Multiple sequence alignment - TraesCS1A01G297500

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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 TraesCS1A01G297500 chr1A 100.000 2985 0 0 1 2985 492274581 492277565 0.000000e+00 5513.0
1 TraesCS1A01G297500 chr1A 94.286 70 4 0 491 560 492274950 492275019 1.130000e-19 108.0
2 TraesCS1A01G297500 chr1A 94.286 70 4 0 370 439 492275071 492275140 1.130000e-19 108.0
3 TraesCS1A01G297500 chr1B 93.062 1326 49 21 750 2055 529708443 529709745 0.000000e+00 1899.0
4 TraesCS1A01G297500 chr1B 85.784 204 29 0 3 206 529707509 529707712 1.800000e-52 217.0
5 TraesCS1A01G297500 chr1B 88.235 136 8 5 371 498 529707820 529707955 3.980000e-34 156.0
6 TraesCS1A01G297500 chr1B 88.710 124 11 2 2167 2287 529709916 529710039 6.670000e-32 148.0
7 TraesCS1A01G297500 chr1D 92.483 1357 47 24 722 2055 392945133 392943809 0.000000e+00 1890.0
8 TraesCS1A01G297500 chr1D 88.396 767 63 18 2164 2910 392943635 392942875 0.000000e+00 900.0
9 TraesCS1A01G297500 chr1D 88.517 209 22 2 1 209 392946028 392945822 4.940000e-63 252.0
10 TraesCS1A01G297500 chr1D 87.019 208 16 5 359 556 392945674 392945468 1.080000e-54 224.0
11 TraesCS1A01G297500 chr1D 80.083 241 19 7 471 682 392945687 392945447 5.150000e-33 152.0
12 TraesCS1A01G297500 chr1D 100.000 30 0 0 2742 2771 33711361 33711390 4.160000e-04 56.5
13 TraesCS1A01G297500 chr1D 100.000 28 0 0 2749 2776 488550731 488550704 5.000000e-03 52.8
14 TraesCS1A01G297500 chr3A 76.617 201 31 16 2577 2769 617137143 617137335 2.450000e-16 97.1
15 TraesCS1A01G297500 chr5D 86.842 76 7 3 2578 2652 542408036 542407963 6.860000e-12 82.4
16 TraesCS1A01G297500 chr4A 82.192 73 10 3 2578 2650 626780109 626780178 3.210000e-05 60.2
17 TraesCS1A01G297500 chr7B 100.000 28 0 0 2745 2772 202992072 202992045 5.000000e-03 52.8


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 TraesCS1A01G297500 chr1A 492274581 492277565 2984 False 1909.666667 5513 96.190667 1 2985 3 chr1A.!!$F1 2984
1 TraesCS1A01G297500 chr1B 529707509 529710039 2530 False 605.000000 1899 88.947750 3 2287 4 chr1B.!!$F1 2284
2 TraesCS1A01G297500 chr1D 392942875 392946028 3153 True 683.600000 1890 87.299600 1 2910 5 chr1D.!!$R2 2909

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
530 569 0.028374 CCCGTCGAAAACAACACACC 59.972 55.0 0.0 0.0 0.0 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2055 2476 0.033405 TTGAGCTCCGGCCTACTACT 60.033 55.0 12.15 0.0 39.73 2.57 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 1.325355 GATGTCATGGGCCCTTCATG 58.675 55.000 25.70 18.74 42.28 3.07
56 57 3.733960 GAAAACGTCGGGGCCAGC 61.734 66.667 4.39 0.00 0.00 4.85
116 117 3.493767 AGACCCTGTCTTGTTTTCTCC 57.506 47.619 0.00 0.00 40.28 3.71
118 119 2.879026 GACCCTGTCTTGTTTTCTCCAC 59.121 50.000 0.00 0.00 0.00 4.02
153 154 7.116233 CACTATAACAACATGCCAACTTTTTCC 59.884 37.037 0.00 0.00 0.00 3.13
155 156 4.058721 ACAACATGCCAACTTTTTCCTC 57.941 40.909 0.00 0.00 0.00 3.71
158 159 2.365293 ACATGCCAACTTTTTCCTCACC 59.635 45.455 0.00 0.00 0.00 4.02
159 160 1.408969 TGCCAACTTTTTCCTCACCC 58.591 50.000 0.00 0.00 0.00 4.61
189 190 2.667199 CCGCCGAAACCGACCTTT 60.667 61.111 0.00 0.00 0.00 3.11
192 193 1.371267 GCCGAAACCGACCTTTTGC 60.371 57.895 0.00 0.00 0.00 3.68
195 196 0.661020 CGAAACCGACCTTTTGCTGT 59.339 50.000 0.00 0.00 0.00 4.40
198 199 1.235724 AACCGACCTTTTGCTGTAGC 58.764 50.000 0.00 0.00 42.50 3.58
201 202 1.512926 CGACCTTTTGCTGTAGCTGT 58.487 50.000 5.38 0.00 42.66 4.40
206 207 5.005779 CGACCTTTTGCTGTAGCTGTTATAG 59.994 44.000 5.38 0.00 42.66 1.31
209 210 7.565680 ACCTTTTGCTGTAGCTGTTATAGTAT 58.434 34.615 5.38 0.00 42.66 2.12
210 211 8.047310 ACCTTTTGCTGTAGCTGTTATAGTATT 58.953 33.333 5.38 0.00 42.66 1.89
211 212 9.542462 CCTTTTGCTGTAGCTGTTATAGTATTA 57.458 33.333 5.38 0.00 42.66 0.98
245 246 8.032451 TGTAGCTTGGTTTATATTTCTTTTGGC 58.968 33.333 0.00 0.00 0.00 4.52
246 247 6.406370 AGCTTGGTTTATATTTCTTTTGGCC 58.594 36.000 0.00 0.00 0.00 5.36
248 249 5.331876 TGGTTTATATTTCTTTTGGCCCG 57.668 39.130 0.00 0.00 0.00 6.13
249 250 4.773149 TGGTTTATATTTCTTTTGGCCCGT 59.227 37.500 0.00 0.00 0.00 5.28
250 251 5.106442 GGTTTATATTTCTTTTGGCCCGTG 58.894 41.667 0.00 0.00 0.00 4.94
251 252 2.959507 ATATTTCTTTTGGCCCGTGC 57.040 45.000 0.00 0.00 0.00 5.34
252 253 0.523966 TATTTCTTTTGGCCCGTGCG 59.476 50.000 0.00 0.00 38.85 5.34
253 254 2.763627 ATTTCTTTTGGCCCGTGCGC 62.764 55.000 0.00 0.00 38.85 6.09
262 263 4.760047 CCCGTGCGCCTACTGCTT 62.760 66.667 4.18 0.00 38.05 3.91
263 264 2.183300 CCGTGCGCCTACTGCTTA 59.817 61.111 4.18 0.00 38.05 3.09
264 265 1.878522 CCGTGCGCCTACTGCTTAG 60.879 63.158 4.18 0.00 38.05 2.18
266 267 0.867753 CGTGCGCCTACTGCTTAGAG 60.868 60.000 4.18 0.00 38.05 2.43
267 268 0.528684 GTGCGCCTACTGCTTAGAGG 60.529 60.000 4.18 0.00 38.05 3.69
268 269 0.970937 TGCGCCTACTGCTTAGAGGT 60.971 55.000 4.18 0.00 38.05 3.85
269 270 1.030457 GCGCCTACTGCTTAGAGGTA 58.970 55.000 0.00 0.00 38.05 3.08
270 271 1.269154 GCGCCTACTGCTTAGAGGTAC 60.269 57.143 0.00 0.00 38.05 3.34
271 272 2.299521 CGCCTACTGCTTAGAGGTACT 58.700 52.381 0.00 0.00 39.23 2.73
272 273 3.474600 CGCCTACTGCTTAGAGGTACTA 58.525 50.000 0.00 0.00 36.71 1.82
275 276 5.619220 GCCTACTGCTTAGAGGTACTAGTA 58.381 45.833 0.00 0.00 35.99 1.82
276 277 6.060788 GCCTACTGCTTAGAGGTACTAGTAA 58.939 44.000 3.61 0.00 35.99 2.24
278 279 7.052873 CCTACTGCTTAGAGGTACTAGTAACA 58.947 42.308 19.94 0.00 41.55 2.41
279 280 7.720515 CCTACTGCTTAGAGGTACTAGTAACAT 59.279 40.741 19.94 10.36 41.55 2.71
281 282 8.680039 ACTGCTTAGAGGTACTAGTAACATAG 57.320 38.462 19.94 11.31 41.55 2.23
282 283 8.492782 ACTGCTTAGAGGTACTAGTAACATAGA 58.507 37.037 19.94 2.80 41.55 1.98
283 284 8.905660 TGCTTAGAGGTACTAGTAACATAGAG 57.094 38.462 19.94 12.42 41.55 2.43
285 286 9.995003 GCTTAGAGGTACTAGTAACATAGAGTA 57.005 37.037 19.94 0.00 41.55 2.59
338 339 9.233649 AGAGTAGTAGTATGGACATATTACTGC 57.766 37.037 25.34 24.14 42.77 4.40
345 346 8.657387 AGTATGGACATATTACTGCTCTATGT 57.343 34.615 0.00 0.00 38.46 2.29
346 347 8.526978 AGTATGGACATATTACTGCTCTATGTG 58.473 37.037 0.00 0.00 36.48 3.21
348 349 6.515832 TGGACATATTACTGCTCTATGTGTG 58.484 40.000 0.00 0.00 36.48 3.82
349 350 5.928839 GGACATATTACTGCTCTATGTGTGG 59.071 44.000 0.00 0.00 36.48 4.17
350 351 6.463049 GGACATATTACTGCTCTATGTGTGGT 60.463 42.308 0.00 0.00 36.48 4.16
352 353 8.018537 ACATATTACTGCTCTATGTGTGGTTA 57.981 34.615 0.00 0.00 35.37 2.85
355 356 4.457834 ACTGCTCTATGTGTGGTTAGTC 57.542 45.455 0.00 0.00 0.00 2.59
356 357 4.090090 ACTGCTCTATGTGTGGTTAGTCT 58.910 43.478 0.00 0.00 0.00 3.24
357 358 5.262009 ACTGCTCTATGTGTGGTTAGTCTA 58.738 41.667 0.00 0.00 0.00 2.59
389 421 8.927675 TTTAGATGGTTATGGTTAGTTGTTGT 57.072 30.769 0.00 0.00 0.00 3.32
392 424 4.066490 TGGTTATGGTTAGTTGTTGTCCG 58.934 43.478 0.00 0.00 0.00 4.79
488 527 3.937706 AGCATGTGAGCTGTCTGATTAAC 59.062 43.478 0.00 0.00 44.66 2.01
489 528 3.064545 GCATGTGAGCTGTCTGATTAACC 59.935 47.826 0.00 0.00 0.00 2.85
490 529 4.256110 CATGTGAGCTGTCTGATTAACCA 58.744 43.478 0.00 0.00 0.00 3.67
491 530 4.558226 TGTGAGCTGTCTGATTAACCAT 57.442 40.909 0.00 0.00 0.00 3.55
492 531 4.256110 TGTGAGCTGTCTGATTAACCATG 58.744 43.478 0.00 0.00 0.00 3.66
493 532 3.624861 GTGAGCTGTCTGATTAACCATGG 59.375 47.826 11.19 11.19 0.00 3.66
494 533 3.264193 TGAGCTGTCTGATTAACCATGGT 59.736 43.478 13.00 13.00 0.00 3.55
495 534 4.263462 TGAGCTGTCTGATTAACCATGGTT 60.263 41.667 31.85 31.85 41.65 3.67
496 535 5.045942 TGAGCTGTCTGATTAACCATGGTTA 60.046 40.000 29.65 29.65 39.31 2.85
497 536 6.006275 AGCTGTCTGATTAACCATGGTTAT 57.994 37.500 32.67 23.19 39.87 1.89
498 537 5.824624 AGCTGTCTGATTAACCATGGTTATG 59.175 40.000 32.67 22.75 39.87 1.90
511 550 5.464965 CATGGTTATGGTTAGTCGTTGTC 57.535 43.478 0.00 0.00 0.00 3.18
512 551 3.929094 TGGTTATGGTTAGTCGTTGTCC 58.071 45.455 0.00 0.00 0.00 4.02
513 552 3.264947 GGTTATGGTTAGTCGTTGTCCC 58.735 50.000 0.00 0.00 0.00 4.46
514 553 2.925563 GTTATGGTTAGTCGTTGTCCCG 59.074 50.000 0.00 0.00 0.00 5.14
515 554 0.971386 ATGGTTAGTCGTTGTCCCGT 59.029 50.000 0.00 0.00 0.00 5.28
516 555 0.314935 TGGTTAGTCGTTGTCCCGTC 59.685 55.000 0.00 0.00 0.00 4.79
517 556 0.730494 GGTTAGTCGTTGTCCCGTCG 60.730 60.000 0.00 0.00 0.00 5.12
518 557 0.238289 GTTAGTCGTTGTCCCGTCGA 59.762 55.000 0.00 0.00 0.00 4.20
519 558 0.950836 TTAGTCGTTGTCCCGTCGAA 59.049 50.000 0.00 0.00 35.44 3.71
520 559 0.950836 TAGTCGTTGTCCCGTCGAAA 59.049 50.000 0.00 0.00 35.44 3.46
521 560 0.102844 AGTCGTTGTCCCGTCGAAAA 59.897 50.000 0.00 0.00 35.44 2.29
522 561 0.230515 GTCGTTGTCCCGTCGAAAAC 59.769 55.000 0.00 0.00 35.60 2.43
523 562 0.179116 TCGTTGTCCCGTCGAAAACA 60.179 50.000 0.00 0.00 38.47 2.83
524 563 0.651551 CGTTGTCCCGTCGAAAACAA 59.348 50.000 0.00 0.00 38.47 2.83
525 564 1.592830 CGTTGTCCCGTCGAAAACAAC 60.593 52.381 19.07 19.07 44.96 3.32
526 565 1.397692 GTTGTCCCGTCGAAAACAACA 59.602 47.619 21.82 6.73 46.68 3.33
527 566 1.008329 TGTCCCGTCGAAAACAACAC 58.992 50.000 0.00 0.00 0.00 3.32
528 567 1.008329 GTCCCGTCGAAAACAACACA 58.992 50.000 0.00 0.00 0.00 3.72
529 568 1.008329 TCCCGTCGAAAACAACACAC 58.992 50.000 0.00 0.00 0.00 3.82
530 569 0.028374 CCCGTCGAAAACAACACACC 59.972 55.000 0.00 0.00 0.00 4.16
531 570 0.727970 CCGTCGAAAACAACACACCA 59.272 50.000 0.00 0.00 0.00 4.17
532 571 1.130749 CCGTCGAAAACAACACACCAA 59.869 47.619 0.00 0.00 0.00 3.67
533 572 2.436670 CGTCGAAAACAACACACCAAG 58.563 47.619 0.00 0.00 0.00 3.61
534 573 2.094575 CGTCGAAAACAACACACCAAGA 59.905 45.455 0.00 0.00 0.00 3.02
535 574 3.242608 CGTCGAAAACAACACACCAAGAT 60.243 43.478 0.00 0.00 0.00 2.40
536 575 4.035017 GTCGAAAACAACACACCAAGATG 58.965 43.478 0.00 0.00 0.00 2.90
537 576 2.788786 CGAAAACAACACACCAAGATGC 59.211 45.455 0.00 0.00 0.00 3.91
538 577 3.489059 CGAAAACAACACACCAAGATGCT 60.489 43.478 0.00 0.00 0.00 3.79
539 578 3.715628 AAACAACACACCAAGATGCTC 57.284 42.857 0.00 0.00 0.00 4.26
540 579 2.346766 ACAACACACCAAGATGCTCA 57.653 45.000 0.00 0.00 0.00 4.26
541 580 2.867624 ACAACACACCAAGATGCTCAT 58.132 42.857 0.00 0.00 0.00 2.90
542 581 4.019792 ACAACACACCAAGATGCTCATA 57.980 40.909 0.00 0.00 0.00 2.15
543 582 4.397420 ACAACACACCAAGATGCTCATAA 58.603 39.130 0.00 0.00 0.00 1.90
544 583 4.456911 ACAACACACCAAGATGCTCATAAG 59.543 41.667 0.00 0.00 0.00 1.73
545 584 4.292186 ACACACCAAGATGCTCATAAGT 57.708 40.909 0.00 0.00 0.00 2.24
546 585 5.420725 ACACACCAAGATGCTCATAAGTA 57.579 39.130 0.00 0.00 0.00 2.24
547 586 5.423015 ACACACCAAGATGCTCATAAGTAG 58.577 41.667 0.00 0.00 0.00 2.57
548 587 4.272018 CACACCAAGATGCTCATAAGTAGC 59.728 45.833 0.00 0.00 40.50 3.58
549 588 4.163078 ACACCAAGATGCTCATAAGTAGCT 59.837 41.667 0.00 0.00 40.73 3.32
550 589 4.510711 CACCAAGATGCTCATAAGTAGCTG 59.489 45.833 0.00 0.00 40.73 4.24
551 590 4.163078 ACCAAGATGCTCATAAGTAGCTGT 59.837 41.667 0.00 0.00 40.73 4.40
552 591 5.363868 ACCAAGATGCTCATAAGTAGCTGTA 59.636 40.000 0.00 0.00 40.73 2.74
553 592 6.127054 ACCAAGATGCTCATAAGTAGCTGTAA 60.127 38.462 0.00 0.00 40.73 2.41
554 593 6.763135 CCAAGATGCTCATAAGTAGCTGTAAA 59.237 38.462 0.00 0.00 40.73 2.01
555 594 7.443575 CCAAGATGCTCATAAGTAGCTGTAAAT 59.556 37.037 0.00 0.00 40.73 1.40
556 595 8.834465 CAAGATGCTCATAAGTAGCTGTAAATT 58.166 33.333 0.00 0.00 40.73 1.82
557 596 8.970859 AGATGCTCATAAGTAGCTGTAAATTT 57.029 30.769 0.00 0.00 40.73 1.82
558 597 9.401058 AGATGCTCATAAGTAGCTGTAAATTTT 57.599 29.630 0.00 0.00 40.73 1.82
561 600 9.443323 TGCTCATAAGTAGCTGTAAATTTTACA 57.557 29.630 18.39 18.39 40.73 2.41
573 612 9.651718 GCTGTAAATTTTACATAGTATGTGAGC 57.348 33.333 23.36 12.54 44.60 4.26
578 617 9.672673 AAATTTTACATAGTATGTGAGCTGTCT 57.327 29.630 23.36 0.00 44.60 3.41
579 618 8.654230 ATTTTACATAGTATGTGAGCTGTCTG 57.346 34.615 23.36 0.00 44.60 3.51
580 619 7.404671 TTTACATAGTATGTGAGCTGTCTGA 57.595 36.000 23.36 0.00 44.60 3.27
581 620 7.588497 TTACATAGTATGTGAGCTGTCTGAT 57.412 36.000 23.36 0.00 44.60 2.90
582 621 6.477053 ACATAGTATGTGAGCTGTCTGATT 57.523 37.500 15.07 0.00 43.01 2.57
583 622 7.588497 ACATAGTATGTGAGCTGTCTGATTA 57.412 36.000 15.07 0.00 43.01 1.75
584 623 8.011844 ACATAGTATGTGAGCTGTCTGATTAA 57.988 34.615 15.07 0.00 43.01 1.40
585 624 7.923344 ACATAGTATGTGAGCTGTCTGATTAAC 59.077 37.037 15.07 0.00 43.01 2.01
588 627 5.674052 ATGTGAGCTGTCTGATTAACTCT 57.326 39.130 0.00 0.00 0.00 3.24
610 696 3.626930 TGGTTATGGCAATGGTTAGTCC 58.373 45.455 0.00 0.00 0.00 3.85
620 706 0.971386 TGGTTAGTCCTTGTCCCGTC 59.029 55.000 0.00 0.00 37.07 4.79
639 725 3.115098 CGTCGAAAACAACACGCATTAAC 59.885 43.478 0.00 0.00 0.00 2.01
644 730 5.330498 CGAAAACAACACGCATTAACAAGAC 60.330 40.000 0.00 0.00 0.00 3.01
1017 1408 2.438975 ATGGTGCACATCCTGCCG 60.439 61.111 20.43 0.00 46.51 5.69
1395 1790 3.179265 GTCGGGTGTCGCATCGTG 61.179 66.667 0.00 0.00 39.05 4.35
1424 1823 0.032615 TTGGCTGGTGGTCCTTTGTT 60.033 50.000 0.00 0.00 34.23 2.83
1425 1824 0.754957 TGGCTGGTGGTCCTTTGTTG 60.755 55.000 0.00 0.00 34.23 3.33
1426 1825 1.363807 GCTGGTGGTCCTTTGTTGC 59.636 57.895 0.00 0.00 34.23 4.17
1427 1826 1.654220 CTGGTGGTCCTTTGTTGCG 59.346 57.895 0.00 0.00 34.23 4.85
1428 1827 0.817634 CTGGTGGTCCTTTGTTGCGA 60.818 55.000 0.00 0.00 34.23 5.10
1429 1828 0.179004 TGGTGGTCCTTTGTTGCGAT 60.179 50.000 0.00 0.00 34.23 4.58
1478 1877 1.953138 CCACTCGCTGATCATCGGC 60.953 63.158 18.04 8.59 45.04 5.54
1583 1982 2.279120 CTCGGAGGCTGCATCGTC 60.279 66.667 8.31 1.68 0.00 4.20
1590 1989 2.265739 GCTGCATCGTCCAGGTGA 59.734 61.111 0.00 0.00 30.86 4.02
1591 1990 1.812922 GCTGCATCGTCCAGGTGAG 60.813 63.158 0.00 0.00 30.86 3.51
1592 1991 1.812922 CTGCATCGTCCAGGTGAGC 60.813 63.158 0.00 0.00 30.86 4.26
1593 1992 2.265739 GCATCGTCCAGGTGAGCA 59.734 61.111 0.00 0.00 30.86 4.26
1594 1993 1.812922 GCATCGTCCAGGTGAGCAG 60.813 63.158 0.00 0.00 30.86 4.24
1608 2007 2.031616 GCAGAGCAGAGCACACCA 59.968 61.111 0.00 0.00 0.00 4.17
1609 2008 2.323580 GCAGAGCAGAGCACACCAC 61.324 63.158 0.00 0.00 0.00 4.16
1699 2120 1.291877 CCAAGTTCCGGCTCAAGTCG 61.292 60.000 0.00 0.00 43.72 4.18
1997 2418 4.436998 CCTGACCCGACCGCTCAC 62.437 72.222 0.00 0.00 0.00 3.51
1998 2419 4.778415 CTGACCCGACCGCTCACG 62.778 72.222 0.00 0.00 39.67 4.35
2000 2421 4.047059 GACCCGACCGCTCACGAA 62.047 66.667 0.00 0.00 43.93 3.85
2017 2438 3.620374 CACGAAAGATGATCACCTTCTGG 59.380 47.826 1.82 0.00 39.83 3.86
2021 2442 4.484537 AAGATGATCACCTTCTGGACTG 57.515 45.455 0.00 0.00 37.04 3.51
2033 2454 4.319177 CTTCTGGACTGAACTGTTTAGGG 58.681 47.826 15.56 4.55 0.00 3.53
2055 2476 1.340017 GCTGACCTTGGTAGGCAATCA 60.340 52.381 10.18 0.00 46.22 2.57
2056 2477 2.636830 CTGACCTTGGTAGGCAATCAG 58.363 52.381 0.00 0.00 46.22 2.90
2058 2479 3.178046 TGACCTTGGTAGGCAATCAGTA 58.822 45.455 0.00 0.00 46.22 2.74
2059 2480 3.197766 TGACCTTGGTAGGCAATCAGTAG 59.802 47.826 0.00 0.00 46.22 2.57
2065 2500 2.037381 GGTAGGCAATCAGTAGTAGGCC 59.963 54.545 0.00 0.00 41.65 5.19
2083 2518 0.875059 CCGGAGCTCAAAGTTTGGAC 59.125 55.000 17.19 8.03 0.00 4.02
2104 2552 0.326595 TTGGAATACAAGGCTGCCGA 59.673 50.000 13.96 0.21 33.18 5.54
2109 2557 0.105039 ATACAAGGCTGCCGAGCTAC 59.895 55.000 13.96 0.00 45.44 3.58
2246 2747 9.988815 GAATATAATCCAGTTGTCTGTAGATGT 57.011 33.333 0.00 0.00 39.82 3.06
2248 2749 9.988815 ATATAATCCAGTTGTCTGTAGATGTTC 57.011 33.333 0.00 0.00 39.82 3.18
2250 2751 5.808366 TCCAGTTGTCTGTAGATGTTCTT 57.192 39.130 0.00 0.00 39.82 2.52
2318 2825 8.615878 TGCGTATATTTATGCACTTCCTTATT 57.384 30.769 6.03 0.00 43.69 1.40
2437 2948 8.806429 ATCATGTGTATGAGAAATGTTAACCA 57.194 30.769 2.48 0.00 45.89 3.67
2443 2954 8.296713 GTGTATGAGAAATGTTAACCATGTGTT 58.703 33.333 2.48 5.16 41.11 3.32
2500 3011 3.281601 CGTTCGAAAAACATGTACGCAA 58.718 40.909 0.00 0.00 0.00 4.85
2563 3074 7.339207 TGTGTAATCAGAAAAAGTTTCGTACG 58.661 34.615 9.53 9.53 0.00 3.67
2567 3078 6.839820 ATCAGAAAAAGTTTCGTACGTTCT 57.160 33.333 16.05 11.76 31.57 3.01
2569 3080 7.153478 TCAGAAAAAGTTTCGTACGTTCTAC 57.847 36.000 16.05 9.08 30.83 2.59
2571 3082 7.436080 TCAGAAAAAGTTTCGTACGTTCTACAT 59.564 33.333 16.05 0.00 30.83 2.29
2572 3083 8.060090 CAGAAAAAGTTTCGTACGTTCTACATT 58.940 33.333 16.05 4.83 30.83 2.71
2605 3125 9.450807 CTAGAAATGTTCACGAGTTTCAAAAAT 57.549 29.630 0.00 0.00 34.02 1.82
2613 3133 5.797934 TCACGAGTTTCAAAAATGTGTTCAC 59.202 36.000 0.00 0.00 0.00 3.18
2636 3157 9.232082 TCACGACATTTAAGAAAAATCTTTGTG 57.768 29.630 0.00 0.00 0.00 3.33
2694 3215 9.912634 GTTTCTATCATTCAAAGAATGTTCCAA 57.087 29.630 16.64 6.35 0.00 3.53
2832 3354 5.560966 AAAGGTAGCCATCAAAACATACG 57.439 39.130 0.00 0.00 0.00 3.06
2942 3465 9.554395 AAAAACAAGAAAGAAACTGAGGAAAAA 57.446 25.926 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 79 1.200252 TCTTCTTCTCTTCTGGTCGCG 59.800 52.381 0.00 0.00 0.00 5.87
85 86 4.126520 AGACAGGGTCTTCTTCTCTTCT 57.873 45.455 0.00 0.00 40.28 2.85
218 219 9.573133 CCAAAAGAAATATAAACCAAGCTACAG 57.427 33.333 0.00 0.00 0.00 2.74
220 221 7.491372 GGCCAAAAGAAATATAAACCAAGCTAC 59.509 37.037 0.00 0.00 0.00 3.58
221 222 7.364320 GGGCCAAAAGAAATATAAACCAAGCTA 60.364 37.037 4.39 0.00 0.00 3.32
223 224 5.584649 GGGCCAAAAGAAATATAAACCAAGC 59.415 40.000 4.39 0.00 0.00 4.01
224 225 5.810074 CGGGCCAAAAGAAATATAAACCAAG 59.190 40.000 4.39 0.00 0.00 3.61
225 226 5.246429 ACGGGCCAAAAGAAATATAAACCAA 59.754 36.000 4.39 0.00 0.00 3.67
226 227 4.773149 ACGGGCCAAAAGAAATATAAACCA 59.227 37.500 4.39 0.00 0.00 3.67
227 228 5.106442 CACGGGCCAAAAGAAATATAAACC 58.894 41.667 4.39 0.00 0.00 3.27
228 229 4.565166 GCACGGGCCAAAAGAAATATAAAC 59.435 41.667 4.39 0.00 0.00 2.01
229 230 4.675671 CGCACGGGCCAAAAGAAATATAAA 60.676 41.667 2.82 0.00 36.38 1.40
230 231 3.181495 CGCACGGGCCAAAAGAAATATAA 60.181 43.478 2.82 0.00 36.38 0.98
232 233 1.134175 CGCACGGGCCAAAAGAAATAT 59.866 47.619 2.82 0.00 36.38 1.28
234 235 1.288752 CGCACGGGCCAAAAGAAAT 59.711 52.632 2.82 0.00 36.38 2.17
235 236 2.725008 CGCACGGGCCAAAAGAAA 59.275 55.556 2.82 0.00 36.38 2.52
236 237 3.972276 GCGCACGGGCCAAAAGAA 61.972 61.111 2.82 0.00 36.38 2.52
252 253 4.463070 ACTAGTACCTCTAAGCAGTAGGC 58.537 47.826 0.00 0.00 45.30 3.93
253 254 7.052873 TGTTACTAGTACCTCTAAGCAGTAGG 58.947 42.308 0.91 0.00 36.42 3.18
255 256 9.775854 CTATGTTACTAGTACCTCTAAGCAGTA 57.224 37.037 0.91 0.00 0.00 2.74
257 258 8.905660 TCTATGTTACTAGTACCTCTAAGCAG 57.094 38.462 0.91 0.00 0.00 4.24
258 259 8.492782 ACTCTATGTTACTAGTACCTCTAAGCA 58.507 37.037 0.91 0.00 0.00 3.91
259 260 8.907222 ACTCTATGTTACTAGTACCTCTAAGC 57.093 38.462 0.91 0.00 0.00 3.09
312 313 9.233649 GCAGTAATATGTCCATACTACTACTCT 57.766 37.037 7.80 0.00 35.04 3.24
313 314 9.233649 AGCAGTAATATGTCCATACTACTACTC 57.766 37.037 7.80 2.73 35.04 2.59
314 315 9.233649 GAGCAGTAATATGTCCATACTACTACT 57.766 37.037 7.89 7.89 35.04 2.57
315 316 9.233649 AGAGCAGTAATATGTCCATACTACTAC 57.766 37.037 7.80 3.87 35.04 2.73
317 318 9.983024 ATAGAGCAGTAATATGTCCATACTACT 57.017 33.333 3.30 3.30 36.95 2.57
319 320 9.755122 ACATAGAGCAGTAATATGTCCATACTA 57.245 33.333 0.00 0.00 35.72 1.82
320 321 8.526978 CACATAGAGCAGTAATATGTCCATACT 58.473 37.037 0.00 0.00 37.90 2.12
321 322 8.307483 ACACATAGAGCAGTAATATGTCCATAC 58.693 37.037 0.00 0.00 37.90 2.39
322 323 8.306761 CACACATAGAGCAGTAATATGTCCATA 58.693 37.037 0.00 0.00 37.90 2.74
323 324 7.157347 CACACATAGAGCAGTAATATGTCCAT 58.843 38.462 0.00 0.00 37.90 3.41
324 325 6.462909 CCACACATAGAGCAGTAATATGTCCA 60.463 42.308 0.00 0.00 37.90 4.02
325 326 5.928839 CCACACATAGAGCAGTAATATGTCC 59.071 44.000 0.00 0.00 37.90 4.02
326 327 6.516718 ACCACACATAGAGCAGTAATATGTC 58.483 40.000 0.00 0.00 37.90 3.06
330 331 7.560262 AGACTAACCACACATAGAGCAGTAATA 59.440 37.037 0.00 0.00 0.00 0.98
365 397 7.608761 GGACAACAACTAACCATAACCATCTAA 59.391 37.037 0.00 0.00 0.00 2.10
389 421 3.017442 TGATGTGTTGTTTTTGACCGGA 58.983 40.909 9.46 0.00 0.00 5.14
392 424 5.050837 GCATCTTGATGTGTTGTTTTTGACC 60.051 40.000 11.61 0.00 0.00 4.02
451 486 6.338214 TCACATGCTCTAGGTTCATATCTC 57.662 41.667 0.00 0.00 0.00 2.75
452 487 5.279406 GCTCACATGCTCTAGGTTCATATCT 60.279 44.000 0.00 0.00 0.00 1.98
453 488 4.928615 GCTCACATGCTCTAGGTTCATATC 59.071 45.833 0.00 0.00 0.00 1.63
454 489 4.592351 AGCTCACATGCTCTAGGTTCATAT 59.408 41.667 0.00 0.00 39.34 1.78
455 490 3.963374 AGCTCACATGCTCTAGGTTCATA 59.037 43.478 0.00 0.00 39.34 2.15
489 528 4.331717 GGACAACGACTAACCATAACCATG 59.668 45.833 0.00 0.00 0.00 3.66
490 529 4.510571 GGACAACGACTAACCATAACCAT 58.489 43.478 0.00 0.00 0.00 3.55
491 530 3.306919 GGGACAACGACTAACCATAACCA 60.307 47.826 0.00 0.00 0.00 3.67
492 531 3.264947 GGGACAACGACTAACCATAACC 58.735 50.000 0.00 0.00 0.00 2.85
493 532 2.925563 CGGGACAACGACTAACCATAAC 59.074 50.000 0.00 0.00 35.47 1.89
494 533 2.562298 ACGGGACAACGACTAACCATAA 59.438 45.455 0.00 0.00 37.61 1.90
495 534 2.164219 GACGGGACAACGACTAACCATA 59.836 50.000 0.00 0.00 37.61 2.74
496 535 0.971386 ACGGGACAACGACTAACCAT 59.029 50.000 0.00 0.00 37.61 3.55
497 536 0.314935 GACGGGACAACGACTAACCA 59.685 55.000 0.00 0.00 37.61 3.67
498 537 0.730494 CGACGGGACAACGACTAACC 60.730 60.000 0.00 0.00 37.61 2.85
499 538 0.238289 TCGACGGGACAACGACTAAC 59.762 55.000 0.00 0.00 37.61 2.34
500 539 0.950836 TTCGACGGGACAACGACTAA 59.049 50.000 0.00 0.00 35.64 2.24
501 540 0.950836 TTTCGACGGGACAACGACTA 59.049 50.000 0.00 0.00 35.64 2.59
502 541 0.102844 TTTTCGACGGGACAACGACT 59.897 50.000 0.00 0.00 35.64 4.18
503 542 0.230515 GTTTTCGACGGGACAACGAC 59.769 55.000 0.00 0.00 35.64 4.34
504 543 0.179116 TGTTTTCGACGGGACAACGA 60.179 50.000 0.00 0.00 38.00 3.85
505 544 0.651551 TTGTTTTCGACGGGACAACG 59.348 50.000 0.00 0.00 38.00 4.10
506 545 2.095384 GTTGTTTTCGACGGGACAAC 57.905 50.000 18.73 18.73 43.20 3.32
507 546 1.397692 GTGTTGTTTTCGACGGGACAA 59.602 47.619 0.00 1.40 37.03 3.18
508 547 1.008329 GTGTTGTTTTCGACGGGACA 58.992 50.000 0.00 0.00 37.03 4.02
509 548 1.008329 TGTGTTGTTTTCGACGGGAC 58.992 50.000 0.00 0.00 37.03 4.46
510 549 1.008329 GTGTGTTGTTTTCGACGGGA 58.992 50.000 0.00 0.00 37.03 5.14
511 550 0.028374 GGTGTGTTGTTTTCGACGGG 59.972 55.000 0.00 0.00 37.03 5.28
512 551 0.727970 TGGTGTGTTGTTTTCGACGG 59.272 50.000 0.00 0.00 37.03 4.79
513 552 2.094575 TCTTGGTGTGTTGTTTTCGACG 59.905 45.455 0.00 0.00 37.03 5.12
514 553 3.750639 TCTTGGTGTGTTGTTTTCGAC 57.249 42.857 0.00 0.00 34.91 4.20
515 554 3.488384 GCATCTTGGTGTGTTGTTTTCGA 60.488 43.478 0.00 0.00 0.00 3.71
516 555 2.788786 GCATCTTGGTGTGTTGTTTTCG 59.211 45.455 0.00 0.00 0.00 3.46
517 556 4.044426 GAGCATCTTGGTGTGTTGTTTTC 58.956 43.478 0.00 0.00 0.00 2.29
518 557 3.446873 TGAGCATCTTGGTGTGTTGTTTT 59.553 39.130 0.00 0.00 34.92 2.43
519 558 3.023119 TGAGCATCTTGGTGTGTTGTTT 58.977 40.909 0.00 0.00 34.92 2.83
520 559 2.653726 TGAGCATCTTGGTGTGTTGTT 58.346 42.857 0.00 0.00 34.92 2.83
521 560 2.346766 TGAGCATCTTGGTGTGTTGT 57.653 45.000 0.00 0.00 34.92 3.32
522 561 4.456911 ACTTATGAGCATCTTGGTGTGTTG 59.543 41.667 0.00 0.00 34.92 3.33
523 562 4.655963 ACTTATGAGCATCTTGGTGTGTT 58.344 39.130 0.00 0.00 34.92 3.32
524 563 4.292186 ACTTATGAGCATCTTGGTGTGT 57.708 40.909 0.00 0.00 34.92 3.72
525 564 4.272018 GCTACTTATGAGCATCTTGGTGTG 59.728 45.833 0.00 0.00 39.84 3.82
526 565 4.163078 AGCTACTTATGAGCATCTTGGTGT 59.837 41.667 0.00 0.00 42.69 4.16
527 566 4.510711 CAGCTACTTATGAGCATCTTGGTG 59.489 45.833 0.00 0.00 42.69 4.17
528 567 4.163078 ACAGCTACTTATGAGCATCTTGGT 59.837 41.667 0.00 0.00 42.69 3.67
529 568 4.701765 ACAGCTACTTATGAGCATCTTGG 58.298 43.478 0.00 0.00 42.69 3.61
530 569 7.776933 TTTACAGCTACTTATGAGCATCTTG 57.223 36.000 0.00 0.00 42.69 3.02
531 570 8.970859 AATTTACAGCTACTTATGAGCATCTT 57.029 30.769 0.00 0.00 42.69 2.40
532 571 8.970859 AAATTTACAGCTACTTATGAGCATCT 57.029 30.769 0.00 0.00 42.69 2.90
535 574 9.443323 TGTAAAATTTACAGCTACTTATGAGCA 57.557 29.630 13.93 0.00 42.69 4.26
547 586 9.651718 GCTCACATACTATGTAAAATTTACAGC 57.348 33.333 21.10 12.31 42.70 4.40
552 591 9.672673 AGACAGCTCACATACTATGTAAAATTT 57.327 29.630 1.19 0.00 42.70 1.82
553 592 9.102757 CAGACAGCTCACATACTATGTAAAATT 57.897 33.333 1.19 0.00 42.70 1.82
554 593 8.478066 TCAGACAGCTCACATACTATGTAAAAT 58.522 33.333 1.19 0.00 42.70 1.82
555 594 7.836842 TCAGACAGCTCACATACTATGTAAAA 58.163 34.615 1.19 0.00 42.70 1.52
556 595 7.404671 TCAGACAGCTCACATACTATGTAAA 57.595 36.000 1.19 0.00 42.70 2.01
557 596 7.588497 ATCAGACAGCTCACATACTATGTAA 57.412 36.000 1.19 0.00 42.70 2.41
558 597 7.588497 AATCAGACAGCTCACATACTATGTA 57.412 36.000 1.19 0.00 42.70 2.29
559 598 6.477053 AATCAGACAGCTCACATACTATGT 57.523 37.500 0.00 0.00 46.22 2.29
560 599 8.140628 AGTTAATCAGACAGCTCACATACTATG 58.859 37.037 0.00 0.00 0.00 2.23
561 600 8.243961 AGTTAATCAGACAGCTCACATACTAT 57.756 34.615 0.00 0.00 0.00 2.12
562 601 7.558081 AGAGTTAATCAGACAGCTCACATACTA 59.442 37.037 0.00 0.00 0.00 1.82
563 602 6.379703 AGAGTTAATCAGACAGCTCACATACT 59.620 38.462 0.00 0.00 0.00 2.12
564 603 6.568869 AGAGTTAATCAGACAGCTCACATAC 58.431 40.000 0.00 0.00 0.00 2.39
565 604 6.782082 AGAGTTAATCAGACAGCTCACATA 57.218 37.500 0.00 0.00 0.00 2.29
566 605 5.674052 AGAGTTAATCAGACAGCTCACAT 57.326 39.130 0.00 0.00 0.00 3.21
567 606 5.233225 CAAGAGTTAATCAGACAGCTCACA 58.767 41.667 0.00 0.00 0.00 3.58
568 607 4.629200 CCAAGAGTTAATCAGACAGCTCAC 59.371 45.833 0.00 0.00 0.00 3.51
569 608 4.284490 ACCAAGAGTTAATCAGACAGCTCA 59.716 41.667 0.00 0.00 0.00 4.26
570 609 4.826556 ACCAAGAGTTAATCAGACAGCTC 58.173 43.478 0.00 0.00 0.00 4.09
571 610 4.899352 ACCAAGAGTTAATCAGACAGCT 57.101 40.909 0.00 0.00 0.00 4.24
572 611 6.037610 CCATAACCAAGAGTTAATCAGACAGC 59.962 42.308 0.00 0.00 44.04 4.40
573 612 6.037610 GCCATAACCAAGAGTTAATCAGACAG 59.962 42.308 0.00 0.00 44.04 3.51
574 613 5.880332 GCCATAACCAAGAGTTAATCAGACA 59.120 40.000 0.00 0.00 44.04 3.41
575 614 5.880332 TGCCATAACCAAGAGTTAATCAGAC 59.120 40.000 0.00 0.00 44.04 3.51
576 615 6.061022 TGCCATAACCAAGAGTTAATCAGA 57.939 37.500 0.00 0.00 44.04 3.27
577 616 6.757897 TTGCCATAACCAAGAGTTAATCAG 57.242 37.500 0.00 0.00 44.04 2.90
578 617 6.096705 CCATTGCCATAACCAAGAGTTAATCA 59.903 38.462 0.00 0.00 44.04 2.57
579 618 6.096846 ACCATTGCCATAACCAAGAGTTAATC 59.903 38.462 0.00 0.00 44.04 1.75
580 619 5.957774 ACCATTGCCATAACCAAGAGTTAAT 59.042 36.000 0.00 0.00 44.04 1.40
581 620 5.329399 ACCATTGCCATAACCAAGAGTTAA 58.671 37.500 0.00 0.00 44.04 2.01
582 621 4.929479 ACCATTGCCATAACCAAGAGTTA 58.071 39.130 0.00 0.00 44.92 2.24
583 622 3.778265 ACCATTGCCATAACCAAGAGTT 58.222 40.909 0.00 0.00 42.83 3.01
584 623 3.456380 ACCATTGCCATAACCAAGAGT 57.544 42.857 0.00 0.00 0.00 3.24
585 624 4.949856 ACTAACCATTGCCATAACCAAGAG 59.050 41.667 0.00 0.00 0.00 2.85
588 627 4.020543 GGACTAACCATTGCCATAACCAA 58.979 43.478 0.00 0.00 38.79 3.67
610 696 1.666700 TGTTGTTTTCGACGGGACAAG 59.333 47.619 10.38 0.00 37.03 3.16
620 706 4.731000 TCTTGTTAATGCGTGTTGTTTTCG 59.269 37.500 0.00 0.00 0.00 3.46
727 1106 4.521062 GAGGCAGAGCACGGCGAT 62.521 66.667 16.62 0.00 38.05 4.58
1308 1699 3.050275 GGAACCGTGCTGACCTGC 61.050 66.667 0.00 0.00 0.00 4.85
1395 1790 1.747355 CCACCAGCCAATCAATCAGAC 59.253 52.381 0.00 0.00 0.00 3.51
1424 1823 2.358615 AGCACCTTCGCAATCGCA 60.359 55.556 0.00 0.00 38.40 5.10
1425 1824 2.099062 CAGCACCTTCGCAATCGC 59.901 61.111 0.00 0.00 35.26 4.58
1426 1825 1.699656 CTCCAGCACCTTCGCAATCG 61.700 60.000 0.00 0.00 0.00 3.34
1427 1826 1.986575 GCTCCAGCACCTTCGCAATC 61.987 60.000 0.00 0.00 41.59 2.67
1428 1827 2.042831 GCTCCAGCACCTTCGCAAT 61.043 57.895 0.00 0.00 41.59 3.56
1429 1828 2.669569 GCTCCAGCACCTTCGCAA 60.670 61.111 0.00 0.00 41.59 4.85
1583 1982 1.218585 CTCTGCTCTGCTCACCTGG 59.781 63.158 0.00 0.00 0.00 4.45
1590 1989 2.346739 GGTGTGCTCTGCTCTGCT 59.653 61.111 0.00 0.00 0.00 4.24
1591 1990 2.031616 TGGTGTGCTCTGCTCTGC 59.968 61.111 0.00 0.00 0.00 4.26
1592 1991 0.949588 CTGTGGTGTGCTCTGCTCTG 60.950 60.000 0.00 0.00 0.00 3.35
1593 1992 1.370437 CTGTGGTGTGCTCTGCTCT 59.630 57.895 0.00 0.00 0.00 4.09
1594 1993 0.533755 AACTGTGGTGTGCTCTGCTC 60.534 55.000 0.00 0.00 0.00 4.26
1608 2007 1.940613 GCACGTGGAGAAAGAAACTGT 59.059 47.619 18.88 0.00 0.00 3.55
1609 2008 1.264288 GGCACGTGGAGAAAGAAACTG 59.736 52.381 18.88 0.00 0.00 3.16
1659 2080 1.541233 CCTGCCGTGAAACAGAGAAGT 60.541 52.381 0.00 0.00 35.74 3.01
1660 2081 1.151668 CCTGCCGTGAAACAGAGAAG 58.848 55.000 0.00 0.00 35.74 2.85
1753 2174 1.517257 CGAGGATATCGCGATGCCC 60.517 63.158 31.05 27.51 45.98 5.36
1987 2408 0.456142 TCATCTTTCGTGAGCGGTCG 60.456 55.000 10.46 0.00 38.89 4.79
1988 2409 1.855360 GATCATCTTTCGTGAGCGGTC 59.145 52.381 7.89 7.89 38.89 4.79
1989 2410 1.204704 TGATCATCTTTCGTGAGCGGT 59.795 47.619 0.00 0.00 34.87 5.68
1991 2412 1.590238 GGTGATCATCTTTCGTGAGCG 59.410 52.381 0.00 0.00 34.87 5.03
1992 2413 2.898705 AGGTGATCATCTTTCGTGAGC 58.101 47.619 1.50 0.00 32.86 4.26
1993 2414 4.565962 CAGAAGGTGATCATCTTTCGTGAG 59.434 45.833 21.94 5.81 30.64 3.51
1994 2415 4.498241 CAGAAGGTGATCATCTTTCGTGA 58.502 43.478 21.94 0.00 30.64 4.35
1995 2416 3.620374 CCAGAAGGTGATCATCTTTCGTG 59.380 47.826 21.94 17.83 30.64 4.35
1997 2418 3.868077 GTCCAGAAGGTGATCATCTTTCG 59.132 47.826 21.94 15.22 30.64 3.46
1998 2419 4.874966 CAGTCCAGAAGGTGATCATCTTTC 59.125 45.833 21.94 14.54 30.64 2.62
1999 2420 4.533707 TCAGTCCAGAAGGTGATCATCTTT 59.466 41.667 21.94 9.65 30.64 2.52
2000 2421 4.099633 TCAGTCCAGAAGGTGATCATCTT 58.900 43.478 21.24 21.24 33.77 2.40
2017 2438 1.351350 AGCCCCCTAAACAGTTCAGTC 59.649 52.381 0.00 0.00 0.00 3.51
2021 2442 1.613520 GGTCAGCCCCCTAAACAGTTC 60.614 57.143 0.00 0.00 0.00 3.01
2033 2454 2.137177 TTGCCTACCAAGGTCAGCCC 62.137 60.000 9.98 0.00 45.64 5.19
2055 2476 0.033405 TTGAGCTCCGGCCTACTACT 60.033 55.000 12.15 0.00 39.73 2.57
2056 2477 0.822164 TTTGAGCTCCGGCCTACTAC 59.178 55.000 12.15 0.00 39.73 2.73
2058 2479 0.905337 ACTTTGAGCTCCGGCCTACT 60.905 55.000 12.15 0.00 39.73 2.57
2059 2480 0.036294 AACTTTGAGCTCCGGCCTAC 60.036 55.000 12.15 0.00 39.73 3.18
2065 2500 1.884235 AGTCCAAACTTTGAGCTCCG 58.116 50.000 12.15 2.07 28.74 4.63
2083 2518 1.133025 CGGCAGCCTTGTATTCCAAAG 59.867 52.381 10.54 0.00 31.20 2.77
2085 2520 0.326595 TCGGCAGCCTTGTATTCCAA 59.673 50.000 10.54 0.00 0.00 3.53
2104 2552 1.349026 AGCAATCAGTGTGTGGTAGCT 59.651 47.619 0.00 0.00 0.00 3.32
2109 2557 2.418976 CTCATCAGCAATCAGTGTGTGG 59.581 50.000 0.00 0.00 0.00 4.17
2246 2747 4.721776 ACTCCATTCCACCTATGCTAAGAA 59.278 41.667 0.00 0.00 0.00 2.52
2248 2749 4.696479 ACTCCATTCCACCTATGCTAAG 57.304 45.455 0.00 0.00 0.00 2.18
2250 2751 4.588951 CACTACTCCATTCCACCTATGCTA 59.411 45.833 0.00 0.00 0.00 3.49
2437 2948 7.524294 GTCACAAGACATTTTTCAAACACAT 57.476 32.000 0.00 0.00 44.34 3.21
2470 2981 3.958704 TGTTTTTCGAACGCATGACATT 58.041 36.364 0.00 0.00 0.00 2.71
2476 2987 3.475242 CGTACATGTTTTTCGAACGCAT 58.525 40.909 2.30 0.00 0.00 4.73
2483 2994 5.553692 AAATGTTGCGTACATGTTTTTCG 57.446 34.783 2.30 5.90 46.75 3.46
2529 3040 9.382275 ACTTTTTCTGATTACACAAGCATTTTT 57.618 25.926 0.00 0.00 27.85 1.94
2533 3044 7.379529 CGAAACTTTTTCTGATTACACAAGCAT 59.620 33.333 0.00 0.00 27.85 3.79
2536 3047 9.155053 GTACGAAACTTTTTCTGATTACACAAG 57.845 33.333 0.00 0.00 0.00 3.16
2537 3048 7.847078 CGTACGAAACTTTTTCTGATTACACAA 59.153 33.333 10.44 0.00 0.00 3.33
2538 3049 7.010367 ACGTACGAAACTTTTTCTGATTACACA 59.990 33.333 24.41 0.00 0.00 3.72
2539 3050 7.339953 ACGTACGAAACTTTTTCTGATTACAC 58.660 34.615 24.41 0.00 0.00 2.90
2546 3057 6.925600 TGTAGAACGTACGAAACTTTTTCTG 58.074 36.000 24.41 0.00 0.00 3.02
2575 3086 8.378172 TGAAACTCGTGAACATTTCTAGAAAT 57.622 30.769 22.43 22.43 41.33 2.17
2577 3088 7.780008 TTGAAACTCGTGAACATTTCTAGAA 57.220 32.000 0.00 0.00 33.21 2.10
2578 3089 7.780008 TTTGAAACTCGTGAACATTTCTAGA 57.220 32.000 0.00 0.00 33.21 2.43
2579 3090 8.835467 TTTTTGAAACTCGTGAACATTTCTAG 57.165 30.769 0.00 0.00 33.21 2.43
2580 3091 9.232082 CATTTTTGAAACTCGTGAACATTTCTA 57.768 29.630 0.00 0.00 33.21 2.10
2581 3092 7.759433 ACATTTTTGAAACTCGTGAACATTTCT 59.241 29.630 0.00 0.00 33.21 2.52
2582 3093 7.840797 CACATTTTTGAAACTCGTGAACATTTC 59.159 33.333 0.00 0.00 0.00 2.17
2605 3125 8.402472 AGATTTTTCTTAAATGTCGTGAACACA 58.598 29.630 5.80 0.00 41.75 3.72
2613 3133 8.060020 TGCACAAAGATTTTTCTTAAATGTCG 57.940 30.769 0.00 0.00 0.00 4.35
2672 3193 7.482743 CACGTTGGAACATTCTTTGAATGATAG 59.517 37.037 22.22 10.85 39.30 2.08
2680 3201 6.073276 TCAGATACACGTTGGAACATTCTTTG 60.073 38.462 0.00 0.00 39.30 2.77
2684 3205 5.856126 TTCAGATACACGTTGGAACATTC 57.144 39.130 0.00 0.00 39.30 2.67
2689 3210 6.627395 AACATTTTCAGATACACGTTGGAA 57.373 33.333 0.00 0.00 0.00 3.53
2694 3215 7.067116 CGTGTTAAACATTTTCAGATACACGT 58.933 34.615 13.76 0.00 46.39 4.49
2813 3335 4.957759 AACGTATGTTTTGATGGCTACC 57.042 40.909 0.00 0.00 33.53 3.18
2881 3404 8.994429 TTTCTTGTTTTCAACACATGTGTATT 57.006 26.923 30.75 14.59 44.13 1.89
2916 3439 9.554395 TTTTTCCTCAGTTTCTTTCTTGTTTTT 57.446 25.926 0.00 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.