Multiple sequence alignment - TraesCS6A01G320200

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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 TraesCS6A01G320200 chr6A 100.000 3158 0 0 1 3158 555322200 555325357 0.000000e+00 5832.0
1 TraesCS6A01G320200 chr6A 92.754 552 21 6 2443 2994 217774109 217773577 0.000000e+00 780.0
2 TraesCS6A01G320200 chr6A 89.255 577 30 5 2440 2994 282095806 282096372 0.000000e+00 693.0
3 TraesCS6A01G320200 chr6A 91.262 515 24 3 2480 2994 3752494 3752001 0.000000e+00 682.0
4 TraesCS6A01G320200 chr6A 97.561 164 4 0 2995 3158 555337933 555338096 6.670000e-72 281.0
5 TraesCS6A01G320200 chr6D 90.712 1841 100 22 653 2439 409871806 409873629 0.000000e+00 2386.0
6 TraesCS6A01G320200 chr6D 89.833 1318 108 14 1140 2443 409882382 409883687 0.000000e+00 1668.0
7 TraesCS6A01G320200 chr6D 90.728 1154 86 7 1292 2443 410055215 410054081 0.000000e+00 1519.0
8 TraesCS6A01G320200 chr6D 89.396 745 61 11 5 744 410071016 410070285 0.000000e+00 922.0
9 TraesCS6A01G320200 chr6D 96.441 281 10 0 1013 1293 410055549 410055269 6.170000e-127 464.0
10 TraesCS6A01G320200 chr6D 95.506 89 4 0 2355 2443 410042561 410042473 3.280000e-30 143.0
11 TraesCS6A01G320200 chr6B 92.083 1162 79 8 1278 2432 616381234 616382389 0.000000e+00 1624.0
12 TraesCS6A01G320200 chr6B 91.323 1164 68 13 1284 2443 616430463 616429329 0.000000e+00 1559.0
13 TraesCS6A01G320200 chr6B 85.346 1358 106 35 5 1287 616431839 616430500 0.000000e+00 1319.0
14 TraesCS6A01G320200 chr6B 89.382 857 55 12 3 824 616379821 616380676 0.000000e+00 1046.0
15 TraesCS6A01G320200 chr6B 93.590 390 23 1 905 1292 616380819 616381208 5.870000e-162 580.0
16 TraesCS6A01G320200 chr1A 92.101 557 31 6 2438 2994 486411985 486412528 0.000000e+00 773.0
17 TraesCS6A01G320200 chr1A 91.021 568 34 6 2443 2994 409956885 409956319 0.000000e+00 750.0
18 TraesCS6A01G320200 chr4A 91.459 562 39 6 2441 2994 133940571 133940011 0.000000e+00 763.0
19 TraesCS6A01G320200 chr4A 90.988 577 29 2 2440 2994 12654901 12655476 0.000000e+00 756.0
20 TraesCS6A01G320200 chr4A 94.749 438 21 2 2556 2992 503237934 503238370 0.000000e+00 680.0
21 TraesCS6A01G320200 chr4A 83.303 557 72 16 2443 2994 629458553 629459093 7.870000e-136 494.0
22 TraesCS6A01G320200 chr3A 88.165 583 41 7 2434 2993 57810395 57810972 0.000000e+00 669.0
23 TraesCS6A01G320200 chr3A 91.705 434 17 5 2443 2872 710280133 710279715 4.540000e-163 584.0
24 TraesCS6A01G320200 chr3A 97.576 165 4 0 2994 3158 535342804 535342968 1.850000e-72 283.0
25 TraesCS6A01G320200 chr3A 97.561 164 4 0 2995 3158 535360160 535360323 6.670000e-72 281.0
26 TraesCS6A01G320200 chr7A 87.889 578 37 8 2443 2994 575755156 575755726 0.000000e+00 649.0
27 TraesCS6A01G320200 chr7A 83.571 560 74 14 2439 2994 26777928 26777383 2.810000e-140 508.0
28 TraesCS6A01G320200 chr7A 96.951 164 5 0 2995 3158 639299862 639299699 3.100000e-70 276.0
29 TraesCS6A01G320200 chr7A 96.341 164 6 0 2995 3158 608908090 608907927 1.440000e-68 270.0
30 TraesCS6A01G320200 chr7A 95.732 164 7 0 2995 3158 201575504 201575667 6.720000e-67 265.0
31 TraesCS6A01G320200 chr7A 95.732 164 7 0 2995 3158 639312439 639312276 6.720000e-67 265.0
32 TraesCS6A01G320200 chr2A 86.250 560 45 18 2443 2994 447001081 447000546 2.110000e-161 579.0
33 TraesCS6A01G320200 chr2A 76.825 548 99 19 1624 2154 95259994 95260530 1.850000e-72 283.0
34 TraesCS6A01G320200 chr2A 96.341 164 6 0 2995 3158 155230743 155230906 1.440000e-68 270.0
35 TraesCS6A01G320200 chr2A 96.341 164 6 0 2995 3158 155245125 155245288 1.440000e-68 270.0
36 TraesCS6A01G320200 chr2A 79.135 393 60 16 1624 1999 90045393 90045006 5.230000e-63 252.0
37 TraesCS6A01G320200 chr7D 80.306 523 67 26 2436 2931 487870212 487869699 2.320000e-96 363.0
38 TraesCS6A01G320200 chrUn 76.545 550 97 24 1624 2154 17365346 17365882 4.010000e-69 272.0
39 TraesCS6A01G320200 chr2D 82.243 321 42 9 971 1288 96749422 96749730 2.420000e-66 263.0
40 TraesCS6A01G320200 chr2D 81.931 321 43 9 971 1288 96679635 96679943 1.120000e-64 257.0
41 TraesCS6A01G320200 chr2D 86.620 142 17 2 2440 2580 534953700 534953560 4.220000e-34 156.0
42 TraesCS6A01G320200 chr2B 81.875 320 45 8 971 1288 147829980 147830288 1.120000e-64 257.0
43 TraesCS6A01G320200 chr2B 81.875 320 45 8 971 1288 147869733 147870041 1.120000e-64 257.0
44 TraesCS6A01G320200 chr2B 81.250 320 47 8 971 1288 148036642 148036950 2.430000e-61 246.0
45 TraesCS6A01G320200 chr2B 84.932 219 33 0 1624 1842 142945105 142944887 4.100000e-54 222.0
46 TraesCS6A01G320200 chr2B 82.014 278 29 12 478 744 147829423 147829690 1.910000e-52 217.0
47 TraesCS6A01G320200 chr2B 82.014 278 29 12 478 744 147869176 147869443 1.910000e-52 217.0
48 TraesCS6A01G320200 chr3B 79.739 306 52 5 22 319 564783892 564784195 2.470000e-51 213.0
49 TraesCS6A01G320200 chr5D 80.137 292 49 6 29 319 379341314 379341031 3.190000e-50 209.0
50 TraesCS6A01G320200 chr5D 100.000 38 0 0 1251 1288 124857772 124857735 1.570000e-08 71.3
51 TraesCS6A01G320200 chr3D 86.429 140 19 0 2439 2578 544350330 544350191 1.520000e-33 154.0
52 TraesCS6A01G320200 chr5B 95.556 45 1 1 1251 1294 137671935 137671891 1.570000e-08 71.3


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 TraesCS6A01G320200 chr6A 555322200 555325357 3157 False 5832.000000 5832 100.0000 1 3158 1 chr6A.!!$F2 3157
1 TraesCS6A01G320200 chr6A 217773577 217774109 532 True 780.000000 780 92.7540 2443 2994 1 chr6A.!!$R2 551
2 TraesCS6A01G320200 chr6A 282095806 282096372 566 False 693.000000 693 89.2550 2440 2994 1 chr6A.!!$F1 554
3 TraesCS6A01G320200 chr6D 409871806 409873629 1823 False 2386.000000 2386 90.7120 653 2439 1 chr6D.!!$F1 1786
4 TraesCS6A01G320200 chr6D 409882382 409883687 1305 False 1668.000000 1668 89.8330 1140 2443 1 chr6D.!!$F2 1303
5 TraesCS6A01G320200 chr6D 410054081 410055549 1468 True 991.500000 1519 93.5845 1013 2443 2 chr6D.!!$R3 1430
6 TraesCS6A01G320200 chr6D 410070285 410071016 731 True 922.000000 922 89.3960 5 744 1 chr6D.!!$R2 739
7 TraesCS6A01G320200 chr6B 616429329 616431839 2510 True 1439.000000 1559 88.3345 5 2443 2 chr6B.!!$R1 2438
8 TraesCS6A01G320200 chr6B 616379821 616382389 2568 False 1083.333333 1624 91.6850 3 2432 3 chr6B.!!$F1 2429
9 TraesCS6A01G320200 chr1A 486411985 486412528 543 False 773.000000 773 92.1010 2438 2994 1 chr1A.!!$F1 556
10 TraesCS6A01G320200 chr1A 409956319 409956885 566 True 750.000000 750 91.0210 2443 2994 1 chr1A.!!$R1 551
11 TraesCS6A01G320200 chr4A 133940011 133940571 560 True 763.000000 763 91.4590 2441 2994 1 chr4A.!!$R1 553
12 TraesCS6A01G320200 chr4A 12654901 12655476 575 False 756.000000 756 90.9880 2440 2994 1 chr4A.!!$F1 554
13 TraesCS6A01G320200 chr4A 629458553 629459093 540 False 494.000000 494 83.3030 2443 2994 1 chr4A.!!$F3 551
14 TraesCS6A01G320200 chr3A 57810395 57810972 577 False 669.000000 669 88.1650 2434 2993 1 chr3A.!!$F1 559
15 TraesCS6A01G320200 chr7A 575755156 575755726 570 False 649.000000 649 87.8890 2443 2994 1 chr7A.!!$F2 551
16 TraesCS6A01G320200 chr7A 26777383 26777928 545 True 508.000000 508 83.5710 2439 2994 1 chr7A.!!$R1 555
17 TraesCS6A01G320200 chr2A 447000546 447001081 535 True 579.000000 579 86.2500 2443 2994 1 chr2A.!!$R2 551
18 TraesCS6A01G320200 chr2A 95259994 95260530 536 False 283.000000 283 76.8250 1624 2154 1 chr2A.!!$F1 530
19 TraesCS6A01G320200 chr7D 487869699 487870212 513 True 363.000000 363 80.3060 2436 2931 1 chr7D.!!$R1 495
20 TraesCS6A01G320200 chrUn 17365346 17365882 536 False 272.000000 272 76.5450 1624 2154 1 chrUn.!!$F1 530
21 TraesCS6A01G320200 chr2B 147829423 147830288 865 False 237.000000 257 81.9445 478 1288 2 chr2B.!!$F2 810
22 TraesCS6A01G320200 chr2B 147869176 147870041 865 False 237.000000 257 81.9445 478 1288 2 chr2B.!!$F3 810

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
843 981 0.097674 GATCACGCACAGGCACAATC 59.902 55.0 0.00 0.00 41.24 2.67 F
1010 1203 0.033796 ATAGCAACCATGGCTGCTGT 60.034 50.0 40.32 34.39 45.64 4.40 F
1857 2134 0.102481 CGTCGATGGACCCTACCTTG 59.898 60.0 1.93 0.00 40.17 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1971 2248 0.504384 CGTCTGACTTGAACAGCACG 59.496 55.0 6.21 0.0 35.06 5.34 R
2048 2325 0.823356 TTGCTTCAACCACTCCTGCC 60.823 55.0 0.00 0.0 0.00 4.85 R
3114 3503 0.033504 ATTGCTTCGTGGTCGAGTGT 59.966 50.0 0.00 0.0 46.81 3.55 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
93 98 8.750298 CCATGAAGGTAAGTTCTTAGAGTTAGA 58.250 37.037 0.00 0.00 0.00 2.10
105 110 9.241919 GTTCTTAGAGTTAGAGTTAGGGTTAGT 57.758 37.037 0.00 0.00 0.00 2.24
111 116 3.983044 AGAGTTAGGGTTAGTGCTTGG 57.017 47.619 0.00 0.00 0.00 3.61
146 151 3.069586 TCTCGAAGGAGCTTGTTCTCAAA 59.930 43.478 7.25 0.00 40.26 2.69
198 203 1.312371 GCGCAAATCCCTGCTACCAA 61.312 55.000 0.30 0.00 40.33 3.67
199 204 0.451783 CGCAAATCCCTGCTACCAAC 59.548 55.000 0.00 0.00 40.33 3.77
230 235 2.891191 TTTCGAGGGCCCTAAAATGT 57.109 45.000 28.78 0.00 0.00 2.71
244 249 7.927092 GGCCCTAAAATGTAGTTGTTTGTTTTA 59.073 33.333 0.00 0.00 0.00 1.52
251 256 9.862371 AAATGTAGTTGTTTGTTTTATGTCACA 57.138 25.926 0.00 0.00 0.00 3.58
290 295 3.054878 GAGAGGCGTGTTACTTTCGAAA 58.945 45.455 10.71 10.71 0.00 3.46
291 296 3.460103 AGAGGCGTGTTACTTTCGAAAA 58.540 40.909 12.41 0.00 0.00 2.29
462 482 2.450609 AACGACGTCTTGGCTACAAT 57.549 45.000 14.70 0.00 35.73 2.71
613 644 2.189342 ACGACGGCAACAACAATTTTG 58.811 42.857 0.00 0.00 0.00 2.44
720 760 2.240493 ATCAAAACCTATCGGAGCCG 57.760 50.000 1.74 1.74 41.35 5.52
745 785 2.434331 CCACCCGACACCCACAAT 59.566 61.111 0.00 0.00 0.00 2.71
747 787 0.392461 CCACCCGACACCCACAATAG 60.392 60.000 0.00 0.00 0.00 1.73
749 789 1.451387 CCCGACACCCACAATAGCC 60.451 63.158 0.00 0.00 0.00 3.93
751 791 1.813753 CGACACCCACAATAGCCGG 60.814 63.158 0.00 0.00 0.00 6.13
752 792 1.298667 GACACCCACAATAGCCGGT 59.701 57.895 1.90 0.00 0.00 5.28
753 793 0.322187 GACACCCACAATAGCCGGTT 60.322 55.000 1.90 0.00 0.00 4.44
754 794 0.608035 ACACCCACAATAGCCGGTTG 60.608 55.000 1.90 1.91 0.00 3.77
835 973 3.607422 TGTTCAAAAGATCACGCACAG 57.393 42.857 0.00 0.00 0.00 3.66
836 974 2.290367 TGTTCAAAAGATCACGCACAGG 59.710 45.455 0.00 0.00 0.00 4.00
838 976 0.592637 CAAAAGATCACGCACAGGCA 59.407 50.000 0.00 0.00 41.24 4.75
839 977 0.593128 AAAAGATCACGCACAGGCAC 59.407 50.000 0.00 0.00 41.24 5.01
840 978 0.534877 AAAGATCACGCACAGGCACA 60.535 50.000 0.00 0.00 41.24 4.57
841 979 0.534877 AAGATCACGCACAGGCACAA 60.535 50.000 0.00 0.00 41.24 3.33
842 980 0.321919 AGATCACGCACAGGCACAAT 60.322 50.000 0.00 0.00 41.24 2.71
843 981 0.097674 GATCACGCACAGGCACAATC 59.902 55.000 0.00 0.00 41.24 2.67
844 982 1.308069 ATCACGCACAGGCACAATCC 61.308 55.000 0.00 0.00 41.24 3.01
845 983 2.672996 ACGCACAGGCACAATCCC 60.673 61.111 0.00 0.00 41.24 3.85
846 984 2.672651 CGCACAGGCACAATCCCA 60.673 61.111 0.00 0.00 41.24 4.37
847 985 2.048023 CGCACAGGCACAATCCCAT 61.048 57.895 0.00 0.00 41.24 4.00
848 986 1.514087 GCACAGGCACAATCCCATG 59.486 57.895 0.00 0.00 40.72 3.66
855 993 0.529773 GCACAATCCCATGCATGCAG 60.530 55.000 26.69 16.97 41.65 4.41
1010 1203 0.033796 ATAGCAACCATGGCTGCTGT 60.034 50.000 40.32 34.39 45.64 4.40
1122 1317 4.366684 CCAAGCCCACCACCTCCC 62.367 72.222 0.00 0.00 0.00 4.30
1527 1795 2.809601 GTCTCGTGCGCCGACATT 60.810 61.111 15.44 0.00 41.60 2.71
1565 1833 1.295423 ACGCCACCGTCTTGCTAAT 59.705 52.632 0.00 0.00 46.39 1.73
1566 1834 0.533491 ACGCCACCGTCTTGCTAATA 59.467 50.000 0.00 0.00 46.39 0.98
1567 1835 1.066716 ACGCCACCGTCTTGCTAATAA 60.067 47.619 0.00 0.00 46.39 1.40
1719 1987 2.358737 GCCAACGTCAGGGTCCTG 60.359 66.667 10.62 10.62 44.86 3.86
1854 2131 1.453762 CCTCGTCGATGGACCCTACC 61.454 65.000 4.48 0.00 40.17 3.18
1857 2134 0.102481 CGTCGATGGACCCTACCTTG 59.898 60.000 1.93 0.00 40.17 3.61
1935 2212 0.464013 TCGAGACTCCCGATGACCTC 60.464 60.000 0.00 0.00 0.00 3.85
2032 2309 1.560923 GACATCGAGATTGGTGGACG 58.439 55.000 0.00 0.00 0.00 4.79
2181 2459 0.803768 CTCACGAACGGCTGATCAGG 60.804 60.000 23.89 10.87 0.00 3.86
2206 2485 2.235155 TGGCGTGCCTTATCTTGAGTTA 59.765 45.455 12.84 0.00 36.94 2.24
2281 2560 1.346722 AGCTAAGTTACCGGTGCTGTT 59.653 47.619 19.93 7.93 0.00 3.16
2282 2561 2.148768 GCTAAGTTACCGGTGCTGTTT 58.851 47.619 19.93 7.10 0.00 2.83
2283 2562 2.159037 GCTAAGTTACCGGTGCTGTTTC 59.841 50.000 19.93 0.00 0.00 2.78
2388 2669 7.674120 TGGAGAGATGATATTGTCAAGGTATG 58.326 38.462 0.00 0.00 40.97 2.39
2467 2748 1.597854 CTCCAACAGGCGCTGAACA 60.598 57.895 7.64 0.00 35.18 3.18
2614 2928 8.100791 TCTACAAACTAGAAATGTAGGCATTGT 58.899 33.333 22.25 0.00 43.89 2.71
2995 3384 4.065281 GACGTCCTCCGGGTGGTG 62.065 72.222 14.46 10.87 42.24 4.17
2996 3385 4.608774 ACGTCCTCCGGGTGGTGA 62.609 66.667 14.46 0.00 42.24 4.02
2997 3386 3.075005 CGTCCTCCGGGTGGTGAT 61.075 66.667 14.46 0.00 36.30 3.06
2998 3387 2.584608 GTCCTCCGGGTGGTGATG 59.415 66.667 14.46 0.00 36.30 3.07
2999 3388 1.987855 GTCCTCCGGGTGGTGATGA 60.988 63.158 14.46 0.00 36.30 2.92
3000 3389 1.229368 TCCTCCGGGTGGTGATGAA 60.229 57.895 14.46 0.00 36.30 2.57
3001 3390 1.221840 CCTCCGGGTGGTGATGAAG 59.778 63.158 0.00 0.00 36.30 3.02
3002 3391 1.450312 CTCCGGGTGGTGATGAAGC 60.450 63.158 0.00 0.00 36.30 3.86
3003 3392 1.903877 CTCCGGGTGGTGATGAAGCT 61.904 60.000 0.00 0.00 36.30 3.74
3004 3393 0.616395 TCCGGGTGGTGATGAAGCTA 60.616 55.000 0.00 0.00 36.30 3.32
3005 3394 0.469917 CCGGGTGGTGATGAAGCTAT 59.530 55.000 0.00 0.00 0.00 2.97
3006 3395 1.586422 CGGGTGGTGATGAAGCTATG 58.414 55.000 0.00 0.00 0.00 2.23
3007 3396 1.134401 CGGGTGGTGATGAAGCTATGT 60.134 52.381 0.00 0.00 0.00 2.29
3008 3397 2.102420 CGGGTGGTGATGAAGCTATGTA 59.898 50.000 0.00 0.00 0.00 2.29
3009 3398 3.467803 GGGTGGTGATGAAGCTATGTAC 58.532 50.000 0.00 0.00 0.00 2.90
3010 3399 3.467803 GGTGGTGATGAAGCTATGTACC 58.532 50.000 0.00 0.00 0.00 3.34
3011 3400 3.134804 GGTGGTGATGAAGCTATGTACCT 59.865 47.826 0.00 0.00 0.00 3.08
3012 3401 4.344102 GGTGGTGATGAAGCTATGTACCTA 59.656 45.833 0.00 0.00 0.00 3.08
3013 3402 5.509840 GGTGGTGATGAAGCTATGTACCTAG 60.510 48.000 1.10 1.10 0.00 3.02
3014 3403 4.588951 TGGTGATGAAGCTATGTACCTAGG 59.411 45.833 7.41 7.41 0.00 3.02
3015 3404 4.833380 GGTGATGAAGCTATGTACCTAGGA 59.167 45.833 17.98 0.00 0.00 2.94
3016 3405 5.482175 GGTGATGAAGCTATGTACCTAGGAT 59.518 44.000 17.98 0.48 0.00 3.24
3017 3406 6.663953 GGTGATGAAGCTATGTACCTAGGATA 59.336 42.308 17.98 1.86 0.00 2.59
3018 3407 7.147983 GGTGATGAAGCTATGTACCTAGGATAG 60.148 44.444 17.98 13.25 38.80 2.08
3030 3419 2.625639 CTAGGATAGGGGCATGGAACT 58.374 52.381 0.00 0.00 34.22 3.01
3031 3420 1.143813 AGGATAGGGGCATGGAACTG 58.856 55.000 0.00 0.00 0.00 3.16
3032 3421 0.846693 GGATAGGGGCATGGAACTGT 59.153 55.000 0.00 0.00 0.00 3.55
3033 3422 1.202818 GGATAGGGGCATGGAACTGTC 60.203 57.143 0.00 0.00 0.00 3.51
3034 3423 0.846693 ATAGGGGCATGGAACTGTCC 59.153 55.000 0.00 0.00 45.21 4.02
3035 3424 0.253160 TAGGGGCATGGAACTGTCCT 60.253 55.000 0.00 0.00 45.22 3.85
3036 3425 0.253160 AGGGGCATGGAACTGTCCTA 60.253 55.000 0.00 0.00 45.22 2.94
3037 3426 0.623723 GGGGCATGGAACTGTCCTAA 59.376 55.000 0.00 0.00 45.22 2.69
3038 3427 1.408822 GGGGCATGGAACTGTCCTAAG 60.409 57.143 0.00 0.00 45.22 2.18
3039 3428 1.282157 GGGCATGGAACTGTCCTAAGT 59.718 52.381 0.00 0.00 45.22 2.24
3040 3429 2.504175 GGGCATGGAACTGTCCTAAGTA 59.496 50.000 0.00 0.00 45.22 2.24
3041 3430 3.532542 GGCATGGAACTGTCCTAAGTAC 58.467 50.000 0.00 0.00 45.22 2.73
3042 3431 3.532542 GCATGGAACTGTCCTAAGTACC 58.467 50.000 0.00 0.00 45.22 3.34
3043 3432 3.681874 GCATGGAACTGTCCTAAGTACCC 60.682 52.174 0.00 0.00 45.22 3.69
3044 3433 3.555117 TGGAACTGTCCTAAGTACCCT 57.445 47.619 0.00 0.00 45.22 4.34
3045 3434 4.680278 TGGAACTGTCCTAAGTACCCTA 57.320 45.455 0.00 0.00 45.22 3.53
3046 3435 4.347607 TGGAACTGTCCTAAGTACCCTAC 58.652 47.826 0.00 0.00 45.22 3.18
3047 3436 3.703556 GGAACTGTCCTAAGTACCCTACC 59.296 52.174 0.00 0.00 41.24 3.18
3048 3437 3.395054 ACTGTCCTAAGTACCCTACCC 57.605 52.381 0.00 0.00 0.00 3.69
3049 3438 2.656432 ACTGTCCTAAGTACCCTACCCA 59.344 50.000 0.00 0.00 0.00 4.51
3050 3439 3.078000 ACTGTCCTAAGTACCCTACCCAA 59.922 47.826 0.00 0.00 0.00 4.12
3051 3440 3.705072 CTGTCCTAAGTACCCTACCCAAG 59.295 52.174 0.00 0.00 0.00 3.61
3052 3441 3.036819 GTCCTAAGTACCCTACCCAAGG 58.963 54.545 0.00 0.00 46.09 3.61
3071 3460 4.338795 AGGACATCCCTAGAAGAAGTCA 57.661 45.455 15.45 0.00 45.48 3.41
3072 3461 4.027437 AGGACATCCCTAGAAGAAGTCAC 58.973 47.826 15.45 8.36 45.48 3.67
3073 3462 3.133183 GGACATCCCTAGAAGAAGTCACC 59.867 52.174 15.45 2.24 0.00 4.02
3074 3463 4.027437 GACATCCCTAGAAGAAGTCACCT 58.973 47.826 11.11 0.00 0.00 4.00
3075 3464 4.430441 ACATCCCTAGAAGAAGTCACCTT 58.570 43.478 0.00 0.00 0.00 3.50
3076 3465 4.846940 ACATCCCTAGAAGAAGTCACCTTT 59.153 41.667 0.00 0.00 0.00 3.11
3077 3466 5.046231 ACATCCCTAGAAGAAGTCACCTTTC 60.046 44.000 0.00 0.00 0.00 2.62
3078 3467 4.489737 TCCCTAGAAGAAGTCACCTTTCA 58.510 43.478 0.00 0.00 0.00 2.69
3079 3468 4.905456 TCCCTAGAAGAAGTCACCTTTCAA 59.095 41.667 0.00 0.00 0.00 2.69
3080 3469 5.548056 TCCCTAGAAGAAGTCACCTTTCAAT 59.452 40.000 0.00 0.00 0.00 2.57
3081 3470 5.877564 CCCTAGAAGAAGTCACCTTTCAATC 59.122 44.000 0.00 0.00 0.00 2.67
3082 3471 6.467677 CCTAGAAGAAGTCACCTTTCAATCA 58.532 40.000 0.00 0.00 0.00 2.57
3083 3472 6.936900 CCTAGAAGAAGTCACCTTTCAATCAA 59.063 38.462 0.00 0.00 0.00 2.57
3084 3473 6.625873 AGAAGAAGTCACCTTTCAATCAAC 57.374 37.500 0.00 0.00 0.00 3.18
3085 3474 6.360618 AGAAGAAGTCACCTTTCAATCAACT 58.639 36.000 0.00 0.00 0.00 3.16
3086 3475 6.830838 AGAAGAAGTCACCTTTCAATCAACTT 59.169 34.615 0.00 0.00 0.00 2.66
3087 3476 6.382869 AGAAGTCACCTTTCAATCAACTTG 57.617 37.500 0.00 0.00 36.09 3.16
3088 3477 5.300286 AGAAGTCACCTTTCAATCAACTTGG 59.700 40.000 0.00 0.00 35.43 3.61
3089 3478 4.792068 AGTCACCTTTCAATCAACTTGGA 58.208 39.130 0.00 0.00 35.43 3.53
3090 3479 4.823989 AGTCACCTTTCAATCAACTTGGAG 59.176 41.667 0.00 0.00 35.43 3.86
3091 3480 4.022849 GTCACCTTTCAATCAACTTGGAGG 60.023 45.833 0.00 0.00 41.00 4.30
3092 3481 3.891366 CACCTTTCAATCAACTTGGAGGT 59.109 43.478 7.61 7.61 45.06 3.85
3093 3482 5.070001 CACCTTTCAATCAACTTGGAGGTA 58.930 41.667 11.12 0.00 43.70 3.08
3094 3483 5.711976 CACCTTTCAATCAACTTGGAGGTAT 59.288 40.000 11.12 0.00 43.70 2.73
3095 3484 6.209391 CACCTTTCAATCAACTTGGAGGTATT 59.791 38.462 11.12 0.00 43.70 1.89
3096 3485 6.434340 ACCTTTCAATCAACTTGGAGGTATTC 59.566 38.462 10.28 0.00 43.70 1.75
3097 3486 6.127619 CCTTTCAATCAACTTGGAGGTATTCC 60.128 42.308 0.00 0.00 46.98 3.01
3106 3495 2.873133 GGAGGTATTCCACTCGACAG 57.127 55.000 0.00 0.00 46.01 3.51
3107 3496 2.376109 GGAGGTATTCCACTCGACAGA 58.624 52.381 0.00 0.00 46.01 3.41
3108 3497 2.959707 GGAGGTATTCCACTCGACAGAT 59.040 50.000 0.00 0.00 46.01 2.90
3109 3498 3.385111 GGAGGTATTCCACTCGACAGATT 59.615 47.826 0.00 0.00 46.01 2.40
3110 3499 4.500035 GGAGGTATTCCACTCGACAGATTC 60.500 50.000 0.00 0.00 46.01 2.52
3111 3500 4.023980 AGGTATTCCACTCGACAGATTCA 58.976 43.478 0.00 0.00 35.89 2.57
3112 3501 4.466370 AGGTATTCCACTCGACAGATTCAA 59.534 41.667 0.00 0.00 35.89 2.69
3113 3502 4.806247 GGTATTCCACTCGACAGATTCAAG 59.194 45.833 0.00 0.00 0.00 3.02
3114 3503 4.808414 ATTCCACTCGACAGATTCAAGA 57.192 40.909 0.00 0.00 0.00 3.02
3115 3504 3.577649 TCCACTCGACAGATTCAAGAC 57.422 47.619 0.00 0.00 0.00 3.01
3116 3505 2.890945 TCCACTCGACAGATTCAAGACA 59.109 45.455 0.00 0.00 0.00 3.41
3117 3506 2.989840 CCACTCGACAGATTCAAGACAC 59.010 50.000 0.00 0.00 0.00 3.67
3118 3507 3.305676 CCACTCGACAGATTCAAGACACT 60.306 47.826 0.00 0.00 0.00 3.55
3119 3508 3.917380 CACTCGACAGATTCAAGACACTC 59.083 47.826 0.00 0.00 0.00 3.51
3120 3509 3.167425 CTCGACAGATTCAAGACACTCG 58.833 50.000 0.00 0.00 0.00 4.18
3121 3510 2.812011 TCGACAGATTCAAGACACTCGA 59.188 45.455 0.00 0.00 0.00 4.04
3122 3511 2.911723 CGACAGATTCAAGACACTCGAC 59.088 50.000 0.00 0.00 0.00 4.20
3123 3512 3.246619 GACAGATTCAAGACACTCGACC 58.753 50.000 0.00 0.00 0.00 4.79
3124 3513 2.628178 ACAGATTCAAGACACTCGACCA 59.372 45.455 0.00 0.00 0.00 4.02
3125 3514 2.989840 CAGATTCAAGACACTCGACCAC 59.010 50.000 0.00 0.00 0.00 4.16
3126 3515 1.986378 GATTCAAGACACTCGACCACG 59.014 52.381 0.00 0.00 41.26 4.94
3127 3516 1.026584 TTCAAGACACTCGACCACGA 58.973 50.000 0.00 0.00 46.56 4.35
3136 3525 2.822306 TCGACCACGAAGCAATCAC 58.178 52.632 0.00 0.00 45.74 3.06
3137 3526 0.317160 TCGACCACGAAGCAATCACT 59.683 50.000 0.00 0.00 45.74 3.41
3138 3527 0.716108 CGACCACGAAGCAATCACTC 59.284 55.000 0.00 0.00 42.66 3.51
3139 3528 0.716108 GACCACGAAGCAATCACTCG 59.284 55.000 0.00 0.00 0.00 4.18
3140 3529 0.317160 ACCACGAAGCAATCACTCGA 59.683 50.000 0.00 0.00 0.00 4.04
3141 3530 0.716108 CCACGAAGCAATCACTCGAC 59.284 55.000 0.00 0.00 0.00 4.20
3142 3531 0.716108 CACGAAGCAATCACTCGACC 59.284 55.000 0.00 0.00 0.00 4.79
3143 3532 0.732880 ACGAAGCAATCACTCGACCG 60.733 55.000 0.00 0.00 0.00 4.79
3144 3533 1.710339 GAAGCAATCACTCGACCGC 59.290 57.895 0.00 0.00 0.00 5.68
3145 3534 1.696832 GAAGCAATCACTCGACCGCC 61.697 60.000 0.00 0.00 0.00 6.13
3146 3535 2.434185 GCAATCACTCGACCGCCA 60.434 61.111 0.00 0.00 0.00 5.69
3147 3536 2.456119 GCAATCACTCGACCGCCAG 61.456 63.158 0.00 0.00 0.00 4.85
3148 3537 1.811266 CAATCACTCGACCGCCAGG 60.811 63.158 0.00 0.00 45.13 4.45
3149 3538 1.982395 AATCACTCGACCGCCAGGA 60.982 57.895 0.00 0.00 41.02 3.86
3150 3539 1.949847 AATCACTCGACCGCCAGGAG 61.950 60.000 0.00 0.00 41.02 3.69
3151 3540 2.838748 ATCACTCGACCGCCAGGAGA 62.839 60.000 0.00 0.00 41.02 3.71
3152 3541 2.043852 ACTCGACCGCCAGGAGAT 60.044 61.111 0.00 0.00 41.02 2.75
3153 3542 2.122167 ACTCGACCGCCAGGAGATC 61.122 63.158 0.00 0.00 41.02 2.75
3154 3543 1.826054 CTCGACCGCCAGGAGATCT 60.826 63.158 0.00 0.00 41.02 2.75
3155 3544 0.535328 CTCGACCGCCAGGAGATCTA 60.535 60.000 0.00 0.00 41.02 1.98
3156 3545 0.106868 TCGACCGCCAGGAGATCTAA 60.107 55.000 0.00 0.00 41.02 2.10
3157 3546 0.744874 CGACCGCCAGGAGATCTAAA 59.255 55.000 0.00 0.00 41.02 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 32 2.100916 AGCTGACGTACTCAACAGTGTT 59.899 45.455 1.64 1.64 33.62 3.32
93 98 2.627933 TCCCAAGCACTAACCCTAACT 58.372 47.619 0.00 0.00 0.00 2.24
105 110 2.187100 GAAATCCCCAAATCCCAAGCA 58.813 47.619 0.00 0.00 0.00 3.91
111 116 2.952310 CCTTCGAGAAATCCCCAAATCC 59.048 50.000 0.00 0.00 0.00 3.01
146 151 6.656270 GGAAAGCCAAAGATTTGATCCAAAAT 59.344 34.615 6.87 0.00 40.55 1.82
198 203 0.733729 CTCGAAATCGGAGTCCTCGT 59.266 55.000 15.73 0.00 40.29 4.18
199 204 0.029567 CCTCGAAATCGGAGTCCTCG 59.970 60.000 7.77 9.84 40.29 4.63
230 235 8.178964 GTGTCTGTGACATAAAACAAACAACTA 58.821 33.333 3.65 0.00 44.63 2.24
244 249 0.321671 CCTTCCCGTGTCTGTGACAT 59.678 55.000 3.65 0.00 44.63 3.06
251 256 3.241530 TGCTGCCTTCCCGTGTCT 61.242 61.111 0.00 0.00 0.00 3.41
290 295 3.837355 ACCTCCTGCAAGTGAGAATTTT 58.163 40.909 8.67 0.00 34.45 1.82
291 296 3.515602 ACCTCCTGCAAGTGAGAATTT 57.484 42.857 8.67 0.00 34.45 1.82
302 307 1.494721 AGACCAAAGAAACCTCCTGCA 59.505 47.619 0.00 0.00 0.00 4.41
380 390 0.546122 AACAGACACAAGGAGCACCA 59.454 50.000 2.07 0.00 38.94 4.17
462 482 7.448420 TCAATAATTGATCCTTGCACCAAAAA 58.552 30.769 0.00 0.00 34.08 1.94
613 644 1.005340 CTTCTCTTGCGTGGATCAGC 58.995 55.000 0.00 0.00 0.00 4.26
745 785 2.764010 ACATAGTGACATCAACCGGCTA 59.236 45.455 0.00 0.00 0.00 3.93
747 787 2.024176 ACATAGTGACATCAACCGGC 57.976 50.000 0.00 0.00 0.00 6.13
749 789 2.029244 GCGAACATAGTGACATCAACCG 59.971 50.000 0.00 0.00 0.00 4.44
751 791 3.000041 TGGCGAACATAGTGACATCAAC 59.000 45.455 0.00 0.00 0.00 3.18
752 792 3.326836 TGGCGAACATAGTGACATCAA 57.673 42.857 0.00 0.00 0.00 2.57
753 793 3.197265 CATGGCGAACATAGTGACATCA 58.803 45.455 0.00 0.00 37.84 3.07
754 794 2.032549 GCATGGCGAACATAGTGACATC 60.033 50.000 0.00 0.00 37.84 3.06
835 973 1.227438 GCATGCATGGGATTGTGCC 60.227 57.895 27.34 4.17 40.56 5.01
836 974 0.529773 CTGCATGCATGGGATTGTGC 60.530 55.000 27.34 13.02 41.61 4.57
838 976 1.682451 GCCTGCATGCATGGGATTGT 61.682 55.000 25.80 0.00 0.00 2.71
839 977 1.069090 GCCTGCATGCATGGGATTG 59.931 57.895 25.80 11.40 0.00 2.67
840 978 1.382009 TGCCTGCATGCATGGGATT 60.382 52.632 25.80 0.00 36.04 3.01
841 979 1.832608 CTGCCTGCATGCATGGGAT 60.833 57.895 25.80 0.00 41.16 3.85
842 980 2.441348 CTGCCTGCATGCATGGGA 60.441 61.111 25.80 23.88 41.16 4.37
843 981 3.536917 CCTGCCTGCATGCATGGG 61.537 66.667 27.34 23.59 41.16 4.00
844 982 4.221422 GCCTGCCTGCATGCATGG 62.221 66.667 27.34 23.53 41.16 3.66
845 983 3.457263 TGCCTGCCTGCATGCATG 61.457 61.111 22.97 22.70 41.33 4.06
855 993 1.615392 GGGATGAACATTATGCCTGCC 59.385 52.381 0.00 0.00 33.68 4.85
925 1086 1.140804 AAACTTGGTGTTGTGCGGC 59.859 52.632 0.00 0.00 39.13 6.53
1010 1203 1.613437 GAACCAAGGCAGCAAGCTTAA 59.387 47.619 0.00 0.00 44.79 1.85
1425 1693 2.042944 GGGAAGTTGGGGATGCCC 60.043 66.667 16.99 16.99 44.51 5.36
1565 1833 3.252458 GCTGAACTTCTTTTTCCCGCTTA 59.748 43.478 0.00 0.00 0.00 3.09
1566 1834 2.034685 GCTGAACTTCTTTTTCCCGCTT 59.965 45.455 0.00 0.00 0.00 4.68
1567 1835 1.609072 GCTGAACTTCTTTTTCCCGCT 59.391 47.619 0.00 0.00 0.00 5.52
1719 1987 0.984230 TGACCCTGAACATGTCCTCC 59.016 55.000 0.00 0.00 0.00 4.30
1791 2059 0.616111 AGGACGAGCAGTGGGAGATT 60.616 55.000 0.00 0.00 0.00 2.40
1830 2098 1.141234 GTCCATCGACGAGGGGTTC 59.859 63.158 26.71 14.39 33.93 3.62
1935 2212 3.058520 CGTTGTCGTAGTATTGGTTGTCG 59.941 47.826 0.00 0.00 0.00 4.35
1971 2248 0.504384 CGTCTGACTTGAACAGCACG 59.496 55.000 6.21 0.00 35.06 5.34
2048 2325 0.823356 TTGCTTCAACCACTCCTGCC 60.823 55.000 0.00 0.00 0.00 4.85
2181 2459 3.664107 TCAAGATAAGGCACGCCATATC 58.336 45.455 20.52 20.52 43.35 1.63
2388 2669 7.440856 TGAAATTCCCATTTTAGCAAACTGAAC 59.559 33.333 0.00 0.00 32.35 3.18
2754 3137 7.983484 CGAGGATGATAATGGTGATGATGATAA 59.017 37.037 0.00 0.00 0.00 1.75
2994 3383 6.892456 CCTATCCTAGGTACATAGCTTCATCA 59.108 42.308 9.08 0.00 41.18 3.07
2995 3384 6.322712 CCCTATCCTAGGTACATAGCTTCATC 59.677 46.154 9.08 0.00 44.73 2.92
2996 3385 6.198639 CCCTATCCTAGGTACATAGCTTCAT 58.801 44.000 9.08 1.43 44.73 2.57
2997 3386 5.518546 CCCCTATCCTAGGTACATAGCTTCA 60.519 48.000 9.08 0.00 44.73 3.02
2998 3387 4.957327 CCCCTATCCTAGGTACATAGCTTC 59.043 50.000 9.08 0.00 44.73 3.86
2999 3388 4.818368 GCCCCTATCCTAGGTACATAGCTT 60.818 50.000 9.08 1.46 44.73 3.74
3000 3389 3.309994 GCCCCTATCCTAGGTACATAGCT 60.310 52.174 9.08 0.00 44.73 3.32
3001 3390 3.032459 GCCCCTATCCTAGGTACATAGC 58.968 54.545 9.08 3.32 44.73 2.97
3002 3391 4.332683 TGCCCCTATCCTAGGTACATAG 57.667 50.000 9.08 7.59 44.73 2.23
3003 3392 4.574172 CCATGCCCCTATCCTAGGTACATA 60.574 50.000 9.08 0.00 44.73 2.29
3004 3393 3.454858 CATGCCCCTATCCTAGGTACAT 58.545 50.000 9.08 0.00 44.73 2.29
3005 3394 2.494627 CCATGCCCCTATCCTAGGTACA 60.495 54.545 9.08 0.00 44.73 2.90
3006 3395 2.188817 CCATGCCCCTATCCTAGGTAC 58.811 57.143 9.08 0.00 44.73 3.34
3007 3396 2.086753 TCCATGCCCCTATCCTAGGTA 58.913 52.381 9.08 0.00 44.73 3.08
3008 3397 0.874594 TCCATGCCCCTATCCTAGGT 59.125 55.000 9.08 0.00 44.73 3.08
3009 3398 1.630878 GTTCCATGCCCCTATCCTAGG 59.369 57.143 0.82 0.82 45.81 3.02
3010 3399 2.304180 CAGTTCCATGCCCCTATCCTAG 59.696 54.545 0.00 0.00 0.00 3.02
3011 3400 2.338809 CAGTTCCATGCCCCTATCCTA 58.661 52.381 0.00 0.00 0.00 2.94
3012 3401 1.143813 CAGTTCCATGCCCCTATCCT 58.856 55.000 0.00 0.00 0.00 3.24
3013 3402 0.846693 ACAGTTCCATGCCCCTATCC 59.153 55.000 0.00 0.00 0.00 2.59
3014 3403 1.202818 GGACAGTTCCATGCCCCTATC 60.203 57.143 0.00 0.00 42.30 2.08
3015 3404 0.846693 GGACAGTTCCATGCCCCTAT 59.153 55.000 0.00 0.00 42.30 2.57
3016 3405 0.253160 AGGACAGTTCCATGCCCCTA 60.253 55.000 0.00 0.00 45.72 3.53
3017 3406 0.253160 TAGGACAGTTCCATGCCCCT 60.253 55.000 0.00 0.00 45.72 4.79
3018 3407 0.623723 TTAGGACAGTTCCATGCCCC 59.376 55.000 0.00 0.00 45.72 5.80
3019 3408 1.282157 ACTTAGGACAGTTCCATGCCC 59.718 52.381 0.00 0.00 45.72 5.36
3020 3409 2.789409 ACTTAGGACAGTTCCATGCC 57.211 50.000 0.00 0.00 45.72 4.40
3021 3410 3.532542 GGTACTTAGGACAGTTCCATGC 58.467 50.000 0.00 0.00 45.72 4.06
3022 3411 3.775316 AGGGTACTTAGGACAGTTCCATG 59.225 47.826 0.00 0.00 45.72 3.66
3023 3412 4.076175 AGGGTACTTAGGACAGTTCCAT 57.924 45.455 0.00 0.00 45.72 3.41
3024 3413 3.555117 AGGGTACTTAGGACAGTTCCA 57.445 47.619 0.00 0.00 45.72 3.53
3025 3414 3.703556 GGTAGGGTACTTAGGACAGTTCC 59.296 52.174 0.00 0.00 43.22 3.62
3026 3415 3.703556 GGGTAGGGTACTTAGGACAGTTC 59.296 52.174 0.00 0.00 0.00 3.01
3027 3416 3.078000 TGGGTAGGGTACTTAGGACAGTT 59.922 47.826 0.00 0.00 0.00 3.16
3028 3417 2.656432 TGGGTAGGGTACTTAGGACAGT 59.344 50.000 0.00 0.00 0.00 3.55
3029 3418 3.393426 TGGGTAGGGTACTTAGGACAG 57.607 52.381 0.00 0.00 0.00 3.51
3030 3419 3.567219 CCTTGGGTAGGGTACTTAGGACA 60.567 52.174 0.00 0.00 40.67 4.02
3031 3420 3.036819 CCTTGGGTAGGGTACTTAGGAC 58.963 54.545 0.00 0.00 40.67 3.85
3032 3421 2.935199 TCCTTGGGTAGGGTACTTAGGA 59.065 50.000 0.00 0.00 44.86 2.94
3033 3422 3.036819 GTCCTTGGGTAGGGTACTTAGG 58.963 54.545 0.00 0.00 44.86 2.69
3034 3423 3.716431 TGTCCTTGGGTAGGGTACTTAG 58.284 50.000 0.00 0.00 44.86 2.18
3035 3424 3.850917 TGTCCTTGGGTAGGGTACTTA 57.149 47.619 0.00 0.00 44.86 2.24
3036 3425 2.727429 TGTCCTTGGGTAGGGTACTT 57.273 50.000 0.00 0.00 44.86 2.24
3037 3426 2.628829 GGATGTCCTTGGGTAGGGTACT 60.629 54.545 0.00 0.00 44.86 2.73
3038 3427 1.767088 GGATGTCCTTGGGTAGGGTAC 59.233 57.143 0.00 0.00 44.86 3.34
3039 3428 1.344701 GGGATGTCCTTGGGTAGGGTA 60.345 57.143 0.00 0.00 44.86 3.69
3040 3429 0.623617 GGGATGTCCTTGGGTAGGGT 60.624 60.000 0.00 0.00 44.86 4.34
3041 3430 0.327576 AGGGATGTCCTTGGGTAGGG 60.328 60.000 0.00 0.00 45.47 3.53
3042 3431 2.090719 TCTAGGGATGTCCTTGGGTAGG 60.091 54.545 0.00 0.00 45.47 3.18
3043 3432 3.330126 TCTAGGGATGTCCTTGGGTAG 57.670 52.381 0.00 0.00 45.47 3.18
3044 3433 3.273886 TCTTCTAGGGATGTCCTTGGGTA 59.726 47.826 0.00 0.00 45.47 3.69
3045 3434 2.045885 TCTTCTAGGGATGTCCTTGGGT 59.954 50.000 0.00 0.00 45.47 4.51
3046 3435 2.764269 TCTTCTAGGGATGTCCTTGGG 58.236 52.381 0.00 0.00 45.47 4.12
3047 3436 3.777522 ACTTCTTCTAGGGATGTCCTTGG 59.222 47.826 0.00 0.00 45.47 3.61
3048 3437 4.467795 TGACTTCTTCTAGGGATGTCCTTG 59.532 45.833 19.42 0.00 45.47 3.61
3049 3438 4.468153 GTGACTTCTTCTAGGGATGTCCTT 59.532 45.833 19.42 0.00 45.47 3.36
3050 3439 7.308683 AGGTGACTTCTTCTAGGGATGTCCT 62.309 48.000 19.42 13.23 44.52 3.85
3051 3440 3.133183 GGTGACTTCTTCTAGGGATGTCC 59.867 52.174 19.42 14.23 37.19 4.02
3052 3441 4.027437 AGGTGACTTCTTCTAGGGATGTC 58.973 47.826 17.35 17.35 37.44 3.06
3053 3442 4.067944 AGGTGACTTCTTCTAGGGATGT 57.932 45.455 0.00 0.00 37.44 3.06
3062 3451 7.945093 CCAAGTTGATTGAAAGGTGACTTCTTC 60.945 40.741 3.87 0.00 44.37 2.87
3063 3452 6.183360 CCAAGTTGATTGAAAGGTGACTTCTT 60.183 38.462 3.87 0.00 44.37 2.52
3064 3453 5.300286 CCAAGTTGATTGAAAGGTGACTTCT 59.700 40.000 3.87 0.00 44.37 2.85
3065 3454 5.299279 TCCAAGTTGATTGAAAGGTGACTTC 59.701 40.000 3.87 0.00 44.37 3.01
3066 3455 5.200483 TCCAAGTTGATTGAAAGGTGACTT 58.800 37.500 3.87 0.00 43.98 3.01
3067 3456 4.792068 TCCAAGTTGATTGAAAGGTGACT 58.208 39.130 3.87 0.00 42.12 3.41
3068 3457 4.022849 CCTCCAAGTTGATTGAAAGGTGAC 60.023 45.833 3.87 0.00 41.83 3.67
3069 3458 4.144297 CCTCCAAGTTGATTGAAAGGTGA 58.856 43.478 3.87 0.00 41.83 4.02
3070 3459 3.891366 ACCTCCAAGTTGATTGAAAGGTG 59.109 43.478 3.87 0.00 45.56 4.00
3071 3460 4.184649 ACCTCCAAGTTGATTGAAAGGT 57.815 40.909 3.87 4.61 43.99 3.50
3072 3461 6.127619 GGAATACCTCCAAGTTGATTGAAAGG 60.128 42.308 3.87 4.02 44.67 3.11
3073 3462 6.856895 GGAATACCTCCAAGTTGATTGAAAG 58.143 40.000 3.87 0.00 44.67 2.62
3074 3463 6.834168 GGAATACCTCCAAGTTGATTGAAA 57.166 37.500 3.87 0.00 44.67 2.69
3087 3476 2.376109 TCTGTCGAGTGGAATACCTCC 58.624 52.381 0.00 0.00 45.64 4.30
3088 3477 4.098044 TGAATCTGTCGAGTGGAATACCTC 59.902 45.833 0.00 0.00 37.04 3.85
3089 3478 4.023980 TGAATCTGTCGAGTGGAATACCT 58.976 43.478 0.00 0.00 37.04 3.08
3090 3479 4.386867 TGAATCTGTCGAGTGGAATACC 57.613 45.455 0.00 0.00 0.00 2.73
3091 3480 5.517054 GTCTTGAATCTGTCGAGTGGAATAC 59.483 44.000 0.00 0.00 38.72 1.89
3092 3481 5.185056 TGTCTTGAATCTGTCGAGTGGAATA 59.815 40.000 0.00 0.00 38.72 1.75
3093 3482 4.021104 TGTCTTGAATCTGTCGAGTGGAAT 60.021 41.667 0.00 0.00 38.72 3.01
3094 3483 3.320826 TGTCTTGAATCTGTCGAGTGGAA 59.679 43.478 0.00 0.00 38.72 3.53
3095 3484 2.890945 TGTCTTGAATCTGTCGAGTGGA 59.109 45.455 0.00 0.00 38.72 4.02
3096 3485 2.989840 GTGTCTTGAATCTGTCGAGTGG 59.010 50.000 0.00 0.00 38.72 4.00
3097 3486 3.906998 AGTGTCTTGAATCTGTCGAGTG 58.093 45.455 0.00 0.00 38.72 3.51
3098 3487 3.365465 CGAGTGTCTTGAATCTGTCGAGT 60.365 47.826 0.00 0.00 38.72 4.18
3099 3488 3.120165 TCGAGTGTCTTGAATCTGTCGAG 60.120 47.826 0.00 0.00 38.95 4.04
3100 3489 2.812011 TCGAGTGTCTTGAATCTGTCGA 59.188 45.455 0.00 0.00 33.10 4.20
3101 3490 2.911723 GTCGAGTGTCTTGAATCTGTCG 59.088 50.000 0.00 0.00 0.00 4.35
3102 3491 3.246619 GGTCGAGTGTCTTGAATCTGTC 58.753 50.000 0.00 0.00 0.00 3.51
3103 3492 2.628178 TGGTCGAGTGTCTTGAATCTGT 59.372 45.455 0.00 0.00 0.00 3.41
3104 3493 2.989840 GTGGTCGAGTGTCTTGAATCTG 59.010 50.000 0.00 0.00 0.00 2.90
3105 3494 2.351835 CGTGGTCGAGTGTCTTGAATCT 60.352 50.000 0.00 0.00 39.71 2.40
3106 3495 1.986378 CGTGGTCGAGTGTCTTGAATC 59.014 52.381 0.00 0.00 39.71 2.52
3107 3496 1.611977 TCGTGGTCGAGTGTCTTGAAT 59.388 47.619 0.00 0.00 41.35 2.57
3108 3497 1.026584 TCGTGGTCGAGTGTCTTGAA 58.973 50.000 0.00 0.00 41.35 2.69
3109 3498 1.001706 CTTCGTGGTCGAGTGTCTTGA 60.002 52.381 0.00 0.00 46.81 3.02
3110 3499 1.409412 CTTCGTGGTCGAGTGTCTTG 58.591 55.000 0.00 0.00 46.81 3.02
3111 3500 0.318784 GCTTCGTGGTCGAGTGTCTT 60.319 55.000 0.00 0.00 46.81 3.01
3112 3501 1.286260 GCTTCGTGGTCGAGTGTCT 59.714 57.895 0.00 0.00 46.81 3.41
3113 3502 0.596600 TTGCTTCGTGGTCGAGTGTC 60.597 55.000 0.00 0.00 46.81 3.67
3114 3503 0.033504 ATTGCTTCGTGGTCGAGTGT 59.966 50.000 0.00 0.00 46.81 3.55
3115 3504 0.716108 GATTGCTTCGTGGTCGAGTG 59.284 55.000 0.00 0.00 46.81 3.51
3116 3505 0.317160 TGATTGCTTCGTGGTCGAGT 59.683 50.000 0.00 0.00 46.81 4.18
3117 3506 0.716108 GTGATTGCTTCGTGGTCGAG 59.284 55.000 0.00 0.00 46.81 4.04
3118 3507 0.317160 AGTGATTGCTTCGTGGTCGA 59.683 50.000 0.00 0.00 44.66 4.20
3119 3508 0.716108 GAGTGATTGCTTCGTGGTCG 59.284 55.000 0.00 0.00 38.55 4.79
3120 3509 0.716108 CGAGTGATTGCTTCGTGGTC 59.284 55.000 0.00 0.00 0.00 4.02
3121 3510 0.317160 TCGAGTGATTGCTTCGTGGT 59.683 50.000 0.00 0.00 0.00 4.16
3122 3511 0.716108 GTCGAGTGATTGCTTCGTGG 59.284 55.000 0.00 0.00 0.00 4.94
3123 3512 0.716108 GGTCGAGTGATTGCTTCGTG 59.284 55.000 0.00 0.00 0.00 4.35
3124 3513 0.732880 CGGTCGAGTGATTGCTTCGT 60.733 55.000 0.00 0.00 0.00 3.85
3125 3514 1.991430 CGGTCGAGTGATTGCTTCG 59.009 57.895 0.00 0.00 0.00 3.79
3126 3515 1.696832 GGCGGTCGAGTGATTGCTTC 61.697 60.000 0.00 0.00 0.00 3.86
3127 3516 1.741770 GGCGGTCGAGTGATTGCTT 60.742 57.895 0.00 0.00 0.00 3.91
3128 3517 2.125512 GGCGGTCGAGTGATTGCT 60.126 61.111 0.00 0.00 0.00 3.91
3129 3518 2.434185 TGGCGGTCGAGTGATTGC 60.434 61.111 0.00 0.00 0.00 3.56
3130 3519 1.811266 CCTGGCGGTCGAGTGATTG 60.811 63.158 0.00 0.00 0.00 2.67
3131 3520 1.949847 CTCCTGGCGGTCGAGTGATT 61.950 60.000 0.00 0.00 0.00 2.57
3132 3521 2.362503 TCCTGGCGGTCGAGTGAT 60.363 61.111 0.00 0.00 0.00 3.06
3133 3522 2.838748 ATCTCCTGGCGGTCGAGTGA 62.839 60.000 0.00 0.00 0.00 3.41
3134 3523 2.343163 GATCTCCTGGCGGTCGAGTG 62.343 65.000 0.00 0.00 0.00 3.51
3135 3524 2.043852 ATCTCCTGGCGGTCGAGT 60.044 61.111 0.00 0.00 0.00 4.18
3136 3525 0.535328 TAGATCTCCTGGCGGTCGAG 60.535 60.000 0.00 0.00 0.00 4.04
3137 3526 0.106868 TTAGATCTCCTGGCGGTCGA 60.107 55.000 0.00 0.00 0.00 4.20
3138 3527 0.744874 TTTAGATCTCCTGGCGGTCG 59.255 55.000 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.