Multiple sequence alignment - TraesCS1B01G417200

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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 TraesCS1B01G417200 chr1B 100.000 3757 0 0 1 3757 641630332 641634088 0.000000e+00 6938
1 TraesCS1B01G417200 chr1D 92.839 2332 100 20 499 2796 464863065 464865363 0.000000e+00 3319
2 TraesCS1B01G417200 chr1D 89.302 645 43 14 3115 3757 464865837 464866457 0.000000e+00 785
3 TraesCS1B01G417200 chr1D 93.333 345 17 2 1 345 464862654 464862992 4.330000e-139 505
4 TraesCS1B01G417200 chr1D 93.469 245 10 4 2792 3034 464865600 464865840 3.570000e-95 359
5 TraesCS1B01G417200 chr1A 86.681 2380 147 72 499 2797 557153784 557156074 0.000000e+00 2483
6 TraesCS1B01G417200 chr1A 94.489 744 35 5 2792 3532 557156306 557157046 0.000000e+00 1142
7 TraesCS1B01G417200 chr1A 92.464 345 20 2 1 345 557153373 557153711 4.360000e-134 488
8 TraesCS1B01G417200 chr1A 85.185 459 46 10 3088 3533 406654907 406655356 5.720000e-123 451
9 TraesCS1B01G417200 chr1A 85.033 461 44 10 3088 3533 425068286 425067836 2.660000e-121 446
10 TraesCS1B01G417200 chr1A 94.667 225 11 1 3534 3757 557157084 557157308 7.720000e-92 348
11 TraesCS1B01G417200 chr3B 88.037 1839 111 38 1028 2797 657945743 657947541 0.000000e+00 2076
12 TraesCS1B01G417200 chr3B 87.500 272 21 3 3091 3349 777722140 777721869 6.100000e-78 302
13 TraesCS1B01G417200 chr3B 90.503 179 17 0 3355 3533 789488664 789488486 1.740000e-58 237
14 TraesCS1B01G417200 chr3B 85.463 227 25 7 3534 3755 789488447 789488224 2.920000e-56 230
15 TraesCS1B01G417200 chr3B 89.308 159 13 4 345 501 48860812 48860656 2.960000e-46 196
16 TraesCS1B01G417200 chr3B 90.265 113 8 1 1 113 648406431 648406322 1.090000e-30 145
17 TraesCS1B01G417200 chr5D 89.474 798 82 2 1088 1883 271481240 271480443 0.000000e+00 1007
18 TraesCS1B01G417200 chr5D 88.598 763 86 1 1121 1883 271475985 271475224 0.000000e+00 926
19 TraesCS1B01G417200 chr5D 88.568 761 87 0 1123 1883 271465567 271464807 0.000000e+00 924
20 TraesCS1B01G417200 chr5D 88.467 763 88 0 1121 1883 271470785 271470023 0.000000e+00 922
21 TraesCS1B01G417200 chr5D 87.018 285 27 6 1 285 271708159 271708433 2.820000e-81 313
22 TraesCS1B01G417200 chr5B 88.421 285 23 6 1 285 307881262 307880988 6.010000e-88 335
23 TraesCS1B01G417200 chr5B 88.364 275 19 1 3088 3349 101902543 101902269 6.060000e-83 318
24 TraesCS1B01G417200 chr5B 92.179 179 14 0 3355 3533 101902219 101902041 1.730000e-63 254
25 TraesCS1B01G417200 chr5B 86.784 227 21 7 3534 3755 101902004 101901782 1.040000e-60 244
26 TraesCS1B01G417200 chr5B 96.899 129 4 0 344 472 660144712 660144584 2.270000e-52 217
27 TraesCS1B01G417200 chr5B 95.489 133 5 1 342 473 44454350 44454482 1.060000e-50 211
28 TraesCS1B01G417200 chr5B 91.667 108 8 1 3253 3360 60809744 60809850 8.410000e-32 148
29 TraesCS1B01G417200 chr6B 80.580 448 55 22 3088 3533 157882359 157881942 2.180000e-82 316
30 TraesCS1B01G417200 chr6B 80.537 447 54 21 3088 3533 687969095 687968681 2.820000e-81 313
31 TraesCS1B01G417200 chr6B 87.226 274 22 4 3088 3348 92348663 92348390 2.190000e-77 300
32 TraesCS1B01G417200 chr6B 86.344 227 22 7 3534 3755 92348124 92347902 4.850000e-59 239
33 TraesCS1B01G417200 chr6B 89.944 179 18 0 3355 3533 92348339 92348161 8.120000e-57 231
34 TraesCS1B01G417200 chr6B 87.562 201 24 1 3534 3733 687968644 687968444 8.120000e-57 231
35 TraesCS1B01G417200 chr6B 92.466 146 8 2 346 490 660666014 660665871 4.920000e-49 206
36 TraesCS1B01G417200 chr2B 80.537 447 57 20 3088 3533 560727332 560727749 2.180000e-82 316
37 TraesCS1B01G417200 chr2B 87.562 201 24 1 3534 3733 560727786 560727986 8.120000e-57 231
38 TraesCS1B01G417200 chr5A 87.455 279 25 6 7 285 361447505 361447237 2.820000e-81 313
39 TraesCS1B01G417200 chr5A 85.069 288 41 2 1088 1373 361365284 361364997 3.670000e-75 292
40 TraesCS1B01G417200 chr5A 94.118 136 8 0 346 481 240225788 240225653 1.370000e-49 207
41 TraesCS1B01G417200 chr3D 88.000 275 20 1 3088 3349 209469090 209468816 2.820000e-81 313
42 TraesCS1B01G417200 chrUn 86.765 272 23 3 3091 3349 41735718 41735447 1.320000e-74 291
43 TraesCS1B01G417200 chrUn 90.503 179 17 0 3355 3533 41735397 41735219 1.740000e-58 237
44 TraesCS1B01G417200 chrUn 90.503 179 17 0 3355 3533 373663680 373663858 1.740000e-58 237
45 TraesCS1B01G417200 chrUn 85.463 227 25 7 3534 3755 41734986 41734763 2.920000e-56 230
46 TraesCS1B01G417200 chrUn 81.919 271 37 3 1117 1387 31027372 31027114 6.320000e-53 219
47 TraesCS1B01G417200 chr3A 88.546 227 21 2 3534 3755 722426350 722426124 1.720000e-68 270
48 TraesCS1B01G417200 chr3A 88.542 192 16 4 3345 3533 722426574 722426386 1.050000e-55 228
49 TraesCS1B01G417200 chr3A 92.958 142 9 1 343 483 535225340 535225199 4.920000e-49 206
50 TraesCS1B01G417200 chr4B 89.944 179 18 0 3355 3533 604114725 604114903 8.120000e-57 231
51 TraesCS1B01G417200 chr2D 96.947 131 4 0 343 473 619720675 619720545 1.760000e-53 220
52 TraesCS1B01G417200 chr2D 93.662 142 6 3 331 472 550646368 550646230 3.800000e-50 209
53 TraesCS1B01G417200 chr2D 87.234 94 11 1 1595 1687 648365784 648365877 5.130000e-19 106
54 TraesCS1B01G417200 chr4A 88.344 163 14 5 314 476 727088784 727088941 1.380000e-44 191


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 TraesCS1B01G417200 chr1B 641630332 641634088 3756 False 6938.000000 6938 100.00000 1 3757 1 chr1B.!!$F1 3756
1 TraesCS1B01G417200 chr1D 464862654 464866457 3803 False 1242.000000 3319 92.23575 1 3757 4 chr1D.!!$F1 3756
2 TraesCS1B01G417200 chr1A 557153373 557157308 3935 False 1115.250000 2483 92.07525 1 3757 4 chr1A.!!$F2 3756
3 TraesCS1B01G417200 chr3B 657945743 657947541 1798 False 2076.000000 2076 88.03700 1028 2797 1 chr3B.!!$F1 1769
4 TraesCS1B01G417200 chr5D 271480443 271481240 797 True 1007.000000 1007 89.47400 1088 1883 1 chr5D.!!$R4 795
5 TraesCS1B01G417200 chr5D 271475224 271475985 761 True 926.000000 926 88.59800 1121 1883 1 chr5D.!!$R3 762
6 TraesCS1B01G417200 chr5D 271464807 271465567 760 True 924.000000 924 88.56800 1123 1883 1 chr5D.!!$R1 760
7 TraesCS1B01G417200 chr5D 271470023 271470785 762 True 922.000000 922 88.46700 1121 1883 1 chr5D.!!$R2 762
8 TraesCS1B01G417200 chr5B 101901782 101902543 761 True 272.000000 318 89.10900 3088 3755 3 chr5B.!!$R3 667
9 TraesCS1B01G417200 chr6B 687968444 687969095 651 True 272.000000 313 84.04950 3088 3733 2 chr6B.!!$R4 645
10 TraesCS1B01G417200 chr6B 92347902 92348663 761 True 256.666667 300 87.83800 3088 3755 3 chr6B.!!$R3 667
11 TraesCS1B01G417200 chr2B 560727332 560727986 654 False 273.500000 316 84.04950 3088 3733 2 chr2B.!!$F1 645
12 TraesCS1B01G417200 chrUn 41734763 41735718 955 True 252.666667 291 87.57700 3091 3755 3 chrUn.!!$R2 664

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
662 671 0.179048 TGACACAGGGCACAAGTCAG 60.179 55.0 4.31 0.0 34.59 3.51 F
1678 1756 0.320374 CTTTCCTGTACCTGCGGACA 59.680 55.0 0.00 0.0 0.00 4.02 F
2198 2282 1.166531 GCGTGCTTTGGACAAGGAGT 61.167 55.0 0.00 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2295 2382 0.035881 CTCCTCAGGTGCTTGCTTGA 59.964 55.000 0.0 0.0 0.0 3.02 R
2691 2823 0.897863 CCAGAAATTCCCCAACGCCA 60.898 55.000 0.0 0.0 0.0 5.69 R
3624 4377 2.975075 AGGATAAGAGATGAGCTGCCT 58.025 47.619 0.0 0.0 0.0 4.75 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
50 51 4.683832 AGTATTTCTTCGAGAACATCCGG 58.316 43.478 0.00 0.00 33.26 5.14
74 75 3.393089 TTTTCAGACTGAGCTCCTGTC 57.607 47.619 21.98 21.98 42.11 3.51
77 78 1.102154 CAGACTGAGCTCCTGTCGAT 58.898 55.000 22.71 10.45 45.12 3.59
108 109 3.709141 GGCAAGATAGTCCTTCTTCTCCT 59.291 47.826 0.00 0.00 31.11 3.69
109 110 4.442753 GGCAAGATAGTCCTTCTTCTCCTG 60.443 50.000 0.00 0.00 31.11 3.86
110 111 4.161377 GCAAGATAGTCCTTCTTCTCCTGT 59.839 45.833 0.00 0.00 31.11 4.00
111 112 5.337975 GCAAGATAGTCCTTCTTCTCCTGTT 60.338 44.000 0.00 0.00 31.11 3.16
112 113 6.706295 CAAGATAGTCCTTCTTCTCCTGTTT 58.294 40.000 0.00 0.00 31.11 2.83
163 164 5.885912 CACTTGCTAAACATTACACCCCTAT 59.114 40.000 0.00 0.00 0.00 2.57
185 186 3.184379 TGAGAAAAACAAGAGTGATCGCG 59.816 43.478 0.00 0.00 0.00 5.87
225 226 1.003718 CAAGTGGTCGAGGGGGAAC 60.004 63.158 0.00 0.00 0.00 3.62
287 288 2.972505 AAACGCGCCACCTGTGAG 60.973 61.111 5.73 0.00 0.00 3.51
336 337 4.394300 GGTGTATGATCTATGATGCCAAGC 59.606 45.833 0.00 0.00 0.00 4.01
345 346 3.572632 ATGATGCCAAGCTAGTGATGT 57.427 42.857 0.00 0.00 0.00 3.06
346 347 4.694760 ATGATGCCAAGCTAGTGATGTA 57.305 40.909 0.00 0.00 0.00 2.29
347 348 3.797039 TGATGCCAAGCTAGTGATGTAC 58.203 45.455 0.00 0.00 0.00 2.90
349 350 3.526931 TGCCAAGCTAGTGATGTACTC 57.473 47.619 0.00 0.00 40.89 2.59
350 351 2.168521 TGCCAAGCTAGTGATGTACTCC 59.831 50.000 0.00 0.00 40.89 3.85
351 352 2.483889 GCCAAGCTAGTGATGTACTCCC 60.484 54.545 0.00 0.00 40.89 4.30
353 354 3.068873 CCAAGCTAGTGATGTACTCCCTC 59.931 52.174 0.00 0.00 40.89 4.30
354 355 2.952116 AGCTAGTGATGTACTCCCTCC 58.048 52.381 0.00 0.00 40.89 4.30
355 356 1.609555 GCTAGTGATGTACTCCCTCCG 59.390 57.143 0.00 0.00 40.89 4.63
356 357 2.933573 CTAGTGATGTACTCCCTCCGT 58.066 52.381 0.00 0.00 40.89 4.69
357 358 1.765230 AGTGATGTACTCCCTCCGTC 58.235 55.000 0.00 0.00 33.17 4.79
358 359 1.285373 AGTGATGTACTCCCTCCGTCT 59.715 52.381 0.00 0.00 33.17 4.18
359 360 1.405821 GTGATGTACTCCCTCCGTCTG 59.594 57.143 0.00 0.00 0.00 3.51
360 361 1.033574 GATGTACTCCCTCCGTCTGG 58.966 60.000 0.00 0.00 0.00 3.86
362 363 0.406750 TGTACTCCCTCCGTCTGGAA 59.593 55.000 0.00 0.00 45.87 3.53
364 365 2.108970 GTACTCCCTCCGTCTGGAAAT 58.891 52.381 0.00 0.00 45.87 2.17
365 366 2.544844 ACTCCCTCCGTCTGGAAATA 57.455 50.000 0.00 0.00 45.87 1.40
368 369 2.766828 CTCCCTCCGTCTGGAAATACTT 59.233 50.000 0.00 0.00 45.87 2.24
369 370 2.500098 TCCCTCCGTCTGGAAATACTTG 59.500 50.000 0.00 0.00 45.87 3.16
370 371 2.236395 CCCTCCGTCTGGAAATACTTGT 59.764 50.000 0.00 0.00 45.87 3.16
371 372 3.522553 CCTCCGTCTGGAAATACTTGTC 58.477 50.000 0.00 0.00 45.87 3.18
372 373 3.056107 CCTCCGTCTGGAAATACTTGTCA 60.056 47.826 0.00 0.00 45.87 3.58
373 374 4.383118 CCTCCGTCTGGAAATACTTGTCAT 60.383 45.833 0.00 0.00 45.87 3.06
374 375 4.755411 TCCGTCTGGAAATACTTGTCATC 58.245 43.478 0.00 0.00 42.85 2.92
375 376 4.221924 TCCGTCTGGAAATACTTGTCATCA 59.778 41.667 0.00 0.00 42.85 3.07
377 378 5.411361 CCGTCTGGAAATACTTGTCATCAAA 59.589 40.000 0.00 0.00 37.49 2.69
379 380 7.362056 CCGTCTGGAAATACTTGTCATCAAAAT 60.362 37.037 0.00 0.00 37.49 1.82
380 381 7.482743 CGTCTGGAAATACTTGTCATCAAAATG 59.517 37.037 0.00 0.00 32.87 2.32
382 383 7.669304 TCTGGAAATACTTGTCATCAAAATGGA 59.331 33.333 0.00 0.00 33.42 3.41
384 385 9.473007 TGGAAATACTTGTCATCAAAATGGATA 57.527 29.630 0.00 0.00 33.42 2.59
391 392 9.865321 ACTTGTCATCAAAATGGATAAAAGATG 57.135 29.630 0.00 0.00 33.42 2.90
459 465 7.690228 TCCATTTTAATGACGAGTATTTTCGG 58.310 34.615 4.07 0.00 38.70 4.30
460 466 7.549842 TCCATTTTAATGACGAGTATTTTCGGA 59.450 33.333 4.07 0.00 38.70 4.55
461 467 7.638683 CCATTTTAATGACGAGTATTTTCGGAC 59.361 37.037 4.07 0.00 38.70 4.79
462 468 5.937165 TTAATGACGAGTATTTTCGGACG 57.063 39.130 0.00 0.00 44.57 4.79
463 469 2.267188 TGACGAGTATTTTCGGACGG 57.733 50.000 0.00 0.00 44.57 4.79
464 470 1.811965 TGACGAGTATTTTCGGACGGA 59.188 47.619 0.00 0.00 44.57 4.69
465 471 2.159476 TGACGAGTATTTTCGGACGGAG 60.159 50.000 0.00 0.00 44.57 4.63
466 472 1.133790 ACGAGTATTTTCGGACGGAGG 59.866 52.381 0.00 0.00 44.57 4.30
467 473 1.535437 CGAGTATTTTCGGACGGAGGG 60.535 57.143 0.00 0.00 36.95 4.30
468 474 1.753073 GAGTATTTTCGGACGGAGGGA 59.247 52.381 0.00 0.00 0.00 4.20
469 475 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
470 476 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
471 477 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
472 478 1.856629 TTTTCGGACGGAGGGAGTAT 58.143 50.000 0.00 0.00 0.00 2.12
473 479 1.108776 TTTCGGACGGAGGGAGTATG 58.891 55.000 0.00 0.00 0.00 2.39
474 480 0.256752 TTCGGACGGAGGGAGTATGA 59.743 55.000 0.00 0.00 0.00 2.15
475 481 0.477204 TCGGACGGAGGGAGTATGAT 59.523 55.000 0.00 0.00 0.00 2.45
476 482 0.882474 CGGACGGAGGGAGTATGATC 59.118 60.000 0.00 0.00 0.00 2.92
477 483 1.545875 CGGACGGAGGGAGTATGATCT 60.546 57.143 0.00 0.00 0.00 2.75
478 484 2.290134 CGGACGGAGGGAGTATGATCTA 60.290 54.545 0.00 0.00 0.00 1.98
479 485 3.622704 CGGACGGAGGGAGTATGATCTAT 60.623 52.174 0.00 0.00 0.00 1.98
480 486 3.697045 GGACGGAGGGAGTATGATCTATG 59.303 52.174 0.00 0.00 0.00 2.23
481 487 4.567958 GGACGGAGGGAGTATGATCTATGA 60.568 50.000 0.00 0.00 0.00 2.15
482 488 5.197451 GACGGAGGGAGTATGATCTATGAT 58.803 45.833 0.00 0.00 0.00 2.45
483 489 5.197451 ACGGAGGGAGTATGATCTATGATC 58.803 45.833 0.00 0.98 0.00 2.92
484 490 5.044476 ACGGAGGGAGTATGATCTATGATCT 60.044 44.000 8.71 0.00 0.00 2.75
485 491 6.158871 ACGGAGGGAGTATGATCTATGATCTA 59.841 42.308 8.71 0.00 0.00 1.98
486 492 7.147213 ACGGAGGGAGTATGATCTATGATCTAT 60.147 40.741 8.71 4.28 0.00 1.98
487 493 7.174772 CGGAGGGAGTATGATCTATGATCTATG 59.825 44.444 8.71 0.00 0.00 2.23
488 494 8.224025 GGAGGGAGTATGATCTATGATCTATGA 58.776 40.741 8.71 0.00 0.00 2.15
489 495 9.812347 GAGGGAGTATGATCTATGATCTATGAT 57.188 37.037 8.71 0.00 0.00 2.45
490 496 9.590828 AGGGAGTATGATCTATGATCTATGATG 57.409 37.037 8.71 0.00 0.00 3.07
491 497 8.306038 GGGAGTATGATCTATGATCTATGATGC 58.694 40.741 8.71 0.00 0.00 3.91
492 498 8.306038 GGAGTATGATCTATGATCTATGATGCC 58.694 40.741 8.71 0.00 0.00 4.40
493 499 8.779096 AGTATGATCTATGATCTATGATGCCA 57.221 34.615 8.71 0.00 0.00 4.92
494 500 9.210228 AGTATGATCTATGATCTATGATGCCAA 57.790 33.333 8.71 0.00 0.00 4.52
495 501 9.478768 GTATGATCTATGATCTATGATGCCAAG 57.521 37.037 8.71 0.00 0.00 3.61
496 502 7.492077 TGATCTATGATCTATGATGCCAAGT 57.508 36.000 8.71 0.00 0.00 3.16
497 503 7.914859 TGATCTATGATCTATGATGCCAAGTT 58.085 34.615 8.71 0.00 0.00 2.66
505 511 1.725641 TGATGCCAAGTTAGTGAGCG 58.274 50.000 0.00 0.00 0.00 5.03
599 605 2.978156 TTCCCAAGCACTTGAGGATT 57.022 45.000 11.94 0.00 42.93 3.01
602 608 2.108075 TCCCAAGCACTTGAGGATTGAA 59.892 45.455 11.94 0.00 42.93 2.69
605 611 4.706476 CCCAAGCACTTGAGGATTGAAATA 59.294 41.667 11.94 0.00 42.93 1.40
613 619 6.635641 CACTTGAGGATTGAAATATTGATGCG 59.364 38.462 0.00 0.00 0.00 4.73
662 671 0.179048 TGACACAGGGCACAAGTCAG 60.179 55.000 4.31 0.00 34.59 3.51
717 735 2.795973 CGCCCAGTGTCATGCATG 59.204 61.111 21.07 21.07 0.00 4.06
718 736 2.493030 GCCCAGTGTCATGCATGC 59.507 61.111 22.25 11.82 0.00 4.06
719 737 2.795973 CCCAGTGTCATGCATGCG 59.204 61.111 22.25 7.28 0.00 4.73
739 757 5.412640 TGCGTAGATTCACCGAAATTTAGA 58.587 37.500 0.00 0.00 0.00 2.10
740 758 5.518847 TGCGTAGATTCACCGAAATTTAGAG 59.481 40.000 0.00 0.00 0.00 2.43
771 793 1.000283 GGAGACACTCACAGGTCACAG 60.000 57.143 0.00 0.00 36.50 3.66
863 895 2.498726 CAGCGAGAGGGAGGAAGC 59.501 66.667 0.00 0.00 0.00 3.86
864 896 2.057408 CAGCGAGAGGGAGGAAGCT 61.057 63.158 0.00 0.00 35.06 3.74
865 897 1.756561 AGCGAGAGGGAGGAAGCTC 60.757 63.158 0.00 0.00 0.00 4.09
866 898 3.115556 CGAGAGGGAGGAAGCTCG 58.884 66.667 0.00 0.00 43.25 5.03
867 899 2.811799 GAGAGGGAGGAAGCTCGC 59.188 66.667 0.00 0.00 36.68 5.03
868 900 3.132481 GAGAGGGAGGAAGCTCGCG 62.132 68.421 0.00 0.00 40.61 5.87
869 901 4.882396 GAGGGAGGAAGCTCGCGC 62.882 72.222 0.00 0.00 40.61 6.86
900 932 1.227263 GAAGCAGATAAGCGCGGGA 60.227 57.895 8.83 0.00 40.15 5.14
903 935 1.300931 GCAGATAAGCGCGGGATGA 60.301 57.895 8.83 0.00 0.00 2.92
907 939 0.320771 GATAAGCGCGGGATGACCAT 60.321 55.000 8.83 0.00 40.22 3.55
911 943 2.406616 GCGCGGGATGACCATGTTT 61.407 57.895 8.83 0.00 40.22 2.83
912 944 1.429021 CGCGGGATGACCATGTTTG 59.571 57.895 0.00 0.00 40.22 2.93
1012 1075 3.119919 GCGGTCTCGTATAATAGGGTCTG 60.120 52.174 0.00 0.00 38.89 3.51
1678 1756 0.320374 CTTTCCTGTACCTGCGGACA 59.680 55.000 0.00 0.00 0.00 4.02
1727 1805 1.828768 CTGGACATGGAGGAGGAGC 59.171 63.158 0.00 0.00 0.00 4.70
1760 1838 3.002583 TGATGGCGGCAGTGGAGA 61.003 61.111 19.29 0.00 0.00 3.71
1800 1878 2.884639 CCAAGAAGTGGGAAAACGTGAT 59.115 45.455 0.00 0.00 44.64 3.06
1864 1942 1.373435 CCAGGTTGTGCCGGAGTTA 59.627 57.895 5.05 0.00 43.70 2.24
1884 1962 2.636830 AGGCATGAAGATTGAGGTTCG 58.363 47.619 0.00 0.00 0.00 3.95
1958 2036 1.529244 GTTGGGACTGGCAGCAAGT 60.529 57.895 15.89 0.45 0.00 3.16
2079 2163 1.272092 TGTGATGGAAGAAGCCCAAGG 60.272 52.381 0.00 0.00 37.22 3.61
2198 2282 1.166531 GCGTGCTTTGGACAAGGAGT 61.167 55.000 0.00 0.00 0.00 3.85
2292 2379 6.365520 AGAAAAGTAAGGGCAAGAAAGAAGA 58.634 36.000 0.00 0.00 0.00 2.87
2295 2382 8.885693 AAAAGTAAGGGCAAGAAAGAAGATAT 57.114 30.769 0.00 0.00 0.00 1.63
2355 2466 5.946377 GCAAGAAGAATAAGGGGAAGAAGAA 59.054 40.000 0.00 0.00 0.00 2.52
2356 2467 6.094742 GCAAGAAGAATAAGGGGAAGAAGAAG 59.905 42.308 0.00 0.00 0.00 2.85
2357 2468 7.398024 CAAGAAGAATAAGGGGAAGAAGAAGA 58.602 38.462 0.00 0.00 0.00 2.87
2398 2509 6.017275 GTGATTCTGATGATGGTGAAATCCTC 60.017 42.308 0.00 0.00 0.00 3.71
2407 2518 4.656100 TGGTGAAATCCTCTTTGATGGA 57.344 40.909 0.00 0.00 36.72 3.41
2467 2578 1.284313 AGAAGAGCAGGGGGAAGAAG 58.716 55.000 0.00 0.00 0.00 2.85
2536 2668 2.146342 ACTCTTGTCAGTTGAATGCCG 58.854 47.619 0.00 0.00 0.00 5.69
2557 2689 4.937620 CCGATCTCTTGAATTGAGACCAAA 59.062 41.667 0.00 0.00 42.46 3.28
2691 2823 6.704289 TTATACTGCTGAGTGTAATACGGT 57.296 37.500 0.00 0.00 32.51 4.83
2697 2829 1.273048 TGAGTGTAATACGGTGGCGTT 59.727 47.619 0.00 0.00 0.00 4.84
2846 3254 4.754372 TGATCAATCACTTGTGACTTGC 57.246 40.909 5.53 2.64 33.87 4.01
2852 3260 4.558538 ATCACTTGTGACTTGCTGAAAC 57.441 40.909 5.53 0.00 0.00 2.78
2858 3266 1.013596 TGACTTGCTGAAACGTGTGG 58.986 50.000 0.00 0.00 0.00 4.17
2867 3275 2.422127 CTGAAACGTGTGGTGGACTTTT 59.578 45.455 0.00 0.00 0.00 2.27
2982 3391 0.111253 CAGCAGGAAAGGGGTGACTT 59.889 55.000 0.00 0.00 34.58 3.01
3008 3417 2.031157 GCTGAAACGGCAGAGCTTTTTA 60.031 45.455 6.41 0.00 38.14 1.52
3059 3469 9.495572 CTTTTTCATTGGTATATACTCCCTCTC 57.504 37.037 12.54 0.00 0.00 3.20
3123 3533 9.959749 ATGTTTATATATTCATTTTCCGCGTTT 57.040 25.926 4.92 0.00 0.00 3.60
3140 3550 4.201576 GCGTTTTCTAAAGTCTGAACACG 58.798 43.478 9.18 9.18 44.24 4.49
3177 3587 8.814931 TCAATTGGATCAAAATGGTTCTAATGT 58.185 29.630 5.42 0.00 0.00 2.71
3306 3729 3.910627 TCTCCCTTCTTCCTTAAACTGCT 59.089 43.478 0.00 0.00 0.00 4.24
3322 3745 9.818796 CTTAAACTGCTTCTAGATTTTCTGAAC 57.181 33.333 0.00 0.00 0.00 3.18
3431 3950 5.009710 CAGATGTTTATGAGGCATGCATTCT 59.990 40.000 21.36 7.41 0.00 2.40
3433 3952 5.664294 TGTTTATGAGGCATGCATTCTTT 57.336 34.783 21.36 10.49 0.00 2.52
3565 4318 2.665519 CGCAGTACACTTGGATTTGCAC 60.666 50.000 0.00 0.00 0.00 4.57
3624 4377 4.058417 TCCATGGTTTTGGATGATTGGA 57.942 40.909 12.58 0.00 40.90 3.53
3625 4378 4.025360 TCCATGGTTTTGGATGATTGGAG 58.975 43.478 12.58 0.00 40.90 3.86
3637 4390 1.140452 TGATTGGAGGCAGCTCATCTC 59.860 52.381 0.00 0.00 0.00 2.75
3638 4391 1.417145 GATTGGAGGCAGCTCATCTCT 59.583 52.381 0.00 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 3.080319 AGGAGCTCAGTCTGAAAAATGC 58.920 45.455 17.19 3.53 0.00 3.56
74 75 1.386533 ATCTTGCCTGCCTGAAATCG 58.613 50.000 0.00 0.00 0.00 3.34
77 78 2.356125 GGACTATCTTGCCTGCCTGAAA 60.356 50.000 0.00 0.00 0.00 2.69
86 87 3.709141 AGGAGAAGAAGGACTATCTTGCC 59.291 47.826 0.00 0.00 37.26 4.52
108 109 4.021544 AGAGTTGCCTGTTCAAACAAAACA 60.022 37.500 13.65 0.00 38.66 2.83
109 110 4.494484 AGAGTTGCCTGTTCAAACAAAAC 58.506 39.130 0.00 3.18 38.66 2.43
110 111 4.219507 TGAGAGTTGCCTGTTCAAACAAAA 59.780 37.500 0.00 0.00 38.66 2.44
111 112 3.761218 TGAGAGTTGCCTGTTCAAACAAA 59.239 39.130 0.00 0.00 38.66 2.83
112 113 3.351740 TGAGAGTTGCCTGTTCAAACAA 58.648 40.909 0.00 0.00 38.66 2.83
163 164 3.184379 CGCGATCACTCTTGTTTTTCTCA 59.816 43.478 0.00 0.00 0.00 3.27
185 186 0.601558 TGAGTGCGACCTGGTAAGTC 59.398 55.000 0.00 2.01 0.00 3.01
213 214 1.765597 AAGGTGTGTTCCCCCTCGAC 61.766 60.000 0.00 0.00 0.00 4.20
240 241 3.075005 GGAGCGAGGCCTGTACCA 61.075 66.667 12.00 0.00 0.00 3.25
287 288 2.226674 GCTGCTTAACCTTGTGACTTCC 59.773 50.000 0.00 0.00 0.00 3.46
336 337 2.879646 GACGGAGGGAGTACATCACTAG 59.120 54.545 0.00 0.00 43.76 2.57
345 346 2.544844 ATTTCCAGACGGAGGGAGTA 57.455 50.000 0.00 0.00 44.10 2.59
346 347 2.108970 GTATTTCCAGACGGAGGGAGT 58.891 52.381 0.00 0.00 44.10 3.85
347 348 2.389715 AGTATTTCCAGACGGAGGGAG 58.610 52.381 0.00 0.00 44.10 4.30
349 350 2.236395 ACAAGTATTTCCAGACGGAGGG 59.764 50.000 0.00 0.00 44.10 4.30
350 351 3.056107 TGACAAGTATTTCCAGACGGAGG 60.056 47.826 0.00 0.00 44.10 4.30
351 352 4.188247 TGACAAGTATTTCCAGACGGAG 57.812 45.455 0.00 0.00 44.10 4.63
353 354 4.503910 TGATGACAAGTATTTCCAGACGG 58.496 43.478 0.00 0.00 0.00 4.79
354 355 6.480524 TTTGATGACAAGTATTTCCAGACG 57.519 37.500 0.00 0.00 37.32 4.18
355 356 7.756722 CCATTTTGATGACAAGTATTTCCAGAC 59.243 37.037 0.00 0.00 37.32 3.51
356 357 7.669304 TCCATTTTGATGACAAGTATTTCCAGA 59.331 33.333 0.00 0.00 37.32 3.86
357 358 7.829725 TCCATTTTGATGACAAGTATTTCCAG 58.170 34.615 0.00 0.00 37.32 3.86
358 359 7.773489 TCCATTTTGATGACAAGTATTTCCA 57.227 32.000 0.00 0.00 37.32 3.53
365 366 9.865321 CATCTTTTATCCATTTTGATGACAAGT 57.135 29.630 0.00 0.00 37.32 3.16
433 439 8.342634 CCGAAAATACTCGTCATTAAAATGGAT 58.657 33.333 3.00 0.00 37.11 3.41
434 440 7.549842 TCCGAAAATACTCGTCATTAAAATGGA 59.450 33.333 3.00 0.00 37.11 3.41
435 441 7.638683 GTCCGAAAATACTCGTCATTAAAATGG 59.361 37.037 3.00 0.00 37.11 3.16
436 442 7.369800 CGTCCGAAAATACTCGTCATTAAAATG 59.630 37.037 0.00 0.00 37.11 2.32
437 443 7.396419 CGTCCGAAAATACTCGTCATTAAAAT 58.604 34.615 0.00 0.00 37.11 1.82
438 444 6.183360 CCGTCCGAAAATACTCGTCATTAAAA 60.183 38.462 0.00 0.00 37.11 1.52
439 445 5.289193 CCGTCCGAAAATACTCGTCATTAAA 59.711 40.000 0.00 0.00 37.11 1.52
440 446 4.799949 CCGTCCGAAAATACTCGTCATTAA 59.200 41.667 0.00 0.00 37.11 1.40
441 447 4.096231 TCCGTCCGAAAATACTCGTCATTA 59.904 41.667 0.00 0.00 37.11 1.90
442 448 3.119388 TCCGTCCGAAAATACTCGTCATT 60.119 43.478 0.00 0.00 37.11 2.57
443 449 2.424601 TCCGTCCGAAAATACTCGTCAT 59.575 45.455 0.00 0.00 37.11 3.06
444 450 1.811965 TCCGTCCGAAAATACTCGTCA 59.188 47.619 0.00 0.00 37.11 4.35
445 451 2.448219 CTCCGTCCGAAAATACTCGTC 58.552 52.381 0.00 0.00 37.11 4.20
446 452 1.133790 CCTCCGTCCGAAAATACTCGT 59.866 52.381 0.00 0.00 37.11 4.18
447 453 1.535437 CCCTCCGTCCGAAAATACTCG 60.535 57.143 0.00 0.00 38.58 4.18
448 454 1.753073 TCCCTCCGTCCGAAAATACTC 59.247 52.381 0.00 0.00 0.00 2.59
449 455 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
450 456 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
451 457 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
452 458 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
453 459 1.479323 CATACTCCCTCCGTCCGAAAA 59.521 52.381 0.00 0.00 0.00 2.29
454 460 1.108776 CATACTCCCTCCGTCCGAAA 58.891 55.000 0.00 0.00 0.00 3.46
455 461 0.256752 TCATACTCCCTCCGTCCGAA 59.743 55.000 0.00 0.00 0.00 4.30
456 462 0.477204 ATCATACTCCCTCCGTCCGA 59.523 55.000 0.00 0.00 0.00 4.55
457 463 0.882474 GATCATACTCCCTCCGTCCG 59.118 60.000 0.00 0.00 0.00 4.79
458 464 2.296073 AGATCATACTCCCTCCGTCC 57.704 55.000 0.00 0.00 0.00 4.79
459 465 4.590918 TCATAGATCATACTCCCTCCGTC 58.409 47.826 0.00 0.00 0.00 4.79
460 466 4.659529 TCATAGATCATACTCCCTCCGT 57.340 45.455 0.00 0.00 0.00 4.69
461 467 5.445069 AGATCATAGATCATACTCCCTCCG 58.555 45.833 9.43 0.00 0.00 4.63
462 468 8.224025 TCATAGATCATAGATCATACTCCCTCC 58.776 40.741 9.43 0.00 0.00 4.30
463 469 9.812347 ATCATAGATCATAGATCATACTCCCTC 57.188 37.037 9.43 0.00 0.00 4.30
464 470 9.590828 CATCATAGATCATAGATCATACTCCCT 57.409 37.037 9.43 0.00 0.00 4.20
465 471 8.306038 GCATCATAGATCATAGATCATACTCCC 58.694 40.741 9.43 0.00 0.00 4.30
466 472 8.306038 GGCATCATAGATCATAGATCATACTCC 58.694 40.741 9.43 0.00 0.00 3.85
467 473 8.858094 TGGCATCATAGATCATAGATCATACTC 58.142 37.037 9.43 0.00 0.00 2.59
468 474 8.779096 TGGCATCATAGATCATAGATCATACT 57.221 34.615 9.43 0.00 0.00 2.12
469 475 9.478768 CTTGGCATCATAGATCATAGATCATAC 57.521 37.037 9.43 0.00 0.00 2.39
470 476 9.210228 ACTTGGCATCATAGATCATAGATCATA 57.790 33.333 9.43 0.69 0.00 2.15
471 477 8.091952 ACTTGGCATCATAGATCATAGATCAT 57.908 34.615 9.43 0.00 0.00 2.45
472 478 7.492077 ACTTGGCATCATAGATCATAGATCA 57.508 36.000 9.43 0.00 0.00 2.92
473 479 9.531942 CTAACTTGGCATCATAGATCATAGATC 57.468 37.037 0.00 0.00 0.00 2.75
474 480 9.044646 ACTAACTTGGCATCATAGATCATAGAT 57.955 33.333 0.00 0.00 0.00 1.98
475 481 8.309656 CACTAACTTGGCATCATAGATCATAGA 58.690 37.037 0.00 0.00 0.00 1.98
476 482 8.309656 TCACTAACTTGGCATCATAGATCATAG 58.690 37.037 0.00 0.00 0.00 2.23
477 483 8.193953 TCACTAACTTGGCATCATAGATCATA 57.806 34.615 0.00 0.00 0.00 2.15
478 484 7.071069 TCACTAACTTGGCATCATAGATCAT 57.929 36.000 0.00 0.00 0.00 2.45
479 485 6.484364 TCACTAACTTGGCATCATAGATCA 57.516 37.500 0.00 0.00 0.00 2.92
480 486 5.407995 GCTCACTAACTTGGCATCATAGATC 59.592 44.000 7.64 0.00 0.00 2.75
481 487 5.303971 GCTCACTAACTTGGCATCATAGAT 58.696 41.667 7.64 0.00 0.00 1.98
482 488 4.697514 GCTCACTAACTTGGCATCATAGA 58.302 43.478 7.64 0.00 0.00 1.98
483 489 3.492383 CGCTCACTAACTTGGCATCATAG 59.508 47.826 0.00 0.00 0.00 2.23
484 490 3.118775 ACGCTCACTAACTTGGCATCATA 60.119 43.478 0.00 0.00 0.00 2.15
485 491 2.283298 CGCTCACTAACTTGGCATCAT 58.717 47.619 0.00 0.00 0.00 2.45
486 492 1.001974 ACGCTCACTAACTTGGCATCA 59.998 47.619 0.00 0.00 0.00 3.07
487 493 1.394917 CACGCTCACTAACTTGGCATC 59.605 52.381 0.00 0.00 0.00 3.91
488 494 1.001974 TCACGCTCACTAACTTGGCAT 59.998 47.619 0.00 0.00 0.00 4.40
489 495 0.391228 TCACGCTCACTAACTTGGCA 59.609 50.000 0.00 0.00 0.00 4.92
490 496 1.194772 GTTCACGCTCACTAACTTGGC 59.805 52.381 0.00 0.00 0.00 4.52
491 497 1.798813 GGTTCACGCTCACTAACTTGG 59.201 52.381 0.00 0.00 0.00 3.61
492 498 2.755650 AGGTTCACGCTCACTAACTTG 58.244 47.619 0.00 0.00 0.00 3.16
493 499 3.573110 AGTAGGTTCACGCTCACTAACTT 59.427 43.478 0.00 0.00 0.00 2.66
494 500 3.155501 AGTAGGTTCACGCTCACTAACT 58.844 45.455 0.00 0.00 0.00 2.24
495 501 3.572604 AGTAGGTTCACGCTCACTAAC 57.427 47.619 0.00 0.00 0.00 2.34
496 502 4.074259 TGTAGTAGGTTCACGCTCACTAA 58.926 43.478 0.00 0.00 0.00 2.24
497 503 3.678289 TGTAGTAGGTTCACGCTCACTA 58.322 45.455 0.00 0.00 0.00 2.74
505 511 4.503910 TGTCATGCATGTAGTAGGTTCAC 58.496 43.478 25.43 12.81 0.00 3.18
563 569 1.457346 GAAATGAGTGCAGGTGAGGG 58.543 55.000 0.00 0.00 0.00 4.30
599 605 3.141398 GAGCTCCCGCATCAATATTTCA 58.859 45.455 0.87 0.00 39.10 2.69
602 608 2.498167 GTGAGCTCCCGCATCAATATT 58.502 47.619 12.15 0.00 39.10 1.28
605 611 1.522355 CGTGAGCTCCCGCATCAAT 60.522 57.895 12.15 0.00 39.10 2.57
706 724 2.609002 TGAATCTACGCATGCATGACAC 59.391 45.455 30.64 11.65 0.00 3.67
717 735 5.556570 GCTCTAAATTTCGGTGAATCTACGC 60.557 44.000 0.00 0.00 0.00 4.42
718 736 5.331607 CGCTCTAAATTTCGGTGAATCTACG 60.332 44.000 0.00 0.00 0.00 3.51
719 737 5.556570 GCGCTCTAAATTTCGGTGAATCTAC 60.557 44.000 0.00 0.00 0.00 2.59
739 757 2.757917 GTCTCCTCTCCTGGCGCT 60.758 66.667 7.64 0.00 0.00 5.92
740 758 3.071206 TGTCTCCTCTCCTGGCGC 61.071 66.667 0.00 0.00 0.00 6.53
875 907 1.218230 GCTTATCTGCTTCCGCTCCG 61.218 60.000 0.00 0.00 36.97 4.63
876 908 1.218230 CGCTTATCTGCTTCCGCTCC 61.218 60.000 0.00 0.00 36.97 4.70
880 912 2.589492 CCGCGCTTATCTGCTTCCG 61.589 63.158 5.56 0.00 0.00 4.30
889 921 0.603707 CATGGTCATCCCGCGCTTAT 60.604 55.000 5.56 0.00 35.15 1.73
890 922 1.227527 CATGGTCATCCCGCGCTTA 60.228 57.895 5.56 0.00 35.15 3.09
891 923 2.514592 CATGGTCATCCCGCGCTT 60.515 61.111 5.56 0.00 35.15 4.68
892 924 2.819984 AAACATGGTCATCCCGCGCT 62.820 55.000 5.56 0.00 35.15 5.92
894 926 1.429021 CAAACATGGTCATCCCGCG 59.571 57.895 0.00 0.00 35.15 6.46
895 927 1.666209 CCCAAACATGGTCATCCCGC 61.666 60.000 0.00 0.00 35.15 6.13
900 932 1.682005 CCGGCCCAAACATGGTCAT 60.682 57.895 0.00 0.00 0.00 3.06
915 947 3.534056 CGTAGTACCTGGGCCCGG 61.534 72.222 25.29 25.29 0.00 5.73
917 949 2.779033 CGTCGTAGTACCTGGGCCC 61.779 68.421 17.59 17.59 0.00 5.80
1021 1084 1.423921 GAGGAGAGGAGGAGGAGTAGG 59.576 61.905 0.00 0.00 0.00 3.18
1024 1087 0.254107 AGGAGGAGAGGAGGAGGAGT 60.254 60.000 0.00 0.00 0.00 3.85
1102 1177 2.047844 TCCTTCAGCTGCGACTGC 60.048 61.111 9.47 0.00 43.20 4.40
1103 1178 0.601046 TTGTCCTTCAGCTGCGACTG 60.601 55.000 21.43 0.00 39.12 3.51
1104 1179 0.320247 CTTGTCCTTCAGCTGCGACT 60.320 55.000 21.43 0.00 0.00 4.18
1105 1180 1.294659 CCTTGTCCTTCAGCTGCGAC 61.295 60.000 9.47 14.28 0.00 5.19
1106 1181 1.004560 CCTTGTCCTTCAGCTGCGA 60.005 57.895 9.47 0.96 0.00 5.10
1213 1288 4.717629 TCGTCGGCGAGCAGGTTG 62.718 66.667 8.66 0.00 42.81 3.77
1288 1363 3.553095 GAGGAGGTGCGGCTTGGTT 62.553 63.158 0.00 0.00 0.00 3.67
1504 1582 1.393487 GGAAGAGGTCGTAGGAGGCC 61.393 65.000 0.00 0.00 0.00 5.19
1694 1772 2.674380 CAGCCTGCCCACCTTGAC 60.674 66.667 0.00 0.00 0.00 3.18
1727 1805 3.486375 GCCATCACATTGTCAACGATCTG 60.486 47.826 0.00 0.00 0.00 2.90
1760 1838 4.003788 CACCTTCTCCACGGCGGT 62.004 66.667 13.24 0.00 35.57 5.68
1800 1878 0.251474 AGCCTTCAAATGCAGAGCCA 60.251 50.000 0.00 0.00 0.00 4.75
1864 1942 2.636830 CGAACCTCAATCTTCATGCCT 58.363 47.619 0.00 0.00 0.00 4.75
1884 1962 2.485122 CTTCCAATCGCGCAACCC 59.515 61.111 8.75 0.00 0.00 4.11
1958 2036 3.415212 CCTTCATCTTCTTGTCCTTGCA 58.585 45.455 0.00 0.00 0.00 4.08
2010 2094 7.067008 TGTTCCTTTTCCTCTTGTACTTCAAAG 59.933 37.037 0.00 0.00 35.48 2.77
2079 2163 1.671901 CCTCCTCTTCTCAGTCGCCC 61.672 65.000 0.00 0.00 0.00 6.13
2198 2282 1.076559 CAGGGCTGGCATCATCCAA 60.077 57.895 2.88 0.00 35.36 3.53
2292 2379 2.507058 TCCTCAGGTGCTTGCTTGATAT 59.493 45.455 0.00 0.00 0.00 1.63
2295 2382 0.035881 CTCCTCAGGTGCTTGCTTGA 59.964 55.000 0.00 0.00 0.00 3.02
2355 2466 2.909006 TCACCCTTCATGCTCTTCTTCT 59.091 45.455 0.00 0.00 0.00 2.85
2356 2467 3.340814 TCACCCTTCATGCTCTTCTTC 57.659 47.619 0.00 0.00 0.00 2.87
2357 2468 4.018597 AGAATCACCCTTCATGCTCTTCTT 60.019 41.667 0.00 0.00 0.00 2.52
2407 2518 2.359230 GCAGCGGGAGTGCTTTCT 60.359 61.111 0.00 0.00 44.46 2.52
2419 2530 0.104855 TGTCAGCTATAAGGGCAGCG 59.895 55.000 0.00 0.00 42.74 5.18
2467 2578 4.433615 TCTTCATCTTATCGCCACTTGAC 58.566 43.478 0.00 0.00 0.00 3.18
2536 2668 6.622462 GCAGTTTGGTCTCAATTCAAGAGATC 60.622 42.308 0.00 0.00 43.41 2.75
2598 2730 2.330440 TTGCTTCTCACAGCTGACAA 57.670 45.000 23.35 9.52 40.79 3.18
2691 2823 0.897863 CCAGAAATTCCCCAACGCCA 60.898 55.000 0.00 0.00 0.00 5.69
2697 2829 4.601857 AGAAACTACTCCAGAAATTCCCCA 59.398 41.667 0.00 0.00 0.00 4.96
2846 3254 1.663695 AAGTCCACCACACGTTTCAG 58.336 50.000 0.00 0.00 0.00 3.02
2852 3260 3.875134 GGGATATAAAAGTCCACCACACG 59.125 47.826 0.00 0.00 36.19 4.49
2858 3266 5.297569 AGCAGAGGGATATAAAAGTCCAC 57.702 43.478 0.00 0.00 36.19 4.02
2867 3275 5.625426 GCATTTCATCGAGCAGAGGGATATA 60.625 44.000 0.00 0.00 0.00 0.86
3008 3417 8.108180 GGAATCCATTCTTCTCTGTGGGAGAT 62.108 46.154 0.00 0.00 40.55 2.75
3306 3729 9.832445 ACTACAAACAGTTCAGAAAATCTAGAA 57.168 29.630 0.00 0.00 0.00 2.10
3322 3745 6.436843 AGTGGAAGTCAAAACTACAAACAG 57.563 37.500 0.00 0.00 33.48 3.16
3565 4318 7.856145 ATTAGTAGAAGCAGGACTCAAAATG 57.144 36.000 0.00 0.00 0.00 2.32
3624 4377 2.975075 AGGATAAGAGATGAGCTGCCT 58.025 47.619 0.00 0.00 0.00 4.75
3625 4378 4.382901 CCATAGGATAAGAGATGAGCTGCC 60.383 50.000 0.00 0.00 0.00 4.85
3637 4390 4.094887 GCACAACACACACCATAGGATAAG 59.905 45.833 0.00 0.00 0.00 1.73
3638 4391 4.006989 GCACAACACACACCATAGGATAA 58.993 43.478 0.00 0.00 0.00 1.75


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

AutoCloner maintained by Alex Coulton.