Multiple sequence alignment - TraesCS4D01G132500

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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 TraesCS4D01G132500 chr4D 100.000 4756 0 0 1 4756 119368030 119363275 0.000000e+00 8783.0
1 TraesCS4D01G132500 chr4D 93.878 588 26 3 1 578 487158785 487159372 0.000000e+00 878.0
2 TraesCS4D01G132500 chr4D 81.290 155 10 11 4305 4448 58136071 58135925 1.810000e-19 108.0
3 TraesCS4D01G132500 chr4A 94.269 3507 128 24 608 4088 453676068 453679527 0.000000e+00 5295.0
4 TraesCS4D01G132500 chr4A 89.328 253 12 7 4090 4334 453679480 453679725 2.150000e-78 303.0
5 TraesCS4D01G132500 chr4A 82.857 175 26 4 3880 4051 719118479 719118306 2.290000e-33 154.0
6 TraesCS4D01G132500 chr4A 90.909 99 5 3 4331 4426 453679986 453680083 3.860000e-26 130.0
7 TraesCS4D01G132500 chr4B 96.838 2467 58 7 1419 3885 181517991 181515545 0.000000e+00 4106.0
8 TraesCS4D01G132500 chr4B 90.196 867 31 24 584 1424 181522087 181521249 0.000000e+00 1081.0
9 TraesCS4D01G132500 chr4B 94.952 416 18 2 4265 4677 181511003 181510588 0.000000e+00 649.0
10 TraesCS4D01G132500 chr4B 94.686 207 11 0 3882 4088 181512696 181512490 5.940000e-84 322.0
11 TraesCS4D01G132500 chr4B 90.411 73 6 1 4084 4156 181512542 181512471 1.410000e-15 95.3
12 TraesCS4D01G132500 chr1D 94.416 591 17 6 1 576 446557314 446557903 0.000000e+00 894.0
13 TraesCS4D01G132500 chr1D 79.167 144 22 7 4302 4444 221126392 221126528 5.070000e-15 93.5
14 TraesCS4D01G132500 chrUn 93.688 602 17 6 1 582 108805376 108805976 0.000000e+00 881.0
15 TraesCS4D01G132500 chr6D 93.792 596 18 5 1 578 347438176 347437582 0.000000e+00 878.0
16 TraesCS4D01G132500 chr6D 92.345 614 14 6 2 582 41908115 41907502 0.000000e+00 843.0
17 TraesCS4D01G132500 chr6D 88.119 101 7 4 4302 4400 316262847 316262750 1.080000e-21 115.0
18 TraesCS4D01G132500 chr3D 93.478 598 27 5 1 588 442773294 442772699 0.000000e+00 878.0
19 TraesCS4D01G132500 chr3D 93.581 592 24 6 1 578 576576375 576575784 0.000000e+00 870.0
20 TraesCS4D01G132500 chr3D 81.646 158 15 9 4302 4448 24344067 24344221 8.360000e-23 119.0
21 TraesCS4D01G132500 chr3D 81.529 157 15 10 4302 4448 40715258 40715410 3.010000e-22 117.0
22 TraesCS4D01G132500 chr3D 81.013 158 16 9 4302 4448 24297788 24297942 3.890000e-21 113.0
23 TraesCS4D01G132500 chr3D 87.000 100 9 3 4302 4400 24388153 24388249 5.030000e-20 110.0
24 TraesCS4D01G132500 chr3A 92.679 601 28 8 1 586 490429588 490428989 0.000000e+00 852.0
25 TraesCS4D01G132500 chr2B 92.475 598 25 7 1 578 142979192 142978595 0.000000e+00 837.0
26 TraesCS4D01G132500 chr2B 86.815 584 66 9 3 578 206294342 206294922 4.010000e-180 641.0
27 TraesCS4D01G132500 chr2B 88.889 99 10 1 4302 4400 712030509 712030412 2.320000e-23 121.0
28 TraesCS4D01G132500 chr5B 92.530 589 34 6 1 582 442392082 442391497 0.000000e+00 835.0
29 TraesCS4D01G132500 chr5B 90.835 611 24 13 1 579 576994157 576993547 0.000000e+00 789.0
30 TraesCS4D01G132500 chr7B 91.556 604 26 12 1 582 49222071 49221471 0.000000e+00 809.0
31 TraesCS4D01G132500 chr7B 91.057 615 23 16 1 584 460250834 460251447 0.000000e+00 802.0
32 TraesCS4D01G132500 chr5D 83.721 172 22 6 3884 4051 555356169 555356000 1.770000e-34 158.0
33 TraesCS4D01G132500 chr5D 89.899 99 6 3 4302 4400 563819821 563819915 1.800000e-24 124.0
34 TraesCS4D01G132500 chr1B 86.275 153 9 6 4302 4443 317446411 317446260 6.370000e-34 156.0
35 TraesCS4D01G132500 chr1B 89.583 96 8 2 4302 4396 587659923 587660017 2.320000e-23 121.0
36 TraesCS4D01G132500 chr2D 83.735 166 24 3 3880 4043 27760945 27761109 2.290000e-33 154.0
37 TraesCS4D01G132500 chr2D 81.714 175 28 4 3880 4051 69256648 69256475 4.960000e-30 143.0
38 TraesCS4D01G132500 chr7D 84.810 158 11 9 4302 4448 420363313 420363468 3.840000e-31 147.0
39 TraesCS4D01G132500 chr5A 84.337 166 9 12 4302 4454 572829412 572829251 3.840000e-31 147.0


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 TraesCS4D01G132500 chr4D 119363275 119368030 4755 True 8783.000000 8783 100.0000 1 4756 1 chr4D.!!$R2 4755
1 TraesCS4D01G132500 chr4D 487158785 487159372 587 False 878.000000 878 93.8780 1 578 1 chr4D.!!$F1 577
2 TraesCS4D01G132500 chr4A 453676068 453680083 4015 False 1909.333333 5295 91.5020 608 4426 3 chr4A.!!$F1 3818
3 TraesCS4D01G132500 chr4B 181510588 181522087 11499 True 1250.660000 4106 93.4166 584 4677 5 chr4B.!!$R1 4093
4 TraesCS4D01G132500 chr1D 446557314 446557903 589 False 894.000000 894 94.4160 1 576 1 chr1D.!!$F2 575
5 TraesCS4D01G132500 chrUn 108805376 108805976 600 False 881.000000 881 93.6880 1 582 1 chrUn.!!$F1 581
6 TraesCS4D01G132500 chr6D 347437582 347438176 594 True 878.000000 878 93.7920 1 578 1 chr6D.!!$R3 577
7 TraesCS4D01G132500 chr6D 41907502 41908115 613 True 843.000000 843 92.3450 2 582 1 chr6D.!!$R1 580
8 TraesCS4D01G132500 chr3D 442772699 442773294 595 True 878.000000 878 93.4780 1 588 1 chr3D.!!$R1 587
9 TraesCS4D01G132500 chr3D 576575784 576576375 591 True 870.000000 870 93.5810 1 578 1 chr3D.!!$R2 577
10 TraesCS4D01G132500 chr3A 490428989 490429588 599 True 852.000000 852 92.6790 1 586 1 chr3A.!!$R1 585
11 TraesCS4D01G132500 chr2B 142978595 142979192 597 True 837.000000 837 92.4750 1 578 1 chr2B.!!$R1 577
12 TraesCS4D01G132500 chr2B 206294342 206294922 580 False 641.000000 641 86.8150 3 578 1 chr2B.!!$F1 575
13 TraesCS4D01G132500 chr5B 442391497 442392082 585 True 835.000000 835 92.5300 1 582 1 chr5B.!!$R1 581
14 TraesCS4D01G132500 chr5B 576993547 576994157 610 True 789.000000 789 90.8350 1 579 1 chr5B.!!$R2 578
15 TraesCS4D01G132500 chr7B 49221471 49222071 600 True 809.000000 809 91.5560 1 582 1 chr7B.!!$R1 581
16 TraesCS4D01G132500 chr7B 460250834 460251447 613 False 802.000000 802 91.0570 1 584 1 chr7B.!!$F1 583

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
839 947 0.800631 GTGGTTCCGATTCCCGTTTC 59.199 55.000 0.00 0.0 36.31 2.78 F
1668 5086 0.400594 GCCAGGACAGGGTTGTTACT 59.599 55.000 0.00 0.0 37.76 2.24 F
1806 5224 3.430929 GGTTGACGATAGCCAATCAGTCT 60.431 47.826 15.62 0.0 41.55 3.24 F
3232 6662 0.692476 TGCCAGCTTACACAGTGGAT 59.308 50.000 5.31 0.0 31.04 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2167 5585 0.818445 GTGCCATCTGCCCTGAGATG 60.818 60.0 5.06 5.06 46.20 2.90 R
2481 5900 0.962489 CTGACCTCACGGAGTCAAGT 59.038 55.0 0.00 0.00 41.61 3.16 R
3707 7137 0.687354 TCCTTCTCTGTGCAACCTCC 59.313 55.0 0.00 0.00 34.36 4.30 R
4709 12693 0.033796 ATCTTCCCTGTGTGCATGGG 60.034 55.0 9.80 9.80 42.20 4.00 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
283 356 6.985188 TCTGTCATTTGATTGTAGTTAGGC 57.015 37.500 0.00 0.00 0.00 3.93
469 554 1.304282 CAACTAGGGGCATGCAGGT 59.696 57.895 21.36 3.34 0.00 4.00
839 947 0.800631 GTGGTTCCGATTCCCGTTTC 59.199 55.000 0.00 0.00 36.31 2.78
846 954 1.530323 CGATTCCCGTTTCCTTTGGT 58.470 50.000 0.00 0.00 0.00 3.67
910 1018 7.553881 TTCGTTCCTAATTCATTCATTCCTC 57.446 36.000 0.00 0.00 0.00 3.71
911 1019 6.889198 TCGTTCCTAATTCATTCATTCCTCT 58.111 36.000 0.00 0.00 0.00 3.69
912 1020 7.338710 TCGTTCCTAATTCATTCATTCCTCTT 58.661 34.615 0.00 0.00 0.00 2.85
913 1021 8.482943 TCGTTCCTAATTCATTCATTCCTCTTA 58.517 33.333 0.00 0.00 0.00 2.10
914 1022 9.109393 CGTTCCTAATTCATTCATTCCTCTTAA 57.891 33.333 0.00 0.00 0.00 1.85
924 1032 9.667107 TCATTCATTCCTCTTAACTTTTATCGT 57.333 29.630 0.00 0.00 0.00 3.73
927 1035 8.181487 TCATTCCTCTTAACTTTTATCGTTCG 57.819 34.615 0.00 0.00 0.00 3.95
928 1036 7.816031 TCATTCCTCTTAACTTTTATCGTTCGT 59.184 33.333 0.00 0.00 0.00 3.85
929 1037 6.939551 TCCTCTTAACTTTTATCGTTCGTG 57.060 37.500 0.00 0.00 0.00 4.35
930 1038 5.865552 TCCTCTTAACTTTTATCGTTCGTGG 59.134 40.000 0.00 0.00 0.00 4.94
931 1039 5.636543 CCTCTTAACTTTTATCGTTCGTGGT 59.363 40.000 0.00 0.00 0.00 4.16
932 1040 6.183360 CCTCTTAACTTTTATCGTTCGTGGTC 60.183 42.308 0.00 0.00 0.00 4.02
933 1041 5.634859 TCTTAACTTTTATCGTTCGTGGTCC 59.365 40.000 0.00 0.00 0.00 4.46
934 1042 3.672767 ACTTTTATCGTTCGTGGTCCT 57.327 42.857 0.00 0.00 0.00 3.85
971 1104 2.889045 TCCAGCGCGTTAGGACTAATAT 59.111 45.455 8.43 0.00 0.00 1.28
1066 1199 4.107586 CGTATGCGTGTTCATCTTGATC 57.892 45.455 0.00 0.00 0.00 2.92
1067 1200 3.798878 CGTATGCGTGTTCATCTTGATCT 59.201 43.478 0.00 0.00 0.00 2.75
1070 1203 4.718940 TGCGTGTTCATCTTGATCTCTA 57.281 40.909 0.00 0.00 0.00 2.43
1088 1221 5.300752 TCTCTACTTGTTTTCCTCTTGCTG 58.699 41.667 0.00 0.00 0.00 4.41
1116 1249 2.091665 CCCACCTTCCTATGCCTTGAAT 60.092 50.000 0.00 0.00 0.00 2.57
1122 1255 6.774656 CACCTTCCTATGCCTTGAATATTTCT 59.225 38.462 0.00 0.00 0.00 2.52
1142 1275 8.854614 ATTTCTATGTTCAGATATTACCTGGC 57.145 34.615 0.00 0.00 32.73 4.85
1144 1277 6.997655 TCTATGTTCAGATATTACCTGGCTG 58.002 40.000 0.00 0.00 32.73 4.85
1146 1279 3.136443 TGTTCAGATATTACCTGGCTGGG 59.864 47.826 15.36 5.47 41.11 4.45
1157 1290 2.102578 CCTGGCTGGGTTAGGAATTTG 58.897 52.381 1.84 0.00 33.33 2.32
1164 1297 3.692690 TGGGTTAGGAATTTGGTACTGC 58.307 45.455 0.00 0.00 0.00 4.40
1165 1298 3.074687 TGGGTTAGGAATTTGGTACTGCA 59.925 43.478 0.00 0.00 0.00 4.41
1166 1299 3.694566 GGGTTAGGAATTTGGTACTGCAG 59.305 47.826 13.48 13.48 0.00 4.41
1167 1300 4.332828 GGTTAGGAATTTGGTACTGCAGT 58.667 43.478 25.12 25.12 0.00 4.40
1168 1301 4.765339 GGTTAGGAATTTGGTACTGCAGTT 59.235 41.667 27.06 4.31 0.00 3.16
1169 1302 5.243060 GGTTAGGAATTTGGTACTGCAGTTT 59.757 40.000 27.06 12.13 0.00 2.66
1210 1355 3.418714 GCAGGCAGCAGTCATAGC 58.581 61.111 0.00 0.00 44.79 2.97
1228 1373 2.102578 AGCTGTCTGTTTGCCTTGTTT 58.897 42.857 0.00 0.00 0.00 2.83
1230 1375 2.195922 CTGTCTGTTTGCCTTGTTTGC 58.804 47.619 0.00 0.00 0.00 3.68
1234 1379 0.461693 TGTTTGCCTTGTTTGCTGCC 60.462 50.000 0.00 0.00 0.00 4.85
1269 1414 5.464069 ACCTGAACTTTTCAACCCCTTATT 58.536 37.500 0.00 0.00 39.58 1.40
1270 1415 6.616577 ACCTGAACTTTTCAACCCCTTATTA 58.383 36.000 0.00 0.00 39.58 0.98
1271 1416 7.246027 ACCTGAACTTTTCAACCCCTTATTAT 58.754 34.615 0.00 0.00 39.58 1.28
1285 1430 6.736179 ACCCCTTATTATCCTTATCCTTCCTC 59.264 42.308 0.00 0.00 0.00 3.71
1452 4869 4.221482 GGTGAAAGGAATTGAATTGAGCCT 59.779 41.667 0.00 0.00 0.00 4.58
1574 4992 1.032014 TCTGAACCCAACTTGCTTGC 58.968 50.000 0.00 0.00 0.00 4.01
1576 4994 0.746063 TGAACCCAACTTGCTTGCTG 59.254 50.000 0.00 0.00 0.00 4.41
1603 5021 4.316792 CGTGCAATTAACGTCCACAAAAAC 60.317 41.667 0.00 0.00 36.31 2.43
1604 5022 4.026393 GTGCAATTAACGTCCACAAAAACC 60.026 41.667 0.00 0.00 0.00 3.27
1668 5086 0.400594 GCCAGGACAGGGTTGTTACT 59.599 55.000 0.00 0.00 37.76 2.24
1806 5224 3.430929 GGTTGACGATAGCCAATCAGTCT 60.431 47.826 15.62 0.00 41.55 3.24
1967 5385 6.315393 ACTGACGATTATGCCGTAAGATTTTT 59.685 34.615 7.00 0.00 40.12 1.94
2160 5578 9.442047 CAGTGTAATAAGTTCCTCTCAAGAAAT 57.558 33.333 0.00 0.00 0.00 2.17
2167 5585 4.081917 AGTTCCTCTCAAGAAATCTCGGAC 60.082 45.833 0.00 0.00 0.00 4.79
2481 5900 4.383770 GGGACGACCAGATTTTTGGAGATA 60.384 45.833 6.20 0.00 40.87 1.98
2654 6073 4.965532 AGTTCCAGGTTAGTCTGATGCTAT 59.034 41.667 0.00 0.00 36.93 2.97
2732 6151 9.616634 GCTTTTACAGGTTTATTTAGTAACCAC 57.383 33.333 0.00 0.00 44.99 4.16
3188 6618 8.846211 TCAAAAGTCCTTAAGGTATTTTCTGTG 58.154 33.333 24.28 18.19 34.31 3.66
3189 6619 8.846211 CAAAAGTCCTTAAGGTATTTTCTGTGA 58.154 33.333 24.28 2.75 34.31 3.58
3190 6620 8.990163 AAAGTCCTTAAGGTATTTTCTGTGAA 57.010 30.769 21.04 0.00 36.34 3.18
3191 6621 9.588096 AAAGTCCTTAAGGTATTTTCTGTGAAT 57.412 29.630 21.04 0.00 36.34 2.57
3192 6622 9.588096 AAGTCCTTAAGGTATTTTCTGTGAATT 57.412 29.630 21.04 0.16 36.34 2.17
3193 6623 9.014297 AGTCCTTAAGGTATTTTCTGTGAATTG 57.986 33.333 21.04 0.00 36.34 2.32
3194 6624 9.010029 GTCCTTAAGGTATTTTCTGTGAATTGA 57.990 33.333 21.04 0.00 36.34 2.57
3195 6625 9.753674 TCCTTAAGGTATTTTCTGTGAATTGAT 57.246 29.630 21.04 0.00 36.34 2.57
3215 6645 5.534407 TGATCATTGCAATCATTACCATGC 58.466 37.500 9.53 0.00 39.22 4.06
3232 6662 0.692476 TGCCAGCTTACACAGTGGAT 59.308 50.000 5.31 0.00 31.04 3.41
3531 6961 1.522355 CTGCTGGTGGCGAGGTATG 60.522 63.158 0.00 0.00 45.43 2.39
3707 7137 1.430479 CTCTGCTGACTCTGCTTGTG 58.570 55.000 9.11 1.08 0.00 3.33
3716 7146 0.535780 CTCTGCTTGTGGAGGTTGCA 60.536 55.000 0.00 0.00 32.15 4.08
3958 10241 1.202651 ACCAAGTCTCGGACAAAGGTG 60.203 52.381 6.78 0.00 34.05 4.00
4074 10358 7.259290 GACAAAATGTCACCTTAAAGACAGA 57.741 36.000 5.65 0.00 46.70 3.41
4075 10359 7.639113 ACAAAATGTCACCTTAAAGACAGAA 57.361 32.000 9.86 0.00 46.70 3.02
4076 10360 8.062065 ACAAAATGTCACCTTAAAGACAGAAA 57.938 30.769 9.86 0.00 46.70 2.52
4077 10361 8.527810 ACAAAATGTCACCTTAAAGACAGAAAA 58.472 29.630 9.86 0.00 46.70 2.29
4078 10362 9.364989 CAAAATGTCACCTTAAAGACAGAAAAA 57.635 29.630 9.86 0.00 46.70 1.94
4080 10364 9.533253 AAATGTCACCTTAAAGACAGAAAAATG 57.467 29.630 9.86 0.00 46.70 2.32
4081 10365 7.639113 TGTCACCTTAAAGACAGAAAAATGT 57.361 32.000 0.00 0.00 39.65 2.71
4082 10366 8.740123 TGTCACCTTAAAGACAGAAAAATGTA 57.260 30.769 0.00 0.00 39.65 2.29
4083 10367 9.349713 TGTCACCTTAAAGACAGAAAAATGTAT 57.650 29.630 0.00 0.00 39.65 2.29
4195 11904 0.531200 CAGGTCCAAGTCGGTCTACC 59.469 60.000 0.00 0.00 35.57 3.18
4235 11944 5.290493 TCCATAGCATTTGTCTCGGTAAT 57.710 39.130 0.00 0.00 0.00 1.89
4241 11956 3.627577 GCATTTGTCTCGGTAATGGTCAT 59.372 43.478 0.00 0.00 31.54 3.06
4242 11957 4.096382 GCATTTGTCTCGGTAATGGTCATT 59.904 41.667 1.65 1.65 31.54 2.57
4427 12409 4.027437 GGGGACATCCTAGCCTATTCTAG 58.973 52.174 0.00 0.00 36.63 2.43
4434 12416 4.411927 TCCTAGCCTATTCTAGAAGCCAG 58.588 47.826 11.53 7.38 38.61 4.85
4509 12491 0.748367 GCGGGATGGAAAGACCCTTC 60.748 60.000 0.00 0.00 41.28 3.46
4513 12495 1.679032 GGATGGAAAGACCCTTCGGTG 60.679 57.143 0.00 0.00 44.88 4.94
4532 12514 3.187842 GGTGTAATTGGTTGGTCGTCTTC 59.812 47.826 0.00 0.00 0.00 2.87
4533 12515 3.187842 GTGTAATTGGTTGGTCGTCTTCC 59.812 47.826 0.00 0.00 0.00 3.46
4534 12516 2.951229 AATTGGTTGGTCGTCTTCCT 57.049 45.000 0.00 0.00 0.00 3.36
4555 12539 1.633945 ACTTACAAGGGACCCATGGAC 59.366 52.381 19.70 6.84 0.00 4.02
4629 12613 6.923928 AACAATTCCACACCTTTCAAAATG 57.076 33.333 0.00 0.00 0.00 2.32
4635 12619 4.037923 TCCACACCTTTCAAAATGCTTCTC 59.962 41.667 0.00 0.00 0.00 2.87
4662 12646 2.115343 ACGAGATTCCTTCCTTTGGC 57.885 50.000 0.00 0.00 0.00 4.52
4677 12661 3.218470 GGCTGTGCCTGCAACACA 61.218 61.111 18.31 18.31 46.69 3.72
4678 12662 2.567497 GGCTGTGCCTGCAACACAT 61.567 57.895 19.33 0.00 46.32 3.21
4679 12663 1.080974 GCTGTGCCTGCAACACATC 60.081 57.895 19.33 13.32 46.32 3.06
4680 12664 1.208358 CTGTGCCTGCAACACATCG 59.792 57.895 19.33 8.11 46.32 3.84
4681 12665 2.126734 GTGCCTGCAACACATCGC 60.127 61.111 13.26 0.00 37.96 4.58
4682 12666 2.281692 TGCCTGCAACACATCGCT 60.282 55.556 0.00 0.00 0.00 4.93
4683 12667 2.177531 GCCTGCAACACATCGCTG 59.822 61.111 0.00 0.00 0.00 5.18
4684 12668 2.620112 GCCTGCAACACATCGCTGT 61.620 57.895 0.00 0.00 35.44 4.40
4693 12677 1.931906 CACATCGCTGTGCAGATAGT 58.068 50.000 6.44 0.00 45.79 2.12
4694 12678 3.084070 CACATCGCTGTGCAGATAGTA 57.916 47.619 6.44 0.00 45.79 1.82
4695 12679 3.646946 CACATCGCTGTGCAGATAGTAT 58.353 45.455 6.44 0.00 45.79 2.12
4696 12680 4.053983 CACATCGCTGTGCAGATAGTATT 58.946 43.478 6.44 0.00 45.79 1.89
4697 12681 4.509230 CACATCGCTGTGCAGATAGTATTT 59.491 41.667 6.44 0.00 45.79 1.40
4698 12682 4.509230 ACATCGCTGTGCAGATAGTATTTG 59.491 41.667 3.02 0.00 33.22 2.32
4699 12683 3.457234 TCGCTGTGCAGATAGTATTTGG 58.543 45.455 3.02 0.00 0.00 3.28
4700 12684 2.032549 CGCTGTGCAGATAGTATTTGGC 60.033 50.000 3.02 0.00 0.00 4.52
4701 12685 2.291741 GCTGTGCAGATAGTATTTGGCC 59.708 50.000 0.00 0.00 0.00 5.36
4702 12686 2.880890 CTGTGCAGATAGTATTTGGCCC 59.119 50.000 0.00 0.00 0.00 5.80
4703 12687 1.873591 GTGCAGATAGTATTTGGCCCG 59.126 52.381 0.00 0.00 0.00 6.13
4704 12688 1.488812 TGCAGATAGTATTTGGCCCGT 59.511 47.619 0.00 0.00 0.00 5.28
4705 12689 2.701423 TGCAGATAGTATTTGGCCCGTA 59.299 45.455 0.00 0.00 0.00 4.02
4706 12690 3.134985 TGCAGATAGTATTTGGCCCGTAA 59.865 43.478 0.00 0.00 0.00 3.18
4707 12691 3.497262 GCAGATAGTATTTGGCCCGTAAC 59.503 47.826 0.00 0.00 0.00 2.50
4708 12692 4.699637 CAGATAGTATTTGGCCCGTAACA 58.300 43.478 0.00 0.00 0.00 2.41
4709 12693 4.510340 CAGATAGTATTTGGCCCGTAACAC 59.490 45.833 0.00 0.00 0.00 3.32
4710 12694 2.118313 AGTATTTGGCCCGTAACACC 57.882 50.000 0.00 0.00 0.00 4.16
4711 12695 1.097232 GTATTTGGCCCGTAACACCC 58.903 55.000 0.00 0.00 0.00 4.61
4712 12696 0.697079 TATTTGGCCCGTAACACCCA 59.303 50.000 0.00 0.00 0.00 4.51
4713 12697 0.040499 ATTTGGCCCGTAACACCCAT 59.960 50.000 0.00 0.00 0.00 4.00
4714 12698 0.896019 TTTGGCCCGTAACACCCATG 60.896 55.000 0.00 0.00 0.00 3.66
4715 12699 3.138128 GGCCCGTAACACCCATGC 61.138 66.667 0.00 0.00 0.00 4.06
4716 12700 2.360600 GCCCGTAACACCCATGCA 60.361 61.111 0.00 0.00 0.00 3.96
4717 12701 2.696759 GCCCGTAACACCCATGCAC 61.697 63.158 0.00 0.00 0.00 4.57
4718 12702 1.302913 CCCGTAACACCCATGCACA 60.303 57.895 0.00 0.00 0.00 4.57
4719 12703 1.582610 CCCGTAACACCCATGCACAC 61.583 60.000 0.00 0.00 0.00 3.82
4720 12704 0.886938 CCGTAACACCCATGCACACA 60.887 55.000 0.00 0.00 0.00 3.72
4721 12705 0.516877 CGTAACACCCATGCACACAG 59.483 55.000 0.00 0.00 0.00 3.66
4722 12706 0.881118 GTAACACCCATGCACACAGG 59.119 55.000 0.00 0.00 0.00 4.00
4730 12714 1.100510 CATGCACACAGGGAAGATGG 58.899 55.000 0.00 0.00 0.00 3.51
4731 12715 0.033796 ATGCACACAGGGAAGATGGG 60.034 55.000 0.00 0.00 0.00 4.00
4732 12716 1.379044 GCACACAGGGAAGATGGGG 60.379 63.158 0.00 0.00 0.00 4.96
4733 12717 2.078452 CACACAGGGAAGATGGGGT 58.922 57.895 0.00 0.00 0.00 4.95
4734 12718 0.322816 CACACAGGGAAGATGGGGTG 60.323 60.000 0.00 0.00 0.00 4.61
4735 12719 1.304282 CACAGGGAAGATGGGGTGG 59.696 63.158 0.00 0.00 0.00 4.61
4736 12720 1.151587 ACAGGGAAGATGGGGTGGT 60.152 57.895 0.00 0.00 0.00 4.16
4737 12721 1.208165 ACAGGGAAGATGGGGTGGTC 61.208 60.000 0.00 0.00 0.00 4.02
4738 12722 1.163309 AGGGAAGATGGGGTGGTCA 59.837 57.895 0.00 0.00 0.00 4.02
4739 12723 0.477597 AGGGAAGATGGGGTGGTCAA 60.478 55.000 0.00 0.00 0.00 3.18
4740 12724 0.631212 GGGAAGATGGGGTGGTCAAT 59.369 55.000 0.00 0.00 0.00 2.57
4741 12725 1.850345 GGGAAGATGGGGTGGTCAATA 59.150 52.381 0.00 0.00 0.00 1.90
4742 12726 2.243736 GGGAAGATGGGGTGGTCAATAA 59.756 50.000 0.00 0.00 0.00 1.40
4743 12727 3.117131 GGGAAGATGGGGTGGTCAATAAT 60.117 47.826 0.00 0.00 0.00 1.28
4744 12728 4.145052 GGAAGATGGGGTGGTCAATAATC 58.855 47.826 0.00 0.00 0.00 1.75
4745 12729 3.492102 AGATGGGGTGGTCAATAATCG 57.508 47.619 0.00 0.00 0.00 3.34
4746 12730 2.777692 AGATGGGGTGGTCAATAATCGT 59.222 45.455 0.00 0.00 0.00 3.73
4747 12731 2.702592 TGGGGTGGTCAATAATCGTC 57.297 50.000 0.00 0.00 0.00 4.20
4748 12732 1.909986 TGGGGTGGTCAATAATCGTCA 59.090 47.619 0.00 0.00 0.00 4.35
4749 12733 2.306219 TGGGGTGGTCAATAATCGTCAA 59.694 45.455 0.00 0.00 0.00 3.18
4750 12734 2.681344 GGGGTGGTCAATAATCGTCAAC 59.319 50.000 0.00 0.00 0.00 3.18
4751 12735 2.681344 GGGTGGTCAATAATCGTCAACC 59.319 50.000 0.00 0.00 0.00 3.77
4752 12736 2.681344 GGTGGTCAATAATCGTCAACCC 59.319 50.000 0.00 0.00 0.00 4.11
4753 12737 3.606687 GTGGTCAATAATCGTCAACCCT 58.393 45.455 0.00 0.00 0.00 4.34
4754 12738 3.374058 GTGGTCAATAATCGTCAACCCTG 59.626 47.826 0.00 0.00 0.00 4.45
4755 12739 3.008594 TGGTCAATAATCGTCAACCCTGT 59.991 43.478 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
283 356 7.800380 CAGCTAGTTAAACAAATGACAGTTCAG 59.200 37.037 0.00 0.00 34.35 3.02
423 508 2.428890 ACAAACATTTTTGACCCAGCGA 59.571 40.909 11.21 0.00 44.38 4.93
469 554 7.626999 ACCCTAGATGCATATAGTTTGGTTA 57.373 36.000 23.19 0.00 0.00 2.85
718 826 2.814913 ATTCCGTTTCGTGGGGAGGC 62.815 60.000 0.00 0.00 0.00 4.70
825 933 1.612199 CCAAAGGAAACGGGAATCGGA 60.612 52.381 0.00 0.00 44.45 4.55
846 954 2.626780 CGGCTGACAGACGGACTGA 61.627 63.158 23.44 0.00 44.58 3.41
910 1018 5.636543 AGGACCACGAACGATAAAAGTTAAG 59.363 40.000 0.14 0.00 31.14 1.85
911 1019 5.540911 AGGACCACGAACGATAAAAGTTAA 58.459 37.500 0.14 0.00 31.14 2.01
912 1020 5.047802 AGAGGACCACGAACGATAAAAGTTA 60.048 40.000 0.14 0.00 31.14 2.24
913 1021 3.992427 GAGGACCACGAACGATAAAAGTT 59.008 43.478 0.14 0.00 34.07 2.66
914 1022 3.257624 AGAGGACCACGAACGATAAAAGT 59.742 43.478 0.14 0.00 0.00 2.66
915 1023 3.846360 AGAGGACCACGAACGATAAAAG 58.154 45.455 0.14 0.00 0.00 2.27
916 1024 3.256383 TGAGAGGACCACGAACGATAAAA 59.744 43.478 0.14 0.00 0.00 1.52
917 1025 2.821378 TGAGAGGACCACGAACGATAAA 59.179 45.455 0.14 0.00 0.00 1.40
918 1026 2.439409 TGAGAGGACCACGAACGATAA 58.561 47.619 0.14 0.00 0.00 1.75
919 1027 2.118313 TGAGAGGACCACGAACGATA 57.882 50.000 0.14 0.00 0.00 2.92
920 1028 1.254026 TTGAGAGGACCACGAACGAT 58.746 50.000 0.14 0.00 0.00 3.73
921 1029 1.201647 GATTGAGAGGACCACGAACGA 59.798 52.381 0.14 0.00 0.00 3.85
922 1030 1.630148 GATTGAGAGGACCACGAACG 58.370 55.000 0.00 0.00 0.00 3.95
923 1031 1.736032 CGGATTGAGAGGACCACGAAC 60.736 57.143 0.00 0.00 0.00 3.95
924 1032 0.530744 CGGATTGAGAGGACCACGAA 59.469 55.000 0.00 0.00 0.00 3.85
925 1033 0.611062 ACGGATTGAGAGGACCACGA 60.611 55.000 0.00 0.00 0.00 4.35
926 1034 1.100510 TACGGATTGAGAGGACCACG 58.899 55.000 0.00 0.00 0.00 4.94
927 1035 3.385111 AGAATACGGATTGAGAGGACCAC 59.615 47.826 0.00 0.00 0.00 4.16
928 1036 3.643237 AGAATACGGATTGAGAGGACCA 58.357 45.455 0.00 0.00 0.00 4.02
929 1037 4.501743 GGAAGAATACGGATTGAGAGGACC 60.502 50.000 0.00 0.00 0.00 4.46
930 1038 4.099573 TGGAAGAATACGGATTGAGAGGAC 59.900 45.833 0.00 0.00 0.00 3.85
931 1039 4.286707 TGGAAGAATACGGATTGAGAGGA 58.713 43.478 0.00 0.00 0.00 3.71
932 1040 4.626042 CTGGAAGAATACGGATTGAGAGG 58.374 47.826 0.00 0.00 34.07 3.69
933 1041 4.054671 GCTGGAAGAATACGGATTGAGAG 58.945 47.826 0.00 0.00 34.07 3.20
934 1042 3.490933 CGCTGGAAGAATACGGATTGAGA 60.491 47.826 0.00 0.00 34.07 3.27
971 1104 0.188587 ATGGATCCGCTAGTCCCAGA 59.811 55.000 7.39 0.00 33.45 3.86
1022 1155 1.511768 GACGCGGAAGTAGAAGGCT 59.488 57.895 12.47 0.00 0.00 4.58
1057 1190 8.040132 AGAGGAAAACAAGTAGAGATCAAGATG 58.960 37.037 0.00 0.00 0.00 2.90
1062 1195 5.934625 GCAAGAGGAAAACAAGTAGAGATCA 59.065 40.000 0.00 0.00 0.00 2.92
1063 1196 6.091986 CAGCAAGAGGAAAACAAGTAGAGATC 59.908 42.308 0.00 0.00 0.00 2.75
1064 1197 5.936956 CAGCAAGAGGAAAACAAGTAGAGAT 59.063 40.000 0.00 0.00 0.00 2.75
1065 1198 5.163301 ACAGCAAGAGGAAAACAAGTAGAGA 60.163 40.000 0.00 0.00 0.00 3.10
1066 1199 5.059833 ACAGCAAGAGGAAAACAAGTAGAG 58.940 41.667 0.00 0.00 0.00 2.43
1067 1200 5.036117 ACAGCAAGAGGAAAACAAGTAGA 57.964 39.130 0.00 0.00 0.00 2.59
1070 1203 5.193679 AGTAACAGCAAGAGGAAAACAAGT 58.806 37.500 0.00 0.00 0.00 3.16
1088 1221 3.181457 GGCATAGGAAGGTGGGTAGTAAC 60.181 52.174 0.00 0.00 0.00 2.50
1116 1249 9.944376 GCCAGGTAATATCTGAACATAGAAATA 57.056 33.333 1.38 0.00 34.36 1.40
1122 1255 5.013079 CCCAGCCAGGTAATATCTGAACATA 59.987 44.000 1.38 0.00 34.36 2.29
1137 1270 2.102578 CAAATTCCTAACCCAGCCAGG 58.897 52.381 0.00 0.00 37.03 4.45
1139 1272 1.431243 ACCAAATTCCTAACCCAGCCA 59.569 47.619 0.00 0.00 0.00 4.75
1141 1274 3.694566 CAGTACCAAATTCCTAACCCAGC 59.305 47.826 0.00 0.00 0.00 4.85
1142 1275 3.694566 GCAGTACCAAATTCCTAACCCAG 59.305 47.826 0.00 0.00 0.00 4.45
1144 1277 3.692690 TGCAGTACCAAATTCCTAACCC 58.307 45.455 0.00 0.00 0.00 4.11
1146 1279 5.959618 AACTGCAGTACCAAATTCCTAAC 57.040 39.130 22.01 0.00 0.00 2.34
1168 1301 7.523709 GCTTCATTCCTACCATGACAAGAAAAA 60.524 37.037 0.00 0.00 30.09 1.94
1169 1302 6.071952 GCTTCATTCCTACCATGACAAGAAAA 60.072 38.462 0.00 0.00 30.09 2.29
1173 1306 4.264253 TGCTTCATTCCTACCATGACAAG 58.736 43.478 0.00 0.00 30.09 3.16
1176 1309 3.209410 CCTGCTTCATTCCTACCATGAC 58.791 50.000 0.00 0.00 30.09 3.06
1178 1311 1.952296 GCCTGCTTCATTCCTACCATG 59.048 52.381 0.00 0.00 0.00 3.66
1179 1312 1.565759 TGCCTGCTTCATTCCTACCAT 59.434 47.619 0.00 0.00 0.00 3.55
1202 1347 2.304180 AGGCAAACAGACAGCTATGACT 59.696 45.455 0.00 0.00 31.27 3.41
1204 1349 3.076621 CAAGGCAAACAGACAGCTATGA 58.923 45.455 0.00 0.00 0.00 2.15
1210 1355 2.159198 AGCAAACAAGGCAAACAGACAG 60.159 45.455 0.00 0.00 0.00 3.51
1230 1375 3.554934 TCAGGTTTATTATGGCAGGCAG 58.445 45.455 1.89 0.00 0.00 4.85
1234 1379 7.601856 TGAAAAGTTCAGGTTTATTATGGCAG 58.398 34.615 0.00 0.00 34.08 4.85
1269 1414 5.595814 AGTACGGAGGAAGGATAAGGATA 57.404 43.478 0.00 0.00 0.00 2.59
1270 1415 4.472690 AGTACGGAGGAAGGATAAGGAT 57.527 45.455 0.00 0.00 0.00 3.24
1271 1416 3.967467 AGTACGGAGGAAGGATAAGGA 57.033 47.619 0.00 0.00 0.00 3.36
1285 1430 4.985538 ATGAAGAAGACCAGTAGTACGG 57.014 45.455 8.92 8.92 0.00 4.02
1327 1472 0.608308 GGACCAAACCCTTCCTTCCG 60.608 60.000 0.00 0.00 0.00 4.30
1394 1540 8.248945 GGCATGCTTATATTTCTGCAGATTTAT 58.751 33.333 19.04 18.34 38.87 1.40
1452 4869 6.071334 AGGAATGTCAACTCTCGACTTGAATA 60.071 38.462 0.00 0.00 34.37 1.75
1519 4937 2.788786 GCCATTTAATCATTCGCGTTGG 59.211 45.455 5.77 0.00 0.00 3.77
1551 4969 4.798574 CAAGCAAGTTGGGTTCAGAATAC 58.201 43.478 4.75 0.00 31.82 1.89
1576 4994 0.517742 GGACGTTAATTGCACGACGC 60.518 55.000 16.37 0.00 40.20 5.19
1585 5003 4.441773 GGTGGGTTTTTGTGGACGTTAATT 60.442 41.667 0.00 0.00 0.00 1.40
1592 5010 1.472552 GCTTGGTGGGTTTTTGTGGAC 60.473 52.381 0.00 0.00 0.00 4.02
1603 5021 2.736531 GCAACTTGGCTTGGTGGG 59.263 61.111 0.00 0.00 0.00 4.61
1604 5022 1.684386 TTGGCAACTTGGCTTGGTGG 61.684 55.000 15.73 0.00 44.10 4.61
1778 5196 5.773176 TGATTGGCTATCGTCAACCTAGATA 59.227 40.000 4.54 0.00 37.61 1.98
2160 5578 1.000359 TGCCCTGAGATGTCCGAGA 60.000 57.895 0.00 0.00 0.00 4.04
2167 5585 0.818445 GTGCCATCTGCCCTGAGATG 60.818 60.000 5.06 5.06 46.20 2.90
2481 5900 0.962489 CTGACCTCACGGAGTCAAGT 59.038 55.000 0.00 0.00 41.61 3.16
2654 6073 6.711194 TCCATAAATTGTTTTCAGTACCGACA 59.289 34.615 0.00 0.00 0.00 4.35
2732 6151 1.600023 TCACAAAGTAAAGTGGCCCG 58.400 50.000 0.00 0.00 36.43 6.13
3188 6618 8.708742 CATGGTAATGATTGCAATGATCAATTC 58.291 33.333 18.59 0.52 37.11 2.17
3189 6619 7.172532 GCATGGTAATGATTGCAATGATCAATT 59.827 33.333 18.59 10.59 37.11 2.32
3190 6620 6.649141 GCATGGTAATGATTGCAATGATCAAT 59.351 34.615 18.59 5.48 37.11 2.57
3191 6621 5.986741 GCATGGTAATGATTGCAATGATCAA 59.013 36.000 18.59 3.18 37.11 2.57
3192 6622 5.510009 GGCATGGTAATGATTGCAATGATCA 60.510 40.000 18.59 10.39 37.86 2.92
3193 6623 4.927425 GGCATGGTAATGATTGCAATGATC 59.073 41.667 18.59 3.85 36.82 2.92
3194 6624 4.345547 TGGCATGGTAATGATTGCAATGAT 59.654 37.500 18.59 11.73 36.82 2.45
3195 6625 3.705072 TGGCATGGTAATGATTGCAATGA 59.295 39.130 18.59 9.34 36.82 2.57
3196 6626 4.055360 CTGGCATGGTAATGATTGCAATG 58.945 43.478 18.59 6.30 36.82 2.82
3197 6627 3.493699 GCTGGCATGGTAATGATTGCAAT 60.494 43.478 12.83 12.83 36.82 3.56
3198 6628 2.159071 GCTGGCATGGTAATGATTGCAA 60.159 45.455 0.00 0.00 36.82 4.08
3215 6645 2.289631 TGTCATCCACTGTGTAAGCTGG 60.290 50.000 7.08 0.00 0.00 4.85
3531 6961 1.249407 AGACCGTCACTCTTCTCACC 58.751 55.000 0.40 0.00 0.00 4.02
3707 7137 0.687354 TCCTTCTCTGTGCAACCTCC 59.313 55.000 0.00 0.00 34.36 4.30
3716 7146 1.830477 GTCTGATGCCTCCTTCTCTGT 59.170 52.381 0.00 0.00 0.00 3.41
3721 7151 1.522580 GCCGTCTGATGCCTCCTTC 60.523 63.158 0.00 0.00 0.00 3.46
4028 10311 6.002082 GTCCCAGAACTTGTAATAAGGTTGT 58.998 40.000 0.00 0.00 0.00 3.32
4082 10366 9.705290 GACATTTTGTCCCAAAACTTGTAATAT 57.295 29.630 4.41 0.00 41.37 1.28
4083 10367 8.696374 TGACATTTTGTCCCAAAACTTGTAATA 58.304 29.630 4.41 0.00 46.40 0.98
4084 10368 7.494298 GTGACATTTTGTCCCAAAACTTGTAAT 59.506 33.333 4.41 0.00 46.40 1.89
4085 10369 6.814146 GTGACATTTTGTCCCAAAACTTGTAA 59.186 34.615 4.41 0.00 46.40 2.41
4086 10370 6.334202 GTGACATTTTGTCCCAAAACTTGTA 58.666 36.000 4.41 0.00 46.40 2.41
4087 10371 5.175127 GTGACATTTTGTCCCAAAACTTGT 58.825 37.500 4.41 6.39 46.40 3.16
4088 10372 4.570369 GGTGACATTTTGTCCCAAAACTTG 59.430 41.667 4.41 3.58 46.40 3.16
4089 10373 4.469586 AGGTGACATTTTGTCCCAAAACTT 59.530 37.500 13.85 0.00 46.40 2.66
4090 10374 4.030216 AGGTGACATTTTGTCCCAAAACT 58.970 39.130 13.85 0.00 46.40 2.66
4091 10375 4.400529 AGGTGACATTTTGTCCCAAAAC 57.599 40.909 13.85 3.44 46.40 2.43
4092 10376 6.546428 TTAAGGTGACATTTTGTCCCAAAA 57.454 33.333 13.85 4.76 46.40 2.44
4093 10377 6.546428 TTTAAGGTGACATTTTGTCCCAAA 57.454 33.333 13.85 7.00 46.40 3.28
4094 10378 6.381420 TCTTTTAAGGTGACATTTTGTCCCAA 59.619 34.615 13.85 2.87 46.40 4.12
4095 10379 5.894393 TCTTTTAAGGTGACATTTTGTCCCA 59.106 36.000 13.85 0.00 46.40 4.37
4096 10380 6.183360 TGTCTTTTAAGGTGACATTTTGTCCC 60.183 38.462 5.27 6.21 46.40 4.46
4097 10381 6.801575 TGTCTTTTAAGGTGACATTTTGTCC 58.198 36.000 5.27 0.00 46.40 4.02
4099 10383 7.639113 TCTGTCTTTTAAGGTGACATTTTGT 57.361 32.000 0.00 0.00 39.55 2.83
4100 10384 8.925161 TTTCTGTCTTTTAAGGTGACATTTTG 57.075 30.769 0.00 0.00 39.55 2.44
4101 10385 9.936759 TTTTTCTGTCTTTTAAGGTGACATTTT 57.063 25.926 0.00 0.00 39.55 1.82
4103 10387 9.533253 CATTTTTCTGTCTTTTAAGGTGACATT 57.467 29.630 7.41 0.00 39.55 2.71
4104 10388 8.695456 ACATTTTTCTGTCTTTTAAGGTGACAT 58.305 29.630 7.41 0.00 39.55 3.06
4105 10389 8.062065 ACATTTTTCTGTCTTTTAAGGTGACA 57.938 30.769 0.00 0.00 38.24 3.58
4195 11904 1.666054 GAGCTCAAGAAGGCCATCAG 58.334 55.000 11.19 2.34 0.00 2.90
4241 11956 1.228245 GCTGCTCAAGGGTGGTGAA 60.228 57.895 0.00 0.00 0.00 3.18
4242 11957 1.708993 AAGCTGCTCAAGGGTGGTGA 61.709 55.000 1.00 0.00 0.00 4.02
4434 12416 0.038343 TGCCGAGCCAATTCTTTTGC 60.038 50.000 0.00 0.00 0.00 3.68
4458 12440 6.363065 AGATGAATTGCTTGATCCATACACT 58.637 36.000 0.00 0.00 0.00 3.55
4509 12491 1.461897 GACGACCAACCAATTACACCG 59.538 52.381 0.00 0.00 0.00 4.94
4513 12495 3.671716 AGGAAGACGACCAACCAATTAC 58.328 45.455 0.00 0.00 0.00 1.89
4532 12514 2.172717 CCATGGGTCCCTTGTAAGTAGG 59.827 54.545 19.80 2.05 0.00 3.18
4533 12515 3.112263 TCCATGGGTCCCTTGTAAGTAG 58.888 50.000 19.80 6.19 0.00 2.57
4534 12516 2.841881 GTCCATGGGTCCCTTGTAAGTA 59.158 50.000 19.80 0.00 0.00 2.24
4555 12539 7.080099 GGATCATCGATACAAATTTGGACATG 58.920 38.462 21.74 15.40 0.00 3.21
4575 12559 7.301420 AGTGATTAAGAGTAGGAGATGGATCA 58.699 38.462 0.00 0.00 0.00 2.92
4629 12613 5.047660 AGGAATCTCGTATACATGGAGAAGC 60.048 44.000 11.47 7.62 39.97 3.86
4635 12619 5.730296 AGGAAGGAATCTCGTATACATGG 57.270 43.478 3.32 0.00 0.00 3.66
4677 12661 4.060900 CCAAATACTATCTGCACAGCGAT 58.939 43.478 0.00 0.00 0.00 4.58
4678 12662 3.457234 CCAAATACTATCTGCACAGCGA 58.543 45.455 0.00 0.00 0.00 4.93
4679 12663 2.032549 GCCAAATACTATCTGCACAGCG 60.033 50.000 0.00 0.00 0.00 5.18
4680 12664 2.291741 GGCCAAATACTATCTGCACAGC 59.708 50.000 0.00 0.00 0.00 4.40
4681 12665 2.880890 GGGCCAAATACTATCTGCACAG 59.119 50.000 4.39 0.00 0.00 3.66
4682 12666 2.744823 CGGGCCAAATACTATCTGCACA 60.745 50.000 4.39 0.00 0.00 4.57
4683 12667 1.873591 CGGGCCAAATACTATCTGCAC 59.126 52.381 4.39 0.00 0.00 4.57
4684 12668 1.488812 ACGGGCCAAATACTATCTGCA 59.511 47.619 4.39 0.00 0.00 4.41
4685 12669 2.256117 ACGGGCCAAATACTATCTGC 57.744 50.000 4.39 0.00 0.00 4.26
4686 12670 4.510340 GTGTTACGGGCCAAATACTATCTG 59.490 45.833 4.39 0.00 0.00 2.90
4687 12671 4.443881 GGTGTTACGGGCCAAATACTATCT 60.444 45.833 4.39 0.00 0.00 1.98
4688 12672 3.811497 GGTGTTACGGGCCAAATACTATC 59.189 47.826 4.39 0.00 0.00 2.08
4689 12673 3.434024 GGGTGTTACGGGCCAAATACTAT 60.434 47.826 4.39 0.00 0.00 2.12
4690 12674 2.093021 GGGTGTTACGGGCCAAATACTA 60.093 50.000 4.39 0.00 0.00 1.82
4691 12675 1.340308 GGGTGTTACGGGCCAAATACT 60.340 52.381 4.39 0.00 0.00 2.12
4692 12676 1.097232 GGGTGTTACGGGCCAAATAC 58.903 55.000 4.39 5.64 0.00 1.89
4693 12677 0.697079 TGGGTGTTACGGGCCAAATA 59.303 50.000 4.39 0.00 0.00 1.40
4694 12678 0.040499 ATGGGTGTTACGGGCCAAAT 59.960 50.000 4.39 0.00 0.00 2.32
4695 12679 0.896019 CATGGGTGTTACGGGCCAAA 60.896 55.000 4.39 0.00 0.00 3.28
4696 12680 1.303724 CATGGGTGTTACGGGCCAA 60.304 57.895 4.39 0.00 0.00 4.52
4697 12681 2.353189 CATGGGTGTTACGGGCCA 59.647 61.111 4.39 0.00 0.00 5.36
4698 12682 3.138128 GCATGGGTGTTACGGGCC 61.138 66.667 0.00 0.00 0.00 5.80
4699 12683 2.360600 TGCATGGGTGTTACGGGC 60.361 61.111 0.00 0.00 0.00 6.13
4700 12684 1.302913 TGTGCATGGGTGTTACGGG 60.303 57.895 0.00 0.00 0.00 5.28
4701 12685 0.886938 TGTGTGCATGGGTGTTACGG 60.887 55.000 0.00 0.00 0.00 4.02
4702 12686 0.516877 CTGTGTGCATGGGTGTTACG 59.483 55.000 0.00 0.00 0.00 3.18
4703 12687 0.881118 CCTGTGTGCATGGGTGTTAC 59.119 55.000 0.00 0.00 0.00 2.50
4704 12688 0.251121 CCCTGTGTGCATGGGTGTTA 60.251 55.000 8.35 0.00 36.32 2.41
4705 12689 1.531365 CCCTGTGTGCATGGGTGTT 60.531 57.895 8.35 0.00 36.32 3.32
4706 12690 2.005606 TTCCCTGTGTGCATGGGTGT 62.006 55.000 14.01 0.00 41.58 4.16
4707 12691 1.228521 TTCCCTGTGTGCATGGGTG 60.229 57.895 14.01 0.00 41.58 4.61
4708 12692 1.075482 CTTCCCTGTGTGCATGGGT 59.925 57.895 14.01 0.00 41.58 4.51
4709 12693 0.033796 ATCTTCCCTGTGTGCATGGG 60.034 55.000 9.80 9.80 42.20 4.00
4710 12694 1.100510 CATCTTCCCTGTGTGCATGG 58.899 55.000 0.00 0.00 0.00 3.66
4711 12695 1.100510 CCATCTTCCCTGTGTGCATG 58.899 55.000 0.00 0.00 0.00 4.06
4712 12696 0.033796 CCCATCTTCCCTGTGTGCAT 60.034 55.000 0.00 0.00 0.00 3.96
4713 12697 1.379916 CCCATCTTCCCTGTGTGCA 59.620 57.895 0.00 0.00 0.00 4.57
4714 12698 1.379044 CCCCATCTTCCCTGTGTGC 60.379 63.158 0.00 0.00 0.00 4.57
4715 12699 0.322816 CACCCCATCTTCCCTGTGTG 60.323 60.000 0.00 0.00 0.00 3.82
4716 12700 1.500783 CCACCCCATCTTCCCTGTGT 61.501 60.000 0.00 0.00 0.00 3.72
4717 12701 1.304282 CCACCCCATCTTCCCTGTG 59.696 63.158 0.00 0.00 0.00 3.66
4718 12702 1.151587 ACCACCCCATCTTCCCTGT 60.152 57.895 0.00 0.00 0.00 4.00
4719 12703 1.207488 TGACCACCCCATCTTCCCTG 61.207 60.000 0.00 0.00 0.00 4.45
4720 12704 0.477597 TTGACCACCCCATCTTCCCT 60.478 55.000 0.00 0.00 0.00 4.20
4721 12705 0.631212 ATTGACCACCCCATCTTCCC 59.369 55.000 0.00 0.00 0.00 3.97
4722 12706 3.662759 TTATTGACCACCCCATCTTCC 57.337 47.619 0.00 0.00 0.00 3.46
4723 12707 3.815401 CGATTATTGACCACCCCATCTTC 59.185 47.826 0.00 0.00 0.00 2.87
4724 12708 3.202151 ACGATTATTGACCACCCCATCTT 59.798 43.478 0.00 0.00 0.00 2.40
4725 12709 2.777692 ACGATTATTGACCACCCCATCT 59.222 45.455 0.00 0.00 0.00 2.90
4726 12710 3.139077 GACGATTATTGACCACCCCATC 58.861 50.000 0.00 0.00 0.00 3.51
4727 12711 2.507886 TGACGATTATTGACCACCCCAT 59.492 45.455 0.00 0.00 0.00 4.00
4728 12712 1.909986 TGACGATTATTGACCACCCCA 59.090 47.619 0.00 0.00 0.00 4.96
4729 12713 2.681344 GTTGACGATTATTGACCACCCC 59.319 50.000 0.00 0.00 0.00 4.95
4730 12714 2.681344 GGTTGACGATTATTGACCACCC 59.319 50.000 0.00 0.00 0.00 4.61
4731 12715 2.681344 GGGTTGACGATTATTGACCACC 59.319 50.000 0.00 0.00 0.00 4.61
4732 12716 3.374058 CAGGGTTGACGATTATTGACCAC 59.626 47.826 0.00 0.00 0.00 4.16
4733 12717 3.008594 ACAGGGTTGACGATTATTGACCA 59.991 43.478 0.00 0.00 0.00 4.02
4734 12718 3.606687 ACAGGGTTGACGATTATTGACC 58.393 45.455 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.