Multiple sequence alignment - TraesCS7B01G128700

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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 TraesCS7B01G128700 chr7B 100.000 3094 0 0 1 3094 154162959 154159866 0.000000e+00 5714.0
1 TraesCS7B01G128700 chr7B 81.429 1120 157 33 994 2094 113922550 113923637 0.000000e+00 869.0
2 TraesCS7B01G128700 chr7B 86.175 217 24 4 1000 1210 113802830 113802614 2.400000e-56 230.0
3 TraesCS7B01G128700 chr7B 85.185 216 29 2 1000 1212 113539831 113539616 5.190000e-53 219.0
4 TraesCS7B01G128700 chr7D 96.219 1719 53 7 489 2199 184575143 184573429 0.000000e+00 2804.0
5 TraesCS7B01G128700 chr7D 82.561 1101 153 28 1000 2094 151791450 151790383 0.000000e+00 933.0
6 TraesCS7B01G128700 chr7D 88.728 346 34 3 1793 2134 184582214 184582558 4.770000e-113 418.0
7 TraesCS7B01G128700 chr7D 79.385 553 57 24 2554 3094 184572635 184572128 1.370000e-88 337.0
8 TraesCS7B01G128700 chr7D 96.078 204 8 0 100 303 184575346 184575143 1.780000e-87 333.0
9 TraesCS7B01G128700 chr7D 80.923 325 30 19 2199 2511 184572939 184572635 8.630000e-56 228.0
10 TraesCS7B01G128700 chr7D 84.444 225 29 4 994 1212 151824832 151825056 1.870000e-52 217.0
11 TraesCS7B01G128700 chr7D 84.444 225 29 4 994 1212 151931013 151931237 1.870000e-52 217.0
12 TraesCS7B01G128700 chr7D 92.241 116 9 0 1 116 184575481 184575366 6.860000e-37 165.0
13 TraesCS7B01G128700 chr7A 87.373 2170 166 57 977 3094 191665204 191663091 0.000000e+00 2390.0
14 TraesCS7B01G128700 chr7A 85.190 790 114 1 1308 2094 152507418 152508207 0.000000e+00 808.0
15 TraesCS7B01G128700 chr7A 87.853 708 52 14 1126 1827 191693785 191694464 0.000000e+00 800.0
16 TraesCS7B01G128700 chr7A 79.760 1082 175 29 1023 2096 151874318 151875363 0.000000e+00 745.0
17 TraesCS7B01G128700 chr7A 89.633 463 18 6 491 939 191665821 191665375 2.080000e-156 562.0
18 TraesCS7B01G128700 chr7A 93.421 304 17 1 1 304 191666122 191665822 6.090000e-122 448.0
19 TraesCS7B01G128700 chr7A 98.895 181 2 0 311 491 714589416 714589236 1.070000e-84 324.0
20 TraesCS7B01G128700 chr7A 98.333 180 3 0 311 490 709635313 709635492 1.790000e-82 316.0
21 TraesCS7B01G128700 chr7A 85.581 215 28 2 1001 1212 152084470 152084684 4.020000e-54 222.0
22 TraesCS7B01G128700 chr1A 83.002 1106 154 26 999 2090 539323188 539324273 0.000000e+00 970.0
23 TraesCS7B01G128700 chr1D 85.899 773 104 4 1323 2094 439414977 439414209 0.000000e+00 819.0
24 TraesCS7B01G128700 chr1B 85.899 773 104 4 1323 2094 596248280 596247512 0.000000e+00 819.0
25 TraesCS7B01G128700 chr1B 98.352 182 3 0 311 492 661131199 661131018 1.380000e-83 320.0
26 TraesCS7B01G128700 chr1B 86.385 213 26 2 1001 1210 596248584 596248372 2.400000e-56 230.0
27 TraesCS7B01G128700 chr6B 100.000 180 0 0 311 490 6878489 6878310 1.780000e-87 333.0
28 TraesCS7B01G128700 chr6B 98.901 182 1 1 311 492 684219410 684219230 1.070000e-84 324.0
29 TraesCS7B01G128700 chr4B 98.907 183 2 0 311 493 617203786 617203604 8.270000e-86 327.0
30 TraesCS7B01G128700 chr2D 98.901 182 2 0 311 492 73326073 73325892 2.980000e-85 326.0
31 TraesCS7B01G128700 chr2A 98.895 181 2 0 311 491 31697496 31697316 1.070000e-84 324.0
32 TraesCS7B01G128700 chr3D 98.889 180 2 0 311 490 470486217 470486038 3.850000e-84 322.0
33 TraesCS7B01G128700 chr2B 89.583 48 3 2 1663 1709 263812023 263811977 3.330000e-05 60.2


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 TraesCS7B01G128700 chr7B 154159866 154162959 3093 True 5714.000000 5714 100.000000 1 3094 1 chr7B.!!$R3 3093
1 TraesCS7B01G128700 chr7B 113922550 113923637 1087 False 869.000000 869 81.429000 994 2094 1 chr7B.!!$F1 1100
2 TraesCS7B01G128700 chr7D 151790383 151791450 1067 True 933.000000 933 82.561000 1000 2094 1 chr7D.!!$R1 1094
3 TraesCS7B01G128700 chr7D 184572128 184575481 3353 True 773.400000 2804 88.969200 1 3094 5 chr7D.!!$R2 3093
4 TraesCS7B01G128700 chr7A 191663091 191666122 3031 True 1133.333333 2390 90.142333 1 3094 3 chr7A.!!$R2 3093
5 TraesCS7B01G128700 chr7A 152507418 152508207 789 False 808.000000 808 85.190000 1308 2094 1 chr7A.!!$F3 786
6 TraesCS7B01G128700 chr7A 191693785 191694464 679 False 800.000000 800 87.853000 1126 1827 1 chr7A.!!$F4 701
7 TraesCS7B01G128700 chr7A 151874318 151875363 1045 False 745.000000 745 79.760000 1023 2096 1 chr7A.!!$F1 1073
8 TraesCS7B01G128700 chr1A 539323188 539324273 1085 False 970.000000 970 83.002000 999 2090 1 chr1A.!!$F1 1091
9 TraesCS7B01G128700 chr1D 439414209 439414977 768 True 819.000000 819 85.899000 1323 2094 1 chr1D.!!$R1 771
10 TraesCS7B01G128700 chr1B 596247512 596248584 1072 True 524.500000 819 86.142000 1001 2094 2 chr1B.!!$R2 1093

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
451 488 0.036765 GGCCACGTTGTCATCCTGTA 60.037 55.000 0.0 0.0 0.0 2.74 F
1738 1961 1.153823 CCGACCGGCTCTACAACAG 60.154 63.158 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1830 2065 1.399744 CCGGGATCCATCTCCGACAA 61.400 60.0 15.23 0.0 40.63 3.18 R
2814 3575 0.035439 ACGTGCATGGTCCCCTTAAG 60.035 55.0 11.36 0.0 0.00 1.85 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
23 24 6.219417 ACTGAAATTTGTGGTTTCATGACA 57.781 33.333 0.00 0.00 42.68 3.58
93 94 4.201990 CCAGGCAATGAATTAGAACTCTGC 60.202 45.833 0.00 0.00 0.00 4.26
102 103 5.702670 TGAATTAGAACTCTGCCTGTCAAAG 59.297 40.000 0.00 0.00 0.00 2.77
105 106 4.363991 AGAACTCTGCCTGTCAAAGAAT 57.636 40.909 0.00 0.00 0.00 2.40
116 117 5.874810 GCCTGTCAAAGAATCAGTGTACATA 59.125 40.000 0.00 0.00 0.00 2.29
118 119 7.254590 GCCTGTCAAAGAATCAGTGTACATATC 60.255 40.741 0.00 0.00 0.00 1.63
119 120 7.043125 CCTGTCAAAGAATCAGTGTACATATCG 60.043 40.741 0.00 0.00 0.00 2.92
304 341 6.012069 TCCTCCTCATCACAGAGCTATACTAT 60.012 42.308 0.00 0.00 34.26 2.12
305 342 6.663093 CCTCCTCATCACAGAGCTATACTATT 59.337 42.308 0.00 0.00 34.26 1.73
306 343 7.148086 CCTCCTCATCACAGAGCTATACTATTC 60.148 44.444 0.00 0.00 34.26 1.75
307 344 6.661377 TCCTCATCACAGAGCTATACTATTCC 59.339 42.308 0.00 0.00 34.26 3.01
308 345 6.127479 CCTCATCACAGAGCTATACTATTCCC 60.127 46.154 0.00 0.00 34.26 3.97
309 346 6.556639 TCATCACAGAGCTATACTATTCCCT 58.443 40.000 0.00 0.00 0.00 4.20
310 347 6.435591 TCATCACAGAGCTATACTATTCCCTG 59.564 42.308 0.00 0.00 0.00 4.45
311 348 5.953571 TCACAGAGCTATACTATTCCCTGA 58.046 41.667 0.00 0.00 0.00 3.86
312 349 6.007076 TCACAGAGCTATACTATTCCCTGAG 58.993 44.000 0.00 0.00 0.00 3.35
313 350 4.770010 ACAGAGCTATACTATTCCCTGAGC 59.230 45.833 0.00 0.00 0.00 4.26
314 351 4.769488 CAGAGCTATACTATTCCCTGAGCA 59.231 45.833 0.00 0.00 0.00 4.26
315 352 5.244851 CAGAGCTATACTATTCCCTGAGCAA 59.755 44.000 0.00 0.00 0.00 3.91
316 353 6.022315 AGAGCTATACTATTCCCTGAGCAAT 58.978 40.000 0.00 0.00 0.00 3.56
317 354 6.047511 AGCTATACTATTCCCTGAGCAATG 57.952 41.667 0.00 0.00 0.00 2.82
318 355 4.633565 GCTATACTATTCCCTGAGCAATGC 59.366 45.833 0.00 0.00 0.00 3.56
319 356 4.989875 ATACTATTCCCTGAGCAATGCT 57.010 40.909 7.79 7.79 43.88 3.79
320 357 6.351371 GCTATACTATTCCCTGAGCAATGCTA 60.351 42.308 8.12 0.00 39.88 3.49
321 358 4.348863 ACTATTCCCTGAGCAATGCTAG 57.651 45.455 8.12 6.25 39.88 3.42
322 359 3.969976 ACTATTCCCTGAGCAATGCTAGA 59.030 43.478 8.12 0.00 39.88 2.43
323 360 2.698855 TTCCCTGAGCAATGCTAGAC 57.301 50.000 8.12 0.00 39.88 2.59
324 361 0.461548 TCCCTGAGCAATGCTAGACG 59.538 55.000 8.12 0.00 39.88 4.18
325 362 0.176680 CCCTGAGCAATGCTAGACGT 59.823 55.000 8.12 0.00 39.88 4.34
326 363 1.409064 CCCTGAGCAATGCTAGACGTA 59.591 52.381 8.12 0.00 39.88 3.57
327 364 2.464865 CCTGAGCAATGCTAGACGTAC 58.535 52.381 8.12 0.00 39.88 3.67
328 365 2.112522 CTGAGCAATGCTAGACGTACG 58.887 52.381 15.01 15.01 39.88 3.67
329 366 1.202256 TGAGCAATGCTAGACGTACGG 60.202 52.381 21.06 2.24 39.88 4.02
330 367 0.102481 AGCAATGCTAGACGTACGGG 59.898 55.000 21.06 7.74 36.99 5.28
331 368 1.488261 GCAATGCTAGACGTACGGGC 61.488 60.000 21.06 17.10 0.00 6.13
332 369 1.065273 AATGCTAGACGTACGGGCG 59.935 57.895 21.06 6.01 37.94 6.13
334 371 1.660560 ATGCTAGACGTACGGGCGTT 61.661 55.000 21.06 0.00 45.79 4.84
335 372 1.870901 GCTAGACGTACGGGCGTTG 60.871 63.158 21.06 5.63 45.79 4.10
336 373 1.503542 CTAGACGTACGGGCGTTGT 59.496 57.895 21.06 0.00 45.79 3.32
337 374 0.726827 CTAGACGTACGGGCGTTGTA 59.273 55.000 21.06 0.00 45.79 2.41
338 375 0.446222 TAGACGTACGGGCGTTGTAC 59.554 55.000 21.06 3.96 45.79 2.90
341 378 2.506881 GTACGGGCGTTGTACGGG 60.507 66.667 1.14 0.00 42.82 5.28
342 379 3.757828 TACGGGCGTTGTACGGGG 61.758 66.667 1.14 0.00 42.82 5.73
345 382 3.789290 GGGCGTTGTACGGGGGAT 61.789 66.667 1.14 0.00 42.82 3.85
346 383 2.269883 GGCGTTGTACGGGGGATT 59.730 61.111 1.14 0.00 42.82 3.01
347 384 1.377594 GGCGTTGTACGGGGGATTT 60.378 57.895 1.14 0.00 42.82 2.17
348 385 0.107752 GGCGTTGTACGGGGGATTTA 60.108 55.000 1.14 0.00 42.82 1.40
349 386 1.009078 GCGTTGTACGGGGGATTTAC 58.991 55.000 1.14 0.00 42.82 2.01
350 387 1.675415 GCGTTGTACGGGGGATTTACA 60.675 52.381 1.14 0.00 42.82 2.41
351 388 2.273557 CGTTGTACGGGGGATTTACAG 58.726 52.381 0.00 0.00 38.08 2.74
352 389 2.635714 GTTGTACGGGGGATTTACAGG 58.364 52.381 0.00 0.00 0.00 4.00
353 390 0.542805 TGTACGGGGGATTTACAGGC 59.457 55.000 0.00 0.00 0.00 4.85
354 391 0.835276 GTACGGGGGATTTACAGGCT 59.165 55.000 0.00 0.00 0.00 4.58
355 392 1.125633 TACGGGGGATTTACAGGCTC 58.874 55.000 0.00 0.00 0.00 4.70
356 393 1.227556 CGGGGGATTTACAGGCTCG 60.228 63.158 0.00 0.00 0.00 5.03
357 394 1.912971 GGGGGATTTACAGGCTCGT 59.087 57.895 0.00 0.00 0.00 4.18
358 395 0.255033 GGGGGATTTACAGGCTCGTT 59.745 55.000 0.00 0.00 0.00 3.85
359 396 1.379527 GGGGATTTACAGGCTCGTTG 58.620 55.000 0.00 0.00 0.00 4.10
360 397 1.065709 GGGGATTTACAGGCTCGTTGA 60.066 52.381 0.00 0.00 0.00 3.18
361 398 2.007608 GGGATTTACAGGCTCGTTGAC 58.992 52.381 0.00 0.00 0.00 3.18
362 399 2.354805 GGGATTTACAGGCTCGTTGACT 60.355 50.000 0.00 0.00 0.00 3.41
367 404 3.521995 CAGGCTCGTTGACTGTGAT 57.478 52.632 5.99 0.00 46.57 3.06
368 405 1.800805 CAGGCTCGTTGACTGTGATT 58.199 50.000 5.99 0.00 46.57 2.57
369 406 1.462283 CAGGCTCGTTGACTGTGATTG 59.538 52.381 5.99 0.00 46.57 2.67
370 407 0.798776 GGCTCGTTGACTGTGATTGG 59.201 55.000 0.00 0.00 0.00 3.16
371 408 1.512926 GCTCGTTGACTGTGATTGGT 58.487 50.000 0.00 0.00 0.00 3.67
372 409 1.873591 GCTCGTTGACTGTGATTGGTT 59.126 47.619 0.00 0.00 0.00 3.67
373 410 2.349817 GCTCGTTGACTGTGATTGGTTG 60.350 50.000 0.00 0.00 0.00 3.77
374 411 2.217750 TCGTTGACTGTGATTGGTTGG 58.782 47.619 0.00 0.00 0.00 3.77
375 412 2.158885 TCGTTGACTGTGATTGGTTGGA 60.159 45.455 0.00 0.00 0.00 3.53
376 413 2.616376 CGTTGACTGTGATTGGTTGGAA 59.384 45.455 0.00 0.00 0.00 3.53
377 414 3.253188 CGTTGACTGTGATTGGTTGGAAT 59.747 43.478 0.00 0.00 0.00 3.01
378 415 4.454161 CGTTGACTGTGATTGGTTGGAATA 59.546 41.667 0.00 0.00 0.00 1.75
379 416 5.123820 CGTTGACTGTGATTGGTTGGAATAT 59.876 40.000 0.00 0.00 0.00 1.28
380 417 6.324819 GTTGACTGTGATTGGTTGGAATATG 58.675 40.000 0.00 0.00 0.00 1.78
381 418 5.814481 TGACTGTGATTGGTTGGAATATGA 58.186 37.500 0.00 0.00 0.00 2.15
382 419 6.425735 TGACTGTGATTGGTTGGAATATGAT 58.574 36.000 0.00 0.00 0.00 2.45
383 420 6.891361 TGACTGTGATTGGTTGGAATATGATT 59.109 34.615 0.00 0.00 0.00 2.57
384 421 8.052141 TGACTGTGATTGGTTGGAATATGATTA 58.948 33.333 0.00 0.00 0.00 1.75
385 422 8.821686 ACTGTGATTGGTTGGAATATGATTAA 57.178 30.769 0.00 0.00 0.00 1.40
386 423 8.906867 ACTGTGATTGGTTGGAATATGATTAAG 58.093 33.333 0.00 0.00 0.00 1.85
387 424 8.236585 TGTGATTGGTTGGAATATGATTAAGG 57.763 34.615 0.00 0.00 0.00 2.69
388 425 7.287466 TGTGATTGGTTGGAATATGATTAAGGG 59.713 37.037 0.00 0.00 0.00 3.95
389 426 6.782000 TGATTGGTTGGAATATGATTAAGGGG 59.218 38.462 0.00 0.00 0.00 4.79
390 427 5.073437 TGGTTGGAATATGATTAAGGGGG 57.927 43.478 0.00 0.00 0.00 5.40
391 428 4.734503 TGGTTGGAATATGATTAAGGGGGA 59.265 41.667 0.00 0.00 0.00 4.81
392 429 5.077564 GGTTGGAATATGATTAAGGGGGAC 58.922 45.833 0.00 0.00 0.00 4.46
393 430 4.634012 TGGAATATGATTAAGGGGGACG 57.366 45.455 0.00 0.00 0.00 4.79
394 431 3.329520 TGGAATATGATTAAGGGGGACGG 59.670 47.826 0.00 0.00 0.00 4.79
395 432 3.344515 GAATATGATTAAGGGGGACGGC 58.655 50.000 0.00 0.00 0.00 5.68
396 433 1.061546 TATGATTAAGGGGGACGGCC 58.938 55.000 0.00 0.00 0.00 6.13
407 444 3.961414 GACGGCCCCACCCTGAAA 61.961 66.667 0.00 0.00 33.26 2.69
408 445 3.501040 GACGGCCCCACCCTGAAAA 62.501 63.158 0.00 0.00 33.26 2.29
409 446 2.037208 CGGCCCCACCCTGAAAAT 59.963 61.111 0.00 0.00 33.26 1.82
410 447 2.052104 CGGCCCCACCCTGAAAATC 61.052 63.158 0.00 0.00 33.26 2.17
411 448 1.078347 GGCCCCACCCTGAAAATCA 59.922 57.895 0.00 0.00 0.00 2.57
412 449 0.972471 GGCCCCACCCTGAAAATCAG 60.972 60.000 0.00 0.32 43.91 2.90
434 471 2.796557 GGGGGAGCAATTAGATTAGGC 58.203 52.381 0.00 0.00 0.00 3.93
435 472 2.555448 GGGGGAGCAATTAGATTAGGCC 60.555 54.545 0.00 0.00 0.00 5.19
436 473 2.108250 GGGGAGCAATTAGATTAGGCCA 59.892 50.000 5.01 0.00 0.00 5.36
437 474 3.149981 GGGAGCAATTAGATTAGGCCAC 58.850 50.000 5.01 0.00 0.00 5.01
438 475 2.808543 GGAGCAATTAGATTAGGCCACG 59.191 50.000 5.01 0.00 0.00 4.94
439 476 3.467803 GAGCAATTAGATTAGGCCACGT 58.532 45.455 5.01 0.00 0.00 4.49
440 477 3.877508 GAGCAATTAGATTAGGCCACGTT 59.122 43.478 5.01 0.00 0.00 3.99
441 478 3.627577 AGCAATTAGATTAGGCCACGTTG 59.372 43.478 5.01 0.00 0.00 4.10
442 479 3.377172 GCAATTAGATTAGGCCACGTTGT 59.623 43.478 5.01 0.00 0.00 3.32
443 480 4.495844 GCAATTAGATTAGGCCACGTTGTC 60.496 45.833 5.01 0.00 0.00 3.18
444 481 3.965379 TTAGATTAGGCCACGTTGTCA 57.035 42.857 5.01 0.00 0.00 3.58
445 482 4.481368 TTAGATTAGGCCACGTTGTCAT 57.519 40.909 5.01 0.00 0.00 3.06
446 483 2.906354 AGATTAGGCCACGTTGTCATC 58.094 47.619 5.01 0.00 0.00 2.92
447 484 1.940613 GATTAGGCCACGTTGTCATCC 59.059 52.381 5.01 0.00 0.00 3.51
448 485 0.981183 TTAGGCCACGTTGTCATCCT 59.019 50.000 5.01 0.00 0.00 3.24
449 486 0.249120 TAGGCCACGTTGTCATCCTG 59.751 55.000 5.01 0.00 0.00 3.86
450 487 1.302511 GGCCACGTTGTCATCCTGT 60.303 57.895 0.00 0.00 0.00 4.00
451 488 0.036765 GGCCACGTTGTCATCCTGTA 60.037 55.000 0.00 0.00 0.00 2.74
452 489 1.609580 GGCCACGTTGTCATCCTGTAA 60.610 52.381 0.00 0.00 0.00 2.41
453 490 2.147958 GCCACGTTGTCATCCTGTAAA 58.852 47.619 0.00 0.00 0.00 2.01
454 491 2.550606 GCCACGTTGTCATCCTGTAAAA 59.449 45.455 0.00 0.00 0.00 1.52
455 492 3.608474 GCCACGTTGTCATCCTGTAAAAC 60.608 47.826 0.00 0.00 0.00 2.43
456 493 3.813166 CCACGTTGTCATCCTGTAAAACT 59.187 43.478 0.00 0.00 0.00 2.66
457 494 4.274950 CCACGTTGTCATCCTGTAAAACTT 59.725 41.667 0.00 0.00 0.00 2.66
458 495 5.220970 CCACGTTGTCATCCTGTAAAACTTT 60.221 40.000 0.00 0.00 0.00 2.66
459 496 5.681105 CACGTTGTCATCCTGTAAAACTTTG 59.319 40.000 0.00 0.00 0.00 2.77
460 497 5.355910 ACGTTGTCATCCTGTAAAACTTTGT 59.644 36.000 0.00 0.00 0.00 2.83
461 498 6.539464 ACGTTGTCATCCTGTAAAACTTTGTA 59.461 34.615 0.00 0.00 0.00 2.41
462 499 6.849305 CGTTGTCATCCTGTAAAACTTTGTAC 59.151 38.462 0.00 0.00 0.00 2.90
463 500 6.533819 TGTCATCCTGTAAAACTTTGTACG 57.466 37.500 0.00 0.00 0.00 3.67
464 501 6.282167 TGTCATCCTGTAAAACTTTGTACGA 58.718 36.000 0.00 0.00 0.00 3.43
465 502 6.932400 TGTCATCCTGTAAAACTTTGTACGAT 59.068 34.615 0.00 0.00 0.00 3.73
466 503 7.117236 TGTCATCCTGTAAAACTTTGTACGATC 59.883 37.037 0.00 0.00 0.00 3.69
467 504 7.117236 GTCATCCTGTAAAACTTTGTACGATCA 59.883 37.037 0.00 0.00 0.00 2.92
468 505 7.822334 TCATCCTGTAAAACTTTGTACGATCAT 59.178 33.333 0.00 0.00 0.00 2.45
469 506 7.591006 TCCTGTAAAACTTTGTACGATCATC 57.409 36.000 0.00 0.00 0.00 2.92
470 507 6.592607 TCCTGTAAAACTTTGTACGATCATCC 59.407 38.462 0.00 0.00 0.00 3.51
471 508 6.594159 CCTGTAAAACTTTGTACGATCATCCT 59.406 38.462 0.00 0.00 0.00 3.24
472 509 7.359262 TGTAAAACTTTGTACGATCATCCTG 57.641 36.000 0.00 0.00 0.00 3.86
473 510 6.932400 TGTAAAACTTTGTACGATCATCCTGT 59.068 34.615 0.00 0.00 0.00 4.00
474 511 8.089597 TGTAAAACTTTGTACGATCATCCTGTA 58.910 33.333 0.00 0.00 0.00 2.74
475 512 6.963049 AAACTTTGTACGATCATCCTGTAC 57.037 37.500 0.00 0.00 39.08 2.90
476 513 4.669318 ACTTTGTACGATCATCCTGTACG 58.331 43.478 0.00 0.00 40.97 3.67
477 514 4.157289 ACTTTGTACGATCATCCTGTACGT 59.843 41.667 0.00 0.00 40.97 3.57
478 515 3.685836 TGTACGATCATCCTGTACGTG 57.314 47.619 0.00 0.00 40.97 4.49
479 516 3.011818 TGTACGATCATCCTGTACGTGT 58.988 45.455 0.00 0.00 40.97 4.49
480 517 4.190772 TGTACGATCATCCTGTACGTGTA 58.809 43.478 0.00 0.00 40.97 2.90
481 518 3.965292 ACGATCATCCTGTACGTGTAG 57.035 47.619 0.00 0.00 35.91 2.74
482 519 3.276857 ACGATCATCCTGTACGTGTAGT 58.723 45.455 0.00 0.00 35.91 2.73
483 520 4.445453 ACGATCATCCTGTACGTGTAGTA 58.555 43.478 0.00 0.00 35.91 1.82
484 521 5.061853 ACGATCATCCTGTACGTGTAGTAT 58.938 41.667 0.00 0.00 37.69 2.12
485 522 5.530171 ACGATCATCCTGTACGTGTAGTATT 59.470 40.000 0.00 0.00 37.69 1.89
486 523 6.707608 ACGATCATCCTGTACGTGTAGTATTA 59.292 38.462 0.00 0.00 37.69 0.98
487 524 7.389884 ACGATCATCCTGTACGTGTAGTATTAT 59.610 37.037 0.00 0.00 37.69 1.28
488 525 8.235226 CGATCATCCTGTACGTGTAGTATTATT 58.765 37.037 0.00 0.00 37.69 1.40
582 619 4.995487 ACTGTACTCCGATGTTCCTTTTTC 59.005 41.667 0.00 0.00 0.00 2.29
584 621 5.556915 TGTACTCCGATGTTCCTTTTTCAT 58.443 37.500 0.00 0.00 0.00 2.57
654 691 4.081917 TCGTGCAAGATGACATAGGTACAA 60.082 41.667 0.00 0.00 0.00 2.41
840 891 1.509463 GGTGTCCGTCGCACAGATA 59.491 57.895 0.00 0.00 38.51 1.98
878 929 2.648426 GTCTACTACGTAATCAGCGGC 58.352 52.381 0.00 0.00 0.00 6.53
1222 1416 2.497675 GTCAGGGTAAGCACATCTCTCA 59.502 50.000 0.00 0.00 0.00 3.27
1301 1522 2.138320 CCGTGTACTGATGGATGATGC 58.862 52.381 0.00 0.00 0.00 3.91
1356 1579 2.433838 CTGTGCTGCTGGACTCCG 60.434 66.667 15.83 1.85 35.45 4.63
1439 1662 2.282180 GAGCGGGTGAAGGCCAAA 60.282 61.111 5.01 0.00 0.00 3.28
1738 1961 1.153823 CCGACCGGCTCTACAACAG 60.154 63.158 0.00 0.00 0.00 3.16
1830 2065 1.935300 GCGTTGACGACAAGAGGATGT 60.935 52.381 7.85 0.00 43.02 3.06
1870 2105 1.478510 CAGCTACAGGACCTTCGACAT 59.521 52.381 0.00 0.00 0.00 3.06
2123 2362 3.661911 CGGATGCCGTGGAACAAA 58.338 55.556 0.00 0.00 44.16 2.83
2125 2364 0.525761 CGGATGCCGTGGAACAAATT 59.474 50.000 0.00 0.00 44.16 1.82
2147 2387 3.754965 TCTGTTGAGAATTGGAACCAGG 58.245 45.455 0.00 0.00 0.00 4.45
2166 2406 6.194796 CCAGGTGGTGTATCTTAATTTGTG 57.805 41.667 0.00 0.00 0.00 3.33
2259 2991 9.941325 TTTATACAACGGAACTTATGTAGGAAA 57.059 29.630 0.00 0.00 32.31 3.13
2297 3030 4.856115 ACGGCAACATTTTTGAAGTTTG 57.144 36.364 0.00 0.00 0.00 2.93
2298 3031 4.249661 ACGGCAACATTTTTGAAGTTTGT 58.750 34.783 0.00 0.00 0.00 2.83
2299 3032 5.411781 ACGGCAACATTTTTGAAGTTTGTA 58.588 33.333 0.00 0.00 0.00 2.41
2300 3033 5.869888 ACGGCAACATTTTTGAAGTTTGTAA 59.130 32.000 0.00 0.00 0.00 2.41
2301 3034 6.369065 ACGGCAACATTTTTGAAGTTTGTAAA 59.631 30.769 0.00 0.00 0.00 2.01
2302 3035 6.680758 CGGCAACATTTTTGAAGTTTGTAAAC 59.319 34.615 0.00 0.00 39.17 2.01
2303 3036 6.680758 GGCAACATTTTTGAAGTTTGTAAACG 59.319 34.615 2.17 0.00 43.51 3.60
2304 3037 6.680758 GCAACATTTTTGAAGTTTGTAAACGG 59.319 34.615 2.17 0.00 43.51 4.44
2305 3038 6.339194 ACATTTTTGAAGTTTGTAAACGGC 57.661 33.333 2.17 0.13 43.51 5.68
2306 3039 5.869888 ACATTTTTGAAGTTTGTAAACGGCA 59.130 32.000 2.17 2.46 43.51 5.69
2307 3040 6.369065 ACATTTTTGAAGTTTGTAAACGGCAA 59.631 30.769 11.31 11.31 43.51 4.52
2308 3041 5.765072 TTTTGAAGTTTGTAAACGGCAAC 57.235 34.783 13.55 0.00 43.51 4.17
2309 3042 4.705337 TTGAAGTTTGTAAACGGCAACT 57.295 36.364 11.31 0.00 43.51 3.16
2310 3043 4.705337 TGAAGTTTGTAAACGGCAACTT 57.295 36.364 2.17 0.00 43.51 2.66
2311 3044 5.814764 TGAAGTTTGTAAACGGCAACTTA 57.185 34.783 2.17 0.00 43.51 2.24
2312 3045 6.192234 TGAAGTTTGTAAACGGCAACTTAA 57.808 33.333 2.17 0.00 43.51 1.85
2313 3046 6.618811 TGAAGTTTGTAAACGGCAACTTAAA 58.381 32.000 2.17 0.00 43.51 1.52
2314 3047 6.748198 TGAAGTTTGTAAACGGCAACTTAAAG 59.252 34.615 2.17 0.00 43.51 1.85
2315 3048 6.439675 AGTTTGTAAACGGCAACTTAAAGA 57.560 33.333 2.17 0.00 43.51 2.52
2316 3049 6.854778 AGTTTGTAAACGGCAACTTAAAGAA 58.145 32.000 2.17 0.00 43.51 2.52
2324 3057 7.603963 AACGGCAACTTAAAGAAAACAATTT 57.396 28.000 0.00 0.00 0.00 1.82
2325 3058 6.999456 ACGGCAACTTAAAGAAAACAATTTG 58.001 32.000 0.00 0.00 0.00 2.32
2498 3244 1.407437 CGGCCCATCTTGTTTAGCTCT 60.407 52.381 0.00 0.00 0.00 4.09
2499 3245 2.019984 GGCCCATCTTGTTTAGCTCTG 58.980 52.381 0.00 0.00 0.00 3.35
2530 3276 1.007271 CGACTATGCGGCACCTAGG 60.007 63.158 7.41 7.41 0.00 3.02
2538 3284 1.017387 GCGGCACCTAGGATTTTCAG 58.983 55.000 17.98 0.99 0.00 3.02
2540 3286 2.939640 GCGGCACCTAGGATTTTCAGAA 60.940 50.000 17.98 0.00 0.00 3.02
2543 3289 4.142600 CGGCACCTAGGATTTTCAGAAAAG 60.143 45.833 17.98 2.24 33.22 2.27
2544 3290 4.158579 GGCACCTAGGATTTTCAGAAAAGG 59.841 45.833 17.98 10.92 33.22 3.11
2548 3297 7.471399 GCACCTAGGATTTTCAGAAAAGGAAAA 60.471 37.037 17.98 0.00 45.25 2.29
2575 3324 3.122948 CGTCAAAAGTGAACTATGGGACG 59.877 47.826 0.00 0.00 34.87 4.79
2576 3325 4.312443 GTCAAAAGTGAACTATGGGACGA 58.688 43.478 0.00 0.00 34.87 4.20
2577 3326 4.753107 GTCAAAAGTGAACTATGGGACGAA 59.247 41.667 0.00 0.00 34.87 3.85
2578 3327 4.753107 TCAAAAGTGAACTATGGGACGAAC 59.247 41.667 0.00 0.00 0.00 3.95
2579 3328 2.649331 AGTGAACTATGGGACGAACG 57.351 50.000 0.00 0.00 0.00 3.95
2617 3366 1.816074 TTGGTAAGCACGATCCAACC 58.184 50.000 0.00 0.00 35.42 3.77
2621 3370 2.271800 GTAAGCACGATCCAACCTCTG 58.728 52.381 0.00 0.00 0.00 3.35
2659 3408 6.895564 CGCTATAAGATGTCGTAGATAACTCG 59.104 42.308 0.00 0.00 40.67 4.18
2709 3462 3.013219 GCTTTTGCCCTTGTTTTGGAAA 58.987 40.909 0.00 0.00 40.15 3.13
2777 3538 2.435805 GTGGACTGGAATCAGCTATGGA 59.564 50.000 0.00 0.00 44.59 3.41
2786 3547 0.394192 TCAGCTATGGATTCCCGCAG 59.606 55.000 0.00 0.00 34.29 5.18
2794 3555 2.436417 TGGATTCCCGCAGAAAAGAAG 58.564 47.619 0.00 0.00 38.21 2.85
2798 3559 3.485463 TTCCCGCAGAAAAGAAGAAGA 57.515 42.857 0.00 0.00 0.00 2.87
2799 3560 3.485463 TCCCGCAGAAAAGAAGAAGAA 57.515 42.857 0.00 0.00 0.00 2.52
2800 3561 3.815809 TCCCGCAGAAAAGAAGAAGAAA 58.184 40.909 0.00 0.00 0.00 2.52
2801 3562 3.815401 TCCCGCAGAAAAGAAGAAGAAAG 59.185 43.478 0.00 0.00 0.00 2.62
2802 3563 3.815401 CCCGCAGAAAAGAAGAAGAAAGA 59.185 43.478 0.00 0.00 0.00 2.52
2803 3564 4.275936 CCCGCAGAAAAGAAGAAGAAAGAA 59.724 41.667 0.00 0.00 0.00 2.52
2804 3565 5.048434 CCCGCAGAAAAGAAGAAGAAAGAAT 60.048 40.000 0.00 0.00 0.00 2.40
2805 3566 6.082984 CCGCAGAAAAGAAGAAGAAAGAATC 58.917 40.000 0.00 0.00 0.00 2.52
2806 3567 6.293626 CCGCAGAAAAGAAGAAGAAAGAATCA 60.294 38.462 0.00 0.00 0.00 2.57
2807 3568 6.796072 CGCAGAAAAGAAGAAGAAAGAATCAG 59.204 38.462 0.00 0.00 0.00 2.90
2808 3569 6.581919 GCAGAAAAGAAGAAGAAAGAATCAGC 59.418 38.462 0.00 0.00 0.00 4.26
2809 3570 7.521910 GCAGAAAAGAAGAAGAAAGAATCAGCT 60.522 37.037 0.00 0.00 0.00 4.24
2810 3571 8.997323 CAGAAAAGAAGAAGAAAGAATCAGCTA 58.003 33.333 0.00 0.00 0.00 3.32
2811 3572 9.737844 AGAAAAGAAGAAGAAAGAATCAGCTAT 57.262 29.630 0.00 0.00 0.00 2.97
2812 3573 9.771915 GAAAAGAAGAAGAAAGAATCAGCTATG 57.228 33.333 0.00 0.00 0.00 2.23
2813 3574 7.862512 AAGAAGAAGAAAGAATCAGCTATGG 57.137 36.000 0.00 0.00 0.00 2.74
2814 3575 5.821995 AGAAGAAGAAAGAATCAGCTATGGC 59.178 40.000 0.00 0.00 39.06 4.40
2850 3611 0.040067 CGTGCAGAGGAAAACAAGCC 60.040 55.000 0.00 0.00 0.00 4.35
2856 3617 3.480470 CAGAGGAAAACAAGCCTGAGAA 58.520 45.455 0.00 0.00 33.84 2.87
2858 3619 4.339247 CAGAGGAAAACAAGCCTGAGAAAA 59.661 41.667 0.00 0.00 33.84 2.29
2859 3620 4.339530 AGAGGAAAACAAGCCTGAGAAAAC 59.660 41.667 0.00 0.00 33.84 2.43
2860 3621 4.023291 AGGAAAACAAGCCTGAGAAAACA 58.977 39.130 0.00 0.00 32.06 2.83
2869 3630 5.886960 AGCCTGAGAAAACATTGTATCAC 57.113 39.130 0.00 0.00 0.00 3.06
2871 3632 4.437390 GCCTGAGAAAACATTGTATCACCG 60.437 45.833 0.00 0.00 0.00 4.94
2874 3635 4.454161 TGAGAAAACATTGTATCACCGTGG 59.546 41.667 0.00 0.00 0.00 4.94
2890 3651 2.679336 CCGTGGGGTATTTACGAAAAGG 59.321 50.000 0.00 0.00 40.01 3.11
2891 3652 3.598299 CGTGGGGTATTTACGAAAAGGA 58.402 45.455 0.00 0.00 40.01 3.36
2892 3653 4.002316 CGTGGGGTATTTACGAAAAGGAA 58.998 43.478 0.00 0.00 40.01 3.36
2893 3654 4.637091 CGTGGGGTATTTACGAAAAGGAAT 59.363 41.667 0.00 0.00 40.01 3.01
2894 3655 5.220719 CGTGGGGTATTTACGAAAAGGAATC 60.221 44.000 0.00 0.00 40.01 2.52
2895 3656 5.066893 GTGGGGTATTTACGAAAAGGAATCC 59.933 44.000 0.00 0.00 0.00 3.01
2934 3695 5.429130 GCATTTAGGGCTAGAGTAACAACT 58.571 41.667 0.00 0.00 0.00 3.16
2935 3696 5.524281 GCATTTAGGGCTAGAGTAACAACTC 59.476 44.000 0.00 0.00 37.03 3.01
2937 3698 6.675413 TTTAGGGCTAGAGTAACAACTCAA 57.325 37.500 8.16 0.00 39.12 3.02
2955 3716 6.803154 ACTCAATACTACTTTTCAACCAGC 57.197 37.500 0.00 0.00 0.00 4.85
2972 3733 4.851114 CGCACGAGGAATTGCGCG 62.851 66.667 20.49 20.49 43.66 6.86
2997 3758 5.312120 ACGACTGACGAAGAGTATTGATT 57.688 39.130 6.52 0.00 45.77 2.57
3012 3773 3.476295 TTGATTGTCAGATTTGCTCGC 57.524 42.857 0.00 0.00 0.00 5.03
3022 3783 3.309682 CAGATTTGCTCGCGAAAATAGGA 59.690 43.478 16.49 0.67 0.00 2.94
3044 3805 3.953775 CGACAGGTTGGGCCCACT 61.954 66.667 28.70 17.83 38.26 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 71 4.201990 GCAGAGTTCTAATTCATTGCCTGG 60.202 45.833 0.00 0.00 0.00 4.45
85 86 4.067896 TGATTCTTTGACAGGCAGAGTTC 58.932 43.478 0.00 0.00 31.03 3.01
93 94 7.043125 CGATATGTACACTGATTCTTTGACAGG 60.043 40.741 0.00 0.00 36.17 4.00
102 103 5.700846 ACCGATCGATATGTACACTGATTC 58.299 41.667 18.66 0.00 0.00 2.52
105 106 4.213482 CAGACCGATCGATATGTACACTGA 59.787 45.833 18.66 0.00 0.00 3.41
116 117 0.179100 CAACCTGCAGACCGATCGAT 60.179 55.000 18.66 0.00 0.00 3.59
118 119 0.670546 AACAACCTGCAGACCGATCG 60.671 55.000 17.39 8.51 0.00 3.69
119 120 1.079503 GAACAACCTGCAGACCGATC 58.920 55.000 17.39 4.14 0.00 3.69
246 283 1.735360 CGGCGGATTTCAATGGCAT 59.265 52.632 0.00 0.00 0.00 4.40
304 341 1.134699 CGTCTAGCATTGCTCAGGGAA 60.135 52.381 15.81 0.00 40.44 3.97
305 342 0.461548 CGTCTAGCATTGCTCAGGGA 59.538 55.000 15.81 6.91 40.44 4.20
306 343 0.176680 ACGTCTAGCATTGCTCAGGG 59.823 55.000 15.81 6.31 40.44 4.45
307 344 2.464865 GTACGTCTAGCATTGCTCAGG 58.535 52.381 15.81 11.02 40.44 3.86
308 345 2.112522 CGTACGTCTAGCATTGCTCAG 58.887 52.381 15.81 10.98 40.44 3.35
309 346 1.202256 CCGTACGTCTAGCATTGCTCA 60.202 52.381 15.81 0.00 40.44 4.26
310 347 1.478137 CCGTACGTCTAGCATTGCTC 58.522 55.000 15.81 0.00 40.44 4.26
311 348 0.102481 CCCGTACGTCTAGCATTGCT 59.898 55.000 16.63 16.63 43.41 3.91
312 349 1.488261 GCCCGTACGTCTAGCATTGC 61.488 60.000 15.21 0.00 0.00 3.56
313 350 1.206745 CGCCCGTACGTCTAGCATTG 61.207 60.000 15.21 0.00 0.00 2.82
314 351 1.065273 CGCCCGTACGTCTAGCATT 59.935 57.895 15.21 0.00 0.00 3.56
315 352 2.117156 ACGCCCGTACGTCTAGCAT 61.117 57.895 15.21 0.00 44.43 3.79
316 353 2.747460 ACGCCCGTACGTCTAGCA 60.747 61.111 15.21 0.00 44.43 3.49
324 361 2.506881 CCCGTACAACGCCCGTAC 60.507 66.667 0.00 0.00 40.91 3.67
325 362 3.757828 CCCCGTACAACGCCCGTA 61.758 66.667 0.00 0.00 40.91 4.02
328 365 2.825075 AAATCCCCCGTACAACGCCC 62.825 60.000 0.00 0.00 40.91 6.13
329 366 0.107752 TAAATCCCCCGTACAACGCC 60.108 55.000 0.00 0.00 40.91 5.68
330 367 1.009078 GTAAATCCCCCGTACAACGC 58.991 55.000 0.00 0.00 40.91 4.84
331 368 2.273557 CTGTAAATCCCCCGTACAACG 58.726 52.381 0.00 0.00 42.11 4.10
332 369 2.635714 CCTGTAAATCCCCCGTACAAC 58.364 52.381 0.00 0.00 0.00 3.32
333 370 1.065272 GCCTGTAAATCCCCCGTACAA 60.065 52.381 0.00 0.00 0.00 2.41
334 371 0.542805 GCCTGTAAATCCCCCGTACA 59.457 55.000 0.00 0.00 0.00 2.90
335 372 0.835276 AGCCTGTAAATCCCCCGTAC 59.165 55.000 0.00 0.00 0.00 3.67
336 373 1.125633 GAGCCTGTAAATCCCCCGTA 58.874 55.000 0.00 0.00 0.00 4.02
337 374 1.912971 GAGCCTGTAAATCCCCCGT 59.087 57.895 0.00 0.00 0.00 5.28
338 375 1.227556 CGAGCCTGTAAATCCCCCG 60.228 63.158 0.00 0.00 0.00 5.73
339 376 0.255033 AACGAGCCTGTAAATCCCCC 59.745 55.000 0.00 0.00 0.00 5.40
340 377 1.065709 TCAACGAGCCTGTAAATCCCC 60.066 52.381 0.00 0.00 0.00 4.81
341 378 2.007608 GTCAACGAGCCTGTAAATCCC 58.992 52.381 0.00 0.00 0.00 3.85
342 379 2.673368 CAGTCAACGAGCCTGTAAATCC 59.327 50.000 0.00 0.00 0.00 3.01
343 380 3.123621 CACAGTCAACGAGCCTGTAAATC 59.876 47.826 0.00 0.00 37.34 2.17
344 381 3.067106 CACAGTCAACGAGCCTGTAAAT 58.933 45.455 0.00 0.00 37.34 1.40
345 382 2.101750 TCACAGTCAACGAGCCTGTAAA 59.898 45.455 0.00 0.00 37.34 2.01
346 383 1.684450 TCACAGTCAACGAGCCTGTAA 59.316 47.619 0.00 0.00 37.34 2.41
347 384 1.324383 TCACAGTCAACGAGCCTGTA 58.676 50.000 0.00 0.00 37.34 2.74
348 385 0.681733 ATCACAGTCAACGAGCCTGT 59.318 50.000 0.00 0.00 39.93 4.00
349 386 1.462283 CAATCACAGTCAACGAGCCTG 59.538 52.381 0.00 0.00 0.00 4.85
350 387 1.609061 CCAATCACAGTCAACGAGCCT 60.609 52.381 0.00 0.00 0.00 4.58
351 388 0.798776 CCAATCACAGTCAACGAGCC 59.201 55.000 0.00 0.00 0.00 4.70
352 389 1.512926 ACCAATCACAGTCAACGAGC 58.487 50.000 0.00 0.00 0.00 5.03
353 390 2.224079 CCAACCAATCACAGTCAACGAG 59.776 50.000 0.00 0.00 0.00 4.18
354 391 2.158885 TCCAACCAATCACAGTCAACGA 60.159 45.455 0.00 0.00 0.00 3.85
355 392 2.217750 TCCAACCAATCACAGTCAACG 58.782 47.619 0.00 0.00 0.00 4.10
356 393 4.853924 ATTCCAACCAATCACAGTCAAC 57.146 40.909 0.00 0.00 0.00 3.18
357 394 6.244654 TCATATTCCAACCAATCACAGTCAA 58.755 36.000 0.00 0.00 0.00 3.18
358 395 5.814481 TCATATTCCAACCAATCACAGTCA 58.186 37.500 0.00 0.00 0.00 3.41
359 396 6.949352 ATCATATTCCAACCAATCACAGTC 57.051 37.500 0.00 0.00 0.00 3.51
360 397 8.821686 TTAATCATATTCCAACCAATCACAGT 57.178 30.769 0.00 0.00 0.00 3.55
361 398 8.355169 CCTTAATCATATTCCAACCAATCACAG 58.645 37.037 0.00 0.00 0.00 3.66
362 399 7.287466 CCCTTAATCATATTCCAACCAATCACA 59.713 37.037 0.00 0.00 0.00 3.58
363 400 7.255942 CCCCTTAATCATATTCCAACCAATCAC 60.256 40.741 0.00 0.00 0.00 3.06
364 401 6.782000 CCCCTTAATCATATTCCAACCAATCA 59.218 38.462 0.00 0.00 0.00 2.57
365 402 6.211384 CCCCCTTAATCATATTCCAACCAATC 59.789 42.308 0.00 0.00 0.00 2.67
366 403 6.084060 CCCCCTTAATCATATTCCAACCAAT 58.916 40.000 0.00 0.00 0.00 3.16
367 404 5.196779 TCCCCCTTAATCATATTCCAACCAA 59.803 40.000 0.00 0.00 0.00 3.67
368 405 4.734503 TCCCCCTTAATCATATTCCAACCA 59.265 41.667 0.00 0.00 0.00 3.67
369 406 5.077564 GTCCCCCTTAATCATATTCCAACC 58.922 45.833 0.00 0.00 0.00 3.77
370 407 4.760204 CGTCCCCCTTAATCATATTCCAAC 59.240 45.833 0.00 0.00 0.00 3.77
371 408 4.202524 CCGTCCCCCTTAATCATATTCCAA 60.203 45.833 0.00 0.00 0.00 3.53
372 409 3.329520 CCGTCCCCCTTAATCATATTCCA 59.670 47.826 0.00 0.00 0.00 3.53
373 410 3.872630 GCCGTCCCCCTTAATCATATTCC 60.873 52.174 0.00 0.00 0.00 3.01
374 411 3.344515 GCCGTCCCCCTTAATCATATTC 58.655 50.000 0.00 0.00 0.00 1.75
375 412 2.041216 GGCCGTCCCCCTTAATCATATT 59.959 50.000 0.00 0.00 0.00 1.28
376 413 1.633945 GGCCGTCCCCCTTAATCATAT 59.366 52.381 0.00 0.00 0.00 1.78
377 414 1.061546 GGCCGTCCCCCTTAATCATA 58.938 55.000 0.00 0.00 0.00 2.15
378 415 1.844130 GGCCGTCCCCCTTAATCAT 59.156 57.895 0.00 0.00 0.00 2.45
379 416 3.326900 GGCCGTCCCCCTTAATCA 58.673 61.111 0.00 0.00 0.00 2.57
390 427 2.781431 ATTTTCAGGGTGGGGCCGTC 62.781 60.000 0.00 0.00 38.44 4.79
391 428 2.781431 GATTTTCAGGGTGGGGCCGT 62.781 60.000 0.00 0.00 38.44 5.68
392 429 2.037208 ATTTTCAGGGTGGGGCCG 59.963 61.111 0.00 0.00 38.44 6.13
393 430 0.972471 CTGATTTTCAGGGTGGGGCC 60.972 60.000 0.00 0.00 40.71 5.80
394 431 2.583472 CTGATTTTCAGGGTGGGGC 58.417 57.895 0.00 0.00 40.71 5.80
414 451 2.555448 GGCCTAATCTAATTGCTCCCCC 60.555 54.545 0.00 0.00 0.00 5.40
415 452 2.108250 TGGCCTAATCTAATTGCTCCCC 59.892 50.000 3.32 0.00 0.00 4.81
416 453 3.149981 GTGGCCTAATCTAATTGCTCCC 58.850 50.000 3.32 0.00 0.00 4.30
417 454 2.808543 CGTGGCCTAATCTAATTGCTCC 59.191 50.000 3.32 0.00 0.00 4.70
418 455 3.467803 ACGTGGCCTAATCTAATTGCTC 58.532 45.455 3.32 0.00 0.00 4.26
419 456 3.560636 ACGTGGCCTAATCTAATTGCT 57.439 42.857 3.32 0.00 0.00 3.91
420 457 3.377172 ACAACGTGGCCTAATCTAATTGC 59.623 43.478 3.32 0.00 0.00 3.56
421 458 4.634004 TGACAACGTGGCCTAATCTAATTG 59.366 41.667 3.32 0.08 0.00 2.32
422 459 4.839121 TGACAACGTGGCCTAATCTAATT 58.161 39.130 3.32 0.00 0.00 1.40
423 460 4.481368 TGACAACGTGGCCTAATCTAAT 57.519 40.909 3.32 0.00 0.00 1.73
424 461 3.965379 TGACAACGTGGCCTAATCTAA 57.035 42.857 3.32 0.00 0.00 2.10
425 462 3.181469 GGATGACAACGTGGCCTAATCTA 60.181 47.826 3.32 0.00 0.00 1.98
426 463 2.420129 GGATGACAACGTGGCCTAATCT 60.420 50.000 3.32 0.00 0.00 2.40
427 464 1.940613 GGATGACAACGTGGCCTAATC 59.059 52.381 3.32 0.00 0.00 1.75
428 465 1.559682 AGGATGACAACGTGGCCTAAT 59.440 47.619 3.32 0.00 0.00 1.73
429 466 0.981183 AGGATGACAACGTGGCCTAA 59.019 50.000 3.32 0.00 0.00 2.69
430 467 0.249120 CAGGATGACAACGTGGCCTA 59.751 55.000 3.32 0.00 39.69 3.93
431 468 1.003355 CAGGATGACAACGTGGCCT 60.003 57.895 3.32 0.00 39.69 5.19
432 469 0.036765 TACAGGATGACAACGTGGCC 60.037 55.000 9.76 0.00 39.69 5.36
433 470 1.803334 TTACAGGATGACAACGTGGC 58.197 50.000 9.76 0.00 39.69 5.01
434 471 3.813166 AGTTTTACAGGATGACAACGTGG 59.187 43.478 9.76 0.00 39.69 4.94
435 472 5.418310 AAGTTTTACAGGATGACAACGTG 57.582 39.130 4.10 4.10 39.69 4.49
436 473 5.355910 ACAAAGTTTTACAGGATGACAACGT 59.644 36.000 0.00 0.00 39.69 3.99
437 474 5.816919 ACAAAGTTTTACAGGATGACAACG 58.183 37.500 0.00 0.00 39.69 4.10
438 475 6.849305 CGTACAAAGTTTTACAGGATGACAAC 59.151 38.462 0.00 0.00 39.69 3.32
439 476 6.762187 TCGTACAAAGTTTTACAGGATGACAA 59.238 34.615 0.00 0.00 39.69 3.18
440 477 6.282167 TCGTACAAAGTTTTACAGGATGACA 58.718 36.000 0.00 0.00 39.69 3.58
441 478 6.774354 TCGTACAAAGTTTTACAGGATGAC 57.226 37.500 0.00 0.00 39.69 3.06
442 479 7.156000 TGATCGTACAAAGTTTTACAGGATGA 58.844 34.615 0.00 0.00 39.69 2.92
443 480 7.359262 TGATCGTACAAAGTTTTACAGGATG 57.641 36.000 0.00 0.00 46.00 3.51
444 481 7.280205 GGATGATCGTACAAAGTTTTACAGGAT 59.720 37.037 0.00 0.00 0.00 3.24
445 482 6.592607 GGATGATCGTACAAAGTTTTACAGGA 59.407 38.462 0.00 0.00 0.00 3.86
446 483 6.594159 AGGATGATCGTACAAAGTTTTACAGG 59.406 38.462 0.00 0.00 0.00 4.00
447 484 7.117812 ACAGGATGATCGTACAAAGTTTTACAG 59.882 37.037 0.00 0.00 39.69 2.74
448 485 6.932400 ACAGGATGATCGTACAAAGTTTTACA 59.068 34.615 0.00 0.00 39.69 2.41
449 486 7.360575 ACAGGATGATCGTACAAAGTTTTAC 57.639 36.000 0.00 0.00 39.69 2.01
450 487 7.274033 CGTACAGGATGATCGTACAAAGTTTTA 59.726 37.037 0.00 0.00 39.69 1.52
451 488 6.090358 CGTACAGGATGATCGTACAAAGTTTT 59.910 38.462 0.00 0.00 39.69 2.43
452 489 5.575606 CGTACAGGATGATCGTACAAAGTTT 59.424 40.000 0.00 0.00 39.69 2.66
453 490 5.100259 CGTACAGGATGATCGTACAAAGTT 58.900 41.667 0.00 0.00 39.69 2.66
454 491 4.157289 ACGTACAGGATGATCGTACAAAGT 59.843 41.667 0.00 0.00 43.48 2.66
455 492 4.499399 CACGTACAGGATGATCGTACAAAG 59.501 45.833 0.00 0.00 43.46 2.77
456 493 4.082625 ACACGTACAGGATGATCGTACAAA 60.083 41.667 0.00 0.00 43.46 2.83
457 494 3.441222 ACACGTACAGGATGATCGTACAA 59.559 43.478 0.00 0.00 43.46 2.41
458 495 3.011818 ACACGTACAGGATGATCGTACA 58.988 45.455 0.00 0.00 43.46 2.90
459 496 3.687572 ACACGTACAGGATGATCGTAC 57.312 47.619 0.00 0.00 43.46 3.67
460 497 4.445453 ACTACACGTACAGGATGATCGTA 58.555 43.478 0.00 0.00 43.46 3.43
461 498 3.276857 ACTACACGTACAGGATGATCGT 58.723 45.455 0.00 0.00 45.16 3.73
462 499 3.965292 ACTACACGTACAGGATGATCG 57.035 47.619 0.00 0.00 39.69 3.69
463 500 9.343103 CAATAATACTACACGTACAGGATGATC 57.657 37.037 0.00 0.00 39.69 2.92
464 501 7.813148 GCAATAATACTACACGTACAGGATGAT 59.187 37.037 0.00 0.00 39.69 2.45
465 502 7.013942 AGCAATAATACTACACGTACAGGATGA 59.986 37.037 0.00 0.00 39.69 2.92
466 503 7.145985 AGCAATAATACTACACGTACAGGATG 58.854 38.462 0.00 0.00 46.00 3.51
467 504 7.286215 AGCAATAATACTACACGTACAGGAT 57.714 36.000 0.00 0.00 0.00 3.24
468 505 6.704289 AGCAATAATACTACACGTACAGGA 57.296 37.500 0.00 0.00 0.00 3.86
469 506 9.125906 GAATAGCAATAATACTACACGTACAGG 57.874 37.037 0.00 0.00 0.00 4.00
470 507 9.125906 GGAATAGCAATAATACTACACGTACAG 57.874 37.037 0.00 0.00 0.00 2.74
471 508 8.084073 GGGAATAGCAATAATACTACACGTACA 58.916 37.037 0.00 0.00 0.00 2.90
472 509 8.302438 AGGGAATAGCAATAATACTACACGTAC 58.698 37.037 0.00 0.00 0.00 3.67
473 510 8.413309 AGGGAATAGCAATAATACTACACGTA 57.587 34.615 0.00 0.00 0.00 3.57
474 511 7.299246 AGGGAATAGCAATAATACTACACGT 57.701 36.000 0.00 0.00 0.00 4.49
475 512 7.117812 CCAAGGGAATAGCAATAATACTACACG 59.882 40.741 0.00 0.00 0.00 4.49
476 513 7.094762 GCCAAGGGAATAGCAATAATACTACAC 60.095 40.741 0.00 0.00 0.00 2.90
477 514 6.940298 GCCAAGGGAATAGCAATAATACTACA 59.060 38.462 0.00 0.00 0.00 2.74
478 515 6.092259 CGCCAAGGGAATAGCAATAATACTAC 59.908 42.308 0.00 0.00 0.00 2.73
479 516 6.014070 TCGCCAAGGGAATAGCAATAATACTA 60.014 38.462 0.00 0.00 0.00 1.82
480 517 5.003804 CGCCAAGGGAATAGCAATAATACT 58.996 41.667 0.00 0.00 0.00 2.12
481 518 5.001232 TCGCCAAGGGAATAGCAATAATAC 58.999 41.667 0.00 0.00 0.00 1.89
482 519 5.001232 GTCGCCAAGGGAATAGCAATAATA 58.999 41.667 0.00 0.00 0.00 0.98
483 520 3.821033 GTCGCCAAGGGAATAGCAATAAT 59.179 43.478 0.00 0.00 0.00 1.28
484 521 3.211045 GTCGCCAAGGGAATAGCAATAA 58.789 45.455 0.00 0.00 0.00 1.40
485 522 2.805295 CGTCGCCAAGGGAATAGCAATA 60.805 50.000 0.00 0.00 0.00 1.90
486 523 1.680338 GTCGCCAAGGGAATAGCAAT 58.320 50.000 0.00 0.00 0.00 3.56
487 524 0.742990 CGTCGCCAAGGGAATAGCAA 60.743 55.000 0.00 0.00 0.00 3.91
488 525 1.153449 CGTCGCCAAGGGAATAGCA 60.153 57.895 0.00 0.00 0.00 3.49
582 619 3.365666 GGCATGCAATTATCCTCGACATG 60.366 47.826 21.36 0.00 37.17 3.21
584 621 2.158769 AGGCATGCAATTATCCTCGACA 60.159 45.455 21.36 0.00 0.00 4.35
634 671 5.046663 TGACTTGTACCTATGTCATCTTGCA 60.047 40.000 0.00 0.00 34.94 4.08
840 891 3.371965 AGACGTACTTGGGTGGATATGT 58.628 45.455 0.00 0.00 0.00 2.29
878 929 6.572509 CGGTATTTATAGATGTGTCAGGAGGG 60.573 46.154 0.00 0.00 0.00 4.30
1222 1416 3.758023 TGATCAATGGAACGCAGATTGTT 59.242 39.130 0.00 0.00 0.00 2.83
1830 2065 1.399744 CCGGGATCCATCTCCGACAA 61.400 60.000 15.23 0.00 40.63 3.18
1870 2105 1.651240 GACGTGGCGGTAGTAGCTGA 61.651 60.000 0.00 0.00 34.52 4.26
1904 2139 4.117661 GCGTCGGAGCGGAAGAGT 62.118 66.667 0.00 0.00 0.00 3.24
1976 2211 1.967762 AGAACGCGTCGTCGAATTTA 58.032 45.000 14.44 0.00 39.99 1.40
2123 2362 5.244626 CCTGGTTCCAATTCTCAACAGAAAT 59.755 40.000 0.00 0.00 42.14 2.17
2125 2364 4.144297 CCTGGTTCCAATTCTCAACAGAA 58.856 43.478 0.00 0.00 43.06 3.02
2166 2406 2.664568 TGAACGCGAGCAGTAACAATAC 59.335 45.455 15.93 0.00 0.00 1.89
2256 2988 7.856556 TGCCGTTTCCAAATTAATTTCTTTTC 58.143 30.769 10.53 2.15 0.00 2.29
2259 2991 6.763610 TGTTGCCGTTTCCAAATTAATTTCTT 59.236 30.769 10.53 0.00 0.00 2.52
2297 3030 7.509050 TTGTTTTCTTTAAGTTGCCGTTTAC 57.491 32.000 0.00 0.00 0.00 2.01
2298 3031 8.705048 AATTGTTTTCTTTAAGTTGCCGTTTA 57.295 26.923 0.00 0.00 0.00 2.01
2299 3032 7.603963 AATTGTTTTCTTTAAGTTGCCGTTT 57.396 28.000 0.00 0.00 0.00 3.60
2300 3033 7.118535 ACAAATTGTTTTCTTTAAGTTGCCGTT 59.881 29.630 0.00 0.00 34.00 4.44
2301 3034 6.592220 ACAAATTGTTTTCTTTAAGTTGCCGT 59.408 30.769 0.00 0.00 34.00 5.68
2302 3035 6.899243 CACAAATTGTTTTCTTTAAGTTGCCG 59.101 34.615 0.00 0.00 34.00 5.69
2303 3036 7.969314 TCACAAATTGTTTTCTTTAAGTTGCC 58.031 30.769 0.00 0.00 34.00 4.52
2304 3037 9.818796 TTTCACAAATTGTTTTCTTTAAGTTGC 57.181 25.926 0.00 0.00 34.00 4.17
2403 3143 9.567776 TCTTTTCTTTCCCTTTTTGTTTTCTTT 57.432 25.926 0.00 0.00 0.00 2.52
2404 3144 9.567776 TTCTTTTCTTTCCCTTTTTGTTTTCTT 57.432 25.926 0.00 0.00 0.00 2.52
2477 3223 0.618458 AGCTAAACAAGATGGGCCGA 59.382 50.000 0.00 0.00 0.00 5.54
2498 3244 1.252215 TAGTCGGGGATTCGCACACA 61.252 55.000 2.94 0.00 0.00 3.72
2499 3245 0.104304 ATAGTCGGGGATTCGCACAC 59.896 55.000 2.94 0.00 0.00 3.82
2548 3297 6.095720 TCCCATAGTTCACTTTTGACGTTTTT 59.904 34.615 0.00 0.00 0.00 1.94
2551 3300 4.514066 GTCCCATAGTTCACTTTTGACGTT 59.486 41.667 0.00 0.00 0.00 3.99
2552 3301 4.062991 GTCCCATAGTTCACTTTTGACGT 58.937 43.478 0.00 0.00 0.00 4.34
2569 3318 2.047655 GCATGGTCGTTCGTCCCA 60.048 61.111 6.10 7.26 0.00 4.37
2575 3324 0.179111 TCCAGATCGCATGGTCGTTC 60.179 55.000 0.00 0.00 39.01 3.95
2576 3325 0.460284 GTCCAGATCGCATGGTCGTT 60.460 55.000 0.00 0.00 39.01 3.85
2577 3326 1.141881 GTCCAGATCGCATGGTCGT 59.858 57.895 0.00 0.00 39.01 4.34
2578 3327 0.668535 TAGTCCAGATCGCATGGTCG 59.331 55.000 0.00 0.00 39.01 4.79
2579 3328 3.062763 CAATAGTCCAGATCGCATGGTC 58.937 50.000 0.00 0.00 39.01 4.02
2617 3366 2.286872 AGCGATTTCATCTTGCCAGAG 58.713 47.619 0.00 0.00 30.36 3.35
2621 3370 6.148480 ACATCTTATAGCGATTTCATCTTGCC 59.852 38.462 0.00 0.00 0.00 4.52
2638 3387 6.804770 AGCGAGTTATCTACGACATCTTAT 57.195 37.500 0.00 0.00 0.00 1.73
2644 3393 6.187125 AGTAAAAGCGAGTTATCTACGACA 57.813 37.500 0.00 0.00 0.00 4.35
2683 3436 3.348647 AAACAAGGGCAAAAGCTTTGT 57.651 38.095 13.54 1.76 33.73 2.83
2686 3439 2.238395 TCCAAAACAAGGGCAAAAGCTT 59.762 40.909 0.00 0.00 0.00 3.74
2717 3478 5.122869 ACAGCTAAGTGTTGATTGCATGTAG 59.877 40.000 0.00 0.00 0.00 2.74
2725 3486 6.318648 TCTTTGTTCACAGCTAAGTGTTGATT 59.681 34.615 4.29 0.00 40.37 2.57
2777 3538 4.021102 TCTTCTTCTTTTCTGCGGGAAT 57.979 40.909 0.00 0.00 33.53 3.01
2786 3547 9.771915 CATAGCTGATTCTTTCTTCTTCTTTTC 57.228 33.333 0.00 0.00 0.00 2.29
2807 3568 0.843984 TGGTCCCCTTAAGCCATAGC 59.156 55.000 0.00 0.00 40.32 2.97
2808 3569 2.815589 GCATGGTCCCCTTAAGCCATAG 60.816 54.545 10.83 7.85 39.47 2.23
2809 3570 1.144913 GCATGGTCCCCTTAAGCCATA 59.855 52.381 10.83 0.00 39.47 2.74
2810 3571 0.106015 GCATGGTCCCCTTAAGCCAT 60.106 55.000 6.54 6.54 41.92 4.40
2811 3572 1.306296 GCATGGTCCCCTTAAGCCA 59.694 57.895 0.00 0.00 35.28 4.75
2812 3573 1.037579 GTGCATGGTCCCCTTAAGCC 61.038 60.000 0.00 0.00 0.00 4.35
2813 3574 1.376609 CGTGCATGGTCCCCTTAAGC 61.377 60.000 0.00 0.00 0.00 3.09
2814 3575 0.035439 ACGTGCATGGTCCCCTTAAG 60.035 55.000 11.36 0.00 0.00 1.85
2815 3576 0.322098 CACGTGCATGGTCCCCTTAA 60.322 55.000 11.36 0.00 0.00 1.85
2816 3577 1.298340 CACGTGCATGGTCCCCTTA 59.702 57.895 11.36 0.00 0.00 2.69
2817 3578 2.034066 CACGTGCATGGTCCCCTT 59.966 61.111 11.36 0.00 0.00 3.95
2818 3579 4.722700 GCACGTGCATGGTCCCCT 62.723 66.667 34.52 0.00 41.59 4.79
2850 3611 5.390885 CCACGGTGATACAATGTTTTCTCAG 60.391 44.000 10.28 0.00 0.00 3.35
2856 3617 2.224917 ACCCCACGGTGATACAATGTTT 60.225 45.455 10.28 0.00 42.48 2.83
2858 3619 0.988832 ACCCCACGGTGATACAATGT 59.011 50.000 10.28 0.00 42.48 2.71
2859 3620 2.992124 TACCCCACGGTGATACAATG 57.008 50.000 10.28 0.00 44.40 2.82
2860 3621 4.513406 AAATACCCCACGGTGATACAAT 57.487 40.909 10.28 0.00 44.40 2.71
2869 3630 2.679336 CCTTTTCGTAAATACCCCACGG 59.321 50.000 0.00 0.00 36.37 4.94
2871 3632 5.066893 GGATTCCTTTTCGTAAATACCCCAC 59.933 44.000 0.00 0.00 0.00 4.61
2874 3635 7.553760 TGTAAGGATTCCTTTTCGTAAATACCC 59.446 37.037 22.63 0.00 41.69 3.69
2911 3672 5.429130 AGTTGTTACTCTAGCCCTAAATGC 58.571 41.667 0.00 0.00 0.00 3.56
2934 3695 4.153475 GCGCTGGTTGAAAAGTAGTATTGA 59.847 41.667 0.00 0.00 0.00 2.57
2935 3696 4.083537 TGCGCTGGTTGAAAAGTAGTATTG 60.084 41.667 9.73 0.00 0.00 1.90
2937 3698 3.435671 GTGCGCTGGTTGAAAAGTAGTAT 59.564 43.478 9.73 0.00 0.00 2.12
2947 3708 2.449031 ATTCCTCGTGCGCTGGTTGA 62.449 55.000 9.73 0.00 0.00 3.18
2948 3709 1.577328 AATTCCTCGTGCGCTGGTTG 61.577 55.000 9.73 0.00 0.00 3.77
2949 3710 1.302511 AATTCCTCGTGCGCTGGTT 60.303 52.632 9.73 0.00 0.00 3.67
2950 3711 2.034879 CAATTCCTCGTGCGCTGGT 61.035 57.895 9.73 0.00 0.00 4.00
2951 3712 2.787249 CAATTCCTCGTGCGCTGG 59.213 61.111 9.73 5.95 0.00 4.85
2972 3733 5.625251 TCAATACTCTTCGTCAGTCGTTAC 58.375 41.667 0.00 0.00 40.80 2.50
2985 3746 7.201591 CGAGCAAATCTGACAATCAATACTCTT 60.202 37.037 0.00 0.00 0.00 2.85
2997 3758 1.507562 TTTCGCGAGCAAATCTGACA 58.492 45.000 9.59 0.00 0.00 3.58
3012 3773 3.749609 ACCTGTCGGTTTTCCTATTTTCG 59.250 43.478 0.00 0.00 42.13 3.46
3066 3827 4.494690 CGCCTCAGCAAAATGTACATGTAG 60.495 45.833 9.63 3.32 39.83 2.74


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

AutoCloner maintained by Alex Coulton.