Multiple sequence alignment - TraesCS1D01G265300

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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 TraesCS1D01G265300 chr1D 100.000 2585 0 0 1 2585 361117438 361114854 0.000000e+00 4774.0
1 TraesCS1D01G265300 chr1D 80.914 372 58 9 157 519 57921943 57921576 5.450000e-72 281.0
2 TraesCS1D01G265300 chr1D 81.407 199 36 1 157 354 403764344 403764146 7.400000e-36 161.0
3 TraesCS1D01G265300 chr1D 76.603 312 55 12 198 494 364067633 364067325 3.440000e-34 156.0
4 TraesCS1D01G265300 chr1B 91.847 1754 92 23 813 2545 483373922 483372199 0.000000e+00 2399.0
5 TraesCS1D01G265300 chr1A 89.120 1011 53 23 1588 2585 460676188 460675222 0.000000e+00 1205.0
6 TraesCS1D01G265300 chr1A 88.966 870 48 19 736 1588 460677212 460676374 0.000000e+00 1031.0
7 TraesCS1D01G265300 chr1A 77.622 715 117 27 3 681 460678267 460677560 6.700000e-106 394.0
8 TraesCS1D01G265300 chr1A 79.292 367 66 5 157 516 449845542 449845905 5.520000e-62 248.0
9 TraesCS1D01G265300 chr1A 74.659 367 81 9 157 516 285955718 285956079 4.460000e-33 152.0
10 TraesCS1D01G265300 chr1A 90.769 65 4 1 457 519 2840000 2839936 4.580000e-13 86.1
11 TraesCS1D01G265300 chr3D 91.781 219 18 0 1220 1438 245533787 245534005 3.230000e-79 305.0
12 TraesCS1D01G265300 chr3D 73.641 368 89 5 157 516 545638070 545638437 4.490000e-28 135.0
13 TraesCS1D01G265300 chr5D 78.747 367 70 5 157 516 348499589 348499954 3.320000e-59 239.0
14 TraesCS1D01G265300 chr2D 77.746 346 71 3 166 505 500361533 500361188 9.370000e-50 207.0
15 TraesCS1D01G265300 chr2D 76.503 366 67 8 157 516 178534947 178535299 5.680000e-42 182.0
16 TraesCS1D01G265300 chr2B 73.235 340 69 14 198 519 118848819 118848484 1.270000e-18 104.0
17 TraesCS1D01G265300 chr2B 78.947 133 23 5 206 335 33931949 33932079 4.580000e-13 86.1
18 TraesCS1D01G265300 chr7A 81.452 124 23 0 166 289 34099674 34099551 4.550000e-18 102.0


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 TraesCS1D01G265300 chr1D 361114854 361117438 2584 True 4774.000000 4774 100.000 1 2585 1 chr1D.!!$R2 2584
1 TraesCS1D01G265300 chr1B 483372199 483373922 1723 True 2399.000000 2399 91.847 813 2545 1 chr1B.!!$R1 1732
2 TraesCS1D01G265300 chr1A 460675222 460678267 3045 True 876.666667 1205 85.236 3 2585 3 chr1A.!!$R2 2582

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
467 474 0.037605 ACAAGGTTAAGCCGACTCCG 60.038 55.0 0.0 0.0 43.7 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2311 2884 0.034574 TAGCCACATCCGCATTTGGT 60.035 50.0 0.0 0.0 32.92 3.67 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
57 58 3.951775 AACCACAAGTTGTTGCTGAAA 57.048 38.095 5.57 0.00 37.29 2.69
106 107 5.452255 AGGATTGATAACTGGATGCATTGT 58.548 37.500 0.00 0.00 0.00 2.71
120 121 0.371301 CATTGTCGTGCGACTCCATG 59.629 55.000 22.54 17.32 44.80 3.66
128 129 2.105128 CGACTCCATGGAGCGACC 59.895 66.667 35.32 24.20 45.54 4.79
144 145 0.332972 GACCAGGGCAAGGGAATCTT 59.667 55.000 0.00 0.00 35.79 2.40
151 152 2.422945 GGGCAAGGGAATCTTCGGTTAT 60.423 50.000 0.00 0.00 32.41 1.89
154 155 5.070685 GGCAAGGGAATCTTCGGTTATTAT 58.929 41.667 0.00 0.00 32.41 1.28
155 156 5.048713 GGCAAGGGAATCTTCGGTTATTATG 60.049 44.000 0.00 0.00 32.41 1.90
156 157 5.048713 GCAAGGGAATCTTCGGTTATTATGG 60.049 44.000 0.00 0.00 32.41 2.74
157 158 5.242795 AGGGAATCTTCGGTTATTATGGG 57.757 43.478 0.00 0.00 0.00 4.00
158 159 4.663592 AGGGAATCTTCGGTTATTATGGGT 59.336 41.667 0.00 0.00 0.00 4.51
159 160 5.133830 AGGGAATCTTCGGTTATTATGGGTT 59.866 40.000 0.00 0.00 0.00 4.11
160 161 6.330778 AGGGAATCTTCGGTTATTATGGGTTA 59.669 38.462 0.00 0.00 0.00 2.85
161 162 6.653740 GGGAATCTTCGGTTATTATGGGTTAG 59.346 42.308 0.00 0.00 0.00 2.34
164 167 4.970640 TCTTCGGTTATTATGGGTTAGGGT 59.029 41.667 0.00 0.00 0.00 4.34
202 205 2.268920 GACGCTTGGGCAGATGGA 59.731 61.111 0.00 0.00 38.60 3.41
204 207 2.244117 GACGCTTGGGCAGATGGAGA 62.244 60.000 0.00 0.00 38.60 3.71
206 209 1.606531 GCTTGGGCAGATGGAGACT 59.393 57.895 0.00 0.00 38.54 3.24
208 211 1.202330 CTTGGGCAGATGGAGACTCT 58.798 55.000 1.74 0.00 0.00 3.24
230 233 5.523916 TCTTCTTCTTTGAGTTTGTCTTCCG 59.476 40.000 0.00 0.00 0.00 4.30
246 249 3.839432 CGGGCTCCGGTCCTTCTC 61.839 72.222 0.00 0.00 44.15 2.87
247 250 2.683933 GGGCTCCGGTCCTTCTCA 60.684 66.667 0.00 0.00 33.70 3.27
251 254 0.321996 GCTCCGGTCCTTCTCAAGTT 59.678 55.000 0.00 0.00 0.00 2.66
259 262 1.268899 TCCTTCTCAAGTTCGTCCGTC 59.731 52.381 0.00 0.00 0.00 4.79
279 282 4.753610 CGTCTGGATATAGTCAACGGAGTA 59.246 45.833 0.00 0.00 45.00 2.59
282 285 5.642491 TCTGGATATAGTCAACGGAGTATCG 59.358 44.000 0.00 0.00 45.00 2.92
285 288 0.659427 TAGTCAACGGAGTATCGGCG 59.341 55.000 0.00 0.00 45.00 6.46
293 296 1.534163 CGGAGTATCGGCGTAGATTCA 59.466 52.381 6.85 0.00 34.37 2.57
294 297 2.161808 CGGAGTATCGGCGTAGATTCAT 59.838 50.000 6.85 0.00 34.37 2.57
295 298 3.502920 GGAGTATCGGCGTAGATTCATG 58.497 50.000 6.85 0.00 34.37 3.07
300 303 2.690326 GGCGTAGATTCATGCCGTT 58.310 52.632 0.00 0.00 40.65 4.44
302 305 2.206750 GGCGTAGATTCATGCCGTTTA 58.793 47.619 0.00 0.00 40.65 2.01
313 317 1.873863 GCCGTTTACTTGGGCAGTC 59.126 57.895 0.00 0.00 46.13 3.51
320 324 4.332828 GTTTACTTGGGCAGTCAGGTTAT 58.667 43.478 0.00 0.00 36.88 1.89
328 332 3.421844 GGCAGTCAGGTTATGGTTTCTT 58.578 45.455 0.00 0.00 0.00 2.52
350 354 2.687935 GTCATGTGACAAGGTTTGGTGT 59.312 45.455 8.22 0.00 44.18 4.16
356 360 2.291282 TGACAAGGTTTGGTGTCAGGTT 60.291 45.455 2.48 0.00 46.97 3.50
357 361 2.357952 GACAAGGTTTGGTGTCAGGTTC 59.642 50.000 0.00 0.00 43.02 3.62
361 365 1.602377 GGTTTGGTGTCAGGTTCTTCG 59.398 52.381 0.00 0.00 0.00 3.79
364 368 0.391597 TGGTGTCAGGTTCTTCGGAC 59.608 55.000 0.00 0.00 0.00 4.79
384 388 3.575965 CCTATGCAAGGGTTCAACAAC 57.424 47.619 0.00 0.00 42.32 3.32
385 389 2.095263 CCTATGCAAGGGTTCAACAACG 60.095 50.000 0.00 0.00 42.32 4.10
388 392 0.736053 GCAAGGGTTCAACAACGACA 59.264 50.000 0.00 0.00 32.68 4.35
390 394 2.792749 CAAGGGTTCAACAACGACAAC 58.207 47.619 0.00 0.00 32.68 3.32
393 397 1.533129 GGGTTCAACAACGACAACTGC 60.533 52.381 0.00 0.00 32.68 4.40
395 399 0.375454 TTCAACAACGACAACTGCGG 59.625 50.000 0.00 0.00 0.00 5.69
398 402 1.772063 AACAACGACAACTGCGGCTC 61.772 55.000 0.00 0.00 0.00 4.70
403 407 4.335647 ACAACTGCGGCTCCAGGG 62.336 66.667 0.00 3.80 37.16 4.45
411 415 4.660938 GGCTCCAGGGCGTTGGTT 62.661 66.667 6.56 0.00 39.35 3.67
414 418 1.980052 CTCCAGGGCGTTGGTTCTA 59.020 57.895 6.56 0.00 39.35 2.10
416 420 0.323629 TCCAGGGCGTTGGTTCTAAG 59.676 55.000 6.56 0.00 39.35 2.18
417 421 1.305930 CCAGGGCGTTGGTTCTAAGC 61.306 60.000 0.00 0.00 33.38 3.09
418 422 0.605319 CAGGGCGTTGGTTCTAAGCA 60.605 55.000 0.00 0.00 34.10 3.91
419 423 0.605589 AGGGCGTTGGTTCTAAGCAC 60.606 55.000 0.00 0.00 35.94 4.40
420 424 0.887387 GGGCGTTGGTTCTAAGCACA 60.887 55.000 0.00 0.00 35.94 4.57
421 425 1.165270 GGCGTTGGTTCTAAGCACAT 58.835 50.000 0.00 0.00 35.94 3.21
422 426 1.135689 GGCGTTGGTTCTAAGCACATG 60.136 52.381 0.00 0.00 35.94 3.21
423 427 1.729149 GCGTTGGTTCTAAGCACATGC 60.729 52.381 0.00 0.00 42.49 4.06
424 428 1.535028 CGTTGGTTCTAAGCACATGCA 59.465 47.619 6.64 0.00 45.16 3.96
425 429 2.162208 CGTTGGTTCTAAGCACATGCAT 59.838 45.455 6.64 0.00 45.16 3.96
426 430 3.504863 GTTGGTTCTAAGCACATGCATG 58.495 45.455 25.09 25.09 45.16 4.06
427 431 2.794103 TGGTTCTAAGCACATGCATGT 58.206 42.857 26.61 26.61 45.16 3.21
438 445 3.515630 CACATGCATGTAGACTTCTCGT 58.484 45.455 30.92 1.90 39.39 4.18
439 446 4.672409 CACATGCATGTAGACTTCTCGTA 58.328 43.478 30.92 0.00 39.39 3.43
442 449 3.706698 TGCATGTAGACTTCTCGTATGC 58.293 45.455 12.09 12.09 37.28 3.14
455 462 1.206132 TCGTATGCCATCGACAAGGTT 59.794 47.619 0.00 0.00 0.00 3.50
458 465 3.245284 CGTATGCCATCGACAAGGTTAAG 59.755 47.826 0.00 0.00 0.00 1.85
467 474 0.037605 ACAAGGTTAAGCCGACTCCG 60.038 55.000 0.00 0.00 43.70 4.63
483 490 3.834799 CGGTAGGGGAGCGGTGAC 61.835 72.222 0.00 0.00 45.37 3.67
484 491 2.682494 GGTAGGGGAGCGGTGACA 60.682 66.667 0.00 0.00 0.00 3.58
486 493 3.075005 TAGGGGAGCGGTGACAGC 61.075 66.667 0.00 0.00 0.00 4.40
507 514 3.423154 GTCGGCGGCTTGTTCTGG 61.423 66.667 3.23 0.00 0.00 3.86
513 520 3.741476 GGCTTGTTCTGGCGGCAG 61.741 66.667 31.58 31.58 0.00 4.85
514 521 2.980233 GCTTGTTCTGGCGGCAGT 60.980 61.111 34.57 0.00 0.00 4.40
515 522 1.671054 GCTTGTTCTGGCGGCAGTA 60.671 57.895 34.57 25.28 0.00 2.74
516 523 1.912371 GCTTGTTCTGGCGGCAGTAC 61.912 60.000 32.63 32.63 0.00 2.73
517 524 0.320771 CTTGTTCTGGCGGCAGTACT 60.321 55.000 36.14 0.00 0.00 2.73
518 525 0.602638 TTGTTCTGGCGGCAGTACTG 60.603 55.000 36.14 18.93 0.00 2.74
534 541 3.832490 AGTACTGCAGTAGTGGTCATTCA 59.168 43.478 29.23 3.43 40.65 2.57
541 548 3.259374 CAGTAGTGGTCATTCAGTGGTCT 59.741 47.826 0.00 0.00 0.00 3.85
543 550 1.273606 AGTGGTCATTCAGTGGTCTCG 59.726 52.381 0.00 0.00 0.00 4.04
544 551 1.272490 GTGGTCATTCAGTGGTCTCGA 59.728 52.381 0.00 0.00 0.00 4.04
545 552 1.967779 TGGTCATTCAGTGGTCTCGAA 59.032 47.619 0.00 0.00 0.00 3.71
546 553 2.029020 TGGTCATTCAGTGGTCTCGAAG 60.029 50.000 0.00 0.00 0.00 3.79
548 555 3.192844 GGTCATTCAGTGGTCTCGAAGTA 59.807 47.826 0.00 0.00 0.00 2.24
550 557 5.411781 GTCATTCAGTGGTCTCGAAGTATT 58.588 41.667 0.00 0.00 0.00 1.89
551 558 5.289675 GTCATTCAGTGGTCTCGAAGTATTG 59.710 44.000 0.00 0.00 0.00 1.90
575 611 8.740123 TGAGTACTTCCAATGAACTTTTACAA 57.260 30.769 0.00 0.00 0.00 2.41
603 641 3.297830 AATCTTTTTCGCGGAAAAGGG 57.702 42.857 38.80 23.84 43.49 3.95
607 645 1.400737 TTTTCGCGGAAAAGGGGAAA 58.599 45.000 10.86 0.00 42.31 3.13
616 654 2.092968 GGAAAAGGGGAAATTGATGGCC 60.093 50.000 0.00 0.00 0.00 5.36
619 657 3.774842 AAGGGGAAATTGATGGCCTTA 57.225 42.857 3.32 0.00 0.00 2.69
620 658 3.032265 AGGGGAAATTGATGGCCTTAC 57.968 47.619 3.32 0.00 0.00 2.34
621 659 2.314549 AGGGGAAATTGATGGCCTTACA 59.685 45.455 3.32 0.00 0.00 2.41
622 660 2.695147 GGGGAAATTGATGGCCTTACAG 59.305 50.000 3.32 0.00 0.00 2.74
623 661 2.101415 GGGAAATTGATGGCCTTACAGC 59.899 50.000 3.32 0.00 0.00 4.40
624 662 3.026694 GGAAATTGATGGCCTTACAGCT 58.973 45.455 3.32 0.00 0.00 4.24
625 663 3.448660 GGAAATTGATGGCCTTACAGCTT 59.551 43.478 3.32 0.00 0.00 3.74
627 665 1.838112 TTGATGGCCTTACAGCTTGG 58.162 50.000 3.32 0.00 0.00 3.61
628 666 0.991146 TGATGGCCTTACAGCTTGGA 59.009 50.000 3.32 0.00 0.00 3.53
629 667 1.065199 TGATGGCCTTACAGCTTGGAG 60.065 52.381 3.32 0.00 0.00 3.86
630 668 0.257039 ATGGCCTTACAGCTTGGAGG 59.743 55.000 3.32 2.35 0.00 4.30
632 670 1.077429 GCCTTACAGCTTGGAGGGG 60.077 63.158 7.83 0.00 0.00 4.79
642 682 0.250901 CTTGGAGGGGTTGGTGTCAG 60.251 60.000 0.00 0.00 0.00 3.51
643 683 0.696143 TTGGAGGGGTTGGTGTCAGA 60.696 55.000 0.00 0.00 0.00 3.27
654 694 2.229792 TGGTGTCAGAAAGGATTGCAC 58.770 47.619 0.00 0.00 0.00 4.57
657 697 2.290641 GTGTCAGAAAGGATTGCACGTT 59.709 45.455 0.00 0.00 0.00 3.99
658 698 2.290367 TGTCAGAAAGGATTGCACGTTG 59.710 45.455 0.00 0.00 0.00 4.10
670 710 0.388520 GCACGTTGGCTCCCATTTTC 60.389 55.000 0.00 0.00 31.53 2.29
674 714 1.202348 CGTTGGCTCCCATTTTCCTTC 59.798 52.381 0.00 0.00 31.53 3.46
675 715 1.550524 GTTGGCTCCCATTTTCCTTCC 59.449 52.381 0.00 0.00 31.53 3.46
687 1028 5.348164 CATTTTCCTTCCGTTTTGAACAGT 58.652 37.500 0.00 0.00 0.00 3.55
689 1030 4.364415 TTCCTTCCGTTTTGAACAGTTG 57.636 40.909 0.00 0.00 0.00 3.16
690 1031 3.349022 TCCTTCCGTTTTGAACAGTTGT 58.651 40.909 0.00 0.00 0.00 3.32
695 1036 3.001838 TCCGTTTTGAACAGTTGTCATCG 59.998 43.478 0.00 0.00 0.00 3.84
697 1038 4.319477 CCGTTTTGAACAGTTGTCATCGAT 60.319 41.667 0.00 0.00 0.00 3.59
701 1042 7.547119 GTTTTGAACAGTTGTCATCGATTTTC 58.453 34.615 0.00 0.00 0.00 2.29
703 1044 5.989249 TGAACAGTTGTCATCGATTTTCAG 58.011 37.500 0.00 0.00 0.00 3.02
707 1048 7.206981 ACAGTTGTCATCGATTTTCAGATTT 57.793 32.000 0.00 0.00 0.00 2.17
708 1049 7.651808 ACAGTTGTCATCGATTTTCAGATTTT 58.348 30.769 0.00 0.00 0.00 1.82
709 1050 7.805071 ACAGTTGTCATCGATTTTCAGATTTTC 59.195 33.333 0.00 0.00 0.00 2.29
710 1051 7.804600 CAGTTGTCATCGATTTTCAGATTTTCA 59.195 33.333 0.00 0.00 0.00 2.69
711 1052 8.352201 AGTTGTCATCGATTTTCAGATTTTCAA 58.648 29.630 0.00 0.00 0.00 2.69
712 1053 8.420189 GTTGTCATCGATTTTCAGATTTTCAAC 58.580 33.333 0.00 0.00 0.00 3.18
713 1054 7.647228 TGTCATCGATTTTCAGATTTTCAACA 58.353 30.769 0.00 0.00 0.00 3.33
714 1055 7.591057 TGTCATCGATTTTCAGATTTTCAACAC 59.409 33.333 0.00 0.00 0.00 3.32
715 1056 7.591057 GTCATCGATTTTCAGATTTTCAACACA 59.409 33.333 0.00 0.00 0.00 3.72
716 1057 8.298854 TCATCGATTTTCAGATTTTCAACACAT 58.701 29.630 0.00 0.00 0.00 3.21
717 1058 9.558648 CATCGATTTTCAGATTTTCAACACATA 57.441 29.630 0.00 0.00 0.00 2.29
750 1098 2.030540 TGTTGCTCAGAATTGAAGCTGC 60.031 45.455 0.00 0.00 31.69 5.25
752 1100 1.538512 TGCTCAGAATTGAAGCTGCAC 59.461 47.619 0.00 0.00 29.13 4.57
754 1102 2.434428 CTCAGAATTGAAGCTGCACCT 58.566 47.619 0.00 0.00 31.69 4.00
758 1106 3.503363 CAGAATTGAAGCTGCACCTACAA 59.497 43.478 0.00 1.23 0.00 2.41
777 1125 1.739067 AGGTGCTGCCGAGAAAATAC 58.261 50.000 0.00 0.00 43.70 1.89
778 1126 1.279271 AGGTGCTGCCGAGAAAATACT 59.721 47.619 0.00 0.00 43.70 2.12
781 1129 3.877508 GGTGCTGCCGAGAAAATACTATT 59.122 43.478 0.00 0.00 0.00 1.73
820 1177 9.734984 AAACAGCATAAATTACTAGTAGTTGGT 57.265 29.630 8.40 2.25 0.00 3.67
843 1200 4.522405 TGTCACGATGGGATTTTGAACATT 59.478 37.500 0.00 0.00 0.00 2.71
849 1206 5.801947 CGATGGGATTTTGAACATTGACTTC 59.198 40.000 0.00 0.00 0.00 3.01
888 1245 3.120649 CCGACGGTTGACTCTCATTTTTC 60.121 47.826 5.48 0.00 0.00 2.29
911 1275 4.558226 ACAGACAATCATCCAAGCTGTA 57.442 40.909 0.00 0.00 33.78 2.74
950 1315 3.148412 CAAGAACACACACCATGGATGA 58.852 45.455 21.47 0.00 0.00 2.92
951 1316 3.726557 AGAACACACACCATGGATGAT 57.273 42.857 21.47 5.66 0.00 2.45
952 1317 3.349927 AGAACACACACCATGGATGATG 58.650 45.455 21.47 17.02 0.00 3.07
973 1338 2.789917 GCATCCAGCAACTCAGCG 59.210 61.111 0.00 0.00 44.79 5.18
994 1365 2.866762 GTTATCACCACATCTTCTCGCC 59.133 50.000 0.00 0.00 0.00 5.54
1024 1395 4.214383 CGCCTCATCGTGCAAGCG 62.214 66.667 0.00 0.00 37.39 4.68
1256 1630 2.125633 GTCCTTCGGGTTCGGCTC 60.126 66.667 0.00 0.00 36.95 4.70
1590 2150 0.830444 ACGTCCTCCACTAGCAACCA 60.830 55.000 0.00 0.00 0.00 3.67
1720 2286 1.467374 CCGAATCCCGAACATTTGTGC 60.467 52.381 0.00 0.00 41.76 4.57
1807 2380 3.181433 CCTAAAGTTGGGTTCCTCTTGGT 60.181 47.826 0.00 0.00 34.23 3.67
1875 2448 7.601856 ACAACAAAAGAACAACAGATCAGAAA 58.398 30.769 0.00 0.00 0.00 2.52
1876 2449 7.542130 ACAACAAAAGAACAACAGATCAGAAAC 59.458 33.333 0.00 0.00 0.00 2.78
2094 2667 1.450312 CGGGCACACCTTCATCTCC 60.450 63.158 0.00 0.00 36.97 3.71
2229 2802 0.179018 AGTTCCAGGCTTTCGCAAGT 60.179 50.000 0.00 0.00 38.10 3.16
2244 2817 0.954452 CAAGTGTGAAGCCCCTGAAC 59.046 55.000 0.00 0.00 0.00 3.18
2257 2830 3.077359 CCCCTGAACAAAGTGTCATCTC 58.923 50.000 0.00 0.00 0.00 2.75
2285 2858 4.081322 TGTCTTGGAAGTGGGAAAGTAC 57.919 45.455 0.00 0.00 0.00 2.73
2292 2865 2.271944 AGTGGGAAAGTACAAGGCAC 57.728 50.000 0.00 0.00 0.00 5.01
2293 2866 1.202891 AGTGGGAAAGTACAAGGCACC 60.203 52.381 0.00 0.00 0.00 5.01
2294 2867 0.847373 TGGGAAAGTACAAGGCACCA 59.153 50.000 0.00 0.00 0.00 4.17
2295 2868 1.215673 TGGGAAAGTACAAGGCACCAA 59.784 47.619 0.00 0.00 0.00 3.67
2296 2869 2.158385 TGGGAAAGTACAAGGCACCAAT 60.158 45.455 0.00 0.00 0.00 3.16
2297 2870 2.231235 GGGAAAGTACAAGGCACCAATG 59.769 50.000 0.00 0.00 0.00 2.82
2298 2871 3.153919 GGAAAGTACAAGGCACCAATGA 58.846 45.455 0.00 0.00 0.00 2.57
2299 2872 3.191371 GGAAAGTACAAGGCACCAATGAG 59.809 47.826 0.00 0.00 0.00 2.90
2300 2873 2.496899 AGTACAAGGCACCAATGAGG 57.503 50.000 0.00 0.00 45.67 3.86
2301 2874 1.985159 AGTACAAGGCACCAATGAGGA 59.015 47.619 0.00 0.00 41.22 3.71
2302 2875 2.578021 AGTACAAGGCACCAATGAGGAT 59.422 45.455 0.00 0.00 41.22 3.24
2303 2876 1.843368 ACAAGGCACCAATGAGGATG 58.157 50.000 0.00 0.00 41.22 3.51
2304 2877 1.076024 ACAAGGCACCAATGAGGATGT 59.924 47.619 0.00 0.00 41.22 3.06
2305 2878 1.475280 CAAGGCACCAATGAGGATGTG 59.525 52.381 0.00 0.00 41.22 3.21
2306 2879 0.994247 AGGCACCAATGAGGATGTGA 59.006 50.000 0.00 0.00 41.22 3.58
2307 2880 1.567649 AGGCACCAATGAGGATGTGAT 59.432 47.619 0.00 0.00 41.22 3.06
2308 2881 2.024655 AGGCACCAATGAGGATGTGATT 60.025 45.455 0.00 0.00 41.22 2.57
2309 2882 2.360165 GGCACCAATGAGGATGTGATTC 59.640 50.000 0.00 0.00 41.22 2.52
2310 2883 3.018856 GCACCAATGAGGATGTGATTCA 58.981 45.455 0.00 0.00 41.22 2.57
2311 2884 3.444742 GCACCAATGAGGATGTGATTCAA 59.555 43.478 0.00 0.00 41.22 2.69
2312 2885 4.676196 GCACCAATGAGGATGTGATTCAAC 60.676 45.833 0.00 0.00 41.22 3.18
2320 2893 3.119388 AGGATGTGATTCAACCAAATGCG 60.119 43.478 8.00 0.00 40.80 4.73
2329 2902 0.899717 AACCAAATGCGGATGTGGCT 60.900 50.000 24.88 11.30 40.41 4.75
2332 2906 1.667236 CAAATGCGGATGTGGCTAGA 58.333 50.000 0.00 0.00 0.00 2.43
2336 2910 2.820059 TGCGGATGTGGCTAGATAAG 57.180 50.000 0.00 0.00 0.00 1.73
2515 3089 6.391227 TCATCACTAATCTGCACGAGATAA 57.609 37.500 0.00 0.00 40.89 1.75
2523 3097 2.488937 TCTGCACGAGATAACACGGTTA 59.511 45.455 0.00 0.00 34.68 2.85
2530 3104 5.403166 CACGAGATAACACGGTTAGTTTTCA 59.597 40.000 0.00 0.00 34.68 2.69
2531 3105 6.090358 CACGAGATAACACGGTTAGTTTTCAT 59.910 38.462 0.00 0.00 34.68 2.57
2532 3106 6.309737 ACGAGATAACACGGTTAGTTTTCATC 59.690 38.462 0.00 0.00 34.68 2.92
2533 3107 6.309494 CGAGATAACACGGTTAGTTTTCATCA 59.691 38.462 0.00 0.00 31.90 3.07
2535 3109 7.803724 AGATAACACGGTTAGTTTTCATCAAC 58.196 34.615 0.00 0.00 31.90 3.18
2536 3110 5.821516 AACACGGTTAGTTTTCATCAACA 57.178 34.783 0.00 0.00 0.00 3.33
2537 3111 5.164606 ACACGGTTAGTTTTCATCAACAC 57.835 39.130 0.00 0.00 0.00 3.32
2538 3112 4.636648 ACACGGTTAGTTTTCATCAACACA 59.363 37.500 0.00 0.00 0.00 3.72
2539 3113 5.124138 ACACGGTTAGTTTTCATCAACACAA 59.876 36.000 0.00 0.00 0.00 3.33
2584 3158 9.631452 AATAGAGTACTAAAACCGTAAGTTGAC 57.369 33.333 0.00 0.00 39.19 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.280356 TCTAAGCAAACCTACAATTATCCTCC 58.720 38.462 0.00 0.00 0.00 4.30
1 2 8.732746 TTCTAAGCAAACCTACAATTATCCTC 57.267 34.615 0.00 0.00 0.00 3.71
12 13 8.911918 TGTAGTTTCAATTCTAAGCAAACCTA 57.088 30.769 0.00 0.00 0.00 3.08
14 15 7.381408 GGTTGTAGTTTCAATTCTAAGCAAACC 59.619 37.037 0.00 0.00 0.00 3.27
78 79 7.333528 TGCATCCAGTTATCAATCCTAAAAC 57.666 36.000 0.00 0.00 0.00 2.43
84 85 5.561532 CGACAATGCATCCAGTTATCAATCC 60.562 44.000 0.00 0.00 0.00 3.01
85 86 5.008019 ACGACAATGCATCCAGTTATCAATC 59.992 40.000 0.00 0.00 0.00 2.67
94 95 1.061411 CGCACGACAATGCATCCAG 59.939 57.895 0.00 0.00 46.47 3.86
98 99 1.361668 GGAGTCGCACGACAATGCAT 61.362 55.000 23.59 0.00 46.47 3.96
106 107 2.885113 CTCCATGGAGTCGCACGA 59.115 61.111 30.55 0.00 37.47 4.35
120 121 4.785453 CCTTGCCCTGGTCGCTCC 62.785 72.222 0.00 0.00 0.00 4.70
128 129 0.749454 CCGAAGATTCCCTTGCCCTG 60.749 60.000 0.00 0.00 34.68 4.45
144 145 5.713760 AAACCCTAACCCATAATAACCGA 57.286 39.130 0.00 0.00 0.00 4.69
188 191 0.463474 GAGTCTCCATCTGCCCAAGC 60.463 60.000 0.00 0.00 40.48 4.01
191 194 1.198713 GAAGAGTCTCCATCTGCCCA 58.801 55.000 0.00 0.00 0.00 5.36
194 197 4.470334 AAGAAGAAGAGTCTCCATCTGC 57.530 45.455 6.55 5.17 30.70 4.26
196 199 5.779771 ACTCAAAGAAGAAGAGTCTCCATCT 59.220 40.000 0.00 0.00 38.13 2.90
202 205 6.883744 AGACAAACTCAAAGAAGAAGAGTCT 58.116 36.000 0.00 0.00 41.45 3.24
204 207 6.540551 GGAAGACAAACTCAAAGAAGAAGAGT 59.459 38.462 0.00 0.00 43.98 3.24
206 209 5.523916 CGGAAGACAAACTCAAAGAAGAAGA 59.476 40.000 0.00 0.00 0.00 2.87
208 211 4.574828 CCGGAAGACAAACTCAAAGAAGAA 59.425 41.667 0.00 0.00 0.00 2.52
230 233 2.245438 CTTGAGAAGGACCGGAGCCC 62.245 65.000 9.46 6.29 0.00 5.19
238 241 1.000496 ACGGACGAACTTGAGAAGGAC 60.000 52.381 0.00 0.00 0.00 3.85
241 244 2.320367 CAGACGGACGAACTTGAGAAG 58.680 52.381 0.00 0.00 0.00 2.85
243 246 0.596577 CCAGACGGACGAACTTGAGA 59.403 55.000 0.00 0.00 0.00 3.27
246 249 2.933495 TATCCAGACGGACGAACTTG 57.067 50.000 0.00 0.00 46.79 3.16
247 250 4.205587 ACTATATCCAGACGGACGAACTT 58.794 43.478 0.00 0.00 46.79 2.66
251 254 3.480505 TGACTATATCCAGACGGACGA 57.519 47.619 0.00 0.00 46.79 4.20
259 262 5.163744 CCGATACTCCGTTGACTATATCCAG 60.164 48.000 0.00 0.00 0.00 3.86
264 267 2.481568 CGCCGATACTCCGTTGACTATA 59.518 50.000 0.00 0.00 0.00 1.31
265 268 1.266175 CGCCGATACTCCGTTGACTAT 59.734 52.381 0.00 0.00 0.00 2.12
270 273 0.659427 TCTACGCCGATACTCCGTTG 59.341 55.000 0.00 0.00 36.51 4.10
271 274 1.602311 ATCTACGCCGATACTCCGTT 58.398 50.000 0.00 0.00 36.51 4.44
279 282 3.217242 GGCATGAATCTACGCCGAT 57.783 52.632 0.00 0.00 34.26 4.18
282 285 1.014352 AAACGGCATGAATCTACGCC 58.986 50.000 0.00 0.00 41.30 5.68
285 288 4.035208 CCCAAGTAAACGGCATGAATCTAC 59.965 45.833 0.00 0.00 0.00 2.59
295 298 0.887387 TGACTGCCCAAGTAAACGGC 60.887 55.000 0.00 0.00 40.07 5.68
298 301 2.271944 ACCTGACTGCCCAAGTAAAC 57.728 50.000 0.00 0.00 40.07 2.01
300 303 3.308117 CCATAACCTGACTGCCCAAGTAA 60.308 47.826 0.00 0.00 40.07 2.24
302 305 1.004745 CCATAACCTGACTGCCCAAGT 59.995 52.381 0.00 0.00 43.85 3.16
310 314 5.304686 TGACAAGAAACCATAACCTGACT 57.695 39.130 0.00 0.00 0.00 3.41
313 317 5.473162 TCACATGACAAGAAACCATAACCTG 59.527 40.000 0.00 0.00 0.00 4.00
339 343 3.288092 GAAGAACCTGACACCAAACCTT 58.712 45.455 0.00 0.00 0.00 3.50
342 346 1.602377 CCGAAGAACCTGACACCAAAC 59.398 52.381 0.00 0.00 0.00 2.93
346 350 0.320508 GGTCCGAAGAACCTGACACC 60.321 60.000 0.00 0.00 25.38 4.16
356 360 0.830648 CCCTTGCATAGGTCCGAAGA 59.169 55.000 12.18 0.00 43.07 2.87
357 361 0.541863 ACCCTTGCATAGGTCCGAAG 59.458 55.000 12.18 0.00 43.07 3.79
361 365 2.092323 GTTGAACCCTTGCATAGGTCC 58.908 52.381 8.51 0.00 43.07 4.46
364 368 2.095263 CGTTGTTGAACCCTTGCATAGG 60.095 50.000 7.69 7.69 44.33 2.57
381 385 2.551270 GAGCCGCAGTTGTCGTTG 59.449 61.111 0.00 0.00 0.00 4.10
382 386 2.665185 GGAGCCGCAGTTGTCGTT 60.665 61.111 0.00 0.00 0.00 3.85
384 388 3.114616 CTGGAGCCGCAGTTGTCG 61.115 66.667 0.00 0.00 0.00 4.35
385 389 2.743928 CCTGGAGCCGCAGTTGTC 60.744 66.667 0.00 0.00 0.00 3.18
395 399 2.180159 TAGAACCAACGCCCTGGAGC 62.180 60.000 5.74 0.00 38.96 4.70
398 402 1.305930 GCTTAGAACCAACGCCCTGG 61.306 60.000 0.00 0.00 42.68 4.45
403 407 1.729149 GCATGTGCTTAGAACCAACGC 60.729 52.381 0.00 0.00 38.21 4.84
406 410 3.156293 ACATGCATGTGCTTAGAACCAA 58.844 40.909 30.92 0.00 40.03 3.67
411 415 4.743057 AGTCTACATGCATGTGCTTAGA 57.257 40.909 36.72 28.36 41.89 2.10
414 418 3.937706 GAGAAGTCTACATGCATGTGCTT 59.062 43.478 36.72 32.31 41.89 3.91
416 420 2.283617 CGAGAAGTCTACATGCATGTGC 59.716 50.000 36.72 26.07 41.89 4.57
417 421 3.515630 ACGAGAAGTCTACATGCATGTG 58.484 45.455 36.72 26.36 41.89 3.21
418 422 3.876274 ACGAGAAGTCTACATGCATGT 57.124 42.857 33.20 33.20 44.48 3.21
419 423 4.149571 GCATACGAGAAGTCTACATGCATG 59.850 45.833 25.09 25.09 35.91 4.06
420 424 4.302455 GCATACGAGAAGTCTACATGCAT 58.698 43.478 12.77 0.00 35.91 3.96
421 425 3.490933 GGCATACGAGAAGTCTACATGCA 60.491 47.826 16.73 0.00 36.77 3.96
422 426 3.053455 GGCATACGAGAAGTCTACATGC 58.947 50.000 10.57 10.57 35.49 4.06
423 427 4.307443 TGGCATACGAGAAGTCTACATG 57.693 45.455 0.00 0.00 0.00 3.21
424 428 4.320567 CGATGGCATACGAGAAGTCTACAT 60.321 45.833 0.00 0.00 0.00 2.29
425 429 3.003378 CGATGGCATACGAGAAGTCTACA 59.997 47.826 0.00 0.00 0.00 2.74
426 430 3.250280 TCGATGGCATACGAGAAGTCTAC 59.750 47.826 14.90 0.00 34.49 2.59
427 431 3.250280 GTCGATGGCATACGAGAAGTCTA 59.750 47.826 17.94 0.00 39.16 2.59
438 445 3.202906 GCTTAACCTTGTCGATGGCATA 58.797 45.455 0.00 0.00 0.00 3.14
439 446 2.017049 GCTTAACCTTGTCGATGGCAT 58.983 47.619 0.00 0.00 0.00 4.40
442 449 1.006832 CGGCTTAACCTTGTCGATGG 58.993 55.000 0.00 0.00 35.61 3.51
467 474 2.682494 TGTCACCGCTCCCCTACC 60.682 66.667 0.00 0.00 0.00 3.18
512 519 3.832490 TGAATGACCACTACTGCAGTACT 59.168 43.478 22.67 11.21 34.98 2.73
513 520 4.177026 CTGAATGACCACTACTGCAGTAC 58.823 47.826 22.67 12.89 34.98 2.73
514 521 3.832490 ACTGAATGACCACTACTGCAGTA 59.168 43.478 24.63 24.63 34.98 2.74
515 522 2.634940 ACTGAATGACCACTACTGCAGT 59.365 45.455 25.12 25.12 38.32 4.40
516 523 2.998670 CACTGAATGACCACTACTGCAG 59.001 50.000 13.48 13.48 0.00 4.41
517 524 2.289631 CCACTGAATGACCACTACTGCA 60.290 50.000 0.00 0.00 0.00 4.41
518 525 2.289694 ACCACTGAATGACCACTACTGC 60.290 50.000 0.00 0.00 0.00 4.40
519 526 3.259374 AGACCACTGAATGACCACTACTG 59.741 47.826 0.00 0.00 0.00 2.74
520 527 3.511477 AGACCACTGAATGACCACTACT 58.489 45.455 0.00 0.00 0.00 2.57
534 541 5.254901 AGTACTCAATACTTCGAGACCACT 58.745 41.667 0.00 0.00 41.71 4.00
545 552 9.574516 AAAAGTTCATTGGAAGTACTCAATACT 57.425 29.630 8.93 7.75 46.75 2.12
548 555 9.349713 TGTAAAAGTTCATTGGAAGTACTCAAT 57.650 29.630 0.00 0.00 35.63 2.57
550 557 8.740123 TTGTAAAAGTTCATTGGAAGTACTCA 57.260 30.769 0.00 0.00 35.63 3.41
575 611 8.433421 TTTTCCGCGAAAAAGATTAGATCTAT 57.567 30.769 8.23 0.00 38.37 1.98
583 619 2.029380 CCCCTTTTCCGCGAAAAAGATT 60.029 45.455 29.03 0.00 45.12 2.40
592 628 0.885196 TCAATTTCCCCTTTTCCGCG 59.115 50.000 0.00 0.00 0.00 6.46
595 631 2.092968 GGCCATCAATTTCCCCTTTTCC 60.093 50.000 0.00 0.00 0.00 3.13
603 641 3.026694 AGCTGTAAGGCCATCAATTTCC 58.973 45.455 5.01 0.00 0.00 3.13
607 645 2.025037 TCCAAGCTGTAAGGCCATCAAT 60.025 45.455 5.01 0.00 0.00 2.57
616 654 1.614317 CCAACCCCTCCAAGCTGTAAG 60.614 57.143 0.00 0.00 0.00 2.34
619 657 2.084930 ACCAACCCCTCCAAGCTGT 61.085 57.895 0.00 0.00 0.00 4.40
620 658 1.604593 CACCAACCCCTCCAAGCTG 60.605 63.158 0.00 0.00 0.00 4.24
621 659 2.069165 GACACCAACCCCTCCAAGCT 62.069 60.000 0.00 0.00 0.00 3.74
622 660 1.603739 GACACCAACCCCTCCAAGC 60.604 63.158 0.00 0.00 0.00 4.01
623 661 0.250901 CTGACACCAACCCCTCCAAG 60.251 60.000 0.00 0.00 0.00 3.61
624 662 0.696143 TCTGACACCAACCCCTCCAA 60.696 55.000 0.00 0.00 0.00 3.53
625 663 0.696143 TTCTGACACCAACCCCTCCA 60.696 55.000 0.00 0.00 0.00 3.86
627 665 1.545651 CCTTTCTGACACCAACCCCTC 60.546 57.143 0.00 0.00 0.00 4.30
628 666 0.478507 CCTTTCTGACACCAACCCCT 59.521 55.000 0.00 0.00 0.00 4.79
629 667 0.476771 TCCTTTCTGACACCAACCCC 59.523 55.000 0.00 0.00 0.00 4.95
630 668 2.558359 CAATCCTTTCTGACACCAACCC 59.442 50.000 0.00 0.00 0.00 4.11
632 670 2.622942 TGCAATCCTTTCTGACACCAAC 59.377 45.455 0.00 0.00 0.00 3.77
642 682 0.598065 AGCCAACGTGCAATCCTTTC 59.402 50.000 0.36 0.00 0.00 2.62
643 683 0.598065 GAGCCAACGTGCAATCCTTT 59.402 50.000 0.36 0.00 0.00 3.11
654 694 1.202348 GAAGGAAAATGGGAGCCAACG 59.798 52.381 0.00 0.00 36.95 4.10
657 697 0.323360 CGGAAGGAAAATGGGAGCCA 60.323 55.000 0.00 0.00 38.19 4.75
658 698 0.323451 ACGGAAGGAAAATGGGAGCC 60.323 55.000 0.00 0.00 0.00 4.70
670 710 3.127895 TGACAACTGTTCAAAACGGAAGG 59.872 43.478 5.69 0.00 40.26 3.46
674 714 3.001838 TCGATGACAACTGTTCAAAACGG 59.998 43.478 0.00 0.00 43.50 4.44
675 715 4.190304 TCGATGACAACTGTTCAAAACG 57.810 40.909 0.00 0.00 0.00 3.60
687 1028 8.134261 TGTTGAAAATCTGAAAATCGATGACAA 58.866 29.630 0.00 0.00 0.00 3.18
689 1030 7.591057 TGTGTTGAAAATCTGAAAATCGATGAC 59.409 33.333 0.00 0.00 0.00 3.06
690 1031 7.647228 TGTGTTGAAAATCTGAAAATCGATGA 58.353 30.769 0.00 0.00 0.00 2.92
707 1048 9.247126 CAACAACTTGAATGATTATGTGTTGAA 57.753 29.630 14.81 0.00 37.53 2.69
708 1049 7.381948 GCAACAACTTGAATGATTATGTGTTGA 59.618 33.333 14.87 0.00 37.53 3.18
709 1050 7.383029 AGCAACAACTTGAATGATTATGTGTTG 59.617 33.333 8.03 8.03 39.27 3.33
710 1051 7.436118 AGCAACAACTTGAATGATTATGTGTT 58.564 30.769 0.00 0.00 0.00 3.32
711 1052 6.985117 AGCAACAACTTGAATGATTATGTGT 58.015 32.000 0.00 0.00 0.00 3.72
712 1053 7.085746 TGAGCAACAACTTGAATGATTATGTG 58.914 34.615 0.00 0.00 0.00 3.21
713 1054 7.175467 TCTGAGCAACAACTTGAATGATTATGT 59.825 33.333 0.00 0.00 0.00 2.29
714 1055 7.532571 TCTGAGCAACAACTTGAATGATTATG 58.467 34.615 0.00 0.00 0.00 1.90
715 1056 7.692460 TCTGAGCAACAACTTGAATGATTAT 57.308 32.000 0.00 0.00 0.00 1.28
716 1057 7.509141 TTCTGAGCAACAACTTGAATGATTA 57.491 32.000 0.00 0.00 0.00 1.75
717 1058 6.395426 TTCTGAGCAACAACTTGAATGATT 57.605 33.333 0.00 0.00 0.00 2.57
718 1059 6.585695 ATTCTGAGCAACAACTTGAATGAT 57.414 33.333 0.00 0.00 0.00 2.45
719 1060 6.039605 TCAATTCTGAGCAACAACTTGAATGA 59.960 34.615 0.00 0.00 0.00 2.57
720 1061 6.210796 TCAATTCTGAGCAACAACTTGAATG 58.789 36.000 0.00 0.00 0.00 2.67
721 1062 6.395426 TCAATTCTGAGCAACAACTTGAAT 57.605 33.333 0.00 0.00 0.00 2.57
722 1063 5.833406 TCAATTCTGAGCAACAACTTGAA 57.167 34.783 0.00 0.00 0.00 2.69
752 1100 1.448540 CTCGGCAGCACCTTGTAGG 60.449 63.158 0.00 0.00 42.49 3.18
754 1102 0.394938 TTTCTCGGCAGCACCTTGTA 59.605 50.000 0.00 0.00 35.61 2.41
758 1106 1.279271 AGTATTTTCTCGGCAGCACCT 59.721 47.619 0.00 0.00 35.61 4.00
763 1111 6.852664 ACCAAAAATAGTATTTTCTCGGCAG 58.147 36.000 18.80 7.57 30.31 4.85
777 1125 6.549952 TGCTGTTTTGCAAAACCAAAAATAG 58.450 32.000 38.59 30.02 45.82 1.73
778 1126 6.500684 TGCTGTTTTGCAAAACCAAAAATA 57.499 29.167 38.59 23.85 45.82 1.40
781 1129 6.500684 TTATGCTGTTTTGCAAAACCAAAA 57.499 29.167 38.59 26.44 45.82 2.44
797 1145 8.718102 ACACCAACTACTAGTAATTTATGCTG 57.282 34.615 3.76 0.46 0.00 4.41
800 1148 8.804743 CGTGACACCAACTACTAGTAATTTATG 58.195 37.037 3.76 3.79 0.00 1.90
802 1150 8.109705 TCGTGACACCAACTACTAGTAATTTA 57.890 34.615 3.76 0.00 0.00 1.40
803 1151 6.985117 TCGTGACACCAACTACTAGTAATTT 58.015 36.000 3.76 0.00 0.00 1.82
805 1153 6.405508 CCATCGTGACACCAACTACTAGTAAT 60.406 42.308 3.76 0.00 0.00 1.89
806 1154 5.106038 CCATCGTGACACCAACTACTAGTAA 60.106 44.000 3.76 0.00 0.00 2.24
807 1155 4.397103 CCATCGTGACACCAACTACTAGTA 59.603 45.833 1.89 1.89 0.00 1.82
820 1177 3.481453 TGTTCAAAATCCCATCGTGACA 58.519 40.909 0.00 0.00 0.00 3.58
843 1200 6.015772 CGGAAGGAAAATAAAAAGGGAAGTCA 60.016 38.462 0.00 0.00 0.00 3.41
849 1206 4.380128 CCGTCGGAAGGAAAATAAAAAGGG 60.380 45.833 4.91 0.00 0.00 3.95
888 1245 3.504906 ACAGCTTGGATGATTGTCTGTTG 59.495 43.478 0.00 0.00 30.08 3.33
911 1275 7.441458 GTGTTCTTGTAGTTGTAGGAATGAACT 59.559 37.037 0.00 0.00 33.51 3.01
956 1321 1.580845 AACGCTGAGTTGCTGGATGC 61.581 55.000 0.00 0.00 42.39 3.91
973 1338 2.866762 GGCGAGAAGATGTGGTGATAAC 59.133 50.000 0.00 0.00 0.00 1.89
1008 1379 4.527157 GCGCTTGCACGATGAGGC 62.527 66.667 0.00 0.00 38.92 4.70
1438 1812 3.129502 CATCACCGTGCCCAGCAG 61.130 66.667 0.00 0.00 40.08 4.24
1542 1916 2.962569 TCGAGGACGAGCTGGTTG 59.037 61.111 1.83 0.00 43.81 3.77
1590 2150 5.957842 TCAAAGACCACGAAGCAAATTAT 57.042 34.783 0.00 0.00 0.00 1.28
1720 2286 2.404265 TCATGTTTCAAGTGCAAGCG 57.596 45.000 0.00 0.00 0.00 4.68
1807 2380 6.589907 CACTTGTACTGTAGTGAATACATGCA 59.410 38.462 14.32 0.00 43.44 3.96
2187 2760 2.036346 ACTAAAGAAAGTACACCGCCGT 59.964 45.455 0.00 0.00 0.00 5.68
2229 2802 1.064017 ACTTTGTTCAGGGGCTTCACA 60.064 47.619 0.00 0.00 0.00 3.58
2244 2817 6.789262 AGACAAAAACTGAGATGACACTTTG 58.211 36.000 0.00 0.00 0.00 2.77
2257 2830 3.699038 TCCCACTTCCAAGACAAAAACTG 59.301 43.478 0.00 0.00 0.00 3.16
2285 2858 1.475280 CACATCCTCATTGGTGCCTTG 59.525 52.381 0.00 0.00 37.07 3.61
2292 2865 4.018490 TGGTTGAATCACATCCTCATTGG 58.982 43.478 0.00 0.00 38.70 3.16
2293 2866 5.648178 TTGGTTGAATCACATCCTCATTG 57.352 39.130 0.00 0.00 38.70 2.82
2294 2867 6.636705 CATTTGGTTGAATCACATCCTCATT 58.363 36.000 0.00 0.00 38.70 2.57
2295 2868 5.394883 GCATTTGGTTGAATCACATCCTCAT 60.395 40.000 0.00 0.00 38.70 2.90
2296 2869 4.082081 GCATTTGGTTGAATCACATCCTCA 60.082 41.667 0.00 0.00 38.70 3.86
2297 2870 4.427312 GCATTTGGTTGAATCACATCCTC 58.573 43.478 0.00 0.00 38.70 3.71
2298 2871 3.119388 CGCATTTGGTTGAATCACATCCT 60.119 43.478 0.00 0.00 38.70 3.24
2299 2872 3.181397 CGCATTTGGTTGAATCACATCC 58.819 45.455 0.00 0.00 38.47 3.51
2300 2873 3.119531 TCCGCATTTGGTTGAATCACATC 60.120 43.478 0.00 0.00 0.00 3.06
2301 2874 2.824936 TCCGCATTTGGTTGAATCACAT 59.175 40.909 0.00 0.00 0.00 3.21
2302 2875 2.234143 TCCGCATTTGGTTGAATCACA 58.766 42.857 0.00 0.00 0.00 3.58
2303 2876 3.181397 CATCCGCATTTGGTTGAATCAC 58.819 45.455 0.00 0.00 31.58 3.06
2304 2877 2.824936 ACATCCGCATTTGGTTGAATCA 59.175 40.909 0.00 0.00 33.73 2.57
2305 2878 3.181397 CACATCCGCATTTGGTTGAATC 58.819 45.455 0.00 0.00 33.73 2.52
2306 2879 2.094078 CCACATCCGCATTTGGTTGAAT 60.094 45.455 0.00 0.00 33.73 2.57
2307 2880 1.271934 CCACATCCGCATTTGGTTGAA 59.728 47.619 0.00 0.00 33.73 2.69
2308 2881 0.887247 CCACATCCGCATTTGGTTGA 59.113 50.000 0.00 0.00 33.73 3.18
2309 2882 0.737019 GCCACATCCGCATTTGGTTG 60.737 55.000 0.00 0.00 32.92 3.77
2310 2883 0.899717 AGCCACATCCGCATTTGGTT 60.900 50.000 0.00 0.00 32.92 3.67
2311 2884 0.034574 TAGCCACATCCGCATTTGGT 60.035 50.000 0.00 0.00 32.92 3.67
2312 2885 0.664761 CTAGCCACATCCGCATTTGG 59.335 55.000 0.00 0.00 33.43 3.28
2320 2893 7.902087 AGTAAGAATCTTATCTAGCCACATCC 58.098 38.462 5.96 0.00 0.00 3.51
2332 2906 9.896645 TTGATGCTCAGAAAGTAAGAATCTTAT 57.103 29.630 5.96 0.00 0.00 1.73
2336 2910 7.608308 ACTTGATGCTCAGAAAGTAAGAATC 57.392 36.000 0.00 0.00 31.26 2.52
2515 3089 4.636648 TGTGTTGATGAAAACTAACCGTGT 59.363 37.500 0.00 0.00 0.00 4.49


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

AutoCloner maintained by Alex Coulton.