Multiple sequence alignment - TraesCS4D01G249700

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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 TraesCS4D01G249700 chr4D 100.000 8387 0 0 1 8387 418624894 418616508 0.000000e+00 15488.0
1 TraesCS4D01G249700 chr4D 80.323 310 50 8 244 546 316524821 316525126 3.050000e-54 224.0
2 TraesCS4D01G249700 chr4B 96.885 4302 87 17 3824 8105 515161827 515166101 0.000000e+00 7158.0
3 TraesCS4D01G249700 chr4B 96.380 2376 51 17 698 3053 515158596 515160956 0.000000e+00 3879.0
4 TraesCS4D01G249700 chr4B 97.465 710 17 1 3050 3758 515161116 515161825 0.000000e+00 1210.0
5 TraesCS4D01G249700 chr4B 93.727 271 8 3 8103 8366 515166933 515167201 1.700000e-106 398.0
6 TraesCS4D01G249700 chr4B 79.624 319 56 6 234 546 494676737 494676422 3.940000e-53 220.0
7 TraesCS4D01G249700 chr4A 95.311 2282 68 14 5695 7947 46125743 46123472 0.000000e+00 3585.0
8 TraesCS4D01G249700 chr4A 94.566 2153 71 20 740 2860 46131272 46129134 0.000000e+00 3286.0
9 TraesCS4D01G249700 chr4A 97.969 1674 24 8 4028 5697 46127503 46125836 0.000000e+00 2894.0
10 TraesCS4D01G249700 chr4A 97.309 1152 21 4 2885 4032 46129137 46127992 0.000000e+00 1947.0
11 TraesCS4D01G249700 chr4A 93.220 59 4 0 642 700 46131318 46131260 4.170000e-13 87.9
12 TraesCS4D01G249700 chr1D 80.128 312 48 9 161 463 412510576 412510270 3.940000e-53 220.0
13 TraesCS4D01G249700 chr1D 89.394 66 5 2 8054 8118 484174764 484174828 1.940000e-11 82.4
14 TraesCS4D01G249700 chr1D 77.660 94 19 1 161 252 109826991 109827084 1.000000e-03 56.5
15 TraesCS4D01G249700 chr6A 74.479 576 113 22 1 546 538026089 538026660 1.420000e-52 219.0
16 TraesCS4D01G249700 chr6A 77.461 386 69 14 175 546 562257802 562258183 1.830000e-51 215.0
17 TraesCS4D01G249700 chr5B 78.202 367 60 17 166 523 676546864 676547219 5.100000e-52 217.0
18 TraesCS4D01G249700 chr5B 79.255 188 15 16 1743 1927 37063389 37063555 8.900000e-20 110.0
19 TraesCS4D01G249700 chr2B 82.101 257 39 5 291 546 225266119 225266369 6.590000e-51 213.0
20 TraesCS4D01G249700 chr2B 94.737 38 2 0 1858 1895 529499605 529499642 9.090000e-05 60.2
21 TraesCS4D01G249700 chr6B 76.709 395 79 11 163 546 585347001 585347393 3.070000e-49 207.0
22 TraesCS4D01G249700 chr5D 74.276 587 104 27 1 546 377260803 377261383 3.970000e-48 204.0
23 TraesCS4D01G249700 chr5D 81.673 251 31 8 8056 8302 409576572 409576811 2.390000e-45 195.0
24 TraesCS4D01G249700 chr2D 76.587 252 50 6 226 471 22965861 22966109 6.830000e-26 130.0
25 TraesCS4D01G249700 chr3A 86.567 67 7 2 8053 8118 682004906 682004841 1.170000e-08 73.1
26 TraesCS4D01G249700 chr7B 82.895 76 12 1 471 546 614275158 614275084 5.430000e-07 67.6
27 TraesCS4D01G249700 chr7D 100.000 30 0 0 8051 8080 543097254 543097283 1.000000e-03 56.5
28 TraesCS4D01G249700 chr5A 100.000 30 0 0 8056 8085 12136164 12136135 1.000000e-03 56.5


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 TraesCS4D01G249700 chr4D 418616508 418624894 8386 True 15488.00 15488 100.00000 1 8387 1 chr4D.!!$R1 8386
1 TraesCS4D01G249700 chr4B 515158596 515167201 8605 False 3161.25 7158 96.11425 698 8366 4 chr4B.!!$F1 7668
2 TraesCS4D01G249700 chr4A 46123472 46131318 7846 True 2359.98 3585 95.67500 642 7947 5 chr4A.!!$R1 7305
3 TraesCS4D01G249700 chr6A 538026089 538026660 571 False 219.00 219 74.47900 1 546 1 chr6A.!!$F1 545
4 TraesCS4D01G249700 chr5D 377260803 377261383 580 False 204.00 204 74.27600 1 546 1 chr5D.!!$F1 545

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
394 434 0.034896 GCCCGACTCAGTCAAGGAAA 59.965 55.000 14.01 0.0 30.11 3.13 F
403 443 0.035056 AGTCAAGGAAAGGGCGATGG 60.035 55.000 0.00 0.0 0.00 3.51 F
636 676 0.179936 CTGTTCCCATCTCTCCCTGC 59.820 60.000 0.00 0.0 0.00 4.85 F
744 784 1.134098 CACCATATTCCGTTGGCCTCT 60.134 52.381 3.32 0.0 36.41 3.69 F
2212 2305 2.153645 CCGCATGATTGCCTGCTATTA 58.846 47.619 0.00 0.0 46.57 0.98 F
2393 2486 9.638239 CTATCAGCTTTCTCTTAATATCAGTCC 57.362 37.037 0.00 0.0 0.00 3.85 F
4065 4826 0.541863 ACCTAGGAATTGAGGCACCG 59.458 55.000 17.98 0.0 36.17 4.94 F
4807 5579 1.068895 TGTCCTTGCTGGCACAATTTG 59.931 47.619 0.00 0.0 38.70 2.32 F
6272 7159 2.092968 TGTAAGGTCATGGCTGATGGTC 60.093 50.000 0.00 0.0 32.98 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1567 1640 2.821991 ACTCTCTTGGTTTCACTCCG 57.178 50.000 0.00 0.0 0.00 4.63 R
1733 1808 4.531854 TCCTTTCAAATCCAACAGTGTGA 58.468 39.130 0.00 0.0 0.00 3.58 R
1765 1840 5.738118 TTGCAAGATTTTCAAAAGCAAGG 57.262 34.783 0.12 0.0 35.81 3.61 R
2673 2766 6.265196 ACAAACCAACATTCAAGCTCTTATGA 59.735 34.615 8.40 0.0 0.00 2.15 R
3168 3425 4.497674 GCCATATCAGCAGCTTGAGAAAAG 60.498 45.833 0.00 0.0 0.00 2.27 R
4252 5013 0.397941 AAGTTAGCTGCTGAGGCACA 59.602 50.000 13.43 0.0 44.28 4.57 R
5789 6656 0.187117 TGAGTTTGCCCCAACCATCA 59.813 50.000 0.00 0.0 0.00 3.07 R
6415 7302 0.451783 CCACAGCGCCATTAACCTTC 59.548 55.000 2.29 0.0 0.00 3.46 R
8070 8967 0.251121 ACGCATGTCCATTTGGGTCA 60.251 50.000 0.00 0.0 39.08 4.02 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
17 18 2.689813 TCTCCGATGGCCTCTGGA 59.310 61.111 3.32 7.30 0.00 3.86
22 23 1.121407 CCGATGGCCTCTGGACCATA 61.121 60.000 3.32 0.00 46.72 2.74
70 72 0.252742 ATGAGAGGGACCCCGTTCTT 60.253 55.000 7.00 0.00 41.95 2.52
71 73 0.410663 TGAGAGGGACCCCGTTCTTA 59.589 55.000 7.00 0.00 41.95 2.10
74 76 3.303049 GAGAGGGACCCCGTTCTTATTA 58.697 50.000 7.00 0.00 41.95 0.98
82 84 6.351711 GGACCCCGTTCTTATTATTGTTAGT 58.648 40.000 0.00 0.00 0.00 2.24
87 89 8.732531 CCCCGTTCTTATTATTGTTAGTTTCAA 58.267 33.333 0.00 0.00 0.00 2.69
88 90 9.550811 CCCGTTCTTATTATTGTTAGTTTCAAC 57.449 33.333 0.00 0.00 0.00 3.18
103 105 0.608035 TCAACGTCTTGATTGGGGCC 60.608 55.000 0.00 0.00 31.00 5.80
109 111 1.303236 CTTGATTGGGGCCGTGTGA 60.303 57.895 0.00 0.00 0.00 3.58
159 182 4.533222 CCACGTTATGGTTTGAGTGTTTC 58.467 43.478 0.00 0.00 44.46 2.78
170 193 2.741211 GTGTTTCCGTCGGAGGGC 60.741 66.667 14.79 9.19 31.21 5.19
171 194 4.011517 TGTTTCCGTCGGAGGGCC 62.012 66.667 14.79 0.00 31.21 5.80
173 196 3.387947 TTTCCGTCGGAGGGCCTC 61.388 66.667 25.80 25.80 31.21 4.70
198 223 4.368543 GTTTCCGCCGGGTCTCGT 62.369 66.667 1.90 0.00 37.11 4.18
217 242 1.303317 GGGATTTGGTCGGTGCTGT 60.303 57.895 0.00 0.00 0.00 4.40
219 244 1.612199 GGGATTTGGTCGGTGCTGTTA 60.612 52.381 0.00 0.00 0.00 2.41
222 247 3.192633 GGATTTGGTCGGTGCTGTTATTT 59.807 43.478 0.00 0.00 0.00 1.40
231 256 2.427095 GGTGCTGTTATTTGGTGGATCC 59.573 50.000 4.20 4.20 0.00 3.36
232 257 3.088532 GTGCTGTTATTTGGTGGATCCA 58.911 45.455 11.44 11.44 45.60 3.41
280 319 9.896645 AGTGTTTACATGTTTGATCTGATCTAT 57.103 29.630 17.82 5.59 0.00 1.98
282 321 9.112725 TGTTTACATGTTTGATCTGATCTATGG 57.887 33.333 17.82 6.24 0.00 2.74
288 327 5.824624 TGTTTGATCTGATCTATGGCTTTCC 59.175 40.000 17.82 0.00 0.00 3.13
295 334 3.897505 TGATCTATGGCTTTCCTCATCGA 59.102 43.478 0.00 0.00 0.00 3.59
304 343 3.737047 GCTTTCCTCATCGACGATGGTTA 60.737 47.826 31.58 17.30 40.15 2.85
323 362 4.254709 TGCTCTGGTGCGCTGGTT 62.255 61.111 9.73 0.00 35.36 3.67
328 367 0.613260 TCTGGTGCGCTGGTTCTATT 59.387 50.000 9.73 0.00 0.00 1.73
332 371 1.009829 GTGCGCTGGTTCTATTGAGG 58.990 55.000 9.73 0.00 0.00 3.86
351 390 0.924090 GCTTAGCACGATGACTTCCG 59.076 55.000 0.00 0.00 0.00 4.30
352 391 1.469251 GCTTAGCACGATGACTTCCGA 60.469 52.381 0.00 0.00 0.00 4.55
353 392 2.186076 CTTAGCACGATGACTTCCGAC 58.814 52.381 0.00 0.00 0.00 4.79
358 398 1.471287 CACGATGACTTCCGACCTGTA 59.529 52.381 0.00 0.00 0.00 2.74
370 410 8.474710 ACTTCCGACCTGTATACTACAATAAT 57.525 34.615 4.17 0.00 38.38 1.28
371 411 9.578576 ACTTCCGACCTGTATACTACAATAATA 57.421 33.333 4.17 0.00 38.38 0.98
380 420 9.647797 CTGTATACTACAATAATATTTGCCCGA 57.352 33.333 4.17 0.00 38.38 5.14
384 424 6.588204 ACTACAATAATATTTGCCCGACTCA 58.412 36.000 0.00 0.00 0.00 3.41
386 426 5.437060 ACAATAATATTTGCCCGACTCAGT 58.563 37.500 0.00 0.00 0.00 3.41
388 428 3.627395 AATATTTGCCCGACTCAGTCA 57.373 42.857 5.45 0.00 32.09 3.41
394 434 0.034896 GCCCGACTCAGTCAAGGAAA 59.965 55.000 14.01 0.00 30.11 3.13
398 438 1.814793 GACTCAGTCAAGGAAAGGGC 58.185 55.000 0.00 0.00 32.09 5.19
403 443 0.035056 AGTCAAGGAAAGGGCGATGG 60.035 55.000 0.00 0.00 0.00 3.51
466 506 1.823169 TAGGTGGTCCACGAACCTGC 61.823 60.000 15.93 0.03 44.13 4.85
481 521 7.061789 CCACGAACCTGCTTGTAATTTTTATTC 59.938 37.037 0.00 0.00 0.00 1.75
483 523 7.039993 ACGAACCTGCTTGTAATTTTTATTCCT 60.040 33.333 0.00 0.00 0.00 3.36
503 543 8.812513 ATTCCTTCTGATGTTCATTGTATTGA 57.187 30.769 0.00 0.00 0.00 2.57
538 578 9.760660 AAAAATGAATAGATCGAAAGTTTCTCG 57.239 29.630 13.56 2.36 37.66 4.04
592 632 5.619625 AAGAAAGAAAAGATCAGAAGCCG 57.380 39.130 0.00 0.00 0.00 5.52
593 633 4.899502 AGAAAGAAAAGATCAGAAGCCGA 58.100 39.130 0.00 0.00 0.00 5.54
594 634 4.934602 AGAAAGAAAAGATCAGAAGCCGAG 59.065 41.667 0.00 0.00 0.00 4.63
595 635 3.258971 AGAAAAGATCAGAAGCCGAGG 57.741 47.619 0.00 0.00 0.00 4.63
596 636 2.834549 AGAAAAGATCAGAAGCCGAGGA 59.165 45.455 0.00 0.00 0.00 3.71
597 637 3.261897 AGAAAAGATCAGAAGCCGAGGAA 59.738 43.478 0.00 0.00 0.00 3.36
598 638 2.682155 AAGATCAGAAGCCGAGGAAC 57.318 50.000 0.00 0.00 0.00 3.62
599 639 0.827368 AGATCAGAAGCCGAGGAACC 59.173 55.000 0.00 0.00 0.00 3.62
600 640 0.537188 GATCAGAAGCCGAGGAACCA 59.463 55.000 0.00 0.00 0.00 3.67
601 641 0.984230 ATCAGAAGCCGAGGAACCAA 59.016 50.000 0.00 0.00 0.00 3.67
602 642 0.762418 TCAGAAGCCGAGGAACCAAA 59.238 50.000 0.00 0.00 0.00 3.28
603 643 0.875059 CAGAAGCCGAGGAACCAAAC 59.125 55.000 0.00 0.00 0.00 2.93
604 644 0.472471 AGAAGCCGAGGAACCAAACA 59.528 50.000 0.00 0.00 0.00 2.83
605 645 1.133915 AGAAGCCGAGGAACCAAACAA 60.134 47.619 0.00 0.00 0.00 2.83
606 646 1.679153 GAAGCCGAGGAACCAAACAAA 59.321 47.619 0.00 0.00 0.00 2.83
607 647 1.995376 AGCCGAGGAACCAAACAAAT 58.005 45.000 0.00 0.00 0.00 2.32
608 648 1.886542 AGCCGAGGAACCAAACAAATC 59.113 47.619 0.00 0.00 0.00 2.17
609 649 1.067846 GCCGAGGAACCAAACAAATCC 60.068 52.381 0.00 0.00 0.00 3.01
610 650 1.544246 CCGAGGAACCAAACAAATCCC 59.456 52.381 0.00 0.00 32.15 3.85
611 651 2.514803 CGAGGAACCAAACAAATCCCT 58.485 47.619 0.00 0.00 32.15 4.20
612 652 2.488153 CGAGGAACCAAACAAATCCCTC 59.512 50.000 0.00 0.00 36.33 4.30
613 653 3.767711 GAGGAACCAAACAAATCCCTCT 58.232 45.455 0.00 0.00 36.64 3.69
614 654 3.759086 GAGGAACCAAACAAATCCCTCTC 59.241 47.826 0.00 0.00 36.64 3.20
615 655 2.826128 GGAACCAAACAAATCCCTCTCC 59.174 50.000 0.00 0.00 0.00 3.71
616 656 2.604912 ACCAAACAAATCCCTCTCCC 57.395 50.000 0.00 0.00 0.00 4.30
617 657 1.077169 ACCAAACAAATCCCTCTCCCC 59.923 52.381 0.00 0.00 0.00 4.81
618 658 1.359130 CCAAACAAATCCCTCTCCCCT 59.641 52.381 0.00 0.00 0.00 4.79
619 659 2.450476 CAAACAAATCCCTCTCCCCTG 58.550 52.381 0.00 0.00 0.00 4.45
620 660 1.760405 AACAAATCCCTCTCCCCTGT 58.240 50.000 0.00 0.00 0.00 4.00
621 661 1.760405 ACAAATCCCTCTCCCCTGTT 58.240 50.000 0.00 0.00 0.00 3.16
622 662 1.636003 ACAAATCCCTCTCCCCTGTTC 59.364 52.381 0.00 0.00 0.00 3.18
623 663 1.064389 CAAATCCCTCTCCCCTGTTCC 60.064 57.143 0.00 0.00 0.00 3.62
624 664 0.624795 AATCCCTCTCCCCTGTTCCC 60.625 60.000 0.00 0.00 0.00 3.97
625 665 1.837533 ATCCCTCTCCCCTGTTCCCA 61.838 60.000 0.00 0.00 0.00 4.37
626 666 1.308216 CCCTCTCCCCTGTTCCCAT 60.308 63.158 0.00 0.00 0.00 4.00
627 667 1.348775 CCCTCTCCCCTGTTCCCATC 61.349 65.000 0.00 0.00 0.00 3.51
628 668 0.327000 CCTCTCCCCTGTTCCCATCT 60.327 60.000 0.00 0.00 0.00 2.90
629 669 1.127343 CTCTCCCCTGTTCCCATCTC 58.873 60.000 0.00 0.00 0.00 2.75
630 670 0.719015 TCTCCCCTGTTCCCATCTCT 59.281 55.000 0.00 0.00 0.00 3.10
631 671 1.127343 CTCCCCTGTTCCCATCTCTC 58.873 60.000 0.00 0.00 0.00 3.20
632 672 0.326618 TCCCCTGTTCCCATCTCTCC 60.327 60.000 0.00 0.00 0.00 3.71
633 673 1.348775 CCCCTGTTCCCATCTCTCCC 61.349 65.000 0.00 0.00 0.00 4.30
634 674 0.327000 CCCTGTTCCCATCTCTCCCT 60.327 60.000 0.00 0.00 0.00 4.20
635 675 0.835941 CCTGTTCCCATCTCTCCCTG 59.164 60.000 0.00 0.00 0.00 4.45
636 676 0.179936 CTGTTCCCATCTCTCCCTGC 59.820 60.000 0.00 0.00 0.00 4.85
637 677 1.144936 GTTCCCATCTCTCCCTGCG 59.855 63.158 0.00 0.00 0.00 5.18
638 678 1.306141 TTCCCATCTCTCCCTGCGT 60.306 57.895 0.00 0.00 0.00 5.24
639 679 1.330655 TTCCCATCTCTCCCTGCGTC 61.331 60.000 0.00 0.00 0.00 5.19
640 680 2.415010 CCATCTCTCCCTGCGTCG 59.585 66.667 0.00 0.00 0.00 5.12
654 694 3.760035 GTCGCAGCCGGAAGAGGA 61.760 66.667 5.05 0.00 34.56 3.71
662 702 2.352032 CCGGAAGAGGAAGGCGAGT 61.352 63.158 0.00 0.00 0.00 4.18
693 733 2.186903 CATTACGCCCAGCCTCGT 59.813 61.111 0.00 0.00 42.09 4.18
696 736 2.017559 ATTACGCCCAGCCTCGTCTC 62.018 60.000 0.00 0.00 39.79 3.36
701 741 4.200283 CCAGCCTCGTCTCGCCTC 62.200 72.222 0.00 0.00 0.00 4.70
702 742 4.544689 CAGCCTCGTCTCGCCTCG 62.545 72.222 0.00 0.00 0.00 4.63
713 753 4.615834 CGCCTCGTCTCGCCTAGC 62.616 72.222 0.00 0.00 0.00 3.42
744 784 1.134098 CACCATATTCCGTTGGCCTCT 60.134 52.381 3.32 0.00 36.41 3.69
770 817 2.614057 CCGGAAATTCTCAAATCCCTCG 59.386 50.000 0.00 0.00 0.00 4.63
771 818 3.531538 CGGAAATTCTCAAATCCCTCGA 58.468 45.455 0.00 0.00 0.00 4.04
773 820 3.313803 GGAAATTCTCAAATCCCTCGAGC 59.686 47.826 6.99 0.00 0.00 5.03
790 839 2.541762 CGAGCCAGTTTTAGCTGATAGC 59.458 50.000 0.00 0.00 40.11 2.97
1325 1394 2.231721 GCTCCTCCATCGGTAAGGATAC 59.768 54.545 0.00 0.00 38.49 2.24
1337 1406 5.182570 TCGGTAAGGATACGATCGATTGATT 59.817 40.000 24.34 12.71 46.39 2.57
1567 1640 3.769844 TCCTGATCTACCTCTGGTGTTTC 59.230 47.826 0.00 0.00 36.19 2.78
1618 1691 3.279434 GGTTTATGATCAGGCTTTCGGT 58.721 45.455 0.09 0.00 0.00 4.69
1733 1808 3.561120 TTGGGCGCTGGAAATCCGT 62.561 57.895 7.64 0.00 39.43 4.69
1750 1825 2.158885 TCCGTCACACTGTTGGATTTGA 60.159 45.455 0.00 0.00 0.00 2.69
1765 1840 9.010029 TGTTGGATTTGAAAGGAATAGTTCTAC 57.990 33.333 0.00 0.00 0.00 2.59
1920 1996 5.188555 TGCTTCTCATTGATAACTGAGGACT 59.811 40.000 0.00 0.00 39.48 3.85
2212 2305 2.153645 CCGCATGATTGCCTGCTATTA 58.846 47.619 0.00 0.00 46.57 0.98
2393 2486 9.638239 CTATCAGCTTTCTCTTAATATCAGTCC 57.362 37.037 0.00 0.00 0.00 3.85
3168 3425 1.066573 AGCTCGGATGTAGGCATATGC 60.067 52.381 19.79 19.79 35.07 3.14
3223 3480 5.360714 AGATTGTGTTTGTCCATGAGTTGTT 59.639 36.000 0.00 0.00 0.00 2.83
3238 3495 4.202101 TGAGTTGTTGGTATTTTGGTGCTG 60.202 41.667 0.00 0.00 0.00 4.41
3435 3692 1.335689 ACGGTAAGACACTCAACTCGC 60.336 52.381 0.00 0.00 0.00 5.03
3466 3723 6.922957 TCTTCTGTTGGTAAAACATGATTTGC 59.077 34.615 10.92 9.31 0.00 3.68
3980 4242 1.242989 TGCCAAAATTAGCTCGCACA 58.757 45.000 0.00 0.00 0.00 4.57
4065 4826 0.541863 ACCTAGGAATTGAGGCACCG 59.458 55.000 17.98 0.00 36.17 4.94
4160 4921 3.219281 GCTGTACCCAAACCTCTCAAAA 58.781 45.455 0.00 0.00 0.00 2.44
4252 5013 3.260475 TCATGTATTGCTACTTGGCGT 57.740 42.857 0.00 0.00 35.04 5.68
4280 5041 4.060900 TCAGCAGCTAACTTCTCAAACTG 58.939 43.478 0.00 0.00 0.00 3.16
4401 5163 3.316308 GTCACTCTGGATTGTGCAAAGTT 59.684 43.478 0.00 0.00 34.49 2.66
4482 5252 7.712205 GCATTTTTACATGATAATTCTGCCCTT 59.288 33.333 0.00 0.00 0.00 3.95
4483 5253 9.037737 CATTTTTACATGATAATTCTGCCCTTG 57.962 33.333 0.00 0.00 0.00 3.61
4675 5447 8.851145 TGTAATTTACCATGACTTGCAACTAAA 58.149 29.630 0.00 0.00 0.00 1.85
4746 5518 8.316640 TGGTCATTTTGCAATTTTATGTTACC 57.683 30.769 0.00 7.42 0.00 2.85
4807 5579 1.068895 TGTCCTTGCTGGCACAATTTG 59.931 47.619 0.00 0.00 38.70 2.32
5524 6296 8.469309 TTTGATCAGAAATGTTCTCTTCCTTT 57.531 30.769 0.00 0.00 38.11 3.11
5751 6618 2.517959 TGTTGCCTGCTAGCATTCTTT 58.482 42.857 19.72 0.00 43.64 2.52
5837 6704 8.690203 AAAATCATATGTAATCGATGGTTGGA 57.310 30.769 0.00 0.00 0.00 3.53
6126 7013 4.734398 AAAGGTGCATTTGTGTTCTTCA 57.266 36.364 0.00 0.00 0.00 3.02
6129 7016 3.638160 AGGTGCATTTGTGTTCTTCATGT 59.362 39.130 0.00 0.00 0.00 3.21
6215 7102 7.595819 TGTTATCTTTTTGTCCAATTCTGGT 57.404 32.000 0.00 0.00 43.97 4.00
6216 7103 8.698973 TGTTATCTTTTTGTCCAATTCTGGTA 57.301 30.769 0.00 0.00 43.97 3.25
6272 7159 2.092968 TGTAAGGTCATGGCTGATGGTC 60.093 50.000 0.00 0.00 32.98 4.02
6415 7302 3.939740 TGGGAGATTGATCTTGAAGGG 57.060 47.619 0.00 0.00 37.25 3.95
6421 7308 5.504853 GAGATTGATCTTGAAGGGAAGGTT 58.495 41.667 0.00 0.00 37.25 3.50
6427 7314 3.697166 TCTTGAAGGGAAGGTTAATGGC 58.303 45.455 0.00 0.00 0.00 4.40
6560 7447 3.634504 GCATGGGCATATGGGATGAATA 58.365 45.455 4.56 0.00 40.72 1.75
6592 7479 3.181429 TGGAAGCTTGGAGGAAGACAAAT 60.181 43.478 2.10 0.00 32.82 2.32
6642 7529 5.771165 TGAAGGAGGTAACACATTTTAACCC 59.229 40.000 0.00 0.00 41.41 4.11
6752 7639 9.869844 CTATAATTTGTGCTGCATAGTTTAGTC 57.130 33.333 5.27 0.00 0.00 2.59
6832 7719 5.932303 GTGCTGTCTAGTGTTCCAAATTCTA 59.068 40.000 0.00 0.00 0.00 2.10
6965 7852 7.394359 AGTGAAACACTTGCCTATATCAAATGT 59.606 33.333 0.00 0.00 42.59 2.71
6984 7871 6.764308 AATGTCACTTGGGTATGAAGAATG 57.236 37.500 0.00 0.00 0.00 2.67
6995 7882 5.817816 GGGTATGAAGAATGGTTACTCACAG 59.182 44.000 0.00 0.00 0.00 3.66
6998 7885 5.738619 TGAAGAATGGTTACTCACAGCTA 57.261 39.130 0.00 0.00 0.00 3.32
7272 8159 2.485426 CCACTACAATGGTCAGTGCAAG 59.515 50.000 0.00 0.05 38.67 4.01
7629 8520 5.710099 TGGTTGGTCATTCTTTTGGATAGTC 59.290 40.000 0.00 0.00 0.00 2.59
8029 8926 2.602211 CGAGCTGATGTTAGAGCAACTG 59.398 50.000 0.00 0.00 37.70 3.16
8030 8927 2.351111 GAGCTGATGTTAGAGCAACTGC 59.649 50.000 0.00 0.00 37.70 4.40
8066 8963 3.674997 TGATGTTAGAGCAACTCCAACC 58.325 45.455 3.95 0.00 38.05 3.77
8070 8967 1.192146 TAGAGCAACTCCAACCGGCT 61.192 55.000 0.00 0.00 37.56 5.52
8078 8975 2.203422 CCAACCGGCTGACCCAAA 60.203 61.111 6.38 0.00 0.00 3.28
8084 8981 1.303236 CGGCTGACCCAAATGGACA 60.303 57.895 0.00 0.48 37.26 4.02
8085 8982 0.680921 CGGCTGACCCAAATGGACAT 60.681 55.000 0.00 0.00 38.15 3.06
8096 8993 3.184178 CCAAATGGACATGCGTTTTGTTC 59.816 43.478 0.00 0.00 37.39 3.18
8139 9870 2.762327 CCCTAGCGGGTACTTTTGTCTA 59.238 50.000 0.00 0.00 46.12 2.59
8173 9911 1.112950 TCGGTATATGCACCCAACGA 58.887 50.000 0.00 0.00 34.90 3.85
8179 9917 1.375853 TATGCACCCAACGATGCTGC 61.376 55.000 0.00 6.62 42.55 5.25
8193 9931 2.037136 GCTGCCGCAGTTGTGAGAT 61.037 57.895 21.29 0.00 33.43 2.75
8367 10105 2.280389 CCTCCATGGCCATCGTCG 60.280 66.667 17.61 4.26 0.00 5.12
8368 10106 2.969238 CTCCATGGCCATCGTCGC 60.969 66.667 17.61 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 1.604378 CCAAGATCCTCCGCACCTT 59.396 57.895 0.00 0.00 0.00 3.50
48 50 2.123854 CGGGGTCCCTCTCATCGA 60.124 66.667 8.15 0.00 0.00 3.59
51 53 0.252742 AAGAACGGGGTCCCTCTCAT 60.253 55.000 8.15 0.00 0.00 2.90
52 54 0.410663 TAAGAACGGGGTCCCTCTCA 59.589 55.000 8.15 0.00 0.00 3.27
54 56 2.265526 AATAAGAACGGGGTCCCTCT 57.734 50.000 8.15 0.00 0.00 3.69
74 76 7.138736 CCAATCAAGACGTTGAAACTAACAAT 58.861 34.615 0.00 0.00 45.88 2.71
82 84 1.611491 GCCCCAATCAAGACGTTGAAA 59.389 47.619 0.00 0.00 45.88 2.69
87 89 2.046314 CGGCCCCAATCAAGACGT 60.046 61.111 0.00 0.00 0.00 4.34
88 90 2.046314 ACGGCCCCAATCAAGACG 60.046 61.111 0.00 0.00 0.00 4.18
119 121 0.741915 GGGAGACAGCCTAAGAGACG 59.258 60.000 0.00 0.00 0.00 4.18
123 125 0.251653 ACGTGGGAGACAGCCTAAGA 60.252 55.000 0.00 0.00 0.00 2.10
129 131 3.065575 CCATAACGTGGGAGACAGC 57.934 57.895 0.00 0.00 44.79 4.40
149 172 0.032952 CCTCCGACGGAAACACTCAA 59.967 55.000 18.93 0.00 0.00 3.02
152 175 3.057337 CCCTCCGACGGAAACACT 58.943 61.111 18.93 0.00 0.00 3.55
153 176 2.741211 GCCCTCCGACGGAAACAC 60.741 66.667 18.93 4.11 0.00 3.32
155 178 3.660732 GAGGCCCTCCGACGGAAAC 62.661 68.421 18.93 9.81 37.47 2.78
156 179 3.387947 GAGGCCCTCCGACGGAAA 61.388 66.667 18.93 0.00 37.47 3.13
157 180 4.377760 AGAGGCCCTCCGACGGAA 62.378 66.667 18.93 1.85 37.47 4.30
171 194 1.376037 GGCGGAAACACCTCCAGAG 60.376 63.158 0.00 0.00 42.68 3.35
173 196 2.742372 CGGCGGAAACACCTCCAG 60.742 66.667 0.00 0.00 43.27 3.86
187 210 3.325201 AAATCCCACGAGACCCGGC 62.325 63.158 0.00 0.00 43.93 6.13
192 217 0.739813 CCGACCAAATCCCACGAGAC 60.740 60.000 0.00 0.00 0.00 3.36
198 223 1.303236 CAGCACCGACCAAATCCCA 60.303 57.895 0.00 0.00 0.00 4.37
231 256 2.024176 ACGAAGACCGGATCCAAATG 57.976 50.000 9.46 0.00 43.93 2.32
232 257 2.747446 CAAACGAAGACCGGATCCAAAT 59.253 45.455 9.46 0.00 43.93 2.32
280 319 0.824109 ATCGTCGATGAGGAAAGCCA 59.176 50.000 13.65 0.00 36.29 4.75
282 321 1.212616 CCATCGTCGATGAGGAAAGC 58.787 55.000 31.82 0.00 42.09 3.51
288 327 2.120232 GCAGTAACCATCGTCGATGAG 58.880 52.381 31.82 23.65 42.09 2.90
295 334 1.066858 CACCAGAGCAGTAACCATCGT 60.067 52.381 0.00 0.00 0.00 3.73
304 343 4.694233 CCAGCGCACCAGAGCAGT 62.694 66.667 11.47 0.00 43.61 4.40
323 362 3.636764 TCATCGTGCTAAGCCTCAATAGA 59.363 43.478 0.00 0.00 0.00 1.98
328 367 1.186200 AGTCATCGTGCTAAGCCTCA 58.814 50.000 0.00 0.00 0.00 3.86
332 371 0.924090 CGGAAGTCATCGTGCTAAGC 59.076 55.000 0.00 0.00 0.00 3.09
358 398 8.372459 TGAGTCGGGCAAATATTATTGTAGTAT 58.628 33.333 0.00 0.00 32.80 2.12
370 410 2.354704 CCTTGACTGAGTCGGGCAAATA 60.355 50.000 20.75 0.00 37.30 1.40
371 411 1.611673 CCTTGACTGAGTCGGGCAAAT 60.612 52.381 20.75 0.00 37.30 2.32
380 420 0.035458 CGCCCTTTCCTTGACTGAGT 59.965 55.000 0.00 0.00 0.00 3.41
384 424 0.035056 CCATCGCCCTTTCCTTGACT 60.035 55.000 0.00 0.00 0.00 3.41
386 426 1.378514 GCCATCGCCCTTTCCTTGA 60.379 57.895 0.00 0.00 0.00 3.02
388 428 2.438434 CGCCATCGCCCTTTCCTT 60.438 61.111 0.00 0.00 0.00 3.36
429 469 0.744874 TAGCGATGACTACCAGCACC 59.255 55.000 0.00 0.00 0.00 5.01
435 475 1.337387 GACCACCTAGCGATGACTACC 59.663 57.143 0.00 0.00 0.00 3.18
481 521 7.381766 TGTCAATACAATGAACATCAGAAGG 57.618 36.000 0.00 0.00 30.91 3.46
483 523 8.564509 TCATGTCAATACAATGAACATCAGAA 57.435 30.769 0.00 0.00 39.58 3.02
512 552 9.760660 CGAGAAACTTTCGATCTATTCATTTTT 57.239 29.630 0.00 0.00 40.36 1.94
515 555 8.703604 TTCGAGAAACTTTCGATCTATTCATT 57.296 30.769 0.00 0.00 45.38 2.57
566 606 8.883731 CGGCTTCTGATCTTTTCTTTCTTATTA 58.116 33.333 0.00 0.00 0.00 0.98
567 607 7.607991 TCGGCTTCTGATCTTTTCTTTCTTATT 59.392 33.333 0.00 0.00 0.00 1.40
568 608 7.106239 TCGGCTTCTGATCTTTTCTTTCTTAT 58.894 34.615 0.00 0.00 0.00 1.73
569 609 6.464222 TCGGCTTCTGATCTTTTCTTTCTTA 58.536 36.000 0.00 0.00 0.00 2.10
570 610 5.308825 TCGGCTTCTGATCTTTTCTTTCTT 58.691 37.500 0.00 0.00 0.00 2.52
571 611 4.899502 TCGGCTTCTGATCTTTTCTTTCT 58.100 39.130 0.00 0.00 0.00 2.52
572 612 4.094146 CCTCGGCTTCTGATCTTTTCTTTC 59.906 45.833 0.00 0.00 0.00 2.62
573 613 4.006319 CCTCGGCTTCTGATCTTTTCTTT 58.994 43.478 0.00 0.00 0.00 2.52
574 614 3.261897 TCCTCGGCTTCTGATCTTTTCTT 59.738 43.478 0.00 0.00 0.00 2.52
575 615 2.834549 TCCTCGGCTTCTGATCTTTTCT 59.165 45.455 0.00 0.00 0.00 2.52
576 616 3.252974 TCCTCGGCTTCTGATCTTTTC 57.747 47.619 0.00 0.00 0.00 2.29
577 617 3.339141 GTTCCTCGGCTTCTGATCTTTT 58.661 45.455 0.00 0.00 0.00 2.27
578 618 2.355209 GGTTCCTCGGCTTCTGATCTTT 60.355 50.000 0.00 0.00 0.00 2.52
579 619 1.208293 GGTTCCTCGGCTTCTGATCTT 59.792 52.381 0.00 0.00 0.00 2.40
580 620 0.827368 GGTTCCTCGGCTTCTGATCT 59.173 55.000 0.00 0.00 0.00 2.75
581 621 0.537188 TGGTTCCTCGGCTTCTGATC 59.463 55.000 0.00 0.00 0.00 2.92
582 622 0.984230 TTGGTTCCTCGGCTTCTGAT 59.016 50.000 0.00 0.00 0.00 2.90
583 623 0.762418 TTTGGTTCCTCGGCTTCTGA 59.238 50.000 0.00 0.00 0.00 3.27
584 624 0.875059 GTTTGGTTCCTCGGCTTCTG 59.125 55.000 0.00 0.00 0.00 3.02
585 625 0.472471 TGTTTGGTTCCTCGGCTTCT 59.528 50.000 0.00 0.00 0.00 2.85
586 626 1.314730 TTGTTTGGTTCCTCGGCTTC 58.685 50.000 0.00 0.00 0.00 3.86
587 627 1.770294 TTTGTTTGGTTCCTCGGCTT 58.230 45.000 0.00 0.00 0.00 4.35
588 628 1.886542 GATTTGTTTGGTTCCTCGGCT 59.113 47.619 0.00 0.00 0.00 5.52
589 629 1.067846 GGATTTGTTTGGTTCCTCGGC 60.068 52.381 0.00 0.00 0.00 5.54
590 630 1.544246 GGGATTTGTTTGGTTCCTCGG 59.456 52.381 0.00 0.00 0.00 4.63
591 631 2.488153 GAGGGATTTGTTTGGTTCCTCG 59.512 50.000 0.00 0.00 31.47 4.63
592 632 3.759086 GAGAGGGATTTGTTTGGTTCCTC 59.241 47.826 0.00 0.00 39.49 3.71
593 633 3.500471 GGAGAGGGATTTGTTTGGTTCCT 60.500 47.826 0.00 0.00 0.00 3.36
594 634 2.826128 GGAGAGGGATTTGTTTGGTTCC 59.174 50.000 0.00 0.00 0.00 3.62
595 635 2.826128 GGGAGAGGGATTTGTTTGGTTC 59.174 50.000 0.00 0.00 0.00 3.62
596 636 2.492753 GGGGAGAGGGATTTGTTTGGTT 60.493 50.000 0.00 0.00 0.00 3.67
597 637 1.077169 GGGGAGAGGGATTTGTTTGGT 59.923 52.381 0.00 0.00 0.00 3.67
598 638 1.359130 AGGGGAGAGGGATTTGTTTGG 59.641 52.381 0.00 0.00 0.00 3.28
599 639 2.225117 ACAGGGGAGAGGGATTTGTTTG 60.225 50.000 0.00 0.00 0.00 2.93
600 640 2.073776 ACAGGGGAGAGGGATTTGTTT 58.926 47.619 0.00 0.00 0.00 2.83
601 641 1.760405 ACAGGGGAGAGGGATTTGTT 58.240 50.000 0.00 0.00 0.00 2.83
602 642 1.636003 GAACAGGGGAGAGGGATTTGT 59.364 52.381 0.00 0.00 0.00 2.83
603 643 1.064389 GGAACAGGGGAGAGGGATTTG 60.064 57.143 0.00 0.00 0.00 2.32
604 644 1.299939 GGAACAGGGGAGAGGGATTT 58.700 55.000 0.00 0.00 0.00 2.17
605 645 0.624795 GGGAACAGGGGAGAGGGATT 60.625 60.000 0.00 0.00 0.00 3.01
606 646 1.004891 GGGAACAGGGGAGAGGGAT 59.995 63.158 0.00 0.00 0.00 3.85
607 647 2.454941 GGGAACAGGGGAGAGGGA 59.545 66.667 0.00 0.00 0.00 4.20
608 648 2.124996 TGGGAACAGGGGAGAGGG 59.875 66.667 0.00 0.00 35.01 4.30
619 659 1.144936 CGCAGGGAGAGATGGGAAC 59.855 63.158 0.00 0.00 0.00 3.62
620 660 1.306141 ACGCAGGGAGAGATGGGAA 60.306 57.895 0.00 0.00 33.86 3.97
621 661 1.758514 GACGCAGGGAGAGATGGGA 60.759 63.158 0.00 0.00 33.86 4.37
622 662 2.818132 GACGCAGGGAGAGATGGG 59.182 66.667 0.00 0.00 35.64 4.00
623 663 2.415010 CGACGCAGGGAGAGATGG 59.585 66.667 0.00 0.00 0.00 3.51
624 664 2.279120 GCGACGCAGGGAGAGATG 60.279 66.667 16.42 0.00 0.00 2.90
625 665 2.755876 TGCGACGCAGGGAGAGAT 60.756 61.111 20.50 0.00 33.32 2.75
637 677 3.296709 TTCCTCTTCCGGCTGCGAC 62.297 63.158 0.00 0.00 0.00 5.19
638 678 2.994995 TTCCTCTTCCGGCTGCGA 60.995 61.111 0.00 0.00 0.00 5.10
639 679 2.510238 CTTCCTCTTCCGGCTGCG 60.510 66.667 0.00 0.00 0.00 5.18
640 680 2.124942 CCTTCCTCTTCCGGCTGC 60.125 66.667 0.00 0.00 0.00 5.25
654 694 0.036294 GGGTTGCTTCTACTCGCCTT 60.036 55.000 0.00 0.00 0.00 4.35
662 702 1.741055 CGTAATGGCGGGTTGCTTCTA 60.741 52.381 0.00 0.00 45.43 2.10
693 733 3.381333 TAGGCGAGACGAGGCGAGA 62.381 63.158 0.00 0.00 39.33 4.04
696 736 4.615834 GCTAGGCGAGACGAGGCG 62.616 72.222 0.00 0.00 39.33 5.52
713 753 4.769063 TATGGTGGTGGTGCGCGG 62.769 66.667 8.83 0.00 0.00 6.46
725 765 1.141053 GAGAGGCCAACGGAATATGGT 59.859 52.381 5.01 0.00 39.00 3.55
726 766 1.543429 GGAGAGGCCAACGGAATATGG 60.543 57.143 5.01 0.00 39.80 2.74
770 817 2.875317 GGCTATCAGCTAAAACTGGCTC 59.125 50.000 0.00 0.00 41.99 4.70
771 818 2.422093 GGGCTATCAGCTAAAACTGGCT 60.422 50.000 0.00 0.00 41.99 4.75
773 820 2.576615 GGGGCTATCAGCTAAAACTGG 58.423 52.381 0.00 0.00 41.99 4.00
1567 1640 2.821991 ACTCTCTTGGTTTCACTCCG 57.178 50.000 0.00 0.00 0.00 4.63
1618 1691 6.317893 GGGCCGAGATCTGAAATTAAACTAAA 59.682 38.462 0.00 0.00 0.00 1.85
1733 1808 4.531854 TCCTTTCAAATCCAACAGTGTGA 58.468 39.130 0.00 0.00 0.00 3.58
1750 1825 7.724061 TCAAAAGCAAGGTAGAACTATTCCTTT 59.276 33.333 0.00 0.00 38.09 3.11
1765 1840 5.738118 TTGCAAGATTTTCAAAAGCAAGG 57.262 34.783 0.12 0.00 35.81 3.61
2212 2305 8.667737 AGAGAATGAAGATCCTATATTTTGGCT 58.332 33.333 0.00 0.00 0.00 4.75
2673 2766 6.265196 ACAAACCAACATTCAAGCTCTTATGA 59.735 34.615 8.40 0.00 0.00 2.15
2914 3008 1.423541 ACCAAAGGCATCAGTGTGGTA 59.576 47.619 0.00 0.00 37.60 3.25
3125 3382 6.092670 GCTAGAAAGCTTACACATCACAATCA 59.907 38.462 0.00 0.00 45.85 2.57
3168 3425 4.497674 GCCATATCAGCAGCTTGAGAAAAG 60.498 45.833 0.00 0.00 0.00 2.27
3223 3480 4.699735 CACATCTACAGCACCAAAATACCA 59.300 41.667 0.00 0.00 0.00 3.25
3238 3495 7.041721 TGACATCCAACAGAATACACATCTAC 58.958 38.462 0.00 0.00 0.00 2.59
3435 3692 6.677781 TGTTTTACCAACAGAAGAAGTCAG 57.322 37.500 0.00 0.00 0.00 3.51
3567 3825 8.648557 TGAATGATTCTGGTAACTTCTTATCG 57.351 34.615 6.73 0.00 37.61 2.92
3964 4226 5.827568 AAATTGTGTGCGAGCTAATTTTG 57.172 34.783 0.00 0.00 29.44 2.44
3980 4242 8.862325 TGTAGAACATGGATCTGTAAAATTGT 57.138 30.769 12.17 0.00 0.00 2.71
4032 4793 7.626084 TCAATTCCTAGGTGATACTTTCCCTAA 59.374 37.037 9.08 0.00 31.10 2.69
4033 4794 7.136885 TCAATTCCTAGGTGATACTTTCCCTA 58.863 38.462 9.08 0.00 0.00 3.53
4119 4880 6.421485 ACAGCAGACATTCCTATCTCAAATT 58.579 36.000 0.00 0.00 0.00 1.82
4252 5013 0.397941 AAGTTAGCTGCTGAGGCACA 59.602 50.000 13.43 0.00 44.28 4.57
4280 5041 6.905578 ACTACCCGTATCACAAAACAAATTC 58.094 36.000 0.00 0.00 0.00 2.17
4605 5376 7.569111 ACCCCTAGTGAAATGTGAGTTAGATAT 59.431 37.037 0.00 0.00 0.00 1.63
4675 5447 6.939730 CCAAAAATGGCAAGGTAAAAGGTAAT 59.060 34.615 0.00 0.00 0.00 1.89
4746 5518 9.507280 CAAACCAGTATATAACAAATCAAGCTG 57.493 33.333 0.00 0.00 0.00 4.24
4781 5553 2.195567 GCCAGCAAGGACAAGTGCA 61.196 57.895 0.00 0.00 43.42 4.57
4807 5579 7.389053 CCAGGAATAATAGCCATGAACTAAGAC 59.611 40.741 0.00 0.00 0.00 3.01
5524 6296 6.763135 CAGCCACTTGTAATAGATAGAAAGCA 59.237 38.462 0.00 0.00 0.00 3.91
5751 6618 9.628746 CATTTTCACATCATTGTTCTATTGTGA 57.371 29.630 0.00 0.00 41.03 3.58
5786 6653 1.901833 AGTTTGCCCCAACCATCAATC 59.098 47.619 0.00 0.00 0.00 2.67
5789 6656 0.187117 TGAGTTTGCCCCAACCATCA 59.813 50.000 0.00 0.00 0.00 3.07
5827 6694 5.408604 GCATAACCTAATACTCCAACCATCG 59.591 44.000 0.00 0.00 0.00 3.84
5828 6695 6.296026 TGCATAACCTAATACTCCAACCATC 58.704 40.000 0.00 0.00 0.00 3.51
5831 6698 4.515567 GCTGCATAACCTAATACTCCAACC 59.484 45.833 0.00 0.00 0.00 3.77
5832 6699 4.515567 GGCTGCATAACCTAATACTCCAAC 59.484 45.833 0.50 0.00 0.00 3.77
5833 6700 4.165180 TGGCTGCATAACCTAATACTCCAA 59.835 41.667 0.50 0.00 0.00 3.53
5834 6701 3.714280 TGGCTGCATAACCTAATACTCCA 59.286 43.478 0.50 0.00 0.00 3.86
5835 6702 4.351874 TGGCTGCATAACCTAATACTCC 57.648 45.455 0.50 0.00 0.00 3.85
5836 6703 5.765182 ACATTGGCTGCATAACCTAATACTC 59.235 40.000 0.50 0.00 0.00 2.59
5837 6704 5.532406 CACATTGGCTGCATAACCTAATACT 59.468 40.000 0.50 0.00 0.00 2.12
6126 7013 4.883585 AGAATGAATGTGGCAATCGTACAT 59.116 37.500 0.00 0.00 36.66 2.29
6129 7016 3.065233 GCAGAATGAATGTGGCAATCGTA 59.935 43.478 0.00 0.00 39.69 3.43
6415 7302 0.451783 CCACAGCGCCATTAACCTTC 59.548 55.000 2.29 0.00 0.00 3.46
6421 7308 0.541392 ATGTCTCCACAGCGCCATTA 59.459 50.000 2.29 0.00 35.41 1.90
6427 7314 1.079612 TCTGCATGTCTCCACAGCG 60.080 57.895 0.00 0.00 35.41 5.18
6560 7447 4.525024 CTCCAAGCTTCCAGATCAAAGAT 58.475 43.478 0.00 0.00 0.00 2.40
6592 7479 8.751215 ACCAGAAATGGTATGTATCCCTAATA 57.249 34.615 0.00 0.00 41.04 0.98
6642 7529 9.565213 CTGATTAAACTTAGGAGATTTTTGCAG 57.435 33.333 0.00 0.00 0.00 4.41
6701 7588 4.341806 TGTGTGGTTCTTCAAAGCATCAAT 59.658 37.500 0.00 0.00 0.00 2.57
6752 7639 7.718272 ACATTTTCAAGTTGGAAATGACATG 57.282 32.000 38.73 23.63 36.71 3.21
6885 7772 7.040409 AGGATTGCAGATACGGAAATAAAATCC 60.040 37.037 6.64 6.64 39.62 3.01
6898 7785 4.256920 AGACAACACAGGATTGCAGATAC 58.743 43.478 0.00 0.00 0.00 2.24
6965 7852 4.927267 ACCATTCTTCATACCCAAGTGA 57.073 40.909 0.00 0.00 0.00 3.41
6984 7871 6.554334 TTGAAACAATAGCTGTGAGTAACC 57.446 37.500 0.00 0.00 38.67 2.85
6995 7882 8.268738 CACAAAGTTTAAGCTTGAAACAATAGC 58.731 33.333 22.31 6.07 38.91 2.97
6998 7885 8.819974 CATCACAAAGTTTAAGCTTGAAACAAT 58.180 29.630 22.31 13.78 38.91 2.71
7272 8159 1.396653 AAGCAATGTCTAGCCATGGC 58.603 50.000 30.12 30.12 41.30 4.40
7988 8885 1.351350 GAGTAGGTGTTTGCTTCCCCT 59.649 52.381 0.00 0.00 0.00 4.79
8066 8963 0.680921 ATGTCCATTTGGGTCAGCCG 60.681 55.000 0.00 0.00 38.12 5.52
8070 8967 0.251121 ACGCATGTCCATTTGGGTCA 60.251 50.000 0.00 0.00 39.08 4.02
8078 8975 2.330231 CGAACAAAACGCATGTCCAT 57.670 45.000 0.00 0.00 0.00 3.41
8096 8993 3.488489 CGACCCAAACAGATAAAAAGCG 58.512 45.455 0.00 0.00 0.00 4.68
8139 9870 6.405397 GCATATACCGACCCAAATCAAAAAGT 60.405 38.462 0.00 0.00 0.00 2.66
8179 9917 1.354337 CGGACATCTCACAACTGCGG 61.354 60.000 0.00 0.00 0.00 5.69
8193 9931 1.582610 GAAATGCCGGAAAGCGGACA 61.583 55.000 5.05 0.00 34.65 4.02
8334 10072 3.440415 GGCCAAGTTGTAGCGCCC 61.440 66.667 2.29 0.00 33.30 6.13
8341 10079 4.850193 CCATGGAGGCCAAGTTGT 57.150 55.556 5.56 0.00 36.95 3.32


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

AutoCloner maintained by Alex Coulton.