Multiple sequence alignment - TraesCS5D01G568500

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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 TraesCS5D01G568500 chr5D 100.000 2747 0 0 1 2747 565704111 565701365 0.000000e+00 5073.0
1 TraesCS5D01G568500 chr5D 90.798 489 33 6 1015 1500 565659720 565659241 0.000000e+00 643.0
2 TraesCS5D01G568500 chr5D 87.815 238 28 1 1511 1748 565659103 565658867 7.490000e-71 278.0
3 TraesCS5D01G568500 chr5D 83.158 95 10 6 1103 1194 435933353 435933444 6.300000e-12 82.4
4 TraesCS5D01G568500 chr5B 92.903 2184 96 31 612 2747 707439567 707441739 0.000000e+00 3120.0
5 TraesCS5D01G568500 chr5B 90.741 486 33 7 1015 1497 707475983 707476459 2.980000e-179 638.0
6 TraesCS5D01G568500 chr5B 95.539 269 8 2 1 265 707438937 707439205 7.030000e-116 427.0
7 TraesCS5D01G568500 chr5B 87.200 250 32 0 1499 1748 707476593 707476842 4.480000e-73 285.0
8 TraesCS5D01G568500 chr5B 91.111 135 12 0 269 403 226429675 226429809 1.680000e-42 183.0
9 TraesCS5D01G568500 chr5B 90.667 75 7 0 1499 1573 529988419 529988493 1.740000e-17 100.0
10 TraesCS5D01G568500 chr5B 83.333 96 8 8 1103 1194 529987512 529987603 6.300000e-12 82.4
11 TraesCS5D01G568500 chr5B 81.053 95 12 6 1103 1194 529608706 529608797 1.360000e-08 71.3
12 TraesCS5D01G568500 chr4A 92.602 1568 69 21 962 2506 607262102 607260559 0.000000e+00 2209.0
13 TraesCS5D01G568500 chr4A 90.535 486 34 5 1015 1500 607178283 607177810 1.390000e-177 632.0
14 TraesCS5D01G568500 chr4A 89.344 366 18 9 612 960 607263278 607262917 9.030000e-120 440.0
15 TraesCS5D01G568500 chr4A 91.697 277 11 5 1 265 607263768 607263492 9.290000e-100 374.0
16 TraesCS5D01G568500 chr4A 92.653 245 12 4 2504 2747 607242263 607242024 5.630000e-92 348.0
17 TraesCS5D01G568500 chr4A 87.600 250 31 0 1499 1748 607177676 607177427 9.620000e-75 291.0
18 TraesCS5D01G568500 chr4A 90.141 71 7 0 1427 1497 684536089 684536159 2.910000e-15 93.5
19 TraesCS5D01G568500 chr7D 85.766 274 31 7 276 548 10120132 10119866 1.610000e-72 283.0
20 TraesCS5D01G568500 chr7D 92.857 154 6 5 399 552 171308134 171307986 4.610000e-53 219.0
21 TraesCS5D01G568500 chr2B 94.040 151 5 2 399 549 797534673 797534819 2.750000e-55 226.0
22 TraesCS5D01G568500 chr6D 93.333 150 6 4 399 548 266777496 266777641 4.610000e-53 219.0
23 TraesCS5D01G568500 chr6D 92.208 154 8 4 399 552 263513020 263512871 5.960000e-52 215.0
24 TraesCS5D01G568500 chr2D 92.258 155 8 2 399 553 524568109 524567959 1.660000e-52 217.0
25 TraesCS5D01G568500 chr1B 90.476 168 10 3 383 549 297119682 297119844 1.660000e-52 217.0
26 TraesCS5D01G568500 chr1B 78.776 245 38 13 309 548 217292031 217291796 4.740000e-33 152.0
27 TraesCS5D01G568500 chr1D 92.258 155 7 3 399 553 160451640 160451491 5.960000e-52 215.0
28 TraesCS5D01G568500 chr7B 91.250 160 8 6 399 558 429268753 429268600 2.140000e-51 213.0
29 TraesCS5D01G568500 chr7B 93.496 123 8 0 271 393 46022819 46022941 1.680000e-42 183.0
30 TraesCS5D01G568500 chr7B 89.510 143 10 4 276 416 41041055 41040916 2.810000e-40 176.0
31 TraesCS5D01G568500 chr7A 92.701 137 7 3 269 404 220543629 220543495 7.760000e-46 195.0
32 TraesCS5D01G568500 chr4D 83.663 202 29 4 1427 1626 477749838 477750037 1.300000e-43 187.0
33 TraesCS5D01G568500 chr4D 88.000 75 9 0 1427 1501 419137246 419137320 3.770000e-14 89.8
34 TraesCS5D01G568500 chr4D 78.689 122 23 3 1499 1618 419137426 419137546 8.160000e-11 78.7
35 TraesCS5D01G568500 chr6B 90.511 137 9 4 265 399 711692898 711693032 7.820000e-41 178.0
36 TraesCS5D01G568500 chr4B 82.587 201 33 2 1427 1626 603520118 603520317 2.810000e-40 176.0
37 TraesCS5D01G568500 chr4B 89.855 69 7 0 1433 1501 516952326 516952258 3.770000e-14 89.8
38 TraesCS5D01G568500 chr4B 79.032 124 22 4 1505 1626 516952144 516952023 6.300000e-12 82.4
39 TraesCS5D01G568500 chr3D 80.488 246 34 10 309 548 386299500 386299737 2.810000e-40 176.0
40 TraesCS5D01G568500 chr3B 85.714 168 21 3 276 441 341965170 341965004 1.010000e-39 174.0
41 TraesCS5D01G568500 chr5A 83.333 96 8 8 1103 1194 550249761 550249852 6.300000e-12 82.4
42 TraesCS5D01G568500 chr5A 82.105 95 11 6 1103 1194 549953274 549953365 2.930000e-10 76.8


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 TraesCS5D01G568500 chr5D 565701365 565704111 2746 True 5073.000000 5073 100.000000 1 2747 1 chr5D.!!$R1 2746
1 TraesCS5D01G568500 chr5D 565658867 565659720 853 True 460.500000 643 89.306500 1015 1748 2 chr5D.!!$R2 733
2 TraesCS5D01G568500 chr5B 707438937 707441739 2802 False 1773.500000 3120 94.221000 1 2747 2 chr5B.!!$F4 2746
3 TraesCS5D01G568500 chr5B 707475983 707476842 859 False 461.500000 638 88.970500 1015 1748 2 chr5B.!!$F5 733
4 TraesCS5D01G568500 chr4A 607260559 607263768 3209 True 1007.666667 2209 91.214333 1 2506 3 chr4A.!!$R3 2505
5 TraesCS5D01G568500 chr4A 607177427 607178283 856 True 461.500000 632 89.067500 1015 1748 2 chr4A.!!$R2 733

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
580 703 0.109781 CTTCATTCCCGCGTTGGTTG 60.11 55.0 4.92 3.3 35.15 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1940 3058 1.004292 GCATACGTTCAACCATACGGC 60.004 52.381 0.0 0.0 41.81 5.68 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
95 100 3.454719 AAATGATGGGTCCACATGTGA 57.545 42.857 27.46 10.46 0.00 3.58
169 174 4.218635 CCTCAGAGTCTTAAGTGCACTACA 59.781 45.833 22.01 8.51 0.00 2.74
196 201 2.809181 CAGACGCATGTGTGTACGT 58.191 52.632 18.34 4.90 42.27 3.57
197 202 1.971792 CAGACGCATGTGTGTACGTA 58.028 50.000 18.34 0.00 39.16 3.57
198 203 1.647213 CAGACGCATGTGTGTACGTAC 59.353 52.381 18.34 18.90 39.16 3.67
251 264 4.142093 GGACCAAACAACGCTAGGTAGATA 60.142 45.833 0.00 0.00 31.57 1.98
253 266 5.598769 ACCAAACAACGCTAGGTAGATATC 58.401 41.667 0.00 0.00 0.00 1.63
281 294 9.523168 ACAGATAAGAAGATGTATACTACTCCC 57.477 37.037 4.17 0.80 0.00 4.30
282 295 9.747898 CAGATAAGAAGATGTATACTACTCCCT 57.252 37.037 4.17 2.76 0.00 4.20
283 296 9.969001 AGATAAGAAGATGTATACTACTCCCTC 57.031 37.037 4.17 0.00 0.00 4.30
285 298 5.562635 AGAAGATGTATACTACTCCCTCCG 58.437 45.833 4.17 0.00 0.00 4.63
286 299 4.997545 AGATGTATACTACTCCCTCCGT 57.002 45.455 4.17 0.00 0.00 4.69
288 301 5.315348 AGATGTATACTACTCCCTCCGTTC 58.685 45.833 4.17 0.00 0.00 3.95
291 304 2.905415 TACTACTCCCTCCGTTCCAA 57.095 50.000 0.00 0.00 0.00 3.53
292 305 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
293 306 2.332117 ACTACTCCCTCCGTTCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
294 307 2.910977 ACTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
296 309 2.791655 ACTCCCTCCGTTCCAAAATTC 58.208 47.619 0.00 0.00 0.00 2.17
297 310 2.375509 ACTCCCTCCGTTCCAAAATTCT 59.624 45.455 0.00 0.00 0.00 2.40
298 311 3.181433 ACTCCCTCCGTTCCAAAATTCTT 60.181 43.478 0.00 0.00 0.00 2.52
299 312 3.153919 TCCCTCCGTTCCAAAATTCTTG 58.846 45.455 0.00 0.00 0.00 3.02
301 314 3.057526 CCCTCCGTTCCAAAATTCTTGTC 60.058 47.826 0.00 0.00 0.00 3.18
302 315 3.821033 CCTCCGTTCCAAAATTCTTGTCT 59.179 43.478 0.00 0.00 0.00 3.41
303 316 4.278419 CCTCCGTTCCAAAATTCTTGTCTT 59.722 41.667 0.00 0.00 0.00 3.01
304 317 5.472137 CCTCCGTTCCAAAATTCTTGTCTTA 59.528 40.000 0.00 0.00 0.00 2.10
306 319 7.336161 TCCGTTCCAAAATTCTTGTCTTAAA 57.664 32.000 0.00 0.00 0.00 1.52
308 321 8.417884 TCCGTTCCAAAATTCTTGTCTTAAATT 58.582 29.630 0.00 0.00 0.00 1.82
309 322 9.040939 CCGTTCCAAAATTCTTGTCTTAAATTT 57.959 29.630 0.00 0.00 34.86 1.82
310 323 9.848172 CGTTCCAAAATTCTTGTCTTAAATTTG 57.152 29.630 0.00 0.00 33.95 2.32
321 334 8.717821 TCTTGTCTTAAATTTGTCAAGATACGG 58.282 33.333 17.01 7.66 37.13 4.02
323 336 8.786826 TGTCTTAAATTTGTCAAGATACGGAT 57.213 30.769 0.00 0.00 31.40 4.18
324 337 8.664798 TGTCTTAAATTTGTCAAGATACGGATG 58.335 33.333 0.00 0.00 31.40 3.51
364 487 9.631257 AATGTGACTTGATACATCCATATTTGA 57.369 29.630 0.00 0.00 36.56 2.69
366 489 8.892723 TGTGACTTGATACATCCATATTTGAAC 58.107 33.333 0.00 0.00 0.00 3.18
367 490 8.892723 GTGACTTGATACATCCATATTTGAACA 58.107 33.333 0.00 0.00 0.00 3.18
368 491 9.460019 TGACTTGATACATCCATATTTGAACAA 57.540 29.630 0.00 0.00 0.00 2.83
388 511 8.881743 TGAACAAATCAAAGACAAGAATTTTGG 58.118 29.630 0.00 0.00 34.30 3.28
389 512 9.097257 GAACAAATCAAAGACAAGAATTTTGGA 57.903 29.630 0.00 0.00 33.70 3.53
390 513 9.447157 AACAAATCAAAGACAAGAATTTTGGAA 57.553 25.926 0.00 0.00 33.70 3.53
391 514 8.882736 ACAAATCAAAGACAAGAATTTTGGAAC 58.117 29.630 0.00 0.00 33.70 3.62
392 515 7.698836 AATCAAAGACAAGAATTTTGGAACG 57.301 32.000 5.68 0.00 33.70 3.95
393 516 6.443934 TCAAAGACAAGAATTTTGGAACGA 57.556 33.333 0.00 0.00 33.70 3.85
394 517 6.262601 TCAAAGACAAGAATTTTGGAACGAC 58.737 36.000 0.00 0.00 33.70 4.34
395 518 4.468095 AGACAAGAATTTTGGAACGACG 57.532 40.909 0.00 0.00 0.00 5.12
396 519 3.250040 AGACAAGAATTTTGGAACGACGG 59.750 43.478 0.00 0.00 0.00 4.79
397 520 2.292292 ACAAGAATTTTGGAACGACGGG 59.708 45.455 0.00 0.00 0.00 5.28
407 530 4.311816 TGGAACGACGGGAATATAAGTC 57.688 45.455 0.00 0.00 0.00 3.01
417 540 6.514063 ACGGGAATATAAGTCTTTGTAGAGC 58.486 40.000 0.00 0.00 0.00 4.09
420 543 7.382759 CGGGAATATAAGTCTTTGTAGAGCTTC 59.617 40.741 0.00 0.00 0.00 3.86
423 546 8.950208 AATATAAGTCTTTGTAGAGCTTCCAC 57.050 34.615 0.00 0.00 0.00 4.02
428 551 5.717178 AGTCTTTGTAGAGCTTCCACTATGA 59.283 40.000 0.00 0.00 0.00 2.15
431 554 4.737855 TGTAGAGCTTCCACTATGAACC 57.262 45.455 0.00 0.00 0.00 3.62
434 557 2.906389 AGAGCTTCCACTATGAACCACA 59.094 45.455 0.00 0.00 0.00 4.17
442 565 4.058124 CCACTATGAACCACATACGGATG 58.942 47.826 5.94 5.94 40.07 3.51
445 568 6.455647 CACTATGAACCACATACGGATGTAT 58.544 40.000 14.23 5.54 44.82 2.29
449 572 9.952188 CTATGAACCACATACGGATGTATATAG 57.048 37.037 14.23 12.28 44.82 1.31
450 573 8.589701 ATGAACCACATACGGATGTATATAGA 57.410 34.615 14.23 0.00 44.82 1.98
453 576 6.806751 ACCACATACGGATGTATATAGATGC 58.193 40.000 14.23 0.00 44.82 3.91
455 578 6.697455 CCACATACGGATGTATATAGATGCAC 59.303 42.308 14.23 0.00 44.82 4.57
457 580 7.976175 CACATACGGATGTATATAGATGCACTT 59.024 37.037 14.23 0.00 44.82 3.16
458 581 8.531982 ACATACGGATGTATATAGATGCACTTT 58.468 33.333 12.79 0.00 44.77 2.66
461 584 8.988064 ACGGATGTATATAGATGCACTTTAAG 57.012 34.615 11.19 0.00 29.72 1.85
491 614 8.892723 AGATTCATTCATTTTGCTTCGTATGTA 58.107 29.630 0.00 0.00 0.00 2.29
493 616 6.486248 TCATTCATTTTGCTTCGTATGTAGC 58.514 36.000 6.61 6.61 38.83 3.58
496 619 1.647346 TTTGCTTCGTATGTAGCCCG 58.353 50.000 10.65 0.00 37.68 6.13
497 620 0.808453 TTGCTTCGTATGTAGCCCGC 60.808 55.000 10.65 0.00 37.68 6.13
498 621 1.954651 GCTTCGTATGTAGCCCGCC 60.955 63.158 2.27 0.00 32.82 6.13
499 622 1.740285 CTTCGTATGTAGCCCGCCT 59.260 57.895 0.00 0.00 0.00 5.52
500 623 0.956633 CTTCGTATGTAGCCCGCCTA 59.043 55.000 0.00 0.00 0.00 3.93
501 624 0.956633 TTCGTATGTAGCCCGCCTAG 59.043 55.000 0.00 0.00 0.00 3.02
502 625 1.080705 CGTATGTAGCCCGCCTAGC 60.081 63.158 0.00 0.00 0.00 3.42
515 638 2.625790 CCGCCTAGCTAGTGAAATCTCT 59.374 50.000 19.31 0.00 0.00 3.10
548 671 9.145442 ACTTATATTTAGGAACAGAGGGAGTAC 57.855 37.037 0.00 0.00 0.00 2.73
549 672 9.369672 CTTATATTTAGGAACAGAGGGAGTACT 57.630 37.037 0.00 0.00 0.00 2.73
552 675 9.900112 ATATTTAGGAACAGAGGGAGTACTATT 57.100 33.333 0.00 0.00 0.00 1.73
553 676 7.657023 TTTAGGAACAGAGGGAGTACTATTC 57.343 40.000 0.00 0.00 0.00 1.75
554 677 4.548669 AGGAACAGAGGGAGTACTATTCC 58.451 47.826 0.00 0.00 35.60 3.01
555 678 3.318557 GGAACAGAGGGAGTACTATTCCG 59.681 52.174 0.00 0.00 35.48 4.30
556 679 3.666345 ACAGAGGGAGTACTATTCCGT 57.334 47.619 0.00 0.00 35.48 4.69
557 680 4.785346 ACAGAGGGAGTACTATTCCGTA 57.215 45.455 0.00 0.00 35.48 4.02
558 681 5.321934 ACAGAGGGAGTACTATTCCGTAT 57.678 43.478 0.00 0.00 35.48 3.06
559 682 5.315348 ACAGAGGGAGTACTATTCCGTATC 58.685 45.833 0.00 0.00 35.48 2.24
560 683 5.073417 ACAGAGGGAGTACTATTCCGTATCT 59.927 44.000 0.00 0.00 35.48 1.98
561 684 5.644636 CAGAGGGAGTACTATTCCGTATCTC 59.355 48.000 0.00 0.00 35.48 2.75
562 685 5.548836 AGAGGGAGTACTATTCCGTATCTCT 59.451 44.000 0.00 0.00 35.48 3.10
563 686 6.044637 AGAGGGAGTACTATTCCGTATCTCTT 59.955 42.308 0.00 0.00 35.48 2.85
564 687 6.240145 AGGGAGTACTATTCCGTATCTCTTC 58.760 44.000 0.00 0.00 35.48 2.87
565 688 6.002704 GGGAGTACTATTCCGTATCTCTTCA 58.997 44.000 0.00 0.00 35.48 3.02
566 689 6.660094 GGGAGTACTATTCCGTATCTCTTCAT 59.340 42.308 0.00 0.00 35.48 2.57
567 690 7.177041 GGGAGTACTATTCCGTATCTCTTCATT 59.823 40.741 0.00 0.00 35.48 2.57
568 691 8.238631 GGAGTACTATTCCGTATCTCTTCATTC 58.761 40.741 0.00 0.00 0.00 2.67
569 692 8.113173 AGTACTATTCCGTATCTCTTCATTCC 57.887 38.462 0.00 0.00 0.00 3.01
570 693 6.347859 ACTATTCCGTATCTCTTCATTCCC 57.652 41.667 0.00 0.00 0.00 3.97
571 694 3.728076 TTCCGTATCTCTTCATTCCCG 57.272 47.619 0.00 0.00 0.00 5.14
572 695 1.340248 TCCGTATCTCTTCATTCCCGC 59.660 52.381 0.00 0.00 0.00 6.13
573 696 1.409412 CGTATCTCTTCATTCCCGCG 58.591 55.000 0.00 0.00 0.00 6.46
574 697 1.269102 CGTATCTCTTCATTCCCGCGT 60.269 52.381 4.92 0.00 0.00 6.01
575 698 2.798499 CGTATCTCTTCATTCCCGCGTT 60.798 50.000 4.92 0.00 0.00 4.84
576 699 1.656652 ATCTCTTCATTCCCGCGTTG 58.343 50.000 4.92 0.00 0.00 4.10
577 700 0.391130 TCTCTTCATTCCCGCGTTGG 60.391 55.000 4.92 0.00 37.55 3.77
578 701 0.673644 CTCTTCATTCCCGCGTTGGT 60.674 55.000 4.92 0.00 35.15 3.67
579 702 0.250553 TCTTCATTCCCGCGTTGGTT 60.251 50.000 4.92 0.00 35.15 3.67
580 703 0.109781 CTTCATTCCCGCGTTGGTTG 60.110 55.000 4.92 3.30 35.15 3.77
581 704 0.535328 TTCATTCCCGCGTTGGTTGA 60.535 50.000 4.92 5.62 35.15 3.18
582 705 0.322098 TCATTCCCGCGTTGGTTGAT 60.322 50.000 4.92 0.00 35.15 2.57
583 706 0.179166 CATTCCCGCGTTGGTTGATG 60.179 55.000 4.92 3.50 35.15 3.07
584 707 0.322098 ATTCCCGCGTTGGTTGATGA 60.322 50.000 4.92 0.00 35.15 2.92
585 708 0.322098 TTCCCGCGTTGGTTGATGAT 60.322 50.000 4.92 0.00 35.15 2.45
586 709 0.322098 TCCCGCGTTGGTTGATGATT 60.322 50.000 4.92 0.00 35.15 2.57
587 710 1.066071 TCCCGCGTTGGTTGATGATTA 60.066 47.619 4.92 0.00 35.15 1.75
588 711 1.740585 CCCGCGTTGGTTGATGATTAA 59.259 47.619 4.92 0.00 35.15 1.40
589 712 2.477189 CCCGCGTTGGTTGATGATTAAC 60.477 50.000 4.92 0.00 35.15 2.01
590 713 2.418628 CCGCGTTGGTTGATGATTAACT 59.581 45.455 4.92 0.00 0.00 2.24
591 714 3.619483 CCGCGTTGGTTGATGATTAACTA 59.381 43.478 4.92 0.00 0.00 2.24
592 715 4.272504 CCGCGTTGGTTGATGATTAACTAT 59.727 41.667 4.92 0.00 0.00 2.12
593 716 5.464057 CCGCGTTGGTTGATGATTAACTATA 59.536 40.000 4.92 0.00 0.00 1.31
594 717 6.018588 CCGCGTTGGTTGATGATTAACTATAA 60.019 38.462 4.92 0.00 0.00 0.98
595 718 7.403421 CGCGTTGGTTGATGATTAACTATAAA 58.597 34.615 0.00 0.00 0.00 1.40
596 719 8.067784 CGCGTTGGTTGATGATTAACTATAAAT 58.932 33.333 0.00 0.00 0.00 1.40
622 745 7.092716 AGATTAGTTGCTTTATGGCTTTGTTG 58.907 34.615 0.00 0.00 0.00 3.33
625 748 5.857268 AGTTGCTTTATGGCTTTGTTGATT 58.143 33.333 0.00 0.00 0.00 2.57
849 982 1.424638 TAGTCCCTATCCAAGCAGCC 58.575 55.000 0.00 0.00 0.00 4.85
860 996 1.994507 AAGCAGCCAGGAGGAGGAG 60.995 63.158 0.00 0.00 36.89 3.69
909 1050 7.086230 ACTCAACAGTAGGCTATATATACGC 57.914 40.000 0.00 5.92 0.00 4.42
941 1082 4.741239 GGCACCTCTCCTCCCCCA 62.741 72.222 0.00 0.00 0.00 4.96
960 1914 0.321298 ATTCCGGCCGGCACATATAC 60.321 55.000 39.89 7.76 34.68 1.47
969 1923 4.177026 GCCGGCACATATACATTCTCTAG 58.823 47.826 24.80 0.00 0.00 2.43
1461 2425 2.583520 GAGGAGCTGCTGGAGGTG 59.416 66.667 14.48 0.00 30.42 4.00
1773 2876 2.511600 GGCCGGATCAACTCACCG 60.512 66.667 5.05 0.00 45.24 4.94
1774 2877 2.264794 GCCGGATCAACTCACCGT 59.735 61.111 5.05 0.00 44.34 4.83
1778 2881 0.038618 CGGATCAACTCACCGTCACA 60.039 55.000 0.00 0.00 41.47 3.58
1817 2926 7.861630 AGATTAGTTGACAAACACACACATAC 58.138 34.615 0.00 0.00 38.88 2.39
1954 3075 0.606944 TGTGGGCCGTATGGTTGAAC 60.607 55.000 2.17 0.00 37.67 3.18
2101 3225 2.113433 GGATCCACAGCAGCAGCAG 61.113 63.158 6.95 0.00 45.49 4.24
2130 3254 7.413548 GCAACATGATTGATTGATTGATTGCAA 60.414 33.333 0.00 0.00 37.92 4.08
2149 3274 6.624352 TGCAATGCAAAAGGATAGATAGAC 57.376 37.500 5.01 0.00 34.76 2.59
2150 3275 6.359804 TGCAATGCAAAAGGATAGATAGACT 58.640 36.000 5.01 0.00 34.76 3.24
2188 3313 2.947938 GATGGATGTGGCGTCCCCAG 62.948 65.000 5.08 0.00 46.54 4.45
2222 3347 1.002011 GGAAGGGGACAAGTGAGGC 60.002 63.158 0.00 0.00 0.00 4.70
2375 3500 2.829384 GGGACCTGGTGCTGTGGAA 61.829 63.158 18.16 0.00 0.00 3.53
2389 3514 2.281139 GGAAGATAGGCCGGCAGC 60.281 66.667 30.85 12.05 42.60 5.25
2456 3581 4.931601 TGATTGACAATGCTCACTACTCAC 59.068 41.667 5.14 0.00 0.00 3.51
2581 3707 2.043953 GGAGGCCCACAATCCCAC 60.044 66.667 0.00 0.00 0.00 4.61
2583 3709 2.535317 AGGCCCACAATCCCACCT 60.535 61.111 0.00 0.00 0.00 4.00
2594 3724 6.183360 CCCACAATCCCACCTTAAAAATATCC 60.183 42.308 0.00 0.00 0.00 2.59
2595 3725 6.183360 CCACAATCCCACCTTAAAAATATCCC 60.183 42.308 0.00 0.00 0.00 3.85
2610 3740 8.893563 AAAAATATCCCCATTTCAAGTCACTA 57.106 30.769 0.00 0.00 0.00 2.74
2612 3742 3.350219 TCCCCATTTCAAGTCACTAGC 57.650 47.619 0.00 0.00 0.00 3.42
2621 3751 2.232452 TCAAGTCACTAGCTGAAGCCTC 59.768 50.000 0.00 0.00 43.38 4.70
2628 3758 0.612174 TAGCTGAAGCCTCCTGACGT 60.612 55.000 0.00 0.00 43.38 4.34
2635 3765 2.660064 GCCTCCTGACGTCACCCAT 61.660 63.158 15.76 0.00 0.00 4.00
2638 3768 2.436646 CCTGACGTCACCCATGCC 60.437 66.667 15.76 0.00 0.00 4.40
2648 3778 4.132441 CCCATGCCGCGCAACATT 62.132 61.111 8.75 0.00 43.62 2.71
2672 3803 3.429881 CCGATACAATGTCATCATCGTGG 59.570 47.826 13.15 0.00 37.41 4.94
2688 3819 4.732106 GGACCGATCCGCTAACTG 57.268 61.111 0.00 0.00 34.48 3.16
2694 3825 0.924090 CGATCCGCTAACTGTGAAGC 59.076 55.000 5.55 5.55 35.33 3.86
2699 3830 1.687494 CGCTAACTGTGAAGCTCCGC 61.687 60.000 12.01 0.00 36.56 5.54
2709 3840 3.628646 AAGCTCCGCCACCACATCC 62.629 63.158 0.00 0.00 0.00 3.51
2733 3864 3.119316 AGTTGCGACACTAGATGAGGAAG 60.119 47.826 6.90 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 64 7.678171 ACCCATCATTTTCACTAATTAAACCCT 59.322 33.333 0.00 0.00 0.00 4.34
62 67 8.527810 TGGACCCATCATTTTCACTAATTAAAC 58.472 33.333 0.00 0.00 0.00 2.01
95 100 1.279271 GCCAGTACCACTCCATCTGTT 59.721 52.381 0.00 0.00 0.00 3.16
169 174 2.068519 CACATGCGTCTGTGTACACAT 58.931 47.619 28.03 10.37 41.29 3.21
193 198 2.504175 AGGGTGCTGGATAAATGTACGT 59.496 45.455 0.00 0.00 0.00 3.57
194 199 3.131396 GAGGGTGCTGGATAAATGTACG 58.869 50.000 0.00 0.00 0.00 3.67
195 200 3.131396 CGAGGGTGCTGGATAAATGTAC 58.869 50.000 0.00 0.00 0.00 2.90
196 201 2.769663 ACGAGGGTGCTGGATAAATGTA 59.230 45.455 0.00 0.00 0.00 2.29
197 202 1.559682 ACGAGGGTGCTGGATAAATGT 59.440 47.619 0.00 0.00 0.00 2.71
198 203 1.942657 CACGAGGGTGCTGGATAAATG 59.057 52.381 0.00 0.00 37.35 2.32
265 278 4.997545 ACGGAGGGAGTAGTATACATCT 57.002 45.455 5.50 2.66 46.26 2.90
267 280 4.141088 TGGAACGGAGGGAGTAGTATACAT 60.141 45.833 5.50 0.00 46.26 2.29
268 281 3.202818 TGGAACGGAGGGAGTAGTATACA 59.797 47.826 5.50 0.00 46.26 2.29
272 285 2.905415 TTGGAACGGAGGGAGTAGTA 57.095 50.000 0.00 0.00 0.00 1.82
273 286 2.019807 TTTGGAACGGAGGGAGTAGT 57.980 50.000 0.00 0.00 0.00 2.73
274 287 3.629142 ATTTTGGAACGGAGGGAGTAG 57.371 47.619 0.00 0.00 0.00 2.57
275 288 3.585732 AGAATTTTGGAACGGAGGGAGTA 59.414 43.478 0.00 0.00 0.00 2.59
276 289 2.375509 AGAATTTTGGAACGGAGGGAGT 59.624 45.455 0.00 0.00 0.00 3.85
277 290 3.073274 AGAATTTTGGAACGGAGGGAG 57.927 47.619 0.00 0.00 0.00 4.30
278 291 3.153919 CAAGAATTTTGGAACGGAGGGA 58.846 45.455 0.00 0.00 0.00 4.20
280 293 3.821033 AGACAAGAATTTTGGAACGGAGG 59.179 43.478 0.00 0.00 0.00 4.30
281 294 5.438761 AAGACAAGAATTTTGGAACGGAG 57.561 39.130 0.00 0.00 0.00 4.63
282 295 6.945938 TTAAGACAAGAATTTTGGAACGGA 57.054 33.333 0.00 0.00 0.00 4.69
283 296 8.587952 AATTTAAGACAAGAATTTTGGAACGG 57.412 30.769 0.00 0.00 0.00 4.44
296 309 8.717821 TCCGTATCTTGACAAATTTAAGACAAG 58.282 33.333 11.73 11.73 38.34 3.16
297 310 8.610248 TCCGTATCTTGACAAATTTAAGACAA 57.390 30.769 4.41 0.15 33.69 3.18
298 311 8.664798 CATCCGTATCTTGACAAATTTAAGACA 58.335 33.333 4.41 0.00 33.69 3.41
299 312 8.665685 ACATCCGTATCTTGACAAATTTAAGAC 58.334 33.333 4.41 0.00 33.69 3.01
339 462 9.631257 TTCAAATATGGATGTATCAAGTCACAT 57.369 29.630 0.00 0.00 38.08 3.21
363 486 9.097257 TCCAAAATTCTTGTCTTTGATTTGTTC 57.903 29.630 0.00 0.00 32.87 3.18
364 487 9.447157 TTCCAAAATTCTTGTCTTTGATTTGTT 57.553 25.926 0.00 0.00 32.87 2.83
366 489 8.057742 CGTTCCAAAATTCTTGTCTTTGATTTG 58.942 33.333 0.00 0.00 32.87 2.32
367 490 7.978975 TCGTTCCAAAATTCTTGTCTTTGATTT 59.021 29.630 0.00 0.00 32.87 2.17
368 491 7.435192 GTCGTTCCAAAATTCTTGTCTTTGATT 59.565 33.333 0.00 0.00 32.87 2.57
369 492 6.918022 GTCGTTCCAAAATTCTTGTCTTTGAT 59.082 34.615 0.00 0.00 32.87 2.57
371 494 5.171337 CGTCGTTCCAAAATTCTTGTCTTTG 59.829 40.000 0.00 0.00 0.00 2.77
372 495 5.270853 CGTCGTTCCAAAATTCTTGTCTTT 58.729 37.500 0.00 0.00 0.00 2.52
373 496 4.261031 CCGTCGTTCCAAAATTCTTGTCTT 60.261 41.667 0.00 0.00 0.00 3.01
374 497 3.250040 CCGTCGTTCCAAAATTCTTGTCT 59.750 43.478 0.00 0.00 0.00 3.41
375 498 3.551551 CCGTCGTTCCAAAATTCTTGTC 58.448 45.455 0.00 0.00 0.00 3.18
376 499 2.292292 CCCGTCGTTCCAAAATTCTTGT 59.708 45.455 0.00 0.00 0.00 3.16
377 500 2.550606 TCCCGTCGTTCCAAAATTCTTG 59.449 45.455 0.00 0.00 0.00 3.02
378 501 2.853705 TCCCGTCGTTCCAAAATTCTT 58.146 42.857 0.00 0.00 0.00 2.52
379 502 2.554370 TCCCGTCGTTCCAAAATTCT 57.446 45.000 0.00 0.00 0.00 2.40
380 503 3.842732 ATTCCCGTCGTTCCAAAATTC 57.157 42.857 0.00 0.00 0.00 2.17
381 504 6.600427 ACTTATATTCCCGTCGTTCCAAAATT 59.400 34.615 0.00 0.00 0.00 1.82
382 505 6.117488 ACTTATATTCCCGTCGTTCCAAAAT 58.883 36.000 0.00 0.00 0.00 1.82
383 506 5.490159 ACTTATATTCCCGTCGTTCCAAAA 58.510 37.500 0.00 0.00 0.00 2.44
384 507 5.088680 ACTTATATTCCCGTCGTTCCAAA 57.911 39.130 0.00 0.00 0.00 3.28
385 508 4.403432 AGACTTATATTCCCGTCGTTCCAA 59.597 41.667 0.00 0.00 0.00 3.53
386 509 3.956199 AGACTTATATTCCCGTCGTTCCA 59.044 43.478 0.00 0.00 0.00 3.53
387 510 4.581077 AGACTTATATTCCCGTCGTTCC 57.419 45.455 0.00 0.00 0.00 3.62
388 511 5.809051 ACAAAGACTTATATTCCCGTCGTTC 59.191 40.000 0.00 0.00 0.00 3.95
389 512 5.727434 ACAAAGACTTATATTCCCGTCGTT 58.273 37.500 0.00 0.00 0.00 3.85
390 513 5.334724 ACAAAGACTTATATTCCCGTCGT 57.665 39.130 0.00 0.00 0.00 4.34
391 514 6.732154 TCTACAAAGACTTATATTCCCGTCG 58.268 40.000 0.00 0.00 0.00 5.12
392 515 6.641723 GCTCTACAAAGACTTATATTCCCGTC 59.358 42.308 0.00 0.00 0.00 4.79
393 516 6.324254 AGCTCTACAAAGACTTATATTCCCGT 59.676 38.462 0.00 0.00 0.00 5.28
394 517 6.750148 AGCTCTACAAAGACTTATATTCCCG 58.250 40.000 0.00 0.00 0.00 5.14
395 518 7.658167 GGAAGCTCTACAAAGACTTATATTCCC 59.342 40.741 0.00 0.00 0.00 3.97
396 519 8.204836 TGGAAGCTCTACAAAGACTTATATTCC 58.795 37.037 0.00 0.00 0.00 3.01
397 520 9.036671 GTGGAAGCTCTACAAAGACTTATATTC 57.963 37.037 0.00 0.00 0.00 1.75
407 530 5.582665 GGTTCATAGTGGAAGCTCTACAAAG 59.417 44.000 0.00 0.00 40.99 2.77
417 540 4.119862 CCGTATGTGGTTCATAGTGGAAG 58.880 47.826 0.00 0.00 39.36 3.46
420 543 3.812156 TCCGTATGTGGTTCATAGTGG 57.188 47.619 0.00 0.00 39.36 4.00
423 546 9.952188 CTATATACATCCGTATGTGGTTCATAG 57.048 37.037 3.56 0.80 45.99 2.23
428 551 7.093509 TGCATCTATATACATCCGTATGTGGTT 60.094 37.037 3.56 0.00 45.99 3.67
431 554 7.484140 AGTGCATCTATATACATCCGTATGTG 58.516 38.462 3.56 0.00 45.99 3.21
460 583 7.094634 ACGAAGCAAAATGAATGAATCTACACT 60.095 33.333 0.00 0.00 0.00 3.55
461 584 7.023575 ACGAAGCAAAATGAATGAATCTACAC 58.976 34.615 0.00 0.00 0.00 2.90
463 586 9.162793 CATACGAAGCAAAATGAATGAATCTAC 57.837 33.333 0.00 0.00 0.00 2.59
464 587 8.892723 ACATACGAAGCAAAATGAATGAATCTA 58.107 29.630 0.00 0.00 0.00 1.98
466 589 7.975866 ACATACGAAGCAAAATGAATGAATC 57.024 32.000 0.00 0.00 0.00 2.52
469 592 6.458206 GGCTACATACGAAGCAAAATGAATGA 60.458 38.462 0.00 0.00 40.61 2.57
473 596 3.625764 GGGCTACATACGAAGCAAAATGA 59.374 43.478 0.00 0.00 40.61 2.57
474 597 3.546020 CGGGCTACATACGAAGCAAAATG 60.546 47.826 0.00 0.00 40.61 2.32
476 599 2.004017 CGGGCTACATACGAAGCAAAA 58.996 47.619 0.00 0.00 40.61 2.44
477 600 1.647346 CGGGCTACATACGAAGCAAA 58.353 50.000 0.00 0.00 40.61 3.68
479 602 1.227147 GCGGGCTACATACGAAGCA 60.227 57.895 0.00 0.00 40.61 3.91
480 603 1.954651 GGCGGGCTACATACGAAGC 60.955 63.158 0.00 0.00 38.03 3.86
481 604 0.956633 TAGGCGGGCTACATACGAAG 59.043 55.000 7.26 0.00 0.00 3.79
483 606 1.521450 GCTAGGCGGGCTACATACGA 61.521 60.000 7.26 0.00 0.00 3.43
491 614 0.976073 TTTCACTAGCTAGGCGGGCT 60.976 55.000 24.35 9.68 43.02 5.19
493 616 1.689273 AGATTTCACTAGCTAGGCGGG 59.311 52.381 24.35 10.97 0.00 6.13
496 619 5.776173 TGTAGAGATTTCACTAGCTAGGC 57.224 43.478 24.35 6.77 0.00 3.93
497 620 7.918562 GTCTTTGTAGAGATTTCACTAGCTAGG 59.081 40.741 24.35 13.33 0.00 3.02
498 621 8.682710 AGTCTTTGTAGAGATTTCACTAGCTAG 58.317 37.037 19.44 19.44 0.00 3.42
499 622 8.582657 AGTCTTTGTAGAGATTTCACTAGCTA 57.417 34.615 0.00 0.00 0.00 3.32
500 623 7.475137 AGTCTTTGTAGAGATTTCACTAGCT 57.525 36.000 0.00 0.00 0.00 3.32
501 624 9.810545 ATAAGTCTTTGTAGAGATTTCACTAGC 57.189 33.333 0.00 0.00 29.76 3.42
532 655 4.548669 GGAATAGTACTCCCTCTGTTCCT 58.451 47.826 0.00 0.00 43.62 3.36
538 661 5.548836 AGAGATACGGAATAGTACTCCCTCT 59.451 44.000 0.00 0.00 31.40 3.69
548 671 5.403246 CGGGAATGAAGAGATACGGAATAG 58.597 45.833 0.00 0.00 0.00 1.73
549 672 4.321750 GCGGGAATGAAGAGATACGGAATA 60.322 45.833 0.00 0.00 0.00 1.75
551 674 2.223971 GCGGGAATGAAGAGATACGGAA 60.224 50.000 0.00 0.00 0.00 4.30
552 675 1.340248 GCGGGAATGAAGAGATACGGA 59.660 52.381 0.00 0.00 0.00 4.69
553 676 1.784525 GCGGGAATGAAGAGATACGG 58.215 55.000 0.00 0.00 0.00 4.02
554 677 1.269102 ACGCGGGAATGAAGAGATACG 60.269 52.381 12.47 0.00 0.00 3.06
555 678 2.510768 ACGCGGGAATGAAGAGATAC 57.489 50.000 12.47 0.00 0.00 2.24
556 679 2.483013 CCAACGCGGGAATGAAGAGATA 60.483 50.000 12.47 0.00 0.00 1.98
557 680 1.656652 CAACGCGGGAATGAAGAGAT 58.343 50.000 12.47 0.00 0.00 2.75
558 681 0.391130 CCAACGCGGGAATGAAGAGA 60.391 55.000 12.47 0.00 0.00 3.10
559 682 0.673644 ACCAACGCGGGAATGAAGAG 60.674 55.000 12.47 0.00 40.22 2.85
560 683 0.250553 AACCAACGCGGGAATGAAGA 60.251 50.000 12.47 0.00 40.22 2.87
561 684 0.109781 CAACCAACGCGGGAATGAAG 60.110 55.000 12.47 0.00 40.22 3.02
562 685 0.535328 TCAACCAACGCGGGAATGAA 60.535 50.000 12.47 0.00 40.22 2.57
563 686 0.322098 ATCAACCAACGCGGGAATGA 60.322 50.000 12.47 13.13 40.22 2.57
564 687 0.179166 CATCAACCAACGCGGGAATG 60.179 55.000 12.47 8.19 40.22 2.67
565 688 0.322098 TCATCAACCAACGCGGGAAT 60.322 50.000 12.47 0.00 40.22 3.01
566 689 0.322098 ATCATCAACCAACGCGGGAA 60.322 50.000 12.47 0.00 40.22 3.97
567 690 0.322098 AATCATCAACCAACGCGGGA 60.322 50.000 12.47 0.00 40.22 5.14
568 691 1.374560 TAATCATCAACCAACGCGGG 58.625 50.000 12.47 5.24 40.22 6.13
569 692 2.418628 AGTTAATCATCAACCAACGCGG 59.581 45.455 12.47 0.00 42.50 6.46
570 693 3.740044 AGTTAATCATCAACCAACGCG 57.260 42.857 3.53 3.53 0.00 6.01
593 716 9.807649 CAAAGCCATAAAGCAACTAATCTATTT 57.192 29.630 0.00 0.00 34.23 1.40
594 717 8.971073 ACAAAGCCATAAAGCAACTAATCTATT 58.029 29.630 0.00 0.00 34.23 1.73
595 718 8.525290 ACAAAGCCATAAAGCAACTAATCTAT 57.475 30.769 0.00 0.00 34.23 1.98
596 719 7.938140 ACAAAGCCATAAAGCAACTAATCTA 57.062 32.000 0.00 0.00 34.23 1.98
597 720 6.840780 ACAAAGCCATAAAGCAACTAATCT 57.159 33.333 0.00 0.00 34.23 2.40
598 721 7.090173 TCAACAAAGCCATAAAGCAACTAATC 58.910 34.615 0.00 0.00 34.23 1.75
599 722 6.991938 TCAACAAAGCCATAAAGCAACTAAT 58.008 32.000 0.00 0.00 34.23 1.73
600 723 6.398234 TCAACAAAGCCATAAAGCAACTAA 57.602 33.333 0.00 0.00 34.23 2.24
601 724 6.588719 ATCAACAAAGCCATAAAGCAACTA 57.411 33.333 0.00 0.00 34.23 2.24
602 725 4.935352 TCAACAAAGCCATAAAGCAACT 57.065 36.364 0.00 0.00 34.23 3.16
603 726 6.365050 CAAATCAACAAAGCCATAAAGCAAC 58.635 36.000 0.00 0.00 34.23 4.17
604 727 5.049543 GCAAATCAACAAAGCCATAAAGCAA 60.050 36.000 0.00 0.00 34.23 3.91
605 728 4.451774 GCAAATCAACAAAGCCATAAAGCA 59.548 37.500 0.00 0.00 34.23 3.91
606 729 4.451774 TGCAAATCAACAAAGCCATAAAGC 59.548 37.500 0.00 0.00 0.00 3.51
607 730 6.203338 ACTTGCAAATCAACAAAGCCATAAAG 59.797 34.615 0.00 0.00 0.00 1.85
608 731 6.054295 ACTTGCAAATCAACAAAGCCATAAA 58.946 32.000 0.00 0.00 0.00 1.40
609 732 5.609423 ACTTGCAAATCAACAAAGCCATAA 58.391 33.333 0.00 0.00 0.00 1.90
610 733 5.212532 ACTTGCAAATCAACAAAGCCATA 57.787 34.783 0.00 0.00 0.00 2.74
622 745 7.012327 TGCTATACATGTTCCTACTTGCAAATC 59.988 37.037 2.30 0.00 33.85 2.17
625 748 5.584649 GTGCTATACATGTTCCTACTTGCAA 59.415 40.000 2.30 0.00 33.85 4.08
698 823 1.107114 GATCTCCTCTCGTGGCTTGA 58.893 55.000 0.00 0.00 0.00 3.02
699 824 0.248825 CGATCTCCTCTCGTGGCTTG 60.249 60.000 0.00 0.00 0.00 4.01
732 857 3.253432 GGGTATTAGCTATTGTTGGCTGC 59.747 47.826 0.00 0.00 40.32 5.25
849 982 0.041833 TGGTCTTCCTCCTCCTCCTG 59.958 60.000 0.00 0.00 34.23 3.86
860 996 0.534203 TGCGTTGGTCTTGGTCTTCC 60.534 55.000 0.00 0.00 0.00 3.46
927 1068 1.004891 GGAATGGGGGAGGAGAGGT 59.995 63.158 0.00 0.00 0.00 3.85
928 1069 2.143419 CGGAATGGGGGAGGAGAGG 61.143 68.421 0.00 0.00 0.00 3.69
930 1071 2.040884 CCGGAATGGGGGAGGAGA 60.041 66.667 0.00 0.00 0.00 3.71
931 1072 3.878667 GCCGGAATGGGGGAGGAG 61.879 72.222 5.05 0.00 38.63 3.69
960 1914 2.656085 GATCGACGGTGCTAGAGAATG 58.344 52.381 0.00 0.00 0.00 2.67
969 1923 4.170062 TCGGTCGATCGACGGTGC 62.170 66.667 38.20 25.90 45.41 5.01
1773 2876 1.136110 CTTGGGTTGGTGGTTTGTGAC 59.864 52.381 0.00 0.00 0.00 3.67
1774 2877 1.006043 TCTTGGGTTGGTGGTTTGTGA 59.994 47.619 0.00 0.00 0.00 3.58
1778 2881 4.193240 ACTAATCTTGGGTTGGTGGTTT 57.807 40.909 0.00 0.00 0.00 3.27
1846 2955 7.822161 TGATGAATATCTATGTTTGGTTGGG 57.178 36.000 0.00 0.00 34.31 4.12
1940 3058 1.004292 GCATACGTTCAACCATACGGC 60.004 52.381 0.00 0.00 41.81 5.68
1954 3075 8.998989 CACAAGAACATAAAGTATTTGCATACG 58.001 33.333 0.00 0.00 39.63 3.06
2101 3225 5.106442 TCAATCAATCAATCATGTTGCTGC 58.894 37.500 0.00 0.00 0.00 5.25
2130 3254 7.971201 TCATCAGTCTATCTATCCTTTTGCAT 58.029 34.615 0.00 0.00 0.00 3.96
2138 3262 6.069673 TCCTCCTCTCATCAGTCTATCTATCC 60.070 46.154 0.00 0.00 0.00 2.59
2149 3274 5.483811 CATCATCAATCCTCCTCTCATCAG 58.516 45.833 0.00 0.00 0.00 2.90
2150 3275 4.286291 CCATCATCAATCCTCCTCTCATCA 59.714 45.833 0.00 0.00 0.00 3.07
2188 3313 1.202348 CTTCCCAACTTTTCCGATGGC 59.798 52.381 0.00 0.00 0.00 4.40
2222 3347 4.194640 GGACATGGATATGAATGGATCGG 58.805 47.826 0.00 0.00 37.73 4.18
2375 3500 2.190578 GTTGCTGCCGGCCTATCT 59.809 61.111 26.77 0.00 40.92 1.98
2389 3514 3.056393 TGTGGATAGTACTCGGTTGGTTG 60.056 47.826 0.00 0.00 0.00 3.77
2398 3523 4.890088 TGTGTTGGTTGTGGATAGTACTC 58.110 43.478 0.00 0.00 0.00 2.59
2456 3581 2.076863 GAAGAATTGGTGAGGGTGACG 58.923 52.381 0.00 0.00 0.00 4.35
2580 3706 8.679344 ACTTGAAATGGGGATATTTTTAAGGT 57.321 30.769 6.40 0.00 33.53 3.50
2581 3707 8.757877 TGACTTGAAATGGGGATATTTTTAAGG 58.242 33.333 6.40 0.00 33.53 2.69
2583 3709 9.320295 AGTGACTTGAAATGGGGATATTTTTAA 57.680 29.630 0.00 0.00 30.78 1.52
2594 3724 3.942829 TCAGCTAGTGACTTGAAATGGG 58.057 45.455 0.00 0.00 0.00 4.00
2595 3725 4.142730 GCTTCAGCTAGTGACTTGAAATGG 60.143 45.833 0.00 0.00 33.71 3.16
2610 3740 1.882989 GACGTCAGGAGGCTTCAGCT 61.883 60.000 11.55 0.00 41.70 4.24
2612 3742 0.389166 GTGACGTCAGGAGGCTTCAG 60.389 60.000 20.73 0.00 0.00 3.02
2621 3751 2.436646 GGCATGGGTGACGTCAGG 60.437 66.667 20.73 7.57 0.00 3.86
2646 3776 4.152938 CGATGATGACATTGTATCGGCAAT 59.847 41.667 16.50 0.00 39.42 3.56
2647 3777 3.494251 CGATGATGACATTGTATCGGCAA 59.506 43.478 16.50 0.00 37.55 4.52
2648 3778 3.059166 CGATGATGACATTGTATCGGCA 58.941 45.455 16.50 0.00 37.55 5.69
2672 3803 0.454600 TCACAGTTAGCGGATCGGTC 59.545 55.000 1.93 0.00 38.83 4.79
2694 3825 3.723235 CTCGGATGTGGTGGCGGAG 62.723 68.421 0.00 0.00 0.00 4.63
2699 3830 2.390599 CGCAACTCGGATGTGGTGG 61.391 63.158 0.00 0.00 33.78 4.61
2709 3840 2.445316 CTCATCTAGTGTCGCAACTCG 58.555 52.381 0.00 0.00 40.15 4.18


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

AutoCloner maintained by Alex Coulton.