Multiple sequence alignment - TraesCS6D01G223800

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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 TraesCS6D01G223800 chr6D 100.000 3845 0 0 1 3845 315819622 315815778 0.000000e+00 7101
1 TraesCS6D01G223800 chr6D 80.448 491 54 7 3318 3782 331206346 331205872 1.710000e-88 337
2 TraesCS6D01G223800 chr6A 93.499 2615 98 31 654 3212 453572774 453570176 0.000000e+00 3821
3 TraesCS6D01G223800 chr6A 89.649 570 33 2 3302 3845 9514192 9514761 0.000000e+00 702
4 TraesCS6D01G223800 chr6A 91.667 72 6 0 3232 3303 453570179 453570108 2.440000e-17 100
5 TraesCS6D01G223800 chr6B 92.462 1499 51 28 1836 3303 509258892 509260359 0.000000e+00 2085
6 TraesCS6D01G223800 chr6B 96.216 872 30 3 780 1648 509257436 509258307 0.000000e+00 1424
7 TraesCS6D01G223800 chr6B 89.807 569 30 5 3302 3845 109072764 109072199 0.000000e+00 704
8 TraesCS6D01G223800 chr6B 98.010 201 3 1 1652 1851 509258390 509258590 7.910000e-92 348
9 TraesCS6D01G223800 chr6B 83.333 138 16 5 664 797 509257296 509257430 1.880000e-23 121
10 TraesCS6D01G223800 chr3D 98.453 517 8 0 1 517 432160271 432160787 0.000000e+00 911
11 TraesCS6D01G223800 chr3D 98.252 515 9 0 1 515 432177625 432178139 0.000000e+00 902
12 TraesCS6D01G223800 chr3D 90.346 549 27 2 3297 3820 578192275 578192822 0.000000e+00 697
13 TraesCS6D01G223800 chr3D 89.455 569 33 2 3302 3845 25588374 25587808 0.000000e+00 693
14 TraesCS6D01G223800 chr5D 98.259 517 9 0 1 517 304454683 304454167 0.000000e+00 905
15 TraesCS6D01G223800 chr1D 98.259 517 8 1 1 517 222808899 222809414 0.000000e+00 904
16 TraesCS6D01G223800 chr1D 97.881 519 9 2 1 518 256184573 256184056 0.000000e+00 896
17 TraesCS6D01G223800 chr1D 86.164 159 20 2 2580 2737 305768665 305768508 1.840000e-38 171
18 TraesCS6D01G223800 chr2D 98.256 516 8 1 1 516 589844952 589845466 0.000000e+00 902
19 TraesCS6D01G223800 chr2D 98.066 517 10 0 1 517 424765800 424766316 0.000000e+00 900
20 TraesCS6D01G223800 chr2D 84.661 339 38 9 1046 1377 496639536 496639205 3.700000e-85 326
21 TraesCS6D01G223800 chr2D 88.304 171 20 0 2579 2749 496637762 496637592 5.040000e-49 206
22 TraesCS6D01G223800 chr7D 98.066 517 9 1 1 517 194316051 194315536 0.000000e+00 898
23 TraesCS6D01G223800 chr7D 98.058 515 9 1 1 515 192785928 192785415 0.000000e+00 894
24 TraesCS6D01G223800 chr7D 90.175 570 30 2 3302 3845 579335321 579335890 0.000000e+00 719
25 TraesCS6D01G223800 chr3A 89.982 569 30 3 3303 3845 24751017 24751584 0.000000e+00 710
26 TraesCS6D01G223800 chr7A 89.261 568 32 6 3303 3845 724255819 724256382 0.000000e+00 684
27 TraesCS6D01G223800 chr4B 88.752 569 39 8 3302 3845 519354852 519355420 0.000000e+00 673
28 TraesCS6D01G223800 chr1B 81.368 585 59 25 3305 3841 90987750 90988332 7.630000e-117 431
29 TraesCS6D01G223800 chr1B 86.164 159 20 2 2580 2737 413204820 413204663 1.840000e-38 171
30 TraesCS6D01G223800 chr2A 84.928 345 34 15 1046 1380 641796707 641796371 2.210000e-87 333
31 TraesCS6D01G223800 chr2A 87.574 169 21 0 2581 2749 641794928 641794760 3.030000e-46 196
32 TraesCS6D01G223800 chr2A 87.234 141 14 2 512 651 614573433 614573296 1.430000e-34 158
33 TraesCS6D01G223800 chr2B 84.348 345 38 11 1046 1381 583556766 583556429 1.330000e-84 324
34 TraesCS6D01G223800 chr4D 88.652 141 11 3 512 651 50885914 50885778 2.380000e-37 167
35 TraesCS6D01G223800 chr1A 85.535 159 21 2 2580 2737 384775162 384775005 8.550000e-37 165
36 TraesCS6D01G223800 chr1A 89.051 137 10 3 515 651 547852072 547852203 8.550000e-37 165
37 TraesCS6D01G223800 chr1A 90.625 96 8 1 515 610 316559100 316559006 4.030000e-25 126


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 TraesCS6D01G223800 chr6D 315815778 315819622 3844 True 7101.0 7101 100.00000 1 3845 1 chr6D.!!$R1 3844
1 TraesCS6D01G223800 chr6A 453570108 453572774 2666 True 1960.5 3821 92.58300 654 3303 2 chr6A.!!$R1 2649
2 TraesCS6D01G223800 chr6A 9514192 9514761 569 False 702.0 702 89.64900 3302 3845 1 chr6A.!!$F1 543
3 TraesCS6D01G223800 chr6B 509257296 509260359 3063 False 994.5 2085 92.50525 664 3303 4 chr6B.!!$F1 2639
4 TraesCS6D01G223800 chr6B 109072199 109072764 565 True 704.0 704 89.80700 3302 3845 1 chr6B.!!$R1 543
5 TraesCS6D01G223800 chr3D 432160271 432160787 516 False 911.0 911 98.45300 1 517 1 chr3D.!!$F1 516
6 TraesCS6D01G223800 chr3D 432177625 432178139 514 False 902.0 902 98.25200 1 515 1 chr3D.!!$F2 514
7 TraesCS6D01G223800 chr3D 578192275 578192822 547 False 697.0 697 90.34600 3297 3820 1 chr3D.!!$F3 523
8 TraesCS6D01G223800 chr3D 25587808 25588374 566 True 693.0 693 89.45500 3302 3845 1 chr3D.!!$R1 543
9 TraesCS6D01G223800 chr5D 304454167 304454683 516 True 905.0 905 98.25900 1 517 1 chr5D.!!$R1 516
10 TraesCS6D01G223800 chr1D 222808899 222809414 515 False 904.0 904 98.25900 1 517 1 chr1D.!!$F1 516
11 TraesCS6D01G223800 chr1D 256184056 256184573 517 True 896.0 896 97.88100 1 518 1 chr1D.!!$R1 517
12 TraesCS6D01G223800 chr2D 589844952 589845466 514 False 902.0 902 98.25600 1 516 1 chr2D.!!$F2 515
13 TraesCS6D01G223800 chr2D 424765800 424766316 516 False 900.0 900 98.06600 1 517 1 chr2D.!!$F1 516
14 TraesCS6D01G223800 chr2D 496637592 496639536 1944 True 266.0 326 86.48250 1046 2749 2 chr2D.!!$R1 1703
15 TraesCS6D01G223800 chr7D 194315536 194316051 515 True 898.0 898 98.06600 1 517 1 chr7D.!!$R2 516
16 TraesCS6D01G223800 chr7D 192785415 192785928 513 True 894.0 894 98.05800 1 515 1 chr7D.!!$R1 514
17 TraesCS6D01G223800 chr7D 579335321 579335890 569 False 719.0 719 90.17500 3302 3845 1 chr7D.!!$F1 543
18 TraesCS6D01G223800 chr3A 24751017 24751584 567 False 710.0 710 89.98200 3303 3845 1 chr3A.!!$F1 542
19 TraesCS6D01G223800 chr7A 724255819 724256382 563 False 684.0 684 89.26100 3303 3845 1 chr7A.!!$F1 542
20 TraesCS6D01G223800 chr4B 519354852 519355420 568 False 673.0 673 88.75200 3302 3845 1 chr4B.!!$F1 543
21 TraesCS6D01G223800 chr1B 90987750 90988332 582 False 431.0 431 81.36800 3305 3841 1 chr1B.!!$F1 536
22 TraesCS6D01G223800 chr2A 641794760 641796707 1947 True 264.5 333 86.25100 1046 2749 2 chr2A.!!$R2 1703

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
607 608 0.036010 CCCACCACACCAGATGAGTC 60.036 60.0 0.0 0.0 0.0 3.36 F
950 987 0.322456 CTGTTCTCCATCGGCCCAAA 60.322 55.0 0.0 0.0 0.0 3.28 F
1899 2821 0.976641 TTCCGGTCAGCTCAGTTCAT 59.023 50.0 0.0 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2118 3047 0.392706 TTTTCTGCTCCGCTCACTCA 59.607 50.0 0.00 0.0 0.00 3.41 R
2788 4023 0.103208 GCATCGTCCTCGGATTCAGT 59.897 55.0 0.00 0.0 37.69 3.41 R
2883 4118 0.526096 GCAACAGGCCATGTAATGCG 60.526 55.0 5.01 0.0 44.97 4.73 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
84 85 3.258123 TGCAGTAGGGAAAAATTGGCTTC 59.742 43.478 0.00 0.00 0.00 3.86
99 100 3.146066 TGGCTTCTCGCAAAAACTGTAT 58.854 40.909 0.00 0.00 41.67 2.29
501 502 1.139654 AGCAGCACAGACTGTTTGAGA 59.860 47.619 17.11 0.00 39.96 3.27
517 518 3.232213 TGAGATCTGGTCGCTACAAAC 57.768 47.619 0.00 0.00 0.00 2.93
518 519 2.826128 TGAGATCTGGTCGCTACAAACT 59.174 45.455 0.00 0.00 0.00 2.66
519 520 3.182967 GAGATCTGGTCGCTACAAACTG 58.817 50.000 0.00 0.00 0.00 3.16
520 521 1.661112 GATCTGGTCGCTACAAACTGC 59.339 52.381 0.00 0.00 0.00 4.40
521 522 0.320421 TCTGGTCGCTACAAACTGCC 60.320 55.000 0.00 0.00 0.00 4.85
522 523 0.320771 CTGGTCGCTACAAACTGCCT 60.321 55.000 0.00 0.00 0.00 4.75
523 524 0.320421 TGGTCGCTACAAACTGCCTC 60.320 55.000 0.00 0.00 0.00 4.70
524 525 0.320421 GGTCGCTACAAACTGCCTCA 60.320 55.000 0.00 0.00 0.00 3.86
525 526 0.790814 GTCGCTACAAACTGCCTCAC 59.209 55.000 0.00 0.00 0.00 3.51
526 527 0.391228 TCGCTACAAACTGCCTCACA 59.609 50.000 0.00 0.00 0.00 3.58
527 528 1.001974 TCGCTACAAACTGCCTCACAT 59.998 47.619 0.00 0.00 0.00 3.21
528 529 2.232696 TCGCTACAAACTGCCTCACATA 59.767 45.455 0.00 0.00 0.00 2.29
529 530 2.348666 CGCTACAAACTGCCTCACATAC 59.651 50.000 0.00 0.00 0.00 2.39
530 531 2.348666 GCTACAAACTGCCTCACATACG 59.651 50.000 0.00 0.00 0.00 3.06
531 532 2.831685 ACAAACTGCCTCACATACGA 57.168 45.000 0.00 0.00 0.00 3.43
532 533 3.334583 ACAAACTGCCTCACATACGAT 57.665 42.857 0.00 0.00 0.00 3.73
533 534 3.262420 ACAAACTGCCTCACATACGATC 58.738 45.455 0.00 0.00 0.00 3.69
534 535 3.261580 CAAACTGCCTCACATACGATCA 58.738 45.455 0.00 0.00 0.00 2.92
535 536 3.610040 AACTGCCTCACATACGATCAA 57.390 42.857 0.00 0.00 0.00 2.57
536 537 3.827008 ACTGCCTCACATACGATCAAT 57.173 42.857 0.00 0.00 0.00 2.57
537 538 4.142609 ACTGCCTCACATACGATCAATT 57.857 40.909 0.00 0.00 0.00 2.32
538 539 4.517285 ACTGCCTCACATACGATCAATTT 58.483 39.130 0.00 0.00 0.00 1.82
539 540 4.572389 ACTGCCTCACATACGATCAATTTC 59.428 41.667 0.00 0.00 0.00 2.17
540 541 4.769688 TGCCTCACATACGATCAATTTCT 58.230 39.130 0.00 0.00 0.00 2.52
541 542 4.811024 TGCCTCACATACGATCAATTTCTC 59.189 41.667 0.00 0.00 0.00 2.87
542 543 4.811024 GCCTCACATACGATCAATTTCTCA 59.189 41.667 0.00 0.00 0.00 3.27
543 544 5.468072 GCCTCACATACGATCAATTTCTCAT 59.532 40.000 0.00 0.00 0.00 2.90
544 545 6.646653 GCCTCACATACGATCAATTTCTCATA 59.353 38.462 0.00 0.00 0.00 2.15
545 546 7.359598 GCCTCACATACGATCAATTTCTCATAC 60.360 40.741 0.00 0.00 0.00 2.39
546 547 7.653311 CCTCACATACGATCAATTTCTCATACA 59.347 37.037 0.00 0.00 0.00 2.29
547 548 8.940768 TCACATACGATCAATTTCTCATACAA 57.059 30.769 0.00 0.00 0.00 2.41
548 549 9.546428 TCACATACGATCAATTTCTCATACAAT 57.454 29.630 0.00 0.00 0.00 2.71
554 555 9.988350 ACGATCAATTTCTCATACAATTTGTAC 57.012 29.630 11.31 0.00 35.42 2.90
555 556 9.147364 CGATCAATTTCTCATACAATTTGTACG 57.853 33.333 11.31 3.86 35.42 3.67
557 558 9.988350 ATCAATTTCTCATACAATTTGTACGAC 57.012 29.630 11.31 0.00 35.42 4.34
558 559 8.994170 TCAATTTCTCATACAATTTGTACGACA 58.006 29.630 11.31 3.34 35.42 4.35
559 560 9.605955 CAATTTCTCATACAATTTGTACGACAA 57.394 29.630 11.31 0.75 35.42 3.18
560 561 9.825972 AATTTCTCATACAATTTGTACGACAAG 57.174 29.630 11.31 5.58 39.53 3.16
561 562 8.596271 TTTCTCATACAATTTGTACGACAAGA 57.404 30.769 11.31 7.47 39.53 3.02
562 563 7.812309 TCTCATACAATTTGTACGACAAGAG 57.188 36.000 11.31 11.14 39.53 2.85
563 564 7.599171 TCTCATACAATTTGTACGACAAGAGA 58.401 34.615 11.31 12.79 39.53 3.10
564 565 7.541091 TCTCATACAATTTGTACGACAAGAGAC 59.459 37.037 11.31 0.00 39.53 3.36
565 566 7.149307 TCATACAATTTGTACGACAAGAGACA 58.851 34.615 11.31 0.00 39.53 3.41
566 567 5.652744 ACAATTTGTACGACAAGAGACAC 57.347 39.130 0.00 0.00 39.53 3.67
567 568 4.208460 ACAATTTGTACGACAAGAGACACG 59.792 41.667 0.00 0.00 39.53 4.49
568 569 1.762419 TTGTACGACAAGAGACACGC 58.238 50.000 0.00 0.00 32.34 5.34
569 570 0.039798 TGTACGACAAGAGACACGCC 60.040 55.000 0.00 0.00 0.00 5.68
570 571 0.240411 GTACGACAAGAGACACGCCT 59.760 55.000 0.00 0.00 0.00 5.52
571 572 0.240145 TACGACAAGAGACACGCCTG 59.760 55.000 0.00 0.00 0.00 4.85
572 573 1.007271 CGACAAGAGACACGCCTGT 60.007 57.895 0.00 0.00 0.00 4.00
573 574 0.597637 CGACAAGAGACACGCCTGTT 60.598 55.000 0.00 0.00 0.00 3.16
574 575 1.583054 GACAAGAGACACGCCTGTTT 58.417 50.000 0.00 0.00 0.00 2.83
575 576 1.527311 GACAAGAGACACGCCTGTTTC 59.473 52.381 0.00 0.00 32.68 2.78
576 577 0.868406 CAAGAGACACGCCTGTTTCC 59.132 55.000 3.30 0.00 32.90 3.13
577 578 0.250338 AAGAGACACGCCTGTTTCCC 60.250 55.000 3.30 0.00 32.90 3.97
578 579 2.027625 GAGACACGCCTGTTTCCCG 61.028 63.158 0.00 0.00 0.00 5.14
579 580 2.029964 GACACGCCTGTTTCCCGA 59.970 61.111 0.00 0.00 0.00 5.14
580 581 2.027625 GACACGCCTGTTTCCCGAG 61.028 63.158 0.00 0.00 0.00 4.63
581 582 2.742372 CACGCCTGTTTCCCGAGG 60.742 66.667 0.00 0.00 0.00 4.63
582 583 3.239253 ACGCCTGTTTCCCGAGGT 61.239 61.111 0.00 0.00 0.00 3.85
583 584 2.434359 CGCCTGTTTCCCGAGGTC 60.434 66.667 0.00 0.00 0.00 3.85
584 585 2.943978 CGCCTGTTTCCCGAGGTCT 61.944 63.158 0.00 0.00 0.00 3.85
585 586 1.376037 GCCTGTTTCCCGAGGTCTG 60.376 63.158 0.00 0.00 0.00 3.51
586 587 1.296715 CCTGTTTCCCGAGGTCTGG 59.703 63.158 0.00 0.00 0.00 3.86
588 589 2.046217 GTTTCCCGAGGTCTGGGC 60.046 66.667 0.00 0.00 46.92 5.36
589 590 3.327404 TTTCCCGAGGTCTGGGCC 61.327 66.667 0.00 0.00 46.92 5.80
595 596 4.035102 GAGGTCTGGGCCCACCAC 62.035 72.222 28.59 23.30 46.80 4.16
596 597 4.918360 AGGTCTGGGCCCACCACA 62.918 66.667 28.59 8.83 46.80 4.17
597 598 4.660938 GGTCTGGGCCCACCACAC 62.661 72.222 24.45 14.94 46.80 3.82
598 599 4.660938 GTCTGGGCCCACCACACC 62.661 72.222 24.45 0.63 46.80 4.16
600 601 4.666253 CTGGGCCCACCACACCAG 62.666 72.222 24.45 4.29 46.80 4.00
602 603 3.661648 GGGCCCACCACACCAGAT 61.662 66.667 19.95 0.00 39.85 2.90
603 604 2.361610 GGCCCACCACACCAGATG 60.362 66.667 0.00 0.00 35.26 2.90
604 605 2.756400 GCCCACCACACCAGATGA 59.244 61.111 0.00 0.00 0.00 2.92
605 606 1.377725 GCCCACCACACCAGATGAG 60.378 63.158 0.00 0.00 0.00 2.90
606 607 2.069776 CCCACCACACCAGATGAGT 58.930 57.895 0.00 0.00 0.00 3.41
607 608 0.036010 CCCACCACACCAGATGAGTC 60.036 60.000 0.00 0.00 0.00 3.36
608 609 0.979665 CCACCACACCAGATGAGTCT 59.020 55.000 0.00 0.00 34.14 3.24
609 610 1.349026 CCACCACACCAGATGAGTCTT 59.651 52.381 0.00 0.00 30.42 3.01
610 611 2.613977 CCACCACACCAGATGAGTCTTC 60.614 54.545 0.00 0.00 30.42 2.87
611 612 2.301296 CACCACACCAGATGAGTCTTCT 59.699 50.000 2.74 2.74 30.42 2.85
612 613 2.975489 ACCACACCAGATGAGTCTTCTT 59.025 45.455 5.82 0.00 30.42 2.52
613 614 4.021104 CACCACACCAGATGAGTCTTCTTA 60.021 45.833 5.82 0.00 30.42 2.10
614 615 4.780021 ACCACACCAGATGAGTCTTCTTAT 59.220 41.667 5.82 0.00 30.42 1.73
615 616 5.105146 ACCACACCAGATGAGTCTTCTTATC 60.105 44.000 5.82 0.00 37.08 1.75
616 617 5.039984 CACACCAGATGAGTCTTCTTATCG 58.960 45.833 5.82 0.00 40.27 2.92
617 618 4.707448 ACACCAGATGAGTCTTCTTATCGT 59.293 41.667 5.82 0.00 40.27 3.73
618 619 5.886474 ACACCAGATGAGTCTTCTTATCGTA 59.114 40.000 5.82 0.00 40.27 3.43
619 620 6.183360 ACACCAGATGAGTCTTCTTATCGTAC 60.183 42.308 5.82 0.00 40.27 3.67
620 621 5.886474 ACCAGATGAGTCTTCTTATCGTACA 59.114 40.000 5.82 0.00 40.27 2.90
621 622 6.377429 ACCAGATGAGTCTTCTTATCGTACAA 59.623 38.462 5.82 0.00 40.27 2.41
622 623 7.093902 ACCAGATGAGTCTTCTTATCGTACAAA 60.094 37.037 5.82 0.00 40.27 2.83
623 624 7.433719 CCAGATGAGTCTTCTTATCGTACAAAG 59.566 40.741 5.82 0.00 40.27 2.77
624 625 8.184848 CAGATGAGTCTTCTTATCGTACAAAGA 58.815 37.037 5.82 0.00 40.27 2.52
625 626 8.908903 AGATGAGTCTTCTTATCGTACAAAGAT 58.091 33.333 2.74 0.00 40.27 2.40
626 627 9.176181 GATGAGTCTTCTTATCGTACAAAGATC 57.824 37.037 0.00 0.00 32.05 2.75
627 628 7.481642 TGAGTCTTCTTATCGTACAAAGATCC 58.518 38.462 0.00 0.00 32.05 3.36
628 629 7.339721 TGAGTCTTCTTATCGTACAAAGATCCT 59.660 37.037 0.00 0.00 32.05 3.24
629 630 8.749026 AGTCTTCTTATCGTACAAAGATCCTA 57.251 34.615 0.00 0.00 32.05 2.94
630 631 8.623030 AGTCTTCTTATCGTACAAAGATCCTAC 58.377 37.037 0.00 0.00 32.05 3.18
631 632 7.861872 GTCTTCTTATCGTACAAAGATCCTACC 59.138 40.741 0.00 0.00 32.05 3.18
632 633 6.309712 TCTTATCGTACAAAGATCCTACCG 57.690 41.667 0.00 0.00 0.00 4.02
633 634 6.057533 TCTTATCGTACAAAGATCCTACCGA 58.942 40.000 0.00 0.00 0.00 4.69
634 635 6.543465 TCTTATCGTACAAAGATCCTACCGAA 59.457 38.462 0.00 0.00 0.00 4.30
635 636 5.786264 ATCGTACAAAGATCCTACCGAAT 57.214 39.130 0.00 0.00 0.00 3.34
636 637 5.587388 TCGTACAAAGATCCTACCGAATT 57.413 39.130 0.00 0.00 0.00 2.17
637 638 5.969423 TCGTACAAAGATCCTACCGAATTT 58.031 37.500 0.00 0.00 0.00 1.82
638 639 5.808540 TCGTACAAAGATCCTACCGAATTTG 59.191 40.000 0.00 0.00 37.31 2.32
639 640 5.808540 CGTACAAAGATCCTACCGAATTTGA 59.191 40.000 6.76 0.00 35.93 2.69
640 641 6.479001 CGTACAAAGATCCTACCGAATTTGAT 59.521 38.462 6.76 0.00 35.93 2.57
641 642 7.011109 CGTACAAAGATCCTACCGAATTTGATT 59.989 37.037 6.76 0.00 35.93 2.57
642 643 7.088589 ACAAAGATCCTACCGAATTTGATTG 57.911 36.000 6.76 0.00 35.93 2.67
643 644 6.659242 ACAAAGATCCTACCGAATTTGATTGT 59.341 34.615 6.76 0.00 35.93 2.71
644 645 7.827236 ACAAAGATCCTACCGAATTTGATTGTA 59.173 33.333 6.76 0.00 35.93 2.41
645 646 7.787725 AAGATCCTACCGAATTTGATTGTAC 57.212 36.000 0.00 0.00 0.00 2.90
646 647 5.983720 AGATCCTACCGAATTTGATTGTACG 59.016 40.000 0.00 0.00 0.00 3.67
647 648 5.075858 TCCTACCGAATTTGATTGTACGT 57.924 39.130 0.00 0.00 0.00 3.57
648 649 6.206395 TCCTACCGAATTTGATTGTACGTA 57.794 37.500 0.00 0.00 0.00 3.57
649 650 6.808829 TCCTACCGAATTTGATTGTACGTAT 58.191 36.000 0.00 0.00 0.00 3.06
650 651 7.939782 TCCTACCGAATTTGATTGTACGTATA 58.060 34.615 0.00 0.00 0.00 1.47
651 652 8.579006 TCCTACCGAATTTGATTGTACGTATAT 58.421 33.333 0.00 0.00 0.00 0.86
652 653 9.844790 CCTACCGAATTTGATTGTACGTATATA 57.155 33.333 0.00 0.00 0.00 0.86
818 854 9.926158 CTTTTCTGTATCTACATGAGCATATCT 57.074 33.333 0.00 0.00 35.36 1.98
831 867 4.409901 TGAGCATATCTCATCTCCCAACAA 59.590 41.667 0.00 0.00 46.34 2.83
950 987 0.322456 CTGTTCTCCATCGGCCCAAA 60.322 55.000 0.00 0.00 0.00 3.28
1095 1132 4.148825 ATCCTGGAGCGCGTCACC 62.149 66.667 8.43 9.01 0.00 4.02
1428 1847 8.426569 ACCAGTTAATTTGTACTGTACCTCTA 57.573 34.615 14.91 0.00 40.06 2.43
1483 1917 3.667960 CGAATTATGCCAATTAGCTCGCC 60.668 47.826 0.00 0.00 0.00 5.54
1549 2031 3.373439 GCTCTGCTTGGTTAACATCTCAG 59.627 47.826 8.10 8.96 0.00 3.35
1625 2113 3.305608 CCACCTGAATTTTGGTTCTCTGC 60.306 47.826 1.18 0.00 33.75 4.26
1676 2243 3.181440 ACCTGAGATTCTTGTGCCAAGAA 60.181 43.478 23.68 23.68 40.17 2.52
1899 2821 0.976641 TTCCGGTCAGCTCAGTTCAT 59.023 50.000 0.00 0.00 0.00 2.57
1940 2862 7.221452 CACCTAAATTCACAAAATATCAGCAGC 59.779 37.037 0.00 0.00 0.00 5.25
2050 2972 3.519510 TCAAGCTAGGATTTGCACTAGGT 59.480 43.478 7.71 7.71 46.57 3.08
2055 2984 3.914426 AGGATTTGCACTAGGTACTGG 57.086 47.619 0.00 0.00 44.86 4.00
2113 3042 3.875134 GGCAGTATACGGCAAAGTTATGT 59.125 43.478 25.90 0.00 38.83 2.29
2118 3047 6.312918 CAGTATACGGCAAAGTTATGTCTGTT 59.687 38.462 0.00 0.00 0.00 3.16
2303 3253 1.281287 ACTTGCCATCTCTGCTGATGT 59.719 47.619 11.73 0.00 41.47 3.06
2310 3260 2.556144 TCTCTGCTGATGTTTGCTGT 57.444 45.000 0.00 0.00 0.00 4.40
2313 3263 1.881973 TCTGCTGATGTTTGCTGTTCC 59.118 47.619 0.00 0.00 0.00 3.62
2464 3522 4.889409 TGATCCTTTGACTGCAAAACTCTT 59.111 37.500 0.00 0.00 42.96 2.85
2888 4123 2.712057 CTTGGAAGCAAGTTCGCATT 57.288 45.000 0.00 0.00 35.80 3.56
2897 4132 1.745087 CAAGTTCGCATTACATGGCCT 59.255 47.619 3.32 0.00 0.00 5.19
2910 4145 1.682451 ATGGCCTGTTGCATGATGCC 61.682 55.000 15.70 10.04 44.23 4.40
2930 4165 4.253685 GCCTGCATTTCTGTTAGTCTGTA 58.746 43.478 0.00 0.00 0.00 2.74
3026 4278 6.039382 ACAATGCTTTCTCGTCCTTAGTTTTT 59.961 34.615 0.00 0.00 0.00 1.94
3039 4291 6.309494 GTCCTTAGTTTTTGTTTGTTGTGGTC 59.691 38.462 0.00 0.00 0.00 4.02
3048 4304 2.228138 TTGTTGTGGTCGTGTAGGTC 57.772 50.000 0.00 0.00 0.00 3.85
3076 4336 3.455619 CACTAGCGTGTTAGGCTTTTG 57.544 47.619 0.00 0.00 40.20 2.44
3077 4337 1.804748 ACTAGCGTGTTAGGCTTTTGC 59.195 47.619 0.00 0.00 40.20 3.68
3099 4359 4.219033 CCGGATTTTTCTCTTGTGAAACG 58.781 43.478 0.00 0.00 42.39 3.60
3179 4443 5.351465 CACATTGGGTTATAGTGACACTGAC 59.649 44.000 18.58 12.93 32.14 3.51
3180 4444 5.012664 ACATTGGGTTATAGTGACACTGACA 59.987 40.000 18.58 0.00 0.00 3.58
3203 4467 1.882912 AAAGTGAATCGCAGCAGTGA 58.117 45.000 0.00 0.00 38.88 3.41
3204 4468 1.436600 AAGTGAATCGCAGCAGTGAG 58.563 50.000 0.00 0.00 37.75 3.51
3205 4469 0.319728 AGTGAATCGCAGCAGTGAGT 59.680 50.000 0.00 0.00 37.75 3.41
3206 4470 0.718343 GTGAATCGCAGCAGTGAGTC 59.282 55.000 12.47 12.47 46.41 3.36
3207 4471 0.605083 TGAATCGCAGCAGTGAGTCT 59.395 50.000 18.70 0.00 46.38 3.24
3208 4472 1.001293 TGAATCGCAGCAGTGAGTCTT 59.999 47.619 18.70 0.00 46.38 3.01
3209 4473 2.072298 GAATCGCAGCAGTGAGTCTTT 58.928 47.619 12.15 0.00 43.78 2.52
3210 4474 2.175878 ATCGCAGCAGTGAGTCTTTT 57.824 45.000 0.00 0.00 37.75 2.27
3211 4475 1.953559 TCGCAGCAGTGAGTCTTTTT 58.046 45.000 0.00 0.00 0.00 1.94
3240 4526 7.012327 TCTCTTGGTAATAGGCATTTTCATTCG 59.988 37.037 0.00 0.00 0.00 3.34
3250 4536 7.295952 AGGCATTTTCATTCGATCGATATAC 57.704 36.000 20.18 2.08 0.00 1.47
3290 4576 1.229177 TGTGAGTGGCTGGCCTCTA 60.229 57.895 14.93 0.00 39.70 2.43
3312 4598 8.827177 TCTACATAATATGATGGGAAACGTTC 57.173 34.615 7.33 0.00 0.00 3.95
3393 4679 3.376078 CCCATGCACCGCTTTGCT 61.376 61.111 7.79 0.00 43.41 3.91
3495 4809 3.930336 TGGCAAAACAAATCACACACAA 58.070 36.364 0.00 0.00 0.00 3.33
3496 4810 4.511527 TGGCAAAACAAATCACACACAAT 58.488 34.783 0.00 0.00 0.00 2.71
3502 4816 6.492007 AAACAAATCACACACAATTTGCAA 57.508 29.167 0.00 0.00 43.47 4.08
3761 5083 1.612950 CAACCAGCCACACAAATGCTA 59.387 47.619 0.00 0.00 33.16 3.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 100 1.210478 GCAGGTGGAAAGCTCTATGGA 59.790 52.381 0.00 0.00 0.00 3.41
501 502 1.676014 GGCAGTTTGTAGCGACCAGAT 60.676 52.381 0.00 0.00 0.00 2.90
517 518 4.813161 AGAAATTGATCGTATGTGAGGCAG 59.187 41.667 0.00 0.00 0.00 4.85
518 519 4.769688 AGAAATTGATCGTATGTGAGGCA 58.230 39.130 0.00 0.00 0.00 4.75
519 520 4.811024 TGAGAAATTGATCGTATGTGAGGC 59.189 41.667 0.00 0.00 0.00 4.70
520 521 7.653311 TGTATGAGAAATTGATCGTATGTGAGG 59.347 37.037 0.00 0.00 0.00 3.86
521 522 8.579682 TGTATGAGAAATTGATCGTATGTGAG 57.420 34.615 0.00 0.00 0.00 3.51
522 523 8.940768 TTGTATGAGAAATTGATCGTATGTGA 57.059 30.769 0.00 0.00 0.00 3.58
528 529 9.988350 GTACAAATTGTATGAGAAATTGATCGT 57.012 29.630 9.22 0.00 35.05 3.73
529 530 9.147364 CGTACAAATTGTATGAGAAATTGATCG 57.853 33.333 17.86 4.87 41.20 3.69
531 532 9.988350 GTCGTACAAATTGTATGAGAAATTGAT 57.012 29.630 23.73 0.00 46.11 2.57
532 533 8.994170 TGTCGTACAAATTGTATGAGAAATTGA 58.006 29.630 23.73 2.44 46.11 2.57
533 534 9.605955 TTGTCGTACAAATTGTATGAGAAATTG 57.394 29.630 25.74 4.96 46.11 2.32
534 535 9.825972 CTTGTCGTACAAATTGTATGAGAAATT 57.174 29.630 26.87 0.00 45.39 1.82
535 536 9.214957 TCTTGTCGTACAAATTGTATGAGAAAT 57.785 29.630 26.87 0.00 45.39 2.17
536 537 8.596271 TCTTGTCGTACAAATTGTATGAGAAA 57.404 30.769 26.87 21.40 45.39 2.52
537 538 8.085909 TCTCTTGTCGTACAAATTGTATGAGAA 58.914 33.333 25.97 25.97 46.11 2.87
538 539 7.541091 GTCTCTTGTCGTACAAATTGTATGAGA 59.459 37.037 23.73 20.68 46.11 3.27
539 540 7.328493 TGTCTCTTGTCGTACAAATTGTATGAG 59.672 37.037 23.73 14.70 46.11 2.90
540 541 7.115805 GTGTCTCTTGTCGTACAAATTGTATGA 59.884 37.037 20.49 20.49 44.11 2.15
541 542 7.227461 GTGTCTCTTGTCGTACAAATTGTATG 58.773 38.462 16.89 16.89 37.69 2.39
542 543 6.089016 CGTGTCTCTTGTCGTACAAATTGTAT 59.911 38.462 9.22 0.00 37.69 2.29
543 544 5.400188 CGTGTCTCTTGTCGTACAAATTGTA 59.600 40.000 1.08 1.08 37.69 2.41
544 545 4.208460 CGTGTCTCTTGTCGTACAAATTGT 59.792 41.667 3.43 3.43 37.69 2.71
545 546 4.688063 CGTGTCTCTTGTCGTACAAATTG 58.312 43.478 0.00 0.00 37.69 2.32
546 547 3.183775 GCGTGTCTCTTGTCGTACAAATT 59.816 43.478 0.00 0.00 37.69 1.82
547 548 2.729882 GCGTGTCTCTTGTCGTACAAAT 59.270 45.455 0.00 0.00 37.69 2.32
548 549 2.121786 GCGTGTCTCTTGTCGTACAAA 58.878 47.619 0.00 0.00 37.69 2.83
549 550 1.601162 GGCGTGTCTCTTGTCGTACAA 60.601 52.381 0.00 0.00 36.54 2.41
550 551 0.039798 GGCGTGTCTCTTGTCGTACA 60.040 55.000 0.00 0.00 0.00 2.90
551 552 0.240411 AGGCGTGTCTCTTGTCGTAC 59.760 55.000 0.00 0.00 0.00 3.67
552 553 0.240145 CAGGCGTGTCTCTTGTCGTA 59.760 55.000 0.00 0.00 0.00 3.43
553 554 1.007271 CAGGCGTGTCTCTTGTCGT 60.007 57.895 0.00 0.00 0.00 4.34
554 555 0.597637 AACAGGCGTGTCTCTTGTCG 60.598 55.000 13.21 0.00 35.08 4.35
555 556 1.527311 GAAACAGGCGTGTCTCTTGTC 59.473 52.381 13.21 0.76 35.08 3.18
556 557 1.583054 GAAACAGGCGTGTCTCTTGT 58.417 50.000 13.21 0.00 35.08 3.16
557 558 0.868406 GGAAACAGGCGTGTCTCTTG 59.132 55.000 13.21 0.00 35.08 3.02
558 559 0.250338 GGGAAACAGGCGTGTCTCTT 60.250 55.000 13.21 3.44 35.08 2.85
559 560 1.371558 GGGAAACAGGCGTGTCTCT 59.628 57.895 13.21 0.34 35.08 3.10
560 561 2.027625 CGGGAAACAGGCGTGTCTC 61.028 63.158 13.21 8.54 35.08 3.36
561 562 2.030562 CGGGAAACAGGCGTGTCT 59.969 61.111 13.21 0.00 35.08 3.41
562 563 2.027625 CTCGGGAAACAGGCGTGTC 61.028 63.158 13.21 0.83 35.08 3.67
563 564 2.030562 CTCGGGAAACAGGCGTGT 59.969 61.111 6.15 6.15 39.19 4.49
564 565 2.742372 CCTCGGGAAACAGGCGTG 60.742 66.667 4.53 4.53 0.00 5.34
565 566 3.236003 GACCTCGGGAAACAGGCGT 62.236 63.158 0.00 0.00 32.32 5.68
566 567 2.434359 GACCTCGGGAAACAGGCG 60.434 66.667 0.00 0.00 32.32 5.52
567 568 1.376037 CAGACCTCGGGAAACAGGC 60.376 63.158 0.00 0.00 32.32 4.85
568 569 1.296715 CCAGACCTCGGGAAACAGG 59.703 63.158 0.00 0.00 32.68 4.00
578 579 4.035102 GTGGTGGGCCCAGACCTC 62.035 72.222 29.55 21.01 46.45 3.85
579 580 4.918360 TGTGGTGGGCCCAGACCT 62.918 66.667 29.55 0.00 46.45 3.85
583 584 4.666253 CTGGTGTGGTGGGCCCAG 62.666 72.222 29.55 6.91 46.45 4.45
585 586 3.661648 ATCTGGTGTGGTGGGCCC 61.662 66.667 17.59 17.59 0.00 5.80
586 587 2.361610 CATCTGGTGTGGTGGGCC 60.362 66.667 0.00 0.00 0.00 5.80
587 588 1.377725 CTCATCTGGTGTGGTGGGC 60.378 63.158 0.00 0.00 0.00 5.36
588 589 0.036010 GACTCATCTGGTGTGGTGGG 60.036 60.000 0.00 0.00 0.00 4.61
589 590 0.979665 AGACTCATCTGGTGTGGTGG 59.020 55.000 0.00 0.00 32.29 4.61
590 591 2.301296 AGAAGACTCATCTGGTGTGGTG 59.699 50.000 0.00 0.00 34.48 4.17
591 592 2.614259 AGAAGACTCATCTGGTGTGGT 58.386 47.619 0.00 0.00 34.48 4.16
592 593 3.692257 AAGAAGACTCATCTGGTGTGG 57.308 47.619 0.00 0.00 34.48 4.17
593 594 5.039984 CGATAAGAAGACTCATCTGGTGTG 58.960 45.833 0.00 0.00 34.48 3.82
594 595 4.707448 ACGATAAGAAGACTCATCTGGTGT 59.293 41.667 0.00 0.00 34.48 4.16
595 596 5.255710 ACGATAAGAAGACTCATCTGGTG 57.744 43.478 0.00 0.00 34.48 4.17
596 597 5.886474 TGTACGATAAGAAGACTCATCTGGT 59.114 40.000 0.00 0.00 34.48 4.00
597 598 6.378710 TGTACGATAAGAAGACTCATCTGG 57.621 41.667 0.00 0.00 34.48 3.86
598 599 8.184848 TCTTTGTACGATAAGAAGACTCATCTG 58.815 37.037 0.00 0.00 34.48 2.90
599 600 8.282455 TCTTTGTACGATAAGAAGACTCATCT 57.718 34.615 0.00 0.00 36.42 2.90
600 601 9.176181 GATCTTTGTACGATAAGAAGACTCATC 57.824 37.037 8.40 0.00 34.35 2.92
601 602 8.138712 GGATCTTTGTACGATAAGAAGACTCAT 58.861 37.037 8.40 0.00 34.35 2.90
602 603 7.339721 AGGATCTTTGTACGATAAGAAGACTCA 59.660 37.037 8.40 0.00 34.35 3.41
603 604 7.708998 AGGATCTTTGTACGATAAGAAGACTC 58.291 38.462 8.40 3.41 34.35 3.36
604 605 7.648039 AGGATCTTTGTACGATAAGAAGACT 57.352 36.000 8.40 5.49 34.35 3.24
605 606 7.861872 GGTAGGATCTTTGTACGATAAGAAGAC 59.138 40.741 8.40 5.46 34.35 3.01
606 607 7.255035 CGGTAGGATCTTTGTACGATAAGAAGA 60.255 40.741 8.40 0.00 34.35 2.87
607 608 6.856938 CGGTAGGATCTTTGTACGATAAGAAG 59.143 42.308 8.40 0.00 34.35 2.85
608 609 6.543465 TCGGTAGGATCTTTGTACGATAAGAA 59.457 38.462 8.40 0.00 34.35 2.52
609 610 6.057533 TCGGTAGGATCTTTGTACGATAAGA 58.942 40.000 7.18 7.18 35.08 2.10
610 611 6.309712 TCGGTAGGATCTTTGTACGATAAG 57.690 41.667 0.00 0.00 0.00 1.73
611 612 6.698008 TTCGGTAGGATCTTTGTACGATAA 57.302 37.500 0.00 0.00 0.00 1.75
612 613 6.889301 ATTCGGTAGGATCTTTGTACGATA 57.111 37.500 0.00 0.00 0.00 2.92
613 614 5.786264 ATTCGGTAGGATCTTTGTACGAT 57.214 39.130 0.00 0.00 0.00 3.73
614 615 5.587388 AATTCGGTAGGATCTTTGTACGA 57.413 39.130 0.00 0.00 0.00 3.43
615 616 5.808540 TCAAATTCGGTAGGATCTTTGTACG 59.191 40.000 0.00 0.00 33.09 3.67
616 617 7.787725 ATCAAATTCGGTAGGATCTTTGTAC 57.212 36.000 0.00 0.00 33.09 2.90
617 618 7.827236 ACAATCAAATTCGGTAGGATCTTTGTA 59.173 33.333 0.00 0.00 33.09 2.41
618 619 6.659242 ACAATCAAATTCGGTAGGATCTTTGT 59.341 34.615 0.00 0.00 33.09 2.83
619 620 7.088589 ACAATCAAATTCGGTAGGATCTTTG 57.911 36.000 0.00 0.00 32.81 2.77
620 621 7.011109 CGTACAATCAAATTCGGTAGGATCTTT 59.989 37.037 0.00 0.00 0.00 2.52
621 622 6.479001 CGTACAATCAAATTCGGTAGGATCTT 59.521 38.462 0.00 0.00 0.00 2.40
622 623 5.983720 CGTACAATCAAATTCGGTAGGATCT 59.016 40.000 0.00 0.00 0.00 2.75
623 624 5.751990 ACGTACAATCAAATTCGGTAGGATC 59.248 40.000 0.00 0.00 0.00 3.36
624 625 5.667466 ACGTACAATCAAATTCGGTAGGAT 58.333 37.500 0.00 0.00 0.00 3.24
625 626 5.075858 ACGTACAATCAAATTCGGTAGGA 57.924 39.130 0.00 0.00 0.00 2.94
626 627 8.752766 ATATACGTACAATCAAATTCGGTAGG 57.247 34.615 0.00 0.00 0.00 3.18
629 630 8.693504 CGTTATATACGTACAATCAAATTCGGT 58.306 33.333 0.00 0.00 45.14 4.69
650 651 9.862371 CATTCTGAATAGTATAGAAGGCGTTAT 57.138 33.333 1.98 0.00 34.30 1.89
651 652 8.857098 ACATTCTGAATAGTATAGAAGGCGTTA 58.143 33.333 1.98 0.00 36.12 3.18
652 653 7.727181 ACATTCTGAATAGTATAGAAGGCGTT 58.273 34.615 1.98 0.00 36.12 4.84
653 654 7.014326 TGACATTCTGAATAGTATAGAAGGCGT 59.986 37.037 1.98 2.76 36.12 5.68
654 655 7.371159 TGACATTCTGAATAGTATAGAAGGCG 58.629 38.462 1.98 0.37 36.12 5.52
655 656 9.547753 TTTGACATTCTGAATAGTATAGAAGGC 57.452 33.333 1.98 2.89 36.12 4.35
687 688 9.319143 CTCCGTCTGAATCAAAATATAAGACTT 57.681 33.333 0.00 0.00 32.33 3.01
688 689 8.478877 ACTCCGTCTGAATCAAAATATAAGACT 58.521 33.333 0.00 0.00 32.33 3.24
719 720 6.316890 GGTTAAGCGTATTTTTAGTGGATGGA 59.683 38.462 0.00 0.00 0.00 3.41
720 721 6.459161 GGGTTAAGCGTATTTTTAGTGGATGG 60.459 42.308 0.00 0.00 0.00 3.51
721 722 6.317893 AGGGTTAAGCGTATTTTTAGTGGATG 59.682 38.462 0.00 0.00 0.00 3.51
831 867 7.973048 TCTGTTAGTTAATCTGGTACTCCAT 57.027 36.000 0.00 0.00 43.43 3.41
910 946 2.710902 GGGGAGAAAATGCACGGGC 61.711 63.158 0.34 0.34 41.68 6.13
950 987 1.299926 GGTGCACGTGTCGAACTCT 60.300 57.895 18.38 0.00 0.00 3.24
1428 1847 5.987953 CACCAAGACGAAGATGATCATGTAT 59.012 40.000 14.30 0.00 0.00 2.29
1483 1917 4.153117 GGTGAGTATTGAGTTGAGTGCAAG 59.847 45.833 0.00 0.00 34.01 4.01
1549 2031 6.183361 ACCATCCAGAGGTCTAAATATTGGTC 60.183 42.308 0.00 0.00 32.90 4.02
1625 2113 3.760684 ACCAGCAAGCTAAATCCAAAGAG 59.239 43.478 0.00 0.00 0.00 2.85
1676 2243 2.341257 CACTTTGTCACAGCTCGCTAT 58.659 47.619 0.00 0.00 0.00 2.97
1899 2821 8.755028 TGAATTTAGGTGTGCTTCTATACTGTA 58.245 33.333 0.00 0.00 0.00 2.74
2050 2972 4.591498 ACAAATCACTCTGTGTACCCAGTA 59.409 41.667 5.21 0.00 34.79 2.74
2055 2984 4.273148 AGGACAAATCACTCTGTGTACC 57.727 45.455 0.00 0.00 34.79 3.34
2113 3042 1.290324 GCTCCGCTCACTCAACAGA 59.710 57.895 0.00 0.00 0.00 3.41
2118 3047 0.392706 TTTTCTGCTCCGCTCACTCA 59.607 50.000 0.00 0.00 0.00 3.41
2303 3253 0.747852 GGGGAAAACGGAACAGCAAA 59.252 50.000 0.00 0.00 0.00 3.68
2310 3260 2.271777 AGACTATGGGGGAAAACGGAA 58.728 47.619 0.00 0.00 0.00 4.30
2313 3263 2.163613 GCAAAGACTATGGGGGAAAACG 59.836 50.000 0.00 0.00 0.00 3.60
2464 3522 5.586155 TTTTTACAGGGAGGATGGTGTTA 57.414 39.130 0.00 0.00 0.00 2.41
2776 4011 2.164422 CGGATTCAGTGAGACAGCAGTA 59.836 50.000 0.00 0.00 0.00 2.74
2788 4023 0.103208 GCATCGTCCTCGGATTCAGT 59.897 55.000 0.00 0.00 37.69 3.41
2883 4118 0.526096 GCAACAGGCCATGTAATGCG 60.526 55.000 5.01 0.00 44.97 4.73
2888 4123 2.025898 CATCATGCAACAGGCCATGTA 58.974 47.619 5.01 0.16 43.00 2.29
2910 4145 9.979270 CTTAAATACAGACTAACAGAAATGCAG 57.021 33.333 0.00 0.00 0.00 4.41
3026 4278 2.281517 CCTACACGACCACAACAAACA 58.718 47.619 0.00 0.00 0.00 2.83
3039 4291 3.093717 AGTGTTTCACTGACCTACACG 57.906 47.619 1.44 0.00 43.63 4.49
3068 4328 1.970640 AGAAAAATCCGGCAAAAGCCT 59.029 42.857 0.00 0.00 0.00 4.58
3075 4335 2.857483 TCACAAGAGAAAAATCCGGCA 58.143 42.857 0.00 0.00 0.00 5.69
3076 4336 3.915437 TTCACAAGAGAAAAATCCGGC 57.085 42.857 0.00 0.00 0.00 6.13
3077 4337 4.219033 CGTTTCACAAGAGAAAAATCCGG 58.781 43.478 0.00 0.00 39.05 5.14
3099 4359 4.642429 ACAGGTTCAAGACTGTACAATCC 58.358 43.478 0.00 0.00 45.45 3.01
3179 4443 1.001487 TGCTGCGATTCACTTTTGGTG 60.001 47.619 0.00 0.00 46.60 4.17
3180 4444 1.267806 CTGCTGCGATTCACTTTTGGT 59.732 47.619 0.00 0.00 0.00 3.67
3208 4472 8.650143 AAATGCCTATTACCAAGAGAGAAAAA 57.350 30.769 0.00 0.00 0.00 1.94
3209 4473 8.650143 AAAATGCCTATTACCAAGAGAGAAAA 57.350 30.769 0.00 0.00 0.00 2.29
3210 4474 7.888021 TGAAAATGCCTATTACCAAGAGAGAAA 59.112 33.333 0.00 0.00 0.00 2.52
3211 4475 7.402054 TGAAAATGCCTATTACCAAGAGAGAA 58.598 34.615 0.00 0.00 0.00 2.87
3212 4476 6.957631 TGAAAATGCCTATTACCAAGAGAGA 58.042 36.000 0.00 0.00 0.00 3.10
3213 4477 7.814264 ATGAAAATGCCTATTACCAAGAGAG 57.186 36.000 0.00 0.00 0.00 3.20
3214 4478 7.012327 CGAATGAAAATGCCTATTACCAAGAGA 59.988 37.037 0.00 0.00 0.00 3.10
3215 4479 7.012327 TCGAATGAAAATGCCTATTACCAAGAG 59.988 37.037 0.00 0.00 0.00 2.85
3216 4480 6.826231 TCGAATGAAAATGCCTATTACCAAGA 59.174 34.615 0.00 0.00 0.00 3.02
3217 4481 7.026631 TCGAATGAAAATGCCTATTACCAAG 57.973 36.000 0.00 0.00 0.00 3.61
3218 4482 7.519809 CGATCGAATGAAAATGCCTATTACCAA 60.520 37.037 10.26 0.00 0.00 3.67
3219 4483 6.073276 CGATCGAATGAAAATGCCTATTACCA 60.073 38.462 10.26 0.00 0.00 3.25
3220 4484 6.147164 TCGATCGAATGAAAATGCCTATTACC 59.853 38.462 16.99 0.00 0.00 2.85
3221 4485 7.117241 TCGATCGAATGAAAATGCCTATTAC 57.883 36.000 16.99 0.00 0.00 1.89
3222 4486 7.905604 ATCGATCGAATGAAAATGCCTATTA 57.094 32.000 23.50 0.00 0.00 0.98
3223 4487 6.808008 ATCGATCGAATGAAAATGCCTATT 57.192 33.333 23.50 0.00 0.00 1.73
3224 4488 9.035607 GTATATCGATCGAATGAAAATGCCTAT 57.964 33.333 23.50 12.47 0.00 2.57
3225 4489 7.491372 GGTATATCGATCGAATGAAAATGCCTA 59.509 37.037 23.50 5.51 0.00 3.93
3240 4526 7.074507 ACTGTATTGTCTCGGTATATCGATC 57.925 40.000 8.85 6.20 38.55 3.69
3250 4536 2.413112 CACTGCAACTGTATTGTCTCGG 59.587 50.000 0.00 0.00 0.00 4.63
3290 4576 7.338196 TGTTGAACGTTTCCCATCATATTATGT 59.662 33.333 0.46 0.00 0.00 2.29
3393 4679 2.421388 CCGTGGATGAGATAAGGGCAAA 60.421 50.000 0.00 0.00 0.00 3.68
3495 4809 1.003839 TCTCGCCGGAGTTGCAAAT 60.004 52.632 5.05 0.00 41.26 2.32
3496 4810 1.667830 CTCTCGCCGGAGTTGCAAA 60.668 57.895 5.05 0.00 41.26 3.68


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

AutoCloner maintained by Alex Coulton.