Multiple sequence alignment - TraesCS6A01G179400

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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 TraesCS6A01G179400 chr6A 100.000 6659 0 0 1 6659 201637826 201644484 0.000000e+00 12297.0
1 TraesCS6A01G179400 chr6A 100.000 1201 0 0 7001 8201 201644826 201646026 0.000000e+00 2218.0
2 TraesCS6A01G179400 chr6A 99.529 1061 5 0 239 1299 201632692 201633752 0.000000e+00 1932.0
3 TraesCS6A01G179400 chr6A 98.370 184 2 1 8019 8201 47739152 47738969 1.030000e-83 322.0
4 TraesCS6A01G179400 chr6A 97.826 184 4 0 8018 8201 92834758 92834941 1.330000e-82 318.0
5 TraesCS6A01G179400 chr6A 85.714 77 5 2 7031 7107 201644826 201644896 8.830000e-10 76.8
6 TraesCS6A01G179400 chr6A 85.714 77 5 2 7001 7071 201644856 201644932 8.830000e-10 76.8
7 TraesCS6A01G179400 chr7A 97.496 4233 93 6 676 4900 140759726 140763953 0.000000e+00 7217.0
8 TraesCS6A01G179400 chr7A 97.354 4233 91 8 676 4900 141303412 141307631 0.000000e+00 7177.0
9 TraesCS6A01G179400 chr7A 97.330 4233 90 8 685 4900 141048618 141052844 0.000000e+00 7169.0
10 TraesCS6A01G179400 chr7A 97.640 2839 55 5 2069 4900 141644789 141647622 0.000000e+00 4861.0
11 TraesCS6A01G179400 chr7A 97.488 2707 60 4 676 3378 141894169 141896871 0.000000e+00 4615.0
12 TraesCS6A01G179400 chr7A 96.994 1763 32 3 4898 6658 141898926 141900669 0.000000e+00 2942.0
13 TraesCS6A01G179400 chr7A 96.655 1764 32 8 4898 6659 141052967 141054705 0.000000e+00 2905.0
14 TraesCS6A01G179400 chr7A 96.473 1758 35 10 4898 6653 141307754 141309486 0.000000e+00 2878.0
15 TraesCS6A01G179400 chr7A 97.954 1515 27 3 4988 6500 141648002 141649514 0.000000e+00 2623.0
16 TraesCS6A01G179400 chr7A 97.377 1525 31 4 3380 4900 141897284 141898803 0.000000e+00 2586.0
17 TraesCS6A01G179400 chr7A 98.116 1433 24 2 4898 6328 140764076 140765507 0.000000e+00 2494.0
18 TraesCS6A01G179400 chr7A 97.643 976 23 0 676 1651 141643452 141644427 0.000000e+00 1676.0
19 TraesCS6A01G179400 chr7A 88.246 570 22 11 7339 7878 141901083 141901637 2.500000e-179 640.0
20 TraesCS6A01G179400 chr7A 88.112 572 23 8 7339 7880 141650403 141650959 8.980000e-179 638.0
21 TraesCS6A01G179400 chr7A 87.979 574 22 11 7339 7880 140766414 140766972 1.160000e-177 634.0
22 TraesCS6A01G179400 chr7A 87.937 572 24 12 7339 7880 141310024 141310580 4.180000e-177 632.0
23 TraesCS6A01G179400 chr7A 87.238 572 25 10 7339 7880 141055856 141056409 7.040000e-170 608.0
24 TraesCS6A01G179400 chr7A 94.313 211 12 0 7019 7229 140766136 140766346 2.850000e-84 324.0
25 TraesCS6A01G179400 chr7A 94.313 211 12 0 7019 7229 141650125 141650335 2.850000e-84 324.0
26 TraesCS6A01G179400 chr7A 96.951 164 5 0 7066 7229 141900852 141901015 8.110000e-70 276.0
27 TraesCS6A01G179400 chr7A 94.595 148 8 0 7082 7229 141055641 141055788 6.400000e-56 230.0
28 TraesCS6A01G179400 chr7A 95.620 137 6 0 7093 7229 141309820 141309956 3.850000e-53 220.0
29 TraesCS6A01G179400 chr7A 99.048 105 1 0 4898 5002 141647745 141647849 1.090000e-43 189.0
30 TraesCS6A01G179400 chr7A 95.402 87 4 0 7255 7341 670561271 670561185 1.110000e-28 139.0
31 TraesCS6A01G179400 chr7A 98.039 51 0 1 7208 7258 140766363 140766412 4.080000e-13 87.9
32 TraesCS6A01G179400 chr7A 98.039 51 0 1 7208 7258 141055805 141055854 4.080000e-13 87.9
33 TraesCS6A01G179400 chr7A 98.039 51 0 1 7208 7258 141650352 141650401 4.080000e-13 87.9
34 TraesCS6A01G179400 chr7A 96.078 51 1 1 7208 7258 141309973 141310022 1.900000e-11 82.4
35 TraesCS6A01G179400 chr7A 96.078 51 1 1 7208 7258 141901032 141901081 1.900000e-11 82.4
36 TraesCS6A01G179400 chr4D 97.437 3745 77 10 2923 6659 13349992 13346259 0.000000e+00 6366.0
37 TraesCS6A01G179400 chr4D 96.181 2252 49 4 676 2923 13352276 13350058 0.000000e+00 3648.0
38 TraesCS6A01G179400 chr4D 88.448 1411 106 20 1958 3353 13361447 13360079 0.000000e+00 1650.0
39 TraesCS6A01G179400 chr4D 86.723 1190 147 8 676 1861 13362673 13361491 0.000000e+00 1312.0
40 TraesCS6A01G179400 chr4D 81.133 1659 263 30 696 2309 12415189 12413536 0.000000e+00 1284.0
41 TraesCS6A01G179400 chr4D 88.772 953 58 16 7101 8019 13345727 13344790 0.000000e+00 1122.0
42 TraesCS6A01G179400 chr4D 81.000 1200 206 12 686 1865 12368818 12370015 0.000000e+00 933.0
43 TraesCS6A01G179400 chr4D 79.905 1269 176 34 2057 3285 12017355 12018584 0.000000e+00 857.0
44 TraesCS6A01G179400 chr4D 90.492 589 43 8 3351 3933 13359918 13359337 0.000000e+00 765.0
45 TraesCS6A01G179400 chr4D 86.161 448 35 12 4713 5157 12019653 12020076 7.500000e-125 459.0
46 TraesCS6A01G179400 chr4D 80.878 638 57 28 7340 7938 13357762 13357151 7.550000e-120 442.0
47 TraesCS6A01G179400 chr4D 92.982 228 15 1 3921 4147 13359221 13358994 1.710000e-86 331.0
48 TraesCS6A01G179400 chr4D 80.992 363 34 17 5637 5985 12020760 12021101 1.060000e-63 255.0
49 TraesCS6A01G179400 chr4D 92.169 166 9 4 3769 3931 12018855 12019019 1.780000e-56 231.0
50 TraesCS6A01G179400 chr4D 83.761 234 17 5 7033 7245 13358002 13357769 1.400000e-47 202.0
51 TraesCS6A01G179400 chr4D 93.137 102 7 0 3653 3754 29833593 29833492 5.130000e-32 150.0
52 TraesCS6A01G179400 chr4D 83.562 146 15 4 2932 3074 11370493 11370632 2.400000e-25 128.0
53 TraesCS6A01G179400 chr4D 93.651 63 4 0 5205 5267 12020084 12020146 2.440000e-15 95.3
54 TraesCS6A01G179400 chr4D 84.416 77 6 2 7028 7098 13358049 13357973 4.110000e-08 71.3
55 TraesCS6A01G179400 chr4D 91.304 46 4 0 7015 7060 12021577 12021622 6.870000e-06 63.9
56 TraesCS6A01G179400 chr4D 100.000 32 0 0 7220 7251 12021837 12021868 8.890000e-05 60.2
57 TraesCS6A01G179400 chr4D 100.000 29 0 0 7003 7031 12021595 12021623 4.000000e-03 54.7
58 TraesCS6A01G179400 chr4B 97.069 2252 60 3 676 2923 24067856 24065607 0.000000e+00 3788.0
59 TraesCS6A01G179400 chr4B 96.832 1168 18 7 2923 4075 24065496 24064333 0.000000e+00 1934.0
60 TraesCS6A01G179400 chr4B 81.083 1237 173 33 2072 3285 21481477 21480279 0.000000e+00 931.0
61 TraesCS6A01G179400 chr4B 90.976 676 59 2 1 674 279974884 279975559 0.000000e+00 909.0
62 TraesCS6A01G179400 chr4B 80.570 1194 210 13 692 1865 22269506 22270697 0.000000e+00 900.0
63 TraesCS6A01G179400 chr4B 84.286 560 42 19 4713 5268 21479203 21478686 9.500000e-139 505.0
64 TraesCS6A01G179400 chr4B 83.481 339 53 2 1974 2309 22285864 22286202 6.180000e-81 313.0
65 TraesCS6A01G179400 chr4B 94.118 85 5 0 4755 4839 21470154 21470070 6.680000e-26 130.0
66 TraesCS6A01G179400 chr4B 89.423 104 9 2 7242 7344 136939889 136939787 6.680000e-26 130.0
67 TraesCS6A01G179400 chr3B 96.593 2260 63 5 676 2923 454649600 454651857 0.000000e+00 3735.0
68 TraesCS6A01G179400 chr3B 96.341 574 21 0 2923 3496 454651969 454652542 0.000000e+00 944.0
69 TraesCS6A01G179400 chr3B 92.632 95 6 1 7257 7351 117601919 117602012 1.440000e-27 135.0
70 TraesCS6A01G179400 chr3B 89.524 105 8 3 7242 7345 2308899 2309001 6.680000e-26 130.0
71 TraesCS6A01G179400 chr4A 97.127 1671 39 4 3240 4906 588653810 588655475 0.000000e+00 2811.0
72 TraesCS6A01G179400 chr4A 96.682 1477 41 4 1775 3245 588643226 588644700 0.000000e+00 2449.0
73 TraesCS6A01G179400 chr4A 88.822 1995 155 27 1958 3933 588586137 588588082 0.000000e+00 2386.0
74 TraesCS6A01G179400 chr4A 97.378 1106 29 0 676 1781 588633675 588634780 0.000000e+00 1882.0
75 TraesCS6A01G179400 chr4A 94.870 1189 33 9 5473 6659 588656077 588657239 0.000000e+00 1832.0
76 TraesCS6A01G179400 chr4A 97.363 455 12 0 4898 5352 588655593 588656047 0.000000e+00 774.0
77 TraesCS6A01G179400 chr4A 89.272 522 48 6 6023 6540 571363384 571363901 0.000000e+00 647.0
78 TraesCS6A01G179400 chr4A 89.080 522 49 6 6023 6540 588588453 588588970 6.940000e-180 641.0
79 TraesCS6A01G179400 chr4A 87.762 572 25 8 7339 7880 588657553 588658109 1.940000e-175 627.0
80 TraesCS6A01G179400 chr4A 85.842 558 47 15 4713 5267 590500556 590500028 1.550000e-156 564.0
81 TraesCS6A01G179400 chr4A 98.370 184 3 0 8018 8201 116365866 116366049 2.850000e-84 324.0
82 TraesCS6A01G179400 chr4A 94.313 211 12 0 7019 7229 588657275 588657485 2.850000e-84 324.0
83 TraesCS6A01G179400 chr4A 97.849 186 4 0 8016 8201 21121102 21120917 1.030000e-83 322.0
84 TraesCS6A01G179400 chr4A 98.361 183 3 0 8019 8201 21125882 21125700 1.030000e-83 322.0
85 TraesCS6A01G179400 chr4A 82.371 329 43 12 7340 7662 571364406 571364725 1.050000e-68 272.0
86 TraesCS6A01G179400 chr4A 82.675 329 34 11 7340 7662 588589360 588589671 3.770000e-68 270.0
87 TraesCS6A01G179400 chr4A 86.735 196 20 3 5279 5474 590499605 590499416 6.450000e-51 213.0
88 TraesCS6A01G179400 chr4A 84.615 221 19 8 7028 7245 588589145 588589353 1.080000e-48 206.0
89 TraesCS6A01G179400 chr4A 90.972 144 10 1 7105 7245 571364256 571364399 3.020000e-44 191.0
90 TraesCS6A01G179400 chr4A 100.000 34 0 0 5487 5520 588656046 588656079 6.870000e-06 63.9
91 TraesCS6A01G179400 chr2B 98.817 676 7 1 1 675 25788613 25787938 0.000000e+00 1203.0
92 TraesCS6A01G179400 chr2B 92.422 673 48 3 6 675 110575812 110575140 0.000000e+00 957.0
93 TraesCS6A01G179400 chr2B 98.391 435 6 1 241 674 25793873 25793439 0.000000e+00 763.0
94 TraesCS6A01G179400 chr2B 91.991 437 32 3 241 674 110581079 110580643 1.960000e-170 610.0
95 TraesCS6A01G179400 chr5B 98.227 677 10 2 1 676 603436119 603436794 0.000000e+00 1182.0
96 TraesCS6A01G179400 chr5B 98.621 435 5 1 241 674 603429131 603429565 0.000000e+00 769.0
97 TraesCS6A01G179400 chr5D 85.559 644 89 4 4 645 406968089 406968730 0.000000e+00 671.0
98 TraesCS6A01G179400 chr5D 86.978 407 50 3 241 645 406962666 406963071 9.700000e-124 455.0
99 TraesCS6A01G179400 chr6B 86.667 405 45 7 243 644 665163009 665163407 2.720000e-119 440.0
100 TraesCS6A01G179400 chr5A 98.361 183 3 0 8019 8201 428167606 428167788 1.030000e-83 322.0
101 TraesCS6A01G179400 chr5A 97.826 184 4 0 8018 8201 1549950 1549767 1.330000e-82 318.0
102 TraesCS6A01G179400 chr5A 87.387 111 12 2 7232 7341 505136292 505136401 8.640000e-25 126.0
103 TraesCS6A01G179400 chr2A 98.361 183 3 0 8019 8201 140401857 140402039 1.030000e-83 322.0
104 TraesCS6A01G179400 chr3A 97.340 188 5 0 8014 8201 480160753 480160566 3.690000e-83 320.0
105 TraesCS6A01G179400 chr3A 93.548 93 5 1 7255 7346 21405987 21406079 3.990000e-28 137.0
106 TraesCS6A01G179400 chr1D 93.750 144 9 0 500 643 406164730 406164587 4.980000e-52 217.0
107 TraesCS6A01G179400 chr1D 92.466 146 11 0 498 643 406150860 406150715 8.340000e-50 209.0
108 TraesCS6A01G179400 chr6D 90.000 110 9 1 3653 3760 304099344 304099453 3.090000e-29 141.0
109 TraesCS6A01G179400 chr6D 92.424 66 5 0 3653 3718 453020241 453020176 2.440000e-15 95.3
110 TraesCS6A01G179400 chr2D 91.000 100 7 2 7255 7353 82187242 82187144 5.160000e-27 134.0
111 TraesCS6A01G179400 chr7B 90.099 101 9 1 7242 7342 388716522 388716423 6.680000e-26 130.0


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 TraesCS6A01G179400 chr6A 201637826 201646026 8200 False 3667.150000 12297 92.857000 1 8201 4 chr6A.!!$F3 8200
1 TraesCS6A01G179400 chr6A 201632692 201633752 1060 False 1932.000000 1932 99.529000 239 1299 1 chr6A.!!$F2 1060
2 TraesCS6A01G179400 chr7A 141048618 141056409 7791 False 2199.980000 7169 94.771400 685 7880 5 chr7A.!!$F2 7195
3 TraesCS6A01G179400 chr7A 141303412 141310580 7168 False 2197.880000 7177 94.692400 676 7880 5 chr7A.!!$F3 7204
4 TraesCS6A01G179400 chr7A 140759726 140766972 7246 False 2151.380000 7217 95.188600 676 7880 5 chr7A.!!$F1 7204
5 TraesCS6A01G179400 chr7A 141894169 141901637 7468 False 1856.900000 4615 95.522333 676 7878 6 chr7A.!!$F5 7202
6 TraesCS6A01G179400 chr7A 141643452 141650959 7507 False 1485.557143 4861 96.107000 676 7880 7 chr7A.!!$F4 7204
7 TraesCS6A01G179400 chr4D 13344790 13352276 7486 True 3712.000000 6366 94.130000 676 8019 3 chr4D.!!$R3 7343
8 TraesCS6A01G179400 chr4D 12413536 12415189 1653 True 1284.000000 1284 81.133000 696 2309 1 chr4D.!!$R1 1613
9 TraesCS6A01G179400 chr4D 12368818 12370015 1197 False 933.000000 933 81.000000 686 1865 1 chr4D.!!$F2 1179
10 TraesCS6A01G179400 chr4D 13357151 13362673 5522 True 681.900000 1650 86.814286 676 7938 7 chr4D.!!$R4 7262
11 TraesCS6A01G179400 chr4D 12017355 12021868 4513 False 259.512500 857 90.522750 2057 7251 8 chr4D.!!$F3 5194
12 TraesCS6A01G179400 chr4B 24064333 24067856 3523 True 2861.000000 3788 96.950500 676 4075 2 chr4B.!!$R4 3399
13 TraesCS6A01G179400 chr4B 279974884 279975559 675 False 909.000000 909 90.976000 1 674 1 chr4B.!!$F3 673
14 TraesCS6A01G179400 chr4B 22269506 22270697 1191 False 900.000000 900 80.570000 692 1865 1 chr4B.!!$F1 1173
15 TraesCS6A01G179400 chr4B 21478686 21481477 2791 True 718.000000 931 82.684500 2072 5268 2 chr4B.!!$R3 3196
16 TraesCS6A01G179400 chr3B 454649600 454652542 2942 False 2339.500000 3735 96.467000 676 3496 2 chr3B.!!$F3 2820
17 TraesCS6A01G179400 chr4A 588643226 588644700 1474 False 2449.000000 2449 96.682000 1775 3245 1 chr4A.!!$F3 1470
18 TraesCS6A01G179400 chr4A 588633675 588634780 1105 False 1882.000000 1882 97.378000 676 1781 1 chr4A.!!$F2 1105
19 TraesCS6A01G179400 chr4A 588653810 588658109 4299 False 1071.983333 2811 95.239167 3240 7880 6 chr4A.!!$F6 4640
20 TraesCS6A01G179400 chr4A 588586137 588589671 3534 False 875.750000 2386 86.298000 1958 7662 4 chr4A.!!$F5 5704
21 TraesCS6A01G179400 chr4A 590499416 590500556 1140 True 388.500000 564 86.288500 4713 5474 2 chr4A.!!$R3 761
22 TraesCS6A01G179400 chr4A 571363384 571364725 1341 False 370.000000 647 87.538333 6023 7662 3 chr4A.!!$F4 1639
23 TraesCS6A01G179400 chr2B 25787938 25788613 675 True 1203.000000 1203 98.817000 1 675 1 chr2B.!!$R1 674
24 TraesCS6A01G179400 chr2B 110575140 110575812 672 True 957.000000 957 92.422000 6 675 1 chr2B.!!$R3 669
25 TraesCS6A01G179400 chr5B 603436119 603436794 675 False 1182.000000 1182 98.227000 1 676 1 chr5B.!!$F2 675
26 TraesCS6A01G179400 chr5D 406968089 406968730 641 False 671.000000 671 85.559000 4 645 1 chr5D.!!$F2 641

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
57 58 1.239347 GGAAACAAGAGCTGTCCCAC 58.761 55.000 0.00 0.0 37.23 4.61 F
1312 1356 2.871453 AGCCTACCATCCGTTTTGTTT 58.129 42.857 0.00 0.0 0.00 2.83 F
2546 2619 0.392998 TTGCCCTTCTTCCGCAGATC 60.393 55.000 0.00 0.0 33.30 2.75 F
2788 2893 0.886043 CACAGCACCTGCAGTTGCTA 60.886 55.000 34.52 0.0 45.16 3.49 F
3727 4578 1.082206 CTTCCCCAGACCCCACCTA 59.918 63.158 0.00 0.0 0.00 3.08 F
4230 5263 3.445450 TCTCGAGGGATCTTCTTTGACTG 59.555 47.826 13.56 0.0 0.00 3.51 F
5523 7320 0.114364 TGCCTCTGTAGGGTCAGTCA 59.886 55.000 0.00 0.0 43.87 3.41 F
6460 8273 1.202580 GCAGCAGATACGAGAATGGGT 60.203 52.381 0.00 0.0 0.00 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1312 1356 0.534203 GGTTCTGGAACTGGCAACGA 60.534 55.000 12.34 0.00 40.94 3.85 R
2713 2815 0.108662 CTCACCGCAGCATCTACACA 60.109 55.000 0.00 0.00 0.00 3.72 R
3727 4578 1.550976 AGTGCTAAAAGCTCCTACGCT 59.449 47.619 0.03 0.00 42.97 5.07 R
3740 4591 3.876309 AAAAAGGAGACCCAGTGCTAA 57.124 42.857 0.00 0.00 33.88 3.09 R
5058 6428 1.247567 ACTTGAATTCCCAGCAACCG 58.752 50.000 2.27 0.00 0.00 4.44 R
6130 7940 4.586421 TCCAGTCATTACCACATTTTGCAA 59.414 37.500 0.00 0.00 0.00 4.08 R
6568 8381 0.042188 CCATTTTCGTATCCGCTGCG 60.042 55.000 16.34 16.34 0.00 5.18 R
8132 11590 0.034574 CCATCGGGTTTGGACATGGA 60.035 55.000 0.00 0.00 36.84 3.41 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
57 58 1.239347 GGAAACAAGAGCTGTCCCAC 58.761 55.000 0.00 0.00 37.23 4.61
1312 1356 2.871453 AGCCTACCATCCGTTTTGTTT 58.129 42.857 0.00 0.00 0.00 2.83
1326 1370 1.464734 TTGTTTCGTTGCCAGTTCCA 58.535 45.000 0.00 0.00 0.00 3.53
1448 1493 7.648908 TGTTGAGTTAGATTTTCATGTGCAAAG 59.351 33.333 0.00 0.00 0.00 2.77
1514 1559 5.880332 TGGCTAAAACATGGACTAGATCAAC 59.120 40.000 0.00 0.00 0.00 3.18
1600 1648 3.619419 AGTTTGCCAAATTTGTTGCCTT 58.381 36.364 16.73 0.00 0.00 4.35
1601 1649 4.015764 AGTTTGCCAAATTTGTTGCCTTT 58.984 34.783 16.73 0.00 0.00 3.11
1669 1717 3.009033 TGCTGGTCCTACATTAAGCTTGT 59.991 43.478 9.86 1.33 0.00 3.16
1790 1838 1.580845 GCGCAGTGTGCTCCTCAAAT 61.581 55.000 21.31 0.00 42.25 2.32
1876 1924 7.047460 TCAGGTACTCGTCCCTAATAAATTC 57.953 40.000 0.00 0.00 34.60 2.17
2546 2619 0.392998 TTGCCCTTCTTCCGCAGATC 60.393 55.000 0.00 0.00 33.30 2.75
2713 2815 5.544650 CTGATTGAAATCTGTGGCCTTTTT 58.455 37.500 3.32 0.00 36.39 1.94
2714 2816 5.299148 TGATTGAAATCTGTGGCCTTTTTG 58.701 37.500 3.32 0.00 36.39 2.44
2788 2893 0.886043 CACAGCACCTGCAGTTGCTA 60.886 55.000 34.52 0.00 45.16 3.49
3045 3272 4.987408 TTATCATCATTGTTGCTGGTGG 57.013 40.909 0.00 0.00 0.00 4.61
3462 4301 8.874744 TTTTACTTTGTTGGCCATTACTTAAC 57.125 30.769 6.09 0.00 0.00 2.01
3480 4319 7.054491 ACTTAACATGCTGGTTGAAAAGAAT 57.946 32.000 0.00 0.00 32.29 2.40
3727 4578 1.082206 CTTCCCCAGACCCCACCTA 59.918 63.158 0.00 0.00 0.00 3.08
4230 5263 3.445450 TCTCGAGGGATCTTCTTTGACTG 59.555 47.826 13.56 0.00 0.00 3.51
5058 6428 7.835634 TTTGTGGTGTTTTCCTATTGTTTTC 57.164 32.000 0.00 0.00 0.00 2.29
5174 6545 2.877786 TGGTGCATACATATTTCGCTGG 59.122 45.455 0.00 0.00 0.00 4.85
5283 7080 0.875059 CTTTTGCCTCGGTCTTCACC 59.125 55.000 0.00 0.00 39.69 4.02
5523 7320 0.114364 TGCCTCTGTAGGGTCAGTCA 59.886 55.000 0.00 0.00 43.87 3.41
5526 7323 2.362717 GCCTCTGTAGGGTCAGTCATAC 59.637 54.545 0.00 0.00 43.87 2.39
5527 7324 2.619177 CCTCTGTAGGGTCAGTCATACG 59.381 54.545 0.00 0.00 39.48 3.06
5617 7414 4.813750 ATTTTCTTTTCAGGGATGCCTG 57.186 40.909 26.45 26.45 39.01 4.85
5755 7561 5.675970 CACTACCATGTACGAAGTGTTTTG 58.324 41.667 0.00 0.00 45.73 2.44
5985 7795 2.604139 GGGACATTTTGAGGGGTCAAA 58.396 47.619 0.00 0.00 37.77 2.69
6130 7940 5.032327 TCATCAGTCTAATGCAGCAGATT 57.968 39.130 0.00 0.00 0.00 2.40
6460 8273 1.202580 GCAGCAGATACGAGAATGGGT 60.203 52.381 0.00 0.00 0.00 4.51
6501 8314 2.985282 CGTGGCATGGGCAGTGTT 60.985 61.111 0.00 0.00 43.71 3.32
6515 8328 2.422597 CAGTGTTTACGAGAATGGGCA 58.577 47.619 0.00 0.00 0.00 5.36
6549 8362 1.306654 TGGATACCAAGGAGGCGGT 60.307 57.895 0.00 0.00 43.14 5.68
6568 8381 4.060038 GTGGTGGCTGTGGCATGC 62.060 66.667 9.90 9.90 40.92 4.06
7107 10379 4.109675 GGTGGTGGCAGCGGGTAT 62.110 66.667 12.58 0.00 0.00 2.73
7117 10389 1.807742 GCAGCGGGTATTACAACAACA 59.192 47.619 0.00 0.00 0.00 3.33
7146 10418 1.349067 ACTACCAGCCGAGGAACTTT 58.651 50.000 0.00 0.00 41.55 2.66
7375 10749 1.202417 CGGTATGTCGCAATCCAGTCT 60.202 52.381 0.00 0.00 0.00 3.24
7384 10758 1.341383 GCAATCCAGTCTGTCCCCATT 60.341 52.381 0.00 0.00 0.00 3.16
7393 10767 1.626321 TCTGTCCCCATTTGCGAGTTA 59.374 47.619 0.00 0.00 0.00 2.24
7446 10820 3.181500 GGTTGGTAAATGTGGAATCTCGC 60.181 47.826 0.00 0.00 0.00 5.03
7475 10849 6.682746 AGTAGCTTCAGGTCATATATGTTCG 58.317 40.000 12.42 1.12 0.00 3.95
7477 10851 5.918608 AGCTTCAGGTCATATATGTTCGTT 58.081 37.500 12.42 0.00 0.00 3.85
7478 10852 5.986135 AGCTTCAGGTCATATATGTTCGTTC 59.014 40.000 12.42 0.00 0.00 3.95
7479 10853 5.107837 GCTTCAGGTCATATATGTTCGTTCG 60.108 44.000 12.42 0.48 0.00 3.95
7526 10900 6.316140 GCTGTGTGAGTTGTCATATATTTCCA 59.684 38.462 0.00 0.00 34.36 3.53
7572 10947 2.930682 GTCTTTCTACGCCATTCCTGTC 59.069 50.000 0.00 0.00 0.00 3.51
7606 10987 5.921408 GTGTTTGTGTTTGTGTTACCTTTGA 59.079 36.000 0.00 0.00 0.00 2.69
7684 11081 2.421073 TGCTGATCGAGATTTTGGCTTG 59.579 45.455 0.00 0.00 0.00 4.01
7686 11083 3.486542 GCTGATCGAGATTTTGGCTTGTC 60.487 47.826 0.00 0.00 0.00 3.18
7688 11085 3.935203 TGATCGAGATTTTGGCTTGTCTC 59.065 43.478 0.00 0.00 35.03 3.36
7690 11087 4.801330 TCGAGATTTTGGCTTGTCTCTA 57.199 40.909 0.00 0.00 35.97 2.43
7691 11088 5.147330 TCGAGATTTTGGCTTGTCTCTAA 57.853 39.130 0.00 0.00 35.97 2.10
7731 11150 2.143122 CACCGTAGCCGATTATGCATT 58.857 47.619 3.54 0.00 35.63 3.56
7812 11254 1.278127 GACCGTTGGGAAGATTCTGGA 59.722 52.381 0.00 0.00 36.97 3.86
7880 11330 0.878416 AGCTACTCCGATCGATGCTC 59.122 55.000 18.66 0.91 0.00 4.26
7882 11332 0.523966 CTACTCCGATCGATGCTCCC 59.476 60.000 18.66 0.00 0.00 4.30
7891 11341 2.423898 CGATGCTCCCCGGTAGTGT 61.424 63.158 0.00 0.00 0.00 3.55
7892 11342 1.442148 GATGCTCCCCGGTAGTGTC 59.558 63.158 0.00 0.00 0.00 3.67
7927 11385 2.753043 CATGCAGAGTGCCCCACC 60.753 66.667 0.00 0.00 44.23 4.61
7969 11427 1.204941 GTAGTGCTTCGGACATCACCT 59.795 52.381 0.00 0.00 0.00 4.00
7971 11429 1.021390 GTGCTTCGGACATCACCTGG 61.021 60.000 0.00 0.00 0.00 4.45
7988 11446 1.883084 GGCCGTGCTGGAACTATCG 60.883 63.158 0.00 0.00 42.00 2.92
8023 11481 3.708544 CCGGCGGGTGGTTAAGGA 61.709 66.667 20.56 0.00 0.00 3.36
8024 11482 2.587889 CGGCGGGTGGTTAAGGAT 59.412 61.111 0.00 0.00 0.00 3.24
8025 11483 1.817941 CGGCGGGTGGTTAAGGATG 60.818 63.158 0.00 0.00 0.00 3.51
8026 11484 1.453197 GGCGGGTGGTTAAGGATGG 60.453 63.158 0.00 0.00 0.00 3.51
8027 11485 2.119029 GCGGGTGGTTAAGGATGGC 61.119 63.158 0.00 0.00 0.00 4.40
8028 11486 1.301623 CGGGTGGTTAAGGATGGCA 59.698 57.895 0.00 0.00 0.00 4.92
8029 11487 0.322997 CGGGTGGTTAAGGATGGCAA 60.323 55.000 0.00 0.00 0.00 4.52
8030 11488 1.684869 CGGGTGGTTAAGGATGGCAAT 60.685 52.381 0.00 0.00 0.00 3.56
8031 11489 1.756538 GGGTGGTTAAGGATGGCAATG 59.243 52.381 0.00 0.00 0.00 2.82
8032 11490 1.756538 GGTGGTTAAGGATGGCAATGG 59.243 52.381 0.00 0.00 0.00 3.16
8033 11491 1.756538 GTGGTTAAGGATGGCAATGGG 59.243 52.381 0.00 0.00 0.00 4.00
8034 11492 1.360852 TGGTTAAGGATGGCAATGGGT 59.639 47.619 0.00 0.00 0.00 4.51
8035 11493 2.031870 GGTTAAGGATGGCAATGGGTC 58.968 52.381 0.00 0.00 0.00 4.46
8036 11494 1.676006 GTTAAGGATGGCAATGGGTCG 59.324 52.381 0.00 0.00 0.00 4.79
8037 11495 0.182537 TAAGGATGGCAATGGGTCGG 59.817 55.000 0.00 0.00 0.00 4.79
8038 11496 2.519302 GGATGGCAATGGGTCGGG 60.519 66.667 0.00 0.00 0.00 5.14
8039 11497 2.275418 GATGGCAATGGGTCGGGT 59.725 61.111 0.00 0.00 0.00 5.28
8040 11498 1.379843 GATGGCAATGGGTCGGGTT 60.380 57.895 0.00 0.00 0.00 4.11
8041 11499 0.970427 GATGGCAATGGGTCGGGTTT 60.970 55.000 0.00 0.00 0.00 3.27
8042 11500 1.257055 ATGGCAATGGGTCGGGTTTG 61.257 55.000 0.00 0.00 0.00 2.93
8043 11501 2.645192 GGCAATGGGTCGGGTTTGG 61.645 63.158 0.00 0.00 0.00 3.28
8044 11502 1.605165 GCAATGGGTCGGGTTTGGA 60.605 57.895 0.00 0.00 0.00 3.53
8045 11503 0.970427 GCAATGGGTCGGGTTTGGAT 60.970 55.000 0.00 0.00 0.00 3.41
8046 11504 1.102978 CAATGGGTCGGGTTTGGATC 58.897 55.000 0.00 0.00 0.00 3.36
8047 11505 0.393808 AATGGGTCGGGTTTGGATCG 60.394 55.000 0.00 0.00 0.00 3.69
8048 11506 2.124860 GGGTCGGGTTTGGATCGG 60.125 66.667 0.00 0.00 0.00 4.18
8049 11507 2.124860 GGTCGGGTTTGGATCGGG 60.125 66.667 0.00 0.00 0.00 5.14
8050 11508 2.666812 GTCGGGTTTGGATCGGGT 59.333 61.111 0.00 0.00 0.00 5.28
8051 11509 1.002990 GTCGGGTTTGGATCGGGTT 60.003 57.895 0.00 0.00 0.00 4.11
8052 11510 1.003112 TCGGGTTTGGATCGGGTTG 60.003 57.895 0.00 0.00 0.00 3.77
8053 11511 1.003112 CGGGTTTGGATCGGGTTGA 60.003 57.895 0.00 0.00 0.00 3.18
8054 11512 0.606944 CGGGTTTGGATCGGGTTGAA 60.607 55.000 0.00 0.00 0.00 2.69
8055 11513 0.885879 GGGTTTGGATCGGGTTGAAC 59.114 55.000 0.00 0.00 0.00 3.18
8056 11514 1.611519 GGTTTGGATCGGGTTGAACA 58.388 50.000 0.00 0.00 0.00 3.18
8057 11515 1.957877 GGTTTGGATCGGGTTGAACAA 59.042 47.619 0.00 0.00 0.00 2.83
8058 11516 2.560981 GGTTTGGATCGGGTTGAACAAT 59.439 45.455 0.00 0.00 30.67 2.71
8059 11517 3.366985 GGTTTGGATCGGGTTGAACAATC 60.367 47.826 0.00 0.00 30.67 2.67
8060 11518 3.433306 TTGGATCGGGTTGAACAATCT 57.567 42.857 0.00 0.00 0.00 2.40
8061 11519 2.985896 TGGATCGGGTTGAACAATCTC 58.014 47.619 0.00 0.00 0.00 2.75
8062 11520 2.304470 TGGATCGGGTTGAACAATCTCA 59.696 45.455 0.00 0.00 0.00 3.27
8063 11521 3.244735 TGGATCGGGTTGAACAATCTCAA 60.245 43.478 0.00 0.00 32.89 3.02
8064 11522 3.756434 GGATCGGGTTGAACAATCTCAAA 59.244 43.478 0.00 0.00 37.08 2.69
8065 11523 4.399303 GGATCGGGTTGAACAATCTCAAAT 59.601 41.667 0.00 0.00 37.08 2.32
8066 11524 5.449177 GGATCGGGTTGAACAATCTCAAATC 60.449 44.000 0.00 0.00 37.08 2.17
8067 11525 3.756434 TCGGGTTGAACAATCTCAAATCC 59.244 43.478 0.00 0.00 37.08 3.01
8068 11526 3.505680 CGGGTTGAACAATCTCAAATCCA 59.494 43.478 0.00 0.00 37.08 3.41
8069 11527 4.158394 CGGGTTGAACAATCTCAAATCCAT 59.842 41.667 0.00 0.00 37.08 3.41
8070 11528 5.356751 CGGGTTGAACAATCTCAAATCCATA 59.643 40.000 0.00 0.00 37.08 2.74
8071 11529 6.039717 CGGGTTGAACAATCTCAAATCCATAT 59.960 38.462 0.00 0.00 37.08 1.78
8072 11530 7.428826 GGGTTGAACAATCTCAAATCCATATC 58.571 38.462 0.00 0.00 37.08 1.63
8073 11531 7.428826 GGTTGAACAATCTCAAATCCATATCC 58.571 38.462 0.00 0.00 37.08 2.59
8074 11532 7.068593 GGTTGAACAATCTCAAATCCATATCCA 59.931 37.037 0.00 0.00 37.08 3.41
8075 11533 8.636213 GTTGAACAATCTCAAATCCATATCCAT 58.364 33.333 0.00 0.00 37.08 3.41
8076 11534 8.173542 TGAACAATCTCAAATCCATATCCATG 57.826 34.615 0.00 0.00 0.00 3.66
8077 11535 7.781219 TGAACAATCTCAAATCCATATCCATGT 59.219 33.333 0.00 0.00 0.00 3.21
8078 11536 7.756395 ACAATCTCAAATCCATATCCATGTC 57.244 36.000 0.00 0.00 0.00 3.06
8079 11537 6.718454 ACAATCTCAAATCCATATCCATGTCC 59.282 38.462 0.00 0.00 0.00 4.02
8080 11538 5.910355 TCTCAAATCCATATCCATGTCCA 57.090 39.130 0.00 0.00 0.00 4.02
8081 11539 6.458630 TCTCAAATCCATATCCATGTCCAT 57.541 37.500 0.00 0.00 0.00 3.41
8082 11540 6.243148 TCTCAAATCCATATCCATGTCCATG 58.757 40.000 0.14 0.14 38.51 3.66
8083 11541 6.044637 TCTCAAATCCATATCCATGTCCATGA 59.955 38.462 8.82 0.00 41.20 3.07
8084 11542 6.612741 TCAAATCCATATCCATGTCCATGAA 58.387 36.000 8.82 0.00 41.20 2.57
8085 11543 6.717997 TCAAATCCATATCCATGTCCATGAAG 59.282 38.462 8.82 0.00 41.20 3.02
8086 11544 6.458630 AATCCATATCCATGTCCATGAAGA 57.541 37.500 8.82 0.00 41.20 2.87
8087 11545 5.233083 TCCATATCCATGTCCATGAAGAC 57.767 43.478 8.82 0.00 41.20 3.01
8096 11554 3.141398 TGTCCATGAAGACAGTCTTTGC 58.859 45.455 17.19 6.19 41.78 3.68
8097 11555 2.485814 GTCCATGAAGACAGTCTTTGCC 59.514 50.000 17.19 5.48 36.73 4.52
8098 11556 1.815003 CCATGAAGACAGTCTTTGCCC 59.185 52.381 17.19 5.12 36.73 5.36
8099 11557 1.466167 CATGAAGACAGTCTTTGCCCG 59.534 52.381 17.19 1.69 36.73 6.13
8100 11558 0.468226 TGAAGACAGTCTTTGCCCGT 59.532 50.000 17.19 0.00 36.73 5.28
8101 11559 1.149148 GAAGACAGTCTTTGCCCGTC 58.851 55.000 17.19 0.00 36.73 4.79
8102 11560 0.250338 AAGACAGTCTTTGCCCGTCC 60.250 55.000 10.27 0.00 31.57 4.79
8103 11561 1.070786 GACAGTCTTTGCCCGTCCA 59.929 57.895 0.00 0.00 0.00 4.02
8104 11562 0.321653 GACAGTCTTTGCCCGTCCAT 60.322 55.000 0.00 0.00 0.00 3.41
8105 11563 0.606401 ACAGTCTTTGCCCGTCCATG 60.606 55.000 0.00 0.00 0.00 3.66
8106 11564 0.321564 CAGTCTTTGCCCGTCCATGA 60.322 55.000 0.00 0.00 0.00 3.07
8107 11565 0.400213 AGTCTTTGCCCGTCCATGAA 59.600 50.000 0.00 0.00 0.00 2.57
8108 11566 1.202879 AGTCTTTGCCCGTCCATGAAA 60.203 47.619 0.00 0.00 0.00 2.69
8109 11567 1.611491 GTCTTTGCCCGTCCATGAAAA 59.389 47.619 0.00 0.00 0.00 2.29
8110 11568 2.035321 GTCTTTGCCCGTCCATGAAAAA 59.965 45.455 0.00 0.00 0.00 1.94
8131 11589 6.880942 AAAATCCATGGGTGAAAAATTGTG 57.119 33.333 13.02 0.00 0.00 3.33
8132 11590 5.565455 AATCCATGGGTGAAAAATTGTGT 57.435 34.783 13.02 0.00 0.00 3.72
8133 11591 4.599047 TCCATGGGTGAAAAATTGTGTC 57.401 40.909 13.02 0.00 0.00 3.67
8134 11592 3.323403 TCCATGGGTGAAAAATTGTGTCC 59.677 43.478 13.02 0.00 0.00 4.02
8135 11593 3.070734 CCATGGGTGAAAAATTGTGTCCA 59.929 43.478 2.85 0.00 0.00 4.02
8136 11594 4.262981 CCATGGGTGAAAAATTGTGTCCAT 60.263 41.667 2.85 0.00 34.47 3.41
8137 11595 4.333913 TGGGTGAAAAATTGTGTCCATG 57.666 40.909 0.00 0.00 0.00 3.66
8138 11596 3.708631 TGGGTGAAAAATTGTGTCCATGT 59.291 39.130 0.00 0.00 0.00 3.21
8139 11597 4.202202 TGGGTGAAAAATTGTGTCCATGTC 60.202 41.667 0.00 0.00 0.00 3.06
8140 11598 4.306600 GGTGAAAAATTGTGTCCATGTCC 58.693 43.478 0.00 0.00 0.00 4.02
8141 11599 4.202202 GGTGAAAAATTGTGTCCATGTCCA 60.202 41.667 0.00 0.00 0.00 4.02
8142 11600 5.355596 GTGAAAAATTGTGTCCATGTCCAA 58.644 37.500 0.00 0.00 0.00 3.53
8143 11601 5.814705 GTGAAAAATTGTGTCCATGTCCAAA 59.185 36.000 0.00 0.00 0.00 3.28
8144 11602 5.814705 TGAAAAATTGTGTCCATGTCCAAAC 59.185 36.000 0.00 0.00 0.00 2.93
8145 11603 4.335400 AAATTGTGTCCATGTCCAAACC 57.665 40.909 0.00 0.00 0.00 3.27
8146 11604 1.698506 TTGTGTCCATGTCCAAACCC 58.301 50.000 0.00 0.00 0.00 4.11
8147 11605 0.536233 TGTGTCCATGTCCAAACCCG 60.536 55.000 0.00 0.00 0.00 5.28
8148 11606 0.250553 GTGTCCATGTCCAAACCCGA 60.251 55.000 0.00 0.00 0.00 5.14
8149 11607 0.695924 TGTCCATGTCCAAACCCGAT 59.304 50.000 0.00 0.00 0.00 4.18
8150 11608 1.094785 GTCCATGTCCAAACCCGATG 58.905 55.000 0.00 0.00 0.00 3.84
8151 11609 0.034574 TCCATGTCCAAACCCGATGG 60.035 55.000 0.00 0.00 39.41 3.51
8152 11610 0.034574 CCATGTCCAAACCCGATGGA 60.035 55.000 0.00 0.00 44.58 3.41
8178 11636 5.829986 TCCATACCCATTGGATATCCATTG 58.170 41.667 28.52 28.52 46.97 2.82
8184 11642 4.393239 CATTGGATATCCATTGGGTCCT 57.607 45.455 28.08 6.72 46.97 3.85
8185 11643 4.338879 CATTGGATATCCATTGGGTCCTC 58.661 47.826 28.08 6.95 46.97 3.71
8186 11644 3.367280 TGGATATCCATTGGGTCCTCT 57.633 47.619 20.98 0.00 42.01 3.69
8187 11645 3.251484 TGGATATCCATTGGGTCCTCTC 58.749 50.000 20.98 3.06 42.01 3.20
8188 11646 2.234908 GGATATCCATTGGGTCCTCTCG 59.765 54.545 17.34 0.00 35.64 4.04
8189 11647 2.767644 TATCCATTGGGTCCTCTCGA 57.232 50.000 2.09 0.00 34.93 4.04
8190 11648 1.418334 ATCCATTGGGTCCTCTCGAG 58.582 55.000 5.93 5.93 34.93 4.04
8191 11649 0.335019 TCCATTGGGTCCTCTCGAGA 59.665 55.000 15.70 15.70 34.93 4.04
8192 11650 0.461961 CCATTGGGTCCTCTCGAGAC 59.538 60.000 12.08 2.50 0.00 3.36
8193 11651 0.101399 CATTGGGTCCTCTCGAGACG 59.899 60.000 12.08 8.16 0.00 4.18
8194 11652 0.323542 ATTGGGTCCTCTCGAGACGT 60.324 55.000 12.08 0.00 0.00 4.34
8195 11653 0.325933 TTGGGTCCTCTCGAGACGTA 59.674 55.000 12.08 0.00 0.00 3.57
8196 11654 0.545171 TGGGTCCTCTCGAGACGTAT 59.455 55.000 12.08 0.00 0.00 3.06
8197 11655 1.764723 TGGGTCCTCTCGAGACGTATA 59.235 52.381 12.08 0.00 0.00 1.47
8198 11656 2.171237 TGGGTCCTCTCGAGACGTATAA 59.829 50.000 12.08 0.00 0.00 0.98
8199 11657 3.209410 GGGTCCTCTCGAGACGTATAAA 58.791 50.000 12.08 0.00 0.00 1.40
8200 11658 3.819902 GGGTCCTCTCGAGACGTATAAAT 59.180 47.826 12.08 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 1.000843 TGTGACCAAGTGAGGATGTCG 59.999 52.381 0.00 0.00 0.00 4.35
625 627 4.024670 AGACAATTACTCGAACTAGCCCT 58.975 43.478 0.00 0.00 0.00 5.19
626 628 4.388378 AGACAATTACTCGAACTAGCCC 57.612 45.455 0.00 0.00 0.00 5.19
1312 1356 0.534203 GGTTCTGGAACTGGCAACGA 60.534 55.000 12.34 0.00 40.94 3.85
1514 1559 6.558009 CCATCACACCAAACATCTGAATAAG 58.442 40.000 0.00 0.00 0.00 1.73
1600 1648 8.828644 CAAATTGTTTTCCTCATCAAACATCAA 58.171 29.630 0.00 0.00 41.39 2.57
1601 1649 8.202811 TCAAATTGTTTTCCTCATCAAACATCA 58.797 29.630 0.00 0.00 41.39 3.07
1790 1838 3.412061 GTTCAAACCACGCCGTCA 58.588 55.556 0.00 0.00 0.00 4.35
1956 2010 9.687717 CAACAGTAATGTTTTCATCAACAAAAC 57.312 29.630 5.68 1.84 40.07 2.43
2341 2413 1.226974 GCCGAAGTAGATGAGCGCA 60.227 57.895 11.47 0.00 0.00 6.09
2528 2601 1.221840 GATCTGCGGAAGAAGGGCA 59.778 57.895 0.00 0.00 38.79 5.36
2713 2815 0.108662 CTCACCGCAGCATCTACACA 60.109 55.000 0.00 0.00 0.00 3.72
2714 2816 0.807667 CCTCACCGCAGCATCTACAC 60.808 60.000 0.00 0.00 0.00 2.90
2788 2893 0.622665 CCTTCAGCTCCATGGTTCCT 59.377 55.000 12.58 3.69 0.00 3.36
3042 3269 0.175531 AGCACAAAAAGCACCACCAC 59.824 50.000 0.00 0.00 0.00 4.16
3045 3272 2.514205 ATCAGCACAAAAAGCACCAC 57.486 45.000 0.00 0.00 0.00 4.16
3462 4301 5.063180 TGCTATTCTTTTCAACCAGCATG 57.937 39.130 0.00 0.00 32.94 4.06
3480 4319 1.607225 ATCAGGGATTGGGGTTGCTA 58.393 50.000 0.00 0.00 0.00 3.49
3564 4405 2.029918 AGAAATGCCAGCTTTTTCCGTC 60.030 45.455 12.14 0.00 0.00 4.79
3598 4439 3.994392 CAGAGCGCTAAACTTGGTTTCTA 59.006 43.478 11.50 0.00 37.01 2.10
3727 4578 1.550976 AGTGCTAAAAGCTCCTACGCT 59.449 47.619 0.03 0.00 42.97 5.07
3740 4591 3.876309 AAAAAGGAGACCCAGTGCTAA 57.124 42.857 0.00 0.00 33.88 3.09
4388 5426 4.130118 CTGGAGCTTTACCCATGTCATAC 58.870 47.826 0.00 0.00 0.00 2.39
5058 6428 1.247567 ACTTGAATTCCCAGCAACCG 58.752 50.000 2.27 0.00 0.00 4.44
5283 7080 4.621034 AGCAAATAACGCCAAAAATCTTCG 59.379 37.500 0.00 0.00 0.00 3.79
5526 7323 7.867909 TCCTGCTTGAGATGTATTTACTTATCG 59.132 37.037 0.00 0.00 0.00 2.92
5527 7324 8.983724 GTCCTGCTTGAGATGTATTTACTTATC 58.016 37.037 0.00 0.00 0.00 1.75
5755 7561 9.875675 GATATCTTGTTTTAATCTCATCTGCAC 57.124 33.333 0.00 0.00 0.00 4.57
5985 7795 8.695456 ACTTTCAGAGGTCAACAAACAAAATAT 58.305 29.630 0.00 0.00 0.00 1.28
6130 7940 4.586421 TCCAGTCATTACCACATTTTGCAA 59.414 37.500 0.00 0.00 0.00 4.08
6460 8273 2.367648 ACCACCACCACCTCCACA 60.368 61.111 0.00 0.00 0.00 4.17
6500 8313 2.421388 CCTCCATGCCCATTCTCGTAAA 60.421 50.000 0.00 0.00 0.00 2.01
6501 8314 1.140852 CCTCCATGCCCATTCTCGTAA 59.859 52.381 0.00 0.00 0.00 3.18
6515 8328 2.538141 CCACCACCACCACCTCCAT 61.538 63.158 0.00 0.00 0.00 3.41
6549 8362 3.900862 ATGCCACAGCCACCACCA 61.901 61.111 0.00 0.00 38.69 4.17
6568 8381 0.042188 CCATTTTCGTATCCGCTGCG 60.042 55.000 16.34 16.34 0.00 5.18
7000 9732 1.146263 CCCGGCCATTCTGGTACTC 59.854 63.158 2.24 0.00 40.46 2.59
7001 9733 2.375345 CCCCGGCCATTCTGGTACT 61.375 63.158 2.24 0.00 40.46 2.73
7031 9763 2.375345 CCCCGGCCATTCTGGTACT 61.375 63.158 2.24 0.00 40.46 2.73
7060 9804 1.745320 CTATTCTGGTACCCGCCGCT 61.745 60.000 10.07 0.00 0.00 5.52
7099 10344 2.481185 CGTTGTTGTTGTAATACCCGCT 59.519 45.455 0.00 0.00 0.00 5.52
7107 10379 4.706035 AGTACCCATCGTTGTTGTTGTAA 58.294 39.130 0.00 0.00 0.00 2.41
7117 10389 0.828677 GGCTGGTAGTACCCATCGTT 59.171 55.000 16.91 0.00 37.50 3.85
7146 10418 3.176297 CCCCTGCCCCTGTTGTTA 58.824 61.111 0.00 0.00 0.00 2.41
7190 10515 1.006281 TGCCATTGCCTCAATCCTCTT 59.994 47.619 0.00 0.00 36.33 2.85
7258 10632 9.781834 CGCTCTTATATTAGTTTATGGAGAGAG 57.218 37.037 0.00 0.00 31.53 3.20
7259 10633 9.298250 ACGCTCTTATATTAGTTTATGGAGAGA 57.702 33.333 0.00 0.00 31.53 3.10
7260 10634 9.915629 AACGCTCTTATATTAGTTTATGGAGAG 57.084 33.333 0.00 0.00 32.25 3.20
7312 10686 8.777578 TCCCTCTGTAAACTAATATAAGAGCA 57.222 34.615 0.00 0.00 0.00 4.26
7384 10758 3.316588 TGGAGCAACAAAATAACTCGCAA 59.683 39.130 0.00 0.00 0.00 4.85
7393 10767 3.069872 TGCACTCATTGGAGCAACAAAAT 59.930 39.130 0.00 0.00 45.42 1.82
7475 10849 2.844122 AAGAAGCAACACAACCGAAC 57.156 45.000 0.00 0.00 0.00 3.95
7477 10851 3.442273 AGAAAAAGAAGCAACACAACCGA 59.558 39.130 0.00 0.00 0.00 4.69
7478 10852 3.547468 CAGAAAAAGAAGCAACACAACCG 59.453 43.478 0.00 0.00 0.00 4.44
7479 10853 3.865164 CCAGAAAAAGAAGCAACACAACC 59.135 43.478 0.00 0.00 0.00 3.77
7562 10937 3.194116 CACTGGAAAATGGACAGGAATGG 59.806 47.826 0.00 0.00 36.57 3.16
7572 10947 4.934602 ACAAACACAAACACTGGAAAATGG 59.065 37.500 0.00 0.00 0.00 3.16
7606 10987 0.539986 ACGATACCGGCCAGAACAAT 59.460 50.000 0.00 0.00 40.78 2.71
7643 11034 5.809562 CAGCATTCACCAAAACAAACAGTAA 59.190 36.000 0.00 0.00 0.00 2.24
7690 11087 8.429641 ACGGTGACACTTATCAGGATTATTATT 58.570 33.333 5.39 0.00 0.00 1.40
7691 11088 7.963532 ACGGTGACACTTATCAGGATTATTAT 58.036 34.615 5.39 0.00 0.00 1.28
7731 11150 0.970640 TACAAGACCTAGCCGCAACA 59.029 50.000 0.00 0.00 0.00 3.33
7780 11199 1.378347 CAACGGTCGCGTAAAAACAC 58.622 50.000 5.77 0.00 0.00 3.32
7812 11254 2.092429 TCAGTTGCCTGACAAAGTCCTT 60.092 45.455 0.00 0.00 42.80 3.36
7834 11276 2.955660 ACTTGCAAGAAACCGGAAATGA 59.044 40.909 32.50 0.00 0.00 2.57
7919 11377 2.033448 CTACAAAGCGGTGGGGCA 59.967 61.111 0.00 0.00 34.64 5.36
7958 11416 4.082523 ACGGCCAGGTGATGTCCG 62.083 66.667 2.24 0.00 45.04 4.79
7969 11427 1.220749 GATAGTTCCAGCACGGCCA 59.779 57.895 2.24 0.00 33.14 5.36
7971 11429 1.883084 CCGATAGTTCCAGCACGGC 60.883 63.158 0.00 0.00 34.36 5.68
7988 11446 4.344865 TTGCAGCTTCCCCCGACC 62.345 66.667 0.00 0.00 0.00 4.79
8019 11477 1.076777 CCGACCCATTGCCATCCTT 60.077 57.895 0.00 0.00 0.00 3.36
8020 11478 2.597340 CCGACCCATTGCCATCCT 59.403 61.111 0.00 0.00 0.00 3.24
8021 11479 2.519302 CCCGACCCATTGCCATCC 60.519 66.667 0.00 0.00 0.00 3.51
8022 11480 0.970427 AAACCCGACCCATTGCCATC 60.970 55.000 0.00 0.00 0.00 3.51
8023 11481 1.078347 AAACCCGACCCATTGCCAT 59.922 52.632 0.00 0.00 0.00 4.40
8024 11482 1.905843 CAAACCCGACCCATTGCCA 60.906 57.895 0.00 0.00 0.00 4.92
8025 11483 2.645192 CCAAACCCGACCCATTGCC 61.645 63.158 0.00 0.00 0.00 4.52
8026 11484 0.970427 ATCCAAACCCGACCCATTGC 60.970 55.000 0.00 0.00 0.00 3.56
8027 11485 1.102978 GATCCAAACCCGACCCATTG 58.897 55.000 0.00 0.00 0.00 2.82
8028 11486 0.393808 CGATCCAAACCCGACCCATT 60.394 55.000 0.00 0.00 0.00 3.16
8029 11487 1.223487 CGATCCAAACCCGACCCAT 59.777 57.895 0.00 0.00 0.00 4.00
8030 11488 2.666207 CGATCCAAACCCGACCCA 59.334 61.111 0.00 0.00 0.00 4.51
8031 11489 2.124860 CCGATCCAAACCCGACCC 60.125 66.667 0.00 0.00 0.00 4.46
8032 11490 2.124860 CCCGATCCAAACCCGACC 60.125 66.667 0.00 0.00 0.00 4.79
8033 11491 1.002990 AACCCGATCCAAACCCGAC 60.003 57.895 0.00 0.00 0.00 4.79
8034 11492 1.003112 CAACCCGATCCAAACCCGA 60.003 57.895 0.00 0.00 0.00 5.14
8035 11493 0.606944 TTCAACCCGATCCAAACCCG 60.607 55.000 0.00 0.00 0.00 5.28
8036 11494 0.885879 GTTCAACCCGATCCAAACCC 59.114 55.000 0.00 0.00 0.00 4.11
8037 11495 1.611519 TGTTCAACCCGATCCAAACC 58.388 50.000 0.00 0.00 0.00 3.27
8038 11496 3.506067 AGATTGTTCAACCCGATCCAAAC 59.494 43.478 0.00 0.00 0.00 2.93
8039 11497 3.756434 GAGATTGTTCAACCCGATCCAAA 59.244 43.478 0.00 0.00 0.00 3.28
8040 11498 3.244735 TGAGATTGTTCAACCCGATCCAA 60.245 43.478 0.00 0.00 0.00 3.53
8041 11499 2.304470 TGAGATTGTTCAACCCGATCCA 59.696 45.455 0.00 0.00 0.00 3.41
8042 11500 2.985896 TGAGATTGTTCAACCCGATCC 58.014 47.619 0.00 0.00 0.00 3.36
8043 11501 5.449177 GGATTTGAGATTGTTCAACCCGATC 60.449 44.000 0.00 0.00 36.84 3.69
8044 11502 4.399303 GGATTTGAGATTGTTCAACCCGAT 59.601 41.667 0.00 0.00 36.84 4.18
8045 11503 3.756434 GGATTTGAGATTGTTCAACCCGA 59.244 43.478 0.00 0.00 36.84 5.14
8046 11504 3.505680 TGGATTTGAGATTGTTCAACCCG 59.494 43.478 0.00 0.00 36.84 5.28
8047 11505 5.665916 ATGGATTTGAGATTGTTCAACCC 57.334 39.130 0.00 0.00 36.84 4.11
8048 11506 7.068593 TGGATATGGATTTGAGATTGTTCAACC 59.931 37.037 0.00 0.00 36.84 3.77
8049 11507 7.999679 TGGATATGGATTTGAGATTGTTCAAC 58.000 34.615 0.00 0.00 36.84 3.18
8050 11508 8.635328 CATGGATATGGATTTGAGATTGTTCAA 58.365 33.333 0.00 0.00 35.38 2.69
8051 11509 7.781219 ACATGGATATGGATTTGAGATTGTTCA 59.219 33.333 0.00 0.00 38.66 3.18
8052 11510 8.174733 ACATGGATATGGATTTGAGATTGTTC 57.825 34.615 0.00 0.00 38.66 3.18
8053 11511 7.232127 GGACATGGATATGGATTTGAGATTGTT 59.768 37.037 0.00 0.00 38.66 2.83
8054 11512 6.718454 GGACATGGATATGGATTTGAGATTGT 59.282 38.462 0.00 0.00 38.66 2.71
8055 11513 6.717997 TGGACATGGATATGGATTTGAGATTG 59.282 38.462 0.00 0.00 38.66 2.67
8056 11514 6.855667 TGGACATGGATATGGATTTGAGATT 58.144 36.000 0.00 0.00 38.66 2.40
8057 11515 6.458630 TGGACATGGATATGGATTTGAGAT 57.541 37.500 0.00 0.00 38.66 2.75
8058 11516 5.910355 TGGACATGGATATGGATTTGAGA 57.090 39.130 0.00 0.00 38.66 3.27
8059 11517 6.243148 TCATGGACATGGATATGGATTTGAG 58.757 40.000 11.98 0.00 38.66 3.02
8060 11518 6.203526 TCATGGACATGGATATGGATTTGA 57.796 37.500 11.98 0.00 38.66 2.69
8061 11519 6.717997 TCTTCATGGACATGGATATGGATTTG 59.282 38.462 11.98 0.00 38.66 2.32
8062 11520 6.718454 GTCTTCATGGACATGGATATGGATTT 59.282 38.462 11.98 0.00 38.66 2.17
8063 11521 6.183361 TGTCTTCATGGACATGGATATGGATT 60.183 38.462 11.98 0.00 40.72 3.01
8064 11522 5.311385 TGTCTTCATGGACATGGATATGGAT 59.689 40.000 11.98 0.00 40.72 3.41
8065 11523 4.659835 TGTCTTCATGGACATGGATATGGA 59.340 41.667 11.98 0.00 40.72 3.41
8066 11524 4.976864 TGTCTTCATGGACATGGATATGG 58.023 43.478 11.98 0.00 40.72 2.74
8067 11525 5.618236 ACTGTCTTCATGGACATGGATATG 58.382 41.667 11.98 0.00 43.94 1.78
8068 11526 5.605908 AGACTGTCTTCATGGACATGGATAT 59.394 40.000 11.98 0.00 43.94 1.63
8069 11527 4.964897 AGACTGTCTTCATGGACATGGATA 59.035 41.667 11.98 1.24 43.94 2.59
8070 11528 3.779183 AGACTGTCTTCATGGACATGGAT 59.221 43.478 11.98 0.00 43.94 3.41
8071 11529 3.176411 AGACTGTCTTCATGGACATGGA 58.824 45.455 11.98 2.79 43.94 3.41
8072 11530 3.623906 AGACTGTCTTCATGGACATGG 57.376 47.619 11.98 0.00 43.94 3.66
8073 11531 4.379186 GCAAAGACTGTCTTCATGGACATG 60.379 45.833 22.24 14.91 43.94 3.21
8074 11532 3.755378 GCAAAGACTGTCTTCATGGACAT 59.245 43.478 22.24 2.60 43.94 3.06
8075 11533 3.141398 GCAAAGACTGTCTTCATGGACA 58.859 45.455 22.24 4.94 42.96 4.02
8076 11534 2.485814 GGCAAAGACTGTCTTCATGGAC 59.514 50.000 22.24 11.49 35.27 4.02
8077 11535 2.553028 GGGCAAAGACTGTCTTCATGGA 60.553 50.000 22.24 0.00 35.27 3.41
8078 11536 1.815003 GGGCAAAGACTGTCTTCATGG 59.185 52.381 22.24 13.41 35.27 3.66
8079 11537 1.466167 CGGGCAAAGACTGTCTTCATG 59.534 52.381 22.24 18.12 35.27 3.07
8080 11538 1.072331 ACGGGCAAAGACTGTCTTCAT 59.928 47.619 22.24 6.23 35.27 2.57
8081 11539 0.468226 ACGGGCAAAGACTGTCTTCA 59.532 50.000 22.24 0.00 35.27 3.02
8082 11540 1.149148 GACGGGCAAAGACTGTCTTC 58.851 55.000 22.24 11.43 43.19 2.87
8083 11541 0.250338 GGACGGGCAAAGACTGTCTT 60.250 55.000 17.00 17.00 45.61 3.01
8084 11542 1.371558 GGACGGGCAAAGACTGTCT 59.628 57.895 11.32 4.06 45.61 3.41
8085 11543 0.321653 ATGGACGGGCAAAGACTGTC 60.322 55.000 3.18 3.18 45.59 3.51
8086 11544 0.606401 CATGGACGGGCAAAGACTGT 60.606 55.000 0.00 0.00 29.74 3.55
8087 11545 0.321564 TCATGGACGGGCAAAGACTG 60.322 55.000 0.00 0.00 0.00 3.51
8088 11546 0.400213 TTCATGGACGGGCAAAGACT 59.600 50.000 0.00 0.00 0.00 3.24
8089 11547 1.243902 TTTCATGGACGGGCAAAGAC 58.756 50.000 0.00 0.00 0.00 3.01
8090 11548 1.988293 TTTTCATGGACGGGCAAAGA 58.012 45.000 0.00 0.00 0.00 2.52
8091 11549 2.810439 TTTTTCATGGACGGGCAAAG 57.190 45.000 0.00 0.00 0.00 2.77
8107 11565 6.832900 ACACAATTTTTCACCCATGGATTTTT 59.167 30.769 15.22 0.00 0.00 1.94
8108 11566 6.363882 ACACAATTTTTCACCCATGGATTTT 58.636 32.000 15.22 0.00 0.00 1.82
8109 11567 5.939447 ACACAATTTTTCACCCATGGATTT 58.061 33.333 15.22 0.00 0.00 2.17
8110 11568 5.512921 GGACACAATTTTTCACCCATGGATT 60.513 40.000 15.22 0.00 0.00 3.01
8111 11569 4.020307 GGACACAATTTTTCACCCATGGAT 60.020 41.667 15.22 0.00 0.00 3.41
8112 11570 3.323403 GGACACAATTTTTCACCCATGGA 59.677 43.478 15.22 0.00 0.00 3.41
8113 11571 3.070734 TGGACACAATTTTTCACCCATGG 59.929 43.478 4.14 4.14 0.00 3.66
8114 11572 4.333913 TGGACACAATTTTTCACCCATG 57.666 40.909 0.00 0.00 0.00 3.66
8115 11573 4.347583 ACATGGACACAATTTTTCACCCAT 59.652 37.500 0.00 0.00 33.83 4.00
8116 11574 3.708631 ACATGGACACAATTTTTCACCCA 59.291 39.130 0.00 0.00 0.00 4.51
8117 11575 4.306600 GACATGGACACAATTTTTCACCC 58.693 43.478 0.00 0.00 0.00 4.61
8118 11576 4.202202 TGGACATGGACACAATTTTTCACC 60.202 41.667 0.00 0.00 0.00 4.02
8119 11577 4.942852 TGGACATGGACACAATTTTTCAC 58.057 39.130 0.00 0.00 0.00 3.18
8120 11578 5.604758 TTGGACATGGACACAATTTTTCA 57.395 34.783 0.00 0.00 0.00 2.69
8121 11579 5.236263 GGTTTGGACATGGACACAATTTTTC 59.764 40.000 0.00 0.00 0.00 2.29
8122 11580 5.122519 GGTTTGGACATGGACACAATTTTT 58.877 37.500 0.00 0.00 0.00 1.94
8123 11581 4.444164 GGGTTTGGACATGGACACAATTTT 60.444 41.667 0.00 0.00 0.00 1.82
8124 11582 3.070878 GGGTTTGGACATGGACACAATTT 59.929 43.478 0.00 0.00 0.00 1.82
8125 11583 2.632512 GGGTTTGGACATGGACACAATT 59.367 45.455 0.00 0.00 0.00 2.32
8126 11584 2.247358 GGGTTTGGACATGGACACAAT 58.753 47.619 0.00 0.00 0.00 2.71
8127 11585 1.698506 GGGTTTGGACATGGACACAA 58.301 50.000 0.00 0.00 0.00 3.33
8128 11586 0.536233 CGGGTTTGGACATGGACACA 60.536 55.000 0.00 0.00 0.00 3.72
8129 11587 0.250553 TCGGGTTTGGACATGGACAC 60.251 55.000 0.00 0.00 0.00 3.67
8130 11588 0.695924 ATCGGGTTTGGACATGGACA 59.304 50.000 0.00 0.00 0.00 4.02
8131 11589 1.094785 CATCGGGTTTGGACATGGAC 58.905 55.000 0.00 0.00 0.00 4.02
8132 11590 0.034574 CCATCGGGTTTGGACATGGA 60.035 55.000 0.00 0.00 36.84 3.41
8133 11591 0.034574 TCCATCGGGTTTGGACATGG 60.035 55.000 0.00 0.00 38.35 3.66
8134 11592 2.057137 ATCCATCGGGTTTGGACATG 57.943 50.000 0.00 0.00 45.71 3.21
8135 11593 3.244911 GGATATCCATCGGGTTTGGACAT 60.245 47.826 17.34 0.00 45.71 3.06
8136 11594 2.105821 GGATATCCATCGGGTTTGGACA 59.894 50.000 17.34 0.00 45.71 4.02
8137 11595 2.105821 TGGATATCCATCGGGTTTGGAC 59.894 50.000 20.98 0.00 45.71 4.02
8138 11596 2.413601 TGGATATCCATCGGGTTTGGA 58.586 47.619 20.98 0.00 46.86 3.53
8139 11597 2.949177 TGGATATCCATCGGGTTTGG 57.051 50.000 20.98 0.00 42.01 3.28
8167 11625 2.234908 CGAGAGGACCCAATGGATATCC 59.765 54.545 15.39 15.39 34.81 2.59
8168 11626 3.165875 TCGAGAGGACCCAATGGATATC 58.834 50.000 0.00 0.00 34.81 1.63
8169 11627 3.169099 CTCGAGAGGACCCAATGGATAT 58.831 50.000 6.58 0.00 34.81 1.63
8170 11628 2.177016 TCTCGAGAGGACCCAATGGATA 59.823 50.000 12.08 0.00 34.81 2.59
8171 11629 1.062886 TCTCGAGAGGACCCAATGGAT 60.063 52.381 12.08 0.00 34.81 3.41
8172 11630 0.335019 TCTCGAGAGGACCCAATGGA 59.665 55.000 12.08 0.00 34.81 3.41
8173 11631 0.461961 GTCTCGAGAGGACCCAATGG 59.538 60.000 17.22 0.00 37.80 3.16
8174 11632 0.101399 CGTCTCGAGAGGACCCAATG 59.899 60.000 26.94 0.35 32.08 2.82
8175 11633 0.323542 ACGTCTCGAGAGGACCCAAT 60.324 55.000 34.80 13.81 34.35 3.16
8176 11634 0.325933 TACGTCTCGAGAGGACCCAA 59.674 55.000 34.80 15.43 34.35 4.12
8177 11635 0.545171 ATACGTCTCGAGAGGACCCA 59.455 55.000 34.80 19.39 34.35 4.51
8178 11636 2.540265 TATACGTCTCGAGAGGACCC 57.460 55.000 34.80 14.92 34.35 4.46


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

AutoCloner maintained by Alex Coulton.