Multiple sequence alignment - TraesCS2D01G025300

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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 TraesCS2D01G025300 chr2D 100.000 2397 0 0 1 2397 11029160 11031556 0.000000e+00 4427.0
1 TraesCS2D01G025300 chr2D 81.579 950 82 27 773 1688 10986440 10987330 0.000000e+00 699.0
2 TraesCS2D01G025300 chr2D 83.268 514 46 14 1167 1664 11023109 11023598 1.020000e-118 436.0
3 TraesCS2D01G025300 chr2D 80.342 351 27 12 825 1171 11022760 11023072 6.670000e-56 228.0
4 TraesCS2D01G025300 chr2D 80.741 270 44 6 86 348 130729926 130729658 1.120000e-48 204.0
5 TraesCS2D01G025300 chrUn 91.404 826 47 11 773 1576 12174318 12175141 0.000000e+00 1110.0
6 TraesCS2D01G025300 chrUn 84.198 867 87 23 825 1664 12171132 12171975 0.000000e+00 797.0
7 TraesCS2D01G025300 chrUn 84.511 807 77 14 1566 2349 12175731 12176512 0.000000e+00 754.0
8 TraesCS2D01G025300 chrUn 84.030 526 54 14 1155 1664 470921000 470920489 1.670000e-131 479.0
9 TraesCS2D01G025300 chrUn 86.747 332 33 5 825 1152 467992731 467993055 2.270000e-95 359.0
10 TraesCS2D01G025300 chr2B 86.739 920 81 20 724 1624 16847400 16848297 0.000000e+00 985.0
11 TraesCS2D01G025300 chr2B 83.102 935 99 25 773 1664 16828627 16829545 0.000000e+00 797.0
12 TraesCS2D01G025300 chr2A 84.698 745 75 19 771 1495 11649742 11650467 0.000000e+00 708.0
13 TraesCS2D01G025300 chr2A 84.698 745 75 19 771 1495 11690793 11691518 0.000000e+00 708.0
14 TraesCS2D01G025300 chr2A 90.811 185 15 2 704 888 11690611 11690793 1.840000e-61 246.0
15 TraesCS2D01G025300 chr2A 80.060 336 61 5 43 373 142722876 142723210 6.620000e-61 244.0
16 TraesCS2D01G025300 chr2A 90.270 185 16 2 704 888 11649560 11649742 8.560000e-60 241.0
17 TraesCS2D01G025300 chr2A 90.769 65 6 0 309 373 653576419 653576355 1.180000e-13 87.9
18 TraesCS2D01G025300 chr6D 75.504 645 122 30 49 671 346270011 346269381 1.400000e-72 283.0
19 TraesCS2D01G025300 chr6D 79.310 377 69 7 5 373 42045892 42046267 3.060000e-64 255.0
20 TraesCS2D01G025300 chr6D 80.240 334 49 15 49 373 380994250 380993925 3.980000e-58 235.0
21 TraesCS2D01G025300 chr6D 75.893 224 41 12 458 674 347706303 347706520 4.220000e-18 102.0
22 TraesCS2D01G025300 chr4B 80.580 345 58 5 5 340 379087802 379087458 8.500000e-65 257.0
23 TraesCS2D01G025300 chr4A 74.063 667 122 27 5 633 708633564 708632911 2.400000e-55 226.0
24 TraesCS2D01G025300 chr4A 77.679 224 47 3 449 671 468533537 468533316 1.490000e-27 134.0
25 TraesCS2D01G025300 chr7B 78.778 311 55 9 49 353 103068362 103068667 5.230000e-47 198.0
26 TraesCS2D01G025300 chr7B 97.143 35 1 0 580 614 744654561 744654527 2.570000e-05 60.2
27 TraesCS2D01G025300 chr3A 78.431 306 57 6 43 342 168831285 168831587 8.750000e-45 191.0
28 TraesCS2D01G025300 chr3A 83.200 125 19 2 385 509 694413826 694413704 1.950000e-21 113.0
29 TraesCS2D01G025300 chr3D 77.922 231 40 8 451 673 113523081 113522854 1.490000e-27 134.0
30 TraesCS2D01G025300 chr3D 88.506 87 10 0 1805 1891 118317580 118317666 3.260000e-19 106.0
31 TraesCS2D01G025300 chr3D 78.571 140 25 5 482 618 3165742 3165605 1.180000e-13 87.9
32 TraesCS2D01G025300 chr7D 79.235 183 33 5 451 631 159413236 159413415 3.240000e-24 122.0
33 TraesCS2D01G025300 chr7D 77.315 216 33 6 457 671 226575169 226574969 1.950000e-21 113.0
34 TraesCS2D01G025300 chr4D 80.952 147 27 1 473 618 477523302 477523448 5.410000e-22 115.0
35 TraesCS2D01G025300 chr5D 77.907 172 36 2 502 671 10749207 10749378 3.260000e-19 106.0
36 TraesCS2D01G025300 chr6B 76.596 141 29 4 509 647 637099518 637099656 9.190000e-10 75.0


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 TraesCS2D01G025300 chr2D 11029160 11031556 2396 False 4427.0 4427 100.000000 1 2397 1 chr2D.!!$F2 2396
1 TraesCS2D01G025300 chr2D 10986440 10987330 890 False 699.0 699 81.579000 773 1688 1 chr2D.!!$F1 915
2 TraesCS2D01G025300 chr2D 11022760 11023598 838 False 332.0 436 81.805000 825 1664 2 chr2D.!!$F3 839
3 TraesCS2D01G025300 chrUn 12171132 12176512 5380 False 887.0 1110 86.704333 773 2349 3 chrUn.!!$F2 1576
4 TraesCS2D01G025300 chrUn 470920489 470921000 511 True 479.0 479 84.030000 1155 1664 1 chrUn.!!$R1 509
5 TraesCS2D01G025300 chr2B 16847400 16848297 897 False 985.0 985 86.739000 724 1624 1 chr2B.!!$F2 900
6 TraesCS2D01G025300 chr2B 16828627 16829545 918 False 797.0 797 83.102000 773 1664 1 chr2B.!!$F1 891
7 TraesCS2D01G025300 chr2A 11690611 11691518 907 False 477.0 708 87.754500 704 1495 2 chr2A.!!$F3 791
8 TraesCS2D01G025300 chr2A 11649560 11650467 907 False 474.5 708 87.484000 704 1495 2 chr2A.!!$F2 791
9 TraesCS2D01G025300 chr6D 346269381 346270011 630 True 283.0 283 75.504000 49 671 1 chr6D.!!$R1 622
10 TraesCS2D01G025300 chr4A 708632911 708633564 653 True 226.0 226 74.063000 5 633 1 chr4A.!!$R2 628

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
378 391 0.040514 CGTGCCGCTTCAATTTGACA 60.041 50.0 0.0 0.0 0.0 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2355 6512 0.099436 GACATTTCACCGCTGCCATC 59.901 55.0 0.0 0.0 0.0 3.51 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
19 20 2.431954 CATGCTCCATTGGGACTTCT 57.568 50.000 2.09 0.00 38.64 2.85
20 21 3.565764 CATGCTCCATTGGGACTTCTA 57.434 47.619 2.09 0.00 38.64 2.10
38 40 3.299503 TCTAGTCCTATGTCTGCATGCA 58.700 45.455 21.29 21.29 36.58 3.96
41 43 0.471191 TCCTATGTCTGCATGCAGGG 59.529 55.000 39.72 32.20 43.75 4.45
80 86 1.836802 GCCATCTCCTTCTTCTGGTCT 59.163 52.381 0.00 0.00 0.00 3.85
125 134 0.766674 CGGGGGAGGAATCCATGGTA 60.767 60.000 12.58 0.00 0.00 3.25
131 140 3.049344 GGAGGAATCCATGGTAGGAGTT 58.951 50.000 12.58 0.00 41.90 3.01
132 141 3.181450 GGAGGAATCCATGGTAGGAGTTG 60.181 52.174 12.58 0.00 41.90 3.16
136 145 0.249120 TCCATGGTAGGAGTTGTGCG 59.751 55.000 12.58 0.00 32.77 5.34
137 146 1.369091 CCATGGTAGGAGTTGTGCGC 61.369 60.000 2.57 0.00 0.00 6.09
143 152 0.898326 TAGGAGTTGTGCGCAGAGGA 60.898 55.000 12.22 0.00 0.00 3.71
147 156 1.016130 AGTTGTGCGCAGAGGAATCG 61.016 55.000 12.22 0.00 0.00 3.34
148 157 1.014044 GTTGTGCGCAGAGGAATCGA 61.014 55.000 12.22 0.00 0.00 3.59
152 161 2.529619 GCGCAGAGGAATCGAAGGC 61.530 63.158 0.30 0.00 0.00 4.35
172 181 1.070445 GATGACTGCGGCTATGGCT 59.930 57.895 0.00 0.00 38.73 4.75
173 182 1.226686 GATGACTGCGGCTATGGCTG 61.227 60.000 5.34 5.34 46.87 4.85
179 188 4.504596 CGGCTATGGCTGGGGCAA 62.505 66.667 1.07 0.00 42.43 4.52
183 192 4.813235 TATGGCTGGGGCAACGGC 62.813 66.667 3.88 3.88 42.43 5.68
204 213 3.937814 CTTATATAGCAATGGTGGCCGA 58.062 45.455 0.00 0.00 0.00 5.54
205 214 4.517285 CTTATATAGCAATGGTGGCCGAT 58.483 43.478 0.00 0.00 0.00 4.18
209 218 0.767375 AGCAATGGTGGCCGATAGAT 59.233 50.000 0.00 0.00 39.76 1.98
222 231 2.443416 CGATAGATGGACGGATGGGTA 58.557 52.381 0.00 0.00 39.76 3.69
224 233 3.698289 GATAGATGGACGGATGGGTAGA 58.302 50.000 0.00 0.00 0.00 2.59
264 274 0.171007 ACTGCGTGCCATTAATGTGC 59.829 50.000 14.25 15.94 0.00 4.57
265 275 0.862701 CTGCGTGCCATTAATGTGCG 60.863 55.000 14.25 14.62 0.00 5.34
266 276 1.136565 GCGTGCCATTAATGTGCGT 59.863 52.632 14.25 0.00 0.00 5.24
288 301 4.773117 GACAGACGGACGGGCGAC 62.773 72.222 0.00 0.00 0.00 5.19
306 319 2.553086 GACCACCGTGTAGTTTGAACA 58.447 47.619 0.00 0.00 0.00 3.18
307 320 3.135994 GACCACCGTGTAGTTTGAACAT 58.864 45.455 0.00 0.00 0.00 2.71
321 334 0.807496 GAACATGGAGCAGTTGCCTC 59.193 55.000 0.00 0.00 43.38 4.70
326 339 0.835971 TGGAGCAGTTGCCTCTACCA 60.836 55.000 0.00 1.26 43.38 3.25
377 390 2.712077 CGTGCCGCTTCAATTTGAC 58.288 52.632 0.00 0.00 0.00 3.18
378 391 0.040514 CGTGCCGCTTCAATTTGACA 60.041 50.000 0.00 0.00 0.00 3.58
379 392 1.408422 GTGCCGCTTCAATTTGACAC 58.592 50.000 0.00 0.28 0.00 3.67
380 393 1.001378 GTGCCGCTTCAATTTGACACT 60.001 47.619 0.00 0.00 0.00 3.55
383 420 2.666619 GCCGCTTCAATTTGACACTCTG 60.667 50.000 0.00 0.00 0.00 3.35
385 422 2.807967 CGCTTCAATTTGACACTCTGGA 59.192 45.455 0.00 0.00 0.00 3.86
390 427 5.164620 TCAATTTGACACTCTGGAGCATA 57.835 39.130 0.00 0.00 0.00 3.14
419 456 1.830587 ATTGACACTCTGGAGCGGCA 61.831 55.000 1.45 0.00 0.00 5.69
444 481 2.551644 GTTTCGGACGGGAAATGCT 58.448 52.632 2.62 0.00 38.12 3.79
454 491 1.884926 GGAAATGCTCGCGGGAGAG 60.885 63.158 31.36 9.02 43.27 3.20
455 492 1.141881 GAAATGCTCGCGGGAGAGA 59.858 57.895 31.36 17.48 43.27 3.10
470 507 2.941583 AGAGGAGGGGGTTTGGGC 60.942 66.667 0.00 0.00 0.00 5.36
471 508 3.264845 GAGGAGGGGGTTTGGGCA 61.265 66.667 0.00 0.00 0.00 5.36
490 527 4.021925 GCCAGGGCGGTCAGAAGT 62.022 66.667 0.00 0.00 36.97 3.01
492 529 2.583441 CCAGGGCGGTCAGAAGTGA 61.583 63.158 0.00 0.00 0.00 3.41
499 536 2.029844 GGTCAGAAGTGAGCGTGGC 61.030 63.158 0.00 0.00 41.19 5.01
503 540 3.782244 GAAGTGAGCGTGGCAGCG 61.782 66.667 0.00 0.00 43.00 5.18
519 557 4.796231 CGGTCCGACTCCCGCAAG 62.796 72.222 4.91 0.00 37.43 4.01
540 580 2.224646 GGCCCCCTCATATTTGTCTCTC 60.225 54.545 0.00 0.00 0.00 3.20
541 581 2.548920 GCCCCCTCATATTTGTCTCTCG 60.549 54.545 0.00 0.00 0.00 4.04
546 586 5.178797 CCCTCATATTTGTCTCTCGTTTGT 58.821 41.667 0.00 0.00 0.00 2.83
555 595 3.060602 GTCTCTCGTTTGTGGGAGAAAG 58.939 50.000 0.00 0.00 38.72 2.62
565 605 1.134491 GTGGGAGAAAGTACATCCGGG 60.134 57.143 0.00 0.00 33.68 5.73
566 606 0.468648 GGGAGAAAGTACATCCGGGG 59.531 60.000 0.00 0.00 33.68 5.73
606 647 0.321653 GACCGTGTTGGATGGCTTCT 60.322 55.000 0.07 0.00 42.00 2.85
608 649 1.503542 CGTGTTGGATGGCTTCTGC 59.496 57.895 0.07 0.00 38.76 4.26
633 674 4.082523 ACAGCATGGTCCGGACGG 62.083 66.667 27.68 19.86 43.62 4.79
648 689 3.055719 CGGATGCAGGCGGTTTGT 61.056 61.111 0.00 0.00 0.00 2.83
651 692 3.631487 GATGCAGGCGGTTTGTGGC 62.631 63.158 0.00 0.00 0.00 5.01
652 693 4.892965 TGCAGGCGGTTTGTGGCT 62.893 61.111 0.00 0.00 43.90 4.75
672 713 4.954933 GCGTTGGAGATGCCCTTA 57.045 55.556 0.00 0.00 34.03 2.69
673 714 3.168773 GCGTTGGAGATGCCCTTAA 57.831 52.632 0.00 0.00 34.03 1.85
674 715 1.680338 GCGTTGGAGATGCCCTTAAT 58.320 50.000 0.00 0.00 34.03 1.40
675 716 2.846193 GCGTTGGAGATGCCCTTAATA 58.154 47.619 0.00 0.00 34.03 0.98
676 717 3.412386 GCGTTGGAGATGCCCTTAATAT 58.588 45.455 0.00 0.00 34.03 1.28
677 718 3.437049 GCGTTGGAGATGCCCTTAATATC 59.563 47.826 0.00 0.00 34.03 1.63
678 719 4.804261 GCGTTGGAGATGCCCTTAATATCT 60.804 45.833 0.00 0.00 34.03 1.98
679 720 5.308825 CGTTGGAGATGCCCTTAATATCTT 58.691 41.667 0.00 0.00 34.97 2.40
680 721 6.464222 CGTTGGAGATGCCCTTAATATCTTA 58.536 40.000 0.00 0.00 34.97 2.10
681 722 6.934645 CGTTGGAGATGCCCTTAATATCTTAA 59.065 38.462 0.00 0.00 34.97 1.85
682 723 7.444183 CGTTGGAGATGCCCTTAATATCTTAAA 59.556 37.037 0.00 0.00 34.97 1.52
683 724 9.131791 GTTGGAGATGCCCTTAATATCTTAAAA 57.868 33.333 0.00 0.00 34.97 1.52
684 725 9.707957 TTGGAGATGCCCTTAATATCTTAAAAA 57.292 29.630 0.00 0.00 34.97 1.94
743 784 8.654485 TTACTTAGGTCTACAGATAAACACCA 57.346 34.615 0.00 0.00 0.00 4.17
748 789 7.490657 AGGTCTACAGATAAACACCAACATA 57.509 36.000 0.00 0.00 0.00 2.29
794 836 5.246981 ACCATATGTAGCATTGGCACTAT 57.753 39.130 1.24 0.00 44.61 2.12
835 877 3.005684 GGCATCACCATGTTCAAAAGTGA 59.994 43.478 1.93 1.93 41.35 3.41
989 1163 2.307686 GAGGAAAATCACACCCTACCCA 59.692 50.000 0.00 0.00 0.00 4.51
1026 1200 0.734889 GGTGCATGAAGAACATCGGG 59.265 55.000 0.00 0.00 37.07 5.14
1037 1211 2.076863 GAACATCGGGAAAGGACTGTG 58.923 52.381 0.00 0.00 0.00 3.66
1050 1224 2.521465 CTGTGGGCAGCCACCAAA 60.521 61.111 15.19 0.00 40.24 3.28
1063 1246 2.230992 GCCACCAAAGTGTTGATATGCA 59.769 45.455 0.00 0.00 42.88 3.96
1087 1279 2.661537 TGGTGACGCTGCTTGTCG 60.662 61.111 0.00 0.00 39.22 4.35
1180 1414 8.776680 TTTGTTTTTGCGAGTAGAAGTTAATC 57.223 30.769 0.00 0.00 0.00 1.75
1223 1459 4.217754 TGTTTTTGGACGTATGCAGAAC 57.782 40.909 0.00 0.00 0.00 3.01
1229 1465 2.495669 TGGACGTATGCAGAACAGATGA 59.504 45.455 0.00 0.00 30.77 2.92
1230 1466 3.056179 TGGACGTATGCAGAACAGATGAA 60.056 43.478 0.00 0.00 30.77 2.57
1416 1670 6.782986 TCTAGCCATATATGTGCCATTTTCT 58.217 36.000 17.44 5.40 0.00 2.52
1495 1749 7.618502 TTAATTAATTTAAGCCGCTCTGTCA 57.381 32.000 5.91 0.00 0.00 3.58
1496 1750 4.939509 TTAATTTAAGCCGCTCTGTCAC 57.060 40.909 0.00 0.00 0.00 3.67
1497 1751 1.739067 ATTTAAGCCGCTCTGTCACC 58.261 50.000 0.00 0.00 0.00 4.02
1531 1812 1.462616 TCTTGATGGGGCAATGTTCG 58.537 50.000 0.00 0.00 0.00 3.95
1541 1822 2.584791 GGCAATGTTCGTTTGCTACAG 58.415 47.619 8.15 0.00 46.74 2.74
1543 1824 2.973224 GCAATGTTCGTTTGCTACAGTG 59.027 45.455 0.00 0.00 44.71 3.66
1545 1826 4.319190 GCAATGTTCGTTTGCTACAGTGTA 60.319 41.667 2.36 2.36 44.71 2.90
1572 1853 2.686558 TTGTTTCGAATGCTCACTGC 57.313 45.000 0.00 0.00 43.25 4.40
1589 1870 1.112916 TGCGTGAGAGGTTCTCCACA 61.113 55.000 3.81 0.00 42.73 4.17
1594 1875 3.306364 CGTGAGAGGTTCTCCACAAGAAT 60.306 47.826 3.81 0.00 45.57 2.40
1612 1893 6.999871 ACAAGAATTTTCCATTGAAATTGGCT 59.000 30.769 7.73 0.00 40.08 4.75
1664 5798 3.197790 CGGAGCCATCCTGTTGCG 61.198 66.667 0.00 0.00 44.22 4.85
1665 5799 3.512516 GGAGCCATCCTGTTGCGC 61.513 66.667 0.00 0.00 42.94 6.09
1702 5836 6.631016 AGTCTAGCTACGATTCAAATCACAA 58.369 36.000 3.81 0.00 35.11 3.33
1818 5967 0.248565 GCCAGTCATCTGAGAGCACA 59.751 55.000 0.00 0.00 43.76 4.57
1830 5979 1.326852 GAGAGCACAATGACTGCATCG 59.673 52.381 0.00 0.00 37.08 3.84
1847 5996 2.047179 GTTGACGGAGCCAGACCC 60.047 66.667 0.00 0.00 0.00 4.46
1917 6066 0.526524 GCATCTCCTTGAGGTCGTCG 60.527 60.000 0.00 0.00 36.34 5.12
1929 6078 2.360852 TCGTCGGGAGGGACTGAC 60.361 66.667 0.00 0.00 41.55 3.51
1944 6093 1.750572 CTGACGCGAAGAGAGCATGC 61.751 60.000 15.93 10.51 34.19 4.06
1951 6100 1.595466 GAAGAGAGCATGCATCCCAG 58.405 55.000 21.98 0.00 0.00 4.45
1952 6101 0.183014 AAGAGAGCATGCATCCCAGG 59.817 55.000 21.98 0.00 0.00 4.45
1954 6103 1.695239 AGAGCATGCATCCCAGGGA 60.695 57.895 21.98 11.90 35.55 4.20
1984 6135 4.899239 GCGGATGCTCCACCCTCG 62.899 72.222 3.57 0.00 35.91 4.63
1999 6150 1.726533 CCTCGCCTCCTCGTACTTCC 61.727 65.000 0.00 0.00 0.00 3.46
2000 6151 2.049475 CTCGCCTCCTCGTACTTCCG 62.049 65.000 0.00 0.00 0.00 4.30
2001 6152 2.806237 GCCTCCTCGTACTTCCGG 59.194 66.667 0.00 0.00 0.00 5.14
2002 6153 2.783288 GCCTCCTCGTACTTCCGGG 61.783 68.421 0.00 0.00 0.00 5.73
2003 6154 1.379576 CCTCCTCGTACTTCCGGGT 60.380 63.158 0.00 0.00 0.00 5.28
2004 6155 0.107017 CCTCCTCGTACTTCCGGGTA 60.107 60.000 0.00 0.00 0.00 3.69
2015 6166 0.626382 TTCCGGGTATTGGGATGCAA 59.374 50.000 0.00 0.00 31.11 4.08
2016 6167 0.182537 TCCGGGTATTGGGATGCAAG 59.817 55.000 0.00 0.00 0.00 4.01
2064 6218 2.485814 GCTGTGGAATCTCCTTGTTGTC 59.514 50.000 0.00 0.00 37.46 3.18
2070 6224 3.306780 GGAATCTCCTTGTTGTCGGAAGA 60.307 47.826 0.00 0.00 32.53 2.87
2077 6231 3.758554 CCTTGTTGTCGGAAGAAATGGAT 59.241 43.478 0.00 0.00 45.01 3.41
2082 6236 1.594862 GTCGGAAGAAATGGATGCGAG 59.405 52.381 0.00 0.00 45.01 5.03
2095 6249 3.631453 TGCGAGGAAAGCAATGACT 57.369 47.368 0.00 0.00 42.18 3.41
2099 6253 1.740025 CGAGGAAAGCAATGACTTCCC 59.260 52.381 9.33 0.00 0.00 3.97
2100 6254 2.095461 GAGGAAAGCAATGACTTCCCC 58.905 52.381 9.33 5.80 0.00 4.81
2102 6256 0.811281 GAAAGCAATGACTTCCCCGG 59.189 55.000 0.00 0.00 0.00 5.73
2105 6259 1.749258 GCAATGACTTCCCCGGGTC 60.749 63.158 21.85 11.15 0.00 4.46
2138 6292 1.519234 CTGCTTCTCCGCATACGCA 60.519 57.895 0.00 0.00 39.52 5.24
2164 6318 1.803943 CCTCCTCGTCCGACTTGAG 59.196 63.158 0.00 0.00 0.00 3.02
2194 6348 0.249238 GAGTAGTCCATGGCGAGCTG 60.249 60.000 6.96 0.00 0.00 4.24
2216 6370 1.475403 TCTCAGTGAACTCGGGATCC 58.525 55.000 1.92 1.92 0.00 3.36
2238 6392 1.008403 TCAGTACAGGGCTAGGAGGT 58.992 55.000 0.00 0.00 0.00 3.85
2248 6405 2.036098 TAGGAGGTCGGCGTTGGA 59.964 61.111 6.85 0.00 0.00 3.53
2261 6418 2.922503 TTGGAGAGCCGTGCCTCA 60.923 61.111 12.60 0.00 36.79 3.86
2264 6421 0.975556 TGGAGAGCCGTGCCTCAATA 60.976 55.000 12.60 2.04 36.79 1.90
2267 6424 0.833287 AGAGCCGTGCCTCAATATGT 59.167 50.000 0.00 0.00 34.26 2.29
2274 6431 0.179048 TGCCTCAATATGTGCCTCCG 60.179 55.000 0.00 0.00 0.00 4.63
2277 6434 0.179048 CTCAATATGTGCCTCCGCCA 60.179 55.000 0.00 0.00 0.00 5.69
2314 6471 1.602237 CCACCTCGCCTACCATGTT 59.398 57.895 0.00 0.00 0.00 2.71
2316 6473 0.249120 CACCTCGCCTACCATGTTGA 59.751 55.000 0.00 0.00 0.00 3.18
2322 6479 1.414181 CGCCTACCATGTTGATCTCCT 59.586 52.381 0.00 0.00 0.00 3.69
2328 6485 1.138859 CCATGTTGATCTCCTACGGCA 59.861 52.381 0.00 0.00 0.00 5.69
2331 6488 0.872021 GTTGATCTCCTACGGCAGCG 60.872 60.000 0.00 0.00 0.00 5.18
2333 6490 1.008309 GATCTCCTACGGCAGCGAC 60.008 63.158 0.00 0.00 0.00 5.19
2350 6507 4.923942 CGGAGGCGGCATCTGCAT 62.924 66.667 14.76 0.00 44.36 3.96
2351 6508 2.976903 GGAGGCGGCATCTGCATC 60.977 66.667 14.76 3.93 44.36 3.91
2352 6509 3.344215 GAGGCGGCATCTGCATCG 61.344 66.667 13.08 0.66 44.36 3.84
2353 6510 4.923942 AGGCGGCATCTGCATCGG 62.924 66.667 13.08 0.00 44.36 4.18
2356 6513 4.240103 CGGCATCTGCATCGGGGA 62.240 66.667 4.33 0.00 44.36 4.81
2357 6514 2.433446 GGCATCTGCATCGGGGAT 59.567 61.111 4.33 0.00 44.36 3.85
2358 6515 1.970114 GGCATCTGCATCGGGGATG 60.970 63.158 8.19 8.19 44.36 3.51
2359 6516 1.970114 GCATCTGCATCGGGGATGG 60.970 63.158 13.06 0.00 40.10 3.51
2360 6517 1.970114 CATCTGCATCGGGGATGGC 60.970 63.158 7.63 1.52 40.10 4.40
2361 6518 2.454688 ATCTGCATCGGGGATGGCA 61.455 57.895 7.63 0.00 40.10 4.92
2362 6519 2.407440 ATCTGCATCGGGGATGGCAG 62.407 60.000 16.74 16.74 41.17 4.85
2363 6520 4.881440 TGCATCGGGGATGGCAGC 62.881 66.667 7.63 0.00 40.10 5.25
2369 6526 4.424711 GGGGATGGCAGCGGTGAA 62.425 66.667 20.69 5.77 0.00 3.18
2370 6527 2.361104 GGGATGGCAGCGGTGAAA 60.361 61.111 20.69 5.35 0.00 2.69
2371 6528 1.754234 GGGATGGCAGCGGTGAAAT 60.754 57.895 20.69 10.56 0.00 2.17
2372 6529 1.434696 GGATGGCAGCGGTGAAATG 59.565 57.895 20.69 0.00 0.00 2.32
2373 6530 1.315257 GGATGGCAGCGGTGAAATGT 61.315 55.000 20.69 0.00 0.00 2.71
2374 6531 0.099436 GATGGCAGCGGTGAAATGTC 59.901 55.000 20.69 4.58 0.00 3.06
2375 6532 0.608856 ATGGCAGCGGTGAAATGTCA 60.609 50.000 20.69 0.00 32.31 3.58
2376 6533 1.236616 TGGCAGCGGTGAAATGTCAG 61.237 55.000 20.69 0.00 33.27 3.51
2377 6534 0.955428 GGCAGCGGTGAAATGTCAGA 60.955 55.000 20.69 0.00 33.27 3.27
2378 6535 0.874390 GCAGCGGTGAAATGTCAGAA 59.126 50.000 20.69 0.00 33.27 3.02
2379 6536 1.470098 GCAGCGGTGAAATGTCAGAAT 59.530 47.619 20.69 0.00 33.27 2.40
2380 6537 2.677836 GCAGCGGTGAAATGTCAGAATA 59.322 45.455 20.69 0.00 33.27 1.75
2381 6538 3.126858 GCAGCGGTGAAATGTCAGAATAA 59.873 43.478 20.69 0.00 33.27 1.40
2382 6539 4.728882 GCAGCGGTGAAATGTCAGAATAAG 60.729 45.833 20.69 0.00 33.27 1.73
2383 6540 4.631377 CAGCGGTGAAATGTCAGAATAAGA 59.369 41.667 9.50 0.00 33.27 2.10
2384 6541 4.872691 AGCGGTGAAATGTCAGAATAAGAG 59.127 41.667 0.00 0.00 33.27 2.85
2385 6542 4.034510 GCGGTGAAATGTCAGAATAAGAGG 59.965 45.833 0.00 0.00 33.27 3.69
2386 6543 5.178797 CGGTGAAATGTCAGAATAAGAGGT 58.821 41.667 0.00 0.00 33.27 3.85
2387 6544 6.338146 CGGTGAAATGTCAGAATAAGAGGTA 58.662 40.000 0.00 0.00 33.27 3.08
2388 6545 6.477033 CGGTGAAATGTCAGAATAAGAGGTAG 59.523 42.308 0.00 0.00 33.27 3.18
2389 6546 7.331791 GGTGAAATGTCAGAATAAGAGGTAGT 58.668 38.462 0.00 0.00 33.27 2.73
2390 6547 7.278868 GGTGAAATGTCAGAATAAGAGGTAGTG 59.721 40.741 0.00 0.00 33.27 2.74
2391 6548 8.035394 GTGAAATGTCAGAATAAGAGGTAGTGA 58.965 37.037 0.00 0.00 33.27 3.41
2392 6549 8.593679 TGAAATGTCAGAATAAGAGGTAGTGAA 58.406 33.333 0.00 0.00 0.00 3.18
2393 6550 9.606631 GAAATGTCAGAATAAGAGGTAGTGAAT 57.393 33.333 0.00 0.00 0.00 2.57
2394 6551 8.954950 AATGTCAGAATAAGAGGTAGTGAATG 57.045 34.615 0.00 0.00 0.00 2.67
2395 6552 6.341316 TGTCAGAATAAGAGGTAGTGAATGC 58.659 40.000 0.00 0.00 0.00 3.56
2396 6553 6.070824 TGTCAGAATAAGAGGTAGTGAATGCA 60.071 38.462 0.00 0.00 0.00 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.431954 AGAAGTCCCAATGGAGCATG 57.568 50.000 0.00 0.00 42.85 4.06
1 2 3.118531 ACTAGAAGTCCCAATGGAGCAT 58.881 45.455 0.00 0.00 42.85 3.79
13 14 5.527951 CATGCAGACATAGGACTAGAAGTC 58.472 45.833 0.00 0.00 38.48 3.01
16 17 3.706086 TGCATGCAGACATAGGACTAGAA 59.294 43.478 18.46 0.00 33.67 2.10
19 20 2.366590 CCTGCATGCAGACATAGGACTA 59.633 50.000 42.21 7.31 46.30 2.59
20 21 1.140452 CCTGCATGCAGACATAGGACT 59.860 52.381 42.21 0.00 46.30 3.85
26 28 2.357446 TGCCCTGCATGCAGACAT 59.643 55.556 42.21 0.00 46.30 3.06
38 40 4.377760 ATTGCTGCTGGCTGCCCT 62.378 61.111 17.53 6.14 42.00 5.19
80 86 0.251916 CTTGGGACGGGCTGACATTA 59.748 55.000 0.00 0.00 0.00 1.90
125 134 1.758440 TTCCTCTGCGCACAACTCCT 61.758 55.000 5.66 0.00 0.00 3.69
131 140 0.737367 CTTCGATTCCTCTGCGCACA 60.737 55.000 5.66 0.00 0.00 4.57
132 141 1.424493 CCTTCGATTCCTCTGCGCAC 61.424 60.000 5.66 0.00 0.00 5.34
136 145 1.884926 CCGCCTTCGATTCCTCTGC 60.885 63.158 0.00 0.00 38.10 4.26
137 146 0.390860 ATCCGCCTTCGATTCCTCTG 59.609 55.000 0.00 0.00 38.10 3.35
143 152 0.811616 GCAGTCATCCGCCTTCGATT 60.812 55.000 0.00 0.00 38.10 3.34
147 156 2.892425 CCGCAGTCATCCGCCTTC 60.892 66.667 0.00 0.00 0.00 3.46
152 161 1.665916 CCATAGCCGCAGTCATCCG 60.666 63.158 0.00 0.00 0.00 4.18
172 181 1.271163 GCTATATAAGCCGTTGCCCCA 60.271 52.381 0.00 0.00 46.25 4.96
173 182 1.450025 GCTATATAAGCCGTTGCCCC 58.550 55.000 0.00 0.00 46.25 5.80
183 192 3.937814 TCGGCCACCATTGCTATATAAG 58.062 45.455 2.24 0.00 0.00 1.73
201 210 0.532573 CCCATCCGTCCATCTATCGG 59.467 60.000 0.00 0.00 44.76 4.18
204 213 3.702792 CTCTACCCATCCGTCCATCTAT 58.297 50.000 0.00 0.00 0.00 1.98
205 214 2.818216 GCTCTACCCATCCGTCCATCTA 60.818 54.545 0.00 0.00 0.00 1.98
209 218 1.760875 GGCTCTACCCATCCGTCCA 60.761 63.158 0.00 0.00 0.00 4.02
217 226 1.076485 GGTACTCCGGCTCTACCCA 60.076 63.158 0.00 0.00 33.26 4.51
247 257 1.136356 CGCACATTAATGGCACGCA 59.864 52.632 19.37 0.00 0.00 5.24
264 274 2.430921 GTCCGTCTGTCTGCCACG 60.431 66.667 0.00 0.00 0.00 4.94
265 275 2.430921 CGTCCGTCTGTCTGCCAC 60.431 66.667 0.00 0.00 0.00 5.01
266 276 3.680786 CCGTCCGTCTGTCTGCCA 61.681 66.667 0.00 0.00 0.00 4.92
287 300 2.695127 TGTTCAAACTACACGGTGGT 57.305 45.000 13.48 0.00 0.00 4.16
288 301 2.225491 CCATGTTCAAACTACACGGTGG 59.775 50.000 13.48 0.00 0.00 4.61
289 302 3.135225 TCCATGTTCAAACTACACGGTG 58.865 45.455 6.58 6.58 31.14 4.94
290 303 3.399330 CTCCATGTTCAAACTACACGGT 58.601 45.455 0.00 0.00 31.14 4.83
291 304 2.159627 GCTCCATGTTCAAACTACACGG 59.840 50.000 0.00 0.00 30.37 4.94
297 310 2.035066 GCAACTGCTCCATGTTCAAACT 59.965 45.455 0.00 0.00 38.21 2.66
321 334 2.658593 CGCGCCGATTCCTGGTAG 60.659 66.667 0.00 0.00 0.00 3.18
390 427 2.230508 CAGAGTGTCAATGCCTGCATTT 59.769 45.455 14.38 0.30 43.32 2.32
396 433 0.035630 GCTCCAGAGTGTCAATGCCT 60.036 55.000 0.00 0.00 0.00 4.75
401 438 2.343758 GCCGCTCCAGAGTGTCAA 59.656 61.111 7.40 0.00 37.24 3.18
406 443 2.601666 TCAGTGCCGCTCCAGAGT 60.602 61.111 0.00 0.00 0.00 3.24
428 465 1.447140 CGAGCATTTCCCGTCCGAA 60.447 57.895 0.00 0.00 0.00 4.30
430 467 3.564027 GCGAGCATTTCCCGTCCG 61.564 66.667 0.00 0.00 0.00 4.79
444 481 4.507916 CCCTCCTCTCTCCCGCGA 62.508 72.222 8.23 0.00 0.00 5.87
454 491 3.264845 TGCCCAAACCCCCTCCTC 61.265 66.667 0.00 0.00 0.00 3.71
455 492 3.268032 CTGCCCAAACCCCCTCCT 61.268 66.667 0.00 0.00 0.00 3.69
503 540 4.452733 CCTTGCGGGAGTCGGACC 62.453 72.222 4.14 0.00 39.39 4.46
519 557 1.777272 AGAGACAAATATGAGGGGGCC 59.223 52.381 0.00 0.00 0.00 5.80
521 559 2.700897 ACGAGAGACAAATATGAGGGGG 59.299 50.000 0.00 0.00 0.00 5.40
522 560 4.408182 AACGAGAGACAAATATGAGGGG 57.592 45.455 0.00 0.00 0.00 4.79
523 561 5.063944 CACAAACGAGAGACAAATATGAGGG 59.936 44.000 0.00 0.00 0.00 4.30
540 580 3.435671 GGATGTACTTTCTCCCACAAACG 59.564 47.826 0.00 0.00 0.00 3.60
541 581 3.435671 CGGATGTACTTTCTCCCACAAAC 59.564 47.826 0.00 0.00 0.00 2.93
546 586 1.200519 CCCGGATGTACTTTCTCCCA 58.799 55.000 0.73 0.00 0.00 4.37
555 595 4.603946 GGAGCGCCCCGGATGTAC 62.604 72.222 0.73 0.00 0.00 2.90
574 614 1.134367 ACACGGTCATGTATCGGTCTG 59.866 52.381 0.00 0.00 35.41 3.51
575 615 1.471119 ACACGGTCATGTATCGGTCT 58.529 50.000 0.00 0.00 35.41 3.85
608 649 1.448540 GACCATGCTGTCCGGACTG 60.449 63.158 33.39 32.12 0.00 3.51
633 674 2.568090 CCACAAACCGCCTGCATC 59.432 61.111 0.00 0.00 0.00 3.91
648 689 3.390521 ATCTCCAACGCCGAGCCA 61.391 61.111 0.00 0.00 0.00 4.75
651 692 2.892425 GGCATCTCCAACGCCGAG 60.892 66.667 0.00 0.00 35.79 4.63
722 763 7.305813 TGTTGGTGTTTATCTGTAGACCTAA 57.694 36.000 0.00 0.00 0.00 2.69
769 811 4.098349 AGTGCCAATGCTACATATGGTTTG 59.902 41.667 7.80 3.54 38.71 2.93
779 821 8.553459 ACATCTAATTATAGTGCCAATGCTAC 57.447 34.615 0.00 0.00 38.71 3.58
794 836 9.944376 GTGATGCCTTATCCTAACATCTAATTA 57.056 33.333 0.00 0.00 38.33 1.40
888 932 7.468631 AAGTTTGCTTAATGGTGACACTGTTAG 60.469 37.037 5.39 0.00 36.66 2.34
939 1097 3.728076 AACTGATCCGTGTATGCGTAT 57.272 42.857 0.00 0.00 0.00 3.06
989 1163 0.667487 CCGTGCCATAGCGATCGATT 60.667 55.000 21.57 8.62 44.31 3.34
1026 1200 1.973812 GGCTGCCCACAGTCCTTTC 60.974 63.158 7.66 0.00 43.03 2.62
1037 1211 2.133641 AACACTTTGGTGGCTGCCC 61.134 57.895 17.53 7.43 46.85 5.36
1050 1224 2.686405 CAGGCACATGCATATCAACACT 59.314 45.455 0.00 0.00 44.36 3.55
1063 1246 2.359107 CAGCGTCACCAGGCACAT 60.359 61.111 0.00 0.00 35.75 3.21
1087 1279 7.431668 GTCTAAAGTATTCGTACCAGATGACAC 59.568 40.741 0.00 0.00 0.00 3.67
1152 1345 9.575783 TTAACTTCTACTCGCAAAAACAAAAAT 57.424 25.926 0.00 0.00 0.00 1.82
1193 1427 8.297426 TGCATACGTCCAAAAACAATACAAATA 58.703 29.630 0.00 0.00 0.00 1.40
1208 1444 2.495669 TCATCTGTTCTGCATACGTCCA 59.504 45.455 0.00 0.00 0.00 4.02
1223 1459 2.289820 CACAGGCATCCGATTTCATCTG 59.710 50.000 0.00 0.00 0.00 2.90
1229 1465 4.780815 TCTTTATCACAGGCATCCGATTT 58.219 39.130 0.00 0.00 0.00 2.17
1230 1466 4.422073 TCTTTATCACAGGCATCCGATT 57.578 40.909 0.00 0.00 0.00 3.34
1416 1670 0.460811 AGCTTCGATCGAGCATGCAA 60.461 50.000 28.66 11.45 0.00 4.08
1495 1749 7.465116 CCATCAAGATCTATTCCTTTATGGGT 58.535 38.462 0.00 0.00 39.07 4.51
1496 1750 7.934855 CCATCAAGATCTATTCCTTTATGGG 57.065 40.000 0.00 0.00 39.07 4.00
1497 1751 6.888632 CCCCATCAAGATCTATTCCTTTATGG 59.111 42.308 0.00 0.00 40.89 2.74
1531 1812 5.897377 ATGGGAAATACACTGTAGCAAAC 57.103 39.130 0.00 0.00 0.00 2.93
1541 1822 5.288472 GCATTCGAAACAATGGGAAATACAC 59.712 40.000 0.00 0.00 34.75 2.90
1543 1824 5.650543 AGCATTCGAAACAATGGGAAATAC 58.349 37.500 0.00 0.00 34.75 1.89
1545 1826 4.220382 TGAGCATTCGAAACAATGGGAAAT 59.780 37.500 0.00 0.00 34.75 2.17
1572 1853 1.613925 TCTTGTGGAGAACCTCTCACG 59.386 52.381 6.05 0.00 45.12 4.35
1589 1870 7.225725 TCAGCCAATTTCAATGGAAAATTCTT 58.774 30.769 0.00 0.00 45.52 2.52
1594 1875 6.771749 ACATTTCAGCCAATTTCAATGGAAAA 59.228 30.769 0.00 0.00 45.52 2.29
1612 1893 7.517614 TGCTGTAAAACCTATTGACATTTCA 57.482 32.000 0.00 0.00 0.00 2.69
1664 5798 1.736681 CTAGACTTTGCTCAGGCTTGC 59.263 52.381 0.00 2.63 39.59 4.01
1665 5799 1.736681 GCTAGACTTTGCTCAGGCTTG 59.263 52.381 0.00 0.00 39.59 4.01
1741 5875 9.645059 GAACCGTCCTACTAGTTTTACTATTTT 57.355 33.333 0.00 0.00 29.08 1.82
1742 5876 8.806146 TGAACCGTCCTACTAGTTTTACTATTT 58.194 33.333 0.00 0.00 29.08 1.40
1743 5877 8.353423 TGAACCGTCCTACTAGTTTTACTATT 57.647 34.615 0.00 0.00 29.08 1.73
1744 5878 7.944729 TGAACCGTCCTACTAGTTTTACTAT 57.055 36.000 0.00 0.00 29.08 2.12
1745 5879 7.309194 GGTTGAACCGTCCTACTAGTTTTACTA 60.309 40.741 0.00 0.00 0.00 1.82
1746 5880 6.450545 GTTGAACCGTCCTACTAGTTTTACT 58.549 40.000 0.00 0.00 0.00 2.24
1747 5881 5.635280 GGTTGAACCGTCCTACTAGTTTTAC 59.365 44.000 0.00 0.00 0.00 2.01
1748 5882 5.304101 TGGTTGAACCGTCCTACTAGTTTTA 59.696 40.000 10.16 0.00 42.58 1.52
1749 5883 4.101430 TGGTTGAACCGTCCTACTAGTTTT 59.899 41.667 10.16 0.00 42.58 2.43
1750 5884 3.642848 TGGTTGAACCGTCCTACTAGTTT 59.357 43.478 10.16 0.00 42.58 2.66
1751 5885 3.233507 TGGTTGAACCGTCCTACTAGTT 58.766 45.455 10.16 0.00 42.58 2.24
1752 5886 2.880443 TGGTTGAACCGTCCTACTAGT 58.120 47.619 10.16 0.00 42.58 2.57
1802 5936 3.514706 AGTCATTGTGCTCTCAGATGACT 59.485 43.478 10.54 10.54 41.40 3.41
1818 5967 1.078709 CCGTCAACGATGCAGTCATT 58.921 50.000 3.71 0.00 43.02 2.57
1830 5979 2.047179 GGGTCTGGCTCCGTCAAC 60.047 66.667 0.00 0.00 0.00 3.18
1917 6066 3.358076 CTTCGCGTCAGTCCCTCCC 62.358 68.421 5.77 0.00 0.00 4.30
1929 6078 1.563655 GATGCATGCTCTCTTCGCG 59.436 57.895 20.33 0.00 0.00 5.87
1944 6093 2.903357 CACTCGGTCCCTGGGATG 59.097 66.667 20.40 14.81 32.73 3.51
1984 6135 2.783288 CCCGGAAGTACGAGGAGGC 61.783 68.421 0.73 0.00 35.47 4.70
1999 6150 1.881973 CATCTTGCATCCCAATACCCG 59.118 52.381 0.00 0.00 31.91 5.28
2000 6151 1.615392 GCATCTTGCATCCCAATACCC 59.385 52.381 0.00 0.00 44.26 3.69
2001 6152 1.267806 CGCATCTTGCATCCCAATACC 59.732 52.381 0.00 0.00 45.36 2.73
2002 6153 1.267806 CCGCATCTTGCATCCCAATAC 59.732 52.381 0.00 0.00 45.36 1.89
2003 6154 1.608055 CCGCATCTTGCATCCCAATA 58.392 50.000 0.00 0.00 45.36 1.90
2004 6155 1.741327 GCCGCATCTTGCATCCCAAT 61.741 55.000 0.00 0.00 45.36 3.16
2026 6177 3.847602 CCTCTGGCTCCAGCTCCG 61.848 72.222 10.99 0.35 43.31 4.63
2038 6189 1.202330 AGGAGATTCCACAGCCTCTG 58.798 55.000 0.00 0.00 39.61 3.35
2039 6190 1.558756 CAAGGAGATTCCACAGCCTCT 59.441 52.381 0.00 0.00 39.61 3.69
2050 6201 4.351874 TTCTTCCGACAACAAGGAGATT 57.648 40.909 0.00 0.00 37.88 2.40
2064 6218 0.940126 CCTCGCATCCATTTCTTCCG 59.060 55.000 0.00 0.00 0.00 4.30
2070 6224 1.838112 TGCTTTCCTCGCATCCATTT 58.162 45.000 0.00 0.00 31.40 2.32
2077 6231 1.806542 GAAGTCATTGCTTTCCTCGCA 59.193 47.619 0.00 0.00 35.22 5.10
2082 6236 0.811281 CGGGGAAGTCATTGCTTTCC 59.189 55.000 8.76 8.76 42.21 3.13
2089 6243 1.991230 CAGACCCGGGGAAGTCATT 59.009 57.895 27.92 0.00 35.38 2.57
2090 6244 2.670148 GCAGACCCGGGGAAGTCAT 61.670 63.158 27.92 0.00 35.38 3.06
2091 6245 3.319198 GCAGACCCGGGGAAGTCA 61.319 66.667 27.92 0.00 35.38 3.41
2095 6249 1.987855 CTACAGCAGACCCGGGGAA 60.988 63.158 27.92 0.00 0.00 3.97
2099 6253 4.514577 CGGCTACAGCAGACCCGG 62.515 72.222 3.24 0.00 44.36 5.73
2100 6254 3.449227 TCGGCTACAGCAGACCCG 61.449 66.667 3.24 0.00 44.36 5.28
2130 6284 3.573491 GGCGAGGGTTGCGTATGC 61.573 66.667 0.00 0.00 43.20 3.14
2131 6285 1.883084 GAGGCGAGGGTTGCGTATG 60.883 63.158 0.00 0.00 0.00 2.39
2132 6286 2.499685 GAGGCGAGGGTTGCGTAT 59.500 61.111 0.00 0.00 0.00 3.06
2138 6292 3.069318 GACGAGGAGGCGAGGGTT 61.069 66.667 0.00 0.00 34.83 4.11
2194 6348 0.532573 TCCCGAGTTCACTGAGATGC 59.467 55.000 0.00 0.00 0.00 3.91
2216 6370 0.752009 TCCTAGCCCTGTACTGAGCG 60.752 60.000 0.60 0.00 0.00 5.03
2221 6375 0.106619 CGACCTCCTAGCCCTGTACT 60.107 60.000 0.00 0.00 0.00 2.73
2248 6405 0.833287 ACATATTGAGGCACGGCTCT 59.167 50.000 19.86 5.07 0.00 4.09
2254 6411 1.312815 GGAGGCACATATTGAGGCAC 58.687 55.000 1.82 0.00 36.07 5.01
2255 6412 0.179048 CGGAGGCACATATTGAGGCA 60.179 55.000 1.82 0.00 36.07 4.75
2274 6431 3.096791 GCAGAAGCATCTCGTGGC 58.903 61.111 0.00 0.00 41.58 5.01
2333 6490 4.923942 ATGCAGATGCCGCCTCCG 62.924 66.667 1.72 0.00 41.18 4.63
2336 6493 4.923942 CCGATGCAGATGCCGCCT 62.924 66.667 1.72 0.00 41.18 5.52
2341 6498 1.970114 CCATCCCCGATGCAGATGC 60.970 63.158 7.24 0.00 38.59 3.91
2343 6500 2.407440 CTGCCATCCCCGATGCAGAT 62.407 60.000 15.17 0.00 41.72 2.90
2352 6509 3.936772 TTTCACCGCTGCCATCCCC 62.937 63.158 0.00 0.00 0.00 4.81
2353 6510 1.754234 ATTTCACCGCTGCCATCCC 60.754 57.895 0.00 0.00 0.00 3.85
2354 6511 1.315257 ACATTTCACCGCTGCCATCC 61.315 55.000 0.00 0.00 0.00 3.51
2355 6512 0.099436 GACATTTCACCGCTGCCATC 59.901 55.000 0.00 0.00 0.00 3.51
2356 6513 0.608856 TGACATTTCACCGCTGCCAT 60.609 50.000 0.00 0.00 0.00 4.40
2357 6514 1.228094 TGACATTTCACCGCTGCCA 60.228 52.632 0.00 0.00 0.00 4.92
2358 6515 0.955428 TCTGACATTTCACCGCTGCC 60.955 55.000 0.00 0.00 0.00 4.85
2359 6516 0.874390 TTCTGACATTTCACCGCTGC 59.126 50.000 0.00 0.00 0.00 5.25
2360 6517 4.631377 TCTTATTCTGACATTTCACCGCTG 59.369 41.667 0.00 0.00 0.00 5.18
2361 6518 4.832248 TCTTATTCTGACATTTCACCGCT 58.168 39.130 0.00 0.00 0.00 5.52
2362 6519 4.034510 CCTCTTATTCTGACATTTCACCGC 59.965 45.833 0.00 0.00 0.00 5.68
2363 6520 5.178797 ACCTCTTATTCTGACATTTCACCG 58.821 41.667 0.00 0.00 0.00 4.94
2364 6521 7.278868 CACTACCTCTTATTCTGACATTTCACC 59.721 40.741 0.00 0.00 0.00 4.02
2365 6522 8.035394 TCACTACCTCTTATTCTGACATTTCAC 58.965 37.037 0.00 0.00 0.00 3.18
2366 6523 8.134202 TCACTACCTCTTATTCTGACATTTCA 57.866 34.615 0.00 0.00 0.00 2.69
2367 6524 9.606631 ATTCACTACCTCTTATTCTGACATTTC 57.393 33.333 0.00 0.00 0.00 2.17
2368 6525 9.388506 CATTCACTACCTCTTATTCTGACATTT 57.611 33.333 0.00 0.00 0.00 2.32
2369 6526 7.497249 GCATTCACTACCTCTTATTCTGACATT 59.503 37.037 0.00 0.00 0.00 2.71
2370 6527 6.989169 GCATTCACTACCTCTTATTCTGACAT 59.011 38.462 0.00 0.00 0.00 3.06
2371 6528 6.070824 TGCATTCACTACCTCTTATTCTGACA 60.071 38.462 0.00 0.00 0.00 3.58
2372 6529 6.341316 TGCATTCACTACCTCTTATTCTGAC 58.659 40.000 0.00 0.00 0.00 3.51
2373 6530 6.544928 TGCATTCACTACCTCTTATTCTGA 57.455 37.500 0.00 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.