Multiple sequence alignment - TraesCS5A01G204300

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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 TraesCS5A01G204300 chr5A 100.000 4362 0 0 1 4362 413426997 413431358 0.000000e+00 8056.0
1 TraesCS5A01G204300 chr5D 93.225 3764 155 40 1 3733 320876300 320872606 0.000000e+00 5446.0
2 TraesCS5A01G204300 chr5D 91.103 281 15 6 4077 4349 320872424 320872146 5.330000e-99 372.0
3 TraesCS5A01G204300 chr5D 90.863 197 18 0 3812 4008 320872619 320872423 9.300000e-67 265.0
4 TraesCS5A01G204300 chr5B 93.284 2978 139 21 757 3732 372083320 372080402 0.000000e+00 4335.0
5 TraesCS5A01G204300 chr5B 90.149 670 43 8 84 748 372084053 372083402 0.000000e+00 850.0
6 TraesCS5A01G204300 chr5B 86.406 537 54 10 3842 4362 372080376 372079843 1.760000e-158 569.0
7 TraesCS5A01G204300 chr7A 81.068 412 67 6 2416 2820 471551458 471551865 7.040000e-83 318.0
8 TraesCS5A01G204300 chr7D 80.676 414 65 10 2416 2820 410522548 410522141 1.520000e-79 307.0
9 TraesCS5A01G204300 chr7D 91.139 79 7 0 3733 3811 383995458 383995380 1.660000e-19 108.0
10 TraesCS5A01G204300 chr7B 78.208 413 74 8 2416 2820 425158910 425159314 2.600000e-62 250.0
11 TraesCS5A01G204300 chr7B 83.810 105 17 0 2641 2745 61627835 61627731 2.780000e-17 100.0
12 TraesCS5A01G204300 chr7B 82.857 105 18 0 2641 2745 61746182 61746078 1.290000e-15 95.3
13 TraesCS5A01G204300 chr2A 98.765 81 1 0 3731 3811 743087235 743087315 1.260000e-30 145.0
14 TraesCS5A01G204300 chr2A 97.500 80 2 0 3731 3810 662741487 662741566 2.120000e-28 137.0
15 TraesCS5A01G204300 chr2A 96.250 80 3 0 3731 3810 17223795 17223716 9.840000e-27 132.0
16 TraesCS5A01G204300 chr3D 95.062 81 4 0 3731 3811 108434907 108434827 1.270000e-25 128.0
17 TraesCS5A01G204300 chr6D 93.902 82 5 0 3731 3812 445795534 445795453 1.650000e-24 124.0
18 TraesCS5A01G204300 chr1A 91.358 81 7 0 3731 3811 180407153 180407233 1.280000e-20 111.0
19 TraesCS5A01G204300 chr2D 82.524 103 14 3 2639 2739 100432471 100432571 2.160000e-13 87.9
20 TraesCS5A01G204300 chr2B 82.524 103 14 3 2639 2739 152504546 152504646 2.160000e-13 87.9


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 TraesCS5A01G204300 chr5A 413426997 413431358 4361 False 8056.000000 8056 100.000000 1 4362 1 chr5A.!!$F1 4361
1 TraesCS5A01G204300 chr5D 320872146 320876300 4154 True 2027.666667 5446 91.730333 1 4349 3 chr5D.!!$R1 4348
2 TraesCS5A01G204300 chr5B 372079843 372084053 4210 True 1918.000000 4335 89.946333 84 4362 3 chr5B.!!$R1 4278

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
161 162 0.168788 AGTACGTAAGCTGCGCGTAA 59.831 50.0 21.25 0.0 41.71 3.18 F
1311 1421 0.106217 ATTTAAGATGGCCCCCACCG 60.106 55.0 0.00 0.0 35.80 4.94 F
1857 1981 0.240411 AGTTCGACACCAGCTACGAC 59.760 55.0 0.00 0.0 34.59 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1597 1712 0.666274 TGCGTACCTTGAGCTTGTCG 60.666 55.0 0.00 0.0 0.0 4.35 R
2634 2758 0.246360 TTGCACTCGTCGATCACCAT 59.754 50.0 0.00 0.0 0.0 3.55 R
3755 3883 0.768622 ACTCAAACCCCGGAATGTCA 59.231 50.0 0.73 0.0 0.0 3.58 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 2.592861 CCTCTAATGCCGCTGCCC 60.593 66.667 0.00 0.00 36.33 5.36
59 60 7.040823 AGCCTTATAATTAGCAGAACAGCATTC 60.041 37.037 5.42 0.00 36.85 2.67
141 142 2.598565 TGCTGTCTCTTCTGTGGTACT 58.401 47.619 0.00 0.00 0.00 2.73
142 143 3.763057 TGCTGTCTCTTCTGTGGTACTA 58.237 45.455 0.00 0.00 0.00 1.82
143 144 3.759086 TGCTGTCTCTTCTGTGGTACTAG 59.241 47.826 0.00 0.00 0.00 2.57
144 145 3.759618 GCTGTCTCTTCTGTGGTACTAGT 59.240 47.826 0.00 0.00 0.00 2.57
145 146 4.942483 GCTGTCTCTTCTGTGGTACTAGTA 59.058 45.833 0.00 0.00 0.00 1.82
146 147 5.163733 GCTGTCTCTTCTGTGGTACTAGTAC 60.164 48.000 22.53 22.53 35.40 2.73
154 155 4.633126 TCTGTGGTACTAGTACGTAAGCTG 59.367 45.833 23.40 15.07 45.62 4.24
155 156 3.127548 TGTGGTACTAGTACGTAAGCTGC 59.872 47.826 23.40 10.03 45.62 5.25
161 162 0.168788 AGTACGTAAGCTGCGCGTAA 59.831 50.000 21.25 0.00 41.71 3.18
165 166 0.711670 CGTAAGCTGCGCGTAAGAAA 59.288 50.000 8.43 0.00 43.02 2.52
172 173 1.732259 CTGCGCGTAAGAAAGGAACAT 59.268 47.619 8.43 0.00 43.02 2.71
173 174 2.147958 TGCGCGTAAGAAAGGAACATT 58.852 42.857 8.43 0.00 43.02 2.71
203 207 9.141400 TGCGTAAATTGGGTAAAAATTATTGTC 57.859 29.630 0.00 0.00 0.00 3.18
231 235 0.458025 GTCTAGTTCCTTGGCGTCCG 60.458 60.000 0.00 0.00 0.00 4.79
253 257 1.460305 AGCCCACCTGTCAGTCAGT 60.460 57.895 0.00 0.00 42.19 3.41
279 307 9.481340 TGATTGCAGATGTTCTTCTGTATATAC 57.519 33.333 5.89 5.89 44.10 1.47
309 337 6.774170 TGTACGTATGTGTATATTGGGACTCT 59.226 38.462 0.00 0.00 0.00 3.24
314 342 5.864418 TGTGTATATTGGGACTCTGGTAC 57.136 43.478 0.00 0.00 0.00 3.34
324 354 3.057456 GGGACTCTGGTACGTATATGCAG 60.057 52.174 0.00 0.00 0.00 4.41
358 388 2.618709 GGATTTGGTAGGATCTTTGCGG 59.381 50.000 0.00 0.00 0.00 5.69
368 398 1.865970 GATCTTTGCGGCTGATCTCTG 59.134 52.381 17.30 0.00 35.16 3.35
388 418 4.402474 TCTGCCGATCTTGAAATAGACTCA 59.598 41.667 0.00 0.00 0.00 3.41
395 425 4.774124 TCTTGAAATAGACTCAGGCCATG 58.226 43.478 5.01 0.00 0.00 3.66
565 600 9.511272 TTCTAAATAAACAAGAGTAAACCCTCC 57.489 33.333 0.00 0.00 31.53 4.30
570 605 1.559965 AAGAGTAAACCCTCCCGGCC 61.560 60.000 0.00 0.00 33.26 6.13
573 608 3.012722 TAAACCCTCCCGGCCCAG 61.013 66.667 0.00 0.00 33.26 4.45
679 714 1.893137 ACGGTAATGCACTGTCTCTCA 59.107 47.619 0.00 0.00 43.65 3.27
689 724 3.779759 CACTGTCTCTCACCTTATCAGC 58.220 50.000 0.00 0.00 0.00 4.26
724 759 3.062369 CGTGCCCGTTTATGATACGAAAA 59.938 43.478 0.00 0.00 41.33 2.29
825 934 8.258850 TCTTAATGGAGTAGTAGGGTATTTGG 57.741 38.462 0.00 0.00 0.00 3.28
829 938 5.544682 TGGAGTAGTAGGGTATTTGGGAAT 58.455 41.667 0.00 0.00 0.00 3.01
852 961 9.646336 GAATTTTATTACTACGTGCCAGTAATG 57.354 33.333 23.37 0.00 44.80 1.90
853 962 7.542534 TTTTATTACTACGTGCCAGTAATGG 57.457 36.000 23.37 4.42 44.80 3.16
892 1001 1.638529 ATATAGCCCAGAGAAGCGCT 58.361 50.000 2.64 2.64 35.34 5.92
925 1034 4.227134 GCAGGCGGCAGCTAGCTA 62.227 66.667 18.86 0.00 44.79 3.32
926 1035 2.028778 CAGGCGGCAGCTAGCTAG 59.971 66.667 18.86 16.84 44.79 3.42
938 1047 1.682323 GCTAGCTAGGAGTAACGCCTT 59.318 52.381 22.10 0.00 34.91 4.35
939 1048 2.287728 GCTAGCTAGGAGTAACGCCTTC 60.288 54.545 22.10 0.00 34.91 3.46
940 1049 0.739561 AGCTAGGAGTAACGCCTTCG 59.260 55.000 0.00 0.00 34.91 3.79
941 1050 0.870735 GCTAGGAGTAACGCCTTCGC 60.871 60.000 0.00 0.00 39.84 4.70
942 1051 0.739561 CTAGGAGTAACGCCTTCGCT 59.260 55.000 0.00 0.00 39.84 4.93
951 1060 1.021390 ACGCCTTCGCTCCAATTCTG 61.021 55.000 0.00 0.00 39.84 3.02
974 1083 5.115480 GGCTATCTCAGTTTCTCTCTTTGG 58.885 45.833 0.00 0.00 0.00 3.28
983 1092 6.724441 TCAGTTTCTCTCTTTGGTACATCCTA 59.276 38.462 0.00 0.00 39.30 2.94
984 1093 7.400339 TCAGTTTCTCTCTTTGGTACATCCTAT 59.600 37.037 0.00 0.00 39.30 2.57
985 1094 8.696374 CAGTTTCTCTCTTTGGTACATCCTATA 58.304 37.037 0.00 0.00 39.30 1.31
986 1095 8.697292 AGTTTCTCTCTTTGGTACATCCTATAC 58.303 37.037 0.00 0.00 39.30 1.47
1119 1228 2.103263 GCCAATGAGGATCCGTAGAACT 59.897 50.000 5.98 0.00 41.22 3.01
1268 1377 1.775039 CTCATGCCCCATTACGTGCG 61.775 60.000 0.00 0.00 0.00 5.34
1300 1409 6.480320 GCAGACATACGGTGAGAATTTAAGAT 59.520 38.462 0.00 0.00 0.00 2.40
1301 1410 7.517417 GCAGACATACGGTGAGAATTTAAGATG 60.517 40.741 0.00 0.00 0.00 2.90
1307 1417 2.959030 GTGAGAATTTAAGATGGCCCCC 59.041 50.000 0.00 0.00 0.00 5.40
1308 1418 2.584965 TGAGAATTTAAGATGGCCCCCA 59.415 45.455 0.00 0.00 38.19 4.96
1310 1420 2.039418 GAATTTAAGATGGCCCCCACC 58.961 52.381 0.00 0.00 35.80 4.61
1311 1421 0.106217 ATTTAAGATGGCCCCCACCG 60.106 55.000 0.00 0.00 35.80 4.94
1312 1422 2.847366 TTTAAGATGGCCCCCACCGC 62.847 60.000 0.00 0.00 35.80 5.68
1368 1483 0.314302 CGTACTGACCGATGGGGATC 59.686 60.000 0.00 0.00 39.97 3.36
1439 1554 3.681835 GCCTGACGGACACGGACT 61.682 66.667 0.00 0.00 46.48 3.85
1622 1739 1.709760 CTCAAGGTACGCATGCACG 59.290 57.895 19.57 4.59 39.50 5.34
1623 1740 1.695893 CTCAAGGTACGCATGCACGG 61.696 60.000 19.57 3.77 37.37 4.94
1731 1855 3.672293 CACATGGTGGAGTGCACC 58.328 61.111 25.82 25.82 42.80 5.01
1857 1981 0.240411 AGTTCGACACCAGCTACGAC 59.760 55.000 0.00 0.00 34.59 4.34
2078 2202 2.249557 CTTGCAGCCACATCTCGCAC 62.250 60.000 0.00 0.00 31.10 5.34
2148 2272 1.353103 CAAGCCGATTAAGCCGCTG 59.647 57.895 7.32 0.00 0.00 5.18
2149 2273 1.078426 AAGCCGATTAAGCCGCTGT 60.078 52.632 7.32 0.00 0.00 4.40
2178 2302 9.032420 GCACAGTAATTGGTCTTAGATAACTAC 57.968 37.037 0.00 0.00 0.00 2.73
2212 2336 4.864334 GCAGCCCATCCCTGTCCG 62.864 72.222 0.00 0.00 32.93 4.79
2259 2383 1.082104 CAACTTGTCCGGCGCTTTC 60.082 57.895 7.64 0.00 0.00 2.62
2261 2385 2.736995 CTTGTCCGGCGCTTTCGA 60.737 61.111 7.64 0.00 38.10 3.71
2340 2464 3.720920 CGCACATACGAGTAAACAAGTGC 60.721 47.826 0.00 0.00 45.40 4.40
2344 2468 0.859232 ACGAGTAAACAAGTGCGCAG 59.141 50.000 12.22 0.60 0.00 5.18
2384 2508 1.153449 GTGTTCGGCCGATCATGGA 60.153 57.895 34.51 16.10 0.00 3.41
2597 2721 1.484653 GAGAAGAAGAGGGAGAAGGGC 59.515 57.143 0.00 0.00 0.00 5.19
2634 2758 2.619165 TTCAGCTACGACACGCGGA 61.619 57.895 12.47 0.00 46.49 5.54
2810 2934 0.390472 CCGACCAGCTCTCCAAACTC 60.390 60.000 0.00 0.00 0.00 3.01
2835 2959 3.693085 CGTGGTATGTCCTACAGTACTGT 59.307 47.826 30.13 30.13 46.87 3.55
2836 2960 4.438336 CGTGGTATGTCCTACAGTACTGTG 60.438 50.000 33.77 23.28 44.63 3.66
2846 2970 1.949133 AGTACTGTGTGCACGTGCG 60.949 57.895 33.22 21.58 45.83 5.34
2868 2992 4.802039 CGTACGTAAGCAATGTCTTATGGT 59.198 41.667 7.22 11.70 38.97 3.55
2900 3024 2.930040 TCGGCTCTTAGCGAAAATCTTG 59.070 45.455 0.00 0.00 43.62 3.02
2956 3080 2.865670 GCAGATGATCATCCACGAGACC 60.866 54.545 28.23 4.76 38.58 3.85
2968 3092 2.786495 CGAGACCCTGCGGCTGTAT 61.786 63.158 0.00 0.00 0.00 2.29
3541 3665 3.512033 GTGGAGTTCCTGCACTAGTAG 57.488 52.381 8.42 0.00 46.69 2.57
3542 3666 2.826725 GTGGAGTTCCTGCACTAGTAGT 59.173 50.000 8.42 0.00 46.69 2.73
3651 3779 9.979578 AAAAACAAAGAAGATACATGTGCATAA 57.020 25.926 9.11 0.00 0.00 1.90
3705 3833 0.830444 TAACGACCACCAGGCAGACT 60.830 55.000 0.00 0.00 39.06 3.24
3723 3851 4.582240 CAGACTGTAGAGACCATGCAGATA 59.418 45.833 0.00 0.00 0.00 1.98
3724 3852 4.582656 AGACTGTAGAGACCATGCAGATAC 59.417 45.833 0.00 0.00 0.00 2.24
3725 3853 3.639094 ACTGTAGAGACCATGCAGATACC 59.361 47.826 0.00 0.00 0.00 2.73
3726 3854 2.965831 TGTAGAGACCATGCAGATACCC 59.034 50.000 0.00 0.00 0.00 3.69
3727 3855 2.485966 AGAGACCATGCAGATACCCT 57.514 50.000 0.00 0.00 0.00 4.34
3728 3856 2.045524 AGAGACCATGCAGATACCCTG 58.954 52.381 0.00 0.00 45.67 4.45
3729 3857 2.042464 GAGACCATGCAGATACCCTGA 58.958 52.381 0.00 0.00 45.78 3.86
3730 3858 2.435805 GAGACCATGCAGATACCCTGAA 59.564 50.000 0.00 0.00 45.78 3.02
3731 3859 2.171448 AGACCATGCAGATACCCTGAAC 59.829 50.000 0.00 0.00 45.78 3.18
3732 3860 2.171448 GACCATGCAGATACCCTGAACT 59.829 50.000 0.00 0.00 45.78 3.01
3733 3861 2.578021 ACCATGCAGATACCCTGAACTT 59.422 45.455 0.00 0.00 45.78 2.66
3734 3862 3.010584 ACCATGCAGATACCCTGAACTTT 59.989 43.478 0.00 0.00 45.78 2.66
3735 3863 3.379372 CCATGCAGATACCCTGAACTTTG 59.621 47.826 0.00 0.00 45.78 2.77
3736 3864 3.788227 TGCAGATACCCTGAACTTTGT 57.212 42.857 0.00 0.00 45.78 2.83
3737 3865 4.098914 TGCAGATACCCTGAACTTTGTT 57.901 40.909 0.00 0.00 45.78 2.83
3738 3866 5.235850 TGCAGATACCCTGAACTTTGTTA 57.764 39.130 0.00 0.00 45.78 2.41
3739 3867 5.815581 TGCAGATACCCTGAACTTTGTTAT 58.184 37.500 0.00 0.00 45.78 1.89
3740 3868 6.245408 TGCAGATACCCTGAACTTTGTTATT 58.755 36.000 0.00 0.00 45.78 1.40
3741 3869 6.719370 TGCAGATACCCTGAACTTTGTTATTT 59.281 34.615 0.00 0.00 45.78 1.40
3742 3870 7.094377 TGCAGATACCCTGAACTTTGTTATTTC 60.094 37.037 0.00 0.00 45.78 2.17
3743 3871 7.121315 GCAGATACCCTGAACTTTGTTATTTCT 59.879 37.037 0.00 0.00 45.78 2.52
3744 3872 8.454106 CAGATACCCTGAACTTTGTTATTTCTG 58.546 37.037 0.00 0.00 45.78 3.02
3745 3873 8.164070 AGATACCCTGAACTTTGTTATTTCTGT 58.836 33.333 0.00 0.00 0.00 3.41
3746 3874 9.444600 GATACCCTGAACTTTGTTATTTCTGTA 57.555 33.333 0.00 0.00 0.00 2.74
3747 3875 9.802039 ATACCCTGAACTTTGTTATTTCTGTAA 57.198 29.630 0.00 0.00 0.00 2.41
3748 3876 8.706322 ACCCTGAACTTTGTTATTTCTGTAAT 57.294 30.769 0.00 0.00 0.00 1.89
3749 3877 8.793592 ACCCTGAACTTTGTTATTTCTGTAATC 58.206 33.333 0.00 0.00 0.00 1.75
3750 3878 7.962918 CCCTGAACTTTGTTATTTCTGTAATCG 59.037 37.037 0.00 0.00 0.00 3.34
3751 3879 7.481798 CCTGAACTTTGTTATTTCTGTAATCGC 59.518 37.037 0.00 0.00 0.00 4.58
3752 3880 7.012943 TGAACTTTGTTATTTCTGTAATCGCG 58.987 34.615 0.00 0.00 0.00 5.87
3753 3881 5.864986 ACTTTGTTATTTCTGTAATCGCGG 58.135 37.500 6.13 0.00 0.00 6.46
3754 3882 5.640357 ACTTTGTTATTTCTGTAATCGCGGA 59.360 36.000 6.13 0.00 0.00 5.54
3755 3883 6.315393 ACTTTGTTATTTCTGTAATCGCGGAT 59.685 34.615 6.13 0.00 0.00 4.18
3756 3884 5.651172 TGTTATTTCTGTAATCGCGGATG 57.349 39.130 6.13 0.00 0.00 3.51
3757 3885 5.353111 TGTTATTTCTGTAATCGCGGATGA 58.647 37.500 6.13 0.00 0.00 2.92
3758 3886 5.233476 TGTTATTTCTGTAATCGCGGATGAC 59.767 40.000 6.13 2.59 0.00 3.06
3759 3887 2.951457 TTCTGTAATCGCGGATGACA 57.049 45.000 6.13 7.38 32.94 3.58
3760 3888 3.452755 TTCTGTAATCGCGGATGACAT 57.547 42.857 6.13 0.00 33.45 3.06
3761 3889 3.452755 TCTGTAATCGCGGATGACATT 57.547 42.857 6.13 0.00 33.45 2.71
3762 3890 3.381045 TCTGTAATCGCGGATGACATTC 58.619 45.455 6.13 0.00 33.45 2.67
3763 3891 2.476619 CTGTAATCGCGGATGACATTCC 59.523 50.000 6.13 0.00 33.45 3.01
3770 3898 3.588742 GGATGACATTCCGGGGTTT 57.411 52.632 0.00 0.00 0.00 3.27
3771 3899 1.102978 GGATGACATTCCGGGGTTTG 58.897 55.000 0.00 0.00 0.00 2.93
3772 3900 1.340600 GGATGACATTCCGGGGTTTGA 60.341 52.381 0.00 0.00 0.00 2.69
3773 3901 2.017049 GATGACATTCCGGGGTTTGAG 58.983 52.381 0.00 0.00 0.00 3.02
3774 3902 0.768622 TGACATTCCGGGGTTTGAGT 59.231 50.000 0.00 0.00 0.00 3.41
3775 3903 1.144093 TGACATTCCGGGGTTTGAGTT 59.856 47.619 0.00 0.00 0.00 3.01
3776 3904 2.235891 GACATTCCGGGGTTTGAGTTT 58.764 47.619 0.00 0.00 0.00 2.66
3777 3905 2.626266 GACATTCCGGGGTTTGAGTTTT 59.374 45.455 0.00 0.00 0.00 2.43
3778 3906 3.822167 GACATTCCGGGGTTTGAGTTTTA 59.178 43.478 0.00 0.00 0.00 1.52
3779 3907 4.216708 ACATTCCGGGGTTTGAGTTTTAA 58.783 39.130 0.00 0.00 0.00 1.52
3780 3908 4.650131 ACATTCCGGGGTTTGAGTTTTAAA 59.350 37.500 0.00 0.00 0.00 1.52
3781 3909 5.305902 ACATTCCGGGGTTTGAGTTTTAAAT 59.694 36.000 0.00 0.00 0.00 1.40
3782 3910 6.494146 ACATTCCGGGGTTTGAGTTTTAAATA 59.506 34.615 0.00 0.00 0.00 1.40
3783 3911 6.973460 TTCCGGGGTTTGAGTTTTAAATAA 57.027 33.333 0.00 0.00 0.00 1.40
3784 3912 6.973460 TCCGGGGTTTGAGTTTTAAATAAA 57.027 33.333 0.00 0.00 0.00 1.40
3785 3913 7.541916 TCCGGGGTTTGAGTTTTAAATAAAT 57.458 32.000 0.00 0.00 0.00 1.40
3786 3914 7.379750 TCCGGGGTTTGAGTTTTAAATAAATG 58.620 34.615 0.00 0.00 0.00 2.32
3787 3915 6.091577 CCGGGGTTTGAGTTTTAAATAAATGC 59.908 38.462 0.00 0.00 0.00 3.56
3788 3916 6.183360 CGGGGTTTGAGTTTTAAATAAATGCG 60.183 38.462 0.00 0.00 0.00 4.73
3789 3917 6.091577 GGGGTTTGAGTTTTAAATAAATGCGG 59.908 38.462 0.00 0.00 0.00 5.69
3790 3918 6.401688 GGGTTTGAGTTTTAAATAAATGCGGC 60.402 38.462 0.00 0.00 0.00 6.53
3791 3919 6.146347 GGTTTGAGTTTTAAATAAATGCGGCA 59.854 34.615 4.58 4.58 0.00 5.69
3792 3920 7.307455 GGTTTGAGTTTTAAATAAATGCGGCAA 60.307 33.333 6.82 0.00 0.00 4.52
3793 3921 7.897575 TTGAGTTTTAAATAAATGCGGCAAT 57.102 28.000 6.82 0.00 0.00 3.56
3794 3922 8.988064 TTGAGTTTTAAATAAATGCGGCAATA 57.012 26.923 6.82 3.88 0.00 1.90
3795 3923 9.593134 TTGAGTTTTAAATAAATGCGGCAATAT 57.407 25.926 6.82 6.30 0.00 1.28
3796 3924 9.593134 TGAGTTTTAAATAAATGCGGCAATATT 57.407 25.926 6.82 12.14 0.00 1.28
3801 3929 8.819643 TTAAATAAATGCGGCAATATTTACCC 57.180 30.769 26.76 0.00 32.72 3.69
3802 3930 6.664428 AATAAATGCGGCAATATTTACCCT 57.336 33.333 6.82 0.00 33.15 4.34
3803 3931 7.768807 AATAAATGCGGCAATATTTACCCTA 57.231 32.000 6.82 0.00 33.15 3.53
3804 3932 7.768807 ATAAATGCGGCAATATTTACCCTAA 57.231 32.000 6.82 0.00 33.15 2.69
3805 3933 6.472686 AAATGCGGCAATATTTACCCTAAA 57.527 33.333 6.82 0.00 0.00 1.85
3806 3934 6.472686 AATGCGGCAATATTTACCCTAAAA 57.527 33.333 6.82 0.00 0.00 1.52
3807 3935 5.916661 TGCGGCAATATTTACCCTAAAAA 57.083 34.783 0.00 0.00 0.00 1.94
3838 3966 2.624838 CCTGAACTGCCACAACTCAATT 59.375 45.455 0.00 0.00 0.00 2.32
3863 3999 2.125147 CTTCCTCCGCCGATGCAA 60.125 61.111 0.00 0.00 37.32 4.08
3941 4084 0.949105 CCGGCTTCGCTAGTGTTGTT 60.949 55.000 2.66 0.00 0.00 2.83
3946 4089 2.287009 GCTTCGCTAGTGTTGTTGCTTT 60.287 45.455 2.66 0.00 0.00 3.51
3953 4096 0.457681 GTGTTGTTGCTTTGCGGTGT 60.458 50.000 0.00 0.00 0.00 4.16
3961 4104 1.237285 GCTTTGCGGTGTGTCTCCAT 61.237 55.000 0.00 0.00 0.00 3.41
3966 4109 0.602638 GCGGTGTGTCTCCATGTCAA 60.603 55.000 0.00 0.00 0.00 3.18
3978 4121 2.567169 TCCATGTCAAGTCATCGACCTT 59.433 45.455 0.00 0.00 32.18 3.50
3981 4124 1.079503 GTCAAGTCATCGACCTTGGC 58.920 55.000 16.72 13.25 32.18 4.52
3997 4140 0.976641 TGGCAATGACTCCTTCTCGT 59.023 50.000 0.00 0.00 0.00 4.18
4000 4143 1.914634 CAATGACTCCTTCTCGTCGG 58.085 55.000 0.00 0.00 32.93 4.79
4017 4160 1.851021 CGGCATCGTGTCTTGGCAAA 61.851 55.000 0.00 0.00 38.24 3.68
4018 4161 0.527565 GGCATCGTGTCTTGGCAAAT 59.472 50.000 0.00 0.00 38.23 2.32
4021 4164 2.855180 CATCGTGTCTTGGCAAATGAC 58.145 47.619 11.50 11.50 0.00 3.06
4048 4191 2.301505 GATGGCATCGTGTCTTCCG 58.698 57.895 12.40 0.00 0.00 4.30
4055 4198 0.895530 ATCGTGTCTTCCGATGGTGT 59.104 50.000 0.00 0.00 42.98 4.16
4093 4236 1.281867 GATTGACCATGGGTGAGACCA 59.718 52.381 18.09 0.00 46.24 4.02
4148 4291 2.351276 GTGTGGGCGGTGGATCTT 59.649 61.111 0.00 0.00 0.00 2.40
4194 4337 1.472480 GGGTGTGGTTGAAATCGATGG 59.528 52.381 0.00 0.00 0.00 3.51
4197 4340 3.945285 GGTGTGGTTGAAATCGATGGTAT 59.055 43.478 0.00 0.00 0.00 2.73
4206 4349 0.756294 ATCGATGGTATGCGGTCCAA 59.244 50.000 0.00 0.00 37.27 3.53
4256 4407 1.265568 GCATCATGCTTTTGTCGCTG 58.734 50.000 1.02 0.00 40.96 5.18
4301 4452 2.946329 AGCTCATTCTACATCGAGACGT 59.054 45.455 0.00 0.00 0.00 4.34
4302 4453 3.378742 AGCTCATTCTACATCGAGACGTT 59.621 43.478 0.00 0.00 0.00 3.99
4304 4455 4.283678 CTCATTCTACATCGAGACGTTCC 58.716 47.826 0.00 0.00 0.00 3.62
4324 4475 2.695666 CCCGTGATACTCAGACCTTCAT 59.304 50.000 0.00 0.00 0.00 2.57
4349 4500 4.826733 TGCAACAAGGTTAGATGACAACAT 59.173 37.500 0.00 0.00 39.67 2.71
4350 4501 7.057104 GTGCAACAAGGTTAGATGACAACATC 61.057 42.308 0.00 0.00 44.22 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 3.282920 GGCAGCGGCATTAGAGGC 61.283 66.667 11.88 0.00 43.71 4.70
18 19 3.140141 GCTTGGGCAGCGGCATTA 61.140 61.111 11.88 0.00 43.71 1.90
31 32 6.038603 TGCTGTTCTGCTAATTATAAGGCTTG 59.961 38.462 10.69 0.00 0.00 4.01
59 60 4.643795 ATCACAAGGATGGCACCG 57.356 55.556 0.00 0.00 34.06 4.94
154 155 2.894307 AATGTTCCTTTCTTACGCGC 57.106 45.000 5.73 0.00 0.00 6.86
188 192 6.036408 ACGACCGCTAGACAATAATTTTTACC 59.964 38.462 0.00 0.00 0.00 2.85
203 207 1.666054 AGGAACTAGACGACCGCTAG 58.334 55.000 14.56 14.56 40.84 3.42
231 235 0.603975 GACTGACAGGTGGGCTCAAC 60.604 60.000 7.51 0.00 0.00 3.18
279 307 8.517056 TCCCAATATACACATACGTACATACTG 58.483 37.037 0.00 0.00 0.00 2.74
281 309 8.517878 AGTCCCAATATACACATACGTACATAC 58.482 37.037 0.00 0.00 0.00 2.39
282 310 8.640063 AGTCCCAATATACACATACGTACATA 57.360 34.615 0.00 0.00 0.00 2.29
283 311 7.450634 AGAGTCCCAATATACACATACGTACAT 59.549 37.037 0.00 0.00 0.00 2.29
284 312 6.774170 AGAGTCCCAATATACACATACGTACA 59.226 38.462 0.00 0.00 0.00 2.90
285 313 7.082602 CAGAGTCCCAATATACACATACGTAC 58.917 42.308 0.00 0.00 0.00 3.67
286 314 6.208007 CCAGAGTCCCAATATACACATACGTA 59.792 42.308 0.00 0.00 0.00 3.57
287 315 5.010719 CCAGAGTCCCAATATACACATACGT 59.989 44.000 0.00 0.00 0.00 3.57
288 316 5.010719 ACCAGAGTCCCAATATACACATACG 59.989 44.000 0.00 0.00 0.00 3.06
289 317 6.420913 ACCAGAGTCCCAATATACACATAC 57.579 41.667 0.00 0.00 0.00 2.39
309 337 3.874543 CCAAAAGCTGCATATACGTACCA 59.125 43.478 1.02 0.00 0.00 3.25
314 342 3.631145 ATGCCAAAAGCTGCATATACG 57.369 42.857 7.43 0.00 45.89 3.06
324 354 4.141233 ACCAAATCCATATGCCAAAAGC 57.859 40.909 0.00 0.00 44.14 3.51
338 368 2.033424 GCCGCAAAGATCCTACCAAATC 59.967 50.000 0.00 0.00 0.00 2.17
368 398 4.054671 CCTGAGTCTATTTCAAGATCGGC 58.945 47.826 0.00 0.00 0.00 5.54
395 425 5.106673 GCTGCTAATAATATTCGTCCAACCC 60.107 44.000 0.00 0.00 0.00 4.11
431 466 6.279813 AGATTTTGGGATATAAAGGAGGCA 57.720 37.500 0.00 0.00 0.00 4.75
565 600 2.916527 ATTGGATTGCTCTGGGCCGG 62.917 60.000 5.83 5.83 40.92 6.13
570 605 0.107017 ACGGGATTGGATTGCTCTGG 60.107 55.000 0.00 0.00 0.00 3.86
573 608 2.910688 TCTACGGGATTGGATTGCTC 57.089 50.000 0.00 0.00 0.00 4.26
652 687 1.870402 CAGTGCATTACCGTGTGACAA 59.130 47.619 0.00 0.00 0.00 3.18
654 689 1.459592 GACAGTGCATTACCGTGTGAC 59.540 52.381 0.00 0.00 0.00 3.67
679 714 5.242795 ACTTGTTTACTGGCTGATAAGGT 57.757 39.130 0.00 0.00 0.00 3.50
689 724 0.872388 GGGCACGACTTGTTTACTGG 59.128 55.000 0.00 0.00 0.00 4.00
807 916 6.511017 AATTCCCAAATACCCTACTACTCC 57.489 41.667 0.00 0.00 0.00 3.85
815 924 9.346005 CGTAGTAATAAAATTCCCAAATACCCT 57.654 33.333 0.00 0.00 0.00 4.34
816 925 9.123902 ACGTAGTAATAAAATTCCCAAATACCC 57.876 33.333 0.00 0.00 41.94 3.69
817 926 9.940166 CACGTAGTAATAAAATTCCCAAATACC 57.060 33.333 0.00 0.00 41.61 2.73
825 934 6.673154 ACTGGCACGTAGTAATAAAATTCC 57.327 37.500 0.00 0.00 41.61 3.01
829 938 7.542534 CCATTACTGGCACGTAGTAATAAAA 57.457 36.000 17.58 0.00 45.00 1.52
892 1001 1.533513 TGCAATGCAGGCTTTCCCA 60.534 52.632 2.72 0.00 33.32 4.37
923 1032 0.739561 AGCGAAGGCGTTACTCCTAG 59.260 55.000 0.00 0.00 46.35 3.02
924 1033 0.737219 GAGCGAAGGCGTTACTCCTA 59.263 55.000 9.44 0.00 46.35 2.94
925 1034 1.511768 GAGCGAAGGCGTTACTCCT 59.488 57.895 9.44 0.00 46.35 3.69
926 1035 1.518792 GGAGCGAAGGCGTTACTCC 60.519 63.158 19.29 19.29 46.35 3.85
951 1060 5.115480 CCAAAGAGAGAAACTGAGATAGCC 58.885 45.833 0.00 0.00 0.00 3.93
983 1092 7.116376 CGAACGCCATTAGAGAATTGTATGTAT 59.884 37.037 0.00 0.00 0.00 2.29
984 1093 6.419710 CGAACGCCATTAGAGAATTGTATGTA 59.580 38.462 0.00 0.00 0.00 2.29
985 1094 5.234329 CGAACGCCATTAGAGAATTGTATGT 59.766 40.000 0.00 0.00 0.00 2.29
986 1095 5.234329 ACGAACGCCATTAGAGAATTGTATG 59.766 40.000 0.00 0.00 0.00 2.39
1342 1457 1.026182 ATCGGTCAGTACGCACGGTA 61.026 55.000 0.00 0.00 0.00 4.02
1343 1458 2.338015 ATCGGTCAGTACGCACGGT 61.338 57.895 0.00 0.00 0.00 4.83
1344 1459 1.872234 CATCGGTCAGTACGCACGG 60.872 63.158 0.00 0.00 0.00 4.94
1345 1460 1.872234 CCATCGGTCAGTACGCACG 60.872 63.158 0.00 0.00 0.00 5.34
1346 1461 1.518572 CCCATCGGTCAGTACGCAC 60.519 63.158 0.00 0.00 0.00 5.34
1347 1462 2.717044 CCCCATCGGTCAGTACGCA 61.717 63.158 0.00 0.00 0.00 5.24
1348 1463 1.745320 ATCCCCATCGGTCAGTACGC 61.745 60.000 0.00 0.00 0.00 4.42
1368 1483 3.431725 GCTTCCCTGAAACGCGGG 61.432 66.667 12.47 0.09 43.18 6.13
1439 1554 2.632996 ACGACAGGAACTCCTTGATCAA 59.367 45.455 8.12 8.12 46.09 2.57
1588 1703 0.674581 TGAGCTTGTCGGGCATGAAG 60.675 55.000 0.00 0.00 0.00 3.02
1597 1712 0.666274 TGCGTACCTTGAGCTTGTCG 60.666 55.000 0.00 0.00 0.00 4.35
1622 1739 2.677003 CCACCATGTGTTCGACGCC 61.677 63.158 0.00 0.00 0.00 5.68
1623 1740 2.860293 CCACCATGTGTTCGACGC 59.140 61.111 0.00 0.00 0.00 5.19
1652 1769 1.069703 GGCAAACGAACCGGTAGAAAC 60.070 52.381 8.00 0.00 0.00 2.78
1731 1855 2.658538 CGACAGGATCGTCTGCTTG 58.341 57.895 0.00 0.00 46.25 4.01
1857 1981 3.386867 GAAGATGCGCTTGCCGGTG 62.387 63.158 9.73 0.00 36.83 4.94
2078 2202 1.208259 TTAGACGCGCATATGCACTG 58.792 50.000 26.52 17.04 42.21 3.66
2148 2272 9.595823 TTATCTAAGACCAATTACTGTGCTAAC 57.404 33.333 0.00 0.00 0.00 2.34
2149 2273 9.595823 GTTATCTAAGACCAATTACTGTGCTAA 57.404 33.333 0.00 0.00 0.00 3.09
2178 2302 3.554232 CGCCTGCACGCCATATAG 58.446 61.111 1.92 0.00 0.00 1.31
2212 2336 1.270094 GCCACTGCCCAAAAACTAACC 60.270 52.381 0.00 0.00 0.00 2.85
2244 2368 1.635663 AATCGAAAGCGCCGGACAAG 61.636 55.000 5.05 0.00 37.46 3.16
2340 2464 1.142185 CCTCGAGCACATGTACTGCG 61.142 60.000 6.99 7.36 39.79 5.18
2344 2468 0.450583 TCGTCCTCGAGCACATGTAC 59.549 55.000 7.38 0.00 41.35 2.90
2384 2508 0.532573 AGCAACACGGATCGATGAGT 59.467 50.000 0.54 0.00 0.00 3.41
2634 2758 0.246360 TTGCACTCGTCGATCACCAT 59.754 50.000 0.00 0.00 0.00 3.55
2810 2934 1.822990 ACTGTAGGACATACCACGGTG 59.177 52.381 0.00 0.00 42.04 4.94
2846 2970 7.941795 ATACCATAAGACATTGCTTACGTAC 57.058 36.000 0.00 0.00 33.53 3.67
2858 2982 5.751509 CCGAACGATCAAATACCATAAGACA 59.248 40.000 0.00 0.00 0.00 3.41
2868 2992 4.049186 GCTAAGAGCCGAACGATCAAATA 58.951 43.478 0.00 0.00 34.48 1.40
3106 3230 2.809601 CGCTCCGGGTTGAACTCG 60.810 66.667 11.23 11.23 42.83 4.18
3373 3497 3.249917 CGCGCCAAAGGAACAAAAATAT 58.750 40.909 0.00 0.00 0.00 1.28
3570 3694 9.868277 GGATTACCATAACAAAAATTGTCATGA 57.132 29.630 7.73 0.00 40.96 3.07
3629 3757 8.743085 AGATTATGCACATGTATCTTCTTTGT 57.257 30.769 0.00 0.00 0.00 2.83
3651 3779 9.399797 TGTGAGATATCATTTGCTGTTTTAGAT 57.600 29.630 5.32 0.00 0.00 1.98
3661 3789 4.882671 ACGGTTGTGAGATATCATTTGC 57.117 40.909 5.32 0.00 0.00 3.68
3705 3833 2.965831 GGGTATCTGCATGGTCTCTACA 59.034 50.000 0.00 0.00 0.00 2.74
3723 3851 8.706322 ATTACAGAAATAACAAAGTTCAGGGT 57.294 30.769 0.00 0.00 34.59 4.34
3724 3852 7.962918 CGATTACAGAAATAACAAAGTTCAGGG 59.037 37.037 0.00 0.00 34.59 4.45
3725 3853 7.481798 GCGATTACAGAAATAACAAAGTTCAGG 59.518 37.037 0.00 0.00 34.59 3.86
3726 3854 7.214449 CGCGATTACAGAAATAACAAAGTTCAG 59.786 37.037 0.00 0.00 34.59 3.02
3727 3855 7.012943 CGCGATTACAGAAATAACAAAGTTCA 58.987 34.615 0.00 0.00 34.59 3.18
3728 3856 6.464834 CCGCGATTACAGAAATAACAAAGTTC 59.535 38.462 8.23 0.00 32.27 3.01
3729 3857 6.148150 TCCGCGATTACAGAAATAACAAAGTT 59.852 34.615 8.23 0.00 0.00 2.66
3730 3858 5.640357 TCCGCGATTACAGAAATAACAAAGT 59.360 36.000 8.23 0.00 0.00 2.66
3731 3859 6.102006 TCCGCGATTACAGAAATAACAAAG 57.898 37.500 8.23 0.00 0.00 2.77
3732 3860 6.314152 TCATCCGCGATTACAGAAATAACAAA 59.686 34.615 8.23 0.00 0.00 2.83
3733 3861 5.813157 TCATCCGCGATTACAGAAATAACAA 59.187 36.000 8.23 0.00 0.00 2.83
3734 3862 5.233476 GTCATCCGCGATTACAGAAATAACA 59.767 40.000 8.23 0.00 0.00 2.41
3735 3863 5.233476 TGTCATCCGCGATTACAGAAATAAC 59.767 40.000 8.23 0.00 0.00 1.89
3736 3864 5.353111 TGTCATCCGCGATTACAGAAATAA 58.647 37.500 8.23 0.00 0.00 1.40
3737 3865 4.939271 TGTCATCCGCGATTACAGAAATA 58.061 39.130 8.23 0.00 0.00 1.40
3738 3866 3.792401 TGTCATCCGCGATTACAGAAAT 58.208 40.909 8.23 0.00 0.00 2.17
3739 3867 3.239587 TGTCATCCGCGATTACAGAAA 57.760 42.857 8.23 0.00 0.00 2.52
3740 3868 2.951457 TGTCATCCGCGATTACAGAA 57.049 45.000 8.23 0.00 0.00 3.02
3741 3869 3.381045 GAATGTCATCCGCGATTACAGA 58.619 45.455 8.23 0.00 31.13 3.41
3742 3870 2.476619 GGAATGTCATCCGCGATTACAG 59.523 50.000 8.23 0.00 31.13 2.74
3743 3871 2.479837 GGAATGTCATCCGCGATTACA 58.520 47.619 8.23 7.82 31.97 2.41
3752 3880 1.102978 CAAACCCCGGAATGTCATCC 58.897 55.000 0.73 0.00 36.05 3.51
3753 3881 2.017049 CTCAAACCCCGGAATGTCATC 58.983 52.381 0.73 0.00 0.00 2.92
3754 3882 1.354368 ACTCAAACCCCGGAATGTCAT 59.646 47.619 0.73 0.00 0.00 3.06
3755 3883 0.768622 ACTCAAACCCCGGAATGTCA 59.231 50.000 0.73 0.00 0.00 3.58
3756 3884 1.905637 AACTCAAACCCCGGAATGTC 58.094 50.000 0.73 0.00 0.00 3.06
3757 3885 2.375014 AAACTCAAACCCCGGAATGT 57.625 45.000 0.73 0.00 0.00 2.71
3758 3886 4.857509 TTAAAACTCAAACCCCGGAATG 57.142 40.909 0.73 0.00 0.00 2.67
3759 3887 7.541916 TTATTTAAAACTCAAACCCCGGAAT 57.458 32.000 0.73 0.00 0.00 3.01
3760 3888 6.973460 TTATTTAAAACTCAAACCCCGGAA 57.027 33.333 0.73 0.00 0.00 4.30
3761 3889 6.973460 TTTATTTAAAACTCAAACCCCGGA 57.027 33.333 0.73 0.00 0.00 5.14
3762 3890 6.091577 GCATTTATTTAAAACTCAAACCCCGG 59.908 38.462 0.00 0.00 0.00 5.73
3763 3891 6.183360 CGCATTTATTTAAAACTCAAACCCCG 60.183 38.462 0.00 0.00 0.00 5.73
3764 3892 6.091577 CCGCATTTATTTAAAACTCAAACCCC 59.908 38.462 0.00 0.00 0.00 4.95
3765 3893 6.401688 GCCGCATTTATTTAAAACTCAAACCC 60.402 38.462 0.00 0.00 0.00 4.11
3766 3894 6.146347 TGCCGCATTTATTTAAAACTCAAACC 59.854 34.615 0.00 0.00 0.00 3.27
3767 3895 7.111353 TGCCGCATTTATTTAAAACTCAAAC 57.889 32.000 0.00 0.00 0.00 2.93
3768 3896 7.715265 TTGCCGCATTTATTTAAAACTCAAA 57.285 28.000 0.00 0.00 0.00 2.69
3769 3897 7.897575 ATTGCCGCATTTATTTAAAACTCAA 57.102 28.000 0.00 0.00 0.00 3.02
3770 3898 9.593134 AATATTGCCGCATTTATTTAAAACTCA 57.407 25.926 0.00 0.00 0.00 3.41
3775 3903 9.262358 GGGTAAATATTGCCGCATTTATTTAAA 57.738 29.630 20.09 0.00 36.12 1.52
3776 3904 8.643324 AGGGTAAATATTGCCGCATTTATTTAA 58.357 29.630 20.09 9.85 36.12 1.52
3777 3905 8.184304 AGGGTAAATATTGCCGCATTTATTTA 57.816 30.769 17.13 17.13 36.12 1.40
3778 3906 7.061566 AGGGTAAATATTGCCGCATTTATTT 57.938 32.000 18.45 18.45 36.12 1.40
3779 3907 6.664428 AGGGTAAATATTGCCGCATTTATT 57.336 33.333 0.00 0.00 36.12 1.40
3780 3908 7.768807 TTAGGGTAAATATTGCCGCATTTAT 57.231 32.000 0.00 0.00 36.12 1.40
3781 3909 7.584122 TTTAGGGTAAATATTGCCGCATTTA 57.416 32.000 0.00 0.00 36.12 1.40
3782 3910 6.472686 TTTAGGGTAAATATTGCCGCATTT 57.527 33.333 0.00 0.00 36.12 2.32
3783 3911 6.472686 TTTTAGGGTAAATATTGCCGCATT 57.527 33.333 0.00 0.00 36.12 3.56
3784 3912 6.472686 TTTTTAGGGTAAATATTGCCGCAT 57.527 33.333 0.00 0.00 36.12 4.73
3785 3913 5.916661 TTTTTAGGGTAAATATTGCCGCA 57.083 34.783 0.00 0.00 36.12 5.69
3807 3935 3.826729 GTGGCAGTTCAGGGTATCTTTTT 59.173 43.478 0.00 0.00 0.00 1.94
3808 3936 3.181434 TGTGGCAGTTCAGGGTATCTTTT 60.181 43.478 0.00 0.00 0.00 2.27
3809 3937 2.375174 TGTGGCAGTTCAGGGTATCTTT 59.625 45.455 0.00 0.00 0.00 2.52
3810 3938 1.985159 TGTGGCAGTTCAGGGTATCTT 59.015 47.619 0.00 0.00 0.00 2.40
3811 3939 1.656587 TGTGGCAGTTCAGGGTATCT 58.343 50.000 0.00 0.00 0.00 1.98
3812 3940 2.084546 GTTGTGGCAGTTCAGGGTATC 58.915 52.381 0.00 0.00 0.00 2.24
3813 3941 1.705186 AGTTGTGGCAGTTCAGGGTAT 59.295 47.619 0.00 0.00 0.00 2.73
3814 3942 1.071699 GAGTTGTGGCAGTTCAGGGTA 59.928 52.381 0.00 0.00 0.00 3.69
3820 3948 3.817647 AGAGAATTGAGTTGTGGCAGTTC 59.182 43.478 0.00 0.00 32.80 3.01
3838 3966 3.141488 GCGGAGGAAGCGGAGAGA 61.141 66.667 0.00 0.00 0.00 3.10
3863 3999 3.758554 GGTGAGGCAACACATAAATCAGT 59.241 43.478 14.60 0.00 40.09 3.41
3941 4084 1.891919 GGAGACACACCGCAAAGCA 60.892 57.895 0.00 0.00 0.00 3.91
3953 4096 6.410474 GGTCGATGACTTGACATGGAGACA 62.410 50.000 0.00 0.00 37.50 3.41
3961 4104 1.608025 GCCAAGGTCGATGACTTGACA 60.608 52.381 21.55 0.00 37.50 3.58
3966 4109 1.278985 TCATTGCCAAGGTCGATGACT 59.721 47.619 8.47 0.00 32.47 3.41
3978 4121 0.976641 ACGAGAAGGAGTCATTGCCA 59.023 50.000 0.00 0.00 0.00 4.92
3981 4124 1.914634 CCGACGAGAAGGAGTCATTG 58.085 55.000 0.00 0.00 37.23 2.82
3997 4140 2.434185 GCCAAGACACGATGCCGA 60.434 61.111 0.00 0.00 39.50 5.54
4000 4143 1.199789 TCATTTGCCAAGACACGATGC 59.800 47.619 0.00 0.00 0.00 3.91
4017 4160 1.489481 TGCCATCGAGAAGGAGTCAT 58.511 50.000 5.60 0.00 0.00 3.06
4018 4161 1.410517 GATGCCATCGAGAAGGAGTCA 59.589 52.381 5.60 0.00 0.00 3.41
4047 4190 1.524621 GCATCCCTCCACACCATCG 60.525 63.158 0.00 0.00 0.00 3.84
4048 4191 1.524621 CGCATCCCTCCACACCATC 60.525 63.158 0.00 0.00 0.00 3.51
4055 4198 0.687427 TCATCACTCGCATCCCTCCA 60.687 55.000 0.00 0.00 0.00 3.86
4148 4291 1.809939 ATTGCCCCAAAGCCTACCCA 61.810 55.000 0.00 0.00 0.00 4.51
4194 4337 1.134175 CCACCATTTTGGACCGCATAC 59.866 52.381 0.00 0.00 40.96 2.39
4197 4340 1.152652 ACCACCATTTTGGACCGCA 60.153 52.632 0.00 0.00 40.96 5.69
4206 4349 1.767681 ACCATGTTTGCACCACCATTT 59.232 42.857 0.00 0.00 0.00 2.32
4256 4407 2.391389 CCCGCTCGCTTCAAAGGAC 61.391 63.158 0.00 0.00 0.00 3.85
4301 4452 2.526888 AGGTCTGAGTATCACGGGAA 57.473 50.000 0.00 0.00 42.56 3.97
4302 4453 2.291346 TGAAGGTCTGAGTATCACGGGA 60.291 50.000 0.00 0.00 42.56 5.14
4304 4455 3.131223 ACATGAAGGTCTGAGTATCACGG 59.869 47.826 0.00 0.00 42.56 4.94
4311 4462 2.158769 TGTTGCACATGAAGGTCTGAGT 60.159 45.455 0.00 0.00 0.00 3.41
4324 4475 3.814625 TGTCATCTAACCTTGTTGCACA 58.185 40.909 0.00 0.00 0.00 4.57


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

AutoCloner maintained by Alex Coulton.