Multiple sequence alignment - TraesCS2D01G520600

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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 TraesCS2D01G520600 chr2D 100.000 3543 0 0 1 3543 609651213 609654755 0.000000e+00 6543.0
1 TraesCS2D01G520600 chr2D 79.675 123 22 3 2791 2911 394522305 394522184 6.300000e-13 86.1
2 TraesCS2D01G520600 chr2A 90.449 2094 126 30 933 3002 742561874 742559831 0.000000e+00 2691.0
3 TraesCS2D01G520600 chr2A 94.414 555 30 1 2990 3543 742558431 742557877 0.000000e+00 852.0
4 TraesCS2D01G520600 chr2A 90.521 211 20 0 88 298 726565623 726565413 2.690000e-71 279.0
5 TraesCS2D01G520600 chr2B 91.417 1538 104 13 1050 2575 744094026 744095547 0.000000e+00 2084.0
6 TraesCS2D01G520600 chr2B 92.802 778 55 1 88 865 103951350 103950574 0.000000e+00 1125.0
7 TraesCS2D01G520600 chr2B 90.233 430 41 1 2009 2437 744090316 744090745 8.590000e-156 560.0
8 TraesCS2D01G520600 chr2B 91.594 345 24 4 2801 3143 744111785 744112126 4.140000e-129 472.0
9 TraesCS2D01G520600 chr2B 93.291 313 21 0 2980 3292 744112123 744112435 2.490000e-126 462.0
10 TraesCS2D01G520600 chr2B 89.231 130 12 2 2671 2799 744110015 744110143 1.020000e-35 161.0
11 TraesCS2D01G520600 chr2B 98.182 55 1 0 3314 3368 744112492 744112438 2.910000e-16 97.1
12 TraesCS2D01G520600 chr4A 90.103 778 77 0 88 865 646732886 646732109 0.000000e+00 1011.0
13 TraesCS2D01G520600 chr6B 91.111 495 44 0 88 582 183329821 183329327 0.000000e+00 671.0
14 TraesCS2D01G520600 chr4D 79.034 725 148 4 130 852 16068130 16068852 8.840000e-136 494.0
15 TraesCS2D01G520600 chr4D 98.864 88 1 0 1 88 502263954 502264041 1.320000e-34 158.0
16 TraesCS2D01G520600 chr4B 77.461 772 165 9 89 855 2192602 2191835 1.500000e-123 453.0
17 TraesCS2D01G520600 chr4B 77.655 631 94 24 1081 1701 53313346 53313939 1.220000e-89 340.0
18 TraesCS2D01G520600 chr4B 87.692 65 8 0 2882 2946 453258537 453258601 3.790000e-10 76.8
19 TraesCS2D01G520600 chr3B 79.242 607 122 4 112 717 131303837 131303234 1.520000e-113 420.0
20 TraesCS2D01G520600 chr3B 87.324 71 7 2 2897 2967 120394257 120394325 2.930000e-11 80.5
21 TraesCS2D01G520600 chr1D 100.000 87 0 0 1 87 426140437 426140523 1.020000e-35 161.0
22 TraesCS2D01G520600 chr1D 98.876 89 1 0 1 89 254767233 254767145 3.660000e-35 159.0
23 TraesCS2D01G520600 chr1D 98.876 89 1 0 1 89 470987275 470987187 3.660000e-35 159.0
24 TraesCS2D01G520600 chrUn 98.864 88 1 0 1 88 108331020 108330933 1.320000e-34 158.0
25 TraesCS2D01G520600 chrUn 98.864 88 1 0 1 88 337409312 337409399 1.320000e-34 158.0
26 TraesCS2D01G520600 chr5D 98.864 88 1 0 1 88 549440053 549439966 1.320000e-34 158.0
27 TraesCS2D01G520600 chr5D 80.808 99 15 3 2848 2945 240088091 240087996 1.360000e-09 75.0
28 TraesCS2D01G520600 chr3D 95.918 98 2 2 1 96 1620831 1620734 1.320000e-34 158.0
29 TraesCS2D01G520600 chr3D 98.864 88 1 0 1 88 587676847 587676934 1.320000e-34 158.0
30 TraesCS2D01G520600 chr3A 78.325 203 36 7 2793 2991 749496658 749496460 1.340000e-24 124.0
31 TraesCS2D01G520600 chr3A 81.818 66 12 0 2668 2733 10274542 10274607 4.940000e-04 56.5
32 TraesCS2D01G520600 chr5B 82.828 99 13 3 2848 2945 263518864 263518959 6.300000e-13 86.1
33 TraesCS2D01G520600 chr1B 86.957 69 6 3 2879 2946 415468090 415468156 1.360000e-09 75.0
34 TraesCS2D01G520600 chr5A 80.808 99 14 3 2848 2945 313876930 313877024 4.910000e-09 73.1
35 TraesCS2D01G520600 chr5A 100.000 28 0 0 2706 2733 350268354 350268381 6.000000e-03 52.8
36 TraesCS2D01G520600 chr6D 100.000 29 0 0 2705 2733 315935631 315935603 2.000000e-03 54.7
37 TraesCS2D01G520600 chr6D 100.000 28 0 0 2706 2733 340856120 340856147 6.000000e-03 52.8
38 TraesCS2D01G520600 chr7A 100.000 28 0 0 2706 2733 421794020 421793993 6.000000e-03 52.8
39 TraesCS2D01G520600 chr7A 100.000 28 0 0 2706 2733 603902761 603902788 6.000000e-03 52.8


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 TraesCS2D01G520600 chr2D 609651213 609654755 3542 False 6543.0 6543 100.0000 1 3543 1 chr2D.!!$F1 3542
1 TraesCS2D01G520600 chr2A 742557877 742561874 3997 True 1771.5 2691 92.4315 933 3543 2 chr2A.!!$R2 2610
2 TraesCS2D01G520600 chr2B 744090316 744095547 5231 False 1322.0 2084 90.8250 1050 2575 2 chr2B.!!$F1 1525
3 TraesCS2D01G520600 chr2B 103950574 103951350 776 True 1125.0 1125 92.8020 88 865 1 chr2B.!!$R1 777
4 TraesCS2D01G520600 chr2B 744110015 744112435 2420 False 365.0 472 91.3720 2671 3292 3 chr2B.!!$F2 621
5 TraesCS2D01G520600 chr4A 646732109 646732886 777 True 1011.0 1011 90.1030 88 865 1 chr4A.!!$R1 777
6 TraesCS2D01G520600 chr4D 16068130 16068852 722 False 494.0 494 79.0340 130 852 1 chr4D.!!$F1 722
7 TraesCS2D01G520600 chr4B 2191835 2192602 767 True 453.0 453 77.4610 89 855 1 chr4B.!!$R1 766
8 TraesCS2D01G520600 chr4B 53313346 53313939 593 False 340.0 340 77.6550 1081 1701 1 chr4B.!!$F1 620
9 TraesCS2D01G520600 chr3B 131303234 131303837 603 True 420.0 420 79.2420 112 717 1 chr3B.!!$R1 605

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
907 909 0.031585 TCGCTACAGTGTTCGTTGCT 59.968 50.0 0.00 0.0 33.7 3.91 F
1519 4196 0.249953 TGGAGCACGGCGTTTAGAAA 60.250 50.0 11.19 0.0 0.0 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1857 4534 1.153597 TCATACGCTGCGATGCCAAG 61.154 55.000 30.47 10.56 0.00 3.61 R
3190 8930 1.069091 TGATTTGTGCGTGCTCACATG 60.069 47.619 7.60 0.00 45.26 3.21 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
19 20 0.826062 CAAATGCCTCCATTGGTCCC 59.174 55.000 1.86 0.00 40.69 4.46
20 21 0.684153 AAATGCCTCCATTGGTCCCG 60.684 55.000 1.86 0.00 40.69 5.14
21 22 2.572333 AATGCCTCCATTGGTCCCGG 62.572 60.000 1.86 0.00 40.09 5.73
22 23 3.728373 GCCTCCATTGGTCCCGGT 61.728 66.667 0.00 0.00 0.00 5.28
23 24 3.087065 CCTCCATTGGTCCCGGTT 58.913 61.111 0.00 0.00 0.00 4.44
24 25 1.077716 CCTCCATTGGTCCCGGTTC 60.078 63.158 0.00 0.00 0.00 3.62
26 27 2.180159 CTCCATTGGTCCCGGTTCGT 62.180 60.000 0.00 0.00 0.00 3.85
27 28 2.038269 CCATTGGTCCCGGTTCGTG 61.038 63.158 0.00 0.00 0.00 4.35
28 29 2.038269 CATTGGTCCCGGTTCGTGG 61.038 63.158 0.00 0.00 0.00 4.94
29 30 3.912745 ATTGGTCCCGGTTCGTGGC 62.913 63.158 0.00 0.00 0.00 5.01
32 33 3.998672 GTCCCGGTTCGTGGCAGA 61.999 66.667 0.00 0.00 0.00 4.26
33 34 3.235481 TCCCGGTTCGTGGCAGAA 61.235 61.111 0.00 0.00 0.00 3.02
35 36 2.030562 CCGGTTCGTGGCAGAACT 59.969 61.111 21.03 0.00 46.99 3.01
36 37 3.244105 CGGTTCGTGGCAGAACTG 58.756 61.111 21.03 19.50 46.99 3.16
40 41 1.070786 TTCGTGGCAGAACTGGGAC 59.929 57.895 3.99 0.00 0.00 4.46
41 42 1.407656 TTCGTGGCAGAACTGGGACT 61.408 55.000 3.99 0.00 0.00 3.85
42 43 0.541063 TCGTGGCAGAACTGGGACTA 60.541 55.000 3.99 0.00 0.00 2.59
43 44 0.320374 CGTGGCAGAACTGGGACTAA 59.680 55.000 3.99 0.00 0.00 2.24
44 45 1.066143 CGTGGCAGAACTGGGACTAAT 60.066 52.381 3.99 0.00 0.00 1.73
45 46 2.359900 GTGGCAGAACTGGGACTAATG 58.640 52.381 3.99 0.00 0.00 1.90
47 48 1.408822 GGCAGAACTGGGACTAATGGG 60.409 57.143 3.99 0.00 0.00 4.00
48 49 2.019156 GCAGAACTGGGACTAATGGGC 61.019 57.143 3.99 0.00 0.00 5.36
49 50 1.561542 CAGAACTGGGACTAATGGGCT 59.438 52.381 0.00 0.00 0.00 5.19
50 51 1.561542 AGAACTGGGACTAATGGGCTG 59.438 52.381 0.00 0.00 0.00 4.85
51 52 0.625849 AACTGGGACTAATGGGCTGG 59.374 55.000 0.00 0.00 0.00 4.85
52 53 1.152881 CTGGGACTAATGGGCTGGC 60.153 63.158 0.00 0.00 0.00 4.85
53 54 2.195956 GGGACTAATGGGCTGGCC 59.804 66.667 14.23 14.23 0.00 5.36
55 56 1.152881 GGACTAATGGGCTGGCCAG 60.153 63.158 29.34 29.34 37.98 4.85
56 57 1.152881 GACTAATGGGCTGGCCAGG 60.153 63.158 33.46 20.55 37.98 4.45
68 69 3.431725 GCCAGGCCCGAACGAAAG 61.432 66.667 0.00 0.00 0.00 2.62
73 74 4.717313 GCCCGAACGAAAGCCCCT 62.717 66.667 0.00 0.00 0.00 4.79
74 75 2.033602 CCCGAACGAAAGCCCCTT 59.966 61.111 0.00 0.00 0.00 3.95
75 76 1.602605 CCCGAACGAAAGCCCCTTT 60.603 57.895 0.00 0.00 36.29 3.11
76 77 1.176619 CCCGAACGAAAGCCCCTTTT 61.177 55.000 0.00 0.00 33.49 2.27
78 79 1.335597 CCGAACGAAAGCCCCTTTTTC 60.336 52.381 0.00 0.00 33.49 2.29
79 80 1.607148 CGAACGAAAGCCCCTTTTTCT 59.393 47.619 0.00 0.00 33.49 2.52
80 81 2.809696 CGAACGAAAGCCCCTTTTTCTA 59.190 45.455 0.00 0.00 33.49 2.10
81 82 3.364664 CGAACGAAAGCCCCTTTTTCTAC 60.365 47.826 0.00 0.00 33.49 2.59
82 83 3.503800 ACGAAAGCCCCTTTTTCTACT 57.496 42.857 0.00 0.00 33.49 2.57
83 84 4.628963 ACGAAAGCCCCTTTTTCTACTA 57.371 40.909 0.00 0.00 33.49 1.82
84 85 4.576879 ACGAAAGCCCCTTTTTCTACTAG 58.423 43.478 0.00 0.00 33.49 2.57
85 86 4.041321 ACGAAAGCCCCTTTTTCTACTAGT 59.959 41.667 0.00 0.00 33.49 2.57
86 87 4.392138 CGAAAGCCCCTTTTTCTACTAGTG 59.608 45.833 5.39 0.00 33.49 2.74
206 207 3.813166 CCCTTAAGAACTCGAGCACAAAA 59.187 43.478 13.61 1.11 0.00 2.44
345 346 2.536365 TCGATCCAGTGTAACGATTGC 58.464 47.619 0.00 0.00 45.86 3.56
350 351 1.327460 CCAGTGTAACGATTGCCGATG 59.673 52.381 0.00 0.00 45.86 3.84
395 396 1.270094 CGCCATAACCGAGGATAAGCA 60.270 52.381 0.00 0.00 0.00 3.91
609 610 1.737793 CCCAGGTAACGCTCATTGAAC 59.262 52.381 0.00 0.00 46.39 3.18
645 646 6.815142 GGATGCTCAAAACAGCTTTCATATTT 59.185 34.615 0.00 0.00 40.39 1.40
681 682 3.493699 CGGGTGTGTTAGGACTGAAGAAA 60.494 47.826 0.00 0.00 0.00 2.52
718 720 3.756434 CCTGTTTACACATTGACCCGAAT 59.244 43.478 0.00 0.00 30.39 3.34
735 737 4.565652 CCCGAATAGTCCCCATAAATCTGG 60.566 50.000 0.00 0.00 35.95 3.86
758 760 2.355108 GCACCTCATTAAGCCTGAGTGA 60.355 50.000 4.34 0.00 38.77 3.41
773 775 2.965831 TGAGTGAACTAGACAGCTTGGT 59.034 45.455 0.00 0.00 0.00 3.67
820 822 6.003326 TCTGCAAAAAGTAGATGATTGACCA 58.997 36.000 0.00 0.00 33.76 4.02
866 868 3.619900 TCCTCTATCTACCATGGCTGT 57.380 47.619 13.04 0.00 0.00 4.40
867 869 3.928754 TCCTCTATCTACCATGGCTGTT 58.071 45.455 13.04 2.54 0.00 3.16
868 870 3.898123 TCCTCTATCTACCATGGCTGTTC 59.102 47.826 13.04 0.00 0.00 3.18
869 871 3.007398 CCTCTATCTACCATGGCTGTTCC 59.993 52.174 13.04 0.00 0.00 3.62
871 873 4.298626 TCTATCTACCATGGCTGTTCCTT 58.701 43.478 13.04 0.00 35.26 3.36
872 874 3.567478 ATCTACCATGGCTGTTCCTTC 57.433 47.619 13.04 0.00 35.26 3.46
873 875 2.551270 TCTACCATGGCTGTTCCTTCT 58.449 47.619 13.04 0.00 35.26 2.85
875 877 0.773644 ACCATGGCTGTTCCTTCTGT 59.226 50.000 13.04 0.00 35.26 3.41
877 879 1.546323 CCATGGCTGTTCCTTCTGTGT 60.546 52.381 0.00 0.00 35.26 3.72
878 880 1.808945 CATGGCTGTTCCTTCTGTGTC 59.191 52.381 0.00 0.00 35.26 3.67
879 881 1.131638 TGGCTGTTCCTTCTGTGTCT 58.868 50.000 0.00 0.00 35.26 3.41
880 882 1.490490 TGGCTGTTCCTTCTGTGTCTT 59.510 47.619 0.00 0.00 35.26 3.01
881 883 2.092429 TGGCTGTTCCTTCTGTGTCTTT 60.092 45.455 0.00 0.00 35.26 2.52
882 884 2.952310 GGCTGTTCCTTCTGTGTCTTTT 59.048 45.455 0.00 0.00 0.00 2.27
883 885 3.003793 GGCTGTTCCTTCTGTGTCTTTTC 59.996 47.826 0.00 0.00 0.00 2.29
884 886 3.627577 GCTGTTCCTTCTGTGTCTTTTCA 59.372 43.478 0.00 0.00 0.00 2.69
885 887 4.496507 GCTGTTCCTTCTGTGTCTTTTCAC 60.497 45.833 0.00 0.00 38.63 3.18
887 889 3.812156 TCCTTCTGTGTCTTTTCACGA 57.188 42.857 0.00 0.00 40.74 4.35
889 891 4.307432 TCCTTCTGTGTCTTTTCACGATC 58.693 43.478 0.00 0.00 40.74 3.69
890 892 3.121944 CCTTCTGTGTCTTTTCACGATCG 59.878 47.826 14.88 14.88 40.74 3.69
891 893 2.058798 TCTGTGTCTTTTCACGATCGC 58.941 47.619 16.60 0.00 40.74 4.58
892 894 2.061773 CTGTGTCTTTTCACGATCGCT 58.938 47.619 16.60 0.00 40.74 4.93
893 895 3.057806 TCTGTGTCTTTTCACGATCGCTA 60.058 43.478 16.60 0.00 40.74 4.26
894 896 2.984471 TGTGTCTTTTCACGATCGCTAC 59.016 45.455 16.60 3.76 40.74 3.58
895 897 2.984471 GTGTCTTTTCACGATCGCTACA 59.016 45.455 16.60 6.35 0.00 2.74
897 899 3.243336 GTCTTTTCACGATCGCTACAGT 58.757 45.455 16.60 0.00 0.00 3.55
898 900 3.059570 GTCTTTTCACGATCGCTACAGTG 59.940 47.826 16.60 4.80 36.06 3.66
899 901 2.717580 TTTCACGATCGCTACAGTGT 57.282 45.000 16.60 0.00 36.16 3.55
900 902 2.717580 TTCACGATCGCTACAGTGTT 57.282 45.000 16.60 0.00 36.16 3.32
903 905 3.307829 CGATCGCTACAGTGTTCGT 57.692 52.632 0.26 0.00 40.68 3.85
904 906 1.614385 CGATCGCTACAGTGTTCGTT 58.386 50.000 0.26 0.94 40.68 3.85
906 908 1.059264 GATCGCTACAGTGTTCGTTGC 59.941 52.381 0.00 0.00 0.00 4.17
907 909 0.031585 TCGCTACAGTGTTCGTTGCT 59.968 50.000 0.00 0.00 33.70 3.91
908 910 1.267533 TCGCTACAGTGTTCGTTGCTA 59.732 47.619 0.00 0.00 33.70 3.49
909 911 1.385743 CGCTACAGTGTTCGTTGCTAC 59.614 52.381 0.00 0.00 33.70 3.58
910 912 2.400399 GCTACAGTGTTCGTTGCTACA 58.600 47.619 0.00 0.00 33.20 2.74
912 914 3.246699 GCTACAGTGTTCGTTGCTACAAA 59.753 43.478 0.00 0.00 33.20 2.83
913 915 3.944422 ACAGTGTTCGTTGCTACAAAG 57.056 42.857 0.00 0.00 0.00 2.77
914 916 3.267483 ACAGTGTTCGTTGCTACAAAGT 58.733 40.909 0.00 0.00 0.00 2.66
915 917 3.687698 ACAGTGTTCGTTGCTACAAAGTT 59.312 39.130 0.00 0.00 0.00 2.66
916 918 4.155280 ACAGTGTTCGTTGCTACAAAGTTT 59.845 37.500 0.00 0.00 0.00 2.66
917 919 5.352016 ACAGTGTTCGTTGCTACAAAGTTTA 59.648 36.000 0.00 0.00 0.00 2.01
918 920 5.675444 CAGTGTTCGTTGCTACAAAGTTTAC 59.325 40.000 0.00 0.00 0.00 2.01
919 921 4.663091 GTGTTCGTTGCTACAAAGTTTACG 59.337 41.667 0.00 0.90 0.00 3.18
920 922 4.329528 TGTTCGTTGCTACAAAGTTTACGT 59.670 37.500 0.00 0.00 0.00 3.57
922 924 6.200665 TGTTCGTTGCTACAAAGTTTACGTAT 59.799 34.615 0.00 0.00 0.00 3.06
923 925 6.768029 TCGTTGCTACAAAGTTTACGTATT 57.232 33.333 0.00 0.00 0.00 1.89
924 926 7.176285 TCGTTGCTACAAAGTTTACGTATTT 57.824 32.000 0.00 0.00 0.00 1.40
925 927 7.629130 TCGTTGCTACAAAGTTTACGTATTTT 58.371 30.769 0.00 0.00 0.00 1.82
926 928 8.121708 TCGTTGCTACAAAGTTTACGTATTTTT 58.878 29.630 0.00 0.00 0.00 1.94
963 969 5.105106 TGTCTGAATAAGGAAAGGCGATACA 60.105 40.000 0.00 0.00 0.00 2.29
998 1004 3.431725 GGTTCGCTCGGCCCTTTG 61.432 66.667 0.00 0.00 0.00 2.77
1019 1025 3.114616 CTCGCTGCTGTTGGACGG 61.115 66.667 0.00 0.00 0.00 4.79
1021 1027 3.414700 CGCTGCTGTTGGACGGAC 61.415 66.667 0.00 0.00 0.00 4.79
1022 1028 3.414700 GCTGCTGTTGGACGGACG 61.415 66.667 0.00 0.00 0.00 4.79
1023 1029 3.414700 CTGCTGTTGGACGGACGC 61.415 66.667 0.00 0.00 0.00 5.19
1029 1035 4.717629 TTGGACGGACGCAGCGAG 62.718 66.667 24.65 14.60 0.00 5.03
1106 3768 3.828875 AGGAAACCAGATCGATCTTCC 57.171 47.619 26.39 26.39 34.22 3.46
1118 3780 1.910580 GATCTTCCCAAGTCCCGGCA 61.911 60.000 0.00 0.00 0.00 5.69
1124 3792 2.676121 CAAGTCCCGGCAATGGCA 60.676 61.111 7.75 0.00 43.71 4.92
1155 3823 1.303888 CCTCCCACAGCAACAGCAT 60.304 57.895 0.00 0.00 0.00 3.79
1475 4152 1.067212 AGGCAGATACGGTTCGATGAC 59.933 52.381 0.00 0.00 0.00 3.06
1506 4183 1.376466 GGAAACCTCAGCTGGAGCA 59.624 57.895 15.13 0.00 45.16 4.26
1515 4192 2.740826 GCTGGAGCACGGCGTTTA 60.741 61.111 11.19 0.00 42.54 2.01
1516 4193 2.740714 GCTGGAGCACGGCGTTTAG 61.741 63.158 11.19 0.00 42.54 1.85
1517 4194 1.080093 CTGGAGCACGGCGTTTAGA 60.080 57.895 11.19 0.00 0.00 2.10
1518 4195 0.669318 CTGGAGCACGGCGTTTAGAA 60.669 55.000 11.19 0.00 0.00 2.10
1519 4196 0.249953 TGGAGCACGGCGTTTAGAAA 60.250 50.000 11.19 0.00 0.00 2.52
1520 4197 0.442699 GGAGCACGGCGTTTAGAAAG 59.557 55.000 11.19 0.00 0.00 2.62
1590 4267 2.043752 TGATCGACCCGGCCACTA 60.044 61.111 2.24 0.00 0.00 2.74
1592 4269 3.501458 GATCGACCCGGCCACTAGC 62.501 68.421 2.24 0.00 42.60 3.42
1601 4278 1.213537 GGCCACTAGCGTCGTGTTA 59.786 57.895 0.00 0.00 45.17 2.41
1610 4287 1.941476 GCGTCGTGTTACTCTTGCCG 61.941 60.000 0.00 0.00 0.00 5.69
1673 4350 1.414919 TCCAGACGTTTTGCACTAGGT 59.585 47.619 0.00 0.00 0.00 3.08
1803 4480 4.455877 CCCCAGTAACTTTAGCAACTTCAG 59.544 45.833 0.00 0.00 0.00 3.02
1857 4534 2.237393 TTTCTTGGCATGCAAACACC 57.763 45.000 21.36 0.64 0.00 4.16
1871 4548 4.170062 CACCTTGGCATCGCAGCG 62.170 66.667 9.06 9.06 34.64 5.18
2066 4743 1.213537 GGTTCCGTGGTCGAATCGA 59.786 57.895 0.00 0.00 39.71 3.59
2093 4770 3.759581 GATCACCATGCCATACCAAGAT 58.240 45.455 0.00 0.00 0.00 2.40
2165 4842 3.587951 AGATGGATGATGGGAGGATTCTG 59.412 47.826 0.00 0.00 0.00 3.02
2180 4857 2.631160 TTCTGTTGTGGGTGTCGAAT 57.369 45.000 0.00 0.00 0.00 3.34
2193 4870 1.445410 TCGAATGACAAGACGCGGG 60.445 57.895 12.47 0.00 0.00 6.13
2194 4871 2.785258 GAATGACAAGACGCGGGC 59.215 61.111 12.47 1.16 0.00 6.13
2264 4941 2.303890 AGTTGAGATGTCATGCCACTCA 59.696 45.455 0.00 5.35 36.11 3.41
2265 4942 3.054582 AGTTGAGATGTCATGCCACTCAT 60.055 43.478 8.96 0.35 37.43 2.90
2318 4995 1.405661 GGTCTTCCGTGGATCAGGAAC 60.406 57.143 11.11 5.37 41.19 3.62
2324 5001 0.102481 CGTGGATCAGGAACTACGGG 59.898 60.000 7.41 0.00 36.02 5.28
2395 5072 4.019321 ACATTACTTCACAGGTGTGGCTAT 60.019 41.667 10.18 0.00 45.65 2.97
2401 5078 2.623416 TCACAGGTGTGGCTATATCTCG 59.377 50.000 10.18 0.00 45.65 4.04
2411 5088 4.214971 GTGGCTATATCTCGGTCGACTTAA 59.785 45.833 16.46 0.14 0.00 1.85
2413 5090 5.475909 TGGCTATATCTCGGTCGACTTAAAT 59.524 40.000 16.46 7.31 0.00 1.40
2419 5096 6.589830 ATCTCGGTCGACTTAAATTTGATG 57.410 37.500 16.46 0.00 0.00 3.07
2442 5119 8.627208 ATGAAGTTAAGTCAAATGATGTCACT 57.373 30.769 0.00 0.00 0.00 3.41
2552 5232 6.739331 TGGAATATTTGTGGAACTTGGTTT 57.261 33.333 0.00 0.00 38.04 3.27
2651 5331 6.602803 TGTGTAATAGATTTCACATGCATGGT 59.397 34.615 29.41 13.14 41.18 3.55
2654 5334 6.534475 AATAGATTTCACATGCATGGTTGT 57.466 33.333 29.41 8.34 0.00 3.32
2664 5344 2.591923 TGCATGGTTGTATGTTGTGGT 58.408 42.857 0.00 0.00 0.00 4.16
2667 5347 4.006989 GCATGGTTGTATGTTGTGGTAGA 58.993 43.478 0.00 0.00 0.00 2.59
2668 5348 4.640201 GCATGGTTGTATGTTGTGGTAGAT 59.360 41.667 0.00 0.00 0.00 1.98
2669 5349 5.220854 GCATGGTTGTATGTTGTGGTAGATC 60.221 44.000 0.00 0.00 0.00 2.75
2674 5354 8.158132 TGGTTGTATGTTGTGGTAGATCTTTTA 58.842 33.333 0.00 0.00 0.00 1.52
2775 5455 6.440010 AGATGAATAGATGTAGTGGGGATCAG 59.560 42.308 0.00 0.00 0.00 2.90
2872 7200 2.555006 CCTGTCCATGGTTCCATGTTGA 60.555 50.000 24.40 15.52 41.42 3.18
2873 7201 3.156293 CTGTCCATGGTTCCATGTTGAA 58.844 45.455 24.40 10.63 41.42 2.69
2886 7214 7.174946 GGTTCCATGTTGAAGTAGATCTTTTCA 59.825 37.037 14.80 14.80 36.40 2.69
2893 7221 7.175467 TGTTGAAGTAGATCTTTTCACATGCAT 59.825 33.333 17.23 0.00 36.40 3.96
3190 8930 2.288640 GCTTTCATTGGCATGGCTATCC 60.289 50.000 21.08 0.00 0.00 2.59
3261 9001 1.600023 AATCCGCAAAACCGTCAAGA 58.400 45.000 0.00 0.00 0.00 3.02
3295 9035 5.585844 TCCGATACGAATTAAACCTTTTCCC 59.414 40.000 0.00 0.00 0.00 3.97
3300 9040 6.080648 ACGAATTAAACCTTTTCCCAAGAC 57.919 37.500 0.00 0.00 0.00 3.01
3303 9043 6.640907 CGAATTAAACCTTTTCCCAAGACAAG 59.359 38.462 0.00 0.00 30.86 3.16
3351 9091 3.251729 ACCATCGAACTAATGCATGCATC 59.748 43.478 32.25 19.59 35.31 3.91
3435 9175 3.062639 CGTGTGTGATGATTGAACCTAGC 59.937 47.826 0.00 0.00 0.00 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.826062 GGGACCAATGGAGGCATTTG 59.174 55.000 6.16 0.00 0.00 2.32
1 2 0.684153 CGGGACCAATGGAGGCATTT 60.684 55.000 6.16 0.00 0.00 2.32
2 3 1.076777 CGGGACCAATGGAGGCATT 60.077 57.895 6.16 0.00 0.00 3.56
3 4 2.597340 CGGGACCAATGGAGGCAT 59.403 61.111 6.16 0.00 0.00 4.40
4 5 3.727258 CCGGGACCAATGGAGGCA 61.727 66.667 6.16 0.00 0.00 4.75
5 6 3.282374 AACCGGGACCAATGGAGGC 62.282 63.158 6.16 0.00 0.00 4.70
6 7 1.077716 GAACCGGGACCAATGGAGG 60.078 63.158 6.16 6.30 0.00 4.30
8 9 2.218454 ACGAACCGGGACCAATGGA 61.218 57.895 6.16 0.00 0.00 3.41
9 10 2.038269 CACGAACCGGGACCAATGG 61.038 63.158 6.32 0.00 28.17 3.16
10 11 2.038269 CCACGAACCGGGACCAATG 61.038 63.158 6.32 0.00 28.17 2.82
11 12 2.349755 CCACGAACCGGGACCAAT 59.650 61.111 6.32 0.00 28.17 3.16
12 13 4.629523 GCCACGAACCGGGACCAA 62.630 66.667 6.32 0.00 28.17 3.67
15 16 3.524648 TTCTGCCACGAACCGGGAC 62.525 63.158 6.32 0.00 28.17 4.46
16 17 3.235481 TTCTGCCACGAACCGGGA 61.235 61.111 6.32 0.00 28.17 5.14
17 18 3.047877 GTTCTGCCACGAACCGGG 61.048 66.667 6.32 0.00 37.82 5.73
18 19 2.030562 AGTTCTGCCACGAACCGG 59.969 61.111 0.00 0.00 43.27 5.28
19 20 2.317609 CCAGTTCTGCCACGAACCG 61.318 63.158 0.00 0.00 43.27 4.44
20 21 1.966451 CCCAGTTCTGCCACGAACC 60.966 63.158 0.00 0.00 43.27 3.62
21 22 1.070786 TCCCAGTTCTGCCACGAAC 59.929 57.895 0.00 3.29 42.73 3.95
22 23 1.070786 GTCCCAGTTCTGCCACGAA 59.929 57.895 0.00 0.00 0.00 3.85
23 24 0.541063 TAGTCCCAGTTCTGCCACGA 60.541 55.000 0.00 0.00 0.00 4.35
24 25 0.320374 TTAGTCCCAGTTCTGCCACG 59.680 55.000 0.00 0.00 0.00 4.94
26 27 1.281867 CCATTAGTCCCAGTTCTGCCA 59.718 52.381 0.00 0.00 0.00 4.92
27 28 1.408822 CCCATTAGTCCCAGTTCTGCC 60.409 57.143 0.00 0.00 0.00 4.85
28 29 2.019156 GCCCATTAGTCCCAGTTCTGC 61.019 57.143 0.00 0.00 0.00 4.26
29 30 1.561542 AGCCCATTAGTCCCAGTTCTG 59.438 52.381 0.00 0.00 0.00 3.02
31 32 1.408822 CCAGCCCATTAGTCCCAGTTC 60.409 57.143 0.00 0.00 0.00 3.01
32 33 0.625849 CCAGCCCATTAGTCCCAGTT 59.374 55.000 0.00 0.00 0.00 3.16
33 34 1.926426 GCCAGCCCATTAGTCCCAGT 61.926 60.000 0.00 0.00 0.00 4.00
35 36 2.689691 GGCCAGCCCATTAGTCCCA 61.690 63.158 0.00 0.00 0.00 4.37
36 37 2.195956 GGCCAGCCCATTAGTCCC 59.804 66.667 0.00 0.00 0.00 4.46
40 41 2.520260 GCCTGGCCAGCCCATTAG 60.520 66.667 28.39 12.86 44.33 1.73
51 52 3.431725 CTTTCGTTCGGGCCTGGC 61.432 66.667 12.87 11.05 0.00 4.85
52 53 3.431725 GCTTTCGTTCGGGCCTGG 61.432 66.667 12.87 0.00 0.00 4.45
53 54 3.431725 GGCTTTCGTTCGGGCCTG 61.432 66.667 4.71 4.71 41.20 4.85
56 57 4.717313 AGGGGCTTTCGTTCGGGC 62.717 66.667 0.00 0.00 0.00 6.13
57 58 1.176619 AAAAGGGGCTTTCGTTCGGG 61.177 55.000 0.00 0.00 31.99 5.14
58 59 0.671796 AAAAAGGGGCTTTCGTTCGG 59.328 50.000 0.00 0.00 31.99 4.30
59 60 1.607148 AGAAAAAGGGGCTTTCGTTCG 59.393 47.619 0.00 0.00 37.76 3.95
60 61 3.819337 AGTAGAAAAAGGGGCTTTCGTTC 59.181 43.478 0.00 0.00 37.76 3.95
61 62 3.828921 AGTAGAAAAAGGGGCTTTCGTT 58.171 40.909 0.00 0.00 37.76 3.85
66 67 4.263374 GGTCACTAGTAGAAAAAGGGGCTT 60.263 45.833 3.59 0.00 0.00 4.35
67 68 3.263681 GGTCACTAGTAGAAAAAGGGGCT 59.736 47.826 3.59 0.00 0.00 5.19
68 69 3.607741 GGTCACTAGTAGAAAAAGGGGC 58.392 50.000 3.59 0.00 0.00 5.80
71 72 4.689345 CGTTGGGTCACTAGTAGAAAAAGG 59.311 45.833 3.59 0.00 0.00 3.11
72 73 4.151867 GCGTTGGGTCACTAGTAGAAAAAG 59.848 45.833 3.59 0.00 0.00 2.27
73 74 4.060205 GCGTTGGGTCACTAGTAGAAAAA 58.940 43.478 3.59 0.00 0.00 1.94
74 75 3.322828 AGCGTTGGGTCACTAGTAGAAAA 59.677 43.478 3.59 0.00 0.00 2.29
75 76 2.895404 AGCGTTGGGTCACTAGTAGAAA 59.105 45.455 3.59 0.00 0.00 2.52
76 77 2.522185 AGCGTTGGGTCACTAGTAGAA 58.478 47.619 3.59 0.00 0.00 2.10
78 79 3.251571 GAAAGCGTTGGGTCACTAGTAG 58.748 50.000 0.00 0.00 0.00 2.57
79 80 2.028748 GGAAAGCGTTGGGTCACTAGTA 60.029 50.000 0.00 0.00 0.00 1.82
80 81 1.270678 GGAAAGCGTTGGGTCACTAGT 60.271 52.381 0.00 0.00 0.00 2.57
81 82 1.002087 AGGAAAGCGTTGGGTCACTAG 59.998 52.381 0.00 0.00 0.00 2.57
82 83 1.053424 AGGAAAGCGTTGGGTCACTA 58.947 50.000 0.00 0.00 0.00 2.74
83 84 0.535102 CAGGAAAGCGTTGGGTCACT 60.535 55.000 0.00 0.00 0.00 3.41
84 85 1.949257 CAGGAAAGCGTTGGGTCAC 59.051 57.895 0.00 0.00 0.00 3.67
85 86 1.896660 GCAGGAAAGCGTTGGGTCA 60.897 57.895 0.00 0.00 0.00 4.02
86 87 2.626780 GGCAGGAAAGCGTTGGGTC 61.627 63.158 0.00 0.00 34.64 4.46
275 276 0.037590 TGGAGGGATGGGTTTTCGTG 59.962 55.000 0.00 0.00 0.00 4.35
345 346 1.880340 GAGCAGCTCGGTTCATCGG 60.880 63.158 6.67 0.00 0.00 4.18
350 351 2.435059 GGTGGAGCAGCTCGGTTC 60.435 66.667 16.47 2.89 0.00 3.62
395 396 7.628769 AAATTGTCAAAGAAGGTTTGCAAAT 57.371 28.000 16.21 0.00 33.12 2.32
609 610 1.159285 TGAGCATCCAAGTTGAAGCG 58.841 50.000 3.87 0.00 34.32 4.68
681 682 5.712917 TGTAAACAGGGACAAAAGTTCAGTT 59.287 36.000 0.00 0.00 0.00 3.16
718 720 3.391296 GTGCTCCAGATTTATGGGGACTA 59.609 47.826 0.00 0.00 44.33 2.59
735 737 2.093235 ACTCAGGCTTAATGAGGTGCTC 60.093 50.000 8.93 0.00 46.89 4.26
758 760 8.540388 TCTTTATGAATACCAAGCTGTCTAGTT 58.460 33.333 0.00 0.00 0.00 2.24
794 796 7.828717 TGGTCAATCATCTACTTTTTGCAGATA 59.171 33.333 0.00 0.00 28.20 1.98
820 822 1.270678 GGTCAGCTACCGTTCACCTTT 60.271 52.381 0.00 0.00 38.88 3.11
866 868 4.131649 TCGTGAAAAGACACAGAAGGAA 57.868 40.909 0.00 0.00 40.34 3.36
867 869 3.812156 TCGTGAAAAGACACAGAAGGA 57.188 42.857 0.00 0.00 40.34 3.36
868 870 3.121944 CGATCGTGAAAAGACACAGAAGG 59.878 47.826 7.03 0.00 40.34 3.46
869 871 3.422343 GCGATCGTGAAAAGACACAGAAG 60.422 47.826 17.81 0.00 40.34 2.85
871 873 2.058798 GCGATCGTGAAAAGACACAGA 58.941 47.619 17.81 0.00 40.34 3.41
872 874 2.061773 AGCGATCGTGAAAAGACACAG 58.938 47.619 17.81 0.00 40.34 3.66
873 875 2.148916 AGCGATCGTGAAAAGACACA 57.851 45.000 17.81 0.00 40.34 3.72
875 877 3.242518 CTGTAGCGATCGTGAAAAGACA 58.757 45.455 17.81 9.26 0.00 3.41
877 879 3.242518 CACTGTAGCGATCGTGAAAAGA 58.757 45.455 17.81 0.00 0.00 2.52
878 880 2.987149 ACACTGTAGCGATCGTGAAAAG 59.013 45.455 17.81 9.25 0.00 2.27
879 881 3.021269 ACACTGTAGCGATCGTGAAAA 57.979 42.857 17.81 0.00 0.00 2.29
880 882 2.717580 ACACTGTAGCGATCGTGAAA 57.282 45.000 17.81 0.00 0.00 2.69
881 883 2.592194 GAACACTGTAGCGATCGTGAA 58.408 47.619 17.81 0.00 0.00 3.18
882 884 1.465187 CGAACACTGTAGCGATCGTGA 60.465 52.381 17.81 1.60 0.00 4.35
883 885 0.907837 CGAACACTGTAGCGATCGTG 59.092 55.000 17.81 8.28 0.00 4.35
884 886 0.520404 ACGAACACTGTAGCGATCGT 59.480 50.000 17.81 6.21 38.55 3.73
885 887 1.317611 CAACGAACACTGTAGCGATCG 59.682 52.381 11.69 11.69 36.45 3.69
887 889 1.068474 GCAACGAACACTGTAGCGAT 58.932 50.000 10.34 0.00 0.00 4.58
889 891 1.385743 GTAGCAACGAACACTGTAGCG 59.614 52.381 0.00 3.55 0.00 4.26
890 892 2.400399 TGTAGCAACGAACACTGTAGC 58.600 47.619 0.00 0.00 0.00 3.58
891 893 4.506654 ACTTTGTAGCAACGAACACTGTAG 59.493 41.667 0.00 0.00 0.00 2.74
892 894 4.435425 ACTTTGTAGCAACGAACACTGTA 58.565 39.130 0.00 0.00 0.00 2.74
893 895 3.267483 ACTTTGTAGCAACGAACACTGT 58.733 40.909 0.00 0.00 0.00 3.55
894 896 3.944422 ACTTTGTAGCAACGAACACTG 57.056 42.857 0.00 0.00 0.00 3.66
895 897 4.957759 AAACTTTGTAGCAACGAACACT 57.042 36.364 0.00 0.00 0.00 3.55
897 899 4.329528 ACGTAAACTTTGTAGCAACGAACA 59.670 37.500 0.00 0.00 32.02 3.18
898 900 4.825400 ACGTAAACTTTGTAGCAACGAAC 58.175 39.130 0.00 0.00 32.02 3.95
899 901 6.768029 ATACGTAAACTTTGTAGCAACGAA 57.232 33.333 0.00 0.00 32.02 3.85
900 902 6.768029 AATACGTAAACTTTGTAGCAACGA 57.232 33.333 0.00 0.00 32.02 3.85
926 928 7.658167 TCCTTATTCAGACATACGTGACAAAAA 59.342 33.333 0.00 0.00 0.00 1.94
927 929 7.156000 TCCTTATTCAGACATACGTGACAAAA 58.844 34.615 0.00 0.00 0.00 2.44
928 930 6.693466 TCCTTATTCAGACATACGTGACAAA 58.307 36.000 0.00 0.00 0.00 2.83
929 931 6.275494 TCCTTATTCAGACATACGTGACAA 57.725 37.500 0.00 0.00 0.00 3.18
930 932 5.907866 TCCTTATTCAGACATACGTGACA 57.092 39.130 0.00 0.00 0.00 3.58
931 933 6.255887 CCTTTCCTTATTCAGACATACGTGAC 59.744 42.308 0.00 0.00 0.00 3.67
945 947 4.423625 AGCTGTATCGCCTTTCCTTATT 57.576 40.909 0.00 0.00 0.00 1.40
948 950 2.789409 AAGCTGTATCGCCTTTCCTT 57.211 45.000 0.00 0.00 0.00 3.36
950 952 3.251004 CCATTAAGCTGTATCGCCTTTCC 59.749 47.826 0.00 0.00 0.00 3.13
1022 1028 2.881352 GTGACCTACGCTCGCTGC 60.881 66.667 0.00 0.00 38.57 5.25
1023 1029 2.577112 CGTGACCTACGCTCGCTG 60.577 66.667 0.00 0.00 46.92 5.18
1031 1037 2.609350 TCGCAAAATACCGTGACCTAC 58.391 47.619 0.00 0.00 0.00 3.18
1044 1050 4.261825 CCCTAACTGTTTTGGATCGCAAAA 60.262 41.667 14.39 14.39 29.62 2.44
1045 1051 3.254657 CCCTAACTGTTTTGGATCGCAAA 59.745 43.478 12.01 5.55 29.62 3.68
1072 3734 3.316868 TGGTTTCCTTTCACGATTGGAAC 59.683 43.478 0.00 0.00 38.18 3.62
1106 3768 3.451894 GCCATTGCCGGGACTTGG 61.452 66.667 17.21 17.21 0.00 3.61
1475 4152 2.281208 TTTCCGGCGTGAGGGTTG 60.281 61.111 6.01 0.00 0.00 3.77
1506 4183 2.804527 GGTTTCTCTTTCTAAACGCCGT 59.195 45.455 0.00 0.00 36.63 5.68
1513 4190 4.628074 CTGGTCGTGGTTTCTCTTTCTAA 58.372 43.478 0.00 0.00 0.00 2.10
1515 4192 2.807108 GCTGGTCGTGGTTTCTCTTTCT 60.807 50.000 0.00 0.00 0.00 2.52
1516 4193 1.531578 GCTGGTCGTGGTTTCTCTTTC 59.468 52.381 0.00 0.00 0.00 2.62
1517 4194 1.141053 AGCTGGTCGTGGTTTCTCTTT 59.859 47.619 0.00 0.00 0.00 2.52
1518 4195 0.759346 AGCTGGTCGTGGTTTCTCTT 59.241 50.000 0.00 0.00 0.00 2.85
1519 4196 0.034059 CAGCTGGTCGTGGTTTCTCT 59.966 55.000 5.57 0.00 0.00 3.10
1520 4197 1.569479 GCAGCTGGTCGTGGTTTCTC 61.569 60.000 17.12 0.00 0.00 2.87
1590 4267 0.666577 GGCAAGAGTAACACGACGCT 60.667 55.000 0.00 0.00 0.00 5.07
1592 4269 1.342082 CCGGCAAGAGTAACACGACG 61.342 60.000 0.00 0.00 0.00 5.12
1610 4287 0.321122 GATCATCTGGGCGGTCATCC 60.321 60.000 0.00 0.00 0.00 3.51
1673 4350 1.152419 TCCTGTTGTGGAGGACCGA 60.152 57.895 0.00 0.00 34.49 4.69
1790 4467 2.106511 ACTCCTGGCTGAAGTTGCTAAA 59.893 45.455 0.00 0.00 0.00 1.85
1857 4534 1.153597 TCATACGCTGCGATGCCAAG 61.154 55.000 30.47 10.56 0.00 3.61
1890 4567 2.666526 GAGATCCGGCCGCCATTC 60.667 66.667 22.85 12.99 0.00 2.67
2066 4743 2.936919 ATGGCATGGTGATCGTGTAT 57.063 45.000 0.00 0.00 34.91 2.29
2093 4770 4.344865 GGGCTCCGGCAACCTTGA 62.345 66.667 0.00 0.00 40.87 3.02
2144 4821 3.330110 ACAGAATCCTCCCATCATCCATC 59.670 47.826 0.00 0.00 0.00 3.51
2145 4822 3.333893 ACAGAATCCTCCCATCATCCAT 58.666 45.455 0.00 0.00 0.00 3.41
2180 4857 4.228567 TGTGCCCGCGTCTTGTCA 62.229 61.111 4.92 0.00 0.00 3.58
2194 4871 1.198408 CATACACCTGCAGCAACTGTG 59.802 52.381 8.66 13.12 33.43 3.66
2264 4941 4.658063 TCCCTTTGTAAACACCGATCAAT 58.342 39.130 0.00 0.00 0.00 2.57
2265 4942 4.069304 CTCCCTTTGTAAACACCGATCAA 58.931 43.478 0.00 0.00 0.00 2.57
2342 5019 4.142600 GCCAAACTGTAATCGAATGCTCTT 60.143 41.667 0.00 0.00 0.00 2.85
2343 5020 3.375299 GCCAAACTGTAATCGAATGCTCT 59.625 43.478 0.00 0.00 0.00 4.09
2350 5027 1.271108 TGGCTGCCAAACTGTAATCGA 60.271 47.619 21.08 0.00 0.00 3.59
2395 5072 7.485810 TCATCAAATTTAAGTCGACCGAGATA 58.514 34.615 13.01 0.00 0.00 1.98
2401 5078 9.543018 CTTAACTTCATCAAATTTAAGTCGACC 57.457 33.333 13.01 0.00 36.27 4.79
2413 5090 9.897744 GACATCATTTGACTTAACTTCATCAAA 57.102 29.630 1.14 1.14 43.23 2.69
2419 5096 9.979270 CATAGTGACATCATTTGACTTAACTTC 57.021 33.333 0.00 0.00 0.00 3.01
2651 5331 8.158132 TGGTAAAAGATCTACCACAACATACAA 58.842 33.333 11.17 0.00 43.11 2.41
2664 5344 6.055588 GCTACCTTGCATGGTAAAAGATCTA 58.944 40.000 26.42 8.49 41.49 1.98
2667 5347 4.599041 TGCTACCTTGCATGGTAAAAGAT 58.401 39.130 26.42 6.87 41.49 2.40
2668 5348 4.027674 TGCTACCTTGCATGGTAAAAGA 57.972 40.909 26.42 11.00 41.49 2.52
2682 5362 2.840038 TGGTCATCTCAACATGCTACCT 59.160 45.455 0.00 0.00 0.00 3.08
2856 7184 8.284792 AAGATCTACTTCAACATGGAACCATGG 61.285 40.741 29.45 11.19 44.92 3.66
2872 7200 5.948162 ACCATGCATGTGAAAAGATCTACTT 59.052 36.000 24.58 0.00 40.98 2.24
2873 7201 5.503927 ACCATGCATGTGAAAAGATCTACT 58.496 37.500 24.58 0.00 0.00 2.57
2893 7221 2.840038 AGATCACCTGAACATGCTACCA 59.160 45.455 0.00 0.00 0.00 3.25
2929 7257 4.592942 ACTATGTCACCTCAACATGCAAT 58.407 39.130 0.00 0.00 37.86 3.56
3023 8763 5.951148 TGCCTAGAATGTTTCCATTGAATCA 59.049 36.000 0.00 0.00 41.37 2.57
3087 8827 6.882140 TGTATCAATTTGTGGACCGATTACTT 59.118 34.615 0.00 0.00 0.00 2.24
3190 8930 1.069091 TGATTTGTGCGTGCTCACATG 60.069 47.619 7.60 0.00 45.26 3.21
3295 9035 5.437289 TTGCACATAGTTTCCTTGTCTTG 57.563 39.130 0.00 0.00 0.00 3.02
3300 9040 9.421806 TGATTTTAATTGCACATAGTTTCCTTG 57.578 29.630 0.00 0.00 0.00 3.61
3303 9043 9.585099 TGATGATTTTAATTGCACATAGTTTCC 57.415 29.630 0.00 0.00 0.00 3.13
3500 9241 8.518430 AATCCACAAAAACAATTTTAGGCTTT 57.482 26.923 0.00 0.00 36.62 3.51


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

AutoCloner maintained by Alex Coulton.