Multiple sequence alignment - TraesCS7D01G384700

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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 TraesCS7D01G384700 chr7D 100.000 3417 0 0 1 3417 498529816 498526400 0.000000e+00 6311.0
1 TraesCS7D01G384700 chr7D 83.333 570 62 15 2749 3289 613863454 613864019 2.370000e-136 496.0
2 TraesCS7D01G384700 chr7D 88.251 383 43 2 2671 3053 627403970 627404350 1.120000e-124 457.0
3 TraesCS7D01G384700 chr7A 94.098 2389 61 32 323 2672 564347814 564345467 0.000000e+00 3557.0
4 TraesCS7D01G384700 chr7A 82.407 648 83 14 2671 3289 54852000 54852645 1.400000e-148 536.0
5 TraesCS7D01G384700 chr7A 82.253 648 81 17 2671 3289 5855178 5855820 2.340000e-146 529.0
6 TraesCS7D01G384700 chr7A 83.333 234 24 8 62 283 564348050 564347820 5.780000e-48 202.0
7 TraesCS7D01G384700 chr7B 93.779 2395 64 35 323 2672 526885115 526882761 0.000000e+00 3518.0
8 TraesCS7D01G384700 chr7B 81.613 310 23 14 1 283 526885423 526885121 3.430000e-55 226.0
9 TraesCS7D01G384700 chr7B 90.278 72 2 1 3346 3417 526882774 526882708 4.700000e-14 89.8
10 TraesCS7D01G384700 chr4B 83.721 645 70 18 2671 3285 472070648 472071287 8.220000e-161 577.0
11 TraesCS7D01G384700 chr2D 83.051 649 76 15 2671 3290 579754364 579755007 2.980000e-155 558.0
12 TraesCS7D01G384700 chr4A 83.051 649 75 16 2671 3289 733536112 733536755 1.070000e-154 556.0
13 TraesCS7D01G384700 chr4A 82.609 644 81 14 2671 3285 598588957 598589598 1.080000e-149 540.0
14 TraesCS7D01G384700 chr4A 81.675 633 82 17 2688 3291 612039346 612038719 2.370000e-136 496.0
15 TraesCS7D01G384700 chr4A 88.281 384 43 2 2671 3053 6819430 6819048 3.110000e-125 459.0
16 TraesCS7D01G384700 chr4A 88.281 384 42 3 2671 3053 708541974 708541593 1.120000e-124 457.0
17 TraesCS7D01G384700 chr5D 82.918 562 71 10 2671 3226 62509826 62509284 1.840000e-132 483.0
18 TraesCS7D01G384700 chr5D 88.251 383 44 1 2671 3053 547504248 547504629 1.120000e-124 457.0
19 TraesCS7D01G384700 chr1D 89.402 368 39 0 2670 3037 12008387 12008754 6.680000e-127 464.0
20 TraesCS7D01G384700 chr1D 88.512 383 43 1 2671 3053 254638424 254638043 2.400000e-126 462.0
21 TraesCS7D01G384700 chr5A 88.251 383 45 0 2671 3053 340811675 340812057 3.110000e-125 459.0
22 TraesCS7D01G384700 chr2B 88.281 384 42 3 2671 3053 747861435 747861054 1.120000e-124 457.0
23 TraesCS7D01G384700 chr2A 88.281 384 42 3 2671 3053 726299325 726299706 1.120000e-124 457.0
24 TraesCS7D01G384700 chr6A 84.444 225 29 5 1265 1486 183766951 183766730 2.060000e-52 217.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G384700 chr7D 498526400 498529816 3416 True 6311.000000 6311 100.000000 1 3417 1 chr7D.!!$R1 3416
1 TraesCS7D01G384700 chr7D 613863454 613864019 565 False 496.000000 496 83.333000 2749 3289 1 chr7D.!!$F1 540
2 TraesCS7D01G384700 chr7A 564345467 564348050 2583 True 1879.500000 3557 88.715500 62 2672 2 chr7A.!!$R1 2610
3 TraesCS7D01G384700 chr7A 54852000 54852645 645 False 536.000000 536 82.407000 2671 3289 1 chr7A.!!$F2 618
4 TraesCS7D01G384700 chr7A 5855178 5855820 642 False 529.000000 529 82.253000 2671 3289 1 chr7A.!!$F1 618
5 TraesCS7D01G384700 chr7B 526882708 526885423 2715 True 1277.933333 3518 88.556667 1 3417 3 chr7B.!!$R1 3416
6 TraesCS7D01G384700 chr4B 472070648 472071287 639 False 577.000000 577 83.721000 2671 3285 1 chr4B.!!$F1 614
7 TraesCS7D01G384700 chr2D 579754364 579755007 643 False 558.000000 558 83.051000 2671 3290 1 chr2D.!!$F1 619
8 TraesCS7D01G384700 chr4A 733536112 733536755 643 False 556.000000 556 83.051000 2671 3289 1 chr4A.!!$F2 618
9 TraesCS7D01G384700 chr4A 598588957 598589598 641 False 540.000000 540 82.609000 2671 3285 1 chr4A.!!$F1 614
10 TraesCS7D01G384700 chr4A 612038719 612039346 627 True 496.000000 496 81.675000 2688 3291 1 chr4A.!!$R2 603
11 TraesCS7D01G384700 chr5D 62509284 62509826 542 True 483.000000 483 82.918000 2671 3226 1 chr5D.!!$R1 555

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
197 225 0.107508 CAGCCTGATCACCCGTTCAT 60.108 55.0 0.0 0.0 0.0 2.57 F
293 323 0.180406 AACTTTCAGACGCCACACCT 59.820 50.0 0.0 0.0 0.0 4.00 F
784 824 0.328592 AGACTACACCGAGAGCAGGA 59.671 55.0 0.0 0.0 0.0 3.86 F
2096 2181 0.305313 CGTCCGTCTCTCCGATTCTC 59.695 60.0 0.0 0.0 0.0 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1284 1339 1.153349 GCCGATGAAGAGGTGGGAC 60.153 63.158 0.0 0.0 0.00 4.46 R
2093 2178 1.601166 TTCAGAGTGACGAACGGAGA 58.399 50.000 0.0 0.0 0.00 3.71 R
2139 2224 1.616159 TGTCGATCACCACAGACAGA 58.384 50.000 0.0 0.0 38.52 3.41 R
3257 3402 0.106419 TGTCGCCTCCCCAAAAAGTT 60.106 50.000 0.0 0.0 0.00 2.66 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
34 35 2.654863 AGATTTTCCGGCCCATTACAG 58.345 47.619 0.00 0.00 0.00 2.74
45 46 3.260632 GGCCCATTACAGTCCAAAACAAT 59.739 43.478 0.00 0.00 0.00 2.71
48 49 5.510520 GCCCATTACAGTCCAAAACAATTCA 60.511 40.000 0.00 0.00 0.00 2.57
49 50 6.700352 CCCATTACAGTCCAAAACAATTCAT 58.300 36.000 0.00 0.00 0.00 2.57
52 53 7.309990 CCATTACAGTCCAAAACAATTCATCCT 60.310 37.037 0.00 0.00 0.00 3.24
59 60 5.483231 TCCAAAACAATTCATCCTTGCCATA 59.517 36.000 0.00 0.00 0.00 2.74
60 61 5.581874 CCAAAACAATTCATCCTTGCCATAC 59.418 40.000 0.00 0.00 0.00 2.39
197 225 0.107508 CAGCCTGATCACCCGTTCAT 60.108 55.000 0.00 0.00 0.00 2.57
201 229 2.485479 GCCTGATCACCCGTTCATACAT 60.485 50.000 0.00 0.00 0.00 2.29
218 246 7.956328 TCATACATACTCTACCACAGAAACT 57.044 36.000 0.00 0.00 31.12 2.66
220 248 7.614192 TCATACATACTCTACCACAGAAACTCA 59.386 37.037 0.00 0.00 31.12 3.41
222 250 5.775701 ACATACTCTACCACAGAAACTCACT 59.224 40.000 0.00 0.00 31.12 3.41
223 251 4.592485 ACTCTACCACAGAAACTCACTG 57.408 45.455 0.00 0.00 40.68 3.66
225 253 2.061773 CTACCACAGAAACTCACTGCG 58.938 52.381 0.00 0.00 38.74 5.18
227 255 0.583438 CCACAGAAACTCACTGCGTG 59.417 55.000 0.00 2.79 38.74 5.34
228 256 0.583438 CACAGAAACTCACTGCGTGG 59.417 55.000 8.46 3.32 38.74 4.94
229 257 0.464036 ACAGAAACTCACTGCGTGGA 59.536 50.000 8.46 0.00 38.74 4.02
230 258 1.070758 ACAGAAACTCACTGCGTGGAT 59.929 47.619 8.46 0.00 38.74 3.41
231 259 1.728971 CAGAAACTCACTGCGTGGATC 59.271 52.381 8.46 0.00 33.87 3.36
232 260 0.716108 GAAACTCACTGCGTGGATCG 59.284 55.000 8.46 0.00 43.12 3.69
233 261 0.317160 AAACTCACTGCGTGGATCGA 59.683 50.000 8.46 0.00 42.86 3.59
234 262 0.532573 AACTCACTGCGTGGATCGAT 59.467 50.000 0.00 0.00 42.86 3.59
246 274 2.159627 GTGGATCGATCAAACAAAGCGT 59.840 45.455 25.93 0.00 0.00 5.07
283 313 4.183865 CTGATGCATCCGTAACTTTCAGA 58.816 43.478 23.67 0.00 32.96 3.27
285 315 2.333926 TGCATCCGTAACTTTCAGACG 58.666 47.619 0.00 0.00 36.36 4.18
286 316 1.060698 GCATCCGTAACTTTCAGACGC 59.939 52.381 0.00 0.00 35.28 5.19
287 317 1.659098 CATCCGTAACTTTCAGACGCC 59.341 52.381 0.00 0.00 35.28 5.68
288 318 0.675083 TCCGTAACTTTCAGACGCCA 59.325 50.000 0.00 0.00 35.28 5.69
289 319 0.788391 CCGTAACTTTCAGACGCCAC 59.212 55.000 0.00 0.00 35.28 5.01
290 320 1.493772 CGTAACTTTCAGACGCCACA 58.506 50.000 0.00 0.00 0.00 4.17
291 321 1.191647 CGTAACTTTCAGACGCCACAC 59.808 52.381 0.00 0.00 0.00 3.82
292 322 1.529865 GTAACTTTCAGACGCCACACC 59.470 52.381 0.00 0.00 0.00 4.16
293 323 0.180406 AACTTTCAGACGCCACACCT 59.820 50.000 0.00 0.00 0.00 4.00
294 324 0.180406 ACTTTCAGACGCCACACCTT 59.820 50.000 0.00 0.00 0.00 3.50
295 325 1.308998 CTTTCAGACGCCACACCTTT 58.691 50.000 0.00 0.00 0.00 3.11
296 326 1.264288 CTTTCAGACGCCACACCTTTC 59.736 52.381 0.00 0.00 0.00 2.62
297 327 0.534203 TTCAGACGCCACACCTTTCC 60.534 55.000 0.00 0.00 0.00 3.13
298 328 1.966451 CAGACGCCACACCTTTCCC 60.966 63.158 0.00 0.00 0.00 3.97
299 329 2.671963 GACGCCACACCTTTCCCC 60.672 66.667 0.00 0.00 0.00 4.81
300 330 3.175710 ACGCCACACCTTTCCCCT 61.176 61.111 0.00 0.00 0.00 4.79
301 331 2.359975 CGCCACACCTTTCCCCTC 60.360 66.667 0.00 0.00 0.00 4.30
302 332 2.035783 GCCACACCTTTCCCCTCC 59.964 66.667 0.00 0.00 0.00 4.30
303 333 2.763902 CCACACCTTTCCCCTCCC 59.236 66.667 0.00 0.00 0.00 4.30
304 334 2.160171 CCACACCTTTCCCCTCCCA 61.160 63.158 0.00 0.00 0.00 4.37
305 335 1.725169 CCACACCTTTCCCCTCCCAA 61.725 60.000 0.00 0.00 0.00 4.12
306 336 0.409484 CACACCTTTCCCCTCCCAAT 59.591 55.000 0.00 0.00 0.00 3.16
307 337 1.638589 CACACCTTTCCCCTCCCAATA 59.361 52.381 0.00 0.00 0.00 1.90
308 338 2.244769 CACACCTTTCCCCTCCCAATAT 59.755 50.000 0.00 0.00 0.00 1.28
309 339 2.514160 ACACCTTTCCCCTCCCAATATC 59.486 50.000 0.00 0.00 0.00 1.63
310 340 2.144450 ACCTTTCCCCTCCCAATATCC 58.856 52.381 0.00 0.00 0.00 2.59
311 341 2.143602 CCTTTCCCCTCCCAATATCCA 58.856 52.381 0.00 0.00 0.00 3.41
312 342 2.724117 CCTTTCCCCTCCCAATATCCAT 59.276 50.000 0.00 0.00 0.00 3.41
313 343 3.245407 CCTTTCCCCTCCCAATATCCATC 60.245 52.174 0.00 0.00 0.00 3.51
314 344 2.059756 TCCCCTCCCAATATCCATCC 57.940 55.000 0.00 0.00 0.00 3.51
315 345 0.620556 CCCCTCCCAATATCCATCCG 59.379 60.000 0.00 0.00 0.00 4.18
316 346 1.362224 CCCTCCCAATATCCATCCGT 58.638 55.000 0.00 0.00 0.00 4.69
317 347 1.279271 CCCTCCCAATATCCATCCGTC 59.721 57.143 0.00 0.00 0.00 4.79
318 348 1.279271 CCTCCCAATATCCATCCGTCC 59.721 57.143 0.00 0.00 0.00 4.79
319 349 0.973632 TCCCAATATCCATCCGTCCG 59.026 55.000 0.00 0.00 0.00 4.79
320 350 0.685097 CCCAATATCCATCCGTCCGT 59.315 55.000 0.00 0.00 0.00 4.69
321 351 1.337823 CCCAATATCCATCCGTCCGTC 60.338 57.143 0.00 0.00 0.00 4.79
442 472 1.403687 CCTGGCCTAGCTACCACTCC 61.404 65.000 3.32 0.00 0.00 3.85
443 473 0.397816 CTGGCCTAGCTACCACTCCT 60.398 60.000 3.32 0.00 0.00 3.69
444 474 0.687757 TGGCCTAGCTACCACTCCTG 60.688 60.000 3.32 0.00 0.00 3.86
445 475 1.443828 GCCTAGCTACCACTCCTGC 59.556 63.158 0.00 0.00 0.00 4.85
446 476 1.330655 GCCTAGCTACCACTCCTGCA 61.331 60.000 0.00 0.00 0.00 4.41
447 477 1.418334 CCTAGCTACCACTCCTGCAT 58.582 55.000 0.00 0.00 0.00 3.96
772 812 5.698089 CGGATAAGGTATCGTACAGACTACA 59.302 44.000 0.00 0.00 36.03 2.74
773 813 6.347240 CGGATAAGGTATCGTACAGACTACAC 60.347 46.154 0.00 0.00 36.03 2.90
774 814 6.072783 GGATAAGGTATCGTACAGACTACACC 60.073 46.154 0.00 0.00 36.03 4.16
775 815 3.201290 AGGTATCGTACAGACTACACCG 58.799 50.000 0.00 0.00 0.00 4.94
776 816 3.118629 AGGTATCGTACAGACTACACCGA 60.119 47.826 0.00 0.00 0.00 4.69
784 824 0.328592 AGACTACACCGAGAGCAGGA 59.671 55.000 0.00 0.00 0.00 3.86
943 995 3.334054 GAGGCTGCCTGGTCCCTT 61.334 66.667 28.82 0.00 31.76 3.95
1284 1339 2.187946 GAGTGGATGGCCGACCTG 59.812 66.667 17.01 0.00 36.79 4.00
1581 1666 7.941790 TGCTATCTTACACTGACTAGAGATGAT 59.058 37.037 0.00 0.00 0.00 2.45
1584 1669 7.252965 TCTTACACTGACTAGAGATGATTCG 57.747 40.000 0.00 0.00 0.00 3.34
1595 1680 8.970859 ACTAGAGATGATTCGGATTTGATTTT 57.029 30.769 0.00 0.00 0.00 1.82
2068 2153 1.678300 AGAGAAGGTCCGTCCGTCC 60.678 63.158 0.61 0.00 43.98 4.79
2091 2176 4.790962 CCCCGTCCGTCTCTCCGA 62.791 72.222 0.00 0.00 0.00 4.55
2093 2178 2.119655 CCCGTCCGTCTCTCCGATT 61.120 63.158 0.00 0.00 0.00 3.34
2094 2179 1.355916 CCGTCCGTCTCTCCGATTC 59.644 63.158 0.00 0.00 0.00 2.52
2096 2181 0.305313 CGTCCGTCTCTCCGATTCTC 59.695 60.000 0.00 0.00 0.00 2.87
2097 2182 0.664224 GTCCGTCTCTCCGATTCTCC 59.336 60.000 0.00 0.00 0.00 3.71
2098 2183 0.814410 TCCGTCTCTCCGATTCTCCG 60.814 60.000 0.00 0.00 0.00 4.63
2099 2184 1.096386 CCGTCTCTCCGATTCTCCGT 61.096 60.000 0.00 0.00 0.00 4.69
2100 2185 0.733729 CGTCTCTCCGATTCTCCGTT 59.266 55.000 0.00 0.00 0.00 4.44
2101 2186 1.268133 CGTCTCTCCGATTCTCCGTTC 60.268 57.143 0.00 0.00 0.00 3.95
2128 2213 5.178252 CACTCTGAAATGAATCTGACACGTT 59.822 40.000 0.00 0.00 0.00 3.99
2139 2224 2.688446 TCTGACACGTTCTTGTCTCTGT 59.312 45.455 9.99 0.00 45.34 3.41
2140 2225 3.046390 CTGACACGTTCTTGTCTCTGTC 58.954 50.000 9.99 0.00 45.34 3.51
2141 2226 2.688446 TGACACGTTCTTGTCTCTGTCT 59.312 45.455 9.99 0.00 45.34 3.41
2142 2227 3.046390 GACACGTTCTTGTCTCTGTCTG 58.954 50.000 0.00 0.00 42.36 3.51
2143 2228 2.427453 ACACGTTCTTGTCTCTGTCTGT 59.573 45.455 0.00 0.00 0.00 3.41
2144 2229 3.046390 CACGTTCTTGTCTCTGTCTGTC 58.954 50.000 0.00 0.00 0.00 3.51
2149 2240 2.625314 TCTTGTCTCTGTCTGTCTGTGG 59.375 50.000 0.00 0.00 0.00 4.17
2167 2258 2.668457 GTGGTGATCGACATGTCAGAAC 59.332 50.000 24.93 19.47 0.00 3.01
2234 2325 0.247736 GATCAAGAGGTGCTGGTCGT 59.752 55.000 0.00 0.00 0.00 4.34
2498 2599 0.023354 CTTTGTAACTACGCGCTCGC 59.977 55.000 5.73 3.90 39.84 5.03
2499 2600 0.663867 TTTGTAACTACGCGCTCGCA 60.664 50.000 5.73 0.00 42.06 5.10
2500 2601 0.457166 TTGTAACTACGCGCTCGCAT 60.457 50.000 5.73 0.97 42.06 4.73
2501 2602 1.137459 TGTAACTACGCGCTCGCATG 61.137 55.000 5.73 5.93 42.06 4.06
2560 2664 6.785488 TGTGCTTTATCTGACAAGTAGTTG 57.215 37.500 8.81 8.81 39.82 3.16
2561 2665 5.700832 TGTGCTTTATCTGACAAGTAGTTGG 59.299 40.000 14.69 0.00 38.07 3.77
2646 2758 4.204012 TCACTGAAAACCAAAGAATCGGT 58.796 39.130 0.00 0.00 36.98 4.69
2658 2773 6.015519 ACCAAAGAATCGGTGATTTCATTTGA 60.016 34.615 17.77 0.00 35.18 2.69
2659 2774 6.867816 CCAAAGAATCGGTGATTTCATTTGAA 59.132 34.615 17.77 0.00 35.18 2.69
2660 2775 7.384660 CCAAAGAATCGGTGATTTCATTTGAAA 59.615 33.333 17.77 8.09 46.60 2.69
2661 2776 7.873739 AAGAATCGGTGATTTCATTTGAAAC 57.126 32.000 7.83 3.97 45.55 2.78
2662 2777 7.219484 AGAATCGGTGATTTCATTTGAAACT 57.781 32.000 7.83 0.00 45.55 2.66
2663 2778 8.335532 AGAATCGGTGATTTCATTTGAAACTA 57.664 30.769 7.83 0.00 45.55 2.24
2664 2779 8.960591 AGAATCGGTGATTTCATTTGAAACTAT 58.039 29.630 7.83 0.00 45.55 2.12
2665 2780 9.573133 GAATCGGTGATTTCATTTGAAACTATT 57.427 29.630 7.83 0.84 45.55 1.73
2666 2781 8.915871 ATCGGTGATTTCATTTGAAACTATTG 57.084 30.769 7.83 0.36 45.55 1.90
2667 2782 7.312154 TCGGTGATTTCATTTGAAACTATTGG 58.688 34.615 7.83 0.00 45.55 3.16
2668 2783 7.175816 TCGGTGATTTCATTTGAAACTATTGGA 59.824 33.333 7.83 0.64 45.55 3.53
2669 2784 7.812191 CGGTGATTTCATTTGAAACTATTGGAA 59.188 33.333 7.83 0.00 45.55 3.53
2774 2889 0.182061 TCCGTAGACCACCTAGCGAT 59.818 55.000 0.00 0.00 0.00 4.58
2788 2903 3.315470 CCTAGCGATGACTACAAGCACTA 59.685 47.826 0.00 0.00 36.63 2.74
2797 2912 2.028930 ACTACAAGCACTAAAGCGAGCT 60.029 45.455 0.00 0.00 40.15 4.09
2803 2918 1.941668 GCACTAAAGCGAGCTGAAGGT 60.942 52.381 0.00 0.00 0.00 3.50
2829 2944 2.444895 GTCATCGCCCCTCCCTCT 60.445 66.667 0.00 0.00 0.00 3.69
2839 2954 2.277072 CTCCCTCTCCGGAGCTGA 59.723 66.667 27.39 19.58 43.01 4.26
2849 2964 1.301677 CCGGAGCTGAGCAAACCTTC 61.302 60.000 7.39 0.00 0.00 3.46
2888 3003 2.678934 TCGTCGTGCTAAGGCCCT 60.679 61.111 0.00 0.00 37.74 5.19
2933 3048 1.448540 CCGCCGCAGATGAAGAGTT 60.449 57.895 0.00 0.00 0.00 3.01
2939 3054 4.621991 GCCGCAGATGAAGAGTTTAGATA 58.378 43.478 0.00 0.00 0.00 1.98
2947 3062 9.528018 CAGATGAAGAGTTTAGATAAGAAGGAC 57.472 37.037 0.00 0.00 0.00 3.85
2978 3093 6.455647 TGAAGACACAAGAACATAGACGAAT 58.544 36.000 0.00 0.00 0.00 3.34
2979 3094 7.599171 TGAAGACACAAGAACATAGACGAATA 58.401 34.615 0.00 0.00 0.00 1.75
3018 3133 0.613260 TCCACCAAAGACAGATCCGG 59.387 55.000 0.00 0.00 0.00 5.14
3030 3145 2.994995 ATCCGGCGGAGACACACA 60.995 61.111 33.82 8.65 34.05 3.72
3039 3154 1.338105 CGGAGACACACATCCACATGT 60.338 52.381 0.00 0.00 44.72 3.21
3078 3222 6.409695 GGGGAGACATTTATTCCATCTTCAGA 60.410 42.308 0.00 0.00 32.50 3.27
3100 3244 2.030562 CGCCACCGTCTCACCTTT 59.969 61.111 0.00 0.00 0.00 3.11
3109 3253 1.000283 CGTCTCACCTTTCTGAGCAGT 60.000 52.381 0.00 0.00 38.07 4.40
3119 3263 4.330074 CCTTTCTGAGCAGTACATAAACCG 59.670 45.833 0.00 0.00 0.00 4.44
3133 3277 8.337532 AGTACATAAACCGTAACAAAACTCAAC 58.662 33.333 0.00 0.00 0.00 3.18
3141 3285 6.750039 ACCGTAACAAAACTCAACAAAAGATG 59.250 34.615 0.00 0.00 0.00 2.90
3157 3301 3.434940 AGATGTAAAAACGGAGCCCTT 57.565 42.857 0.00 0.00 0.00 3.95
3250 3395 4.301027 GCCGGCGGGATACAGAGG 62.301 72.222 29.48 0.00 39.74 3.69
3252 3397 2.131709 CCGGCGGGATACAGAGGAA 61.132 63.158 20.56 0.00 34.15 3.36
3255 3400 1.446366 GCGGGATACAGAGGAACCC 59.554 63.158 0.00 0.00 39.74 4.11
3256 3401 1.049289 GCGGGATACAGAGGAACCCT 61.049 60.000 0.00 0.00 38.51 4.34
3257 3402 1.756690 GCGGGATACAGAGGAACCCTA 60.757 57.143 0.00 0.00 38.51 3.53
3258 3403 2.674420 CGGGATACAGAGGAACCCTAA 58.326 52.381 0.00 0.00 38.51 2.69
3259 3404 2.364647 CGGGATACAGAGGAACCCTAAC 59.635 54.545 0.00 0.00 38.51 2.34
3260 3405 3.655384 GGGATACAGAGGAACCCTAACT 58.345 50.000 0.00 0.00 37.75 2.24
3291 3438 1.139947 GACAGCTGGCTAGGTCGTC 59.860 63.158 19.93 7.38 30.85 4.20
3292 3439 1.304547 ACAGCTGGCTAGGTCGTCT 60.305 57.895 19.93 0.00 30.85 4.18
3293 3440 1.316706 ACAGCTGGCTAGGTCGTCTC 61.317 60.000 19.93 0.00 30.85 3.36
3294 3441 2.115911 AGCTGGCTAGGTCGTCTCG 61.116 63.158 0.00 0.00 0.00 4.04
3295 3442 2.408241 GCTGGCTAGGTCGTCTCGT 61.408 63.158 0.00 0.00 0.00 4.18
3296 3443 1.722677 CTGGCTAGGTCGTCTCGTC 59.277 63.158 0.00 0.00 0.00 4.20
3297 3444 1.716826 CTGGCTAGGTCGTCTCGTCC 61.717 65.000 0.00 0.00 35.48 4.79
3298 3445 2.708255 GCTAGGTCGTCTCGTCCG 59.292 66.667 0.00 0.00 39.76 4.79
3299 3446 2.105466 GCTAGGTCGTCTCGTCCGT 61.105 63.158 0.00 0.00 39.76 4.69
3300 3447 1.714414 CTAGGTCGTCTCGTCCGTG 59.286 63.158 0.68 0.00 39.76 4.94
3301 3448 1.703438 CTAGGTCGTCTCGTCCGTGG 61.703 65.000 0.68 0.00 39.76 4.94
3302 3449 4.773117 GGTCGTCTCGTCCGTGGC 62.773 72.222 0.00 0.00 0.00 5.01
3303 3450 3.735029 GTCGTCTCGTCCGTGGCT 61.735 66.667 0.00 0.00 0.00 4.75
3304 3451 2.981909 TCGTCTCGTCCGTGGCTT 60.982 61.111 0.00 0.00 0.00 4.35
3305 3452 2.049433 CGTCTCGTCCGTGGCTTT 60.049 61.111 0.00 0.00 0.00 3.51
3306 3453 1.663702 CGTCTCGTCCGTGGCTTTT 60.664 57.895 0.00 0.00 0.00 2.27
3307 3454 1.219522 CGTCTCGTCCGTGGCTTTTT 61.220 55.000 0.00 0.00 0.00 1.94
3322 3469 2.547171 TTTTTCACTCCCGAGGGGT 58.453 52.632 8.53 2.45 44.74 4.95
3323 3470 0.848053 TTTTTCACTCCCGAGGGGTT 59.152 50.000 8.53 0.00 44.74 4.11
3324 3471 0.109723 TTTTCACTCCCGAGGGGTTG 59.890 55.000 8.53 6.01 44.74 3.77
3325 3472 0.765135 TTTCACTCCCGAGGGGTTGA 60.765 55.000 8.53 8.27 44.74 3.18
3326 3473 0.546747 TTCACTCCCGAGGGGTTGAT 60.547 55.000 8.53 0.00 44.74 2.57
3327 3474 0.976073 TCACTCCCGAGGGGTTGATC 60.976 60.000 8.53 0.00 44.74 2.92
3328 3475 1.080354 ACTCCCGAGGGGTTGATCA 59.920 57.895 8.53 0.00 44.74 2.92
3329 3476 1.265454 ACTCCCGAGGGGTTGATCAC 61.265 60.000 8.53 0.00 44.74 3.06
3330 3477 0.978146 CTCCCGAGGGGTTGATCACT 60.978 60.000 8.53 0.00 44.74 3.41
3331 3478 0.546747 TCCCGAGGGGTTGATCACTT 60.547 55.000 8.53 0.00 44.74 3.16
3332 3479 0.392998 CCCGAGGGGTTGATCACTTG 60.393 60.000 0.00 0.00 38.25 3.16
3333 3480 0.613260 CCGAGGGGTTGATCACTTGA 59.387 55.000 0.00 0.00 0.00 3.02
3334 3481 1.210478 CCGAGGGGTTGATCACTTGAT 59.790 52.381 0.00 0.00 37.51 2.57
3335 3482 5.864600 CCCGAGGGGTTGATCACTTGATC 62.865 56.522 11.65 11.65 43.30 2.92
3383 3530 8.007405 TGATGTCGAATATATATGTGTAGGGG 57.993 38.462 0.00 0.00 0.00 4.79
3384 3531 7.837187 TGATGTCGAATATATATGTGTAGGGGA 59.163 37.037 0.00 0.00 0.00 4.81
3385 3532 7.640597 TGTCGAATATATATGTGTAGGGGAG 57.359 40.000 0.00 0.00 0.00 4.30
3393 3540 0.032416 TGTGTAGGGGAGAGGGCTAC 60.032 60.000 0.00 0.00 0.00 3.58
3405 3552 1.335496 GAGGGCTACAGCTAGACTTCG 59.665 57.143 0.54 0.00 41.70 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 3.201266 ACTGTAATGGGCCGGAAAATCTA 59.799 43.478 5.05 0.00 0.00 1.98
34 35 3.996363 GGCAAGGATGAATTGTTTTGGAC 59.004 43.478 0.00 0.00 0.00 4.02
45 46 3.003394 CCACTGTATGGCAAGGATGAA 57.997 47.619 0.00 0.00 43.24 2.57
67 78 1.305201 TGCGAAAGGTGGACTGAAAC 58.695 50.000 0.00 0.00 0.00 2.78
73 84 3.438781 TGAAATGTATGCGAAAGGTGGAC 59.561 43.478 0.00 0.00 0.00 4.02
80 91 3.609853 AGAGGCTGAAATGTATGCGAAA 58.390 40.909 0.00 0.00 0.00 3.46
81 92 3.266510 AGAGGCTGAAATGTATGCGAA 57.733 42.857 0.00 0.00 0.00 4.70
179 195 1.139058 GTATGAACGGGTGATCAGGCT 59.861 52.381 0.00 0.00 29.77 4.58
183 199 4.893524 AGAGTATGTATGAACGGGTGATCA 59.106 41.667 0.00 0.00 0.00 2.92
185 201 5.243283 GGTAGAGTATGTATGAACGGGTGAT 59.757 44.000 0.00 0.00 0.00 3.06
197 225 6.946583 AGTGAGTTTCTGTGGTAGAGTATGTA 59.053 38.462 0.00 0.00 36.61 2.29
201 229 4.022242 GCAGTGAGTTTCTGTGGTAGAGTA 60.022 45.833 0.00 0.00 36.61 2.59
222 250 1.802069 TTGTTTGATCGATCCACGCA 58.198 45.000 22.31 12.77 42.26 5.24
223 251 2.774007 CTTTGTTTGATCGATCCACGC 58.226 47.619 22.31 10.48 42.26 5.34
225 253 2.159627 ACGCTTTGTTTGATCGATCCAC 59.840 45.455 22.31 18.15 0.00 4.02
227 255 4.593597 TTACGCTTTGTTTGATCGATCC 57.406 40.909 22.31 8.00 0.00 3.36
228 256 5.618561 ACTTTACGCTTTGTTTGATCGATC 58.381 37.500 18.72 18.72 0.00 3.69
229 257 5.607119 ACTTTACGCTTTGTTTGATCGAT 57.393 34.783 0.00 0.00 0.00 3.59
230 258 5.387649 CGTACTTTACGCTTTGTTTGATCGA 60.388 40.000 0.00 0.00 45.81 3.59
231 259 4.774549 CGTACTTTACGCTTTGTTTGATCG 59.225 41.667 0.00 0.00 45.81 3.69
246 274 2.101917 GCATCAGGGGCTACGTACTTTA 59.898 50.000 0.00 0.00 0.00 1.85
283 313 3.175710 AGGGGAAAGGTGTGGCGT 61.176 61.111 0.00 0.00 0.00 5.68
285 315 2.035783 GGAGGGGAAAGGTGTGGC 59.964 66.667 0.00 0.00 0.00 5.01
286 316 1.725169 TTGGGAGGGGAAAGGTGTGG 61.725 60.000 0.00 0.00 0.00 4.17
287 317 0.409484 ATTGGGAGGGGAAAGGTGTG 59.591 55.000 0.00 0.00 0.00 3.82
288 318 2.068831 TATTGGGAGGGGAAAGGTGT 57.931 50.000 0.00 0.00 0.00 4.16
289 319 2.158460 GGATATTGGGAGGGGAAAGGTG 60.158 54.545 0.00 0.00 0.00 4.00
290 320 2.144450 GGATATTGGGAGGGGAAAGGT 58.856 52.381 0.00 0.00 0.00 3.50
291 321 2.143602 TGGATATTGGGAGGGGAAAGG 58.856 52.381 0.00 0.00 0.00 3.11
292 322 3.245407 GGATGGATATTGGGAGGGGAAAG 60.245 52.174 0.00 0.00 0.00 2.62
293 323 2.721906 GGATGGATATTGGGAGGGGAAA 59.278 50.000 0.00 0.00 0.00 3.13
294 324 2.358258 GGATGGATATTGGGAGGGGAA 58.642 52.381 0.00 0.00 0.00 3.97
295 325 1.835386 CGGATGGATATTGGGAGGGGA 60.835 57.143 0.00 0.00 0.00 4.81
296 326 0.620556 CGGATGGATATTGGGAGGGG 59.379 60.000 0.00 0.00 0.00 4.79
297 327 1.279271 GACGGATGGATATTGGGAGGG 59.721 57.143 0.00 0.00 0.00 4.30
298 328 1.279271 GGACGGATGGATATTGGGAGG 59.721 57.143 0.00 0.00 0.00 4.30
299 329 1.066858 CGGACGGATGGATATTGGGAG 60.067 57.143 0.00 0.00 0.00 4.30
300 330 0.973632 CGGACGGATGGATATTGGGA 59.026 55.000 0.00 0.00 0.00 4.37
301 331 0.685097 ACGGACGGATGGATATTGGG 59.315 55.000 0.00 0.00 0.00 4.12
302 332 1.618837 AGACGGACGGATGGATATTGG 59.381 52.381 0.00 0.00 0.00 3.16
303 333 2.296190 TGAGACGGACGGATGGATATTG 59.704 50.000 0.00 0.00 0.00 1.90
304 334 2.296471 GTGAGACGGACGGATGGATATT 59.704 50.000 0.00 0.00 0.00 1.28
305 335 1.887198 GTGAGACGGACGGATGGATAT 59.113 52.381 0.00 0.00 0.00 1.63
306 336 1.133884 AGTGAGACGGACGGATGGATA 60.134 52.381 0.00 0.00 0.00 2.59
307 337 0.395862 AGTGAGACGGACGGATGGAT 60.396 55.000 0.00 0.00 0.00 3.41
308 338 1.001269 AGTGAGACGGACGGATGGA 60.001 57.895 0.00 0.00 0.00 3.41
309 339 1.139734 CAGTGAGACGGACGGATGG 59.860 63.158 0.00 0.00 0.00 3.51
310 340 1.517257 GCAGTGAGACGGACGGATG 60.517 63.158 0.00 0.00 0.00 3.51
311 341 1.251527 AAGCAGTGAGACGGACGGAT 61.252 55.000 0.00 0.00 0.00 4.18
312 342 1.901948 AAGCAGTGAGACGGACGGA 60.902 57.895 0.00 0.00 0.00 4.69
313 343 1.734477 CAAGCAGTGAGACGGACGG 60.734 63.158 0.00 0.00 0.00 4.79
314 344 1.004277 GACAAGCAGTGAGACGGACG 61.004 60.000 0.00 0.00 0.00 4.79
315 345 0.032130 TGACAAGCAGTGAGACGGAC 59.968 55.000 0.00 0.00 0.00 4.79
316 346 0.969149 ATGACAAGCAGTGAGACGGA 59.031 50.000 0.00 0.00 0.00 4.69
317 347 1.073964 CATGACAAGCAGTGAGACGG 58.926 55.000 0.00 0.00 0.00 4.79
318 348 1.723542 GACATGACAAGCAGTGAGACG 59.276 52.381 0.00 0.00 0.00 4.18
319 349 2.478134 GTGACATGACAAGCAGTGAGAC 59.522 50.000 0.00 0.00 0.00 3.36
320 350 2.102925 TGTGACATGACAAGCAGTGAGA 59.897 45.455 0.00 0.00 0.00 3.27
321 351 2.222678 GTGTGACATGACAAGCAGTGAG 59.777 50.000 0.00 0.00 0.00 3.51
445 475 1.226575 CGCCAGTTGCATGCAGATG 60.227 57.895 21.50 21.36 41.33 2.90
446 476 3.060020 GCGCCAGTTGCATGCAGAT 62.060 57.895 21.50 10.74 41.33 2.90
447 477 3.740397 GCGCCAGTTGCATGCAGA 61.740 61.111 21.50 9.40 41.33 4.26
568 599 1.074752 GCTCTCGAGAAGCAAAGTGG 58.925 55.000 23.40 9.33 0.00 4.00
682 713 3.000122 CACGACACAAATGGCAAAAACTG 60.000 43.478 0.00 0.00 30.51 3.16
716 756 2.892784 AACCTACAGCGAGAATAGCC 57.107 50.000 0.00 0.00 37.48 3.93
727 767 3.804325 CGAATGATGCACCTAACCTACAG 59.196 47.826 0.00 0.00 0.00 2.74
772 812 1.749638 CCTACGTCCTGCTCTCGGT 60.750 63.158 0.00 0.00 0.00 4.69
773 813 2.482333 CCCTACGTCCTGCTCTCGG 61.482 68.421 0.00 0.00 0.00 4.63
774 814 1.440938 CTCCCTACGTCCTGCTCTCG 61.441 65.000 0.00 0.00 0.00 4.04
775 815 1.104577 CCTCCCTACGTCCTGCTCTC 61.105 65.000 0.00 0.00 0.00 3.20
776 816 1.076632 CCTCCCTACGTCCTGCTCT 60.077 63.158 0.00 0.00 0.00 4.09
784 824 1.622312 GTGAAAACTCCCTCCCTACGT 59.378 52.381 0.00 0.00 0.00 3.57
943 995 2.124983 GCGCCTCATTCCAGCAGA 60.125 61.111 0.00 0.00 0.00 4.26
1284 1339 1.153349 GCCGATGAAGAGGTGGGAC 60.153 63.158 0.00 0.00 0.00 4.46
1581 1666 5.595885 TGAACTGCAAAAATCAAATCCGAA 58.404 33.333 0.00 0.00 0.00 4.30
1584 1669 5.445010 GCGATGAACTGCAAAAATCAAATCC 60.445 40.000 0.00 0.00 0.00 3.01
1595 1680 3.787676 CGCCGCGATGAACTGCAA 61.788 61.111 8.23 0.00 0.00 4.08
2068 2153 3.569049 GAGACGGACGGGGTGTGTG 62.569 68.421 0.00 0.00 0.00 3.82
2091 2176 2.160205 TCAGAGTGACGAACGGAGAAT 58.840 47.619 0.00 0.00 0.00 2.40
2093 2178 1.601166 TTCAGAGTGACGAACGGAGA 58.399 50.000 0.00 0.00 0.00 3.71
2094 2179 2.417339 TTTCAGAGTGACGAACGGAG 57.583 50.000 0.00 0.00 0.00 4.63
2096 2181 2.672714 TCATTTCAGAGTGACGAACGG 58.327 47.619 0.00 0.00 0.00 4.44
2097 2182 4.623167 AGATTCATTTCAGAGTGACGAACG 59.377 41.667 0.00 0.00 0.00 3.95
2098 2183 5.635280 TCAGATTCATTTCAGAGTGACGAAC 59.365 40.000 0.00 0.00 0.00 3.95
2099 2184 5.635280 GTCAGATTCATTTCAGAGTGACGAA 59.365 40.000 0.00 0.00 0.00 3.85
2100 2185 5.164233 GTCAGATTCATTTCAGAGTGACGA 58.836 41.667 0.00 0.00 0.00 4.20
2101 2186 4.925646 TGTCAGATTCATTTCAGAGTGACG 59.074 41.667 0.00 0.00 36.65 4.35
2128 2213 2.625314 CCACAGACAGACAGAGACAAGA 59.375 50.000 0.00 0.00 0.00 3.02
2139 2224 1.616159 TGTCGATCACCACAGACAGA 58.384 50.000 0.00 0.00 38.52 3.41
2140 2225 2.265683 CATGTCGATCACCACAGACAG 58.734 52.381 5.35 0.00 45.22 3.51
2141 2226 1.618343 ACATGTCGATCACCACAGACA 59.382 47.619 0.00 2.03 45.93 3.41
2142 2227 2.263077 GACATGTCGATCACCACAGAC 58.737 52.381 10.69 0.00 0.00 3.51
2143 2228 1.892474 TGACATGTCGATCACCACAGA 59.108 47.619 20.54 0.00 0.00 3.41
2144 2229 2.094545 TCTGACATGTCGATCACCACAG 60.095 50.000 20.54 9.81 0.00 3.66
2149 2240 2.926200 CAGGTTCTGACATGTCGATCAC 59.074 50.000 20.54 14.78 33.10 3.06
2498 2599 3.376234 GCAGCAGGGCATATACATACATG 59.624 47.826 0.00 0.00 0.00 3.21
2499 2600 3.265221 AGCAGCAGGGCATATACATACAT 59.735 43.478 0.00 0.00 35.83 2.29
2500 2601 2.639347 AGCAGCAGGGCATATACATACA 59.361 45.455 0.00 0.00 35.83 2.29
2501 2602 3.340814 AGCAGCAGGGCATATACATAC 57.659 47.619 0.00 0.00 35.83 2.39
2560 2664 6.319658 TCTTGATCTCCATGTGAAATTAAGCC 59.680 38.462 0.00 0.00 0.00 4.35
2561 2665 7.192232 GTCTTGATCTCCATGTGAAATTAAGC 58.808 38.462 0.00 0.00 0.00 3.09
2746 2861 2.557490 GGTGGTCTACGGATCTGGATAC 59.443 54.545 6.47 0.00 0.00 2.24
2747 2862 2.445905 AGGTGGTCTACGGATCTGGATA 59.554 50.000 6.47 0.00 0.00 2.59
2774 2889 3.575630 CTCGCTTTAGTGCTTGTAGTCA 58.424 45.455 0.00 0.00 0.00 3.41
2788 2903 1.510480 GCACACCTTCAGCTCGCTTT 61.510 55.000 0.00 0.00 0.00 3.51
2797 2912 2.280797 GACAGCGGCACACCTTCA 60.281 61.111 1.45 0.00 0.00 3.02
2829 2944 1.768684 AAGGTTTGCTCAGCTCCGGA 61.769 55.000 2.93 2.93 0.00 5.14
2837 2952 5.069914 TGTCTACTACAAGAAGGTTTGCTCA 59.930 40.000 0.00 0.00 34.29 4.26
2839 2954 5.070580 ACTGTCTACTACAAGAAGGTTTGCT 59.929 40.000 0.00 0.00 37.74 3.91
2849 2964 5.444877 CGACTTCTCGACTGTCTACTACAAG 60.445 48.000 6.21 2.59 43.06 3.16
2888 3003 3.007074 TGTTCTGGTGCGTTGGTTCTATA 59.993 43.478 0.00 0.00 0.00 1.31
2933 3048 7.623677 TCTTCAGATTGGGTCCTTCTTATCTAA 59.376 37.037 0.00 0.00 0.00 2.10
2939 3054 3.652869 TGTCTTCAGATTGGGTCCTTCTT 59.347 43.478 0.00 0.00 0.00 2.52
2947 3062 4.136796 TGTTCTTGTGTCTTCAGATTGGG 58.863 43.478 0.00 0.00 0.00 4.12
2978 3093 5.221362 TGGATTTGCTCGGATCTATTCGTTA 60.221 40.000 0.00 0.00 0.00 3.18
2979 3094 4.058817 GGATTTGCTCGGATCTATTCGTT 58.941 43.478 0.00 0.00 0.00 3.85
3018 3133 0.391661 ATGTGGATGTGTGTCTCCGC 60.392 55.000 0.00 0.00 41.47 5.54
3030 3145 1.111277 TCGTCGATGGACATGTGGAT 58.889 50.000 1.15 0.00 43.61 3.41
3039 3154 3.911698 CCCCGCATCGTCGATGGA 61.912 66.667 30.80 0.00 40.10 3.41
3100 3244 5.047872 TGTTACGGTTTATGTACTGCTCAGA 60.048 40.000 3.60 0.00 0.00 3.27
3109 3253 8.206325 TGTTGAGTTTTGTTACGGTTTATGTA 57.794 30.769 0.00 0.00 0.00 2.29
3133 3277 4.022329 AGGGCTCCGTTTTTACATCTTTTG 60.022 41.667 0.00 0.00 0.00 2.44
3244 3388 4.470602 CCAAAAAGTTAGGGTTCCTCTGT 58.529 43.478 0.00 0.00 34.61 3.41
3250 3395 3.162666 CCTCCCCAAAAAGTTAGGGTTC 58.837 50.000 7.08 0.00 41.16 3.62
3252 3397 1.203137 GCCTCCCCAAAAAGTTAGGGT 60.203 52.381 7.08 0.00 41.16 4.34
3255 3400 1.810755 GTCGCCTCCCCAAAAAGTTAG 59.189 52.381 0.00 0.00 0.00 2.34
3256 3401 1.143277 TGTCGCCTCCCCAAAAAGTTA 59.857 47.619 0.00 0.00 0.00 2.24
3257 3402 0.106419 TGTCGCCTCCCCAAAAAGTT 60.106 50.000 0.00 0.00 0.00 2.66
3258 3403 0.537371 CTGTCGCCTCCCCAAAAAGT 60.537 55.000 0.00 0.00 0.00 2.66
3259 3404 1.866853 GCTGTCGCCTCCCCAAAAAG 61.867 60.000 0.00 0.00 0.00 2.27
3260 3405 1.901464 GCTGTCGCCTCCCCAAAAA 60.901 57.895 0.00 0.00 0.00 1.94
3314 3461 0.613260 TCAAGTGATCAACCCCTCGG 59.387 55.000 0.00 0.00 0.00 4.63
3315 3462 2.698855 ATCAAGTGATCAACCCCTCG 57.301 50.000 0.00 0.00 0.00 4.63
3325 3472 5.045286 AGTTTTCTAGGCAGGATCAAGTGAT 60.045 40.000 0.00 0.00 37.51 3.06
3326 3473 4.287067 AGTTTTCTAGGCAGGATCAAGTGA 59.713 41.667 0.00 0.00 0.00 3.41
3327 3474 4.583871 AGTTTTCTAGGCAGGATCAAGTG 58.416 43.478 0.00 0.00 0.00 3.16
3328 3475 4.917906 AGTTTTCTAGGCAGGATCAAGT 57.082 40.909 0.00 0.00 0.00 3.16
3329 3476 6.261826 CCAATAGTTTTCTAGGCAGGATCAAG 59.738 42.308 0.00 0.00 35.72 3.02
3330 3477 6.069673 TCCAATAGTTTTCTAGGCAGGATCAA 60.070 38.462 0.00 0.00 35.72 2.57
3331 3478 5.428457 TCCAATAGTTTTCTAGGCAGGATCA 59.572 40.000 0.00 0.00 35.72 2.92
3332 3479 5.930135 TCCAATAGTTTTCTAGGCAGGATC 58.070 41.667 0.00 0.00 35.72 3.36
3333 3480 5.975988 TCCAATAGTTTTCTAGGCAGGAT 57.024 39.130 0.00 0.00 35.72 3.24
3334 3481 5.772393 TTCCAATAGTTTTCTAGGCAGGA 57.228 39.130 0.00 0.00 35.72 3.86
3335 3482 6.603201 TCAATTCCAATAGTTTTCTAGGCAGG 59.397 38.462 0.00 0.00 35.72 4.85
3336 3483 7.630242 TCAATTCCAATAGTTTTCTAGGCAG 57.370 36.000 0.00 0.00 35.72 4.85
3337 3484 7.615365 ACATCAATTCCAATAGTTTTCTAGGCA 59.385 33.333 0.00 0.00 35.72 4.75
3338 3485 8.000780 ACATCAATTCCAATAGTTTTCTAGGC 57.999 34.615 0.00 0.00 35.72 3.93
3339 3486 8.338259 CGACATCAATTCCAATAGTTTTCTAGG 58.662 37.037 0.00 0.00 35.72 3.02
3340 3487 9.098355 TCGACATCAATTCCAATAGTTTTCTAG 57.902 33.333 0.00 0.00 35.72 2.43
3341 3488 9.443323 TTCGACATCAATTCCAATAGTTTTCTA 57.557 29.630 0.00 0.00 36.78 2.10
3342 3489 7.921786 TCGACATCAATTCCAATAGTTTTCT 57.078 32.000 0.00 0.00 0.00 2.52
3381 3528 0.186386 TCTAGCTGTAGCCCTCTCCC 59.814 60.000 0.00 0.00 43.38 4.30
3382 3529 1.133606 AGTCTAGCTGTAGCCCTCTCC 60.134 57.143 0.00 0.00 43.38 3.71
3383 3530 2.358322 AGTCTAGCTGTAGCCCTCTC 57.642 55.000 0.00 0.00 43.38 3.20
3384 3531 2.661718 GAAGTCTAGCTGTAGCCCTCT 58.338 52.381 0.00 0.00 43.38 3.69
3385 3532 1.335496 CGAAGTCTAGCTGTAGCCCTC 59.665 57.143 0.00 0.00 43.38 4.30
3393 3540 4.864633 TCTGCATATTCGAAGTCTAGCTG 58.135 43.478 3.35 7.53 0.00 4.24


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

AutoCloner maintained by Alex Coulton.