Multiple sequence alignment - TraesCS7A01G025700

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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 TraesCS7A01G025700 chr7A 100.000 3194 0 0 1 3194 10170958 10167765 0.000000e+00 5899
1 TraesCS7A01G025700 chr7A 78.883 1809 255 60 887 2643 10157775 10156042 0.000000e+00 1107
2 TraesCS7A01G025700 chr7A 79.204 1659 267 43 1006 2601 10092023 10090380 0.000000e+00 1081
3 TraesCS7A01G025700 chr7A 77.955 1379 233 38 1026 2366 9669848 9668503 0.000000e+00 797
4 TraesCS7A01G025700 chr7A 77.347 1342 233 37 984 2291 9381999 9383303 0.000000e+00 728
5 TraesCS7A01G025700 chr7A 76.187 1411 257 42 907 2293 9494160 9495515 0.000000e+00 671
6 TraesCS7A01G025700 chr7A 89.532 449 47 0 2746 3194 10091198 10090750 1.290000e-158 569
7 TraesCS7A01G025700 chr7A 86.031 451 63 0 2742 3192 10106001 10105551 4.790000e-133 484
8 TraesCS7A01G025700 chr7A 82.735 446 71 5 2752 3194 114413586 114413144 2.990000e-105 392
9 TraesCS7A01G025700 chr7A 87.615 218 26 1 398 614 511450165 511450382 5.290000e-63 252
10 TraesCS7A01G025700 chr7D 94.237 2169 115 7 1034 3194 10974205 10972039 0.000000e+00 3304
11 TraesCS7A01G025700 chr7D 81.276 1693 251 34 1006 2659 109144708 109143043 0.000000e+00 1310
12 TraesCS7A01G025700 chr7D 79.888 1611 258 39 1006 2565 10963652 10962057 0.000000e+00 1120
13 TraesCS7A01G025700 chr7D 77.725 1697 300 46 1014 2659 8818879 8820548 0.000000e+00 968
14 TraesCS7A01G025700 chr7D 79.185 1374 216 46 1080 2396 10910347 10908987 0.000000e+00 889
15 TraesCS7A01G025700 chr7D 78.162 1360 229 37 1095 2424 10465530 10464209 0.000000e+00 804
16 TraesCS7A01G025700 chr7D 94.790 499 11 6 618 1112 10975869 10975382 0.000000e+00 763
17 TraesCS7A01G025700 chr7D 91.892 444 36 0 2741 3184 10909587 10909144 3.500000e-174 621
18 TraesCS7A01G025700 chr7D 90.000 460 46 0 2735 3194 10962844 10962385 2.120000e-166 595
19 TraesCS7A01G025700 chr7D 84.045 445 62 7 2746 3186 10973426 10972987 1.370000e-113 420
20 TraesCS7A01G025700 chr7D 92.884 267 18 1 90 356 530944085 530943820 1.390000e-103 387
21 TraesCS7A01G025700 chr7D 92.222 270 18 1 90 356 26978921 26979190 2.330000e-101 379
22 TraesCS7A01G025700 chr7D 94.937 237 9 2 733 969 10974450 10974217 5.030000e-98 368
23 TraesCS7A01G025700 chr7D 93.151 219 15 0 398 616 10976118 10975900 3.970000e-84 322
24 TraesCS7A01G025700 chr7D 82.778 180 19 7 2393 2565 10903425 10903251 1.980000e-32 150
25 TraesCS7A01G025700 chr7D 89.412 85 6 3 2679 2763 10972652 10972571 1.570000e-18 104
26 TraesCS7A01G025700 chr7B 81.630 1693 245 33 1006 2659 68223638 68221973 0.000000e+00 1343
27 TraesCS7A01G025700 chr7B 80.792 1692 261 33 1006 2659 68160689 68159024 0.000000e+00 1266
28 TraesCS7A01G025700 chr4A 95.499 822 30 2 875 1689 727122902 727123723 0.000000e+00 1306
29 TraesCS7A01G025700 chr4A 82.929 1195 185 15 1009 2198 728353064 728351884 0.000000e+00 1059
30 TraesCS7A01G025700 chr4A 78.553 1534 250 44 1078 2564 729819314 729820815 0.000000e+00 937
31 TraesCS7A01G025700 chr4A 76.936 1795 313 51 922 2669 729236676 729238416 0.000000e+00 928
32 TraesCS7A01G025700 chr4A 83.556 450 70 4 2746 3194 729881665 729882111 4.930000e-113 418
33 TraesCS7A01G025700 chr4A 78.967 523 91 13 1292 1806 728358076 728357565 3.950000e-89 339
34 TraesCS7A01G025700 chr4A 95.775 213 1 6 619 828 727122695 727122902 1.420000e-88 337
35 TraesCS7A01G025700 chr4B 80.366 1365 217 20 1021 2349 654201974 654203323 0.000000e+00 989
36 TraesCS7A01G025700 chr4B 85.210 453 59 5 2736 3186 654202768 654203214 2.900000e-125 459
37 TraesCS7A01G025700 chr4B 90.062 161 16 0 454 614 25451440 25451600 3.230000e-50 209
38 TraesCS7A01G025700 chr5A 79.273 1486 238 38 911 2342 691820902 691822371 0.000000e+00 974
39 TraesCS7A01G025700 chr5A 95.098 102 5 0 1 102 606680083 606680184 9.170000e-36 161
40 TraesCS7A01G025700 chr6D 81.988 1177 170 16 1003 2164 84280130 84281279 0.000000e+00 961
41 TraesCS7A01G025700 chr6D 92.193 269 18 1 91 356 313969223 313969491 8.360000e-101 377
42 TraesCS7A01G025700 chr6D 83.990 381 47 11 2289 2659 84281377 84281753 1.410000e-93 353
43 TraesCS7A01G025700 chr1D 92.910 268 18 1 90 356 487220794 487221061 3.860000e-104 388
44 TraesCS7A01G025700 chr1D 92.164 268 18 1 92 356 464781108 464781375 3.010000e-100 375
45 TraesCS7A01G025700 chr1D 97.938 97 2 0 1 97 101914684 101914588 5.480000e-38 169
46 TraesCS7A01G025700 chr1D 96.078 102 4 0 1 102 133262060 133261959 1.970000e-37 167
47 TraesCS7A01G025700 chr5D 91.034 290 21 4 90 379 23920700 23920416 1.390000e-103 387
48 TraesCS7A01G025700 chr5D 90.741 270 23 1 90 359 39062118 39061851 3.030000e-95 359
49 TraesCS7A01G025700 chr5D 88.073 218 25 1 398 614 254344143 254343926 1.140000e-64 257
50 TraesCS7A01G025700 chr5B 91.111 270 24 0 90 359 597092235 597091966 1.810000e-97 366
51 TraesCS7A01G025700 chr5B 95.238 105 3 2 1 103 338683637 338683741 7.090000e-37 165
52 TraesCS7A01G025700 chr3B 90.370 270 23 1 90 356 30484047 30484316 5.070000e-93 351
53 TraesCS7A01G025700 chr6B 88.940 217 24 0 398 614 683318608 683318392 5.250000e-68 268
54 TraesCS7A01G025700 chr3A 88.532 218 24 1 398 614 730419686 730419903 2.440000e-66 263
55 TraesCS7A01G025700 chr3A 93.043 115 7 1 1 115 77414952 77414839 1.970000e-37 167
56 TraesCS7A01G025700 chr2D 88.532 218 24 1 398 614 391294249 391294466 2.440000e-66 263
57 TraesCS7A01G025700 chr1A 88.532 218 24 1 398 614 12786305 12786522 2.440000e-66 263
58 TraesCS7A01G025700 chr3D 88.073 218 25 1 398 614 141459699 141459916 1.140000e-64 257
59 TraesCS7A01G025700 chr4D 98.889 90 1 0 1 90 37918234 37918323 9.170000e-36 161
60 TraesCS7A01G025700 chr2A 93.519 108 5 2 1 107 715847665 715847559 3.300000e-35 159
61 TraesCS7A01G025700 chr6A 92.793 111 5 3 1 111 495213309 495213202 1.190000e-34 158
62 TraesCS7A01G025700 chr1B 97.753 89 2 0 1 89 390545700 390545788 1.530000e-33 154


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 TraesCS7A01G025700 chr7A 10167765 10170958 3193 True 5899.000000 5899 100.0000 1 3194 1 chr7A.!!$R4 3193
1 TraesCS7A01G025700 chr7A 10156042 10157775 1733 True 1107.000000 1107 78.8830 887 2643 1 chr7A.!!$R3 1756
2 TraesCS7A01G025700 chr7A 10090380 10092023 1643 True 825.000000 1081 84.3680 1006 3194 2 chr7A.!!$R6 2188
3 TraesCS7A01G025700 chr7A 9668503 9669848 1345 True 797.000000 797 77.9550 1026 2366 1 chr7A.!!$R1 1340
4 TraesCS7A01G025700 chr7A 9381999 9383303 1304 False 728.000000 728 77.3470 984 2291 1 chr7A.!!$F1 1307
5 TraesCS7A01G025700 chr7A 9494160 9495515 1355 False 671.000000 671 76.1870 907 2293 1 chr7A.!!$F2 1386
6 TraesCS7A01G025700 chr7D 109143043 109144708 1665 True 1310.000000 1310 81.2760 1006 2659 1 chr7D.!!$R3 1653
7 TraesCS7A01G025700 chr7D 8818879 8820548 1669 False 968.000000 968 77.7250 1014 2659 1 chr7D.!!$F1 1645
8 TraesCS7A01G025700 chr7D 10972039 10976118 4079 True 880.166667 3304 91.7620 398 3194 6 chr7D.!!$R7 2796
9 TraesCS7A01G025700 chr7D 10962057 10963652 1595 True 857.500000 1120 84.9440 1006 3194 2 chr7D.!!$R6 2188
10 TraesCS7A01G025700 chr7D 10464209 10465530 1321 True 804.000000 804 78.1620 1095 2424 1 chr7D.!!$R1 1329
11 TraesCS7A01G025700 chr7D 10908987 10910347 1360 True 755.000000 889 85.5385 1080 3184 2 chr7D.!!$R5 2104
12 TraesCS7A01G025700 chr7B 68221973 68223638 1665 True 1343.000000 1343 81.6300 1006 2659 1 chr7B.!!$R2 1653
13 TraesCS7A01G025700 chr7B 68159024 68160689 1665 True 1266.000000 1266 80.7920 1006 2659 1 chr7B.!!$R1 1653
14 TraesCS7A01G025700 chr4A 728351884 728353064 1180 True 1059.000000 1059 82.9290 1009 2198 1 chr4A.!!$R1 1189
15 TraesCS7A01G025700 chr4A 729819314 729820815 1501 False 937.000000 937 78.5530 1078 2564 1 chr4A.!!$F2 1486
16 TraesCS7A01G025700 chr4A 729236676 729238416 1740 False 928.000000 928 76.9360 922 2669 1 chr4A.!!$F1 1747
17 TraesCS7A01G025700 chr4A 727122695 727123723 1028 False 821.500000 1306 95.6370 619 1689 2 chr4A.!!$F4 1070
18 TraesCS7A01G025700 chr4A 728357565 728358076 511 True 339.000000 339 78.9670 1292 1806 1 chr4A.!!$R2 514
19 TraesCS7A01G025700 chr4B 654201974 654203323 1349 False 724.000000 989 82.7880 1021 3186 2 chr4B.!!$F2 2165
20 TraesCS7A01G025700 chr5A 691820902 691822371 1469 False 974.000000 974 79.2730 911 2342 1 chr5A.!!$F2 1431
21 TraesCS7A01G025700 chr6D 84280130 84281753 1623 False 657.000000 961 82.9890 1003 2659 2 chr6D.!!$F2 1656

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
445 446 0.100861 GGTTTAGGAGACGCCGAGAG 59.899 60.000 0.0 0.0 43.43 3.20 F
912 949 1.521457 CCCATCACCGATCACCACG 60.521 63.158 0.0 0.0 0.00 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1509 2916 0.463116 GGCCTGTGGTATGGTTACGG 60.463 60.000 0.00 0.0 0.00 4.02 R
2227 3672 1.604278 GCCGACAGAATAGCCAATTCC 59.396 52.381 5.91 0.0 44.44 3.01 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
76 77 8.637196 AATAACTTTATTATTGCCTCTAGGGC 57.363 34.615 13.60 13.60 44.71 5.19
88 89 4.982241 CCTCTAGGGCATATTTCCTTCA 57.018 45.455 0.00 0.00 34.75 3.02
89 90 4.904241 CCTCTAGGGCATATTTCCTTCAG 58.096 47.826 0.00 0.00 34.75 3.02
90 91 4.263243 CCTCTAGGGCATATTTCCTTCAGG 60.263 50.000 0.00 2.64 34.75 3.86
91 92 4.566837 TCTAGGGCATATTTCCTTCAGGA 58.433 43.478 0.00 0.00 43.73 3.86
92 93 5.165652 TCTAGGGCATATTTCCTTCAGGAT 58.834 41.667 0.00 0.00 44.98 3.24
93 94 4.379302 AGGGCATATTTCCTTCAGGATC 57.621 45.455 0.00 0.00 44.98 3.36
94 95 3.986134 AGGGCATATTTCCTTCAGGATCT 59.014 43.478 0.00 0.00 44.98 2.75
95 96 4.077822 GGGCATATTTCCTTCAGGATCTG 58.922 47.826 0.00 0.00 44.98 2.90
96 97 4.077822 GGCATATTTCCTTCAGGATCTGG 58.922 47.826 0.00 0.00 44.98 3.86
97 98 4.077822 GCATATTTCCTTCAGGATCTGGG 58.922 47.826 0.00 0.00 44.98 4.45
98 99 2.744352 ATTTCCTTCAGGATCTGGGC 57.256 50.000 0.00 0.00 44.98 5.36
99 100 0.253044 TTTCCTTCAGGATCTGGGCG 59.747 55.000 0.00 0.00 44.98 6.13
100 101 2.203126 CCTTCAGGATCTGGGCGC 60.203 66.667 0.00 0.00 37.39 6.53
101 102 2.203126 CTTCAGGATCTGGGCGCC 60.203 66.667 21.18 21.18 31.51 6.53
102 103 3.764160 CTTCAGGATCTGGGCGCCC 62.764 68.421 39.40 39.40 31.51 6.13
173 174 4.838152 CGCACCCCGTGGATCAGG 62.838 72.222 0.00 0.00 33.64 3.86
174 175 3.399181 GCACCCCGTGGATCAGGA 61.399 66.667 0.00 0.00 33.64 3.86
175 176 2.584608 CACCCCGTGGATCAGGAC 59.415 66.667 0.00 0.00 34.81 3.85
176 177 3.075005 ACCCCGTGGATCAGGACG 61.075 66.667 0.00 0.00 34.81 4.79
177 178 4.530857 CCCCGTGGATCAGGACGC 62.531 72.222 0.00 0.00 34.18 5.19
178 179 4.530857 CCCGTGGATCAGGACGCC 62.531 72.222 0.00 0.00 34.18 5.68
179 180 3.461773 CCGTGGATCAGGACGCCT 61.462 66.667 0.00 0.00 34.18 5.52
205 206 4.916314 GCGGATCCGGGAGAGGGA 62.916 72.222 33.98 0.00 40.19 4.20
206 207 2.598985 CGGATCCGGGAGAGGGAG 60.599 72.222 26.95 0.00 36.91 4.30
207 208 2.203714 GGATCCGGGAGAGGGAGG 60.204 72.222 0.00 0.00 36.91 4.30
208 209 2.780185 GGATCCGGGAGAGGGAGGA 61.780 68.421 0.00 0.00 36.91 3.71
209 210 1.228737 GATCCGGGAGAGGGAGGAG 60.229 68.421 0.00 0.00 36.91 3.69
210 211 1.701757 ATCCGGGAGAGGGAGGAGA 60.702 63.158 0.00 0.00 36.91 3.71
211 212 1.725169 ATCCGGGAGAGGGAGGAGAG 61.725 65.000 0.00 0.00 36.91 3.20
212 213 2.387772 CCGGGAGAGGGAGGAGAGA 61.388 68.421 0.00 0.00 0.00 3.10
213 214 1.152839 CGGGAGAGGGAGGAGAGAC 60.153 68.421 0.00 0.00 0.00 3.36
214 215 1.231928 GGGAGAGGGAGGAGAGACC 59.768 68.421 0.00 0.00 39.35 3.85
215 216 1.231928 GGAGAGGGAGGAGAGACCC 59.768 68.421 0.00 0.00 45.88 4.46
264 265 3.439540 CCCGGTGCCGACCATTTG 61.440 66.667 12.71 0.00 43.33 2.32
265 266 4.114997 CCGGTGCCGACCATTTGC 62.115 66.667 12.71 0.00 43.33 3.68
266 267 3.361158 CGGTGCCGACCATTTGCA 61.361 61.111 4.35 0.00 43.33 4.08
267 268 2.568090 GGTGCCGACCATTTGCAG 59.432 61.111 0.00 0.00 42.59 4.41
268 269 2.126346 GTGCCGACCATTTGCAGC 60.126 61.111 0.00 0.00 35.33 5.25
269 270 3.736100 TGCCGACCATTTGCAGCG 61.736 61.111 0.00 0.00 0.00 5.18
270 271 4.481112 GCCGACCATTTGCAGCGG 62.481 66.667 0.00 0.00 44.47 5.52
271 272 4.481112 CCGACCATTTGCAGCGGC 62.481 66.667 0.31 0.31 41.68 6.53
283 284 4.722535 AGCGGCAGAGGGGGAGAA 62.723 66.667 1.45 0.00 0.00 2.87
284 285 4.168291 GCGGCAGAGGGGGAGAAG 62.168 72.222 0.00 0.00 0.00 2.85
285 286 3.474570 CGGCAGAGGGGGAGAAGG 61.475 72.222 0.00 0.00 0.00 3.46
286 287 3.093172 GGCAGAGGGGGAGAAGGG 61.093 72.222 0.00 0.00 0.00 3.95
287 288 3.803162 GCAGAGGGGGAGAAGGGC 61.803 72.222 0.00 0.00 0.00 5.19
288 289 3.474570 CAGAGGGGGAGAAGGGCG 61.475 72.222 0.00 0.00 0.00 6.13
294 295 4.168291 GGGAGAAGGGCGCAGGAG 62.168 72.222 10.83 0.00 0.00 3.69
295 296 4.168291 GGAGAAGGGCGCAGGAGG 62.168 72.222 10.83 0.00 0.00 4.30
296 297 4.168291 GAGAAGGGCGCAGGAGGG 62.168 72.222 10.83 0.00 0.00 4.30
298 299 4.035102 GAAGGGCGCAGGAGGGTT 62.035 66.667 10.83 0.00 0.00 4.11
299 300 2.609610 AAGGGCGCAGGAGGGTTA 60.610 61.111 10.83 0.00 0.00 2.85
300 301 2.871216 GAAGGGCGCAGGAGGGTTAC 62.871 65.000 10.83 0.00 0.00 2.50
301 302 3.400054 GGGCGCAGGAGGGTTACT 61.400 66.667 10.83 0.00 0.00 2.24
302 303 2.062177 GGGCGCAGGAGGGTTACTA 61.062 63.158 10.83 0.00 0.00 1.82
303 304 1.442148 GGCGCAGGAGGGTTACTAG 59.558 63.158 10.83 0.00 0.00 2.57
304 305 1.442148 GCGCAGGAGGGTTACTAGG 59.558 63.158 0.30 0.00 0.00 3.02
305 306 1.442148 CGCAGGAGGGTTACTAGGC 59.558 63.158 0.00 0.00 0.00 3.93
306 307 1.442148 GCAGGAGGGTTACTAGGCG 59.558 63.158 0.00 0.00 0.00 5.52
307 308 2.029307 GCAGGAGGGTTACTAGGCGG 62.029 65.000 0.00 0.00 0.00 6.13
308 309 1.761271 AGGAGGGTTACTAGGCGGC 60.761 63.158 0.00 0.00 0.00 6.53
309 310 2.416260 GAGGGTTACTAGGCGGCG 59.584 66.667 0.51 0.51 0.00 6.46
310 311 3.148031 GAGGGTTACTAGGCGGCGG 62.148 68.421 9.78 3.12 0.00 6.13
311 312 4.904900 GGGTTACTAGGCGGCGGC 62.905 72.222 27.24 27.24 38.90 6.53
312 313 4.151582 GGTTACTAGGCGGCGGCA 62.152 66.667 34.87 19.35 42.47 5.69
313 314 2.585247 GTTACTAGGCGGCGGCAG 60.585 66.667 34.87 28.29 42.47 4.85
314 315 4.524318 TTACTAGGCGGCGGCAGC 62.524 66.667 34.87 16.93 42.47 5.25
327 328 4.039092 GCAGCTGAGCCCTCCCAA 62.039 66.667 20.43 0.00 0.00 4.12
328 329 2.271497 CAGCTGAGCCCTCCCAAG 59.729 66.667 8.42 0.00 0.00 3.61
329 330 3.726144 AGCTGAGCCCTCCCAAGC 61.726 66.667 0.00 0.00 0.00 4.01
330 331 4.811364 GCTGAGCCCTCCCAAGCC 62.811 72.222 0.00 0.00 0.00 4.35
331 332 4.479993 CTGAGCCCTCCCAAGCCG 62.480 72.222 0.00 0.00 0.00 5.52
358 359 3.800863 GAGGCGACGCGAGAGTGA 61.801 66.667 15.93 0.00 46.66 3.41
359 360 3.324099 GAGGCGACGCGAGAGTGAA 62.324 63.158 15.93 0.00 46.66 3.18
360 361 2.202623 GGCGACGCGAGAGTGAAT 60.203 61.111 15.93 0.00 46.66 2.57
361 362 2.508891 GGCGACGCGAGAGTGAATG 61.509 63.158 15.93 0.00 46.66 2.67
362 363 2.990735 CGACGCGAGAGTGAATGC 59.009 61.111 15.93 0.00 46.66 3.56
368 369 1.413382 GCGAGAGTGAATGCGATAGG 58.587 55.000 0.00 0.00 0.00 2.57
369 370 1.932604 GCGAGAGTGAATGCGATAGGG 60.933 57.143 0.00 0.00 0.00 3.53
370 371 1.336332 CGAGAGTGAATGCGATAGGGG 60.336 57.143 0.00 0.00 0.00 4.79
371 372 1.964223 GAGAGTGAATGCGATAGGGGA 59.036 52.381 0.00 0.00 0.00 4.81
372 373 1.689273 AGAGTGAATGCGATAGGGGAC 59.311 52.381 0.00 0.00 0.00 4.46
373 374 0.389391 AGTGAATGCGATAGGGGACG 59.611 55.000 0.00 0.00 0.00 4.79
378 379 3.285215 GCGATAGGGGACGCGAGA 61.285 66.667 15.93 0.00 44.91 4.04
379 380 2.842256 GCGATAGGGGACGCGAGAA 61.842 63.158 15.93 0.00 44.91 2.87
380 381 1.283181 CGATAGGGGACGCGAGAAG 59.717 63.158 15.93 0.00 0.00 2.85
381 382 1.164662 CGATAGGGGACGCGAGAAGA 61.165 60.000 15.93 0.00 0.00 2.87
382 383 1.030457 GATAGGGGACGCGAGAAGAA 58.970 55.000 15.93 0.00 0.00 2.52
383 384 1.407979 GATAGGGGACGCGAGAAGAAA 59.592 52.381 15.93 0.00 0.00 2.52
384 385 0.529378 TAGGGGACGCGAGAAGAAAC 59.471 55.000 15.93 0.00 0.00 2.78
385 386 1.740664 GGGGACGCGAGAAGAAACC 60.741 63.158 15.93 2.27 0.00 3.27
386 387 1.005394 GGGACGCGAGAAGAAACCA 60.005 57.895 15.93 0.00 0.00 3.67
387 388 0.601841 GGGACGCGAGAAGAAACCAA 60.602 55.000 15.93 0.00 0.00 3.67
388 389 1.439679 GGACGCGAGAAGAAACCAAT 58.560 50.000 15.93 0.00 0.00 3.16
389 390 2.613691 GGACGCGAGAAGAAACCAATA 58.386 47.619 15.93 0.00 0.00 1.90
390 391 3.195661 GGACGCGAGAAGAAACCAATAT 58.804 45.455 15.93 0.00 0.00 1.28
391 392 3.245519 GGACGCGAGAAGAAACCAATATC 59.754 47.826 15.93 0.00 0.00 1.63
392 393 3.857052 ACGCGAGAAGAAACCAATATCA 58.143 40.909 15.93 0.00 0.00 2.15
393 394 3.617263 ACGCGAGAAGAAACCAATATCAC 59.383 43.478 15.93 0.00 0.00 3.06
394 395 3.865745 CGCGAGAAGAAACCAATATCACT 59.134 43.478 0.00 0.00 0.00 3.41
395 396 4.330074 CGCGAGAAGAAACCAATATCACTT 59.670 41.667 0.00 0.00 0.00 3.16
396 397 5.563842 GCGAGAAGAAACCAATATCACTTG 58.436 41.667 0.00 0.00 0.00 3.16
438 439 3.062234 GCGATTTTCTGGTTTAGGAGACG 59.938 47.826 0.00 0.00 0.00 4.18
445 446 0.100861 GGTTTAGGAGACGCCGAGAG 59.899 60.000 0.00 0.00 43.43 3.20
487 488 5.851703 GGTTAAGAGAGTTTGAATTTGTCGC 59.148 40.000 0.00 0.00 0.00 5.19
507 508 3.058016 CGCTGTTTGATGAAACCAGATGT 60.058 43.478 5.29 0.00 40.81 3.06
510 511 5.336213 GCTGTTTGATGAAACCAGATGTCAT 60.336 40.000 5.29 0.00 40.81 3.06
769 806 1.984297 GTAGTGCTCGGACGAAAACTC 59.016 52.381 10.91 0.00 0.00 3.01
868 905 2.359478 GCGTCCCCATCAACCGTT 60.359 61.111 0.00 0.00 0.00 4.44
912 949 1.521457 CCCATCACCGATCACCACG 60.521 63.158 0.00 0.00 0.00 4.94
938 975 3.810386 GTCGATTTTTCCTAGCCAGATCC 59.190 47.826 0.00 0.00 0.00 3.36
1313 2675 2.741092 GTTCGACCCTGCACTCCA 59.259 61.111 0.00 0.00 0.00 3.86
1509 2916 3.060615 CAGGAGCCAGCCAACAGC 61.061 66.667 0.00 0.00 44.25 4.40
1627 3034 2.676839 GGAGTGAACATCTACTCGTCGA 59.323 50.000 0.00 0.00 43.24 4.20
1712 3131 1.411246 TGTCTATGTCGGTGGTATGCC 59.589 52.381 0.00 0.00 0.00 4.40
2177 3618 4.159321 TCTGTTCTCAGAGTCATTAGCAGG 59.841 45.833 0.00 0.00 44.58 4.85
2203 3646 5.105351 GCTGATGGGCACTAATTTTACCTTT 60.105 40.000 0.00 0.00 0.00 3.11
2224 3669 0.751643 AACCACGCTTGTGCTTCCTT 60.752 50.000 0.00 0.00 42.46 3.36
2227 3672 1.961277 ACGCTTGTGCTTCCTTCGG 60.961 57.895 0.00 0.00 36.97 4.30
2306 3770 0.391661 ATGCTGGTGCTTACACTCCG 60.392 55.000 0.00 0.00 46.57 4.63
2587 4108 3.301906 CGTGCGATCTCTAGTTGACTTTG 59.698 47.826 0.00 0.00 0.00 2.77
2612 4133 4.451774 GCATTCTGTATTTTGGCAAAGCAA 59.548 37.500 13.04 0.00 0.00 3.91
2749 4276 9.917129 TTTATTTATATGTGTCGTACCATCGAT 57.083 29.630 0.00 0.00 41.78 3.59
2765 4292 4.083855 CCATCGATGATTTGGTACGATTGG 60.084 45.833 26.86 1.26 40.77 3.16
2769 4296 4.749598 CGATGATTTGGTACGATTGGATCA 59.250 41.667 0.00 0.00 0.00 2.92
2770 4297 5.333339 CGATGATTTGGTACGATTGGATCAC 60.333 44.000 0.00 0.00 0.00 3.06
2775 4302 2.503765 TGGTACGATTGGATCACCACAT 59.496 45.455 0.00 0.00 46.80 3.21
2861 4392 0.179089 CTCTGGTGCCTCAAGGATCG 60.179 60.000 0.00 0.00 37.39 3.69
2862 4393 1.817099 CTGGTGCCTCAAGGATCGC 60.817 63.158 0.00 0.00 37.39 4.58
2863 4394 2.268920 GGTGCCTCAAGGATCGCA 59.731 61.111 0.00 0.00 37.39 5.10
2881 4412 6.293462 GGATCGCAATAGTAAAGAATTGGTCC 60.293 42.308 0.00 0.00 34.37 4.46
2894 4425 4.018960 AGAATTGGTCCTGAAGCATACTGT 60.019 41.667 0.00 0.00 34.79 3.55
2896 4427 2.256306 TGGTCCTGAAGCATACTGTCA 58.744 47.619 0.00 0.00 0.00 3.58
2901 4432 2.871022 CCTGAAGCATACTGTCAGCATC 59.129 50.000 0.00 5.26 37.95 3.91
2907 4438 4.554292 AGCATACTGTCAGCATCGATAAG 58.446 43.478 0.00 0.00 0.00 1.73
2932 4463 3.512516 GCATGACCGGGCAGAAGC 61.513 66.667 18.96 16.79 41.10 3.86
2935 4466 1.452651 ATGACCGGGCAGAAGCATG 60.453 57.895 18.96 0.00 44.61 4.06
2967 4499 3.686726 GGATTCATCCAGATTGCGATACC 59.313 47.826 0.51 0.00 46.38 2.73
2969 4501 4.356405 TTCATCCAGATTGCGATACCAT 57.644 40.909 0.00 0.00 0.00 3.55
2970 4502 4.356405 TCATCCAGATTGCGATACCATT 57.644 40.909 0.00 0.00 0.00 3.16
2990 4522 7.174107 CCATTTTCCTGGTTTCATATGAACT 57.826 36.000 17.76 0.00 33.13 3.01
2992 4524 7.546667 CCATTTTCCTGGTTTCATATGAACTTG 59.453 37.037 17.76 8.41 33.13 3.16
2997 4529 7.629157 TCCTGGTTTCATATGAACTTGATACA 58.371 34.615 17.76 8.21 33.13 2.29
3017 4549 7.930513 ATACATTGGTATCATACGATATGCG 57.069 36.000 0.00 0.00 40.01 4.73
3032 4564 1.538047 ATGCGGCATCAGAAAGTTGT 58.462 45.000 10.23 0.00 0.00 3.32
3033 4565 1.317613 TGCGGCATCAGAAAGTTGTT 58.682 45.000 0.00 0.00 0.00 2.83
3057 4589 9.026074 GTTCGTATCCTTAATCTTGAGAAAGAG 57.974 37.037 0.00 0.00 31.48 2.85
3068 4600 7.024202 ATCTTGAGAAAGAGAACGCACAACG 62.024 44.000 0.00 0.00 39.00 4.10
3075 4607 0.655733 AGAACGCACAACGGTTTCTG 59.344 50.000 0.00 0.00 46.28 3.02
3078 4610 2.542907 CGCACAACGGTTTCTGCCT 61.543 57.895 12.44 0.00 38.44 4.75
3087 4619 2.039879 ACGGTTTCTGCCTTATGTTCCT 59.960 45.455 0.00 0.00 0.00 3.36
3111 4643 5.065704 TGTTCTCAGAGTCATTAGCAGAC 57.934 43.478 0.00 0.00 36.26 3.51
3145 4677 5.763204 CAGTAGCTTTACCTTCAAACCAAGA 59.237 40.000 0.00 0.00 0.00 3.02
3165 4697 2.206576 ATGTGCTTCCTCCCAAGAAC 57.793 50.000 0.00 0.00 32.95 3.01
3166 4698 0.110486 TGTGCTTCCTCCCAAGAACC 59.890 55.000 0.00 0.00 31.42 3.62
3177 4709 2.299297 TCCCAAGAACCGTCTCTTCTTC 59.701 50.000 0.00 0.00 36.09 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 4.263243 CCTGAAGGAAATATGCCCTAGAGG 60.263 50.000 0.00 0.00 37.39 3.69
68 69 4.594920 TCCTGAAGGAAATATGCCCTAGAG 59.405 45.833 0.00 0.00 42.18 2.43
69 70 4.566837 TCCTGAAGGAAATATGCCCTAGA 58.433 43.478 0.00 0.00 42.18 2.43
70 71 4.982241 TCCTGAAGGAAATATGCCCTAG 57.018 45.455 0.00 0.00 42.18 3.02
83 84 2.203126 GCGCCCAGATCCTGAAGG 60.203 66.667 0.00 0.00 32.44 3.46
84 85 2.203126 GGCGCCCAGATCCTGAAG 60.203 66.667 18.11 0.00 32.44 3.02
85 86 3.797353 GGGCGCCCAGATCCTGAA 61.797 66.667 40.73 0.00 32.44 3.02
155 156 4.838152 CTGATCCACGGGGTGCGG 62.838 72.222 2.12 0.00 34.93 5.69
156 157 4.838152 CCTGATCCACGGGGTGCG 62.838 72.222 2.12 0.00 41.14 5.34
157 158 3.399181 TCCTGATCCACGGGGTGC 61.399 66.667 2.12 0.00 44.73 5.01
158 159 2.584608 GTCCTGATCCACGGGGTG 59.415 66.667 2.12 0.00 44.73 4.61
159 160 3.075005 CGTCCTGATCCACGGGGT 61.075 66.667 2.12 0.00 44.73 4.95
160 161 4.530857 GCGTCCTGATCCACGGGG 62.531 72.222 0.00 0.00 44.73 5.73
161 162 4.530857 GGCGTCCTGATCCACGGG 62.531 72.222 10.04 0.00 45.93 5.28
162 163 3.461773 AGGCGTCCTGATCCACGG 61.462 66.667 10.04 0.00 36.50 4.94
188 189 4.916314 TCCCTCTCCCGGATCCGC 62.916 72.222 29.12 0.00 38.24 5.54
189 190 2.598985 CTCCCTCTCCCGGATCCG 60.599 72.222 27.65 27.65 39.44 4.18
190 191 2.203714 CCTCCCTCTCCCGGATCC 60.204 72.222 0.73 0.00 0.00 3.36
191 192 1.228737 CTCCTCCCTCTCCCGGATC 60.229 68.421 0.73 0.00 0.00 3.36
192 193 1.701757 TCTCCTCCCTCTCCCGGAT 60.702 63.158 0.73 0.00 0.00 4.18
193 194 2.286962 TCTCCTCCCTCTCCCGGA 60.287 66.667 0.73 0.00 0.00 5.14
194 195 2.197324 CTCTCCTCCCTCTCCCGG 59.803 72.222 0.00 0.00 0.00 5.73
195 196 1.152839 GTCTCTCCTCCCTCTCCCG 60.153 68.421 0.00 0.00 0.00 5.14
196 197 1.231928 GGTCTCTCCTCCCTCTCCC 59.768 68.421 0.00 0.00 0.00 4.30
197 198 1.231928 GGGTCTCTCCTCCCTCTCC 59.768 68.421 0.00 0.00 40.48 3.71
250 251 2.568090 CTGCAAATGGTCGGCACC 59.432 61.111 0.00 0.00 44.10 5.01
251 252 2.126346 GCTGCAAATGGTCGGCAC 60.126 61.111 0.00 0.00 34.83 5.01
252 253 3.736100 CGCTGCAAATGGTCGGCA 61.736 61.111 0.00 0.00 34.38 5.69
253 254 4.481112 CCGCTGCAAATGGTCGGC 62.481 66.667 0.00 0.00 33.36 5.54
254 255 4.481112 GCCGCTGCAAATGGTCGG 62.481 66.667 0.00 0.00 42.68 4.79
255 256 3.736100 TGCCGCTGCAAATGGTCG 61.736 61.111 0.00 0.00 46.66 4.79
266 267 4.722535 TTCTCCCCCTCTGCCGCT 62.723 66.667 0.00 0.00 0.00 5.52
267 268 4.168291 CTTCTCCCCCTCTGCCGC 62.168 72.222 0.00 0.00 0.00 6.53
268 269 3.474570 CCTTCTCCCCCTCTGCCG 61.475 72.222 0.00 0.00 0.00 5.69
269 270 3.093172 CCCTTCTCCCCCTCTGCC 61.093 72.222 0.00 0.00 0.00 4.85
270 271 3.803162 GCCCTTCTCCCCCTCTGC 61.803 72.222 0.00 0.00 0.00 4.26
271 272 3.474570 CGCCCTTCTCCCCCTCTG 61.475 72.222 0.00 0.00 0.00 3.35
277 278 4.168291 CTCCTGCGCCCTTCTCCC 62.168 72.222 4.18 0.00 0.00 4.30
278 279 4.168291 CCTCCTGCGCCCTTCTCC 62.168 72.222 4.18 0.00 0.00 3.71
279 280 4.168291 CCCTCCTGCGCCCTTCTC 62.168 72.222 4.18 0.00 0.00 2.87
281 282 2.666098 TAACCCTCCTGCGCCCTTC 61.666 63.158 4.18 0.00 0.00 3.46
282 283 2.609610 TAACCCTCCTGCGCCCTT 60.610 61.111 4.18 0.00 0.00 3.95
283 284 2.525284 TAGTAACCCTCCTGCGCCCT 62.525 60.000 4.18 0.00 0.00 5.19
284 285 2.029307 CTAGTAACCCTCCTGCGCCC 62.029 65.000 4.18 0.00 0.00 6.13
285 286 1.442148 CTAGTAACCCTCCTGCGCC 59.558 63.158 4.18 0.00 0.00 6.53
286 287 1.442148 CCTAGTAACCCTCCTGCGC 59.558 63.158 0.00 0.00 0.00 6.09
287 288 1.442148 GCCTAGTAACCCTCCTGCG 59.558 63.158 0.00 0.00 0.00 5.18
288 289 1.442148 CGCCTAGTAACCCTCCTGC 59.558 63.158 0.00 0.00 0.00 4.85
289 290 2.029307 GCCGCCTAGTAACCCTCCTG 62.029 65.000 0.00 0.00 0.00 3.86
290 291 1.761271 GCCGCCTAGTAACCCTCCT 60.761 63.158 0.00 0.00 0.00 3.69
291 292 2.820261 GCCGCCTAGTAACCCTCC 59.180 66.667 0.00 0.00 0.00 4.30
292 293 2.416260 CGCCGCCTAGTAACCCTC 59.584 66.667 0.00 0.00 0.00 4.30
293 294 3.152400 CCGCCGCCTAGTAACCCT 61.152 66.667 0.00 0.00 0.00 4.34
294 295 4.904900 GCCGCCGCCTAGTAACCC 62.905 72.222 0.00 0.00 0.00 4.11
295 296 4.151582 TGCCGCCGCCTAGTAACC 62.152 66.667 0.00 0.00 0.00 2.85
296 297 2.585247 CTGCCGCCGCCTAGTAAC 60.585 66.667 0.00 0.00 0.00 2.50
297 298 4.524318 GCTGCCGCCGCCTAGTAA 62.524 66.667 0.00 0.00 0.00 2.24
310 311 3.991725 CTTGGGAGGGCTCAGCTGC 62.992 68.421 9.47 0.00 0.00 5.25
311 312 2.271497 CTTGGGAGGGCTCAGCTG 59.729 66.667 7.63 7.63 0.00 4.24
312 313 3.726144 GCTTGGGAGGGCTCAGCT 61.726 66.667 0.00 0.00 0.00 4.24
313 314 4.811364 GGCTTGGGAGGGCTCAGC 62.811 72.222 0.00 0.00 0.00 4.26
314 315 4.479993 CGGCTTGGGAGGGCTCAG 62.480 72.222 0.00 0.00 0.00 3.35
340 341 4.838486 CACTCTCGCGTCGCCTCC 62.838 72.222 12.44 0.00 0.00 4.30
341 342 2.600122 ATTCACTCTCGCGTCGCCTC 62.600 60.000 12.44 0.00 0.00 4.70
342 343 2.701780 ATTCACTCTCGCGTCGCCT 61.702 57.895 12.44 0.00 0.00 5.52
343 344 2.202623 ATTCACTCTCGCGTCGCC 60.203 61.111 12.44 0.00 0.00 5.54
344 345 2.990735 CATTCACTCTCGCGTCGC 59.009 61.111 7.29 7.29 0.00 5.19
345 346 2.839438 CGCATTCACTCTCGCGTCG 61.839 63.158 5.77 0.00 42.66 5.12
346 347 2.990735 CGCATTCACTCTCGCGTC 59.009 61.111 5.77 0.00 42.66 5.19
349 350 1.413382 CCTATCGCATTCACTCTCGC 58.587 55.000 0.00 0.00 0.00 5.03
350 351 1.336332 CCCCTATCGCATTCACTCTCG 60.336 57.143 0.00 0.00 0.00 4.04
351 352 1.964223 TCCCCTATCGCATTCACTCTC 59.036 52.381 0.00 0.00 0.00 3.20
352 353 1.689273 GTCCCCTATCGCATTCACTCT 59.311 52.381 0.00 0.00 0.00 3.24
353 354 1.603172 CGTCCCCTATCGCATTCACTC 60.603 57.143 0.00 0.00 0.00 3.51
354 355 0.389391 CGTCCCCTATCGCATTCACT 59.611 55.000 0.00 0.00 0.00 3.41
355 356 2.900528 CGTCCCCTATCGCATTCAC 58.099 57.895 0.00 0.00 0.00 3.18
362 363 1.164662 TCTTCTCGCGTCCCCTATCG 61.165 60.000 5.77 0.00 0.00 2.92
363 364 1.030457 TTCTTCTCGCGTCCCCTATC 58.970 55.000 5.77 0.00 0.00 2.08
364 365 1.136500 GTTTCTTCTCGCGTCCCCTAT 59.864 52.381 5.77 0.00 0.00 2.57
365 366 0.529378 GTTTCTTCTCGCGTCCCCTA 59.471 55.000 5.77 0.00 0.00 3.53
366 367 1.292541 GTTTCTTCTCGCGTCCCCT 59.707 57.895 5.77 0.00 0.00 4.79
367 368 1.740664 GGTTTCTTCTCGCGTCCCC 60.741 63.158 5.77 0.00 0.00 4.81
368 369 0.601841 TTGGTTTCTTCTCGCGTCCC 60.602 55.000 5.77 0.00 0.00 4.46
369 370 1.439679 ATTGGTTTCTTCTCGCGTCC 58.560 50.000 5.77 0.00 0.00 4.79
370 371 3.863424 TGATATTGGTTTCTTCTCGCGTC 59.137 43.478 5.77 0.00 0.00 5.19
371 372 3.617263 GTGATATTGGTTTCTTCTCGCGT 59.383 43.478 5.77 0.00 0.00 6.01
372 373 3.865745 AGTGATATTGGTTTCTTCTCGCG 59.134 43.478 0.00 0.00 0.00 5.87
373 374 5.351465 TCAAGTGATATTGGTTTCTTCTCGC 59.649 40.000 0.00 0.00 0.00 5.03
374 375 6.968131 TCAAGTGATATTGGTTTCTTCTCG 57.032 37.500 0.00 0.00 0.00 4.04
376 377 9.965902 ACTTATCAAGTGATATTGGTTTCTTCT 57.034 29.630 1.93 0.00 41.01 2.85
379 380 9.965902 AGAACTTATCAAGTGATATTGGTTTCT 57.034 29.630 1.93 4.16 41.91 2.52
387 388 9.331282 GCCACTAAAGAACTTATCAAGTGATAT 57.669 33.333 1.93 0.00 41.91 1.63
388 389 7.491372 CGCCACTAAAGAACTTATCAAGTGATA 59.509 37.037 14.70 0.00 41.91 2.15
389 390 6.313905 CGCCACTAAAGAACTTATCAAGTGAT 59.686 38.462 14.70 0.00 41.91 3.06
390 391 5.637810 CGCCACTAAAGAACTTATCAAGTGA 59.362 40.000 14.70 0.00 41.91 3.41
391 392 5.637810 TCGCCACTAAAGAACTTATCAAGTG 59.362 40.000 0.00 0.00 41.91 3.16
392 393 5.790593 TCGCCACTAAAGAACTTATCAAGT 58.209 37.500 0.00 0.00 45.46 3.16
393 394 5.220491 GCTCGCCACTAAAGAACTTATCAAG 60.220 44.000 0.00 0.00 0.00 3.02
394 395 4.630069 GCTCGCCACTAAAGAACTTATCAA 59.370 41.667 0.00 0.00 0.00 2.57
395 396 4.181578 GCTCGCCACTAAAGAACTTATCA 58.818 43.478 0.00 0.00 0.00 2.15
396 397 3.243177 CGCTCGCCACTAAAGAACTTATC 59.757 47.826 0.00 0.00 0.00 1.75
408 409 1.021390 CCAGAAAATCGCTCGCCACT 61.021 55.000 0.00 0.00 0.00 4.00
438 439 1.870016 CTTTCTCGACGCTCTCGGC 60.870 63.158 0.00 0.00 43.16 5.54
464 465 6.575201 CAGCGACAAATTCAAACTCTCTTAAC 59.425 38.462 0.00 0.00 0.00 2.01
465 466 6.260050 ACAGCGACAAATTCAAACTCTCTTAA 59.740 34.615 0.00 0.00 0.00 1.85
466 467 5.758296 ACAGCGACAAATTCAAACTCTCTTA 59.242 36.000 0.00 0.00 0.00 2.10
468 469 4.130118 ACAGCGACAAATTCAAACTCTCT 58.870 39.130 0.00 0.00 0.00 3.10
476 477 4.827304 TCATCAAACAGCGACAAATTCA 57.173 36.364 0.00 0.00 0.00 2.57
487 488 5.694231 TGACATCTGGTTTCATCAAACAG 57.306 39.130 0.00 0.00 43.41 3.16
507 508 5.950758 AAAATACGTGTTAAGCACCATGA 57.049 34.783 0.00 0.00 44.97 3.07
510 511 5.752892 TCAAAAATACGTGTTAAGCACCA 57.247 34.783 0.00 0.00 44.97 4.17
850 887 3.912745 AACGGTTGATGGGGACGCC 62.913 63.158 0.53 0.53 0.00 5.68
912 949 0.656259 GCTAGGAAAAATCGACCCGC 59.344 55.000 0.00 0.00 0.00 6.13
938 975 5.618236 TGCAGATGGAGAGAGGAAATTATG 58.382 41.667 0.00 0.00 0.00 1.90
1308 2670 0.689745 TAGGGCGCAGGTAATGGAGT 60.690 55.000 10.83 0.00 0.00 3.85
1313 2675 1.408266 CCTTGTTAGGGCGCAGGTAAT 60.408 52.381 10.83 0.00 37.94 1.89
1415 2786 2.083774 CAAAATGGCAAGCGTCCTCTA 58.916 47.619 0.00 0.00 0.00 2.43
1509 2916 0.463116 GGCCTGTGGTATGGTTACGG 60.463 60.000 0.00 0.00 0.00 4.02
1627 3034 2.204059 ACTCCAAGCTCCTGCCCT 60.204 61.111 0.00 0.00 40.80 5.19
1712 3131 4.211374 GCTTCAGGTTGCCTATAACGTATG 59.789 45.833 0.00 0.00 29.64 2.39
1719 3138 3.199727 TGATGTGCTTCAGGTTGCCTATA 59.800 43.478 0.00 0.00 29.64 1.31
2190 3631 6.009115 AGCGTGGTTCAAAGGTAAAATTAG 57.991 37.500 0.00 0.00 0.00 1.73
2224 3669 2.483013 CGACAGAATAGCCAATTCCCGA 60.483 50.000 5.91 0.00 44.44 5.14
2227 3672 1.604278 GCCGACAGAATAGCCAATTCC 59.396 52.381 5.91 0.00 44.44 3.01
2237 3682 4.579869 ACAAGTAATTCAGCCGACAGAAT 58.420 39.130 0.00 0.00 33.81 2.40
2306 3770 2.297033 TGAACTGGAAATCAAGCAAGCC 59.703 45.455 0.00 0.00 0.00 4.35
2512 4019 7.246171 ACACTAGAAGGTTGACAATATGACT 57.754 36.000 0.00 0.00 0.00 3.41
2513 4020 8.251721 AGTACACTAGAAGGTTGACAATATGAC 58.748 37.037 0.00 0.00 0.00 3.06
2514 4021 8.362464 AGTACACTAGAAGGTTGACAATATGA 57.638 34.615 0.00 0.00 0.00 2.15
2587 4108 4.143052 GCTTTGCCAAAATACAGAATGCAC 60.143 41.667 0.00 0.00 42.53 4.57
2612 4133 6.699575 AATAAAGAATCTGCGCAAAGGTAT 57.300 33.333 13.05 0.21 0.00 2.73
2621 4142 6.144402 ACAGCAAACAAAATAAAGAATCTGCG 59.856 34.615 0.00 0.00 0.00 5.18
2625 4146 6.424812 AGCCACAGCAAACAAAATAAAGAATC 59.575 34.615 0.00 0.00 43.56 2.52
2675 4202 8.789825 TTGCCAAAATACAGAATGCATAATTT 57.210 26.923 0.00 0.00 42.53 1.82
2732 4259 4.322080 AATCATCGATGGTACGACACAT 57.678 40.909 24.61 5.16 44.84 3.21
2733 4260 3.793797 AATCATCGATGGTACGACACA 57.206 42.857 24.61 2.80 44.84 3.72
2737 4264 3.812156 ACCAAATCATCGATGGTACGA 57.188 42.857 24.61 5.87 45.37 3.43
2743 4270 4.749598 TCCAATCGTACCAAATCATCGATG 59.250 41.667 19.61 19.61 40.32 3.84
2744 4271 4.956085 TCCAATCGTACCAAATCATCGAT 58.044 39.130 0.00 0.00 41.82 3.59
2749 4276 4.196193 GGTGATCCAATCGTACCAAATCA 58.804 43.478 0.00 0.00 0.00 2.57
2770 4297 2.779755 TAGTGTAAGCACCCATGTGG 57.220 50.000 0.00 0.00 46.35 4.17
2775 4302 4.262463 GCTATAGCATAGTGTAAGCACCCA 60.262 45.833 20.01 0.00 42.73 4.51
2854 4385 6.828785 ACCAATTCTTTACTATTGCGATCCTT 59.171 34.615 0.00 0.00 31.85 3.36
2861 4392 7.391148 TTCAGGACCAATTCTTTACTATTGC 57.609 36.000 0.00 0.00 31.85 3.56
2862 4393 7.121168 TGCTTCAGGACCAATTCTTTACTATTG 59.879 37.037 0.00 0.00 0.00 1.90
2863 4394 7.175104 TGCTTCAGGACCAATTCTTTACTATT 58.825 34.615 0.00 0.00 0.00 1.73
2881 4412 2.538861 CGATGCTGACAGTATGCTTCAG 59.461 50.000 11.07 14.26 42.53 3.02
2894 4425 4.240888 GCTCATAAGCTTATCGATGCTGA 58.759 43.478 16.21 9.40 45.55 4.26
2920 4451 2.270205 CTCATGCTTCTGCCCGGT 59.730 61.111 0.00 0.00 38.71 5.28
2932 4463 2.512692 TGAATCCCAACCACCTCATG 57.487 50.000 0.00 0.00 0.00 3.07
2935 4466 1.284785 TGGATGAATCCCAACCACCTC 59.715 52.381 6.87 0.00 46.59 3.85
2956 4488 4.228912 CCAGGAAAATGGTATCGCAATC 57.771 45.455 0.00 0.00 35.47 2.67
2967 4499 8.306038 TCAAGTTCATATGAAACCAGGAAAATG 58.694 33.333 19.55 7.11 35.58 2.32
2969 4501 7.831691 TCAAGTTCATATGAAACCAGGAAAA 57.168 32.000 19.55 0.00 35.58 2.29
2970 4502 8.956426 GTATCAAGTTCATATGAAACCAGGAAA 58.044 33.333 19.55 1.71 35.58 3.13
2992 4524 7.114953 CCGCATATCGTATGATACCAATGTATC 59.885 40.741 6.80 5.90 43.60 2.24
2997 4529 4.119862 GCCGCATATCGTATGATACCAAT 58.880 43.478 6.80 0.00 39.81 3.16
3009 4541 2.138320 ACTTTCTGATGCCGCATATCG 58.862 47.619 5.67 0.00 38.08 2.92
3012 4544 2.710377 ACAACTTTCTGATGCCGCATA 58.290 42.857 5.67 0.00 0.00 3.14
3017 4549 4.201822 GGATACGAACAACTTTCTGATGCC 60.202 45.833 0.00 0.00 0.00 4.40
3032 4564 8.967918 TCTCTTTCTCAAGATTAAGGATACGAA 58.032 33.333 0.00 0.00 38.42 3.85
3033 4565 8.521170 TCTCTTTCTCAAGATTAAGGATACGA 57.479 34.615 0.00 0.00 38.42 3.43
3057 4589 0.928451 GCAGAAACCGTTGTGCGTTC 60.928 55.000 3.71 0.00 43.28 3.95
3068 4600 3.691609 CAGAGGAACATAAGGCAGAAACC 59.308 47.826 0.00 0.00 0.00 3.27
3069 4601 4.327680 ACAGAGGAACATAAGGCAGAAAC 58.672 43.478 0.00 0.00 0.00 2.78
3075 4607 4.081420 TCTGAGAACAGAGGAACATAAGGC 60.081 45.833 0.00 0.00 46.55 4.35
3111 4643 0.745845 AAAGCTACTGCCCATCTGCG 60.746 55.000 0.00 0.00 40.80 5.18
3145 4677 2.519013 GTTCTTGGGAGGAAGCACATT 58.481 47.619 0.00 0.00 0.00 2.71
3166 4698 0.243907 TTCAGCCGGAAGAAGAGACG 59.756 55.000 5.05 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.