Multiple sequence alignment - TraesCS1B01G445700

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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 TraesCS1B01G445700 chr1B 100.000 5571 0 0 1 5571 665799448 665793878 0.000000e+00 10288.0
1 TraesCS1B01G445700 chr1B 94.934 533 25 1 5037 5569 169669038 169669568 0.000000e+00 833.0
2 TraesCS1B01G445700 chr1B 91.541 532 43 1 5038 5569 449262809 449263338 0.000000e+00 732.0
3 TraesCS1B01G445700 chr1D 96.261 3905 73 30 1050 4925 478229364 478225504 0.000000e+00 6335.0
4 TraesCS1B01G445700 chr1D 93.262 564 12 4 365 902 478230297 478229734 0.000000e+00 808.0
5 TraesCS1B01G445700 chr1D 97.500 360 9 0 1 360 478230989 478230630 2.850000e-172 616.0
6 TraesCS1B01G445700 chr1D 95.425 153 6 1 902 1054 478229642 478229491 5.580000e-60 243.0
7 TraesCS1B01G445700 chr1D 100.000 32 0 0 365 396 478230388 478230419 6.030000e-05 60.2
8 TraesCS1B01G445700 chr1A 95.146 3688 80 24 1275 4925 574475298 574471673 0.000000e+00 5727.0
9 TraesCS1B01G445700 chr1A 87.585 733 32 24 353 1056 574476435 574475733 0.000000e+00 795.0
10 TraesCS1B01G445700 chr1A 91.402 535 44 1 5037 5571 292760528 292761060 0.000000e+00 732.0
11 TraesCS1B01G445700 chr1A 96.676 361 9 3 1 360 574477121 574476763 1.030000e-166 597.0
12 TraesCS1B01G445700 chr1A 91.628 215 3 3 1084 1289 574475738 574475530 3.290000e-72 283.0
13 TraesCS1B01G445700 chr6D 79.025 1969 315 64 2332 4284 315192803 315190917 0.000000e+00 1258.0
14 TraesCS1B01G445700 chr6D 79.875 1754 284 51 2554 4286 315246759 315248464 0.000000e+00 1219.0
15 TraesCS1B01G445700 chr6D 92.308 533 39 1 5037 5569 304121997 304122527 0.000000e+00 756.0
16 TraesCS1B01G445700 chr6D 92.308 533 39 1 5037 5569 387811165 387810635 0.000000e+00 756.0
17 TraesCS1B01G445700 chr6D 83.190 696 99 14 1316 2007 315193841 315193160 6.130000e-174 621.0
18 TraesCS1B01G445700 chr6D 81.889 646 92 21 1373 2007 315245682 315246313 6.400000e-144 521.0
19 TraesCS1B01G445700 chr6B 79.715 1755 284 51 2548 4291 512217307 512219000 0.000000e+00 1203.0
20 TraesCS1B01G445700 chr6B 92.871 533 36 1 5037 5569 345212381 345211851 0.000000e+00 773.0
21 TraesCS1B01G445700 chr6B 98.413 63 1 0 4926 4988 509499554 509499492 1.640000e-20 111.0
22 TraesCS1B01G445700 chr6B 96.875 64 2 0 4925 4988 720631174 720631111 2.120000e-19 108.0
23 TraesCS1B01G445700 chr6A 80.639 1472 246 29 2821 4284 452265688 452264248 0.000000e+00 1103.0
24 TraesCS1B01G445700 chr6A 82.521 698 105 13 1316 2007 452267175 452266489 1.030000e-166 597.0
25 TraesCS1B01G445700 chr6A 79.028 391 56 14 2332 2720 452266127 452265761 1.550000e-60 244.0
26 TraesCS1B01G445700 chr3A 92.910 536 34 2 5036 5569 41173712 41174245 0.000000e+00 776.0
27 TraesCS1B01G445700 chr3A 96.875 64 2 0 4925 4988 500022475 500022412 2.120000e-19 108.0
28 TraesCS1B01G445700 chr3B 91.745 533 42 1 5037 5569 482485175 482485705 0.000000e+00 739.0
29 TraesCS1B01G445700 chr3B 98.413 63 1 0 4926 4988 585685382 585685444 1.640000e-20 111.0
30 TraesCS1B01G445700 chrUn 91.418 536 41 3 5036 5569 259782229 259782761 0.000000e+00 730.0
31 TraesCS1B01G445700 chr2A 82.270 141 25 0 2580 2720 640271185 640271325 7.580000e-24 122.0
32 TraesCS1B01G445700 chr2A 96.875 64 2 0 4925 4988 667702367 667702304 2.120000e-19 108.0
33 TraesCS1B01G445700 chr2B 83.077 130 20 2 2592 2720 581469830 581469702 3.530000e-22 117.0
34 TraesCS1B01G445700 chr2B 80.469 128 25 0 2593 2720 42565548 42565675 1.280000e-16 99.0
35 TraesCS1B01G445700 chr5D 98.413 63 1 0 4926 4988 524009049 524008987 1.640000e-20 111.0
36 TraesCS1B01G445700 chr5D 98.413 63 1 0 4926 4988 565322897 565322835 1.640000e-20 111.0
37 TraesCS1B01G445700 chr4D 98.413 63 1 0 4926 4988 254817274 254817212 1.640000e-20 111.0
38 TraesCS1B01G445700 chr2D 94.366 71 2 1 4918 4988 97597291 97597223 2.120000e-19 108.0
39 TraesCS1B01G445700 chr2D 81.395 129 24 0 2592 2720 493175827 493175699 7.630000e-19 106.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G445700 chr1B 665793878 665799448 5570 True 10288.0 10288 100.000000 1 5571 1 chr1B.!!$R1 5570
1 TraesCS1B01G445700 chr1B 169669038 169669568 530 False 833.0 833 94.934000 5037 5569 1 chr1B.!!$F1 532
2 TraesCS1B01G445700 chr1B 449262809 449263338 529 False 732.0 732 91.541000 5038 5569 1 chr1B.!!$F2 531
3 TraesCS1B01G445700 chr1D 478225504 478230989 5485 True 2000.5 6335 95.612000 1 4925 4 chr1D.!!$R1 4924
4 TraesCS1B01G445700 chr1A 574471673 574477121 5448 True 1850.5 5727 92.758750 1 4925 4 chr1A.!!$R1 4924
5 TraesCS1B01G445700 chr1A 292760528 292761060 532 False 732.0 732 91.402000 5037 5571 1 chr1A.!!$F1 534
6 TraesCS1B01G445700 chr6D 315190917 315193841 2924 True 939.5 1258 81.107500 1316 4284 2 chr6D.!!$R2 2968
7 TraesCS1B01G445700 chr6D 315245682 315248464 2782 False 870.0 1219 80.882000 1373 4286 2 chr6D.!!$F2 2913
8 TraesCS1B01G445700 chr6D 304121997 304122527 530 False 756.0 756 92.308000 5037 5569 1 chr6D.!!$F1 532
9 TraesCS1B01G445700 chr6D 387810635 387811165 530 True 756.0 756 92.308000 5037 5569 1 chr6D.!!$R1 532
10 TraesCS1B01G445700 chr6B 512217307 512219000 1693 False 1203.0 1203 79.715000 2548 4291 1 chr6B.!!$F1 1743
11 TraesCS1B01G445700 chr6B 345211851 345212381 530 True 773.0 773 92.871000 5037 5569 1 chr6B.!!$R1 532
12 TraesCS1B01G445700 chr6A 452264248 452267175 2927 True 648.0 1103 80.729333 1316 4284 3 chr6A.!!$R1 2968
13 TraesCS1B01G445700 chr3A 41173712 41174245 533 False 776.0 776 92.910000 5036 5569 1 chr3A.!!$F1 533
14 TraesCS1B01G445700 chr3B 482485175 482485705 530 False 739.0 739 91.745000 5037 5569 1 chr3B.!!$F1 532
15 TraesCS1B01G445700 chrUn 259782229 259782761 532 False 730.0 730 91.418000 5036 5569 1 chrUn.!!$F1 533

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
361 363 1.450211 CCTCCAACGGTGGTGTTCT 59.550 57.895 21.31 0.00 46.11 3.01 F
1233 1837 0.511221 CGAAATTCGTGTCGCCAGTT 59.489 50.000 7.29 0.00 34.72 3.16 F
1236 1840 0.591170 AATTCGTGTCGCCAGTTTGG 59.409 50.000 0.00 0.00 41.55 3.28 F
2019 2886 0.737219 GACAGGTACGTACGATGCCT 59.263 55.000 24.41 20.88 0.00 4.75 F
2501 3614 1.083015 CCCGTCGCGTTGTTCTTTG 60.083 57.895 5.77 0.00 0.00 2.77 F
3399 4546 2.368105 CGAGGATATGCAGCGCGAC 61.368 63.158 12.10 0.04 0.00 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2206 3315 0.322816 GCAGCAGAGGTTCCAATCCA 60.323 55.000 0.0 0.0 0.00 3.41 R
2209 3318 0.990374 AGAGCAGCAGAGGTTCCAAT 59.010 50.000 0.0 0.0 0.00 3.16 R
2471 3584 1.515954 CGACGGGCATAACTCCTGT 59.484 57.895 0.0 0.0 45.41 4.00 R
3399 4546 0.174617 GGCCTCTCTTGAAGACCTCG 59.825 60.000 0.0 0.0 0.00 4.63 R
3864 5011 1.095807 GCGCCTTCCAGTAACCATCC 61.096 60.000 0.0 0.0 0.00 3.51 R
5016 6173 0.252284 ACGGACTCCCAACTCCTGAT 60.252 55.000 0.0 0.0 0.00 2.90 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
38 39 6.124340 AGATCATATGGTGCACTCAAATGAA 58.876 36.000 17.98 6.68 0.00 2.57
283 285 5.299949 CATGAACCGTAATGAGATGGATGA 58.700 41.667 0.00 0.00 0.00 2.92
289 291 5.247110 ACCGTAATGAGATGGATGAGCTAAT 59.753 40.000 0.00 0.00 0.00 1.73
294 296 6.683312 ATGAGATGGATGAGCTAATCTTGA 57.317 37.500 11.04 0.00 29.59 3.02
344 346 2.110006 GAGCGAAGGAGGATGGCC 59.890 66.667 0.00 0.00 0.00 5.36
360 362 2.258726 GCCTCCAACGGTGGTGTTC 61.259 63.158 21.31 7.33 46.11 3.18
361 363 1.450211 CCTCCAACGGTGGTGTTCT 59.550 57.895 21.31 0.00 46.11 3.01
396 730 2.485302 GGCAAAAATGGACCTGCAAACT 60.485 45.455 5.16 0.00 36.50 2.66
408 742 2.426752 CAAACTCGTTTGCCGCGG 60.427 61.111 24.05 24.05 42.66 6.46
526 860 3.931578 AGGAACATTTCTCTCTCGTTGG 58.068 45.455 0.00 0.00 0.00 3.77
579 934 4.975147 TCATCACATTATTGTCCCCCTAGT 59.025 41.667 0.00 0.00 32.34 2.57
824 1191 2.181125 TCATCTGTACTTGGGCGGTAA 58.819 47.619 0.00 0.00 0.00 2.85
883 1250 6.044682 CACAAGAAAAATGATAGGGGCAATC 58.955 40.000 0.00 0.00 0.00 2.67
904 1271 8.097662 GCAATCCTCTAATTGGCTTATACTACT 58.902 37.037 0.00 0.00 37.17 2.57
953 1414 4.089361 GTGGACTTTTCCCAATGATTCCT 58.911 43.478 0.00 0.00 42.01 3.36
954 1415 4.158579 GTGGACTTTTCCCAATGATTCCTC 59.841 45.833 0.00 0.00 42.01 3.71
1025 1486 3.953612 AGCTTGGATTGTCACAAAACAGA 59.046 39.130 0.00 0.00 0.00 3.41
1033 1494 1.295792 TCACAAAACAGAGCGTGACC 58.704 50.000 0.00 0.00 33.61 4.02
1035 1496 1.670811 CACAAAACAGAGCGTGACCTT 59.329 47.619 0.00 0.00 0.00 3.50
1039 1500 2.113243 AACAGAGCGTGACCTTCCCC 62.113 60.000 0.00 0.00 0.00 4.81
1041 1502 4.452733 GAGCGTGACCTTCCCCGG 62.453 72.222 0.00 0.00 0.00 5.73
1075 1670 2.296471 TCTCGAGTGTTTCTCCCTGTTC 59.704 50.000 13.13 0.00 39.84 3.18
1232 1836 1.289109 CCGAAATTCGTGTCGCCAGT 61.289 55.000 14.58 0.00 38.40 4.00
1233 1837 0.511221 CGAAATTCGTGTCGCCAGTT 59.489 50.000 7.29 0.00 34.72 3.16
1234 1838 1.070175 CGAAATTCGTGTCGCCAGTTT 60.070 47.619 7.29 0.00 34.72 2.66
1235 1839 2.307049 GAAATTCGTGTCGCCAGTTTG 58.693 47.619 0.00 0.00 0.00 2.93
1236 1840 0.591170 AATTCGTGTCGCCAGTTTGG 59.409 50.000 0.00 0.00 41.55 3.28
1237 1841 1.234615 ATTCGTGTCGCCAGTTTGGG 61.235 55.000 0.00 0.00 38.19 4.12
1292 2146 4.361451 TCTACGACACTTAAATCGGACC 57.639 45.455 7.96 0.00 42.67 4.46
1785 2652 6.041069 GCCATGTCTTCCTACTAGTATCAGTT 59.959 42.308 2.33 0.00 0.00 3.16
1786 2653 7.230913 GCCATGTCTTCCTACTAGTATCAGTTA 59.769 40.741 2.33 0.00 0.00 2.24
1787 2654 8.788806 CCATGTCTTCCTACTAGTATCAGTTAG 58.211 40.741 2.33 0.00 0.00 2.34
1806 2673 5.479375 AGTTAGTACTAGCTTTGCACTACCA 59.521 40.000 13.04 0.00 31.21 3.25
1868 2735 2.554032 CAACCTTGCTGGGTCTAAACAG 59.446 50.000 1.92 0.00 38.87 3.16
2011 2878 3.737559 TTCCCCTTAGACAGGTACGTA 57.262 47.619 0.00 0.00 42.02 3.57
2012 2879 3.004752 TCCCCTTAGACAGGTACGTAC 57.995 52.381 17.56 17.56 42.02 3.67
2013 2880 1.672881 CCCCTTAGACAGGTACGTACG 59.327 57.143 18.98 15.01 42.02 3.67
2014 2881 2.632377 CCCTTAGACAGGTACGTACGA 58.368 52.381 24.41 2.43 42.02 3.43
2016 2883 3.003068 CCCTTAGACAGGTACGTACGATG 59.997 52.174 24.41 20.38 42.02 3.84
2019 2886 0.737219 GACAGGTACGTACGATGCCT 59.263 55.000 24.41 20.88 0.00 4.75
2020 2887 1.133790 GACAGGTACGTACGATGCCTT 59.866 52.381 24.41 14.53 0.00 4.35
2117 3226 4.326826 TCTTTATCCTCCTGTTTGTGCAG 58.673 43.478 0.00 0.00 36.31 4.41
2143 3252 1.859080 CTCCGTTGCTAGGATTAACGC 59.141 52.381 1.80 0.00 44.04 4.84
2205 3314 3.575687 AGCAAGCAAGCCAAAAATAGAGT 59.424 39.130 0.00 0.00 34.23 3.24
2206 3315 4.039609 AGCAAGCAAGCCAAAAATAGAGTT 59.960 37.500 0.00 0.00 34.23 3.01
2208 3317 4.525912 AGCAAGCCAAAAATAGAGTTGG 57.474 40.909 0.00 0.00 45.98 3.77
2209 3318 4.151883 AGCAAGCCAAAAATAGAGTTGGA 58.848 39.130 6.62 0.00 46.11 3.53
2275 3384 5.652994 AAAACAACCAAGAACTAGCAACA 57.347 34.783 0.00 0.00 0.00 3.33
2327 3436 3.621715 CCTCGGCCTTTGTCACTAAATAC 59.378 47.826 0.00 0.00 0.00 1.89
2501 3614 1.083015 CCCGTCGCGTTGTTCTTTG 60.083 57.895 5.77 0.00 0.00 2.77
2508 3621 2.475111 TCGCGTTGTTCTTTGAGACATC 59.525 45.455 5.77 0.00 0.00 3.06
2511 3624 4.214437 GCGTTGTTCTTTGAGACATCAAG 58.786 43.478 0.00 0.00 45.89 3.02
2948 4089 7.016153 TCATATGGAATATTGTACCCACTCC 57.984 40.000 2.13 0.00 37.44 3.85
3069 4214 4.444733 CCTTTTTCCTTGGTGGCATTTTCT 60.445 41.667 0.00 0.00 35.26 2.52
3216 4363 3.194116 AGCATCACTTTTAAGGGCATGTG 59.806 43.478 0.00 0.00 0.00 3.21
3277 4424 7.103641 GTGAGGACAGAAGGACAACATAAATA 58.896 38.462 0.00 0.00 0.00 1.40
3399 4546 2.368105 CGAGGATATGCAGCGCGAC 61.368 63.158 12.10 0.04 0.00 5.19
3653 4800 3.970410 TTGGGCTGGCAGGGACAG 61.970 66.667 17.64 0.00 42.51 3.51
3762 4909 5.293569 GGGTTATCTAACAAAGACATCACCG 59.706 44.000 2.77 0.00 36.93 4.94
3852 4999 3.753272 TGCTCTTCTACAAGGCATTTGAC 59.247 43.478 7.14 0.00 39.21 3.18
3864 5011 1.712401 CATTTGACATTGGCAACCCG 58.288 50.000 3.91 0.00 0.00 5.28
4399 5546 3.362534 CCGTTTAACTTTATTTGCACCGC 59.637 43.478 0.00 0.00 0.00 5.68
4413 5560 1.380771 GCACCGCGTTGTTTTTATTCG 59.619 47.619 5.30 0.00 0.00 3.34
4495 5642 5.532032 TGTGCATAAATGTACATCTGATGGG 59.468 40.000 20.83 0.00 46.05 4.00
4692 5849 5.181245 CACATAAGTGTCCTTACAAACTGGG 59.819 44.000 0.00 0.00 40.92 4.45
4733 5890 1.202371 CGTACTTGAGCGAGGCCAATA 60.202 52.381 5.01 0.00 0.00 1.90
4734 5891 2.737359 CGTACTTGAGCGAGGCCAATAA 60.737 50.000 5.01 0.00 0.00 1.40
4735 5892 2.717639 ACTTGAGCGAGGCCAATAAT 57.282 45.000 5.01 0.00 0.00 1.28
4785 5942 4.200838 TGCTTCCATCATTCACGAGTAA 57.799 40.909 0.00 0.00 0.00 2.24
4802 5959 1.136305 GTAACAGACCATGCGGCTAGA 59.864 52.381 0.00 0.00 34.57 2.43
4873 6030 7.456725 TCTTCAGGAATTTCTTTCTCTGATGT 58.543 34.615 11.59 0.00 39.38 3.06
4925 6082 2.427753 GGCCCATGACGATCTCCC 59.572 66.667 0.00 0.00 0.00 4.30
4926 6083 2.443394 GGCCCATGACGATCTCCCA 61.443 63.158 0.00 0.00 0.00 4.37
4927 6084 1.227674 GCCCATGACGATCTCCCAC 60.228 63.158 0.00 0.00 0.00 4.61
4928 6085 1.690219 GCCCATGACGATCTCCCACT 61.690 60.000 0.00 0.00 0.00 4.00
4929 6086 1.704641 CCCATGACGATCTCCCACTA 58.295 55.000 0.00 0.00 0.00 2.74
4930 6087 1.341531 CCCATGACGATCTCCCACTAC 59.658 57.143 0.00 0.00 0.00 2.73
4931 6088 2.031870 CCATGACGATCTCCCACTACA 58.968 52.381 0.00 0.00 0.00 2.74
4932 6089 2.430694 CCATGACGATCTCCCACTACAA 59.569 50.000 0.00 0.00 0.00 2.41
4933 6090 3.491619 CCATGACGATCTCCCACTACAAG 60.492 52.174 0.00 0.00 0.00 3.16
4934 6091 2.100197 TGACGATCTCCCACTACAAGG 58.900 52.381 0.00 0.00 0.00 3.61
4935 6092 2.291346 TGACGATCTCCCACTACAAGGA 60.291 50.000 0.00 0.00 0.00 3.36
4936 6093 2.959707 GACGATCTCCCACTACAAGGAT 59.040 50.000 0.00 0.00 0.00 3.24
4937 6094 2.959707 ACGATCTCCCACTACAAGGATC 59.040 50.000 0.00 0.00 0.00 3.36
4938 6095 2.297597 CGATCTCCCACTACAAGGATCC 59.702 54.545 2.48 2.48 0.00 3.36
4939 6096 1.776662 TCTCCCACTACAAGGATCCG 58.223 55.000 5.98 0.00 0.00 4.18
4940 6097 0.753262 CTCCCACTACAAGGATCCGG 59.247 60.000 5.98 5.45 0.00 5.14
4941 6098 0.689745 TCCCACTACAAGGATCCGGG 60.690 60.000 11.41 11.41 0.00 5.73
4942 6099 0.981277 CCCACTACAAGGATCCGGGT 60.981 60.000 14.53 14.53 0.00 5.28
4943 6100 0.464452 CCACTACAAGGATCCGGGTC 59.536 60.000 6.02 6.02 0.00 4.46
4944 6101 1.486211 CACTACAAGGATCCGGGTCT 58.514 55.000 15.87 0.00 0.00 3.85
4945 6102 2.662866 CACTACAAGGATCCGGGTCTA 58.337 52.381 15.87 0.00 0.00 2.59
4946 6103 3.231818 CACTACAAGGATCCGGGTCTAT 58.768 50.000 15.87 0.19 0.00 1.98
4947 6104 3.641906 CACTACAAGGATCCGGGTCTATT 59.358 47.826 15.87 7.30 0.00 1.73
4948 6105 3.641906 ACTACAAGGATCCGGGTCTATTG 59.358 47.826 23.34 23.34 0.00 1.90
4949 6106 1.141053 ACAAGGATCCGGGTCTATTGC 59.859 52.381 24.30 6.48 0.00 3.56
4950 6107 1.140852 CAAGGATCCGGGTCTATTGCA 59.859 52.381 15.87 0.00 0.00 4.08
4951 6108 1.507140 AGGATCCGGGTCTATTGCAA 58.493 50.000 15.87 0.00 0.00 4.08
4952 6109 1.141053 AGGATCCGGGTCTATTGCAAC 59.859 52.381 15.87 0.00 0.00 4.17
4953 6110 1.134220 GGATCCGGGTCTATTGCAACA 60.134 52.381 15.87 0.00 0.00 3.33
4954 6111 2.639065 GATCCGGGTCTATTGCAACAA 58.361 47.619 7.71 0.00 0.00 2.83
4955 6112 2.570415 TCCGGGTCTATTGCAACAAA 57.430 45.000 0.00 0.00 0.00 2.83
4956 6113 2.865079 TCCGGGTCTATTGCAACAAAA 58.135 42.857 0.00 0.00 0.00 2.44
4957 6114 3.426615 TCCGGGTCTATTGCAACAAAAT 58.573 40.909 0.00 0.00 0.00 1.82
4958 6115 3.829601 TCCGGGTCTATTGCAACAAAATT 59.170 39.130 0.00 0.00 0.00 1.82
4959 6116 3.925913 CCGGGTCTATTGCAACAAAATTG 59.074 43.478 0.00 0.00 0.00 2.32
4960 6117 4.555262 CGGGTCTATTGCAACAAAATTGT 58.445 39.130 0.00 0.00 44.72 2.71
4977 6134 8.838452 CAAAATTGTTTGTTGCAATACATGTT 57.162 26.923 2.30 4.05 39.49 2.71
4978 6135 8.734933 CAAAATTGTTTGTTGCAATACATGTTG 58.265 29.630 2.30 0.00 39.49 3.33
4979 6136 7.551035 AATTGTTTGTTGCAATACATGTTGT 57.449 28.000 2.30 0.00 35.73 3.32
4980 6137 6.974932 TTGTTTGTTGCAATACATGTTGTT 57.025 29.167 2.30 0.00 0.00 2.83
4981 6138 6.974932 TGTTTGTTGCAATACATGTTGTTT 57.025 29.167 2.30 0.00 0.00 2.83
4982 6139 6.998338 TGTTTGTTGCAATACATGTTGTTTC 58.002 32.000 2.30 0.00 0.00 2.78
4983 6140 5.879948 TTGTTGCAATACATGTTGTTTCG 57.120 34.783 2.30 0.00 0.00 3.46
4984 6141 4.926244 TGTTGCAATACATGTTGTTTCGT 58.074 34.783 2.30 0.00 0.00 3.85
4985 6142 4.737279 TGTTGCAATACATGTTGTTTCGTG 59.263 37.500 2.30 0.00 0.00 4.35
4986 6143 3.894920 TGCAATACATGTTGTTTCGTGG 58.105 40.909 2.30 0.00 0.00 4.94
4987 6144 2.661195 GCAATACATGTTGTTTCGTGGC 59.339 45.455 2.30 0.00 0.00 5.01
4988 6145 3.241701 CAATACATGTTGTTTCGTGGCC 58.758 45.455 2.30 0.00 0.00 5.36
4989 6146 2.264005 TACATGTTGTTTCGTGGCCT 57.736 45.000 2.30 0.00 0.00 5.19
4990 6147 0.951558 ACATGTTGTTTCGTGGCCTC 59.048 50.000 3.32 0.00 0.00 4.70
4991 6148 0.950836 CATGTTGTTTCGTGGCCTCA 59.049 50.000 3.32 0.00 0.00 3.86
4992 6149 0.951558 ATGTTGTTTCGTGGCCTCAC 59.048 50.000 3.32 0.00 40.36 3.51
4993 6150 1.098712 TGTTGTTTCGTGGCCTCACC 61.099 55.000 3.32 0.00 40.65 4.02
5001 6158 2.531428 TGGCCTCACCACCCATCA 60.531 61.111 3.32 0.00 46.36 3.07
5002 6159 2.159490 TGGCCTCACCACCCATCAA 61.159 57.895 3.32 0.00 46.36 2.57
5003 6160 1.076549 GGCCTCACCACCCATCAAA 59.923 57.895 0.00 0.00 38.86 2.69
5004 6161 0.541764 GGCCTCACCACCCATCAAAA 60.542 55.000 0.00 0.00 38.86 2.44
5005 6162 1.337118 GCCTCACCACCCATCAAAAA 58.663 50.000 0.00 0.00 0.00 1.94
5006 6163 1.000843 GCCTCACCACCCATCAAAAAC 59.999 52.381 0.00 0.00 0.00 2.43
5007 6164 1.269448 CCTCACCACCCATCAAAAACG 59.731 52.381 0.00 0.00 0.00 3.60
5008 6165 2.226330 CTCACCACCCATCAAAAACGA 58.774 47.619 0.00 0.00 0.00 3.85
5009 6166 2.819608 CTCACCACCCATCAAAAACGAT 59.180 45.455 0.00 0.00 0.00 3.73
5010 6167 2.817258 TCACCACCCATCAAAAACGATC 59.183 45.455 0.00 0.00 0.00 3.69
5011 6168 2.094752 CACCACCCATCAAAAACGATCC 60.095 50.000 0.00 0.00 0.00 3.36
5012 6169 2.225017 ACCACCCATCAAAAACGATCCT 60.225 45.455 0.00 0.00 0.00 3.24
5013 6170 2.423538 CCACCCATCAAAAACGATCCTC 59.576 50.000 0.00 0.00 0.00 3.71
5014 6171 3.081061 CACCCATCAAAAACGATCCTCA 58.919 45.455 0.00 0.00 0.00 3.86
5015 6172 3.696051 CACCCATCAAAAACGATCCTCAT 59.304 43.478 0.00 0.00 0.00 2.90
5016 6173 4.881273 CACCCATCAAAAACGATCCTCATA 59.119 41.667 0.00 0.00 0.00 2.15
5017 6174 5.532406 CACCCATCAAAAACGATCCTCATAT 59.468 40.000 0.00 0.00 0.00 1.78
5018 6175 5.765182 ACCCATCAAAAACGATCCTCATATC 59.235 40.000 0.00 0.00 0.00 1.63
5019 6176 5.764686 CCCATCAAAAACGATCCTCATATCA 59.235 40.000 0.00 0.00 0.00 2.15
5020 6177 6.072838 CCCATCAAAAACGATCCTCATATCAG 60.073 42.308 0.00 0.00 0.00 2.90
5021 6178 6.072838 CCATCAAAAACGATCCTCATATCAGG 60.073 42.308 0.00 0.00 34.40 3.86
5023 6180 6.283694 TCAAAAACGATCCTCATATCAGGAG 58.716 40.000 0.56 0.00 46.19 3.69
5024 6181 5.878406 AAAACGATCCTCATATCAGGAGT 57.122 39.130 0.56 0.00 46.19 3.85
5025 6182 5.878406 AAACGATCCTCATATCAGGAGTT 57.122 39.130 0.56 0.00 46.19 3.01
5026 6183 4.862902 ACGATCCTCATATCAGGAGTTG 57.137 45.455 0.56 0.00 46.19 3.16
5027 6184 3.576118 ACGATCCTCATATCAGGAGTTGG 59.424 47.826 0.56 0.00 46.19 3.77
5028 6185 3.056250 CGATCCTCATATCAGGAGTTGGG 60.056 52.174 0.56 0.00 46.19 4.12
5029 6186 3.706389 TCCTCATATCAGGAGTTGGGA 57.294 47.619 0.00 0.00 37.68 4.37
5030 6187 3.581101 TCCTCATATCAGGAGTTGGGAG 58.419 50.000 0.00 0.00 37.68 4.30
5031 6188 3.051803 TCCTCATATCAGGAGTTGGGAGT 60.052 47.826 0.00 0.00 37.68 3.85
5032 6189 3.323403 CCTCATATCAGGAGTTGGGAGTC 59.677 52.174 0.00 0.00 35.20 3.36
5033 6190 3.309296 TCATATCAGGAGTTGGGAGTCC 58.691 50.000 0.00 0.00 44.46 3.85
5110 6267 1.678728 CCCAATACAGACACACGCCAT 60.679 52.381 0.00 0.00 0.00 4.40
5208 6367 5.118357 CACGAAGAGATGAAGCTACATATGC 59.882 44.000 1.58 0.00 0.00 3.14
5259 6418 0.322546 GAAGGGGACAACAGCGGAAT 60.323 55.000 0.00 0.00 0.00 3.01
5331 6490 1.589993 CAATGAGAGCCGCGACGAT 60.590 57.895 8.23 0.00 0.00 3.73
5356 6515 3.055819 CCTCAAGAAGGGAACGATCTTCA 60.056 47.826 0.00 0.00 42.03 3.02
5358 6517 3.323691 TCAAGAAGGGAACGATCTTCACA 59.676 43.478 9.04 0.00 41.16 3.58
5504 6663 4.020617 CTCCGCCCAAGAGCACCA 62.021 66.667 0.00 0.00 0.00 4.17
5518 6677 1.378514 CACCATGCTACCACCACCC 60.379 63.158 0.00 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 7.880195 GCTTCTATAGTCATGGTAACCATCAAT 59.120 37.037 0.00 0.00 43.15 2.57
72 74 3.181440 TGAGACCTCTTCATTGCCAACTT 60.181 43.478 0.00 0.00 0.00 2.66
175 177 0.965363 TTTCTCCTCAATTGCGGCCC 60.965 55.000 9.72 0.00 0.00 5.80
283 285 4.226427 TCATGCCACTTCAAGATTAGCT 57.774 40.909 0.00 0.00 0.00 3.32
289 291 5.011586 TCATCAAATCATGCCACTTCAAGA 58.988 37.500 0.00 0.00 0.00 3.02
294 296 5.105473 CCTTTCTCATCAAATCATGCCACTT 60.105 40.000 0.00 0.00 0.00 3.16
408 742 3.056313 GCAAACCTGCGATGAGGGC 62.056 63.158 0.00 0.00 39.20 5.19
526 860 4.243270 ACATTGTACAACTCGTAGGAAGC 58.757 43.478 11.22 0.00 0.00 3.86
579 934 5.423015 GACTTGGAGAGAGAATAATGTGCA 58.577 41.667 0.00 0.00 0.00 4.57
766 1133 2.449464 TCTGGTTGCATCCCAATCTTG 58.551 47.619 11.33 0.00 35.52 3.02
824 1191 1.734655 TTCTCTTGGCAGGAGAAGGT 58.265 50.000 31.02 0.00 42.59 3.50
862 1229 5.532155 AGGATTGCCCCTATCATTTTTCTT 58.468 37.500 0.00 0.00 34.07 2.52
883 1250 8.356000 AGCTAGTAGTATAAGCCAATTAGAGG 57.644 38.462 0.00 0.00 36.92 3.69
953 1414 3.880490 GCCGATGGTATGGTTTTATGTGA 59.120 43.478 0.00 0.00 0.00 3.58
954 1415 3.629855 TGCCGATGGTATGGTTTTATGTG 59.370 43.478 0.00 0.00 0.00 3.21
1035 1496 0.032416 ACTAAGCTAGCTTCCGGGGA 60.032 55.000 32.51 13.83 37.47 4.81
1039 1500 1.941294 TCGAGACTAAGCTAGCTTCCG 59.059 52.381 32.51 24.96 37.47 4.30
1041 1502 3.375922 ACACTCGAGACTAAGCTAGCTTC 59.624 47.826 32.51 19.20 37.47 3.86
1044 1505 3.768468 AACACTCGAGACTAAGCTAGC 57.232 47.619 21.68 6.62 0.00 3.42
1046 1507 4.395542 GGAGAAACACTCGAGACTAAGCTA 59.604 45.833 21.68 0.00 45.76 3.32
1047 1508 3.191791 GGAGAAACACTCGAGACTAAGCT 59.808 47.826 21.68 8.70 45.76 3.74
1048 1509 3.503891 GGAGAAACACTCGAGACTAAGC 58.496 50.000 21.68 3.70 45.76 3.09
1075 1670 2.510238 GGCCGACTAGTGCTGCAG 60.510 66.667 10.11 10.11 0.00 4.41
1232 1836 6.657541 CAGTACAAATTCCTACTAAGCCCAAA 59.342 38.462 0.00 0.00 0.00 3.28
1233 1837 6.013206 TCAGTACAAATTCCTACTAAGCCCAA 60.013 38.462 0.00 0.00 0.00 4.12
1234 1838 5.486063 TCAGTACAAATTCCTACTAAGCCCA 59.514 40.000 0.00 0.00 0.00 5.36
1235 1839 5.816258 GTCAGTACAAATTCCTACTAAGCCC 59.184 44.000 0.00 0.00 0.00 5.19
1236 1840 5.816258 GGTCAGTACAAATTCCTACTAAGCC 59.184 44.000 0.00 0.00 0.00 4.35
1237 1841 6.403878 TGGTCAGTACAAATTCCTACTAAGC 58.596 40.000 0.00 0.00 0.00 3.09
1785 2652 5.258841 TCTGGTAGTGCAAAGCTAGTACTA 58.741 41.667 11.33 11.33 33.87 1.82
1786 2653 4.087182 TCTGGTAGTGCAAAGCTAGTACT 58.913 43.478 12.98 12.98 36.00 2.73
1787 2654 4.451629 TCTGGTAGTGCAAAGCTAGTAC 57.548 45.455 0.00 0.00 0.00 2.73
1806 2673 4.529897 TGCATCACTCAAATAGCCAATCT 58.470 39.130 0.00 0.00 0.00 2.40
1868 2735 1.077089 GGCCAGCTCGTACGTCTTTC 61.077 60.000 16.05 7.38 0.00 2.62
2044 3138 8.151141 TCACTCAAATCTCTTATGCATTCATC 57.849 34.615 3.54 0.00 34.22 2.92
2045 3139 7.774157 ACTCACTCAAATCTCTTATGCATTCAT 59.226 33.333 3.54 0.00 36.73 2.57
2057 3151 3.501445 AGCAGCAAACTCACTCAAATCTC 59.499 43.478 0.00 0.00 0.00 2.75
2117 3226 1.180029 TCCTAGCAACGGAGTACACC 58.820 55.000 0.00 0.00 45.00 4.16
2174 3283 1.728425 GGCTTGCTTGCTTGTTATTGC 59.272 47.619 1.96 0.00 0.00 3.56
2205 3314 1.887956 GCAGCAGAGGTTCCAATCCAA 60.888 52.381 0.00 0.00 0.00 3.53
2206 3315 0.322816 GCAGCAGAGGTTCCAATCCA 60.323 55.000 0.00 0.00 0.00 3.41
2208 3317 1.065564 AGAGCAGCAGAGGTTCCAATC 60.066 52.381 0.00 0.00 0.00 2.67
2209 3318 0.990374 AGAGCAGCAGAGGTTCCAAT 59.010 50.000 0.00 0.00 0.00 3.16
2275 3384 5.253330 CCGGGCACAATTCTATAATATGGT 58.747 41.667 0.00 0.00 0.00 3.55
2306 3415 3.306166 CGTATTTAGTGACAAAGGCCGAG 59.694 47.826 0.00 0.00 0.00 4.63
2311 3420 7.802738 TGATGTTTCGTATTTAGTGACAAAGG 58.197 34.615 0.00 0.00 0.00 3.11
2462 3575 3.370953 GGCATAACTCCTGTGGTCAGAAT 60.371 47.826 0.00 0.00 43.76 2.40
2463 3576 2.027192 GGCATAACTCCTGTGGTCAGAA 60.027 50.000 0.00 0.00 43.76 3.02
2471 3584 1.515954 CGACGGGCATAACTCCTGT 59.484 57.895 0.00 0.00 45.41 4.00
2472 3585 1.883084 GCGACGGGCATAACTCCTG 60.883 63.158 0.00 0.00 42.87 3.86
2501 3614 7.335422 ACTCCATATTGTTCAACTTGATGTCTC 59.665 37.037 0.00 0.00 0.00 3.36
2508 3621 6.808008 AGTCACTCCATATTGTTCAACTTG 57.192 37.500 0.00 0.00 0.00 3.16
2511 3624 7.602644 TCAAGTAGTCACTCCATATTGTTCAAC 59.397 37.037 0.00 0.00 32.29 3.18
2578 3692 3.706600 AACCCACGTATTTGCTTCCTA 57.293 42.857 0.00 0.00 0.00 2.94
2579 3693 2.579410 AACCCACGTATTTGCTTCCT 57.421 45.000 0.00 0.00 0.00 3.36
2948 4089 5.301805 ACCAATCACCCTTGTTTTTACTGAG 59.698 40.000 0.00 0.00 0.00 3.35
3069 4214 7.680442 TGACTGCTGTTGCTATTAATTAACA 57.320 32.000 0.00 3.25 40.48 2.41
3277 4424 6.861065 AATGTCGAAGAACAAATGTACTGT 57.139 33.333 0.00 0.00 39.69 3.55
3399 4546 0.174617 GGCCTCTCTTGAAGACCTCG 59.825 60.000 0.00 0.00 0.00 4.63
3653 4800 3.660111 GGCCTGCAACGACACCAC 61.660 66.667 0.00 0.00 0.00 4.16
3762 4909 1.134007 TGTGCCACCATCATGGATCTC 60.134 52.381 11.90 0.55 43.02 2.75
3852 4999 3.209318 CCATCCGGGTTGCCAATG 58.791 61.111 0.00 0.00 0.00 2.82
3864 5011 1.095807 GCGCCTTCCAGTAACCATCC 61.096 60.000 0.00 0.00 0.00 3.51
4399 5546 8.013378 ACTAAATCACCTCGAATAAAAACAACG 58.987 33.333 0.00 0.00 0.00 4.10
4413 5560 7.891561 AGATAGCTCACATACTAAATCACCTC 58.108 38.462 0.00 0.00 0.00 3.85
4495 5642 6.163476 TCAATTCAGTAGACACATACACCAC 58.837 40.000 0.00 0.00 0.00 4.16
4530 5677 9.913310 TCCAAATAATCCACTACATTTGTATCA 57.087 29.630 0.00 0.00 36.89 2.15
4553 5710 7.981142 AGTACCAGGAAAAAGTAAGTTATCCA 58.019 34.615 0.00 0.00 30.01 3.41
4733 5890 1.002069 TGAAGGCCTGATGGACCATT 58.998 50.000 5.69 0.00 44.45 3.16
4734 5891 1.133575 CATGAAGGCCTGATGGACCAT 60.134 52.381 5.69 6.71 44.45 3.55
4735 5892 0.256752 CATGAAGGCCTGATGGACCA 59.743 55.000 5.69 0.00 44.45 4.02
4785 5942 1.680522 CCTCTAGCCGCATGGTCTGT 61.681 60.000 0.00 0.00 37.67 3.41
4802 5959 3.730269 AGGATCTTAGCAACTCCTTCCT 58.270 45.455 0.00 0.00 34.42 3.36
4925 6082 1.486211 AGACCCGGATCCTTGTAGTG 58.514 55.000 10.75 0.00 0.00 2.74
4926 6083 3.614568 ATAGACCCGGATCCTTGTAGT 57.385 47.619 10.75 0.00 0.00 2.73
4927 6084 3.555168 GCAATAGACCCGGATCCTTGTAG 60.555 52.174 10.75 0.00 0.00 2.74
4928 6085 2.367567 GCAATAGACCCGGATCCTTGTA 59.632 50.000 10.75 0.00 0.00 2.41
4929 6086 1.141053 GCAATAGACCCGGATCCTTGT 59.859 52.381 10.75 6.45 0.00 3.16
4930 6087 1.140852 TGCAATAGACCCGGATCCTTG 59.859 52.381 10.75 3.28 0.00 3.61
4931 6088 1.507140 TGCAATAGACCCGGATCCTT 58.493 50.000 10.75 0.00 0.00 3.36
4932 6089 1.141053 GTTGCAATAGACCCGGATCCT 59.859 52.381 10.75 0.00 0.00 3.24
4933 6090 1.134220 TGTTGCAATAGACCCGGATCC 60.134 52.381 0.73 0.00 0.00 3.36
4934 6091 2.325583 TGTTGCAATAGACCCGGATC 57.674 50.000 0.73 0.00 0.00 3.36
4935 6092 2.799126 TTGTTGCAATAGACCCGGAT 57.201 45.000 0.73 0.00 0.00 4.18
4936 6093 2.570415 TTTGTTGCAATAGACCCGGA 57.430 45.000 0.73 0.00 0.00 5.14
4937 6094 3.866883 ATTTTGTTGCAATAGACCCGG 57.133 42.857 0.59 0.00 0.00 5.73
4938 6095 4.555262 ACAATTTTGTTGCAATAGACCCG 58.445 39.130 0.59 0.00 38.47 5.28
4952 6109 8.734933 CAACATGTATTGCAACAAACAATTTTG 58.265 29.630 0.00 8.07 46.61 2.44
4953 6110 8.457261 ACAACATGTATTGCAACAAACAATTTT 58.543 25.926 0.00 0.00 38.62 1.82
4954 6111 7.983307 ACAACATGTATTGCAACAAACAATTT 58.017 26.923 0.00 2.20 38.62 1.82
4955 6112 7.551035 ACAACATGTATTGCAACAAACAATT 57.449 28.000 0.00 3.74 38.62 2.32
4956 6113 7.551035 AACAACATGTATTGCAACAAACAAT 57.449 28.000 0.00 0.00 40.68 2.71
4957 6114 6.974932 AACAACATGTATTGCAACAAACAA 57.025 29.167 0.00 0.00 32.47 2.83
4958 6115 6.237675 CGAAACAACATGTATTGCAACAAACA 60.238 34.615 0.00 7.46 32.47 2.83
4959 6116 6.119502 CGAAACAACATGTATTGCAACAAAC 58.880 36.000 0.00 0.93 32.47 2.93
4960 6117 5.807520 ACGAAACAACATGTATTGCAACAAA 59.192 32.000 0.00 0.00 32.47 2.83
4961 6118 5.230936 CACGAAACAACATGTATTGCAACAA 59.769 36.000 0.00 0.00 32.47 2.83
4962 6119 4.737279 CACGAAACAACATGTATTGCAACA 59.263 37.500 0.00 0.00 32.47 3.33
4963 6120 4.148000 CCACGAAACAACATGTATTGCAAC 59.852 41.667 0.00 0.00 32.47 4.17
4964 6121 4.294232 CCACGAAACAACATGTATTGCAA 58.706 39.130 0.00 0.00 32.47 4.08
4965 6122 3.855154 GCCACGAAACAACATGTATTGCA 60.855 43.478 0.00 0.00 32.47 4.08
4966 6123 2.661195 GCCACGAAACAACATGTATTGC 59.339 45.455 0.00 0.00 32.47 3.56
4967 6124 3.057596 AGGCCACGAAACAACATGTATTG 60.058 43.478 5.01 0.00 35.59 1.90
4968 6125 3.153919 AGGCCACGAAACAACATGTATT 58.846 40.909 5.01 0.00 0.00 1.89
4969 6126 2.747446 GAGGCCACGAAACAACATGTAT 59.253 45.455 5.01 0.00 0.00 2.29
4970 6127 2.147958 GAGGCCACGAAACAACATGTA 58.852 47.619 5.01 0.00 0.00 2.29
4971 6128 0.951558 GAGGCCACGAAACAACATGT 59.048 50.000 5.01 0.00 0.00 3.21
4972 6129 0.950836 TGAGGCCACGAAACAACATG 59.049 50.000 5.01 0.00 0.00 3.21
4973 6130 0.951558 GTGAGGCCACGAAACAACAT 59.048 50.000 5.01 0.00 33.10 2.71
4974 6131 1.098712 GGTGAGGCCACGAAACAACA 61.099 55.000 5.01 0.00 44.09 3.33
4975 6132 1.098712 TGGTGAGGCCACGAAACAAC 61.099 55.000 5.01 0.00 43.61 3.32
4976 6133 1.224870 TGGTGAGGCCACGAAACAA 59.775 52.632 5.01 0.00 43.61 2.83
4977 6134 2.911928 TGGTGAGGCCACGAAACA 59.088 55.556 5.01 0.00 43.61 2.83
4984 6141 1.724148 TTTGATGGGTGGTGAGGCCA 61.724 55.000 5.01 0.00 46.95 5.36
4985 6142 0.541764 TTTTGATGGGTGGTGAGGCC 60.542 55.000 0.00 0.00 37.90 5.19
4986 6143 1.000843 GTTTTTGATGGGTGGTGAGGC 59.999 52.381 0.00 0.00 0.00 4.70
4987 6144 1.269448 CGTTTTTGATGGGTGGTGAGG 59.731 52.381 0.00 0.00 0.00 3.86
4988 6145 2.226330 TCGTTTTTGATGGGTGGTGAG 58.774 47.619 0.00 0.00 0.00 3.51
4989 6146 2.350057 TCGTTTTTGATGGGTGGTGA 57.650 45.000 0.00 0.00 0.00 4.02
4990 6147 2.094752 GGATCGTTTTTGATGGGTGGTG 60.095 50.000 0.00 0.00 0.00 4.17
4991 6148 2.167662 GGATCGTTTTTGATGGGTGGT 58.832 47.619 0.00 0.00 0.00 4.16
4992 6149 2.423538 GAGGATCGTTTTTGATGGGTGG 59.576 50.000 0.00 0.00 0.00 4.61
4993 6150 3.081061 TGAGGATCGTTTTTGATGGGTG 58.919 45.455 0.00 0.00 38.61 4.61
4994 6151 3.433306 TGAGGATCGTTTTTGATGGGT 57.567 42.857 0.00 0.00 38.61 4.51
4995 6152 5.764686 TGATATGAGGATCGTTTTTGATGGG 59.235 40.000 0.00 0.00 38.61 4.00
4996 6153 6.072838 CCTGATATGAGGATCGTTTTTGATGG 60.073 42.308 1.22 0.00 38.61 3.51
4997 6154 6.707608 TCCTGATATGAGGATCGTTTTTGATG 59.292 38.462 6.85 0.00 37.20 3.07
4998 6155 6.830912 TCCTGATATGAGGATCGTTTTTGAT 58.169 36.000 6.85 0.00 37.20 2.57
4999 6156 6.127054 ACTCCTGATATGAGGATCGTTTTTGA 60.127 38.462 11.68 0.00 41.51 2.69
5000 6157 6.051717 ACTCCTGATATGAGGATCGTTTTTG 58.948 40.000 11.68 0.11 41.51 2.44
5001 6158 6.240549 ACTCCTGATATGAGGATCGTTTTT 57.759 37.500 11.68 0.00 41.51 1.94
5002 6159 5.878406 ACTCCTGATATGAGGATCGTTTT 57.122 39.130 11.68 0.00 41.51 2.43
5003 6160 5.453903 CCAACTCCTGATATGAGGATCGTTT 60.454 44.000 11.68 0.71 41.51 3.60
5004 6161 4.039730 CCAACTCCTGATATGAGGATCGTT 59.960 45.833 11.68 10.26 41.51 3.85
5005 6162 3.576118 CCAACTCCTGATATGAGGATCGT 59.424 47.826 11.68 4.39 41.51 3.73
5006 6163 3.056250 CCCAACTCCTGATATGAGGATCG 60.056 52.174 11.68 3.73 41.51 3.69
5007 6164 4.163427 TCCCAACTCCTGATATGAGGATC 58.837 47.826 11.68 0.00 41.51 3.36
5008 6165 4.166539 CTCCCAACTCCTGATATGAGGAT 58.833 47.826 11.68 0.00 41.51 3.24
5009 6166 3.051803 ACTCCCAACTCCTGATATGAGGA 60.052 47.826 10.76 10.76 40.03 3.71
5010 6167 3.312890 ACTCCCAACTCCTGATATGAGG 58.687 50.000 1.01 1.01 34.06 3.86
5011 6168 3.323403 GGACTCCCAACTCCTGATATGAG 59.677 52.174 0.00 0.00 35.92 2.90
5012 6169 3.309296 GGACTCCCAACTCCTGATATGA 58.691 50.000 0.00 0.00 0.00 2.15
5013 6170 2.036475 CGGACTCCCAACTCCTGATATG 59.964 54.545 0.00 0.00 0.00 1.78
5014 6171 2.320781 CGGACTCCCAACTCCTGATAT 58.679 52.381 0.00 0.00 0.00 1.63
5015 6172 1.006758 ACGGACTCCCAACTCCTGATA 59.993 52.381 0.00 0.00 0.00 2.15
5016 6173 0.252284 ACGGACTCCCAACTCCTGAT 60.252 55.000 0.00 0.00 0.00 2.90
5017 6174 0.471211 AACGGACTCCCAACTCCTGA 60.471 55.000 0.00 0.00 0.00 3.86
5018 6175 0.396811 AAACGGACTCCCAACTCCTG 59.603 55.000 0.00 0.00 0.00 3.86
5019 6176 2.019807 TAAACGGACTCCCAACTCCT 57.980 50.000 0.00 0.00 0.00 3.69
5020 6177 2.737679 CGATAAACGGACTCCCAACTCC 60.738 54.545 0.00 0.00 38.46 3.85
5021 6178 2.165030 TCGATAAACGGACTCCCAACTC 59.835 50.000 0.00 0.00 42.82 3.01
5022 6179 2.173519 TCGATAAACGGACTCCCAACT 58.826 47.619 0.00 0.00 42.82 3.16
5023 6180 2.660189 TCGATAAACGGACTCCCAAC 57.340 50.000 0.00 0.00 42.82 3.77
5024 6181 3.681593 TTTCGATAAACGGACTCCCAA 57.318 42.857 0.00 0.00 42.82 4.12
5025 6182 3.681593 TTTTCGATAAACGGACTCCCA 57.318 42.857 0.00 0.00 42.82 4.37
5026 6183 3.373130 CCTTTTTCGATAAACGGACTCCC 59.627 47.826 8.79 0.00 42.82 4.30
5027 6184 3.181513 GCCTTTTTCGATAAACGGACTCC 60.182 47.826 15.05 0.00 42.82 3.85
5028 6185 3.683340 AGCCTTTTTCGATAAACGGACTC 59.317 43.478 15.05 3.48 42.82 3.36
5029 6186 3.671716 AGCCTTTTTCGATAAACGGACT 58.328 40.909 15.05 10.50 42.82 3.85
5030 6187 4.414999 AAGCCTTTTTCGATAAACGGAC 57.585 40.909 15.05 9.12 42.82 4.79
5031 6188 5.216648 CAAAAGCCTTTTTCGATAAACGGA 58.783 37.500 15.05 0.00 42.82 4.69
5032 6189 4.143410 GCAAAAGCCTTTTTCGATAAACGG 60.143 41.667 0.00 4.56 42.82 4.44
5033 6190 4.143410 GGCAAAAGCCTTTTTCGATAAACG 60.143 41.667 0.00 0.00 44.09 3.60
5034 6191 4.151689 GGGCAAAAGCCTTTTTCGATAAAC 59.848 41.667 0.00 0.00 34.34 2.01
5035 6192 4.311606 GGGCAAAAGCCTTTTTCGATAAA 58.688 39.130 0.00 1.08 34.34 1.40
5039 6196 0.391228 GGGGCAAAAGCCTTTTTCGA 59.609 50.000 0.00 0.00 34.34 3.71
5077 6234 3.758023 CTGTATTGGGTGCTTGTTGATCA 59.242 43.478 0.00 0.00 0.00 2.92
5110 6267 2.815647 TGTGTGCGTGTGTTGCGA 60.816 55.556 0.00 0.00 34.24 5.10
5159 6318 1.060163 AGTGCTAGGGGTGGTGTTGT 61.060 55.000 0.00 0.00 0.00 3.32
5208 6367 1.308069 CCTTGGAGCACATGGTTCGG 61.308 60.000 0.00 0.00 39.07 4.30
5292 6451 3.785859 GTCATGCGGCTCCAGGGA 61.786 66.667 0.00 0.00 0.00 4.20
5335 6494 3.929610 GTGAAGATCGTTCCCTTCTTGAG 59.070 47.826 0.00 0.00 39.47 3.02
5504 6663 3.407967 CCCGGGTGGTGGTAGCAT 61.408 66.667 14.18 0.00 0.00 3.79


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

AutoCloner maintained by Alex Coulton.