Multiple sequence alignment - TraesCS7A01G116600

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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 TraesCS7A01G116600 chr7A 100.000 2333 0 0 1 2333 74611772 74609440 0.000000e+00 4309.0
1 TraesCS7A01G116600 chr7A 85.776 696 52 25 760 1448 70893977 70894632 0.000000e+00 693.0
2 TraesCS7A01G116600 chr7A 84.697 758 46 20 773 1523 71110047 71110741 0.000000e+00 693.0
3 TraesCS7A01G116600 chr7A 90.617 405 31 3 935 1338 74596541 74596143 4.410000e-147 531.0
4 TraesCS7A01G116600 chr7A 95.033 302 15 0 952 1253 71118669 71118970 2.100000e-130 475.0
5 TraesCS7A01G116600 chr7A 86.099 446 37 12 157 601 70892759 70893180 7.600000e-125 457.0
6 TraesCS7A01G116600 chr7A 89.744 156 12 3 1586 1737 16242042 16241887 1.830000e-46 196.0
7 TraesCS7A01G116600 chr7A 88.710 124 13 1 2019 2142 448478482 448478360 1.440000e-32 150.0
8 TraesCS7A01G116600 chr7A 94.915 59 3 0 772 830 71118523 71118581 2.470000e-15 93.5
9 TraesCS7A01G116600 chr5B 99.733 748 2 0 1586 2333 600507092 600507839 0.000000e+00 1371.0
10 TraesCS7A01G116600 chr6B 98.935 751 7 1 1584 2333 45788058 45787308 0.000000e+00 1341.0
11 TraesCS7A01G116600 chr7D 88.024 1002 57 19 566 1566 68935533 68934594 0.000000e+00 1127.0
12 TraesCS7A01G116600 chr7D 91.562 794 43 8 773 1566 66484564 66485333 0.000000e+00 1074.0
13 TraesCS7A01G116600 chr7D 85.940 633 39 19 975 1582 66513486 66514093 4.230000e-177 630.0
14 TraesCS7A01G116600 chr7D 92.233 412 22 6 157 566 68980747 68980344 2.010000e-160 575.0
15 TraesCS7A01G116600 chr7D 85.206 534 55 14 974 1507 68806005 68805496 5.710000e-146 527.0
16 TraesCS7A01G116600 chr7D 88.312 154 18 0 1 154 529979080 529978927 3.960000e-43 185.0
17 TraesCS7A01G116600 chr7D 93.023 43 3 0 696 738 66484520 66484562 1.940000e-06 63.9
18 TraesCS7A01G116600 chr7B 88.684 760 42 10 686 1422 7727578 7728316 0.000000e+00 887.0
19 TraesCS7A01G116600 chr7B 90.988 577 23 11 778 1331 10241767 10241197 0.000000e+00 750.0
20 TraesCS7A01G116600 chr7B 93.478 46 3 0 638 683 7725883 7725928 4.160000e-08 69.4
21 TraesCS7A01G116600 chr4B 98.370 368 6 0 1966 2333 148928851 148928484 0.000000e+00 647.0
22 TraesCS7A01G116600 chr4B 94.444 414 21 1 1585 1996 148929350 148928937 9.090000e-179 636.0
23 TraesCS7A01G116600 chr4B 85.350 157 21 2 1 155 531584358 531584514 6.670000e-36 161.0
24 TraesCS7A01G116600 chr1D 85.537 643 55 18 699 1338 486922205 486922812 2.530000e-179 638.0
25 TraesCS7A01G116600 chr1D 86.364 110 11 2 1474 1583 486922912 486923017 1.460000e-22 117.0
26 TraesCS7A01G116600 chr1D 78.788 99 19 2 1575 1672 304630210 304630113 5.380000e-07 65.8
27 TraesCS7A01G116600 chr4D 97.283 368 10 0 1966 2333 299139264 299139631 1.970000e-175 625.0
28 TraesCS7A01G116600 chr4D 87.137 241 11 2 1735 1975 299138935 299139155 2.980000e-64 255.0
29 TraesCS7A01G116600 chr4D 95.455 154 5 1 1586 1737 299138818 299138971 6.440000e-61 244.0
30 TraesCS7A01G116600 chr2D 96.467 368 13 0 1966 2333 53364088 53364455 1.980000e-170 608.0
31 TraesCS7A01G116600 chr2D 87.137 241 11 2 1735 1975 53363757 53363977 2.980000e-64 255.0
32 TraesCS7A01G116600 chr2D 96.711 152 5 0 1586 1737 53363642 53363793 1.070000e-63 254.0
33 TraesCS7A01G116600 chr2D 88.608 158 15 3 1583 1737 391384841 391384998 3.060000e-44 189.0
34 TraesCS7A01G116600 chr2D 88.387 155 18 0 1 155 487927701 487927547 1.100000e-43 187.0
35 TraesCS7A01G116600 chr3B 86.179 369 42 8 1966 2333 762602735 762602375 7.820000e-105 390.0
36 TraesCS7A01G116600 chr3B 88.387 155 18 0 1 155 47200734 47200888 1.100000e-43 187.0
37 TraesCS7A01G116600 chr2A 85.714 308 34 8 2010 2317 754043391 754043688 1.350000e-82 316.0
38 TraesCS7A01G116600 chr2A 88.442 199 18 5 2132 2329 38395230 38395424 3.880000e-58 235.0
39 TraesCS7A01G116600 chr2B 80.928 388 45 15 1966 2333 794550262 794550640 1.770000e-71 279.0
40 TraesCS7A01G116600 chr2B 84.252 127 20 0 1735 1861 111465043 111465169 8.750000e-25 124.0
41 TraesCS7A01G116600 chr6A 88.265 196 18 5 2132 2326 63832304 63832495 1.800000e-56 230.0
42 TraesCS7A01G116600 chr1B 87.097 155 13 4 1586 1736 376613378 376613227 3.990000e-38 169.0
43 TraesCS7A01G116600 chr1B 79.503 161 23 7 1 155 401815789 401815633 3.170000e-19 106.0
44 TraesCS7A01G116600 chrUn 86.719 128 17 0 1735 1862 280985842 280985969 2.420000e-30 143.0
45 TraesCS7A01G116600 chrUn 86.719 128 17 0 1735 1862 281013671 281013798 2.420000e-30 143.0
46 TraesCS7A01G116600 chrUn 86.719 128 17 0 1735 1862 346329930 346329803 2.420000e-30 143.0


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 TraesCS7A01G116600 chr7A 74609440 74611772 2332 True 4309.000000 4309 100.000000 1 2333 1 chr7A.!!$R3 2332
1 TraesCS7A01G116600 chr7A 71110047 71110741 694 False 693.000000 693 84.697000 773 1523 1 chr7A.!!$F1 750
2 TraesCS7A01G116600 chr7A 70892759 70894632 1873 False 575.000000 693 85.937500 157 1448 2 chr7A.!!$F2 1291
3 TraesCS7A01G116600 chr5B 600507092 600507839 747 False 1371.000000 1371 99.733000 1586 2333 1 chr5B.!!$F1 747
4 TraesCS7A01G116600 chr6B 45787308 45788058 750 True 1341.000000 1341 98.935000 1584 2333 1 chr6B.!!$R1 749
5 TraesCS7A01G116600 chr7D 68934594 68935533 939 True 1127.000000 1127 88.024000 566 1566 1 chr7D.!!$R2 1000
6 TraesCS7A01G116600 chr7D 66513486 66514093 607 False 630.000000 630 85.940000 975 1582 1 chr7D.!!$F1 607
7 TraesCS7A01G116600 chr7D 66484520 66485333 813 False 568.950000 1074 92.292500 696 1566 2 chr7D.!!$F2 870
8 TraesCS7A01G116600 chr7D 68805496 68806005 509 True 527.000000 527 85.206000 974 1507 1 chr7D.!!$R1 533
9 TraesCS7A01G116600 chr7B 10241197 10241767 570 True 750.000000 750 90.988000 778 1331 1 chr7B.!!$R1 553
10 TraesCS7A01G116600 chr7B 7725883 7728316 2433 False 478.200000 887 91.081000 638 1422 2 chr7B.!!$F1 784
11 TraesCS7A01G116600 chr4B 148928484 148929350 866 True 641.500000 647 96.407000 1585 2333 2 chr4B.!!$R1 748
12 TraesCS7A01G116600 chr1D 486922205 486923017 812 False 377.500000 638 85.950500 699 1583 2 chr1D.!!$F1 884
13 TraesCS7A01G116600 chr4D 299138818 299139631 813 False 374.666667 625 93.291667 1586 2333 3 chr4D.!!$F1 747
14 TraesCS7A01G116600 chr2D 53363642 53364455 813 False 372.333333 608 93.438333 1586 2333 3 chr2D.!!$F2 747

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
60 61 0.029567 CTCGTAGCTGGCTAGAACCG 59.97 60.0 0.0 3.67 0.0 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1365 3484 0.107703 GATTGAGGGTGCATCGACCA 60.108 55.0 0.0 0.0 37.8 4.02 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
18 19 2.161831 CAGTCAGGCGCGATTTTCA 58.838 52.632 12.10 0.00 0.00 2.69
19 20 0.179215 CAGTCAGGCGCGATTTTCAC 60.179 55.000 12.10 0.00 0.00 3.18
20 21 1.134694 GTCAGGCGCGATTTTCACC 59.865 57.895 12.10 0.00 0.00 4.02
21 22 1.302112 TCAGGCGCGATTTTCACCA 60.302 52.632 12.10 0.00 0.00 4.17
22 23 0.886938 TCAGGCGCGATTTTCACCAA 60.887 50.000 12.10 0.00 0.00 3.67
23 24 0.039617 CAGGCGCGATTTTCACCAAA 60.040 50.000 12.10 0.00 0.00 3.28
24 25 0.671251 AGGCGCGATTTTCACCAAAA 59.329 45.000 12.10 0.00 35.92 2.44
25 26 1.059942 GGCGCGATTTTCACCAAAAG 58.940 50.000 12.10 0.00 34.92 2.27
26 27 0.434628 GCGCGATTTTCACCAAAAGC 59.565 50.000 12.10 0.00 34.92 3.51
27 28 1.059942 CGCGATTTTCACCAAAAGCC 58.940 50.000 0.00 0.00 34.91 4.35
28 29 1.601663 CGCGATTTTCACCAAAAGCCA 60.602 47.619 0.00 0.00 34.91 4.75
29 30 1.792367 GCGATTTTCACCAAAAGCCAC 59.208 47.619 0.00 0.00 34.91 5.01
30 31 2.050691 CGATTTTCACCAAAAGCCACG 58.949 47.619 0.00 0.00 34.91 4.94
31 32 2.542824 CGATTTTCACCAAAAGCCACGT 60.543 45.455 0.00 0.00 34.91 4.49
32 33 2.570442 TTTTCACCAAAAGCCACGTC 57.430 45.000 0.00 0.00 0.00 4.34
33 34 0.378962 TTTCACCAAAAGCCACGTCG 59.621 50.000 0.00 0.00 0.00 5.12
34 35 0.745128 TTCACCAAAAGCCACGTCGT 60.745 50.000 0.00 0.00 0.00 4.34
35 36 1.155424 TCACCAAAAGCCACGTCGTC 61.155 55.000 0.00 0.00 0.00 4.20
36 37 1.890510 ACCAAAAGCCACGTCGTCC 60.891 57.895 0.00 0.00 0.00 4.79
37 38 2.613506 CCAAAAGCCACGTCGTCCC 61.614 63.158 0.00 0.00 0.00 4.46
38 39 1.890041 CAAAAGCCACGTCGTCCCA 60.890 57.895 0.00 0.00 0.00 4.37
39 40 1.153127 AAAAGCCACGTCGTCCCAA 60.153 52.632 0.00 0.00 0.00 4.12
40 41 0.536460 AAAAGCCACGTCGTCCCAAT 60.536 50.000 0.00 0.00 0.00 3.16
41 42 0.953960 AAAGCCACGTCGTCCCAATC 60.954 55.000 0.00 0.00 0.00 2.67
42 43 1.827399 AAGCCACGTCGTCCCAATCT 61.827 55.000 0.00 0.00 0.00 2.40
43 44 1.810030 GCCACGTCGTCCCAATCTC 60.810 63.158 0.00 0.00 0.00 2.75
44 45 1.516386 CCACGTCGTCCCAATCTCG 60.516 63.158 0.00 0.00 0.00 4.04
45 46 1.211969 CACGTCGTCCCAATCTCGT 59.788 57.895 0.00 0.00 0.00 4.18
46 47 0.448990 CACGTCGTCCCAATCTCGTA 59.551 55.000 0.00 0.00 0.00 3.43
47 48 0.731417 ACGTCGTCCCAATCTCGTAG 59.269 55.000 0.00 0.00 0.00 3.51
48 49 0.591741 CGTCGTCCCAATCTCGTAGC 60.592 60.000 0.00 0.00 0.00 3.58
49 50 0.739561 GTCGTCCCAATCTCGTAGCT 59.260 55.000 0.00 0.00 0.00 3.32
50 51 0.738975 TCGTCCCAATCTCGTAGCTG 59.261 55.000 0.00 0.00 0.00 4.24
51 52 0.249073 CGTCCCAATCTCGTAGCTGG 60.249 60.000 0.00 0.00 0.00 4.85
52 53 0.530870 GTCCCAATCTCGTAGCTGGC 60.531 60.000 0.00 0.00 0.00 4.85
53 54 0.687757 TCCCAATCTCGTAGCTGGCT 60.688 55.000 0.00 0.00 0.00 4.75
54 55 1.040646 CCCAATCTCGTAGCTGGCTA 58.959 55.000 0.00 0.00 0.00 3.93
55 56 1.000283 CCCAATCTCGTAGCTGGCTAG 60.000 57.143 0.00 0.00 0.00 3.42
56 57 1.957177 CCAATCTCGTAGCTGGCTAGA 59.043 52.381 0.00 0.00 0.00 2.43
57 58 2.362397 CCAATCTCGTAGCTGGCTAGAA 59.638 50.000 0.00 0.00 0.00 2.10
58 59 3.376540 CAATCTCGTAGCTGGCTAGAAC 58.623 50.000 0.00 0.00 0.00 3.01
59 60 1.390565 TCTCGTAGCTGGCTAGAACC 58.609 55.000 0.00 0.00 0.00 3.62
60 61 0.029567 CTCGTAGCTGGCTAGAACCG 59.970 60.000 0.00 3.67 0.00 4.44
61 62 0.393402 TCGTAGCTGGCTAGAACCGA 60.393 55.000 0.00 5.86 0.00 4.69
62 63 0.029567 CGTAGCTGGCTAGAACCGAG 59.970 60.000 0.00 0.00 0.00 4.63
63 64 0.249114 GTAGCTGGCTAGAACCGAGC 60.249 60.000 0.00 0.00 39.33 5.03
64 65 0.683179 TAGCTGGCTAGAACCGAGCA 60.683 55.000 0.00 0.00 41.98 4.26
65 66 1.520342 GCTGGCTAGAACCGAGCAG 60.520 63.158 0.00 0.00 41.98 4.24
66 67 1.949847 GCTGGCTAGAACCGAGCAGA 61.950 60.000 0.00 0.00 41.98 4.26
67 68 0.102120 CTGGCTAGAACCGAGCAGAG 59.898 60.000 0.00 0.00 41.98 3.35
68 69 1.227118 GGCTAGAACCGAGCAGAGC 60.227 63.158 0.00 0.00 41.98 4.09
69 70 1.227118 GCTAGAACCGAGCAGAGCC 60.227 63.158 0.00 0.00 39.84 4.70
70 71 1.671901 GCTAGAACCGAGCAGAGCCT 61.672 60.000 0.00 0.00 39.84 4.58
71 72 0.383949 CTAGAACCGAGCAGAGCCTC 59.616 60.000 0.00 0.00 0.00 4.70
79 80 4.742201 GCAGAGCCTCGCCACGAA 62.742 66.667 0.00 0.00 34.74 3.85
80 81 2.507992 CAGAGCCTCGCCACGAAG 60.508 66.667 0.00 0.00 34.74 3.79
81 82 2.676822 AGAGCCTCGCCACGAAGA 60.677 61.111 0.00 0.00 34.74 2.87
82 83 2.507324 GAGCCTCGCCACGAAGAC 60.507 66.667 0.00 0.00 34.74 3.01
83 84 4.421479 AGCCTCGCCACGAAGACG 62.421 66.667 0.00 0.00 45.75 4.18
84 85 4.415332 GCCTCGCCACGAAGACGA 62.415 66.667 0.00 0.00 42.66 4.20
85 86 2.257371 CCTCGCCACGAAGACGAA 59.743 61.111 0.00 0.00 42.66 3.85
86 87 1.153823 CCTCGCCACGAAGACGAAT 60.154 57.895 0.00 0.00 42.66 3.34
87 88 0.099968 CCTCGCCACGAAGACGAATA 59.900 55.000 0.00 0.00 42.66 1.75
88 89 1.189403 CTCGCCACGAAGACGAATAC 58.811 55.000 0.00 0.00 42.66 1.89
89 90 0.179156 TCGCCACGAAGACGAATACC 60.179 55.000 0.00 0.00 42.66 2.73
90 91 1.469126 CGCCACGAAGACGAATACCG 61.469 60.000 0.00 0.00 42.66 4.02
115 116 0.317479 GGTAATCCGGTGGAGATCCG 59.683 60.000 0.00 0.00 46.49 4.18
116 117 1.038280 GTAATCCGGTGGAGATCCGT 58.962 55.000 0.00 0.00 45.63 4.69
117 118 1.000496 GTAATCCGGTGGAGATCCGTC 60.000 57.143 0.00 0.00 45.63 4.79
118 119 0.686441 AATCCGGTGGAGATCCGTCA 60.686 55.000 0.00 0.00 45.63 4.35
119 120 0.470080 ATCCGGTGGAGATCCGTCAT 60.470 55.000 0.00 0.00 45.63 3.06
120 121 1.107538 TCCGGTGGAGATCCGTCATC 61.108 60.000 0.00 0.00 45.63 2.92
121 122 1.109920 CCGGTGGAGATCCGTCATCT 61.110 60.000 0.00 0.00 45.41 2.90
128 129 1.698506 AGATCCGTCATCTCCTCACC 58.301 55.000 0.00 0.00 37.24 4.02
129 130 1.063642 AGATCCGTCATCTCCTCACCA 60.064 52.381 0.00 0.00 37.24 4.17
130 131 1.339610 GATCCGTCATCTCCTCACCAG 59.660 57.143 0.00 0.00 0.00 4.00
131 132 0.039764 TCCGTCATCTCCTCACCAGT 59.960 55.000 0.00 0.00 0.00 4.00
132 133 0.898320 CCGTCATCTCCTCACCAGTT 59.102 55.000 0.00 0.00 0.00 3.16
133 134 1.134965 CCGTCATCTCCTCACCAGTTC 60.135 57.143 0.00 0.00 0.00 3.01
134 135 1.134965 CGTCATCTCCTCACCAGTTCC 60.135 57.143 0.00 0.00 0.00 3.62
135 136 2.183679 GTCATCTCCTCACCAGTTCCT 58.816 52.381 0.00 0.00 0.00 3.36
136 137 2.167487 GTCATCTCCTCACCAGTTCCTC 59.833 54.545 0.00 0.00 0.00 3.71
137 138 1.484240 CATCTCCTCACCAGTTCCTCC 59.516 57.143 0.00 0.00 0.00 4.30
138 139 0.487325 TCTCCTCACCAGTTCCTCCA 59.513 55.000 0.00 0.00 0.00 3.86
139 140 0.610687 CTCCTCACCAGTTCCTCCAC 59.389 60.000 0.00 0.00 0.00 4.02
140 141 1.185618 TCCTCACCAGTTCCTCCACG 61.186 60.000 0.00 0.00 0.00 4.94
141 142 1.374758 CTCACCAGTTCCTCCACGC 60.375 63.158 0.00 0.00 0.00 5.34
142 143 2.738521 CACCAGTTCCTCCACGCG 60.739 66.667 3.53 3.53 0.00 6.01
143 144 4.681978 ACCAGTTCCTCCACGCGC 62.682 66.667 5.73 0.00 0.00 6.86
174 175 3.623510 GGCTACATGGTGCTAGACTTTTC 59.376 47.826 11.08 0.00 0.00 2.29
175 176 3.623510 GCTACATGGTGCTAGACTTTTCC 59.376 47.826 0.00 0.00 0.00 3.13
208 209 1.062587 CGAAAACAAGGCGCTAGATGG 59.937 52.381 7.64 0.00 0.00 3.51
276 277 6.237901 GGGGGCTTCAAATTTTAACTGAAAT 58.762 36.000 0.00 0.00 0.00 2.17
290 291 2.031314 ACTGAAATGAATGCTCATCGCG 59.969 45.455 0.00 0.00 41.66 5.87
311 312 4.735662 GCCAATGGCGTTAATATACGAA 57.264 40.909 9.14 0.00 43.99 3.85
312 313 5.291293 GCCAATGGCGTTAATATACGAAT 57.709 39.130 9.14 0.00 43.99 3.34
313 314 5.695818 GCCAATGGCGTTAATATACGAATT 58.304 37.500 9.14 0.00 43.99 2.17
314 315 5.567534 GCCAATGGCGTTAATATACGAATTG 59.432 40.000 9.14 14.11 43.99 2.32
325 326 5.907197 ATATACGAATTGCAACCGAGAAG 57.093 39.130 24.12 6.28 0.00 2.85
326 327 0.517316 ACGAATTGCAACCGAGAAGC 59.483 50.000 24.12 0.00 0.00 3.86
327 328 0.798776 CGAATTGCAACCGAGAAGCT 59.201 50.000 15.49 0.00 0.00 3.74
333 334 4.846779 TTGCAACCGAGAAGCTAAAAAT 57.153 36.364 0.00 0.00 0.00 1.82
353 354 2.367030 TTGCTGAAAATTCATGGGCG 57.633 45.000 0.00 0.00 36.46 6.13
356 357 1.202114 GCTGAAAATTCATGGGCGTCA 59.798 47.619 0.00 0.00 36.46 4.35
357 358 2.352617 GCTGAAAATTCATGGGCGTCAA 60.353 45.455 0.00 0.00 36.46 3.18
358 359 3.860378 GCTGAAAATTCATGGGCGTCAAA 60.860 43.478 0.00 0.00 36.46 2.69
359 360 3.648009 TGAAAATTCATGGGCGTCAAAC 58.352 40.909 0.00 0.00 31.01 2.93
360 361 2.741759 AAATTCATGGGCGTCAAACC 57.258 45.000 0.00 0.00 0.00 3.27
361 362 0.525761 AATTCATGGGCGTCAAACCG 59.474 50.000 0.00 0.00 0.00 4.44
362 363 0.608035 ATTCATGGGCGTCAAACCGT 60.608 50.000 0.00 0.00 0.00 4.83
367 368 1.376295 GGGCGTCAAACCGTACCAT 60.376 57.895 0.00 0.00 0.00 3.55
370 371 1.435577 GCGTCAAACCGTACCATCTT 58.564 50.000 0.00 0.00 0.00 2.40
373 374 2.410730 CGTCAAACCGTACCATCTTCAC 59.589 50.000 0.00 0.00 0.00 3.18
378 379 2.253610 ACCGTACCATCTTCACTTCCA 58.746 47.619 0.00 0.00 0.00 3.53
401 402 2.092323 GTGGGACTAAAGATTGCACCC 58.908 52.381 0.00 0.00 36.72 4.61
421 422 1.030457 CCATCTCTTGCCATTCCTGC 58.970 55.000 0.00 0.00 0.00 4.85
422 423 1.409802 CCATCTCTTGCCATTCCTGCT 60.410 52.381 0.00 0.00 0.00 4.24
423 424 2.376109 CATCTCTTGCCATTCCTGCTT 58.624 47.619 0.00 0.00 0.00 3.91
424 425 2.592102 TCTCTTGCCATTCCTGCTTT 57.408 45.000 0.00 0.00 0.00 3.51
484 485 6.524101 TTGTCCAAGCCCATTAATTCTAAC 57.476 37.500 0.00 0.00 0.00 2.34
490 491 7.556275 TCCAAGCCCATTAATTCTAACAAGTAG 59.444 37.037 0.00 0.00 0.00 2.57
495 496 9.609346 GCCCATTAATTCTAACAAGTAGAGTTA 57.391 33.333 0.00 0.00 40.04 2.24
506 507 6.578163 ACAAGTAGAGTTAGAGGACTCAAC 57.422 41.667 7.66 4.71 46.69 3.18
508 509 5.258216 AGTAGAGTTAGAGGACTCAACCA 57.742 43.478 7.66 0.00 46.69 3.67
511 512 3.772025 AGAGTTAGAGGACTCAACCATGG 59.228 47.826 11.19 11.19 46.69 3.66
512 513 3.769844 GAGTTAGAGGACTCAACCATGGA 59.230 47.826 21.47 0.00 44.30 3.41
513 514 3.772025 AGTTAGAGGACTCAACCATGGAG 59.228 47.826 21.47 8.22 38.36 3.86
514 515 1.577736 AGAGGACTCAACCATGGAGG 58.422 55.000 21.47 10.04 45.67 4.30
515 516 1.079490 AGAGGACTCAACCATGGAGGA 59.921 52.381 21.47 14.05 41.22 3.71
516 517 1.208293 GAGGACTCAACCATGGAGGAC 59.792 57.143 21.47 2.98 41.22 3.85
517 518 1.203364 AGGACTCAACCATGGAGGACT 60.203 52.381 21.47 5.34 41.22 3.85
518 519 1.208293 GGACTCAACCATGGAGGACTC 59.792 57.143 21.47 12.48 41.22 3.36
519 520 0.898320 ACTCAACCATGGAGGACTCG 59.102 55.000 21.47 6.21 41.22 4.18
520 521 0.176680 CTCAACCATGGAGGACTCGG 59.823 60.000 21.47 0.00 41.22 4.63
521 522 0.252057 TCAACCATGGAGGACTCGGA 60.252 55.000 21.47 0.69 41.22 4.55
522 523 0.108138 CAACCATGGAGGACTCGGAC 60.108 60.000 21.47 0.00 41.22 4.79
523 524 0.252284 AACCATGGAGGACTCGGACT 60.252 55.000 21.47 0.00 41.22 3.85
524 525 0.252284 ACCATGGAGGACTCGGACTT 60.252 55.000 21.47 0.00 41.22 3.01
563 564 2.203394 GGCCATCGGTGATGCCAT 60.203 61.111 10.70 0.00 38.59 4.40
612 613 0.108992 GACTCGATTGTGCCGTGGTA 60.109 55.000 0.00 0.00 0.00 3.25
613 614 0.535335 ACTCGATTGTGCCGTGGTAT 59.465 50.000 0.00 0.00 0.00 2.73
615 616 0.248012 TCGATTGTGCCGTGGTATGT 59.752 50.000 0.00 0.00 0.00 2.29
616 617 0.373370 CGATTGTGCCGTGGTATGTG 59.627 55.000 0.00 0.00 0.00 3.21
617 618 0.098728 GATTGTGCCGTGGTATGTGC 59.901 55.000 0.00 0.00 0.00 4.57
729 2377 4.189188 CGTAGCCCAGACGGACGG 62.189 72.222 0.00 0.00 36.66 4.79
738 2454 3.138798 GACGGACGGGCTAGCTCA 61.139 66.667 16.47 0.00 0.00 4.26
808 2862 3.560251 CCAGAATCCGGCCCCGAT 61.560 66.667 8.54 0.00 42.83 4.18
876 2940 0.468214 TCGGAGTGGGCAGATCCTAG 60.468 60.000 0.00 0.00 34.39 3.02
877 2941 1.467678 CGGAGTGGGCAGATCCTAGG 61.468 65.000 0.82 0.82 34.39 3.02
878 2942 1.124477 GGAGTGGGCAGATCCTAGGG 61.124 65.000 9.46 0.00 34.39 3.53
965 3043 1.503542 GCATCAAGTTGTGCTCCCG 59.496 57.895 17.70 0.00 38.30 5.14
1365 3484 5.649782 ATTCGAGTTTGCTTTCATGGATT 57.350 34.783 0.00 0.00 0.00 3.01
1373 3492 2.684374 TGCTTTCATGGATTGGTCGATG 59.316 45.455 0.00 0.00 40.66 3.84
1376 3495 1.667236 TCATGGATTGGTCGATGCAC 58.333 50.000 0.00 0.00 39.56 4.57
1401 3520 5.220548 CCTCAATCTCATCTTGCGTAGTTTG 60.221 44.000 0.00 0.00 0.00 2.93
1402 3521 5.478407 TCAATCTCATCTTGCGTAGTTTGA 58.522 37.500 0.00 0.00 0.00 2.69
1487 3611 3.531920 CTGTTGCTGCGCACTGTGG 62.532 63.158 5.66 0.00 38.71 4.17
1524 3661 9.409312 CTCTGATCATCAGTCAATCTTGTATAC 57.591 37.037 14.56 0.00 44.58 1.47
2072 4334 1.668419 GTTGCAACTCTGACACCTGT 58.332 50.000 22.36 0.00 0.00 4.00
2221 4483 3.312146 CCAGCAAAAACAAAAGCCGATTT 59.688 39.130 0.00 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.179215 GTGAAAATCGCGCCTGACTG 60.179 55.000 0.00 0.00 0.00 3.51
1 2 1.298859 GGTGAAAATCGCGCCTGACT 61.299 55.000 0.00 0.00 33.20 3.41
2 3 1.134694 GGTGAAAATCGCGCCTGAC 59.865 57.895 0.00 0.00 33.20 3.51
3 4 0.886938 TTGGTGAAAATCGCGCCTGA 60.887 50.000 0.00 0.00 36.86 3.86
4 5 0.039617 TTTGGTGAAAATCGCGCCTG 60.040 50.000 0.00 0.00 36.86 4.85
5 6 0.671251 TTTTGGTGAAAATCGCGCCT 59.329 45.000 0.00 0.00 36.86 5.52
6 7 1.059942 CTTTTGGTGAAAATCGCGCC 58.940 50.000 0.00 0.00 36.47 6.53
7 8 0.434628 GCTTTTGGTGAAAATCGCGC 59.565 50.000 0.00 0.00 30.59 6.86
8 9 1.059942 GGCTTTTGGTGAAAATCGCG 58.940 50.000 0.00 0.00 30.59 5.87
9 10 1.792367 GTGGCTTTTGGTGAAAATCGC 59.208 47.619 0.00 0.00 30.59 4.58
10 11 2.050691 CGTGGCTTTTGGTGAAAATCG 58.949 47.619 0.00 0.00 30.59 3.34
11 12 3.049912 GACGTGGCTTTTGGTGAAAATC 58.950 45.455 0.00 0.00 30.59 2.17
12 13 2.542824 CGACGTGGCTTTTGGTGAAAAT 60.543 45.455 0.00 0.00 30.59 1.82
13 14 1.202200 CGACGTGGCTTTTGGTGAAAA 60.202 47.619 0.00 0.00 0.00 2.29
14 15 0.378962 CGACGTGGCTTTTGGTGAAA 59.621 50.000 0.00 0.00 0.00 2.69
15 16 0.745128 ACGACGTGGCTTTTGGTGAA 60.745 50.000 0.00 0.00 0.00 3.18
16 17 1.153329 ACGACGTGGCTTTTGGTGA 60.153 52.632 0.00 0.00 0.00 4.02
17 18 1.278637 GACGACGTGGCTTTTGGTG 59.721 57.895 4.58 0.00 0.00 4.17
18 19 1.890510 GGACGACGTGGCTTTTGGT 60.891 57.895 4.58 0.00 0.00 3.67
19 20 2.613506 GGGACGACGTGGCTTTTGG 61.614 63.158 4.58 0.00 0.00 3.28
20 21 1.440938 TTGGGACGACGTGGCTTTTG 61.441 55.000 4.58 0.00 0.00 2.44
21 22 0.536460 ATTGGGACGACGTGGCTTTT 60.536 50.000 4.58 0.00 0.00 2.27
22 23 0.953960 GATTGGGACGACGTGGCTTT 60.954 55.000 4.58 0.00 0.00 3.51
23 24 1.375523 GATTGGGACGACGTGGCTT 60.376 57.895 4.58 0.00 0.00 4.35
24 25 2.227089 GAGATTGGGACGACGTGGCT 62.227 60.000 4.58 0.00 0.00 4.75
25 26 1.810030 GAGATTGGGACGACGTGGC 60.810 63.158 4.58 0.00 0.00 5.01
26 27 1.516386 CGAGATTGGGACGACGTGG 60.516 63.158 4.58 0.00 0.00 4.94
27 28 0.448990 TACGAGATTGGGACGACGTG 59.551 55.000 4.58 0.00 35.66 4.49
28 29 0.731417 CTACGAGATTGGGACGACGT 59.269 55.000 0.00 0.00 37.68 4.34
29 30 0.591741 GCTACGAGATTGGGACGACG 60.592 60.000 0.00 0.00 0.00 5.12
30 31 0.739561 AGCTACGAGATTGGGACGAC 59.260 55.000 0.00 0.00 0.00 4.34
31 32 0.738975 CAGCTACGAGATTGGGACGA 59.261 55.000 0.00 0.00 0.00 4.20
32 33 0.249073 CCAGCTACGAGATTGGGACG 60.249 60.000 0.00 0.00 0.00 4.79
33 34 0.530870 GCCAGCTACGAGATTGGGAC 60.531 60.000 0.00 0.00 0.00 4.46
34 35 0.687757 AGCCAGCTACGAGATTGGGA 60.688 55.000 0.00 0.00 0.00 4.37
35 36 1.000283 CTAGCCAGCTACGAGATTGGG 60.000 57.143 0.00 0.00 0.00 4.12
36 37 1.957177 TCTAGCCAGCTACGAGATTGG 59.043 52.381 0.00 0.00 0.00 3.16
37 38 3.376540 GTTCTAGCCAGCTACGAGATTG 58.623 50.000 0.00 0.00 0.00 2.67
38 39 2.362717 GGTTCTAGCCAGCTACGAGATT 59.637 50.000 0.00 0.00 0.00 2.40
39 40 1.957877 GGTTCTAGCCAGCTACGAGAT 59.042 52.381 0.00 0.00 0.00 2.75
40 41 1.390565 GGTTCTAGCCAGCTACGAGA 58.609 55.000 0.00 0.00 0.00 4.04
41 42 0.029567 CGGTTCTAGCCAGCTACGAG 59.970 60.000 0.00 0.00 0.00 4.18
42 43 0.393402 TCGGTTCTAGCCAGCTACGA 60.393 55.000 6.14 6.14 0.00 3.43
43 44 0.029567 CTCGGTTCTAGCCAGCTACG 59.970 60.000 0.00 0.00 0.00 3.51
44 45 0.249114 GCTCGGTTCTAGCCAGCTAC 60.249 60.000 0.00 0.00 33.73 3.58
45 46 0.683179 TGCTCGGTTCTAGCCAGCTA 60.683 55.000 0.00 0.00 39.30 3.32
46 47 1.954362 CTGCTCGGTTCTAGCCAGCT 61.954 60.000 0.00 0.00 39.30 4.24
47 48 1.520342 CTGCTCGGTTCTAGCCAGC 60.520 63.158 0.00 0.00 39.30 4.85
48 49 0.102120 CTCTGCTCGGTTCTAGCCAG 59.898 60.000 0.00 0.00 39.30 4.85
49 50 1.949847 GCTCTGCTCGGTTCTAGCCA 61.950 60.000 0.00 0.00 39.30 4.75
50 51 1.227118 GCTCTGCTCGGTTCTAGCC 60.227 63.158 0.00 0.00 39.30 3.93
51 52 1.227118 GGCTCTGCTCGGTTCTAGC 60.227 63.158 0.00 0.00 40.50 3.42
52 53 0.383949 GAGGCTCTGCTCGGTTCTAG 59.616 60.000 7.40 0.00 0.00 2.43
53 54 1.377366 CGAGGCTCTGCTCGGTTCTA 61.377 60.000 13.50 0.00 39.18 2.10
54 55 2.705821 CGAGGCTCTGCTCGGTTCT 61.706 63.158 13.50 0.00 39.18 3.01
55 56 2.202676 CGAGGCTCTGCTCGGTTC 60.203 66.667 13.50 0.00 39.18 3.62
56 57 4.443266 GCGAGGCTCTGCTCGGTT 62.443 66.667 19.31 0.00 42.61 4.44
62 63 4.742201 TTCGTGGCGAGGCTCTGC 62.742 66.667 18.67 18.67 37.14 4.26
63 64 2.507992 CTTCGTGGCGAGGCTCTG 60.508 66.667 13.50 7.43 37.14 3.35
64 65 2.676822 TCTTCGTGGCGAGGCTCT 60.677 61.111 13.50 0.00 37.14 4.09
65 66 2.507324 GTCTTCGTGGCGAGGCTC 60.507 66.667 3.87 3.87 37.14 4.70
71 72 1.469126 CGGTATTCGTCTTCGTGGCG 61.469 60.000 0.00 0.00 46.47 5.69
72 73 2.285154 CGGTATTCGTCTTCGTGGC 58.715 57.895 0.00 0.00 38.33 5.01
95 96 0.317479 GGATCTCCACCGGATTACCG 59.683 60.000 9.46 0.00 46.46 4.02
96 97 0.317479 CGGATCTCCACCGGATTACC 59.683 60.000 9.46 0.90 45.65 2.85
97 98 3.888093 CGGATCTCCACCGGATTAC 57.112 57.895 9.46 0.00 45.65 1.89
109 110 1.063642 TGGTGAGGAGATGACGGATCT 60.064 52.381 0.00 0.00 44.78 2.75
110 111 1.339610 CTGGTGAGGAGATGACGGATC 59.660 57.143 0.00 0.00 0.00 3.36
111 112 1.342474 ACTGGTGAGGAGATGACGGAT 60.342 52.381 0.00 0.00 0.00 4.18
112 113 0.039764 ACTGGTGAGGAGATGACGGA 59.960 55.000 0.00 0.00 0.00 4.69
113 114 0.898320 AACTGGTGAGGAGATGACGG 59.102 55.000 0.00 0.00 0.00 4.79
114 115 1.134965 GGAACTGGTGAGGAGATGACG 60.135 57.143 0.00 0.00 0.00 4.35
115 116 2.167487 GAGGAACTGGTGAGGAGATGAC 59.833 54.545 0.00 0.00 41.55 3.06
116 117 2.461695 GAGGAACTGGTGAGGAGATGA 58.538 52.381 0.00 0.00 41.55 2.92
117 118 1.484240 GGAGGAACTGGTGAGGAGATG 59.516 57.143 0.00 0.00 41.55 2.90
118 119 1.079490 TGGAGGAACTGGTGAGGAGAT 59.921 52.381 0.00 0.00 41.55 2.75
119 120 0.487325 TGGAGGAACTGGTGAGGAGA 59.513 55.000 0.00 0.00 41.55 3.71
120 121 0.610687 GTGGAGGAACTGGTGAGGAG 59.389 60.000 0.00 0.00 41.55 3.69
121 122 1.185618 CGTGGAGGAACTGGTGAGGA 61.186 60.000 0.00 0.00 41.55 3.71
122 123 1.293498 CGTGGAGGAACTGGTGAGG 59.707 63.158 0.00 0.00 41.55 3.86
123 124 1.374758 GCGTGGAGGAACTGGTGAG 60.375 63.158 0.00 0.00 41.55 3.51
124 125 2.741092 GCGTGGAGGAACTGGTGA 59.259 61.111 0.00 0.00 41.55 4.02
125 126 2.738521 CGCGTGGAGGAACTGGTG 60.739 66.667 0.00 0.00 41.55 4.17
126 127 4.681978 GCGCGTGGAGGAACTGGT 62.682 66.667 8.43 0.00 41.55 4.00
146 147 2.202878 CACCATGTAGCCGACCGG 60.203 66.667 0.00 0.00 38.57 5.28
147 148 2.011741 TAGCACCATGTAGCCGACCG 62.012 60.000 3.28 0.00 0.00 4.79
148 149 0.249489 CTAGCACCATGTAGCCGACC 60.249 60.000 3.28 0.00 0.00 4.79
149 150 0.744874 TCTAGCACCATGTAGCCGAC 59.255 55.000 3.28 0.00 0.00 4.79
150 151 0.744874 GTCTAGCACCATGTAGCCGA 59.255 55.000 3.28 0.00 0.00 5.54
151 152 0.747255 AGTCTAGCACCATGTAGCCG 59.253 55.000 3.28 0.00 0.00 5.52
152 153 2.990066 AAGTCTAGCACCATGTAGCC 57.010 50.000 3.28 0.00 0.00 3.93
153 154 3.623510 GGAAAAGTCTAGCACCATGTAGC 59.376 47.826 0.00 0.00 0.00 3.58
154 155 4.192317 GGGAAAAGTCTAGCACCATGTAG 58.808 47.826 0.00 0.00 0.00 2.74
155 156 3.054655 GGGGAAAAGTCTAGCACCATGTA 60.055 47.826 0.00 0.00 0.00 2.29
159 160 0.696501 GGGGGAAAAGTCTAGCACCA 59.303 55.000 0.00 0.00 0.00 4.17
162 163 2.344093 AGAGGGGGAAAAGTCTAGCA 57.656 50.000 0.00 0.00 0.00 3.49
174 175 0.696501 TTTTCGGAGGAAAGAGGGGG 59.303 55.000 0.00 0.00 42.72 5.40
175 176 1.073284 TGTTTTCGGAGGAAAGAGGGG 59.927 52.381 0.00 0.00 42.72 4.79
221 222 5.284079 GCTACATTTGGTTCTTATGCCATG 58.716 41.667 0.00 0.00 34.37 3.66
222 223 4.342092 GGCTACATTTGGTTCTTATGCCAT 59.658 41.667 0.00 0.00 36.91 4.40
223 224 3.699038 GGCTACATTTGGTTCTTATGCCA 59.301 43.478 0.00 0.00 36.91 4.92
224 225 3.243068 CGGCTACATTTGGTTCTTATGCC 60.243 47.826 0.00 0.00 0.00 4.40
225 226 3.625764 TCGGCTACATTTGGTTCTTATGC 59.374 43.478 0.00 0.00 0.00 3.14
226 227 5.116180 TCTCGGCTACATTTGGTTCTTATG 58.884 41.667 0.00 0.00 0.00 1.90
227 228 5.353394 TCTCGGCTACATTTGGTTCTTAT 57.647 39.130 0.00 0.00 0.00 1.73
228 229 4.811969 TCTCGGCTACATTTGGTTCTTA 57.188 40.909 0.00 0.00 0.00 2.10
229 230 3.695830 TCTCGGCTACATTTGGTTCTT 57.304 42.857 0.00 0.00 0.00 2.52
231 232 2.678336 CCTTCTCGGCTACATTTGGTTC 59.322 50.000 0.00 0.00 0.00 3.62
290 291 4.735662 TTCGTATATTAACGCCATTGGC 57.264 40.909 18.10 18.10 46.75 4.52
299 300 7.169035 TCTCGGTTGCAATTCGTATATTAAC 57.831 36.000 19.50 0.00 0.00 2.01
306 307 1.730064 GCTTCTCGGTTGCAATTCGTA 59.270 47.619 19.50 10.25 0.00 3.43
307 308 0.517316 GCTTCTCGGTTGCAATTCGT 59.483 50.000 19.50 0.00 0.00 3.85
308 309 0.798776 AGCTTCTCGGTTGCAATTCG 59.201 50.000 15.86 15.86 0.00 3.34
309 310 4.419522 TTTAGCTTCTCGGTTGCAATTC 57.580 40.909 0.59 0.00 0.00 2.17
310 311 4.846779 TTTTAGCTTCTCGGTTGCAATT 57.153 36.364 0.59 0.00 0.00 2.32
311 312 4.846779 TTTTTAGCTTCTCGGTTGCAAT 57.153 36.364 0.59 0.00 0.00 3.56
312 313 4.846779 ATTTTTAGCTTCTCGGTTGCAA 57.153 36.364 0.00 0.00 0.00 4.08
313 314 4.846779 AATTTTTAGCTTCTCGGTTGCA 57.153 36.364 0.00 0.00 0.00 4.08
314 315 4.143326 GCAAATTTTTAGCTTCTCGGTTGC 60.143 41.667 0.00 0.00 0.00 4.17
325 326 7.751793 CCCATGAATTTTCAGCAAATTTTTAGC 59.248 33.333 0.00 0.00 43.89 3.09
326 327 7.751793 GCCCATGAATTTTCAGCAAATTTTTAG 59.248 33.333 0.00 0.00 43.89 1.85
327 328 7.572724 CGCCCATGAATTTTCAGCAAATTTTTA 60.573 33.333 0.00 0.00 43.89 1.52
333 334 2.036992 ACGCCCATGAATTTTCAGCAAA 59.963 40.909 0.00 0.00 41.08 3.68
353 354 3.660865 AGTGAAGATGGTACGGTTTGAC 58.339 45.455 0.00 0.00 0.00 3.18
356 357 3.071892 TGGAAGTGAAGATGGTACGGTTT 59.928 43.478 0.00 0.00 0.00 3.27
357 358 2.635915 TGGAAGTGAAGATGGTACGGTT 59.364 45.455 0.00 0.00 0.00 4.44
358 359 2.233922 CTGGAAGTGAAGATGGTACGGT 59.766 50.000 0.00 0.00 0.00 4.83
359 360 2.418746 CCTGGAAGTGAAGATGGTACGG 60.419 54.545 0.00 0.00 0.00 4.02
360 361 2.418746 CCCTGGAAGTGAAGATGGTACG 60.419 54.545 0.00 0.00 0.00 3.67
361 362 2.572104 ACCCTGGAAGTGAAGATGGTAC 59.428 50.000 0.00 0.00 0.00 3.34
362 363 2.571653 CACCCTGGAAGTGAAGATGGTA 59.428 50.000 0.00 0.00 37.42 3.25
367 368 0.104672 TCCCACCCTGGAAGTGAAGA 60.105 55.000 4.85 0.00 40.96 2.87
370 371 0.490017 TAGTCCCACCCTGGAAGTGA 59.510 55.000 4.85 0.00 40.96 3.41
373 374 2.266279 TCTTTAGTCCCACCCTGGAAG 58.734 52.381 0.00 0.00 40.96 3.46
378 379 1.992557 TGCAATCTTTAGTCCCACCCT 59.007 47.619 0.00 0.00 0.00 4.34
401 402 1.688772 CAGGAATGGCAAGAGATGGG 58.311 55.000 0.00 0.00 0.00 4.00
450 451 4.402155 TGGGCTTGGACAATGTGAATATTC 59.598 41.667 8.60 8.60 0.00 1.75
484 485 5.477291 TGGTTGAGTCCTCTAACTCTACTTG 59.523 44.000 14.86 0.00 45.42 3.16
490 491 3.769844 TCCATGGTTGAGTCCTCTAACTC 59.230 47.826 12.58 0.00 44.87 3.01
495 496 1.079490 TCCTCCATGGTTGAGTCCTCT 59.921 52.381 12.58 0.00 37.07 3.69
505 506 0.252284 AAGTCCGAGTCCTCCATGGT 60.252 55.000 12.58 0.00 37.07 3.55
506 507 0.176680 CAAGTCCGAGTCCTCCATGG 59.823 60.000 4.97 4.97 37.10 3.66
508 509 0.978146 CCCAAGTCCGAGTCCTCCAT 60.978 60.000 0.00 0.00 0.00 3.41
511 512 2.579738 GCCCAAGTCCGAGTCCTC 59.420 66.667 0.00 0.00 0.00 3.71
512 513 3.382832 CGCCCAAGTCCGAGTCCT 61.383 66.667 0.00 0.00 0.00 3.85
520 521 4.821589 CTCCTCCGCGCCCAAGTC 62.822 72.222 0.00 0.00 0.00 3.01
522 523 4.821589 GACTCCTCCGCGCCCAAG 62.822 72.222 0.00 0.00 0.00 3.61
531 532 4.144703 GCCGGGTTCGACTCCTCC 62.145 72.222 2.18 0.00 39.00 4.30
572 573 0.543174 AACTTCCTCGAGGGCTCTGT 60.543 55.000 30.80 18.16 35.41 3.41
640 641 2.493973 CTCTCGCCTGGTGCTCTC 59.506 66.667 1.39 0.00 38.05 3.20
676 677 4.680237 TGCTCTGTTCCCGCGGTG 62.680 66.667 26.12 15.93 0.00 4.94
683 684 0.890996 CTGGGTTGGTGCTCTGTTCC 60.891 60.000 0.00 0.00 0.00 3.62
685 686 1.529244 GCTGGGTTGGTGCTCTGTT 60.529 57.895 0.00 0.00 0.00 3.16
686 687 2.113986 GCTGGGTTGGTGCTCTGT 59.886 61.111 0.00 0.00 0.00 3.41
728 2376 0.031449 GAGATGACGTGAGCTAGCCC 59.969 60.000 12.13 0.00 0.00 5.19
729 2377 0.741326 TGAGATGACGTGAGCTAGCC 59.259 55.000 12.13 3.49 0.00 3.93
738 2454 1.739338 GCCGGGAGATGAGATGACGT 61.739 60.000 2.18 0.00 0.00 4.34
803 2857 1.287425 GAAGCCACTAACGAATCGGG 58.713 55.000 7.80 0.00 0.00 5.14
808 2862 0.863144 GCAACGAAGCCACTAACGAA 59.137 50.000 0.00 0.00 0.00 3.85
877 2941 3.137728 AGGGTTGGGTGTGCTTATATACC 59.862 47.826 0.00 0.00 0.00 2.73
878 2942 4.432980 AGGGTTGGGTGTGCTTATATAC 57.567 45.455 0.00 0.00 0.00 1.47
950 3018 0.534203 GTTCCGGGAGCACAACTTGA 60.534 55.000 0.00 0.00 0.00 3.02
965 3043 1.450312 CAGATCGCAGGTGGGTTCC 60.450 63.158 2.42 0.00 0.00 3.62
1308 3414 3.378331 ATCGCTGTCGTCGTCGTCC 62.378 63.158 1.33 0.00 38.33 4.79
1309 3415 2.097918 ATCGCTGTCGTCGTCGTC 59.902 61.111 1.33 0.00 38.33 4.20
1310 3416 2.202311 CATCGCTGTCGTCGTCGT 60.202 61.111 1.33 0.00 38.33 4.34
1341 3460 5.545658 TCCATGAAAGCAAACTCGAATAC 57.454 39.130 0.00 0.00 0.00 1.89
1342 3461 6.404623 CCAATCCATGAAAGCAAACTCGAATA 60.405 38.462 0.00 0.00 0.00 1.75
1343 3462 5.404946 CAATCCATGAAAGCAAACTCGAAT 58.595 37.500 0.00 0.00 0.00 3.34
1344 3463 4.321156 CCAATCCATGAAAGCAAACTCGAA 60.321 41.667 0.00 0.00 0.00 3.71
1365 3484 0.107703 GATTGAGGGTGCATCGACCA 60.108 55.000 0.00 0.00 37.80 4.02
1373 3492 1.674962 GCAAGATGAGATTGAGGGTGC 59.325 52.381 0.00 0.00 0.00 5.01
1376 3495 2.322355 ACGCAAGATGAGATTGAGGG 57.678 50.000 0.00 0.00 43.62 4.30
1401 3520 3.788694 CGAGAGACACGATCAAACATCTC 59.211 47.826 0.00 0.00 34.14 2.75
1402 3521 3.440522 TCGAGAGACACGATCAAACATCT 59.559 43.478 0.00 0.00 34.85 2.90
1524 3661 3.246936 CAGATTCAGTACATGCATGGTCG 59.753 47.826 29.41 15.07 0.00 4.79
2072 4334 0.761323 TCACCTTGGACTGGAACCGA 60.761 55.000 0.00 0.00 0.00 4.69
2221 4483 4.400884 TCCTGCTAACTTTGTTTTTGCTGA 59.599 37.500 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.