Multiple sequence alignment - TraesCS7D01G090200

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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 TraesCS7D01G090200 chr7D 100.000 2410 0 0 1 2410 54309584 54311993 0.000000e+00 4451.0
1 TraesCS7D01G090200 chr7D 91.487 1116 70 8 1243 2357 54319617 54320708 0.000000e+00 1511.0
2 TraesCS7D01G090200 chr7D 90.000 1120 67 8 1238 2357 54353704 54354778 0.000000e+00 1406.0
3 TraesCS7D01G090200 chr7D 93.823 858 49 4 1257 2114 54336542 54337395 0.000000e+00 1288.0
4 TraesCS7D01G090200 chr7D 86.807 379 35 7 851 1229 54335954 54336317 2.230000e-110 409.0
5 TraesCS7D01G090200 chr7D 86.352 381 29 12 859 1229 54353115 54353482 6.240000e-106 394.0
6 TraesCS7D01G090200 chr7D 85.052 388 35 12 851 1230 54319035 54319407 8.140000e-100 374.0
7 TraesCS7D01G090200 chr7D 80.000 265 30 17 550 800 54335687 54335942 8.860000e-40 174.0
8 TraesCS7D01G090200 chr7D 94.898 98 5 0 550 647 54318769 54318866 1.150000e-33 154.0
9 TraesCS7D01G090200 chr7A 92.186 1139 61 5 1230 2365 57864302 57865415 0.000000e+00 1585.0
10 TraesCS7D01G090200 chr7A 91.166 1132 64 10 1238 2365 57802903 57804002 0.000000e+00 1504.0
11 TraesCS7D01G090200 chr7A 87.500 384 31 7 851 1230 57863748 57864118 6.160000e-116 427.0
12 TraesCS7D01G090200 chr7A 84.833 389 35 14 852 1228 57802324 57802700 1.050000e-98 370.0
13 TraesCS7D01G090200 chr7A 94.413 179 9 1 2 179 57800627 57800805 8.490000e-70 274.0
14 TraesCS7D01G090200 chr7A 86.425 221 13 10 176 395 57801879 57802083 2.410000e-55 226.0
15 TraesCS7D01G090200 chr7A 85.281 231 13 9 175 392 57863261 57863483 4.030000e-53 219.0
16 TraesCS7D01G090200 chr7A 79.615 260 40 13 550 800 57863481 57863736 8.860000e-40 174.0
17 TraesCS7D01G090200 chr7A 80.645 248 18 17 568 800 57802079 57802311 5.330000e-37 165.0
18 TraesCS7D01G090200 chrUn 89.396 1292 82 24 863 2119 49139496 49140767 0.000000e+00 1576.0
19 TraesCS7D01G090200 chrUn 89.241 1292 84 24 863 2119 49112657 49113928 0.000000e+00 1565.0
20 TraesCS7D01G090200 chrUn 89.112 1295 86 24 863 2122 384625165 384623891 0.000000e+00 1559.0
21 TraesCS7D01G090200 chrUn 93.213 221 12 3 173 392 49112167 49112385 2.990000e-84 322.0
22 TraesCS7D01G090200 chrUn 93.213 221 12 3 173 392 329825482 329825700 2.990000e-84 322.0
23 TraesCS7D01G090200 chrUn 93.213 221 12 3 173 392 329829657 329829439 2.990000e-84 322.0
24 TraesCS7D01G090200 chrUn 88.742 151 13 3 1 151 49111863 49112009 5.290000e-42 182.0
25 TraesCS7D01G090200 chrUn 88.742 151 13 3 1 151 329825178 329825324 5.290000e-42 182.0
26 TraesCS7D01G090200 chrUn 88.312 154 14 3 1 154 329829961 329829812 5.290000e-42 182.0
27 TraesCS7D01G090200 chrUn 93.182 88 5 1 713 800 49112552 49112638 6.990000e-26 128.0
28 TraesCS7D01G090200 chrUn 93.182 88 5 1 713 800 49139391 49139477 6.990000e-26 128.0
29 TraesCS7D01G090200 chrUn 93.182 88 5 1 713 800 329825867 329825953 6.990000e-26 128.0
30 TraesCS7D01G090200 chrUn 93.182 88 5 1 713 800 329829272 329829186 6.990000e-26 128.0
31 TraesCS7D01G090200 chrUn 97.727 44 1 0 757 800 384625227 384625184 2.570000e-10 76.8
32 TraesCS7D01G090200 chr4A 91.561 865 69 4 1229 2091 669898177 669899039 0.000000e+00 1190.0
33 TraesCS7D01G090200 chr4A 85.523 373 43 9 859 1229 669897641 669898004 1.750000e-101 379.0
34 TraesCS7D01G090200 chr4A 93.182 88 5 1 713 800 669891806 669891892 6.990000e-26 128.0
35 TraesCS7D01G090200 chr7B 91.358 162 14 0 387 548 650608928 650609089 3.120000e-54 222.0
36 TraesCS7D01G090200 chr7B 90.798 163 15 0 389 551 332340164 332340002 4.030000e-53 219.0
37 TraesCS7D01G090200 chr7B 89.571 163 17 0 386 548 560281858 560282020 8.730000e-50 207.0
38 TraesCS7D01G090200 chr3D 90.909 165 15 0 390 554 6667437 6667273 3.120000e-54 222.0
39 TraesCS7D01G090200 chr6B 90.184 163 16 0 386 548 60359712 60359874 1.880000e-51 213.0
40 TraesCS7D01G090200 chr5D 89.157 166 18 0 386 551 351556203 351556038 8.730000e-50 207.0
41 TraesCS7D01G090200 chr5D 89.157 166 18 0 386 551 475212875 475212710 8.730000e-50 207.0
42 TraesCS7D01G090200 chr1A 89.157 166 18 0 386 551 551944924 551944759 8.730000e-50 207.0
43 TraesCS7D01G090200 chr1A 90.000 50 1 1 550 599 531366615 531366660 7.190000e-06 62.1
44 TraesCS7D01G090200 chr4B 89.157 166 17 1 386 551 600094301 600094137 3.140000e-49 206.0
45 TraesCS7D01G090200 chr1D 88.000 50 2 1 550 599 433060190 433060235 3.350000e-04 56.5


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 TraesCS7D01G090200 chr7D 54309584 54311993 2409 False 4451.000000 4451 100.000000 1 2410 1 chr7D.!!$F1 2409
1 TraesCS7D01G090200 chr7D 54353115 54354778 1663 False 900.000000 1406 88.176000 859 2357 2 chr7D.!!$F4 1498
2 TraesCS7D01G090200 chr7D 54318769 54320708 1939 False 679.666667 1511 90.479000 550 2357 3 chr7D.!!$F2 1807
3 TraesCS7D01G090200 chr7D 54335687 54337395 1708 False 623.666667 1288 86.876667 550 2114 3 chr7D.!!$F3 1564
4 TraesCS7D01G090200 chr7A 57863261 57865415 2154 False 601.250000 1585 86.145500 175 2365 4 chr7A.!!$F2 2190
5 TraesCS7D01G090200 chr7A 57800627 57804002 3375 False 507.800000 1504 87.496400 2 2365 5 chr7A.!!$F1 2363
6 TraesCS7D01G090200 chrUn 49139391 49140767 1376 False 852.000000 1576 91.289000 713 2119 2 chrUn.!!$F2 1406
7 TraesCS7D01G090200 chrUn 384623891 384625227 1336 True 817.900000 1559 93.419500 757 2122 2 chrUn.!!$R2 1365
8 TraesCS7D01G090200 chrUn 49111863 49113928 2065 False 549.250000 1565 91.094500 1 2119 4 chrUn.!!$F1 2118
9 TraesCS7D01G090200 chrUn 329825178 329825953 775 False 210.666667 322 91.712333 1 800 3 chrUn.!!$F3 799
10 TraesCS7D01G090200 chrUn 329829186 329829961 775 True 210.666667 322 91.569000 1 800 3 chrUn.!!$R1 799
11 TraesCS7D01G090200 chr4A 669897641 669899039 1398 False 784.500000 1190 88.542000 859 2091 2 chr4A.!!$F2 1232

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
328 1417 0.034616 ATCCGCTGCTTGATCTAGCC 59.965 55.0 23.51 10.31 40.49 3.93 F
954 2120 0.036294 GACCAGCTACCAACCACCTC 60.036 60.0 0.00 0.00 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1300 2745 0.103208 CGTCACAGCCCTAGGTGATC 59.897 60.0 8.29 0.00 44.94 2.92 R
2281 3752 1.261989 GCAGCGCATTTACACATGTG 58.738 50.0 24.25 24.25 37.66 3.21 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
72 73 2.035066 GTCAGCAGTTTCAGCCAACAAT 59.965 45.455 0.00 0.00 0.00 2.71
143 145 4.725359 ACGTTCGCAAGTGTTTACTTTTT 58.275 34.783 0.00 0.00 44.57 1.94
256 1340 3.692101 ACACACACCGACAGAAATGAAAA 59.308 39.130 0.00 0.00 0.00 2.29
292 1380 0.602905 ACTTCTCAACGGCCGGAAAG 60.603 55.000 31.76 23.90 0.00 2.62
328 1417 0.034616 ATCCGCTGCTTGATCTAGCC 59.965 55.000 23.51 10.31 40.49 3.93
347 1436 9.930693 ATCTAGCCACTATTACTACAAAATAGC 57.069 33.333 3.38 0.00 39.51 2.97
348 1437 9.144298 TCTAGCCACTATTACTACAAAATAGCT 57.856 33.333 0.00 0.00 39.51 3.32
354 1443 9.119329 CACTATTACTACAAAATAGCTAGCTCG 57.881 37.037 23.26 8.41 39.51 5.03
355 1444 9.064706 ACTATTACTACAAAATAGCTAGCTCGA 57.935 33.333 23.26 4.77 39.51 4.04
392 1490 3.133901 TGACCGGTTCATGCATATGTACT 59.866 43.478 9.42 0.00 35.60 2.73
393 1491 3.728845 ACCGGTTCATGCATATGTACTC 58.271 45.455 0.00 0.00 35.60 2.59
394 1492 3.067106 CCGGTTCATGCATATGTACTCC 58.933 50.000 0.00 0.76 35.60 3.85
395 1493 3.067106 CGGTTCATGCATATGTACTCCC 58.933 50.000 0.00 0.00 35.60 4.30
396 1494 3.244215 CGGTTCATGCATATGTACTCCCT 60.244 47.826 0.00 0.00 35.60 4.20
397 1495 4.319177 GGTTCATGCATATGTACTCCCTC 58.681 47.826 0.00 0.00 35.60 4.30
398 1496 4.319177 GTTCATGCATATGTACTCCCTCC 58.681 47.826 0.00 0.00 33.36 4.30
399 1497 2.562738 TCATGCATATGTACTCCCTCCG 59.437 50.000 0.00 0.00 35.73 4.63
400 1498 2.082140 TGCATATGTACTCCCTCCGT 57.918 50.000 4.29 0.00 0.00 4.69
401 1499 2.394632 TGCATATGTACTCCCTCCGTT 58.605 47.619 4.29 0.00 0.00 4.44
402 1500 2.364324 TGCATATGTACTCCCTCCGTTC 59.636 50.000 4.29 0.00 0.00 3.95
403 1501 2.628657 GCATATGTACTCCCTCCGTTCT 59.371 50.000 4.29 0.00 0.00 3.01
404 1502 3.069729 GCATATGTACTCCCTCCGTTCTT 59.930 47.826 4.29 0.00 0.00 2.52
405 1503 4.280174 GCATATGTACTCCCTCCGTTCTTA 59.720 45.833 4.29 0.00 0.00 2.10
406 1504 5.221382 GCATATGTACTCCCTCCGTTCTTAA 60.221 44.000 4.29 0.00 0.00 1.85
407 1505 6.684613 GCATATGTACTCCCTCCGTTCTTAAA 60.685 42.308 4.29 0.00 0.00 1.52
408 1506 5.952347 ATGTACTCCCTCCGTTCTTAAAT 57.048 39.130 0.00 0.00 0.00 1.40
409 1507 8.582437 CATATGTACTCCCTCCGTTCTTAAATA 58.418 37.037 0.00 0.00 0.00 1.40
410 1508 7.613551 ATGTACTCCCTCCGTTCTTAAATAT 57.386 36.000 0.00 0.00 0.00 1.28
411 1509 8.716674 ATGTACTCCCTCCGTTCTTAAATATA 57.283 34.615 0.00 0.00 0.00 0.86
412 1510 8.537728 TGTACTCCCTCCGTTCTTAAATATAA 57.462 34.615 0.00 0.00 0.00 0.98
413 1511 8.636213 TGTACTCCCTCCGTTCTTAAATATAAG 58.364 37.037 0.00 0.00 39.97 1.73
414 1512 7.672122 ACTCCCTCCGTTCTTAAATATAAGT 57.328 36.000 0.00 0.00 39.65 2.24
415 1513 7.724287 ACTCCCTCCGTTCTTAAATATAAGTC 58.276 38.462 0.00 0.00 39.65 3.01
416 1514 7.564292 ACTCCCTCCGTTCTTAAATATAAGTCT 59.436 37.037 0.00 0.00 39.65 3.24
417 1515 8.315220 TCCCTCCGTTCTTAAATATAAGTCTT 57.685 34.615 0.00 0.00 39.65 3.01
418 1516 8.765517 TCCCTCCGTTCTTAAATATAAGTCTTT 58.234 33.333 0.00 0.00 39.65 2.52
419 1517 9.392259 CCCTCCGTTCTTAAATATAAGTCTTTT 57.608 33.333 0.00 0.00 39.65 2.27
443 1541 9.701098 TTTTAGACATTTCACTATGAACTACGT 57.299 29.630 0.00 0.00 35.89 3.57
445 1543 9.778993 TTAGACATTTCACTATGAACTACGTAC 57.221 33.333 0.00 0.00 35.89 3.67
446 1544 6.965500 AGACATTTCACTATGAACTACGTACG 59.035 38.462 15.01 15.01 35.89 3.67
447 1545 6.845302 ACATTTCACTATGAACTACGTACGA 58.155 36.000 24.41 4.69 35.89 3.43
448 1546 7.307694 ACATTTCACTATGAACTACGTACGAA 58.692 34.615 24.41 0.02 35.89 3.85
449 1547 7.484007 ACATTTCACTATGAACTACGTACGAAG 59.516 37.037 24.41 7.95 35.89 3.79
450 1548 6.486253 TTCACTATGAACTACGTACGAAGT 57.514 37.500 24.41 1.48 36.44 3.01
451 1549 7.595311 TTCACTATGAACTACGTACGAAGTA 57.405 36.000 24.41 2.81 34.64 2.24
452 1550 8.028540 TTCACTATGAACTACGTACGAAGTAA 57.971 34.615 24.41 2.98 36.63 2.24
453 1551 8.503196 TTCACTATGAACTACGTACGAAGTAAA 58.497 33.333 24.41 3.54 36.63 2.01
469 1567 7.848491 ACGAAGTAAAATGAGTGAACTTACAC 58.152 34.615 0.00 0.00 41.94 2.90
512 1610 7.828508 ACATCCGTATATAGTTGGTAGTGAA 57.171 36.000 0.00 0.00 0.00 3.18
513 1611 8.241497 ACATCCGTATATAGTTGGTAGTGAAA 57.759 34.615 0.00 0.00 0.00 2.69
514 1612 8.867097 ACATCCGTATATAGTTGGTAGTGAAAT 58.133 33.333 0.00 0.00 0.00 2.17
515 1613 9.355215 CATCCGTATATAGTTGGTAGTGAAATC 57.645 37.037 0.00 0.00 0.00 2.17
516 1614 8.701908 TCCGTATATAGTTGGTAGTGAAATCT 57.298 34.615 0.00 0.00 0.00 2.40
517 1615 9.139734 TCCGTATATAGTTGGTAGTGAAATCTT 57.860 33.333 0.00 0.00 0.00 2.40
518 1616 9.760077 CCGTATATAGTTGGTAGTGAAATCTTT 57.240 33.333 0.00 0.00 0.00 2.52
541 1639 9.382244 CTTTAAAAAGACTTACATTGAGGAACG 57.618 33.333 0.00 0.00 38.28 3.95
542 1640 5.941948 AAAAGACTTACATTGAGGAACGG 57.058 39.130 0.00 0.00 0.00 4.44
543 1641 4.884668 AAGACTTACATTGAGGAACGGA 57.115 40.909 0.00 0.00 0.00 4.69
544 1642 4.457834 AGACTTACATTGAGGAACGGAG 57.542 45.455 0.00 0.00 0.00 4.63
545 1643 3.195825 AGACTTACATTGAGGAACGGAGG 59.804 47.826 0.00 0.00 0.00 4.30
546 1644 2.236395 ACTTACATTGAGGAACGGAGGG 59.764 50.000 0.00 0.00 0.00 4.30
547 1645 2.241281 TACATTGAGGAACGGAGGGA 57.759 50.000 0.00 0.00 0.00 4.20
548 1646 1.584724 ACATTGAGGAACGGAGGGAT 58.415 50.000 0.00 0.00 0.00 3.85
567 1665 3.378427 GGATTACATCAGCCAAGTCAACC 59.622 47.826 0.00 0.00 0.00 3.77
568 1666 3.500448 TTACATCAGCCAAGTCAACCA 57.500 42.857 0.00 0.00 0.00 3.67
569 1667 1.901591 ACATCAGCCAAGTCAACCAG 58.098 50.000 0.00 0.00 0.00 4.00
631 1749 5.825593 AGAAATCAGGGTCAGTGAACTAA 57.174 39.130 8.36 0.00 0.00 2.24
647 1765 8.621286 CAGTGAACTAATGTTTGTTACTCCTTT 58.379 33.333 0.00 0.00 36.39 3.11
648 1766 9.841295 AGTGAACTAATGTTTGTTACTCCTTTA 57.159 29.630 0.00 0.00 36.39 1.85
649 1767 9.874215 GTGAACTAATGTTTGTTACTCCTTTAC 57.126 33.333 0.00 0.00 36.39 2.01
650 1768 9.841295 TGAACTAATGTTTGTTACTCCTTTACT 57.159 29.630 0.00 0.00 36.39 2.24
696 1817 0.460284 ATCATCAACGACGCCCTGTC 60.460 55.000 0.00 0.00 44.53 3.51
697 1818 1.079819 CATCAACGACGCCCTGTCT 60.080 57.895 0.00 0.00 45.87 3.41
726 1872 2.787473 TCTCGGTGAGCCAATTGAAT 57.213 45.000 7.12 0.00 34.09 2.57
733 1879 2.744202 GTGAGCCAATTGAATGACGAGT 59.256 45.455 7.12 0.00 0.00 4.18
749 1895 2.108278 GAGTGGTGGCAACTACCGGT 62.108 60.000 13.98 13.98 38.50 5.28
818 1968 9.602568 AATCATTGATAATTTTTAGCACATGCA 57.397 25.926 6.64 0.00 45.16 3.96
819 1969 9.772973 ATCATTGATAATTTTTAGCACATGCAT 57.227 25.926 6.64 0.00 45.16 3.96
820 1970 9.036671 TCATTGATAATTTTTAGCACATGCATG 57.963 29.630 25.09 25.09 45.16 4.06
821 1971 7.773864 TTGATAATTTTTAGCACATGCATGG 57.226 32.000 29.41 19.00 45.16 3.66
822 1972 5.754406 TGATAATTTTTAGCACATGCATGGC 59.246 36.000 29.41 26.51 45.16 4.40
823 1973 3.613494 ATTTTTAGCACATGCATGGCA 57.387 38.095 29.62 18.52 45.16 4.92
824 1974 3.397849 TTTTTAGCACATGCATGGCAA 57.602 38.095 29.62 21.61 43.62 4.52
825 1975 2.367030 TTTAGCACATGCATGGCAAC 57.633 45.000 29.62 18.00 43.62 4.17
826 1976 1.254954 TTAGCACATGCATGGCAACA 58.745 45.000 29.62 17.69 43.62 3.33
844 1994 8.916628 TGGCAACATATGTATACACAACATAT 57.083 30.769 9.21 0.00 46.51 1.78
882 2040 8.467598 GTCTTCGAATGCCCATCTATATAAGTA 58.532 37.037 0.00 0.00 0.00 2.24
883 2041 8.687242 TCTTCGAATGCCCATCTATATAAGTAG 58.313 37.037 0.00 0.00 0.00 2.57
884 2042 7.956328 TCGAATGCCCATCTATATAAGTAGT 57.044 36.000 0.00 0.00 0.00 2.73
903 2061 4.625800 GCTTCCTGCTCGAACCAT 57.374 55.556 0.00 0.00 38.95 3.55
904 2062 3.760693 GCTTCCTGCTCGAACCATA 57.239 52.632 0.00 0.00 38.95 2.74
905 2063 1.576356 GCTTCCTGCTCGAACCATAG 58.424 55.000 0.00 0.00 38.95 2.23
914 2080 0.036483 TCGAACCATAGCAGCAGCAA 60.036 50.000 3.17 0.00 45.49 3.91
928 2094 2.042831 AGCAAGCATTCTCCACGCC 61.043 57.895 0.00 0.00 0.00 5.68
937 2103 1.945354 TTCTCCACGCCCTGATCGAC 61.945 60.000 0.00 0.00 0.00 4.20
940 2106 2.202797 CACGCCCTGATCGACCAG 60.203 66.667 0.00 0.00 0.00 4.00
943 2109 2.490148 CGCCCTGATCGACCAGCTA 61.490 63.158 0.00 0.00 32.97 3.32
947 2113 0.824109 CCTGATCGACCAGCTACCAA 59.176 55.000 0.00 0.00 32.97 3.67
949 2115 0.535335 TGATCGACCAGCTACCAACC 59.465 55.000 0.00 0.00 0.00 3.77
950 2116 0.535335 GATCGACCAGCTACCAACCA 59.465 55.000 0.00 0.00 0.00 3.67
951 2117 0.249398 ATCGACCAGCTACCAACCAC 59.751 55.000 0.00 0.00 0.00 4.16
952 2118 1.375523 CGACCAGCTACCAACCACC 60.376 63.158 0.00 0.00 0.00 4.61
953 2119 1.827399 CGACCAGCTACCAACCACCT 61.827 60.000 0.00 0.00 0.00 4.00
954 2120 0.036294 GACCAGCTACCAACCACCTC 60.036 60.000 0.00 0.00 0.00 3.85
963 2131 3.493767 ACCAACCACCTCTCTCTTTTC 57.506 47.619 0.00 0.00 0.00 2.29
972 2140 5.642919 CCACCTCTCTCTTTTCTCAATCTTG 59.357 44.000 0.00 0.00 0.00 3.02
1005 2192 1.821136 AGCTAGCTTGAAACAATGGCC 59.179 47.619 12.68 0.00 0.00 5.36
1259 2704 9.991388 AATAAATTGCAATGAAAACATGTATGC 57.009 25.926 13.82 4.39 0.00 3.14
1260 2705 5.705813 ATTGCAATGAAAACATGTATGCG 57.294 34.783 12.09 0.00 35.18 4.73
1262 2707 3.919197 TGCAATGAAAACATGTATGCGTG 59.081 39.130 0.00 0.95 35.18 5.34
1299 2744 0.101040 TTTTGTCGAGTCGTCGGTGT 59.899 50.000 13.12 0.00 46.80 4.16
1300 2745 0.593008 TTTGTCGAGTCGTCGGTGTG 60.593 55.000 13.12 0.00 46.80 3.82
1301 2746 1.438562 TTGTCGAGTCGTCGGTGTGA 61.439 55.000 13.12 0.00 46.80 3.58
1652 3098 2.599281 TCGTCAAGGGCCTCGACA 60.599 61.111 23.65 8.81 0.00 4.35
1653 3099 2.204461 TCGTCAAGGGCCTCGACAA 61.204 57.895 23.65 2.75 0.00 3.18
1879 3325 3.005050 AGCAGTACTACAACAACGTGCTA 59.995 43.478 0.00 0.00 38.23 3.49
1946 3392 2.680352 AGACGGCGAGGATGGTGT 60.680 61.111 16.62 0.00 0.00 4.16
2126 3594 0.889994 GTGCATGCATGGTGAAGGAA 59.110 50.000 25.64 0.00 0.00 3.36
2127 3595 1.135199 GTGCATGCATGGTGAAGGAAG 60.135 52.381 25.64 0.00 0.00 3.46
2153 3621 4.022068 TCCATCTCCATTGTTTGCTTTCAC 60.022 41.667 0.00 0.00 0.00 3.18
2183 3651 4.720530 CGAGTTACCGCTGTAAAGTTTT 57.279 40.909 1.99 0.00 38.62 2.43
2184 3652 5.086888 CGAGTTACCGCTGTAAAGTTTTT 57.913 39.130 1.99 0.00 38.62 1.94
2239 3709 7.201496 GCATCCATCATTGTTGTCATTTCTTTC 60.201 37.037 0.00 0.00 0.00 2.62
2246 3717 9.743057 TCATTGTTGTCATTTCTTTCGTTATTT 57.257 25.926 0.00 0.00 0.00 1.40
2274 3745 6.080406 GGTTCAATTCTCGTCAACTGAATTC 58.920 40.000 0.00 0.00 38.05 2.17
2281 3752 4.750098 TCTCGTCAACTGAATTCTTTGTCC 59.250 41.667 7.05 5.30 0.00 4.02
2301 3772 0.179192 ACATGTGTAAATGCGCTGCG 60.179 50.000 19.17 19.17 0.00 5.18
2365 3836 7.840342 TTGCTGTAACATGTTTTGAACAAAT 57.160 28.000 17.78 0.00 45.86 2.32
2366 3837 7.840342 TGCTGTAACATGTTTTGAACAAATT 57.160 28.000 17.78 0.00 45.86 1.82
2367 3838 7.682824 TGCTGTAACATGTTTTGAACAAATTG 58.317 30.769 17.78 4.39 45.86 2.32
2368 3839 7.125113 GCTGTAACATGTTTTGAACAAATTGG 58.875 34.615 17.78 4.05 45.86 3.16
2369 3840 7.201600 GCTGTAACATGTTTTGAACAAATTGGT 60.202 33.333 17.78 0.00 45.86 3.67
2370 3841 8.190888 TGTAACATGTTTTGAACAAATTGGTC 57.809 30.769 17.78 3.69 45.86 4.02
2371 3842 5.964887 ACATGTTTTGAACAAATTGGTCG 57.035 34.783 6.54 0.00 45.86 4.79
2372 3843 5.415221 ACATGTTTTGAACAAATTGGTCGT 58.585 33.333 6.54 0.00 45.86 4.34
2373 3844 5.872070 ACATGTTTTGAACAAATTGGTCGTT 59.128 32.000 6.54 0.00 45.86 3.85
2374 3845 5.769967 TGTTTTGAACAAATTGGTCGTTG 57.230 34.783 6.54 0.00 36.73 4.10
2375 3846 4.092091 TGTTTTGAACAAATTGGTCGTTGC 59.908 37.500 6.54 0.00 36.73 4.17
2376 3847 2.500509 TGAACAAATTGGTCGTTGCC 57.499 45.000 6.54 0.00 36.73 4.52
2377 3848 1.268794 TGAACAAATTGGTCGTTGCCG 60.269 47.619 6.54 0.00 36.73 5.69
2378 3849 1.002251 GAACAAATTGGTCGTTGCCGA 60.002 47.619 0.00 0.00 41.73 5.54
2379 3850 0.591170 ACAAATTGGTCGTTGCCGAG 59.409 50.000 0.00 0.00 45.26 4.63
2380 3851 0.871722 CAAATTGGTCGTTGCCGAGA 59.128 50.000 0.00 0.00 45.26 4.04
2381 3852 1.135972 CAAATTGGTCGTTGCCGAGAG 60.136 52.381 0.00 0.00 45.26 3.20
2382 3853 0.034896 AATTGGTCGTTGCCGAGAGT 59.965 50.000 0.00 0.00 45.26 3.24
2383 3854 0.389948 ATTGGTCGTTGCCGAGAGTC 60.390 55.000 0.00 0.00 45.26 3.36
2384 3855 1.740332 TTGGTCGTTGCCGAGAGTCA 61.740 55.000 0.00 0.00 45.26 3.41
2385 3856 1.006571 GGTCGTTGCCGAGAGTCAA 60.007 57.895 0.00 0.00 45.26 3.18
2386 3857 0.599204 GGTCGTTGCCGAGAGTCAAA 60.599 55.000 0.00 0.00 45.26 2.69
2387 3858 1.429463 GTCGTTGCCGAGAGTCAAAT 58.571 50.000 0.00 0.00 45.26 2.32
2388 3859 1.390463 GTCGTTGCCGAGAGTCAAATC 59.610 52.381 0.00 0.00 45.26 2.17
2389 3860 1.000394 TCGTTGCCGAGAGTCAAATCA 60.000 47.619 0.00 0.00 38.40 2.57
2390 3861 2.002586 CGTTGCCGAGAGTCAAATCAT 58.997 47.619 0.00 0.00 35.63 2.45
2391 3862 2.222886 CGTTGCCGAGAGTCAAATCATG 60.223 50.000 0.00 0.00 35.63 3.07
2392 3863 2.028420 TGCCGAGAGTCAAATCATGG 57.972 50.000 0.00 0.00 0.00 3.66
2393 3864 1.554617 TGCCGAGAGTCAAATCATGGA 59.445 47.619 0.00 0.00 0.00 3.41
2394 3865 2.027285 TGCCGAGAGTCAAATCATGGAA 60.027 45.455 0.00 0.00 0.00 3.53
2395 3866 2.611292 GCCGAGAGTCAAATCATGGAAG 59.389 50.000 0.00 0.00 0.00 3.46
2396 3867 2.611292 CCGAGAGTCAAATCATGGAAGC 59.389 50.000 0.00 0.00 0.00 3.86
2397 3868 3.529533 CGAGAGTCAAATCATGGAAGCT 58.470 45.455 0.00 0.00 0.00 3.74
2398 3869 3.555139 CGAGAGTCAAATCATGGAAGCTC 59.445 47.826 0.00 0.00 0.00 4.09
2399 3870 3.529533 AGAGTCAAATCATGGAAGCTCG 58.470 45.455 0.00 0.00 0.00 5.03
2400 3871 3.196469 AGAGTCAAATCATGGAAGCTCGA 59.804 43.478 0.00 0.00 0.00 4.04
2401 3872 3.265791 AGTCAAATCATGGAAGCTCGAC 58.734 45.455 0.00 0.00 0.00 4.20
2402 3873 3.002791 GTCAAATCATGGAAGCTCGACA 58.997 45.455 0.00 0.00 0.00 4.35
2403 3874 3.436704 GTCAAATCATGGAAGCTCGACAA 59.563 43.478 0.00 0.00 0.00 3.18
2404 3875 4.071423 TCAAATCATGGAAGCTCGACAAA 58.929 39.130 0.00 0.00 0.00 2.83
2405 3876 4.518590 TCAAATCATGGAAGCTCGACAAAA 59.481 37.500 0.00 0.00 0.00 2.44
2406 3877 5.009510 TCAAATCATGGAAGCTCGACAAAAA 59.990 36.000 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 1.024271 TGTTGGCTGAAACTGCTGAC 58.976 50.000 0.00 0.00 0.00 3.51
72 73 5.705441 CAGCAAAGAAGGTTTCCTGTATGTA 59.295 40.000 0.00 0.00 32.13 2.29
143 145 7.333528 CAAATAGCTTGCCCAGACTTATTTA 57.666 36.000 0.00 0.00 0.00 1.40
328 1417 9.119329 CGAGCTAGCTATTTTGTAGTAATAGTG 57.881 37.037 19.38 0.00 37.71 2.74
346 1435 1.025812 TAAGCTGGACTCGAGCTAGC 58.974 55.000 26.12 26.12 46.32 3.42
347 1436 2.017782 TGTAAGCTGGACTCGAGCTAG 58.982 52.381 15.21 13.41 46.32 3.42
348 1437 1.743958 GTGTAAGCTGGACTCGAGCTA 59.256 52.381 15.21 2.44 46.32 3.32
354 1443 2.622436 GGTCATGTGTAAGCTGGACTC 58.378 52.381 0.00 0.00 0.00 3.36
355 1444 1.066858 CGGTCATGTGTAAGCTGGACT 60.067 52.381 0.00 0.00 0.00 3.85
392 1490 7.909485 AGACTTATATTTAAGAACGGAGGGA 57.091 36.000 9.58 0.00 38.56 4.20
393 1491 8.959705 AAAGACTTATATTTAAGAACGGAGGG 57.040 34.615 9.58 0.00 38.56 4.30
417 1515 9.701098 ACGTAGTTCATAGTGAAATGTCTAAAA 57.299 29.630 3.21 0.00 37.78 1.52
419 1517 9.778993 GTACGTAGTTCATAGTGAAATGTCTAA 57.221 33.333 0.00 0.00 37.78 2.10
420 1518 8.118607 CGTACGTAGTTCATAGTGAAATGTCTA 58.881 37.037 7.22 0.00 37.78 2.59
421 1519 6.965500 CGTACGTAGTTCATAGTGAAATGTCT 59.035 38.462 7.22 0.00 37.78 3.41
422 1520 6.963242 TCGTACGTAGTTCATAGTGAAATGTC 59.037 38.462 16.05 0.00 37.78 3.06
423 1521 6.845302 TCGTACGTAGTTCATAGTGAAATGT 58.155 36.000 16.05 0.13 37.78 2.71
424 1522 7.484007 ACTTCGTACGTAGTTCATAGTGAAATG 59.516 37.037 20.20 0.00 37.78 2.32
425 1523 7.533426 ACTTCGTACGTAGTTCATAGTGAAAT 58.467 34.615 20.20 0.00 37.78 2.17
426 1524 6.902341 ACTTCGTACGTAGTTCATAGTGAAA 58.098 36.000 20.20 0.00 37.78 2.69
427 1525 6.486253 ACTTCGTACGTAGTTCATAGTGAA 57.514 37.500 20.20 0.00 37.78 3.18
428 1526 7.595311 TTACTTCGTACGTAGTTCATAGTGA 57.405 36.000 28.61 8.97 37.78 3.41
429 1527 8.659569 TTTTACTTCGTACGTAGTTCATAGTG 57.340 34.615 28.61 2.08 37.78 2.74
430 1528 9.282247 CATTTTACTTCGTACGTAGTTCATAGT 57.718 33.333 28.61 15.04 37.78 2.12
431 1529 9.494479 TCATTTTACTTCGTACGTAGTTCATAG 57.506 33.333 28.61 17.39 37.78 2.23
432 1530 9.494479 CTCATTTTACTTCGTACGTAGTTCATA 57.506 33.333 28.61 11.33 37.78 2.15
433 1531 8.025445 ACTCATTTTACTTCGTACGTAGTTCAT 58.975 33.333 28.61 16.68 37.78 2.57
434 1532 7.324375 CACTCATTTTACTTCGTACGTAGTTCA 59.676 37.037 28.61 15.50 37.78 3.18
435 1533 7.535258 TCACTCATTTTACTTCGTACGTAGTTC 59.465 37.037 28.61 0.00 37.78 3.01
436 1534 7.362662 TCACTCATTTTACTTCGTACGTAGTT 58.637 34.615 28.61 15.07 37.78 2.24
438 1536 7.536622 AGTTCACTCATTTTACTTCGTACGTAG 59.463 37.037 18.88 18.88 0.00 3.51
439 1537 7.362662 AGTTCACTCATTTTACTTCGTACGTA 58.637 34.615 16.05 4.53 0.00 3.57
440 1538 6.211515 AGTTCACTCATTTTACTTCGTACGT 58.788 36.000 16.05 0.00 0.00 3.57
441 1539 6.686130 AGTTCACTCATTTTACTTCGTACG 57.314 37.500 9.53 9.53 0.00 3.67
442 1540 8.971321 TGTAAGTTCACTCATTTTACTTCGTAC 58.029 33.333 0.00 0.00 31.94 3.67
443 1541 8.971321 GTGTAAGTTCACTCATTTTACTTCGTA 58.029 33.333 0.00 0.00 35.68 3.43
444 1542 7.709613 AGTGTAAGTTCACTCATTTTACTTCGT 59.290 33.333 0.00 0.00 44.07 3.85
445 1543 8.073355 AGTGTAAGTTCACTCATTTTACTTCG 57.927 34.615 0.00 0.00 44.07 3.79
486 1584 9.524496 TTCACTACCAACTATATACGGATGTAT 57.476 33.333 0.00 0.00 43.62 2.29
487 1585 8.922931 TTCACTACCAACTATATACGGATGTA 57.077 34.615 0.00 0.00 34.45 2.29
488 1586 7.828508 TTCACTACCAACTATATACGGATGT 57.171 36.000 0.00 0.00 0.00 3.06
489 1587 9.355215 GATTTCACTACCAACTATATACGGATG 57.645 37.037 0.00 0.00 0.00 3.51
490 1588 9.310449 AGATTTCACTACCAACTATATACGGAT 57.690 33.333 0.00 0.00 0.00 4.18
491 1589 8.701908 AGATTTCACTACCAACTATATACGGA 57.298 34.615 0.00 0.00 0.00 4.69
492 1590 9.760077 AAAGATTTCACTACCAACTATATACGG 57.240 33.333 0.00 0.00 0.00 4.02
515 1613 9.382244 CGTTCCTCAATGTAAGTCTTTTTAAAG 57.618 33.333 0.00 0.00 37.36 1.85
516 1614 8.347035 CCGTTCCTCAATGTAAGTCTTTTTAAA 58.653 33.333 0.00 0.00 0.00 1.52
517 1615 7.716123 TCCGTTCCTCAATGTAAGTCTTTTTAA 59.284 33.333 0.00 0.00 0.00 1.52
518 1616 7.218614 TCCGTTCCTCAATGTAAGTCTTTTTA 58.781 34.615 0.00 0.00 0.00 1.52
519 1617 6.059484 TCCGTTCCTCAATGTAAGTCTTTTT 58.941 36.000 0.00 0.00 0.00 1.94
520 1618 5.617252 TCCGTTCCTCAATGTAAGTCTTTT 58.383 37.500 0.00 0.00 0.00 2.27
521 1619 5.223449 TCCGTTCCTCAATGTAAGTCTTT 57.777 39.130 0.00 0.00 0.00 2.52
522 1620 4.322801 CCTCCGTTCCTCAATGTAAGTCTT 60.323 45.833 0.00 0.00 0.00 3.01
523 1621 3.195825 CCTCCGTTCCTCAATGTAAGTCT 59.804 47.826 0.00 0.00 0.00 3.24
524 1622 3.522553 CCTCCGTTCCTCAATGTAAGTC 58.477 50.000 0.00 0.00 0.00 3.01
525 1623 2.236395 CCCTCCGTTCCTCAATGTAAGT 59.764 50.000 0.00 0.00 0.00 2.24
526 1624 2.500098 TCCCTCCGTTCCTCAATGTAAG 59.500 50.000 0.00 0.00 0.00 2.34
527 1625 2.542550 TCCCTCCGTTCCTCAATGTAA 58.457 47.619 0.00 0.00 0.00 2.41
528 1626 2.241281 TCCCTCCGTTCCTCAATGTA 57.759 50.000 0.00 0.00 0.00 2.29
529 1627 1.584724 ATCCCTCCGTTCCTCAATGT 58.415 50.000 0.00 0.00 0.00 2.71
530 1628 2.717639 AATCCCTCCGTTCCTCAATG 57.282 50.000 0.00 0.00 0.00 2.82
531 1629 3.112263 TGTAATCCCTCCGTTCCTCAAT 58.888 45.455 0.00 0.00 0.00 2.57
532 1630 2.542550 TGTAATCCCTCCGTTCCTCAA 58.457 47.619 0.00 0.00 0.00 3.02
533 1631 2.241281 TGTAATCCCTCCGTTCCTCA 57.759 50.000 0.00 0.00 0.00 3.86
534 1632 2.698797 TGATGTAATCCCTCCGTTCCTC 59.301 50.000 0.00 0.00 44.73 3.71
535 1633 2.700897 CTGATGTAATCCCTCCGTTCCT 59.299 50.000 0.00 0.00 44.73 3.36
536 1634 2.807108 GCTGATGTAATCCCTCCGTTCC 60.807 54.545 0.00 0.00 44.73 3.62
537 1635 2.484889 GCTGATGTAATCCCTCCGTTC 58.515 52.381 0.00 0.00 44.73 3.95
538 1636 1.141053 GGCTGATGTAATCCCTCCGTT 59.859 52.381 0.00 0.00 44.73 4.44
539 1637 0.759346 GGCTGATGTAATCCCTCCGT 59.241 55.000 0.00 0.00 44.73 4.69
540 1638 0.758734 TGGCTGATGTAATCCCTCCG 59.241 55.000 0.00 0.00 44.73 4.63
541 1639 2.173569 ACTTGGCTGATGTAATCCCTCC 59.826 50.000 0.00 0.00 44.73 4.30
542 1640 3.118261 TGACTTGGCTGATGTAATCCCTC 60.118 47.826 0.00 0.00 44.73 4.30
543 1641 2.846206 TGACTTGGCTGATGTAATCCCT 59.154 45.455 0.00 0.00 44.73 4.20
544 1642 3.281727 TGACTTGGCTGATGTAATCCC 57.718 47.619 0.00 0.00 44.73 3.85
545 1643 3.378427 GGTTGACTTGGCTGATGTAATCC 59.622 47.826 0.00 0.00 44.73 3.01
546 1644 4.009675 TGGTTGACTTGGCTGATGTAATC 58.990 43.478 0.00 0.00 45.83 1.75
547 1645 4.012374 CTGGTTGACTTGGCTGATGTAAT 58.988 43.478 0.00 0.00 0.00 1.89
548 1646 3.411446 CTGGTTGACTTGGCTGATGTAA 58.589 45.455 0.00 0.00 0.00 2.41
567 1665 0.659427 CTGATGGTTACATGCGGCTG 59.341 55.000 0.00 0.00 37.47 4.85
568 1666 0.464373 CCTGATGGTTACATGCGGCT 60.464 55.000 0.00 0.00 37.47 5.52
569 1667 1.447317 CCCTGATGGTTACATGCGGC 61.447 60.000 0.00 0.00 37.47 6.53
661 1779 9.981114 TCGTTGATGATATGATACACAAATAGT 57.019 29.630 0.00 0.00 0.00 2.12
663 1781 8.911662 CGTCGTTGATGATATGATACACAAATA 58.088 33.333 0.00 0.00 0.00 1.40
710 1856 1.202065 CGTCATTCAATTGGCTCACCG 60.202 52.381 5.42 0.00 39.70 4.94
726 1872 0.032952 GTAGTTGCCACCACTCGTCA 59.967 55.000 0.00 0.00 0.00 4.35
733 1879 2.745037 GACCGGTAGTTGCCACCA 59.255 61.111 7.34 0.00 35.67 4.17
749 1895 2.604373 CGTTGGAACGTTACTACACCGA 60.604 50.000 22.10 6.60 46.63 4.69
800 1950 5.672503 TGCCATGCATGTGCTAAAAATTAT 58.327 33.333 28.58 0.00 42.66 1.28
801 1951 5.082251 TGCCATGCATGTGCTAAAAATTA 57.918 34.783 28.58 12.36 42.66 1.40
805 1955 2.036862 TGTTGCCATGCATGTGCTAAAA 59.963 40.909 28.58 18.09 38.76 1.52
806 1956 1.617357 TGTTGCCATGCATGTGCTAAA 59.383 42.857 28.58 19.53 38.76 1.85
807 1957 1.254954 TGTTGCCATGCATGTGCTAA 58.745 45.000 28.58 21.17 38.76 3.09
808 1958 1.476477 ATGTTGCCATGCATGTGCTA 58.524 45.000 28.58 22.60 38.76 3.49
809 1959 1.476477 TATGTTGCCATGCATGTGCT 58.524 45.000 28.58 17.38 38.76 4.40
810 1960 2.131972 CATATGTTGCCATGCATGTGC 58.868 47.619 24.58 24.64 38.76 4.57
811 1961 3.446310 ACATATGTTGCCATGCATGTG 57.554 42.857 24.58 16.68 38.76 3.21
813 1963 6.088173 GTGTATACATATGTTGCCATGCATG 58.912 40.000 20.19 20.19 38.76 4.06
814 1964 5.769162 TGTGTATACATATGTTGCCATGCAT 59.231 36.000 14.77 0.00 38.76 3.96
815 1965 5.128919 TGTGTATACATATGTTGCCATGCA 58.871 37.500 14.77 8.24 36.47 3.96
816 1966 5.687770 TGTGTATACATATGTTGCCATGC 57.312 39.130 14.77 5.63 32.29 4.06
817 1967 7.025485 TGTTGTGTATACATATGTTGCCATG 57.975 36.000 14.77 0.00 36.53 3.66
818 1968 7.822161 ATGTTGTGTATACATATGTTGCCAT 57.178 32.000 14.77 3.84 36.53 4.40
819 1969 8.916628 ATATGTTGTGTATACATATGTTGCCA 57.083 30.769 14.77 5.37 43.81 4.92
826 1976 7.121168 GCCTTGGCATATGTTGTGTATACATAT 59.879 37.037 9.18 0.52 45.43 1.78
827 1977 6.429692 GCCTTGGCATATGTTGTGTATACATA 59.570 38.462 9.18 3.08 41.31 2.29
828 1978 5.241506 GCCTTGGCATATGTTGTGTATACAT 59.758 40.000 9.18 0.00 39.44 2.29
829 1979 4.578516 GCCTTGGCATATGTTGTGTATACA 59.421 41.667 6.79 0.08 34.31 2.29
830 1980 4.821805 AGCCTTGGCATATGTTGTGTATAC 59.178 41.667 14.54 0.00 0.00 1.47
831 1981 5.047566 AGCCTTGGCATATGTTGTGTATA 57.952 39.130 14.54 0.00 0.00 1.47
832 1982 3.902218 AGCCTTGGCATATGTTGTGTAT 58.098 40.909 14.54 0.00 0.00 2.29
833 1983 3.364460 AGCCTTGGCATATGTTGTGTA 57.636 42.857 14.54 0.00 0.00 2.90
834 1984 2.220653 AGCCTTGGCATATGTTGTGT 57.779 45.000 14.54 0.00 0.00 3.72
835 1985 2.620115 CCTAGCCTTGGCATATGTTGTG 59.380 50.000 14.54 0.00 0.00 3.33
836 1986 2.242196 ACCTAGCCTTGGCATATGTTGT 59.758 45.455 14.54 0.00 0.00 3.32
837 1987 2.880890 GACCTAGCCTTGGCATATGTTG 59.119 50.000 14.54 0.00 0.00 3.33
838 1988 2.780010 AGACCTAGCCTTGGCATATGTT 59.220 45.455 14.54 0.00 0.00 2.71
839 1989 2.412591 AGACCTAGCCTTGGCATATGT 58.587 47.619 14.54 5.25 0.00 2.29
840 1990 3.406764 GAAGACCTAGCCTTGGCATATG 58.593 50.000 14.54 0.00 0.00 1.78
841 1991 2.037772 CGAAGACCTAGCCTTGGCATAT 59.962 50.000 14.54 0.00 0.00 1.78
842 1992 1.412710 CGAAGACCTAGCCTTGGCATA 59.587 52.381 14.54 3.02 0.00 3.14
843 1993 0.179000 CGAAGACCTAGCCTTGGCAT 59.821 55.000 14.54 1.97 0.00 4.40
844 1994 0.902984 TCGAAGACCTAGCCTTGGCA 60.903 55.000 14.54 0.00 0.00 4.92
845 1995 0.249398 TTCGAAGACCTAGCCTTGGC 59.751 55.000 2.97 2.97 34.32 4.52
846 1996 2.555199 CATTCGAAGACCTAGCCTTGG 58.445 52.381 3.35 0.00 34.32 3.61
847 1997 1.936547 GCATTCGAAGACCTAGCCTTG 59.063 52.381 3.35 0.00 34.32 3.61
848 1998 1.134371 GGCATTCGAAGACCTAGCCTT 60.134 52.381 3.35 0.00 36.63 4.35
849 1999 0.466124 GGCATTCGAAGACCTAGCCT 59.534 55.000 3.35 0.00 36.63 4.58
901 2059 1.676529 AGAATGCTTGCTGCTGCTATG 59.323 47.619 17.00 7.73 43.37 2.23
903 2061 1.376543 GAGAATGCTTGCTGCTGCTA 58.623 50.000 17.00 8.35 43.37 3.49
904 2062 1.313812 GGAGAATGCTTGCTGCTGCT 61.314 55.000 17.00 0.00 43.37 4.24
905 2063 1.139095 GGAGAATGCTTGCTGCTGC 59.861 57.895 8.89 8.89 43.37 5.25
914 2080 1.630126 ATCAGGGCGTGGAGAATGCT 61.630 55.000 7.42 0.00 40.93 3.79
928 2094 0.824109 TTGGTAGCTGGTCGATCAGG 59.176 55.000 26.39 9.10 35.43 3.86
937 2103 0.250513 GAGAGGTGGTTGGTAGCTGG 59.749 60.000 0.00 0.00 0.00 4.85
940 2106 1.562783 AGAGAGAGGTGGTTGGTAGC 58.437 55.000 0.00 0.00 0.00 3.58
943 2109 3.049344 AGAAAAGAGAGAGGTGGTTGGT 58.951 45.455 0.00 0.00 0.00 3.67
947 2113 4.843516 AGATTGAGAAAAGAGAGAGGTGGT 59.156 41.667 0.00 0.00 0.00 4.16
949 2115 5.642919 CCAAGATTGAGAAAAGAGAGAGGTG 59.357 44.000 0.00 0.00 0.00 4.00
950 2116 5.309282 ACCAAGATTGAGAAAAGAGAGAGGT 59.691 40.000 0.00 0.00 0.00 3.85
951 2117 5.803552 ACCAAGATTGAGAAAAGAGAGAGG 58.196 41.667 0.00 0.00 0.00 3.69
952 2118 6.462500 TGACCAAGATTGAGAAAAGAGAGAG 58.538 40.000 0.00 0.00 0.00 3.20
953 2119 6.425210 TGACCAAGATTGAGAAAAGAGAGA 57.575 37.500 0.00 0.00 0.00 3.10
954 2120 6.933521 TCTTGACCAAGATTGAGAAAAGAGAG 59.066 38.462 8.27 0.00 42.06 3.20
963 2131 4.560128 TCGAGTTCTTGACCAAGATTGAG 58.440 43.478 12.62 6.44 45.78 3.02
972 2140 1.474879 AGCTAGCTCGAGTTCTTGACC 59.525 52.381 12.68 0.00 0.00 4.02
1005 2192 2.357881 TTCTCAGCACCAGCAGCG 60.358 61.111 0.00 0.00 45.49 5.18
1221 2408 8.363390 TCATTGCAATTTATTTGTTGTACCTCA 58.637 29.630 9.83 0.00 37.65 3.86
1259 2704 9.128107 ACAAAATCAATCAACTATAAAAGCACG 57.872 29.630 0.00 0.00 0.00 5.34
1262 2707 9.554724 TCGACAAAATCAATCAACTATAAAAGC 57.445 29.630 0.00 0.00 0.00 3.51
1299 2744 1.195115 GTCACAGCCCTAGGTGATCA 58.805 55.000 8.29 0.00 44.94 2.92
1300 2745 0.103208 CGTCACAGCCCTAGGTGATC 59.897 60.000 8.29 0.00 44.94 2.92
1301 2746 1.961180 GCGTCACAGCCCTAGGTGAT 61.961 60.000 8.29 0.00 44.94 3.06
1579 3025 1.345415 GGTGGGACGAGGAACTTAACA 59.655 52.381 0.00 0.00 41.55 2.41
1652 3098 3.013682 GGATGACCAGGTCCTCCTT 57.986 57.895 28.54 6.29 41.79 3.36
1653 3099 4.818314 GGATGACCAGGTCCTCCT 57.182 61.111 28.54 8.39 41.79 3.69
1805 3251 2.391724 ATCACCGTTGGGTCGTTGCT 62.392 55.000 0.00 0.00 46.01 3.91
1946 3392 1.265236 GGGATGTTGGCATTGTCCAA 58.735 50.000 12.64 8.03 43.36 3.53
2126 3594 3.009916 AGCAAACAATGGAGATGGAGTCT 59.990 43.478 0.00 0.00 40.81 3.24
2127 3595 3.350833 AGCAAACAATGGAGATGGAGTC 58.649 45.455 0.00 0.00 0.00 3.36
2153 3621 2.100631 CGGTAACTCGCTTGCAGGG 61.101 63.158 0.00 0.00 0.00 4.45
2189 3657 9.924650 TGCTAAAACAACCAAACTTTAAACTTA 57.075 25.926 0.00 0.00 0.00 2.24
2190 3658 8.834749 TGCTAAAACAACCAAACTTTAAACTT 57.165 26.923 0.00 0.00 0.00 2.66
2191 3659 9.093970 GATGCTAAAACAACCAAACTTTAAACT 57.906 29.630 0.00 0.00 0.00 2.66
2192 3660 8.332464 GGATGCTAAAACAACCAAACTTTAAAC 58.668 33.333 0.00 0.00 32.95 2.01
2193 3661 8.041323 TGGATGCTAAAACAACCAAACTTTAAA 58.959 29.630 0.00 0.00 39.31 1.52
2194 3662 7.556844 TGGATGCTAAAACAACCAAACTTTAA 58.443 30.769 0.00 0.00 39.31 1.52
2195 3663 7.113658 TGGATGCTAAAACAACCAAACTTTA 57.886 32.000 0.00 0.00 39.31 1.85
2196 3664 5.983540 TGGATGCTAAAACAACCAAACTTT 58.016 33.333 0.00 0.00 39.31 2.66
2197 3665 5.606348 TGGATGCTAAAACAACCAAACTT 57.394 34.783 0.00 0.00 39.31 2.66
2198 3666 5.304101 TGATGGATGCTAAAACAACCAAACT 59.696 36.000 0.00 0.00 44.53 2.66
2199 3667 5.537188 TGATGGATGCTAAAACAACCAAAC 58.463 37.500 0.00 0.00 44.53 2.93
2200 3668 5.798125 TGATGGATGCTAAAACAACCAAA 57.202 34.783 0.00 0.00 44.53 3.28
2201 3669 5.999205 ATGATGGATGCTAAAACAACCAA 57.001 34.783 0.00 0.00 44.53 3.67
2202 3670 5.245751 ACAATGATGGATGCTAAAACAACCA 59.754 36.000 0.00 0.00 45.31 3.67
2239 3709 6.599437 ACGAGAATTGAACCAAGAAATAACG 58.401 36.000 0.00 0.00 0.00 3.18
2246 3717 4.511454 CAGTTGACGAGAATTGAACCAAGA 59.489 41.667 0.00 0.00 0.00 3.02
2274 3745 3.913763 CGCATTTACACATGTGGACAAAG 59.086 43.478 28.64 15.46 31.98 2.77
2281 3752 1.261989 GCAGCGCATTTACACATGTG 58.738 50.000 24.25 24.25 37.66 3.21
2301 3772 4.021192 TCCCAAATGAAAGAACATTGGCTC 60.021 41.667 0.00 0.00 39.88 4.70
2371 3842 2.096496 CCATGATTTGACTCTCGGCAAC 59.904 50.000 0.00 0.00 0.00 4.17
2372 3843 2.027285 TCCATGATTTGACTCTCGGCAA 60.027 45.455 0.00 0.00 0.00 4.52
2373 3844 1.554617 TCCATGATTTGACTCTCGGCA 59.445 47.619 0.00 0.00 0.00 5.69
2374 3845 2.315925 TCCATGATTTGACTCTCGGC 57.684 50.000 0.00 0.00 0.00 5.54
2375 3846 2.611292 GCTTCCATGATTTGACTCTCGG 59.389 50.000 0.00 0.00 0.00 4.63
2376 3847 3.529533 AGCTTCCATGATTTGACTCTCG 58.470 45.455 0.00 0.00 0.00 4.04
2377 3848 3.555139 CGAGCTTCCATGATTTGACTCTC 59.445 47.826 0.00 0.00 0.00 3.20
2378 3849 3.196469 TCGAGCTTCCATGATTTGACTCT 59.804 43.478 0.00 0.00 0.00 3.24
2379 3850 3.308323 GTCGAGCTTCCATGATTTGACTC 59.692 47.826 0.00 0.00 0.00 3.36
2380 3851 3.265791 GTCGAGCTTCCATGATTTGACT 58.734 45.455 0.00 0.00 0.00 3.41
2381 3852 3.002791 TGTCGAGCTTCCATGATTTGAC 58.997 45.455 0.00 0.00 0.00 3.18
2382 3853 3.333029 TGTCGAGCTTCCATGATTTGA 57.667 42.857 0.00 0.00 0.00 2.69
2383 3854 4.424061 TTTGTCGAGCTTCCATGATTTG 57.576 40.909 0.00 0.00 0.00 2.32
2384 3855 5.452078 TTTTTGTCGAGCTTCCATGATTT 57.548 34.783 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.