Multiple sequence alignment - TraesCS6D01G163300

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 TraesCS6D01G163300 chr6D 100.000 4687 0 0 1 4687 142749599 142754285 0.000000e+00 8656.0
1 TraesCS6D01G163300 chr6D 91.082 684 42 10 3884 4552 465348665 465349344 0.000000e+00 907.0
2 TraesCS6D01G163300 chr6D 84.211 114 15 3 3059 3170 193557100 193557212 1.780000e-19 108.0
3 TraesCS6D01G163300 chr6B 94.462 1300 51 12 822 2112 248359634 248360921 0.000000e+00 1982.0
4 TraesCS6D01G163300 chr6B 94.014 969 43 4 2112 3065 248360982 248361950 0.000000e+00 1454.0
5 TraesCS6D01G163300 chr6B 95.048 828 26 7 1 814 248356531 248357357 0.000000e+00 1288.0
6 TraesCS6D01G163300 chr6B 94.149 564 29 2 3321 3883 248362222 248362782 0.000000e+00 856.0
7 TraesCS6D01G163300 chr6B 94.578 166 5 2 3158 3323 248361947 248362108 2.160000e-63 254.0
8 TraesCS6D01G163300 chr6A 93.123 1265 58 11 873 2112 187762290 187763550 0.000000e+00 1827.0
9 TraesCS6D01G163300 chr6A 95.553 832 27 6 1 828 187741300 187742125 0.000000e+00 1323.0
10 TraesCS6D01G163300 chr6A 94.773 727 20 2 2352 3065 187771951 187772672 0.000000e+00 1116.0
11 TraesCS6D01G163300 chr6A 94.643 728 25 5 3158 3883 187772669 187773384 0.000000e+00 1116.0
12 TraesCS6D01G163300 chr6A 95.868 242 9 1 2112 2353 187763612 187763852 1.580000e-104 390.0
13 TraesCS6D01G163300 chr6A 95.620 137 5 1 4551 4687 424355221 424355356 7.900000e-53 219.0
14 TraesCS6D01G163300 chr4D 93.013 687 32 7 3881 4552 300855343 300856028 0.000000e+00 989.0
15 TraesCS6D01G163300 chr4D 84.821 112 10 5 3058 3166 375382016 375381909 6.410000e-19 106.0
16 TraesCS6D01G163300 chr7D 92.836 684 34 6 3883 4552 629937480 629938162 0.000000e+00 977.0
17 TraesCS6D01G163300 chr7D 87.037 594 68 5 3888 4480 78899860 78899275 0.000000e+00 662.0
18 TraesCS6D01G163300 chr7D 93.836 146 6 3 4543 4687 448243386 448243243 2.840000e-52 217.0
19 TraesCS6D01G163300 chr7D 90.789 152 10 4 4537 4687 415928610 415928462 2.860000e-47 200.0
20 TraesCS6D01G163300 chr7A 92.176 703 31 4 3873 4552 106768025 106768726 0.000000e+00 972.0
21 TraesCS6D01G163300 chr7A 93.793 145 7 2 4544 4687 423098139 423097996 2.840000e-52 217.0
22 TraesCS6D01G163300 chr7A 85.981 107 7 5 3057 3159 44444273 44444171 1.780000e-19 108.0
23 TraesCS6D01G163300 chr7A 86.538 104 7 5 3061 3161 203965932 203965833 1.780000e-19 108.0
24 TraesCS6D01G163300 chr3D 92.533 683 35 7 3884 4552 27684361 27685041 0.000000e+00 965.0
25 TraesCS6D01G163300 chr3D 88.833 600 62 3 3884 4480 28336424 28337021 0.000000e+00 732.0
26 TraesCS6D01G163300 chr3D 93.548 62 4 0 4491 4552 28337317 28337378 4.990000e-15 93.5
27 TraesCS6D01G163300 chr7B 90.698 688 38 8 3886 4552 668212974 668212292 0.000000e+00 893.0
28 TraesCS6D01G163300 chr3A 91.786 487 18 2 4088 4552 64075232 64074746 0.000000e+00 658.0
29 TraesCS6D01G163300 chr3A 87.255 102 6 5 3061 3159 77405027 77404930 4.960000e-20 110.0
30 TraesCS6D01G163300 chr5D 82.861 706 91 11 3872 4552 455767276 455767976 1.440000e-169 606.0
31 TraesCS6D01G163300 chr5A 94.483 145 5 3 4544 4687 318375636 318375494 2.200000e-53 220.0
32 TraesCS6D01G163300 chr5A 93.103 145 8 2 4544 4687 568181703 568181560 1.320000e-50 211.0
33 TraesCS6D01G163300 chr4A 95.620 137 5 1 4551 4687 536009127 536009262 7.900000e-53 219.0
34 TraesCS6D01G163300 chr2A 93.793 145 7 2 4544 4687 602119820 602119963 2.840000e-52 217.0
35 TraesCS6D01G163300 chr2A 93.750 144 7 2 4545 4687 132907809 132907951 1.020000e-51 215.0
36 TraesCS6D01G163300 chr2D 87.255 102 8 3 3060 3159 417350229 417350131 1.380000e-20 111.0
37 TraesCS6D01G163300 chr2B 85.586 111 11 4 3062 3170 338733168 338733061 1.380000e-20 111.0
38 TraesCS6D01G163300 chr5B 86.667 105 6 5 3059 3159 450383738 450383838 4.960000e-20 110.0
39 TraesCS6D01G163300 chr1B 86.538 104 7 5 3061 3161 600973421 600973520 1.780000e-19 108.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G163300 chr6D 142749599 142754285 4686 False 8656.00 8656 100.0000 1 4687 1 chr6D.!!$F1 4686
1 TraesCS6D01G163300 chr6D 465348665 465349344 679 False 907.00 907 91.0820 3884 4552 1 chr6D.!!$F3 668
2 TraesCS6D01G163300 chr6B 248356531 248362782 6251 False 1166.80 1982 94.4502 1 3883 5 chr6B.!!$F1 3882
3 TraesCS6D01G163300 chr6A 187741300 187742125 825 False 1323.00 1323 95.5530 1 828 1 chr6A.!!$F1 827
4 TraesCS6D01G163300 chr6A 187771951 187773384 1433 False 1116.00 1116 94.7080 2352 3883 2 chr6A.!!$F4 1531
5 TraesCS6D01G163300 chr6A 187762290 187763852 1562 False 1108.50 1827 94.4955 873 2353 2 chr6A.!!$F3 1480
6 TraesCS6D01G163300 chr4D 300855343 300856028 685 False 989.00 989 93.0130 3881 4552 1 chr4D.!!$F1 671
7 TraesCS6D01G163300 chr7D 629937480 629938162 682 False 977.00 977 92.8360 3883 4552 1 chr7D.!!$F1 669
8 TraesCS6D01G163300 chr7D 78899275 78899860 585 True 662.00 662 87.0370 3888 4480 1 chr7D.!!$R1 592
9 TraesCS6D01G163300 chr7A 106768025 106768726 701 False 972.00 972 92.1760 3873 4552 1 chr7A.!!$F1 679
10 TraesCS6D01G163300 chr3D 27684361 27685041 680 False 965.00 965 92.5330 3884 4552 1 chr3D.!!$F1 668
11 TraesCS6D01G163300 chr3D 28336424 28337378 954 False 412.75 732 91.1905 3884 4552 2 chr3D.!!$F2 668
12 TraesCS6D01G163300 chr7B 668212292 668212974 682 True 893.00 893 90.6980 3886 4552 1 chr7B.!!$R1 666
13 TraesCS6D01G163300 chr5D 455767276 455767976 700 False 606.00 606 82.8610 3872 4552 1 chr5D.!!$F1 680

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
463 465 1.066143 GCAGTAGCTTCCTGGTAGCAA 60.066 52.381 24.53 0.0 41.11 3.91 F
1593 3890 0.387202 AAGCGGGTGAGATCATCGAG 59.613 55.000 11.06 0.0 0.00 4.04 F
1714 4014 0.037975 GAAGCAACCTTCGTCCGGTA 60.038 55.000 0.00 0.0 38.24 4.02 F
1837 4137 0.461135 GCCAGGGTATGTGCATTTGG 59.539 55.000 0.00 0.0 0.00 3.28 F
3074 5466 0.893447 CGAATATACTCCCCCGTCCC 59.107 60.000 0.00 0.0 0.00 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1714 4014 0.183492 TGTGGCAGGCTGAAAGAAGT 59.817 50.0 20.86 0.00 34.07 3.01 R
3144 5536 0.034283 ACCAGTACTCTCTCCGTCCC 60.034 60.0 0.00 0.00 0.00 4.46 R
3158 5550 0.593128 GCGACAAAGCATTGACCAGT 59.407 50.0 8.96 0.00 38.94 4.00 R
3159 5551 0.877071 AGCGACAAAGCATTGACCAG 59.123 50.0 8.96 0.00 38.94 4.00 R
4617 7442 0.030504 CAAATGAGTGGTGCAACGCA 59.969 50.0 19.16 7.82 38.12 5.24 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
346 348 1.219664 CTGGAACCCGCCGATGTTA 59.780 57.895 0.00 0.00 0.00 2.41
448 450 4.082523 GCTCCAGTGCCGGCAGTA 62.083 66.667 35.35 20.77 0.00 2.74
463 465 1.066143 GCAGTAGCTTCCTGGTAGCAA 60.066 52.381 24.53 0.00 41.11 3.91
516 518 3.251245 GCCATTGATCATCTCTTGCTGAG 59.749 47.826 0.00 1.66 43.96 3.35
652 655 4.965119 ACACACCTTCAGAAAGTTTCAC 57.035 40.909 17.65 0.00 0.00 3.18
676 679 3.444916 CATGCATGCTTGAATCTGAACC 58.555 45.455 25.15 0.00 0.00 3.62
698 702 5.376854 CCTCAAATGTTTAGGGAACTGTG 57.623 43.478 0.00 0.00 43.88 3.66
866 3151 8.174733 AGACTTGAAAGTTTCACAATGATCAT 57.825 30.769 17.85 1.18 39.88 2.45
867 3152 8.080417 AGACTTGAAAGTTTCACAATGATCATG 58.920 33.333 17.85 6.30 39.88 3.07
868 3153 7.149973 ACTTGAAAGTTTCACAATGATCATGG 58.850 34.615 17.85 9.03 39.87 3.66
869 3154 5.472148 TGAAAGTTTCACAATGATCATGGC 58.528 37.500 14.35 0.00 34.08 4.40
870 3155 5.010820 TGAAAGTTTCACAATGATCATGGCA 59.989 36.000 14.35 0.00 34.08 4.92
871 3156 5.670792 AAGTTTCACAATGATCATGGCAT 57.329 34.783 9.46 0.00 0.00 4.40
998 3285 1.226802 CACCGCATCCTCTCAGACG 60.227 63.158 0.00 0.00 0.00 4.18
1166 3460 3.420893 CTGGAGCTCCCTCTGATAGTAG 58.579 54.545 29.95 12.38 38.21 2.57
1195 3491 1.228533 GTTCGAGGGTGGCGTTTTTA 58.771 50.000 0.00 0.00 0.00 1.52
1196 3492 1.603326 GTTCGAGGGTGGCGTTTTTAA 59.397 47.619 0.00 0.00 0.00 1.52
1295 3591 3.617263 CGACGCTTTCTTACCAATAGCTT 59.383 43.478 0.00 0.00 0.00 3.74
1339 3635 9.083422 TCTGTAGATTAGATTAGATGTTCCCAG 57.917 37.037 0.00 0.00 0.00 4.45
1391 3687 1.963515 ACAATCTGTGGGTTTTCTGCC 59.036 47.619 0.00 0.00 0.00 4.85
1447 3743 1.908299 GAAGGGTGTGCTTTGGGGG 60.908 63.158 0.00 0.00 0.00 5.40
1454 3750 1.367471 GTGCTTTGGGGGAAACTGC 59.633 57.895 0.00 0.00 0.00 4.40
1593 3890 0.387202 AAGCGGGTGAGATCATCGAG 59.613 55.000 11.06 0.00 0.00 4.04
1660 3960 1.228124 GTGGCAGTTGCACTGGGTA 60.228 57.895 15.16 0.00 46.01 3.69
1665 3965 1.246649 CAGTTGCACTGGGTATTGCA 58.753 50.000 8.03 0.00 46.93 4.08
1714 4014 0.037975 GAAGCAACCTTCGTCCGGTA 60.038 55.000 0.00 0.00 38.24 4.02
1761 4061 0.740164 ATGCTTCTGCGCAGTCAGAG 60.740 55.000 34.70 26.18 44.10 3.35
1762 4062 2.099431 GCTTCTGCGCAGTCAGAGG 61.099 63.158 34.70 18.46 40.47 3.69
1837 4137 0.461135 GCCAGGGTATGTGCATTTGG 59.539 55.000 0.00 0.00 0.00 3.28
1968 4268 7.995488 TCAGTCTGTGAGATGTCAGATCTATTA 59.005 37.037 0.00 0.00 41.67 0.98
1969 4269 8.628280 CAGTCTGTGAGATGTCAGATCTATTAA 58.372 37.037 0.00 0.00 41.67 1.40
2026 4341 5.221501 ACAATGGTTGCAATAGCTTTTGAGT 60.222 36.000 19.53 0.00 42.74 3.41
2323 4701 9.236691 CATATGCACAAATTTATACCTGTTCAC 57.763 33.333 0.00 0.00 0.00 3.18
2546 4924 8.883731 CCATTTCGTCAGAAGATAGTACAAAAT 58.116 33.333 0.00 0.00 37.70 1.82
2655 5033 5.631096 GCTTTTTAGACAAACAAGAGCATCC 59.369 40.000 0.00 0.00 33.66 3.51
2702 5080 8.412608 AGACAAGTATTTATCAATCACTGACG 57.587 34.615 0.00 0.00 36.69 4.35
2862 5240 9.846248 GAACTAGCAGTTTCACAATCATTATTT 57.154 29.630 3.56 0.00 38.80 1.40
3064 5456 7.881232 TCCTTTCCAGTTTTCAACGAATATACT 59.119 33.333 0.00 0.00 36.23 2.12
3065 5457 8.175716 CCTTTCCAGTTTTCAACGAATATACTC 58.824 37.037 0.00 0.00 36.23 2.59
3066 5458 7.605410 TTCCAGTTTTCAACGAATATACTCC 57.395 36.000 0.00 0.00 36.23 3.85
3067 5459 6.110707 TCCAGTTTTCAACGAATATACTCCC 58.889 40.000 0.00 0.00 36.23 4.30
3068 5460 5.296035 CCAGTTTTCAACGAATATACTCCCC 59.704 44.000 0.00 0.00 36.23 4.81
3069 5461 5.296035 CAGTTTTCAACGAATATACTCCCCC 59.704 44.000 0.00 0.00 36.23 5.40
3070 5462 3.738830 TTCAACGAATATACTCCCCCG 57.261 47.619 0.00 0.00 0.00 5.73
3071 5463 2.669781 TCAACGAATATACTCCCCCGT 58.330 47.619 0.00 0.00 0.00 5.28
3072 5464 2.624838 TCAACGAATATACTCCCCCGTC 59.375 50.000 0.00 0.00 0.00 4.79
3073 5465 1.625511 ACGAATATACTCCCCCGTCC 58.374 55.000 0.00 0.00 0.00 4.79
3074 5466 0.893447 CGAATATACTCCCCCGTCCC 59.107 60.000 0.00 0.00 0.00 4.46
3075 5467 1.824444 CGAATATACTCCCCCGTCCCA 60.824 57.143 0.00 0.00 0.00 4.37
3076 5468 2.332117 GAATATACTCCCCCGTCCCAA 58.668 52.381 0.00 0.00 0.00 4.12
3077 5469 2.500269 ATATACTCCCCCGTCCCAAA 57.500 50.000 0.00 0.00 0.00 3.28
3078 5470 2.267160 TATACTCCCCCGTCCCAAAA 57.733 50.000 0.00 0.00 0.00 2.44
3079 5471 1.603634 ATACTCCCCCGTCCCAAAAT 58.396 50.000 0.00 0.00 0.00 1.82
3080 5472 2.267160 TACTCCCCCGTCCCAAAATA 57.733 50.000 0.00 0.00 0.00 1.40
3081 5473 1.374572 ACTCCCCCGTCCCAAAATAA 58.625 50.000 0.00 0.00 0.00 1.40
3082 5474 1.283905 ACTCCCCCGTCCCAAAATAAG 59.716 52.381 0.00 0.00 0.00 1.73
3083 5475 1.283905 CTCCCCCGTCCCAAAATAAGT 59.716 52.381 0.00 0.00 0.00 2.24
3084 5476 1.004979 TCCCCCGTCCCAAAATAAGTG 59.995 52.381 0.00 0.00 0.00 3.16
3085 5477 1.004979 CCCCCGTCCCAAAATAAGTGA 59.995 52.381 0.00 0.00 0.00 3.41
3086 5478 2.089201 CCCCGTCCCAAAATAAGTGAC 58.911 52.381 0.00 0.00 0.00 3.67
3087 5479 2.290705 CCCCGTCCCAAAATAAGTGACT 60.291 50.000 0.00 0.00 0.00 3.41
3088 5480 3.007635 CCCGTCCCAAAATAAGTGACTC 58.992 50.000 0.00 0.00 0.00 3.36
3089 5481 3.558321 CCCGTCCCAAAATAAGTGACTCA 60.558 47.826 0.00 0.00 0.00 3.41
3090 5482 4.069304 CCGTCCCAAAATAAGTGACTCAA 58.931 43.478 0.00 0.00 0.00 3.02
3091 5483 4.083484 CCGTCCCAAAATAAGTGACTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
3092 5484 4.755123 CGTCCCAAAATAAGTGACTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
3093 5485 5.238650 CGTCCCAAAATAAGTGACTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
3094 5486 6.238648 CGTCCCAAAATAAGTGACTCAACTTT 60.239 38.462 0.00 0.00 40.77 2.66
3095 5487 6.918022 GTCCCAAAATAAGTGACTCAACTTTG 59.082 38.462 0.00 0.00 40.77 2.77
3096 5488 5.691754 CCCAAAATAAGTGACTCAACTTTGC 59.308 40.000 0.00 0.00 40.77 3.68
3097 5489 6.272318 CCAAAATAAGTGACTCAACTTTGCA 58.728 36.000 0.00 0.00 40.77 4.08
3098 5490 6.198966 CCAAAATAAGTGACTCAACTTTGCAC 59.801 38.462 0.00 0.00 40.77 4.57
3099 5491 6.699575 AAATAAGTGACTCAACTTTGCACT 57.300 33.333 0.00 0.00 40.77 4.40
3100 5492 7.801716 AAATAAGTGACTCAACTTTGCACTA 57.198 32.000 0.00 0.00 40.77 2.74
3101 5493 7.986085 AATAAGTGACTCAACTTTGCACTAT 57.014 32.000 0.00 0.00 40.77 2.12
3102 5494 7.986085 ATAAGTGACTCAACTTTGCACTATT 57.014 32.000 0.00 0.00 40.77 1.73
3103 5495 5.679734 AGTGACTCAACTTTGCACTATTG 57.320 39.130 0.00 0.00 37.98 1.90
3104 5496 4.516698 AGTGACTCAACTTTGCACTATTGG 59.483 41.667 0.00 0.00 37.98 3.16
3105 5497 3.253188 TGACTCAACTTTGCACTATTGGC 59.747 43.478 0.00 0.00 0.00 4.52
3106 5498 3.221771 ACTCAACTTTGCACTATTGGCA 58.778 40.909 0.00 0.00 40.00 4.92
3119 5511 9.964303 TTGCACTATTGGCAACTAATATTATTG 57.036 29.630 0.00 4.85 45.57 1.90
3120 5512 8.575589 TGCACTATTGGCAACTAATATTATTGG 58.424 33.333 0.00 0.00 38.54 3.16
3121 5513 8.576442 GCACTATTGGCAACTAATATTATTGGT 58.424 33.333 0.00 0.00 37.61 3.67
3144 5536 9.743057 TGGTACAAAATTGAGTCACTTATTTTG 57.257 29.630 25.90 25.90 46.06 2.44
3145 5537 9.191995 GGTACAAAATTGAGTCACTTATTTTGG 57.808 33.333 28.46 18.25 45.43 3.28
3146 5538 9.191995 GTACAAAATTGAGTCACTTATTTTGGG 57.808 33.333 28.46 15.64 45.43 4.12
3147 5539 8.017418 ACAAAATTGAGTCACTTATTTTGGGA 57.983 30.769 28.46 1.96 45.43 4.37
3148 5540 7.926018 ACAAAATTGAGTCACTTATTTTGGGAC 59.074 33.333 28.46 7.24 45.43 4.46
3149 5541 5.880054 ATTGAGTCACTTATTTTGGGACG 57.120 39.130 0.00 0.00 33.84 4.79
3150 5542 3.670625 TGAGTCACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 33.84 4.79
3151 5543 3.325425 TGAGTCACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 33.84 4.69
3152 5544 3.933332 GAGTCACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 33.84 4.63
3153 5545 3.581332 AGTCACTTATTTTGGGACGGAGA 59.419 43.478 0.00 0.00 33.84 3.71
3154 5546 3.933332 GTCACTTATTTTGGGACGGAGAG 59.067 47.826 0.00 0.00 0.00 3.20
3155 5547 3.835978 TCACTTATTTTGGGACGGAGAGA 59.164 43.478 0.00 0.00 0.00 3.10
3156 5548 4.081642 TCACTTATTTTGGGACGGAGAGAG 60.082 45.833 0.00 0.00 0.00 3.20
3157 5549 3.838903 ACTTATTTTGGGACGGAGAGAGT 59.161 43.478 0.00 0.00 0.00 3.24
3158 5550 5.021458 ACTTATTTTGGGACGGAGAGAGTA 58.979 41.667 0.00 0.00 0.00 2.59
3159 5551 3.889520 ATTTTGGGACGGAGAGAGTAC 57.110 47.619 0.00 0.00 0.00 2.73
3176 5568 3.067106 AGTACTGGTCAATGCTTTGTCG 58.933 45.455 11.67 2.87 34.32 4.35
3286 5678 7.622081 TCTTCCTATCCAGGTAAAGTGACATTA 59.378 37.037 0.00 0.00 43.18 1.90
3377 5885 9.071276 GGTATGGACATTTGATTTATCATCACT 57.929 33.333 0.00 0.00 36.56 3.41
3405 5913 5.771666 ACTTGCCACATATCAATGGATAAGG 59.228 40.000 0.00 0.00 39.36 2.69
3427 5935 4.446371 GACCTGTCAATCCTTACTCATGG 58.554 47.826 0.00 0.00 0.00 3.66
3527 6035 1.358725 CTGCCGTGGTACATGTTCCG 61.359 60.000 15.83 5.72 45.33 4.30
3570 6079 5.312079 CACAGTTCAATTTCTCCTTCTCCT 58.688 41.667 0.00 0.00 0.00 3.69
3571 6080 5.411053 CACAGTTCAATTTCTCCTTCTCCTC 59.589 44.000 0.00 0.00 0.00 3.71
3823 6332 9.294030 GAAGCTTTCAAATCGATTATGTTGATT 57.706 29.630 11.83 7.25 41.74 2.57
3855 6365 2.851263 TTCCACAGCGTAGGAATTGT 57.149 45.000 3.16 0.00 38.91 2.71
4148 6662 1.670326 CTGTAACTTTCAAACCGCGC 58.330 50.000 0.00 0.00 0.00 6.86
4215 6729 3.941483 ACGCTTCAAAACTAGATCCCATG 59.059 43.478 0.00 0.00 0.00 3.66
4338 6854 7.987268 TCGTGTGTATTAGTGAATTCATCTC 57.013 36.000 12.12 0.00 0.00 2.75
4503 7308 3.498777 GCCTCAGAAACCAAGTTGTCTAC 59.501 47.826 1.45 0.00 0.00 2.59
4552 7377 8.177119 TGATCCCCAATTGCATAAAATACTAC 57.823 34.615 0.00 0.00 0.00 2.73
4553 7378 8.004215 TGATCCCCAATTGCATAAAATACTACT 58.996 33.333 0.00 0.00 0.00 2.57
4554 7379 7.817418 TCCCCAATTGCATAAAATACTACTC 57.183 36.000 0.00 0.00 0.00 2.59
4555 7380 6.775629 TCCCCAATTGCATAAAATACTACTCC 59.224 38.462 0.00 0.00 0.00 3.85
4556 7381 6.015434 CCCCAATTGCATAAAATACTACTCCC 60.015 42.308 0.00 0.00 0.00 4.30
4557 7382 6.777580 CCCAATTGCATAAAATACTACTCCCT 59.222 38.462 0.00 0.00 0.00 4.20
4558 7383 7.040409 CCCAATTGCATAAAATACTACTCCCTC 60.040 40.741 0.00 0.00 0.00 4.30
4559 7384 7.040409 CCAATTGCATAAAATACTACTCCCTCC 60.040 40.741 0.00 0.00 0.00 4.30
4560 7385 5.209818 TGCATAAAATACTACTCCCTCCG 57.790 43.478 0.00 0.00 0.00 4.63
4561 7386 4.652421 TGCATAAAATACTACTCCCTCCGT 59.348 41.667 0.00 0.00 0.00 4.69
4562 7387 5.129815 TGCATAAAATACTACTCCCTCCGTT 59.870 40.000 0.00 0.00 0.00 4.44
4563 7388 5.695363 GCATAAAATACTACTCCCTCCGTTC 59.305 44.000 0.00 0.00 0.00 3.95
4564 7389 4.750021 AAAATACTACTCCCTCCGTTCC 57.250 45.455 0.00 0.00 0.00 3.62
4565 7390 3.684408 AATACTACTCCCTCCGTTCCT 57.316 47.619 0.00 0.00 0.00 3.36
4566 7391 3.684408 ATACTACTCCCTCCGTTCCTT 57.316 47.619 0.00 0.00 0.00 3.36
4567 7392 1.558233 ACTACTCCCTCCGTTCCTTG 58.442 55.000 0.00 0.00 0.00 3.61
4568 7393 1.076677 ACTACTCCCTCCGTTCCTTGA 59.923 52.381 0.00 0.00 0.00 3.02
4569 7394 2.292323 ACTACTCCCTCCGTTCCTTGAT 60.292 50.000 0.00 0.00 0.00 2.57
4570 7395 2.544844 ACTCCCTCCGTTCCTTGATA 57.455 50.000 0.00 0.00 0.00 2.15
4571 7396 3.047695 ACTCCCTCCGTTCCTTGATAT 57.952 47.619 0.00 0.00 0.00 1.63
4572 7397 4.194678 ACTCCCTCCGTTCCTTGATATA 57.805 45.455 0.00 0.00 0.00 0.86
4573 7398 4.553678 ACTCCCTCCGTTCCTTGATATAA 58.446 43.478 0.00 0.00 0.00 0.98
4574 7399 4.589374 ACTCCCTCCGTTCCTTGATATAAG 59.411 45.833 0.00 0.00 0.00 1.73
4575 7400 3.901844 TCCCTCCGTTCCTTGATATAAGG 59.098 47.826 0.00 0.00 38.78 2.69
4576 7401 3.646637 CCCTCCGTTCCTTGATATAAGGT 59.353 47.826 5.67 0.00 38.55 3.50
4577 7402 4.503296 CCCTCCGTTCCTTGATATAAGGTG 60.503 50.000 5.67 0.00 38.55 4.00
4578 7403 4.101119 CCTCCGTTCCTTGATATAAGGTGT 59.899 45.833 5.67 0.00 38.55 4.16
4579 7404 5.303589 CCTCCGTTCCTTGATATAAGGTGTA 59.696 44.000 5.67 0.00 38.55 2.90
4580 7405 6.014499 CCTCCGTTCCTTGATATAAGGTGTAT 60.014 42.308 5.67 0.00 38.55 2.29
4581 7406 7.177921 CCTCCGTTCCTTGATATAAGGTGTATA 59.822 40.741 5.67 0.00 38.55 1.47
4582 7407 8.118976 TCCGTTCCTTGATATAAGGTGTATAG 57.881 38.462 5.67 0.00 38.55 1.31
4583 7408 7.727186 TCCGTTCCTTGATATAAGGTGTATAGT 59.273 37.037 5.67 0.00 38.55 2.12
4584 7409 8.365647 CCGTTCCTTGATATAAGGTGTATAGTT 58.634 37.037 5.67 0.00 38.55 2.24
4585 7410 9.760077 CGTTCCTTGATATAAGGTGTATAGTTT 57.240 33.333 5.67 0.00 38.55 2.66
4620 7445 8.696410 AAAACCAAAATATAAGGTGTATTGCG 57.304 30.769 0.00 0.00 35.42 4.85
4621 7446 7.399245 AACCAAAATATAAGGTGTATTGCGT 57.601 32.000 0.00 0.00 35.42 5.24
4622 7447 7.399245 ACCAAAATATAAGGTGTATTGCGTT 57.601 32.000 0.00 0.00 33.57 4.84
4623 7448 7.254852 ACCAAAATATAAGGTGTATTGCGTTG 58.745 34.615 0.00 0.00 33.57 4.10
4624 7449 6.198216 CCAAAATATAAGGTGTATTGCGTTGC 59.802 38.462 0.00 0.00 0.00 4.17
4625 7450 6.443934 AAATATAAGGTGTATTGCGTTGCA 57.556 33.333 0.00 0.00 36.47 4.08
4626 7451 3.757745 ATAAGGTGTATTGCGTTGCAC 57.242 42.857 0.00 0.00 38.71 4.57
4627 7452 4.859784 GGTGTATTGCGTTGCACC 57.140 55.556 9.58 9.58 43.52 5.01
4629 7454 3.086161 GTGTATTGCGTTGCACCAC 57.914 52.632 0.00 0.00 38.71 4.16
4630 7455 0.591170 GTGTATTGCGTTGCACCACT 59.409 50.000 0.00 0.00 38.71 4.00
4631 7456 0.871722 TGTATTGCGTTGCACCACTC 59.128 50.000 0.00 0.00 38.71 3.51
4632 7457 0.871722 GTATTGCGTTGCACCACTCA 59.128 50.000 0.00 0.00 38.71 3.41
4633 7458 1.468520 GTATTGCGTTGCACCACTCAT 59.531 47.619 0.00 0.00 38.71 2.90
4634 7459 0.961019 ATTGCGTTGCACCACTCATT 59.039 45.000 0.00 0.00 38.71 2.57
4635 7460 0.743688 TTGCGTTGCACCACTCATTT 59.256 45.000 0.00 0.00 38.71 2.32
4636 7461 0.030504 TGCGTTGCACCACTCATTTG 59.969 50.000 0.00 0.00 31.71 2.32
4637 7462 0.664166 GCGTTGCACCACTCATTTGG 60.664 55.000 0.00 0.00 43.04 3.28
4638 7463 0.950836 CGTTGCACCACTCATTTGGA 59.049 50.000 0.00 0.00 39.24 3.53
4639 7464 1.541147 CGTTGCACCACTCATTTGGAT 59.459 47.619 0.00 0.00 39.24 3.41
4640 7465 2.746904 CGTTGCACCACTCATTTGGATA 59.253 45.455 0.00 0.00 39.24 2.59
4641 7466 3.378112 CGTTGCACCACTCATTTGGATAT 59.622 43.478 0.00 0.00 39.24 1.63
4642 7467 4.142403 CGTTGCACCACTCATTTGGATATT 60.142 41.667 0.00 0.00 39.24 1.28
4643 7468 5.622007 CGTTGCACCACTCATTTGGATATTT 60.622 40.000 0.00 0.00 39.24 1.40
4644 7469 5.999205 TGCACCACTCATTTGGATATTTT 57.001 34.783 0.00 0.00 39.24 1.82
4645 7470 6.357579 TGCACCACTCATTTGGATATTTTT 57.642 33.333 0.00 0.00 39.24 1.94
4683 7508 9.617975 GATAACATTTCCTTATATCAAGCAAGC 57.382 33.333 0.00 0.00 0.00 4.01
4684 7509 7.651027 AACATTTCCTTATATCAAGCAAGCT 57.349 32.000 0.00 0.00 0.00 3.74
4685 7510 7.269477 ACATTTCCTTATATCAAGCAAGCTC 57.731 36.000 0.00 0.00 0.00 4.09
4686 7511 6.264067 ACATTTCCTTATATCAAGCAAGCTCC 59.736 38.462 0.00 0.00 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
393 395 0.391228 TGTCAGCTACTTTCGGTGCA 59.609 50.000 0.00 0.00 0.00 4.57
448 450 0.326264 CCAGTTGCTACCAGGAAGCT 59.674 55.000 0.00 0.00 40.73 3.74
652 655 1.068588 CAGATTCAAGCATGCATGGGG 59.931 52.381 27.34 3.29 0.00 4.96
676 679 4.827284 ACACAGTTCCCTAAACATTTGAGG 59.173 41.667 0.00 0.00 40.56 3.86
855 3140 2.159028 TGCCAATGCCATGATCATTGTG 60.159 45.455 25.28 20.33 45.57 3.33
857 3142 2.900716 TGCCAATGCCATGATCATTG 57.099 45.000 22.79 22.79 46.20 2.82
860 3145 2.232696 GCATATGCCAATGCCATGATCA 59.767 45.455 17.26 0.00 45.31 2.92
886 3171 1.563435 GGAGGATGATGATGCGTGCG 61.563 60.000 0.00 0.00 0.00 5.34
981 3268 3.069980 GCGTCTGAGAGGATGCGGT 62.070 63.158 6.31 0.00 38.27 5.68
1195 3491 2.226330 TGCAACAAACGCCTACTGATT 58.774 42.857 0.00 0.00 0.00 2.57
1196 3492 1.806542 CTGCAACAAACGCCTACTGAT 59.193 47.619 0.00 0.00 0.00 2.90
1259 3555 1.269998 AGCGTCGTTTCTTCTAGCAGT 59.730 47.619 0.00 0.00 0.00 4.40
1295 3591 0.741326 GAGGCTACAGCGATGAGTCA 59.259 55.000 8.12 0.00 43.26 3.41
1339 3635 5.112686 GTGAGGAACATATGAGACTTGACC 58.887 45.833 10.38 1.24 0.00 4.02
1391 3687 5.817816 AGCCCTAAATCTACAAAAGATGACG 59.182 40.000 0.00 0.00 44.56 4.35
1447 3743 5.967088 TCAGACATCTAACCTAGCAGTTTC 58.033 41.667 0.00 0.00 0.00 2.78
1454 3750 9.145865 GAAAGAAGTTTCAGACATCTAACCTAG 57.854 37.037 0.00 0.00 41.64 3.02
1578 3875 1.006805 CGCCTCGATGATCTCACCC 60.007 63.158 0.00 0.00 0.00 4.61
1593 3890 1.833787 TAGGTTCCACTTCCACCGCC 61.834 60.000 0.00 0.00 35.54 6.13
1660 3960 1.667830 CGGTGACCGTCACTGCAAT 60.668 57.895 26.73 0.00 45.52 3.56
1707 4007 1.275573 AGGCTGAAAGAAGTACCGGAC 59.724 52.381 9.46 1.42 34.07 4.79
1710 4010 1.079503 GCAGGCTGAAAGAAGTACCG 58.920 55.000 20.86 0.00 34.07 4.02
1714 4014 0.183492 TGTGGCAGGCTGAAAGAAGT 59.817 50.000 20.86 0.00 34.07 3.01
1761 4061 5.297547 TGAGAAAATGTATATCCGACAGCC 58.702 41.667 0.00 0.00 0.00 4.85
1762 4062 5.986135 ACTGAGAAAATGTATATCCGACAGC 59.014 40.000 0.00 0.00 0.00 4.40
1837 4137 4.152938 GCATCAAGGAAACAAAAAGATGGC 59.847 41.667 0.00 0.00 33.77 4.40
1978 4278 7.600752 TGTACGTAGTGTTCAATTCAATCATCA 59.399 33.333 0.00 0.00 45.73 3.07
1980 4280 7.899178 TGTACGTAGTGTTCAATTCAATCAT 57.101 32.000 0.00 0.00 45.73 2.45
2026 4341 2.703536 TGCTTGGAGGTTACAGAGTCAA 59.296 45.455 0.00 0.00 0.00 3.18
2161 4539 0.905357 CCAGAAGTAGACCCACCTGG 59.095 60.000 0.00 0.00 41.37 4.45
2323 4701 6.969366 TCAACAATGAAACCACTATGAAGTG 58.031 36.000 0.00 0.00 41.83 3.16
2355 4733 4.008330 ACCTGCATCATGAAGAAGTCAAG 58.992 43.478 0.00 0.00 40.50 3.02
2655 5033 6.418226 GTCTAACCTTGCTGTATATGTCTTCG 59.582 42.308 0.00 0.00 0.00 3.79
2702 5080 8.726988 TCTCACTATAATGCACAAAAGGTTTAC 58.273 33.333 0.00 0.00 0.00 2.01
2862 5240 1.161843 GCGCTGTTTACCCAAAGCTA 58.838 50.000 0.00 0.00 0.00 3.32
3064 5456 1.004979 CACTTATTTTGGGACGGGGGA 59.995 52.381 0.00 0.00 0.00 4.81
3065 5457 1.004979 TCACTTATTTTGGGACGGGGG 59.995 52.381 0.00 0.00 0.00 5.40
3066 5458 2.089201 GTCACTTATTTTGGGACGGGG 58.911 52.381 0.00 0.00 0.00 5.73
3067 5459 3.007635 GAGTCACTTATTTTGGGACGGG 58.992 50.000 0.00 0.00 33.84 5.28
3068 5460 3.670625 TGAGTCACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 33.84 4.79
3069 5461 4.755123 AGTTGAGTCACTTATTTTGGGACG 59.245 41.667 0.00 0.00 33.84 4.79
3070 5462 6.635030 AAGTTGAGTCACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
3071 5463 6.460953 GCAAAGTTGAGTCACTTATTTTGGGA 60.461 38.462 11.16 0.00 35.87 4.37
3072 5464 5.691754 GCAAAGTTGAGTCACTTATTTTGGG 59.308 40.000 11.16 0.00 35.87 4.12
3073 5465 6.198966 GTGCAAAGTTGAGTCACTTATTTTGG 59.801 38.462 11.16 0.00 35.87 3.28
3074 5466 6.974622 AGTGCAAAGTTGAGTCACTTATTTTG 59.025 34.615 0.00 0.00 35.87 2.44
3075 5467 7.100458 AGTGCAAAGTTGAGTCACTTATTTT 57.900 32.000 0.00 0.00 35.87 1.82
3076 5468 6.699575 AGTGCAAAGTTGAGTCACTTATTT 57.300 33.333 0.00 0.00 35.87 1.40
3077 5469 7.986085 ATAGTGCAAAGTTGAGTCACTTATT 57.014 32.000 7.72 0.00 35.87 1.40
3078 5470 7.094634 CCAATAGTGCAAAGTTGAGTCACTTAT 60.095 37.037 7.72 0.00 35.87 1.73
3079 5471 6.204688 CCAATAGTGCAAAGTTGAGTCACTTA 59.795 38.462 7.72 0.00 35.87 2.24
3080 5472 5.009010 CCAATAGTGCAAAGTTGAGTCACTT 59.991 40.000 7.72 0.00 38.74 3.16
3081 5473 4.516698 CCAATAGTGCAAAGTTGAGTCACT 59.483 41.667 0.00 7.60 40.60 3.41
3082 5474 4.787598 CCAATAGTGCAAAGTTGAGTCAC 58.212 43.478 0.00 0.00 0.00 3.67
3083 5475 3.253188 GCCAATAGTGCAAAGTTGAGTCA 59.747 43.478 7.54 0.00 0.00 3.41
3084 5476 3.253188 TGCCAATAGTGCAAAGTTGAGTC 59.747 43.478 7.54 0.00 35.40 3.36
3085 5477 3.221771 TGCCAATAGTGCAAAGTTGAGT 58.778 40.909 7.54 0.00 35.40 3.41
3086 5478 3.921119 TGCCAATAGTGCAAAGTTGAG 57.079 42.857 7.54 1.16 35.40 3.02
3093 5485 9.964303 CAATAATATTAGTTGCCAATAGTGCAA 57.036 29.630 1.02 0.00 45.83 4.08
3094 5486 8.575589 CCAATAATATTAGTTGCCAATAGTGCA 58.424 33.333 1.02 0.00 36.84 4.57
3095 5487 8.576442 ACCAATAATATTAGTTGCCAATAGTGC 58.424 33.333 1.02 0.00 0.00 4.40
3118 5510 9.743057 CAAAATAAGTGACTCAATTTTGTACCA 57.257 29.630 23.90 0.00 41.26 3.25
3119 5511 9.191995 CCAAAATAAGTGACTCAATTTTGTACC 57.808 33.333 26.81 0.00 43.14 3.34
3120 5512 9.191995 CCCAAAATAAGTGACTCAATTTTGTAC 57.808 33.333 26.81 0.00 43.14 2.90
3121 5513 9.137459 TCCCAAAATAAGTGACTCAATTTTGTA 57.863 29.630 26.81 18.89 43.14 2.41
3122 5514 7.926018 GTCCCAAAATAAGTGACTCAATTTTGT 59.074 33.333 26.81 7.84 43.14 2.83
3123 5515 7.114811 CGTCCCAAAATAAGTGACTCAATTTTG 59.885 37.037 24.60 24.60 43.77 2.44
3124 5516 7.145323 CGTCCCAAAATAAGTGACTCAATTTT 58.855 34.615 10.89 10.89 33.07 1.82
3125 5517 6.294508 CCGTCCCAAAATAAGTGACTCAATTT 60.295 38.462 0.00 0.00 0.00 1.82
3126 5518 5.183140 CCGTCCCAAAATAAGTGACTCAATT 59.817 40.000 0.00 0.00 0.00 2.32
3127 5519 4.700213 CCGTCCCAAAATAAGTGACTCAAT 59.300 41.667 0.00 0.00 0.00 2.57
3128 5520 4.069304 CCGTCCCAAAATAAGTGACTCAA 58.931 43.478 0.00 0.00 0.00 3.02
3129 5521 3.325425 TCCGTCCCAAAATAAGTGACTCA 59.675 43.478 0.00 0.00 0.00 3.41
3130 5522 3.933332 CTCCGTCCCAAAATAAGTGACTC 59.067 47.826 0.00 0.00 0.00 3.36
3131 5523 3.581332 TCTCCGTCCCAAAATAAGTGACT 59.419 43.478 0.00 0.00 0.00 3.41
3132 5524 3.933332 CTCTCCGTCCCAAAATAAGTGAC 59.067 47.826 0.00 0.00 0.00 3.67
3133 5525 3.835978 TCTCTCCGTCCCAAAATAAGTGA 59.164 43.478 0.00 0.00 0.00 3.41
3134 5526 4.184629 CTCTCTCCGTCCCAAAATAAGTG 58.815 47.826 0.00 0.00 0.00 3.16
3135 5527 3.838903 ACTCTCTCCGTCCCAAAATAAGT 59.161 43.478 0.00 0.00 0.00 2.24
3136 5528 4.473477 ACTCTCTCCGTCCCAAAATAAG 57.527 45.455 0.00 0.00 0.00 1.73
3137 5529 5.021458 AGTACTCTCTCCGTCCCAAAATAA 58.979 41.667 0.00 0.00 0.00 1.40
3138 5530 4.401519 CAGTACTCTCTCCGTCCCAAAATA 59.598 45.833 0.00 0.00 0.00 1.40
3139 5531 3.195825 CAGTACTCTCTCCGTCCCAAAAT 59.804 47.826 0.00 0.00 0.00 1.82
3140 5532 2.561419 CAGTACTCTCTCCGTCCCAAAA 59.439 50.000 0.00 0.00 0.00 2.44
3141 5533 2.168496 CAGTACTCTCTCCGTCCCAAA 58.832 52.381 0.00 0.00 0.00 3.28
3142 5534 1.616187 CCAGTACTCTCTCCGTCCCAA 60.616 57.143 0.00 0.00 0.00 4.12
3143 5535 0.034380 CCAGTACTCTCTCCGTCCCA 60.034 60.000 0.00 0.00 0.00 4.37
3144 5536 0.034283 ACCAGTACTCTCTCCGTCCC 60.034 60.000 0.00 0.00 0.00 4.46
3145 5537 1.339824 TGACCAGTACTCTCTCCGTCC 60.340 57.143 0.00 0.00 0.00 4.79
3146 5538 2.110901 TGACCAGTACTCTCTCCGTC 57.889 55.000 0.00 0.00 0.00 4.79
3147 5539 2.581216 TTGACCAGTACTCTCTCCGT 57.419 50.000 0.00 0.00 0.00 4.69
3148 5540 2.480416 GCATTGACCAGTACTCTCTCCG 60.480 54.545 0.00 0.00 0.00 4.63
3149 5541 2.763448 AGCATTGACCAGTACTCTCTCC 59.237 50.000 0.00 0.00 0.00 3.71
3150 5542 4.464069 AAGCATTGACCAGTACTCTCTC 57.536 45.455 0.00 0.00 0.00 3.20
3151 5543 4.040952 ACAAAGCATTGACCAGTACTCTCT 59.959 41.667 8.96 0.00 38.94 3.10
3152 5544 4.319177 ACAAAGCATTGACCAGTACTCTC 58.681 43.478 8.96 0.00 38.94 3.20
3153 5545 4.319177 GACAAAGCATTGACCAGTACTCT 58.681 43.478 8.96 0.00 38.94 3.24
3154 5546 3.123621 CGACAAAGCATTGACCAGTACTC 59.876 47.826 8.96 0.00 38.94 2.59
3155 5547 3.067106 CGACAAAGCATTGACCAGTACT 58.933 45.455 8.96 0.00 38.94 2.73
3156 5548 2.412847 GCGACAAAGCATTGACCAGTAC 60.413 50.000 8.96 0.00 38.94 2.73
3157 5549 1.804151 GCGACAAAGCATTGACCAGTA 59.196 47.619 8.96 0.00 38.94 2.74
3158 5550 0.593128 GCGACAAAGCATTGACCAGT 59.407 50.000 8.96 0.00 38.94 4.00
3159 5551 0.877071 AGCGACAAAGCATTGACCAG 59.123 50.000 8.96 0.00 38.94 4.00
3286 5678 6.152154 CGGTTCTGAAACTAAATAATGGGGTT 59.848 38.462 3.66 0.00 35.61 4.11
3299 5691 3.261981 ACAGACAACGGTTCTGAAACT 57.738 42.857 14.95 0.00 35.61 2.66
3377 5885 6.000246 TCCATTGATATGTGGCAAGTTCTA 58.000 37.500 0.00 0.00 35.43 2.10
3405 5913 4.446371 CCATGAGTAAGGATTGACAGGTC 58.554 47.826 0.00 0.00 0.00 3.85
3427 5935 3.904571 TGCAGTGAAACATCTTGAATGC 58.095 40.909 0.00 0.00 41.43 3.56
3527 6035 4.678743 GGGTGGTGTTGGGGGAGC 62.679 72.222 0.00 0.00 0.00 4.70
3551 6060 6.094742 GGATTGAGGAGAAGGAGAAATTGAAC 59.905 42.308 0.00 0.00 0.00 3.18
3555 6064 4.541714 TGGGATTGAGGAGAAGGAGAAATT 59.458 41.667 0.00 0.00 0.00 1.82
3570 6079 7.068702 AGCATAATTTGGATTAGTGGGATTGA 58.931 34.615 0.00 0.00 31.58 2.57
3571 6080 7.294017 AGCATAATTTGGATTAGTGGGATTG 57.706 36.000 0.00 0.00 31.58 2.67
3823 6332 7.441157 CCTACGCTGTGGAATAAATTAGAATCA 59.559 37.037 0.00 0.00 0.00 2.57
3933 6443 0.382873 GCCATCGAATGATTGCAGCA 59.617 50.000 0.00 0.00 41.61 4.41
4073 6585 5.816449 TGTTACGTCATCATTGCATTGAT 57.184 34.783 16.47 16.47 36.79 2.57
4131 6645 0.041926 ACGCGCGGTTTGAAAGTTAC 60.042 50.000 35.22 0.00 0.00 2.50
4148 6662 1.852942 AACCGATCATCATTCCGACG 58.147 50.000 0.00 0.00 0.00 5.12
4338 6854 4.738740 GCACACAACTATTAGTAGGCTACG 59.261 45.833 18.41 6.96 31.96 3.51
4552 7377 4.021016 CCTTATATCAAGGAACGGAGGGAG 60.021 50.000 0.00 0.00 39.81 4.30
4553 7378 3.901844 CCTTATATCAAGGAACGGAGGGA 59.098 47.826 0.00 0.00 39.81 4.20
4554 7379 3.646637 ACCTTATATCAAGGAACGGAGGG 59.353 47.826 9.96 0.00 39.81 4.30
4555 7380 4.101119 ACACCTTATATCAAGGAACGGAGG 59.899 45.833 9.96 0.00 39.81 4.30
4556 7381 5.277857 ACACCTTATATCAAGGAACGGAG 57.722 43.478 9.96 0.00 39.81 4.63
4557 7382 6.989155 ATACACCTTATATCAAGGAACGGA 57.011 37.500 9.96 0.00 39.81 4.69
4558 7383 7.893658 ACTATACACCTTATATCAAGGAACGG 58.106 38.462 9.96 0.05 39.81 4.44
4559 7384 9.760077 AAACTATACACCTTATATCAAGGAACG 57.240 33.333 9.96 1.22 39.81 3.95
4594 7419 9.145865 CGCAATACACCTTATATTTTGGTTTTT 57.854 29.630 0.00 0.00 30.72 1.94
4595 7420 8.308207 ACGCAATACACCTTATATTTTGGTTTT 58.692 29.630 0.00 0.00 30.72 2.43
4596 7421 7.832769 ACGCAATACACCTTATATTTTGGTTT 58.167 30.769 0.00 0.00 30.72 3.27
4597 7422 7.399245 ACGCAATACACCTTATATTTTGGTT 57.601 32.000 0.00 0.00 30.72 3.67
4598 7423 7.254852 CAACGCAATACACCTTATATTTTGGT 58.745 34.615 0.00 0.00 33.87 3.67
4599 7424 6.198216 GCAACGCAATACACCTTATATTTTGG 59.802 38.462 0.00 0.00 0.00 3.28
4600 7425 6.749578 TGCAACGCAATACACCTTATATTTTG 59.250 34.615 0.00 0.00 34.76 2.44
4601 7426 6.750039 GTGCAACGCAATACACCTTATATTTT 59.250 34.615 0.00 0.00 41.47 1.82
4602 7427 6.262601 GTGCAACGCAATACACCTTATATTT 58.737 36.000 0.00 0.00 41.47 1.40
4603 7428 5.816919 GTGCAACGCAATACACCTTATATT 58.183 37.500 0.00 0.00 41.47 1.28
4604 7429 5.418310 GTGCAACGCAATACACCTTATAT 57.582 39.130 0.00 0.00 41.47 0.86
4605 7430 4.868450 GTGCAACGCAATACACCTTATA 57.132 40.909 0.00 0.00 41.47 0.98
4606 7431 3.757745 GTGCAACGCAATACACCTTAT 57.242 42.857 0.00 0.00 41.47 1.73
4610 7435 4.859784 GGTGCAACGCAATACACC 57.140 55.556 0.00 0.00 45.22 4.16
4611 7436 0.591170 AGTGGTGCAACGCAATACAC 59.409 50.000 19.16 0.00 41.47 2.90
4612 7437 0.871722 GAGTGGTGCAACGCAATACA 59.128 50.000 19.16 0.00 41.47 2.29
4613 7438 0.871722 TGAGTGGTGCAACGCAATAC 59.128 50.000 19.16 6.48 41.47 1.89
4614 7439 1.819928 ATGAGTGGTGCAACGCAATA 58.180 45.000 19.16 3.19 41.47 1.90
4615 7440 0.961019 AATGAGTGGTGCAACGCAAT 59.039 45.000 19.16 7.90 41.47 3.56
4616 7441 0.743688 AAATGAGTGGTGCAACGCAA 59.256 45.000 19.16 5.54 41.47 4.85
4617 7442 0.030504 CAAATGAGTGGTGCAACGCA 59.969 50.000 19.16 7.82 38.12 5.24
4618 7443 0.664166 CCAAATGAGTGGTGCAACGC 60.664 55.000 7.36 7.36 38.12 4.84
4619 7444 0.950836 TCCAAATGAGTGGTGCAACG 59.049 50.000 0.00 0.00 39.88 4.10
4620 7445 4.989279 ATATCCAAATGAGTGGTGCAAC 57.011 40.909 0.00 0.00 39.88 4.17
4621 7446 5.999205 AAATATCCAAATGAGTGGTGCAA 57.001 34.783 0.00 0.00 39.88 4.08
4622 7447 5.999205 AAAATATCCAAATGAGTGGTGCA 57.001 34.783 0.00 0.00 39.88 4.57
4657 7482 9.617975 GCTTGCTTGATATAAGGAAATGTTATC 57.382 33.333 0.00 0.00 0.00 1.75
4658 7483 9.359653 AGCTTGCTTGATATAAGGAAATGTTAT 57.640 29.630 0.00 0.00 0.00 1.89
4659 7484 8.752005 AGCTTGCTTGATATAAGGAAATGTTA 57.248 30.769 0.00 0.00 0.00 2.41
4660 7485 7.201857 GGAGCTTGCTTGATATAAGGAAATGTT 60.202 37.037 0.00 0.00 0.00 2.71
4661 7486 6.264067 GGAGCTTGCTTGATATAAGGAAATGT 59.736 38.462 0.00 0.00 0.00 2.71
4662 7487 6.675987 GGAGCTTGCTTGATATAAGGAAATG 58.324 40.000 0.00 0.00 0.00 2.32
4663 7488 6.890979 GGAGCTTGCTTGATATAAGGAAAT 57.109 37.500 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.