Multiple sequence alignment - TraesCS1A01G058000

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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 TraesCS1A01G058000 chr1A 100.000 3151 0 0 1 3151 38486543 38483393 0.000000e+00 5819.0
1 TraesCS1A01G058000 chr1A 92.817 2854 182 12 111 2956 38515788 38512950 0.000000e+00 4113.0
2 TraesCS1A01G058000 chr1A 92.411 1713 109 5 1245 2954 38522439 38520745 0.000000e+00 2423.0
3 TraesCS1A01G058000 chr1A 91.818 220 18 0 1290 1509 356410401 356410182 1.100000e-79 307.0
4 TraesCS1A01G058000 chr1A 91.818 220 18 0 1290 1509 356418245 356418026 1.100000e-79 307.0
5 TraesCS1A01G058000 chr1A 95.455 132 6 0 2957 3088 327522418 327522287 8.850000e-51 211.0
6 TraesCS1A01G058000 chr1A 94.776 134 7 0 2953 3086 234079490 234079623 3.180000e-50 209.0
7 TraesCS1A01G058000 chr1A 85.116 215 16 1 2953 3151 119118377 119118591 4.120000e-49 206.0
8 TraesCS1A01G058000 chr1A 98.230 113 1 1 1 112 38516106 38515994 2.480000e-46 196.0
9 TraesCS1A01G058000 chr1A 95.238 126 3 3 1 124 312086671 312086547 2.480000e-46 196.0
10 TraesCS1A01G058000 chr1A 93.651 126 5 3 1 124 135811011 135810887 5.370000e-43 185.0
11 TraesCS1A01G058000 chr1A 93.878 98 4 2 1199 1294 224845134 224845037 2.530000e-31 147.0
12 TraesCS1A01G058000 chr1A 91.176 102 7 2 1199 1298 365736110 365736009 1.520000e-28 137.0
13 TraesCS1A01G058000 chr3A 89.416 1918 180 20 112 2013 323962003 323960093 0.000000e+00 2396.0
14 TraesCS1A01G058000 chr3A 85.974 1212 137 29 110 1298 141877824 141876623 0.000000e+00 1266.0
15 TraesCS1A01G058000 chr3A 89.661 590 46 11 2369 2956 164839217 164839793 0.000000e+00 737.0
16 TraesCS1A01G058000 chr3A 79.880 666 97 29 2301 2956 522965431 522964793 1.330000e-123 453.0
17 TraesCS1A01G058000 chr3A 78.078 666 110 28 2301 2956 522973380 522972741 3.810000e-104 388.0
18 TraesCS1A01G058000 chr3A 85.787 197 23 4 2957 3151 362977120 362977313 1.480000e-48 204.0
19 TraesCS1A01G058000 chr3A 84.862 218 15 9 2952 3151 614498126 614498343 1.480000e-48 204.0
20 TraesCS1A01G058000 chr3A 94.030 134 7 1 2953 3086 156365899 156366031 5.330000e-48 202.0
21 TraesCS1A01G058000 chr3A 91.837 49 4 0 2271 2319 137334537 137334489 5.640000e-08 69.4
22 TraesCS1A01G058000 chr4A 86.420 2084 230 35 107 2170 205799483 205801533 0.000000e+00 2231.0
23 TraesCS1A01G058000 chr4A 87.162 1924 205 33 110 2013 205791595 205793496 0.000000e+00 2146.0
24 TraesCS1A01G058000 chr4A 93.659 1025 59 4 110 1129 232096637 232097660 0.000000e+00 1528.0
25 TraesCS1A01G058000 chr4A 91.415 1025 63 18 112 1120 639828309 639827294 0.000000e+00 1382.0
26 TraesCS1A01G058000 chr4A 83.967 605 78 17 2355 2956 466906730 466906142 2.120000e-156 562.0
27 TraesCS1A01G058000 chr4A 83.471 605 82 16 2355 2956 466898936 466898347 5.940000e-152 547.0
28 TraesCS1A01G058000 chr4A 89.831 354 28 6 1662 2013 151224568 151224221 6.200000e-122 448.0
29 TraesCS1A01G058000 chr4A 92.727 220 16 0 1290 1509 371279147 371279366 5.070000e-83 318.0
30 TraesCS1A01G058000 chr4A 76.537 618 107 29 2364 2972 536011355 536010767 1.420000e-78 303.0
31 TraesCS1A01G058000 chr4A 92.821 195 14 0 2762 2956 313757214 313757020 1.850000e-72 283.0
32 TraesCS1A01G058000 chr4A 84.091 264 37 5 2697 2959 413897418 413897159 1.880000e-62 250.0
33 TraesCS1A01G058000 chr4A 94.444 126 4 3 1 124 104447717 104447593 1.150000e-44 191.0
34 TraesCS1A01G058000 chr4A 97.345 113 2 1 1 112 178520772 178520884 1.150000e-44 191.0
35 TraesCS1A01G058000 chr7A 89.947 1691 149 17 112 1792 530426770 530425091 0.000000e+00 2161.0
36 TraesCS1A01G058000 chr7A 87.067 1933 191 43 112 2013 332640530 332642434 0.000000e+00 2130.0
37 TraesCS1A01G058000 chr7A 74.938 810 133 50 2176 2956 350467756 350468524 1.100000e-79 307.0
38 TraesCS1A01G058000 chr7A 92.806 139 8 2 2952 3088 209478221 209478083 1.920000e-47 200.0
39 TraesCS1A01G058000 chr7A 94.400 125 4 3 1 123 407294786 407294663 4.150000e-44 189.0
40 TraesCS1A01G058000 chr2A 86.032 1933 203 51 112 2013 461180828 461182724 0.000000e+00 2012.0
41 TraesCS1A01G058000 chr2A 85.936 1934 204 50 112 2013 461172909 461174806 0.000000e+00 2002.0
42 TraesCS1A01G058000 chr2A 87.448 725 59 21 2249 2956 124362839 124363548 0.000000e+00 806.0
43 TraesCS1A01G058000 chr2A 87.483 719 63 19 2249 2956 124336276 124336978 0.000000e+00 804.0
44 TraesCS1A01G058000 chr2A 91.925 322 20 6 110 426 324709239 324708919 2.230000e-121 446.0
45 TraesCS1A01G058000 chr2A 90.291 309 24 3 112 414 560648935 560648627 1.760000e-107 399.0
46 TraesCS1A01G058000 chr2A 93.985 133 8 0 2954 3086 530485222 530485354 5.330000e-48 202.0
47 TraesCS1A01G058000 chr2A 92.806 139 8 1 2952 3088 623354140 623354278 1.920000e-47 200.0
48 TraesCS1A01G058000 chr2A 98.230 113 1 1 1 112 202148570 202148682 2.480000e-46 196.0
49 TraesCS1A01G058000 chr2A 74.333 487 87 31 2495 2963 272038750 272039216 4.180000e-39 172.0
50 TraesCS1A01G058000 chr2A 74.510 459 81 30 2360 2800 272030689 272031129 1.940000e-37 167.0
51 TraesCS1A01G058000 chr6A 92.089 948 59 11 269 1209 106912745 106913683 0.000000e+00 1321.0
52 TraesCS1A01G058000 chr6A 91.273 825 59 8 2132 2956 365133641 365134452 0.000000e+00 1112.0
53 TraesCS1A01G058000 chr6A 89.952 826 65 10 2132 2954 365141735 365142545 0.000000e+00 1050.0
54 TraesCS1A01G058000 chr6A 79.614 466 71 17 2495 2956 343345143 343345588 2.360000e-81 313.0
55 TraesCS1A01G058000 chr6A 91.176 170 13 2 2132 2300 223235852 223236020 2.440000e-56 230.0
56 TraesCS1A01G058000 chr6A 93.382 136 9 0 2953 3088 414856319 414856184 5.330000e-48 202.0
57 TraesCS1A01G058000 chr6A 94.400 125 4 3 1 123 223304322 223304445 4.150000e-44 189.0
58 TraesCS1A01G058000 chr6A 93.651 126 5 3 1 124 169563306 169563430 5.370000e-43 185.0
59 TraesCS1A01G058000 chr6A 86.486 111 14 1 1904 2013 417066186 417066296 1.540000e-23 121.0
60 TraesCS1A01G058000 chr6A 87.755 98 11 1 1917 2013 417042632 417042729 2.570000e-21 113.0
61 TraesCS1A01G058000 chr5A 90.919 936 75 5 1081 2013 233552139 233553067 0.000000e+00 1249.0
62 TraesCS1A01G058000 chr5A 89.432 634 46 15 2329 2956 212676051 212676669 0.000000e+00 780.0
63 TraesCS1A01G058000 chr5A 89.266 354 29 7 1662 2013 121156200 121156546 4.830000e-118 435.0
64 TraesCS1A01G058000 chr5A 85.083 362 42 10 1656 2013 121148115 121148468 2.990000e-95 359.0
65 TraesCS1A01G058000 chr7D 88.557 201 15 6 2957 3151 125864903 125864705 1.460000e-58 237.0
66 TraesCS1A01G058000 chr7D 86.224 196 22 3 2957 3151 530477838 530478029 1.150000e-49 207.0
67 TraesCS1A01G058000 chr4D 88.718 195 16 4 2957 3151 457137462 457137650 1.890000e-57 233.0
68 TraesCS1A01G058000 chr6D 87.310 197 20 4 2957 3151 346715251 346715444 1.470000e-53 220.0
69 TraesCS1A01G058000 chr3D 87.000 200 19 2 2957 3151 310009450 310009647 5.290000e-53 219.0
70 TraesCS1A01G058000 chr2D 86.667 195 22 3 2957 3151 36706690 36706500 2.460000e-51 213.0
71 TraesCS1A01G058000 chr2D 86.364 198 21 5 2957 3151 621104358 621104164 8.850000e-51 211.0
72 TraesCS1A01G058000 chr6B 86.294 197 21 6 2957 3151 75149493 75149301 3.180000e-50 209.0
73 TraesCS1A01G058000 chrUn 92.857 84 5 1 1155 1238 118659133 118659051 1.540000e-23 121.0
74 TraesCS1A01G058000 chrUn 84.694 98 14 1 1174 1270 47097257 47097354 2.590000e-16 97.1


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 TraesCS1A01G058000 chr1A 38483393 38486543 3150 True 5819.0 5819 100.0000 1 3151 1 chr1A.!!$R1 3150
1 TraesCS1A01G058000 chr1A 38520745 38522439 1694 True 2423.0 2423 92.4110 1245 2954 1 chr1A.!!$R2 1709
2 TraesCS1A01G058000 chr1A 38512950 38516106 3156 True 2154.5 4113 95.5235 1 2956 2 chr1A.!!$R10 2955
3 TraesCS1A01G058000 chr3A 323960093 323962003 1910 True 2396.0 2396 89.4160 112 2013 1 chr3A.!!$R3 1901
4 TraesCS1A01G058000 chr3A 141876623 141877824 1201 True 1266.0 1266 85.9740 110 1298 1 chr3A.!!$R2 1188
5 TraesCS1A01G058000 chr3A 164839217 164839793 576 False 737.0 737 89.6610 2369 2956 1 chr3A.!!$F2 587
6 TraesCS1A01G058000 chr3A 522964793 522965431 638 True 453.0 453 79.8800 2301 2956 1 chr3A.!!$R4 655
7 TraesCS1A01G058000 chr3A 522972741 522973380 639 True 388.0 388 78.0780 2301 2956 1 chr3A.!!$R5 655
8 TraesCS1A01G058000 chr4A 205799483 205801533 2050 False 2231.0 2231 86.4200 107 2170 1 chr4A.!!$F3 2063
9 TraesCS1A01G058000 chr4A 205791595 205793496 1901 False 2146.0 2146 87.1620 110 2013 1 chr4A.!!$F2 1903
10 TraesCS1A01G058000 chr4A 232096637 232097660 1023 False 1528.0 1528 93.6590 110 1129 1 chr4A.!!$F4 1019
11 TraesCS1A01G058000 chr4A 639827294 639828309 1015 True 1382.0 1382 91.4150 112 1120 1 chr4A.!!$R8 1008
12 TraesCS1A01G058000 chr4A 466906142 466906730 588 True 562.0 562 83.9670 2355 2956 1 chr4A.!!$R6 601
13 TraesCS1A01G058000 chr4A 466898347 466898936 589 True 547.0 547 83.4710 2355 2956 1 chr4A.!!$R5 601
14 TraesCS1A01G058000 chr4A 536010767 536011355 588 True 303.0 303 76.5370 2364 2972 1 chr4A.!!$R7 608
15 TraesCS1A01G058000 chr7A 530425091 530426770 1679 True 2161.0 2161 89.9470 112 1792 1 chr7A.!!$R3 1680
16 TraesCS1A01G058000 chr7A 332640530 332642434 1904 False 2130.0 2130 87.0670 112 2013 1 chr7A.!!$F1 1901
17 TraesCS1A01G058000 chr7A 350467756 350468524 768 False 307.0 307 74.9380 2176 2956 1 chr7A.!!$F2 780
18 TraesCS1A01G058000 chr2A 461180828 461182724 1896 False 2012.0 2012 86.0320 112 2013 1 chr2A.!!$F7 1901
19 TraesCS1A01G058000 chr2A 461172909 461174806 1897 False 2002.0 2002 85.9360 112 2013 1 chr2A.!!$F6 1901
20 TraesCS1A01G058000 chr2A 124362839 124363548 709 False 806.0 806 87.4480 2249 2956 1 chr2A.!!$F2 707
21 TraesCS1A01G058000 chr2A 124336276 124336978 702 False 804.0 804 87.4830 2249 2956 1 chr2A.!!$F1 707
22 TraesCS1A01G058000 chr6A 106912745 106913683 938 False 1321.0 1321 92.0890 269 1209 1 chr6A.!!$F1 940
23 TraesCS1A01G058000 chr6A 365133641 365134452 811 False 1112.0 1112 91.2730 2132 2956 1 chr6A.!!$F6 824
24 TraesCS1A01G058000 chr6A 365141735 365142545 810 False 1050.0 1050 89.9520 2132 2954 1 chr6A.!!$F7 822
25 TraesCS1A01G058000 chr5A 233552139 233553067 928 False 1249.0 1249 90.9190 1081 2013 1 chr5A.!!$F4 932
26 TraesCS1A01G058000 chr5A 212676051 212676669 618 False 780.0 780 89.4320 2329 2956 1 chr5A.!!$F3 627

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
840 1100 0.322366 TGGAGCATTTGTCGCCATGA 60.322 50.0 0.0 0.0 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2209 2508 1.834822 CCTCTCCCTCGATCCCCAC 60.835 68.421 0.0 0.0 0.0 4.61 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
175 387 2.226962 AGAGGCTTGACATGGCAAAT 57.773 45.000 16.38 4.12 0.00 2.32
193 405 5.473039 GCAAATTGGGAGGCATGATATAAC 58.527 41.667 0.00 0.00 0.00 1.89
194 406 5.010922 GCAAATTGGGAGGCATGATATAACA 59.989 40.000 0.00 0.00 0.00 2.41
195 407 6.462768 GCAAATTGGGAGGCATGATATAACAA 60.463 38.462 0.00 0.00 0.00 2.83
196 408 6.906157 AATTGGGAGGCATGATATAACAAG 57.094 37.500 0.00 0.00 0.00 3.16
197 409 5.387113 TTGGGAGGCATGATATAACAAGT 57.613 39.130 0.00 0.00 0.00 3.16
198 410 5.387113 TGGGAGGCATGATATAACAAGTT 57.613 39.130 0.00 0.00 0.00 2.66
199 411 5.132502 TGGGAGGCATGATATAACAAGTTG 58.867 41.667 0.00 0.00 0.00 3.16
200 412 5.133221 GGGAGGCATGATATAACAAGTTGT 58.867 41.667 1.64 1.64 0.00 3.32
201 413 6.126623 TGGGAGGCATGATATAACAAGTTGTA 60.127 38.462 9.37 0.00 0.00 2.41
202 414 6.428159 GGGAGGCATGATATAACAAGTTGTAG 59.572 42.308 9.37 0.00 0.00 2.74
203 415 6.428159 GGAGGCATGATATAACAAGTTGTAGG 59.572 42.308 9.37 0.00 0.00 3.18
204 416 6.900194 AGGCATGATATAACAAGTTGTAGGT 58.100 36.000 9.37 1.10 0.00 3.08
205 417 8.029782 AGGCATGATATAACAAGTTGTAGGTA 57.970 34.615 9.37 3.38 0.00 3.08
206 418 8.150945 AGGCATGATATAACAAGTTGTAGGTAG 58.849 37.037 9.37 0.00 0.00 3.18
207 419 7.095187 GGCATGATATAACAAGTTGTAGGTAGC 60.095 40.741 9.37 6.28 0.00 3.58
208 420 7.359264 GCATGATATAACAAGTTGTAGGTAGCG 60.359 40.741 9.37 0.00 0.00 4.26
209 421 5.981315 TGATATAACAAGTTGTAGGTAGCGC 59.019 40.000 9.37 0.00 0.00 5.92
210 422 1.425412 AACAAGTTGTAGGTAGCGCG 58.575 50.000 9.37 0.00 0.00 6.86
211 423 0.599558 ACAAGTTGTAGGTAGCGCGA 59.400 50.000 12.10 0.00 0.00 5.87
212 424 0.989890 CAAGTTGTAGGTAGCGCGAC 59.010 55.000 12.10 12.67 0.00 5.19
213 425 0.599558 AAGTTGTAGGTAGCGCGACA 59.400 50.000 22.25 10.12 0.00 4.35
214 426 0.815734 AGTTGTAGGTAGCGCGACAT 59.184 50.000 22.25 17.92 0.00 3.06
215 427 2.019249 AGTTGTAGGTAGCGCGACATA 58.981 47.619 22.25 16.79 0.00 2.29
216 428 2.033049 AGTTGTAGGTAGCGCGACATAG 59.967 50.000 22.25 0.00 0.00 2.23
280 522 2.173569 GAGGGTATGGTCATCTTGCCTT 59.826 50.000 0.00 0.00 0.00 4.35
293 535 2.208132 TTGCCTTAAATCCCGCAAGA 57.792 45.000 0.00 0.00 36.36 3.02
379 624 4.810191 AACCGAAGCTAATGAGAGAAGT 57.190 40.909 0.00 0.00 0.00 3.01
384 633 5.394224 CCGAAGCTAATGAGAGAAGTAACCA 60.394 44.000 0.00 0.00 0.00 3.67
413 662 6.263168 AGAAGCAAGCAACATAGTAAACAACT 59.737 34.615 0.00 0.00 42.62 3.16
437 686 3.955551 TCACATAAACATGGCATGATGCT 59.044 39.130 32.74 15.60 44.28 3.79
456 705 6.543100 TGATGCTCAAACAAGTATGATGCATA 59.457 34.615 0.00 0.00 38.89 3.14
689 945 4.985409 GCCGGAAACATCAAACAACAATTA 59.015 37.500 5.05 0.00 0.00 1.40
777 1036 2.223745 TCATGATGCGGATGACATTGG 58.776 47.619 0.00 0.00 0.00 3.16
840 1100 0.322366 TGGAGCATTTGTCGCCATGA 60.322 50.000 0.00 0.00 0.00 3.07
964 1239 2.037053 CGTGCAAAACATGGTGGGA 58.963 52.632 0.00 0.00 0.00 4.37
1034 1316 1.544686 GTGCATGAAATAAACGGGCG 58.455 50.000 0.00 0.00 0.00 6.13
1114 1396 1.826720 TGGCGGTTATACCTTCGAAGT 59.173 47.619 23.03 13.66 35.66 3.01
1359 1641 0.250234 TCGGAGAGGAACTTGGCATG 59.750 55.000 0.00 0.00 41.55 4.06
1374 1657 1.462616 GCATGTCCATGTACTTGGCA 58.537 50.000 20.39 19.95 40.80 4.92
1394 1677 3.788937 CATTTTGCAATCCCATCTCCAC 58.211 45.455 0.00 0.00 0.00 4.02
1395 1678 2.601240 TTTGCAATCCCATCTCCACA 57.399 45.000 0.00 0.00 0.00 4.17
1543 1826 4.740822 GCGGTCAATGGGGCTGGT 62.741 66.667 0.00 0.00 0.00 4.00
1644 1929 1.956170 CGTTCGGCACACAGAAGCT 60.956 57.895 0.00 0.00 0.00 3.74
1775 2072 4.379243 CGGAGCTTCGCCACAGGT 62.379 66.667 0.00 0.00 0.00 4.00
1778 2075 3.890936 GAGCTTCGCCACAGGTGCT 62.891 63.158 0.00 0.00 32.51 4.40
1780 2077 2.031012 CTTCGCCACAGGTGCTCA 59.969 61.111 0.00 0.00 32.51 4.26
2119 2418 2.055042 GGAGGCTCTCGCTTCTCCA 61.055 63.158 15.23 0.00 41.52 3.86
2121 2420 0.031994 GAGGCTCTCGCTTCTCCATC 59.968 60.000 7.40 0.00 39.02 3.51
2625 2965 4.844349 TTATTGGCAAGGCTAGAGAGTT 57.156 40.909 5.96 0.00 0.00 3.01
2651 2993 4.226384 ACTTGAAGAAGGAAAAGGCCAAT 58.774 39.130 5.01 0.00 32.95 3.16
2861 3215 3.732471 CGATGACATGATGCAATGCACAA 60.732 43.478 11.23 1.35 43.04 3.33
2899 3254 4.021169 GCAACAAGCAAAAACAAATCACG 58.979 39.130 0.00 0.00 44.79 4.35
2957 3312 2.110213 GTCTTGGGGCGTCACACA 59.890 61.111 0.00 0.00 0.00 3.72
2960 3315 0.179004 TCTTGGGGCGTCACACATTT 60.179 50.000 0.00 0.00 0.00 2.32
2961 3316 0.039256 CTTGGGGCGTCACACATTTG 60.039 55.000 0.00 0.00 0.00 2.32
2962 3317 2.081425 TTGGGGCGTCACACATTTGC 62.081 55.000 0.00 0.00 0.00 3.68
2963 3318 2.258286 GGGCGTCACACATTTGCC 59.742 61.111 0.00 0.00 44.98 4.52
2964 3319 3.038280 GGCGTCACACATTTGCCA 58.962 55.556 0.00 0.00 45.06 4.92
2965 3320 1.586028 GGCGTCACACATTTGCCAT 59.414 52.632 0.00 0.00 45.06 4.40
2966 3321 0.808125 GGCGTCACACATTTGCCATA 59.192 50.000 0.00 0.00 45.06 2.74
2968 3323 2.159254 GGCGTCACACATTTGCCATATT 60.159 45.455 0.00 0.00 45.06 1.28
2969 3324 3.510719 GCGTCACACATTTGCCATATTT 58.489 40.909 0.00 0.00 0.00 1.40
2970 3325 3.547468 GCGTCACACATTTGCCATATTTC 59.453 43.478 0.00 0.00 0.00 2.17
2971 3326 4.731720 CGTCACACATTTGCCATATTTCA 58.268 39.130 0.00 0.00 0.00 2.69
2972 3327 5.342433 CGTCACACATTTGCCATATTTCAT 58.658 37.500 0.00 0.00 0.00 2.57
2973 3328 6.493978 CGTCACACATTTGCCATATTTCATA 58.506 36.000 0.00 0.00 0.00 2.15
2974 3329 6.971756 CGTCACACATTTGCCATATTTCATAA 59.028 34.615 0.00 0.00 0.00 1.90
2975 3330 7.487509 CGTCACACATTTGCCATATTTCATAAA 59.512 33.333 0.00 0.00 0.00 1.40
2976 3331 9.149225 GTCACACATTTGCCATATTTCATAAAA 57.851 29.630 0.00 0.00 0.00 1.52
2977 3332 9.887629 TCACACATTTGCCATATTTCATAAAAT 57.112 25.926 0.00 0.00 38.61 1.82
2978 3333 9.923786 CACACATTTGCCATATTTCATAAAATG 57.076 29.630 0.00 0.00 38.73 2.32
2979 3334 9.669887 ACACATTTGCCATATTTCATAAAATGT 57.330 25.926 5.32 5.32 43.71 2.71
2988 3343 8.706492 CATATTTCATAAAATGTGGCAACTGT 57.294 30.769 0.00 0.00 39.19 3.55
2989 3344 9.153721 CATATTTCATAAAATGTGGCAACTGTT 57.846 29.630 0.00 0.00 39.19 3.16
2992 3347 7.938563 TTCATAAAATGTGGCAACTGTTAAC 57.061 32.000 0.00 0.00 37.61 2.01
2993 3348 7.043961 TCATAAAATGTGGCAACTGTTAACA 57.956 32.000 8.28 8.28 37.61 2.41
2994 3349 7.665690 TCATAAAATGTGGCAACTGTTAACAT 58.334 30.769 9.13 8.87 32.99 2.71
2995 3350 7.598118 TCATAAAATGTGGCAACTGTTAACATG 59.402 33.333 9.13 6.80 32.04 3.21
2996 3351 5.528043 AAATGTGGCAACTGTTAACATGA 57.472 34.783 9.13 0.00 32.04 3.07
2997 3352 5.726980 AATGTGGCAACTGTTAACATGAT 57.273 34.783 9.13 0.00 32.04 2.45
2998 3353 5.726980 ATGTGGCAACTGTTAACATGATT 57.273 34.783 9.13 1.54 30.53 2.57
2999 3354 5.119931 TGTGGCAACTGTTAACATGATTC 57.880 39.130 9.13 0.57 37.61 2.52
3000 3355 4.158384 GTGGCAACTGTTAACATGATTCG 58.842 43.478 9.13 0.00 37.61 3.34
3001 3356 3.190327 TGGCAACTGTTAACATGATTCGG 59.810 43.478 9.13 0.00 37.61 4.30
3002 3357 3.438781 GGCAACTGTTAACATGATTCGGA 59.561 43.478 9.13 0.00 0.00 4.55
3003 3358 4.096382 GGCAACTGTTAACATGATTCGGAT 59.904 41.667 9.13 0.00 0.00 4.18
3004 3359 5.295787 GGCAACTGTTAACATGATTCGGATA 59.704 40.000 9.13 0.00 0.00 2.59
3005 3360 6.422223 GCAACTGTTAACATGATTCGGATAG 58.578 40.000 9.13 0.00 0.00 2.08
3006 3361 6.257849 GCAACTGTTAACATGATTCGGATAGA 59.742 38.462 9.13 0.00 0.00 1.98
3007 3362 7.621991 CAACTGTTAACATGATTCGGATAGAC 58.378 38.462 9.13 0.00 0.00 2.59
3008 3363 7.113658 ACTGTTAACATGATTCGGATAGACT 57.886 36.000 9.13 0.00 0.00 3.24
3009 3364 7.556844 ACTGTTAACATGATTCGGATAGACTT 58.443 34.615 9.13 0.00 0.00 3.01
3010 3365 8.041323 ACTGTTAACATGATTCGGATAGACTTT 58.959 33.333 9.13 0.00 0.00 2.66
3011 3366 8.786826 TGTTAACATGATTCGGATAGACTTTT 57.213 30.769 3.59 0.00 0.00 2.27
3012 3367 9.878667 TGTTAACATGATTCGGATAGACTTTTA 57.121 29.630 3.59 0.00 0.00 1.52
3015 3370 7.484035 ACATGATTCGGATAGACTTTTAAGC 57.516 36.000 0.00 0.00 0.00 3.09
3016 3371 7.047891 ACATGATTCGGATAGACTTTTAAGCA 58.952 34.615 0.00 0.00 0.00 3.91
3017 3372 7.716998 ACATGATTCGGATAGACTTTTAAGCAT 59.283 33.333 0.00 0.00 0.00 3.79
3018 3373 7.715265 TGATTCGGATAGACTTTTAAGCATC 57.285 36.000 0.00 0.00 0.00 3.91
3019 3374 6.420903 TGATTCGGATAGACTTTTAAGCATCG 59.579 38.462 0.00 0.00 0.00 3.84
3020 3375 5.509716 TCGGATAGACTTTTAAGCATCGA 57.490 39.130 0.00 0.00 0.00 3.59
3021 3376 6.085555 TCGGATAGACTTTTAAGCATCGAT 57.914 37.500 0.00 0.00 0.00 3.59
3022 3377 7.210718 TCGGATAGACTTTTAAGCATCGATA 57.789 36.000 0.00 0.00 0.00 2.92
3023 3378 7.827701 TCGGATAGACTTTTAAGCATCGATAT 58.172 34.615 0.00 0.00 0.00 1.63
3024 3379 7.755373 TCGGATAGACTTTTAAGCATCGATATG 59.245 37.037 0.00 0.00 36.09 1.78
3025 3380 7.755373 CGGATAGACTTTTAAGCATCGATATGA 59.245 37.037 0.00 0.00 34.84 2.15
3026 3381 9.081997 GGATAGACTTTTAAGCATCGATATGAG 57.918 37.037 0.00 0.00 34.84 2.90
3027 3382 9.632807 GATAGACTTTTAAGCATCGATATGAGT 57.367 33.333 0.00 0.00 34.84 3.41
3028 3383 7.706281 AGACTTTTAAGCATCGATATGAGTG 57.294 36.000 0.00 0.00 34.84 3.51
3029 3384 7.492524 AGACTTTTAAGCATCGATATGAGTGA 58.507 34.615 0.00 0.00 34.84 3.41
3030 3385 7.651304 AGACTTTTAAGCATCGATATGAGTGAG 59.349 37.037 0.00 0.00 34.84 3.51
3031 3386 7.492524 ACTTTTAAGCATCGATATGAGTGAGA 58.507 34.615 0.00 0.00 34.84 3.27
3032 3387 7.981789 ACTTTTAAGCATCGATATGAGTGAGAA 59.018 33.333 0.00 0.00 34.84 2.87
3033 3388 8.716646 TTTTAAGCATCGATATGAGTGAGAAA 57.283 30.769 0.00 0.00 34.84 2.52
3034 3389 8.716646 TTTAAGCATCGATATGAGTGAGAAAA 57.283 30.769 0.00 0.00 34.84 2.29
3035 3390 8.893219 TTAAGCATCGATATGAGTGAGAAAAT 57.107 30.769 0.00 0.00 34.84 1.82
3036 3391 7.418840 AAGCATCGATATGAGTGAGAAAATC 57.581 36.000 0.00 0.00 34.84 2.17
3037 3392 6.757237 AGCATCGATATGAGTGAGAAAATCT 58.243 36.000 0.00 0.00 34.84 2.40
3038 3393 6.867816 AGCATCGATATGAGTGAGAAAATCTC 59.132 38.462 0.00 0.39 38.43 2.75
3039 3394 6.644181 GCATCGATATGAGTGAGAAAATCTCA 59.356 38.462 5.98 5.98 42.12 3.27
3040 3395 7.331440 GCATCGATATGAGTGAGAAAATCTCAT 59.669 37.037 12.75 10.84 44.11 2.90
3041 3396 8.862074 CATCGATATGAGTGAGAAAATCTCATC 58.138 37.037 12.75 11.29 44.11 2.92
3052 3407 6.952935 AGAAAATCTCATCGTAGTCAACAC 57.047 37.500 0.00 0.00 0.00 3.32
3053 3408 5.869888 AGAAAATCTCATCGTAGTCAACACC 59.130 40.000 0.00 0.00 0.00 4.16
3054 3409 5.407407 AAATCTCATCGTAGTCAACACCT 57.593 39.130 0.00 0.00 0.00 4.00
3055 3410 5.407407 AATCTCATCGTAGTCAACACCTT 57.593 39.130 0.00 0.00 0.00 3.50
3056 3411 4.174411 TCTCATCGTAGTCAACACCTTG 57.826 45.455 0.00 0.00 0.00 3.61
3057 3412 3.824443 TCTCATCGTAGTCAACACCTTGA 59.176 43.478 0.00 0.00 33.76 3.02
3058 3413 4.279922 TCTCATCGTAGTCAACACCTTGAA 59.720 41.667 0.00 0.00 38.17 2.69
3059 3414 4.304110 TCATCGTAGTCAACACCTTGAAC 58.696 43.478 0.00 0.00 38.17 3.18
3060 3415 4.038763 TCATCGTAGTCAACACCTTGAACT 59.961 41.667 0.00 0.00 38.17 3.01
3061 3416 4.395959 TCGTAGTCAACACCTTGAACTT 57.604 40.909 0.00 0.00 38.17 2.66
3062 3417 4.116961 TCGTAGTCAACACCTTGAACTTG 58.883 43.478 0.00 0.00 38.17 3.16
3063 3418 3.869246 CGTAGTCAACACCTTGAACTTGT 59.131 43.478 0.00 0.00 38.17 3.16
3064 3419 4.025979 CGTAGTCAACACCTTGAACTTGTC 60.026 45.833 0.00 0.00 38.17 3.18
3065 3420 2.936498 AGTCAACACCTTGAACTTGTCG 59.064 45.455 0.00 0.00 38.17 4.35
3066 3421 2.933906 GTCAACACCTTGAACTTGTCGA 59.066 45.455 0.00 0.00 38.17 4.20
3067 3422 3.372822 GTCAACACCTTGAACTTGTCGAA 59.627 43.478 0.00 0.00 38.17 3.71
3068 3423 4.004314 TCAACACCTTGAACTTGTCGAAA 58.996 39.130 0.00 0.00 33.20 3.46
3069 3424 4.456222 TCAACACCTTGAACTTGTCGAAAA 59.544 37.500 0.00 0.00 33.20 2.29
3070 3425 4.351131 ACACCTTGAACTTGTCGAAAAC 57.649 40.909 0.00 0.00 0.00 2.43
3071 3426 3.128068 ACACCTTGAACTTGTCGAAAACC 59.872 43.478 0.00 0.00 0.00 3.27
3072 3427 3.377172 CACCTTGAACTTGTCGAAAACCT 59.623 43.478 0.00 0.00 0.00 3.50
3073 3428 4.014406 ACCTTGAACTTGTCGAAAACCTT 58.986 39.130 0.00 0.00 0.00 3.50
3074 3429 4.461431 ACCTTGAACTTGTCGAAAACCTTT 59.539 37.500 0.00 0.00 0.00 3.11
3075 3430 5.047590 ACCTTGAACTTGTCGAAAACCTTTT 60.048 36.000 0.00 0.00 0.00 2.27
3076 3431 5.288472 CCTTGAACTTGTCGAAAACCTTTTG 59.712 40.000 0.00 0.00 0.00 2.44
3077 3432 4.170256 TGAACTTGTCGAAAACCTTTTGC 58.830 39.130 0.00 0.00 0.00 3.68
3078 3433 2.792749 ACTTGTCGAAAACCTTTTGCG 58.207 42.857 0.00 0.00 0.00 4.85
3079 3434 2.420722 ACTTGTCGAAAACCTTTTGCGA 59.579 40.909 0.00 0.00 32.00 5.10
3080 3435 2.461897 TGTCGAAAACCTTTTGCGAC 57.538 45.000 20.54 20.54 43.11 5.19
3081 3436 1.738350 TGTCGAAAACCTTTTGCGACA 59.262 42.857 24.39 24.39 45.95 4.35
3082 3437 2.161808 TGTCGAAAACCTTTTGCGACAA 59.838 40.909 25.46 13.45 45.63 3.18
3083 3438 3.181495 TGTCGAAAACCTTTTGCGACAAT 60.181 39.130 25.46 0.00 45.63 2.71
3084 3439 3.794564 GTCGAAAACCTTTTGCGACAATT 59.205 39.130 21.83 0.00 42.78 2.32
3085 3440 4.039032 TCGAAAACCTTTTGCGACAATTC 58.961 39.130 0.00 0.00 30.65 2.17
3086 3441 3.794028 CGAAAACCTTTTGCGACAATTCA 59.206 39.130 0.00 0.00 0.00 2.57
3087 3442 4.266502 CGAAAACCTTTTGCGACAATTCAA 59.733 37.500 0.00 0.00 0.00 2.69
3088 3443 5.463499 AAAACCTTTTGCGACAATTCAAC 57.537 34.783 0.00 0.00 0.00 3.18
3089 3444 3.791973 ACCTTTTGCGACAATTCAACA 57.208 38.095 0.00 0.00 0.00 3.33
3090 3445 3.443976 ACCTTTTGCGACAATTCAACAC 58.556 40.909 0.00 0.00 0.00 3.32
3091 3446 3.130340 ACCTTTTGCGACAATTCAACACT 59.870 39.130 0.00 0.00 0.00 3.55
3092 3447 4.336993 ACCTTTTGCGACAATTCAACACTA 59.663 37.500 0.00 0.00 0.00 2.74
3093 3448 4.675114 CCTTTTGCGACAATTCAACACTAC 59.325 41.667 0.00 0.00 0.00 2.73
3094 3449 5.493133 TTTTGCGACAATTCAACACTACT 57.507 34.783 0.00 0.00 0.00 2.57
3095 3450 6.293190 CCTTTTGCGACAATTCAACACTACTA 60.293 38.462 0.00 0.00 0.00 1.82
3096 3451 6.795098 TTTGCGACAATTCAACACTACTAT 57.205 33.333 0.00 0.00 0.00 2.12
3097 3452 6.795098 TTGCGACAATTCAACACTACTATT 57.205 33.333 0.00 0.00 0.00 1.73
3098 3453 6.164408 TGCGACAATTCAACACTACTATTG 57.836 37.500 0.00 0.00 33.55 1.90
3099 3454 5.121611 TGCGACAATTCAACACTACTATTGG 59.878 40.000 0.00 0.00 32.04 3.16
3100 3455 5.560148 CGACAATTCAACACTACTATTGGC 58.440 41.667 0.00 0.00 32.23 4.52
3101 3456 5.545658 ACAATTCAACACTACTATTGGCG 57.454 39.130 0.00 0.00 32.04 5.69
3102 3457 5.001232 ACAATTCAACACTACTATTGGCGT 58.999 37.500 0.00 0.00 32.04 5.68
3103 3458 5.121768 ACAATTCAACACTACTATTGGCGTC 59.878 40.000 0.00 0.00 32.04 5.19
3104 3459 3.241067 TCAACACTACTATTGGCGTCC 57.759 47.619 0.00 0.00 0.00 4.79
3105 3460 2.563620 TCAACACTACTATTGGCGTCCA 59.436 45.455 0.00 0.00 0.00 4.02
3106 3461 3.196901 TCAACACTACTATTGGCGTCCAT 59.803 43.478 0.00 0.00 31.53 3.41
3107 3462 3.454371 ACACTACTATTGGCGTCCATC 57.546 47.619 0.00 0.00 31.53 3.51
3108 3463 3.031736 ACACTACTATTGGCGTCCATCT 58.968 45.455 0.00 0.00 31.53 2.90
3109 3464 3.451178 ACACTACTATTGGCGTCCATCTT 59.549 43.478 0.00 0.00 31.53 2.40
3110 3465 4.051922 CACTACTATTGGCGTCCATCTTC 58.948 47.826 0.00 0.00 31.53 2.87
3111 3466 2.622064 ACTATTGGCGTCCATCTTCC 57.378 50.000 0.00 0.00 31.53 3.46
3112 3467 2.119495 ACTATTGGCGTCCATCTTCCT 58.881 47.619 0.00 0.00 31.53 3.36
3113 3468 3.305720 ACTATTGGCGTCCATCTTCCTA 58.694 45.455 0.00 0.00 31.53 2.94
3114 3469 3.904339 ACTATTGGCGTCCATCTTCCTAT 59.096 43.478 0.00 0.00 31.53 2.57
3115 3470 3.864789 ATTGGCGTCCATCTTCCTATT 57.135 42.857 0.00 0.00 31.53 1.73
3116 3471 2.620251 TGGCGTCCATCTTCCTATTG 57.380 50.000 0.00 0.00 0.00 1.90
3117 3472 2.115427 TGGCGTCCATCTTCCTATTGA 58.885 47.619 0.00 0.00 0.00 2.57
3118 3473 2.503765 TGGCGTCCATCTTCCTATTGAA 59.496 45.455 0.00 0.00 0.00 2.69
3119 3474 3.054728 TGGCGTCCATCTTCCTATTGAAA 60.055 43.478 0.00 0.00 31.06 2.69
3120 3475 3.945285 GGCGTCCATCTTCCTATTGAAAA 59.055 43.478 0.00 0.00 31.06 2.29
3121 3476 4.580580 GGCGTCCATCTTCCTATTGAAAAT 59.419 41.667 0.00 0.00 31.06 1.82
3122 3477 5.278022 GGCGTCCATCTTCCTATTGAAAATC 60.278 44.000 0.00 0.00 31.06 2.17
3123 3478 5.278022 GCGTCCATCTTCCTATTGAAAATCC 60.278 44.000 0.00 0.00 31.06 3.01
3124 3479 5.822519 CGTCCATCTTCCTATTGAAAATCCA 59.177 40.000 0.00 0.00 31.06 3.41
3125 3480 6.488006 CGTCCATCTTCCTATTGAAAATCCAT 59.512 38.462 0.00 0.00 31.06 3.41
3126 3481 7.013655 CGTCCATCTTCCTATTGAAAATCCATT 59.986 37.037 0.00 0.00 31.06 3.16
3127 3482 8.699130 GTCCATCTTCCTATTGAAAATCCATTT 58.301 33.333 0.00 0.00 31.06 2.32
3128 3483 9.934784 TCCATCTTCCTATTGAAAATCCATTTA 57.065 29.630 0.00 0.00 31.06 1.40
3144 3499 5.192327 CCATTTATTCTGAATGGCTCACC 57.808 43.478 13.01 0.00 44.90 4.02
3145 3500 4.261322 CCATTTATTCTGAATGGCTCACCG 60.261 45.833 13.01 0.00 44.90 4.94
3146 3501 3.904800 TTATTCTGAATGGCTCACCGA 57.095 42.857 13.01 0.00 39.70 4.69
3147 3502 4.422073 TTATTCTGAATGGCTCACCGAT 57.578 40.909 13.01 0.00 39.70 4.18
3148 3503 2.315925 TTCTGAATGGCTCACCGATC 57.684 50.000 0.00 0.00 39.70 3.69
3149 3504 1.194218 TCTGAATGGCTCACCGATCA 58.806 50.000 0.00 0.00 39.70 2.92
3150 3505 1.764723 TCTGAATGGCTCACCGATCAT 59.235 47.619 0.00 0.00 39.70 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 34 4.985538 TGAATAAAACTCCTCCAGCAAGT 58.014 39.130 0.00 0.00 0.00 3.16
175 387 5.387113 ACTTGTTATATCATGCCTCCCAA 57.613 39.130 0.00 0.00 0.00 4.12
193 405 0.989890 GTCGCGCTACCTACAACTTG 59.010 55.000 5.56 0.00 0.00 3.16
194 406 0.599558 TGTCGCGCTACCTACAACTT 59.400 50.000 9.82 0.00 0.00 2.66
195 407 0.815734 ATGTCGCGCTACCTACAACT 59.184 50.000 9.82 0.00 0.00 3.16
196 408 2.382519 CTATGTCGCGCTACCTACAAC 58.617 52.381 9.82 0.00 0.00 3.32
197 409 1.268896 GCTATGTCGCGCTACCTACAA 60.269 52.381 9.82 0.00 0.00 2.41
198 410 0.309922 GCTATGTCGCGCTACCTACA 59.690 55.000 9.82 0.00 0.00 2.74
199 411 3.089117 GCTATGTCGCGCTACCTAC 57.911 57.895 9.82 0.00 0.00 3.18
208 420 2.311450 TCGTTCTATCGCTATGTCGC 57.689 50.000 0.00 0.00 0.00 5.19
209 421 2.646109 CGTTCGTTCTATCGCTATGTCG 59.354 50.000 0.00 0.00 0.00 4.35
210 422 3.658533 GTCGTTCGTTCTATCGCTATGTC 59.341 47.826 0.00 0.00 0.00 3.06
211 423 3.311871 AGTCGTTCGTTCTATCGCTATGT 59.688 43.478 0.00 0.00 0.00 2.29
212 424 3.874706 AGTCGTTCGTTCTATCGCTATG 58.125 45.455 0.00 0.00 0.00 2.23
213 425 4.377226 GCTAGTCGTTCGTTCTATCGCTAT 60.377 45.833 0.00 0.00 0.00 2.97
214 426 3.060003 GCTAGTCGTTCGTTCTATCGCTA 60.060 47.826 0.00 0.00 0.00 4.26
215 427 2.286301 GCTAGTCGTTCGTTCTATCGCT 60.286 50.000 0.00 0.00 0.00 4.93
216 428 2.035503 GCTAGTCGTTCGTTCTATCGC 58.964 52.381 0.00 0.00 0.00 4.58
280 522 4.153475 CGTTCTTCTTTCTTGCGGGATTTA 59.847 41.667 0.00 0.00 0.00 1.40
293 535 4.991687 GTCTTCATGGACTCGTTCTTCTTT 59.008 41.667 0.00 0.00 33.81 2.52
333 578 1.084370 CCGGAGTTGTGAGGATTCGC 61.084 60.000 0.00 0.00 0.00 4.70
379 624 3.951037 TGTTGCTTGCTTCTTTCTGGTTA 59.049 39.130 0.00 0.00 0.00 2.85
384 633 7.013274 TGTTTACTATGTTGCTTGCTTCTTTCT 59.987 33.333 0.00 0.00 0.00 2.52
413 662 5.771165 AGCATCATGCCATGTTTATGTGATA 59.229 36.000 5.84 0.00 46.52 2.15
437 686 5.469760 CCGGATATGCATCATACTTGTTTGA 59.530 40.000 0.19 0.00 32.32 2.69
456 705 3.894427 TGCCATGCATATTTAAACCGGAT 59.106 39.130 9.46 0.00 31.71 4.18
689 945 3.806949 ATGCATATGGGGAATTACCGT 57.193 42.857 0.00 0.00 40.11 4.83
840 1100 0.250770 GTGGCCTCTTTTCCTTCCGT 60.251 55.000 3.32 0.00 0.00 4.69
955 1230 0.848735 ACCAGGATCATCCCACCATG 59.151 55.000 0.00 0.00 37.19 3.66
964 1239 1.489230 GAACCCGGTAACCAGGATCAT 59.511 52.381 0.00 0.00 30.99 2.45
1025 1302 1.822613 TTTGCACCACGCCCGTTTA 60.823 52.632 0.00 0.00 41.33 2.01
1034 1316 0.454196 AAACTCCGTGTTTGCACCAC 59.546 50.000 5.76 5.76 46.08 4.16
1114 1396 2.107950 ATCCGCTCCGAAAATGAACA 57.892 45.000 0.00 0.00 0.00 3.18
1359 1641 3.253230 GCAAAATGCCAAGTACATGGAC 58.747 45.455 21.07 12.09 43.54 4.02
1374 1657 3.443052 TGTGGAGATGGGATTGCAAAAT 58.557 40.909 1.71 0.00 0.00 1.82
1389 1672 3.129462 ACGACTACATGATGACTGTGGAG 59.871 47.826 0.00 0.00 0.00 3.86
1394 1677 3.108881 CCGAACGACTACATGATGACTG 58.891 50.000 0.00 0.00 0.00 3.51
1395 1678 2.099263 CCCGAACGACTACATGATGACT 59.901 50.000 0.00 0.00 0.00 3.41
1518 1801 3.725459 CATTGACCGCTGCACGCA 61.725 61.111 0.00 0.00 41.76 5.24
1543 1826 1.806461 AAGGAGACGACTCGCAGCAA 61.806 55.000 8.76 0.00 43.44 3.91
1775 2072 2.752358 CCCTGCCTTGTCTGAGCA 59.248 61.111 0.00 0.00 34.79 4.26
1778 2075 2.431683 GTGCCCTGCCTTGTCTGA 59.568 61.111 0.00 0.00 0.00 3.27
1780 2077 4.335647 CCGTGCCCTGCCTTGTCT 62.336 66.667 0.00 0.00 0.00 3.41
2020 2318 2.989253 TCTCAAGCCGCCTCGTCA 60.989 61.111 0.00 0.00 0.00 4.35
2198 2497 1.949449 ATCCCCACCTCCCTCCTCT 60.949 63.158 0.00 0.00 0.00 3.69
2209 2508 1.834822 CCTCTCCCTCGATCCCCAC 60.835 68.421 0.00 0.00 0.00 4.61
2529 2866 5.104067 ACTCCAAAAACCTTGTCCTAGTTCT 60.104 40.000 0.00 0.00 0.00 3.01
2625 2965 4.099419 GGCCTTTTCCTTCTTCAAGTTTCA 59.901 41.667 0.00 0.00 0.00 2.69
2651 2993 5.954752 TGAACCCACTTGCATATTAAATCCA 59.045 36.000 0.00 0.00 0.00 3.41
2899 3254 3.120649 CCTTGGTTTTCGAGATTCGTGAC 60.121 47.826 0.00 0.00 41.35 3.67
2963 3318 8.706492 ACAGTTGCCACATTTTATGAAATATG 57.294 30.769 0.00 0.00 33.78 1.78
2966 3321 8.987890 GTTAACAGTTGCCACATTTTATGAAAT 58.012 29.630 0.00 0.00 35.90 2.17
2968 3323 7.492524 TGTTAACAGTTGCCACATTTTATGAA 58.507 30.769 3.59 0.00 0.00 2.57
2969 3324 7.043961 TGTTAACAGTTGCCACATTTTATGA 57.956 32.000 3.59 0.00 0.00 2.15
2970 3325 7.598118 TCATGTTAACAGTTGCCACATTTTATG 59.402 33.333 14.65 1.75 0.00 1.90
2971 3326 7.665690 TCATGTTAACAGTTGCCACATTTTAT 58.334 30.769 14.65 0.00 0.00 1.40
2972 3327 7.043961 TCATGTTAACAGTTGCCACATTTTA 57.956 32.000 14.65 0.00 0.00 1.52
2973 3328 5.911752 TCATGTTAACAGTTGCCACATTTT 58.088 33.333 14.65 0.00 0.00 1.82
2974 3329 5.528043 TCATGTTAACAGTTGCCACATTT 57.472 34.783 14.65 0.00 0.00 2.32
2975 3330 5.726980 ATCATGTTAACAGTTGCCACATT 57.273 34.783 14.65 0.00 0.00 2.71
2976 3331 5.619757 CGAATCATGTTAACAGTTGCCACAT 60.620 40.000 14.65 0.00 0.00 3.21
2977 3332 4.320129 CGAATCATGTTAACAGTTGCCACA 60.320 41.667 14.65 0.00 0.00 4.17
2978 3333 4.158384 CGAATCATGTTAACAGTTGCCAC 58.842 43.478 14.65 1.97 0.00 5.01
2979 3334 3.190327 CCGAATCATGTTAACAGTTGCCA 59.810 43.478 14.65 0.00 0.00 4.92
2980 3335 3.438781 TCCGAATCATGTTAACAGTTGCC 59.561 43.478 14.65 2.70 0.00 4.52
2981 3336 4.678509 TCCGAATCATGTTAACAGTTGC 57.321 40.909 14.65 0.00 0.00 4.17
2982 3337 7.492669 AGTCTATCCGAATCATGTTAACAGTTG 59.507 37.037 14.65 8.57 0.00 3.16
2983 3338 7.556844 AGTCTATCCGAATCATGTTAACAGTT 58.443 34.615 14.65 8.67 0.00 3.16
2984 3339 7.113658 AGTCTATCCGAATCATGTTAACAGT 57.886 36.000 14.65 0.00 0.00 3.55
2985 3340 8.425577 AAAGTCTATCCGAATCATGTTAACAG 57.574 34.615 14.65 6.58 0.00 3.16
2986 3341 8.786826 AAAAGTCTATCCGAATCATGTTAACA 57.213 30.769 11.41 11.41 0.00 2.41
2989 3344 9.042008 GCTTAAAAGTCTATCCGAATCATGTTA 57.958 33.333 0.00 0.00 0.00 2.41
2990 3345 7.552687 TGCTTAAAAGTCTATCCGAATCATGTT 59.447 33.333 0.00 0.00 0.00 2.71
2991 3346 7.047891 TGCTTAAAAGTCTATCCGAATCATGT 58.952 34.615 0.00 0.00 0.00 3.21
2992 3347 7.482654 TGCTTAAAAGTCTATCCGAATCATG 57.517 36.000 0.00 0.00 0.00 3.07
2993 3348 7.116948 CGATGCTTAAAAGTCTATCCGAATCAT 59.883 37.037 0.00 0.00 0.00 2.45
2994 3349 6.420903 CGATGCTTAAAAGTCTATCCGAATCA 59.579 38.462 0.00 0.00 0.00 2.57
2995 3350 6.641314 TCGATGCTTAAAAGTCTATCCGAATC 59.359 38.462 0.00 0.00 0.00 2.52
2996 3351 6.513180 TCGATGCTTAAAAGTCTATCCGAAT 58.487 36.000 0.00 0.00 0.00 3.34
2997 3352 5.898174 TCGATGCTTAAAAGTCTATCCGAA 58.102 37.500 0.00 0.00 0.00 4.30
2998 3353 5.509716 TCGATGCTTAAAAGTCTATCCGA 57.490 39.130 0.00 0.00 0.00 4.55
2999 3354 7.755373 TCATATCGATGCTTAAAAGTCTATCCG 59.245 37.037 8.54 0.00 32.62 4.18
3000 3355 8.988064 TCATATCGATGCTTAAAAGTCTATCC 57.012 34.615 8.54 0.00 32.62 2.59
3001 3356 9.632807 ACTCATATCGATGCTTAAAAGTCTATC 57.367 33.333 8.54 0.00 32.62 2.08
3002 3357 9.416794 CACTCATATCGATGCTTAAAAGTCTAT 57.583 33.333 8.54 0.00 32.62 1.98
3003 3358 8.630037 TCACTCATATCGATGCTTAAAAGTCTA 58.370 33.333 8.54 0.00 32.62 2.59
3004 3359 7.492524 TCACTCATATCGATGCTTAAAAGTCT 58.507 34.615 8.54 0.00 32.62 3.24
3005 3360 7.649705 TCTCACTCATATCGATGCTTAAAAGTC 59.350 37.037 8.54 0.00 32.62 3.01
3006 3361 7.492524 TCTCACTCATATCGATGCTTAAAAGT 58.507 34.615 8.54 0.00 32.62 2.66
3007 3362 7.936950 TCTCACTCATATCGATGCTTAAAAG 57.063 36.000 8.54 0.00 32.62 2.27
3008 3363 8.716646 TTTCTCACTCATATCGATGCTTAAAA 57.283 30.769 8.54 0.00 32.62 1.52
3009 3364 8.716646 TTTTCTCACTCATATCGATGCTTAAA 57.283 30.769 8.54 0.00 32.62 1.52
3010 3365 8.893219 ATTTTCTCACTCATATCGATGCTTAA 57.107 30.769 8.54 0.00 32.62 1.85
3011 3366 8.363390 AGATTTTCTCACTCATATCGATGCTTA 58.637 33.333 8.54 0.00 32.62 3.09
3012 3367 7.215789 AGATTTTCTCACTCATATCGATGCTT 58.784 34.615 8.54 0.00 32.62 3.91
3013 3368 6.757237 AGATTTTCTCACTCATATCGATGCT 58.243 36.000 8.54 0.00 32.62 3.79
3014 3369 7.048000 GAGATTTTCTCACTCATATCGATGC 57.952 40.000 8.54 0.00 42.90 3.91
3028 3383 6.035112 GGTGTTGACTACGATGAGATTTTCTC 59.965 42.308 0.00 0.00 43.65 2.87
3029 3384 5.869888 GGTGTTGACTACGATGAGATTTTCT 59.130 40.000 0.00 0.00 0.00 2.52
3030 3385 5.869888 AGGTGTTGACTACGATGAGATTTTC 59.130 40.000 0.00 0.00 0.00 2.29
3031 3386 5.794894 AGGTGTTGACTACGATGAGATTTT 58.205 37.500 0.00 0.00 0.00 1.82
3032 3387 5.407407 AGGTGTTGACTACGATGAGATTT 57.593 39.130 0.00 0.00 0.00 2.17
3033 3388 5.047306 TCAAGGTGTTGACTACGATGAGATT 60.047 40.000 0.00 0.00 37.79 2.40
3034 3389 4.462834 TCAAGGTGTTGACTACGATGAGAT 59.537 41.667 0.00 0.00 37.79 2.75
3035 3390 3.824443 TCAAGGTGTTGACTACGATGAGA 59.176 43.478 0.00 0.00 37.79 3.27
3036 3391 4.174411 TCAAGGTGTTGACTACGATGAG 57.826 45.455 0.00 0.00 37.79 2.90
3037 3392 4.038763 AGTTCAAGGTGTTGACTACGATGA 59.961 41.667 0.00 0.00 42.60 2.92
3038 3393 4.307432 AGTTCAAGGTGTTGACTACGATG 58.693 43.478 0.00 0.00 42.60 3.84
3039 3394 4.602340 AGTTCAAGGTGTTGACTACGAT 57.398 40.909 0.00 0.00 42.60 3.73
3040 3395 4.116961 CAAGTTCAAGGTGTTGACTACGA 58.883 43.478 0.00 0.00 42.60 3.43
3041 3396 3.869246 ACAAGTTCAAGGTGTTGACTACG 59.131 43.478 0.00 0.00 42.60 3.51
3042 3397 4.025979 CGACAAGTTCAAGGTGTTGACTAC 60.026 45.833 0.00 0.00 42.60 2.73
3043 3398 4.116961 CGACAAGTTCAAGGTGTTGACTA 58.883 43.478 0.00 0.00 42.60 2.59
3044 3399 2.936498 CGACAAGTTCAAGGTGTTGACT 59.064 45.455 0.00 0.00 42.60 3.41
3045 3400 2.933906 TCGACAAGTTCAAGGTGTTGAC 59.066 45.455 0.00 0.00 42.60 3.18
3046 3401 3.254470 TCGACAAGTTCAAGGTGTTGA 57.746 42.857 0.00 0.00 41.13 3.18
3047 3402 4.349663 TTTCGACAAGTTCAAGGTGTTG 57.650 40.909 0.00 0.00 34.67 3.33
3048 3403 4.380128 GGTTTTCGACAAGTTCAAGGTGTT 60.380 41.667 0.00 0.00 0.00 3.32
3049 3404 3.128068 GGTTTTCGACAAGTTCAAGGTGT 59.872 43.478 0.00 0.00 0.00 4.16
3050 3405 3.377172 AGGTTTTCGACAAGTTCAAGGTG 59.623 43.478 0.00 0.00 0.00 4.00
3051 3406 3.617284 AGGTTTTCGACAAGTTCAAGGT 58.383 40.909 0.00 0.00 0.00 3.50
3052 3407 4.632538 AAGGTTTTCGACAAGTTCAAGG 57.367 40.909 0.00 0.00 0.00 3.61
3053 3408 5.220209 GCAAAAGGTTTTCGACAAGTTCAAG 60.220 40.000 0.00 0.00 0.00 3.02
3054 3409 4.623595 GCAAAAGGTTTTCGACAAGTTCAA 59.376 37.500 0.00 0.00 0.00 2.69
3055 3410 4.170256 GCAAAAGGTTTTCGACAAGTTCA 58.830 39.130 0.00 0.00 0.00 3.18
3056 3411 3.239712 CGCAAAAGGTTTTCGACAAGTTC 59.760 43.478 0.00 0.00 0.00 3.01
3057 3412 3.119779 TCGCAAAAGGTTTTCGACAAGTT 60.120 39.130 0.00 0.00 30.65 2.66
3058 3413 2.420722 TCGCAAAAGGTTTTCGACAAGT 59.579 40.909 0.00 0.00 30.65 3.16
3059 3414 2.781646 GTCGCAAAAGGTTTTCGACAAG 59.218 45.455 21.74 1.64 42.78 3.16
3060 3415 2.161808 TGTCGCAAAAGGTTTTCGACAA 59.838 40.909 24.34 15.66 45.63 3.18
3061 3416 1.738350 TGTCGCAAAAGGTTTTCGACA 59.262 42.857 23.57 23.57 45.95 4.35
3062 3417 2.461897 TGTCGCAAAAGGTTTTCGAC 57.538 45.000 20.82 20.82 43.11 4.20
3063 3418 3.701532 ATTGTCGCAAAAGGTTTTCGA 57.298 38.095 0.00 5.96 32.00 3.71
3064 3419 3.794028 TGAATTGTCGCAAAAGGTTTTCG 59.206 39.130 0.00 0.00 0.00 3.46
3065 3420 5.062809 TGTTGAATTGTCGCAAAAGGTTTTC 59.937 36.000 0.00 0.00 0.00 2.29
3066 3421 4.932200 TGTTGAATTGTCGCAAAAGGTTTT 59.068 33.333 0.00 0.00 0.00 2.43
3067 3422 4.328712 GTGTTGAATTGTCGCAAAAGGTTT 59.671 37.500 0.00 0.00 0.00 3.27
3068 3423 3.862845 GTGTTGAATTGTCGCAAAAGGTT 59.137 39.130 0.00 0.00 0.00 3.50
3069 3424 3.130340 AGTGTTGAATTGTCGCAAAAGGT 59.870 39.130 0.00 0.00 0.00 3.50
3070 3425 3.705604 AGTGTTGAATTGTCGCAAAAGG 58.294 40.909 0.00 0.00 0.00 3.11
3071 3426 5.510671 AGTAGTGTTGAATTGTCGCAAAAG 58.489 37.500 0.00 0.00 0.00 2.27
3072 3427 5.493133 AGTAGTGTTGAATTGTCGCAAAA 57.507 34.783 0.00 0.00 0.00 2.44
3073 3428 6.795098 ATAGTAGTGTTGAATTGTCGCAAA 57.205 33.333 0.00 0.00 0.00 3.68
3074 3429 6.348132 CCAATAGTAGTGTTGAATTGTCGCAA 60.348 38.462 8.50 0.00 0.00 4.85
3075 3430 5.121611 CCAATAGTAGTGTTGAATTGTCGCA 59.878 40.000 8.50 0.00 0.00 5.10
3076 3431 5.560148 CCAATAGTAGTGTTGAATTGTCGC 58.440 41.667 8.50 0.00 0.00 5.19
3077 3432 5.560148 GCCAATAGTAGTGTTGAATTGTCG 58.440 41.667 8.50 0.00 0.00 4.35
3078 3433 5.121768 ACGCCAATAGTAGTGTTGAATTGTC 59.878 40.000 8.50 0.00 0.00 3.18
3079 3434 5.001232 ACGCCAATAGTAGTGTTGAATTGT 58.999 37.500 8.50 0.00 0.00 2.71
3080 3435 5.447279 GGACGCCAATAGTAGTGTTGAATTG 60.447 44.000 8.50 0.00 0.00 2.32
3081 3436 4.634443 GGACGCCAATAGTAGTGTTGAATT 59.366 41.667 8.50 0.00 0.00 2.17
3082 3437 4.189231 GGACGCCAATAGTAGTGTTGAAT 58.811 43.478 8.50 0.00 0.00 2.57
3083 3438 3.007074 TGGACGCCAATAGTAGTGTTGAA 59.993 43.478 8.50 0.00 0.00 2.69
3084 3439 2.563620 TGGACGCCAATAGTAGTGTTGA 59.436 45.455 8.50 0.00 0.00 3.18
3085 3440 2.967362 TGGACGCCAATAGTAGTGTTG 58.033 47.619 0.23 0.23 0.00 3.33
3086 3441 3.451178 AGATGGACGCCAATAGTAGTGTT 59.549 43.478 2.68 0.00 36.95 3.32
3087 3442 3.031736 AGATGGACGCCAATAGTAGTGT 58.968 45.455 2.68 0.00 36.95 3.55
3088 3443 3.735237 AGATGGACGCCAATAGTAGTG 57.265 47.619 2.68 0.00 36.95 2.74
3089 3444 3.069729 GGAAGATGGACGCCAATAGTAGT 59.930 47.826 2.68 0.00 36.95 2.73
3090 3445 3.322254 AGGAAGATGGACGCCAATAGTAG 59.678 47.826 2.68 0.00 36.95 2.57
3091 3446 3.305720 AGGAAGATGGACGCCAATAGTA 58.694 45.455 2.68 0.00 36.95 1.82
3092 3447 2.119495 AGGAAGATGGACGCCAATAGT 58.881 47.619 2.68 0.00 36.95 2.12
3093 3448 2.918712 AGGAAGATGGACGCCAATAG 57.081 50.000 2.68 0.00 36.95 1.73
3094 3449 4.346709 TCAATAGGAAGATGGACGCCAATA 59.653 41.667 2.68 0.00 36.95 1.90
3095 3450 3.136443 TCAATAGGAAGATGGACGCCAAT 59.864 43.478 2.68 0.00 36.95 3.16
3096 3451 2.503765 TCAATAGGAAGATGGACGCCAA 59.496 45.455 2.68 0.00 36.95 4.52
3097 3452 2.115427 TCAATAGGAAGATGGACGCCA 58.885 47.619 1.01 1.01 38.19 5.69
3098 3453 2.910688 TCAATAGGAAGATGGACGCC 57.089 50.000 0.00 0.00 0.00 5.68
3099 3454 5.278022 GGATTTTCAATAGGAAGATGGACGC 60.278 44.000 0.00 0.00 36.72 5.19
3100 3455 5.822519 TGGATTTTCAATAGGAAGATGGACG 59.177 40.000 0.00 0.00 36.72 4.79
3101 3456 7.830099 ATGGATTTTCAATAGGAAGATGGAC 57.170 36.000 0.00 0.00 36.72 4.02
3102 3457 8.843308 AAATGGATTTTCAATAGGAAGATGGA 57.157 30.769 0.00 0.00 36.72 3.41
3123 3478 4.576053 TCGGTGAGCCATTCAGAATAAATG 59.424 41.667 0.00 0.00 36.21 2.32
3124 3479 4.780815 TCGGTGAGCCATTCAGAATAAAT 58.219 39.130 0.00 0.00 36.21 1.40
3125 3480 4.214986 TCGGTGAGCCATTCAGAATAAA 57.785 40.909 0.00 0.00 36.21 1.40
3126 3481 3.904800 TCGGTGAGCCATTCAGAATAA 57.095 42.857 0.00 0.00 36.21 1.40
3127 3482 3.387699 TGATCGGTGAGCCATTCAGAATA 59.612 43.478 0.00 0.00 36.21 1.75
3128 3483 2.171237 TGATCGGTGAGCCATTCAGAAT 59.829 45.455 0.00 0.00 36.21 2.40
3129 3484 1.554617 TGATCGGTGAGCCATTCAGAA 59.445 47.619 0.00 0.00 36.21 3.02
3130 3485 1.194218 TGATCGGTGAGCCATTCAGA 58.806 50.000 0.00 0.00 36.21 3.27
3131 3486 2.251409 ATGATCGGTGAGCCATTCAG 57.749 50.000 0.00 0.00 36.21 3.02


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

AutoCloner maintained by Alex Coulton.