Multiple sequence alignment - TraesCS1D01G333100

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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 TraesCS1D01G333100 chr1D 100.000 5415 0 0 1 5415 423274024 423279438 0.000000e+00 10000.0
1 TraesCS1D01G333100 chr1D 94.162 394 20 2 5022 5415 478251445 478251055 1.000000e-166 597.0
2 TraesCS1D01G333100 chr1B 94.089 3739 132 24 789 4464 572673983 572677695 0.000000e+00 5598.0
3 TraesCS1D01G333100 chr1B 95.575 565 18 3 4460 5022 572677923 572678482 0.000000e+00 898.0
4 TraesCS1D01G333100 chr1B 87.635 647 41 19 78 697 659364697 659364063 0.000000e+00 715.0
5 TraesCS1D01G333100 chr1B 92.911 395 28 0 5021 5415 675986073 675985679 4.700000e-160 575.0
6 TraesCS1D01G333100 chr1B 91.899 395 32 0 5021 5415 17526827 17527221 2.200000e-153 553.0
7 TraesCS1D01G333100 chr1B 95.726 117 5 0 4461 4577 572677807 572677923 7.160000e-44 189.0
8 TraesCS1D01G333100 chr1A 97.036 1417 40 2 1416 2831 519336281 519337696 0.000000e+00 2383.0
9 TraesCS1D01G333100 chr1A 91.080 1009 48 21 3980 4978 519337706 519338682 0.000000e+00 1327.0
10 TraesCS1D01G333100 chr1A 91.432 747 39 8 699 1435 519326713 519327444 0.000000e+00 1002.0
11 TraesCS1D01G333100 chr1A 85.473 296 38 3 3670 3964 572243109 572242818 2.450000e-78 303.0
12 TraesCS1D01G333100 chr6D 97.278 698 11 2 1 697 11335223 11335913 0.000000e+00 1177.0
13 TraesCS1D01G333100 chr6D 91.667 396 29 4 5021 5415 420556799 420557191 3.690000e-151 545.0
14 TraesCS1D01G333100 chr6D 87.317 410 36 10 291 698 280907141 280906746 6.390000e-124 455.0
15 TraesCS1D01G333100 chr2D 97.470 672 7 3 1 672 112915181 112914520 0.000000e+00 1138.0
16 TraesCS1D01G333100 chr2D 94.707 699 6 5 1 697 71460971 71460302 0.000000e+00 1057.0
17 TraesCS1D01G333100 chr5D 90.986 588 23 9 4 572 516634803 516634227 0.000000e+00 765.0
18 TraesCS1D01G333100 chr5D 91.919 396 29 3 5021 5415 242919821 242920214 7.930000e-153 551.0
19 TraesCS1D01G333100 chr5D 87.805 492 32 13 208 697 298973574 298974039 7.930000e-153 551.0
20 TraesCS1D01G333100 chr5D 81.773 598 101 7 1430 2023 537509620 537510213 1.350000e-135 494.0
21 TraesCS1D01G333100 chr5D 93.617 47 2 1 4480 4525 551542031 551541985 9.730000e-08 69.4
22 TraesCS1D01G333100 chr5B 87.538 658 40 23 67 697 562450878 562451520 0.000000e+00 723.0
23 TraesCS1D01G333100 chr5B 84.564 298 42 2 3662 3958 100035826 100036120 5.310000e-75 292.0
24 TraesCS1D01G333100 chr5B 95.833 72 3 0 4 75 562450689 562450760 3.430000e-22 117.0
25 TraesCS1D01G333100 chr5A 86.574 648 46 15 67 697 81226286 81226909 0.000000e+00 676.0
26 TraesCS1D01G333100 chr4A 85.759 632 51 18 67 672 698718722 698718104 2.750000e-177 632.0
27 TraesCS1D01G333100 chr4A 84.746 649 53 21 67 697 329071914 329071294 4.640000e-170 608.0
28 TraesCS1D01G333100 chr4A 84.927 617 63 18 86 697 80853312 80853903 1.000000e-166 597.0
29 TraesCS1D01G333100 chr4A 82.709 347 58 2 1678 2023 631664182 631664527 1.890000e-79 307.0
30 TraesCS1D01G333100 chr4A 84.068 295 41 4 3665 3958 632726272 632726561 4.130000e-71 279.0
31 TraesCS1D01G333100 chr4A 82.450 302 47 4 3664 3964 633828929 633828633 5.380000e-65 259.0
32 TraesCS1D01G333100 chr4A 79.655 290 56 2 1475 1761 631663893 631664182 7.110000e-49 206.0
33 TraesCS1D01G333100 chr2A 83.841 656 64 19 60 697 263527366 263526735 2.170000e-163 586.0
34 TraesCS1D01G333100 chr2A 86.869 297 36 1 3662 3958 566592925 566593218 4.040000e-86 329.0
35 TraesCS1D01G333100 chr2A 82.979 188 24 7 72 252 619023295 619023109 4.340000e-36 163.0
36 TraesCS1D01G333100 chr3D 85.099 604 48 13 86 672 525755978 525755400 3.640000e-161 579.0
37 TraesCS1D01G333100 chr3D 91.899 395 29 2 5021 5415 551621738 551622129 2.850000e-152 549.0
38 TraesCS1D01G333100 chr3D 94.667 75 4 0 1 75 121797196 121797270 3.430000e-22 117.0
39 TraesCS1D01G333100 chr3D 94.667 75 4 0 1 75 121875593 121875667 3.430000e-22 117.0
40 TraesCS1D01G333100 chr3D 95.833 72 3 0 4 75 516993259 516993188 3.430000e-22 117.0
41 TraesCS1D01G333100 chr3B 92.893 394 26 1 5022 5415 715153861 715154252 6.080000e-159 571.0
42 TraesCS1D01G333100 chr3B 84.488 303 41 4 3664 3964 131499212 131498914 1.470000e-75 294.0
43 TraesCS1D01G333100 chr3B 92.308 78 6 0 1 78 794361814 794361737 1.590000e-20 111.0
44 TraesCS1D01G333100 chr7A 92.191 397 27 4 5022 5415 211211307 211210912 4.740000e-155 558.0
45 TraesCS1D01G333100 chr3A 91.878 394 26 3 5022 5415 647457103 647456716 3.690000e-151 545.0
46 TraesCS1D01G333100 chr7D 87.073 410 36 10 291 698 44733136 44733530 1.070000e-121 448.0
47 TraesCS1D01G333100 chr4B 82.450 302 47 4 3664 3964 165128178 165127882 5.380000e-65 259.0
48 TraesCS1D01G333100 chr4D 84.034 238 31 4 3727 3964 464364819 464364589 7.060000e-54 222.0
49 TraesCS1D01G333100 chr6A 91.803 122 9 1 3664 3784 107491136 107491015 9.330000e-38 169.0


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 TraesCS1D01G333100 chr1D 423274024 423279438 5414 False 10000.000000 10000 100.0000 1 5415 1 chr1D.!!$F1 5414
1 TraesCS1D01G333100 chr1B 572673983 572678482 4499 False 2228.333333 5598 95.1300 789 5022 3 chr1B.!!$F2 4233
2 TraesCS1D01G333100 chr1B 659364063 659364697 634 True 715.000000 715 87.6350 78 697 1 chr1B.!!$R1 619
3 TraesCS1D01G333100 chr1A 519336281 519338682 2401 False 1855.000000 2383 94.0580 1416 4978 2 chr1A.!!$F2 3562
4 TraesCS1D01G333100 chr1A 519326713 519327444 731 False 1002.000000 1002 91.4320 699 1435 1 chr1A.!!$F1 736
5 TraesCS1D01G333100 chr6D 11335223 11335913 690 False 1177.000000 1177 97.2780 1 697 1 chr6D.!!$F1 696
6 TraesCS1D01G333100 chr2D 112914520 112915181 661 True 1138.000000 1138 97.4700 1 672 1 chr2D.!!$R2 671
7 TraesCS1D01G333100 chr2D 71460302 71460971 669 True 1057.000000 1057 94.7070 1 697 1 chr2D.!!$R1 696
8 TraesCS1D01G333100 chr5D 516634227 516634803 576 True 765.000000 765 90.9860 4 572 1 chr5D.!!$R1 568
9 TraesCS1D01G333100 chr5D 537509620 537510213 593 False 494.000000 494 81.7730 1430 2023 1 chr5D.!!$F3 593
10 TraesCS1D01G333100 chr5B 562450689 562451520 831 False 420.000000 723 91.6855 4 697 2 chr5B.!!$F2 693
11 TraesCS1D01G333100 chr5A 81226286 81226909 623 False 676.000000 676 86.5740 67 697 1 chr5A.!!$F1 630
12 TraesCS1D01G333100 chr4A 698718104 698718722 618 True 632.000000 632 85.7590 67 672 1 chr4A.!!$R3 605
13 TraesCS1D01G333100 chr4A 329071294 329071914 620 True 608.000000 608 84.7460 67 697 1 chr4A.!!$R1 630
14 TraesCS1D01G333100 chr4A 80853312 80853903 591 False 597.000000 597 84.9270 86 697 1 chr4A.!!$F1 611
15 TraesCS1D01G333100 chr4A 631663893 631664527 634 False 256.500000 307 81.1820 1475 2023 2 chr4A.!!$F3 548
16 TraesCS1D01G333100 chr2A 263526735 263527366 631 True 586.000000 586 83.8410 60 697 1 chr2A.!!$R1 637
17 TraesCS1D01G333100 chr3D 525755400 525755978 578 True 579.000000 579 85.0990 86 672 1 chr3D.!!$R2 586

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
778 967 0.616111 ACTAGGGACCTCAGCCACTG 60.616 60.0 0.0 0.0 0.00 3.66 F
1989 2289 2.159627 CCTTGTTGACGACATTAGCCAC 59.840 50.0 0.0 0.0 38.26 5.01 F
3600 3947 0.606096 TTGACGATGGAGAAAGGCGA 59.394 50.0 0.0 0.0 0.00 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2057 2375 0.036875 GAGGGACAGGGTTGGTTCAG 59.963 60.0 0.0 0.0 0.0 3.02 R
3926 4273 0.246360 TGCTCATGGTAGGTGACGTG 59.754 55.0 0.0 0.0 0.0 4.49 R
4822 5403 0.038744 ATTGTCCTCTTGCTGGGTGG 59.961 55.0 0.0 0.0 0.0 4.61 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
249 393 6.885376 TGTTTTGTACTTCCAGTGAACCTTTA 59.115 34.615 0.00 0.00 0.00 1.85
250 394 7.558444 TGTTTTGTACTTCCAGTGAACCTTTAT 59.442 33.333 0.00 0.00 0.00 1.40
251 395 9.059260 GTTTTGTACTTCCAGTGAACCTTTATA 57.941 33.333 0.00 0.00 0.00 0.98
252 396 8.842358 TTTGTACTTCCAGTGAACCTTTATAG 57.158 34.615 0.00 0.00 0.00 1.31
253 397 7.549147 TGTACTTCCAGTGAACCTTTATAGT 57.451 36.000 0.00 0.00 0.00 2.12
254 398 7.970102 TGTACTTCCAGTGAACCTTTATAGTT 58.030 34.615 0.00 0.00 0.00 2.24
255 399 8.434392 TGTACTTCCAGTGAACCTTTATAGTTT 58.566 33.333 0.00 0.00 0.00 2.66
435 619 4.780275 TTTTGCCAACATTGATCGATGA 57.220 36.364 26.65 3.75 0.00 2.92
697 885 2.825836 CTCTGGGTCCGCCAATGC 60.826 66.667 0.00 0.00 36.17 3.56
726 915 3.583276 TAGCACCAACTCCACGGCG 62.583 63.158 4.80 4.80 0.00 6.46
732 921 1.154225 CAACTCCACGGCGCAAATC 60.154 57.895 10.83 0.00 0.00 2.17
750 939 3.864789 ATCCAGTCCAATCCACCATAC 57.135 47.619 0.00 0.00 0.00 2.39
752 941 1.563879 CCAGTCCAATCCACCATACCA 59.436 52.381 0.00 0.00 0.00 3.25
757 946 1.681780 CCAATCCACCATACCAACGCT 60.682 52.381 0.00 0.00 0.00 5.07
763 952 3.131577 TCCACCATACCAACGCTAACTAG 59.868 47.826 0.00 0.00 0.00 2.57
771 960 1.822990 CAACGCTAACTAGGGACCTCA 59.177 52.381 7.72 0.00 39.31 3.86
778 967 0.616111 ACTAGGGACCTCAGCCACTG 60.616 60.000 0.00 0.00 0.00 3.66
818 1007 2.203365 GATCGCGGAGGAGGAGGA 60.203 66.667 6.13 0.00 0.00 3.71
819 1008 2.203422 ATCGCGGAGGAGGAGGAG 60.203 66.667 6.13 0.00 0.00 3.69
820 1009 3.801068 ATCGCGGAGGAGGAGGAGG 62.801 68.421 6.13 0.00 0.00 4.30
999 1193 4.110493 CGATCTGAAACGGAGGGC 57.890 61.111 0.00 0.00 0.00 5.19
1047 1241 3.141002 TCTTCGAATACGGAACCTTCG 57.859 47.619 0.00 7.18 42.24 3.79
1133 1330 2.591715 CATTCCCCCACGGCGATC 60.592 66.667 16.62 0.00 0.00 3.69
1139 1336 4.776322 CCCACGGCGATCCAAGCA 62.776 66.667 16.62 0.00 36.08 3.91
1251 1451 4.283363 ACTGCTGTCAATTCATGTCTCT 57.717 40.909 0.00 0.00 0.00 3.10
1280 1488 4.468868 GGTCACACCTAGGTACCAATTAGT 59.531 45.833 22.57 9.06 34.73 2.24
1303 1511 4.900684 ACCGTTTTATTTGGGAAATTGGG 58.099 39.130 0.00 0.00 32.38 4.12
1315 1523 3.524541 GGAAATTGGGTTGCTATTGCTG 58.475 45.455 0.00 0.00 40.48 4.41
1390 1604 5.760743 GCTAAGAAAGTCTCCAACAACTCTT 59.239 40.000 0.00 0.00 0.00 2.85
1776 2076 2.567615 ACTACTTGGTGTCCCTAAGCAG 59.432 50.000 0.00 0.00 0.00 4.24
1786 2086 5.222631 GTGTCCCTAAGCAGAAAAACATTG 58.777 41.667 0.00 0.00 0.00 2.82
1787 2087 5.009610 GTGTCCCTAAGCAGAAAAACATTGA 59.990 40.000 0.00 0.00 0.00 2.57
1891 2191 2.947652 CGTCTCTTATTCCCCACTACGA 59.052 50.000 0.00 0.00 0.00 3.43
1892 2192 3.003482 CGTCTCTTATTCCCCACTACGAG 59.997 52.174 0.00 0.00 0.00 4.18
1989 2289 2.159627 CCTTGTTGACGACATTAGCCAC 59.840 50.000 0.00 0.00 38.26 5.01
2134 2452 6.424883 TCCCTGTTTGGTTACTTTGTTCTTA 58.575 36.000 0.00 0.00 0.00 2.10
2370 2688 1.983972 CGGTGAGTGCTACTGTTCTC 58.016 55.000 0.00 0.00 0.00 2.87
2592 2911 5.104235 AGTTCATGATGGATCATCTGGTGAA 60.104 40.000 0.00 11.96 45.23 3.18
2683 3002 5.047660 ACTGTTGAGACATTAGAGACAGGAC 60.048 44.000 0.00 0.00 37.82 3.85
2721 3040 6.126594 CCCCAGTTATACCAAGGTTCTGAATA 60.127 42.308 0.00 0.00 0.00 1.75
2999 3318 3.252974 ACCCATCTTTTCTGTAGCTCG 57.747 47.619 0.00 0.00 0.00 5.03
3001 3320 3.452627 ACCCATCTTTTCTGTAGCTCGAT 59.547 43.478 0.00 0.00 0.00 3.59
3017 3336 1.452833 GATCACCTTCCCTGCTGCC 60.453 63.158 0.00 0.00 0.00 4.85
3166 3513 8.206325 TGAATTTGCAATTGTTGTGTTTGTAT 57.794 26.923 7.40 0.00 0.00 2.29
3306 3653 3.238597 ACAGATTATCTCTCCCTGGAGC 58.761 50.000 8.39 0.00 41.71 4.70
3342 3689 1.761784 CTCCAAGAGATAGCCAGCAGT 59.238 52.381 0.00 0.00 0.00 4.40
3366 3713 3.646715 CCAACGGGCCTTCCTCCA 61.647 66.667 0.84 0.00 0.00 3.86
3372 3719 1.000771 GGGCCTTCCTCCAAACCTC 60.001 63.158 0.84 0.00 0.00 3.85
3427 3774 4.054780 TGTCACAGCGTTCTAAGAGTTT 57.945 40.909 0.00 0.00 0.00 2.66
3430 3777 1.792949 ACAGCGTTCTAAGAGTTTGCG 59.207 47.619 0.00 0.00 0.00 4.85
3437 3784 4.210537 CGTTCTAAGAGTTTGCGGAAGAAA 59.789 41.667 0.00 0.00 0.00 2.52
3486 3833 3.063704 CCACACGGCATGGCATGT 61.064 61.111 26.94 15.86 31.21 3.21
3600 3947 0.606096 TTGACGATGGAGAAAGGCGA 59.394 50.000 0.00 0.00 0.00 5.54
3628 3975 2.223805 GGCCAGAGTGGAAACAAGTTTG 60.224 50.000 0.00 0.00 46.06 2.93
3695 4042 4.462483 TCCAGGCAAATACTTGACCAATTC 59.538 41.667 0.00 0.00 42.11 2.17
3773 4120 0.668096 ATTTGTGCAGTGCAATGGCG 60.668 50.000 21.67 0.00 45.35 5.69
3783 4130 2.105528 CAATGGCGGGCATTCAGC 59.894 61.111 24.87 0.00 44.65 4.26
3789 4136 2.879907 CGGGCATTCAGCTTGTGG 59.120 61.111 0.00 0.00 44.79 4.17
3844 4191 2.677524 ATGTGCAAGCATGGCGGT 60.678 55.556 0.00 0.00 38.51 5.68
3866 4213 3.698820 GCTTTGCCCCCTGCCTTG 61.699 66.667 0.00 0.00 40.16 3.61
3867 4214 3.698820 CTTTGCCCCCTGCCTTGC 61.699 66.667 0.00 0.00 40.16 4.01
3876 4223 2.703798 CCTGCCTTGCAATGGACGG 61.704 63.158 16.28 8.00 38.41 4.79
3912 4259 0.892755 ACGATAAAGTGCTCCCACGA 59.107 50.000 0.00 0.00 46.62 4.35
4413 4760 1.635817 GCTGGGGCATCCAAGGAGTA 61.636 60.000 0.00 0.00 46.51 2.59
4430 4777 5.123227 AGGAGTAGTCTCTTGAGATTCGAG 58.877 45.833 3.50 0.00 40.29 4.04
4698 5277 4.133078 GAGGCTAGTTAATTCAGCATGCT 58.867 43.478 16.30 16.30 37.02 3.79
4823 5404 9.297037 AGCTATAACAATGTTCCAAATATACCC 57.703 33.333 0.22 0.00 0.00 3.69
4998 5579 5.103940 ACATGGGAAAATATCTGGTGCTACT 60.104 40.000 0.00 0.00 0.00 2.57
5014 5595 5.129485 GGTGCTACTATGCATAGGGTGATAT 59.871 44.000 31.87 15.33 45.23 1.63
5024 5605 5.008619 CATAGGGTGATATGCTGCTAGAG 57.991 47.826 0.00 0.00 0.00 2.43
5040 5621 1.427020 GAGCATCTTCAACAGCCGC 59.573 57.895 0.00 0.00 0.00 6.53
5041 5622 1.300971 GAGCATCTTCAACAGCCGCA 61.301 55.000 0.00 0.00 0.00 5.69
5042 5623 0.679002 AGCATCTTCAACAGCCGCAT 60.679 50.000 0.00 0.00 0.00 4.73
5043 5624 0.248377 GCATCTTCAACAGCCGCATC 60.248 55.000 0.00 0.00 0.00 3.91
5044 5625 1.089112 CATCTTCAACAGCCGCATCA 58.911 50.000 0.00 0.00 0.00 3.07
5045 5626 1.469703 CATCTTCAACAGCCGCATCAA 59.530 47.619 0.00 0.00 0.00 2.57
5046 5627 1.603456 TCTTCAACAGCCGCATCAAA 58.397 45.000 0.00 0.00 0.00 2.69
5047 5628 1.266718 TCTTCAACAGCCGCATCAAAC 59.733 47.619 0.00 0.00 0.00 2.93
5048 5629 1.001487 CTTCAACAGCCGCATCAAACA 60.001 47.619 0.00 0.00 0.00 2.83
5049 5630 1.028130 TCAACAGCCGCATCAAACAA 58.972 45.000 0.00 0.00 0.00 2.83
5050 5631 1.001487 TCAACAGCCGCATCAAACAAG 60.001 47.619 0.00 0.00 0.00 3.16
5051 5632 0.318955 AACAGCCGCATCAAACAAGC 60.319 50.000 0.00 0.00 0.00 4.01
5055 5636 4.026156 CGCATCAAACAAGCGTCG 57.974 55.556 0.00 0.00 45.82 5.12
5056 5637 2.139811 CGCATCAAACAAGCGTCGC 61.140 57.895 9.80 9.80 45.82 5.19
5057 5638 2.139811 GCATCAAACAAGCGTCGCG 61.140 57.895 12.30 0.00 0.00 5.87
5068 5649 3.522987 CGTCGCGCCGCAAAATTG 61.523 61.111 10.75 0.00 0.00 2.32
5081 5662 3.388149 CAAAATTGCCCATTTTAGCGC 57.612 42.857 0.00 0.00 42.28 5.92
5082 5663 1.639280 AAATTGCCCATTTTAGCGCG 58.361 45.000 0.00 0.00 30.09 6.86
5083 5664 0.805711 AATTGCCCATTTTAGCGCGC 60.806 50.000 26.66 26.66 0.00 6.86
5084 5665 2.935122 ATTGCCCATTTTAGCGCGCG 62.935 55.000 28.44 28.44 0.00 6.86
5098 5679 3.688330 CGCGCGCAACCGGTATAG 61.688 66.667 32.61 6.38 34.32 1.31
5099 5680 2.584143 GCGCGCAACCGGTATAGT 60.584 61.111 29.10 0.00 34.32 2.12
5100 5681 2.867091 GCGCGCAACCGGTATAGTG 61.867 63.158 29.10 9.97 34.32 2.74
5101 5682 2.235016 CGCGCAACCGGTATAGTGG 61.235 63.158 8.00 0.00 34.32 4.00
5102 5683 2.531376 GCGCAACCGGTATAGTGGC 61.531 63.158 8.00 4.61 34.32 5.01
5103 5684 1.143183 CGCAACCGGTATAGTGGCT 59.857 57.895 8.00 0.00 31.58 4.75
5104 5685 0.874607 CGCAACCGGTATAGTGGCTC 60.875 60.000 8.00 0.00 31.58 4.70
5105 5686 0.532196 GCAACCGGTATAGTGGCTCC 60.532 60.000 8.00 0.00 31.05 4.70
5106 5687 0.828022 CAACCGGTATAGTGGCTCCA 59.172 55.000 8.00 0.00 0.00 3.86
5107 5688 1.120530 AACCGGTATAGTGGCTCCAG 58.879 55.000 8.00 0.00 0.00 3.86
5108 5689 1.367840 CCGGTATAGTGGCTCCAGC 59.632 63.158 0.00 0.00 41.14 4.85
5109 5690 1.007271 CGGTATAGTGGCTCCAGCG 60.007 63.158 0.00 0.00 43.26 5.18
5110 5691 1.367840 GGTATAGTGGCTCCAGCGG 59.632 63.158 0.00 0.00 43.26 5.52
5111 5692 1.367840 GTATAGTGGCTCCAGCGGG 59.632 63.158 0.00 0.00 43.26 6.13
5112 5693 2.507854 TATAGTGGCTCCAGCGGGC 61.508 63.158 0.00 0.00 43.26 6.13
5132 5713 4.033481 GCAAAAACTGCGTGCGCG 62.033 61.111 16.86 16.86 42.37 6.86
5139 5720 4.360027 CTGCGTGCGCGGCATATC 62.360 66.667 23.51 3.61 45.51 1.63
5140 5721 4.889856 TGCGTGCGCGGCATATCT 62.890 61.111 22.73 0.00 45.51 1.98
5141 5722 2.733218 GCGTGCGCGGCATATCTA 60.733 61.111 22.73 0.00 41.91 1.98
5142 5723 2.720758 GCGTGCGCGGCATATCTAG 61.721 63.158 22.73 0.00 41.91 2.43
5143 5724 1.371758 CGTGCGCGGCATATCTAGT 60.372 57.895 12.87 0.00 41.91 2.57
5144 5725 0.939577 CGTGCGCGGCATATCTAGTT 60.940 55.000 12.87 0.00 41.91 2.24
5145 5726 0.784778 GTGCGCGGCATATCTAGTTC 59.215 55.000 8.83 0.00 41.91 3.01
5146 5727 0.387565 TGCGCGGCATATCTAGTTCA 59.612 50.000 8.83 0.00 31.71 3.18
5147 5728 1.063806 GCGCGGCATATCTAGTTCAG 58.936 55.000 8.83 0.00 0.00 3.02
5148 5729 1.063806 CGCGGCATATCTAGTTCAGC 58.936 55.000 0.00 0.00 0.00 4.26
5149 5730 1.063806 GCGGCATATCTAGTTCAGCG 58.936 55.000 0.00 0.00 0.00 5.18
5150 5731 1.063806 CGGCATATCTAGTTCAGCGC 58.936 55.000 0.00 0.00 0.00 5.92
5151 5732 1.063806 GGCATATCTAGTTCAGCGCG 58.936 55.000 0.00 0.00 0.00 6.86
5152 5733 0.436531 GCATATCTAGTTCAGCGCGC 59.563 55.000 26.66 26.66 0.00 6.86
5153 5734 0.705094 CATATCTAGTTCAGCGCGCG 59.295 55.000 28.44 28.44 0.00 6.86
5154 5735 0.387367 ATATCTAGTTCAGCGCGCGG 60.387 55.000 33.06 26.50 0.00 6.46
5155 5736 2.402282 TATCTAGTTCAGCGCGCGGG 62.402 60.000 33.06 23.76 0.00 6.13
5168 5749 3.202706 GCGGGCCGAAACTCCATC 61.203 66.667 33.44 4.02 0.00 3.51
5169 5750 2.890474 CGGGCCGAAACTCCATCG 60.890 66.667 24.41 0.00 39.92 3.84
5170 5751 3.202706 GGGCCGAAACTCCATCGC 61.203 66.667 0.00 0.00 38.93 4.58
5171 5752 3.564027 GGCCGAAACTCCATCGCG 61.564 66.667 0.00 0.00 38.93 5.87
5172 5753 2.813908 GCCGAAACTCCATCGCGT 60.814 61.111 5.77 0.00 38.93 6.01
5173 5754 3.081133 CCGAAACTCCATCGCGTG 58.919 61.111 5.77 3.64 38.93 5.34
5174 5755 2.395690 CGAAACTCCATCGCGTGC 59.604 61.111 5.77 0.00 33.07 5.34
5175 5756 2.785258 GAAACTCCATCGCGTGCC 59.215 61.111 5.77 0.00 0.00 5.01
5176 5757 3.083600 GAAACTCCATCGCGTGCCG 62.084 63.158 5.77 0.49 38.61 5.69
5187 5768 4.365287 CGTGCCGCTTATTTGCTG 57.635 55.556 0.00 0.00 0.00 4.41
5188 5769 1.869132 CGTGCCGCTTATTTGCTGC 60.869 57.895 0.00 0.00 42.22 5.25
5189 5770 1.869132 GTGCCGCTTATTTGCTGCG 60.869 57.895 0.00 0.00 44.26 5.18
5192 5773 2.278142 CGCTTATTTGCTGCGCCC 60.278 61.111 4.18 0.00 43.08 6.13
5193 5774 2.278142 GCTTATTTGCTGCGCCCG 60.278 61.111 4.18 0.00 0.00 6.13
5194 5775 2.278142 CTTATTTGCTGCGCCCGC 60.278 61.111 4.18 8.60 42.35 6.13
5195 5776 2.749839 TTATTTGCTGCGCCCGCT 60.750 55.556 17.83 2.93 42.51 5.52
5196 5777 2.652893 CTTATTTGCTGCGCCCGCTC 62.653 60.000 17.83 6.41 42.51 5.03
5234 5815 3.832171 CGCTCGCTCGCAACTCAC 61.832 66.667 0.00 0.00 0.00 3.51
5235 5816 3.482783 GCTCGCTCGCAACTCACC 61.483 66.667 0.00 0.00 0.00 4.02
5236 5817 2.811317 CTCGCTCGCAACTCACCC 60.811 66.667 0.00 0.00 0.00 4.61
5237 5818 3.288308 CTCGCTCGCAACTCACCCT 62.288 63.158 0.00 0.00 0.00 4.34
5238 5819 2.811317 CGCTCGCAACTCACCCTC 60.811 66.667 0.00 0.00 0.00 4.30
5239 5820 2.435059 GCTCGCAACTCACCCTCC 60.435 66.667 0.00 0.00 0.00 4.30
5240 5821 2.125912 CTCGCAACTCACCCTCCG 60.126 66.667 0.00 0.00 0.00 4.63
5241 5822 4.373116 TCGCAACTCACCCTCCGC 62.373 66.667 0.00 0.00 0.00 5.54
5244 5825 3.322466 CAACTCACCCTCCGCCCT 61.322 66.667 0.00 0.00 0.00 5.19
5245 5826 3.003763 AACTCACCCTCCGCCCTC 61.004 66.667 0.00 0.00 0.00 4.30
5308 5889 4.990553 GCGCTTCCCCGGCCTATC 62.991 72.222 0.00 0.00 0.00 2.08
5309 5890 4.315941 CGCTTCCCCGGCCTATCC 62.316 72.222 0.00 0.00 0.00 2.59
5310 5891 3.955044 GCTTCCCCGGCCTATCCC 61.955 72.222 0.00 0.00 0.00 3.85
5311 5892 3.249961 CTTCCCCGGCCTATCCCC 61.250 72.222 0.00 0.00 0.00 4.81
5351 5932 3.155167 CCCCCTCTAGTCACCGCC 61.155 72.222 0.00 0.00 0.00 6.13
5352 5933 3.528370 CCCCTCTAGTCACCGCCG 61.528 72.222 0.00 0.00 0.00 6.46
5353 5934 4.208686 CCCTCTAGTCACCGCCGC 62.209 72.222 0.00 0.00 0.00 6.53
5354 5935 4.208686 CCTCTAGTCACCGCCGCC 62.209 72.222 0.00 0.00 0.00 6.13
5355 5936 4.208686 CTCTAGTCACCGCCGCCC 62.209 72.222 0.00 0.00 0.00 6.13
5373 5954 4.862092 CTCGCGCGCATCTGTCCT 62.862 66.667 32.61 0.00 0.00 3.85
5374 5955 4.854784 TCGCGCGCATCTGTCCTC 62.855 66.667 32.61 0.00 0.00 3.71
5377 5958 4.193334 CGCGCATCTGTCCTCCGA 62.193 66.667 8.75 0.00 0.00 4.55
5378 5959 2.583593 GCGCATCTGTCCTCCGAC 60.584 66.667 0.30 0.00 39.66 4.79
5379 5960 2.278206 CGCATCTGTCCTCCGACG 60.278 66.667 0.00 0.00 42.37 5.12
5380 5961 2.761195 CGCATCTGTCCTCCGACGA 61.761 63.158 0.00 0.00 42.37 4.20
5381 5962 1.511305 GCATCTGTCCTCCGACGAA 59.489 57.895 0.00 0.00 42.37 3.85
5382 5963 0.802607 GCATCTGTCCTCCGACGAAC 60.803 60.000 0.00 0.00 42.37 3.95
5383 5964 0.526211 CATCTGTCCTCCGACGAACA 59.474 55.000 0.00 0.00 42.37 3.18
5384 5965 0.811915 ATCTGTCCTCCGACGAACAG 59.188 55.000 0.00 4.97 42.37 3.16
5385 5966 1.444553 CTGTCCTCCGACGAACAGC 60.445 63.158 0.00 0.00 42.37 4.40
5386 5967 3.263503 TGTCCTCCGACGAACAGCG 62.264 63.158 0.00 0.00 42.37 5.18
5387 5968 4.415332 TCCTCCGACGAACAGCGC 62.415 66.667 0.00 0.00 46.04 5.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 202 1.598130 GCACGTGCCAGGAAGTCTT 60.598 57.895 30.12 0.00 34.31 3.01
252 396 9.010366 GCGAAAAGGATCAAATCAACTATAAAC 57.990 33.333 0.00 0.00 0.00 2.01
253 397 8.735315 TGCGAAAAGGATCAAATCAACTATAAA 58.265 29.630 0.00 0.00 0.00 1.40
254 398 8.275015 TGCGAAAAGGATCAAATCAACTATAA 57.725 30.769 0.00 0.00 0.00 0.98
255 399 7.857734 TGCGAAAAGGATCAAATCAACTATA 57.142 32.000 0.00 0.00 0.00 1.31
435 619 6.451393 CGGTAGAAGCTAGCTAGATCAATTT 58.549 40.000 25.15 1.91 0.00 1.82
526 712 1.795768 CAAACCGTAGAAGCAGCTCA 58.204 50.000 0.00 0.00 0.00 4.26
700 888 0.600255 GAGTTGGTGCTAGTGCGTGT 60.600 55.000 0.00 0.00 43.34 4.49
703 891 1.005037 TGGAGTTGGTGCTAGTGCG 60.005 57.895 0.00 0.00 43.34 5.34
726 915 1.478105 GGTGGATTGGACTGGATTTGC 59.522 52.381 0.00 0.00 0.00 3.68
732 921 1.563879 TGGTATGGTGGATTGGACTGG 59.436 52.381 0.00 0.00 0.00 4.00
750 939 1.136500 GAGGTCCCTAGTTAGCGTTGG 59.864 57.143 0.00 0.00 0.00 3.77
752 941 2.100989 CTGAGGTCCCTAGTTAGCGTT 58.899 52.381 0.00 0.00 0.00 4.84
757 946 1.361543 AGTGGCTGAGGTCCCTAGTTA 59.638 52.381 0.00 0.00 0.00 2.24
763 952 4.416738 GCCAGTGGCTGAGGTCCC 62.417 72.222 27.48 0.00 46.69 4.46
999 1193 2.012673 GAACTAACTGGCTGCTCCATG 58.987 52.381 0.00 0.00 45.50 3.66
1010 1204 2.457366 AGAACCAGCCGAACTAACTG 57.543 50.000 0.00 0.00 0.00 3.16
1047 1241 1.916697 GCTTCTTCCTCTTGCGCACC 61.917 60.000 11.12 0.00 0.00 5.01
1133 1330 6.491062 TGATTCATGGGTATTCTTATGCTTGG 59.509 38.462 0.00 0.00 0.00 3.61
1139 1336 7.232127 CAGCCTTTGATTCATGGGTATTCTTAT 59.768 37.037 9.57 0.00 0.00 1.73
1251 1451 3.181441 GGTACCTAGGTGTGACCCAAAAA 60.181 47.826 25.33 0.00 39.75 1.94
1280 1488 5.543020 ACCCAATTTCCCAAATAAAACGGTA 59.457 36.000 0.00 0.00 0.00 4.02
1303 1511 7.596749 TTAGACTTAGAACAGCAATAGCAAC 57.403 36.000 0.00 0.00 45.49 4.17
1315 1523 6.819146 AGGCAGCAAACTATTAGACTTAGAAC 59.181 38.462 0.00 0.00 0.00 3.01
1745 2045 3.131396 ACACCAAGTAGTTTCTTGAGCG 58.869 45.455 7.83 0.00 45.11 5.03
1891 2191 6.069963 GCATCCCTCCCTGTGATATATTTACT 60.070 42.308 0.00 0.00 0.00 2.24
1892 2192 6.116126 GCATCCCTCCCTGTGATATATTTAC 58.884 44.000 0.00 0.00 0.00 2.01
1989 2289 2.678336 GGACTTCCAGGAAATTACAGCG 59.322 50.000 2.72 0.00 35.64 5.18
2057 2375 0.036875 GAGGGACAGGGTTGGTTCAG 59.963 60.000 0.00 0.00 0.00 3.02
2465 2784 5.366768 TGAGATTGGGAATCCTCGAAATAGT 59.633 40.000 0.00 0.00 38.71 2.12
2592 2911 3.308188 GCACCTCCTTACTAACATTGGGT 60.308 47.826 0.00 0.00 0.00 4.51
2683 3002 3.976701 CTGGGGCAAGGGCACTACG 62.977 68.421 0.00 0.00 45.12 3.51
2807 3126 7.807907 AGGTAATGCAAAATGAGTCGTTAAAAG 59.192 33.333 0.00 0.00 0.00 2.27
2999 3318 1.452833 GGCAGCAGGGAAGGTGATC 60.453 63.158 0.00 0.00 39.26 2.92
3001 3320 1.229496 TAGGCAGCAGGGAAGGTGA 60.229 57.895 0.00 0.00 39.26 4.02
3046 3365 4.060900 TCATGAACTGAAGCAGAGTTGTC 58.939 43.478 0.00 0.00 33.71 3.18
3216 3563 0.966179 TCTCCGTGAGCTGCAGTTAA 59.034 50.000 16.64 0.00 0.00 2.01
3306 3653 4.214119 TCTTGGAGATTTTCTGCGTTCTTG 59.786 41.667 0.00 0.00 37.69 3.02
3335 3682 2.594303 TTGGACCGCAACTGCTGG 60.594 61.111 9.91 9.91 39.44 4.85
3366 3713 1.228675 CTTGGGCAGCCTGAGGTTT 60.229 57.895 12.43 0.00 0.00 3.27
3372 3719 1.486310 TCTACATACTTGGGCAGCCTG 59.514 52.381 12.43 2.60 0.00 4.85
3427 3774 1.952990 TGCACAGAAATTTCTTCCGCA 59.047 42.857 22.72 22.72 34.74 5.69
3430 3777 6.500684 TGACTATGCACAGAAATTTCTTCC 57.499 37.500 18.16 9.71 34.74 3.46
3437 3784 5.104360 ACCCACTATGACTATGCACAGAAAT 60.104 40.000 0.00 0.00 0.00 2.17
3486 3833 9.679661 AAATCATGGAGTACAACACATAACATA 57.320 29.630 0.00 0.00 0.00 2.29
3570 3917 1.676014 CCATCGTCAACAGAGAACCCC 60.676 57.143 0.00 0.00 0.00 4.95
3600 3947 0.909610 TTCCACTCTGGCCTTCCGAT 60.910 55.000 3.32 0.00 37.47 4.18
3611 3958 4.376340 CAAGCAAACTTGTTTCCACTCT 57.624 40.909 0.00 0.00 46.84 3.24
3628 3975 3.123620 CAGAGGCGGCAGTCAAGC 61.124 66.667 13.08 0.00 0.00 4.01
3695 4042 5.278660 CCTTTCTCAGGTGAATGGAACAAAG 60.279 44.000 9.25 0.00 41.19 2.77
3773 4120 2.277591 TGCCACAAGCTGAATGCCC 61.278 57.895 0.00 0.00 44.23 5.36
3789 4136 1.975363 GAGCTCGACAAGGCATGTGC 61.975 60.000 0.00 0.00 44.12 4.57
3855 4202 3.078836 CCATTGCAAGGCAGGGGG 61.079 66.667 5.36 0.00 40.61 5.40
3856 4203 2.037687 TCCATTGCAAGGCAGGGG 59.962 61.111 5.36 7.31 40.61 4.79
3876 4223 2.506217 TTGCCGACGAGACGATGC 60.506 61.111 0.00 0.00 35.09 3.91
3888 4235 0.373716 GGAGCACTTTATCGTTGCCG 59.626 55.000 0.00 0.00 0.00 5.69
3926 4273 0.246360 TGCTCATGGTAGGTGACGTG 59.754 55.000 0.00 0.00 0.00 4.49
4344 4691 1.424493 GACGAATGGCAGCTTCTCCG 61.424 60.000 0.00 0.00 0.00 4.63
4413 4760 6.576662 TGTTAACTCGAATCTCAAGAGACT 57.423 37.500 7.22 0.00 40.75 3.24
4698 5277 6.127338 ACCATCTCTCAATGTATTTCTCGTGA 60.127 38.462 0.00 0.00 0.00 4.35
4731 5310 9.868277 CTTCCTCCTATCATACAAAGATCATAC 57.132 37.037 0.00 0.00 0.00 2.39
4820 5401 2.121963 TCCTCTTGCTGGGTGGGT 60.122 61.111 0.00 0.00 0.00 4.51
4821 5402 2.067932 TTGTCCTCTTGCTGGGTGGG 62.068 60.000 0.00 0.00 0.00 4.61
4822 5403 0.038744 ATTGTCCTCTTGCTGGGTGG 59.961 55.000 0.00 0.00 0.00 4.61
4823 5404 2.787473 TATTGTCCTCTTGCTGGGTG 57.213 50.000 0.00 0.00 0.00 4.61
4895 5476 1.338200 GGTGGCACCTGTGACTCTTAG 60.338 57.143 29.22 0.00 39.96 2.18
4897 5478 1.451936 GGTGGCACCTGTGACTCTT 59.548 57.895 29.22 0.00 39.96 2.85
5022 5603 1.300971 TGCGGCTGTTGAAGATGCTC 61.301 55.000 0.00 0.00 0.00 4.26
5023 5604 0.679002 ATGCGGCTGTTGAAGATGCT 60.679 50.000 0.00 0.00 0.00 3.79
5024 5605 0.248377 GATGCGGCTGTTGAAGATGC 60.248 55.000 0.00 0.00 0.00 3.91
5025 5606 1.089112 TGATGCGGCTGTTGAAGATG 58.911 50.000 0.00 0.00 0.00 2.90
5026 5607 1.825090 TTGATGCGGCTGTTGAAGAT 58.175 45.000 0.00 0.00 0.00 2.40
5027 5608 1.266718 GTTTGATGCGGCTGTTGAAGA 59.733 47.619 0.00 0.00 0.00 2.87
5028 5609 1.001487 TGTTTGATGCGGCTGTTGAAG 60.001 47.619 0.00 0.00 0.00 3.02
5029 5610 1.028130 TGTTTGATGCGGCTGTTGAA 58.972 45.000 0.00 0.00 0.00 2.69
5030 5611 1.001487 CTTGTTTGATGCGGCTGTTGA 60.001 47.619 0.00 0.00 0.00 3.18
5031 5612 1.411394 CTTGTTTGATGCGGCTGTTG 58.589 50.000 0.00 0.00 0.00 3.33
5032 5613 0.318955 GCTTGTTTGATGCGGCTGTT 60.319 50.000 0.00 0.00 0.00 3.16
5033 5614 1.286880 GCTTGTTTGATGCGGCTGT 59.713 52.632 0.00 0.00 0.00 4.40
5034 5615 1.798725 CGCTTGTTTGATGCGGCTG 60.799 57.895 0.00 0.00 42.88 4.85
5035 5616 2.562912 CGCTTGTTTGATGCGGCT 59.437 55.556 0.00 0.00 42.88 5.52
5039 5620 2.139811 CGCGACGCTTGTTTGATGC 61.140 57.895 19.02 0.00 0.00 3.91
5040 5621 4.026156 CGCGACGCTTGTTTGATG 57.974 55.556 19.02 0.00 0.00 3.07
5051 5632 3.522987 CAATTTTGCGGCGCGACG 61.523 61.111 33.75 33.75 0.00 5.12
5052 5633 3.826691 GCAATTTTGCGGCGCGAC 61.827 61.111 28.09 5.80 45.11 5.19
5061 5642 2.222774 CGCGCTAAAATGGGCAATTTTG 60.223 45.455 20.39 12.21 45.89 2.44
5063 5644 1.639280 CGCGCTAAAATGGGCAATTT 58.361 45.000 5.56 0.00 44.61 1.82
5064 5645 0.805711 GCGCGCTAAAATGGGCAATT 60.806 50.000 26.67 0.00 44.61 2.32
5065 5646 1.226945 GCGCGCTAAAATGGGCAAT 60.227 52.632 26.67 0.00 44.61 3.56
5066 5647 2.180518 GCGCGCTAAAATGGGCAA 59.819 55.556 26.67 0.00 44.61 4.52
5067 5648 4.172772 CGCGCGCTAAAATGGGCA 62.173 61.111 30.48 0.00 44.61 5.36
5081 5662 3.688330 CTATACCGGTTGCGCGCG 61.688 66.667 28.44 28.44 0.00 6.86
5082 5663 2.584143 ACTATACCGGTTGCGCGC 60.584 61.111 27.26 27.26 0.00 6.86
5083 5664 2.235016 CCACTATACCGGTTGCGCG 61.235 63.158 15.04 0.00 0.00 6.86
5084 5665 2.531376 GCCACTATACCGGTTGCGC 61.531 63.158 15.04 7.06 0.00 6.09
5085 5666 0.874607 GAGCCACTATACCGGTTGCG 60.875 60.000 15.04 3.45 31.82 4.85
5086 5667 0.532196 GGAGCCACTATACCGGTTGC 60.532 60.000 15.04 6.61 0.00 4.17
5087 5668 0.828022 TGGAGCCACTATACCGGTTG 59.172 55.000 15.04 4.29 0.00 3.77
5088 5669 1.120530 CTGGAGCCACTATACCGGTT 58.879 55.000 15.04 3.05 0.00 4.44
5089 5670 1.400530 GCTGGAGCCACTATACCGGT 61.401 60.000 13.98 13.98 34.31 5.28
5090 5671 1.367840 GCTGGAGCCACTATACCGG 59.632 63.158 0.00 0.00 34.31 5.28
5091 5672 1.007271 CGCTGGAGCCACTATACCG 60.007 63.158 0.00 0.00 37.91 4.02
5092 5673 1.367840 CCGCTGGAGCCACTATACC 59.632 63.158 0.00 0.00 37.91 2.73
5093 5674 1.367840 CCCGCTGGAGCCACTATAC 59.632 63.158 0.00 0.00 37.91 1.47
5094 5675 2.507854 GCCCGCTGGAGCCACTATA 61.508 63.158 0.00 0.00 37.91 1.31
5095 5676 3.866582 GCCCGCTGGAGCCACTAT 61.867 66.667 0.00 0.00 37.91 2.12
5116 5697 3.385999 CCGCGCACGCAGTTTTTG 61.386 61.111 16.04 0.00 41.61 2.44
5122 5703 4.360027 GATATGCCGCGCACGCAG 62.360 66.667 21.81 4.68 43.04 5.18
5123 5704 3.492311 TAGATATGCCGCGCACGCA 62.492 57.895 20.02 20.02 43.04 5.24
5124 5705 2.720758 CTAGATATGCCGCGCACGC 61.721 63.158 8.75 9.14 43.04 5.34
5125 5706 0.939577 AACTAGATATGCCGCGCACG 60.940 55.000 8.75 0.00 43.04 5.34
5126 5707 0.784778 GAACTAGATATGCCGCGCAC 59.215 55.000 8.75 0.00 43.04 5.34
5127 5708 0.387565 TGAACTAGATATGCCGCGCA 59.612 50.000 8.75 2.46 44.86 6.09
5128 5709 1.063806 CTGAACTAGATATGCCGCGC 58.936 55.000 0.00 0.00 0.00 6.86
5129 5710 1.063806 GCTGAACTAGATATGCCGCG 58.936 55.000 0.00 0.00 0.00 6.46
5130 5711 1.063806 CGCTGAACTAGATATGCCGC 58.936 55.000 0.00 0.00 0.00 6.53
5131 5712 1.063806 GCGCTGAACTAGATATGCCG 58.936 55.000 0.00 0.00 0.00 5.69
5132 5713 1.063806 CGCGCTGAACTAGATATGCC 58.936 55.000 5.56 0.00 0.00 4.40
5133 5714 0.436531 GCGCGCTGAACTAGATATGC 59.563 55.000 26.67 0.00 0.00 3.14
5134 5715 0.705094 CGCGCGCTGAACTAGATATG 59.295 55.000 30.48 4.24 0.00 1.78
5135 5716 0.387367 CCGCGCGCTGAACTAGATAT 60.387 55.000 30.48 0.00 0.00 1.63
5136 5717 1.008881 CCGCGCGCTGAACTAGATA 60.009 57.895 30.48 0.00 0.00 1.98
5137 5718 2.278857 CCGCGCGCTGAACTAGAT 60.279 61.111 30.48 0.00 0.00 1.98
5138 5719 4.492160 CCCGCGCGCTGAACTAGA 62.492 66.667 30.48 0.00 0.00 2.43
5151 5732 3.202706 GATGGAGTTTCGGCCCGC 61.203 66.667 0.00 0.00 0.00 6.13
5152 5733 2.890474 CGATGGAGTTTCGGCCCG 60.890 66.667 0.00 0.00 33.05 6.13
5153 5734 3.202706 GCGATGGAGTTTCGGCCC 61.203 66.667 0.00 0.00 37.10 5.80
5154 5735 3.564027 CGCGATGGAGTTTCGGCC 61.564 66.667 0.00 0.00 37.10 6.13
5155 5736 2.813908 ACGCGATGGAGTTTCGGC 60.814 61.111 15.93 0.00 37.10 5.54
5156 5737 3.081133 CACGCGATGGAGTTTCGG 58.919 61.111 15.93 0.00 37.10 4.30
5157 5738 2.395690 GCACGCGATGGAGTTTCG 59.604 61.111 15.93 0.00 39.55 3.46
5158 5739 2.785258 GGCACGCGATGGAGTTTC 59.215 61.111 15.93 0.00 0.00 2.78
5217 5798 3.832171 GTGAGTTGCGAGCGAGCG 61.832 66.667 0.00 0.00 40.67 5.03
5218 5799 3.482783 GGTGAGTTGCGAGCGAGC 61.483 66.667 0.00 0.00 37.71 5.03
5219 5800 2.811317 GGGTGAGTTGCGAGCGAG 60.811 66.667 0.00 0.00 0.00 5.03
5220 5801 3.282745 GAGGGTGAGTTGCGAGCGA 62.283 63.158 0.00 0.00 0.00 4.93
5221 5802 2.811317 GAGGGTGAGTTGCGAGCG 60.811 66.667 0.00 0.00 0.00 5.03
5222 5803 2.435059 GGAGGGTGAGTTGCGAGC 60.435 66.667 0.00 0.00 0.00 5.03
5223 5804 2.125912 CGGAGGGTGAGTTGCGAG 60.126 66.667 0.00 0.00 0.00 5.03
5224 5805 4.373116 GCGGAGGGTGAGTTGCGA 62.373 66.667 0.00 0.00 0.00 5.10
5227 5808 3.316573 GAGGGCGGAGGGTGAGTTG 62.317 68.421 0.00 0.00 0.00 3.16
5228 5809 3.003763 GAGGGCGGAGGGTGAGTT 61.004 66.667 0.00 0.00 0.00 3.01
5291 5872 4.990553 GATAGGCCGGGGAAGCGC 62.991 72.222 2.18 0.00 0.00 5.92
5292 5873 4.315941 GGATAGGCCGGGGAAGCG 62.316 72.222 2.18 0.00 0.00 4.68
5293 5874 3.955044 GGGATAGGCCGGGGAAGC 61.955 72.222 2.18 0.00 37.63 3.86
5294 5875 3.249961 GGGGATAGGCCGGGGAAG 61.250 72.222 2.18 0.00 37.63 3.46
5334 5915 3.155167 GGCGGTGACTAGAGGGGG 61.155 72.222 0.00 0.00 0.00 5.40
5335 5916 3.528370 CGGCGGTGACTAGAGGGG 61.528 72.222 0.00 0.00 0.00 4.79
5336 5917 4.208686 GCGGCGGTGACTAGAGGG 62.209 72.222 9.78 0.00 0.00 4.30
5337 5918 4.208686 GGCGGCGGTGACTAGAGG 62.209 72.222 9.78 0.00 0.00 3.69
5338 5919 4.208686 GGGCGGCGGTGACTAGAG 62.209 72.222 9.78 0.00 0.00 2.43
5356 5937 4.862092 AGGACAGATGCGCGCGAG 62.862 66.667 37.18 18.76 0.00 5.03
5357 5938 4.854784 GAGGACAGATGCGCGCGA 62.855 66.667 37.18 19.53 0.00 5.87
5360 5941 4.193334 TCGGAGGACAGATGCGCG 62.193 66.667 0.00 0.00 0.00 6.86
5361 5942 2.583593 GTCGGAGGACAGATGCGC 60.584 66.667 0.00 0.00 42.91 6.09
5362 5943 2.266376 TTCGTCGGAGGACAGATGCG 62.266 60.000 0.00 0.00 43.61 4.73
5363 5944 0.802607 GTTCGTCGGAGGACAGATGC 60.803 60.000 0.00 0.00 43.61 3.91
5364 5945 0.526211 TGTTCGTCGGAGGACAGATG 59.474 55.000 0.00 0.00 43.61 2.90
5365 5946 0.811915 CTGTTCGTCGGAGGACAGAT 59.188 55.000 17.54 0.00 43.61 2.90
5366 5947 1.863662 GCTGTTCGTCGGAGGACAGA 61.864 60.000 22.52 1.85 43.61 3.41
5367 5948 1.444553 GCTGTTCGTCGGAGGACAG 60.445 63.158 17.85 17.85 43.61 3.51
5368 5949 2.649034 GCTGTTCGTCGGAGGACA 59.351 61.111 0.00 2.11 43.61 4.02
5369 5950 2.504244 CGCTGTTCGTCGGAGGAC 60.504 66.667 0.00 0.00 39.89 3.85
5370 5951 4.415332 GCGCTGTTCGTCGGAGGA 62.415 66.667 0.00 0.00 41.07 3.71


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

AutoCloner maintained by Alex Coulton.