Multiple sequence alignment - TraesCS7D01G185800

Loading Multiple Alignment...

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 TraesCS7D01G185800 chr7D 100.000 4745 0 0 1 4745 138502610 138497866 0.000000e+00 8763
1 TraesCS7D01G185800 chr7D 97.549 612 15 0 2003 2614 409456022 409455411 0.000000e+00 1048
2 TraesCS7D01G185800 chr7D 97.545 611 14 1 2004 2614 418920505 418921114 0.000000e+00 1044
3 TraesCS7D01G185800 chr7D 82.320 181 28 3 4071 4248 138378776 138378597 2.290000e-33 154
4 TraesCS7D01G185800 chr7D 81.921 177 29 3 4071 4245 138348947 138348772 3.830000e-31 147
5 TraesCS7D01G185800 chr7D 95.455 88 3 1 815 901 638440827 638440740 6.400000e-29 139
6 TraesCS7D01G185800 chr7D 93.478 92 5 1 814 904 124168217 124168126 8.280000e-28 135
7 TraesCS7D01G185800 chr7D 79.114 158 25 5 641 794 71818984 71819137 8.400000e-18 102
8 TraesCS7D01G185800 chr7B 94.571 1234 38 10 2615 3848 103981411 103980207 0.000000e+00 1881
9 TraesCS7D01G185800 chr7B 90.075 937 51 11 1092 2003 103982333 103981414 0.000000e+00 1177
10 TraesCS7D01G185800 chr7B 91.509 530 29 9 425 949 103998859 103998341 0.000000e+00 715
11 TraesCS7D01G185800 chr7B 83.147 807 81 31 3959 4745 103980002 103979231 0.000000e+00 686
12 TraesCS7D01G185800 chr7B 90.588 425 32 6 2 426 103999379 103998963 1.490000e-154 556
13 TraesCS7D01G185800 chr7B 96.377 138 5 0 958 1095 103998080 103997943 1.330000e-55 228
14 TraesCS7D01G185800 chr7B 82.178 202 23 10 275 465 368616707 368616906 1.370000e-35 161
15 TraesCS7D01G185800 chr7B 82.778 180 28 3 4071 4248 103883036 103882858 1.770000e-34 158
16 TraesCS7D01G185800 chr7A 88.579 1112 61 22 949 2005 138538795 138537695 0.000000e+00 1290
17 TraesCS7D01G185800 chr7A 89.826 806 44 13 1 799 138723442 138722668 0.000000e+00 1000
18 TraesCS7D01G185800 chr7A 95.423 437 20 0 2615 3051 138537694 138537258 0.000000e+00 697
19 TraesCS7D01G185800 chr7A 93.210 486 12 11 2984 3465 138537253 138536785 0.000000e+00 695
20 TraesCS7D01G185800 chr7A 90.179 448 34 3 3463 3910 138536626 138536189 4.120000e-160 575
21 TraesCS7D01G185800 chr7A 90.347 404 22 8 901 1289 138680418 138680017 9.110000e-142 514
22 TraesCS7D01G185800 chr7A 88.000 400 38 7 3081 3471 138670504 138670106 9.300000e-127 464
23 TraesCS7D01G185800 chr7A 82.374 556 64 18 3969 4515 138536194 138535664 2.010000e-123 453
24 TraesCS7D01G185800 chr7A 87.213 305 29 8 515 813 138539166 138538866 5.880000e-89 339
25 TraesCS7D01G185800 chr7A 85.502 269 39 0 3495 3763 138670118 138669850 1.010000e-71 281
26 TraesCS7D01G185800 chr7A 91.371 197 16 1 2769 2965 138670687 138670492 7.830000e-68 268
27 TraesCS7D01G185800 chr7A 91.538 130 10 1 2636 2765 138678971 138678843 1.360000e-40 178
28 TraesCS7D01G185800 chr7A 82.778 180 28 3 4071 4248 138381488 138381310 1.770000e-34 158
29 TraesCS7D01G185800 chr2D 97.886 615 8 2 2003 2614 638388845 638388233 0.000000e+00 1059
30 TraesCS7D01G185800 chr2D 97.227 613 14 2 2002 2614 54886775 54886166 0.000000e+00 1035
31 TraesCS7D01G185800 chr4D 97.545 611 15 0 2004 2614 12045969 12045359 0.000000e+00 1046
32 TraesCS7D01G185800 chr4D 81.290 310 28 16 207 493 494486655 494486353 1.720000e-54 224
33 TraesCS7D01G185800 chr3D 97.541 610 14 1 2002 2611 82105047 82105655 0.000000e+00 1042
34 TraesCS7D01G185800 chr3D 85.393 267 22 8 210 465 255424689 255424429 1.310000e-65 261
35 TraesCS7D01G185800 chr3D 82.432 148 20 4 1 147 382804301 382804443 1.790000e-24 124
36 TraesCS7D01G185800 chr1D 97.227 613 15 2 2003 2614 19004334 19003723 0.000000e+00 1037
37 TraesCS7D01G185800 chr1D 97.078 616 17 1 1999 2614 437512996 437513610 0.000000e+00 1037
38 TraesCS7D01G185800 chr1D 81.757 148 23 2 1 147 359640637 359640493 2.320000e-23 121
39 TraesCS7D01G185800 chr5D 97.054 611 15 1 2004 2614 397769242 397768635 0.000000e+00 1026
40 TraesCS7D01G185800 chr5D 84.701 268 22 11 209 465 451067133 451067392 2.840000e-62 250
41 TraesCS7D01G185800 chr5D 84.459 148 17 5 1 147 115972825 115972683 1.780000e-29 141
42 TraesCS7D01G185800 chr2A 86.454 251 22 6 221 465 122146936 122147180 1.010000e-66 265
43 TraesCS7D01G185800 chr2A 94.505 91 4 1 814 903 643015764 643015854 6.400000e-29 139
44 TraesCS7D01G185800 chr2A 87.288 118 14 1 787 903 773293342 773293459 2.980000e-27 134
45 TraesCS7D01G185800 chr6A 84.286 280 26 9 197 465 158312051 158312323 1.690000e-64 257
46 TraesCS7D01G185800 chr6A 88.276 145 17 0 1 145 578912501 578912645 1.760000e-39 174
47 TraesCS7D01G185800 chr6A 81.977 172 28 3 4071 4240 581738120 581737950 4.950000e-30 143
48 TraesCS7D01G185800 chr6A 84.252 127 15 5 776 901 367826795 367826673 8.340000e-23 119
49 TraesCS7D01G185800 chr6A 79.630 162 32 1 4071 4231 571638715 571638554 1.080000e-21 115
50 TraesCS7D01G185800 chr3A 84.980 253 25 9 219 465 67945454 67945699 1.320000e-60 244
51 TraesCS7D01G185800 chr3A 82.857 280 24 13 202 465 587584713 587584984 3.690000e-56 230
52 TraesCS7D01G185800 chr3A 86.093 151 20 1 1 150 46726008 46726158 1.370000e-35 161
53 TraesCS7D01G185800 chr3A 88.991 109 8 4 794 898 620584177 620584069 1.070000e-26 132
54 TraesCS7D01G185800 chr5A 84.825 257 22 7 220 465 171143144 171142894 4.740000e-60 243
55 TraesCS7D01G185800 chr5A 90.845 142 11 2 325 465 605783963 605783823 6.270000e-44 189
56 TraesCS7D01G185800 chr6B 83.333 252 28 10 220 465 631416898 631417141 2.220000e-53 220
57 TraesCS7D01G185800 chr6B 91.000 100 8 1 812 910 349967646 349967745 2.980000e-27 134
58 TraesCS7D01G185800 chr6B 83.803 142 20 3 1 141 609003229 609003368 1.070000e-26 132
59 TraesCS7D01G185800 chr6B 80.864 162 30 1 4071 4231 56068953 56069114 4.980000e-25 126
60 TraesCS7D01G185800 chr6B 80.488 164 26 6 4071 4231 642346065 642345905 2.320000e-23 121
61 TraesCS7D01G185800 chr1A 83.267 251 27 12 223 465 260833848 260833605 2.880000e-52 217
62 TraesCS7D01G185800 chr1A 83.221 149 16 9 1 147 471710921 471711062 1.390000e-25 128
63 TraesCS7D01G185800 chr1A 85.366 123 14 4 795 914 426880187 426880066 1.790000e-24 124
64 TraesCS7D01G185800 chr1B 84.043 188 26 4 4053 4238 509006229 509006044 1.360000e-40 178
65 TraesCS7D01G185800 chr6D 81.481 162 29 1 4071 4231 426883467 426883306 1.070000e-26 132
66 TraesCS7D01G185800 chr3B 82.313 147 20 5 1 146 498408602 498408743 6.450000e-24 122


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 TraesCS7D01G185800 chr7D 138497866 138502610 4744 True 8763.000000 8763 100.000000 1 4745 1 chr7D.!!$R4 4744
1 TraesCS7D01G185800 chr7D 409455411 409456022 611 True 1048.000000 1048 97.549000 2003 2614 1 chr7D.!!$R5 611
2 TraesCS7D01G185800 chr7D 418920505 418921114 609 False 1044.000000 1044 97.545000 2004 2614 1 chr7D.!!$F2 610
3 TraesCS7D01G185800 chr7B 103979231 103982333 3102 True 1248.000000 1881 89.264333 1092 4745 3 chr7B.!!$R2 3653
4 TraesCS7D01G185800 chr7B 103997943 103999379 1436 True 499.666667 715 92.824667 2 1095 3 chr7B.!!$R3 1093
5 TraesCS7D01G185800 chr7A 138722668 138723442 774 True 1000.000000 1000 89.826000 1 799 1 chr7A.!!$R2 798
6 TraesCS7D01G185800 chr7A 138535664 138539166 3502 True 674.833333 1290 89.496333 515 4515 6 chr7A.!!$R3 4000
7 TraesCS7D01G185800 chr7A 138678843 138680418 1575 True 346.000000 514 90.942500 901 2765 2 chr7A.!!$R5 1864
8 TraesCS7D01G185800 chr7A 138669850 138670687 837 True 337.666667 464 88.291000 2769 3763 3 chr7A.!!$R4 994
9 TraesCS7D01G185800 chr2D 638388233 638388845 612 True 1059.000000 1059 97.886000 2003 2614 1 chr2D.!!$R2 611
10 TraesCS7D01G185800 chr2D 54886166 54886775 609 True 1035.000000 1035 97.227000 2002 2614 1 chr2D.!!$R1 612
11 TraesCS7D01G185800 chr4D 12045359 12045969 610 True 1046.000000 1046 97.545000 2004 2614 1 chr4D.!!$R1 610
12 TraesCS7D01G185800 chr3D 82105047 82105655 608 False 1042.000000 1042 97.541000 2002 2611 1 chr3D.!!$F1 609
13 TraesCS7D01G185800 chr1D 19003723 19004334 611 True 1037.000000 1037 97.227000 2003 2614 1 chr1D.!!$R1 611
14 TraesCS7D01G185800 chr1D 437512996 437513610 614 False 1037.000000 1037 97.078000 1999 2614 1 chr1D.!!$F1 615
15 TraesCS7D01G185800 chr5D 397768635 397769242 607 True 1026.000000 1026 97.054000 2004 2614 1 chr5D.!!$R2 610

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
171 172 0.248134 GTTGTGGTGTTGCGCGTAAA 60.248 50.000 12.24 1.07 0.0 2.01 F
1135 1514 1.021390 CACGAAGAATCTGCCGGCTT 61.021 55.000 29.70 14.38 0.0 4.35 F
3052 4063 1.344438 TGGAACTGCATTGACTCGACT 59.656 47.619 0.00 0.00 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1373 2221 1.602851 CTGAATCTGCTATGCCTGCAC 59.397 52.381 0.00 0.00 36.37 4.57 R
3056 4067 0.169230 CCAGGTCACTTCGAGTCGAG 59.831 60.000 15.88 12.16 37.14 4.04 R
4668 5993 0.110104 CCCCTTCAGCCATCCTCATC 59.890 60.000 0.00 0.00 0.00 2.92 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
95 96 1.609794 GGAGAAGAGGTGGACCGGT 60.610 63.158 6.92 6.92 42.08 5.28
149 150 2.713595 TCTTGGGAGGAAGGAAAGGAA 58.286 47.619 0.00 0.00 0.00 3.36
171 172 0.248134 GTTGTGGTGTTGCGCGTAAA 60.248 50.000 12.24 1.07 0.00 2.01
187 188 3.003378 GCGTAAACTTTTCCAGTGCTCTT 59.997 43.478 0.00 0.00 35.12 2.85
329 330 9.325198 TGCGATTGTGTAAATAATAATCTGACT 57.675 29.630 0.00 0.00 0.00 3.41
450 556 1.354368 GAAGGTTGGATGAAGGGGTGA 59.646 52.381 0.00 0.00 0.00 4.02
484 590 8.681486 AAGGTGGTTACGTTCTTTTTAAGTAT 57.319 30.769 0.00 0.00 29.47 2.12
485 591 9.777297 AAGGTGGTTACGTTCTTTTTAAGTATA 57.223 29.630 0.00 0.00 29.47 1.47
486 592 9.948964 AGGTGGTTACGTTCTTTTTAAGTATAT 57.051 29.630 0.00 0.00 0.00 0.86
680 790 6.043327 TGTGTGTAAAAGTTCACGATGAAG 57.957 37.500 0.00 0.00 37.00 3.02
694 804 6.693466 TCACGATGAAGTACCTTGAATTGTA 58.307 36.000 0.00 0.00 0.00 2.41
785 897 4.217550 TCTTTTGGAGCCCTCATTTTAACG 59.782 41.667 0.00 0.00 0.00 3.18
1048 1421 3.905153 GAAGGCCCCAACCCCAAGG 62.905 68.421 0.00 0.00 40.04 3.61
1129 1508 1.023513 AGCTGCCACGAAGAATCTGC 61.024 55.000 0.00 0.00 0.00 4.26
1135 1514 1.021390 CACGAAGAATCTGCCGGCTT 61.021 55.000 29.70 14.38 0.00 4.35
1396 2244 2.743126 GCAGGCATAGCAGATTCAGATC 59.257 50.000 0.00 0.00 0.00 2.75
1449 2336 6.003859 TGTTTAGGGTGGAAAACTTACTCA 57.996 37.500 0.00 0.00 36.70 3.41
1510 2397 4.141869 ACGTACGTTAGGGATTGGCTTATT 60.142 41.667 16.72 0.00 0.00 1.40
1511 2398 5.068987 ACGTACGTTAGGGATTGGCTTATTA 59.931 40.000 16.72 0.00 0.00 0.98
1512 2399 6.161381 CGTACGTTAGGGATTGGCTTATTAT 58.839 40.000 7.22 0.00 0.00 1.28
1513 2400 6.647895 CGTACGTTAGGGATTGGCTTATTATT 59.352 38.462 7.22 0.00 0.00 1.40
1686 2593 1.444836 ATAGCACGCCGCAAGTTAAA 58.555 45.000 0.00 0.00 46.13 1.52
1703 2610 7.339953 CAAGTTAAAGTTGCAGAAAATTCAGC 58.660 34.615 3.84 3.84 39.77 4.26
1712 2619 3.152341 CAGAAAATTCAGCCACTGACCT 58.848 45.455 0.00 0.00 40.46 3.85
1727 2634 5.983720 CCACTGACCTAGTCCGTAAATAATG 59.016 44.000 0.00 0.00 37.60 1.90
1729 2636 7.201848 CCACTGACCTAGTCCGTAAATAATGTA 60.202 40.741 0.00 0.00 37.60 2.29
1932 2841 2.287009 CCAAGTGAAAGTCGCAGTTTCC 60.287 50.000 11.48 5.87 36.86 3.13
2325 3237 1.806542 GTGAGTAAGGACCACGTACGA 59.193 52.381 24.41 0.00 38.79 3.43
2478 3391 3.073798 TGATCTGTTCAACCCCAGCTAAA 59.926 43.478 0.00 0.00 0.00 1.85
2654 3593 2.736347 GGGAGCCTACTGTCTCTGTTA 58.264 52.381 0.00 0.00 0.00 2.41
2793 3732 8.210265 TGGAACATGTAGCAACTATGAATATGA 58.790 33.333 0.00 0.00 0.00 2.15
2848 3787 3.745458 CAGCAGAGTCTCTTGAAAAGTCC 59.255 47.826 0.00 0.00 46.34 3.85
3051 4062 1.795768 TGGAACTGCATTGACTCGAC 58.204 50.000 0.00 0.00 0.00 4.20
3052 4063 1.344438 TGGAACTGCATTGACTCGACT 59.656 47.619 0.00 0.00 0.00 4.18
3053 4064 1.996191 GGAACTGCATTGACTCGACTC 59.004 52.381 0.00 0.00 0.00 3.36
3054 4065 1.651138 GAACTGCATTGACTCGACTCG 59.349 52.381 0.00 0.00 0.00 4.18
3055 4066 0.881796 ACTGCATTGACTCGACTCGA 59.118 50.000 0.29 0.29 0.00 4.04
3056 4067 1.263776 CTGCATTGACTCGACTCGAC 58.736 55.000 0.00 0.00 0.00 4.20
3057 4068 0.881796 TGCATTGACTCGACTCGACT 59.118 50.000 0.00 0.00 0.00 4.18
3058 4069 1.135660 TGCATTGACTCGACTCGACTC 60.136 52.381 0.00 0.00 0.00 3.36
3059 4070 1.804062 CATTGACTCGACTCGACTCG 58.196 55.000 8.00 8.00 34.83 4.18
3060 4071 1.393883 CATTGACTCGACTCGACTCGA 59.606 52.381 14.95 14.95 40.37 4.04
3230 4244 4.748892 ACTAGATCATGACTTTGTGTCCG 58.251 43.478 0.00 0.00 44.75 4.79
3241 4257 1.177895 TTGTGTCCGCATGTTGGCAT 61.178 50.000 0.00 0.00 35.32 4.40
3483 4664 2.324541 ACATGGCTTACCCTGCAAAAA 58.675 42.857 0.00 0.00 35.11 1.94
3484 4665 2.037121 ACATGGCTTACCCTGCAAAAAC 59.963 45.455 0.00 0.00 35.11 2.43
3485 4666 1.781786 TGGCTTACCCTGCAAAAACA 58.218 45.000 0.00 0.00 33.59 2.83
3486 4667 2.111384 TGGCTTACCCTGCAAAAACAA 58.889 42.857 0.00 0.00 33.59 2.83
3487 4668 2.703007 TGGCTTACCCTGCAAAAACAAT 59.297 40.909 0.00 0.00 33.59 2.71
3528 4709 0.251787 AGGACCATGCCCAAGGTTTC 60.252 55.000 0.00 0.00 38.50 2.78
3596 4777 1.809684 AACCGGAAGAAAGCAGTAGC 58.190 50.000 9.46 0.00 42.56 3.58
3706 4887 1.180029 CCTTTTCAGGTGGGCATCAG 58.820 55.000 0.00 0.00 35.06 2.90
3768 4949 7.819415 TGAGATAACACGATGTCTCTGAATTTT 59.181 33.333 12.52 0.00 38.29 1.82
3783 4964 7.331934 TCTCTGAATTTTTCTCGTTACTGATGG 59.668 37.037 0.00 0.00 0.00 3.51
3792 4973 2.096980 TCGTTACTGATGGTACGAGCAG 59.903 50.000 19.86 19.86 33.56 4.24
3793 4974 2.194271 GTTACTGATGGTACGAGCAGC 58.806 52.381 21.14 3.58 31.89 5.25
3837 5018 2.902705 AACTTACAGTCTTCCGCACA 57.097 45.000 0.00 0.00 0.00 4.57
3843 5024 1.276421 ACAGTCTTCCGCACAGCTATT 59.724 47.619 0.00 0.00 0.00 1.73
3844 5025 2.289694 ACAGTCTTCCGCACAGCTATTT 60.290 45.455 0.00 0.00 0.00 1.40
3846 5027 2.076863 GTCTTCCGCACAGCTATTTGT 58.923 47.619 0.00 0.00 0.00 2.83
3858 5039 3.565482 CAGCTATTTGTCACCACTTGTGT 59.435 43.478 0.00 0.00 45.61 3.72
3877 5058 5.551233 TGTGTGGTTTAAGAGAAGGAGATG 58.449 41.667 0.00 0.00 0.00 2.90
3895 5076 3.195825 AGATGGCAGTTAGTGTGTCCTAC 59.804 47.826 0.00 0.00 0.00 3.18
3897 5078 2.903784 TGGCAGTTAGTGTGTCCTACAT 59.096 45.455 0.00 0.00 42.24 2.29
3903 5084 2.859165 AGTGTGTCCTACATTGGGTG 57.141 50.000 0.00 0.00 42.24 4.61
3904 5085 2.334977 AGTGTGTCCTACATTGGGTGA 58.665 47.619 0.00 0.00 42.24 4.02
3905 5086 2.708861 AGTGTGTCCTACATTGGGTGAA 59.291 45.455 0.00 0.00 42.24 3.18
3908 5089 3.074412 GTGTCCTACATTGGGTGAACTG 58.926 50.000 0.00 0.00 0.00 3.16
3909 5090 2.976185 TGTCCTACATTGGGTGAACTGA 59.024 45.455 0.00 0.00 0.00 3.41
3910 5091 3.244422 TGTCCTACATTGGGTGAACTGAC 60.244 47.826 0.00 0.00 0.00 3.51
3911 5092 2.976185 TCCTACATTGGGTGAACTGACA 59.024 45.455 0.00 0.00 0.00 3.58
3913 5094 3.691118 CCTACATTGGGTGAACTGACATG 59.309 47.826 0.00 0.00 0.00 3.21
3914 5095 3.228188 ACATTGGGTGAACTGACATGT 57.772 42.857 0.00 0.00 0.00 3.21
3915 5096 3.565307 ACATTGGGTGAACTGACATGTT 58.435 40.909 0.00 0.00 0.00 2.71
3916 5097 3.960102 ACATTGGGTGAACTGACATGTTT 59.040 39.130 0.00 0.00 0.00 2.83
3918 5099 5.596361 ACATTGGGTGAACTGACATGTTTAA 59.404 36.000 0.00 0.00 0.00 1.52
3919 5100 5.766150 TTGGGTGAACTGACATGTTTAAG 57.234 39.130 0.00 0.99 0.00 1.85
3920 5101 4.787551 TGGGTGAACTGACATGTTTAAGT 58.212 39.130 0.00 1.68 0.00 2.24
3921 5102 4.578516 TGGGTGAACTGACATGTTTAAGTG 59.421 41.667 0.00 0.00 0.00 3.16
3924 5105 6.261381 GGGTGAACTGACATGTTTAAGTGTTA 59.739 38.462 0.00 0.00 0.00 2.41
3925 5106 7.352739 GGTGAACTGACATGTTTAAGTGTTAG 58.647 38.462 0.00 7.50 37.79 2.34
3926 5107 7.225931 GGTGAACTGACATGTTTAAGTGTTAGA 59.774 37.037 0.00 0.00 36.01 2.10
3928 5109 9.990360 TGAACTGACATGTTTAAGTGTTAGATA 57.010 29.630 0.00 1.83 36.01 1.98
3930 5111 9.772973 AACTGACATGTTTAAGTGTTAGATACA 57.227 29.630 0.00 0.00 36.01 2.29
3931 5112 9.424319 ACTGACATGTTTAAGTGTTAGATACAG 57.576 33.333 0.00 0.00 37.45 2.74
3932 5113 9.639601 CTGACATGTTTAAGTGTTAGATACAGA 57.360 33.333 0.00 0.00 37.45 3.41
3943 5124 9.988815 AAGTGTTAGATACAGATATTCCATGAC 57.011 33.333 0.00 0.00 37.45 3.06
3944 5125 9.147732 AGTGTTAGATACAGATATTCCATGACA 57.852 33.333 0.00 0.00 37.45 3.58
3945 5126 9.764363 GTGTTAGATACAGATATTCCATGACAA 57.236 33.333 0.00 0.00 37.45 3.18
3947 5128 8.930760 GTTAGATACAGATATTCCATGACAAGC 58.069 37.037 0.00 0.00 0.00 4.01
3949 5130 7.743749 AGATACAGATATTCCATGACAAGCTT 58.256 34.615 0.00 0.00 0.00 3.74
3951 5132 8.757982 ATACAGATATTCCATGACAAGCTTTT 57.242 30.769 0.00 0.00 0.00 2.27
3953 5134 7.318141 ACAGATATTCCATGACAAGCTTTTTG 58.682 34.615 0.00 0.00 0.00 2.44
3954 5135 6.755141 CAGATATTCCATGACAAGCTTTTTGG 59.245 38.462 0.00 1.67 0.00 3.28
3955 5136 3.749665 TTCCATGACAAGCTTTTTGGG 57.250 42.857 0.00 0.00 0.00 4.12
3956 5137 2.956132 TCCATGACAAGCTTTTTGGGA 58.044 42.857 0.00 0.00 0.00 4.37
3967 5241 8.366359 ACAAGCTTTTTGGGACATATTTAGAT 57.634 30.769 0.00 0.00 39.30 1.98
4007 5286 7.854557 TCTCATCTGTTGATATCTTTGTTGG 57.145 36.000 3.98 0.00 32.72 3.77
4008 5287 6.317140 TCTCATCTGTTGATATCTTTGTTGGC 59.683 38.462 3.98 0.00 32.72 4.52
4037 5318 8.715191 ACAGTTTGAATTTTGTGCTTGAAATA 57.285 26.923 0.00 0.00 0.00 1.40
4068 5349 8.915654 CATAACAGGTAATCTTTTTGTTTGAGC 58.084 33.333 0.00 0.00 34.22 4.26
4107 5388 3.578716 CGAACATGTACCCCCTCTATCAT 59.421 47.826 0.00 0.00 0.00 2.45
4114 5395 9.351572 ACATGTACCCCCTCTATCATAAATTAT 57.648 33.333 0.00 0.00 0.00 1.28
4132 5413 2.675772 GACGTCCACTCTCCCCGT 60.676 66.667 3.51 0.00 0.00 5.28
4187 5468 3.070159 GCAATGTAGGCCACTGATCTAGA 59.930 47.826 5.01 0.00 0.00 2.43
4208 5489 4.405358 AGACCATGAGACTTCTTGATCTCC 59.595 45.833 0.00 0.00 40.64 3.71
4219 5500 1.565759 CTTGATCTCCCATTGACCCCA 59.434 52.381 0.00 0.00 0.00 4.96
4242 5523 3.714798 TCCAGGTAAGTGAGTTTCAAGGT 59.285 43.478 0.00 0.00 0.00 3.50
4243 5524 4.165372 TCCAGGTAAGTGAGTTTCAAGGTT 59.835 41.667 0.00 0.00 0.00 3.50
4354 5637 0.402121 GTCTTCCTGGAAAGCTGGGT 59.598 55.000 10.86 0.00 0.00 4.51
4368 5651 4.699522 GGGTGCGGCCTCGTCTTT 62.700 66.667 0.00 0.00 38.89 2.52
4372 5655 2.668550 GCGGCCTCGTCTTTGGTT 60.669 61.111 0.00 0.00 38.89 3.67
4395 5678 0.409484 AGGGCCACAAACCTGCTAAT 59.591 50.000 6.18 0.00 35.30 1.73
4411 5694 1.208535 CTAATTCAGGCCCACCGTGTA 59.791 52.381 0.00 0.00 42.76 2.90
4412 5695 0.035439 AATTCAGGCCCACCGTGTAG 60.035 55.000 0.00 0.00 42.76 2.74
4414 5697 1.541310 TTCAGGCCCACCGTGTAGAG 61.541 60.000 0.00 0.00 42.76 2.43
4415 5698 2.119832 AGGCCCACCGTGTAGAGT 59.880 61.111 0.00 0.00 42.76 3.24
4416 5699 1.535687 AGGCCCACCGTGTAGAGTT 60.536 57.895 0.00 0.00 42.76 3.01
4417 5700 1.125711 AGGCCCACCGTGTAGAGTTT 61.126 55.000 0.00 0.00 42.76 2.66
4418 5701 0.609662 GGCCCACCGTGTAGAGTTTA 59.390 55.000 0.00 0.00 0.00 2.01
4468 5753 1.060937 GTATACGTGCGTCGGTCGT 59.939 57.895 0.00 0.00 44.69 4.34
4504 5789 1.968540 GGAACGGCTGCTTGCTTCT 60.969 57.895 0.00 0.00 42.39 2.85
4515 5800 1.468520 GCTTGCTTCTATTGCGTTCCA 59.531 47.619 0.00 0.00 0.00 3.53
4516 5801 2.095263 GCTTGCTTCTATTGCGTTCCAA 60.095 45.455 0.00 0.00 37.94 3.53
4517 5802 3.751621 CTTGCTTCTATTGCGTTCCAAG 58.248 45.455 0.00 0.00 36.76 3.61
4518 5803 2.778299 TGCTTCTATTGCGTTCCAAGT 58.222 42.857 0.00 0.00 36.76 3.16
4519 5804 3.146066 TGCTTCTATTGCGTTCCAAGTT 58.854 40.909 0.00 0.00 36.76 2.66
4520 5805 3.188460 TGCTTCTATTGCGTTCCAAGTTC 59.812 43.478 0.00 0.00 36.76 3.01
4521 5806 3.426292 GCTTCTATTGCGTTCCAAGTTCC 60.426 47.826 0.00 0.00 36.76 3.62
4522 5807 3.410631 TCTATTGCGTTCCAAGTTCCA 57.589 42.857 0.00 0.00 36.76 3.53
4523 5808 3.745799 TCTATTGCGTTCCAAGTTCCAA 58.254 40.909 0.00 0.00 36.76 3.53
4524 5809 2.793278 ATTGCGTTCCAAGTTCCAAC 57.207 45.000 0.00 0.00 36.76 3.77
4525 5810 1.757682 TTGCGTTCCAAGTTCCAACT 58.242 45.000 0.00 0.00 42.04 3.16
4527 5812 1.673920 TGCGTTCCAAGTTCCAACTTC 59.326 47.619 1.52 0.00 45.65 3.01
4528 5813 1.001706 GCGTTCCAAGTTCCAACTTCC 60.002 52.381 1.52 0.00 45.65 3.46
4536 5821 3.662759 AGTTCCAACTTCCAACAGGAA 57.337 42.857 0.00 0.00 39.07 3.36
4551 5836 4.463050 ACAGGAACCCTCCATAAAACAA 57.537 40.909 0.00 0.00 45.24 2.83
4553 5838 4.105697 ACAGGAACCCTCCATAAAACAAGA 59.894 41.667 0.00 0.00 45.24 3.02
4557 5864 2.017049 CCCTCCATAAAACAAGAGCGG 58.983 52.381 0.00 0.00 0.00 5.52
4580 5887 3.371097 GACCGATCGAGCTTGCCCA 62.371 63.158 18.66 0.00 0.00 5.36
4581 5888 2.892425 CCGATCGAGCTTGCCCAC 60.892 66.667 18.66 0.00 0.00 4.61
4590 5897 3.052082 CTTGCCCACGGTGCTCTG 61.052 66.667 1.68 0.00 0.00 3.35
4591 5898 4.641645 TTGCCCACGGTGCTCTGG 62.642 66.667 1.68 0.00 0.00 3.86
4593 5900 4.767255 GCCCACGGTGCTCTGGAG 62.767 72.222 1.68 0.00 0.00 3.86
4594 5901 2.997315 CCCACGGTGCTCTGGAGA 60.997 66.667 1.68 0.00 0.00 3.71
4595 5902 2.362369 CCCACGGTGCTCTGGAGAT 61.362 63.158 1.68 0.00 0.00 2.75
4596 5903 1.043116 CCCACGGTGCTCTGGAGATA 61.043 60.000 1.68 0.00 0.00 1.98
4597 5904 0.824109 CCACGGTGCTCTGGAGATAA 59.176 55.000 1.68 0.00 0.00 1.75
4598 5905 1.207089 CCACGGTGCTCTGGAGATAAA 59.793 52.381 1.68 0.00 0.00 1.40
4599 5906 2.354704 CCACGGTGCTCTGGAGATAAAA 60.355 50.000 1.68 0.00 0.00 1.52
4600 5907 3.334691 CACGGTGCTCTGGAGATAAAAA 58.665 45.455 1.35 0.00 0.00 1.94
4601 5908 3.125316 CACGGTGCTCTGGAGATAAAAAC 59.875 47.826 1.35 0.00 0.00 2.43
4602 5909 2.348666 CGGTGCTCTGGAGATAAAAACG 59.651 50.000 1.35 0.00 0.00 3.60
4603 5910 3.596214 GGTGCTCTGGAGATAAAAACGA 58.404 45.455 1.35 0.00 0.00 3.85
4604 5911 3.619038 GGTGCTCTGGAGATAAAAACGAG 59.381 47.826 1.35 0.00 0.00 4.18
4605 5912 4.246458 GTGCTCTGGAGATAAAAACGAGT 58.754 43.478 1.35 0.00 0.00 4.18
4606 5913 4.092091 GTGCTCTGGAGATAAAAACGAGTG 59.908 45.833 1.35 0.00 0.00 3.51
4607 5914 3.619038 GCTCTGGAGATAAAAACGAGTGG 59.381 47.826 1.35 0.00 0.00 4.00
4608 5915 4.184629 CTCTGGAGATAAAAACGAGTGGG 58.815 47.826 0.00 0.00 0.00 4.61
4609 5916 3.055385 TCTGGAGATAAAAACGAGTGGGG 60.055 47.826 0.00 0.00 0.00 4.96
4610 5917 2.907696 TGGAGATAAAAACGAGTGGGGA 59.092 45.455 0.00 0.00 0.00 4.81
4611 5918 3.055385 TGGAGATAAAAACGAGTGGGGAG 60.055 47.826 0.00 0.00 0.00 4.30
4618 5925 1.533469 AACGAGTGGGGAGTCTTCGG 61.533 60.000 0.00 0.00 35.72 4.30
4624 5931 0.702902 TGGGGAGTCTTCGGTAGAGT 59.297 55.000 0.00 0.00 39.30 3.24
4628 5935 2.164017 GGGAGTCTTCGGTAGAGTTGAC 59.836 54.545 0.00 0.00 36.65 3.18
4629 5936 2.159544 GGAGTCTTCGGTAGAGTTGACG 60.160 54.545 0.00 0.00 36.65 4.35
4655 5980 0.537371 ACGAAGAAACCCAAGGCCAG 60.537 55.000 5.01 0.00 0.00 4.85
4663 5988 1.697297 CCCAAGGCCAGGGTAATGT 59.303 57.895 22.04 0.00 41.61 2.71
4668 5993 1.207791 AGGCCAGGGTAATGTCTGAG 58.792 55.000 5.01 0.00 33.11 3.35
4705 6030 2.565841 GGGCTGCGATGATAAGAAAGT 58.434 47.619 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.824224 GAGGGACCCCGTTCTCGTTT 61.824 60.000 7.00 0.00 41.95 3.60
48 49 2.599597 GGCCATGGAGGTGCAGAT 59.400 61.111 18.40 0.00 40.61 2.90
149 150 1.299014 CGCGCAACACCACAACAAT 60.299 52.632 8.75 0.00 0.00 2.71
171 172 3.437049 GCGATAAAGAGCACTGGAAAAGT 59.563 43.478 0.00 0.00 40.93 2.66
264 265 9.162764 GGTAAATCAGAAGCTAATGTGTTAGAA 57.837 33.333 0.00 0.00 39.77 2.10
266 267 8.607459 CAGGTAAATCAGAAGCTAATGTGTTAG 58.393 37.037 0.00 0.00 40.25 2.34
267 268 8.100791 ACAGGTAAATCAGAAGCTAATGTGTTA 58.899 33.333 0.00 0.00 0.00 2.41
268 269 6.942576 ACAGGTAAATCAGAAGCTAATGTGTT 59.057 34.615 0.00 0.00 0.00 3.32
269 270 6.476378 ACAGGTAAATCAGAAGCTAATGTGT 58.524 36.000 0.00 0.00 0.00 3.72
270 271 6.595326 TGACAGGTAAATCAGAAGCTAATGTG 59.405 38.462 0.00 0.00 0.00 3.21
271 272 6.711277 TGACAGGTAAATCAGAAGCTAATGT 58.289 36.000 0.00 0.00 0.00 2.71
272 273 7.615582 TTGACAGGTAAATCAGAAGCTAATG 57.384 36.000 0.00 0.00 0.00 1.90
273 274 9.905713 TTATTGACAGGTAAATCAGAAGCTAAT 57.094 29.630 0.00 0.00 0.00 1.73
281 282 8.773645 TCGCATTATTATTGACAGGTAAATCAG 58.226 33.333 0.00 0.00 0.00 2.90
371 372 9.912634 TTACCATCTGAATCAAATTTCACTTTC 57.087 29.630 0.00 0.00 32.39 2.62
392 393 8.644374 AAGCAATCACCTTAATTTACTTACCA 57.356 30.769 0.00 0.00 0.00 3.25
440 546 1.753903 TTCTTCCCATCACCCCTTCA 58.246 50.000 0.00 0.00 0.00 3.02
450 556 2.374170 ACGTAACCACCTTTCTTCCCAT 59.626 45.455 0.00 0.00 0.00 4.00
525 631 2.980541 CCCTCATGGCACCACAAAT 58.019 52.632 0.00 0.00 0.00 2.32
680 790 5.371115 TTGCAGCTTACAATTCAAGGTAC 57.629 39.130 0.00 0.00 32.68 3.34
818 934 7.502120 ACGCTCTTATATTAGTTTACGGAGA 57.498 36.000 0.00 0.00 0.00 3.71
820 936 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
1373 2221 1.602851 CTGAATCTGCTATGCCTGCAC 59.397 52.381 0.00 0.00 36.37 4.57
1396 2244 9.908152 CTTTAAAAGAACATAAGTTGGTTAGGG 57.092 33.333 0.00 0.00 38.30 3.53
1449 2336 5.445806 GCATTTCAAACGTGCTTTCAGTTTT 60.446 36.000 0.00 0.00 36.12 2.43
1513 2400 9.880157 GGTACAAAAGTTCAACCTATATCTGTA 57.120 33.333 0.00 0.00 0.00 2.74
1580 2487 9.167311 ACTTCCTTGATATGTCACTTAAACATC 57.833 33.333 0.00 0.00 38.31 3.06
1581 2488 9.167311 GACTTCCTTGATATGTCACTTAAACAT 57.833 33.333 0.00 0.00 40.37 2.71
1583 2490 8.547967 TGACTTCCTTGATATGTCACTTAAAC 57.452 34.615 0.00 0.00 33.45 2.01
1589 2496 5.934625 ACTGTTGACTTCCTTGATATGTCAC 59.065 40.000 0.00 0.00 37.38 3.67
1636 2543 2.419159 GGAAAATGGAGAGCATTTGGCC 60.419 50.000 0.00 0.00 46.50 5.36
1703 2610 5.587388 TTATTTACGGACTAGGTCAGTGG 57.413 43.478 12.24 0.00 40.72 4.00
2056 2968 6.086011 TCTGGATTTTTAATAAGAGGGCCA 57.914 37.500 6.18 0.00 0.00 5.36
2478 3391 1.011333 CGTCTTTGTTTGGGACGTGT 58.989 50.000 0.00 0.00 44.93 4.49
2793 3732 8.310122 ACCATCCTGAAAATGTTTAGCATATT 57.690 30.769 0.00 0.00 36.67 1.28
2816 3755 0.176910 GACTCTGCTGCCCTCTTACC 59.823 60.000 0.00 0.00 0.00 2.85
2848 3787 5.481105 AGCTTCTCTCTTGTGAGATCAAAG 58.519 41.667 0.00 0.00 46.93 2.77
3053 4064 0.179220 GGTCACTTCGAGTCGAGTCG 60.179 60.000 31.83 31.83 41.51 4.18
3054 4065 1.135916 CAGGTCACTTCGAGTCGAGTC 60.136 57.143 15.88 10.37 37.14 3.36
3055 4066 0.875728 CAGGTCACTTCGAGTCGAGT 59.124 55.000 15.88 12.79 37.14 4.18
3056 4067 0.169230 CCAGGTCACTTCGAGTCGAG 59.831 60.000 15.88 12.16 37.14 4.04
3057 4068 0.250597 TCCAGGTCACTTCGAGTCGA 60.251 55.000 12.09 12.09 0.00 4.20
3058 4069 0.811915 ATCCAGGTCACTTCGAGTCG 59.188 55.000 6.09 6.09 0.00 4.18
3059 4070 1.546476 ACATCCAGGTCACTTCGAGTC 59.454 52.381 0.00 0.00 0.00 3.36
3060 4071 1.273606 CACATCCAGGTCACTTCGAGT 59.726 52.381 0.00 0.00 0.00 4.18
3528 4709 3.940209 TGGAACAAATGCTAAGGCAAG 57.060 42.857 0.00 0.00 44.80 4.01
3768 4949 3.181503 GCTCGTACCATCAGTAACGAGAA 60.182 47.826 23.32 0.00 45.38 2.87
3794 4975 4.572571 TGCCCGGTTGGACCACAC 62.573 66.667 0.00 0.00 38.47 3.82
3795 4976 4.263572 CTGCCCGGTTGGACCACA 62.264 66.667 0.00 0.00 38.47 4.17
3858 5039 3.587061 TGCCATCTCCTTCTCTTAAACCA 59.413 43.478 0.00 0.00 0.00 3.67
3862 5043 5.721960 ACTAACTGCCATCTCCTTCTCTTAA 59.278 40.000 0.00 0.00 0.00 1.85
3877 5058 3.611766 ATGTAGGACACACTAACTGCC 57.388 47.619 0.00 0.00 40.86 4.85
3895 5076 4.589216 AAACATGTCAGTTCACCCAATG 57.411 40.909 0.00 0.00 0.00 2.82
3897 5078 5.067153 CACTTAAACATGTCAGTTCACCCAA 59.933 40.000 0.00 0.00 0.00 4.12
3904 5085 9.772973 TGTATCTAACACTTAAACATGTCAGTT 57.227 29.630 0.00 1.17 31.43 3.16
3905 5086 9.424319 CTGTATCTAACACTTAAACATGTCAGT 57.576 33.333 0.00 0.00 33.45 3.41
3918 5099 9.147732 TGTCATGGAATATCTGTATCTAACACT 57.852 33.333 0.00 0.00 33.45 3.55
3919 5100 9.764363 TTGTCATGGAATATCTGTATCTAACAC 57.236 33.333 0.00 0.00 33.45 3.32
3920 5101 9.987272 CTTGTCATGGAATATCTGTATCTAACA 57.013 33.333 0.00 0.00 36.42 2.41
3921 5102 8.930760 GCTTGTCATGGAATATCTGTATCTAAC 58.069 37.037 0.00 0.00 0.00 2.34
3924 5105 7.313740 AGCTTGTCATGGAATATCTGTATCT 57.686 36.000 0.00 0.00 0.00 1.98
3925 5106 7.976135 AAGCTTGTCATGGAATATCTGTATC 57.024 36.000 0.00 0.00 0.00 2.24
3926 5107 8.757982 AAAAGCTTGTCATGGAATATCTGTAT 57.242 30.769 0.00 0.00 0.00 2.29
3928 5109 7.318141 CAAAAAGCTTGTCATGGAATATCTGT 58.682 34.615 0.00 0.00 0.00 3.41
3929 5110 6.755141 CCAAAAAGCTTGTCATGGAATATCTG 59.245 38.462 0.00 0.00 0.00 2.90
3930 5111 6.127253 CCCAAAAAGCTTGTCATGGAATATCT 60.127 38.462 17.12 0.00 0.00 1.98
3931 5112 6.044682 CCCAAAAAGCTTGTCATGGAATATC 58.955 40.000 17.12 0.00 0.00 1.63
3932 5113 5.721000 TCCCAAAAAGCTTGTCATGGAATAT 59.279 36.000 17.12 0.00 0.00 1.28
3934 5115 3.903090 TCCCAAAAAGCTTGTCATGGAAT 59.097 39.130 17.12 0.00 0.00 3.01
3935 5116 3.069443 GTCCCAAAAAGCTTGTCATGGAA 59.931 43.478 17.12 0.00 0.00 3.53
3938 5119 3.731652 TGTCCCAAAAAGCTTGTCATG 57.268 42.857 0.00 0.00 0.00 3.07
3940 5121 6.418057 AAATATGTCCCAAAAAGCTTGTCA 57.582 33.333 0.00 0.00 0.00 3.58
3941 5122 7.826690 TCTAAATATGTCCCAAAAAGCTTGTC 58.173 34.615 0.00 0.00 0.00 3.18
3942 5123 7.775053 TCTAAATATGTCCCAAAAAGCTTGT 57.225 32.000 0.00 0.00 0.00 3.16
3945 5126 9.700831 AGTTATCTAAATATGTCCCAAAAAGCT 57.299 29.630 0.00 0.00 0.00 3.74
3983 5257 6.317140 GCCAACAAAGATATCAACAGATGAGA 59.683 38.462 5.32 0.00 42.53 3.27
4041 5322 9.965824 CTCAAACAAAAAGATTACCTGTTATGT 57.034 29.630 0.00 0.00 30.30 2.29
4055 5336 4.041723 CCTACCAACGCTCAAACAAAAAG 58.958 43.478 0.00 0.00 0.00 2.27
4090 5371 9.574577 TCATAATTTATGATAGAGGGGGTACAT 57.425 33.333 13.83 0.00 40.09 2.29
4091 5372 8.822805 GTCATAATTTATGATAGAGGGGGTACA 58.177 37.037 19.30 0.00 45.96 2.90
4107 5388 4.100498 GGGGAGAGTGGACGTCATAATTTA 59.900 45.833 18.91 0.00 0.00 1.40
4114 5395 2.128290 TACGGGGAGAGTGGACGTCA 62.128 60.000 18.91 0.27 38.79 4.35
4132 5413 2.504175 GCACTGGTTTACCATCTCCCTA 59.496 50.000 1.37 0.00 46.46 3.53
4187 5468 3.454082 GGGAGATCAAGAAGTCTCATGGT 59.546 47.826 0.00 0.00 42.04 3.55
4208 5489 1.221635 TACCTGGATGGGGTCAATGG 58.778 55.000 0.00 0.00 41.11 3.16
4219 5500 4.351111 ACCTTGAAACTCACTTACCTGGAT 59.649 41.667 0.00 0.00 0.00 3.41
4354 5637 2.102109 TAACCAAAGACGAGGCCGCA 62.102 55.000 7.44 0.00 39.95 5.69
4360 5643 3.203716 GGCCCTAATAACCAAAGACGAG 58.796 50.000 0.00 0.00 0.00 4.18
4368 5651 2.380590 AGGTTTGTGGCCCTAATAACCA 59.619 45.455 18.61 0.00 37.95 3.67
4372 5655 1.638589 AGCAGGTTTGTGGCCCTAATA 59.361 47.619 0.00 0.00 0.00 0.98
4395 5678 1.534476 TCTACACGGTGGGCCTGAA 60.534 57.895 13.48 0.00 0.00 3.02
4411 5694 6.497606 GGGCCTGGATTACTACTATAAACTCT 59.502 42.308 0.84 0.00 0.00 3.24
4412 5695 6.269307 TGGGCCTGGATTACTACTATAAACTC 59.731 42.308 4.53 0.00 0.00 3.01
4414 5697 6.429521 TGGGCCTGGATTACTACTATAAAC 57.570 41.667 4.53 0.00 0.00 2.01
4415 5698 7.642094 ATTGGGCCTGGATTACTACTATAAA 57.358 36.000 4.53 0.00 0.00 1.40
4416 5699 8.745149 TTATTGGGCCTGGATTACTACTATAA 57.255 34.615 4.53 0.00 0.00 0.98
4417 5700 7.093024 GCTTATTGGGCCTGGATTACTACTATA 60.093 40.741 4.53 0.00 0.00 1.31
4418 5701 6.296489 GCTTATTGGGCCTGGATTACTACTAT 60.296 42.308 4.53 0.00 0.00 2.12
4468 5753 1.001520 TCCCGATTCAAACTCGAGCAA 59.998 47.619 13.61 0.45 38.38 3.91
4504 5789 3.482436 AGTTGGAACTTGGAACGCAATA 58.518 40.909 0.00 0.00 35.21 1.90
4516 5801 3.662759 TTCCTGTTGGAAGTTGGAACT 57.337 42.857 0.00 0.00 46.57 3.01
4526 5811 2.352561 TATGGAGGGTTCCTGTTGGA 57.647 50.000 0.00 0.00 44.36 3.53
4527 5812 3.449746 TTTATGGAGGGTTCCTGTTGG 57.550 47.619 0.00 0.00 44.36 3.77
4528 5813 4.148838 TGTTTTATGGAGGGTTCCTGTTG 58.851 43.478 0.00 0.00 44.36 3.33
4536 5821 2.618045 CCGCTCTTGTTTTATGGAGGGT 60.618 50.000 0.00 0.00 37.15 4.34
4580 5887 3.335579 GTTTTTATCTCCAGAGCACCGT 58.664 45.455 0.00 0.00 0.00 4.83
4581 5888 2.348666 CGTTTTTATCTCCAGAGCACCG 59.651 50.000 0.00 0.00 0.00 4.94
4586 5893 4.184629 CCCACTCGTTTTTATCTCCAGAG 58.815 47.826 0.00 0.00 0.00 3.35
4587 5894 3.055385 CCCCACTCGTTTTTATCTCCAGA 60.055 47.826 0.00 0.00 0.00 3.86
4588 5895 3.055385 TCCCCACTCGTTTTTATCTCCAG 60.055 47.826 0.00 0.00 0.00 3.86
4589 5896 2.907696 TCCCCACTCGTTTTTATCTCCA 59.092 45.455 0.00 0.00 0.00 3.86
4590 5897 3.055312 ACTCCCCACTCGTTTTTATCTCC 60.055 47.826 0.00 0.00 0.00 3.71
4591 5898 4.081586 AGACTCCCCACTCGTTTTTATCTC 60.082 45.833 0.00 0.00 0.00 2.75
4592 5899 3.838903 AGACTCCCCACTCGTTTTTATCT 59.161 43.478 0.00 0.00 0.00 1.98
4593 5900 4.203654 AGACTCCCCACTCGTTTTTATC 57.796 45.455 0.00 0.00 0.00 1.75
4594 5901 4.576879 GAAGACTCCCCACTCGTTTTTAT 58.423 43.478 0.00 0.00 0.00 1.40
4595 5902 3.553508 CGAAGACTCCCCACTCGTTTTTA 60.554 47.826 0.00 0.00 0.00 1.52
4596 5903 2.805657 CGAAGACTCCCCACTCGTTTTT 60.806 50.000 0.00 0.00 0.00 1.94
4597 5904 1.270147 CGAAGACTCCCCACTCGTTTT 60.270 52.381 0.00 0.00 0.00 2.43
4598 5905 0.317479 CGAAGACTCCCCACTCGTTT 59.683 55.000 0.00 0.00 0.00 3.60
4599 5906 1.533469 CCGAAGACTCCCCACTCGTT 61.533 60.000 0.00 0.00 0.00 3.85
4600 5907 1.977544 CCGAAGACTCCCCACTCGT 60.978 63.158 0.00 0.00 0.00 4.18
4601 5908 0.679002 TACCGAAGACTCCCCACTCG 60.679 60.000 0.00 0.00 0.00 4.18
4602 5909 1.104630 CTACCGAAGACTCCCCACTC 58.895 60.000 0.00 0.00 0.00 3.51
4603 5910 0.702902 TCTACCGAAGACTCCCCACT 59.297 55.000 0.00 0.00 0.00 4.00
4604 5911 1.104630 CTCTACCGAAGACTCCCCAC 58.895 60.000 0.00 0.00 0.00 4.61
4605 5912 0.702902 ACTCTACCGAAGACTCCCCA 59.297 55.000 0.00 0.00 0.00 4.96
4606 5913 1.477295 CAACTCTACCGAAGACTCCCC 59.523 57.143 0.00 0.00 0.00 4.81
4607 5914 2.164017 GTCAACTCTACCGAAGACTCCC 59.836 54.545 0.00 0.00 0.00 4.30
4608 5915 2.159544 CGTCAACTCTACCGAAGACTCC 60.160 54.545 0.00 0.00 0.00 3.85
4609 5916 2.159544 CCGTCAACTCTACCGAAGACTC 60.160 54.545 0.00 0.00 0.00 3.36
4610 5917 1.811359 CCGTCAACTCTACCGAAGACT 59.189 52.381 0.00 0.00 0.00 3.24
4611 5918 1.731750 GCCGTCAACTCTACCGAAGAC 60.732 57.143 0.00 0.00 0.00 3.01
4618 5925 0.525029 GTAGCCGCCGTCAACTCTAC 60.525 60.000 0.00 0.00 0.00 2.59
4624 5931 2.126228 CTTCGTAGCCGCCGTCAA 60.126 61.111 0.00 0.00 0.00 3.18
4628 5935 2.450345 GGTTTCTTCGTAGCCGCCG 61.450 63.158 0.00 0.00 0.00 6.46
4629 5936 2.104859 GGGTTTCTTCGTAGCCGCC 61.105 63.158 0.00 0.00 0.00 6.13
4655 5980 4.262808 CCATCCTCATCTCAGACATTACCC 60.263 50.000 0.00 0.00 0.00 3.69
4661 5986 1.761198 CAGCCATCCTCATCTCAGACA 59.239 52.381 0.00 0.00 0.00 3.41
4663 5988 2.466547 TCAGCCATCCTCATCTCAGA 57.533 50.000 0.00 0.00 0.00 3.27
4668 5993 0.110104 CCCCTTCAGCCATCCTCATC 59.890 60.000 0.00 0.00 0.00 2.92
4705 6030 0.889186 GCCCTTTCTTCAGGCGTCAA 60.889 55.000 0.00 0.00 36.84 3.18


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

AutoCloner maintained by Alex Coulton.