Multiple sequence alignment - TraesCS3D01G389400

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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 TraesCS3D01G389400 chr3D 100.000 5735 0 0 1 5735 504972962 504978696 0.000000e+00 10591.0
1 TraesCS3D01G389400 chr3D 86.508 126 17 0 4834 4959 12168312 12168187 7.750000e-29 139.0
2 TraesCS3D01G389400 chr3D 95.000 60 3 0 2857 2916 504975609 504975668 1.700000e-15 95.3
3 TraesCS3D01G389400 chr3D 95.000 60 3 0 2648 2707 504975818 504975877 1.700000e-15 95.3
4 TraesCS3D01G389400 chr3A 94.093 1659 78 12 1267 2916 642955849 642957496 0.000000e+00 2503.0
5 TraesCS3D01G389400 chr3A 92.199 987 46 6 2916 3874 642957529 642958512 0.000000e+00 1367.0
6 TraesCS3D01G389400 chr3A 88.662 882 66 25 404 1275 642954524 642955381 0.000000e+00 1044.0
7 TraesCS3D01G389400 chr3A 91.384 708 46 7 3889 4594 642958563 642959257 0.000000e+00 955.0
8 TraesCS3D01G389400 chr3A 80.631 919 137 22 4833 5732 102229224 102228328 0.000000e+00 673.0
9 TraesCS3D01G389400 chr3A 86.907 443 25 10 1 420 642954074 642954506 3.130000e-127 466.0
10 TraesCS3D01G389400 chr3A 98.333 60 1 0 2857 2916 642957225 642957284 7.860000e-19 106.0
11 TraesCS3D01G389400 chr3B 93.991 1398 71 7 1279 2675 666506030 666507415 0.000000e+00 2104.0
12 TraesCS3D01G389400 chr3B 95.806 906 32 5 3889 4791 666510420 666511322 0.000000e+00 1458.0
13 TraesCS3D01G389400 chr3B 95.043 928 31 10 321 1246 666504720 666505634 0.000000e+00 1445.0
14 TraesCS3D01G389400 chr3B 93.535 990 32 13 2916 3874 666509381 666510369 0.000000e+00 1445.0
15 TraesCS3D01G389400 chr3B 93.333 285 19 0 1 285 666504438 666504722 6.870000e-114 422.0
16 TraesCS3D01G389400 chr3B 93.307 254 13 2 2663 2916 666509099 666509348 7.020000e-99 372.0
17 TraesCS3D01G389400 chr3B 100.000 45 0 0 2872 2916 666509099 666509143 3.680000e-12 84.2
18 TraesCS3D01G389400 chr4B 84.708 909 117 15 4833 5733 491091277 491090383 0.000000e+00 889.0
19 TraesCS3D01G389400 chr4B 87.640 89 11 0 4787 4875 180904492 180904580 2.830000e-18 104.0
20 TraesCS3D01G389400 chr2D 84.532 918 117 10 4833 5733 512907870 512908779 0.000000e+00 885.0
21 TraesCS3D01G389400 chr2D 84.742 852 106 11 4881 5729 111499666 111500496 0.000000e+00 832.0
22 TraesCS3D01G389400 chr2D 83.163 879 131 11 4861 5733 95181019 95181886 0.000000e+00 787.0
23 TraesCS3D01G389400 chr2D 89.583 48 5 0 4789 4836 69500792 69500745 1.730000e-05 62.1
24 TraesCS3D01G389400 chr4D 84.440 919 114 14 4833 5729 481619910 481620821 0.000000e+00 878.0
25 TraesCS3D01G389400 chr1A 83.605 921 132 9 4833 5735 484294199 484295118 0.000000e+00 846.0
26 TraesCS3D01G389400 chr2B 83.499 903 125 14 4833 5715 770298566 770299464 0.000000e+00 821.0
27 TraesCS3D01G389400 chr2B 84.309 803 116 5 4934 5733 603401672 603402467 0.000000e+00 776.0
28 TraesCS3D01G389400 chr2B 79.213 356 55 9 4836 5176 792463717 792463366 4.470000e-56 230.0
29 TraesCS3D01G389400 chr7B 83.114 912 133 12 4838 5733 185270980 185271886 0.000000e+00 811.0
30 TraesCS3D01G389400 chr5D 82.990 923 121 15 4833 5733 352845950 352845042 0.000000e+00 802.0
31 TraesCS3D01G389400 chr5D 90.909 55 4 1 4789 4843 477957395 477957448 7.970000e-09 73.1
32 TraesCS3D01G389400 chr1B 85.606 132 17 2 4833 4964 519655674 519655803 2.790000e-28 137.0
33 TraesCS3D01G389400 chr5B 84.672 137 17 4 4830 4964 587748349 587748215 3.610000e-27 134.0
34 TraesCS3D01G389400 chr5A 85.057 87 13 0 4789 4875 598958131 598958045 7.910000e-14 89.8


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 TraesCS3D01G389400 chr3D 504972962 504978696 5734 False 3593.866667 10591 96.666667 1 5735 3 chr3D.!!$F1 5734
1 TraesCS3D01G389400 chr3A 642954074 642959257 5183 False 1073.500000 2503 91.929667 1 4594 6 chr3A.!!$F1 4593
2 TraesCS3D01G389400 chr3A 102228328 102229224 896 True 673.000000 673 80.631000 4833 5732 1 chr3A.!!$R1 899
3 TraesCS3D01G389400 chr3B 666504438 666511322 6884 False 1047.171429 2104 95.002143 1 4791 7 chr3B.!!$F1 4790
4 TraesCS3D01G389400 chr4B 491090383 491091277 894 True 889.000000 889 84.708000 4833 5733 1 chr4B.!!$R1 900
5 TraesCS3D01G389400 chr2D 512907870 512908779 909 False 885.000000 885 84.532000 4833 5733 1 chr2D.!!$F3 900
6 TraesCS3D01G389400 chr2D 111499666 111500496 830 False 832.000000 832 84.742000 4881 5729 1 chr2D.!!$F2 848
7 TraesCS3D01G389400 chr2D 95181019 95181886 867 False 787.000000 787 83.163000 4861 5733 1 chr2D.!!$F1 872
8 TraesCS3D01G389400 chr4D 481619910 481620821 911 False 878.000000 878 84.440000 4833 5729 1 chr4D.!!$F1 896
9 TraesCS3D01G389400 chr1A 484294199 484295118 919 False 846.000000 846 83.605000 4833 5735 1 chr1A.!!$F1 902
10 TraesCS3D01G389400 chr2B 770298566 770299464 898 False 821.000000 821 83.499000 4833 5715 1 chr2B.!!$F2 882
11 TraesCS3D01G389400 chr2B 603401672 603402467 795 False 776.000000 776 84.309000 4934 5733 1 chr2B.!!$F1 799
12 TraesCS3D01G389400 chr7B 185270980 185271886 906 False 811.000000 811 83.114000 4838 5733 1 chr7B.!!$F1 895
13 TraesCS3D01G389400 chr5D 352845042 352845950 908 True 802.000000 802 82.990000 4833 5733 1 chr5D.!!$R1 900

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
312 334 0.179029 CACGGTTCTCCAAACCACCT 60.179 55.0 7.65 0.0 40.28 4.00 F
987 1098 0.546507 TGTCCAGCCCAGTGTATCCA 60.547 55.0 0.00 0.0 0.00 3.41 F
2540 3130 0.095245 CGCGTGTTATTGTGAGGCTG 59.905 55.0 0.00 0.0 0.00 4.85 F
2781 5074 0.320771 ACAGCACCAGTGAATCCGAC 60.321 55.0 0.99 0.0 0.00 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1806 2394 0.036388 TCCAAGGCGAACTGGACATC 60.036 55.0 0.00 0.00 0.00 3.06 R
2790 5083 0.891373 TCTTTCTGTCCTGCTCGGAG 59.109 55.0 0.00 0.00 44.20 4.63 R
3776 6136 0.396811 GTGGCACAGTGGGTACTCTT 59.603 55.0 13.86 0.00 41.80 2.85 R
4745 7145 0.606944 ATTTGGACGCCGTTAGCCAA 60.607 50.0 4.92 4.92 38.54 4.52 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
31 32 1.193426 GCCTTGATAGCTCGATTTCGC 59.807 52.381 0.00 0.00 39.60 4.70
49 50 0.530288 GCCCGGAGATAGATGCTCTC 59.470 60.000 0.73 0.00 38.74 3.20
69 70 1.298157 TGAACAATGCGAGGAAGCGG 61.298 55.000 0.00 0.00 40.67 5.52
152 154 5.645497 AGTGTGTTTTATCATCTTGCTCTCC 59.355 40.000 0.00 0.00 0.00 3.71
253 263 3.567530 GCCAAAATACGTAACACCAACC 58.432 45.455 0.00 0.00 0.00 3.77
264 274 2.507339 ACACCAACCAGAAAATTGCG 57.493 45.000 0.00 0.00 0.00 4.85
309 331 1.149627 CCCACGGTTCTCCAAACCA 59.850 57.895 7.65 0.00 40.28 3.67
311 333 1.170290 CCACGGTTCTCCAAACCACC 61.170 60.000 7.65 0.00 40.28 4.61
312 334 0.179029 CACGGTTCTCCAAACCACCT 60.179 55.000 7.65 0.00 40.28 4.00
461 518 5.012239 AGCTGCCACAAGAAGATTTGAATA 58.988 37.500 0.00 0.00 0.00 1.75
610 696 7.718272 GGTTAAAACCCATAAAAAGAACACC 57.282 36.000 0.02 0.00 43.43 4.16
611 697 7.273712 GGTTAAAACCCATAAAAAGAACACCA 58.726 34.615 0.02 0.00 43.43 4.17
612 698 7.934665 GGTTAAAACCCATAAAAAGAACACCAT 59.065 33.333 0.02 0.00 43.43 3.55
613 699 8.984764 GTTAAAACCCATAAAAAGAACACCATC 58.015 33.333 0.00 0.00 0.00 3.51
614 700 6.994421 AAACCCATAAAAAGAACACCATCT 57.006 33.333 0.00 0.00 0.00 2.90
615 701 5.982890 ACCCATAAAAAGAACACCATCTG 57.017 39.130 0.00 0.00 0.00 2.90
616 702 4.772100 ACCCATAAAAAGAACACCATCTGG 59.228 41.667 0.00 0.00 42.17 3.86
648 734 5.757808 ACAAATGCAAACTATCCAAACAACC 59.242 36.000 0.00 0.00 0.00 3.77
702 804 3.815401 TGCCTCTTCAAGTTAGTTTGAGC 59.185 43.478 0.00 0.00 38.25 4.26
703 805 4.068599 GCCTCTTCAAGTTAGTTTGAGCT 58.931 43.478 0.00 0.00 38.25 4.09
704 806 5.221641 TGCCTCTTCAAGTTAGTTTGAGCTA 60.222 40.000 0.00 0.00 38.25 3.32
727 829 9.915629 GCTATATATACTACTCAAACACAAGCT 57.084 33.333 0.00 0.00 0.00 3.74
791 894 4.938226 GCCATATTTTAATCGAGCCTAGCT 59.062 41.667 0.00 0.00 43.88 3.32
835 938 1.376037 GACTGGACTTTCTGCGGGG 60.376 63.158 0.00 0.00 0.00 5.73
987 1098 0.546507 TGTCCAGCCCAGTGTATCCA 60.547 55.000 0.00 0.00 0.00 3.41
1101 1212 4.539881 GCCGCGACGTCTCTCCTC 62.540 72.222 14.70 0.00 0.00 3.71
1149 1260 2.943034 GACGACTACGCTTCGCCG 60.943 66.667 0.00 0.00 43.96 6.46
1692 2280 2.098607 TCGTGCTTCCAGTAGATTACCG 59.901 50.000 0.00 0.00 0.00 4.02
1806 2394 4.436998 GGGAGAGACACGGTGCGG 62.437 72.222 8.30 0.00 0.00 5.69
1971 2559 4.148348 GCACTAAATCGATACTAACTGCGG 59.852 45.833 0.00 0.00 0.00 5.69
1983 2571 7.042992 CGATACTAACTGCGGAAAATCACATAA 60.043 37.037 0.00 0.00 0.00 1.90
1987 2575 8.395633 ACTAACTGCGGAAAATCACATAAATAC 58.604 33.333 0.00 0.00 0.00 1.89
1993 2581 7.967854 TGCGGAAAATCACATAAATACTTTCTG 59.032 33.333 0.00 0.00 33.05 3.02
2045 2633 8.900781 CATATTTTCTGATGTTCTCATTCACCT 58.099 33.333 0.00 0.00 34.06 4.00
2255 2843 1.279271 AGGTGTCAGATAAGGGCACAC 59.721 52.381 0.00 0.00 37.27 3.82
2352 2940 5.594725 TCTGTACAGAAGATGACCCAGATAC 59.405 44.000 23.24 0.00 33.91 2.24
2449 3037 8.472007 AGTTCACTGTTTTATTTTCCATGGTA 57.528 30.769 12.58 0.00 0.00 3.25
2458 3048 7.716799 TTTATTTTCCATGGTACTCAATGCT 57.283 32.000 12.58 0.00 0.00 3.79
2484 3074 2.831333 AGAAGTTGACACTGCACAGAG 58.169 47.619 4.31 0.00 29.21 3.35
2487 3077 3.819564 AGTTGACACTGCACAGAGTAA 57.180 42.857 4.31 0.00 32.46 2.24
2510 3100 9.260002 GTAATTTGGCCAGGATTAATGTTTATG 57.740 33.333 19.43 0.00 0.00 1.90
2511 3101 6.865834 TTTGGCCAGGATTAATGTTTATGT 57.134 33.333 5.11 0.00 0.00 2.29
2512 3102 6.865834 TTGGCCAGGATTAATGTTTATGTT 57.134 33.333 5.11 0.00 0.00 2.71
2540 3130 0.095245 CGCGTGTTATTGTGAGGCTG 59.905 55.000 0.00 0.00 0.00 4.85
2564 3154 7.771183 TGAGAAGAAACATACAAATTATGGCC 58.229 34.615 0.00 0.00 0.00 5.36
2569 3159 7.477494 AGAAACATACAAATTATGGCCGTTAC 58.523 34.615 0.77 0.00 0.00 2.50
2596 3186 7.284919 TCTGAAGTTTGTCAGTCTGTACATA 57.715 36.000 0.00 0.00 44.56 2.29
2602 3192 6.650807 AGTTTGTCAGTCTGTACATAACATGG 59.349 38.462 0.00 0.00 37.50 3.66
2604 3194 4.775253 TGTCAGTCTGTACATAACATGGGA 59.225 41.667 0.00 0.00 37.50 4.37
2615 3205 4.663120 ACATAACATGGGAGGGCTTGTATA 59.337 41.667 0.00 0.00 33.60 1.47
2616 3206 3.577805 AACATGGGAGGGCTTGTATAC 57.422 47.619 0.00 0.00 0.00 1.47
2617 3207 2.487775 ACATGGGAGGGCTTGTATACA 58.512 47.619 0.08 0.08 0.00 2.29
2621 3211 2.849943 TGGGAGGGCTTGTATACACATT 59.150 45.455 4.68 0.00 33.76 2.71
2629 3219 8.677148 AGGGCTTGTATACACATTAATGTTAG 57.323 34.615 18.50 10.94 39.39 2.34
2649 3239 2.970640 AGTTCTCCGGGTTAGTTGAACT 59.029 45.455 0.00 2.37 39.14 3.01
2661 3251 5.277828 GGTTAGTTGAACTTAAGTGTGCCTG 60.278 44.000 9.34 0.00 38.21 4.85
2713 4999 9.465199 ACTAAAAAGAACTTTACCCAACACTTA 57.535 29.630 0.14 0.00 31.63 2.24
2734 5020 2.704725 AGCATGTACAAAAAGGTGCG 57.295 45.000 10.36 0.00 37.63 5.34
2769 5062 5.838531 AGTAAGAGTATGAGTACAGCACC 57.161 43.478 0.00 0.00 33.09 5.01
2770 5063 5.262009 AGTAAGAGTATGAGTACAGCACCA 58.738 41.667 0.00 0.00 33.09 4.17
2771 5064 4.727507 AAGAGTATGAGTACAGCACCAG 57.272 45.455 0.00 0.00 33.09 4.00
2772 5065 3.702792 AGAGTATGAGTACAGCACCAGT 58.297 45.455 0.00 0.00 33.09 4.00
2773 5066 3.445450 AGAGTATGAGTACAGCACCAGTG 59.555 47.826 0.00 0.00 33.09 3.66
2775 5068 3.832490 AGTATGAGTACAGCACCAGTGAA 59.168 43.478 0.99 0.00 33.09 3.18
2776 5069 3.988976 ATGAGTACAGCACCAGTGAAT 57.011 42.857 0.99 0.00 0.00 2.57
2777 5070 3.319137 TGAGTACAGCACCAGTGAATC 57.681 47.619 0.99 0.00 0.00 2.52
2778 5071 2.028112 TGAGTACAGCACCAGTGAATCC 60.028 50.000 0.99 0.00 0.00 3.01
2779 5072 1.066858 AGTACAGCACCAGTGAATCCG 60.067 52.381 0.99 0.00 0.00 4.18
2780 5073 1.067142 GTACAGCACCAGTGAATCCGA 60.067 52.381 0.99 0.00 0.00 4.55
2781 5074 0.320771 ACAGCACCAGTGAATCCGAC 60.321 55.000 0.99 0.00 0.00 4.79
2790 5083 1.134560 AGTGAATCCGACGAGCTTACC 59.865 52.381 0.00 0.00 0.00 2.85
2791 5084 1.134560 GTGAATCCGACGAGCTTACCT 59.865 52.381 0.00 0.00 0.00 3.08
2930 5256 7.229581 ACTTTACCCAGTGAGTTAGTAAGAG 57.770 40.000 0.00 0.00 0.00 2.85
2941 5267 9.736414 AGTGAGTTAGTAAGAGTATGAGTACAA 57.264 33.333 0.00 0.00 33.09 2.41
2963 5289 3.152341 CACCAGTGAATCCAAAGAGCTT 58.848 45.455 0.00 0.00 0.00 3.74
2991 5317 3.130340 TGAACAGGACAAAAAGAAGGCAC 59.870 43.478 0.00 0.00 0.00 5.01
3067 5393 9.653287 TGAATGATTACTTTATCGACAAACTCT 57.347 29.630 0.00 0.00 0.00 3.24
3074 5401 7.668525 ACTTTATCGACAAACTCTTAAAGGG 57.331 36.000 12.85 0.00 32.08 3.95
3077 5404 4.411256 TCGACAAACTCTTAAAGGGTGT 57.589 40.909 0.00 0.00 0.00 4.16
3147 5477 5.928976 TCATCTTCCAAGAGTTGAACTTGA 58.071 37.500 0.00 0.00 44.92 3.02
3157 5499 0.893270 TTGAACTTGATGGTGGCCCG 60.893 55.000 0.00 0.00 0.00 6.13
3158 5500 2.676471 AACTTGATGGTGGCCCGC 60.676 61.111 0.00 0.00 0.00 6.13
3185 5527 3.439857 AATGGCCTCAAAGACTTGCTA 57.560 42.857 3.32 0.00 32.14 3.49
3425 5770 6.072175 GGTTCCTGCAAATATAACAGACAACA 60.072 38.462 0.00 0.00 33.10 3.33
3426 5771 7.367285 GTTCCTGCAAATATAACAGACAACAA 58.633 34.615 0.00 0.00 33.10 2.83
3427 5772 6.908825 TCCTGCAAATATAACAGACAACAAC 58.091 36.000 0.00 0.00 33.10 3.32
3800 6160 1.071071 GTACCCACTGTGCCACTACAA 59.929 52.381 1.29 0.00 0.00 2.41
3804 6164 1.476833 CCACTGTGCCACTACAAACCT 60.477 52.381 1.29 0.00 0.00 3.50
3849 6209 2.224402 GGGCATACTCTCCCTGAACATC 60.224 54.545 0.00 0.00 39.46 3.06
3859 6220 4.020751 TCTCCCTGAACATCAAGACTTCAG 60.021 45.833 10.37 10.37 40.37 3.02
3867 6228 0.318441 TCAAGACTTCAGGAGGCACG 59.682 55.000 0.00 0.00 35.01 5.34
3874 6235 3.129502 CAGGAGGCACGCACCATG 61.130 66.667 7.13 0.00 0.00 3.66
3877 6238 2.046892 GAGGCACGCACCATGACT 60.047 61.111 0.00 0.00 38.49 3.41
3878 6239 1.672356 GAGGCACGCACCATGACTT 60.672 57.895 0.00 0.00 34.75 3.01
3881 6242 0.031994 GGCACGCACCATGACTTTTT 59.968 50.000 0.00 0.00 0.00 1.94
3990 6387 7.704472 GTGTACAATTTGTCAATTTCTGTTCCA 59.296 33.333 5.07 0.00 29.41 3.53
4005 6402 2.321719 GTTCCACAAAAGGGGCCTAAA 58.678 47.619 0.84 0.00 0.00 1.85
4013 6410 4.020573 ACAAAAGGGGCCTAAAAGTTATGC 60.021 41.667 0.84 0.00 0.00 3.14
4039 6436 0.033228 TTTTTCAACGCATGGCCTGG 59.967 50.000 3.32 0.00 0.00 4.45
4094 6491 4.227300 ACCATGCAACTCAGGAAGGTATTA 59.773 41.667 0.00 0.00 0.00 0.98
4096 6493 4.901197 TGCAACTCAGGAAGGTATTACA 57.099 40.909 0.00 0.00 0.00 2.41
4119 6516 2.147958 TCACCGCACTATTTTGACACC 58.852 47.619 0.00 0.00 0.00 4.16
4125 6522 5.241949 ACCGCACTATTTTGACACCAATTTA 59.758 36.000 0.00 0.00 31.46 1.40
4199 6596 2.203294 GGGGGCGCCACGATAATT 60.203 61.111 30.85 0.00 0.00 1.40
4295 6692 2.501610 GACGATGAGGGCCCAGAC 59.498 66.667 27.56 15.59 0.00 3.51
4330 6727 0.172578 ATCGTCGACAATTCGCTCCA 59.827 50.000 17.16 0.00 45.46 3.86
4480 6877 7.308830 CCAGATAAGATAAGCAAATAACCCTGC 60.309 40.741 0.00 0.00 38.91 4.85
4618 7018 8.458573 AATGTACATGTTTTTGTAGGAGTGAA 57.541 30.769 9.63 0.00 32.92 3.18
4655 7055 1.644786 GACCTGTTTGGATTCCCGCG 61.645 60.000 0.00 0.00 39.71 6.46
4664 7064 2.750237 ATTCCCGCGGTTTGCTCC 60.750 61.111 26.12 0.00 43.27 4.70
4792 7192 6.119144 CCGAGTTGGTTAAATGATGTAAGG 57.881 41.667 0.00 0.00 0.00 2.69
4793 7193 5.065988 CCGAGTTGGTTAAATGATGTAAGGG 59.934 44.000 0.00 0.00 0.00 3.95
4794 7194 5.448632 CGAGTTGGTTAAATGATGTAAGGGC 60.449 44.000 0.00 0.00 0.00 5.19
4795 7195 5.329399 AGTTGGTTAAATGATGTAAGGGCA 58.671 37.500 0.00 0.00 0.00 5.36
4796 7196 5.957774 AGTTGGTTAAATGATGTAAGGGCAT 59.042 36.000 0.00 0.00 0.00 4.40
4797 7197 6.096846 AGTTGGTTAAATGATGTAAGGGCATC 59.903 38.462 0.00 0.00 43.97 3.91
4798 7198 5.765510 TGGTTAAATGATGTAAGGGCATCT 58.234 37.500 7.45 0.00 44.02 2.90
4799 7199 6.194235 TGGTTAAATGATGTAAGGGCATCTT 58.806 36.000 7.45 0.00 44.02 2.40
4800 7200 6.321181 TGGTTAAATGATGTAAGGGCATCTTC 59.679 38.462 7.45 0.00 44.02 2.87
4801 7201 6.321181 GGTTAAATGATGTAAGGGCATCTTCA 59.679 38.462 7.45 0.00 44.02 3.02
4802 7202 7.147915 GGTTAAATGATGTAAGGGCATCTTCAA 60.148 37.037 7.45 0.00 44.02 2.69
4803 7203 5.841957 AATGATGTAAGGGCATCTTCAAC 57.158 39.130 7.45 0.00 44.02 3.18
4804 7204 3.620488 TGATGTAAGGGCATCTTCAACC 58.380 45.455 7.45 0.00 44.02 3.77
4805 7205 3.010027 TGATGTAAGGGCATCTTCAACCA 59.990 43.478 7.45 0.00 44.02 3.67
4806 7206 2.790433 TGTAAGGGCATCTTCAACCAC 58.210 47.619 0.00 0.00 36.93 4.16
4807 7207 2.107378 TGTAAGGGCATCTTCAACCACA 59.893 45.455 0.00 0.00 36.93 4.17
4808 7208 2.380064 AAGGGCATCTTCAACCACAA 57.620 45.000 0.00 0.00 0.00 3.33
4809 7209 1.620822 AGGGCATCTTCAACCACAAC 58.379 50.000 0.00 0.00 0.00 3.32
4810 7210 0.603065 GGGCATCTTCAACCACAACC 59.397 55.000 0.00 0.00 0.00 3.77
4811 7211 0.603065 GGCATCTTCAACCACAACCC 59.397 55.000 0.00 0.00 0.00 4.11
4812 7212 0.240945 GCATCTTCAACCACAACCCG 59.759 55.000 0.00 0.00 0.00 5.28
4813 7213 0.240945 CATCTTCAACCACAACCCGC 59.759 55.000 0.00 0.00 0.00 6.13
4814 7214 0.179004 ATCTTCAACCACAACCCGCA 60.179 50.000 0.00 0.00 0.00 5.69
4815 7215 0.394488 TCTTCAACCACAACCCGCAA 60.394 50.000 0.00 0.00 0.00 4.85
4816 7216 0.457851 CTTCAACCACAACCCGCAAA 59.542 50.000 0.00 0.00 0.00 3.68
4817 7217 0.895530 TTCAACCACAACCCGCAAAA 59.104 45.000 0.00 0.00 0.00 2.44
4818 7218 0.895530 TCAACCACAACCCGCAAAAA 59.104 45.000 0.00 0.00 0.00 1.94
4819 7219 1.482593 TCAACCACAACCCGCAAAAAT 59.517 42.857 0.00 0.00 0.00 1.82
4820 7220 1.864082 CAACCACAACCCGCAAAAATC 59.136 47.619 0.00 0.00 0.00 2.17
4821 7221 0.391228 ACCACAACCCGCAAAAATCC 59.609 50.000 0.00 0.00 0.00 3.01
4822 7222 0.678950 CCACAACCCGCAAAAATCCT 59.321 50.000 0.00 0.00 0.00 3.24
4823 7223 1.336795 CCACAACCCGCAAAAATCCTC 60.337 52.381 0.00 0.00 0.00 3.71
4824 7224 0.966179 ACAACCCGCAAAAATCCTCC 59.034 50.000 0.00 0.00 0.00 4.30
4825 7225 1.256812 CAACCCGCAAAAATCCTCCT 58.743 50.000 0.00 0.00 0.00 3.69
4826 7226 1.067635 CAACCCGCAAAAATCCTCCTG 60.068 52.381 0.00 0.00 0.00 3.86
4827 7227 1.250840 ACCCGCAAAAATCCTCCTGC 61.251 55.000 0.00 0.00 0.00 4.85
4828 7228 1.250154 CCCGCAAAAATCCTCCTGCA 61.250 55.000 0.00 0.00 34.39 4.41
4829 7229 0.819582 CCGCAAAAATCCTCCTGCAT 59.180 50.000 0.00 0.00 34.39 3.96
4830 7230 1.202336 CCGCAAAAATCCTCCTGCATC 60.202 52.381 0.00 0.00 34.39 3.91
4831 7231 1.202336 CGCAAAAATCCTCCTGCATCC 60.202 52.381 0.00 0.00 34.39 3.51
4951 7379 5.007034 ACCGGATTTCATACAAACATGACA 58.993 37.500 9.46 0.00 34.69 3.58
4952 7380 5.652014 ACCGGATTTCATACAAACATGACAT 59.348 36.000 9.46 0.00 34.69 3.06
5014 7449 2.709934 GACCTTCCCCTAAACCTATCCC 59.290 54.545 0.00 0.00 0.00 3.85
5019 7454 1.693404 CCCCTAAACCTATCCCACGGA 60.693 57.143 0.00 0.00 35.55 4.69
5131 7567 2.231478 CTGGCGAGGAAGAGTAGAACAA 59.769 50.000 0.00 0.00 0.00 2.83
5268 7705 4.357947 TGGCGTCGGTGCTGTCTC 62.358 66.667 0.00 0.00 34.52 3.36
5344 7781 1.067776 GTTGTTCTCCTCCGTGATCGT 60.068 52.381 0.00 0.00 35.01 3.73
5345 7782 0.526211 TGTTCTCCTCCGTGATCGTG 59.474 55.000 0.00 0.00 35.01 4.35
5485 7925 2.179267 CTCGCTCACACGCTAGCA 59.821 61.111 16.45 0.00 38.70 3.49
5556 7996 3.056328 GTTGTTCCTCCTGCGCCC 61.056 66.667 4.18 0.00 0.00 6.13
5711 8152 0.388649 GTCTCCATCGTGCTGTCGTT 60.389 55.000 0.00 0.00 0.00 3.85
5715 8156 0.109086 CCATCGTGCTGTCGTTCTCT 60.109 55.000 0.00 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 0.095935 CGCTTCCTCGCATTGTTCAG 59.904 55.000 0.00 0.00 0.00 3.02
69 70 0.811616 CAGGCGGTATTCTCCTGCAC 60.812 60.000 0.00 0.00 40.63 4.57
152 154 4.057406 TGCTCCAAACAAAATGACCTTG 57.943 40.909 0.00 0.00 0.00 3.61
253 263 6.253746 CCTCATAGTTCTTCGCAATTTTCTG 58.746 40.000 0.00 0.00 0.00 3.02
264 274 3.071602 TGCCTATGCCCTCATAGTTCTTC 59.928 47.826 10.35 0.00 46.80 2.87
285 295 1.966451 GGAGAACCGTGGGCACTTG 60.966 63.158 0.00 0.00 0.00 3.16
295 305 0.951558 CAAGGTGGTTTGGAGAACCG 59.048 55.000 3.74 0.00 43.15 4.44
309 331 1.145571 TTCTACCCTGTTGCCAAGGT 58.854 50.000 0.00 0.00 38.90 3.50
311 333 2.558359 CCTTTTCTACCCTGTTGCCAAG 59.442 50.000 0.00 0.00 0.00 3.61
312 334 2.175931 TCCTTTTCTACCCTGTTGCCAA 59.824 45.455 0.00 0.00 0.00 4.52
322 344 4.695928 CCTAACACTTGCTCCTTTTCTACC 59.304 45.833 0.00 0.00 0.00 3.18
331 353 2.789409 ACCATCCTAACACTTGCTCC 57.211 50.000 0.00 0.00 0.00 4.70
440 497 7.541162 TCAATATTCAAATCTTCTTGTGGCAG 58.459 34.615 0.00 0.00 0.00 4.85
461 518 3.269381 TGGGCTGGTAAATTCCTCTCAAT 59.731 43.478 0.00 0.00 0.00 2.57
594 680 5.329035 CCAGATGGTGTTCTTTTTATGGG 57.671 43.478 0.00 0.00 0.00 4.00
609 695 5.782047 TGCATTTGTCTTTTAACCAGATGG 58.218 37.500 0.00 0.00 42.17 3.51
610 696 7.439056 AGTTTGCATTTGTCTTTTAACCAGATG 59.561 33.333 0.00 0.00 0.00 2.90
611 697 7.500141 AGTTTGCATTTGTCTTTTAACCAGAT 58.500 30.769 0.00 0.00 0.00 2.90
612 698 6.872920 AGTTTGCATTTGTCTTTTAACCAGA 58.127 32.000 0.00 0.00 0.00 3.86
613 699 8.816640 ATAGTTTGCATTTGTCTTTTAACCAG 57.183 30.769 0.00 0.00 0.00 4.00
614 700 7.870445 GGATAGTTTGCATTTGTCTTTTAACCA 59.130 33.333 0.00 0.00 0.00 3.67
615 701 7.870445 TGGATAGTTTGCATTTGTCTTTTAACC 59.130 33.333 0.00 0.00 0.00 2.85
616 702 8.810652 TGGATAGTTTGCATTTGTCTTTTAAC 57.189 30.769 0.00 0.00 0.00 2.01
617 703 9.823647 TTTGGATAGTTTGCATTTGTCTTTTAA 57.176 25.926 0.00 0.00 0.00 1.52
618 704 9.255304 GTTTGGATAGTTTGCATTTGTCTTTTA 57.745 29.630 0.00 0.00 0.00 1.52
619 705 7.768120 TGTTTGGATAGTTTGCATTTGTCTTTT 59.232 29.630 0.00 0.00 0.00 2.27
620 706 7.271511 TGTTTGGATAGTTTGCATTTGTCTTT 58.728 30.769 0.00 0.00 0.00 2.52
621 707 6.815089 TGTTTGGATAGTTTGCATTTGTCTT 58.185 32.000 0.00 0.00 0.00 3.01
622 708 6.403866 TGTTTGGATAGTTTGCATTTGTCT 57.596 33.333 0.00 0.00 0.00 3.41
663 749 8.780249 TGAAGAGGCAAATAAACTTTAGTGTAC 58.220 33.333 0.00 0.00 0.00 2.90
737 839 9.556030 CCTTAAGAAAACGGCTTATCTAAAAAG 57.444 33.333 3.36 0.00 0.00 2.27
757 860 6.294508 CGATTAAAATATGGCCACCCCTTAAG 60.295 42.308 8.16 0.00 0.00 1.85
791 894 0.540133 TTTGCATCCAAGGCAGAGCA 60.540 50.000 0.00 0.00 43.05 4.26
835 938 1.288752 CCGTTGTTGTTGGATGGGC 59.711 57.895 0.00 0.00 0.00 5.36
1101 1212 2.125673 ACGACGGCGGAAATGAGG 60.126 61.111 18.49 0.00 43.17 3.86
1475 2063 1.153369 GTAAGCGCTGGCAGATCCA 60.153 57.895 20.86 0.00 44.18 3.41
1488 2076 2.434359 AGCTTCGCCACGGTAAGC 60.434 61.111 14.07 14.07 44.70 3.09
1692 2280 3.784883 GCATCAGCGATGAGAACATAC 57.215 47.619 10.08 0.00 42.09 2.39
1806 2394 0.036388 TCCAAGGCGAACTGGACATC 60.036 55.000 0.00 0.00 0.00 3.06
2045 2633 3.912528 AGCCCATCTGGAATCAGCTATAA 59.087 43.478 0.00 0.00 40.69 0.98
2191 2779 4.688413 GCAGTATCTTCCATAGCTAACTGC 59.312 45.833 20.91 20.91 39.68 4.40
2446 3034 3.906720 TCTTGGGTAGCATTGAGTACC 57.093 47.619 6.98 6.98 38.43 3.34
2449 3037 4.074970 CAACTTCTTGGGTAGCATTGAGT 58.925 43.478 0.00 0.00 0.00 3.41
2458 3048 2.171659 TGCAGTGTCAACTTCTTGGGTA 59.828 45.455 0.00 0.00 32.98 3.69
2484 3074 9.260002 CATAAACATTAATCCTGGCCAAATTAC 57.740 33.333 16.23 0.00 0.00 1.89
2487 3077 7.436320 ACATAAACATTAATCCTGGCCAAAT 57.564 32.000 7.01 0.00 0.00 2.32
2510 3100 1.826327 TAACACGCGCGGAGTATAAC 58.174 50.000 35.22 0.00 0.00 1.89
2511 3101 2.780065 ATAACACGCGCGGAGTATAA 57.220 45.000 35.22 19.40 0.00 0.98
2512 3102 2.223548 ACAATAACACGCGCGGAGTATA 60.224 45.455 35.22 22.70 0.00 1.47
2540 3130 6.912591 CGGCCATAATTTGTATGTTTCTTCTC 59.087 38.462 2.24 0.00 0.00 2.87
2564 3154 6.255887 AGACTGACAAACTTCAGAAAGTAACG 59.744 38.462 7.12 0.00 45.07 3.18
2569 3159 6.535150 TGTACAGACTGACAAACTTCAGAAAG 59.465 38.462 10.08 0.00 45.19 2.62
2596 3186 2.849943 TGTATACAAGCCCTCCCATGTT 59.150 45.455 2.20 0.00 0.00 2.71
2602 3192 6.062095 ACATTAATGTGTATACAAGCCCTCC 58.938 40.000 20.19 0.00 40.84 4.30
2604 3194 8.272173 ACTAACATTAATGTGTATACAAGCCCT 58.728 33.333 21.46 4.07 41.61 5.19
2615 3205 5.183228 CCCGGAGAACTAACATTAATGTGT 58.817 41.667 21.46 13.07 41.61 3.72
2616 3206 5.183228 ACCCGGAGAACTAACATTAATGTG 58.817 41.667 21.46 12.44 41.61 3.21
2617 3207 5.431179 ACCCGGAGAACTAACATTAATGT 57.569 39.130 15.47 15.47 44.20 2.71
2621 3211 6.211184 TCAACTAACCCGGAGAACTAACATTA 59.789 38.462 0.73 0.00 0.00 1.90
2629 3219 3.397849 AGTTCAACTAACCCGGAGAAC 57.602 47.619 0.73 5.56 39.03 3.01
2649 3239 5.221422 CCTGAAAATTTCCAGGCACACTTAA 60.221 40.000 10.84 0.00 42.84 1.85
2708 4994 6.074356 GCACCTTTTTGTACATGCTTTAAGTG 60.074 38.462 9.15 5.77 0.00 3.16
2713 4999 3.181480 ACGCACCTTTTTGTACATGCTTT 60.181 39.130 13.37 0.24 0.00 3.51
2769 5062 2.186076 GTAAGCTCGTCGGATTCACTG 58.814 52.381 0.00 0.00 0.00 3.66
2770 5063 1.134560 GGTAAGCTCGTCGGATTCACT 59.865 52.381 0.00 0.00 0.00 3.41
2771 5064 1.134560 AGGTAAGCTCGTCGGATTCAC 59.865 52.381 0.00 0.00 0.00 3.18
2772 5065 1.404391 GAGGTAAGCTCGTCGGATTCA 59.596 52.381 0.00 0.00 0.00 2.57
2773 5066 1.269154 GGAGGTAAGCTCGTCGGATTC 60.269 57.143 0.00 0.00 0.00 2.52
2775 5068 1.445716 CGGAGGTAAGCTCGTCGGAT 61.446 60.000 0.00 0.00 0.00 4.18
2776 5069 2.110967 CGGAGGTAAGCTCGTCGGA 61.111 63.158 0.00 0.00 0.00 4.55
2777 5070 2.049475 CTCGGAGGTAAGCTCGTCGG 62.049 65.000 0.00 0.00 0.00 4.79
2778 5071 1.352404 CTCGGAGGTAAGCTCGTCG 59.648 63.158 0.00 0.00 0.00 5.12
2779 5072 1.064458 GCTCGGAGGTAAGCTCGTC 59.936 63.158 7.20 0.00 35.60 4.20
2780 5073 1.658686 CTGCTCGGAGGTAAGCTCGT 61.659 60.000 7.20 0.00 39.31 4.18
2781 5074 1.064946 CTGCTCGGAGGTAAGCTCG 59.935 63.158 7.20 0.00 39.31 5.03
2790 5083 0.891373 TCTTTCTGTCCTGCTCGGAG 59.109 55.000 0.00 0.00 44.20 4.63
2791 5084 1.273606 CTTCTTTCTGTCCTGCTCGGA 59.726 52.381 0.00 0.00 40.30 4.55
2909 5202 8.111545 TCATACTCTTACTAACTCACTGGGTAA 58.888 37.037 0.00 0.00 0.00 2.85
2930 5256 5.581085 GGATTCACTGGTGTTGTACTCATAC 59.419 44.000 0.00 0.00 0.00 2.39
2941 5267 2.107204 AGCTCTTTGGATTCACTGGTGT 59.893 45.455 0.53 0.00 0.00 4.16
2963 5289 2.623878 TTTTGTCCTGTTCAGCGGTA 57.376 45.000 0.00 0.00 0.00 4.02
2969 5295 3.130340 GTGCCTTCTTTTTGTCCTGTTCA 59.870 43.478 0.00 0.00 0.00 3.18
2991 5317 7.496920 TGTTAGATTATCCAATGACTCAGCAAG 59.503 37.037 0.00 0.00 0.00 4.01
3026 5352 6.519679 AATCATTCAGTGCAAGCAAGATAA 57.480 33.333 0.00 0.00 0.00 1.75
3028 5354 5.651139 AGTAATCATTCAGTGCAAGCAAGAT 59.349 36.000 0.00 0.00 0.00 2.40
3067 5393 7.086685 AGATAGAAGACCAAACACCCTTTAA 57.913 36.000 0.00 0.00 0.00 1.52
3074 5401 4.154918 CCTGCAAGATAGAAGACCAAACAC 59.845 45.833 0.00 0.00 34.07 3.32
3077 5404 4.640771 ACCTGCAAGATAGAAGACCAAA 57.359 40.909 0.00 0.00 34.07 3.28
3157 5499 1.475682 CTTTGAGGCCATTTCTCCAGC 59.524 52.381 5.01 0.00 0.00 4.85
3158 5500 2.751806 GTCTTTGAGGCCATTTCTCCAG 59.248 50.000 5.01 0.00 0.00 3.86
3185 5527 1.614317 GGCTATTCTTGGTGGCACTGT 60.614 52.381 18.45 0.37 0.00 3.55
3425 5770 5.455326 GCTCATAGATGATACCAAGGGTGTT 60.455 44.000 0.00 0.00 36.02 3.32
3426 5771 4.040952 GCTCATAGATGATACCAAGGGTGT 59.959 45.833 0.00 0.00 36.02 4.16
3427 5772 4.573900 GCTCATAGATGATACCAAGGGTG 58.426 47.826 0.00 0.00 36.02 4.61
3655 6001 7.448748 ACTTGAACAAAGTCACTTACTTGTT 57.551 32.000 5.89 5.89 46.60 2.83
3770 6130 5.013287 TGGCACAGTGGGTACTCTTTATTTA 59.987 40.000 1.84 0.00 34.07 1.40
3776 6136 0.396811 GTGGCACAGTGGGTACTCTT 59.603 55.000 13.86 0.00 41.80 2.85
3804 6164 4.135306 TGGCAAAACTACGTGAACCATAA 58.865 39.130 0.00 0.00 0.00 1.90
3849 6209 1.294659 GCGTGCCTCCTGAAGTCTTG 61.295 60.000 0.00 0.00 0.00 3.02
3859 6220 3.127533 GTCATGGTGCGTGCCTCC 61.128 66.667 0.00 0.00 0.00 4.30
3878 6239 7.994425 TTCATGTTAGCTACTCCATGAAAAA 57.006 32.000 25.62 13.56 45.97 1.94
3881 6242 6.767902 GGATTTCATGTTAGCTACTCCATGAA 59.232 38.462 24.79 24.79 46.78 2.57
3882 6243 6.291377 GGATTTCATGTTAGCTACTCCATGA 58.709 40.000 18.90 18.90 41.27 3.07
3883 6244 5.178252 CGGATTTCATGTTAGCTACTCCATG 59.822 44.000 16.00 16.00 36.80 3.66
3884 6245 5.300752 CGGATTTCATGTTAGCTACTCCAT 58.699 41.667 0.00 0.00 0.00 3.41
3885 6246 4.693283 CGGATTTCATGTTAGCTACTCCA 58.307 43.478 0.00 0.00 0.00 3.86
3886 6247 3.495001 GCGGATTTCATGTTAGCTACTCC 59.505 47.826 0.00 0.00 0.00 3.85
3887 6248 3.495001 GGCGGATTTCATGTTAGCTACTC 59.505 47.826 0.00 0.00 0.00 2.59
3990 6387 4.020573 GCATAACTTTTAGGCCCCTTTTGT 60.021 41.667 0.00 0.00 0.00 2.83
4005 6402 6.438763 CGTTGAAAAAGGAGAAGCATAACTT 58.561 36.000 0.00 0.00 42.98 2.66
4013 6410 3.568538 CCATGCGTTGAAAAAGGAGAAG 58.431 45.455 0.00 0.00 0.00 2.85
4039 6436 4.612033 GCTTTTTGAAGGCATCATGTTTGC 60.612 41.667 12.93 12.93 38.03 3.68
4094 6491 3.250040 GTCAAAATAGTGCGGTGAACTGT 59.750 43.478 0.00 0.00 0.00 3.55
4096 6493 3.250040 GTGTCAAAATAGTGCGGTGAACT 59.750 43.478 0.00 0.00 0.00 3.01
4119 6516 6.436843 GGTACCACACCTGAAGATAAATTG 57.563 41.667 7.15 0.00 44.79 2.32
4193 6590 2.732366 TCAGCTGCGTCTCGAATTATC 58.268 47.619 9.47 0.00 0.00 1.75
4199 6596 0.733909 CAACATCAGCTGCGTCTCGA 60.734 55.000 9.47 0.00 0.00 4.04
4205 6602 1.150827 TCAGAACAACATCAGCTGCG 58.849 50.000 9.47 5.02 0.00 5.18
4280 6677 3.866582 GGGTCTGGGCCCTCATCG 61.867 72.222 25.70 6.30 45.22 3.84
4295 6692 1.480137 ACGATGAGAAGCTTCTGAGGG 59.520 52.381 33.07 21.26 37.73 4.30
4330 6727 1.196012 GTACTAGCTCCCTGGCAGTT 58.804 55.000 14.43 0.00 34.17 3.16
4618 7018 1.689273 GTCTGACCAGTGACCAACTCT 59.311 52.381 0.00 0.00 36.83 3.24
4664 7064 5.782047 TCCAAAAACCATACATTGCTTCAG 58.218 37.500 0.00 0.00 0.00 3.02
4736 7136 3.007614 ACGCCGTTAGCCAATAGGATAAT 59.992 43.478 0.00 0.00 46.53 1.28
4745 7145 0.606944 ATTTGGACGCCGTTAGCCAA 60.607 50.000 4.92 4.92 38.54 4.52
4791 7191 0.603065 GGTTGTGGTTGAAGATGCCC 59.397 55.000 0.00 0.00 0.00 5.36
4792 7192 0.603065 GGGTTGTGGTTGAAGATGCC 59.397 55.000 0.00 0.00 0.00 4.40
4793 7193 0.240945 CGGGTTGTGGTTGAAGATGC 59.759 55.000 0.00 0.00 0.00 3.91
4794 7194 0.240945 GCGGGTTGTGGTTGAAGATG 59.759 55.000 0.00 0.00 0.00 2.90
4795 7195 0.179004 TGCGGGTTGTGGTTGAAGAT 60.179 50.000 0.00 0.00 0.00 2.40
4796 7196 0.394488 TTGCGGGTTGTGGTTGAAGA 60.394 50.000 0.00 0.00 0.00 2.87
4797 7197 0.457851 TTTGCGGGTTGTGGTTGAAG 59.542 50.000 0.00 0.00 0.00 3.02
4798 7198 0.895530 TTTTGCGGGTTGTGGTTGAA 59.104 45.000 0.00 0.00 0.00 2.69
4799 7199 0.895530 TTTTTGCGGGTTGTGGTTGA 59.104 45.000 0.00 0.00 0.00 3.18
4800 7200 1.864082 GATTTTTGCGGGTTGTGGTTG 59.136 47.619 0.00 0.00 0.00 3.77
4801 7201 1.202592 GGATTTTTGCGGGTTGTGGTT 60.203 47.619 0.00 0.00 0.00 3.67
4802 7202 0.391228 GGATTTTTGCGGGTTGTGGT 59.609 50.000 0.00 0.00 0.00 4.16
4803 7203 0.678950 AGGATTTTTGCGGGTTGTGG 59.321 50.000 0.00 0.00 0.00 4.17
4804 7204 1.336795 GGAGGATTTTTGCGGGTTGTG 60.337 52.381 0.00 0.00 0.00 3.33
4805 7205 0.966179 GGAGGATTTTTGCGGGTTGT 59.034 50.000 0.00 0.00 0.00 3.32
4806 7206 1.067635 CAGGAGGATTTTTGCGGGTTG 60.068 52.381 0.00 0.00 0.00 3.77
4807 7207 1.256812 CAGGAGGATTTTTGCGGGTT 58.743 50.000 0.00 0.00 0.00 4.11
4808 7208 1.250840 GCAGGAGGATTTTTGCGGGT 61.251 55.000 0.00 0.00 0.00 5.28
4809 7209 1.250154 TGCAGGAGGATTTTTGCGGG 61.250 55.000 0.00 0.00 39.34 6.13
4810 7210 0.819582 ATGCAGGAGGATTTTTGCGG 59.180 50.000 0.00 0.00 39.34 5.69
4811 7211 1.202336 GGATGCAGGAGGATTTTTGCG 60.202 52.381 0.00 0.00 39.34 4.85
4812 7212 1.202336 CGGATGCAGGAGGATTTTTGC 60.202 52.381 0.00 0.00 37.09 3.68
4813 7213 2.094675 ACGGATGCAGGAGGATTTTTG 58.905 47.619 0.00 0.00 0.00 2.44
4814 7214 2.369394 GACGGATGCAGGAGGATTTTT 58.631 47.619 0.00 0.00 0.00 1.94
4815 7215 1.408822 GGACGGATGCAGGAGGATTTT 60.409 52.381 0.00 0.00 0.00 1.82
4816 7216 0.181350 GGACGGATGCAGGAGGATTT 59.819 55.000 0.00 0.00 0.00 2.17
4817 7217 1.832912 GGACGGATGCAGGAGGATT 59.167 57.895 0.00 0.00 0.00 3.01
4818 7218 2.502492 CGGACGGATGCAGGAGGAT 61.502 63.158 0.00 0.00 0.00 3.24
4819 7219 3.147595 CGGACGGATGCAGGAGGA 61.148 66.667 0.00 0.00 0.00 3.71
4820 7220 4.899239 GCGGACGGATGCAGGAGG 62.899 72.222 0.00 0.00 0.00 4.30
4902 7310 7.259882 TGTGTTTGCATGAATTTCATCCTATC 58.740 34.615 8.95 0.00 34.28 2.08
4998 7433 1.693404 CCGTGGGATAGGTTTAGGGGA 60.693 57.143 0.00 0.00 0.00 4.81
5091 7527 1.341531 AGAGACCACACCTTCACTTCG 59.658 52.381 0.00 0.00 0.00 3.79
5229 7666 3.282021 CCATTTTCATCGTGGACCTCAT 58.718 45.455 0.00 0.00 34.94 2.90
5319 7756 1.301401 CGGAGGAGAACAACGCCAA 60.301 57.895 0.00 0.00 40.96 4.52
5485 7925 0.251430 GGCGGAGGGCTAGATCTACT 60.251 60.000 0.00 0.00 42.94 2.57
5556 7996 1.804372 GCCTCTATCAGTGTTCCAGCG 60.804 57.143 0.00 0.00 0.00 5.18
5711 8152 1.166129 CAAGGTCTCCGACGAAGAGA 58.834 55.000 0.00 0.00 38.05 3.10
5715 8156 1.532316 ACCCAAGGTCTCCGACGAA 60.532 57.895 0.00 0.00 32.65 3.85


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

AutoCloner maintained by Alex Coulton.