Multiple sequence alignment - TraesCS5A01G044600

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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 TraesCS5A01G044600 chr5A 100.000 3866 0 0 1 3866 40870846 40874711 0.000000e+00 7140
1 TraesCS5A01G044600 chr5D 94.164 3050 129 23 100 3146 51838884 51841887 0.000000e+00 4601
2 TraesCS5A01G044600 chr5D 94.100 678 36 3 3191 3866 51841897 51842572 0.000000e+00 1027
3 TraesCS5A01G044600 chr5B 94.742 2796 103 11 665 3432 54822579 54825358 0.000000e+00 4309
4 TraesCS5A01G044600 chr5B 94.514 401 20 1 3466 3866 54825352 54825750 5.490000e-173 617
5 TraesCS5A01G044600 chr4D 89.963 807 54 11 3063 3862 15154552 15153766 0.000000e+00 1016
6 TraesCS5A01G044600 chr4D 87.887 355 31 9 3516 3866 14402266 14401920 1.290000e-109 407
7 TraesCS5A01G044600 chr4B 89.626 588 41 11 3282 3866 25388944 25388374 0.000000e+00 730
8 TraesCS5A01G044600 chr2A 91.071 392 26 7 3196 3584 195820797 195821182 4.430000e-144 521
9 TraesCS5A01G044600 chr2A 89.140 221 17 6 3365 3583 196121112 196121327 6.370000e-68 268
10 TraesCS5A01G044600 chr4A 90.816 392 27 7 3196 3584 585689686 585690071 2.060000e-142 516
11 TraesCS5A01G044600 chr4A 88.272 324 30 5 3548 3866 586676292 586675972 7.840000e-102 381
12 TraesCS5A01G044600 chr4A 87.926 323 32 5 3548 3866 456402589 456402270 1.310000e-99 374
13 TraesCS5A01G044600 chr4A 89.593 221 16 6 3365 3583 538490667 538490452 1.370000e-69 274
14 TraesCS5A01G044600 chr1B 88.298 282 23 8 3590 3866 433424228 433424504 2.880000e-86 329
15 TraesCS5A01G044600 chr1D 86.806 288 23 11 3590 3866 320387185 320387468 1.350000e-79 307


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 TraesCS5A01G044600 chr5A 40870846 40874711 3865 False 7140 7140 100.000 1 3866 1 chr5A.!!$F1 3865
1 TraesCS5A01G044600 chr5D 51838884 51842572 3688 False 2814 4601 94.132 100 3866 2 chr5D.!!$F1 3766
2 TraesCS5A01G044600 chr5B 54822579 54825750 3171 False 2463 4309 94.628 665 3866 2 chr5B.!!$F1 3201
3 TraesCS5A01G044600 chr4D 15153766 15154552 786 True 1016 1016 89.963 3063 3862 1 chr4D.!!$R2 799
4 TraesCS5A01G044600 chr4B 25388374 25388944 570 True 730 730 89.626 3282 3866 1 chr4B.!!$R1 584

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
384 386 0.040351 CCCTCCCTCTCACTCACTCA 59.960 60.0 0.00 0.00 0.0 3.41 F
1530 1555 0.033504 TCGTCAGGCTGTTCTTGGAC 59.966 55.0 15.27 2.15 0.0 4.02 F
1834 1859 0.249120 TCAGATGTTTCCGGCGATGT 59.751 50.0 9.30 0.00 0.0 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 1891 0.167470 CTTTGAGGATGCTGCACACG 59.833 55.000 3.57 0.00 0.00 4.49 R
2337 2362 0.804989 CACGGTCTGGCATTTCTTCC 59.195 55.000 0.00 0.00 0.00 3.46 R
3462 3502 1.138883 CAGAGCCACATGTGCATGC 59.861 57.895 20.81 17.72 42.39 4.06 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 7.948034 TTTTTCGTAGTCCCATCCATTTTAT 57.052 32.000 0.00 0.00 0.00 1.40
53 54 9.635404 TTTTTCGTAGTCCCATCCATTTTATAT 57.365 29.630 0.00 0.00 0.00 0.86
54 55 8.615878 TTTCGTAGTCCCATCCATTTTATATG 57.384 34.615 0.00 0.00 0.00 1.78
55 56 6.170506 TCGTAGTCCCATCCATTTTATATGC 58.829 40.000 0.00 0.00 0.00 3.14
56 57 5.937540 CGTAGTCCCATCCATTTTATATGCA 59.062 40.000 0.00 0.00 0.00 3.96
57 58 6.429692 CGTAGTCCCATCCATTTTATATGCAA 59.570 38.462 0.00 0.00 0.00 4.08
58 59 7.121168 CGTAGTCCCATCCATTTTATATGCAAT 59.879 37.037 0.00 0.00 0.00 3.56
59 60 7.472334 AGTCCCATCCATTTTATATGCAATC 57.528 36.000 0.00 0.00 0.00 2.67
60 61 7.011994 AGTCCCATCCATTTTATATGCAATCA 58.988 34.615 0.00 0.00 0.00 2.57
61 62 7.676893 AGTCCCATCCATTTTATATGCAATCAT 59.323 33.333 0.00 0.00 36.73 2.45
62 63 7.762615 GTCCCATCCATTTTATATGCAATCATG 59.237 37.037 0.00 0.00 34.22 3.07
63 64 7.045416 CCCATCCATTTTATATGCAATCATGG 58.955 38.462 0.00 0.00 34.22 3.66
64 65 6.537301 CCATCCATTTTATATGCAATCATGGC 59.463 38.462 0.00 0.00 34.22 4.40
65 66 6.667558 TCCATTTTATATGCAATCATGGCA 57.332 33.333 0.00 0.00 46.66 4.92
66 67 7.063934 TCCATTTTATATGCAATCATGGCAA 57.936 32.000 0.00 0.00 45.60 4.52
67 68 7.681679 TCCATTTTATATGCAATCATGGCAAT 58.318 30.769 0.00 0.00 45.60 3.56
68 69 8.158132 TCCATTTTATATGCAATCATGGCAATT 58.842 29.630 0.00 0.00 45.60 2.32
69 70 8.447833 CCATTTTATATGCAATCATGGCAATTC 58.552 33.333 0.00 0.00 45.60 2.17
70 71 7.966246 TTTTATATGCAATCATGGCAATTCC 57.034 32.000 0.00 0.00 45.60 3.01
71 72 2.922740 ATGCAATCATGGCAATTCCC 57.077 45.000 0.00 0.00 45.60 3.97
72 73 0.831966 TGCAATCATGGCAATTCCCC 59.168 50.000 0.00 0.00 38.54 4.81
73 74 1.125633 GCAATCATGGCAATTCCCCT 58.874 50.000 0.00 0.00 0.00 4.79
74 75 1.069668 GCAATCATGGCAATTCCCCTC 59.930 52.381 0.00 0.00 0.00 4.30
75 76 2.674420 CAATCATGGCAATTCCCCTCT 58.326 47.619 0.00 0.00 0.00 3.69
76 77 3.836146 CAATCATGGCAATTCCCCTCTA 58.164 45.455 0.00 0.00 0.00 2.43
77 78 4.217510 CAATCATGGCAATTCCCCTCTAA 58.782 43.478 0.00 0.00 0.00 2.10
78 79 4.541250 ATCATGGCAATTCCCCTCTAAA 57.459 40.909 0.00 0.00 0.00 1.85
79 80 4.329638 TCATGGCAATTCCCCTCTAAAA 57.670 40.909 0.00 0.00 0.00 1.52
80 81 4.682563 TCATGGCAATTCCCCTCTAAAAA 58.317 39.130 0.00 0.00 0.00 1.94
81 82 4.466015 TCATGGCAATTCCCCTCTAAAAAC 59.534 41.667 0.00 0.00 0.00 2.43
82 83 3.169908 TGGCAATTCCCCTCTAAAAACC 58.830 45.455 0.00 0.00 0.00 3.27
83 84 3.169908 GGCAATTCCCCTCTAAAAACCA 58.830 45.455 0.00 0.00 0.00 3.67
84 85 3.056107 GGCAATTCCCCTCTAAAAACCAC 60.056 47.826 0.00 0.00 0.00 4.16
85 86 3.576550 GCAATTCCCCTCTAAAAACCACA 59.423 43.478 0.00 0.00 0.00 4.17
86 87 4.560716 GCAATTCCCCTCTAAAAACCACAC 60.561 45.833 0.00 0.00 0.00 3.82
87 88 3.955524 TTCCCCTCTAAAAACCACACA 57.044 42.857 0.00 0.00 0.00 3.72
88 89 3.955524 TCCCCTCTAAAAACCACACAA 57.044 42.857 0.00 0.00 0.00 3.33
89 90 3.558033 TCCCCTCTAAAAACCACACAAC 58.442 45.455 0.00 0.00 0.00 3.32
90 91 2.626266 CCCCTCTAAAAACCACACAACC 59.374 50.000 0.00 0.00 0.00 3.77
91 92 2.626266 CCCTCTAAAAACCACACAACCC 59.374 50.000 0.00 0.00 0.00 4.11
92 93 3.562182 CCTCTAAAAACCACACAACCCT 58.438 45.455 0.00 0.00 0.00 4.34
93 94 4.446600 CCCTCTAAAAACCACACAACCCTA 60.447 45.833 0.00 0.00 0.00 3.53
94 95 4.517832 CCTCTAAAAACCACACAACCCTAC 59.482 45.833 0.00 0.00 0.00 3.18
95 96 4.463070 TCTAAAAACCACACAACCCTACC 58.537 43.478 0.00 0.00 0.00 3.18
96 97 2.076207 AAAACCACACAACCCTACCC 57.924 50.000 0.00 0.00 0.00 3.69
97 98 0.186630 AAACCACACAACCCTACCCC 59.813 55.000 0.00 0.00 0.00 4.95
98 99 1.722110 AACCACACAACCCTACCCCC 61.722 60.000 0.00 0.00 0.00 5.40
149 150 1.272480 TGTCGGAGATGACCTTCCTCA 60.272 52.381 0.00 0.00 40.67 3.86
150 151 1.407258 GTCGGAGATGACCTTCCTCAG 59.593 57.143 0.00 0.00 40.67 3.35
151 152 1.006043 TCGGAGATGACCTTCCTCAGT 59.994 52.381 0.00 0.00 0.00 3.41
158 159 6.274322 AGATGACCTTCCTCAGTAGTAGAT 57.726 41.667 0.00 0.00 0.00 1.98
162 163 5.828859 TGACCTTCCTCAGTAGTAGATTAGC 59.171 44.000 0.00 0.00 0.00 3.09
164 165 5.103430 ACCTTCCTCAGTAGTAGATTAGCCT 60.103 44.000 0.00 0.00 0.00 4.58
169 170 5.836358 CCTCAGTAGTAGATTAGCCTCCTTT 59.164 44.000 0.00 0.00 0.00 3.11
182 183 3.702048 CCTTTGTCCCGGCCTCGA 61.702 66.667 0.00 0.00 39.00 4.04
203 205 0.251386 AAGGCTCTCTGTCGTCCTCA 60.251 55.000 0.00 0.00 0.00 3.86
231 233 3.580100 ATCATCGGCTCGCCATCCG 62.580 63.158 8.87 0.00 46.52 4.18
290 292 5.508657 CCTCATAGAGTTTGAGATGCATCGA 60.509 44.000 20.67 9.11 42.63 3.59
295 297 4.750598 AGAGTTTGAGATGCATCGATGATG 59.249 41.667 29.20 4.66 42.37 3.07
298 300 4.332428 TTGAGATGCATCGATGATGAGT 57.668 40.909 29.20 8.42 42.09 3.41
306 308 1.697284 TCGATGATGAGTGCCTAGCT 58.303 50.000 0.00 0.00 0.00 3.32
309 311 2.556189 CGATGATGAGTGCCTAGCTAGT 59.444 50.000 19.31 0.28 0.00 2.57
310 312 3.611293 CGATGATGAGTGCCTAGCTAGTG 60.611 52.174 19.31 11.69 0.00 2.74
311 313 2.739943 TGATGAGTGCCTAGCTAGTGT 58.260 47.619 19.31 0.76 0.00 3.55
312 314 2.428530 TGATGAGTGCCTAGCTAGTGTG 59.571 50.000 19.31 5.62 0.00 3.82
313 315 1.186200 TGAGTGCCTAGCTAGTGTGG 58.814 55.000 19.31 6.20 0.00 4.17
314 316 1.272480 TGAGTGCCTAGCTAGTGTGGA 60.272 52.381 19.31 2.86 0.00 4.02
315 317 1.825474 GAGTGCCTAGCTAGTGTGGAA 59.175 52.381 19.31 0.00 0.00 3.53
316 318 2.432510 GAGTGCCTAGCTAGTGTGGAAT 59.567 50.000 19.31 4.91 0.00 3.01
317 319 2.432510 AGTGCCTAGCTAGTGTGGAATC 59.567 50.000 19.31 1.87 0.00 2.52
318 320 2.432510 GTGCCTAGCTAGTGTGGAATCT 59.567 50.000 19.31 0.00 0.00 2.40
319 321 2.432146 TGCCTAGCTAGTGTGGAATCTG 59.568 50.000 19.31 1.33 0.00 2.90
320 322 2.695666 GCCTAGCTAGTGTGGAATCTGA 59.304 50.000 19.31 0.00 0.00 3.27
321 323 3.491792 GCCTAGCTAGTGTGGAATCTGAC 60.492 52.174 19.31 0.00 0.00 3.51
322 324 2.949451 AGCTAGTGTGGAATCTGACG 57.051 50.000 0.00 0.00 0.00 4.35
323 325 1.478510 AGCTAGTGTGGAATCTGACGG 59.521 52.381 0.00 0.00 0.00 4.79
324 326 1.476891 GCTAGTGTGGAATCTGACGGA 59.523 52.381 0.00 0.00 0.00 4.69
325 327 2.101582 GCTAGTGTGGAATCTGACGGAT 59.898 50.000 0.00 0.00 35.97 4.18
326 328 3.430929 GCTAGTGTGGAATCTGACGGATT 60.431 47.826 9.33 9.33 46.24 3.01
327 329 4.202121 GCTAGTGTGGAATCTGACGGATTA 60.202 45.833 9.54 0.00 43.90 1.75
328 330 5.509840 GCTAGTGTGGAATCTGACGGATTAT 60.510 44.000 9.54 0.00 43.90 1.28
329 331 4.697514 AGTGTGGAATCTGACGGATTATG 58.302 43.478 9.54 0.00 43.90 1.90
330 332 3.248602 GTGTGGAATCTGACGGATTATGC 59.751 47.826 9.54 3.90 43.90 3.14
331 333 3.118445 TGTGGAATCTGACGGATTATGCA 60.118 43.478 9.54 6.21 43.90 3.96
340 342 0.535102 CGGATTATGCAGTGGTCCCC 60.535 60.000 0.00 0.00 0.00 4.81
343 345 0.623723 ATTATGCAGTGGTCCCCGTT 59.376 50.000 0.00 0.00 0.00 4.44
344 346 0.322098 TTATGCAGTGGTCCCCGTTG 60.322 55.000 0.00 0.00 0.00 4.10
347 349 2.879233 GCAGTGGTCCCCGTTGAGA 61.879 63.158 0.00 0.00 0.00 3.27
376 378 4.296351 AGGTCTCCCTCCCTCTCA 57.704 61.111 0.00 0.00 35.62 3.27
377 379 1.700985 AGGTCTCCCTCCCTCTCAC 59.299 63.158 0.00 0.00 35.62 3.51
378 380 0.853586 AGGTCTCCCTCCCTCTCACT 60.854 60.000 0.00 0.00 35.62 3.41
379 381 0.396556 GGTCTCCCTCCCTCTCACTC 60.397 65.000 0.00 0.00 0.00 3.51
380 382 0.333312 GTCTCCCTCCCTCTCACTCA 59.667 60.000 0.00 0.00 0.00 3.41
384 386 0.040351 CCCTCCCTCTCACTCACTCA 59.960 60.000 0.00 0.00 0.00 3.41
390 392 1.543802 CCTCTCACTCACTCACTCACC 59.456 57.143 0.00 0.00 0.00 4.02
400 402 2.828520 CACTCACTCACCCACTCTATGT 59.171 50.000 0.00 0.00 0.00 2.29
406 408 0.179100 CACCCACTCTATGTGCTCGG 60.179 60.000 0.00 0.00 44.92 4.63
412 414 2.868583 CACTCTATGTGCTCGGAAATGG 59.131 50.000 0.00 0.00 40.06 3.16
423 426 1.573376 TCGGAAATGGGGAAATGGGAT 59.427 47.619 0.00 0.00 0.00 3.85
437 440 2.768344 GGATGCGAAGGGGGAGGA 60.768 66.667 0.00 0.00 0.00 3.71
509 512 4.473520 CCGCGAATGGGCTGGTCT 62.474 66.667 8.23 0.00 0.00 3.85
519 522 0.250338 GGGCTGGTCTTTCTGACGTT 60.250 55.000 0.00 0.00 46.24 3.99
530 533 6.349115 GGTCTTTCTGACGTTACACTGAGATA 60.349 42.308 0.00 0.00 46.24 1.98
537 540 8.019669 TCTGACGTTACACTGAGATACTTTAAC 58.980 37.037 0.00 0.00 0.00 2.01
542 545 7.758076 CGTTACACTGAGATACTTTAACATCCA 59.242 37.037 0.00 0.00 0.00 3.41
543 546 9.601217 GTTACACTGAGATACTTTAACATCCAT 57.399 33.333 0.00 0.00 0.00 3.41
544 547 9.599866 TTACACTGAGATACTTTAACATCCATG 57.400 33.333 0.00 0.00 0.00 3.66
574 577 2.223525 CCAACGGTTAAAAAGGCGTTCA 60.224 45.455 0.00 0.00 0.00 3.18
583 586 1.670791 AAAGGCGTTCACTCGGAAAA 58.329 45.000 0.00 0.00 37.23 2.29
585 588 1.439679 AGGCGTTCACTCGGAAAATC 58.560 50.000 0.00 0.00 37.23 2.17
593 596 7.407337 GCGTTCACTCGGAAAATCTTAATATT 58.593 34.615 0.00 0.00 37.23 1.28
599 602 9.155053 CACTCGGAAAATCTTAATATTTAACGC 57.845 33.333 13.18 1.63 32.60 4.84
636 639 8.202745 GATTTCCGAAAATCTAACATCAGACT 57.797 34.615 0.00 0.00 44.88 3.24
637 640 7.596749 TTTCCGAAAATCTAACATCAGACTC 57.403 36.000 0.00 0.00 0.00 3.36
644 647 8.499403 AAAATCTAACATCAGACTCTTTAGCC 57.501 34.615 0.00 0.00 0.00 3.93
833 858 2.094442 GTCACCTCCAGCTACTTCACTC 60.094 54.545 0.00 0.00 0.00 3.51
938 963 1.603739 GCCTGGTGTTGTCTTCCCC 60.604 63.158 0.00 0.00 0.00 4.81
943 968 1.371558 GTGTTGTCTTCCCCTCGCT 59.628 57.895 0.00 0.00 0.00 4.93
952 977 3.532155 CCCCTCGCTCCTCTTCCG 61.532 72.222 0.00 0.00 0.00 4.30
959 984 1.756561 GCTCCTCTTCCGGCTCTCT 60.757 63.158 0.00 0.00 0.00 3.10
965 990 0.741326 TCTTCCGGCTCTCTGATTCG 59.259 55.000 0.00 0.00 0.00 3.34
1029 1054 3.905153 TTGCTCTCTCTCGCCCCCA 62.905 63.158 0.00 0.00 0.00 4.96
1185 1210 2.193536 GGACCAACCTTTGCGTGCT 61.194 57.895 0.00 0.00 35.41 4.40
1400 1425 7.798596 ATTTGATCACTTCATATGTGAGGTC 57.201 36.000 4.16 3.03 45.88 3.85
1403 1428 2.430694 TCACTTCATATGTGAGGTCCCG 59.569 50.000 4.16 0.00 42.12 5.14
1446 1471 3.256631 AGGTGTTTGATGAAATGCCTGAC 59.743 43.478 3.05 0.00 31.08 3.51
1487 1512 3.840666 ACGGCTATGATGAATGGGTATCT 59.159 43.478 0.00 0.00 0.00 1.98
1491 1516 5.879223 GGCTATGATGAATGGGTATCTGAAG 59.121 44.000 0.00 0.00 0.00 3.02
1530 1555 0.033504 TCGTCAGGCTGTTCTTGGAC 59.966 55.000 15.27 2.15 0.00 4.02
1579 1604 1.518515 GCTTGAGTTTCGTTTGCTTGC 59.481 47.619 0.00 0.00 0.00 4.01
1619 1644 1.212375 TCCAATGCTAAGCTAGGGCA 58.788 50.000 9.91 9.91 41.70 5.36
1834 1859 0.249120 TCAGATGTTTCCGGCGATGT 59.751 50.000 9.30 0.00 0.00 3.06
1866 1891 4.640647 GGATTTCACCCTAATGAGTTCACC 59.359 45.833 0.00 0.00 0.00 4.02
1884 1909 1.236616 CCGTGTGCAGCATCCTCAAA 61.237 55.000 0.00 0.00 0.00 2.69
2253 2278 5.979517 GCATGCACAGGTAATAAAGAATTCC 59.020 40.000 14.21 0.00 0.00 3.01
2337 2362 3.957671 ACATATGCTGCACGAATTCTG 57.042 42.857 3.57 2.51 0.00 3.02
2367 2392 0.799917 CAGACCGTGATGCTGTCTCG 60.800 60.000 7.02 7.02 39.21 4.04
2412 2437 2.240493 ATAGCGTTGGTCATAGTGCC 57.760 50.000 0.00 0.00 0.00 5.01
2481 2506 7.133133 TCCAAATACCTACACTTATTCCTCC 57.867 40.000 0.00 0.00 0.00 4.30
2562 2587 4.164843 TGTTAACAAGACTCCTGCCTTT 57.835 40.909 5.64 0.00 0.00 3.11
2664 2689 1.885887 GCCATGCCAGAACACAACTTA 59.114 47.619 0.00 0.00 0.00 2.24
2682 2707 8.567948 CACAACTTAGTAACATGGAAAGTGATT 58.432 33.333 0.00 0.00 31.09 2.57
2757 2782 4.123571 ATGCAGCAACAAGGGCAT 57.876 50.000 0.00 0.00 41.81 4.40
2799 2824 6.183360 TGCTTTCAAAAGTTCTGACATCATGT 60.183 34.615 0.00 0.00 38.28 3.21
2871 2896 6.287589 ACTGGTTCACTCAGATAGGTAAAG 57.712 41.667 0.00 0.00 36.22 1.85
2873 2898 6.071278 ACTGGTTCACTCAGATAGGTAAAGTC 60.071 42.308 0.00 0.00 36.22 3.01
2981 3006 5.391449 CGTACTCTGTATCGGTTATCATGG 58.609 45.833 0.00 0.00 0.00 3.66
3014 3039 6.151691 TGCTTTTGAGATTGAGCAATTACAC 58.848 36.000 0.00 0.00 41.72 2.90
3134 3166 3.446161 TCCAGAGTTGGTGTATTCTACCG 59.554 47.826 0.00 0.00 45.26 4.02
3189 3221 8.459521 TGCAACACATTTAAATTATGTAGCAC 57.540 30.769 12.94 6.27 34.98 4.40
3224 3256 3.806949 TTGGGGTAATATGGAGGATGC 57.193 47.619 0.00 0.00 0.00 3.91
3270 3302 5.776519 TGCATTTGATTTTACGCCAATTC 57.223 34.783 0.00 0.00 0.00 2.17
3275 3311 7.571059 GCATTTGATTTTACGCCAATTCTGTTT 60.571 33.333 0.00 0.00 0.00 2.83
3323 3359 8.250332 AGAGTTGTCTTGCTTAAACAAATGAAA 58.750 29.630 0.00 0.00 34.90 2.69
3383 3423 6.491403 ACTGAACTACTACTTTTCGAACCCTA 59.509 38.462 0.00 0.00 0.00 3.53
3462 3502 3.684908 TGGACAACTATGAACCACATGG 58.315 45.455 0.00 0.00 42.07 3.66
3615 3656 8.084073 TCAAGAAGCATATTTCTTTTGTCTTGG 58.916 33.333 9.08 0.00 43.08 3.61
3628 3669 7.988737 TCTTTTGTCTTGGTTGATGCTATATG 58.011 34.615 0.00 0.00 0.00 1.78
3700 3741 9.990360 TTGTTAATTGAAAGAATCTAAAACCCC 57.010 29.630 0.00 0.00 0.00 4.95
3701 3742 8.590204 TGTTAATTGAAAGAATCTAAAACCCCC 58.410 33.333 0.00 0.00 0.00 5.40
3743 3786 5.474532 CAGAAAGTTTCCATCCACTTCATCA 59.525 40.000 12.05 0.00 31.79 3.07
3787 3830 9.102757 CTGATTCTTGCTCTAATGTTTAGCTTA 57.897 33.333 0.00 0.00 37.16 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 7.948034 ATAAAATGGATGGGACTACGAAAAA 57.052 32.000 0.00 0.00 0.00 1.94
28 29 9.062524 CATATAAAATGGATGGGACTACGAAAA 57.937 33.333 0.00 0.00 0.00 2.29
29 30 7.174253 GCATATAAAATGGATGGGACTACGAAA 59.826 37.037 0.00 0.00 0.00 3.46
30 31 6.653320 GCATATAAAATGGATGGGACTACGAA 59.347 38.462 0.00 0.00 0.00 3.85
31 32 6.170506 GCATATAAAATGGATGGGACTACGA 58.829 40.000 0.00 0.00 0.00 3.43
32 33 5.937540 TGCATATAAAATGGATGGGACTACG 59.062 40.000 0.00 0.00 0.00 3.51
33 34 7.759489 TTGCATATAAAATGGATGGGACTAC 57.241 36.000 0.00 0.00 0.00 2.73
34 35 8.169393 TGATTGCATATAAAATGGATGGGACTA 58.831 33.333 0.00 0.00 0.00 2.59
35 36 7.011994 TGATTGCATATAAAATGGATGGGACT 58.988 34.615 0.00 0.00 0.00 3.85
36 37 7.230849 TGATTGCATATAAAATGGATGGGAC 57.769 36.000 0.00 0.00 0.00 4.46
37 38 7.093245 CCATGATTGCATATAAAATGGATGGGA 60.093 37.037 0.00 0.00 36.07 4.37
38 39 7.045416 CCATGATTGCATATAAAATGGATGGG 58.955 38.462 0.00 0.00 36.07 4.00
39 40 6.537301 GCCATGATTGCATATAAAATGGATGG 59.463 38.462 12.76 0.00 36.07 3.51
40 41 7.100409 TGCCATGATTGCATATAAAATGGATG 58.900 34.615 12.76 0.00 36.07 3.51
41 42 7.247456 TGCCATGATTGCATATAAAATGGAT 57.753 32.000 12.76 0.00 36.07 3.41
42 43 6.667558 TGCCATGATTGCATATAAAATGGA 57.332 33.333 12.76 0.00 36.07 3.41
43 44 7.915293 ATTGCCATGATTGCATATAAAATGG 57.085 32.000 0.00 0.00 38.76 3.16
44 45 8.447833 GGAATTGCCATGATTGCATATAAAATG 58.552 33.333 0.00 0.00 38.76 2.32
45 46 7.608761 GGGAATTGCCATGATTGCATATAAAAT 59.391 33.333 11.71 0.00 38.76 1.82
46 47 6.935771 GGGAATTGCCATGATTGCATATAAAA 59.064 34.615 11.71 0.00 38.76 1.52
47 48 6.465948 GGGAATTGCCATGATTGCATATAAA 58.534 36.000 11.71 0.00 38.76 1.40
48 49 5.046448 GGGGAATTGCCATGATTGCATATAA 60.046 40.000 18.62 0.00 38.76 0.98
49 50 4.467082 GGGGAATTGCCATGATTGCATATA 59.533 41.667 18.62 0.00 38.76 0.86
50 51 3.262405 GGGGAATTGCCATGATTGCATAT 59.738 43.478 18.62 0.00 38.76 1.78
51 52 2.633967 GGGGAATTGCCATGATTGCATA 59.366 45.455 18.62 0.00 38.76 3.14
52 53 1.418637 GGGGAATTGCCATGATTGCAT 59.581 47.619 18.62 0.00 38.76 3.96
53 54 0.831966 GGGGAATTGCCATGATTGCA 59.168 50.000 18.62 0.00 38.95 4.08
54 55 1.069668 GAGGGGAATTGCCATGATTGC 59.930 52.381 18.62 0.00 38.95 3.56
55 56 2.674420 AGAGGGGAATTGCCATGATTG 58.326 47.619 18.62 0.00 38.95 2.67
56 57 4.541250 TTAGAGGGGAATTGCCATGATT 57.459 40.909 18.62 1.47 38.95 2.57
57 58 4.541250 TTTAGAGGGGAATTGCCATGAT 57.459 40.909 18.62 4.32 38.95 2.45
58 59 4.329638 TTTTAGAGGGGAATTGCCATGA 57.670 40.909 18.62 0.00 38.95 3.07
59 60 4.383010 GGTTTTTAGAGGGGAATTGCCATG 60.383 45.833 18.62 0.00 38.95 3.66
60 61 3.774766 GGTTTTTAGAGGGGAATTGCCAT 59.225 43.478 18.62 11.24 38.95 4.40
61 62 3.169908 GGTTTTTAGAGGGGAATTGCCA 58.830 45.455 18.62 0.00 38.95 4.92
62 63 3.056107 GTGGTTTTTAGAGGGGAATTGCC 60.056 47.826 7.61 7.61 0.00 4.52
63 64 3.576550 TGTGGTTTTTAGAGGGGAATTGC 59.423 43.478 0.00 0.00 0.00 3.56
64 65 4.586841 TGTGTGGTTTTTAGAGGGGAATTG 59.413 41.667 0.00 0.00 0.00 2.32
65 66 4.810345 TGTGTGGTTTTTAGAGGGGAATT 58.190 39.130 0.00 0.00 0.00 2.17
66 67 4.463050 TGTGTGGTTTTTAGAGGGGAAT 57.537 40.909 0.00 0.00 0.00 3.01
67 68 3.955524 TGTGTGGTTTTTAGAGGGGAA 57.044 42.857 0.00 0.00 0.00 3.97
68 69 3.558033 GTTGTGTGGTTTTTAGAGGGGA 58.442 45.455 0.00 0.00 0.00 4.81
69 70 2.626266 GGTTGTGTGGTTTTTAGAGGGG 59.374 50.000 0.00 0.00 0.00 4.79
70 71 2.626266 GGGTTGTGTGGTTTTTAGAGGG 59.374 50.000 0.00 0.00 0.00 4.30
71 72 3.562182 AGGGTTGTGTGGTTTTTAGAGG 58.438 45.455 0.00 0.00 0.00 3.69
72 73 4.517832 GGTAGGGTTGTGTGGTTTTTAGAG 59.482 45.833 0.00 0.00 0.00 2.43
73 74 4.463070 GGTAGGGTTGTGTGGTTTTTAGA 58.537 43.478 0.00 0.00 0.00 2.10
74 75 3.570975 GGGTAGGGTTGTGTGGTTTTTAG 59.429 47.826 0.00 0.00 0.00 1.85
75 76 3.564264 GGGTAGGGTTGTGTGGTTTTTA 58.436 45.455 0.00 0.00 0.00 1.52
76 77 2.390696 GGGTAGGGTTGTGTGGTTTTT 58.609 47.619 0.00 0.00 0.00 1.94
77 78 1.411930 GGGGTAGGGTTGTGTGGTTTT 60.412 52.381 0.00 0.00 0.00 2.43
78 79 0.186630 GGGGTAGGGTTGTGTGGTTT 59.813 55.000 0.00 0.00 0.00 3.27
79 80 1.722110 GGGGGTAGGGTTGTGTGGTT 61.722 60.000 0.00 0.00 0.00 3.67
80 81 2.158130 GGGGGTAGGGTTGTGTGGT 61.158 63.158 0.00 0.00 0.00 4.16
81 82 2.761160 GGGGGTAGGGTTGTGTGG 59.239 66.667 0.00 0.00 0.00 4.17
82 83 2.349755 CGGGGGTAGGGTTGTGTG 59.650 66.667 0.00 0.00 0.00 3.82
83 84 2.122279 ACGGGGGTAGGGTTGTGT 60.122 61.111 0.00 0.00 0.00 3.72
84 85 2.180159 CTCACGGGGGTAGGGTTGTG 62.180 65.000 0.00 0.00 0.00 3.33
85 86 1.916777 CTCACGGGGGTAGGGTTGT 60.917 63.158 0.00 0.00 0.00 3.32
86 87 1.611261 TCTCACGGGGGTAGGGTTG 60.611 63.158 0.00 0.00 0.00 3.77
87 88 1.611556 GTCTCACGGGGGTAGGGTT 60.612 63.158 0.00 0.00 0.00 4.11
88 89 2.038490 GTCTCACGGGGGTAGGGT 59.962 66.667 0.00 0.00 0.00 4.34
89 90 3.145551 CGTCTCACGGGGGTAGGG 61.146 72.222 0.00 0.00 38.08 3.53
90 91 3.834799 GCGTCTCACGGGGGTAGG 61.835 72.222 0.00 0.00 42.82 3.18
91 92 2.351336 GATGCGTCTCACGGGGGTAG 62.351 65.000 0.00 0.00 42.82 3.18
92 93 2.363276 ATGCGTCTCACGGGGGTA 60.363 61.111 0.00 0.00 42.82 3.69
93 94 3.771160 GATGCGTCTCACGGGGGT 61.771 66.667 0.00 0.00 42.82 4.95
94 95 3.461773 AGATGCGTCTCACGGGGG 61.462 66.667 1.48 0.00 42.82 5.40
127 128 0.179134 GGAAGGTCATCTCCGACACG 60.179 60.000 0.00 0.00 37.66 4.49
133 134 3.637769 ACTACTGAGGAAGGTCATCTCC 58.362 50.000 0.00 0.00 0.00 3.71
142 143 5.475564 GGAGGCTAATCTACTACTGAGGAAG 59.524 48.000 0.00 0.00 0.00 3.46
143 144 5.134679 AGGAGGCTAATCTACTACTGAGGAA 59.865 44.000 0.00 0.00 0.00 3.36
149 150 5.599242 GGACAAAGGAGGCTAATCTACTACT 59.401 44.000 0.00 0.00 0.00 2.57
150 151 5.221481 GGGACAAAGGAGGCTAATCTACTAC 60.221 48.000 0.00 0.00 0.00 2.73
151 152 4.900054 GGGACAAAGGAGGCTAATCTACTA 59.100 45.833 0.00 0.00 0.00 1.82
158 159 1.988015 CCGGGACAAAGGAGGCTAA 59.012 57.895 0.00 0.00 0.00 3.09
162 163 3.330720 AGGCCGGGACAAAGGAGG 61.331 66.667 0.92 0.00 0.00 4.30
164 165 3.702048 CGAGGCCGGGACAAAGGA 61.702 66.667 0.92 0.00 0.00 3.36
169 170 3.068691 CTTCTCGAGGCCGGGACA 61.069 66.667 13.56 0.00 46.26 4.02
182 183 0.039035 AGGACGACAGAGAGCCTTCT 59.961 55.000 0.00 0.00 36.01 2.85
188 189 0.732571 GAGCTGAGGACGACAGAGAG 59.267 60.000 0.00 0.00 37.54 3.20
189 190 0.678366 GGAGCTGAGGACGACAGAGA 60.678 60.000 0.00 0.00 37.54 3.10
190 191 1.662438 GGGAGCTGAGGACGACAGAG 61.662 65.000 0.00 0.00 37.54 3.35
191 192 1.679305 GGGAGCTGAGGACGACAGA 60.679 63.158 0.00 0.00 37.54 3.41
192 193 1.979155 TGGGAGCTGAGGACGACAG 60.979 63.158 0.00 0.00 38.27 3.51
203 205 3.112205 GCCGATGATGGTGGGAGCT 62.112 63.158 0.00 0.00 0.00 4.09
233 235 2.579787 CTGTCGACGATGACCGCC 60.580 66.667 11.62 0.00 43.32 6.13
236 238 1.226717 GAGCCTGTCGACGATGACC 60.227 63.158 11.62 0.00 38.11 4.02
241 243 3.429141 GACGGAGCCTGTCGACGA 61.429 66.667 11.62 0.00 0.00 4.20
271 273 5.520376 TCATCGATGCATCTCAAACTCTA 57.480 39.130 23.73 0.00 0.00 2.43
275 277 4.510711 ACTCATCATCGATGCATCTCAAAC 59.489 41.667 23.73 0.00 39.63 2.93
290 292 3.069300 CACACTAGCTAGGCACTCATCAT 59.931 47.826 24.35 0.00 41.75 2.45
295 297 1.475403 TCCACACTAGCTAGGCACTC 58.525 55.000 24.35 0.00 41.75 3.51
298 300 2.432146 CAGATTCCACACTAGCTAGGCA 59.568 50.000 24.35 0.00 0.00 4.75
306 308 5.739070 GCATAATCCGTCAGATTCCACACTA 60.739 44.000 0.00 0.00 44.34 2.74
309 311 3.118445 TGCATAATCCGTCAGATTCCACA 60.118 43.478 0.00 0.00 44.34 4.17
310 312 3.466836 TGCATAATCCGTCAGATTCCAC 58.533 45.455 0.00 0.00 44.34 4.02
311 313 3.134623 ACTGCATAATCCGTCAGATTCCA 59.865 43.478 0.00 0.00 44.34 3.53
312 314 3.496130 CACTGCATAATCCGTCAGATTCC 59.504 47.826 0.00 0.00 44.34 3.01
313 315 3.496130 CCACTGCATAATCCGTCAGATTC 59.504 47.826 0.00 0.00 44.34 2.52
315 317 2.435805 ACCACTGCATAATCCGTCAGAT 59.564 45.455 0.00 0.00 36.48 2.90
316 318 1.831106 ACCACTGCATAATCCGTCAGA 59.169 47.619 0.00 0.00 0.00 3.27
317 319 2.205074 GACCACTGCATAATCCGTCAG 58.795 52.381 0.00 0.00 0.00 3.51
318 320 1.134521 GGACCACTGCATAATCCGTCA 60.135 52.381 0.00 0.00 0.00 4.35
319 321 1.583054 GGACCACTGCATAATCCGTC 58.417 55.000 0.00 0.00 0.00 4.79
320 322 0.180406 GGGACCACTGCATAATCCGT 59.820 55.000 0.00 0.00 0.00 4.69
321 323 3.006672 GGGACCACTGCATAATCCG 57.993 57.895 0.00 0.00 0.00 4.18
343 345 4.717629 CTCGCGCCGGTGTTCTCA 62.718 66.667 17.91 0.00 0.00 3.27
364 366 0.333312 GAGTGAGTGAGAGGGAGGGA 59.667 60.000 0.00 0.00 0.00 4.20
366 368 1.181786 GTGAGTGAGTGAGAGGGAGG 58.818 60.000 0.00 0.00 0.00 4.30
367 369 2.091541 GAGTGAGTGAGTGAGAGGGAG 58.908 57.143 0.00 0.00 0.00 4.30
368 370 1.425448 TGAGTGAGTGAGTGAGAGGGA 59.575 52.381 0.00 0.00 0.00 4.20
369 371 1.543802 GTGAGTGAGTGAGTGAGAGGG 59.456 57.143 0.00 0.00 0.00 4.30
370 372 1.543802 GGTGAGTGAGTGAGTGAGAGG 59.456 57.143 0.00 0.00 0.00 3.69
371 373 1.543802 GGGTGAGTGAGTGAGTGAGAG 59.456 57.143 0.00 0.00 0.00 3.20
372 374 1.133482 TGGGTGAGTGAGTGAGTGAGA 60.133 52.381 0.00 0.00 0.00 3.27
373 375 1.000283 GTGGGTGAGTGAGTGAGTGAG 60.000 57.143 0.00 0.00 0.00 3.51
374 376 1.040646 GTGGGTGAGTGAGTGAGTGA 58.959 55.000 0.00 0.00 0.00 3.41
375 377 1.000283 GAGTGGGTGAGTGAGTGAGTG 60.000 57.143 0.00 0.00 0.00 3.51
376 378 1.133325 AGAGTGGGTGAGTGAGTGAGT 60.133 52.381 0.00 0.00 0.00 3.41
377 379 1.626686 AGAGTGGGTGAGTGAGTGAG 58.373 55.000 0.00 0.00 0.00 3.51
378 380 2.971901 TAGAGTGGGTGAGTGAGTGA 57.028 50.000 0.00 0.00 0.00 3.41
379 381 2.828520 ACATAGAGTGGGTGAGTGAGTG 59.171 50.000 0.00 0.00 0.00 3.51
380 382 2.828520 CACATAGAGTGGGTGAGTGAGT 59.171 50.000 0.00 0.00 44.69 3.41
400 402 1.473258 CATTTCCCCATTTCCGAGCA 58.527 50.000 0.00 0.00 0.00 4.26
406 408 1.069049 CGCATCCCATTTCCCCATTTC 59.931 52.381 0.00 0.00 0.00 2.17
412 414 1.109323 CCCTTCGCATCCCATTTCCC 61.109 60.000 0.00 0.00 0.00 3.97
437 440 0.680921 CAATCAACATCGGGTGCCCT 60.681 55.000 5.64 0.00 0.00 5.19
447 450 1.677576 CACGCCCTATGCAATCAACAT 59.322 47.619 0.00 0.00 41.33 2.71
509 512 6.570672 AGTATCTCAGTGTAACGTCAGAAA 57.429 37.500 0.00 0.00 45.86 2.52
519 522 8.758829 ACATGGATGTTAAAGTATCTCAGTGTA 58.241 33.333 0.00 0.00 37.90 2.90
537 540 4.175516 CCGTTGGATTGAAAACATGGATG 58.824 43.478 0.00 0.00 0.00 3.51
542 545 7.225734 CCTTTTTAACCGTTGGATTGAAAACAT 59.774 33.333 0.00 0.00 0.00 2.71
543 546 6.535508 CCTTTTTAACCGTTGGATTGAAAACA 59.464 34.615 0.00 0.00 0.00 2.83
544 547 6.510478 GCCTTTTTAACCGTTGGATTGAAAAC 60.510 38.462 0.00 0.00 0.00 2.43
574 577 8.340443 GGCGTTAAATATTAAGATTTTCCGAGT 58.660 33.333 20.95 0.42 31.51 4.18
593 596 5.989777 GGAAATCTTATCTAGCTGGCGTTAA 59.010 40.000 0.00 0.00 0.00 2.01
595 598 4.381411 GGAAATCTTATCTAGCTGGCGTT 58.619 43.478 0.00 0.00 0.00 4.84
597 600 2.989840 CGGAAATCTTATCTAGCTGGCG 59.010 50.000 0.00 0.00 0.00 5.69
599 602 7.736447 ATTTTCGGAAATCTTATCTAGCTGG 57.264 36.000 3.67 0.00 29.53 4.85
631 634 1.830477 AGAGCTGGGCTAAAGAGTCTG 59.170 52.381 0.00 0.00 39.88 3.51
632 635 2.235898 CAAGAGCTGGGCTAAAGAGTCT 59.764 50.000 0.00 0.00 39.88 3.24
633 636 2.626840 CAAGAGCTGGGCTAAAGAGTC 58.373 52.381 0.00 0.00 39.88 3.36
634 637 1.280421 CCAAGAGCTGGGCTAAAGAGT 59.720 52.381 0.00 0.00 42.17 3.24
635 638 1.556911 TCCAAGAGCTGGGCTAAAGAG 59.443 52.381 0.00 0.00 46.44 2.85
636 639 1.656587 TCCAAGAGCTGGGCTAAAGA 58.343 50.000 0.00 0.00 46.44 2.52
637 640 2.496899 TTCCAAGAGCTGGGCTAAAG 57.503 50.000 0.00 0.00 46.44 1.85
707 710 9.607285 GGTTTTTGTTTTCTTTTTCCTTTCTTC 57.393 29.630 0.00 0.00 0.00 2.87
799 824 0.972983 AGGTGACGATGGGGAGACTG 60.973 60.000 0.00 0.00 0.00 3.51
923 948 1.752198 CGAGGGGAAGACAACACCA 59.248 57.895 0.00 0.00 0.00 4.17
938 963 3.132481 GAGCCGGAAGAGGAGCGAG 62.132 68.421 5.05 0.00 0.00 5.03
943 968 0.260230 ATCAGAGAGCCGGAAGAGGA 59.740 55.000 5.05 0.00 0.00 3.71
1029 1054 3.433740 GGAGCGGATAAGTTTGGATTCCT 60.434 47.826 3.95 0.00 0.00 3.36
1162 1187 2.574018 GCAAAGGTTGGTCCCTGGC 61.574 63.158 0.00 0.00 34.19 4.85
1185 1210 0.745486 CACCATCTGGATGCGCTTGA 60.745 55.000 9.73 0.00 37.49 3.02
1394 1419 1.550524 CTGAAATCTCACGGGACCTCA 59.449 52.381 0.00 0.00 0.00 3.86
1400 1425 1.413767 CGCGTCTGAAATCTCACGGG 61.414 60.000 0.00 7.14 31.08 5.28
1403 1428 1.135373 TCCTCGCGTCTGAAATCTCAC 60.135 52.381 5.77 0.00 0.00 3.51
1446 1471 1.954146 CCACGACACAACGGTCCTG 60.954 63.158 0.00 0.00 37.61 3.86
1487 1512 1.045407 ACTGTAGTTGCCCGACTTCA 58.955 50.000 0.00 0.00 0.00 3.02
1491 1516 0.389948 CCTCACTGTAGTTGCCCGAC 60.390 60.000 0.00 0.00 0.00 4.79
1530 1555 4.193893 TCCCCGCTGGCCATCATG 62.194 66.667 5.51 0.00 0.00 3.07
1579 1604 2.245159 TGCTCACCACAAGACTTCAG 57.755 50.000 0.00 0.00 0.00 3.02
1619 1644 1.682854 CAACACAACAATGGACCTGCT 59.317 47.619 0.00 0.00 0.00 4.24
1866 1891 0.167470 CTTTGAGGATGCTGCACACG 59.833 55.000 3.57 0.00 0.00 4.49
2253 2278 7.833786 TCCCAATTTGAAGATTCTCTTGAATG 58.166 34.615 0.00 0.00 42.43 2.67
2337 2362 0.804989 CACGGTCTGGCATTTCTTCC 59.195 55.000 0.00 0.00 0.00 3.46
2367 2392 2.615912 GCCTGAAATCATAGCTGTCCAC 59.384 50.000 0.00 0.00 0.00 4.02
2397 2422 0.999406 CTTCGGCACTATGACCAACG 59.001 55.000 0.00 0.00 0.00 4.10
2412 2437 7.706281 ATCATCTAATGACTTAAGTGCTTCG 57.294 36.000 14.14 2.76 43.01 3.79
2562 2587 2.622942 GCTTCCCACAAACACATCTGAA 59.377 45.455 0.00 0.00 0.00 3.02
2664 2689 9.396022 CCTGTAATAATCACTTTCCATGTTACT 57.604 33.333 0.00 0.00 0.00 2.24
2682 2707 5.532406 GCCATTCTGAGCAAATCCTGTAATA 59.468 40.000 0.00 0.00 0.00 0.98
2757 2782 5.648960 TGAAAGCATAAAGTCATCAGCATCA 59.351 36.000 0.00 0.00 0.00 3.07
2823 2848 2.935201 CGAGCCAGAAAAAGAGATGGAG 59.065 50.000 0.00 0.00 34.60 3.86
2871 2896 6.814146 CCCAGAAATTAACTCAGACAGTAGAC 59.186 42.308 0.00 0.00 32.30 2.59
2873 2898 6.070767 TCCCCAGAAATTAACTCAGACAGTAG 60.071 42.308 0.00 0.00 32.30 2.57
2981 3006 5.957798 TCAATCTCAAAAGCAATCACATCC 58.042 37.500 0.00 0.00 0.00 3.51
3039 3064 4.318332 CATCACTAGTGCAGGAAACAGAA 58.682 43.478 18.45 0.00 0.00 3.02
3134 3166 2.888834 TGCTTGAAACTTGGCTTTCC 57.111 45.000 0.00 0.00 30.23 3.13
3177 3209 7.394359 AGAAAACCTCACATGTGCTACATAATT 59.606 33.333 21.38 8.05 36.53 1.40
3189 3221 2.965147 ACCCCAAAGAAAACCTCACATG 59.035 45.455 0.00 0.00 0.00 3.21
3192 3224 6.127451 CCATATTACCCCAAAGAAAACCTCAC 60.127 42.308 0.00 0.00 0.00 3.51
3224 3256 9.289303 GCAAGGTTCAACAATATATAACAGTTG 57.711 33.333 14.36 14.36 40.53 3.16
3238 3270 6.199908 CGTAAAATCAAATGCAAGGTTCAACA 59.800 34.615 0.00 0.00 0.00 3.33
3278 3314 5.177326 ACTCTGAAAACATTGCAGCAAAAA 58.823 33.333 12.97 0.00 0.00 1.94
3323 3359 9.128404 TGAGATAGATAATTGCTGCAAGAAAAT 57.872 29.630 20.72 10.57 33.13 1.82
3376 3414 6.002653 AGTACAAATCTGGGATTAGGGTTC 57.997 41.667 0.00 0.00 0.00 3.62
3383 3423 6.891908 AGCACAATAAGTACAAATCTGGGATT 59.108 34.615 0.00 0.00 0.00 3.01
3462 3502 1.138883 CAGAGCCACATGTGCATGC 59.861 57.895 20.81 17.72 42.39 4.06
3609 3650 6.925610 TTGACATATAGCATCAACCAAGAC 57.074 37.500 0.00 0.00 0.00 3.01
3651 3692 9.788960 ACAAGAACAGAATTTAGTGAGAAAAAC 57.211 29.630 0.00 0.00 0.00 2.43
3700 3741 9.442047 ACTTTCTGAATCTAAGTAACATCTTGG 57.558 33.333 0.00 0.00 30.75 3.61
3815 3858 7.014230 CCTTTCCCAAGTGTTCAGAAATAAGAA 59.986 37.037 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.