Multiple sequence alignment - TraesCS1A01G301800

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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 TraesCS1A01G301800 chr1A 100.000 4677 0 0 1 4677 496047309 496042633 0.000000e+00 8637.0
1 TraesCS1A01G301800 chr1A 86.084 812 98 10 917 1727 495743873 495743076 0.000000e+00 859.0
2 TraesCS1A01G301800 chr1A 88.321 411 41 3 1925 2331 495741536 495741129 1.960000e-133 486.0
3 TraesCS1A01G301800 chr1A 88.078 411 42 3 1925 2331 495742905 495742498 9.100000e-132 481.0
4 TraesCS1A01G301800 chr1A 87.835 411 43 2 1925 2331 495740141 495739734 4.230000e-130 475.0
5 TraesCS1A01G301800 chr1A 87.135 342 40 4 1394 1734 495740645 495740307 7.340000e-103 385.0
6 TraesCS1A01G301800 chr1B 94.379 3967 160 19 1 3937 535387879 535383946 0.000000e+00 6032.0
7 TraesCS1A01G301800 chr1B 88.927 1761 155 14 1935 3677 535145000 535143262 0.000000e+00 2135.0
8 TraesCS1A01G301800 chr1B 86.637 913 96 7 822 1727 535146077 535145184 0.000000e+00 987.0
9 TraesCS1A01G301800 chr1B 94.428 341 14 4 4340 4677 535383704 535383366 1.930000e-143 520.0
10 TraesCS1A01G301800 chr1B 88.800 125 14 0 4187 4311 535383819 535383695 2.250000e-33 154.0
11 TraesCS1A01G301800 chr1D 95.326 2653 80 7 1 2635 399191993 399189367 0.000000e+00 4172.0
12 TraesCS1A01G301800 chr1D 96.878 993 30 1 2786 3777 399189161 399188169 0.000000e+00 1661.0
13 TraesCS1A01G301800 chr1D 92.754 483 24 4 4202 4677 399187844 399187366 0.000000e+00 688.0
14 TraesCS1A01G301800 chr1D 89.781 411 34 4 1925 2331 399063674 399063268 1.930000e-143 520.0
15 TraesCS1A01G301800 chr1D 87.097 341 40 4 1394 1734 399064240 399063904 2.640000e-102 383.0
16 TraesCS1A01G301800 chr1D 99.398 166 1 0 3774 3939 399188009 399187844 7.610000e-78 302.0
17 TraesCS1A01G301800 chr1D 79.457 258 24 7 3875 4106 399035564 399035310 6.270000e-34 156.0
18 TraesCS1A01G301800 chr3D 78.243 1241 242 20 1073 2299 447989639 447990865 0.000000e+00 771.0
19 TraesCS1A01G301800 chr3D 82.517 572 92 7 3040 3607 447991603 447992170 3.250000e-136 496.0
20 TraesCS1A01G301800 chr3A 77.981 1258 253 16 1073 2318 589393181 589394426 0.000000e+00 767.0
21 TraesCS1A01G301800 chr3B 77.283 1325 265 27 993 2299 587565990 587567296 0.000000e+00 747.0
22 TraesCS1A01G301800 chr3B 81.726 591 100 7 3040 3626 587567787 587568373 1.960000e-133 486.0
23 TraesCS1A01G301800 chr5B 94.872 39 0 2 3318 3355 532891848 532891811 5.050000e-05 60.2


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 TraesCS1A01G301800 chr1A 496042633 496047309 4676 True 8637.000000 8637 100.000000 1 4677 1 chr1A.!!$R1 4676
1 TraesCS1A01G301800 chr1A 495739734 495743873 4139 True 537.200000 859 87.490600 917 2331 5 chr1A.!!$R2 1414
2 TraesCS1A01G301800 chr1B 535383366 535387879 4513 True 2235.333333 6032 92.535667 1 4677 3 chr1B.!!$R2 4676
3 TraesCS1A01G301800 chr1B 535143262 535146077 2815 True 1561.000000 2135 87.782000 822 3677 2 chr1B.!!$R1 2855
4 TraesCS1A01G301800 chr1D 399187366 399191993 4627 True 1705.750000 4172 96.089000 1 4677 4 chr1D.!!$R3 4676
5 TraesCS1A01G301800 chr1D 399063268 399064240 972 True 451.500000 520 88.439000 1394 2331 2 chr1D.!!$R2 937
6 TraesCS1A01G301800 chr3D 447989639 447992170 2531 False 633.500000 771 80.380000 1073 3607 2 chr3D.!!$F1 2534
7 TraesCS1A01G301800 chr3A 589393181 589394426 1245 False 767.000000 767 77.981000 1073 2318 1 chr3A.!!$F1 1245
8 TraesCS1A01G301800 chr3B 587565990 587568373 2383 False 616.500000 747 79.504500 993 3626 2 chr3B.!!$F1 2633

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
944 970 0.038251 TGTGTAGCAGGAGTGAAGCG 60.038 55.0 0.0 0.0 0.0 4.68 F
2550 4323 0.326264 GCATGGTGAGGACTGAGGTT 59.674 55.0 0.0 0.0 0.0 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2692 4467 0.177141 CTATGGCCGAGGGTCGAAAA 59.823 55.0 0.00 0.0 43.74 2.29 R
4052 6872 0.031449 TTAACAAAGGCAGCGGCAAC 59.969 50.0 11.88 0.0 43.71 4.17 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
177 178 2.922283 AGAAAATCTGATGGACCCCTGT 59.078 45.455 0.00 0.00 0.00 4.00
238 239 4.697352 TGGGTTTGTGTTTTTGTTCCAATG 59.303 37.500 0.00 0.00 0.00 2.82
334 335 4.819105 TTGTAACACTGGGAGATACTGG 57.181 45.455 0.00 0.00 0.00 4.00
379 380 7.466746 AAGTAATGTTGGCACTATTGAACAT 57.533 32.000 5.84 0.00 40.03 2.71
382 383 7.829211 AGTAATGTTGGCACTATTGAACATAGT 59.171 33.333 0.00 0.00 37.92 2.12
390 391 6.813152 GGCACTATTGAACATAGTTGCATTTT 59.187 34.615 13.54 0.00 32.93 1.82
445 446 8.950210 CATTAGAAACTGTGGTTGATTGATAGT 58.050 33.333 0.00 0.00 35.63 2.12
510 511 5.279156 GCTCCTTTCTGGTCATCAAATTTGT 60.279 40.000 17.47 3.04 37.07 2.83
527 528 8.203485 TCAAATTTGTTATTCTTTGGCAAGACT 58.797 29.630 17.47 0.00 38.86 3.24
634 652 1.002033 CAACTGCACAACTCTCTTGGC 60.002 52.381 0.00 0.00 0.00 4.52
709 727 6.306987 TCTCTTTTGCCTTTTCTTATGGTCT 58.693 36.000 0.00 0.00 0.00 3.85
731 749 7.115378 GGTCTCTAAAGCAATGATGTTTTGTTG 59.885 37.037 1.61 0.00 39.82 3.33
770 788 8.822805 TGAAGTAACTATCTACATTGGGAAACT 58.177 33.333 0.00 0.00 0.00 2.66
865 886 7.553504 ACTGCATATTATACACCCACTATGA 57.446 36.000 0.00 0.00 0.00 2.15
909 934 5.738909 AGAACCAATCTCACTTACTCATGG 58.261 41.667 0.00 0.00 30.46 3.66
920 945 6.970484 TCACTTACTCATGGCTTTCTTTTTC 58.030 36.000 0.00 0.00 0.00 2.29
944 970 0.038251 TGTGTAGCAGGAGTGAAGCG 60.038 55.000 0.00 0.00 0.00 4.68
957 983 0.669318 TGAAGCGTTGATGACCGTCC 60.669 55.000 0.00 0.00 0.00 4.79
971 997 6.866770 TGATGACCGTCCGATTATAATTCTTC 59.133 38.462 0.00 0.86 0.00 2.87
1116 1142 1.986698 CCCTTCTTGCATTTGCTTCG 58.013 50.000 3.94 0.00 42.66 3.79
1554 1581 1.849039 CCCATCCCTGATCTTCACCTT 59.151 52.381 0.00 0.00 0.00 3.50
1584 1611 9.678260 AAACTGAGATATTTGAACTTGAGCTAT 57.322 29.630 0.00 0.00 0.00 2.97
2516 4289 4.864916 ATGCAATCTAAGTAAGTGTGCG 57.135 40.909 0.00 0.00 38.27 5.34
2550 4323 0.326264 GCATGGTGAGGACTGAGGTT 59.674 55.000 0.00 0.00 0.00 3.50
2558 4331 2.708861 TGAGGACTGAGGTTGCCTTTAA 59.291 45.455 0.00 0.00 31.76 1.52
2571 4344 6.493458 AGGTTGCCTTTAAGCTAATCTTTTGA 59.507 34.615 0.00 0.00 36.69 2.69
2600 4375 2.346803 ACTGGACGATGAACAATTCCG 58.653 47.619 0.00 0.00 0.00 4.30
2637 4412 7.787725 ACTCCGAGTTGGTTATTATGAATTC 57.212 36.000 0.00 0.00 39.52 2.17
2708 4483 2.345991 CTTTTCGACCCTCGGCCA 59.654 61.111 2.24 0.00 40.88 5.36
2711 4486 0.177141 TTTTCGACCCTCGGCCATAG 59.823 55.000 2.24 0.00 40.88 2.23
2718 4493 2.655364 CTCGGCCATAGTCGTGCG 60.655 66.667 2.24 0.00 43.20 5.34
2869 4808 9.252962 GAGTTACTGTTGTAGTTTTGTAGCTAA 57.747 33.333 0.00 0.00 40.89 3.09
2996 4937 8.552865 TGTAATACCACATATGTATTGAAACGC 58.447 33.333 8.32 0.00 38.85 4.84
3319 5264 0.249911 AGAAGCCGACGCAAAAGTCT 60.250 50.000 0.00 0.00 38.90 3.24
3358 5303 0.327259 TGCTGCTCTTGGAGATGCTT 59.673 50.000 0.00 0.00 33.10 3.91
3430 5375 3.314331 CCGAGGTGGGTGCAGTCT 61.314 66.667 0.00 0.00 0.00 3.24
3454 5399 2.675423 CGGGAGGAGTGGACGTCA 60.675 66.667 18.91 0.27 0.00 4.35
3460 5405 0.178958 AGGAGTGGACGTCAGAGGTT 60.179 55.000 18.91 0.00 0.00 3.50
3925 6745 4.824479 TCACTGAATGAGCAATCTGGTA 57.176 40.909 0.00 0.00 31.91 3.25
3939 6759 1.977854 TCTGGTATGTCACTTGCCTGT 59.022 47.619 0.00 0.00 0.00 4.00
3940 6760 2.371841 TCTGGTATGTCACTTGCCTGTT 59.628 45.455 0.00 0.00 0.00 3.16
3943 6763 3.007635 GGTATGTCACTTGCCTGTTACC 58.992 50.000 0.00 0.00 0.00 2.85
3944 6764 1.808411 ATGTCACTTGCCTGTTACCG 58.192 50.000 0.00 0.00 0.00 4.02
3945 6765 0.753867 TGTCACTTGCCTGTTACCGA 59.246 50.000 0.00 0.00 0.00 4.69
3946 6766 1.346395 TGTCACTTGCCTGTTACCGAT 59.654 47.619 0.00 0.00 0.00 4.18
3948 6768 3.196901 TGTCACTTGCCTGTTACCGATAT 59.803 43.478 0.00 0.00 0.00 1.63
3949 6769 4.189231 GTCACTTGCCTGTTACCGATATT 58.811 43.478 0.00 0.00 0.00 1.28
3950 6770 4.634443 GTCACTTGCCTGTTACCGATATTT 59.366 41.667 0.00 0.00 0.00 1.40
3951 6771 5.123344 GTCACTTGCCTGTTACCGATATTTT 59.877 40.000 0.00 0.00 0.00 1.82
3953 6773 5.354234 CACTTGCCTGTTACCGATATTTTCT 59.646 40.000 0.00 0.00 0.00 2.52
3954 6774 5.585047 ACTTGCCTGTTACCGATATTTTCTC 59.415 40.000 0.00 0.00 0.00 2.87
3955 6775 4.448210 TGCCTGTTACCGATATTTTCTCC 58.552 43.478 0.00 0.00 0.00 3.71
3957 6777 4.738541 GCCTGTTACCGATATTTTCTCCGA 60.739 45.833 0.00 0.00 0.00 4.55
3959 6779 5.451520 CCTGTTACCGATATTTTCTCCGACT 60.452 44.000 0.00 0.00 0.00 4.18
3960 6780 5.345702 TGTTACCGATATTTTCTCCGACTG 58.654 41.667 0.00 0.00 0.00 3.51
3961 6781 5.125900 TGTTACCGATATTTTCTCCGACTGA 59.874 40.000 0.00 0.00 0.00 3.41
3962 6782 4.730949 ACCGATATTTTCTCCGACTGAA 57.269 40.909 0.00 0.00 0.00 3.02
3963 6783 5.080969 ACCGATATTTTCTCCGACTGAAA 57.919 39.130 0.00 0.00 0.00 2.69
3964 6784 4.868734 ACCGATATTTTCTCCGACTGAAAC 59.131 41.667 0.00 0.00 33.77 2.78
3965 6785 5.109903 CCGATATTTTCTCCGACTGAAACT 58.890 41.667 0.00 0.00 33.77 2.66
3967 6787 6.924060 CCGATATTTTCTCCGACTGAAACTAT 59.076 38.462 0.00 0.00 34.34 2.12
3968 6788 7.096023 CCGATATTTTCTCCGACTGAAACTATG 60.096 40.741 10.05 5.73 32.91 2.23
3969 6789 5.803020 ATTTTCTCCGACTGAAACTATGC 57.197 39.130 0.00 0.00 33.77 3.14
3970 6790 4.537135 TTTCTCCGACTGAAACTATGCT 57.463 40.909 0.00 0.00 0.00 3.79
3971 6791 4.537135 TTCTCCGACTGAAACTATGCTT 57.463 40.909 0.00 0.00 0.00 3.91
3972 6792 3.849911 TCTCCGACTGAAACTATGCTTG 58.150 45.455 0.00 0.00 0.00 4.01
3973 6793 2.932614 CTCCGACTGAAACTATGCTTGG 59.067 50.000 0.00 0.00 0.00 3.61
3974 6794 2.301870 TCCGACTGAAACTATGCTTGGT 59.698 45.455 0.00 0.00 0.00 3.67
3975 6795 3.074412 CCGACTGAAACTATGCTTGGTT 58.926 45.455 0.00 0.00 0.00 3.67
3976 6796 3.125316 CCGACTGAAACTATGCTTGGTTC 59.875 47.826 1.77 0.00 0.00 3.62
3977 6797 3.745975 CGACTGAAACTATGCTTGGTTCA 59.254 43.478 1.77 3.62 0.00 3.18
3978 6798 4.143030 CGACTGAAACTATGCTTGGTTCAG 60.143 45.833 21.44 21.44 32.75 3.02
3979 6799 4.718961 ACTGAAACTATGCTTGGTTCAGT 58.281 39.130 22.37 22.37 33.84 3.41
3980 6800 5.133221 ACTGAAACTATGCTTGGTTCAGTT 58.867 37.500 22.37 12.60 34.39 3.16
3981 6801 6.296026 ACTGAAACTATGCTTGGTTCAGTTA 58.704 36.000 22.37 0.00 34.39 2.24
3982 6802 6.428159 ACTGAAACTATGCTTGGTTCAGTTAG 59.572 38.462 22.37 9.25 34.39 2.34
3983 6803 6.296026 TGAAACTATGCTTGGTTCAGTTAGT 58.704 36.000 1.77 0.00 0.00 2.24
3984 6804 6.426937 TGAAACTATGCTTGGTTCAGTTAGTC 59.573 38.462 1.77 0.00 0.00 2.59
3985 6805 5.483685 ACTATGCTTGGTTCAGTTAGTCA 57.516 39.130 0.00 0.00 0.00 3.41
3986 6806 5.238583 ACTATGCTTGGTTCAGTTAGTCAC 58.761 41.667 0.00 0.00 0.00 3.67
3987 6807 3.838244 TGCTTGGTTCAGTTAGTCACT 57.162 42.857 0.00 0.00 35.35 3.41
4000 6820 7.295952 CAGTTAGTCACTGCTGTTATTTAGG 57.704 40.000 0.00 0.00 46.70 2.69
4001 6821 5.875359 AGTTAGTCACTGCTGTTATTTAGGC 59.125 40.000 0.00 0.00 32.83 3.93
4002 6822 4.286297 AGTCACTGCTGTTATTTAGGCA 57.714 40.909 0.00 0.00 0.00 4.75
4010 6830 6.892658 TGCTGTTATTTAGGCAGAAAGAAA 57.107 33.333 0.00 0.00 32.39 2.52
4011 6831 6.913170 TGCTGTTATTTAGGCAGAAAGAAAG 58.087 36.000 0.00 0.00 32.39 2.62
4012 6832 6.714810 TGCTGTTATTTAGGCAGAAAGAAAGA 59.285 34.615 0.00 0.00 32.39 2.52
4013 6833 7.094634 TGCTGTTATTTAGGCAGAAAGAAAGAG 60.095 37.037 0.00 0.00 32.39 2.85
4014 6834 7.627300 GCTGTTATTTAGGCAGAAAGAAAGAGG 60.627 40.741 0.00 0.00 32.39 3.69
4015 6835 7.458397 TGTTATTTAGGCAGAAAGAAAGAGGA 58.542 34.615 0.00 0.00 0.00 3.71
4016 6836 8.109634 TGTTATTTAGGCAGAAAGAAAGAGGAT 58.890 33.333 0.00 0.00 0.00 3.24
4017 6837 8.616942 GTTATTTAGGCAGAAAGAAAGAGGATC 58.383 37.037 0.00 0.00 0.00 3.36
4039 6859 4.188247 TGGTGACAGTTACTGATACTGC 57.812 45.455 20.07 6.30 45.38 4.40
4040 6860 3.576550 TGGTGACAGTTACTGATACTGCA 59.423 43.478 20.07 8.50 45.38 4.41
4041 6861 4.039852 TGGTGACAGTTACTGATACTGCAA 59.960 41.667 20.07 3.14 45.38 4.08
4042 6862 4.627467 GGTGACAGTTACTGATACTGCAAG 59.373 45.833 20.07 0.00 45.38 4.01
4043 6863 5.230942 GTGACAGTTACTGATACTGCAAGT 58.769 41.667 20.07 0.00 45.38 3.16
4044 6864 5.346281 GTGACAGTTACTGATACTGCAAGTC 59.654 44.000 20.07 2.54 45.38 3.01
4045 6865 4.486090 ACAGTTACTGATACTGCAAGTCG 58.514 43.478 20.07 0.00 45.38 4.18
4046 6866 4.217767 ACAGTTACTGATACTGCAAGTCGA 59.782 41.667 20.07 0.00 45.38 4.20
4047 6867 4.795795 CAGTTACTGATACTGCAAGTCGAG 59.204 45.833 6.50 0.00 39.50 4.04
4048 6868 5.620205 CAGTTACTGATACTGCAAGTCGAGT 60.620 44.000 6.50 0.00 39.50 4.18
4049 6869 7.377714 CAGTTACTGATACTGCAAGTCGAGTC 61.378 46.154 6.50 0.00 39.50 3.36
4050 6870 9.633581 CAGTTACTGATACTGCAAGTCGAGTCA 62.634 44.444 6.50 0.00 39.50 3.41
4055 6875 2.869358 CTGCAAGTCGAGTCATGTTG 57.131 50.000 0.00 0.00 0.00 3.33
4056 6876 0.867746 TGCAAGTCGAGTCATGTTGC 59.132 50.000 11.55 11.55 43.09 4.17
4057 6877 0.166814 GCAAGTCGAGTCATGTTGCC 59.833 55.000 8.47 0.00 38.03 4.52
4058 6878 0.439985 CAAGTCGAGTCATGTTGCCG 59.560 55.000 0.00 0.00 0.00 5.69
4059 6879 1.291877 AAGTCGAGTCATGTTGCCGC 61.292 55.000 0.00 0.00 0.00 6.53
4060 6880 1.738099 GTCGAGTCATGTTGCCGCT 60.738 57.895 0.00 0.00 0.00 5.52
4061 6881 1.737735 TCGAGTCATGTTGCCGCTG 60.738 57.895 0.00 0.00 0.00 5.18
4062 6882 2.482374 GAGTCATGTTGCCGCTGC 59.518 61.111 0.00 0.00 38.26 5.25
4063 6883 3.044059 GAGTCATGTTGCCGCTGCC 62.044 63.158 0.00 0.00 36.33 4.85
4064 6884 3.058160 GTCATGTTGCCGCTGCCT 61.058 61.111 0.00 0.00 36.33 4.75
4065 6885 2.282391 TCATGTTGCCGCTGCCTT 60.282 55.556 0.00 0.00 36.33 4.35
4066 6886 1.902918 TCATGTTGCCGCTGCCTTT 60.903 52.632 0.00 0.00 36.33 3.11
4068 6888 2.202395 ATGTTGCCGCTGCCTTTGT 61.202 52.632 0.00 0.00 36.33 2.83
4070 6890 1.103987 TGTTGCCGCTGCCTTTGTTA 61.104 50.000 0.00 0.00 36.33 2.41
4072 6892 0.031449 TTGCCGCTGCCTTTGTTAAC 59.969 50.000 0.00 0.00 36.33 2.01
4082 6902 2.148768 CCTTTGTTAACGGAGGTGGTC 58.851 52.381 15.45 0.00 0.00 4.02
4083 6903 2.224450 CCTTTGTTAACGGAGGTGGTCT 60.224 50.000 15.45 0.00 0.00 3.85
4084 6904 2.825861 TTGTTAACGGAGGTGGTCTC 57.174 50.000 0.26 0.00 41.71 3.36
4091 6911 2.979649 GAGGTGGTCTCCGGAACC 59.020 66.667 21.92 21.92 36.52 3.62
4095 6915 0.179012 GGTGGTCTCCGGAACCAAAA 60.179 55.000 28.73 12.66 35.05 2.44
4096 6916 0.949397 GTGGTCTCCGGAACCAAAAC 59.051 55.000 28.73 18.30 35.05 2.43
4097 6917 0.533308 TGGTCTCCGGAACCAAAACG 60.533 55.000 26.43 6.41 0.00 3.60
4099 6919 0.584876 GTCTCCGGAACCAAAACGTG 59.415 55.000 5.23 0.00 0.00 4.49
4107 6927 2.566010 CCAAAACGTGGGCATCGG 59.434 61.111 0.00 0.00 44.64 4.18
4108 6928 2.566010 CAAAACGTGGGCATCGGG 59.434 61.111 0.00 0.00 0.00 5.14
4109 6929 3.370231 AAAACGTGGGCATCGGGC 61.370 61.111 0.00 0.00 43.74 6.13
4130 6950 2.038762 GGGGGATAGGGGAGCCAA 60.039 66.667 0.00 0.00 34.10 4.52
4131 6951 1.699930 GGGGGATAGGGGAGCCAAA 60.700 63.158 0.00 0.00 34.10 3.28
4132 6952 1.293683 GGGGGATAGGGGAGCCAAAA 61.294 60.000 0.00 0.00 34.10 2.44
4133 6953 0.860457 GGGGATAGGGGAGCCAAAAT 59.140 55.000 0.00 0.00 34.10 1.82
4134 6954 1.220493 GGGGATAGGGGAGCCAAAATT 59.780 52.381 0.00 0.00 34.10 1.82
4135 6955 2.360316 GGGGATAGGGGAGCCAAAATTT 60.360 50.000 0.00 0.00 34.10 1.82
4136 6956 2.965831 GGGATAGGGGAGCCAAAATTTC 59.034 50.000 0.00 0.00 34.10 2.17
4137 6957 2.623416 GGATAGGGGAGCCAAAATTTCG 59.377 50.000 0.00 0.00 31.97 3.46
4139 6959 2.302587 AGGGGAGCCAAAATTTCGAA 57.697 45.000 0.00 0.00 0.00 3.71
4140 6960 2.604139 AGGGGAGCCAAAATTTCGAAA 58.396 42.857 13.91 13.91 0.00 3.46
4141 6961 3.173151 AGGGGAGCCAAAATTTCGAAAT 58.827 40.909 17.60 17.60 0.00 2.17
4144 6964 3.056179 GGGAGCCAAAATTTCGAAATGGA 60.056 43.478 25.96 1.56 0.00 3.41
4145 6965 4.176271 GGAGCCAAAATTTCGAAATGGAG 58.824 43.478 25.96 17.21 0.00 3.86
4147 6967 3.055891 AGCCAAAATTTCGAAATGGAGGG 60.056 43.478 25.96 22.23 0.00 4.30
4148 6968 3.056179 GCCAAAATTTCGAAATGGAGGGA 60.056 43.478 25.96 0.00 0.00 4.20
4149 6969 4.494484 CCAAAATTTCGAAATGGAGGGAC 58.506 43.478 23.38 0.00 0.00 4.46
4150 6970 4.494484 CAAAATTTCGAAATGGAGGGACC 58.506 43.478 23.38 0.00 39.54 4.46
4158 6978 3.170362 TGGAGGGACCAAGCCAAG 58.830 61.111 0.00 0.00 46.75 3.61
4159 6979 1.774217 TGGAGGGACCAAGCCAAGT 60.774 57.895 0.00 0.00 46.75 3.16
4162 6982 0.110486 GAGGGACCAAGCCAAGTTGA 59.890 55.000 3.87 0.00 0.00 3.18
4164 6984 1.992557 AGGGACCAAGCCAAGTTGATA 59.007 47.619 3.87 0.00 0.00 2.15
4169 6989 6.102615 AGGGACCAAGCCAAGTTGATATATAA 59.897 38.462 3.87 0.00 0.00 0.98
4196 7089 7.996758 ATCTTAATACTCCCTCCAAAGAGAA 57.003 36.000 0.00 0.00 43.39 2.87
4200 7093 8.674925 TTAATACTCCCTCCAAAGAGAACTAA 57.325 34.615 0.00 0.00 43.39 2.24
4201 7094 6.800072 ATACTCCCTCCAAAGAGAACTAAG 57.200 41.667 0.00 0.00 43.39 2.18
4207 7100 4.322567 CTCCAAAGAGAACTAAGCAGCTT 58.677 43.478 13.46 13.46 43.39 3.74
4262 7155 6.525629 GCTCTAGCAAAGTTATCTCCCATTA 58.474 40.000 0.00 0.00 41.59 1.90
4264 7157 7.499232 GCTCTAGCAAAGTTATCTCCCATTAAA 59.501 37.037 0.00 0.00 41.59 1.52
4271 7164 6.174720 AGTTATCTCCCATTAAAGCGATGA 57.825 37.500 0.00 0.00 0.00 2.92
4273 7166 6.876257 AGTTATCTCCCATTAAAGCGATGATC 59.124 38.462 0.00 0.00 0.00 2.92
4595 7497 2.369394 GTCGCCTTGGGATTTCAATCT 58.631 47.619 0.00 0.00 35.73 2.40
4599 7501 5.013547 TCGCCTTGGGATTTCAATCTAAAA 58.986 37.500 0.00 0.00 35.73 1.52
4655 7557 1.335132 GGTGTAATCCGGGAGAGCCA 61.335 60.000 0.00 0.00 35.15 4.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 2.935849 CCGTAGTTAATCAGTGCATGCA 59.064 45.455 18.46 18.46 0.00 3.96
41 42 2.287915 CCCGTAGTTAATCAGTGCATGC 59.712 50.000 11.82 11.82 0.00 4.06
42 43 2.872245 CCCCGTAGTTAATCAGTGCATG 59.128 50.000 0.00 0.00 0.00 4.06
43 44 2.158813 CCCCCGTAGTTAATCAGTGCAT 60.159 50.000 0.00 0.00 0.00 3.96
177 178 1.411246 GCTACCACCCATCGACATGTA 59.589 52.381 0.00 0.00 0.00 2.29
324 325 5.005628 AGGAACCTAGATCCAGTATCTCC 57.994 47.826 14.65 0.00 44.17 3.71
334 335 7.368198 ACTTAAGATCCAAGGAACCTAGATC 57.632 40.000 10.09 18.29 36.77 2.75
379 380 6.935741 ACACAGACAGTAAAAATGCAACTA 57.064 33.333 0.00 0.00 0.00 2.24
382 383 7.328277 ACTTACACAGACAGTAAAAATGCAA 57.672 32.000 0.00 0.00 31.66 4.08
390 391 6.540995 AGGAGACTACTTACACAGACAGTAA 58.459 40.000 0.00 0.00 40.61 2.24
468 469 9.561069 GAAAGGAGCCTATTGTGAGATTAATAA 57.439 33.333 0.00 0.00 0.00 1.40
486 487 5.166398 CAAATTTGATGACCAGAAAGGAGC 58.834 41.667 13.08 0.00 41.22 4.70
510 511 7.554118 CAGATTCCTAGTCTTGCCAAAGAATAA 59.446 37.037 0.00 0.00 44.01 1.40
702 720 8.461222 CAAAACATCATTGCTTTAGAGACCATA 58.539 33.333 0.00 0.00 0.00 2.74
709 727 6.815089 ACCAACAAAACATCATTGCTTTAGA 58.185 32.000 0.00 0.00 0.00 2.10
731 749 9.331282 AGATAGTTACTTCATGATTAAGCAACC 57.669 33.333 0.00 0.00 32.79 3.77
770 788 7.707624 AAAAATGAAGTGATGAAGCATAGGA 57.292 32.000 0.00 0.00 0.00 2.94
909 934 5.810074 TGCTACACAAAAGGAAAAAGAAAGC 59.190 36.000 0.00 0.00 0.00 3.51
920 945 3.126001 TCACTCCTGCTACACAAAAGG 57.874 47.619 0.00 0.00 0.00 3.11
944 970 6.645415 AGAATTATAATCGGACGGTCATCAAC 59.355 38.462 10.76 0.00 0.00 3.18
971 997 4.442753 GGATGGCTAGAGAACAAGGAGAAG 60.443 50.000 0.00 0.00 0.00 2.85
1449 1476 6.723515 TCAATGGGATTTCTCCAACAAATGTA 59.276 34.615 0.00 0.00 44.08 2.29
1554 1581 7.230747 TCAAGTTCAAATATCTCAGTTTGGGA 58.769 34.615 0.00 0.00 36.30 4.37
1584 1611 1.974028 TGGGCCCACTGAGGTTATTA 58.026 50.000 24.45 0.00 34.66 0.98
1625 1652 2.556114 CCCAAGAAAGAACTGGCTGGAT 60.556 50.000 0.00 0.00 0.00 3.41
1689 1716 1.276705 GGAGAAGGAGAAGGTGTGGTC 59.723 57.143 0.00 0.00 0.00 4.02
1878 1932 3.434739 CCTTCCCTTTGGATGAGGATGAG 60.435 52.174 0.00 0.00 40.01 2.90
2441 4211 5.048504 AGGAACAATTTCACAGTGCTACATG 60.049 40.000 0.00 0.00 32.80 3.21
2550 4323 8.806146 AGATTTCAAAAGATTAGCTTAAAGGCA 58.194 29.630 0.00 0.00 35.24 4.75
2571 4344 5.063204 TGTTCATCGTCCAGTTTGAGATTT 58.937 37.500 0.00 0.00 0.00 2.17
2578 4351 3.188460 CGGAATTGTTCATCGTCCAGTTT 59.812 43.478 0.00 0.00 0.00 2.66
2600 4375 7.659186 ACCAACTCGGAGTTTCATATATCTAC 58.341 38.462 20.27 0.00 36.03 2.59
2678 4453 3.063588 GGTCGAAAAGCAGTACATAAGGC 59.936 47.826 0.00 0.00 0.00 4.35
2685 4460 1.347320 CGAGGGTCGAAAAGCAGTAC 58.653 55.000 0.00 0.00 43.74 2.73
2687 4462 1.004918 CCGAGGGTCGAAAAGCAGT 60.005 57.895 0.00 0.00 43.74 4.40
2692 4467 0.177141 CTATGGCCGAGGGTCGAAAA 59.823 55.000 0.00 0.00 43.74 2.29
2708 4483 3.374058 CCATTTTTCTTCCGCACGACTAT 59.626 43.478 0.00 0.00 0.00 2.12
2711 4486 1.533731 TCCATTTTTCTTCCGCACGAC 59.466 47.619 0.00 0.00 0.00 4.34
2835 4774 6.113421 ACTACAACAGTAACTCCCGCAGAG 62.113 50.000 0.00 0.00 41.59 3.35
2974 4915 5.178623 CGGCGTTTCAATACATATGTGGTAT 59.821 40.000 18.81 0.97 33.01 2.73
2996 4937 4.748892 AGTCTGTGATCATGTAACTTCGG 58.251 43.478 0.00 0.00 0.00 4.30
3210 5155 2.335712 GCAAGGCCAAAGTCCGAGG 61.336 63.158 5.01 0.00 0.00 4.63
3220 5165 4.728110 ATGAGCTGCGCAAGGCCA 62.728 61.111 17.05 14.56 42.61 5.36
3319 5264 1.372499 GCCGAAGCTGTACACGTCA 60.372 57.895 0.00 0.00 35.50 4.35
3347 5292 1.209504 CTTCCCGGTAAGCATCTCCAA 59.790 52.381 0.00 0.00 0.00 3.53
3430 5375 2.603473 CACTCCTCCCGGACCACA 60.603 66.667 0.73 0.00 34.92 4.17
3925 6745 1.346395 TCGGTAACAGGCAAGTGACAT 59.654 47.619 0.84 0.00 0.00 3.06
3939 6759 5.840243 TCAGTCGGAGAAAATATCGGTAA 57.160 39.130 0.00 0.00 39.69 2.85
3940 6760 5.840243 TTCAGTCGGAGAAAATATCGGTA 57.160 39.130 0.00 0.00 39.69 4.02
3943 6763 7.567771 GCATAGTTTCAGTCGGAGAAAATATCG 60.568 40.741 11.98 10.06 41.51 2.92
3944 6764 7.439655 AGCATAGTTTCAGTCGGAGAAAATATC 59.560 37.037 11.98 9.06 41.51 1.63
3945 6765 7.275920 AGCATAGTTTCAGTCGGAGAAAATAT 58.724 34.615 10.21 10.21 43.12 1.28
3946 6766 6.640518 AGCATAGTTTCAGTCGGAGAAAATA 58.359 36.000 0.00 0.00 39.69 1.40
3948 6768 4.894784 AGCATAGTTTCAGTCGGAGAAAA 58.105 39.130 0.00 0.00 39.69 2.29
3949 6769 4.537135 AGCATAGTTTCAGTCGGAGAAA 57.463 40.909 0.00 0.00 39.69 2.52
3950 6770 4.245660 CAAGCATAGTTTCAGTCGGAGAA 58.754 43.478 0.00 0.00 39.69 2.87
3951 6771 3.368427 CCAAGCATAGTTTCAGTCGGAGA 60.368 47.826 0.00 0.00 0.00 3.71
3953 6773 2.301870 ACCAAGCATAGTTTCAGTCGGA 59.698 45.455 0.00 0.00 0.00 4.55
3954 6774 2.699954 ACCAAGCATAGTTTCAGTCGG 58.300 47.619 0.00 0.00 0.00 4.79
3955 6775 3.745975 TGAACCAAGCATAGTTTCAGTCG 59.254 43.478 0.00 0.00 0.00 4.18
3957 6777 4.718961 ACTGAACCAAGCATAGTTTCAGT 58.281 39.130 9.02 9.02 33.49 3.41
3959 6779 6.296026 ACTAACTGAACCAAGCATAGTTTCA 58.704 36.000 0.00 0.00 33.93 2.69
3960 6780 6.426937 TGACTAACTGAACCAAGCATAGTTTC 59.573 38.462 0.00 0.00 33.93 2.78
3961 6781 6.204882 GTGACTAACTGAACCAAGCATAGTTT 59.795 38.462 0.00 0.00 33.93 2.66
3962 6782 5.701290 GTGACTAACTGAACCAAGCATAGTT 59.299 40.000 0.00 0.00 35.86 2.24
3963 6783 5.012148 AGTGACTAACTGAACCAAGCATAGT 59.988 40.000 0.00 0.00 37.88 2.12
3964 6784 5.482908 AGTGACTAACTGAACCAAGCATAG 58.517 41.667 0.00 0.00 37.88 2.23
3965 6785 5.483685 AGTGACTAACTGAACCAAGCATA 57.516 39.130 0.00 0.00 37.88 3.14
3967 6787 3.838244 AGTGACTAACTGAACCAAGCA 57.162 42.857 0.00 0.00 37.88 3.91
3977 6797 5.875359 GCCTAAATAACAGCAGTGACTAACT 59.125 40.000 0.00 0.00 40.93 2.24
3978 6798 5.642063 TGCCTAAATAACAGCAGTGACTAAC 59.358 40.000 0.00 0.00 0.00 2.34
3979 6799 5.800296 TGCCTAAATAACAGCAGTGACTAA 58.200 37.500 0.00 0.00 0.00 2.24
3980 6800 5.414789 TGCCTAAATAACAGCAGTGACTA 57.585 39.130 0.00 0.00 0.00 2.59
3981 6801 4.256920 CTGCCTAAATAACAGCAGTGACT 58.743 43.478 0.00 0.00 46.00 3.41
3982 6802 4.606457 CTGCCTAAATAACAGCAGTGAC 57.394 45.455 0.00 0.00 46.00 3.67
3987 6807 6.714810 TCTTTCTTTCTGCCTAAATAACAGCA 59.285 34.615 0.00 0.00 0.00 4.41
3988 6808 7.145932 TCTTTCTTTCTGCCTAAATAACAGC 57.854 36.000 0.00 0.00 0.00 4.40
3989 6809 7.607991 TCCTCTTTCTTTCTGCCTAAATAACAG 59.392 37.037 0.00 0.00 0.00 3.16
3990 6810 7.458397 TCCTCTTTCTTTCTGCCTAAATAACA 58.542 34.615 0.00 0.00 0.00 2.41
3991 6811 7.923414 TCCTCTTTCTTTCTGCCTAAATAAC 57.077 36.000 0.00 0.00 0.00 1.89
3992 6812 8.552296 AGATCCTCTTTCTTTCTGCCTAAATAA 58.448 33.333 0.00 0.00 0.00 1.40
3993 6813 7.989741 CAGATCCTCTTTCTTTCTGCCTAAATA 59.010 37.037 0.00 0.00 0.00 1.40
3994 6814 6.827762 CAGATCCTCTTTCTTTCTGCCTAAAT 59.172 38.462 0.00 0.00 0.00 1.40
3995 6815 6.176183 CAGATCCTCTTTCTTTCTGCCTAAA 58.824 40.000 0.00 0.00 0.00 1.85
3996 6816 5.338708 CCAGATCCTCTTTCTTTCTGCCTAA 60.339 44.000 0.00 0.00 33.97 2.69
3997 6817 4.163078 CCAGATCCTCTTTCTTTCTGCCTA 59.837 45.833 0.00 0.00 33.97 3.93
3998 6818 3.054508 CCAGATCCTCTTTCTTTCTGCCT 60.055 47.826 0.00 0.00 33.97 4.75
3999 6819 3.277715 CCAGATCCTCTTTCTTTCTGCC 58.722 50.000 0.00 0.00 33.97 4.85
4000 6820 3.688673 CACCAGATCCTCTTTCTTTCTGC 59.311 47.826 0.00 0.00 33.97 4.26
4001 6821 4.934602 GTCACCAGATCCTCTTTCTTTCTG 59.065 45.833 0.00 0.00 34.86 3.02
4002 6822 4.594920 TGTCACCAGATCCTCTTTCTTTCT 59.405 41.667 0.00 0.00 0.00 2.52
4003 6823 4.899502 TGTCACCAGATCCTCTTTCTTTC 58.100 43.478 0.00 0.00 0.00 2.62
4004 6824 4.349342 ACTGTCACCAGATCCTCTTTCTTT 59.651 41.667 0.00 0.00 41.50 2.52
4005 6825 3.906846 ACTGTCACCAGATCCTCTTTCTT 59.093 43.478 0.00 0.00 41.50 2.52
4006 6826 3.515562 ACTGTCACCAGATCCTCTTTCT 58.484 45.455 0.00 0.00 41.50 2.52
4007 6827 3.971245 ACTGTCACCAGATCCTCTTTC 57.029 47.619 0.00 0.00 41.50 2.62
4008 6828 4.841246 AGTAACTGTCACCAGATCCTCTTT 59.159 41.667 0.00 0.00 41.50 2.52
4009 6829 4.221703 CAGTAACTGTCACCAGATCCTCTT 59.778 45.833 0.00 0.00 41.50 2.85
4010 6830 3.766591 CAGTAACTGTCACCAGATCCTCT 59.233 47.826 0.00 0.00 41.50 3.69
4011 6831 3.764434 TCAGTAACTGTCACCAGATCCTC 59.236 47.826 0.00 0.00 41.50 3.71
4012 6832 3.779444 TCAGTAACTGTCACCAGATCCT 58.221 45.455 0.00 0.00 41.50 3.24
4013 6833 4.744795 ATCAGTAACTGTCACCAGATCC 57.255 45.455 0.00 0.00 41.50 3.36
4014 6834 6.269315 CAGTATCAGTAACTGTCACCAGATC 58.731 44.000 0.00 0.00 41.50 2.75
4015 6835 5.394663 GCAGTATCAGTAACTGTCACCAGAT 60.395 44.000 5.25 0.00 45.01 2.90
4016 6836 4.082190 GCAGTATCAGTAACTGTCACCAGA 60.082 45.833 5.25 0.00 45.01 3.86
4017 6837 4.177026 GCAGTATCAGTAACTGTCACCAG 58.823 47.826 5.25 0.00 45.01 4.00
4018 6838 3.576550 TGCAGTATCAGTAACTGTCACCA 59.423 43.478 5.25 0.00 45.01 4.17
4019 6839 4.188247 TGCAGTATCAGTAACTGTCACC 57.812 45.455 5.25 0.00 45.01 4.02
4020 6840 5.230942 ACTTGCAGTATCAGTAACTGTCAC 58.769 41.667 5.25 0.00 45.01 3.67
4021 6841 5.468540 ACTTGCAGTATCAGTAACTGTCA 57.531 39.130 5.25 1.78 45.01 3.58
4022 6842 4.559251 CGACTTGCAGTATCAGTAACTGTC 59.441 45.833 5.25 0.00 45.01 3.51
4023 6843 4.217767 TCGACTTGCAGTATCAGTAACTGT 59.782 41.667 5.25 0.00 45.01 3.55
4024 6844 4.733850 TCGACTTGCAGTATCAGTAACTG 58.266 43.478 0.00 0.00 45.80 3.16
4025 6845 4.459685 ACTCGACTTGCAGTATCAGTAACT 59.540 41.667 0.00 0.00 0.00 2.24
4026 6846 4.734917 ACTCGACTTGCAGTATCAGTAAC 58.265 43.478 0.00 0.00 0.00 2.50
4027 6847 4.457949 TGACTCGACTTGCAGTATCAGTAA 59.542 41.667 0.00 0.00 0.00 2.24
4028 6848 4.007659 TGACTCGACTTGCAGTATCAGTA 58.992 43.478 0.00 0.00 0.00 2.74
4029 6849 2.820197 TGACTCGACTTGCAGTATCAGT 59.180 45.455 0.00 0.00 0.00 3.41
4030 6850 3.494045 TGACTCGACTTGCAGTATCAG 57.506 47.619 0.00 0.00 0.00 2.90
4031 6851 3.193479 ACATGACTCGACTTGCAGTATCA 59.807 43.478 0.00 0.00 0.00 2.15
4032 6852 3.775202 ACATGACTCGACTTGCAGTATC 58.225 45.455 0.00 0.00 0.00 2.24
4033 6853 3.876274 ACATGACTCGACTTGCAGTAT 57.124 42.857 0.00 0.00 0.00 2.12
4034 6854 3.317150 CAACATGACTCGACTTGCAGTA 58.683 45.455 0.00 0.00 0.00 2.74
4035 6855 2.138320 CAACATGACTCGACTTGCAGT 58.862 47.619 0.00 0.00 0.00 4.40
4036 6856 1.136141 GCAACATGACTCGACTTGCAG 60.136 52.381 0.00 0.00 37.70 4.41
4037 6857 0.867746 GCAACATGACTCGACTTGCA 59.132 50.000 0.00 0.00 37.70 4.08
4038 6858 0.166814 GGCAACATGACTCGACTTGC 59.833 55.000 0.00 2.77 37.16 4.01
4039 6859 0.439985 CGGCAACATGACTCGACTTG 59.560 55.000 0.00 0.00 0.00 3.16
4040 6860 1.291877 GCGGCAACATGACTCGACTT 61.292 55.000 0.00 0.00 0.00 3.01
4041 6861 1.738099 GCGGCAACATGACTCGACT 60.738 57.895 0.00 0.00 0.00 4.18
4042 6862 1.738099 AGCGGCAACATGACTCGAC 60.738 57.895 0.00 0.00 0.00 4.20
4043 6863 1.737735 CAGCGGCAACATGACTCGA 60.738 57.895 0.00 0.00 0.00 4.04
4044 6864 2.780643 CAGCGGCAACATGACTCG 59.219 61.111 0.00 0.00 0.00 4.18
4045 6865 2.482374 GCAGCGGCAACATGACTC 59.518 61.111 3.18 0.00 40.72 3.36
4046 6866 3.058160 GGCAGCGGCAACATGACT 61.058 61.111 11.88 0.00 43.71 3.41
4047 6867 2.146073 AAAGGCAGCGGCAACATGAC 62.146 55.000 11.88 0.00 43.71 3.06
4048 6868 1.902918 AAAGGCAGCGGCAACATGA 60.903 52.632 11.88 0.00 43.71 3.07
4049 6869 1.735198 CAAAGGCAGCGGCAACATG 60.735 57.895 11.88 0.00 43.71 3.21
4050 6870 1.747325 AACAAAGGCAGCGGCAACAT 61.747 50.000 11.88 0.00 43.71 2.71
4051 6871 1.103987 TAACAAAGGCAGCGGCAACA 61.104 50.000 11.88 0.00 43.71 3.33
4052 6872 0.031449 TTAACAAAGGCAGCGGCAAC 59.969 50.000 11.88 0.00 43.71 4.17
4053 6873 0.031449 GTTAACAAAGGCAGCGGCAA 59.969 50.000 11.88 0.00 43.71 4.52
4054 6874 1.657556 GTTAACAAAGGCAGCGGCA 59.342 52.632 11.88 0.00 43.71 5.69
4055 6875 1.442017 CGTTAACAAAGGCAGCGGC 60.442 57.895 6.39 0.00 40.13 6.53
4056 6876 1.209127 CCGTTAACAAAGGCAGCGG 59.791 57.895 6.39 0.00 0.00 5.52
4057 6877 0.165944 CTCCGTTAACAAAGGCAGCG 59.834 55.000 6.39 0.00 0.00 5.18
4058 6878 0.521735 CCTCCGTTAACAAAGGCAGC 59.478 55.000 6.39 0.00 0.00 5.25
4059 6879 1.535462 CACCTCCGTTAACAAAGGCAG 59.465 52.381 18.65 10.76 31.79 4.85
4060 6880 1.600023 CACCTCCGTTAACAAAGGCA 58.400 50.000 18.65 0.00 31.79 4.75
4061 6881 0.879090 CCACCTCCGTTAACAAAGGC 59.121 55.000 18.65 0.00 31.79 4.35
4062 6882 2.148768 GACCACCTCCGTTAACAAAGG 58.851 52.381 17.59 17.59 34.94 3.11
4063 6883 3.064931 GAGACCACCTCCGTTAACAAAG 58.935 50.000 6.39 1.98 35.87 2.77
4064 6884 3.116079 GAGACCACCTCCGTTAACAAA 57.884 47.619 6.39 0.00 35.87 2.83
4065 6885 2.825861 GAGACCACCTCCGTTAACAA 57.174 50.000 6.39 0.00 35.87 2.83
4082 6902 1.512156 CCCACGTTTTGGTTCCGGAG 61.512 60.000 3.34 0.00 45.25 4.63
4083 6903 1.526455 CCCACGTTTTGGTTCCGGA 60.526 57.895 0.00 0.00 45.25 5.14
4084 6904 3.035727 CCCACGTTTTGGTTCCGG 58.964 61.111 0.00 0.00 45.25 5.14
4085 6905 1.801309 ATGCCCACGTTTTGGTTCCG 61.801 55.000 0.00 0.00 45.25 4.30
4090 6910 2.566010 CCGATGCCCACGTTTTGG 59.434 61.111 0.00 0.00 46.47 3.28
4091 6911 2.566010 CCCGATGCCCACGTTTTG 59.434 61.111 0.00 0.00 0.00 2.44
4114 6934 0.860457 ATTTTGGCTCCCCTATCCCC 59.140 55.000 0.00 0.00 0.00 4.81
4116 6936 2.623416 CGAAATTTTGGCTCCCCTATCC 59.377 50.000 0.00 0.00 0.00 2.59
4117 6937 3.551846 TCGAAATTTTGGCTCCCCTATC 58.448 45.455 5.58 0.00 0.00 2.08
4119 6939 3.443145 TTCGAAATTTTGGCTCCCCTA 57.557 42.857 5.58 0.00 0.00 3.53
4120 6940 2.302587 TTCGAAATTTTGGCTCCCCT 57.697 45.000 5.58 0.00 0.00 4.79
4121 6941 3.261580 CATTTCGAAATTTTGGCTCCCC 58.738 45.455 20.56 0.00 0.00 4.81
4123 6943 4.176271 CTCCATTTCGAAATTTTGGCTCC 58.824 43.478 20.56 0.00 0.00 4.70
4124 6944 4.176271 CCTCCATTTCGAAATTTTGGCTC 58.824 43.478 20.56 0.00 0.00 4.70
4126 6946 3.056179 TCCCTCCATTTCGAAATTTTGGC 60.056 43.478 20.56 0.00 0.00 4.52
4127 6947 4.494484 GTCCCTCCATTTCGAAATTTTGG 58.506 43.478 20.56 19.58 0.00 3.28
4129 6949 4.156477 TGGTCCCTCCATTTCGAAATTTT 58.844 39.130 20.56 0.00 41.93 1.82
4130 6950 3.773560 TGGTCCCTCCATTTCGAAATTT 58.226 40.909 20.56 0.00 41.93 1.82
4131 6951 3.449746 TGGTCCCTCCATTTCGAAATT 57.550 42.857 20.56 3.98 41.93 1.82
4132 6952 3.356290 CTTGGTCCCTCCATTTCGAAAT 58.644 45.455 17.60 17.60 46.60 2.17
4133 6953 2.790433 CTTGGTCCCTCCATTTCGAAA 58.210 47.619 13.91 13.91 46.60 3.46
4134 6954 1.613255 GCTTGGTCCCTCCATTTCGAA 60.613 52.381 0.00 0.00 46.60 3.71
4135 6955 0.035439 GCTTGGTCCCTCCATTTCGA 60.035 55.000 0.00 0.00 46.60 3.71
4136 6956 1.032114 GGCTTGGTCCCTCCATTTCG 61.032 60.000 0.00 0.00 46.60 3.46
4137 6957 0.039618 TGGCTTGGTCCCTCCATTTC 59.960 55.000 0.00 0.00 46.60 2.17
4139 6959 0.040204 CTTGGCTTGGTCCCTCCATT 59.960 55.000 0.00 0.00 46.60 3.16
4140 6960 1.142688 ACTTGGCTTGGTCCCTCCAT 61.143 55.000 0.00 0.00 46.60 3.41
4141 6961 1.360393 AACTTGGCTTGGTCCCTCCA 61.360 55.000 0.00 0.00 45.60 3.86
4144 6964 0.779997 ATCAACTTGGCTTGGTCCCT 59.220 50.000 0.00 0.00 0.00 4.20
4145 6965 2.507407 TATCAACTTGGCTTGGTCCC 57.493 50.000 0.00 0.00 0.00 4.46
4147 6967 9.726438 ATAGTTATATATCAACTTGGCTTGGTC 57.274 33.333 7.68 0.00 37.42 4.02
4148 6968 9.726438 GATAGTTATATATCAACTTGGCTTGGT 57.274 33.333 7.68 0.00 37.42 3.67
4149 6969 9.950496 AGATAGTTATATATCAACTTGGCTTGG 57.050 33.333 7.68 0.00 37.42 3.61
4169 6989 8.290277 TCTCTTTGGAGGGAGTATTAAGATAGT 58.710 37.037 0.00 0.00 39.86 2.12
4183 7003 3.604582 CTGCTTAGTTCTCTTTGGAGGG 58.395 50.000 0.00 0.00 39.86 4.30
4184 7004 3.006247 GCTGCTTAGTTCTCTTTGGAGG 58.994 50.000 0.00 0.00 39.86 4.30
4185 7005 3.936564 AGCTGCTTAGTTCTCTTTGGAG 58.063 45.455 0.00 0.00 40.73 3.86
4196 7089 6.985188 TTGAATCGAAATAAGCTGCTTAGT 57.015 33.333 24.55 20.45 29.02 2.24
4200 7093 5.449588 CCACATTGAATCGAAATAAGCTGCT 60.450 40.000 0.00 0.00 0.00 4.24
4201 7094 4.736793 CCACATTGAATCGAAATAAGCTGC 59.263 41.667 0.00 0.00 0.00 5.25
4207 7100 8.495148 CGTGATAATCCACATTGAATCGAAATA 58.505 33.333 0.00 0.00 36.89 1.40
4262 7155 9.064706 AGATTTATTCATCTTGATCATCGCTTT 57.935 29.630 0.00 0.00 28.19 3.51
4264 7157 8.618702 AAGATTTATTCATCTTGATCATCGCT 57.381 30.769 0.00 0.00 41.20 4.93
4305 7198 9.546909 GTTATGCTATTATGATGACAAAATCGG 57.453 33.333 0.00 0.00 0.00 4.18
4497 7396 5.890419 ACGAAATAGCAGGGTTAGTAGTAGT 59.110 40.000 0.00 0.00 0.00 2.73
4583 7485 7.259290 TGATAGCGTTTTAGATTGAAATCCC 57.741 36.000 0.00 0.00 36.04 3.85
4595 7497 2.764010 TGCTCCTCCTGATAGCGTTTTA 59.236 45.455 0.00 0.00 39.14 1.52
4599 7501 1.137872 CTTTGCTCCTCCTGATAGCGT 59.862 52.381 0.00 0.00 39.14 5.07


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

AutoCloner maintained by Alex Coulton.