Multiple sequence alignment - TraesCS6A01G338700

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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 TraesCS6A01G338700 chr6A 100.000 2252 0 0 1 2252 572105040 572102789 0.000000e+00 4159.0
1 TraesCS6A01G338700 chr6A 81.132 159 20 9 160 311 471872078 471871923 3.930000e-23 119.0
2 TraesCS6A01G338700 chr6D 85.832 1094 75 35 779 1820 427340707 427339642 0.000000e+00 1088.0
3 TraesCS6A01G338700 chr6D 90.476 441 33 8 1 435 427343009 427342572 6.980000e-160 573.0
4 TraesCS6A01G338700 chr6D 89.631 434 36 6 1823 2252 427339507 427339079 5.470000e-151 544.0
5 TraesCS6A01G338700 chr6B 90.560 625 40 9 667 1285 643251913 643251302 0.000000e+00 809.0
6 TraesCS6A01G338700 chr6B 88.304 513 31 13 1458 1950 643251083 643250580 2.490000e-164 588.0
7 TraesCS6A01G338700 chr6B 90.878 296 23 3 1961 2252 643243717 643243422 5.830000e-106 394.0
8 TraesCS6A01G338700 chr6B 95.122 82 3 1 585 665 643252041 643251960 6.530000e-26 128.0
9 TraesCS6A01G338700 chr4A 84.195 329 31 10 1 319 47148686 47149003 1.310000e-77 300.0
10 TraesCS6A01G338700 chr1B 80.838 167 19 5 162 318 369228075 369227912 3.930000e-23 119.0
11 TraesCS6A01G338700 chr1B 88.636 88 7 2 230 317 639046686 639046602 1.100000e-18 104.0
12 TraesCS6A01G338700 chr1B 78.981 157 22 9 156 308 677523254 677523403 1.840000e-16 97.1
13 TraesCS6A01G338700 chr1B 85.417 96 8 6 217 311 266914766 266914856 6.620000e-16 95.3
14 TraesCS6A01G338700 chr5B 90.244 82 5 3 231 312 309683187 309683265 1.100000e-18 104.0
15 TraesCS6A01G338700 chr2A 87.234 94 6 6 220 311 710271125 710271036 3.960000e-18 102.0
16 TraesCS6A01G338700 chr2B 88.889 81 6 2 230 310 756548265 756548188 1.840000e-16 97.1


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 TraesCS6A01G338700 chr6A 572102789 572105040 2251 True 4159.000000 4159 100.000000 1 2252 1 chr6A.!!$R2 2251
1 TraesCS6A01G338700 chr6D 427339079 427343009 3930 True 735.000000 1088 88.646333 1 2252 3 chr6D.!!$R1 2251
2 TraesCS6A01G338700 chr6B 643250580 643252041 1461 True 508.333333 809 91.328667 585 1950 3 chr6B.!!$R2 1365

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
239 244 0.108089 TGTGTGCTACGTGTGTGGTT 60.108 50.0 0.0 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1491 3247 0.034186 TCACTGCCATTTAGCCAGGG 60.034 55.0 0.0 0.0 0.0 4.45 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
33 34 2.897436 TCTTCATTGCAGATCTCCGTG 58.103 47.619 0.00 0.00 0.00 4.94
73 76 1.376037 CTTCGCTTCCTCCACCACC 60.376 63.158 0.00 0.00 0.00 4.61
77 80 4.760047 CTTCCTCCACCACCGCGG 62.760 72.222 26.86 26.86 42.50 6.46
160 164 4.129148 CCCTTGGCCTGGGCTACC 62.129 72.222 21.72 1.14 41.60 3.18
199 204 3.892633 TTGAGTTGTGCCCTCAACA 57.107 47.368 13.60 0.00 46.78 3.33
218 223 7.201821 CCTCAACAAAATCCTCTTGTACTTTGT 60.202 37.037 0.00 0.00 38.32 2.83
221 226 8.594687 CAACAAAATCCTCTTGTACTTTGTTTG 58.405 33.333 12.83 7.03 41.66 2.93
239 244 0.108089 TGTGTGCTACGTGTGTGGTT 60.108 50.000 0.00 0.00 0.00 3.67
245 250 3.495377 GTGCTACGTGTGTGGTTTGAATA 59.505 43.478 0.00 0.00 0.00 1.75
271 276 1.815003 GTTGGATCTTTGTGGCTCTGG 59.185 52.381 0.00 0.00 0.00 3.86
293 298 9.914834 TCTGGTGGTTTGCTTTATATATAAAGT 57.085 29.630 31.63 0.00 46.78 2.66
296 301 8.357402 GGTGGTTTGCTTTATATATAAAGTGGG 58.643 37.037 31.63 17.26 46.78 4.61
297 302 8.357402 GTGGTTTGCTTTATATATAAAGTGGGG 58.643 37.037 31.63 16.99 46.78 4.96
302 307 8.540507 TGCTTTATATATAAAGTGGGGCAAAA 57.459 30.769 31.63 11.43 46.78 2.44
303 308 8.637986 TGCTTTATATATAAAGTGGGGCAAAAG 58.362 33.333 31.63 15.33 46.78 2.27
304 309 7.598869 GCTTTATATATAAAGTGGGGCAAAAGC 59.401 37.037 31.63 19.53 46.78 3.51
349 354 7.017353 ACACTGATGATTCTCCATGGAATCTAT 59.983 37.037 21.69 15.13 46.79 1.98
353 358 8.612145 TGATGATTCTCCATGGAATCTATCATT 58.388 33.333 25.66 16.85 46.79 2.57
355 360 7.752638 TGATTCTCCATGGAATCTATCATTGT 58.247 34.615 21.69 0.00 46.79 2.71
359 364 7.752638 TCTCCATGGAATCTATCATTGTCAAT 58.247 34.615 17.00 0.00 0.00 2.57
364 369 8.512956 CATGGAATCTATCATTGTCAATCTTCC 58.487 37.037 0.00 3.21 0.00 3.46
367 372 8.566260 GGAATCTATCATTGTCAATCTTCCTTG 58.434 37.037 0.00 0.00 0.00 3.61
420 425 4.141158 AGGACTCAAACAAGGAACCTCATT 60.141 41.667 0.00 0.00 0.00 2.57
427 432 6.823689 TCAAACAAGGAACCTCATTCTATAGC 59.176 38.462 0.00 0.00 37.48 2.97
435 440 8.757877 AGGAACCTCATTCTATAGCTAATGATC 58.242 37.037 14.14 10.41 40.37 2.92
462 467 3.384348 TTCCGACGGGAGGAAAGG 58.616 61.111 15.25 0.00 44.98 3.11
463 468 1.534717 TTCCGACGGGAGGAAAGGT 60.535 57.895 15.25 0.00 44.98 3.50
464 469 1.123246 TTCCGACGGGAGGAAAGGTT 61.123 55.000 15.25 0.00 44.98 3.50
465 470 1.079336 CCGACGGGAGGAAAGGTTC 60.079 63.158 5.81 0.00 34.06 3.62
491 496 9.323985 CCTCACCTGAATTTTCATTTTAAAACA 57.676 29.630 1.97 0.00 36.46 2.83
502 507 9.838339 TTTTCATTTTAAAACAGGCTAAATCCA 57.162 25.926 1.97 0.00 0.00 3.41
512 517 5.010282 ACAGGCTAAATCCAAGATCGTTTT 58.990 37.500 0.00 0.00 0.00 2.43
514 519 6.657541 ACAGGCTAAATCCAAGATCGTTTTAA 59.342 34.615 0.00 0.00 0.00 1.52
516 521 8.190784 CAGGCTAAATCCAAGATCGTTTTAAAT 58.809 33.333 0.00 0.00 0.00 1.40
521 526 6.699575 ATCCAAGATCGTTTTAAATGAGGG 57.300 37.500 5.81 5.00 0.00 4.30
541 546 0.113190 AGGAGAGGGGCAAAAACCAG 59.887 55.000 0.00 0.00 0.00 4.00
543 548 1.272704 GGAGAGGGGCAAAAACCAGAT 60.273 52.381 0.00 0.00 0.00 2.90
544 549 1.821136 GAGAGGGGCAAAAACCAGATG 59.179 52.381 0.00 0.00 0.00 2.90
556 561 6.666417 CAAAAACCAGATGAACAAGAGAGAG 58.334 40.000 0.00 0.00 0.00 3.20
557 562 5.815233 AAACCAGATGAACAAGAGAGAGA 57.185 39.130 0.00 0.00 0.00 3.10
558 563 4.799564 ACCAGATGAACAAGAGAGAGAC 57.200 45.455 0.00 0.00 0.00 3.36
559 564 4.155709 ACCAGATGAACAAGAGAGAGACA 58.844 43.478 0.00 0.00 0.00 3.41
566 571 5.545588 TGAACAAGAGAGAGACAAATGAGG 58.454 41.667 0.00 0.00 0.00 3.86
569 574 5.083122 ACAAGAGAGAGACAAATGAGGAGA 58.917 41.667 0.00 0.00 0.00 3.71
575 580 5.541868 AGAGAGACAAATGAGGAGAAAGTCA 59.458 40.000 0.00 0.00 0.00 3.41
576 581 5.792741 AGAGACAAATGAGGAGAAAGTCAG 58.207 41.667 0.00 0.00 0.00 3.51
577 582 5.541868 AGAGACAAATGAGGAGAAAGTCAGA 59.458 40.000 0.00 0.00 0.00 3.27
579 584 5.541868 AGACAAATGAGGAGAAAGTCAGAGA 59.458 40.000 0.00 0.00 0.00 3.10
580 585 5.546526 ACAAATGAGGAGAAAGTCAGAGAC 58.453 41.667 0.00 0.00 0.00 3.36
581 586 5.306678 ACAAATGAGGAGAAAGTCAGAGACT 59.693 40.000 0.00 0.00 45.64 3.24
582 587 6.495181 ACAAATGAGGAGAAAGTCAGAGACTA 59.505 38.462 0.00 0.00 42.59 2.59
583 588 6.524101 AATGAGGAGAAAGTCAGAGACTAC 57.476 41.667 0.00 0.00 42.59 2.73
584 589 4.986783 TGAGGAGAAAGTCAGAGACTACA 58.013 43.478 0.00 0.00 42.59 2.74
585 590 5.386060 TGAGGAGAAAGTCAGAGACTACAA 58.614 41.667 0.00 0.00 42.59 2.41
586 591 5.833667 TGAGGAGAAAGTCAGAGACTACAAA 59.166 40.000 0.00 0.00 42.59 2.83
587 592 6.091718 AGGAGAAAGTCAGAGACTACAAAC 57.908 41.667 0.00 0.00 42.59 2.93
588 593 5.836358 AGGAGAAAGTCAGAGACTACAAACT 59.164 40.000 0.00 0.00 42.59 2.66
589 594 5.923684 GGAGAAAGTCAGAGACTACAAACTG 59.076 44.000 0.00 0.00 42.59 3.16
590 595 5.848406 AGAAAGTCAGAGACTACAAACTGG 58.152 41.667 0.00 0.00 42.59 4.00
591 596 5.364157 AGAAAGTCAGAGACTACAAACTGGT 59.636 40.000 0.00 0.00 42.59 4.00
660 665 6.386927 ACACCACTATGAAGATCCATCCTTAA 59.613 38.462 0.00 0.00 0.00 1.85
665 670 4.672587 TGAAGATCCATCCTTAACCTCG 57.327 45.455 0.00 0.00 0.00 4.63
671 721 3.910989 TCCATCCTTAACCTCGAGATCA 58.089 45.455 15.71 0.00 0.00 2.92
682 732 3.057019 CCTCGAGATCACGAAACACAAA 58.943 45.455 15.71 0.00 41.67 2.83
690 740 5.529430 AGATCACGAAACACAAACACCAATA 59.471 36.000 0.00 0.00 0.00 1.90
704 754 9.088987 ACAAACACCAATATTACATCTTCCTTT 57.911 29.630 0.00 0.00 0.00 3.11
707 757 8.511604 ACACCAATATTACATCTTCCTTTCTG 57.488 34.615 0.00 0.00 0.00 3.02
712 762 8.960591 CAATATTACATCTTCCTTTCTGGTGTT 58.039 33.333 0.00 0.00 37.07 3.32
722 772 7.984617 TCTTCCTTTCTGGTGTTTTTAATTTGG 59.015 33.333 0.00 0.00 37.07 3.28
724 774 7.269316 TCCTTTCTGGTGTTTTTAATTTGGTC 58.731 34.615 0.00 0.00 37.07 4.02
736 786 7.784790 TTTTAATTTGGTCTTAATCGCGAAC 57.215 32.000 15.24 6.03 0.00 3.95
741 791 3.504863 TGGTCTTAATCGCGAACACTAC 58.495 45.455 15.24 9.32 0.00 2.73
748 798 0.386352 TCGCGAACACTACCTCAACG 60.386 55.000 6.20 0.00 0.00 4.10
749 799 0.662374 CGCGAACACTACCTCAACGT 60.662 55.000 0.00 0.00 0.00 3.99
805 2496 4.592192 ATGCCAGCGACGATCCCG 62.592 66.667 0.00 0.00 42.50 5.14
860 2551 3.740141 GCTTTAGCCATAGCCTGAACGTA 60.740 47.826 0.00 0.00 41.25 3.57
863 2554 1.139058 AGCCATAGCCTGAACGTAAGG 59.861 52.381 11.94 11.94 41.10 2.69
906 2597 3.470567 CTCGACACGCCAAGACGC 61.471 66.667 0.00 0.00 36.19 5.19
910 2601 1.132640 GACACGCCAAGACGCATTC 59.867 57.895 0.00 0.00 36.19 2.67
951 2642 1.212751 CCTTTTGCGCTAACCAGCC 59.787 57.895 9.73 0.00 45.64 4.85
1237 2928 4.133373 CCCACCCCCAGCCAGATG 62.133 72.222 0.00 0.00 0.00 2.90
1283 2977 3.702048 CACGACACCACCCGGGAT 61.702 66.667 32.02 8.96 41.15 3.85
1286 2981 2.949909 CGACACCACCCGGGATCAA 61.950 63.158 32.02 0.00 41.15 2.57
1291 2986 1.750399 CCACCCGGGATCAAGCTTG 60.750 63.158 32.02 20.81 40.01 4.01
1292 2987 1.299648 CACCCGGGATCAAGCTTGA 59.700 57.895 30.23 30.23 42.14 3.02
1307 3002 1.797635 GCTTGAAGCTATCATCCGAGC 59.202 52.381 10.44 0.00 38.45 5.03
1308 3003 2.804572 GCTTGAAGCTATCATCCGAGCA 60.805 50.000 10.44 0.00 41.36 4.26
1340 3060 3.869481 TTTTTGTGCAGGCCCTCC 58.131 55.556 0.00 0.00 0.00 4.30
1341 3061 2.199652 TTTTTGTGCAGGCCCTCCG 61.200 57.895 0.00 0.00 37.47 4.63
1342 3062 2.920076 TTTTTGTGCAGGCCCTCCGT 62.920 55.000 0.00 0.00 37.47 4.69
1343 3063 2.058125 TTTTGTGCAGGCCCTCCGTA 62.058 55.000 0.00 0.00 37.47 4.02
1344 3064 2.463589 TTTGTGCAGGCCCTCCGTAG 62.464 60.000 0.00 0.00 37.47 3.51
1345 3065 3.391382 GTGCAGGCCCTCCGTAGT 61.391 66.667 0.00 0.00 37.47 2.73
1346 3066 2.606519 TGCAGGCCCTCCGTAGTT 60.607 61.111 0.00 0.00 37.47 2.24
1347 3067 2.125106 GCAGGCCCTCCGTAGTTG 60.125 66.667 0.00 0.00 37.47 3.16
1350 3070 2.221299 AGGCCCTCCGTAGTTGCAA 61.221 57.895 0.00 0.00 37.47 4.08
1351 3071 1.745489 GGCCCTCCGTAGTTGCAAG 60.745 63.158 0.00 0.00 0.00 4.01
1352 3072 2.399356 GCCCTCCGTAGTTGCAAGC 61.399 63.158 0.00 0.00 0.00 4.01
1359 3082 2.806244 TCCGTAGTTGCAAGCTTTCTTC 59.194 45.455 0.00 0.00 0.00 2.87
1370 3093 0.605083 GCTTTCTTCAGCAAAGGGGG 59.395 55.000 0.00 0.00 39.83 5.40
1374 3097 1.379044 CTTCAGCAAAGGGGGCGAT 60.379 57.895 0.00 0.00 36.08 4.58
1377 3100 1.978617 CAGCAAAGGGGGCGATTGT 60.979 57.895 0.00 0.00 36.08 2.71
1378 3101 0.679640 CAGCAAAGGGGGCGATTGTA 60.680 55.000 0.00 0.00 36.08 2.41
1390 3113 1.806542 GCGATTGTAATGGCCATCGAT 59.193 47.619 24.41 15.91 34.54 3.59
1402 3125 2.555199 GCCATCGATTTCTGTAGCACT 58.445 47.619 0.00 0.00 0.00 4.40
1403 3126 2.286294 GCCATCGATTTCTGTAGCACTG 59.714 50.000 0.00 0.00 0.00 3.66
1404 3127 2.868583 CCATCGATTTCTGTAGCACTGG 59.131 50.000 0.00 0.00 0.00 4.00
1406 3129 2.176045 TCGATTTCTGTAGCACTGGGA 58.824 47.619 0.00 0.00 0.00 4.37
1407 3130 2.166459 TCGATTTCTGTAGCACTGGGAG 59.834 50.000 0.00 0.00 0.00 4.30
1410 3133 4.681781 CGATTTCTGTAGCACTGGGAGATT 60.682 45.833 0.00 0.00 0.00 2.40
1413 3136 3.445008 TCTGTAGCACTGGGAGATTTCT 58.555 45.455 0.00 0.00 0.00 2.52
1415 3138 4.287067 TCTGTAGCACTGGGAGATTTCTTT 59.713 41.667 0.00 0.00 0.00 2.52
1416 3139 5.483937 TCTGTAGCACTGGGAGATTTCTTTA 59.516 40.000 0.00 0.00 0.00 1.85
1417 3140 5.488341 TGTAGCACTGGGAGATTTCTTTAC 58.512 41.667 0.00 0.00 0.00 2.01
1418 3141 3.956744 AGCACTGGGAGATTTCTTTACC 58.043 45.455 0.00 0.00 0.00 2.85
1421 3144 4.518249 CACTGGGAGATTTCTTTACCCTC 58.482 47.826 0.00 0.00 40.98 4.30
1423 3146 4.471747 ACTGGGAGATTTCTTTACCCTCTC 59.528 45.833 0.00 0.00 40.98 3.20
1447 3170 5.923204 TGAATTGTGGTGCTAATTTGGTTT 58.077 33.333 0.00 0.00 0.00 3.27
1454 3177 4.022416 TGGTGCTAATTTGGTTTGCTGTAG 60.022 41.667 0.00 0.00 38.99 2.74
1472 3228 0.679505 AGTTCTGCCGAGTGCTGTAA 59.320 50.000 0.00 0.00 42.00 2.41
1481 3237 2.413112 CCGAGTGCTGTAACATGACTTG 59.587 50.000 0.00 0.00 0.00 3.16
1482 3238 3.317150 CGAGTGCTGTAACATGACTTGA 58.683 45.455 0.00 0.00 0.00 3.02
1483 3239 3.740832 CGAGTGCTGTAACATGACTTGAA 59.259 43.478 0.00 0.00 0.00 2.69
1486 3242 6.090763 CGAGTGCTGTAACATGACTTGAATAA 59.909 38.462 0.00 0.00 0.00 1.40
1491 3247 9.624697 TGCTGTAACATGACTTGAATAATTTTC 57.375 29.630 0.00 0.00 0.00 2.29
1495 3251 9.573133 GTAACATGACTTGAATAATTTTCCCTG 57.427 33.333 0.00 0.00 0.00 4.45
1584 3346 9.798994 ATCTTGCATACATTTCTGAAGATTTTC 57.201 29.630 0.00 0.00 0.00 2.29
1585 3347 9.017509 TCTTGCATACATTTCTGAAGATTTTCT 57.982 29.630 0.00 0.00 34.31 2.52
1640 3420 1.224069 GCAGACTTCAGAGTTGCGCA 61.224 55.000 5.66 5.66 35.88 6.09
1680 3460 1.893315 AGCTAATGGGTTCCCTAGCA 58.107 50.000 22.52 1.08 36.79 3.49
1723 3503 5.643379 ATGTTACAGTTGCTACCCAATTG 57.357 39.130 0.00 0.00 44.18 2.32
1768 3551 3.278574 TCTAAAGTTTGCTGTGCACAGT 58.721 40.909 39.30 24.41 45.45 3.55
1777 3560 1.730501 CTGTGCACAGTATGGTCTGG 58.269 55.000 34.04 9.68 43.62 3.86
1778 3561 1.002430 CTGTGCACAGTATGGTCTGGT 59.998 52.381 34.04 0.00 43.62 4.00
1779 3562 1.001974 TGTGCACAGTATGGTCTGGTC 59.998 52.381 17.42 0.00 43.62 4.02
1780 3563 1.276421 GTGCACAGTATGGTCTGGTCT 59.724 52.381 13.17 0.00 43.62 3.85
1781 3564 1.276138 TGCACAGTATGGTCTGGTCTG 59.724 52.381 0.00 0.00 43.62 3.51
1808 3591 9.768662 AACTCTCAATGTTTTTATCAAAGCAAT 57.231 25.926 0.00 0.00 36.76 3.56
1897 3816 9.508567 GATTGCCTTAACTGATTGATTTTCTAC 57.491 33.333 0.00 0.00 0.00 2.59
1922 3841 7.786464 ACCTTTTTATCCCTTCAATGCTATGAT 59.214 33.333 0.00 0.00 0.00 2.45
1923 3842 8.086522 CCTTTTTATCCCTTCAATGCTATGATG 58.913 37.037 0.00 0.00 0.00 3.07
1924 3843 8.765488 TTTTTATCCCTTCAATGCTATGATGA 57.235 30.769 6.73 0.00 0.00 2.92
1950 3869 0.771755 ACCCTTTCCCCTGACACTTC 59.228 55.000 0.00 0.00 0.00 3.01
1954 3873 2.289945 CCTTTCCCCTGACACTTCTGAG 60.290 54.545 0.00 0.00 0.00 3.35
1965 3884 3.332919 ACACTTCTGAGCTTATGTGCAG 58.667 45.455 0.00 0.00 34.99 4.41
2062 3984 9.480053 ACATCTTTGTCCATTTATTGTTTTCAG 57.520 29.630 0.00 0.00 0.00 3.02
2068 3990 9.829507 TTGTCCATTTATTGTTTTCAGTGATTT 57.170 25.926 0.00 0.00 0.00 2.17
2069 3991 9.258826 TGTCCATTTATTGTTTTCAGTGATTTG 57.741 29.630 0.00 0.00 0.00 2.32
2085 4007 6.813152 CAGTGATTTGGATTTTACCATCAACC 59.187 38.462 0.00 0.00 39.82 3.77
2097 4019 7.415592 TTTACCATCAACCATGCAAATATGA 57.584 32.000 0.00 0.00 0.00 2.15
2099 4021 5.663456 ACCATCAACCATGCAAATATGAAC 58.337 37.500 0.00 0.00 0.00 3.18
2105 4027 5.852282 ACCATGCAAATATGAACCTTACC 57.148 39.130 0.00 0.00 0.00 2.85
2106 4028 5.518865 ACCATGCAAATATGAACCTTACCT 58.481 37.500 0.00 0.00 0.00 3.08
2110 4032 8.474025 CCATGCAAATATGAACCTTACCTTTTA 58.526 33.333 0.00 0.00 0.00 1.52
2129 4051 2.283145 ATTTGCCTTCAGTGTGAGCT 57.717 45.000 0.00 0.00 0.00 4.09
2166 4089 5.010282 GTGGTCAGTTGAAGGATTATGGTT 58.990 41.667 0.00 0.00 0.00 3.67
2172 4095 3.173668 TGAAGGATTATGGTTCCGACG 57.826 47.619 0.00 0.00 38.36 5.12
2180 4103 1.792006 ATGGTTCCGACGTTGAAGAC 58.208 50.000 3.74 0.00 0.00 3.01
2208 4131 4.712337 AGATCTCAAGGGTGTAAGTACCAG 59.288 45.833 0.00 0.00 42.69 4.00
2209 4132 3.170717 TCTCAAGGGTGTAAGTACCAGG 58.829 50.000 0.00 0.00 42.69 4.45
2220 4143 3.895704 AAGTACCAGGGGAATTTGTGT 57.104 42.857 0.00 0.00 0.00 3.72
2231 4154 4.261614 GGGGAATTTGTGTCAAACAGAGTC 60.262 45.833 0.00 0.00 40.74 3.36
2238 4161 5.592104 TGTGTCAAACAGAGTCAAGTAGA 57.408 39.130 0.00 0.00 33.78 2.59
2242 4165 5.466728 TGTCAAACAGAGTCAAGTAGATTGC 59.533 40.000 0.00 0.00 38.89 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 3.875727 CGGAGATCTGCAATGAAGATGTT 59.124 43.478 8.77 0.00 34.50 2.71
11 12 3.247886 CACGGAGATCTGCAATGAAGATG 59.752 47.826 8.77 0.00 34.50 2.90
13 14 2.897436 CACGGAGATCTGCAATGAAGA 58.103 47.619 15.10 0.00 0.00 2.87
33 34 2.774799 CCAAGCGTAGGGCCATTGC 61.775 63.158 6.18 5.50 45.17 3.56
57 60 3.691342 CGGTGGTGGAGGAAGCGA 61.691 66.667 0.00 0.00 36.98 4.93
102 106 4.803908 TGCCACGCCACACCACAA 62.804 61.111 0.00 0.00 0.00 3.33
199 204 7.759433 CACACAAACAAAGTACAAGAGGATTTT 59.241 33.333 0.00 0.00 0.00 1.82
218 223 1.010580 CCACACACGTAGCACACAAA 58.989 50.000 0.00 0.00 0.00 2.83
221 226 1.011333 AAACCACACACGTAGCACAC 58.989 50.000 0.00 0.00 0.00 3.82
245 250 5.954150 AGAGCCACAAAGATCCAACATAAAT 59.046 36.000 0.00 0.00 0.00 1.40
311 316 7.861629 AGAATCATCAGTGTCCCACTTTATTA 58.138 34.615 0.00 0.00 42.59 0.98
312 317 6.725364 AGAATCATCAGTGTCCCACTTTATT 58.275 36.000 0.00 0.00 42.59 1.40
316 321 3.054802 GGAGAATCATCAGTGTCCCACTT 60.055 47.826 0.00 0.00 38.97 3.16
349 354 4.002982 CGTCCAAGGAAGATTGACAATGA 58.997 43.478 5.14 0.00 31.55 2.57
353 358 3.071023 ACTTCGTCCAAGGAAGATTGACA 59.929 43.478 14.35 0.00 41.26 3.58
355 360 4.351874 AACTTCGTCCAAGGAAGATTGA 57.648 40.909 14.35 0.00 41.26 2.57
359 364 4.417426 AAGAAACTTCGTCCAAGGAAGA 57.583 40.909 14.35 0.40 41.26 2.87
364 369 4.893424 TGGAAAAGAAACTTCGTCCAAG 57.107 40.909 11.73 0.00 35.80 3.61
367 372 6.270064 TCAAATTGGAAAAGAAACTTCGTCC 58.730 36.000 0.00 0.00 0.00 4.79
383 388 5.902613 TTGAGTCCTTATGCTCAAATTGG 57.097 39.130 4.73 0.00 45.33 3.16
442 447 1.543871 CCTTTCCTCCCGTCGGAAAAA 60.544 52.381 14.39 6.51 44.25 1.94
443 448 0.035739 CCTTTCCTCCCGTCGGAAAA 59.964 55.000 14.39 6.86 44.25 2.29
444 449 1.123246 ACCTTTCCTCCCGTCGGAAA 61.123 55.000 14.39 4.19 44.25 3.13
445 450 1.123246 AACCTTTCCTCCCGTCGGAA 61.123 55.000 14.39 0.00 37.86 4.30
446 451 1.534717 AACCTTTCCTCCCGTCGGA 60.535 57.895 14.39 0.00 36.45 4.55
447 452 1.079336 GAACCTTTCCTCCCGTCGG 60.079 63.158 3.60 3.60 0.00 4.79
448 453 1.079336 GGAACCTTTCCTCCCGTCG 60.079 63.158 0.00 0.00 46.57 5.12
462 467 9.541143 TTTAAAATGAAAATTCAGGTGAGGAAC 57.459 29.630 1.98 0.00 41.08 3.62
464 469 9.541143 GTTTTAAAATGAAAATTCAGGTGAGGA 57.459 29.630 3.52 0.00 41.08 3.71
465 470 9.323985 TGTTTTAAAATGAAAATTCAGGTGAGG 57.676 29.630 3.52 0.00 41.08 3.86
467 472 9.323985 CCTGTTTTAAAATGAAAATTCAGGTGA 57.676 29.630 16.27 0.00 41.08 4.02
468 473 8.069574 GCCTGTTTTAAAATGAAAATTCAGGTG 58.930 33.333 21.52 7.06 41.08 4.00
469 474 7.992608 AGCCTGTTTTAAAATGAAAATTCAGGT 59.007 29.630 21.52 11.86 41.08 4.00
470 475 8.382030 AGCCTGTTTTAAAATGAAAATTCAGG 57.618 30.769 18.63 18.63 41.08 3.86
491 496 7.696992 TTTAAAACGATCTTGGATTTAGCCT 57.303 32.000 0.00 0.00 0.00 4.58
502 507 6.062258 TCCTCCCTCATTTAAAACGATCTT 57.938 37.500 0.00 0.00 0.00 2.40
512 517 1.695989 GCCCCTCTCCTCCCTCATTTA 60.696 57.143 0.00 0.00 0.00 1.40
514 519 1.385206 GCCCCTCTCCTCCCTCATT 60.385 63.158 0.00 0.00 0.00 2.57
516 521 2.415962 TTTGCCCCTCTCCTCCCTCA 62.416 60.000 0.00 0.00 0.00 3.86
521 526 0.112412 TGGTTTTTGCCCCTCTCCTC 59.888 55.000 0.00 0.00 0.00 3.71
541 546 6.313411 CCTCATTTGTCTCTCTCTTGTTCATC 59.687 42.308 0.00 0.00 0.00 2.92
543 548 5.305386 TCCTCATTTGTCTCTCTCTTGTTCA 59.695 40.000 0.00 0.00 0.00 3.18
544 549 5.788450 TCCTCATTTGTCTCTCTCTTGTTC 58.212 41.667 0.00 0.00 0.00 3.18
556 561 5.637387 GTCTCTGACTTTCTCCTCATTTGTC 59.363 44.000 0.00 0.00 0.00 3.18
557 562 5.306678 AGTCTCTGACTTTCTCCTCATTTGT 59.693 40.000 0.00 0.00 40.28 2.83
558 563 5.792741 AGTCTCTGACTTTCTCCTCATTTG 58.207 41.667 0.00 0.00 40.28 2.32
559 564 6.495181 TGTAGTCTCTGACTTTCTCCTCATTT 59.505 38.462 5.52 0.00 40.28 2.32
566 571 5.923684 CCAGTTTGTAGTCTCTGACTTTCTC 59.076 44.000 5.52 0.00 40.28 2.87
569 574 5.615925 ACCAGTTTGTAGTCTCTGACTTT 57.384 39.130 5.52 0.00 40.28 2.66
575 580 3.757493 CGTCCTACCAGTTTGTAGTCTCT 59.243 47.826 0.00 0.00 37.16 3.10
576 581 3.119566 CCGTCCTACCAGTTTGTAGTCTC 60.120 52.174 0.00 0.00 37.16 3.36
577 582 2.824341 CCGTCCTACCAGTTTGTAGTCT 59.176 50.000 0.00 0.00 37.16 3.24
579 584 1.274447 GCCGTCCTACCAGTTTGTAGT 59.726 52.381 0.00 0.00 37.16 2.73
580 585 1.405121 GGCCGTCCTACCAGTTTGTAG 60.405 57.143 0.00 0.00 38.34 2.74
581 586 0.609662 GGCCGTCCTACCAGTTTGTA 59.390 55.000 0.00 0.00 0.00 2.41
582 587 1.373812 GGCCGTCCTACCAGTTTGT 59.626 57.895 0.00 0.00 0.00 2.83
583 588 1.740296 CGGCCGTCCTACCAGTTTG 60.740 63.158 19.50 0.00 0.00 2.93
584 589 2.660802 CGGCCGTCCTACCAGTTT 59.339 61.111 19.50 0.00 0.00 2.66
585 590 3.387947 CCGGCCGTCCTACCAGTT 61.388 66.667 26.12 0.00 0.00 3.16
589 594 4.832608 CTTGCCGGCCGTCCTACC 62.833 72.222 26.77 5.34 0.00 3.18
590 595 4.832608 CCTTGCCGGCCGTCCTAC 62.833 72.222 26.77 8.40 0.00 3.18
619 624 1.064134 TGTCGACATCTGGATCGCG 59.936 57.895 15.76 0.00 38.24 5.87
660 665 1.611977 TGTGTTTCGTGATCTCGAGGT 59.388 47.619 18.16 4.76 40.86 3.85
665 670 3.311322 TGGTGTTTGTGTTTCGTGATCTC 59.689 43.478 0.00 0.00 0.00 2.75
671 721 7.028926 TGTAATATTGGTGTTTGTGTTTCGT 57.971 32.000 0.00 0.00 0.00 3.85
682 732 7.557719 CCAGAAAGGAAGATGTAATATTGGTGT 59.442 37.037 0.00 0.00 41.22 4.16
690 740 7.839680 AAAACACCAGAAAGGAAGATGTAAT 57.160 32.000 0.00 0.00 41.22 1.89
704 754 9.974980 GATTAAGACCAAATTAAAAACACCAGA 57.025 29.630 0.00 0.00 0.00 3.86
707 757 7.409980 CGCGATTAAGACCAAATTAAAAACACC 60.410 37.037 0.00 0.00 0.00 4.16
712 762 7.324135 GTGTTCGCGATTAAGACCAAATTAAAA 59.676 33.333 10.88 0.00 0.00 1.52
722 772 3.767278 AGGTAGTGTTCGCGATTAAGAC 58.233 45.455 10.88 5.06 0.00 3.01
724 774 3.766151 TGAGGTAGTGTTCGCGATTAAG 58.234 45.455 10.88 0.00 0.00 1.85
758 808 1.064621 ACGTGTGCAGTTCGTACGT 59.935 52.632 16.05 0.00 42.40 3.57
761 811 3.894782 TTAGTACGTGTGCAGTTCGTA 57.105 42.857 11.94 11.94 38.69 3.43
767 817 3.833442 TGACAGATTAGTACGTGTGCAG 58.167 45.455 0.00 0.00 0.00 4.41
805 2496 1.023513 ATGCCGAGCAGAGCAAGAAC 61.024 55.000 4.90 0.00 43.65 3.01
843 2534 1.139058 CCTTACGTTCAGGCTATGGCT 59.861 52.381 0.00 0.00 39.66 4.75
846 2537 4.113354 GAGTTCCTTACGTTCAGGCTATG 58.887 47.826 8.35 0.00 0.00 2.23
847 2538 4.024670 AGAGTTCCTTACGTTCAGGCTAT 58.975 43.478 8.35 0.00 0.00 2.97
860 2551 1.128188 AACGGGGAGCAGAGTTCCTT 61.128 55.000 0.00 0.00 35.01 3.36
863 2554 1.578206 GCAAACGGGGAGCAGAGTTC 61.578 60.000 0.00 0.00 0.00 3.01
906 2597 0.036010 AAGACGGGAGGTGCAGAATG 60.036 55.000 0.00 0.00 40.87 2.67
910 2601 2.125912 CGAAGACGGGAGGTGCAG 60.126 66.667 0.00 0.00 35.72 4.41
951 2642 3.849951 CGTGGGAGACGGGATGGG 61.850 72.222 0.00 0.00 44.85 4.00
1237 2928 1.001631 ATGGCTAGGTTTTGGGGGC 59.998 57.895 0.00 0.00 0.00 5.80
1270 2964 3.077907 CTTGATCCCGGGTGGTGT 58.922 61.111 22.86 2.30 34.77 4.16
1291 2986 4.260948 CCTTTTTGCTCGGATGATAGCTTC 60.261 45.833 0.00 0.00 39.53 3.86
1292 2987 3.629398 CCTTTTTGCTCGGATGATAGCTT 59.371 43.478 0.00 0.00 39.53 3.74
1297 2992 1.284785 TCCCCTTTTTGCTCGGATGAT 59.715 47.619 0.00 0.00 0.00 2.45
1299 2994 1.678101 GATCCCCTTTTTGCTCGGATG 59.322 52.381 0.00 0.00 33.43 3.51
1300 2995 1.747206 CGATCCCCTTTTTGCTCGGAT 60.747 52.381 0.00 0.00 36.02 4.18
1301 2996 0.392461 CGATCCCCTTTTTGCTCGGA 60.392 55.000 0.00 0.00 0.00 4.55
1302 2997 1.376609 CCGATCCCCTTTTTGCTCGG 61.377 60.000 0.00 0.00 39.58 4.63
1303 2998 0.676782 ACCGATCCCCTTTTTGCTCG 60.677 55.000 0.00 0.00 0.00 5.03
1304 2999 1.545841 AACCGATCCCCTTTTTGCTC 58.454 50.000 0.00 0.00 0.00 4.26
1305 3000 2.009681 AAACCGATCCCCTTTTTGCT 57.990 45.000 0.00 0.00 0.00 3.91
1306 3001 2.831685 AAAACCGATCCCCTTTTTGC 57.168 45.000 0.00 0.00 0.00 3.68
1328 3048 2.955881 AACTACGGAGGGCCTGCAC 61.956 63.158 25.45 7.62 0.00 4.57
1330 3050 2.125106 CAACTACGGAGGGCCTGC 60.125 66.667 12.95 14.76 0.00 4.85
1331 3051 2.125106 GCAACTACGGAGGGCCTG 60.125 66.667 12.95 0.00 0.00 4.85
1332 3052 2.185310 CTTGCAACTACGGAGGGCCT 62.185 60.000 5.25 5.25 0.00 5.19
1334 3054 2.399356 GCTTGCAACTACGGAGGGC 61.399 63.158 0.00 2.61 0.00 5.19
1335 3055 0.321653 AAGCTTGCAACTACGGAGGG 60.322 55.000 0.00 0.00 0.00 4.30
1337 3057 2.417719 AGAAAGCTTGCAACTACGGAG 58.582 47.619 7.33 0.00 0.00 4.63
1340 3060 3.803555 CTGAAGAAAGCTTGCAACTACG 58.196 45.455 7.33 0.00 33.61 3.51
1341 3061 3.003689 TGCTGAAGAAAGCTTGCAACTAC 59.996 43.478 7.33 0.00 43.90 2.73
1342 3062 3.213506 TGCTGAAGAAAGCTTGCAACTA 58.786 40.909 7.33 0.00 43.90 2.24
1343 3063 2.026641 TGCTGAAGAAAGCTTGCAACT 58.973 42.857 7.33 0.00 43.90 3.16
1344 3064 2.497107 TGCTGAAGAAAGCTTGCAAC 57.503 45.000 7.33 0.42 43.90 4.17
1345 3065 3.450578 CTTTGCTGAAGAAAGCTTGCAA 58.549 40.909 13.75 13.75 43.90 4.08
1346 3066 2.223876 CCTTTGCTGAAGAAAGCTTGCA 60.224 45.455 7.33 4.91 43.90 4.08
1347 3067 2.401351 CCTTTGCTGAAGAAAGCTTGC 58.599 47.619 0.00 0.00 43.90 4.01
1350 3070 1.625511 CCCCTTTGCTGAAGAAAGCT 58.374 50.000 2.50 0.00 43.90 3.74
1351 3071 0.605083 CCCCCTTTGCTGAAGAAAGC 59.395 55.000 2.50 0.00 43.82 3.51
1352 3072 0.605083 GCCCCCTTTGCTGAAGAAAG 59.395 55.000 2.50 0.00 37.57 2.62
1359 3082 0.679640 TACAATCGCCCCCTTTGCTG 60.680 55.000 0.00 0.00 0.00 4.41
1370 3093 1.225855 TCGATGGCCATTACAATCGC 58.774 50.000 21.84 2.92 0.00 4.58
1374 3097 4.269183 ACAGAAATCGATGGCCATTACAA 58.731 39.130 21.84 6.22 0.00 2.41
1377 3100 4.065088 GCTACAGAAATCGATGGCCATTA 58.935 43.478 21.84 12.11 0.00 1.90
1378 3101 2.880890 GCTACAGAAATCGATGGCCATT 59.119 45.455 21.84 3.38 0.00 3.16
1390 3113 4.287067 AGAAATCTCCCAGTGCTACAGAAA 59.713 41.667 0.00 0.00 0.00 2.52
1402 3125 4.471386 CAGAGAGGGTAAAGAAATCTCCCA 59.529 45.833 8.05 0.00 40.48 4.37
1403 3126 4.717280 TCAGAGAGGGTAAAGAAATCTCCC 59.283 45.833 0.00 0.00 37.68 4.30
1404 3127 5.941555 TCAGAGAGGGTAAAGAAATCTCC 57.058 43.478 0.00 0.00 37.68 3.71
1406 3129 7.609532 CACAATTCAGAGAGGGTAAAGAAATCT 59.390 37.037 0.00 0.00 0.00 2.40
1407 3130 7.148171 CCACAATTCAGAGAGGGTAAAGAAATC 60.148 40.741 0.00 0.00 0.00 2.17
1410 3133 5.073144 ACCACAATTCAGAGAGGGTAAAGAA 59.927 40.000 0.00 0.00 0.00 2.52
1413 3136 4.651778 CACCACAATTCAGAGAGGGTAAA 58.348 43.478 0.00 0.00 0.00 2.01
1415 3138 2.027192 GCACCACAATTCAGAGAGGGTA 60.027 50.000 0.00 0.00 0.00 3.69
1416 3139 1.271597 GCACCACAATTCAGAGAGGGT 60.272 52.381 0.00 0.00 0.00 4.34
1417 3140 1.004044 AGCACCACAATTCAGAGAGGG 59.996 52.381 0.00 0.00 0.00 4.30
1418 3141 2.486472 AGCACCACAATTCAGAGAGG 57.514 50.000 0.00 0.00 0.00 3.69
1421 3144 5.047802 ACCAAATTAGCACCACAATTCAGAG 60.048 40.000 0.00 0.00 0.00 3.35
1423 3146 5.138125 ACCAAATTAGCACCACAATTCAG 57.862 39.130 0.00 0.00 0.00 3.02
1447 3170 0.038251 CACTCGGCAGAACTACAGCA 60.038 55.000 0.00 0.00 32.56 4.41
1472 3228 6.351286 GCCAGGGAAAATTATTCAAGTCATGT 60.351 38.462 0.00 0.00 0.00 3.21
1481 3237 5.991606 GCCATTTAGCCAGGGAAAATTATTC 59.008 40.000 0.00 0.00 0.00 1.75
1482 3238 5.428131 TGCCATTTAGCCAGGGAAAATTATT 59.572 36.000 0.00 0.00 0.00 1.40
1483 3239 4.968080 TGCCATTTAGCCAGGGAAAATTAT 59.032 37.500 0.00 0.00 0.00 1.28
1486 3242 2.767960 CTGCCATTTAGCCAGGGAAAAT 59.232 45.455 0.00 0.00 0.00 1.82
1491 3247 0.034186 TCACTGCCATTTAGCCAGGG 60.034 55.000 0.00 0.00 0.00 4.45
1495 3251 4.580167 TGAATGTATCACTGCCATTTAGCC 59.420 41.667 0.00 0.00 31.50 3.93
1576 3338 7.341805 TGCAGATCTAGCCTTTAGAAAATCTT 58.658 34.615 12.62 0.00 0.00 2.40
1577 3339 6.893583 TGCAGATCTAGCCTTTAGAAAATCT 58.106 36.000 12.62 0.00 0.00 2.40
1578 3340 7.281999 AGTTGCAGATCTAGCCTTTAGAAAATC 59.718 37.037 12.62 0.00 0.00 2.17
1579 3341 7.115414 AGTTGCAGATCTAGCCTTTAGAAAAT 58.885 34.615 12.62 0.00 0.00 1.82
1580 3342 6.476378 AGTTGCAGATCTAGCCTTTAGAAAA 58.524 36.000 12.62 0.00 0.00 2.29
1581 3343 6.054860 AGTTGCAGATCTAGCCTTTAGAAA 57.945 37.500 12.62 0.00 0.00 2.52
1582 3344 5.423610 AGAGTTGCAGATCTAGCCTTTAGAA 59.576 40.000 12.62 0.17 0.00 2.10
1583 3345 4.959210 AGAGTTGCAGATCTAGCCTTTAGA 59.041 41.667 12.62 0.00 0.00 2.10
1584 3346 5.275067 AGAGTTGCAGATCTAGCCTTTAG 57.725 43.478 12.62 0.00 0.00 1.85
1585 3347 6.791867 TTAGAGTTGCAGATCTAGCCTTTA 57.208 37.500 12.62 3.57 30.06 1.85
1586 3348 5.683876 TTAGAGTTGCAGATCTAGCCTTT 57.316 39.130 12.62 4.27 30.06 3.11
1590 3352 4.202305 ACCCATTAGAGTTGCAGATCTAGC 60.202 45.833 0.00 2.38 30.06 3.42
1640 3420 4.201950 GCTTTGTATGGAAGATGTGCGATT 60.202 41.667 0.00 0.00 0.00 3.34
1680 3460 7.639062 ACATAGAGTGGATATCCCTCATTTT 57.361 36.000 28.00 17.06 36.44 1.82
1723 3503 3.574284 TCAAACATACATGCTTGTGGC 57.426 42.857 15.08 0.00 35.83 5.01
1768 3551 4.047627 TGAGAGTTCAGACCAGACCATA 57.952 45.455 0.00 0.00 0.00 2.74
1777 3560 9.950680 TTTGATAAAAACATTGAGAGTTCAGAC 57.049 29.630 0.00 0.00 34.15 3.51
1779 3562 8.909671 GCTTTGATAAAAACATTGAGAGTTCAG 58.090 33.333 0.00 0.00 34.15 3.02
1780 3563 8.412456 TGCTTTGATAAAAACATTGAGAGTTCA 58.588 29.630 0.00 0.00 0.00 3.18
1781 3564 8.801715 TGCTTTGATAAAAACATTGAGAGTTC 57.198 30.769 0.00 0.00 0.00 3.01
1808 3591 4.824479 TGTTAGATGGAGAACATGCTGA 57.176 40.909 0.00 0.00 40.72 4.26
1820 3603 5.124297 TGAAGCACATGACATTGTTAGATGG 59.876 40.000 0.00 0.00 0.00 3.51
1891 3810 7.673926 AGCATTGAAGGGATAAAAAGGTAGAAA 59.326 33.333 0.00 0.00 0.00 2.52
1897 3816 7.587037 TCATAGCATTGAAGGGATAAAAAGG 57.413 36.000 0.00 0.00 0.00 3.11
1922 3841 5.254267 TGTCAGGGGAAAGGGTAATTATTCA 59.746 40.000 0.00 0.00 0.00 2.57
1923 3842 5.593095 GTGTCAGGGGAAAGGGTAATTATTC 59.407 44.000 0.00 0.00 0.00 1.75
1924 3843 5.255443 AGTGTCAGGGGAAAGGGTAATTATT 59.745 40.000 0.00 0.00 0.00 1.40
1927 3846 2.993863 AGTGTCAGGGGAAAGGGTAATT 59.006 45.455 0.00 0.00 0.00 1.40
1931 3850 0.771755 GAAGTGTCAGGGGAAAGGGT 59.228 55.000 0.00 0.00 0.00 4.34
1950 3869 1.015109 CCTGCTGCACATAAGCTCAG 58.985 55.000 0.00 0.00 41.42 3.35
1954 3873 1.167851 TTGTCCTGCTGCACATAAGC 58.832 50.000 0.00 0.00 41.22 3.09
1965 3884 1.203287 GGATTTCCTGCTTTGTCCTGC 59.797 52.381 0.00 0.00 0.00 4.85
2003 3922 4.502645 GTGTTTGTGACAAAATGTAGGTGC 59.497 41.667 12.89 0.00 40.65 5.01
2004 3923 5.890334 AGTGTTTGTGACAAAATGTAGGTG 58.110 37.500 12.89 0.00 40.65 4.00
2062 3984 6.696411 TGGTTGATGGTAAAATCCAAATCAC 58.304 36.000 0.00 0.00 41.09 3.06
2068 3990 4.092279 TGCATGGTTGATGGTAAAATCCA 58.908 39.130 0.00 0.00 42.01 3.41
2069 3991 4.734398 TGCATGGTTGATGGTAAAATCC 57.266 40.909 0.00 0.00 31.99 3.01
2076 3998 5.395546 GGTTCATATTTGCATGGTTGATGGT 60.396 40.000 0.00 0.00 31.99 3.55
2077 3999 5.051816 GGTTCATATTTGCATGGTTGATGG 58.948 41.667 0.00 0.00 31.99 3.51
2097 4019 6.553476 ACTGAAGGCAAATAAAAGGTAAGGTT 59.447 34.615 0.00 0.00 0.00 3.50
2099 4021 6.015434 ACACTGAAGGCAAATAAAAGGTAAGG 60.015 38.462 0.00 0.00 0.00 2.69
2105 4027 4.919754 GCTCACACTGAAGGCAAATAAAAG 59.080 41.667 0.00 0.00 0.00 2.27
2106 4028 4.584325 AGCTCACACTGAAGGCAAATAAAA 59.416 37.500 0.00 0.00 0.00 1.52
2110 4032 1.884579 CAGCTCACACTGAAGGCAAAT 59.115 47.619 0.00 0.00 40.25 2.32
2112 4034 0.181114 ACAGCTCACACTGAAGGCAA 59.819 50.000 0.00 0.00 40.25 4.52
2115 4037 0.604780 CCCACAGCTCACACTGAAGG 60.605 60.000 0.00 0.38 40.25 3.46
2129 4051 0.984230 GACCACAGATCCTTCCCACA 59.016 55.000 0.00 0.00 0.00 4.17
2166 4089 2.295070 TCTGATTGTCTTCAACGTCGGA 59.705 45.455 0.00 0.00 36.33 4.55
2172 4095 5.353678 CCCTTGAGATCTGATTGTCTTCAAC 59.646 44.000 0.00 0.00 36.33 3.18
2180 4103 5.738909 ACTTACACCCTTGAGATCTGATTG 58.261 41.667 0.00 0.00 0.00 2.67
2208 4131 3.636764 ACTCTGTTTGACACAAATTCCCC 59.363 43.478 0.00 0.00 33.87 4.81
2209 4132 4.338118 TGACTCTGTTTGACACAAATTCCC 59.662 41.667 0.00 0.00 33.87 3.97
2220 4143 4.997395 GGCAATCTACTTGACTCTGTTTGA 59.003 41.667 0.00 0.00 40.01 2.69


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

AutoCloner maintained by Alex Coulton.