Multiple sequence alignment - TraesCS2B01G567700

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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 TraesCS2B01G567700 chr2B 100.000 7405 0 0 1 7405 758665330 758672734 0.000000e+00 13675.0
1 TraesCS2B01G567700 chr2B 85.473 2609 296 48 946 3504 707242645 707240070 0.000000e+00 2641.0
2 TraesCS2B01G567700 chr2B 94.562 754 29 4 39 788 757908521 757907776 0.000000e+00 1155.0
3 TraesCS2B01G567700 chr2B 86.168 976 105 18 5407 6361 707240014 707239048 0.000000e+00 1027.0
4 TraesCS2B01G567700 chr2B 80.207 1354 230 25 993 2336 758896497 758897822 0.000000e+00 981.0
5 TraesCS2B01G567700 chr2B 76.746 1346 279 22 987 2323 706792754 706791434 0.000000e+00 721.0
6 TraesCS2B01G567700 chr2B 81.582 771 124 13 5439 6201 706730981 706730221 8.160000e-174 621.0
7 TraesCS2B01G567700 chr2B 79.431 914 158 22 5439 6338 706922916 706922019 2.930000e-173 619.0
8 TraesCS2B01G567700 chr2B 93.539 356 16 3 6280 6630 758894085 758894438 2.370000e-144 523.0
9 TraesCS2B01G567700 chr2B 76.968 686 126 28 5498 6173 756603872 756603209 5.460000e-96 363.0
10 TraesCS2B01G567700 chr2B 93.443 122 8 0 3837 3958 758669067 758669188 1.640000e-41 182.0
11 TraesCS2B01G567700 chr2B 93.443 122 8 0 3738 3859 758669166 758669287 1.640000e-41 182.0
12 TraesCS2B01G567700 chr2B 82.317 164 24 4 377 538 706792898 706792738 3.600000e-28 137.0
13 TraesCS2B01G567700 chr2B 82.432 148 12 7 397 534 707243142 707242999 4.690000e-22 117.0
14 TraesCS2B01G567700 chr2D 94.055 3499 139 22 19 3502 619565099 619568543 0.000000e+00 5245.0
15 TraesCS2B01G567700 chr2D 95.476 1083 42 6 5326 6403 619568536 619569616 0.000000e+00 1722.0
16 TraesCS2B01G567700 chr2D 85.977 977 112 15 5407 6361 585749858 585748885 0.000000e+00 1022.0
17 TraesCS2B01G567700 chr2D 87.945 871 96 7 957 1821 585756441 585755574 0.000000e+00 1018.0
18 TraesCS2B01G567700 chr2D 81.245 1269 201 24 1018 2275 619573158 619574400 0.000000e+00 990.0
19 TraesCS2B01G567700 chr2D 82.496 1114 130 28 1928 3008 585751467 585750386 0.000000e+00 917.0
20 TraesCS2B01G567700 chr2D 77.567 1266 241 22 1017 2275 585696165 585694936 0.000000e+00 725.0
21 TraesCS2B01G567700 chr2D 87.648 591 71 2 6814 7404 440970272 440969684 0.000000e+00 686.0
22 TraesCS2B01G567700 chr2D 79.650 914 148 23 5439 6338 585687023 585686134 2.270000e-174 623.0
23 TraesCS2B01G567700 chr2D 78.476 827 125 35 3867 4658 468803345 468802537 6.680000e-135 492.0
24 TraesCS2B01G567700 chr2D 89.114 395 41 2 3111 3504 585750303 585749910 2.400000e-134 490.0
25 TraesCS2B01G567700 chr2D 77.872 827 125 39 3852 4658 646964219 646963431 1.880000e-125 460.0
26 TraesCS2B01G567700 chr2D 78.125 672 85 35 4312 4930 457658941 457659603 3.260000e-98 370.0
27 TraesCS2B01G567700 chr2D 75.620 685 144 20 5495 6173 619092515 619093182 1.200000e-82 318.0
28 TraesCS2B01G567700 chr2D 92.614 176 9 3 6429 6603 619569729 619569901 4.440000e-62 250.0
29 TraesCS2B01G567700 chr2D 77.717 184 17 11 377 538 585740640 585740459 2.850000e-14 91.6
30 TraesCS2B01G567700 chr4A 98.521 1825 14 2 3504 5327 731260327 731262139 0.000000e+00 3208.0
31 TraesCS2B01G567700 chr4A 94.262 122 7 0 3837 3958 731260561 731260682 3.530000e-43 187.0
32 TraesCS2B01G567700 chr4A 93.443 122 8 0 3738 3859 731260660 731260781 1.640000e-41 182.0
33 TraesCS2B01G567700 chr5B 98.300 1823 16 4 3504 5325 420188152 420186344 0.000000e+00 3181.0
34 TraesCS2B01G567700 chr5B 84.932 219 27 6 3504 3719 129145688 129145903 4.500000e-52 217.0
35 TraesCS2B01G567700 chr5B 91.803 122 10 0 3738 3859 420187824 420187703 3.550000e-38 171.0
36 TraesCS2B01G567700 chr5B 90.164 122 8 2 3837 3958 420187919 420187802 9.950000e-34 156.0
37 TraesCS2B01G567700 chr6B 99.434 1061 6 0 4269 5329 59746980 59748040 0.000000e+00 1927.0
38 TraesCS2B01G567700 chr6B 98.711 698 7 2 3503 4199 59746273 59746969 0.000000e+00 1238.0
39 TraesCS2B01G567700 chr6B 93.570 591 37 1 6814 7404 581846155 581845566 0.000000e+00 880.0
40 TraesCS2B01G567700 chr6B 93.443 122 8 0 3738 3859 59746606 59746727 1.640000e-41 182.0
41 TraesCS2B01G567700 chr2A 83.705 2019 256 37 1463 3438 719797818 719795830 0.000000e+00 1838.0
42 TraesCS2B01G567700 chr2A 90.732 1079 91 6 5326 6403 751029009 751030079 0.000000e+00 1430.0
43 TraesCS2B01G567700 chr2A 90.833 1069 90 5 5326 6394 751168034 751169094 0.000000e+00 1424.0
44 TraesCS2B01G567700 chr2A 95.100 898 41 1 2604 3501 751167146 751168040 0.000000e+00 1411.0
45 TraesCS2B01G567700 chr2A 94.818 907 38 6 2600 3501 751028113 751029015 0.000000e+00 1406.0
46 TraesCS2B01G567700 chr2A 80.898 1581 253 32 761 2320 751013096 751014648 0.000000e+00 1201.0
47 TraesCS2B01G567700 chr2A 79.118 1293 235 20 993 2275 751037312 751038579 0.000000e+00 859.0
48 TraesCS2B01G567700 chr2A 79.323 1064 196 16 993 2047 751171973 751173021 0.000000e+00 725.0
49 TraesCS2B01G567700 chr2A 89.071 549 46 5 948 1492 719798359 719797821 0.000000e+00 669.0
50 TraesCS2B01G567700 chr2A 79.249 906 159 21 5427 6317 751233973 751234864 8.220000e-169 604.0
51 TraesCS2B01G567700 chr2A 74.636 686 150 21 5495 6173 749954547 749955215 1.570000e-71 281.0
52 TraesCS2B01G567700 chr2A 80.702 171 24 5 377 538 719798836 719798666 2.810000e-24 124.0
53 TraesCS2B01G567700 chr2A 95.238 63 2 1 6632 6693 751169871 751169933 1.700000e-16 99.0
54 TraesCS2B01G567700 chr2A 96.552 58 1 1 6637 6693 751030901 751030958 2.200000e-15 95.3
55 TraesCS2B01G567700 chr2A 79.464 112 19 4 374 483 751037139 751037248 7.970000e-10 76.8
56 TraesCS2B01G567700 chr3B 88.725 1357 95 20 3977 5315 50189415 50188099 0.000000e+00 1605.0
57 TraesCS2B01G567700 chr3B 86.290 248 29 4 3509 3755 50189782 50189539 1.580000e-66 265.0
58 TraesCS2B01G567700 chr3B 88.318 214 24 1 7192 7405 753959084 753959296 9.530000e-64 255.0
59 TraesCS2B01G567700 chr3B 81.388 317 55 4 5013 5327 820106894 820107208 9.530000e-64 255.0
60 TraesCS2B01G567700 chr3B 81.661 289 47 6 3504 3789 820090882 820091167 1.240000e-57 235.0
61 TraesCS2B01G567700 chr7B 88.480 842 56 18 3958 4782 602312088 602311271 0.000000e+00 979.0
62 TraesCS2B01G567700 chr7B 93.500 400 26 0 6814 7213 242723558 242723159 4.950000e-166 595.0
63 TraesCS2B01G567700 chr7B 91.512 377 32 0 4949 5325 602311225 602310849 3.060000e-143 520.0
64 TraesCS2B01G567700 chr7B 86.242 298 31 8 4658 4952 62463975 62463685 1.550000e-81 315.0
65 TraesCS2B01G567700 chr7B 88.500 200 19 3 3492 3691 581892554 581892359 9.600000e-59 239.0
66 TraesCS2B01G567700 chr7B 87.603 121 10 2 7285 7405 242723152 242723037 1.300000e-27 135.0
67 TraesCS2B01G567700 chr7B 97.500 40 1 0 6776 6815 242723576 242723537 1.330000e-07 69.4
68 TraesCS2B01G567700 chr3A 88.480 842 56 18 3958 4782 734748465 734749282 0.000000e+00 979.0
69 TraesCS2B01G567700 chr3A 91.270 378 32 1 4949 5325 734749330 734749707 1.420000e-141 514.0
70 TraesCS2B01G567700 chr7A 84.729 1015 94 28 3963 4941 77736251 77737240 0.000000e+00 959.0
71 TraesCS2B01G567700 chr1B 84.380 589 89 3 6817 7404 430679967 430679381 6.440000e-160 575.0
72 TraesCS2B01G567700 chr1D 85.417 288 33 5 5043 5329 197724168 197723889 2.610000e-74 291.0
73 TraesCS2B01G567700 chr4D 89.048 210 20 3 3504 3711 487635565 487635773 2.650000e-64 257.0
74 TraesCS2B01G567700 chr5D 80.675 326 57 5 5006 5329 322952772 322952451 1.600000e-61 248.0
75 TraesCS2B01G567700 chr5D 85.714 119 14 3 4685 4802 563678781 563678665 1.010000e-23 122.0
76 TraesCS2B01G567700 chrUn 89.785 186 17 1 3504 3689 29973903 29973720 3.450000e-58 237.0
77 TraesCS2B01G567700 chr5A 85.714 224 19 11 3504 3720 695462822 695462605 2.690000e-54 224.0
78 TraesCS2B01G567700 chr5A 84.651 215 26 6 3504 3714 695553687 695553476 2.710000e-49 207.0
79 TraesCS2B01G567700 chr7D 90.116 172 15 2 4658 4827 73223967 73224138 9.670000e-54 222.0


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 TraesCS2B01G567700 chr2B 758665330 758672734 7404 False 4679.666667 13675 95.628667 1 7405 3 chr2B.!!$F1 7404
1 TraesCS2B01G567700 chr2B 707239048 707243142 4094 True 1261.666667 2641 84.691000 397 6361 3 chr2B.!!$R6 5964
2 TraesCS2B01G567700 chr2B 757907776 757908521 745 True 1155.000000 1155 94.562000 39 788 1 chr2B.!!$R4 749
3 TraesCS2B01G567700 chr2B 758894085 758897822 3737 False 752.000000 981 86.873000 993 6630 2 chr2B.!!$F2 5637
4 TraesCS2B01G567700 chr2B 706730221 706730981 760 True 621.000000 621 81.582000 5439 6201 1 chr2B.!!$R1 762
5 TraesCS2B01G567700 chr2B 706922019 706922916 897 True 619.000000 619 79.431000 5439 6338 1 chr2B.!!$R2 899
6 TraesCS2B01G567700 chr2B 706791434 706792898 1464 True 429.000000 721 79.531500 377 2323 2 chr2B.!!$R5 1946
7 TraesCS2B01G567700 chr2B 756603209 756603872 663 True 363.000000 363 76.968000 5498 6173 1 chr2B.!!$R3 675
8 TraesCS2B01G567700 chr2D 619565099 619574400 9301 False 2051.750000 5245 90.847500 19 6603 4 chr2D.!!$F3 6584
9 TraesCS2B01G567700 chr2D 585755574 585756441 867 True 1018.000000 1018 87.945000 957 1821 1 chr2D.!!$R6 864
10 TraesCS2B01G567700 chr2D 585748885 585751467 2582 True 809.666667 1022 85.862333 1928 6361 3 chr2D.!!$R8 4433
11 TraesCS2B01G567700 chr2D 585694936 585696165 1229 True 725.000000 725 77.567000 1017 2275 1 chr2D.!!$R4 1258
12 TraesCS2B01G567700 chr2D 440969684 440970272 588 True 686.000000 686 87.648000 6814 7404 1 chr2D.!!$R1 590
13 TraesCS2B01G567700 chr2D 585686134 585687023 889 True 623.000000 623 79.650000 5439 6338 1 chr2D.!!$R3 899
14 TraesCS2B01G567700 chr2D 468802537 468803345 808 True 492.000000 492 78.476000 3867 4658 1 chr2D.!!$R2 791
15 TraesCS2B01G567700 chr2D 646963431 646964219 788 True 460.000000 460 77.872000 3852 4658 1 chr2D.!!$R7 806
16 TraesCS2B01G567700 chr2D 457658941 457659603 662 False 370.000000 370 78.125000 4312 4930 1 chr2D.!!$F1 618
17 TraesCS2B01G567700 chr2D 619092515 619093182 667 False 318.000000 318 75.620000 5495 6173 1 chr2D.!!$F2 678
18 TraesCS2B01G567700 chr4A 731260327 731262139 1812 False 1192.333333 3208 95.408667 3504 5327 3 chr4A.!!$F1 1823
19 TraesCS2B01G567700 chr5B 420186344 420188152 1808 True 1169.333333 3181 93.422333 3504 5325 3 chr5B.!!$R1 1821
20 TraesCS2B01G567700 chr6B 59746273 59748040 1767 False 1115.666667 1927 97.196000 3503 5329 3 chr6B.!!$F1 1826
21 TraesCS2B01G567700 chr6B 581845566 581846155 589 True 880.000000 880 93.570000 6814 7404 1 chr6B.!!$R1 590
22 TraesCS2B01G567700 chr2A 751013096 751014648 1552 False 1201.000000 1201 80.898000 761 2320 1 chr2A.!!$F2 1559
23 TraesCS2B01G567700 chr2A 751028113 751030958 2845 False 977.100000 1430 94.034000 2600 6693 3 chr2A.!!$F4 4093
24 TraesCS2B01G567700 chr2A 751167146 751173021 5875 False 914.750000 1424 90.123500 993 6693 4 chr2A.!!$F6 5700
25 TraesCS2B01G567700 chr2A 719795830 719798836 3006 True 877.000000 1838 84.492667 377 3438 3 chr2A.!!$R1 3061
26 TraesCS2B01G567700 chr2A 751233973 751234864 891 False 604.000000 604 79.249000 5427 6317 1 chr2A.!!$F3 890
27 TraesCS2B01G567700 chr2A 751037139 751038579 1440 False 467.900000 859 79.291000 374 2275 2 chr2A.!!$F5 1901
28 TraesCS2B01G567700 chr2A 749954547 749955215 668 False 281.000000 281 74.636000 5495 6173 1 chr2A.!!$F1 678
29 TraesCS2B01G567700 chr3B 50188099 50189782 1683 True 935.000000 1605 87.507500 3509 5315 2 chr3B.!!$R1 1806
30 TraesCS2B01G567700 chr7B 602310849 602312088 1239 True 749.500000 979 89.996000 3958 5325 2 chr7B.!!$R4 1367
31 TraesCS2B01G567700 chr7B 242723037 242723576 539 True 266.466667 595 92.867667 6776 7405 3 chr7B.!!$R3 629
32 TraesCS2B01G567700 chr3A 734748465 734749707 1242 False 746.500000 979 89.875000 3958 5325 2 chr3A.!!$F1 1367
33 TraesCS2B01G567700 chr7A 77736251 77737240 989 False 959.000000 959 84.729000 3963 4941 1 chr7A.!!$F1 978
34 TraesCS2B01G567700 chr1B 430679381 430679967 586 True 575.000000 575 84.380000 6817 7404 1 chr1B.!!$R1 587

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
224 236 0.250038 TATCAATCAGGCTCAGGCGC 60.250 55.0 0.00 0.00 39.81 6.53 F
846 1010 0.252197 ATCTTGGACAAGCCGGGTAC 59.748 55.0 6.57 1.27 40.66 3.34 F
862 1026 0.317479 GTACTCCACACCGCAGAACT 59.683 55.0 0.00 0.00 0.00 3.01 F
1086 2530 0.677288 GCCTAACACCCACAAAACCC 59.323 55.0 0.00 0.00 0.00 4.11 F
2154 3636 0.108424 GCAGTCTTGGCAGTCTCGAT 60.108 55.0 0.00 0.00 0.00 3.59 F
2894 4409 0.174845 TGAAGATTGTACTCCCGGCG 59.825 55.0 0.00 0.00 0.00 6.46 F
3359 4895 0.332632 CTGGGCAAGGGATTGAGGAA 59.667 55.0 0.00 0.00 0.00 3.36 F
3409 4946 0.591170 TTGCAGCACCGAAACTTAGC 59.409 50.0 0.00 0.00 0.00 3.09 F
5217 6975 0.306533 ACAACGTGATTTGCACCGTC 59.693 50.0 0.00 0.00 44.85 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1637 3119 0.027979 CACGTTGTTGACCAGTGCAG 59.972 55.000 0.00 0.00 0.00 4.41 R
1764 3246 0.106708 CCATGCCCGTATAGTGCAGT 59.893 55.000 0.00 0.00 38.58 4.40 R
2154 3636 1.538512 CTCGAACTGTCTCCAACCGTA 59.461 52.381 0.00 0.00 0.00 4.02 R
2894 4409 1.202770 AGTACCAACAGACAAGCCACC 60.203 52.381 0.00 0.00 0.00 4.61 R
3028 4557 2.358247 TGACCTTTCCTTCGGCGC 60.358 61.111 0.00 0.00 0.00 6.53 R
3764 5302 6.392625 CTCCGTCTGTGAGGAAAATATCTA 57.607 41.667 0.00 0.00 35.90 1.98 R
5217 6975 0.179156 CTTGGCTTTGGCGTGCATAG 60.179 55.000 0.00 0.00 39.81 2.23 R
5548 7306 6.834959 TGCTTTGAGATCTCGATGAATTAC 57.165 37.500 23.71 10.28 0.00 1.89 R
6771 9473 0.030908 GTTCAGATACGAGCTCCGGG 59.969 60.000 8.47 0.00 43.93 5.73 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
110 118 3.619038 CACTCCCGTTAATTTCTCTGCTC 59.381 47.826 0.00 0.00 0.00 4.26
219 231 3.317149 GCTGCAAATATCAATCAGGCTCA 59.683 43.478 0.00 0.00 0.00 4.26
221 233 3.887110 TGCAAATATCAATCAGGCTCAGG 59.113 43.478 0.00 0.00 0.00 3.86
222 234 3.305199 GCAAATATCAATCAGGCTCAGGC 60.305 47.826 0.00 0.00 37.82 4.85
223 235 2.469274 ATATCAATCAGGCTCAGGCG 57.531 50.000 0.00 0.00 39.81 5.52
224 236 0.250038 TATCAATCAGGCTCAGGCGC 60.250 55.000 0.00 0.00 39.81 6.53
225 237 1.980784 ATCAATCAGGCTCAGGCGCT 61.981 55.000 7.64 0.00 39.81 5.92
240 252 2.376808 GCGCTCAGCCATGACTATAT 57.623 50.000 0.00 0.00 40.81 0.86
375 387 4.751060 TCATTTATATATGTCCGGCGACC 58.249 43.478 9.30 0.00 38.32 4.79
524 546 3.083293 TGCTCTTCACAAGCATATGCAA 58.917 40.909 28.62 13.12 44.51 4.08
575 735 3.007182 CCTTGGTCTGCAAAAATCCACAT 59.993 43.478 0.00 0.00 0.00 3.21
713 876 2.997303 GACTTACACACACACACACACA 59.003 45.455 0.00 0.00 0.00 3.72
729 892 1.063266 ACACACACACCCCTTGGAAAT 60.063 47.619 0.00 0.00 34.81 2.17
842 1006 3.545703 AGAATTATCTTGGACAAGCCGG 58.454 45.455 7.18 0.00 40.66 6.13
844 1008 0.988832 TTATCTTGGACAAGCCGGGT 59.011 50.000 0.00 0.00 40.66 5.28
846 1010 0.252197 ATCTTGGACAAGCCGGGTAC 59.748 55.000 6.57 1.27 40.66 3.34
847 1011 0.834687 TCTTGGACAAGCCGGGTACT 60.835 55.000 6.57 0.00 40.66 2.73
850 1014 2.288025 GGACAAGCCGGGTACTCCA 61.288 63.158 19.88 0.00 34.36 3.86
853 1017 1.375523 CAAGCCGGGTACTCCACAC 60.376 63.158 6.57 0.00 34.36 3.82
854 1018 2.590114 AAGCCGGGTACTCCACACC 61.590 63.158 6.57 0.00 34.36 4.16
855 1019 4.446413 GCCGGGTACTCCACACCG 62.446 72.222 2.18 0.00 45.57 4.94
857 1021 3.687102 CGGGTACTCCACACCGCA 61.687 66.667 0.00 0.00 39.85 5.69
859 1023 2.280552 GGGTACTCCACACCGCAGA 61.281 63.158 0.00 0.00 36.89 4.26
861 1025 0.669625 GGTACTCCACACCGCAGAAC 60.670 60.000 0.00 0.00 0.00 3.01
862 1026 0.317479 GTACTCCACACCGCAGAACT 59.683 55.000 0.00 0.00 0.00 3.01
1038 2482 3.333680 TCCCAGCTTTTATCCTCCTGTTT 59.666 43.478 0.00 0.00 0.00 2.83
1086 2530 0.677288 GCCTAACACCCACAAAACCC 59.323 55.000 0.00 0.00 0.00 4.11
1089 2533 2.673258 CTAACACCCACAAAACCCCTT 58.327 47.619 0.00 0.00 0.00 3.95
1410 2860 0.695924 TGGTCATCCGGTTGTCCAAT 59.304 50.000 23.76 0.00 32.89 3.16
1471 2921 2.590611 ACCCTCCTCCCTAACATGACTA 59.409 50.000 0.00 0.00 0.00 2.59
1556 3038 0.680280 TCCACTGGCGACTACTCCTC 60.680 60.000 0.00 0.00 0.00 3.71
1637 3119 3.117171 CAGAGCTGCGTGGACTGC 61.117 66.667 0.00 0.00 34.97 4.40
1665 3147 3.319689 TGGTCAACAACGTGTATCAGAGA 59.680 43.478 0.00 0.00 0.00 3.10
1675 3157 2.668457 GTGTATCAGAGAAACACTGGCG 59.332 50.000 6.33 0.00 40.25 5.69
1699 3181 5.107875 GCCTTCATGTTCGAAACAATTGAAC 60.108 40.000 13.59 6.24 45.86 3.18
1707 3189 4.124238 TCGAAACAATTGAACGAAGAGGT 58.876 39.130 13.59 0.00 0.00 3.85
1719 3201 3.093057 ACGAAGAGGTGCTGAGTTCTAT 58.907 45.455 0.00 0.00 0.00 1.98
1764 3246 2.351418 CTCACCAAATATGCTCGCGAAA 59.649 45.455 11.33 1.05 0.00 3.46
1849 3331 2.118679 TCATGGAGTACCCCAGTCATG 58.881 52.381 1.46 0.00 39.97 3.07
2151 3633 2.615869 CTAAGCAGTCTTGGCAGTCTC 58.384 52.381 0.00 0.00 33.85 3.36
2154 3636 0.108424 GCAGTCTTGGCAGTCTCGAT 60.108 55.000 0.00 0.00 0.00 3.59
2221 3703 0.835971 TGACACAGGGAAGCCTGCTA 60.836 55.000 0.00 0.00 41.12 3.49
2228 3710 1.746991 GGAAGCCTGCTAGTGGTGC 60.747 63.158 0.00 0.00 0.00 5.01
2278 3760 1.604278 GCTCATCCGGTATTTGCCTTC 59.396 52.381 0.00 0.00 0.00 3.46
2308 3808 5.242171 CCCATCTTAATGATTATGCAGTGCA 59.758 40.000 22.22 22.22 37.82 4.57
2341 3841 8.268605 TGCCTGTTGATGTAAGTTTATATGGTA 58.731 33.333 0.00 0.00 0.00 3.25
2560 4074 2.323999 TCCCCACCTTGCATCAAAAT 57.676 45.000 0.00 0.00 0.00 1.82
2562 4076 2.181975 CCCCACCTTGCATCAAAATCT 58.818 47.619 0.00 0.00 0.00 2.40
2593 4107 7.041098 TGTTTTCAGATTCTGCTTCTTTAGGAC 60.041 37.037 8.89 0.00 0.00 3.85
2760 4274 1.816835 CCAGAGTTTGCAGTGCATGAT 59.183 47.619 20.50 7.44 38.76 2.45
2894 4409 0.174845 TGAAGATTGTACTCCCGGCG 59.825 55.000 0.00 0.00 0.00 6.46
3124 4656 4.918810 ACTTCCATCTGTTGGTTTTGAC 57.081 40.909 4.76 0.00 46.52 3.18
3359 4895 0.332632 CTGGGCAAGGGATTGAGGAA 59.667 55.000 0.00 0.00 0.00 3.36
3409 4946 0.591170 TTGCAGCACCGAAACTTAGC 59.409 50.000 0.00 0.00 0.00 3.09
3495 5032 2.110721 AGGAGTTTGGATGCCTTCCTTT 59.889 45.455 4.59 0.00 45.68 3.11
3496 5033 2.899900 GGAGTTTGGATGCCTTCCTTTT 59.100 45.455 4.59 0.00 45.68 2.27
3497 5034 3.324846 GGAGTTTGGATGCCTTCCTTTTT 59.675 43.478 4.59 0.00 45.68 1.94
3498 5035 4.309933 GAGTTTGGATGCCTTCCTTTTTG 58.690 43.478 4.59 0.00 45.68 2.44
3499 5036 3.071457 AGTTTGGATGCCTTCCTTTTTGG 59.929 43.478 4.59 0.00 45.68 3.28
3500 5037 2.397044 TGGATGCCTTCCTTTTTGGT 57.603 45.000 4.59 0.00 45.68 3.67
3501 5038 3.534357 TGGATGCCTTCCTTTTTGGTA 57.466 42.857 4.59 0.00 45.68 3.25
3502 5039 4.059773 TGGATGCCTTCCTTTTTGGTAT 57.940 40.909 4.59 0.00 45.68 2.73
3764 5302 2.427506 GAAAAAGACCCTGTCAGCGAT 58.572 47.619 0.00 0.00 34.60 4.58
5217 6975 0.306533 ACAACGTGATTTGCACCGTC 59.693 50.000 0.00 0.00 44.85 4.79
5548 7306 6.881065 TCTCCACCAAGATTCAAGATTAACAG 59.119 38.462 0.00 0.00 0.00 3.16
5702 7468 9.095700 TGGGACATAGTAAGTAATATATGCACA 57.904 33.333 0.00 0.00 0.00 4.57
5965 7756 4.154015 TCAACGGCTTAAACACTCATGATG 59.846 41.667 0.00 0.00 0.00 3.07
6019 7813 3.824133 CATGGAGCTTATGGGTTGATGA 58.176 45.455 0.00 0.00 0.00 2.92
6024 7818 6.430864 TGGAGCTTATGGGTTGATGAAAATA 58.569 36.000 0.00 0.00 0.00 1.40
6046 7840 1.076014 GGGAATTGGTGGACCGGTT 59.924 57.895 9.42 0.00 39.43 4.44
6074 7868 3.584406 TGGAGAGTTGTCCACTTGATGAT 59.416 43.478 0.00 0.00 41.99 2.45
6119 7913 2.213499 CTCCTGTGTGTTCAAGACCAC 58.787 52.381 0.00 0.00 33.02 4.16
6210 8004 5.766590 CCCCCAAGAAACCTACATATTTCT 58.233 41.667 0.00 0.00 45.03 2.52
6215 8009 7.066284 CCCAAGAAACCTACATATTTCTCACTG 59.934 40.741 0.05 0.00 42.89 3.66
6310 8112 5.470777 TGGAGGGACGTTAAATGTTTAGTTG 59.529 40.000 0.00 0.00 0.00 3.16
6368 8174 3.861886 GCAGTTGGGTGATTCATGTTTGG 60.862 47.826 0.00 0.00 0.00 3.28
6370 8176 3.573967 AGTTGGGTGATTCATGTTTGGAC 59.426 43.478 0.00 0.00 0.00 4.02
6390 8197 2.233431 ACACACAAACAAGTGCACCATT 59.767 40.909 14.63 2.28 43.23 3.16
6391 8198 2.604011 CACACAAACAAGTGCACCATTG 59.396 45.455 14.63 14.98 43.23 2.82
6393 8200 3.056250 ACACAAACAAGTGCACCATTGAA 60.056 39.130 21.71 0.00 43.23 2.69
6394 8201 3.306703 CACAAACAAGTGCACCATTGAAC 59.693 43.478 21.71 0.00 32.04 3.18
6396 8203 3.441496 AACAAGTGCACCATTGAACAG 57.559 42.857 21.71 0.00 32.86 3.16
6397 8204 2.653726 ACAAGTGCACCATTGAACAGA 58.346 42.857 21.71 0.00 32.86 3.41
6399 8206 3.638160 ACAAGTGCACCATTGAACAGATT 59.362 39.130 21.71 0.27 32.86 2.40
6403 8210 3.989817 GTGCACCATTGAACAGATTTTCC 59.010 43.478 5.22 0.00 30.37 3.13
6404 8211 3.896888 TGCACCATTGAACAGATTTTCCT 59.103 39.130 0.00 0.00 0.00 3.36
6406 8213 5.716228 TGCACCATTGAACAGATTTTCCTAT 59.284 36.000 0.00 0.00 0.00 2.57
6407 8214 6.889177 TGCACCATTGAACAGATTTTCCTATA 59.111 34.615 0.00 0.00 0.00 1.31
6409 8216 9.066892 GCACCATTGAACAGATTTTCCTATATA 57.933 33.333 0.00 0.00 0.00 0.86
6494 8388 3.383761 GTTTTCCTTTGTCGGTCGAGTA 58.616 45.455 0.00 0.00 0.00 2.59
6543 8437 6.095432 TGGTTTTATGGTGGACATTTTGAG 57.905 37.500 0.00 0.00 41.03 3.02
6606 8501 9.865321 GTAATAGTACTCACAAATAAGTGGTGA 57.135 33.333 0.00 0.00 39.93 4.02
6610 8505 6.929606 AGTACTCACAAATAAGTGGTGAAGAC 59.070 38.462 0.00 0.00 40.67 3.01
6638 8538 7.712264 TTTTGTGGAAAGATGTAAGCAAATG 57.288 32.000 0.00 0.00 0.00 2.32
6639 8539 6.403866 TTGTGGAAAGATGTAAGCAAATGT 57.596 33.333 0.00 0.00 0.00 2.71
6698 9138 1.275573 GCCCGTTTCTCTACTGAAGGT 59.724 52.381 0.00 0.00 0.00 3.50
6702 9142 3.576648 CGTTTCTCTACTGAAGGTCCAC 58.423 50.000 0.00 0.00 0.00 4.02
6714 9154 2.622064 AGGTCCACGAAAGGATATGC 57.378 50.000 0.00 0.00 40.42 3.14
6715 9155 2.119495 AGGTCCACGAAAGGATATGCT 58.881 47.619 0.00 0.00 40.42 3.79
6716 9156 2.158900 AGGTCCACGAAAGGATATGCTG 60.159 50.000 0.00 0.00 40.42 4.41
6720 9160 0.546122 ACGAAAGGATATGCTGCCCA 59.454 50.000 0.00 0.00 0.00 5.36
6721 9161 1.143684 ACGAAAGGATATGCTGCCCAT 59.856 47.619 0.00 0.00 37.97 4.00
6722 9162 2.233271 CGAAAGGATATGCTGCCCATT 58.767 47.619 0.00 0.00 35.34 3.16
6724 9164 2.761786 AAGGATATGCTGCCCATTGT 57.238 45.000 0.00 0.00 35.34 2.71
6725 9165 3.882102 AAGGATATGCTGCCCATTGTA 57.118 42.857 0.00 0.00 35.34 2.41
6726 9166 3.430042 AGGATATGCTGCCCATTGTAG 57.570 47.619 0.00 0.00 35.34 2.74
6733 9173 2.660189 CTGCCCATTGTAGCTTTTGG 57.340 50.000 0.00 0.00 0.00 3.28
6736 9176 0.536724 CCCATTGTAGCTTTTGGGCC 59.463 55.000 0.00 0.00 42.23 5.80
6758 9460 0.976073 TTTTGGGCCCGGTGACAAAA 60.976 50.000 19.37 14.19 39.61 2.44
6760 9462 0.760945 TTGGGCCCGGTGACAAAAAT 60.761 50.000 19.37 0.00 0.00 1.82
6766 9468 2.035321 GCCCGGTGACAAAAATGAGAAA 59.965 45.455 0.00 0.00 0.00 2.52
6767 9469 3.306019 GCCCGGTGACAAAAATGAGAAAT 60.306 43.478 0.00 0.00 0.00 2.17
6768 9470 4.236935 CCCGGTGACAAAAATGAGAAATG 58.763 43.478 0.00 0.00 0.00 2.32
6769 9471 4.236935 CCGGTGACAAAAATGAGAAATGG 58.763 43.478 0.00 0.00 0.00 3.16
6770 9472 4.236935 CGGTGACAAAAATGAGAAATGGG 58.763 43.478 0.00 0.00 0.00 4.00
6771 9473 3.996363 GGTGACAAAAATGAGAAATGGGC 59.004 43.478 0.00 0.00 0.00 5.36
6772 9474 3.996363 GTGACAAAAATGAGAAATGGGCC 59.004 43.478 0.00 0.00 0.00 5.80
6773 9475 3.007831 TGACAAAAATGAGAAATGGGCCC 59.992 43.478 17.59 17.59 0.00 5.80
6774 9476 2.028203 ACAAAAATGAGAAATGGGCCCG 60.028 45.455 19.37 0.00 0.00 6.13
6786 9488 2.913060 GGCCCGGAGCTCGTATCT 60.913 66.667 0.73 0.00 43.05 1.98
6839 9541 0.823356 ACACAACAGCCACATGGGAC 60.823 55.000 0.00 0.00 40.01 4.46
6873 10424 7.624549 ACTTTCTGCAATCTTCCTAACTATCA 58.375 34.615 0.00 0.00 0.00 2.15
6963 10626 1.412710 AGAGAAGCGGTCAGTTCACAA 59.587 47.619 0.00 0.00 0.00 3.33
7028 13555 0.540597 AAGCTTGGTTGGAAGGAGGC 60.541 55.000 0.00 0.00 0.00 4.70
7087 13650 1.541147 GAAGCAGCTATGGCAAACACA 59.459 47.619 3.10 0.00 41.70 3.72
7117 13695 9.369672 ACCAGGTAAAACCAGAATGTTTTTATA 57.630 29.630 7.14 0.00 43.90 0.98
7165 13764 1.035923 GAGGATGTCCGAGCTCATCA 58.964 55.000 15.40 9.56 41.26 3.07
7305 13904 2.001812 GCATCTGCGAGAGACTTCAA 57.998 50.000 0.00 0.00 31.75 2.69
7359 13958 6.915544 TGAAAGACTCATTATCACATGCTC 57.084 37.500 0.00 0.00 0.00 4.26
7379 13978 3.745799 TCCATTTGTCAAGCTTTCGGTA 58.254 40.909 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.004927 GGTTCACGAGAATGCGTATGC 60.005 52.381 0.00 0.00 43.59 3.14
3 4 1.593006 GGGTTCACGAGAATGCGTATG 59.407 52.381 0.00 0.00 43.59 2.39
4 5 1.480954 AGGGTTCACGAGAATGCGTAT 59.519 47.619 0.00 0.00 43.59 3.06
5 6 0.892755 AGGGTTCACGAGAATGCGTA 59.107 50.000 0.00 0.00 43.59 4.42
6 7 0.034896 AAGGGTTCACGAGAATGCGT 59.965 50.000 0.00 0.00 46.88 5.24
7 8 1.156736 AAAGGGTTCACGAGAATGCG 58.843 50.000 0.00 0.00 35.92 4.73
9 10 3.684788 CAGGTAAAGGGTTCACGAGAATG 59.315 47.826 0.00 0.00 35.92 2.67
11 12 2.701951 ACAGGTAAAGGGTTCACGAGAA 59.298 45.455 0.00 0.00 0.00 2.87
12 13 2.322658 ACAGGTAAAGGGTTCACGAGA 58.677 47.619 0.00 0.00 0.00 4.04
13 14 2.806244 CAACAGGTAAAGGGTTCACGAG 59.194 50.000 0.00 0.00 0.00 4.18
14 15 2.171027 ACAACAGGTAAAGGGTTCACGA 59.829 45.455 0.00 0.00 0.00 4.35
110 118 4.389576 GCTTTGACCTGCACGGCG 62.390 66.667 4.80 4.80 35.61 6.46
221 233 2.266554 GATATAGTCATGGCTGAGCGC 58.733 52.381 10.89 0.00 38.13 5.92
222 234 2.495270 AGGATATAGTCATGGCTGAGCG 59.505 50.000 10.89 0.00 30.18 5.03
223 235 3.260380 ACAGGATATAGTCATGGCTGAGC 59.740 47.826 10.89 0.00 42.75 4.26
224 236 4.525874 TCACAGGATATAGTCATGGCTGAG 59.474 45.833 10.89 0.00 42.75 3.35
225 237 4.482990 TCACAGGATATAGTCATGGCTGA 58.517 43.478 10.89 0.00 42.75 4.26
240 252 3.138283 ACCAAGAAATGAACCTCACAGGA 59.862 43.478 0.00 0.00 37.67 3.86
375 387 4.611516 CGTAATCACGCGTTTTATATCCG 58.388 43.478 10.22 7.00 42.05 4.18
524 546 8.282256 AGAACCAATACATATTAGGCCTTCTTT 58.718 33.333 12.58 0.00 0.00 2.52
575 735 4.251103 TCAGCATTCCTACTGGTCTCTA 57.749 45.455 0.00 0.00 34.57 2.43
713 876 2.046292 CCAAATTTCCAAGGGGTGTGT 58.954 47.619 0.00 0.00 34.93 3.72
729 892 6.350110 GCTATACAGGAATTTTGCACTCCAAA 60.350 38.462 6.20 0.00 41.48 3.28
842 1006 0.669625 GTTCTGCGGTGTGGAGTACC 60.670 60.000 0.00 0.00 37.31 3.34
844 1008 0.317160 CAGTTCTGCGGTGTGGAGTA 59.683 55.000 0.00 0.00 37.31 2.59
846 1010 0.317160 TACAGTTCTGCGGTGTGGAG 59.683 55.000 0.00 0.00 37.38 3.86
847 1011 0.032952 GTACAGTTCTGCGGTGTGGA 59.967 55.000 0.00 0.00 0.00 4.02
850 1014 1.037493 TCAGTACAGTTCTGCGGTGT 58.963 50.000 2.30 0.00 33.48 4.16
853 1017 0.317160 TGGTCAGTACAGTTCTGCGG 59.683 55.000 2.30 0.00 33.48 5.69
854 1018 1.792949 GTTGGTCAGTACAGTTCTGCG 59.207 52.381 2.30 0.00 33.48 5.18
855 1019 3.113260 AGTTGGTCAGTACAGTTCTGC 57.887 47.619 2.30 0.00 33.48 4.26
857 1021 5.244178 CCTTCTAGTTGGTCAGTACAGTTCT 59.756 44.000 0.00 0.00 0.00 3.01
859 1023 4.262506 GCCTTCTAGTTGGTCAGTACAGTT 60.263 45.833 0.00 0.00 0.00 3.16
861 1025 3.258372 TGCCTTCTAGTTGGTCAGTACAG 59.742 47.826 0.00 0.00 0.00 2.74
862 1026 3.006537 GTGCCTTCTAGTTGGTCAGTACA 59.993 47.826 0.00 0.00 0.00 2.90
1086 2530 4.778143 CTGTCGCCGGGGGAAAGG 62.778 72.222 20.73 8.64 0.00 3.11
1410 2860 0.911053 TCTGCCATATGTCTGTGCCA 59.089 50.000 1.24 0.00 0.00 4.92
1471 2921 0.814457 TTTTTGCTGCTCAACGGTGT 59.186 45.000 0.00 0.00 33.73 4.16
1556 3038 3.245668 AAGCTGGAGTCACTGCCCG 62.246 63.158 0.00 0.00 36.14 6.13
1637 3119 0.027979 CACGTTGTTGACCAGTGCAG 59.972 55.000 0.00 0.00 0.00 4.41
1665 3147 0.823356 ACATGAAGGCGCCAGTGTTT 60.823 50.000 31.54 14.25 0.00 2.83
1675 3157 4.545610 TCAATTGTTTCGAACATGAAGGC 58.454 39.130 5.13 0.00 41.79 4.35
1699 3181 3.791973 ATAGAACTCAGCACCTCTTCG 57.208 47.619 0.00 0.00 0.00 3.79
1707 3189 7.013942 ACGGTGTATGTTATATAGAACTCAGCA 59.986 37.037 20.39 10.66 0.00 4.41
1719 3201 5.740803 GCCATTGGAGACGGTGTATGTTATA 60.741 44.000 6.95 0.00 0.00 0.98
1757 3239 1.541475 CGTATAGTGCAGTTTCGCGA 58.459 50.000 3.71 3.71 33.35 5.87
1764 3246 0.106708 CCATGCCCGTATAGTGCAGT 59.893 55.000 0.00 0.00 38.58 4.40
2002 3484 8.892723 CATGCCAGACAAAGTTATGAAACTATA 58.107 33.333 0.00 0.00 45.37 1.31
2151 3633 2.527100 GAACTGTCTCCAACCGTATCG 58.473 52.381 0.00 0.00 0.00 2.92
2154 3636 1.538512 CTCGAACTGTCTCCAACCGTA 59.461 52.381 0.00 0.00 0.00 4.02
2221 3703 5.705905 GGTAAAGATTTTCACTAGCACCACT 59.294 40.000 0.00 0.00 0.00 4.00
2228 3710 8.943909 AATACGGAGGTAAAGATTTTCACTAG 57.056 34.615 0.00 0.00 31.15 2.57
2278 3760 6.947733 TGCATAATCATTAAGATGGGTAAGGG 59.052 38.462 0.00 0.00 36.96 3.95
2308 3808 6.594788 ACTTACATCAACAGGCAATCAATT 57.405 33.333 0.00 0.00 0.00 2.32
2351 3851 4.600012 AATTGTAACTGCGACATGCTAC 57.400 40.909 0.00 0.00 46.63 3.58
2357 3857 4.049869 TGAACGTAATTGTAACTGCGACA 58.950 39.130 0.00 0.00 0.00 4.35
2418 3932 4.207165 AGTACCATATTCAACATGGCACC 58.793 43.478 0.00 0.00 45.85 5.01
2497 4011 5.450818 ACAGGCCAGGAATAAAACAGATA 57.549 39.130 5.01 0.00 0.00 1.98
2560 4074 5.371526 AGCAGAATCTGAAAACAAGACAGA 58.628 37.500 15.38 0.00 43.25 3.41
2562 4076 5.824624 AGAAGCAGAATCTGAAAACAAGACA 59.175 36.000 15.38 0.00 32.44 3.41
2723 4237 9.994432 CAAACTCTGGATAAACAATCATTACTC 57.006 33.333 0.00 0.00 36.20 2.59
2894 4409 1.202770 AGTACCAACAGACAAGCCACC 60.203 52.381 0.00 0.00 0.00 4.61
3028 4557 2.358247 TGACCTTTCCTTCGGCGC 60.358 61.111 0.00 0.00 0.00 6.53
3118 4650 4.891627 TGCAGTGAGAATTTCGTCAAAA 57.108 36.364 0.00 0.00 0.00 2.44
3124 4656 4.350346 TGTTTGTTGCAGTGAGAATTTCG 58.650 39.130 0.00 0.00 0.00 3.46
3272 4806 3.498774 ATTCCCTACATGAGCACATCC 57.501 47.619 0.00 0.00 34.15 3.51
3409 4946 3.334583 TGCAGTAACCAAGAAGCCTAG 57.665 47.619 0.00 0.00 0.00 3.02
3495 5032 6.429692 CAGTGGTGTAATTGACTCATACCAAA 59.570 38.462 0.00 0.00 38.34 3.28
3496 5033 5.937540 CAGTGGTGTAATTGACTCATACCAA 59.062 40.000 0.00 0.00 38.34 3.67
3497 5034 5.487433 CAGTGGTGTAATTGACTCATACCA 58.513 41.667 0.00 0.00 34.61 3.25
3498 5035 4.876107 CCAGTGGTGTAATTGACTCATACC 59.124 45.833 0.00 0.00 0.00 2.73
3499 5036 5.488341 ACCAGTGGTGTAATTGACTCATAC 58.512 41.667 15.86 0.00 32.98 2.39
3500 5037 5.755409 ACCAGTGGTGTAATTGACTCATA 57.245 39.130 15.86 0.00 32.98 2.15
3501 5038 4.640771 ACCAGTGGTGTAATTGACTCAT 57.359 40.909 15.86 0.00 32.98 2.90
3764 5302 6.392625 CTCCGTCTGTGAGGAAAATATCTA 57.607 41.667 0.00 0.00 35.90 1.98
4002 5588 6.919662 CCCACTTAAGTCGAAGCGTTATATAA 59.080 38.462 4.77 0.00 0.00 0.98
5217 6975 0.179156 CTTGGCTTTGGCGTGCATAG 60.179 55.000 0.00 0.00 39.81 2.23
5548 7306 6.834959 TGCTTTGAGATCTCGATGAATTAC 57.165 37.500 23.71 10.28 0.00 1.89
5584 7342 1.503542 GGCTCATTTGTGCGTCCAG 59.496 57.895 0.00 0.00 35.57 3.86
5589 7347 3.508744 ATTTTAGGGCTCATTTGTGCG 57.491 42.857 0.00 0.00 35.57 5.34
5702 7468 3.652057 ATACCACACTGCAAATAGCCT 57.348 42.857 0.00 0.00 44.83 4.58
5965 7756 8.706035 CAAGTGAAATCAATTTCTGGTCAAATC 58.294 33.333 14.67 0.00 44.85 2.17
6019 7813 4.530553 GGTCCACCAATTCCCTTGTATTTT 59.469 41.667 0.00 0.00 35.64 1.82
6024 7818 0.251165 CGGTCCACCAATTCCCTTGT 60.251 55.000 0.00 0.00 35.14 3.16
6046 7840 1.208706 TGGACAACTCTCCACAACCA 58.791 50.000 0.00 0.00 35.23 3.67
6119 7913 1.758122 GGGTGGCCTAGCATTTGGG 60.758 63.158 3.32 0.00 0.00 4.12
6210 8004 1.065926 AGCTTCATGATTCCGCAGTGA 60.066 47.619 0.00 0.00 0.00 3.41
6215 8009 2.031437 GTCTTCAGCTTCATGATTCCGC 59.969 50.000 0.00 0.00 0.00 5.54
6310 8112 1.219646 TACGAAACAAGGGACAACGC 58.780 50.000 0.00 0.00 0.00 4.84
6368 8174 1.201181 TGGTGCACTTGTTTGTGTGTC 59.799 47.619 17.98 0.00 39.89 3.67
6370 8176 2.582728 ATGGTGCACTTGTTTGTGTG 57.417 45.000 17.98 0.00 39.89 3.82
6411 8218 8.983724 CCACGTAAAATTTAACATCCAAACATT 58.016 29.630 0.00 0.00 0.00 2.71
6412 8219 8.145122 ACCACGTAAAATTTAACATCCAAACAT 58.855 29.630 0.00 0.00 0.00 2.71
6413 8220 7.490000 ACCACGTAAAATTTAACATCCAAACA 58.510 30.769 0.00 0.00 0.00 2.83
6416 8223 7.490000 ACAACCACGTAAAATTTAACATCCAA 58.510 30.769 0.00 0.00 0.00 3.53
6417 8224 7.040473 ACAACCACGTAAAATTTAACATCCA 57.960 32.000 0.00 0.00 0.00 3.41
6418 8225 7.933728 AACAACCACGTAAAATTTAACATCC 57.066 32.000 0.00 0.00 0.00 3.51
6455 8349 6.490381 AGGAAAACCTGAACCAGAAATCTTAC 59.510 38.462 0.00 0.00 32.44 2.34
6459 8353 5.791336 AAGGAAAACCTGAACCAGAAATC 57.209 39.130 0.00 0.00 32.44 2.17
6494 8388 8.622948 AAGCTTTCAGCATACTACTTTAACTT 57.377 30.769 0.00 0.00 45.56 2.66
6520 8414 5.600484 ACTCAAAATGTCCACCATAAAACCA 59.400 36.000 0.00 0.00 31.97 3.67
6543 8437 5.010820 AGGAAGTATATGCTTCTCGGGTTAC 59.989 44.000 26.34 11.92 43.13 2.50
6652 9056 0.321919 TCCGCTCTCTTGCATTTGCT 60.322 50.000 3.94 0.00 42.66 3.91
6698 9138 1.475034 GGCAGCATATCCTTTCGTGGA 60.475 52.381 0.00 0.00 40.82 4.02
6702 9142 1.901591 ATGGGCAGCATATCCTTTCG 58.098 50.000 0.00 0.00 0.00 3.46
6714 9154 1.205417 CCCAAAAGCTACAATGGGCAG 59.795 52.381 11.70 0.00 45.56 4.85
6715 9155 1.265236 CCCAAAAGCTACAATGGGCA 58.735 50.000 11.70 0.00 45.56 5.36
6720 9160 0.611896 AGCGGCCCAAAAGCTACAAT 60.612 50.000 0.00 0.00 39.74 2.71
6721 9161 0.825840 AAGCGGCCCAAAAGCTACAA 60.826 50.000 2.27 0.00 40.78 2.41
6722 9162 0.825840 AAAGCGGCCCAAAAGCTACA 60.826 50.000 2.27 0.00 40.78 2.74
6724 9164 0.316841 CAAAAGCGGCCCAAAAGCTA 59.683 50.000 2.27 0.00 40.78 3.32
6725 9165 1.069596 CAAAAGCGGCCCAAAAGCT 59.930 52.632 0.00 0.00 43.90 3.74
6726 9166 1.960763 CCAAAAGCGGCCCAAAAGC 60.961 57.895 0.00 0.00 0.00 3.51
6727 9167 1.301637 CCCAAAAGCGGCCCAAAAG 60.302 57.895 0.00 0.00 0.00 2.27
6758 9460 0.106519 CTCCGGGCCCATTTCTCATT 60.107 55.000 24.92 0.00 0.00 2.57
6760 9462 2.998097 CTCCGGGCCCATTTCTCA 59.002 61.111 24.92 0.00 0.00 3.27
6766 9468 4.853142 TACGAGCTCCGGGCCCAT 62.853 66.667 24.92 0.51 43.93 4.00
6767 9469 4.853142 ATACGAGCTCCGGGCCCA 62.853 66.667 24.92 0.93 43.93 5.36
6768 9470 3.992317 GATACGAGCTCCGGGCCC 61.992 72.222 13.57 13.57 43.93 5.80
6769 9471 2.913060 AGATACGAGCTCCGGGCC 60.913 66.667 8.47 0.00 43.93 5.80
6770 9472 1.735376 TTCAGATACGAGCTCCGGGC 61.735 60.000 8.47 3.80 43.93 6.13
6771 9473 0.030908 GTTCAGATACGAGCTCCGGG 59.969 60.000 8.47 0.00 43.93 5.73
6772 9474 1.025812 AGTTCAGATACGAGCTCCGG 58.974 55.000 8.47 0.00 43.93 5.14
6773 9475 1.671328 TCAGTTCAGATACGAGCTCCG 59.329 52.381 8.47 6.07 45.44 4.63
6774 9476 4.757657 TCTATCAGTTCAGATACGAGCTCC 59.242 45.833 8.47 0.00 0.00 4.70
6786 9488 4.631131 CTGTTGTGTGGTCTATCAGTTCA 58.369 43.478 0.00 0.00 0.00 3.18
6839 9541 5.551760 AGATTGCAGAAAGTTTATCCGTG 57.448 39.130 0.00 0.00 0.00 4.94
6873 10424 3.769739 TGATCTTATAGCCGGCACATT 57.230 42.857 31.54 10.73 0.00 2.71
6963 10626 5.306394 CATCATCCTGTAGCATGACTTCAT 58.694 41.667 0.00 0.00 36.96 2.57
7028 13555 0.453282 CAATGCTTGACGAACCAGCG 60.453 55.000 0.00 0.00 37.29 5.18
7048 13575 1.272490 TCCAGGATGTCTTGTCACGAC 59.728 52.381 2.56 2.56 0.00 4.34
7087 13650 4.352893 ACATTCTGGTTTTACCTGGTACCT 59.647 41.667 14.36 0.00 39.58 3.08
7144 13743 0.466372 ATGAGCTCGGACATCCTCGA 60.466 55.000 9.64 0.00 0.00 4.04
7305 13904 3.264450 AGCCATTGTCTAGCACTAGGTTT 59.736 43.478 4.90 0.00 34.06 3.27
7359 13958 3.252215 TGTACCGAAAGCTTGACAAATGG 59.748 43.478 0.00 0.00 0.00 3.16
7379 13978 2.192861 CACATGGCCCACAACGTGT 61.193 57.895 0.00 0.00 37.31 4.49


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

AutoCloner maintained by Alex Coulton.