Multiple sequence alignment - TraesCS7A01G367500

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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 TraesCS7A01G367500 chr7A 100.000 3200 0 0 1 3200 540870508 540873707 0.000000e+00 5910
1 TraesCS7A01G367500 chr7A 83.794 1376 159 41 534 1874 540797741 540799087 0.000000e+00 1247
2 TraesCS7A01G367500 chr7A 98.687 457 6 0 1 457 574084157 574084613 0.000000e+00 811
3 TraesCS7A01G367500 chr7A 98.226 451 4 4 1 451 608362664 608363110 0.000000e+00 785
4 TraesCS7A01G367500 chr7A 80.861 1045 125 43 848 1874 570174441 570175428 0.000000e+00 752
5 TraesCS7A01G367500 chr7A 96.627 415 13 1 2127 2540 540878114 540878528 0.000000e+00 688
6 TraesCS7A01G367500 chr7A 81.506 757 105 14 1013 1756 491260459 491259725 9.890000e-165 590
7 TraesCS7A01G367500 chr7A 79.377 931 116 38 869 1784 571363706 571364575 1.280000e-163 586
8 TraesCS7A01G367500 chr7A 87.111 225 20 3 1911 2126 540799271 540799495 2.470000e-61 246
9 TraesCS7A01G367500 chr7A 86.425 221 22 7 1693 1912 540799026 540799239 5.340000e-58 235
10 TraesCS7A01G367500 chr7A 80.921 152 26 2 1723 1874 571370694 571370842 2.020000e-22 117
11 TraesCS7A01G367500 chr2A 95.543 1077 44 4 2125 3200 638312484 638313557 0.000000e+00 1720
12 TraesCS7A01G367500 chr2A 98.222 450 7 1 1 450 494154944 494154496 0.000000e+00 785
13 TraesCS7A01G367500 chr2A 95.192 416 16 4 2127 2541 638317965 638318377 0.000000e+00 654
14 TraesCS7A01G367500 chr7D 83.289 1125 125 29 534 1616 459427545 459426442 0.000000e+00 977
15 TraesCS7A01G367500 chr7D 81.184 1047 122 41 848 1874 503291103 503292094 0.000000e+00 773
16 TraesCS7A01G367500 chr7D 95.565 451 15 1 1 451 528083410 528083855 0.000000e+00 717
17 TraesCS7A01G367500 chr7D 79.008 1048 138 42 848 1874 503738713 503739699 2.690000e-180 641
18 TraesCS7A01G367500 chr7D 82.051 741 103 12 1013 1747 439868629 439867913 3.530000e-169 604
19 TraesCS7A01G367500 chr7D 83.200 625 77 20 848 1454 503337891 503338505 6.040000e-152 547
20 TraesCS7A01G367500 chr7D 84.354 441 51 10 1688 2122 459426292 459425864 1.780000e-112 416
21 TraesCS7A01G367500 chr7D 81.951 205 34 1 1708 1912 503292045 503292246 1.530000e-38 171
22 TraesCS7A01G367500 chr3D 86.026 916 111 15 2295 3200 239572414 239573322 0.000000e+00 966
23 TraesCS7A01G367500 chr3D 94.226 381 14 3 1 381 370120599 370120971 2.770000e-160 575
24 TraesCS7A01G367500 chr3D 95.851 241 5 1 1 241 434026146 434026381 5.010000e-103 385
25 TraesCS7A01G367500 chr3D 97.285 221 4 2 239 458 434026463 434026682 1.080000e-99 374
26 TraesCS7A01G367500 chr7B 84.304 1013 115 20 867 1874 481313794 481312821 0.000000e+00 950
27 TraesCS7A01G367500 chr7B 80.479 835 135 22 2378 3200 452481616 452480798 5.870000e-172 614
28 TraesCS7A01G367500 chr7B 92.453 212 16 0 1911 2122 481312566 481312355 1.440000e-78 303
29 TraesCS7A01G367500 chr7B 83.264 239 20 5 1688 1912 481312830 481312598 5.410000e-48 202
30 TraesCS7A01G367500 chr5A 84.868 912 107 21 2297 3200 559588986 559589874 0.000000e+00 891
31 TraesCS7A01G367500 chrUn 88.922 677 72 3 2525 3200 831611 830937 0.000000e+00 832
32 TraesCS7A01G367500 chrUn 88.922 677 72 3 2525 3200 306060127 306060801 0.000000e+00 832
33 TraesCS7A01G367500 chrUn 88.922 677 72 3 2525 3200 316082504 316083178 0.000000e+00 832
34 TraesCS7A01G367500 chrUn 90.000 80 8 0 372 451 334926864 334926785 1.570000e-18 104
35 TraesCS7A01G367500 chr3A 97.859 467 6 1 1 467 45582597 45583059 0.000000e+00 804
36 TraesCS7A01G367500 chr3A 98.249 457 8 0 1 457 197199336 197199792 0.000000e+00 800
37 TraesCS7A01G367500 chr5B 80.708 1073 172 31 2127 3182 137681199 137682253 0.000000e+00 802
38 TraesCS7A01G367500 chr5B 79.957 923 154 26 2295 3200 221846598 221845690 0.000000e+00 651
39 TraesCS7A01G367500 chr5B 79.543 919 159 22 2295 3200 375620590 375621492 2.100000e-176 628
40 TraesCS7A01G367500 chr2D 95.111 450 17 1 1 450 625182081 625181637 0.000000e+00 704
41 TraesCS7A01G367500 chr2D 83.862 347 37 16 2127 2463 535554654 535554991 2.400000e-81 313
42 TraesCS7A01G367500 chr4D 84.438 347 35 16 2127 2463 29860797 29861134 1.110000e-84 324


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 TraesCS7A01G367500 chr7A 540870508 540873707 3199 False 5910.0 5910 100.000000 1 3200 1 chr7A.!!$F1 3199
1 TraesCS7A01G367500 chr7A 570174441 570175428 987 False 752.0 752 80.861000 848 1874 1 chr7A.!!$F3 1026
2 TraesCS7A01G367500 chr7A 491259725 491260459 734 True 590.0 590 81.506000 1013 1756 1 chr7A.!!$R1 743
3 TraesCS7A01G367500 chr7A 571363706 571364575 869 False 586.0 586 79.377000 869 1784 1 chr7A.!!$F4 915
4 TraesCS7A01G367500 chr7A 540797741 540799495 1754 False 576.0 1247 85.776667 534 2126 3 chr7A.!!$F8 1592
5 TraesCS7A01G367500 chr2A 638312484 638313557 1073 False 1720.0 1720 95.543000 2125 3200 1 chr2A.!!$F1 1075
6 TraesCS7A01G367500 chr7D 459425864 459427545 1681 True 696.5 977 83.821500 534 2122 2 chr7D.!!$R2 1588
7 TraesCS7A01G367500 chr7D 503738713 503739699 986 False 641.0 641 79.008000 848 1874 1 chr7D.!!$F2 1026
8 TraesCS7A01G367500 chr7D 439867913 439868629 716 True 604.0 604 82.051000 1013 1747 1 chr7D.!!$R1 734
9 TraesCS7A01G367500 chr7D 503337891 503338505 614 False 547.0 547 83.200000 848 1454 1 chr7D.!!$F1 606
10 TraesCS7A01G367500 chr7D 503291103 503292246 1143 False 472.0 773 81.567500 848 1912 2 chr7D.!!$F4 1064
11 TraesCS7A01G367500 chr3D 239572414 239573322 908 False 966.0 966 86.026000 2295 3200 1 chr3D.!!$F1 905
12 TraesCS7A01G367500 chr3D 434026146 434026682 536 False 379.5 385 96.568000 1 458 2 chr3D.!!$F3 457
13 TraesCS7A01G367500 chr7B 452480798 452481616 818 True 614.0 614 80.479000 2378 3200 1 chr7B.!!$R1 822
14 TraesCS7A01G367500 chr7B 481312355 481313794 1439 True 485.0 950 86.673667 867 2122 3 chr7B.!!$R2 1255
15 TraesCS7A01G367500 chr5A 559588986 559589874 888 False 891.0 891 84.868000 2297 3200 1 chr5A.!!$F1 903
16 TraesCS7A01G367500 chrUn 830937 831611 674 True 832.0 832 88.922000 2525 3200 1 chrUn.!!$R1 675
17 TraesCS7A01G367500 chrUn 306060127 306060801 674 False 832.0 832 88.922000 2525 3200 1 chrUn.!!$F1 675
18 TraesCS7A01G367500 chrUn 316082504 316083178 674 False 832.0 832 88.922000 2525 3200 1 chrUn.!!$F2 675
19 TraesCS7A01G367500 chr5B 137681199 137682253 1054 False 802.0 802 80.708000 2127 3182 1 chr5B.!!$F1 1055
20 TraesCS7A01G367500 chr5B 221845690 221846598 908 True 651.0 651 79.957000 2295 3200 1 chr5B.!!$R1 905
21 TraesCS7A01G367500 chr5B 375620590 375621492 902 False 628.0 628 79.543000 2295 3200 1 chr5B.!!$F2 905

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
691 704 0.041839 CTGGCTAATCACAATCGCGC 60.042 55.0 0.0 0.0 0.0 6.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2577 3058 0.811616 CTCTACGCTGCCCCAATCAC 60.812 60.0 0.0 0.0 0.0 3.06 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
41 42 4.464947 AGATTCTATGGTTGGGCTAAAGC 58.535 43.478 0.00 0.00 41.14 3.51
117 118 6.069323 ACTCTTCCATACTCAGACTCTCCTAA 60.069 42.308 0.00 0.00 0.00 2.69
256 257 7.549615 AAAAGATACCTAGATAAAACACGCC 57.450 36.000 0.00 0.00 0.00 5.68
257 258 5.211174 AGATACCTAGATAAAACACGCCC 57.789 43.478 0.00 0.00 0.00 6.13
259 260 3.261981 ACCTAGATAAAACACGCCCAG 57.738 47.619 0.00 0.00 0.00 4.45
261 262 3.770933 ACCTAGATAAAACACGCCCAGTA 59.229 43.478 0.00 0.00 0.00 2.74
262 263 4.407945 ACCTAGATAAAACACGCCCAGTAT 59.592 41.667 0.00 0.00 0.00 2.12
263 264 5.599656 ACCTAGATAAAACACGCCCAGTATA 59.400 40.000 0.00 0.00 0.00 1.47
264 265 6.269307 ACCTAGATAAAACACGCCCAGTATAT 59.731 38.462 0.00 0.00 0.00 0.86
265 266 7.159372 CCTAGATAAAACACGCCCAGTATATT 58.841 38.462 0.00 0.00 0.00 1.28
266 267 7.660208 CCTAGATAAAACACGCCCAGTATATTT 59.340 37.037 0.00 0.00 0.00 1.40
267 268 7.875327 AGATAAAACACGCCCAGTATATTTT 57.125 32.000 0.00 0.00 0.00 1.82
268 269 8.967664 AGATAAAACACGCCCAGTATATTTTA 57.032 30.769 0.00 0.00 0.00 1.52
269 270 8.833493 AGATAAAACACGCCCAGTATATTTTAC 58.167 33.333 0.00 0.00 0.00 2.01
270 271 5.473796 AAACACGCCCAGTATATTTTACG 57.526 39.130 0.00 0.00 0.00 3.18
271 272 4.127566 ACACGCCCAGTATATTTTACGT 57.872 40.909 0.00 0.00 0.00 3.57
272 273 4.446857 CACGCCCAGTATATTTTACGTG 57.553 45.455 0.00 0.00 42.79 4.49
273 274 4.389890 ACGCCCAGTATATTTTACGTGA 57.610 40.909 0.00 0.00 0.00 4.35
274 275 4.952460 ACGCCCAGTATATTTTACGTGAT 58.048 39.130 0.00 0.00 0.00 3.06
275 276 5.362263 ACGCCCAGTATATTTTACGTGATT 58.638 37.500 0.00 0.00 0.00 2.57
276 277 5.818857 ACGCCCAGTATATTTTACGTGATTT 59.181 36.000 0.00 0.00 0.00 2.17
277 278 6.316890 ACGCCCAGTATATTTTACGTGATTTT 59.683 34.615 0.00 0.00 0.00 1.82
278 279 7.148205 ACGCCCAGTATATTTTACGTGATTTTT 60.148 33.333 0.00 0.00 0.00 1.94
279 280 7.165154 CGCCCAGTATATTTTACGTGATTTTTG 59.835 37.037 0.00 0.00 0.00 2.44
280 281 7.971722 GCCCAGTATATTTTACGTGATTTTTGT 59.028 33.333 0.00 0.00 0.00 2.83
303 304 8.267620 TGTATGTTATACTTCATGCATATGCC 57.732 34.615 24.54 7.65 41.18 4.40
304 305 8.102676 TGTATGTTATACTTCATGCATATGCCT 58.897 33.333 24.54 12.64 41.18 4.75
305 306 7.621428 ATGTTATACTTCATGCATATGCCTC 57.379 36.000 24.54 0.00 41.18 4.70
306 307 6.532826 TGTTATACTTCATGCATATGCCTCA 58.467 36.000 24.54 6.97 41.18 3.86
307 308 6.427853 TGTTATACTTCATGCATATGCCTCAC 59.572 38.462 24.54 7.50 41.18 3.51
308 309 3.286329 ACTTCATGCATATGCCTCACA 57.714 42.857 24.54 6.17 41.18 3.58
309 310 3.623703 ACTTCATGCATATGCCTCACAA 58.376 40.909 24.54 5.39 41.18 3.33
310 311 4.212716 ACTTCATGCATATGCCTCACAAT 58.787 39.130 24.54 7.65 41.18 2.71
311 312 4.647853 ACTTCATGCATATGCCTCACAATT 59.352 37.500 24.54 2.74 41.18 2.32
312 313 5.128171 ACTTCATGCATATGCCTCACAATTT 59.872 36.000 24.54 0.00 41.18 1.82
313 314 5.190992 TCATGCATATGCCTCACAATTTC 57.809 39.130 24.54 0.00 41.18 2.17
314 315 4.645588 TCATGCATATGCCTCACAATTTCA 59.354 37.500 24.54 1.76 41.18 2.69
315 316 5.303333 TCATGCATATGCCTCACAATTTCAT 59.697 36.000 24.54 4.18 41.18 2.57
316 317 5.601583 TGCATATGCCTCACAATTTCATT 57.398 34.783 24.54 0.00 41.18 2.57
317 318 5.979993 TGCATATGCCTCACAATTTCATTT 58.020 33.333 24.54 0.00 41.18 2.32
318 319 5.813157 TGCATATGCCTCACAATTTCATTTG 59.187 36.000 24.54 0.00 41.18 2.32
319 320 5.277154 GCATATGCCTCACAATTTCATTTGC 60.277 40.000 17.26 0.00 35.91 3.68
320 321 3.042871 TGCCTCACAATTTCATTTGCC 57.957 42.857 0.00 0.00 0.00 4.52
321 322 1.994779 GCCTCACAATTTCATTTGCCG 59.005 47.619 0.00 0.00 0.00 5.69
322 323 2.609350 CCTCACAATTTCATTTGCCGG 58.391 47.619 0.00 0.00 0.00 6.13
323 324 1.994779 CTCACAATTTCATTTGCCGGC 59.005 47.619 22.73 22.73 0.00 6.13
324 325 1.342496 TCACAATTTCATTTGCCGGCA 59.658 42.857 29.03 29.03 0.00 5.69
325 326 2.028294 TCACAATTTCATTTGCCGGCAT 60.028 40.909 33.25 14.69 0.00 4.40
326 327 3.194329 TCACAATTTCATTTGCCGGCATA 59.806 39.130 33.25 27.32 0.00 3.14
327 328 3.931468 CACAATTTCATTTGCCGGCATAA 59.069 39.130 33.25 25.75 0.00 1.90
328 329 3.932089 ACAATTTCATTTGCCGGCATAAC 59.068 39.130 33.25 0.00 0.00 1.89
329 330 4.183101 CAATTTCATTTGCCGGCATAACT 58.817 39.130 33.25 12.50 0.00 2.24
330 331 5.105554 ACAATTTCATTTGCCGGCATAACTA 60.106 36.000 33.25 12.81 0.00 2.24
331 332 4.630894 TTTCATTTGCCGGCATAACTAG 57.369 40.909 33.25 16.91 0.00 2.57
332 333 1.946768 TCATTTGCCGGCATAACTAGC 59.053 47.619 33.25 0.00 0.00 3.42
345 346 6.073327 GCATAACTAGCCAAAAAGGATACC 57.927 41.667 0.00 0.00 41.22 2.73
346 347 5.828328 GCATAACTAGCCAAAAAGGATACCT 59.172 40.000 0.00 0.00 41.22 3.08
347 348 6.996282 GCATAACTAGCCAAAAAGGATACCTA 59.004 38.462 0.00 0.00 41.22 3.08
348 349 7.173390 GCATAACTAGCCAAAAAGGATACCTAG 59.827 40.741 0.00 0.00 41.22 3.02
349 350 6.886178 AACTAGCCAAAAAGGATACCTAGA 57.114 37.500 0.00 0.00 41.22 2.43
350 351 7.453141 AACTAGCCAAAAAGGATACCTAGAT 57.547 36.000 0.00 0.00 41.22 1.98
351 352 8.562949 AACTAGCCAAAAAGGATACCTAGATA 57.437 34.615 0.00 0.00 41.22 1.98
352 353 8.562949 ACTAGCCAAAAAGGATACCTAGATAA 57.437 34.615 0.00 0.00 41.22 1.75
353 354 8.999895 ACTAGCCAAAAAGGATACCTAGATAAA 58.000 33.333 0.00 0.00 41.22 1.40
354 355 9.847224 CTAGCCAAAAAGGATACCTAGATAAAA 57.153 33.333 0.00 0.00 41.22 1.52
355 356 8.521170 AGCCAAAAAGGATACCTAGATAAAAC 57.479 34.615 0.00 0.00 41.22 2.43
356 357 8.113462 AGCCAAAAAGGATACCTAGATAAAACA 58.887 33.333 0.00 0.00 41.22 2.83
357 358 8.406297 GCCAAAAAGGATACCTAGATAAAACAG 58.594 37.037 0.00 0.00 41.22 3.16
358 359 8.903820 CCAAAAAGGATACCTAGATAAAACAGG 58.096 37.037 0.00 0.00 41.22 4.00
359 360 8.406297 CAAAAAGGATACCTAGATAAAACAGGC 58.594 37.037 0.00 0.00 31.13 4.85
360 361 6.824958 AAGGATACCTAGATAAAACAGGCA 57.175 37.500 0.00 0.00 31.13 4.75
361 362 6.176014 AGGATACCTAGATAAAACAGGCAC 57.824 41.667 0.00 0.00 32.31 5.01
362 363 5.665812 AGGATACCTAGATAAAACAGGCACA 59.334 40.000 0.00 0.00 32.31 4.57
363 364 6.157994 AGGATACCTAGATAAAACAGGCACAA 59.842 38.462 0.00 0.00 32.31 3.33
364 365 6.998673 GGATACCTAGATAAAACAGGCACAAT 59.001 38.462 0.00 0.00 32.31 2.71
365 366 8.154856 GGATACCTAGATAAAACAGGCACAATA 58.845 37.037 0.00 0.00 32.31 1.90
366 367 9.726438 GATACCTAGATAAAACAGGCACAATAT 57.274 33.333 0.00 0.00 32.31 1.28
380 381 9.456147 ACAGGCACAATATATTTTACAGTAACA 57.544 29.630 0.00 0.00 0.00 2.41
409 410 9.959721 ATGTCTATATTTGGTTGTAGTTTGACT 57.040 29.630 0.00 0.00 0.00 3.41
416 417 7.878477 TTTGGTTGTAGTTTGACTATACGAG 57.122 36.000 0.00 0.00 32.65 4.18
417 418 5.404946 TGGTTGTAGTTTGACTATACGAGC 58.595 41.667 0.00 0.00 32.65 5.03
418 419 5.184479 TGGTTGTAGTTTGACTATACGAGCT 59.816 40.000 0.00 0.00 32.65 4.09
419 420 5.742926 GGTTGTAGTTTGACTATACGAGCTC 59.257 44.000 2.73 2.73 32.65 4.09
420 421 6.404513 GGTTGTAGTTTGACTATACGAGCTCT 60.405 42.308 12.85 1.42 32.65 4.09
421 422 6.360844 TGTAGTTTGACTATACGAGCTCTC 57.639 41.667 12.85 1.56 32.65 3.20
422 423 5.878669 TGTAGTTTGACTATACGAGCTCTCA 59.121 40.000 12.85 4.50 32.65 3.27
423 424 5.238006 AGTTTGACTATACGAGCTCTCAC 57.762 43.478 12.85 0.00 0.00 3.51
424 425 3.946308 TTGACTATACGAGCTCTCACG 57.054 47.619 12.85 0.93 0.00 4.35
425 426 2.902523 TGACTATACGAGCTCTCACGT 58.097 47.619 12.85 7.83 44.72 4.49
426 427 2.608090 TGACTATACGAGCTCTCACGTG 59.392 50.000 9.94 9.94 42.61 4.49
427 428 1.331138 ACTATACGAGCTCTCACGTGC 59.669 52.381 11.67 0.00 42.61 5.34
428 429 1.600013 CTATACGAGCTCTCACGTGCT 59.400 52.381 11.67 3.80 42.61 4.40
429 430 1.664873 ATACGAGCTCTCACGTGCTA 58.335 50.000 11.67 0.00 42.61 3.49
430 431 1.664873 TACGAGCTCTCACGTGCTAT 58.335 50.000 11.67 0.00 42.61 2.97
431 432 0.099613 ACGAGCTCTCACGTGCTATG 59.900 55.000 11.67 3.37 39.86 2.23
432 433 1.205485 CGAGCTCTCACGTGCTATGC 61.205 60.000 11.67 12.10 39.86 3.14
433 434 0.179127 GAGCTCTCACGTGCTATGCA 60.179 55.000 11.67 0.00 39.86 3.96
449 450 7.268199 TGCTATGCACGTATAACTTACTAGT 57.732 36.000 0.00 0.00 31.71 2.57
450 451 8.382030 TGCTATGCACGTATAACTTACTAGTA 57.618 34.615 0.00 0.00 30.79 1.82
451 452 8.285394 TGCTATGCACGTATAACTTACTAGTAC 58.715 37.037 0.91 0.00 30.79 2.73
452 453 8.502387 GCTATGCACGTATAACTTACTAGTACT 58.498 37.037 0.91 0.00 33.17 2.73
504 505 4.752661 TTTTTAATGAAAGTCGACGGGG 57.247 40.909 10.46 0.00 0.00 5.73
505 506 3.681593 TTTAATGAAAGTCGACGGGGA 57.318 42.857 10.46 0.00 0.00 4.81
506 507 3.681593 TTAATGAAAGTCGACGGGGAA 57.318 42.857 10.46 0.00 0.00 3.97
507 508 2.094762 AATGAAAGTCGACGGGGAAG 57.905 50.000 10.46 0.00 0.00 3.46
508 509 0.391263 ATGAAAGTCGACGGGGAAGC 60.391 55.000 10.46 0.00 0.00 3.86
509 510 1.740664 GAAAGTCGACGGGGAAGCC 60.741 63.158 10.46 0.00 0.00 4.35
510 511 3.584868 AAAGTCGACGGGGAAGCCG 62.585 63.158 10.46 0.00 0.00 5.52
512 513 4.368543 GTCGACGGGGAAGCCGTT 62.369 66.667 0.00 0.00 44.16 4.44
513 514 4.367023 TCGACGGGGAAGCCGTTG 62.367 66.667 0.00 0.00 44.16 4.10
514 515 4.675029 CGACGGGGAAGCCGTTGT 62.675 66.667 0.00 0.00 44.16 3.32
515 516 2.658422 GACGGGGAAGCCGTTGTA 59.342 61.111 0.00 0.00 44.16 2.41
516 517 1.219935 GACGGGGAAGCCGTTGTAT 59.780 57.895 0.00 0.00 44.16 2.29
517 518 0.461135 GACGGGGAAGCCGTTGTATA 59.539 55.000 0.00 0.00 44.16 1.47
518 519 0.462789 ACGGGGAAGCCGTTGTATAG 59.537 55.000 0.00 0.00 41.27 1.31
519 520 0.748450 CGGGGAAGCCGTTGTATAGA 59.252 55.000 0.00 0.00 0.00 1.98
520 521 1.137479 CGGGGAAGCCGTTGTATAGAA 59.863 52.381 0.00 0.00 0.00 2.10
521 522 2.419021 CGGGGAAGCCGTTGTATAGAAA 60.419 50.000 0.00 0.00 0.00 2.52
522 523 3.613030 GGGGAAGCCGTTGTATAGAAAA 58.387 45.455 0.00 0.00 0.00 2.29
523 524 3.376234 GGGGAAGCCGTTGTATAGAAAAC 59.624 47.826 0.00 0.00 0.00 2.43
524 525 3.376234 GGGAAGCCGTTGTATAGAAAACC 59.624 47.826 0.00 0.00 0.00 3.27
525 526 3.376234 GGAAGCCGTTGTATAGAAAACCC 59.624 47.826 0.00 0.00 0.00 4.11
526 527 3.706600 AGCCGTTGTATAGAAAACCCA 57.293 42.857 0.00 0.00 0.00 4.51
527 528 3.606687 AGCCGTTGTATAGAAAACCCAG 58.393 45.455 0.00 0.00 0.00 4.45
528 529 2.096980 GCCGTTGTATAGAAAACCCAGC 59.903 50.000 0.00 0.00 0.00 4.85
529 530 2.350498 CCGTTGTATAGAAAACCCAGCG 59.650 50.000 0.00 0.00 0.00 5.18
530 531 2.222953 CGTTGTATAGAAAACCCAGCGC 60.223 50.000 0.00 0.00 0.00 5.92
531 532 2.032680 TGTATAGAAAACCCAGCGCC 57.967 50.000 2.29 0.00 0.00 6.53
532 533 0.935196 GTATAGAAAACCCAGCGCCG 59.065 55.000 2.29 0.00 0.00 6.46
565 566 2.585153 GAGCCGGAAACCCTCCTC 59.415 66.667 5.05 0.00 42.85 3.71
566 567 2.203938 AGCCGGAAACCCTCCTCA 60.204 61.111 5.05 0.00 42.85 3.86
568 569 1.674651 GCCGGAAACCCTCCTCAAC 60.675 63.158 5.05 0.00 42.85 3.18
571 572 0.249398 CGGAAACCCTCCTCAACGAT 59.751 55.000 0.00 0.00 42.85 3.73
580 581 0.176910 TCCTCAACGATGCCGCATTA 59.823 50.000 7.43 0.00 39.95 1.90
593 594 3.739077 GCATTAATTGCGCCAAGGT 57.261 47.368 4.18 0.00 42.54 3.50
594 595 2.861462 GCATTAATTGCGCCAAGGTA 57.139 45.000 4.18 0.00 42.54 3.08
595 596 2.459934 GCATTAATTGCGCCAAGGTAC 58.540 47.619 4.18 0.00 42.54 3.34
626 627 2.362375 CAAATCCCACCCCCACCG 60.362 66.667 0.00 0.00 0.00 4.94
627 628 3.668142 AAATCCCACCCCCACCGG 61.668 66.667 0.00 0.00 0.00 5.28
673 686 0.756442 TGCAAGCACCTGCCTTTTCT 60.756 50.000 3.37 0.00 41.90 2.52
688 701 4.913376 CCTTTTCTGGCTAATCACAATCG 58.087 43.478 0.00 0.00 0.00 3.34
689 702 4.346129 CTTTTCTGGCTAATCACAATCGC 58.654 43.478 0.00 0.00 0.00 4.58
690 703 1.570813 TCTGGCTAATCACAATCGCG 58.429 50.000 0.00 0.00 0.00 5.87
691 704 0.041839 CTGGCTAATCACAATCGCGC 60.042 55.000 0.00 0.00 0.00 6.86
693 706 1.160329 GGCTAATCACAATCGCGCCT 61.160 55.000 0.00 0.00 33.47 5.52
694 707 0.041839 GCTAATCACAATCGCGCCTG 60.042 55.000 0.00 3.03 0.00 4.85
709 722 1.084289 GCCTGACGTTTTAATCCGCT 58.916 50.000 0.00 0.00 0.00 5.52
714 727 1.198178 GACGTTTTAATCCGCTGCCAA 59.802 47.619 0.00 0.00 0.00 4.52
780 793 3.746940 GCCAGATTACGGGGCTTAATAA 58.253 45.455 0.00 0.00 44.32 1.40
796 809 5.785243 CTTAATAAGCCTAGTGCCTACTCC 58.215 45.833 0.21 0.00 42.71 3.85
797 810 2.083628 TAAGCCTAGTGCCTACTCCC 57.916 55.000 0.21 0.00 42.71 4.30
806 819 2.134933 GCCTACTCCCGCCTAGCTT 61.135 63.158 0.00 0.00 0.00 3.74
827 841 4.456280 TCTAGGTATAGCAATCATGGCG 57.544 45.455 4.48 0.00 36.08 5.69
962 1007 2.837291 CGGAGGAGCAGAGGAGGG 60.837 72.222 0.00 0.00 0.00 4.30
967 1012 1.992277 GGAGCAGAGGAGGGAAGCA 60.992 63.158 0.00 0.00 0.00 3.91
973 1018 0.977108 AGAGGAGGGAAGCAGAGCAG 60.977 60.000 0.00 0.00 0.00 4.24
1090 1151 1.593787 CTCAAGAAGCAGGCGGAGA 59.406 57.895 0.00 0.00 0.00 3.71
1419 1498 1.075970 AGACAGGATGGAGGCGCTA 60.076 57.895 7.64 0.00 43.62 4.26
1514 1593 2.666190 GCAGCACTTCTGGCACGA 60.666 61.111 0.00 0.00 43.06 4.35
1756 2061 1.512694 GGCAATGCTGGCTACAACC 59.487 57.895 4.82 0.00 44.62 3.77
1765 2070 2.663196 GCTACAACCACTCGGGCT 59.337 61.111 0.00 0.00 42.05 5.19
1818 2123 3.599343 CAATGCTGGCTACAACTACTCA 58.401 45.455 0.00 0.00 0.00 3.41
1820 2125 2.248248 TGCTGGCTACAACTACTCAGT 58.752 47.619 0.00 0.00 36.19 3.41
2108 2580 2.745884 CCATCGCTCCAACGCCAA 60.746 61.111 0.00 0.00 0.00 4.52
2134 2606 2.353958 CCAGCACCATGTCAGGCT 59.646 61.111 0.00 0.00 36.99 4.58
2162 2634 1.002069 ATCATCCCCTGTTTCCAGCA 58.998 50.000 0.00 0.00 37.38 4.41
2233 2705 2.887360 GTACCGGTTCGCCAGCTA 59.113 61.111 15.04 0.00 37.00 3.32
2234 2706 1.440476 GTACCGGTTCGCCAGCTAT 59.560 57.895 15.04 0.00 37.00 2.97
2278 2750 1.337823 CGATCAAACGGTCAAGAGGGT 60.338 52.381 0.00 0.00 0.00 4.34
2280 2752 0.834612 TCAAACGGTCAAGAGGGTGT 59.165 50.000 0.00 0.00 0.00 4.16
2293 2765 2.711547 AGAGGGTGTCCTGTAGCTTTTT 59.288 45.455 0.00 0.00 45.05 1.94
2480 2959 4.380531 CCTAGCTAAATTCGCCTTGATCA 58.619 43.478 0.00 0.00 0.00 2.92
2618 3116 3.507622 GGTTGGCTTCTGCTGTAAAATCT 59.492 43.478 0.00 0.00 39.59 2.40
2638 3136 1.134371 TCTCTTCGAGCTCTGATCGGA 60.134 52.381 12.85 3.71 40.54 4.55
2687 3185 2.972505 CAGCGTTCGGGTGCAGTT 60.973 61.111 0.00 0.00 37.32 3.16
2699 3197 1.071699 GGTGCAGTTGGAGGAACAGTA 59.928 52.381 0.00 0.00 36.98 2.74
2765 3263 0.530744 GATCTGACCGTGTACCAGCA 59.469 55.000 0.00 0.00 0.00 4.41
2883 3382 1.133575 CCATGCTGATTCAGGGTCCAT 60.134 52.381 15.28 7.16 33.55 3.41
3182 3684 3.366396 CAAGCACCTACTCCTCCTTCTA 58.634 50.000 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 9.221933 ACCATAGAATCTTCTAGATAGTACACG 57.778 37.037 5.92 0.00 42.55 4.49
41 42 6.988622 ATTTTGTGCAAAATGTCCATATGG 57.011 33.333 16.25 16.25 43.38 2.74
104 105 7.604657 AGAAAAAGAAGTTAGGAGAGTCTGA 57.395 36.000 0.00 0.00 0.00 3.27
202 203 7.708752 GCTATCTCAAAGCTAATGTTCTACAGT 59.291 37.037 0.00 0.00 37.01 3.55
203 204 7.170658 GGCTATCTCAAAGCTAATGTTCTACAG 59.829 40.741 0.00 0.00 39.97 2.74
204 205 6.986817 GGCTATCTCAAAGCTAATGTTCTACA 59.013 38.462 0.00 0.00 39.97 2.74
205 206 6.986817 TGGCTATCTCAAAGCTAATGTTCTAC 59.013 38.462 0.00 0.00 39.97 2.59
241 242 8.603242 AAATATACTGGGCGTGTTTTATCTAG 57.397 34.615 0.00 0.00 0.00 2.43
242 243 8.967664 AAAATATACTGGGCGTGTTTTATCTA 57.032 30.769 0.00 0.00 0.00 1.98
243 244 7.875327 AAAATATACTGGGCGTGTTTTATCT 57.125 32.000 0.00 0.00 0.00 1.98
244 245 7.795272 CGTAAAATATACTGGGCGTGTTTTATC 59.205 37.037 0.00 0.00 0.00 1.75
245 246 7.280652 ACGTAAAATATACTGGGCGTGTTTTAT 59.719 33.333 0.00 0.00 0.00 1.40
246 247 6.593382 ACGTAAAATATACTGGGCGTGTTTTA 59.407 34.615 0.00 0.00 0.00 1.52
247 248 5.412286 ACGTAAAATATACTGGGCGTGTTTT 59.588 36.000 0.00 0.00 0.00 2.43
248 249 4.937015 ACGTAAAATATACTGGGCGTGTTT 59.063 37.500 0.00 0.00 0.00 2.83
249 250 4.330620 CACGTAAAATATACTGGGCGTGTT 59.669 41.667 0.00 0.00 42.02 3.32
250 251 3.866910 CACGTAAAATATACTGGGCGTGT 59.133 43.478 0.00 0.00 42.02 4.49
252 253 4.389890 TCACGTAAAATATACTGGGCGT 57.610 40.909 0.00 0.00 0.00 5.68
253 254 5.917541 AATCACGTAAAATATACTGGGCG 57.082 39.130 0.00 0.00 0.00 6.13
254 255 7.971722 ACAAAAATCACGTAAAATATACTGGGC 59.028 33.333 0.00 0.00 0.00 5.36
277 278 8.729756 GGCATATGCATGAAGTATAACATACAA 58.270 33.333 28.07 0.00 44.36 2.41
278 279 8.102676 AGGCATATGCATGAAGTATAACATACA 58.897 33.333 28.07 0.00 44.36 2.29
279 280 8.498054 AGGCATATGCATGAAGTATAACATAC 57.502 34.615 28.07 5.39 44.36 2.39
280 281 8.320617 TGAGGCATATGCATGAAGTATAACATA 58.679 33.333 28.07 0.00 44.36 2.29
281 282 7.120285 GTGAGGCATATGCATGAAGTATAACAT 59.880 37.037 28.07 0.00 44.36 2.71
282 283 6.427853 GTGAGGCATATGCATGAAGTATAACA 59.572 38.462 28.07 9.94 44.36 2.41
283 284 6.427853 TGTGAGGCATATGCATGAAGTATAAC 59.572 38.462 28.07 7.42 44.36 1.89
284 285 6.532826 TGTGAGGCATATGCATGAAGTATAA 58.467 36.000 28.07 1.32 44.36 0.98
285 286 6.112927 TGTGAGGCATATGCATGAAGTATA 57.887 37.500 28.07 3.81 44.36 1.47
286 287 4.976864 TGTGAGGCATATGCATGAAGTAT 58.023 39.130 28.07 4.11 44.36 2.12
287 288 4.420522 TGTGAGGCATATGCATGAAGTA 57.579 40.909 28.07 3.97 44.36 2.24
288 289 3.286329 TGTGAGGCATATGCATGAAGT 57.714 42.857 28.07 5.89 44.36 3.01
289 290 4.848562 ATTGTGAGGCATATGCATGAAG 57.151 40.909 28.07 0.00 44.36 3.02
290 291 5.127356 TGAAATTGTGAGGCATATGCATGAA 59.873 36.000 28.07 13.95 44.36 2.57
291 292 4.645588 TGAAATTGTGAGGCATATGCATGA 59.354 37.500 28.07 14.17 44.36 3.07
292 293 4.939271 TGAAATTGTGAGGCATATGCATG 58.061 39.130 28.07 0.00 44.36 4.06
293 294 5.801531 ATGAAATTGTGAGGCATATGCAT 57.198 34.783 28.07 22.70 44.36 3.96
294 295 5.601583 AATGAAATTGTGAGGCATATGCA 57.398 34.783 28.07 7.82 37.83 3.96
295 296 5.277154 GCAAATGAAATTGTGAGGCATATGC 60.277 40.000 19.79 19.79 36.10 3.14
296 297 5.235616 GGCAAATGAAATTGTGAGGCATATG 59.764 40.000 0.00 0.00 36.10 1.78
297 298 5.362263 GGCAAATGAAATTGTGAGGCATAT 58.638 37.500 0.00 0.00 36.10 1.78
298 299 4.677514 CGGCAAATGAAATTGTGAGGCATA 60.678 41.667 0.00 0.00 36.10 3.14
299 300 3.602483 GGCAAATGAAATTGTGAGGCAT 58.398 40.909 0.00 0.00 36.10 4.40
300 301 2.609984 CGGCAAATGAAATTGTGAGGCA 60.610 45.455 0.00 0.00 36.10 4.75
301 302 1.994779 CGGCAAATGAAATTGTGAGGC 59.005 47.619 0.00 0.00 36.10 4.70
302 303 2.609350 CCGGCAAATGAAATTGTGAGG 58.391 47.619 0.00 0.00 36.10 3.86
303 304 1.994779 GCCGGCAAATGAAATTGTGAG 59.005 47.619 24.80 0.00 36.10 3.51
304 305 1.342496 TGCCGGCAAATGAAATTGTGA 59.658 42.857 30.74 0.00 36.10 3.58
305 306 1.793258 TGCCGGCAAATGAAATTGTG 58.207 45.000 30.74 0.00 36.10 3.33
306 307 2.766345 ATGCCGGCAAATGAAATTGT 57.234 40.000 36.33 10.11 36.10 2.71
307 308 4.183101 AGTTATGCCGGCAAATGAAATTG 58.817 39.130 36.33 0.00 36.10 2.32
308 309 4.470334 AGTTATGCCGGCAAATGAAATT 57.530 36.364 36.33 17.32 38.98 1.82
309 310 4.499696 GCTAGTTATGCCGGCAAATGAAAT 60.500 41.667 36.33 24.30 0.00 2.17
310 311 3.181491 GCTAGTTATGCCGGCAAATGAAA 60.181 43.478 36.33 19.14 0.00 2.69
311 312 2.357637 GCTAGTTATGCCGGCAAATGAA 59.642 45.455 36.33 21.61 0.00 2.57
312 313 1.946768 GCTAGTTATGCCGGCAAATGA 59.053 47.619 36.33 16.60 0.00 2.57
313 314 1.001378 GGCTAGTTATGCCGGCAAATG 60.001 52.381 36.33 20.22 41.03 2.32
314 315 1.318576 GGCTAGTTATGCCGGCAAAT 58.681 50.000 36.33 21.59 41.03 2.32
315 316 2.788515 GGCTAGTTATGCCGGCAAA 58.211 52.632 36.33 24.66 41.03 3.68
316 317 4.551729 GGCTAGTTATGCCGGCAA 57.448 55.556 36.33 20.08 41.03 4.52
321 322 7.907799 TAGGTATCCTTTTTGGCTAGTTATGCC 60.908 40.741 0.00 0.00 41.90 4.40
322 323 5.828328 AGGTATCCTTTTTGGCTAGTTATGC 59.172 40.000 0.00 0.00 35.26 3.14
323 324 8.429641 TCTAGGTATCCTTTTTGGCTAGTTATG 58.570 37.037 0.00 0.00 34.61 1.90
324 325 8.562949 TCTAGGTATCCTTTTTGGCTAGTTAT 57.437 34.615 0.00 0.00 34.61 1.89
325 326 7.983166 TCTAGGTATCCTTTTTGGCTAGTTA 57.017 36.000 0.00 0.00 34.61 2.24
326 327 6.886178 TCTAGGTATCCTTTTTGGCTAGTT 57.114 37.500 0.00 0.00 34.61 2.24
327 328 8.562949 TTATCTAGGTATCCTTTTTGGCTAGT 57.437 34.615 0.00 0.00 34.61 2.57
328 329 9.847224 TTTTATCTAGGTATCCTTTTTGGCTAG 57.153 33.333 0.00 0.00 34.61 3.42
329 330 9.623000 GTTTTATCTAGGTATCCTTTTTGGCTA 57.377 33.333 0.00 0.00 34.61 3.93
330 331 8.113462 TGTTTTATCTAGGTATCCTTTTTGGCT 58.887 33.333 0.00 0.00 34.61 4.75
331 332 8.288689 TGTTTTATCTAGGTATCCTTTTTGGC 57.711 34.615 0.00 0.00 34.61 4.52
332 333 8.903820 CCTGTTTTATCTAGGTATCCTTTTTGG 58.096 37.037 0.00 0.00 34.61 3.28
333 334 8.406297 GCCTGTTTTATCTAGGTATCCTTTTTG 58.594 37.037 0.00 0.00 34.61 2.44
334 335 8.113462 TGCCTGTTTTATCTAGGTATCCTTTTT 58.887 33.333 0.00 0.00 34.61 1.94
335 336 7.556635 GTGCCTGTTTTATCTAGGTATCCTTTT 59.443 37.037 0.00 0.00 34.61 2.27
336 337 7.054751 GTGCCTGTTTTATCTAGGTATCCTTT 58.945 38.462 0.00 0.00 34.61 3.11
337 338 6.157994 TGTGCCTGTTTTATCTAGGTATCCTT 59.842 38.462 0.00 0.00 34.61 3.36
338 339 5.665812 TGTGCCTGTTTTATCTAGGTATCCT 59.334 40.000 0.00 0.00 37.71 3.24
339 340 5.925509 TGTGCCTGTTTTATCTAGGTATCC 58.074 41.667 0.00 0.00 34.06 2.59
340 341 9.726438 ATATTGTGCCTGTTTTATCTAGGTATC 57.274 33.333 0.00 0.00 34.06 2.24
354 355 9.456147 TGTTACTGTAAAATATATTGTGCCTGT 57.544 29.630 1.10 2.44 0.00 4.00
383 384 9.959721 AGTCAAACTACAACCAAATATAGACAT 57.040 29.630 0.00 0.00 0.00 3.06
390 391 9.577110 CTCGTATAGTCAAACTACAACCAAATA 57.423 33.333 0.00 0.00 32.84 1.40
391 392 7.064253 GCTCGTATAGTCAAACTACAACCAAAT 59.936 37.037 0.00 0.00 32.84 2.32
392 393 6.366877 GCTCGTATAGTCAAACTACAACCAAA 59.633 38.462 0.00 0.00 32.84 3.28
393 394 5.865552 GCTCGTATAGTCAAACTACAACCAA 59.134 40.000 0.00 0.00 32.84 3.67
394 395 5.184479 AGCTCGTATAGTCAAACTACAACCA 59.816 40.000 0.00 0.00 32.84 3.67
395 396 5.648572 AGCTCGTATAGTCAAACTACAACC 58.351 41.667 0.00 0.00 32.84 3.77
396 397 6.553524 AGAGCTCGTATAGTCAAACTACAAC 58.446 40.000 8.37 0.00 32.84 3.32
397 398 6.373495 TGAGAGCTCGTATAGTCAAACTACAA 59.627 38.462 8.37 0.00 32.84 2.41
398 399 5.878669 TGAGAGCTCGTATAGTCAAACTACA 59.121 40.000 8.37 0.00 32.84 2.74
399 400 6.193761 GTGAGAGCTCGTATAGTCAAACTAC 58.806 44.000 8.37 0.00 32.84 2.73
400 401 5.006455 CGTGAGAGCTCGTATAGTCAAACTA 59.994 44.000 8.37 0.00 34.82 2.24
401 402 4.201832 CGTGAGAGCTCGTATAGTCAAACT 60.202 45.833 8.37 0.00 0.00 2.66
402 403 4.029704 CGTGAGAGCTCGTATAGTCAAAC 58.970 47.826 8.37 0.00 0.00 2.93
403 404 3.688185 ACGTGAGAGCTCGTATAGTCAAA 59.312 43.478 8.37 0.00 41.80 2.69
404 405 3.063588 CACGTGAGAGCTCGTATAGTCAA 59.936 47.826 10.90 0.00 41.71 3.18
405 406 2.608090 CACGTGAGAGCTCGTATAGTCA 59.392 50.000 10.90 2.25 41.71 3.41
406 407 2.600320 GCACGTGAGAGCTCGTATAGTC 60.600 54.545 22.23 0.00 44.60 2.59
407 408 1.331138 GCACGTGAGAGCTCGTATAGT 59.669 52.381 22.23 3.64 44.60 2.12
408 409 2.025544 GCACGTGAGAGCTCGTATAG 57.974 55.000 22.23 2.98 44.60 1.31
424 425 7.137426 ACTAGTAAGTTATACGTGCATAGCAC 58.863 38.462 11.86 11.86 43.98 4.40
425 426 7.268199 ACTAGTAAGTTATACGTGCATAGCA 57.732 36.000 0.00 0.00 30.46 3.49
426 427 8.502387 AGTACTAGTAAGTTATACGTGCATAGC 58.498 37.037 3.61 0.00 37.15 2.97
483 484 4.387598 TCCCCGTCGACTTTCATTAAAAA 58.612 39.130 14.70 0.00 0.00 1.94
484 485 4.005487 TCCCCGTCGACTTTCATTAAAA 57.995 40.909 14.70 0.00 0.00 1.52
485 486 3.681593 TCCCCGTCGACTTTCATTAAA 57.318 42.857 14.70 0.00 0.00 1.52
486 487 3.592059 CTTCCCCGTCGACTTTCATTAA 58.408 45.455 14.70 0.00 0.00 1.40
487 488 2.675889 GCTTCCCCGTCGACTTTCATTA 60.676 50.000 14.70 0.00 0.00 1.90
488 489 1.944430 GCTTCCCCGTCGACTTTCATT 60.944 52.381 14.70 0.00 0.00 2.57
489 490 0.391263 GCTTCCCCGTCGACTTTCAT 60.391 55.000 14.70 0.00 0.00 2.57
490 491 1.005394 GCTTCCCCGTCGACTTTCA 60.005 57.895 14.70 0.00 0.00 2.69
491 492 1.740664 GGCTTCCCCGTCGACTTTC 60.741 63.158 14.70 0.00 0.00 2.62
492 493 2.346365 GGCTTCCCCGTCGACTTT 59.654 61.111 14.70 0.00 0.00 2.66
501 502 2.994186 TTCTATACAACGGCTTCCCC 57.006 50.000 0.00 0.00 0.00 4.81
502 503 3.376234 GGTTTTCTATACAACGGCTTCCC 59.624 47.826 0.00 0.00 0.00 3.97
503 504 3.376234 GGGTTTTCTATACAACGGCTTCC 59.624 47.826 0.00 0.00 0.00 3.46
504 505 4.004982 TGGGTTTTCTATACAACGGCTTC 58.995 43.478 0.00 0.00 0.00 3.86
505 506 4.007659 CTGGGTTTTCTATACAACGGCTT 58.992 43.478 0.00 0.00 0.00 4.35
506 507 3.606687 CTGGGTTTTCTATACAACGGCT 58.393 45.455 0.00 0.00 0.00 5.52
507 508 2.096980 GCTGGGTTTTCTATACAACGGC 59.903 50.000 0.00 0.00 0.00 5.68
508 509 2.350498 CGCTGGGTTTTCTATACAACGG 59.650 50.000 0.00 0.00 0.00 4.44
509 510 2.222953 GCGCTGGGTTTTCTATACAACG 60.223 50.000 0.00 0.00 0.00 4.10
510 511 2.096980 GGCGCTGGGTTTTCTATACAAC 59.903 50.000 7.64 0.00 0.00 3.32
511 512 2.361789 GGCGCTGGGTTTTCTATACAA 58.638 47.619 7.64 0.00 0.00 2.41
512 513 1.741055 CGGCGCTGGGTTTTCTATACA 60.741 52.381 8.83 0.00 0.00 2.29
513 514 0.935196 CGGCGCTGGGTTTTCTATAC 59.065 55.000 8.83 0.00 0.00 1.47
514 515 0.179067 CCGGCGCTGGGTTTTCTATA 60.179 55.000 28.47 0.00 0.00 1.31
515 516 1.451387 CCGGCGCTGGGTTTTCTAT 60.451 57.895 28.47 0.00 0.00 1.98
516 517 2.046700 CCGGCGCTGGGTTTTCTA 60.047 61.111 28.47 0.00 0.00 2.10
546 547 4.468689 GGAGGGTTTCCGGCTCCG 62.469 72.222 9.03 0.48 35.91 4.63
565 566 1.518102 GCAATTAATGCGGCATCGTTG 59.482 47.619 16.98 19.56 46.87 4.10
566 567 1.838913 GCAATTAATGCGGCATCGTT 58.161 45.000 16.98 8.58 46.87 3.85
580 581 1.000394 GGTTTGTACCTTGGCGCAATT 60.000 47.619 10.83 0.00 41.53 2.32
590 591 1.700739 TGGTGAATCCGGTTTGTACCT 59.299 47.619 20.61 0.00 42.66 3.08
591 592 2.188062 TGGTGAATCCGGTTTGTACC 57.812 50.000 16.22 16.22 41.33 3.34
592 593 4.729595 GATTTGGTGAATCCGGTTTGTAC 58.270 43.478 1.57 1.95 38.57 2.90
594 595 3.934457 GATTTGGTGAATCCGGTTTGT 57.066 42.857 1.57 0.00 38.57 2.83
626 627 2.761195 GGCAAGCCGTTTCGATCCC 61.761 63.158 0.00 0.00 0.00 3.85
627 628 2.791927 GGCAAGCCGTTTCGATCC 59.208 61.111 0.00 0.00 0.00 3.36
647 659 2.046892 AGGTGCTTGCAGCGTAGG 60.047 61.111 17.28 0.00 46.26 3.18
653 665 0.319297 GAAAAGGCAGGTGCTTGCAG 60.319 55.000 8.48 0.00 45.86 4.41
655 667 0.319297 CAGAAAAGGCAGGTGCTTGC 60.319 55.000 1.26 0.00 43.34 4.01
656 668 0.316204 CCAGAAAAGGCAGGTGCTTG 59.684 55.000 1.26 0.00 41.70 4.01
673 686 1.436195 GGCGCGATTGTGATTAGCCA 61.436 55.000 12.10 0.00 42.37 4.75
684 697 1.149987 TTAAAACGTCAGGCGCGATT 58.850 45.000 12.10 0.00 46.11 3.34
685 698 1.326548 GATTAAAACGTCAGGCGCGAT 59.673 47.619 12.10 0.00 46.11 4.58
688 701 0.247537 CGGATTAAAACGTCAGGCGC 60.248 55.000 0.00 0.00 46.11 6.53
690 703 1.084289 AGCGGATTAAAACGTCAGGC 58.916 50.000 0.00 0.00 0.00 4.85
691 704 1.202031 GCAGCGGATTAAAACGTCAGG 60.202 52.381 0.00 0.00 0.00 3.86
693 706 0.800012 GGCAGCGGATTAAAACGTCA 59.200 50.000 0.00 0.00 0.00 4.35
694 707 0.800012 TGGCAGCGGATTAAAACGTC 59.200 50.000 0.00 0.00 0.00 4.34
709 722 4.898765 TGCTGCTGGCTGTTGGCA 62.899 61.111 0.00 0.00 46.87 4.92
714 727 1.906824 AAATGCTGCTGCTGGCTGT 60.907 52.632 17.00 5.66 42.39 4.40
726 739 3.057033 CAGCTTAGCTCCAAACAAATGCT 60.057 43.478 2.68 0.00 36.40 3.79
727 740 3.248266 CAGCTTAGCTCCAAACAAATGC 58.752 45.455 2.68 0.00 36.40 3.56
786 799 3.130227 CTAGGCGGGAGTAGGCAC 58.870 66.667 0.00 0.00 36.55 5.01
791 804 1.202903 CCTAGAAGCTAGGCGGGAGTA 60.203 57.143 7.51 0.00 0.00 2.59
792 805 0.468400 CCTAGAAGCTAGGCGGGAGT 60.468 60.000 7.51 0.00 0.00 3.85
793 806 0.468400 ACCTAGAAGCTAGGCGGGAG 60.468 60.000 18.04 0.00 38.25 4.30
794 807 0.848735 TACCTAGAAGCTAGGCGGGA 59.151 55.000 18.04 1.76 38.25 5.14
795 808 1.926108 ATACCTAGAAGCTAGGCGGG 58.074 55.000 18.04 0.00 38.25 6.13
796 809 2.424246 GCTATACCTAGAAGCTAGGCGG 59.576 54.545 18.04 8.59 38.25 6.13
797 810 3.082548 TGCTATACCTAGAAGCTAGGCG 58.917 50.000 18.04 7.55 38.25 5.52
806 819 3.195610 CCGCCATGATTGCTATACCTAGA 59.804 47.826 0.00 0.00 0.00 2.43
865 880 4.799678 CGAGGCGGCTGGAATATATATAG 58.200 47.826 19.63 0.00 0.00 1.31
962 1007 2.738695 GCGTGCTCTGCTCTGCTTC 61.739 63.158 0.00 0.00 0.00 3.86
1059 1120 1.451927 CTTGAGCGCATTGGCCCTA 60.452 57.895 11.47 0.00 36.38 3.53
1087 1148 2.883253 GAGCGTGGCGAGCTTCTC 60.883 66.667 7.91 0.00 46.13 2.87
1238 1317 2.829458 GCTCCGCCTCGAGGTAGT 60.829 66.667 31.43 0.00 37.57 2.73
1449 1528 4.057428 GCGACCTGCTCACCGAGT 62.057 66.667 0.00 0.00 41.73 4.18
1669 1775 3.747976 GGCGCATTGGAAGCCGTT 61.748 61.111 10.83 0.00 41.53 4.44
1765 2070 4.916293 GAGCATCCCATCGCCGCA 62.916 66.667 0.00 0.00 0.00 5.69
2089 2561 2.892425 GGCGTTGGAGCGATGGAG 60.892 66.667 0.00 0.00 38.18 3.86
2116 2588 3.446570 GCCTGACATGGTGCTGGC 61.447 66.667 14.29 14.29 40.97 4.85
2134 2606 0.841961 CAGGGGATGATCAAGGCTGA 59.158 55.000 0.00 0.00 35.56 4.26
2162 2634 1.963515 GGACCAAAACACTTCTGGCAT 59.036 47.619 0.00 0.00 33.19 4.40
2233 2705 1.409064 TGAACGCTTGGAGATCGCTAT 59.591 47.619 0.00 0.00 0.00 2.97
2234 2706 0.815095 TGAACGCTTGGAGATCGCTA 59.185 50.000 0.00 0.00 0.00 4.26
2278 2750 3.462483 TGTCGAAAAAGCTACAGGACA 57.538 42.857 0.00 0.00 0.00 4.02
2280 2752 2.806244 GCTTGTCGAAAAAGCTACAGGA 59.194 45.455 21.13 0.00 45.31 3.86
2311 2783 4.999751 AAAGAAGAACAGAAAGCTAGCG 57.000 40.909 9.55 0.00 0.00 4.26
2480 2959 5.120830 GCACGAACTAGTGAAATTCAGACAT 59.879 40.000 0.00 0.00 44.43 3.06
2577 3058 0.811616 CTCTACGCTGCCCCAATCAC 60.812 60.000 0.00 0.00 0.00 3.06
2687 3185 1.004277 GGCAACCATACTGTTCCTCCA 59.996 52.381 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.