Multiple sequence alignment - TraesCS6D01G118800

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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 TraesCS6D01G118800 chr6D 100.000 2748 0 0 1 2748 84212612 84215359 0.000000e+00 5075.0
1 TraesCS6D01G118800 chr6D 97.059 34 1 0 1580 1613 363033166 363033199 1.060000e-04 58.4
2 TraesCS6D01G118800 chr6A 90.810 1469 86 22 554 2003 101537280 101538718 0.000000e+00 1919.0
3 TraesCS6D01G118800 chr6A 88.971 544 47 7 5 547 101536698 101537229 0.000000e+00 660.0
4 TraesCS6D01G118800 chr6A 83.538 407 22 10 2158 2539 101541728 101542114 3.390000e-89 339.0
5 TraesCS6D01G118800 chr6A 90.411 219 8 3 2530 2748 101545230 101545435 2.700000e-70 276.0
6 TraesCS6D01G118800 chr6A 91.111 180 15 1 1994 2172 101541530 101541709 2.730000e-60 243.0
7 TraesCS6D01G118800 chr6B 86.916 107 13 1 1634 1739 160658995 160659101 4.810000e-23 119.0
8 TraesCS6D01G118800 chr5D 97.143 35 1 0 1579 1613 175781962 175781928 2.960000e-05 60.2
9 TraesCS6D01G118800 chr5D 97.059 34 1 0 1580 1613 475152482 475152515 1.060000e-04 58.4
10 TraesCS6D01G118800 chr5B 97.059 34 1 0 1580 1613 582392018 582392051 1.060000e-04 58.4
11 TraesCS6D01G118800 chr4B 97.059 34 1 0 1580 1613 131352051 131352018 1.060000e-04 58.4
12 TraesCS6D01G118800 chr1D 97.059 34 1 0 1580 1613 410795947 410795980 1.060000e-04 58.4
13 TraesCS6D01G118800 chr1A 97.059 34 1 0 1576 1609 13853302 13853269 1.060000e-04 58.4
14 TraesCS6D01G118800 chr1A 97.059 34 1 0 1580 1613 80190787 80190754 1.060000e-04 58.4


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 TraesCS6D01G118800 chr6D 84212612 84215359 2747 False 5075.0 5075 100.0000 1 2748 1 chr6D.!!$F1 2747
1 TraesCS6D01G118800 chr6A 101536698 101545435 8737 False 687.4 1919 88.9682 5 2748 5 chr6A.!!$F1 2743

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
433 435 0.106149 AGAAGGTGACGGTGTTGGAC 59.894 55.0 0.0 0.0 0.0 4.02 F
1179 1231 0.106819 TCCCCTACTACCTCGCTGTC 60.107 60.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1645 1699 1.187567 ACCCCTGTACGTACACCCAC 61.188 60.0 24.10 0.0 31.93 4.61 R
2717 8781 0.179084 CTTGGATAGCTTTCGCGGGA 60.179 55.0 6.13 0.0 42.32 5.14 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
32 33 7.860872 CCAATTTGTACCTTCTAAAGTTCACAC 59.139 37.037 0.00 0.00 0.00 3.82
56 57 8.177663 CACAGACACAATGTAAATCTATGTTCC 58.822 37.037 0.00 0.00 0.00 3.62
60 61 4.272504 ACAATGTAAATCTATGTTCCGCGG 59.727 41.667 22.12 22.12 0.00 6.46
165 166 6.152661 CCAAATCTGAAGCCCAACTTACATTA 59.847 38.462 0.00 0.00 39.29 1.90
167 168 4.261801 TCTGAAGCCCAACTTACATTAGC 58.738 43.478 0.00 0.00 39.29 3.09
221 223 6.397272 TCCACCACATTTGCTATGAATTTTC 58.603 36.000 6.42 0.00 0.00 2.29
283 285 3.640029 TGTCCTAATATTCCGTCACCTCC 59.360 47.826 0.00 0.00 0.00 4.30
300 302 3.394606 ACCTCCAAATAAGTCACACCACT 59.605 43.478 0.00 0.00 0.00 4.00
302 304 3.146066 TCCAAATAAGTCACACCACTGC 58.854 45.455 0.00 0.00 0.00 4.40
303 305 2.884012 CCAAATAAGTCACACCACTGCA 59.116 45.455 0.00 0.00 0.00 4.41
332 334 0.391263 GGCTTACCACCACCTCTTCG 60.391 60.000 0.00 0.00 35.26 3.79
390 392 0.392998 GATGGCCGACAACCTCATGT 60.393 55.000 0.00 0.00 35.90 3.21
395 397 0.321671 CCGACAACCTCATGTGTCCT 59.678 55.000 8.20 0.00 32.57 3.85
398 400 2.622436 GACAACCTCATGTGTCCTAGC 58.378 52.381 3.39 0.00 32.57 3.42
406 408 2.308570 TCATGTGTCCTAGCAAATGGGT 59.691 45.455 0.00 0.00 35.39 4.51
407 409 2.969821 TGTGTCCTAGCAAATGGGTT 57.030 45.000 0.00 0.00 0.00 4.11
408 410 2.513753 TGTGTCCTAGCAAATGGGTTG 58.486 47.619 0.00 0.00 40.50 3.77
412 414 0.819582 CCTAGCAAATGGGTTGGCTG 59.180 55.000 0.42 0.00 37.73 4.85
424 426 0.868406 GTTGGCTGAAGAAGGTGACG 59.132 55.000 0.00 0.00 0.00 4.35
433 435 0.106149 AGAAGGTGACGGTGTTGGAC 59.894 55.000 0.00 0.00 0.00 4.02
457 459 0.617820 ATGACAACCGCCTCCTAGGT 60.618 55.000 9.08 0.00 43.68 3.08
459 461 1.535687 ACAACCGCCTCCTAGGTGT 60.536 57.895 9.08 0.40 44.26 4.16
460 462 1.125711 ACAACCGCCTCCTAGGTGTT 61.126 55.000 9.08 3.43 44.26 3.32
461 463 0.673644 CAACCGCCTCCTAGGTGTTG 60.674 60.000 9.08 11.48 44.26 3.33
468 470 2.906354 CCTCCTAGGTGTTGTATGTGC 58.094 52.381 9.08 0.00 0.00 4.57
477 479 1.136500 TGTTGTATGTGCGGCGGTATA 59.864 47.619 9.78 0.00 0.00 1.47
478 480 2.203401 GTTGTATGTGCGGCGGTATAA 58.797 47.619 9.78 0.00 0.00 0.98
479 481 2.598686 TGTATGTGCGGCGGTATAAA 57.401 45.000 9.78 0.00 0.00 1.40
480 482 2.475818 TGTATGTGCGGCGGTATAAAG 58.524 47.619 9.78 0.00 0.00 1.85
481 483 2.159071 TGTATGTGCGGCGGTATAAAGT 60.159 45.455 9.78 0.00 0.00 2.66
482 484 1.578583 ATGTGCGGCGGTATAAAGTC 58.421 50.000 9.78 0.00 0.00 3.01
483 485 0.246910 TGTGCGGCGGTATAAAGTCA 59.753 50.000 9.78 0.00 0.00 3.41
488 490 2.286772 GCGGCGGTATAAAGTCAAATGG 60.287 50.000 9.78 0.00 0.00 3.16
510 512 2.249844 TTCCGAACTGGGAACAACTC 57.750 50.000 0.00 0.00 41.08 3.01
511 513 1.124780 TCCGAACTGGGAACAACTCA 58.875 50.000 0.00 0.00 42.06 3.41
520 522 2.105821 TGGGAACAACTCAGGTGGTTAG 59.894 50.000 0.00 0.00 39.48 2.34
525 527 3.816994 ACAACTCAGGTGGTTAGGTTTC 58.183 45.455 0.00 0.00 0.00 2.78
536 538 2.691011 GGTTAGGTTTCTTGTGGTGCAA 59.309 45.455 0.00 0.00 35.50 4.08
541 543 2.949644 GGTTTCTTGTGGTGCAACTAGT 59.050 45.455 2.04 0.00 36.74 2.57
547 549 1.797025 GTGGTGCAACTAGTCCACTC 58.203 55.000 19.38 12.85 44.57 3.51
549 551 1.977854 TGGTGCAACTAGTCCACTCAT 59.022 47.619 19.82 0.00 36.74 2.90
550 552 2.289631 TGGTGCAACTAGTCCACTCATG 60.290 50.000 19.82 5.59 36.74 3.07
551 553 2.028112 GGTGCAACTAGTCCACTCATGA 60.028 50.000 19.82 0.00 36.74 3.07
553 555 4.256920 GTGCAACTAGTCCACTCATGATT 58.743 43.478 15.60 0.00 0.00 2.57
554 556 4.697352 GTGCAACTAGTCCACTCATGATTT 59.303 41.667 15.60 0.00 0.00 2.17
557 601 6.072508 TGCAACTAGTCCACTCATGATTTTTC 60.073 38.462 0.00 0.00 0.00 2.29
560 604 7.678947 ACTAGTCCACTCATGATTTTTCTTG 57.321 36.000 0.00 0.00 0.00 3.02
567 611 5.916883 CACTCATGATTTTTCTTGTGGTGAC 59.083 40.000 0.00 0.00 0.00 3.67
568 612 5.829924 ACTCATGATTTTTCTTGTGGTGACT 59.170 36.000 0.00 0.00 0.00 3.41
573 617 7.815840 TGATTTTTCTTGTGGTGACTTCATA 57.184 32.000 0.00 0.00 0.00 2.15
581 626 8.231692 TCTTGTGGTGACTTCATAAATTTCAA 57.768 30.769 0.00 0.00 0.00 2.69
584 629 8.231692 TGTGGTGACTTCATAAATTTCAAGAA 57.768 30.769 0.00 0.00 0.00 2.52
600 645 4.612932 CAAGAATTGCCTGCTTAGTCTC 57.387 45.455 0.00 0.00 40.39 3.36
602 647 4.135747 AGAATTGCCTGCTTAGTCTCTC 57.864 45.455 0.00 0.00 0.00 3.20
625 670 2.594541 GTGCTATGTGCGCCTCTAC 58.405 57.895 4.18 0.00 45.73 2.59
635 680 3.181397 GTGCGCCTCTACGTTTGTATTA 58.819 45.455 4.18 0.00 34.88 0.98
714 759 8.856490 TGCTTAATCAAAAGAAAAGTCAACTC 57.144 30.769 0.00 0.00 0.00 3.01
716 761 9.301153 GCTTAATCAAAAGAAAAGTCAACTCAA 57.699 29.630 0.00 0.00 0.00 3.02
845 891 6.534079 GGTACTTAACTAAGCAATGACGACAT 59.466 38.462 0.00 0.00 36.79 3.06
862 908 6.755141 TGACGACATATGAACTAAACTAAGCC 59.245 38.462 10.38 0.00 0.00 4.35
866 912 5.129815 ACATATGAACTAAACTAAGCCGGGA 59.870 40.000 10.38 0.00 0.00 5.14
878 924 1.448013 GCCGGGAGAAGACTTTCGG 60.448 63.158 2.18 12.67 41.33 4.30
898 944 2.673368 GGCACGAATATCCCGATCAATC 59.327 50.000 4.73 0.00 0.00 2.67
903 949 2.680312 ATATCCCGATCAATCCTGCG 57.320 50.000 0.00 0.00 0.00 5.18
907 953 1.227350 CCGATCAATCCTGCGCTGA 60.227 57.895 16.65 7.35 0.00 4.26
920 966 1.078497 CGCTGACCCTGCCAATGTA 60.078 57.895 0.00 0.00 0.00 2.29
931 977 6.668645 ACCCTGCCAATGTACAATATAAAGA 58.331 36.000 0.00 0.00 0.00 2.52
932 978 6.772716 ACCCTGCCAATGTACAATATAAAGAG 59.227 38.462 0.00 0.00 0.00 2.85
946 992 9.732130 ACAATATAAAGAGGGATAATGAGAAGC 57.268 33.333 0.00 0.00 0.00 3.86
950 996 5.965033 AAGAGGGATAATGAGAAGCAAGA 57.035 39.130 0.00 0.00 0.00 3.02
953 999 5.605908 AGAGGGATAATGAGAAGCAAGATCA 59.394 40.000 0.00 0.00 0.00 2.92
957 1003 8.102047 AGGGATAATGAGAAGCAAGATCATTAG 58.898 37.037 14.71 0.00 44.65 1.73
961 1007 9.842775 ATAATGAGAAGCAAGATCATTAGTTCA 57.157 29.630 14.71 0.00 44.65 3.18
971 1017 2.436417 TCATTAGTTCAGCAGGGCAAC 58.564 47.619 0.00 0.00 0.00 4.17
982 1034 1.079405 AGGGCAACGTCATACACCG 60.079 57.895 0.00 0.00 37.60 4.94
1041 1093 2.579201 CAGGTCAGTGCTACCCCG 59.421 66.667 0.00 0.00 37.77 5.73
1176 1228 1.153005 CGTCCCCTACTACCTCGCT 60.153 63.158 0.00 0.00 0.00 4.93
1179 1231 0.106819 TCCCCTACTACCTCGCTGTC 60.107 60.000 0.00 0.00 0.00 3.51
1201 1253 0.252974 TCCCCAGGGTTAGCTGCTTA 60.253 55.000 7.79 0.00 36.47 3.09
1237 1289 5.981088 TTGCCTTGATCAGCAAAGATTTA 57.019 34.783 17.33 0.00 45.51 1.40
1238 1290 5.571784 TGCCTTGATCAGCAAAGATTTAG 57.428 39.130 7.14 0.00 35.69 1.85
1239 1291 4.142315 TGCCTTGATCAGCAAAGATTTAGC 60.142 41.667 7.14 0.00 35.69 3.09
1243 1295 5.824904 TGATCAGCAAAGATTTAGCCTTC 57.175 39.130 0.00 0.00 0.00 3.46
1247 1299 3.766051 CAGCAAAGATTTAGCCTTCCCTT 59.234 43.478 0.00 0.00 0.00 3.95
1248 1300 4.949856 CAGCAAAGATTTAGCCTTCCCTTA 59.050 41.667 0.00 0.00 0.00 2.69
1249 1301 5.418840 CAGCAAAGATTTAGCCTTCCCTTAA 59.581 40.000 0.00 0.00 0.00 1.85
1262 1314 8.611051 AGCCTTCCCTTAATTAGATATATCGT 57.389 34.615 7.08 0.00 0.00 3.73
1269 1321 9.367444 CCCTTAATTAGATATATCGTTGACACC 57.633 37.037 7.08 0.00 0.00 4.16
1278 1330 7.606456 AGATATATCGTTGACACCAGTGTTTTT 59.394 33.333 4.68 0.00 45.05 1.94
1284 1337 1.954382 GACACCAGTGTTTTTCCTCCC 59.046 52.381 4.68 0.00 45.05 4.30
1290 1343 3.437344 CCAGTGTTTTTCCTCCCCCTTTA 60.437 47.826 0.00 0.00 0.00 1.85
1293 1346 4.140782 AGTGTTTTTCCTCCCCCTTTATGT 60.141 41.667 0.00 0.00 0.00 2.29
1305 1358 4.584743 CCCCCTTTATGTTTATCTCAAGGC 59.415 45.833 0.00 0.00 31.10 4.35
1320 1373 1.149101 AAGGCAAGGAGAAGAACCCA 58.851 50.000 0.00 0.00 0.00 4.51
1327 1380 4.281941 GCAAGGAGAAGAACCCAAAATTCT 59.718 41.667 0.00 0.00 38.05 2.40
1340 1393 4.706962 CCCAAAATTCTTGGAGGAAGTAGG 59.293 45.833 16.38 0.00 42.06 3.18
1346 1399 2.202756 GGAGGAAGTAGGTGCGCG 60.203 66.667 0.00 0.00 0.00 6.86
1362 1415 0.742990 CGCGCTATGGGAAGGAACAA 60.743 55.000 5.56 0.00 0.00 2.83
1371 1424 2.291930 TGGGAAGGAACAACACTTGGTT 60.292 45.455 0.00 0.00 41.47 3.67
1384 1437 6.777213 AACACTTGGTTGTGGTAATTAACA 57.223 33.333 0.00 0.00 41.84 2.41
1385 1438 6.777213 ACACTTGGTTGTGGTAATTAACAA 57.223 33.333 4.38 1.62 41.84 2.83
1396 1449 7.188157 TGTGGTAATTAACAAAAACTCGTGAC 58.812 34.615 4.38 0.00 0.00 3.67
1415 1468 2.168521 GACCGTTTGATCATCTCCCTCA 59.831 50.000 0.00 0.00 0.00 3.86
1438 1492 6.831868 TCATTACAGTAGCCACACTAGATGTA 59.168 38.462 0.00 0.00 40.64 2.29
1439 1493 7.340999 TCATTACAGTAGCCACACTAGATGTAA 59.659 37.037 0.00 10.49 42.59 2.41
1440 1494 7.655521 TTACAGTAGCCACACTAGATGTAAT 57.344 36.000 0.00 0.00 40.64 1.89
1441 1495 6.546428 ACAGTAGCCACACTAGATGTAATT 57.454 37.500 0.00 0.00 40.64 1.40
1442 1496 6.341316 ACAGTAGCCACACTAGATGTAATTG 58.659 40.000 0.00 0.00 40.64 2.32
1443 1497 6.070767 ACAGTAGCCACACTAGATGTAATTGT 60.071 38.462 0.00 0.00 40.64 2.71
1444 1498 6.818644 CAGTAGCCACACTAGATGTAATTGTT 59.181 38.462 0.00 0.00 40.64 2.83
1445 1499 7.334421 CAGTAGCCACACTAGATGTAATTGTTT 59.666 37.037 0.00 0.00 40.64 2.83
1446 1500 7.883311 AGTAGCCACACTAGATGTAATTGTTTT 59.117 33.333 0.00 0.00 40.64 2.43
1447 1501 7.524717 AGCCACACTAGATGTAATTGTTTTT 57.475 32.000 0.00 0.00 40.64 1.94
1448 1502 7.370383 AGCCACACTAGATGTAATTGTTTTTG 58.630 34.615 0.00 0.00 40.64 2.44
1449 1503 6.089417 GCCACACTAGATGTAATTGTTTTTGC 59.911 38.462 0.00 0.00 40.64 3.68
1515 1569 0.610174 TGAGATCCAAGCTTGCGACT 59.390 50.000 21.43 17.13 0.00 4.18
1530 1584 1.069378 CGACTGCGGACCTCGTAAAC 61.069 60.000 0.00 0.00 41.72 2.01
1566 1620 0.898326 GCCCAACCCGGTCAATTCTT 60.898 55.000 0.00 0.00 0.00 2.52
1585 1639 5.157940 TCTTGCTCAATCTAGCTTGAACT 57.842 39.130 10.08 0.00 43.19 3.01
1588 1642 3.005554 GCTCAATCTAGCTTGAACTGCA 58.994 45.455 10.08 0.00 39.50 4.41
1614 1668 9.836076 AAAAACGTCTTATATTTAGTTTCAGCC 57.164 29.630 0.00 0.00 32.27 4.85
1615 1669 8.788325 AAACGTCTTATATTTAGTTTCAGCCT 57.212 30.769 0.00 0.00 0.00 4.58
1616 1670 8.788325 AACGTCTTATATTTAGTTTCAGCCTT 57.212 30.769 0.00 0.00 0.00 4.35
1617 1671 8.788325 ACGTCTTATATTTAGTTTCAGCCTTT 57.212 30.769 0.00 0.00 0.00 3.11
1618 1672 8.880750 ACGTCTTATATTTAGTTTCAGCCTTTC 58.119 33.333 0.00 0.00 0.00 2.62
1621 1675 9.396022 TCTTATATTTAGTTTCAGCCTTTCAGG 57.604 33.333 0.00 0.00 38.80 3.86
1629 1683 2.467880 TCAGCCTTTCAGGGGTAGTAG 58.532 52.381 0.00 0.00 35.37 2.57
1644 1698 7.013464 CAGGGGTAGTAGTATCTTACTTGTGAG 59.987 44.444 0.00 0.00 40.14 3.51
1645 1699 6.264970 GGGGTAGTAGTATCTTACTTGTGAGG 59.735 46.154 0.00 0.00 40.14 3.86
1657 1711 1.614903 CTTGTGAGGTGGGTGTACGTA 59.385 52.381 0.00 0.00 0.00 3.57
1667 1721 2.243478 TGGGTGTACGTACAGGGGTATA 59.757 50.000 28.02 8.36 36.78 1.47
1751 1805 1.301677 GCCAGCACCTCAGTAGTTGC 61.302 60.000 0.00 0.00 0.00 4.17
1771 1825 2.353889 GCGAACTTGACTCATGCATGAT 59.646 45.455 28.81 18.55 36.02 2.45
1772 1826 3.545624 GCGAACTTGACTCATGCATGATC 60.546 47.826 28.81 24.71 36.02 2.92
1773 1827 3.619929 CGAACTTGACTCATGCATGATCA 59.380 43.478 28.81 26.59 36.02 2.92
1788 1849 6.339730 TGCATGATCAAAGCGGAATAAATTT 58.660 32.000 15.92 0.00 0.00 1.82
1796 1857 7.213678 TCAAAGCGGAATAAATTTGGAACTTT 58.786 30.769 0.00 1.16 34.25 2.66
1860 1921 7.776500 TCACCATGTTCATGATGATGTAAAGAT 59.224 33.333 13.51 0.00 0.00 2.40
1863 1924 9.059260 CCATGTTCATGATGATGTAAAGATACA 57.941 33.333 13.51 0.00 45.67 2.29
1877 1938 7.903145 TGTAAAGATACAGGAGTTGTGTGTAT 58.097 34.615 0.00 0.00 41.10 2.29
1897 1958 3.354948 TGAATGGGAATCTGTCACCAG 57.645 47.619 0.00 0.00 40.25 4.00
1903 1964 3.074390 TGGGAATCTGTCACCAGTTCAAT 59.926 43.478 0.00 0.00 39.82 2.57
1996 4879 2.286365 TTGATTGTTGTCTCCCACCC 57.714 50.000 0.00 0.00 0.00 4.61
2003 4886 2.291930 TGTTGTCTCCCACCCTGTTTTT 60.292 45.455 0.00 0.00 0.00 1.94
2053 4936 9.847224 TTTGTTCCTTCAGTCTTTACTCTAAAT 57.153 29.630 0.00 0.00 31.97 1.40
2110 4993 2.757894 GAGTCCTCTCTGGTGGGATA 57.242 55.000 0.00 0.00 37.68 2.59
2111 4994 2.593026 GAGTCCTCTCTGGTGGGATAG 58.407 57.143 0.00 0.00 37.68 2.08
2120 5003 3.107601 TCTGGTGGGATAGTTTCTCCAG 58.892 50.000 0.00 0.00 38.14 3.86
2121 5004 2.840651 CTGGTGGGATAGTTTCTCCAGT 59.159 50.000 0.00 0.00 35.29 4.00
2127 5010 4.202567 TGGGATAGTTTCTCCAGTGCTTTT 60.203 41.667 0.00 0.00 34.24 2.27
2188 5105 8.514594 GTTCATCTTTGATTCACAGGATTTGTA 58.485 33.333 0.19 0.00 38.16 2.41
2198 5115 9.906660 GATTCACAGGATTTGTAAAATACACAA 57.093 29.630 0.00 0.00 38.16 3.33
2220 5137 9.850628 CACAAAAATGAAGTGATATGTCATCTT 57.149 29.630 0.00 1.60 36.60 2.40
2265 5182 2.293170 TGCGTTTGATTGTCTGTTGGA 58.707 42.857 0.00 0.00 0.00 3.53
2305 5222 2.618816 GCATGAGGTTGGACTGGATGAA 60.619 50.000 0.00 0.00 0.00 2.57
2410 5349 6.371809 TGCAATCCTACGAATCAAATAACC 57.628 37.500 0.00 0.00 0.00 2.85
2413 5352 6.725246 CAATCCTACGAATCAAATAACCCAC 58.275 40.000 0.00 0.00 0.00 4.61
2425 5364 7.273320 TCAAATAACCCACGTGAACAAAATA 57.727 32.000 19.30 0.57 0.00 1.40
2428 5367 7.982761 AATAACCCACGTGAACAAAATACTA 57.017 32.000 19.30 0.00 0.00 1.82
2429 5368 7.982761 ATAACCCACGTGAACAAAATACTAA 57.017 32.000 19.30 0.00 0.00 2.24
2430 5369 5.934935 ACCCACGTGAACAAAATACTAAG 57.065 39.130 19.30 0.00 0.00 2.18
2431 5370 5.613329 ACCCACGTGAACAAAATACTAAGA 58.387 37.500 19.30 0.00 0.00 2.10
2432 5371 6.056884 ACCCACGTGAACAAAATACTAAGAA 58.943 36.000 19.30 0.00 0.00 2.52
2433 5372 6.713450 ACCCACGTGAACAAAATACTAAGAAT 59.287 34.615 19.30 0.00 0.00 2.40
2435 5374 8.723311 CCCACGTGAACAAAATACTAAGAATTA 58.277 33.333 19.30 0.00 0.00 1.40
2588 8652 2.289444 CGAGCCCAACCTGTTTTCTCTA 60.289 50.000 0.00 0.00 0.00 2.43
2589 8653 3.075148 GAGCCCAACCTGTTTTCTCTAC 58.925 50.000 0.00 0.00 0.00 2.59
2590 8654 2.711547 AGCCCAACCTGTTTTCTCTACT 59.288 45.455 0.00 0.00 0.00 2.57
2591 8655 3.138468 AGCCCAACCTGTTTTCTCTACTT 59.862 43.478 0.00 0.00 0.00 2.24
2592 8656 3.889538 GCCCAACCTGTTTTCTCTACTTT 59.110 43.478 0.00 0.00 0.00 2.66
2593 8657 4.341235 GCCCAACCTGTTTTCTCTACTTTT 59.659 41.667 0.00 0.00 0.00 2.27
2594 8658 5.736207 GCCCAACCTGTTTTCTCTACTTTTG 60.736 44.000 0.00 0.00 0.00 2.44
2595 8659 5.359860 CCCAACCTGTTTTCTCTACTTTTGT 59.640 40.000 0.00 0.00 0.00 2.83
2596 8660 6.265577 CCAACCTGTTTTCTCTACTTTTGTG 58.734 40.000 0.00 0.00 0.00 3.33
2597 8661 6.265577 CAACCTGTTTTCTCTACTTTTGTGG 58.734 40.000 0.00 0.00 0.00 4.17
2598 8662 5.506708 ACCTGTTTTCTCTACTTTTGTGGT 58.493 37.500 0.00 0.00 32.36 4.16
2599 8663 5.589050 ACCTGTTTTCTCTACTTTTGTGGTC 59.411 40.000 0.00 0.00 32.36 4.02
2600 8664 5.277345 CCTGTTTTCTCTACTTTTGTGGTCG 60.277 44.000 0.00 0.00 32.36 4.79
2601 8665 4.573201 TGTTTTCTCTACTTTTGTGGTCGG 59.427 41.667 0.00 0.00 32.36 4.79
2602 8666 3.396260 TTCTCTACTTTTGTGGTCGGG 57.604 47.619 0.00 0.00 32.36 5.14
2667 8731 4.521062 GATCGGTGGCGCTGCTCT 62.521 66.667 7.64 0.00 0.00 4.09
2668 8732 4.087892 ATCGGTGGCGCTGCTCTT 62.088 61.111 7.64 0.00 0.00 2.85
2743 8807 2.194271 GAAAGCTATCCAAGACGACGG 58.806 52.381 0.00 0.00 0.00 4.79
2744 8808 0.179108 AAGCTATCCAAGACGACGGC 60.179 55.000 0.00 0.00 0.00 5.68
2745 8809 1.944676 GCTATCCAAGACGACGGCG 60.945 63.158 10.39 10.39 44.79 6.46
2746 8810 1.725665 CTATCCAAGACGACGGCGA 59.274 57.895 22.49 0.00 41.64 5.54
2747 8811 0.317103 CTATCCAAGACGACGGCGAG 60.317 60.000 22.49 10.00 41.64 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.661847 ACTTTAGAAGGTACAAATTGGAGTCAG 59.338 37.037 0.00 0.00 0.00 3.51
1 2 7.514721 ACTTTAGAAGGTACAAATTGGAGTCA 58.485 34.615 0.00 0.00 0.00 3.41
2 3 7.981102 ACTTTAGAAGGTACAAATTGGAGTC 57.019 36.000 0.00 0.00 0.00 3.36
3 4 7.996644 TGAACTTTAGAAGGTACAAATTGGAGT 59.003 33.333 0.00 0.00 0.00 3.85
19 20 6.112734 ACATTGTGTCTGTGTGAACTTTAGA 58.887 36.000 0.00 0.00 0.00 2.10
32 33 7.401860 CGGAACATAGATTTACATTGTGTCTG 58.598 38.462 0.00 0.00 0.00 3.51
56 57 4.032558 GGACTAGAATTTTCTAACACCGCG 59.967 45.833 0.00 0.00 39.15 6.46
115 116 7.362920 GGCTTATCACCATTGATTACACACTTT 60.363 37.037 0.00 0.00 39.66 2.66
116 117 6.095440 GGCTTATCACCATTGATTACACACTT 59.905 38.462 0.00 0.00 39.66 3.16
122 123 7.864379 CAGATTTGGCTTATCACCATTGATTAC 59.136 37.037 0.00 0.00 39.66 1.89
123 124 7.779326 TCAGATTTGGCTTATCACCATTGATTA 59.221 33.333 0.00 0.00 39.66 1.75
124 125 6.608405 TCAGATTTGGCTTATCACCATTGATT 59.392 34.615 0.00 0.00 39.66 2.57
129 130 4.340381 GCTTCAGATTTGGCTTATCACCAT 59.660 41.667 0.00 0.00 36.96 3.55
138 139 1.203100 AGTTGGGCTTCAGATTTGGCT 60.203 47.619 0.00 0.00 0.00 4.75
182 183 6.834168 TGTGGTGGATAGAAAGGAAAATTC 57.166 37.500 0.00 0.00 0.00 2.17
188 189 4.016444 GCAAATGTGGTGGATAGAAAGGA 58.984 43.478 0.00 0.00 0.00 3.36
189 190 4.019174 AGCAAATGTGGTGGATAGAAAGG 58.981 43.478 0.00 0.00 33.11 3.11
258 260 6.350277 GGAGGTGACGGAATATTAGGACATAG 60.350 46.154 0.00 0.00 0.00 2.23
283 285 3.314913 TGTGCAGTGGTGTGACTTATTTG 59.685 43.478 0.00 0.00 0.00 2.32
300 302 1.462616 GTAAGCCATGACCATGTGCA 58.537 50.000 18.56 0.00 37.42 4.57
302 304 2.127271 TGGTAAGCCATGACCATGTG 57.873 50.000 8.93 2.60 40.87 3.21
390 392 1.890573 GCCAACCCATTTGCTAGGACA 60.891 52.381 0.00 0.00 33.34 4.02
395 397 2.170166 CTTCAGCCAACCCATTTGCTA 58.830 47.619 0.00 0.00 33.34 3.49
398 400 2.028748 CCTTCTTCAGCCAACCCATTTG 60.029 50.000 0.00 0.00 34.63 2.32
406 408 0.250295 CCGTCACCTTCTTCAGCCAA 60.250 55.000 0.00 0.00 0.00 4.52
407 409 1.371183 CCGTCACCTTCTTCAGCCA 59.629 57.895 0.00 0.00 0.00 4.75
408 410 0.951040 CACCGTCACCTTCTTCAGCC 60.951 60.000 0.00 0.00 0.00 4.85
412 414 1.202604 TCCAACACCGTCACCTTCTTC 60.203 52.381 0.00 0.00 0.00 2.87
424 426 3.305335 GGTTGTCATTGATGTCCAACACC 60.305 47.826 20.09 9.50 39.79 4.16
433 435 0.734889 GGAGGCGGTTGTCATTGATG 59.265 55.000 0.00 0.00 0.00 3.07
457 459 0.108089 ATACCGCCGCACATACAACA 60.108 50.000 0.00 0.00 0.00 3.33
459 461 2.598686 TTATACCGCCGCACATACAA 57.401 45.000 0.00 0.00 0.00 2.41
460 462 2.159071 ACTTTATACCGCCGCACATACA 60.159 45.455 0.00 0.00 0.00 2.29
461 463 2.473984 GACTTTATACCGCCGCACATAC 59.526 50.000 0.00 0.00 0.00 2.39
468 470 2.940410 ACCATTTGACTTTATACCGCCG 59.060 45.455 0.00 0.00 0.00 6.46
477 479 5.183140 CCAGTTCGGAATACCATTTGACTTT 59.817 40.000 0.00 0.00 36.56 2.66
478 480 4.700213 CCAGTTCGGAATACCATTTGACTT 59.300 41.667 0.00 0.00 36.56 3.01
479 481 4.261801 CCAGTTCGGAATACCATTTGACT 58.738 43.478 0.00 0.00 36.56 3.41
480 482 3.377172 CCCAGTTCGGAATACCATTTGAC 59.623 47.826 0.00 0.00 36.56 3.18
481 483 3.264706 TCCCAGTTCGGAATACCATTTGA 59.735 43.478 0.00 0.00 36.56 2.69
482 484 3.616219 TCCCAGTTCGGAATACCATTTG 58.384 45.455 0.00 0.00 36.56 2.32
483 485 4.014406 GTTCCCAGTTCGGAATACCATTT 58.986 43.478 0.00 0.00 43.72 2.32
488 490 3.671716 AGTTGTTCCCAGTTCGGAATAC 58.328 45.455 0.00 0.00 43.72 1.89
504 506 3.458487 AGAAACCTAACCACCTGAGTTGT 59.542 43.478 0.00 0.00 0.00 3.32
505 507 4.086706 AGAAACCTAACCACCTGAGTTG 57.913 45.455 0.00 0.00 0.00 3.16
507 509 3.458487 ACAAGAAACCTAACCACCTGAGT 59.542 43.478 0.00 0.00 0.00 3.41
510 512 2.884639 CCACAAGAAACCTAACCACCTG 59.115 50.000 0.00 0.00 0.00 4.00
511 513 2.512476 ACCACAAGAAACCTAACCACCT 59.488 45.455 0.00 0.00 0.00 4.00
513 515 2.034179 GCACCACAAGAAACCTAACCAC 59.966 50.000 0.00 0.00 0.00 4.16
514 516 2.303175 GCACCACAAGAAACCTAACCA 58.697 47.619 0.00 0.00 0.00 3.67
520 522 2.949644 ACTAGTTGCACCACAAGAAACC 59.050 45.455 0.00 0.00 39.50 3.27
525 527 2.254546 TGGACTAGTTGCACCACAAG 57.745 50.000 0.00 0.00 39.50 3.16
536 538 7.173907 CACAAGAAAAATCATGAGTGGACTAGT 59.826 37.037 0.09 0.00 0.00 2.57
541 543 5.009911 CACCACAAGAAAAATCATGAGTGGA 59.990 40.000 25.06 0.00 46.12 4.02
547 549 6.506147 TGAAGTCACCACAAGAAAAATCATG 58.494 36.000 0.00 0.00 0.00 3.07
549 551 6.713762 ATGAAGTCACCACAAGAAAAATCA 57.286 33.333 0.00 0.00 0.00 2.57
550 552 9.696917 ATTTATGAAGTCACCACAAGAAAAATC 57.303 29.630 0.00 0.00 0.00 2.17
553 555 9.528018 GAAATTTATGAAGTCACCACAAGAAAA 57.472 29.630 0.00 0.00 0.00 2.29
554 556 8.690884 TGAAATTTATGAAGTCACCACAAGAAA 58.309 29.630 0.00 0.00 0.00 2.52
557 601 8.352201 TCTTGAAATTTATGAAGTCACCACAAG 58.648 33.333 0.00 0.00 0.00 3.16
560 604 9.696917 AATTCTTGAAATTTATGAAGTCACCAC 57.303 29.630 0.00 0.00 0.00 4.16
567 611 7.548075 AGCAGGCAATTCTTGAAATTTATGAAG 59.452 33.333 0.00 0.00 0.00 3.02
568 612 7.388437 AGCAGGCAATTCTTGAAATTTATGAA 58.612 30.769 0.00 0.00 0.00 2.57
573 617 6.762333 ACTAAGCAGGCAATTCTTGAAATTT 58.238 32.000 0.00 0.00 0.00 1.82
581 626 3.430098 CGAGAGACTAAGCAGGCAATTCT 60.430 47.826 0.00 0.00 28.86 2.40
584 629 2.100584 CTCGAGAGACTAAGCAGGCAAT 59.899 50.000 6.58 0.00 35.39 3.56
594 639 2.172930 ACATAGCACCCTCGAGAGACTA 59.827 50.000 15.71 8.85 35.39 2.59
597 642 1.393603 CACATAGCACCCTCGAGAGA 58.606 55.000 15.71 0.00 39.12 3.10
600 645 1.589993 CGCACATAGCACCCTCGAG 60.590 63.158 5.13 5.13 46.13 4.04
602 647 3.264897 GCGCACATAGCACCCTCG 61.265 66.667 0.30 0.00 46.13 4.63
714 759 3.517602 CATGTGTTGCAAGGATGGATTG 58.482 45.455 0.00 0.00 0.00 2.67
845 891 4.957954 TCTCCCGGCTTAGTTTAGTTCATA 59.042 41.667 0.00 0.00 0.00 2.15
862 908 1.014564 GTGCCGAAAGTCTTCTCCCG 61.015 60.000 0.00 0.00 0.00 5.14
866 912 3.980583 TTCGTGCCGAAAGTCTTCT 57.019 47.368 7.44 0.00 43.00 2.85
878 924 2.673368 GGATTGATCGGGATATTCGTGC 59.327 50.000 0.00 0.00 0.00 5.34
903 949 0.322456 TGTACATTGGCAGGGTCAGC 60.322 55.000 0.00 0.00 0.00 4.26
907 953 6.668645 TCTTTATATTGTACATTGGCAGGGT 58.331 36.000 0.00 0.00 0.00 4.34
920 966 9.732130 GCTTCTCATTATCCCTCTTTATATTGT 57.268 33.333 0.00 0.00 0.00 2.71
931 977 5.901413 TGATCTTGCTTCTCATTATCCCT 57.099 39.130 0.00 0.00 0.00 4.20
932 978 7.882271 ACTAATGATCTTGCTTCTCATTATCCC 59.118 37.037 5.07 0.00 39.71 3.85
946 992 3.314635 GCCCTGCTGAACTAATGATCTTG 59.685 47.826 0.00 0.00 0.00 3.02
950 996 3.019564 GTTGCCCTGCTGAACTAATGAT 58.980 45.455 0.00 0.00 0.00 2.45
953 999 1.271379 ACGTTGCCCTGCTGAACTAAT 60.271 47.619 0.00 0.00 0.00 1.73
957 1003 1.237285 ATGACGTTGCCCTGCTGAAC 61.237 55.000 0.00 0.00 0.00 3.18
961 1007 0.673644 GTGTATGACGTTGCCCTGCT 60.674 55.000 0.00 0.00 0.00 4.24
971 1017 0.528924 TTGGGAGACGGTGTATGACG 59.471 55.000 0.00 0.00 0.00 4.35
982 1034 2.874701 CCATTGACGATGATTGGGAGAC 59.125 50.000 4.07 0.00 38.03 3.36
1161 1213 0.395311 TGACAGCGAGGTAGTAGGGG 60.395 60.000 0.00 0.00 0.00 4.79
1176 1228 1.198759 GCTAACCCTGGGGAGTGACA 61.199 60.000 18.88 0.00 38.96 3.58
1179 1231 1.604378 CAGCTAACCCTGGGGAGTG 59.396 63.158 18.88 10.45 38.96 3.51
1201 1253 1.610379 GGCAAGGGATTGGCAGGTT 60.610 57.895 9.38 0.00 45.56 3.50
1207 1259 2.029623 CTGATCAAGGCAAGGGATTGG 58.970 52.381 0.00 0.00 0.00 3.16
1237 1289 8.611051 ACGATATATCTAATTAAGGGAAGGCT 57.389 34.615 10.93 0.00 0.00 4.58
1238 1290 9.099454 CAACGATATATCTAATTAAGGGAAGGC 57.901 37.037 10.93 0.00 0.00 4.35
1243 1295 9.367444 GGTGTCAACGATATATCTAATTAAGGG 57.633 37.037 10.93 0.00 0.00 3.95
1247 1299 9.908152 CACTGGTGTCAACGATATATCTAATTA 57.092 33.333 10.93 0.00 0.00 1.40
1248 1300 8.421784 ACACTGGTGTCAACGATATATCTAATT 58.578 33.333 10.93 0.34 40.24 1.40
1249 1301 7.952671 ACACTGGTGTCAACGATATATCTAAT 58.047 34.615 10.93 0.00 40.24 1.73
1256 1308 5.048991 GGAAAAACACTGGTGTCAACGATAT 60.049 40.000 6.84 0.00 44.13 1.63
1262 1314 3.020984 GGAGGAAAAACACTGGTGTCAA 58.979 45.455 6.84 0.00 44.13 3.18
1266 1318 1.328279 GGGGAGGAAAAACACTGGTG 58.672 55.000 0.00 0.00 0.00 4.17
1269 1321 2.381752 AAGGGGGAGGAAAAACACTG 57.618 50.000 0.00 0.00 0.00 3.66
1278 1330 5.293643 TGAGATAAACATAAAGGGGGAGGA 58.706 41.667 0.00 0.00 0.00 3.71
1284 1337 6.183360 CCTTGCCTTGAGATAAACATAAAGGG 60.183 42.308 0.00 0.00 35.71 3.95
1290 1343 5.441718 TCTCCTTGCCTTGAGATAAACAT 57.558 39.130 0.00 0.00 32.84 2.71
1293 1346 5.762179 TCTTCTCCTTGCCTTGAGATAAA 57.238 39.130 0.00 0.00 37.46 1.40
1305 1358 6.218746 CAAGAATTTTGGGTTCTTCTCCTTG 58.781 40.000 0.00 0.00 42.38 3.61
1320 1373 4.767409 GCACCTACTTCCTCCAAGAATTTT 59.233 41.667 0.00 0.00 35.82 1.82
1327 1380 1.295423 GCGCACCTACTTCCTCCAA 59.705 57.895 0.30 0.00 0.00 3.53
1340 1393 3.272334 CCTTCCCATAGCGCGCAC 61.272 66.667 35.10 4.34 0.00 5.34
1346 1399 3.073274 AGTGTTGTTCCTTCCCATAGC 57.927 47.619 0.00 0.00 0.00 2.97
1362 1415 6.777213 TTGTTAATTACCACAACCAAGTGT 57.223 33.333 0.00 0.00 37.82 3.55
1371 1424 7.188157 GTCACGAGTTTTTGTTAATTACCACA 58.812 34.615 0.00 0.00 0.00 4.17
1383 1436 3.392769 TCAAACGGTCACGAGTTTTTG 57.607 42.857 0.00 0.00 44.60 2.44
1384 1437 3.623960 TGATCAAACGGTCACGAGTTTTT 59.376 39.130 0.00 0.00 44.60 1.94
1385 1438 3.199677 TGATCAAACGGTCACGAGTTTT 58.800 40.909 0.00 0.00 44.60 2.43
1396 1449 2.988010 TGAGGGAGATGATCAAACGG 57.012 50.000 0.00 0.00 0.00 4.44
1415 1468 7.655521 TTACATCTAGTGTGGCTACTGTAAT 57.344 36.000 0.64 0.00 42.24 1.89
1445 1499 9.798885 GCACAAAATTATATTAAAACACGCAAA 57.201 25.926 0.00 0.00 0.00 3.68
1446 1500 8.436200 GGCACAAAATTATATTAAAACACGCAA 58.564 29.630 0.00 0.00 0.00 4.85
1447 1501 7.063544 GGGCACAAAATTATATTAAAACACGCA 59.936 33.333 0.00 0.00 0.00 5.24
1448 1502 7.276878 AGGGCACAAAATTATATTAAAACACGC 59.723 33.333 0.00 0.00 0.00 5.34
1449 1503 8.696410 AGGGCACAAAATTATATTAAAACACG 57.304 30.769 0.00 0.00 0.00 4.49
1515 1569 2.431260 GCGTTTACGAGGTCCGCA 60.431 61.111 6.44 0.00 43.53 5.69
1530 1584 1.647084 GCAGGCCTTAATTACCGCG 59.353 57.895 0.00 0.00 0.00 6.46
1566 1620 3.005554 GCAGTTCAAGCTAGATTGAGCA 58.994 45.455 30.71 14.23 45.43 4.26
1588 1642 9.836076 GGCTGAAACTAAATATAAGACGTTTTT 57.164 29.630 0.00 0.00 0.00 1.94
1612 1666 8.347633 AGTAAGATACTACTACCCCTGAAAGGC 61.348 44.444 0.00 0.00 45.77 4.35
1613 1667 7.068061 AGTAAGATACTACTACCCCTGAAAGG 58.932 42.308 0.00 0.00 46.37 3.11
1614 1668 8.414778 CAAGTAAGATACTACTACCCCTGAAAG 58.585 40.741 0.00 0.00 38.26 2.62
1615 1669 7.897565 ACAAGTAAGATACTACTACCCCTGAAA 59.102 37.037 0.00 0.00 38.26 2.69
1616 1670 7.341256 CACAAGTAAGATACTACTACCCCTGAA 59.659 40.741 0.00 0.00 38.26 3.02
1617 1671 6.832384 CACAAGTAAGATACTACTACCCCTGA 59.168 42.308 0.00 0.00 38.26 3.86
1618 1672 6.832384 TCACAAGTAAGATACTACTACCCCTG 59.168 42.308 0.00 0.00 38.26 4.45
1621 1675 6.832900 ACCTCACAAGTAAGATACTACTACCC 59.167 42.308 0.00 0.00 38.26 3.69
1629 1683 4.020485 ACACCCACCTCACAAGTAAGATAC 60.020 45.833 0.00 0.00 0.00 2.24
1644 1698 1.593265 CCCTGTACGTACACCCACC 59.407 63.158 24.10 0.00 31.93 4.61
1645 1699 1.187567 ACCCCTGTACGTACACCCAC 61.188 60.000 24.10 0.00 31.93 4.61
1657 1711 1.407979 CTCGCGTTCTTATACCCCTGT 59.592 52.381 5.77 0.00 0.00 4.00
1667 1721 2.262915 CAGGCTCCTCGCGTTCTT 59.737 61.111 5.77 0.00 40.44 2.52
1745 1799 2.736721 GCATGAGTCAAGTTCGCAACTA 59.263 45.455 0.00 0.00 41.91 2.24
1751 1805 3.619929 TGATCATGCATGAGTCAAGTTCG 59.380 43.478 31.36 0.69 40.64 3.95
1771 1825 6.339587 AGTTCCAAATTTATTCCGCTTTGA 57.660 33.333 0.00 0.00 31.76 2.69
1772 1826 7.420184 AAAGTTCCAAATTTATTCCGCTTTG 57.580 32.000 0.00 0.00 0.00 2.77
1773 1827 8.445275 AAAAAGTTCCAAATTTATTCCGCTTT 57.555 26.923 0.00 0.00 0.00 3.51
1860 1921 5.487433 CCATTCATACACACAACTCCTGTA 58.513 41.667 0.00 0.00 36.10 2.74
1863 1924 3.587061 TCCCATTCATACACACAACTCCT 59.413 43.478 0.00 0.00 0.00 3.69
1897 1958 2.283604 AACCCCGGCCCATTGAAC 60.284 61.111 0.00 0.00 0.00 3.18
1996 4879 2.609002 GCCAAAGGCTGAACAAAAACAG 59.391 45.455 0.00 0.00 46.69 3.16
2023 4906 7.659390 AGAGTAAAGACTGAAGGAACAAATCAG 59.341 37.037 0.00 0.00 44.77 2.90
2057 4940 9.477484 TCAGTGTAAAATCTGAAGTAAACTCTC 57.523 33.333 0.00 0.00 37.69 3.20
2102 4985 2.681097 GCACTGGAGAAACTATCCCACC 60.681 54.545 0.00 0.00 35.86 4.61
2110 4993 5.437060 TGTCTAAAAAGCACTGGAGAAACT 58.563 37.500 0.00 0.00 0.00 2.66
2111 4994 5.751243 TGTCTAAAAAGCACTGGAGAAAC 57.249 39.130 0.00 0.00 0.00 2.78
2238 5155 8.341903 CCAACAGACAATCAAACGCATATATTA 58.658 33.333 0.00 0.00 0.00 0.98
2248 5165 5.276348 CGCTTTTTCCAACAGACAATCAAAC 60.276 40.000 0.00 0.00 0.00 2.93
2258 5175 7.406799 AAAAATCATACGCTTTTTCCAACAG 57.593 32.000 0.00 0.00 30.78 3.16
2395 5334 4.818642 TCACGTGGGTTATTTGATTCGTA 58.181 39.130 17.00 0.00 0.00 3.43
2457 5396 6.071391 GCCCACTTCTTTGATTCAAGGAATTA 60.071 38.462 20.25 3.51 38.42 1.40
2492 5431 2.101582 TGCAAGCCCGCTTCTTTAAAAA 59.898 40.909 0.00 0.00 33.42 1.94
2493 5432 1.683917 TGCAAGCCCGCTTCTTTAAAA 59.316 42.857 0.00 0.00 33.42 1.52
2494 5433 1.323412 TGCAAGCCCGCTTCTTTAAA 58.677 45.000 0.00 0.00 33.42 1.52
2495 5434 1.323412 TTGCAAGCCCGCTTCTTTAA 58.677 45.000 0.00 0.00 33.42 1.52
2496 5435 1.323412 TTTGCAAGCCCGCTTCTTTA 58.677 45.000 0.00 0.00 33.42 1.85
2504 5443 1.334869 GTGATAGGATTTGCAAGCCCG 59.665 52.381 14.66 0.00 37.80 6.13
2639 8703 2.202878 ACCGATCGGAATGTGGCG 60.203 61.111 39.55 10.90 38.96 5.69
2717 8781 0.179084 CTTGGATAGCTTTCGCGGGA 60.179 55.000 6.13 0.00 42.32 5.14
2718 8782 0.179084 TCTTGGATAGCTTTCGCGGG 60.179 55.000 6.13 0.00 42.32 6.13


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

AutoCloner maintained by Alex Coulton.