Multiple sequence alignment - TraesCS4D01G307300

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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 TraesCS4D01G307300 chr4D 100.000 3968 0 0 1 3968 475116324 475120291 0.000000e+00 7328.0
1 TraesCS4D01G307300 chr4D 91.216 148 13 0 1254 1401 475117697 475117844 6.720000e-48 202.0
2 TraesCS4D01G307300 chr4D 86.842 114 13 2 315 426 26204838 26204951 4.160000e-25 126.0
3 TraesCS4D01G307300 chr4A 94.465 2656 102 16 1307 3945 681897122 681899749 0.000000e+00 4048.0
4 TraesCS4D01G307300 chr4A 92.947 638 42 1 828 1462 681896702 681897339 0.000000e+00 926.0
5 TraesCS4D01G307300 chr4A 95.522 201 8 1 579 778 681896492 681896692 1.780000e-83 320.0
6 TraesCS4D01G307300 chr4A 95.238 42 2 0 492 533 715904398 715904357 2.560000e-07 67.6
7 TraesCS4D01G307300 chr4A 97.368 38 1 0 3931 3968 97185149 97185112 9.200000e-07 65.8
8 TraesCS4D01G307300 chr4B 93.627 2699 118 24 1249 3933 599811695 599814353 0.000000e+00 3982.0
9 TraesCS4D01G307300 chr4B 92.722 948 54 9 579 1522 599810968 599811904 0.000000e+00 1354.0
10 TraesCS4D01G307300 chr4B 93.103 232 13 2 1261 1492 599811736 599811964 1.770000e-88 337.0
11 TraesCS4D01G307300 chr4B 88.983 236 23 1 1286 1521 599811641 599811873 5.020000e-74 289.0
12 TraesCS4D01G307300 chr4B 83.180 327 37 4 1 320 599810609 599810924 2.330000e-72 283.0
13 TraesCS4D01G307300 chr4B 89.908 218 17 4 1310 1525 599811634 599811848 3.910000e-70 276.0
14 TraesCS4D01G307300 chr4B 89.604 202 18 2 1261 1462 599811766 599811964 1.830000e-63 254.0
15 TraesCS4D01G307300 chr4B 85.876 177 22 2 1338 1514 599811636 599811809 6.770000e-43 185.0
16 TraesCS4D01G307300 chr4B 92.857 84 6 0 1256 1339 599811878 599811961 5.380000e-24 122.0
17 TraesCS4D01G307300 chr5A 90.000 110 10 1 318 426 120780726 120780835 1.490000e-29 141.0
18 TraesCS4D01G307300 chr5A 90.291 103 9 1 324 426 439553883 439553984 2.490000e-27 134.0
19 TraesCS4D01G307300 chr5A 100.000 35 0 0 3934 3968 331394507 331394473 9.200000e-07 65.8
20 TraesCS4D01G307300 chr3D 91.262 103 8 1 324 426 339259787 339259888 5.350000e-29 139.0
21 TraesCS4D01G307300 chr3D 89.583 48 1 4 3922 3968 438431046 438431002 1.540000e-04 58.4
22 TraesCS4D01G307300 chr3D 89.583 48 1 4 3922 3968 462197528 462197484 1.540000e-04 58.4
23 TraesCS4D01G307300 chr2A 88.785 107 12 0 320 426 504326617 504326723 8.950000e-27 132.0
24 TraesCS4D01G307300 chr6D 89.320 103 11 0 324 426 436311180 436311078 3.220000e-26 130.0
25 TraesCS4D01G307300 chr6D 97.143 35 1 0 486 520 27819312 27819346 4.280000e-05 60.2
26 TraesCS4D01G307300 chr6D 84.746 59 5 3 3911 3968 402348086 402348141 5.540000e-04 56.5
27 TraesCS4D01G307300 chr5D 89.320 103 11 0 324 426 230416992 230416890 3.220000e-26 130.0
28 TraesCS4D01G307300 chr1D 89.320 103 11 0 324 426 242825936 242825834 3.220000e-26 130.0
29 TraesCS4D01G307300 chr5B 87.850 107 13 0 320 426 576799917 576799811 4.160000e-25 126.0
30 TraesCS4D01G307300 chr5B 92.683 41 3 0 493 533 676011162 676011122 4.280000e-05 60.2
31 TraesCS4D01G307300 chr5B 89.583 48 1 4 3924 3968 38177331 38177377 1.540000e-04 58.4
32 TraesCS4D01G307300 chrUn 100.000 34 0 0 3935 3968 317648640 317648607 3.310000e-06 63.9
33 TraesCS4D01G307300 chrUn 100.000 30 0 0 493 522 37063083 37063112 5.540000e-04 56.5
34 TraesCS4D01G307300 chr7D 91.304 46 3 1 493 538 257517535 257517491 1.190000e-05 62.1
35 TraesCS4D01G307300 chr7D 89.583 48 1 4 3922 3968 292152629 292152673 1.540000e-04 58.4
36 TraesCS4D01G307300 chr7D 92.308 39 3 0 493 531 104888829 104888867 5.540000e-04 56.5
37 TraesCS4D01G307300 chr1A 92.683 41 3 0 3928 3968 12578155 12578115 4.280000e-05 60.2
38 TraesCS4D01G307300 chr7B 100.000 31 0 0 492 522 33530243 33530273 1.540000e-04 58.4
39 TraesCS4D01G307300 chr7B 92.308 39 3 0 493 531 615290631 615290669 5.540000e-04 56.5
40 TraesCS4D01G307300 chr2D 92.308 39 3 0 493 531 91105092 91105054 5.540000e-04 56.5


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 TraesCS4D01G307300 chr4D 475116324 475120291 3967 False 3765.000000 7328 95.608000 1 3968 2 chr4D.!!$F2 3967
1 TraesCS4D01G307300 chr4A 681896492 681899749 3257 False 1764.666667 4048 94.311333 579 3945 3 chr4A.!!$F1 3366
2 TraesCS4D01G307300 chr4B 599810609 599814353 3744 False 786.888889 3982 89.984444 1 3933 9 chr4B.!!$F1 3932

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
111 113 0.106015 AGCCAGAAACCACTTTGCCT 60.106 50.000 0.00 0.0 0.00 4.75 F
131 133 0.179250 CTTGTTCGCGTGATGGAACG 60.179 55.000 5.77 0.0 44.18 3.95 F
141 143 0.242825 TGATGGAACGACGAGGTGAC 59.757 55.000 0.00 0.0 0.00 3.67 F
283 285 0.620556 GAGGGACATGGGCAAAGAGA 59.379 55.000 0.00 0.0 0.00 3.10 F
712 722 0.815095 CACCCCCAAAATAAGACGGC 59.185 55.000 0.00 0.0 0.00 5.68 F
840 850 1.841277 ACCAAAACCAAAACCTTCCCC 59.159 47.619 0.00 0.0 0.00 4.81 F
2058 2199 2.158475 AGAATCTGACTGGGGCAACAAA 60.158 45.455 0.00 0.0 39.74 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1654 1795 0.615331 ATGTTGGTCCAGACGCTGAT 59.385 50.000 8.20 0.00 32.44 2.90 R
1923 2064 3.010472 TCAACCAATCCACCAGATCATGT 59.990 43.478 0.00 0.00 32.47 3.21 R
2058 2199 3.058160 GCCGGCATGAACAGCAGT 61.058 61.111 24.80 0.00 0.00 4.40 R
2214 2355 1.216064 ATGAGAACAGCCATGGCCTA 58.784 50.000 33.14 11.88 43.17 3.93 R
2616 2757 1.205655 TCTTCCCTCATCTGCTTGACG 59.794 52.381 0.00 0.00 0.00 4.35 R
2811 2952 5.352284 CGCTGTCCTTCTAACAGTTCATAT 58.648 41.667 5.29 0.00 44.79 1.78 R
3025 3169 0.107897 TACCGCGGATTTGCATCAGT 60.108 50.000 35.90 6.98 34.15 3.41 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
39 41 4.473520 CTGGAGCGGCCCGACAAT 62.474 66.667 7.68 0.00 34.97 2.71
46 48 3.407967 GGCCCGACAATCCCTCCA 61.408 66.667 0.00 0.00 0.00 3.86
47 49 2.124695 GCCCGACAATCCCTCCAC 60.125 66.667 0.00 0.00 0.00 4.02
50 52 2.511600 CGACAATCCCTCCACGCC 60.512 66.667 0.00 0.00 0.00 5.68
54 56 4.115199 AATCCCTCCACGCCTGCC 62.115 66.667 0.00 0.00 0.00 4.85
81 83 2.027625 GGACTTGTCTGAACCCGCG 61.028 63.158 0.00 0.00 0.00 6.46
82 84 1.006571 GACTTGTCTGAACCCGCGA 60.007 57.895 8.23 0.00 0.00 5.87
91 93 4.572571 AACCCGCGAACAAGCCCA 62.573 61.111 8.23 0.00 0.00 5.36
106 108 1.115326 GCCCAAGCCAGAAACCACTT 61.115 55.000 0.00 0.00 0.00 3.16
107 109 1.413118 CCCAAGCCAGAAACCACTTT 58.587 50.000 0.00 0.00 0.00 2.66
108 110 1.069049 CCCAAGCCAGAAACCACTTTG 59.931 52.381 0.00 0.00 0.00 2.77
110 112 0.752658 AAGCCAGAAACCACTTTGCC 59.247 50.000 0.00 0.00 0.00 4.52
111 113 0.106015 AGCCAGAAACCACTTTGCCT 60.106 50.000 0.00 0.00 0.00 4.75
112 114 0.315251 GCCAGAAACCACTTTGCCTC 59.685 55.000 0.00 0.00 0.00 4.70
114 116 2.310538 CCAGAAACCACTTTGCCTCTT 58.689 47.619 0.00 0.00 0.00 2.85
116 118 2.689983 CAGAAACCACTTTGCCTCTTGT 59.310 45.455 0.00 0.00 0.00 3.16
124 126 0.812014 TTTGCCTCTTGTTCGCGTGA 60.812 50.000 5.77 0.00 0.00 4.35
131 133 0.179250 CTTGTTCGCGTGATGGAACG 60.179 55.000 5.77 0.00 44.18 3.95
134 136 2.084101 TTCGCGTGATGGAACGACG 61.084 57.895 5.77 0.00 46.49 5.12
141 143 0.242825 TGATGGAACGACGAGGTGAC 59.757 55.000 0.00 0.00 0.00 3.67
146 148 1.067776 GGAACGACGAGGTGACTGATT 60.068 52.381 0.00 0.00 44.43 2.57
155 157 0.623723 GGTGACTGATTGGGGGCTAA 59.376 55.000 0.00 0.00 0.00 3.09
157 159 1.004277 GTGACTGATTGGGGGCTAACA 59.996 52.381 0.00 0.00 0.00 2.41
159 161 1.282157 GACTGATTGGGGGCTAACAGT 59.718 52.381 0.00 0.00 40.49 3.55
191 193 3.702623 GGAGGGGTAGGGGGTGGA 61.703 72.222 0.00 0.00 0.00 4.02
192 194 2.040779 GAGGGGTAGGGGGTGGAG 60.041 72.222 0.00 0.00 0.00 3.86
193 195 3.707189 AGGGGTAGGGGGTGGAGG 61.707 72.222 0.00 0.00 0.00 4.30
194 196 3.702623 GGGGTAGGGGGTGGAGGA 61.703 72.222 0.00 0.00 0.00 3.71
195 197 2.040779 GGGTAGGGGGTGGAGGAG 60.041 72.222 0.00 0.00 0.00 3.69
196 198 2.040779 GGTAGGGGGTGGAGGAGG 60.041 72.222 0.00 0.00 0.00 4.30
197 199 2.040779 GTAGGGGGTGGAGGAGGG 60.041 72.222 0.00 0.00 0.00 4.30
198 200 2.542541 TAGGGGGTGGAGGAGGGT 60.543 66.667 0.00 0.00 0.00 4.34
199 201 2.955859 TAGGGGGTGGAGGAGGGTG 61.956 68.421 0.00 0.00 0.00 4.61
224 226 4.711949 CGGCTGGAGTGGCAAGCT 62.712 66.667 8.64 0.00 37.12 3.74
270 272 4.131088 GGACGCACGAGGAGGGAC 62.131 72.222 0.00 0.00 0.00 4.46
271 273 3.371063 GACGCACGAGGAGGGACA 61.371 66.667 0.00 0.00 0.00 4.02
283 285 0.620556 GAGGGACATGGGCAAAGAGA 59.379 55.000 0.00 0.00 0.00 3.10
308 316 4.067896 AGTGTGATGAAACGAGCTTTGAT 58.932 39.130 0.00 0.00 0.00 2.57
309 317 4.083643 AGTGTGATGAAACGAGCTTTGATG 60.084 41.667 0.00 0.00 0.00 3.07
333 341 5.088739 GCACAATTTTCATTACTCACTCCG 58.911 41.667 0.00 0.00 0.00 4.63
334 342 5.334879 GCACAATTTTCATTACTCACTCCGT 60.335 40.000 0.00 0.00 0.00 4.69
335 343 6.668323 CACAATTTTCATTACTCACTCCGTT 58.332 36.000 0.00 0.00 0.00 4.44
336 344 7.138736 CACAATTTTCATTACTCACTCCGTTT 58.861 34.615 0.00 0.00 0.00 3.60
337 345 7.323656 CACAATTTTCATTACTCACTCCGTTTC 59.676 37.037 0.00 0.00 0.00 2.78
338 346 7.228706 ACAATTTTCATTACTCACTCCGTTTCT 59.771 33.333 0.00 0.00 0.00 2.52
339 347 8.717821 CAATTTTCATTACTCACTCCGTTTCTA 58.282 33.333 0.00 0.00 0.00 2.10
340 348 8.842358 ATTTTCATTACTCACTCCGTTTCTAA 57.158 30.769 0.00 0.00 0.00 2.10
341 349 8.665643 TTTTCATTACTCACTCCGTTTCTAAA 57.334 30.769 0.00 0.00 0.00 1.85
342 350 8.842358 TTTCATTACTCACTCCGTTTCTAAAT 57.158 30.769 0.00 0.00 0.00 1.40
343 351 9.932207 TTTCATTACTCACTCCGTTTCTAAATA 57.068 29.630 0.00 0.00 0.00 1.40
350 358 8.746530 ACTCACTCCGTTTCTAAATATAAGTCA 58.253 33.333 0.00 0.00 0.00 3.41
351 359 9.751542 CTCACTCCGTTTCTAAATATAAGTCAT 57.248 33.333 0.00 0.00 0.00 3.06
425 433 4.718961 AGTGTAGGTTCACTCATTTTGCT 58.281 39.130 0.00 0.00 44.07 3.91
426 434 5.865085 AGTGTAGGTTCACTCATTTTGCTA 58.135 37.500 0.00 0.00 44.07 3.49
427 435 5.934625 AGTGTAGGTTCACTCATTTTGCTAG 59.065 40.000 0.00 0.00 44.07 3.42
428 436 5.701290 GTGTAGGTTCACTCATTTTGCTAGT 59.299 40.000 0.00 0.00 35.68 2.57
429 437 6.204882 GTGTAGGTTCACTCATTTTGCTAGTT 59.795 38.462 0.00 0.00 35.68 2.24
430 438 5.948992 AGGTTCACTCATTTTGCTAGTTC 57.051 39.130 0.00 0.00 0.00 3.01
431 439 5.376625 AGGTTCACTCATTTTGCTAGTTCA 58.623 37.500 0.00 0.00 0.00 3.18
432 440 6.006449 AGGTTCACTCATTTTGCTAGTTCAT 58.994 36.000 0.00 0.00 0.00 2.57
433 441 7.168219 AGGTTCACTCATTTTGCTAGTTCATA 58.832 34.615 0.00 0.00 0.00 2.15
434 442 7.119846 AGGTTCACTCATTTTGCTAGTTCATAC 59.880 37.037 0.00 0.00 0.00 2.39
435 443 7.119846 GGTTCACTCATTTTGCTAGTTCATACT 59.880 37.037 0.00 0.00 38.44 2.12
436 444 7.834068 TCACTCATTTTGCTAGTTCATACTC 57.166 36.000 0.00 0.00 35.78 2.59
437 445 6.818644 TCACTCATTTTGCTAGTTCATACTCC 59.181 38.462 0.00 0.00 35.78 3.85
438 446 6.820656 CACTCATTTTGCTAGTTCATACTCCT 59.179 38.462 0.00 0.00 35.78 3.69
439 447 6.820656 ACTCATTTTGCTAGTTCATACTCCTG 59.179 38.462 0.00 0.00 35.78 3.86
440 448 6.946340 TCATTTTGCTAGTTCATACTCCTGA 58.054 36.000 0.00 0.00 35.78 3.86
441 449 6.818644 TCATTTTGCTAGTTCATACTCCTGAC 59.181 38.462 0.00 0.00 35.78 3.51
442 450 6.360370 TTTTGCTAGTTCATACTCCTGACT 57.640 37.500 0.00 0.00 35.78 3.41
443 451 6.360370 TTTGCTAGTTCATACTCCTGACTT 57.640 37.500 0.00 0.00 35.78 3.01
444 452 7.476540 TTTGCTAGTTCATACTCCTGACTTA 57.523 36.000 0.00 0.00 35.78 2.24
445 453 7.661536 TTGCTAGTTCATACTCCTGACTTAT 57.338 36.000 0.00 0.00 35.78 1.73
446 454 8.762481 TTGCTAGTTCATACTCCTGACTTATA 57.238 34.615 0.00 0.00 35.78 0.98
447 455 8.941995 TGCTAGTTCATACTCCTGACTTATAT 57.058 34.615 0.00 0.00 35.78 0.86
448 456 9.368416 TGCTAGTTCATACTCCTGACTTATATT 57.632 33.333 0.00 0.00 35.78 1.28
460 468 9.646427 CTCCTGACTTATATTTAGGAACATAGC 57.354 37.037 0.00 0.00 37.12 2.97
461 469 8.304596 TCCTGACTTATATTTAGGAACATAGCG 58.695 37.037 0.00 0.00 34.77 4.26
462 470 8.304596 CCTGACTTATATTTAGGAACATAGCGA 58.695 37.037 0.00 0.00 0.00 4.93
463 471 9.347934 CTGACTTATATTTAGGAACATAGCGAG 57.652 37.037 0.00 0.00 0.00 5.03
464 472 8.857098 TGACTTATATTTAGGAACATAGCGAGT 58.143 33.333 0.00 0.00 0.00 4.18
474 482 9.524496 TTAGGAACATAGCGAGTATATTTAGGA 57.476 33.333 0.00 0.00 0.00 2.94
475 483 8.418597 AGGAACATAGCGAGTATATTTAGGAA 57.581 34.615 0.00 0.00 0.00 3.36
476 484 8.305317 AGGAACATAGCGAGTATATTTAGGAAC 58.695 37.037 0.00 0.00 0.00 3.62
477 485 8.086522 GGAACATAGCGAGTATATTTAGGAACA 58.913 37.037 0.00 0.00 0.00 3.18
478 486 9.640963 GAACATAGCGAGTATATTTAGGAACAT 57.359 33.333 0.00 0.00 0.00 2.71
481 489 9.239002 CATAGCGAGTATATTTAGGAACATAGC 57.761 37.037 0.00 0.00 0.00 2.97
482 490 6.323266 AGCGAGTATATTTAGGAACATAGCG 58.677 40.000 0.00 0.00 0.00 4.26
483 491 6.150641 AGCGAGTATATTTAGGAACATAGCGA 59.849 38.462 0.00 0.00 0.00 4.93
484 492 6.469595 GCGAGTATATTTAGGAACATAGCGAG 59.530 42.308 0.00 0.00 0.00 5.03
485 493 7.528307 CGAGTATATTTAGGAACATAGCGAGT 58.472 38.462 0.00 0.00 0.00 4.18
486 494 8.663025 CGAGTATATTTAGGAACATAGCGAGTA 58.337 37.037 0.00 0.00 0.00 2.59
537 545 8.867112 TTTAGAAACATAGCGAGTATACAAGG 57.133 34.615 5.50 0.00 0.00 3.61
538 546 5.844004 AGAAACATAGCGAGTATACAAGGG 58.156 41.667 5.50 0.00 0.00 3.95
539 547 5.597182 AGAAACATAGCGAGTATACAAGGGA 59.403 40.000 5.50 0.00 0.00 4.20
540 548 5.864418 AACATAGCGAGTATACAAGGGAA 57.136 39.130 5.50 0.00 0.00 3.97
577 585 9.629878 AGATAACCCTGATTATAGTATACCTCG 57.370 37.037 0.00 0.00 0.00 4.63
590 598 1.649271 TACCTCGGTACCTCCCTCCC 61.649 65.000 10.90 0.00 0.00 4.30
712 722 0.815095 CACCCCCAAAATAAGACGGC 59.185 55.000 0.00 0.00 0.00 5.68
771 781 2.906897 CCGCCATTCCCATTCCCG 60.907 66.667 0.00 0.00 0.00 5.14
840 850 1.841277 ACCAAAACCAAAACCTTCCCC 59.159 47.619 0.00 0.00 0.00 4.81
1089 1113 4.140599 CGCCTCTGCTTCCTCGCT 62.141 66.667 0.00 0.00 34.43 4.93
1146 1170 2.636412 CCACTTCTCCGTCCTCGCA 61.636 63.158 0.00 0.00 35.54 5.10
1372 1483 4.722535 AGAAGGAGGAGGCGCCCA 62.723 66.667 26.15 0.00 37.37 5.36
1427 1568 4.821589 CGTCGGCAAGGAGGAGGC 62.822 72.222 0.00 0.00 0.00 4.70
1455 1596 4.821589 GTCGCCGGCAAGGAGGAG 62.822 72.222 28.98 7.38 45.00 3.69
1459 1600 4.168291 CCGGCAAGGAGGAGGCTC 62.168 72.222 5.78 5.78 45.00 4.70
1460 1601 4.168291 CGGCAAGGAGGAGGCTCC 62.168 72.222 26.42 26.42 43.65 4.70
1461 1602 3.803162 GGCAAGGAGGAGGCTCCC 61.803 72.222 29.62 20.00 44.37 4.30
1462 1603 4.168291 GCAAGGAGGAGGCTCCCG 62.168 72.222 29.62 14.08 44.37 5.14
1463 1604 4.168291 CAAGGAGGAGGCTCCCGC 62.168 72.222 29.62 21.12 44.37 6.13
1517 1658 2.756283 CGCCGAGAAGGAGGAGGT 60.756 66.667 0.00 0.00 45.00 3.85
1878 2019 2.582498 GCCGGGTTCGATGTCTCG 60.582 66.667 2.18 0.00 46.41 4.04
2058 2199 2.158475 AGAATCTGACTGGGGCAACAAA 60.158 45.455 0.00 0.00 39.74 2.83
2139 2280 3.430098 GGAATGCCAATGATTTTGCGGTA 60.430 43.478 0.00 0.00 0.00 4.02
2214 2355 4.144825 AGATAGAATGAGGAGCCTGGAT 57.855 45.455 0.00 0.00 0.00 3.41
2538 2679 6.963796 TCCGAAGAATTATACGAGTTACTCC 58.036 40.000 6.80 0.00 0.00 3.85
2599 2740 6.375736 TGTCAGTGTTGAGGAGATACTAAGAG 59.624 42.308 0.00 0.00 32.98 2.85
2614 2755 5.144159 ACTAAGAGGTATCCATCCAGACA 57.856 43.478 0.00 0.00 0.00 3.41
2616 2757 5.777732 ACTAAGAGGTATCCATCCAGACATC 59.222 44.000 0.00 0.00 0.00 3.06
2886 3030 2.034066 TCGAAGCCCAAGCCCAAG 59.966 61.111 0.00 0.00 41.25 3.61
3025 3169 1.032794 CTATCCTAGCTGACGGTGCA 58.967 55.000 0.00 0.00 0.00 4.57
3066 3210 7.501844 GGTAAAGAATCCTTAGATGCTGTAGT 58.498 38.462 0.00 0.00 37.41 2.73
3072 3216 3.133003 TCCTTAGATGCTGTAGTCTTGGC 59.867 47.826 0.00 0.00 0.00 4.52
3086 3230 4.122776 AGTCTTGGCGATCATGTATGTTC 58.877 43.478 0.00 0.00 0.00 3.18
3098 3242 7.172019 CGATCATGTATGTTCTTGATGATCCAA 59.828 37.037 0.00 0.00 43.26 3.53
3104 3248 3.849574 TGTTCTTGATGATCCAACCCCTA 59.150 43.478 0.00 0.00 0.00 3.53
3109 3253 1.771255 GATGATCCAACCCCTACAGCT 59.229 52.381 0.00 0.00 0.00 4.24
3120 3264 2.093447 CCCCTACAGCTGGTGTAAGAAG 60.093 54.545 19.93 10.18 41.28 2.85
3123 3267 2.550830 ACAGCTGGTGTAAGAAGTGG 57.449 50.000 19.93 0.00 37.75 4.00
3125 3269 2.146342 CAGCTGGTGTAAGAAGTGGTG 58.854 52.381 5.57 0.00 0.00 4.17
3152 3296 7.039784 CCACCAAAAGTCCTTGAGAAAATATGA 60.040 37.037 0.00 0.00 0.00 2.15
3288 3433 4.799564 TTTTGTTGCTGTCCTGTTTTCT 57.200 36.364 0.00 0.00 0.00 2.52
3543 3689 2.856222 CAAACCAAGGAAGAGCTCTGT 58.144 47.619 19.06 6.66 0.00 3.41
3546 3692 2.264455 ACCAAGGAAGAGCTCTGTCAT 58.736 47.619 19.06 11.71 0.00 3.06
3547 3693 2.641815 ACCAAGGAAGAGCTCTGTCATT 59.358 45.455 19.06 16.70 0.00 2.57
3548 3694 3.008330 CCAAGGAAGAGCTCTGTCATTG 58.992 50.000 27.69 27.69 0.00 2.82
3602 3756 2.295885 GATTTCATCAGGCTGTGGGAG 58.704 52.381 15.27 1.52 0.00 4.30
3624 3781 4.410228 AGTCAGAGCTAGGCCATTATTGAA 59.590 41.667 5.01 0.00 0.00 2.69
3625 3782 4.754114 GTCAGAGCTAGGCCATTATTGAAG 59.246 45.833 5.01 0.00 0.00 3.02
3627 3784 3.073650 AGAGCTAGGCCATTATTGAAGGG 59.926 47.826 5.01 0.00 39.63 3.95
3628 3785 2.785857 AGCTAGGCCATTATTGAAGGGT 59.214 45.455 5.01 0.00 38.82 4.34
3629 3786 3.205282 AGCTAGGCCATTATTGAAGGGTT 59.795 43.478 5.01 0.00 38.82 4.11
3630 3787 3.960755 GCTAGGCCATTATTGAAGGGTTT 59.039 43.478 5.01 0.00 38.82 3.27
3645 3802 3.771216 AGGGTTTGTGAGCTGATTTCAT 58.229 40.909 0.00 0.00 0.00 2.57
3697 3854 2.259818 CAGTCGGCAGCGTCTTCT 59.740 61.111 0.00 0.00 0.00 2.85
3701 3858 0.944311 GTCGGCAGCGTCTTCTTGAA 60.944 55.000 0.00 0.00 0.00 2.69
3742 3899 6.005066 ACATGTGGTGGATTGATGATTCTA 57.995 37.500 0.00 0.00 0.00 2.10
3816 3976 0.327259 ATGCTTGCTCTCTGAAGCCA 59.673 50.000 0.00 2.42 43.34 4.75
3818 3978 1.304509 GCTTGCTCTCTGAAGCCACC 61.305 60.000 0.00 0.00 41.77 4.61
3828 3988 1.905354 GAAGCCACCCTTTGCTGCT 60.905 57.895 0.00 0.00 38.00 4.24
3829 3989 0.609131 GAAGCCACCCTTTGCTGCTA 60.609 55.000 0.00 0.00 38.00 3.49
3830 3990 0.895559 AAGCCACCCTTTGCTGCTAC 60.896 55.000 0.00 0.00 38.00 3.58
3831 3991 1.603455 GCCACCCTTTGCTGCTACA 60.603 57.895 0.00 0.00 0.00 2.74
3832 3992 1.589716 GCCACCCTTTGCTGCTACAG 61.590 60.000 0.00 0.00 34.12 2.74
3833 3993 0.250901 CCACCCTTTGCTGCTACAGT 60.251 55.000 0.00 0.00 33.43 3.55
3834 3994 1.003118 CCACCCTTTGCTGCTACAGTA 59.997 52.381 0.00 0.00 33.43 2.74
3835 3995 2.350522 CACCCTTTGCTGCTACAGTAG 58.649 52.381 2.85 2.85 33.43 2.57
3891 4051 1.535462 TGCGCCTTTTAGTCTGAAAGC 59.465 47.619 4.18 6.55 33.75 3.51
3893 4053 1.468914 CGCCTTTTAGTCTGAAAGCCC 59.531 52.381 10.83 4.44 33.75 5.19
3945 4106 5.955488 TGTCTCTTGTTCTGCATAGTACTC 58.045 41.667 0.00 0.00 0.00 2.59
3946 4107 5.105716 TGTCTCTTGTTCTGCATAGTACTCC 60.106 44.000 0.00 0.00 0.00 3.85
3947 4108 4.402793 TCTCTTGTTCTGCATAGTACTCCC 59.597 45.833 0.00 0.00 0.00 4.30
3948 4109 4.353777 TCTTGTTCTGCATAGTACTCCCT 58.646 43.478 0.00 0.00 0.00 4.20
3949 4110 4.402793 TCTTGTTCTGCATAGTACTCCCTC 59.597 45.833 0.00 0.00 0.00 4.30
3950 4111 3.031736 TGTTCTGCATAGTACTCCCTCC 58.968 50.000 0.00 0.00 0.00 4.30
3951 4112 1.982660 TCTGCATAGTACTCCCTCCG 58.017 55.000 0.00 0.00 0.00 4.63
3952 4113 1.214673 TCTGCATAGTACTCCCTCCGT 59.785 52.381 0.00 0.00 0.00 4.69
3953 4114 2.032620 CTGCATAGTACTCCCTCCGTT 58.967 52.381 0.00 0.00 0.00 4.44
3954 4115 2.029623 TGCATAGTACTCCCTCCGTTC 58.970 52.381 0.00 0.00 0.00 3.95
3955 4116 1.340568 GCATAGTACTCCCTCCGTTCC 59.659 57.143 0.00 0.00 0.00 3.62
3956 4117 2.662866 CATAGTACTCCCTCCGTTCCA 58.337 52.381 0.00 0.00 0.00 3.53
3957 4118 2.905415 TAGTACTCCCTCCGTTCCAA 57.095 50.000 0.00 0.00 0.00 3.53
3958 4119 2.019807 AGTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
3959 4120 2.332117 AGTACTCCCTCCGTTCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
3960 4121 2.910977 AGTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
3961 4122 4.098894 AGTACTCCCTCCGTTCCAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
3962 4123 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
3963 4124 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
3964 4125 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
3965 4126 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
3966 4127 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
3967 4128 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.766400 CGCTCCAGGAGGTCGAGTC 61.766 68.421 18.83 0.00 35.23 3.36
31 32 2.186903 CGTGGAGGGATTGTCGGG 59.813 66.667 0.00 0.00 0.00 5.14
37 39 4.115199 GGCAGGCGTGGAGGGATT 62.115 66.667 8.72 0.00 0.00 3.01
54 56 2.432628 GACAAGTCCGGAGTGCGG 60.433 66.667 18.22 18.22 0.00 5.69
60 62 1.812686 CGGGTTCAGACAAGTCCGGA 61.813 60.000 0.00 0.00 34.54 5.14
65 67 0.878961 GTTCGCGGGTTCAGACAAGT 60.879 55.000 6.13 0.00 0.00 3.16
81 83 1.039856 TTTCTGGCTTGGGCTTGTTC 58.960 50.000 0.00 0.00 38.73 3.18
82 84 0.752658 GTTTCTGGCTTGGGCTTGTT 59.247 50.000 0.00 0.00 38.73 2.83
91 93 0.752658 GGCAAAGTGGTTTCTGGCTT 59.247 50.000 0.00 0.00 0.00 4.35
106 108 0.602638 ATCACGCGAACAAGAGGCAA 60.603 50.000 15.93 0.00 0.00 4.52
107 109 1.005037 ATCACGCGAACAAGAGGCA 60.005 52.632 15.93 0.00 0.00 4.75
108 110 1.421485 CATCACGCGAACAAGAGGC 59.579 57.895 15.93 0.00 0.00 4.70
110 112 1.126846 GTTCCATCACGCGAACAAGAG 59.873 52.381 15.93 0.00 38.58 2.85
111 113 1.144969 GTTCCATCACGCGAACAAGA 58.855 50.000 15.93 0.09 38.58 3.02
112 114 0.179250 CGTTCCATCACGCGAACAAG 60.179 55.000 15.93 0.00 38.63 3.16
114 116 1.007154 TCGTTCCATCACGCGAACA 60.007 52.632 15.93 0.00 40.14 3.18
116 118 2.084101 CGTCGTTCCATCACGCGAA 61.084 57.895 15.93 0.00 40.04 4.70
124 126 0.243907 CAGTCACCTCGTCGTTCCAT 59.756 55.000 0.00 0.00 0.00 3.41
131 133 0.108138 CCCCAATCAGTCACCTCGTC 60.108 60.000 0.00 0.00 0.00 4.20
134 136 1.077429 GCCCCCAATCAGTCACCTC 60.077 63.158 0.00 0.00 0.00 3.85
141 143 1.281867 TGACTGTTAGCCCCCAATCAG 59.718 52.381 0.00 0.00 0.00 2.90
146 148 0.548926 TCCATGACTGTTAGCCCCCA 60.549 55.000 0.00 0.00 0.00 4.96
155 157 0.036952 CAGTTCGCCTCCATGACTGT 60.037 55.000 0.00 0.00 0.00 3.55
157 159 0.904865 TCCAGTTCGCCTCCATGACT 60.905 55.000 0.00 0.00 0.00 3.41
159 161 1.617018 CCTCCAGTTCGCCTCCATGA 61.617 60.000 0.00 0.00 0.00 3.07
246 248 2.579787 CTCGTGCGTCCATCCGAC 60.580 66.667 0.00 0.00 38.21 4.79
253 255 4.131088 GTCCCTCCTCGTGCGTCC 62.131 72.222 0.00 0.00 0.00 4.79
270 272 2.486982 CACACTTCTCTCTTTGCCCATG 59.513 50.000 0.00 0.00 0.00 3.66
271 273 2.373169 TCACACTTCTCTCTTTGCCCAT 59.627 45.455 0.00 0.00 0.00 4.00
283 285 3.393089 AGCTCGTTTCATCACACTTCT 57.607 42.857 0.00 0.00 0.00 2.85
308 316 5.048083 GGAGTGAGTAATGAAAATTGTGCCA 60.048 40.000 0.00 0.00 0.00 4.92
309 317 5.402398 GGAGTGAGTAATGAAAATTGTGCC 58.598 41.667 0.00 0.00 0.00 5.01
324 332 8.746530 TGACTTATATTTAGAAACGGAGTGAGT 58.253 33.333 0.00 0.00 45.00 3.41
390 398 9.036980 AGTGAACCTACACTCTAAAATATGTCT 57.963 33.333 0.00 0.00 46.36 3.41
404 412 5.701290 ACTAGCAAAATGAGTGAACCTACAC 59.299 40.000 0.00 0.00 40.60 2.90
405 413 5.865085 ACTAGCAAAATGAGTGAACCTACA 58.135 37.500 0.00 0.00 0.00 2.74
406 414 6.426937 TGAACTAGCAAAATGAGTGAACCTAC 59.573 38.462 0.00 0.00 0.00 3.18
407 415 6.530120 TGAACTAGCAAAATGAGTGAACCTA 58.470 36.000 0.00 0.00 0.00 3.08
408 416 5.376625 TGAACTAGCAAAATGAGTGAACCT 58.623 37.500 0.00 0.00 0.00 3.50
409 417 5.689383 TGAACTAGCAAAATGAGTGAACC 57.311 39.130 0.00 0.00 0.00 3.62
410 418 8.034058 AGTATGAACTAGCAAAATGAGTGAAC 57.966 34.615 0.00 0.00 32.84 3.18
411 419 7.334421 GGAGTATGAACTAGCAAAATGAGTGAA 59.666 37.037 0.00 0.00 35.56 3.18
412 420 6.818644 GGAGTATGAACTAGCAAAATGAGTGA 59.181 38.462 0.00 0.00 35.56 3.41
413 421 6.820656 AGGAGTATGAACTAGCAAAATGAGTG 59.179 38.462 0.00 0.00 35.56 3.51
414 422 6.820656 CAGGAGTATGAACTAGCAAAATGAGT 59.179 38.462 0.00 0.00 35.56 3.41
415 423 7.010923 GTCAGGAGTATGAACTAGCAAAATGAG 59.989 40.741 0.00 0.00 35.56 2.90
416 424 6.818644 GTCAGGAGTATGAACTAGCAAAATGA 59.181 38.462 0.00 0.00 35.56 2.57
417 425 6.820656 AGTCAGGAGTATGAACTAGCAAAATG 59.179 38.462 0.00 0.00 35.56 2.32
418 426 6.951971 AGTCAGGAGTATGAACTAGCAAAAT 58.048 36.000 0.00 0.00 35.56 1.82
419 427 6.360370 AGTCAGGAGTATGAACTAGCAAAA 57.640 37.500 0.00 0.00 35.56 2.44
420 428 6.360370 AAGTCAGGAGTATGAACTAGCAAA 57.640 37.500 0.00 0.00 35.56 3.68
421 429 7.661536 ATAAGTCAGGAGTATGAACTAGCAA 57.338 36.000 0.00 0.00 35.56 3.91
422 430 8.941995 ATATAAGTCAGGAGTATGAACTAGCA 57.058 34.615 0.00 0.00 35.56 3.49
434 442 9.646427 GCTATGTTCCTAAATATAAGTCAGGAG 57.354 37.037 0.00 0.00 36.77 3.69
435 443 8.304596 CGCTATGTTCCTAAATATAAGTCAGGA 58.695 37.037 0.00 0.00 33.59 3.86
436 444 8.304596 TCGCTATGTTCCTAAATATAAGTCAGG 58.695 37.037 0.00 0.00 0.00 3.86
437 445 9.347934 CTCGCTATGTTCCTAAATATAAGTCAG 57.652 37.037 0.00 0.00 0.00 3.51
438 446 8.857098 ACTCGCTATGTTCCTAAATATAAGTCA 58.143 33.333 0.00 0.00 0.00 3.41
448 456 9.524496 TCCTAAATATACTCGCTATGTTCCTAA 57.476 33.333 0.00 0.00 0.00 2.69
449 457 9.524496 TTCCTAAATATACTCGCTATGTTCCTA 57.476 33.333 0.00 0.00 0.00 2.94
450 458 8.305317 GTTCCTAAATATACTCGCTATGTTCCT 58.695 37.037 0.00 0.00 0.00 3.36
451 459 8.086522 TGTTCCTAAATATACTCGCTATGTTCC 58.913 37.037 0.00 0.00 0.00 3.62
452 460 9.640963 ATGTTCCTAAATATACTCGCTATGTTC 57.359 33.333 0.00 0.00 0.00 3.18
455 463 9.239002 GCTATGTTCCTAAATATACTCGCTATG 57.761 37.037 0.00 0.00 0.00 2.23
456 464 8.129840 CGCTATGTTCCTAAATATACTCGCTAT 58.870 37.037 0.00 0.00 0.00 2.97
457 465 7.335171 TCGCTATGTTCCTAAATATACTCGCTA 59.665 37.037 0.00 0.00 0.00 4.26
458 466 6.150641 TCGCTATGTTCCTAAATATACTCGCT 59.849 38.462 0.00 0.00 0.00 4.93
459 467 6.320171 TCGCTATGTTCCTAAATATACTCGC 58.680 40.000 0.00 0.00 0.00 5.03
460 468 7.528307 ACTCGCTATGTTCCTAAATATACTCG 58.472 38.462 0.00 0.00 0.00 4.18
511 519 9.477484 CCTTGTATACTCGCTATGTTTCTAAAT 57.523 33.333 4.17 0.00 0.00 1.40
512 520 7.924412 CCCTTGTATACTCGCTATGTTTCTAAA 59.076 37.037 4.17 0.00 0.00 1.85
513 521 7.286087 TCCCTTGTATACTCGCTATGTTTCTAA 59.714 37.037 4.17 0.00 0.00 2.10
514 522 6.774170 TCCCTTGTATACTCGCTATGTTTCTA 59.226 38.462 4.17 0.00 0.00 2.10
515 523 5.597182 TCCCTTGTATACTCGCTATGTTTCT 59.403 40.000 4.17 0.00 0.00 2.52
516 524 5.839621 TCCCTTGTATACTCGCTATGTTTC 58.160 41.667 4.17 0.00 0.00 2.78
517 525 5.864418 TCCCTTGTATACTCGCTATGTTT 57.136 39.130 4.17 0.00 0.00 2.83
518 526 5.864418 TTCCCTTGTATACTCGCTATGTT 57.136 39.130 4.17 0.00 0.00 2.71
519 527 5.864418 TTTCCCTTGTATACTCGCTATGT 57.136 39.130 4.17 0.00 0.00 2.29
551 559 9.629878 CGAGGTATACTATAATCAGGGTTATCT 57.370 37.037 2.25 0.00 0.00 1.98
554 562 7.702785 ACCGAGGTATACTATAATCAGGGTTA 58.297 38.462 2.25 0.00 0.00 2.85
555 563 6.559429 ACCGAGGTATACTATAATCAGGGTT 58.441 40.000 2.25 0.00 0.00 4.11
556 564 6.150034 ACCGAGGTATACTATAATCAGGGT 57.850 41.667 2.25 0.00 0.00 4.34
568 576 2.554124 GGAGGGAGGTACCGAGGTATAC 60.554 59.091 6.18 0.00 40.11 1.47
569 577 1.707427 GGAGGGAGGTACCGAGGTATA 59.293 57.143 6.18 0.00 40.11 1.47
570 578 0.482006 GGAGGGAGGTACCGAGGTAT 59.518 60.000 6.18 0.00 40.11 2.73
571 579 1.649271 GGGAGGGAGGTACCGAGGTA 61.649 65.000 6.18 0.00 40.11 3.08
572 580 2.688538 GGAGGGAGGTACCGAGGT 59.311 66.667 6.18 0.00 40.11 3.85
573 581 2.123382 GGGAGGGAGGTACCGAGG 60.123 72.222 6.18 0.00 40.11 4.63
574 582 1.152715 GAGGGAGGGAGGTACCGAG 60.153 68.421 6.18 0.00 40.11 4.63
575 583 2.698075 GGAGGGAGGGAGGTACCGA 61.698 68.421 6.18 0.00 40.11 4.69
576 584 1.358830 TAGGAGGGAGGGAGGTACCG 61.359 65.000 6.18 0.00 40.11 4.02
577 585 0.188096 GTAGGAGGGAGGGAGGTACC 59.812 65.000 2.73 2.73 38.08 3.34
590 598 3.834799 GGGGCGTGTCGGTAGGAG 61.835 72.222 0.00 0.00 0.00 3.69
712 722 0.606096 GGGATTTGGGGGTTTGAACG 59.394 55.000 0.00 0.00 0.00 3.95
771 781 0.472471 TTATCGCTGGGGATGGGAAC 59.528 55.000 9.85 0.00 0.00 3.62
1317 1401 3.685214 CTCCTCCTTGCCGACGACG 62.685 68.421 0.00 0.00 39.43 5.12
1352 1463 4.214327 GCGCCTCCTCCTTCTCGG 62.214 72.222 0.00 0.00 0.00 4.63
1386 1497 3.710722 ACAGGCGCCTCCTCCTTG 61.711 66.667 30.29 17.61 45.52 3.61
1442 1583 4.168291 GAGCCTCCTCCTTGCCGG 62.168 72.222 0.00 0.00 31.68 6.13
1468 1609 3.213402 CTCCTCCTCCTCGGCGAC 61.213 72.222 4.99 0.00 0.00 5.19
1469 1610 4.507916 CCTCCTCCTCCTCGGCGA 62.508 72.222 10.14 10.14 0.00 5.54
1517 1658 2.686106 GGTACTCCTTCGGGGGCA 60.686 66.667 0.00 0.00 39.85 5.36
1654 1795 0.615331 ATGTTGGTCCAGACGCTGAT 59.385 50.000 8.20 0.00 32.44 2.90
1878 2019 4.748701 TGTTATACCCCCAGAGATACCTC 58.251 47.826 0.00 0.00 39.72 3.85
1923 2064 3.010472 TCAACCAATCCACCAGATCATGT 59.990 43.478 0.00 0.00 32.47 3.21
2058 2199 3.058160 GCCGGCATGAACAGCAGT 61.058 61.111 24.80 0.00 0.00 4.40
2139 2280 4.141779 GGGTGAAAGTAAGTCGGATATGGT 60.142 45.833 0.00 0.00 0.00 3.55
2214 2355 1.216064 ATGAGAACAGCCATGGCCTA 58.784 50.000 33.14 11.88 43.17 3.93
2538 2679 1.406069 CCACCTTCAGGGATGAAGACG 60.406 57.143 17.36 8.87 45.93 4.18
2599 2740 2.628178 TGACGATGTCTGGATGGATACC 59.372 50.000 0.00 0.00 33.15 2.73
2614 2755 1.489481 TCCCTCATCTGCTTGACGAT 58.511 50.000 0.00 0.00 0.00 3.73
2616 2757 1.205655 TCTTCCCTCATCTGCTTGACG 59.794 52.381 0.00 0.00 0.00 4.35
2811 2952 5.352284 CGCTGTCCTTCTAACAGTTCATAT 58.648 41.667 5.29 0.00 44.79 1.78
2886 3030 1.457346 CAGAATCTGCACCCTTGTCC 58.543 55.000 0.00 0.00 0.00 4.02
3025 3169 0.107897 TACCGCGGATTTGCATCAGT 60.108 50.000 35.90 6.98 34.15 3.41
3066 3210 4.406648 AGAACATACATGATCGCCAAGA 57.593 40.909 0.00 0.00 35.10 3.02
3072 3216 6.647895 TGGATCATCAAGAACATACATGATCG 59.352 38.462 0.00 0.00 45.82 3.69
3086 3230 3.813443 CTGTAGGGGTTGGATCATCAAG 58.187 50.000 0.00 0.00 0.00 3.02
3098 3242 1.203262 TCTTACACCAGCTGTAGGGGT 60.203 52.381 13.81 7.39 46.56 4.95
3104 3248 1.768870 ACCACTTCTTACACCAGCTGT 59.231 47.619 13.81 0.00 36.82 4.40
3109 3253 0.840617 TGGCACCACTTCTTACACCA 59.159 50.000 0.00 0.00 0.00 4.17
3123 3267 1.338020 CTCAAGGACTTTTGGTGGCAC 59.662 52.381 9.70 9.70 0.00 5.01
3125 3269 1.981256 TCTCAAGGACTTTTGGTGGC 58.019 50.000 0.00 0.00 0.00 5.01
3152 3296 0.249996 GCAAAGCAAAGGCCATGTGT 60.250 50.000 5.01 0.00 42.56 3.72
3288 3433 6.148315 CAGAGTGATAAAACAGACAGAATGCA 59.852 38.462 0.00 0.00 42.53 3.96
3370 3515 0.683504 GCCCGAGACTCCCAGTTCTA 60.684 60.000 0.00 0.00 0.00 2.10
3413 3559 2.421073 ACACATTGACAATGATGGAGCG 59.579 45.455 30.23 13.39 41.46 5.03
3602 3756 4.342862 TCAATAATGGCCTAGCTCTGAC 57.657 45.455 3.32 0.00 0.00 3.51
3611 3765 3.515104 CACAAACCCTTCAATAATGGCCT 59.485 43.478 3.32 0.00 0.00 5.19
3612 3766 3.513515 TCACAAACCCTTCAATAATGGCC 59.486 43.478 0.00 0.00 0.00 5.36
3624 3781 3.228188 TGAAATCAGCTCACAAACCCT 57.772 42.857 0.00 0.00 0.00 4.34
3625 3782 4.102035 GATGAAATCAGCTCACAAACCC 57.898 45.455 0.00 0.00 44.70 4.11
3697 3854 7.036996 TGTATGCTCATCTTGTTGTTTTCAA 57.963 32.000 0.00 0.00 37.48 2.69
3701 3858 6.384224 CACATGTATGCTCATCTTGTTGTTT 58.616 36.000 0.00 0.00 0.00 2.83
3742 3899 2.096248 GTCTCATCCTTCGGACTCTGT 58.904 52.381 0.00 0.00 32.98 3.41
3816 3976 1.978580 ACTACTGTAGCAGCAAAGGGT 59.021 47.619 14.55 0.00 34.37 4.34
3818 3978 5.701290 ACTTTTACTACTGTAGCAGCAAAGG 59.299 40.000 14.55 11.66 34.37 3.11
3829 3989 9.924650 ATCGTCAATTCTAACTTTTACTACTGT 57.075 29.630 0.00 0.00 0.00 3.55
3917 4077 1.768275 TGCAGAACAAGAGACAAGGGA 59.232 47.619 0.00 0.00 0.00 4.20
3945 4106 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.