Multiple sequence alignment - TraesCS6D01G244600

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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 TraesCS6D01G244600 chr6D 100.000 3440 0 0 1 3440 346835313 346831874 0.000000e+00 6353.0
1 TraesCS6D01G244600 chr6D 96.350 137 3 1 619 753 15767289 15767425 1.240000e-54 224.0
2 TraesCS6D01G244600 chr6B 93.936 1913 69 17 747 2647 534235141 534237018 0.000000e+00 2846.0
3 TraesCS6D01G244600 chr6B 89.524 525 27 8 2818 3324 534237509 534238023 1.040000e-179 640.0
4 TraesCS6D01G244600 chr6B 86.364 462 55 4 1 458 534231345 534231802 6.630000e-137 497.0
5 TraesCS6D01G244600 chr6B 83.871 279 41 2 3 280 631231634 631231909 2.630000e-66 263.0
6 TraesCS6D01G244600 chr6B 91.724 145 9 3 3296 3440 534238024 534238165 7.530000e-47 198.0
7 TraesCS6D01G244600 chr6B 93.827 81 5 0 2647 2727 534237198 534237278 4.660000e-24 122.0
8 TraesCS6D01G244600 chr6B 81.646 158 7 9 2715 2850 534237300 534237457 1.010000e-20 111.0
9 TraesCS6D01G244600 chr6A 92.748 1903 73 21 747 2618 496577399 496579267 0.000000e+00 2689.0
10 TraesCS6D01G244600 chr6A 83.746 646 72 12 1 620 496576763 496577401 6.400000e-162 580.0
11 TraesCS6D01G244600 chr6A 93.598 328 20 1 3113 3440 496622616 496622942 3.990000e-134 488.0
12 TraesCS6D01G244600 chr6A 90.533 169 13 1 2920 3088 496622069 496622234 1.610000e-53 220.0
13 TraesCS6D01G244600 chr6A 88.525 122 5 1 2792 2904 496593384 496593505 4.630000e-29 139.0
14 TraesCS6D01G244600 chr2D 82.514 1384 203 25 1005 2376 521533467 521534823 0.000000e+00 1179.0
15 TraesCS6D01G244600 chr2D 95.714 140 4 1 619 756 641099330 641099191 1.240000e-54 224.0
16 TraesCS6D01G244600 chr2A 82.135 1405 212 24 1005 2396 666026575 666025197 0.000000e+00 1168.0
17 TraesCS6D01G244600 chr7D 81.463 1408 230 20 1005 2399 186428447 186427058 0.000000e+00 1125.0
18 TraesCS6D01G244600 chr7D 98.473 131 2 0 619 749 113883495 113883365 7.420000e-57 231.0
19 TraesCS6D01G244600 chr7D 96.377 138 3 1 619 754 576195194 576195331 3.450000e-55 226.0
20 TraesCS6D01G244600 chr7D 93.919 148 6 2 619 764 185180257 185180403 1.610000e-53 220.0
21 TraesCS6D01G244600 chr7B 81.281 1405 231 24 1005 2399 329516537 329515155 0.000000e+00 1109.0
22 TraesCS6D01G244600 chr7B 84.502 271 38 2 3 272 742246796 742246529 7.320000e-67 265.0
23 TraesCS6D01G244600 chr7B 82.927 287 45 2 3 288 632802562 632802279 4.410000e-64 255.0
24 TraesCS6D01G244600 chr7A 84.201 1057 161 5 1346 2399 198511325 198512378 0.000000e+00 1022.0
25 TraesCS6D01G244600 chr7A 75.525 1095 206 44 1335 2397 19960088 19959024 6.680000e-132 481.0
26 TraesCS6D01G244600 chr2B 86.115 749 102 2 1629 2376 614419581 614418834 0.000000e+00 806.0
27 TraesCS6D01G244600 chr2B 85.714 749 105 2 1629 2376 614314510 614313763 0.000000e+00 789.0
28 TraesCS6D01G244600 chr2B 83.505 291 41 5 1 288 651134394 651134680 7.320000e-67 265.0
29 TraesCS6D01G244600 chr5B 72.587 974 210 40 1001 1966 685305187 685306111 2.040000e-67 267.0
30 TraesCS6D01G244600 chr5B 83.275 287 44 2 3 288 96905587 96905304 9.470000e-66 261.0
31 TraesCS6D01G244600 chr5B 82.986 288 43 4 3 288 614364497 614364214 4.410000e-64 255.0
32 TraesCS6D01G244600 chr5B 74.897 486 98 17 1001 1486 685529724 685529263 2.090000e-47 200.0
33 TraesCS6D01G244600 chr3B 84.000 275 40 2 3 276 2342675 2342946 9.470000e-66 261.0
34 TraesCS6D01G244600 chr3B 82.222 135 17 6 337 467 243243630 243243761 3.630000e-20 110.0
35 TraesCS6D01G244600 chr1D 83.813 278 41 2 3 279 40862911 40862637 9.470000e-66 261.0
36 TraesCS6D01G244600 chr3D 99.237 131 1 0 619 749 14036444 14036574 1.600000e-58 237.0
37 TraesCS6D01G244600 chr3D 96.403 139 2 2 619 755 459212004 459211867 3.450000e-55 226.0
38 TraesCS6D01G244600 chr3D 82.911 158 25 2 311 467 459208062 459208218 1.290000e-29 141.0
39 TraesCS6D01G244600 chr3D 100.000 28 0 0 2087 2114 482489540 482489513 6.000000e-03 52.8
40 TraesCS6D01G244600 chr5D 98.496 133 2 0 619 751 236944932 236945064 5.740000e-58 235.0
41 TraesCS6D01G244600 chr4D 95.714 140 4 1 619 756 67327617 67327478 1.240000e-54 224.0
42 TraesCS6D01G244600 chr4B 80.921 152 23 5 317 467 644484997 644484851 7.800000e-22 115.0
43 TraesCS6D01G244600 chr4B 79.167 120 24 1 320 438 657820064 657819945 7.910000e-12 82.4
44 TraesCS6D01G244600 chr1B 85.227 88 8 5 340 425 164841913 164841997 6.120000e-13 86.1


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 TraesCS6D01G244600 chr6D 346831874 346835313 3439 True 6353.000000 6353 100.0000 1 3440 1 chr6D.!!$R1 3439
1 TraesCS6D01G244600 chr6B 534231345 534238165 6820 False 735.666667 2846 89.5035 1 3440 6 chr6B.!!$F2 3439
2 TraesCS6D01G244600 chr6A 496576763 496579267 2504 False 1634.500000 2689 88.2470 1 2618 2 chr6A.!!$F2 2617
3 TraesCS6D01G244600 chr6A 496622069 496622942 873 False 354.000000 488 92.0655 2920 3440 2 chr6A.!!$F3 520
4 TraesCS6D01G244600 chr2D 521533467 521534823 1356 False 1179.000000 1179 82.5140 1005 2376 1 chr2D.!!$F1 1371
5 TraesCS6D01G244600 chr2A 666025197 666026575 1378 True 1168.000000 1168 82.1350 1005 2396 1 chr2A.!!$R1 1391
6 TraesCS6D01G244600 chr7D 186427058 186428447 1389 True 1125.000000 1125 81.4630 1005 2399 1 chr7D.!!$R2 1394
7 TraesCS6D01G244600 chr7B 329515155 329516537 1382 True 1109.000000 1109 81.2810 1005 2399 1 chr7B.!!$R1 1394
8 TraesCS6D01G244600 chr7A 198511325 198512378 1053 False 1022.000000 1022 84.2010 1346 2399 1 chr7A.!!$F1 1053
9 TraesCS6D01G244600 chr7A 19959024 19960088 1064 True 481.000000 481 75.5250 1335 2397 1 chr7A.!!$R1 1062
10 TraesCS6D01G244600 chr2B 614418834 614419581 747 True 806.000000 806 86.1150 1629 2376 1 chr2B.!!$R2 747
11 TraesCS6D01G244600 chr2B 614313763 614314510 747 True 789.000000 789 85.7140 1629 2376 1 chr2B.!!$R1 747
12 TraesCS6D01G244600 chr5B 685305187 685306111 924 False 267.000000 267 72.5870 1001 1966 1 chr5B.!!$F1 965

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
624 3818 0.034059 GGCATCAGCTACGTAGGCAT 59.966 55.0 23.47 4.75 41.7 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2480 5760 1.60571 GCAAGACTCACACAGCAACAT 59.394 47.619 0.0 0.0 0.0 2.71 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
48 49 1.102222 ACTACCTCCTAAGCTCCGCG 61.102 60.000 0.00 0.00 0.00 6.46
104 105 3.681874 GCCCAAGGATACAAGTCCACTAC 60.682 52.174 0.00 0.00 40.90 2.73
152 153 3.131046 CCTTGCTTGAACAGACTGGTTTT 59.869 43.478 7.51 0.00 0.00 2.43
162 163 7.555087 TGAACAGACTGGTTTTCAAATTCATT 58.445 30.769 7.51 0.00 0.00 2.57
166 167 4.881920 ACTGGTTTTCAAATTCATTCCCG 58.118 39.130 0.00 0.00 0.00 5.14
186 187 0.759436 ACCATAGGACCGATCGCCTT 60.759 55.000 17.79 7.45 35.73 4.35
190 191 0.681887 TAGGACCGATCGCCTTGTCA 60.682 55.000 17.79 0.00 35.73 3.58
205 206 3.009473 CCTTGTCAGGGAAGGATCTGAAA 59.991 47.826 0.00 0.00 42.44 2.69
216 217 8.173412 AGGGAAGGATCTGAAACTTCTTTATTT 58.827 33.333 18.15 0.00 40.25 1.40
220 221 9.520515 AAGGATCTGAAACTTCTTTATTTAGCA 57.479 29.630 0.00 0.00 0.00 3.49
221 222 9.692325 AGGATCTGAAACTTCTTTATTTAGCAT 57.308 29.630 0.00 0.00 0.00 3.79
241 242 1.080569 GTCATTGCCACCGCCAAAG 60.081 57.895 0.00 0.00 0.00 2.77
242 243 1.228398 TCATTGCCACCGCCAAAGA 60.228 52.632 0.00 0.00 0.00 2.52
255 256 2.359900 GCCAAAGACAAGACGATGGAT 58.640 47.619 0.00 0.00 0.00 3.41
301 302 4.329392 GGCCTAAAACCTAAAGCTACACA 58.671 43.478 0.00 0.00 0.00 3.72
314 315 2.434336 AGCTACACAATCCGGATGCTAA 59.566 45.455 19.95 2.10 0.00 3.09
318 319 3.620488 ACACAATCCGGATGCTAAATGT 58.380 40.909 19.95 14.57 0.00 2.71
325 326 6.619801 ATCCGGATGCTAAATGTTTAGAAC 57.380 37.500 18.33 6.24 42.05 3.01
328 329 6.601613 TCCGGATGCTAAATGTTTAGAACAAT 59.398 34.615 14.90 4.25 45.86 2.71
356 366 7.750229 TCAGATTTTTCTAAAGCATCAGTGT 57.250 32.000 0.00 0.00 32.15 3.55
488 1301 6.155827 GCAAATTGCATTGTACAAGGTCTTA 58.844 36.000 20.31 5.40 44.26 2.10
508 3682 0.618458 TTAGAATCTTGCGGGGCAGT 59.382 50.000 0.00 0.00 40.61 4.40
530 3704 7.255070 GCAGTTTCTCTTTGTTTCATTCTCTCT 60.255 37.037 0.00 0.00 0.00 3.10
540 3730 1.895798 TCATTCTCTCTCCACACGCTT 59.104 47.619 0.00 0.00 0.00 4.68
551 3741 0.787787 CACACGCTTGCGTTAGCTAA 59.212 50.000 18.29 0.86 45.42 3.09
567 3757 3.990092 AGCTAACTCGTCACATGTCAAA 58.010 40.909 0.00 0.00 0.00 2.69
620 3814 0.380733 TGACGGCATCAGCTACGTAG 59.619 55.000 18.47 18.47 38.46 3.51
621 3815 0.317938 GACGGCATCAGCTACGTAGG 60.318 60.000 23.47 8.51 38.46 3.18
622 3816 1.661821 CGGCATCAGCTACGTAGGC 60.662 63.158 23.47 16.77 41.70 3.93
623 3817 1.441729 GGCATCAGCTACGTAGGCA 59.558 57.895 23.47 2.68 41.70 4.75
624 3818 0.034059 GGCATCAGCTACGTAGGCAT 59.966 55.000 23.47 4.75 41.70 4.40
625 3819 1.541233 GGCATCAGCTACGTAGGCATT 60.541 52.381 23.47 3.39 41.70 3.56
626 3820 2.213499 GCATCAGCTACGTAGGCATTT 58.787 47.619 23.47 3.08 37.91 2.32
627 3821 2.221981 GCATCAGCTACGTAGGCATTTC 59.778 50.000 23.47 6.15 37.91 2.17
628 3822 3.457234 CATCAGCTACGTAGGCATTTCA 58.543 45.455 23.47 1.59 0.00 2.69
629 3823 3.603158 TCAGCTACGTAGGCATTTCAA 57.397 42.857 23.47 0.00 0.00 2.69
630 3824 3.259064 TCAGCTACGTAGGCATTTCAAC 58.741 45.455 23.47 4.01 0.00 3.18
631 3825 3.000041 CAGCTACGTAGGCATTTCAACA 59.000 45.455 23.47 0.00 0.00 3.33
632 3826 3.435327 CAGCTACGTAGGCATTTCAACAA 59.565 43.478 23.47 0.00 0.00 2.83
633 3827 3.684788 AGCTACGTAGGCATTTCAACAAG 59.315 43.478 23.47 0.00 0.00 3.16
634 3828 3.435671 GCTACGTAGGCATTTCAACAAGT 59.564 43.478 23.47 0.00 0.00 3.16
635 3829 3.896648 ACGTAGGCATTTCAACAAGTG 57.103 42.857 0.00 0.00 0.00 3.16
636 3830 3.472652 ACGTAGGCATTTCAACAAGTGA 58.527 40.909 0.00 0.00 0.00 3.41
637 3831 3.250040 ACGTAGGCATTTCAACAAGTGAC 59.750 43.478 0.00 0.00 35.39 3.67
638 3832 3.498397 CGTAGGCATTTCAACAAGTGACT 59.502 43.478 0.00 0.00 40.60 3.41
639 3833 4.688879 CGTAGGCATTTCAACAAGTGACTA 59.311 41.667 0.00 0.00 38.51 2.59
641 3835 4.460263 AGGCATTTCAACAAGTGACTACA 58.540 39.130 0.00 0.00 35.84 2.74
642 3836 5.072741 AGGCATTTCAACAAGTGACTACAT 58.927 37.500 0.00 0.00 35.84 2.29
643 3837 6.237901 AGGCATTTCAACAAGTGACTACATA 58.762 36.000 0.00 0.00 35.84 2.29
644 3838 6.149474 AGGCATTTCAACAAGTGACTACATAC 59.851 38.462 0.00 0.00 35.84 2.39
645 3839 6.015504 GCATTTCAACAAGTGACTACATACG 58.984 40.000 0.00 0.00 35.39 3.06
646 3840 6.534059 CATTTCAACAAGTGACTACATACGG 58.466 40.000 0.00 0.00 35.39 4.02
647 3841 4.182693 TCAACAAGTGACTACATACGGG 57.817 45.455 0.00 0.00 0.00 5.28
648 3842 3.056393 TCAACAAGTGACTACATACGGGG 60.056 47.826 0.00 0.00 0.00 5.73
649 3843 2.532843 ACAAGTGACTACATACGGGGT 58.467 47.619 0.00 0.00 0.00 4.95
650 3844 3.700538 ACAAGTGACTACATACGGGGTA 58.299 45.455 0.00 0.00 0.00 3.69
651 3845 4.088634 ACAAGTGACTACATACGGGGTAA 58.911 43.478 0.00 0.00 0.00 2.85
652 3846 4.527816 ACAAGTGACTACATACGGGGTAAA 59.472 41.667 0.00 0.00 0.00 2.01
653 3847 5.011943 ACAAGTGACTACATACGGGGTAAAA 59.988 40.000 0.00 0.00 0.00 1.52
654 3848 5.945144 AGTGACTACATACGGGGTAAAAT 57.055 39.130 0.00 0.00 0.00 1.82
655 3849 5.667466 AGTGACTACATACGGGGTAAAATG 58.333 41.667 0.00 0.00 0.00 2.32
656 3850 5.422970 AGTGACTACATACGGGGTAAAATGA 59.577 40.000 0.00 0.00 0.00 2.57
657 3851 5.751990 GTGACTACATACGGGGTAAAATGAG 59.248 44.000 0.00 0.00 0.00 2.90
658 3852 5.422970 TGACTACATACGGGGTAAAATGAGT 59.577 40.000 0.00 0.00 0.00 3.41
659 3853 5.667466 ACTACATACGGGGTAAAATGAGTG 58.333 41.667 0.00 0.00 0.00 3.51
660 3854 4.829872 ACATACGGGGTAAAATGAGTGA 57.170 40.909 0.00 0.00 0.00 3.41
661 3855 5.168647 ACATACGGGGTAAAATGAGTGAA 57.831 39.130 0.00 0.00 0.00 3.18
662 3856 5.751586 ACATACGGGGTAAAATGAGTGAAT 58.248 37.500 0.00 0.00 0.00 2.57
663 3857 5.820947 ACATACGGGGTAAAATGAGTGAATC 59.179 40.000 0.00 0.00 0.00 2.52
664 3858 4.569719 ACGGGGTAAAATGAGTGAATCT 57.430 40.909 0.00 0.00 0.00 2.40
665 3859 5.687166 ACGGGGTAAAATGAGTGAATCTA 57.313 39.130 0.00 0.00 0.00 1.98
666 3860 5.425630 ACGGGGTAAAATGAGTGAATCTAC 58.574 41.667 0.00 0.00 0.00 2.59
667 3861 5.046159 ACGGGGTAAAATGAGTGAATCTACA 60.046 40.000 0.00 0.00 0.00 2.74
668 3862 5.293569 CGGGGTAAAATGAGTGAATCTACAC 59.706 44.000 0.00 0.00 40.60 2.90
691 3885 8.731605 ACACTCTAATATGTCTACATACATCCG 58.268 37.037 4.98 0.00 41.15 4.18
692 3886 8.731605 CACTCTAATATGTCTACATACATCCGT 58.268 37.037 4.98 0.00 41.15 4.69
693 3887 9.955102 ACTCTAATATGTCTACATACATCCGTA 57.045 33.333 4.98 0.00 41.15 4.02
708 3902 9.977762 CATACATCCGTATGTGATATTCATTTG 57.022 33.333 3.56 0.00 46.70 2.32
709 3903 9.942850 ATACATCCGTATGTGATATTCATTTGA 57.057 29.630 3.56 0.00 45.99 2.69
710 3904 8.675705 ACATCCGTATGTGATATTCATTTGAA 57.324 30.769 0.00 0.00 44.79 2.69
711 3905 9.119418 ACATCCGTATGTGATATTCATTTGAAA 57.881 29.630 0.00 0.00 44.79 2.69
714 3908 8.075574 TCCGTATGTGATATTCATTTGAAATGC 58.924 33.333 12.86 0.00 37.61 3.56
715 3909 7.326789 CCGTATGTGATATTCATTTGAAATGCC 59.673 37.037 12.86 1.28 37.61 4.40
716 3910 8.077991 CGTATGTGATATTCATTTGAAATGCCT 58.922 33.333 12.86 5.36 37.61 4.75
726 3920 8.954950 TTCATTTGAAATGCCTAAAAAGACAA 57.045 26.923 12.86 0.00 0.00 3.18
727 3921 8.592105 TCATTTGAAATGCCTAAAAAGACAAG 57.408 30.769 12.86 0.00 0.00 3.16
728 3922 8.203485 TCATTTGAAATGCCTAAAAAGACAAGT 58.797 29.630 12.86 0.00 0.00 3.16
729 3923 9.474920 CATTTGAAATGCCTAAAAAGACAAGTA 57.525 29.630 4.82 0.00 0.00 2.24
741 3935 9.211485 CTAAAAAGACAAGTATTTAGGAACGGA 57.789 33.333 0.00 0.00 33.69 4.69
742 3936 7.668525 AAAAGACAAGTATTTAGGAACGGAG 57.331 36.000 0.00 0.00 0.00 4.63
743 3937 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
744 3938 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
745 3939 4.098894 ACAAGTATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
746 3940 4.161754 ACAAGTATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
747 3941 3.991683 AGTATTTAGGAACGGAGGGAGT 58.008 45.455 0.00 0.00 0.00 3.85
748 3942 5.134725 AGTATTTAGGAACGGAGGGAGTA 57.865 43.478 0.00 0.00 0.00 2.59
752 3946 7.786464 AGTATTTAGGAACGGAGGGAGTAATTA 59.214 37.037 0.00 0.00 0.00 1.40
820 4017 0.169894 GGTCTCCTCCGACACGTAAC 59.830 60.000 0.00 0.00 35.63 2.50
864 4063 3.826157 CTGCACCCTTCTCTCTCTATAGG 59.174 52.174 0.00 0.00 0.00 2.57
870 4069 3.572255 CCTTCTCTCTCTATAGGTGCACC 59.428 52.174 29.22 29.22 0.00 5.01
871 4070 3.953542 TCTCTCTCTATAGGTGCACCA 57.046 47.619 36.39 22.64 38.89 4.17
872 4071 4.461450 TCTCTCTCTATAGGTGCACCAT 57.539 45.455 36.39 27.01 38.89 3.55
873 4072 4.148079 TCTCTCTCTATAGGTGCACCATG 58.852 47.826 36.39 21.86 38.89 3.66
874 4073 2.630098 TCTCTCTATAGGTGCACCATGC 59.370 50.000 36.39 10.83 45.29 4.06
1071 4284 4.393155 ATGCTCCACTTCGCCGCA 62.393 61.111 0.00 0.00 34.83 5.69
1457 4691 1.205893 CAGCTTCCTCGCTTACCTCTT 59.794 52.381 0.00 0.00 38.41 2.85
2427 5695 2.829384 GGGCTCCACACCAAGTCCA 61.829 63.158 0.00 0.00 37.23 4.02
2440 5708 6.207417 CACACCAAGTCCAGACAAAGAATAAT 59.793 38.462 0.00 0.00 0.00 1.28
2443 5711 5.126061 CCAAGTCCAGACAAAGAATAATGGG 59.874 44.000 0.00 0.00 0.00 4.00
2466 5745 1.015085 CCGGCATTGGCACATTGTTG 61.015 55.000 11.10 0.00 41.24 3.33
2480 5760 5.006649 GCACATTGTTGCTAGTATCATTCGA 59.993 40.000 0.00 0.00 39.59 3.71
2502 5782 1.159713 TTGCTGTGTGAGTCTTGCCG 61.160 55.000 0.00 0.00 0.00 5.69
2536 5816 5.030295 CGAACATGACAATGCCTATTTGAC 58.970 41.667 0.00 0.00 37.29 3.18
2540 5820 4.987408 TGACAATGCCTATTTGACATGG 57.013 40.909 0.00 0.00 0.00 3.66
2618 5898 4.391216 GGATGTTCAAGTGTCACATCTCAG 59.609 45.833 17.94 0.00 44.25 3.35
2619 5899 4.670896 TGTTCAAGTGTCACATCTCAGA 57.329 40.909 5.62 0.00 0.00 3.27
2620 5900 5.219343 TGTTCAAGTGTCACATCTCAGAT 57.781 39.130 5.62 0.00 0.00 2.90
2621 5901 5.233225 TGTTCAAGTGTCACATCTCAGATC 58.767 41.667 5.62 0.00 0.00 2.75
2622 5902 5.011431 TGTTCAAGTGTCACATCTCAGATCT 59.989 40.000 5.62 0.00 0.00 2.75
2623 5903 5.321959 TCAAGTGTCACATCTCAGATCTC 57.678 43.478 5.62 0.00 0.00 2.75
2624 5904 4.768968 TCAAGTGTCACATCTCAGATCTCA 59.231 41.667 5.62 0.00 0.00 3.27
2673 6133 6.809630 TGATTAACAATCACCGAACATCAA 57.190 33.333 0.00 0.00 42.69 2.57
2684 6144 3.282021 CCGAACATCAATGGTGGAATCT 58.718 45.455 0.00 0.00 0.00 2.40
2722 6182 1.376037 CTGTTCAGCCGAAGACCCC 60.376 63.158 0.00 0.00 0.00 4.95
2727 6187 2.120718 AGCCGAAGACCCCTCACT 59.879 61.111 0.00 0.00 0.00 3.41
2733 6227 1.353091 GAAGACCCCTCACTGAACCT 58.647 55.000 0.00 0.00 0.00 3.50
2814 6330 6.313658 GCAAAACCTTCATTTCCATATGTTCC 59.686 38.462 1.24 0.00 0.00 3.62
2852 6368 8.635765 ACAGATGTGAACAATATTTGGTAAGT 57.364 30.769 0.00 0.00 34.12 2.24
2853 6369 9.077885 ACAGATGTGAACAATATTTGGTAAGTT 57.922 29.630 0.00 0.00 34.12 2.66
2854 6370 9.559958 CAGATGTGAACAATATTTGGTAAGTTC 57.440 33.333 6.99 6.99 34.53 3.01
2855 6371 9.295825 AGATGTGAACAATATTTGGTAAGTTCA 57.704 29.630 10.92 10.92 38.22 3.18
2856 6372 9.906660 GATGTGAACAATATTTGGTAAGTTCAA 57.093 29.630 14.74 8.65 40.22 2.69
2858 6374 9.743057 TGTGAACAATATTTGGTAAGTTCAAAG 57.257 29.630 14.74 0.00 40.22 2.77
2860 6376 9.959749 TGAACAATATTTGGTAAGTTCAAAGAC 57.040 29.630 12.05 0.00 37.91 3.01
2904 6514 6.481313 GCAAGATCTCAGCAGTTAATACATCA 59.519 38.462 13.53 0.00 0.00 3.07
2956 6574 7.120923 ACCGAAGCCTAGAAATCTGTATTAA 57.879 36.000 0.00 0.00 0.00 1.40
3016 6634 2.982470 GCTTCTGCTTGGATTTTTCGTG 59.018 45.455 0.00 0.00 36.03 4.35
3088 6706 0.960286 TCATGTTGCCACCACACATG 59.040 50.000 5.34 5.34 39.40 3.21
3093 6711 2.601367 GCCACCACACATGCCCTT 60.601 61.111 0.00 0.00 0.00 3.95
3094 6712 2.209315 GCCACCACACATGCCCTTT 61.209 57.895 0.00 0.00 0.00 3.11
3095 6713 1.667151 CCACCACACATGCCCTTTG 59.333 57.895 0.00 0.00 0.00 2.77
3096 6714 1.114722 CCACCACACATGCCCTTTGT 61.115 55.000 0.00 0.00 0.00 2.83
3098 6716 0.106268 ACCACACATGCCCTTTGTGA 60.106 50.000 13.38 0.00 45.83 3.58
3099 6717 0.314935 CCACACATGCCCTTTGTGAC 59.685 55.000 13.38 0.00 45.83 3.67
3100 6718 1.321474 CACACATGCCCTTTGTGACT 58.679 50.000 10.51 0.00 45.83 3.41
3163 7146 4.039973 TCGGTCCTATATCACACATTTCCC 59.960 45.833 0.00 0.00 0.00 3.97
3170 7153 3.915437 ATCACACATTTCCCGTTTCAC 57.085 42.857 0.00 0.00 0.00 3.18
3184 7167 3.367498 CCGTTTCACTTAGGAGAGTGGAG 60.367 52.174 5.31 0.00 45.54 3.86
3187 7170 5.336849 CGTTTCACTTAGGAGAGTGGAGAAT 60.337 44.000 5.31 0.00 45.54 2.40
3206 7189 5.246307 AGAATACTCAAGGGTACTTTGCAC 58.754 41.667 0.00 0.00 33.81 4.57
3207 7190 4.634012 ATACTCAAGGGTACTTTGCACA 57.366 40.909 0.00 0.00 33.81 4.57
3210 7193 2.489329 CTCAAGGGTACTTTGCACATGG 59.511 50.000 0.00 0.00 33.81 3.66
3226 7209 5.104318 TGCACATGGTTATACCCAGATACAA 60.104 40.000 0.00 0.00 37.50 2.41
3242 7225 6.127366 CCAGATACAAAAATGTATTGCCCTGT 60.127 38.462 3.25 0.00 35.36 4.00
3260 7243 4.256920 CCTGTTGTATCCCTCTCAACTTG 58.743 47.826 0.00 0.00 41.05 3.16
3271 7254 3.306364 CCTCTCAACTTGATTGTCTCCGT 60.306 47.826 0.00 0.00 39.54 4.69
3273 7256 5.462530 TCTCAACTTGATTGTCTCCGTTA 57.537 39.130 0.00 0.00 39.54 3.18
3381 7393 2.507407 TGCTCCCCCAGAAATACAAC 57.493 50.000 0.00 0.00 0.00 3.32
3382 7394 1.707989 TGCTCCCCCAGAAATACAACA 59.292 47.619 0.00 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 2.639286 GGCTTTGCCGTGTGACAG 59.361 61.111 0.00 0.00 39.62 3.51
123 124 1.153958 GTTCAAGCAAGGATGGCGC 60.154 57.895 0.00 0.00 42.81 6.53
134 135 4.370364 TTGAAAACCAGTCTGTTCAAGC 57.630 40.909 11.23 0.00 35.60 4.01
152 153 4.165180 TCCTATGGTCGGGAATGAATTTGA 59.835 41.667 0.00 0.00 0.00 2.69
162 163 0.538977 GATCGGTCCTATGGTCGGGA 60.539 60.000 0.00 0.00 0.00 5.14
166 167 1.179814 AGGCGATCGGTCCTATGGTC 61.180 60.000 18.30 0.00 0.00 4.02
186 187 3.251484 AGTTTCAGATCCTTCCCTGACA 58.749 45.455 0.00 0.00 38.95 3.58
190 191 5.590976 AAAGAAGTTTCAGATCCTTCCCT 57.409 39.130 5.38 0.00 36.16 4.20
205 206 7.189512 GCAATGACGATGCTAAATAAAGAAGT 58.810 34.615 0.00 0.00 40.64 3.01
216 217 0.809636 CGGTGGCAATGACGATGCTA 60.810 55.000 0.00 0.00 43.34 3.49
220 221 2.824041 GGCGGTGGCAATGACGAT 60.824 61.111 6.37 0.00 42.47 3.73
221 222 3.834013 TTGGCGGTGGCAATGACGA 62.834 57.895 1.29 0.00 42.98 4.20
241 242 1.207089 TGGGTCATCCATCGTCTTGTC 59.793 52.381 0.00 0.00 41.46 3.18
242 243 1.275666 TGGGTCATCCATCGTCTTGT 58.724 50.000 0.00 0.00 41.46 3.16
255 256 6.352737 CCCTAGTAGCTTAGATTTTTGGGTCA 60.353 42.308 0.00 0.00 0.00 4.02
301 302 6.601613 TGTTCTAAACATTTAGCATCCGGATT 59.398 34.615 16.19 3.62 39.90 3.01
334 338 7.992754 AGACACTGATGCTTTAGAAAAATCT 57.007 32.000 0.00 0.00 0.00 2.40
344 348 7.615403 TCTGTAGAAATAGACACTGATGCTTT 58.385 34.615 0.00 0.00 0.00 3.51
347 351 7.834068 TTTCTGTAGAAATAGACACTGATGC 57.166 36.000 3.05 0.00 38.94 3.91
468 1281 9.461312 TTCTAATAAGACCTTGTACAATGCAAT 57.539 29.630 9.13 0.00 0.00 3.56
480 1293 5.368989 CCCGCAAGATTCTAATAAGACCTT 58.631 41.667 0.00 0.00 43.02 3.50
488 1301 1.212935 ACTGCCCCGCAAGATTCTAAT 59.787 47.619 0.00 0.00 38.41 1.73
508 3682 7.227512 GTGGAGAGAGAATGAAACAAAGAGAAA 59.772 37.037 0.00 0.00 0.00 2.52
540 3730 1.267533 TGTGACGAGTTAGCTAACGCA 59.732 47.619 31.13 22.97 40.96 5.24
551 3741 3.297830 TCGATTTGACATGTGACGAGT 57.702 42.857 1.15 0.00 0.00 4.18
579 3773 2.046314 CGAGCAAACGGGGTGGAT 60.046 61.111 0.00 0.00 0.00 3.41
620 3814 4.829064 TGTAGTCACTTGTTGAAATGCC 57.171 40.909 0.00 0.00 35.39 4.40
621 3815 6.015504 CGTATGTAGTCACTTGTTGAAATGC 58.984 40.000 0.00 0.00 35.39 3.56
622 3816 6.402118 CCCGTATGTAGTCACTTGTTGAAATG 60.402 42.308 0.00 0.00 35.39 2.32
623 3817 5.642063 CCCGTATGTAGTCACTTGTTGAAAT 59.358 40.000 0.00 0.00 35.39 2.17
624 3818 4.992319 CCCGTATGTAGTCACTTGTTGAAA 59.008 41.667 0.00 0.00 35.39 2.69
625 3819 4.561938 CCCCGTATGTAGTCACTTGTTGAA 60.562 45.833 0.00 0.00 35.39 2.69
626 3820 3.056393 CCCCGTATGTAGTCACTTGTTGA 60.056 47.826 0.00 0.00 0.00 3.18
627 3821 3.259064 CCCCGTATGTAGTCACTTGTTG 58.741 50.000 0.00 0.00 0.00 3.33
628 3822 2.901839 ACCCCGTATGTAGTCACTTGTT 59.098 45.455 0.00 0.00 0.00 2.83
629 3823 2.532843 ACCCCGTATGTAGTCACTTGT 58.467 47.619 0.00 0.00 0.00 3.16
630 3824 4.724074 TTACCCCGTATGTAGTCACTTG 57.276 45.455 0.00 0.00 0.00 3.16
631 3825 5.743636 TTTTACCCCGTATGTAGTCACTT 57.256 39.130 0.00 0.00 0.00 3.16
632 3826 5.422970 TCATTTTACCCCGTATGTAGTCACT 59.577 40.000 0.00 0.00 0.00 3.41
633 3827 5.663456 TCATTTTACCCCGTATGTAGTCAC 58.337 41.667 0.00 0.00 0.00 3.67
634 3828 5.422970 ACTCATTTTACCCCGTATGTAGTCA 59.577 40.000 0.00 0.00 0.00 3.41
635 3829 5.751990 CACTCATTTTACCCCGTATGTAGTC 59.248 44.000 0.00 0.00 0.00 2.59
636 3830 5.422970 TCACTCATTTTACCCCGTATGTAGT 59.577 40.000 0.00 0.00 0.00 2.73
637 3831 5.909477 TCACTCATTTTACCCCGTATGTAG 58.091 41.667 0.00 0.00 0.00 2.74
638 3832 5.936187 TCACTCATTTTACCCCGTATGTA 57.064 39.130 0.00 0.00 0.00 2.29
639 3833 4.829872 TCACTCATTTTACCCCGTATGT 57.170 40.909 0.00 0.00 0.00 2.29
640 3834 6.055588 AGATTCACTCATTTTACCCCGTATG 58.944 40.000 0.00 0.00 0.00 2.39
641 3835 6.248569 AGATTCACTCATTTTACCCCGTAT 57.751 37.500 0.00 0.00 0.00 3.06
642 3836 5.687166 AGATTCACTCATTTTACCCCGTA 57.313 39.130 0.00 0.00 0.00 4.02
643 3837 4.569719 AGATTCACTCATTTTACCCCGT 57.430 40.909 0.00 0.00 0.00 5.28
644 3838 5.293569 GTGTAGATTCACTCATTTTACCCCG 59.706 44.000 0.00 0.00 35.68 5.73
645 3839 6.415573 AGTGTAGATTCACTCATTTTACCCC 58.584 40.000 0.00 0.00 44.07 4.95
665 3859 8.731605 CGGATGTATGTAGACATATTAGAGTGT 58.268 37.037 5.69 0.00 40.18 3.55
666 3860 8.731605 ACGGATGTATGTAGACATATTAGAGTG 58.268 37.037 5.69 0.00 40.18 3.51
667 3861 8.865420 ACGGATGTATGTAGACATATTAGAGT 57.135 34.615 5.69 2.58 40.18 3.24
683 3877 9.942850 TCAAATGAATATCACATACGGATGTAT 57.057 29.630 14.23 10.02 44.82 2.29
684 3878 9.771534 TTCAAATGAATATCACATACGGATGTA 57.228 29.630 14.23 0.00 44.82 2.29
685 3879 9.119418 TTTCAAATGAATATCACATACGGATGT 57.881 29.630 7.68 7.68 39.20 3.06
688 3882 8.075574 GCATTTCAAATGAATATCACATACGGA 58.924 33.333 14.65 0.00 33.54 4.69
689 3883 7.326789 GGCATTTCAAATGAATATCACATACGG 59.673 37.037 14.65 0.00 33.54 4.02
690 3884 8.077991 AGGCATTTCAAATGAATATCACATACG 58.922 33.333 14.65 0.00 33.54 3.06
700 3894 9.558396 TTGTCTTTTTAGGCATTTCAAATGAAT 57.442 25.926 14.65 3.70 33.54 2.57
701 3895 8.954950 TTGTCTTTTTAGGCATTTCAAATGAA 57.045 26.923 14.65 0.00 0.00 2.57
702 3896 8.203485 ACTTGTCTTTTTAGGCATTTCAAATGA 58.797 29.630 14.65 0.00 0.00 2.57
703 3897 8.369218 ACTTGTCTTTTTAGGCATTTCAAATG 57.631 30.769 5.68 5.68 0.00 2.32
710 3904 9.528489 TCCTAAATACTTGTCTTTTTAGGCATT 57.472 29.630 13.09 0.00 45.31 3.56
711 3905 9.528489 TTCCTAAATACTTGTCTTTTTAGGCAT 57.472 29.630 13.09 0.00 45.31 4.40
712 3906 8.789762 GTTCCTAAATACTTGTCTTTTTAGGCA 58.210 33.333 13.09 2.93 45.31 4.75
713 3907 7.961283 CGTTCCTAAATACTTGTCTTTTTAGGC 59.039 37.037 13.09 3.06 45.31 3.93
714 3908 8.448615 CCGTTCCTAAATACTTGTCTTTTTAGG 58.551 37.037 12.11 12.11 46.30 2.69
715 3909 9.211485 TCCGTTCCTAAATACTTGTCTTTTTAG 57.789 33.333 0.00 0.00 33.47 1.85
716 3910 9.211485 CTCCGTTCCTAAATACTTGTCTTTTTA 57.789 33.333 0.00 0.00 0.00 1.52
717 3911 7.174426 CCTCCGTTCCTAAATACTTGTCTTTTT 59.826 37.037 0.00 0.00 0.00 1.94
718 3912 6.653740 CCTCCGTTCCTAAATACTTGTCTTTT 59.346 38.462 0.00 0.00 0.00 2.27
719 3913 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
720 3914 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
721 3915 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
722 3916 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
723 3917 4.098894 TCCCTCCGTTCCTAAATACTTGT 58.901 43.478 0.00 0.00 0.00 3.16
724 3918 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
725 3919 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
726 3920 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
727 3921 5.859205 TTACTCCCTCCGTTCCTAAATAC 57.141 43.478 0.00 0.00 0.00 1.89
728 3922 8.731591 ATAATTACTCCCTCCGTTCCTAAATA 57.268 34.615 0.00 0.00 0.00 1.40
729 3923 5.970501 AATTACTCCCTCCGTTCCTAAAT 57.029 39.130 0.00 0.00 0.00 1.40
730 3924 7.441903 AATAATTACTCCCTCCGTTCCTAAA 57.558 36.000 0.00 0.00 0.00 1.85
731 3925 7.441903 AAATAATTACTCCCTCCGTTCCTAA 57.558 36.000 0.00 0.00 0.00 2.69
732 3926 8.551682 TTAAATAATTACTCCCTCCGTTCCTA 57.448 34.615 0.00 0.00 0.00 2.94
733 3927 5.970501 AAATAATTACTCCCTCCGTTCCT 57.029 39.130 0.00 0.00 0.00 3.36
734 3928 6.709397 CCTTAAATAATTACTCCCTCCGTTCC 59.291 42.308 0.00 0.00 0.00 3.62
735 3929 7.278135 ACCTTAAATAATTACTCCCTCCGTTC 58.722 38.462 0.00 0.00 0.00 3.95
736 3930 7.204243 ACCTTAAATAATTACTCCCTCCGTT 57.796 36.000 0.00 0.00 0.00 4.44
737 3931 6.819947 ACCTTAAATAATTACTCCCTCCGT 57.180 37.500 0.00 0.00 0.00 4.69
738 3932 9.788889 AATTACCTTAAATAATTACTCCCTCCG 57.211 33.333 3.59 0.00 31.84 4.63
802 3999 1.135746 CAGTTACGTGTCGGAGGAGAC 60.136 57.143 0.00 0.00 41.30 3.36
803 4000 1.162698 CAGTTACGTGTCGGAGGAGA 58.837 55.000 0.00 0.00 0.00 3.71
806 4003 0.732880 CAGCAGTTACGTGTCGGAGG 60.733 60.000 0.00 0.00 0.00 4.30
820 4017 2.664185 AGCAGCACACGTCAGCAG 60.664 61.111 10.94 4.41 0.00 4.24
848 4045 3.572255 GGTGCACCTATAGAGAGAGAAGG 59.428 52.174 29.12 0.00 0.00 3.46
949 4148 1.261089 CGCTCACCTACGCTACTACTC 59.739 57.143 0.00 0.00 0.00 2.59
950 4149 1.297664 CGCTCACCTACGCTACTACT 58.702 55.000 0.00 0.00 0.00 2.57
951 4150 3.821881 CGCTCACCTACGCTACTAC 57.178 57.895 0.00 0.00 0.00 2.73
1171 4402 4.097361 GGACAGGAACCGGAGCCC 62.097 72.222 9.46 5.87 0.00 5.19
1498 4732 3.288290 ATCGAGGTCGGCGCCTAG 61.288 66.667 26.68 19.39 39.34 3.02
2380 5648 6.086816 GCTGATGCTGAGCTCATTGATGAG 62.087 50.000 18.63 15.06 45.09 2.90
2427 5695 2.024414 GCCGCCCATTATTCTTTGTCT 58.976 47.619 0.00 0.00 0.00 3.41
2460 5739 7.633621 CAACATCGAATGATACTAGCAACAAT 58.366 34.615 0.00 0.00 32.18 2.71
2466 5745 4.747108 ACAGCAACATCGAATGATACTAGC 59.253 41.667 0.00 0.00 32.18 3.42
2480 5760 1.605710 GCAAGACTCACACAGCAACAT 59.394 47.619 0.00 0.00 0.00 2.71
2502 5782 3.064207 TGTCATGTTCGTACTGCCTTTC 58.936 45.455 0.00 0.00 0.00 2.62
2618 5898 3.451178 TGGTAAGCCAAGGTAGTGAGATC 59.549 47.826 0.00 0.00 42.83 2.75
2619 5899 3.450904 TGGTAAGCCAAGGTAGTGAGAT 58.549 45.455 0.00 0.00 42.83 2.75
2620 5900 2.832129 CTGGTAAGCCAAGGTAGTGAGA 59.168 50.000 0.00 0.00 45.51 3.27
2621 5901 2.567615 ACTGGTAAGCCAAGGTAGTGAG 59.432 50.000 0.00 0.00 45.51 3.51
2622 5902 2.616524 ACTGGTAAGCCAAGGTAGTGA 58.383 47.619 0.00 0.00 45.51 3.41
2623 5903 3.418684 AACTGGTAAGCCAAGGTAGTG 57.581 47.619 0.00 0.00 45.51 2.74
2624 5904 4.165760 AGTAACTGGTAAGCCAAGGTAGT 58.834 43.478 0.00 0.00 45.51 2.73
2661 6121 1.819928 TCCACCATTGATGTTCGGTG 58.180 50.000 0.00 0.00 46.93 4.94
2684 6144 1.547675 GGAAGCTGAATTGGGGTGACA 60.548 52.381 0.00 0.00 0.00 3.58
2733 6227 2.771372 TGATTGTGCCTGCTACCATAGA 59.229 45.455 0.00 0.00 0.00 1.98
2770 6264 8.028938 GGTTTTGCTTGATTTGTGTATATGACT 58.971 33.333 0.00 0.00 0.00 3.41
2771 6265 8.028938 AGGTTTTGCTTGATTTGTGTATATGAC 58.971 33.333 0.00 0.00 0.00 3.06
2772 6266 8.121305 AGGTTTTGCTTGATTTGTGTATATGA 57.879 30.769 0.00 0.00 0.00 2.15
2773 6267 8.761575 AAGGTTTTGCTTGATTTGTGTATATG 57.238 30.769 0.00 0.00 0.00 1.78
2776 6270 6.815089 TGAAGGTTTTGCTTGATTTGTGTAT 58.185 32.000 0.00 0.00 0.00 2.29
2850 6366 6.645415 CGTGTTCCTGTAATAGTCTTTGAACT 59.355 38.462 0.00 0.00 33.74 3.01
2851 6367 6.617953 GCGTGTTCCTGTAATAGTCTTTGAAC 60.618 42.308 0.00 0.00 33.32 3.18
2852 6368 5.407387 GCGTGTTCCTGTAATAGTCTTTGAA 59.593 40.000 0.00 0.00 0.00 2.69
2853 6369 4.927425 GCGTGTTCCTGTAATAGTCTTTGA 59.073 41.667 0.00 0.00 0.00 2.69
2854 6370 4.688879 TGCGTGTTCCTGTAATAGTCTTTG 59.311 41.667 0.00 0.00 0.00 2.77
2855 6371 4.689345 GTGCGTGTTCCTGTAATAGTCTTT 59.311 41.667 0.00 0.00 0.00 2.52
2856 6372 4.243270 GTGCGTGTTCCTGTAATAGTCTT 58.757 43.478 0.00 0.00 0.00 3.01
2858 6374 2.597305 CGTGCGTGTTCCTGTAATAGTC 59.403 50.000 0.00 0.00 0.00 2.59
2860 6376 1.323534 GCGTGCGTGTTCCTGTAATAG 59.676 52.381 0.00 0.00 0.00 1.73
2861 6377 1.336980 TGCGTGCGTGTTCCTGTAATA 60.337 47.619 0.00 0.00 0.00 0.98
2862 6378 0.601576 TGCGTGCGTGTTCCTGTAAT 60.602 50.000 0.00 0.00 0.00 1.89
2904 6514 7.068839 CCTGATGGAAATACACTGAGTAGTACT 59.931 40.741 1.37 1.37 33.55 2.73
2923 6541 1.341531 CTAGGCTTCGGTACCTGATGG 59.658 57.143 10.90 6.61 36.77 3.51
3016 6634 2.234143 GCCTTGGGATTATCAGGCTTC 58.766 52.381 12.94 0.00 39.18 3.86
3088 6706 0.951040 CCGACAGAGTCACAAAGGGC 60.951 60.000 0.00 0.00 32.09 5.19
3093 6711 1.340248 GAAGGTCCGACAGAGTCACAA 59.660 52.381 0.00 0.00 32.09 3.33
3094 6712 0.959553 GAAGGTCCGACAGAGTCACA 59.040 55.000 0.00 0.00 32.09 3.58
3095 6713 0.959553 TGAAGGTCCGACAGAGTCAC 59.040 55.000 0.00 0.00 32.09 3.67
3096 6714 1.248486 CTGAAGGTCCGACAGAGTCA 58.752 55.000 11.27 0.00 34.07 3.41
3097 6715 0.528470 CCTGAAGGTCCGACAGAGTC 59.472 60.000 16.31 0.00 34.07 3.36
3098 6716 0.900647 CCCTGAAGGTCCGACAGAGT 60.901 60.000 16.31 0.00 34.07 3.24
3099 6717 0.612174 TCCCTGAAGGTCCGACAGAG 60.612 60.000 16.31 6.70 36.75 3.35
3100 6718 0.041238 ATCCCTGAAGGTCCGACAGA 59.959 55.000 16.31 2.63 36.75 3.41
3170 7153 6.040391 CCTTGAGTATTCTCCACTCTCCTAAG 59.960 46.154 4.32 0.31 42.43 2.18
3184 7167 5.001232 TGTGCAAAGTACCCTTGAGTATTC 58.999 41.667 9.01 0.00 0.00 1.75
3187 7170 4.323417 CATGTGCAAAGTACCCTTGAGTA 58.677 43.478 9.01 0.00 0.00 2.59
3206 7189 8.912988 ACATTTTTGTATCTGGGTATAACCATG 58.087 33.333 10.71 4.05 41.02 3.66
3226 7209 5.128663 GGGATACAACAGGGCAATACATTTT 59.871 40.000 0.00 0.00 39.74 1.82
3242 7225 6.013379 AGACAATCAAGTTGAGAGGGATACAA 60.013 38.462 11.91 0.00 40.37 2.41
3271 7254 4.626604 CACGGCTTTACTAAACACCGATAA 59.373 41.667 18.68 0.00 43.19 1.75
3273 7256 2.997986 CACGGCTTTACTAAACACCGAT 59.002 45.455 18.68 6.47 43.19 4.18
3381 7393 9.630098 ATCAAGTAAATCAAAAGTATGCAGTTG 57.370 29.630 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.