 59.025 37.037 0.00 0.00 0.00 4.18
278 279 7.833786 ACAAAATAGAGGAAGTACATACACGA 58.166 34.615 0.00 0.00 0.00 4.35
279 280 8.475331 AACAAAATAGAGGAAGTACATACACG 57.525 34.615 0.00 0.00 0.00 4.49
285 286 9.706691 CAGACTAAACAAAATAGAGGAAGTACA 57.293 33.333 0.00 0.00 0.00 2.90
286 287 8.657729 GCAGACTAAACAAAATAGAGGAAGTAC 58.342 37.037 0.00 0.00 0.00 2.73
287 288 8.372459 TGCAGACTAAACAAAATAGAGGAAGTA 58.628 33.333 0.00 0.00 0.00 2.24
288 289 7.224297 TGCAGACTAAACAAAATAGAGGAAGT 58.776 34.615 0.00 0.00 0.00 3.01
289 290 7.672983 TGCAGACTAAACAAAATAGAGGAAG 57.327 36.000 0.00 0.00 0.00 3.46
290 291 9.905713 ATATGCAGACTAAACAAAATAGAGGAA 57.094 29.630 0.00 0.00 0.00 3.36
448 449 9.233232 CGAACTTTGTAAATTTTGACTAGCTTT 57.767 29.630 0.00 0.00 0.00 3.51
449 450 8.617809 TCGAACTTTGTAAATTTTGACTAGCTT 58.382 29.630 0.00 0.00 0.00 3.74
450 451 8.068380 GTCGAACTTTGTAAATTTTGACTAGCT 58.932 33.333 15.22 0.00 38.20 3.32
451 452 8.068380 AGTCGAACTTTGTAAATTTTGACTAGC 58.932 33.333 20.10 3.40 44.11 3.42
452 453 9.931210 AAGTCGAACTTTGTAAATTTTGACTAG 57.069 29.630 21.04 0.00 44.65 2.57
469 470 9.840427 CATATAAAATTTGGTCAAAGTCGAACT 57.160 29.630 0.00 0.00 33.32 3.01
470 471 8.583765 GCATATAAAATTTGGTCAAAGTCGAAC 58.416 33.333 0.00 0.00 33.32 3.95
471 472 8.300286 TGCATATAAAATTTGGTCAAAGTCGAA 58.700 29.630 0.00 0.00 33.32 3.71
472 473 7.821652 TGCATATAAAATTTGGTCAAAGTCGA 58.178 30.769 0.00 0.00 33.32 4.20
473 474 8.459521 TTGCATATAAAATTTGGTCAAAGTCG 57.540 30.769 0.00 0.00 33.32 4.18
475 476 9.777297 AGTTTGCATATAAAATTTGGTCAAAGT 57.223 25.926 0.00 0.00 33.32 2.66
490 491 9.834628 CCTTCGTTTCTTTTTAGTTTGCATATA 57.165 29.630 0.00 0.00 0.00 0.86
491 492 7.812669 CCCTTCGTTTCTTTTTAGTTTGCATAT 59.187 33.333 0.00 0.00 0.00 1.78
492 493 7.013464 TCCCTTCGTTTCTTTTTAGTTTGCATA 59.987 33.333 0.00 0.00 0.00 3.14
493 494 5.983118 CCCTTCGTTTCTTTTTAGTTTGCAT 59.017 36.000 0.00 0.00 0.00 3.96
494 495 5.125739 TCCCTTCGTTTCTTTTTAGTTTGCA 59.874 36.000 0.00 0.00 0.00 4.08
495 496 5.584442 TCCCTTCGTTTCTTTTTAGTTTGC 58.416 37.500 0.00 0.00 0.00 3.68
496 497 6.792326 ACTCCCTTCGTTTCTTTTTAGTTTG 58.208 36.000 0.00 0.00 0.00 2.93
497 498 8.687292 ATACTCCCTTCGTTTCTTTTTAGTTT 57.313 30.769 0.00 0.00 0.00 2.66
498 499 8.687292 AATACTCCCTTCGTTTCTTTTTAGTT 57.313 30.769 0.00 0.00 0.00 2.24
499 500 9.433153 CTAATACTCCCTTCGTTTCTTTTTAGT 57.567 33.333 0.00 0.00 0.00 2.24
500 501 9.433153 ACTAATACTCCCTTCGTTTCTTTTTAG 57.567 33.333 0.00 0.00 0.00 1.85
501 502 9.783081 AACTAATACTCCCTTCGTTTCTTTTTA 57.217 29.630 0.00 0.00 0.00 1.52
502 503 8.687292 AACTAATACTCCCTTCGTTTCTTTTT 57.313 30.769 0.00 0.00 0.00 1.94
503 504 9.955102 ATAACTAATACTCCCTTCGTTTCTTTT 57.045 29.630 0.00 0.00 0.00 2.27
504 505 9.955102 AATAACTAATACTCCCTTCGTTTCTTT 57.045 29.630 0.00 0.00 0.00 2.52
505 506 9.597170 GAATAACTAATACTCCCTTCGTTTCTT 57.403 33.333 0.00 0.00 0.00 2.52
506 507 8.202811 GGAATAACTAATACTCCCTTCGTTTCT 58.797 37.037 0.00 0.00 0.00 2.52
507 508 7.440556 GGGAATAACTAATACTCCCTTCGTTTC 59.559 40.741 0.00 0.00 42.25 2.78
508 509 7.092757 TGGGAATAACTAATACTCCCTTCGTTT 60.093 37.037 6.97 0.00 45.25 3.60
509 510 6.384886 TGGGAATAACTAATACTCCCTTCGTT 59.615 38.462 6.97 0.00 45.25 3.85
510 511 5.901276 TGGGAATAACTAATACTCCCTTCGT 59.099 40.000 6.97 0.00 45.25 3.85
511 512 6.415206 TGGGAATAACTAATACTCCCTTCG 57.585 41.667 6.97 0.00 45.25 3.79
512 513 6.043358 AGCTGGGAATAACTAATACTCCCTTC 59.957 42.308 6.97 0.00 45.25 3.46
513 514 5.911766 AGCTGGGAATAACTAATACTCCCTT 59.088 40.000 6.97 0.00 45.25 3.95
529 530 0.770499 TGAACATGGACAGCTGGGAA 59.230 50.000 19.93 2.49 0.00 3.97
552 553 1.451504 CCAGAGAGCACACAACCCA 59.548 57.895 0.00 0.00 0.00 4.51
603 604 8.542953 GGTGCTGAAATTTTTCTGAAACTAAAG 58.457 33.333 12.42 0.00 38.07 1.85
658 662 1.531149 ACTGAATTCAAGCGTTCGTGG 59.469 47.619 9.88 0.00 0.00 4.94
659 663 2.949714 ACTGAATTCAAGCGTTCGTG 57.050 45.000 9.88 0.00 0.00 4.35
660 664 5.412526 TTTAACTGAATTCAAGCGTTCGT 57.587 34.783 13.15 2.27 0.00 3.85
662 666 6.636850 ACACATTTAACTGAATTCAAGCGTTC 59.363 34.615 13.15 0.00 0.00 3.95
715 719 7.905604 TTTCAGTAGTACACATGGATTCAAG 57.094 36.000 2.52 0.00 0.00 3.02
722 726 5.643348 TCAGCAATTTCAGTAGTACACATGG 59.357 40.000 2.52 0.00 0.00 3.66
734 738 6.254157 CGACCCAAATATTTCAGCAATTTCAG 59.746 38.462 0.00 0.00 0.00 3.02
812 816 8.887036 AGGTTTTCAATTTCAGTGAAATTACC 57.113 30.769 31.73 31.73 46.37 2.85
814 818 9.528018 GTGAGGTTTTCAATTTCAGTGAAATTA 57.472 29.630 32.90 21.29 46.37 1.40
880 884 0.391130 TCCGACTGCACTTGCCATAC 60.391 55.000 0.00 0.00 41.18 2.39
882 886 1.376424 CTCCGACTGCACTTGCCAT 60.376 57.895 0.00 0.00 41.18 4.40
883 887 2.031012 CTCCGACTGCACTTGCCA 59.969 61.111 0.00 0.00 41.18 4.92
884 888 2.743928 CCTCCGACTGCACTTGCC 60.744 66.667 0.00 0.00 41.18 4.52
885 889 2.031163 ACCTCCGACTGCACTTGC 59.969 61.111 0.00 0.00 42.50 4.01
999 1003 3.023116 AGGCTGCCCTTGGGCATA 61.023 61.111 30.78 11.82 44.27 3.14
1059 1064 0.677288 CCAATGGCGATGGATGCATT 59.323 50.000 0.00 0.00 40.56 3.56
1237 1242 1.876799 CGGTAGATGATCTGCGTCTCT 59.123 52.381 4.96 0.00 41.89 3.10
1460 1465 2.357881 CGTGAGCAGCTCCAGCAA 60.358 61.111 20.16 0.00 45.16 3.91
1558 1563 2.038975 AGCCCGGTGAGCTTCCTA 59.961 61.111 0.00 0.00 37.24 2.94
1766 1772 0.319083 TACGGCGACCTTTGTGATGT 59.681 50.000 16.62 0.00 0.00 3.06
1769 1775 1.005867 GGTACGGCGACCTTTGTGA 60.006 57.895 16.62 0.00 36.47 3.58
1795 1801 4.473520 CGTCAGGCCGGCTTGGAT 62.474 66.667 34.94 10.53 42.00 3.41
1842 1854 7.479352 TCAAGAAATTAATCATCAAAGGCCA 57.521 32.000 5.01 0.00 0.00 5.36
1853 1865 9.943465 GCGAACAAAGAAATCAAGAAATTAATC 57.057 29.630 0.00 0.00 0.00 1.75
1857 1869 8.352942 ACTAGCGAACAAAGAAATCAAGAAATT 58.647 29.630 0.00 0.00 0.00 1.82
1858 1870 7.875971 ACTAGCGAACAAAGAAATCAAGAAAT 58.124 30.769 0.00 0.00 0.00 2.17
1859 1871 7.011950 TGACTAGCGAACAAAGAAATCAAGAAA 59.988 33.333 0.00 0.00 0.00 2.52
1861 1873 5.989168 TGACTAGCGAACAAAGAAATCAAGA 59.011 36.000 0.00 0.00 0.00 3.02
1862 1874 6.073548 ACTGACTAGCGAACAAAGAAATCAAG 60.074 38.462 0.00 0.00 0.00 3.02
1863 1875 5.758296 ACTGACTAGCGAACAAAGAAATCAA 59.242 36.000 0.00 0.00 0.00 2.57
1864 1876 5.297547 ACTGACTAGCGAACAAAGAAATCA 58.702 37.500 0.00 0.00 0.00 2.57
1865 1877 5.847670 ACTGACTAGCGAACAAAGAAATC 57.152 39.130 0.00 0.00 0.00 2.17
1877 1889 2.221055 AGCGAAACAAAACTGACTAGCG 59.779 45.455 0.00 0.00 0.00 4.26
1883 1895 7.667043 AGTATATGAAGCGAAACAAAACTGA 57.333 32.000 0.00 0.00 0.00 3.41
1895 1907 5.484173 TTCAAAGGCAAGTATATGAAGCG 57.516 39.130 0.00 0.00 0.00 4.68
1900 1912 9.561069 ACCTAGTAATTCAAAGGCAAGTATATG 57.439 33.333 0.00 0.00 31.98 1.78
1911 1924 4.330074 CGGCAGTGACCTAGTAATTCAAAG 59.670 45.833 0.00 0.00 0.00 2.77
1924 1937 1.507141 CCACAAGTTCGGCAGTGACC 61.507 60.000 0.00 0.00 33.99 4.02
1935 1975 5.127031 ACACAAGAATACAAAGCCACAAGTT 59.873 36.000 0.00 0.00 0.00 2.66
2025 2067 7.268586 TGCTTATAGACTGATGTTTCTTCTCC 58.731 38.462 0.00 0.00 0.00 3.71
2071 2114 5.183713 CACCTTGCTTCAGAAATCCATAACA 59.816 40.000 0.00 0.00 0.00 2.41
2180 2224 7.998964 TGATAGGAGATGTTTTATTTTCCTCCC 59.001 37.037 0.00 0.00 39.48 4.30
2201 2247 6.117488 TGGTGCATGCATAATAGGATGATAG 58.883 40.000 25.64 0.00 39.40 2.08
2217 2263 3.576356 GGCCGACGATGGTGCATG 61.576 66.667 0.00 0.00 0.00 4.06
2235 2281 4.139859 TCTAGACTCCTAGACAACCTCG 57.860 50.000 0.00 0.00 44.69 4.63
2258 2306 1.922369 ATGTGTGAGGCAGGGAGCT 60.922 57.895 0.00 0.00 44.79 4.09
2270 2318 1.397343 GATCAGTGCTGCTCATGTGTG 59.603 52.381 0.00 0.00 0.00 3.82
2279 2327 2.223294 GCTGATTCAAGATCAGTGCTGC 60.223 50.000 15.20 0.00 45.38 5.25
2282 2330 2.355132 CCTGCTGATTCAAGATCAGTGC 59.645 50.000 15.20 5.82 45.38 4.40
2314 2379 3.891049 TCAATCTCATCTCTGGTCTCGA 58.109 45.455 0.00 0.00 0.00 4.04
2318 2383 4.630111 GTCCATCAATCTCATCTCTGGTC 58.370 47.826 0.00 0.00 0.00 4.02
2320 2385 3.651206 CGTCCATCAATCTCATCTCTGG 58.349 50.000 0.00 0.00 0.00 3.86
2321 2386 3.058450 GCGTCCATCAATCTCATCTCTG 58.942 50.000 0.00 0.00 0.00 3.35
2331 2396 6.054941 TGTAAGAATACATGCGTCCATCAAT 58.945 36.000 0.00 0.00 37.11 2.57
2337 2402 2.218759 CGCTGTAAGAATACATGCGTCC 59.781 50.000 16.96 0.00 44.83 4.79
2342 2407 5.469373 TTTGCTCGCTGTAAGAATACATG 57.531 39.130 0.00 0.00 41.09 3.21
2346 2411 5.933187 TTGTTTTGCTCGCTGTAAGAATA 57.067 34.783 0.00 0.00 34.07 1.75
2355 2420 0.798776 CTCGGATTGTTTTGCTCGCT 59.201 50.000 0.00 0.00 0.00 4.93
2357 2422 1.725931 GCACTCGGATTGTTTTGCTCG 60.726 52.381 0.00 0.00 0.00 5.03
2358 2423 1.266718 TGCACTCGGATTGTTTTGCTC 59.733 47.619 0.00 0.00 0.00 4.26
2362 2427 2.571212 TGAGTGCACTCGGATTGTTTT 58.429 42.857 35.00 4.40 45.72 2.43
2378 2443 4.277672 GCATCCACATATTTGCAGATGAGT 59.722 41.667 15.60 2.34 37.65 3.41
2380 2445 4.208746 TGCATCCACATATTTGCAGATGA 58.791 39.130 15.60 0.00 39.98 2.92
2381 2446 4.577834 TGCATCCACATATTTGCAGATG 57.422 40.909 0.00 2.12 39.98 2.90
2385 2450 5.651576 TCTTACTTGCATCCACATATTTGCA 59.348 36.000 0.00 0.00 42.90 4.08
2386 2451 6.135290 TCTTACTTGCATCCACATATTTGC 57.865 37.500 0.00 0.00 35.67 3.68
2387 2452 7.933396 TGATCTTACTTGCATCCACATATTTG 58.067 34.615 0.00 0.00 0.00 2.32
2388 2453 7.776969 ACTGATCTTACTTGCATCCACATATTT 59.223 33.333 0.00 0.00 0.00 1.40
2497 2570 1.493311 GTGCTGAAACGCCTTCTCG 59.507 57.895 0.19 0.00 34.86 4.04
2506 2579 1.130561 GCATCCTTACGGTGCTGAAAC 59.869 52.381 5.83 0.00 35.66 2.78
2534 2608 3.062763 CAGTTTGAGCGTCATGAAGAGT 58.937 45.455 13.18 0.00 0.00 3.24
2535 2609 3.122613 GTCAGTTTGAGCGTCATGAAGAG 59.877 47.826 13.18 1.31 0.00 2.85
2536 2610 3.059884 GTCAGTTTGAGCGTCATGAAGA 58.940 45.455 13.18 0.00 0.00 2.87
2537 2611 2.159920 CGTCAGTTTGAGCGTCATGAAG 60.160 50.000 4.06 4.06 0.00 3.02
2538 2612 1.792367 CGTCAGTTTGAGCGTCATGAA 59.208 47.619 0.00 0.00 0.00 2.57
2539 2613 1.418373 CGTCAGTTTGAGCGTCATGA 58.582 50.000 0.00 0.00 0.00 3.07
2540 2614 0.179240 GCGTCAGTTTGAGCGTCATG 60.179 55.000 0.00 0.00 0.00 3.07
2541 2615 1.617755 CGCGTCAGTTTGAGCGTCAT 61.618 55.000 0.00 0.00 46.48 3.06
2542 2616 2.300066 CGCGTCAGTTTGAGCGTCA 61.300 57.895 0.00 0.00 46.48 4.35
2543 2617 2.465920 CGCGTCAGTTTGAGCGTC 59.534 61.111 0.00 0.00 46.48 5.19
2569 2643 7.050377 TGTGGAATTGAGAGAATTATGTCTCC 58.950 38.462 0.00 0.00 43.55 3.71


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

AutoCloner maintained by Alex Coulton.