Multiple sequence alignment - TraesCS4B01G033700

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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 TraesCS4B01G033700 chr4B 100.000 6896 0 0 1 6896 24764232 24771127 0.000000e+00 12735.0
1 TraesCS4B01G033700 chr4B 89.947 1701 104 28 537 2187 25393699 25392016 0.000000e+00 2132.0
2 TraesCS4B01G033700 chr4B 90.858 1072 69 9 3821 4868 25386995 25385929 0.000000e+00 1410.0
3 TraesCS4B01G033700 chr4B 84.545 1417 126 43 2409 3780 25388368 25387000 0.000000e+00 1317.0
4 TraesCS4B01G033700 chr4B 89.399 632 42 10 5478 6104 25385363 25384752 0.000000e+00 773.0
5 TraesCS4B01G033700 chr4B 86.421 707 60 21 5075 5770 24832640 24833321 0.000000e+00 741.0
6 TraesCS4B01G033700 chr4B 95.187 187 9 0 6710 6896 25384586 25384400 5.230000e-76 296.0
7 TraesCS4B01G033700 chr4B 91.195 159 12 2 2211 2369 25388678 25388522 1.510000e-51 215.0
8 TraesCS4B01G033700 chr4B 93.333 120 7 1 6778 6896 25275892 25275773 7.110000e-40 176.0
9 TraesCS4B01G033700 chr4B 91.667 132 4 4 6077 6202 25384706 25384576 7.110000e-40 176.0
10 TraesCS4B01G033700 chr4B 95.714 70 2 1 2546 2615 24766738 24766806 2.030000e-20 111.0
11 TraesCS4B01G033700 chr4B 95.714 70 2 1 2507 2575 24766777 24766846 2.030000e-20 111.0
12 TraesCS4B01G033700 chr4B 97.778 45 1 0 2531 2575 25388213 25388169 2.060000e-10 78.7
13 TraesCS4B01G033700 chr3B 97.064 2248 37 5 1 2240 452703181 452700955 0.000000e+00 3759.0
14 TraesCS4B01G033700 chr3B 94.929 2406 69 13 2546 4938 452699621 452697256 0.000000e+00 3718.0
15 TraesCS4B01G033700 chr3B 98.356 1034 13 3 5075 6104 452697209 452696176 0.000000e+00 1812.0
16 TraesCS4B01G033700 chr3B 90.854 492 37 6 5075 5559 452564229 452563739 0.000000e+00 652.0
17 TraesCS4B01G033700 chr3B 99.130 345 3 0 2231 2575 452699897 452699553 7.600000e-174 621.0
18 TraesCS4B01G033700 chr3B 98.421 190 3 0 6707 6896 452696020 452695831 1.110000e-87 335.0
19 TraesCS4B01G033700 chr3B 95.276 127 4 2 6077 6202 452696132 452696007 4.220000e-47 200.0
20 TraesCS4B01G033700 chr3B 94.231 52 1 2 4927 4977 452697252 452697202 2.060000e-10 78.7
21 TraesCS4B01G033700 chr4A 89.644 2221 165 32 1 2189 585687053 585689240 0.000000e+00 2767.0
22 TraesCS4B01G033700 chr4A 93.821 1586 70 12 1 1562 586678475 586676894 0.000000e+00 2361.0
23 TraesCS4B01G033700 chr4A 93.179 1598 70 10 1 1562 456415284 456413690 0.000000e+00 2311.0
24 TraesCS4B01G033700 chr4A 94.067 1382 66 6 1 1379 538492951 538491583 0.000000e+00 2084.0
25 TraesCS4B01G033700 chr4A 85.714 1897 176 58 2596 4459 585690332 585692166 0.000000e+00 1914.0
26 TraesCS4B01G033700 chr4A 89.829 1347 86 17 3618 4939 456401010 456399690 0.000000e+00 1681.0
27 TraesCS4B01G033700 chr4A 89.770 1349 87 12 3616 4939 586674708 586673386 0.000000e+00 1679.0
28 TraesCS4B01G033700 chr4A 82.037 2082 270 56 30 2094 576610415 576608421 0.000000e+00 1677.0
29 TraesCS4B01G033700 chr4A 90.371 1267 92 22 2367 3618 456402385 456401134 0.000000e+00 1637.0
30 TraesCS4B01G033700 chr4A 90.236 1270 94 22 2367 3618 586676087 586674830 0.000000e+00 1631.0
31 TraesCS4B01G033700 chr4A 91.309 886 67 4 3852 4728 586089515 586090399 0.000000e+00 1201.0
32 TraesCS4B01G033700 chr4A 94.271 768 40 3 1604 2369 586676896 586676131 0.000000e+00 1171.0
33 TraesCS4B01G033700 chr4A 86.869 1089 82 25 2630 3677 538490078 538489010 0.000000e+00 1162.0
34 TraesCS4B01G033700 chr4A 88.866 970 62 20 5100 6051 585692958 585693899 0.000000e+00 1151.0
35 TraesCS4B01G033700 chr4A 89.646 763 60 12 1390 2136 538491543 538490784 0.000000e+00 953.0
36 TraesCS4B01G033700 chr4A 84.475 438 44 13 4458 4875 585692325 585692758 1.790000e-110 411.0
37 TraesCS4B01G033700 chr4A 97.849 186 4 0 5586 5771 456399067 456398882 8.630000e-84 322.0
38 TraesCS4B01G033700 chr4A 96.774 186 6 0 5586 5771 586672776 586672591 1.870000e-80 311.0
39 TraesCS4B01G033700 chr4A 92.188 192 13 1 6707 6896 585695090 585695281 3.170000e-68 270.0
40 TraesCS4B01G033700 chr4A 92.350 183 13 1 5776 5958 538487493 538487312 6.860000e-65 259.0
41 TraesCS4B01G033700 chr4A 90.000 190 14 3 5770 5958 586091489 586091674 2.490000e-59 241.0
42 TraesCS4B01G033700 chr4A 97.321 112 3 0 4967 5078 733763004 733763115 2.540000e-44 191.0
43 TraesCS4B01G033700 chr4A 92.913 127 6 3 6077 6202 585694979 585695103 1.530000e-41 182.0
44 TraesCS4B01G033700 chr4A 89.744 117 8 2 5970 6086 586672036 586671924 5.570000e-31 147.0
45 TraesCS4B01G033700 chr4A 88.889 117 9 2 5970 6086 456398327 456398215 2.590000e-29 141.0
46 TraesCS4B01G033700 chr4A 86.614 127 10 5 4848 4971 586090571 586090693 4.340000e-27 134.0
47 TraesCS4B01G033700 chr4A 97.826 46 1 0 2531 2576 456402186 456402141 5.730000e-11 80.5
48 TraesCS4B01G033700 chr4A 96.875 32 0 1 6172 6202 586092460 586092491 1.200000e-02 52.8
49 TraesCS4B01G033700 chr4D 93.471 1838 87 12 3157 4970 14401427 14399599 0.000000e+00 2699.0
50 TraesCS4B01G033700 chr4D 91.131 1680 104 18 537 2189 15157415 15155754 0.000000e+00 2235.0
51 TraesCS4B01G033700 chr4D 92.760 1547 73 15 52 1562 14924629 14926172 0.000000e+00 2200.0
52 TraesCS4B01G033700 chr4D 96.415 1283 35 6 3692 4971 14926928 14928202 0.000000e+00 2104.0
53 TraesCS4B01G033700 chr4D 84.481 1540 144 40 2371 3846 15153872 15152364 0.000000e+00 1432.0
54 TraesCS4B01G033700 chr4D 91.667 900 53 10 1309 2189 14403829 14402933 0.000000e+00 1227.0
55 TraesCS4B01G033700 chr4D 90.112 890 73 10 3853 4728 15151055 15150167 0.000000e+00 1142.0
56 TraesCS4B01G033700 chr4D 91.619 704 31 15 5075 5771 14399601 14398919 0.000000e+00 948.0
57 TraesCS4B01G033700 chr4D 93.220 590 33 7 1601 2189 14926167 14926750 0.000000e+00 861.0
58 TraesCS4B01G033700 chr4D 95.137 473 17 4 5075 5541 14928201 14928673 0.000000e+00 741.0
59 TraesCS4B01G033700 chr4D 83.505 388 38 21 2367 2740 14402033 14401658 8.570000e-89 339.0
60 TraesCS4B01G033700 chr4D 97.268 183 5 0 5586 5768 14928783 14928965 1.870000e-80 311.0
61 TraesCS4B01G033700 chr4D 90.526 190 13 3 5770 5958 15149141 15148956 5.340000e-61 246.0
62 TraesCS4B01G033700 chr4D 91.875 160 11 2 2211 2369 15154078 15153920 9.000000e-54 222.0
63 TraesCS4B01G033700 chr4D 91.875 160 10 3 2211 2369 14402234 14402077 3.240000e-53 220.0
64 TraesCS4B01G033700 chr4D 88.034 117 10 2 5970 6086 14929525 14929637 1.210000e-27 135.0
65 TraesCS4B01G033700 chr4D 92.308 52 2 2 4927 4977 15149981 15149931 9.590000e-09 73.1
66 TraesCS4B01G033700 chr4D 96.875 32 0 1 6172 6202 15148181 15148150 1.200000e-02 52.8
67 TraesCS4B01G033700 chr5A 84.473 2647 279 79 2367 4935 40874596 40877188 0.000000e+00 2490.0
68 TraesCS4B01G033700 chr5A 89.676 494 35 7 5075 5556 40877349 40877838 3.530000e-172 616.0
69 TraesCS4B01G033700 chr5A 97.778 45 1 0 2531 2575 40874793 40874837 2.060000e-10 78.7
70 TraesCS4B01G033700 chr1B 87.238 2194 206 44 30 2166 433420628 433422804 0.000000e+00 2433.0
71 TraesCS4B01G033700 chr1B 82.843 1189 134 42 2373 3520 433424395 433425554 0.000000e+00 1002.0
72 TraesCS4B01G033700 chr1B 85.876 708 70 15 5075 5775 433426837 433427521 0.000000e+00 726.0
73 TraesCS4B01G033700 chr1B 87.395 119 11 3 2252 2368 433424228 433424344 4.340000e-27 134.0
74 TraesCS4B01G033700 chr1D 87.103 2202 206 43 30 2173 320382232 320384413 0.000000e+00 2422.0
75 TraesCS4B01G033700 chr1D 82.373 1197 126 44 2374 3520 320387353 320388514 0.000000e+00 963.0
76 TraesCS4B01G033700 chr1D 86.017 708 69 15 5075 5775 320390419 320391103 0.000000e+00 732.0
77 TraesCS4B01G033700 chr1D 88.034 117 14 0 2252 2368 320387185 320387301 9.330000e-29 139.0
78 TraesCS4B01G033700 chr2A 94.139 1382 66 5 1 1379 196118826 196120195 0.000000e+00 2089.0
79 TraesCS4B01G033700 chr2A 91.594 916 59 14 1290 2189 195819622 195820535 0.000000e+00 1249.0
80 TraesCS4B01G033700 chr2A 85.504 1221 109 22 2596 3780 195821443 195822631 0.000000e+00 1212.0
81 TraesCS4B01G033700 chr2A 87.213 1087 82 21 2630 3677 196121697 196122765 0.000000e+00 1184.0
82 TraesCS4B01G033700 chr2A 89.072 970 60 20 5100 6051 195824068 195825009 0.000000e+00 1162.0
83 TraesCS4B01G033700 chr2A 95.225 712 28 3 1 708 196317142 196316433 0.000000e+00 1122.0
84 TraesCS4B01G033700 chr2A 94.951 713 29 3 1 708 196346032 196345322 0.000000e+00 1110.0
85 TraesCS4B01G033700 chr2A 94.670 713 31 3 1 708 196327740 196327030 0.000000e+00 1099.0
86 TraesCS4B01G033700 chr2A 94.398 714 32 3 1 708 196356320 196355609 0.000000e+00 1090.0
87 TraesCS4B01G033700 chr2A 90.301 763 56 11 1390 2136 196120235 196120995 0.000000e+00 983.0
88 TraesCS4B01G033700 chr2A 91.423 478 29 7 5074 5541 196125224 196125699 0.000000e+00 645.0
89 TraesCS4B01G033700 chr2A 85.160 438 41 13 4458 4875 195823435 195823868 1.780000e-115 427.0
90 TraesCS4B01G033700 chr2A 98.286 175 3 0 5586 5760 196348843 196348669 2.420000e-79 307.0
91 TraesCS4B01G033700 chr2A 98.286 175 3 0 5586 5760 196359558 196359384 2.420000e-79 307.0
92 TraesCS4B01G033700 chr2A 92.188 192 13 1 6707 6896 195826194 195826385 3.170000e-68 270.0
93 TraesCS4B01G033700 chr2A 84.871 271 31 9 4647 4912 196124267 196124532 1.470000e-66 265.0
94 TraesCS4B01G033700 chr2A 92.763 152 10 1 5807 5958 196126050 196126200 1.160000e-52 219.0
95 TraesCS4B01G033700 chr2A 92.913 127 5 4 6077 6202 195826084 195826207 1.530000e-41 182.0
96 TraesCS4B01G033700 chr2A 89.744 117 8 2 5970 6086 196314556 196314444 5.570000e-31 147.0
97 TraesCS4B01G033700 chr5D 84.404 1635 168 42 2367 3957 51842457 51844048 0.000000e+00 1526.0
98 TraesCS4B01G033700 chr5D 85.946 185 21 1 5770 5949 51846063 51846247 7.060000e-45 193.0
99 TraesCS4B01G033700 chr5B 86.250 1440 151 23 3494 4897 54826896 54828324 0.000000e+00 1519.0
100 TraesCS4B01G033700 chr5B 82.120 783 94 23 2367 3114 54825635 54826406 4.540000e-176 628.0
101 TraesCS4B01G033700 chr5B 96.364 275 10 0 6432 6706 562340213 562340487 2.930000e-123 453.0
102 TraesCS4B01G033700 chr5B 97.701 174 4 0 6199 6372 562339463 562339636 4.040000e-77 300.0
103 TraesCS4B01G033700 chr5B 88.050 159 17 2 2211 2368 54825435 54825592 3.280000e-43 187.0
104 TraesCS4B01G033700 chr5B 91.339 127 10 1 4952 5077 228061822 228061948 9.200000e-39 172.0
105 TraesCS4B01G033700 chr7D 96.364 275 10 0 6432 6706 18768405 18768131 2.930000e-123 453.0
106 TraesCS4B01G033700 chr7D 100.000 174 0 0 6200 6373 18769192 18769019 8.630000e-84 322.0
107 TraesCS4B01G033700 chr6B 95.798 119 4 1 4959 5077 30889066 30889183 2.540000e-44 191.0
108 TraesCS4B01G033700 chr6B 96.429 112 4 0 4966 5077 455146403 455146514 1.180000e-42 185.0
109 TraesCS4B01G033700 chr6B 94.783 115 6 0 4970 5084 548122326 548122212 5.500000e-41 180.0
110 TraesCS4B01G033700 chr6B 92.683 123 7 2 4962 5083 286605891 286605770 7.110000e-40 176.0
111 TraesCS4B01G033700 chr3D 95.575 113 5 0 4965 5077 435646854 435646742 1.530000e-41 182.0
112 TraesCS4B01G033700 chr2B 94.783 115 6 0 4962 5076 99152208 99152094 5.500000e-41 180.0
113 TraesCS4B01G033700 chr2D 93.388 121 7 1 4956 5076 352204280 352204161 1.980000e-40 178.0


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 TraesCS4B01G033700 chr4B 24764232 24771127 6895 False 12735.000000 12735 100.000000 1 6896 1 chr4B.!!$F1 6895
1 TraesCS4B01G033700 chr4B 25384400 25393699 9299 True 799.712500 2132 91.322000 537 6896 8 chr4B.!!$R2 6359
2 TraesCS4B01G033700 chr4B 24832640 24833321 681 False 741.000000 741 86.421000 5075 5770 1 chr4B.!!$F2 695
3 TraesCS4B01G033700 chr3B 452695831 452703181 7350 True 1503.385714 3759 96.772429 1 6896 7 chr3B.!!$R2 6895
4 TraesCS4B01G033700 chr4A 456413690 456415284 1594 True 2311.000000 2311 93.179000 1 1562 1 chr4A.!!$R1 1561
5 TraesCS4B01G033700 chr4A 576608421 576610415 1994 True 1677.000000 1677 82.037000 30 2094 1 chr4A.!!$R2 2064
6 TraesCS4B01G033700 chr4A 586671924 586678475 6551 True 1216.666667 2361 92.436000 1 6086 6 chr4A.!!$R5 6085
7 TraesCS4B01G033700 chr4A 585687053 585695281 8228 False 1115.833333 2767 88.966667 1 6896 6 chr4A.!!$F2 6895
8 TraesCS4B01G033700 chr4A 538487312 538492951 5639 True 1114.500000 2084 90.733000 1 5958 4 chr4A.!!$R4 5957
9 TraesCS4B01G033700 chr4A 456398215 456402385 4170 True 772.300000 1681 92.952800 2367 6086 5 chr4A.!!$R3 3719
10 TraesCS4B01G033700 chr4A 586089515 586092491 2976 False 407.200000 1201 91.199500 3852 6202 4 chr4A.!!$F3 2350
11 TraesCS4B01G033700 chr4D 14398919 14403829 4910 True 1086.600000 2699 90.427400 1309 5771 5 chr4D.!!$R1 4462
12 TraesCS4B01G033700 chr4D 14924629 14929637 5008 False 1058.666667 2200 93.805667 52 6086 6 chr4D.!!$F1 6034
13 TraesCS4B01G033700 chr4D 15148150 15157415 9265 True 771.842857 2235 91.044000 537 6202 7 chr4D.!!$R2 5665
14 TraesCS4B01G033700 chr5A 40874596 40877838 3242 False 1061.566667 2490 90.642333 2367 5556 3 chr5A.!!$F1 3189
15 TraesCS4B01G033700 chr1B 433420628 433427521 6893 False 1073.750000 2433 85.838000 30 5775 4 chr1B.!!$F1 5745
16 TraesCS4B01G033700 chr1D 320382232 320391103 8871 False 1064.000000 2422 85.881750 30 5775 4 chr1D.!!$F1 5745
17 TraesCS4B01G033700 chr2A 196327030 196327740 710 True 1099.000000 1099 94.670000 1 708 1 chr2A.!!$R1 707
18 TraesCS4B01G033700 chr2A 196118826 196126200 7374 False 897.500000 2089 90.118333 1 5958 6 chr2A.!!$F2 5957
19 TraesCS4B01G033700 chr2A 195819622 195826385 6763 False 750.333333 1249 89.405167 1290 6896 6 chr2A.!!$F1 5606
20 TraesCS4B01G033700 chr2A 196345322 196348843 3521 True 708.500000 1110 96.618500 1 5760 2 chr2A.!!$R3 5759
21 TraesCS4B01G033700 chr2A 196355609 196359558 3949 True 698.500000 1090 96.342000 1 5760 2 chr2A.!!$R4 5759
22 TraesCS4B01G033700 chr2A 196314444 196317142 2698 True 634.500000 1122 92.484500 1 6086 2 chr2A.!!$R2 6085
23 TraesCS4B01G033700 chr5D 51842457 51846247 3790 False 859.500000 1526 85.175000 2367 5949 2 chr5D.!!$F1 3582
24 TraesCS4B01G033700 chr5B 54825435 54828324 2889 False 778.000000 1519 85.473333 2211 4897 3 chr5B.!!$F2 2686
25 TraesCS4B01G033700 chr5B 562339463 562340487 1024 False 376.500000 453 97.032500 6199 6706 2 chr5B.!!$F3 507
26 TraesCS4B01G033700 chr7D 18768131 18769192 1061 True 387.500000 453 98.182000 6200 6706 2 chr7D.!!$R1 506

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
973 4313 0.107410 TGTCAGTTTCAACGCCCTGT 60.107 50.000 0.0 0.0 0.00 4.00 F
1266 4618 1.068281 TCTCGCAGCCAGAATCATCTC 59.932 52.381 0.0 0.0 32.03 2.75 F
2575 13648 1.371467 TCCACATCACATCCCCTGTT 58.629 50.000 0.0 0.0 35.29 3.16 F
2611 13684 0.179073 CTCATCCACATCACGTCCCC 60.179 60.000 0.0 0.0 0.00 4.81 F
2613 13686 0.462581 CATCCACATCACGTCCCCTG 60.463 60.000 0.0 0.0 0.00 4.45 F
2614 13687 0.909610 ATCCACATCACGTCCCCTGT 60.910 55.000 0.0 0.0 0.00 4.00 F
4623 17995 0.617820 ACCTCTCCCTTATGGCACGT 60.618 55.000 0.0 0.0 0.00 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2592 13665 0.179073 GGGGACGTGATGTGGATGAG 60.179 60.000 0.00 0.00 0.00 2.90 R
2607 13680 0.413832 AGAAGTAGCCAGACAGGGGA 59.586 55.000 0.00 0.00 38.09 4.81 R
3566 14935 0.664767 GAGTCAAGAACTGCGTCGCT 60.665 55.000 19.50 0.00 38.74 4.93 R
4093 17278 1.902938 AAGGCTGGCTTCAAGAAGTC 58.097 50.000 11.07 7.45 43.02 3.01 R
4221 17413 7.123397 TGTTTGCATTTGTAAGCCCTATTATCA 59.877 33.333 0.00 0.00 0.00 2.15 R
4829 19271 3.988976 AGCTGCTTAAATCTGTCCAGA 57.011 42.857 0.00 0.00 42.37 3.86 R
6475 25422 1.673665 GCACCACAAGGAGAGCCTG 60.674 63.158 0.00 0.00 46.28 4.85 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
46 3289 5.007682 TGGCCCTTGTAGTAATCTTGTTTC 58.992 41.667 0.00 0.00 0.00 2.78
199 3461 7.724305 TTACAGTAAGAAATGATTATCCGGC 57.276 36.000 0.00 0.00 0.00 6.13
707 4030 7.127917 AGGTTTTGTTGTTTCAATTGTTGTC 57.872 32.000 5.13 0.00 0.00 3.18
749 4086 8.546597 AGACAGTTTATTTTGTTGTGCTTTTT 57.453 26.923 0.00 0.00 0.00 1.94
973 4313 0.107410 TGTCAGTTTCAACGCCCTGT 60.107 50.000 0.00 0.00 0.00 4.00
1266 4618 1.068281 TCTCGCAGCCAGAATCATCTC 59.932 52.381 0.00 0.00 32.03 2.75
2209 12035 4.647424 TTCTTTTCGTGGAAGCACATTT 57.353 36.364 0.00 0.00 0.00 2.32
2565 13638 8.535335 AGTTATCCATATACTCATCCACATCAC 58.465 37.037 0.00 0.00 0.00 3.06
2575 13648 1.371467 TCCACATCACATCCCCTGTT 58.629 50.000 0.00 0.00 35.29 3.16
2576 13649 2.556766 TCCACATCACATCCCCTGTTA 58.443 47.619 0.00 0.00 35.29 2.41
2577 13650 3.122480 TCCACATCACATCCCCTGTTAT 58.878 45.455 0.00 0.00 35.29 1.89
2578 13651 3.527253 TCCACATCACATCCCCTGTTATT 59.473 43.478 0.00 0.00 35.29 1.40
2579 13652 4.724293 TCCACATCACATCCCCTGTTATTA 59.276 41.667 0.00 0.00 35.29 0.98
2580 13653 5.065914 CCACATCACATCCCCTGTTATTAG 58.934 45.833 0.00 0.00 35.29 1.73
2581 13654 5.397899 CCACATCACATCCCCTGTTATTAGT 60.398 44.000 0.00 0.00 35.29 2.24
2582 13655 6.122277 CACATCACATCCCCTGTTATTAGTT 58.878 40.000 0.00 0.00 35.29 2.24
2583 13656 7.279615 CACATCACATCCCCTGTTATTAGTTA 58.720 38.462 0.00 0.00 35.29 2.24
2584 13657 7.939039 CACATCACATCCCCTGTTATTAGTTAT 59.061 37.037 0.00 0.00 35.29 1.89
2585 13658 8.157476 ACATCACATCCCCTGTTATTAGTTATC 58.843 37.037 0.00 0.00 35.29 1.75
2586 13659 7.074653 TCACATCCCCTGTTATTAGTTATCC 57.925 40.000 0.00 0.00 35.29 2.59
2587 13660 6.617784 TCACATCCCCTGTTATTAGTTATCCA 59.382 38.462 0.00 0.00 35.29 3.41
2588 13661 7.294720 TCACATCCCCTGTTATTAGTTATCCAT 59.705 37.037 0.00 0.00 35.29 3.41
2589 13662 8.602424 CACATCCCCTGTTATTAGTTATCCATA 58.398 37.037 0.00 0.00 35.29 2.74
2590 13663 9.351572 ACATCCCCTGTTATTAGTTATCCATAT 57.648 33.333 0.00 0.00 32.90 1.78
2604 13677 8.670521 AGTTATCCATATACTCATCCACATCA 57.329 34.615 0.00 0.00 0.00 3.07
2605 13678 8.535335 AGTTATCCATATACTCATCCACATCAC 58.465 37.037 0.00 0.00 0.00 3.06
2606 13679 5.391312 TCCATATACTCATCCACATCACG 57.609 43.478 0.00 0.00 0.00 4.35
2607 13680 4.832823 TCCATATACTCATCCACATCACGT 59.167 41.667 0.00 0.00 0.00 4.49
2608 13681 5.048013 TCCATATACTCATCCACATCACGTC 60.048 44.000 0.00 0.00 0.00 4.34
2609 13682 3.735237 ATACTCATCCACATCACGTCC 57.265 47.619 0.00 0.00 0.00 4.79
2610 13683 0.537188 ACTCATCCACATCACGTCCC 59.463 55.000 0.00 0.00 0.00 4.46
2611 13684 0.179073 CTCATCCACATCACGTCCCC 60.179 60.000 0.00 0.00 0.00 4.81
2612 13685 0.617535 TCATCCACATCACGTCCCCT 60.618 55.000 0.00 0.00 0.00 4.79
2613 13686 0.462581 CATCCACATCACGTCCCCTG 60.463 60.000 0.00 0.00 0.00 4.45
2614 13687 0.909610 ATCCACATCACGTCCCCTGT 60.910 55.000 0.00 0.00 0.00 4.00
2633 13740 3.999663 CTGTCTGGCTACTTCTTTCCTTG 59.000 47.826 0.00 0.00 0.00 3.61
2700 13812 5.590259 TGCTTTATCTTCTAAGACATTGCCC 59.410 40.000 0.00 0.00 37.98 5.36
2701 13813 5.590259 GCTTTATCTTCTAAGACATTGCCCA 59.410 40.000 0.00 0.00 37.98 5.36
2702 13814 6.264067 GCTTTATCTTCTAAGACATTGCCCAT 59.736 38.462 0.00 0.00 37.98 4.00
2711 13828 9.639563 TTCTAAGACATTGCCCATTATTATTGA 57.360 29.630 0.00 0.00 0.00 2.57
2724 13841 8.423349 CCCATTATTATTGAAAAGGAGATTGCA 58.577 33.333 0.00 0.00 0.00 4.08
2826 13944 2.890311 CCTTTTCCAGTACCACATGCAA 59.110 45.455 0.00 0.00 0.00 4.08
2889 14008 8.774890 AATGCATGCATAAATAGTGAAAACAA 57.225 26.923 32.36 0.00 35.31 2.83
3090 14249 5.105797 TGTGCTTGTGTCATTTCTCTTTGTT 60.106 36.000 0.00 0.00 0.00 2.83
3132 14397 5.898972 TCAGATAAATTGGCTAAAATGGGCT 59.101 36.000 0.00 0.00 0.00 5.19
3372 14696 5.770162 CCCAGAGGAAAGTTCAATGTAGTTT 59.230 40.000 0.00 0.00 33.47 2.66
3426 14750 7.377766 TGCAATTCATGAGTAACCTCTTTAC 57.622 36.000 0.00 0.00 40.57 2.01
4049 17234 9.409312 TGTATTGCTTCACACAATAATTTTCTG 57.591 29.630 0.00 0.00 40.62 3.02
4623 17995 0.617820 ACCTCTCCCTTATGGCACGT 60.618 55.000 0.00 0.00 0.00 4.49
4829 19271 4.225942 TCTGATGGACTTTGGCTACTGAAT 59.774 41.667 0.00 0.00 0.00 2.57
4896 19423 8.361139 GCTACAGAACATCTAAATTCTAGCCTA 58.639 37.037 0.00 0.00 33.34 3.93
4897 19424 9.906660 CTACAGAACATCTAAATTCTAGCCTAG 57.093 37.037 0.00 0.00 33.35 3.02
4898 19425 8.540507 ACAGAACATCTAAATTCTAGCCTAGA 57.459 34.615 0.00 0.00 33.35 2.43
4971 20326 7.281100 AGCTTTGAGTTGGCTCTAAATACATAC 59.719 37.037 0.00 0.00 42.13 2.39
4972 20327 7.281100 GCTTTGAGTTGGCTCTAAATACATACT 59.719 37.037 0.00 0.00 42.13 2.12
4973 20328 8.718102 TTTGAGTTGGCTCTAAATACATACTC 57.282 34.615 0.00 0.00 42.13 2.59
4974 20329 6.817184 TGAGTTGGCTCTAAATACATACTCC 58.183 40.000 0.00 0.00 42.13 3.85
4975 20330 6.176014 AGTTGGCTCTAAATACATACTCCC 57.824 41.667 0.00 0.00 0.00 4.30
4976 20331 5.905913 AGTTGGCTCTAAATACATACTCCCT 59.094 40.000 0.00 0.00 0.00 4.20
4977 20332 6.042208 AGTTGGCTCTAAATACATACTCCCTC 59.958 42.308 0.00 0.00 0.00 4.30
4978 20333 4.838986 TGGCTCTAAATACATACTCCCTCC 59.161 45.833 0.00 0.00 0.00 4.30
4979 20334 4.082136 GGCTCTAAATACATACTCCCTCCG 60.082 50.000 0.00 0.00 0.00 4.63
4980 20335 4.523558 GCTCTAAATACATACTCCCTCCGT 59.476 45.833 0.00 0.00 0.00 4.69
4981 20336 5.010820 GCTCTAAATACATACTCCCTCCGTT 59.989 44.000 0.00 0.00 0.00 4.44
4982 20337 6.645790 TCTAAATACATACTCCCTCCGTTC 57.354 41.667 0.00 0.00 0.00 3.95
4983 20338 4.684484 AAATACATACTCCCTCCGTTCC 57.316 45.455 0.00 0.00 0.00 3.62
4984 20339 1.683943 TACATACTCCCTCCGTTCCG 58.316 55.000 0.00 0.00 0.00 4.30
4985 20340 0.033796 ACATACTCCCTCCGTTCCGA 60.034 55.000 0.00 0.00 0.00 4.55
4986 20341 1.108776 CATACTCCCTCCGTTCCGAA 58.891 55.000 0.00 0.00 0.00 4.30
4987 20342 1.687123 CATACTCCCTCCGTTCCGAAT 59.313 52.381 0.00 0.00 0.00 3.34
4988 20343 1.856629 TACTCCCTCCGTTCCGAATT 58.143 50.000 0.00 0.00 0.00 2.17
4989 20344 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
4990 20345 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
4991 20346 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
4992 20347 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
4993 20348 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
4994 20349 2.354403 CCCTCCGTTCCGAATTACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
4995 20350 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
4996 20351 3.368116 CCTCCGTTCCGAATTACTTGTCT 60.368 47.826 0.00 0.00 0.00 3.41
4997 20352 3.841643 TCCGTTCCGAATTACTTGTCTC 58.158 45.455 0.00 0.00 0.00 3.36
4998 20353 3.256383 TCCGTTCCGAATTACTTGTCTCA 59.744 43.478 0.00 0.00 0.00 3.27
4999 20354 3.367025 CCGTTCCGAATTACTTGTCTCAC 59.633 47.826 0.00 0.00 0.00 3.51
5000 20355 3.059044 CGTTCCGAATTACTTGTCTCACG 59.941 47.826 0.00 0.00 0.00 4.35
5001 20356 3.928727 TCCGAATTACTTGTCTCACGT 57.071 42.857 0.00 0.00 0.00 4.49
5002 20357 5.156355 GTTCCGAATTACTTGTCTCACGTA 58.844 41.667 0.00 0.00 0.00 3.57
5003 20358 5.571784 TCCGAATTACTTGTCTCACGTAT 57.428 39.130 0.00 0.00 0.00 3.06
5004 20359 5.337554 TCCGAATTACTTGTCTCACGTATG 58.662 41.667 0.00 0.00 0.00 2.39
5005 20360 4.503007 CCGAATTACTTGTCTCACGTATGG 59.497 45.833 0.00 0.00 0.00 2.74
5006 20361 5.337554 CGAATTACTTGTCTCACGTATGGA 58.662 41.667 0.00 0.00 0.00 3.41
5007 20362 5.977725 CGAATTACTTGTCTCACGTATGGAT 59.022 40.000 0.00 0.00 0.00 3.41
5008 20363 6.074835 CGAATTACTTGTCTCACGTATGGATG 60.075 42.308 0.00 0.00 0.00 3.51
5009 20364 5.654603 TTACTTGTCTCACGTATGGATGT 57.345 39.130 0.00 0.00 0.00 3.06
5010 20365 6.762702 TTACTTGTCTCACGTATGGATGTA 57.237 37.500 0.00 0.00 0.00 2.29
5011 20366 5.854010 ACTTGTCTCACGTATGGATGTAT 57.146 39.130 0.00 0.00 0.00 2.29
5012 20367 5.833082 ACTTGTCTCACGTATGGATGTATC 58.167 41.667 0.00 0.00 0.00 2.24
5013 20368 5.594725 ACTTGTCTCACGTATGGATGTATCT 59.405 40.000 0.00 0.00 0.00 1.98
5014 20369 6.771267 ACTTGTCTCACGTATGGATGTATCTA 59.229 38.462 0.00 0.00 0.00 1.98
5015 20370 6.803154 TGTCTCACGTATGGATGTATCTAG 57.197 41.667 0.00 0.00 0.00 2.43
5016 20371 6.531021 TGTCTCACGTATGGATGTATCTAGA 58.469 40.000 0.00 0.00 0.00 2.43
5017 20372 7.168905 TGTCTCACGTATGGATGTATCTAGAT 58.831 38.462 10.73 10.73 0.00 1.98
5018 20373 8.319146 TGTCTCACGTATGGATGTATCTAGATA 58.681 37.037 8.44 8.44 0.00 1.98
5019 20374 9.332502 GTCTCACGTATGGATGTATCTAGATAT 57.667 37.037 15.43 1.62 0.00 1.63
5048 20403 8.613060 TGAATTCTAGATACATCCATTTCAGC 57.387 34.615 7.05 0.00 0.00 4.26
5049 20404 7.386025 TGAATTCTAGATACATCCATTTCAGCG 59.614 37.037 7.05 0.00 0.00 5.18
5050 20405 6.405278 TTCTAGATACATCCATTTCAGCGA 57.595 37.500 0.00 0.00 0.00 4.93
5051 20406 5.773575 TCTAGATACATCCATTTCAGCGAC 58.226 41.667 0.00 0.00 0.00 5.19
5052 20407 3.384668 AGATACATCCATTTCAGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
5053 20408 2.951457 TACATCCATTTCAGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
5054 20409 1.645034 ACATCCATTTCAGCGACGAG 58.355 50.000 0.00 0.00 0.00 4.18
5055 20410 1.066858 ACATCCATTTCAGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
5056 20411 2.165641 ACATCCATTTCAGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
5057 20412 3.186909 CATCCATTTCAGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
5058 20413 3.520290 TCCATTTCAGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
5059 20414 3.857052 TCCATTTCAGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
5060 20415 4.250464 TCCATTTCAGCGACGAGTAATTT 58.750 39.130 0.00 0.00 0.00 1.82
5061 20416 4.092821 TCCATTTCAGCGACGAGTAATTTG 59.907 41.667 0.00 0.00 0.00 2.32
5062 20417 4.334443 CATTTCAGCGACGAGTAATTTGG 58.666 43.478 0.00 0.00 0.00 3.28
5063 20418 3.306917 TTCAGCGACGAGTAATTTGGA 57.693 42.857 0.00 0.00 0.00 3.53
5064 20419 3.306917 TCAGCGACGAGTAATTTGGAA 57.693 42.857 0.00 0.00 0.00 3.53
5065 20420 2.991190 TCAGCGACGAGTAATTTGGAAC 59.009 45.455 0.00 0.00 0.00 3.62
5066 20421 1.990563 AGCGACGAGTAATTTGGAACG 59.009 47.619 0.00 0.00 0.00 3.95
5067 20422 1.060122 GCGACGAGTAATTTGGAACGG 59.940 52.381 0.00 0.00 0.00 4.44
5068 20423 2.598589 CGACGAGTAATTTGGAACGGA 58.401 47.619 0.00 0.00 0.00 4.69
5069 20424 2.597305 CGACGAGTAATTTGGAACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
5070 20425 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
5071 20426 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
5072 20427 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
5073 20428 3.532542 GAGTAATTTGGAACGGAGGGAG 58.467 50.000 0.00 0.00 0.00 4.30
5359 20735 6.991531 GCCTGTGAGAAAGATTCTGATAGAAT 59.008 38.462 3.86 3.86 46.84 2.40
6380 24772 4.969816 GACAAGATCCACATAAAACACGG 58.030 43.478 0.00 0.00 0.00 4.94
6381 24773 4.647611 ACAAGATCCACATAAAACACGGA 58.352 39.130 0.00 0.00 0.00 4.69
6382 24774 4.454504 ACAAGATCCACATAAAACACGGAC 59.545 41.667 0.00 0.00 0.00 4.79
6385 24777 5.661458 AGATCCACATAAAACACGGACTAG 58.339 41.667 0.00 0.00 0.00 2.57
6388 24780 3.930848 CCACATAAAACACGGACTAGTCC 59.069 47.826 29.18 29.18 46.18 3.85
6404 24796 8.585189 GGACTAGTCCTACGTAATTTATTTGG 57.415 38.462 31.12 0.00 46.16 3.28
6407 24799 9.978044 ACTAGTCCTACGTAATTTATTTGGATC 57.022 33.333 0.00 0.00 0.00 3.36
6408 24800 9.420551 CTAGTCCTACGTAATTTATTTGGATCC 57.579 37.037 4.20 4.20 0.00 3.36
6409 24801 8.030913 AGTCCTACGTAATTTATTTGGATCCT 57.969 34.615 14.23 0.00 0.00 3.24
6410 24802 9.151177 AGTCCTACGTAATTTATTTGGATCCTA 57.849 33.333 14.23 1.56 0.00 2.94
6411 24803 9.201127 GTCCTACGTAATTTATTTGGATCCTAC 57.799 37.037 14.23 3.46 0.00 3.18
6412 24804 8.926374 TCCTACGTAATTTATTTGGATCCTACA 58.074 33.333 14.23 0.00 0.00 2.74
6413 24805 9.720769 CCTACGTAATTTATTTGGATCCTACAT 57.279 33.333 14.23 4.79 0.00 2.29
6549 25496 3.140895 CAGATATTGGGGTTGGGAAGGAT 59.859 47.826 0.00 0.00 0.00 3.24
6706 25653 3.056821 CCGTTTCACAGGATACACTCTCA 60.057 47.826 0.00 0.00 41.41 3.27
6707 25654 4.382040 CCGTTTCACAGGATACACTCTCAT 60.382 45.833 0.00 0.00 41.41 2.90
6708 25655 4.800993 CGTTTCACAGGATACACTCTCATC 59.199 45.833 0.00 0.00 41.41 2.92
6709 25656 5.393569 CGTTTCACAGGATACACTCTCATCT 60.394 44.000 0.00 0.00 41.41 2.90
6710 25657 5.843673 TTCACAGGATACACTCTCATCTC 57.156 43.478 0.00 0.00 41.41 2.75
6711 25658 5.122707 TCACAGGATACACTCTCATCTCT 57.877 43.478 0.00 0.00 41.41 3.10
6712 25659 4.886489 TCACAGGATACACTCTCATCTCTG 59.114 45.833 0.00 0.00 41.41 3.35
6713 25660 4.037803 CACAGGATACACTCTCATCTCTGG 59.962 50.000 0.00 0.00 41.41 3.86
6714 25661 4.079500 ACAGGATACACTCTCATCTCTGGA 60.080 45.833 0.00 0.00 41.41 3.86
6715 25662 5.078949 CAGGATACACTCTCATCTCTGGAT 58.921 45.833 0.00 0.00 41.41 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 3289 8.818057 AGGAAGTTTAATCTCGAATTATGTTCG 58.182 33.333 8.30 8.30 42.74 3.95
199 3461 2.994643 AAAACAAGGGACAGGGGGCG 62.995 60.000 0.00 0.00 0.00 6.13
361 3633 3.251729 CCATGGACTTGGCGATCTTAATG 59.748 47.826 5.56 0.00 0.00 1.90
510 3792 9.385902 CAACAAACATATTGTTTCAGTAGACTG 57.614 33.333 3.12 3.12 46.61 3.51
707 4030 4.870426 ACTGTCTTTTGGTATATGCTGACG 59.130 41.667 0.00 0.00 0.00 4.35
749 4086 5.880332 GTGAAAGGCATCAGTTATCCAACTA 59.120 40.000 0.00 0.00 43.30 2.24
973 4313 4.068599 TCCAATACGACTTTTGCACATCA 58.931 39.130 0.00 0.00 0.00 3.07
1415 4801 2.103263 GGGTGCCCTGACTTAGTATCAG 59.897 54.545 0.00 0.00 42.79 2.90
2209 12035 9.317936 CTAAAGCATTCTCACACATAGTATCAA 57.682 33.333 0.00 0.00 0.00 2.57
2578 13651 9.768215 TGATGTGGATGAGTATATGGATAACTA 57.232 33.333 0.00 0.00 0.00 2.24
2579 13652 8.535335 GTGATGTGGATGAGTATATGGATAACT 58.465 37.037 0.00 0.00 0.00 2.24
2580 13653 7.489435 CGTGATGTGGATGAGTATATGGATAAC 59.511 40.741 0.00 0.00 0.00 1.89
2581 13654 7.178451 ACGTGATGTGGATGAGTATATGGATAA 59.822 37.037 0.00 0.00 0.00 1.75
2582 13655 6.663523 ACGTGATGTGGATGAGTATATGGATA 59.336 38.462 0.00 0.00 0.00 2.59
2583 13656 5.481824 ACGTGATGTGGATGAGTATATGGAT 59.518 40.000 0.00 0.00 0.00 3.41
2584 13657 4.832823 ACGTGATGTGGATGAGTATATGGA 59.167 41.667 0.00 0.00 0.00 3.41
2585 13658 5.139435 ACGTGATGTGGATGAGTATATGG 57.861 43.478 0.00 0.00 0.00 2.74
2586 13659 5.164233 GGACGTGATGTGGATGAGTATATG 58.836 45.833 0.00 0.00 0.00 1.78
2587 13660 4.220821 GGGACGTGATGTGGATGAGTATAT 59.779 45.833 0.00 0.00 0.00 0.86
2588 13661 3.572682 GGGACGTGATGTGGATGAGTATA 59.427 47.826 0.00 0.00 0.00 1.47
2589 13662 2.365617 GGGACGTGATGTGGATGAGTAT 59.634 50.000 0.00 0.00 0.00 2.12
2590 13663 1.754803 GGGACGTGATGTGGATGAGTA 59.245 52.381 0.00 0.00 0.00 2.59
2591 13664 0.537188 GGGACGTGATGTGGATGAGT 59.463 55.000 0.00 0.00 0.00 3.41
2592 13665 0.179073 GGGGACGTGATGTGGATGAG 60.179 60.000 0.00 0.00 0.00 2.90
2593 13666 0.617535 AGGGGACGTGATGTGGATGA 60.618 55.000 0.00 0.00 0.00 2.92
2594 13667 1.907739 AGGGGACGTGATGTGGATG 59.092 57.895 0.00 0.00 0.00 3.51
2595 13668 4.480480 AGGGGACGTGATGTGGAT 57.520 55.556 0.00 0.00 0.00 3.41
2604 13677 1.982938 GTAGCCAGACAGGGGACGT 60.983 63.158 0.00 0.00 38.09 4.34
2605 13678 1.258445 AAGTAGCCAGACAGGGGACG 61.258 60.000 0.00 0.00 38.09 4.79
2606 13679 0.537653 GAAGTAGCCAGACAGGGGAC 59.462 60.000 0.00 0.00 38.09 4.46
2607 13680 0.413832 AGAAGTAGCCAGACAGGGGA 59.586 55.000 0.00 0.00 38.09 4.81
2608 13681 1.280457 AAGAAGTAGCCAGACAGGGG 58.720 55.000 0.00 0.00 38.09 4.79
2609 13682 2.355209 GGAAAGAAGTAGCCAGACAGGG 60.355 54.545 0.00 0.00 38.09 4.45
2610 13683 2.569404 AGGAAAGAAGTAGCCAGACAGG 59.431 50.000 0.00 0.00 41.84 4.00
2611 13684 3.971245 AGGAAAGAAGTAGCCAGACAG 57.029 47.619 0.00 0.00 0.00 3.51
2612 13685 3.391296 ACAAGGAAAGAAGTAGCCAGACA 59.609 43.478 0.00 0.00 0.00 3.41
2613 13686 4.009370 ACAAGGAAAGAAGTAGCCAGAC 57.991 45.455 0.00 0.00 0.00 3.51
2614 13687 5.721960 AGATACAAGGAAAGAAGTAGCCAGA 59.278 40.000 0.00 0.00 0.00 3.86
2633 13740 8.725148 AGTTTGTCTGTTTGATGATGAAGATAC 58.275 33.333 0.00 0.00 0.00 2.24
2711 13828 5.705441 TGAACTCGTATTGCAATCTCCTTTT 59.295 36.000 16.86 3.60 0.00 2.27
2826 13944 5.969423 AGATTCGCAATTCCATGACAAAAT 58.031 33.333 0.00 0.00 0.00 1.82
2889 14008 3.259374 AGATCGAGTGTTTCTGTCACCAT 59.741 43.478 0.00 0.00 36.58 3.55
3090 14249 4.574892 TCTGACATGCGTCCAGAAAATAA 58.425 39.130 5.35 0.00 41.85 1.40
3132 14397 3.088532 GCCACCACAAGAATATGGACAA 58.911 45.455 0.00 0.00 39.46 3.18
3426 14750 5.168526 TCCAAATGAAGTTCAGACAAACG 57.831 39.130 11.91 0.00 34.27 3.60
3566 14935 0.664767 GAGTCAAGAACTGCGTCGCT 60.665 55.000 19.50 0.00 38.74 4.93
4049 17234 8.755696 TCAGCAAAATAACCATTTATTCACAC 57.244 30.769 0.00 0.00 36.98 3.82
4093 17278 1.902938 AAGGCTGGCTTCAAGAAGTC 58.097 50.000 11.07 7.45 43.02 3.01
4218 17410 7.660112 TGCATTTGTAAGCCCTATTATCAATG 58.340 34.615 0.00 0.00 0.00 2.82
4221 17413 7.123397 TGTTTGCATTTGTAAGCCCTATTATCA 59.877 33.333 0.00 0.00 0.00 2.15
4829 19271 3.988976 AGCTGCTTAAATCTGTCCAGA 57.011 42.857 0.00 0.00 42.37 3.86
4896 19423 7.506114 TGTGAAAACACACTAGGTATTCTTCT 58.494 34.615 0.00 0.00 40.87 2.85
4897 19424 7.724305 TGTGAAAACACACTAGGTATTCTTC 57.276 36.000 0.00 0.00 40.87 2.87
4978 20333 7.378882 ATACGTGAGACAAGTAATTCGGAACG 61.379 42.308 0.00 0.00 41.59 3.95
4979 20334 3.985925 ACGTGAGACAAGTAATTCGGAAC 59.014 43.478 0.00 0.00 0.00 3.62
4980 20335 4.247267 ACGTGAGACAAGTAATTCGGAA 57.753 40.909 0.00 0.00 0.00 4.30
4981 20336 3.928727 ACGTGAGACAAGTAATTCGGA 57.071 42.857 0.00 0.00 0.00 4.55
4982 20337 4.503007 CCATACGTGAGACAAGTAATTCGG 59.497 45.833 0.00 0.00 32.82 4.30
4983 20338 5.337554 TCCATACGTGAGACAAGTAATTCG 58.662 41.667 0.00 0.00 32.82 3.34
4984 20339 6.757010 ACATCCATACGTGAGACAAGTAATTC 59.243 38.462 0.00 0.00 32.82 2.17
4985 20340 6.640518 ACATCCATACGTGAGACAAGTAATT 58.359 36.000 0.00 0.00 32.82 1.40
4986 20341 6.222038 ACATCCATACGTGAGACAAGTAAT 57.778 37.500 0.00 0.00 32.82 1.89
4987 20342 5.654603 ACATCCATACGTGAGACAAGTAA 57.345 39.130 0.00 0.00 32.82 2.24
4988 20343 6.771267 AGATACATCCATACGTGAGACAAGTA 59.229 38.462 0.00 0.00 33.49 2.24
4989 20344 5.594725 AGATACATCCATACGTGAGACAAGT 59.405 40.000 0.00 0.00 0.00 3.16
4990 20345 6.078202 AGATACATCCATACGTGAGACAAG 57.922 41.667 0.00 0.00 0.00 3.16
4991 20346 6.996282 TCTAGATACATCCATACGTGAGACAA 59.004 38.462 0.00 0.00 0.00 3.18
4992 20347 6.531021 TCTAGATACATCCATACGTGAGACA 58.469 40.000 0.00 0.00 0.00 3.41
4993 20348 7.618502 ATCTAGATACATCCATACGTGAGAC 57.381 40.000 2.53 0.00 0.00 3.36
5022 20377 9.060347 GCTGAAATGGATGTATCTAGAATTCAA 57.940 33.333 8.44 0.00 0.00 2.69
5023 20378 7.386025 CGCTGAAATGGATGTATCTAGAATTCA 59.614 37.037 8.44 0.00 0.00 2.57
5024 20379 7.600375 TCGCTGAAATGGATGTATCTAGAATTC 59.400 37.037 0.00 0.00 0.00 2.17
5025 20380 7.386299 GTCGCTGAAATGGATGTATCTAGAATT 59.614 37.037 0.00 0.00 0.00 2.17
5026 20381 6.870965 GTCGCTGAAATGGATGTATCTAGAAT 59.129 38.462 0.00 0.00 0.00 2.40
5027 20382 6.216569 GTCGCTGAAATGGATGTATCTAGAA 58.783 40.000 0.00 0.00 0.00 2.10
5028 20383 5.562890 CGTCGCTGAAATGGATGTATCTAGA 60.563 44.000 0.00 0.00 0.00 2.43
5029 20384 4.618912 CGTCGCTGAAATGGATGTATCTAG 59.381 45.833 0.00 0.00 0.00 2.43
5030 20385 4.277423 TCGTCGCTGAAATGGATGTATCTA 59.723 41.667 0.00 0.00 0.00 1.98
5031 20386 3.068165 TCGTCGCTGAAATGGATGTATCT 59.932 43.478 0.00 0.00 0.00 1.98
5032 20387 3.381045 TCGTCGCTGAAATGGATGTATC 58.619 45.455 0.00 0.00 0.00 2.24
5033 20388 3.181475 ACTCGTCGCTGAAATGGATGTAT 60.181 43.478 0.00 0.00 0.00 2.29
5034 20389 2.165641 ACTCGTCGCTGAAATGGATGTA 59.834 45.455 0.00 0.00 0.00 2.29
5035 20390 1.066858 ACTCGTCGCTGAAATGGATGT 60.067 47.619 0.00 0.00 0.00 3.06
5036 20391 1.645034 ACTCGTCGCTGAAATGGATG 58.355 50.000 0.00 0.00 0.00 3.51
5037 20392 3.520290 TTACTCGTCGCTGAAATGGAT 57.480 42.857 0.00 0.00 0.00 3.41
5038 20393 3.520290 ATTACTCGTCGCTGAAATGGA 57.480 42.857 0.00 0.00 0.00 3.41
5039 20394 4.334443 CAAATTACTCGTCGCTGAAATGG 58.666 43.478 0.00 0.00 0.00 3.16
5040 20395 4.092821 TCCAAATTACTCGTCGCTGAAATG 59.907 41.667 0.00 0.00 0.00 2.32
5041 20396 4.250464 TCCAAATTACTCGTCGCTGAAAT 58.750 39.130 0.00 0.00 0.00 2.17
5042 20397 3.655486 TCCAAATTACTCGTCGCTGAAA 58.345 40.909 0.00 0.00 0.00 2.69
5043 20398 3.306917 TCCAAATTACTCGTCGCTGAA 57.693 42.857 0.00 0.00 0.00 3.02
5044 20399 2.991190 GTTCCAAATTACTCGTCGCTGA 59.009 45.455 0.00 0.00 0.00 4.26
5045 20400 2.222508 CGTTCCAAATTACTCGTCGCTG 60.223 50.000 0.00 0.00 0.00 5.18
5046 20401 1.990563 CGTTCCAAATTACTCGTCGCT 59.009 47.619 0.00 0.00 0.00 4.93
5047 20402 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.00 0.00 0.00 5.19
5048 20403 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
5049 20404 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
5050 20405 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
5051 20406 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
5052 20407 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
5053 20408 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
5054 20409 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
5055 20410 4.717778 TGATACTCCCTCCGTTCCAAATTA 59.282 41.667 0.00 0.00 0.00 1.40
5056 20411 3.521937 TGATACTCCCTCCGTTCCAAATT 59.478 43.478 0.00 0.00 0.00 1.82
5057 20412 3.112263 TGATACTCCCTCCGTTCCAAAT 58.888 45.455 0.00 0.00 0.00 2.32
5058 20413 2.235402 GTGATACTCCCTCCGTTCCAAA 59.765 50.000 0.00 0.00 0.00 3.28
5059 20414 1.829222 GTGATACTCCCTCCGTTCCAA 59.171 52.381 0.00 0.00 0.00 3.53
5060 20415 1.481871 GTGATACTCCCTCCGTTCCA 58.518 55.000 0.00 0.00 0.00 3.53
5061 20416 0.751452 GGTGATACTCCCTCCGTTCC 59.249 60.000 0.00 0.00 0.00 3.62
5062 20417 1.777941 AGGTGATACTCCCTCCGTTC 58.222 55.000 0.00 0.00 0.00 3.95
5063 20418 3.614568 ATAGGTGATACTCCCTCCGTT 57.385 47.619 0.00 0.00 32.08 4.44
5064 20419 3.231818 CAATAGGTGATACTCCCTCCGT 58.768 50.000 0.00 0.00 32.08 4.69
5065 20420 2.028930 GCAATAGGTGATACTCCCTCCG 60.029 54.545 0.00 0.00 32.08 4.63
5066 20421 2.972713 TGCAATAGGTGATACTCCCTCC 59.027 50.000 0.00 0.00 32.08 4.30
5067 20422 4.689612 TTGCAATAGGTGATACTCCCTC 57.310 45.455 0.00 0.00 32.08 4.30
5068 20423 4.747931 GCATTGCAATAGGTGATACTCCCT 60.748 45.833 12.53 0.00 34.74 4.20
5069 20424 3.503748 GCATTGCAATAGGTGATACTCCC 59.496 47.826 12.53 0.00 0.00 4.30
5070 20425 3.503748 GGCATTGCAATAGGTGATACTCC 59.496 47.826 12.53 0.00 0.00 3.85
5071 20426 4.136796 TGGCATTGCAATAGGTGATACTC 58.863 43.478 12.53 0.00 0.00 2.59
5072 20427 4.169059 TGGCATTGCAATAGGTGATACT 57.831 40.909 12.53 0.00 0.00 2.12
5073 20428 4.321452 CCATGGCATTGCAATAGGTGATAC 60.321 45.833 12.53 0.00 0.00 2.24
5359 20735 7.041167 GCTCCAACAATCATATTACACTGCATA 60.041 37.037 0.00 0.00 0.00 3.14
6380 24772 9.978044 ATCCAAATAAATTACGTAGGACTAGTC 57.022 33.333 14.87 14.87 0.00 2.59
6381 24773 9.978044 GATCCAAATAAATTACGTAGGACTAGT 57.022 33.333 0.00 0.00 0.00 2.57
6382 24774 9.420551 GGATCCAAATAAATTACGTAGGACTAG 57.579 37.037 6.95 0.00 0.00 2.57
6385 24777 9.201127 GTAGGATCCAAATAAATTACGTAGGAC 57.799 37.037 15.82 0.00 0.00 3.85
6475 25422 1.673665 GCACCACAAGGAGAGCCTG 60.674 63.158 0.00 0.00 46.28 4.85
6511 25458 6.288294 CAATATCTGAATTCCAACGTCCCTA 58.712 40.000 2.27 0.00 0.00 3.53
6706 25653 2.575921 TCCCCACTCAATCCAGAGAT 57.424 50.000 0.00 0.00 38.98 2.75
6707 25654 2.342406 TTCCCCACTCAATCCAGAGA 57.658 50.000 0.00 0.00 38.98 3.10
6708 25655 3.439857 TTTTCCCCACTCAATCCAGAG 57.560 47.619 0.00 0.00 41.44 3.35
6709 25656 3.333381 TCATTTTCCCCACTCAATCCAGA 59.667 43.478 0.00 0.00 0.00 3.86
6710 25657 3.445096 GTCATTTTCCCCACTCAATCCAG 59.555 47.826 0.00 0.00 0.00 3.86
6711 25658 3.075882 AGTCATTTTCCCCACTCAATCCA 59.924 43.478 0.00 0.00 0.00 3.41
6712 25659 3.445096 CAGTCATTTTCCCCACTCAATCC 59.555 47.826 0.00 0.00 0.00 3.01
6713 25660 3.445096 CCAGTCATTTTCCCCACTCAATC 59.555 47.826 0.00 0.00 0.00 2.67
6714 25661 3.434309 CCAGTCATTTTCCCCACTCAAT 58.566 45.455 0.00 0.00 0.00 2.57
6715 25662 2.875296 CCAGTCATTTTCCCCACTCAA 58.125 47.619 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.