Multiple sequence alignment - TraesCS5B01G179100

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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 TraesCS5B01G179100 chr5B 100.000 5164 0 0 1 5164 326910223 326915386 0.000000e+00 9537.0
1 TraesCS5B01G179100 chr5B 100.000 590 0 0 5463 6052 326915685 326916274 0.000000e+00 1090.0
2 TraesCS5B01G179100 chr5B 90.476 126 11 1 5924 6049 364139789 364139665 1.350000e-36 165.0
3 TraesCS5B01G179100 chr5D 96.654 3497 97 11 1645 5129 287802026 287805514 0.000000e+00 5792.0
4 TraesCS5B01G179100 chr5D 93.846 715 36 5 722 1428 287798354 287799068 0.000000e+00 1070.0
5 TraesCS5B01G179100 chr5D 96.610 590 16 3 5463 6050 287806306 287806893 0.000000e+00 976.0
6 TraesCS5B01G179100 chr5D 81.497 735 52 28 15 708 287797611 287798302 1.490000e-145 527.0
7 TraesCS5B01G179100 chr5D 89.683 126 12 1 5924 6049 315936231 315936107 6.280000e-35 159.0
8 TraesCS5B01G179100 chr5D 83.065 124 20 1 5924 6047 267617436 267617558 1.780000e-20 111.0
9 TraesCS5B01G179100 chr5D 100.000 37 0 0 285 321 288813893 288813929 1.090000e-07 69.4
10 TraesCS5B01G179100 chr5A 96.206 3532 114 12 1645 5164 380218804 380222327 0.000000e+00 5762.0
11 TraesCS5B01G179100 chr5A 92.458 716 43 6 724 1428 380210095 380210810 0.000000e+00 1013.0
12 TraesCS5B01G179100 chr5A 96.161 573 20 1 5463 6033 380222427 380222999 0.000000e+00 935.0
13 TraesCS5B01G179100 chr5A 84.884 344 32 5 368 708 380209716 380210042 4.520000e-86 329.0
14 TraesCS5B01G179100 chr5A 91.447 152 10 2 1434 1585 380218662 380218810 7.950000e-49 206.0
15 TraesCS5B01G179100 chr5A 88.889 126 9 5 5924 6049 410513092 410512972 3.780000e-32 150.0
16 TraesCS5B01G179100 chr2D 86.441 118 15 1 5932 6049 218020686 218020802 1.770000e-25 128.0
17 TraesCS5B01G179100 chr2D 85.075 67 7 2 1583 1647 347465712 347465777 1.410000e-06 65.8
18 TraesCS5B01G179100 chr3B 83.721 129 19 2 5924 6052 236510603 236510477 2.960000e-23 121.0
19 TraesCS5B01G179100 chr3B 88.060 67 6 2 1582 1647 822885426 822885361 1.810000e-10 78.7
20 TraesCS5B01G179100 chr4D 83.333 126 20 1 5924 6049 452549605 452549729 1.380000e-21 115.0
21 TraesCS5B01G179100 chr3D 84.167 120 14 4 568 685 36629574 36629690 1.780000e-20 111.0
22 TraesCS5B01G179100 chr3D 88.235 68 4 3 1583 1648 502048864 502048929 1.810000e-10 78.7
23 TraesCS5B01G179100 chr3D 87.302 63 4 3 280 340 553335934 553335994 1.090000e-07 69.4
24 TraesCS5B01G179100 chr3D 84.507 71 8 2 1577 1647 16171899 16171832 3.910000e-07 67.6
25 TraesCS5B01G179100 chr6D 86.111 72 6 2 1576 1647 103006198 103006131 2.340000e-09 75.0
26 TraesCS5B01G179100 chr1D 97.619 42 1 0 280 321 482226228 482226187 8.410000e-09 73.1
27 TraesCS5B01G179100 chr4A 86.567 67 6 3 1581 1646 619146838 619146774 3.030000e-08 71.3
28 TraesCS5B01G179100 chr7D 95.349 43 2 0 279 321 629418496 629418538 1.090000e-07 69.4
29 TraesCS5B01G179100 chr7D 97.143 35 1 0 280 314 107266153 107266119 6.550000e-05 60.2
30 TraesCS5B01G179100 chr7B 88.889 54 6 0 273 326 34674627 34674574 3.910000e-07 67.6
31 TraesCS5B01G179100 chr7B 84.507 71 8 2 1577 1647 350930658 350930591 3.910000e-07 67.6
32 TraesCS5B01G179100 chrUn 81.818 77 8 5 1576 1647 479443346 479443271 6.550000e-05 60.2
33 TraesCS5B01G179100 chr1B 81.818 77 8 5 1576 1647 316608383 316608308 6.550000e-05 60.2


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 TraesCS5B01G179100 chr5B 326910223 326916274 6051 False 5313.50 9537 100.000000 1 6052 2 chr5B.!!$F1 6051
1 TraesCS5B01G179100 chr5D 287797611 287806893 9282 False 2091.25 5792 92.151750 15 6050 4 chr5D.!!$F3 6035
2 TraesCS5B01G179100 chr5A 380218662 380222999 4337 False 2301.00 5762 94.604667 1434 6033 3 chr5A.!!$F2 4599
3 TraesCS5B01G179100 chr5A 380209716 380210810 1094 False 671.00 1013 88.671000 368 1428 2 chr5A.!!$F1 1060

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
95 100 0.035739 GGTCCCTTACGCTCCAACAA 59.964 55.000 0.00 0.00 0.00 2.83 F
1430 1526 0.105760 TTCCACACAAGGCCCATGTT 60.106 50.000 9.00 0.00 0.00 2.71 F
1431 1527 0.539438 TCCACACAAGGCCCATGTTC 60.539 55.000 9.00 0.00 0.00 3.18 F
1432 1528 0.540365 CCACACAAGGCCCATGTTCT 60.540 55.000 9.00 0.00 0.00 3.01 F
2173 5110 0.947244 AAGCTGGACAAGAAAGTGCG 59.053 50.000 0.00 0.00 31.86 5.34 F
2388 5325 1.068055 GCTGTGGAATTGGCAAGACTG 60.068 52.381 5.96 5.26 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1552 4483 0.101759 CTGCATTGTACAGGCATGGC 59.898 55.000 20.29 12.14 36.87 4.40 R
3251 6188 0.324943 ACCTGACACAGCCATGTACC 59.675 55.000 0.00 0.00 37.65 3.34 R
3720 6657 7.629157 TCCTTATGATTCACTATGAAACCACA 58.371 34.615 0.00 0.00 40.12 4.17 R
4162 7099 3.295093 TGAATGGTGAGCAACTTGGAAA 58.705 40.909 0.00 0.00 0.00 3.13 R
4335 7272 1.064003 TACTCAAGGCAAGCTGGGAA 58.936 50.000 0.00 0.00 0.00 3.97 R
5063 8005 2.603075 TCCTTTCCTTTCCACATGGG 57.397 50.000 0.00 0.00 35.41 4.00 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
40 41 8.992835 AAAACAGAGATAAATTTTGCCTCATC 57.007 30.769 0.00 0.00 0.00 2.92
43 44 7.114754 ACAGAGATAAATTTTGCCTCATCTCA 58.885 34.615 20.59 0.00 40.43 3.27
45 46 7.282675 CAGAGATAAATTTTGCCTCATCTCACT 59.717 37.037 20.59 6.02 40.43 3.41
46 47 7.282675 AGAGATAAATTTTGCCTCATCTCACTG 59.717 37.037 20.59 0.00 40.43 3.66
47 48 7.114754 AGATAAATTTTGCCTCATCTCACTGA 58.885 34.615 0.00 0.00 0.00 3.41
48 49 7.778853 AGATAAATTTTGCCTCATCTCACTGAT 59.221 33.333 0.00 0.00 35.40 2.90
49 50 8.985315 ATAAATTTTGCCTCATCTCACTGATA 57.015 30.769 0.00 0.00 33.36 2.15
81 86 2.437413 GAACAAGGTTCATGAGGTCCC 58.563 52.381 4.33 0.00 0.00 4.46
89 94 1.112113 TCATGAGGTCCCTTACGCTC 58.888 55.000 0.00 0.00 0.00 5.03
95 100 0.035739 GGTCCCTTACGCTCCAACAA 59.964 55.000 0.00 0.00 0.00 2.83
102 113 4.261825 CCCTTACGCTCCAACAAATGAAAA 60.262 41.667 0.00 0.00 0.00 2.29
140 151 4.426416 GCATGATTGTGCTCAAATGCTTA 58.574 39.130 22.09 0.40 41.11 3.09
141 152 4.865925 GCATGATTGTGCTCAAATGCTTAA 59.134 37.500 22.09 0.00 41.11 1.85
143 154 4.808558 TGATTGTGCTCAAATGCTTAACC 58.191 39.130 5.15 0.00 37.11 2.85
149 160 2.476854 GCTCAAATGCTTAACCTCAGCG 60.477 50.000 0.00 0.00 40.45 5.18
208 219 4.637483 ATAACAATGGAAGGCATTGACG 57.363 40.909 2.69 0.00 41.22 4.35
218 229 2.800096 GCATTGACGCCTTGTTGTG 58.200 52.632 0.00 0.00 0.00 3.33
260 272 3.394606 TCTTTCCAAACTCCTAAGCCACT 59.605 43.478 0.00 0.00 0.00 4.00
283 295 9.053840 CACTGATATGAGCAGAAAATGATACTT 57.946 33.333 0.00 0.00 36.86 2.24
286 298 8.435187 TGATATGAGCAGAAAATGATACTTCCT 58.565 33.333 0.00 0.00 0.00 3.36
305 317 7.062957 ACTTCCTCCGATCCAAATTAATTGAT 58.937 34.615 0.39 1.14 41.85 2.57
318 330 9.023967 CCAAATTAATTGATGCTGCTTTAGTAC 57.976 33.333 0.39 0.00 41.85 2.73
328 340 8.306038 TGATGCTGCTTTAGTACAATTCAAATT 58.694 29.630 0.00 0.00 0.00 1.82
344 360 9.858247 CAATTCAAATTGTTCAAAAGAGATGTG 57.142 29.630 7.20 0.00 40.61 3.21
359 375 8.682936 AAAGAGATGTGTATATCATTGGTTCC 57.317 34.615 0.00 0.00 0.00 3.62
365 381 8.677148 ATGTGTATATCATTGGTTCCACTTAC 57.323 34.615 0.00 0.00 0.00 2.34
372 414 6.073447 TCATTGGTTCCACTTACCATGTAT 57.927 37.500 0.00 0.00 44.70 2.29
402 444 5.200483 AGAGGTGTCAAATTCACTTTCCAA 58.800 37.500 0.00 0.00 36.25 3.53
437 479 0.107508 GCCCTACATTGCTCAGCTGA 60.108 55.000 17.19 17.19 0.00 4.26
471 515 0.979709 TGGGCATCAGAGCAGCTACT 60.980 55.000 0.00 0.00 35.83 2.57
499 543 1.456296 TGCCAAACTCTGCATAGCTG 58.544 50.000 0.00 0.00 31.31 4.24
507 551 0.620030 TCTGCATAGCTGGCCAGAAA 59.380 50.000 37.21 22.73 0.00 2.52
508 552 1.004628 TCTGCATAGCTGGCCAGAAAA 59.995 47.619 37.21 20.04 0.00 2.29
509 553 2.029623 CTGCATAGCTGGCCAGAAAAT 58.970 47.619 37.21 21.38 0.00 1.82
511 555 2.026641 GCATAGCTGGCCAGAAAATCA 58.973 47.619 37.21 13.38 0.00 2.57
561 605 9.550811 GTTTATTCCTTATTTTACACTGAACGG 57.449 33.333 0.00 0.00 0.00 4.44
562 606 8.851541 TTATTCCTTATTTTACACTGAACGGT 57.148 30.769 0.00 0.00 0.00 4.83
563 607 6.548441 TTCCTTATTTTACACTGAACGGTG 57.452 37.500 11.58 11.58 42.34 4.94
564 608 4.453136 TCCTTATTTTACACTGAACGGTGC 59.547 41.667 12.86 0.00 40.52 5.01
565 609 4.379082 CCTTATTTTACACTGAACGGTGCC 60.379 45.833 12.86 0.00 40.52 5.01
566 610 1.310904 TTTTACACTGAACGGTGCCC 58.689 50.000 12.86 0.00 40.52 5.36
567 611 0.470766 TTTACACTGAACGGTGCCCT 59.529 50.000 12.86 0.00 40.52 5.19
568 612 1.340088 TTACACTGAACGGTGCCCTA 58.660 50.000 12.86 0.00 40.52 3.53
569 613 0.604578 TACACTGAACGGTGCCCTAC 59.395 55.000 12.86 0.00 40.52 3.18
570 614 1.369692 CACTGAACGGTGCCCTACA 59.630 57.895 0.76 0.00 0.00 2.74
797 882 0.179094 AACACGTCGTTGGCTCTTCA 60.179 50.000 0.00 0.00 36.12 3.02
812 898 8.919661 GTTGGCTCTTCAATTAGATTTGAAAAG 58.080 33.333 1.78 0.00 43.12 2.27
814 900 8.517878 TGGCTCTTCAATTAGATTTGAAAAGAG 58.482 33.333 4.83 7.61 43.12 2.85
876 966 2.433318 GGCTGGAGAGACGTGCAC 60.433 66.667 6.82 6.82 0.00 4.57
883 973 2.031163 GAGACGTGCACCAAGCCT 59.969 61.111 12.15 0.96 44.83 4.58
930 1020 2.191128 ATCCCTCAACAGCAGAACAC 57.809 50.000 0.00 0.00 0.00 3.32
979 1069 3.354678 GCAGTGGCCAACGACAAT 58.645 55.556 7.24 0.00 0.00 2.71
1303 1395 4.215109 ACCATCAGTAAGTGCTTTTGGTT 58.785 39.130 0.00 0.00 31.04 3.67
1305 1397 5.128663 ACCATCAGTAAGTGCTTTTGGTTTT 59.871 36.000 0.00 0.00 31.04 2.43
1314 1406 7.951530 AAGTGCTTTTGGTTTTGATAGATTG 57.048 32.000 0.00 0.00 0.00 2.67
1319 1411 5.446143 TTTGGTTTTGATAGATTGCGTGT 57.554 34.783 0.00 0.00 0.00 4.49
1332 1427 5.967088 AGATTGCGTGTCAAGTATCTTACT 58.033 37.500 0.00 0.00 41.73 2.24
1339 1434 5.230936 CGTGTCAAGTATCTTACTCATGCAG 59.769 44.000 0.00 0.00 38.26 4.41
1359 1454 0.804364 TCGTTGAGCATGAATGGCAC 59.196 50.000 0.00 0.00 0.00 5.01
1360 1455 0.806868 CGTTGAGCATGAATGGCACT 59.193 50.000 0.00 0.00 0.00 4.40
1376 1471 8.129840 TGAATGGCACTTTCAAATTCATTTTTG 58.870 29.630 1.15 0.00 37.83 2.44
1377 1472 7.804843 ATGGCACTTTCAAATTCATTTTTGA 57.195 28.000 0.00 0.00 42.33 2.69
1378 1473 7.014092 TGGCACTTTCAAATTCATTTTTGAC 57.986 32.000 0.00 0.00 43.38 3.18
1382 1477 7.641020 GCACTTTCAAATTCATTTTTGACCTTG 59.359 33.333 0.00 0.00 43.38 3.61
1384 1479 5.903764 TCAAATTCATTTTTGACCTTGCG 57.096 34.783 0.00 0.00 39.91 4.85
1385 1480 5.595885 TCAAATTCATTTTTGACCTTGCGA 58.404 33.333 0.00 0.00 39.91 5.10
1388 1483 7.226325 TCAAATTCATTTTTGACCTTGCGAAAT 59.774 29.630 0.00 0.00 39.91 2.17
1389 1484 6.710692 ATTCATTTTTGACCTTGCGAAATC 57.289 33.333 0.00 0.00 0.00 2.17
1416 1512 7.229506 CCTGTATTTCTCCTCCATTAATTCCAC 59.770 40.741 0.00 0.00 0.00 4.02
1428 1524 1.269012 AATTCCACACAAGGCCCATG 58.731 50.000 0.00 0.76 0.00 3.66
1429 1525 0.114954 ATTCCACACAAGGCCCATGT 59.885 50.000 0.00 1.58 0.00 3.21
1430 1526 0.105760 TTCCACACAAGGCCCATGTT 60.106 50.000 9.00 0.00 0.00 2.71
1431 1527 0.539438 TCCACACAAGGCCCATGTTC 60.539 55.000 9.00 0.00 0.00 3.18
1432 1528 0.540365 CCACACAAGGCCCATGTTCT 60.540 55.000 9.00 0.00 0.00 3.01
1446 2205 6.098266 GGCCCATGTTCTTTTATAGTTGGATT 59.902 38.462 0.00 0.00 0.00 3.01
1486 4417 5.597813 ACATCGAACACACTTTTCATCTC 57.402 39.130 0.00 0.00 0.00 2.75
1498 4429 5.122239 CACTTTTCATCTCTTGTCCGCATAA 59.878 40.000 0.00 0.00 0.00 1.90
1530 4461 1.686052 TGCAGGGAAAGAAAAACGCAT 59.314 42.857 0.00 0.00 0.00 4.73
1538 4469 5.222631 GGAAAGAAAAACGCATCATGACTT 58.777 37.500 0.00 0.00 0.00 3.01
1585 4516 4.718961 ACAATGCAGTCCAAAGAGTTACT 58.281 39.130 0.00 0.00 0.00 2.24
1586 4517 4.757149 ACAATGCAGTCCAAAGAGTTACTC 59.243 41.667 3.85 3.85 0.00 2.59
1587 4518 3.402628 TGCAGTCCAAAGAGTTACTCC 57.597 47.619 8.96 0.00 0.00 3.85
1588 4519 2.038557 TGCAGTCCAAAGAGTTACTCCC 59.961 50.000 8.96 0.00 0.00 4.30
1589 4520 2.303311 GCAGTCCAAAGAGTTACTCCCT 59.697 50.000 8.96 0.00 0.00 4.20
1590 4521 3.244596 GCAGTCCAAAGAGTTACTCCCTT 60.245 47.826 8.96 0.12 0.00 3.95
1591 4522 4.747009 GCAGTCCAAAGAGTTACTCCCTTT 60.747 45.833 8.96 1.35 0.00 3.11
1592 4523 4.757149 CAGTCCAAAGAGTTACTCCCTTTG 59.243 45.833 15.71 15.71 43.65 2.77
1593 4524 4.412528 AGTCCAAAGAGTTACTCCCTTTGT 59.587 41.667 18.98 5.25 42.94 2.83
1594 4525 5.605488 AGTCCAAAGAGTTACTCCCTTTGTA 59.395 40.000 18.98 7.11 42.94 2.41
1595 4526 6.100714 AGTCCAAAGAGTTACTCCCTTTGTAA 59.899 38.462 18.98 9.30 42.94 2.41
1596 4527 6.769341 GTCCAAAGAGTTACTCCCTTTGTAAA 59.231 38.462 18.98 7.59 42.94 2.01
1597 4528 7.447545 GTCCAAAGAGTTACTCCCTTTGTAAAT 59.552 37.037 18.98 0.00 42.94 1.40
1598 4529 8.662255 TCCAAAGAGTTACTCCCTTTGTAAATA 58.338 33.333 18.98 4.21 42.94 1.40
1599 4530 9.292195 CCAAAGAGTTACTCCCTTTGTAAATAA 57.708 33.333 18.98 0.00 42.94 1.40
1629 4560 7.416964 AAGTGAGTAGTGATCTAAATGCTCT 57.583 36.000 0.00 0.00 0.00 4.09
1630 4561 7.416964 AGTGAGTAGTGATCTAAATGCTCTT 57.583 36.000 0.00 0.00 0.00 2.85
1631 4562 8.526667 AGTGAGTAGTGATCTAAATGCTCTTA 57.473 34.615 0.00 0.00 0.00 2.10
1632 4563 9.142014 AGTGAGTAGTGATCTAAATGCTCTTAT 57.858 33.333 0.00 0.00 0.00 1.73
1644 4575 9.261180 TCTAAATGCTCTTATATTTCTTCACGG 57.739 33.333 0.00 0.00 0.00 4.94
1645 4576 9.261180 CTAAATGCTCTTATATTTCTTCACGGA 57.739 33.333 0.00 0.00 0.00 4.69
1646 4577 7.721286 AATGCTCTTATATTTCTTCACGGAG 57.279 36.000 0.00 0.00 0.00 4.63
1648 4579 7.342769 TGCTCTTATATTTCTTCACGGAGTA 57.657 36.000 0.00 0.00 41.61 2.59
1649 4580 7.201145 TGCTCTTATATTTCTTCACGGAGTAC 58.799 38.462 0.00 0.00 41.61 2.73
1719 4651 5.849510 TCAGTGACAGAAAGAATAAACGGA 58.150 37.500 0.00 0.00 0.00 4.69
1727 4659 6.021596 CAGAAAGAATAAACGGACAAATCGG 58.978 40.000 0.00 0.00 0.00 4.18
1731 4663 6.178239 AGAATAAACGGACAAATCGGAAAG 57.822 37.500 0.00 0.00 0.00 2.62
1808 4744 7.919385 ATTGGAGAAATTATGCATACCCTTT 57.081 32.000 5.74 6.84 0.00 3.11
1823 4759 7.395772 TGCATACCCTTTGAAATACTGATGAAA 59.604 33.333 0.00 0.00 0.00 2.69
1825 4761 9.956720 CATACCCTTTGAAATACTGATGAAATC 57.043 33.333 0.00 0.00 45.83 2.17
1826 4762 7.410120 ACCCTTTGAAATACTGATGAAATCC 57.590 36.000 0.00 0.00 44.73 3.01
1853 4789 6.681777 AGTCTTGCTGGAACAATATGTTTTC 58.318 36.000 0.00 0.00 41.28 2.29
1928 4864 6.317140 AGTGATTTACAGCTGAATGGTATGTG 59.683 38.462 23.35 0.00 0.00 3.21
1938 4874 6.540189 AGCTGAATGGTATGTGAAAGTATGTC 59.460 38.462 0.00 0.00 0.00 3.06
1941 4877 7.272244 TGAATGGTATGTGAAAGTATGTCGAT 58.728 34.615 0.00 0.00 0.00 3.59
1956 4892 3.325870 TGTCGATAAGCCTTGTCTTGTG 58.674 45.455 0.00 0.00 0.00 3.33
1957 4893 3.244078 TGTCGATAAGCCTTGTCTTGTGT 60.244 43.478 0.00 0.00 0.00 3.72
1958 4894 4.021807 TGTCGATAAGCCTTGTCTTGTGTA 60.022 41.667 0.00 0.00 0.00 2.90
1959 4895 4.326548 GTCGATAAGCCTTGTCTTGTGTAC 59.673 45.833 0.00 0.00 0.00 2.90
1961 4897 5.416639 TCGATAAGCCTTGTCTTGTGTACTA 59.583 40.000 0.00 0.00 0.00 1.82
1962 4898 5.744345 CGATAAGCCTTGTCTTGTGTACTAG 59.256 44.000 0.00 0.00 0.00 2.57
1963 4899 4.957684 AAGCCTTGTCTTGTGTACTAGT 57.042 40.909 0.00 0.00 0.00 2.57
1964 4900 7.414873 CGATAAGCCTTGTCTTGTGTACTAGTA 60.415 40.741 0.00 0.00 0.00 1.82
1965 4901 6.607004 AAGCCTTGTCTTGTGTACTAGTAT 57.393 37.500 5.75 0.00 0.00 2.12
1966 4902 6.210287 AGCCTTGTCTTGTGTACTAGTATC 57.790 41.667 5.75 3.73 0.00 2.24
1967 4903 5.715279 AGCCTTGTCTTGTGTACTAGTATCA 59.285 40.000 5.75 6.29 0.00 2.15
1986 4922 7.318141 AGTATCAGCATTTTGTCTGGATTTTG 58.682 34.615 0.00 0.00 0.00 2.44
1997 4933 7.589958 TTGTCTGGATTTTGTAAGCCTTTTA 57.410 32.000 0.00 0.00 40.54 1.52
2043 4979 9.620259 GAACCTGAATAGATCCTTGTTATTTCT 57.380 33.333 0.00 0.00 0.00 2.52
2104 5041 2.159226 AGATTCTCCGTTGGCTCTTACG 60.159 50.000 0.00 0.00 37.50 3.18
2109 5046 1.135199 TCCGTTGGCTCTTACGATCAC 60.135 52.381 0.00 0.00 40.03 3.06
2142 5079 6.036517 CCATAGGACAGAGAAGAAATTGAACG 59.963 42.308 0.00 0.00 0.00 3.95
2161 5098 3.088532 ACGCCAATATTGAAAAGCTGGA 58.911 40.909 17.23 0.00 0.00 3.86
2173 5110 0.947244 AAGCTGGACAAGAAAGTGCG 59.053 50.000 0.00 0.00 31.86 5.34
2178 5115 1.082756 GACAAGAAAGTGCGTGCGG 60.083 57.895 0.00 0.00 0.00 5.69
2231 5168 1.237285 AAATGGACTGGCAGCGACAC 61.237 55.000 15.89 0.88 0.00 3.67
2258 5195 4.885325 TGGATAAGTAAATTTTCCGGGAGC 59.115 41.667 0.00 0.00 40.77 4.70
2274 5211 1.684248 GGAGCCCGTCCACTAACTCTA 60.684 57.143 0.00 0.00 46.10 2.43
2388 5325 1.068055 GCTGTGGAATTGGCAAGACTG 60.068 52.381 5.96 5.26 0.00 3.51
2483 5420 2.358737 GAGTCAACTGGTGCGGGG 60.359 66.667 0.00 0.00 0.00 5.73
2494 5431 2.918802 TGCGGGGTTACTGTCCGT 60.919 61.111 7.38 0.00 44.97 4.69
2497 5434 2.046604 GGGGTTACTGTCCGTGGC 60.047 66.667 0.00 0.00 0.00 5.01
2500 5437 3.116531 GTTACTGTCCGTGGCCGC 61.117 66.667 6.11 6.11 0.00 6.53
2650 5587 2.977808 TGAGAGTTTCCTGGAAGACCT 58.022 47.619 9.42 7.09 34.07 3.85
2686 5623 3.565764 TGGAAGCCGAATTCTGATCAT 57.434 42.857 3.52 0.00 0.00 2.45
3155 6092 5.536554 TCATCGAAGAAGAAAATGACTGC 57.463 39.130 0.00 0.00 43.58 4.40
3251 6188 1.201998 GCTGACATGACAAGATGCACG 60.202 52.381 0.00 0.00 0.00 5.34
3720 6657 4.282195 ACTTGAAGCAGCTAACTACTCTGT 59.718 41.667 0.00 0.00 0.00 3.41
4174 7111 1.780503 ACTGGCTTTTCCAAGTTGCT 58.219 45.000 0.00 0.00 46.01 3.91
4335 7272 1.133976 GCTGCCCCAACATAGAGTCAT 60.134 52.381 0.00 0.00 0.00 3.06
4471 7408 6.583562 ACAGCAAAACTCTTACTACTGTCTT 58.416 36.000 0.00 0.00 31.85 3.01
5036 7973 6.311690 GGTGTCTTTACTTCTTCAGTATCTGC 59.688 42.308 0.00 0.00 37.84 4.26
5045 7982 4.898320 TCTTCAGTATCTGCAAAGCTTCA 58.102 39.130 0.00 0.00 0.00 3.02
5063 8005 6.739112 AGCTTCAAACTAAGATTGGACAAAC 58.261 36.000 0.00 0.00 0.00 2.93
5108 8050 8.959734 TCGAATATTTCAGTGGTACATATACG 57.040 34.615 0.00 0.00 44.52 3.06
5136 8081 4.510038 AAATTTGCCTGTGTCTGCTAAG 57.490 40.909 0.00 0.00 0.00 2.18
5534 8934 4.412796 TGCTTTCTCTATCCAGTGATGG 57.587 45.455 0.00 0.00 32.18 3.51
5644 9044 7.885297 AGATTTATTTTTGCACTCACAAGCTA 58.115 30.769 0.00 0.00 0.00 3.32
5852 9254 6.552445 ACAGACCAGATTAGACTAAATGCT 57.448 37.500 0.00 0.00 0.00 3.79
5901 9303 3.209410 CTTGAGCCTGTTGAAGAACACT 58.791 45.455 0.00 0.00 37.15 3.55
5957 9359 8.293867 CCGTTCCAAAATAATTGAAGTTCTACA 58.706 33.333 4.17 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 7.893124 ATCAGTGAGATGAGGCAAAATTTAT 57.107 32.000 0.00 0.00 35.06 1.40
33 34 4.343526 TCTCCTTTATCAGTGAGATGAGGC 59.656 45.833 11.10 0.00 39.42 4.70
34 35 6.477053 TTCTCCTTTATCAGTGAGATGAGG 57.523 41.667 10.10 10.10 40.23 3.86
35 36 8.306038 CCTATTCTCCTTTATCAGTGAGATGAG 58.694 40.741 0.00 1.45 37.57 2.90
36 37 8.007153 TCCTATTCTCCTTTATCAGTGAGATGA 58.993 37.037 0.00 0.00 37.57 2.92
38 39 8.646900 GTTCCTATTCTCCTTTATCAGTGAGAT 58.353 37.037 0.00 0.00 40.86 2.75
39 40 7.619698 TGTTCCTATTCTCCTTTATCAGTGAGA 59.380 37.037 0.00 0.00 30.87 3.27
40 41 7.786030 TGTTCCTATTCTCCTTTATCAGTGAG 58.214 38.462 0.00 0.00 0.00 3.51
43 44 7.182930 ACCTTGTTCCTATTCTCCTTTATCAGT 59.817 37.037 0.00 0.00 0.00 3.41
45 46 7.510675 ACCTTGTTCCTATTCTCCTTTATCA 57.489 36.000 0.00 0.00 0.00 2.15
46 47 8.047310 TGAACCTTGTTCCTATTCTCCTTTATC 58.953 37.037 4.65 0.00 0.00 1.75
47 48 7.928873 TGAACCTTGTTCCTATTCTCCTTTAT 58.071 34.615 4.65 0.00 0.00 1.40
48 49 7.324388 TGAACCTTGTTCCTATTCTCCTTTA 57.676 36.000 4.65 0.00 0.00 1.85
49 50 6.200878 TGAACCTTGTTCCTATTCTCCTTT 57.799 37.500 4.65 0.00 0.00 3.11
102 113 2.568956 TCATGCTGTGAGAGTAGCCTTT 59.431 45.455 0.00 0.00 39.15 3.11
110 121 2.826979 GCACAATCATGCTGTGAGAG 57.173 50.000 24.00 5.57 45.80 3.20
140 151 0.693049 ATTGGGTTCTCGCTGAGGTT 59.307 50.000 5.87 0.00 0.00 3.50
141 152 0.693049 AATTGGGTTCTCGCTGAGGT 59.307 50.000 5.87 0.00 0.00 3.85
143 154 3.568538 CAAAAATTGGGTTCTCGCTGAG 58.431 45.455 0.00 0.00 0.00 3.35
208 219 0.178990 AGGGTCTTCCACAACAAGGC 60.179 55.000 0.00 0.00 38.24 4.35
213 224 0.320697 ACGCTAGGGTCTTCCACAAC 59.679 55.000 6.62 0.00 38.24 3.32
214 225 1.053424 AACGCTAGGGTCTTCCACAA 58.947 50.000 13.46 0.00 38.24 3.33
215 226 1.001633 GAAACGCTAGGGTCTTCCACA 59.998 52.381 13.46 0.00 38.24 4.17
216 227 1.275573 AGAAACGCTAGGGTCTTCCAC 59.724 52.381 13.46 2.15 38.24 4.02
217 228 1.549170 GAGAAACGCTAGGGTCTTCCA 59.451 52.381 13.46 0.00 38.24 3.53
218 229 1.826096 AGAGAAACGCTAGGGTCTTCC 59.174 52.381 13.46 11.76 0.00 3.46
260 272 8.435187 AGGAAGTATCATTTTCTGCTCATATCA 58.565 33.333 0.00 0.00 0.00 2.15
283 295 5.241506 GCATCAATTAATTTGGATCGGAGGA 59.758 40.000 0.00 0.00 35.92 3.71
286 298 5.507817 GCAGCATCAATTAATTTGGATCGGA 60.508 40.000 0.00 0.00 35.92 4.55
305 317 7.872163 CAATTTGAATTGTACTAAAGCAGCA 57.128 32.000 8.02 0.00 40.61 4.41
359 375 5.163622 CCTCTTTTGGCATACATGGTAAGTG 60.164 44.000 0.00 0.00 0.00 3.16
365 381 3.091545 ACACCTCTTTTGGCATACATGG 58.908 45.455 0.00 0.00 0.00 3.66
372 414 3.703556 TGAATTTGACACCTCTTTTGGCA 59.296 39.130 0.00 0.00 0.00 4.92
471 515 2.156917 CAGAGTTTGGCATCAGAGCAA 58.843 47.619 0.00 0.00 35.83 3.91
494 538 2.305635 TCAGTGATTTTCTGGCCAGCTA 59.694 45.455 28.91 15.47 34.15 3.32
499 543 3.549794 AGCTATCAGTGATTTTCTGGCC 58.450 45.455 11.68 0.00 34.15 5.36
507 551 7.235193 AGTCCATTGATCTAGCTATCAGTGATT 59.765 37.037 18.61 0.00 42.89 2.57
508 552 6.725369 AGTCCATTGATCTAGCTATCAGTGAT 59.275 38.462 18.61 11.12 42.89 3.06
509 553 6.073981 AGTCCATTGATCTAGCTATCAGTGA 58.926 40.000 18.61 0.00 42.89 3.41
511 555 6.326064 ACAAGTCCATTGATCTAGCTATCAGT 59.674 38.462 0.00 0.00 41.83 3.41
562 606 2.603473 ACCGCTCAGTGTAGGGCA 60.603 61.111 6.32 0.00 0.00 5.36
563 607 2.125512 CACCGCTCAGTGTAGGGC 60.126 66.667 6.32 0.00 32.89 5.19
564 608 2.125512 GCACCGCTCAGTGTAGGG 60.126 66.667 6.32 3.83 40.04 3.53
565 609 2.125512 GGCACCGCTCAGTGTAGG 60.126 66.667 0.00 0.00 40.04 3.18
566 610 2.125512 GGGCACCGCTCAGTGTAG 60.126 66.667 0.00 0.00 40.86 2.74
587 631 0.035152 TATGGCACCAGCTTCACCAG 60.035 55.000 0.00 0.00 41.70 4.00
631 675 1.039856 AGTCAAAAAGGTGCCGCATT 58.960 45.000 0.00 0.00 0.00 3.56
797 882 9.481340 GGCTGTTTTCTCTTTTCAAATCTAATT 57.519 29.630 0.00 0.00 0.00 1.40
812 898 2.485814 GTGATCCACAGGCTGTTTTCTC 59.514 50.000 19.43 12.62 34.08 2.87
814 900 2.227388 CAGTGATCCACAGGCTGTTTTC 59.773 50.000 19.43 14.88 36.74 2.29
883 973 1.336440 CGTCCATTGACTTGCCAACAA 59.664 47.619 0.00 0.00 39.47 2.83
930 1020 3.737172 CCGGGCGCAACTTCCTTG 61.737 66.667 10.83 0.00 0.00 3.61
967 1057 1.234821 TTGTCAGATTGTCGTTGGCC 58.765 50.000 0.00 0.00 0.00 5.36
974 1064 0.865769 ACGGCGTTTGTCAGATTGTC 59.134 50.000 6.77 0.00 0.00 3.18
979 1069 2.355363 CGGACGGCGTTTGTCAGA 60.355 61.111 16.19 0.00 38.10 3.27
1271 1363 3.052490 ACTTACTGATGGTCTCCTAGCCT 60.052 47.826 0.00 0.00 0.00 4.58
1303 1395 7.041721 AGATACTTGACACGCAATCTATCAAA 58.958 34.615 0.00 0.00 35.59 2.69
1305 1397 6.149129 AGATACTTGACACGCAATCTATCA 57.851 37.500 0.00 0.00 35.59 2.15
1314 1406 4.026475 GCATGAGTAAGATACTTGACACGC 60.026 45.833 0.00 0.00 39.59 5.34
1319 1411 5.125578 ACGACTGCATGAGTAAGATACTTGA 59.874 40.000 0.00 0.00 39.59 3.02
1332 1427 3.538379 ATGCTCAACGACTGCATGA 57.462 47.368 0.00 0.00 44.48 3.07
1339 1434 0.804364 TGCCATTCATGCTCAACGAC 59.196 50.000 0.00 0.00 0.00 4.34
1376 1471 2.396590 TACAGGGATTTCGCAAGGTC 57.603 50.000 0.00 0.00 38.47 3.85
1377 1472 3.366052 AATACAGGGATTTCGCAAGGT 57.634 42.857 0.00 0.00 38.47 3.50
1378 1473 3.947834 AGAAATACAGGGATTTCGCAAGG 59.052 43.478 10.49 0.00 46.19 3.61
1382 1477 3.809905 AGGAGAAATACAGGGATTTCGC 58.190 45.455 11.01 11.01 46.19 4.70
1384 1479 5.373812 TGGAGGAGAAATACAGGGATTTC 57.626 43.478 8.61 8.61 43.35 2.17
1385 1480 6.347061 AATGGAGGAGAAATACAGGGATTT 57.653 37.500 0.00 0.00 0.00 2.17
1388 1483 7.421382 GGAATTAATGGAGGAGAAATACAGGGA 60.421 40.741 0.00 0.00 0.00 4.20
1389 1484 6.717084 GGAATTAATGGAGGAGAAATACAGGG 59.283 42.308 0.00 0.00 0.00 4.45
1416 1512 4.806640 ATAAAAGAACATGGGCCTTGTG 57.193 40.909 24.02 13.28 0.00 3.33
1452 2211 8.166422 AGTGTGTTCGATGTACATATCTGATA 57.834 34.615 8.71 0.00 0.00 2.15
1469 4400 5.559035 CGGACAAGAGATGAAAAGTGTGTTC 60.559 44.000 0.00 0.00 0.00 3.18
1486 4417 3.313249 TCATGCTGAATTATGCGGACAAG 59.687 43.478 0.00 0.00 0.00 3.16
1515 4446 4.798574 AGTCATGATGCGTTTTTCTTTCC 58.201 39.130 0.00 0.00 0.00 3.13
1516 4447 6.145535 AGAAGTCATGATGCGTTTTTCTTTC 58.854 36.000 0.00 0.00 0.00 2.62
1517 4448 6.076981 AGAAGTCATGATGCGTTTTTCTTT 57.923 33.333 0.00 0.00 0.00 2.52
1520 4451 5.927030 TGTAGAAGTCATGATGCGTTTTTC 58.073 37.500 0.00 0.00 0.00 2.29
1530 4461 4.623886 GCTTCCACCATGTAGAAGTCATGA 60.624 45.833 14.50 0.00 43.47 3.07
1552 4483 0.101759 CTGCATTGTACAGGCATGGC 59.898 55.000 20.29 12.14 36.87 4.40
1603 4534 9.142014 AGAGCATTTAGATCACTACTCACTTAT 57.858 33.333 0.00 0.00 34.30 1.73
1604 4535 8.526667 AGAGCATTTAGATCACTACTCACTTA 57.473 34.615 0.00 0.00 34.30 2.24
1605 4536 7.416964 AGAGCATTTAGATCACTACTCACTT 57.583 36.000 0.00 0.00 34.30 3.16
1606 4537 7.416964 AAGAGCATTTAGATCACTACTCACT 57.583 36.000 0.00 0.00 34.30 3.41
1618 4549 9.261180 CCGTGAAGAAATATAAGAGCATTTAGA 57.739 33.333 0.00 0.00 0.00 2.10
1619 4550 9.261180 TCCGTGAAGAAATATAAGAGCATTTAG 57.739 33.333 0.00 0.00 0.00 1.85
1620 4551 9.261180 CTCCGTGAAGAAATATAAGAGCATTTA 57.739 33.333 0.00 0.00 0.00 1.40
1621 4552 7.770897 ACTCCGTGAAGAAATATAAGAGCATTT 59.229 33.333 0.00 0.00 0.00 2.32
1622 4553 7.275920 ACTCCGTGAAGAAATATAAGAGCATT 58.724 34.615 0.00 0.00 0.00 3.56
1623 4554 6.821388 ACTCCGTGAAGAAATATAAGAGCAT 58.179 36.000 0.00 0.00 0.00 3.79
1624 4555 6.222038 ACTCCGTGAAGAAATATAAGAGCA 57.778 37.500 0.00 0.00 0.00 4.26
1625 4556 7.201145 TGTACTCCGTGAAGAAATATAAGAGC 58.799 38.462 0.00 0.00 0.00 4.09
1626 4557 9.186323 CATGTACTCCGTGAAGAAATATAAGAG 57.814 37.037 0.00 0.00 31.20 2.85
1627 4558 8.909923 TCATGTACTCCGTGAAGAAATATAAGA 58.090 33.333 0.00 0.00 36.14 2.10
1628 4559 9.698309 ATCATGTACTCCGTGAAGAAATATAAG 57.302 33.333 0.00 0.00 42.26 1.73
1630 4561 9.476202 CAATCATGTACTCCGTGAAGAAATATA 57.524 33.333 0.00 0.00 42.26 0.86
1631 4562 7.987458 ACAATCATGTACTCCGTGAAGAAATAT 59.013 33.333 0.00 0.00 42.26 1.28
1632 4563 7.327975 ACAATCATGTACTCCGTGAAGAAATA 58.672 34.615 0.00 0.00 42.26 1.40
1633 4564 6.173339 ACAATCATGTACTCCGTGAAGAAAT 58.827 36.000 0.00 0.00 42.26 2.17
1634 4565 5.547465 ACAATCATGTACTCCGTGAAGAAA 58.453 37.500 0.00 0.00 42.26 2.52
1635 4566 5.147330 ACAATCATGTACTCCGTGAAGAA 57.853 39.130 0.00 0.00 42.26 2.52
1636 4567 4.801330 ACAATCATGTACTCCGTGAAGA 57.199 40.909 0.00 0.00 42.26 2.87
1637 4568 5.408299 TGAAACAATCATGTACTCCGTGAAG 59.592 40.000 0.00 0.00 42.26 3.02
1638 4569 5.301555 TGAAACAATCATGTACTCCGTGAA 58.698 37.500 0.00 0.00 42.26 3.18
1639 4570 4.888917 TGAAACAATCATGTACTCCGTGA 58.111 39.130 0.00 0.00 43.12 4.35
1640 4571 5.179368 ACTTGAAACAATCATGTACTCCGTG 59.821 40.000 0.00 0.00 42.73 4.94
1641 4572 5.305585 ACTTGAAACAATCATGTACTCCGT 58.694 37.500 0.00 0.00 42.73 4.69
1642 4573 5.862924 ACTTGAAACAATCATGTACTCCG 57.137 39.130 0.00 0.00 42.73 4.63
1684 4615 9.074576 TCTTTCTGTCACTGAGTGTACTATTAA 57.925 33.333 12.93 0.00 34.79 1.40
1698 4630 5.607477 TGTCCGTTTATTCTTTCTGTCACT 58.393 37.500 0.00 0.00 0.00 3.41
1719 4651 2.687935 ACAGTTGCACTTTCCGATTTGT 59.312 40.909 0.00 0.00 0.00 2.83
1763 4699 2.789409 ATAACTCTTGGGCAGGTGTC 57.211 50.000 0.00 0.00 0.00 3.67
1767 4703 4.792068 TCCAATAATAACTCTTGGGCAGG 58.208 43.478 0.00 0.00 39.90 4.85
1808 4744 7.405292 AGACTTGGGATTTCATCAGTATTTCA 58.595 34.615 0.00 0.00 0.00 2.69
1814 4750 3.760684 GCAAGACTTGGGATTTCATCAGT 59.239 43.478 16.80 0.00 0.00 3.41
1823 4759 1.425066 TGTTCCAGCAAGACTTGGGAT 59.575 47.619 16.80 0.00 0.00 3.85
1825 4761 1.691196 TTGTTCCAGCAAGACTTGGG 58.309 50.000 16.80 10.29 0.00 4.12
1826 4762 4.460382 ACATATTGTTCCAGCAAGACTTGG 59.540 41.667 16.80 1.16 0.00 3.61
1928 4864 6.043411 AGACAAGGCTTATCGACATACTTTC 58.957 40.000 0.00 0.00 0.00 2.62
1938 4874 4.495422 AGTACACAAGACAAGGCTTATCG 58.505 43.478 0.00 0.00 0.00 2.92
1941 4877 7.395206 TGATACTAGTACACAAGACAAGGCTTA 59.605 37.037 4.31 0.00 0.00 3.09
1956 4892 7.265673 TCCAGACAAAATGCTGATACTAGTAC 58.734 38.462 4.31 0.35 34.06 2.73
1957 4893 7.418337 TCCAGACAAAATGCTGATACTAGTA 57.582 36.000 4.77 4.77 34.06 1.82
1958 4894 6.299805 TCCAGACAAAATGCTGATACTAGT 57.700 37.500 0.00 0.00 34.06 2.57
1959 4895 7.798596 AATCCAGACAAAATGCTGATACTAG 57.201 36.000 0.00 0.00 34.06 2.57
1961 4897 7.039504 ACAAAATCCAGACAAAATGCTGATACT 60.040 33.333 0.00 0.00 34.06 2.12
1962 4898 7.092716 ACAAAATCCAGACAAAATGCTGATAC 58.907 34.615 0.00 0.00 34.06 2.24
1963 4899 7.230849 ACAAAATCCAGACAAAATGCTGATA 57.769 32.000 0.00 0.00 34.06 2.15
1964 4900 6.105397 ACAAAATCCAGACAAAATGCTGAT 57.895 33.333 0.00 0.00 34.06 2.90
1965 4901 5.534207 ACAAAATCCAGACAAAATGCTGA 57.466 34.783 0.00 0.00 34.06 4.26
1966 4902 6.128742 GCTTACAAAATCCAGACAAAATGCTG 60.129 38.462 0.00 0.00 0.00 4.41
1967 4903 5.928264 GCTTACAAAATCCAGACAAAATGCT 59.072 36.000 0.00 0.00 0.00 3.79
1986 4922 9.162764 TCTTGTCTGTCATATTAAAAGGCTTAC 57.837 33.333 0.00 0.00 0.00 2.34
1997 4933 8.517878 CAGGTTCAATTTCTTGTCTGTCATATT 58.482 33.333 0.00 0.00 33.87 1.28
2008 4944 8.517062 AGGATCTATTCAGGTTCAATTTCTTG 57.483 34.615 0.00 0.00 0.00 3.02
2104 5041 2.042464 TCCTATGGACAGCTGGTGATC 58.958 52.381 19.93 6.06 0.00 2.92
2142 5079 4.454728 TGTCCAGCTTTTCAATATTGGC 57.545 40.909 15.36 10.46 0.00 4.52
2161 5098 1.373590 AACCGCACGCACTTTCTTGT 61.374 50.000 0.00 0.00 0.00 3.16
2173 5110 2.559330 CCCGCTGTAAAACCGCAC 59.441 61.111 0.00 0.00 0.00 5.34
2178 5115 2.036571 CCCGTCCCCGCTGTAAAAC 61.037 63.158 0.00 0.00 0.00 2.43
2204 5141 3.316308 GCTGCCAGTCCATTTGTATAAGG 59.684 47.826 0.00 0.00 0.00 2.69
2231 5168 6.261381 TCCCGGAAAATTTACTTATCCAATCG 59.739 38.462 0.73 0.00 0.00 3.34
2258 5195 2.617774 GCTACTAGAGTTAGTGGACGGG 59.382 54.545 0.00 0.00 39.90 5.28
2274 5211 2.753247 CTCTAGGTTTCCCAGGCTACT 58.247 52.381 0.00 0.00 0.00 2.57
2307 5244 8.025445 GCTGTCAGTCAAAATATCAATCAACTT 58.975 33.333 0.93 0.00 0.00 2.66
2388 5325 3.563808 TCATATACCTTTCGTGCCAATGC 59.436 43.478 0.00 0.00 38.26 3.56
2483 5420 3.116531 GCGGCCACGGACAGTAAC 61.117 66.667 2.24 0.00 41.36 2.50
2526 5463 5.888982 TTCTCCCTACTTTGTTCTTCTGT 57.111 39.130 0.00 0.00 0.00 3.41
2650 5587 3.188460 GCTTCCATGCTTTACAAACGAGA 59.812 43.478 0.00 0.00 0.00 4.04
2686 5623 2.030185 GCAACACTCTGGTCTCGAGTTA 60.030 50.000 13.13 0.00 39.59 2.24
3155 6092 3.497118 GTCTGCGATATCTTGAGGATCG 58.503 50.000 0.34 11.15 44.11 3.69
3251 6188 0.324943 ACCTGACACAGCCATGTACC 59.675 55.000 0.00 0.00 37.65 3.34
3720 6657 7.629157 TCCTTATGATTCACTATGAAACCACA 58.371 34.615 0.00 0.00 40.12 4.17
4162 7099 3.295093 TGAATGGTGAGCAACTTGGAAA 58.705 40.909 0.00 0.00 0.00 3.13
4174 7111 2.268920 GCCCTCGCTGAATGGTGA 59.731 61.111 0.00 0.00 0.00 4.02
4335 7272 1.064003 TACTCAAGGCAAGCTGGGAA 58.936 50.000 0.00 0.00 0.00 3.97
4471 7408 5.013495 AGGACTTCAAGTGATGGAAGATTGA 59.987 40.000 0.00 0.00 42.39 2.57
4742 7679 5.048083 GCCCATCTTCTTTGTGTATGTGAAA 60.048 40.000 0.00 0.00 0.00 2.69
5036 7973 6.738114 TGTCCAATCTTAGTTTGAAGCTTTG 58.262 36.000 0.00 0.00 0.00 2.77
5045 7982 5.838521 ACATGGGTTTGTCCAATCTTAGTTT 59.161 36.000 0.00 0.00 40.62 2.66
5063 8005 2.603075 TCCTTTCCTTTCCACATGGG 57.397 50.000 0.00 0.00 35.41 4.00
5108 8050 4.386652 CAGACACAGGCAAATTTACAATGC 59.613 41.667 0.00 0.00 39.33 3.56
5561 8961 1.134250 GTGATTCAGCTTCCTCCCCTC 60.134 57.143 0.00 0.00 0.00 4.30
5631 9031 1.730501 TGCAGATAGCTTGTGAGTGC 58.269 50.000 0.00 0.00 45.94 4.40
5644 9044 4.647853 AGACAATGTTGCCATTATGCAGAT 59.352 37.500 0.00 0.00 43.21 2.90
5852 9254 3.605634 CACGAATCACCCATAACTGGAA 58.394 45.455 0.00 0.00 46.37 3.53


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

AutoCloner maintained by Alex Coulton.