Multiple sequence alignment - TraesCS4B01G141900

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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 TraesCS4B01G141900 chr4B 100.000 5750 0 0 1 5750 187390152 187384403 0.000000e+00 10619
1 TraesCS4B01G141900 chr4B 94.711 5426 227 21 157 5559 382417371 382411983 0.000000e+00 8375
2 TraesCS4B01G141900 chr1B 96.835 5560 171 3 1 5559 492772944 492778499 0.000000e+00 9287
3 TraesCS4B01G141900 chr1B 92.992 1698 91 15 3886 5559 588836222 588834529 0.000000e+00 2451
4 TraesCS4B01G141900 chr7B 96.119 5565 195 10 1 5559 130587003 130592552 0.000000e+00 9060
5 TraesCS4B01G141900 chr7B 94.422 5611 243 31 1 5559 34309162 34303570 0.000000e+00 8564
6 TraesCS4B01G141900 chr7B 94.336 5579 221 26 1 5556 201420487 201425993 0.000000e+00 8464
7 TraesCS4B01G141900 chr7B 94.210 4283 179 24 1 4271 657398871 657403096 0.000000e+00 6471
8 TraesCS4B01G141900 chr7B 93.750 192 12 0 5559 5750 211932458 211932267 7.290000e-74 289
9 TraesCS4B01G141900 chr7B 92.308 195 15 0 5556 5750 233448593 233448787 1.580000e-70 278
10 TraesCS4B01G141900 chr2B 95.845 5584 192 12 1 5559 67269241 67263673 0.000000e+00 8990
11 TraesCS4B01G141900 chr2B 92.854 2057 129 14 1 2050 747121648 747119603 0.000000e+00 2968
12 TraesCS4B01G141900 chr2B 91.200 1125 91 7 1 1123 732943200 732944318 0.000000e+00 1522
13 TraesCS4B01G141900 chr2B 92.308 195 15 0 5556 5750 15287866 15288060 1.580000e-70 278
14 TraesCS4B01G141900 chr6B 96.469 5296 172 7 270 5559 599678078 599672792 0.000000e+00 8730
15 TraesCS4B01G141900 chr6B 95.056 5582 203 29 1 5559 718729573 718735104 0.000000e+00 8711
16 TraesCS4B01G141900 chr6B 94.591 5583 216 35 1 5559 67262739 67268259 0.000000e+00 8558
17 TraesCS4B01G141900 chr6B 93.750 192 12 0 5559 5750 367823395 367823204 7.290000e-74 289
18 TraesCS4B01G141900 chr6B 92.708 192 14 0 5559 5750 131098414 131098223 1.580000e-70 278
19 TraesCS4B01G141900 chr6B 93.122 189 13 0 5559 5747 292746784 292746972 1.580000e-70 278
20 TraesCS4B01G141900 chr3B 91.691 2058 134 15 1 2050 756010086 756008058 0.000000e+00 2819
21 TraesCS4B01G141900 chrUn 93.621 1693 82 13 3886 5559 52477395 52479080 0.000000e+00 2505
22 TraesCS4B01G141900 chrUn 92.188 192 15 0 5559 5750 322432749 322432558 7.340000e-69 272
23 TraesCS4B01G141900 chr2D 93.476 1686 80 14 3886 5552 594640801 594639127 0.000000e+00 2477
24 TraesCS4B01G141900 chr5D 93.081 1691 88 15 3886 5554 424141066 424142749 0.000000e+00 2447
25 TraesCS4B01G141900 chr3A 86.671 1478 134 29 4106 5552 375008032 375006587 0.000000e+00 1580
26 TraesCS4B01G141900 chr5B 92.708 192 14 0 5559 5750 278902389 278902198 1.580000e-70 278
27 TraesCS4B01G141900 chr4A 92.308 195 15 0 5556 5750 676693445 676693639 1.580000e-70 278


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 TraesCS4B01G141900 chr4B 187384403 187390152 5749 True 10619 10619 100.000 1 5750 1 chr4B.!!$R1 5749
1 TraesCS4B01G141900 chr4B 382411983 382417371 5388 True 8375 8375 94.711 157 5559 1 chr4B.!!$R2 5402
2 TraesCS4B01G141900 chr1B 492772944 492778499 5555 False 9287 9287 96.835 1 5559 1 chr1B.!!$F1 5558
3 TraesCS4B01G141900 chr1B 588834529 588836222 1693 True 2451 2451 92.992 3886 5559 1 chr1B.!!$R1 1673
4 TraesCS4B01G141900 chr7B 130587003 130592552 5549 False 9060 9060 96.119 1 5559 1 chr7B.!!$F1 5558
5 TraesCS4B01G141900 chr7B 34303570 34309162 5592 True 8564 8564 94.422 1 5559 1 chr7B.!!$R1 5558
6 TraesCS4B01G141900 chr7B 201420487 201425993 5506 False 8464 8464 94.336 1 5556 1 chr7B.!!$F2 5555
7 TraesCS4B01G141900 chr7B 657398871 657403096 4225 False 6471 6471 94.210 1 4271 1 chr7B.!!$F4 4270
8 TraesCS4B01G141900 chr2B 67263673 67269241 5568 True 8990 8990 95.845 1 5559 1 chr2B.!!$R1 5558
9 TraesCS4B01G141900 chr2B 747119603 747121648 2045 True 2968 2968 92.854 1 2050 1 chr2B.!!$R2 2049
10 TraesCS4B01G141900 chr2B 732943200 732944318 1118 False 1522 1522 91.200 1 1123 1 chr2B.!!$F2 1122
11 TraesCS4B01G141900 chr6B 599672792 599678078 5286 True 8730 8730 96.469 270 5559 1 chr6B.!!$R3 5289
12 TraesCS4B01G141900 chr6B 718729573 718735104 5531 False 8711 8711 95.056 1 5559 1 chr6B.!!$F3 5558
13 TraesCS4B01G141900 chr6B 67262739 67268259 5520 False 8558 8558 94.591 1 5559 1 chr6B.!!$F1 5558
14 TraesCS4B01G141900 chr3B 756008058 756010086 2028 True 2819 2819 91.691 1 2050 1 chr3B.!!$R1 2049
15 TraesCS4B01G141900 chrUn 52477395 52479080 1685 False 2505 2505 93.621 3886 5559 1 chrUn.!!$F1 1673
16 TraesCS4B01G141900 chr2D 594639127 594640801 1674 True 2477 2477 93.476 3886 5552 1 chr2D.!!$R1 1666
17 TraesCS4B01G141900 chr5D 424141066 424142749 1683 False 2447 2447 93.081 3886 5554 1 chr5D.!!$F1 1668
18 TraesCS4B01G141900 chr3A 375006587 375008032 1445 True 1580 1580 86.671 4106 5552 1 chr3A.!!$R1 1446

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
382 386 2.701951 TGGAAGTAGAAACAGGAACGGT 59.298 45.455 0.00 0.0 39.31 4.83 F
1024 1045 1.138036 CATGACAATGTGGCAGGCG 59.862 57.895 0.00 0.0 39.76 5.52 F
1614 1662 1.061421 GTGACGCACTTTGTTCGTGAA 59.939 47.619 0.00 0.0 35.40 3.18 F
3354 3418 1.180029 GGTACCTGCTAAGACGGTGA 58.820 55.000 4.06 0.0 32.36 4.02 F
3642 3710 0.031616 GACCTCCTCCACCTCCAGAT 60.032 60.000 0.00 0.0 0.00 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1614 1662 0.246360 TCACGAGCGGATGATTGTGT 59.754 50.0 0.00 0.0 44.53 3.72 R
2562 2617 0.038599 ACTGCCTCATTGCACCATCA 59.961 50.0 0.00 0.0 36.04 3.07 R
3590 3658 1.056125 ATCATCTGATGGCCCCGTGA 61.056 55.0 17.06 0.0 32.68 4.35 R
4258 4327 0.682532 TGTTCTGTGCAACTGGGCAA 60.683 50.0 0.00 0.0 46.93 4.52 R
5561 5780 0.324943 AGAGTGTGATCCCCCGTTTG 59.675 55.0 0.00 0.0 0.00 2.93 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
81 84 4.630111 TGCATCCTGGAAAATTGAAACAC 58.370 39.130 0.00 0.00 0.00 3.32
118 121 7.760131 AAATTGAACACATTGACTGTCAAAG 57.240 32.000 25.26 22.73 40.12 2.77
295 299 9.884636 AAAGTAGTCACACATATATTGCTTGTA 57.115 29.630 0.00 0.00 0.00 2.41
382 386 2.701951 TGGAAGTAGAAACAGGAACGGT 59.298 45.455 0.00 0.00 39.31 4.83
439 443 8.408601 CAAATTCTTCTTTCTTCTTTCACCTGA 58.591 33.333 0.00 0.00 0.00 3.86
559 564 4.631377 GCAACAAAAGCAGAGGAAAAAGTT 59.369 37.500 0.00 0.00 0.00 2.66
633 638 7.748031 CAAACTGTGCAACTAACATAACAAA 57.252 32.000 0.00 0.00 38.04 2.83
944 965 4.105057 ACCCAACATACCACAAGGAAACTA 59.895 41.667 0.00 0.00 42.68 2.24
955 976 7.514721 ACCACAAGGAAACTAGACAGAAAATA 58.485 34.615 0.00 0.00 42.68 1.40
1024 1045 1.138036 CATGACAATGTGGCAGGCG 59.862 57.895 0.00 0.00 39.76 5.52
1065 1088 2.571212 CCTGTAGTGGTGTCTTTGCAA 58.429 47.619 0.00 0.00 0.00 4.08
1309 1332 9.585369 TCTCTATCAAGATGAACACATCTAGAT 57.415 33.333 12.13 0.00 46.55 1.98
1440 1482 7.504911 CCTATTCCAGATCCAAAATCTGTTGAT 59.495 37.037 12.62 7.07 42.88 2.57
1502 1544 4.017775 TGAAGAGGAGGCTGGTACTAGTAA 60.018 45.833 3.61 0.00 0.00 2.24
1503 1545 4.173290 AGAGGAGGCTGGTACTAGTAAG 57.827 50.000 3.61 0.46 0.00 2.34
1504 1546 3.787013 AGAGGAGGCTGGTACTAGTAAGA 59.213 47.826 3.61 0.00 0.00 2.10
1547 1595 2.605366 GCGAGACAATAAAGCAGACTCC 59.395 50.000 0.00 0.00 0.00 3.85
1614 1662 1.061421 GTGACGCACTTTGTTCGTGAA 59.939 47.619 0.00 0.00 35.40 3.18
1663 1711 8.738645 ACCTTCATTATCCAAATACTTGAGAC 57.261 34.615 0.00 0.00 34.14 3.36
1709 1758 1.731720 AAGGAGTTTCTGCGCATCTC 58.268 50.000 12.24 15.87 0.00 2.75
1963 2015 9.452065 AAAAAGTGCAAACGTGTTTTTAAAAAT 57.548 22.222 16.02 0.00 30.49 1.82
2169 2222 8.450578 TCAGACCAAAGGCAATAACTAATATG 57.549 34.615 0.00 0.00 0.00 1.78
2216 2270 3.285484 CAAAGGAGGGTGATCTGATTGG 58.715 50.000 0.00 0.00 0.00 3.16
2432 2487 3.747708 GCGCCCTTCATAGGAATAAACCT 60.748 47.826 0.00 0.00 45.05 3.50
2438 2493 7.518188 CCCTTCATAGGAATAAACCTACATGT 58.482 38.462 2.69 2.69 45.05 3.21
2452 2507 6.065976 ACCTACATGTCCAATCTTTCATGA 57.934 37.500 0.00 0.00 39.68 3.07
2462 2517 2.198827 TCTTTCATGATGGGTTGCGT 57.801 45.000 0.00 0.00 0.00 5.24
2502 2557 1.202222 GCATCGAGCTTTGATTGGGTG 60.202 52.381 0.01 0.00 41.15 4.61
2530 2585 3.774216 AGCATTCCTAGAGGCTATGGATC 59.226 47.826 0.00 0.00 34.25 3.36
2562 2617 4.186926 CTGACAACTTCATCACCGATCAT 58.813 43.478 0.00 0.00 32.17 2.45
2753 2809 2.154462 CGAGTTTGAGCAGAATTGGGT 58.846 47.619 0.00 0.00 0.00 4.51
2755 2811 3.004734 CGAGTTTGAGCAGAATTGGGTTT 59.995 43.478 0.00 0.00 0.00 3.27
2786 2842 2.096980 TGAAGTACGAGGCTATGACACG 59.903 50.000 0.00 0.00 0.00 4.49
3113 3177 4.001618 AGTTCAGAGAAGAGTTTGAGCC 57.998 45.455 0.00 0.00 0.00 4.70
3354 3418 1.180029 GGTACCTGCTAAGACGGTGA 58.820 55.000 4.06 0.00 32.36 4.02
3641 3709 1.388531 GACCTCCTCCACCTCCAGA 59.611 63.158 0.00 0.00 0.00 3.86
3642 3710 0.031616 GACCTCCTCCACCTCCAGAT 60.032 60.000 0.00 0.00 0.00 2.90
3649 3717 3.116746 TCCTCCACCTCCAGATAGCAATA 60.117 47.826 0.00 0.00 0.00 1.90
3657 3725 1.611673 CCAGATAGCAATAAGGGGGCG 60.612 57.143 0.00 0.00 0.00 6.13
4064 4132 9.502091 AGCATCAAAGATAACACAACTAACTTA 57.498 29.630 0.00 0.00 0.00 2.24
4170 4238 0.331278 CCCAATGGACCTACAGGCAA 59.669 55.000 0.00 0.00 39.32 4.52
4258 4327 5.583854 GTGACTTCAGTTGCACATATCATCT 59.416 40.000 0.00 0.00 0.00 2.90
4566 4663 3.242897 TACCCCGTTGGAGGTTGCG 62.243 63.158 2.07 0.00 37.59 4.85
4660 4762 4.173971 GACGGTACAAATCGGCGT 57.826 55.556 6.85 0.00 0.00 5.68
4661 4763 1.705727 GACGGTACAAATCGGCGTG 59.294 57.895 6.85 0.00 0.00 5.34
4961 5088 4.030216 TGTCCAGTGCTCCTAATGTATCA 58.970 43.478 0.00 0.00 0.00 2.15
5021 5149 7.156000 TGCTACTAGTGTGCAACTACAAAATA 58.844 34.615 18.74 0.00 40.56 1.40
5074 5203 3.940221 CTCCATGGAGCAGAGAAAGAAAG 59.060 47.826 28.45 0.93 35.31 2.62
5143 5272 0.590682 CGCTGTTGTGCATGTTGGTA 59.409 50.000 0.00 0.00 0.00 3.25
5203 5332 0.688487 CCTTGGGTTCGTAGTTGGGA 59.312 55.000 0.00 0.00 0.00 4.37
5271 5400 0.108804 CACTCGTTACTGCGATGGGT 60.109 55.000 0.00 0.00 40.29 4.51
5559 5778 4.568760 GGTAAGAAATTGAGAAGAGAGCCG 59.431 45.833 0.00 0.00 0.00 5.52
5560 5779 3.258971 AGAAATTGAGAAGAGAGCCGG 57.741 47.619 0.00 0.00 0.00 6.13
5561 5780 1.668237 GAAATTGAGAAGAGAGCCGGC 59.332 52.381 21.89 21.89 0.00 6.13
5562 5781 0.615331 AATTGAGAAGAGAGCCGGCA 59.385 50.000 31.54 3.13 0.00 5.69
5563 5782 0.615331 ATTGAGAAGAGAGCCGGCAA 59.385 50.000 31.54 11.21 0.00 4.52
5564 5783 0.396435 TTGAGAAGAGAGCCGGCAAA 59.604 50.000 31.54 5.37 0.00 3.68
5565 5784 0.320771 TGAGAAGAGAGCCGGCAAAC 60.321 55.000 31.54 19.23 0.00 2.93
5566 5785 1.355066 GAGAAGAGAGCCGGCAAACG 61.355 60.000 31.54 0.00 43.80 3.60
5575 5794 3.131478 CGGCAAACGGGGGATCAC 61.131 66.667 0.00 0.00 39.42 3.06
5576 5795 2.034999 GGCAAACGGGGGATCACA 59.965 61.111 0.00 0.00 0.00 3.58
5577 5796 2.340328 GGCAAACGGGGGATCACAC 61.340 63.158 0.00 0.00 0.00 3.82
5578 5797 1.303317 GCAAACGGGGGATCACACT 60.303 57.895 0.00 0.00 0.00 3.55
5579 5798 1.305930 GCAAACGGGGGATCACACTC 61.306 60.000 0.00 0.00 0.00 3.51
5580 5799 0.324943 CAAACGGGGGATCACACTCT 59.675 55.000 0.00 0.00 0.00 3.24
5581 5800 1.064825 AAACGGGGGATCACACTCTT 58.935 50.000 0.00 0.00 0.00 2.85
5582 5801 1.946984 AACGGGGGATCACACTCTTA 58.053 50.000 0.00 0.00 0.00 2.10
5583 5802 1.946984 ACGGGGGATCACACTCTTAA 58.053 50.000 0.00 0.00 0.00 1.85
5584 5803 1.831736 ACGGGGGATCACACTCTTAAG 59.168 52.381 0.00 0.00 0.00 1.85
5585 5804 1.831736 CGGGGGATCACACTCTTAAGT 59.168 52.381 0.00 0.00 35.60 2.24
5586 5805 3.028850 CGGGGGATCACACTCTTAAGTA 58.971 50.000 0.00 0.00 33.25 2.24
5587 5806 3.449737 CGGGGGATCACACTCTTAAGTAA 59.550 47.826 0.00 0.00 33.25 2.24
5588 5807 4.101119 CGGGGGATCACACTCTTAAGTAAT 59.899 45.833 0.00 0.00 33.25 1.89
5589 5808 5.368989 GGGGGATCACACTCTTAAGTAATG 58.631 45.833 1.63 2.47 33.25 1.90
5590 5809 5.130477 GGGGGATCACACTCTTAAGTAATGA 59.870 44.000 1.63 3.53 35.44 2.57
5591 5810 6.183361 GGGGGATCACACTCTTAAGTAATGAT 60.183 42.308 1.63 7.93 40.58 2.45
5592 5811 7.283329 GGGGATCACACTCTTAAGTAATGATT 58.717 38.462 1.63 0.00 39.16 2.57
5593 5812 7.227512 GGGGATCACACTCTTAAGTAATGATTG 59.772 40.741 1.63 0.00 39.16 2.67
5594 5813 7.254932 GGGATCACACTCTTAAGTAATGATTGC 60.255 40.741 1.63 0.00 39.16 3.56
5595 5814 7.280876 GGATCACACTCTTAAGTAATGATTGCA 59.719 37.037 1.63 0.00 39.16 4.08
5596 5815 7.364522 TCACACTCTTAAGTAATGATTGCAC 57.635 36.000 1.63 0.00 33.25 4.57
5597 5816 7.161404 TCACACTCTTAAGTAATGATTGCACT 58.839 34.615 1.63 0.00 33.25 4.40
5598 5817 7.118245 TCACACTCTTAAGTAATGATTGCACTG 59.882 37.037 1.63 0.00 33.25 3.66
5599 5818 6.128172 ACACTCTTAAGTAATGATTGCACTGC 60.128 38.462 1.63 0.00 33.25 4.40
5600 5819 5.939883 ACTCTTAAGTAATGATTGCACTGCA 59.060 36.000 0.00 0.00 32.59 4.41
5601 5820 6.600822 ACTCTTAAGTAATGATTGCACTGCAT 59.399 34.615 4.10 0.00 33.98 3.96
5602 5821 7.121759 ACTCTTAAGTAATGATTGCACTGCATT 59.878 33.333 4.10 0.72 33.98 3.56
5603 5822 7.475015 TCTTAAGTAATGATTGCACTGCATTC 58.525 34.615 15.93 15.93 38.76 2.67
5615 5834 4.006532 GCATTCATGCGCATGTGG 57.993 55.556 40.57 31.48 44.67 4.17
5616 5835 2.235016 GCATTCATGCGCATGTGGC 61.235 57.895 40.57 35.28 44.67 5.01
5617 5836 1.435925 CATTCATGCGCATGTGGCT 59.564 52.632 40.57 24.48 41.67 4.75
5618 5837 0.664224 CATTCATGCGCATGTGGCTA 59.336 50.000 40.57 24.37 41.67 3.93
5619 5838 1.065851 CATTCATGCGCATGTGGCTAA 59.934 47.619 40.57 30.01 41.67 3.09
5620 5839 0.734309 TTCATGCGCATGTGGCTAAG 59.266 50.000 40.57 19.91 41.67 2.18
5621 5840 1.096967 TCATGCGCATGTGGCTAAGG 61.097 55.000 40.57 19.23 41.67 2.69
5622 5841 1.825191 ATGCGCATGTGGCTAAGGG 60.825 57.895 24.69 0.00 41.67 3.95
5623 5842 2.438434 GCGCATGTGGCTAAGGGT 60.438 61.111 8.62 0.00 41.67 4.34
5624 5843 2.472909 GCGCATGTGGCTAAGGGTC 61.473 63.158 8.62 0.00 41.67 4.46
5625 5844 1.819632 CGCATGTGGCTAAGGGTCC 60.820 63.158 0.00 0.00 41.67 4.46
5626 5845 1.819632 GCATGTGGCTAAGGGTCCG 60.820 63.158 0.00 0.00 40.25 4.79
5627 5846 1.153168 CATGTGGCTAAGGGTCCGG 60.153 63.158 0.00 0.00 0.00 5.14
5628 5847 3.043999 ATGTGGCTAAGGGTCCGGC 62.044 63.158 0.00 0.00 0.00 6.13
5629 5848 4.832608 GTGGCTAAGGGTCCGGCG 62.833 72.222 0.00 0.00 0.00 6.46
5633 5852 4.530857 CTAAGGGTCCGGCGGCAG 62.531 72.222 23.83 7.06 0.00 4.85
5647 5866 4.373116 GCAGACCGGACCGCTGAA 62.373 66.667 21.39 0.00 0.00 3.02
5648 5867 2.125912 CAGACCGGACCGCTGAAG 60.126 66.667 9.46 0.86 0.00 3.02
5649 5868 2.600769 AGACCGGACCGCTGAAGT 60.601 61.111 9.46 0.00 0.00 3.01
5650 5869 2.126031 GACCGGACCGCTGAAGTC 60.126 66.667 9.46 6.41 0.00 3.01
5651 5870 3.966026 GACCGGACCGCTGAAGTCG 62.966 68.421 9.46 0.00 34.97 4.18
5655 5874 4.415332 GACCGCTGAAGTCGCCGA 62.415 66.667 0.00 0.00 0.00 5.54
5656 5875 3.909258 GACCGCTGAAGTCGCCGAA 62.909 63.158 0.00 0.00 0.00 4.30
5657 5876 3.479269 CCGCTGAAGTCGCCGAAC 61.479 66.667 0.00 0.00 0.00 3.95
5658 5877 2.430921 CGCTGAAGTCGCCGAACT 60.431 61.111 0.00 0.00 0.00 3.01
5659 5878 2.720758 CGCTGAAGTCGCCGAACTG 61.721 63.158 0.00 0.00 0.00 3.16
5660 5879 1.372997 GCTGAAGTCGCCGAACTGA 60.373 57.895 0.00 0.00 0.00 3.41
5661 5880 1.347817 GCTGAAGTCGCCGAACTGAG 61.348 60.000 0.00 0.00 0.00 3.35
5662 5881 0.734253 CTGAAGTCGCCGAACTGAGG 60.734 60.000 0.00 0.00 0.00 3.86
5668 5887 2.811317 GCCGAACTGAGGCGACAG 60.811 66.667 11.82 11.82 45.58 3.51
5669 5888 2.962569 CCGAACTGAGGCGACAGA 59.037 61.111 18.28 0.00 40.63 3.41
5670 5889 1.513158 CCGAACTGAGGCGACAGAT 59.487 57.895 18.28 8.96 40.63 2.90
5671 5890 0.108615 CCGAACTGAGGCGACAGATT 60.109 55.000 18.28 10.37 40.63 2.40
5672 5891 0.994995 CGAACTGAGGCGACAGATTG 59.005 55.000 18.28 9.03 40.63 2.67
5673 5892 1.402852 CGAACTGAGGCGACAGATTGA 60.403 52.381 18.28 0.00 40.63 2.57
5674 5893 2.688507 GAACTGAGGCGACAGATTGAA 58.311 47.619 18.28 0.00 40.63 2.69
5675 5894 2.839486 ACTGAGGCGACAGATTGAAA 57.161 45.000 18.28 0.00 40.63 2.69
5676 5895 3.340814 ACTGAGGCGACAGATTGAAAT 57.659 42.857 18.28 0.00 40.63 2.17
5677 5896 3.679389 ACTGAGGCGACAGATTGAAATT 58.321 40.909 18.28 0.00 40.63 1.82
5678 5897 3.438087 ACTGAGGCGACAGATTGAAATTG 59.562 43.478 18.28 0.00 40.63 2.32
5679 5898 3.411446 TGAGGCGACAGATTGAAATTGT 58.589 40.909 0.00 0.00 0.00 2.71
5680 5899 3.189080 TGAGGCGACAGATTGAAATTGTG 59.811 43.478 0.00 0.00 0.00 3.33
5681 5900 2.489329 AGGCGACAGATTGAAATTGTGG 59.511 45.455 0.00 0.00 0.00 4.17
5682 5901 2.487762 GGCGACAGATTGAAATTGTGGA 59.512 45.455 0.00 0.00 0.00 4.02
5683 5902 3.492313 GCGACAGATTGAAATTGTGGAC 58.508 45.455 0.00 0.00 0.00 4.02
5684 5903 3.736213 CGACAGATTGAAATTGTGGACG 58.264 45.455 0.00 0.00 0.00 4.79
5685 5904 3.492313 GACAGATTGAAATTGTGGACGC 58.508 45.455 0.00 0.00 0.00 5.19
5686 5905 2.228822 ACAGATTGAAATTGTGGACGCC 59.771 45.455 0.00 0.00 0.00 5.68
5687 5906 1.468520 AGATTGAAATTGTGGACGCCG 59.531 47.619 0.00 0.00 0.00 6.46
5688 5907 1.466950 GATTGAAATTGTGGACGCCGA 59.533 47.619 0.00 0.00 0.00 5.54
5689 5908 0.589223 TTGAAATTGTGGACGCCGAC 59.411 50.000 0.00 0.00 0.00 4.79
5690 5909 0.533085 TGAAATTGTGGACGCCGACA 60.533 50.000 0.00 0.00 0.00 4.35
5691 5910 0.802494 GAAATTGTGGACGCCGACAT 59.198 50.000 0.00 0.00 0.00 3.06
5692 5911 0.802494 AAATTGTGGACGCCGACATC 59.198 50.000 0.00 0.00 0.00 3.06
5693 5912 0.321210 AATTGTGGACGCCGACATCA 60.321 50.000 0.00 0.00 0.00 3.07
5694 5913 1.019278 ATTGTGGACGCCGACATCAC 61.019 55.000 0.00 0.00 0.00 3.06
5695 5914 2.048597 GTGGACGCCGACATCACA 60.049 61.111 0.00 0.00 0.00 3.58
5696 5915 2.048597 TGGACGCCGACATCACAC 60.049 61.111 0.00 0.00 0.00 3.82
5697 5916 2.261671 GGACGCCGACATCACACT 59.738 61.111 0.00 0.00 0.00 3.55
5698 5917 1.374252 GGACGCCGACATCACACTT 60.374 57.895 0.00 0.00 0.00 3.16
5699 5918 0.108992 GGACGCCGACATCACACTTA 60.109 55.000 0.00 0.00 0.00 2.24
5700 5919 1.470979 GGACGCCGACATCACACTTAT 60.471 52.381 0.00 0.00 0.00 1.73
5701 5920 1.588404 GACGCCGACATCACACTTATG 59.412 52.381 0.00 0.00 0.00 1.90
5702 5921 1.203758 ACGCCGACATCACACTTATGA 59.796 47.619 0.00 0.00 0.00 2.15
5703 5922 2.267426 CGCCGACATCACACTTATGAA 58.733 47.619 0.00 0.00 30.82 2.57
5704 5923 2.029244 CGCCGACATCACACTTATGAAC 59.971 50.000 0.00 0.00 30.82 3.18
5705 5924 2.029244 GCCGACATCACACTTATGAACG 59.971 50.000 0.00 0.00 30.82 3.95
5706 5925 3.507786 CCGACATCACACTTATGAACGA 58.492 45.455 0.00 0.00 33.43 3.85
5707 5926 3.924073 CCGACATCACACTTATGAACGAA 59.076 43.478 0.00 0.00 33.43 3.85
5708 5927 4.201589 CCGACATCACACTTATGAACGAAC 60.202 45.833 0.00 0.00 33.43 3.95
5709 5928 4.384547 CGACATCACACTTATGAACGAACA 59.615 41.667 0.00 0.00 33.43 3.18
5710 5929 5.443301 CGACATCACACTTATGAACGAACAG 60.443 44.000 0.00 0.00 33.43 3.16
5711 5930 4.152402 ACATCACACTTATGAACGAACAGC 59.848 41.667 0.00 0.00 30.82 4.40
5712 5931 3.990092 TCACACTTATGAACGAACAGCT 58.010 40.909 0.00 0.00 0.00 4.24
5713 5932 4.377021 TCACACTTATGAACGAACAGCTT 58.623 39.130 0.00 0.00 0.00 3.74
5714 5933 5.534407 TCACACTTATGAACGAACAGCTTA 58.466 37.500 0.00 0.00 0.00 3.09
5715 5934 5.986741 TCACACTTATGAACGAACAGCTTAA 59.013 36.000 0.00 0.00 0.00 1.85
5716 5935 6.071463 CACACTTATGAACGAACAGCTTAAC 58.929 40.000 0.00 0.00 0.00 2.01
5717 5936 5.107607 ACACTTATGAACGAACAGCTTAACG 60.108 40.000 0.00 0.00 0.00 3.18
5718 5937 5.118050 CACTTATGAACGAACAGCTTAACGA 59.882 40.000 9.58 0.00 0.00 3.85
5719 5938 5.345202 ACTTATGAACGAACAGCTTAACGAG 59.655 40.000 9.58 0.00 0.00 4.18
5720 5939 3.088194 TGAACGAACAGCTTAACGAGT 57.912 42.857 9.58 0.00 0.00 4.18
5721 5940 3.047796 TGAACGAACAGCTTAACGAGTC 58.952 45.455 9.58 7.19 0.00 3.36
5722 5941 2.787601 ACGAACAGCTTAACGAGTCA 57.212 45.000 9.58 0.00 0.00 3.41
5723 5942 2.391879 ACGAACAGCTTAACGAGTCAC 58.608 47.619 9.58 0.00 0.00 3.67
5724 5943 2.223641 ACGAACAGCTTAACGAGTCACA 60.224 45.455 9.58 0.00 0.00 3.58
5725 5944 2.792674 CGAACAGCTTAACGAGTCACAA 59.207 45.455 0.00 0.00 0.00 3.33
5726 5945 3.244345 CGAACAGCTTAACGAGTCACAAA 59.756 43.478 0.00 0.00 0.00 2.83
5727 5946 4.606232 CGAACAGCTTAACGAGTCACAAAG 60.606 45.833 0.00 0.00 0.00 2.77
5728 5947 3.793559 ACAGCTTAACGAGTCACAAAGT 58.206 40.909 0.00 0.00 0.00 2.66
5729 5948 4.940463 ACAGCTTAACGAGTCACAAAGTA 58.060 39.130 0.00 0.00 0.00 2.24
5730 5949 5.539048 ACAGCTTAACGAGTCACAAAGTAT 58.461 37.500 0.00 0.00 0.00 2.12
5731 5950 5.405571 ACAGCTTAACGAGTCACAAAGTATG 59.594 40.000 0.00 0.00 0.00 2.39
5732 5951 5.405571 CAGCTTAACGAGTCACAAAGTATGT 59.594 40.000 0.00 0.00 45.34 2.29
5744 5963 5.438761 ACAAAGTATGTGCTCTGTTTTCC 57.561 39.130 0.00 0.00 41.93 3.13
5745 5964 5.133221 ACAAAGTATGTGCTCTGTTTTCCT 58.867 37.500 0.00 0.00 41.93 3.36
5746 5965 5.594317 ACAAAGTATGTGCTCTGTTTTCCTT 59.406 36.000 0.00 0.00 41.93 3.36
5747 5966 6.770785 ACAAAGTATGTGCTCTGTTTTCCTTA 59.229 34.615 0.00 0.00 41.93 2.69
5748 5967 7.448469 ACAAAGTATGTGCTCTGTTTTCCTTAT 59.552 33.333 0.00 0.00 41.93 1.73
5749 5968 8.299570 CAAAGTATGTGCTCTGTTTTCCTTATT 58.700 33.333 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 84 9.643693 AATGTGTTCAATTTTTGCTAGAATAGG 57.356 29.630 0.00 0.00 39.70 2.57
118 121 2.383368 TGGCCAGCATGCAAATTTAC 57.617 45.000 21.98 3.69 31.97 2.01
295 299 5.130311 TGTGCTACCAGAATATATGTGTGGT 59.870 40.000 14.96 14.96 43.93 4.16
944 965 9.877178 AGTAAACAGATCGAATATTTTCTGTCT 57.123 29.630 20.66 14.33 45.98 3.41
955 976 4.740268 TGCGTGTAGTAAACAGATCGAAT 58.260 39.130 0.00 0.00 39.29 3.34
1024 1045 2.040544 CACCACGGGTTGATGGCTC 61.041 63.158 0.00 0.00 39.84 4.70
1157 1180 4.384056 CTCTCCTTCTTCTTCTTGCACAA 58.616 43.478 0.00 0.00 0.00 3.33
1309 1332 3.575247 ATTGGTGCGGGGTGTCCA 61.575 61.111 0.00 0.00 34.36 4.02
1440 1482 7.419518 GGTTCTTCTTCCATCTCCTCATCATTA 60.420 40.741 0.00 0.00 0.00 1.90
1502 1544 5.007136 CGTTTGTGCTTCTTCTTCTTCTTCT 59.993 40.000 0.00 0.00 0.00 2.85
1503 1545 5.201181 CGTTTGTGCTTCTTCTTCTTCTTC 58.799 41.667 0.00 0.00 0.00 2.87
1504 1546 4.496507 GCGTTTGTGCTTCTTCTTCTTCTT 60.497 41.667 0.00 0.00 0.00 2.52
1547 1595 1.189884 CCAACATTTTCGCTTTGCACG 59.810 47.619 0.00 0.00 0.00 5.34
1614 1662 0.246360 TCACGAGCGGATGATTGTGT 59.754 50.000 0.00 0.00 44.53 3.72
1663 1711 1.379044 GTGAGATGCCTTGGTGGGG 60.379 63.158 0.00 0.00 36.00 4.96
1709 1758 5.288712 CCTGTAGTCAAGTTGCAGTTATACG 59.711 44.000 0.00 0.00 0.00 3.06
1949 2001 7.540745 ACCTAGCTGCATATTTTTAAAAACACG 59.459 33.333 15.35 7.86 0.00 4.49
1963 2015 3.433598 GGAAATGGACACCTAGCTGCATA 60.434 47.826 1.02 0.00 0.00 3.14
2169 2222 5.572126 GTCATCTCTACGGAAACTTGTACAC 59.428 44.000 0.00 0.00 0.00 2.90
2216 2270 1.666888 CCTTGAAGTGCGCAATTGTCC 60.667 52.381 29.42 14.23 0.00 4.02
2432 2487 5.829391 CCCATCATGAAAGATTGGACATGTA 59.171 40.000 12.92 0.00 40.32 2.29
2438 2493 3.448301 GCAACCCATCATGAAAGATTGGA 59.552 43.478 12.92 0.00 35.10 3.53
2452 2507 0.667993 CTCACAAACACGCAACCCAT 59.332 50.000 0.00 0.00 0.00 4.00
2462 2517 1.679139 CAACTCCTGCCTCACAAACA 58.321 50.000 0.00 0.00 0.00 2.83
2502 2557 2.092699 AGCCTCTAGGAATGCTCCAAAC 60.093 50.000 0.00 0.00 45.24 2.93
2530 2585 1.264288 GAAGTTGTCAGGAGGTTTGCG 59.736 52.381 0.00 0.00 0.00 4.85
2562 2617 0.038599 ACTGCCTCATTGCACCATCA 59.961 50.000 0.00 0.00 36.04 3.07
2753 2809 4.998672 CCTCGTACTTCACCATTAACCAAA 59.001 41.667 0.00 0.00 0.00 3.28
2755 2811 3.618019 GCCTCGTACTTCACCATTAACCA 60.618 47.826 0.00 0.00 0.00 3.67
2786 2842 3.360249 ACAACTTCTCAAAGTGCATGC 57.640 42.857 11.82 11.82 45.07 4.06
2991 3055 6.653320 GGTGTTCTGTCCTGTAATCATTACAA 59.347 38.462 11.43 0.00 44.80 2.41
2994 3058 6.620877 AGGTGTTCTGTCCTGTAATCATTA 57.379 37.500 0.00 0.00 32.29 1.90
3113 3177 5.049749 TGGAATGCATTATAACGTCCAATCG 60.050 40.000 12.97 0.00 0.00 3.34
3590 3658 1.056125 ATCATCTGATGGCCCCGTGA 61.056 55.000 17.06 0.00 32.68 4.35
3641 3709 0.405585 ATGCGCCCCCTTATTGCTAT 59.594 50.000 4.18 0.00 0.00 2.97
3642 3710 0.184933 AATGCGCCCCCTTATTGCTA 59.815 50.000 4.18 0.00 0.00 3.49
3649 3717 1.151450 CTGGATAATGCGCCCCCTT 59.849 57.895 4.18 0.00 0.00 3.95
3904 3972 0.474466 CCTGGATGATGAGGCCCCTA 60.474 60.000 0.00 0.00 0.00 3.53
4064 4132 4.475016 ACCTATAGCCAGAACAGGACAAAT 59.525 41.667 0.00 0.00 0.00 2.32
4170 4238 0.980231 GTGATGAGCCCCCTGAGTCT 60.980 60.000 0.00 0.00 0.00 3.24
4258 4327 0.682532 TGTTCTGTGCAACTGGGCAA 60.683 50.000 0.00 0.00 46.93 4.52
4341 4413 2.645838 ATCGCTTATGGGCAGAACAT 57.354 45.000 0.00 0.00 0.00 2.71
4566 4663 1.073897 AGAAGCTTGTGCAGGGGAC 59.926 57.895 2.10 0.00 42.74 4.46
4661 4763 1.628846 TCTTCTTTGGGTGTAGCTCCC 59.371 52.381 1.85 1.85 44.81 4.30
4961 5088 6.256321 GCAAGTCAATGTCATCACTTTTGTTT 59.744 34.615 7.20 0.00 0.00 2.83
5021 5149 5.277925 GCTGGTTTGCACAATTTTTAAGCAT 60.278 36.000 0.00 0.00 34.87 3.79
5074 5203 4.591929 ACAAGGACTAGGTCAGTACTCTC 58.408 47.826 0.00 0.00 46.35 3.20
5143 5272 0.921896 AGCTGGCATATGACTGGGTT 59.078 50.000 16.39 0.00 0.00 4.11
5203 5332 0.763035 AGTGGAACGGTAGCCAACTT 59.237 50.000 4.45 0.00 45.86 2.66
5559 5778 2.034999 TGTGATCCCCCGTTTGCC 59.965 61.111 0.00 0.00 0.00 4.52
5560 5779 1.303317 AGTGTGATCCCCCGTTTGC 60.303 57.895 0.00 0.00 0.00 3.68
5561 5780 0.324943 AGAGTGTGATCCCCCGTTTG 59.675 55.000 0.00 0.00 0.00 2.93
5562 5781 1.064825 AAGAGTGTGATCCCCCGTTT 58.935 50.000 0.00 0.00 0.00 3.60
5563 5782 1.946984 TAAGAGTGTGATCCCCCGTT 58.053 50.000 0.00 0.00 0.00 4.44
5564 5783 1.831736 CTTAAGAGTGTGATCCCCCGT 59.168 52.381 0.00 0.00 0.00 5.28
5565 5784 1.831736 ACTTAAGAGTGTGATCCCCCG 59.168 52.381 10.09 0.00 33.99 5.73
5566 5785 5.130477 TCATTACTTAAGAGTGTGATCCCCC 59.870 44.000 10.09 0.00 36.60 5.40
5567 5786 6.235231 TCATTACTTAAGAGTGTGATCCCC 57.765 41.667 10.09 0.00 36.60 4.81
5568 5787 7.254932 GCAATCATTACTTAAGAGTGTGATCCC 60.255 40.741 10.09 4.86 39.53 3.85
5569 5788 7.280876 TGCAATCATTACTTAAGAGTGTGATCC 59.719 37.037 10.09 8.32 39.53 3.36
5570 5789 8.119226 GTGCAATCATTACTTAAGAGTGTGATC 58.881 37.037 10.09 3.88 39.53 2.92
5571 5790 7.826252 AGTGCAATCATTACTTAAGAGTGTGAT 59.174 33.333 10.09 9.89 40.87 3.06
5572 5791 7.118245 CAGTGCAATCATTACTTAAGAGTGTGA 59.882 37.037 10.09 8.07 36.60 3.58
5573 5792 7.239271 CAGTGCAATCATTACTTAAGAGTGTG 58.761 38.462 10.09 2.85 36.60 3.82
5574 5793 6.128172 GCAGTGCAATCATTACTTAAGAGTGT 60.128 38.462 11.09 0.00 36.60 3.55
5575 5794 6.128200 TGCAGTGCAATCATTACTTAAGAGTG 60.128 38.462 17.26 4.96 34.74 3.51
5576 5795 5.939883 TGCAGTGCAATCATTACTTAAGAGT 59.060 36.000 17.26 0.00 36.29 3.24
5577 5796 6.426980 TGCAGTGCAATCATTACTTAAGAG 57.573 37.500 17.26 0.00 34.76 2.85
5578 5797 7.121020 TGAATGCAGTGCAATCATTACTTAAGA 59.879 33.333 27.95 5.25 42.50 2.10
5579 5798 7.252708 TGAATGCAGTGCAATCATTACTTAAG 58.747 34.615 27.95 0.00 42.50 1.85
5580 5799 7.155655 TGAATGCAGTGCAATCATTACTTAA 57.844 32.000 27.95 6.62 42.50 1.85
5581 5800 6.756299 TGAATGCAGTGCAATCATTACTTA 57.244 33.333 27.95 7.32 42.50 2.24
5582 5801 5.648178 TGAATGCAGTGCAATCATTACTT 57.352 34.783 27.95 13.26 42.50 2.24
5599 5818 4.006532 GCCACATGCGCATGAATG 57.993 55.556 46.90 35.85 41.20 2.67
5608 5827 1.819632 CGGACCCTTAGCCACATGC 60.820 63.158 0.00 0.00 41.71 4.06
5609 5828 1.153168 CCGGACCCTTAGCCACATG 60.153 63.158 0.00 0.00 0.00 3.21
5610 5829 3.043999 GCCGGACCCTTAGCCACAT 62.044 63.158 5.05 0.00 0.00 3.21
5611 5830 3.712907 GCCGGACCCTTAGCCACA 61.713 66.667 5.05 0.00 0.00 4.17
5612 5831 4.832608 CGCCGGACCCTTAGCCAC 62.833 72.222 5.05 0.00 0.00 5.01
5616 5835 4.530857 CTGCCGCCGGACCCTTAG 62.531 72.222 7.68 0.00 0.00 2.18
5630 5849 4.373116 TTCAGCGGTCCGGTCTGC 62.373 66.667 22.97 22.97 34.62 4.26
5631 5850 2.125912 CTTCAGCGGTCCGGTCTG 60.126 66.667 14.27 12.62 34.62 3.51
5632 5851 2.600769 ACTTCAGCGGTCCGGTCT 60.601 61.111 14.27 0.00 34.62 3.85
5633 5852 2.126031 GACTTCAGCGGTCCGGTC 60.126 66.667 14.27 7.44 34.62 4.79
5634 5853 4.052229 CGACTTCAGCGGTCCGGT 62.052 66.667 10.91 10.91 38.40 5.28
5638 5857 3.909258 TTCGGCGACTTCAGCGGTC 62.909 63.158 10.16 0.00 36.50 4.79
5639 5858 3.986006 TTCGGCGACTTCAGCGGT 61.986 61.111 10.16 0.00 36.50 5.68
5640 5859 3.479269 GTTCGGCGACTTCAGCGG 61.479 66.667 10.16 0.00 36.46 5.52
5641 5860 2.430921 AGTTCGGCGACTTCAGCG 60.431 61.111 10.16 0.00 35.00 5.18
5642 5861 1.347817 CTCAGTTCGGCGACTTCAGC 61.348 60.000 10.16 0.00 0.00 4.26
5643 5862 0.734253 CCTCAGTTCGGCGACTTCAG 60.734 60.000 10.16 3.45 0.00 3.02
5644 5863 1.289066 CCTCAGTTCGGCGACTTCA 59.711 57.895 10.16 0.00 0.00 3.02
5645 5864 2.095252 GCCTCAGTTCGGCGACTTC 61.095 63.158 10.16 3.18 37.87 3.01
5646 5865 2.048127 GCCTCAGTTCGGCGACTT 60.048 61.111 10.16 0.00 37.87 3.01
5651 5870 2.564553 ATCTGTCGCCTCAGTTCGGC 62.565 60.000 0.00 0.00 44.11 5.54
5652 5871 0.108615 AATCTGTCGCCTCAGTTCGG 60.109 55.000 3.33 0.00 36.85 4.30
5653 5872 0.994995 CAATCTGTCGCCTCAGTTCG 59.005 55.000 3.33 0.00 36.85 3.95
5654 5873 2.370281 TCAATCTGTCGCCTCAGTTC 57.630 50.000 3.33 0.00 36.85 3.01
5655 5874 2.839486 TTCAATCTGTCGCCTCAGTT 57.161 45.000 3.33 0.00 36.85 3.16
5656 5875 2.839486 TTTCAATCTGTCGCCTCAGT 57.161 45.000 3.33 0.00 36.85 3.41
5657 5876 3.438087 ACAATTTCAATCTGTCGCCTCAG 59.562 43.478 0.00 0.00 36.85 3.35
5658 5877 3.189080 CACAATTTCAATCTGTCGCCTCA 59.811 43.478 0.00 0.00 0.00 3.86
5659 5878 3.426695 CCACAATTTCAATCTGTCGCCTC 60.427 47.826 0.00 0.00 0.00 4.70
5660 5879 2.489329 CCACAATTTCAATCTGTCGCCT 59.511 45.455 0.00 0.00 0.00 5.52
5661 5880 2.487762 TCCACAATTTCAATCTGTCGCC 59.512 45.455 0.00 0.00 0.00 5.54
5662 5881 3.492313 GTCCACAATTTCAATCTGTCGC 58.508 45.455 0.00 0.00 0.00 5.19
5663 5882 3.736213 CGTCCACAATTTCAATCTGTCG 58.264 45.455 0.00 0.00 0.00 4.35
5664 5883 3.492313 GCGTCCACAATTTCAATCTGTC 58.508 45.455 0.00 0.00 0.00 3.51
5665 5884 2.228822 GGCGTCCACAATTTCAATCTGT 59.771 45.455 0.00 0.00 0.00 3.41
5666 5885 2.728846 CGGCGTCCACAATTTCAATCTG 60.729 50.000 0.00 0.00 0.00 2.90
5667 5886 1.468520 CGGCGTCCACAATTTCAATCT 59.531 47.619 0.00 0.00 0.00 2.40
5668 5887 1.466950 TCGGCGTCCACAATTTCAATC 59.533 47.619 6.85 0.00 0.00 2.67
5669 5888 1.199097 GTCGGCGTCCACAATTTCAAT 59.801 47.619 6.85 0.00 0.00 2.57
5670 5889 0.589223 GTCGGCGTCCACAATTTCAA 59.411 50.000 6.85 0.00 0.00 2.69
5671 5890 0.533085 TGTCGGCGTCCACAATTTCA 60.533 50.000 6.85 0.00 0.00 2.69
5672 5891 0.802494 ATGTCGGCGTCCACAATTTC 59.198 50.000 6.85 0.00 0.00 2.17
5673 5892 0.802494 GATGTCGGCGTCCACAATTT 59.198 50.000 6.85 0.00 0.00 1.82
5674 5893 0.321210 TGATGTCGGCGTCCACAATT 60.321 50.000 6.80 0.00 0.00 2.32
5675 5894 1.019278 GTGATGTCGGCGTCCACAAT 61.019 55.000 6.80 0.00 0.00 2.71
5676 5895 1.666553 GTGATGTCGGCGTCCACAA 60.667 57.895 6.80 0.00 0.00 3.33
5677 5896 2.048597 GTGATGTCGGCGTCCACA 60.049 61.111 6.80 4.27 0.00 4.17
5678 5897 2.048597 TGTGATGTCGGCGTCCAC 60.049 61.111 6.80 11.20 0.00 4.02
5679 5898 2.048597 GTGTGATGTCGGCGTCCA 60.049 61.111 6.80 5.56 0.00 4.02
5680 5899 0.108992 TAAGTGTGATGTCGGCGTCC 60.109 55.000 6.80 0.00 0.00 4.79
5681 5900 1.588404 CATAAGTGTGATGTCGGCGTC 59.412 52.381 6.85 1.22 0.00 5.19
5682 5901 1.203758 TCATAAGTGTGATGTCGGCGT 59.796 47.619 6.85 0.00 0.00 5.68
5683 5902 1.921243 TCATAAGTGTGATGTCGGCG 58.079 50.000 0.00 0.00 0.00 6.46
5684 5903 2.029244 CGTTCATAAGTGTGATGTCGGC 59.971 50.000 0.00 0.00 0.00 5.54
5685 5904 3.507786 TCGTTCATAAGTGTGATGTCGG 58.492 45.455 0.00 0.00 0.00 4.79
5686 5905 4.384547 TGTTCGTTCATAAGTGTGATGTCG 59.615 41.667 0.00 0.00 0.00 4.35
5687 5906 5.668866 GCTGTTCGTTCATAAGTGTGATGTC 60.669 44.000 0.00 0.00 0.00 3.06
5688 5907 4.152402 GCTGTTCGTTCATAAGTGTGATGT 59.848 41.667 0.00 0.00 0.00 3.06
5689 5908 4.389992 AGCTGTTCGTTCATAAGTGTGATG 59.610 41.667 0.00 0.00 0.00 3.07
5690 5909 4.569943 AGCTGTTCGTTCATAAGTGTGAT 58.430 39.130 0.00 0.00 0.00 3.06
5691 5910 3.990092 AGCTGTTCGTTCATAAGTGTGA 58.010 40.909 0.00 0.00 0.00 3.58
5692 5911 4.732285 AAGCTGTTCGTTCATAAGTGTG 57.268 40.909 0.00 0.00 0.00 3.82
5693 5912 5.107607 CGTTAAGCTGTTCGTTCATAAGTGT 60.108 40.000 0.00 0.00 0.00 3.55
5694 5913 5.118050 TCGTTAAGCTGTTCGTTCATAAGTG 59.882 40.000 0.00 0.00 0.00 3.16
5695 5914 5.224888 TCGTTAAGCTGTTCGTTCATAAGT 58.775 37.500 0.00 0.00 0.00 2.24
5696 5915 5.345202 ACTCGTTAAGCTGTTCGTTCATAAG 59.655 40.000 0.00 0.00 0.00 1.73
5697 5916 5.224888 ACTCGTTAAGCTGTTCGTTCATAA 58.775 37.500 0.00 0.00 0.00 1.90
5698 5917 4.801891 ACTCGTTAAGCTGTTCGTTCATA 58.198 39.130 0.00 0.00 0.00 2.15
5699 5918 3.650139 ACTCGTTAAGCTGTTCGTTCAT 58.350 40.909 0.00 0.00 0.00 2.57
5700 5919 3.047796 GACTCGTTAAGCTGTTCGTTCA 58.952 45.455 0.00 0.00 0.00 3.18
5701 5920 3.047796 TGACTCGTTAAGCTGTTCGTTC 58.952 45.455 0.00 0.00 0.00 3.95
5702 5921 2.793232 GTGACTCGTTAAGCTGTTCGTT 59.207 45.455 0.00 0.00 0.00 3.85
5703 5922 2.223641 TGTGACTCGTTAAGCTGTTCGT 60.224 45.455 0.00 0.00 0.00 3.85
5704 5923 2.390938 TGTGACTCGTTAAGCTGTTCG 58.609 47.619 0.00 0.00 0.00 3.95
5705 5924 4.270325 ACTTTGTGACTCGTTAAGCTGTTC 59.730 41.667 0.00 0.00 0.00 3.18
5706 5925 4.189231 ACTTTGTGACTCGTTAAGCTGTT 58.811 39.130 0.00 0.00 0.00 3.16
5707 5926 3.793559 ACTTTGTGACTCGTTAAGCTGT 58.206 40.909 0.00 0.00 0.00 4.40
5708 5927 5.405571 ACATACTTTGTGACTCGTTAAGCTG 59.594 40.000 0.00 0.00 37.11 4.24
5709 5928 5.539048 ACATACTTTGTGACTCGTTAAGCT 58.461 37.500 0.00 0.00 37.11 3.74
5710 5929 5.840940 ACATACTTTGTGACTCGTTAAGC 57.159 39.130 0.00 0.00 37.11 3.09
5722 5941 5.133221 AGGAAAACAGAGCACATACTTTGT 58.867 37.500 0.00 0.00 36.62 2.83
5723 5942 5.695851 AGGAAAACAGAGCACATACTTTG 57.304 39.130 0.00 0.00 0.00 2.77
5724 5943 8.409358 AATAAGGAAAACAGAGCACATACTTT 57.591 30.769 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.