Multiple sequence alignment - TraesCS2D01G171300

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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 TraesCS2D01G171300 chr2D 100.000 3227 0 0 1 3227 115103698 115106924 0.000000e+00 5960
1 TraesCS2D01G171300 chr2A 96.102 1257 40 5 950 2200 116452892 116454145 0.000000e+00 2041
2 TraesCS2D01G171300 chr2A 90.665 632 27 14 2201 2822 116454177 116454786 0.000000e+00 811
3 TraesCS2D01G171300 chr2A 94.194 155 8 1 762 915 116452636 116452790 5.380000e-58 235
4 TraesCS2D01G171300 chr2A 84.416 154 16 6 632 778 116451417 116451569 9.330000e-31 145
5 TraesCS2D01G171300 chr2B 95.843 1251 49 1 950 2200 165522401 165523648 0.000000e+00 2019
6 TraesCS2D01G171300 chr2B 90.485 1030 44 19 2201 3227 165523680 165524658 0.000000e+00 1310
7 TraesCS2D01G171300 chr2B 78.731 804 101 24 143 919 165521542 165522302 1.050000e-129 473


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 TraesCS2D01G171300 chr2D 115103698 115106924 3226 False 5960.000000 5960 100.00000 1 3227 1 chr2D.!!$F1 3226
1 TraesCS2D01G171300 chr2A 116451417 116454786 3369 False 808.000000 2041 91.34425 632 2822 4 chr2A.!!$F1 2190
2 TraesCS2D01G171300 chr2B 165521542 165524658 3116 False 1267.333333 2019 88.35300 143 3227 3 chr2B.!!$F1 3084

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
555 575 0.034337 GGGAAAGTATATGCGGGCGA 59.966 55.0 0.0 0.0 0.0 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2381 3613 0.516877 CGCTTCTGCCGATTGTTCAA 59.483 50.0 0.0 0.0 35.36 2.69 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
73 74 9.599866 TTACAATGATATCTGTCGAAAACATCT 57.400 29.630 3.98 0.00 37.23 2.90
75 76 9.770097 ACAATGATATCTGTCGAAAACATCTAT 57.230 29.630 3.98 0.00 37.23 1.98
77 78 9.770097 AATGATATCTGTCGAAAACATCTATGT 57.230 29.630 3.98 0.00 44.20 2.29
78 79 8.579682 TGATATCTGTCGAAAACATCTATGTG 57.420 34.615 3.98 0.00 41.61 3.21
79 80 7.653311 TGATATCTGTCGAAAACATCTATGTGG 59.347 37.037 3.98 0.00 41.61 4.17
80 81 5.147330 TCTGTCGAAAACATCTATGTGGT 57.853 39.130 0.00 0.00 41.61 4.16
81 82 6.275494 TCTGTCGAAAACATCTATGTGGTA 57.725 37.500 0.00 0.00 41.61 3.25
82 83 6.873997 TCTGTCGAAAACATCTATGTGGTAT 58.126 36.000 0.00 0.00 41.61 2.73
83 84 6.978659 TCTGTCGAAAACATCTATGTGGTATC 59.021 38.462 0.00 0.00 41.61 2.24
84 85 6.635755 TGTCGAAAACATCTATGTGGTATCA 58.364 36.000 0.00 0.00 41.61 2.15
85 86 7.100409 TGTCGAAAACATCTATGTGGTATCAA 58.900 34.615 0.00 0.00 41.61 2.57
86 87 7.768582 TGTCGAAAACATCTATGTGGTATCAAT 59.231 33.333 0.00 0.00 41.61 2.57
87 88 8.276325 GTCGAAAACATCTATGTGGTATCAATC 58.724 37.037 0.00 0.00 41.61 2.67
88 89 8.204160 TCGAAAACATCTATGTGGTATCAATCT 58.796 33.333 0.00 0.00 41.61 2.40
89 90 8.830580 CGAAAACATCTATGTGGTATCAATCTT 58.169 33.333 0.00 0.00 41.61 2.40
92 93 7.502120 ACATCTATGTGGTATCAATCTTTGC 57.498 36.000 0.00 0.00 40.03 3.68
93 94 7.056006 ACATCTATGTGGTATCAATCTTTGCA 58.944 34.615 0.00 0.00 40.03 4.08
94 95 7.557358 ACATCTATGTGGTATCAATCTTTGCAA 59.443 33.333 0.00 0.00 40.03 4.08
95 96 7.936496 TCTATGTGGTATCAATCTTTGCAAA 57.064 32.000 12.14 12.14 0.00 3.68
96 97 8.347004 TCTATGTGGTATCAATCTTTGCAAAA 57.653 30.769 13.84 5.01 0.00 2.44
97 98 8.243426 TCTATGTGGTATCAATCTTTGCAAAAC 58.757 33.333 13.84 6.36 0.00 2.43
98 99 5.218885 TGTGGTATCAATCTTTGCAAAACG 58.781 37.500 13.84 2.54 0.00 3.60
99 100 5.009110 TGTGGTATCAATCTTTGCAAAACGA 59.991 36.000 13.84 8.44 0.00 3.85
100 101 5.918011 GTGGTATCAATCTTTGCAAAACGAA 59.082 36.000 13.84 0.00 0.00 3.85
101 102 6.419413 GTGGTATCAATCTTTGCAAAACGAAA 59.581 34.615 13.84 0.00 0.00 3.46
102 103 7.116233 GTGGTATCAATCTTTGCAAAACGAAAT 59.884 33.333 13.84 7.20 0.00 2.17
103 104 8.300286 TGGTATCAATCTTTGCAAAACGAAATA 58.700 29.630 13.84 6.29 0.00 1.40
104 105 8.583765 GGTATCAATCTTTGCAAAACGAAATAC 58.416 33.333 13.84 16.01 0.00 1.89
105 106 9.341899 GTATCAATCTTTGCAAAACGAAATACT 57.658 29.630 13.84 0.00 0.00 2.12
106 107 7.851822 TCAATCTTTGCAAAACGAAATACTC 57.148 32.000 13.84 0.00 0.00 2.59
107 108 6.861055 TCAATCTTTGCAAAACGAAATACTCC 59.139 34.615 13.84 0.00 0.00 3.85
108 109 5.759506 TCTTTGCAAAACGAAATACTCCA 57.240 34.783 13.84 0.00 0.00 3.86
109 110 6.137794 TCTTTGCAAAACGAAATACTCCAA 57.862 33.333 13.84 0.00 0.00 3.53
110 111 6.744112 TCTTTGCAAAACGAAATACTCCAAT 58.256 32.000 13.84 0.00 0.00 3.16
111 112 7.206687 TCTTTGCAAAACGAAATACTCCAATT 58.793 30.769 13.84 0.00 0.00 2.32
112 113 7.708752 TCTTTGCAAAACGAAATACTCCAATTT 59.291 29.630 13.84 0.00 0.00 1.82
113 114 7.778470 TTGCAAAACGAAATACTCCAATTTT 57.222 28.000 0.00 0.00 0.00 1.82
114 115 7.778470 TGCAAAACGAAATACTCCAATTTTT 57.222 28.000 0.00 0.00 0.00 1.94
137 138 9.877178 TTTTTCAGTAAAAGGACTGCAATTAAA 57.123 25.926 0.00 0.00 45.44 1.52
139 140 9.691362 TTTCAGTAAAAGGACTGCAATTAAATC 57.309 29.630 0.00 0.00 45.44 2.17
140 141 7.526608 TCAGTAAAAGGACTGCAATTAAATCG 58.473 34.615 0.00 0.00 45.44 3.34
141 142 7.389330 TCAGTAAAAGGACTGCAATTAAATCGA 59.611 33.333 0.00 0.00 45.44 3.59
159 160 0.579156 GAAGCAGCGATTCGATCACC 59.421 55.000 10.88 0.00 0.00 4.02
172 173 1.740380 CGATCACCCTTTCGCTCACAT 60.740 52.381 0.00 0.00 0.00 3.21
176 177 2.086869 CACCCTTTCGCTCACATGAAT 58.913 47.619 0.00 0.00 0.00 2.57
181 182 4.161333 CCTTTCGCTCACATGAATTTGAC 58.839 43.478 0.00 0.00 0.00 3.18
183 184 5.122239 CCTTTCGCTCACATGAATTTGACTA 59.878 40.000 0.00 0.00 0.00 2.59
199 200 6.633500 TTTGACTACCAATGAAGGTTTCTG 57.367 37.500 0.00 0.00 43.08 3.02
200 201 4.651778 TGACTACCAATGAAGGTTTCTGG 58.348 43.478 0.00 0.00 43.08 3.86
201 202 4.349636 TGACTACCAATGAAGGTTTCTGGA 59.650 41.667 4.64 0.00 43.08 3.86
213 214 1.075601 TTTCTGGAAGCCCCATGAGT 58.924 50.000 0.00 0.00 45.57 3.41
217 218 0.616395 TGGAAGCCCCATGAGTCGTA 60.616 55.000 0.00 0.00 40.82 3.43
220 221 1.139058 GAAGCCCCATGAGTCGTACAT 59.861 52.381 0.00 0.00 0.00 2.29
224 225 1.484653 CCCCATGAGTCGTACATCCAA 59.515 52.381 0.00 0.00 0.00 3.53
226 227 3.198068 CCCATGAGTCGTACATCCAAAG 58.802 50.000 0.00 0.00 0.00 2.77
230 231 4.436242 TGAGTCGTACATCCAAAGAGAC 57.564 45.455 0.00 0.00 0.00 3.36
241 242 1.278127 CCAAAGAGACGGGAAGCCTTA 59.722 52.381 0.00 0.00 0.00 2.69
246 247 1.549170 GAGACGGGAAGCCTTAAGTGA 59.451 52.381 0.97 0.00 0.00 3.41
247 248 2.168728 GAGACGGGAAGCCTTAAGTGAT 59.831 50.000 0.97 0.00 0.00 3.06
248 249 2.168728 AGACGGGAAGCCTTAAGTGATC 59.831 50.000 0.97 0.00 0.00 2.92
262 263 0.652592 GTGATCGGCTTGGATGAACG 59.347 55.000 0.00 0.00 0.00 3.95
266 267 1.153353 TCGGCTTGGATGAACGTTTC 58.847 50.000 0.46 0.00 0.00 2.78
270 271 3.308530 GGCTTGGATGAACGTTTCAAAG 58.691 45.455 11.31 11.31 43.95 2.77
272 273 3.730715 GCTTGGATGAACGTTTCAAAGTG 59.269 43.478 15.35 2.41 43.95 3.16
274 275 5.504994 GCTTGGATGAACGTTTCAAAGTGTA 60.505 40.000 15.35 0.00 43.95 2.90
277 278 4.851558 GGATGAACGTTTCAAAGTGTATGC 59.148 41.667 0.46 0.00 43.95 3.14
280 281 2.215196 ACGTTTCAAAGTGTATGCCGT 58.785 42.857 0.00 0.00 0.00 5.68
281 282 2.614983 ACGTTTCAAAGTGTATGCCGTT 59.385 40.909 0.00 0.00 0.00 4.44
287 288 4.068599 TCAAAGTGTATGCCGTTGAATCA 58.931 39.130 0.00 0.00 0.00 2.57
288 289 4.083537 TCAAAGTGTATGCCGTTGAATCAC 60.084 41.667 0.00 0.00 0.00 3.06
289 290 3.052455 AGTGTATGCCGTTGAATCACA 57.948 42.857 0.00 0.00 0.00 3.58
290 291 3.407698 AGTGTATGCCGTTGAATCACAA 58.592 40.909 0.00 0.00 36.02 3.33
304 305 7.465111 CGTTGAATCACAAGATCTTCACTATGG 60.465 40.741 4.57 0.00 39.30 2.74
345 347 6.016276 ACAACTCCAGACATAATCAAACCAAC 60.016 38.462 0.00 0.00 0.00 3.77
348 350 5.309638 TCCAGACATAATCAAACCAACGAA 58.690 37.500 0.00 0.00 0.00 3.85
353 355 7.113404 CAGACATAATCAAACCAACGAAAACAG 59.887 37.037 0.00 0.00 0.00 3.16
354 356 6.801575 ACATAATCAAACCAACGAAAACAGT 58.198 32.000 0.00 0.00 0.00 3.55
361 363 3.828786 ACCAACGAAAACAGTTTGACAC 58.171 40.909 0.00 0.00 0.00 3.67
367 369 7.380320 CAACGAAAACAGTTTGACACAATAAC 58.620 34.615 0.00 0.00 0.00 1.89
370 372 8.399425 ACGAAAACAGTTTGACACAATAACATA 58.601 29.630 0.00 0.00 0.00 2.29
402 404 2.405357 CGAATAATCGGATGTGCGAGAC 59.595 50.000 2.63 0.00 45.32 3.36
404 406 6.107302 CGAATAATCGGATGTGCGAGACAC 62.107 50.000 2.63 0.00 46.38 3.67
417 419 2.229302 GCGAGACACAAACCTCTCTAGT 59.771 50.000 0.00 0.00 32.19 2.57
420 422 4.918583 CGAGACACAAACCTCTCTAGTTTC 59.081 45.833 0.00 0.00 35.28 2.78
421 423 4.872664 AGACACAAACCTCTCTAGTTTCG 58.127 43.478 0.00 0.00 35.28 3.46
428 430 1.546476 CCTCTCTAGTTTCGTGGCACT 59.454 52.381 16.72 0.00 0.00 4.40
430 432 1.961394 TCTCTAGTTTCGTGGCACTGT 59.039 47.619 16.72 0.00 0.00 3.55
433 435 2.061773 CTAGTTTCGTGGCACTGTCAG 58.938 52.381 16.72 0.00 0.00 3.51
439 441 1.138069 TCGTGGCACTGTCAGAAAAGA 59.862 47.619 16.72 0.00 0.00 2.52
446 448 3.555956 GCACTGTCAGAAAAGAACGAGAA 59.444 43.478 6.91 0.00 0.00 2.87
447 449 4.212214 GCACTGTCAGAAAAGAACGAGAAT 59.788 41.667 6.91 0.00 0.00 2.40
449 451 6.400515 GCACTGTCAGAAAAGAACGAGAATAG 60.401 42.308 6.91 0.00 0.00 1.73
471 473 5.473039 AGCTTTATTCTCACAAAACCATGC 58.527 37.500 0.00 0.00 0.00 4.06
472 474 4.627035 GCTTTATTCTCACAAAACCATGCC 59.373 41.667 0.00 0.00 0.00 4.40
473 475 4.433186 TTATTCTCACAAAACCATGCCG 57.567 40.909 0.00 0.00 0.00 5.69
474 476 0.958091 TTCTCACAAAACCATGCCGG 59.042 50.000 0.00 0.00 42.50 6.13
476 478 2.430582 CACAAAACCATGCCGGCG 60.431 61.111 23.90 10.49 39.03 6.46
479 481 1.444212 CAAAACCATGCCGGCGAAG 60.444 57.895 23.90 15.04 39.03 3.79
480 482 1.602323 AAAACCATGCCGGCGAAGA 60.602 52.632 23.90 3.74 39.03 2.87
492 507 3.000727 CCGGCGAAGAACATAAAACTCT 58.999 45.455 9.30 0.00 0.00 3.24
500 515 9.062674 GCGAAGAACATAAAACTCTTAAAATCC 57.937 33.333 0.00 0.00 29.59 3.01
508 524 6.665992 AAAACTCTTAAAATCCAAGGTCCC 57.334 37.500 0.00 0.00 0.00 4.46
512 528 4.076394 TCTTAAAATCCAAGGTCCCAACG 58.924 43.478 0.00 0.00 0.00 4.10
514 530 0.898326 AAATCCAAGGTCCCAACGCC 60.898 55.000 0.00 0.00 0.00 5.68
516 532 2.484287 ATCCAAGGTCCCAACGCCAG 62.484 60.000 0.00 0.00 0.00 4.85
518 534 3.175710 AAGGTCCCAACGCCAGGT 61.176 61.111 0.00 0.00 0.00 4.00
519 535 3.491598 AAGGTCCCAACGCCAGGTG 62.492 63.158 0.00 0.00 34.07 4.00
550 570 1.429463 GCGAGGGGAAAGTATATGCG 58.571 55.000 0.00 0.00 0.00 4.73
552 572 1.337823 CGAGGGGAAAGTATATGCGGG 60.338 57.143 0.00 0.00 0.00 6.13
553 573 0.400594 AGGGGAAAGTATATGCGGGC 59.599 55.000 0.00 0.00 0.00 6.13
555 575 0.034337 GGGAAAGTATATGCGGGCGA 59.966 55.000 0.00 0.00 0.00 5.54
556 576 1.338769 GGGAAAGTATATGCGGGCGAT 60.339 52.381 0.00 0.00 0.00 4.58
589 609 4.082190 TCTCTCAAGAAACCCTCATGTACG 60.082 45.833 0.00 0.00 0.00 3.67
593 613 6.604396 TCTCAAGAAACCCTCATGTACGTATA 59.396 38.462 0.00 0.00 0.00 1.47
594 614 7.287005 TCTCAAGAAACCCTCATGTACGTATAT 59.713 37.037 0.00 0.00 0.00 0.86
595 615 8.467963 TCAAGAAACCCTCATGTACGTATATA 57.532 34.615 4.36 0.00 0.00 0.86
596 616 9.085645 TCAAGAAACCCTCATGTACGTATATAT 57.914 33.333 4.36 0.00 0.00 0.86
597 617 9.706691 CAAGAAACCCTCATGTACGTATATATT 57.293 33.333 4.36 0.00 0.00 1.28
609 629 8.984891 TGTACGTATATATTTTGATAACCGGG 57.015 34.615 6.32 0.00 0.00 5.73
610 630 8.801299 TGTACGTATATATTTTGATAACCGGGA 58.199 33.333 6.32 0.00 0.00 5.14
611 631 9.807649 GTACGTATATATTTTGATAACCGGGAT 57.192 33.333 6.32 0.00 0.00 3.85
612 632 8.937634 ACGTATATATTTTGATAACCGGGATC 57.062 34.615 6.32 9.16 0.00 3.36
613 633 7.983484 ACGTATATATTTTGATAACCGGGATCC 59.017 37.037 6.32 1.92 0.00 3.36
614 634 8.202137 CGTATATATTTTGATAACCGGGATCCT 58.798 37.037 12.58 0.00 0.00 3.24
617 637 5.906772 ATTTTGATAACCGGGATCCTACT 57.093 39.130 12.58 0.00 0.00 2.57
622 642 5.075493 TGATAACCGGGATCCTACTTAGAC 58.925 45.833 12.58 4.46 0.00 2.59
643 663 7.681939 AGACTCGGTTCATTTTATTAAGCAA 57.318 32.000 0.00 0.00 0.00 3.91
667 687 3.489355 TGCATTGTATAAGATGGCCAGG 58.511 45.455 13.05 0.00 0.00 4.45
668 688 3.117550 TGCATTGTATAAGATGGCCAGGT 60.118 43.478 13.05 0.44 0.00 4.00
701 721 1.575419 AGGTACTAATTGCCACCGGA 58.425 50.000 9.46 0.00 36.02 5.14
703 723 3.311091 AGGTACTAATTGCCACCGGATA 58.689 45.455 9.46 0.00 36.02 2.59
864 1979 3.560068 AGTTGACTTAGTTTTGCTCACCG 59.440 43.478 0.00 0.00 0.00 4.94
903 2018 6.284459 ACCTCTACAATCCGATCAGAATTTC 58.716 40.000 0.00 0.00 0.00 2.17
915 2030 3.476552 TCAGAATTTCGCTTCAACCTGT 58.523 40.909 0.00 0.00 0.00 4.00
916 2031 4.637276 TCAGAATTTCGCTTCAACCTGTA 58.363 39.130 0.00 0.00 0.00 2.74
918 2033 5.705441 TCAGAATTTCGCTTCAACCTGTATT 59.295 36.000 0.00 0.00 0.00 1.89
919 2034 6.024049 CAGAATTTCGCTTCAACCTGTATTC 58.976 40.000 0.00 0.00 0.00 1.75
920 2035 4.600012 ATTTCGCTTCAACCTGTATTCG 57.400 40.909 0.00 0.00 0.00 3.34
922 2037 0.373716 CGCTTCAACCTGTATTCGCC 59.626 55.000 0.00 0.00 0.00 5.54
923 2038 0.733150 GCTTCAACCTGTATTCGCCC 59.267 55.000 0.00 0.00 0.00 6.13
925 2040 2.009774 CTTCAACCTGTATTCGCCCTG 58.990 52.381 0.00 0.00 0.00 4.45
926 2041 0.392461 TCAACCTGTATTCGCCCTGC 60.392 55.000 0.00 0.00 0.00 4.85
928 2043 0.037590 AACCTGTATTCGCCCTGCAA 59.962 50.000 0.00 0.00 0.00 4.08
945 2076 3.482232 AAGGCTGCAACTGCGTCCT 62.482 57.895 0.50 8.28 45.83 3.85
946 2077 3.426568 GGCTGCAACTGCGTCCTC 61.427 66.667 0.50 0.00 45.83 3.71
1064 2251 1.138661 GATCACAAGAGGAGCAGGAGG 59.861 57.143 0.00 0.00 0.00 4.30
1065 2252 1.078567 CACAAGAGGAGCAGGAGGC 60.079 63.158 0.00 0.00 45.30 4.70
1584 2771 4.838486 CGCGACGAGCTGGAGACC 62.838 72.222 0.00 0.00 45.59 3.85
1586 2773 3.062466 CGACGAGCTGGAGACCCA 61.062 66.667 1.44 0.00 40.95 4.51
1587 2774 2.418910 CGACGAGCTGGAGACCCAT 61.419 63.158 1.44 0.00 42.59 4.00
1599 2786 3.453070 GACCCATGAGGAGCTCGCC 62.453 68.421 7.83 2.16 39.89 5.54
1823 3010 1.899437 CTCGCCAACTGCCCCTTCTA 61.899 60.000 0.00 0.00 36.24 2.10
2032 3220 6.667007 ACATTGCTTGCTTAATTTATTGGC 57.333 33.333 0.00 0.00 0.00 4.52
2091 3279 2.433970 TCAGTATGATTCCGATGGTGCA 59.566 45.455 0.00 0.00 42.56 4.57
2501 3733 6.067263 TGCGAAAAGTTTAAGTGCTACAAT 57.933 33.333 0.00 0.00 0.00 2.71
2502 3734 5.912396 TGCGAAAAGTTTAAGTGCTACAATG 59.088 36.000 0.00 0.00 0.00 2.82
2503 3735 5.342259 GCGAAAAGTTTAAGTGCTACAATGG 59.658 40.000 0.00 0.00 0.00 3.16
2504 3736 6.664515 CGAAAAGTTTAAGTGCTACAATGGA 58.335 36.000 0.00 0.00 0.00 3.41
2505 3737 6.797033 CGAAAAGTTTAAGTGCTACAATGGAG 59.203 38.462 0.00 0.00 0.00 3.86
2506 3738 7.519970 CGAAAAGTTTAAGTGCTACAATGGAGT 60.520 37.037 0.00 0.00 0.00 3.85
2507 3739 8.685838 AAAAGTTTAAGTGCTACAATGGAGTA 57.314 30.769 0.00 0.00 0.00 2.59
2508 3740 7.907214 AAGTTTAAGTGCTACAATGGAGTAG 57.093 36.000 0.00 0.00 43.39 2.57
2509 3741 6.407202 AGTTTAAGTGCTACAATGGAGTAGG 58.593 40.000 0.00 0.00 41.37 3.18
2510 3742 6.013639 AGTTTAAGTGCTACAATGGAGTAGGT 60.014 38.462 0.00 0.00 41.37 3.08
2511 3743 4.910458 AAGTGCTACAATGGAGTAGGTT 57.090 40.909 0.00 0.00 41.37 3.50
2512 3744 4.910458 AGTGCTACAATGGAGTAGGTTT 57.090 40.909 0.00 0.00 41.37 3.27
2515 3747 6.171213 AGTGCTACAATGGAGTAGGTTTTAC 58.829 40.000 0.00 0.00 41.37 2.01
2517 3749 5.173664 GCTACAATGGAGTAGGTTTTACGT 58.826 41.667 0.00 0.00 41.37 3.57
2609 3841 5.806366 TGATGACATCAAGTAGCATTGTG 57.194 39.130 15.83 0.00 36.11 3.33
2869 4101 3.146066 TGCCGTAGATTTTTGCACTCTT 58.854 40.909 0.00 0.00 0.00 2.85
2936 4168 1.079405 TGATCGGCGGTCCAAGTTC 60.079 57.895 18.78 0.00 0.00 3.01
2943 4175 2.280628 GGCGGTCCAAGTTCTATTCTG 58.719 52.381 0.00 0.00 0.00 3.02
2946 4178 3.522553 CGGTCCAAGTTCTATTCTGACC 58.477 50.000 0.00 0.00 37.91 4.02
3000 4232 2.821969 GCACCCACATTGAACTCTTCAT 59.178 45.455 0.00 0.00 39.84 2.57
3001 4233 3.119708 GCACCCACATTGAACTCTTCATC 60.120 47.826 0.00 0.00 39.84 2.92
3002 4234 4.074259 CACCCACATTGAACTCTTCATCA 58.926 43.478 0.00 0.00 39.84 3.07
3043 4275 3.416277 GCTGTATTGTGTGTTGTATGCG 58.584 45.455 0.00 0.00 0.00 4.73
3101 4333 2.892852 CACACAATCCATCCTTGGTGTT 59.107 45.455 0.00 0.00 44.06 3.32
3105 4337 1.176527 ATCCATCCTTGGTGTTTGCG 58.823 50.000 0.00 0.00 44.06 4.85
3119 4351 3.551485 GTGTTTGCGCTGAGTTGAATTTT 59.449 39.130 9.73 0.00 0.00 1.82
3132 4364 4.923281 AGTTGAATTTTACGAAAGCATGCC 59.077 37.500 15.66 0.00 0.00 4.40
3138 4370 1.173043 TACGAAAGCATGCCCAAAGG 58.827 50.000 15.66 1.63 0.00 3.11
3145 4377 0.960364 GCATGCCCAAAGGAAGACGA 60.960 55.000 6.36 0.00 33.47 4.20
3180 4412 2.694397 TCCATGGATAGGAGGGAACTG 58.306 52.381 11.44 0.00 44.43 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 9.599866 AGATGTTTTCGACAGATATCATTGTAA 57.400 29.630 5.32 0.00 42.62 2.41
49 50 9.770097 ATAGATGTTTTCGACAGATATCATTGT 57.230 29.630 5.32 1.08 42.62 2.71
51 52 9.770097 ACATAGATGTTTTCGACAGATATCATT 57.230 29.630 5.32 0.00 42.62 2.57
52 53 9.201127 CACATAGATGTTTTCGACAGATATCAT 57.799 33.333 5.32 0.00 42.62 2.45
53 54 7.653311 CCACATAGATGTTTTCGACAGATATCA 59.347 37.037 5.32 0.00 42.62 2.15
54 55 7.653713 ACCACATAGATGTTTTCGACAGATATC 59.346 37.037 0.00 0.00 42.62 1.63
55 56 7.500992 ACCACATAGATGTTTTCGACAGATAT 58.499 34.615 0.00 0.00 42.62 1.63
56 57 6.873997 ACCACATAGATGTTTTCGACAGATA 58.126 36.000 0.00 0.00 42.62 1.98
57 58 5.734720 ACCACATAGATGTTTTCGACAGAT 58.265 37.500 0.00 0.00 42.62 2.90
58 59 5.147330 ACCACATAGATGTTTTCGACAGA 57.853 39.130 0.00 0.00 42.62 3.41
59 60 6.756542 TGATACCACATAGATGTTTTCGACAG 59.243 38.462 0.00 0.00 42.62 3.51
60 61 6.635755 TGATACCACATAGATGTTTTCGACA 58.364 36.000 0.00 0.00 43.71 4.35
61 62 7.534085 TTGATACCACATAGATGTTTTCGAC 57.466 36.000 0.00 0.00 39.39 4.20
62 63 8.204160 AGATTGATACCACATAGATGTTTTCGA 58.796 33.333 0.00 0.00 39.39 3.71
63 64 8.370493 AGATTGATACCACATAGATGTTTTCG 57.630 34.615 0.00 0.00 39.39 3.46
66 67 8.408601 GCAAAGATTGATACCACATAGATGTTT 58.591 33.333 0.00 0.00 39.39 2.83
67 68 7.557358 TGCAAAGATTGATACCACATAGATGTT 59.443 33.333 0.00 0.00 39.39 2.71
68 69 7.056006 TGCAAAGATTGATACCACATAGATGT 58.944 34.615 0.00 0.00 42.84 3.06
69 70 7.500720 TGCAAAGATTGATACCACATAGATG 57.499 36.000 0.00 0.00 0.00 2.90
70 71 8.523915 TTTGCAAAGATTGATACCACATAGAT 57.476 30.769 8.05 0.00 0.00 1.98
71 72 7.936496 TTTGCAAAGATTGATACCACATAGA 57.064 32.000 8.05 0.00 0.00 1.98
72 73 7.218773 CGTTTTGCAAAGATTGATACCACATAG 59.781 37.037 12.41 0.00 0.00 2.23
73 74 7.026562 CGTTTTGCAAAGATTGATACCACATA 58.973 34.615 12.41 0.00 0.00 2.29
74 75 5.863397 CGTTTTGCAAAGATTGATACCACAT 59.137 36.000 12.41 0.00 0.00 3.21
75 76 5.009110 TCGTTTTGCAAAGATTGATACCACA 59.991 36.000 12.41 0.00 0.00 4.17
76 77 5.457140 TCGTTTTGCAAAGATTGATACCAC 58.543 37.500 12.41 2.80 0.00 4.16
77 78 5.697473 TCGTTTTGCAAAGATTGATACCA 57.303 34.783 12.41 0.00 0.00 3.25
78 79 7.581011 ATTTCGTTTTGCAAAGATTGATACC 57.419 32.000 12.41 0.00 0.00 2.73
79 80 9.341899 AGTATTTCGTTTTGCAAAGATTGATAC 57.658 29.630 12.41 16.75 0.00 2.24
80 81 9.554724 GAGTATTTCGTTTTGCAAAGATTGATA 57.445 29.630 12.41 7.15 0.00 2.15
81 82 7.542130 GGAGTATTTCGTTTTGCAAAGATTGAT 59.458 33.333 12.41 8.05 0.00 2.57
82 83 6.861055 GGAGTATTTCGTTTTGCAAAGATTGA 59.139 34.615 12.41 6.34 0.00 2.57
83 84 6.640499 TGGAGTATTTCGTTTTGCAAAGATTG 59.360 34.615 12.41 4.06 0.00 2.67
84 85 6.744112 TGGAGTATTTCGTTTTGCAAAGATT 58.256 32.000 12.41 1.64 0.00 2.40
85 86 6.325919 TGGAGTATTTCGTTTTGCAAAGAT 57.674 33.333 12.41 5.80 0.00 2.40
86 87 5.759506 TGGAGTATTTCGTTTTGCAAAGA 57.240 34.783 12.41 4.46 0.00 2.52
87 88 7.406799 AATTGGAGTATTTCGTTTTGCAAAG 57.593 32.000 12.41 1.83 0.00 2.77
88 89 7.778470 AAATTGGAGTATTTCGTTTTGCAAA 57.222 28.000 8.05 8.05 0.00 3.68
89 90 7.778470 AAAATTGGAGTATTTCGTTTTGCAA 57.222 28.000 0.00 0.00 0.00 4.08
90 91 7.778470 AAAAATTGGAGTATTTCGTTTTGCA 57.222 28.000 0.00 0.00 0.00 4.08
111 112 9.877178 TTTAATTGCAGTCCTTTTACTGAAAAA 57.123 25.926 8.13 0.15 45.88 1.94
117 118 7.681939 TCGATTTAATTGCAGTCCTTTTACT 57.318 32.000 0.00 0.00 0.00 2.24
118 119 7.008357 GCTTCGATTTAATTGCAGTCCTTTTAC 59.992 37.037 0.00 0.00 0.00 2.01
119 120 7.027161 GCTTCGATTTAATTGCAGTCCTTTTA 58.973 34.615 0.00 0.00 0.00 1.52
120 121 5.863935 GCTTCGATTTAATTGCAGTCCTTTT 59.136 36.000 0.00 0.00 0.00 2.27
121 122 5.048083 TGCTTCGATTTAATTGCAGTCCTTT 60.048 36.000 0.00 0.00 0.00 3.11
122 123 4.458989 TGCTTCGATTTAATTGCAGTCCTT 59.541 37.500 0.00 0.00 0.00 3.36
123 124 4.009675 TGCTTCGATTTAATTGCAGTCCT 58.990 39.130 0.00 0.00 0.00 3.85
124 125 4.346129 CTGCTTCGATTTAATTGCAGTCC 58.654 43.478 0.00 0.00 41.78 3.85
125 126 3.788163 GCTGCTTCGATTTAATTGCAGTC 59.212 43.478 13.13 3.82 46.44 3.51
126 127 3.728864 CGCTGCTTCGATTTAATTGCAGT 60.729 43.478 13.13 0.00 46.44 4.40
127 128 4.787563 ATCGCTGCTTCGATTTAATTGCAG 60.788 41.667 8.22 8.22 45.81 4.41
128 129 2.418280 TCGCTGCTTCGATTTAATTGCA 59.582 40.909 0.00 0.00 33.02 4.08
129 130 3.051606 TCGCTGCTTCGATTTAATTGC 57.948 42.857 0.00 0.00 33.02 3.56
139 140 0.228238 GTGATCGAATCGCTGCTTCG 59.772 55.000 15.35 15.35 45.16 3.79
140 141 0.579156 GGTGATCGAATCGCTGCTTC 59.421 55.000 0.00 0.00 39.66 3.86
141 142 0.811616 GGGTGATCGAATCGCTGCTT 60.812 55.000 0.00 0.00 39.66 3.91
151 152 0.108804 GTGAGCGAAAGGGTGATCGA 60.109 55.000 0.00 0.00 41.43 3.59
153 154 1.667724 CATGTGAGCGAAAGGGTGATC 59.332 52.381 0.00 0.00 0.00 2.92
154 155 1.278985 TCATGTGAGCGAAAGGGTGAT 59.721 47.619 0.00 0.00 0.00 3.06
159 160 4.083110 AGTCAAATTCATGTGAGCGAAAGG 60.083 41.667 0.00 0.00 0.00 3.11
172 173 7.505585 AGAAACCTTCATTGGTAGTCAAATTCA 59.494 33.333 0.00 0.00 39.83 2.57
176 177 5.534654 CCAGAAACCTTCATTGGTAGTCAAA 59.465 40.000 0.00 0.00 39.83 2.69
181 182 4.156739 GCTTCCAGAAACCTTCATTGGTAG 59.843 45.833 0.00 0.00 39.83 3.18
183 184 2.893489 GCTTCCAGAAACCTTCATTGGT 59.107 45.455 0.00 0.00 43.11 3.67
199 200 0.179081 GTACGACTCATGGGGCTTCC 60.179 60.000 0.00 0.00 0.00 3.46
200 201 0.535335 TGTACGACTCATGGGGCTTC 59.465 55.000 0.00 0.00 0.00 3.86
201 202 1.139058 GATGTACGACTCATGGGGCTT 59.861 52.381 0.00 0.00 0.00 4.35
213 214 1.475280 CCCGTCTCTTTGGATGTACGA 59.525 52.381 0.00 0.00 32.35 3.43
217 218 1.339151 GCTTCCCGTCTCTTTGGATGT 60.339 52.381 0.00 0.00 0.00 3.06
220 221 0.836400 AGGCTTCCCGTCTCTTTGGA 60.836 55.000 0.00 0.00 35.76 3.53
224 225 2.028020 CACTTAAGGCTTCCCGTCTCTT 60.028 50.000 1.30 0.00 35.76 2.85
226 227 1.549170 TCACTTAAGGCTTCCCGTCTC 59.451 52.381 1.30 0.00 35.76 3.36
230 231 1.571919 CGATCACTTAAGGCTTCCCG 58.428 55.000 1.30 0.00 35.76 5.14
241 242 2.359900 GTTCATCCAAGCCGATCACTT 58.640 47.619 0.00 0.00 0.00 3.16
246 247 1.737793 GAAACGTTCATCCAAGCCGAT 59.262 47.619 0.00 0.00 0.00 4.18
247 248 1.153353 GAAACGTTCATCCAAGCCGA 58.847 50.000 0.00 0.00 0.00 5.54
248 249 0.871722 TGAAACGTTCATCCAAGCCG 59.128 50.000 0.00 0.00 34.08 5.52
253 254 5.561919 GCATACACTTTGAAACGTTCATCCA 60.562 40.000 0.00 0.00 39.84 3.41
262 263 4.217754 TCAACGGCATACACTTTGAAAC 57.782 40.909 0.00 0.00 0.00 2.78
266 267 4.158384 GTGATTCAACGGCATACACTTTG 58.842 43.478 0.00 0.00 0.00 2.77
270 271 3.435327 TCTTGTGATTCAACGGCATACAC 59.565 43.478 0.00 0.00 32.18 2.90
272 273 4.572389 AGATCTTGTGATTCAACGGCATAC 59.428 41.667 0.00 0.00 32.19 2.39
274 275 3.614092 AGATCTTGTGATTCAACGGCAT 58.386 40.909 0.00 0.00 32.19 4.40
277 278 4.692625 AGTGAAGATCTTGTGATTCAACGG 59.307 41.667 14.00 0.00 32.19 4.44
280 281 7.397221 ACCATAGTGAAGATCTTGTGATTCAA 58.603 34.615 14.00 0.00 32.19 2.69
281 282 6.950842 ACCATAGTGAAGATCTTGTGATTCA 58.049 36.000 14.00 0.00 32.19 2.57
320 321 5.630121 TGGTTTGATTATGTCTGGAGTTGT 58.370 37.500 0.00 0.00 0.00 3.32
329 331 6.915843 ACTGTTTTCGTTGGTTTGATTATGTC 59.084 34.615 0.00 0.00 0.00 3.06
341 343 3.827625 TGTGTCAAACTGTTTTCGTTGG 58.172 40.909 2.41 0.00 0.00 3.77
345 347 7.678194 ATGTTATTGTGTCAAACTGTTTTCG 57.322 32.000 2.41 0.00 0.00 3.46
384 386 2.743938 GTGTCTCGCACATCCGATTAT 58.256 47.619 0.00 0.00 46.91 1.28
398 400 4.918583 CGAAACTAGAGAGGTTTGTGTCTC 59.081 45.833 0.00 0.00 39.72 3.36
404 406 2.737252 GCCACGAAACTAGAGAGGTTTG 59.263 50.000 0.00 0.00 39.43 2.93
407 409 1.272769 GTGCCACGAAACTAGAGAGGT 59.727 52.381 0.00 0.00 0.00 3.85
417 419 2.031258 TTTCTGACAGTGCCACGAAA 57.969 45.000 1.59 0.00 0.00 3.46
420 422 1.581934 TCTTTTCTGACAGTGCCACG 58.418 50.000 1.59 0.00 0.00 4.94
421 423 2.286418 CGTTCTTTTCTGACAGTGCCAC 60.286 50.000 1.59 0.00 0.00 5.01
428 430 5.784177 AGCTATTCTCGTTCTTTTCTGACA 58.216 37.500 0.00 0.00 0.00 3.58
430 432 9.436957 AATAAAGCTATTCTCGTTCTTTTCTGA 57.563 29.630 0.00 0.00 0.00 3.27
446 448 7.260603 GCATGGTTTTGTGAGAATAAAGCTAT 58.739 34.615 0.00 0.00 0.00 2.97
447 449 6.350110 GGCATGGTTTTGTGAGAATAAAGCTA 60.350 38.462 0.00 0.00 0.00 3.32
449 451 4.627035 GGCATGGTTTTGTGAGAATAAAGC 59.373 41.667 0.00 0.00 0.00 3.51
461 463 1.444212 CTTCGCCGGCATGGTTTTG 60.444 57.895 28.98 7.38 41.21 2.44
467 469 1.013596 TTATGTTCTTCGCCGGCATG 58.986 50.000 28.98 15.55 0.00 4.06
471 473 3.000727 AGAGTTTTATGTTCTTCGCCGG 58.999 45.455 0.00 0.00 0.00 6.13
472 474 4.663636 AAGAGTTTTATGTTCTTCGCCG 57.336 40.909 0.00 0.00 0.00 6.46
473 475 8.965986 ATTTTAAGAGTTTTATGTTCTTCGCC 57.034 30.769 0.00 0.00 33.51 5.54
474 476 9.062674 GGATTTTAAGAGTTTTATGTTCTTCGC 57.937 33.333 0.00 0.00 33.51 4.70
492 507 2.559231 GCGTTGGGACCTTGGATTTTAA 59.441 45.455 0.00 0.00 0.00 1.52
500 515 2.672996 CCTGGCGTTGGGACCTTG 60.673 66.667 0.00 0.00 0.00 3.61
526 542 1.054978 ATACTTTCCCCTCGCCTCCC 61.055 60.000 0.00 0.00 0.00 4.30
528 544 2.613223 GCATATACTTTCCCCTCGCCTC 60.613 54.545 0.00 0.00 0.00 4.70
538 554 1.128692 GCATCGCCCGCATATACTTTC 59.871 52.381 0.00 0.00 0.00 2.62
552 572 2.964389 GAGAAGAGCCGGCATCGC 60.964 66.667 31.54 20.74 34.56 4.58
553 573 1.299773 GAGAGAAGAGCCGGCATCG 60.300 63.158 31.54 0.00 0.00 3.84
555 575 0.177604 CTTGAGAGAAGAGCCGGCAT 59.822 55.000 31.54 14.70 0.00 4.40
556 576 0.900182 TCTTGAGAGAAGAGCCGGCA 60.900 55.000 31.54 0.00 0.00 5.69
559 579 2.342179 GGTTTCTTGAGAGAAGAGCCG 58.658 52.381 0.00 0.00 42.55 5.52
561 581 3.007398 TGAGGGTTTCTTGAGAGAAGAGC 59.993 47.826 0.00 0.00 42.55 4.09
563 583 4.594920 ACATGAGGGTTTCTTGAGAGAAGA 59.405 41.667 0.00 0.00 42.55 2.87
593 613 7.569599 AGTAGGATCCCGGTTATCAAAATAT 57.430 36.000 8.55 0.00 0.00 1.28
594 614 7.383156 AAGTAGGATCCCGGTTATCAAAATA 57.617 36.000 8.55 0.00 0.00 1.40
595 615 5.906772 AGTAGGATCCCGGTTATCAAAAT 57.093 39.130 8.55 0.86 0.00 1.82
596 616 5.703730 AAGTAGGATCCCGGTTATCAAAA 57.296 39.130 8.55 0.00 0.00 2.44
597 617 6.041296 GTCTAAGTAGGATCCCGGTTATCAAA 59.959 42.308 8.55 1.33 0.00 2.69
598 618 5.537674 GTCTAAGTAGGATCCCGGTTATCAA 59.462 44.000 8.55 1.63 0.00 2.57
599 619 5.075493 GTCTAAGTAGGATCCCGGTTATCA 58.925 45.833 8.55 0.00 0.00 2.15
600 620 5.323581 AGTCTAAGTAGGATCCCGGTTATC 58.676 45.833 8.55 2.80 0.00 1.75
601 621 5.323581 GAGTCTAAGTAGGATCCCGGTTAT 58.676 45.833 8.55 0.00 0.00 1.89
602 622 4.723309 GAGTCTAAGTAGGATCCCGGTTA 58.277 47.826 8.55 2.71 0.00 2.85
603 623 3.564264 GAGTCTAAGTAGGATCCCGGTT 58.436 50.000 8.55 1.51 0.00 4.44
604 624 2.486907 CGAGTCTAAGTAGGATCCCGGT 60.487 54.545 8.55 0.00 0.00 5.28
605 625 2.152830 CGAGTCTAAGTAGGATCCCGG 58.847 57.143 8.55 0.00 0.00 5.73
606 626 2.152830 CCGAGTCTAAGTAGGATCCCG 58.847 57.143 8.55 0.05 0.00 5.14
607 627 3.226682 ACCGAGTCTAAGTAGGATCCC 57.773 52.381 8.55 0.00 0.00 3.85
608 628 4.205587 TGAACCGAGTCTAAGTAGGATCC 58.794 47.826 2.48 2.48 0.00 3.36
609 629 6.394025 AATGAACCGAGTCTAAGTAGGATC 57.606 41.667 0.00 0.00 0.00 3.36
610 630 6.793505 AAATGAACCGAGTCTAAGTAGGAT 57.206 37.500 0.00 0.00 0.00 3.24
611 631 6.600882 AAAATGAACCGAGTCTAAGTAGGA 57.399 37.500 0.00 0.00 0.00 2.94
612 632 8.943909 AATAAAATGAACCGAGTCTAAGTAGG 57.056 34.615 0.00 0.00 0.00 3.18
615 635 8.880750 GCTTAATAAAATGAACCGAGTCTAAGT 58.119 33.333 0.00 0.00 0.00 2.24
616 636 8.879759 TGCTTAATAAAATGAACCGAGTCTAAG 58.120 33.333 0.00 0.00 0.00 2.18
617 637 8.780846 TGCTTAATAAAATGAACCGAGTCTAA 57.219 30.769 0.00 0.00 0.00 2.10
622 642 7.201350 GCAAGTTGCTTAATAAAATGAACCGAG 60.201 37.037 20.71 0.00 40.96 4.63
643 663 4.535781 TGGCCATCTTATACAATGCAAGT 58.464 39.130 0.00 0.00 0.00 3.16
655 675 3.587061 TCTTTTCTCACCTGGCCATCTTA 59.413 43.478 5.51 0.00 0.00 2.10
659 679 2.978156 TTCTTTTCTCACCTGGCCAT 57.022 45.000 5.51 0.00 0.00 4.40
662 682 4.767409 ACCTATTTTCTTTTCTCACCTGGC 59.233 41.667 0.00 0.00 0.00 4.85
689 709 0.179056 CCGTCTATCCGGTGGCAATT 60.179 55.000 0.00 0.00 43.07 2.32
690 710 1.445942 CCGTCTATCCGGTGGCAAT 59.554 57.895 0.00 0.00 43.07 3.56
699 719 3.214250 CTCCTGCGGCCGTCTATCC 62.214 68.421 28.70 9.35 0.00 2.59
700 720 2.136196 CTCTCCTGCGGCCGTCTATC 62.136 65.000 28.70 10.19 0.00 2.08
701 721 2.123854 TCTCCTGCGGCCGTCTAT 60.124 61.111 28.70 0.00 0.00 1.98
783 1897 7.057264 AGTAAGAGGAGGGATTTTATTTCAGC 58.943 38.462 0.00 0.00 0.00 4.26
864 1979 5.408356 TGTAGAGGTCGTCTAATTTCTTGC 58.592 41.667 3.87 0.00 39.61 4.01
903 2018 0.373716 GGCGAATACAGGTTGAAGCG 59.626 55.000 0.00 0.00 0.00 4.68
950 2081 4.152625 GCTGCACGCCGATGACAC 62.153 66.667 0.00 0.00 0.00 3.67
951 2082 4.377708 AGCTGCACGCCGATGACA 62.378 61.111 1.02 0.00 40.39 3.58
1107 2294 3.260100 CAGGGCAGGAGGGTGGTT 61.260 66.667 0.00 0.00 0.00 3.67
1350 2537 1.801913 CGCGAAGTCGTCCAGGAAG 60.802 63.158 0.00 0.00 42.22 3.46
1580 2767 2.430610 GCGAGCTCCTCATGGGTCT 61.431 63.158 8.47 0.00 36.25 3.85
1584 2771 3.531207 TCGGCGAGCTCCTCATGG 61.531 66.667 4.99 0.00 0.00 3.66
1586 2773 3.532155 GGTCGGCGAGCTCCTCAT 61.532 66.667 29.74 0.00 0.00 2.90
1893 3080 2.798445 TAAGGAGCAGGCGGAGGTGA 62.798 60.000 0.00 0.00 0.00 4.02
2032 3220 8.730680 AGTAGCATCAGTTTTACCAGTATTTTG 58.269 33.333 0.00 0.00 0.00 2.44
2091 3279 1.586154 CGTCCAAAGCTTCGCCCAAT 61.586 55.000 0.00 0.00 0.00 3.16
2137 3325 3.550030 GCGTCCATCTTCTTCTCTAGCTC 60.550 52.174 0.00 0.00 0.00 4.09
2345 3573 3.056107 GGTGCTTTCCAAAAATACTCCCC 60.056 47.826 0.00 0.00 0.00 4.81
2380 3612 1.464687 CGCTTCTGCCGATTGTTCAAG 60.465 52.381 0.00 0.00 35.36 3.02
2381 3613 0.516877 CGCTTCTGCCGATTGTTCAA 59.483 50.000 0.00 0.00 35.36 2.69
2382 3614 0.602638 ACGCTTCTGCCGATTGTTCA 60.603 50.000 0.00 0.00 35.36 3.18
2501 3733 6.232692 AGCATAAAACGTAAAACCTACTCCA 58.767 36.000 0.00 0.00 0.00 3.86
2502 3734 6.592994 AGAGCATAAAACGTAAAACCTACTCC 59.407 38.462 0.00 0.00 0.00 3.85
2503 3735 7.330208 TGAGAGCATAAAACGTAAAACCTACTC 59.670 37.037 0.00 0.00 0.00 2.59
2504 3736 7.156673 TGAGAGCATAAAACGTAAAACCTACT 58.843 34.615 0.00 0.00 0.00 2.57
2505 3737 7.355332 TGAGAGCATAAAACGTAAAACCTAC 57.645 36.000 0.00 0.00 0.00 3.18
2506 3738 6.091713 GCTGAGAGCATAAAACGTAAAACCTA 59.908 38.462 0.00 0.00 41.89 3.08
2507 3739 5.106673 GCTGAGAGCATAAAACGTAAAACCT 60.107 40.000 0.00 0.00 41.89 3.50
2508 3740 5.086727 GCTGAGAGCATAAAACGTAAAACC 58.913 41.667 0.00 0.00 41.89 3.27
2634 3866 8.349245 TGAATTCAAACGAGAAAATGCTAGAAA 58.651 29.630 5.45 0.00 0.00 2.52
2813 4045 2.504175 GTGTGGATTCACCCTAAGGCTA 59.496 50.000 0.46 0.00 42.98 3.93
3019 4251 1.961793 ACAACACACAATACAGCGGT 58.038 45.000 0.00 0.00 0.00 5.68
3043 4275 0.108756 GTCACTACTCGGAAGCCACC 60.109 60.000 0.00 0.00 0.00 4.61
3101 4333 3.248841 TCGTAAAATTCAACTCAGCGCAA 59.751 39.130 11.47 0.00 0.00 4.85
3105 4337 5.212194 TGCTTTCGTAAAATTCAACTCAGC 58.788 37.500 0.00 0.00 0.00 4.26
3119 4351 1.173043 CCTTTGGGCATGCTTTCGTA 58.827 50.000 18.92 0.00 0.00 3.43
3132 4364 4.575885 TCCATAAGTTCGTCTTCCTTTGG 58.424 43.478 0.00 0.00 37.56 3.28
3138 4370 6.154451 GAACACTTCCATAAGTTCGTCTTC 57.846 41.667 0.00 0.00 43.60 2.87
3187 4419 0.324614 ATGCGTGGATCCACAAGACA 59.675 50.000 37.42 29.09 46.47 3.41
3188 4420 1.009829 GATGCGTGGATCCACAAGAC 58.990 55.000 37.42 25.28 46.47 3.01
3202 4434 1.199327 GAAGCCATGATGGATGATGCG 59.801 52.381 17.22 0.00 40.96 4.73
3207 4439 1.325355 GTGGGAAGCCATGATGGATG 58.675 55.000 17.22 0.00 40.96 3.51


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

AutoCloner maintained by Alex Coulton.