Multiple sequence alignment - TraesCS2A01G144300

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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 TraesCS2A01G144300 chr2A 100.000 3144 0 0 1 3144 89123498 89120355 0.000000e+00 5806.0
1 TraesCS2A01G144300 chr2A 100.000 61 0 0 132 192 754190611 754190551 2.560000e-21 113.0
2 TraesCS2A01G144300 chr2A 98.413 63 1 0 129 191 103139511 103139573 9.220000e-21 111.0
3 TraesCS2A01G144300 chr2A 93.243 74 4 1 132 205 166858027 166857955 1.190000e-19 108.0
4 TraesCS2A01G144300 chr2A 85.294 68 10 0 645 712 11543788 11543855 1.560000e-08 71.3
5 TraesCS2A01G144300 chr2B 91.393 2463 125 32 737 3144 141990898 141988468 0.000000e+00 3293.0
6 TraesCS2A01G144300 chr2B 90.476 105 7 3 510 612 141993043 141992940 5.470000e-28 135.0
7 TraesCS2A01G144300 chr2B 88.182 110 5 1 1 110 141993646 141993545 1.180000e-24 124.0
8 TraesCS2A01G144300 chr2D 94.713 1097 44 10 2052 3144 89389375 89388289 0.000000e+00 1692.0
9 TraesCS2A01G144300 chr3A 85.062 241 32 4 1130 1368 681318748 681318510 3.130000e-60 243.0
10 TraesCS2A01G144300 chr3A 83.333 246 36 3 1127 1368 681396057 681396301 4.080000e-54 222.0
11 TraesCS2A01G144300 chr3A 74.247 598 100 30 1127 1676 681328815 681329406 5.320000e-48 202.0
12 TraesCS2A01G144300 chr3A 82.353 85 13 2 602 685 26112616 26112699 4.350000e-09 73.1
13 TraesCS2A01G144300 chr3D 84.167 240 32 5 1127 1363 544277951 544277715 8.770000e-56 228.0
14 TraesCS2A01G144300 chr3B 74.475 619 100 34 1127 1695 720183227 720182617 6.830000e-52 215.0
15 TraesCS2A01G144300 chr7A 82.427 239 40 2 1123 1360 709825072 709825309 1.140000e-49 207.0
16 TraesCS2A01G144300 chr7A 87.952 83 8 2 132 214 256013760 256013680 2.580000e-16 97.1
17 TraesCS2A01G144300 chr1B 82.231 242 34 8 1132 1367 349547302 349547064 1.910000e-47 200.0
18 TraesCS2A01G144300 chr1A 80.992 242 37 8 1132 1367 337658531 337658293 1.930000e-42 183.0
19 TraesCS2A01G144300 chr1A 98.387 62 1 0 130 191 104839294 104839233 3.320000e-20 110.0
20 TraesCS2A01G144300 chr5A 90.805 87 6 2 109 194 104154709 104154624 7.130000e-22 115.0
21 TraesCS2A01G144300 chr5A 98.387 62 1 0 130 191 139513984 139514045 3.320000e-20 110.0
22 TraesCS2A01G144300 chrUn 98.413 63 1 0 132 194 88590179 88590241 9.220000e-21 111.0
23 TraesCS2A01G144300 chr6A 89.610 77 8 0 132 208 158074197 158074273 7.180000e-17 99.0


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 TraesCS2A01G144300 chr2A 89120355 89123498 3143 True 5806 5806 100.000 1 3144 1 chr2A.!!$R1 3143
1 TraesCS2A01G144300 chr2B 141988468 141993646 5178 True 1184 3293 90.017 1 3144 3 chr2B.!!$R1 3143
2 TraesCS2A01G144300 chr2D 89388289 89389375 1086 True 1692 1692 94.713 2052 3144 1 chr2D.!!$R1 1092
3 TraesCS2A01G144300 chr3A 681328815 681329406 591 False 202 202 74.247 1127 1676 1 chr3A.!!$F2 549
4 TraesCS2A01G144300 chr3B 720182617 720183227 610 True 215 215 74.475 1127 1695 1 chr3B.!!$R1 568

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
980 3109 0.037303 CCTGGCTCACAAGGTGATGT 59.963 55.0 0.0 0.0 41.94 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2178 4386 0.379669 CAGAGGCATCGGCAATGTTC 59.62 55.0 0.0 0.44 43.71 3.18 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
30 31 3.056628 CAGGATCTGCGTTGGAGTC 57.943 57.895 0.00 0.00 0.00 3.36
31 32 0.534412 CAGGATCTGCGTTGGAGTCT 59.466 55.000 0.00 0.00 0.00 3.24
32 33 1.066573 CAGGATCTGCGTTGGAGTCTT 60.067 52.381 0.00 0.00 0.00 3.01
33 34 2.166459 CAGGATCTGCGTTGGAGTCTTA 59.834 50.000 0.00 0.00 0.00 2.10
34 35 2.166664 AGGATCTGCGTTGGAGTCTTAC 59.833 50.000 0.00 0.00 0.00 2.34
50 51 7.016466 GGAGTCTTACAGATGTCGTTATATCG 58.984 42.308 0.00 0.00 0.00 2.92
56 57 5.575957 ACAGATGTCGTTATATCGTTCGTT 58.424 37.500 3.29 0.00 0.00 3.85
101 102 8.416485 ACATTATACTTTGGCGTAAGTACTTC 57.584 34.615 12.39 3.31 41.85 3.01
120 121 7.929159 GTACTTCAATGTACTACTACTCCCTC 58.071 42.308 0.00 0.00 39.55 4.30
122 123 4.458397 TCAATGTACTACTACTCCCTCCG 58.542 47.826 0.00 0.00 0.00 4.63
123 124 4.080129 TCAATGTACTACTACTCCCTCCGT 60.080 45.833 0.00 0.00 0.00 4.69
124 125 4.516652 ATGTACTACTACTCCCTCCGTT 57.483 45.455 0.00 0.00 0.00 4.44
125 126 3.878778 TGTACTACTACTCCCTCCGTTC 58.121 50.000 0.00 0.00 0.00 3.95
126 127 2.433662 ACTACTACTCCCTCCGTTCC 57.566 55.000 0.00 0.00 0.00 3.62
127 128 1.307097 CTACTACTCCCTCCGTTCCG 58.693 60.000 0.00 0.00 0.00 4.30
128 129 0.911769 TACTACTCCCTCCGTTCCGA 59.088 55.000 0.00 0.00 0.00 4.55
129 130 0.038744 ACTACTCCCTCCGTTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30
130 131 1.180029 CTACTCCCTCCGTTCCGAAA 58.820 55.000 0.00 0.00 0.00 3.46
131 132 1.755380 CTACTCCCTCCGTTCCGAAAT 59.245 52.381 0.00 0.00 0.00 2.17
132 133 0.249398 ACTCCCTCCGTTCCGAAATG 59.751 55.000 0.00 0.00 0.00 2.32
133 134 1.078708 TCCCTCCGTTCCGAAATGC 60.079 57.895 0.00 0.00 0.00 3.56
134 135 1.078426 CCCTCCGTTCCGAAATGCT 60.078 57.895 0.00 0.00 0.00 3.79
135 136 0.177141 CCCTCCGTTCCGAAATGCTA 59.823 55.000 0.00 0.00 0.00 3.49
136 137 1.571919 CCTCCGTTCCGAAATGCTAG 58.428 55.000 0.00 0.00 0.00 3.42
137 138 1.136305 CCTCCGTTCCGAAATGCTAGA 59.864 52.381 0.00 0.00 0.00 2.43
138 139 2.224066 CCTCCGTTCCGAAATGCTAGAT 60.224 50.000 0.00 0.00 0.00 1.98
139 140 3.005472 CCTCCGTTCCGAAATGCTAGATA 59.995 47.826 0.00 0.00 0.00 1.98
140 141 3.973657 TCCGTTCCGAAATGCTAGATAC 58.026 45.455 0.00 0.00 0.00 2.24
141 142 3.057734 CCGTTCCGAAATGCTAGATACC 58.942 50.000 0.00 0.00 0.00 2.73
142 143 3.243771 CCGTTCCGAAATGCTAGATACCT 60.244 47.826 0.00 0.00 0.00 3.08
143 144 3.982058 CGTTCCGAAATGCTAGATACCTC 59.018 47.826 0.00 0.00 0.00 3.85
144 145 4.308265 GTTCCGAAATGCTAGATACCTCC 58.692 47.826 0.00 0.00 0.00 4.30
145 146 2.557056 TCCGAAATGCTAGATACCTCCG 59.443 50.000 0.00 0.00 0.00 4.63
146 147 2.296471 CCGAAATGCTAGATACCTCCGT 59.704 50.000 0.00 0.00 0.00 4.69
147 148 3.504906 CCGAAATGCTAGATACCTCCGTA 59.495 47.826 0.00 0.00 0.00 4.02
148 149 4.158025 CCGAAATGCTAGATACCTCCGTAT 59.842 45.833 0.00 0.00 37.92 3.06
165 166 9.452287 ACCTCCGTATCTAGATAAATCTAAGAC 57.548 37.037 14.09 0.57 38.80 3.01
166 167 9.451002 CCTCCGTATCTAGATAAATCTAAGACA 57.549 37.037 14.09 0.00 38.80 3.41
201 202 2.386779 GAGGGAGTACTAGGGTTGACC 58.613 57.143 0.00 0.00 40.67 4.02
208 209 5.424573 GGAGTACTAGGGTTGACCAATTAGT 59.575 44.000 0.00 8.87 43.89 2.24
209 210 6.070366 GGAGTACTAGGGTTGACCAATTAGTT 60.070 42.308 13.05 1.92 43.89 2.24
216 217 3.243267 GGTTGACCAATTAGTTGTTGCGT 60.243 43.478 0.00 0.00 33.36 5.24
219 220 1.533731 ACCAATTAGTTGTTGCGTCCG 59.466 47.619 0.00 0.00 33.36 4.79
233 234 2.525629 TCCGGGCTCACAAGGTGA 60.526 61.111 0.00 0.00 40.50 4.02
247 248 2.684881 CAAGGTGAGGTGCATATTCCAC 59.315 50.000 0.00 0.00 0.00 4.02
251 252 2.679837 GTGAGGTGCATATTCCACACAG 59.320 50.000 14.15 0.00 42.11 3.66
254 255 3.871594 GAGGTGCATATTCCACACAGTAC 59.128 47.826 0.00 0.00 36.00 2.73
306 417 8.500753 TTTTGTGCTATATAAACACCACTAGG 57.499 34.615 11.24 0.00 42.21 3.02
307 418 7.426606 TTGTGCTATATAAACACCACTAGGA 57.573 36.000 11.24 0.00 38.69 2.94
308 419 7.050970 TGTGCTATATAAACACCACTAGGAG 57.949 40.000 11.24 0.00 38.69 3.69
309 420 6.041637 TGTGCTATATAAACACCACTAGGAGG 59.958 42.308 11.24 0.00 38.69 4.30
310 421 6.267014 GTGCTATATAAACACCACTAGGAGGA 59.733 42.308 10.16 0.00 38.69 3.71
311 422 7.016914 TGCTATATAAACACCACTAGGAGGAT 58.983 38.462 10.16 0.00 38.69 3.24
312 423 7.039011 TGCTATATAAACACCACTAGGAGGATG 60.039 40.741 10.16 7.29 38.69 3.51
313 424 7.038941 GCTATATAAACACCACTAGGAGGATGT 60.039 40.741 10.16 7.80 38.69 3.06
314 425 7.691993 ATATAAACACCACTAGGAGGATGTT 57.308 36.000 10.16 12.20 38.69 2.71
315 426 4.724279 AAACACCACTAGGAGGATGTTT 57.276 40.909 19.34 19.34 38.69 2.83
316 427 3.703001 ACACCACTAGGAGGATGTTTG 57.297 47.619 10.16 1.08 38.69 2.93
317 428 2.305927 ACACCACTAGGAGGATGTTTGG 59.694 50.000 10.16 0.00 38.69 3.28
318 429 1.282157 ACCACTAGGAGGATGTTTGGC 59.718 52.381 10.16 0.00 38.69 4.52
319 430 1.656652 CACTAGGAGGATGTTTGGCG 58.343 55.000 0.00 0.00 0.00 5.69
320 431 1.066143 CACTAGGAGGATGTTTGGCGT 60.066 52.381 0.00 0.00 0.00 5.68
321 432 1.066143 ACTAGGAGGATGTTTGGCGTG 60.066 52.381 0.00 0.00 0.00 5.34
322 433 0.251916 TAGGAGGATGTTTGGCGTGG 59.748 55.000 0.00 0.00 0.00 4.94
323 434 1.303317 GGAGGATGTTTGGCGTGGT 60.303 57.895 0.00 0.00 0.00 4.16
324 435 1.586154 GGAGGATGTTTGGCGTGGTG 61.586 60.000 0.00 0.00 0.00 4.17
325 436 0.889186 GAGGATGTTTGGCGTGGTGT 60.889 55.000 0.00 0.00 0.00 4.16
326 437 0.467290 AGGATGTTTGGCGTGGTGTT 60.467 50.000 0.00 0.00 0.00 3.32
327 438 0.318614 GGATGTTTGGCGTGGTGTTG 60.319 55.000 0.00 0.00 0.00 3.33
328 439 0.318614 GATGTTTGGCGTGGTGTTGG 60.319 55.000 0.00 0.00 0.00 3.77
329 440 1.040339 ATGTTTGGCGTGGTGTTGGT 61.040 50.000 0.00 0.00 0.00 3.67
330 441 1.065109 GTTTGGCGTGGTGTTGGTC 59.935 57.895 0.00 0.00 0.00 4.02
331 442 2.473760 TTTGGCGTGGTGTTGGTCG 61.474 57.895 0.00 0.00 0.00 4.79
332 443 2.871216 TTTGGCGTGGTGTTGGTCGA 62.871 55.000 0.00 0.00 0.00 4.20
333 444 3.343421 GGCGTGGTGTTGGTCGAC 61.343 66.667 7.13 7.13 0.00 4.20
334 445 2.586635 GCGTGGTGTTGGTCGACA 60.587 61.111 18.91 0.27 0.00 4.35
335 446 2.174969 GCGTGGTGTTGGTCGACAA 61.175 57.895 18.91 2.10 36.54 3.18
336 447 1.931551 CGTGGTGTTGGTCGACAAG 59.068 57.895 18.91 0.00 40.38 3.16
337 448 1.495584 CGTGGTGTTGGTCGACAAGG 61.496 60.000 18.91 0.00 40.38 3.61
338 449 1.147376 TGGTGTTGGTCGACAAGGG 59.853 57.895 18.91 0.00 40.38 3.95
339 450 1.599797 GGTGTTGGTCGACAAGGGG 60.600 63.158 18.91 0.00 40.38 4.79
340 451 1.448497 GTGTTGGTCGACAAGGGGA 59.552 57.895 18.91 0.00 40.38 4.81
341 452 0.602905 GTGTTGGTCGACAAGGGGAG 60.603 60.000 18.91 0.00 40.38 4.30
342 453 1.003718 GTTGGTCGACAAGGGGAGG 60.004 63.158 18.91 0.00 40.38 4.30
346 457 1.605971 GGTCGACAAGGGGAGGACTC 61.606 65.000 18.91 0.00 0.00 3.36
358 469 1.941325 GAGGACTCCACTATTTGCCG 58.059 55.000 0.00 0.00 0.00 5.69
366 477 1.003112 ACTATTTGCCGCGTGGGAA 60.003 52.632 18.79 18.79 44.78 3.97
408 520 3.307906 CGAAGGGGGTGGTGACGA 61.308 66.667 0.00 0.00 0.00 4.20
410 522 1.683441 GAAGGGGGTGGTGACGAAT 59.317 57.895 0.00 0.00 0.00 3.34
413 525 2.033448 GGGGTGGTGACGAATGCA 59.967 61.111 0.00 0.00 0.00 3.96
417 529 0.602638 GGTGGTGACGAATGCACTCA 60.603 55.000 0.00 0.00 36.53 3.41
426 538 2.195922 CGAATGCACTCATCGACATGA 58.804 47.619 0.00 0.00 36.62 3.07
463 575 3.830192 GCTGCAATTGGCCGGGAG 61.830 66.667 7.72 0.00 43.89 4.30
504 616 2.436173 TGCACACCCATGTCCGATAATA 59.564 45.455 0.00 0.00 36.72 0.98
508 717 5.789521 CACACCCATGTCCGATAATATGTA 58.210 41.667 0.00 0.00 36.72 2.29
512 721 5.187186 ACCCATGTCCGATAATATGTACTCC 59.813 44.000 0.00 0.00 0.00 3.85
528 738 5.116180 TGTACTCCTTGTGAACAACTGAAG 58.884 41.667 0.00 0.00 0.00 3.02
550 760 2.105649 TGTGGTGTGATGCTGAACCTTA 59.894 45.455 0.00 0.00 33.65 2.69
558 768 1.493772 TGCTGAACCTTACGTGAACG 58.506 50.000 0.00 0.40 46.33 3.95
591 801 4.163078 AGTTCTAGCTATGCACACCTTGAT 59.837 41.667 0.00 0.00 0.00 2.57
593 803 6.042552 AGTTCTAGCTATGCACACCTTGATAT 59.957 38.462 0.00 0.00 0.00 1.63
596 806 3.392285 AGCTATGCACACCTTGATATCCA 59.608 43.478 0.00 0.00 0.00 3.41
604 814 5.532406 GCACACCTTGATATCCATGTTGTAT 59.468 40.000 0.00 0.00 27.40 2.29
605 815 6.293626 GCACACCTTGATATCCATGTTGTATC 60.294 42.308 0.00 0.00 27.40 2.24
606 816 6.994496 CACACCTTGATATCCATGTTGTATCT 59.006 38.462 0.00 0.00 27.40 1.98
614 824 9.725019 TGATATCCATGTTGTATCTTGTATTCC 57.275 33.333 0.00 0.00 0.00 3.01
615 825 9.167311 GATATCCATGTTGTATCTTGTATTCCC 57.833 37.037 0.00 0.00 0.00 3.97
619 829 5.018539 TGTTGTATCTTGTATTCCCTCCG 57.981 43.478 0.00 0.00 0.00 4.63
620 830 4.468510 TGTTGTATCTTGTATTCCCTCCGT 59.531 41.667 0.00 0.00 0.00 4.69
621 831 4.931661 TGTATCTTGTATTCCCTCCGTC 57.068 45.455 0.00 0.00 0.00 4.79
622 832 4.543689 TGTATCTTGTATTCCCTCCGTCT 58.456 43.478 0.00 0.00 0.00 4.18
623 833 4.583489 TGTATCTTGTATTCCCTCCGTCTC 59.417 45.833 0.00 0.00 0.00 3.36
624 834 3.095912 TCTTGTATTCCCTCCGTCTCA 57.904 47.619 0.00 0.00 0.00 3.27
625 835 3.437213 TCTTGTATTCCCTCCGTCTCAA 58.563 45.455 0.00 0.00 0.00 3.02
626 836 3.835978 TCTTGTATTCCCTCCGTCTCAAA 59.164 43.478 0.00 0.00 0.00 2.69
627 837 4.285003 TCTTGTATTCCCTCCGTCTCAAAA 59.715 41.667 0.00 0.00 0.00 2.44
628 838 4.837093 TGTATTCCCTCCGTCTCAAAAT 57.163 40.909 0.00 0.00 0.00 1.82
630 840 6.494666 TGTATTCCCTCCGTCTCAAAATAT 57.505 37.500 0.00 0.00 0.00 1.28
632 842 7.343357 TGTATTCCCTCCGTCTCAAAATATTT 58.657 34.615 0.00 0.00 0.00 1.40
633 843 6.699575 ATTCCCTCCGTCTCAAAATATTTG 57.300 37.500 0.39 0.00 0.00 2.32
634 844 5.174037 TCCCTCCGTCTCAAAATATTTGT 57.826 39.130 0.39 0.00 0.00 2.83
635 845 5.183228 TCCCTCCGTCTCAAAATATTTGTC 58.817 41.667 0.39 0.00 0.00 3.18
636 846 4.941263 CCCTCCGTCTCAAAATATTTGTCA 59.059 41.667 0.39 0.00 0.00 3.58
640 955 8.673711 CCTCCGTCTCAAAATATTTGTCAAATA 58.326 33.333 18.09 18.09 37.71 1.40
696 1011 8.203937 ACGTTTAAATACATCCATTCATTCGA 57.796 30.769 0.00 0.00 0.00 3.71
697 1012 8.836413 ACGTTTAAATACATCCATTCATTCGAT 58.164 29.630 0.00 0.00 0.00 3.59
709 1024 8.083462 TCCATTCATTCGATAAGTATTTTCGG 57.917 34.615 0.00 0.00 46.95 4.30
710 1025 7.929245 TCCATTCATTCGATAAGTATTTTCGGA 59.071 33.333 0.00 0.00 46.95 4.55
711 1026 8.009974 CCATTCATTCGATAAGTATTTTCGGAC 58.990 37.037 0.00 0.00 46.95 4.79
712 1027 6.742999 TCATTCGATAAGTATTTTCGGACG 57.257 37.500 0.00 0.00 46.95 4.79
713 1028 5.688621 TCATTCGATAAGTATTTTCGGACGG 59.311 40.000 0.00 0.00 46.95 4.79
714 1029 4.898829 TCGATAAGTATTTTCGGACGGA 57.101 40.909 3.24 0.00 46.95 4.69
715 1030 5.247507 TCGATAAGTATTTTCGGACGGAA 57.752 39.130 3.24 0.00 46.95 4.30
716 1031 5.276270 TCGATAAGTATTTTCGGACGGAAG 58.724 41.667 3.24 0.00 46.95 3.46
719 1034 3.521947 AGTATTTTCGGACGGAAGGAG 57.478 47.619 0.00 0.00 35.70 3.69
720 1035 2.830321 AGTATTTTCGGACGGAAGGAGT 59.170 45.455 0.00 0.00 35.70 3.85
721 1036 4.019174 AGTATTTTCGGACGGAAGGAGTA 58.981 43.478 0.00 0.00 35.70 2.59
722 1037 4.648307 AGTATTTTCGGACGGAAGGAGTAT 59.352 41.667 0.00 0.00 35.70 2.12
723 1038 2.953466 TTTCGGACGGAAGGAGTATG 57.047 50.000 0.00 0.00 35.70 2.39
724 1039 2.133281 TTCGGACGGAAGGAGTATGA 57.867 50.000 0.00 0.00 0.00 2.15
725 1040 2.133281 TCGGACGGAAGGAGTATGAA 57.867 50.000 0.00 0.00 0.00 2.57
727 1042 1.475280 CGGACGGAAGGAGTATGAACA 59.525 52.381 0.00 0.00 0.00 3.18
728 1043 2.100916 CGGACGGAAGGAGTATGAACAT 59.899 50.000 0.00 0.00 0.00 2.71
730 1045 4.120589 GGACGGAAGGAGTATGAACATTC 58.879 47.826 0.00 0.00 0.00 2.67
731 1046 4.120589 GACGGAAGGAGTATGAACATTCC 58.879 47.826 0.00 0.00 34.28 3.01
734 1049 4.514401 GGAAGGAGTATGAACATTCCGTT 58.486 43.478 0.00 0.00 41.86 4.44
735 1050 4.941873 GGAAGGAGTATGAACATTCCGTTT 59.058 41.667 0.00 0.00 38.19 3.60
762 2769 7.953005 TGTCTGTCTGATCTCTCTAAGATTT 57.047 36.000 0.00 0.00 45.06 2.17
782 2789 2.929641 TCTGCCATCACTTCAACACAA 58.070 42.857 0.00 0.00 0.00 3.33
786 2793 2.297033 GCCATCACTTCAACACAACCAT 59.703 45.455 0.00 0.00 0.00 3.55
791 2798 2.687425 CACTTCAACACAACCATGTCCA 59.313 45.455 0.00 0.00 37.82 4.02
792 2799 2.687935 ACTTCAACACAACCATGTCCAC 59.312 45.455 0.00 0.00 37.82 4.02
809 2938 0.588252 CACTGTCCTGCTTTTGACGG 59.412 55.000 0.00 0.00 42.36 4.79
830 2959 3.118775 GGAAGCCTGAAACCAACAAGTTT 60.119 43.478 0.00 0.00 42.56 2.66
842 2971 5.258051 ACCAACAAGTTTAAGGTTCAGACA 58.742 37.500 0.00 0.00 0.00 3.41
871 3000 0.102120 GTCGATCAGGAGAGTGCCAG 59.898 60.000 0.00 0.00 0.00 4.85
911 3040 2.362077 AGTGTCAAAACAGCAATCACCC 59.638 45.455 0.00 0.00 35.64 4.61
912 3041 2.362077 GTGTCAAAACAGCAATCACCCT 59.638 45.455 0.00 0.00 35.64 4.34
913 3042 2.622942 TGTCAAAACAGCAATCACCCTC 59.377 45.455 0.00 0.00 0.00 4.30
922 3051 0.108138 CAATCACCCTCGTCCCAGAC 60.108 60.000 0.00 0.00 0.00 3.51
954 3083 4.504858 AGAAAATGCTGACTAGTTACCGG 58.495 43.478 0.00 0.00 0.00 5.28
959 3088 0.892755 CTGACTAGTTACCGGGTGCA 59.107 55.000 10.66 0.00 0.00 4.57
960 3089 0.604578 TGACTAGTTACCGGGTGCAC 59.395 55.000 10.66 8.80 0.00 4.57
961 3090 0.108472 GACTAGTTACCGGGTGCACC 60.108 60.000 28.57 28.57 0.00 5.01
971 3100 4.269523 GGTGCACCCTGGCTCACA 62.270 66.667 26.31 0.00 34.04 3.58
972 3101 2.203337 GTGCACCCTGGCTCACAA 60.203 61.111 5.22 0.00 34.04 3.33
973 3102 2.113774 TGCACCCTGGCTCACAAG 59.886 61.111 0.00 0.00 34.04 3.16
974 3103 2.674380 GCACCCTGGCTCACAAGG 60.674 66.667 0.00 0.00 36.70 3.61
975 3104 2.839098 CACCCTGGCTCACAAGGT 59.161 61.111 0.00 0.00 44.87 3.50
976 3105 2.839098 ACCCTGGCTCACAAGGTG 59.161 61.111 0.00 0.00 42.37 4.00
977 3106 1.770110 ACCCTGGCTCACAAGGTGA 60.770 57.895 0.00 0.00 42.37 4.02
978 3107 1.136329 ACCCTGGCTCACAAGGTGAT 61.136 55.000 0.00 0.00 42.37 3.06
979 3108 0.679002 CCCTGGCTCACAAGGTGATG 60.679 60.000 0.00 0.00 41.94 3.07
980 3109 0.037303 CCTGGCTCACAAGGTGATGT 59.963 55.000 0.00 0.00 41.94 3.06
1022 3151 6.781138 TGCTATAAAAATACCAGCAGAAACG 58.219 36.000 0.00 0.00 37.32 3.60
1030 3159 2.027073 CAGCAGAAACGCGGTGCTA 61.027 57.895 21.77 0.00 45.82 3.49
1035 3167 0.179134 AGAAACGCGGTGCTAGCTAG 60.179 55.000 16.84 16.84 0.00 3.42
1048 3180 5.232414 GGTGCTAGCTAGTAATTCTTTCACG 59.768 44.000 21.62 0.00 0.00 4.35
1074 3206 0.397941 TGACTGAAAGCAGACCAGGG 59.602 55.000 0.00 0.00 45.17 4.45
1078 3210 1.743252 GAAAGCAGACCAGGGAGCG 60.743 63.158 0.00 0.00 0.00 5.03
1108 3241 1.981495 ACAGGGAGAGGAGGAAACAAG 59.019 52.381 0.00 0.00 0.00 3.16
1601 3800 3.119096 GTTCTGGTTCGAGGCGCC 61.119 66.667 21.89 21.89 0.00 6.53
1633 3832 2.181777 GCGTGAGGCTGATCGACA 59.818 61.111 0.00 0.00 39.11 4.35
1808 4007 2.766828 GGGGCTTGAGAGTTTAGAGCTA 59.233 50.000 0.00 0.00 33.96 3.32
1835 4034 4.160439 TGCTATTGGTCAGAGGTAGTTGAG 59.840 45.833 0.00 0.00 0.00 3.02
1838 4037 2.248248 TGGTCAGAGGTAGTTGAGTGG 58.752 52.381 0.00 0.00 0.00 4.00
1866 4066 7.492352 TTAGTTTTGTGTAAGAAAGAGAGCC 57.508 36.000 0.00 0.00 27.82 4.70
1870 4070 6.959639 TTTGTGTAAGAAAGAGAGCCAATT 57.040 33.333 0.00 0.00 0.00 2.32
1890 4090 6.392354 CAATTAATCATGTTGCTGAGGTGTT 58.608 36.000 0.00 0.00 0.00 3.32
1899 4099 1.270305 TGCTGAGGTGTTCTAGTGCAC 60.270 52.381 9.40 9.40 35.07 4.57
1910 4110 6.148811 GGTGTTCTAGTGCACTAAAAGCATAA 59.851 38.462 25.95 5.93 44.79 1.90
1917 4117 6.555315 AGTGCACTAAAAGCATAATTAGCAC 58.445 36.000 20.16 0.00 44.79 4.40
1961 4161 5.874261 TCTCATCTCGATAAATGTGCACAAA 59.126 36.000 25.72 12.96 0.00 2.83
1986 4186 5.882553 TCAACACAGCATGCATATAACTTG 58.117 37.500 21.98 9.14 42.53 3.16
2027 4227 7.003939 TCAAATAAGATACGCACATCACAAG 57.996 36.000 0.00 0.00 0.00 3.16
2033 4233 2.238942 ACGCACATCACAAGACAAGA 57.761 45.000 0.00 0.00 0.00 3.02
2039 4239 5.284079 GCACATCACAAGACAAGAAAACAT 58.716 37.500 0.00 0.00 0.00 2.71
2049 4249 9.301153 ACAAGACAAGAAAACATCATTTTGTAC 57.699 29.630 0.00 0.00 0.00 2.90
2111 4316 8.798859 ATCCAATACTATCCACATGATTTAGC 57.201 34.615 0.00 0.00 34.76 3.09
2114 4319 9.725019 CCAATACTATCCACATGATTTAGCTTA 57.275 33.333 0.00 0.00 34.76 3.09
2178 4386 6.933130 CAGCAATTTAGATGCATCATGTTTG 58.067 36.000 27.81 22.88 46.22 2.93
2192 4400 2.063156 TGTTTGAACATTGCCGATGC 57.937 45.000 0.00 0.00 39.47 3.91
2208 4416 3.313526 CCGATGCCTCTGAAATTTAGTGG 59.686 47.826 2.02 2.02 33.15 4.00
2226 4436 3.266772 AGTGGTCATTAGGAGCCAATTGA 59.733 43.478 7.12 0.00 43.44 2.57
2236 4446 7.859325 TTAGGAGCCAATTGATAAACAGTAC 57.141 36.000 7.12 0.00 0.00 2.73
2378 4588 4.104102 ACAGAAGGTGTAAAAGTGATCCCA 59.896 41.667 0.00 0.00 37.75 4.37
2509 4719 6.385649 AACATACGTCAAATGTTCCAAGTT 57.614 33.333 8.95 0.00 42.45 2.66
2857 5067 5.454471 CCCAGACCTAATCATGAAGGAAGAG 60.454 48.000 18.52 6.68 36.66 2.85
2868 5078 6.586344 TCATGAAGGAAGAGGTATGATTCAC 58.414 40.000 0.00 0.00 0.00 3.18
2890 5100 7.990917 TCACTAGAGTCACACAAGATAGATTC 58.009 38.462 0.00 0.00 0.00 2.52
2893 5103 9.030452 ACTAGAGTCACACAAGATAGATTCTTT 57.970 33.333 0.00 0.00 42.15 2.52
2894 5104 9.868277 CTAGAGTCACACAAGATAGATTCTTTT 57.132 33.333 0.00 0.00 42.15 2.27
2929 5141 2.746362 CTGAACATCCTTGTCTTGGAGC 59.254 50.000 0.00 0.00 36.99 4.70
2933 5145 0.990374 ATCCTTGTCTTGGAGCTGCT 59.010 50.000 6.82 0.00 36.99 4.24
3032 5244 6.878923 CCTGACACCAGACAGATTTATTAACA 59.121 38.462 0.00 0.00 43.02 2.41
3039 5251 6.237942 CCAGACAGATTTATTAACAGTGCTCG 60.238 42.308 0.00 0.00 0.00 5.03
3126 5338 7.772332 AGTACTAAACATTATTGAGCTTCCG 57.228 36.000 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 0.534412 AGACTCCAACGCAGATCCTG 59.466 55.000 0.00 0.00 34.12 3.86
14 15 2.094182 TGTAAGACTCCAACGCAGATCC 60.094 50.000 0.00 0.00 0.00 3.36
27 28 7.493743 ACGATATAACGACATCTGTAAGACT 57.506 36.000 9.58 0.00 40.69 3.24
28 29 7.058128 CGAACGATATAACGACATCTGTAAGAC 59.942 40.741 9.58 0.00 40.69 3.01
29 30 7.067728 CGAACGATATAACGACATCTGTAAGA 58.932 38.462 9.58 0.00 41.55 2.10
30 31 6.849811 ACGAACGATATAACGACATCTGTAAG 59.150 38.462 9.58 0.00 37.03 2.34
31 32 6.718388 ACGAACGATATAACGACATCTGTAA 58.282 36.000 9.58 0.00 37.03 2.41
32 33 6.291067 ACGAACGATATAACGACATCTGTA 57.709 37.500 9.58 0.00 37.03 2.74
33 34 5.165911 ACGAACGATATAACGACATCTGT 57.834 39.130 9.58 4.96 37.03 3.41
34 35 5.679792 TGAACGAACGATATAACGACATCTG 59.320 40.000 9.58 4.47 37.03 2.90
50 51 0.665835 TGCCACACCAATGAACGAAC 59.334 50.000 0.00 0.00 0.00 3.95
56 57 1.075212 TCCAGAATGCCACACCAATGA 59.925 47.619 0.00 0.00 31.97 2.57
101 102 4.205587 ACGGAGGGAGTAGTAGTACATTG 58.794 47.826 10.33 0.00 0.00 2.82
122 123 4.308265 GGAGGTATCTAGCATTTCGGAAC 58.692 47.826 0.00 0.00 0.00 3.62
123 124 3.005472 CGGAGGTATCTAGCATTTCGGAA 59.995 47.826 0.00 0.00 0.00 4.30
124 125 2.557056 CGGAGGTATCTAGCATTTCGGA 59.443 50.000 0.00 0.00 0.00 4.55
125 126 2.296471 ACGGAGGTATCTAGCATTTCGG 59.704 50.000 0.00 0.00 0.00 4.30
126 127 3.644884 ACGGAGGTATCTAGCATTTCG 57.355 47.619 0.00 0.00 0.00 3.46
139 140 9.452287 GTCTTAGATTTATCTAGATACGGAGGT 57.548 37.037 12.12 0.00 40.23 3.85
140 141 9.451002 TGTCTTAGATTTATCTAGATACGGAGG 57.549 37.037 12.12 1.10 40.23 4.30
154 155 9.079833 CGTTCCGAATTACTTGTCTTAGATTTA 57.920 33.333 0.00 0.00 0.00 1.40
155 156 7.064253 CCGTTCCGAATTACTTGTCTTAGATTT 59.936 37.037 0.00 0.00 0.00 2.17
156 157 6.534079 CCGTTCCGAATTACTTGTCTTAGATT 59.466 38.462 0.00 0.00 0.00 2.40
157 158 6.040878 CCGTTCCGAATTACTTGTCTTAGAT 58.959 40.000 0.00 0.00 0.00 1.98
158 159 5.183713 TCCGTTCCGAATTACTTGTCTTAGA 59.816 40.000 0.00 0.00 0.00 2.10
159 160 5.404946 TCCGTTCCGAATTACTTGTCTTAG 58.595 41.667 0.00 0.00 0.00 2.18
160 161 5.389859 TCCGTTCCGAATTACTTGTCTTA 57.610 39.130 0.00 0.00 0.00 2.10
161 162 4.243270 CTCCGTTCCGAATTACTTGTCTT 58.757 43.478 0.00 0.00 0.00 3.01
162 163 3.368116 CCTCCGTTCCGAATTACTTGTCT 60.368 47.826 0.00 0.00 0.00 3.41
163 164 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
164 165 2.354403 CCCTCCGTTCCGAATTACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
165 166 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
166 167 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
167 168 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
168 169 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
169 170 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
170 171 1.479730 GTACTCCCTCCGTTCCGAATT 59.520 52.381 0.00 0.00 0.00 2.17
171 172 1.109609 GTACTCCCTCCGTTCCGAAT 58.890 55.000 0.00 0.00 0.00 3.34
172 173 0.038744 AGTACTCCCTCCGTTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30
173 174 0.911769 TAGTACTCCCTCCGTTCCGA 59.088 55.000 0.00 0.00 0.00 4.55
174 175 1.307097 CTAGTACTCCCTCCGTTCCG 58.693 60.000 0.00 0.00 0.00 4.30
175 176 1.689984 CCTAGTACTCCCTCCGTTCC 58.310 60.000 0.00 0.00 0.00 3.62
176 177 1.064091 ACCCTAGTACTCCCTCCGTTC 60.064 57.143 0.00 0.00 0.00 3.95
177 178 1.006020 ACCCTAGTACTCCCTCCGTT 58.994 55.000 0.00 0.00 0.00 4.44
178 179 1.006020 AACCCTAGTACTCCCTCCGT 58.994 55.000 0.00 0.00 0.00 4.69
179 180 1.064166 TCAACCCTAGTACTCCCTCCG 60.064 57.143 0.00 0.00 0.00 4.63
180 181 2.386779 GTCAACCCTAGTACTCCCTCC 58.613 57.143 0.00 0.00 0.00 4.30
181 182 2.292061 TGGTCAACCCTAGTACTCCCTC 60.292 54.545 0.00 0.00 34.29 4.30
182 183 1.720533 TGGTCAACCCTAGTACTCCCT 59.279 52.381 0.00 0.00 34.29 4.20
183 184 2.242882 TGGTCAACCCTAGTACTCCC 57.757 55.000 0.00 0.00 34.29 4.30
184 185 4.838904 AATTGGTCAACCCTAGTACTCC 57.161 45.455 0.00 0.00 34.29 3.85
185 186 6.541934 ACTAATTGGTCAACCCTAGTACTC 57.458 41.667 0.00 0.00 34.29 2.59
186 187 6.271624 ACAACTAATTGGTCAACCCTAGTACT 59.728 38.462 0.00 0.00 40.42 2.73
187 188 6.470278 ACAACTAATTGGTCAACCCTAGTAC 58.530 40.000 0.00 0.00 40.42 2.73
201 202 1.135803 CCCGGACGCAACAACTAATTG 60.136 52.381 0.73 0.00 41.98 2.32
208 209 4.243008 TGAGCCCGGACGCAACAA 62.243 61.111 0.73 0.00 0.00 2.83
209 210 4.980805 GTGAGCCCGGACGCAACA 62.981 66.667 0.73 0.45 0.00 3.33
216 217 2.525629 TCACCTTGTGAGCCCGGA 60.526 61.111 0.73 0.00 37.67 5.14
233 234 3.519510 AGTACTGTGTGGAATATGCACCT 59.480 43.478 0.00 0.00 37.97 4.00
247 248 8.827177 TTAAACATTTCTGGAGTAGTACTGTG 57.173 34.615 7.76 0.00 0.00 3.66
300 411 1.066143 ACGCCAAACATCCTCCTAGTG 60.066 52.381 0.00 0.00 0.00 2.74
301 412 1.066143 CACGCCAAACATCCTCCTAGT 60.066 52.381 0.00 0.00 0.00 2.57
303 414 0.251916 CCACGCCAAACATCCTCCTA 59.748 55.000 0.00 0.00 0.00 2.94
304 415 1.002134 CCACGCCAAACATCCTCCT 60.002 57.895 0.00 0.00 0.00 3.69
305 416 1.303317 ACCACGCCAAACATCCTCC 60.303 57.895 0.00 0.00 0.00 4.30
306 417 0.889186 ACACCACGCCAAACATCCTC 60.889 55.000 0.00 0.00 0.00 3.71
307 418 0.467290 AACACCACGCCAAACATCCT 60.467 50.000 0.00 0.00 0.00 3.24
308 419 0.318614 CAACACCACGCCAAACATCC 60.319 55.000 0.00 0.00 0.00 3.51
309 420 0.318614 CCAACACCACGCCAAACATC 60.319 55.000 0.00 0.00 0.00 3.06
310 421 1.040339 ACCAACACCACGCCAAACAT 61.040 50.000 0.00 0.00 0.00 2.71
311 422 1.658686 GACCAACACCACGCCAAACA 61.659 55.000 0.00 0.00 0.00 2.83
312 423 1.065109 GACCAACACCACGCCAAAC 59.935 57.895 0.00 0.00 0.00 2.93
313 424 2.473760 CGACCAACACCACGCCAAA 61.474 57.895 0.00 0.00 0.00 3.28
314 425 2.897846 CGACCAACACCACGCCAA 60.898 61.111 0.00 0.00 0.00 4.52
315 426 3.851128 TCGACCAACACCACGCCA 61.851 61.111 0.00 0.00 0.00 5.69
316 427 3.343421 GTCGACCAACACCACGCC 61.343 66.667 3.51 0.00 0.00 5.68
317 428 2.101209 CTTGTCGACCAACACCACGC 62.101 60.000 14.12 0.00 0.00 5.34
318 429 1.495584 CCTTGTCGACCAACACCACG 61.496 60.000 14.12 0.00 0.00 4.94
319 430 1.164041 CCCTTGTCGACCAACACCAC 61.164 60.000 14.12 0.00 0.00 4.16
320 431 1.147376 CCCTTGTCGACCAACACCA 59.853 57.895 14.12 0.00 0.00 4.17
321 432 1.599797 CCCCTTGTCGACCAACACC 60.600 63.158 14.12 0.00 0.00 4.16
322 433 0.602905 CTCCCCTTGTCGACCAACAC 60.603 60.000 14.12 0.00 0.00 3.32
323 434 1.752198 CTCCCCTTGTCGACCAACA 59.248 57.895 14.12 0.00 0.00 3.33
324 435 1.003718 CCTCCCCTTGTCGACCAAC 60.004 63.158 14.12 0.00 0.00 3.77
325 436 1.152204 TCCTCCCCTTGTCGACCAA 60.152 57.895 14.12 6.68 0.00 3.67
326 437 1.911766 GTCCTCCCCTTGTCGACCA 60.912 63.158 14.12 0.00 0.00 4.02
327 438 1.605971 GAGTCCTCCCCTTGTCGACC 61.606 65.000 14.12 0.00 0.00 4.79
328 439 1.605971 GGAGTCCTCCCCTTGTCGAC 61.606 65.000 9.11 9.11 43.94 4.20
329 440 1.305046 GGAGTCCTCCCCTTGTCGA 60.305 63.158 0.41 0.00 43.94 4.20
330 441 3.300013 GGAGTCCTCCCCTTGTCG 58.700 66.667 0.41 0.00 43.94 4.35
339 450 1.941325 CGGCAAATAGTGGAGTCCTC 58.059 55.000 11.33 6.96 0.00 3.71
340 451 0.107654 GCGGCAAATAGTGGAGTCCT 60.108 55.000 11.33 0.00 0.00 3.85
341 452 1.429148 CGCGGCAAATAGTGGAGTCC 61.429 60.000 0.73 0.73 0.00 3.85
342 453 0.739813 ACGCGGCAAATAGTGGAGTC 60.740 55.000 12.47 0.00 0.00 3.36
346 457 2.791256 CCACGCGGCAAATAGTGG 59.209 61.111 12.47 9.13 46.52 4.00
348 459 0.606944 TTTCCCACGCGGCAAATAGT 60.607 50.000 12.47 0.00 0.00 2.12
349 460 0.523966 TTTTCCCACGCGGCAAATAG 59.476 50.000 12.47 0.00 0.00 1.73
358 469 1.007387 CCAACTGCTTTTCCCACGC 60.007 57.895 0.00 0.00 0.00 5.34
366 477 2.032981 CGGCTTCACCAACTGCTTT 58.967 52.632 0.00 0.00 39.03 3.51
367 478 2.555547 GCGGCTTCACCAACTGCTT 61.556 57.895 0.00 0.00 39.03 3.91
396 508 2.033448 TGCATTCGTCACCACCCC 59.967 61.111 0.00 0.00 0.00 4.95
399 511 1.394917 GATGAGTGCATTCGTCACCAC 59.605 52.381 22.54 0.00 34.11 4.16
407 519 2.034254 CGTCATGTCGATGAGTGCATTC 60.034 50.000 6.49 1.56 39.36 2.67
408 520 1.929169 CGTCATGTCGATGAGTGCATT 59.071 47.619 6.49 0.00 39.36 3.56
410 522 0.458370 CCGTCATGTCGATGAGTGCA 60.458 55.000 14.01 0.00 39.36 4.57
413 525 0.173481 CCACCGTCATGTCGATGAGT 59.827 55.000 14.01 0.25 39.36 3.41
417 529 0.606096 TGTTCCACCGTCATGTCGAT 59.394 50.000 14.01 0.00 0.00 3.59
426 538 2.590575 CTTGGCGTGTTCCACCGT 60.591 61.111 0.00 0.00 35.50 4.83
480 592 2.327343 CGGACATGGGTGTGCACAG 61.327 63.158 22.40 10.87 45.91 3.66
504 616 5.290493 TCAGTTGTTCACAAGGAGTACAT 57.710 39.130 0.00 0.00 36.39 2.29
508 717 3.941483 CACTTCAGTTGTTCACAAGGAGT 59.059 43.478 0.00 0.00 36.39 3.85
512 721 3.440173 ACCACACTTCAGTTGTTCACAAG 59.560 43.478 0.00 0.00 36.39 3.16
528 738 0.593128 GGTTCAGCATCACACCACAC 59.407 55.000 0.00 0.00 0.00 3.82
558 768 4.503370 GCATAGCTAGAACTACAACGGAAC 59.497 45.833 0.00 0.00 0.00 3.62
591 801 8.275187 AGGGAATACAAGATACAACATGGATA 57.725 34.615 0.00 0.00 0.00 2.59
593 803 6.409234 GGAGGGAATACAAGATACAACATGGA 60.409 42.308 0.00 0.00 0.00 3.41
596 806 5.130477 ACGGAGGGAATACAAGATACAACAT 59.870 40.000 0.00 0.00 0.00 2.71
604 814 3.095912 TGAGACGGAGGGAATACAAGA 57.904 47.619 0.00 0.00 0.00 3.02
605 815 3.887621 TTGAGACGGAGGGAATACAAG 57.112 47.619 0.00 0.00 0.00 3.16
606 816 4.627284 TTTTGAGACGGAGGGAATACAA 57.373 40.909 0.00 0.00 0.00 2.41
612 822 5.174037 ACAAATATTTTGAGACGGAGGGA 57.826 39.130 6.96 0.00 0.00 4.20
613 823 4.941263 TGACAAATATTTTGAGACGGAGGG 59.059 41.667 6.96 0.00 0.00 4.30
614 824 6.494893 TTGACAAATATTTTGAGACGGAGG 57.505 37.500 6.96 0.00 0.00 4.30
670 985 9.315525 TCGAATGAATGGATGTATTTAAACGTA 57.684 29.630 0.00 0.00 0.00 3.57
671 986 8.203937 TCGAATGAATGGATGTATTTAAACGT 57.796 30.769 0.00 0.00 0.00 3.99
682 997 9.533983 CGAAAATACTTATCGAATGAATGGATG 57.466 33.333 0.00 0.00 38.82 3.51
683 998 8.721478 CCGAAAATACTTATCGAATGAATGGAT 58.279 33.333 0.00 0.00 38.82 3.41
684 999 7.929245 TCCGAAAATACTTATCGAATGAATGGA 59.071 33.333 0.00 0.00 38.82 3.41
687 1002 7.095774 CCGTCCGAAAATACTTATCGAATGAAT 60.096 37.037 0.00 0.00 38.82 2.57
688 1003 6.199531 CCGTCCGAAAATACTTATCGAATGAA 59.800 38.462 0.00 0.00 38.82 2.57
689 1004 5.688621 CCGTCCGAAAATACTTATCGAATGA 59.311 40.000 0.00 0.00 38.82 2.57
692 1007 5.247507 TCCGTCCGAAAATACTTATCGAA 57.752 39.130 0.00 0.00 38.82 3.71
693 1008 4.898829 TCCGTCCGAAAATACTTATCGA 57.101 40.909 0.00 0.00 38.82 3.59
694 1009 4.443394 CCTTCCGTCCGAAAATACTTATCG 59.557 45.833 0.00 0.00 36.39 2.92
695 1010 5.594926 TCCTTCCGTCCGAAAATACTTATC 58.405 41.667 0.00 0.00 0.00 1.75
696 1011 5.128335 ACTCCTTCCGTCCGAAAATACTTAT 59.872 40.000 0.00 0.00 0.00 1.73
697 1012 4.463891 ACTCCTTCCGTCCGAAAATACTTA 59.536 41.667 0.00 0.00 0.00 2.24
698 1013 3.260128 ACTCCTTCCGTCCGAAAATACTT 59.740 43.478 0.00 0.00 0.00 2.24
699 1014 2.830321 ACTCCTTCCGTCCGAAAATACT 59.170 45.455 0.00 0.00 0.00 2.12
700 1015 3.242549 ACTCCTTCCGTCCGAAAATAC 57.757 47.619 0.00 0.00 0.00 1.89
702 1017 3.449737 TCATACTCCTTCCGTCCGAAAAT 59.550 43.478 0.00 0.00 0.00 1.82
703 1018 2.827322 TCATACTCCTTCCGTCCGAAAA 59.173 45.455 0.00 0.00 0.00 2.29
704 1019 2.449464 TCATACTCCTTCCGTCCGAAA 58.551 47.619 0.00 0.00 0.00 3.46
706 1021 1.747355 GTTCATACTCCTTCCGTCCGA 59.253 52.381 0.00 0.00 0.00 4.55
709 1024 4.120589 GGAATGTTCATACTCCTTCCGTC 58.879 47.826 0.00 0.00 0.00 4.79
710 1025 3.430374 CGGAATGTTCATACTCCTTCCGT 60.430 47.826 12.12 0.00 41.36 4.69
711 1026 3.123804 CGGAATGTTCATACTCCTTCCG 58.876 50.000 7.08 7.08 40.96 4.30
712 1027 4.138487 ACGGAATGTTCATACTCCTTCC 57.862 45.455 0.00 0.00 0.00 3.46
713 1028 6.496338 AAAACGGAATGTTCATACTCCTTC 57.504 37.500 0.00 0.00 40.84 3.46
714 1029 6.894339 AAAAACGGAATGTTCATACTCCTT 57.106 33.333 0.00 0.00 40.84 3.36
734 1049 8.183104 TCTTAGAGAGATCAGACAGACAAAAA 57.817 34.615 0.00 0.00 0.00 1.94
735 1050 7.767250 TCTTAGAGAGATCAGACAGACAAAA 57.233 36.000 0.00 0.00 0.00 2.44
762 2769 2.618241 GTTGTGTTGAAGTGATGGCAGA 59.382 45.455 0.00 0.00 0.00 4.26
782 2789 1.130054 AGCAGGACAGTGGACATGGT 61.130 55.000 0.00 0.00 0.00 3.55
786 2793 1.211703 TCAAAAGCAGGACAGTGGACA 59.788 47.619 0.00 0.00 0.00 4.02
791 2798 0.468226 TCCGTCAAAAGCAGGACAGT 59.532 50.000 0.00 0.00 33.66 3.55
792 2799 1.532868 CTTCCGTCAAAAGCAGGACAG 59.467 52.381 0.00 0.00 33.66 3.51
809 2938 3.801114 AACTTGTTGGTTTCAGGCTTC 57.199 42.857 0.00 0.00 0.00 3.86
830 2959 5.080337 ACTGACTCTGATGTCTGAACCTTA 58.920 41.667 15.47 0.00 38.63 2.69
842 2971 3.118075 TCTCCTGATCGACTGACTCTGAT 60.118 47.826 0.00 0.00 0.00 2.90
899 3028 1.296715 GGACGAGGGTGATTGCTGT 59.703 57.895 0.00 0.00 0.00 4.40
911 3040 1.473965 CCATGGAATGTCTGGGACGAG 60.474 57.143 5.56 0.00 44.81 4.18
912 3041 0.541392 CCATGGAATGTCTGGGACGA 59.459 55.000 5.56 0.00 44.81 4.20
913 3042 0.541392 TCCATGGAATGTCTGGGACG 59.459 55.000 13.46 0.00 44.81 4.79
922 3051 4.401519 AGTCAGCATTTTCTCCATGGAATG 59.598 41.667 17.00 16.83 46.21 2.67
954 3083 3.790416 TTGTGAGCCAGGGTGCACC 62.790 63.158 28.57 28.57 40.67 5.01
960 3089 0.679002 CATCACCTTGTGAGCCAGGG 60.679 60.000 3.11 0.00 46.04 4.45
961 3090 0.037303 ACATCACCTTGTGAGCCAGG 59.963 55.000 3.11 0.00 46.04 4.45
962 3091 3.639099 ACATCACCTTGTGAGCCAG 57.361 52.632 3.11 0.00 46.04 4.85
968 3097 2.620115 ACTGCTTTCACATCACCTTGTG 59.380 45.455 0.00 0.00 46.70 3.33
969 3098 2.936202 ACTGCTTTCACATCACCTTGT 58.064 42.857 0.00 0.00 0.00 3.16
970 3099 3.996150 AACTGCTTTCACATCACCTTG 57.004 42.857 0.00 0.00 0.00 3.61
971 3100 5.133221 AGTTAACTGCTTTCACATCACCTT 58.867 37.500 7.48 0.00 0.00 3.50
972 3101 4.718961 AGTTAACTGCTTTCACATCACCT 58.281 39.130 7.48 0.00 0.00 4.00
973 3102 5.438761 AAGTTAACTGCTTTCACATCACC 57.561 39.130 9.34 0.00 0.00 4.02
974 3103 6.976350 GAAAGTTAACTGCTTTCACATCAC 57.024 37.500 9.34 0.00 46.49 3.06
1021 3150 2.052157 GAATTACTAGCTAGCACCGCG 58.948 52.381 20.91 0.00 0.00 6.46
1022 3151 3.372660 AGAATTACTAGCTAGCACCGC 57.627 47.619 20.91 7.91 0.00 5.68
1030 3159 5.916661 TCTCCGTGAAAGAATTACTAGCT 57.083 39.130 0.00 0.00 0.00 3.32
1035 3167 5.927115 AGTCAGTTCTCCGTGAAAGAATTAC 59.073 40.000 0.00 0.00 35.35 1.89
1048 3180 3.063485 GTCTGCTTTCAGTCAGTTCTCC 58.937 50.000 0.00 0.00 41.10 3.71
1078 3210 1.036707 CTCTCCCTGTCGATCCCTTC 58.963 60.000 0.00 0.00 0.00 3.46
1428 3612 4.552365 ATCATGACGCGGCCCCAG 62.552 66.667 10.82 0.00 0.00 4.45
1612 3811 2.279120 GATCAGCCTCACGCCGAG 60.279 66.667 0.00 0.00 41.89 4.63
1633 3832 2.685380 CAGCGGAGTCCTCCCCTT 60.685 66.667 7.77 0.00 46.96 3.95
1699 3898 4.796231 GAGCGCGTCCGTCACCAT 62.796 66.667 8.43 0.00 36.67 3.55
1719 3918 3.635191 TGCTCCACCGCCATGTCA 61.635 61.111 0.00 0.00 0.00 3.58
1808 4007 5.459505 ACTACCTCTGACCAATAGCAGTAT 58.540 41.667 0.00 0.00 33.90 2.12
1835 4034 8.626526 TCTTTCTTACACAAAACTAAATCCCAC 58.373 33.333 0.00 0.00 0.00 4.61
1866 4066 5.957798 ACACCTCAGCAACATGATTAATTG 58.042 37.500 0.00 0.00 0.00 2.32
1870 4070 4.910195 AGAACACCTCAGCAACATGATTA 58.090 39.130 0.00 0.00 0.00 1.75
1890 4090 7.768582 TGCTAATTATGCTTTTAGTGCACTAGA 59.231 33.333 24.79 19.01 43.59 2.43
1899 4099 6.486248 TCAAGCGTGCTAATTATGCTTTTAG 58.514 36.000 3.83 0.00 45.40 1.85
1946 4146 7.405469 TGTGTTGATTTTGTGCACATTTATC 57.595 32.000 22.39 21.29 35.48 1.75
1955 4155 2.096614 GCATGCTGTGTTGATTTTGTGC 60.097 45.455 11.37 0.00 0.00 4.57
1961 4161 6.704289 AGTTATATGCATGCTGTGTTGATT 57.296 33.333 20.33 0.00 0.00 2.57
2003 4203 6.816140 TCTTGTGATGTGCGTATCTTATTTGA 59.184 34.615 2.29 0.00 0.00 2.69
2015 4215 3.607422 TTTCTTGTCTTGTGATGTGCG 57.393 42.857 0.00 0.00 0.00 5.34
2016 4216 4.671377 TGTTTTCTTGTCTTGTGATGTGC 58.329 39.130 0.00 0.00 0.00 4.57
2132 4337 9.539825 TGCTGCTAAATTTAATTTTTCAGTTCA 57.460 25.926 21.07 14.18 35.11 3.18
2143 4351 9.820725 TGCATCTAAATTGCTGCTAAATTTAAT 57.179 25.926 14.78 10.40 38.40 1.40
2145 4353 9.467258 GATGCATCTAAATTGCTGCTAAATTTA 57.533 29.630 19.70 13.78 40.77 1.40
2178 4386 0.379669 CAGAGGCATCGGCAATGTTC 59.620 55.000 0.00 0.44 43.71 3.18
2192 4400 7.338710 TCCTAATGACCACTAAATTTCAGAGG 58.661 38.462 0.00 2.24 0.00 3.69
2208 4416 7.067494 ACTGTTTATCAATTGGCTCCTAATGAC 59.933 37.037 5.42 0.00 0.00 3.06
2226 4436 4.896482 TGCCCCTTGTTTTGTACTGTTTAT 59.104 37.500 0.00 0.00 0.00 1.40
2236 4446 5.243730 TCTTCTATCTTTGCCCCTTGTTTTG 59.756 40.000 0.00 0.00 0.00 2.44
2378 4588 2.291411 ACATTGCAATGAAGAGGAGCCT 60.291 45.455 38.99 15.02 39.67 4.58
2509 4719 5.402997 TGCTTTGATTTTGATATGTGGCA 57.597 34.783 0.00 0.00 0.00 4.92
2857 5067 6.208988 TGTGTGACTCTAGTGAATCATACC 57.791 41.667 0.00 0.00 38.95 2.73
2894 5104 9.859427 CAAGGATGTTCAGCTTTATATTTGAAA 57.141 29.630 0.00 0.00 31.98 2.69
2897 5107 8.680903 AGACAAGGATGTTCAGCTTTATATTTG 58.319 33.333 0.00 0.00 40.74 2.32
3032 5244 5.449107 TGTTAGAACTCTTTACGAGCACT 57.551 39.130 0.00 0.00 43.85 4.40
3073 5285 9.575783 CTCACTTTCTAGGTTAGACTTATGTTC 57.424 37.037 0.00 0.00 33.84 3.18


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

AutoCloner maintained by Alex Coulton.