Multiple sequence alignment - TraesCS4D01G263200

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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 TraesCS4D01G263200 chr4D 100.000 6119 0 0 1 6119 434267418 434273536 0.000000e+00 11300.0
1 TraesCS4D01G263200 chr4B 95.725 2994 85 14 871 3860 533491961 533494915 0.000000e+00 4780.0
2 TraesCS4D01G263200 chr4B 94.216 1608 74 9 3839 5430 533494923 533496527 0.000000e+00 2436.0
3 TraesCS4D01G263200 chr4B 89.043 648 42 13 5487 6119 533497834 533498467 0.000000e+00 776.0
4 TraesCS4D01G263200 chr4B 93.274 446 15 8 1 434 533490951 533491393 1.440000e-180 643.0
5 TraesCS4D01G263200 chr4B 96.471 85 3 0 514 598 533491449 533491533 2.300000e-29 141.0
6 TraesCS4D01G263200 chr4A 93.665 2052 74 23 630 2652 35618676 35620700 0.000000e+00 3018.0
7 TraesCS4D01G263200 chr4A 93.617 1457 80 6 3975 5419 35623419 35624874 0.000000e+00 2163.0
8 TraesCS4D01G263200 chr4A 85.924 1023 92 22 2039 3054 35621498 35622475 0.000000e+00 1044.0
9 TraesCS4D01G263200 chr4A 88.488 886 65 12 3099 3970 35622468 35623330 0.000000e+00 1037.0
10 TraesCS4D01G263200 chr4A 95.584 385 11 2 1 382 35617905 35618286 4.050000e-171 612.0
11 TraesCS4D01G263200 chr4A 87.432 549 38 18 5581 6119 35625002 35625529 2.440000e-168 603.0
12 TraesCS4D01G263200 chr4A 89.859 355 28 6 1665 2018 35620723 35621070 3.360000e-122 449.0
13 TraesCS4D01G263200 chr1D 96.296 54 2 0 2051 2104 439195386 439195333 8.450000e-14 89.8
14 TraesCS4D01G263200 chr2D 90.476 63 5 1 2043 2104 523616960 523617022 1.410000e-11 82.4
15 TraesCS4D01G263200 chr2A 88.889 63 6 1 2043 2104 669421668 669421730 6.580000e-10 76.8
16 TraesCS4D01G263200 chr2B 90.741 54 5 0 2051 2104 617870626 617870679 8.510000e-09 73.1
17 TraesCS4D01G263200 chr6D 95.455 44 2 0 2051 2094 25929193 25929150 3.060000e-08 71.3
18 TraesCS4D01G263200 chr6B 95.455 44 2 0 2051 2094 42397825 42397782 3.060000e-08 71.3


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 TraesCS4D01G263200 chr4D 434267418 434273536 6118 False 11300.000000 11300 100.000000 1 6119 1 chr4D.!!$F1 6118
1 TraesCS4D01G263200 chr4B 533490951 533498467 7516 False 1755.200000 4780 93.745800 1 6119 5 chr4B.!!$F1 6118
2 TraesCS4D01G263200 chr4A 35617905 35625529 7624 False 1275.142857 3018 90.652714 1 6119 7 chr4A.!!$F1 6118

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
468 481 0.038892 CCATTGTTGGCTGCTGACAC 60.039 55.000 0.00 0.0 35.85 3.67 F
473 486 0.100503 GTTGGCTGCTGACACGTTTT 59.899 50.000 0.00 0.0 0.00 2.43 F
703 1000 0.106918 ACCGAGCAGGGAGACTAGAG 60.107 60.000 0.00 0.0 46.96 2.43 F
2136 2476 0.165944 GTCAATGGCTGAACCGAACG 59.834 55.000 0.00 0.0 43.94 3.95 F
2470 2813 1.065854 GCAGTGAGTCTGGTATGCCTT 60.066 52.381 0.16 0.0 43.78 4.35 F
2542 2885 2.166050 TCATTGCCATAACACCACATGC 59.834 45.455 0.00 0.0 0.00 4.06 F
2838 4565 2.962421 TGTTTGATTTGGAACTCCCACC 59.038 45.455 0.00 0.0 46.62 4.61 F
4716 6574 1.821088 AGAAAACCACTCCTCCTGGT 58.179 50.000 0.00 0.0 44.39 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1658 1997 1.200020 GCACGGGAGAATTTGGAACAG 59.800 52.381 0.00 0.0 42.39 3.16 R
2140 2480 2.049433 ACTCGGCGTTCGGTTCAG 60.049 61.111 6.85 0.0 39.77 3.02 R
2542 2885 0.303493 CTGTCAACAACCAACCGTCG 59.697 55.000 0.00 0.0 0.00 5.12 R
3615 5352 0.455464 GGTACGCGCCATGGTTTTTC 60.455 55.000 14.67 0.0 0.00 2.29 R
4029 5887 2.175878 ACAGAATATGGATCAGCGCC 57.824 50.000 2.29 0.0 0.00 6.53 R
4288 6146 2.802816 CAAGTTCCTGAGGAAACGACAG 59.197 50.000 16.79 0.0 43.86 3.51 R
4723 6584 0.322456 TCACGGGGCTCATTCTTTGG 60.322 55.000 0.00 0.0 0.00 3.28 R
5983 9136 0.319297 ACGAGAACACGGCCTACAAC 60.319 55.000 0.00 0.0 37.61 3.32 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
83 87 6.577103 TCAGGTAAATGAGAGCTGATACTTG 58.423 40.000 0.00 0.00 44.33 3.16
154 158 3.055891 AGCTTGACAACTGTTTTGCCTTT 60.056 39.130 0.00 0.00 0.00 3.11
197 201 7.987649 AGTAGAGGTTAGTTAAGATCAAGTCG 58.012 38.462 0.00 0.00 0.00 4.18
198 202 5.652518 AGAGGTTAGTTAAGATCAAGTCGC 58.347 41.667 0.00 0.00 0.00 5.19
199 203 5.185249 AGAGGTTAGTTAAGATCAAGTCGCA 59.815 40.000 0.00 0.00 0.00 5.10
386 399 3.674753 CCGATCTTTTTGGTTGTGAATGC 59.325 43.478 0.00 0.00 0.00 3.56
414 427 0.931662 GCAGCTGCTGACACGTTTTG 60.932 55.000 32.30 3.79 38.21 2.44
416 429 1.094785 AGCTGCTGACACGTTTTGTT 58.905 45.000 0.00 0.00 39.17 2.83
417 430 1.472480 AGCTGCTGACACGTTTTGTTT 59.528 42.857 0.00 0.00 39.17 2.83
442 455 7.551035 TTTTGAATTGGAACTTTGATGTTGG 57.449 32.000 0.00 0.00 0.00 3.77
443 456 5.867903 TGAATTGGAACTTTGATGTTGGT 57.132 34.783 0.00 0.00 0.00 3.67
445 458 6.648192 TGAATTGGAACTTTGATGTTGGTTT 58.352 32.000 0.00 0.00 0.00 3.27
446 459 7.108847 TGAATTGGAACTTTGATGTTGGTTTT 58.891 30.769 0.00 0.00 0.00 2.43
447 460 7.279758 TGAATTGGAACTTTGATGTTGGTTTTC 59.720 33.333 0.00 0.00 0.00 2.29
449 462 5.901552 TGGAACTTTGATGTTGGTTTTCTC 58.098 37.500 0.00 0.00 0.00 2.87
451 464 5.163457 GGAACTTTGATGTTGGTTTTCTCCA 60.163 40.000 0.00 0.00 35.49 3.86
452 465 6.462909 GGAACTTTGATGTTGGTTTTCTCCAT 60.463 38.462 0.00 0.00 37.33 3.41
453 466 6.484364 ACTTTGATGTTGGTTTTCTCCATT 57.516 33.333 0.00 0.00 37.33 3.16
454 467 6.282930 ACTTTGATGTTGGTTTTCTCCATTG 58.717 36.000 0.00 0.00 37.33 2.82
455 468 5.867903 TTGATGTTGGTTTTCTCCATTGT 57.132 34.783 0.00 0.00 37.33 2.71
456 469 5.867903 TGATGTTGGTTTTCTCCATTGTT 57.132 34.783 0.00 0.00 37.33 2.83
457 470 5.599732 TGATGTTGGTTTTCTCCATTGTTG 58.400 37.500 0.00 0.00 37.33 3.33
458 471 4.399004 TGTTGGTTTTCTCCATTGTTGG 57.601 40.909 0.00 0.00 45.15 3.77
459 472 3.130633 GTTGGTTTTCTCCATTGTTGGC 58.869 45.455 0.00 0.00 43.29 4.52
460 473 2.676748 TGGTTTTCTCCATTGTTGGCT 58.323 42.857 0.00 0.00 43.29 4.75
461 474 2.364970 TGGTTTTCTCCATTGTTGGCTG 59.635 45.455 0.00 0.00 43.29 4.85
462 475 2.407090 GTTTTCTCCATTGTTGGCTGC 58.593 47.619 0.00 0.00 43.29 5.25
463 476 1.999648 TTTCTCCATTGTTGGCTGCT 58.000 45.000 0.00 0.00 43.29 4.24
464 477 1.250328 TTCTCCATTGTTGGCTGCTG 58.750 50.000 0.00 0.00 43.29 4.41
465 478 0.401356 TCTCCATTGTTGGCTGCTGA 59.599 50.000 0.00 0.00 43.29 4.26
466 479 0.524862 CTCCATTGTTGGCTGCTGAC 59.475 55.000 0.00 0.00 43.29 3.51
467 480 0.178995 TCCATTGTTGGCTGCTGACA 60.179 50.000 0.00 0.00 43.29 3.58
468 481 0.038892 CCATTGTTGGCTGCTGACAC 60.039 55.000 0.00 0.00 35.85 3.67
469 482 0.386352 CATTGTTGGCTGCTGACACG 60.386 55.000 0.00 0.00 0.00 4.49
470 483 0.819259 ATTGTTGGCTGCTGACACGT 60.819 50.000 0.00 0.00 0.00 4.49
471 484 1.029408 TTGTTGGCTGCTGACACGTT 61.029 50.000 0.00 0.00 0.00 3.99
472 485 1.029408 TGTTGGCTGCTGACACGTTT 61.029 50.000 0.00 0.00 0.00 3.60
473 486 0.100503 GTTGGCTGCTGACACGTTTT 59.899 50.000 0.00 0.00 0.00 2.43
474 487 0.814457 TTGGCTGCTGACACGTTTTT 59.186 45.000 0.00 0.00 0.00 1.94
575 597 6.777213 TCTGGACTCCTTTATACTCTGTTC 57.223 41.667 0.00 0.00 0.00 3.18
598 620 9.391006 GTTCCATATGTTCCTTTGTGTATCTAA 57.609 33.333 1.24 0.00 0.00 2.10
629 651 5.521906 TCAATCGATAGCTTTGCTACTCT 57.478 39.130 0.00 0.00 44.24 3.24
703 1000 0.106918 ACCGAGCAGGGAGACTAGAG 60.107 60.000 0.00 0.00 46.96 2.43
739 1036 6.049955 TCAGGAGTTTAGGGATGTGTTTAG 57.950 41.667 0.00 0.00 0.00 1.85
757 1054 6.541278 GTGTTTAGAAAGGGTTGTACTGAAGT 59.459 38.462 0.00 0.00 0.00 3.01
758 1055 7.066645 GTGTTTAGAAAGGGTTGTACTGAAGTT 59.933 37.037 0.00 0.00 0.00 2.66
759 1056 7.612633 TGTTTAGAAAGGGTTGTACTGAAGTTT 59.387 33.333 0.00 0.00 0.00 2.66
761 1058 9.856162 TTTAGAAAGGGTTGTACTGAAGTTTAT 57.144 29.630 0.00 0.00 0.00 1.40
762 1059 9.856162 TTAGAAAGGGTTGTACTGAAGTTTATT 57.144 29.630 0.00 0.00 0.00 1.40
764 1061 9.281371 AGAAAGGGTTGTACTGAAGTTTATTAC 57.719 33.333 0.00 0.00 0.00 1.89
765 1062 9.281371 GAAAGGGTTGTACTGAAGTTTATTACT 57.719 33.333 0.00 0.00 39.32 2.24
766 1063 8.617290 AAGGGTTGTACTGAAGTTTATTACTG 57.383 34.615 0.00 0.00 37.12 2.74
858 1164 2.886081 GAGTAGTCGAGTGTACCGAGA 58.114 52.381 2.10 0.00 36.66 4.04
859 1165 2.602660 GAGTAGTCGAGTGTACCGAGAC 59.397 54.545 2.10 0.00 36.66 3.36
860 1166 1.663135 GTAGTCGAGTGTACCGAGACC 59.337 57.143 2.10 0.00 36.66 3.85
861 1167 1.018226 AGTCGAGTGTACCGAGACCG 61.018 60.000 0.00 0.00 36.66 4.79
862 1168 1.016130 GTCGAGTGTACCGAGACCGA 61.016 60.000 0.00 0.00 36.66 4.69
863 1169 0.738762 TCGAGTGTACCGAGACCGAG 60.739 60.000 0.00 0.00 38.22 4.63
864 1170 0.738762 CGAGTGTACCGAGACCGAGA 60.739 60.000 0.00 0.00 38.22 4.04
865 1171 1.008329 GAGTGTACCGAGACCGAGAG 58.992 60.000 0.00 0.00 38.22 3.20
1658 1997 2.659279 GCGCTCGTGCTCTCTTTATATC 59.341 50.000 7.97 0.00 36.97 1.63
1772 2112 8.633561 AGTTAAGTTCTGAAAAGAAAAGATGGG 58.366 33.333 0.00 0.00 0.00 4.00
1828 2168 4.989279 AAATTGGGGATCTTGTTCATCG 57.011 40.909 0.00 0.00 0.00 3.84
1839 2179 8.713271 GGGATCTTGTTCATCGATTCTTATAAC 58.287 37.037 0.00 0.00 0.00 1.89
1843 2183 9.745880 TCTTGTTCATCGATTCTTATAACCTAC 57.254 33.333 0.00 0.00 0.00 3.18
1847 2187 7.142306 TCATCGATTCTTATAACCTACTCCG 57.858 40.000 0.00 0.00 0.00 4.63
1913 2253 9.797642 ATAGAATTGTTGTTGGATGATATGCTA 57.202 29.630 0.00 0.00 0.00 3.49
1956 2296 4.689062 AGGACCAAAGTCTCTAATCTCCA 58.311 43.478 0.00 0.00 43.05 3.86
1990 2330 5.958987 ACTGAAATGGCTCTACCTAGTAGTT 59.041 40.000 1.94 0.00 40.22 2.24
2127 2467 4.789012 AAACCACATTAGTCAATGGCTG 57.211 40.909 0.00 0.00 44.97 4.85
2128 2468 3.719268 ACCACATTAGTCAATGGCTGA 57.281 42.857 0.00 0.00 44.97 4.26
2129 2469 4.032960 ACCACATTAGTCAATGGCTGAA 57.967 40.909 0.00 0.00 44.97 3.02
2130 2470 3.758554 ACCACATTAGTCAATGGCTGAAC 59.241 43.478 0.00 0.00 44.97 3.18
2131 2471 3.129287 CCACATTAGTCAATGGCTGAACC 59.871 47.826 0.00 0.00 44.97 3.62
2132 2472 3.009723 ACATTAGTCAATGGCTGAACCG 58.990 45.455 0.00 0.00 44.97 4.44
2133 2473 3.270027 CATTAGTCAATGGCTGAACCGA 58.730 45.455 0.00 0.00 43.94 4.69
2134 2474 3.410631 TTAGTCAATGGCTGAACCGAA 57.589 42.857 0.00 0.00 43.94 4.30
2135 2475 1.523758 AGTCAATGGCTGAACCGAAC 58.476 50.000 0.00 0.00 43.94 3.95
2136 2476 0.165944 GTCAATGGCTGAACCGAACG 59.834 55.000 0.00 0.00 43.94 3.95
2137 2477 1.154225 CAATGGCTGAACCGAACGC 60.154 57.895 0.00 0.00 43.94 4.84
2138 2478 2.332654 AATGGCTGAACCGAACGCC 61.333 57.895 0.00 0.00 43.94 5.68
2470 2813 1.065854 GCAGTGAGTCTGGTATGCCTT 60.066 52.381 0.16 0.00 43.78 4.35
2501 2844 9.869757 GAGCATATTTTAACCATGTTTACCTTT 57.130 29.630 0.00 0.00 0.00 3.11
2542 2885 2.166050 TCATTGCCATAACACCACATGC 59.834 45.455 0.00 0.00 0.00 4.06
2695 4421 7.654520 GGTCGTATGTATGTATTAAGCCAGAAA 59.345 37.037 0.00 0.00 0.00 2.52
2698 4424 8.487970 CGTATGTATGTATTAAGCCAGAAAGTG 58.512 37.037 0.00 0.00 0.00 3.16
2838 4565 2.962421 TGTTTGATTTGGAACTCCCACC 59.038 45.455 0.00 0.00 46.62 4.61
2839 4566 2.962421 GTTTGATTTGGAACTCCCACCA 59.038 45.455 0.00 0.00 46.62 4.17
2862 4589 3.887868 CGGGCAATAAGGGCGCAC 61.888 66.667 10.83 5.15 43.60 5.34
2980 4707 9.604626 GACTGAATGATGTTTGCTTATAATAGC 57.395 33.333 0.00 0.00 41.59 2.97
3298 5028 4.021981 GGCAAAGAATAAAAGGCACTGAGT 60.022 41.667 0.00 0.00 40.86 3.41
3302 5032 7.522236 GCAAAGAATAAAAGGCACTGAGTTAGT 60.522 37.037 0.00 0.00 40.86 2.24
3323 5058 4.161565 AGTGTTAGCCCATTAATCGACTGA 59.838 41.667 0.00 0.00 0.00 3.41
3351 5086 5.787953 TTTTCATGATTGGCTCAAAGTCA 57.212 34.783 0.00 0.00 37.44 3.41
3505 5242 6.128063 GCTGCCTAATTAATCTGCTAATCCTG 60.128 42.308 0.00 0.00 0.00 3.86
3663 5400 4.937620 GTGCATGTGGAGAGACATAAAAGA 59.062 41.667 0.00 0.00 34.69 2.52
3721 5460 7.226720 AGAGATCAAAAAGTGACATACGTGTTT 59.773 33.333 0.00 0.00 39.72 2.83
3772 5511 6.295575 CCTCAAGTATAGGAGATTCATGGTCC 60.296 46.154 0.00 0.00 36.08 4.46
3970 5741 9.964253 CTGTATTGCGCTTTTCTCATATATAAG 57.036 33.333 9.73 0.00 0.00 1.73
4288 6146 4.219725 TGGCCCTGCTTTTAACATACTTTC 59.780 41.667 0.00 0.00 0.00 2.62
4587 6445 4.331443 ACAAACATATATTCAGCGCGTTCA 59.669 37.500 8.43 0.00 0.00 3.18
4590 6448 4.306600 ACATATATTCAGCGCGTTCATCA 58.693 39.130 8.43 0.00 0.00 3.07
4611 6469 7.336679 TCATCAAGCGGAAAAGATCTTTATCAA 59.663 33.333 20.76 2.96 34.28 2.57
4626 6484 5.470098 TCTTTATCAAGACAAGTTGCTGGAC 59.530 40.000 1.81 0.00 33.80 4.02
4705 6563 7.502060 AGAGAGGATGAAGATAAGAAAACCA 57.498 36.000 0.00 0.00 0.00 3.67
4716 6574 1.821088 AGAAAACCACTCCTCCTGGT 58.179 50.000 0.00 0.00 44.39 4.00
4723 6584 1.920835 ACTCCTCCTGGTTGGCCTC 60.921 63.158 3.32 0.00 35.26 4.70
4729 6590 1.065410 TCCTGGTTGGCCTCCAAAGA 61.065 55.000 18.08 15.02 45.73 2.52
4739 6600 0.749454 CCTCCAAAGAATGAGCCCCG 60.749 60.000 0.00 0.00 0.00 5.73
4755 6616 1.227823 CCGTGACTTGAACCAGGCA 60.228 57.895 0.00 0.00 0.00 4.75
4776 6637 4.776322 TGGCAGCCGAATGTCCCG 62.776 66.667 7.03 0.00 0.00 5.14
5070 6931 1.072505 GTCTGGGCGTGGGAAAAGA 59.927 57.895 0.00 0.00 0.00 2.52
5313 7176 9.341899 GTTCTCATAATGTTTCATGTAACCAAC 57.658 33.333 12.08 1.31 0.00 3.77
5314 7177 7.747888 TCTCATAATGTTTCATGTAACCAACG 58.252 34.615 12.08 0.00 0.00 4.10
5315 7178 7.389330 TCTCATAATGTTTCATGTAACCAACGT 59.611 33.333 12.08 0.00 0.00 3.99
5318 7181 2.033550 TGTTTCATGTAACCAACGTGCC 59.966 45.455 12.08 0.00 43.65 5.01
5320 7183 2.264005 TCATGTAACCAACGTGCCTT 57.736 45.000 0.00 0.00 43.65 4.35
5321 7184 2.577700 TCATGTAACCAACGTGCCTTT 58.422 42.857 0.00 0.00 43.65 3.11
5322 7185 2.952978 TCATGTAACCAACGTGCCTTTT 59.047 40.909 0.00 0.00 43.65 2.27
5375 7245 2.137523 GAAAACAGCAGCACCCATTTG 58.862 47.619 0.00 0.00 0.00 2.32
5384 7254 1.963679 CACCCATTTGGAACACGGG 59.036 57.895 0.00 0.00 39.29 5.28
5386 7256 1.981853 CCCATTTGGAACACGGGGG 60.982 63.158 0.00 0.00 39.29 5.40
5392 7262 1.102222 TTGGAACACGGGGGTTTTCG 61.102 55.000 0.00 0.00 39.29 3.46
5404 7274 1.940613 GGGTTTTCGATGGATCTTCCG 59.059 52.381 0.00 0.00 40.17 4.30
5420 7290 2.068834 TCCGGTAGTTGATCCTCTCC 57.931 55.000 0.00 0.00 0.00 3.71
5430 7300 4.225942 AGTTGATCCTCTCCTGCAACATTA 59.774 41.667 0.00 0.00 40.80 1.90
5432 7302 4.965814 TGATCCTCTCCTGCAACATTATC 58.034 43.478 0.00 0.00 0.00 1.75
5434 7304 2.766263 TCCTCTCCTGCAACATTATCGT 59.234 45.455 0.00 0.00 0.00 3.73
5435 7305 3.126831 CCTCTCCTGCAACATTATCGTC 58.873 50.000 0.00 0.00 0.00 4.20
5440 7310 7.284919 TCTCCTGCAACATTATCGTCTAATA 57.715 36.000 0.00 0.00 0.00 0.98
5441 7311 7.371159 TCTCCTGCAACATTATCGTCTAATAG 58.629 38.462 0.00 0.00 0.00 1.73
5443 7313 6.923508 TCCTGCAACATTATCGTCTAATAGTG 59.076 38.462 0.00 0.00 0.00 2.74
5445 7315 7.115520 CCTGCAACATTATCGTCTAATAGTGAG 59.884 40.741 0.00 0.00 0.00 3.51
5446 7316 7.712797 TGCAACATTATCGTCTAATAGTGAGA 58.287 34.615 0.00 0.00 0.00 3.27
5447 7317 8.360390 TGCAACATTATCGTCTAATAGTGAGAT 58.640 33.333 0.00 0.00 0.00 2.75
5448 7318 9.841880 GCAACATTATCGTCTAATAGTGAGATA 57.158 33.333 0.00 0.00 0.00 1.98
5454 7324 6.436738 TCGTCTAATAGTGAGATACTCCCT 57.563 41.667 0.00 0.00 40.89 4.20
5455 7325 6.465948 TCGTCTAATAGTGAGATACTCCCTC 58.534 44.000 0.00 0.00 40.89 4.30
5456 7326 5.644636 CGTCTAATAGTGAGATACTCCCTCC 59.355 48.000 0.00 0.00 40.89 4.30
5458 7328 4.456662 AATAGTGAGATACTCCCTCCGT 57.543 45.455 0.00 0.00 40.89 4.69
5460 7330 2.657143 AGTGAGATACTCCCTCCGTTC 58.343 52.381 0.00 0.00 33.17 3.95
5461 7331 1.334243 GTGAGATACTCCCTCCGTTCG 59.666 57.143 0.00 0.00 0.00 3.95
5463 7333 0.549950 AGATACTCCCTCCGTTCGGA 59.450 55.000 13.34 13.34 0.00 4.55
5464 7334 0.667453 GATACTCCCTCCGTTCGGAC 59.333 60.000 10.00 0.00 0.00 4.79
5465 7335 0.033796 ATACTCCCTCCGTTCGGACA 60.034 55.000 10.00 0.00 0.00 4.02
5466 7336 0.962356 TACTCCCTCCGTTCGGACAC 60.962 60.000 10.00 0.00 0.00 3.67
5469 7339 1.374252 CCCTCCGTTCGGACACAAG 60.374 63.158 10.00 0.50 0.00 3.16
5470 7340 2.027625 CCTCCGTTCGGACACAAGC 61.028 63.158 10.00 0.00 0.00 4.01
5471 7341 1.006102 CTCCGTTCGGACACAAGCT 60.006 57.895 10.00 0.00 0.00 3.74
5472 7342 0.600255 CTCCGTTCGGACACAAGCTT 60.600 55.000 10.00 0.00 0.00 3.74
5474 7344 0.661020 CCGTTCGGACACAAGCTTTT 59.339 50.000 5.19 0.00 0.00 2.27
5475 7345 1.064952 CCGTTCGGACACAAGCTTTTT 59.935 47.619 5.19 0.00 0.00 1.94
5476 7346 2.372350 CGTTCGGACACAAGCTTTTTC 58.628 47.619 0.00 0.00 0.00 2.29
5477 7347 2.372350 GTTCGGACACAAGCTTTTTCG 58.628 47.619 0.00 0.00 0.00 3.46
5478 7348 0.941542 TCGGACACAAGCTTTTTCGG 59.058 50.000 0.00 0.00 0.00 4.30
5480 7350 1.333791 CGGACACAAGCTTTTTCGGAC 60.334 52.381 0.00 0.00 0.00 4.79
5481 7351 1.333791 GGACACAAGCTTTTTCGGACG 60.334 52.381 0.00 0.00 0.00 4.79
5483 7353 2.540931 GACACAAGCTTTTTCGGACGTA 59.459 45.455 0.00 0.00 0.00 3.57
5484 7354 2.542595 ACACAAGCTTTTTCGGACGTAG 59.457 45.455 0.00 0.00 0.00 3.51
5488 7358 1.067071 AGCTTTTTCGGACGTAGGGAG 60.067 52.381 0.00 0.00 0.00 4.30
5510 8631 5.564550 AGTACAATTGAGTTCCAAGCAGAT 58.435 37.500 13.59 0.00 38.31 2.90
5526 8647 5.485662 AGCAGATAATACAGGCGAAAAAC 57.514 39.130 0.00 0.00 0.00 2.43
5528 8649 4.095782 GCAGATAATACAGGCGAAAAACCA 59.904 41.667 0.00 0.00 0.00 3.67
5533 8654 2.279935 ACAGGCGAAAAACCACCATA 57.720 45.000 0.00 0.00 0.00 2.74
5571 8709 5.422666 TGTTGTTGCTGTATGAAGAACAG 57.577 39.130 0.00 0.00 45.80 3.16
5577 8715 1.061711 CTGTATGAAGAACAGCTGCGC 59.938 52.381 15.27 0.00 38.08 6.09
5578 8716 1.338105 TGTATGAAGAACAGCTGCGCT 60.338 47.619 15.27 8.50 40.77 5.92
5579 8717 1.325943 GTATGAAGAACAGCTGCGCTC 59.674 52.381 15.27 8.31 36.40 5.03
5595 8733 3.867493 TGCGCTCTAGATCACATTTGAAG 59.133 43.478 9.73 0.00 34.61 3.02
5703 8845 4.168291 GCCGCTCTCCCTCCCTTG 62.168 72.222 0.00 0.00 0.00 3.61
5721 8868 1.383803 GCACTCTCATCCCCTCCCT 60.384 63.158 0.00 0.00 0.00 4.20
5983 9136 2.376915 TGCGAAACTTGTAAACTGCG 57.623 45.000 0.00 0.00 0.00 5.18
5990 9143 4.806342 AACTTGTAAACTGCGTTGTAGG 57.194 40.909 0.00 0.00 0.00 3.18
5992 9145 1.515081 TGTAAACTGCGTTGTAGGCC 58.485 50.000 0.00 0.00 0.00 5.19
6026 9179 2.736682 GCGTGTAATTGCGCGGAGT 61.737 57.895 26.73 0.00 44.13 3.85
6027 9180 1.058748 CGTGTAATTGCGCGGAGTG 59.941 57.895 19.93 0.00 43.41 3.51
6028 9181 1.423845 GTGTAATTGCGCGGAGTGG 59.576 57.895 8.83 0.00 39.19 4.00
6029 9182 1.017177 GTGTAATTGCGCGGAGTGGA 61.017 55.000 8.83 0.00 39.19 4.02
6030 9183 0.739462 TGTAATTGCGCGGAGTGGAG 60.739 55.000 8.83 0.00 41.01 3.86
6037 9190 2.268920 GCGGAGTGGAGGCATTGA 59.731 61.111 0.00 0.00 0.00 2.57
6074 9228 7.462856 CGTCTATCTGTTGGAGTTTGTTATTCG 60.463 40.741 0.00 0.00 0.00 3.34
6085 9239 5.624292 AGTTTGTTATTCGGCGATTGTAAC 58.376 37.500 22.45 22.45 0.00 2.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
83 87 4.184629 CAACAGCCTGGTCTTCAGTATAC 58.815 47.826 0.00 0.00 41.83 1.47
99 103 3.304057 GGAGTGCTTTTCTACACAACAGC 60.304 47.826 0.00 0.00 39.30 4.40
154 158 8.209584 ACCTCTACTAGTATAATCACGAACAGA 58.790 37.037 2.33 0.00 0.00 3.41
197 201 7.986085 AAGATATTACAACATGGGTATCTGC 57.014 36.000 0.00 0.00 31.36 4.26
199 203 9.354673 CCAAAAGATATTACAACATGGGTATCT 57.645 33.333 0.00 0.00 32.03 1.98
325 338 8.680001 GCATAACATTGCTGATATCAATCCATA 58.320 33.333 6.90 0.00 39.57 2.74
417 430 7.609532 ACCAACATCAAAGTTCCAATTCAAAAA 59.390 29.630 0.00 0.00 0.00 1.94
427 440 5.163457 TGGAGAAAACCAACATCAAAGTTCC 60.163 40.000 0.00 0.00 36.96 3.62
428 441 5.901552 TGGAGAAAACCAACATCAAAGTTC 58.098 37.500 0.00 0.00 36.96 3.01
434 447 5.599732 CAACAATGGAGAAAACCAACATCA 58.400 37.500 0.00 0.00 43.47 3.07
451 464 0.819259 ACGTGTCAGCAGCCAACAAT 60.819 50.000 0.00 0.00 0.00 2.71
452 465 1.029408 AACGTGTCAGCAGCCAACAA 61.029 50.000 0.00 0.00 0.00 2.83
453 466 1.029408 AAACGTGTCAGCAGCCAACA 61.029 50.000 0.00 0.00 0.00 3.33
454 467 0.100503 AAAACGTGTCAGCAGCCAAC 59.899 50.000 0.00 0.00 0.00 3.77
455 468 0.814457 AAAAACGTGTCAGCAGCCAA 59.186 45.000 0.00 0.00 0.00 4.52
456 469 2.487918 AAAAACGTGTCAGCAGCCA 58.512 47.368 0.00 0.00 0.00 4.75
471 484 8.760569 GCTAAAATCGAAGTTCCAATTCAAAAA 58.239 29.630 0.00 0.00 0.00 1.94
472 485 8.141268 AGCTAAAATCGAAGTTCCAATTCAAAA 58.859 29.630 0.00 0.00 0.00 2.44
473 486 7.657336 AGCTAAAATCGAAGTTCCAATTCAAA 58.343 30.769 0.00 0.00 0.00 2.69
474 487 7.214467 AGCTAAAATCGAAGTTCCAATTCAA 57.786 32.000 0.00 0.00 0.00 2.69
475 488 6.817765 AGCTAAAATCGAAGTTCCAATTCA 57.182 33.333 0.00 0.00 0.00 2.57
476 489 8.023706 AGAAAGCTAAAATCGAAGTTCCAATTC 58.976 33.333 0.00 0.00 0.00 2.17
477 490 7.886338 AGAAAGCTAAAATCGAAGTTCCAATT 58.114 30.769 0.00 0.00 0.00 2.32
478 491 7.362142 GGAGAAAGCTAAAATCGAAGTTCCAAT 60.362 37.037 0.00 0.00 0.00 3.16
479 492 6.072673 GGAGAAAGCTAAAATCGAAGTTCCAA 60.073 38.462 0.00 0.00 0.00 3.53
480 493 5.411669 GGAGAAAGCTAAAATCGAAGTTCCA 59.588 40.000 0.00 0.00 0.00 3.53
481 494 5.411669 TGGAGAAAGCTAAAATCGAAGTTCC 59.588 40.000 0.00 0.00 0.00 3.62
482 495 6.481954 TGGAGAAAGCTAAAATCGAAGTTC 57.518 37.500 0.00 0.00 0.00 3.01
483 496 7.040409 ACAATGGAGAAAGCTAAAATCGAAGTT 60.040 33.333 0.00 0.00 0.00 2.66
488 501 5.287035 GCAACAATGGAGAAAGCTAAAATCG 59.713 40.000 0.00 0.00 0.00 3.34
495 508 1.891150 CCAGCAACAATGGAGAAAGCT 59.109 47.619 0.00 0.00 40.51 3.74
598 620 7.012704 AGCAAAGCTATCGATTGAACATGTTAT 59.987 33.333 11.95 1.81 36.99 1.89
611 633 7.444487 TCTGTTATAGAGTAGCAAAGCTATCGA 59.556 37.037 1.68 0.00 43.30 3.59
649 943 6.075918 CGAAGACAAACATGACTCAGATTTG 58.924 40.000 0.00 12.92 36.54 2.32
703 1000 9.121658 CCCTAAACTCCTGATTTATTTAGAACC 57.878 37.037 0.00 0.00 35.70 3.62
739 1036 9.281371 AGTAATAAACTTCAGTACAACCCTTTC 57.719 33.333 0.00 0.00 33.35 2.62
770 1067 8.506437 TGTTTGTTCATGTCTTTCATCATAGAC 58.494 33.333 0.00 0.00 40.89 2.59
771 1068 8.620116 TGTTTGTTCATGTCTTTCATCATAGA 57.380 30.769 0.00 0.00 34.09 1.98
772 1069 9.681692 TTTGTTTGTTCATGTCTTTCATCATAG 57.318 29.630 0.00 0.00 34.09 2.23
808 1114 0.037447 GGCTGGGATCAGGATTAGGC 59.963 60.000 0.00 0.00 41.19 3.93
854 1160 2.438614 TCCAGCCTCTCGGTCTCG 60.439 66.667 0.00 0.00 37.82 4.04
855 1161 2.781158 GCTCCAGCCTCTCGGTCTC 61.781 68.421 0.00 0.00 34.31 3.36
856 1162 2.757917 GCTCCAGCCTCTCGGTCT 60.758 66.667 0.00 0.00 34.31 3.85
857 1163 2.757917 AGCTCCAGCCTCTCGGTC 60.758 66.667 0.00 0.00 43.38 4.79
858 1164 2.757917 GAGCTCCAGCCTCTCGGT 60.758 66.667 0.87 0.00 43.38 4.69
859 1165 2.441901 AGAGCTCCAGCCTCTCGG 60.442 66.667 10.93 0.00 43.38 4.63
860 1166 1.727511 CTGAGAGCTCCAGCCTCTCG 61.728 65.000 10.93 11.06 42.64 4.04
861 1167 0.684153 ACTGAGAGCTCCAGCCTCTC 60.684 60.000 23.94 15.56 43.38 3.20
862 1168 0.628522 TACTGAGAGCTCCAGCCTCT 59.371 55.000 23.94 12.45 43.38 3.69
863 1169 1.032014 CTACTGAGAGCTCCAGCCTC 58.968 60.000 23.94 11.39 43.38 4.70
864 1170 0.396974 CCTACTGAGAGCTCCAGCCT 60.397 60.000 23.94 13.24 43.38 4.58
865 1171 0.686112 ACCTACTGAGAGCTCCAGCC 60.686 60.000 23.94 8.55 43.38 4.85
866 1172 0.744281 GACCTACTGAGAGCTCCAGC 59.256 60.000 23.94 10.90 42.49 4.85
867 1173 1.021202 CGACCTACTGAGAGCTCCAG 58.979 60.000 22.96 22.96 37.64 3.86
868 1174 0.394488 CCGACCTACTGAGAGCTCCA 60.394 60.000 10.93 7.41 0.00 3.86
869 1175 1.104577 CCCGACCTACTGAGAGCTCC 61.105 65.000 10.93 2.40 0.00 4.70
907 1213 3.685214 CTCTCACGCGAAGACCCCG 62.685 68.421 15.93 0.00 0.00 5.73
909 1215 2.507324 GCTCTCACGCGAAGACCC 60.507 66.667 15.93 3.49 0.00 4.46
1658 1997 1.200020 GCACGGGAGAATTTGGAACAG 59.800 52.381 0.00 0.00 42.39 3.16
1735 2074 9.621629 TTTTCAGAACTTAACTAACATTCCTGA 57.378 29.630 0.00 0.00 0.00 3.86
1828 2168 9.543783 AATTGAACGGAGTAGGTTATAAGAATC 57.456 33.333 0.00 0.00 45.00 2.52
1839 2179 4.215399 TGCTTGAAAATTGAACGGAGTAGG 59.785 41.667 0.00 0.00 45.00 3.18
1843 2183 4.610945 AGTTGCTTGAAAATTGAACGGAG 58.389 39.130 0.00 0.00 0.00 4.63
1847 2187 6.531240 TCTGTTGAGTTGCTTGAAAATTGAAC 59.469 34.615 0.00 0.00 0.00 3.18
1888 2228 9.625747 TTAGCATATCATCCAACAACAATTCTA 57.374 29.630 0.00 0.00 0.00 2.10
1913 2253 8.803235 GGTCCTTAAATCAGTTTACTGGAAATT 58.197 33.333 9.82 0.64 43.91 1.82
1956 2296 7.500559 GGTAGAGCCATTTCAGTAAATTGATCT 59.499 37.037 7.54 7.54 42.66 2.75
2132 2472 3.039588 TTCGGTTCAGCGGCGTTC 61.040 61.111 9.37 0.00 0.00 3.95
2133 2473 3.343421 GTTCGGTTCAGCGGCGTT 61.343 61.111 9.37 0.00 0.00 4.84
2139 2479 3.479269 CTCGGCGTTCGGTTCAGC 61.479 66.667 6.85 0.00 39.77 4.26
2140 2480 2.049433 ACTCGGCGTTCGGTTCAG 60.049 61.111 6.85 0.00 39.77 3.02
2141 2481 2.049802 GACTCGGCGTTCGGTTCA 60.050 61.111 6.85 0.00 39.77 3.18
2470 2813 4.400884 ACATGGTTAAAATATGCTCCGCAA 59.599 37.500 0.00 0.00 43.62 4.85
2501 2844 9.953565 GCAATGATACATACCTACCCTAATAAA 57.046 33.333 0.00 0.00 0.00 1.40
2542 2885 0.303493 CTGTCAACAACCAACCGTCG 59.697 55.000 0.00 0.00 0.00 5.12
2838 4565 0.823356 CCCTTATTGCCCGTGGGATG 60.823 60.000 9.72 0.00 40.23 3.51
2839 4566 1.536676 CCCTTATTGCCCGTGGGAT 59.463 57.895 9.72 0.00 40.23 3.85
2862 4589 2.979814 TCCATCCACCAGAATACACG 57.020 50.000 0.00 0.00 0.00 4.49
2980 4707 5.946942 ATACCTATCCTAGATGGTGCATG 57.053 43.478 0.00 0.00 37.07 4.06
3052 4779 9.327628 CTCTCAATGAATCAAGACATTAGACAT 57.672 33.333 0.00 0.00 35.39 3.06
3053 4780 8.316946 ACTCTCAATGAATCAAGACATTAGACA 58.683 33.333 0.00 0.00 35.39 3.41
3054 4781 8.715191 ACTCTCAATGAATCAAGACATTAGAC 57.285 34.615 0.00 0.00 35.39 2.59
3058 4785 8.446273 CGTTAACTCTCAATGAATCAAGACATT 58.554 33.333 3.71 0.00 37.22 2.71
3083 4810 7.603651 ACAATATAGCCTATCTAAGTGGAACG 58.396 38.462 0.00 0.00 45.86 3.95
3141 4868 6.750501 CGAATTGATCAAAAGATCACAAGCAT 59.249 34.615 13.09 0.00 40.84 3.79
3298 5028 6.046593 CAGTCGATTAATGGGCTAACACTAA 58.953 40.000 4.12 0.00 0.00 2.24
3302 5032 4.081365 TGTCAGTCGATTAATGGGCTAACA 60.081 41.667 4.09 4.09 0.00 2.41
3303 5033 4.439057 TGTCAGTCGATTAATGGGCTAAC 58.561 43.478 4.12 1.27 0.00 2.34
3332 5067 5.336929 CCATTTGACTTTGAGCCAATCATGA 60.337 40.000 0.00 0.00 37.89 3.07
3348 5083 1.401905 GCCGAGGATGTTCCATTTGAC 59.598 52.381 0.00 0.00 39.61 3.18
3351 5086 1.281867 TCAGCCGAGGATGTTCCATTT 59.718 47.619 7.30 0.00 39.61 2.32
3403 5140 1.064758 TGGTTGTCAGTGGCAGAACTT 60.065 47.619 0.00 0.00 0.00 2.66
3505 5242 7.522374 CACTGTTTACCAAAGAGAGATTAAGC 58.478 38.462 3.13 0.00 35.50 3.09
3607 5344 4.359706 GCGCCATGGTTTTTCCTTAATAG 58.640 43.478 14.67 0.00 37.07 1.73
3615 5352 0.455464 GGTACGCGCCATGGTTTTTC 60.455 55.000 14.67 0.00 0.00 2.29
3663 5400 4.280929 GTGACCTTCCTAATTTGTTTGCCT 59.719 41.667 0.00 0.00 0.00 4.75
3721 5460 4.238761 TCAAAACCAACACGAAAACACA 57.761 36.364 0.00 0.00 0.00 3.72
3772 5511 3.902261 TGCAACACAGCAGTAAATCTG 57.098 42.857 0.00 0.00 46.12 2.90
4029 5887 2.175878 ACAGAATATGGATCAGCGCC 57.824 50.000 2.29 0.00 0.00 6.53
4266 6124 4.462834 AGAAAGTATGTTAAAAGCAGGGCC 59.537 41.667 0.00 0.00 0.00 5.80
4288 6146 2.802816 CAAGTTCCTGAGGAAACGACAG 59.197 50.000 16.79 0.00 43.86 3.51
4354 6212 4.532521 AGATATGCTTATAGGGTTTCGCCT 59.467 41.667 0.00 0.00 37.43 5.52
4587 6445 7.554118 TCTTGATAAAGATCTTTTCCGCTTGAT 59.446 33.333 25.02 10.37 34.23 2.57
4590 6448 6.655003 TGTCTTGATAAAGATCTTTTCCGCTT 59.345 34.615 25.02 2.39 34.23 4.68
4705 6563 1.920835 GAGGCCAACCAGGAGGAGT 60.921 63.158 5.01 0.00 41.22 3.85
4716 6574 1.549203 GCTCATTCTTTGGAGGCCAA 58.451 50.000 5.01 0.00 42.29 4.52
4723 6584 0.322456 TCACGGGGCTCATTCTTTGG 60.322 55.000 0.00 0.00 0.00 3.28
4729 6590 0.400213 TTCAAGTCACGGGGCTCATT 59.600 50.000 0.00 0.00 0.00 2.57
4739 6600 1.518903 GCCTGCCTGGTTCAAGTCAC 61.519 60.000 0.00 0.00 38.35 3.67
4803 6664 2.900716 TGTTCGTCTCCACATTGTCA 57.099 45.000 0.00 0.00 0.00 3.58
5161 7024 7.880105 TGAACATCTATATCTACACAGCTGAG 58.120 38.462 23.35 16.23 0.00 3.35
5334 7203 0.969149 TGGTGTAGAGTGTGCAGGAG 59.031 55.000 0.00 0.00 0.00 3.69
5335 7204 1.344438 CTTGGTGTAGAGTGTGCAGGA 59.656 52.381 0.00 0.00 0.00 3.86
5339 7208 3.625764 TGTTTTCTTGGTGTAGAGTGTGC 59.374 43.478 0.00 0.00 0.00 4.57
5344 7214 3.058639 GCTGCTGTTTTCTTGGTGTAGAG 60.059 47.826 0.00 0.00 0.00 2.43
5375 7245 0.607217 ATCGAAAACCCCCGTGTTCC 60.607 55.000 0.00 0.00 33.22 3.62
5384 7254 1.940613 CGGAAGATCCATCGAAAACCC 59.059 52.381 0.00 0.00 35.91 4.11
5386 7256 2.629051 ACCGGAAGATCCATCGAAAAC 58.371 47.619 9.46 0.00 35.91 2.43
5392 7262 4.561105 GATCAACTACCGGAAGATCCATC 58.439 47.826 9.46 0.00 35.91 3.51
5404 7274 2.111384 TGCAGGAGAGGATCAACTACC 58.889 52.381 0.00 0.00 37.82 3.18
5420 7290 7.862873 TCTCACTATTAGACGATAATGTTGCAG 59.137 37.037 0.00 0.00 0.00 4.41
5430 7300 7.023171 AGGGAGTATCTCACTATTAGACGAT 57.977 40.000 0.00 0.00 43.12 3.73
5432 7302 5.644636 GGAGGGAGTATCTCACTATTAGACG 59.355 48.000 1.30 0.00 45.16 4.18
5434 7304 5.310068 ACGGAGGGAGTATCTCACTATTAGA 59.690 44.000 1.30 0.00 45.16 2.10
5435 7305 5.562635 ACGGAGGGAGTATCTCACTATTAG 58.437 45.833 1.30 0.00 45.16 1.73
5441 7311 1.334243 CGAACGGAGGGAGTATCTCAC 59.666 57.143 0.00 0.00 38.91 3.51
5443 7313 0.953003 CCGAACGGAGGGAGTATCTC 59.047 60.000 7.53 0.00 37.50 2.75
5445 7315 0.667453 GTCCGAACGGAGGGAGTATC 59.333 60.000 16.35 0.00 46.16 2.24
5446 7316 0.033796 TGTCCGAACGGAGGGAGTAT 60.034 55.000 16.35 0.00 46.16 2.12
5447 7317 0.962356 GTGTCCGAACGGAGGGAGTA 60.962 60.000 16.35 0.00 46.16 2.59
5448 7318 2.116772 TGTCCGAACGGAGGGAGT 59.883 61.111 16.35 0.00 46.16 3.85
5449 7319 1.812686 TTGTGTCCGAACGGAGGGAG 61.813 60.000 16.35 0.00 46.16 4.30
5450 7320 1.812686 CTTGTGTCCGAACGGAGGGA 61.813 60.000 16.35 1.12 46.16 4.20
5451 7321 1.374252 CTTGTGTCCGAACGGAGGG 60.374 63.158 16.35 2.09 46.16 4.30
5452 7322 2.027625 GCTTGTGTCCGAACGGAGG 61.028 63.158 16.35 6.08 46.16 4.30
5454 7324 0.179067 AAAGCTTGTGTCCGAACGGA 60.179 50.000 12.04 12.04 42.90 4.69
5455 7325 0.661020 AAAAGCTTGTGTCCGAACGG 59.339 50.000 0.00 6.94 0.00 4.44
5456 7326 2.372350 GAAAAAGCTTGTGTCCGAACG 58.628 47.619 0.00 0.00 0.00 3.95
5458 7328 1.332375 CCGAAAAAGCTTGTGTCCGAA 59.668 47.619 0.00 0.00 0.00 4.30
5460 7330 0.941542 TCCGAAAAAGCTTGTGTCCG 59.058 50.000 0.00 0.00 0.00 4.79
5461 7331 1.333791 CGTCCGAAAAAGCTTGTGTCC 60.334 52.381 0.00 0.00 0.00 4.02
5463 7333 1.375551 ACGTCCGAAAAAGCTTGTGT 58.624 45.000 0.00 0.00 0.00 3.72
5464 7334 2.096417 CCTACGTCCGAAAAAGCTTGTG 60.096 50.000 0.00 0.00 0.00 3.33
5465 7335 2.140717 CCTACGTCCGAAAAAGCTTGT 58.859 47.619 0.00 0.00 0.00 3.16
5466 7336 1.463444 CCCTACGTCCGAAAAAGCTTG 59.537 52.381 0.00 0.00 0.00 4.01
5469 7339 1.337541 ACTCCCTACGTCCGAAAAAGC 60.338 52.381 0.00 0.00 0.00 3.51
5470 7340 2.738013 ACTCCCTACGTCCGAAAAAG 57.262 50.000 0.00 0.00 0.00 2.27
5471 7341 2.890311 TGTACTCCCTACGTCCGAAAAA 59.110 45.455 0.00 0.00 0.00 1.94
5472 7342 2.513753 TGTACTCCCTACGTCCGAAAA 58.486 47.619 0.00 0.00 0.00 2.29
5474 7344 2.198827 TTGTACTCCCTACGTCCGAA 57.801 50.000 0.00 0.00 0.00 4.30
5475 7345 2.424601 CAATTGTACTCCCTACGTCCGA 59.575 50.000 0.00 0.00 0.00 4.55
5476 7346 2.424601 TCAATTGTACTCCCTACGTCCG 59.575 50.000 5.13 0.00 0.00 4.79
5477 7347 3.446516 ACTCAATTGTACTCCCTACGTCC 59.553 47.826 5.13 0.00 0.00 4.79
5478 7348 4.715527 ACTCAATTGTACTCCCTACGTC 57.284 45.455 5.13 0.00 0.00 4.34
5480 7350 4.081862 TGGAACTCAATTGTACTCCCTACG 60.082 45.833 5.13 0.00 0.00 3.51
5481 7351 5.416271 TGGAACTCAATTGTACTCCCTAC 57.584 43.478 5.13 0.00 0.00 3.18
5483 7353 4.807643 GCTTGGAACTCAATTGTACTCCCT 60.808 45.833 5.13 0.00 34.45 4.20
5484 7354 3.440522 GCTTGGAACTCAATTGTACTCCC 59.559 47.826 5.13 2.98 34.45 4.30
5488 7358 5.886960 ATCTGCTTGGAACTCAATTGTAC 57.113 39.130 5.13 0.00 34.45 2.90
5510 8631 3.752665 TGGTGGTTTTTCGCCTGTATTA 58.247 40.909 0.00 0.00 38.11 0.98
5526 8647 4.037923 AGTTGTCTGCAAAAACTATGGTGG 59.962 41.667 6.56 0.00 36.22 4.61
5528 8649 4.644685 ACAGTTGTCTGCAAAAACTATGGT 59.355 37.500 7.73 1.48 44.77 3.55
5533 8654 4.519540 ACAACAGTTGTCTGCAAAAACT 57.480 36.364 13.53 3.20 44.77 2.66
5539 8660 1.132834 CAGCAACAACAGTTGTCTGCA 59.867 47.619 32.30 0.00 44.59 4.41
5540 8661 1.133025 ACAGCAACAACAGTTGTCTGC 59.867 47.619 28.25 28.25 44.59 4.26
5571 8709 5.735023 TTCAAATGTGATCTAGAGCGCAGC 61.735 45.833 26.34 7.41 44.86 5.25
5573 8711 3.525268 TCAAATGTGATCTAGAGCGCA 57.475 42.857 24.97 24.97 41.67 6.09
5575 8713 6.653273 TTTCTTCAAATGTGATCTAGAGCG 57.347 37.500 3.11 0.00 32.48 5.03
5576 8714 9.286946 CAAATTTCTTCAAATGTGATCTAGAGC 57.713 33.333 0.00 0.00 38.96 4.09
5595 8733 2.095212 GCGTCTGGGTCCTTCAAATTTC 60.095 50.000 0.00 0.00 0.00 2.17
5698 8840 1.225704 GGGGATGAGAGTGCAAGGG 59.774 63.158 0.00 0.00 0.00 3.95
5703 8845 1.383803 AGGGAGGGGATGAGAGTGC 60.384 63.158 0.00 0.00 0.00 4.40
5955 9108 3.247563 ACAAGTTTCGCAACACGTATG 57.752 42.857 0.00 0.00 44.19 2.39
5983 9136 0.319297 ACGAGAACACGGCCTACAAC 60.319 55.000 0.00 0.00 37.61 3.32
5990 9143 1.623973 GCCACTAACGAGAACACGGC 61.624 60.000 0.00 0.00 37.61 5.68
5992 9145 0.662374 ACGCCACTAACGAGAACACG 60.662 55.000 0.00 0.00 39.31 4.49
6021 9174 1.138859 TGTATCAATGCCTCCACTCCG 59.861 52.381 0.00 0.00 0.00 4.63
6026 9179 4.517285 GAAGAACTGTATCAATGCCTCCA 58.483 43.478 0.00 0.00 0.00 3.86
6027 9180 3.557595 CGAAGAACTGTATCAATGCCTCC 59.442 47.826 0.00 0.00 0.00 4.30
6028 9181 4.184629 ACGAAGAACTGTATCAATGCCTC 58.815 43.478 0.00 0.00 0.00 4.70
6029 9182 4.081420 AGACGAAGAACTGTATCAATGCCT 60.081 41.667 0.00 0.00 0.00 4.75
6030 9183 4.184629 AGACGAAGAACTGTATCAATGCC 58.815 43.478 0.00 0.00 0.00 4.40
6037 9190 6.377429 TCCAACAGATAGACGAAGAACTGTAT 59.623 38.462 0.00 0.00 37.57 2.29
6074 9228 0.793104 GCGCAACAGTTACAATCGCC 60.793 55.000 0.30 0.00 35.71 5.54
6085 9239 2.621371 AAAAACCACGGGCGCAACAG 62.621 55.000 10.83 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.