Multiple sequence alignment - TraesCS7B01G421900

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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 TraesCS7B01G421900 chr7B 100.000 3104 0 0 1 3104 690903455 690906558 0.000000e+00 5733
1 TraesCS7B01G421900 chr7B 83.333 336 53 3 952 1286 691027841 691028174 1.080000e-79 307
2 TraesCS7B01G421900 chr7D 94.139 2252 100 11 689 2932 606657132 606659359 0.000000e+00 3398
3 TraesCS7B01G421900 chr7D 87.382 1585 135 28 958 2487 606684174 606685748 0.000000e+00 1759
4 TraesCS7B01G421900 chr7D 92.727 165 12 0 797 961 606656407 606656571 4.000000e-59 239
5 TraesCS7B01G421900 chr7D 79.394 330 44 6 2792 3104 606685899 606686221 8.720000e-51 211
6 TraesCS7B01G421900 chr7D 79.621 211 42 1 1035 1244 607103318 607103528 1.930000e-32 150
7 TraesCS7B01G421900 chr7D 93.827 81 3 1 3024 3104 606659502 606659580 1.510000e-23 121
8 TraesCS7B01G421900 chr7A 92.977 1367 76 3 824 2179 698729282 698730639 0.000000e+00 1975
9 TraesCS7B01G421900 chr7A 85.553 1419 152 19 1112 2487 698744470 698745878 0.000000e+00 1435
10 TraesCS7B01G421900 chr7A 85.419 967 97 17 1555 2487 698822534 698823490 0.000000e+00 965
11 TraesCS7B01G421900 chr7A 84.858 984 105 18 1555 2505 698954837 698955809 0.000000e+00 952
12 TraesCS7B01G421900 chr7A 88.071 788 55 16 2211 2988 698731062 698731820 0.000000e+00 898
13 TraesCS7B01G421900 chr7A 82.263 327 53 3 952 1277 699025099 699025421 8.480000e-71 278
14 TraesCS7B01G421900 chr7A 79.091 330 45 6 2792 3104 698823641 698823963 4.060000e-49 206
15 TraesCS7B01G421900 chr7A 79.091 330 45 7 2792 3104 698955945 698956267 4.060000e-49 206
16 TraesCS7B01G421900 chr7A 80.657 274 35 4 2848 3104 698747127 698747399 2.440000e-46 196
17 TraesCS7B01G421900 chr7A 97.101 69 2 0 3024 3092 698731824 698731892 1.960000e-22 117
18 TraesCS7B01G421900 chr3A 78.376 1170 229 18 1020 2179 562914369 562915524 0.000000e+00 737
19 TraesCS7B01G421900 chr3A 91.898 469 34 4 223 688 334784488 334784955 0.000000e+00 652
20 TraesCS7B01G421900 chr3A 92.208 462 32 4 230 688 219342474 219342934 0.000000e+00 651
21 TraesCS7B01G421900 chr3A 80.744 753 142 2 1430 2179 563394954 563395706 4.460000e-163 584
22 TraesCS7B01G421900 chr3D 78.320 1167 226 22 1020 2177 425152249 425151101 0.000000e+00 728
23 TraesCS7B01G421900 chr3B 78.408 1093 216 16 1041 2129 555244949 555243873 0.000000e+00 693
24 TraesCS7B01G421900 chr3B 77.549 1167 234 20 1020 2179 555156079 555154934 0.000000e+00 678
25 TraesCS7B01G421900 chr4A 92.208 462 32 4 230 688 403172219 403171759 0.000000e+00 651
26 TraesCS7B01G421900 chr4A 91.757 461 34 4 231 688 304782563 304782104 3.380000e-179 638
27 TraesCS7B01G421900 chr2B 92.191 461 32 4 231 688 702728457 702727998 0.000000e+00 649
28 TraesCS7B01G421900 chr2B 78.829 222 47 0 1048 1269 762957752 762957531 1.930000e-32 150
29 TraesCS7B01G421900 chr2B 78.636 220 47 0 1048 1267 763449606 763449387 2.490000e-31 147
30 TraesCS7B01G421900 chr5B 91.974 461 33 3 230 688 61558514 61558972 0.000000e+00 643
31 TraesCS7B01G421900 chr6A 91.757 461 32 5 231 688 580322222 580321765 1.210000e-178 636
32 TraesCS7B01G421900 chr6A 92.515 334 25 0 2529 2862 130945002 130944669 2.170000e-131 479
33 TraesCS7B01G421900 chr6A 92.515 334 25 0 2529 2862 189413022 189412689 2.170000e-131 479
34 TraesCS7B01G421900 chr6A 89.286 168 15 3 2258 2422 189413184 189413017 1.130000e-49 207
35 TraesCS7B01G421900 chr6A 88.690 168 16 3 2258 2422 130945164 130944997 5.250000e-48 202
36 TraesCS7B01G421900 chr1B 91.757 461 30 6 231 688 20692580 20693035 4.370000e-178 634
37 TraesCS7B01G421900 chr1B 91.721 459 34 4 231 687 108867098 108867554 4.370000e-178 634
38 TraesCS7B01G421900 chr4B 93.548 372 22 1 2491 2862 243640257 243640626 1.260000e-153 553
39 TraesCS7B01G421900 chr4B 97.110 173 4 1 2258 2429 243640087 243640259 1.090000e-74 291
40 TraesCS7B01G421900 chr2A 91.617 334 28 0 2529 2862 554435795 554435462 2.180000e-126 462
41 TraesCS7B01G421900 chr1A 91.562 320 25 2 2523 2841 522898927 522899245 1.020000e-119 440
42 TraesCS7B01G421900 chr6B 90.208 337 32 1 2491 2826 322068437 322068773 3.670000e-119 438
43 TraesCS7B01G421900 chr6B 93.064 173 11 1 2258 2429 322068267 322068439 5.140000e-63 252
44 TraesCS7B01G421900 chrUn 82.044 362 59 3 952 1308 92703031 92702671 1.400000e-78 303


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 TraesCS7B01G421900 chr7B 690903455 690906558 3103 False 5733.000000 5733 100.000000 1 3104 1 chr7B.!!$F1 3103
1 TraesCS7B01G421900 chr7D 606656407 606659580 3173 False 1252.666667 3398 93.564333 689 3104 3 chr7D.!!$F2 2415
2 TraesCS7B01G421900 chr7D 606684174 606686221 2047 False 985.000000 1759 83.388000 958 3104 2 chr7D.!!$F3 2146
3 TraesCS7B01G421900 chr7A 698729282 698731892 2610 False 996.666667 1975 92.716333 824 3092 3 chr7A.!!$F2 2268
4 TraesCS7B01G421900 chr7A 698744470 698747399 2929 False 815.500000 1435 83.105000 1112 3104 2 chr7A.!!$F3 1992
5 TraesCS7B01G421900 chr7A 698822534 698823963 1429 False 585.500000 965 82.255000 1555 3104 2 chr7A.!!$F4 1549
6 TraesCS7B01G421900 chr7A 698954837 698956267 1430 False 579.000000 952 81.974500 1555 3104 2 chr7A.!!$F5 1549
7 TraesCS7B01G421900 chr3A 562914369 562915524 1155 False 737.000000 737 78.376000 1020 2179 1 chr3A.!!$F3 1159
8 TraesCS7B01G421900 chr3A 563394954 563395706 752 False 584.000000 584 80.744000 1430 2179 1 chr3A.!!$F4 749
9 TraesCS7B01G421900 chr3D 425151101 425152249 1148 True 728.000000 728 78.320000 1020 2177 1 chr3D.!!$R1 1157
10 TraesCS7B01G421900 chr3B 555243873 555244949 1076 True 693.000000 693 78.408000 1041 2129 1 chr3B.!!$R2 1088
11 TraesCS7B01G421900 chr3B 555154934 555156079 1145 True 678.000000 678 77.549000 1020 2179 1 chr3B.!!$R1 1159
12 TraesCS7B01G421900 chr4B 243640087 243640626 539 False 422.000000 553 95.329000 2258 2862 2 chr4B.!!$F1 604
13 TraesCS7B01G421900 chr6B 322068267 322068773 506 False 345.000000 438 91.636000 2258 2826 2 chr6B.!!$F1 568

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
455 456 0.031994 CTGTTGGGCTGGTTTTTCGG 59.968 55.0 0.0 0.0 0.00 4.30 F
817 860 0.640768 CATCTCGCCGTTTCTCGAAC 59.359 55.0 0.0 0.0 42.86 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1500 1570 0.110238 CCACAACATTCGTCTTGGCG 60.110 55.000 0.0 0.0 0.0 5.69 R
2768 3271 3.994392 TCCACAGCTTATCAAGTCGAAAC 59.006 43.478 0.0 0.0 0.0 2.78 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
25 26 8.791327 AACAGTTTTTCAAATTTGATGAACCT 57.209 26.923 26.86 18.48 36.57 3.50
26 27 8.791327 ACAGTTTTTCAAATTTGATGAACCTT 57.209 26.923 26.86 18.42 36.57 3.50
27 28 9.230122 ACAGTTTTTCAAATTTGATGAACCTTT 57.770 25.926 26.86 16.88 36.57 3.11
64 65 7.712264 TGAAAGTTTTTCAAATTCGATGCAT 57.288 28.000 0.00 0.00 0.00 3.96
65 66 8.140677 TGAAAGTTTTTCAAATTCGATGCATT 57.859 26.923 0.00 0.00 0.00 3.56
66 67 8.610896 TGAAAGTTTTTCAAATTCGATGCATTT 58.389 25.926 0.00 0.00 0.00 2.32
67 68 9.437045 GAAAGTTTTTCAAATTCGATGCATTTT 57.563 25.926 0.00 0.00 0.00 1.82
68 69 9.786105 AAAGTTTTTCAAATTCGATGCATTTTT 57.214 22.222 0.00 0.00 0.00 1.94
89 90 7.701809 TTTTTCAAATTCGCCGAACTATTTT 57.298 28.000 0.00 0.00 0.00 1.82
90 91 6.921332 TTTCAAATTCGCCGAACTATTTTC 57.079 33.333 0.00 0.00 0.00 2.29
91 92 5.614923 TCAAATTCGCCGAACTATTTTCA 57.385 34.783 0.00 0.00 0.00 2.69
92 93 6.003234 TCAAATTCGCCGAACTATTTTCAA 57.997 33.333 0.00 0.00 0.00 2.69
94 95 7.087639 TCAAATTCGCCGAACTATTTTCAAAT 58.912 30.769 0.00 0.00 0.00 2.32
95 96 7.596995 TCAAATTCGCCGAACTATTTTCAAATT 59.403 29.630 0.00 0.00 0.00 1.82
96 97 7.506296 AATTCGCCGAACTATTTTCAAATTC 57.494 32.000 0.00 0.00 0.00 2.17
97 98 5.614923 TCGCCGAACTATTTTCAAATTCA 57.385 34.783 0.00 0.00 0.00 2.57
98 99 6.003234 TCGCCGAACTATTTTCAAATTCAA 57.997 33.333 0.00 0.00 0.00 2.69
99 100 6.616947 TCGCCGAACTATTTTCAAATTCAAT 58.383 32.000 0.00 0.00 0.00 2.57
100 101 6.526325 TCGCCGAACTATTTTCAAATTCAATG 59.474 34.615 0.00 0.00 0.00 2.82
102 103 7.148820 CGCCGAACTATTTTCAAATTCAATGTT 60.149 33.333 0.00 0.00 0.00 2.71
144 145 8.911247 TGAACTTTTCTTTTAAGAACAAGAGC 57.089 30.769 20.90 15.69 44.18 4.09
145 146 8.519526 TGAACTTTTCTTTTAAGAACAAGAGCA 58.480 29.630 20.90 16.96 44.18 4.26
146 147 8.689251 AACTTTTCTTTTAAGAACAAGAGCAC 57.311 30.769 20.90 0.00 44.18 4.40
147 148 7.826690 ACTTTTCTTTTAAGAACAAGAGCACA 58.173 30.769 20.90 1.27 44.18 4.57
148 149 8.470002 ACTTTTCTTTTAAGAACAAGAGCACAT 58.530 29.630 20.90 6.83 44.18 3.21
149 150 9.950680 CTTTTCTTTTAAGAACAAGAGCACATA 57.049 29.630 4.48 0.00 44.18 2.29
151 152 8.677148 TTCTTTTAAGAACAAGAGCACATACT 57.323 30.769 0.89 0.00 39.95 2.12
152 153 9.772973 TTCTTTTAAGAACAAGAGCACATACTA 57.227 29.630 0.89 0.00 39.95 1.82
153 154 9.944376 TCTTTTAAGAACAAGAGCACATACTAT 57.056 29.630 0.00 0.00 30.73 2.12
157 158 6.471233 AGAACAAGAGCACATACTATAGCA 57.529 37.500 0.00 0.00 0.00 3.49
158 159 6.878317 AGAACAAGAGCACATACTATAGCAA 58.122 36.000 0.00 0.00 0.00 3.91
160 161 5.360591 ACAAGAGCACATACTATAGCAACC 58.639 41.667 0.00 0.00 0.00 3.77
161 162 4.244425 AGAGCACATACTATAGCAACCG 57.756 45.455 0.00 0.00 0.00 4.44
162 163 3.005897 AGAGCACATACTATAGCAACCGG 59.994 47.826 0.00 0.00 0.00 5.28
163 164 2.698797 AGCACATACTATAGCAACCGGT 59.301 45.455 0.00 0.00 0.00 5.28
164 165 3.134081 AGCACATACTATAGCAACCGGTT 59.866 43.478 15.86 15.86 0.00 4.44
165 166 3.875134 GCACATACTATAGCAACCGGTTT 59.125 43.478 19.55 6.97 0.00 3.27
166 167 4.334481 GCACATACTATAGCAACCGGTTTT 59.666 41.667 19.55 11.81 0.00 2.43
195 196 9.817809 CTAAGAAAAACAGTCCATACTATAGCA 57.182 33.333 0.00 0.00 33.48 3.49
197 198 9.686683 AAGAAAAACAGTCCATACTATAGCATT 57.313 29.630 0.00 0.00 33.48 3.56
233 234 2.859165 AAAAAGTGATCGAGGGCAGA 57.141 45.000 0.00 0.00 0.00 4.26
234 235 2.100605 AAAAGTGATCGAGGGCAGAC 57.899 50.000 0.00 0.00 0.00 3.51
235 236 0.250513 AAAGTGATCGAGGGCAGACC 59.749 55.000 0.00 0.00 40.67 3.85
246 247 3.890674 GCAGACCTAGCCAAACGG 58.109 61.111 0.00 0.00 0.00 4.44
248 249 1.019805 GCAGACCTAGCCAAACGGAC 61.020 60.000 0.00 0.00 0.00 4.79
249 250 0.391263 CAGACCTAGCCAAACGGACC 60.391 60.000 0.00 0.00 0.00 4.46
250 251 0.834687 AGACCTAGCCAAACGGACCA 60.835 55.000 0.00 0.00 0.00 4.02
251 252 0.391263 GACCTAGCCAAACGGACCAG 60.391 60.000 0.00 0.00 0.00 4.00
252 253 1.745489 CCTAGCCAAACGGACCAGC 60.745 63.158 0.00 0.00 0.00 4.85
253 254 1.745489 CTAGCCAAACGGACCAGCC 60.745 63.158 0.00 0.00 0.00 4.85
254 255 3.262448 TAGCCAAACGGACCAGCCC 62.262 63.158 0.00 0.00 0.00 5.19
262 263 4.736896 GGACCAGCCCGACACGAC 62.737 72.222 0.00 0.00 0.00 4.34
263 264 3.986006 GACCAGCCCGACACGACA 61.986 66.667 0.00 0.00 0.00 4.35
264 265 4.295119 ACCAGCCCGACACGACAC 62.295 66.667 0.00 0.00 0.00 3.67
267 268 4.338539 AGCCCGACACGACACGAC 62.339 66.667 0.00 0.00 0.00 4.34
269 270 4.712425 CCCGACACGACACGACCC 62.712 72.222 0.00 0.00 0.00 4.46
271 272 4.016629 CGACACGACACGACCCGA 62.017 66.667 0.00 0.00 0.00 5.14
272 273 2.428071 GACACGACACGACCCGAC 60.428 66.667 0.00 0.00 0.00 4.79
273 274 3.185082 GACACGACACGACCCGACA 62.185 63.158 0.00 0.00 0.00 4.35
275 276 2.086426 CACGACACGACCCGACATG 61.086 63.158 0.00 0.00 0.00 3.21
276 277 2.257371 CGACACGACCCGACATGT 59.743 61.111 0.00 0.00 0.00 3.21
277 278 2.086426 CGACACGACCCGACATGTG 61.086 63.158 1.15 0.00 38.28 3.21
279 280 2.048222 CACGACCCGACATGTGCT 60.048 61.111 1.15 0.00 0.00 4.40
280 281 1.214325 CACGACCCGACATGTGCTA 59.786 57.895 1.15 0.00 0.00 3.49
281 282 0.389296 CACGACCCGACATGTGCTAA 60.389 55.000 1.15 0.00 0.00 3.09
283 284 1.209128 CGACCCGACATGTGCTAATC 58.791 55.000 1.15 0.00 0.00 1.75
284 285 1.209128 GACCCGACATGTGCTAATCG 58.791 55.000 1.15 0.00 0.00 3.34
285 286 0.535335 ACCCGACATGTGCTAATCGT 59.465 50.000 1.15 0.00 32.70 3.73
286 287 0.930310 CCCGACATGTGCTAATCGTG 59.070 55.000 1.15 0.00 32.70 4.35
287 288 0.301687 CCGACATGTGCTAATCGTGC 59.698 55.000 1.15 0.00 32.70 5.34
288 289 0.301687 CGACATGTGCTAATCGTGCC 59.698 55.000 1.15 0.00 0.00 5.01
290 291 1.328680 GACATGTGCTAATCGTGCCTG 59.671 52.381 1.15 0.00 0.00 4.85
291 292 0.659427 CATGTGCTAATCGTGCCTGG 59.341 55.000 0.00 0.00 0.00 4.45
292 293 1.097547 ATGTGCTAATCGTGCCTGGC 61.098 55.000 12.87 12.87 0.00 4.85
293 294 2.124736 TGCTAATCGTGCCTGGCC 60.125 61.111 17.53 6.66 0.00 5.36
294 295 2.902343 GCTAATCGTGCCTGGCCC 60.902 66.667 17.53 2.94 0.00 5.80
295 296 2.588877 CTAATCGTGCCTGGCCCG 60.589 66.667 17.67 17.67 0.00 6.13
296 297 4.169696 TAATCGTGCCTGGCCCGG 62.170 66.667 22.84 9.24 0.00 5.73
323 324 3.781079 TGCTGTGGCATGTTTAATAGC 57.219 42.857 0.00 0.00 44.28 2.97
328 329 0.313987 GGCATGTTTAATAGCCGGGC 59.686 55.000 12.11 12.11 37.41 6.13
329 330 0.313987 GCATGTTTAATAGCCGGGCC 59.686 55.000 17.02 0.00 0.00 5.80
331 332 0.181824 ATGTTTAATAGCCGGGCCGT 59.818 50.000 26.32 10.07 0.00 5.68
332 333 0.745128 TGTTTAATAGCCGGGCCGTG 60.745 55.000 26.32 17.25 0.00 4.94
333 334 1.820481 TTTAATAGCCGGGCCGTGC 60.820 57.895 26.32 25.86 0.00 5.34
361 362 3.052082 CACGGGCACTGCTCCTTG 61.052 66.667 0.00 1.30 39.14 3.61
366 367 4.666253 GCACTGCTCCTTGGCCCA 62.666 66.667 0.00 0.00 0.00 5.36
367 368 2.360852 CACTGCTCCTTGGCCCAG 60.361 66.667 0.00 0.00 0.00 4.45
368 369 3.655211 ACTGCTCCTTGGCCCAGG 61.655 66.667 17.10 17.10 34.86 4.45
388 389 2.601763 GGCACGACCTGATTAGTAAACG 59.398 50.000 0.00 0.00 34.51 3.60
389 390 2.601763 GCACGACCTGATTAGTAAACGG 59.398 50.000 0.00 0.00 0.00 4.44
391 392 2.199236 CGACCTGATTAGTAAACGGGC 58.801 52.381 15.99 9.25 33.80 6.13
392 393 2.558378 GACCTGATTAGTAAACGGGCC 58.442 52.381 15.99 3.54 33.80 5.80
393 394 1.134610 ACCTGATTAGTAAACGGGCCG 60.135 52.381 27.06 27.06 33.80 6.13
395 396 0.462403 TGATTAGTAAACGGGCCGGC 60.462 55.000 31.78 21.18 0.00 6.13
396 397 1.153107 ATTAGTAAACGGGCCGGCC 60.153 57.895 38.57 38.57 0.00 6.13
397 398 1.912826 ATTAGTAAACGGGCCGGCCA 61.913 55.000 44.46 23.73 37.98 5.36
398 399 2.524951 TTAGTAAACGGGCCGGCCAG 62.525 60.000 44.46 41.93 37.98 4.85
400 401 3.404438 TAAACGGGCCGGCCAGAT 61.404 61.111 45.89 35.03 37.98 2.90
401 402 3.690685 TAAACGGGCCGGCCAGATG 62.691 63.158 45.89 32.57 37.98 2.90
412 413 3.827634 CCAGATGGCCCGTTTAGC 58.172 61.111 0.00 0.00 0.00 3.09
415 416 0.664761 CAGATGGCCCGTTTAGCATG 59.335 55.000 0.00 0.00 0.00 4.06
418 419 1.386525 ATGGCCCGTTTAGCATGCTG 61.387 55.000 30.42 13.11 0.00 4.41
420 421 2.774799 GCCCGTTTAGCATGCTGGG 61.775 63.158 28.53 28.53 39.72 4.45
421 422 2.774799 CCCGTTTAGCATGCTGGGC 61.775 63.158 30.42 17.15 0.00 5.36
424 425 1.140375 GTTTAGCATGCTGGGCTGC 59.860 57.895 30.42 10.17 42.62 5.25
426 427 1.597797 TTTAGCATGCTGGGCTGCAC 61.598 55.000 30.42 0.00 46.33 4.57
428 429 2.561467 TAGCATGCTGGGCTGCACAT 62.561 55.000 30.42 1.31 46.33 3.21
431 432 0.036765 CATGCTGGGCTGCACATTTT 60.037 50.000 4.43 0.00 46.33 1.82
432 433 0.248289 ATGCTGGGCTGCACATTTTC 59.752 50.000 4.43 0.00 46.33 2.29
433 434 1.114119 TGCTGGGCTGCACATTTTCA 61.114 50.000 4.43 0.00 38.12 2.69
441 442 2.400399 CTGCACATTTTCAGCCTGTTG 58.600 47.619 0.00 0.00 0.00 3.33
443 444 1.606224 GCACATTTTCAGCCTGTTGGG 60.606 52.381 0.00 0.00 38.36 4.12
453 454 3.986970 CCTGTTGGGCTGGTTTTTC 57.013 52.632 0.00 0.00 0.00 2.29
455 456 0.031994 CTGTTGGGCTGGTTTTTCGG 59.968 55.000 0.00 0.00 0.00 4.30
456 457 1.300620 GTTGGGCTGGTTTTTCGGC 60.301 57.895 0.00 0.00 38.26 5.54
463 464 1.135112 GCTGGTTTTTCGGCCTATTGG 60.135 52.381 0.00 0.00 33.14 3.16
464 465 1.476488 CTGGTTTTTCGGCCTATTGGG 59.524 52.381 0.00 0.00 38.36 4.12
532 533 1.785768 AAAAATTAAACGGGCCGTGC 58.214 45.000 34.87 0.00 39.99 5.34
621 622 4.097863 GTTTAGCCCGTGCCGTGC 62.098 66.667 0.00 0.00 38.69 5.34
679 680 4.636435 CTGTTTGGCCCGGTCCGT 62.636 66.667 11.06 0.00 0.00 4.69
680 681 4.192453 TGTTTGGCCCGGTCCGTT 62.192 61.111 11.06 0.00 0.00 4.44
681 682 2.908428 GTTTGGCCCGGTCCGTTT 60.908 61.111 11.06 0.00 0.00 3.60
682 683 2.907917 TTTGGCCCGGTCCGTTTG 60.908 61.111 11.06 0.00 0.00 2.93
683 684 4.958897 TTGGCCCGGTCCGTTTGG 62.959 66.667 11.06 5.57 0.00 3.28
712 750 3.586961 CAGCGATCGAGCGGAGGA 61.587 66.667 25.73 0.00 43.00 3.71
713 751 3.283684 AGCGATCGAGCGGAGGAG 61.284 66.667 25.73 0.00 43.00 3.69
714 752 4.335584 GCGATCGAGCGGAGGAGG 62.336 72.222 25.73 0.00 0.00 4.30
715 753 3.665226 CGATCGAGCGGAGGAGGG 61.665 72.222 16.65 0.00 0.00 4.30
716 754 3.984749 GATCGAGCGGAGGAGGGC 61.985 72.222 0.00 0.00 0.00 5.19
717 755 4.841617 ATCGAGCGGAGGAGGGCA 62.842 66.667 0.00 0.00 0.00 5.36
750 789 2.523657 TGGGCCAGCACATGCAAA 60.524 55.556 0.00 0.00 45.16 3.68
790 833 1.229464 CCATCCCCAGCCCCAAAAA 60.229 57.895 0.00 0.00 0.00 1.94
814 857 1.878522 CCCATCTCGCCGTTTCTCG 60.879 63.158 0.00 0.00 39.52 4.04
817 860 0.640768 CATCTCGCCGTTTCTCGAAC 59.359 55.000 0.00 0.00 42.86 3.95
864 908 3.865929 CTCACTGTTCGCCACCGCT 62.866 63.158 0.00 0.00 0.00 5.52
923 967 2.281484 GTCGCAGTTCCCCTTGCA 60.281 61.111 0.00 0.00 40.28 4.08
1272 1317 2.229302 GGTGAGGGTGCTCTACGATATC 59.771 54.545 0.00 0.00 0.00 1.63
1278 1323 3.082548 GGTGCTCTACGATATCTGGCTA 58.917 50.000 0.34 0.00 0.00 3.93
1339 1390 2.043953 GGCCAAACCCTAGCCAGG 60.044 66.667 0.00 0.00 46.34 4.45
1351 1402 1.913951 TAGCCAGGTAGACCCGTCGA 61.914 60.000 0.00 0.00 38.74 4.20
1379 1433 3.049674 CCGTGACAATGCAGCCGT 61.050 61.111 0.00 0.00 0.00 5.68
1500 1570 4.459089 GAGGCGCAGGTGGAGGAC 62.459 72.222 10.83 0.00 0.00 3.85
1610 1687 5.643664 TGTATCTTTCAATGTGAAGCATGC 58.356 37.500 10.51 10.51 37.70 4.06
2041 2130 5.705905 AGTAAAGGGTATGAGCAACTGAAAC 59.294 40.000 0.00 0.00 0.00 2.78
2237 2723 6.108687 TGTTCTGCTCTGTTATATGAACCTG 58.891 40.000 0.00 0.00 33.57 4.00
2248 2734 9.574458 CTGTTATATGAACCTGTTCTATATCCG 57.426 37.037 11.03 4.35 40.14 4.18
2249 2735 9.085645 TGTTATATGAACCTGTTCTATATCCGT 57.914 33.333 11.03 0.00 40.14 4.69
2451 2942 3.624777 AGGAAAATGATTGATCGGTGCT 58.375 40.909 0.00 0.00 0.00 4.40
2674 3174 1.696063 ACAAAACATGTGCTGGCTCT 58.304 45.000 0.00 0.00 41.93 4.09
2811 3314 4.284746 GGAATAGGTAGCAGATTAGTGGCT 59.715 45.833 0.00 0.00 41.51 4.75
2894 4446 4.899352 AGTTGTGCTCTTAGTGGAGAAT 57.101 40.909 0.00 0.00 35.52 2.40
2914 4466 7.288810 AGAATTTTTCTGTAAATGCACTGGA 57.711 32.000 0.00 0.00 38.91 3.86
2948 4583 6.374053 TGCATGCTAAGTTACAAGATGCTTAA 59.626 34.615 20.33 0.00 36.52 1.85
2965 4600 8.105829 AGATGCTTAATTCTTTGGAAGAGAGAA 58.894 33.333 0.00 0.00 39.03 2.87
2968 4603 8.734386 TGCTTAATTCTTTGGAAGAGAGAATTC 58.266 33.333 12.29 0.00 43.12 2.17
2986 4634 4.591321 ATTCCTTGGCATACTTCCTTCA 57.409 40.909 0.00 0.00 0.00 3.02
2997 4645 6.152831 GGCATACTTCCTTCAGTTTAATGGTT 59.847 38.462 0.00 0.00 0.00 3.67
2998 4646 7.338449 GGCATACTTCCTTCAGTTTAATGGTTA 59.662 37.037 0.00 0.00 0.00 2.85
3017 4665 9.832445 AATGGTTACATTTCTTATCGATGTAGT 57.168 29.630 8.54 0.00 44.69 2.73
3019 4667 7.223971 TGGTTACATTTCTTATCGATGTAGTGC 59.776 37.037 8.54 0.00 37.50 4.40
3020 4668 7.223971 GGTTACATTTCTTATCGATGTAGTGCA 59.776 37.037 8.54 0.00 37.50 4.57
3062 4714 2.264794 CCTTCCAACGGACCCTCG 59.735 66.667 0.00 0.00 0.00 4.63
3097 4749 0.397941 TGCTCTGTTCCTGGGTTCTG 59.602 55.000 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.791327 AGGTTCATCAAATTTGAAAAACTGTT 57.209 26.923 29.11 19.94 41.13 3.16
36 37 8.274939 GCATCGAATTTGAAAAACTTTCATCAA 58.725 29.630 0.00 0.00 0.00 2.57
37 38 7.437565 TGCATCGAATTTGAAAAACTTTCATCA 59.562 29.630 0.00 0.00 0.00 3.07
38 39 7.786114 TGCATCGAATTTGAAAAACTTTCATC 58.214 30.769 0.00 0.00 0.00 2.92
39 40 7.712264 TGCATCGAATTTGAAAAACTTTCAT 57.288 28.000 0.00 0.00 0.00 2.57
40 41 7.712264 ATGCATCGAATTTGAAAAACTTTCA 57.288 28.000 0.00 0.00 0.00 2.69
41 42 8.992287 AAATGCATCGAATTTGAAAAACTTTC 57.008 26.923 0.00 0.00 0.00 2.62
42 43 9.786105 AAAAATGCATCGAATTTGAAAAACTTT 57.214 22.222 0.00 0.00 0.00 2.66
65 66 7.435488 TGAAAATAGTTCGGCGAATTTGAAAAA 59.565 29.630 26.42 5.53 0.00 1.94
66 67 6.918569 TGAAAATAGTTCGGCGAATTTGAAAA 59.081 30.769 26.42 6.30 0.00 2.29
67 68 6.439599 TGAAAATAGTTCGGCGAATTTGAAA 58.560 32.000 26.42 6.70 0.00 2.69
68 69 6.003234 TGAAAATAGTTCGGCGAATTTGAA 57.997 33.333 26.42 7.09 0.00 2.69
70 71 6.683090 TTTGAAAATAGTTCGGCGAATTTG 57.317 33.333 26.42 0.00 0.00 2.32
71 72 7.596995 TGAATTTGAAAATAGTTCGGCGAATTT 59.403 29.630 26.42 20.62 0.00 1.82
72 73 7.087639 TGAATTTGAAAATAGTTCGGCGAATT 58.912 30.769 26.42 23.60 0.00 2.17
73 74 6.616947 TGAATTTGAAAATAGTTCGGCGAAT 58.383 32.000 26.42 16.28 0.00 3.34
74 75 6.003234 TGAATTTGAAAATAGTTCGGCGAA 57.997 33.333 19.83 19.83 0.00 4.70
75 76 5.614923 TGAATTTGAAAATAGTTCGGCGA 57.385 34.783 4.99 4.99 0.00 5.54
76 77 6.307800 ACATTGAATTTGAAAATAGTTCGGCG 59.692 34.615 0.00 0.00 0.00 6.46
77 78 7.581011 ACATTGAATTTGAAAATAGTTCGGC 57.419 32.000 0.00 0.00 0.00 5.54
118 119 9.521503 GCTCTTGTTCTTAAAAGAAAAGTTCAT 57.478 29.630 6.72 0.00 45.77 2.57
119 120 8.519526 TGCTCTTGTTCTTAAAAGAAAAGTTCA 58.480 29.630 6.72 10.78 45.77 3.18
120 121 8.799091 GTGCTCTTGTTCTTAAAAGAAAAGTTC 58.201 33.333 6.72 9.12 45.77 3.01
121 122 8.303876 TGTGCTCTTGTTCTTAAAAGAAAAGTT 58.696 29.630 6.72 0.00 45.77 2.66
122 123 7.826690 TGTGCTCTTGTTCTTAAAAGAAAAGT 58.173 30.769 6.72 0.00 45.77 2.66
123 124 8.862550 ATGTGCTCTTGTTCTTAAAAGAAAAG 57.137 30.769 6.72 11.72 45.77 2.27
124 125 9.730420 GTATGTGCTCTTGTTCTTAAAAGAAAA 57.270 29.630 6.72 0.00 45.77 2.29
125 126 9.120538 AGTATGTGCTCTTGTTCTTAAAAGAAA 57.879 29.630 6.72 0.00 45.77 2.52
126 127 8.677148 AGTATGTGCTCTTGTTCTTAAAAGAA 57.323 30.769 1.00 1.00 42.41 2.52
127 128 9.944376 ATAGTATGTGCTCTTGTTCTTAAAAGA 57.056 29.630 0.00 0.00 0.00 2.52
130 131 9.314321 GCTATAGTATGTGCTCTTGTTCTTAAA 57.686 33.333 0.84 0.00 0.00 1.52
131 132 8.474831 TGCTATAGTATGTGCTCTTGTTCTTAA 58.525 33.333 0.84 0.00 0.00 1.85
132 133 8.007405 TGCTATAGTATGTGCTCTTGTTCTTA 57.993 34.615 0.84 0.00 0.00 2.10
133 134 6.878317 TGCTATAGTATGTGCTCTTGTTCTT 58.122 36.000 0.84 0.00 0.00 2.52
134 135 6.471233 TGCTATAGTATGTGCTCTTGTTCT 57.529 37.500 0.84 0.00 0.00 3.01
135 136 6.018669 GGTTGCTATAGTATGTGCTCTTGTTC 60.019 42.308 0.84 0.00 0.00 3.18
136 137 5.817816 GGTTGCTATAGTATGTGCTCTTGTT 59.182 40.000 0.84 0.00 0.00 2.83
137 138 5.360591 GGTTGCTATAGTATGTGCTCTTGT 58.639 41.667 0.84 0.00 0.00 3.16
138 139 4.445718 CGGTTGCTATAGTATGTGCTCTTG 59.554 45.833 0.84 0.00 0.00 3.02
139 140 4.501571 CCGGTTGCTATAGTATGTGCTCTT 60.502 45.833 0.84 0.00 0.00 2.85
141 142 3.243771 ACCGGTTGCTATAGTATGTGCTC 60.244 47.826 0.00 0.00 0.00 4.26
142 143 2.698797 ACCGGTTGCTATAGTATGTGCT 59.301 45.455 0.00 0.00 0.00 4.40
143 144 3.107642 ACCGGTTGCTATAGTATGTGC 57.892 47.619 0.00 0.00 0.00 4.57
144 145 6.431198 AAAAACCGGTTGCTATAGTATGTG 57.569 37.500 23.08 0.00 0.00 3.21
169 170 9.817809 TGCTATAGTATGGACTGTTTTTCTTAG 57.182 33.333 0.84 0.00 36.28 2.18
171 172 9.686683 AATGCTATAGTATGGACTGTTTTTCTT 57.313 29.630 3.90 0.00 36.28 2.52
172 173 9.686683 AAATGCTATAGTATGGACTGTTTTTCT 57.313 29.630 3.90 0.00 36.28 2.52
214 215 2.427506 GTCTGCCCTCGATCACTTTTT 58.572 47.619 0.00 0.00 0.00 1.94
216 217 0.250513 GGTCTGCCCTCGATCACTTT 59.749 55.000 0.00 0.00 0.00 2.66
219 220 0.671251 CTAGGTCTGCCCTCGATCAC 59.329 60.000 0.00 0.00 44.81 3.06
221 222 1.663173 GCTAGGTCTGCCCTCGATC 59.337 63.158 0.00 0.00 44.81 3.69
222 223 1.834822 GGCTAGGTCTGCCCTCGAT 60.835 63.158 0.00 0.00 44.81 3.59
229 230 1.019805 GTCCGTTTGGCTAGGTCTGC 61.020 60.000 0.00 0.00 34.14 4.26
231 232 0.834687 TGGTCCGTTTGGCTAGGTCT 60.835 55.000 0.00 0.00 34.14 3.85
232 233 0.391263 CTGGTCCGTTTGGCTAGGTC 60.391 60.000 0.00 0.00 34.14 3.85
233 234 1.677552 CTGGTCCGTTTGGCTAGGT 59.322 57.895 0.00 0.00 34.14 3.08
234 235 1.745489 GCTGGTCCGTTTGGCTAGG 60.745 63.158 0.00 0.00 34.14 3.02
235 236 1.745489 GGCTGGTCCGTTTGGCTAG 60.745 63.158 0.00 0.00 34.14 3.42
236 237 2.349755 GGCTGGTCCGTTTGGCTA 59.650 61.111 0.00 0.00 34.14 3.93
237 238 4.660938 GGGCTGGTCCGTTTGGCT 62.661 66.667 0.00 0.00 34.94 4.75
245 246 4.736896 GTCGTGTCGGGCTGGTCC 62.737 72.222 0.00 0.00 0.00 4.46
246 247 3.986006 TGTCGTGTCGGGCTGGTC 61.986 66.667 0.00 0.00 0.00 4.02
249 250 4.337060 TCGTGTCGTGTCGGGCTG 62.337 66.667 0.00 0.00 0.00 4.85
250 251 4.338539 GTCGTGTCGTGTCGGGCT 62.339 66.667 0.00 0.00 0.00 5.19
252 253 4.712425 GGGTCGTGTCGTGTCGGG 62.712 72.222 0.00 0.00 0.00 5.14
254 255 4.016629 TCGGGTCGTGTCGTGTCG 62.017 66.667 0.00 0.00 0.00 4.35
256 257 2.558286 ATGTCGGGTCGTGTCGTGT 61.558 57.895 0.00 0.00 0.00 4.49
257 258 2.086426 CATGTCGGGTCGTGTCGTG 61.086 63.158 0.00 0.00 0.00 4.35
258 259 2.257371 CATGTCGGGTCGTGTCGT 59.743 61.111 0.00 0.00 0.00 4.34
259 260 2.086426 CACATGTCGGGTCGTGTCG 61.086 63.158 0.00 0.00 35.69 4.35
260 261 2.380410 GCACATGTCGGGTCGTGTC 61.380 63.158 0.00 0.00 35.69 3.67
261 262 1.529152 TAGCACATGTCGGGTCGTGT 61.529 55.000 0.00 0.00 37.96 4.49
262 263 0.389296 TTAGCACATGTCGGGTCGTG 60.389 55.000 0.00 0.00 0.00 4.35
263 264 0.535335 ATTAGCACATGTCGGGTCGT 59.465 50.000 0.00 0.00 0.00 4.34
264 265 1.209128 GATTAGCACATGTCGGGTCG 58.791 55.000 0.00 0.00 0.00 4.79
265 266 1.209128 CGATTAGCACATGTCGGGTC 58.791 55.000 0.00 0.00 0.00 4.46
267 268 0.930310 CACGATTAGCACATGTCGGG 59.070 55.000 0.00 0.00 38.33 5.14
268 269 0.301687 GCACGATTAGCACATGTCGG 59.698 55.000 0.00 0.00 38.33 4.79
269 270 0.301687 GGCACGATTAGCACATGTCG 59.698 55.000 0.00 0.00 39.78 4.35
270 271 1.328680 CAGGCACGATTAGCACATGTC 59.671 52.381 0.00 0.00 0.00 3.06
271 272 1.372582 CAGGCACGATTAGCACATGT 58.627 50.000 0.00 0.00 0.00 3.21
272 273 0.659427 CCAGGCACGATTAGCACATG 59.341 55.000 0.00 0.00 0.00 3.21
273 274 1.097547 GCCAGGCACGATTAGCACAT 61.098 55.000 6.55 0.00 0.00 3.21
275 276 2.472909 GGCCAGGCACGATTAGCAC 61.473 63.158 15.19 0.00 0.00 4.40
276 277 2.124736 GGCCAGGCACGATTAGCA 60.125 61.111 15.19 0.00 0.00 3.49
277 278 2.902343 GGGCCAGGCACGATTAGC 60.902 66.667 15.19 0.00 0.00 3.09
304 305 2.541588 CGGCTATTAAACATGCCACAGC 60.542 50.000 0.00 0.00 45.13 4.40
305 306 2.033299 CCGGCTATTAAACATGCCACAG 59.967 50.000 0.00 0.00 45.13 3.66
306 307 2.020720 CCGGCTATTAAACATGCCACA 58.979 47.619 0.00 0.00 45.13 4.17
307 308 1.336755 CCCGGCTATTAAACATGCCAC 59.663 52.381 0.00 0.00 45.13 5.01
308 309 1.686355 CCCGGCTATTAAACATGCCA 58.314 50.000 0.00 0.00 45.13 4.92
309 310 0.313987 GCCCGGCTATTAAACATGCC 59.686 55.000 0.71 0.00 41.76 4.40
310 311 0.313987 GGCCCGGCTATTAAACATGC 59.686 55.000 9.86 0.00 0.00 4.06
311 312 0.591170 CGGCCCGGCTATTAAACATG 59.409 55.000 9.86 0.00 0.00 3.21
312 313 0.181824 ACGGCCCGGCTATTAAACAT 59.818 50.000 8.57 0.00 0.00 2.71
314 315 2.019337 CACGGCCCGGCTATTAAAC 58.981 57.895 8.57 0.00 0.00 2.01
316 317 2.203098 GCACGGCCCGGCTATTAA 60.203 61.111 8.57 0.00 0.00 1.40
317 318 4.244463 GGCACGGCCCGGCTATTA 62.244 66.667 8.57 0.00 44.06 0.98
343 344 4.335647 AAGGAGCAGTGCCCGTGG 62.336 66.667 12.58 0.00 0.00 4.94
344 345 3.052082 CAAGGAGCAGTGCCCGTG 61.052 66.667 18.60 18.60 0.00 4.94
345 346 4.335647 CCAAGGAGCAGTGCCCGT 62.336 66.667 12.58 8.35 0.00 5.28
349 350 4.666253 TGGGCCAAGGAGCAGTGC 62.666 66.667 2.13 7.13 0.00 4.40
350 351 2.360852 CTGGGCCAAGGAGCAGTG 60.361 66.667 8.04 0.00 0.00 3.66
351 352 3.655211 CCTGGGCCAAGGAGCAGT 61.655 66.667 23.53 0.00 40.02 4.40
367 368 2.601763 CGTTTACTAATCAGGTCGTGCC 59.398 50.000 0.00 0.00 37.58 5.01
368 369 2.601763 CCGTTTACTAATCAGGTCGTGC 59.398 50.000 0.00 0.00 0.00 5.34
370 371 2.417787 GCCCGTTTACTAATCAGGTCGT 60.418 50.000 0.00 0.00 0.00 4.34
371 372 2.199236 GCCCGTTTACTAATCAGGTCG 58.801 52.381 0.00 0.00 0.00 4.79
372 373 2.558378 GGCCCGTTTACTAATCAGGTC 58.442 52.381 0.00 0.00 0.00 3.85
373 374 1.134610 CGGCCCGTTTACTAATCAGGT 60.135 52.381 0.00 0.00 0.00 4.00
374 375 1.578583 CGGCCCGTTTACTAATCAGG 58.421 55.000 0.00 0.00 0.00 3.86
375 376 1.578583 CCGGCCCGTTTACTAATCAG 58.421 55.000 0.85 0.00 0.00 2.90
376 377 0.462403 GCCGGCCCGTTTACTAATCA 60.462 55.000 18.11 0.00 0.00 2.57
377 378 1.162181 GGCCGGCCCGTTTACTAATC 61.162 60.000 36.64 4.14 0.00 1.75
379 380 2.268600 GGCCGGCCCGTTTACTAA 59.731 61.111 36.64 0.00 0.00 2.24
380 381 3.001994 TGGCCGGCCCGTTTACTA 61.002 61.111 41.75 19.10 35.87 1.82
382 383 3.692370 ATCTGGCCGGCCCGTTTAC 62.692 63.158 41.75 16.63 35.87 2.01
383 384 3.404438 ATCTGGCCGGCCCGTTTA 61.404 61.111 41.75 22.79 35.87 2.01
395 396 0.466189 ATGCTAAACGGGCCATCTGG 60.466 55.000 4.39 0.00 38.53 3.86
396 397 0.664761 CATGCTAAACGGGCCATCTG 59.335 55.000 4.39 0.00 0.00 2.90
397 398 1.103398 GCATGCTAAACGGGCCATCT 61.103 55.000 11.37 0.00 0.00 2.90
398 399 1.103398 AGCATGCTAAACGGGCCATC 61.103 55.000 21.21 0.00 0.00 3.51
400 401 2.045708 CAGCATGCTAAACGGGCCA 61.046 57.895 22.19 0.00 0.00 5.36
401 402 2.774799 CCAGCATGCTAAACGGGCC 61.775 63.158 22.19 0.00 31.97 5.80
403 404 2.774799 GCCCAGCATGCTAAACGGG 61.775 63.158 28.53 28.53 36.71 5.28
404 405 1.750399 AGCCCAGCATGCTAAACGG 60.750 57.895 22.19 17.20 37.28 4.44
405 406 1.430632 CAGCCCAGCATGCTAAACG 59.569 57.895 22.19 7.93 36.81 3.60
406 407 1.140375 GCAGCCCAGCATGCTAAAC 59.860 57.895 22.19 12.31 39.38 2.01
407 408 1.304299 TGCAGCCCAGCATGCTAAA 60.304 52.632 22.19 0.00 42.98 1.85
415 416 0.389426 CTGAAAATGTGCAGCCCAGC 60.389 55.000 0.00 0.00 0.00 4.85
421 422 2.400399 CAACAGGCTGAAAATGTGCAG 58.600 47.619 23.66 0.00 35.28 4.41
424 425 2.443887 CCCAACAGGCTGAAAATGTG 57.556 50.000 23.66 8.53 0.00 3.21
435 436 0.031994 CGAAAAACCAGCCCAACAGG 59.968 55.000 0.00 0.00 39.47 4.00
436 437 0.031994 CCGAAAAACCAGCCCAACAG 59.968 55.000 0.00 0.00 0.00 3.16
438 439 1.300620 GCCGAAAAACCAGCCCAAC 60.301 57.895 0.00 0.00 0.00 3.77
439 440 2.503382 GGCCGAAAAACCAGCCCAA 61.503 57.895 0.00 0.00 39.60 4.12
443 444 1.135112 CCAATAGGCCGAAAAACCAGC 60.135 52.381 0.00 0.00 0.00 4.85
445 446 1.551452 CCCAATAGGCCGAAAAACCA 58.449 50.000 0.00 0.00 0.00 3.67
513 514 1.605968 GGCACGGCCCGTTTAATTTTT 60.606 47.619 5.76 0.00 44.06 1.94
514 515 0.038067 GGCACGGCCCGTTTAATTTT 60.038 50.000 5.76 0.00 44.06 1.82
516 517 3.280211 GGCACGGCCCGTTTAATT 58.720 55.556 5.76 0.00 44.06 1.40
662 663 4.636435 ACGGACCGGGCCAAACAG 62.636 66.667 30.17 12.67 0.00 3.16
663 664 3.717924 AAACGGACCGGGCCAAACA 62.718 57.895 30.17 0.00 0.00 2.83
665 666 2.907917 CAAACGGACCGGGCCAAA 60.908 61.111 30.17 0.00 0.00 3.28
676 677 4.740822 CTCCCCCTGGCCAAACGG 62.741 72.222 7.01 4.36 0.00 4.44
685 686 4.247380 GATCGCTGGCTCCCCCTG 62.247 72.222 0.00 0.00 35.75 4.45
688 689 4.292178 CTCGATCGCTGGCTCCCC 62.292 72.222 11.09 0.00 0.00 4.81
695 733 3.534970 CTCCTCCGCTCGATCGCTG 62.535 68.421 11.09 6.91 0.00 5.18
741 779 0.993251 CGCTGTGTCGTTTGCATGTG 60.993 55.000 0.00 0.00 0.00 3.21
742 780 1.279539 CGCTGTGTCGTTTGCATGT 59.720 52.632 0.00 0.00 0.00 3.21
790 833 0.034477 AACGGCGAGATGGGGAAATT 60.034 50.000 16.62 0.00 0.00 1.82
791 834 0.034477 AAACGGCGAGATGGGGAAAT 60.034 50.000 16.62 0.00 0.00 2.17
795 838 1.521681 GAGAAACGGCGAGATGGGG 60.522 63.158 16.62 0.00 0.00 4.96
885 929 1.748403 GGCGATATGAGAGGTGGCA 59.252 57.895 0.00 0.00 0.00 4.92
894 938 3.207547 CTGCGACGGGGCGATATGA 62.208 63.158 0.00 0.00 35.06 2.15
896 940 2.694829 GAACTGCGACGGGGCGATAT 62.695 60.000 0.00 0.00 35.06 1.63
923 967 4.524318 CGGTTATGGGAGCCGCGT 62.524 66.667 4.92 0.00 38.99 6.01
1278 1323 4.008933 GCTGTGGCCTGGTCGACT 62.009 66.667 16.46 0.00 0.00 4.18
1339 1390 3.122445 GTGTCAAAAATCGACGGGTCTAC 59.878 47.826 0.00 0.00 36.11 2.59
1351 1402 3.798548 GCATTGTCACGGGTGTCAAAAAT 60.799 43.478 13.73 0.00 40.70 1.82
1500 1570 0.110238 CCACAACATTCGTCTTGGCG 60.110 55.000 0.00 0.00 0.00 5.69
1610 1687 7.095439 GGATTATCTTATGAGCTGAGAAAACCG 60.095 40.741 0.00 0.00 0.00 4.44
2054 2143 6.161855 TCTCCCATATATCCGCAATGATAC 57.838 41.667 0.00 0.00 30.36 2.24
2237 2723 6.959361 TGTTACGGTCTTACGGATATAGAAC 58.041 40.000 0.00 0.00 38.39 3.01
2245 2731 4.012374 AGAGAATGTTACGGTCTTACGGA 58.988 43.478 0.00 0.00 38.39 4.69
2246 2732 4.103357 CAGAGAATGTTACGGTCTTACGG 58.897 47.826 0.00 0.00 38.39 4.02
2247 2733 4.978186 TCAGAGAATGTTACGGTCTTACG 58.022 43.478 0.00 0.00 40.31 3.18
2248 2734 8.136165 ACATATCAGAGAATGTTACGGTCTTAC 58.864 37.037 0.00 0.00 32.43 2.34
2249 2735 8.234136 ACATATCAGAGAATGTTACGGTCTTA 57.766 34.615 0.00 0.00 32.43 2.10
2250 2736 7.113658 ACATATCAGAGAATGTTACGGTCTT 57.886 36.000 0.00 0.00 32.43 3.01
2251 2737 6.716934 ACATATCAGAGAATGTTACGGTCT 57.283 37.500 0.00 0.00 32.43 3.85
2252 2738 7.772332 AAACATATCAGAGAATGTTACGGTC 57.228 36.000 12.24 0.00 43.66 4.79
2768 3271 3.994392 TCCACAGCTTATCAAGTCGAAAC 59.006 43.478 0.00 0.00 0.00 2.78
2811 3314 4.321718 CTGCAGAAAAGATCACAAGAGGA 58.678 43.478 8.42 0.00 0.00 3.71
2894 4446 6.096141 TCAAGTCCAGTGCATTTACAGAAAAA 59.904 34.615 0.00 0.00 0.00 1.94
2914 4466 1.004044 ACTTAGCATGCAGGCTCAAGT 59.996 47.619 31.45 28.71 44.54 3.16
2948 4583 6.662663 CCAAGGAATTCTCTCTTCCAAAGAAT 59.337 38.462 5.23 0.00 43.88 2.40
2955 4590 3.356529 TGCCAAGGAATTCTCTCTTCC 57.643 47.619 5.23 0.00 42.13 3.46
2965 4600 4.018050 ACTGAAGGAAGTATGCCAAGGAAT 60.018 41.667 0.00 0.00 34.43 3.01
2968 4603 3.356529 ACTGAAGGAAGTATGCCAAGG 57.643 47.619 0.00 0.00 34.43 3.61
2997 4645 8.710835 TTTGCACTACATCGATAAGAAATGTA 57.289 30.769 12.56 3.77 35.38 2.29
2998 4646 7.609760 TTTGCACTACATCGATAAGAAATGT 57.390 32.000 12.56 2.79 37.40 2.71
3007 4655 4.375272 CTCCAGATTTGCACTACATCGAT 58.625 43.478 0.00 0.00 0.00 3.59
3013 4661 3.686726 CAGAACCTCCAGATTTGCACTAC 59.313 47.826 0.00 0.00 0.00 2.73
3016 4664 2.508526 ACAGAACCTCCAGATTTGCAC 58.491 47.619 0.00 0.00 0.00 4.57
3017 4665 2.957402 ACAGAACCTCCAGATTTGCA 57.043 45.000 0.00 0.00 0.00 4.08
3062 4714 3.092081 GCAACACAAATGCGGAGTC 57.908 52.632 0.00 0.00 33.57 3.36
3068 4720 2.035066 AGGAACAGAGCAACACAAATGC 59.965 45.455 0.00 0.00 44.15 3.56


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

AutoCloner maintained by Alex Coulton.