Multiple sequence alignment - TraesCS4A01G143800

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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 TraesCS4A01G143800 chr4A 100.000 3041 0 0 1 3041 239580127 239577087 0.000000e+00 5616.0
1 TraesCS4A01G143800 chr4D 92.855 2883 171 24 171 3040 246519052 246516192 0.000000e+00 4150.0
2 TraesCS4A01G143800 chr4D 74.018 662 147 24 1370 2016 328185283 328184632 2.340000e-61 246.0
3 TraesCS4A01G143800 chr4D 80.365 219 39 4 74 291 62307125 62307340 2.430000e-36 163.0
4 TraesCS4A01G143800 chr4B 92.461 2706 170 23 349 3040 267669056 267671741 0.000000e+00 3836.0
5 TraesCS4A01G143800 chr2B 81.166 892 128 21 1184 2043 135775629 135776512 0.000000e+00 680.0
6 TraesCS4A01G143800 chr2A 81.308 856 125 15 1184 2011 84646376 84647224 0.000000e+00 662.0
7 TraesCS4A01G143800 chr2A 78.214 280 57 3 2577 2852 564622038 564622317 3.120000e-40 176.0
8 TraesCS4A01G143800 chr2A 77.934 213 44 2 81 291 726971748 726971537 2.460000e-26 130.0
9 TraesCS4A01G143800 chr2D 81.075 856 127 16 1184 2011 83859541 83860389 0.000000e+00 651.0
10 TraesCS4A01G143800 chr3D 84.322 472 61 8 2577 3041 615235260 615234795 1.660000e-122 449.0
11 TraesCS4A01G143800 chr3D 76.757 370 62 16 81 437 85221247 85220889 5.180000e-43 185.0
12 TraesCS4A01G143800 chr3D 80.097 206 36 5 2577 2778 81218991 81219195 6.790000e-32 148.0
13 TraesCS4A01G143800 chr5B 83.111 450 65 8 2599 3041 109226503 109226948 1.700000e-107 399.0
14 TraesCS4A01G143800 chr5B 79.237 236 43 4 60 291 429776499 429776732 3.140000e-35 159.0
15 TraesCS4A01G143800 chr6D 80.000 465 79 10 2589 3041 145005145 145005607 6.280000e-87 331.0
16 TraesCS4A01G143800 chr7D 77.632 456 91 7 2578 3024 175768955 175769408 1.800000e-67 267.0
17 TraesCS4A01G143800 chr5D 77.197 478 93 10 2578 3041 416792359 416792834 6.460000e-67 265.0
18 TraesCS4A01G143800 chr5D 75.304 247 59 2 1370 1615 358592715 358592470 1.920000e-22 117.0
19 TraesCS4A01G143800 chr7A 78.733 221 45 1 81 299 35596910 35596690 2.440000e-31 147.0
20 TraesCS4A01G143800 chr7B 75.481 208 44 7 88 291 66467207 66467411 8.980000e-16 95.3
21 TraesCS4A01G143800 chr3A 74.272 206 43 7 84 286 442292600 442292798 9.040000e-11 78.7


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 TraesCS4A01G143800 chr4A 239577087 239580127 3040 True 5616 5616 100.000 1 3041 1 chr4A.!!$R1 3040
1 TraesCS4A01G143800 chr4D 246516192 246519052 2860 True 4150 4150 92.855 171 3040 1 chr4D.!!$R1 2869
2 TraesCS4A01G143800 chr4D 328184632 328185283 651 True 246 246 74.018 1370 2016 1 chr4D.!!$R2 646
3 TraesCS4A01G143800 chr4B 267669056 267671741 2685 False 3836 3836 92.461 349 3040 1 chr4B.!!$F1 2691
4 TraesCS4A01G143800 chr2B 135775629 135776512 883 False 680 680 81.166 1184 2043 1 chr2B.!!$F1 859
5 TraesCS4A01G143800 chr2A 84646376 84647224 848 False 662 662 81.308 1184 2011 1 chr2A.!!$F1 827
6 TraesCS4A01G143800 chr2D 83859541 83860389 848 False 651 651 81.075 1184 2011 1 chr2D.!!$F1 827

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
369 370 0.032952 GGTCAGTGCGGTTAGACACA 59.967 55.0 0.0 0.0 39.3 3.72 F
1465 1467 0.108804 CATCTACCTTGCCGACACGT 60.109 55.0 0.0 0.0 0.0 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1662 1688 0.319211 CGGTGTTGAAGTAGCACGGA 60.319 55.0 0.0 0.0 41.30 4.69 R
2866 2909 0.036732 TGGTGAGTCCAAGATGGTGC 59.963 55.0 0.0 0.0 44.12 5.01 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
23 24 2.345991 TGGCTCAGGCACGGTAAC 59.654 61.111 0.00 0.00 40.87 2.50
24 25 2.345991 GGCTCAGGCACGGTAACA 59.654 61.111 0.00 0.00 40.87 2.41
25 26 1.302192 GGCTCAGGCACGGTAACAA 60.302 57.895 0.00 0.00 40.87 2.83
26 27 1.298859 GGCTCAGGCACGGTAACAAG 61.299 60.000 0.00 0.00 40.87 3.16
27 28 1.298859 GCTCAGGCACGGTAACAAGG 61.299 60.000 0.00 0.00 38.54 3.61
28 29 0.320374 CTCAGGCACGGTAACAAGGA 59.680 55.000 0.00 0.00 0.00 3.36
29 30 0.759959 TCAGGCACGGTAACAAGGAA 59.240 50.000 0.00 0.00 0.00 3.36
30 31 1.156736 CAGGCACGGTAACAAGGAAG 58.843 55.000 0.00 0.00 0.00 3.46
31 32 0.036306 AGGCACGGTAACAAGGAAGG 59.964 55.000 0.00 0.00 0.00 3.46
32 33 0.958876 GGCACGGTAACAAGGAAGGG 60.959 60.000 0.00 0.00 0.00 3.95
33 34 0.958876 GCACGGTAACAAGGAAGGGG 60.959 60.000 0.00 0.00 0.00 4.79
34 35 0.688487 CACGGTAACAAGGAAGGGGA 59.312 55.000 0.00 0.00 0.00 4.81
35 36 0.981943 ACGGTAACAAGGAAGGGGAG 59.018 55.000 0.00 0.00 0.00 4.30
36 37 0.252197 CGGTAACAAGGAAGGGGAGG 59.748 60.000 0.00 0.00 0.00 4.30
37 38 0.624254 GGTAACAAGGAAGGGGAGGG 59.376 60.000 0.00 0.00 0.00 4.30
38 39 0.624254 GTAACAAGGAAGGGGAGGGG 59.376 60.000 0.00 0.00 0.00 4.79
39 40 0.551624 TAACAAGGAAGGGGAGGGGG 60.552 60.000 0.00 0.00 0.00 5.40
40 41 3.744155 CAAGGAAGGGGAGGGGGC 61.744 72.222 0.00 0.00 0.00 5.80
44 45 4.426313 GAAGGGGAGGGGGCGTTG 62.426 72.222 0.00 0.00 0.00 4.10
58 59 4.410400 GTTGCTCGGGGAGGGGTG 62.410 72.222 0.00 0.00 0.00 4.61
70 71 4.875713 GGGGTGGGTGCGCCTATG 62.876 72.222 17.49 0.00 38.31 2.23
71 72 4.109675 GGGTGGGTGCGCCTATGT 62.110 66.667 17.49 0.00 34.45 2.29
72 73 2.737881 GGGTGGGTGCGCCTATGTA 61.738 63.158 17.49 0.00 34.45 2.29
73 74 1.523032 GGTGGGTGCGCCTATGTAC 60.523 63.158 17.49 7.80 34.45 2.90
74 75 1.881252 GTGGGTGCGCCTATGTACG 60.881 63.158 17.49 0.00 34.45 3.67
75 76 2.352821 TGGGTGCGCCTATGTACGT 61.353 57.895 17.49 0.00 34.45 3.57
76 77 1.590792 GGGTGCGCCTATGTACGTC 60.591 63.158 17.49 0.00 34.45 4.34
77 78 1.942712 GGTGCGCCTATGTACGTCG 60.943 63.158 9.68 0.00 0.00 5.12
78 79 2.278336 TGCGCCTATGTACGTCGC 60.278 61.111 4.18 11.52 45.23 5.19
79 80 2.025727 GCGCCTATGTACGTCGCT 59.974 61.111 11.24 0.00 42.19 4.93
80 81 2.293627 GCGCCTATGTACGTCGCTG 61.294 63.158 11.24 4.34 42.19 5.18
81 82 1.657487 CGCCTATGTACGTCGCTGG 60.657 63.158 0.00 0.00 0.00 4.85
82 83 1.949631 GCCTATGTACGTCGCTGGC 60.950 63.158 0.00 0.00 0.00 4.85
83 84 1.657487 CCTATGTACGTCGCTGGCG 60.657 63.158 8.80 8.80 41.35 5.69
84 85 2.278336 TATGTACGTCGCTGGCGC 60.278 61.111 10.28 0.00 39.59 6.53
85 86 2.930012 CTATGTACGTCGCTGGCGCA 62.930 60.000 10.83 2.57 39.59 6.09
86 87 2.344521 TATGTACGTCGCTGGCGCAT 62.345 55.000 10.83 9.63 39.59 4.73
87 88 3.913573 GTACGTCGCTGGCGCATG 61.914 66.667 10.83 1.32 39.59 4.06
92 93 4.465480 TCGCTGGCGCATGGCTTA 62.465 61.111 10.83 0.00 42.94 3.09
93 94 3.507924 CGCTGGCGCATGGCTTAA 61.508 61.111 10.83 0.00 42.94 1.85
94 95 2.884367 GCTGGCGCATGGCTTAAA 59.116 55.556 10.83 0.00 42.94 1.52
95 96 1.438814 GCTGGCGCATGGCTTAAAT 59.561 52.632 10.83 0.00 42.94 1.40
96 97 0.667993 GCTGGCGCATGGCTTAAATA 59.332 50.000 10.83 0.00 42.94 1.40
97 98 1.335324 GCTGGCGCATGGCTTAAATAG 60.335 52.381 10.83 0.00 42.94 1.73
105 106 2.637589 GCTTAAATAGCCGCGGCC 59.362 61.111 44.47 27.39 44.48 6.13
106 107 2.184167 GCTTAAATAGCCGCGGCCA 61.184 57.895 44.47 34.90 44.48 5.36
107 108 1.941812 CTTAAATAGCCGCGGCCAG 59.058 57.895 44.47 25.94 43.17 4.85
108 109 1.507141 CTTAAATAGCCGCGGCCAGG 61.507 60.000 44.47 23.58 43.17 4.45
137 138 4.329545 GCCGGTCAGCCCACTTCA 62.330 66.667 1.90 0.00 0.00 3.02
138 139 2.429930 CCGGTCAGCCCACTTCAA 59.570 61.111 0.00 0.00 0.00 2.69
139 140 1.002134 CCGGTCAGCCCACTTCAAT 60.002 57.895 0.00 0.00 0.00 2.57
140 141 1.308069 CCGGTCAGCCCACTTCAATG 61.308 60.000 0.00 0.00 0.00 2.82
141 142 1.885871 GGTCAGCCCACTTCAATGC 59.114 57.895 0.00 0.00 0.00 3.56
142 143 1.503542 GTCAGCCCACTTCAATGCG 59.496 57.895 0.00 0.00 0.00 4.73
143 144 1.675310 TCAGCCCACTTCAATGCGG 60.675 57.895 0.00 0.00 0.00 5.69
144 145 3.064324 AGCCCACTTCAATGCGGC 61.064 61.111 0.00 0.00 36.63 6.53
145 146 3.372730 GCCCACTTCAATGCGGCA 61.373 61.111 4.58 4.58 36.49 5.69
146 147 2.879907 CCCACTTCAATGCGGCAG 59.120 61.111 9.25 0.00 0.00 4.85
147 148 1.675310 CCCACTTCAATGCGGCAGA 60.675 57.895 9.25 0.00 0.00 4.26
148 149 1.651240 CCCACTTCAATGCGGCAGAG 61.651 60.000 9.25 3.29 0.00 3.35
149 150 1.136147 CACTTCAATGCGGCAGAGC 59.864 57.895 9.25 0.00 37.71 4.09
150 151 2.393768 ACTTCAATGCGGCAGAGCG 61.394 57.895 9.25 0.00 40.67 5.03
151 152 3.104602 CTTCAATGCGGCAGAGCGG 62.105 63.158 9.25 0.00 40.67 5.52
152 153 3.899981 TTCAATGCGGCAGAGCGGT 62.900 57.895 9.25 0.00 40.67 5.68
153 154 3.869272 CAATGCGGCAGAGCGGTC 61.869 66.667 9.25 6.48 40.67 4.79
158 159 4.421479 CGGCAGAGCGGTCGAAGT 62.421 66.667 9.28 0.00 0.00 3.01
159 160 2.048127 GGCAGAGCGGTCGAAGTT 60.048 61.111 9.28 0.00 0.00 2.66
160 161 2.383527 GGCAGAGCGGTCGAAGTTG 61.384 63.158 9.28 2.59 0.00 3.16
161 162 1.372997 GCAGAGCGGTCGAAGTTGA 60.373 57.895 9.28 0.00 0.00 3.18
162 163 0.737715 GCAGAGCGGTCGAAGTTGAT 60.738 55.000 9.28 0.00 0.00 2.57
163 164 1.714794 CAGAGCGGTCGAAGTTGATT 58.285 50.000 9.28 0.00 0.00 2.57
164 165 2.069273 CAGAGCGGTCGAAGTTGATTT 58.931 47.619 9.28 0.00 0.00 2.17
165 166 2.092838 CAGAGCGGTCGAAGTTGATTTC 59.907 50.000 9.28 0.00 0.00 2.17
166 167 2.028930 AGAGCGGTCGAAGTTGATTTCT 60.029 45.455 9.28 0.00 0.00 2.52
167 168 2.338500 AGCGGTCGAAGTTGATTTCTC 58.662 47.619 0.00 0.00 0.00 2.87
168 169 1.059264 GCGGTCGAAGTTGATTTCTCG 59.941 52.381 0.00 0.00 0.00 4.04
169 170 1.654105 CGGTCGAAGTTGATTTCTCGG 59.346 52.381 0.00 0.00 0.00 4.63
170 171 2.685100 GGTCGAAGTTGATTTCTCGGT 58.315 47.619 0.00 0.00 0.00 4.69
171 172 3.671433 CGGTCGAAGTTGATTTCTCGGTA 60.671 47.826 0.00 0.00 0.00 4.02
172 173 3.611549 GGTCGAAGTTGATTTCTCGGTAC 59.388 47.826 0.00 0.00 0.00 3.34
186 187 2.744709 GTACGTGGTGCCCGCATT 60.745 61.111 0.00 0.00 32.88 3.56
191 192 2.115052 TGGTGCCCGCATTGAAGT 59.885 55.556 0.00 0.00 0.00 3.01
194 195 2.115052 TGCCCGCATTGAAGTGGT 59.885 55.556 0.00 0.00 37.47 4.16
200 201 1.210155 GCATTGAAGTGGTGACGCC 59.790 57.895 0.00 0.00 43.65 5.68
213 214 2.974489 GACGCCCGAGAGAACACGA 61.974 63.158 0.00 0.00 32.29 4.35
218 219 1.285023 CCGAGAGAACACGACCGTT 59.715 57.895 0.00 0.00 32.29 4.44
246 247 1.064296 CTCCCGTCTGGTCGAATCG 59.936 63.158 0.00 0.00 34.77 3.34
247 248 2.582498 CCCGTCTGGTCGAATCGC 60.582 66.667 0.00 0.00 0.00 4.58
248 249 2.180769 CCGTCTGGTCGAATCGCA 59.819 61.111 0.00 0.00 0.00 5.10
260 261 1.655600 CGAATCGCAGCATCAATGTCG 60.656 52.381 0.00 0.00 0.00 4.35
291 292 0.604780 CTCTAGGCCGGCATGAATGG 60.605 60.000 30.85 10.20 0.00 3.16
314 315 0.039527 GCGGGCGTTTGATGAAAAGT 60.040 50.000 0.00 0.00 0.00 2.66
316 317 1.665735 CGGGCGTTTGATGAAAAGTGG 60.666 52.381 0.00 0.00 0.00 4.00
319 320 1.611491 GCGTTTGATGAAAAGTGGGGA 59.389 47.619 0.00 0.00 0.00 4.81
328 329 2.426305 AAAAGTGGGGAAGAGGCGGG 62.426 60.000 0.00 0.00 0.00 6.13
329 330 4.658786 AGTGGGGAAGAGGCGGGT 62.659 66.667 0.00 0.00 0.00 5.28
330 331 4.410400 GTGGGGAAGAGGCGGGTG 62.410 72.222 0.00 0.00 0.00 4.61
369 370 0.032952 GGTCAGTGCGGTTAGACACA 59.967 55.000 0.00 0.00 39.30 3.72
372 373 1.004918 AGTGCGGTTAGACACAGGC 60.005 57.895 0.00 0.00 39.30 4.85
394 395 2.499205 CAGCGGTTCGGATGCCTA 59.501 61.111 0.00 0.00 0.00 3.93
402 403 2.480845 GTTCGGATGCCTATAAAGCGT 58.519 47.619 0.00 0.00 0.00 5.07
418 419 4.338379 AAGCGTCCTTTAGTTTGTCTCT 57.662 40.909 0.00 0.00 0.00 3.10
419 420 5.464030 AAGCGTCCTTTAGTTTGTCTCTA 57.536 39.130 0.00 0.00 0.00 2.43
439 440 4.923281 TCTAGTTTACGGGAAAAAGTACGC 59.077 41.667 0.00 0.00 0.00 4.42
446 447 1.610886 GGGAAAAAGTACGCTCAGGCT 60.611 52.381 0.00 0.00 36.09 4.58
449 450 2.256117 AAAAGTACGCTCAGGCTGTT 57.744 45.000 15.27 0.00 36.09 3.16
451 452 0.679505 AAGTACGCTCAGGCTGTTCA 59.320 50.000 15.27 0.00 36.09 3.18
461 462 2.166459 TCAGGCTGTTCAATAGACCGAG 59.834 50.000 15.27 0.00 0.00 4.63
467 468 4.143094 GCTGTTCAATAGACCGAGACAAAC 60.143 45.833 0.00 0.00 0.00 2.93
470 471 2.094390 TCAATAGACCGAGACAAACCCG 60.094 50.000 0.00 0.00 0.00 5.28
473 474 3.853597 GACCGAGACAAACCCGCGT 62.854 63.158 4.92 0.00 0.00 6.01
474 475 2.663852 CCGAGACAAACCCGCGTT 60.664 61.111 4.92 0.00 0.00 4.84
475 476 2.248835 CCGAGACAAACCCGCGTTT 61.249 57.895 4.92 0.00 43.09 3.60
481 482 4.246053 AAACCCGCGTTTGGAACT 57.754 50.000 4.92 0.00 40.74 3.01
487 488 0.596082 CCGCGTTTGGAACTTTGGAT 59.404 50.000 4.92 0.00 0.00 3.41
492 493 3.305335 GCGTTTGGAACTTTGGATGACAT 60.305 43.478 0.00 0.00 0.00 3.06
501 502 7.015098 TGGAACTTTGGATGACATAACACATTT 59.985 33.333 0.00 0.00 0.00 2.32
502 503 7.329226 GGAACTTTGGATGACATAACACATTTG 59.671 37.037 0.00 0.00 0.00 2.32
503 504 7.523293 ACTTTGGATGACATAACACATTTGA 57.477 32.000 0.00 0.00 0.00 2.69
505 506 8.587608 ACTTTGGATGACATAACACATTTGAAT 58.412 29.630 0.00 0.00 0.00 2.57
528 529 3.055719 GGTCCGGACGTACGTGGA 61.056 66.667 28.16 23.52 0.00 4.02
529 530 2.409870 GGTCCGGACGTACGTGGAT 61.410 63.158 28.16 0.00 32.18 3.41
535 536 1.082117 GGACGTACGTGGATGGCTTG 61.082 60.000 28.16 0.00 0.00 4.01
580 581 7.393515 GTCCTAATGTTGTCCCTGTTTCTAATT 59.606 37.037 0.00 0.00 0.00 1.40
592 593 6.981559 CCCTGTTTCTAATTAGACAGTAGCTC 59.018 42.308 22.94 5.93 29.33 4.09
620 621 6.899393 AAGCATTAATTTGGAGTCAACTGA 57.101 33.333 0.00 0.00 31.78 3.41
646 647 4.393062 GCCAATCCATATTACTCCATGTCG 59.607 45.833 0.00 0.00 0.00 4.35
651 652 4.038763 TCCATATTACTCCATGTCGACACC 59.961 45.833 22.71 0.00 0.00 4.16
691 692 5.383476 TCCAACTATAGGTAGTAGAGCCAC 58.617 45.833 4.43 0.00 40.24 5.01
692 693 5.103813 TCCAACTATAGGTAGTAGAGCCACA 60.104 44.000 4.43 0.00 40.24 4.17
970 972 0.322997 CCGGCCACCCTTCAATTGTA 60.323 55.000 2.24 0.00 0.00 2.41
980 982 1.003545 CTTCAATTGTATCGCCCGCTG 60.004 52.381 5.13 0.00 0.00 5.18
1119 1121 3.508840 CGGCAGCCGTTGGATTCC 61.509 66.667 26.69 0.00 42.73 3.01
1377 1379 0.248743 GCGTGTACCGATTCGATCCA 60.249 55.000 7.83 0.00 39.56 3.41
1465 1467 0.108804 CATCTACCTTGCCGACACGT 60.109 55.000 0.00 0.00 0.00 4.49
1587 1598 2.584608 GCACCGGAGTACTGCCAT 59.415 61.111 9.46 0.00 0.00 4.40
1789 1821 1.404843 GATCTACCACCTCGGCTCTT 58.595 55.000 0.00 0.00 39.03 2.85
1818 1850 4.069232 CTTCTGGTGCTCGCCGGA 62.069 66.667 5.05 6.89 41.82 5.14
2193 2232 3.801698 TGCATCTCTTCCTATCACTTGC 58.198 45.455 0.00 0.00 0.00 4.01
2246 2285 5.337652 CGAAGGGTGGTAGAAGAAGAGAAAT 60.338 44.000 0.00 0.00 0.00 2.17
2311 2350 2.008242 TAGGTGGGTGCAAATTGCTT 57.992 45.000 19.34 0.00 45.31 3.91
2314 2353 2.092484 AGGTGGGTGCAAATTGCTTTTT 60.092 40.909 19.34 0.00 45.31 1.94
2324 2363 5.342433 GCAAATTGCTTTTTCTTTTGCCTT 58.658 33.333 11.19 0.00 43.83 4.35
2430 2469 1.357137 TTAGTGTGCATGGTGGGAGA 58.643 50.000 0.00 0.00 0.00 3.71
2470 2509 9.710900 TGCTCAAGAATATGTATACTATTGGTG 57.289 33.333 4.17 6.42 0.00 4.17
2606 2646 9.719279 TTTTATAAAAGGCGGAATACAATTACG 57.281 29.630 6.54 0.00 0.00 3.18
2608 2648 5.883503 AAAAGGCGGAATACAATTACGAA 57.116 34.783 8.40 0.00 0.00 3.85
2615 2655 6.292008 GGCGGAATACAATTACGAAAGACTAC 60.292 42.308 8.40 0.00 0.00 2.73
2622 2662 9.871238 ATACAATTACGAAAGACTACAACTCAT 57.129 29.630 0.00 0.00 0.00 2.90
2635 2675 4.305989 ACAACTCATTGCGAACAACAAT 57.694 36.364 0.00 0.00 38.99 2.71
2643 2683 9.109393 ACTCATTGCGAACAACAATTATAGTAT 57.891 29.630 0.00 0.00 38.99 2.12
2668 2708 1.271707 ACCACACCCAAACTAATCCGG 60.272 52.381 0.00 0.00 0.00 5.14
2716 2756 1.308998 CAACGCAAAGGAACCTGTCT 58.691 50.000 0.00 0.00 0.00 3.41
2733 2776 0.106769 TCTTGACAGCAACAAGGCCA 60.107 50.000 5.01 0.00 43.11 5.36
2735 2778 0.395586 TTGACAGCAACAAGGCCACT 60.396 50.000 5.01 0.00 0.00 4.00
2737 2780 0.312102 GACAGCAACAAGGCCACTTC 59.688 55.000 5.01 0.00 33.81 3.01
2767 2810 3.576982 ACACCGATCACCTCAAAGAGTAA 59.423 43.478 0.00 0.00 0.00 2.24
2770 2813 4.039973 ACCGATCACCTCAAAGAGTAACAA 59.960 41.667 0.00 0.00 0.00 2.83
2779 2822 7.066525 CACCTCAAAGAGTAACAACTTTAACCA 59.933 37.037 0.00 0.00 35.07 3.67
2795 2838 1.376037 CCAGACTTCCCTTGCCGAC 60.376 63.158 0.00 0.00 0.00 4.79
2797 2840 2.434359 GACTTCCCTTGCCGACGG 60.434 66.667 10.29 10.29 0.00 4.79
2803 2846 2.742372 CCTTGCCGACGGACCAAG 60.742 66.667 20.50 20.79 36.58 3.61
2866 2909 2.361230 GGTTGGCCCCGAGAAAGG 60.361 66.667 0.00 0.00 0.00 3.11
2911 2955 0.669077 ACGTACATTGCGCCCAAAAA 59.331 45.000 4.18 0.00 34.05 1.94
2914 2958 2.324860 GTACATTGCGCCCAAAAACTC 58.675 47.619 4.18 0.00 34.05 3.01
2920 2964 1.202710 TGCGCCCAAAAACTCTACTCA 60.203 47.619 4.18 0.00 0.00 3.41
2936 2980 1.018148 CTCAGACTAGCGACACGGAT 58.982 55.000 0.00 0.00 0.00 4.18
2954 2998 2.593468 ATTGGAGGACCGCATCACCG 62.593 60.000 0.00 0.00 39.42 4.94
2971 3015 0.609131 CCGAACCTCCAAGCCATGTT 60.609 55.000 0.00 0.00 0.00 2.71
2973 3017 1.068333 CGAACCTCCAAGCCATGTTTG 60.068 52.381 0.00 0.00 0.00 2.93
2977 3025 0.387622 CTCCAAGCCATGTTTGCACG 60.388 55.000 0.00 0.00 0.00 5.34
2988 3036 0.527565 GTTTGCACGATGCTCCCAAT 59.472 50.000 10.54 0.00 45.31 3.16
3040 3088 2.011540 GTCCAAGACCTAGGCTTTCG 57.988 55.000 9.30 6.15 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.901114 TTACCGTGCCTGAGCCACTA 60.901 55.000 0.00 0.00 38.69 2.74
5 6 2.033194 GTTACCGTGCCTGAGCCAC 61.033 63.158 0.00 0.00 38.69 5.01
6 7 2.046009 TTGTTACCGTGCCTGAGCCA 62.046 55.000 0.00 0.00 38.69 4.75
7 8 1.298859 CTTGTTACCGTGCCTGAGCC 61.299 60.000 0.00 0.00 38.69 4.70
8 9 1.298859 CCTTGTTACCGTGCCTGAGC 61.299 60.000 0.00 0.00 40.48 4.26
9 10 0.320374 TCCTTGTTACCGTGCCTGAG 59.680 55.000 0.00 0.00 0.00 3.35
10 11 0.759959 TTCCTTGTTACCGTGCCTGA 59.240 50.000 0.00 0.00 0.00 3.86
11 12 1.156736 CTTCCTTGTTACCGTGCCTG 58.843 55.000 0.00 0.00 0.00 4.85
12 13 0.036306 CCTTCCTTGTTACCGTGCCT 59.964 55.000 0.00 0.00 0.00 4.75
13 14 0.958876 CCCTTCCTTGTTACCGTGCC 60.959 60.000 0.00 0.00 0.00 5.01
14 15 0.958876 CCCCTTCCTTGTTACCGTGC 60.959 60.000 0.00 0.00 0.00 5.34
15 16 0.688487 TCCCCTTCCTTGTTACCGTG 59.312 55.000 0.00 0.00 0.00 4.94
16 17 0.981943 CTCCCCTTCCTTGTTACCGT 59.018 55.000 0.00 0.00 0.00 4.83
17 18 0.252197 CCTCCCCTTCCTTGTTACCG 59.748 60.000 0.00 0.00 0.00 4.02
18 19 0.624254 CCCTCCCCTTCCTTGTTACC 59.376 60.000 0.00 0.00 0.00 2.85
19 20 0.624254 CCCCTCCCCTTCCTTGTTAC 59.376 60.000 0.00 0.00 0.00 2.50
20 21 0.551624 CCCCCTCCCCTTCCTTGTTA 60.552 60.000 0.00 0.00 0.00 2.41
21 22 1.857348 CCCCCTCCCCTTCCTTGTT 60.857 63.158 0.00 0.00 0.00 2.83
22 23 2.204306 CCCCCTCCCCTTCCTTGT 60.204 66.667 0.00 0.00 0.00 3.16
23 24 3.744155 GCCCCCTCCCCTTCCTTG 61.744 72.222 0.00 0.00 0.00 3.61
27 28 4.426313 CAACGCCCCCTCCCCTTC 62.426 72.222 0.00 0.00 0.00 3.46
41 42 4.410400 CACCCCTCCCCGAGCAAC 62.410 72.222 0.00 0.00 0.00 4.17
53 54 4.875713 CATAGGCGCACCCACCCC 62.876 72.222 10.83 0.00 36.11 4.95
54 55 2.737881 TACATAGGCGCACCCACCC 61.738 63.158 10.83 0.00 36.11 4.61
55 56 1.523032 GTACATAGGCGCACCCACC 60.523 63.158 10.83 0.00 36.11 4.61
56 57 1.881252 CGTACATAGGCGCACCCAC 60.881 63.158 10.83 0.00 36.11 4.61
57 58 2.287457 GACGTACATAGGCGCACCCA 62.287 60.000 10.83 0.00 36.11 4.51
58 59 1.590792 GACGTACATAGGCGCACCC 60.591 63.158 10.83 0.00 36.11 4.61
59 60 1.942712 CGACGTACATAGGCGCACC 60.943 63.158 10.83 0.00 0.00 5.01
60 61 2.574222 GCGACGTACATAGGCGCAC 61.574 63.158 10.83 0.00 46.19 5.34
61 62 2.278336 GCGACGTACATAGGCGCA 60.278 61.111 10.83 0.00 46.19 6.09
63 64 1.657487 CCAGCGACGTACATAGGCG 60.657 63.158 0.00 0.00 0.00 5.52
64 65 1.949631 GCCAGCGACGTACATAGGC 60.950 63.158 0.00 0.00 0.00 3.93
65 66 1.657487 CGCCAGCGACGTACATAGG 60.657 63.158 6.06 0.00 42.83 2.57
66 67 2.293627 GCGCCAGCGACGTACATAG 61.294 63.158 17.53 0.00 42.83 2.23
67 68 2.278336 GCGCCAGCGACGTACATA 60.278 61.111 17.53 0.00 42.83 2.29
77 78 0.667993 TATTTAAGCCATGCGCCAGC 59.332 50.000 4.18 4.89 45.41 4.85
78 79 1.335324 GCTATTTAAGCCATGCGCCAG 60.335 52.381 4.18 0.00 46.25 4.85
79 80 0.667993 GCTATTTAAGCCATGCGCCA 59.332 50.000 4.18 0.00 46.25 5.69
80 81 3.479255 GCTATTTAAGCCATGCGCC 57.521 52.632 4.18 0.00 46.25 6.53
89 90 1.507141 CCTGGCCGCGGCTATTTAAG 61.507 60.000 45.23 30.06 41.60 1.85
90 91 1.525077 CCTGGCCGCGGCTATTTAA 60.525 57.895 45.23 24.01 41.60 1.52
91 92 2.110213 CCTGGCCGCGGCTATTTA 59.890 61.111 45.23 26.00 41.60 1.40
120 121 3.842925 TTGAAGTGGGCTGACCGGC 62.843 63.158 0.00 0.00 44.64 6.13
121 122 1.002134 ATTGAAGTGGGCTGACCGG 60.002 57.895 0.00 0.00 44.64 5.28
122 123 1.926511 GCATTGAAGTGGGCTGACCG 61.927 60.000 0.00 0.00 44.64 4.79
123 124 1.885871 GCATTGAAGTGGGCTGACC 59.114 57.895 0.00 0.00 40.81 4.02
124 125 1.503542 CGCATTGAAGTGGGCTGAC 59.496 57.895 0.00 0.00 0.00 3.51
125 126 1.675310 CCGCATTGAAGTGGGCTGA 60.675 57.895 0.00 0.00 35.52 4.26
126 127 2.879907 CCGCATTGAAGTGGGCTG 59.120 61.111 0.00 0.00 35.52 4.85
127 128 3.064324 GCCGCATTGAAGTGGGCT 61.064 61.111 0.00 0.00 40.59 5.19
128 129 3.346631 CTGCCGCATTGAAGTGGGC 62.347 63.158 0.00 0.00 44.00 5.36
129 130 1.651240 CTCTGCCGCATTGAAGTGGG 61.651 60.000 0.00 0.00 39.57 4.61
130 131 1.798735 CTCTGCCGCATTGAAGTGG 59.201 57.895 0.00 0.00 42.11 4.00
131 132 1.136147 GCTCTGCCGCATTGAAGTG 59.864 57.895 0.00 0.00 0.00 3.16
132 133 2.393768 CGCTCTGCCGCATTGAAGT 61.394 57.895 0.00 0.00 0.00 3.01
133 134 2.402388 CGCTCTGCCGCATTGAAG 59.598 61.111 0.00 0.00 0.00 3.02
134 135 3.126879 CCGCTCTGCCGCATTGAA 61.127 61.111 0.00 0.00 0.00 2.69
135 136 4.393155 ACCGCTCTGCCGCATTGA 62.393 61.111 0.00 0.00 0.00 2.57
136 137 3.869272 GACCGCTCTGCCGCATTG 61.869 66.667 0.00 0.00 0.00 2.82
141 142 3.916392 AACTTCGACCGCTCTGCCG 62.916 63.158 0.00 0.00 0.00 5.69
142 143 2.048127 AACTTCGACCGCTCTGCC 60.048 61.111 0.00 0.00 0.00 4.85
143 144 0.737715 ATCAACTTCGACCGCTCTGC 60.738 55.000 0.00 0.00 0.00 4.26
144 145 1.714794 AATCAACTTCGACCGCTCTG 58.285 50.000 0.00 0.00 0.00 3.35
145 146 2.028930 AGAAATCAACTTCGACCGCTCT 60.029 45.455 0.00 0.00 0.00 4.09
146 147 2.338500 AGAAATCAACTTCGACCGCTC 58.662 47.619 0.00 0.00 0.00 5.03
147 148 2.338500 GAGAAATCAACTTCGACCGCT 58.662 47.619 0.00 0.00 0.00 5.52
148 149 1.059264 CGAGAAATCAACTTCGACCGC 59.941 52.381 0.00 0.00 0.00 5.68
149 150 1.654105 CCGAGAAATCAACTTCGACCG 59.346 52.381 0.00 0.00 0.00 4.79
150 151 2.685100 ACCGAGAAATCAACTTCGACC 58.315 47.619 0.00 0.00 0.00 4.79
151 152 3.300066 CGTACCGAGAAATCAACTTCGAC 59.700 47.826 0.00 0.00 0.00 4.20
152 153 3.058016 ACGTACCGAGAAATCAACTTCGA 60.058 43.478 0.00 0.00 0.00 3.71
153 154 3.059044 CACGTACCGAGAAATCAACTTCG 59.941 47.826 0.00 0.00 0.00 3.79
154 155 3.367025 CCACGTACCGAGAAATCAACTTC 59.633 47.826 0.00 0.00 0.00 3.01
155 156 3.243975 ACCACGTACCGAGAAATCAACTT 60.244 43.478 0.00 0.00 0.00 2.66
156 157 2.298163 ACCACGTACCGAGAAATCAACT 59.702 45.455 0.00 0.00 0.00 3.16
157 158 2.410730 CACCACGTACCGAGAAATCAAC 59.589 50.000 0.00 0.00 0.00 3.18
158 159 2.679450 CACCACGTACCGAGAAATCAA 58.321 47.619 0.00 0.00 0.00 2.57
159 160 1.670674 GCACCACGTACCGAGAAATCA 60.671 52.381 0.00 0.00 0.00 2.57
160 161 0.997196 GCACCACGTACCGAGAAATC 59.003 55.000 0.00 0.00 0.00 2.17
161 162 0.390735 GGCACCACGTACCGAGAAAT 60.391 55.000 0.00 0.00 0.00 2.17
162 163 1.005867 GGCACCACGTACCGAGAAA 60.006 57.895 0.00 0.00 0.00 2.52
163 164 2.652530 GGCACCACGTACCGAGAA 59.347 61.111 0.00 0.00 0.00 2.87
177 178 2.115052 ACCACTTCAATGCGGGCA 59.885 55.556 0.00 0.00 0.00 5.36
181 182 1.154413 GCGTCACCACTTCAATGCG 60.154 57.895 0.00 0.00 0.00 4.73
186 187 3.220999 CTCGGGCGTCACCACTTCA 62.221 63.158 0.00 0.00 42.05 3.02
191 192 2.599281 TTCTCTCGGGCGTCACCA 60.599 61.111 0.00 0.00 42.05 4.17
194 195 2.649034 GTGTTCTCTCGGGCGTCA 59.351 61.111 0.00 0.00 0.00 4.35
200 201 0.518636 TAACGGTCGTGTTCTCTCGG 59.481 55.000 0.00 0.00 33.32 4.63
240 241 1.655600 CGACATTGATGCTGCGATTCG 60.656 52.381 0.62 0.62 0.00 3.34
241 242 1.333524 CCGACATTGATGCTGCGATTC 60.334 52.381 0.00 0.00 0.00 2.52
246 247 2.410469 GGCCGACATTGATGCTGC 59.590 61.111 0.00 0.00 0.00 5.25
247 248 1.647545 AACGGCCGACATTGATGCTG 61.648 55.000 35.90 0.00 36.19 4.41
248 249 1.377202 AACGGCCGACATTGATGCT 60.377 52.632 35.90 0.68 0.00 3.79
260 261 2.182842 CCTAGAGCATGCAACGGCC 61.183 63.158 21.98 0.00 40.13 6.13
295 296 0.039527 ACTTTTCATCAAACGCCCGC 60.040 50.000 0.00 0.00 0.00 6.13
341 342 1.227823 CGCACTGACCCACCAGAAA 60.228 57.895 0.00 0.00 37.59 2.52
342 343 2.425592 CGCACTGACCCACCAGAA 59.574 61.111 0.00 0.00 37.59 3.02
343 344 3.625897 CCGCACTGACCCACCAGA 61.626 66.667 0.00 0.00 37.59 3.86
344 345 2.107041 TAACCGCACTGACCCACCAG 62.107 60.000 0.00 0.00 39.93 4.00
345 346 2.107041 CTAACCGCACTGACCCACCA 62.107 60.000 0.00 0.00 0.00 4.17
346 347 1.375523 CTAACCGCACTGACCCACC 60.376 63.158 0.00 0.00 0.00 4.61
352 353 0.317160 CCTGTGTCTAACCGCACTGA 59.683 55.000 0.00 0.00 36.92 3.41
389 390 4.748277 ACTAAAGGACGCTTTATAGGCA 57.252 40.909 0.00 0.00 0.00 4.75
393 394 7.609056 AGAGACAAACTAAAGGACGCTTTATA 58.391 34.615 0.00 0.00 0.00 0.98
394 395 6.465084 AGAGACAAACTAAAGGACGCTTTAT 58.535 36.000 0.00 0.00 0.00 1.40
402 403 7.373493 CCGTAAACTAGAGACAAACTAAAGGA 58.627 38.462 0.00 0.00 0.00 3.36
418 419 4.881920 AGCGTACTTTTTCCCGTAAACTA 58.118 39.130 0.00 0.00 0.00 2.24
419 420 3.732212 AGCGTACTTTTTCCCGTAAACT 58.268 40.909 0.00 0.00 0.00 2.66
439 440 2.166459 TCGGTCTATTGAACAGCCTGAG 59.834 50.000 0.00 0.00 0.00 3.35
446 447 4.312443 GGTTTGTCTCGGTCTATTGAACA 58.688 43.478 0.00 0.00 0.00 3.18
449 450 2.094390 CGGGTTTGTCTCGGTCTATTGA 60.094 50.000 0.00 0.00 36.23 2.57
451 452 1.405121 GCGGGTTTGTCTCGGTCTATT 60.405 52.381 0.00 0.00 40.86 1.73
467 468 1.007849 CCAAAGTTCCAAACGCGGG 60.008 57.895 12.47 1.35 36.23 6.13
470 471 2.034053 TGTCATCCAAAGTTCCAAACGC 59.966 45.455 0.00 0.00 36.23 4.84
473 474 6.322456 TGTGTTATGTCATCCAAAGTTCCAAA 59.678 34.615 0.00 0.00 0.00 3.28
474 475 5.830457 TGTGTTATGTCATCCAAAGTTCCAA 59.170 36.000 0.00 0.00 0.00 3.53
475 476 5.380900 TGTGTTATGTCATCCAAAGTTCCA 58.619 37.500 0.00 0.00 0.00 3.53
476 477 5.957842 TGTGTTATGTCATCCAAAGTTCC 57.042 39.130 0.00 0.00 0.00 3.62
477 478 8.081633 TCAAATGTGTTATGTCATCCAAAGTTC 58.918 33.333 0.00 0.00 0.00 3.01
478 479 7.950512 TCAAATGTGTTATGTCATCCAAAGTT 58.049 30.769 0.00 0.00 0.00 2.66
479 480 7.523293 TCAAATGTGTTATGTCATCCAAAGT 57.477 32.000 0.00 0.00 0.00 2.66
480 481 8.991243 ATTCAAATGTGTTATGTCATCCAAAG 57.009 30.769 0.00 0.00 0.00 2.77
481 482 7.754475 CGATTCAAATGTGTTATGTCATCCAAA 59.246 33.333 0.00 0.00 0.00 3.28
487 488 5.619625 TGCGATTCAAATGTGTTATGTCA 57.380 34.783 0.00 0.00 0.00 3.58
492 493 4.142491 GGACCATGCGATTCAAATGTGTTA 60.142 41.667 0.00 0.00 0.00 2.41
501 502 1.153449 GTCCGGACCATGCGATTCA 60.153 57.895 24.75 0.00 30.86 2.57
502 503 2.237751 CGTCCGGACCATGCGATTC 61.238 63.158 28.52 0.00 30.86 2.52
503 504 1.669049 TACGTCCGGACCATGCGATT 61.669 55.000 28.52 4.49 30.86 3.34
505 506 2.751036 TACGTCCGGACCATGCGA 60.751 61.111 28.52 4.89 30.86 5.10
535 536 0.460987 CATCTCCAAGGCTCACCGTC 60.461 60.000 0.00 0.00 42.76 4.79
545 546 4.878397 GGACAACATTAGGACATCTCCAAG 59.122 45.833 0.00 0.00 39.39 3.61
580 581 1.135083 GCTTTGCCGAGCTACTGTCTA 60.135 52.381 0.00 0.00 39.57 2.59
592 593 3.848726 ACTCCAAATTAATGCTTTGCCG 58.151 40.909 0.00 0.00 33.27 5.69
620 621 6.376248 ACATGGAGTAATATGGATTGGCTTT 58.624 36.000 0.00 0.00 0.00 3.51
646 647 4.191033 TCATTTCCATGCATTTGGTGTC 57.809 40.909 6.24 0.00 38.01 3.67
683 684 3.808728 GCACCAATAAGATGTGGCTCTA 58.191 45.455 0.00 0.00 38.58 2.43
714 715 1.001633 GAAGGTAGGAGCACGGACAAA 59.998 52.381 0.00 0.00 0.00 2.83
921 923 1.664873 CGGCAAGGCAAACCAATGA 59.335 52.632 0.00 0.00 39.06 2.57
951 953 0.322997 TACAATTGAAGGGTGGCCGG 60.323 55.000 13.59 0.00 0.00 6.13
980 982 4.961511 TGTGTGTCCGACCAGCGC 62.962 66.667 0.00 0.00 39.11 5.92
987 989 0.666274 GAAGCATCGTGTGTGTCCGA 60.666 55.000 0.00 0.00 37.51 4.55
1080 1082 1.006102 CATCATAGCGGGGTCGACC 60.006 63.158 27.04 27.04 39.00 4.79
1089 1091 1.357258 GCTGCCGGATCATCATAGCG 61.357 60.000 5.05 0.00 0.00 4.26
1092 1094 1.293179 CGGCTGCCGGATCATCATA 59.707 57.895 32.37 0.00 44.15 2.15
1119 1121 1.364171 CTCGCGGAAGGTAGGGATG 59.636 63.158 6.13 0.00 0.00 3.51
1269 1271 1.567504 AGTGAAACACCACGTTCTCG 58.432 50.000 0.00 0.00 41.43 4.04
1587 1598 3.211045 GAAGTAGTTGGTGAAGTTGGCA 58.789 45.455 0.00 0.00 0.00 4.92
1662 1688 0.319211 CGGTGTTGAAGTAGCACGGA 60.319 55.000 0.00 0.00 41.30 4.69
1789 1821 2.034066 CAGAAGGAAGGGCGGCAA 59.966 61.111 12.47 0.00 0.00 4.52
1797 1829 1.743252 GGCGAGCACCAGAAGGAAG 60.743 63.158 0.00 0.00 38.69 3.46
1818 1850 2.284625 TCCACGCCCTGGATGTCT 60.285 61.111 0.00 0.00 44.99 3.41
1860 1892 1.851021 CTTTGACATTGTCGCCGCCA 61.851 55.000 11.97 0.00 34.95 5.69
2004 2036 2.184830 CGACGATGGCCGGTAGAGA 61.185 63.158 1.90 0.00 43.93 3.10
2137 2176 3.787805 GCATGCATCAACATCTCTCGTTG 60.788 47.826 14.21 0.00 44.11 4.10
2193 2232 2.587956 CGTGTGCACATTTCAATCCAG 58.412 47.619 24.69 0.56 0.00 3.86
2222 2261 3.090037 TCTCTTCTTCTACCACCCTTCG 58.910 50.000 0.00 0.00 0.00 3.79
2246 2285 1.522668 CCAAGAAACTGCACCGATCA 58.477 50.000 0.00 0.00 0.00 2.92
2311 2350 8.800370 ATAACCAAGAAAAAGGCAAAAGAAAA 57.200 26.923 0.00 0.00 0.00 2.29
2314 2353 9.705290 GATAATAACCAAGAAAAAGGCAAAAGA 57.295 29.630 0.00 0.00 0.00 2.52
2324 2363 6.895204 CCCAAGGGAGATAATAACCAAGAAAA 59.105 38.462 0.00 0.00 37.50 2.29
2405 2444 3.511146 CCCACCATGCACACTAATCTTTT 59.489 43.478 0.00 0.00 0.00 2.27
2430 2469 0.400213 TGAGCACCAATTTCCCTCGT 59.600 50.000 0.00 0.00 0.00 4.18
2587 2627 5.644636 TCTTTCGTAATTGTATTCCGCCTTT 59.355 36.000 0.00 0.00 0.00 3.11
2593 2633 9.148104 AGTTGTAGTCTTTCGTAATTGTATTCC 57.852 33.333 0.00 0.00 0.00 3.01
2606 2646 5.050363 TGTTCGCAATGAGTTGTAGTCTTTC 60.050 40.000 0.00 0.00 37.65 2.62
2608 2648 4.377021 TGTTCGCAATGAGTTGTAGTCTT 58.623 39.130 0.00 0.00 37.65 3.01
2615 2655 6.932901 ATAATTGTTGTTCGCAATGAGTTG 57.067 33.333 0.00 0.00 39.55 3.16
2635 2675 8.774183 AGTTTGGGTGTGGTATTGATACTATAA 58.226 33.333 1.56 0.00 33.81 0.98
2643 2683 5.258051 GGATTAGTTTGGGTGTGGTATTGA 58.742 41.667 0.00 0.00 0.00 2.57
2647 2687 2.027007 CCGGATTAGTTTGGGTGTGGTA 60.027 50.000 0.00 0.00 0.00 3.25
2668 2708 2.029844 GTGTGCGGTGGCTTCTCTC 61.030 63.158 0.00 0.00 40.82 3.20
2716 2756 0.395586 AGTGGCCTTGTTGCTGTCAA 60.396 50.000 3.32 0.00 0.00 3.18
2733 2776 1.396301 GATCGGTGTACGTCGAGAAGT 59.604 52.381 14.07 0.00 44.69 3.01
2735 2778 1.129251 GTGATCGGTGTACGTCGAGAA 59.871 52.381 14.07 4.47 44.69 2.87
2737 2780 0.247974 GGTGATCGGTGTACGTCGAG 60.248 60.000 14.07 0.00 44.69 4.04
2767 2810 4.790718 AGGGAAGTCTGGTTAAAGTTGT 57.209 40.909 0.00 0.00 0.00 3.32
2770 2813 3.487372 GCAAGGGAAGTCTGGTTAAAGT 58.513 45.455 0.00 0.00 0.00 2.66
2779 2822 2.657237 CGTCGGCAAGGGAAGTCT 59.343 61.111 0.00 0.00 0.00 3.24
2795 2838 0.962356 AATCAAGGCTGCTTGGTCCG 60.962 55.000 0.00 0.00 35.23 4.79
2797 2840 1.745653 GGTAATCAAGGCTGCTTGGTC 59.254 52.381 0.00 0.00 35.23 4.02
2803 2846 2.356135 TCTTTCGGTAATCAAGGCTGC 58.644 47.619 0.00 0.00 0.00 5.25
2866 2909 0.036732 TGGTGAGTCCAAGATGGTGC 59.963 55.000 0.00 0.00 44.12 5.01
2885 2928 1.752501 GCGCAATGTACGTCGATGCT 61.753 55.000 0.30 0.00 34.93 3.79
2888 2931 1.881252 GGGCGCAATGTACGTCGAT 60.881 57.895 10.83 0.00 35.58 3.59
2911 2955 3.264104 GTGTCGCTAGTCTGAGTAGAGT 58.736 50.000 20.91 0.00 39.82 3.24
2914 2958 1.328069 CCGTGTCGCTAGTCTGAGTAG 59.672 57.143 13.97 13.97 0.00 2.57
2920 2964 0.456221 CCAATCCGTGTCGCTAGTCT 59.544 55.000 0.00 0.00 0.00 3.24
2936 2980 2.668632 GGTGATGCGGTCCTCCAA 59.331 61.111 0.00 0.00 0.00 3.53
2954 2998 1.337167 GCAAACATGGCTTGGAGGTTC 60.337 52.381 10.70 0.00 0.00 3.62
2973 3017 0.379669 CTCAATTGGGAGCATCGTGC 59.620 55.000 0.00 2.28 45.46 5.34
2977 3025 1.672881 CGTTCCTCAATTGGGAGCATC 59.327 52.381 21.14 11.49 34.42 3.91
3000 3048 4.240103 CGATGGCGGCATCCTGGA 62.240 66.667 37.14 5.85 0.00 3.86


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

AutoCloner maintained by Alex Coulton.