Multiple sequence alignment - TraesCS5D01G207800

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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 TraesCS5D01G207800 chr5D 100.000 6133 0 0 1 6133 313843729 313837597 0.000000e+00 11326.0
1 TraesCS5D01G207800 chr5D 94.444 72 4 0 4532 4603 313839166 313839095 1.810000e-20 111.0
2 TraesCS5D01G207800 chr5D 94.444 72 4 0 4564 4635 313839198 313839127 1.810000e-20 111.0
3 TraesCS5D01G207800 chr5D 95.000 40 2 0 4596 4635 313839198 313839159 5.130000e-06 63.9
4 TraesCS5D01G207800 chr5B 94.155 3336 144 28 2208 5524 361541483 361538180 0.000000e+00 5033.0
5 TraesCS5D01G207800 chr5B 91.371 1437 76 14 741 2138 361542923 361541496 0.000000e+00 1923.0
6 TraesCS5D01G207800 chr5B 86.920 237 17 5 5524 5754 361521924 361521696 2.840000e-63 254.0
7 TraesCS5D01G207800 chr5B 92.617 149 8 2 5986 6133 361505660 361505514 1.730000e-50 211.0
8 TraesCS5D01G207800 chr5B 89.189 148 13 3 5842 5988 44454499 44454354 1.360000e-41 182.0
9 TraesCS5D01G207800 chr5B 90.741 108 4 3 5757 5864 361505758 361505657 8.290000e-29 139.0
10 TraesCS5D01G207800 chr5B 91.667 72 5 1 4532 4603 361539135 361539065 1.410000e-16 99.0
11 TraesCS5D01G207800 chr5A 98.256 2638 35 8 717 3350 407940446 407937816 0.000000e+00 4606.0
12 TraesCS5D01G207800 chr5A 95.918 2499 81 11 3359 5848 407937577 407935091 0.000000e+00 4030.0
13 TraesCS5D01G207800 chr5A 94.840 717 31 2 1 711 407941133 407940417 0.000000e+00 1114.0
14 TraesCS5D01G207800 chr5A 93.130 131 9 0 5861 5991 560578152 560578022 6.270000e-45 193.0
15 TraesCS5D01G207800 chr5A 91.919 99 8 0 6033 6131 407933787 407933689 8.290000e-29 139.0
16 TraesCS5D01G207800 chr5A 88.750 80 5 3 4947 5022 407786928 407786849 1.820000e-15 95.3
17 TraesCS5D01G207800 chr5A 97.500 40 1 0 4596 4635 407936400 407936361 1.100000e-07 69.4
18 TraesCS5D01G207800 chr2A 91.667 252 18 2 4611 4862 23543615 23543863 4.550000e-91 346.0
19 TraesCS5D01G207800 chr3A 91.837 245 16 2 4621 4862 730973113 730973356 7.610000e-89 339.0
20 TraesCS5D01G207800 chr3A 92.029 138 11 0 5856 5993 736073168 736073305 1.740000e-45 195.0
21 TraesCS5D01G207800 chr3D 91.770 243 17 3 4621 4862 564547513 564547273 9.850000e-88 335.0
22 TraesCS5D01G207800 chr3D 89.593 221 21 2 4352 4571 564547738 564547519 4.680000e-71 279.0
23 TraesCS5D01G207800 chr2B 89.552 268 23 5 4596 4862 42574885 42575148 9.850000e-88 335.0
24 TraesCS5D01G207800 chr6B 91.429 245 17 2 4621 4862 565752595 565752838 3.540000e-87 333.0
25 TraesCS5D01G207800 chr6B 88.235 221 24 2 4352 4571 565752370 565752589 4.710000e-66 263.0
26 TraesCS5D01G207800 chr4B 88.764 267 26 3 4596 4862 144304798 144305060 2.130000e-84 324.0
27 TraesCS5D01G207800 chr4B 86.026 229 29 3 4344 4571 144304611 144304837 6.140000e-60 243.0
28 TraesCS5D01G207800 chr7A 89.683 252 22 2 4611 4862 713193047 713193294 9.920000e-83 318.0
29 TraesCS5D01G207800 chrUn 90.090 222 18 4 4352 4571 313522583 313522802 1.010000e-72 285.0
30 TraesCS5D01G207800 chrUn 90.090 222 18 4 4352 4571 324875406 324875625 1.010000e-72 285.0
31 TraesCS5D01G207800 chrUn 89.686 223 17 6 4352 4571 1286401 1286620 4.680000e-71 279.0
32 TraesCS5D01G207800 chr4A 90.521 211 18 2 4352 4561 276800106 276799897 1.680000e-70 278.0
33 TraesCS5D01G207800 chr4A 93.182 132 9 0 5860 5991 734470525 734470656 1.740000e-45 195.0
34 TraesCS5D01G207800 chr4A 82.270 141 22 3 5397 5536 38577783 38577645 1.080000e-22 119.0
35 TraesCS5D01G207800 chr4D 93.007 143 10 0 5854 5996 23352591 23352733 6.230000e-50 209.0
36 TraesCS5D01G207800 chr1B 93.798 129 8 0 5861 5989 203424185 203424313 1.740000e-45 195.0
37 TraesCS5D01G207800 chr1B 92.481 133 10 0 5858 5990 409879806 409879938 2.260000e-44 191.0
38 TraesCS5D01G207800 chr1B 91.304 138 11 1 5861 5998 616902642 616902506 2.920000e-43 187.0
39 TraesCS5D01G207800 chr7B 93.130 131 9 0 5857 5987 48470293 48470423 6.270000e-45 193.0


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 TraesCS5D01G207800 chr5D 313837597 313843729 6132 True 11326.000000 11326 100.000000 1 6133 1 chr5D.!!$R1 6132
1 TraesCS5D01G207800 chr5B 361538180 361542923 4743 True 2351.666667 5033 92.397667 741 5524 3 chr5B.!!$R4 4783
2 TraesCS5D01G207800 chr5A 407933689 407941133 7444 True 1991.680000 4606 95.686600 1 6131 5 chr5A.!!$R3 6130

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
682 689 0.033504 ACCGTCATGTGTGGACAGAC 59.966 55.000 7.47 0.0 34.87 3.51 F
692 699 0.036858 GTGGACAGACTCTCTTGGGC 60.037 60.000 0.00 0.0 0.00 5.36 F
694 701 0.036858 GGACAGACTCTCTTGGGCAC 60.037 60.000 0.00 0.0 0.00 5.01 F
713 720 0.537371 CCCACCCTCCAAGTTGTGAC 60.537 60.000 1.45 0.0 0.00 3.67 F
852 859 0.732880 CGATTTCTCGCACTGGACGT 60.733 55.000 0.00 0.0 38.20 4.34 F
1495 1506 1.345741 CTGAGAAGGTGAGCTGGTTGA 59.654 52.381 0.00 0.0 0.00 3.18 F
1930 1978 1.492720 GAGCATCTAAGCACCTACGC 58.507 55.000 0.00 0.0 36.85 4.42 F
3743 4032 1.467342 GTTAATCTGGGCGTGTCAACC 59.533 52.381 0.00 0.0 0.00 3.77 F
4374 4670 1.181786 TTCCCGTGGCCATTTTGATC 58.818 50.000 9.72 0.0 0.00 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2348 2397 1.267732 GGAAAGCGACAAGATGCATCG 60.268 52.381 20.67 11.58 38.87 3.84 R
2644 2694 2.027561 AGCATCAAGTGTTAGCCCGTTA 60.028 45.455 0.00 0.00 0.00 3.18 R
2648 2698 2.113860 TGAGCATCAAGTGTTAGCCC 57.886 50.000 0.00 0.00 45.97 5.19 R
2786 2836 6.869315 TGTATTGATAGAGAAGAGAGACCG 57.131 41.667 0.00 0.00 0.00 4.79 R
2849 2899 4.096231 CCTGTGCCGTCATGAATAATCAAA 59.904 41.667 0.00 0.00 39.49 2.69 R
3565 3853 5.337554 TGTCGTCTATAATTTCCAGTCACG 58.662 41.667 0.00 0.00 0.00 4.35 R
3790 4079 4.280929 ACTGTAGATTTCCCAACCTTTTGC 59.719 41.667 0.00 0.00 0.00 3.68 R
5117 5413 0.320946 CGAACTAAACGGGCTTCCCA 60.321 55.000 2.47 0.00 45.83 4.37 R
6045 7485 0.251253 TGCCAAGGATGACATGCACA 60.251 50.000 9.80 0.00 0.00 4.57 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
39 41 2.799126 TTGGTGCGTAATCCTCCATT 57.201 45.000 0.00 0.00 0.00 3.16
126 128 6.924913 TCATGGATATTAGAGAGGAACCTG 57.075 41.667 0.00 0.00 0.00 4.00
148 150 2.574006 TCTGCCAAGATCTTTGCACT 57.426 45.000 25.76 0.00 36.48 4.40
225 227 4.744867 GCTTTTGCCTGCCTATATGAGAGA 60.745 45.833 0.00 0.00 40.15 3.10
258 260 2.192608 CTTGGTGCTTGCTCGCCTTC 62.193 60.000 5.62 0.00 37.51 3.46
259 261 3.793144 GGTGCTTGCTCGCCTTCG 61.793 66.667 0.00 0.00 33.93 3.79
293 295 3.282885 GCTTCTTCCCGATCCTGATTTT 58.717 45.455 0.00 0.00 0.00 1.82
308 310 5.829924 TCCTGATTTTGTTCTTCTCAGCTTT 59.170 36.000 0.00 0.00 33.58 3.51
314 316 5.490139 TTGTTCTTCTCAGCTTTTGACAG 57.510 39.130 0.00 0.00 0.00 3.51
316 318 2.498167 TCTTCTCAGCTTTTGACAGCC 58.502 47.619 0.00 0.00 41.12 4.85
320 322 1.081641 CAGCTTTTGACAGCCGCAG 60.082 57.895 0.00 0.00 41.12 5.18
450 452 4.566987 CCTCCCTACAAGAACTAACACAC 58.433 47.826 0.00 0.00 0.00 3.82
464 466 0.463116 ACACACCACGAAACTCCCAC 60.463 55.000 0.00 0.00 0.00 4.61
476 478 3.391665 CTCCCACGCCACAGATCCC 62.392 68.421 0.00 0.00 0.00 3.85
498 500 1.824230 CTCTCAGGTTCTCCCTCACAG 59.176 57.143 0.00 0.00 43.86 3.66
558 560 2.659897 CTGCGCCGCTACCAGATC 60.660 66.667 11.67 0.00 0.00 2.75
561 563 2.050895 CGCCGCTACCAGATCGAG 60.051 66.667 0.00 0.00 0.00 4.04
587 589 6.839124 ATCATGCACTCTTTTGTGGATTTA 57.161 33.333 0.00 0.00 44.56 1.40
591 593 8.149647 TCATGCACTCTTTTGTGGATTTAAAAT 58.850 29.630 0.00 0.00 44.56 1.82
654 661 2.383527 CCACGAAGTCGCCAGAAGC 61.384 63.158 0.00 0.00 41.61 3.86
680 687 1.531149 GAAACCGTCATGTGTGGACAG 59.469 52.381 7.47 0.00 34.87 3.51
681 688 0.756294 AACCGTCATGTGTGGACAGA 59.244 50.000 7.47 0.00 34.87 3.41
682 689 0.033504 ACCGTCATGTGTGGACAGAC 59.966 55.000 7.47 0.00 34.87 3.51
683 690 0.318441 CCGTCATGTGTGGACAGACT 59.682 55.000 1.25 0.00 34.87 3.24
684 691 1.670087 CCGTCATGTGTGGACAGACTC 60.670 57.143 1.25 0.00 34.87 3.36
685 692 1.270826 CGTCATGTGTGGACAGACTCT 59.729 52.381 1.25 0.00 34.87 3.24
686 693 2.669670 CGTCATGTGTGGACAGACTCTC 60.670 54.545 1.25 0.00 34.87 3.20
687 694 2.560542 GTCATGTGTGGACAGACTCTCT 59.439 50.000 1.25 0.00 34.87 3.10
688 695 3.006323 GTCATGTGTGGACAGACTCTCTT 59.994 47.826 1.25 0.00 34.87 2.85
689 696 3.006217 TCATGTGTGGACAGACTCTCTTG 59.994 47.826 1.25 0.00 34.87 3.02
690 697 1.688735 TGTGTGGACAGACTCTCTTGG 59.311 52.381 1.25 0.00 0.00 3.61
691 698 1.001406 GTGTGGACAGACTCTCTTGGG 59.999 57.143 0.00 0.00 0.00 4.12
692 699 0.036858 GTGGACAGACTCTCTTGGGC 60.037 60.000 0.00 0.00 0.00 5.36
693 700 0.471780 TGGACAGACTCTCTTGGGCA 60.472 55.000 0.00 0.00 0.00 5.36
694 701 0.036858 GGACAGACTCTCTTGGGCAC 60.037 60.000 0.00 0.00 0.00 5.01
707 714 3.580319 GGCACCCACCCTCCAAGT 61.580 66.667 0.00 0.00 0.00 3.16
708 715 2.520968 GCACCCACCCTCCAAGTT 59.479 61.111 0.00 0.00 0.00 2.66
709 716 1.903404 GCACCCACCCTCCAAGTTG 60.903 63.158 0.00 0.00 0.00 3.16
710 717 1.536676 CACCCACCCTCCAAGTTGT 59.463 57.895 1.45 0.00 0.00 3.32
711 718 0.823356 CACCCACCCTCCAAGTTGTG 60.823 60.000 1.45 0.00 0.00 3.33
712 719 0.991355 ACCCACCCTCCAAGTTGTGA 60.991 55.000 1.45 0.00 0.00 3.58
713 720 0.537371 CCCACCCTCCAAGTTGTGAC 60.537 60.000 1.45 0.00 0.00 3.67
714 721 0.884704 CCACCCTCCAAGTTGTGACG 60.885 60.000 1.45 0.00 0.00 4.35
715 722 0.884704 CACCCTCCAAGTTGTGACGG 60.885 60.000 1.45 5.26 0.00 4.79
852 859 0.732880 CGATTTCTCGCACTGGACGT 60.733 55.000 0.00 0.00 38.20 4.34
853 860 1.429463 GATTTCTCGCACTGGACGTT 58.571 50.000 0.00 0.00 0.00 3.99
898 905 4.331968 CTTGCATAAACCAGAACTACCCA 58.668 43.478 0.00 0.00 0.00 4.51
1495 1506 1.345741 CTGAGAAGGTGAGCTGGTTGA 59.654 52.381 0.00 0.00 0.00 3.18
1709 1725 6.430000 TCTTGGATGGTAAAAAGAACTAGCAC 59.570 38.462 0.00 0.00 0.00 4.40
1897 1945 8.078596 GTGCTTAAGAATATAATTGGCTCTTGG 58.921 37.037 6.67 0.00 0.00 3.61
1930 1978 1.492720 GAGCATCTAAGCACCTACGC 58.507 55.000 0.00 0.00 36.85 4.42
2169 2218 4.393062 CACTTTGGTCGCTCTTGTCAATAT 59.607 41.667 0.00 0.00 0.00 1.28
2181 2230 7.205297 GCTCTTGTCAATATTGGTGCATTATT 58.795 34.615 15.36 0.00 0.00 1.40
2348 2397 7.221452 CCAAACATGCAGCAATTATACTTCTTC 59.779 37.037 0.00 0.00 0.00 2.87
2374 2423 4.277174 TGCATCTTGTCGCTTTCCTTTTTA 59.723 37.500 0.00 0.00 0.00 1.52
2849 2899 9.085645 ACATGCATGTTGATCCAATAATAATCT 57.914 29.630 26.61 0.00 37.90 2.40
3031 3081 4.891992 ACGGTGAGGCTGCTAATATATT 57.108 40.909 2.97 2.97 0.00 1.28
3565 3853 4.884164 AGCAAGATCTACTAACATTTGGGC 59.116 41.667 0.00 0.00 0.00 5.36
3592 3881 7.544566 GTGACTGGAAATTATAGACGACAAAGA 59.455 37.037 0.00 0.00 0.00 2.52
3607 3896 4.563184 CGACAAAGAGGAATACTGTAGCAC 59.437 45.833 0.00 0.00 0.00 4.40
3743 4032 1.467342 GTTAATCTGGGCGTGTCAACC 59.533 52.381 0.00 0.00 0.00 3.77
3821 4110 8.871125 AGGTTGGGAAATCTACAGTACATATAG 58.129 37.037 0.00 0.00 0.00 1.31
4001 4291 7.164122 TCATCAATGATAAGGCTTAGTCCATC 58.836 38.462 13.15 6.56 0.00 3.51
4026 4316 3.331150 TGAATTGCTTCCGTAATCGTGT 58.669 40.909 0.00 0.00 35.01 4.49
4072 4362 3.381590 ACCTCTGAGAAAACAAGCCAAAC 59.618 43.478 6.17 0.00 0.00 2.93
4076 4366 4.578928 TCTGAGAAAACAAGCCAAACTACC 59.421 41.667 0.00 0.00 0.00 3.18
4108 4398 2.430546 TTGCTTTTATTGCCGTGTGG 57.569 45.000 0.00 0.00 38.77 4.17
4362 4658 3.611766 ACTACTTGGAGATTTCCCGTG 57.388 47.619 0.00 0.00 43.33 4.94
4363 4659 2.236395 ACTACTTGGAGATTTCCCGTGG 59.764 50.000 0.00 2.22 43.33 4.94
4374 4670 1.181786 TTCCCGTGGCCATTTTGATC 58.818 50.000 9.72 0.00 0.00 2.92
4521 4817 2.879026 GCTGAAAAAGTTTCGACCCTCT 59.121 45.455 0.00 0.00 0.00 3.69
4917 5213 2.158755 GGATGTGGATGAGGTACTTGGG 60.159 54.545 0.00 0.00 41.55 4.12
4923 5219 1.409427 GATGAGGTACTTGGGGAGTCG 59.591 57.143 0.00 0.00 41.55 4.18
4934 5230 3.536956 TGGGGAGTCGAACATATTGTC 57.463 47.619 0.00 0.00 0.00 3.18
5117 5413 2.450886 AGACCCCTTCCCAAAGTTGAAT 59.549 45.455 0.00 0.00 0.00 2.57
5137 5433 1.642037 GGGAAGCCCGTTTAGTTCGC 61.642 60.000 0.00 0.00 32.13 4.70
5169 5465 5.760253 CCTCATAAGCTTGTACACCTAATGG 59.240 44.000 9.86 0.00 39.83 3.16
5436 5734 5.049680 TCTGTCGGTTCAGATTTTTACTTGC 60.050 40.000 2.74 0.00 39.20 4.01
5467 5765 3.009723 AGTTCATCGGTTCATTTGCGAT 58.990 40.909 0.00 0.00 0.00 4.58
5560 5861 7.842887 AGGACTAGAACTTCAAGAGTAAACT 57.157 36.000 0.00 0.00 37.72 2.66
5616 5917 7.228108 ACAATATAAGAGTTGCCATCATCACAG 59.772 37.037 0.00 0.00 0.00 3.66
5628 5929 2.910199 TCATCACAGTCTTGCATAGGC 58.090 47.619 0.00 0.00 41.68 3.93
5639 5940 1.882912 TGCATAGGCGACATTGATCC 58.117 50.000 0.00 0.00 45.35 3.36
5672 5973 9.364989 TGCAAATTTATTTGTGCTAGTAAATCC 57.635 29.630 14.66 0.00 46.63 3.01
5673 5974 9.364989 GCAAATTTATTTGTGCTAGTAAATCCA 57.635 29.630 14.66 0.00 46.63 3.41
5677 5978 8.958175 TTTATTTGTGCTAGTAAATCCAAACG 57.042 30.769 5.44 0.00 0.00 3.60
5751 6053 2.754946 TACTTCTGTGGCGTTAAGGG 57.245 50.000 0.00 0.00 0.00 3.95
5770 6072 9.297037 GTTAAGGGTATGGAATATGCAATTACT 57.703 33.333 0.00 0.00 0.00 2.24
5848 6150 3.136763 TGAAGAAGCAAGCTCAACTCAG 58.863 45.455 0.00 0.00 0.00 3.35
5849 6151 3.181462 TGAAGAAGCAAGCTCAACTCAGA 60.181 43.478 0.00 0.00 0.00 3.27
5851 6153 2.368221 AGAAGCAAGCTCAACTCAGAGT 59.632 45.455 0.00 0.00 37.94 3.24
5852 6154 2.453983 AGCAAGCTCAACTCAGAGTC 57.546 50.000 2.72 0.00 37.94 3.36
5853 6155 1.690893 AGCAAGCTCAACTCAGAGTCA 59.309 47.619 2.72 0.00 37.94 3.41
5854 6156 2.067766 GCAAGCTCAACTCAGAGTCAG 58.932 52.381 2.72 4.39 37.94 3.51
5855 6157 2.547642 GCAAGCTCAACTCAGAGTCAGT 60.548 50.000 2.72 0.00 37.94 3.41
5856 6158 3.058450 CAAGCTCAACTCAGAGTCAGTG 58.942 50.000 2.72 0.00 37.94 3.66
5857 6159 2.591923 AGCTCAACTCAGAGTCAGTGA 58.408 47.619 2.72 3.39 37.94 3.41
5868 6170 3.829601 CAGAGTCAGTGAACTACTCCCTT 59.170 47.826 0.00 0.00 40.42 3.95
5869 6171 4.082463 CAGAGTCAGTGAACTACTCCCTTC 60.082 50.000 0.00 0.00 40.42 3.46
5875 6177 1.271543 TGAACTACTCCCTTCGTCCGA 60.272 52.381 0.00 0.00 0.00 4.55
5876 6178 1.815003 GAACTACTCCCTTCGTCCGAA 59.185 52.381 1.81 1.81 0.00 4.30
5877 6179 1.915141 ACTACTCCCTTCGTCCGAAA 58.085 50.000 3.52 0.00 33.34 3.46
5878 6180 2.242043 ACTACTCCCTTCGTCCGAAAA 58.758 47.619 3.52 0.00 33.34 2.29
5881 6183 3.242549 ACTCCCTTCGTCCGAAAATAC 57.757 47.619 3.52 0.00 33.34 1.89
5882 6184 2.830321 ACTCCCTTCGTCCGAAAATACT 59.170 45.455 3.52 0.00 33.34 2.12
5883 6185 3.260128 ACTCCCTTCGTCCGAAAATACTT 59.740 43.478 3.52 0.00 33.34 2.24
5885 6187 3.007182 TCCCTTCGTCCGAAAATACTTGT 59.993 43.478 3.52 0.00 33.34 3.16
5887 6189 3.991773 CCTTCGTCCGAAAATACTTGTCA 59.008 43.478 3.52 0.00 33.34 3.58
5890 6192 4.811908 TCGTCCGAAAATACTTGTCATCA 58.188 39.130 0.00 0.00 0.00 3.07
5891 6193 5.231702 TCGTCCGAAAATACTTGTCATCAA 58.768 37.500 0.00 0.00 0.00 2.57
5892 6194 5.697178 TCGTCCGAAAATACTTGTCATCAAA 59.303 36.000 0.00 0.00 32.87 2.69
5893 6195 6.203145 TCGTCCGAAAATACTTGTCATCAAAA 59.797 34.615 0.00 0.00 32.87 2.44
5894 6196 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
5895 6197 8.172484 CGTCCGAAAATACTTGTCATCAAAATA 58.828 33.333 0.00 0.00 32.87 1.40
5896 6198 9.490663 GTCCGAAAATACTTGTCATCAAAATAG 57.509 33.333 0.00 0.00 32.87 1.73
5897 6199 9.443323 TCCGAAAATACTTGTCATCAAAATAGA 57.557 29.630 0.00 0.00 32.87 1.98
5952 6254 8.587244 ACATCTAGATATATCCCCCTTTATCCA 58.413 37.037 4.54 0.00 0.00 3.41
5953 6255 9.626840 CATCTAGATATATCCCCCTTTATCCAT 57.373 37.037 4.54 0.00 0.00 3.41
5958 6260 9.139156 AGATATATCCCCCTTTATCCATTTTGA 57.861 33.333 9.18 0.00 0.00 2.69
5962 6264 7.855784 ATCCCCCTTTATCCATTTTGATAAC 57.144 36.000 0.00 0.00 37.04 1.89
5963 6265 6.746894 TCCCCCTTTATCCATTTTGATAACA 58.253 36.000 0.00 0.00 37.04 2.41
5964 6266 7.192628 TCCCCCTTTATCCATTTTGATAACAA 58.807 34.615 0.00 0.00 37.04 2.83
5965 6267 7.344352 TCCCCCTTTATCCATTTTGATAACAAG 59.656 37.037 0.00 0.00 37.04 3.16
5966 6268 7.125659 CCCCCTTTATCCATTTTGATAACAAGT 59.874 37.037 0.00 0.00 37.04 3.16
5967 6269 9.196139 CCCCTTTATCCATTTTGATAACAAGTA 57.804 33.333 0.00 0.00 37.04 2.24
5981 6283 8.292444 TGATAACAAGTATTTTTGGATGGAGG 57.708 34.615 0.00 0.00 32.32 4.30
5982 6284 7.341769 TGATAACAAGTATTTTTGGATGGAGGG 59.658 37.037 0.00 0.00 32.32 4.30
5983 6285 5.269554 ACAAGTATTTTTGGATGGAGGGA 57.730 39.130 0.00 0.00 32.32 4.20
5984 6286 5.264395 ACAAGTATTTTTGGATGGAGGGAG 58.736 41.667 0.00 0.00 32.32 4.30
5985 6287 5.222337 ACAAGTATTTTTGGATGGAGGGAGT 60.222 40.000 0.00 0.00 32.32 3.85
5986 6288 6.011981 ACAAGTATTTTTGGATGGAGGGAGTA 60.012 38.462 0.00 0.00 32.32 2.59
5987 6289 6.002653 AGTATTTTTGGATGGAGGGAGTAC 57.997 41.667 0.00 0.00 0.00 2.73
5994 7434 5.157770 TGGATGGAGGGAGTACTAGATTT 57.842 43.478 0.00 0.00 0.00 2.17
6005 7445 6.931840 GGGAGTACTAGATTTCAAGGCAATAG 59.068 42.308 0.00 0.00 0.00 1.73
6027 7467 4.060038 GTGAATCATACACCTCATCCGT 57.940 45.455 0.00 0.00 32.84 4.69
6028 7468 4.051922 GTGAATCATACACCTCATCCGTC 58.948 47.826 0.00 0.00 32.84 4.79
6029 7469 3.704061 TGAATCATACACCTCATCCGTCA 59.296 43.478 0.00 0.00 0.00 4.35
6030 7470 4.161377 TGAATCATACACCTCATCCGTCAA 59.839 41.667 0.00 0.00 0.00 3.18
6031 7471 3.801114 TCATACACCTCATCCGTCAAG 57.199 47.619 0.00 0.00 0.00 3.02
6032 7472 2.159099 TCATACACCTCATCCGTCAAGC 60.159 50.000 0.00 0.00 0.00 4.01
6033 7473 1.262417 TACACCTCATCCGTCAAGCA 58.738 50.000 0.00 0.00 0.00 3.91
6035 7475 0.320683 CACCTCATCCGTCAAGCACA 60.321 55.000 0.00 0.00 0.00 4.57
6036 7476 0.615331 ACCTCATCCGTCAAGCACAT 59.385 50.000 0.00 0.00 0.00 3.21
6037 7477 1.293924 CCTCATCCGTCAAGCACATC 58.706 55.000 0.00 0.00 0.00 3.06
6038 7478 1.405933 CCTCATCCGTCAAGCACATCA 60.406 52.381 0.00 0.00 0.00 3.07
6039 7479 1.931841 CTCATCCGTCAAGCACATCAG 59.068 52.381 0.00 0.00 0.00 2.90
6040 7480 1.276138 TCATCCGTCAAGCACATCAGT 59.724 47.619 0.00 0.00 0.00 3.41
6041 7481 2.079158 CATCCGTCAAGCACATCAGTT 58.921 47.619 0.00 0.00 0.00 3.16
6042 7482 3.056179 TCATCCGTCAAGCACATCAGTTA 60.056 43.478 0.00 0.00 0.00 2.24
6043 7483 2.683968 TCCGTCAAGCACATCAGTTAC 58.316 47.619 0.00 0.00 0.00 2.50
6044 7484 2.299013 TCCGTCAAGCACATCAGTTACT 59.701 45.455 0.00 0.00 0.00 2.24
6045 7485 3.067106 CCGTCAAGCACATCAGTTACTT 58.933 45.455 0.00 0.00 0.00 2.24
6046 7486 3.120546 CCGTCAAGCACATCAGTTACTTG 60.121 47.826 0.00 0.00 39.22 3.16
6047 7487 3.494626 CGTCAAGCACATCAGTTACTTGT 59.505 43.478 0.00 0.00 39.06 3.16
6048 7488 4.609113 CGTCAAGCACATCAGTTACTTGTG 60.609 45.833 11.58 11.58 42.80 3.33
6095 7535 9.463443 AGTAAAGAAAAATACAAGTGACAATGC 57.537 29.630 0.00 0.00 0.00 3.56
6128 7568 9.877137 CCCAAATAAGTGCAAAAATTAAAAGAC 57.123 29.630 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 68 2.978156 AAGCTTTGGAAGATGGACCA 57.022 45.000 0.00 0.00 0.00 4.02
126 128 3.648339 TGCAAAGATCTTGGCAGAAAC 57.352 42.857 29.89 4.83 43.99 2.78
148 150 2.151202 GTGCCCGTTCTCAGAAATTCA 58.849 47.619 0.00 0.00 0.00 2.57
217 219 7.287927 CCAAGTAGTGGGTAAGATTCTCTCATA 59.712 40.741 0.00 0.00 44.64 2.15
238 240 2.965716 AAGGCGAGCAAGCACCAAGT 62.966 55.000 5.80 0.00 39.27 3.16
258 260 1.136147 GAAGCAAGCATGTGCCTCG 59.864 57.895 4.77 0.00 46.14 4.63
259 261 0.886563 AAGAAGCAAGCATGTGCCTC 59.113 50.000 4.77 2.18 46.14 4.70
293 295 3.313526 GCTGTCAAAAGCTGAGAAGAACA 59.686 43.478 0.00 0.00 40.20 3.18
308 310 2.731691 GAAGGACCTGCGGCTGTCAA 62.732 60.000 19.63 0.00 33.09 3.18
314 316 0.321298 TAAGTTGAAGGACCTGCGGC 60.321 55.000 0.00 0.00 0.00 6.53
316 318 1.439679 GGTAAGTTGAAGGACCTGCG 58.560 55.000 0.00 0.00 0.00 5.18
320 322 4.095211 AGTAGAGGGTAAGTTGAAGGACC 58.905 47.826 0.00 0.00 0.00 4.46
408 410 1.382833 GGGGGAGGTAGGTGGAGAC 60.383 68.421 0.00 0.00 0.00 3.36
450 452 3.047877 GGCGTGGGAGTTTCGTGG 61.048 66.667 0.00 0.00 0.00 4.94
464 466 3.781770 GAGAGCGGGATCTGTGGCG 62.782 68.421 0.00 0.00 0.00 5.69
493 495 1.336131 AGTGCTCTCTCAAGCTGTGA 58.664 50.000 0.00 0.00 42.94 3.58
498 500 2.224018 CCATCCTAGTGCTCTCTCAAGC 60.224 54.545 0.00 0.00 42.82 4.01
558 560 3.438087 ACAAAAGAGTGCATGATTCCTCG 59.562 43.478 0.00 0.00 0.00 4.63
561 563 3.507233 TCCACAAAAGAGTGCATGATTCC 59.493 43.478 0.00 0.00 38.18 3.01
680 687 3.483587 TGGGTGCCCAAGAGAGTC 58.516 61.111 7.63 0.00 44.12 3.36
690 697 3.146828 AACTTGGAGGGTGGGTGCC 62.147 63.158 0.00 0.00 0.00 5.01
691 698 1.903404 CAACTTGGAGGGTGGGTGC 60.903 63.158 0.00 0.00 0.00 5.01
692 699 0.823356 CACAACTTGGAGGGTGGGTG 60.823 60.000 0.00 0.00 0.00 4.61
693 700 0.991355 TCACAACTTGGAGGGTGGGT 60.991 55.000 0.00 0.00 32.29 4.51
694 701 0.537371 GTCACAACTTGGAGGGTGGG 60.537 60.000 0.00 0.00 32.29 4.61
695 702 0.884704 CGTCACAACTTGGAGGGTGG 60.885 60.000 0.00 0.00 32.29 4.61
696 703 0.884704 CCGTCACAACTTGGAGGGTG 60.885 60.000 9.27 0.00 35.03 4.61
697 704 1.052124 TCCGTCACAACTTGGAGGGT 61.052 55.000 13.91 0.00 39.47 4.34
698 705 0.602905 GTCCGTCACAACTTGGAGGG 60.603 60.000 10.46 10.46 39.74 4.30
699 706 0.393077 AGTCCGTCACAACTTGGAGG 59.607 55.000 0.00 0.00 0.00 4.30
700 707 1.341531 AGAGTCCGTCACAACTTGGAG 59.658 52.381 0.00 0.00 0.00 3.86
701 708 1.340248 GAGAGTCCGTCACAACTTGGA 59.660 52.381 0.00 0.00 0.00 3.53
702 709 1.341531 AGAGAGTCCGTCACAACTTGG 59.658 52.381 0.00 0.00 0.00 3.61
703 710 2.797156 CAAGAGAGTCCGTCACAACTTG 59.203 50.000 0.00 0.00 0.00 3.16
704 711 2.224066 CCAAGAGAGTCCGTCACAACTT 60.224 50.000 0.00 0.00 0.00 2.66
705 712 1.341531 CCAAGAGAGTCCGTCACAACT 59.658 52.381 0.00 0.00 0.00 3.16
706 713 1.605712 CCCAAGAGAGTCCGTCACAAC 60.606 57.143 0.00 0.00 0.00 3.32
707 714 0.679505 CCCAAGAGAGTCCGTCACAA 59.320 55.000 0.00 0.00 0.00 3.33
708 715 1.816863 GCCCAAGAGAGTCCGTCACA 61.817 60.000 0.00 0.00 0.00 3.58
709 716 1.079750 GCCCAAGAGAGTCCGTCAC 60.080 63.158 0.00 0.00 0.00 3.67
710 717 1.533033 TGCCCAAGAGAGTCCGTCA 60.533 57.895 0.00 0.00 0.00 4.35
711 718 1.079750 GTGCCCAAGAGAGTCCGTC 60.080 63.158 0.00 0.00 0.00 4.79
712 719 2.584391 GGTGCCCAAGAGAGTCCGT 61.584 63.158 0.00 0.00 0.00 4.69
713 720 2.266055 GGTGCCCAAGAGAGTCCG 59.734 66.667 0.00 0.00 0.00 4.79
714 721 2.224159 TGGGTGCCCAAGAGAGTCC 61.224 63.158 7.63 0.00 44.12 3.85
715 722 3.483587 TGGGTGCCCAAGAGAGTC 58.516 61.111 7.63 0.00 44.12 3.36
852 859 0.534873 TGACGATCGCCAATCCTCAA 59.465 50.000 16.60 0.00 29.73 3.02
853 860 0.179111 GTGACGATCGCCAATCCTCA 60.179 55.000 16.60 6.63 30.04 3.86
898 905 4.646945 ACCAGTATGAGTTCGATCTGATGT 59.353 41.667 0.00 0.00 39.69 3.06
1044 1054 0.970937 CCAAGCGGGAGAGGTAGTCA 60.971 60.000 0.00 0.00 40.01 3.41
1495 1506 3.389656 CAGGTAAACCCAAACCAACCAAT 59.610 43.478 0.00 0.00 38.30 3.16
1709 1725 5.956171 TTCATTCAATTCGATCAGACTCG 57.044 39.130 0.00 0.00 39.99 4.18
1866 1914 7.039504 AGCCAATTATATTCTTAAGCACATGGG 60.040 37.037 0.00 0.00 0.00 4.00
1897 1945 4.358494 AGATGCTCGTATTATCTACCGC 57.642 45.455 0.00 0.00 29.82 5.68
1930 1978 4.946157 ACTACTCCAATGCAATTTCCTCTG 59.054 41.667 0.00 0.00 31.22 3.35
2181 2230 4.100084 CATGGCGGGAGTGAGGCA 62.100 66.667 0.00 0.00 46.75 4.75
2348 2397 1.267732 GGAAAGCGACAAGATGCATCG 60.268 52.381 20.67 11.58 38.87 3.84
2644 2694 2.027561 AGCATCAAGTGTTAGCCCGTTA 60.028 45.455 0.00 0.00 0.00 3.18
2648 2698 2.113860 TGAGCATCAAGTGTTAGCCC 57.886 50.000 0.00 0.00 45.97 5.19
2786 2836 6.869315 TGTATTGATAGAGAAGAGAGACCG 57.131 41.667 0.00 0.00 0.00 4.79
2849 2899 4.096231 CCTGTGCCGTCATGAATAATCAAA 59.904 41.667 0.00 0.00 39.49 2.69
3052 3102 6.986817 GCATAAGTTAGTTTCTGATCAGCCTA 59.013 38.462 18.36 13.72 0.00 3.93
3565 3853 5.337554 TGTCGTCTATAATTTCCAGTCACG 58.662 41.667 0.00 0.00 0.00 4.35
3592 3881 5.815581 TCAAATTGGTGCTACAGTATTCCT 58.184 37.500 0.00 0.00 0.00 3.36
3607 3896 7.318141 AGAGTATTCAAATGCACTCAAATTGG 58.682 34.615 0.00 0.00 39.90 3.16
3674 3963 7.546667 GGTAAGTTAAACATAGGACGTTCATCA 59.453 37.037 0.00 0.00 0.00 3.07
3675 3964 7.546667 TGGTAAGTTAAACATAGGACGTTCATC 59.453 37.037 0.00 0.00 0.00 2.92
3771 4060 9.753674 CCTTTTGCCTTATCTAATCCCATATAA 57.246 33.333 0.00 0.00 0.00 0.98
3790 4079 4.280929 ACTGTAGATTTCCCAACCTTTTGC 59.719 41.667 0.00 0.00 0.00 3.68
3821 4110 5.163457 TGGTTCTCAAAAGGTTCACAAATCC 60.163 40.000 0.00 0.00 0.00 3.01
4001 4291 6.073369 CACGATTACGGAAGCAATTCATATG 58.927 40.000 0.00 0.00 44.46 1.78
4026 4316 6.968263 TGGTCATCATTTAAAACCTCAACA 57.032 33.333 7.37 0.00 0.00 3.33
4072 4362 2.827921 AGCAAAATTGGGCTCTTGGTAG 59.172 45.455 0.00 0.00 34.76 3.18
4076 4366 6.604930 CAATAAAAGCAAAATTGGGCTCTTG 58.395 36.000 4.74 4.18 40.01 3.02
4108 4398 8.616076 AGACAAGCAATCAGTTTATAGTAATGC 58.384 33.333 0.00 0.00 0.00 3.56
4362 4658 5.163513 CAACTTGTACAGATCAAAATGGCC 58.836 41.667 0.00 0.00 0.00 5.36
4363 4659 5.163513 CCAACTTGTACAGATCAAAATGGC 58.836 41.667 0.00 0.00 0.00 4.40
4374 4670 9.673454 GAAAGGTTAAATTACCAACTTGTACAG 57.327 33.333 0.00 0.00 40.82 2.74
4521 4817 3.920231 AGGAAGCAATCAGTGATAGCA 57.080 42.857 5.94 0.00 0.00 3.49
4783 5079 1.269413 GCTGCAGAAGAAAGCAAAGCA 60.269 47.619 20.43 0.00 40.73 3.91
4875 5171 0.896923 TGGTGATTCCAAGCCATTGC 59.103 50.000 0.00 0.00 44.12 3.56
4917 5213 6.969828 AGAAAAGACAATATGTTCGACTCC 57.030 37.500 0.00 0.00 0.00 3.85
4974 5270 4.860022 CAAGGGAGGAAATCAGGTTACAT 58.140 43.478 0.00 0.00 0.00 2.29
5069 5365 3.815401 TGCTAAGGACAAGAACTTTGCTC 59.185 43.478 10.93 0.00 42.91 4.26
5117 5413 0.320946 CGAACTAAACGGGCTTCCCA 60.321 55.000 2.47 0.00 45.83 4.37
5137 5433 3.722147 ACAAGCTTATGAGGTATCGCTG 58.278 45.455 0.00 0.00 32.23 5.18
5169 5465 8.596380 CCGTACATCAAAGATAAGAGAAACTTC 58.404 37.037 0.00 0.00 39.72 3.01
5436 5734 1.299165 CGATGAACTAGCGGTCCGG 60.299 63.158 14.38 0.00 33.84 5.14
5486 5784 9.974980 TGAGGTCAAAATGTTAAAAGTTTATCC 57.025 29.630 0.00 0.00 0.00 2.59
5616 5917 2.279741 TCAATGTCGCCTATGCAAGAC 58.720 47.619 0.00 0.00 37.32 3.01
5628 5929 5.678132 TTGCATATGAAGGATCAATGTCG 57.322 39.130 6.97 0.00 39.49 4.35
5669 5970 4.770531 TCCATATCCTCGTATCGTTTGGAT 59.229 41.667 13.85 13.85 39.25 3.41
5672 5973 7.254117 GCATATTCCATATCCTCGTATCGTTTG 60.254 40.741 0.00 0.00 0.00 2.93
5673 5974 6.757010 GCATATTCCATATCCTCGTATCGTTT 59.243 38.462 0.00 0.00 0.00 3.60
5675 5976 5.594725 AGCATATTCCATATCCTCGTATCGT 59.405 40.000 0.00 0.00 0.00 3.73
5677 5978 6.810911 ACAGCATATTCCATATCCTCGTATC 58.189 40.000 0.00 0.00 0.00 2.24
5728 6030 4.569564 CCCTTAACGCCACAGAAGTATTAC 59.430 45.833 0.00 0.00 0.00 1.89
5740 6042 4.647611 CATATTCCATACCCTTAACGCCA 58.352 43.478 0.00 0.00 0.00 5.69
5741 6043 3.439129 GCATATTCCATACCCTTAACGCC 59.561 47.826 0.00 0.00 0.00 5.68
5751 6053 8.169268 GCGAACTAGTAATTGCATATTCCATAC 58.831 37.037 0.00 0.00 0.00 2.39
5791 6093 5.308014 TGGCATCATACCTACAATCATCAC 58.692 41.667 0.00 0.00 0.00 3.06
5795 6097 6.832900 TCAAAATGGCATCATACCTACAATCA 59.167 34.615 0.00 0.00 32.44 2.57
5848 6150 3.119779 CGAAGGGAGTAGTTCACTGACTC 60.120 52.174 0.00 0.00 39.14 3.36
5849 6151 2.820787 CGAAGGGAGTAGTTCACTGACT 59.179 50.000 0.00 0.00 39.14 3.41
5851 6153 2.818432 GACGAAGGGAGTAGTTCACTGA 59.182 50.000 0.00 0.00 39.14 3.41
5852 6154 2.094649 GGACGAAGGGAGTAGTTCACTG 60.095 54.545 0.00 0.00 39.14 3.66
5853 6155 2.169330 GGACGAAGGGAGTAGTTCACT 58.831 52.381 0.00 0.00 43.00 3.41
5854 6156 1.135460 CGGACGAAGGGAGTAGTTCAC 60.135 57.143 0.00 0.00 0.00 3.18
5855 6157 1.171308 CGGACGAAGGGAGTAGTTCA 58.829 55.000 0.00 0.00 0.00 3.18
5856 6158 1.457346 TCGGACGAAGGGAGTAGTTC 58.543 55.000 0.00 0.00 0.00 3.01
5857 6159 1.915141 TTCGGACGAAGGGAGTAGTT 58.085 50.000 2.62 0.00 0.00 2.24
5868 6170 4.811908 TGATGACAAGTATTTTCGGACGA 58.188 39.130 0.00 0.00 0.00 4.20
5869 6171 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
5927 6229 9.626840 ATGGATAAAGGGGGATATATCTAGATG 57.373 37.037 15.79 0.00 0.00 2.90
5932 6234 9.139156 TCAAAATGGATAAAGGGGGATATATCT 57.861 33.333 12.42 0.00 0.00 1.98
5933 6235 9.942526 ATCAAAATGGATAAAGGGGGATATATC 57.057 33.333 3.96 3.96 0.00 1.63
5937 6239 8.515351 TGTTATCAAAATGGATAAAGGGGGATA 58.485 33.333 0.00 0.00 40.41 2.59
5938 6240 7.369434 TGTTATCAAAATGGATAAAGGGGGAT 58.631 34.615 0.00 0.00 40.41 3.85
5939 6241 6.746894 TGTTATCAAAATGGATAAAGGGGGA 58.253 36.000 0.00 0.00 40.41 4.81
5940 6242 7.125659 ACTTGTTATCAAAATGGATAAAGGGGG 59.874 37.037 0.00 0.00 40.41 5.40
5957 6259 7.559897 TCCCTCCATCCAAAAATACTTGTTATC 59.440 37.037 0.00 0.00 0.00 1.75
5958 6260 7.418378 TCCCTCCATCCAAAAATACTTGTTAT 58.582 34.615 0.00 0.00 0.00 1.89
5961 6263 5.222337 ACTCCCTCCATCCAAAAATACTTGT 60.222 40.000 0.00 0.00 0.00 3.16
5962 6264 5.264395 ACTCCCTCCATCCAAAAATACTTG 58.736 41.667 0.00 0.00 0.00 3.16
5963 6265 5.536497 ACTCCCTCCATCCAAAAATACTT 57.464 39.130 0.00 0.00 0.00 2.24
5964 6266 5.731678 AGTACTCCCTCCATCCAAAAATACT 59.268 40.000 0.00 0.00 0.00 2.12
5965 6267 6.002653 AGTACTCCCTCCATCCAAAAATAC 57.997 41.667 0.00 0.00 0.00 1.89
5966 6268 7.136885 TCTAGTACTCCCTCCATCCAAAAATA 58.863 38.462 0.00 0.00 0.00 1.40
5967 6269 5.970640 TCTAGTACTCCCTCCATCCAAAAAT 59.029 40.000 0.00 0.00 0.00 1.82
5968 6270 5.347124 TCTAGTACTCCCTCCATCCAAAAA 58.653 41.667 0.00 0.00 0.00 1.94
5969 6271 4.955335 TCTAGTACTCCCTCCATCCAAAA 58.045 43.478 0.00 0.00 0.00 2.44
5970 6272 4.620086 TCTAGTACTCCCTCCATCCAAA 57.380 45.455 0.00 0.00 0.00 3.28
5971 6273 4.834406 ATCTAGTACTCCCTCCATCCAA 57.166 45.455 0.00 0.00 0.00 3.53
5974 6276 6.239458 CCTTGAAATCTAGTACTCCCTCCATC 60.239 46.154 0.00 0.00 0.00 3.51
5975 6277 5.604650 CCTTGAAATCTAGTACTCCCTCCAT 59.395 44.000 0.00 0.00 0.00 3.41
5977 6279 4.202274 GCCTTGAAATCTAGTACTCCCTCC 60.202 50.000 0.00 0.00 0.00 4.30
5979 6281 4.362677 TGCCTTGAAATCTAGTACTCCCT 58.637 43.478 0.00 0.00 0.00 4.20
5980 6282 4.755266 TGCCTTGAAATCTAGTACTCCC 57.245 45.455 0.00 0.00 0.00 4.30
5981 6283 6.931840 CCTATTGCCTTGAAATCTAGTACTCC 59.068 42.308 0.00 0.00 0.00 3.85
5982 6284 7.439655 CACCTATTGCCTTGAAATCTAGTACTC 59.560 40.741 0.00 0.00 0.00 2.59
5983 6285 7.125811 TCACCTATTGCCTTGAAATCTAGTACT 59.874 37.037 0.00 0.00 0.00 2.73
5984 6286 7.272978 TCACCTATTGCCTTGAAATCTAGTAC 58.727 38.462 0.00 0.00 0.00 2.73
5985 6287 7.432148 TCACCTATTGCCTTGAAATCTAGTA 57.568 36.000 0.00 0.00 0.00 1.82
5986 6288 6.313519 TCACCTATTGCCTTGAAATCTAGT 57.686 37.500 0.00 0.00 0.00 2.57
5987 6289 7.500227 TGATTCACCTATTGCCTTGAAATCTAG 59.500 37.037 0.00 0.00 31.96 2.43
5994 7434 5.822519 GTGTATGATTCACCTATTGCCTTGA 59.177 40.000 0.00 0.00 0.00 3.02
6023 7463 2.299013 AGTAACTGATGTGCTTGACGGA 59.701 45.455 0.00 0.00 0.00 4.69
6024 7464 2.688507 AGTAACTGATGTGCTTGACGG 58.311 47.619 0.00 0.00 0.00 4.79
6025 7465 3.494626 ACAAGTAACTGATGTGCTTGACG 59.505 43.478 8.87 0.00 39.82 4.35
6032 7472 4.213906 TGACATGCACAAGTAACTGATGTG 59.786 41.667 0.00 0.97 45.54 3.21
6033 7473 4.388485 TGACATGCACAAGTAACTGATGT 58.612 39.130 0.00 0.00 0.00 3.06
6035 7475 4.637534 GGATGACATGCACAAGTAACTGAT 59.362 41.667 1.50 0.00 0.00 2.90
6036 7476 4.002982 GGATGACATGCACAAGTAACTGA 58.997 43.478 1.50 0.00 0.00 3.41
6037 7477 4.005650 AGGATGACATGCACAAGTAACTG 58.994 43.478 9.80 0.00 0.00 3.16
6038 7478 4.292186 AGGATGACATGCACAAGTAACT 57.708 40.909 9.80 0.00 0.00 2.24
6039 7479 4.379813 CCAAGGATGACATGCACAAGTAAC 60.380 45.833 9.80 0.00 0.00 2.50
6040 7480 3.758023 CCAAGGATGACATGCACAAGTAA 59.242 43.478 9.80 0.00 0.00 2.24
6041 7481 3.346315 CCAAGGATGACATGCACAAGTA 58.654 45.455 9.80 0.00 0.00 2.24
6042 7482 2.165167 CCAAGGATGACATGCACAAGT 58.835 47.619 9.80 0.00 0.00 3.16
6043 7483 1.135199 GCCAAGGATGACATGCACAAG 60.135 52.381 9.80 0.00 0.00 3.16
6044 7484 0.889994 GCCAAGGATGACATGCACAA 59.110 50.000 9.80 0.00 0.00 3.33
6045 7485 0.251253 TGCCAAGGATGACATGCACA 60.251 50.000 9.80 0.00 0.00 4.57
6046 7486 0.889994 TTGCCAAGGATGACATGCAC 59.110 50.000 9.80 0.00 0.00 4.57
6047 7487 1.630223 TTTGCCAAGGATGACATGCA 58.370 45.000 9.80 1.51 0.00 3.96
6048 7488 2.288948 TGTTTTGCCAAGGATGACATGC 60.289 45.455 0.00 0.00 0.00 4.06
6049 7489 3.006110 ACTGTTTTGCCAAGGATGACATG 59.994 43.478 0.00 0.00 0.00 3.21
6050 7490 3.233507 ACTGTTTTGCCAAGGATGACAT 58.766 40.909 0.00 0.00 0.00 3.06
6051 7491 2.665165 ACTGTTTTGCCAAGGATGACA 58.335 42.857 0.00 0.00 0.00 3.58
6091 7531 3.129287 CACTTATTTGGGCTTCTCGCATT 59.871 43.478 0.00 0.00 41.67 3.56
6093 7533 2.083774 CACTTATTTGGGCTTCTCGCA 58.916 47.619 0.00 0.00 41.67 5.10
6095 7535 2.083774 TGCACTTATTTGGGCTTCTCG 58.916 47.619 0.00 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.