Multiple sequence alignment - TraesCS7B01G078300

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7B01G078300 chr7B 100.000 4217 0 0 1 4217 88244247 88248463 0.000000e+00 7788.0
1 TraesCS7B01G078300 chr7B 93.467 2495 121 17 750 3231 87174632 87172167 0.000000e+00 3666.0
2 TraesCS7B01G078300 chr7B 83.604 738 69 18 3385 4084 87170831 87170108 0.000000e+00 645.0
3 TraesCS7B01G078300 chr7B 79.930 284 49 6 382 659 710133239 710132958 7.150000e-48 202.0
4 TraesCS7B01G078300 chr7B 79.649 285 49 6 382 659 710110535 710110253 3.330000e-46 196.0
5 TraesCS7B01G078300 chr7B 79.577 284 50 6 382 659 710121634 710121353 3.330000e-46 196.0
6 TraesCS7B01G078300 chr7A 91.479 2840 142 45 754 3533 127607010 127609809 0.000000e+00 3812.0
7 TraesCS7B01G078300 chr7A 92.997 357 19 5 362 713 127594529 127594174 2.250000e-142 516.0
8 TraesCS7B01G078300 chr7A 87.980 391 39 4 3338 3727 127636380 127636763 4.970000e-124 455.0
9 TraesCS7B01G078300 chr7A 88.089 361 28 7 1 361 127594901 127594556 8.440000e-112 414.0
10 TraesCS7B01G078300 chr7A 84.765 361 36 6 3742 4084 127610014 127610373 1.120000e-90 344.0
11 TraesCS7B01G078300 chr7A 80.519 308 37 18 368 663 519573999 519574295 9.180000e-52 215.0
12 TraesCS7B01G078300 chr7D 93.464 2494 125 19 750 3231 126681420 126683887 0.000000e+00 3668.0
13 TraesCS7B01G078300 chr7D 94.040 2282 99 12 1082 3344 126507329 126505066 0.000000e+00 3426.0
14 TraesCS7B01G078300 chr7D 92.044 817 58 3 1438 2254 88363289 88362480 0.000000e+00 1142.0
15 TraesCS7B01G078300 chr7D 85.298 789 70 17 3334 4084 126684195 126684975 0.000000e+00 773.0
16 TraesCS7B01G078300 chr7D 90.196 357 29 4 362 713 126664879 126664524 1.070000e-125 460.0
17 TraesCS7B01G078300 chr7D 96.111 180 4 1 3350 3529 126504979 126504803 1.480000e-74 291.0
18 TraesCS7B01G078300 chr7D 89.231 195 17 3 68 259 126667965 126667772 1.520000e-59 241.0
19 TraesCS7B01G078300 chr7D 90.370 135 12 1 4080 4214 559273912 559274045 4.330000e-40 176.0
20 TraesCS7B01G078300 chr7D 96.296 81 2 1 1 81 126668797 126668718 9.510000e-27 132.0
21 TraesCS7B01G078300 chr4D 93.268 817 46 4 1438 2254 33240758 33241565 0.000000e+00 1195.0
22 TraesCS7B01G078300 chr4D 74.115 989 227 26 2092 3070 122258737 122257768 8.560000e-102 381.0
23 TraesCS7B01G078300 chr4D 80.968 310 41 11 364 664 417632591 417632891 3.280000e-56 230.0
24 TraesCS7B01G078300 chr4D 83.824 204 24 8 1025 1219 122303617 122303414 7.200000e-43 185.0
25 TraesCS7B01G078300 chr4D 90.625 64 6 0 3629 3692 483478089 483478152 7.510000e-13 86.1
26 TraesCS7B01G078300 chr4D 86.667 75 7 2 3629 3703 461552889 461552960 3.500000e-11 80.5
27 TraesCS7B01G078300 chr5D 92.901 817 49 4 1438 2254 457999143 457998336 0.000000e+00 1179.0
28 TraesCS7B01G078300 chr5D 90.476 63 5 1 3638 3700 309009290 309009229 9.720000e-12 82.4
29 TraesCS7B01G078300 chr3D 92.778 817 52 5 1438 2254 538375321 538374512 0.000000e+00 1175.0
30 TraesCS7B01G078300 chr3D 92.289 817 56 5 1438 2254 26470223 26471032 0.000000e+00 1153.0
31 TraesCS7B01G078300 chr3D 90.000 90 6 3 4084 4171 344558184 344558096 3.450000e-21 113.0
32 TraesCS7B01G078300 chr4A 74.262 983 224 26 2092 3064 448104143 448105106 1.840000e-103 387.0
33 TraesCS7B01G078300 chr4A 84.804 204 22 6 1025 1219 447777079 447777282 3.330000e-46 196.0
34 TraesCS7B01G078300 chr4A 85.321 109 12 3 4083 4189 332020700 332020594 4.460000e-20 110.0
35 TraesCS7B01G078300 chr4A 80.769 104 18 2 1099 1201 447791835 447791937 3.500000e-11 80.5
36 TraesCS7B01G078300 chr4A 77.206 136 29 2 3736 3871 710832302 710832435 1.260000e-10 78.7
37 TraesCS7B01G078300 chr4A 77.206 136 29 2 3736 3871 710838406 710838539 1.260000e-10 78.7
38 TraesCS7B01G078300 chr4A 77.206 136 29 2 3736 3871 710841110 710841243 1.260000e-10 78.7
39 TraesCS7B01G078300 chr1A 83.019 265 35 9 397 656 202042879 202043138 9.120000e-57 231.0
40 TraesCS7B01G078300 chr4B 76.351 444 91 10 2199 2630 653515715 653515274 4.240000e-55 226.0
41 TraesCS7B01G078300 chr4B 88.732 142 16 0 1087 1228 186609246 186609105 1.560000e-39 174.0
42 TraesCS7B01G078300 chr4B 87.121 132 13 4 4083 4212 629770435 629770306 3.400000e-31 147.0
43 TraesCS7B01G078300 chr4B 88.073 109 8 5 4084 4189 291772789 291772683 1.590000e-24 124.0
44 TraesCS7B01G078300 chr4B 80.556 144 18 4 1090 1225 185220042 185219901 7.460000e-18 102.0
45 TraesCS7B01G078300 chr3B 80.546 293 46 9 382 665 641807458 641807748 9.180000e-52 215.0
46 TraesCS7B01G078300 chr3B 89.247 93 10 0 1082 1174 71265547 71265455 2.660000e-22 117.0
47 TraesCS7B01G078300 chr2B 90.909 132 12 0 4083 4214 678695462 678695593 1.200000e-40 178.0
48 TraesCS7B01G078300 chr5A 83.459 133 18 4 4084 4214 267946981 267947111 2.060000e-23 121.0
49 TraesCS7B01G078300 chr5B 82.857 140 17 6 4083 4217 294725006 294724869 7.410000e-23 119.0
50 TraesCS7B01G078300 chr5B 76.230 122 28 1 3580 3700 641816864 641816985 3.520000e-06 63.9
51 TraesCS7B01G078300 chr6D 88.000 100 8 4 4083 4179 212775392 212775490 9.580000e-22 115.0
52 TraesCS7B01G078300 chr6B 90.769 65 6 0 3628 3692 221086375 221086311 2.090000e-13 87.9
53 TraesCS7B01G078300 chr2D 90.625 64 6 0 3629 3692 53137318 53137381 7.510000e-13 86.1
54 TraesCS7B01G078300 chr2D 96.875 32 1 0 3957 3988 499956619 499956650 2.000000e-03 54.7
55 TraesCS7B01G078300 chr3A 73.810 168 41 3 3692 3857 673096127 673095961 3.520000e-06 63.9


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 TraesCS7B01G078300 chr7B 88244247 88248463 4216 False 7788.000000 7788 100.000000 1 4217 1 chr7B.!!$F1 4216
1 TraesCS7B01G078300 chr7B 87170108 87174632 4524 True 2155.500000 3666 88.535500 750 4084 2 chr7B.!!$R4 3334
2 TraesCS7B01G078300 chr7A 127607010 127610373 3363 False 2078.000000 3812 88.122000 754 4084 2 chr7A.!!$F3 3330
3 TraesCS7B01G078300 chr7A 127594174 127594901 727 True 465.000000 516 90.543000 1 713 2 chr7A.!!$R1 712
4 TraesCS7B01G078300 chr7D 126681420 126684975 3555 False 2220.500000 3668 89.381000 750 4084 2 chr7D.!!$F2 3334
5 TraesCS7B01G078300 chr7D 126504803 126507329 2526 True 1858.500000 3426 95.075500 1082 3529 2 chr7D.!!$R2 2447
6 TraesCS7B01G078300 chr7D 88362480 88363289 809 True 1142.000000 1142 92.044000 1438 2254 1 chr7D.!!$R1 816
7 TraesCS7B01G078300 chr7D 126664524 126668797 4273 True 277.666667 460 91.907667 1 713 3 chr7D.!!$R3 712
8 TraesCS7B01G078300 chr4D 33240758 33241565 807 False 1195.000000 1195 93.268000 1438 2254 1 chr4D.!!$F1 816
9 TraesCS7B01G078300 chr4D 122257768 122258737 969 True 381.000000 381 74.115000 2092 3070 1 chr4D.!!$R1 978
10 TraesCS7B01G078300 chr5D 457998336 457999143 807 True 1179.000000 1179 92.901000 1438 2254 1 chr5D.!!$R2 816
11 TraesCS7B01G078300 chr3D 538374512 538375321 809 True 1175.000000 1175 92.778000 1438 2254 1 chr3D.!!$R2 816
12 TraesCS7B01G078300 chr3D 26470223 26471032 809 False 1153.000000 1153 92.289000 1438 2254 1 chr3D.!!$F1 816
13 TraesCS7B01G078300 chr4A 448104143 448105106 963 False 387.000000 387 74.262000 2092 3064 1 chr4A.!!$F3 972

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
720 4284 0.027586 GTGGTGTTGCGACTTGTCAC 59.972 55.0 5.5 5.03 0.0 3.67 F
932 4505 0.106519 CCCCCATGTCAACTCCATCC 60.107 60.0 0.0 0.00 0.0 3.51 F
933 4506 0.106519 CCCCATGTCAACTCCATCCC 60.107 60.0 0.0 0.00 0.0 3.85 F
934 4507 0.921896 CCCATGTCAACTCCATCCCT 59.078 55.0 0.0 0.00 0.0 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2013 5646 0.036952 CGCTCTTCTTCTTGGCCTCA 60.037 55.000 3.32 0.00 0.00 3.86 R
2668 6301 2.591429 CTGGCAGTGCACCACGAA 60.591 61.111 18.61 0.00 39.64 3.85 R
3205 6844 6.528537 AAGACATCTAGGCTAGCTATCATG 57.471 41.667 16.85 15.77 30.53 3.07 R
3259 6930 1.004044 ACCAGTTCAAGCCATCCTGAG 59.996 52.381 0.00 0.00 0.00 3.35 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
55 56 5.295540 GGTATTTGATGAGGAGAAGTCAAGC 59.704 44.000 0.00 0.00 32.76 4.01
94 859 7.963532 ACTCAAGAATTTGTCTTAGTACTCCA 58.036 34.615 0.00 0.00 45.25 3.86
190 958 1.347707 CAAACTCTCTGTGGCCTACCA 59.652 52.381 3.32 0.00 46.51 3.25
206 974 0.338814 ACCATACCGGACCTTCTCCT 59.661 55.000 9.46 0.00 36.80 3.69
286 3807 2.609459 AGATGTCGTCGATTGATTTGCC 59.391 45.455 0.00 0.00 0.00 4.52
341 3862 0.464373 GCTCATCCGGGCTCAAATGA 60.464 55.000 0.00 0.74 0.00 2.57
394 3952 2.512485 TTTCTGTTGTGCATGCCAAG 57.488 45.000 16.68 8.18 0.00 3.61
407 3966 4.233789 GCATGCCAAGTTTTATCACGAAA 58.766 39.130 6.36 0.00 0.00 3.46
479 4042 9.045223 GTTTGGAAGTAAAATTTTCAGAGCATT 57.955 29.630 6.72 0.00 0.00 3.56
558 4121 7.014711 TGCATACACTCCAAACATTCCTTAAAA 59.985 33.333 0.00 0.00 0.00 1.52
566 4129 9.506018 CTCCAAACATTCCTTAAAATTTTCCAT 57.494 29.630 6.72 0.00 0.00 3.41
567 4130 9.282569 TCCAAACATTCCTTAAAATTTTCCATG 57.717 29.630 6.72 6.46 0.00 3.66
702 4266 7.227910 ACTTTGTTGATTTCTATACCGTGTTGT 59.772 33.333 0.00 0.00 0.00 3.32
713 4277 1.297304 CGTGTTGTGGTGTTGCGAC 60.297 57.895 0.00 0.00 0.00 5.19
714 4278 1.701545 CGTGTTGTGGTGTTGCGACT 61.702 55.000 5.50 0.00 0.00 4.18
715 4279 0.450184 GTGTTGTGGTGTTGCGACTT 59.550 50.000 5.50 0.00 0.00 3.01
716 4280 0.449786 TGTTGTGGTGTTGCGACTTG 59.550 50.000 5.50 0.00 0.00 3.16
717 4281 0.450184 GTTGTGGTGTTGCGACTTGT 59.550 50.000 5.50 0.00 0.00 3.16
718 4282 0.730265 TTGTGGTGTTGCGACTTGTC 59.270 50.000 5.50 0.00 0.00 3.18
719 4283 0.391793 TGTGGTGTTGCGACTTGTCA 60.392 50.000 5.50 0.00 0.00 3.58
720 4284 0.027586 GTGGTGTTGCGACTTGTCAC 59.972 55.000 5.50 5.03 0.00 3.67
721 4285 0.107897 TGGTGTTGCGACTTGTCACT 60.108 50.000 5.50 0.00 0.00 3.41
722 4286 1.014352 GGTGTTGCGACTTGTCACTT 58.986 50.000 5.50 0.00 0.00 3.16
723 4287 1.400494 GGTGTTGCGACTTGTCACTTT 59.600 47.619 5.50 0.00 0.00 2.66
724 4288 2.440501 GTGTTGCGACTTGTCACTTTG 58.559 47.619 5.50 0.00 0.00 2.77
725 4289 2.080693 TGTTGCGACTTGTCACTTTGT 58.919 42.857 5.50 0.00 0.00 2.83
726 4290 2.159585 TGTTGCGACTTGTCACTTTGTG 60.160 45.455 5.50 0.00 34.45 3.33
727 4291 1.013596 TGCGACTTGTCACTTTGTGG 58.986 50.000 1.59 0.00 33.87 4.17
728 4292 0.307760 GCGACTTGTCACTTTGTGGG 59.692 55.000 1.59 0.00 33.87 4.61
729 4293 1.948104 CGACTTGTCACTTTGTGGGA 58.052 50.000 1.59 0.00 33.87 4.37
730 4294 1.867233 CGACTTGTCACTTTGTGGGAG 59.133 52.381 1.59 0.00 33.87 4.30
731 4295 2.483013 CGACTTGTCACTTTGTGGGAGA 60.483 50.000 1.59 0.00 33.87 3.71
732 4296 3.134458 GACTTGTCACTTTGTGGGAGAG 58.866 50.000 0.00 0.00 33.87 3.20
733 4297 2.771943 ACTTGTCACTTTGTGGGAGAGA 59.228 45.455 0.00 0.00 33.87 3.10
734 4298 2.910688 TGTCACTTTGTGGGAGAGAC 57.089 50.000 0.00 0.00 35.94 3.36
735 4299 1.068588 TGTCACTTTGTGGGAGAGACG 59.931 52.381 0.00 0.00 37.49 4.18
736 4300 1.340248 GTCACTTTGTGGGAGAGACGA 59.660 52.381 0.00 0.00 33.87 4.20
737 4301 1.613925 TCACTTTGTGGGAGAGACGAG 59.386 52.381 0.00 0.00 33.87 4.18
738 4302 1.613925 CACTTTGTGGGAGAGACGAGA 59.386 52.381 0.00 0.00 0.00 4.04
739 4303 1.889829 ACTTTGTGGGAGAGACGAGAG 59.110 52.381 0.00 0.00 0.00 3.20
766 4330 0.945813 GTATGTCGTCTCCTCCCTCG 59.054 60.000 0.00 0.00 0.00 4.63
852 4420 2.158986 TCGTACCGGTTGGACTTTCAAA 60.159 45.455 15.04 0.00 39.21 2.69
856 4424 1.687563 CGGTTGGACTTTCAAACCCT 58.312 50.000 6.86 0.00 31.03 4.34
857 4425 2.028876 CGGTTGGACTTTCAAACCCTT 58.971 47.619 6.86 0.00 31.03 3.95
878 4451 0.677288 GCCGCCATTTTTATACCCCC 59.323 55.000 0.00 0.00 0.00 5.40
884 4457 2.312390 CATTTTTATACCCCCACCCCG 58.688 52.381 0.00 0.00 0.00 5.73
886 4459 1.935612 TTTTATACCCCCACCCCGGC 61.936 60.000 0.00 0.00 0.00 6.13
915 4488 1.689412 CCCAACCCCAGTAACTCCC 59.311 63.158 0.00 0.00 0.00 4.30
918 4491 1.137594 CAACCCCAGTAACTCCCCCA 61.138 60.000 0.00 0.00 0.00 4.96
919 4492 0.178813 AACCCCAGTAACTCCCCCAT 60.179 55.000 0.00 0.00 0.00 4.00
920 4493 0.919289 ACCCCAGTAACTCCCCCATG 60.919 60.000 0.00 0.00 0.00 3.66
921 4494 0.919289 CCCCAGTAACTCCCCCATGT 60.919 60.000 0.00 0.00 0.00 3.21
922 4495 0.546598 CCCAGTAACTCCCCCATGTC 59.453 60.000 0.00 0.00 0.00 3.06
923 4496 1.285280 CCAGTAACTCCCCCATGTCA 58.715 55.000 0.00 0.00 0.00 3.58
924 4497 1.633432 CCAGTAACTCCCCCATGTCAA 59.367 52.381 0.00 0.00 0.00 3.18
926 4499 2.305927 CAGTAACTCCCCCATGTCAACT 59.694 50.000 0.00 0.00 0.00 3.16
927 4500 2.572104 AGTAACTCCCCCATGTCAACTC 59.428 50.000 0.00 0.00 0.00 3.01
928 4501 0.698818 AACTCCCCCATGTCAACTCC 59.301 55.000 0.00 0.00 0.00 3.85
929 4502 0.475632 ACTCCCCCATGTCAACTCCA 60.476 55.000 0.00 0.00 0.00 3.86
930 4503 0.921896 CTCCCCCATGTCAACTCCAT 59.078 55.000 0.00 0.00 0.00 3.41
931 4504 0.918983 TCCCCCATGTCAACTCCATC 59.081 55.000 0.00 0.00 0.00 3.51
932 4505 0.106519 CCCCCATGTCAACTCCATCC 60.107 60.000 0.00 0.00 0.00 3.51
933 4506 0.106519 CCCCATGTCAACTCCATCCC 60.107 60.000 0.00 0.00 0.00 3.85
934 4507 0.921896 CCCATGTCAACTCCATCCCT 59.078 55.000 0.00 0.00 0.00 4.20
935 4508 1.409241 CCCATGTCAACTCCATCCCTG 60.409 57.143 0.00 0.00 0.00 4.45
936 4509 1.386533 CATGTCAACTCCATCCCTGC 58.613 55.000 0.00 0.00 0.00 4.85
937 4510 0.994247 ATGTCAACTCCATCCCTGCA 59.006 50.000 0.00 0.00 0.00 4.41
940 4513 1.067295 TCAACTCCATCCCTGCAACT 58.933 50.000 0.00 0.00 0.00 3.16
1128 4714 1.588239 TGCTCATGGAGGAGGACATT 58.412 50.000 0.00 0.00 35.41 2.71
1384 4997 1.734137 CCCTACCTCGACGACATGG 59.266 63.158 0.00 0.00 0.00 3.66
1433 5046 2.415010 CGACGAGGATGCCAGGAG 59.585 66.667 0.00 0.00 0.00 3.69
1480 5093 3.706373 GGTTCCAGCAGAGCCCGA 61.706 66.667 0.00 0.00 39.91 5.14
1490 5103 2.125512 GAGCCCGACGCAACTCAT 60.126 61.111 5.46 0.00 41.38 2.90
1668 5284 1.600916 GGCCTTCTTCAGCAACGGT 60.601 57.895 0.00 0.00 0.00 4.83
1695 5311 1.078848 GGACATGCTCAACTCGGCT 60.079 57.895 0.00 0.00 0.00 5.52
1882 5515 4.316823 ACCTGGAGGCGGAGACCA 62.317 66.667 0.00 0.00 31.70 4.02
1920 5553 1.441729 GATGCCGGACATCGAGGAA 59.558 57.895 18.73 0.00 45.53 3.36
1923 5556 2.848957 ATGCCGGACATCGAGGAAACT 61.849 52.381 5.05 0.00 42.43 2.66
2013 5646 2.514592 CGCCTCGCCATGGACAAT 60.515 61.111 18.40 0.00 0.00 2.71
2367 6000 0.958822 GGTTCGCCAACAAGACCATT 59.041 50.000 0.00 0.00 37.19 3.16
2611 6244 1.144276 TTCAAGTTCCACGGCGTGA 59.856 52.632 38.91 22.66 35.23 4.35
2668 6301 3.933048 ATCGACCCGGACGAGGTGT 62.933 63.158 22.92 8.74 42.81 4.16
3223 6868 3.951037 CGACCATGATAGCTAGCCTAGAT 59.049 47.826 12.13 0.00 0.00 1.98
3253 6924 4.878397 CAGAAATCTATGGTTCAGTGGACC 59.122 45.833 14.36 14.36 37.69 4.46
3259 6930 2.737376 GTTCAGTGGACCGCCGTC 60.737 66.667 0.08 0.00 38.38 4.79
3273 6944 1.900351 CCGTCTCAGGATGGCTTGA 59.100 57.895 0.00 0.00 41.15 3.02
3322 7033 8.715191 AGAAATAAGTAGAGATGCAACAAGAG 57.285 34.615 0.00 0.00 0.00 2.85
3366 7386 6.541934 AGATGCTGCTTAGAGATGCATATA 57.458 37.500 0.00 0.00 43.28 0.86
3430 8544 4.201812 GCGCTAATGTACTGCAAATGAAGA 60.202 41.667 0.00 0.00 0.00 2.87
3431 8545 5.673568 GCGCTAATGTACTGCAAATGAAGAA 60.674 40.000 0.00 0.00 0.00 2.52
3432 8546 5.961843 CGCTAATGTACTGCAAATGAAGAAG 59.038 40.000 0.00 0.00 0.00 2.85
3552 8683 1.072159 GCAGCTGGGCGGATCTTAT 59.928 57.895 17.12 0.00 0.00 1.73
3599 8732 2.047655 CTTTACGGCGTGGCTCCA 60.048 61.111 24.86 0.00 0.00 3.86
3611 8744 2.109126 GGCTCCACACGGATTCAGC 61.109 63.158 0.00 0.00 41.79 4.26
3615 8748 1.478510 CTCCACACGGATTCAGCTAGT 59.521 52.381 0.00 0.00 41.79 2.57
3652 8785 1.808411 GAGACTGCCGGTGAAAATCA 58.192 50.000 1.90 0.00 0.00 2.57
3671 8804 0.949105 ACGTCGACTTTGGTCATGGC 60.949 55.000 14.70 0.00 42.21 4.40
3703 8836 1.950472 CGTCTTTGGCATCGTTGTTC 58.050 50.000 0.00 0.00 0.00 3.18
3784 8919 1.552226 GGACGATGACGACGCATTTA 58.448 50.000 0.00 0.00 42.66 1.40
3888 9077 4.893601 TCGACGGCGTGGCACAAA 62.894 61.111 21.19 0.00 44.16 2.83
3924 9113 2.807906 CGCGCGCATGATGGTTGTA 61.808 57.895 32.61 0.00 0.00 2.41
3954 9143 0.593128 GCGTGGCACAACAAGATCTT 59.407 50.000 19.09 0.88 44.16 2.40
3992 9182 7.625817 GCATGTCATCTTGGATAGATAATGCAC 60.626 40.741 16.34 0.00 44.05 4.57
4013 9203 6.128063 TGCACGAATGATCATTGAAATGTACA 60.128 34.615 25.37 12.60 37.65 2.90
4014 9204 6.195244 GCACGAATGATCATTGAAATGTACAC 59.805 38.462 25.37 6.08 37.65 2.90
4015 9205 7.242783 CACGAATGATCATTGAAATGTACACA 58.757 34.615 25.37 0.00 37.65 3.72
4106 9296 3.307829 CTCGAATACGCACGAGTGT 57.692 52.632 4.12 4.12 46.90 3.55
4107 9297 0.907837 CTCGAATACGCACGAGTGTG 59.092 55.000 14.40 14.40 46.90 3.82
4122 9312 7.790861 CACGAGTGTGCGTATCATATATTAA 57.209 36.000 0.00 0.00 43.59 1.40
4123 9313 8.394667 CACGAGTGTGCGTATCATATATTAAT 57.605 34.615 0.00 0.00 43.59 1.40
4124 9314 9.498307 CACGAGTGTGCGTATCATATATTAATA 57.502 33.333 0.00 0.00 43.59 0.98
4125 9315 9.717892 ACGAGTGTGCGTATCATATATTAATAG 57.282 33.333 1.02 0.00 43.61 1.73
4126 9316 9.931210 CGAGTGTGCGTATCATATATTAATAGA 57.069 33.333 1.02 0.00 0.00 1.98
4144 9334 3.162147 AGAAGAAAGGGGGAAAGAAGC 57.838 47.619 0.00 0.00 0.00 3.86
4145 9335 2.171840 GAAGAAAGGGGGAAAGAAGCC 58.828 52.381 0.00 0.00 0.00 4.35
4146 9336 0.409876 AGAAAGGGGGAAAGAAGCCC 59.590 55.000 0.00 0.00 45.25 5.19
4151 9341 2.045242 GGGAAAGAAGCCCCGTCC 60.045 66.667 0.00 0.00 39.81 4.79
4152 9342 2.754375 GGAAAGAAGCCCCGTCCA 59.246 61.111 0.00 0.00 0.00 4.02
4153 9343 1.674651 GGAAAGAAGCCCCGTCCAC 60.675 63.158 0.00 0.00 0.00 4.02
4154 9344 1.072505 GAAAGAAGCCCCGTCCACA 59.927 57.895 0.00 0.00 0.00 4.17
4155 9345 0.955919 GAAAGAAGCCCCGTCCACAG 60.956 60.000 0.00 0.00 0.00 3.66
4156 9346 1.705997 AAAGAAGCCCCGTCCACAGT 61.706 55.000 0.00 0.00 0.00 3.55
4157 9347 0.834687 AAGAAGCCCCGTCCACAGTA 60.835 55.000 0.00 0.00 0.00 2.74
4158 9348 0.834687 AGAAGCCCCGTCCACAGTAA 60.835 55.000 0.00 0.00 0.00 2.24
4159 9349 0.252197 GAAGCCCCGTCCACAGTAAT 59.748 55.000 0.00 0.00 0.00 1.89
4160 9350 0.696501 AAGCCCCGTCCACAGTAATT 59.303 50.000 0.00 0.00 0.00 1.40
4161 9351 1.575419 AGCCCCGTCCACAGTAATTA 58.425 50.000 0.00 0.00 0.00 1.40
4162 9352 1.208776 AGCCCCGTCCACAGTAATTAC 59.791 52.381 7.57 7.57 0.00 1.89
4163 9353 1.065998 GCCCCGTCCACAGTAATTACA 60.066 52.381 17.65 0.00 0.00 2.41
4164 9354 2.420967 GCCCCGTCCACAGTAATTACAT 60.421 50.000 17.65 2.63 0.00 2.29
4165 9355 3.881220 CCCCGTCCACAGTAATTACATT 58.119 45.455 17.65 0.94 0.00 2.71
4166 9356 3.625764 CCCCGTCCACAGTAATTACATTG 59.374 47.826 17.65 12.66 0.00 2.82
4167 9357 3.064820 CCCGTCCACAGTAATTACATTGC 59.935 47.826 17.65 2.43 0.00 3.56
4168 9358 3.242284 CCGTCCACAGTAATTACATTGCG 60.242 47.826 17.65 12.49 0.00 4.85
4169 9359 3.369756 CGTCCACAGTAATTACATTGCGT 59.630 43.478 17.65 4.04 0.00 5.24
4170 9360 4.142988 CGTCCACAGTAATTACATTGCGTT 60.143 41.667 17.65 0.00 0.00 4.84
4171 9361 5.615984 CGTCCACAGTAATTACATTGCGTTT 60.616 40.000 17.65 0.00 0.00 3.60
4172 9362 6.401260 CGTCCACAGTAATTACATTGCGTTTA 60.401 38.462 17.65 0.00 0.00 2.01
4173 9363 7.469260 GTCCACAGTAATTACATTGCGTTTAT 58.531 34.615 17.65 0.00 0.00 1.40
4174 9364 8.605746 GTCCACAGTAATTACATTGCGTTTATA 58.394 33.333 17.65 0.00 0.00 0.98
4175 9365 8.605746 TCCACAGTAATTACATTGCGTTTATAC 58.394 33.333 17.65 0.00 0.00 1.47
4176 9366 8.391859 CCACAGTAATTACATTGCGTTTATACA 58.608 33.333 17.65 0.00 0.00 2.29
4177 9367 9.762062 CACAGTAATTACATTGCGTTTATACAA 57.238 29.630 17.65 0.00 0.00 2.41
4178 9368 9.763465 ACAGTAATTACATTGCGTTTATACAAC 57.237 29.630 17.65 0.00 0.00 3.32
4179 9369 9.762062 CAGTAATTACATTGCGTTTATACAACA 57.238 29.630 17.65 0.00 0.00 3.33
4180 9370 9.763465 AGTAATTACATTGCGTTTATACAACAC 57.237 29.630 17.65 0.00 0.00 3.32
4181 9371 7.713792 AATTACATTGCGTTTATACAACACG 57.286 32.000 0.00 0.00 36.98 4.49
4182 9372 4.073169 ACATTGCGTTTATACAACACGG 57.927 40.909 0.00 0.00 34.42 4.94
4183 9373 3.499157 ACATTGCGTTTATACAACACGGT 59.501 39.130 0.00 0.00 34.42 4.83
4184 9374 3.791993 TTGCGTTTATACAACACGGTC 57.208 42.857 0.00 0.00 34.42 4.79
4185 9375 2.067766 TGCGTTTATACAACACGGTCC 58.932 47.619 0.00 0.00 34.42 4.46
4186 9376 2.067766 GCGTTTATACAACACGGTCCA 58.932 47.619 0.00 0.00 34.42 4.02
4187 9377 2.159801 GCGTTTATACAACACGGTCCAC 60.160 50.000 0.00 0.00 34.42 4.02
4188 9378 2.412770 CGTTTATACAACACGGTCCACC 59.587 50.000 0.00 0.00 0.00 4.61
4189 9379 3.667360 GTTTATACAACACGGTCCACCT 58.333 45.455 0.00 0.00 0.00 4.00
4190 9380 4.067192 GTTTATACAACACGGTCCACCTT 58.933 43.478 0.00 0.00 0.00 3.50
4191 9381 2.178912 ATACAACACGGTCCACCTTG 57.821 50.000 0.74 0.74 40.70 3.61
4192 9382 0.533308 TACAACACGGTCCACCTTGC 60.533 55.000 2.19 0.00 38.70 4.01
4193 9383 1.525995 CAACACGGTCCACCTTGCT 60.526 57.895 2.19 0.00 38.70 3.91
4194 9384 0.250124 CAACACGGTCCACCTTGCTA 60.250 55.000 2.19 0.00 38.70 3.49
4195 9385 0.034896 AACACGGTCCACCTTGCTAG 59.965 55.000 2.19 0.00 38.70 3.42
4196 9386 1.741770 CACGGTCCACCTTGCTAGC 60.742 63.158 8.10 8.10 0.00 3.42
4197 9387 1.913762 ACGGTCCACCTTGCTAGCT 60.914 57.895 17.23 0.00 0.00 3.32
4198 9388 0.613853 ACGGTCCACCTTGCTAGCTA 60.614 55.000 17.23 7.59 0.00 3.32
4199 9389 0.103208 CGGTCCACCTTGCTAGCTAG 59.897 60.000 16.84 16.84 0.00 3.42
4200 9390 1.486211 GGTCCACCTTGCTAGCTAGA 58.514 55.000 25.15 6.86 0.00 2.43
4201 9391 1.410882 GGTCCACCTTGCTAGCTAGAG 59.589 57.143 25.15 17.36 0.00 2.43
4202 9392 1.115467 TCCACCTTGCTAGCTAGAGC 58.885 55.000 25.15 13.46 43.16 4.09
4203 9393 0.249238 CCACCTTGCTAGCTAGAGCG 60.249 60.000 25.15 12.45 45.99 5.03
4204 9394 0.249238 CACCTTGCTAGCTAGAGCGG 60.249 60.000 25.15 19.98 45.99 5.52
4205 9395 0.395862 ACCTTGCTAGCTAGAGCGGA 60.396 55.000 25.15 4.69 45.99 5.54
4206 9396 0.965439 CCTTGCTAGCTAGAGCGGAT 59.035 55.000 25.15 0.00 45.99 4.18
4207 9397 1.342819 CCTTGCTAGCTAGAGCGGATT 59.657 52.381 25.15 0.00 45.99 3.01
4208 9398 2.558795 CCTTGCTAGCTAGAGCGGATTA 59.441 50.000 25.15 0.00 45.99 1.75
4209 9399 3.570559 CTTGCTAGCTAGAGCGGATTAC 58.429 50.000 25.15 3.69 45.99 1.89
4210 9400 2.865079 TGCTAGCTAGAGCGGATTACT 58.135 47.619 25.15 0.00 45.99 2.24
4211 9401 2.814919 TGCTAGCTAGAGCGGATTACTC 59.185 50.000 25.15 2.44 45.99 2.59
4212 9402 3.747708 TGCTAGCTAGAGCGGATTACTCA 60.748 47.826 25.15 5.13 45.99 3.41
4213 9403 5.809817 TGCTAGCTAGAGCGGATTACTCAC 61.810 50.000 25.15 1.79 45.99 3.51
4214 9404 7.948301 TGCTAGCTAGAGCGGATTACTCACT 62.948 48.000 25.15 0.00 45.99 3.41
4215 9405 3.006659 GCTAGAGCGGATTACTCACTG 57.993 52.381 0.00 0.00 36.58 3.66
4216 9406 2.359531 GCTAGAGCGGATTACTCACTGT 59.640 50.000 0.00 0.00 36.58 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 2.005451 CTTGAGTCCGAAATGCAGAGG 58.995 52.381 0.00 0.00 0.00 3.69
132 897 9.869844 CGTCTTATTTCTCAAATGGATGTATTC 57.130 33.333 0.00 0.00 32.38 1.75
133 898 8.840321 CCGTCTTATTTCTCAAATGGATGTATT 58.160 33.333 0.00 0.00 32.38 1.89
152 917 1.927487 TGCCAGGTACTTCCGTCTTA 58.073 50.000 0.00 0.00 41.99 2.10
157 922 1.002087 AGAGTTTGCCAGGTACTTCCG 59.998 52.381 0.00 0.00 41.99 4.30
206 974 0.710588 TTACCTGAGGAGGAGGCAGA 59.289 55.000 4.99 0.00 42.93 4.26
286 3807 1.364626 GGCACTTCATCGAGCACCAG 61.365 60.000 0.00 0.00 0.00 4.00
378 3936 2.228138 AAACTTGGCATGCACAACAG 57.772 45.000 21.36 12.16 0.00 3.16
452 4015 7.551585 TGCTCTGAAAATTTTACTTCCAAACA 58.448 30.769 2.75 0.00 0.00 2.83
498 4061 2.307496 AATCACATTGGTGGAAGGCA 57.693 45.000 0.00 0.00 45.32 4.75
618 4182 1.002069 TCAAATGCTCCTGGGTGGAT 58.998 50.000 0.00 0.00 45.16 3.41
702 4266 0.107897 AGTGACAAGTCGCAACACCA 60.108 50.000 15.30 0.00 42.23 4.17
713 4277 3.134458 GTCTCTCCCACAAAGTGACAAG 58.866 50.000 0.00 0.00 37.27 3.16
714 4278 2.483013 CGTCTCTCCCACAAAGTGACAA 60.483 50.000 0.00 0.00 37.19 3.18
715 4279 1.068588 CGTCTCTCCCACAAAGTGACA 59.931 52.381 0.00 0.00 37.19 3.58
716 4280 1.340248 TCGTCTCTCCCACAAAGTGAC 59.660 52.381 0.00 0.00 35.23 3.67
717 4281 1.613925 CTCGTCTCTCCCACAAAGTGA 59.386 52.381 0.00 0.00 35.23 3.41
718 4282 1.613925 TCTCGTCTCTCCCACAAAGTG 59.386 52.381 0.00 0.00 0.00 3.16
719 4283 1.889829 CTCTCGTCTCTCCCACAAAGT 59.110 52.381 0.00 0.00 0.00 2.66
720 4284 1.889829 ACTCTCGTCTCTCCCACAAAG 59.110 52.381 0.00 0.00 0.00 2.77
721 4285 1.613925 CACTCTCGTCTCTCCCACAAA 59.386 52.381 0.00 0.00 0.00 2.83
722 4286 1.248486 CACTCTCGTCTCTCCCACAA 58.752 55.000 0.00 0.00 0.00 3.33
723 4287 0.609406 CCACTCTCGTCTCTCCCACA 60.609 60.000 0.00 0.00 0.00 4.17
724 4288 0.609681 ACCACTCTCGTCTCTCCCAC 60.610 60.000 0.00 0.00 0.00 4.61
725 4289 0.322636 GACCACTCTCGTCTCTCCCA 60.323 60.000 0.00 0.00 0.00 4.37
726 4290 0.034863 AGACCACTCTCGTCTCTCCC 60.035 60.000 0.00 0.00 35.68 4.30
727 4291 1.091537 CAGACCACTCTCGTCTCTCC 58.908 60.000 0.00 0.00 38.54 3.71
728 4292 1.091537 CCAGACCACTCTCGTCTCTC 58.908 60.000 0.00 0.00 38.54 3.20
729 4293 0.402504 ACCAGACCACTCTCGTCTCT 59.597 55.000 0.00 0.00 38.54 3.10
730 4294 2.110901 TACCAGACCACTCTCGTCTC 57.889 55.000 0.00 0.00 38.54 3.36
731 4295 2.291024 ACATACCAGACCACTCTCGTCT 60.291 50.000 0.00 0.00 41.29 4.18
732 4296 2.093106 ACATACCAGACCACTCTCGTC 58.907 52.381 0.00 0.00 0.00 4.20
733 4297 2.093106 GACATACCAGACCACTCTCGT 58.907 52.381 0.00 0.00 0.00 4.18
734 4298 1.064208 CGACATACCAGACCACTCTCG 59.936 57.143 0.00 0.00 0.00 4.04
735 4299 2.093106 ACGACATACCAGACCACTCTC 58.907 52.381 0.00 0.00 0.00 3.20
736 4300 2.093106 GACGACATACCAGACCACTCT 58.907 52.381 0.00 0.00 0.00 3.24
737 4301 2.093106 AGACGACATACCAGACCACTC 58.907 52.381 0.00 0.00 0.00 3.51
738 4302 2.093106 GAGACGACATACCAGACCACT 58.907 52.381 0.00 0.00 0.00 4.00
739 4303 1.134560 GGAGACGACATACCAGACCAC 59.865 57.143 0.00 0.00 0.00 4.16
740 4304 1.005569 AGGAGACGACATACCAGACCA 59.994 52.381 0.00 0.00 0.00 4.02
741 4305 1.677052 GAGGAGACGACATACCAGACC 59.323 57.143 0.00 0.00 0.00 3.85
742 4306 1.677052 GGAGGAGACGACATACCAGAC 59.323 57.143 0.00 0.00 0.00 3.51
743 4307 1.409802 GGGAGGAGACGACATACCAGA 60.410 57.143 0.00 0.00 0.00 3.86
744 4308 1.033574 GGGAGGAGACGACATACCAG 58.966 60.000 0.00 0.00 0.00 4.00
745 4309 0.629596 AGGGAGGAGACGACATACCA 59.370 55.000 0.00 0.00 0.00 3.25
746 4310 1.320507 GAGGGAGGAGACGACATACC 58.679 60.000 0.00 0.00 0.00 2.73
747 4311 0.945813 CGAGGGAGGAGACGACATAC 59.054 60.000 0.00 0.00 0.00 2.39
748 4312 0.179026 CCGAGGGAGGAGACGACATA 60.179 60.000 0.00 0.00 0.00 2.29
809 4377 0.685660 GTTCGAGGAAGGAAGGGTGT 59.314 55.000 0.00 0.00 0.00 4.16
811 4379 0.178900 AGGTTCGAGGAAGGAAGGGT 60.179 55.000 0.00 0.00 0.00 4.34
834 4402 2.574450 GGTTTGAAAGTCCAACCGGTA 58.426 47.619 8.00 0.00 0.00 4.02
835 4403 1.395635 GGTTTGAAAGTCCAACCGGT 58.604 50.000 0.00 0.00 0.00 5.28
852 4420 2.517998 TAAAAATGGCGGCTAAGGGT 57.482 45.000 11.43 0.00 0.00 4.34
856 4424 3.224269 GGGGTATAAAAATGGCGGCTAA 58.776 45.455 11.43 0.00 0.00 3.09
857 4425 2.489437 GGGGGTATAAAAATGGCGGCTA 60.489 50.000 11.43 0.00 0.00 3.93
915 4488 0.921896 AGGGATGGAGTTGACATGGG 59.078 55.000 0.00 0.00 0.00 4.00
918 4491 0.994247 TGCAGGGATGGAGTTGACAT 59.006 50.000 0.00 0.00 0.00 3.06
919 4492 0.770499 TTGCAGGGATGGAGTTGACA 59.230 50.000 0.00 0.00 0.00 3.58
920 4493 1.168714 GTTGCAGGGATGGAGTTGAC 58.831 55.000 0.00 0.00 0.00 3.18
921 4494 1.067295 AGTTGCAGGGATGGAGTTGA 58.933 50.000 0.00 0.00 0.00 3.18
922 4495 2.026822 ACTAGTTGCAGGGATGGAGTTG 60.027 50.000 0.00 0.00 0.00 3.16
923 4496 2.237392 GACTAGTTGCAGGGATGGAGTT 59.763 50.000 0.00 0.00 0.00 3.01
924 4497 1.834263 GACTAGTTGCAGGGATGGAGT 59.166 52.381 0.00 0.00 0.00 3.85
926 4499 1.951209 TGACTAGTTGCAGGGATGGA 58.049 50.000 0.00 0.00 0.00 3.41
927 4500 2.787473 TTGACTAGTTGCAGGGATGG 57.213 50.000 0.00 0.00 0.00 3.51
928 4501 3.209410 GGATTGACTAGTTGCAGGGATG 58.791 50.000 0.00 0.00 0.00 3.51
929 4502 2.846206 TGGATTGACTAGTTGCAGGGAT 59.154 45.455 0.00 0.00 0.00 3.85
930 4503 2.265367 TGGATTGACTAGTTGCAGGGA 58.735 47.619 0.00 0.00 0.00 4.20
931 4504 2.787473 TGGATTGACTAGTTGCAGGG 57.213 50.000 0.00 0.00 0.00 4.45
932 4505 3.812053 GCTATGGATTGACTAGTTGCAGG 59.188 47.826 0.00 0.00 0.00 4.85
933 4506 4.701765 AGCTATGGATTGACTAGTTGCAG 58.298 43.478 0.00 0.00 0.00 4.41
934 4507 4.443457 GGAGCTATGGATTGACTAGTTGCA 60.443 45.833 0.00 0.00 0.00 4.08
935 4508 4.061596 GGAGCTATGGATTGACTAGTTGC 58.938 47.826 0.00 0.00 0.00 4.17
936 4509 5.053145 GTGGAGCTATGGATTGACTAGTTG 58.947 45.833 0.00 0.00 0.00 3.16
937 4510 4.101741 GGTGGAGCTATGGATTGACTAGTT 59.898 45.833 0.00 0.00 0.00 2.24
940 4513 3.898123 GAGGTGGAGCTATGGATTGACTA 59.102 47.826 0.00 0.00 0.00 2.59
1128 4714 3.635373 ACTGGTAGAAGAACTTGTCGTCA 59.365 43.478 0.00 0.00 37.22 4.35
1433 5046 3.016474 GCGTCAGCAAGGAACGAGC 62.016 63.158 0.00 0.00 44.35 5.03
1476 5089 2.819595 CCCATGAGTTGCGTCGGG 60.820 66.667 0.00 0.00 0.00 5.14
1668 5284 1.450134 GAGCATGTCCATGTCGCCA 60.450 57.895 8.91 0.00 40.80 5.69
1695 5311 3.985410 CTCCATGCCCTTGAGGAAA 57.015 52.632 0.00 0.00 38.24 3.13
1781 5405 0.247736 CTCCTCCTTCTTGACGGTGG 59.752 60.000 7.64 7.64 35.71 4.61
1844 5474 0.729690 GTCCTCGTCGTACCTGTACC 59.270 60.000 2.04 0.00 32.61 3.34
2012 5645 1.406614 CGCTCTTCTTCTTGGCCTCAT 60.407 52.381 3.32 0.00 0.00 2.90
2013 5646 0.036952 CGCTCTTCTTCTTGGCCTCA 60.037 55.000 3.32 0.00 0.00 3.86
2647 6280 4.570663 CTCGTCCGGGTCGATGCC 62.571 72.222 16.28 0.00 36.73 4.40
2668 6301 2.591429 CTGGCAGTGCACCACGAA 60.591 61.111 18.61 0.00 39.64 3.85
3205 6844 6.528537 AAGACATCTAGGCTAGCTATCATG 57.471 41.667 16.85 15.77 30.53 3.07
3259 6930 1.004044 ACCAGTTCAAGCCATCCTGAG 59.996 52.381 0.00 0.00 0.00 3.35
3366 7386 9.816354 GTCCATAAACATATGCCTAAACAAATT 57.184 29.630 1.58 0.00 0.00 1.82
3430 8544 2.764010 GGACAACAAAACCAGGGTTCTT 59.236 45.455 3.82 0.00 37.35 2.52
3431 8545 2.024369 AGGACAACAAAACCAGGGTTCT 60.024 45.455 3.82 0.00 37.35 3.01
3432 8546 2.384828 AGGACAACAAAACCAGGGTTC 58.615 47.619 3.82 0.00 37.35 3.62
3552 8683 2.144078 TGTGGCCGGAAGACCAAGA 61.144 57.895 5.05 0.00 37.79 3.02
3599 8732 1.726853 GCAACTAGCTGAATCCGTGT 58.273 50.000 0.00 0.00 41.15 4.49
3611 8744 0.249073 CACTCCGATCCCGCAACTAG 60.249 60.000 0.00 0.00 0.00 2.57
3615 8748 4.467084 GCCACTCCGATCCCGCAA 62.467 66.667 0.00 0.00 0.00 4.85
3652 8785 0.949105 GCCATGACCAAAGTCGACGT 60.949 55.000 10.46 3.44 46.74 4.34
3655 8788 1.375396 CCGCCATGACCAAAGTCGA 60.375 57.895 0.00 0.00 46.74 4.20
3703 8836 1.034838 AGCGAGGTGAGGCAGACTAG 61.035 60.000 0.00 0.00 0.00 2.57
3784 8919 1.533469 CGGGAAGGGAGAACGACACT 61.533 60.000 0.00 0.00 0.00 3.55
3888 9077 1.511318 CGTCCATCGCCGAGATCTCT 61.511 60.000 20.26 0.00 37.52 3.10
3947 9136 4.581309 TGCCATCCTTCAGAAAGATCTT 57.419 40.909 0.88 0.88 34.14 2.40
3954 9143 3.201487 AGATGACATGCCATCCTTCAGAA 59.799 43.478 17.31 0.00 42.89 3.02
3992 9182 8.845942 AATGTGTACATTTCAATGATCATTCG 57.154 30.769 18.16 13.36 43.48 3.34
4089 9279 3.010088 CACACTCGTGCGTATTCGA 57.990 52.632 0.00 0.00 36.06 3.71
4098 9288 7.790861 TTAATATATGATACGCACACTCGTG 57.209 36.000 0.00 0.00 46.56 4.35
4099 9289 9.717892 CTATTAATATATGATACGCACACTCGT 57.282 33.333 0.00 0.00 45.49 4.18
4100 9290 9.931210 TCTATTAATATATGATACGCACACTCG 57.069 33.333 0.00 0.00 0.00 4.18
4118 9308 7.561722 GCTTCTTTCCCCCTTTCTTCTATTAAT 59.438 37.037 0.00 0.00 0.00 1.40
4119 9309 6.890268 GCTTCTTTCCCCCTTTCTTCTATTAA 59.110 38.462 0.00 0.00 0.00 1.40
4120 9310 6.424032 GCTTCTTTCCCCCTTTCTTCTATTA 58.576 40.000 0.00 0.00 0.00 0.98
4121 9311 5.265191 GCTTCTTTCCCCCTTTCTTCTATT 58.735 41.667 0.00 0.00 0.00 1.73
4122 9312 4.325422 GGCTTCTTTCCCCCTTTCTTCTAT 60.325 45.833 0.00 0.00 0.00 1.98
4123 9313 3.010250 GGCTTCTTTCCCCCTTTCTTCTA 59.990 47.826 0.00 0.00 0.00 2.10
4124 9314 2.225142 GGCTTCTTTCCCCCTTTCTTCT 60.225 50.000 0.00 0.00 0.00 2.85
4125 9315 2.171840 GGCTTCTTTCCCCCTTTCTTC 58.828 52.381 0.00 0.00 0.00 2.87
4126 9316 1.203187 GGGCTTCTTTCCCCCTTTCTT 60.203 52.381 0.00 0.00 37.81 2.52
4127 9317 0.409876 GGGCTTCTTTCCCCCTTTCT 59.590 55.000 0.00 0.00 37.81 2.52
4128 9318 2.977578 GGGCTTCTTTCCCCCTTTC 58.022 57.895 0.00 0.00 37.81 2.62
4134 9324 2.045242 GGACGGGGCTTCTTTCCC 60.045 66.667 0.00 0.00 43.15 3.97
4135 9325 1.674651 GTGGACGGGGCTTCTTTCC 60.675 63.158 0.00 0.00 0.00 3.13
4136 9326 0.955919 CTGTGGACGGGGCTTCTTTC 60.956 60.000 0.00 0.00 0.00 2.62
4137 9327 1.073199 CTGTGGACGGGGCTTCTTT 59.927 57.895 0.00 0.00 0.00 2.52
4138 9328 0.834687 TACTGTGGACGGGGCTTCTT 60.835 55.000 0.00 0.00 0.00 2.52
4139 9329 0.834687 TTACTGTGGACGGGGCTTCT 60.835 55.000 0.00 0.00 0.00 2.85
4140 9330 0.252197 ATTACTGTGGACGGGGCTTC 59.748 55.000 0.00 0.00 0.00 3.86
4141 9331 0.696501 AATTACTGTGGACGGGGCTT 59.303 50.000 0.00 0.00 0.00 4.35
4142 9332 1.208776 GTAATTACTGTGGACGGGGCT 59.791 52.381 8.41 0.00 0.00 5.19
4143 9333 1.065998 TGTAATTACTGTGGACGGGGC 60.066 52.381 16.33 0.00 0.00 5.80
4144 9334 3.553828 ATGTAATTACTGTGGACGGGG 57.446 47.619 16.33 0.00 0.00 5.73
4145 9335 3.064820 GCAATGTAATTACTGTGGACGGG 59.935 47.826 16.33 0.00 32.46 5.28
4146 9336 3.242284 CGCAATGTAATTACTGTGGACGG 60.242 47.826 16.33 0.00 32.46 4.79
4147 9337 3.369756 ACGCAATGTAATTACTGTGGACG 59.630 43.478 16.33 13.63 32.46 4.79
4148 9338 4.939509 ACGCAATGTAATTACTGTGGAC 57.060 40.909 16.33 1.50 32.46 4.02
4149 9339 5.950758 AAACGCAATGTAATTACTGTGGA 57.049 34.783 16.33 0.00 32.46 4.02
4150 9340 8.391859 TGTATAAACGCAATGTAATTACTGTGG 58.608 33.333 16.33 10.13 32.46 4.17
4151 9341 9.762062 TTGTATAAACGCAATGTAATTACTGTG 57.238 29.630 16.33 14.91 32.46 3.66
4152 9342 9.763465 GTTGTATAAACGCAATGTAATTACTGT 57.237 29.630 16.33 3.06 32.46 3.55
4153 9343 9.762062 TGTTGTATAAACGCAATGTAATTACTG 57.238 29.630 16.33 8.56 32.46 2.74
4154 9344 9.763465 GTGTTGTATAAACGCAATGTAATTACT 57.237 29.630 16.33 0.00 32.46 2.24
4155 9345 8.717920 CGTGTTGTATAAACGCAATGTAATTAC 58.282 33.333 8.75 8.75 32.46 1.89
4156 9346 7.903946 CCGTGTTGTATAAACGCAATGTAATTA 59.096 33.333 3.06 0.00 33.16 1.40
4157 9347 6.743627 CCGTGTTGTATAAACGCAATGTAATT 59.256 34.615 3.06 0.00 36.02 1.40
4158 9348 6.128227 ACCGTGTTGTATAAACGCAATGTAAT 60.128 34.615 3.06 0.00 36.02 1.89
4159 9349 5.178996 ACCGTGTTGTATAAACGCAATGTAA 59.821 36.000 3.06 0.00 36.02 2.41
4160 9350 4.689812 ACCGTGTTGTATAAACGCAATGTA 59.310 37.500 3.06 0.00 36.02 2.29
4161 9351 3.499157 ACCGTGTTGTATAAACGCAATGT 59.501 39.130 3.06 0.00 36.02 2.71
4162 9352 4.073169 ACCGTGTTGTATAAACGCAATG 57.927 40.909 3.06 0.00 36.02 2.82
4163 9353 3.125658 GGACCGTGTTGTATAAACGCAAT 59.874 43.478 3.06 0.00 36.02 3.56
4164 9354 2.479656 GGACCGTGTTGTATAAACGCAA 59.520 45.455 3.06 0.00 36.02 4.85
4165 9355 2.067766 GGACCGTGTTGTATAAACGCA 58.932 47.619 3.06 0.00 36.02 5.24
4166 9356 2.067766 TGGACCGTGTTGTATAAACGC 58.932 47.619 0.00 0.00 36.02 4.84
4167 9357 2.412770 GGTGGACCGTGTTGTATAAACG 59.587 50.000 0.00 0.00 37.07 3.60
4168 9358 3.667360 AGGTGGACCGTGTTGTATAAAC 58.333 45.455 0.00 0.00 42.08 2.01
4169 9359 4.066490 CAAGGTGGACCGTGTTGTATAAA 58.934 43.478 3.78 0.00 40.04 1.40
4170 9360 3.666274 CAAGGTGGACCGTGTTGTATAA 58.334 45.455 3.78 0.00 40.04 0.98
4171 9361 2.613474 GCAAGGTGGACCGTGTTGTATA 60.613 50.000 12.51 0.00 45.45 1.47
4172 9362 1.880646 GCAAGGTGGACCGTGTTGTAT 60.881 52.381 12.51 0.00 45.45 2.29
4173 9363 0.533308 GCAAGGTGGACCGTGTTGTA 60.533 55.000 12.51 0.00 45.45 2.41
4174 9364 1.822186 GCAAGGTGGACCGTGTTGT 60.822 57.895 12.51 0.00 45.45 3.32
4175 9365 0.250124 TAGCAAGGTGGACCGTGTTG 60.250 55.000 12.51 3.34 45.45 3.33
4176 9366 0.034896 CTAGCAAGGTGGACCGTGTT 59.965 55.000 12.51 9.46 45.45 3.32
4177 9367 1.671742 CTAGCAAGGTGGACCGTGT 59.328 57.895 12.51 3.66 45.45 4.49
4178 9368 1.741770 GCTAGCAAGGTGGACCGTG 60.742 63.158 10.63 7.33 46.26 4.94
4179 9369 0.613853 TAGCTAGCAAGGTGGACCGT 60.614 55.000 18.83 0.00 42.08 4.83
4180 9370 0.103208 CTAGCTAGCAAGGTGGACCG 59.897 60.000 18.83 0.00 42.08 4.79
4181 9371 1.410882 CTCTAGCTAGCAAGGTGGACC 59.589 57.143 18.83 0.00 36.00 4.46
4182 9372 1.202475 GCTCTAGCTAGCAAGGTGGAC 60.202 57.143 18.83 0.00 42.30 4.02
4183 9373 1.115467 GCTCTAGCTAGCAAGGTGGA 58.885 55.000 18.83 2.38 42.30 4.02
4184 9374 0.249238 CGCTCTAGCTAGCAAGGTGG 60.249 60.000 18.83 0.00 42.91 4.61
4185 9375 0.249238 CCGCTCTAGCTAGCAAGGTG 60.249 60.000 18.83 11.41 42.91 4.00
4186 9376 0.395862 TCCGCTCTAGCTAGCAAGGT 60.396 55.000 18.83 0.00 42.91 3.50
4187 9377 0.965439 ATCCGCTCTAGCTAGCAAGG 59.035 55.000 18.83 16.72 42.91 3.61
4188 9378 2.810439 AATCCGCTCTAGCTAGCAAG 57.190 50.000 18.83 12.10 42.91 4.01
4189 9379 3.223435 AGTAATCCGCTCTAGCTAGCAA 58.777 45.455 18.83 0.53 42.91 3.91
4190 9380 2.814919 GAGTAATCCGCTCTAGCTAGCA 59.185 50.000 18.83 4.45 42.91 3.49
4191 9381 2.814919 TGAGTAATCCGCTCTAGCTAGC 59.185 50.000 16.35 6.62 39.32 3.42
4192 9382 4.069304 AGTGAGTAATCCGCTCTAGCTAG 58.931 47.826 15.01 15.01 39.32 3.42
4193 9383 3.815962 CAGTGAGTAATCCGCTCTAGCTA 59.184 47.826 0.00 0.00 39.32 3.32
4194 9384 2.621055 CAGTGAGTAATCCGCTCTAGCT 59.379 50.000 0.00 0.00 39.32 3.32
4195 9385 2.359531 ACAGTGAGTAATCCGCTCTAGC 59.640 50.000 0.00 0.00 34.30 3.42


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

AutoCloner maintained by Alex Coulton.