Multiple sequence alignment - TraesCS2D01G283000

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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 TraesCS2D01G283000 chr2D 100.000 5445 0 0 1 5445 355978375 355983819 0.000000e+00 10056.0
1 TraesCS2D01G283000 chr2D 96.512 86 2 1 5254 5338 342055943 342055858 2.040000e-29 141.0
2 TraesCS2D01G283000 chr2A 96.919 3181 50 12 585 3757 476218618 476221758 0.000000e+00 5288.0
3 TraesCS2D01G283000 chr2A 92.409 909 38 14 4564 5445 476222497 476223401 0.000000e+00 1267.0
4 TraesCS2D01G283000 chr2A 97.616 713 15 2 3870 4580 476221771 476222483 0.000000e+00 1221.0
5 TraesCS2D01G283000 chr2A 83.193 357 26 13 1 327 476218092 476218444 4.120000e-76 296.0
6 TraesCS2D01G283000 chr2A 96.471 85 2 1 5255 5338 477279933 477280017 7.350000e-29 139.0
7 TraesCS2D01G283000 chr2B 96.003 2852 84 12 2617 5445 423830152 423832996 0.000000e+00 4608.0
8 TraesCS2D01G283000 chr2B 90.556 1620 96 29 742 2327 423828005 423829601 0.000000e+00 2091.0
9 TraesCS2D01G283000 chr2B 98.851 87 1 0 2325 2411 423829637 423829723 7.300000e-34 156.0
10 TraesCS2D01G283000 chr2B 86.567 67 9 0 4 70 621814817 621814883 2.100000e-09 75.0
11 TraesCS2D01G283000 chr3D 96.564 291 9 1 5155 5445 419377104 419376815 1.060000e-131 481.0
12 TraesCS2D01G283000 chr3D 98.507 67 1 0 5154 5220 403331039 403330973 9.580000e-23 119.0
13 TraesCS2D01G283000 chr5D 95.506 89 3 1 5251 5338 8375848 8375936 2.040000e-29 141.0
14 TraesCS2D01G283000 chr3B 95.506 89 3 1 5251 5338 12001010 12001098 2.040000e-29 141.0
15 TraesCS2D01G283000 chr3B 82.727 110 16 3 12 120 85081496 85081603 1.610000e-15 95.3
16 TraesCS2D01G283000 chr3B 79.167 120 17 4 2 117 694788647 694788532 5.850000e-10 76.8
17 TraesCS2D01G283000 chr5B 95.349 86 3 1 5254 5338 606531373 606531288 9.510000e-28 135.0
18 TraesCS2D01G283000 chr5B 88.889 54 6 0 12 65 469996018 469996071 3.520000e-07 67.6
19 TraesCS2D01G283000 chr5B 83.824 68 11 0 2 69 13095466 13095399 1.270000e-06 65.8
20 TraesCS2D01G283000 chr3A 94.382 89 4 1 5251 5338 328622838 328622926 9.510000e-28 135.0
21 TraesCS2D01G283000 chr3A 89.474 57 6 0 2 58 465825106 465825162 7.570000e-09 73.1
22 TraesCS2D01G283000 chr7D 90.909 55 5 0 4 58 540611764 540611710 2.100000e-09 75.0
23 TraesCS2D01G283000 chr6B 78.182 110 21 3 12 120 508995426 508995533 3.520000e-07 67.6


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 TraesCS2D01G283000 chr2D 355978375 355983819 5444 False 10056 10056 100.000000 1 5445 1 chr2D.!!$F1 5444
1 TraesCS2D01G283000 chr2A 476218092 476223401 5309 False 2018 5288 92.534250 1 5445 4 chr2A.!!$F2 5444
2 TraesCS2D01G283000 chr2B 423828005 423832996 4991 False 2285 4608 95.136667 742 5445 3 chr2B.!!$F2 4703

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
435 465 0.035317 ATCAACCTCGTGCTTGCTCA 59.965 50.000 0.00 0.0 0.00 4.26 F
444 474 0.036022 GTGCTTGCTCAACTCTCCCT 59.964 55.000 0.00 0.0 0.00 4.20 F
942 1017 0.037232 GACCTTCACCTTGACCTCGG 60.037 60.000 0.00 0.0 0.00 4.63 F
943 1018 1.296715 CCTTCACCTTGACCTCGGG 59.703 63.158 0.00 0.0 0.00 5.14 F
944 1019 1.376037 CTTCACCTTGACCTCGGGC 60.376 63.158 0.00 0.0 0.00 6.13 F
1444 1535 1.531149 TGTGCGCTGCTTCTTTCTTAC 59.469 47.619 9.73 0.0 0.00 2.34 F
1446 1537 1.800586 TGCGCTGCTTCTTTCTTACAG 59.199 47.619 9.73 0.0 0.00 2.74 F
3685 4084 2.094338 GGTACCAACACTAGGTTCTCCG 60.094 54.545 7.15 0.0 40.54 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1581 1695 0.321653 GGTCTACAGCCCACCTTGTG 60.322 60.000 0.00 0.0 0.00 3.33 R
1652 1783 1.204146 TCCAGCCAGTAACCCTCATC 58.796 55.000 0.00 0.0 0.00 2.92 R
2936 3335 1.907807 GGCAACAAGTGATGGCCCA 60.908 57.895 0.00 0.0 38.70 5.36 R
3119 3518 7.475015 TGAAAAGAAACACTGTGAGAGAAATG 58.525 34.615 15.86 0.0 0.00 2.32 R
3685 4084 2.429610 AGTGGATGCCAGATCAAAATGC 59.570 45.455 0.00 0.0 32.34 3.56 R
3837 4236 4.314740 TTTGACAAACAAGTACCATGGC 57.685 40.909 13.04 0.0 39.77 4.40 R
4224 4623 3.437795 GATGGCGCTGTGCTTGCT 61.438 61.111 13.46 0.0 45.43 3.91 R
4584 5017 0.183014 TGGGAACGGGTTGCTTACAA 59.817 50.000 3.11 0.0 0.00 2.41 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 4.570663 CGAGATCCACCGCGTCCC 62.571 72.222 4.92 0.00 0.00 4.46
44 46 2.006991 GTCCCCATGGCCCTAAGGT 61.007 63.158 6.09 0.00 34.57 3.50
57 59 1.746220 CCTAAGGTCACCAGAGACGAG 59.254 57.143 0.00 0.00 39.42 4.18
58 60 1.133407 CTAAGGTCACCAGAGACGAGC 59.867 57.143 0.00 0.00 39.42 5.03
60 62 2.179517 GTCACCAGAGACGAGCCG 59.820 66.667 0.00 0.00 0.00 5.52
62 64 3.062466 CACCAGAGACGAGCCGGA 61.062 66.667 5.05 0.00 0.00 5.14
147 150 3.189702 GTGTGTTGTTGGGCGTATACATT 59.810 43.478 3.32 0.00 0.00 2.71
148 151 3.821600 TGTGTTGTTGGGCGTATACATTT 59.178 39.130 3.32 0.00 0.00 2.32
150 153 4.619336 GTGTTGTTGGGCGTATACATTTTG 59.381 41.667 3.32 0.00 0.00 2.44
153 156 5.455056 TGTTGGGCGTATACATTTTGTTT 57.545 34.783 3.32 0.00 0.00 2.83
160 163 6.400621 GGGCGTATACATTTTGTTTTGCTTTC 60.401 38.462 3.32 0.00 0.00 2.62
190 193 5.643664 GTGATGAAACTATGCAAGCAATGA 58.356 37.500 0.00 0.00 0.00 2.57
214 217 5.789643 AACATTTGTCCATGTTTGCTAGT 57.210 34.783 0.00 0.00 43.54 2.57
215 218 5.789643 ACATTTGTCCATGTTTGCTAGTT 57.210 34.783 0.00 0.00 33.29 2.24
255 285 1.418334 GGAGAGATCCTAGCAAGCCA 58.582 55.000 0.00 0.00 0.00 4.75
323 353 1.480954 GTCACGTGTGTAGGATGGGAT 59.519 52.381 16.51 0.00 0.00 3.85
324 354 1.480545 TCACGTGTGTAGGATGGGATG 59.519 52.381 16.51 0.00 0.00 3.51
325 355 0.830648 ACGTGTGTAGGATGGGATGG 59.169 55.000 0.00 0.00 0.00 3.51
326 356 0.830648 CGTGTGTAGGATGGGATGGT 59.169 55.000 0.00 0.00 0.00 3.55
327 357 2.036387 CGTGTGTAGGATGGGATGGTA 58.964 52.381 0.00 0.00 0.00 3.25
328 358 2.223971 CGTGTGTAGGATGGGATGGTAC 60.224 54.545 0.00 0.00 0.00 3.34
329 359 2.104281 GTGTGTAGGATGGGATGGTACC 59.896 54.545 4.43 4.43 0.00 3.34
330 360 1.343465 GTGTAGGATGGGATGGTACCG 59.657 57.143 7.57 0.00 0.00 4.02
331 361 1.062734 TGTAGGATGGGATGGTACCGT 60.063 52.381 6.24 6.24 0.00 4.83
332 362 1.617357 GTAGGATGGGATGGTACCGTC 59.383 57.143 23.83 23.83 42.15 4.79
333 363 1.113517 AGGATGGGATGGTACCGTCG 61.114 60.000 24.62 0.00 43.48 5.12
334 364 1.111116 GGATGGGATGGTACCGTCGA 61.111 60.000 24.62 15.63 43.48 4.20
335 365 0.748450 GATGGGATGGTACCGTCGAA 59.252 55.000 24.62 16.72 34.59 3.71
336 366 1.343465 GATGGGATGGTACCGTCGAAT 59.657 52.381 24.62 20.13 34.59 3.34
337 367 0.748450 TGGGATGGTACCGTCGAATC 59.252 55.000 24.62 13.23 33.03 2.52
338 368 0.318445 GGGATGGTACCGTCGAATCG 60.318 60.000 24.62 0.00 33.03 3.34
339 369 0.664761 GGATGGTACCGTCGAATCGA 59.335 55.000 24.62 0.00 33.03 3.59
340 370 1.268899 GGATGGTACCGTCGAATCGAT 59.731 52.381 24.62 1.71 38.42 3.59
341 371 2.288030 GGATGGTACCGTCGAATCGATT 60.288 50.000 24.62 11.20 38.42 3.34
342 372 2.197792 TGGTACCGTCGAATCGATTG 57.802 50.000 16.96 8.23 38.42 2.67
343 373 1.473677 TGGTACCGTCGAATCGATTGT 59.526 47.619 16.96 11.55 38.42 2.71
344 374 2.114825 GGTACCGTCGAATCGATTGTC 58.885 52.381 16.96 0.53 38.42 3.18
359 389 3.609853 GATTGTCTGGTGGCAGATTACA 58.390 45.455 0.00 0.00 33.34 2.41
360 390 3.500448 TTGTCTGGTGGCAGATTACAA 57.500 42.857 0.00 0.00 33.34 2.41
361 391 3.500448 TGTCTGGTGGCAGATTACAAA 57.500 42.857 0.00 0.00 33.34 2.83
362 392 3.826524 TGTCTGGTGGCAGATTACAAAA 58.173 40.909 0.00 0.00 33.34 2.44
363 393 4.406456 TGTCTGGTGGCAGATTACAAAAT 58.594 39.130 0.00 0.00 33.34 1.82
364 394 5.565509 TGTCTGGTGGCAGATTACAAAATA 58.434 37.500 0.00 0.00 33.34 1.40
372 402 8.655970 GGTGGCAGATTACAAAATAAAACATTC 58.344 33.333 0.00 0.00 0.00 2.67
392 422 2.998670 TCGGTCAACTAGTAGTGTCTCG 59.001 50.000 2.90 6.78 0.00 4.04
393 423 2.740981 CGGTCAACTAGTAGTGTCTCGT 59.259 50.000 2.90 0.00 0.00 4.18
394 424 3.188048 CGGTCAACTAGTAGTGTCTCGTT 59.812 47.826 2.90 0.00 0.00 3.85
395 425 4.389992 CGGTCAACTAGTAGTGTCTCGTTA 59.610 45.833 2.90 0.00 0.00 3.18
425 455 6.699575 AATCTGGGAATAAAATCAACCTCG 57.300 37.500 0.00 0.00 0.00 4.63
426 456 5.174037 TCTGGGAATAAAATCAACCTCGT 57.826 39.130 0.00 0.00 0.00 4.18
427 457 4.941263 TCTGGGAATAAAATCAACCTCGTG 59.059 41.667 0.00 0.00 0.00 4.35
428 458 3.442273 TGGGAATAAAATCAACCTCGTGC 59.558 43.478 0.00 0.00 0.00 5.34
429 459 3.694566 GGGAATAAAATCAACCTCGTGCT 59.305 43.478 0.00 0.00 0.00 4.40
431 461 5.095490 GGAATAAAATCAACCTCGTGCTTG 58.905 41.667 0.00 0.00 0.00 4.01
432 462 2.422276 AAAATCAACCTCGTGCTTGC 57.578 45.000 0.00 0.00 0.00 4.01
433 463 1.609208 AAATCAACCTCGTGCTTGCT 58.391 45.000 0.00 0.00 0.00 3.91
434 464 1.160137 AATCAACCTCGTGCTTGCTC 58.840 50.000 0.00 0.00 0.00 4.26
435 465 0.035317 ATCAACCTCGTGCTTGCTCA 59.965 50.000 0.00 0.00 0.00 4.26
436 466 0.179059 TCAACCTCGTGCTTGCTCAA 60.179 50.000 0.00 0.00 0.00 3.02
437 467 0.040958 CAACCTCGTGCTTGCTCAAC 60.041 55.000 0.00 0.00 0.00 3.18
438 468 0.179045 AACCTCGTGCTTGCTCAACT 60.179 50.000 0.00 0.00 0.00 3.16
439 469 0.601311 ACCTCGTGCTTGCTCAACTC 60.601 55.000 0.00 0.00 0.00 3.01
440 470 0.320247 CCTCGTGCTTGCTCAACTCT 60.320 55.000 0.00 0.00 0.00 3.24
441 471 1.066914 CTCGTGCTTGCTCAACTCTC 58.933 55.000 0.00 0.00 0.00 3.20
442 472 0.319900 TCGTGCTTGCTCAACTCTCC 60.320 55.000 0.00 0.00 0.00 3.71
443 473 1.294659 CGTGCTTGCTCAACTCTCCC 61.295 60.000 0.00 0.00 0.00 4.30
444 474 0.036022 GTGCTTGCTCAACTCTCCCT 59.964 55.000 0.00 0.00 0.00 4.20
445 475 0.322975 TGCTTGCTCAACTCTCCCTC 59.677 55.000 0.00 0.00 0.00 4.30
446 476 0.392327 GCTTGCTCAACTCTCCCTCC 60.392 60.000 0.00 0.00 0.00 4.30
447 477 0.979665 CTTGCTCAACTCTCCCTCCA 59.020 55.000 0.00 0.00 0.00 3.86
448 478 1.558756 CTTGCTCAACTCTCCCTCCAT 59.441 52.381 0.00 0.00 0.00 3.41
449 479 1.661463 TGCTCAACTCTCCCTCCATT 58.339 50.000 0.00 0.00 0.00 3.16
450 480 1.556911 TGCTCAACTCTCCCTCCATTC 59.443 52.381 0.00 0.00 0.00 2.67
451 481 1.836802 GCTCAACTCTCCCTCCATTCT 59.163 52.381 0.00 0.00 0.00 2.40
452 482 2.158971 GCTCAACTCTCCCTCCATTCTC 60.159 54.545 0.00 0.00 0.00 2.87
459 489 0.401979 TCCCTCCATTCTCCCCATCC 60.402 60.000 0.00 0.00 0.00 3.51
476 506 3.222855 CCGCGCTCTCTCCTCCAT 61.223 66.667 5.56 0.00 0.00 3.41
487 535 0.835276 CTCCTCCATGCTCATCACCA 59.165 55.000 0.00 0.00 0.00 4.17
493 541 1.133884 CCATGCTCATCACCAGACCAT 60.134 52.381 0.00 0.00 0.00 3.55
494 542 2.219458 CATGCTCATCACCAGACCATC 58.781 52.381 0.00 0.00 0.00 3.51
495 543 1.576577 TGCTCATCACCAGACCATCT 58.423 50.000 0.00 0.00 0.00 2.90
496 544 1.483827 TGCTCATCACCAGACCATCTC 59.516 52.381 0.00 0.00 0.00 2.75
497 545 1.483827 GCTCATCACCAGACCATCTCA 59.516 52.381 0.00 0.00 0.00 3.27
498 546 2.104451 GCTCATCACCAGACCATCTCAT 59.896 50.000 0.00 0.00 0.00 2.90
499 547 3.803021 GCTCATCACCAGACCATCTCATC 60.803 52.174 0.00 0.00 0.00 2.92
500 548 3.642377 CTCATCACCAGACCATCTCATCT 59.358 47.826 0.00 0.00 0.00 2.90
501 549 3.640498 TCATCACCAGACCATCTCATCTC 59.360 47.826 0.00 0.00 0.00 2.75
502 550 3.105959 TCACCAGACCATCTCATCTCA 57.894 47.619 0.00 0.00 0.00 3.27
503 551 3.650948 TCACCAGACCATCTCATCTCAT 58.349 45.455 0.00 0.00 0.00 2.90
504 552 3.387050 TCACCAGACCATCTCATCTCATG 59.613 47.826 0.00 0.00 0.00 3.07
505 553 3.387050 CACCAGACCATCTCATCTCATGA 59.613 47.826 0.00 0.00 37.76 3.07
506 554 4.035814 ACCAGACCATCTCATCTCATGAA 58.964 43.478 0.00 0.00 39.11 2.57
507 555 4.472470 ACCAGACCATCTCATCTCATGAAA 59.528 41.667 0.00 0.00 39.11 2.69
508 556 5.132312 ACCAGACCATCTCATCTCATGAAAT 59.868 40.000 0.00 0.00 39.11 2.17
509 557 6.328410 ACCAGACCATCTCATCTCATGAAATA 59.672 38.462 0.00 0.00 39.11 1.40
536 584 5.003160 CAGTCATCCTCACACAAATACCAA 58.997 41.667 0.00 0.00 0.00 3.67
552 600 7.122650 ACAAATACCAATTCATCATTTCGGTCT 59.877 33.333 0.00 0.00 0.00 3.85
553 601 6.867662 ATACCAATTCATCATTTCGGTCTC 57.132 37.500 0.00 0.00 0.00 3.36
554 602 4.848357 ACCAATTCATCATTTCGGTCTCT 58.152 39.130 0.00 0.00 0.00 3.10
555 603 5.256474 ACCAATTCATCATTTCGGTCTCTT 58.744 37.500 0.00 0.00 0.00 2.85
556 604 6.414732 ACCAATTCATCATTTCGGTCTCTTA 58.585 36.000 0.00 0.00 0.00 2.10
557 605 7.056635 ACCAATTCATCATTTCGGTCTCTTAT 58.943 34.615 0.00 0.00 0.00 1.73
558 606 8.210946 ACCAATTCATCATTTCGGTCTCTTATA 58.789 33.333 0.00 0.00 0.00 0.98
559 607 9.224267 CCAATTCATCATTTCGGTCTCTTATAT 57.776 33.333 0.00 0.00 0.00 0.86
561 609 9.442047 AATTCATCATTTCGGTCTCTTATATCC 57.558 33.333 0.00 0.00 0.00 2.59
562 610 7.782897 TCATCATTTCGGTCTCTTATATCCT 57.217 36.000 0.00 0.00 0.00 3.24
563 611 7.831753 TCATCATTTCGGTCTCTTATATCCTC 58.168 38.462 0.00 0.00 0.00 3.71
564 612 6.591750 TCATTTCGGTCTCTTATATCCTCC 57.408 41.667 0.00 0.00 0.00 4.30
565 613 5.480772 TCATTTCGGTCTCTTATATCCTCCC 59.519 44.000 0.00 0.00 0.00 4.30
566 614 4.464652 TTCGGTCTCTTATATCCTCCCA 57.535 45.455 0.00 0.00 0.00 4.37
567 615 4.464652 TCGGTCTCTTATATCCTCCCAA 57.535 45.455 0.00 0.00 0.00 4.12
568 616 4.150359 TCGGTCTCTTATATCCTCCCAAC 58.850 47.826 0.00 0.00 0.00 3.77
569 617 3.258622 CGGTCTCTTATATCCTCCCAACC 59.741 52.174 0.00 0.00 0.00 3.77
570 618 4.232091 GGTCTCTTATATCCTCCCAACCA 58.768 47.826 0.00 0.00 0.00 3.67
571 619 4.846940 GGTCTCTTATATCCTCCCAACCAT 59.153 45.833 0.00 0.00 0.00 3.55
572 620 5.046231 GGTCTCTTATATCCTCCCAACCATC 60.046 48.000 0.00 0.00 0.00 3.51
573 621 5.544176 GTCTCTTATATCCTCCCAACCATCA 59.456 44.000 0.00 0.00 0.00 3.07
574 622 6.043243 GTCTCTTATATCCTCCCAACCATCAA 59.957 42.308 0.00 0.00 0.00 2.57
575 623 6.794493 TCTCTTATATCCTCCCAACCATCAAT 59.206 38.462 0.00 0.00 0.00 2.57
576 624 7.295672 TCTCTTATATCCTCCCAACCATCAATT 59.704 37.037 0.00 0.00 0.00 2.32
577 625 7.461749 TCTTATATCCTCCCAACCATCAATTC 58.538 38.462 0.00 0.00 0.00 2.17
578 626 5.937492 ATATCCTCCCAACCATCAATTCT 57.063 39.130 0.00 0.00 0.00 2.40
579 627 3.652057 TCCTCCCAACCATCAATTCTC 57.348 47.619 0.00 0.00 0.00 2.87
580 628 3.192944 TCCTCCCAACCATCAATTCTCT 58.807 45.455 0.00 0.00 0.00 3.10
581 629 3.200825 TCCTCCCAACCATCAATTCTCTC 59.799 47.826 0.00 0.00 0.00 3.20
582 630 3.201708 CCTCCCAACCATCAATTCTCTCT 59.798 47.826 0.00 0.00 0.00 3.10
583 631 4.324874 CCTCCCAACCATCAATTCTCTCTT 60.325 45.833 0.00 0.00 0.00 2.85
623 671 5.475719 AGTAAATCCTTGTGTTCGATCGAA 58.524 37.500 25.96 25.96 0.00 3.71
634 682 0.240145 TCGATCGAACACTGCGTCTT 59.760 50.000 16.99 0.00 0.00 3.01
653 701 3.535629 TTGCCACTGCTGGGACTCG 62.536 63.158 0.00 0.00 37.69 4.18
676 724 5.507985 CGGATTGCTTTTCTCCTCAACTTTT 60.508 40.000 0.00 0.00 0.00 2.27
686 734 4.393062 TCTCCTCAACTTTTGCATTCGATC 59.607 41.667 0.00 0.00 0.00 3.69
712 760 2.373921 AGGTCTTCCCTTCCCGTTC 58.626 57.895 0.00 0.00 42.73 3.95
735 783 3.882288 GCCATCATTTCCTCTTCTTCCTC 59.118 47.826 0.00 0.00 0.00 3.71
736 784 4.125703 CCATCATTTCCTCTTCTTCCTCG 58.874 47.826 0.00 0.00 0.00 4.63
740 788 0.611062 TTCCTCTTCTTCCTCGGCGA 60.611 55.000 10.14 10.14 0.00 5.54
796 849 1.138661 CTGACCCCAGCAAAAGCAAAA 59.861 47.619 0.00 0.00 33.07 2.44
928 1003 4.301072 TCGAAATCCAATCCTTGACCTT 57.699 40.909 0.00 0.00 0.00 3.50
929 1004 4.261801 TCGAAATCCAATCCTTGACCTTC 58.738 43.478 0.00 0.00 0.00 3.46
930 1005 4.009675 CGAAATCCAATCCTTGACCTTCA 58.990 43.478 0.00 0.00 0.00 3.02
931 1006 4.142600 CGAAATCCAATCCTTGACCTTCAC 60.143 45.833 0.00 0.00 0.00 3.18
932 1007 2.879103 TCCAATCCTTGACCTTCACC 57.121 50.000 0.00 0.00 0.00 4.02
933 1008 2.348472 TCCAATCCTTGACCTTCACCT 58.652 47.619 0.00 0.00 0.00 4.00
934 1009 2.716424 TCCAATCCTTGACCTTCACCTT 59.284 45.455 0.00 0.00 0.00 3.50
935 1010 2.821969 CCAATCCTTGACCTTCACCTTG 59.178 50.000 0.00 0.00 0.00 3.61
936 1011 3.498481 CCAATCCTTGACCTTCACCTTGA 60.498 47.826 0.00 0.00 0.00 3.02
937 1012 2.930826 TCCTTGACCTTCACCTTGAC 57.069 50.000 0.00 0.00 0.00 3.18
938 1013 1.420138 TCCTTGACCTTCACCTTGACC 59.580 52.381 0.00 0.00 0.00 4.02
939 1014 1.421646 CCTTGACCTTCACCTTGACCT 59.578 52.381 0.00 0.00 0.00 3.85
940 1015 2.551071 CCTTGACCTTCACCTTGACCTC 60.551 54.545 0.00 0.00 0.00 3.85
941 1016 0.679505 TGACCTTCACCTTGACCTCG 59.320 55.000 0.00 0.00 0.00 4.63
942 1017 0.037232 GACCTTCACCTTGACCTCGG 60.037 60.000 0.00 0.00 0.00 4.63
943 1018 1.296715 CCTTCACCTTGACCTCGGG 59.703 63.158 0.00 0.00 0.00 5.14
944 1019 1.376037 CTTCACCTTGACCTCGGGC 60.376 63.158 0.00 0.00 0.00 6.13
945 1020 3.234630 TTCACCTTGACCTCGGGCG 62.235 63.158 0.00 0.00 0.00 6.13
946 1021 3.691342 CACCTTGACCTCGGGCGA 61.691 66.667 0.00 0.00 0.00 5.54
947 1022 3.692406 ACCTTGACCTCGGGCGAC 61.692 66.667 0.00 0.00 0.00 5.19
1352 1443 4.160329 TCCATGGTCAGTAAGTCAAGTCT 58.840 43.478 12.58 0.00 0.00 3.24
1385 1476 5.277047 CGCTGCTTCTTTCTTTCTTTCTTT 58.723 37.500 0.00 0.00 0.00 2.52
1444 1535 1.531149 TGTGCGCTGCTTCTTTCTTAC 59.469 47.619 9.73 0.00 0.00 2.34
1446 1537 1.800586 TGCGCTGCTTCTTTCTTACAG 59.199 47.619 9.73 0.00 0.00 2.74
1461 1575 9.102757 TCTTTCTTACAGTAGATTGATTGATGC 57.897 33.333 0.00 0.00 0.00 3.91
1581 1695 5.180868 TGCCAATTTGTTTATGGAATTGCAC 59.819 36.000 0.12 0.00 38.69 4.57
1652 1783 6.491062 TGAGGGGCACATGATCATTAAATAAG 59.509 38.462 5.16 0.00 0.00 1.73
1780 1915 4.870363 ACCAATCACACATGTTTAAGTGC 58.130 39.130 8.73 0.00 39.30 4.40
1782 1917 3.829886 ATCACACATGTTTAAGTGCGG 57.170 42.857 8.73 0.00 39.30 5.69
1983 2119 6.849811 CGTGAATTGATGCAACAGAGATTATC 59.150 38.462 0.00 0.00 0.00 1.75
2135 2271 9.807921 AACTTCCTATGTTTCTCCAAATTTCTA 57.192 29.630 0.00 0.00 0.00 2.10
2584 2785 4.524802 TTCATTGTTATCCAGATGGCCT 57.475 40.909 3.32 0.00 34.44 5.19
2855 3254 3.518590 CATTCTGAAAGGATTTGCTGGC 58.481 45.455 0.00 0.00 39.27 4.85
2936 3335 4.081420 ACTCTTATCTTCATGGTCGCAGTT 60.081 41.667 0.00 0.00 0.00 3.16
3119 3518 2.945668 GGAAGTGAGTGATAATGTGGCC 59.054 50.000 0.00 0.00 0.00 5.36
3157 3556 9.468532 AGTGTTTCTTTTCATCTTGCTTATTTC 57.531 29.630 0.00 0.00 0.00 2.17
3685 4084 2.094338 GGTACCAACACTAGGTTCTCCG 60.094 54.545 7.15 0.00 40.54 4.63
3757 4156 9.109393 TGCTATCATTTTTCAGTACCTGTATTC 57.891 33.333 0.00 0.00 32.61 1.75
4239 4638 3.663176 GAAGCAAGCACAGCGCCA 61.663 61.111 2.29 0.00 44.04 5.69
4528 4930 7.988737 TGAACATATGATTCATGAACCAAGAC 58.011 34.615 11.07 3.56 31.11 3.01
4745 5178 3.096489 TGCTGGAAACATGAAACTTGC 57.904 42.857 0.00 0.00 41.51 4.01
4753 5186 4.370364 AACATGAAACTTGCGAAACTGT 57.630 36.364 0.00 0.00 0.00 3.55
4770 5203 7.636326 CGAAACTGTCCGGCTATTTTTATTAT 58.364 34.615 0.00 0.00 0.00 1.28
4882 5327 3.084786 CCAGGGTCAGGAATTCAAACTC 58.915 50.000 7.93 1.98 0.00 3.01
4884 5329 2.716424 AGGGTCAGGAATTCAAACTCCA 59.284 45.455 7.93 0.00 33.83 3.86
4892 5337 7.169813 GTCAGGAATTCAAACTCCAAAAATGAC 59.830 37.037 7.93 0.00 33.83 3.06
5017 5462 4.275689 TGAACACATCAACTGCCTAACTTG 59.724 41.667 0.00 0.00 34.30 3.16
5018 5463 2.554032 ACACATCAACTGCCTAACTTGC 59.446 45.455 0.00 0.00 0.00 4.01
5037 5482 2.753296 GCAGCTACTTGCAGATCTAGG 58.247 52.381 0.00 0.00 45.94 3.02
5040 5485 2.102252 AGCTACTTGCAGATCTAGGCAC 59.898 50.000 7.21 0.00 45.94 5.01
5045 5490 3.070734 ACTTGCAGATCTAGGCACCTATG 59.929 47.826 7.21 0.00 40.23 2.23
5049 5518 4.221482 TGCAGATCTAGGCACCTATGTATG 59.779 45.833 3.70 0.00 34.58 2.39
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 4.222847 GGGGACGCGGTGGATCTC 62.223 72.222 12.47 0.00 0.00 2.75
30 31 1.227383 GGTGACCTTAGGGCCATGG 59.773 63.158 7.63 7.63 35.63 3.66
44 46 3.062466 CCGGCTCGTCTCTGGTGA 61.062 66.667 0.00 0.00 0.00 4.02
49 51 4.405671 TCGGTCCGGCTCGTCTCT 62.406 66.667 12.29 0.00 0.00 3.10
74 76 3.801997 CCCCTGCTTCCTGCCGAT 61.802 66.667 0.00 0.00 42.00 4.18
79 81 0.914417 TTAGGTCCCCCTGCTTCCTG 60.914 60.000 0.00 0.00 42.67 3.86
80 82 0.046397 ATTAGGTCCCCCTGCTTCCT 59.954 55.000 0.00 0.00 42.67 3.36
82 84 1.512735 AGATTAGGTCCCCCTGCTTC 58.487 55.000 0.00 0.00 42.67 3.86
108 111 3.237741 CATCCGCCTCCTCCTCCC 61.238 72.222 0.00 0.00 0.00 4.30
109 112 2.444895 ACATCCGCCTCCTCCTCC 60.445 66.667 0.00 0.00 0.00 4.30
110 113 2.060980 ACACATCCGCCTCCTCCTC 61.061 63.158 0.00 0.00 0.00 3.71
147 150 5.171476 TCACGAAATGGAAAGCAAAACAAA 58.829 33.333 0.00 0.00 0.00 2.83
148 151 4.748892 TCACGAAATGGAAAGCAAAACAA 58.251 34.783 0.00 0.00 0.00 2.83
150 153 4.981674 TCATCACGAAATGGAAAGCAAAAC 59.018 37.500 0.00 0.00 0.00 2.43
153 156 4.844998 TTCATCACGAAATGGAAAGCAA 57.155 36.364 0.00 0.00 0.00 3.91
160 163 5.233957 TGCATAGTTTCATCACGAAATGG 57.766 39.130 0.00 0.00 45.21 3.16
236 250 1.418334 TGGCTTGCTAGGATCTCTCC 58.582 55.000 0.00 0.00 42.43 3.71
273 303 0.244721 GCCGAAAAATGAGGCTTGCT 59.755 50.000 0.00 0.00 46.83 3.91
274 304 2.741930 GCCGAAAAATGAGGCTTGC 58.258 52.632 0.00 0.00 46.83 4.01
323 353 1.473677 ACAATCGATTCGACGGTACCA 59.526 47.619 11.56 0.00 39.18 3.25
324 354 2.114825 GACAATCGATTCGACGGTACC 58.885 52.381 11.56 0.16 39.18 3.34
325 355 2.782192 CAGACAATCGATTCGACGGTAC 59.218 50.000 11.56 6.99 39.18 3.34
326 356 2.223409 CCAGACAATCGATTCGACGGTA 60.223 50.000 11.56 0.00 39.18 4.02
327 357 1.469251 CCAGACAATCGATTCGACGGT 60.469 52.381 11.56 12.16 39.18 4.83
328 358 1.200483 CCAGACAATCGATTCGACGG 58.800 55.000 11.56 8.94 39.18 4.79
329 359 1.583856 CACCAGACAATCGATTCGACG 59.416 52.381 11.56 8.27 39.18 5.12
330 360 1.927174 CCACCAGACAATCGATTCGAC 59.073 52.381 11.56 5.00 39.18 4.20
331 361 1.739035 GCCACCAGACAATCGATTCGA 60.739 52.381 11.73 11.73 41.13 3.71
332 362 0.652592 GCCACCAGACAATCGATTCG 59.347 55.000 7.92 6.84 0.00 3.34
333 363 1.667724 CTGCCACCAGACAATCGATTC 59.332 52.381 7.92 0.00 41.77 2.52
334 364 1.278985 TCTGCCACCAGACAATCGATT 59.721 47.619 4.39 4.39 42.98 3.34
335 365 0.904649 TCTGCCACCAGACAATCGAT 59.095 50.000 0.00 0.00 42.98 3.59
336 366 2.361189 TCTGCCACCAGACAATCGA 58.639 52.632 0.00 0.00 42.98 3.59
344 374 7.151308 TGTTTTATTTTGTAATCTGCCACCAG 58.849 34.615 0.00 0.00 40.54 4.00
360 390 9.498176 ACTACTAGTTGACCGAATGTTTTATTT 57.502 29.630 11.43 0.00 0.00 1.40
361 391 8.932791 CACTACTAGTTGACCGAATGTTTTATT 58.067 33.333 11.43 0.00 0.00 1.40
362 392 8.092687 ACACTACTAGTTGACCGAATGTTTTAT 58.907 33.333 11.43 0.00 0.00 1.40
363 393 7.436118 ACACTACTAGTTGACCGAATGTTTTA 58.564 34.615 11.43 0.00 0.00 1.52
364 394 6.285990 ACACTACTAGTTGACCGAATGTTTT 58.714 36.000 11.43 0.00 0.00 2.43
372 402 2.740981 ACGAGACACTACTAGTTGACCG 59.259 50.000 11.43 8.31 0.00 4.79
407 437 3.694566 AGCACGAGGTTGATTTTATTCCC 59.305 43.478 0.00 0.00 0.00 3.97
425 455 0.036022 AGGGAGAGTTGAGCAAGCAC 59.964 55.000 0.00 0.00 0.00 4.40
426 456 0.322975 GAGGGAGAGTTGAGCAAGCA 59.677 55.000 0.00 0.00 0.00 3.91
427 457 0.392327 GGAGGGAGAGTTGAGCAAGC 60.392 60.000 0.00 0.00 0.00 4.01
428 458 0.979665 TGGAGGGAGAGTTGAGCAAG 59.020 55.000 0.00 0.00 0.00 4.01
429 459 1.661463 ATGGAGGGAGAGTTGAGCAA 58.339 50.000 0.00 0.00 0.00 3.91
431 461 1.836802 AGAATGGAGGGAGAGTTGAGC 59.163 52.381 0.00 0.00 0.00 4.26
432 462 2.433970 GGAGAATGGAGGGAGAGTTGAG 59.566 54.545 0.00 0.00 0.00 3.02
433 463 2.472029 GGAGAATGGAGGGAGAGTTGA 58.528 52.381 0.00 0.00 0.00 3.18
434 464 1.488393 GGGAGAATGGAGGGAGAGTTG 59.512 57.143 0.00 0.00 0.00 3.16
435 465 1.626631 GGGGAGAATGGAGGGAGAGTT 60.627 57.143 0.00 0.00 0.00 3.01
436 466 0.030603 GGGGAGAATGGAGGGAGAGT 60.031 60.000 0.00 0.00 0.00 3.24
437 467 0.030705 TGGGGAGAATGGAGGGAGAG 60.031 60.000 0.00 0.00 0.00 3.20
438 468 0.649992 ATGGGGAGAATGGAGGGAGA 59.350 55.000 0.00 0.00 0.00 3.71
439 469 1.063183 GATGGGGAGAATGGAGGGAG 58.937 60.000 0.00 0.00 0.00 4.30
440 470 0.401979 GGATGGGGAGAATGGAGGGA 60.402 60.000 0.00 0.00 0.00 4.20
441 471 1.430369 GGGATGGGGAGAATGGAGGG 61.430 65.000 0.00 0.00 0.00 4.30
442 472 1.772819 CGGGATGGGGAGAATGGAGG 61.773 65.000 0.00 0.00 0.00 4.30
443 473 1.757306 CGGGATGGGGAGAATGGAG 59.243 63.158 0.00 0.00 0.00 3.86
444 474 2.452064 GCGGGATGGGGAGAATGGA 61.452 63.158 0.00 0.00 0.00 3.41
445 475 2.113986 GCGGGATGGGGAGAATGG 59.886 66.667 0.00 0.00 0.00 3.16
446 476 2.281070 CGCGGGATGGGGAGAATG 60.281 66.667 0.00 0.00 0.00 2.67
447 477 4.256180 GCGCGGGATGGGGAGAAT 62.256 66.667 8.83 0.00 0.00 2.40
459 489 3.222855 ATGGAGGAGAGAGCGCGG 61.223 66.667 8.83 0.00 0.00 6.46
476 506 1.483827 GAGATGGTCTGGTGATGAGCA 59.516 52.381 0.00 0.00 44.37 4.26
487 535 7.615039 ACTATTTCATGAGATGAGATGGTCT 57.385 36.000 8.95 0.00 40.06 3.85
493 541 8.525290 TGACTGTACTATTTCATGAGATGAGA 57.475 34.615 8.95 0.00 40.94 3.27
494 542 9.409312 GATGACTGTACTATTTCATGAGATGAG 57.591 37.037 8.95 5.40 40.94 2.90
495 543 8.363390 GGATGACTGTACTATTTCATGAGATGA 58.637 37.037 8.95 0.00 37.55 2.92
496 544 8.366401 AGGATGACTGTACTATTTCATGAGATG 58.634 37.037 8.95 2.32 0.00 2.90
497 545 8.489676 AGGATGACTGTACTATTTCATGAGAT 57.510 34.615 3.95 3.95 0.00 2.75
498 546 7.561356 TGAGGATGACTGTACTATTTCATGAGA 59.439 37.037 0.00 0.00 0.00 3.27
499 547 7.651304 GTGAGGATGACTGTACTATTTCATGAG 59.349 40.741 0.00 0.00 0.00 2.90
500 548 7.124147 TGTGAGGATGACTGTACTATTTCATGA 59.876 37.037 0.00 0.00 0.00 3.07
501 549 7.223582 GTGTGAGGATGACTGTACTATTTCATG 59.776 40.741 0.00 0.00 0.00 3.07
502 550 7.093333 TGTGTGAGGATGACTGTACTATTTCAT 60.093 37.037 0.00 0.00 0.00 2.57
503 551 6.210584 TGTGTGAGGATGACTGTACTATTTCA 59.789 38.462 0.00 0.00 0.00 2.69
504 552 6.631016 TGTGTGAGGATGACTGTACTATTTC 58.369 40.000 0.00 0.00 0.00 2.17
505 553 6.605471 TGTGTGAGGATGACTGTACTATTT 57.395 37.500 0.00 0.00 0.00 1.40
506 554 6.605471 TTGTGTGAGGATGACTGTACTATT 57.395 37.500 0.00 0.00 0.00 1.73
507 555 6.605471 TTTGTGTGAGGATGACTGTACTAT 57.395 37.500 0.00 0.00 0.00 2.12
508 556 6.605471 ATTTGTGTGAGGATGACTGTACTA 57.395 37.500 0.00 0.00 0.00 1.82
509 557 4.955811 TTTGTGTGAGGATGACTGTACT 57.044 40.909 0.00 0.00 0.00 2.73
536 584 8.820831 AGGATATAAGAGACCGAAATGATGAAT 58.179 33.333 0.00 0.00 0.00 2.57
552 600 7.295672 AGAATTGATGGTTGGGAGGATATAAGA 59.704 37.037 0.00 0.00 0.00 2.10
553 601 7.465116 AGAATTGATGGTTGGGAGGATATAAG 58.535 38.462 0.00 0.00 0.00 1.73
554 602 7.295672 AGAGAATTGATGGTTGGGAGGATATAA 59.704 37.037 0.00 0.00 0.00 0.98
555 603 6.794493 AGAGAATTGATGGTTGGGAGGATATA 59.206 38.462 0.00 0.00 0.00 0.86
556 604 5.614402 AGAGAATTGATGGTTGGGAGGATAT 59.386 40.000 0.00 0.00 0.00 1.63
557 605 4.977739 AGAGAATTGATGGTTGGGAGGATA 59.022 41.667 0.00 0.00 0.00 2.59
558 606 3.790408 AGAGAATTGATGGTTGGGAGGAT 59.210 43.478 0.00 0.00 0.00 3.24
559 607 3.192944 AGAGAATTGATGGTTGGGAGGA 58.807 45.455 0.00 0.00 0.00 3.71
560 608 3.201708 AGAGAGAATTGATGGTTGGGAGG 59.798 47.826 0.00 0.00 0.00 4.30
561 609 4.500499 AGAGAGAATTGATGGTTGGGAG 57.500 45.455 0.00 0.00 0.00 4.30
562 610 4.934797 AAGAGAGAATTGATGGTTGGGA 57.065 40.909 0.00 0.00 0.00 4.37
563 611 5.259632 AGAAAGAGAGAATTGATGGTTGGG 58.740 41.667 0.00 0.00 0.00 4.12
564 612 6.179040 AGAGAAAGAGAGAATTGATGGTTGG 58.821 40.000 0.00 0.00 0.00 3.77
565 613 8.256605 TCTAGAGAAAGAGAGAATTGATGGTTG 58.743 37.037 0.00 0.00 0.00 3.77
566 614 8.372877 TCTAGAGAAAGAGAGAATTGATGGTT 57.627 34.615 0.00 0.00 0.00 3.67
567 615 7.969690 TCTAGAGAAAGAGAGAATTGATGGT 57.030 36.000 0.00 0.00 0.00 3.55
568 616 8.477256 AGTTCTAGAGAAAGAGAGAATTGATGG 58.523 37.037 0.00 0.00 35.58 3.51
569 617 9.304731 CAGTTCTAGAGAAAGAGAGAATTGATG 57.695 37.037 0.00 0.00 37.67 3.07
570 618 9.034800 ACAGTTCTAGAGAAAGAGAGAATTGAT 57.965 33.333 11.46 0.00 37.67 2.57
571 619 8.415950 ACAGTTCTAGAGAAAGAGAGAATTGA 57.584 34.615 11.46 0.00 37.67 2.57
572 620 9.787532 CTACAGTTCTAGAGAAAGAGAGAATTG 57.212 37.037 0.00 0.00 39.92 2.32
573 621 9.528489 ACTACAGTTCTAGAGAAAGAGAGAATT 57.472 33.333 0.00 0.00 35.58 2.17
575 623 9.661563 CTACTACAGTTCTAGAGAAAGAGAGAA 57.338 37.037 0.00 0.00 35.58 2.87
576 624 8.818860 ACTACTACAGTTCTAGAGAAAGAGAGA 58.181 37.037 0.00 0.00 35.58 3.10
634 682 1.228245 GAGTCCCAGCAGTGGCAAA 60.228 57.895 0.00 0.00 43.44 3.68
653 701 5.459536 AAAGTTGAGGAGAAAAGCAATCC 57.540 39.130 0.00 0.00 0.00 3.01
676 724 2.276201 CCTTTACACCGATCGAATGCA 58.724 47.619 18.66 2.18 0.00 3.96
712 760 2.615912 GGAAGAAGAGGAAATGATGGCG 59.384 50.000 0.00 0.00 0.00 5.69
796 849 2.779742 TTAATGGCAGGGCGCTTGGT 62.780 55.000 7.64 0.00 41.91 3.67
928 1003 3.691342 CGCCCGAGGTCAAGGTGA 61.691 66.667 0.00 0.00 32.75 4.02
929 1004 3.691342 TCGCCCGAGGTCAAGGTG 61.691 66.667 0.00 0.00 0.00 4.00
930 1005 3.692406 GTCGCCCGAGGTCAAGGT 61.692 66.667 0.00 0.00 0.00 3.50
931 1006 4.452733 GGTCGCCCGAGGTCAAGG 62.453 72.222 0.00 0.00 0.00 3.61
932 1007 3.358076 GAGGTCGCCCGAGGTCAAG 62.358 68.421 0.00 0.00 35.12 3.02
933 1008 3.379445 GAGGTCGCCCGAGGTCAA 61.379 66.667 0.00 0.00 35.12 3.18
942 1017 1.153147 GAATTGGAGGGAGGTCGCC 60.153 63.158 0.00 0.00 0.00 5.54
943 1018 1.153147 GGAATTGGAGGGAGGTCGC 60.153 63.158 0.00 0.00 0.00 5.19
944 1019 1.527370 GGGAATTGGAGGGAGGTCG 59.473 63.158 0.00 0.00 0.00 4.79
945 1020 0.919289 TGGGGAATTGGAGGGAGGTC 60.919 60.000 0.00 0.00 0.00 3.85
946 1021 0.479589 TTGGGGAATTGGAGGGAGGT 60.480 55.000 0.00 0.00 0.00 3.85
947 1022 0.259938 CTTGGGGAATTGGAGGGAGG 59.740 60.000 0.00 0.00 0.00 4.30
948 1023 1.298953 TCTTGGGGAATTGGAGGGAG 58.701 55.000 0.00 0.00 0.00 4.30
949 1024 1.357761 GTTCTTGGGGAATTGGAGGGA 59.642 52.381 0.00 0.00 36.24 4.20
1352 1443 2.999648 AAGCAGCGGCAGAGGAGA 61.000 61.111 12.44 0.00 44.61 3.71
1385 1476 9.898152 AGAAAGAGAGAAAGAAAGAAAGAAAGA 57.102 29.630 0.00 0.00 0.00 2.52
1401 1492 9.793252 CACAATTCAAAAAGAAAGAAAGAGAGA 57.207 29.630 0.00 0.00 40.22 3.10
1402 1493 8.538039 GCACAATTCAAAAAGAAAGAAAGAGAG 58.462 33.333 0.00 0.00 40.22 3.20
1403 1494 7.220683 CGCACAATTCAAAAAGAAAGAAAGAGA 59.779 33.333 0.00 0.00 40.22 3.10
1404 1495 7.332530 CGCACAATTCAAAAAGAAAGAAAGAG 58.667 34.615 0.00 0.00 40.22 2.85
1444 1535 9.702494 TTCATAGTAGCATCAATCAATCTACTG 57.298 33.333 9.67 0.00 39.89 2.74
1461 1575 9.978044 TCTGTGATTCAATCAGATTCATAGTAG 57.022 33.333 0.00 0.00 42.07 2.57
1581 1695 0.321653 GGTCTACAGCCCACCTTGTG 60.322 60.000 0.00 0.00 0.00 3.33
1652 1783 1.204146 TCCAGCCAGTAACCCTCATC 58.796 55.000 0.00 0.00 0.00 2.92
2584 2785 2.027561 CCTCCACGTAGTTTGGAATCCA 60.028 50.000 0.00 0.00 42.76 3.41
2855 3254 3.341823 AGTCAGAATTGCACTGCTAAGG 58.658 45.455 1.98 0.00 35.61 2.69
2936 3335 1.907807 GGCAACAAGTGATGGCCCA 60.908 57.895 0.00 0.00 38.70 5.36
3119 3518 7.475015 TGAAAAGAAACACTGTGAGAGAAATG 58.525 34.615 15.86 0.00 0.00 2.32
3685 4084 2.429610 AGTGGATGCCAGATCAAAATGC 59.570 45.455 0.00 0.00 32.34 3.56
3837 4236 4.314740 TTTGACAAACAAGTACCATGGC 57.685 40.909 13.04 0.00 39.77 4.40
4224 4623 3.437795 GATGGCGCTGTGCTTGCT 61.438 61.111 13.46 0.00 45.43 3.91
4239 4638 1.431440 GACGACGCTGAGCTCTGAT 59.569 57.895 23.35 10.73 0.00 2.90
4580 5013 3.697542 GGGAACGGGTTGCTTACAATATT 59.302 43.478 3.11 0.00 38.27 1.28
4584 5017 0.183014 TGGGAACGGGTTGCTTACAA 59.817 50.000 3.11 0.00 0.00 2.41
4745 5178 3.824414 AAAAATAGCCGGACAGTTTCG 57.176 42.857 5.05 0.00 0.00 3.46
4770 5203 5.302360 AGTTTCATACACGGCAAGAAAGTA 58.698 37.500 0.00 0.00 31.97 2.24
4882 5327 1.344114 CCACCCCACAGTCATTTTTGG 59.656 52.381 0.00 0.00 0.00 3.28
4884 5329 2.597455 CTCCACCCCACAGTCATTTTT 58.403 47.619 0.00 0.00 0.00 1.94
4892 5337 1.222936 GAGATGCTCCACCCCACAG 59.777 63.158 0.00 0.00 0.00 3.66
5017 5462 2.753296 CCTAGATCTGCAAGTAGCTGC 58.247 52.381 5.18 0.00 45.94 5.25
5018 5463 2.102084 TGCCTAGATCTGCAAGTAGCTG 59.898 50.000 5.18 0.00 45.94 4.24
5035 5480 3.840666 CCCAGATACATACATAGGTGCCT 59.159 47.826 0.00 0.00 0.00 4.75
5037 5482 3.261897 AGCCCAGATACATACATAGGTGC 59.738 47.826 0.00 0.00 0.00 5.01
5040 5485 3.369892 GGCAGCCCAGATACATACATAGG 60.370 52.174 0.00 0.00 0.00 2.57
5045 5490 3.633361 GGGCAGCCCAGATACATAC 57.367 57.895 27.33 0.00 44.65 2.39
5371 5842 4.320057 CCAGCTGTTCAGATTTCAAGTGTC 60.320 45.833 13.81 0.00 0.00 3.67
5377 5848 3.265221 AGATCCCAGCTGTTCAGATTTCA 59.735 43.478 13.81 0.00 0.00 2.69
5404 5875 4.993584 CACTCTGTGCTCTTGTTGATAAGT 59.006 41.667 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.